""	"Hugo_Symbol"	"Entrez_Gene_Id"	"Center"	"NCBI_Build"	"Chromosome"	"Start_Position"	"End_Position"	"Strand"	"Variant_Classification"	"Variant_Type"	"Reference_Allele"	"Tumor_Seq_Allele1"	"Tumor_Seq_Allele2"	"dbSNP_RS"	"dbSNP_Val_Status"	"Tumor_Sample_Barcode"	"Matched_Norm_Sample_Barcode"	"Match_Norm_Seq_Allele1"	"Match_Norm_Seq_Allele2"	"Tumor_Validation_Allele1"	"Tumor_Validation_Allele2"	"Match_Norm_Validation_Allele1"	"Match_Norm_Validation_Allele2"	"Verification_Status"	"Validation_Status"	"Mutation_Status"	"Sequencing_Phase"	"Sequence_Source"	"Validation_Method"	"Score"	"BAM_File"	"Sequencer"	"Tumor_Sample_UUID"	"Matched_Norm_Sample_UUID"	"HGVSc"	"HGVSp"	"HGVSp_Short"	"Transcript_ID"	"Exon_Number"	"t_depth"	"t_ref_count"	"t_alt_count"	"n_depth"	"n_ref_count"	"n_alt_count"	"all_effects"	"Allele"	"Gene"	"Feature"	"Feature_type"	"Consequence"	"cDNA_position"	"CDS_position"	"Protein_position"	"Amino_acids"	"Codons"	"Existing_variation"	"ALLELE_NUM"	"DISTANCE"	"STRAND_VEP"	"SYMBOL"	"SYMBOL_SOURCE"	"HGNC_ID"	"BIOTYPE"	"CANONICAL"	"CCDS"	"ENSP"	"SWISSPROT"	"TREMBL"	"UNIPARC"	"RefSeq"	"SIFT"	"PolyPhen"	"EXON"	"INTRON"	"DOMAINS"	"GMAF"	"AFR_MAF"	"AMR_MAF"	"ASN_MAF"	"EAS_MAF"	"EUR_MAF"	"SAS_MAF"	"AA_MAF"	"EA_MAF"	"CLIN_SIG"	"SOMATIC"	"PUBMED"	"MOTIF_NAME"	"MOTIF_POS"	"HIGH_INF_POS"	"MOTIF_SCORE_CHANGE"	"IMPACT"	"PICK"	"VARIANT_CLASS"	"TSL"	"HGVS_OFFSET"	"PHENO"	"MINIMISED"	"ExAC_AF"	"ExAC_AF_AFR"	"ExAC_AF_AMR"	"ExAC_AF_EAS"	"ExAC_AF_FIN"	"ExAC_AF_NFE"	"ExAC_AF_OTH"	"ExAC_AF_SAS"	"GENE_PHENO"	"FILTER"	"flanking_bps"	"variant_id"	"variant_qual"	"ExAC_AF_Adj"	"ExAC_AC_AN_Adj"	"ExAC_AC_AN"	"ExAC_AC_AN_AFR"	"ExAC_AC_AN_AMR"	"ExAC_AC_AN_EAS"	"ExAC_AC_AN_FIN"	"ExAC_AC_AN_NFE"	"ExAC_AC_AN_OTH"	"ExAC_AC_AN_SAS"	"ExAC_FILTER"	"Coding"	"TumorVAF"	"Type"	"COSMIC"
"1"	"HORMAD1"	84072	"mskcc.org"	"GRCh37"	"1"	150680795	150680795	"+"	"Nonsense_Mutation"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.484C>T"	"p.Gln162Ter"	"p.Q162*"	"ENST00000361824"	"9/15"	76	"66"	10	46	"46"	0	"HORMAD1,stop_gained,p.Gln162Ter,ENST00000368993,;HORMAD1,stop_gained,p.Gln82Ter,ENST00000368995,;HORMAD1,stop_gained,p.Gln155Ter,ENST00000322343,NM_001199829.1;HORMAD1,stop_gained,p.Gln162Ter,ENST00000361824,NM_032132.4;HORMAD1,stop_gained,p.Gln91Ter,ENST00000368987,;HORMAD1,stop_gained,p.Gln84Ter,ENST00000442853,;HORMAD1,upstream_gene_variant,,ENST00000470397,;HORMAD1,upstream_gene_variant,,ENST00000486497,;"	"A"	"ENSG00000143452"	"ENST00000361824"	"Transcript"	"stop_gained"	"590/1692"	"484/1185"	"162/394"	"Q/*"	"Caa/Taa"	""	"1"	NA	-1	"HORMAD1"	"HGNC"	25245	"protein_coding"	"YES"	"CCDS967.1"	"ENSP00000355167"	"Q86X24"	""	"UPI000000DBE5"	"NM_032132.4"	""	""	"9/15"	""	"Superfamily_domains:0040144,Gene3D:1go4B00,Pfam_domain:PF02301,hmmpanther:PTHR21518:SF4,hmmpanther:PTHR21518,PROSITE_profiles:PS50815"	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"HIGH"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"279a5cfe-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.131578947368421	"WXS"	FALSE
"2"	"GRIN2B"	2904	"mskcc.org"	"GRCh37"	"12"	13906474	13906474	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.787G>A"	"p.Ala263Thr"	"p.A263T"	"ENST00000609686"	"3/13"	221	"197"	24	99	"99"	0	"GRIN2B,missense_variant,p.Ala263Thr,ENST00000609686,NM_000834.3;"	"T"	"ENSG00000273079"	"ENST00000609686"	"Transcript"	"missense_variant"	"997/27217"	"787/4455"	"263/1484"	"A/T"	"Gca/Aca"	""	"1"	NA	-1	"GRIN2B"	"HGNC"	4586	"protein_coding"	"YES"	"CCDS8662.1"	"ENSP00000477455"	"Q13224"	"Q59HA9"	"UPI000013026C"	"NM_000834.3"	"tolerated(0.74)"	"probably_damaging(0.973)"	"3/13"	""	"hmmpanther:PTHR18966,hmmpanther:PTHR18966:SF16,Pfam_domain:PF01094,Gene3D:3.40.50.2300,Superfamily_domains:SSF53822"	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"279b05aa-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.108597285067873	"WXS"	FALSE
"3"	"CNTN1"	1272	"mskcc.org"	"GRCh37"	"12"	41318415	41318415	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.457G>C"	"p.Gly153Arg"	"p.G153R"	"ENST00000551295"	"6/24"	210	"187"	23	119	"119"	0	"CNTN1,missense_variant,p.Gly153Arg,ENST00000551295,NM_001843.3;CNTN1,missense_variant,p.Gly153Arg,ENST00000347616,;CNTN1,missense_variant,p.Gly142Arg,ENST00000348761,NM_175038.2;CNTN1,missense_variant,p.Gly153Arg,ENST00000547849,NM_001256064.1;CNTN1,missense_variant,p.Gly153Arg,ENST00000547702,NM_001256063.1;CNTN1,missense_variant,p.Gly153Arg,ENST00000360099,;CNTN1,downstream_gene_variant,,ENST00000548005,;CNTN1,downstream_gene_variant,,ENST00000552248,;"	"C"	"ENSG00000018236"	"ENST00000551295"	"Transcript"	"missense_variant"	"574/5557"	"457/3057"	"153/1018"	"G/R"	"Gga/Cga"	""	"1"	NA	1	"CNTN1"	"HGNC"	2171	"protein_coding"	"YES"	"CCDS8737.1"	"ENSP00000447006"	"Q12860"	"F8VX96,F8VUI9,F8VUI8,F8VQW3"	"UPI0000127EBA"	"NM_001843.3"	"deleterious(0)"	"probably_damaging(1)"	"6/24"	""	"Superfamily_domains:SSF48726,SMART_domains:SM00409,Pfam_domain:PF13895,Gene3D:2.60.40.10,hmmpanther:PTHR10489,hmmpanther:PTHR10489:SF531,PROSITE_profiles:PS50835"	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"279b0c12-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.10952380952381	"WXS"	FALSE
"4"	"KRT86"	3892	"mskcc.org"	"GRCh37"	"12"	52695819	52695819	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.119G>A"	"p.Gly40Asp"	"p.G40D"	"ENST00000293525"	"1/9"	71	"60"	11	35	"35"	0	"KRT86,missense_variant,p.Gly40Asp,ENST00000293525,NM_002284.3;KRT86,missense_variant,p.Gly40Asp,ENST00000544024,;KRT86,missense_variant,p.Gly40Asp,ENST00000423955,;KRT86,missense_variant,p.Gly40Asp,ENST00000553310,;RP11-845M18.6,downstream_gene_variant,,ENST00000552441,;"	"A"	"ENSG00000170442"	"ENST00000293525"	"Transcript"	"missense_variant"	"171/2091"	"119/1461"	"40/486"	"G/D"	"gGc/gAc"	""	"1"	NA	1	"KRT86"	"HGNC"	6463	"protein_coding"	"YES"	"CCDS41785.1"	"ENSP00000293525"	"O43790"	"U3KPR1,Q9NSB0,Q8NFV1,Q8N120"	"UPI000006E57E"	"NM_002284.3"	"deleterious(0)"	"probably_damaging(0.999)"	"1/9"	""	"hmmpanther:PTHR23239,hmmpanther:PTHR23239:SF143"	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"279b10b8-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.154929577464789	"WXS"	FALSE
"5"	"CRYBA1"	1411	"mskcc.org"	"GRCh37"	"17"	27580801	27580801	"+"	"Splice_Site"	"SNP"	"G"	"G"	"A"	"rs775038545"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.500+1G>A"	""	"p.X167_splice"	"ENST00000225387"	""	184	"154"	30	102	"102"	0	"CRYBA1,splice_donor_variant,,ENST00000225387,NM_005208.4;NUFIP2,downstream_gene_variant,,ENST00000225388,NM_020772.2;CRYBA1,splice_donor_variant,,ENST00000484605,;"	"A"	"ENSG00000108255"	"ENST00000225387"	"Transcript"	"splice_donor_variant"	"-/783"	"500/648"	"167/215"	""	""	"rs775038545"	"1"	NA	1	"CRYBA1"	"HGNC"	2394	"protein_coding"	"YES"	"CCDS11249.1"	"ENSP00000225387"	"P05813"	""	"UPI00001283CF"	"NM_005208.4"	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"HIGH"	"1"	"SNV"	NA	NA	NA	"1"	"2.825e-05"	"0"	"9.022e-05"	"0.0001291"	"0"	"0"	"0"	"6.164e-05"	"1"	"PASS"	"CGT"	"279bdc1e-277e-11e6-bb95-95d1414a729f"	"."	2.855e-05	"3/105064"	"3/106210"	"0/8922"	"1/11084"	"1/7744"	"0/6592"	"0/53808"	"0/690"	"1/16224"	"PASS"	"TRUE"	0.16304347826087	"WXS"	FALSE
"6"	"ECH1"	1891	"mskcc.org"	"GRCh37"	"19"	39322145	39322145	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.64T>G"	"p.Ser22Ala"	"p.S22A"	"ENST00000221418"	"2/10"	104	"83"	21	115	"115"	0	"ECH1,missense_variant,p.Ser22Ala,ENST00000221418,NM_001398.2;AC104534.3,missense_variant,p.Ser192Ala,ENST00000594769,;ECH1,missense_variant,p.Ser19Ala,ENST00000601778,;ECH1,missense_variant,p.Ser22Ala,ENST00000595470,;ECH1,missense_variant,p.Ser52Ala,ENST00000602115,;ECH1,5_prime_UTR_variant,,ENST00000601094,;ECH1,5_prime_UTR_variant,,ENST00000595567,;AC104534.3,intron_variant,,ENST00000602021,;ECH1,intron_variant,,ENST00000597205,;HNRNPL,downstream_gene_variant,,ENST00000221419,NM_001533.2;HNRNPL,downstream_gene_variant,,ENST00000601449,;ECH1,intron_variant,,ENST00000597805,;ECH1,missense_variant,p.Leu30Arg,ENST00000594164,;ECH1,non_coding_transcript_exon_variant,,ENST00000600178,;ECH1,non_coding_transcript_exon_variant,,ENST00000598707,;ECH1,non_coding_transcript_exon_variant,,ENST00000601060,;ECH1,non_coding_transcript_exon_variant,,ENST00000598316,;HNRNPL,downstream_gene_variant,,ENST00000597731,;HNRNPL,downstream_gene_variant,,ENST00000595164,;HNRNPL,downstream_gene_variant,,ENST00000595443,;HNRNPL,downstream_gene_variant,,ENST00000388749,;HNRNPL,downstream_gene_variant,,ENST00000595804,;ECH1,upstream_gene_variant,,ENST00000596118,;ECH1,upstream_gene_variant,,ENST00000597089,;"	"C"	"ENSG00000104823"	"ENST00000221418"	"Transcript"	"missense_variant"	"297/1411"	"64/987"	"22/328"	"S/A"	"Tcc/Gcc"	""	"1"	NA	-1	"ECH1"	"HGNC"	3149	"protein_coding"	"YES"	"CCDS33014.1"	"ENSP00000221418"	"Q13011"	"M0QXS7"	"UPI0000071141"	"NM_001398.2"	"tolerated_low_confidence(0.2)"	"benign(0.005)"	"2/10"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"279c2746-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.201923076923077	"WXS"	FALSE
"7"	"ZNF616"	90317	"mskcc.org"	"GRCh37"	"19"	52618258	52618258	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2159T>C"	"p.Ile720Thr"	"p.I720T"	"ENST00000600228"	"4/4"	325	"282"	43	215	"215"	0	"ZNF616,missense_variant,p.Ile720Thr,ENST00000600228,NM_178523.3;ZNF616,3_prime_UTR_variant,,ENST00000330123,;ZNF616,downstream_gene_variant,,ENST00000596290,;CTC-471J1.10,upstream_gene_variant,,ENST00000603942,;"	"G"	"ENSG00000204611"	"ENST00000600228"	"Transcript"	"missense_variant"	"2421/4335"	"2159/2346"	"720/781"	"I/T"	"aTt/aCt"	""	"1"	NA	-1	"ZNF616"	"HGNC"	28062	"protein_coding"	"YES"	"CCDS33090.1"	"ENSP00000471000"	"Q08AN1"	"M0QXF0"	"UPI0000140D49"	"NM_178523.3"	"tolerated(0.28)"	"benign(0)"	"4/4"	""	"Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF275,SMART_domains:SM00355,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667"	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"279c3790-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.132307692307692	"WXS"	FALSE
"8"	"RTN4R"	65078	"mskcc.org"	"GRCh37"	"22"	20229913	20229913	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.743C>T"	"p.Pro248Leu"	"p.P248L"	"ENST00000043402"	"2/2"	155	"135"	20	120	"120"	0	"RTN4R,missense_variant,p.Pro248Leu,ENST00000043402,NM_023004.5;RTN4R,missense_variant,p.Pro334Leu,ENST00000425986,;RTN4R,missense_variant,p.Pro268Leu,ENST00000416372,;RTN4R,downstream_gene_variant,,ENST00000469601,;RTN4R,downstream_gene_variant,,ENST00000474642,;RTN4R,downstream_gene_variant,,ENST00000463936,;"	"A"	"ENSG00000040608"	"ENST00000043402"	"Transcript"	"missense_variant"	"1182/2157"	"743/1422"	"248/473"	"P/L"	"cCc/cTc"	""	"1"	NA	-1	"RTN4R"	"HGNC"	18601	"protein_coding"	"YES"	"CCDS13777.1"	"ENSP00000043402"	"Q9BZR6"	""	"UPI0000034D62"	"NM_023004.5"	"tolerated(0.14)"	"possibly_damaging(0.53)"	"2/2"	""	"Gene3D:3.80.10.10,PROSITE_profiles:PS51450,hmmpanther:PTHR24369,hmmpanther:PTHR24369:SF24,SMART_domains:SM00369,Superfamily_domains:SSF52058"	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"279cbcc4-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.129032258064516	"WXS"	FALSE
"9"	"FAM184B"	27146	"mskcc.org"	"GRCh37"	"4"	17711165	17711165	"+"	"Missense_Mutation"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.244A>C"	"p.Lys82Gln"	"p.K82Q"	"ENST00000265018"	"2/18"	121	"107"	14	62	"62"	0	"FAM184B,missense_variant,p.Lys82Gln,ENST00000265018,NM_015688.1;"	"G"	"ENSG00000047662"	"ENST00000265018"	"Transcript"	"missense_variant"	"457/6622"	"244/3183"	"82/1060"	"K/Q"	"Aag/Cag"	""	"1"	NA	-1	"FAM184B"	"HGNC"	29235	"protein_coding"	"YES"	"CCDS47033.1"	"ENSP00000265018"	"Q9ULE4"	""	"UPI000020BD7C"	"NM_015688.1"	"tolerated(0.19)"	"benign(0.068)"	"2/18"	""	"Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18870:SF8,hmmpanther:PTHR18870"	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"279d079c-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.115702479338843	"WXS"	FALSE
"10"	"FREM1"	158326	"mskcc.org"	"GRCh37"	"9"	14868898	14868898	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.78C>G"	"p.Ile26Met"	"p.I26M"	"ENST00000422223"	"3/38"	218	"195"	23	98	"98"	0	"FREM1,missense_variant,p.Ile26Met,ENST00000380881,;FREM1,missense_variant,p.Ile26Met,ENST00000422223,NM_144966.5;FREM1,missense_variant,p.Ile26Met,ENST00000380880,;FREM1,missense_variant,p.Ile26Met,ENST00000380875,;"	"C"	"ENSG00000164946"	"ENST00000422223"	"Transcript"	"missense_variant"	"894/10086"	"78/6540"	"26/2179"	"I/M"	"atC/atG"	""	"1"	NA	-1	"FREM1"	"HGNC"	23399	"protein_coding"	"YES"	"CCDS47952.1"	"ENSP00000412940"	"Q5H8C1"	""	"UPI000057A218"	"NM_144966.5"	"deleterious(0)"	"possibly_damaging(0.563)"	"3/38"	""	"hmmpanther:PTHR11878,hmmpanther:PTHR11878:SF24,Transmembrane_helices:TMhelix"	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"279deebe-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.105504587155963	"WXS"	FALSE
"11"	"GPR107"	57720	"mskcc.org"	"GRCh37"	"9"	132890974	132890974	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	"rs749343893"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1640G>A"	"p.Arg547His"	"p.R547H"	"ENST00000372406"	"19/20"	138	"113"	25	89	"89"	0	"GPR107,missense_variant,p.Arg547His,ENST00000372406,NM_001136557.1;GPR107,missense_variant,p.Arg499His,ENST00000347136,NM_020960.4;GPR107,missense_variant,p.Arg518His,ENST00000372410,NM_001136558.1;GPR107,upstream_gene_variant,,ENST00000415344,;GPR107,downstream_gene_variant,,ENST00000483935,;GPR107,3_prime_UTR_variant,,ENST00000493417,NM_001287346.1;"	"A"	"ENSG00000148358"	"ENST00000372406"	"Transcript"	"missense_variant"	"2147/7353"	"1640/1803"	"547/600"	"R/H"	"cGt/cAt"	"rs749343893"	"1"	NA	1	"GPR107"	"HGNC"	17830	"protein_coding"	"YES"	"CCDS48041.1"	"ENSP00000361483"	"Q5VW38"	"B7ZL93"	"UPI00004589E0"	"NM_001136557.1"	"deleterious(0)"	"probably_damaging(0.977)"	"19/20"	""	"hmmpanther:PTHR21229:SF12,hmmpanther:PTHR21229,Pfam_domain:PF06814"	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	"1.883e-05"	"0"	"0"	"0.0001272"	"0"	"1.84e-05"	"0"	"0"	NA	"PASS"	"CGT"	"279e1132-277e-11e6-bb95-95d1414a729f"	"."	1.884e-05	"2/106178"	"2/106210"	"0/9052"	"0/11214"	"1/7862"	"0/6614"	"1/54336"	"0/694"	"0/16406"	"PASS"	"TRUE"	0.181159420289855	"WXS"	FALSE
"12"	"DOCK7"	85440	"mskcc.org"	"GRCh37"	"1"	63044645	63044645	"+"	"Splice_Region"	"DEL"	"C"	"C"	"-"	"rs370717862"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1872-8delG"	""	""	"ENST00000340370"	""	102	"."	4	51	"."	0	"DOCK7,splice_region_variant,,ENST00000251157,NM_001272001.1,NM_001271999.1;DOCK7,splice_region_variant,,ENST00000340370,NM_033407.3,NM_001272000.1;"	"-"	"ENSG00000116641"	"ENST00000340370"	"Transcript"	"splice_region_variant,intron_variant"	"-/6864"	"-/6330"	"-/2109"	""	""	"rs370717862"	"1"	NA	-1	"DOCK7"	"HGNC"	19190	"protein_coding"	"YES"	"CCDS30734.1"	"ENSP00000340742"	"Q96N67"	""	"UPI000044FEA9"	"NM_033407.3,NM_001272000.1"	NA	NA	""	"16/48"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	NA	"1"	"0.001542"	"0.001301"	"0.00124"	"0.002559"	"0.001016"	"0.001132"	"0"	"0.001624"	"1"	"common_variant"	"TACA"	"40f9e922-2764-11e6-8bcb-94fe414a729f"	"240"	0.00131	"110/83974"	"163/105704"	"9/6916"	"12/9680"	"16/6252"	"6/5904"	"50/44186"	"0/570"	"17/10466"	"VQSRTrancheINDEL99.50to99.90"	"TRUE"	0.0392156862745098	"WXS"	FALSE
"13"	"MLK4"	84451	"mskcc.org"	"GRCh37"	"1"	233489706	233489707	"+"	"Splice_Region"	"DEL"	"TG"	"TG"	"-"	"rs367946480"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1135+22_1135+23delGT"	""	""	"ENST00000366624"	""	267	"."	10	146	"."	0	"MLK4,splice_region_variant,,ENST00000366624,NM_032435.2;MLK4,splice_region_variant,,ENST00000366623,;"	"-"	"ENSG00000143674"	"ENST00000366624"	"Transcript"	"splice_region_variant,intron_variant"	"-/5809"	"-/3111"	"-/1036"	""	""	"rs367946480"	"1"	NA	1	"MLK4"	"Uniprot_gn"	NA	"protein_coding"	"YES"	"CCDS1598.1"	"ENSP00000355583"	"Q5TCX8"	""	"UPI000013D922"	"NM_032435.2"	NA	NA	""	"3/9"	""	"-:0.0108"	"-:0.0129"	"-:0.0115"	NA	"-:0.005"	"-:0.007"	"-:0.0174"	""	""	NA	NA	""	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	"17"	NA	"1"	"0.1078"	"0.09644"	"0.04627"	"0.1052"	"0.1077"	"0.1238"	"0.1188"	"0.1023"	NA	"common_variant"	"ATTGT"	"60f13b18-2764-11e6-8bcb-94fe414a729f"	"600"	0.1074	"10359/96450"	"11448/106190"	"828/8586"	"498/10764"	"780/7412"	"672/6240"	"6218/50220"	"72/606"	"1291/12622"	"PASS"	"TRUE"	0.0374531835205993	"WXS"	FALSE
"14"	"RTKN2"	219790	"mskcc.org"	"GRCh37"	"10"	63977011	63977015	"+"	"Splice_Region"	"DEL"	"GAAAA"	"GAAAA"	"-"	"rs369452617"	NA	"JHCCPT1"	"JHCCPN1"	"GAAAA"	"GAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.889-7_889-3delTTTTC"	""	""	"ENST00000373789"	""	201	"."	3	102	"."	0	"RTKN2,splice_region_variant,,ENST00000373789,NM_145307.2;RTKN2,splice_region_variant,,ENST00000315289,;RTKN2,splice_region_variant,,ENST00000395265,;"	"-"	"ENSG00000182010"	"ENST00000373789"	"Transcript"	"splice_region_variant,intron_variant"	"-/6641"	"-/1830"	"-/609"	""	""	"rs369452617"	"1"	NA	-1	"RTKN2"	"HGNC"	19364	"protein_coding"	"YES"	"CCDS7263.1"	"ENSP00000362894"	"Q8IZC4"	""	"UPI000007413A"	"NM_145307.2"	NA	NA	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGAAAAA"	"3afba344-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0149253731343284	"WXS"	FALSE
"15"	"ZNF195"	7748	"mskcc.org"	"GRCh37"	"11"	3381798	3381798	"+"	"Splice_Region"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.443-3delC"	""	""	"ENST00000399602"	""	303	"."	3	179	"."	0	"ZNF195,splice_region_variant,,ENST00000354599,NM_007152.4,NM_001256825.1,NM_001242843.1;ZNF195,splice_region_variant,,ENST00000429541,;ZNF195,splice_region_variant,,ENST00000399602,NM_001130520.2;ZNF195,splice_region_variant,,ENST00000343338,;ZNF195,splice_region_variant,,ENST00000005082,NM_001130519.2;ZNF195,splice_region_variant,,ENST00000526601,NM_001242841.1;ZNF195,splice_region_variant,,ENST00000438262,;ZNF195,splice_region_variant,,ENST00000528410,;ZNF195,splice_region_variant,,ENST00000533036,;ZNF195,splice_region_variant,,ENST00000529678,;ZNF195,splice_region_variant,,ENST00000427810,;ZNF195,intron_variant,,ENST00000528796,;ZNF195,downstream_gene_variant,,ENST00000534569,;ZNF195,splice_region_variant,,ENST00000528636,;ZNF195,downstream_gene_variant,,ENST00000524857,;ZNF195,downstream_gene_variant,,ENST00000330692,;ZNF195,splice_region_variant,,ENST00000528218,;ZNF195,splice_region_variant,,ENST00000525313,;ZNF195,splice_region_variant,,ENST00000526540,;ZNF195,splice_region_variant,,ENST00000526598,;ZNF195,splice_region_variant,,ENST00000529789,;ZNF195,splice_region_variant,,ENST00000529228,;ZNF195,downstream_gene_variant,,ENST00000530643,;"	"-"	"ENSG00000005801"	"ENST00000399602"	"Transcript"	"splice_region_variant,intron_variant"	"-/2369"	"-/1890"	"-/629"	""	""	""	"1"	NA	-1	"ZNF195"	"HGNC"	12986	"protein_coding"	"YES"	"CCDS44522.1"	"ENSP00000382511"	"O14628"	""	"UPI0000D6258D"	"NM_001130520.2"	NA	NA	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGA"	"304739d6-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"TRUE"	0.0099009900990099	"WXS"	FALSE
"16"	"VSIG2"	23584	"mskcc.org"	"GRCh37"	"11"	124619766	124619768	"+"	"Splice_Region"	"DEL"	"CAA"	"CAA"	"-"	"rs752389240"	NA	"JHCCPT1"	"JHCCPN1"	"CAA"	"CAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.428-6_428-4delTTG"	""	""	"ENST00000326621"	""	122	"."	3	71	"."	0	"VSIG2,splice_region_variant,,ENST00000403470,;VSIG2,splice_region_variant,,ENST00000326621,NM_014312.3;ESAM,downstream_gene_variant,,ENST00000278927,NM_138961.2;NRGN,downstream_gene_variant,,ENST00000284292,NM_001126181.1,NM_006176.2;NRGN,downstream_gene_variant,,ENST00000412681,;ESAM,downstream_gene_variant,,ENST00000442070,;ESAM,downstream_gene_variant,,ENST00000435477,;ESAM,downstream_gene_variant,,ENST00000444566,;RP11-677M14.2,upstream_gene_variant,,ENST00000531241,;ESAM,downstream_gene_variant,,ENST00000464067,;ESAM,downstream_gene_variant,,ENST00000485116,;ESAM,downstream_gene_variant,,ENST00000417453,;"	"-"	"ENSG00000019102"	"ENST00000326621"	"Transcript"	"splice_region_variant,intron_variant"	"-/1148"	"-/984"	"-/327"	""	""	"rs752389240"	"1"	NA	-1	"VSIG2"	"HGNC"	17149	"protein_coding"	"YES"	"CCDS8452.1"	"ENSP00000318684"	"Q96IQ7"	""	"UPI0000035BBB"	"NM_014312.3"	NA	NA	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	NA	"1"	"7.971e-05"	"0"	"0"	"0.001597"	"0.002083"	"0.0006499"	"0"	"0.001475"	NA	"PASS"	"TGCAAA"	"47429afe-2764-11e6-8c6e-9077424a729f"	"180"	0.000773	"6/7762"	"8/100360"	"0/714"	"0/600"	"1/626"	"1/480"	"3/4616"	"0/48"	"1/678"	"PASS"	"TRUE"	0.0245901639344262	"WXS"	FALSE
"17"	"SNX19"	399979	"mskcc.org"	"GRCh37"	"11"	130780269	130780269	"+"	"Splice_Region"	"DEL"	"C"	"C"	"-"	"rs372369099"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1814-4delG"	""	""	"ENST00000265909"	""	205	"."	4	111	"."	0	"SNX19,splice_region_variant,,ENST00000265909,NM_014758.2;SNX19,splice_region_variant,,ENST00000533214,;SNX19,splice_region_variant,,ENST00000530356,;SNX19,splice_region_variant,,ENST00000539184,;SNX19,splice_region_variant,,ENST00000528555,;SNX19,upstream_gene_variant,,ENST00000534726,;SNX19,upstream_gene_variant,,ENST00000545537,;SNX19,splice_region_variant,,ENST00000533318,;SNX19,upstream_gene_variant,,ENST00000526579,;SNX19,upstream_gene_variant,,ENST00000524460,;SNX19,splice_region_variant,,ENST00000531608,;SNX19,upstream_gene_variant,,ENST00000527451,;"	"-"	"ENSG00000120451"	"ENST00000265909"	"Transcript"	"splice_region_variant,intron_variant"	"-/6535"	"-/2979"	"-/992"	""	""	"rs372369099"	"1"	NA	-1	"SNX19"	"HGNC"	21532	"protein_coding"	"YES"	"CCDS31721.1"	"ENSP00000265909"	"Q92543"	"E9PLV3,E9PJV7"	"UPI000013D6A5"	"NM_014758.2"	NA	NA	""	"2/10"	""	"-:0.1430"	"-:0.1573"	"-:0.1254"	NA	"-:0.1488"	"-:0.1083"	"-:0.1656"	""	""	NA	NA	""	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	NA	"1"	"0.2795"	"0.3286"	"0.3392"	"0.3281"	"0.2387"	"0.2855"	"0.2647"	"0.3047"	NA	"common_variant"	"TTCC"	"485146f2-2764-11e6-8c6e-9077424a729f"	"240"	0.2973	"21253/71476"	"29520/105624"	"1785/5432"	"2519/7426"	"1777/5416"	"1118/4684"	"10568/37016"	"126/476"	"3360/11026"	"InbreedingCoeff_Filter"	"TRUE"	0.0195121951219512	"WXS"	FALSE
"18"	"MDM1"	56890	"mskcc.org"	"GRCh37"	"12"	68696660	68696668	"+"	"Splice_Region"	"DEL"	"ACAAAAAAA"	"ACAAAAAAA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ACAAAAAAA"	"ACAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1720-16_1720-8delTTTTTTTGT"	""	""	"ENST00000303145"	""	112	"."	3	46	"."	0	"MDM1,splice_region_variant,,ENST00000303145,NM_017440.4;MDM1,splice_region_variant,,ENST00000540418,;MDM1,splice_region_variant,,ENST00000411698,NM_001205028.1;MDM1,upstream_gene_variant,,ENST00000539972,;MDM1,splice_region_variant,,ENST00000536313,;"	"-"	"ENSG00000111554"	"ENST00000303145"	"Transcript"	"splice_region_variant,intron_variant"	"-/2918"	"-/2145"	"-/714"	""	""	""	"1"	NA	-1	"MDM1"	"HGNC"	29917	"protein_coding"	"YES"	"CCDS8983.1"	"ENSP00000302537"	"Q8TC05"	"F5H804"	"UPI00001FC70C"	"NM_017440.4"	NA	NA	""	"11/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGACAAAAAAAA"	"44e37152-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL99.00to99.50"	"TRUE"	0.0267857142857143	"WXS"	FALSE
"19"	"CCNB2"	9133	"mskcc.org"	"GRCh37"	"15"	59399518	59399518	"+"	"Splice_Region"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.25-3delC"	""	""	"ENST00000288207"	""	86	"."	3	36	"."	0	"CCNB2,splice_region_variant,,ENST00000288207,NM_004701.3;CCNB2,intron_variant,,ENST00000559622,;CCNB2,splice_region_variant,,ENST00000561077,;"	"-"	"ENSG00000157456"	"ENST00000288207"	"Transcript"	"splice_region_variant,intron_variant"	"-/1556"	"-/1197"	"-/398"	""	""	""	"1"	NA	1	"CCNB2"	"HGNC"	1580	"protein_coding"	"YES"	"CCDS10170.1"	"ENSP00000288207"	"O95067"	""	"UPI00001275B3"	"NM_004701.3"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCA"	"38647b9c-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL99.50to99.90"	"TRUE"	0.0348837209302326	"WXS"	FALSE
"20"	"MTFMT"	123263	"mskcc.org"	"GRCh37"	"15"	65312614	65312614	"+"	"Splice_Region"	"DEL"	"C"	"C"	"-"	"rs368210383"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.646-4delG"	""	""	"ENST00000220058"	""	176	"."	3	97	"."	0	"MTFMT,splice_region_variant,,ENST00000220058,NM_139242.3;MTFMT,downstream_gene_variant,,ENST00000561025,;MTFMT,splice_region_variant,,ENST00000558460,;MTFMT,splice_region_variant,,ENST00000543678,;MTFMT,splice_region_variant,,ENST00000560717,;MTFMT,splice_region_variant,,ENST00000558614,;"	"-"	"ENSG00000103707"	"ENST00000220058"	"Transcript"	"splice_region_variant,intron_variant"	"-/1739"	"-/1170"	"-/389"	""	""	"rs368210383"	"1"	NA	-1	"MTFMT"	"HGNC"	29666	"protein_coding"	"YES"	"CCDS45280.1"	"ENSP00000220058"	"Q96DP5"	"H3BTN9"	"UPI000003B018"	"NM_139242.3"	NA	NA	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	NA	"1"	"0.001548"	"0.002828"	"0.002785"	"0.003403"	"0.0004643"	"0.001628"	"0.00495"	"0.001243"	"1"	"common_variant"	"TACA"	"3aa56f56-2764-11e6-a0e1-9add414a729f"	"180"	0.001811	"108/59636"	"160/103346"	"12/4244"	"13/4668"	"15/4408"	"2/4308"	"52/31948"	"2/404"	"12/9656"	"VQSRTrancheINDEL99.50to99.90"	"TRUE"	0.0170454545454545	"WXS"	FALSE
"21"	"SLC12A3"	6559	"mskcc.org"	"GRCh37"	"16"	56926968	56926969	"+"	"Splice_Region"	"INS"	"-"	"-"	"CACA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2548+4_2548+5insCACA"	""	""	"ENST00000438926"	""	106	"."	7	83	"."	0	"SLC12A3,splice_region_variant,,ENST00000438926,NM_001126108.1,NM_000339.2,NM_001126107.1;SLC12A3,splice_region_variant,,ENST00000262502,;SLC12A3,splice_region_variant,,ENST00000563236,;SLC12A3,splice_region_variant,,ENST00000566786,;"	"CACA"	"ENSG00000070915"	"ENST00000438926"	"Transcript"	"splice_region_variant,intron_variant"	"-/5567"	"-/3093"	"-/1030"	""	""	""	"1"	NA	1	"SLC12A3"	"HGNC"	10912	"protein_coding"	"YES"	"CCDS10770.1"	"ENSP00000402152"	"P55017"	""	"UPI00001FF243"	"NM_001126108.1,NM_000339.2,NM_001126107.1"	NA	NA	""	"21/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"LOW"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTC"	"4ae16744-2764-11e6-a260-9cdd414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0660377358490566	"WXS"	FALSE
"22"	"PREPL"	9581	"mskcc.org"	"GRCh37"	"2"	44569696	44569698	"+"	"Splice_Region"	"DEL"	"AAG"	"AAG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.617-7_617-5delCTT"	""	""	"ENST00000409936"	""	86	"."	3	45	"."	0	"PREPL,splice_region_variant,,ENST00000541738,NM_001171617.1;PREPL,splice_region_variant,,ENST00000409936,NM_001171606.1;PREPL,splice_region_variant,,ENST00000409411,NM_001171613.1;PREPL,splice_region_variant,,ENST00000409957,;PREPL,splice_region_variant,,ENST00000260648,NM_006036.4;PREPL,splice_region_variant,,ENST00000410081,;PREPL,splice_region_variant,,ENST00000409272,NM_001171603.1;PREPL,splice_region_variant,,ENST00000378511,NM_001042385.2;PREPL,splice_region_variant,,ENST00000378520,NM_001042386.2;PREPL,downstream_gene_variant,,ENST00000438314,;PREPL,downstream_gene_variant,,ENST00000540817,;PREPL,downstream_gene_variant,,ENST00000477410,;PREPL,splice_region_variant,,ENST00000426481,;PREPL,splice_region_variant,,ENST00000425263,;"	"-"	"ENSG00000138078"	"ENST00000409936"	"Transcript"	"splice_region_variant,intron_variant"	"-/5212"	"-/2184"	"-/727"	""	""	""	"1"	NA	-1	"PREPL"	"HGNC"	30228	"protein_coding"	"YES"	"CCDS33190.1"	"ENSP00000386543"	"Q4J6C6"	"C9JMT4"	"UPI0000208358"	"NM_001171606.1"	NA	NA	""	"5/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAAAGA"	"34ca9caa-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0348837209302326	"WXS"	FALSE
"23"	"TNFAIP6"	7130	"mskcc.org"	"GRCh37"	"2"	152236045	152236045	"+"	"Frame_Shift_Del"	"DEL"	"T"	"T"	"-"	"rs753076336"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.832delT"	"p.Ter278Lys"	"p.*278K"	"ENST00000243347"	"6/6"	144	"."	5	84	"."	0	"TNFAIP6,frameshift_variant,p.Ter278Lys,ENST00000243347,NM_007115.3;"	"-"	"ENSG00000123610"	"ENST00000243347"	"Transcript"	"frameshift_variant,stop_lost"	"907/1422"	"832/834"	"278/277"	"*/X"	"Taa/aa"	"rs753076336"	"1"	NA	1	"TNFAIP6"	"HGNC"	11898	"protein_coding"	"YES"	"CCDS2193.1"	"ENSP00000243347"	"P98066"	""	"UPI0000071080"	"NM_007115.3"	NA	NA	"6/6"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"HIGH"	"1"	"deletion"	NA	NA	NA	"1"	"4.791e-05"	"0"	"0"	"0"	"0"	"9.818e-05"	"0"	"0"	NA	"PASS"	"TATA"	"4041554c-2764-11e6-ab03-0c42424a729f"	"300"	5.094e-05	"4/78524"	"5/104368"	"0/7148"	"0/10252"	"0/6104"	"0/5904"	"4/40740"	"0/520"	"0/7856"	"VQSRTrancheINDEL99.50to99.90"	"TRUE"	0.0347222222222222	"WXS"	FALSE
"24"	"PRKRA"	8575	"mskcc.org"	"GRCh37"	"2"	179315141	179315735	"+"	"Splice_Site"	"DEL"	"GCAAAAACCACAAAAAGGTGTGCTTTGCATGCCAAATTGGAGATTGAAGCAGAAGCGTAGAGGCCAGTTTTAACCGCCACCGACGGTGACGAGGGAGGCGCCGAGTTCCCCGGAGGCCAGGGCCAGAGCTGGCGAGGCTGGGGCGCACCTGTCTTCCGGCCCCGCTGCGGCAGTCACTCCGCAGGAGCAGGCGGGGTGAGCGAGGTCTTTAGAGAGAGCACTTGAATGCGGGTAGGAGAGATTCTCAACAGAACAGGGCTGGCAGCAGCGCCGCAGCCTCTCAGGGAAAACCTGACGATCCCTTCCCGGGCGCGCCGACCGAGCGTCACCTCCGCCCGCCCCGCGCGCCGCCAGGGACCACGAGAGGGGCGGGGCCCGGCCGCAGACCCCAACCCTCGCCGCCGAGAGGGCGGGGCCGAGCACCCACAGCCGCGGAGGCGTGGGCGCCGGGCACGGCTTTACCCAGAATGCCTCTGGAGGGCCGGCTCCCCGCGCCCCGGCCCTGCCGCCCAACGCTCCCGGCCCTGGGGCCCTGACTGCCCGCACGCTGACCTGAAGGTCCCACTGTCCTCGCGCTCCAGCGGCGGGGCCTCGG"	"GCAAAAACCACAAAAAGGTGTGCTTTGCATGCCAAATTGGAGATTGAAGCAGAAGCGTAGAGGCCAGTTTTAACCGCCACCGACGGTGACGAGGGAGGCGCCGAGTTCCCCGGAGGCCAGGGCCAGAGCTGGCGAGGCTGGGGCGCACCTGTCTTCCGGCCCCGCTGCGGCAGTCACTCCGCAGGAGCAGGCGGGGTGAGCGAGGTCTTTAGAGAGAGCACTTGAATGCGGGTAGGAGAGATTCTCAACAGAACAGGGCTGGCAGCAGCGCCGCAGCCTCTCAGGGAAAACCTGACGATCCCTTCCCGGGCGCGCCGACCGAGCGTCACCTCCGCCCGCCCCGCGCGCCGCCAGGGACCACGAGAGGGGCGGGGCCCGGCCGCAGACCCCAACCCTCGCCGCCGAGAGGGCGGGGCCGAGCACCCACAGCCGCGGAGGCGTGGGCGCCGGGCACGGCTTTACCCAGAATGCCTCTGGAGGGCCGGCTCCCCGCGCCCCGGCCCTGCCGCCCAACGCTCCCGGCCCTGGGGCCCTGACTGCCCGCACGCTGACCTGAAGGTCCCACTGTCCTCGCGCTCCAGCGGCGGGGCCTCGG"	"AAGGTCCCACTGTCCTCGCGCTCCAGCGGCGGGGCCTCG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GCAAAAACCACAAAAAGGTGTGCTTTGCATGCCAAATTGGAGATTGAAGCAGAAGCGTAGAGGCCAGTTTTAACCGCCACCGACGGTGACGAGGGAGGCGCCGAGTTCCCCGGAGGCCAGGGCCAGAGCTGGCGAGGCTGGGGCGCACCTGTCTTCCGGCCCCGCTGCGGCAGTCACTCCGCAGGAGCAGGCGGGGTGAGCGAGGTCTTTAGAGAGAGCACTTGAATGCGGGTAGGAGAGATTCTCAACAGAACAGGGCTGGCAGCAGCGCCGCAGCCTCTCAGGGAAAACCTGACGATCCCTTCCCGGGCGCGCCGACCGAGCGTCACCTCCGCCCGCCCCGCGCGCCGCCAGGGACCACGAGAGGGGCGGGGCCCGGCCGCAGACCCCAACCCTCGCCGCCGAGAGGGCGGGGCCGAGCACCCACAGCCGCGGAGGCGTGGGCGCCGGGCACGGCTTTACCCAGAATGCCTCTGGAGGGCCGGCTCCCCGCGCCCCGGCCCTGCCGCCCAACGCTCCCGGCCCTGGGGCCCTGACTGCCCGCACGCTGACCTGAAGGTCCCACTGTCCTCGCGCTCCAGCGGCGGGGCCTCGG"	"GCAAAAACCACAAAAAGGTGTGCTTTGCATGCCAAATTGGAGATTGAAGCAGAAGCGTAGAGGCCAGTTTTAACCGCCACCGACGGTGACGAGGGAGGCGCCGAGTTCCCCGGAGGCCAGGGCCAGAGCTGGCGAGGCTGGGGCGCACCTGTCTTCCGGCCCCGCTGCGGCAGTCACTCCGCAGGAGCAGGCGGGGTGAGCGAGGTCTTTAGAGAGAGCACTTGAATGCGGGTAGGAGAGATTCTCAACAGAACAGGGCTGGCAGCAGCGCCGCAGCCTCTCAGGGAAAACCTGACGATCCCTTCCCGGGCGCGCCGACCGAGCGTCACCTCCGCCCGCCCCGCGCGCCGCCAGGGACCACGAGAGGGGCGGGGCCCGGCCGCAGACCCCAACCCTCGCCGCCGAGAGGGCGGGGCCGAGCACCCACAGCCGCGGAGGCGTGGGCGCCGGGCACGGCTTTACCCAGAATGCCTCTGGAGGGCCGGCTCCCCGCGCCCCGGCCCTGCCGCCCAACGCTCCCGGCCCTGGGGCCCTGACTGCCCGCACGCTGACCTGAAGGTCCCACTGTCCTCGCGCTCCAGCGGCGGGGCCTCGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.24_66-3delCGAGGCCCCGCCGCTGGAGCGCGAGGACAGTGGGACCTTCAGGTCAGCGTGCGGGCAGTCAGGGCCCCAGGGCCGGGAGCGTTGGGCGGCAGGGCCGGGGCGCGGGGAGCCGGCCCTCCAGAGGCATTCTGGGTAAAGCCGTGCCCGGCGCCCACGCCTCCGCGGCTGTGGGTGCTCGGCCCCGCCCTCTCGGCGGCGAGGGTTGGGGTCTGCGGCCGGGCCCCGCCCCTCTCGTGGTCCCTGGCGGCGCGCGGGGCGGGCGGAGGTGACGCTCGGTCGGCGCGCCCGGGAAGGGATCGTCAGGTTTTCCCTGAGAGGCTGCGGCGCTGCTGCCAGCCCTGTTCTGTTGAGAATCTCTCCTACCCGCATTCAAGTGCTCTCTCTAAAGACCTCGCTCACCCCGCCTGCTCCTGCGGAGTGACTGCCGCAGCGGGGCCGGAAGACAGGTGCGCCCCAGCCTCGCCAGCTCTGGCCCTGGCCTCCGGGGAACTCGGCGCCTCCCTCGTCACCGTCGGTGGCGGTTAAAACTGGCCTCTACGCTTCTGCTTCAATCTCCAATTTGGCATGCAAAGCACACCTTTTTGTGGTTTTTGCinsGAGGCCCCGCCGCTGGAGCGCGAGGACAGTGGGACCTT"	""	"p.X8_splice"	"ENST00000325748"	"1/8"	585	"."	39	340	"."	0	"PRKRA,splice_donor_variant,,ENST00000325748,NM_003690.4;PRKRA,splice_donor_variant,,ENST00000438687,;PRKRA,splice_donor_variant,,ENST00000487082,;PRKRA,coding_sequence_variant,,ENST00000432031,NM_001139518.1,NM_001139517.1;PRKRA,coding_sequence_variant,,ENST00000457633,;DFNB59,upstream_gene_variant,,ENST00000409117,NM_001042702.3;DFNB59,upstream_gene_variant,,ENST00000375129,;DFNB59,upstream_gene_variant,,ENST00000442710,;PRKRA,splice_donor_variant,,ENST00000470200,;PRKRA,splice_donor_variant,,ENST00000460433,;PRKRA,splice_donor_variant,,ENST00000424699,;PRKRA,splice_donor_variant,,ENST00000466165,;PRKRA,splice_donor_variant,,ENST00000463882,;PRKRA,coding_sequence_variant,,ENST00000448279,;DFNB59,upstream_gene_variant,,ENST00000437056,;PRKRA,upstream_gene_variant,,ENST00000474793,;DFNB59,upstream_gene_variant,,ENST00000444615,;AC009948.7,upstream_gene_variant,,ENST00000437039,;"	"AAGGTCCCACTGTCCTCGCGCTCCAGCGGCGGGGCCTC"	"ENSG00000180228"	"ENST00000325748"	"Transcript"	"splice_donor_variant,coding_sequence_variant,intron_variant"	"225-?/1826"	"24-?/942"	"8-?/313"	""	""	""	"1"	NA	-1	"PRKRA"	"HGNC"	9438	"protein_coding"	"YES"	"CCDS2279.1"	"ENSP00000318176"	"O75569"	"G5E9Q4,B4DJC7"	"UPI0000073B07"	"NM_003690.4"	NA	NA	"1/8"	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"HIGH"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTGCAAAAACCACAAAAAGGTGTGCTTTGCATGCCAAATTGGAGATTGAAGCAGAAGCGTAGAGGCCAGTTTTAACCGCCACCGACGGTGACGAGGGAGGCGCCGAGTTCCCCGGAGGCCAGGGCCAGAGCTGGCGAGGCTGGGGCGCACCTGTCTTCCGGCCCCGCTGCGGCAGTCACTCCGCAGGAGCAGGCGGGGTGAGCGAGGTCTTTAGAGAGAGCACTTGAATGCGGGTAGGAGAGATTCTCAACAGAACAGGGCTGGCAGCAGCGCCGCAGCCTCTCAGGGAAAACCTGACGATCCCTTCCCGGGCGCGCCGACCGAGCGTCACCTCCGCCCGCCCCGCGCGCCGCCAGGGACCACGAGAGGGGCGGGGCCCGGCCGCAGACCCCAACCCTCGCCGCCGAGAGGGCGGGGCCGAGCACCCACAGCCGCGGAGGCGTGGGCGCCGGGCACGGCTTTACCCAGAATGCCTCTGGAGGGCCGGCTCCCCGCGCCCCGGCCCTGCCGCCCAACGCTCCCGGCCCTGGGGCCCTGACTGCCCGCACGCTGACCTGAAGGTCCCACTGTCCTCGCGCTCCAGCGGCGGGGCCTCGGC"	"4dc79640-2764-11e6-ab03-0c42424a729f"	"2340"	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL99.00to99.50"	"TRUE"	0.0666666666666667	"WXS"	FALSE
"25"	"POU5F1P6"	0	"mskcc.org"	"GRCh37"	"3"	128394220	128395208	"+"	"Splice_Site"	"DEL"	"CGGGTTCTTGTTCTTTCGGCCTGCCTGAGGGTCTCTGCTTTGCATATCTCCTGAAGCTCTTCATTGTTGGCTGCTTCCTCCACCCACTTCTGCAGCAAGGGAGGCAGCTTACACATGTTCTTGAAACTGAGCTGCAGAGCCTCAAAGCAGCTGATGGTCATTTGGCTGAACACCTTCCCAAATAGAACCCCCCAGAGGCTGGGCATGGTGACTCACTTCTGTAATCCTAGCACTTTGGGAGGCCAAGGTGGGAAGTCAGAAGTTCAAGACCAGCCTGGCCTGTAACATGGAGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCTGGGCATAGTGGCACATGCATGTAATCCCAGCTACTTGGGAGGCTGAGGCACGAGAATCGCTTGAACCCAGGAGGCAGAGTGAAACGCCTAACCTTGTTTTTACTCTAACTCGTTACTTTGAATTTTATCCTGCTTGTCTCTTTAATCACCTAGCCTTGCTTCTCATGTAAATAAGACTCTCTCTAGCTGGGAAAGCCAGACAAACTCCAATTGACCCCTTAATTTACAAGATACTAAGGGCTCCTTACCCAACCCCCTTCCGCAAGGAGTTAACCTGTGTAAGCAGATCCTCAGCATTTCAAAGTAGCCCAATTAACTGATAAGGTACTAGCACCAACAATGTATGAAGTTCCCAGGATTTTTCTCAAAGAGATAACAACATAAAGCCTTGAGTTCCTGTCCGGCATACCCCCTATATCTAATTATAATAAAGGTTTAAAGCCTTGCACCTGGTACCGTTGCTCTTCTTGTAACCATTTGTCTTTTAAATTGTTTATCTCTTTGTAACCATTTTTTTTTTATTCTTGCATGTTTTTACTTCTGTAGAATTATTGCATTTGAGTTCCCCTCCCCTTCCTAAACCTAGGTATAAAAGTTAATCAACCCCCTTCCTCGGGGCCAAGAGAATTTTGAGCGTTAGCCGTCTCTTTGGCCGCCGGCTT"	"CGGGTTCTTGTTCTTTCGGCCTGCCTGAGGGTCTCTGCTTTGCATATCTCCTGAAGCTCTTCATTGTTGGCTGCTTCCTCCACCCACTTCTGCAGCAAGGGAGGCAGCTTACACATGTTCTTGAAACTGAGCTGCAGAGCCTCAAAGCAGCTGATGGTCATTTGGCTGAACACCTTCCCAAATAGAACCCCCCAGAGGCTGGGCATGGTGACTCACTTCTGTAATCCTAGCACTTTGGGAGGCCAAGGTGGGAAGTCAGAAGTTCAAGACCAGCCTGGCCTGTAACATGGAGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCTGGGCATAGTGGCACATGCATGTAATCCCAGCTACTTGGGAGGCTGAGGCACGAGAATCGCTTGAACCCAGGAGGCAGAGTGAAACGCCTAACCTTGTTTTTACTCTAACTCGTTACTTTGAATTTTATCCTGCTTGTCTCTTTAATCACCTAGCCTTGCTTCTCATGTAAATAAGACTCTCTCTAGCTGGGAAAGCCAGACAAACTCCAATTGACCCCTTAATTTACAAGATACTAAGGGCTCCTTACCCAACCCCCTTCCGCAAGGAGTTAACCTGTGTAAGCAGATCCTCAGCATTTCAAAGTAGCCCAATTAACTGATAAGGTACTAGCACCAACAATGTATGAAGTTCCCAGGATTTTTCTCAAAGAGATAACAACATAAAGCCTTGAGTTCCTGTCCGGCATACCCCCTATATCTAATTATAATAAAGGTTTAAAGCCTTGCACCTGGTACCGTTGCTCTTCTTGTAACCATTTGTCTTTTAAATTGTTTATCTCTTTGTAACCATTTTTTTTTTATTCTTGCATGTTTTTACTTCTGTAGAATTATTGCATTTGAGTTCCCCTCCCCTTCCTAAACCTAGGTATAAAAGTTAATCAACCCCCTTCCTCGGGGCCAAGAGAATTTTGAGCGTTAGCCGTCTCTTTGGCCGCCGGCTT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CGGGTTCTTGTTCTTTCGGCCTGCCTGAGGGTCTCTGCTTTGCATATCTCCTGAAGCTCTTCATTGTTGGCTGCTTCCTCCACCCACTTCTGCAGCAAGGGAGGCAGCTTACACATGTTCTTGAAACTGAGCTGCAGAGCCTCAAAGCAGCTGATGGTCATTTGGCTGAACACCTTCCCAAATAGAACCCCCCAGAGGCTGGGCATGGTGACTCACTTCTGTAATCCTAGCACTTTGGGAGGCCAAGGTGGGAAGTCAGAAGTTCAAGACCAGCCTGGCCTGTAACATGGAGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCTGGGCATAGTGGCACATGCATGTAATCCCAGCTACTTGGGAGGCTGAGGCACGAGAATCGCTTGAACCCAGGAGGCAGAGTGAAACGCCTAACCTTGTTTTTACTCTAACTCGTTACTTTGAATTTTATCCTGCTTGTCTCTTTAATCACCTAGCCTTGCTTCTCATGTAAATAAGACTCTCTCTAGCTGGGAAAGCCAGACAAACTCCAATTGACCCCTTAATTTACAAGATACTAAGGGCTCCTTACCCAACCCCCTTCCGCAAGGAGTTAACCTGTGTAAGCAGATCCTCAGCATTTCAAAGTAGCCCAATTAACTGATAAGGTACTAGCACCAACAATGTATGAAGTTCCCAGGATTTTTCTCAAAGAGATAACAACATAAAGCCTTGAGTTCCTGTCCGGCATACCCCCTATATCTAATTATAATAAAGGTTTAAAGCCTTGCACCTGGTACCGTTGCTCTTCTTGTAACCATTTGTCTTTTAAATTGTTTATCTCTTTGTAACCATTTTTTTTTTATTCTTGCATGTTTTTACTTCTGTAGAATTATTGCATTTGAGTTCCCCTCCCCTTCCTAAACCTAGGTATAAAAGTTAATCAACCCCCTTCCTCGGGGCCAAGAGAATTTTGAGCGTTAGCCGTCTCTTTGGCCGCCGGCTT"	"CGGGTTCTTGTTCTTTCGGCCTGCCTGAGGGTCTCTGCTTTGCATATCTCCTGAAGCTCTTCATTGTTGGCTGCTTCCTCCACCCACTTCTGCAGCAAGGGAGGCAGCTTACACATGTTCTTGAAACTGAGCTGCAGAGCCTCAAAGCAGCTGATGGTCATTTGGCTGAACACCTTCCCAAATAGAACCCCCCAGAGGCTGGGCATGGTGACTCACTTCTGTAATCCTAGCACTTTGGGAGGCCAAGGTGGGAAGTCAGAAGTTCAAGACCAGCCTGGCCTGTAACATGGAGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCTGGGCATAGTGGCACATGCATGTAATCCCAGCTACTTGGGAGGCTGAGGCACGAGAATCGCTTGAACCCAGGAGGCAGAGTGAAACGCCTAACCTTGTTTTTACTCTAACTCGTTACTTTGAATTTTATCCTGCTTGTCTCTTTAATCACCTAGCCTTGCTTCTCATGTAAATAAGACTCTCTCTAGCTGGGAAAGCCAGACAAACTCCAATTGACCCCTTAATTTACAAGATACTAAGGGCTCCTTACCCAACCCCCTTCCGCAAGGAGTTAACCTGTGTAAGCAGATCCTCAGCATTTCAAAGTAGCCCAATTAACTGATAAGGTACTAGCACCAACAATGTATGAAGTTCCCAGGATTTTTCTCAAAGAGATAACAACATAAAGCCTTGAGTTCCTGTCCGGCATACCCCCTATATCTAATTATAATAAAGGTTTAAAGCCTTGCACCTGGTACCGTTGCTCTTCTTGTAACCATTTGTCTTTTAAATTGTTTATCTCTTTGTAACCATTTTTTTTTTATTCTTGCATGTTTTTACTTCTGTAGAATTATTGCATTTGAGTTCCCCTCCCCTTCCTAAACCTAGGTATAAAAGTTAATCAACCCCCTTCCTCGGGGCCAAGAGAATTTTGAGCGTTAGCCGTCTCTTTGGCCGCCGGCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.484+157_662+20delAAGCCGGCGGCCAAAGAGACGGCTAACGCTCAAAATTCTCTTGGCCCCGAGGAAGGGGGTTGATTAACTTTTATACCTAGGTTTAGGAAGGGGAGGGGAACTCAAATGCAATAATTCTACAGAAGTAAAAACATGCAAGAATAAAAAAAAAATGGTTACAAAGAGATAAACAATTTAAAAGACAAATGGTTACAAGAAGAGCAACGGTACCAGGTGCAAGGCTTTAAACCTTTATTATAATTAGATATAGGGGGTATGCCGGACAGGAACTCAAGGCTTTATGTTGTTATCTCTTTGAGAAAAATCCTGGGAACTTCATACATTGTTGGTGCTAGTACCTTATCAGTTAATTGGGCTACTTTGAAATGCTGAGGATCTGCTTACACAGGTTAACTCCTTGCGGAAGGGGGTTGGGTAAGGAGCCCTTAGTATCTTGTAAATTAAGGGGTCAATTGGAGTTTGTCTGGCTTTCCCAGCTAGAGAGAGTCTTATTTACATGAGAAGCAAGGCTAGGTGATTAAAGAGACAAGCAGGATAAAATTCAAAGTAACGAGTTAGAGTAAAAACAAGGTTAGGCGTTTCACTCTGCCTCCTGGGTTCAAGCGATTCTCGTGCCTCAGCCTCCCAAGTAGCTGGGATTACATGCATGTGCCACTATGCCCAGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCTCCATGTTACAGGCCAGGCTGGTCTTGAACTTCTGACTTCCCACCTTGGCCTCCCAAAGTGCTAGGATTACAGAAGTGAGTCACCATGCCCAGCCTCTGGGGGGTTCTATTTGGGAAGGTGTTCAGCCAAATGACCATCAGCTGCTTTGAGGCTCTGCAGCTCAGTTTCAAGAACATGTGTAAGCTGCCTCCCTTGCTGCAGAAGTGGGTGGAGGAAGCAGCCAACAATGAAGAGCTTCAGGAGATATGCAAAGCAGAGACCCTCAGGCAGGCCGAAAGAACAAGAACCCG"	""	""	"ENST00000466990"	"2/3"	11	"."	3	2	"."	0	"RPN1,intron_variant,,ENST00000497289,;POU5F1P6,splice_donor_variant,,ENST00000466990,;"	"-"	"ENSG00000242551"	"ENST00000466990"	"Transcript"	"splice_donor_variant,splice_acceptor_variant,non_coding_transcript_exon_variant,intron_variant,non_coding_transcript_variant"	"-/990"	""	""	""	""	""	"1"	NA	-1	"POU5F1P6"	"HGNC"	33312	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"2/3"	"1-2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"HIGH"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCGGGTTCTTGTTCTTTCGGCCTGCCTGAGGGTCTCTGCTTTGCATATCTCCTGAAGCTCTTCATTGTTGGCTGCTTCCTCCACCCACTTCTGCAGCAAGGGAGGCAGCTTACACATGTTCTTGAAACTGAGCTGCAGAGCCTCAAAGCAGCTGATGGTCATTTGGCTGAACACCTTCCCAAATAGAACCCCCCAGAGGCTGGGCATGGTGACTCACTTCTGTAATCCTAGCACTTTGGGAGGCCAAGGTGGGAAGTCAGAAGTTCAAGACCAGCCTGGCCTGTAACATGGAGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCTGGGCATAGTGGCACATGCATGTAATCCCAGCTACTTGGGAGGCTGAGGCACGAGAATCGCTTGAACCCAGGAGGCAGAGTGAAACGCCTAACCTTGTTTTTACTCTAACTCGTTACTTTGAATTTTATCCTGCTTGTCTCTTTAATCACCTAGCCTTGCTTCTCATGTAAATAAGACTCTCTCTAGCTGGGAAAGCCAGACAAACTCCAATTGACCCCTTAATTTACAAGATACTAAGGGCTCCTTACCCAACCCCCTTCCGCAAGGAGTTAACCTGTGTAAGCAGATCCTCAGCATTTCAAAGTAGCCCAATTAACTGATAAGGTACTAGCACCAACAATGTATGAAGTTCCCAGGATTTTTCTCAAAGAGATAACAACATAAAGCCTTGAGTTCCTGTCCGGCATACCCCCTATATCTAATTATAATAAAGGTTTAAAGCCTTGCACCTGGTACCGTTGCTCTTCTTGTAACCATTTGTCTTTTAAATTGTTTATCTCTTTGTAACCATTTTTTTTTTATTCTTGCATGTTTTTACTTCTGTAGAATTATTGCATTTGAGTTCCCCTCCCCTTCCTAAACCTAGGTATAAAAGTTAATCAACCCCCTTCCTCGGGGCCAAGAGAATTTTGAGCGTTAGCCGTCTCTTTGGCCGCCGGCTTA"	"4bf11abc-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.272727272727273	"WXS"	FALSE
"26"	"LINC00955"	0	"mskcc.org"	"GRCh37"	"4"	3589669	3589670	"+"	"In_Frame_Ins"	"INS"	"-"	"-"	"ACTTCCTGGTGCACCTGC"	"rs537957602"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.51_68dupCCTGCACTTCCTGGTGCA"	"p.His17_Val22dup"	"p.H17_V22dup"	"ENST00000514422"	"2/3"	169	"."	7	104	"."	0	"LINC00955,inframe_insertion,p.His17_Val22dup,ENST00000514422,;LINC00955,intron_variant,,ENST00000502775,;"	"ACTTCCTGGTGCACCTGC"	"ENSG00000216560"	"ENST00000514422"	"Transcript"	"inframe_insertion"	"323-324/1502"	"37-38/585"	"13/194"	"D/DFLVHLH"	"gac/gACTTCCTGGTGCACCTGCac"	"rs537957602"	"1"	NA	1	"LINC00955"	"HGNC"	26644	"protein_coding"	"YES"	""	"ENSP00000427553"	""	"E7ETJ0"	"UPI0000160C3E"	""	NA	NA	"2/3"	""	""	"ACTTCCTGGTGCACCTGC:0.3025"	"ACTTCCTGGTGCACCTGC:0.4955"	"ACTTCCTGGTGCACCTGC:0.2695"	NA	"ACTTCCTGGTGCACCTGC:0.0694"	"ACTTCCTGGTGCACCTGC:0.335"	"ACTTCCTGGTGCACCTGC:0.272"	""	""	NA	NA	""	""	NA	""	NA	"MODERATE"	"1"	"insertion"	NA	"31"	NA	"1"	"0.2382"	"0.3596"	"0.2987"	"0.07534"	"0.2425"	"0.3256"	"0.2216"	"0.3052"	NA	"common_variant"	"AGA"	"51ebc372-2764-11e6-b33c-1287424a729f"	"266"	0.3009	"4134/13738"	"4231/17766"	"146/406"	"46/154"	"11/146"	"406/1674"	"1167/3584"	"39/176"	"2319/7598"	"VQSRTrancheINDEL96.00to97.00"	"TRUE"	0.0414201183431953	"WXS"	FALSE
"27"	"TMEM161B"	153396	"mskcc.org"	"GRCh37"	"5"	87502321	87502321	"+"	"Splice_Region"	"DEL"	"G"	"G"	"-"	"rs376052457"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.599-5delC"	""	""	"ENST00000296595"	""	143	"."	3	60	"."	0	"TMEM161B,splice_region_variant,,ENST00000296595,NM_153354.3;TMEM161B,splice_region_variant,,ENST00000506536,;TMEM161B,splice_region_variant,,ENST00000514135,;TMEM161B,splice_region_variant,,ENST00000512429,;TMEM161B,splice_region_variant,,ENST00000511218,;TMEM161B,splice_region_variant,,ENST00000509387,;TMEM161B,splice_region_variant,,ENST00000503755,;TMEM161B,downstream_gene_variant,,ENST00000513487,;TMEM161B,splice_region_variant,,ENST00000510089,;TMEM161B,splice_region_variant,,ENST00000511087,;TMEM161B,splice_region_variant,,ENST00000507872,;"	"-"	"ENSG00000164180"	"ENST00000296595"	"Transcript"	"splice_region_variant,intron_variant"	"-/2594"	"-/1464"	"-/487"	""	""	"rs376052457"	"1"	NA	-1	"TMEM161B"	"HGNC"	28483	"protein_coding"	"YES"	"CCDS4065.1"	"ENSP00000296595"	"Q8NDZ6"	"D6RBE8,B7Z6T3"	"UPI000007229D"	"NM_153354.3"	NA	NA	""	"6/11"	""	"-:0.0807"	"-:0.0711"	"-:0.0793"	NA	"-:0.0784"	"-:0.0855"	"-:0.092"	""	""	NA	NA	""	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	NA	"1"	"0.1961"	"0.1332"	"0.1438"	"0.1605"	"0.15"	"0.1922"	"0.1667"	"0.156"	NA	"common_variant"	"GTGG"	"3ece91a2-2764-11e6-b684-1187424a729f"	"180"	0.167	"6190/37060"	"20618/105116"	"416/3122"	"642/4466"	"556/3464"	"391/2606"	"2823/14690"	"45/270"	"1317/8442"	"VQSRTrancheINDEL95.00to96.00"	"TRUE"	0.020979020979021	"WXS"	FALSE
"28"	"ADAMTS2"	9509	"mskcc.org"	"GRCh37"	"5"	178772259	178772260	"+"	"In_Frame_Ins"	"INS"	"-"	"-"	"GCA"	"rs568040559"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.68_70dupTGC"	"p.Leu23dup"	"p.L23dup"	"ENST00000251582"	"1/22"	53	"."	6	35	"."	0	"ADAMTS2,inframe_insertion,p.Leu23dup,ENST00000251582,NM_014244.4;ADAMTS2,inframe_insertion,p.Leu23dup,ENST00000274609,NM_021599.2;"	"GCA"	"ENSG00000087116"	"ENST00000251582"	"Transcript"	"inframe_insertion"	"172-173/6754"	"70-71/3636"	"24/1211"	"P/LP"	"ccg/cTGCcg"	"rs568040559"	"1"	NA	-1	"ADAMTS2"	"HGNC"	218	"protein_coding"	"YES"	"CCDS4444.1"	"ENSP00000251582"	"O95450"	""	"UPI00001AE729"	"NM_014244.4"	NA	NA	"1/22"	""	"Low_complexity_(Seg):seg,Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR13723,hmmpanther:PTHR13723:SF141"	"GCA:0.1805"	"GCA:0.1135"	"GCA:0.1354"	NA	"GCA:0.2718"	"GCA:0.1382"	"GCA:0.2526"	""	""	NA	NA	""	""	NA	""	NA	"MODERATE"	"1"	"insertion"	NA	NA	NA	"1"	"0.07642"	"0.5"	"0"	"0.5"	"0.1538"	"0.1"	"0.5"	"0.6429"	"1"	"common_variant"	"CGG"	"69911a68-2764-11e6-b684-1187424a729f"	"360"	0.4167	"35/84"	"683/8938"	"1/2"	"0/0"	"1/2"	"4/26"	"1/10"	"1/2"	"27/42"	"PASS"	"TRUE"	0.113207547169811	"WXS"	FALSE
"29"	"ANKS1A"	23294	"mskcc.org"	"GRCh37"	"6"	34857302	34857303	"+"	"In_Frame_Ins"	"INS"	"-"	"-"	"GGCGGC"	"rs753890941"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.133_138dupGGCGGC"	"p.Gly45_Gly46dup"	"p.G45_G46dup"	"ENST00000360359"	"1/24"	64	"."	8	26	"."	0	"ANKS1A,inframe_insertion,p.Gly45_Gly46dup,ENST00000360359,NM_015245.2;ANKS1A,inframe_insertion,p.Gly45_Gly46dup,ENST00000535627,;TAF11,upstream_gene_variant,,ENST00000361288,NM_005643.3;TAF11,upstream_gene_variant,,ENST00000420584,NM_001270488.1;"	"GGCGGC"	"ENSG00000064999"	"ENST00000360359"	"Transcript"	"inframe_insertion"	"261-262/6336"	"123-124/3405"	"41-42/1134"	"-/GG"	"-/GGCGGC"	"rs753890941"	"1"	NA	1	"ANKS1A"	"HGNC"	20961	"protein_coding"	"YES"	"CCDS4798.1"	"ENSP00000353518"	"Q92625"	""	"UPI00001C1E4D"	"NM_015245.2"	NA	NA	"1/24"	""	"Low_complexity_(Seg):seg,hmmpanther:PTHR24174,Pfam_domain:PF12796"	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODERATE"	"1"	"insertion"	NA	"15"	NA	"1"	"0.003845"	"0"	"0.25"	"0"	"0.0339"	"0.02632"	"0"	"0.01064"	NA	"PASS"	"GGG"	"5b3cdb78-2764-11e6-a497-bf4a424a729f"	"480"	0.02652	"7/264"	"164/42658"	"0/4"	"1/4"	"0/2"	"4/118"	"1/38"	"0/4"	"1/94"	"PASS"	"TRUE"	0.125	"WXS"	FALSE
"30"	"SLC22A1"	6580	"mskcc.org"	"GRCh37"	"6"	160560883	160560905	"+"	"Splice_Site"	"DEL"	"GATTTTTATCTCACCTGGTAAGT"	"GATTTTTATCTCACCTGGTAAGT"	"TTTTATCTCACC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GATTTTTATCTCACCTGGTAAGT"	"GATTTTTATCTCACCTGGTAAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1260_1276+6delGATTTTTATCTCACCTGGTAAGTinsTTTTATCTCACC"	""	"p.X420_splice"	"ENST00000366963"	"7/11"	160	"."	25	90	"."	0	"SLC22A1,splice_donor_variant,,ENST00000366963,NM_153187.1,NM_003057.2;SLC22A1,splice_donor_variant,,ENST00000324965,;SLC22A1,splice_donor_variant,,ENST00000457470,;SLC22A1,splice_donor_variant,,ENST00000539263,;SLC22A1,intron_variant,,ENST00000460902,;"	"TTTTATCTCACC"	"ENSG00000175003"	"ENST00000366963"	"Transcript"	"splice_donor_variant,coding_sequence_variant,intron_variant"	"1407-?/1948"	"1260-?/1665"	"420-?/554"	""	""	""	"1"	NA	1	"SLC22A1"	"HGNC"	10963	"protein_coding"	"YES"	"CCDS5274.1"	"ENSP00000355930"	"O15245"	"F5GY86"	"UPI0000070FB1"	"NM_153187.1,NM_003057.2"	NA	NA	"7/11"	"7/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"HIGH"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGATTTTTATCTCACCTGGTAAGTT"	"53020c30-2764-11e6-a497-bf4a424a729f"	"1500"	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL99.50to99.90"	"TRUE"	0.15625	"WXS"	FALSE
"31"	"DGKB"	1607	"mskcc.org"	"GRCh37"	"7"	14881079	14881079	"+"	"Splice_Region"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-187-4delG"	""	""	"ENST00000403951"	""	105	"."	3	63	"."	0	"DGKB,splice_region_variant,,ENST00000403951,;DGKB,splice_region_variant,,ENST00000402815,;DGKB,splice_region_variant,,ENST00000407950,;DGKB,splice_region_variant,,ENST00000444700,;DGKB,splice_region_variant,,ENST00000437998,;DGKB,upstream_gene_variant,,ENST00000258767,;DGKB,upstream_gene_variant,,ENST00000399322,NM_004080.2;DGKB,upstream_gene_variant,,ENST00000406247,NM_145695.2;DGKB,splice_region_variant,,ENST00000403963,;DGKB,splice_region_variant,,ENST00000463981,;DGKB,intron_variant,,ENST00000467449,;DGKB,splice_region_variant,,ENST00000477401,;"	"-"	"ENSG00000136267"	"ENST00000403951"	"Transcript"	"splice_region_variant,intron_variant"	"-/6917"	"-/2415"	"-/804"	""	""	""	"1"	NA	-1	"DGKB"	"HGNC"	2850	"protein_coding"	"YES"	"CCDS47547.1"	"ENSP00000385780"	"Q9Y6T7"	"C9JA18,B7Z3B3"	"UPI0000033B9B"	""	NA	NA	""	"1/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCA"	"31cf3a10-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0285714285714286	"WXS"	FALSE
"32"	"GIMAP6"	474344	"mskcc.org"	"GRCh37"	"7"	150327234	150327234	"+"	"Splice_Region"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1-4delG"	""	""	"ENST00000328902"	""	74	"."	3	41	"."	0	"GIMAP6,splice_region_variant,,ENST00000328902,NM_024711.5,NM_001244072.1;GIMAP6,splice_region_variant,,ENST00000493969,NM_001244071.1;"	"-"	"ENSG00000133561"	"ENST00000328902"	"Transcript"	"splice_region_variant,intron_variant"	"-/3440"	"-/879"	"-/292"	""	""	""	"1"	NA	-1	"GIMAP6"	"HGNC"	21918	"protein_coding"	"YES"	"CCDS34778.1"	"ENSP00000330374"	"Q6P9H5"	""	"UPI00001AE78F"	"NM_024711.5,NM_001244072.1"	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACA"	"4ac9cd14-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0405405405405405	"WXS"	FALSE
"33"	"NUDT18"	79873	"mskcc.org"	"GRCh37"	"8"	21966702	21966707	"+"	"Splice_Site"	"DEL"	"CCGCAC"	"CCGCAC"	"GCAC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CCGCAC"	"CCGCAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.111_111+1delGG"	""	"p.X37_splice"	"ENST00000309188"	"2/5"	71	"."	18	56	"."	0	"NUDT18,splice_acceptor_variant,,ENST00000309188,NM_024815.3;NUDT18,frameshift_variant,p.Gly38LeufsTer97,ENST00000521807,;NUDT18,frameshift_variant,p.Gly73AlafsTer19,ENST00000522379,;NUDT18,5_prime_UTR_variant,,ENST00000522405,;FAM160B2,downstream_gene_variant,,ENST00000289921,NM_022749.5;FAM160B2,downstream_gene_variant,,ENST00000450006,;FAM160B2,downstream_gene_variant,,ENST00000496599,;AC091171.1,downstream_gene_variant,,ENST00000436711,;"	"-"	"ENSG00000173566"	"ENST00000309188"	"Transcript"	"splice_acceptor_variant,frameshift_variant"	"229-230/1519"	"110-111/972"	"37/323"	"R/X"	"cGG/c"	""	"1"	NA	-1	"NUDT18"	"HGNC"	26194	"protein_coding"	"YES"	""	"ENSP00000307852"	"Q6ZVK8"	"E5RJJ3"	"UPI0000074169"	"NM_024815.3"	NA	NA	"2/5"	""	"PROSITE_profiles:PS51462,hmmpanther:PTHR22769,hmmpanther:PTHR22769:SF16,Superfamily_domains:SSF55811"	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"HIGH"	"1"	"deletion"	NA	"-1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCCGCACG"	"46f82a28-2764-11e6-9d29-be4a424a729f"	"1080"	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.253521126760563	"WXS"	FALSE
"34"	"CSDE1"	7812	"mskcc.org"	"GRCh37"	"1"	115273208	115273208	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1250G>C"	"p.Arg417Pro"	"p.R417P"	"ENST00000438362"	"11/20"	473	"335"	138	162	"162"	0	"CSDE1,missense_variant,p.Arg417Pro,ENST00000438362,NM_001242891.1;CSDE1,missense_variant,p.Arg371Pro,ENST00000358528,NM_001007553.2;CSDE1,missense_variant,p.Arg340Pro,ENST00000339438,NM_007158.5;CSDE1,missense_variant,p.Arg386Pro,ENST00000369530,NM_001130523.2;CSDE1,missense_variant,p.Arg241Pro,ENST00000530886,;CSDE1,missense_variant,p.Arg340Pro,ENST00000261443,NM_001242893.1;CSDE1,missense_variant,p.Arg371Pro,ENST00000534699,NM_001242892.1;CSDE1,downstream_gene_variant,,ENST00000529046,;Y_RNA,downstream_gene_variant,,ENST00000365030,;CSDE1,upstream_gene_variant,,ENST00000483030,;"	"G"	"ENSG00000009307"	"ENST00000438362"	"Transcript"	"missense_variant"	"1629/4167"	"1250/2535"	"417/844"	"R/P"	"cGt/cCt"	""	"1"	NA	-1	"CSDE1"	"HGNC"	29905	"protein_coding"	"YES"	"CCDS55626.1"	"ENSP00000407724"	""	"Q9UG93,G5E9Q2,E9PLD4,E9PKN4"	"UPI0000D99B0F"	"NM_001242891.1"	"deleterious(0)"	"probably_damaging(0.98)"	"11/20"	""	"Gene3D:2.40.50.140,Pfam_domain:PF00313,PROSITE_patterns:PS00352,hmmpanther:PTHR12913,hmmpanther:PTHR12913:SF1,SMART_domains:SM00357,Superfamily_domains:SSF50249"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"8e5e317a-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.291754756871036	"WXS"	FALSE
"35"	"MUC5B"	727897	"mskcc.org"	"GRCh37"	"11"	1265752	1265752	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"G"	"rs774706351"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7642A>G"	"p.Thr2548Ala"	"p.T2548A"	"ENST00000529681"	"31/49"	41	"33"	8	11	"11"	0	"MUC5B,missense_variant,p.Thr2551Ala,ENST00000447027,;MUC5B,missense_variant,p.Thr2548Ala,ENST00000529681,NM_002458.2;RP11-532E4.2,intron_variant,,ENST00000532061,;MUC5B,downstream_gene_variant,,ENST00000525715,;"	"G"	"ENSG00000117983"	"ENST00000529681"	"Transcript"	"missense_variant"	"7700/17911"	"7642/17289"	"2548/5762"	"T/A"	"Acc/Gcc"	"rs774706351"	"1"	NA	1	"MUC5B"	"HGNC"	7516	"protein_coding"	"YES"	"CCDS44515.2"	"ENSP00000436812"	"Q9HC84"	"Q93043"	"UPI0001DD21C7"	"NM_002458.2"	""	"unknown(0)"	"31/49"	""	"hmmpanther:PTHR11339,hmmpanther:PTHR11339:SF237"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	"1.943e-05"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"1"	"PASS"	"CAC"	"8e62688a-2834-11e6-b898-8e3f424a729f"	"."	0	"0/85628"	"2/102952"	"0/6068"	"0/9664"	"0/6748"	"0/4722"	"0/42586"	"0/546"	"0/15294"	"VQSRTrancheSNP99.80to99.90"	"TRUE"	0.195121951219512	"WXS"	FALSE
"36"	"OTX2"	5015	"mskcc.org"	"GRCh37"	"14"	57268508	57268508	"+"	"Missense_Mutation"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.839C>T"	"p.Ala280Val"	"p.A280V"	"ENST00000339475"	"5/5"	265	"182"	83	163	"163"	0	"OTX2,missense_variant,p.Ala280Val,ENST00000339475,NM_001270524.1,NM_021728.3,NM_001270523.1,NM_001270525.1;OTX2,missense_variant,p.Ala272Val,ENST00000555006,;OTX2,missense_variant,p.Ala272Val,ENST00000408990,;OTX2,downstream_gene_variant,,ENST00000554845,;OTX2,downstream_gene_variant,,ENST00000554788,;OTX2,downstream_gene_variant,,ENST00000555804,;OTX2,downstream_gene_variant,,ENST00000554559,;RP11-1085N6.6,upstream_gene_variant,,ENST00000602485,;"	"A"	"ENSG00000165588"	"ENST00000339475"	"Transcript"	"missense_variant"	"1116/2199"	"839/894"	"280/297"	"A/V"	"gCt/gTt"	""	"1"	NA	-1	"OTX2"	"HGNC"	8522	"protein_coding"	"YES"	"CCDS9728.1"	"ENSP00000343819"	"P32243"	"G3V3P9,F1T0D1"	"UPI000000161B"	"NM_001270524.1,NM_021728.3,NM_001270523.1,NM_001270525.1"	"tolerated(0.08)"	"benign(0.206)"	"5/5"	""	"hmmpanther:PTHR24329,hmmpanther:PTHR24329:SF131"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"8e674ab2-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.313207547169811	"WXS"	FALSE
"37"	"GOLGA5"	9950	"mskcc.org"	"GRCh37"	"14"	93278093	93278093	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1314A>G"	"p.Ile438Met"	"p.I438M"	"ENST00000163416"	"6/13"	144	"101"	43	68	"68"	0	"GOLGA5,missense_variant,p.Ile438Met,ENST00000163416,NM_005113.3;GOLGA5,missense_variant,p.Ile438Met,ENST00000355976,;GOLGA5,downstream_gene_variant,,ENST00000555793,;"	"G"	"ENSG00000066455"	"ENST00000163416"	"Transcript"	"missense_variant"	"1570/2969"	"1314/2196"	"438/731"	"I/M"	"atA/atG"	""	"1"	NA	1	"GOLGA5"	"HGNC"	4428	"protein_coding"	"YES"	"CCDS9905.1"	"ENSP00000163416"	"Q8TBA6"	""	"UPI000013C5AA"	"NM_005113.3"	"deleterious(0)"	"probably_damaging(0.998)"	"6/13"	""	"Pfam_domain:PF09787,hmmpanther:PTHR13815:SF5,hmmpanther:PTHR13815"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"8e67b95c-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.298611111111111	"WXS"	TRUE
"38"	"SLC3A1"	6519	"mskcc.org"	"GRCh37"	"2"	44502871	44502871	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"rs773065474"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.197C>T"	"p.Ala66Val"	"p.A66V"	"ENST00000260649"	"1/10"	242	"215"	27	150	"150"	0	"SLC3A1,missense_variant,p.Ala66Val,ENST00000260649,NM_000341.3;SLC3A1,missense_variant,p.Ala66Val,ENST00000409229,;SLC3A1,missense_variant,p.Ala66Val,ENST00000409387,;SLC3A1,missense_variant,p.Ala66Val,ENST00000409741,;SLC3A1,missense_variant,p.Ala66Val,ENST00000410056,;AC013717.3,downstream_gene_variant,,ENST00000429825,;"	"T"	"ENSG00000138079"	"ENST00000260649"	"Transcript"	"missense_variant"	"273/2989"	"197/2058"	"66/685"	"A/V"	"gCg/gTg"	"rs773065474"	"1"	NA	1	"SLC3A1"	"HGNC"	11025	"protein_coding"	"YES"	"CCDS1819.1"	"ENSP00000260649"	"Q07837"	"E7ENC4"	"UPI000013D0F2"	"NM_000341.3"	"deleterious(0.05)"	"probably_damaging(0.998)"	"1/10"	""	"hmmpanther:PTHR10357,hmmpanther:PTHR10357:SF73"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	"4.708e-05"	"0"	"0"	"0.0001273"	"0"	"7.375e-05"	"0"	"0"	"1"	"PASS"	"GCG"	"8e7243fe-2834-11e6-b898-8e3f424a729f"	"."	4.719e-05	"5/105964"	"5/106210"	"0/9038"	"0/11166"	"1/7858"	"0/6586"	"4/54234"	"0/694"	"0/16388"	"PASS"	"TRUE"	0.111570247933884	"WXS"	FALSE
"39"	"ARHGAP15"	55843	"mskcc.org"	"GRCh37"	"2"	143959727	143959727	"+"	"Missense_Mutation"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.190T>A"	"p.Ser64Thr"	"p.S64T"	"ENST00000295095"	"3/14"	62	"58"	4	43	"43"	0	"ARHGAP15,missense_variant,p.Ser64Thr,ENST00000409869,;ARHGAP15,missense_variant,p.Ser64Thr,ENST00000295095,NM_018460.3;ARHGAP15,non_coding_transcript_exon_variant,,ENST00000460776,;ARHGAP15,non_coding_transcript_exon_variant,,ENST00000552641,;"	"A"	"ENSG00000075884"	"ENST00000295095"	"Transcript"	"missense_variant"	"357/1775"	"190/1428"	"64/475"	"S/T"	"Tca/Aca"	""	"1"	NA	1	"ARHGAP15"	"HGNC"	21030	"protein_coding"	"YES"	"CCDS2184.1"	"ENSP00000295095"	"Q53QZ3"	""	"UPI0000035D98"	"NM_018460.3"	"tolerated(0.06)"	"probably_damaging(0.955)"	"3/14"	""	"hmmpanther:PTHR23181,hmmpanther:PTHR23181:SF5"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"8e731e14-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0645161290322581	"WXS"	FALSE
"40"	"ITPR1"	3708	"mskcc.org"	"GRCh37"	"3"	4726012	4726012	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3501C>A"	"p.Asn1167Lys"	"p.N1167K"	"ENST00000302640"	"28/61"	207	"147"	60	109	"109"	0	"ITPR1,missense_variant,p.Asn1167Lys,ENST00000302640,NM_001168272.1;ITPR1,missense_variant,p.Asn1182Lys,ENST00000354582,;ITPR1,missense_variant,p.Asn1173Lys,ENST00000423119,NM_001099952.2;ITPR1,missense_variant,p.Asn1173Lys,ENST00000357086,;ITPR1,missense_variant,p.Asn1158Lys,ENST00000456211,NM_002222.5;ITPR1,missense_variant,p.Asn1167Lys,ENST00000443694,;ITPR1,intron_variant,,ENST00000544951,;"	"A"	"ENSG00000150995"	"ENST00000302640"	"Transcript"	"missense_variant"	"3851/10197"	"3501/8232"	"1167/2743"	"N/K"	"aaC/aaA"	""	"1"	NA	1	"ITPR1"	"HGNC"	6180	"protein_coding"	"YES"	"CCDS54551.1"	"ENSP00000306253"	"Q14643"	""	"UPI0000E5A461"	"NM_001168272.1"	"deleterious(0.04)"	"probably_damaging(0.998)"	"28/61"	""	"hmmpanther:PTHR13715:SF52,hmmpanther:PTHR13715,Gene3D:1n4kA02,Superfamily_domains:0048280"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"8e76f656-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.289855072463768	"WXS"	FALSE
"41"	"ITIH4"	3700	"mskcc.org"	"GRCh37"	"3"	52855092	52855092	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1594G>A"	"p.Glu532Lys"	"p.E532K"	"ENST00000266041"	"12/24"	129	"113"	16	86	"86"	0	"ITIH4,missense_variant,p.Glu532Lys,ENST00000266041,NM_002218.4;ITIH4,missense_variant,p.Glu532Lys,ENST00000346281,NM_001166449.1;ITIH4,missense_variant,p.Glu532Lys,ENST00000485816,;ITIH4,missense_variant,p.Glu532Lys,ENST00000406595,;ITIH4,missense_variant,p.Glu390Lys,ENST00000441637,;ITIH4,missense_variant,p.Glu444Lys,ENST00000434759,;ITIH4-AS1,upstream_gene_variant,,ENST00000478366,;ITIH4,intron_variant,,ENST00000484632,;ITIH4,downstream_gene_variant,,ENST00000467462,;ITIH4,upstream_gene_variant,,ENST00000471505,;RP5-966M1.6,3_prime_UTR_variant,,ENST00000468472,;ITIH4,non_coding_transcript_exon_variant,,ENST00000491663,;ITIH4,non_coding_transcript_exon_variant,,ENST00000537897,;ITIH4,non_coding_transcript_exon_variant,,ENST00000485894,;ITIH4,upstream_gene_variant,,ENST00000461966,;ITIH4,upstream_gene_variant,,ENST00000481977,;ITIH4,downstream_gene_variant,,ENST00000483372,;"	"T"	"ENSG00000055955"	"ENST00000266041"	"Transcript"	"missense_variant"	"1691/3336"	"1594/2793"	"532/930"	"E/K"	"Gag/Aag"	""	"1"	NA	-1	"ITIH4"	"HGNC"	6169	"protein_coding"	"YES"	"CCDS2865.1"	"ENSP00000266041"	"Q14624"	""	"UPI000013D6C3"	"NM_002218.4"	"tolerated(0.59)"	"benign(0.04)"	"12/24"	""	"hmmpanther:PTHR10338,hmmpanther:PTHR10338:SF98"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"8e77b654-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.124031007751938	"WXS"	FALSE
"42"	"FAT1"	2195	"mskcc.org"	"GRCh37"	"4"	187527249	187527249	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.10325G>A"	"p.Arg3442Lys"	"p.R3442K"	"ENST00000441802"	"17/27"	215	"161"	54	156	"156"	0	"FAT1,missense_variant,p.Arg3442Lys,ENST00000441802,NM_005245.3;FAT1,upstream_gene_variant,,ENST00000503253,;FAT1,downstream_gene_variant,,ENST00000508035,;"	"T"	"ENSG00000083857"	"ENST00000441802"	"Transcript"	"missense_variant"	"10535/14786"	"10325/13767"	"3442/4588"	"R/K"	"aGg/aAg"	""	"1"	NA	-1	"FAT1"	"HGNC"	3595	"protein_coding"	"YES"	"CCDS47177.1"	"ENSP00000406229"	"Q14517"	"D6RCE4"	"UPI000051946B"	"NM_005245.3"	""	"benign(0.001)"	"17/27"	""	"PROSITE_profiles:PS50268,hmmpanther:PTHR24026:SF40,hmmpanther:PTHR24026,Gene3D:2.60.40.60,Superfamily_domains:SSF49313"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"8e7af8a0-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"TRUE"	0.251162790697674	"WXS"	TRUE
"43"	"TRIP13"	9319	"mskcc.org"	"GRCh37"	"5"	912019	912019	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.928G>A"	"p.Val310Met"	"p.V310M"	"ENST00000166345"	"10/13"	270	"201"	69	159	"158"	1	"TRIP13,missense_variant,p.Val310Met,ENST00000166345,NM_004237.3;TRIP13,downstream_gene_variant,,ENST00000513435,;TRIP13,upstream_gene_variant,,ENST00000510412,;TRIP13,upstream_gene_variant,,ENST00000509210,;TRIP13,downstream_gene_variant,,ENST00000512024,;"	"A"	"ENSG00000071539"	"ENST00000166345"	"Transcript"	"missense_variant"	"1284/2672"	"928/1299"	"310/432"	"V/M"	"Gtg/Atg"	""	"1"	NA	1	"TRIP13"	"HGNC"	12307	"protein_coding"	"YES"	"CCDS3858.1"	"ENSP00000166345"	"Q15645"	""	"UPI0000048D6C"	"NM_004237.3"	"deleterious(0)"	"possibly_damaging(0.61)"	"10/13"	""	"Superfamily_domains:SSF52540,SMART_domains:SM00382,Gene3D:3.40.50.300,Pfam_domain:PF00004,PROSITE_patterns:PS00674,hmmpanther:PTHR23077"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"8e7b40f8-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.255555555555556	"WXS"	FALSE
"44"	"EPHA7"	2045	"mskcc.org"	"GRCh37"	"6"	94066756	94066756	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1003C>T"	"p.Pro335Ser"	"p.P335S"	"ENST00000369303"	"5/17"	181	"138"	43	86	"86"	0	"EPHA7,missense_variant,p.Pro335Ser,ENST00000369303,NM_004440.3,NM_001288629.1;"	"A"	"ENSG00000135333"	"ENST00000369303"	"Transcript"	"missense_variant"	"1188/6588"	"1003/2997"	"335/998"	"P/S"	"Cca/Tca"	""	"1"	NA	-1	"EPHA7"	"HGNC"	3390	"protein_coding"	"YES"	"CCDS5031.1"	"ENSP00000358309"	"Q15375"	""	"UPI0000044771"	"NM_004440.3,NM_001288629.1"	"deleterious(0.01)"	"probably_damaging(0.999)"	"5/17"	""	"PROSITE_profiles:PS50853,hmmpanther:PTHR24416:SF266,hmmpanther:PTHR24416,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,PIRSF_domain:PIRSF000666,Superfamily_domains:SSF49265"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"8e7f3f78-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.237569060773481	"WXS"	FALSE
"45"	"AIM1"	202	"mskcc.org"	"GRCh37"	"6"	106960431	106960431	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.215C>T"	"p.Ser72Phe"	"p.S72F"	"ENST00000369066"	"1/20"	326	"230"	96	149	"149"	0	"AIM1,missense_variant,p.Ser72Phe,ENST00000369066,NM_001624.2;"	"T"	"ENSG00000112297"	"ENST00000369066"	"Transcript"	"missense_variant"	"702/7544"	"215/5172"	"72/1723"	"S/F"	"tCc/tTc"	""	"1"	NA	1	"AIM1"	"HGNC"	356	"protein_coding"	"YES"	"CCDS34506.1"	"ENSP00000358062"	"Q9Y4K1"	"B3KPT0"	"UPI000013C91D"	"NM_001624.2"	"deleterious(0.01)"	"possibly_damaging(0.572)"	"1/20"	""	"Low_complexity_(Seg):seg"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"8e7f45ea-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.294478527607362	"WXS"	FALSE
"46"	"KIAA1919"	91749	"mskcc.org"	"GRCh37"	"6"	111585131	111585131	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"G"	"rs777717501"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.295A>G"	"p.Ile99Val"	"p.I99V"	"ENST00000368847"	"3/4"	282	"236"	46	150	"150"	0	"KIAA1919,missense_variant,p.Ile99Val,ENST00000368847,NM_153369.2;RP11-428F8.2,upstream_gene_variant,,ENST00000425364,;"	"G"	"ENSG00000173214"	"ENST00000368847"	"Transcript"	"missense_variant"	"648/5958"	"295/1557"	"99/518"	"I/V"	"Att/Gtt"	"rs777717501"	"1"	NA	1	"KIAA1919"	"HGNC"	21053	"protein_coding"	"YES"	"CCDS5090.1"	"ENSP00000357840"	"Q5TF39"	""	"UPI000013EF89"	"NM_153369.2"	"tolerated(0.15)"	"benign(0.005)"	"3/4"	""	"Transmembrane_helices:TMhelix,hmmpanther:PTHR23121:SF12,hmmpanther:PTHR23121,Pfam_domain:PF07690,Gene3D:1.20.1250.20,Superfamily_domains:SSF103473"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	"2.825e-05"	"0"	"0"	"0.0002543"	"0"	"1.841e-05"	"0"	"0"	NA	"PASS"	"AAT"	"8e7f5274-2834-11e6-b898-8e3f424a729f"	"."	2.825e-05	"3/106176"	"3/106210"	"0/9066"	"0/11216"	"2/7866"	"0/6614"	"1/54316"	"0/694"	"0/16404"	"PASS"	"TRUE"	0.163120567375887	"WXS"	FALSE
"47"	"CLVS2"	134829	"mskcc.org"	"GRCh37"	"6"	123384903	123384903	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.981C>G"	"p.Asp327Glu"	"p.D327E"	"ENST00000275162"	"6/6"	249	"181"	68	179	"179"	0	"CLVS2,missense_variant,p.Asp327Glu,ENST00000275162,NM_001010852.3;CLVS2,missense_variant,p.Asp181Glu,ENST00000368438,;"	"G"	"ENSG00000146352"	"ENST00000275162"	"Transcript"	"missense_variant"	"2316/11485"	"981/984"	"327/327"	"D/E"	"gaC/gaG"	""	"1"	NA	1	"CLVS2"	"HGNC"	23046	"protein_coding"	"YES"	"CCDS34525.1"	"ENSP00000275162"	"Q5SYC1"	""	"UPI000013DA49"	"NM_001010852.3"	"deleterious_low_confidence(0)"	"benign(0.076)"	"6/6"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"8e7f66b0-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.273092369477912	"WXS"	FALSE
"48"	"GNAQ"	2776	"mskcc.org"	"GRCh37"	"9"	80537095	80537095	"+"	"Nonsense_Mutation"	"SNP"	"G"	"G"	"T"	"rs200106152"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.303C>A"	"p.Tyr101Ter"	"p.Y101*"	"ENST00000286548"	"2/7"	87	"78"	9	43	"43"	0	"GNAQ,stop_gained,p.Tyr101Ter,ENST00000286548,NM_002072.3;GNAQ,stop_gained,p.Tyr72Ter,ENST00000411677,;"	"T"	"ENSG00000156052"	"ENST00000286548"	"Transcript"	"stop_gained"	"526/6539"	"303/1080"	"101/359"	"Y/*"	"taC/taA"	"rs200106152"	"1"	NA	-1	"GNAQ"	"HGNC"	4390	"protein_coding"	"YES"	"CCDS6658.1"	"ENSP00000286548"	"P50148"	"G3V1P7"	"UPI000006D0FB"	"NM_002072.3"	""	""	"2/7"	""	"hmmpanther:PTHR10218:SF184,hmmpanther:PTHR10218,Gene3D:1.10.400.10,Pfam_domain:PF00503,SMART_domains:SM00275,Superfamily_domains:SSF47895"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"HIGH"	"1"	"SNV"	NA	NA	""	"1"	"0.00613"	"0.0003316"	"0.003982"	"0.01062"	"0.0001521"	"0.00201"	"0.01335"	"0.01605"	"1"	"common_variant"	"TGT"	"8e8382e0-2834-11e6-b898-8e3f424a729f"	"."	0.004734	"493/104140"	"651/106206"	"3/9048"	"44/11050"	"82/7724"	"1/6574"	"108/53740"	"9/674"	"246/15330"	"VQSRTrancheSNP99.60to99.80"	"TRUE"	0.103448275862069	"WXS"	TRUE
"49"	"GNAQ"	2776	"mskcc.org"	"GRCh37"	"9"	80537112	80537112	"+"	"Missense_Mutation"	"SNP"	"T"	"T"	"A"	"rs753716491"	NA	"JHCCPT5"	"JHCCN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.286A>T"	"p.Thr96Ser"	"p.T96S"	"ENST00000286548"	"2/7"	117	"108"	9	61	"61"	0	"GNAQ,missense_variant,p.Thr96Ser,ENST00000286548,NM_002072.3;GNAQ,missense_variant,p.Thr67Ser,ENST00000411677,;"	"A"	"ENSG00000156052"	"ENST00000286548"	"Transcript"	"missense_variant"	"509/6539"	"286/1080"	"96/359"	"T/S"	"Aca/Tca"	"rs753716491,COSM404628"	"1"	NA	-1	"GNAQ"	"HGNC"	4390	"protein_coding"	"YES"	"CCDS6658.1"	"ENSP00000286548"	"P50148"	"G3V1P7"	"UPI000006D0FB"	"NM_002072.3"	"tolerated(0.23)"	"benign(0.001)"	"2/7"	""	"hmmpanther:PTHR10218:SF184,hmmpanther:PTHR10218,Gene3D:1.10.400.10,Pfam_domain:PF00503,SMART_domains:SM00275,Superfamily_domains:SSF47895"	""	""	""	NA	""	""	""	""	""	NA	"0,1"	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	"0,1"	"1"	"0.01498"	"0.00122"	"0.01421"	"0.03368"	"0.001681"	"0.005644"	"0.01988"	"0.04065"	"1"	"common_variant"	"GTG"	"8e8383c6-2834-11e6-b898-8e3f424a729f"	"."	0.01313	"1349/102728"	"1591/106206"	"11/9020"	"150/10558"	"244/7244"	"11/6542"	"302/53508"	"13/654"	"618/15202"	"VQSRTrancheSNP99.60to99.80"	"TRUE"	0.0769230769230769	"WXS"	TRUE
"50"	"CELA3A"	10136	"mskcc.org"	"GRCh37"	"1"	22332115	22332163	"+"	"Splice_Site"	"DEL"	"GAGCCAGTCAGGCCCCGACTGACCTCACCTCTGCCTGCAGGAGGGATCT"	"GAGCCAGTCAGGCCCCGACTGACCTCACCTCTGCCTGCAGGAGGGATCT"	"AGCCAGTCAGGCCCAGACTGACCTCACCTCCGCCCGCAGGAGCTCCTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GAGCCAGTCAGGCCCCGACTGACCTCACCTCTGCCTGCAGGAGGGATCT"	"GAGCCAGTCAGGCCCCGACTGACCTCACCTCTGCCTGCAGGAGGGATCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.228-40_236delGAGCCAGTCAGGCCCCGACTGACCTCACCTCTGCCTGCAGGAGGGATCTinsAGCCAGTCAGGCCCAGACTGACCTCACCTCCGCCCGCAGGAGCTCCTG"	""	"p.X76_splice"	"ENST00000290122"	"4/8"	269	"."	6	140	"."	0	"CELA3A,splice_acceptor_variant,,ENST00000290122,NM_005747.4;CELA3A,splice_acceptor_variant,,ENST00000374663,;CELA3A,upstream_gene_variant,,ENST00000400271,;RN7SL186P,upstream_gene_variant,,ENST00000466485,;RN7SL768P,upstream_gene_variant,,ENST00000584415,;"	"AGCCAGTCAGGCCCAGACTGACCTCACCTCCGCCCGCAGGAGCTCCTG"	"ENSG00000142789"	"ENST00000290122"	"Transcript"	"splice_acceptor_variant,coding_sequence_variant,intron_variant"	"?-255/887"	"?-236/813"	"?-79/270"	""	""	""	"1"	NA	1	"CELA3A"	"HGNC"	15944	"protein_coding"	"YES"	"CCDS220.1"	"ENSP00000290122"	"P09093"	"B1AQ52"	"UPI0000175BF8"	"NM_005747.4"	NA	NA	"4/8"	"3/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"HIGH"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGAGCCAGTCAGGCCCCGACTGACCTCACCTCTGCCTGCAGGAGGGATCTG"	"a1c181d8-280f-11e6-851e-0cd4414a729f"	"358"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"TRUE"	0.0223048327137546	"WXS"	FALSE
"51"	"DOCK7"	85440	"mskcc.org"	"GRCh37"	"1"	63044645	63044645	"+"	"Splice_Region"	"DEL"	"C"	"C"	"-"	"rs370717862"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1872-8delG"	""	""	"ENST00000340370"	""	103	"."	4	12	"."	0	"DOCK7,splice_region_variant,,ENST00000251157,NM_001272001.1,NM_001271999.1;DOCK7,splice_region_variant,,ENST00000340370,NM_033407.3,NM_001272000.1;"	"-"	"ENSG00000116641"	"ENST00000340370"	"Transcript"	"splice_region_variant,intron_variant"	"-/6864"	"-/6330"	"-/2109"	""	""	"rs370717862"	"1"	NA	-1	"DOCK7"	"HGNC"	19190	"protein_coding"	"YES"	"CCDS30734.1"	"ENSP00000340742"	"Q96N67"	""	"UPI000044FEA9"	"NM_033407.3,NM_001272000.1"	NA	NA	""	"16/48"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	""	"1"	"0.001542"	"0.001301"	"0.00124"	"0.002559"	"0.001016"	"0.001132"	"0"	"0.001624"	"1"	"common_variant"	"TACA"	"7c0530b6-280f-11e6-851e-0cd4414a729f"	"240"	0.00131	"110/83974"	"163/105704"	"9/6916"	"12/9680"	"16/6252"	"6/5904"	"50/44186"	"0/570"	"17/10466"	"VQSRTrancheINDEL99.50to99.90"	"TRUE"	0.0388349514563107	"WXS"	FALSE
"52"	"DBT"	1629	"mskcc.org"	"GRCh37"	"1"	100671861	100671861	"+"	"Splice_Region"	"DEL"	"T"	"T"	"-"	"rs201117345"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1210-4delA"	""	""	"ENST00000370132"	""	262	"."	7	63	"."	0	"DBT,splice_region_variant,,ENST00000370132,NM_001918.3;DBT,downstream_gene_variant,,ENST00000370131,;"	"-"	"ENSG00000137992"	"ENST00000370132"	"Transcript"	"splice_region_variant,intron_variant"	"-/10799"	"-/1449"	"-/482"	""	""	"rs201117345"	"1"	NA	-1	"DBT"	"HGNC"	2698	"protein_coding"	"YES"	"CCDS767.1"	"ENSP00000359151"	"P11182"	""	"UPI000013D0E7"	"NM_001918.3"	NA	NA	""	"9/10"	""	""	""	""	NA	""	""	""	""	""	"benign"	""	NA	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	"1"	"1"	"0.03992"	"0.01215"	"0.1103"	"0.01908"	"0.02674"	"0.04867"	"0.03984"	"0.04349"	"1"	"common_variant"	"TATT"	"82525322-280f-11e6-851e-0cd4414a729f"	"420"	0.04416	"3214/72780"	"4224/105806"	"89/7328"	"578/5242"	"121/6342"	"151/5648"	"1689/34704"	"20/502"	"566/13014"	"PASS"	"TRUE"	0.0267175572519084	"WXS"	FALSE
"53"	"TMCO1"	54499	"mskcc.org"	"GRCh37"	"1"	165712555	165712555	"+"	"Splice_Region"	"DEL"	"G"	"G"	"-"	"rs375021393"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.477-7delC"	""	""	"ENST00000367881"	""	85	"."	3	20	"."	0	"TMCO1,splice_region_variant,,ENST00000367881,;TMCO1,splice_region_variant,,ENST00000392129,NM_019026.4,NM_001256165.1;TMCO1,splice_region_variant,,ENST00000580248,;TMCO1,splice_region_variant,,ENST00000464650,;TMCO1,splice_region_variant,,ENST00000481278,;TMCO1,splice_region_variant,,ENST00000465705,;TMCO1,splice_region_variant,,ENST00000476143,;"	"-"	"ENSG00000143183"	"ENST00000367881"	"Transcript"	"splice_region_variant,intron_variant"	"-/2224"	"-/720"	"-/239"	""	""	"rs375021393"	"1"	NA	-1	"TMCO1"	"HGNC"	18188	"protein_coding"	"YES"	"CCDS1251.2"	"ENSP00000356856"	""	"J9JIE6,J3QQY2"	"UPI0000EE3C5A"	""	NA	NA	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	""	"1"	"0.001775"	"0.001697"	"0.001895"	"0.0008123"	"0.001395"	"0.001355"	"0"	"0.00178"	"1"	"common_variant"	"AAGA"	"92ea90a0-280f-11e6-851e-0cd4414a729f"	"180"	0.001459	"148/101422"	"188/105894"	"14/8248"	"20/10554"	"6/7386"	"9/6450"	"71/52390"	"0/668"	"28/15726"	"VQSRTrancheINDEL99.50to99.90"	"TRUE"	0.0352941176470588	"WXS"	FALSE
"54"	"LAMC1"	3915	"mskcc.org"	"GRCh37"	"1"	182993140	182993140	"+"	"Frame_Shift_Del"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.292delC"	"p.His98ThrfsTer9"	"p.H98Tfs*9"	"ENST00000258341"	"1/28"	341	"."	60	192	"."	0	"LAMC1,frameshift_variant,p.His98ThrfsTer9,ENST00000258341,NM_002293.3;"	"-"	"ENSG00000135862"	"ENST00000258341"	"Transcript"	"frameshift_variant"	"546/7889"	"289/4830"	"97/1609"	"P/X"	"Ccc/cc"	""	"1"	NA	1	"LAMC1"	"HGNC"	6492	"protein_coding"	"YES"	"CCDS1351.1"	"ENSP00000258341"	"P11047"	"R4GNC7"	"UPI000013CFC7"	"NM_002293.3"	NA	NA	"1/28"	""	"Gene3D:2.60.120.260,Pfam_domain:PF00055,PROSITE_profiles:PS51117,hmmpanther:PTHR10574,hmmpanther:PTHR10574:SF228,SMART_domains:SM00136"	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"HIGH"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCC"	"971a7df2-280f-11e6-851e-0cd4414a729f"	"3600"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"TRUE"	0.175953079178886	"WXS"	FALSE
"55"	"SERTAD4"	56256	"mskcc.org"	"GRCh37"	"1"	210411281	210411281	"+"	"Splice_Region"	"DEL"	"C"	"C"	"-"	"rs367742937"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17-8delC"	""	""	"ENST00000367012"	""	165	"."	5	66	"."	0	"SERTAD4,splice_region_variant,,ENST00000367012,NM_019605.3;SERTAD4-AS1,upstream_gene_variant,,ENST00000437764,;SERTAD4-AS1,upstream_gene_variant,,ENST00000475406,;SERTAD4-AS1,upstream_gene_variant,,ENST00000480052,;SERTAD4,splice_region_variant,,ENST00000490620,;SERTAD4,upstream_gene_variant,,ENST00000482421,;SERTAD4,upstream_gene_variant,,ENST00000483884,;"	"-"	"ENSG00000082497"	"ENST00000367012"	"Transcript"	"splice_region_variant,intron_variant"	"-/5219"	"-/1071"	"-/356"	""	""	"rs367742937"	"1"	NA	1	"SERTAD4"	"HGNC"	25236	"protein_coding"	"YES"	"CCDS1494.1"	"ENSP00000355979"	"Q9NUC0"	""	"UPI0000070BBE"	"NM_019605.3"	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	""	"1"	"0.000381"	"0.0001229"	"9.468e-05"	"0.0001342"	"0.001497"	"0.0001747"	"0"	"0.0003983"	NA	"PASS"	"TTCT"	"9b41635a-280f-11e6-851e-0cd4414a729f"	"300"	0.0002718	"27/99356"	"39/102362"	"1/8138"	"1/10562"	"1/7450"	"9/6012"	"9/51512"	"0/618"	"6/15064"	"VQSRTrancheINDEL99.50to99.90"	"TRUE"	0.0303030303030303	"WXS"	FALSE
"56"	"TRIM64C"	646754	"mskcc.org"	"GRCh37"	"11"	49076963	49076964	"+"	"Splice_Region"	"INS"	"-"	"-"	"A"	"rs34650085"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.753-5dupT"	""	""	"ENST00000530230"	""	95	"."	5	66	"."	0	"TRIM64C,splice_region_variant,,ENST00000530230,NM_001206631.1;"	"A"	"ENSG00000214891"	"ENST00000530230"	"Transcript"	"splice_region_variant,intron_variant"	"-/1344"	"-/1344"	"-/447"	""	""	"rs34650085"	"1"	NA	-1	"TRIM64C"	"HGNC"	37148	"protein_coding"	"YES"	""	"ENSP00000431987"	""	"E9PII4"	"UPI0001A5E484"	"NM_001206631.1"	NA	NA	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"LOW"	"1"	"insertion"	NA	NA	""	"1"	"0.1326"	"0.2155"	"0.07937"	"0.1618"	"0.07574"	"0.1907"	"0.09259"	"0.1261"	NA	"common_variant"	"GCA"	"960d655a-280f-11e6-891b-fbd3414a729f"	"300"	0.136	"1560/11468"	"1869/14096"	"50/232"	"10/126"	"22/136"	"103/1360"	"497/2606"	"15/162"	"863/6846"	"PASS"	"TRUE"	0.0526315789473684	"WXS"	FALSE
"57"	"B3GNT6"	192134	"mskcc.org"	"GRCh37"	"11"	76751584	76751603	"+"	"Frame_Shift_Del"	"DEL"	"CTGGCCCTTCGGCGTGCAGC"	"CTGGCCCTTCGGCGTGCAGC"	"GGCCCTTCGGCGTGCAGC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CTGGCCCTTCGGCGTGCAGC"	"CTGGCCCTTCGGCGTGCAGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.989_990delCT"	"p.Pro330ArgfsTer49"	"p.P330Rfs*49"	"ENST00000533140"	"2/2"	282	"."	26	262	"."	0	"B3GNT6,frameshift_variant,p.Pro330ArgfsTer49,ENST00000533140,NM_138706.4;B3GNT6,coding_sequence_variant,,ENST00000354301,;B3GNT6,coding_sequence_variant,,ENST00000421061,;B3GNT6,downstream_gene_variant,,ENST00000528622,;"	"-"	"ENSG00000198488"	"ENST00000533140"	"Transcript"	"frameshift_variant"	"1127-1128/2639"	"989-990/1158"	"330/385"	"P/X"	"cCT/c"	""	"1"	NA	1	"B3GNT6"	"HGNC"	24141	"protein_coding"	"YES"	"CCDS53681.1"	"ENSP00000435352"	"Q6ZMB0"	"E9PJ79"	"UPI00001FAFE0"	"NM_138706.4"	NA	NA	"2/2"	""	"hmmpanther:PTHR11214,hmmpanther:PTHR11214:SF24,Low_complexity_(Seg):seg"	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"HIGH"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTGGCCCTTCGGCGTGCAGCT"	"8ca5a7c0-280f-11e6-891b-fbd3414a729f"	"1560"	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0921985815602837	"WXS"	FALSE
"58"	"LDHB"	3945	"mskcc.org"	"GRCh37"	"12"	21791407	21791407	"+"	"Splice_Region"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.596-3delC"	""	""	"ENST00000396076"	""	299	"."	5	102	"."	0	"LDHB,splice_region_variant,,ENST00000396076,NM_001174097.1;LDHB,splice_region_variant,,ENST00000350669,NM_002300.6;LDHB,splice_region_variant,,ENST00000396075,;LDHB,non_coding_transcript_exon_variant,,ENST00000470985,;LDHB,upstream_gene_variant,,ENST00000542765,;"	"-"	"ENSG00000111716"	"ENST00000396076"	"Transcript"	"splice_region_variant,intron_variant"	"-/1538"	"-/1005"	"-/334"	""	""	""	"1"	NA	-1	"LDHB"	"HGNC"	6541	"protein_coding"	"YES"	"CCDS8691.1"	"ENSP00000379386"	"P07195"	"Q5U077,F5H793,C9J7H8,A8MW50"	"UPI000013C8F6"	"NM_001174097.1"	NA	NA	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTGT"	"6d11599a-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0167224080267559	"WXS"	FALSE
"59"	"KATNAL1"	84056	"mskcc.org"	"GRCh37"	"13"	30829756	30829757	"+"	"Splice_Region"	"DEL"	"AC"	"AC"	"-"	"rs769450350"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.324-5_324-4delGT"	""	""	"ENST00000380615"	""	106	"."	3	25	"."	0	"KATNAL1,splice_region_variant,,ENST00000380615,NM_032116.4;KATNAL1,splice_region_variant,,ENST00000380617,NM_001014380.2;KATNAL1,splice_region_variant,,ENST00000441394,;KATNAL1,splice_region_variant,,ENST00000414289,;"	"-"	"ENSG00000102781"	"ENST00000380615"	"Transcript"	"splice_region_variant,intron_variant"	"-/7551"	"-/1473"	"-/490"	""	""	"rs769450350"	"1"	NA	-1	"KATNAL1"	"HGNC"	28361	"protein_coding"	"YES"	"CCDS31956.1"	"ENSP00000369989"	"Q9BW62"	"Q5T558,A2A3H2"	"UPI000006F05B"	"NM_032116.4"	NA	NA	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	""	"1"	"4.027e-05"	"0.0002126"	"0"	"0"	"0.0006752"	"3.217e-05"	"0"	"0"	NA	"PASS"	"TGACA"	"686853d0-280f-11e6-b631-12d4414a729f"	"180"	7.266e-05	"4/55052"	"4/99318"	"1/4704"	"0/7016"	"0/3484"	"2/2962"	"1/31084"	"0/334"	"0/5468"	"VQSRTrancheINDEL99.50to99.90"	"TRUE"	0.0283018867924528	"WXS"	FALSE
"60"	"SOS2"	6655	"mskcc.org"	"GRCh37"	"14"	50585574	50585575	"+"	"Splice_Region"	"INS"	"-"	"-"	"A"	"rs10658395"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3490-4dupT"	""	""	"ENST00000216373"	""	85	"."	24	20	"."	1	"SOS2,splice_region_variant,,ENST00000216373,NM_006939.2;SOS2,splice_region_variant,,ENST00000543680,;VCPKMT,upstream_gene_variant,,ENST00000395860,NM_024558.2;VCPKMT,upstream_gene_variant,,ENST00000395859,NM_001040662.1;VCPKMT,upstream_gene_variant,,ENST00000484763,;VCPKMT,upstream_gene_variant,,ENST00000569518,;VCPKMT,upstream_gene_variant,,ENST00000491402,;"	"A"	"ENSG00000100485"	"ENST00000216373"	"Transcript"	"splice_region_variant,intron_variant"	"-/5489"	"-/3999"	"-/1332"	""	""	"rs10658395"	"1"	NA	-1	"SOS2"	"HGNC"	11188	"protein_coding"	"YES"	"CCDS9697.1"	"ENSP00000216373"	"Q07890"	"B4DJ05"	"UPI000013C6E8"	"NM_006939.2"	NA	NA	""	"22/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"LOW"	"1"	"insertion"	NA	NA	""	"1"	"0.5253"	"0.4598"	"0.5743"	"0.4534"	"0.5324"	"0.5736"	"0.5342"	"0.5128"	NA	"common_variant"	"TCA"	"818b7d88-280f-11e6-9f4f-03d4414a729f"	"1500"	0.5452	"41883/76820"	"52775/100472"	"2883/6270"	"5099/8878"	"2949/6504"	"3235/6076"	"23903/41674"	"250/468"	"3564/6950"	"PASS"	"TRUE"	0.282352941176471	"WXS"	FALSE
"61"	"RBBP6"	5930	"mskcc.org"	"GRCh37"	"16"	24564880	24564881	"+"	"Splice_Site"	"DEL"	"TA"	"TA"	"-"	"rs72133882"	NA	"JHCCPT5"	"JHCCPN5"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.348+17_348+18delAT"	""	"p.X116_splice"	"ENST00000319715"	""	161	"."	5	39	"."	0	"RBBP6,splice_donor_variant,,ENST00000319715,NM_006910.4;RBBP6,splice_donor_variant,,ENST00000348022,NM_018703.3;RBBP6,splice_donor_variant,,ENST00000381039,;RBBP6,splice_donor_variant,,ENST00000564314,;RBBP6,splice_donor_variant,,ENST00000567686,;RBBP6,splice_donor_variant,,ENST00000568015,;RBBP6,downstream_gene_variant,,ENST00000452655,NM_032626.5;RBBP6,splice_donor_variant,,ENST00000564726,;RBBP6,upstream_gene_variant,,ENST00000562430,;RBBP6,upstream_gene_variant,,ENST00000562683,;"	"-"	"ENSG00000122257"	"ENST00000319715"	"Transcript"	"splice_donor_variant,intron_variant"	"-/6229"	"348/5379"	"116/1792"	""	""	"rs72133882,COSM132840"	"1"	NA	1	"RBBP6"	"HGNC"	9889	"protein_coding"	"YES"	"CCDS10621.1"	"ENSP00000317872"	"Q7Z6E9"	"I3L3Y2,H3BUN0,H3BSK8"	"UPI00001A96B8"	"NM_006910.4"	NA	NA	""	"4/17"	""	""	""	""	NA	""	""	""	""	""	""	"0,1"	NA	""	NA	""	NA	"HIGH"	"1"	"deletion"	NA	"15"	"0,1"	"1"	"0.5505"	"0.6356"	"0.5491"	"0.4992"	"0.5462"	"0.5352"	"0.5605"	"0.5815"	NA	"common_variant"	"GGTAT"	"6f4a69d6-280f-11e6-b86a-fad3414a729f"	"300"	0.5498	"53441/97192"	"58338/105970"	"4838/7612"	"5803/10568"	"3652/7316"	"3405/6234"	"26711/49906"	"352/628"	"8680/14928"	"InbreedingCoeff_Filter"	"TRUE"	0.031055900621118	"WXS"	FALSE
"62"	"NPEPPS"	9520	"mskcc.org"	"GRCh37"	"17"	45669428	45669429	"+"	"Splice_Region"	"INS"	"-"	"-"	"AAA"	"rs59875832"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1365+9_1365+11dupAAA"	""	""	"ENST00000322157"	""	214	"."	5	102	"."	0	"NPEPPS,splice_region_variant,,ENST00000322157,NM_006310.3;NPEPPS,splice_region_variant,,ENST00000530173,;NPEPPS,splice_region_variant,,ENST00000544660,;NPEPPS,splice_region_variant,,ENST00000527964,;NPEPPS,splice_region_variant,,ENST00000527360,;NPEPPS,splice_region_variant,,ENST00000525037,;NPEPPS,splice_region_variant,,ENST00000534814,;NPEPPS,splice_region_variant,,ENST00000602788,;NPEPPS,splice_region_variant,,ENST00000530514,;NPEPPS,splice_region_variant,,ENST00000527298,;NPEPPS,splice_region_variant,,ENST00000533538,;NPEPPS,splice_region_variant,,ENST00000525021,;NPEPPS,splice_region_variant,,ENST00000529602,;NPEPPS,upstream_gene_variant,,ENST00000534807,;"	"AAA"	"ENSG00000141279"	"ENST00000322157"	"Transcript"	"splice_region_variant,intron_variant"	"-/4353"	"-/2760"	"-/919"	""	""	"rs59875832,COSM980461"	"1"	NA	1	"NPEPPS"	"HGNC"	7900	"protein_coding"	"YES"	"CCDS45721.1"	"ENSP00000320324"	"P55786"	"E9PJ74,B7Z1H4"	"UPI0000140D51"	"NM_006310.3"	NA	NA	""	"11/22"	""	"-:0.4555"	"A:0.3767"	"A:0.6527"	NA	"A:0.6647"	"A:0.5358"	"A:0.5798"	""	""	""	"0,1"	NA	""	NA	""	NA	"LOW"	"1"	"insertion"	NA	"9"	"0,1"	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"9212d318-280f-11e6-9a6e-06d4414a729f"	"101"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"TRUE"	0.0233644859813084	"WXS"	FALSE
"63"	"ZNF880"	400713	"mskcc.org"	"GRCh37"	"19"	52888075	52889216	"+"	"Missense_Mutation"	"DEL"	"CAAAGCATTTAGAGACTGTTCAGGCCTTACTGCCCATCTACTAATTCACACTGGAGAGAAACCTTACAAATGTAAAGAATGTGCCAAGGTCTTCAGGCATAGATTATCCCTAAGCAATCATCAGAGATTTCATACTGGAGAGAAACCTTACAGATGTGATGAATGTGGCAAGGACTTCACTCGAAATTCAAACCTTGCAAATCATCACAGAATCCATACTGGAGAGAAACCTTACAAATGCAGTGAATGTCACAAAGTCTTTAGTCACAATTCACACCTTGCACGACATAGGCAAATTCATACTGGAGAGAAGTCTTACAAATGCAATGAATGTGGCAAGGTCTTCAGCCACAAGTTATACCTAAAAAAACATGAGAGAATTCATACTGGGGAGAAACCGTACAGATGTCATGAATGTGGTAAGGACTTCACTCGAAATTCAAACCTGGCAAATCATCACAGAATCCATACTGGAGAGAAACCGTACAGATGAAATGTGTGTGGTAAGATCTTTAGTAATAATTCACACCTTGCACAGCATGAGATAATTCATTCATGAGAGAGTTCTTACAAACTGAGTATGGCAAACTCTTCATGCTAAGTTCTAGCATTAATCAACATCAGAGATTCCATACTAAAGAGAAATCATAGCAATGTATGTGAATCAGGTCTCTTGAGGCCTGCCAAATGACTAGATATCAAAACATACATCTTGGATGAAACCATACAGATGGATTATGTATGCTGAGGCTATTATTCAAGGACCATTACTATGGAACATGATAAGATTTACACAAGCGATAATTCAGTCTCTAGTTCTCCAATATTTATGATACTGCATGCTGCAGAAAAGTCACAGCTCCAAATACGTTGAATCTCATGACGCGATGCATGTCGAAGGTCCAAGGGCATGTGGAAATGGTCAGTTATATTCAGGCAATTAAAAAACCTAATTATATGGGGTTTTTTGAAAAGGCTACTTTACATTTTATGACTTTCATCCTCAACTCTGAAATCACTTCATGTGACTTCTTTACAGACCTTTCACTGTGGTCTCTTGAATCAGTAGGATGCTGGGCGCGGTGGCTCCCGCCTGTAATCTCAGTACTTTTGGGAGGCTGAGGCGGGCGGATCACGAGGTT"	"CAAAGCATTTAGAGACTGTTCAGGCCTTACTGCCCATCTACTAATTCACACTGGAGAGAAACCTTACAAATGTAAAGAATGTGCCAAGGTCTTCAGGCATAGATTATCCCTAAGCAATCATCAGAGATTTCATACTGGAGAGAAACCTTACAGATGTGATGAATGTGGCAAGGACTTCACTCGAAATTCAAACCTTGCAAATCATCACAGAATCCATACTGGAGAGAAACCTTACAAATGCAGTGAATGTCACAAAGTCTTTAGTCACAATTCACACCTTGCACGACATAGGCAAATTCATACTGGAGAGAAGTCTTACAAATGCAATGAATGTGGCAAGGTCTTCAGCCACAAGTTATACCTAAAAAAACATGAGAGAATTCATACTGGGGAGAAACCGTACAGATGTCATGAATGTGGTAAGGACTTCACTCGAAATTCAAACCTGGCAAATCATCACAGAATCCATACTGGAGAGAAACCGTACAGATGAAATGTGTGTGGTAAGATCTTTAGTAATAATTCACACCTTGCACAGCATGAGATAATTCATTCATGAGAGAGTTCTTACAAACTGAGTATGGCAAACTCTTCATGCTAAGTTCTAGCATTAATCAACATCAGAGATTCCATACTAAAGAGAAATCATAGCAATGTATGTGAATCAGGTCTCTTGAGGCCTGCCAAATGACTAGATATCAAAACATACATCTTGGATGAAACCATACAGATGGATTATGTATGCTGAGGCTATTATTCAAGGACCATTACTATGGAACATGATAAGATTTACACAAGCGATAATTCAGTCTCTAGTTCTCCAATATTTATGATACTGCATGCTGCAGAAAAGTCACAGCTCCAAATACGTTGAATCTCATGACGCGATGCATGTCGAAGGTCCAAGGGCATGTGGAAATGGTCAGTTATATTCAGGCAATTAAAAAACCTAATTATATGGGGTTTTTTGAAAAGGCTACTTTACATTTTATGACTTTCATCCTCAACTCTGAAATCACTTCATGTGACTTCTTTACAGACCTTTCACTGTGGTCTCTTGAATCAGTAGGATGCTGGGCGCGGTGGCTCCCGCCTGTAATCTCAGTACTTTTGGGAGGCTGAGGCGGGCGGATCACGAGGTT"	"GAGGCCGAGGCGGGTGGATCATGAGGTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CAAAGCATTTAGAGACTGTTCAGGCCTTACTGCCCATCTACTAATTCACACTGGAGAGAAACCTTACAAATGTAAAGAATGTGCCAAGGTCTTCAGGCATAGATTATCCCTAAGCAATCATCAGAGATTTCATACTGGAGAGAAACCTTACAGATGTGATGAATGTGGCAAGGACTTCACTCGAAATTCAAACCTTGCAAATCATCACAGAATCCATACTGGAGAGAAACCTTACAAATGCAGTGAATGTCACAAAGTCTTTAGTCACAATTCACACCTTGCACGACATAGGCAAATTCATACTGGAGAGAAGTCTTACAAATGCAATGAATGTGGCAAGGTCTTCAGCCACAAGTTATACCTAAAAAAACATGAGAGAATTCATACTGGGGAGAAACCGTACAGATGTCATGAATGTGGTAAGGACTTCACTCGAAATTCAAACCTGGCAAATCATCACAGAATCCATACTGGAGAGAAACCGTACAGATGAAATGTGTGTGGTAAGATCTTTAGTAATAATTCACACCTTGCACAGCATGAGATAATTCATTCATGAGAGAGTTCTTACAAACTGAGTATGGCAAACTCTTCATGCTAAGTTCTAGCATTAATCAACATCAGAGATTCCATACTAAAGAGAAATCATAGCAATGTATGTGAATCAGGTCTCTTGAGGCCTGCCAAATGACTAGATATCAAAACATACATCTTGGATGAAACCATACAGATGGATTATGTATGCTGAGGCTATTATTCAAGGACCATTACTATGGAACATGATAAGATTTACACAAGCGATAATTCAGTCTCTAGTTCTCCAATATTTATGATACTGCATGCTGCAGAAAAGTCACAGCTCCAAATACGTTGAATCTCATGACGCGATGCATGTCGAAGGTCCAAGGGCATGTGGAAATGGTCAGTTATATTCAGGCAATTAAAAAACCTAATTATATGGGGTTTTTTGAAAAGGCTACTTTACATTTTATGACTTTCATCCTCAACTCTGAAATCACTTCATGTGACTTCTTTACAGACCTTTCACTGTGGTCTCTTGAATCAGTAGGATGCTGGGCGCGGTGGCTCCCGCCTGTAATCTCAGTACTTTTGGGAGGCTGAGGCGGGCGGATCACGAGGTT"	"CAAAGCATTTAGAGACTGTTCAGGCCTTACTGCCCATCTACTAATTCACACTGGAGAGAAACCTTACAAATGTAAAGAATGTGCCAAGGTCTTCAGGCATAGATTATCCCTAAGCAATCATCAGAGATTTCATACTGGAGAGAAACCTTACAGATGTGATGAATGTGGCAAGGACTTCACTCGAAATTCAAACCTTGCAAATCATCACAGAATCCATACTGGAGAGAAACCTTACAAATGCAGTGAATGTCACAAAGTCTTTAGTCACAATTCACACCTTGCACGACATAGGCAAATTCATACTGGAGAGAAGTCTTACAAATGCAATGAATGTGGCAAGGTCTTCAGCCACAAGTTATACCTAAAAAAACATGAGAGAATTCATACTGGGGAGAAACCGTACAGATGTCATGAATGTGGTAAGGACTTCACTCGAAATTCAAACCTGGCAAATCATCACAGAATCCATACTGGAGAGAAACCGTACAGATGAAATGTGTGTGGTAAGATCTTTAGTAATAATTCACACCTTGCACAGCATGAGATAATTCATTCATGAGAGAGTTCTTACAAACTGAGTATGGCAAACTCTTCATGCTAAGTTCTAGCATTAATCAACATCAGAGATTCCATACTAAAGAGAAATCATAGCAATGTATGTGAATCAGGTCTCTTGAGGCCTGCCAAATGACTAGATATCAAAACATACATCTTGGATGAAACCATACAGATGGATTATGTATGCTGAGGCTATTATTCAAGGACCATTACTATGGAACATGATAAGATTTACACAAGCGATAATTCAGTCTCTAGTTCTCCAATATTTATGATACTGCATGCTGCAGAAAAGTCACAGCTCCAAATACGTTGAATCTCATGACGCGATGCATGTCGAAGGTCCAAGGGCATGTGGAAATGGTCAGTTATATTCAGGCAATTAAAAAACCTAATTATATGGGGTTTTTTGAAAAGGCTACTTTACATTTTATGACTTTCATCCTCAACTCTGAAATCACTTCATGTGACTTCTTTACAGACCTTTCACTGTGGTCTCTTGAATCAGTAGGATGCTGGGCGCGGTGGCTCCCGCCTGTAATCTCAGTACTTTTGGGAGGCTGAGGCGGGCGGATCACGAGGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000422689"	"4/4"	236	"."	5	89	"."	0	"ZNF880,coding_sequence_variant,,ENST00000422689,NM_001145434.1;ZNF880,downstream_gene_variant,,ENST00000600321,;ZNF880,downstream_gene_variant,,ENST00000424032,;CTD-3018O17.3,downstream_gene_variant,,ENST00000601562,;CTD-3018O17.3,downstream_gene_variant,,ENST00000594119,;"	"GAGGCCGAGGCGGGTGGATCATGAGGTC"	"ENSG00000221923"	"ENST00000422689"	"Transcript"	"coding_sequence_variant,3_prime_UTR_variant"	"1257-?/2230"	"1242-?/1734"	"414-?/577"	""	""	""	"1"	NA	1	"ZNF880"	"HGNC"	37249	"protein_coding"	"YES"	"CCDS46164.1"	"ENSP00000406318"	"Q6PDB4"	""	"UPI00001D818D"	"NM_001145434.1"	NA	NA	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCAAAGCATTTAGAGACTGTTCAGGCCTTACTGCCCATCTACTAATTCACACTGGAGAGAAACCTTACAAATGTAAAGAATGTGCCAAGGTCTTCAGGCATAGATTATCCCTAAGCAATCATCAGAGATTTCATACTGGAGAGAAACCTTACAGATGTGATGAATGTGGCAAGGACTTCACTCGAAATTCAAACCTTGCAAATCATCACAGAATCCATACTGGAGAGAAACCTTACAAATGCAGTGAATGTCACAAAGTCTTTAGTCACAATTCACACCTTGCACGACATAGGCAAATTCATACTGGAGAGAAGTCTTACAAATGCAATGAATGTGGCAAGGTCTTCAGCCACAAGTTATACCTAAAAAAACATGAGAGAATTCATACTGGGGAGAAACCGTACAGATGTCATGAATGTGGTAAGGACTTCACTCGAAATTCAAACCTGGCAAATCATCACAGAATCCATACTGGAGAGAAACCGTACAGATGAAATGTGTGTGGTAAGATCTTTAGTAATAATTCACACCTTGCACAGCATGAGATAATTCATTCATGAGAGAGTTCTTACAAACTGAGTATGGCAAACTCTTCATGCTAAGTTCTAGCATTAATCAACATCAGAGATTCCATACTAAAGAGAAATCATAGCAATGTATGTGAATCAGGTCTCTTGAGGCCTGCCAAATGACTAGATATCAAAACATACATCTTGGATGAAACCATACAGATGGATTATGTATGCTGAGGCTATTATTCAAGGACCATTACTATGGAACATGATAAGATTTACACAAGCGATAATTCAGTCTCTAGTTCTCCAATATTTATGATACTGCATGCTGCAGAAAAGTCACAGCTCCAAATACGTTGAATCTCATGACGCGATGCATGTCGAAGGTCCAAGGGCATGTGGAAATGGTCAGTTATATTCAGGCAATTAAAAAACCTAATTATATGGGGTTTTTTGAAAAGGCTACTTTACATTTTATGACTTTCATCCTCAACTCTGAAATCACTTCATGTGACTTCTTTACAGACCTTTCACTGTGGTCTCTTGAATCAGTAGGATGCTGGGCGCGGTGGCTCCCGCCTGTAATCTCAGTACTTTTGGGAGGCTGAGGCGGGCGGATCACGAGGTTA"	"85a0b0f0-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL99.50to99.90"	"TRUE"	0.0211864406779661	"WXS"	FALSE
"64"	"PREPL"	9581	"mskcc.org"	"GRCh37"	"2"	44569696	44569698	"+"	"Splice_Region"	"DEL"	"AAG"	"AAG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.617-7_617-5delCTT"	""	""	"ENST00000409936"	""	75	"."	3	21	"."	0	"PREPL,splice_region_variant,,ENST00000541738,NM_001171617.1;PREPL,splice_region_variant,,ENST00000409936,NM_001171606.1;PREPL,splice_region_variant,,ENST00000409411,NM_001171613.1;PREPL,splice_region_variant,,ENST00000409957,;PREPL,splice_region_variant,,ENST00000260648,NM_006036.4;PREPL,splice_region_variant,,ENST00000410081,;PREPL,splice_region_variant,,ENST00000409272,NM_001171603.1;PREPL,splice_region_variant,,ENST00000378511,NM_001042385.2;PREPL,splice_region_variant,,ENST00000378520,NM_001042386.2;PREPL,downstream_gene_variant,,ENST00000438314,;PREPL,downstream_gene_variant,,ENST00000540817,;PREPL,downstream_gene_variant,,ENST00000477410,;PREPL,splice_region_variant,,ENST00000426481,;PREPL,splice_region_variant,,ENST00000425263,;"	"-"	"ENSG00000138078"	"ENST00000409936"	"Transcript"	"splice_region_variant,intron_variant"	"-/5212"	"-/2184"	"-/727"	""	""	""	"1"	NA	-1	"PREPL"	"HGNC"	30228	"protein_coding"	"YES"	"CCDS33190.1"	"ENSP00000386543"	"Q4J6C6"	"C9JMT4"	"UPI0000208358"	"NM_001171606.1"	NA	NA	""	"5/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAAAGA"	"6d3cef1a-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.04	"WXS"	FALSE
"65"	"EIF5B"	9669	"mskcc.org"	"GRCh37"	"2"	99995474	99995474	"+"	"Splice_Region"	"DEL"	"A"	"A"	"-"	"rs374074548"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1843-8delA"	""	""	"ENST00000289371"	""	110	"."	6	11	"."	0	"EIF5B,splice_region_variant,,ENST00000289371,NM_015904.3;"	"-"	"ENSG00000158417"	"ENST00000289371"	"Transcript"	"splice_region_variant,intron_variant"	"-/5777"	"-/3663"	"-/1220"	""	""	"rs374074548"	"1"	NA	1	"EIF5B"	"HGNC"	30793	"protein_coding"	"YES"	"CCDS42721.1"	"ENSP00000289371"	"O60841"	"D3DVI5"	"UPI0000207EC7"	"NM_015904.3"	NA	NA	""	"10/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	""	"1"	"0.0008075"	"0.0004744"	"0.0008632"	"0.0007533"	"0.001125"	"0.0002729"	"0.003571"	"0.0002148"	NA	"common_variant"	"TTAT"	"75d62948-280f-11e6-b562-0633424a729f"	"360"	0.0004564	"37/81072"	"85/105268"	"3/6324"	"8/9268"	"4/5310"	"6/5334"	"11/40308"	"2/560"	"3/13968"	"VQSRTrancheINDEL99.50to99.90"	"TRUE"	0.0545454545454545	"WXS"	FALSE
"66"	"NEB"	4703	"mskcc.org"	"GRCh37"	"2"	152473986	152473986	"+"	"Splice_Region"	"DEL"	"C"	"C"	"-"	"rs374864873"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.11077-4delG"	""	""	"ENST00000397345"	""	107	"."	3	31	"."	0	"NEB,splice_region_variant,,ENST00000397345,NM_001164508.1;NEB,splice_region_variant,,ENST00000427231,NM_001164507.1,NM_001271208.1;NEB,splice_region_variant,,ENST00000603639,;NEB,splice_region_variant,,ENST00000604864,;NEB,splice_region_variant,,ENST00000409198,NM_004543.4;NEB,splice_region_variant,,ENST00000172853,;NEB,non_coding_transcript_exon_variant,,ENST00000486320,;"	"-"	"ENSG00000183091"	"ENST00000397345"	"Transcript"	"splice_region_variant,intron_variant"	"-/26202"	"-/25578"	"-/8525"	""	""	"rs374864873"	"1"	NA	-1	"NEB"	"HGNC"	7720	"protein_coding"	"YES"	"CCDS54407.1"	"ENSP00000380505"	""	"H7C2D0,F8WCL5"	"UPI0002065BA0"	"NM_001164508.1"	NA	NA	""	"74/181"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	""	"1"	"0.000426"	"0.001848"	"0"	"0.01667"	"0.002132"	"0.002089"	"0"	"0.002513"	"1"	"PASS"	"TACA"	"7cdf3658-280f-11e6-b562-0633424a729f"	"180"	0.002214	"12/5420"	"16/37562"	"2/1082"	"0/92"	"1/60"	"2/938"	"5/2394"	"0/58"	"2/796"	"VQSRTrancheINDEL99.50to99.90"	"TRUE"	0.0280373831775701	"WXS"	FALSE
"67"	"AQP12B"	653437	"mskcc.org"	"GRCh37"	"2"	241621800	241621800	"+"	"Frame_Shift_Del"	"DEL"	"C"	"C"	"-"	"rs201917032"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.455delG"	"p.Ser152ThrfsTer24"	"p.S152Tfs*24"	"ENST00000407834"	"1/3"	13	"."	5	6	"."	0	"AQP12B,frameshift_variant,p.Ser152ThrfsTer24,ENST00000407834,NM_001102467.1;AC011298.1,downstream_gene_variant,,ENST00000599492,;AC011298.2,upstream_gene_variant,,ENST00000407635,;AQP12B,upstream_gene_variant,,ENST00000459806,;AQP12B,3_prime_UTR_variant,,ENST00000414322,;AQP12B,3_prime_UTR_variant,,ENST00000413999,;AQP12B,3_prime_UTR_variant,,ENST00000452886,;"	"-"	"ENSG00000185176"	"ENST00000407834"	"Transcript"	"frameshift_variant"	"518/1094"	"455/924"	"152/307"	"S/X"	"aGc/ac"	"rs201917032,COSM111410"	"1"	NA	-1	"AQP12B"	"HGNC"	6096	"protein_coding"	"YES"	"CCDS46560.1"	"ENSP00000384894"	"A6NM10"	""	"UPI0000F705B9"	"NM_001102467.1"	NA	NA	"1/3"	""	"Gene3D:1.20.1080.10,Pfam_domain:PF00230,PIRSF_domain:PIRSF017529,Prints_domain:PR02025,hmmpanther:PTHR21191,hmmpanther:PTHR21191:SF8,Superfamily_domains:SSF81338"	"-:0.2320"	"-:0.2602"	"-:0.1859"	NA	"-:0.3621"	"-:0.1372"	"-:0.1902"	"-:0.2906"	"-:0.1473"	""	"0,1"	NA	""	NA	""	NA	"HIGH"	"1"	"deletion"	NA	NA	"0,1"	"1"	"0.1372"	"0.4307"	"0.3393"	"0.4587"	"0.341"	"0.3064"	"0.3782"	"0.2677"	NA	"common_variant"	"AGCT"	"8fac5cd4-280f-11e6-b562-0633424a729f"	"234"	0.3291	"7988/24272"	"13754/100260"	"913/2120"	"1275/3758"	"1123/2448"	"223/654"	"2715/8860"	"59/156"	"1680/6276"	"PASS"	"TRUE"	0.384615384615385	"WXS"	FALSE
"68"	"TASP1"	55617	"mskcc.org"	"GRCh37"	"20"	13561632	13561633	"+"	"Splice_Region"	"INS"	"-"	"-"	"TA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.404-5_404-4insTA"	""	""	"ENST00000337743"	""	196	"."	9	51	"."	0	"TASP1,splice_region_variant,,ENST00000337743,NM_017714.2;TASP1,splice_region_variant,,ENST00000455532,;TASP1,intron_variant,,ENST00000539805,;TASP1,splice_region_variant,,ENST00000480436,;TASP1,splice_region_variant,,ENST00000465381,;"	"TA"	"ENSG00000089123"	"ENST00000337743"	"Transcript"	"splice_region_variant,intron_variant"	"-/2352"	"-/1263"	"-/420"	""	""	""	"1"	NA	-1	"TASP1"	"HGNC"	15859	"protein_coding"	"YES"	"CCDS13116.1"	"ENSP00000338624"	"Q9H6P5"	""	"UPI00000382E5"	"NM_017714.2"	NA	NA	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"LOW"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"757cd3b6-280f-11e6-8904-1133424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"TRUE"	0.0459183673469388	"WXS"	FALSE
"69"	"ADARB1"	104	"mskcc.org"	"GRCh37"	"21"	46604382	46604382	"+"	"Splice_Region"	"DEL"	"G"	"G"	"-"	"rs776253735"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1397-7delG"	""	""	"ENST00000539173"	""	87	"."	3	16	"."	0	"ADARB1,splice_region_variant,,ENST00000539173,NM_015833.3;ADARB1,splice_region_variant,,ENST00000360697,;ADARB1,splice_region_variant,,ENST00000389863,NM_015834.3;ADARB1,intron_variant,,ENST00000348831,NM_001112.3,NM_001160230.1;ADARB1,intron_variant,,ENST00000437626,;ADARB1,splice_region_variant,,ENST00000496664,;ADARB1,intron_variant,,ENST00000389861,;ADARB1,intron_variant,,ENST00000492414,;"	"-"	"ENSG00000197381"	"ENST00000539173"	"Transcript"	"splice_region_variant,intron_variant"	"-/7027"	"-/2226"	"-/741"	""	""	"rs776253735"	"1"	NA	1	"ADARB1"	"HGNC"	226	"protein_coding"	"YES"	"CCDS33589.1"	"ENSP00000441897"	"P78563"	"C9JUP4"	"UPI0000133622"	"NM_015833.3"	NA	NA	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"6fd7220e-280f-11e6-ac05-1333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0344827586206897	"WXS"	FALSE
"70"	"FANCD2"	2177	"mskcc.org"	"GRCh37"	"3"	10088408	10088412	"+"	"Splice_Site"	"DEL"	"GTAAG"	"GTAAG"	"T"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GTAAG"	"GTAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1278+1_1278+5delGTAAGinsT"	""	"p.X426_splice"	"ENST00000287647"	""	37	"."	4	17	"."	0	"FANCD2,splice_donor_variant,,ENST00000287647,NM_033084.3;FANCD2,splice_donor_variant,,ENST00000419585,;FANCD2,splice_donor_variant,,ENST00000383807,NM_001018115.1;FANCD2,splice_donor_variant,,ENST00000383806,;FANCD2,splice_donor_variant,,ENST00000483276,;FANCD2,splice_donor_variant,,ENST00000464934,;FANCD2,upstream_gene_variant,,ENST00000421731,;"	"T"	"ENSG00000144554"	"ENST00000287647"	"Transcript"	"splice_donor_variant,intron_variant"	"-/5219"	"1278/4416"	"426/1471"	""	""	""	"1"	NA	1	"FANCD2"	"HGNC"	3585	"protein_coding"	"YES"	"CCDS2595.1"	"ENSP00000287647"	"Q9BXW9"	""	"UPI000006F678"	"NM_033084.3"	NA	NA	""	"15/42"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"HIGH"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAGTAAGT"	"8144ad7c-280f-11e6-8b65-0333424a729f"	"87"	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL99.50to99.90"	"TRUE"	0.108108108108108	"WXS"	TRUE
"71"	"HTT"	3064	"mskcc.org"	"GRCh37"	"4"	3076603	3076604	"+"	"In_Frame_Ins"	"INS"	"-"	"-"	"CAGCAGCAGCAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.99_110dupGCAGCAGCAGCA"	"p.Gln35_Gln38dup"	"p.Q35_Q38dup"	"ENST00000355072"	"1/67"	67	"."	4	18	"."	0	"HTT,inframe_insertion,p.Gln35_Gln38dup,ENST00000355072,NM_002111.6;HTT-AS,upstream_gene_variant,,ENST00000503893,;"	"CAGCAGCAGCAG"	"ENSG00000197386"	"ENST00000355072"	"Transcript"	"inframe_insertion"	"196-197/13464"	"51-52/9429"	"17-18/3142"	"-/QQQQ"	"-/CAGCAGCAGCAG"	""	"1"	NA	1	"HTT"	"HGNC"	4851	"protein_coding"	"YES"	"CCDS43206.1"	"ENSP00000347184"	"P42858"	"D3DVR8,D2CTD8,D2CTD7,D2CTD4,D2CTD2"	"UPI000013D567"	"NM_002111.6"	NA	NA	"1/67"	""	"Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR10170,hmmpanther:PTHR10170:SF10,Superfamily_domains:SSF81995"	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODERATE"	"1"	"insertion"	NA	"59"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"830ecad4-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"TRUE"	0.0597014925373134	"WXS"	FALSE
"72"	"PPA2"	27068	"mskcc.org"	"GRCh37"	"4"	106317499	106317502	"+"	"Splice_Region"	"DEL"	"CAAA"	"CAAA"	"-"	"rs34331553"	NA	"JHCCPT5"	"JHCCPN5"	"CAAA"	"CAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.784-11_784-8delTTTG"	""	""	"ENST00000341695"	""	177	"."	66	17	"."	3	"PPA2,splice_region_variant,,ENST00000341695,NM_176869.2;PPA2,splice_region_variant,,ENST00000348706,NM_006903.4;PPA2,splice_region_variant,,ENST00000357415,;PPA2,splice_region_variant,,ENST00000380004,;PPA2,splice_region_variant,,ENST00000432483,NM_176866.2;PPA2,splice_region_variant,,ENST00000354147,NM_176867.3;PPA2,splice_region_variant,,ENST00000510015,;PPA2,intron_variant,,ENST00000515567,;PPA2,downstream_gene_variant,,ENST00000508518,;PPA2,splice_region_variant,,ENST00000503171,;PPA2,downstream_gene_variant,,ENST00000509426,;PPA2,splice_region_variant,,ENST00000509031,;PPA2,splice_region_variant,,ENST00000351450,;PPA2,splice_region_variant,,ENST00000513605,;PPA2,downstream_gene_variant,,ENST00000514209,;"	"-"	"ENSG00000138777"	"ENST00000341695"	"Transcript"	"splice_region_variant,intron_variant"	"-/1684"	"-/1005"	"-/334"	""	""	"rs34331553"	"1"	NA	-1	"PPA2"	"HGNC"	28883	"protein_coding"	"YES"	"CCDS3667.1"	"ENSP00000343885"	"Q9H2U2"	"D6RGI1"	"UPI000013D9E2"	"NM_176869.2"	NA	NA	""	"8/11"	""	"-:0.4291"	"-:0.0923"	"-:0.5014"	NA	"-:0.6766"	"-:0.4483"	"-:0.5583"	"-:0.132"	"-:0.4485"	""	""	NA	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	""	"1"	"0.4526"	"0.1225"	"0.5421"	"0.6786"	"0.4149"	"0.4449"	"0.414"	"0.5076"	NA	"common_variant"	"TCCAAAC"	"7633a226-280f-11e6-982f-1233424a729f"	"4140"	0.4532	"47485/104778"	"48048/106168"	"1075/8774"	"6009/11084"	"5304/7816"	"2726/6570"	"23883/53686"	"284/686"	"8204/16162"	"PASS"	"TRUE"	0.372881355932203	"WXS"	FALSE
"73"	"BRIX1"	55299	"mskcc.org"	"GRCh37"	"5"	34925328	34925329	"+"	"Splice_Region"	"INS"	"-"	"-"	"A"	"rs66875519"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.793-2dupA"	""	""	"ENST00000336767"	""	140	"."	4	29	"."	0	"BRIX1,splice_region_variant,,ENST00000336767,NM_018321.3;DNAJC21,upstream_gene_variant,,ENST00000382021,NM_194283.3;DNAJC21,upstream_gene_variant,,ENST00000303525,NM_001012339.2;DNAJC21,upstream_gene_variant,,ENST00000342382,;BRIX1,splice_region_variant,,ENST00000506023,;BRIX1,non_coding_transcript_exon_variant,,ENST00000515798,;BRIX1,downstream_gene_variant,,ENST00000510834,;BRIX1,downstream_gene_variant,,ENST00000510960,;"	"A"	"ENSG00000113460"	"ENST00000336767"	"Transcript"	"splice_region_variant,intron_variant"	"-/1926"	"-/1062"	"-/353"	""	""	"rs66875519"	"1"	NA	1	"BRIX1"	"HGNC"	24170	"protein_coding"	"YES"	"CCDS34143.1"	"ENSP00000338862"	"Q8TDN6"	"Q9NUW4"	"UPI000007186B"	"NM_018321.3"	NA	NA	""	"9/9"	""	"A:0.1468"	"A:0.0719"	"A:0.1455"	NA	"A:0.1131"	"A:0.2058"	"A:0.2229"	""	""	""	""	NA	""	NA	""	NA	"LOW"	"1"	"insertion"	NA	"1"	""	"1"	"0.1315"	"0.05659"	"0.1167"	"0.07799"	"0.1999"	"0.1406"	"0.157"	"0.1488"	NA	"common_variant"	"TTA"	"87026966-280f-11e6-a9ee-1433424a729f"	"240"	0.1318	"9212/69914"	"13763/104698"	"360/6362"	"816/6994"	"399/5116"	"1003/5018"	"4755/33824"	"81/516"	"1798/12084"	"PASS"	"TRUE"	0.0285714285714286	"WXS"	FALSE
"74"	"PCMT1"	5110	"mskcc.org"	"GRCh37"	"6"	150123329	150123329	"+"	"Splice_Region"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.679-7delC"	""	""	"ENST00000367384"	""	152	"."	6	35	"."	0	"PCMT1,splice_region_variant,,ENST00000464889,;PCMT1,splice_region_variant,,ENST00000367384,;PCMT1,splice_region_variant,,ENST00000367380,NM_001252049.1,NM_005389.2,NM_001252050.1,NM_001252051.1,NM_001252052.1;PCMT1,splice_region_variant,,ENST00000367378,NM_001252053.1;PCMT1,splice_region_variant,,ENST00000544496,;RP11-350J20.5,upstream_gene_variant,,ENST00000455607,;"	"-"	"ENSG00000120265"	"ENST00000367384"	"Transcript"	"splice_region_variant,intron_variant"	"-/1938"	"-/861"	"-/286"	""	""	""	"1"	NA	1	"PCMT1"	"HGNC"	8728	"protein_coding"	"YES"	"CCDS59041.1"	"ENSP00000356354"	""	"H7BY58,C9J0F2"	"UPI0001B7942B"	""	NA	NA	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"LOW"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCT"	"81366fd2-280f-11e6-a9d4-0533424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"TRUE"	0.0394736842105263	"WXS"	FALSE
"75"	"PUS7"	54517	"mskcc.org"	"GRCh37"	"7"	105122888	105122888	"+"	"Splice_Site"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.921-1delG"	""	"p.X307_splice"	"ENST00000356362"	""	92	"."	3	16	"."	0	"PUS7,splice_acceptor_variant,,ENST00000356362,NM_019042.3;PUS7,splice_acceptor_variant,,ENST00000469408,;PUS7,splice_acceptor_variant,,ENST00000481939,;"	"-"	"ENSG00000091127"	"ENST00000356362"	"Transcript"	"splice_acceptor_variant"	"-/3480"	"921/1986"	"307/661"	""	""	""	"1"	NA	-1	"PUS7"	"HGNC"	26033	"protein_coding"	"YES"	"CCDS34725.1"	"ENSP00000348722"	"Q96PZ0"	"A3R6R7"	"UPI00001D483E"	"NM_019042.3"	NA	NA	""	"7/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"HIGH"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCT"	"7826899a-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"TRUE"	0.0326086956521739	"WXS"	FALSE
"76"	"MT-ND4"	4538	"mskcc.org"	"GRCh37"	"MT"	11050	11051	"+"	"Frame_Shift_Del"	"DEL"	"TA"	"TA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.293_294delTA"	"p.Met98ThrfsTer?"	"p.M98Tfs*?"	"ENST00000361381"	"1/1"	334	"."	12	2219	"."	0	"MT-ND4,frameshift_variant,p.Met98ThrfsTer?,ENST00000361381,;MT-ND5,upstream_gene_variant,,ENST00000361567,;MT-CO1,downstream_gene_variant,,ENST00000361624,;MT-CYB,upstream_gene_variant,,ENST00000361789,;MT-CO3,downstream_gene_variant,,ENST00000362079,;MT-CO2,downstream_gene_variant,,ENST00000361739,;MT-ATP6,downstream_gene_variant,,ENST00000361899,;MT-ND6,downstream_gene_variant,,ENST00000361681,;MT-ND3,downstream_gene_variant,,ENST00000361227,;MT-ND4L,downstream_gene_variant,,ENST00000361335,;MT-ATP8,downstream_gene_variant,,ENST00000361851,;MT-TL2,upstream_gene_variant,,ENST00000387456,;MT-TK,downstream_gene_variant,,ENST00000387421,;MT-TS1,upstream_gene_variant,,ENST00000387416,;MT-TH,upstream_gene_variant,,ENST00000387441,;MT-TE,downstream_gene_variant,,ENST00000387459,;MT-TD,downstream_gene_variant,,ENST00000387419,;MT-TG,downstream_gene_variant,,ENST00000387429,;MT-TP,downstream_gene_variant,,ENST00000387461,;MT-TT,upstream_gene_variant,,ENST00000387460,;MT-TR,downstream_gene_variant,,ENST00000387439,;MT-TS2,upstream_gene_variant,,ENST00000387449,;"	"-"	"ENSG00000198886"	"ENST00000361381"	"Transcript"	"frameshift_variant"	"291-292/1378"	"291-292/1378"	"97-98/459"	"SM/SX"	"tcTAta/tcta"	""	"1"	NA	1	"MT-ND4"	"HGNC"	7459	"protein_coding"	"YES"	""	"ENSP00000354961"	"P03905"	"Q85L09,Q53X31,Q4R1L2,Q1ZY32,Q14Z34,Q14YT3,Q14YI3,I7GQD9,D8VCQ0,D3WYZ8,D3WYZ7,D2Y6X5,D2Y6X4,B9ECU8"	"UPI0000000AA8"	""	NA	NA	"1/1"	""	"Low_complexity_(Seg):seg,hmmpanther:PTHR22773,hmmpanther:PTHR22773:SF40,Pfam_domain:PF01059,TIGRFAM_domain:TIGR01972"	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"HIGH"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTAT"	"6cef53b8-280f-11e6-a008-d1da414a729f"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0359281437125748	"WXS"	FALSE
"77"	"CYP4X1"	260293	"mskcc.org"	"GRCh37"	"1"	47489340	47489340	"+"	"5'UTR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-150C>T"	""	""	"ENST00000371901"	"1/12"	47	"40"	7	23	"23"	0	"CYP4X1,5_prime_UTR_variant,,ENST00000371901,NM_178033.1;CYP4X1,intron_variant,,ENST00000538609,;"	"T"	"ENSG00000186377"	"ENST00000371901"	"Transcript"	"5_prime_UTR_variant"	"101/2357"	"-/1530"	"-/509"	""	""	""	"1"	NA	1	"CYP4X1"	"HGNC"	20244	"protein_coding"	"YES"	"CCDS544.1"	"ENSP00000360968"	"Q8N118"	""	"UPI000003F043"	"NM_178033.1"	""	""	"1/12"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"279a0236-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148936170212766	"WXS"	FALSE
"78"	"KCNT2"	343450	"mskcc.org"	"GRCh37"	"1"	196373374	196373374	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1186-5573A>T"	""	""	"ENST00000294725"	""	3	"1"	2	6	"6"	0	"KCNT2,intron_variant,,ENST00000367433,NM_198503.2,NM_001287819.1;KCNT2,intron_variant,,ENST00000367431,;KCNT2,intron_variant,,ENST00000294725,;KCNT2,intron_variant,,ENST00000609185,;KCNT2,intron_variant,,ENST00000451324,;KCNT2,intron_variant,,ENST00000498426,;KCNT2,intron_variant,,ENST00000610076,;KCNT2,intron_variant,,ENST00000466914,;"	"A"	"ENSG00000162687"	"ENST00000294725"	"Transcript"	"intron_variant"	"-/4409"	"-/3408"	"-/1135"	""	""	""	"1"	NA	-1	"KCNT2"	"HGNC"	18866	"protein_coding"	"YES"	"CCDS1384.1"	"ENSP00000294725"	"Q6UVM3"	"A9LNM6"	"UPI00001E0966"	""	""	""	""	"12/27"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"279a723e-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"79"	"NAV2"	89797	"mskcc.org"	"GRCh37"	"11"	20056277	20056277	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2838-1228C>G"	""	""	"ENST00000396087"	""	2	"0"	2	6	"6"	0	"NAV2,intron_variant,,ENST00000396085,NM_182964.5;NAV2,intron_variant,,ENST00000349880,NM_145117.4;NAV2,intron_variant,,ENST00000360655,NM_001111018.1;NAV2,intron_variant,,ENST00000540292,;NAV2,intron_variant,,ENST00000527559,;NAV2,intron_variant,,ENST00000396087,NM_001244963.1;NAV2,intron_variant,,ENST00000311043,;NAV2,intron_variant,,ENST00000533917,NM_001111019.2;NAV2,intron_variant,,ENST00000525322,;NAV2,intron_variant,,ENST00000530408,;NAV2,intron_variant,,ENST00000534299,;NAV2,intron_variant,,ENST00000526675,;"	"G"	"ENSG00000166833"	"ENST00000396087"	"Transcript"	"intron_variant"	"-/7882"	"-/7467"	"-/2488"	""	""	""	"1"	NA	1	"NAV2"	"HGNC"	15997	"protein_coding"	"YES"	"CCDS58126.1"	"ENSP00000379396"	"Q8IVL1"	""	"UPI00001E0580"	"NM_001244963.1"	""	""	""	"12/40"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"279ae606-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"80"	"BTBD18"	643376	"mskcc.org"	"GRCh37"	"11"	57520281	57520281	"+"	"5'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000422652"	""	3	"0"	3	6	"6"	0	"CTNND1,upstream_gene_variant,,ENST00000524630,;CTNND1,upstream_gene_variant,,ENST00000399039,;CTNND1,upstream_gene_variant,,ENST00000529919,;BTBD18,upstream_gene_variant,,ENST00000422652,NM_001145101.1;BTBD18,upstream_gene_variant,,ENST00000436147,;BTBD18,upstream_gene_variant,,ENST00000527995,;CTNND1,upstream_gene_variant,,ENST00000533189,;TMX2-CTNND1,intron_variant,,ENST00000528395,;RP11-691N7.6,intron_variant,,ENST00000531074,;"	"G"	"ENSG00000233436"	"ENST00000422652"	"Transcript"	"upstream_gene_variant"	"-/3044"	"-/2139"	"-/712"	""	""	""	"1"	"1028"	-1	"BTBD18"	"HGNC"	37214	"protein_coding"	"YES"	"CCDS44603.1"	"ENSP00000394472"	"B2RXH4"	"E9PRF5"	"UPI00006C113A"	"NM_001145101.1"	""	""	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"279ae944-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"81"	"MACROD1"	28992	"mskcc.org"	"GRCh37"	"11"	63795238	63795238	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.518-12485C>A"	""	""	"ENST00000255681"	""	7	"4"	3	6	"6"	0	"MACROD1,intron_variant,,ENST00000255681,NM_014067.3;MACROD1,intron_variant,,ENST00000542359,;MACROD1,intron_variant,,ENST00000543422,;MACROD1,intron_variant,,ENST00000545464,;"	"T"	"ENSG00000133315"	"ENST00000255681"	"Transcript"	"intron_variant"	"-/1205"	"-/978"	"-/325"	""	""	""	"1"	NA	-1	"MACROD1"	"HGNC"	29598	"protein_coding"	"YES"	"CCDS8056.1"	"ENSP00000255681"	"Q9BQ69"	""	"UPI000006E931"	"NM_014067.3"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"279aea7a-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"82"	"PICALM"	8301	"mskcc.org"	"GRCh37"	"11"	85707661	85707661	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs114553533"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1258+208C>T"	""	""	"ENST00000393346"	""	15	"10"	5	5	"5"	0	"PICALM,intron_variant,,ENST00000526033,NM_007166.3,NM_001206946.1;PICALM,intron_variant,,ENST00000532317,NM_001008660.2;PICALM,intron_variant,,ENST00000393346,;PICALM,intron_variant,,ENST00000528398,NM_001206947.1;PICALM,intron_variant,,ENST00000356360,;PICALM,intron_variant,,ENST00000529760,;PICALM,intron_variant,,ENST00000530542,;PICALM,intron_variant,,ENST00000526961,;PICALM,intron_variant,,ENST00000529016,;PICALM,downstream_gene_variant,,ENST00000534412,;PICALM,downstream_gene_variant,,ENST00000533350,;"	"A"	"ENSG00000073921"	"ENST00000393346"	"Transcript"	"intron_variant"	"-/2340"	"-/1959"	"-/652"	""	""	"rs114553533"	"1"	NA	-1	"PICALM"	"HGNC"	15514	"protein_coding"	"YES"	"CCDS8272.1"	"ENSP00000377015"	"Q13492"	"E9PLJ8,E9PKP6,E9PI56"	"UPI00001AE879"	""	""	""	""	"12/19"	""	"A:0.0294"	"A:0.0136"	"A:0"	NA	"A:0.119"	"A:0.001"	"A:0.0082"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"279af178-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	TRUE
"83"	"BCL2L14"	79370	"mskcc.org"	"GRCh37"	"12"	12202056	12202056	"+"	"5'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000586576"	""	2	"0"	2	7	"7"	0	"BCL2L14,upstream_gene_variant,,ENST00000586576,;BCL2L14,upstream_gene_variant,,ENST00000589718,;BCL2L14,upstream_gene_variant,,ENST00000461264,;BCL2L14,upstream_gene_variant,,ENST00000464885,;BCL2L14,upstream_gene_variant,,ENST00000484949,;BCL2L14,upstream_gene_variant,,ENST00000545463,;BCL2L14,upstream_gene_variant,,ENST00000591235,;"	"A"	"ENSG00000121380"	"ENST00000586576"	"Transcript"	"upstream_gene_variant"	"-/1927"	"-/1083"	"-/360"	""	""	""	"1"	"739"	1	"BCL2L14"	"HGNC"	16657	"protein_coding"	""	""	"ENSP00000466693"	""	"K7EMX4,K7EKK7,C9J3S1"	"UPI0002841226"	""	""	""	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"279b0546-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"84"	"PPFIBP1"	8496	"mskcc.org"	"GRCh37"	"12"	27825025	27825025	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1314-335T>A"	""	""	"ENST00000318304"	""	6	"3"	3	8	"8"	0	"PPFIBP1,intron_variant,,ENST00000318304,NM_177444.2,NM_001198916.1;PPFIBP1,intron_variant,,ENST00000228425,NM_003622.3;PPFIBP1,intron_variant,,ENST00000537927,NM_001198915.1;PPFIBP1,intron_variant,,ENST00000542629,;PPFIBP1,intron_variant,,ENST00000540114,;PPFIBP1,intron_variant,,ENST00000537261,;"	"A"	"ENSG00000110841"	"ENST00000318304"	"Transcript"	"intron_variant"	"-/6001"	"-/3036"	"-/1011"	""	""	""	"1"	NA	1	"PPFIBP1"	"HGNC"	9249	"protein_coding"	"YES"	"CCDS55812.1"	"ENSP00000314724"	"Q86W92"	"F5H6Q7"	"UPI00004565E6"	"NM_177444.2,NM_001198916.1"	""	""	""	"14/28"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"279b0a14-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	TRUE
"85"	"SLC15A1"	6564	"mskcc.org"	"GRCh37"	"13"	99368268	99368268	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.641-54C>A"	""	""	"ENST00000376503"	""	144	"125"	19	87	"87"	0	"SLC15A1,intron_variant,,ENST00000376503,NM_005073.3;SLC15A1,downstream_gene_variant,,ENST00000376494,;"	"T"	"ENSG00000088386"	"ENST00000376503"	"Transcript"	"intron_variant"	"-/3106"	"-/2127"	"-/708"	""	""	""	"1"	NA	-1	"SLC15A1"	"HGNC"	10920	"protein_coding"	"YES"	"CCDS9489.1"	"ENSP00000365686"	"P46059"	"B2CQT6"	"UPI000013166F"	"NM_005073.3"	""	""	""	"8/22"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"279b416e-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131944444444444	"WXS"	FALSE
"86"	"MYO16"	23026	"mskcc.org"	"GRCh37"	"13"	109282221	109282221	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-39+33634G>T"	""	""	"ENST00000356711"	""	127	"110"	17	69	"69"	0	"MYO16,intron_variant,,ENST00000356711,NM_015011.1;"	"T"	"ENSG00000041515"	"ENST00000356711"	"Transcript"	"intron_variant"	"-/6874"	"-/5577"	"-/1858"	""	""	""	"1"	NA	1	"MYO16"	"HGNC"	29822	"protein_coding"	"YES"	"CCDS32008.1"	"ENSP00000349145"	"Q9Y6X6"	""	"UPI0000160FF2"	"NM_015011.1"	""	""	""	"1/34"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"279b43da-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133858267716535	"WXS"	FALSE
"87"	"CCDC85C"	317762	"mskcc.org"	"GRCh37"	"14"	100054030	100054030	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.793+15474A>T"	""	""	"ENST00000380243"	""	3	"1"	2	6	"6"	0	"CCDC85C,intron_variant,,ENST00000380243,NM_001144995.1;Y_RNA,downstream_gene_variant,,ENST00000363636,;"	"A"	"ENSG00000205476"	"ENST00000380243"	"Transcript"	"intron_variant"	"-/5307"	"-/1260"	"-/419"	""	""	""	"1"	NA	-1	"CCDC85C"	"HGNC"	35459	"protein_coding"	"YES"	"CCDS45161.1"	"ENSP00000369592"	"A6NKD9"	"G3V5D5,G3V2D7"	"UPI0000D62448"	"NM_001144995.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"279b5ec4-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"88"	"FAN1"	22909	"mskcc.org"	"GRCh37"	"15"	31234675	31234675	"+"	"3'UTR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*910T>A"	""	""	"ENST00000362065"	"15/15"	8	"5"	3	6	"6"	0	"FAN1,3_prime_UTR_variant,,ENST00000362065,NM_014967.4;MTMR10,intron_variant,,ENST00000435680,NM_017762.2;MTMR10,intron_variant,,ENST00000425768,;MTMR10,intron_variant,,ENST00000314404,;MTMR10,downstream_gene_variant,,ENST00000563714,;MTMR10,downstream_gene_variant,,ENST00000566981,;MTMR10,3_prime_UTR_variant,,ENST00000568604,;FAN1,3_prime_UTR_variant,,ENST00000565280,;MTMR10,intron_variant,,ENST00000566338,;MTMR10,intron_variant,,ENST00000567567,;MTMR10,intron_variant,,ENST00000568547,;MTMR10,downstream_gene_variant,,ENST00000565728,;"	"A"	"ENSG00000198690"	"ENST00000362065"	"Transcript"	"3_prime_UTR_variant"	"4255/4891"	"-/3054"	"-/1017"	""	""	""	"1"	NA	1	"FAN1"	"HGNC"	29170	"protein_coding"	"YES"	"CCDS32186.1"	"ENSP00000354497"	"Q9Y2M0"	""	"UPI000006D713"	"NM_014967.4"	""	""	"15/15"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTC"	"279b7b70-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"89"	"THSD4"	79875	"mskcc.org"	"GRCh37"	"15"	71447299	71447299	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.99+28T>G"	""	""	"ENST00000355327"	""	177	"153"	24	113	"113"	0	"THSD4,intron_variant,,ENST00000355327,;THSD4,intron_variant,,ENST00000261862,NM_024817.2;RP11-673C5.2,intron_variant,,ENST00000561571,;"	"G"	"ENSG00000187720"	"ENST00000355327"	"Transcript"	"intron_variant"	"-/9200"	"-/3057"	"-/1018"	""	""	""	"1"	NA	1	"THSD4"	"HGNC"	25835	"protein_coding"	"YES"	"CCDS10238.2"	"ENSP00000347484"	"Q6ZMP0"	""	"UPI00001A797D"	""	""	""	""	"3/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"279b8926-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135593220338983	"WXS"	FALSE
"90"	"MFGE8"	4240	"mskcc.org"	"GRCh37"	"15"	89447149	89447149	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"rs747979031"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.685+1839G>C"	""	""	"ENST00000268150"	""	5	"2"	3	6	"6"	0	"MFGE8,intron_variant,,ENST00000539437,;MFGE8,intron_variant,,ENST00000268150,NM_005928.2;MFGE8,intron_variant,,ENST00000268151,NM_001114614.1;MFGE8,intron_variant,,ENST00000566497,;MFGE8,intron_variant,,ENST00000542878,;MFGE8,intron_variant,,ENST00000558029,;MFGE8,non_coding_transcript_exon_variant,,ENST00000560553,;MFGE8,downstream_gene_variant,,ENST00000559997,;MFGE8,intron_variant,,ENST00000558018,;MFGE8,downstream_gene_variant,,ENST00000558352,;MFGE8,upstream_gene_variant,,ENST00000560937,;MFGE8,downstream_gene_variant,,ENST00000559770,;MFGE8,downstream_gene_variant,,ENST00000559259,;"	"G"	"ENSG00000140545"	"ENST00000268150"	"Transcript"	"intron_variant"	"-/1937"	"-/1164"	"-/387"	""	""	"rs747979031"	"1"	NA	-1	"MFGE8"	"HGNC"	7036	"protein_coding"	"YES"	"CCDS10347.1"	"ENSP00000268150"	"Q08431"	""	"UPI000013D7A3"	"NM_005928.2"	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"279b92ea-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"91"	"RP11-1186N24.5"	0	"mskcc.org"	"GRCh37"	"16"	15229868	15229868	"+"	"5'Flank"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000605794"	""	3	"0"	3	6	"6"	0	"PDXDC1,intron_variant,,ENST00000535621,NM_001285449.1;RP11-1186N24.5,upstream_gene_variant,,ENST00000605794,;PKD1P6,intron_variant,,ENST00000538100,;PKD1P6,upstream_gene_variant,,ENST00000424133,;PKD1P6,upstream_gene_variant,,ENST00000540502,;PKD1P6,upstream_gene_variant,,ENST00000540075,;PKD1P6,upstream_gene_variant,,ENST00000546358,;PKD1P6,non_coding_transcript_exon_variant,,ENST00000343738,;NPIPP1,upstream_gene_variant,,ENST00000448014,;NPIPP1,upstream_gene_variant,,ENST00000358815,;"	"G"	"ENSG00000270580"	"ENST00000605794"	"Transcript"	"upstream_gene_variant"	"-/2902"	""	""	""	""	""	"1"	"4410"	-1	"RP11-1186N24.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"279ba0e6-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"92"	"GSG1L"	146395	"mskcc.org"	"GRCh37"	"16"	27815583	27815583	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs11861983"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.898+3225G>A"	""	""	"ENST00000447459"	""	7	"1"	6	6	"6"	0	"GSG1L,intron_variant,,ENST00000380898,;GSG1L,intron_variant,,ENST00000447459,NM_001109763.1;GSG1L,intron_variant,,ENST00000395724,;GSG1L,intron_variant,,ENST00000380897,NM_144675.2;GSG1L,intron_variant,,ENST00000569166,;"	"T"	"ENSG00000169181"	"ENST00000447459"	"Transcript"	"intron_variant"	"-/4916"	"-/996"	"-/331"	""	""	"rs11861983"	"1"	NA	-1	"GSG1L"	"HGNC"	28283	"protein_coding"	"YES"	"CCDS45450.1"	"ENSP00000394954"	"Q6UXU4"	""	"UPI0000EE765B"	"NM_001109763.1"	""	""	""	"6/6"	""	"T:0.0471"	"T:0.1596"	"T:0.0231"	NA	"T:0"	"T:0.003"	"T:0.0061"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"279ba618-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"93"	"FAM57A"	79850	"mskcc.org"	"GRCh37"	"17"	644878	644878	"+"	"3'UTR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*68T>C"	""	""	"ENST00000308278"	"5/5"	67	"57"	10	35	"35"	0	"FAM57A,3_prime_UTR_variant,,ENST00000308278,NM_024792.1;FAM57A,3_prime_UTR_variant,,ENST00000301324,;FAM57A,3_prime_UTR_variant,,ENST00000577008,;GEMIN4,downstream_gene_variant,,ENST00000576778,;GEMIN4,downstream_gene_variant,,ENST00000319004,NM_015721.2;GEMIN4,downstream_gene_variant,,ENST00000437269,;FAM57A,downstream_gene_variant,,ENST00000572018,;FAM57A,upstream_gene_variant,,ENST00000570892,;FAM57A,3_prime_UTR_variant,,ENST00000570699,;FAM57A,downstream_gene_variant,,ENST00000574327,;"	"C"	"ENSG00000167695"	"ENST00000308278"	"Transcript"	"3_prime_UTR_variant"	"1078/2406"	"-/774"	"-/257"	""	""	""	"1"	NA	1	"FAM57A"	"HGNC"	29646	"protein_coding"	"YES"	"CCDS10996.1"	"ENSP00000312017"	"Q8TBR7"	""	"UPI000006F9B9"	"NM_024792.1"	""	""	"5/5"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"279bc6ac-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.149253731343284	"WXS"	FALSE
"94"	"ASXL3"	80816	"mskcc.org"	"GRCh37"	"18"	31252128	31252128	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.715+298C>T"	""	""	"ENST00000269197"	""	24	"17"	7	6	"6"	0	"ASXL3,intron_variant,,ENST00000269197,NM_030632.1;ASXL3,downstream_gene_variant,,ENST00000590189,;ASXL3,downstream_gene_variant,,ENST00000586596,;ASXL3,intron_variant,,ENST00000592288,;ASXL3,downstream_gene_variant,,ENST00000592541,;ASXL3,downstream_gene_variant,,ENST00000593235,;"	"T"	"ENSG00000141431"	"ENST00000269197"	"Transcript"	"intron_variant"	"-/11344"	"-/6747"	"-/2248"	""	""	""	"1"	NA	1	"ASXL3"	"HGNC"	29357	"protein_coding"	"YES"	"CCDS45847.1"	"ENSP00000269197"	"Q9C0F0"	"K7EQY1"	"UPI000156D0F3"	"NM_030632.1"	""	""	""	"7/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"279c014e-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WXS"	FALSE
"95"	"RYR1"	6261	"mskcc.org"	"GRCh37"	"19"	39002734	39002734	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9195C>T"	"p.="	"p.V3065V"	"ENST00000359596"	"62/106"	157	"137"	20	106	"106"	0	"RYR1,synonymous_variant,p.=,ENST00000355481,NM_000540.2,NM_001042723.1;RYR1,synonymous_variant,p.=,ENST00000360985,;RYR1,synonymous_variant,p.=,ENST00000359596,;RYR1,intron_variant,,ENST00000599547,;RYR1,stop_gained,p.Gln867Ter,ENST00000594335,;"	"T"	"ENSG00000196218"	"ENST00000359596"	"Transcript"	"synonymous_variant"	"9195/15117"	"9195/15117"	"3065/5038"	"V"	"gtC/gtT"	""	"1"	NA	1	"RYR1"	"HGNC"	10483	"protein_coding"	"YES"	"CCDS33011.1"	"ENSP00000352608"	"P21817"	"O75591,B4DET7"	"UPI0000D7E62F"	""	""	""	"62/106"	""	"hmmpanther:PTHR13715,hmmpanther:PTHR13715:SF15"	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"279c2660-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127388535031847	"WXS"	FALSE
"96"	"CACNG7"	59284	"mskcc.org"	"GRCh37"	"19"	54417928	54417928	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.283+88G>T"	""	""	"ENST00000391767"	""	114	"97"	17	54	"54"	0	"CACNG7,intron_variant,,ENST00000391767,;CACNG7,intron_variant,,ENST00000222212,NM_031896.4;CACNG7,intron_variant,,ENST00000391766,;CACNG7,intron_variant,,ENST00000468076,;"	"T"	"ENSG00000105605"	"ENST00000391767"	"Transcript"	"intron_variant"	"-/2688"	"-/828"	"-/275"	""	""	""	"1"	NA	1	"CACNG7"	"HGNC"	13626	"protein_coding"	"YES"	"CCDS12868.1"	"ENSP00000375647"	"P62955"	""	"UPI00000010F1"	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"279c393e-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.149122807017544	"WXS"	FALSE
"97"	"CCDC85A"	114800	"mskcc.org"	"GRCh37"	"2"	56413002	56413002	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.276+967T>G"	""	""	"ENST00000407595"	""	2	"0"	2	7	"7"	0	"CCDC85A,intron_variant,,ENST00000407595,NM_001080433.1;RP11-481J13.1,downstream_gene_variant,,ENST00000606639,;AC007743.1,upstream_gene_variant,,ENST00000596663,;AC007743.1,upstream_gene_variant,,ENST00000432793,;AC007743.1,upstream_gene_variant,,ENST00000447423,;RP11-482H16.1,intron_variant,,ENST00000607540,;"	"G"	"ENSG00000055813"	"ENST00000407595"	"Transcript"	"intron_variant"	"-/3982"	"-/1662"	"-/553"	""	""	""	"1"	NA	1	"CCDC85A"	"HGNC"	29400	"protein_coding"	"YES"	"CCDS46290.1"	"ENSP00000384040"	"Q96PX6"	""	"UPI00001C1DC1"	"NM_001080433.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"279c4afa-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"98"	"BLCAP"	10904	"mskcc.org"	"GRCh37"	"20"	36152113	36152113	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-309-2260A>T"	""	""	"ENST00000414542"	""	3	"1"	2	6	"6"	0	"BLCAP,intron_variant,,ENST00000414542,NM_001167820.1,NM_001167823.1;BLCAP,intron_variant,,ENST00000373537,NM_006698.3,NM_001167823.1;BLCAP,intron_variant,,ENST00000397137,NM_001167821.1,NM_001167823.1,NM_001167822.1;BLCAP,intron_variant,,ENST00000397135,;BLCAP,intron_variant,,ENST00000397131,;BLCAP,intron_variant,,ENST00000445723,;BLCAP,intron_variant,,ENST00000414080,;NNAT,downstream_gene_variant,,ENST00000062104,NM_005386.2;NNAT,downstream_gene_variant,,ENST00000346199,NM_181689.1;BLCAP,upstream_gene_variant,,ENST00000432507,;BLCAP,upstream_gene_variant,,ENST00000456058,;BLCAP,upstream_gene_variant,,ENST00000397134,;BLCAP,intron_variant,,ENST00000467603,;"	"A"	"ENSG00000166619"	"ENST00000414542"	"Transcript"	"intron_variant"	"-/2205"	"-/264"	"-/87"	""	""	""	"1"	NA	-1	"BLCAP"	"HGNC"	1055	"protein_coding"	"YES"	"CCDS13295.1"	"ENSP00000397172"	"P62952"	"A2A2K9,A2A2K8"	"UPI0000000D02"	"NM_001167820.1,NM_001167823.1"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"279c8d6c-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"99"	"APCDD1L-AS1"	149773	"mskcc.org"	"GRCh37"	"20"	57098922	57098922	"+"	"RNA"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.464A>T"	""	""	"ENST00000447767"	"3/3"	2	"0"	2	6	"6"	0	"APCDD1L-AS1,intron_variant,,ENST00000427140,;APCDD1L-AS1,intron_variant,,ENST00000439558,;APCDD1L-AS1,intron_variant,,ENST00000424205,;APCDD1L-AS1,intron_variant,,ENST00000420279,;APCDD1L-AS1,intron_variant,,ENST00000448374,;APCDD1L-AS1,downstream_gene_variant,,ENST00000445984,;APCDD1L-AS1,downstream_gene_variant,,ENST00000427794,;APCDD1L-AS1,non_coding_transcript_exon_variant,,ENST00000447767,;"	"T"	"ENSG00000231290"	"ENST00000447767"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"464/2630"	""	""	""	""	""	"1"	NA	1	"APCDD1L-AS1"	"HGNC"	27152	"retained_intron"	"YES"	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"279c9172-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"100"	"ADAMTS1"	9510	"mskcc.org"	"GRCh37"	"21"	28217376	28217376	"+"	"5'UTR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-103A>T"	""	""	"ENST00000284984"	"1/9"	94	"85"	9	80	"80"	0	"ADAMTS1,5_prime_UTR_variant,,ENST00000284984,NM_006988.3;ADAMTS1,upstream_gene_variant,,ENST00000451462,;ADAMTS1,upstream_gene_variant,,ENST00000517777,;ADAMTS1,upstream_gene_variant,,ENST00000517452,;ADAMTS1,upstream_gene_variant,,ENST00000464589,;ADAMTS1,upstream_gene_variant,,ENST00000492656,;"	"A"	"ENSG00000154734"	"ENST00000284984"	"Transcript"	"5_prime_UTR_variant"	"353/5191"	"-/2904"	"-/967"	""	""	""	"1"	NA	-1	"ADAMTS1"	"HGNC"	217	"protein_coding"	"YES"	"CCDS33524.1"	"ENSP00000284984"	"Q9UHI8"	"E5RI60"	"UPI000013DDC6"	"NM_006988.3"	""	""	"1/9"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"279cb24c-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0957446808510638	"WXS"	FALSE
"101"	"ATP6V1E1"	529	"mskcc.org"	"GRCh37"	"22"	18095370	18095370	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.276+208G>T"	""	""	"ENST00000253413"	""	25	"21"	4	19	"19"	0	"ATP6V1E1,intron_variant,,ENST00000253413,NM_001696.3;ATP6V1E1,intron_variant,,ENST00000399796,NM_001039367.1;ATP6V1E1,intron_variant,,ENST00000399798,NM_001039366.1;ATP6V1E1,intron_variant,,ENST00000413576,;ATP6V1E1,downstream_gene_variant,,ENST00000478963,;ATP6V1E1,downstream_gene_variant,,ENST00000460085,;ATP6V1E1,intron_variant,,ENST00000484653,;ATP6V1E1,intron_variant,,ENST00000481365,;"	"A"	"ENSG00000131100"	"ENST00000253413"	"Transcript"	"intron_variant"	"-/1402"	"-/681"	"-/226"	""	""	""	"1"	NA	-1	"ATP6V1E1"	"HGNC"	857	"protein_coding"	"YES"	"CCDS13745.1"	"ENSP00000253413"	"P36543"	"Q53Y06"	"UPI0000000C60"	"NM_001696.3"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"279cbbfc-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WXS"	FALSE
"102"	"TBC1D22A"	25771	"mskcc.org"	"GRCh37"	"22"	47359931	47359931	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1016-10255C>A"	""	""	"ENST00000337137"	""	2	"0"	2	6	"6"	0	"TBC1D22A,intron_variant,,ENST00000337137,NM_014346.2,NM_001284304.1;TBC1D22A,intron_variant,,ENST00000406733,NM_001284305.1;TBC1D22A,intron_variant,,ENST00000407381,;TBC1D22A,intron_variant,,ENST00000355704,NM_001284303.1;TBC1D22A,intron_variant,,ENST00000441162,;TBC1D22A,intron_variant,,ENST00000394449,;"	"A"	"ENSG00000054611"	"ENST00000337137"	"Transcript"	"intron_variant"	"-/3787"	"-/1554"	"-/517"	""	""	""	"1"	NA	1	"TBC1D22A"	"HGNC"	1309	"protein_coding"	"YES"	"CCDS14078.1"	"ENSP00000336724"	"Q8WUA7"	"B9A6M3,B0QYI3"	"UPI0000128722"	"NM_014346.2,NM_001284304.1"	""	""	""	"8/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"279ccb42-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"103"	"NISCH"	11188	"mskcc.org"	"GRCh37"	"3"	52513580	52513580	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1303-185C>T"	""	""	"ENST00000345716"	""	32	"27"	5	18	"18"	0	"NISCH,intron_variant,,ENST00000345716,NM_007184.3;NISCH,intron_variant,,ENST00000479054,;NISCH,intron_variant,,ENST00000488380,NM_001276293.1;NISCH,intron_variant,,ENST00000420808,NM_001276294.1;NISCH,downstream_gene_variant,,ENST00000464280,;NISCH,downstream_gene_variant,,ENST00000490425,;NISCH,intron_variant,,ENST00000489895,;NISCH,intron_variant,,ENST00000474188,;NISCH,upstream_gene_variant,,ENST00000460759,;NISCH,upstream_gene_variant,,ENST00000485765,;NISCH,downstream_gene_variant,,ENST00000481211,;"	"T"	"ENSG00000010322"	"ENST00000345716"	"Transcript"	"intron_variant"	"-/5238"	"-/4515"	"-/1504"	""	""	""	"1"	NA	1	"NISCH"	"HGNC"	18006	"protein_coding"	"YES"	"CCDS33767.1"	"ENSP00000339958"	"Q9Y2I1"	""	"UPI000036715D"	"NM_007184.3"	""	""	""	"11/20"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"279cd970-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WXS"	FALSE
"104"	"MAATS1"	89876	"mskcc.org"	"GRCh37"	"3"	119469512	119469512	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2144-272G>T"	""	""	"ENST00000273390"	""	20	"16"	4	8	"8"	0	"MAATS1,intron_variant,,ENST00000273390,NM_033364.3;RP11-169N13.4,upstream_gene_variant,,ENST00000489428,;MAATS1,intron_variant,,ENST00000472117,;MAATS1,intron_variant,,ENST00000475543,;MAATS1,intron_variant,,ENST00000496010,;MAATS1,intron_variant,,ENST00000470948,;MAATS1,intron_variant,,ENST00000482995,;MAATS1,intron_variant,,ENST00000482573,;MAATS1,intron_variant,,ENST00000482927,;MAATS1,intron_variant,,ENST00000475093,;"	"T"	"ENSG00000183833"	"ENST00000273390"	"Transcript"	"intron_variant"	"-/4433"	"-/2304"	"-/767"	""	""	""	"1"	NA	1	"MAATS1"	"HGNC"	24010	"protein_coding"	"YES"	"CCDS2994.1"	"ENSP00000273390"	"Q7Z4T9"	""	"UPI00001C1DFE"	"NM_033364.3"	""	""	""	"16/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"279ce320-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"105"	"POLR2B"	5431	"mskcc.org"	"GRCh37"	"4"	57866067	57866067	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.900+120T>A"	""	""	"ENST00000381227"	""	31	"26"	5	20	"20"	0	"POLR2B,intron_variant,,ENST00000381227,;POLR2B,intron_variant,,ENST00000441246,;POLR2B,intron_variant,,ENST00000314595,NM_000938.1;POLR2B,intron_variant,,ENST00000431623,;RNU6-998P,upstream_gene_variant,,ENST00000515894,;"	"A"	"ENSG00000047315"	"ENST00000381227"	"Transcript"	"intron_variant"	"-/4108"	"-/3525"	"-/1174"	""	""	""	"1"	NA	1	"POLR2B"	"HGNC"	9188	"protein_coding"	"YES"	"CCDS3511.1"	"ENSP00000370625"	"P30876"	"C9JMN3,C9J2Y9,B2WTN6"	"UPI00001345D1"	""	""	""	""	"8/25"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"279d1354-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161290322580645	"WXS"	FALSE
"106"	"CXCL10"	3627	"mskcc.org"	"GRCh37"	"4"	76943238	76943238	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.279-137C>T"	""	""	"ENST00000306602"	""	90	"74"	16	45	"45"	0	"ART3,intron_variant,,ENST00000341029,NM_001130017.2;CXCL10,intron_variant,,ENST00000306602,NM_001565.3;ART3,intron_variant,,ENST00000513122,;ART3,intron_variant,,ENST00000504914,;ART3,intron_variant,,ENST00000513353,;ART3,intron_variant,,ENST00000510669,;"	"A"	"ENSG00000169245"	"ENST00000306602"	"Transcript"	"intron_variant"	"-/1173"	"-/297"	"-/98"	""	""	""	"1"	NA	-1	"CXCL10"	"HGNC"	10637	"protein_coding"	"YES"	"CCDS43240.1"	"ENSP00000305651"	"P02778"	""	"UPI0000136773"	"NM_001565.3"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"279d1782-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177777777777778	"WXS"	FALSE
"107"	"GRID2"	2895	"mskcc.org"	"GRCh37"	"4"	93743389	93743389	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"rs565238072"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.244+231952G>T"	""	""	"ENST00000282020"	""	39	"33"	6	21	"21"	0	"GRID2,intron_variant,,ENST00000282020,NM_001510.2;GRID2,intron_variant,,ENST00000510992,NM_001286838.1;GRID2,intron_variant,,ENST00000505687,;GRID2,upstream_gene_variant,,ENST00000515744,;GRID2,upstream_gene_variant,,ENST00000502699,;RP11-428L21.2,non_coding_transcript_exon_variant,,ENST00000510601,;"	"T"	"ENSG00000152208"	"ENST00000282020"	"Transcript"	"intron_variant"	"-/5340"	"-/3024"	"-/1007"	""	""	"rs565238072"	"1"	NA	1	"GRID2"	"HGNC"	4576	"protein_coding"	"YES"	"CCDS3637.1"	"ENSP00000282020"	"O43424"	"Q4W5S4,Q4W5L9,Q4W5F4,Q4W5B7,D6R976"	"UPI00001AEA78"	"NM_001510.2"	""	""	""	"2/15"	""	"T:0.0002"	"T:0"	"T:0.0014"	NA	"T:0"	"T:0"	"T:0"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"279d1d2c-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WXS"	FALSE
"108"	"IQGAP2"	10788	"mskcc.org"	"GRCh37"	"5"	75893596	75893596	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1071+169C>T"	""	""	"ENST00000274364"	""	25	"20"	5	18	"18"	0	"IQGAP2,intron_variant,,ENST00000274364,NM_006633.2,NM_001285460.1;IQGAP2,intron_variant,,ENST00000379730,;IQGAP2,intron_variant,,ENST00000505766,;IQGAP2,intron_variant,,ENST00000514350,;IQGAP2,intron_variant,,ENST00000504815,;"	"T"	"ENSG00000145703"	"ENST00000274364"	"Transcript"	"intron_variant"	"-/5844"	"-/4728"	"-/1575"	""	""	""	"1"	NA	1	"IQGAP2"	"HGNC"	6111	"protein_coding"	"YES"	"CCDS34188.1"	"ENSP00000274364"	"Q13576"	"E7EWC2,D6R939"	"UPI000020CB2C"	"NM_006633.2,NM_001285460.1"	""	""	""	"10/35"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"279d4680-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"109"	"PCSK1"	5122	"mskcc.org"	"GRCh37"	"5"	95733311	95733311	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1589-138C>T"	""	""	"ENST00000311106"	""	45	"38"	7	19	"19"	0	"PCSK1,intron_variant,,ENST00000311106,NM_000439.4,NM_001177876.1;PCSK1,intron_variant,,ENST00000508626,NM_001177875.1;CTD-2337A12.1,intron_variant,,ENST00000502645,;PCSK1,intron_variant,,ENST00000513085,;"	"A"	"ENSG00000175426"	"ENST00000311106"	"Transcript"	"intron_variant"	"-/5086"	"-/2262"	"-/753"	""	""	""	"1"	NA	-1	"PCSK1"	"HGNC"	8743	"protein_coding"	"YES"	"CCDS4081.1"	"ENSP00000308024"	"P29120"	"D6RJA3"	"UPI000013F0F5"	"NM_000439.4,NM_001177876.1"	""	""	""	"11/13"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"279d495a-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155555555555556	"WXS"	FALSE
"110"	"CYSTM1"	84418	"mskcc.org"	"GRCh37"	"5"	139554970	139554970	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-21+100C>T"	""	""	"ENST00000261811"	""	8	"2"	6	7	"7"	0	"CYSTM1,intron_variant,,ENST00000261811,NM_032412.3;CYSTM1,intron_variant,,ENST00000509789,;CYSTM1,intron_variant,,ENST00000509589,;CYSTM1,intron_variant,,ENST00000504227,;CTB-131B5.5,downstream_gene_variant,,ENST00000607850,;"	"T"	"ENSG00000120306"	"ENST00000261811"	"Transcript"	"intron_variant"	"-/1334"	"-/294"	"-/97"	""	""	""	"1"	NA	1	"CYSTM1"	"HGNC"	30239	"protein_coding"	"YES"	"CCDS4221.1"	"ENSP00000261811"	"Q9H1C7"	""	"UPI000004A7BE"	"NM_032412.3"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"279d4d6a-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"111"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	4048708	4048708	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.416-159087C>A"	""	""	"ENST00000537824"	""	2	"0"	2	6	"6"	0	"CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;"	"T"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	""	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	""	""	""	"3/69"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"279dcfa6-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"112"	"GKAP1"	80318	"mskcc.org"	"GRCh37"	"9"	86421036	86421036	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.216+181T>A"	""	""	"ENST00000376371"	""	15	"11"	4	7	"7"	0	"GKAP1,intron_variant,,ENST00000376371,NM_025211.3;GKAP1,intron_variant,,ENST00000376365,NM_001135953.1;GKAP1,downstream_gene_variant,,ENST00000485742,;GKAP1,intron_variant,,ENST00000388782,;"	"T"	"ENSG00000165113"	"ENST00000376371"	"Transcript"	"intron_variant"	"-/1778"	"-/1101"	"-/366"	""	""	""	"1"	NA	-1	"GKAP1"	"HGNC"	17496	"protein_coding"	"YES"	"CCDS35049.1"	"ENSP00000365550"	"Q5VSY0"	"C9J9D2"	"UPI000007224D"	"NM_025211.3"	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"279e087c-277e-11e6-bb95-95d1414a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"113"	"NOC2L"	26155	"mskcc.org"	"GRCh37"	"1"	884426	884427	"+"	"Intron"	"INS"	"-"	"-"	"ACAGCAAAG"	"rs72502742"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1444-452_1444-444dupCTTTGCTGT"	""	""	"ENST00000327044"	""	9	"."	5	2	"."	0	"NOC2L,intron_variant,,ENST00000327044,NM_015658.3;SAMD11,downstream_gene_variant,,ENST00000342066,NM_152486.2;SAMD11,downstream_gene_variant,,ENST00000341065,;SAMD11,downstream_gene_variant,,ENST00000455979,;NOC2L,upstream_gene_variant,,ENST00000496938,;NOC2L,intron_variant,,ENST00000477976,;NOC2L,upstream_gene_variant,,ENST00000483767,;"	"ACAGCAAAG"	"ENSG00000188976"	"ENST00000327044"	"Transcript"	"intron_variant"	"-/2790"	"-/2250"	"-/749"	""	""	"rs72502742"	"1"	NA	-1	"NOC2L"	"HGNC"	24517	"protein_coding"	"YES"	"CCDS3.1"	"ENSP00000317992"	"Q9Y3T9"	""	"UPI000041820C"	"NM_015658.3"	NA	NA	""	"12/18"	""	"-:0.1581"	"ACAGCAAAG:0.6974"	"ACAGCAAAG:0.8674"	NA	"ACAGCAAAG:0.8968"	"ACAGCAAAG:0.9245"	"ACAGCAAAG:0.8773"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"6635463c-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"114"	"AGRN"	375790	"mskcc.org"	"GRCh37"	"1"	984147	984159	"+"	"Intron"	"DEL"	"CAAAAAAAAAAAA"	"CAAAAAAAAAAAA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CAAAAAAAAAAAA"	"CAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4106-100_4106-88delCAAAAAAAAAAAA"	""	""	"ENST00000379370"	""	70	"."	4	32	"."	0	"AGRN,intron_variant,,ENST00000379370,NM_198576.3;AGRN,upstream_gene_variant,,ENST00000419249,;AGRN,non_coding_transcript_exon_variant,,ENST00000492947,;AGRN,upstream_gene_variant,,ENST00000461111,;AGRN,downstream_gene_variant,,ENST00000479707,;AGRN,downstream_gene_variant,,ENST00000466223,;AGRN,downstream_gene_variant,,ENST00000478677,;"	"-"	"ENSG00000188157"	"ENST00000379370"	"Transcript"	"intron_variant"	"-/7323"	"-/6138"	"-/2045"	""	""	""	"1"	NA	1	"AGRN"	"HGNC"	329	"protein_coding"	"YES"	"CCDS30551.1"	"ENSP00000368678"	"O00468"	"Q5XG79"	"UPI00001D7C8B"	"NM_198576.3"	NA	NA	""	"23/35"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTCAAAAAAAAAAAAA"	"2ec30054-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0571428571428571	"WXS"	FALSE
"115"	"MXRA8"	54587	"mskcc.org"	"GRCh37"	"1"	1291160	1291160	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs201260508"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.74-28delT"	""	""	"ENST00000309212"	""	13	"."	3	2	"."	0	"MXRA8,intron_variant,,ENST00000477278,NM_001282583.1;MXRA8,intron_variant,,ENST00000309212,NM_032348.2,NM_001282582.1;MXRA8,intron_variant,,ENST00000445648,NM_001282585.1;MXRA8,intron_variant,,ENST00000342753,NM_001282584.1;MXRA8,upstream_gene_variant,,ENST00000474033,;MXRA8,upstream_gene_variant,,ENST00000476718,;MXRA8,upstream_gene_variant,,ENST00000473097,;MXRA8,upstream_gene_variant,,ENST00000478517,;MXRA8,upstream_gene_variant,,ENST00000464351,;MXRA8,upstream_gene_variant,,ENST00000460473,;"	"-"	"ENSG00000162576"	"ENST00000309212"	"Transcript"	"intron_variant"	"-/2273"	"-/1329"	"-/442"	""	""	"rs201260508"	"1"	NA	-1	"MXRA8"	"HGNC"	7542	"protein_coding"	"YES"	"CCDS24.1"	"ENSP00000307887"	"Q9BRK3"	""	"UPI000003ED26"	"NM_032348.2,NM_001282582.1"	NA	NA	""	"2/9"	""	"A:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	"-:0.9907"	"-:0.9972"	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.9952"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	NA	"PASS"	"GGAA"	"2efead84-2764-11e6-8bcb-94fe414a729f"	"180"	0	"0/0"	"2068/2078"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"AC_Adj0_Filter"	"FALSE"	0.230769230769231	"WXS"	FALSE
"116"	"CDK11B"	984	"mskcc.org"	"GRCh37"	"1"	1583277	1583277	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.228-1868delG"	""	""	"ENST00000407249"	""	32	"."	4	13	"."	0	"CDK11B,intron_variant,,ENST00000407249,;CDK11B,intron_variant,,ENST00000317673,;CDK11B,intron_variant,,ENST00000340677,;CDK11B,intron_variant,,ENST00000341832,;CDK11B,upstream_gene_variant,,ENST00000513088,;CDK11B,downstream_gene_variant,,ENST00000341028,;"	"-"	"ENSG00000248333"	"ENST00000407249"	"Transcript"	"intron_variant"	"-/2384"	"-/2358"	"-/785"	""	""	""	"1"	NA	-1	"CDK11B"	"HGNC"	1729	"protein_coding"	"YES"	""	"ENSP00000464036"	""	"Q6P5Y5,Q5QPQ9,J3QR44,A4VCI5"	"UPI0000D61E1A"	""	NA	NA	""	"2/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCC"	"2f1efc10-2764-11e6-8bcb-94fe414a729f"	"84"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"117"	"C1orf222"	85452	"mskcc.org"	"GRCh37"	"1"	1884029	1884030	"+"	"Intron"	"INS"	"-"	"-"	"AAAG"	"rs151085750"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.25+3097_25+3100dupCTTT"	""	""	"ENST00000493964"	""	18	"."	4	3	"."	0	"C1orf222,intron_variant,,ENST00000493964,;C1orf222,intron_variant,,ENST00000493316,;C1orf222,downstream_gene_variant,,ENST00000461752,;C1orf222,downstream_gene_variant,,ENST00000270720,;C1orf222,downstream_gene_variant,,ENST00000468610,;"	"AAAG"	"ENSG00000142609"	"ENST00000493964"	"Transcript"	"intron_variant"	"-/2604"	"-/2604"	"-/867"	""	""	"rs151085750"	"1"	NA	-1	"C1orf222"	"HGNC"	27917	"protein_coding"	"YES"	""	"ENSP00000417061"	""	"H7C4E1"	"UPI0001B798B8"	""	NA	NA	""	"1/20"	""	"AAAG:0.3063"	"AAAGAAAGAAAGAAAG:0.0015"	"AAAGAAAGAAAGAAAG:0"	NA	"AAAGAAAGAAAGAAAG:0"	"AAAGAAAGAAAGAAAG:0.001"	"AAAGAAAGAAAGAAAG:0"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"66ab1b3c-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"118"	"PLCH2"	9651	"mskcc.org"	"GRCh37"	"1"	2390214	2392055	"+"	"Intron"	"DEL"	"ATCTCGAGGCCACGTTTCATTCCCACTTCAGCCTCCTGTACTCCCGAGTCTCACTGGCTTCTAATCTGCACTTATGCAACCATGGTAAAAAGTGACTACATCTGGGGATGTCCCCGTGCGCTGTGATGTGTGCTTGGCCGTCTCTGCAAACGGGGGCCCGAGGGGCTGGTGCTGCTTCTCAGCAGCCTGGGCCACGCCGGTCTTGCAGCGTGGCTGCTCCTGGGCACTCTTGAGTCACTGCCTCGTAGTGACCTGGCCCCCTCATTGCAGACTCAGCCCCGAATCCTGCTCCCCGGTGGCTGGGTTGCACCCATCTGGAGGTGGGGCTCAGGAGGCGGCCTTGGTGATGCCAGGTGGTCAGTGGGTTTTTGCCATCCGCCAGGAGCTTCACTGGGCCTCCCGTTGGCCCTGCATGGGACATGGTGACAAATGCCACGCTGGTGACAAGCCCTCTCTGGCTTGTTTATTTTGTCTTGTTGGAGATGCACGTGCCCCTTGCAGCCTTGCCGGTGGTCTTCCTTGCCAGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTGCCGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTGCCGGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCCTCCTTGCCTGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCTTCCTTTCCGGTGGTCTTCCTTTCCGGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCTGTCTTCCTTGGGCTGACACTGAGCCAGCGCTTATCTGAATGCAGTGCTGGCGCGTGGGGAATACGCTCCTGAGTAATTCACACGCAGGACCGGCCGGCCGTGGACGGCGGGCAGTGTTTGGAGGCCAGTTTCTGCTCAGCGCCTCATGGTGGGGCTGTTTCCTTGGCACCGTGAGGGGCCGGTCCATGCGGCCAGTGGAAGCGTCCATCGGCCCCTCACCACTCTGTTCGCTCCCCTCTGGCCTGTTTGGCTCCAAGCGAGCACCCTGAGCTGGGACCTGGGCCAAGCGCTCTTCTGCTCCGGCAGTGACTGTGCTCCAGCTGGCGCTGTCCAGCCCTGCCCAGGCCCTTTCTGCCCTCCGGTTCCTCCCCTTGCTGCTCTAGCCTGGCCTAAGGGAGGGGCCCGTGCCCCCATGGGACTGGCCCTTCATGTCCCCAGGGGCCCTGCTGTCCAGGAAAGCAGCCCATTCTCTCCAGGGCTTTTCTAAGGCCATGCTGCCCCGGGGTCCCAGGCCGGGTTCCCCCAAGAGCTAGGACCCCTGACCACTGCTCTGTGTCTCCCAGACCAGAAGCCCTCTGGGTGCGGGGCCTACCTCTGGTTTCCTCACTTCCTCTCCAGCTCTAAGCCATGCCCACACACAGCAGGTGGTTAGTAAACCCCGGCTGATGGCTAGGGGTATGGAACAGGTGGGCTGGAGACAGGCAAGGAAGGACGCAGAGGGTGGCAGGTCTTGGCCCCGGGGCATGGGCCGTGTGGGCTCCCTCTGGCCTGAGAACCGAGTCTGAGGACTGGGATCCTGGGAGCCAAAGGCAGGGGCTTAGTGGCATAAAAGGGACACTGCTTCTTTTTCAAGGATTTTCATATTTTTAACGATGCAA"	"ATCTCGAGGCCACGTTTCATTCCCACTTCAGCCTCCTGTACTCCCGAGTCTCACTGGCTTCTAATCTGCACTTATGCAACCATGGTAAAAAGTGACTACATCTGGGGATGTCCCCGTGCGCTGTGATGTGTGCTTGGCCGTCTCTGCAAACGGGGGCCCGAGGGGCTGGTGCTGCTTCTCAGCAGCCTGGGCCACGCCGGTCTTGCAGCGTGGCTGCTCCTGGGCACTCTTGAGTCACTGCCTCGTAGTGACCTGGCCCCCTCATTGCAGACTCAGCCCCGAATCCTGCTCCCCGGTGGCTGGGTTGCACCCATCTGGAGGTGGGGCTCAGGAGGCGGCCTTGGTGATGCCAGGTGGTCAGTGGGTTTTTGCCATCCGCCAGGAGCTTCACTGGGCCTCCCGTTGGCCCTGCATGGGACATGGTGACAAATGCCACGCTGGTGACAAGCCCTCTCTGGCTTGTTTATTTTGTCTTGTTGGAGATGCACGTGCCCCTTGCAGCCTTGCCGGTGGTCTTCCTTGCCAGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTGCCGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTGCCGGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCCTCCTTGCCTGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCTTCCTTTCCGGTGGTCTTCCTTTCCGGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCTGTCTTCCTTGGGCTGACACTGAGCCAGCGCTTATCTGAATGCAGTGCTGGCGCGTGGGGAATACGCTCCTGAGTAATTCACACGCAGGACCGGCCGGCCGTGGACGGCGGGCAGTGTTTGGAGGCCAGTTTCTGCTCAGCGCCTCATGGTGGGGCTGTTTCCTTGGCACCGTGAGGGGCCGGTCCATGCGGCCAGTGGAAGCGTCCATCGGCCCCTCACCACTCTGTTCGCTCCCCTCTGGCCTGTTTGGCTCCAAGCGAGCACCCTGAGCTGGGACCTGGGCCAAGCGCTCTTCTGCTCCGGCAGTGACTGTGCTCCAGCTGGCGCTGTCCAGCCCTGCCCAGGCCCTTTCTGCCCTCCGGTTCCTCCCCTTGCTGCTCTAGCCTGGCCTAAGGGAGGGGCCCGTGCCCCCATGGGACTGGCCCTTCATGTCCCCAGGGGCCCTGCTGTCCAGGAAAGCAGCCCATTCTCTCCAGGGCTTTTCTAAGGCCATGCTGCCCCGGGGTCCCAGGCCGGGTTCCCCCAAGAGCTAGGACCCCTGACCACTGCTCTGTGTCTCCCAGACCAGAAGCCCTCTGGGTGCGGGGCCTACCTCTGGTTTCCTCACTTCCTCTCCAGCTCTAAGCCATGCCCACACACAGCAGGTGGTTAGTAAACCCCGGCTGATGGCTAGGGGTATGGAACAGGTGGGCTGGAGACAGGCAAGGAAGGACGCAGAGGGTGGCAGGTCTTGGCCCCGGGGCATGGGCCGTGTGGGCTCCCTCTGGCCTGAGAACCGAGTCTGAGGACTGGGATCCTGGGAGCCAAAGGCAGGGGCTTAGTGGCATAAAAGGGACACTGCTTCTTTTTCAAGGATTTTCATATTTTTAACGATGCAA"	"GGTCCCATCT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ATCTCGAGGCCACGTTTCATTCCCACTTCAGCCTCCTGTACTCCCGAGTCTCACTGGCTTCTAATCTGCACTTATGCAACCATGGTAAAAAGTGACTACATCTGGGGATGTCCCCGTGCGCTGTGATGTGTGCTTGGCCGTCTCTGCAAACGGGGGCCCGAGGGGCTGGTGCTGCTTCTCAGCAGCCTGGGCCACGCCGGTCTTGCAGCGTGGCTGCTCCTGGGCACTCTTGAGTCACTGCCTCGTAGTGACCTGGCCCCCTCATTGCAGACTCAGCCCCGAATCCTGCTCCCCGGTGGCTGGGTTGCACCCATCTGGAGGTGGGGCTCAGGAGGCGGCCTTGGTGATGCCAGGTGGTCAGTGGGTTTTTGCCATCCGCCAGGAGCTTCACTGGGCCTCCCGTTGGCCCTGCATGGGACATGGTGACAAATGCCACGCTGGTGACAAGCCCTCTCTGGCTTGTTTATTTTGTCTTGTTGGAGATGCACGTGCCCCTTGCAGCCTTGCCGGTGGTCTTCCTTGCCAGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTGCCGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTGCCGGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCCTCCTTGCCTGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCTTCCTTTCCGGTGGTCTTCCTTTCCGGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCTGTCTTCCTTGGGCTGACACTGAGCCAGCGCTTATCTGAATGCAGTGCTGGCGCGTGGGGAATACGCTCCTGAGTAATTCACACGCAGGACCGGCCGGCCGTGGACGGCGGGCAGTGTTTGGAGGCCAGTTTCTGCTCAGCGCCTCATGGTGGGGCTGTTTCCTTGGCACCGTGAGGGGCCGGTCCATGCGGCCAGTGGAAGCGTCCATCGGCCCCTCACCACTCTGTTCGCTCCCCTCTGGCCTGTTTGGCTCCAAGCGAGCACCCTGAGCTGGGACCTGGGCCAAGCGCTCTTCTGCTCCGGCAGTGACTGTGCTCCAGCTGGCGCTGTCCAGCCCTGCCCAGGCCCTTTCTGCCCTCCGGTTCCTCCCCTTGCTGCTCTAGCCTGGCCTAAGGGAGGGGCCCGTGCCCCCATGGGACTGGCCCTTCATGTCCCCAGGGGCCCTGCTGTCCAGGAAAGCAGCCCATTCTCTCCAGGGCTTTTCTAAGGCCATGCTGCCCCGGGGTCCCAGGCCGGGTTCCCCCAAGAGCTAGGACCCCTGACCACTGCTCTGTGTCTCCCAGACCAGAAGCCCTCTGGGTGCGGGGCCTACCTCTGGTTTCCTCACTTCCTCTCCAGCTCTAAGCCATGCCCACACACAGCAGGTGGTTAGTAAACCCCGGCTGATGGCTAGGGGTATGGAACAGGTGGGCTGGAGACAGGCAAGGAAGGACGCAGAGGGTGGCAGGTCTTGGCCCCGGGGCATGGGCCGTGTGGGCTCCCTCTGGCCTGAGAACCGAGTCTGAGGACTGGGATCCTGGGAGCCAAAGGCAGGGGCTTAGTGGCATAAAAGGGACACTGCTTCTTTTTCAAGGATTTTCATATTTTTAACGATGCAA"	"ATCTCGAGGCCACGTTTCATTCCCACTTCAGCCTCCTGTACTCCCGAGTCTCACTGGCTTCTAATCTGCACTTATGCAACCATGGTAAAAAGTGACTACATCTGGGGATGTCCCCGTGCGCTGTGATGTGTGCTTGGCCGTCTCTGCAAACGGGGGCCCGAGGGGCTGGTGCTGCTTCTCAGCAGCCTGGGCCACGCCGGTCTTGCAGCGTGGCTGCTCCTGGGCACTCTTGAGTCACTGCCTCGTAGTGACCTGGCCCCCTCATTGCAGACTCAGCCCCGAATCCTGCTCCCCGGTGGCTGGGTTGCACCCATCTGGAGGTGGGGCTCAGGAGGCGGCCTTGGTGATGCCAGGTGGTCAGTGGGTTTTTGCCATCCGCCAGGAGCTTCACTGGGCCTCCCGTTGGCCCTGCATGGGACATGGTGACAAATGCCACGCTGGTGACAAGCCCTCTCTGGCTTGTTTATTTTGTCTTGTTGGAGATGCACGTGCCCCTTGCAGCCTTGCCGGTGGTCTTCCTTGCCAGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTGCCGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTGCCGGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCCTCCTTGCCTGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCTTCCTTTCCGGTGGTCTTCCTTTCCGGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCTGTCTTCCTTGGGCTGACACTGAGCCAGCGCTTATCTGAATGCAGTGCTGGCGCGTGGGGAATACGCTCCTGAGTAATTCACACGCAGGACCGGCCGGCCGTGGACGGCGGGCAGTGTTTGGAGGCCAGTTTCTGCTCAGCGCCTCATGGTGGGGCTGTTTCCTTGGCACCGTGAGGGGCCGGTCCATGCGGCCAGTGGAAGCGTCCATCGGCCCCTCACCACTCTGTTCGCTCCCCTCTGGCCTGTTTGGCTCCAAGCGAGCACCCTGAGCTGGGACCTGGGCCAAGCGCTCTTCTGCTCCGGCAGTGACTGTGCTCCAGCTGGCGCTGTCCAGCCCTGCCCAGGCCCTTTCTGCCCTCCGGTTCCTCCCCTTGCTGCTCTAGCCTGGCCTAAGGGAGGGGCCCGTGCCCCCATGGGACTGGCCCTTCATGTCCCCAGGGGCCCTGCTGTCCAGGAAAGCAGCCCATTCTCTCCAGGGCTTTTCTAAGGCCATGCTGCCCCGGGGTCCCAGGCCGGGTTCCCCCAAGAGCTAGGACCCCTGACCACTGCTCTGTGTCTCCCAGACCAGAAGCCCTCTGGGTGCGGGGCCTACCTCTGGTTTCCTCACTTCCTCTCCAGCTCTAAGCCATGCCCACACACAGCAGGTGGTTAGTAAACCCCGGCTGATGGCTAGGGGTATGGAACAGGTGGGCTGGAGACAGGCAAGGAAGGACGCAGAGGGTGGCAGGTCTTGGCCCCGGGGCATGGGCCGTGTGGGCTCCCTCTGGCCTGAGAACCGAGTCTGAGGACTGGGATCCTGGGAGCCAAAGGCAGGGGCTTAGTGGCATAAAAGGGACACTGCTTCTTTTTCAAGGATTTTCATATTTTTAACGATGCAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.116-19701_116-17860delATCTCGAGGCCACGTTTCATTCCCACTTCAGCCTCCTGTACTCCCGAGTCTCACTGGCTTCTAATCTGCACTTATGCAACCATGGTAAAAAGTGACTACATCTGGGGATGTCCCCGTGCGCTGTGATGTGTGCTTGGCCGTCTCTGCAAACGGGGGCCCGAGGGGCTGGTGCTGCTTCTCAGCAGCCTGGGCCACGCCGGTCTTGCAGCGTGGCTGCTCCTGGGCACTCTTGAGTCACTGCCTCGTAGTGACCTGGCCCCCTCATTGCAGACTCAGCCCCGAATCCTGCTCCCCGGTGGCTGGGTTGCACCCATCTGGAGGTGGGGCTCAGGAGGCGGCCTTGGTGATGCCAGGTGGTCAGTGGGTTTTTGCCATCCGCCAGGAGCTTCACTGGGCCTCCCGTTGGCCCTGCATGGGACATGGTGACAAATGCCACGCTGGTGACAAGCCCTCTCTGGCTTGTTTATTTTGTCTTGTTGGAGATGCACGTGCCCCTTGCAGCCTTGCCGGTGGTCTTCCTTGCCAGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTGCCGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTGCCGGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCCTCCTTGCCTGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCTTCCTTTCCGGTGGTCTTCCTTTCCGGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCTGTCTTCCTTGGGCTGACACTGAGCCAGCGCTTATCTGAATGCAGTGCTGGCGCGTGGGGAATACGCTCCTGAGTAATTCACACGCAGGACCGGCCGGCCGTGGACGGCGGGCAGTGTTTGGAGGCCAGTTTCTGCTCAGCGCCTCATGGTGGGGCTGTTTCCTTGGCACCGTGAGGGGCCGGTCCATGCGGCCAGTGGAAGCGTCCATCGGCCCCTCACCACTCTGTTCGCTCCCCTCTGGCCTGTTTGGCTCCAAGCGAGCACCCTGAGCTGGGACCTGGGCCAAGCGCTCTTCTGCTCCGGCAGTGACTGTGCTCCAGCTGGCGCTGTCCAGCCCTGCCCAGGCCCTTTCTGCCCTCCGGTTCCTCCCCTTGCTGCTCTAGCCTGGCCTAAGGGAGGGGCCCGTGCCCCCATGGGACTGGCCCTTCATGTCCCCAGGGGCCCTGCTGTCCAGGAAAGCAGCCCATTCTCTCCAGGGCTTTTCTAAGGCCATGCTGCCCCGGGGTCCCAGGCCGGGTTCCCCCAAGAGCTAGGACCCCTGACCACTGCTCTGTGTCTCCCAGACCAGAAGCCCTCTGGGTGCGGGGCCTACCTCTGGTTTCCTCACTTCCTCTCCAGCTCTAAGCCATGCCCACACACAGCAGGTGGTTAGTAAACCCCGGCTGATGGCTAGGGGTATGGAACAGGTGGGCTGGAGACAGGCAAGGAAGGACGCAGAGGGTGGCAGGTCTTGGCCCCGGGGCATGGGCCGTGTGGGCTCCCTCTGGCCTGAGAACCGAGTCTGAGGACTGGGATCCTGGGAGCCAAAGGCAGGGGCTTAGTGGCATAAAAGGGACACTGCTTCTTTTTCAAGGATTTTCATATTTTTAACGATGCAAinsGGTCCCATCT"	""	""	"ENST00000609981"	""	9	"."	4	3	"."	0	"PLCH2,intron_variant,,ENST00000609981,;"	"GGTCCCATCT"	"ENSG00000149527"	"ENST00000609981"	"Transcript"	"intron_variant"	"-/568"	"-/333"	"-/111"	""	""	""	"1"	NA	1	"PLCH2"	"HGNC"	29037	"protein_coding"	""	""	"ENSP00000476436"	""	""	"UPI0003B92842"	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGATCTCGAGGCCACGTTTCATTCCCACTTCAGCCTCCTGTACTCCCGAGTCTCACTGGCTTCTAATCTGCACTTATGCAACCATGGTAAAAAGTGACTACATCTGGGGATGTCCCCGTGCGCTGTGATGTGTGCTTGGCCGTCTCTGCAAACGGGGGCCCGAGGGGCTGGTGCTGCTTCTCAGCAGCCTGGGCCACGCCGGTCTTGCAGCGTGGCTGCTCCTGGGCACTCTTGAGTCACTGCCTCGTAGTGACCTGGCCCCCTCATTGCAGACTCAGCCCCGAATCCTGCTCCCCGGTGGCTGGGTTGCACCCATCTGGAGGTGGGGCTCAGGAGGCGGCCTTGGTGATGCCAGGTGGTCAGTGGGTTTTTGCCATCCGCCAGGAGCTTCACTGGGCCTCCCGTTGGCCCTGCATGGGACATGGTGACAAATGCCACGCTGGTGACAAGCCCTCTCTGGCTTGTTTATTTTGTCTTGTTGGAGATGCACGTGCCCCTTGCAGCCTTGCCGGTGGTCTTCCTTGCCAGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTGCCGGTGGTCCTCCTTCCTGGTGGTTCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTCCTGGTGGTCCTCCTTGCCGGTGGTCCTCCTTGCCGGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCCTCCTTGCCTGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCTTCCTTTCCGGTGGTCTTCCTTTCCGGTGGTCTTCCTTTCCGGTGGTCCTCCTTGCCTGTGGTCTGTCTTCCTTGGGCTGACACTGAGCCAGCGCTTATCTGAATGCAGTGCTGGCGCGTGGGGAATACGCTCCTGAGTAATTCACACGCAGGACCGGCCGGCCGTGGACGGCGGGCAGTGTTTGGAGGCCAGTTTCTGCTCAGCGCCTCATGGTGGGGCTGTTTCCTTGGCACCGTGAGGGGCCGGTCCATGCGGCCAGTGGAAGCGTCCATCGGCCCCTCACCACTCTGTTCGCTCCCCTCTGGCCTGTTTGGCTCCAAGCGAGCACCCTGAGCTGGGACCTGGGCCAAGCGCTCTTCTGCTCCGGCAGTGACTGTGCTCCAGCTGGCGCTGTCCAGCCCTGCCCAGGCCCTTTCTGCCCTCCGGTTCCTCCCCTTGCTGCTCTAGCCTGGCCTAAGGGAGGGGCCCGTGCCCCCATGGGACTGGCCCTTCATGTCCCCAGGGGCCCTGCTGTCCAGGAAAGCAGCCCATTCTCTCCAGGGCTTTTCTAAGGCCATGCTGCCCCGGGGTCCCAGGCCGGGTTCCCCCAAGAGCTAGGACCCCTGACCACTGCTCTGTGTCTCCCAGACCAGAAGCCCTCTGGGTGCGGGGCCTACCTCTGGTTTCCTCACTTCCTCTCCAGCTCTAAGCCATGCCCACACACAGCAGGTGGTTAGTAAACCCCGGCTGATGGCTAGGGGTATGGAACAGGTGGGCTGGAGACAGGCAAGGAAGGACGCAGAGGGTGGCAGGTCTTGGCCCCGGGGCATGGGCCGTGTGGGCTCCCTCTGGCCTGAGAACCGAGTCTGAGGACTGGGATCCTGGGAGCCAAAGGCAGGGGCTTAGTGGCATAAAAGGGACACTGCTTCTTTTTCAAGGATTTTCATATTTTTAACGATGCAAG"	"64746a8a-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"119"	"PRDM16"	63976	"mskcc.org"	"GRCh37"	"1"	3052638	3052638	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs141340477"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.38-50047delG"	""	""	"ENST00000270722"	""	11	"."	5	3	"."	0	"PRDM16,intron_variant,,ENST00000378398,;PRDM16,intron_variant,,ENST00000441472,NM_022114.3;PRDM16,intron_variant,,ENST00000270722,;PRDM16,intron_variant,,ENST00000442529,NM_199454.2;PRDM16,intron_variant,,ENST00000378391,;PRDM16,intron_variant,,ENST00000511072,;PRDM16,intron_variant,,ENST00000514189,;RP1-163G9.2,upstream_gene_variant,,ENST00000440516,;PRDM16,intron_variant,,ENST00000607632,;"	"-"	"ENSG00000142611"	"ENST00000270722"	"Transcript"	"intron_variant"	"-/8690"	"-/3831"	"-/1276"	""	""	"rs141340477"	"1"	NA	1	"PRDM16"	"HGNC"	14000	"protein_coding"	"YES"	"CCDS41236.2"	"ENSP00000270722"	"Q9HAZ2"	""	"UPI0000458A29"	""	NA	NA	""	"1/16"	""	"-:0.1398"	"-:0.2519"	"-:0.0216"	NA	"-:0.2192"	"-:0.0129"	"-:0.1207"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTGG"	"2f99768e-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	TRUE
"120"	"DFFB"	1677	"mskcc.org"	"GRCh37"	"1"	3789178	3789179	"+"	"Intron"	"INS"	"-"	"-"	"GGCCCTGTCCCTGCCGC"	"rs202183040"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.782+58_782+59insCGGCCCTGTCCCTGCCG"	""	""	"ENST00000378209"	""	203	"."	4	127	"."	0	"DFFB,intron_variant,,ENST00000378209,NM_004402.2;DFFB,intron_variant,,ENST00000338895,;DFFB,intron_variant,,ENST00000491998,;DFFB,intron_variant,,ENST00000339350,;DFFB,intron_variant,,ENST00000468793,;DFFB,intron_variant,,ENST00000477548,;DFFB,intron_variant,,ENST00000378206,NM_001282669.1;DFFB,intron_variant,,ENST00000475969,;DFFB,downstream_gene_variant,,ENST00000481945,;"	"GGCCCTGTCCCTGCCGC"	"ENSG00000169598"	"ENST00000378209"	"Transcript"	"intron_variant"	"-/3028"	"-/1017"	"-/338"	""	""	"rs202183040"	"1"	NA	1	"DFFB"	"HGNC"	2773	"protein_coding"	"YES"	"CCDS52.1"	"ENSP00000367454"	"O76075"	"Q96P72"	"UPI000006230F"	"NM_004402.2"	NA	NA	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"67321466-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.0197044334975369	"WXS"	FALSE
"121"	"ENSR00001576668"	0	"mskcc.org"	"GRCh37"	"1"	4067248	4067250	"+"	"IGR"	"DEL"	"AGA"	"AGA"	"-"	"rs139826682"	NA	"JHCCPT1"	"JHCCPN1"	"AGA"	"AGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001576668"	""	6	"."	4	3	"."	0	""	"-"	""	"ENSR00001576668"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs139826682"	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2208"	"-:0.1112"	"-:0.1888"	NA	"-:0.1815"	"-:0.3241"	"-:0.3262"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGAA"	"301ff6fa-2764-11e6-8bcb-94fe414a729f"	"220"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"122"	"AJAP1"	55966	"mskcc.org"	"GRCh37"	"1"	4745723	4745724	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs59275910"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.30-26236dupG"	""	""	"ENST00000378191"	""	6	"."	3	4	"."	0	"AJAP1,intron_variant,,ENST00000378191,NM_018836.3;AJAP1,intron_variant,,ENST00000378190,NM_001042478.1;"	"G"	"ENSG00000196581"	"ENST00000378191"	"Transcript"	"intron_variant"	"-/11666"	"-/1236"	"-/411"	""	""	"rs59275910"	"1"	NA	1	"AJAP1"	"HGNC"	30801	"protein_coding"	"YES"	"CCDS54.1"	"ENSP00000367433"	"Q9UKB5"	""	"UPI00000728B8"	"NM_018836.3"	NA	NA	""	"1/5"	""	"-:0.0008"	"G:0.9992"	"G:1"	NA	"G:1"	"G:0.999"	"G:0.998"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"674329cc-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"123"	"ENSR00001516928"	0	"mskcc.org"	"GRCh37"	"1"	5476058	5476058	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs145239019"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001516928"	""	8	"."	4	1	"."	0	""	"-"	""	"ENSR00001516928"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs145239019"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1456"	"-:0.1233"	"-:0.1427"	NA	"-:0.1389"	"-:0.1511"	"-:0.1789"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAA"	"30437774-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"124"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	5735883	5735884	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs142247699"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142247699"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4880"	"A:0.4939"	"A:0.4914"	NA	"A:0.4692"	"A:0.4911"	"A:0.4939"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"674ab3b8-2764-11e6-8bcb-94fe414a729f"	"160"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"125"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	5751830	5751831	"+"	"IGR"	"INS"	"-"	"-"	"GACAACAAAGGTGACTCCAG"	"rs147432580"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	1	"."	0	""	"GACAACAAAGGTGACTCCAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147432580"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2488"	"GACAACAAAGGTGACTCCAG:0.8283"	"GACAACAAAGGTGACTCCAG:0.7161"	NA	"GACAACAAAGGTGACTCCAG:0.625"	"GACAACAAAGGTGACTCCAG:0.6948"	"GACAACAAAGGTGACTCCAG:0.8599"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"674cf204-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"126"	"NPHP4"	261734	"mskcc.org"	"GRCh37"	"1"	6032422	6032423	"+"	"Intron"	"INS"	"-"	"-"	"TC"	"rs5772213"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.280-3104_280-3103insGA"	""	""	"ENST00000378156"	""	7	"."	4	1	"."	0	"NPHP4,intron_variant,,ENST00000378156,NM_015102.3;NPHP4,intron_variant,,ENST00000478423,;NPHP4,intron_variant,,ENST00000489180,;NPHP4,intron_variant,,ENST00000378169,;"	"TC"	"ENSG00000131697"	"ENST00000378156"	"Transcript"	"intron_variant"	"-/4994"	"-/4281"	"-/1426"	""	""	"rs5772213"	"1"	NA	-1	"NPHP4"	"HGNC"	19104	"protein_coding"	"YES"	"CCDS44052.1"	"ENSP00000367398"	"O75161"	""	"UPI00001303E5"	"NM_015102.3"	NA	NA	""	"3/29"	""	"-:0.0645"	"TC:0.9554"	"TC:0.7493"	NA	"TC:0.995"	"TC:0.9334"	"TC:0.9816"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"674f1084-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"127"	"CHD5"	26038	"mskcc.org"	"GRCh37"	"1"	6192138	6192138	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs141579729"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3145-330delG"	""	""	"ENST00000262450"	""	11	"."	4	6	"."	0	"CHD5,intron_variant,,ENST00000262450,NM_015557.2;CHD5,intron_variant,,ENST00000378021,;CHD5,intron_variant,,ENST00000496404,;CHD5,intron_variant,,ENST00000462991,;CHD5,upstream_gene_variant,,ENST00000377999,;CHD5,upstream_gene_variant,,ENST00000491020,;"	"-"	"ENSG00000116254"	"ENST00000262450"	"Transcript"	"intron_variant"	"-/9646"	"-/5865"	"-/1954"	""	""	"rs141579729"	"1"	NA	-1	"CHD5"	"HGNC"	16816	"protein_coding"	"YES"	"CCDS57.1"	"ENSP00000262450"	"Q8TDI0"	""	"UPI000006CD03"	"NM_015557.2"	NA	NA	""	"20/41"	""	"-:0.0190"	"-:0.0045"	"-:0.0389"	NA	"-:0"	"-:0.0586"	"-:0.0031"	"-:0.0128"	"-:0.0624"	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCC"	"307baec8-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"128"	"DNAJC11"	55735	"mskcc.org"	"GRCh37"	"1"	6695417	6695423	"+"	"3'UTR"	"DEL"	"GCGGGCT"	"GCGGGCT"	"-"	"rs550113710"	NA	"JHCCPT1"	"JHCCPN1"	"GCGGGCT"	"GCGGGCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*312_*318delAGCCCGC"	""	""	"ENST00000377577"	"16/16"	12	"."	5	6	"."	0	"DNAJC11,3_prime_UTR_variant,,ENST00000377577,NM_018198.3;DNAJC11,3_prime_UTR_variant,,ENST00000294401,;THAP3,3_prime_UTR_variant,,ENST00000377627,NM_138350.3;DNAJC11,intron_variant,,ENST00000349363,;DNAJC11,intron_variant,,ENST00000451196,;DNAJC11,downstream_gene_variant,,ENST00000542246,;DNAJC11,downstream_gene_variant,,ENST00000377573,;THAP3,downstream_gene_variant,,ENST00000054650,NM_001195753.1;THAP3,downstream_gene_variant,,ENST00000307896,NM_001195752.1;THAP3,downstream_gene_variant,,ENST00000472925,;DNAJC11,non_coding_transcript_exon_variant,,ENST00000465508,;THAP3,downstream_gene_variant,,ENST00000484669,;DNAJC11,downstream_gene_variant,,ENST00000472414,;THAP3,downstream_gene_variant,,ENST00000487819,;"	"-"	"ENSG00000007923"	"ENST00000377577"	"Transcript"	"3_prime_UTR_variant"	"2116-2122/3311"	"-/1680"	"-/559"	""	""	"rs550113710"	"1"	NA	-1	"DNAJC11"	"HGNC"	25570	"protein_coding"	"YES"	"CCDS87.1"	"ENSP00000366800"	"Q9NVH1"	"F5H1N1,B3KTC6"	"UPI000020544B"	"NM_018198.3"	NA	NA	"16/16"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGGCGGGCTG"	"30c2a378-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"129"	"PEX14"	5195	"mskcc.org"	"GRCh37"	"1"	10615699	10615700	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGTGTGT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.169+19361_169+19370dupTGTGTGTGTG"	""	""	"ENST00000356607"	""	23	"."	7	17	"."	0	"PEX14,intron_variant,,ENST00000356607,NM_004565.2;PEX14,intron_variant,,ENST00000538836,;PEX14,intron_variant,,ENST00000491661,;"	"GTGTGTGTGT"	"ENSG00000142655"	"ENST00000356607"	"Transcript"	"intron_variant"	"-/1985"	"-/1134"	"-/377"	""	""	""	"1"	NA	1	"PEX14"	"HGNC"	8856	"protein_coding"	"YES"	"CCDS30582.1"	"ENSP00000349016"	"O75381"	"F5H4J2"	"UPI000013170A"	"NM_004565.2"	NA	NA	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"25"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"68174158-2764-11e6-8bcb-94fe414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WXS"	FALSE
"130"	"PEX14"	5195	"mskcc.org"	"GRCh37"	"1"	10658934	10658935	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs111591964"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.170-359_170-358delCT"	""	""	"ENST00000356607"	""	7	"."	3	1	"."	0	"PEX14,intron_variant,,ENST00000356607,NM_004565.2;PEX14,intron_variant,,ENST00000538836,;PEX14,intron_variant,,ENST00000491661,;"	"-"	"ENSG00000142655"	"ENST00000356607"	"Transcript"	"intron_variant"	"-/1985"	"-/1134"	"-/377"	""	""	"rs111591964"	"1"	NA	1	"PEX14"	"HGNC"	8856	"protein_coding"	"YES"	"CCDS30582.1"	"ENSP00000349016"	"O75381"	"F5H4J2"	"UPI000013170A"	"NM_004565.2"	NA	NA	""	"3/8"	""	"-:0.0673"	"-:0.0113"	"-:0.0591"	NA	"-:0.002"	"-:0.1183"	"-:0.1636"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCCTC"	"31e10eac-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"131"	"CASZ1"	54897	"mskcc.org"	"GRCh37"	"1"	10834615	10834615	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs112815797"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-233-13701delG"	""	""	"ENST00000377022"	""	7	"."	4	1	"."	0	"CASZ1,intron_variant,,ENST00000377022,NM_001079843.2;CASZ1,intron_variant,,ENST00000344008,NM_017766.4;"	"-"	"ENSG00000130940"	"ENST00000377022"	"Transcript"	"intron_variant"	"-/7936"	"-/5280"	"-/1759"	""	""	"rs112815797"	"1"	NA	-1	"CASZ1"	"HGNC"	26002	"protein_coding"	"YES"	"CCDS41246.1"	"ENSP00000366221"	"Q86V15"	""	"UPI0000EBB7D6"	"NM_001079843.2"	NA	NA	""	"1/20"	""	"C:0.4658"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCC"	"31e9d492-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"132"	"CASZ1"	54897	"mskcc.org"	"GRCh37"	"1"	10845192	10845193	"+"	"Intron"	"INS"	"-"	"-"	"CTTTCCTTCCTTCCTTCCTTCCTCCCTTCCTTCCTCCCTCCCTTCCTCCCTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-234+11428_-234+11429insGAGGGAGGAAGGGAGGGAGGAAGGAAGGGAGGAAGGAAGGAAGGAAGGAAAG"	""	""	"ENST00000377022"	""	13	"."	4	10	"."	0	"CASZ1,intron_variant,,ENST00000377022,NM_001079843.2;CASZ1,intron_variant,,ENST00000344008,NM_017766.4;"	"CTTTCCTTCCTTCCTTCCTTCCTCCCTTCCTTCCTCCCTCCCTTCCTCCCTC"	"ENSG00000130940"	"ENST00000377022"	"Transcript"	"intron_variant"	"-/7936"	"-/5280"	"-/1759"	""	""	""	"1"	NA	-1	"CASZ1"	"HGNC"	26002	"protein_coding"	"YES"	"CCDS41246.1"	"ENSP00000366221"	"Q86V15"	""	"UPI0000EBB7D6"	"NM_001079843.2"	NA	NA	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"683ad1c2-2764-11e6-8bcb-94fe414a729f"	"229"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"133"	"TARDBP"	23435	"mskcc.org"	"GRCh37"	"1"	11071393	11071393	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"rs70977534"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000240185"	""	15	"."	3	11	"."	0	"TARDBP,upstream_gene_variant,,ENST00000240185,NM_007375.3;TARDBP,upstream_gene_variant,,ENST00000315091,;TARDBP,upstream_gene_variant,,ENST00000439080,;TARDBP,upstream_gene_variant,,ENST00000476201,;TARDBP,upstream_gene_variant,,ENST00000473118,;TARDBP,upstream_gene_variant,,ENST00000473869,;TARDBP,upstream_gene_variant,,ENST00000472476,;"	"-"	"ENSG00000120948"	"ENST00000240185"	"Transcript"	"upstream_gene_variant"	"-/2748"	"-/1245"	"-/414"	""	""	"rs70977534"	"1"	"1306"	1	"TARDBP"	"HGNC"	11571	"protein_coding"	"YES"	"CCDS122.1"	"ENSP00000240185"	"Q13148"	"K7EJM5"	"UPI0000136B42"	"NM_007375.3"	NA	NA	""	""	""	"A:0.1236"	"-:0.8381"	"-:0.8501"	NA	"-:0.9058"	"-:0.9076"	"-:0.8845"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGAA"	"31f9e47c-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"134"	"TARDBP"	23435	"mskcc.org"	"GRCh37"	"1"	11080723	11080724	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs143130606"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.714+69dupG"	""	""	"ENST00000240185"	""	11	"."	5	1	"."	0	"TARDBP,intron_variant,,ENST00000240185,NM_007375.3;TARDBP,intron_variant,,ENST00000315091,;TARDBP,intron_variant,,ENST00000439080,;TARDBP,downstream_gene_variant,,ENST00000476201,;TARDBP,downstream_gene_variant,,ENST00000473118,;TARDBP,upstream_gene_variant,,ENST00000480464,;TARDBP,intron_variant,,ENST00000473869,;TARDBP,intron_variant,,ENST00000477447,;TARDBP,downstream_gene_variant,,ENST00000472476,;TARDBP,upstream_gene_variant,,ENST00000496840,;"	"G"	"ENSG00000120948"	"ENST00000240185"	"Transcript"	"intron_variant"	"-/2748"	"-/1245"	"-/414"	""	""	"rs143130606"	"1"	NA	1	"TARDBP"	"HGNC"	11571	"protein_coding"	"YES"	"CCDS122.1"	"ENSP00000240185"	"Q13148"	"K7EJM5"	"UPI0000136B42"	"NM_007375.3"	NA	NA	""	"5/5"	""	"-:0.0847"	"G:0.9917"	"G:0.9049"	NA	"G:0.9226"	"G:0.841"	"G:0.8885"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"6844e19e-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"135"	"snoU13"	0	"mskcc.org"	"GRCh37"	"1"	12799799	12799800	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000458803"	""	24	"."	10	11	"."	0	"snoU13,downstream_gene_variant,,ENST00000458803,;"	"A"	"ENSG00000238771"	"ENST00000458803"	"Transcript"	"downstream_gene_variant"	"-/104"	""	""	""	""	""	"1"	"3"	1	"snoU13"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"688e8196-2764-11e6-8bcb-94fe414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"136"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	13871757	13871758	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs36058452"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	6	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs36058452"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.0599"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"689f9576-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"137"	"PDPN"	10630	"mskcc.org"	"GRCh37"	"1"	13905919	13905925	"+"	"5'Flank"	"DEL"	"ATTTTTT"	"ATTTTTT"	"-"	"rs113972980"	NA	"JHCCPT1"	"JHCCPN1"	"ATTTTTT"	"ATTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000294489"	""	7	"."	4	1	"."	0	"PDPN,upstream_gene_variant,,ENST00000294489,;PDPN,upstream_gene_variant,,ENST00000376057,NM_198389.2,NM_006474.4;PDPN,upstream_gene_variant,,ENST00000376061,;PDPN,upstream_gene_variant,,ENST00000513143,;PDPN,upstream_gene_variant,,ENST00000510906,;PDPN,upstream_gene_variant,,ENST00000509009,;PDPN,upstream_gene_variant,,ENST00000506205,;"	"-"	"ENSG00000162493"	"ENST00000294489"	"Transcript"	"upstream_gene_variant"	"-/3104"	"-/717"	"-/238"	""	""	"rs113972980"	"1"	"4035"	1	"PDPN"	"HGNC"	29602	"protein_coding"	"YES"	"CCDS30602.1"	"ENSP00000294489"	"Q86YL7"	"H0YA72"	"UPI000013E16D"	""	NA	NA	""	""	""	"-:0.4389"	"-:0.6271"	"-:0.4395"	NA	"-:0.1766"	"-:0.4175"	"-:0.4765"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAATTTTTTA"	"3395a06e-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"138"	"KAZN"	23254	"mskcc.org"	"GRCh37"	"1"	15236557	15236558	"+"	"Intron"	"INS"	"-"	"-"	"AATGAATGAATG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.227-50602_227-50591dupAATGAATGAATG"	""	""	"ENST00000376030"	""	7	"."	4	9	"."	0	"KAZN,intron_variant,,ENST00000376030,NM_201628.2;KAZN,intron_variant,,ENST00000422387,NM_015209.2;KAZN,intron_variant,,ENST00000503743,;KAZN,intron_variant,,ENST00000491547,;"	"AATGAATGAATG"	"ENSG00000189337"	"ENST00000376030"	"Transcript"	"intron_variant"	"-/6030"	"-/2328"	"-/775"	""	""	""	"1"	NA	1	"KAZN"	"HGNC"	29173	"protein_coding"	"YES"	"CCDS152.2"	"ENSP00000365198"	"Q674X7"	"B4DEV2,B0QYQ6"	"UPI0000E1E68A"	"NM_201628.2"	NA	NA	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"32"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"68c8f0ce-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"139"	"KAZN"	23254	"mskcc.org"	"GRCh37"	"1"	15438826	15438839	"+"	"Intron"	"DEL"	"TGTGTGTGTGTGTG"	"TGTGTGTGTGTGTG"	"-"	"rs139705142"	NA	"JHCCPT1"	"JHCCPN1"	"TGTGTGTGTGTGTG"	"TGTGTGTGTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2049-66_2049-53delGTGTGTGTGTGTGT"	""	""	"ENST00000376030"	""	16	"."	6	7	"."	0	"KAZN,intron_variant,,ENST00000376030,NM_201628.2;TMEM51-AS1,downstream_gene_variant,,ENST00000310916,;TMEM51-AS1,downstream_gene_variant,,ENST00000404665,;"	"-"	"ENSG00000189337"	"ENST00000376030"	"Transcript"	"intron_variant"	"-/6030"	"-/2328"	"-/775"	""	""	"rs139705142"	"1"	NA	1	"KAZN"	"HGNC"	29173	"protein_coding"	"YES"	"CCDS152.2"	"ENSP00000365198"	"Q674X7"	"B4DEV2,B0QYQ6"	"UPI0000E1E68A"	"NM_201628.2"	NA	NA	""	"13/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"31"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATGTGTGTGTGTGTGT"	"33cb00ce-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"140"	"CLCNKB"	1188	"mskcc.org"	"GRCh37"	"1"	16382828	16382834	"+"	"Intron"	"DEL"	"TCTTCCT"	"TCTTCCT"	"ACCA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TCTTCCT"	"TCTTCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1930-89_1930-83delTCTTCCTinsACCA"	""	""	"ENST00000375679"	""	416	"."	101	268	"."	0	"CLCNKB,intron_variant,,ENST00000375679,NM_000085.4;CLCNKB,intron_variant,,ENST00000375667,NM_001165945.2;CLCNKB,intron_variant,,ENST00000431772,;FAM131C,downstream_gene_variant,,ENST00000375662,NM_182623.2;FAM131C,downstream_gene_variant,,ENST00000494078,;"	"ACCA"	"ENSG00000184908"	"ENST00000375679"	"Transcript"	"intron_variant"	"-/2567"	"-/2064"	"-/687"	""	""	""	"1"	NA	1	"CLCNKB"	"HGNC"	2027	"protein_coding"	"YES"	"CCDS168.1"	"ENSP00000364831"	"P51801"	""	"UPI000040E261"	"NM_000085.4"	NA	NA	""	"18/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCTCTTCCTG"	"64df1f24-2764-11e6-8bcb-94fe414a729f"	"6060"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242788461538462	"WXS"	FALSE
"141"	"RP4-798A10.7"	0	"mskcc.org"	"GRCh37"	"1"	16840942	16840942	"+"	"5'Flank"	"DEL"	"C"	"C"	"-"	"rs376667525"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000562878"	""	7	"."	3	1	"."	0	"RP4-798A10.7,upstream_gene_variant,,ENST00000562878,;RNU1-1,upstream_gene_variant,,ENST00000383925,NR_004430.2;"	"-"	"ENSG00000261135"	"ENST00000562878"	"Transcript"	"upstream_gene_variant"	"-/1110"	""	""	""	""	"rs376667525"	"1"	"198"	1	"RP4-798A10.7"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2993"	"-:0.2897"	"-:0.2666"	NA	"-:0.2946"	"-:0.3042"	"-:0.3354"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"348842f6-2764-11e6-8bcb-94fe414a729f"	"87"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"142"	"ESPNP"	284729	"mskcc.org"	"GRCh37"	"1"	17028904	17028904	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs56359110"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1170+292delG"	""	""	"ENST00000270691"	""	7	"."	4	2	"."	0	"ESPNP,intron_variant,,ENST00000492551,;ESPNP,intron_variant,,ENST00000270691,;ESPNP,downstream_gene_variant,,ENST00000535711,;"	"-"	"ENSG00000268869"	"ENST00000270691"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2015"	""	""	""	""	"rs56359110"	"1"	NA	-1	"ESPNP"	"HGNC"	23285	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"34fbcfc8-2764-11e6-8bcb-94fe414a729f"	"192"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"143"	"CROCCP4"	0	"mskcc.org"	"GRCh37"	"1"	17074301	17074302	"+"	"5'Flank"	"INS"	"-"	"T"	"T"	"rs767723725"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000457096"	""	7	"."	5	1	"."	0	"CROCC,intron_variant,,ENST00000466256,;CROCCP4,upstream_gene_variant,,ENST00000457096,;"	"T"	"ENSG00000227684"	"ENST00000457096"	"Transcript"	"upstream_gene_variant"	"-/498"	""	""	""	""	"rs767723725"	"1"	"2426"	1	"CROCCP4"	"HGNC"	43864	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"69a2a1d4-2764-11e6-8bcb-94fe414a729f"	"140"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"144"	"CROCC"	9696	"mskcc.org"	"GRCh37"	"1"	17299014	17299014	"+"	"3'UTR"	"DEL"	"A"	"A"	"-"	"rs201543544"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*73delA"	""	""	"ENST00000375541"	"37/37"	68	"."	4	68	"."	0	"CROCC,3_prime_UTR_variant,,ENST00000375541,NM_014675.3;MFAP2,downstream_gene_variant,,ENST00000375535,;MFAP2,downstream_gene_variant,,ENST00000438542,NM_002403.3,NM_001135248.1;MFAP2,downstream_gene_variant,,ENST00000375534,NM_001135247.1,NM_017459.2;MFAP2,downstream_gene_variant,,ENST00000490075,;CROCC,downstream_gene_variant,,ENST00000465021,;CROCC,downstream_gene_variant,,ENST00000465291,;MFAP2,downstream_gene_variant,,ENST00000492598,;MFAP2,downstream_gene_variant,,ENST00000478684,;MFAP2,downstream_gene_variant,,ENST00000476788,;"	"-"	"ENSG00000058453"	"ENST00000375541"	"Transcript"	"3_prime_UTR_variant"	"6196/6656"	"-/6054"	"-/2017"	""	""	"rs201543544"	"1"	NA	1	"CROCC"	"HGNC"	21299	"protein_coding"	"YES"	"CCDS30616.1"	"ENSP00000364691"	"Q5TZA2"	""	"UPI00001AE5A0"	"NM_014675.3"	NA	NA	"37/37"	""	""	"-:0.4447"	"-:0.4493"	"-:0.4726"	NA	"-:0.4405"	"-:0.4235"	"-:0.4448"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAC"	"3524c77a-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WXS"	FALSE
"145"	"ENSR00001578803"	0	"mskcc.org"	"GRCh37"	"1"	17508393	17508394	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs11406970"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001578803"	""	7	"."	4	1	"."	0	""	"G"	""	"ENSR00001578803"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs11406970"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.2692"	"G:0.4977"	"G:0.2363"	NA	"G:0.0079"	"G:0.336"	"G:0.184"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"69aecb4e-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"146"	"PADI4"	23569	"mskcc.org"	"GRCh37"	"1"	17631814	17631815	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs57847210"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000375448"	""	8	"."	3	1	"."	0	"PADI4,upstream_gene_variant,,ENST00000375448,NM_012387.2;PADI4,upstream_gene_variant,,ENST00000375453,;"	"A"	"ENSG00000159339"	"ENST00000375448"	"Transcript"	"upstream_gene_variant"	"-/2267"	"-/1992"	"-/663"	""	""	"rs57847210"	"1"	"2877"	1	"PADI4"	"HGNC"	18368	"protein_coding"	"YES"	"CCDS180.1"	"ENSP00000364597"	"Q9UM07"	"Q6EVJ1"	"UPI000013DFF1"	"NM_012387.2"	NA	NA	""	""	""	"-:0.0377"	"A:0.8654"	"A:0.9942"	NA	"A:0.999"	"A:1"	"A:0.9939"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"69bb16ce-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"147"	"PADI4"	23569	"mskcc.org"	"GRCh37"	"1"	17666546	17666549	"+"	"Intron"	"DEL"	"CGCA"	"CGCA"	"-"	"rs138621568"	NA	"JHCCPT1"	"JHCCPN1"	"CGCA"	"CGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.652+239_652+242delGCAC"	""	""	"ENST00000375448"	""	10	"."	4	5	"."	0	"PADI4,intron_variant,,ENST00000375448,NM_012387.2;AC004824.2,intron_variant,,ENST00000602074,;"	"-"	"ENSG00000159339"	"ENST00000375448"	"Transcript"	"intron_variant"	"-/2267"	"-/1992"	"-/663"	""	""	"rs138621568"	"1"	NA	1	"PADI4"	"HGNC"	18368	"protein_coding"	"YES"	"CCDS180.1"	"ENSP00000364597"	"Q9UM07"	"Q6EVJ1"	"UPI000013DFF1"	"NM_012387.2"	NA	NA	""	"6/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGCGCAC"	"3547e674-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"148"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	18423804	18423805	"+"	"IGR"	"INS"	"-"	"-"	"TCCC"	"rs148296050"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	3	5	"."	0	""	"TCCC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148296050"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1749"	"TCCC:0.6301"	"TCCC:0.889"	NA	"TCCC:0.994"	"TCCC:0.8201"	"TCCC:0.8742"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"69e1b22a-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"149"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	19085744	19085758	"+"	"IGR"	"DEL"	"GAGGAGGAGGAGGAG"	"GAGGAGGAGGAGGAG"	"-"	"rs143611407"	NA	"JHCCPT1"	"JHCCPN1"	"GAGGAGGAGGAGGAG"	"GAGGAGGAGGAGGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	8	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143611407"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGAGGAGGAGGAGGAGG"	"35731e7a-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"150"	"LINC01141"	339505	"mskcc.org"	"GRCh37"	"1"	20702420	20702421	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs58398020"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1135+1453dupC"	""	""	"ENST00000426428"	""	11	"."	4	2	"."	0	"LINC01141,intron_variant,,ENST00000426428,;"	"G"	"ENSG00000236963"	"ENST00000426428"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2993"	""	""	""	""	"rs58398020"	"1"	NA	-1	"LINC01141"	"HGNC"	49455	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"9/11"	""	"G:0.2342"	"G:0.1974"	"G:0.2262"	NA	"G:0.3442"	"G:0.1948"	"G:0.2168"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"6a5fa036-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"151"	"LACTBL1"	646262	"mskcc.org"	"GRCh37"	"1"	23278323	23278324	"+"	"3'Flank"	"INS"	"-"	"-"	"AA"	"rs772351472"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000426928"	""	10	"."	3	13	"."	0	"LACTBL1,downstream_gene_variant,,ENST00000426928,;"	"AA"	"ENSG00000215906"	"ENST00000426928"	"Transcript"	"downstream_gene_variant"	"-/1641"	"-/1641"	"-/546"	""	""	"rs772351472"	"1"	"1212"	-1	"LACTBL1"	"HGNC"	35445	"protein_coding"	"YES"	""	"ENSP00000402297"	""	"H0Y608"	"UPI0002A47099"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"6adbab7c-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"152"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	23304469	23304470	"+"	"IGR"	"DEL"	"AG"	"AG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"3730505c-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"153"	"MDS2"	0	"mskcc.org"	"GRCh37"	"1"	23964700	23964701	"+"	"Intron"	"INS"	"-"	"-"	"GA"	"rs10654574"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4-889_4-888dupAG"	""	""	"ENST00000374555"	""	12	"."	5	2	"."	0	"MDS2,intron_variant,,ENST00000374555,;MDS2,intron_variant,,ENST00000477916,;"	"GA"	"ENSG00000197880"	"ENST00000374555"	"Transcript"	"intron_variant"	"-/1029"	"-/423"	"-/140"	""	""	"rs10654574"	"1"	NA	1	"MDS2"	"HGNC"	29633	"protein_coding"	"YES"	""	"ENSP00000363683"	"Q8NDY4"	""	"UPI000006EEED"	""	NA	NA	""	"4/6"	""	"-:0.3093"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"11"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"6b1e76d2-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	TRUE
"154"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	25189211	25189212	"+"	"IGR"	"INS"	"-"	"C"	"C"	"rs11454410"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11454410"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4485"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"6b437202-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"155"	"RP4-799D16.1"	0	"mskcc.org"	"GRCh37"	"1"	25380848	25380851	"+"	"Intron"	"DEL"	"TCCT"	"TCCT"	"-"	"rs538605614"	NA	"JHCCPT1"	"JHCCPN1"	"TCCT"	"TCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.361-10524_361-10521delAGGA"	""	""	"ENST00000424084"	""	19	"."	3	11	"."	0	"RP4-799D16.1,intron_variant,,ENST00000424084,;"	"-"	"ENSG00000233755"	"ENST00000424084"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/490"	""	""	""	""	"rs538605614"	"1"	NA	-1	"RP4-799D16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCCTT"	"37c59b12-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WXS"	FALSE
"156"	"RP4-799D16.1"	0	"mskcc.org"	"GRCh37"	"1"	25380953	25380954	"+"	"Intron"	"INS"	"-"	"-"	"CCTTCCTTCCTC"	"rs370559841"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.361-10627_361-10626insGAGGAAGGAAGG"	""	""	"ENST00000424084"	""	8	"."	3	2	"."	0	"RP4-799D16.1,intron_variant,,ENST00000424084,;"	"CCTTCCTTCCTC"	"ENSG00000233755"	"ENST00000424084"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/490"	""	""	""	""	"rs370559841"	"1"	NA	-1	"RP4-799D16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"6b44c882-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"157"	"SCARNA17"	0	"mskcc.org"	"GRCh37"	"1"	26330585	26330586	"+"	"5'Flank"	"INS"	"-"	"-"	"TCTTTCTTTC"	"rs148634620"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516381"	""	9	"."	5	2	"."	0	"SCARNA17,upstream_gene_variant,,ENST00000516381,;SCARNA18,upstream_gene_variant,,ENST00000516882,;"	"TCTTTCTTTC"	"ENSG00000252190"	"ENST00000516381"	"Transcript"	"upstream_gene_variant"	"-/125"	""	""	""	""	"rs148634620"	"1"	"1911"	1	"SCARNA17"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2432"	"TCTTTCTTTC:0.4546"	"TCTTTCTTTC:0.8718"	NA	"TCTTTCTTTC:0.9206"	"TCTTTCTTTC:0.8509"	"TCTTTCTTTC:0.818"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"6b5ce098-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"158"	"ENSR00001581053"	0	"mskcc.org"	"GRCh37"	"1"	29766368	29766369	"+"	"IGR"	"INS"	"-"	"G"	"G"	"rs35289477"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001581053"	""	8	"."	7	1	"."	0	""	"G"	""	"ENSR00001581053"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs35289477"	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4153"	"G:0.6044"	"G:0.5591"	NA	"G:0.7431"	"G:0.4583"	"G:0.5429"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"6bf6e3b4-2764-11e6-8bcb-94fe414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.875	"WXS"	FALSE
"159"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	30991046	30991047	"+"	"IGR"	"INS"	"-"	"-"	"GGAATGG"	"rs112355141"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"."	7	4	"."	0	""	"GGAATGG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112355141"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GGAATGG:0.3740"	"GGAATGG:0.6422"	"GGAATGG:0.2925"	NA	"GGAATGG:0.3234"	"GGAATGG:0.2435"	"GGAATGG:0.2556"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"6c123c9a-2764-11e6-8bcb-94fe414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.368421052631579	"WXS"	FALSE
"160"	"ZNF362"	149076	"mskcc.org"	"GRCh37"	"1"	33737654	33737654	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs35937563"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.38+1443delC"	""	""	"ENST00000539719"	""	11	"."	6	1	"."	0	"ZNF362,intron_variant,,ENST00000539719,NM_152493.2;ZNF362,intron_variant,,ENST00000373428,;ZNF362,intron_variant,,ENST00000483388,;ZNF362,intron_variant,,ENST00000490959,;"	"-"	"ENSG00000160094"	"ENST00000539719"	"Transcript"	"intron_variant"	"-/3106"	"-/1263"	"-/420"	""	""	"rs35937563"	"1"	NA	1	"ZNF362"	"HGNC"	18079	"protein_coding"	"YES"	"CCDS377.1"	"ENSP00000446335"	"Q5T0B9"	"F5H055"	"UPI000013E046"	"NM_152493.2"	NA	NA	""	"2/8"	""	"-:0.1661"	"-:0.0113"	"-:0.17"	NA	"-:0.2133"	"-:0.2247"	"-:0.2638"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"3a017cd4-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"161"	"PHC2"	1912	"mskcc.org"	"GRCh37"	"1"	33838721	33838722	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11422037"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.175-674dupA"	""	""	"ENST00000257118"	""	9	"."	5	1	"."	0	"PHC2,intron_variant,,ENST00000257118,NM_198040.2;PHC2,intron_variant,,ENST00000431992,;PHC2,intron_variant,,ENST00000419414,;PHC2,intron_variant,,ENST00000373416,;PHC2,intron_variant,,ENST00000468406,;PHC2,intron_variant,,ENST00000484692,;"	"T"	"ENSG00000134686"	"ENST00000257118"	"Transcript"	"intron_variant"	"-/3870"	"-/2577"	"-/858"	""	""	"rs11422037"	"1"	NA	-1	"PHC2"	"HGNC"	3183	"protein_coding"	"YES"	"CCDS378.1"	"ENSP00000257118"	"Q8IXK0"	""	"UPI0000074391"	"NM_198040.2"	NA	NA	""	"1/13"	""	"-:0.3994"	"T:0.8449"	"T:0.4078"	NA	"T:0.4782"	"T:0.5119"	"T:0.6247"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"6c9e7c28-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"162"	"RP4-580O19.2"	0	"mskcc.org"	"GRCh37"	"1"	33973421	33973428	"+"	"3'Flank"	"DEL"	"TCTTTCTT"	"TCTTTCTT"	"-"	"rs143558448"	NA	"JHCCPT1"	"JHCCPN1"	"TCTTTCTT"	"TCTTTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000424879"	""	10	"."	4	3	"."	0	"RP4-580O19.2,downstream_gene_variant,,ENST00000424879,;"	"-"	"ENSG00000235907"	"ENST00000424879"	"Transcript"	"downstream_gene_variant"	"-/736"	""	""	""	""	"rs143558448"	"1"	"4180"	-1	"RP4-580O19.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATCTTTCTTT"	"3a090eae-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"163"	"CSMD2"	114784	"mskcc.org"	"GRCh37"	"1"	34121697	34121697	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs11310641"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4327+1849delC"	""	""	"ENST00000241312"	""	12	"."	7	3	"."	0	"CSMD2,intron_variant,,ENST00000373381,NM_052896.3,NM_001281956.1;CSMD2,intron_variant,,ENST00000373380,;CSMD2,intron_variant,,ENST00000373388,;CSMD2,intron_variant,,ENST00000241312,;"	"-"	"ENSG00000121904"	"ENST00000241312"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/13108"	"-/10464"	"-/3487"	""	""	"rs11310641"	"1"	NA	-1	"CSMD2"	"HGNC"	19290	"nonsense_mediated_decay"	"YES"	"CCDS380.1"	"ENSP00000241312"	"Q7Z408"	""	"UPI00004561AB"	""	NA	NA	""	"27/69"	""	"G:0.0885"	"-:0.9894"	"-:0.8401"	NA	"-:0.8433"	"-:0.9195"	"-:0.9192"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"3a188f64-2764-11e6-8bcb-94fe414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"164"	"CSMD2"	114784	"mskcc.org"	"GRCh37"	"1"	34493468	34493511	"+"	"Intron"	"DEL"	"CAGCCCTACATGGGCAGAGCAGGACATGGGCAGACATGGGAGTC"	"CAGCCCTACATGGGCAGAGCAGGACATGGGCAGACATGGGAGTC"	"GCAGGACATGGGCAGACATGGGAGTCAGG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CAGCCCTACATGGGCAGAGCAGGACATGGGCAGACATGGGAGTC"	"CAGCCCTACATGGGCAGAGCAGGACATGGGCAGACATGGGAGTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.397+4684_397+4727delGACTCCCATGTCTGCCCATGTCCTGCTCTGCCCATGTAGGGCTGinsCCTGACTCCCATGTCTGCCCATGTCCTGC"	""	""	"ENST00000241312"	""	10	"."	4	2	"."	0	"CSMD2,intron_variant,,ENST00000373381,NM_052896.3,NM_001281956.1;CSMD2,intron_variant,,ENST00000241312,;"	"GCAGGACATGGGCAGACATGGGAGTCAGG"	"ENSG00000121904"	"ENST00000241312"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/13108"	"-/10464"	"-/3487"	""	""	""	"1"	NA	-1	"CSMD2"	"HGNC"	19290	"nonsense_mediated_decay"	"YES"	"CCDS380.1"	"ENSP00000241312"	"Q7Z408"	""	"UPI00004561AB"	""	NA	NA	""	"3/69"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACAGCCCTACATGGGCAGAGCAGGACATGGGCAGACATGGGAGTCA"	"6500e618-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"165"	"DLGAP3"	58512	"mskcc.org"	"GRCh37"	"1"	35372260	35372262	"+"	"Intron"	"DEL"	"AAG"	"AAG"	"-"	"rs146655298"	NA	"JHCCPT1"	"JHCCPN1"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-52+694_-52+696delCTT"	""	""	"ENST00000373347"	""	6	"."	4	2	"."	0	"DLGAP3,intron_variant,,ENST00000373347,;DLGAP3,upstream_gene_variant,,ENST00000235180,NM_001080418.1;DLGAP3,intron_variant,,ENST00000495979,;"	"-"	"ENSG00000116544"	"ENST00000373347"	"Transcript"	"intron_variant"	"-/3856"	"-/2940"	"-/979"	""	""	"rs146655298"	"1"	NA	-1	"DLGAP3"	"HGNC"	30368	"protein_coding"	"YES"	"CCDS30670.1"	"ENSP00000362444"	"O95886"	"B4DH33"	"UPI00003D4D81"	""	NA	NA	""	"2/11"	""	"-:0.3470"	"-:0.09"	"-:0.3141"	NA	"-:0.4762"	"-:0.4264"	"-:0.5031"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAAAGA"	"3a709768-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"166"	"ZMYM4"	9202	"mskcc.org"	"GRCh37"	"1"	35734987	35734997	"+"	"Intron"	"DEL"	"AGTGCATCTTT"	"AGTGCATCTTT"	"-"	"rs72327719"	NA	"JHCCPT1"	"JHCCPN1"	"AGTGCATCTTT"	"AGTGCATCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.39+315_39+325delGCATCTTTAGT"	""	""	"ENST00000314607"	""	11	"."	6	1	"."	0	"ZMYM4,intron_variant,,ENST00000314607,NM_005095.2;ZMYM4,intron_variant,,ENST00000373297,;ZMYM4,intron_variant,,ENST00000441447,;RN7SL136P,upstream_gene_variant,,ENST00000583196,;"	"-"	"ENSG00000146463"	"ENST00000314607"	"Transcript"	"intron_variant"	"-/6994"	"-/4647"	"-/1548"	""	""	"rs72327719"	"1"	NA	1	"ZMYM4"	"HGNC"	13055	"protein_coding"	"YES"	"CCDS389.1"	"ENSP00000322915"	"Q5VZL5"	""	"UPI0000203EE6"	"NM_005095.2"	NA	NA	""	"1/29"	""	"AGTGCATCTTT:0.4928"	"-:0.2284"	"-:0.5735"	NA	"-:0.2381"	"-:0.8837"	"-:0.727"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"14"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAAGTGCATCTTTA"	"3a7c9c7a-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"167"	"GRIK3"	2899	"mskcc.org"	"GRCh37"	"1"	37427002	37427003	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs75009367"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.116-70306dupT"	""	""	"ENST00000373091"	""	10	"."	4	1	"."	0	"GRIK3,intron_variant,,ENST00000373091,NM_000831.3;GRIK3,intron_variant,,ENST00000373093,;"	"A"	"ENSG00000163873"	"ENST00000373091"	"Transcript"	"intron_variant"	"-/9101"	"-/2760"	"-/919"	""	""	"rs75009367"	"1"	NA	-1	"GRIK3"	"HGNC"	4581	"protein_coding"	"YES"	"CCDS416.1"	"ENSP00000362183"	"Q13003"	"Q96SC0"	"UPI000013E311"	"NM_000831.3"	NA	NA	""	"1/15"	""	"-:0.2819"	"A:0.708"	"A:0.7262"	NA	"A:0.8393"	"A:0.6143"	"A:0.7076"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"6cf55336-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"168"	"RP5-1180C18.1"	0	"mskcc.org"	"GRCh37"	"1"	37772986	37773010	"+"	"Intron"	"DEL"	"GAAAGAACAAGGTAGAAGGGAAGAA"	"GAAAGAACAAGGTAGAAGGGAAGAA"	"-"	"rs145207230"	NA	"JHCCPT1"	"JHCCPN1"	"GAAAGAACAAGGTAGAAGGGAAGAA"	"GAAAGAACAAGGTAGAAGGGAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.111+17581_111+17605delTTCTTCCCTTCTACCTTGTTCTTTC"	""	""	"ENST00000413901"	""	10	"."	5	3	"."	0	"RP5-1180C18.1,intron_variant,,ENST00000413901,;"	"-"	"ENSG00000223944"	"ENST00000413901"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/596"	""	""	""	""	"rs145207230"	"1"	NA	-1	"RP5-1180C18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"-:0.4808"	"-:0.3638"	"-:0.5288"	NA	"-:0.5099"	"-:0.5358"	"-:0.5184"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAAGAACAAGGTAGAAGGGAAGAAG"	"3b1a6068-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"169"	"INPP5B"	3633	"mskcc.org"	"GRCh37"	"1"	38346095	38346096	"+"	"Intron"	"INS"	"-"	"-"	"TTTA"	"rs373379144"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1432-233_1432-230dupTAAA"	""	""	"ENST00000373024"	""	21	"."	3	9	"."	0	"INPP5B,intron_variant,,ENST00000373023,NM_005540.2;INPP5B,intron_variant,,ENST00000373027,;INPP5B,intron_variant,,ENST00000373026,;INPP5B,intron_variant,,ENST00000373024,;INPP5B,intron_variant,,ENST00000458109,;RNU6-584P,upstream_gene_variant,,ENST00000410350,;SNORA63,upstream_gene_variant,,ENST00000516639,;"	"TTTA"	"ENSG00000204084"	"ENST00000373024"	"Transcript"	"intron_variant"	"-/3060"	"-/2742"	"-/913"	""	""	"rs373379144"	"1"	NA	-1	"INPP5B"	"HGNC"	6077	"protein_coding"	"YES"	"CCDS41306.1"	"ENSP00000362115"	"P32019"	""	"UPI0000458AD7"	""	NA	NA	""	"14/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"6d24ed44-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"170"	"BMP8A"	353500	"mskcc.org"	"GRCh37"	"1"	39988318	39988319	"+"	"Intron"	"INS"	"-"	"-"	"TTG"	"rs139401553"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.948+178_948+180dupTGT"	""	""	"ENST00000331593"	""	6	"."	3	3	"."	0	"BMP8A,intron_variant,,ENST00000331593,NM_181809.3;RP11-69E11.4,intron_variant,,ENST00000331856,;RP11-69E11.4,intron_variant,,ENST00000458207,;RP11-69E11.4,intron_variant,,ENST00000440190,;RP11-69E11.4,intron_variant,,ENST00000450157,;RP11-69E11.4,intron_variant,,ENST00000431553,;RP11-69E11.4,intron_variant,,ENST00000441741,;RP11-69E11.4,intron_variant,,ENST00000417869,;"	"TTG"	"ENSG00000183682"	"ENST00000331593"	"Transcript"	"intron_variant"	"-/1692"	"-/1209"	"-/402"	""	""	"rs139401553"	"1"	NA	1	"BMP8A"	"HGNC"	21650	"protein_coding"	"YES"	"CCDS437.1"	"ENSP00000327440"	"Q7Z5Y6"	""	"UPI00002057D6"	"NM_181809.3"	NA	NA	""	"5/6"	""	"TTG:0.4856"	"TTG:0.2549"	"TTG:0.5259"	NA	"TTG:0.5198"	"TTG:0.494"	"TTG:0.7249"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"6d6d846e-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"171"	"BMP8B"	656	"mskcc.org"	"GRCh37"	"1"	40253772	40253773	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.334+52dupA"	""	""	"ENST00000372827"	""	8	"."	3	1	"."	0	"BMP8B,intron_variant,,ENST00000372827,NM_001720.3;BMP8B,intron_variant,,ENST00000397360,;RP1-118J21.25,upstream_gene_variant,,ENST00000566366,;"	"T"	"ENSG00000116985"	"ENST00000372827"	"Transcript"	"intron_variant"	"-/4822"	"-/1209"	"-/402"	""	""	""	"1"	NA	-1	"BMP8B"	"HGNC"	1075	"protein_coding"	"YES"	"CCDS444.1"	"ENSP00000361915"	"P34820"	""	"UPI000013C9D9"	"NM_001720.3"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"-1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"6d81d176-2764-11e6-8bcb-94fe414a729f"	"141"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"172"	"ZMPSTE24"	10269	"mskcc.org"	"GRCh37"	"1"	40728530	40728530	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs3841778"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.270+1874delA"	""	""	"ENST00000372759"	""	8	"."	4	1	"."	0	"ZMPSTE24,intron_variant,,ENST00000372759,NM_005857.4;RP1-39G22.7,upstream_gene_variant,,ENST00000567508,;ZMPSTE24,non_coding_transcript_exon_variant,,ENST00000479131,;ZMPSTE24,intron_variant,,ENST00000472583,;RP1-39G22.4,non_coding_transcript_exon_variant,,ENST00000447743,;"	"-"	"ENSG00000084073"	"ENST00000372759"	"Transcript"	"intron_variant"	"-/3108"	"-/1428"	"-/475"	""	""	"rs3841778"	"1"	NA	1	"ZMPSTE24"	"HGNC"	12877	"protein_coding"	"YES"	"CCDS449.1"	"ENSP00000361845"	"O75844"	"B3KNM6"	"UPI000012A4C5"	"NM_005857.4"	NA	NA	""	"2/9"	""	"A:0.4187"	"-:0.7685"	"-:0.4914"	NA	"-:0.627"	"-:0.3698"	"-:0.5624"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTAA"	"3bfbe06a-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"173"	"HIVEP3"	59269	"mskcc.org"	"GRCh37"	"1"	41988707	41988708	"+"	"Intron"	"DEL"	"AC"	"-"	"-"	"rs151217210"	NA	"JHCCPT1"	"JHCCPN1"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5383+1698_5383+1699delGT"	""	""	"ENST00000372583"	""	7	"."	5	3	"."	0	"HIVEP3,intron_variant,,ENST00000372584,NM_001127714.2;HIVEP3,intron_variant,,ENST00000372583,NM_024503.4;HIVEP3,intron_variant,,ENST00000247584,;HIVEP3,intron_variant,,ENST00000429157,;HIVEP3,intron_variant,,ENST00000460604,;"	"-"	"ENSG00000127124"	"ENST00000372583"	"Transcript"	"intron_variant"	"-/12193"	"-/7221"	"-/2406"	""	""	"rs151217210"	"1"	NA	-1	"HIVEP3"	"HGNC"	13561	"protein_coding"	"YES"	"CCDS463.1"	"ENSP00000361664"	"Q5T1R4"	""	"UPI000013CC24"	"NM_024503.4"	NA	NA	""	"6/8"	""	"-:0.0485"	"-:0.0144"	"-:0.111"	NA	"-:0.004"	"-:0.0417"	"-:0.1033"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAACA"	"3c1fc700-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"174"	"PTPRF"	5792	"mskcc.org"	"GRCh37"	"1"	44055094	44055095	"+"	"Intron"	"INS"	"-"	"-"	"CTT"	"rs34478853"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.949+423_949+424insCTT"	""	""	"ENST00000359947"	""	6	"."	3	2	"."	0	"PTPRF,intron_variant,,ENST00000359947,NM_002840.3;PTPRF,intron_variant,,ENST00000372414,;PTPRF,intron_variant,,ENST00000372413,;PTPRF,intron_variant,,ENST00000438120,NM_130440.2;PTPRF,upstream_gene_variant,,ENST00000429895,;PTPRF,upstream_gene_variant,,ENST00000414879,;PTPRF,upstream_gene_variant,,ENST00000422171,;PTPRF,upstream_gene_variant,,ENST00000412568,;PTPRF,intron_variant,,ENST00000467464,;"	"CTT"	"ENSG00000142949"	"ENST00000359947"	"Transcript"	"intron_variant"	"-/7727"	"-/5724"	"-/1907"	""	""	"rs34478853"	"1"	NA	1	"PTPRF"	"HGNC"	9670	"protein_coding"	"YES"	"CCDS489.2"	"ENSP00000353030"	"P10586"	"G1UI20"	"UPI0000470154"	"NM_002840.3"	NA	NA	""	"8/33"	""	"CTT:0.2817"	"CTT:0.0666"	"CTT:0.2435"	NA	"CTT:0.4841"	"CTT:0.3191"	"CTT:0.3528"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"6e1e4eca-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"175"	"ST3GAL3"	6487	"mskcc.org"	"GRCh37"	"1"	44283445	44283450	"+"	"Intron"	"DEL"	"TCTCCT"	"TCTCCT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TCTCCT"	"TCTCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.254+2840_254+2845delTCTCCT"	""	""	"ENST00000262915"	""	15	"."	4	6	"."	0	"ST3GAL3,intron_variant,,ENST00000262915,NM_174963.3;ST3GAL3,intron_variant,,ENST00000372375,NM_174968.3;ST3GAL3,intron_variant,,ENST00000351035,NM_174971.3;ST3GAL3,intron_variant,,ENST00000361392,NM_006279.3,NM_001270459.1,NM_174964.2;ST3GAL3,intron_variant,,ENST00000361400,NM_174969.2;ST3GAL3,intron_variant,,ENST00000372374,NM_001270460.1;ST3GAL3,intron_variant,,ENST00000335430,;ST3GAL3,intron_variant,,ENST00000353126,NM_001270461.1,NM_174966.2;ST3GAL3,intron_variant,,ENST00000372377,;ST3GAL3,intron_variant,,ENST00000545417,NM_174965.2;ST3GAL3,intron_variant,,ENST00000330208,NM_174967.2,NM_174970.2;ST3GAL3,intron_variant,,ENST00000361746,;ST3GAL3,intron_variant,,ENST00000347631,;ST3GAL3,intron_variant,,ENST00000372368,;ST3GAL3,intron_variant,,ENST00000372372,;ST3GAL3,intron_variant,,ENST00000372369,;ST3GAL3,intron_variant,,ENST00000332628,;ST3GAL3,intron_variant,,ENST00000533933,;ST3GAL3,intron_variant,,ENST00000531993,;ST3GAL3,intron_variant,,ENST00000372365,;ST3GAL3,intron_variant,,ENST00000372366,NM_001270465.1;ST3GAL3,intron_variant,,ENST00000372367,NM_001270463.1;ST3GAL3,intron_variant,,ENST00000528371,NM_001270464.1;ST3GAL3,intron_variant,,ENST00000361812,;ST3GAL3,intron_variant,,ENST00000372362,;ST3GAL3,intron_variant,,ENST00000531451,;ST3GAL3,intron_variant,,ENST00000531816,NM_001270466.1;ST3GAL3,intron_variant,,ENST00000461375,;ST3GAL3,intron_variant,,ENST00000530154,;ST3GAL3,intron_variant,,ENST00000469715,;ST3GAL3,intron_variant,,ENST00000533997,;ST3GAL3,intron_variant,,ENST00000489897,;ST3GAL3,intron_variant,,ENST00000490541,;ST3GAL3,intron_variant,,ENST00000530581,;ST3GAL3,intron_variant,,ENST00000479383,;ST3GAL3,intron_variant,,ENST00000533212,;ST3GAL3,intron_variant,,ENST00000532911,;ST3GAL3,intron_variant,,ENST00000461066,;"	"-"	"ENSG00000126091"	"ENST00000262915"	"Transcript"	"intron_variant"	"-/2449"	"-/1335"	"-/444"	""	""	""	"1"	NA	1	"ST3GAL3"	"HGNC"	10866	"protein_coding"	"YES"	"CCDS493.1"	"ENSP00000262915"	"Q11203"	""	"UPI000007440A"	"NM_174963.3"	NA	NA	""	"4/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTTCTTCTCCTC"	"65037eaa-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"176"	"RP4-533D7.5"	101929626	"mskcc.org"	"GRCh37"	"1"	46609113	46609114	"+"	"3'Flank"	"INS"	"-"	"-"	"TGTTTTCT"	"rs142026799"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000452785"	""	8	"."	4	2	"."	0	"PIK3R3,intron_variant,,ENST00000540385,;RP4-533D7.5,downstream_gene_variant,,ENST00000452785,;"	"TGTTTTCT"	"ENSG00000227857"	"ENST00000452785"	"Transcript"	"downstream_gene_variant"	"-/339"	""	""	""	""	"rs142026799"	"1"	"4360"	1	"RP4-533D7.5"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1673"	"TGTTTTCT:0.7769"	"TGTTTTCT:0.8646"	NA	"TGTTTTCT:0.9871"	"TGTTTTCT:0.7584"	"TGTTTTCT:0.8027"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"6e8e085a-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"177"	"MKNK1"	8569	"mskcc.org"	"GRCh37"	"1"	47046466	47046466	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs60914701"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.137-167delG"	""	""	"ENST00000371946"	""	19	"."	5	6	"."	0	"MKNK1,intron_variant,,ENST00000371946,NM_003684.5;MKNK1,intron_variant,,ENST00000341183,NM_198973.3;MKNK1,intron_variant,,ENST00000371945,NM_001135553.2;MKNK1,intron_variant,,ENST00000371944,;MKNK1,intron_variant,,ENST00000428112,;MKNK1,intron_variant,,ENST00000545730,;MKNK1,intron_variant,,ENST00000496619,;MKNK1,intron_variant,,ENST00000532783,;MKNK1,intron_variant,,ENST00000531769,;MKNK1,intron_variant,,ENST00000528237,;MKNK1,intron_variant,,ENST00000529170,;MKNK1,intron_variant,,ENST00000532110,;MKNK1,intron_variant,,ENST00000465783,;MKNK1,downstream_gene_variant,,ENST00000525888,;MKNK1,intron_variant,,ENST00000484301,;MKNK1,intron_variant,,ENST00000342571,;MKNK1,intron_variant,,ENST00000528077,;MKNK1,intron_variant,,ENST00000531355,;MKNK1,intron_variant,,ENST00000526513,;MKNK1,intron_variant,,ENST00000480531,;MKNK1,intron_variant,,ENST00000486716,;MKNK1,intron_variant,,ENST00000474868,;MKNK1,downstream_gene_variant,,ENST00000477883,;"	"-"	"ENSG00000079277"	"ENST00000371946"	"Transcript"	"intron_variant"	"-/2719"	"-/1398"	"-/465"	""	""	"rs60914701"	"1"	NA	-1	"MKNK1"	"HGNC"	7110	"protein_coding"	"YES"	"CCDS538.1"	"ENSP00000361014"	"Q9BUB5"	"E9PSE0,E9PLE7"	"UPI0000073749"	"NM_003684.5"	NA	NA	""	"3/13"	""	"-:0.2390"	"-:0.1914"	"-:0.3184"	NA	"-:0.2361"	"-:0.2664"	"-:0.2219"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACC"	"3e235c24-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"178"	"RP11-193P11.3"	0	"mskcc.org"	"GRCh37"	"1"	48544943	48544943	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs554048045"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.55-247delA"	""	""	"ENST00000455238"	""	6	"."	3	2	"."	0	"RP11-193P11.3,intron_variant,,ENST00000455238,;"	"-"	"ENSG00000231413"	"ENST00000455238"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/292"	""	""	""	""	"rs554048045"	"1"	NA	-1	"RP11-193P11.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.0022"	"-:0"	"-:0.0014"	NA	"-:0"	"-:0.0099"	"-:0"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTC"	"3e6b5b8c-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"179"	"AGBL4"	84871	"mskcc.org"	"GRCh37"	"1"	49124365	49124366	"+"	"Intron"	"INS"	"-"	"-"	"GAG"	"rs3064721"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.724+4456_724+4458dupCTC"	""	""	"ENST00000371839"	""	8	"."	5	2	"."	0	"AGBL4,intron_variant,,ENST00000416121,;AGBL4,intron_variant,,ENST00000371839,NM_032785.3;AGBL4,intron_variant,,ENST00000371838,;AGBL4,intron_variant,,ENST00000334103,;"	"GAG"	"ENSG00000186094"	"ENST00000371839"	"Transcript"	"intron_variant"	"-/2947"	"-/1512"	"-/503"	""	""	"rs3064721"	"1"	NA	-1	"AGBL4"	"HGNC"	25892	"protein_coding"	"YES"	"CCDS44137.1"	"ENSP00000360905"	"Q5VU57"	""	"UPI00002042F9"	"NM_032785.3"	NA	NA	""	"7/13"	""	"GAG:0.4481"	"GAG:0.3222"	"GAG:0.5014"	NA	"GAG:0.3313"	"GAG:0.6014"	"GAG:0.5429"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"6eefca0e-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"180"	"RNF11"	26994	"mskcc.org"	"GRCh37"	"1"	51699955	51699956	"+"	"5'Flank"	"INS"	"-"	"-"	"TCTTTCTCTTTCTTTCTTTCTTTTTCTTTCTTTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000242719"	""	8	"."	3	3	"."	0	"RNF11,upstream_gene_variant,,ENST00000242719,NM_014372.4;RP11-296A18.3,intron_variant,,ENST00000366181,;snoU13,upstream_gene_variant,,ENST00000459356,;RNF11,upstream_gene_variant,,ENST00000494873,;"	"TCTTTCTCTTTCTTTCTTTCTTTTTCTTTCTTTC"	"ENSG00000123091"	"ENST00000242719"	"Transcript"	"upstream_gene_variant"	"-/3084"	"-/465"	"-/154"	""	""	""	"1"	"1987"	1	"RNF11"	"HGNC"	10056	"protein_coding"	"YES"	"CCDS556.1"	"ENSP00000242719"	"Q9Y3C5"	""	"UPI000000DC27"	"NM_014372.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"6f133a20-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"181"	"RP11-117D22.2"	0	"mskcc.org"	"GRCh37"	"1"	53832191	53832191	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"rs34558871"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000449958"	""	7	"."	4	2	"."	0	"RP11-117D22.2,downstream_gene_variant,,ENST00000449958,;"	"-"	"ENSG00000230138"	"ENST00000449958"	"Transcript"	"downstream_gene_variant"	"-/850"	""	""	""	""	"rs34558871"	"1"	"149"	-1	"RP11-117D22.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.4273"	"-:0.4145"	"-:0.7392"	NA	"-:0.6379"	"-:0.6213"	"-:0.5511"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTCC"	"3f82bd44-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"182"	"ACOT11"	26027	"mskcc.org"	"GRCh37"	"1"	55088520	55088520	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs11365693"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1630-7883delG"	""	""	"ENST00000371316"	""	7	"."	4	2	"."	0	"ACOT11,intron_variant,,ENST00000371316,NM_015547.3;FAM151A,intron_variant,,ENST00000302250,NM_176782.2;FAM151A,intron_variant,,ENST00000371304,;RP11-240D10.4,intron_variant,,ENST00000416119,;"	"-"	"ENSG00000162390"	"ENST00000371316"	"Transcript"	"intron_variant"	"-/6369"	"-/1824"	"-/607"	""	""	"rs11365693"	"1"	NA	1	"ACOT11"	"HGNC"	18156	"protein_coding"	"YES"	"CCDS592.1"	"ENSP00000360366"	"Q8WXI4"	""	"UPI0000136D55"	"NM_015547.3"	NA	NA	""	"15/16"	""	"G:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"3fda3b5a-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"183"	"ACOT11"	26027	"mskcc.org"	"GRCh37"	"1"	55105582	55105583	"+"	"3'Flank"	"INS"	"-"	"-"	"GAG"	"rs111308892"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371316"	""	6	"."	4	4	"."	0	"ACOT11,downstream_gene_variant,,ENST00000371316,NM_015547.3;MROH7,upstream_gene_variant,,ENST00000421030,NM_001039464.2;MROH7,upstream_gene_variant,,ENST00000339553,;MROH7,upstream_gene_variant,,ENST00000395690,;MROH7,upstream_gene_variant,,ENST00000409996,;MROH7,upstream_gene_variant,,ENST00000454855,;MROH7,upstream_gene_variant,,ENST00000545244,;MROH7,upstream_gene_variant,,ENST00000472987,;MROH7,upstream_gene_variant,,ENST00000478097,;MROH7-TTC4,upstream_gene_variant,,ENST00000425300,;MROH7-TTC4,upstream_gene_variant,,ENST00000414150,;MROH7-TTC4,upstream_gene_variant,,ENST00000606515,;MROH7,upstream_gene_variant,,ENST00000440047,;"	"GAG"	"ENSG00000162390"	"ENST00000371316"	"Transcript"	"downstream_gene_variant"	"-/6369"	"-/1824"	"-/607"	""	""	"rs111308892"	"1"	"717"	1	"ACOT11"	"HGNC"	18156	"protein_coding"	"YES"	"CCDS592.1"	"ENSP00000360366"	"Q8WXI4"	""	"UPI0000136D55"	"NM_015547.3"	NA	NA	""	""	""	"-:0.1002"	"GAG:0.8979"	"GAG:0.8602"	NA	"GAG:0.997"	"GAG:0.7903"	"GAG:0.9427"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"6f8184f8-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"184"	"C1orf177"	163747	"mskcc.org"	"GRCh37"	"1"	55285509	55285536	"+"	"Intron"	"DEL"	"TTCTCTTTCTTTCTTTCCTTCCTTCCTT"	"TTCTCTTTCTTTCTTTCCTTCCTTCCTT"	"CTTCCTTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TTCTCTTTCTTTCTTTCCTTCCTTCCTT"	"TTCTCTTTCTTTCTTTCCTTCCTTCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1184+2714_1184+2741delTTCTCTTTCTTTCTTTCCTTCCTTCCTTinsCTTCCTTC"	""	""	"ENST00000371273"	""	11	"."	3	7	"."	0	"C1orf177,intron_variant,,ENST00000358193,NM_152607.2;C1orf177,intron_variant,,ENST00000371273,NM_001110533.1;"	"CTTCCTTC"	"ENSG00000162398"	"ENST00000371273"	"Transcript"	"intron_variant"	"-/1651"	"-/1257"	"-/418"	""	""	""	"1"	NA	1	"C1orf177"	"HGNC"	26854	"protein_coding"	"YES"	"CCDS44153.1"	"ENSP00000360320"	"Q3ZCV2"	""	"UPI0000204405"	"NM_001110533.1"	NA	NA	""	"9/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTCTCTTTCTTTCTTTCCTTCCTTCCTTC"	"65162bea-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"185"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	55415882	55415882	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs34180821"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34180821"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.0134"	"-:0.9516"	"-:0.9971"	NA	"-:1"	"-:0.999"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"3ff6204a-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"186"	"BSND"	7809	"mskcc.org"	"GRCh37"	"1"	55468631	55468632	"+"	"Intron"	"INS"	"-"	"-"	"TGA"	"rs113629656"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.178-2062_178-2060dupGAT"	""	""	"ENST00000371265"	""	26	"."	4	5	"."	0	"BSND,intron_variant,,ENST00000371265,NM_057176.2;"	"TGA"	"ENSG00000162399"	"ENST00000371265"	"Transcript"	"intron_variant"	"-/3472"	"-/963"	"-/320"	""	""	"rs113629656"	"1"	NA	1	"BSND"	"HGNC"	16512	"protein_coding"	"YES"	"CCDS602.1"	"ENSP00000360312"	"Q8WZ55"	"Q5VU50"	"UPI000006DC8D"	"NM_057176.2"	NA	NA	""	"1/3"	""	"TGA:0.4968"	"TGA:0.4939"	"TGA:0.4928"	NA	"TGA:0.497"	"TGA:0.5"	"TGA:0.5"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"6f87408c-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WXS"	FALSE
"187"	"USP24"	23358	"mskcc.org"	"GRCh37"	"1"	55545465	55545466	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs72019614"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7079-134_7079-133delAG"	""	""	"ENST00000294383"	""	41	"."	3	17	"."	0	"USP24,intron_variant,,ENST00000294383,NM_015306.2;USP24,intron_variant,,ENST00000407756,;USP24,upstream_gene_variant,,ENST00000484447,;USP24,downstream_gene_variant,,ENST00000472566,;USP24,downstream_gene_variant,,ENST00000512504,;"	"-"	"ENSG00000162402"	"ENST00000294383"	"Transcript"	"intron_variant"	"-/10549"	"-/7863"	"-/2620"	""	""	"rs72019614"	"1"	NA	-1	"USP24"	"HGNC"	12623	"protein_coding"	"YES"	"CCDS44154.2"	"ENSP00000294383"	"Q9UPU5"	""	"UPI000059CFDE"	"NM_015306.2"	NA	NA	""	"59/67"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACTG"	"400c9136-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WXS"	FALSE
"188"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	55785646	55785647	"+"	"IGR"	"INS"	"-"	"-"	"TGGGC"	"rs10661385"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"TGGGC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10661385"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2584"	"TGGGC:0.5514"	"TGGGC:0.7954"	NA	"TGGGC:0.7163"	"TGGGC:0.8519"	"TGGGC:0.8732"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"6f9af730-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"189"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"1"	55949029	55949030	"+"	"3'Flank"	"INS"	"-"	"GAGTAATACAT"	"GAGTAATACAT"	"rs2307835"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000606692"	""	6	"."	5	3	"."	0	"Y_RNA,downstream_gene_variant,,ENST00000606692,;"	"GAGTAATACAT"	"ENSG00000272051"	"ENST00000606692"	"Transcript"	"downstream_gene_variant"	"-/102"	""	""	""	""	"rs2307835"	"1"	"1514"	-1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"6f9fe13c-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"190"	"DAB1"	1600	"mskcc.org"	"GRCh37"	"1"	58086945	58086946	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGC"	"rs146431425"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-137+28313_-137+28318dupGCACAC"	""	""	"ENST00000371234"	""	8	"."	5	1	"."	0	"DAB1,intron_variant,,ENST00000371234,NM_021080.3;DAB1,intron_variant,,ENST00000485760,;"	"GTGTGC"	"ENSG00000173406"	"ENST00000371234"	"Transcript"	"intron_variant"	"-/2580"	"-/1668"	"-/555"	""	""	"rs146431425"	"1"	NA	-1	"DAB1"	"HGNC"	2661	"protein_coding"	""	"CCDS607.1"	"ENSP00000360278"	"O75553"	""	"UPI000013EE33"	"NM_021080.3"	NA	NA	""	"3/16"	""	"-:0.2911"	"GTGTGC:0.3502"	"GTGTGC:0.8256"	NA	"GTGTGC:0.8036"	"GTGTGC:0.8767"	"GTGTGC:0.8405"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"6fb6c190-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"191"	"RP11-393I23.4"	0	"mskcc.org"	"GRCh37"	"1"	58537035	58537036	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGTGT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.170-151_170-144dupTGTGTGTG"	""	""	"ENST00000419596"	""	10	"."	4	1	"."	0	"DAB1,intron_variant,,ENST00000371234,NM_021080.3;RP11-393I23.4,intron_variant,,ENST00000419596,;DAB1,intron_variant,,ENST00000485760,;"	"GTGTGTGT"	"ENSG00000235038"	"ENST00000419596"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/620"	""	""	""	""	""	"1"	NA	1	"RP11-393I23.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"43"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"6fb9b666-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"192"	"DAB1"	1600	"mskcc.org"	"GRCh37"	"1"	58660809	58660816	"+"	"Intron"	"DEL"	"AGAGAGAC"	"-"	"-"	"rs150055575"	NA	"JHCCPT1"	"JHCCPN1"	"AGAGAGAC"	"AGAGAGAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-375+55096_-375+55103delGTCTCTCT"	""	""	"ENST00000371234"	""	7	"."	5	1	"."	0	"DAB1,intron_variant,,ENST00000371234,NM_021080.3;DAB1,intron_variant,,ENST00000485760,;"	"-"	"ENSG00000173406"	"ENST00000371234"	"Transcript"	"intron_variant"	"-/2580"	"-/1668"	"-/555"	""	""	"rs150055575"	"1"	NA	-1	"DAB1"	"HGNC"	2661	"protein_coding"	""	"CCDS607.1"	"ENSP00000360278"	"O75553"	""	"UPI000013EE33"	"NM_021080.3"	NA	NA	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGAGAGACA"	"40448d84-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"193"	"DAB1"	1600	"mskcc.org"	"GRCh37"	"1"	58731710	58731711	"+"	"Intron"	"INS"	"-"	"-"	"CCACCACCA"	"rs6143228"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.309+77305_309+77313dupTGGTGGTGG"	""	""	"ENST00000485760"	""	27	"."	10	8	"."	0	"DAB1,intron_variant,,ENST00000485760,;"	"CCACCACCA"	"ENSG00000173406"	"ENST00000485760"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2668"	""	""	""	""	"rs6143228"	"1"	NA	-1	"DAB1"	"HGNC"	2661	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"4/20"	""	"-:0.4241"	"CCACCACCA:0.5983"	"CCACCACCA:0.4885"	NA	"CCACCACCA:0.627"	"CCACCACCA:0.5736"	"CCACCACCA:0.5573"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"6fbc4372-2764-11e6-8bcb-94fe414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.37037037037037	"WXS"	FALSE
"194"	"FGGY"	55277	"mskcc.org"	"GRCh37"	"1"	59970054	59970055	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs35975446"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.671-7928dupG"	""	""	"ENST00000371218"	""	10	"."	5	1	"."	0	"FGGY,intron_variant,,ENST00000371218,NM_001113411.1;FGGY,intron_variant,,ENST00000303721,NM_018291.3;FGGY,intron_variant,,ENST00000371212,NM_001244714.1;FGGY,intron_variant,,ENST00000474476,;FGGY,intron_variant,,ENST00000475949,;FGGY,intron_variant,,ENST00000430447,;FGGY,intron_variant,,ENST00000495718,;"	"G"	"ENSG00000172456"	"ENST00000371218"	"Transcript"	"intron_variant"	"-/2052"	"-/1728"	"-/575"	""	""	"rs35975446"	"1"	NA	1	"FGGY"	"HGNC"	25610	"protein_coding"	"YES"	"CCDS44155.1"	"ENSP00000360262"	"Q96C11"	"J3QKV9,C9J015"	"UPI0000458AF6"	"NM_001113411.1"	NA	NA	""	"6/16"	""	"G:0.4058"	"G:0.6573"	"G:0.4625"	NA	"G:0.2232"	"G:0.3857"	"G:0.2342"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"6fd28236-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"195"	"C1orf87"	127795	"mskcc.org"	"GRCh37"	"1"	60466840	60466840	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs746137756"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1193-12delA"	""	""	"ENST00000371201"	""	236	"."	3	107	"."	0	"C1orf87,intron_variant,,ENST00000371201,NM_152377.2;C1orf87,intron_variant,,ENST00000450089,;C1orf87,intron_variant,,ENST00000395552,;C1orf87,intron_variant,,ENST00000486478,;C1orf87,intron_variant,,ENST00000488027,;C1orf87,intron_variant,,ENST00000491817,;"	"-"	"ENSG00000162598"	"ENST00000371201"	"Transcript"	"intron_variant"	"-/2028"	"-/1641"	"-/546"	""	""	"rs746137756"	"1"	NA	-1	"C1orf87"	"HGNC"	28547	"protein_coding"	"YES"	"CCDS614.1"	"ENSP00000360244"	"Q8N0U7"	""	"UPI000006E066"	"NM_152377.2"	NA	NA	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.0003173"	"0.0006892"	"0.0001882"	"0"	"0.0002053"	"0.0003996"	"0"	"0"	NA	"common_variant"	"AATA"	"407e7832-2764-11e6-8bcb-94fe414a729f"	"180"	0.0003119	"19/60926"	"33/103990"	"4/5804"	"1/5314"	"0/3494"	"1/4872"	"13/32530"	"0/388"	"0/8524"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.0127118644067797	"WXS"	FALSE
"196"	"C1orf87"	127795	"mskcc.org"	"GRCh37"	"1"	60511768	60511770	"+"	"Intron"	"DEL"	"TCT"	"TCT"	"-"	"rs569009146"	NA	"JHCCPT1"	"JHCCPN1"	"TCT"	"TCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.343-4967_343-4965delAGA"	""	""	"ENST00000371201"	""	18	"."	6	7	"."	0	"C1orf87,intron_variant,,ENST00000371201,NM_152377.2;C1orf87,intron_variant,,ENST00000450089,;"	"-"	"ENSG00000162598"	"ENST00000371201"	"Transcript"	"intron_variant"	"-/2028"	"-/1641"	"-/546"	""	""	"rs569009146"	"1"	NA	-1	"C1orf87"	"HGNC"	28547	"protein_coding"	"YES"	"CCDS614.1"	"ENSP00000360244"	"Q8N0U7"	""	"UPI000006E066"	"NM_152377.2"	NA	NA	""	"3/11"	""	"-:0.0012"	"-:0"	"-:0"	NA	"-:0"	"-:0.003"	"-:0.0031"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTT"	"4080fe22-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"197"	"NFIA"	4774	"mskcc.org"	"GRCh37"	"1"	61579423	61579424	"+"	"Intron"	"INS"	"-"	"-"	"GGAGA"	"rs111560074"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.694+25073_694+25077dupGAGAG"	""	""	"ENST00000371189"	""	6	"."	4	4	"."	0	"NFIA,intron_variant,,ENST00000403491,NM_001134673.3,NM_005595.4;NFIA,intron_variant,,ENST00000371187,;NFIA,intron_variant,,ENST00000407417,NM_001145511.1;NFIA,intron_variant,,ENST00000371189,NM_001145512.1;NFIA,intron_variant,,ENST00000371191,;NFIA,intron_variant,,ENST00000371185,;NFIA,intron_variant,,ENST00000485903,;NFIA,intron_variant,,ENST00000371184,;NFIA,intron_variant,,ENST00000476646,;NFIA,intron_variant,,ENST00000496712,;NFIA,intron_variant,,ENST00000479364,;"	"GGAGA"	"ENSG00000162599"	"ENST00000371189"	"Transcript"	"intron_variant"	"-/1989"	"-/1665"	"-/554"	""	""	"rs111560074"	"1"	NA	1	"NFIA"	"HGNC"	7784	"protein_coding"	"YES"	"CCDS53322.1"	"ENSP00000360231"	"Q12857"	"S4R3K4"	"UPI000194EC2E"	"NM_001145512.1"	NA	NA	""	"3/11"	""	"-:0.0733"	"GGAGA:0.879"	"GGAGA:0.9597"	NA	"GGAGA:0.9524"	"GGAGA:0.9622"	"GGAGA:0.9049"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"6ff08c54-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"198"	"TM2D1"	83941	"mskcc.org"	"GRCh37"	"1"	62160525	62160526	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs149200386"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.626-85_626-84dupTA"	""	""	"ENST00000371180"	""	12	"."	3	4	"."	0	"TM2D1,intron_variant,,ENST00000294613,;TM2D1,intron_variant,,ENST00000371180,NM_032027.2;TM2D1,intron_variant,,ENST00000606498,;TM2D1,downstream_gene_variant,,ENST00000371177,;TM2D1,intron_variant,,ENST00000472989,;TM2D1,intron_variant,,ENST00000488410,;TM2D1,intron_variant,,ENST00000371178,;TM2D1,intron_variant,,ENST00000488206,;TM2D1,intron_variant,,ENST00000468586,;TM2D1,intron_variant,,ENST00000496465,;TM2D1,intron_variant,,ENST00000494926,;"	"TA"	"ENSG00000162604"	"ENST00000371180"	"Transcript"	"intron_variant"	"-/1248"	"-/810"	"-/269"	""	""	"rs149200386"	"1"	NA	-1	"TM2D1"	"HGNC"	24142	"protein_coding"	"YES"	""	"ENSP00000360222"	""	"J3KPA2"	"UPI00003D17CC"	"NM_032027.2"	NA	NA	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"700a35e6-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"199"	"INADL"	10207	"mskcc.org"	"GRCh37"	"1"	62350124	62350128	"+"	"Intron"	"DEL"	"TTTTT"	"TTTTT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TTTTT"	"TTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3131+61_3131+65delTTTTT"	""	""	"ENST00000371158"	""	112	"."	5	65	"."	0	"INADL,intron_variant,,ENST00000371158,NM_176877.2;INADL,intron_variant,,ENST00000316485,;INADL,intron_variant,,ENST00000484562,;INADL,intron_variant,,ENST00000459752,;INADL,intron_variant,,ENST00000484937,;"	"-"	"ENSG00000132849"	"ENST00000371158"	"Transcript"	"intron_variant"	"-/8505"	"-/5406"	"-/1801"	""	""	""	"1"	NA	1	"INADL"	"HGNC"	28881	"protein_coding"	"YES"	"CCDS617.2"	"ENSP00000360200"	"Q8NI35"	""	"UPI0000204487"	"NM_176877.2"	NA	NA	""	"22/42"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	NA	"1"	"0.2556"	"0.2855"	"0.3411"	"0.3207"	"0.3701"	"0.3089"	"0.2978"	"0.2714"	NA	"common_variant"	"GGTTTTTT"	"40bdb92a-2764-11e6-8bcb-94fe414a729f"	"300"	0.3138	"17881/56974"	"26005/101760"	"1323/4634"	"2485/7286"	"1510/4708"	"1804/4874"	"9241/29914"	"109/366"	"1409/5192"	"PASS"	"FALSE"	0.0446428571428571	"WXS"	FALSE
"200"	"ALG6"	29929	"mskcc.org"	"GRCh37"	"1"	63847336	63847340	"+"	"Intron"	"DEL"	"GGGAG"	"GGGAG"	"-"	"rs71813918"	NA	"JHCCPT1"	"JHCCPN1"	"GGGAG"	"GGGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.82+10626_82+10630delGGGAG"	""	""	"ENST00000371108"	""	13	"."	4	4	"."	0	"ALG6,intron_variant,,ENST00000371108,NM_013339.3;ALG6,intron_variant,,ENST00000263440,;ALG6,intron_variant,,ENST00000603108,;ALG6,intron_variant,,ENST00000487136,;"	"-"	"ENSG00000088035"	"ENST00000371108"	"Transcript"	"intron_variant"	"-/3371"	"-/1524"	"-/507"	""	""	"rs71813918"	"1"	NA	1	"ALG6"	"HGNC"	23157	"protein_coding"	"YES"	"CCDS30735.1"	"ENSP00000360149"	"Q9Y672"	""	"UPI00001E057D"	"NM_013339.3"	NA	NA	""	"2/14"	""	"-:0.4123"	"-:0.3563"	"-:0.4712"	NA	"-:0.4821"	"-:0.325"	"-:0.4642"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"20"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAGGGAGG"	"41199a92-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"201"	"ITGB3BP"	23421	"mskcc.org"	"GRCh37"	"1"	63974548	63974549	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs3063251"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.123-309_123-308dupTT"	""	""	"ENST00000371092"	""	11	"."	4	2	"."	0	"ITGB3BP,intron_variant,,ENST00000371092,NM_001206739.1;ITGB3BP,intron_variant,,ENST00000271002,NM_014288.4;ITGB3BP,intron_variant,,ENST00000283568,;ITGB3BP,intron_variant,,ENST00000465781,;ITGB3BP,intron_variant,,ENST00000460251,;ITGB3BP,intron_variant,,ENST00000460394,;ITGB3BP,intron_variant,,ENST00000462285,;ITGB3BP,intron_variant,,ENST00000489863,;ITGB3BP,intron_variant,,ENST00000478138,;ITGB3BP,intron_variant,,ENST00000489099,;"	"AA"	"ENSG00000142856"	"ENST00000371092"	"Transcript"	"intron_variant"	"-/1044"	"-/651"	"-/216"	""	""	"rs3063251"	"1"	NA	-1	"ITGB3BP"	"HGNC"	6157	"protein_coding"	"YES"	"CCDS55603.1"	"ENSP00000360133"	"Q13352"	"D3DQ59"	"UPI0000470389"	"NM_001206739.1"	NA	NA	""	"2/9"	""	"AA:0.2095"	"AA:0.3207"	"AA:0.1729"	NA	"AA:0.1865"	"AA:0.1441"	"AA:0.1759"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7046b494-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"202"	"PDE4B"	5142	"mskcc.org"	"GRCh37"	"1"	66307064	66307065	"+"	"Intron"	"INS"	"-"	"-"	"AAGGAAGGAAGG"	"rs143829481"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-71+48758_-71+48769dupGGAAGGAAGGAA"	""	""	"ENST00000329654"	""	14	"."	5	3	"."	0	"PDE4B,intron_variant,,ENST00000329654,NM_001037341.1;PDE4B,intron_variant,,ENST00000341517,NM_002600.3;"	"AAGGAAGGAAGG"	"ENSG00000184588"	"ENST00000329654"	"Transcript"	"intron_variant"	"-/3998"	"-/2211"	"-/736"	""	""	"rs143829481"	"1"	NA	1	"PDE4B"	"HGNC"	8781	"protein_coding"	"YES"	"CCDS632.1"	"ENSP00000332116"	"Q07343"	"E9PR34,E9PNB0,E9PJ03"	"UPI0000127BF6"	"NM_001037341.1"	NA	NA	""	"1/16"	""	"-:0.3738"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"18"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"707e3586-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"203"	"SGIP1"	84251	"mskcc.org"	"GRCh37"	"1"	67091821	67091828	"+"	"Intron"	"DEL"	"TTTTTTTT"	"TTTTTTTT"	"-"	"rs200932076"	NA	"JHCCPT1"	"JHCCPN1"	"TTTTTTTT"	"TTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.74+242_74+249delTTTTTTTT"	""	""	"ENST00000371037"	""	37	"."	3	9	"."	0	"SGIP1,intron_variant,,ENST00000371037,NM_032291.2;SGIP1,intron_variant,,ENST00000371036,;SGIP1,intron_variant,,ENST00000371039,;SGIP1,intron_variant,,ENST00000237247,;SGIP1,intron_variant,,ENST00000371035,;SGIP1,intron_variant,,ENST00000424320,;MIR3117,upstream_gene_variant,,ENST00000584034,;SGIP1,intron_variant,,ENST00000468286,;SGIP1,intron_variant,,ENST00000483060,;SGIP1,downstream_gene_variant,,ENST00000493564,;SGIP1,downstream_gene_variant,,ENST00000484988,;SGIP1,downstream_gene_variant,,ENST00000497055,;"	"-"	"ENSG00000118473"	"ENST00000371037"	"Transcript"	"intron_variant"	"-/7768"	"-/2487"	"-/828"	""	""	"rs200932076"	"1"	NA	1	"SGIP1"	"HGNC"	25412	"protein_coding"	"YES"	"CCDS30744.1"	"ENSP00000360076"	"Q9BQI5"	""	"UPI000045891B"	"NM_032291.2"	NA	NA	""	"2/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"14"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTTTTTTT"	"41a1dd4e-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WXS"	FALSE
"204"	"SGIP1"	84251	"mskcc.org"	"GRCh37"	"1"	67108780	67108781	"+"	"Intron"	"INS"	"-"	"-"	"CAACTGTGGAAATGGTGGGTACTGAGCTGTC"	"rs144607167"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.283+234_283+235insAACTGTGGAAATGGTGGGTACTGAGCTGTCC"	""	""	"ENST00000371037"	""	40	"."	10	14	"."	0	"SGIP1,intron_variant,,ENST00000371037,NM_032291.2;SGIP1,intron_variant,,ENST00000371036,;SGIP1,intron_variant,,ENST00000371039,;SGIP1,intron_variant,,ENST00000237247,;SGIP1,intron_variant,,ENST00000371035,;SGIP1,intron_variant,,ENST00000424320,;SGIP1,intron_variant,,ENST00000468286,;SGIP1,intron_variant,,ENST00000483060,;"	"CAACTGTGGAAATGGTGGGTACTGAGCTGTC"	"ENSG00000118473"	"ENST00000371037"	"Transcript"	"intron_variant"	"-/7768"	"-/2487"	"-/828"	""	""	"rs144607167"	"1"	NA	1	"SGIP1"	"HGNC"	25412	"protein_coding"	"YES"	"CCDS30744.1"	"ENSP00000360076"	"Q9BQI5"	""	"UPI000045891B"	"NM_032291.2"	NA	NA	""	"6/24"	""	"-:0.1637"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"708ea77c-2764-11e6-8bcb-94fe414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"205"	"SGIP1"	84251	"mskcc.org"	"GRCh37"	"1"	67154730	67154731	"+"	"Intron"	"DEL"	"CA"	"CA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1316-101_1316-100delCA"	""	""	"ENST00000371037"	""	196	"."	4	81	"."	0	"SGIP1,intron_variant,,ENST00000371037,NM_032291.2;SGIP1,intron_variant,,ENST00000371036,;SGIP1,intron_variant,,ENST00000371039,;SGIP1,intron_variant,,ENST00000237247,;SGIP1,intron_variant,,ENST00000371035,;SGIP1,intron_variant,,ENST00000480548,;SGIP1,intron_variant,,ENST00000487507,;"	"-"	"ENSG00000118473"	"ENST00000371037"	"Transcript"	"intron_variant"	"-/7768"	"-/2487"	"-/828"	""	""	""	"1"	NA	1	"SGIP1"	"HGNC"	25412	"protein_coding"	"YES"	"CCDS30744.1"	"ENSP00000360076"	"Q9BQI5"	""	"UPI000045891B"	"NM_032291.2"	NA	NA	""	"15/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCAA"	"41b3419c-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0204081632653061	"WXS"	FALSE
"206"	"MIER1"	57708	"mskcc.org"	"GRCh37"	"1"	67424158	67424158	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs11322381"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.501+261delA"	""	""	"ENST00000401041"	""	13	"."	6	2	"."	0	"MIER1,intron_variant,,ENST00000357692,NM_001146110.1;MIER1,intron_variant,,ENST00000355356,NM_001077701.2,NM_001077704.2;MIER1,intron_variant,,ENST00000371018,NM_001146112.1,NM_001146111.1,NM_020948.3,NM_001077702.2;MIER1,intron_variant,,ENST00000355977,NM_001146113.1,NM_001077703.2;MIER1,intron_variant,,ENST00000401041,NM_001077700.2;MIER1,intron_variant,,ENST00000371016,;MIER1,intron_variant,,ENST00000371014,;MIER1,intron_variant,,ENST00000401042,;MIER1,intron_variant,,ENST00000479067,;MIER1,upstream_gene_variant,,ENST00000493357,;"	"-"	"ENSG00000198160"	"ENST00000401041"	"Transcript"	"intron_variant"	"-/2552"	"-/1698"	"-/565"	""	""	"rs11322381"	"1"	NA	1	"MIER1"	"HGNC"	29657	"protein_coding"	"YES"	"CCDS53326.1"	"ENSP00000383820"	"Q8N108"	""	"UPI0000204526"	"NM_001077700.2"	NA	NA	""	"5/13"	""	"A:0.1464"	"-:0.8994"	"-:0.8386"	NA	"-:0.8829"	"-:0.7366"	"-:0.8926"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAA"	"41cd9b28-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"207"	"IL12RB2"	3595	"mskcc.org"	"GRCh37"	"1"	67852554	67852587	"+"	"Intron"	"DEL"	"TTTATATATATATATATATATATATATATATATA"	"TTTATATATATATATATATATATATATATATATA"	"-"	"rs145202966"	NA	"JHCCPT1"	"JHCCPN1"	"TTTATATATATATATATATATATATATATATATA"	"TTTATATATATATATATATATATATATATATATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1946+203_1946+236delTTATATATATATATATATATATATATATATATAT"	""	""	"ENST00000262345"	""	15	"."	5	5	"."	0	"IL12RB2,intron_variant,,ENST00000262345,NM_001559.2;IL12RB2,intron_variant,,ENST00000371000,NM_001258216.1,NM_001258214.1;IL12RB2,intron_variant,,ENST00000541374,;IL12RB2,intron_variant,,ENST00000544434,NM_001258215.1;IL12RB2,intron_variant,,ENST00000465396,;"	"-"	"ENSG00000081985"	"ENST00000262345"	"Transcript"	"intron_variant"	"-/4040"	"-/2589"	"-/862"	""	""	"rs145202966"	"1"	NA	1	"IL12RB2"	"HGNC"	5972	"protein_coding"	"YES"	"CCDS638.1"	"ENSP00000262345"	"Q99665"	""	"UPI0000046B13"	"NM_001559.2"	NA	NA	""	"14/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATTTTATATATATATATATATATATATATATATATAT"	"41fb104e-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"208"	"FPGT-TNNI3K"	51086	"mskcc.org"	"GRCh37"	"1"	74666182	74666195	"+"	"Intron"	"DEL"	"TTTTTTTTTTTTTT"	"TTTTTTTTTTTTTT"	"-"	"rs202228945"	NA	"JHCCPT1"	"JHCCPN1"	"TTTTTTTTTTTTTT"	"TTTTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.289+678_289+691delTTTTTTTTTTTTTT"	""	""	"ENST00000557284"	""	11	"."	5	1	"."	0	"FPGT-TNNI3K,intron_variant,,ENST00000370895,;FPGT,intron_variant,,ENST00000609362,;TNNI3K,intron_variant,,ENST00000370891,NM_001112808.2;FPGT,intron_variant,,ENST00000370898,NM_003838.4,NM_001199329.2,NM_001199328.2;FPGT-TNNI3K,intron_variant,,ENST00000557284,;FPGT-TNNI3K,intron_variant,,ENST00000370899,NM_001199327.1;FPGT,intron_variant,,ENST00000534056,;FPGT,intron_variant,,ENST00000370894,;FPGT-TNNI3K,intron_variant,,ENST00000370893,;FPGT,intron_variant,,ENST00000467578,;FPGT,intron_variant,,ENST00000482102,;FPGT,intron_variant,,ENST00000472069,;FPGT-TNNI3K,intron_variant,,ENST00000534632,;LRRIQ3,upstream_gene_variant,,ENST00000354431,NM_001105659.1;LRRIQ3,upstream_gene_variant,,ENST00000370911,;LRRIQ3,upstream_gene_variant,,ENST00000370909,;FPGT,intron_variant,,ENST00000524915,;FPGT-TNNI3K,intron_variant,,ENST00000533006,;FPGT,intron_variant,,ENST00000529485,;LRRIQ3,upstream_gene_variant,,ENST00000415760,;LRRIQ3,upstream_gene_variant,,ENST00000463724,;"	"-"	"ENSG00000259030"	"ENST00000557284"	"Transcript"	"intron_variant"	"-/2855"	"-/2850"	"-/949"	""	""	"rs202228945"	"1"	NA	1	"FPGT-TNNI3K"	"HGNC"	42952	"protein_coding"	"YES"	"CCDS44161.2"	"ENSP00000450895"	""	"A6NHC7"	"UPI0001EECC26"	""	NA	NA	""	"2/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"11"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTTTTTTTTTTTTT"	"426dddea-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"209"	"C1orf173"	127254	"mskcc.org"	"GRCh37"	"1"	75132779	75132780	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35815763"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.23+6401dupA"	""	""	"ENST00000326665"	""	12	"."	3	4	"."	0	"C1orf173,intron_variant,,ENST00000326665,NM_001002912.4;"	"T"	"ENSG00000178965"	"ENST00000326665"	"Transcript"	"intron_variant"	"-/7159"	"-/4593"	"-/1530"	""	""	"rs35815763"	"1"	NA	-1	"C1orf173"	"HGNC"	25346	"protein_coding"	"YES"	"CCDS30755.1"	"ENSP00000322609"	"Q5RHP9"	""	"UPI0000237200"	"NM_001002912.4"	NA	NA	""	"1/14"	""	"T:0.2276"	"T:0.1316"	"T:0.245"	NA	"T:0.2649"	"T:0.2525"	"T:0.2812"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"711f32d8-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"210"	"ACADM"	34	"mskcc.org"	"GRCh37"	"1"	76203908	76203909	"+"	"Intron"	"INS"	"-"	"-"	"TTA"	"rs10685501"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.481-1751_481-1749dupATT"	""	""	"ENST00000420607"	""	8	"."	5	3	"."	0	"ACADM,intron_variant,,ENST00000370841,NM_000016.4,NM_001127328.1;ACADM,intron_variant,,ENST00000370834,NM_001286043.1;ACADM,intron_variant,,ENST00000541113,NM_001286042.1;ACADM,intron_variant,,ENST00000543667,;ACADM,intron_variant,,ENST00000420607,;ACADM,intron_variant,,ENST00000526129,;ACADM,intron_variant,,ENST00000526196,;ACADM,intron_variant,,ENST00000525808,;ACADM,intron_variant,,ENST00000529059,;ACADM,intron_variant,,ENST00000534334,;ACADM,intron_variant,,ENST00000532509,;ACADM,intron_variant,,ENST00000526930,;ACADM,intron_variant,,ENST00000530953,;ACADM,downstream_gene_variant,,ENST00000525881,;ACADM,downstream_gene_variant,,ENST00000534146,;"	"TTA"	"ENSG00000117054"	"ENST00000420607"	"Transcript"	"intron_variant"	"-/1332"	"-/1278"	"-/425"	""	""	"rs10685501"	"1"	NA	1	"ACADM"	"HGNC"	89	"protein_coding"	"YES"	"CCDS44165.1"	"ENSP00000409612"	"P11310"	"B4DVB1,B4DJE7"	"UPI0000EE3287"	""	NA	NA	""	"6/11"	""	"TTA:0.2294"	"TTA:0.2837"	"TTA:0.3242"	NA	"TTA:0.0218"	"TTA:0.3231"	"TTA:0.2065"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"7131a648-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"211"	"ACADM"	34	"mskcc.org"	"GRCh37"	"1"	76208860	76208861	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs111906303"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.612-2622_612-2621delTC"	""	""	"ENST00000420607"	""	14	"."	6	2	"."	0	"ACADM,intron_variant,,ENST00000370841,NM_000016.4,NM_001127328.1;ACADM,intron_variant,,ENST00000370834,NM_001286043.1;ACADM,intron_variant,,ENST00000541113,NM_001286042.1;ACADM,intron_variant,,ENST00000543667,;ACADM,intron_variant,,ENST00000420607,;ACADM,intron_variant,,ENST00000526129,;ACADM,intron_variant,,ENST00000526196,;ACADM,intron_variant,,ENST00000525808,;ACADM,intron_variant,,ENST00000529059,;ACADM,intron_variant,,ENST00000534334,;ACADM,intron_variant,,ENST00000532509,;ACADM,intron_variant,,ENST00000526930,;ACADM,intron_variant,,ENST00000530953,;ACADM,upstream_gene_variant,,ENST00000532207,;RP4-682C21.2,downstream_gene_variant,,ENST00000444241,;RP4-682C21.2,downstream_gene_variant,,ENST00000320606,;"	"-"	"ENSG00000117054"	"ENST00000420607"	"Transcript"	"intron_variant"	"-/1332"	"-/1278"	"-/425"	""	""	"rs111906303"	"1"	NA	1	"ACADM"	"HGNC"	89	"protein_coding"	"YES"	"CCDS44165.1"	"ENSP00000409612"	"P11310"	"B4DVB1,B4DJE7"	"UPI0000EE3287"	""	NA	NA	""	"7/11"	""	"CT:0.3079"	"-:0.7337"	"-:0.6196"	NA	"-:0.7232"	"-:0.6272"	"-:0.7219"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGCTC"	"42b70268-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"212"	"MSH4"	4438	"mskcc.org"	"GRCh37"	"1"	76280131	76280132	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs5742050"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.700-575_700-574insT"	""	""	"ENST00000263187"	""	7	"."	6	1	"."	0	"MSH4,intron_variant,,ENST00000263187,NM_002440.3;"	"T"	"ENSG00000057468"	"ENST00000263187"	"Transcript"	"intron_variant"	"-/3266"	"-/2811"	"-/936"	""	""	"rs5742050"	"1"	NA	1	"MSH4"	"HGNC"	7327	"protein_coding"	"YES"	"CCDS670.1"	"ENSP00000263187"	"O15457"	"Q5ZEZ0"	"UPI000006D934"	"NM_002440.3"	NA	NA	""	"4/19"	""	"T:0.4369"	"T:0.6528"	"T:0.4395"	NA	"T:0.0397"	"T:0.5885"	"T:0.3967"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"714ae432-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"213"	"RP5-837I24.6"	0	"mskcc.org"	"GRCh37"	"1"	81967466	81967467	"+"	"5'Flank"	"INS"	"-"	"-"	"CAG"	"rs111927236"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000439024"	""	65	"."	8	22	"."	0	"LPHN2,intron_variant,,ENST00000370728,;LPHN2,intron_variant,,ENST00000370730,;LPHN2,intron_variant,,ENST00000370725,;LPHN2,intron_variant,,ENST00000370723,;LPHN2,intron_variant,,ENST00000370727,;LPHN2,intron_variant,,ENST00000370721,;RP5-837I24.6,upstream_gene_variant,,ENST00000439024,;LPHN2,intron_variant,,ENST00000469377,;LPHN2,intron_variant,,ENST00000473719,;RP5-837I24.1,upstream_gene_variant,,ENST00000448213,;"	"CAG"	"ENSG00000227960"	"ENST00000439024"	"Transcript"	"upstream_gene_variant"	"-/343"	""	""	""	""	"rs111927236"	"1"	"3317"	1	"RP5-837I24.6"	"Clone_based_vega_gene"	NA	"sense_intronic"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"CAG:0.3317"	"CAG:0.4629"	"CAG:0.268"	NA	"CAG:0.372"	"CAG:0.1819"	"CAG:0.3119"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"71c305fc-2764-11e6-8bcb-94fe414a729f"	"440"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123076923076923	"WXS"	FALSE
"214"	"RP5-837I24.6"	0	"mskcc.org"	"GRCh37"	"1"	81967466	81967467	"+"	"5'Flank"	"INS"	"-"	"-"	"CAGCAGCAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000439024"	""	65	"."	3	22	"."	0	"LPHN2,intron_variant,,ENST00000370728,;LPHN2,intron_variant,,ENST00000370730,;LPHN2,intron_variant,,ENST00000370725,;LPHN2,intron_variant,,ENST00000370723,;LPHN2,intron_variant,,ENST00000370727,;LPHN2,intron_variant,,ENST00000370721,;RP5-837I24.6,upstream_gene_variant,,ENST00000439024,;LPHN2,intron_variant,,ENST00000469377,;LPHN2,intron_variant,,ENST00000473719,;RP5-837I24.1,upstream_gene_variant,,ENST00000448213,;"	"CAGCAGCAG"	"ENSG00000227960"	"ENST00000439024"	"Transcript"	"upstream_gene_variant"	"-/343"	""	""	""	""	""	"1"	"3317"	1	"RP5-837I24.6"	"Clone_based_vega_gene"	NA	"sense_intronic"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"71c52c42-2764-11e6-8bcb-94fe414a729f"	"140"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0461538461538462	"WXS"	FALSE
"215"	"LPHN2"	23266	"mskcc.org"	"GRCh37"	"1"	82404496	82404497	"+"	"Intron"	"INS"	"-"	"-"	"TCTTC"	"rs71242577"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.397+1979_397+1980insCTCTT"	""	""	"ENST00000319517"	""	6	"."	4	1	"."	0	"LPHN2,intron_variant,,ENST00000370728,;LPHN2,intron_variant,,ENST00000370730,;LPHN2,intron_variant,,ENST00000370717,;LPHN2,intron_variant,,ENST00000394879,;LPHN2,intron_variant,,ENST00000271029,;LPHN2,intron_variant,,ENST00000335786,;LPHN2,intron_variant,,ENST00000370715,;LPHN2,intron_variant,,ENST00000319517,NM_012302.2;LPHN2,intron_variant,,ENST00000370713,;LPHN2,intron_variant,,ENST00000370725,;LPHN2,intron_variant,,ENST00000370723,;LPHN2,intron_variant,,ENST00000370727,;LPHN2,intron_variant,,ENST00000370721,;LPHN2,intron_variant,,ENST00000359929,;LPHN2,upstream_gene_variant,,ENST00000449420,;LPHN2,intron_variant,,ENST00000469377,;"	"TCTTC"	"ENSG00000117114"	"ENST00000319517"	"Transcript"	"intron_variant"	"-/5479"	"-/4212"	"-/1403"	""	""	"rs71242577"	"1"	NA	1	"LPHN2"	"HGNC"	18582	"protein_coding"	"YES"	"CCDS689.1"	"ENSP00000322270"	"O95490"	""	"UPI000005046B"	"NM_012302.2"	NA	NA	""	"4/19"	""	"-:0.1647"	"TCTTC:0.8411"	"TCTTC:0.7378"	NA	"TCTTC:0.9405"	"TCTTC:0.7256"	"TCTTC:0.9008"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"71cd0f3e-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"216"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	85085600	85085601	"+"	"IGR"	"INS"	"-"	"-"	"AC"	"rs10640663"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"AC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10640663"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0118"	"AC:0.9584"	"AC:0.9971"	NA	"AC:0.999"	"AC:0.999"	"AC:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"71f1e71e-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"217"	"DDAH1"	23576	"mskcc.org"	"GRCh37"	"1"	85815856	85815856	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35046437"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.597+242delA"	""	""	"ENST00000284031"	""	8	"."	4	1	"."	0	"DDAH1,intron_variant,,ENST00000284031,NM_012137.3;DDAH1,intron_variant,,ENST00000535924,NM_001134445.1;DDAH1,intron_variant,,ENST00000539042,;DDAH1,intron_variant,,ENST00000542148,;DDAH1,intron_variant,,ENST00000426972,;RP11-131L23.1,intron_variant,,ENST00000427819,;RP11-131L23.1,intron_variant,,ENST00000426125,;DDAH1,intron_variant,,ENST00000483110,;"	"-"	"ENSG00000153904"	"ENST00000284031"	"Transcript"	"intron_variant"	"-/3920"	"-/858"	"-/285"	""	""	"rs35046437"	"1"	NA	-1	"DDAH1"	"HGNC"	2715	"protein_coding"	"YES"	"CCDS705.1"	"ENSP00000284031"	"O94760"	"B4E3V1,B1AKK2"	"UPI000015C44E"	"NM_012137.3"	NA	NA	""	"4/5"	""	"-:0.3295"	"-:0.2776"	"-:0.3184"	NA	"-:0.2917"	"-:0.3628"	"-:0.4121"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTT"	"440c330e-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"218"	"CLCA1"	1179	"mskcc.org"	"GRCh37"	"1"	86942465	86942466	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs146043808"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.557+238dupT"	""	""	"ENST00000234701"	""	20	"."	3	5	"."	0	"CLCA1,intron_variant,,ENST00000234701,;CLCA1,intron_variant,,ENST00000394711,NM_001285.3;"	"T"	"ENSG00000016490"	"ENST00000234701"	"Transcript"	"intron_variant"	"-/3310"	"-/2745"	"-/914"	""	""	"rs146043808"	"1"	NA	1	"CLCA1"	"HGNC"	2015	"protein_coding"	"YES"	"CCDS709.1"	"ENSP00000234701"	"A8K7I4"	""	"UPI00001AE689"	""	NA	NA	""	"5/14"	""	"T:0.0940"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7252e82a-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"219"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	88906511	88906531	"+"	"IGR"	"DEL"	"GAGGAGGAGGAAGAGGAGGAC"	"GAGGAGGAGGAAGAGGAGGAC"	"-"	"rs550155100"	NA	"JHCCPT1"	"JHCCPN1"	"GAGGAGGAGGAAGAGGAGGAC"	"GAGGAGGAGGAAGAGGAGGAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	5	9	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs550155100"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAGGAGGAGGAAGAGGAGGACG"	"4490d8de-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"220"	"FAM69A"	388650	"mskcc.org"	"GRCh37"	"1"	93310850	93310854	"+"	"Intron"	"DEL"	"TTTTT"	"TTTTT"	"-"	"rs71094207"	NA	"JHCCPT1"	"JHCCPN1"	"TTTTT"	"TTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.475-1102_475-1098delAAAAA"	""	""	"ENST00000370310"	""	26	"."	3	14	"."	0	"FAM69A,intron_variant,,ENST00000370310,NM_001006605.4,NM_001252271.1,NM_001252269.1;RPL5,downstream_gene_variant,,ENST00000370321,NM_000969.3;SNORA66,downstream_gene_variant,,ENST00000384792,NR_002444.2;SNORA51,upstream_gene_variant,,ENST00000384295,;RPL5,downstream_gene_variant,,ENST00000497519,;"	"-"	"ENSG00000154511"	"ENST00000370310"	"Transcript"	"intron_variant"	"-/2574"	"-/1287"	"-/428"	""	""	"rs71094207"	"1"	NA	-1	"FAM69A"	"HGNC"	32213	"protein_coding"	"YES"	"CCDS44173.1"	"ENSP00000359333"	"Q5T7M9"	""	"UPI0000037783"	"NM_001006605.4,NM_001252271.1,NM_001252269.1"	NA	NA	""	"4/4"	""	"TTTTT:0.1198"	"-:0.7254"	"-:0.9207"	NA	"-:0.9702"	"-:0.9046"	"-:0.9427"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGTTTTTT"	"455565a0-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WXS"	FALSE
"221"	"CNN3"	1266	"mskcc.org"	"GRCh37"	"1"	95362928	95362933	"+"	"3'UTR"	"DEL"	"AAAAAA"	"AAAAAA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AAAAAA"	"AAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*365_*370delTTTTTT"	""	""	"ENST00000370206"	"7/7"	22	"."	3	9	"."	0	"CNN3,3_prime_UTR_variant,,ENST00000370206,NM_001839.3;CNN3,3_prime_UTR_variant,,ENST00000538964,;CNN3,3_prime_UTR_variant,,ENST00000394202,NM_001286055.1;SLC44A3,downstream_gene_variant,,ENST00000271227,NM_001258340.1,NM_001114106.2,NM_001258341.1;SLC44A3,downstream_gene_variant,,ENST00000446120,NM_001258342.1;SLC44A3,downstream_gene_variant,,ENST00000467909,NM_152369.4;SLC44A3,downstream_gene_variant,,ENST00000529450,;SLC44A3,downstream_gene_variant,,ENST00000527077,NM_001258343.1;SLC44A3,downstream_gene_variant,,ENST00000532427,;CNN3,downstream_gene_variant,,ENST00000545882,NM_001286056.1;CNN3,downstream_gene_variant,,ENST00000415017,;SLC44A3,downstream_gene_variant,,ENST00000532670,;CNN3,downstream_gene_variant,,ENST00000487539,;CNN3,downstream_gene_variant,,ENST00000461018,;CNN3,downstream_gene_variant,,ENST00000474409,;SLC44A3,downstream_gene_variant,,ENST00000475883,;"	"-"	"ENSG00000117519"	"ENST00000370206"	"Transcript"	"3_prime_UTR_variant"	"1739-1744/2165"	"-/990"	"-/329"	""	""	""	"1"	NA	-1	"CNN3"	"HGNC"	2157	"protein_coding"	"YES"	"CCDS30775.1"	"ENSP00000359225"	"Q15417"	"Q9BWY6,E9PDU6,B4DFK6"	"UPI0000127B01"	"NM_001839.3"	NA	NA	"7/7"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTAAAAAAA"	"45d847f4-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"222"	"TMEM56-RWDD3"	100527978	"mskcc.org"	"GRCh37"	"1"	95693081	95693082	"+"	"Intron"	"INS"	"-"	"-"	"AG"	"rs148721826"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.474-3358_474-3357dupAG"	""	""	"ENST00000604534"	""	6	"."	4	2	"."	0	"TMEM56-RWDD3,intron_variant,,ENST00000604534,NM_001199691.1;TMEM56-RWDD3,intron_variant,,ENST00000604203,;RP11-57H12.3,intron_variant,,ENST00000421762,;RP11-57H12.3,intron_variant,,ENST00000419846,;"	"AG"	"ENSG00000271092"	"ENST00000604534"	"Transcript"	"intron_variant"	"-/1491"	"-/606"	"-/201"	""	""	"rs148721826"	"1"	NA	1	"TMEM56-RWDD3"	"HGNC"	49388	"protein_coding"	"YES"	"CCDS60199.1"	"ENSP00000475025"	""	"S4R434,C9JJM2,C9J6J2"	"UPI000153D79A"	"NM_001199691.1"	NA	NA	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"72fe00f2-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"223"	"TMEM56-RWDD3"	100527978	"mskcc.org"	"GRCh37"	"1"	95696165	95696166	"+"	"Intron"	"INS"	"-"	"-"	"TTTTA"	"rs113667946"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.474-291_474-287dupTTTAT"	""	""	"ENST00000604534"	""	17	"."	10	4	"."	0	"TMEM56-RWDD3,intron_variant,,ENST00000604534,NM_001199691.1;TMEM56-RWDD3,intron_variant,,ENST00000604203,;RWDD3,upstream_gene_variant,,ENST00000429514,;RWDD3,upstream_gene_variant,,ENST00000370202,NM_015485.4,NM_001199682.1;RWDD3,upstream_gene_variant,,ENST00000263893,NM_001128142.1;RP11-57H12.3,intron_variant,,ENST00000421762,;RP11-57H12.3,intron_variant,,ENST00000419846,;RWDD3,upstream_gene_variant,,ENST00000495272,;RWDD3,upstream_gene_variant,,ENST00000497058,;RWDD3,upstream_gene_variant,,ENST00000492639,;RWDD3,upstream_gene_variant,,ENST00000473397,;"	"TTTTA"	"ENSG00000271092"	"ENST00000604534"	"Transcript"	"intron_variant"	"-/1491"	"-/606"	"-/201"	""	""	"rs113667946"	"1"	NA	1	"TMEM56-RWDD3"	"HGNC"	49388	"protein_coding"	"YES"	"CCDS60199.1"	"ENSP00000475025"	""	"S4R434,C9JJM2,C9J6J2"	"UPI000153D79A"	"NM_001199691.1"	NA	NA	""	"6/7"	""	"-:0.0162"	"TTTTA:0.941"	"TTTTA:0.9957"	NA	"TTTTA:1"	"TTTTA:1"	"TTTTA:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"72feae76-2764-11e6-8bcb-94fe414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.588235294117647	"WXS"	FALSE
"224"	"RP5-1070A16.1"	729987	"mskcc.org"	"GRCh37"	"1"	98687952	98687953	"+"	"Intron"	"DEL"	"GG"	"GG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GG"	"GG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.64+11587_64+11588delGG"	""	""	"ENST00000418344"	""	10	"."	3	1	"."	0	"RP5-1070A16.1,intron_variant,,ENST00000418344,;"	"-"	"ENSG00000226053"	"ENST00000418344"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2229"	""	""	""	""	""	"1"	NA	1	"RP5-1070A16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGGG"	"45ffd878-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"225"	"RP5-1070A16.1"	729987	"mskcc.org"	"GRCh37"	"1"	98699449	98699450	"+"	"Intron"	"INS"	"-"	"-"	"AACAAC"	"rs148964667"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.65-15545_65-15540dupACAACA"	""	""	"ENST00000418344"	""	6	"."	4	1	"."	0	"RP5-1070A16.1,intron_variant,,ENST00000418344,;"	"AACAAC"	"ENSG00000226053"	"ENST00000418344"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2229"	""	""	""	""	"rs148964667"	"1"	NA	1	"RP5-1070A16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"AACAAC:0.3127"	"AACAAC:0.1566"	"AACAAC:0.5216"	NA	"AACAAC:0.1895"	"AACAAC:0.4831"	"AACAAC:0.3272"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"13"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7311c70e-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"226"	"DBT"	1629	"mskcc.org"	"GRCh37"	"1"	100703685	100703728	"+"	"Intron"	"DEL"	"CTTCCTTCCTTCCCTCCTTCCTTCTTTCCCTCCTTCCTCCCTCG"	"CTTCCTTCCTTCCCTCCTTCCTTCTTTCCCTCCTTCCTCCCTCG"	"-"	"rs751542060"	NA	"JHCCPT1"	"JHCCPN1"	"CTTCCTTCCTTCCCTCCTTCCTTCTTTCCCTCCTTCCTCCCTCG"	"CTTCCTTCCTTCCCTCCTTCCTTCTTTCCCTCCTTCCTCCCTCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.176-2618_175+2589delCGAGGGAGGAAGGAGGGAAAGAAGGAAGGAGGGAAGGAAGGAAG"	""	""	"ENST00000370132"	""	17	"."	4	2	"."	0	"DBT,intron_variant,,ENST00000370132,NM_001918.3;DBT,intron_variant,,ENST00000370131,;"	"-"	"ENSG00000137992"	"ENST00000370132"	"Transcript"	"intron_variant"	"-/10799"	"-/1449"	"-/482"	""	""	"rs751542060"	"1"	NA	-1	"DBT"	"HGNC"	2698	"protein_coding"	"YES"	"CCDS767.1"	"ENSP00000359151"	"P11182"	""	"UPI000013D0E7"	"NM_001918.3"	NA	NA	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCCTTCCTTCCTTCCCTCCTTCCTTCTTTCCCTCCTTCCTCCCTCGC"	"465870d2-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"227"	"RP5-1033H2.1"	0	"mskcc.org"	"GRCh37"	"1"	101652249	101652250	"+"	"5'Flank"	"INS"	"-"	"-"	"CTTT"	"rs139798311"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000603646"	""	11	"."	4	4	"."	0	"RP5-1033H2.1,upstream_gene_variant,,ENST00000603646,;"	"CTTT"	"ENSG00000271578"	"ENST00000603646"	"Transcript"	"upstream_gene_variant"	"-/475"	""	""	""	""	"rs139798311"	"1"	"3826"	1	"RP5-1033H2.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"CTTTCTTT:0.0058"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"738a1d26-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"228"	"COL11A1"	1301	"mskcc.org"	"GRCh37"	"1"	103452809	103452810	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs36080080"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2502+378_2502+379dupAT"	""	""	"ENST00000370096"	""	12	"."	4	2	"."	0	"COL11A1,intron_variant,,ENST00000358392,NM_080629.2;COL11A1,intron_variant,,ENST00000370096,NM_001854.3;COL11A1,intron_variant,,ENST00000353414,NM_001190709.1;COL11A1,intron_variant,,ENST00000512756,NM_080630.3;"	"AT"	"ENSG00000060718"	"ENST00000370096"	"Transcript"	"intron_variant"	"-/7286"	"-/5421"	"-/1806"	""	""	"rs36080080"	"1"	NA	-1	"COL11A1"	"HGNC"	2186	"protein_coding"	"YES"	"CCDS778.1"	"ENSP00000359114"	"P12107"	"Q4FAC4,B4DQZ0"	"UPI00002053EF"	"NM_001854.3"	NA	NA	""	"30/66"	""	"-:0.3423"	"AT:0.3064"	"AT:0.6859"	NA	"AT:0.9137"	"AT:0.6849"	"AT:0.8211"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"73acdef6-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"229"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	103688745	103688746	"+"	"IGR"	"INS"	"-"	"-"	"TCTTCTCCTTCC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	5	"."	0	""	"TCTTCTCCTTCC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"73c1ca50-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"230"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	107465636	107465637	"+"	"IGR"	"INS"	"-"	"-"	"AGTA"	"rs113818039"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"AGTA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113818039"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1855"	"AGTA:0.7239"	"AGTA:0.8617"	NA	"AGTA:0.7768"	"AGTA:0.9225"	"AGTA:0.8313"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"73d60af6-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"231"	"STXBP3"	6814	"mskcc.org"	"GRCh37"	"1"	109338574	109338575	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs34300014"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1111-279dupC"	""	""	"ENST00000370008"	""	20	"."	6	5	"."	0	"STXBP3,intron_variant,,ENST00000370008,NM_007269.2;STXBP3,upstream_gene_variant,,ENST00000472099,;STXBP3,downstream_gene_variant,,ENST00000495245,;"	"C"	"ENSG00000116266"	"ENST00000370008"	"Transcript"	"intron_variant"	"-/2478"	"-/1779"	"-/592"	""	""	"rs34300014"	"1"	NA	1	"STXBP3"	"HGNC"	11446	"protein_coding"	"YES"	"CCDS790.1"	"ENSP00000359025"	"O00186"	""	"UPI000000DC53"	"NM_007269.2"	NA	NA	""	"13/18"	""	"C:0.4235"	"C:0.292"	"C:0.4769"	NA	"C:0.7768"	"C:0.2575"	"C:0.3701"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"73f38946-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"232"	"CLCC1"	23155	"mskcc.org"	"GRCh37"	"1"	109493134	109493135	"+"	"Intron"	"INS"	"-"	"-"	"TTA"	"rs34131552"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1-77_-1-75dupTAA"	""	""	"ENST00000369971"	""	52	"."	10	27	"."	0	"CLCC1,intron_variant,,ENST00000369971,NM_001048210.2;CLCC1,intron_variant,,ENST00000356970,;CLCC1,intron_variant,,ENST00000415331,NM_015127.4;CLCC1,intron_variant,,ENST00000369976,;AKNAD1,intron_variant,,ENST00000357393,;CLCC1,upstream_gene_variant,,ENST00000369969,NM_001278202.1;CLCC1,upstream_gene_variant,,ENST00000369968,NM_001278203.1;CLCC1,upstream_gene_variant,,ENST00000369970,;CLCC1,upstream_gene_variant,,ENST00000302500,;CLCC1,upstream_gene_variant,,ENST00000348264,;"	"TTA"	"ENSG00000121940"	"ENST00000369971"	"Transcript"	"intron_variant"	"-/4825"	"-/1656"	"-/551"	""	""	"rs34131552"	"1"	NA	-1	"CLCC1"	"HGNC"	29675	"protein_coding"	"YES"	"CCDS41362.1"	"ENSP00000358988"	"Q96S66"	""	"UPI0000073C42"	"NM_001048210.2"	NA	NA	""	"1/11"	""	"TTA:0.4099"	"TTA:0.4766"	"TTA:0.4164"	NA	"TTA:0.369"	"TTA:0.4284"	"TTA:0.3384"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"740c7604-2764-11e6-8bcb-94fe414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WXS"	FALSE
"233"	"SLC6A17"	388662	"mskcc.org"	"GRCh37"	"1"	110726608	110726609	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs143243575"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.864+7251_864+7252delCT"	""	""	"ENST00000331565"	""	7	"."	4	1	"."	0	"SLC6A17,intron_variant,,ENST00000331565,NM_001010898.2;"	"-"	"ENSG00000197106"	"ENST00000331565"	"Transcript"	"intron_variant"	"-/6427"	"-/2184"	"-/727"	""	""	"rs143243575"	"1"	NA	1	"SLC6A17"	"HGNC"	31399	"protein_coding"	"YES"	"CCDS30799.1"	"ENSP00000330199"	"Q9H1V8"	""	"UPI0000470B3D"	"NM_001010898.2"	NA	NA	""	"6/11"	""	"-:0.0549"	"-:0.0855"	"-:0.0692"	NA	"-:0.0109"	"-:0.0865"	"-:0.0164"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GACTC"	"483f6d6a-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"234"	"KCNC4"	3749	"mskcc.org"	"GRCh37"	"1"	110763090	110763091	"+"	"Intron"	"INS"	"-"	"-"	"CCCT"	"rs151144415"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.679-2478_679-2475dupCCTC"	""	""	"ENST00000369787"	""	11	"."	3	1	"."	0	"KCNC4,intron_variant,,ENST00000369787,NM_004978.4;KCNC4,intron_variant,,ENST00000413138,;KCNC4,intron_variant,,ENST00000438661,NM_001039574.2;KCNC4,intron_variant,,ENST00000412512,;KCNC4,non_coding_transcript_exon_variant,,ENST00000459877,;KCNC4,intron_variant,,ENST00000469655,;KCNC4,intron_variant,,ENST00000489935,;"	"CCCT"	"ENSG00000116396"	"ENST00000369787"	"Transcript"	"intron_variant"	"-/3670"	"-/1908"	"-/635"	""	""	"rs151144415"	"1"	NA	1	"KCNC4"	"HGNC"	6236	"protein_coding"	"YES"	"CCDS821.1"	"ENSP00000358802"	"Q03721"	""	"UPI000013CAC8"	"NM_004978.4"	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"21"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"74644320-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"235"	"RAP1A"	5906	"mskcc.org"	"GRCh37"	"1"	112181048	112181051	"+"	"Intron"	"DEL"	"TTTC"	"TTTC"	"-"	"rs145654771"	NA	"JHCCPT1"	"JHCCPN1"	"TTTC"	"TTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-28+18507_-28+18510delCTTT"	""	""	"ENST00000369709"	""	7	"."	4	2	"."	0	"RAP1A,intron_variant,,ENST00000369709,NM_002884.2;RAP1A,intron_variant,,ENST00000436150,NM_001010935.1;RAP1A,intron_variant,,ENST00000356415,;RAP1A,intron_variant,,ENST00000545460,;RAP1A,intron_variant,,ENST00000433097,;RAP1A,intron_variant,,ENST00000494982,;"	"-"	"ENSG00000116473"	"ENST00000369709"	"Transcript"	"intron_variant"	"-/5024"	"-/555"	"-/184"	""	""	"rs145654771"	"1"	NA	1	"RAP1A"	"HGNC"	9855	"protein_coding"	"YES"	"CCDS840.1"	"ENSP00000358723"	"P62834"	"F8WBC0,A8KAH9"	"UPI0000001250"	"NM_002884.2"	NA	NA	""	"1/7"	""	"-:0.2736"	"-:0.2065"	"-:0.3055"	NA	"-:0.2877"	"-:0.2952"	"-:0.3047"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTCT"	"48a10cbe-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"236"	"WNT2B"	7482	"mskcc.org"	"GRCh37"	"1"	113046731	113046731	"+"	"5'Flank"	"DEL"	"T"	"T"	"-"	"rs3838412"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000369684"	""	7	"."	4	1	"."	0	"WNT2B,intron_variant,,ENST00000369686,NM_004185.3;WNT2B,intron_variant,,ENST00000256640,;WNT2B,upstream_gene_variant,,ENST00000369684,NM_024494.2;"	"-"	"ENSG00000134245"	"ENST00000369684"	"Transcript"	"upstream_gene_variant"	"-/3818"	"-/1176"	"-/391"	""	""	"rs3838412"	"1"	"4669"	1	"WNT2B"	"HGNC"	12781	"protein_coding"	"YES"	"CCDS847.1"	"ENSP00000358698"	"Q93097"	"Q5TEH9,Q5TEH8"	"UPI0000138F23"	"NM_024494.2"	NA	NA	""	""	""	"T:0.2202"	"-:0.7383"	"-:0.7997"	NA	"-:0.7173"	"-:0.8072"	"-:0.8579"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTT"	"48ce8ab8-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"237"	"ENSR00001523665"	0	"mskcc.org"	"GRCh37"	"1"	114856794	114856795	"+"	"IGR"	"INS"	"-"	"GGGAGCTAC"	"GGGAGCTAC"	"rs3074843"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001523665"	""	8	"."	7	1	"."	0	""	"GGGAGCTAC"	""	"ENSR00001523665"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs3074843"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1809"	"GGGAGCTAC:0.5643"	"GGGAGCTAC:0.8573"	NA	"GGGAGCTAC:0.999"	"GGGAGCTAC:0.836"	"GGGAGCTAC:0.9335"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"75113292-2764-11e6-8bcb-94fe414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.875	"WXS"	FALSE
"238"	"RP4-655J12.4"	101929023	"mskcc.org"	"GRCh37"	"1"	117023575	117023576	"+"	"5'Flank"	"INS"	"-"	"GTGTGTAT"	"GTGTGTAT"	"rs143045551"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000443219"	""	6	"."	5	1	"."	0	"RP4-655J12.4,upstream_gene_variant,,ENST00000443219,;RP4-655J12.4,upstream_gene_variant,,ENST00000430316,;RP4-655J12.4,upstream_gene_variant,,ENST00000423907,;RP4-655J12.4,upstream_gene_variant,,ENST00000434879,;"	"GTGTGTAT"	"ENSG00000233154"	"ENST00000443219"	"Transcript"	"upstream_gene_variant"	"-/621"	""	""	""	""	"rs143045551"	"1"	"2111"	-1	"RP4-655J12.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"75585df2-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"239"	"MAN1A2"	10905	"mskcc.org"	"GRCh37"	"1"	117961798	117961798	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11355628"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.775-1392delT"	""	""	"ENST00000356554"	""	6	"."	4	1	"."	0	"MAN1A2,intron_variant,,ENST00000356554,NM_006699.3;MAN1A2,upstream_gene_variant,,ENST00000449370,;MAN1A2,intron_variant,,ENST00000482811,;"	"-"	"ENSG00000198162"	"ENST00000356554"	"Transcript"	"intron_variant"	"-/8576"	"-/1926"	"-/641"	""	""	"rs11355628"	"1"	NA	1	"MAN1A2"	"HGNC"	6822	"protein_coding"	"YES"	"CCDS895.1"	"ENSP00000348959"	"O60476"	""	"UPI0000052B45"	"NM_006699.3"	NA	NA	""	"4/12"	""	"T:0.2264"	"-:0.9213"	"-:0.6772"	NA	"-:0.624"	"-:0.7555"	"-:0.8149"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"4a4b590c-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"240"	"ENSR00000670876"	0	"mskcc.org"	"GRCh37"	"1"	118078584	118078584	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs58300447"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000670876"	""	6	"."	4	1	"."	0	""	"-"	""	"ENSR00000670876"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs58300447"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.1478"	"-:0.7829"	"-:0.9251"	NA	"-:0.9306"	"-:0.8827"	"-:0.7822"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"4a4d0022-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"241"	"HMGCS2"	3158	"mskcc.org"	"GRCh37"	"1"	120298519	120298522	"+"	"Intron"	"DEL"	"TGTA"	"TGTA"	"-"	"rs137953643"	NA	"JHCCPT1"	"JHCCPN1"	"TGTA"	"TGTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1017-302_1017-299delTACA"	""	""	"ENST00000369406"	""	16	"."	5	9	"."	0	"HMGCS2,intron_variant,,ENST00000369406,NM_005518.3;HMGCS2,intron_variant,,ENST00000544913,NM_001166107.1;HMGCS2,intron_variant,,ENST00000476640,;HMGCS2,intron_variant,,ENST00000472375,;"	"-"	"ENSG00000134240"	"ENST00000369406"	"Transcript"	"intron_variant"	"-/2428"	"-/1527"	"-/508"	""	""	"rs137953643"	"1"	NA	-1	"HMGCS2"	"HGNC"	5008	"protein_coding"	"YES"	"CCDS905.1"	"ENSP00000358414"	"P54868"	""	"UPI000000DA7A"	"NM_005518.3"	NA	NA	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTGTAT"	"4a87662c-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"242"	"RP11-417J8.2"	0	"mskcc.org"	"GRCh37"	"1"	142572757	142572758	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs78821059"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.216-2677dupG"	""	""	"ENST00000415979"	""	6	"."	3	1	"."	0	"RP11-417J8.2,intron_variant,,ENST00000415979,;"	"C"	"ENSG00000233798"	"ENST00000415979"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/362"	""	""	""	""	"rs78821059"	"1"	NA	-1	"RP11-417J8.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	"C:0.4529"	"C:0.4138"	"C:0.4841"	NA	"C:0.4603"	"C:0.4861"	"C:0.4417"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"75c090e8-2764-11e6-8bcb-94fe414a729f"	"74"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"243"	"RP11-417J8.6"	0	"mskcc.org"	"GRCh37"	"1"	142622448	142622449	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs145372515"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.6364+564dupT"	""	""	"ENST00000610091"	""	9	"."	4	1	"."	0	"RP11-417J8.6,intron_variant,,ENST00000610091,;RP11-417J8.6,intron_variant,,ENST00000369381,;RP11-417J8.3,intron_variant,,ENST00000426408,;RP11-417J8.3,intron_variant,,ENST00000446205,;RP11-417J8.3,intron_variant,,ENST00000411746,;RP11-417J8.3,intron_variant,,ENST00000400755,;RP11-417J8.3,downstream_gene_variant,,ENST00000412092,;RP11-417J8.3,downstream_gene_variant,,ENST00000413650,;"	"A"	"ENSG00000203849"	"ENST00000610091"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/6839"	""	""	""	""	"rs145372515"	"1"	NA	-1	"RP11-417J8.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"13/13"	""	"A:0.4515"	"A:0.4334"	"A:0.4452"	NA	"A:0.4286"	"A:0.4682"	"A:0.4867"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"75c2f0f4-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"244"	"RP11-423O2.5"	0	"mskcc.org"	"GRCh37"	"1"	142803275	142803276	"+"	"RNA"	"INS"	"-"	"-"	"AAC"	"rs113084635"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1688_1690dupGTT"	""	""	"ENST00000423385"	"3/3"	11	"."	5	7	"."	0	"RP11-423O2.5,non_coding_transcript_exon_variant,,ENST00000423385,;ANKRD20A14P,upstream_gene_variant,,ENST00000457776,;ASNSP5,downstream_gene_variant,,ENST00000433327,;"	"AAC"	"ENSG00000234978"	"ENST00000423385"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1690-1691/1742"	""	""	""	""	"rs113084635"	"1"	NA	-1	"RP11-423O2.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"75c8a094-2764-11e6-8bcb-94fe414a729f"	"192"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"245"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	143283350	143283351	"+"	"IGR"	"INS"	"-"	"-"	"GTCC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	143	"."	4	86	"."	0	""	"GTCC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"75d8ceec-2764-11e6-8bcb-94fe414a729f"	"53"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.027972027972028	"WXS"	FALSE
"246"	"SRGAP2B"	0	"mskcc.org"	"GRCh37"	"1"	144043905	144043906	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs371276355"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1109-9599dupG"	""	""	"ENST00000467933"	""	14	"."	5	2	"."	0	"SRGAP2B,intron_variant,,ENST00000467933,;SRGAP2B,intron_variant,,ENST00000491897,;RP3-365I19.2,downstream_gene_variant,,ENST00000604134,;"	"G"	"ENSG00000196369"	"ENST00000467933"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1334"	""	""	""	""	"rs371276355"	"1"	NA	1	"SRGAP2B"	"HGNC"	35237	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75e9817e-2764-11e6-8bcb-94fe414a729f"	"186"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"247"	"PDE4DIP"	9659	"mskcc.org"	"GRCh37"	"1"	144852792	144852793	"+"	"Intron"	"DEL"	"TT"	"TT"	"-"	"rs71658011"	NA	"JHCCPT1"	"JHCCPN1"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7000-350_7000-349delAA"	""	""	"ENST00000369356"	""	10	"."	3	1	"."	0	"PDE4DIP,intron_variant,,ENST00000369359,;PDE4DIP,intron_variant,,ENST00000369356,NM_014644.5,NM_001198834.3;PDE4DIP,intron_variant,,ENST00000530740,;PDE4DIP,intron_variant,,ENST00000369354,;PDE4DIP,intron_variant,,ENST00000313382,NM_001198832.2;PDE4DIP,downstream_gene_variant,,ENST00000530130,;PDE4DIP,intron_variant,,ENST00000524974,;PDE4DIP,intron_variant,,ENST00000525630,;PDE4DIP,intron_variant,,ENST00000531417,;PDE4DIP,intron_variant,,ENST00000460027,;PDE4DIP,intron_variant,,ENST00000526182,;PDE4DIP,downstream_gene_variant,,ENST00000526664,;PDE4DIP,non_coding_transcript_exon_variant,,ENST00000524688,;PDE4DIP,intron_variant,,ENST00000530062,;PDE4DIP,intron_variant,,ENST00000464924,;PDE4DIP,downstream_gene_variant,,ENST00000533768,;PDE4DIP,downstream_gene_variant,,ENST00000534367,;PDE4DIP,downstream_gene_variant,,ENST00000534466,;"	"-"	"ENSG00000178104"	"ENST00000369356"	"Transcript"	"intron_variant"	"-/8307"	"-/7089"	"-/2362"	""	""	"rs71658011"	"1"	NA	-1	"PDE4DIP"	"HGNC"	15580	"protein_coding"	"YES"	"CCDS55627.1"	"ENSP00000358363"	"Q5VU43"	"I1VE15"	"UPI0000458A81"	"NM_014644.5,NM_001198834.3"	NA	NA	""	"43/43"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTT"	"4b06117a-2764-11e6-8bcb-94fe414a729f"	"153"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	TRUE
"248"	"PDE4DIP"	9659	"mskcc.org"	"GRCh37"	"1"	144940321	144940321	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs5777493"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.636+6304delA"	""	""	"ENST00000369356"	""	6	"."	4	1	"."	0	"PDE4DIP,intron_variant,,ENST00000369359,;PDE4DIP,intron_variant,,ENST00000369356,NM_014644.5,NM_001198834.3;PDE4DIP,intron_variant,,ENST00000530740,;PDE4DIP,intron_variant,,ENST00000369354,;PDE4DIP,intron_variant,,ENST00000313382,NM_001198832.2;PDE4DIP,intron_variant,,ENST00000369351,;PDE4DIP,intron_variant,,ENST00000369349,NM_001002812.2;PDE4DIP,intron_variant,,ENST00000532801,;RNU2-38P,upstream_gene_variant,,ENST00000410856,;PDE4DIP,downstream_gene_variant,,ENST00000496572,;"	"-"	"ENSG00000178104"	"ENST00000369356"	"Transcript"	"intron_variant"	"-/8307"	"-/7089"	"-/2362"	""	""	"rs5777493"	"1"	NA	-1	"PDE4DIP"	"HGNC"	15580	"protein_coding"	"YES"	"CCDS55627.1"	"ENSP00000358363"	"Q5VU43"	"I1VE15"	"UPI0000458A81"	"NM_014644.5,NM_001198834.3"	NA	NA	""	"5/43"	""	"-:0.4994"	"-:0.4977"	"-:0.5"	NA	"-:0.5"	"-:0.5"	"-:0.5"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTT"	"4b6d4d40-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	TRUE
"249"	"RN7SKP88"	0	"mskcc.org"	"GRCh37"	"1"	145048154	145048154	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516847"	""	11	"."	5	4	"."	0	"PDE4DIP,intron_variant,,ENST00000369359,;PDE4DIP,intron_variant,,ENST00000530740,;PDE4DIP,intron_variant,,ENST00000369348,NM_022359.5;RN7SKP88,downstream_gene_variant,,ENST00000516847,;PDE4DIP,intron_variant,,ENST00000528552,;PDE4DIP,intron_variant,,ENST00000533396,;PDE4DIP,intron_variant,,ENST00000527063,;PDE4DIP,intron_variant,,ENST00000526359,;PDE4DIP,intron_variant,,ENST00000528661,;"	"-"	"ENSG00000252656"	"ENST00000516847"	"Transcript"	"downstream_gene_variant"	"-/250"	""	""	""	""	""	"1"	"3254"	1	"RN7SKP88"	"HGNC"	45812	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCGG"	"4b96cfbc-2764-11e6-8bcb-94fe414a729f"	"281"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"250"	"RP11-458D21.5"	0	"mskcc.org"	"GRCh37"	"1"	145209344	145209345	"+"	"5'UTR"	"INS"	"-"	"-"	"GGCGGCGGCGGCGGCGGCGGCGGA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-135_-134insCGGCGGCGGCGGCGGCGGCGGAGG"	""	""	"ENST00000468030"	"1/23"	86	"."	5	50	"."	0	"NOTCH2NL,5_prime_UTR_variant,,ENST00000344859,;NOTCH2NL,5_prime_UTR_variant,,ENST00000362074,NM_203458.4;RP11-458D21.5,5_prime_UTR_variant,,ENST00000468030,;"	"GGCGGCGGCGGCGGCGGCGGCGGA"	"ENSG00000255168"	"ENST00000468030"	"Transcript"	"5_prime_UTR_variant,NMD_transcript_variant"	"200-201/3636"	"-/717"	"-/238"	""	""	""	"1"	NA	1	"RP11-458D21.5"	"Clone_based_vega_gene"	NA	"nonsense_mediated_decay"	"YES"	""	"ENSP00000457682"	""	"E9PLD5"	"UPI0001F78571"	""	NA	NA	"1/23"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"7639c5ee-2764-11e6-8bcb-94fe414a729f"	"177"	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL97.00to99.00"	"FALSE"	0.0581395348837209	"WXS"	FALSE
"251"	"PRKAB2"	5565	"mskcc.org"	"GRCh37"	"1"	146632967	146632968	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11371579"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.741+323dupT"	""	""	"ENST00000254101"	""	8	"."	3	1	"."	0	"PRKAB2,intron_variant,,ENST00000254101,NM_005399.4;PRKAB2,intron_variant,,ENST00000425272,;PRKAB2,intron_variant,,ENST00000496858,;PRKAB2,downstream_gene_variant,,ENST00000474939,;"	"A"	"ENSG00000131791"	"ENST00000254101"	"Transcript"	"intron_variant"	"-/5417"	"-/819"	"-/272"	""	""	"rs11371579"	"1"	NA	-1	"PRKAB2"	"HGNC"	9379	"protein_coding"	"YES"	"CCDS925.1"	"ENSP00000254101"	"O43741"	""	"UPI00001250AF"	"NM_005399.4"	NA	NA	""	"7/7"	""	"-:0.3996"	"A:0.6369"	"A:0.5389"	NA	"A:0.8512"	"A:0.3897"	"A:0.5532"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"7650ae4e-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"252"	"CHD1L"	9557	"mskcc.org"	"GRCh37"	"1"	146758286	146758287	"+"	"Intron"	"DEL"	"AC"	"AC"	"-"	"rs147488881"	NA	"JHCCPT1"	"JHCCPN1"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2221+110_2221+111delCA"	""	""	"ENST00000369258"	""	7	"."	3	7	"."	0	"CHD1L,intron_variant,,ENST00000369258,NM_001256336.1,NM_024568.2,NM_004284.4;CHD1L,intron_variant,,ENST00000431239,;CHD1L,intron_variant,,ENST00000361293,NM_001256337.1;CHD1L,intron_variant,,ENST00000369259,NM_001256338.1;CHD1L,intron_variant,,ENST00000467213,;"	"-"	"ENSG00000131778"	"ENST00000369258"	"Transcript"	"intron_variant"	"-/2967"	"-/2694"	"-/897"	""	""	"rs147488881"	"1"	NA	1	"CHD1L"	"HGNC"	1916	"protein_coding"	"YES"	"CCDS927.1"	"ENSP00000358262"	"Q86WJ1"	"B5MDZ7"	"UPI000020566F"	"NM_001256336.1,NM_024568.2,NM_004284.4"	NA	NA	""	"18/22"	""	"-:0.1416"	"-:0.0083"	"-:0.1931"	NA	"-:0.0665"	"-:0.2396"	"-:0.2618"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTACA"	"4c256362-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"253"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	146823729	146823730	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs77720040"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs77720040"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4303"	"T:0.4281"	"T:0.6153"	NA	"T:0.6012"	"T:0.6511"	"T:0.6125"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"767bcb24-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"254"	"CTSK"	1513	"mskcc.org"	"GRCh37"	"1"	150779555	150779562	"+"	"Intron"	"DEL"	"CTCACACA"	"CTCACACA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CTCACACA"	"CTCACACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1-280_-1-273delTGTGTGAG"	""	""	"ENST00000271651"	""	22	"."	5	8	"."	0	"CTSK,intron_variant,,ENST00000271651,NM_000396.3;CTSK,intron_variant,,ENST00000443913,;ARNT,downstream_gene_variant,,ENST00000358595,NM_178427.2,NM_001197325.1,NM_001668.3;ARNT,downstream_gene_variant,,ENST00000354396,NM_001286036.1;ARNT,downstream_gene_variant,,ENST00000515192,NM_001286035.1;ARNT,downstream_gene_variant,,ENST00000505755,;CTSK,upstream_gene_variant,,ENST00000480670,;ARNT,downstream_gene_variant,,ENST00000471844,;"	"-"	"ENSG00000143387"	"ENST00000271651"	"Transcript"	"intron_variant"	"-/1692"	"-/990"	"-/329"	""	""	""	"1"	NA	-1	"CTSK"	"HGNC"	2536	"protein_coding"	"YES"	"CCDS969.1"	"ENSP00000271651"	"P43235"	""	"UPI0000000DFB"	"NM_000396.3"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTCTCACACAC"	"4d300884-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WXS"	FALSE
"255"	"SETDB1"	9869	"mskcc.org"	"GRCh37"	"1"	150894000	150894001	"+"	"5'Flank"	"INS"	"-"	"-"	"AAAAAGAAAAGAAAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000271640"	""	8	"."	3	2	"."	0	"SETDB1,upstream_gene_variant,,ENST00000271640,NM_001145415.1,NM_012432.3;SETDB1,upstream_gene_variant,,ENST00000368969,;SETDB1,upstream_gene_variant,,ENST00000498193,;SETDB1,upstream_gene_variant,,ENST00000534805,;SETDB1,upstream_gene_variant,,ENST00000368962,NM_001243491.1;SETDB1,upstream_gene_variant,,ENST00000368963,;SETDB1,upstream_gene_variant,,ENST00000448029,;SETDB1,upstream_gene_variant,,ENST00000525956,;SETDB1,upstream_gene_variant,,ENST00000459773,;SETDB1,upstream_gene_variant,,ENST00000487584,;SETDB1,upstream_gene_variant,,ENST00000463774,;SETDB1,upstream_gene_variant,,ENST00000368964,;"	"AAAAAGAAAAGAAAG"	"ENSG00000143379"	"ENST00000271640"	"Transcript"	"upstream_gene_variant"	"-/4437"	"-/3876"	"-/1291"	""	""	""	"1"	"4814"	1	"SETDB1"	"HGNC"	10761	"protein_coding"	"YES"	"CCDS44217.1"	"ENSP00000271640"	"Q15047"	"E9PS59,B0QZE6"	"UPI0000135897"	"NM_001145415.1,NM_012432.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"771ea362-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"256"	"RIIAD1"	284485	"mskcc.org"	"GRCh37"	"1"	151700970	151700983	"+"	"Intron"	"DEL"	"GTGGGGGGTGGGGC"	"GTGGGGGGTGGGGC"	"-"	"rs148204192"	NA	"JHCCPT1"	"JHCCPN1"	"GTGGGGGGTGGGGC"	"GTGGGGGGTGGGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.209-272_209-259delGTGGGGGGTGGGGC"	""	""	"ENST00000479191"	""	17	"."	10	6	"."	0	"RIIAD1,intron_variant,,ENST00000326413,;AL589765.1,intron_variant,,ENST00000442233,;RIIAD1,intron_variant,,ENST00000479191,NM_001144956.1;RIIAD1,intron_variant,,ENST00000426175,;RIIAD1,intron_variant,,ENST00000451484,;RIIAD1,intron_variant,,ENST00000427205,;RIIAD1,intron_variant,,ENST00000451222,;"	"-"	"ENSG00000178796"	"ENST00000479191"	"Transcript"	"intron_variant"	"-/449"	"-/279"	"-/92"	""	""	"rs148204192"	"1"	NA	1	"RIIAD1"	"HGNC"	26686	"protein_coding"	"YES"	"CCDS53368.1"	"ENSP00000419249"	"A6NNX1"	""	"UPI00001D7CA9"	"NM_001144956.1"	NA	NA	""	"3/4"	""	"GTGGGGGGTGGGGC:0.0086"	"-:0.9849"	"-:0.9986"	NA	"-:0.995"	"-:0.998"	"-:0.9847"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGTGGGGGGTGGGGCC"	"4e17d3b2-2764-11e6-8bcb-94fe414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.588235294117647	"WXS"	FALSE
"257"	"KRT8P28"	0	"mskcc.org"	"GRCh37"	"1"	151921690	151921691	"+"	"3'Flank"	"INS"	"-"	"-"	"TTCT"	"rs112126840"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000433288"	""	13	"."	5	2	"."	0	"KRT8P28,downstream_gene_variant,,ENST00000433288,;"	"TTCT"	"ENSG00000223810"	"ENST00000433288"	"Transcript"	"downstream_gene_variant"	"-/1390"	""	""	""	""	"rs112126840"	"1"	"308"	-1	"KRT8P28"	"HGNC"	33380	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"TTCT:0.3285"	"TTCT:0.2905"	"TTCT:0.2061"	NA	"TTCT:0.2629"	"TTCT:0.3032"	"TTCT:0.5603"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"779897c6-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"258"	"TDRD10"	126668	"mskcc.org"	"GRCh37"	"1"	154492241	154492242	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs72365002"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.142-537_142-536delTG"	""	""	"ENST00000368480"	""	7	"."	4	1	"."	0	"TDRD10,intron_variant,,ENST00000368482,NM_182499.3,NM_001098475.1;TDRD10,intron_variant,,ENST00000368480,;TDRD10,upstream_gene_variant,,ENST00000479937,;"	"-"	"ENSG00000163239"	"ENST00000368480"	"Transcript"	"intron_variant"	"-/1776"	"-/1101"	"-/366"	""	""	"rs72365002"	"1"	NA	1	"TDRD10"	"HGNC"	25316	"protein_coding"	"YES"	"CCDS41406.1"	"ENSP00000357465"	"Q5VZ19"	""	"UPI0001533DB6"	""	NA	NA	""	"4/11"	""	"TG:0.2167"	"-:0.587"	"-:0.8818"	NA	"-:0.9117"	"-:0.8241"	"-:0.8047"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"4f7a7b24-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"259"	"ASH1L"	55870	"mskcc.org"	"GRCh37"	"1"	155385918	155385922	"+"	"Intron"	"DEL"	"ATTTT"	"ATTTT"	"-"	"rs71945741"	NA	"JHCCPT1"	"JHCCPN1"	"ATTTT"	"ATTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5829-208_5829-204delAAAAT"	""	""	"ENST00000392403"	""	12	"."	3	3	"."	0	"ASH1L,intron_variant,,ENST00000368346,;ASH1L,intron_variant,,ENST00000392403,NM_018489.2;snoU13,upstream_gene_variant,,ENST00000458873,;RNU6-1297P,upstream_gene_variant,,ENST00000384415,;"	"-"	"ENSG00000116539"	"ENST00000392403"	"Transcript"	"intron_variant"	"-/10979"	"-/8895"	"-/2964"	""	""	"rs71945741"	"1"	NA	-1	"ASH1L"	"HGNC"	19088	"protein_coding"	"YES"	"CCDS1113.2"	"ENSP00000376204"	"Q9NR48"	""	"UPI0000DACAC8"	"NM_018489.2"	NA	NA	""	"5/27"	""	"-:0.4437"	"-:0.1619"	"-:0.6138"	NA	"-:0.2897"	"-:0.67"	"-:0.6299"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAATTTTA"	"50257844-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"260"	"GON4L"	54856	"mskcc.org"	"GRCh37"	"1"	155756888	155756889	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11447826"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1748-1724dupA"	""	""	"ENST00000437809"	""	10	"."	5	1	"."	0	"GON4L,intron_variant,,ENST00000437809,;GON4L,intron_variant,,ENST00000368331,NM_001037533.1,NM_001282858.1,NM_001282856.1,NM_001282860.1;GON4L,intron_variant,,ENST00000271883,;GON4L,intron_variant,,ENST00000361040,NM_032292.4,NM_001282861.1;GON4L,intron_variant,,ENST00000471341,;GON4L,intron_variant,,ENST00000467009,;GON4L,intron_variant,,ENST00000482386,;GON4L,upstream_gene_variant,,ENST00000466224,;"	"T"	"ENSG00000116580"	"ENST00000437809"	"Transcript"	"intron_variant"	"-/7713"	"-/6723"	"-/2240"	""	""	"rs11447826"	"1"	NA	-1	"GON4L"	"HGNC"	25973	"protein_coding"	"YES"	"CCDS44242.1"	"ENSP00000396117"	"Q3T8J9"	"Q9NXJ9"	"UPI0000603C24"	""	NA	NA	""	"12/31"	""	"-:0.1394"	"T:0.5802"	"T:0.9395"	NA	"T:0.9931"	"T:0.9423"	"T:0.9632"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"78c056ac-2764-11e6-8bcb-94fe414a729f"	"299"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"261"	"GON4L"	54856	"mskcc.org"	"GRCh37"	"1"	155806976	155806979	"+"	"Intron"	"DEL"	"TCTT"	"-"	"-"	"rs66743172"	NA	"JHCCPT1"	"JHCCPN1"	"TCTT"	"TCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.506-10160_506-10157delAAGA"	""	""	"ENST00000437809"	""	7	"."	6	1	"."	0	"GON4L,intron_variant,,ENST00000437809,;GON4L,intron_variant,,ENST00000368331,NM_001037533.1,NM_001282858.1,NM_001282856.1,NM_001282860.1;GON4L,intron_variant,,ENST00000271883,;GON4L,intron_variant,,ENST00000361040,NM_032292.4,NM_001282861.1;GON4L,intron_variant,,ENST00000471341,;GON4L,intron_variant,,ENST00000488251,;GON4L,intron_variant,,ENST00000468867,;"	"-"	"ENSG00000116580"	"ENST00000437809"	"Transcript"	"intron_variant"	"-/7713"	"-/6723"	"-/2240"	""	""	"rs66743172"	"1"	NA	-1	"GON4L"	"HGNC"	25973	"protein_coding"	"YES"	"CCDS44242.1"	"ENSP00000396117"	"Q3T8J9"	"Q9NXJ9"	"UPI0000603C24"	""	NA	NA	""	"2/31"	""	"TCTT:0.1376"	"-:0.5809"	"-:0.9395"	NA	"-:0.998"	"-:0.9443"	"-:0.9642"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTCTTT"	"50689d7c-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"262"	"LRRC71"	149499	"mskcc.org"	"GRCh37"	"1"	156899852	156899853	"+"	"Intron"	"INS"	"-"	"-"	"TCTTTCTTTTTCTTTCTTTCTTTTTCTTTC"	"rs746194831"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1240+332_1240+333insCTTTCTTTTTCTTTCTTTCTTTTTCTTTCT"	""	""	"ENST00000337428"	""	10	"."	3	4	"."	0	"LRRC71,intron_variant,,ENST00000337428,NM_144702.2;ARHGEF11,downstream_gene_variant,,ENST00000368194,NM_198236.2;LRRC71,intron_variant,,ENST00000490146,;LRRC71,intron_variant,,ENST00000476550,;ARHGEF11,downstream_gene_variant,,ENST00000487682,;LRRC71,upstream_gene_variant,,ENST00000472465,;"	"TCTTTCTTTTTCTTTCTTTCTTTTTCTTTC"	"ENSG00000160838"	"ENST00000337428"	"Transcript"	"intron_variant"	"-/1959"	"-/1680"	"-/559"	""	""	"rs746194831"	"1"	NA	1	"LRRC71"	"HGNC"	26556	"protein_coding"	"YES"	"CCDS44249.1"	"ENSP00000336661"	"Q8N4P6"	""	"UPI00000719B9"	"NM_144702.2"	NA	NA	""	"11/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"79630b18-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"263"	"RP11-110J1.2"	0	"mskcc.org"	"GRCh37"	"1"	157028956	157028956	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000379752"	""	164	"."	3	89	"."	0	"RP11-110J1.2,downstream_gene_variant,,ENST00000379752,;"	"-"	"ENSG00000237842"	"ENST00000379752"	"Transcript"	"downstream_gene_variant"	"-/1531"	""	""	""	""	""	"1"	"68"	-1	"RP11-110J1.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGC"	"512df52c-2764-11e6-8bcb-94fe414a729f"	"161"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0182926829268293	"WXS"	FALSE
"264"	"KIRREL"	55243	"mskcc.org"	"GRCh37"	"1"	158035603	158035603	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34641132"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.53-10300delT"	""	""	"ENST00000359209"	""	7	"."	3	2	"."	0	"KIRREL,intron_variant,,ENST00000368173,NM_018240.5;KIRREL,intron_variant,,ENST00000360089,;KIRREL,intron_variant,,ENST00000392272,;KIRREL,intron_variant,,ENST00000359209,;KIRREL,intron_variant,,ENST00000416935,;"	"-"	"ENSG00000183853"	"ENST00000359209"	"Transcript"	"intron_variant"	"-/2874"	"-/2274"	"-/757"	""	""	"rs34641132"	"1"	NA	1	"KIRREL"	"HGNC"	15734	"protein_coding"	"YES"	"CCDS1172.2"	"ENSP00000352138"	"Q96J84"	""	"UPI0000443FBD"	""	NA	NA	""	"1/14"	""	"-:0.2961"	"-:0.4024"	"-:0.3415"	NA	"-:0.127"	"-:0.3181"	"-:0.272"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTG"	"5152f0fc-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"265"	"SPTA1"	6708	"mskcc.org"	"GRCh37"	"1"	158582347	158582348	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs113803661"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7134+258_7134+259dupTT"	""	""	"ENST00000368147"	""	20	"."	6	6	"."	0	"SPTA1,intron_variant,,ENST00000368147,NM_003126.2;SPTA1,upstream_gene_variant,,ENST00000485680,;SPTA1,downstream_gene_variant,,ENST00000492934,;SPTA1,downstream_gene_variant,,ENST00000481212,;SPTA1,downstream_gene_variant,,ENST00000498708,;"	"AA"	"ENSG00000163554"	"ENST00000368147"	"Transcript"	"intron_variant"	"-/7999"	"-/7260"	"-/2419"	""	""	"rs113803661"	"1"	NA	-1	"SPTA1"	"HGNC"	11272	"protein_coding"	"YES"	"CCDS41423.1"	"ENSP00000357129"	"P02549"	"O60686"	"UPI0000458906"	"NM_003126.2"	NA	NA	""	"51/51"	""	"-:0.4966"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"79b1e95e-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"266"	"OR6K4P"	0	"mskcc.org"	"GRCh37"	"1"	158693017	158693018	"+"	"3'Flank"	"INS"	"-"	"-"	"TCTATCTATCTATCTA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000423179"	""	9	"."	4	1	"."	0	"OR6K4P,downstream_gene_variant,,ENST00000423179,;OR6K4P,downstream_gene_variant,,ENST00000325769,;"	"TCTATCTATCTATCTA"	"ENSG00000180437"	"ENST00000423179"	"Transcript"	"downstream_gene_variant"	"-/955"	""	""	""	""	""	"1"	"885"	-1	"OR6K4P"	"HGNC"	15031	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"79f102b0-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"267"	"FCER1A"	2205	"mskcc.org"	"GRCh37"	"1"	159282992	159282992	"+"	"3'Flank"	"DEL"	"C"	"-"	"-"	"rs67351174"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000368115"	""	7	"."	5	1	"."	0	"FCER1A,downstream_gene_variant,,ENST00000368115,NM_002001.3;OR10J3,downstream_gene_variant,,ENST00000332217,NM_001004467.1;"	"-"	"ENSG00000179639"	"ENST00000368115"	"Transcript"	"downstream_gene_variant"	"-/1165"	"-/774"	"-/257"	""	""	"rs67351174"	"1"	"4978"	1	"FCER1A"	"HGNC"	3609	"protein_coding"	"YES"	"CCDS1184.1"	"ENSP00000357097"	"P12319"	"Q8WYP6"	"UPI000002CFDB"	"NM_002001.3"	NA	NA	""	""	""	"-:0.2660"	"-:0.0454"	"-:0.353"	NA	"-:0.2639"	"-:0.4722"	"-:0.2924"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCA"	"51f14f0e-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"268"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	159612868	159612871	"+"	"IGR"	"DEL"	"AGGC"	"AGGC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AGGC"	"AGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	5	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAGGCA"	"51f5cb74-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"269"	"ATP1A2"	477	"mskcc.org"	"GRCh37"	"1"	160095288	160095289	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35015303"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.748+246dupT"	""	""	"ENST00000361216"	""	13	"."	7	5	"."	0	"ATP1A2,intron_variant,,ENST00000361216,NM_000702.3;ATP1A2,intron_variant,,ENST00000392233,;ATP1A2,upstream_gene_variant,,ENST00000447527,;ATP1A2,non_coding_transcript_exon_variant,,ENST00000468587,;ATP1A2,intron_variant,,ENST00000472488,;ATP1A2,downstream_gene_variant,,ENST00000478587,;"	"T"	"ENSG00000018625"	"ENST00000361216"	"Transcript"	"intron_variant"	"-/5421"	"-/3063"	"-/1020"	""	""	"rs35015303"	"1"	NA	1	"ATP1A2"	"HGNC"	800	"protein_coding"	"YES"	"CCDS1196.1"	"ENSP00000354490"	"P50993"	"Q58I22"	"UPI0000124FC1"	"NM_000702.3"	NA	NA	""	"7/22"	""	"T:0.3283"	"T:0.2973"	"T:0.4164"	NA	"T:0.4792"	"T:0.2952"	"T:0.1861"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"7a392cfc-2764-11e6-8bcb-94fe414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.538461538461538	"WXS"	FALSE
"270"	"ATP1A4"	480	"mskcc.org"	"GRCh37"	"1"	160120771	160120786	"+"	"5'Flank"	"DEL"	"TTTGTTTGTTTGTTTG"	"TTTGTTTGTTTGTTTG"	"-"	"rs201194293"	NA	"JHCCPT1"	"JHCCPN1"	"TTTGTTTGTTTGTTTG"	"TTTGTTTGTTTGTTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000368081"	""	10	"."	5	2	"."	0	"ATP1A4,upstream_gene_variant,,ENST00000368081,NM_144699.3;ATP1A4,upstream_gene_variant,,ENST00000477338,;"	"-"	"ENSG00000132681"	"ENST00000368081"	"Transcript"	"upstream_gene_variant"	"-/3839"	"-/3090"	"-/1029"	""	""	"rs201194293"	"1"	"574"	1	"ATP1A4"	"HGNC"	14073	"protein_coding"	"YES"	"CCDS1197.1"	"ENSP00000357060"	"Q13733"	"Q13818"	"UPI0000124FC5"	"NM_144699.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTGTTTGTTTGTTTGT"	"522357e2-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"271"	"F11R"	50848	"mskcc.org"	"GRCh37"	"1"	160975208	160975209	"+"	"Intron"	"INS"	"-"	"-"	"CCTT"	"rs10644902"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.65-4066_65-4065insAAGG"	""	""	"ENST00000368026"	""	10	"."	5	1	"."	0	"F11R,intron_variant,,ENST00000368026,NM_016946.4;F11R,intron_variant,,ENST00000537746,;F11R,intron_variant,,ENST00000335772,;F11R,upstream_gene_variant,,ENST00000472573,;RP11-544M22.13,intron_variant,,ENST00000289779,;RP11-544M22.13,intron_variant,,ENST00000470694,;F11R,intron_variant,,ENST00000602966,;"	"CCTT"	"ENSG00000158769"	"ENST00000368026"	"Transcript"	"intron_variant"	"-/4835"	"-/900"	"-/299"	""	""	"rs10644902"	"1"	NA	-1	"F11R"	"HGNC"	14685	"protein_coding"	"YES"	"CCDS1213.1"	"ENSP00000357005"	"Q9Y624"	"Q6FIB4"	"UPI0000000DC1"	"NM_016946.4"	NA	NA	""	"1/9"	""	"-:0.1655"	"CCTT:0.941"	"CCTT:0.8069"	NA	"CCTT:0.8323"	"CCTT:0.7903"	"CCTT:0.7577"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7a8d6ccc-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"272"	"ARHGAP30"	257106	"mskcc.org"	"GRCh37"	"1"	161029128	161029129	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs59226414"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.200+275_200+276insC"	""	""	"ENST00000368013"	""	19	"."	4	4	"."	0	"ARHGAP30,intron_variant,,ENST00000368013,NM_181720.2,NM_001025598.1;ARHGAP30,intron_variant,,ENST00000368015,NM_001287602.1;ARHGAP30,intron_variant,,ENST00000368016,;ARHGAP30,intron_variant,,ENST00000461003,;ARHGAP30,intron_variant,,ENST00000490279,;ARHGAP30,intron_variant,,ENST00000368018,;ARHGAP30,intron_variant,,ENST00000471492,;"	"G"	"ENSG00000186517"	"ENST00000368013"	"Transcript"	"intron_variant"	"-/4394"	"-/3306"	"-/1101"	""	""	"rs59226414"	"1"	NA	-1	"ARHGAP30"	"HGNC"	27414	"protein_coding"	"YES"	"CCDS30918.1"	"ENSP00000356992"	"Q7Z6I6"	""	"UPI0000160677"	"NM_181720.2,NM_001025598.1"	NA	NA	""	"2/11"	""	"-:0.3824"	"G:0.8949"	"G:0.5692"	NA	"G:0.5813"	"G:0.4245"	"G:0.5133"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7a91a3dc-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"273"	"UHMK1"	127933	"mskcc.org"	"GRCh37"	"1"	162491842	162491859	"+"	"Intron"	"DEL"	"AGCCGTATCTTTGGCAGA"	"AGCCGTATCTTTGGCAGA"	"TTTGGCAGATGTCTAG"	"rs71583917"	NA	"JHCCPT1"	"JHCCPN1"	"AGCCGTATCTTTGGCAGA"	"AGCCGTATCTTTGGCAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1114-352_1114-335delAGCCGTATCTTTGGCAGAinsTTTGGCAGATGTCTAG"	""	""	"ENST00000489294"	""	9	"."	4	1	"."	0	"UHMK1,intron_variant,,ENST00000489294,NM_175866.4;UHMK1,intron_variant,,ENST00000538489,NM_144624.2;UHMK1,intron_variant,,ENST00000545294,NM_001184763.1;UHMK1,intron_variant,,ENST00000282169,;"	"TTTGGCAGATGTCTAG"	"ENSG00000152332"	"ENST00000489294"	"Transcript"	"intron_variant"	"-/8478"	"-/1260"	"-/419"	""	""	"rs71583917"	"1"	NA	1	"UHMK1"	"HGNC"	19683	"protein_coding"	"YES"	"CCDS1239.1"	"ENSP00000420270"	"Q8TAS1"	""	"UPI000000DCCA"	"NM_175866.4"	NA	NA	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAGCCGTATCTTTGGCAGAT"	"65cbbe9c-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"274"	"DDR2"	4921	"mskcc.org"	"GRCh37"	"1"	162736851	162736852	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs5778292"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1163-165_1163-164dupAA"	""	""	"ENST00000367921"	""	22	"."	4	12	"."	0	"DDR2,intron_variant,,ENST00000367922,NM_001014796.1;DDR2,intron_variant,,ENST00000367921,NM_006182.2;DDR2,upstream_gene_variant,,ENST00000433757,;DDR2,upstream_gene_variant,,ENST00000458105,;"	"AA"	"ENSG00000162733"	"ENST00000367921"	"Transcript"	"intron_variant"	"-/3096"	"-/2568"	"-/855"	""	""	"rs5778292"	"1"	NA	1	"DDR2"	"HGNC"	2731	"protein_coding"	""	"CCDS1241.1"	"ENSP00000356898"	"Q16832"	"Q5T245,Q5T244"	"UPI000013E1B4"	"NM_006182.2"	NA	NA	""	"10/17"	""	"-:0.0312"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"7ae1a36e-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"275"	"POU2F1"	5451	"mskcc.org"	"GRCh37"	"1"	167385343	167385344	"+"	"3'UTR"	"DEL"	"AG"	"AG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*297_*298delGA"	""	""	"ENST00000367866"	"16/16"	106	"."	3	59	"."	0	"POU2F1,3_prime_UTR_variant,,ENST00000367862,NM_001198783.1;POU2F1,3_prime_UTR_variant,,ENST00000367866,NM_002697.3,NM_001198786.1;POU2F1,3_prime_UTR_variant,,ENST00000443275,;POU2F1,downstream_gene_variant,,ENST00000541643,;POU2F1,downstream_gene_variant,,ENST00000429375,;POU2F1,downstream_gene_variant,,ENST00000420254,;POU2F1,non_coding_transcript_exon_variant,,ENST00000367865,;POU2F1,3_prime_UTR_variant,,ENST00000271411,;POU2F1,downstream_gene_variant,,ENST00000557874,;"	"-"	"ENSG00000143190"	"ENST00000367866"	"Transcript"	"3_prime_UTR_variant"	"2666-2667/13905"	"-/2301"	"-/766"	""	""	""	"1"	NA	1	"POU2F1"	"HGNC"	9212	"protein_coding"	"YES"	"CCDS1259.2"	"ENSP00000356840"	""	"J3KP77"	"UPI0000EE3C74"	"NM_002697.3,NM_001198786.1"	NA	NA	"16/16"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"53b89446-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0283018867924528	"WXS"	FALSE
"276"	"TBX19"	9095	"mskcc.org"	"GRCh37"	"1"	168274637	168274637	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11332580"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.916+210delT"	""	""	"ENST00000367821"	""	10	"."	4	6	"."	0	"TBX19,intron_variant,,ENST00000367821,NM_005149.2;TBX19,intron_variant,,ENST00000431969,;TBX19,intron_variant,,ENST00000441464,;TBX19,upstream_gene_variant,,ENST00000465440,;"	"-"	"ENSG00000143178"	"ENST00000367821"	"Transcript"	"intron_variant"	"-/2822"	"-/1347"	"-/448"	""	""	"rs11332580"	"1"	NA	1	"TBX19"	"HGNC"	11596	"protein_coding"	"YES"	"CCDS1272.1"	"ENSP00000356795"	"O60806"	""	"UPI000003176C"	"NM_005149.2"	NA	NA	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGTT"	"53e95c48-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"277"	"NME7"	29922	"mskcc.org"	"GRCh37"	"1"	169159620	169159621	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs35816758"	NA	"JHCCPT1"	"JHCCPN1"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.991-20829_991-20828delAT"	""	""	"ENST00000367811"	""	8	"."	3	1	"."	0	"NME7,intron_variant,,ENST00000367811,NM_013330.3;NME7,intron_variant,,ENST00000472647,NM_197972.1;NME7,intron_variant,,ENST00000483228,;NME7,intron_variant,,ENST00000493481,;NME7,intron_variant,,ENST00000530739,;NME7,intron_variant,,ENST00000525440,;"	"-"	"ENSG00000143156"	"ENST00000367811"	"Transcript"	"intron_variant"	"-/1642"	"-/1131"	"-/376"	""	""	"rs35816758"	"1"	NA	-1	"NME7"	"HGNC"	20461	"protein_coding"	"YES"	"CCDS1277.1"	"ENSP00000356785"	"Q9Y5B8"	""	"UPI000012FE8C"	"NM_013330.3"	NA	NA	""	"10/11"	""	"-:0.4002"	"-:0.2526"	"-:0.3156"	NA	"-:0.7222"	"-:0.4105"	"-:0.317"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAATA"	"53f644ee-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"278"	"F5"	2153	"mskcc.org"	"GRCh37"	"1"	169515446	169515447	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs112177003"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1762+233_1762+234insAT"	""	""	"ENST00000367797"	""	27	"."	5	8	"."	0	"F5,intron_variant,,ENST00000367796,;F5,intron_variant,,ENST00000367797,NM_000130.4;F5,downstream_gene_variant,,ENST00000546081,;"	"AT"	"ENSG00000198734"	"ENST00000367797"	"Transcript"	"intron_variant"	"-/7024"	"-/6675"	"-/2224"	""	""	"rs112177003"	"1"	NA	-1	"F5"	"HGNC"	3542	"protein_coding"	"YES"	"CCDS1281.1"	"ENSP00000356771"	"P12259"	"Q8TD21,Q2HZZ1,Q1L610"	"UPI0000070F01"	"NM_000130.4"	NA	NA	""	"11/24"	""	"AT:0.2558"	"AT:0.1989"	"AT:0.3746"	NA	"AT:0.2202"	"AT:0.2316"	"AT:0.3098"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"7b983a5c-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WXS"	FALSE
"279"	"C1orf105"	92346	"mskcc.org"	"GRCh37"	"1"	172398364	172398371	"+"	"Intron"	"DEL"	"ACACACAC"	"ACACACAC"	"-"	"rs113920177"	NA	"JHCCPT1"	"JHCCPN1"	"ACACACAC"	"ACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.21+8343_21+8350delCACACACA"	""	""	"ENST00000367727"	""	17	"."	7	5	"."	0	"C1orf105,intron_variant,,ENST00000367727,NM_139240.3;C1orf105,intron_variant,,ENST00000460397,;PIGC,intron_variant,,ENST00000484368,;"	"-"	"ENSG00000180999"	"ENST00000367727"	"Transcript"	"intron_variant"	"-/985"	"-/552"	"-/183"	""	""	"rs113920177"	"1"	NA	1	"C1orf105"	"HGNC"	29591	"protein_coding"	"YES"	"CCDS1301.1"	"ENSP00000356700"	"O95561"	""	"UPI000006D456"	"NM_139240.3"	NA	NA	""	"1/6"	""	"ACACACAC:0.0064"	"-:0.9924"	"-:0.9928"	NA	"-:0.997"	"-:0.9881"	"-:0.998"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"25"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATACACACACA"	"54d142ec-2764-11e6-8bcb-94fe414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411764705882353	"WXS"	FALSE
"280"	"RABGAP1L"	9910	"mskcc.org"	"GRCh37"	"1"	174339876	174339877	"+"	"Intron"	"INS"	"-"	"-"	"TAGG"	"rs34798737"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1466-239_1466-238insGGTA"	""	""	"ENST00000251507"	""	11	"."	4	7	"."	0	"RABGAP1L,intron_variant,,ENST00000251507,NM_014857.4;RABGAP1L,intron_variant,,ENST00000357444,;RABGAP1L,intron_variant,,ENST00000367689,;RABGAP1L,intron_variant,,ENST00000457696,;RABGAP1L,intron_variant,,ENST00000367690,;RABGAP1L,intron_variant,,ENST00000526253,;RP4-809F4.1,upstream_gene_variant,,ENST00000423946,;"	"TAGG"	"ENSG00000152061"	"ENST00000251507"	"Transcript"	"intron_variant"	"-/2899"	"-/2448"	"-/815"	""	""	"rs34798737"	"1"	NA	1	"RABGAP1L"	"HGNC"	24663	"protein_coding"	"YES"	"CCDS1314.1"	"ENSP00000251507"	"Q5R372"	"F1LJ00"	"UPI0000458A9F"	"NM_014857.4"	NA	NA	""	"11/20"	""	"TAGG:0.3672"	"TAGG:0.7663"	"TAGG:0.3329"	NA	"TAGG:0.0625"	"TAGG:0.2753"	"TAGG:0.2607"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7c2e70bc-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"281"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	177752798	177752798	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs57407321"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs57407321"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2574"	"-:0.1974"	"-:0.3098"	NA	"-:0.3085"	"-:0.2714"	"-:0.2342"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAA"	"55ccbca8-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"282"	"ENSR00001594672"	0	"mskcc.org"	"GRCh37"	"1"	178911180	178911181	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs535243588"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001594672"	""	15	"."	4	3	"."	0	""	"C"	""	"ENSR00001594672"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs535243588"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.2298"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"7c74cae4-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"283"	"AXDND1"	126859	"mskcc.org"	"GRCh37"	"1"	179401577	179401577	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1563+102delG"	""	""	"ENST00000367618"	""	228	"."	3	116	"."	0	"AXDND1,intron_variant,,ENST00000367618,NM_144696.5;AXDND1,intron_variant,,ENST00000434088,;AXDND1,intron_variant,,ENST00000457238,;AXDND1,intron_variant,,ENST00000461179,;AXDND1,intron_variant,,ENST00000511157,;"	"-"	"ENSG00000162779"	"ENST00000367618"	"Transcript"	"intron_variant"	"-/3642"	"-/3039"	"-/1012"	""	""	""	"1"	NA	1	"AXDND1"	"HGNC"	26564	"protein_coding"	"YES"	"CCDS30948.1"	"ENSP00000356590"	"Q5T1B0"	"D6REE1,D6RDY4,D6RCN1,D6RB87,D6R9B7"	"UPI000022AC91"	"NM_144696.5"	NA	NA	""	"15/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGG"	"56532b30-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0131578947368421	"WXS"	FALSE
"284"	"TDRD5"	163589	"mskcc.org"	"GRCh37"	"1"	179620691	179620692	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11399818"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2002-482dupT"	""	""	"ENST00000444136"	""	10	"."	4	5	"."	0	"TDRD5,intron_variant,,ENST00000444136,NM_001199089.1,NM_001199085.1;TDRD5,intron_variant,,ENST00000367614,NM_001199091.1;TDRD5,intron_variant,,ENST00000294848,NM_173533.3,NM_001199092.1;TDRD5,intron_variant,,ENST00000417329,;"	"T"	"ENSG00000162782"	"ENST00000444136"	"Transcript"	"intron_variant"	"-/3678"	"-/3108"	"-/1035"	""	""	"rs11399818"	"1"	NA	1	"TDRD5"	"HGNC"	20614	"protein_coding"	"YES"	"CCDS55663.1"	"ENSP00000406052"	"Q8NAT2"	""	"UPI000022AC96"	"NM_001199089.1,NM_001199085.1"	NA	NA	""	"12/17"	""	"T:0.4319"	"T:0.3245"	"T:0.4741"	NA	"T:0.4782"	"T:0.4851"	"T:0.4448"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7c83e236-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"285"	"FAM163A"	148753	"mskcc.org"	"GRCh37"	"1"	179726943	179726944	"+"	"Intron"	"INS"	"-"	"-"	"CAAAA"	"rs143378792"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-136+14402_-136+14406dupAAAAC"	""	""	"ENST00000341785"	""	7	"."	3	1	"."	0	"FAM163A,intron_variant,,ENST00000341785,NM_173509.2;"	"CAAAA"	"ENSG00000143340"	"ENST00000341785"	"Transcript"	"intron_variant"	"-/2909"	"-/504"	"-/167"	""	""	"rs143378792"	"1"	NA	1	"FAM163A"	"HGNC"	28274	"protein_coding"	"YES"	"CCDS1333.1"	"ENSP00000354891"	"Q96GL9"	""	"UPI000006ED82"	"NM_173509.2"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"21"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"7c8602a0-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"286"	"STX6"	10228	"mskcc.org"	"GRCh37"	"1"	180939722	180939723	"+"	"3'Flank"	"INS"	"-"	"-"	"AT"	"rs5779076"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000258301"	""	6	"."	4	1	"."	0	"STX6,downstream_gene_variant,,ENST00000258301,NM_005819.4;AL162431.1,upstream_gene_variant,,ENST00000457152,;RP11-46A10.5,intron_variant,,ENST00000358073,;STX6,downstream_gene_variant,,ENST00000469135,;RP11-46A10.6,downstream_gene_variant,,ENST00000503142,;RP11-46A10.8,upstream_gene_variant,,ENST00000604674,;"	"AT"	"ENSG00000135823"	"ENST00000258301"	"Transcript"	"downstream_gene_variant"	"-/4851"	"-/768"	"-/255"	""	""	"rs5779076"	"1"	"2138"	-1	"STX6"	"HGNC"	11441	"protein_coding"	"YES"	"CCDS1341.1"	"ENSP00000258301"	"O43752"	"B4DR17"	"UPI00000490D6"	"NM_005819.4"	NA	NA	""	""	""	"-:0.3223"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7ca339d8-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"287"	"STX6"	10228	"mskcc.org"	"GRCh37"	"1"	180992174	180992213	"+"	"5'Flank"	"DEL"	"CTCTCTCTCTCTCCTCTCTCTCCTCTCTCTCCTCTCTCTC"	"CTCTCTCTCTCTCCTCTCTCTCCTCTCTCTCCTCTCTCTC"	"-"	"rs745419674"	NA	"JHCCPT1"	"JHCCPN1"	"CTCTCTCTCTCTCCTCTCTCTCCTCTCTCTCCTCTCTCTC"	"CTCTCTCTCTCTCCTCTCTCTCCTCTCTCTCCTCTCTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000258301"	""	10	"."	3	5	"."	0	"STX6,upstream_gene_variant,,ENST00000258301,NM_005819.4;STX6,upstream_gene_variant,,ENST00000542060,NM_001286210.1;"	"-"	"ENSG00000135823"	"ENST00000258301"	"Transcript"	"upstream_gene_variant"	"-/4851"	"-/768"	"-/255"	""	""	"rs745419674"	"1"	"127"	-1	"STX6"	"HGNC"	11441	"protein_coding"	"YES"	"CCDS1341.1"	"ENSP00000258301"	"O43752"	"B4DR17"	"UPI00000490D6"	"NM_005819.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCTCTCTCTCTCTCCTCTCTCTCCTCTCTCTCCTCTCTCTCC"	"56c06cfe-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"288"	"CACNA1E"	777	"mskcc.org"	"GRCh37"	"1"	181776078	181776079	"+"	"3'UTR"	"INS"	"-"	"-"	"G"	"rs11439105"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*8109dupG"	""	""	"ENST00000526775"	"46/46"	7	"."	4	1	"."	0	"CACNA1E,3_prime_UTR_variant,,ENST00000526775,NM_001205294.1;"	"G"	"ENSG00000198216"	"ENST00000526775"	"Transcript"	"3_prime_UTR_variant"	"15029-15030/16170"	"-/6756"	"-/2251"	""	""	"rs11439105"	"1"	NA	1	"CACNA1E"	"HGNC"	1392	"protein_coding"	""	"CCDS55665.1"	"ENSP00000434814"	"Q15878"	"Q9UN68,Q9NY05,E9PIE8"	"UPI00004588C3"	"NM_001205294.1"	NA	NA	"46/46"	""	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"7cb88e00-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"289"	"LAMC1"	3915	"mskcc.org"	"GRCh37"	"1"	183073109	183073110	"+"	"Intron"	"INS"	"-"	"-"	"TG"	"rs3835741"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.723+343_723+344dupTG"	""	""	"ENST00000258341"	""	7	"."	3	1	"."	0	"LAMC1,intron_variant,,ENST00000258341,NM_002293.3;LAMC1,intron_variant,,ENST00000484114,;"	"TG"	"ENSG00000135862"	"ENST00000258341"	"Transcript"	"intron_variant"	"-/7889"	"-/4830"	"-/1609"	""	""	"rs3835741"	"1"	NA	1	"LAMC1"	"HGNC"	6492	"protein_coding"	"YES"	"CCDS1351.1"	"ENSP00000258341"	"P11047"	"R4GNC7"	"UPI000013CFC7"	"NM_002293.3"	NA	NA	""	"2/27"	""	"-:0.4691"	"TG:0.3313"	"TG:0.6254"	NA	"TG:0.628"	"TG:0.5616"	"TG:0.6022"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7cd45cd4-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"290"	"LAMC1"	3915	"mskcc.org"	"GRCh37"	"1"	183109260	183109260	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs59684476"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4474-278delT"	""	""	"ENST00000258341"	""	21	"."	3	4	"."	0	"LAMC1,intron_variant,,ENST00000258341,NM_002293.3;RP11-181K3.4,intron_variant,,ENST00000457852,;LAMC1,downstream_gene_variant,,ENST00000495918,;"	"-"	"ENSG00000135862"	"ENST00000258341"	"Transcript"	"intron_variant"	"-/7889"	"-/4830"	"-/1609"	""	""	"rs59684476"	"1"	NA	1	"LAMC1"	"HGNC"	6492	"protein_coding"	"YES"	"CCDS1351.1"	"ENSP00000258341"	"P11047"	"R4GNC7"	"UPI000013CFC7"	"NM_002293.3"	NA	NA	""	"26/27"	""	"T:0.4233"	"-:0.5045"	"-:0.6455"	NA	"-:0.622"	"-:0.5666"	"-:0.589"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATT"	"574495f6-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"291"	"NMNAT2"	23057	"mskcc.org"	"GRCh37"	"1"	183300376	183300377	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs368034585"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.86-37449_86-37448insG"	""	""	"ENST00000287713"	""	7	"."	4	2	"."	0	"NMNAT2,intron_variant,,ENST00000287713,NM_015039.3;"	"C"	"ENSG00000157064"	"ENST00000287713"	"Transcript"	"intron_variant"	"-/5663"	"-/924"	"-/307"	""	""	"rs368034585"	"1"	NA	-1	"NMNAT2"	"HGNC"	16789	"protein_coding"	"YES"	"CCDS1353.1"	"ENSP00000287713"	"Q9BZQ4"	""	"UPI00000706AB"	"NM_015039.3"	NA	NA	""	"1/10"	""	"-:0.4786"	"C:0.2685"	"C:0.4553"	NA	"C:0.8075"	"C:0.5089"	"C:0.6278"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"7d012afc-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"292"	"TRMT1L"	81627	"mskcc.org"	"GRCh37"	"1"	185093267	185093268	"+"	"Intron"	"INS"	"-"	"-"	"ATCTTT"	"rs5779242"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1760-217_1760-216insAAAGAT"	""	""	"ENST00000367506"	""	12	"."	3	3	"."	0	"TRMT1L,intron_variant,,ENST00000367504,;TRMT1L,intron_variant,,ENST00000367506,NM_001202423.1,NM_030934.4;TRMT1L,downstream_gene_variant,,ENST00000458395,;TRMT1L,upstream_gene_variant,,ENST00000465827,;"	"ATCTTT"	"ENSG00000121486"	"ENST00000367506"	"Transcript"	"intron_variant"	"-/4392"	"-/2202"	"-/733"	""	""	"rs5779242"	"1"	NA	-1	"TRMT1L"	"HGNC"	16782	"protein_coding"	"YES"	"CCDS1366.1"	"ENSP00000356476"	"Q7Z2T5"	""	"UPI000000DADB"	"NM_001202423.1,NM_030934.4"	NA	NA	""	"12/14"	""	"-:0.4750"	"ATCTTT:0.7814"	"ATCTTT:0.487"	NA	"ATCTTT:0.3929"	"ATCTTT:0.4155"	"ATCTTT:0.454"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"7d283066-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"293"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	185364246	185364247	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs59038865"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	5	3	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs59038865"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1633"	"A:0.9652"	"A:0.7896"	NA	"A:0.6081"	"A:0.8807"	"A:0.8865"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7d35f3ea-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"294"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	185375966	185375967	"+"	"IGR"	"INS"	"-"	"-"	"CAAAGGGGGATTTGTACAAATTTCCCCTAGTGT"	"rs60147154"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"CAAAGGGGGATTTGTACAAATTTCCCCTAGTGT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs60147154"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CAAAGGGGGATTTGTACAAATTTCCCCTAGTGT:0.0234"	"CAAAGGGGGATTTGTACAAATTTCCCCTAGTGT:0.0008"	"CAAAGGGGGATTTGTACAAATTTCCCCTAGTGT:0.0245"	NA	"CAAAGGGGGATTTGTACAAATTTCCCCTAGTGT:0.0496"	"CAAAGGGGGATTTGTACAAATTTCCCCTAGTGT:0.0368"	"CAAAGGGGGATTTGTACAAATTTCCCCTAGTGT:0.0123"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7d36f380-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"295"	"TPR"	7175	"mskcc.org"	"GRCh37"	"1"	186308526	186308527	"+"	"Intron"	"INS"	"-"	"-"	"CTA"	"rs79818598"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4151+247_4151+248insTAG"	""	""	"ENST00000367478"	""	9	"."	6	1	"."	0	"TPR,intron_variant,,ENST00000367478,NM_003292.2;TPR,intron_variant,,ENST00000481347,;"	"CTA"	"ENSG00000047410"	"ENST00000367478"	"Transcript"	"intron_variant"	"-/9708"	"-/7092"	"-/2363"	""	""	"rs79818598"	"1"	NA	-1	"TPR"	"HGNC"	12017	"protein_coding"	"YES"	"CCDS41446.1"	"ENSP00000356448"	"P12270"	"Q9UE33"	"UPI000046FCF4"	"NM_003292.2"	NA	NA	""	"30/50"	""	"-:0.0222"	"CTA:0.9977"	"CTA:0.915"	NA	"CTA:0.9683"	"CTA:0.9891"	"CTA:0.9939"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTC"	"7d4a8756-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	TRUE
"296"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	187766831	187766831	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs34005740"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34005740"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTT"	"57f96dc8-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"297"	"RPS3AP9"	0	"mskcc.org"	"GRCh37"	"1"	188666306	188666307	"+"	"3'Flank"	"INS"	"-"	"-"	"GGGAAGGGAAGGGGAAG"	"rs142977950"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000417027"	""	14	"."	3	4	"."	0	"RPS3AP9,downstream_gene_variant,,ENST00000417027,;"	"GGGAAGGGAAGGGGAAG"	"ENSG00000231022"	"ENST00000417027"	"Transcript"	"downstream_gene_variant"	"-/792"	""	""	""	""	"rs142977950"	"1"	"2064"	1	"RPS3AP9"	"HGNC"	36150	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"7d602f02-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"298"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	189269959	189269964	"+"	"IGR"	"DEL"	"AGAGAG"	"AGAGAG"	"-"	"rs145543833"	NA	"JHCCPT1"	"JHCCPN1"	"AGAGAG"	"AGAGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	6	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145543833"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGAGAGA"	"5809bbb0-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"299"	"BRINP3"	339479	"mskcc.org"	"GRCh37"	"1"	190251112	190251112	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs144891541"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.237-232delT"	""	""	"ENST00000367462"	""	23	"."	4	4	"."	0	"BRINP3,intron_variant,,ENST00000367462,NM_199051.1;BRINP3,intron_variant,,ENST00000534846,;RP11-547I7.1,intron_variant,,ENST00000452178,;"	"-"	"ENSG00000162670"	"ENST00000367462"	"Transcript"	"intron_variant"	"-/2889"	"-/2301"	"-/766"	""	""	"rs144891541"	"1"	NA	-1	"BRINP3"	"HGNC"	22393	"protein_coding"	"YES"	"CCDS1373.1"	"ENSP00000356432"	"Q76B58"	""	"UPI00001C1D9A"	"NM_199051.1"	NA	NA	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAG"	"5810ddbe-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"300"	"UCHL5"	51377	"mskcc.org"	"GRCh37"	"1"	192979541	192979542	"+"	"3'Flank"	"INS"	"-"	"-"	"GAAGGAAT"	"rs113146753"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000367455"	""	10	"."	4	5	"."	0	"UCHL5,downstream_gene_variant,,ENST00000367455,NM_015984.3,NM_001199261.1;"	"GAAGGAAT"	"ENSG00000116750"	"ENST00000367455"	"Transcript"	"downstream_gene_variant"	"-/5327"	"-/990"	"-/329"	""	""	"rs113146753"	"1"	"1838"	-1	"UCHL5"	"HGNC"	19678	"protein_coding"	"YES"	"CCDS1378.1"	"ENSP00000356425"	"Q9Y5K5"	""	"UPI000013CF2A"	"NM_015984.3,NM_001199261.1"	NA	NA	""	""	""	"-:0.0150"	"GAAGGAAT:0.966"	"GAAGGAAT:0.9971"	NA	"GAAGGAAT:0.9901"	"GAAGGAAT:0.9901"	"GAAGGAAT:0.9918"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7d78a76c-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"301"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	193997506	193997507	"+"	"IGR"	"INS"	"-"	"-"	"TCC"	"rs113632864"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	2	"."	0	""	"TCC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113632864"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0224"	"TCC:0.9175"	"TCC:0.9971"	NA	"TCC:0.999"	"TCC:1"	"TCC:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7d7dbde2-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"302"	"KCNT2"	343450	"mskcc.org"	"GRCh37"	"1"	196303298	196303299	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs35078847"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1784-109_1784-108delCT"	""	""	"ENST00000294725"	""	25	"."	6	10	"."	0	"KCNT2,intron_variant,,ENST00000367433,NM_198503.2,NM_001287819.1;KCNT2,intron_variant,,ENST00000367431,;KCNT2,intron_variant,,ENST00000294725,;KCNT2,intron_variant,,ENST00000609185,;KCNT2,intron_variant,,ENST00000451324,;KCNT2,intron_variant,,ENST00000498426,;KCNT2,intron_variant,,ENST00000610076,;"	"-"	"ENSG00000162687"	"ENST00000294725"	"Transcript"	"intron_variant"	"-/4409"	"-/3408"	"-/1135"	""	""	"rs35078847"	"1"	NA	-1	"KCNT2"	"HGNC"	18866	"protein_coding"	"YES"	"CCDS1384.1"	"ENSP00000294725"	"Q6UVM3"	"A9LNM6"	"UPI00001E0966"	""	NA	NA	""	"16/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGA"	"586df594-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WXS"	FALSE
"303"	"CFHR1"	3078	"mskcc.org"	"GRCh37"	"1"	196794449	196794450	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11393029"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.59-158_59-157insT"	""	""	"ENST00000320493"	""	10	"."	3	4	"."	0	"CFHR1,intron_variant,,ENST00000320493,NM_002113.2;CFHR1,intron_variant,,ENST00000367424,;CFHR2,intron_variant,,ENST00000367421,;CFHR1,downstream_gene_variant,,ENST00000472961,;CFHR1,non_coding_transcript_exon_variant,,ENST00000480960,;CFHR1,intron_variant,,ENST00000468079,;"	"T"	"ENSG00000244414"	"ENST00000320493"	"Transcript"	"intron_variant"	"-/1271"	"-/993"	"-/330"	""	""	"rs11393029"	"1"	NA	1	"CFHR1"	"HGNC"	4888	"protein_coding"	"YES"	"CCDS1386.1"	"ENSP00000314299"	"Q03591"	"Q6LBM9"	"UPI000013CCFE"	"NM_002113.2"	NA	NA	""	"1/5"	""	"-:0.4593"	"T:0.6846"	"T:0.5432"	NA	"T:0.5437"	"T:0.4563"	"T:0.4284"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"7d8ee7de-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"304"	"ASPM"	259266	"mskcc.org"	"GRCh37"	"1"	197060359	197060360	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs35277950"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9445-189_9445-188delCA"	""	""	"ENST00000367409"	""	9	"."	6	2	"."	0	"ASPM,intron_variant,,ENST00000367409,NM_018136.4;ASPM,intron_variant,,ENST00000294732,NM_001206846.1;ASPM,intron_variant,,ENST00000367408,;"	"-"	"ENSG00000066279"	"ENST00000367409"	"Transcript"	"intron_variant"	"-/10887"	"-/10434"	"-/3477"	""	""	"rs35277950"	"1"	NA	-1	"ASPM"	"HGNC"	19048	"protein_coding"	"YES"	"CCDS1389.1"	"ENSP00000356379"	"Q8IZT6"	""	"UPI0000458904"	"NM_018136.4"	NA	NA	""	"22/27"	""	"TG:0.2129"	"-:0.3971"	"-:0.879"	NA	"-:1"	"-:0.9115"	"-:0.9018"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCTGT"	"58a6b794-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"305"	"CRB1"	23418	"mskcc.org"	"GRCh37"	"1"	197316970	197316971	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs4026419"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.988+363_988+364dupAA"	""	""	"ENST00000367400"	""	10	"."	5	2	"."	0	"CRB1,intron_variant,,ENST00000367400,NM_201253.2;CRB1,intron_variant,,ENST00000535699,NM_001257965.1;CRB1,intron_variant,,ENST00000367399,NM_001193640.1;CRB1,intron_variant,,ENST00000538660,NM_001257966.1;CRB1,intron_variant,,ENST00000543483,;CRB1,intron_variant,,ENST00000484075,;CRB1,intron_variant,,ENST00000475659,;"	"AA"	"ENSG00000134376"	"ENST00000367400"	"Transcript"	"intron_variant"	"-/4932"	"-/4221"	"-/1406"	""	""	"rs4026419"	"1"	NA	1	"CRB1"	"HGNC"	2343	"protein_coding"	"YES"	"CCDS1390.1"	"ENSP00000356370"	"P82279"	"B7Z824"	"UPI0000073345"	"NM_201253.2"	NA	NA	""	"4/11"	""	"-:0.4143"	"AA:0.1309"	"AA:0.6859"	NA	"AA:0.749"	"AA:0.7068"	"AA:0.8364"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"7db3cbbc-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"306"	"LAD1"	3898	"mskcc.org"	"GRCh37"	"1"	201365167	201365174	"+"	"Intron"	"DEL"	"AGCCTGGG"	"AGCCTGGG"	"-"	"rs111610062"	NA	"JHCCPT1"	"JHCCPN1"	"AGCCTGGG"	"AGCCTGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.38+3223_38+3230delCCCAGGCT"	""	""	"ENST00000391967"	""	9	"."	4	1	"."	0	"LAD1,intron_variant,,ENST00000391967,NM_005558.3;LAD1,intron_variant,,ENST00000367313,;"	"-"	"ENSG00000159166"	"ENST00000391967"	"Transcript"	"intron_variant"	"-/2906"	"-/1554"	"-/517"	""	""	"rs111610062"	"1"	NA	-1	"LAD1"	"HGNC"	6472	"protein_coding"	"YES"	"CCDS1410.1"	"ENSP00000375829"	"O00515"	""	"UPI000006CD59"	"NM_005558.3"	NA	NA	""	"1/9"	""	"-:0.4902"	"-:0.7723"	"-:0.3285"	NA	"-:0.4742"	"-:0.3917"	"-:0.3415"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGCCTGGGA"	"59c8f574-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"307"	"RP11-510N19.3"	0	"mskcc.org"	"GRCh37"	"1"	202013946	202013947	"+"	"3'Flank"	"INS"	"-"	"G"	"G"	"rs58012694"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000457453"	""	8	"."	6	1	"."	0	"RP11-510N19.3,downstream_gene_variant,,ENST00000457453,;"	"G"	"ENSG00000235811"	"ENST00000457453"	"Transcript"	"downstream_gene_variant"	"-/84"	""	""	""	""	"rs58012694"	"1"	"4884"	1	"RP11-510N19.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0168"	"G:0.9803"	"G:0.9885"	NA	"G:0.999"	"G:0.9712"	"G:0.9796"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7e34bdda-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"308"	"LGR6"	59352	"mskcc.org"	"GRCh37"	"1"	202191075	202191082	"+"	"Intron"	"DEL"	"ACCAACAT"	"-"	"-"	"rs3062584"	NA	"JHCCPT1"	"JHCCPN1"	"ACCAACAT"	"ACCAACAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.213-3468_213-3461delACCAACAT"	""	""	"ENST00000367278"	""	7	"."	5	2	"."	0	"LGR6,intron_variant,,ENST00000367278,NM_001017403.1;LGR6,intron_variant,,ENST00000255432,NM_021636.2;LGR6,intron_variant,,ENST00000439764,NM_001017404.1;LGR6,intron_variant,,ENST00000423542,;LGR6,intron_variant,,ENST00000487787,;LGR6,upstream_gene_variant,,ENST00000503519,;"	"-"	"ENSG00000133067"	"ENST00000367278"	"Transcript"	"intron_variant"	"-/3567"	"-/2904"	"-/967"	""	""	"rs3062584"	"1"	NA	1	"LGR6"	"HGNC"	19719	"protein_coding"	"YES"	"CCDS30971.1"	"ENSP00000356247"	"Q9HBX8"	""	"UPI0000161221"	"NM_001017403.1"	NA	NA	""	"1/17"	""	"ACCAACAT:0.1526"	"-:0.5923"	"-:0.9006"	NA	"-:0.9861"	"-:0.9125"	"-:0.9448"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCACCAACATA"	"5a351c36-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"309"	"KDM5B"	10765	"mskcc.org"	"GRCh37"	"1"	202741989	202741989	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs66904265"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.576+257delT"	""	""	"ENST00000367265"	""	6	"."	3	1	"."	0	"KDM5B,intron_variant,,ENST00000367265,NM_006618.3;KDM5B,intron_variant,,ENST00000367264,;KDM5B,intron_variant,,ENST00000235790,;KDM5B,downstream_gene_variant,,ENST00000470573,;KDM5B,downstream_gene_variant,,ENST00000467487,;KDM5B,intron_variant,,ENST00000602511,;"	"-"	"ENSG00000117139"	"ENST00000367265"	"Transcript"	"intron_variant"	"-/7438"	"-/4635"	"-/1544"	""	""	"rs66904265"	"1"	NA	-1	"KDM5B"	"HGNC"	18039	"protein_coding"	"YES"	"CCDS30974.1"	"ENSP00000356234"	"Q9UGL1"	"Q9UIW7,Q9UFD3,Q9UFC7,Q9NSZ7,Q6UGB8,B3KV94,B3KMS8,B3KMS2"	"UPI0000032AA2"	"NM_006618.3"	NA	NA	""	"4/26"	""	"-:0.1492"	"-:0.0424"	"-:0.2147"	NA	"-:0.1786"	"-:0.2197"	"-:0.1442"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAA"	"5a64bbe4-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"310"	"KLHL12"	59349	"mskcc.org"	"GRCh37"	"1"	202862220	202862221	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs149277577"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1580+146dupT"	""	""	"ENST00000367261"	""	14	"."	6	5	"."	0	"KLHL12,intron_variant,,ENST00000367261,NM_021633.2;KLHL12,intron_variant,,ENST00000367259,;KLHL12,intron_variant,,ENST00000435533,;RABIF,upstream_gene_variant,,ENST00000367262,NM_002871.4;"	"A"	"ENSG00000117153"	"ENST00000367261"	"Transcript"	"intron_variant"	"-/3359"	"-/1707"	"-/568"	""	""	"rs149277577"	"1"	NA	-1	"KLHL12"	"HGNC"	19360	"protein_coding"	"YES"	"CCDS1429.1"	"ENSP00000356230"	"Q53G59"	""	"UPI000006EE6A"	"NM_021633.2"	NA	NA	""	"11/11"	""	"A:0.2286"	"A:0.0295"	"A:0.3112"	NA	"A:0.4177"	"A:0.2018"	"A:0.272"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7ea2db9e-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"311"	"PRELP"	5549	"mskcc.org"	"GRCh37"	"1"	203455441	203455442	"+"	"Intron"	"DEL"	"GG"	"GG"	"-"	"rs34760783"	NA	"JHCCPT1"	"JHCCPN1"	"GG"	"GG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.974-392_974-391delGG"	""	""	"ENST00000343110"	""	12	"."	5	2	"."	0	"PRELP,intron_variant,,ENST00000343110,NM_201348.1,NM_002725.3;"	"-"	"ENSG00000188783"	"ENST00000343110"	"Transcript"	"intron_variant"	"-/5747"	"-/1149"	"-/382"	""	""	"rs34760783"	"1"	NA	1	"PRELP"	"HGNC"	9357	"protein_coding"	"YES"	"CCDS1438.1"	"ENSP00000343924"	"P51888"	"Q7Z4B2"	"UPI000013222E"	"NM_201348.1,NM_002725.3"	NA	NA	""	"2/2"	""	"GG:0.3307"	"-:0.7746"	"-:0.6441"	NA	"-:0.7718"	"-:0.5219"	"-:0.591"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGGG"	"5abe4eac-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"312"	"ENSR00001040762"	0	"mskcc.org"	"GRCh37"	"1"	203576411	203576412	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs35555402"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001040762"	""	6	"."	4	1	"."	0	""	"A"	""	"ENSR00001040762"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs35555402"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3295"	"A:0.2126"	"A:0.4611"	NA	"A:0.129"	"A:0.5507"	"A:0.3732"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7ec62252-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"313"	"NFASC"	23114	"mskcc.org"	"GRCh37"	"1"	204941545	204941545	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs138329751"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1136-857delA"	""	""	"ENST00000339876"	""	13	"."	3	4	"."	0	"NFASC,intron_variant,,ENST00000367172,;NFASC,intron_variant,,ENST00000367171,;NFASC,intron_variant,,ENST00000367170,;NFASC,intron_variant,,ENST00000338515,;NFASC,intron_variant,,ENST00000339876,NM_001005388.2;NFASC,intron_variant,,ENST00000338586,;NFASC,intron_variant,,ENST00000401399,;NFASC,intron_variant,,ENST00000539706,NM_001160332.1;NFASC,intron_variant,,ENST00000360049,NM_015090.3;NFASC,intron_variant,,ENST00000367169,;NFASC,intron_variant,,ENST00000404076,;NFASC,intron_variant,,ENST00000404907,;NFASC,intron_variant,,ENST00000430393,NM_001160331.1;NFASC,intron_variant,,ENST00000367173,;NFASC,intron_variant,,ENST00000513543,;NFASC,intron_variant,,ENST00000403080,NM_001005389.1,NM_001160333.1;NFASC,downstream_gene_variant,,ENST00000446412,;NFASC,intron_variant,,ENST00000404977,;NFASC,downstream_gene_variant,,ENST00000504149,;NFASC,intron_variant,,ENST00000512826,;NFASC,intron_variant,,ENST00000504476,;NFASC,intron_variant,,ENST00000514644,;"	"-"	"ENSG00000163531"	"ENST00000339876"	"Transcript"	"intron_variant"	"-/10333"	"-/3723"	"-/1240"	""	""	"rs138329751"	"1"	NA	1	"NFASC"	"HGNC"	29866	"protein_coding"	"YES"	"CCDS53460.1"	"ENSP00000344786"	"O94856"	"D6RHX4"	"UPI0000237208"	"NM_001005388.2"	NA	NA	""	"11/29"	""	"-:0.0515"	"-:0.0068"	"-:0.0677"	NA	"-:0.001"	"-:0.1034"	"-:0.0992"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"5b2071ae-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"314"	"TMCC2"	9911	"mskcc.org"	"GRCh37"	"1"	205212665	205212668	"+"	"Intron"	"DEL"	"AGTC"	"AGTC"	"-"	"rs557811932"	NA	"JHCCPT1"	"JHCCPN1"	"AGTC"	"AGTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.747+1495_747+1498delTCAG"	""	""	"ENST00000358024"	""	11	"."	6	1	"."	0	"TMCC2,intron_variant,,ENST00000358024,NM_014858.3;TMCC2,intron_variant,,ENST00000545499,NM_001242925.1;TMCC2,upstream_gene_variant,,ENST00000330675,;TMCC2,upstream_gene_variant,,ENST00000367159,;TMCC2,intron_variant,,ENST00000495538,;"	"-"	"ENSG00000133069"	"ENST00000358024"	"Transcript"	"intron_variant"	"-/3738"	"-/2130"	"-/709"	""	""	"rs557811932"	"1"	NA	1	"TMCC2"	"HGNC"	24239	"protein_coding"	"YES"	"CCDS30984.1"	"ENSP00000350718"	"O75069"	""	"UPI00002056FC"	"NM_014858.3"	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGTCA"	"5b355a38-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"315"	"MIR135B"	442891	"mskcc.org"	"GRCh37"	"1"	205418745	205418746	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs113645887"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000362189"	""	14	"."	7	5	"."	0	"LEMD1,intron_variant,,ENST00000367154,;MIR135B,upstream_gene_variant,,ENST00000362189,;LEMD1,intron_variant,,ENST00000495594,;"	"C"	"ENSG00000199059"	"ENST00000362189"	"Transcript"	"upstream_gene_variant"	"-/97"	""	""	""	""	"rs113645887"	"1"	"1219"	-1	"MIR135B"	"HGNC"	31760	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.0601"	"C:0.093"	"C:0.0778"	NA	"C:0"	"C:0.0994"	"C:0.0245"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"7f2c7f02-2764-11e6-8bcb-94fe414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"316"	"RP11-576D8.4"	284577	"mskcc.org"	"GRCh37"	"1"	205441500	205441501	"+"	"3'Flank"	"INS"	"-"	"AAAC"	"AAAC"	"rs35943023"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000442318"	""	10	"."	7	3	"."	0	"RP11-576D8.4,downstream_gene_variant,,ENST00000442318,;"	"AAAC"	"ENSG00000224717"	"ENST00000442318"	"Transcript"	"downstream_gene_variant"	"-/2885"	""	""	""	""	"rs35943023"	"1"	"3348"	1	"RP11-576D8.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3996"	"AAAC:0.2655"	"AAAC:0.6916"	NA	"AAAC:0.7381"	"AAAC:0.6501"	"AAAC:0.7955"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7f2f2afe-2764-11e6-8bcb-94fe414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"317"	"MFSD4"	148808	"mskcc.org"	"GRCh37"	"1"	205538602	205538603	"+"	"Intron"	"INS"	"-"	"-"	"CCTC"	"rs149229181"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.230+194_230+197dupTCCC"	""	""	"ENST00000367147"	""	22	"."	3	8	"."	0	"MFSD4,intron_variant,,ENST00000367147,NM_181644.4;MFSD4,intron_variant,,ENST00000539267,;MFSD4,intron_variant,,ENST00000536357,;RNU2-19P,downstream_gene_variant,,ENST00000517288,;MFSD4,intron_variant,,ENST00000489709,;MFSD4,intron_variant,,ENST00000475956,;"	"CCTC"	"ENSG00000174514"	"ENST00000367147"	"Transcript"	"intron_variant"	"-/4095"	"-/1545"	"-/514"	""	""	"rs149229181"	"1"	NA	1	"MFSD4"	"HGNC"	25433	"protein_coding"	"YES"	"CCDS1455.1"	"ENSP00000356115"	"Q8N468"	""	"UPI000019855C"	"NM_181644.4"	NA	NA	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"22"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"7f32b6d8-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"318"	"C1orf147"	0	"mskcc.org"	"GRCh37"	"1"	206670258	206670259	"+"	"Intron"	"INS"	"-"	"-"	"GGAA"	"rs10649865"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.124+668_124+669insTTCC"	""	""	"ENST00000367119"	""	10	"."	4	2	"."	0	"C1orf147,intron_variant,,ENST00000367119,;IKBKE,downstream_gene_variant,,ENST00000367120,NM_014002.3,NM_001193322.1;IKBKE,downstream_gene_variant,,ENST00000537984,NM_001193321.1;"	"GGAA"	"ENSG00000162888"	"ENST00000367119"	"Transcript"	"intron_variant"	"-/2096"	"-/813"	"-/270"	""	""	"rs10649865"	"1"	NA	-1	"C1orf147"	"HGNC"	32061	"protein_coding"	"YES"	""	"ENSP00000356086"	"Q96MC9"	""	"UPI000013E1EB"	""	NA	NA	""	"1/1"	""	"-:0.4377"	"GGAA:0.7572"	"GGAA:0.4712"	NA	"GGAA:0.3423"	"GGAA:0.5288"	"GGAA:0.6247"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7f4cc6ae-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"319"	"FAIM3"	9214	"mskcc.org"	"GRCh37"	"1"	207087656	207087667	"+"	"Intron"	"DEL"	"TTCCTTCCTTCC"	"TTCCTTCCTTCC"	"-"	"rs201353406"	NA	"JHCCPT1"	"JHCCPN1"	"TTCCTTCCTTCC"	"TTCCTTCCTTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.38-228_38-217delGGAAGGAAGGAA"	""	""	"ENST00000367091"	""	30	"."	3	16	"."	0	"FAIM3,intron_variant,,ENST00000367091,NM_005449.4;FAIM3,intron_variant,,ENST00000442471,NM_001142473.1;FAIM3,intron_variant,,ENST00000420007,NM_001193338.1;FAIM3,intron_variant,,ENST00000525793,;FAIM3,intron_variant,,ENST00000529560,;FAIM3,intron_variant,,ENST00000530505,;FAIM3,intron_variant,,ENST00000528654,;FAIM3,intron_variant,,ENST00000463473,;FAIM3,intron_variant,,ENST00000533312,;FAIM3,upstream_gene_variant,,ENST00000474041,;"	"-"	"ENSG00000162894"	"ENST00000367091"	"Transcript"	"intron_variant"	"-/1950"	"-/1173"	"-/390"	""	""	"rs201353406"	"1"	NA	-1	"FAIM3"	"HGNC"	14315	"protein_coding"	"YES"	"CCDS1473.1"	"ENSP00000356058"	"O60667"	"E9PN59,E9PMT7"	"UPI0000070F7A"	"NM_005449.4"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTCCTTCCTTCCT"	"5bc6f3e4-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WXS"	FALSE
"320"	"CD34"	947	"mskcc.org"	"GRCh37"	"1"	208059768	208059769	"+"	"3'Flank"	"INS"	"-"	"-"	"CAA"	"rs3043877"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000310833"	""	7	"."	3	1	"."	0	"CD34,downstream_gene_variant,,ENST00000356522,NM_001773.2;CD34,downstream_gene_variant,,ENST00000310833,NM_001025109.1;CD34,downstream_gene_variant,,ENST00000367036,;CD34,downstream_gene_variant,,ENST00000537704,;CD34,intron_variant,,ENST00000485761,;"	"CAA"	"ENSG00000174059"	"ENST00000310833"	"Transcript"	"downstream_gene_variant"	"-/2679"	"-/1158"	"-/385"	""	""	"rs3043877"	"1"	"115"	-1	"CD34"	"HGNC"	1662	"protein_coding"	"YES"	"CCDS31011.1"	"ENSP00000310036"	"P28906"	"Q9UH97,Q8IUM0,B4DUX4"	"UPI000012734B"	"NM_001025109.1"	NA	NA	""	""	""	"CAA:0.4872"	"CAA:0.382"	"CAA:0.3818"	NA	"CAA:0.8125"	"CAA:0.2913"	"CAA:0.5706"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7f8fecae-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"321"	"BATF3"	55509	"mskcc.org"	"GRCh37"	"1"	212869935	212869936	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs34930975"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.195+367dupA"	""	""	"ENST00000243440"	""	14	"."	3	2	"."	0	"BATF3,intron_variant,,ENST00000243440,NM_018664.2;RNU6-423P,downstream_gene_variant,,ENST00000384760,;BATF3,intron_variant,,ENST00000478275,;"	"T"	"ENSG00000123685"	"ENST00000243440"	"Transcript"	"intron_variant"	"-/980"	"-/384"	"-/127"	""	""	"rs34930975"	"1"	NA	-1	"BATF3"	"HGNC"	28915	"protein_coding"	"YES"	"CCDS1508.1"	"ENSP00000243440"	"Q9NR55"	""	"UPI000006F080"	"NM_018664.2"	NA	NA	""	"2/2"	""	"T:0.1987"	"T:0.1218"	"T:0.1455"	NA	"T:0.2371"	"T:0.2714"	"T:0.226"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"803518e6-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"322"	"ESRRG"	2104	"mskcc.org"	"GRCh37"	"1"	216684889	216684890	"+"	"Intron"	"INS"	"-"	"-"	"CACACACACACA"	"rs139471180"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1169-4376_1169-4365dupTGTGTGTGTGTG"	""	""	"ENST00000366937"	""	14	"."	3	2	"."	0	"ESRRG,intron_variant,,ENST00000391890,NM_001243515.1,NM_001243519.1;ESRRG,intron_variant,,ENST00000360012,NM_001243514.1;ESRRG,intron_variant,,ENST00000366937,NM_001243518.1;ESRRG,intron_variant,,ENST00000361525,NM_206594.2,NM_001243505.1;ESRRG,intron_variant,,ENST00000366940,NM_001134285.2;ESRRG,intron_variant,,ENST00000493603,;ESRRG,intron_variant,,ENST00000366938,NM_001243513.1;ESRRG,intron_variant,,ENST00000361395,NM_001243510.1;ESRRG,intron_variant,,ENST00000408911,NM_001438.3;ESRRG,intron_variant,,ENST00000359162,NM_001243506.1,NM_001243511.1,NM_206595.2;ESRRG,intron_variant,,ENST00000463665,NM_001243507.1;ESRRG,intron_variant,,ENST00000487276,NM_001243512.1;ESRRG,intron_variant,,ENST00000493748,NM_001243509.1;"	"CACACACACACA"	"ENSG00000196482"	"ENST00000366937"	"Transcript"	"intron_variant"	"-/5365"	"-/1413"	"-/470"	""	""	"rs139471180"	"1"	NA	-1	"ESRRG"	"HGNC"	3474	"protein_coding"	"YES"	"CCDS58061.1"	"ENSP00000355904"	"P62508"	"C9JNX5,C9J5W9,C9J0E3"	"UPI0000D4BFAB"	"NM_001243518.1"	NA	NA	""	"7/7"	""	"-:0.4054"	"CACACACACACA:0.5946"	"CACACACACACA:0.5692"	NA	"CACACACACACA:0.6637"	"CACACACACACA:0.5258"	"CACACACACACA:0.6125"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"8083dbc0-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"323"	"ESRRG"	2104	"mskcc.org"	"GRCh37"	"1"	217312569	217312569	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"rs35166661"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366940"	""	8	"."	5	1	"."	0	"ESRRG,upstream_gene_variant,,ENST00000366940,NM_001134285.2;ESRRG,upstream_gene_variant,,ENST00000493603,;"	"-"	"ENSG00000196482"	"ENST00000366940"	"Transcript"	"upstream_gene_variant"	"-/5312"	"-/1308"	"-/435"	""	""	"rs35166661"	"1"	"1472"	-1	"ESRRG"	"HGNC"	3474	"protein_coding"	""	"CCDS1517.1"	"ENSP00000355907"	"P62508"	"F1D8R6,C9JU32,C9JNX5,C9J5W9,C9J0E3,B7Z5E9"	"UPI00000040CB"	"NM_001134285.2"	NA	NA	""	""	""	"-:0.4271"	"-:0.1566"	"-:0.4553"	NA	"-:0.6607"	"-:0.5408"	"-:0.4151"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGG"	"5de8083e-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"324"	"MARK1"	4139	"mskcc.org"	"GRCh37"	"1"	220789356	220789356	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs67564055"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.552+25delT"	""	""	"ENST00000366917"	""	54	"."	4	34	"."	0	"MARK1,intron_variant,,ENST00000402574,NM_018650.3,NM_001286126.1;MARK1,intron_variant,,ENST00000366918,NM_001286128.1;MARK1,intron_variant,,ENST00000366917,NM_001286124.1;"	"-"	"ENSG00000116141"	"ENST00000366917"	"Transcript"	"intron_variant"	"-/2946"	"-/2388"	"-/795"	""	""	"rs67564055"	"1"	NA	1	"MARK1"	"HGNC"	6896	"protein_coding"	"YES"	"CCDS31029.2"	"ENSP00000355884"	"Q9P0L2"	"B4DIB3"	"UPI0000048D8B"	"NM_001286124.1"	NA	NA	""	"7/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	"0.2852"	"0.08426"	"0.4217"	"0.3999"	"0.3129"	"0.3091"	"0.34"	"0.255"	NA	"common_variant"	"AATT"	"5e581ebc-2764-11e6-8bcb-94fe414a729f"	"240"	0.3027	"24910/82294"	"30251/106076"	"548/6504"	"3905/9260"	"2570/6426"	"1566/5004"	"12703/41094"	"187/550"	"3431/13456"	"PASS"	"FALSE"	0.0740740740740741	"WXS"	FALSE
"325"	"MARK1"	4139	"mskcc.org"	"GRCh37"	"1"	220808685	220808685	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs758549262"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1123-33delG"	""	""	"ENST00000366917"	""	103	"."	4	55	"."	0	"MARK1,intron_variant,,ENST00000402574,NM_018650.3,NM_001286126.1;MARK1,intron_variant,,ENST00000366918,NM_001286128.1;MARK1,intron_variant,,ENST00000366917,NM_001286124.1;"	"-"	"ENSG00000116141"	"ENST00000366917"	"Transcript"	"intron_variant"	"-/2946"	"-/2388"	"-/795"	""	""	"rs758549262"	"1"	NA	1	"MARK1"	"HGNC"	6896	"protein_coding"	"YES"	"CCDS31029.2"	"ENSP00000355884"	"Q9P0L2"	"B4DIB3"	"UPI0000048D8B"	"NM_001286124.1"	NA	NA	""	"11/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.001403"	"0.002509"	"0.002007"	"0.00468"	"0.002567"	"0.0016"	"0.002688"	"0.002399"	NA	"common_variant"	"TTGC"	"5e5c36a0-2764-11e6-8bcb-94fe414a729f"	"240"	0.00213	"119/55872"	"147/104752"	"13/5182"	"11/5480"	"19/4060"	"10/3896"	"47/29380"	"1/372"	"18/7502"	"VQSRTrancheINDEL99.00to99.50"	"FALSE"	0.0388349514563107	"WXS"	FALSE
"326"	"CICP13"	0	"mskcc.org"	"GRCh37"	"1"	222642757	222642759	"+"	"RNA"	"DEL"	"ACT"	"ACT"	"-"	"rs558419434"	NA	"JHCCPT1"	"JHCCPN1"	"ACT"	"ACT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1322_1324delACT"	""	""	"ENST00000422015"	"1/1"	57	"."	5	36	"."	0	"CICP13,non_coding_transcript_exon_variant,,ENST00000422015,;"	"-"	"ENSG00000234419"	"ENST00000422015"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1322-1324/2789"	""	""	""	""	"rs558419434"	"1"	NA	1	"CICP13"	"HGNC"	37907	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCACTG"	"5e7dfc90-2764-11e6-8bcb-94fe414a729f"	"117"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087719298245614	"WXS"	FALSE
"327"	"HHIPL2"	79802	"mskcc.org"	"GRCh37"	"1"	222715730	222715731	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs34372615"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.975-234_975-233delCT"	""	""	"ENST00000343410"	""	27	"."	3	11	"."	0	"HHIPL2,intron_variant,,ENST00000343410,NM_024746.3;HHIPL2,upstream_gene_variant,,ENST00000468172,;HHIPL2,upstream_gene_variant,,ENST00000494899,;"	"-"	"ENSG00000143512"	"ENST00000343410"	"Transcript"	"intron_variant"	"-/2575"	"-/2175"	"-/724"	""	""	"rs34372615"	"1"	NA	-1	"HHIPL2"	"HGNC"	25842	"protein_coding"	"YES"	"CCDS1530.2"	"ENSP00000342118"	"Q6UWX4"	""	"UPI000004C60D"	"NM_024746.3"	NA	NA	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGA"	"5e85a8dc-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WXS"	FALSE
"328"	"RP11-365O16.3"	101927143	"mskcc.org"	"GRCh37"	"1"	224392822	224393134	"+"	"3'Flank"	"DEL"	"GACTTGGCTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCCGTCACCCAGGCTGGAGTGCAGTGGCGGGATCTCGGCTCACTGCAAGCTCCGCCTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCCCGCCACCACGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCGTGTTAGCCGGGATGGTCTCGATCTCCTGACCTCGTGATCCGCCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCC"	"-"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GACTTGGCTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCCGTCACCCAGGCTGGAGTGCAGTGGCGGGATCTCGGCTCACTGCAAGCTCCGCCTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCCCGCCACCACGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCGTGTTAGCCGGGATGGTCTCGATCTCCTGACCTCGTGATCCGCCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCC"	"GACTTGGCTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCCGTCACCCAGGCTGGAGTGCAGTGGCGGGATCTCGGCTCACTGCAAGCTCCGCCTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCCCGCCACCACGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCGTGTTAGCCGGGATGGTCTCGATCTCCTGACCTCGTGATCCGCCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000436706"	""	6	"."	5	1	"."	0	"RP11-365O16.3,downstream_gene_variant,,ENST00000436706,;RP11-365O16.3,downstream_gene_variant,,ENST00000453760,;"	"-"	"ENSG00000232628"	"ENST00000436706"	"Transcript"	"downstream_gene_variant"	"-/790"	""	""	""	""	""	"1"	"3315"	-1	"RP11-365O16.3"	"Clone_based_vega_gene"	NA	"sense_intronic"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGACTTGGCTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCCGTCACCCAGGCTGGAGTGCAGTGGCGGGATCTCGGCTCACTGCAAGCTCCGCCTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCCCGCCACCACGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCGTGTTAGCCGGGATGGTCTCGATCTCCTGACCTCGTGATCCGCCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCG"	"5edd1a22-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"329"	"NVL"	4931	"mskcc.org"	"GRCh37"	"1"	224505820	224505821	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs34742466"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.132-189dupA"	""	""	"ENST00000281701"	""	14	"."	10	2	"."	0	"NVL,intron_variant,,ENST00000281701,NM_002533.3;NVL,intron_variant,,ENST00000391875,NM_206840.2;NVL,intron_variant,,ENST00000469075,NM_001243147.1;NVL,intron_variant,,ENST00000469968,;NVL,intron_variant,,ENST00000482491,;NVL,intron_variant,,ENST00000340871,NM_001243146.1;NVL,intron_variant,,ENST00000361463,;NVL,intron_variant,,ENST00000436927,;NVL,intron_variant,,ENST00000461546,;NVL,intron_variant,,ENST00000488718,;NVL,intron_variant,,ENST00000492281,;NVL,intron_variant,,ENST00000468673,;NVL,intron_variant,,ENST00000461466,;NVL,intron_variant,,ENST00000487758,;NVL,intron_variant,,ENST00000470903,;NVL,intron_variant,,ENST00000468088,;NVL,intron_variant,,ENST00000467882,;NVL,intron_variant,,ENST00000470989,;"	"T"	"ENSG00000143748"	"ENST00000281701"	"Transcript"	"intron_variant"	"-/3123"	"-/2571"	"-/856"	""	""	"rs34742466"	"1"	NA	-1	"NVL"	"HGNC"	8070	"protein_coding"	"YES"	"CCDS1541.1"	"ENSP00000281701"	"O15381"	"Q96PA2"	"UPI0000073F3E"	"NM_002533.3"	NA	NA	""	"2/22"	""	"-:0.0022"	"T:0.997"	"T:0.9971"	NA	"T:1"	"T:0.998"	"T:0.9969"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"812f4ac8-2764-11e6-8bcb-94fe414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"330"	"RNF187"	149603	"mskcc.org"	"GRCh37"	"1"	228671692	228671693	"+"	"5'Flank"	"INS"	"-"	"-"	"TCTTTTTC"	"rs112799416"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000305943"	""	16	"."	4	4	"."	0	"RNF187,upstream_gene_variant,,ENST00000305943,NM_001010858.2;RNF187,upstream_gene_variant,,ENST00000482739,;RNF187,upstream_gene_variant,,ENST00000484293,;"	"TCTTTTTC"	"ENSG00000168159"	"ENST00000305943"	"Transcript"	"upstream_gene_variant"	"-/3017"	"-/381"	"-/126"	""	""	"rs112799416"	"1"	"3069"	1	"RNF187"	"HGNC"	27146	"protein_coding"	"YES"	""	"ENSP00000306396"	"Q5TA31"	""	"UPI0000470B86"	"NM_001010858.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"82177c94-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"331"	"TMEM78"	0	"mskcc.org"	"GRCh37"	"1"	229385897	229385898	"+"	"3'UTR"	"INS"	"-"	"-"	"GTGTGT"	"rs71561727"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*64_*69dupGTGTGT"	""	""	"ENST00000323223"	"1/1"	14	"."	5	9	"."	0	"TMEM78,3_prime_UTR_variant,,ENST00000323223,;"	"GTGTGT"	"ENSG00000177800"	"ENST00000323223"	"Transcript"	"3_prime_UTR_variant"	"515-516/2175"	"-/411"	"-/136"	""	""	"rs71561727"	"1"	NA	1	"TMEM78"	"HGNC"	32307	"protein_coding"	"YES"	""	"ENSP00000324799"	"Q5T7P6"	""	"UPI0000141045"	""	NA	NA	"1/1"	""	""	"GTGTGTGTGT:0.3712"	"GTGTGTGTGT:0.3865"	"GTGTGTGTGT:0.4352"	NA	"GTGTGTGTGT:0.3363"	"GTGTGTGTGT:0.4175"	"GTGTGTGTGT:0.2935"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"24"	NA	"1"	"0.008379"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	NA	"PASS"	"GCG"	"822388f4-2764-11e6-8bcb-94fe414a729f"	"300"	0	"0/0"	"55/6564"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"AC_Adj0_Filter"	"FALSE"	0.357142857142857	"WXS"	FALSE
"332"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	230713636	230713637	"+"	"IGR"	"INS"	"-"	"-"	"CTCCTTCTTCCCCTTCCCCTTCCCCTTCTCCTTCTT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	24	"."	3	7	"."	0	""	"CTCCTTCTTCCCCTTCCCCTTCCCCTTCTCCTTCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"8246b41e-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"333"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	231204823	231204834	"+"	"IGR"	"DEL"	"TTTGTTTGTTTG"	"TTTGTTTGTTTG"	"-"	"rs148404048"	NA	"JHCCPT1"	"JHCCPN1"	"TTTGTTTGTTTG"	"TTTGTTTGTTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148404048"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTGTTTGTTTGT"	"60a0da10-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"334"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	232983580	232983581	"+"	"IGR"	"DEL"	"AG"	"AG"	"-"	"rs10616810"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10616810"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4904"	"-:0.1702"	"-:0.6023"	NA	"-:0.4534"	"-:0.673"	"-:0.6943"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGT"	"60d09890-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"335"	"PCNXL2"	80003	"mskcc.org"	"GRCh37"	"1"	233296399	233296400	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs35864442"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3367-221_3367-220insC"	""	""	"ENST00000258229"	""	9	"."	7	5	"."	0	"PCNXL2,intron_variant,,ENST00000258229,NM_014801.3;PCNXL2,intron_variant,,ENST00000488780,;PCNXL2,upstream_gene_variant,,ENST00000484347,;PCNXL2,intron_variant,,ENST00000467336,;PCNXL2,intron_variant,,ENST00000496510,;PCNXL2,upstream_gene_variant,,ENST00000520463,;PCNXL2,intron_variant,,ENST00000462233,;PCNXL2,intron_variant,,ENST00000475463,;PCNXL2,intron_variant,,ENST00000486012,;PCNXL2,intron_variant,,ENST00000498302,;"	"G"	"ENSG00000135749"	"ENST00000258229"	"Transcript"	"intron_variant"	"-/7518"	"-/6414"	"-/2137"	""	""	"rs35864442"	"1"	NA	-1	"PCNXL2"	"HGNC"	8736	"protein_coding"	"YES"	"CCDS44335.1"	"ENSP00000258229"	"A6NKB5"	"B3KNZ5"	"UPI0000F58F23"	"NM_014801.3"	NA	NA	""	"18/33"	""	"-:0.3181"	"G:0.6104"	"G:0.6484"	NA	"G:0.7401"	"G:0.6958"	"G:0.728"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"8271451c-2764-11e6-8bcb-94fe414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	FALSE
"336"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	233937130	233937131	"+"	"IGR"	"INS"	"-"	"-"	"CCAC"	"rs142012979"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"CCAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142012979"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CCAC:0.1801"	"CCAC:0.3056"	"CCAC:0.121"	NA	"CCAC:0.0903"	"CCAC:0.1581"	"CCAC:0.1677"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"8284ce48-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"337"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	233958136	233958137	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs59732868"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs59732868"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"8285d306-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"338"	"EDARADD"	128178	"mskcc.org"	"GRCh37"	"1"	236557311	236557312	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs34738771"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000334232"	""	9	"."	3	3	"."	0	"EDARADD,intron_variant,,ENST00000439430,;EDARADD,upstream_gene_variant,,ENST00000359362,NM_080738.3;EDARADD,upstream_gene_variant,,ENST00000334232,NM_145861.2;"	"C"	"ENSG00000186197"	"ENST00000334232"	"Transcript"	"upstream_gene_variant"	"-/858"	"-/648"	"-/215"	""	""	"rs34738771"	"1"	"266"	1	"EDARADD"	"HGNC"	14341	"protein_coding"	"YES"	"CCDS1610.1"	"ENSP00000335076"	"Q8WWZ3"	"B1AL55"	"UPI0000456324"	"NM_145861.2"	NA	NA	""	""	""	"-:0.2035"	"C:0.5393"	"C:0.8718"	NA	"C:0.9177"	"C:0.825"	"C:0.9366"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAC"	"82d5537c-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"339"	"LGALS8"	3964	"mskcc.org"	"GRCh37"	"1"	236714710	236714710	"+"	"3'UTR"	"DEL"	"C"	"C"	"-"	"rs3835675"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*3249delC"	""	""	"ENST00000526589"	"14/14"	6	"."	4	1	"."	0	"LGALS8,3_prime_UTR_variant,,ENST00000526589,;HEATR1,intron_variant,,ENST00000366582,NM_018072.5;HEATR1,intron_variant,,ENST00000366581,;LGALS8,downstream_gene_variant,,ENST00000366584,NM_201544.2;LGALS8,downstream_gene_variant,,ENST00000450372,NM_006499.4;LGALS8,downstream_gene_variant,,ENST00000341872,NM_201543.2;LGALS8,downstream_gene_variant,,ENST00000323938,;LGALS8,downstream_gene_variant,,ENST00000526634,;LGALS8,downstream_gene_variant,,ENST00000352231,NM_201545.2;LGALS8,downstream_gene_variant,,ENST00000527974,;LGALS8,downstream_gene_variant,,ENST00000416919,;LGALS8,downstream_gene_variant,,ENST00000525042,;RP11-385F5.4,upstream_gene_variant,,ENST00000433131,;LGALS8,downstream_gene_variant,,ENST00000489586,;LGALS8,downstream_gene_variant,,ENST00000528259,;"	"-"	"ENSG00000116977"	"ENST00000526589"	"Transcript"	"3_prime_UTR_variant"	"4849/6420"	"-/1080"	"-/359"	""	""	"rs3835675"	"1"	NA	1	"LGALS8"	"HGNC"	6569	"protein_coding"	"YES"	"CCDS1611.1"	"ENSP00000435460"	"O00214"	"Q5T3P9,E9PPL1,E9PJ77,B1ANM0"	"UPI0000169CE4"	""	NA	NA	"14/14"	""	""	"-:0.4972"	"-:0.4334"	"-:0.5086"	NA	"-:0.4772"	"-:0.6759"	"-:0.4121"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCT"	"61cf7c66-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"340"	"ACTN2"	88	"mskcc.org"	"GRCh37"	"1"	236888936	236888937	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs5781923"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.449-290dupA"	""	""	"ENST00000366578"	""	17	"."	4	5	"."	0	"ACTN2,intron_variant,,ENST00000366578,NM_001278344.1,NM_001103.3;ACTN2,intron_variant,,ENST00000542672,NM_001278343.1;ACTN2,intron_variant,,ENST00000492634,;"	"A"	"ENSG00000077522"	"ENST00000366578"	"Transcript"	"intron_variant"	"-/4863"	"-/2685"	"-/894"	""	""	"rs5781923"	"1"	NA	1	"ACTN2"	"HGNC"	164	"protein_coding"	"YES"	"CCDS1613.1"	"ENSP00000355537"	"P35609"	"B7Z4P8"	"UPI0000125088"	"NM_001278344.1,NM_001103.3"	NA	NA	""	"4/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"833424ce-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"341"	"MTR"	4548	"mskcc.org"	"GRCh37"	"1"	236990576	236990576	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35840272"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.995+380delT"	""	""	"ENST00000366577"	""	9	"."	3	4	"."	0	"MTR,intron_variant,,ENST00000366577,NM_000254.2;MTR,intron_variant,,ENST00000535889,;MTR,intron_variant,,ENST00000463959,;"	"-"	"ENSG00000116984"	"ENST00000366577"	"Transcript"	"intron_variant"	"-/10529"	"-/3798"	"-/1265"	""	""	"rs35840272"	"1"	NA	1	"MTR"	"HGNC"	7468	"protein_coding"	"YES"	"CCDS1614.1"	"ENSP00000355536"	"Q99707"	""	"UPI0000036BC4"	"NM_000254.2"	NA	NA	""	"11/32"	""	"-:0.3139"	"-:0.1513"	"-:0.4366"	NA	"-:0.3889"	"-:0.3857"	"-:0.2955"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTG"	"621b5ad2-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"342"	"MTR"	4548	"mskcc.org"	"GRCh37"	"1"	237023370	237023377	"+"	"Intron"	"DEL"	"CCCCCCCC"	"CCCCCCCC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CCCCCCCC"	"CCCCCCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2043+161_2043+168delCCCCCCCC"	""	""	"ENST00000366577"	""	29	"."	3	11	"."	0	"MTR,intron_variant,,ENST00000366577,NM_000254.2;MTR,intron_variant,,ENST00000366576,;MTR,intron_variant,,ENST00000535889,;"	"-"	"ENSG00000116984"	"ENST00000366577"	"Transcript"	"intron_variant"	"-/10529"	"-/3798"	"-/1265"	""	""	""	"1"	NA	1	"MTR"	"HGNC"	7468	"protein_coding"	"YES"	"CCDS1614.1"	"ENSP00000355536"	"Q99707"	""	"UPI0000036BC4"	"NM_000254.2"	NA	NA	""	"19/32"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"13"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGCCCCCCCCC"	"622a4038-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WXS"	FALSE
"343"	"FMN2"	56776	"mskcc.org"	"GRCh37"	"1"	240497950	240497951	"+"	"Intron"	"INS"	"-"	"-"	"TCT"	"rs10638898"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4765+425_4765+427dupTCT"	""	""	"ENST00000319653"	""	7	"."	3	2	"."	0	"FMN2,intron_variant,,ENST00000319653,NM_020066.4;FMN2,intron_variant,,ENST00000545751,;FMN2,downstream_gene_variant,,ENST00000463398,;"	"TCT"	"ENSG00000155816"	"ENST00000319653"	"Transcript"	"intron_variant"	"-/6434"	"-/5169"	"-/1722"	""	""	"rs10638898"	"1"	NA	1	"FMN2"	"HGNC"	14074	"protein_coding"	"YES"	"CCDS31069.2"	"ENSP00000318884"	"Q9NZ56"	"Q96L17,B4DN09"	"UPI00015FA087"	"NM_020066.4"	NA	NA	""	"13/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"83dedf72-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"344"	"KMO"	8564	"mskcc.org"	"GRCh37"	"1"	241715497	241715500	"+"	"Intron"	"DEL"	"AGAA"	"AGAA"	"-"	"rs72201748"	NA	"JHCCPT1"	"JHCCPN1"	"AGAA"	"AGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.312+1156_312+1159delAAGA"	""	""	"ENST00000366559"	""	7	"."	3	3	"."	0	"KMO,intron_variant,,ENST00000366559,NM_003679.4;KMO,intron_variant,,ENST00000366557,;KMO,intron_variant,,ENST00000366558,;KMO,intron_variant,,ENST00000484628,;KMO,intron_variant,,ENST00000480967,;KMO,intron_variant,,ENST00000477907,;KMO,intron_variant,,ENST00000481087,;KMO,downstream_gene_variant,,ENST00000484229,;"	"-"	"ENSG00000117009"	"ENST00000366559"	"Transcript"	"intron_variant"	"-/5261"	"-/1461"	"-/486"	""	""	"rs72201748"	"1"	NA	1	"KMO"	"HGNC"	6381	"protein_coding"	"YES"	"CCDS1618.1"	"ENSP00000355517"	"O15229"	""	"UPI000045632A"	"NM_003679.4"	NA	NA	""	"4/14"	""	"-:0.4675"	"-:0.4864"	"-:0.6095"	NA	"-:0.3482"	"-:0.5447"	"-:0.3845"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGAAA"	"62bc6b66-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"345"	"WDR64"	128025	"mskcc.org"	"GRCh37"	"1"	241920324	241920325	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs147359120"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1741-252_1741-251dupAT"	""	""	"ENST00000366552"	""	24	"."	10	8	"."	0	"WDR64,intron_variant,,ENST00000366552,NM_144625.4;WDR64,intron_variant,,ENST00000437684,;WDR64,intron_variant,,ENST00000414635,;WDR64,intron_variant,,ENST00000425826,;WDR64,intron_variant,,ENST00000468967,;WDR64,intron_variant,,ENST00000472717,;"	"AT"	"ENSG00000162843"	"ENST00000366552"	"Transcript"	"intron_variant"	"-/4371"	"-/3246"	"-/1081"	""	""	"rs147359120"	"1"	NA	1	"WDR64"	"HGNC"	26570	"protein_coding"	"YES"	""	"ENSP00000355510"	"B1ANS9"	"D6RCR1"	"UPI0000519142"	"NM_144625.4"	NA	NA	""	"13/26"	""	"AT:0.1024"	"AT:0.1921"	"AT:0.1196"	NA	"AT:0.003"	"AT:0.1541"	"AT:0.0184"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"8411a54c-2764-11e6-8bcb-94fe414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"346"	"WDR64"	128025	"mskcc.org"	"GRCh37"	"1"	241938881	241938881	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs376739062"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2506+376delA"	""	""	"ENST00000366552"	""	9	"."	6	2	"."	0	"WDR64,intron_variant,,ENST00000366552,NM_144625.4;WDR64,intron_variant,,ENST00000437684,;WDR64,intron_variant,,ENST00000414635,;WDR64,intron_variant,,ENST00000425826,;WDR64,intron_variant,,ENST00000468967,;WDR64,intron_variant,,ENST00000472717,;WDR64,intron_variant,,ENST00000478331,;"	"-"	"ENSG00000162843"	"ENST00000366552"	"Transcript"	"intron_variant"	"-/4371"	"-/3246"	"-/1081"	""	""	"rs376739062"	"1"	NA	1	"WDR64"	"HGNC"	26570	"protein_coding"	"YES"	""	"ENSP00000355510"	"B1ANS9"	"D6RCR1"	"UPI0000519142"	"NM_144625.4"	NA	NA	""	"20/26"	""	"-:0.1294"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"62de75d0-2764-11e6-8bcb-94fe414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"347"	"EXO1"	9156	"mskcc.org"	"GRCh37"	"1"	242023590	242023591	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11372892"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.757-222dupT"	""	""	"ENST00000366548"	""	27	"."	5	10	"."	0	"EXO1,intron_variant,,ENST00000366548,NM_130398.3;EXO1,intron_variant,,ENST00000348581,NM_003686.4,NM_006027.4;EXO1,intron_variant,,ENST00000518483,;EXO1,downstream_gene_variant,,ENST00000423131,;EXO1,downstream_gene_variant,,ENST00000437497,;EXO1,intron_variant,,ENST00000469419,;EXO1,downstream_gene_variant,,ENST00000493702,;"	"T"	"ENSG00000174371"	"ENST00000366548"	"Transcript"	"intron_variant"	"-/3473"	"-/2541"	"-/846"	""	""	"rs11372892"	"1"	NA	1	"EXO1"	"HGNC"	3511	"protein_coding"	"YES"	"CCDS1620.1"	"ENSP00000355506"	"Q9UQ84"	"Q5T399"	"UPI000013DDA8"	"NM_130398.3"	NA	NA	""	"8/15"	""	"-:0.2784"	"TTTTTTTT:0.848"	"TTTTTTTT:0.7046"	NA	"TTTTTTTT:0.8056"	"TTTTTTTT:0.5746"	"TTTTTTTT:0.6278"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"841add10-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WXS"	FALSE
"348"	"C1orf101"	257044	"mskcc.org"	"GRCh37"	"1"	244755326	244755326	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35327273"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2189+300delT"	""	""	"ENST00000366534"	""	23	"."	4	4	"."	0	"C1orf101,intron_variant,,ENST00000366534,NM_001130957.1;C1orf101,intron_variant,,ENST00000366533,NM_173807.4;C1orf101,intron_variant,,ENST00000366531,NM_001242340.1;C1orf101,intron_variant,,ENST00000428042,;AC099757.1,upstream_gene_variant,,ENST00000458882,;C1orf101,intron_variant,,ENST00000473875,;"	"-"	"ENSG00000179397"	"ENST00000366534"	"Transcript"	"intron_variant"	"-/3333"	"-/2856"	"-/951"	""	""	"rs35327273"	"1"	NA	1	"C1orf101"	"HGNC"	28491	"protein_coding"	"YES"	"CCDS44340.1"	"ENSP00000355492"	"Q5SY80"	""	"UPI00004701CD"	"NM_001130957.1"	NA	NA	""	"15/21"	""	"T:0.4383"	"-:0.3956"	"-:0.6225"	NA	"-:0.4772"	"-:0.7694"	"-:0.6166"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"6333ee34-2764-11e6-8bcb-94fe414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"349"	"KIF26B"	55083	"mskcc.org"	"GRCh37"	"1"	245775357	245775370	"+"	"Intron"	"DEL"	"TGTGTGTGTGTGTG"	"TGTGTGTGTGTGTG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TGTGTGTGTGTGTG"	"TGTGTGTGTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2098+117_2098+130delTGTGTGTGTGTGTG"	""	""	"ENST00000407071"	""	41	"."	5	8	"."	0	"KIF26B,intron_variant,,ENST00000366518,;KIF26B,intron_variant,,ENST00000407071,NM_018012.3;RP11-522M21.2,downstream_gene_variant,,ENST00000418402,;"	"-"	"ENSG00000162849"	"ENST00000407071"	"Transcript"	"intron_variant"	"-/7287"	"-/6327"	"-/2108"	""	""	""	"1"	NA	1	"KIF26B"	"HGNC"	25484	"protein_coding"	"YES"	"CCDS44342.1"	"ENSP00000385545"	"Q2KJY2"	"B4DF75"	"UPI0000695D71"	"NM_018012.3"	NA	NA	""	"9/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"38"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGTGTGTGTGTGTGT"	"6378a920-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WXS"	FALSE
"350"	"SMYD3"	64754	"mskcc.org"	"GRCh37"	"1"	246670934	246670947	"+"	"5'Flank"	"DEL"	"TATTGTCGTTAAAC"	"TATTGTCGTTAAAC"	"-"	"rs71993891"	NA	"JHCCPT1"	"JHCCPN1"	"TATTGTCGTTAAAC"	"TATTGTCGTTAAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000388985"	""	7	"."	3	1	"."	0	"SMYD3,upstream_gene_variant,,ENST00000490107,NM_001167740.1;SMYD3,upstream_gene_variant,,ENST00000388985,;SMYD3,upstream_gene_variant,,ENST00000403792,;SMYD3,upstream_gene_variant,,ENST00000470863,;SMYD3,upstream_gene_variant,,ENST00000462422,;RP11-690C23.4,downstream_gene_variant,,ENST00000398739,;"	"-"	"ENSG00000185420"	"ENST00000388985"	"Transcript"	"upstream_gene_variant"	"-/1287"	"-/1287"	"-/428"	""	""	"rs71993891"	"1"	"415"	-1	"SMYD3"	"HGNC"	15513	"protein_coding"	"YES"	"CCDS53486.1"	"ENSP00000373637"	"Q9H7B4"	"B3KN46,B0QZA0,B0QZ99,A8MXR1"	"UPI000022AFDA"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGTATTGTCGTTAAACT"	"639b3d82-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"351"	"AHCTF1"	25909	"mskcc.org"	"GRCh37"	"1"	247007026	247007042	"+"	"Intron"	"DEL"	"TTTATTAAAACATTTGT"	"TTTATTAAAACATTTGT"	"AAAACATTTGT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TTTATTAAAACATTTGT"	"TTTATTAAAACATTTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6552+67_6552+72delATAAAA"	""	""	"ENST00000326225"	""	35	"."	5	10	"."	0	"AHCTF1,intron_variant,,ENST00000366508,;AHCTF1,intron_variant,,ENST00000326225,NM_015446.4;AHCTF1,intron_variant,,ENST00000391829,;AHCTF1,intron_variant,,ENST00000470300,;AHCTF1,intron_variant,,ENST00000498601,;"	"-"	"ENSG00000153207"	"ENST00000326225"	"Transcript"	"intron_variant"	"-/8633"	"-/6828"	"-/2275"	""	""	""	"1"	NA	-1	"AHCTF1"	"HGNC"	24618	"protein_coding"	"YES"	"CCDS1629.2"	"ENSP00000355465"	"Q8WYP5"	"C9J5C5"	"UPI0000204034"	"NM_015446.4"	NA	NA	""	"34/35"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"-1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTTTATTAAAACATTTGTA"	"66001188-2764-11e6-8bcb-94fe414a729f"	"280"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"352"	"AHCTF1"	25909	"mskcc.org"	"GRCh37"	"1"	247031205	247031207	"+"	"Intron"	"DEL"	"ACA"	"ACA"	"-"	"rs139104475"	NA	"JHCCPT1"	"JHCCPN1"	"ACA"	"ACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3116-94_3116-92delTGT"	""	""	"ENST00000326225"	""	44	"."	3	16	"."	0	"AHCTF1,intron_variant,,ENST00000366508,;AHCTF1,intron_variant,,ENST00000326225,NM_015446.4;AHCTF1,intron_variant,,ENST00000391829,;AHCTF1,intron_variant,,ENST00000470300,;AHCTF1,intron_variant,,ENST00000483900,;AHCTF1,upstream_gene_variant,,ENST00000477526,;"	"-"	"ENSG00000153207"	"ENST00000326225"	"Transcript"	"intron_variant"	"-/8633"	"-/6828"	"-/2275"	""	""	"rs139104475"	"1"	NA	-1	"AHCTF1"	"HGNC"	24618	"protein_coding"	"YES"	"CCDS1629.2"	"ENSP00000355465"	"Q8WYP5"	"C9J5C5"	"UPI0000204034"	"NM_015446.4"	NA	NA	""	"24/35"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCACAC"	"63a6fdd4-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WXS"	FALSE
"353"	"NLRP3"	114548	"mskcc.org"	"GRCh37"	"1"	247582464	247582466	"+"	"Intron"	"DEL"	"ATA"	"ATA"	"-"	"rs542379247"	NA	"JHCCPT1"	"JHCCPN1"	"ATA"	"ATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.283+85_283+87delATA"	""	""	"ENST00000336119"	""	18	"."	3	6	"."	0	"NLRP3,intron_variant,,ENST00000366497,NM_001127461.2;NLRP3,intron_variant,,ENST00000336119,NM_001127462.2,NM_004895.4,NM_001243133.1;NLRP3,intron_variant,,ENST00000366496,;NLRP3,intron_variant,,ENST00000391828,NM_001079821.2;NLRP3,intron_variant,,ENST00000348069,NM_183395.2;NLRP3,intron_variant,,ENST00000391827,;NLRP3,intron_variant,,ENST00000474792,;"	"-"	"ENSG00000162711"	"ENST00000336119"	"Transcript"	"intron_variant"	"-/4170"	"-/3111"	"-/1036"	""	""	"rs542379247"	"1"	NA	1	"NLRP3"	"HGNC"	16400	"protein_coding"	"YES"	"CCDS1632.1"	"ENSP00000337383"	"Q96P20"	"Q65Z67,B7ZKS9"	"UPI00001CE3AD"	"NM_001127462.2,NM_004895.4,NM_001243133.1"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATATAT"	"63cf423a-2764-11e6-8bcb-94fe414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"354"	"OR13G1"	441933	"mskcc.org"	"GRCh37"	"1"	247836676	247836679	"+"	"5'Flank"	"DEL"	"ATAT"	"ATAT"	"-"	"rs67162489"	NA	"JHCCPT1"	"JHCCPN1"	"ATAT"	"ATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000359688"	""	19	"."	9	7	"."	0	"OR13G1,upstream_gene_variant,,ENST00000359688,NM_001005487.1;RP11-634B7.4,intron_variant,,ENST00000449298,;"	"-"	"ENSG00000197437"	"ENST00000359688"	"Transcript"	"upstream_gene_variant"	"-/1046"	"-/924"	"-/307"	""	""	"rs67162489"	"1"	"311"	-1	"OR13G1"	"HGNC"	14999	"protein_coding"	"YES"	"CCDS31094.1"	"ENSP00000352717"	"Q8NGZ3"	""	"UPI0000061E5B"	"NM_001005487.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATATA"	"6416a7b0-2764-11e6-8bcb-94fe414a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.473684210526316	"WXS"	FALSE
"355"	"OR2L13"	284521	"mskcc.org"	"GRCh37"	"1"	248111751	248111752	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs140805913"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-144+11072dupA"	""	""	"ENST00000366478"	""	9	"."	5	1	"."	0	"OR2L13,intron_variant,,ENST00000366478,NM_175911.2;OR2L8,upstream_gene_variant,,ENST00000357191,NM_001001963.1;"	"A"	"ENSG00000196071"	"ENST00000366478"	"Transcript"	"intron_variant"	"-/1883"	"-/939"	"-/312"	""	""	"rs140805913"	"1"	NA	1	"OR2L13"	"HGNC"	19578	"protein_coding"	"YES"	"CCDS1637.1"	"ENSP00000355434"	"Q8N349"	""	"UPI0000043517"	"NM_175911.2"	NA	NA	""	"1/2"	""	"A:0.0254"	"A:0.0219"	"A:0.0072"	NA	"A:0.0377"	"A:0.0368"	"A:0.0184"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"84d8beca-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"356"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	248780639	248780640	"+"	"IGR"	"INS"	"-"	"C"	"C"	"rs35213606"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	2	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35213606"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"84db63b4-2764-11e6-8bcb-94fe414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"357"	"DIP2C"	22982	"mskcc.org"	"GRCh37"	"10"	444744	444744	"+"	"Intron"	"DEL"	"A"	"-"	"-"	"rs11304714"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1260+305delT"	""	""	"ENST00000280886"	""	8	"."	6	1	"."	0	"DIP2C,intron_variant,,ENST00000280886,NM_014974.2;DIP2C,intron_variant,,ENST00000381496,;"	"-"	"ENSG00000151240"	"ENST00000280886"	"Transcript"	"intron_variant"	"-/7894"	"-/4671"	"-/1556"	""	""	"rs11304714"	"1"	NA	-1	"DIP2C"	"HGNC"	29150	"protein_coding"	"YES"	"CCDS7054.1"	"ENSP00000280886"	"Q9Y2E4"	""	"UPI00001833B9"	"NM_014974.2"	NA	NA	""	"10/36"	""	"A:0.0208"	"-:0.9372"	"-:0.9928"	NA	"-:0.9891"	"-:0.998"	"-:0.9969"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"2ec34078-2764-11e6-ae4f-8f77424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"358"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	1914095	1914096	"+"	"IGR"	"INS"	"-"	"-"	"GA"	"rs10625854"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	1	"."	0	""	"GA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10625854"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GA:0.1430"	"GA:0.1528"	"GA:0.1499"	NA	"GA:0.0526"	"GA:0.1541"	"GA:0.2065"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"50c5068e-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"359"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	1914178	1914181	"+"	"IGR"	"DEL"	"AGAA"	"AGAA"	"-"	"rs139884803"	NA	"JHCCPT1"	"JHCCPN1"	"AGAA"	"AGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139884803"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3299"	"-:0.1936"	"-:0.4352"	NA	"-:0.25"	"-:0.4583"	"-:0.3896"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGAAA"	"2f0c507e-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"360"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	3435771	3435772	"+"	"IGR"	"INS"	"-"	"-"	"ACACACACAC"	"rs111641692"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	27	"."	4	8	"."	0	""	"ACACACACAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs111641692"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"50f74810-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WXS"	FALSE
"361"	"ENSR00001601585"	0	"mskcc.org"	"GRCh37"	"10"	3698037	3698037	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs55972147"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001601585"	""	9	"."	4	3	"."	0	""	"-"	""	"ENSR00001601585"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs55972147"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.2486"	"-:0.7133"	"-:0.9179"	NA	"-:0.5764"	"-:0.9056"	"-:0.7065"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGG"	"2f345420-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"362"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	3989098	3989099	"+"	"IGR"	"INS"	"-"	"-"	"C"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	7	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"5101185e-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"363"	"ENSR00000642242"	0	"mskcc.org"	"GRCh37"	"10"	5190458	5190459	"+"	"IGR"	"INS"	"-"	"A"	"A"	"rs11424630"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000642242"	""	11	"."	10	2	"."	0	""	"A"	""	"ENSR00000642242"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs11424630"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"51334b8a-2764-11e6-ae4f-8f77424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.909090909090909	"WXS"	FALSE
"364"	"AKR1C4"	1109	"mskcc.org"	"GRCh37"	"10"	5238340	5238340	"+"	"Intron"	"DEL"	"A"	"-"	"-"	"rs10711188"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-49+65delA"	""	""	"ENST00000380448"	""	8	"."	6	3	"."	0	"AKR1C4,intron_variant,,ENST00000380448,;AKR1CL1,intron_variant,,ENST00000445191,;AKR1C4,upstream_gene_variant,,ENST00000263126,NM_001818.3;U8,upstream_gene_variant,,ENST00000516100,;AKR1C4,non_coding_transcript_exon_variant,,ENST00000469875,;"	"-"	"ENSG00000198610"	"ENST00000380448"	"Transcript"	"intron_variant"	"-/1414"	"-/972"	"-/323"	""	""	"rs10711188"	"1"	NA	1	"AKR1C4"	"HGNC"	387	"protein_coding"	"YES"	"CCDS7064.1"	"ENSP00000369814"	"P17516"	"Q96SD9"	"UPI000013D3B2"	""	NA	NA	""	"2/10"	""	"A:0.0272"	"-:0.9168"	"-:0.987"	NA	"-:0.998"	"-:0.9891"	"-:0.9959"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTAA"	"2f7424e2-2764-11e6-ae4f-8f77424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"365"	"PRKCQ"	5588	"mskcc.org"	"GRCh37"	"10"	6513200	6513200	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs146987709"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1354-6834delG"	""	""	"ENST00000263125"	""	8	"."	4	1	"."	0	"PRKCQ,intron_variant,,ENST00000263125,NM_006257.3,NM_001282644.1;PRKCQ,intron_variant,,ENST00000397176,NM_001242413.1;PRKCQ,intron_variant,,ENST00000539722,NM_001282645.1;"	"-"	"ENSG00000065675"	"ENST00000263125"	"Transcript"	"intron_variant"	"-/3285"	"-/2121"	"-/706"	""	""	"rs146987709"	"1"	NA	-1	"PRKCQ"	"HGNC"	9410	"protein_coding"	"YES"	"CCDS7079.1"	"ENSP00000263125"	"Q04759"	""	"UPI000012DF74"	"NM_006257.3,NM_001282644.1"	NA	NA	""	"12/17"	""	"-:0.0719"	"-:0.0136"	"-:0.1138"	NA	"-:0.001"	"-:0.2147"	"-:0.047"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCT"	"30087a34-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"366"	"SFMBT2"	57713	"mskcc.org"	"GRCh37"	"10"	7256028	7256029	"+"	"Intron"	"INS"	"-"	"-"	"AGGAAAGGGCAAGCATTGCCACG"	"rs144646247"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1330+6344_1330+6345insCGTGGCAATGCTTGCCCTTTCCT"	""	""	"ENST00000361972"	""	7	"."	4	3	"."	0	"SFMBT2,intron_variant,,ENST00000361972,NM_001018039.1;SFMBT2,intron_variant,,ENST00000397167,NM_001029880.2;"	"AGGAAAGGGCAAGCATTGCCACG"	"ENSG00000198879"	"ENST00000361972"	"Transcript"	"intron_variant"	"-/7922"	"-/2685"	"-/894"	""	""	"rs144646247"	"1"	NA	-1	"SFMBT2"	"HGNC"	20256	"protein_coding"	"YES"	"CCDS31138.1"	"ENSP00000355109"	"Q5VUG0"	""	"UPI00001C1EDF"	"NM_001018039.1"	NA	NA	""	"11/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"51de59ee-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"367"	"GATA3"	2625	"mskcc.org"	"GRCh37"	"10"	8109802	8109808	"+"	"Intron"	"DEL"	"AAAACAA"	"AAAACAA"	"-"	"rs66460154"	NA	"JHCCPT1"	"JHCCPN1"	"AAAACAA"	"AAAACAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.922-1611_922-1605delAACAAAA"	""	""	"ENST00000346208"	""	6	"."	4	1	"."	0	"GATA3,intron_variant,,ENST00000379328,NM_001002295.1,NM_002051.2;GATA3,intron_variant,,ENST00000346208,;GATA3,intron_variant,,ENST00000461472,;"	"-"	"ENSG00000107485"	"ENST00000346208"	"Transcript"	"intron_variant"	"-/2654"	"-/1332"	"-/443"	""	""	"rs66460154"	"1"	NA	1	"GATA3"	"HGNC"	4172	"protein_coding"	""	"CCDS7083.1"	"ENSP00000341619"	"P23771"	""	"UPI000004904B"	""	NA	NA	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	"23"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAAAACAAA"	"30b65ce4-2764-11e6-ae4f-8f77424a729f"	"239"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	TRUE
"368"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	8587280	8587281	"+"	"IGR"	"INS"	"-"	"-"	"CTTTCTCTTT"	"rs11281023"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	4	4	"."	0	""	"CTTTCTCTTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11281023"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"52192f6a-2764-11e6-ae4f-8f77424a729f"	"238"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"369"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	8613220	8613221	"+"	"IGR"	"DEL"	"AG"	"AG"	"-"	"rs76516267"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs76516267"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4385"	"-:0.2579"	"-:0.5951"	NA	"-:0.6647"	"-:0.4155"	"-:0.362"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"30da26c4-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"370"	"CELF2"	10659	"mskcc.org"	"GRCh37"	"10"	11347023	11347024	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs574628385"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.977-9075dupC"	""	""	"ENST00000450189"	""	8	"."	4	3	"."	0	"CELF2,intron_variant,,ENST00000379261,NM_001025077.2;CELF2,intron_variant,,ENST00000315874,NM_001025076.2,NM_001083591.1;CELF2,intron_variant,,ENST00000427450,;CELF2,intron_variant,,ENST00000450189,NM_006561.3;CELF2,intron_variant,,ENST00000354440,;CELF2,intron_variant,,ENST00000542579,;CELF2,intron_variant,,ENST00000416382,;CELF2,intron_variant,,ENST00000399850,;CELF2,intron_variant,,ENST00000417956,;CELF2,intron_variant,,ENST00000609692,;CELF2,intron_variant,,ENST00000608830,;CELF2,intron_variant,,ENST00000354897,;CELF2,intron_variant,,ENST00000537122,;CELF2,intron_variant,,ENST00000609870,;"	"C"	"ENSG00000048740"	"ENST00000450189"	"Transcript"	"intron_variant"	"-/7982"	"-/1566"	"-/521"	""	""	"rs574628385"	"1"	NA	1	"CELF2"	"HGNC"	2550	"protein_coding"	"YES"	"CCDS44355.1"	"ENSP00000389951"	""	"E9PC62,B4DIB6"	"UPI0000F58F21"	"NM_006561.3"	NA	NA	""	"9/14"	""	"-:0.3151"	"C:0.2663"	"C:0.7752"	NA	"C:0.8988"	"C:0.8012"	"C:0.8466"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"5234b8fc-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"371"	"DHTKD1"	55526	"mskcc.org"	"GRCh37"	"10"	12126318	12126318	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs138079708"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.311-219delA"	""	""	"ENST00000263035"	""	13	"."	3	4	"."	0	"DHTKD1,intron_variant,,ENST00000263035,NM_018706.6;DHTKD1,intron_variant,,ENST00000437298,;DHTKD1,upstream_gene_variant,,ENST00000415935,;DHTKD1,intron_variant,,ENST00000465617,;"	"-"	"ENSG00000181192"	"ENST00000263035"	"Transcript"	"intron_variant"	"-/5159"	"-/2760"	"-/919"	""	""	"rs138079708"	"1"	NA	1	"DHTKD1"	"HGNC"	23537	"protein_coding"	"YES"	"CCDS7087.1"	"ENSP00000263035"	"Q96HY7"	""	"UPI000013D38C"	"NM_018706.6"	NA	NA	""	"2/16"	""	"A:0.1526"	"-:0.6263"	"-:0.915"	NA	"-:0.9673"	"-:0.8996"	"-:0.9213"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTAA"	"315eedc8-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"372"	"CAMK1D"	57118	"mskcc.org"	"GRCh37"	"10"	12514495	12514496	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs11423887"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.93-80727dupT"	""	""	"ENST00000378847"	""	6	"."	5	1	"."	0	"CAMK1D,intron_variant,,ENST00000378847,NM_153498.2;CAMK1D,intron_variant,,ENST00000378845,NM_020397.2;CAMK1D,intron_variant,,ENST00000487696,;"	"T"	"ENSG00000183049"	"ENST00000378847"	"Transcript"	"intron_variant"	"-/8154"	"-/1158"	"-/385"	""	""	"rs11423887"	"1"	NA	1	"CAMK1D"	"HGNC"	19341	"protein_coding"	"YES"	"CCDS7091.1"	"ENSP00000368124"	"Q8IU85"	""	"UPI000003CA33"	"NM_153498.2"	NA	NA	""	"1/10"	""	"-:0.3910"	"T:0.5711"	"T:0.5605"	NA	"T:0.8462"	"T:0.5775"	"T:0.4826"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"5269090e-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"373"	"CAMK1D"	57118	"mskcc.org"	"GRCh37"	"10"	12835690	12835691	"+"	"Intron"	"DEL"	"TT"	"TT"	"-"	"rs34125339"	NA	"JHCCPT1"	"JHCCPN1"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.641+2460_641+2461delTT"	""	""	"ENST00000378847"	""	7	"."	4	1	"."	0	"CAMK1D,intron_variant,,ENST00000378847,NM_153498.2;CAMK1D,intron_variant,,ENST00000378845,NM_020397.2;"	"-"	"ENSG00000183049"	"ENST00000378847"	"Transcript"	"intron_variant"	"-/8154"	"-/1158"	"-/385"	""	""	"rs34125339"	"1"	NA	1	"CAMK1D"	"HGNC"	19341	"protein_coding"	"YES"	"CCDS7091.1"	"ENSP00000368124"	"Q8IU85"	""	"UPI000003CA33"	"NM_153498.2"	NA	NA	""	"6/10"	""	"-:0.4537"	"-:0.5"	"-:0.5317"	NA	"-:0.5625"	"-:0.3757"	"-:0.3037"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTT"	"31b9529a-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"374"	"CCDC3"	83643	"mskcc.org"	"GRCh37"	"10"	12939094	12939094	"+"	"3'UTR"	"DEL"	"G"	"G"	"-"	"rs11358346"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1322delC"	""	""	"ENST00000378825"	"3/3"	9	"."	6	3	"."	0	"CCDC3,3_prime_UTR_variant,,ENST00000378839,NM_001282658.1;CCDC3,3_prime_UTR_variant,,ENST00000378825,NM_031455.3;"	"-"	"ENSG00000151468"	"ENST00000378825"	"Transcript"	"3_prime_UTR_variant"	"2262/2729"	"-/813"	"-/270"	""	""	"rs11358346"	"1"	NA	-1	"CCDC3"	"HGNC"	23813	"protein_coding"	"YES"	"CCDS7093.1"	"ENSP00000368102"	"Q9BQI4"	"Q5VYV9"	"UPI000006E69C"	"NM_031455.3"	NA	NA	"3/3"	""	""	"G:0.4804"	"-:0.3079"	"-:0.6801"	NA	"-:0.5585"	"-:0.6859"	"-:0.4806"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"31c479e0-2764-11e6-ae4f-8f77424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"375"	"CCDC3"	83643	"mskcc.org"	"GRCh37"	"10"	13136243	13136251	"+"	"Intron"	"DEL"	"GATGATGAT"	"GATGATGAT"	"-"	"rs111656058"	NA	"JHCCPT1"	"JHCCPN1"	"GATGATGAT"	"GATGATGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-503+4274_-503+4282delATCATCATC"	""	""	"ENST00000378839"	""	8	"."	4	1	"."	0	"CCDC3,intron_variant,,ENST00000378839,NM_001282658.1;"	"-"	"ENSG00000151468"	"ENST00000378839"	"Transcript"	"intron_variant"	"-/3180"	"-/438"	"-/145"	""	""	"rs111656058"	"1"	NA	-1	"CCDC3"	"HGNC"	23813	"protein_coding"	""	"CCDS60484.1"	"ENSP00000368116"	""	"Q5VYV9"	"UPI0000140E5E"	"NM_001282658.1"	NA	NA	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGATGATGATG"	"31e1a1e6-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"376"	"PRPF18"	8559	"mskcc.org"	"GRCh37"	"10"	13633944	13633944	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.66+4792delG"	""	""	"ENST00000378572"	""	224	"."	4	146	"."	0	"PRPF18,intron_variant,,ENST00000378572,NM_003675.3;PRPF18,intron_variant,,ENST00000417658,;PRPF18,intron_variant,,ENST00000320054,;RP11-295P9.2,non_coding_transcript_exon_variant,,ENST00000445338,;"	"-"	"ENSG00000165630"	"ENST00000378572"	"Transcript"	"intron_variant"	"-/1717"	"-/1029"	"-/342"	""	""	""	"1"	NA	1	"PRPF18"	"HGNC"	17351	"protein_coding"	"YES"	"CCDS7100.1"	"ENSP00000367835"	"Q99633"	"M0QXX3"	"UPI0000070C82"	"NM_003675.3"	NA	NA	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGC"	"3226de50-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0178571428571429	"WXS"	FALSE
"377"	"ST8SIA6"	338596	"mskcc.org"	"GRCh37"	"10"	17365228	17365229	"+"	"Intron"	"INS"	"-"	"-"	"CGCACGCACACACA"	"rs112083592"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.636-73_636-72insTGTGTGTGCGTGCG"	""	""	"ENST00000377602"	""	13	"."	3	7	"."	0	"ST8SIA6,intron_variant,,ENST00000377602,NM_001004470.1;ST8SIA6,intron_variant,,ENST00000440449,;"	"CGCACGCACACACA"	"ENSG00000148488"	"ENST00000377602"	"Transcript"	"intron_variant"	"-/2276"	"-/1197"	"-/398"	""	""	"rs112083592"	"1"	NA	-1	"ST8SIA6"	"HGNC"	23317	"protein_coding"	"YES"	"CCDS31158.1"	"ENSP00000366827"	"P61647"	""	"UPI0000359594"	"NM_001004470.1"	NA	NA	""	"6/7"	""	"CGCACGCACACACA:0.3081"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"5354f4cc-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"378"	"CACNB2"	783	"mskcc.org"	"GRCh37"	"10"	18463315	18463316	"+"	"Intron"	"INS"	"-"	"-"	"TCTC"	"rs112187383"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.213+23414_213+23415insCTCT"	""	""	"ENST00000324631"	""	11	"."	3	3	"."	0	"CACNB2,intron_variant,,ENST00000282343,NM_201571.3,NM_001167945.1;CACNB2,intron_variant,,ENST00000324631,NM_201593.2,NM_201596.2;CACNB2,intron_variant,,ENST00000352115,NM_201597.2;CACNB2,intron_variant,,ENST00000377331,NM_201572.3;CACNB2,intron_variant,,ENST00000377328,;CACNB2,intron_variant,,ENST00000467034,;"	"TCTC"	"ENSG00000165995"	"ENST00000324631"	"Transcript"	"intron_variant"	"-/3446"	"-/1983"	"-/660"	""	""	"rs112187383"	"1"	NA	1	"CACNB2"	"HGNC"	1402	"protein_coding"	"YES"	"CCDS7125.1"	"ENSP00000320025"	"Q08289"	""	"UPI00001AEA80"	"NM_201593.2,NM_201596.2"	NA	NA	""	"2/13"	""	"-:0.2392"	"TCTC:0.8707"	"TCTC:0.6888"	NA	"TCTC:0.6181"	"TCTC:0.7863"	"TCTC:0.7843"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"53674424-2764-11e6-ae4f-8f77424a729f"	"143"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"379"	"PIP4K2A"	5305	"mskcc.org"	"GRCh37"	"10"	22828838	22828841	"+"	"Intron"	"DEL"	"GAGG"	"GAGG"	"-"	"rs767581792"	NA	"JHCCPT1"	"JHCCPN1"	"GAGG"	"GAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1140+59_1140+62delCCTC"	""	""	"ENST00000376573"	""	46	"."	4	26	"."	0	"PIP4K2A,intron_variant,,ENST00000376573,NM_005028.4;PIP4K2A,intron_variant,,ENST00000545335,;PIP4K2A,intron_variant,,ENST00000323883,;PIP4K2A,downstream_gene_variant,,ENST00000604912,;PIP4K2A,upstream_gene_variant,,ENST00000474335,;"	"-"	"ENSG00000150867"	"ENST00000376573"	"Transcript"	"intron_variant"	"-/3802"	"-/1221"	"-/406"	""	""	"rs767581792"	"1"	NA	-1	"PIP4K2A"	"HGNC"	8997	"protein_coding"	"YES"	"CCDS7141.1"	"ENSP00000365757"	"P48426"	"S4R320,B4DGX2"	"UPI0000001052"	"NM_005028.4"	NA	NA	""	"9/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAGAGGG"	"3433b880-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WXS"	FALSE
"380"	"KIAA1217"	56243	"mskcc.org"	"GRCh37"	"10"	24482878	24482879	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs11397186"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-170-25676dupG"	""	""	"ENST00000376462"	""	7	"."	7	1	"."	0	"KIAA1217,intron_variant,,ENST00000376462,NM_001098500.1;"	"G"	"ENSG00000120549"	"ENST00000376462"	"Transcript"	"intron_variant"	"-/6123"	"-/3795"	"-/1264"	""	""	"rs11397186"	"1"	NA	1	"KIAA1217"	"HGNC"	25428	"protein_coding"	""	"CCDS41496.1"	"ENSP00000365645"	""	""	"UPI00003FECAE"	"NM_001098500.1"	NA	NA	""	"2/18"	""	"-:0.3912"	"G:0.6369"	"G:0.5187"	NA	"G:0.38"	"G:0.7475"	"G:0.728"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"5426ce02-2764-11e6-ae4f-8f77424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"381"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	25344980	25344980	"+"	"IGR"	"DEL"	"G"	"-"	"-"	"rs80081652"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs80081652"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2925"	"-:0.0287"	"-:0.4452"	NA	"-:0.4464"	"-:0.2843"	"-:0.3906"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGT"	"349e1b3a-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"382"	"GAD2"	2572	"mskcc.org"	"GRCh37"	"10"	26518977	26518978	"+"	"Intron"	"INS"	"-"	"-"	"ACAA"	"rs112436058"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.840+273_840+274insAAAC"	""	""	"ENST00000376261"	""	15	"."	6	2	"."	0	"GAD2,intron_variant,,ENST00000376261,NM_001134366.1;GAD2,intron_variant,,ENST00000259271,NM_000818.2;"	"ACAA"	"ENSG00000136750"	"ENST00000376261"	"Transcript"	"intron_variant"	"-/5858"	"-/1758"	"-/585"	""	""	"rs112436058"	"1"	NA	1	"GAD2"	"HGNC"	4093	"protein_coding"	"YES"	"CCDS7149.1"	"ENSP00000365437"	"Q05329"	"Q9UGI5,Q5VZ30"	"UPI0000033835"	"NM_001134366.1"	NA	NA	""	"7/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"54708bbe-2764-11e6-ae4f-8f77424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"383"	"RNU6-270P"	0	"mskcc.org"	"GRCh37"	"10"	29053310	29053310	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"rs67605516"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000364131"	""	7	"."	4	2	"."	0	"RNU6-270P,upstream_gene_variant,,ENST00000364131,;"	"-"	"ENSG00000201001"	"ENST00000364131"	"Transcript"	"upstream_gene_variant"	"-/105"	""	""	""	""	"rs67605516"	"1"	"3578"	-1	"RNU6-270P"	"HGNC"	47233	"snRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3718"	"-:0.4932"	"-:0.6196"	NA	"-:0.6478"	"-:0.6859"	"-:0.7372"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"3577c894-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"384"	"C10orf126"	283080	"mskcc.org"	"GRCh37"	"10"	29162296	29162297	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs753800087"	NA	"JHCCPT1"	"JHCCPN1"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.210+92_210+93delTA"	""	""	"ENST00000375520"	""	53	"."	11	21	"."	0	"C10orf126,intron_variant,,ENST00000375520,NM_001278522.1;RNA5SP308,downstream_gene_variant,,ENST00000362532,;"	"-"	"ENSG00000204365"	"ENST00000375520"	"Transcript"	"intron_variant"	"-/2149"	"-/519"	"-/172"	""	""	"rs753800087"	"1"	NA	1	"C10orf126"	"HGNC"	28693	"protein_coding"	"YES"	"CCDS60510.1"	"ENSP00000364670"	"Q8N4M7"	""	"UPI00001F90B6"	"NM_001278522.1"	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTAT"	"3585f66c-2764-11e6-ae4f-8f77424a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207547169811321	"WXS"	FALSE
"385"	"MAP3K8"	1326	"mskcc.org"	"GRCh37"	"10"	30719002	30719003	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000263056"	""	10	"."	6	1	"."	0	"MAP3K8,upstream_gene_variant,,ENST00000263056,NM_001244134.1,NM_005204.3;MAP3K8,upstream_gene_variant,,ENST00000542547,;MAP3K8,upstream_gene_variant,,ENST00000415139,;MAP3K8,upstream_gene_variant,,ENST00000375322,;MAP3K8,upstream_gene_variant,,ENST00000413724,;"	"A"	"ENSG00000107968"	"ENST00000263056"	"Transcript"	"upstream_gene_variant"	"-/3096"	"-/1404"	"-/467"	""	""	""	"1"	"3863"	1	"MAP3K8"	"HGNC"	6860	"protein_coding"	"YES"	"CCDS7166.1"	"ENSP00000263056"	"P41279"	"Q5T857,Q5T853"	"UPI000013D395"	"NM_001244134.1,NM_005204.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"55305796-2764-11e6-ae4f-8f77424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"386"	"RP11-192P3.4"	101929352	"mskcc.org"	"GRCh37"	"10"	31481716	31481719	"+"	"Intron"	"DEL"	"TTCC"	"TTCC"	"-"	"rs145482301"	NA	"JHCCPT1"	"JHCCPN1"	"TTCC"	"TTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.317+4615_317+4618delCTTC"	""	""	"ENST00000605929"	""	8	"."	4	1	"."	0	"RP11-192P3.4,intron_variant,,ENST00000605929,;"	"-"	"ENSG00000272381"	"ENST00000605929"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2246"	""	""	""	""	"rs145482301"	"1"	NA	1	"RP11-192P3.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"27"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATTCCT"	"362ed4ee-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"387"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	31956227	31956228	"+"	"IGR"	"INS"	"-"	"C"	"C"	"rs59246578"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs59246578"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1611"	"C:0.6672"	"C:0.8732"	NA	"C:0.999"	"C:0.834"	"C:0.8865"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"555757b0-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"388"	"ITGB1"	3688	"mskcc.org"	"GRCh37"	"10"	33197691	33197692	"+"	"Intron"	"DEL"	"AA"	"AA"	"-"	"rs10586245"	NA	"JHCCPT1"	"JHCCPN1"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2165-230_2165-229delTT"	""	""	"ENST00000396033"	""	12	"."	4	1	"."	0	"ITGB1,intron_variant,,ENST00000396033,NM_133376.2;ITGB1,intron_variant,,ENST00000374956,;ITGB1,intron_variant,,ENST00000423113,NM_033668.2;ITGB1,intron_variant,,ENST00000302278,NM_002211.3;ITGB1,upstream_gene_variant,,ENST00000488427,;ITGB1,intron_variant,,ENST00000494395,;"	"-"	"ENSG00000150093"	"ENST00000396033"	"Transcript"	"intron_variant"	"-/3784"	"-/2397"	"-/798"	""	""	"rs10586245"	"1"	NA	-1	"ITGB1"	"HGNC"	6153	"protein_coding"	"YES"	"CCDS7174.1"	"ENSP00000379350"	"P05556"	"Q5T3E6,Q5T3E5,Q5T3E4,E9PQJ2,E9PLR6,E7ERX5,E7EQW5,C9JPK5,C9JJP8"	"UPI0000070EEB"	"NM_133376.2"	NA	NA	""	"14/15"	""	"-:0.1368"	"-:0.1271"	"-:0.2493"	NA	"-:0.1617"	"-:0.0994"	"-:0.0828"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAAG"	"3677a372-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"389"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	34027401	34027402	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs112171243"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	6	3	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112171243"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.2538"	"A:0.2451"	"A:0.3444"	NA	"A:0.1825"	"A:0.3032"	"A:0.2239"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"559bf258-2764-11e6-ae4f-8f77424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"390"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	35877103	35877104	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs9337022"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs9337022"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.2206"	"T:0.171"	"T:0.2767"	NA	"T:0.2083"	"T:0.3091"	"T:0.1697"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"55d1c752-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"391"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	36498325	36498326	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs5784487"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5784487"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0487"	"G:0.9887"	"G:0.9366"	NA	"G:0.998"	"G:0.8708"	"G:0.9458"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"55e5908e-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"392"	"RET"	5979	"mskcc.org"	"GRCh37"	"10"	43578053	43578054	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs34799607"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.73+5275_73+5276delTC"	""	""	"ENST00000355710"	""	13	"."	5	4	"."	0	"RET,intron_variant,,ENST00000355710,NM_020975.4;RET,intron_variant,,ENST00000340058,NM_020630.4;RET,intron_variant,,ENST00000498820,;"	"-"	"ENSG00000165731"	"ENST00000355710"	"Transcript"	"intron_variant"	"-/5659"	"-/3345"	"-/1114"	""	""	"rs34799607"	"1"	NA	1	"RET"	"HGNC"	9967	"protein_coding"	"YES"	"CCDS7200.1"	"ENSP00000347942"	"P07949"	"Q9UQV8,Q9UM90,Q9UE13,Q8NFE8,Q8IZR8"	"UPI00001336E1"	"NM_020975.4"	NA	NA	""	"1/19"	""	"-:0.3231"	"-:0.18"	"-:0.3991"	NA	"-:0.3036"	"-:0.3907"	"-:0.4131"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGCTC"	"3780f3a4-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	TRUE
"393"	"RET"	5979	"mskcc.org"	"GRCh37"	"10"	43607760	43607760	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs34827976"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1648+88delC"	""	""	"ENST00000355710"	""	27	"."	6	11	"."	0	"RET,intron_variant,,ENST00000355710,NM_020975.4;RET,intron_variant,,ENST00000340058,NM_020630.4;RET,intron_variant,,ENST00000498820,;"	"-"	"ENSG00000165731"	"ENST00000355710"	"Transcript"	"intron_variant"	"-/5659"	"-/3345"	"-/1114"	""	""	"rs34827976"	"1"	NA	1	"RET"	"HGNC"	9967	"protein_coding"	"YES"	"CCDS7200.1"	"ENSP00000347942"	"P07949"	"Q9UQV8,Q9UM90,Q9UE13,Q8NFE8,Q8IZR8"	"UPI00001336E1"	"NM_020975.4"	NA	NA	""	"8/19"	""	"C:0.2999"	"-:0.8616"	"-:0.7435"	NA	"-:0.4911"	"-:0.7664"	"-:0.5982"	""	""	NA	NA	"22584707"	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGCT"	"378b4304-2764-11e6-ae4f-8f77424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	TRUE
"394"	"RP11-256K7.1"	0	"mskcc.org"	"GRCh37"	"10"	44913985	44913986	"+"	"5'Flank"	"INS"	"-"	"-"	"GGAA"	"rs36169606"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000392269"	""	7	"."	3	5	"."	0	"RP11-256K7.1,upstream_gene_variant,,ENST00000392269,;"	"GGAA"	"ENSG00000214089"	"ENST00000392269"	"Transcript"	"upstream_gene_variant"	"-/505"	""	""	""	""	"rs36169606"	"1"	"3384"	-1	"RP11-256K7.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"GGAAGGAGGGAA:0.0323"	"GGAAGGAGGGAA:0"	"GGAAGGAGGGAA:0.0331"	NA	"GGAAGGAGGGAA:0.131"	"GGAAGGAGGGAA:0"	"GGAAGGAGGGAA:0.0072"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"569fa1f4-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"395"	"ANTXRL"	195977	"mskcc.org"	"GRCh37"	"10"	47664348	47664349	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs112166587"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.321-703_321-702delTG"	""	""	"ENST00000447511"	""	9	"."	4	2	"."	0	"ANTXRL,intron_variant,,ENST00000447511,NM_001278688.1;ANTXRL,intron_variant,,ENST00000537271,;ANTXRL,intron_variant,,ENST00000441923,;ANTXRL,intron_variant,,ENST00000424375,;ANTXRL,intron_variant,,ENST00000564569,;ANTXRL,upstream_gene_variant,,ENST00000434908,;"	"-"	"ENSG00000198250"	"ENST00000447511"	"Transcript"	"intron_variant"	"-/2284"	"-/1896"	"-/631"	""	""	"rs112166587"	"1"	NA	1	"ANTXRL"	"HGNC"	27277	"protein_coding"	"YES"	"CCDS60524.1"	"ENSP00000455449"	""	"H3BVE1,H3BPS2"	"UPI00015B6A6A"	"NM_001278688.1"	NA	NA	""	"2/16"	""	"-:0.1677"	"-:0.1293"	"-:0.1657"	NA	"-:0.1815"	"-:0.1819"	"-:0.1922"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"14"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"384ac5c6-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"396"	"ARHGAP22"	58504	"mskcc.org"	"GRCh37"	"10"	49667230	49667237	"+"	"Intron"	"DEL"	"GGTAGGAT"	"GGTAGGAT"	"-"	"rs66807466"	NA	"JHCCPT1"	"JHCCPN1"	"GGTAGGAT"	"GGTAGGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.707+490_707+497delATCCTACC"	""	""	"ENST00000417912"	""	8	"."	5	1	"."	0	"ARHGAP22,intron_variant,,ENST00000249601,NM_021226.3,NM_001256024.1;ARHGAP22,intron_variant,,ENST00000435790,NM_001256025.2;ARHGAP22,intron_variant,,ENST00000374172,;ARHGAP22,intron_variant,,ENST00000417912,;ARHGAP22,intron_variant,,ENST00000417247,NM_001256026.1;ARHGAP22,intron_variant,,ENST00000374170,;ARHGAP22,intron_variant,,ENST00000471013,;ARHGAP22,intron_variant,,ENST00000515523,;ARHGAP22,intron_variant,,ENST00000489984,;ARHGAP22,intron_variant,,ENST00000460425,;"	"-"	"ENSG00000128805"	"ENST00000417912"	"Transcript"	"intron_variant"	"-/2352"	"-/2145"	"-/714"	""	""	"rs66807466"	"1"	NA	-1	"ARHGAP22"	"HGNC"	30320	"protein_coding"	"YES"	"CCDS58080.1"	"ENSP00000412461"	"Q7Z5H3"	"A6NHM7"	"UPI0000E5BE9D"	""	NA	NA	""	"5/9"	""	"GGTAGGAT:0.1048"	"-:0.6415"	"-:0.9683"	NA	"-:0.999"	"-:0.994"	"-:0.9775"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGGTAGGATG"	"386fa594-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"397"	"ERCC6"	2074	"mskcc.org"	"GRCh37"	"10"	50714458	50714459	"+"	"Intron"	"INS"	"-"	"ATTTT"	"ATTTT"	"rs4253098"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1398-401_1398-400insAAAAT"	""	""	"ENST00000355832"	""	7	"."	5	2	"."	0	"ERCC6,intron_variant,,ENST00000355832,NM_000124.3;ERCC6,upstream_gene_variant,,ENST00000542458,;ERCC6,upstream_gene_variant,,ENST00000475116,;"	"ATTTT"	"ENSG00000225830"	"ENST00000355832"	"Transcript"	"intron_variant"	"-/8008"	"-/4482"	"-/1493"	""	""	"rs4253098"	"1"	NA	-1	"ERCC6"	"HGNC"	3438	"protein_coding"	"YES"	"CCDS7229.1"	"ENSP00000348089"	"Q03468"	"F5H493,D6R9X7"	"UPI000000D8DA"	"NM_000124.3"	NA	NA	""	"5/20"	""	"-:0.1132"	"ATTTT:0.7163"	"ATTTT:0.9337"	NA	"ATTTT:0.999"	"ATTTT:0.8946"	"ATTTT:0.9601"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"57962132-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"398"	"ANK3"	288	"mskcc.org"	"GRCh37"	"10"	61946893	61946897	"+"	"Intron"	"DEL"	"TTTAT"	"TTTAT"	"-"	"rs141378213"	NA	"JHCCPT1"	"JHCCPN1"	"TTTAT"	"TTTAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1888-227_1888-223delATAAA"	""	""	"ENST00000280772"	""	33	"."	3	6	"."	0	"ANK3,intron_variant,,ENST00000280772,NM_020987.3;ANK3,intron_variant,,ENST00000373827,NM_001204403.1;ANK3,intron_variant,,ENST00000503366,NM_001204404.1;"	"-"	"ENSG00000151150"	"ENST00000280772"	"Transcript"	"intron_variant"	"-/16874"	"-/13134"	"-/4377"	""	""	"rs141378213"	"1"	NA	-1	"ANK3"	"HGNC"	494	"protein_coding"	"YES"	"CCDS7258.1"	"ENSP00000280772"	"Q12955"	"D6RFK6,D6RBY7,B1AQT1"	"UPI0000141BA9"	"NM_020987.3"	NA	NA	""	"16/43"	""	"-:0.2700"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TATTTATT"	"3a4e7156-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WXS"	FALSE
"399"	"ANK3"	288	"mskcc.org"	"GRCh37"	"10"	61946892	61946893	"+"	"Intron"	"INS"	"-"	"-"	"TTTAT"	"rs373365875"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1888-227_1888-223dupATAAA"	""	""	"ENST00000280772"	""	35	"."	4	6	"."	0	"ANK3,intron_variant,,ENST00000280772,NM_020987.3;ANK3,intron_variant,,ENST00000373827,NM_001204403.1;ANK3,intron_variant,,ENST00000503366,NM_001204404.1;"	"TTTAT"	"ENSG00000151150"	"ENST00000280772"	"Transcript"	"intron_variant"	"-/16874"	"-/13134"	"-/4377"	""	""	"rs373365875"	"1"	NA	-1	"ANK3"	"HGNC"	494	"protein_coding"	"YES"	"CCDS7258.1"	"ENSP00000280772"	"Q12955"	"D6RFK6,D6RBY7,B1AQT1"	"UPI0000141BA9"	"NM_020987.3"	NA	NA	""	"16/43"	""	"TTTATTTTAT:0.0825"	"TTTATTTTAT:0.056"	"TTTATTTTAT:0.147"	NA	"TTTATTTTAT:0.0069"	"TTTATTTTAT:0.1451"	"TTTATTTTAT:0.0859"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"58566320-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WXS"	FALSE
"400"	"RP11-170M17.1"	0	"mskcc.org"	"GRCh37"	"10"	65740292	65740293	"+"	"Intron"	"DEL"	"CT"	"-"	"-"	"rs34408349"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.495-9735_495-9734delCT"	""	""	"ENST00000444770"	""	6	"."	5	1	"."	0	"RP11-170M17.1,intron_variant,,ENST00000444770,;"	"-"	"ENSG00000228566"	"ENST00000444770"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/794"	""	""	""	""	"rs34408349"	"1"	NA	1	"RP11-170M17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	"CT:0.0665"	"-:0.9206"	"-:0.9251"	NA	"-:0.997"	"-:0.9195"	"-:0.9059"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACTC"	"3b371f96-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"401"	"CTNNA3"	29119	"mskcc.org"	"GRCh37"	"10"	68214389	68214389	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs35229070"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1531+65986delT"	""	""	"ENST00000433211"	""	6	"."	4	1	"."	0	"CTNNA3,intron_variant,,ENST00000433211,NM_013266.2;CTNNA3,intron_variant,,ENST00000373744,NM_001127384.1;"	"-"	"ENSG00000183230"	"ENST00000433211"	"Transcript"	"intron_variant"	"-/10675"	"-/2688"	"-/895"	""	""	"rs35229070"	"1"	NA	-1	"CTNNA3"	"HGNC"	2511	"protein_coding"	"YES"	"CCDS7269.1"	"ENSP00000389714"	"Q9UI47"	"Q5SW23,A6NKP0"	"UPI000004A0E6"	"NM_013266.2"	NA	NA	""	"11/17"	""	"-:0.4149"	"-:0.5106"	"-:0.4006"	NA	"-:0.373"	"-:0.2734"	"-:0.4847"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCAA"	"3b5b8b9c-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"402"	"MYPN"	84665	"mskcc.org"	"GRCh37"	"10"	69953757	69953758	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs10657186"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2926-362_2926-361dupAA"	""	""	"ENST00000358913"	""	6	"."	4	1	"."	0	"MYPN,intron_variant,,ENST00000358913,NM_032578.3,NM_001256267.1;MYPN,intron_variant,,ENST00000540630,;MYPN,intron_variant,,ENST00000354393,;"	"AA"	"ENSG00000138347"	"ENST00000358913"	"Transcript"	"intron_variant"	"-/6013"	"-/3963"	"-/1320"	""	""	"rs10657186"	"1"	NA	1	"MYPN"	"HGNC"	23246	"protein_coding"	"YES"	"CCDS7275.1"	"ENSP00000351790"	"Q86TC9"	"A5PKT7"	"UPI00002288CF"	"NM_032578.3,NM_001256267.1"	NA	NA	""	"13/19"	""	"AA:0.4748"	"AA:0.2852"	"AA:0.6585"	NA	"AA:0.3591"	"AA:0.6511"	"AA:0.5389"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"5922165a-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"403"	"MYPN"	84665	"mskcc.org"	"GRCh37"	"10"	69955547	69955547	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs5785848"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3158+258delC"	""	""	"ENST00000358913"	""	13	"."	4	3	"."	0	"MYPN,intron_variant,,ENST00000358913,NM_032578.3,NM_001256267.1;MYPN,intron_variant,,ENST00000540630,;MYPN,intron_variant,,ENST00000354393,;"	"-"	"ENSG00000138347"	"ENST00000358913"	"Transcript"	"intron_variant"	"-/6013"	"-/3963"	"-/1320"	""	""	"rs5785848"	"1"	NA	1	"MYPN"	"HGNC"	23246	"protein_coding"	"YES"	"CCDS7275.1"	"ENSP00000351790"	"Q86TC9"	"A5PKT7"	"UPI00002288CF"	"NM_032578.3,NM_001256267.1"	NA	NA	""	"15/19"	""	"-:0.4814"	"-:0.2897"	"-:0.6628"	NA	"-:0.3581"	"-:0.662"	"-:0.5532"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGCT"	"3bb6983e-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"404"	"KIAA1279"	26128	"mskcc.org"	"GRCh37"	"10"	70771022	70771023	"+"	"Intron"	"INS"	"-"	"-"	"TAAA"	"rs35263763"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.990+268_990+271dupTAAA"	""	""	"ENST00000361983"	""	12	"."	3	3	"."	0	"KIAA1279,intron_variant,,ENST00000361983,NM_015634.3;KIAA1279,non_coding_transcript_exon_variant,,ENST00000481912,;"	"TAAA"	"ENSG00000198954"	"ENST00000361983"	"Transcript"	"intron_variant"	"-/2534"	"-/1866"	"-/621"	""	""	"rs35263763"	"1"	NA	1	"KIAA1279"	"HGNC"	23419	"protein_coding"	"YES"	"CCDS7284.1"	"ENSP00000354848"	"Q96EK5"	""	"UPI000006FCAF"	"NM_015634.3"	NA	NA	""	"6/6"	""	"TAAA:0.0361"	"TAAA:0.0091"	"TAAA:0.0375"	NA	"TAAA:0.0258"	"TAAA:0.0885"	"TAAA:0.0286"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"59785f6a-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"405"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	71421765	71421766	"+"	"IGR"	"INS"	"-"	"-"	"TGC"	"rs10631286"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	5	1	"."	0	""	"TGC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10631286"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"599f710e-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"406"	"COL13A1"	1305	"mskcc.org"	"GRCh37"	"10"	71617685	71617685	"+"	"Intron"	"DEL"	"A"	"-"	"-"	"rs34679757"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.365-9868delA"	""	""	"ENST00000398978"	""	6	"."	5	1	"."	0	"COL13A1,intron_variant,,ENST00000356340,;COL13A1,intron_variant,,ENST00000398974,;COL13A1,intron_variant,,ENST00000398972,;COL13A1,intron_variant,,ENST00000398978,NM_001130103.1;COL13A1,intron_variant,,ENST00000398971,;COL13A1,intron_variant,,ENST00000398968,;COL13A1,intron_variant,,ENST00000398966,;COL13A1,intron_variant,,ENST00000398973,;COL13A1,intron_variant,,ENST00000398964,;COL13A1,intron_variant,,ENST00000354547,NM_080801.3;COL13A1,intron_variant,,ENST00000357811,NM_080802.3;COL13A1,intron_variant,,ENST00000398969,;COL13A1,intron_variant,,ENST00000520267,NM_080798.3;COL13A1,intron_variant,,ENST00000522165,NM_080800.3;COL13A1,intron_variant,,ENST00000517713,;COL13A1,intron_variant,,ENST00000520133,NM_080805.3;AL138925.1,downstream_gene_variant,,ENST00000580451,;COL13A1,intron_variant,,ENST00000479733,;"	"-"	"ENSG00000197467"	"ENST00000398978"	"Transcript"	"intron_variant"	"-/3093"	"-/2154"	"-/717"	""	""	"rs34679757"	"1"	NA	1	"COL13A1"	"HGNC"	2190	"protein_coding"	"YES"	"CCDS44419.1"	"ENSP00000381949"	"Q5TAT6"	"Q9UP45"	"UPI000046FD72"	"NM_001130103.1"	NA	NA	""	"2/39"	""	"A:0.4631"	"-:0.4992"	"-:0.5187"	NA	"-:0.5903"	"-:0.503"	"-:0.5808"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAA"	"3c719184-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"407"	"LRRC20"	55222	"mskcc.org"	"GRCh37"	"10"	72123596	72123597	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs35529318"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.82+12611dupG"	""	""	"ENST00000355790"	""	6	"."	3	2	"."	0	"LRRC20,intron_variant,,ENST00000355790,NM_207119.2,NM_001278214.1,NM_001278212.1;LRRC20,intron_variant,,ENST00000373224,NM_001278211.1,NM_001278214.1,NM_001278212.1;LRRC20,intron_variant,,ENST00000395011,NM_001278213.1;LRRC20,intron_variant,,ENST00000395010,;LRRC20,intron_variant,,ENST00000358141,NM_018239.3;LRRC20,intron_variant,,ENST00000357631,NM_018205.3;LRRC20,intron_variant,,ENST00000446961,;"	"C"	"ENSG00000172731"	"ENST00000355790"	"Transcript"	"intron_variant"	"-/3414"	"-/555"	"-/184"	""	""	"rs35529318"	"1"	NA	-1	"LRRC20"	"HGNC"	23421	"protein_coding"	"YES"	"CCDS7302.1"	"ENSP00000348043"	"Q8TCA0"	""	"UPI000004C613"	"NM_207119.2,NM_001278214.1,NM_001278212.1"	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"59ca3ec0-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"408"	"CEP57L1P1"	0	"mskcc.org"	"GRCh37"	"10"	72150388	72150389	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"rs57901356"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000430943"	""	8	"."	3	8	"."	0	"CEP57L1P1,downstream_gene_variant,,ENST00000430943,;CEP57L1P1,downstream_gene_variant,,ENST00000437376,;"	"A"	"ENSG00000224725"	"ENST00000430943"	"Transcript"	"downstream_gene_variant"	"-/1201"	""	""	""	""	"rs57901356"	"1"	"6"	1	"CEP57L1P1"	"HGNC"	23521	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2119"	"A:0.6596"	"A:0.8588"	NA	"A:0.8562"	"A:0.8708"	"A:0.7566"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"59d1d7a2-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"409"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	72336934	72336935	"+"	"IGR"	"INS"	"-"	"-"	"TCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTCCTCTTTCTTTTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"TCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTCCTCTTTCTTTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"59d875e4-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"410"	"CHST3"	9469	"mskcc.org"	"GRCh37"	"10"	73721932	73721947	"+"	"5'Flank"	"DEL"	"CGGGGGTGGTGGGAGA"	"CGGGGGTGGTGGGAGA"	"-"	"rs111699730"	NA	"JHCCPT1"	"JHCCPN1"	"CGGGGGTGGTGGGAGA"	"CGGGGGTGGTGGGAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000373115"	""	9	"."	5	2	"."	0	"CHST3,upstream_gene_variant,,ENST00000373115,NM_004273.4;"	"-"	"ENSG00000122863"	"ENST00000373115"	"Transcript"	"upstream_gene_variant"	"-/6970"	"-/1440"	"-/479"	""	""	"rs111699730"	"1"	"2176"	1	"CHST3"	"HGNC"	1971	"protein_coding"	"YES"	"CCDS7312.1"	"ENSP00000362207"	"Q7LGC8"	""	"UPI000013CB04"	"NM_004273.4"	NA	NA	""	""	""	"CGGGGGTGGTGGGAGA:0.4313"	"-:0.7005"	"-:0.5504"	NA	"-:0.4008"	"-:0.6113"	"-:0.5327"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGCGGGGGTGGTGGGAGAC"	"3d2ca622-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"411"	"KCNMA1"	3778	"mskcc.org"	"GRCh37"	"10"	78887325	78887328	"+"	"Intron"	"DEL"	"AGGA"	"AGGA"	"-"	"rs72447373"	NA	"JHCCPT1"	"JHCCPN1"	"AGGA"	"AGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.809-6522_809-6519delTCCT"	""	""	"ENST00000404857"	""	10	"."	3	3	"."	0	"KCNMA1,intron_variant,,ENST00000604624,NM_001271518.1,NM_001014797.2;KCNMA1,intron_variant,,ENST00000286627,NM_002247.3,NM_001271519.1;KCNMA1,intron_variant,,ENST00000286628,NM_001161352.1;KCNMA1,intron_variant,,ENST00000372443,;KCNMA1,intron_variant,,ENST00000372440,;KCNMA1,intron_variant,,ENST00000404771,;KCNMA1,intron_variant,,ENST00000457953,;KCNMA1,intron_variant,,ENST00000372437,;KCNMA1,intron_variant,,ENST00000372421,;KCNMA1,intron_variant,,ENST00000406533,;KCNMA1,intron_variant,,ENST00000354353,;KCNMA1,intron_variant,,ENST00000404857,NM_001161353.1;KCNMA1,intron_variant,,ENST00000372408,;KCNMA1,intron_variant,,ENST00000372403,;"	"-"	"ENSG00000156113"	"ENST00000404857"	"Transcript"	"intron_variant"	"-/3660"	"-/3660"	"-/1219"	""	""	"rs72447373"	"1"	NA	-1	"KCNMA1"	"HGNC"	6284	"protein_coding"	"YES"	"CCDS53545.1"	"ENSP00000385806"	"Q12791"	""	"UPI00003519E8"	"NM_001161353.1"	NA	NA	""	"5/27"	""	"AGGA:0.1182"	"-:0.8661"	"-:0.928"	NA	"-:0.9196"	"-:0.8419"	"-:0.8722"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATAGGAA"	"3f6d3f0a-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"412"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	79957967	79957968	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs35891524"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	2	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35891524"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1184"	"G:0.8033"	"G:0.889"	NA	"G:0.998"	"G:0.829"	"G:0.9162"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"5b31bfcc-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"413"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	80519174	80519185	"+"	"IGR"	"DEL"	"AAGGGGAAGGGG"	"AAGGGGAAGGGG"	"-"	"rs150364267"	NA	"JHCCPT1"	"JHCCPN1"	"AAGGGGAAGGGG"	"AAGGGGAAGGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150364267"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAGGGGAAGGGGA"	"3fa8e866-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"414"	"ZCCHC24"	219654	"mskcc.org"	"GRCh37"	"10"	81158801	81158801	"+"	"Intron"	"DEL"	"T"	"-"	"-"	"rs5786400"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.448-4605delA"	""	""	"ENST00000372336"	""	10	"."	8	1	"."	0	"ZCCHC24,intron_variant,,ENST00000372336,NM_153367.3;ZCCHC24,intron_variant,,ENST00000372333,;RP11-342M3.5,intron_variant,,ENST00000438554,;"	"-"	"ENSG00000165424"	"ENST00000372336"	"Transcript"	"intron_variant"	"-/4933"	"-/726"	"-/241"	""	""	"rs5786400"	"1"	NA	-1	"ZCCHC24"	"HGNC"	26911	"protein_coding"	"YES"	"CCDS7359.1"	"ENSP00000361411"	"Q8N2G6"	""	"UPI000006F100"	"NM_153367.3"	NA	NA	""	"2/3"	""	"T:0.1691"	"-:0.73"	"-:0.8285"	NA	"-:0.9107"	"-:0.84"	"-:0.8773"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTA"	"3fd5c9da-2764-11e6-ae4f-8f77424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.8	"WXS"	FALSE
"415"	"RP11-182L21.6"	642361	"mskcc.org"	"GRCh37"	"10"	81586139	81586140	"+"	"RNA"	"INS"	"-"	"-"	"GGC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.501_503dupGGC"	""	""	"ENST00000605920"	"1/1"	25	"."	4	14	"."	0	"RP11-182L21.6,non_coding_transcript_exon_variant,,ENST00000605920,;RP11-773D16.1,non_coding_transcript_exon_variant,,ENST00000495430,;RP11-773D16.1,non_coding_transcript_exon_variant,,ENST00000470445,;RP11-773D16.1,non_coding_transcript_exon_variant,,ENST00000483080,;RP11-773D16.1,non_coding_transcript_exon_variant,,ENST00000488805,;RP11-773D16.1,upstream_gene_variant,,ENST00000477192,;RP11-773D16.1,upstream_gene_variant,,ENST00000496359,;"	"GGC"	"ENSG00000272447"	"ENST00000605920"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"482-483/1701"	""	""	""	""	""	"1"	NA	1	"RP11-182L21.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"21"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"5b56a404-2764-11e6-ae4f-8f77424a729f"	"198"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WXS"	FALSE
"416"	"TMEM254"	80195	"mskcc.org"	"GRCh37"	"10"	81841046	81841047	"+"	"Intron"	"DEL"	"TT"	"TT"	"-"	"rs34255690"	NA	"JHCCPT1"	"JHCCPN1"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.88-550_88-549delTT"	""	""	"ENST00000372281"	""	11	"."	3	1	"."	0	"TMEM254,intron_variant,,ENST00000372273,NM_001270367.1,NM_001270368.1,NM_001270371.1,NM_001270374.1;TMEM254,intron_variant,,ENST00000372281,NM_001270372.1,NM_025125.3;TMEM254,intron_variant,,ENST00000372275,NM_001270373.1;TMEM254,intron_variant,,ENST00000372274,;TMEM254,intron_variant,,ENST00000372277,;TMEM254,upstream_gene_variant,,ENST00000450179,;TMEM254-AS1,upstream_gene_variant,,ENST00000412298,;TMEM254-AS1,upstream_gene_variant,,ENST00000432070,;TMEM254-AS1,upstream_gene_variant,,ENST00000448729,;TMEM254,intron_variant,,ENST00000467529,;TMEM254,intron_variant,,ENST00000483732,;TMEM254,intron_variant,,ENST00000463029,;TMEM254,intron_variant,,ENST00000472622,;TMEM254,intron_variant,,ENST00000476173,;TMEM254,upstream_gene_variant,,ENST00000463209,;"	"-"	"ENSG00000133678"	"ENST00000372281"	"Transcript"	"intron_variant"	"-/2042"	"-/372"	"-/123"	""	""	"rs34255690"	"1"	NA	1	"TMEM254"	"HGNC"	25804	"protein_coding"	"YES"	"CCDS7363.1"	"ENSP00000361355"	"Q8TBM7"	""	"UPI0000072C96"	"NM_001270372.1,NM_025125.3"	NA	NA	""	"1/3"	""	"TT:0.3121"	"-:0.6649"	"-:0.6066"	NA	"-:0.7113"	"-:0.6441"	"-:0.7975"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTT"	"3ff259f6-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"417"	"ANXA11"	311	"mskcc.org"	"GRCh37"	"10"	81925797	81925800	"+"	"Intron"	"DEL"	"CGCA"	"CGCA"	"-"	"rs201398615"	NA	"JHCCPT1"	"JHCCPN1"	"CGCA"	"CGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.858+40_858+43delTGCG"	""	""	"ENST00000438331"	""	43	"."	7	12	"."	0	"ANXA11,intron_variant,,ENST00000438331,NM_145869.1;ANXA11,intron_variant,,ENST00000372231,;ANXA11,intron_variant,,ENST00000360615,;ANXA11,intron_variant,,ENST00000535999,NM_001278408.1;ANXA11,intron_variant,,ENST00000265447,NM_001157.2;ANXA11,intron_variant,,ENST00000422982,NM_001278407.1,NM_145868.1;ANXA11,intron_variant,,ENST00000537102,NM_001278409.1;ANXA11,upstream_gene_variant,,ENST00000447489,;ANXA11,downstream_gene_variant,,ENST00000437799,;ANXA11,downstream_gene_variant,,ENST00000481805,;"	"-"	"ENSG00000122359"	"ENST00000438331"	"Transcript"	"intron_variant"	"-/6965"	"-/1518"	"-/505"	""	""	"rs201398615"	"1"	NA	-1	"ANXA11"	"HGNC"	535	"protein_coding"	"YES"	"CCDS7364.1"	"ENSP00000398610"	"P50995"	"Q5T0G9,Q5T0G8,Q5T0G7,B4DVE7"	"UPI0000125B8D"	"NM_145869.1"	NA	NA	""	"9/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCGCAC"	"3ffb7874-2764-11e6-ae4f-8f77424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162790697674419	"WXS"	FALSE
"418"	"AL359195.1"	0	"mskcc.org"	"GRCh37"	"10"	82015925	82015926	"+"	"3'Flank"	"INS"	"-"	"-"	"GAT"	"rs142011303"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000356374"	""	16	"."	5	3	"."	0	"AL359195.1,downstream_gene_variant,,ENST00000356374,;"	"GAT"	"ENSG00000204038"	"ENST00000356374"	"Transcript"	"downstream_gene_variant"	"-/3930"	"-/843"	"-/280"	""	""	"rs142011303"	"1"	"2530"	1	"AL359195.1"	"Clone_based_ensembl_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000348738"	""	"Q6ZRL6"	"UPI00001C0F61"	""	NA	NA	""	""	""	"-:0.4443"	"GAT:0.348"	"GAT:0.5202"	NA	"GAT:0.9563"	"GAT:0.4682"	"GAT:0.5389"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"5b7ae788-2764-11e6-ae4f-8f77424a729f"	"278"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"419"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	83206067	83206070	"+"	"IGR"	"DEL"	"TTCT"	"TTCT"	"-"	"rs139721471"	NA	"JHCCPT1"	"JHCCPN1"	"TTCT"	"TTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	24	"."	4	10	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139721471"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTCTT"	"40370d58-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"420"	"NRG3"	10718	"mskcc.org"	"GRCh37"	"10"	83912472	83912480	"+"	"Intron"	"DEL"	"TGCCATATA"	"TGCCATATA"	"GCAT"	"rs386745907"	NA	"JHCCPT1"	"JHCCPN1"	"TGCCATATA"	"TGCCATATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.824-206023_824-206015delTGCCATATAinsGCAT"	""	""	"ENST00000372141"	""	14	"."	7	7	"."	0	"NRG3,intron_variant,,ENST00000372142,NM_001165973.1;NRG3,intron_variant,,ENST00000404547,;NRG3,intron_variant,,ENST00000372141,NM_001165972.1,NM_001010848.3;NRG3,intron_variant,,ENST00000556918,;NRG3,intron_variant,,ENST00000404576,;NRG3,intron_variant,,ENST00000602794,;NRG3,intron_variant,,ENST00000555784,;"	"GCAT"	"ENSG00000185737"	"ENST00000372141"	"Transcript"	"intron_variant"	"-/2158"	"-/2091"	"-/696"	""	""	"rs386745907"	"1"	NA	1	"NRG3"	"HGNC"	7999	"protein_coding"	"YES"	"CCDS31233.1"	"ENSP00000361214"	"P56975"	"D9ZHQ8"	"UPI00003D64C0"	"NM_001165972.1,NM_001010848.3"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATGCCATATAT"	"501d0916-2764-11e6-ae4f-8f77424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"421"	"NRG3"	10718	"mskcc.org"	"GRCh37"	"10"	84497997	84497998	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs5786569"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.954-334dupT"	""	""	"ENST00000372141"	""	17	"."	6	4	"."	0	"NRG3,intron_variant,,ENST00000372142,NM_001165973.1;NRG3,intron_variant,,ENST00000404547,;NRG3,intron_variant,,ENST00000372141,NM_001165972.1,NM_001010848.3;NRG3,intron_variant,,ENST00000556918,;NRG3,intron_variant,,ENST00000404576,;NRG3,intron_variant,,ENST00000602794,;NRG3,intron_variant,,ENST00000555784,;"	"T"	"ENSG00000185737"	"ENST00000372141"	"Transcript"	"intron_variant"	"-/2158"	"-/2091"	"-/696"	""	""	"rs5786569"	"1"	NA	1	"NRG3"	"HGNC"	7999	"protein_coding"	"YES"	"CCDS31233.1"	"ENSP00000361214"	"P56975"	"D9ZHQ8"	"UPI00003D64C0"	"NM_001165972.1,NM_001010848.3"	NA	NA	""	"2/8"	""	"-:0.3928"	"T:0.5998"	"T:0.6614"	NA	"T:0.6548"	"T:0.5994"	"T:0.5378"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"5bc26716-2764-11e6-ae4f-8f77424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WXS"	FALSE
"422"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	85006740	85006740	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs146168830"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs146168830"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0703"	"-:0.1014"	"-:0.0562"	NA	"-:0.0079"	"-:0.0974"	"-:0.0746"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"40484898-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"423"	"GRID1"	2894	"mskcc.org"	"GRCh37"	"10"	87981655	87981656	"+"	"Intron"	"INS"	"-"	"-"	"CTC"	"rs141902639"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.236-15253_236-15251dupGAG"	""	""	"ENST00000327946"	""	17	"."	3	6	"."	0	"GRID1,intron_variant,,ENST00000327946,NM_017551.2;GRID1,intron_variant,,ENST00000464741,;"	"CTC"	"ENSG00000182771"	"ENST00000327946"	"Transcript"	"intron_variant"	"-/5834"	"-/3030"	"-/1009"	""	""	"rs141902639"	"1"	NA	-1	"GRID1"	"HGNC"	4575	"protein_coding"	"YES"	"CCDS31236.1"	"ENSP00000330148"	"Q9ULK0"	"B7Z7L0"	"UPI00001D8051"	"NM_017551.2"	NA	NA	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"5c00e310-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"424"	"GRID1"	2894	"mskcc.org"	"GRCh37"	"10"	88074765	88074770	"+"	"Intron"	"DEL"	"GCCCCC"	"-"	"-"	"rs72071419"	NA	"JHCCPT1"	"JHCCPN1"	"GCCCCC"	"GCCCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.235+48928_235+48933delGGGGGC"	""	""	"ENST00000327946"	""	11	"."	8	1	"."	0	"GRID1,intron_variant,,ENST00000327946,NM_017551.2;GRID1,intron_variant,,ENST00000464741,;"	"-"	"ENSG00000182771"	"ENST00000327946"	"Transcript"	"intron_variant"	"-/5834"	"-/3030"	"-/1009"	""	""	"rs72071419"	"1"	NA	-1	"GRID1"	"HGNC"	4575	"protein_coding"	"YES"	"CCDS31236.1"	"ENSP00000330148"	"Q9ULK0"	"B7Z7L0"	"UPI00001D8051"	"NM_017551.2"	NA	NA	""	"2/15"	""	"GCCCCC:0.2516"	"-:0.3903"	"-:0.7637"	NA	"-:0.9276"	"-:0.9264"	"-:0.8538"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGCCCCCG"	"409a4328-2764-11e6-ae4f-8f77424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.727272727272727	"WXS"	FALSE
"425"	"LDB3"	11155	"mskcc.org"	"GRCh37"	"10"	88448808	88448808	"+"	"Intron"	"DEL"	"C"	"-"	"-"	"rs11331035"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.893+1781delC"	""	""	"ENST00000429277"	""	10	"."	9	2	"."	0	"LDB3,intron_variant,,ENST00000429277,NM_001171610.1;LDB3,intron_variant,,ENST00000361373,NM_007078.2;LDB3,intron_variant,,ENST00000458213,;LDB3,intron_variant,,ENST00000263066,NM_001080114.1;LDB3,intron_variant,,ENST00000352360,;LDB3,intron_variant,,ENST00000372056,NM_001171611.1;LDB3,intron_variant,,ENST00000542786,;LDB3,intron_variant,,ENST00000310944,NM_001080115.1;LDB3,intron_variant,,ENST00000372066,NM_001080116.1;"	"-"	"ENSG00000122367"	"ENST00000429277"	"Transcript"	"intron_variant"	"-/5436"	"-/2199"	"-/732"	""	""	"rs11331035"	"1"	NA	1	"LDB3"	"HGNC"	15710	"protein_coding"	"YES"	"CCDS53550.1"	"ENSP00000401437"	"O75112"	""	"UPI00017A876A"	"NM_001171610.1"	NA	NA	""	"6/13"	""	"C:0.3179"	"-:0.6392"	"-:0.585"	NA	"-:0.4752"	"-:0.8658"	"-:0.8333"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AACC"	"40d951bc-2764-11e6-ae4f-8f77424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.9	"WXS"	FALSE
"426"	"ENSR00001425966"	0	"mskcc.org"	"GRCh37"	"10"	92955393	92955394	"+"	"IGR"	"DEL"	"TG"	"TG"	"-"	"rs35809931"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001425966"	""	11	"."	4	1	"."	0	""	"-"	""	"ENSR00001425966"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs35809931"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2244"	"-:0.0628"	"-:0.2723"	NA	"-:0.4018"	"-:0.17"	"-:0.2822"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTGT"	"41a3a048-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"427"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	93052926	93052927	"+"	"IGR"	"INS"	"-"	"GTGGGTCCAG"	"GTGGGTCCAG"	"rs147175998"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"GTGGGTCCAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147175998"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GTGGGTCCAG:0.1587"	"GTGGGTCCAG:0.1619"	"GTGGGTCCAG:0.1844"	NA	"GTGGGTCCAG:0.0655"	"GTGGGTCCAG:0.2833"	"GTGGGTCCAG:0.1043"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"5c9fa8e2-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"428"	"BTAF1"	9044	"mskcc.org"	"GRCh37"	"10"	93719496	93719503	"+"	"Intron"	"DEL"	"TGTATATA"	"TGTATATA"	"-"	"rs769651451"	NA	"JHCCPT1"	"JHCCPN1"	"TGTATATA"	"TGTATATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.991-45_991-38delGTATATAT"	""	""	"ENST00000265990"	""	39	"."	3	16	"."	0	"BTAF1,intron_variant,,ENST00000265990,NM_003972.2;BTAF1,intron_variant,,ENST00000471217,;"	"-"	"ENSG00000095564"	"ENST00000265990"	"Transcript"	"intron_variant"	"-/7250"	"-/5550"	"-/1849"	""	""	"rs769651451"	"1"	NA	1	"BTAF1"	"HGNC"	17307	"protein_coding"	"YES"	"CCDS7419.1"	"ENSP00000265990"	"O14981"	"Q8N6J1,Q2M1V9,B4E0W6"	"UPI0000136782"	"NM_003972.2"	NA	NA	""	"9/37"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	"0.06662"	"0.02239"	"0.1646"	"0.25"	"0.2281"	"0.07937"	"0.04167"	"0.1989"	NA	"common_variant"	"TGTGTATATAT"	"4204b04a-2764-11e6-ae4f-8f77424a729f"	"180"	0.118	"229/1940"	"1959/29406"	"12/536"	"26/158"	"19/76"	"26/114"	"40/504"	"1/24"	"105/528"	"PASS"	"FALSE"	0.0769230769230769	"WXS"	FALSE
"429"	"CYP26C1"	340665	"mskcc.org"	"GRCh37"	"10"	94821380	94821389	"+"	"Intron"	"DEL"	"ATACTCCGTT"	"ATACTCCGTT"	"CTACC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ATACTCCGTT"	"ATACTCCGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.204+156_204+165delATACTCCGTTinsCTACC"	""	""	"ENST00000285949"	""	21	"."	3	11	"."	0	"CYP26C1,intron_variant,,ENST00000285949,NM_183374.2;EXOC6,downstream_gene_variant,,ENST00000371552,NM_001013848.2;EXOC6,downstream_gene_variant,,ENST00000260762,NM_019053.4;EXOC6,downstream_gene_variant,,ENST00000443748,;EXOC6,downstream_gene_variant,,ENST00000371547,;RP11-348J12.2,upstream_gene_variant,,ENST00000444965,;EXOC6,downstream_gene_variant,,ENST00000495132,;"	"CTACC"	"ENSG00000187553"	"ENST00000285949"	"Transcript"	"intron_variant"	"-/1569"	"-/1569"	"-/522"	""	""	""	"1"	NA	1	"CYP26C1"	"HGNC"	20577	"protein_coding"	"YES"	"CCDS7425.1"	"ENSP00000285949"	"Q6V0L0"	""	"UPI00002289F0"	"NM_183374.2"	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGATACTCCGTTC"	"502c54e8-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"430"	"MYOF"	26509	"mskcc.org"	"GRCh37"	"10"	95211441	95211443	"+"	"Intron"	"DEL"	"AGA"	"AGA"	"-"	"rs72476463"	NA	"JHCCPT1"	"JHCCPN1"	"AGA"	"AGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.236+364_236+366delTCT"	""	""	"ENST00000359263"	""	8	"."	4	1	"."	0	"MYOF,intron_variant,,ENST00000371501,;MYOF,intron_variant,,ENST00000371502,;MYOF,intron_variant,,ENST00000359263,NM_013451.3;MYOF,intron_variant,,ENST00000358334,NM_133337.2;MYOF,intron_variant,,ENST00000371489,;MYOF,intron_variant,,ENST00000371488,;MYOF,intron_variant,,ENST00000488645,;"	"-"	"ENSG00000138119"	"ENST00000359263"	"Transcript"	"intron_variant"	"-/6719"	"-/6186"	"-/2061"	""	""	"rs72476463"	"1"	NA	-1	"MYOF"	"HGNC"	3656	"protein_coding"	"YES"	"CCDS41551.1"	"ENSP00000352208"	"Q9NZM1"	""	"UPI000012FBA1"	"NM_013451.3"	NA	NA	""	"3/53"	""	"-:0.2865"	"-:0.1702"	"-:0.3833"	NA	"-:0.0427"	"-:0.501"	"-:0.4059"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAGAA"	"42a96d42-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"431"	"FRA10AC1"	118924	"mskcc.org"	"GRCh37"	"10"	95447684	95447687	"+"	"Intron"	"DEL"	"CACA"	"CACA"	"-"	"rs61137234"	NA	"JHCCPT1"	"JHCCPN1"	"CACA"	"CACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.466-481_466-478delTGTG"	""	""	"ENST00000359204"	""	11	"."	5	2	"."	0	"FRA10AC1,intron_variant,,ENST00000359204,NM_145246.4;FRA10AC1,intron_variant,,ENST00000536233,;FRA10AC1,intron_variant,,ENST00000371430,;FRA10AC1,intron_variant,,ENST00000394100,;FRA10AC1,non_coding_transcript_exon_variant,,ENST00000482719,;FRA10AC1,upstream_gene_variant,,ENST00000472153,;"	"-"	"ENSG00000148690"	"ENST00000359204"	"Transcript"	"intron_variant"	"-/3089"	"-/948"	"-/315"	""	""	"rs61137234"	"1"	NA	-1	"FRA10AC1"	"HGNC"	1162	"protein_coding"	"YES"	"CCDS7430.1"	"ENSP00000360488"	"Q70Z53"	""	"UPI000006F7A9"	"NM_145246.4"	NA	NA	""	"7/13"	""	"-:0.3540"	"-:0.0461"	"-:0.451"	NA	"-:0.3978"	"-:0.5447"	"-:0.4601"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTCACAG"	"42cb0baa-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"432"	"NOC3L"	64318	"mskcc.org"	"GRCh37"	"10"	96109478	96109479	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11383344"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1129-344dupT"	""	""	"ENST00000371361"	""	17	"."	8	2	"."	0	"NOC3L,intron_variant,,ENST00000371361,NM_022451.9;NOC3L,intron_variant,,ENST00000371350,;NOC3L,intron_variant,,ENST00000543788,;NOC3L,intron_variant,,ENST00000463649,;"	"A"	"ENSG00000173145"	"ENST00000371361"	"Transcript"	"intron_variant"	"-/3455"	"-/2403"	"-/800"	""	""	"rs11383344"	"1"	NA	-1	"NOC3L"	"HGNC"	24034	"protein_coding"	"YES"	"CCDS7433.1"	"ENSP00000360412"	"Q8WTT2"	""	"UPI000006DE09"	"NM_022451.9"	NA	NA	""	"9/20"	""	"-:0.3309"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"5d86e392-2764-11e6-ae4f-8f77424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.470588235294118	"WXS"	FALSE
"433"	"C10orf129"	142827	"mskcc.org"	"GRCh37"	"10"	96955753	96955754	"+"	"Intron"	"INS"	"-"	"-"	"CCCTC"	"rs112989798"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.192+1323_192+1327dupTCCCC"	""	""	"ENST00000341686"	""	11	"."	7	1	"."	0	"C10orf129,intron_variant,,ENST00000341686,NM_207321.2;C10orf129,intron_variant,,ENST00000394005,;C10orf129,intron_variant,,ENST00000430183,;C10orf129,intron_variant,,ENST00000327739,;C10orf129,intron_variant,,ENST00000404473,;"	"CCCTC"	"ENSG00000173124"	"ENST00000341686"	"Transcript"	"intron_variant"	"-/1712"	"-/1443"	"-/480"	""	""	"rs112989798"	"1"	NA	1	"C10orf129"	"HGNC"	31665	"protein_coding"	"YES"	"CCDS7440.2"	"ENSP00000340296"	"Q6P461"	""	"UPI00017BCE82"	"NM_207321.2"	NA	NA	""	"2/10"	""	"CCCTC:0.3910"	"CCCTC:0.4766"	"CCCTC:0.3833"	NA	"CCCTC:0.0466"	"CCCTC:0.5636"	"CCCTC:0.4581"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"5db38fa0-2764-11e6-ae4f-8f77424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.636363636363636	"WXS"	FALSE
"434"	"ENTPD1"	953	"mskcc.org"	"GRCh37"	"10"	97605732	97605733	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs76897846"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.849+381_849+382delAG"	""	""	"ENST00000371207"	""	24	"."	4	9	"."	0	"ENTPD1,intron_variant,,ENST00000371203,NM_001164182.1,NM_001164179.1,NM_001776.5;ENTPD1,intron_variant,,ENST00000371207,NM_001164178.1;ENTPD1,intron_variant,,ENST00000539125,NM_001164183.1;ENTPD1,intron_variant,,ENST00000543964,NM_001164181.1;ENTPD1,intron_variant,,ENST00000453258,NM_001098175.1;ENTPD1,intron_variant,,ENST00000371205,;ENTPD1-AS1,intron_variant,,ENST00000416301,;RP11-429G19.3,intron_variant,,ENST00000433113,;ENTPD1,intron_variant,,ENST00000483213,;ENTPD1,intron_variant,,ENST00000422161,;ENTPD1,downstream_gene_variant,,ENST00000490659,;ENTPD1,downstream_gene_variant,,ENST00000494070,;ENTPD1,downstream_gene_variant,,ENST00000461927,;ENTPD1,non_coding_transcript_exon_variant,,ENST00000371206,;"	"-"	"ENSG00000138185"	"ENST00000371207"	"Transcript"	"intron_variant"	"-/12515"	"-/1569"	"-/522"	""	""	"rs76897846"	"1"	NA	1	"ENTPD1"	"HGNC"	3363	"protein_coding"	"YES"	"CCDS53556.1"	"ENSP00000360250"	"P49961"	""	"UPI0000EE3B3A"	"NM_001164178.1"	NA	NA	""	"6/9"	""	"-:0.1943"	"-:0.1044"	"-:0.4294"	NA	"-:0.0317"	"-:0.2922"	"-:0.2157"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAGA"	"43aa5efe-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"435"	"BLNK"	29760	"mskcc.org"	"GRCh37"	"10"	97986897	97986900	"+"	"Intron"	"DEL"	"TTGT"	"TTGT"	"-"	"rs3841593"	NA	"JHCCPT1"	"JHCCPN1"	"TTGT"	"TTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.361+266_361+269delACAA"	""	""	"ENST00000224337"	""	16	"."	4	3	"."	0	"BLNK,intron_variant,,ENST00000224337,NM_013314.3;BLNK,intron_variant,,ENST00000371176,NM_001114094.1,NM_001258441.1;BLNK,intron_variant,,ENST00000427367,;BLNK,intron_variant,,ENST00000413476,NM_001258440.1;BLNK,intron_variant,,ENST00000472763,;BLNK,intron_variant,,ENST00000467799,;"	"-"	"ENSG00000095585"	"ENST00000224337"	"Transcript"	"intron_variant"	"-/1784"	"-/1371"	"-/456"	""	""	"rs3841593"	"1"	NA	-1	"BLNK"	"HGNC"	14211	"protein_coding"	"YES"	"CCDS7446.1"	"ENSP00000224337"	"Q8WV28"	"Q2MD56"	"UPI000006FDD6"	"NM_013314.3"	NA	NA	""	"5/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTTGTT"	"43bff02a-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"436"	"LCOR"	84458	"mskcc.org"	"GRCh37"	"10"	98702215	98702216	"+"	"Intron"	"INS"	"-"	"-"	"GAGGGA"	"rs145400458"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-183-1641_-183-1636dupAGGGAG"	""	""	"ENST00000371097"	""	8	"."	3	1	"."	0	"LCOR,intron_variant,,ENST00000540664,NM_001170765.1,NM_001170766.1;LCOR,intron_variant,,ENST00000371097,;LCOR,intron_variant,,ENST00000356016,NM_032440.3;LCOR,intron_variant,,ENST00000371103,;LCOR,intron_variant,,ENST00000493486,;"	"GAGGGA"	"ENSG00000196233"	"ENST00000371097"	"Transcript"	"intron_variant"	"-/4852"	"-/1302"	"-/433"	""	""	"rs145400458"	"1"	NA	1	"LCOR"	"HGNC"	29503	"protein_coding"	"YES"	"CCDS7451.1"	"ENSP00000360138"	"Q96JN0"	""	"UPI0000160218"	""	NA	NA	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"19"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"5e37015a-2764-11e6-ae4f-8f77424a729f"	"156"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"437"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	99467697	99467697	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"444ebe36-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"438"	"HPSE2"	60495	"mskcc.org"	"GRCh37"	"10"	100336571	100336572	"+"	"Intron"	"INS"	"-"	"-"	"TCTT"	"rs112222216"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1320+38089_1320+38090insAAGA"	""	""	"ENST00000370552"	""	6	"."	3	1	"."	0	"HPSE2,intron_variant,,ENST00000370552,NM_021828.4;HPSE2,intron_variant,,ENST00000370549,NM_001166244.1;HPSE2,intron_variant,,ENST00000370546,NM_001166246.1;HPSE2,intron_variant,,ENST00000404542,NM_001166245.1;"	"TCTT"	"ENSG00000172987"	"ENST00000370552"	"Transcript"	"intron_variant"	"-/2295"	"-/1779"	"-/592"	""	""	"rs112222216"	"1"	NA	-1	"HPSE2"	"HGNC"	18374	"protein_coding"	"YES"	"CCDS7477.1"	"ENSP00000359583"	"Q8WWQ2"	""	"UPI00001AEEC0"	"NM_021828.4"	NA	NA	""	"9/11"	""	"-:0.4565"	"TCTT:0.5242"	"TCTT:0.6354"	NA	"TCTT:0.4514"	"TCTT:0.5934"	"TCTT:0.5481"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"5e6f78c8-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"439"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	101305362	101305366	"+"	"IGR"	"DEL"	"AAGAA"	"AAGAA"	"-"	"rs754210737"	NA	"JHCCPT1"	"JHCCPN1"	"AAGAA"	"AAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs754210737"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAGAAA"	"44afc622-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"440"	"CUTC"	51076	"mskcc.org"	"GRCh37"	"10"	101514751	101514752	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs10624168"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.707+361_707+362insTA"	""	""	"ENST00000370476"	""	8	"."	5	2	"."	0	"CUTC,intron_variant,,ENST00000370476,NM_015960.2;CUTC,downstream_gene_variant,,ENST00000370472,;CUTC,intron_variant,,ENST00000471520,;"	"AT"	"ENSG00000119929"	"ENST00000370476"	"Transcript"	"intron_variant"	"-/1346"	"-/822"	"-/273"	""	""	"rs10624168"	"1"	NA	1	"CUTC"	"HGNC"	24271	"protein_coding"	"YES"	"CCDS7483.1"	"ENSP00000359507"	"Q9NTM9"	"Q5TCZ7"	"UPI000007091E"	"NM_015960.2"	NA	NA	""	"8/8"	""	"-:0.0118"	"AT:0.9622"	"AT:0.9885"	NA	"AT:1"	"AT:0.999"	"AT:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"5e9c8f0c-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"441"	"WBP1L"	54838	"mskcc.org"	"GRCh37"	"10"	104570249	104570260	"+"	"Intron"	"DEL"	"TCCTTCCTTCCT"	"TCCTTCCTTCCT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TCCTTCCTTCCT"	"TCCTTCCTTCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.355+465_355+476delTTCCTTCCTTCC"	""	""	"ENST00000448841"	""	8	"."	3	1	"."	0	"WBP1L,intron_variant,,ENST00000369889,NM_017787.4;WBP1L,intron_variant,,ENST00000448841,NM_001083913.1;"	"-"	"ENSG00000166272"	"ENST00000448841"	"Transcript"	"intron_variant"	"-/4085"	"-/1092"	"-/363"	""	""	""	"1"	NA	1	"WBP1L"	"HGNC"	23510	"protein_coding"	"YES"	"CCDS44473.1"	"ENSP00000414721"	"Q9NX94"	"Q1EG69"	"UPI0000EE3B72"	"NM_001083913.1"	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"27"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTCCTTCCTTCCTT"	"46b1fcb0-2764-11e6-ae4f-8f77424a729f"	"177"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"442"	"RP11-127O4.3"	101927523	"mskcc.org"	"GRCh37"	"10"	106242120	106242122	"+"	"5'Flank"	"DEL"	"TCT"	"TCT"	"-"	"rs112124515"	NA	"JHCCPT1"	"JHCCPN1"	"TCT"	"TCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000447860"	""	8	"."	4	1	"."	0	"RP11-127O4.3,upstream_gene_variant,,ENST00000447860,;"	"-"	"ENSG00000225768"	"ENST00000447860"	"Transcript"	"upstream_gene_variant"	"-/1013"	""	""	""	""	"rs112124515"	"1"	"2088"	-1	"RP11-127O4.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2412"	"-:0.1997"	"-:0.1585"	NA	"-:0.2748"	"-:0.2674"	"-:0.2945"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTCTT"	"4797ceb6-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"443"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	107039209	107039209	"+"	"IGR"	"DEL"	"T"	"-"	"-"	"rs10708305"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	8	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10708305"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATT"	"47b1d720-2764-11e6-ae4f-8f77424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.727272727272727	"WXS"	FALSE
"444"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	109081359	109081360	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs35700783"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35700783"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.2179"	"G:0.0756"	"G:0.2795"	NA	"G:0.1032"	"G:0.4662"	"G:0.229"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"604059ec-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"445"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	109457250	109457253	"+"	"IGR"	"DEL"	"TTCC"	"TTCC"	"-"	"rs745868518"	NA	"JHCCPT1"	"JHCCPN1"	"TTCC"	"TTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	4	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs745868518"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTCCT"	"47d8c3e4-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"446"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	109457257	109457258	"+"	"IGR"	"INS"	"-"	"-"	"TTCT"	"rs150683614"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	4	6	"."	0	""	"TTCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150683614"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1947"	"TTCT:0.5234"	"TTCT:0.8876"	NA	"TTCT:0.994"	"TTCT:0.8231"	"TTCT:0.9151"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"604328a2-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"447"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	110412530	110412531	"+"	"IGR"	"INS"	"-"	"-"	"AAGAGAAGAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	1	"."	0	""	"AAGAGAAGAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"604aba4a-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"448"	"MXI1"	4601	"mskcc.org"	"GRCh37"	"10"	112004577	112004577	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs368343240"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.408-9delG"	""	""	"ENST00000332674"	""	162	"."	4	95	"."	0	"MXI1,intron_variant,,ENST00000332674,NM_130439.3;MXI1,intron_variant,,ENST00000239007,NM_005962.4;MXI1,intron_variant,,ENST00000361248,NM_001008541.1;MXI1,intron_variant,,ENST00000393134,;MXI1,intron_variant,,ENST00000369612,;MXI1,intron_variant,,ENST00000453116,;MXI1,intron_variant,,ENST00000442296,;MXI1,intron_variant,,ENST00000485566,;MXI1,intron_variant,,ENST00000484030,;MXI1,intron_variant,,ENST00000460667,;"	"-"	"ENSG00000119950"	"ENST00000332674"	"Transcript"	"intron_variant"	"-/3470"	"-/888"	"-/295"	""	""	"rs368343240"	"1"	NA	1	"MXI1"	"HGNC"	7534	"protein_coding"	"YES"	"CCDS7563.1"	"ENSP00000331152"	"P50539"	"Q5V9L6,F6WCI9"	"UPI0000376B16"	"NM_130439.3"	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.000466"	"0.0004327"	"0.000526"	"0.001475"	"0.0004029"	"0.0003557"	"0"	"0.0004214"	"1"	"common_variant"	"TTGT"	"4807c1d0-2764-11e6-ae4f-8f77424a729f"	"240"	0.0004606	"35/75992"	"49/105160"	"3/6934"	"4/7604"	"7/4746"	"2/4964"	"14/39364"	"0/516"	"5/11864"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.0246913580246914	"WXS"	FALSE
"449"	"RBM20"	282996	"mskcc.org"	"GRCh37"	"10"	112583643	112583643	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs72199900"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3451+277delT"	""	""	"ENST00000369519"	""	15	"."	4	8	"."	0	"RBM20,intron_variant,,ENST00000369519,NM_001134363.1;RBM20,intron_variant,,ENST00000471172,;RBM20,upstream_gene_variant,,ENST00000480343,;"	"-"	"ENSG00000203867"	"ENST00000369519"	"Transcript"	"intron_variant"	"-/7233"	"-/3684"	"-/1227"	""	""	"rs72199900"	"1"	NA	1	"RBM20"	"HGNC"	27424	"protein_coding"	"YES"	"CCDS44477.1"	"ENSP00000358532"	"Q5T481"	""	"UPI00016624E1"	"NM_001134363.1"	NA	NA	""	"12/13"	""	"-:0.4842"	"-:0.289"	"-:0.6542"	NA	"-:0.6151"	"-:0.498"	"-:0.4785"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AATT"	"4849d214-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"450"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	113032156	113032157	"+"	"IGR"	"INS"	"-"	"A"	"A"	"rs71035321"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	10	4	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71035321"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0623"	"A:0.7927"	"A:0.9784"	NA	"A:1"	"A:0.9891"	"A:0.9877"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"60957742-2764-11e6-ae4f-8f77424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"451"	"ACSL5"	51703	"mskcc.org"	"GRCh37"	"10"	114172646	114172647	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs3830190"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1117-280dupG"	""	""	"ENST00000356116"	""	15	"."	8	2	"."	0	"ACSL5,intron_variant,,ENST00000393081,NM_203380.1;ACSL5,intron_variant,,ENST00000354273,;ACSL5,intron_variant,,ENST00000356116,NM_016234.3;ACSL5,intron_variant,,ENST00000354655,NM_203379.1;ACSL5,intron_variant,,ENST00000433418,;ACSL5,intron_variant,,ENST00000369410,;RP11-324O2.6,intron_variant,,ENST00000424422,;RP11-324O2.3,upstream_gene_variant,,ENST00000598447,;RP11-324O2.3,upstream_gene_variant,,ENST00000449782,;RP11-324O2.3,upstream_gene_variant,,ENST00000594870,;ACSL5,intron_variant,,ENST00000495539,;ACSL5,intron_variant,,ENST00000467340,;ACSL5,downstream_gene_variant,,ENST00000479936,;"	"G"	"ENSG00000197142"	"ENST00000356116"	"Transcript"	"intron_variant"	"-/3353"	"-/2220"	"-/739"	""	""	"rs3830190"	"1"	NA	1	"ACSL5"	"HGNC"	16526	"protein_coding"	"YES"	"CCDS7572.1"	"ENSP00000348429"	"Q9ULC5"	""	"UPI000003ED0C"	"NM_016234.3"	NA	NA	""	"11/20"	""	"G:0.4884"	"G:0.3056"	"G:0.5634"	NA	"G:0.5694"	"G:0.5219"	"G:0.5644"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"60ba9c02-2764-11e6-ae4f-8f77424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.533333333333333	"WXS"	FALSE
"452"	"PNLIPRP2"	5408	"mskcc.org"	"GRCh37"	"10"	118393698	118393701	"+"	"Intron"	"DEL"	"CTCT"	"CTCT"	"-"	"rs147063508"	NA	"JHCCPT1"	"JHCCPN1"	"CTCT"	"CTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.818-648_818-645delCTCT"	""	""	"ENST00000537242"	""	7	"."	4	3	"."	0	"PNLIPRP2,intron_variant,,ENST00000537242,NM_005396.4;PNLIPRP2,intron_variant,,ENST00000298771,;PNLIPRP2,intron_variant,,ENST00000433618,;"	"-"	"ENSG00000165862"	"ENST00000537242"	"Transcript"	"intron_variant"	"-/1479"	"-/1407"	"-/468"	""	""	"rs147063508"	"1"	NA	1	"PNLIPRP2"	"HGNC"	9157	"protein_coding"	"YES"	""	"ENSP00000446346"	""	"F5H1V6"	"UPI0000D60FDD"	"NM_005396.4"	NA	NA	""	"9/13"	""	"-:0.2149"	"-:0.121"	"-:0.2161"	NA	"-:0.4514"	"-:0.1352"	"-:0.1789"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTCTC"	"4a40f0e8-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"453"	"ENSR00000362463"	0	"mskcc.org"	"GRCh37"	"10"	118531314	118531315	"+"	"IGR"	"INS"	"-"	"-"	"GG"	"rs3034016"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000362463"	""	11	"."	5	1	"."	0	""	"GG"	""	"ENSR00000362463"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs3034016"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3944"	"GG:0.7708"	"GG:0.5778"	NA	"GG:0.5149"	"GG:0.5467"	"GG:0.5562"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"61b11e92-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"454"	"RAB11FIP2"	22841	"mskcc.org"	"GRCh37"	"10"	119806027	119806028	"+"	"5'UTR"	"INS"	"-"	"-"	"C"	"rs5788283"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-354dupG"	""	""	"ENST00000355624"	"1/5"	21	"."	7	5	"."	0	"RAB11FIP2,5_prime_UTR_variant,,ENST00000355624,NM_014904.2;RAB11FIP2,upstream_gene_variant,,ENST00000369199,;CASC2,non_coding_transcript_exon_variant,,ENST00000414722,;CASC2,upstream_gene_variant,,ENST00000435944,;CASC2,upstream_gene_variant,,ENST00000426021,;CASC2,upstream_gene_variant,,ENST00000454781,;RP11-354M20.3,downstream_gene_variant,,ENST00000451610,;RP11-354M20.3,downstream_gene_variant,,ENST00000417968,;CASC2,upstream_gene_variant,,ENST00000454857,;CASC2,upstream_gene_variant,,ENST00000439517,;"	"C"	"ENSG00000107560"	"ENST00000355624"	"Transcript"	"5_prime_UTR_variant"	"87-88/6061"	"-/1539"	"-/512"	""	""	"rs5788283"	"1"	NA	-1	"RAB11FIP2"	"HGNC"	29152	"protein_coding"	"YES"	"CCDS7602.1"	"ENSP00000347839"	"Q7L804"	""	"UPI0000073B4B"	"NM_014904.2"	NA	NA	"1/5"	""	""	"-:0.0022"	"C:0.9985"	"C:1"	NA	"C:0.994"	"C:1"	"C:0.9969"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"61d1d79a-2764-11e6-ae4f-8f77424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"455"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	120266787	120266788	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs75785192"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	9	5	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs75785192"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.4059"	"C:0.177"	"C:0.451"	NA	"C:0.5764"	"C:0.499"	"C:0.4121"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"61e2d126-2764-11e6-ae4f-8f77424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.692307692307692	"WXS"	FALSE
"456"	"ENSR00001427740"	0	"mskcc.org"	"GRCh37"	"10"	120950575	120950576	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs35439312"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001427740"	""	8	"."	4	6	"."	0	""	"A"	""	"ENSR00001427740"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs35439312"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4024"	"A:0.1263"	"A:0.5375"	NA	"A:0.3095"	"A:0.6004"	"A:0.5716"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"6226a856-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"457"	"GRK5"	2869	"mskcc.org"	"GRCh37"	"10"	121051432	121051433	"+"	"Intron"	"INS"	"-"	"-"	"TTCCTCCTTTTCCTCCTCTTT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.53-34587_53-34586insTTCCTCCTCTTTTTCCTCCTT"	""	""	"ENST00000392870"	""	28	"."	3	8	"."	0	"GRK5,intron_variant,,ENST00000392870,NM_005308.2;"	"TTCCTCCTTTTCCTCCTCTTT"	"ENSG00000198873"	"ENST00000392870"	"Transcript"	"intron_variant"	"-/2654"	"-/1773"	"-/590"	""	""	""	"1"	NA	1	"GRK5"	"HGNC"	4544	"protein_coding"	"YES"	"CCDS7612.1"	"ENSP00000376609"	"P34947"	"Q24JT8,G8JLE8"	"UPI0000049BF9"	"NM_005308.2"	NA	NA	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"6227ce84-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WXS"	FALSE
"458"	"GRK5"	2869	"mskcc.org"	"GRCh37"	"10"	121134284	121134285	"+"	"Intron"	"INS"	"-"	"-"	"CAGACCCCT"	"rs11282757"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.149-6041_149-6040insGACCCCTCA"	""	""	"ENST00000392870"	""	8	"."	5	1	"."	0	"GRK5,intron_variant,,ENST00000392870,NM_005308.2;GRK5,upstream_gene_variant,,ENST00000369108,;MIR4681,upstream_gene_variant,,ENST00000580598,;"	"CAGACCCCT"	"ENSG00000198873"	"ENST00000392870"	"Transcript"	"intron_variant"	"-/2654"	"-/1773"	"-/590"	""	""	"rs11282757"	"1"	NA	1	"GRK5"	"HGNC"	4544	"protein_coding"	"YES"	"CCDS7612.1"	"ENSP00000376609"	"P34947"	"Q24JT8,G8JLE8"	"UPI0000049BF9"	"NM_005308.2"	NA	NA	""	"2/15"	""	"-:0.4451"	"CAGACCCCT:0.5356"	"CAGACCCCT:0.4337"	NA	"CAGACCCCT:0.7619"	"CAGACCCCT:0.3887"	"CAGACCCCT:0.6247"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"622ae74a-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"459"	"MCMBP"	79892	"mskcc.org"	"GRCh37"	"10"	121617180	121617181	"+"	"Intron"	"INS"	"-"	"-"	"TG"	"rs74826741"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.328-231_328-230dupCA"	""	""	"ENST00000360003"	""	14	"."	5	3	"."	0	"MCMBP,intron_variant,,ENST00000360003,NM_001256378.1,NM_001256379.1,NM_024834.3;MCMBP,intron_variant,,ENST00000369077,;MCMBP,non_coding_transcript_exon_variant,,ENST00000495407,;MCMBP,intron_variant,,ENST00000466047,;MCMBP,downstream_gene_variant,,ENST00000569515,;"	"TG"	"ENSG00000197771"	"ENST00000360003"	"Transcript"	"intron_variant"	"-/4113"	"-/1929"	"-/642"	""	""	"rs74826741"	"1"	NA	-1	"MCMBP"	"HGNC"	25782	"protein_coding"	"YES"	"CCDS7617.1"	"ENSP00000353098"	"Q9BTE3"	""	"UPI0000070023"	"NM_001256378.1,NM_001256379.1,NM_024834.3"	NA	NA	""	"4/15"	""	"TG:0.2101"	"TG:0.1188"	"TG:0.1254"	NA	"TG:0.1905"	"TG:0.165"	"TG:0.4601"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"624b9382-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"460"	"MCMBP"	79892	"mskcc.org"	"GRCh37"	"10"	121618035	121618037	"+"	"Intron"	"DEL"	"ATA"	"ATA"	"-"	"rs61085593"	NA	"JHCCPT1"	"JHCCPN1"	"ATA"	"ATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.327+359_327+361delTAT"	""	""	"ENST00000360003"	""	7	"."	3	2	"."	0	"MCMBP,intron_variant,,ENST00000360003,NM_001256378.1,NM_001256379.1,NM_024834.3;MCMBP,intron_variant,,ENST00000369077,;MCMBP,intron_variant,,ENST00000466047,;MCMBP,upstream_gene_variant,,ENST00000495407,;MCMBP,downstream_gene_variant,,ENST00000569515,;"	"-"	"ENSG00000197771"	"ENST00000360003"	"Transcript"	"intron_variant"	"-/4113"	"-/1929"	"-/642"	""	""	"rs61085593"	"1"	NA	-1	"MCMBP"	"HGNC"	25782	"protein_coding"	"YES"	"CCDS7617.1"	"ENSP00000353098"	"Q9BTE3"	""	"UPI0000070023"	"NM_001256378.1,NM_001256379.1,NM_024834.3"	NA	NA	""	"4/15"	""	"-:0.0938"	"-:0.1142"	"-:0.098"	NA	"-:0.001"	"-:0.1083"	"-:0.1442"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTATAG"	"4b5a064a-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"461"	"WDR11-AS1"	283089	"mskcc.org"	"GRCh37"	"10"	122577632	122577655	"+"	"Intron"	"DEL"	"CCTTCCTTCCTTCCTTCTTCTTCT"	"CCTTCCTTCCTTCCTTCTTCTTCT"	"TCTTCTCTTCTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CCTTCCTTCCTTCCTTCTTCTTCT"	"CCTTCCTTCCTTCCTTCTTCTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.228+12076_228+12099delAGAAGAAGAAGGAAGGAAGGAAGGinsGAGAAGAGAAGA"	""	""	"ENST00000598981"	""	9	"."	3	1	"."	0	"WDR11-AS1,intron_variant,,ENST00000598981,;WDR11-AS1,downstream_gene_variant,,ENST00000608667,;"	"TCTTCTCTTCTC"	"ENSG00000227165"	"ENST00000598981"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2242"	""	""	""	""	""	"1"	NA	-1	"WDR11-AS1"	"HGNC"	27437	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTCCTTCCTTCCTTCCTTCTTCTTCTC"	"504bb748-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"462"	"WDR11"	55717	"mskcc.org"	"GRCh37"	"10"	122667788	122667789	"+"	"Intron"	"INS"	"-"	"-"	"TGGGAGAATC"	"rs113007277"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3518-274_3518-273insAATCTGGGAG"	""	""	"ENST00000263461"	""	14	"."	4	2	"."	0	"WDR11,intron_variant,,ENST00000263461,NM_018117.11;WDR11,non_coding_transcript_exon_variant,,ENST00000604714,;WDR11,intron_variant,,ENST00000604509,;WDR11,downstream_gene_variant,,ENST00000605659,;WDR11,intron_variant,,ENST00000497136,;WDR11,intron_variant,,ENST00000605543,;WDR11,downstream_gene_variant,,ENST00000603658,;"	"TGGGAGAATC"	"ENSG00000120008"	"ENST00000263461"	"Transcript"	"intron_variant"	"-/4732"	"-/3675"	"-/1224"	""	""	"rs113007277"	"1"	NA	1	"WDR11"	"HGNC"	13831	"protein_coding"	"YES"	"CCDS7619.1"	"ENSP00000263461"	"Q9BZH6"	"S4R3Z0,Q9NWV7,Q659C9"	"UPI0000138ED1"	"NM_018117.11"	NA	NA	""	"28/28"	""	"-:0.3516"	"TGGGAGAATC:0.8427"	"TGGGAGAATC:0.634"	NA	"TGGGAGAATC:0.5179"	"TGGGAGAATC:0.5865"	"TGGGAGAATC:0.5941"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"62a309e6-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"463"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	123108037	123108038	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs112389310"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112389310"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3618"	"A:0.3124"	"A:0.33"	NA	"A:0.494"	"A:0.3827"	"A:0.2935"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"62a9edec-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"464"	"DMBT1"	1755	"mskcc.org"	"GRCh37"	"10"	124316901	124316904	"+"	"5'Flank"	"DEL"	"GTCT"	"GTCT"	"-"	"rs67682113"	NA	"JHCCPT1"	"JHCCPN1"	"GTCT"	"GTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000368909"	""	8	"."	4	1	"."	0	"DMBT1,upstream_gene_variant,,ENST00000338354,;DMBT1,upstream_gene_variant,,ENST00000368909,NM_007329.2;DMBT1,upstream_gene_variant,,ENST00000344338,;DMBT1,upstream_gene_variant,,ENST00000368955,NM_017579.2;DMBT1,upstream_gene_variant,,ENST00000330163,;DMBT1,upstream_gene_variant,,ENST00000368956,NM_004406.2;DMBT1,upstream_gene_variant,,ENST00000359586,;"	"-"	"ENSG00000187908"	"ENST00000368909"	"Transcript"	"upstream_gene_variant"	"-/7686"	"-/7242"	"-/2413"	""	""	"rs67682113"	"1"	"3277"	1	"DMBT1"	"HGNC"	2926	"protein_coding"	"YES"	"CCDS44490.1"	"ENSP00000357905"	"Q9UGM3"	"B6V682"	"UPI000047021C"	"NM_007329.2"	NA	NA	""	""	""	"GTCT:0.2708"	"-:0.6762"	"-:0.7983"	NA	"-:0.753"	"-:0.6859"	"-:0.772"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCGTCTG"	"4c275316-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"465"	"DMBT1"	1755	"mskcc.org"	"GRCh37"	"10"	124319864	124319865	"+"	"5'Flank"	"INS"	"-"	"-"	"AA"	"rs5788566"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000368909"	""	12	"."	3	5	"."	0	"DMBT1,upstream_gene_variant,,ENST00000338354,;DMBT1,upstream_gene_variant,,ENST00000368909,NM_007329.2;DMBT1,upstream_gene_variant,,ENST00000344338,;DMBT1,upstream_gene_variant,,ENST00000368955,NM_017579.2;DMBT1,upstream_gene_variant,,ENST00000330163,;DMBT1,upstream_gene_variant,,ENST00000368956,NM_004406.2;DMBT1,upstream_gene_variant,,ENST00000359586,;"	"AA"	"ENSG00000187908"	"ENST00000368909"	"Transcript"	"upstream_gene_variant"	"-/7686"	"-/7242"	"-/2413"	""	""	"rs5788566"	"1"	"316"	1	"DMBT1"	"HGNC"	2926	"protein_coding"	"YES"	"CCDS44490.1"	"ENSP00000357905"	"Q9UGM3"	"B6V682"	"UPI000047021C"	"NM_007329.2"	NA	NA	""	""	""	"-:0.3009"	"AA:0.5756"	"AA:0.7824"	NA	"AA:0.752"	"AA:0.6819"	"AA:0.7699"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"631e0826-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"466"	"RP11-282I1.2"	0	"mskcc.org"	"GRCh37"	"10"	125340515	125340516	"+"	"Intron"	"DEL"	"AG"	"-"	"-"	"rs35906029"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.153-941_153-940delAG"	""	""	"ENST00000451295"	""	8	"."	6	3	"."	0	"RP11-282I1.2,intron_variant,,ENST00000451295,;"	"-"	"ENSG00000234542"	"ENST00000451295"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/438"	""	""	""	""	"rs35906029"	"1"	NA	1	"RP11-282I1.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"AG:0.0885"	"-:0.7042"	"-:0.9712"	NA	"-:1"	"-:0.992"	"-:0.9755"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAGA"	"4cab8780-2764-11e6-ae4f-8f77424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"467"	"CHST15"	51363	"mskcc.org"	"GRCh37"	"10"	125767500	125767501	"+"	"3'UTR"	"DEL"	"GA"	"-"	"-"	"rs71704905"	NA	"JHCCPT1"	"JHCCPN1"	"GA"	"GA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*2164_*2165delTC"	""	""	"ENST00000346248"	"8/8"	8	"."	6	1	"."	0	"CHST15,3_prime_UTR_variant,,ENST00000346248,NM_015892.4;CHST15,3_prime_UTR_variant,,ENST00000435907,NM_001270764.1;RP11-47G11.2,upstream_gene_variant,,ENST00000455505,;"	"-"	"ENSG00000182022"	"ENST00000346248"	"Transcript"	"3_prime_UTR_variant"	"4493-4494/4810"	"-/1686"	"-/561"	""	""	"rs71704905"	"1"	NA	-1	"CHST15"	"HGNC"	18137	"protein_coding"	"YES"	"CCDS7638.1"	"ENSP00000333947"	"Q7LFX5"	""	"UPI000004D06B"	"NM_015892.4"	NA	NA	"8/8"	""	""	"GA:0.2334"	"-:0.795"	"-:0.6844"	NA	"-:0.9177"	"-:0.6153"	"-:0.7863"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGAG"	"4cd3a1fc-2764-11e6-ae4f-8f77424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"468"	"C10orf90"	118611	"mskcc.org"	"GRCh37"	"10"	128169565	128169590	"+"	"Intron"	"DEL"	"CCCTCTCTGCCCCTCTGCTCTGCAGT"	"CCCTCTCTGCCCCTCTGCTCTGCAGT"	"-"	"rs142102265"	NA	"JHCCPT1"	"JHCCPN1"	"CCCTCTCTGCCCCTCTGCTCTGCAGT"	"CCCTCTCTGCCCCTCTGCTCTGCAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1244-16035_1244-16010delACTGCAGAGCAGAGGGGCAGAGAGGG"	""	""	"ENST00000284694"	""	11	"."	3	3	"."	0	"C10orf90,intron_variant,,ENST00000284694,NM_001004298.2;C10orf90,intron_variant,,ENST00000356858,;C10orf90,intron_variant,,ENST00000454341,;C10orf90,intron_variant,,ENST00000544758,;C10orf90,intron_variant,,ENST00000432642,;C10orf90,intron_variant,,ENST00000424927,;"	"-"	"ENSG00000154493"	"ENST00000284694"	"Transcript"	"intron_variant"	"-/3076"	"-/2100"	"-/699"	""	""	"rs142102265"	"1"	NA	-1	"C10orf90"	"HGNC"	26563	"protein_coding"	"YES"	"CCDS31310.1"	"ENSP00000284694"	"Q96M02"	"S4R3N7,Q5T025"	"UPI00001D808F"	"NM_001004298.2"	NA	NA	""	"3/8"	""	"-:0.1090"	"-:0.1475"	"-:0.0793"	NA	"-:0.0724"	"-:0.169"	"-:0.0542"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCCCTCTCTGCCCCTCTGCTCTGCAGTC"	"4d6a42a6-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"469"	"DOCK1"	1793	"mskcc.org"	"GRCh37"	"10"	129119511	129119511	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs76153715"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2982-17759delT"	""	""	"ENST00000280333"	""	8	"."	4	1	"."	0	"DOCK1,intron_variant,,ENST00000280333,NM_001380.3;DOCK1,intron_variant,,ENST00000484400,;"	"-"	"ENSG00000150760"	"ENST00000280333"	"Transcript"	"intron_variant"	"-/6797"	"-/5598"	"-/1865"	""	""	"rs76153715"	"1"	NA	1	"DOCK1"	"HGNC"	2987	"protein_coding"	"YES"	""	"ENSP00000280333"	"Q14185"	""	"UPI0000246CA1"	"NM_001380.3"	NA	NA	""	"29/51"	""	"-:0.3782"	"-:0.3147"	"-:0.4467"	NA	"-:0.4514"	"-:0.4195"	"-:0.2975"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTC"	"4d9b279a-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"470"	"DOCK1"	1793	"mskcc.org"	"GRCh37"	"10"	129215186	129215187	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs35476416"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4453-1441dupC"	""	""	"ENST00000280333"	""	8	"."	5	2	"."	0	"DOCK1,intron_variant,,ENST00000280333,NM_001380.3;"	"C"	"ENSG00000150760"	"ENST00000280333"	"Transcript"	"intron_variant"	"-/6797"	"-/5598"	"-/1865"	""	""	"rs35476416"	"1"	NA	1	"DOCK1"	"HGNC"	2987	"protein_coding"	"YES"	""	"ENSP00000280333"	"Q14185"	""	"UPI0000246CA1"	"NM_001380.3"	NA	NA	""	"44/51"	""	"-:0.0998"	"C:0.9796"	"C:0.9006"	NA	"C:0.8859"	"C:0.8708"	"C:0.8374"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"63accef8-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"471"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	129497195	129497195	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs11297676"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11297676"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGAG"	"4dabd2a2-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"472"	"FOXI2"	399823	"mskcc.org"	"GRCh37"	"10"	129539159	129539160	"+"	"3'UTR"	"INS"	"-"	"C"	"C"	"rs11428259"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1933dupC"	""	""	"ENST00000388920"	"2/2"	8	"."	6	1	"."	0	"FOXI2,3_prime_UTR_variant,,ENST00000388920,NM_207426.2;AL391005.1,upstream_gene_variant,,ENST00000341742,;"	"C"	"ENSG00000186766"	"ENST00000388920"	"Transcript"	"3_prime_UTR_variant"	"2926-2927/3217"	"-/957"	"-/318"	""	""	"rs11428259"	"1"	NA	1	"FOXI2"	"HGNC"	32448	"protein_coding"	"YES"	"CCDS7655.2"	"ENSP00000373572"	"Q6ZQN5"	"C4IXT1"	"UPI0000253B9D"	"NM_207426.2"	NA	NA	"2/2"	""	""	"-:0.0112"	"C:0.9592"	"C:0.9971"	NA	"C:1"	"C:1"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"63bee516-2764-11e6-ae4f-8f77424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"473"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	130350385	130350386	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs5788933"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5788933"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3470"	"T:0.5008"	"T:0.7464"	NA	"T:0.748"	"T:0.6511"	"T:0.6963"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"63c3e782-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"474"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	131184480	131184495	"+"	"IGR"	"DEL"	"AAAGAAAGAAAAGAAA"	"AAAGAAAGAAAAGAAA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AAAGAAAGAAAAGAAA"	"AAAGAAAGAAAAGAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	3	7	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAAGAAAGAAAAGAAAG"	"4e498006-2764-11e6-ae4f-8f77424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"475"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	132509660	132509661	"+"	"IGR"	"INS"	"-"	"-"	"AAAC"	"rs144764537"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	3	"."	0	""	"AAAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144764537"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1949"	"AAAC:0.6014"	"AAAC:0.8934"	NA	"AAAC:0.8036"	"AAAC:0.9314"	"AAAC:0.8896"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"63ee8dd4-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"476"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	132548037	132548038	"+"	"IGR"	"INS"	"-"	"-"	"CTC"	"rs10644822"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	1	"."	0	""	"CTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10644822"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0134"	"CTC:0.9501"	"CTC:0.9986"	NA	"CTC:1"	"CTC:1"	"CTC:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"63efe698-2764-11e6-ae4f-8f77424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"477"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	132874753	132874753	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs11293210"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11293210"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0875"	"-:0.1483"	"-:0.1427"	NA	"-:0.0109"	"-:0.0785"	"-:0.0542"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"4e7edfa8-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"478"	"DPYSL4"	10570	"mskcc.org"	"GRCh37"	"10"	134000839	134000863	"+"	"Intron"	"DEL"	"GGCCCGGCCCTGCCCGGCCCTGCCG"	"GGCCCGGCCCTGCCCGGCCCTGCCG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GGCCCGGCCCTGCCCGGCCCTGCCG"	"GGCCCGGCCCTGCCCGGCCCTGCCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.39+238_39+262delGGCCCTGCCCGGCCCTGCCGGGCCC"	""	""	"ENST00000338492"	""	10	"."	4	8	"."	0	"DPYSL4,intron_variant,,ENST00000338492,NM_006426.2;DPYSL4,intron_variant,,ENST00000368629,;JAKMIP3,downstream_gene_variant,,ENST00000298622,NM_001105521.2;RP11-140A10.3,upstream_gene_variant,,ENST00000414106,;RP11-140A10.3,upstream_gene_variant,,ENST00000443922,;DPYSL4,intron_variant,,ENST00000493882,;DPYSL4,intron_variant,,ENST00000493927,;JAKMIP3,downstream_gene_variant,,ENST00000477275,;"	"-"	"ENSG00000151640"	"ENST00000338492"	"Transcript"	"intron_variant"	"-/2729"	"-/1719"	"-/572"	""	""	""	"1"	NA	1	"DPYSL4"	"HGNC"	3016	"protein_coding"	"YES"	"CCDS7665.1"	"ENSP00000339850"	"O14531"	"D3DRG7"	"UPI000013DC70"	"NM_006426.2"	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGGCCCGGCCCTGCCCGGCCCTGCCGG"	"4ebecece-2764-11e6-ae4f-8f77424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"479"	"ODF3"	113746	"mskcc.org"	"GRCh37"	"11"	194636	194639	"+"	"5'Flank"	"DEL"	"CTCG"	"CTCG"	"-"	"rs71980382"	NA	"JHCCPT1"	"JHCCPN1"	"CTCG"	"CTCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000325113"	""	137	"."	3	68	"."	0	"BET1L,intron_variant,,ENST00000410108,;ODF3,upstream_gene_variant,,ENST00000325113,NM_053280.3;ODF3,upstream_gene_variant,,ENST00000525282,NM_001286136.1;ODF3,upstream_gene_variant,,ENST00000342593,;SCGB1C1,downstream_gene_variant,,ENST00000342878,NM_145651.2;ODF3,upstream_gene_variant,,ENST00000531679,;"	"-"	"ENSG00000177947"	"ENST00000325113"	"Transcript"	"upstream_gene_variant"	"-/1307"	"-/765"	"-/254"	""	""	"rs71980382"	"1"	"2099"	1	"ODF3"	"HGNC"	19905	"protein_coding"	"YES"	"CCDS7688.1"	"ENSP00000325868"	"Q96PU9"	""	"UPI0000072C66"	"NM_053280.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACTCGG"	"2e98ffac-2764-11e6-8c6e-9077424a729f"	"78"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0218978102189781	"WXS"	FALSE
"480"	"PSMD13"	5719	"mskcc.org"	"GRCh37"	"11"	243018	243019	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"rs67547655"	NA	"JHCCPT1"	"JHCCPN1"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.96-1020_96-1019delCT"	""	""	"ENST00000431206"	""	17	"."	8	3	"."	0	"PSMD13,intron_variant,,ENST00000532097,NM_002817.3;PSMD13,intron_variant,,ENST00000431206,NM_175932.2;PSMD13,intron_variant,,ENST00000352303,;PSMD13,intron_variant,,ENST00000528906,;PSMD13,upstream_gene_variant,,ENST00000526783,;PSMD13,intron_variant,,ENST00000525665,;PSMD13,intron_variant,,ENST00000382671,;PSMD13,intron_variant,,ENST00000527047,;PSMD13,intron_variant,,ENST00000534590,;PSMD13,intron_variant,,ENST00000529372,;"	"-"	"ENSG00000185627"	"ENST00000431206"	"Transcript"	"intron_variant"	"-/1591"	"-/1137"	"-/378"	""	""	"rs67547655"	"1"	NA	1	"PSMD13"	"HGNC"	9558	"protein_coding"	"YES"	"CCDS44504.1"	"ENSP00000396937"	"Q9UNM6"	"Q9UNM7"	"UPI00003E5E1D"	"NM_175932.2"	NA	NA	""	"1/10"	""	"TC:0.1863"	"-:0.8888"	"-:0.8271"	NA	"-:0.8036"	"-:0.7306"	"-:0.7986"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATCT"	"2ebc6ffa-2764-11e6-8c6e-9077424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.470588235294118	"WXS"	FALSE
"481"	"IFITM3"	10410	"mskcc.org"	"GRCh37"	"11"	321076	321077	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs3215389"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000399808"	""	8	"."	4	5	"."	0	"IFITM3,intron_variant,,ENST00000602735,;IFITM3,intron_variant,,ENST00000526811,;IFITM3,upstream_gene_variant,,ENST00000399808,NM_021034.2;RP11-326C3.13,downstream_gene_variant,,ENST00000602949,;RP11-326C3.14,downstream_gene_variant,,ENST00000602809,;RP11-326C3.11,intron_variant,,ENST00000602429,;RP11-326C3.11,intron_variant,,ENST00000602756,;RP11-326C3.11,downstream_gene_variant,,ENST00000508004,;RP11-326C3.10,upstream_gene_variant,,ENST00000534271,;IFITM3,upstream_gene_variant,,ENST00000531688,;"	"A"	"ENSG00000142089"	"ENST00000399808"	"Transcript"	"upstream_gene_variant"	"-/808"	"-/402"	"-/133"	""	""	"rs3215389"	"1"	"26"	-1	"IFITM3"	"HGNC"	5414	"protein_coding"	"YES"	"CCDS41585.1"	"ENSP00000382707"	"Q01628"	"E9PS44"	"UPI00000465C0"	"NM_021034.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"49cb2d36-2764-11e6-8c6e-9077424a729f"	"128"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"482"	"DRD4"	1815	"mskcc.org"	"GRCh37"	"11"	637987	637988	"+"	"Intron"	"DEL"	"AC"	"AC"	"-"	"rs67940799"	NA	"JHCCPT1"	"JHCCPN1"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.285+414_285+415delAC"	""	""	"ENST00000176183"	""	10	"."	4	3	"."	0	"DRD4,intron_variant,,ENST00000176183,NM_000797.3;DRD4,upstream_gene_variant,,ENST00000528733,;"	"-"	"ENSG00000069696"	"ENST00000176183"	"Transcript"	"intron_variant"	"-/1375"	"-/1260"	"-/419"	""	""	"rs67940799"	"1"	NA	1	"DRD4"	"HGNC"	3025	"protein_coding"	"YES"	"CCDS7710.1"	"ENSP00000176183"	"P21917"	"Q99587,Q8WTT6,Q8WTT3,Q76E76,K9MAQ3"	"UPI000011F17B"	"NM_000797.3"	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGACA"	"2f06e72e-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"483"	"EPS8L2"	64787	"mskcc.org"	"GRCh37"	"11"	727200	727201	"+"	"3'UTR"	"INS"	"-"	"-"	"CTTGGTGGTGCCAGCCC"	"rs145863912"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*224_*240dupGTGGTGCCAGCCCCTTG"	""	""	"ENST00000533256"	"22/22"	22	"."	3	9	"."	0	"EPS8L2,3_prime_UTR_variant,,ENST00000533256,;EPS8L2,3_prime_UTR_variant,,ENST00000318562,NM_022772.3;EPS8L2,downstream_gene_variant,,ENST00000530636,;EPS8L2,downstream_gene_variant,,ENST00000526198,;AP006621.9,upstream_gene_variant,,ENST00000527021,;EPS8L2,intron_variant,,ENST00000534449,;EPS8L2,intron_variant,,ENST00000524973,;EPS8L2,3_prime_UTR_variant,,ENST00000526909,;EPS8L2,3_prime_UTR_variant,,ENST00000528770,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000531393,;EPS8L2,non_coding_transcript_exon_variant,,ENST00000527832,;EPS8L2,downstream_gene_variant,,ENST00000529346,;EPS8L2,downstream_gene_variant,,ENST00000524474,;EPS8L2,downstream_gene_variant,,ENST00000534679,;EPS8L2,downstream_gene_variant,,ENST00000530452,;EPS8L2,downstream_gene_variant,,ENST00000526651,;EPS8L2,downstream_gene_variant,,ENST00000533816,;EPS8L2,downstream_gene_variant,,ENST00000534027,;"	"CTTGGTGGTGCCAGCCC"	"ENSG00000177106"	"ENST00000533256"	"Transcript"	"3_prime_UTR_variant"	"2742-2743/3266"	"-/2148"	"-/715"	""	""	"rs145863912"	"1"	NA	1	"EPS8L2"	"HGNC"	21296	"protein_coding"	"YES"	"CCDS31328.1"	"ENSP00000435585"	"Q9H6S3"	"E9PNY4,E9PNT0,E9PN68,E9PLN2,E9PLH1"	"UPI000006226C"	""	NA	NA	"22/22"	""	""	"CTTGGTGGTGCCAGCCC:0.1064"	"CTTGGTGGTGCCAGCCC:0.2421"	"CTTGGTGGTGCCAGCCC:0.0562"	NA	"CTTGGTGGTGCCAGCCC:0.0357"	"CTTGGTGGTGCCAGCCC:0.0775"	"CTTGGTGGTGCCAGCCC:0.0613"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"21"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"49ffc244-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"484"	"POLR2L"	5441	"mskcc.org"	"GRCh37"	"11"	842099	842100	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs10678550"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.95+313_95+314dupTT"	""	""	"ENST00000322028"	""	11	"."	4	3	"."	0	"POLR2L,intron_variant,,ENST00000322028,NM_021128.4;CD151,downstream_gene_variant,,ENST00000397420,;CD151,downstream_gene_variant,,ENST00000322008,NM_004357.4,NM_139029.1;CD151,downstream_gene_variant,,ENST00000397421,NM_139030.3,NM_001039490.1;TSPAN4,upstream_gene_variant,,ENST00000397404,NM_001025237.1;TSPAN4,upstream_gene_variant,,ENST00000397408,NM_001025236.1,NM_001025235.1;TSPAN4,upstream_gene_variant,,ENST00000397406,NM_001025234.1;TSPAN4,upstream_gene_variant,,ENST00000397397,NM_003271.4;CD151,downstream_gene_variant,,ENST00000528011,;TSPAN4,upstream_gene_variant,,ENST00000397396,NM_001025239.1;TSPAN4,upstream_gene_variant,,ENST00000409543,;TSPAN4,upstream_gene_variant,,ENST00000397411,NM_001025238.1;TSPAN4,upstream_gene_variant,,ENST00000525334,;TSPAN4,upstream_gene_variant,,ENST00000525201,;TSPAN4,upstream_gene_variant,,ENST00000530404,;CD151,downstream_gene_variant,,ENST00000527341,;CD151,downstream_gene_variant,,ENST00000524748,;CD151,downstream_gene_variant,,ENST00000526693,;CD151,downstream_gene_variant,,ENST00000530320,;CD151,downstream_gene_variant,,ENST00000529810,;CD151,downstream_gene_variant,,ENST00000525181,;POLR2L,intron_variant,,ENST00000534030,;CD151,downstream_gene_variant,,ENST00000532045,;CD151,downstream_gene_variant,,ENST00000530726,;CD151,downstream_gene_variant,,ENST00000532075,;"	"AA"	"ENSG00000177700"	"ENST00000322028"	"Transcript"	"intron_variant"	"-/892"	"-/204"	"-/67"	""	""	"rs10678550"	"1"	NA	-1	"POLR2L"	"HGNC"	9199	"protein_coding"	"YES"	"CCDS7720.1"	"ENSP00000324124"	"P62875"	""	"UPI0000025AD1"	"NM_021128.4"	NA	NA	""	"1/1"	""	"AA:0.3594"	"AA:0.4213"	"AA:0.2089"	NA	"AA:0.2073"	"AA:0.34"	"AA:0.5593"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"4a03fcba-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"485"	"MUC6"	4588	"mskcc.org"	"GRCh37"	"11"	1022327	1022328	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs112706771"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3527-1051dupG"	""	""	"ENST00000421673"	""	12	"."	5	1	"."	0	"MUC6,intron_variant,,ENST00000421673,NM_005961.2;MUC6,upstream_gene_variant,,ENST00000527242,;"	"C"	"ENSG00000184956"	"ENST00000421673"	"Transcript"	"intron_variant"	"-/8006"	"-/7320"	"-/2439"	""	""	"rs112706771"	"1"	NA	-1	"MUC6"	"HGNC"	7517	"protein_coding"	"YES"	"CCDS44513.1"	"ENSP00000406861"	"Q6W4X9"	"Q6W3D1,H9XFC0,H9XFB9,H9XFB8,H9XFB7"	"UPI0000251DBE"	"NM_005961.2"	NA	NA	""	"26/32"	""	"C:0.1715"	"C:0.0635"	"C:0.062"	NA	"C:0.2758"	"C:0.1143"	"C:0.3466"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"4a109542-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"486"	"BRSK2"	9024	"mskcc.org"	"GRCh37"	"11"	1467277	1467291	"+"	"Intron"	"DEL"	"GCTGGGCTGGGCTGG"	"GCTGGGCTGGGCTGG"	"-"	"rs140519460"	NA	"JHCCPT1"	"JHCCPN1"	"GCTGGGCTGGGCTGG"	"GCTGGGCTGGGCTGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1364+148_1364+162delGGGCTGGGCTGGGCT"	""	""	"ENST00000382179"	""	31	"."	5	18	"."	0	"BRSK2,intron_variant,,ENST00000308219,NM_003957.3,NM_001256627.1;BRSK2,intron_variant,,ENST00000528841,;BRSK2,intron_variant,,ENST00000382179,NM_001256630.1;BRSK2,intron_variant,,ENST00000528710,NM_001282218.1;BRSK2,intron_variant,,ENST00000308230,;BRSK2,intron_variant,,ENST00000531197,NM_001256629.1;BRSK2,intron_variant,,ENST00000526678,;BRSK2,intron_variant,,ENST00000544817,;BRSK2,upstream_gene_variant,,ENST00000533606,;BRSK2,downstream_gene_variant,,ENST00000528596,;BRSK2,downstream_gene_variant,,ENST00000524702,;BRSK2,intron_variant,,ENST00000529433,;BRSK2,intron_variant,,ENST00000529951,;BRSK2,downstream_gene_variant,,ENST00000531078,;"	"-"	"ENSG00000174672"	"ENST00000382179"	"Transcript"	"intron_variant"	"-/3576"	"-/2301"	"-/766"	""	""	"rs140519460"	"1"	NA	1	"BRSK2"	"HGNC"	11405	"protein_coding"	"YES"	"CCDS58108.1"	"ENSP00000371614"	"Q8IWQ3"	"E9PRY3,E9PPI2"	"UPI000035E827"	"NM_001256630.1"	NA	NA	""	"12/19"	""	"-:0.2909"	"-:0.3729"	"-:0.2867"	NA	"-:0.0714"	"-:0.4443"	"-:0.2515"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGCTGGGCTGGGCTGGG"	"2f96835c-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161290322580645	"WXS"	FALSE
"487"	"KCNQ1"	3784	"mskcc.org"	"GRCh37"	"11"	2824391	2824392	"+"	"Intron"	"INS"	"-"	"CCT"	"CCT"	"rs35739467"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1794+25126_1794+25127insTCC"	""	""	"ENST00000155840"	""	6	"."	5	3	"."	0	"KCNQ1,intron_variant,,ENST00000155840,NM_000218.2,NM_181798.1;KCNQ1,intron_variant,,ENST00000335475,;KCNQ1,intron_variant,,ENST00000526095,;"	"CCT"	"ENSG00000053918"	"ENST00000155840"	"Transcript"	"intron_variant"	"-/3245"	"-/2031"	"-/676"	""	""	"rs35739467"	"1"	NA	1	"KCNQ1"	"HGNC"	6294	"protein_coding"	"YES"	"CCDS7736.1"	"ENSP00000155840"	"P51787"	"Q96AI9,A0FIK7"	"UPI000004662D"	"NM_000218.2,NM_181798.1"	NA	NA	""	"15/15"	""	"-:0.1428"	"T:0.7284"	"T:0.8847"	NA	"T:0.9841"	"T:0.833"	"T:0.9059"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"4a9176bc-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"488"	"STIM1"	6786	"mskcc.org"	"GRCh37"	"11"	3877114	3877118	"+"	"5'UTR"	"DEL"	"TCTCT"	"TCTCT"	"-"	"rs147711952"	NA	"JHCCPT1"	"JHCCPN1"	"TCTCT"	"TCTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-370_-366delTCTTC"	""	""	"ENST00000300737"	"1/12"	11	"."	4	6	"."	0	"STIM1,5_prime_UTR_variant,,ENST00000300737,NM_003156.3,NM_001277961.1,NM_001277962.1;STIM1,intron_variant,,ENST00000525403,;STIM1,upstream_gene_variant,,ENST00000527651,;MIR4687,upstream_gene_variant,,ENST00000583618,;AC090587.4,downstream_gene_variant,,ENST00000430222,;AC090587.5,upstream_gene_variant,,ENST00000415809,;"	"-"	"ENSG00000167323"	"ENST00000300737"	"Transcript"	"5_prime_UTR_variant"	"183-187/4038"	"-/2058"	"-/685"	""	""	"rs147711952"	"1"	NA	1	"STIM1"	"HGNC"	11386	"protein_coding"	"YES"	"CCDS7749.1"	"ENSP00000300737"	"Q13586"	"E9PRZ7,E9PRE4,E9PR09,E9PR07,E9PNJ4,E9PMB4,E9PJ19,E9PIQ8"	"UPI00000724B7"	"NM_003156.3,NM_001277961.1,NM_001277962.1"	NA	NA	"1/12"	""	""	"-:0.2688"	"-:0.0734"	"-:0.3746"	NA	"-:0.3542"	"-:0.3807"	"-:0.2546"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCTCTCTT"	"30643270-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"489"	"OR52A5"	390054	"mskcc.org"	"GRCh37"	"11"	5154235	5154236	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs72219241"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000307388"	""	11	"."	3	2	"."	0	"OR52A5,upstream_gene_variant,,ENST00000307388,NM_001005160.2;"	"A"	"ENSG00000171944"	"ENST00000307388"	"Transcript"	"upstream_gene_variant"	"-/951"	"-/951"	"-/316"	""	""	"rs72219241"	"1"	"363"	-1	"OR52A5"	"HGNC"	19580	"protein_coding"	"YES"	"CCDS31373.1"	"ENSP00000303469"	"Q9H2C5"	""	"UPI0000046AEF"	"NM_001005160.2"	NA	NA	""	""	""	"A:0.2075"	"A:0.0431"	"A:0.2349"	NA	"A:0.3909"	"A:0.2048"	"A:0.2239"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"4b244834-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"490"	"HBG2"	3048	"mskcc.org"	"GRCh37"	"11"	5291563	5291564	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs3834466"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-437-15169dupA"	""	""	"ENST00000380259"	""	10	"."	7	2	"."	0	"HBG2,intron_variant,,ENST00000380259,;HBE1,intron_variant,,ENST00000380237,;HBG2,intron_variant,,ENST00000380252,;HBE1,intron_variant,,ENST00000396895,;HBE1,upstream_gene_variant,,ENST00000292896,NM_005330.3;"	"T"	"ENSG00000196565"	"ENST00000380259"	"Transcript"	"intron_variant"	"-/1772"	"-/444"	"-/147"	""	""	"rs3834466"	"1"	NA	-1	"HBG2"	"HGNC"	4832	"protein_coding"	"YES"	"CCDS7755.1"	"ENSP00000369609"	"P69892"	"Q9UNL6,Q9UJ01,Q14476,Q14474,Q14402,D9YZU9,A1EGU3"	"UPI00000012DA"	""	NA	NA	""	"5/7"	""	"T:0.4986"	"T:0.1906"	"T:0.5937"	NA	"T:0.7669"	"T:0.4712"	"T:0.5992"	""	""	NA	NA	"17724704,20353593"	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"4b2eafea-2764-11e6-8c6e-9077424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"491"	"PRKCDBP"	112464	"mskcc.org"	"GRCh37"	"11"	6342489	6342490	"+"	"5'Flank"	"INS"	"-"	"-"	"TCT"	"rs10632154"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000303927"	""	8	"."	4	1	"."	0	"PRKCDBP,upstream_gene_variant,,ENST00000303927,NM_145040.2;PRKCDBP,upstream_gene_variant,,ENST00000530979,;PRKCDBP,upstream_gene_variant,,ENST00000532354,;PRKCDBP,upstream_gene_variant,,ENST00000524852,;"	"TCT"	"ENSG00000170955"	"ENST00000303927"	"Transcript"	"upstream_gene_variant"	"-/1174"	"-/786"	"-/261"	""	""	"rs10632154"	"1"	"612"	-1	"PRKCDBP"	"HGNC"	9400	"protein_coding"	"YES"	"CCDS7762.1"	"ENSP00000307292"	"Q969G5"	""	"UPI000013E910"	"NM_145040.2"	NA	NA	""	""	""	"-:0.2177"	"TCT:0.5015"	"TCT:0.9107"	NA	"TCT:0.9067"	"TCT:0.9165"	"TCT:0.8047"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"4b76fa02-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"492"	"DNHD1"	144132	"mskcc.org"	"GRCh37"	"11"	6547837	6547838	"+"	"Intron"	"INS"	"-"	"A"	"A"	"rs11433645"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1838-1908dupA"	""	""	"ENST00000254579"	""	9	"."	7	1	"."	0	"DNHD1,intron_variant,,ENST00000254579,NM_144666.2;DNHD1,intron_variant,,ENST00000527990,;DNHD1,upstream_gene_variant,,ENST00000534210,;"	"A"	"ENSG00000179532"	"ENST00000254579"	"Transcript"	"intron_variant"	"-/14862"	"-/14262"	"-/4753"	""	""	"rs11433645"	"1"	NA	1	"DNHD1"	"HGNC"	26532	"protein_coding"	"YES"	"CCDS44532.1"	"ENSP00000254579"	"Q96M86"	""	"UPI0001929529"	"NM_144666.2"	NA	NA	""	"10/42"	""	"-:0.2702"	"A:0.6944"	"A:0.6571"	NA	"A:0.874"	"A:0.6302"	"A:0.7832"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"4b7fa774-2764-11e6-8c6e-9077424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	FALSE
"493"	"NLRP14"	338323	"mskcc.org"	"GRCh37"	"11"	7060589	7060590	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs10533835"	NA	"JHCCPT1"	"JHCCPN1"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.290-345_290-344delAT"	""	""	"ENST00000299481"	""	10	"."	3	1	"."	0	"NLRP14,intron_variant,,ENST00000299481,NM_176822.3;"	"-"	"ENSG00000158077"	"ENST00000299481"	"Transcript"	"intron_variant"	"-/3628"	"-/3282"	"-/1093"	""	""	"rs10533835"	"1"	NA	1	"NLRP14"	"HGNC"	22939	"protein_coding"	"YES"	"CCDS7776.1"	"ENSP00000299481"	"Q86W24"	""	"UPI0000167F6E"	"NM_176822.3"	NA	NA	""	"2/11"	""	"TA:0.3180"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"11"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTAT"	"31d144fe-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"494"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	7206153	7206154	"+"	"IGR"	"INS"	"-"	"-"	"AATAAT"	"rs141096735"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	1	"."	0	""	"AATAAT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141096735"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AATAAT:0.2226"	"AATAAT:0.1089"	"AATAAT:0.1787"	NA	"AATAAT:0.3393"	"AATAAT:0.2425"	"AATAAT:0.2669"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"4b9e7b5e-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"495"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	8393185	8393187	"+"	"IGR"	"DEL"	"TTC"	"TTC"	"-"	"rs138035251"	NA	"JHCCPT1"	"JHCCPN1"	"TTC"	"TTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	10	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138035251"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TTC:0.4429"	"-:0.6513"	"-:0.5735"	NA	"-:0.4831"	"-:0.5547"	"-:0.4969"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTCT"	"324d963a-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"496"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	9474839	9474840	"+"	"IGR"	"INS"	"-"	"-"	"CCTGTAAT"	"rs111403461"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	4	"."	0	""	"CCTGTAAT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs111403461"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CCTGTAAT:0.4531"	"CCTGTAAT:0.5295"	"CCTGTAAT:0.5159"	NA	"CCTGTAAT:0.2956"	"CCTGTAAT:0.5189"	"CCTGTAAT:0.3998"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"4c103122-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"497"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	9644862	9644875	"+"	"IGR"	"DEL"	"CTGCCTGGCTGCTC"	"CTGCCTGGCTGCTC"	"-"	"rs72243320"	NA	"JHCCPT1"	"JHCCPN1"	"CTGCCTGGCTGCTC"	"CTGCCTGGCTGCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs72243320"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3343"	"-:0.292"	"-:0.366"	NA	"-:0.4117"	"-:0.2475"	"-:0.3783"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCTGCCTGGCTGCTCC"	"32b779f6-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"498"	"MRVI1"	10335	"mskcc.org"	"GRCh37"	"11"	10701951	10701952	"+"	"Intron"	"INS"	"-"	"-"	"GAAGGAAAGAAAGGAAA"	"rs374248232"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67+13131_67+13132insTTTCCTTTCTTTCCTTC"	""	""	"ENST00000423302"	""	11	"."	3	6	"."	0	"MRVI1,intron_variant,,ENST00000547195,NM_001100163.2,NM_001206881.1;MRVI1,intron_variant,,ENST00000423302,NM_130385.3,NM_001206880.1;MRVI1,intron_variant,,ENST00000558540,NM_001100167.2;MRVI1,intron_variant,,ENST00000527509,;MRVI1,intron_variant,,ENST00000541483,;MRVI1,intron_variant,,ENST00000529547,;MRVI1,intron_variant,,ENST00000532037,;MRVI1,intron_variant,,ENST00000531786,;MRVI1,intron_variant,,ENST00000529448,;MRVI1,intron_variant,,ENST00000526414,;MRVI1,intron_variant,,ENST00000531308,;MRVI1,intron_variant,,ENST00000529068,;"	"GAAGGAAAGAAAGGAAA"	"ENSG00000072952"	"ENST00000423302"	"Transcript"	"intron_variant"	"-/6126"	"-/2739"	"-/912"	""	""	"rs374248232"	"1"	NA	-1	"MRVI1"	"HGNC"	7237	"protein_coding"	"YES"	"CCDS55746.1"	"ENSP00000412130"	"Q9Y6F6"	"H0YI08,E9PRG4"	"UPI0001F78343"	"NM_130385.3,NM_001206880.1"	NA	NA	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"4c2a54ee-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"499"	"MRVI1"	10335	"mskcc.org"	"GRCh37"	"11"	10702087	10702088	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs149163071"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67+12995_67+12996insTT"	""	""	"ENST00000423302"	""	20	"."	4	3	"."	0	"MRVI1,intron_variant,,ENST00000547195,NM_001100163.2,NM_001206881.1;MRVI1,intron_variant,,ENST00000423302,NM_130385.3,NM_001206880.1;MRVI1,intron_variant,,ENST00000558540,NM_001100167.2;MRVI1,intron_variant,,ENST00000527509,;MRVI1,intron_variant,,ENST00000541483,;MRVI1,intron_variant,,ENST00000529547,;MRVI1,intron_variant,,ENST00000532037,;MRVI1,intron_variant,,ENST00000531786,;MRVI1,intron_variant,,ENST00000529448,;MRVI1,intron_variant,,ENST00000526414,;MRVI1,intron_variant,,ENST00000531308,;MRVI1,intron_variant,,ENST00000529068,;"	"AA"	"ENSG00000072952"	"ENST00000423302"	"Transcript"	"intron_variant"	"-/6126"	"-/2739"	"-/912"	""	""	"rs149163071"	"1"	NA	-1	"MRVI1"	"HGNC"	7237	"protein_coding"	"YES"	"CCDS55746.1"	"ENSP00000412130"	"Q9Y6F6"	"H0YI08,E9PRG4"	"UPI0001F78343"	"NM_130385.3,NM_001206880.1"	NA	NA	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"4c2fc1ea-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"500"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	10960286	10960289	"+"	"IGR"	"DEL"	"TCTA"	"TCTA"	"-"	"rs67586651"	NA	"JHCCPT1"	"JHCCPN1"	"TCTA"	"TCTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs67586651"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2907"	"-:0.3343"	"-:0.2795"	NA	"-:0.1677"	"-:0.3887"	"-:0.2658"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTCTAT"	"32dbba8c-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"501"	"MICAL2"	9645	"mskcc.org"	"GRCh37"	"11"	12270297	12270298	"+"	"Intron"	"INS"	"-"	"-"	"ACCTGGTAGGAGGATAAATCTCAGGGAC"	"rs3842644"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2785-432_2785-405dupCCTGGTAGGAGGATAAATCTCAGGGACA"	""	""	"ENST00000256194"	""	11	"."	6	6	"."	0	"MICAL2,intron_variant,,ENST00000256194,NM_014632.2,NM_001282663.1;MICAL2,intron_variant,,ENST00000537344,NM_001282665.1;MICAL2,intron_variant,,ENST00000342902,NM_001282664.1;MICAL2,intron_variant,,ENST00000527546,NM_001282665.1;MICAL2,intron_variant,,ENST00000379612,NM_001282666.1;MICAL2,intron_variant,,ENST00000525979,;MICAL2,intron_variant,,ENST00000534563,;MICAL2,upstream_gene_variant,,ENST00000526672,;MICAL2,downstream_gene_variant,,ENST00000526475,;MICAL2,intron_variant,,ENST00000530691,;MICAL2,intron_variant,,ENST00000528931,;MICAL2,intron_variant,,ENST00000525075,;MICAL2,upstream_gene_variant,,ENST00000530021,;MICAL2,upstream_gene_variant,,ENST00000525618,;"	"ACCTGGTAGGAGGATAAATCTCAGGGAC"	"ENSG00000133816"	"ENST00000256194"	"Transcript"	"intron_variant"	"-/3906"	"-/3375"	"-/1124"	""	""	"rs3842644"	"1"	NA	1	"MICAL2"	"HGNC"	24693	"protein_coding"	"YES"	"CCDS7809.1"	"ENSP00000256194"	"O94851"	"E9PRE0,E9PNC3,E9PL42,E9PKI3,E9PJB0"	"UPI000000DA92"	"NM_014632.2,NM_001282663.1"	NA	NA	""	"21/27"	""	"-:0.4209"	"ACCTGGTAGGAGGATAAATCTCAGGGAC:0.6286"	"ACCTGGTAGGAGGATAAATCTCAGGGAC:0.598"	NA	"ACCTGGTAGGAGGATAAATCTCAGGGAC:0.3234"	"ACCTGGTAGGAGGATAAATCTCAGGGAC:0.6799"	"ACCTGGTAGGAGGATAAATCTCAGGGAC:0.6585"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"29"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"4c773a2a-2764-11e6-8c6e-9077424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"502"	"TEAD1"	7003	"mskcc.org"	"GRCh37"	"11"	12900180	12900181	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs5789751"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.331-1069dupT"	""	""	"ENST00000361985"	""	19	"."	5	3	"."	0	"TEAD1,intron_variant,,ENST00000361905,NM_021961.5;TEAD1,intron_variant,,ENST00000361985,;TEAD1,intron_variant,,ENST00000334310,;TEAD1,intron_variant,,ENST00000527575,;TEAD1,intron_variant,,ENST00000527636,;TEAD1,upstream_gene_variant,,ENST00000526600,;"	"T"	"ENSG00000187079"	"ENST00000361985"	"Transcript"	"intron_variant"	"-/8156"	"-/1281"	"-/426"	""	""	"rs5789751"	"1"	NA	1	"TEAD1"	"HGNC"	11714	"protein_coding"	"YES"	"CCDS7810.2"	"ENSP00000354588"	""	"H0YE88,H0YCZ6"	"UPI000013D412"	""	NA	NA	""	"4/11"	""	"-:0.3898"	"T:0.4425"	"T:0.3963"	NA	"T:0.9415"	"T:0.5408"	"T:0.7188"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"4c964d16-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"503"	"CTC-497E21.5"	0	"mskcc.org"	"GRCh37"	"11"	13115583	13115622	"+"	"Intron"	"DEL"	"TACTAATGTGGGTGGGCTAACTGTAATCCTAACTCTGACC"	"TACTAATGTGGGTGGGCTAACTGTAATCCTAACTCTGACC"	"ATATGAATGTGGGTGGGCTAACTGTAATCCTAACT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TACTAATGTGGGTGGGCTAACTGTAATCCTAACTCTGACC"	"TACTAATGTGGGTGGGCTAACTGTAATCCTAACTCTGACC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.48-39041_48-39002delGGTCAGAGTTAGGATTACAGTTAGCCCACCCACATTAGTAinsAGTTAGGATTACAGTTAGCCCACCCACATTCATAT"	""	""	"ENST00000531136"	""	30	"."	7	5	"."	0	"CTC-497E21.5,intron_variant,,ENST00000531136,;"	"ATATGAATGTGGGTGGGCTAACTGTAATCCTAACT"	"ENSG00000255558"	"ENST00000531136"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/467"	""	""	""	""	""	"1"	NA	-1	"CTC-497E21.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATACTAATGTGGGTGGGCTAACTGTAATCCTAACTCTGACCC"	"48e5dd6c-2764-11e6-8c6e-9077424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WXS"	FALSE
"504"	"ARNTL"	406	"mskcc.org"	"GRCh37"	"11"	13345927	13345927	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34445652"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-189-2030delT"	""	""	"ENST00000389707"	""	12	"."	3	2	"."	0	"ARNTL,intron_variant,,ENST00000389708,;ARNTL,intron_variant,,ENST00000401424,NM_001030273.1;ARNTL,intron_variant,,ENST00000389707,NM_001178.4;ARNTL,intron_variant,,ENST00000403290,;ARNTL,intron_variant,,ENST00000403510,;ARNTL,intron_variant,,ENST00000396441,NM_001030272.1;ARNTL,intron_variant,,ENST00000361003,;ARNTL,intron_variant,,ENST00000530357,;ARNTL,intron_variant,,ENST00000534544,;ARNTL,intron_variant,,ENST00000482049,;ARNTL,intron_variant,,ENST00000529388,;ARNTL,intron_variant,,ENST00000529050,;ARNTL,intron_variant,,ENST00000533520,;ARNTL,intron_variant,,ENST00000529825,;ARNTL,intron_variant,,ENST00000527998,;ARNTL,intron_variant,,ENST00000531665,;ARNTL,intron_variant,,ENST00000480685,;"	"-"	"ENSG00000133794"	"ENST00000389707"	"Transcript"	"intron_variant"	"-/2776"	"-/1878"	"-/625"	""	""	"rs34445652"	"1"	NA	1	"ARNTL"	"HGNC"	701	"protein_coding"	"YES"	"CCDS31430.1"	"ENSP00000374357"	"O00327"	"E9PSD2,E9PL54,E9PKN1,E9PKG7,E9PKF0"	"UPI00001D70A3"	"NM_001178.4"	NA	NA	""	"2/19"	""	"-:0.4645"	"-:0.3563"	"-:0.5202"	NA	"-:0.4058"	"-:0.6302"	"-:0.4611"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"3321048e-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"505"	"PTH"	5741	"mskcc.org"	"GRCh37"	"11"	13514631	13514634	"+"	"Intron"	"DEL"	"TTTA"	"TTTA"	"-"	"rs141879370"	NA	"JHCCPT1"	"JHCCPN1"	"TTTA"	"TTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-5-227_-5-224delTAAA"	""	""	"ENST00000282091"	""	26	"."	3	6	"."	0	"PTH,intron_variant,,ENST00000282091,NM_000315.2;PTH,intron_variant,,ENST00000529816,;RP11-15D14.2,downstream_gene_variant,,ENST00000532318,;"	"-"	"ENSG00000152266"	"ENST00000282091"	"Transcript"	"intron_variant"	"-/813"	"-/348"	"-/115"	""	""	"rs141879370"	"1"	NA	-1	"PTH"	"HGNC"	9606	"protein_coding"	"YES"	"CCDS7812.1"	"ENSP00000282091"	"P01270"	""	"UPI000013290A"	"NM_000315.2"	NA	NA	""	"1/2"	""	"-:0.4976"	"-:0.5817"	"-:0.5865"	NA	"-:0.6935"	"-:0.34"	"-:0.2812"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTTTTAT"	"3334f70a-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WXS"	FALSE
"506"	"INSC"	387755	"mskcc.org"	"GRCh37"	"11"	15205762	15205762	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34078033"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.720+5771delT"	""	""	"ENST00000379554"	""	16	"."	6	4	"."	0	"INSC,intron_variant,,ENST00000379554,NM_001031853.4;INSC,intron_variant,,ENST00000379556,NM_001042536.2;INSC,intron_variant,,ENST00000424273,;INSC,intron_variant,,ENST00000528567,NM_001278315.1;INSC,intron_variant,,ENST00000530161,NM_001278313.1,NM_001278314.1;INSC,intron_variant,,ENST00000525218,NM_001278316.1;INSC,upstream_gene_variant,,ENST00000447214,;"	"-"	"ENSG00000188487"	"ENST00000379554"	"Transcript"	"intron_variant"	"-/2954"	"-/1740"	"-/579"	""	""	"rs34078033"	"1"	NA	1	"INSC"	"HGNC"	33116	"protein_coding"	"YES"	"CCDS41621.1"	"ENSP00000368872"	"Q1MX18"	""	"UPI0000D63F1D"	"NM_001031853.4"	NA	NA	""	"5/12"	""	"T:0.2109"	"-:0.556"	"-:0.8473"	NA	"-:0.9772"	"-:0.7545"	"-:0.9049"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"3368fb0e-2764-11e6-8c6e-9077424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"507"	"PLEKHA7"	144100	"mskcc.org"	"GRCh37"	"11"	16813702	16813703	"+"	"Intron"	"DEL"	"CA"	"CA"	"-"	"rs10577416"	NA	"JHCCPT1"	"JHCCPN1"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2746-957_2746-956delTG"	""	""	"ENST00000355661"	""	6	"."	3	1	"."	0	"PLEKHA7,intron_variant,,ENST00000355661,;PLEKHA7,intron_variant,,ENST00000448080,NM_175058.4;PLEKHA7,intron_variant,,ENST00000531066,;PLEKHA7,intron_variant,,ENST00000530489,;PLEKHA7,intron_variant,,ENST00000532079,;PLEKHA7,downstream_gene_variant,,ENST00000525581,;PLEKHA7,upstream_gene_variant,,ENST00000332954,;PLEKHA7,upstream_gene_variant,,ENST00000533901,;PLEKHA7,intron_variant,,ENST00000525781,;PLEKHA7,intron_variant,,ENST00000525177,;PLEKHA7,upstream_gene_variant,,ENST00000531776,;PLEKHA7,upstream_gene_variant,,ENST00000533251,;"	"-"	"ENSG00000166689"	"ENST00000355661"	"Transcript"	"intron_variant"	"-/4980"	"-/3366"	"-/1121"	""	""	"rs10577416"	"1"	NA	-1	"PLEKHA7"	"HGNC"	27049	"protein_coding"	"YES"	"CCDS31434.1"	"ENSP00000347883"	"Q6IQ23"	"E9PL74,E9PIK1"	"UPI0000456498"	""	NA	NA	""	"19/22"	""	"-:0.0643"	"-:0.025"	"-:0.0821"	NA	"-:0.0714"	"-:0.1074"	"-:0.0532"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCAC"	"3386c896-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"508"	"SAA2"	6289	"mskcc.org"	"GRCh37"	"11"	18267189	18267189	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs58546509"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.231-127delT"	""	""	"ENST00000526900"	""	14	"."	4	3	"."	0	"SAA2,intron_variant,,ENST00000414546,NM_001127380.2;SAA2,intron_variant,,ENST00000528349,;SAA2,intron_variant,,ENST00000526900,;SAA2,intron_variant,,ENST00000529528,;SAA2,intron_variant,,ENST00000256733,NM_030754.4;SAA2,intron_variant,,ENST00000530400,;RNA5SP333,downstream_gene_variant,,ENST00000363466,;SAA2-SAA4,intron_variant,,ENST00000524555,;"	"-"	"ENSG00000134339"	"ENST00000526900"	"Transcript"	"intron_variant"	"-/687"	"-/369"	"-/122"	""	""	"rs58546509"	"1"	NA	-1	"SAA2"	"HGNC"	10514	"protein_coding"	"YES"	"CCDS7833.1"	"ENSP00000436126"	"P0DJI9"	""	"UPI000016A553"	""	NA	NA	""	"3/3"	""	"-:0.2520"	"-:0.1921"	"-:0.2968"	NA	"-:0.0516"	"-:0.4533"	"-:0.3006"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"33ea2e9a-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"509"	"SAA1"	6288	"mskcc.org"	"GRCh37"	"11"	18290379	18290397	"+"	"Intron"	"DEL"	"AAAAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAAAA"	"-"	"rs371021832"	NA	"JHCCPT1"	"JHCCPN1"	"AAAAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.92-350_92-332delAAAAAAAAAAAAAAAAAAA"	""	""	"ENST00000405158"	""	6	"."	3	5	"."	0	"SAA1,intron_variant,,ENST00000405158,NM_000331.4;SAA1,intron_variant,,ENST00000356524,NM_199161.3;SAA1,intron_variant,,ENST00000532858,NM_001178006.1;RNA5SP334,downstream_gene_variant,,ENST00000364825,;"	"-"	"ENSG00000173432"	"ENST00000405158"	"Transcript"	"intron_variant"	"-/675"	"-/369"	"-/122"	""	""	"rs371021832"	"1"	NA	1	"SAA1"	"HGNC"	10513	"protein_coding"	"YES"	"CCDS7835.1"	"ENSP00000384906"	"P0DJI8"	"E9PQD6"	"UPI000013F119"	"NM_000331.4"	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"13"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTAAAAAAAAAAAAAAAAAAAA"	"33eb3330-2764-11e6-8c6e-9077424a729f"	"145"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"510"	"LDHA"	3939	"mskcc.org"	"GRCh37"	"11"	18427387	18427390	"+"	"Intron"	"DEL"	"AAAC"	"AAAC"	"-"	"rs10562494"	NA	"JHCCPT1"	"JHCCPN1"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.921+268_921+271delAAAC"	""	""	"ENST00000540430"	""	15	"."	8	3	"."	0	"LDHA,intron_variant,,ENST00000422447,NM_005566.3,NM_001135239.1;LDHA,intron_variant,,ENST00000540430,NM_001165414.1;LDHA,intron_variant,,ENST00000379412,;LDHA,intron_variant,,ENST00000227157,NM_001165416.1;LDHA,intron_variant,,ENST00000396222,NM_001165415.1;LDHA,intron_variant,,ENST00000430553,;LDHA,intron_variant,,ENST00000542179,;LDHA,downstream_gene_variant,,ENST00000478970,;LDHA,downstream_gene_variant,,ENST00000495052,;LDHA,downstream_gene_variant,,ENST00000543445,;AC084117.3,intron_variant,,ENST00000496975,;LDHA,intron_variant,,ENST00000375710,;LDHA,intron_variant,,ENST00000538451,;LDHA,intron_variant,,ENST00000545215,;LDHA,intron_variant,,ENST00000541097,;LDHA,downstream_gene_variant,,ENST00000537296,;LDHA,downstream_gene_variant,,ENST00000460405,;LDHA,downstream_gene_variant,,ENST00000486690,;LDHA,downstream_gene_variant,,ENST00000545467,;LDHA,downstream_gene_variant,,ENST00000539814,;LDHA,downstream_gene_variant,,ENST00000543695,;LDHA,downstream_gene_variant,,ENST00000536528,;"	"-"	"ENSG00000134333"	"ENST00000540430"	"Transcript"	"intron_variant"	"-/2305"	"-/1086"	"-/361"	""	""	"rs10562494"	"1"	NA	1	"LDHA"	"HGNC"	6535	"protein_coding"	"YES"	"CCDS53609.1"	"ENSP00000445175"	"P00338"	"F5H8H6,F5GZQ4,F5GXY2,F5GXH2"	"UPI0001914F68"	"NM_001165414.1"	NA	NA	""	"7/7"	""	"AAAC:0.3650"	"-:0.4183"	"-:0.7334"	NA	"-:0.6488"	"-:0.7336"	"-:0.7423"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATAAACT"	"3400df96-2764-11e6-8c6e-9077424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.533333333333333	"WXS"	FALSE
"511"	"LDHC"	3948	"mskcc.org"	"GRCh37"	"11"	18434533	18434540	"+"	"Intron"	"DEL"	"CCTTCCTT"	"CCTTCCTT"	"-"	"rs201993031"	NA	"JHCCPT1"	"JHCCPN1"	"CCTTCCTT"	"CCTTCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.126+159_126+166delCCTTCCTT"	""	""	"ENST00000541669"	""	41	"."	8	19	"."	0	"LDHC,intron_variant,,ENST00000541669,;LDHC,intron_variant,,ENST00000280704,NM_017448.3,NM_002301.4;LDHC,intron_variant,,ENST00000536880,;LDHC,intron_variant,,ENST00000544105,;LDHC,intron_variant,,ENST00000535809,;LDHC,intron_variant,,ENST00000546146,;LDHC,intron_variant,,ENST00000537486,;LDHA,downstream_gene_variant,,ENST00000422447,NM_005566.3,NM_001135239.1;LDHA,downstream_gene_variant,,ENST00000540430,NM_001165414.1;LDHA,downstream_gene_variant,,ENST00000227157,NM_001165416.1;LDHA,downstream_gene_variant,,ENST00000396222,NM_001165415.1;LDHC,intron_variant,,ENST00000396215,;LDHC,intron_variant,,ENST00000539369,;LDHC,intron_variant,,ENST00000545848,;"	"-"	"ENSG00000166796"	"ENST00000541669"	"Transcript"	"intron_variant"	"-/2041"	"-/999"	"-/332"	""	""	"rs201993031"	"1"	NA	1	"LDHC"	"HGNC"	6544	"protein_coding"	"YES"	"CCDS7840.1"	"ENSP00000437783"	"P07864"	"G9BCZ1"	"UPI000013DC34"	""	NA	NA	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCCTTCCTTC"	"340258e4-2764-11e6-8c6e-9077424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195121951219512	"WXS"	FALSE
"512"	"TSG101"	7251	"mskcc.org"	"GRCh37"	"11"	18511618	18511619	"+"	"Intron"	"DEL"	"GA"	"GA"	"-"	"rs77974643"	NA	"JHCCPT1"	"JHCCPN1"	"GA"	"GA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.641-6000_641-5999delTC"	""	""	"ENST00000251968"	""	9	"."	4	9	"."	0	"TSG101,intron_variant,,ENST00000536719,;TSG101,intron_variant,,ENST00000251968,NM_006292.3;TSG101,intron_variant,,ENST00000357193,;TSG101,downstream_gene_variant,,ENST00000543087,;TSG101,intron_variant,,ENST00000545247,;TSG101,intron_variant,,ENST00000543054,;RP11-613F22.5,downstream_gene_variant,,ENST00000540201,;"	"-"	"ENSG00000074319"	"ENST00000251968"	"Transcript"	"intron_variant"	"-/1824"	"-/1173"	"-/390"	""	""	"rs77974643"	"1"	NA	-1	"TSG101"	"HGNC"	15971	"protein_coding"	"YES"	"CCDS7842.1"	"ENSP00000251968"	"Q99816"	"L0L6B6,J3QRU6,D3DQY6"	"UPI000004750C"	"NM_006292.3"	NA	NA	""	"7/9"	""	"-:0.2538"	"-:0.0492"	"-:0.2349"	NA	"-:0.4474"	"-:0.1978"	"-:0.4018"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGAG"	"340640e4-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"513"	"NAV2"	89797	"mskcc.org"	"GRCh37"	"11"	19513503	19513508	"+"	"Intron"	"DEL"	"AGAGAG"	"AGAGAG"	"-"	"rs150403869"	NA	"JHCCPT1"	"JHCCPN1"	"AGAGAG"	"AGAGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.75+140954_75+140959delGAGAGA"	""	""	"ENST00000360655"	""	9	"."	5	1	"."	0	"NAV2,intron_variant,,ENST00000360655,NM_001111018.1;"	"-"	"ENSG00000166833"	"ENST00000360655"	"Transcript"	"intron_variant"	"-/10667"	"-/7098"	"-/2365"	""	""	"rs150403869"	"1"	NA	1	"NAV2"	"HGNC"	15997	"protein_coding"	""	"CCDS53612.1"	"ENSP00000353871"	"Q8IVL1"	""	"UPI0000228C68"	"NM_001111018.1"	NA	NA	""	"1/37"	""	"AGAGAG:0.3514"	"-:0.3737"	"-:0.7594"	NA	"-:0.6706"	"-:0.7932"	"-:0.7699"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"25"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGAGAGA"	"3456634e-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"514"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	21725202	21725202	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs35608456"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	6	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35608456"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4299"	"-:0.3147"	"-:0.3559"	NA	"-:0.4117"	"-:0.5596"	"-:0.5235"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"3494909c-2764-11e6-8c6e-9077424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"515"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	21973780	21973781	"+"	"IGR"	"INS"	"-"	"-"	"TTCA"	"rs111486687"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	1	"."	0	""	"TTCA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs111486687"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TTCA:0.4920"	"TTCA:0.3805"	"TTCA:0.572"	NA	"TTCA:0.6726"	"TTCA:0.4245"	"TTCA:0.4693"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"4db2e132-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"516"	"ANO5"	203859	"mskcc.org"	"GRCh37"	"11"	22239622	22239622	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs60388835"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.139-164delT"	""	""	"ENST00000324559"	""	18	"."	4	3	"."	0	"ANO5,intron_variant,,ENST00000324559,NM_001142649.1,NM_213599.2;"	"-"	"ENSG00000171714"	"ENST00000324559"	"Transcript"	"intron_variant"	"-/6651"	"-/2742"	"-/913"	""	""	"rs60388835"	"1"	NA	1	"ANO5"	"HGNC"	27337	"protein_coding"	"YES"	"CCDS31444.1"	"ENSP00000315371"	"Q75V66"	""	"UPI000035B19B"	"NM_001142649.1,NM_213599.2"	NA	NA	""	"3/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTT"	"349e9b8c-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"517"	"LUZP2"	338645	"mskcc.org"	"GRCh37"	"11"	25083770	25083771	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs10639613"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.858+12096_858+12097dupAA"	""	""	"ENST00000336930"	""	10	"."	4	5	"."	0	"LUZP2,intron_variant,,ENST00000533227,NM_001009909.3,NM_001252008.1;LUZP2,intron_variant,,ENST00000336930,;"	"AA"	"ENSG00000187398"	"ENST00000336930"	"Transcript"	"intron_variant"	"-/3553"	"-/1041"	"-/346"	""	""	"rs10639613"	"1"	NA	1	"LUZP2"	"HGNC"	23206	"protein_coding"	"YES"	"CCDS31446.1"	"ENSP00000336817"	"Q86TE4"	""	"UPI000019816C"	""	NA	NA	""	"10/11"	""	"AA:0.3093"	"AA:0.2405"	"AA:0.4006"	NA	"AA:0.0764"	"AA:0.4622"	"AA:0.4202"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"4dd217be-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"518"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	26807498	26807501	"+"	"IGR"	"DEL"	"TTCT"	"TTCT"	"-"	"rs10543888"	NA	"JHCCPT1"	"JHCCPN1"	"TTCT"	"TTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10543888"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TTCT:0.2742"	"-:0.3911"	"-:0.866"	NA	"-:0.8343"	"-:0.8728"	"-:0.816"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTCTT"	"3510204a-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"519"	"BBOX1"	8424	"mskcc.org"	"GRCh37"	"11"	27078643	27078644	"+"	"Intron"	"INS"	"-"	"-"	"ATA"	"rs140671117"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.220-102_220-100dupAAT"	""	""	"ENST00000263182"	""	99	"."	5	51	"."	0	"BBOX1,intron_variant,,ENST00000263182,NM_003986.2;BBOX1,intron_variant,,ENST00000529202,;BBOX1,intron_variant,,ENST00000528583,;BBOX1,intron_variant,,ENST00000525090,;BBOX1,downstream_gene_variant,,ENST00000533566,;RP11-1L12.3,intron_variant,,ENST00000526061,;BBOX1,intron_variant,,ENST00000527505,;BBOX1,intron_variant,,ENST00000534323,;"	"ATA"	"ENSG00000129151"	"ENST00000263182"	"Transcript"	"intron_variant"	"-/1886"	"-/1164"	"-/387"	""	""	"rs140671117"	"1"	NA	1	"BBOX1"	"HGNC"	964	"protein_coding"	"YES"	"CCDS7862.1"	"ENSP00000263182"	"O75936"	"Q1KLS6,E9PKC9"	"UPI0000126A4C"	"NM_003986.2"	NA	NA	""	"3/8"	""	"ATA:0.2538"	"ATA:0.0121"	"ATA:0.2579"	NA	"ATA:0.4444"	"ATA:0.3698"	"ATA:0.2618"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"4e0ad0ae-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0505050505050505	"WXS"	FALSE
"520"	"RNA5SP339"	0	"mskcc.org"	"GRCh37"	"11"	27539129	27539130	"+"	"3'Flank"	"INS"	"-"	"-"	"TCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390987"	""	12	"."	5	6	"."	0	"RNA5SP339,downstream_gene_variant,,ENST00000390987,;BDNF-AS,intron_variant,,ENST00000499008,;BDNF-AS,intron_variant,,ENST00000499568,;BDNF-AS,intron_variant,,ENST00000501176,;BDNF-AS,intron_variant,,ENST00000500662,;BDNF-AS,intron_variant,,ENST00000502161,;BDNF-AS,intron_variant,,ENST00000530686,;BDNF-AS,intron_variant,,ENST00000532965,;"	"TCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTT"	"ENSG00000212289"	"ENST00000390987"	"Transcript"	"downstream_gene_variant"	"-/122"	""	""	""	""	""	"1"	"4022"	-1	"RNA5SP339"	"HGNC"	43239	"rRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"4e2082a0-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"521"	"RP11-587D21.4"	0	"mskcc.org"	"GRCh37"	"11"	27860138	27860140	"+"	"Intron"	"DEL"	"CTT"	"-"	"-"	"rs66657968"	NA	"JHCCPT1"	"JHCCPN1"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.147+38909_147+38911delAAG"	""	""	"ENST00000530663"	""	11	"."	8	1	"."	0	"RP11-587D21.4,intron_variant,,ENST00000530663,;"	"-"	"ENSG00000255496"	"ENST00000530663"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/358"	""	""	""	""	"rs66657968"	"1"	NA	-1	"RP11-587D21.4"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTC"	"353150ee-2764-11e6-8c6e-9077424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.727272727272727	"WXS"	FALSE
"522"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"11"	33025741	33025742	"+"	"3'Flank"	"INS"	"-"	"-"	"T"	"rs59783458"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000363745"	""	7	"."	4	2	"."	0	"Y_RNA,downstream_gene_variant,,ENST00000363745,;"	"T"	"ENSG00000200615"	"ENST00000363745"	"Transcript"	"downstream_gene_variant"	"-/96"	""	""	""	""	"rs59783458"	"1"	"54"	-1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0705"	"T:0.764"	"T:0.9741"	NA	"T:1"	"T:0.9841"	"T:0.9928"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"4e47d530-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"523"	"PRR5L"	79899	"mskcc.org"	"GRCh37"	"11"	36356956	36356957	"+"	"Intron"	"DEL"	"GT"	"GT"	"-"	"rs72292324"	NA	"JHCCPT1"	"JHCCPN1"	"GT"	"GT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-126+38983_-126+38984delTG"	""	""	"ENST00000530639"	""	6	"."	4	1	"."	0	"PRR5L,intron_variant,,ENST00000530639,NM_001160167.1;PRR5L,intron_variant,,ENST00000527172,;PRR5L,intron_variant,,ENST00000529034,;"	"-"	"ENSG00000135362"	"ENST00000530639"	"Transcript"	"intron_variant"	"-/2291"	"-/1107"	"-/368"	""	""	"rs72292324"	"1"	NA	1	"PRR5L"	"HGNC"	25878	"protein_coding"	""	"CCDS31463.1"	"ENSP00000435050"	"Q6MZQ0"	"E9PS02,E9PP62,E9PP25,E9PLJ6,E9PL62,E9PKK6,E9PJV4,E9PIU0"	"UPI0000DBEF36"	"NM_001160167.1"	NA	NA	""	"1/8"	""	"GT:0.3648"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGTG"	"36346e72-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"524"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	36851206	36851207	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs11451385"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	5	3	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11451385"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2985"	"G:0.6422"	"G:0.7507"	NA	"G:0.87"	"G:0.5905"	"G:0.6871"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"4ea4dc58-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"525"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	38469311	38469312	"+"	"IGR"	"INS"	"-"	"A"	"A"	"rs34832815"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	8	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34832815"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4077"	"A:0.3472"	"A:0.7305"	NA	"A:0.5099"	"A:0.8946"	"A:0.5992"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"4eab5ace-2764-11e6-8c6e-9077424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.888888888888889	"WXS"	FALSE
"526"	"RP11-313M3.1"	0	"mskcc.org"	"GRCh37"	"11"	39182823	39182824	"+"	"5'Flank"	"DEL"	"TA"	"-"	"-"	"rs10583680"	NA	"JHCCPT1"	"JHCCPN1"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000486306"	""	6	"."	6	2	"."	0	"RP11-313M3.1,upstream_gene_variant,,ENST00000486306,;"	"-"	"ENSG00000240975"	"ENST00000486306"	"Transcript"	"upstream_gene_variant"	"-/515"	""	""	""	""	"rs10583680"	"1"	"179"	1	"RP11-313M3.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"TA:0.2200"	"-:0.6543"	"-:0.8314"	NA	"-:0.8452"	"-:0.8917"	"-:0.7311"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTAT"	"36568c64-2764-11e6-8c6e-9077424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"527"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	42642001	42642002	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs11368990"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	3	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11368990"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1450"	"G:0.6838"	"G:0.9352"	NA	"G:0.9067"	"G:0.9493"	"G:0.8793"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"4ec9a84e-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"528"	"PRDM11"	56981	"mskcc.org"	"GRCh37"	"11"	45206223	45206223	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs11300354"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.486+1551delG"	""	""	"ENST00000424263"	""	9	"."	3	2	"."	0	"PRDM11,intron_variant,,ENST00000534751,;PRDM11,intron_variant,,ENST00000263765,;PRDM11,intron_variant,,ENST00000424263,NM_001256695.1,NM_001256696.1;PRDM11,intron_variant,,ENST00000530656,;PRDM11,intron_variant,,ENST00000526442,;PRDM11,intron_variant,,ENST00000528980,;"	"-"	"ENSG00000019485"	"ENST00000424263"	"Transcript"	"intron_variant"	"-/1858"	"-/1434"	"-/477"	""	""	"rs11300354"	"1"	NA	1	"PRDM11"	"HGNC"	13996	"protein_coding"	"YES"	"CCDS58130.1"	"ENSP00000394314"	"Q9NQV5"	"E9PJ09"	"UPI000013FA3F"	"NM_001256695.1,NM_001256696.1"	NA	NA	""	"4/6"	""	"-:0.1338"	"-:0.2965"	"-:0.121"	NA	"-:0"	"-:0.1272"	"-:0.0675"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"36bbc584-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"529"	"MDK"	4192	"mskcc.org"	"GRCh37"	"11"	46404354	46404356	"+"	"Intron"	"DEL"	"CCG"	"CCG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CCG"	"CCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.406+58_406+60delGCC"	""	""	"ENST00000405308"	""	174	"."	6	107	"."	0	"MDK,intron_variant,,ENST00000405308,NM_001270550.1;MDK,intron_variant,,ENST00000407067,NM_001270551.1;MDK,intron_variant,,ENST00000359803,NM_001012334.2;MDK,intron_variant,,ENST00000395565,NM_001012333.2;MDK,intron_variant,,ENST00000395566,NM_002391.4;MDK,intron_variant,,ENST00000395569,NM_001270552.1;DGKZ,downstream_gene_variant,,ENST00000454345,NM_001105540.1;DGKZ,downstream_gene_variant,,ENST00000343674,NM_201532.2;DGKZ,downstream_gene_variant,,ENST00000456247,NM_003646.3,NM_001199267.1;DGKZ,downstream_gene_variant,,ENST00000395574,NM_201533.3;DGKZ,downstream_gene_variant,,ENST00000527911,NM_001199266.1;DGKZ,downstream_gene_variant,,ENST00000318201,NM_001199268.1;DGKZ,downstream_gene_variant,,ENST00000532868,;DGKZ,downstream_gene_variant,,ENST00000421244,;DGKZ,downstream_gene_variant,,ENST00000528615,;DGKZ,downstream_gene_variant,,ENST00000543978,;CHRM4,downstream_gene_variant,,ENST00000433765,NM_000741.2;MDK,downstream_gene_variant,,ENST00000441869,;MDK,downstream_gene_variant,,ENST00000533952,;MDK,intron_variant,,ENST00000533283,;DGKZ,downstream_gene_variant,,ENST00000529660,;MDK,inframe_deletion,p.Arg155del,ENST00000489525,;MDK,non_coding_transcript_exon_variant,,ENST00000490240,;DGKZ,downstream_gene_variant,,ENST00000528173,;DGKZ,downstream_gene_variant,,ENST00000527211,;DGKZ,downstream_gene_variant,,ENST00000524984,;DGKZ,downstream_gene_variant,,ENST00000531879,;DGKZ,downstream_gene_variant,,ENST00000534802,;MDK,downstream_gene_variant,,ENST00000481047,;DGKZ,downstream_gene_variant,,ENST00000532941,;"	"-"	"ENSG00000110492"	"ENST00000405308"	"Transcript"	"intron_variant"	"-/1166"	"-/432"	"-/143"	""	""	""	"1"	NA	1	"MDK"	"HGNC"	6972	"protein_coding"	"YES"	"CCDS7919.1"	"ENSP00000385451"	"P21741"	"E9PPJ5,C9JHA4"	"UPI000003BE10"	"NM_001270550.1"	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCCGC"	"3704bb54-2764-11e6-8c6e-9077424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0344827586206897	"WXS"	FALSE
"530"	"CKAP5"	9793	"mskcc.org"	"GRCh37"	"11"	46776151	46776152	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs143395288"	NA	"JHCCPT1"	"JHCCPN1"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4869+286_4869+287delAT"	""	""	"ENST00000529230"	""	11	"."	3	4	"."	0	"CKAP5,intron_variant,,ENST00000529230,;CKAP5,intron_variant,,ENST00000415402,NM_001008938.3;CKAP5,intron_variant,,ENST00000312055,NM_014756.3;CKAP5,intron_variant,,ENST00000354558,;CKAP5,intron_variant,,ENST00000526876,;CKAP5,intron_variant,,ENST00000527333,;CKAP5,upstream_gene_variant,,ENST00000525896,;SNORD67,downstream_gene_variant,,ENST00000516618,;MIR5582,upstream_gene_variant,,ENST00000579697,;CKAP5,intron_variant,,ENST00000533413,;"	"-"	"ENSG00000175216"	"ENST00000529230"	"Transcript"	"intron_variant"	"-/7121"	"-/6099"	"-/2032"	""	""	"rs143395288"	"1"	NA	-1	"CKAP5"	"HGNC"	28959	"protein_coding"	"YES"	"CCDS31477.1"	"ENSP00000432768"	"Q14008"	"E9PQH5"	"UPI000013F21E"	""	NA	NA	""	"36/43"	""	"-:0.0345"	"-:0.0038"	"-:0.0231"	NA	"-:0.001"	"-:0.0835"	"-:0.0685"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCATA"	"3731f286-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"531"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	48276576	48276576	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs67913759"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs67913759"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4123"	"-:0.4849"	"-:0.7363"	NA	"-:0.5476"	"-:0.7455"	"-:0.5"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAC"	"37ebe0f6-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"532"	"FOLH1"	2346	"mskcc.org"	"GRCh37"	"11"	49195331	49195332	"+"	"Intron"	"INS"	"-"	"-"	"CC"	"rs34076610"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1106-304_1106-303insGG"	""	""	"ENST00000256999"	""	7	"."	4	1	"."	0	"FOLH1,intron_variant,,ENST00000340334,NM_001193472.1,NM_001193471.1;FOLH1,intron_variant,,ENST00000256999,NM_004476.1;FOLH1,intron_variant,,ENST00000356696,NM_001014986.1;FOLH1,intron_variant,,ENST00000533034,;FOLH1,intron_variant,,ENST00000343844,NM_001193473.1;FOLH1,intron_variant,,ENST00000525629,;FOLH1,intron_variant,,ENST00000525826,;FOLH1,intron_variant,,ENST00000458311,;"	"CC"	"ENSG00000086205"	"ENST00000256999"	"Transcript"	"intron_variant"	"-/2635"	"-/2253"	"-/750"	""	""	"rs34076610"	"1"	NA	-1	"FOLH1"	"HGNC"	3788	"protein_coding"	"YES"	"CCDS7946.1"	"ENSP00000256999"	"Q04609"	"Q7Z5D2,Q2VPJ0,E9PMK6,E9PKM3"	"UPI0000000A01"	"NM_004476.1"	NA	NA	""	"9/18"	""	"-:0.0110"	"CC:0.9599"	"CC:0.9986"	NA	"CC:0.999"	"CC:1"	"CC:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"4fc761d2-2764-11e6-8c6e-9077424a729f"	"226"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"533"	"CTD-2026G22.1"	0	"mskcc.org"	"GRCh37"	"11"	49389974	49389974	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35342629"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.796-1878delT"	""	""	"ENST00000529674"	""	14	"."	4	5	"."	0	"CTD-2026G22.1,intron_variant,,ENST00000529081,;CTD-2026G22.1,intron_variant,,ENST00000529674,;"	"-"	"ENSG00000255532"	"ENST00000529674"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1035"	""	""	""	""	"rs35342629"	"1"	NA	1	"CTD-2026G22.1"	"Clone_based_vega_gene"	NA	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTA"	"38189722-2764-11e6-8c6e-9077424a729f"	"220"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"534"	"RP11-707M1.7"	0	"mskcc.org"	"GRCh37"	"11"	49839754	49839755	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs772027334"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.132+296dupC"	""	""	"ENST00000532682"	""	10	"."	4	6	"."	0	"RP11-707M1.7,intron_variant,,ENST00000532682,;"	"C"	"ENSG00000254487"	"ENST00000532682"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/795"	""	""	""	""	"rs772027334"	"1"	NA	1	"RP11-707M1.7"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"4fc9e056-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"535"	"CTNND1"	1500	"mskcc.org"	"GRCh37"	"11"	57538894	57538895	"+"	"Intron"	"INS"	"-"	"-"	"TATATAGAG"	"rs140412383"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-214+9305_-214+9313dupATATAGAGT"	""	""	"ENST00000399050"	""	7	"."	3	1	"."	0	"CTNND1,intron_variant,,ENST00000524630,;CTNND1,intron_variant,,ENST00000399050,NM_001085458.1;CTNND1,intron_variant,,ENST00000361332,NM_001085459.1;CTNND1,intron_variant,,ENST00000360682,;CTNND1,intron_variant,,ENST00000361796,NM_001206885.1,NM_001085461.1;CTNND1,intron_variant,,ENST00000361391,NM_001331.2;CTNND1,intron_variant,,ENST00000358694,NM_001085460.1;CTNND1,intron_variant,,ENST00000529526,NM_001206891.1;CTNND1,intron_variant,,ENST00000532649,NM_001206889.1;CTNND1,intron_variant,,ENST00000534579,;CTNND1,intron_variant,,ENST00000428599,NM_001085462.1;CTNND1,intron_variant,,ENST00000532844,NM_001206883.1;CTNND1,intron_variant,,ENST00000526357,NM_001206886.1;CTNND1,intron_variant,,ENST00000529873,NM_001206887.1;CTNND1,intron_variant,,ENST00000530748,NM_001206884.1;CTNND1,intron_variant,,ENST00000528621,NM_001206888.1;CTNND1,intron_variant,,ENST00000415361,NM_001085463.1;CTNND1,intron_variant,,ENST00000530094,NM_001085464.1;CTNND1,intron_variant,,ENST00000426142,NM_001085467.1;CTNND1,intron_variant,,ENST00000532787,NM_001085465.1;CTNND1,intron_variant,,ENST00000532463,NM_001206890.1;CTNND1,intron_variant,,ENST00000528232,NM_001085466.1;CTNND1,intron_variant,,ENST00000529986,NM_001085468.1;CTNND1,intron_variant,,ENST00000532245,NM_001085469.1;CTNND1,intron_variant,,ENST00000399039,;CTNND1,intron_variant,,ENST00000527467,;CTNND1,intron_variant,,ENST00000531014,;CTNND1,intron_variant,,ENST00000533667,;CTNND1,intron_variant,,ENST00000525902,;CTNND1,intron_variant,,ENST00000526772,;CTNND1,intron_variant,,ENST00000529919,;CTNND1,intron_variant,,ENST00000526938,;CTNND1,intron_variant,,ENST00000524579,;CTNND1,intron_variant,,ENST00000533189,;TMX2-CTNND1,intron_variant,,ENST00000528395,;RP11-691N7.6,intron_variant,,ENST00000531074,;"	"TATATAGAG"	"ENSG00000198561"	"ENST00000399050"	"Transcript"	"intron_variant"	"-/6313"	"-/2907"	"-/968"	""	""	"rs140412383"	"1"	NA	1	"CTNND1"	"HGNC"	2515	"protein_coding"	"YES"	"CCDS44604.1"	"ENSP00000382004"	"O60716"	"E9PKY0,E9PKL1"	"UPI000012860B"	"NM_001085458.1"	NA	NA	""	"1/20"	""	"TATATAGAG:0.3698"	"TATATAGAG:0.0961"	"TATATAGAG:0.4669"	NA	"TATATAGAG:0.7956"	"TATATAGAG:0.2535"	"TATATAGAG:0.3517"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"5021d5c2-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"536"	"TMA16P1"	0	"mskcc.org"	"GRCh37"	"11"	58563277	58563279	"+"	"3'Flank"	"DEL"	"AAG"	"AAG"	"-"	"rs146577823"	NA	"JHCCPT1"	"JHCCPN1"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000529148"	""	11	"."	5	2	"."	0	"TMA16P1,downstream_gene_variant,,ENST00000529148,;"	"-"	"ENSG00000255265"	"ENST00000529148"	"Transcript"	"downstream_gene_variant"	"-/618"	""	""	""	""	"rs146577823"	"1"	"431"	-1	"TMA16P1"	"HGNC"	43780	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0226"	"-:0.0045"	"-:0.0317"	NA	"-:0"	"-:0.0666"	"-:0.0184"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAGA"	"3940331c-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"537"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	59066421	59066422	"+"	"IGR"	"INS"	"-"	"-"	"AGAGAA"	"rs60007183"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	7	"."	0	""	"AGAGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs60007183"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"505172dc-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"538"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	60860791	60860797	"+"	"IGR"	"DEL"	"GGGCAAG"	"GGGCAAG"	"-"	"rs141956025"	NA	"JHCCPT1"	"JHCCPN1"	"GGGCAAG"	"GGGCAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141956025"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GGGCAAG:0.4081"	"-:0.3533"	"-:0.5764"	NA	"-:0.9772"	"-:0.4235"	"-:0.7014"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGGGCAAGG"	"39d7e284-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"539"	"RP11-286N22.10"	0	"mskcc.org"	"GRCh37"	"11"	61265211	61265212	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs34277601"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.240+1069_240+1070delGT"	""	""	"ENST00000534856"	""	6	"."	3	1	"."	0	"RP11-286N22.10,intron_variant,,ENST00000534856,;"	"-"	"ENSG00000255931"	"ENST00000534856"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/554"	""	""	""	""	"rs34277601"	"1"	NA	1	"RP11-286N22.10"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"TG:0.1729"	"-:0.6195"	"-:0.889"	NA	"-:0.995"	"-:0.8211"	"-:0.8967"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATGT"	"39eafd7e-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"540"	"HNRNPUL2"	221092	"mskcc.org"	"GRCh37"	"11"	62488019	62488037	"+"	"Intron"	"DEL"	"AAAAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAAAA"	"-"	"rs148876571"	NA	"JHCCPT1"	"JHCCPN1"	"AAAAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1612-374_1612-356delTTTTTTTTTTTTTTTTTTT"	""	""	"ENST00000301785"	""	7	"."	4	2	"."	0	"HNRNPUL2,intron_variant,,ENST00000301785,NM_001079559.2;HNRNPUL2-BSCL2,intron_variant,,ENST00000403734,;HNRNPUL2,downstream_gene_variant,,ENST00000540127,;"	"-"	"ENSG00000214753"	"ENST00000301785"	"Transcript"	"intron_variant"	"-/5106"	"-/2244"	"-/747"	""	""	"rs148876571"	"1"	NA	-1	"HNRNPUL2"	"HGNC"	25451	"protein_coding"	"YES"	"CCDS41659.1"	"ENSP00000301785"	"Q1KMD3"	""	"UPI0000161949"	"NM_001079559.2"	NA	NA	""	"9/13"	""	"AAAAAAAAAAAAAAAAAAA:0.0066"	"-:0.9766"	"-:1"	NA	"-:0.999"	"-:0.999"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAAAAAAAAAAAAAAAAAAA"	"3a768d9e-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"541"	"TTC9C"	283237	"mskcc.org"	"GRCh37"	"11"	62500462	62500462	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.239-2392delG"	""	""	"ENST00000316461"	""	47	"."	3	23	"."	0	"TTC9C,intron_variant,,ENST00000513247,;TTC9C,intron_variant,,ENST00000316461,NM_173810.3;TTC9C,intron_variant,,ENST00000532583,;TTC9C,intron_variant,,ENST00000530625,;TTC9C,intron_variant,,ENST00000294161,;TTC9C,upstream_gene_variant,,ENST00000532276,;"	"-"	"ENSG00000162222"	"ENST00000316461"	"Transcript"	"intron_variant"	"-/1080"	"-/516"	"-/171"	""	""	""	"1"	NA	1	"TTC9C"	"HGNC"	28432	"protein_coding"	"YES"	"CCDS8033.1"	"ENSP00000325266"	"Q8N5M4"	"H0YDR3,E9PKV8"	"UPI0000035D9B"	"NM_173810.3"	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"3a8eac4e-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WXS"	FALSE
"542"	"SLC22A25"	387601	"mskcc.org"	"GRCh37"	"11"	62987639	62987639	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs11336277"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.507-2432delT"	""	""	"ENST00000306494"	""	23	"."	3	5	"."	0	"SLC22A25,intron_variant,,ENST00000403374,;SLC22A25,intron_variant,,ENST00000306494,NM_199352.3;SLC22A10,intron_variant,,ENST00000535888,;SLC22A10,intron_variant,,ENST00000525620,;SLC22A25,intron_variant,,ENST00000528239,;SLC22A25,intron_variant,,ENST00000527057,;SLC22A25,intron_variant,,ENST00000525295,;"	"-"	"ENSG00000196600"	"ENST00000306494"	"Transcript"	"intron_variant"	"-/1692"	"-/1644"	"-/547"	""	""	"rs11336277"	"1"	NA	-1	"SLC22A25"	"HGNC"	32935	"protein_coding"	"YES"	"CCDS31592.1"	"ENSP00000307443"	"Q6T423"	""	"UPI00001A72A5"	"NM_199352.3"	NA	NA	""	"2/8"	""	"-:0.4964"	"-:0.4758"	"-:0.4899"	NA	"-:0.5288"	"-:0.4443"	"-:0.5491"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"3aaa57fa-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"543"	"ATL3"	25923	"mskcc.org"	"GRCh37"	"11"	63442270	63442271	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs11396518"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000398868"	""	6	"."	4	1	"."	0	"ATL3,upstream_gene_variant,,ENST00000398868,NM_015459.3;ATL3,upstream_gene_variant,,ENST00000332645,;ATL3,upstream_gene_variant,,ENST00000538786,;ATL3,upstream_gene_variant,,ENST00000540699,;ATL3,upstream_gene_variant,,ENST00000535789,;"	"G"	"ENSG00000184743"	"ENST00000398868"	"Transcript"	"upstream_gene_variant"	"-/7135"	"-/1626"	"-/541"	""	""	"rs11396518"	"1"	"3186"	-1	"ATL3"	"HGNC"	24526	"protein_coding"	"YES"	"CCDS41663.1"	"ENSP00000381844"	"Q6DD88"	"F5H6I7"	"UPI0000071A21"	"NM_015459.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"518cc868-2764-11e6-8c6e-9077424a729f"	"229"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"544"	"MACROD1"	28992	"mskcc.org"	"GRCh37"	"11"	63926197	63926197	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs11344167"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.299-6332delG"	""	""	"ENST00000255681"	""	8	"."	3	2	"."	0	"MACROD1,intron_variant,,ENST00000255681,NM_014067.3;MACROD1,intron_variant,,ENST00000538595,;MACROD1,intron_variant,,ENST00000542359,;MACROD1,intron_variant,,ENST00000545464,;"	"-"	"ENSG00000133315"	"ENST00000255681"	"Transcript"	"intron_variant"	"-/1205"	"-/978"	"-/325"	""	""	"rs11344167"	"1"	NA	-1	"MACROD1"	"HGNC"	29598	"protein_coding"	"YES"	"CCDS8056.1"	"ENSP00000255681"	"Q9BQ69"	""	"UPI000006E931"	"NM_014067.3"	NA	NA	""	"1/10"	""	"-:0.2520"	"-:0.0643"	"-:0.2305"	NA	"-:0.1448"	"-:0.5149"	"-:0.3609"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACC"	"3af9ade6-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"545"	"CCDC88B"	283234	"mskcc.org"	"GRCh37"	"11"	64109316	64109395	"+"	"Intron"	"DEL"	"GTTGTGGTCTGAGGTCTTGGGCCATCAGTGATGTCACAACCAGATGGCCCAAGACCCCAGACCACAACCCCATGTCTGGT"	"GTTGTGGTCTGAGGTCTTGGGCCATCAGTGATGTCACAACCAGATGGCCCAAGACCCCAGACCACAACCCCATGTCTGGT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GTTGTGGTCTGAGGTCTTGGGCCATCAGTGATGTCACAACCAGATGGCCCAAGACCCCAGACCACAACCCCATGTCTGGT"	"GTTGTGGTCTGAGGTCTTGGGCCATCAGTGATGTCACAACCAGATGGCCCAAGACCCCAGACCACAACCCCATGTCTGGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.676-63_675+110delCTGAGGTCTTGGGCCATCAGTGATGTCACAACCAGATGGCCCAAGACCCCAGACCACAACCCCATGTCTGGTGTTGTGGT"	""	""	"ENST00000356786"	""	73	"."	7	45	"."	0	"CCDC88B,intron_variant,,ENST00000356786,NM_032251.5;CCDC88B,upstream_gene_variant,,ENST00000301897,;CCDC88B,intron_variant,,ENST00000463837,;CCDC88B,intron_variant,,ENST00000494080,;CCDC88B,upstream_gene_variant,,ENST00000494566,;CCDC88B,upstream_gene_variant,,ENST00000492980,;"	"-"	"ENSG00000168071"	"ENST00000356786"	"Transcript"	"intron_variant"	"-/4915"	"-/4431"	"-/1476"	""	""	""	"1"	NA	1	"CCDC88B"	"HGNC"	26757	"protein_coding"	"YES"	"CCDS8072.2"	"ENSP00000349238"	"A6NC98"	""	"UPI00001FAAA6"	"NM_032251.5"	NA	NA	""	"7/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	"0.1755"	"0.3017"	"0.2971"	"0.2668"	"0.2791"	"0.2526"	"0.3477"	"0.4027"	NA	"common_variant"	"GGGTTGTGGTCTGAGGTCTTGGGCCATCAGTGATGTCACAACCAGATGGCCCAAGACCCCAGACCACAACCCCATGTCTGGTG"	"3b591c9a-2764-11e6-8c6e-9077424a729f"	"420"	0.2937	"17899/60934"	"18161/103470"	"1360/4508"	"1516/5102"	"1206/4520"	"1051/3766"	"7643/30262"	"137/394"	"4986/12382"	"VQSRTrancheINDEL97.00to99.00"	"FALSE"	0.0958904109589041	"WXS"	FALSE
"546"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	64349332	64349332	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs67564039"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs67564039"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.4469"	"-:0.2292"	"-:0.572"	NA	"-:0.4117"	"-:0.8688"	"-:0.7986"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTC"	"3b751dc8-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"547"	"NRXN2"	9379	"mskcc.org"	"GRCh37"	"11"	64479439	64479440	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs75226572"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.730+1002_730+1003delAG"	""	""	"ENST00000265459"	""	11	"."	5	3	"."	0	"NRXN2,intron_variant,,ENST00000265459,NM_015080.3;NRXN2,intron_variant,,ENST00000377559,NM_138732.2;NRXN2,intron_variant,,ENST00000409571,;NRXN2,intron_variant,,ENST00000377551,;NRXN2,intron_variant,,ENST00000442300,;NRXN2,intron_variant,,ENST00000437746,;NRXN2,intron_variant,,ENST00000417749,;NRXN2,intron_variant,,ENST00000466324,;"	"-"	"ENSG00000110076"	"ENST00000265459"	"Transcript"	"intron_variant"	"-/6621"	"-/5139"	"-/1712"	""	""	"rs75226572"	"1"	NA	-1	"NRXN2"	"HGNC"	8009	"protein_coding"	"YES"	"CCDS8077.1"	"ENSP00000265459"	"Q9P2S2"	""	"UPI0000130AA2"	"NM_015080.3"	NA	NA	""	"2/22"	""	"-:0.1581"	"-:0.0582"	"-:0.3069"	NA	"-:0.2698"	"-:0.0845"	"-:0.1483"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CACTC"	"3b8dfb72-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"548"	"PACS1"	55690	"mskcc.org"	"GRCh37"	"11"	65881577	65881578	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11462891"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.356+43273dupT"	""	""	"ENST00000320580"	""	6	"."	4	4	"."	0	"PACS1,intron_variant,,ENST00000320580,NM_018026.3;PACS1,intron_variant,,ENST00000533756,;PACS1,intron_variant,,ENST00000527380,;PACS1,intron_variant,,ENST00000527224,;"	"T"	"ENSG00000175115"	"ENST00000320580"	"Transcript"	"intron_variant"	"-/4392"	"-/2892"	"-/963"	""	""	"rs11462891"	"1"	NA	1	"PACS1"	"HGNC"	30032	"protein_coding"	"YES"	"CCDS8129.1"	"ENSP00000316454"	"Q6VY07"	"Q9NTH2,E9PSG7,E9PSE1,E9PNZ9,B4DF77"	"UPI0000190973"	"NM_018026.3"	NA	NA	""	"1/23"	""	"-:0.3452"	"T:0.4576"	"T:0.7795"	NA	"T:0.5466"	"T:0.7982"	"T:0.7965"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"528a4bdc-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"549"	"BRMS1"	25855	"mskcc.org"	"GRCh37"	"11"	66109527	66109528	"+"	"Intron"	"INS"	"-"	"-"	"TGTG"	"rs112182142"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.139+36_139+39dupCACA"	""	""	"ENST00000425825"	""	110	"."	3	64	"."	0	"BRMS1,intron_variant,,ENST00000359957,NM_015399.3;BRMS1,intron_variant,,ENST00000425825,NM_001024957.1;BRMS1,intron_variant,,ENST00000524699,;BRMS1,intron_variant,,ENST00000530756,;B3GNT1,downstream_gene_variant,,ENST00000311181,NM_006876.2;RP11-867G23.12,downstream_gene_variant,,ENST00000526655,;BRMS1,non_coding_transcript_exon_variant,,ENST00000529544,;BRMS1,intron_variant,,ENST00000530238,;BRMS1,intron_variant,,ENST00000527375,;BRMS1,intron_variant,,ENST00000534617,;BRMS1,intron_variant,,ENST00000525127,;"	"TGTG"	"ENSG00000174744"	"ENST00000425825"	"Transcript"	"intron_variant"	"-/1363"	"-/873"	"-/290"	""	""	"rs112182142"	"1"	NA	-1	"BRMS1"	"HGNC"	17262	"protein_coding"	"YES"	"CCDS44654.1"	"ENSP00000396052"	""	"G5E9I4,E9PJF5"	"UPI0000545267"	"NM_001024957.1"	NA	NA	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	"0.1248"	"0.0367"	"0.1744"	"0.1048"	"0.1476"	"0.1545"	"0.1567"	"0.1877"	NA	"common_variant"	"TCT"	"529849bc-2764-11e6-8c6e-9077424a729f"	"180"	0.1486	"11326/76228"	"13084/104854"	"224/6104"	"1336/7662"	"564/5380"	"623/4220"	"6189/40050"	"73/466"	"2317/12346"	"PASS"	"FALSE"	0.0272727272727273	"WXS"	FALSE
"550"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	67461832	67461849	"+"	"IGR"	"DEL"	"GGCCTGGAGTGGCAGGGG"	"GGCCTGGAGTGGCAGGGG"	"-"	"rs150706736"	NA	"JHCCPT1"	"JHCCPN1"	"GGCCTGGAGTGGCAGGGG"	"GGCCTGGAGTGGCAGGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150706736"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4435"	"-:0.4652"	"-:0.4121"	NA	"-:0.4167"	"-:0.4284"	"-:0.4796"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGGCCTGGAGTGGCAGGGGG"	"3d6e0edc-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"551"	"RP11-554A11.4"	0	"mskcc.org"	"GRCh37"	"11"	68764269	68764290	"+"	"3'Flank"	"DEL"	"CCCCAGGCTCAGAGGAGCCTGT"	"CCCCAGGCTCAGAGGAGCCTGT"	"-"	"rs144474933"	NA	"JHCCPT1"	"JHCCPN1"	"CCCCAGGCTCAGAGGAGCCTGT"	"CCCCAGGCTCAGAGGAGCCTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000562276"	""	6	"."	3	3	"."	0	"RP11-554A11.4,downstream_gene_variant,,ENST00000562276,;"	"-"	"ENSG00000261625"	"ENST00000562276"	"Transcript"	"downstream_gene_variant"	"-/1284"	""	""	""	""	"rs144474933"	"1"	"3943"	-1	"RP11-554A11.4"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"CCCCAGGCTCAGAGGAGCCTGT:0.3556"	"-:0.5325"	"-:0.4597"	NA	"-:0.7758"	"-:0.6909"	"-:0.7434"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCCCCAGGCTCAGAGGAGCCTGTC"	"3dc738b8-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"552"	"FGF19"	9965	"mskcc.org"	"GRCh37"	"11"	69519811	69519812	"+"	"5'Flank"	"INS"	"-"	"-"	"GAGTCCCT"	"rs112493481"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000294312"	""	7	"."	3	1	"."	0	"FGF19,upstream_gene_variant,,ENST00000294312,NM_005117.2;"	"GAGTCCCT"	"ENSG00000162344"	"ENST00000294312"	"Transcript"	"upstream_gene_variant"	"-/2447"	"-/651"	"-/216"	""	""	"rs112493481"	"1"	"401"	-1	"FGF19"	"HGNC"	3675	"protein_coding"	"YES"	"CCDS8193.1"	"ENSP00000294312"	"O95750"	""	"UPI0000037216"	"NM_005117.2"	NA	NA	""	""	""	"-:0.1667"	"GAGTCCCT:0.7927"	"GAGTCCCT:0.8703"	NA	"GAGTCCCT:0.8839"	"GAGTCCCT:0.825"	"GAGTCCCT:0.818"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"5376e4ec-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"553"	"SHANK2"	22941	"mskcc.org"	"GRCh37"	"11"	70860613	70860614	"+"	"5'Flank"	"INS"	"-"	"CT"	"CT"	"rs34350215"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000338508"	""	7	"."	5	1	"."	0	"SHANK2,intron_variant,,ENST00000413503,;SHANK2,upstream_gene_variant,,ENST00000338508,;SHANK2,upstream_gene_variant,,ENST00000457074,;"	"CT"	"ENSG00000162105"	"ENST00000338508"	"Transcript"	"upstream_gene_variant"	"-/8987"	"-/5553"	"-/1850"	""	""	"rs34350215"	"1"	"2241"	-1	"SHANK2"	"HGNC"	14295	"protein_coding"	"YES"	""	"ENSP00000345193"	""	"C9JFP8,A6NHU9"	"UPI00020653A9"	""	NA	NA	""	""	""	"-:0.3468"	"CT:0.8313"	"CT:0.4222"	NA	"CT:0.5486"	"CT:0.5636"	"CT:0.7761"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAC"	"539a0f44-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"554"	"SHANK2"	22941	"mskcc.org"	"GRCh37"	"11"	70862836	70862837	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs147640187"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000338508"	""	12	"."	4	1	"."	0	"SHANK2,intron_variant,,ENST00000413503,;SHANK2,upstream_gene_variant,,ENST00000338508,;SHANK2,upstream_gene_variant,,ENST00000457074,;"	"G"	"ENSG00000162105"	"ENST00000338508"	"Transcript"	"upstream_gene_variant"	"-/8987"	"-/5553"	"-/1850"	""	""	"rs147640187"	"1"	"4464"	-1	"SHANK2"	"HGNC"	14295	"protein_coding"	"YES"	""	"ENSP00000345193"	""	"C9JFP8,A6NHU9"	"UPI00020653A9"	""	NA	NA	""	""	""	"G:0.3916"	"G:0.7209"	"G:0.1988"	NA	"G:0.2004"	"G:0.2575"	"G:0.4182"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"539b1592-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"555"	"PDE2A"	5138	"mskcc.org"	"GRCh37"	"11"	72349731	72349732	"+"	"Intron"	"INS"	"-"	"-"	"CTG"	"rs3837412"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.144+3564_144+3566dupCAG"	""	""	"ENST00000334456"	""	6	"."	4	1	"."	0	"PDE2A,intron_variant,,ENST00000334456,NM_002599.4;PDE2A,intron_variant,,ENST00000444035,;PDE2A,intron_variant,,ENST00000376450,;PDE2A,intron_variant,,ENST00000544570,NM_001243784.1,NM_001143839.3;PDE2A,intron_variant,,ENST00000540345,NM_001146209.2;PDE2A,intron_variant,,ENST00000418754,;PDE2A,intron_variant,,ENST00000542969,;PDE2A,intron_variant,,ENST00000538749,;PDE2A,downstream_gene_variant,,ENST00000536458,;RP11-31L22.3,upstream_gene_variant,,ENST00000540912,;PDE2A,intron_variant,,ENST00000540380,;PDE2A,intron_variant,,ENST00000485058,;PDE2A,intron_variant,,ENST00000539367,;PDE2A,intron_variant,,ENST00000536308,;PDE2A,intron_variant,,ENST00000541998,;PDE2A,intron_variant,,ENST00000546038,;PDE2A,intron_variant,,ENST00000543750,;PDE2A,intron_variant,,ENST00000543575,;PDE2A,intron_variant,,ENST00000535701,;PDE2A,upstream_gene_variant,,ENST00000537631,;"	"CTG"	"ENSG00000186642"	"ENST00000334456"	"Transcript"	"intron_variant"	"-/4315"	"-/2826"	"-/941"	""	""	"rs3837412"	"1"	NA	-1	"PDE2A"	"HGNC"	8777	"protein_coding"	"YES"	"CCDS8216.1"	"ENSP00000334910"	"O00408"	"F5GXX2,C9JPD5"	"UPI000003B340"	"NM_002599.4"	NA	NA	""	"2/30"	""	"-:0.4992"	"CTG:0.4115"	"CTG:0.4539"	NA	"CTG:0.4395"	"CTG:0.668"	"CTG:0.546"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"53fcf258-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"556"	"PDE2A"	5138	"mskcc.org"	"GRCh37"	"11"	72361912	72361940	"+"	"Intron"	"DEL"	"GTCCCCACTACACACACACACACACACAC"	"GTCCCCACTACACACACACACACACACAC"	"CT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GTCCCCACTACACACACACACACACACAC"	"GTCCCCACTACACACACACACACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.72-8570_72-8542delGTGTGTGTGTGTGTGTGTGTAGTGGGGACinsAG"	""	""	"ENST00000334456"	""	35	"."	3	22	"."	0	"PDE2A,intron_variant,,ENST00000334456,NM_002599.4;PDE2A,intron_variant,,ENST00000444035,;PDE2A,intron_variant,,ENST00000540345,NM_001146209.2;PDE2A,intron_variant,,ENST00000418754,;PDE2A,intron_variant,,ENST00000542969,;PDE2A,intron_variant,,ENST00000536458,;RP11-31L22.3,intron_variant,,ENST00000540912,;PDE2A,intron_variant,,ENST00000540380,;PDE2A,intron_variant,,ENST00000546038,;PDE2A,intron_variant,,ENST00000535701,;"	"CT"	"ENSG00000186642"	"ENST00000334456"	"Transcript"	"intron_variant"	"-/4315"	"-/2826"	"-/941"	""	""	""	"1"	NA	-1	"PDE2A"	"HGNC"	8777	"protein_coding"	"YES"	"CCDS8216.1"	"ENSP00000334910"	"O00408"	"F5GXX2,C9JPD5"	"UPI000003B340"	"NM_002599.4"	NA	NA	""	"1/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGTCCCCACTACACACACACACACACACACA"	"492deef4-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WXS"	FALSE
"557"	"PDE2A"	5138	"mskcc.org"	"GRCh37"	"11"	72361917	72361941	"+"	"Intron"	"DEL"	"CACTACACACACACACACACACACA"	"CACTACACACACACACACACACACA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CACTACACACACACACACACACACA"	"CACTACACACACACACACACACACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.72-8571_72-8547delTGTGTGTGTGTGTGTGTGTGTAGTG"	""	""	"ENST00000334456"	""	36	"."	3	22	"."	0	"PDE2A,intron_variant,,ENST00000334456,NM_002599.4;PDE2A,intron_variant,,ENST00000444035,;PDE2A,intron_variant,,ENST00000540345,NM_001146209.2;PDE2A,intron_variant,,ENST00000418754,;PDE2A,intron_variant,,ENST00000542969,;PDE2A,intron_variant,,ENST00000536458,;RP11-31L22.3,intron_variant,,ENST00000540912,;PDE2A,intron_variant,,ENST00000540380,;PDE2A,intron_variant,,ENST00000546038,;PDE2A,intron_variant,,ENST00000535701,;"	"-"	"ENSG00000186642"	"ENST00000334456"	"Transcript"	"intron_variant"	"-/4315"	"-/2826"	"-/941"	""	""	""	"1"	NA	-1	"PDE2A"	"HGNC"	8777	"protein_coding"	"YES"	"CCDS8216.1"	"ENSP00000334910"	"O00408"	"F5GXX2,C9JPD5"	"UPI000003B340"	"NM_002599.4"	NA	NA	""	"1/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCACTACACACACACACACACACACAC"	"3ed6ee42-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WXS"	FALSE
"558"	"RP11-800A3.3"	0	"mskcc.org"	"GRCh37"	"11"	72886927	72886930	"+"	"5'Flank"	"DEL"	"TCTT"	"TCTT"	"-"	"rs10561819"	NA	"JHCCPT1"	"JHCCPN1"	"TCTT"	"TCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000541254"	""	11	"."	5	2	"."	0	"RP11-800A3.3,upstream_gene_variant,,ENST00000541254,;"	"-"	"ENSG00000256568"	"ENST00000541254"	"Transcript"	"upstream_gene_variant"	"-/618"	""	""	""	""	"rs10561819"	"1"	"809"	1	"RP11-800A3.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTTT"	"3f066b22-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"559"	"ENSR00000565434"	0	"mskcc.org"	"GRCh37"	"11"	74756437	74756438	"+"	"IGR"	"INS"	"-"	"-"	"TTG"	"rs138166805"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000565434"	""	7	"."	4	1	"."	0	""	"TTG"	""	"ENSR00000565434"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs138166805"	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3576"	"TTG:0.7799"	"TTG:0.6844"	NA	"TTG:0.7212"	"TTG:0.503"	"TTG:0.4888"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"543eedde-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"560"	"ARRB1"	408	"mskcc.org"	"GRCh37"	"11"	75026052	75026052	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs146431282"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.21-24969delG"	""	""	"ENST00000420843"	""	9	"."	5	1	"."	0	"ARRB1,intron_variant,,ENST00000420843,NM_004041.4;ARRB1,intron_variant,,ENST00000393505,;ARRB1,intron_variant,,ENST00000360025,NM_020251.3;ARRB1,intron_variant,,ENST00000533255,;ARRB1,upstream_gene_variant,,ENST00000524400,;ARRB1,upstream_gene_variant,,ENST00000533609,;"	"-"	"ENSG00000137486"	"ENST00000420843"	"Transcript"	"intron_variant"	"-/3336"	"-/1257"	"-/418"	""	""	"rs146431282"	"1"	NA	-1	"ARRB1"	"HGNC"	711	"protein_coding"	"YES"	"CCDS44684.1"	"ENSP00000409581"	"P49407"	""	"UPI0000126076"	"NM_004041.4"	NA	NA	""	"1/15"	""	"-:0.0427"	"-:0.0182"	"-:0.0403"	NA	"-:0.0129"	"-:0.0755"	"-:0.0746"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCA"	"3f74849a-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"561"	"MYO7A"	4647	"mskcc.org"	"GRCh37"	"11"	76892814	76892820	"+"	"Intron"	"DEL"	"TTTTTTT"	"TTTTTTT"	"-"	"rs782767289"	NA	"JHCCPT1"	"JHCCPN1"	"TTTTTTT"	"TTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2905-179_2905-173delTTTTTTT"	""	""	"ENST00000409709"	""	21	"."	3	14	"."	0	"MYO7A,intron_variant,,ENST00000409709,NM_000260.3;MYO7A,intron_variant,,ENST00000458637,NM_001127180.1;MYO7A,intron_variant,,ENST00000409619,;MYO7A,intron_variant,,ENST00000458169,;MYO7A,intron_variant,,ENST00000409893,NM_001127179.2;MYO7A,intron_variant,,ENST00000481328,;MYO7A,upstream_gene_variant,,ENST00000467137,;"	"-"	"ENSG00000137474"	"ENST00000409709"	"Transcript"	"intron_variant"	"-/7462"	"-/6648"	"-/2215"	""	""	"rs782767289"	"1"	NA	1	"MYO7A"	"HGNC"	7606	"protein_coding"	"YES"	"CCDS53683.1"	"ENSP00000386331"	"Q13402"	""	"UPI00001FAFE6"	"NM_000260.3"	NA	NA	""	"23/48"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGTTTTTTTT"	"3fea4e14-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"562"	"INTS4"	92105	"mskcc.org"	"GRCh37"	"11"	77692786	77692789	"+"	"Intron"	"DEL"	"TTTA"	"TTTA"	"-"	"rs201679005"	NA	"JHCCPT1"	"JHCCPN1"	"TTTA"	"TTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.247-167_247-164delTAAA"	""	""	"ENST00000534064"	""	57	"."	7	24	"."	0	"INTS4,intron_variant,,ENST00000534064,NM_033547.3;INTS4,intron_variant,,ENST00000529807,;INTS4,intron_variant,,ENST00000433818,;INTS4,intron_variant,,ENST00000534408,;INTS4,intron_variant,,ENST00000524766,;"	"-"	"ENSG00000149262"	"ENST00000534064"	"Transcript"	"intron_variant"	"-/3156"	"-/2892"	"-/963"	""	""	"rs201679005"	"1"	NA	-1	"INTS4"	"HGNC"	25048	"protein_coding"	"YES"	"CCDS31644.1"	"ENSP00000434466"	"Q96HW7"	""	"UPI00001FB00A"	"NM_033547.3"	NA	NA	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTTAT"	"4025485c-2764-11e6-8c6e-9077424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12280701754386	"WXS"	FALSE
"563"	"ENSR00000566168"	0	"mskcc.org"	"GRCh37"	"11"	80411714	80411715	"+"	"IGR"	"DEL"	"TC"	"TC"	"-"	"rs35711079"	NA	"JHCCPT1"	"JHCCPN1"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000566168"	""	7	"."	4	2	"."	0	""	"-"	""	"ENSR00000566168"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs35711079"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCT"	"405ba334-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"564"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	81468029	81468030	"+"	"IGR"	"INS"	"-"	"-"	"AGAAAAAGAAAG"	"rs138155856"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	5	2	"."	0	""	"AGAAAAAGAAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138155856"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"54cbcdc6-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"565"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	81468104	81468129	"+"	"IGR"	"DEL"	"AAAGAAAAAGAAAAGGAAGGAAGAAG"	"AAAGAAAAAGAAAAGGAAGGAAGAAG"	"-"	"rs202042696"	NA	"JHCCPT1"	"JHCCPN1"	"AAAGAAAAAGAAAAGGAAGGAAGAAG"	"AAAGAAAAAGAAAAGGAAGGAAGAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs202042696"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAGAAAAAGAAAAGGAAGGAAGAAGA"	"4063fae8-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"566"	"CCDC81"	60494	"mskcc.org"	"GRCh37"	"11"	86119990	86119991	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs76634552"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1114-312dupG"	""	""	"ENST00000445632"	""	11	"."	4	1	"."	0	"CCDC81,intron_variant,,ENST00000278487,;CCDC81,intron_variant,,ENST00000445632,NM_001156474.1;CCDC81,intron_variant,,ENST00000354755,NM_021827.4;CCDC81,intron_variant,,ENST00000528728,;CCDC81,intron_variant,,ENST00000530845,;CCDC81,intron_variant,,ENST00000532215,;CCDC81,downstream_gene_variant,,ENST00000532466,;CCDC81,downstream_gene_variant,,ENST00000529603,;"	"G"	"ENSG00000149201"	"ENST00000445632"	"Transcript"	"intron_variant"	"-/2528"	"-/1959"	"-/652"	""	""	"rs76634552"	"1"	NA	1	"CCDC81"	"HGNC"	26281	"protein_coding"	"YES"	"CCDS53691.1"	"ENSP00000415528"	"Q6ZN84"	"B4DQN0"	"UPI0000E5BE97"	"NM_001156474.1"	NA	NA	""	"9/14"	""	"G:0.1134"	"G:0.0325"	"G:0.0793"	NA	"G:0.1687"	"G:0.1282"	"G:0.1748"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"5519514a-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"567"	"FOLH1B"	0	"mskcc.org"	"GRCh37"	"11"	89403957	89403958	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs36065337"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.707+323dupT"	""	""	"ENST00000525540"	""	8	"."	4	1	"."	0	"FOLH1B,intron_variant,,ENST00000532352,;FOLH1B,intron_variant,,ENST00000531315,;FOLH1B,intron_variant,,ENST00000525540,;FOLH1B,intron_variant,,ENST00000526379,;FOLH1B,intron_variant,,ENST00000529567,;"	"T"	"ENSG00000134612"	"ENST00000525540"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1974"	""	""	""	""	"rs36065337"	"1"	NA	1	"FOLH1B"	"HGNC"	13636	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/13"	""	"T:0.2167"	"T:0.1195"	"T:0.2464"	NA	"T:0.1379"	"T:0.3718"	"T:0.2485"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"555da35e-2764-11e6-8c6e-9077424a729f"	"229"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"568"	"CHORDC1"	26973	"mskcc.org"	"GRCh37"	"11"	89948802	89948803	"+"	"Intron"	"INS"	"-"	"-"	"TTAG"	"rs137855377"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.115-408_115-405dupCTAA"	""	""	"ENST00000320585"	""	8	"."	3	1	"."	0	"CHORDC1,intron_variant,,ENST00000320585,NM_012124.2;CHORDC1,intron_variant,,ENST00000457199,NM_001144073.1;CHORDC1,intron_variant,,ENST00000530765,;CHORDC1,upstream_gene_variant,,ENST00000529987,;CHORDC1,intron_variant,,ENST00000533724,;CHORDC1,intron_variant,,ENST00000525317,;CHORDC1,intron_variant,,ENST00000529402,;CHORDC1,intron_variant,,ENST00000533062,;CHORDC1,intron_variant,,ENST00000533772,;CHORDC1,downstream_gene_variant,,ENST00000533739,;"	"TTAG"	"ENSG00000110172"	"ENST00000320585"	"Transcript"	"intron_variant"	"-/2654"	"-/999"	"-/332"	""	""	"rs137855377"	"1"	NA	-1	"CHORDC1"	"HGNC"	14525	"protein_coding"	"YES"	"CCDS8289.1"	"ENSP00000319255"	"Q9UHD1"	"E9PHZ2"	"UPI000013F1A2"	"NM_012124.2"	NA	NA	""	"2/10"	""	"TTAG:0.4575"	"TTAG:0.289"	"TTAG:0.5101"	NA	"TTAG:0.5605"	"TTAG:0.4294"	"TTAG:0.5706"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"5568a27c-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"569"	"CCDC67"	159989	"mskcc.org"	"GRCh37"	"11"	93063455	93063455	"+"	"5'Flank"	"DEL"	"C"	"-"	"-"	"rs55931745"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000298050"	""	6	"."	5	1	"."	0	"CCDC67,intron_variant,,ENST00000534747,;CCDC67,upstream_gene_variant,,ENST00000298050,NM_181645.3;CCDC67,upstream_gene_variant,,ENST00000532819,;CCDC67,upstream_gene_variant,,ENST00000527307,;CCDC67,upstream_gene_variant,,ENST00000530273,;CCDC67,intron_variant,,ENST00000530053,;CCDC67,intron_variant,,ENST00000530862,;CCDC67,intron_variant,,ENST00000531792,;CCDC67,upstream_gene_variant,,ENST00000531448,;"	"-"	"ENSG00000165325"	"ENST00000298050"	"Transcript"	"upstream_gene_variant"	"-/2664"	"-/1815"	"-/604"	""	""	"rs55931745"	"1"	"428"	1	"CCDC67"	"HGNC"	26344	"protein_coding"	"YES"	"CCDS44707.1"	"ENSP00000298050"	"Q05D60"	"E9PIY2,E9PPB2,E9PIV7"	"UPI0000161951"	"NM_181645.3"	NA	NA	""	""	""	"C:0.3438"	"-:0.4758"	"-:0.7867"	NA	"-:0.753"	"-:0.667"	"-:0.6963"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACT"	"41863da0-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"570"	"CEP57"	9702	"mskcc.org"	"GRCh37"	"11"	95529007	95529008	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs5793748"	NA	"JHCCPT1"	"JHCCPN1"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.46-3389_46-3388delAT"	""	""	"ENST00000325542"	""	20	"."	5	11	"."	0	"CEP57,intron_variant,,ENST00000325542,NM_001243776.1,NM_014679.4;CEP57,intron_variant,,ENST00000325486,NM_001243777.1;CEP57,intron_variant,,ENST00000541150,;CEP57,intron_variant,,ENST00000538658,;CEP57,intron_variant,,ENST00000537677,;CEP57,intron_variant,,ENST00000541365,;CEP57,intron_variant,,ENST00000544522,;CEP57,intron_variant,,ENST00000540830,;CEP57,intron_variant,,ENST00000539855,;CEP57,intron_variant,,ENST00000538095,;CEP57,intron_variant,,ENST00000535497,;"	"-"	"ENSG00000166037"	"ENST00000325542"	"Transcript"	"intron_variant"	"-/3178"	"-/1503"	"-/500"	""	""	"rs5793748"	"1"	NA	1	"CEP57"	"HGNC"	30794	"protein_coding"	"YES"	"CCDS8304.1"	"ENSP00000317902"	"Q86XR8"	"F5H1B0,F5GYW0"	"UPI0000070D0B"	"NM_001243776.1,NM_014679.4"	NA	NA	""	"1/10"	""	"-:0.0343"	"-:0.0113"	"-:0.0288"	NA	"-:0.0446"	"-:0.0517"	"-:0.0409"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACATG"	"421139d2-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"571"	"RP11-886D15.1"	0	"mskcc.org"	"GRCh37"	"11"	104362345	104362346	"+"	"Intron"	"INS"	"-"	"-"	"TG"	"rs35321966"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.507+20531_507+20532insCA"	""	""	"ENST00000536529"	""	6	"."	4	1	"."	0	"RP11-886D15.1,intron_variant,,ENST00000536529,;"	"TG"	"ENSG00000256422"	"ENST00000536529"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/652"	""	""	""	""	"rs35321966"	"1"	NA	-1	"RP11-886D15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/4"	""	"-:0.1777"	"TG:0.7315"	"TG:0.9193"	NA	"TG:0.8373"	"TG:0.8638"	"TG:0.818"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"56f4292c-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"572"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	104692595	104692596	"+"	"IGR"	"INS"	"-"	"-"	"CTT"	"rs143648759"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	2	"."	0	""	"CTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143648759"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"56f755b6-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"573"	"CASP12"	100506742	"mskcc.org"	"GRCh37"	"11"	104759870	104759871	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs149411158"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.817+1230_817+1231delCT"	""	""	"ENST00000422698"	""	10	"."	4	1	"."	0	"CASP12,intron_variant,,ENST00000422698,NM_001191016.1;CASP12,intron_variant,,ENST00000375726,;CASP12,intron_variant,,ENST00000446862,;CASP12,intron_variant,,ENST00000441710,;CASP12,intron_variant,,ENST00000448103,;CASP12,intron_variant,,ENST00000494737,;CASP12,intron_variant,,ENST00000447913,;CASP12,intron_variant,,ENST00000508062,;CASP12,intron_variant,,ENST00000433738,;CASP12,intron_variant,,ENST00000417998,;CASP12,intron_variant,,ENST00000458137,;"	"-"	"ENSG00000204403"	"ENST00000422698"	"Transcript"	"intron_variant"	"-/1451"	"-/1026"	"-/341"	""	""	"rs149411158"	"1"	NA	-1	"CASP12"	"HGNC"	19004	"protein_coding"	"YES"	"CCDS55785.1"	"ENSP00000427128"	"Q6UXS9"	""	"UPI000040532B"	"NM_001191016.1"	NA	NA	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"42dd2538-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"574"	"RP11-693N9.2"	643733	"mskcc.org"	"GRCh37"	"11"	104779867	104779869	"+"	"Intron"	"DEL"	"CTT"	"CTT"	"-"	"rs71037283"	NA	"JHCCPT1"	"JHCCPN1"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.47-134_47-132delAAG"	""	""	"ENST00000531091"	""	10	"."	4	5	"."	0	"RP11-693N9.2,intron_variant,,ENST00000531091,;RP11-693N9.2,intron_variant,,ENST00000527617,;RP11-693N9.2,intron_variant,,ENST00000527637,;RP11-693N9.2,intron_variant,,ENST00000528437,;RP11-693N9.2,intron_variant,,ENST00000531371,;RP11-693N9.2,intron_variant,,ENST00000527425,;RP11-693N9.2,intron_variant,,ENST00000530264,;RP11-693N9.2,upstream_gene_variant,,ENST00000532510,;RP11-693N9.2,intron_variant,,ENST00000532441,;"	"-"	"ENSG00000235505"	"ENST00000531091"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1768"	""	""	""	""	"rs71037283"	"1"	NA	-1	"RP11-693N9.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/5"	""	"CTT:0.3245"	"-:0.4168"	"-:0.6484"	NA	"-:0.8214"	"-:0.7763"	"-:0.7904"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACTTC"	"42e7fc38-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"575"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	106482149	106482156	"+"	"IGR"	"DEL"	"AGAGAGAG"	"AGAGAGAG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AGAGAGAG"	"AGAGAGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	8	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAGAGAGAGA"	"43210230-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"576"	"ATM"	472	"mskcc.org"	"GRCh37"	"11"	108204946	108204946	"+"	"Intron"	"DEL"	"T"	"-"	"-"	"rs4988129"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8010+252delT"	""	""	"ENST00000278616"	""	9	"."	7	1	"."	0	"ATM,intron_variant,,ENST00000278616,NM_000051.3;ATM,intron_variant,,ENST00000452508,;C11orf65,intron_variant,,ENST00000525729,;C11orf65,intron_variant,,ENST00000524755,;ATM,intron_variant,,ENST00000533979,;ATM,intron_variant,,ENST00000524792,;C11orf65,intron_variant,,ENST00000527531,;ATM,intron_variant,,ENST00000525056,;ATM,downstream_gene_variant,,ENST00000533690,;ATM,downstream_gene_variant,,ENST00000525537,;ATM,downstream_gene_variant,,ENST00000527389,;"	"-"	"ENSG00000149311"	"ENST00000278616"	"Transcript"	"intron_variant"	"-/13147"	"-/9171"	"-/3056"	""	""	"rs4988129"	"1"	NA	1	"ATM"	"HGNC"	795	"protein_coding"	"YES"	"CCDS31669.1"	"ENSP00000278616"	"Q13315"	"M0QXY8,E9PRG7,E9PIN0"	"UPI0000DBEF44"	"NM_000051.3"	NA	NA	""	"54/62"	""	"T:0.4818"	"-:0.3207"	"-:0.6455"	NA	"-:0.4345"	"-:0.6183"	"-:0.6779"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTT"	"4381fd10-2764-11e6-8c6e-9077424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	TRUE
"577"	"RP11-25I9.2"	0	"mskcc.org"	"GRCh37"	"11"	108907647	108907648	"+"	"Intron"	"INS"	"-"	"-"	"TCCT"	"rs113467744"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.225+819_225+822dupAGGA"	""	""	"ENST00000526041"	""	15	"."	5	8	"."	0	"RP11-25I9.2,intron_variant,,ENST00000526041,;"	"TCCT"	"ENSG00000255528"	"ENST00000526041"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/333"	""	""	""	""	"rs113467744"	"1"	NA	-1	"RP11-25I9.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"576e2a7e-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"578"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	109025924	109025924	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs34859027"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34859027"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.0164"	"-:0.9387"	"-:0.9986"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"439ad89e-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"579"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	109065251	109065252	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs35717240"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	7	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35717240"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0088"	"T:0.9682"	"T:0.9986"	NA	"T:1"	"T:1"	"T:0.999"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"5770afe2-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"580"	"snosnR66"	0	"mskcc.org"	"GRCh37"	"11"	112470000	112470005	"+"	"3'Flank"	"DEL"	"GAAGAA"	"GAAGAA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GAAGAA"	"GAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000391095"	""	17	"."	3	8	"."	0	"RP11-65M17.3,intron_variant,,ENST00000529238,;snosnR66,downstream_gene_variant,,ENST00000391095,;"	"-"	"ENSG00000212397"	"ENST00000391095"	"Transcript"	"downstream_gene_variant"	"-/99"	""	""	""	""	""	"1"	"3072"	-1	"snosnR66"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAGAAG"	"4434deee-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"581"	"ZW10"	9183	"mskcc.org"	"GRCh37"	"11"	113631432	113631432	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs5794880"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.342+107delT"	""	""	"ENST00000200135"	""	123	"."	4	50	"."	0	"ZW10,intron_variant,,ENST00000200135,NM_004724.3;ZW10,intron_variant,,ENST00000535142,;ZW10,intron_variant,,ENST00000538209,;"	"-"	"ENSG00000086827"	"ENST00000200135"	"Transcript"	"intron_variant"	"-/2992"	"-/2340"	"-/779"	""	""	"rs5794880"	"1"	NA	-1	"ZW10"	"HGNC"	13194	"protein_coding"	"YES"	"CCDS8363.1"	"ENSP00000200135"	"O43264"	"B4E1J7,A1A528"	"UPI000013C491"	"NM_004724.3"	NA	NA	""	"3/15"	""	"-:0.2378"	"-:0.0371"	"-:0.2781"	NA	"-:0.2411"	"-:0.3907"	"-:0.32"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"4458ce8a-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.032520325203252	"WXS"	FALSE
"582"	"HTR3A"	3359	"mskcc.org"	"GRCh37"	"11"	113853071	113853072	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11459590"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.393-771_393-770insA"	""	""	"ENST00000355556"	""	6	"."	4	1	"."	0	"HTR3A,intron_variant,,ENST00000504030,;HTR3A,intron_variant,,ENST00000355556,NM_213621.3;HTR3A,intron_variant,,ENST00000375498,NM_000869.5;HTR3A,intron_variant,,ENST00000506841,;HTR3A,intron_variant,,ENST00000299961,NM_001161772.2;HTR3A,intron_variant,,ENST00000535865,;HTR3A,intron_variant,,ENST00000510849,;HTR3A,intron_variant,,ENST00000502622,;"	"A"	"ENSG00000166736"	"ENST00000355556"	"Transcript"	"intron_variant"	"-/2331"	"-/1551"	"-/516"	""	""	"rs11459590"	"1"	NA	1	"HTR3A"	"HGNC"	5297	"protein_coding"	"YES"	"CCDS8366.2"	"ENSP00000347754"	"P46098"	"B3VRK0,B3VRJ5,B3VRI5,B3VRI0,B3VRH5,B3VRH0,B3VRG5,B3VRG0"	"UPI000013F7F1"	"NM_213621.3"	NA	NA	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"581628be-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"583"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	114542060	114542061	"+"	"IGR"	"INS"	"-"	"-"	"AGA"	"rs3072641"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"AGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs3072641"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1448"	"AGA:0.7012"	"AGA:0.928"	NA	"AGA:0.9147"	"AGA:0.9195"	"AGA:0.8845"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"581d4194-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"584"	"CADM1"	23705	"mskcc.org"	"GRCh37"	"11"	115165486	115165487	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11375400"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.125-54347dupC"	""	""	"ENST00000452722"	""	6	"."	4	1	"."	0	"CADM1,intron_variant,,ENST00000452722,NM_014333.3;CADM1,intron_variant,,ENST00000542447,NM_001098517.1;CADM1,intron_variant,,ENST00000537058,;CADM1,intron_variant,,ENST00000536727,;CADM1,intron_variant,,ENST00000545380,;CADM1,intron_variant,,ENST00000331581,;CADM1,intron_variant,,ENST00000543249,;CADM1,intron_variant,,ENST00000537140,;CADM1,intron_variant,,ENST00000541434,;CADM1,intron_variant,,ENST00000540951,;"	"G"	"ENSG00000182985"	"ENST00000452722"	"Transcript"	"intron_variant"	"-/8588"	"-/1329"	"-/442"	""	""	"rs11375400"	"1"	NA	-1	"CADM1"	"HGNC"	5951	"protein_coding"	"YES"	"CCDS8373.1"	"ENSP00000395359"	"Q9BY67"	"Q6MZK6,F5H8J9,F5H0H5"	"UPI0000049C25"	"NM_014333.3"	NA	NA	""	"1/9"	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"58221264-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"585"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	116078515	116078516	"+"	"IGR"	"DEL"	"GA"	"GA"	"-"	"rs66502729"	NA	"JHCCPT1"	"JHCCPN1"	"GA"	"GA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs66502729"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GA:0.2730"	"-:0.6203"	"-:0.7233"	NA	"-:0.8323"	"-:0.7416"	"-:0.7505"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAG"	"44a87458-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"586"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	116110918	116110961	"+"	"IGR"	"DEL"	"AAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGA"	"AAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGA"	"-"	"rs767251492"	NA	"JHCCPT1"	"JHCCPN1"	"AAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGA"	"AAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs767251492"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAA"	"44a95d28-2764-11e6-8c6e-9077424a729f"	"215"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"587"	"APOC3"	345	"mskcc.org"	"GRCh37"	"11"	116702001	116702002	"+"	"Intron"	"INS"	"-"	"-"	"TTC"	"rs375900378"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.179+392_179+394dupCTT"	""	""	"ENST00000227667"	""	8	"."	3	3	"."	0	"APOC3,intron_variant,,ENST00000375345,;APOC3,intron_variant,,ENST00000227667,NM_000040.1;APOA1,downstream_gene_variant,,ENST00000236850,NM_000039.1;APOA1,downstream_gene_variant,,ENST00000375323,;APOA1,downstream_gene_variant,,ENST00000375320,;APOA1,downstream_gene_variant,,ENST00000359492,;APOA1,downstream_gene_variant,,ENST00000375329,;APOC3,downstream_gene_variant,,ENST00000433777,;APOA1-AS,upstream_gene_variant,,ENST00000444200,;APOC3,downstream_gene_variant,,ENST00000470144,;"	"TTC"	"ENSG00000110245"	"ENST00000227667"	"Transcript"	"intron_variant"	"-/550"	"-/300"	"-/99"	""	""	"rs375900378"	"1"	NA	1	"APOC3"	"HGNC"	610	"protein_coding"	"YES"	"CCDS8377.1"	"ENSP00000227667"	"P02656"	"A3KPE2,C9J2Q0"	"UPI0000125C26"	"NM_000040.1"	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"5846ac1e-2764-11e6-8c6e-9077424a729f"	"160"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"588"	"TMPRSS4"	56649	"mskcc.org"	"GRCh37"	"11"	117989438	117989438	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"rs34900458"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000437212"	""	7	"."	4	1	"."	0	"TMPRSS4,3_prime_UTR_variant,,ENST00000534111,NM_019894.3,NM_001173551.1,NM_001083947.1;TMPRSS4,downstream_gene_variant,,ENST00000437212,;TMPRSS4,downstream_gene_variant,,ENST00000522824,;TMPRSS4,downstream_gene_variant,,ENST00000523251,NM_001173552.1;TMPRSS4,downstream_gene_variant,,ENST00000522307,;TMPRSS4,downstream_gene_variant,,ENST00000524218,;TMPRSS4,downstream_gene_variant,,ENST00000518413,;TMPRSS4,downstream_gene_variant,,ENST00000528118,;TMPRSS4,downstream_gene_variant,,ENST00000517483,;TMPRSS4,downstream_gene_variant,,ENST00000519236,;TMPRSS4,downstream_gene_variant,,ENST00000523770,;TMPRSS4,downstream_gene_variant,,ENST00000518610,;"	"-"	"ENSG00000137648"	"ENST00000437212"	"Transcript"	"downstream_gene_variant"	"-/2074"	"-/1314"	"-/437"	""	""	"rs34900458"	"1"	"264"	1	"TMPRSS4"	"HGNC"	11878	"protein_coding"	"YES"	"CCDS31684.1"	"ENSP00000416037"	"Q9NRS4"	""	"UPI00001FA467"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAGC"	"452904ec-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"589"	"PHLDB1"	23187	"mskcc.org"	"GRCh37"	"11"	118501011	118501016	"+"	"Intron"	"DEL"	"CCTAGG"	"CCTAGG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CCTAGG"	"CCTAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1828-911_1828-906delTAGGCC"	""	""	"ENST00000361417"	""	19	"."	3	13	"."	0	"PHLDB1,intron_variant,,ENST00000361417,NM_015157.3;PHLDB1,intron_variant,,ENST00000356063,NM_001144759.2,NM_001144758.2;PHLDB1,intron_variant,,ENST00000534672,;PHLDB1,intron_variant,,ENST00000530708,;PHLDB1,upstream_gene_variant,,ENST00000534140,;PHLDB1,downstream_gene_variant,,ENST00000532639,;PHLDB1,downstream_gene_variant,,ENST00000526374,;PHLDB1,upstream_gene_variant,,ENST00000528875,;PHLDB1,downstream_gene_variant,,ENST00000527259,;PHLDB1,upstream_gene_variant,,ENST00000527500,;PHLDB1,intron_variant,,ENST00000530994,;PHLDB1,intron_variant,,ENST00000528594,;PHLDB1,intron_variant,,ENST00000532517,;PHLDB1,upstream_gene_variant,,ENST00000531862,;PHLDB1,upstream_gene_variant,,ENST00000525698,;PHLDB1,upstream_gene_variant,,ENST00000526699,;"	"-"	"ENSG00000019144"	"ENST00000361417"	"Transcript"	"intron_variant"	"-/5753"	"-/4134"	"-/1377"	""	""	""	"1"	NA	1	"PHLDB1"	"HGNC"	23697	"protein_coding"	"YES"	"CCDS8401.1"	"ENSP00000354498"	"Q86UU1"	""	"UPI0000192101"	"NM_015157.3"	NA	NA	""	"7/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCCTAGGC"	"4589c1b0-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WXS"	FALSE
"590"	"DDX6"	1656	"mskcc.org"	"GRCh37"	"11"	118634202	118634203	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11464765"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.647-188_647-187insA"	""	""	"ENST00000264018"	""	46	"."	3	17	"."	0	"DDX6,intron_variant,,ENST00000264018,NM_004397.4;DDX6,intron_variant,,ENST00000534980,;DDX6,intron_variant,,ENST00000526070,NM_001257191.1;DDX6,upstream_gene_variant,,ENST00000529162,;DDX6,downstream_gene_variant,,ENST00000525082,;"	"T"	"ENSG00000110367"	"ENST00000264018"	"Transcript"	"intron_variant"	"-/4538"	"-/1452"	"-/483"	""	""	"rs11464765"	"1"	NA	-1	"DDX6"	"HGNC"	2747	"protein_coding"	"YES"	"CCDS44751.1"	"ENSP00000264018"	"P26196"	"B2R858"	"UPI000013D4A2"	"NM_004397.4"	NA	NA	""	"6/13"	""	"-:0.0000"	"T:1"	"T:1"	NA	"T:1"	"T:1"	"T:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"58b90642-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WXS"	TRUE
"591"	"HYOU1"	10525	"mskcc.org"	"GRCh37"	"11"	118915758	118915758	"+"	"3'UTR"	"DEL"	"G"	"G"	"-"	"rs11363127"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*547delC"	""	""	"ENST00000404233"	"26/26"	6	"."	4	3	"."	0	"HYOU1,3_prime_UTR_variant,,ENST00000404233,NM_001130991.1,NM_006389.3;HYOU1,3_prime_UTR_variant,,ENST00000529972,;HYOU1,downstream_gene_variant,,ENST00000525859,;HYOU1,downstream_gene_variant,,ENST00000543287,;HYOU1,downstream_gene_variant,,ENST00000530473,;RP11-110I1.6,intron_variant,,ENST00000531886,;HYOU1,downstream_gene_variant,,ENST00000532519,;HYOU1,downstream_gene_variant,,ENST00000527738,;HYOU1,downstream_gene_variant,,ENST00000531682,;"	"-"	"ENSG00000149428"	"ENST00000404233"	"Transcript"	"3_prime_UTR_variant"	"3672/4530"	"-/3000"	"-/999"	""	""	"rs11363127"	"1"	NA	-1	"HYOU1"	"HGNC"	16931	"protein_coding"	"YES"	"CCDS8408.1"	"ENSP00000384144"	"Q9Y4L1"	"J3QQH7,J3QLE9,J3QL06,J3KTF1,J3KT27,J3KSJ2,E9PJ21"	"UPI0000130F72"	"NM_001130991.1,NM_006389.3"	NA	NA	"26/26"	""	""	"G:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"45fc4c58-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"592"	"USP2-AS1"	100499227	"mskcc.org"	"GRCh37"	"11"	119354423	119354423	"+"	"Intron"	"DEL"	"T"	"-"	"-"	"rs59158428"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.440+13739delT"	""	""	"ENST00000498979"	""	8	"."	6	1	"."	0	"USP2-AS1,intron_variant,,ENST00000498979,;USP2-AS1,intron_variant,,ENST00000500970,;USP2-AS1,intron_variant,,ENST00000578923,;"	"-"	"ENSG00000245248"	"ENST00000498979"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2486"	""	""	""	""	"rs59158428"	"1"	NA	1	"USP2-AS1"	"HGNC"	48673	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	"T:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"4659a3bc-2764-11e6-8c6e-9077424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"593"	"KRT8P7"	0	"mskcc.org"	"GRCh37"	"11"	119473368	119473368	"+"	"3'Flank"	"DEL"	"A"	"-"	"-"	"rs71048091"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000533003"	""	8	"."	6	1	"."	0	"KRT8P7,downstream_gene_variant,,ENST00000533003,;"	"-"	"ENSG00000230716"	"ENST00000533003"	"Transcript"	"downstream_gene_variant"	"-/1432"	""	""	""	""	"rs71048091"	"1"	"219"	-1	"KRT8P7"	"HGNC"	33361	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3652"	"-:0.6271"	"-:0.6729"	NA	"-:0.5595"	"-:0.6352"	"-:0.6953"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"465f0708-2764-11e6-8c6e-9077424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"594"	"ENSR00001624735"	0	"mskcc.org"	"GRCh37"	"11"	119967734	119967734	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs34209027"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001624735"	""	6	"."	4	1	"."	0	""	"-"	""	"ENSR00001624735"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs34209027"	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4862"	"-:0.4372"	"-:0.5951"	NA	"-:0.4196"	"-:0.6252"	"-:0.4008"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"46736f90-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"595"	"RP11-166D19.1"	399959	"mskcc.org"	"GRCh37"	"11"	121979008	121979013	"+"	"Intron"	"DEL"	"AGGAAG"	"AGGAAG"	"-"	"rs56386315"	NA	"JHCCPT1"	"JHCCPN1"	"AGGAAG"	"AGGAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.191+7828_191+7833delCTTCCT"	""	""	"ENST00000534297"	""	8	"."	4	4	"."	0	"RP11-166D19.1,intron_variant,,ENST00000534297,;RP11-166D19.1,upstream_gene_variant,,ENST00000532315,;RP11-166D19.1,upstream_gene_variant,,ENST00000534195,;"	"-"	"ENSG00000255248"	"ENST00000534297"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/387"	""	""	""	""	"rs56386315"	"1"	NA	-1	"RP11-166D19.1"	"Clone_based_vega_gene"	NA	"sense_overlapping"	""	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGGAAGA"	"46dd86b4-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"596"	"OR8G2P"	0	"mskcc.org"	"GRCh37"	"11"	124099038	124099039	"+"	"3'Flank"	"INS"	"-"	"-"	"AGGCAGGCAGGC"	"rs66512239"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366149"	""	10	"."	3	1	"."	0	"OR8G2P,downstream_gene_variant,,ENST00000366149,;OR8G2P,downstream_gene_variant,,ENST00000412796,;"	"AGGCAGGCAGGC"	"ENSG00000181214"	"ENST00000366149"	"Transcript"	"downstream_gene_variant"	"-/927"	""	""	""	""	"rs66512239"	"1"	"2673"	1	"OR8G2P"	"Clone_based_vega_gene"	NA	"pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"AGGC:0.1655"	"AGGC:0.2504"	"AGGC:0.1297"	NA	"AGGC:0.13"	"AGGC:0.0915"	"AGGC:0.1892"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"59997a10-2764-11e6-8c6e-9077424a729f"	"146"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"597"	"KIRREL3"	84623	"mskcc.org"	"GRCh37"	"11"	126793292	126793293	"+"	"Intron"	"INS"	"-"	"-"	"TC"	"rs34263587"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55+77058_55+77059insGA"	""	""	"ENST00000525144"	""	25	"."	9	8	"."	0	"KIRREL3,intron_variant,,ENST00000525144,NM_032531.3;KIRREL3,intron_variant,,ENST00000529097,;KIRREL3,intron_variant,,ENST00000525704,NM_001161707.1;RP11-688I9.4,intron_variant,,ENST00000530572,;KIRREL3,intron_variant,,ENST00000533026,;KIRREL3,intron_variant,,ENST00000547738,;KIRREL3,intron_variant,,ENST00000549874,;"	"TC"	"ENSG00000149571"	"ENST00000525144"	"Transcript"	"intron_variant"	"-/3808"	"-/2337"	"-/778"	""	""	"rs34263587"	"1"	NA	-1	"KIRREL3"	"HGNC"	23204	"protein_coding"	"YES"	"CCDS53723.1"	"ENSP00000435466"	"Q8IZU9"	"B4DT91"	"UPI00000740A0"	"NM_032531.3"	NA	NA	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"5a0389fa-2764-11e6-8c6e-9077424a729f"	"525"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36	"WXS"	FALSE
"598"	"ADAMTS8"	11095	"mskcc.org"	"GRCh37"	"11"	130283948	130283948	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34035393"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1566+478delA"	""	""	"ENST00000257359"	""	10	"."	5	4	"."	0	"ADAMTS8,intron_variant,,ENST00000257359,NM_007037.4;ADAMTS8,upstream_gene_variant,,ENST00000531752,;"	"-"	"ENSG00000134917"	"ENST00000257359"	"Transcript"	"intron_variant"	"-/4010"	"-/2670"	"-/889"	""	""	"rs34035393"	"1"	NA	-1	"ADAMTS8"	"HGNC"	224	"protein_coding"	"YES"	"CCDS41732.1"	"ENSP00000257359"	"Q9UP79"	""	"UPI000013CF5D"	"NM_007037.4"	NA	NA	""	"5/8"	""	"-:0.4133"	"-:0.2239"	"-:0.5231"	NA	"-:0.5486"	"-:0.4672"	"-:0.3967"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTT"	"483f2c60-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"599"	"SNX19"	399979	"mskcc.org"	"GRCh37"	"11"	130764010	130764010	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs3838801"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2573+9140delT"	""	""	"ENST00000265909"	""	9	"."	4	6	"."	0	"SNX19,intron_variant,,ENST00000265909,NM_014758.2;SNX19,intron_variant,,ENST00000534726,;SNX19,intron_variant,,ENST00000530356,;SNX19,intron_variant,,ENST00000539184,;SNX19,intron_variant,,ENST00000528555,;SNX19,intron_variant,,ENST00000545537,;SNX19,upstream_gene_variant,,ENST00000426933,;SNX19,intron_variant,,ENST00000533318,;SNX19,intron_variant,,ENST00000526579,;SNX19,upstream_gene_variant,,ENST00000530330,;"	"-"	"ENSG00000120451"	"ENST00000265909"	"Transcript"	"intron_variant"	"-/6535"	"-/2979"	"-/992"	""	""	"rs3838801"	"1"	NA	-1	"SNX19"	"HGNC"	21532	"protein_coding"	"YES"	"CCDS31721.1"	"ENSP00000265909"	"Q92543"	"E9PLV3,E9PJV7"	"UPI000013D6A5"	"NM_014758.2"	NA	NA	""	"8/10"	""	"-:0.1450"	"-:0.1142"	"-:0.0951"	NA	"-:0.1538"	"-:0.1988"	"-:0.1575"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"48431956-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"600"	"B3GAT1"	27087	"mskcc.org"	"GRCh37"	"11"	134259982	134259987	"+"	"5'UTR"	"DEL"	"TTCCCC"	"TTCCCC"	"GAGA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TTCCCC"	"TTCCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-2285_-2280delGGGGAAinsTCTC"	""	""	"ENST00000524765"	"1/6"	9	"."	4	1	"."	0	"B3GAT1,5_prime_UTR_variant,,ENST00000524765,;B3GAT1,intron_variant,,ENST00000312527,NM_054025.2;B3GAT1,intron_variant,,ENST00000392580,NM_018644.3;B3GAT1,upstream_gene_variant,,ENST00000537389,;B3GAT1,intron_variant,,ENST00000531510,;B3GAT1,upstream_gene_variant,,ENST00000531778,;"	"GAGA"	"ENSG00000109956"	"ENST00000524765"	"Transcript"	"5_prime_UTR_variant"	"2261-2266/5737"	"-/1005"	"-/334"	""	""	""	"1"	NA	-1	"B3GAT1"	"HGNC"	921	"protein_coding"	"YES"	"CCDS8500.1"	"ENSP00000433847"	"Q9P2W7"	"Q8ND18"	"UPI0000073281"	""	NA	NA	"1/6"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTTCCCCT"	"4987a980-2764-11e6-8c6e-9077424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"601"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	134643362	134643363	"+"	"IGR"	"INS"	"-"	"-"	"AAGAAGAGGAAGAGAAAGAAGAACAGGAAGAGGAAGAAAAAGAAGAAAGAAGAGGAAGAGGAAGACGA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	34	"."	3	13	"."	0	""	"AAGAAGAGGAAGAGAAAGAAGAACAGGAAGAGGAAGAAAAAGAAGAAAGAAGAGGAAGAGGAAGACGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"5addf81a-2764-11e6-8c6e-9077424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WXS"	FALSE
"602"	"ENSR00001626452"	0	"mskcc.org"	"GRCh37"	"11"	134670203	134670204	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs56334892"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001626452"	""	11	"."	5	7	"."	0	""	"G"	""	"ENSR00001626452"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs56334892"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.4054"	"G:0.5325"	"G:0.2925"	NA	"G:0.4216"	"G:0.3618"	"G:0.3415"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"5addfc20-2764-11e6-8c6e-9077424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"603"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	134776413	134776413	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs58182314"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	7	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs58182314"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4479"	"-:0.5809"	"-:0.3242"	NA	"-:0.6101"	"-:0.3241"	"-:0.316"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCA"	"48c8fc2e-2764-11e6-8c6e-9077424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.636363636363636	"WXS"	FALSE
"604"	"SLC6A12"	6539	"mskcc.org"	"GRCh37"	"12"	300758	300759	"+"	"Intron"	"INS"	"-"	"-"	"TTA"	"rs35911251"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1702-384_1702-382dupTAA"	""	""	"ENST00000428720"	""	11	"."	3	1	"."	0	"SLC6A12,intron_variant,,ENST00000428720,NM_001122848.2;SLC6A12,intron_variant,,ENST00000424061,NM_003044.4;SLC6A12,intron_variant,,ENST00000397296,;SLC6A12,intron_variant,,ENST00000359674,NM_001122847.2;SLC6A12,intron_variant,,ENST00000536824,NM_001206931.1;RP11-283I3.1,upstream_gene_variant,,ENST00000544067,;SLC6A12,downstream_gene_variant,,ENST00000535498,;SLC6A12,intron_variant,,ENST00000545058,;SLC6A12,downstream_gene_variant,,ENST00000542825,;"	"TTA"	"ENSG00000111181"	"ENST00000428720"	"Transcript"	"intron_variant"	"-/3571"	"-/1845"	"-/614"	""	""	"rs35911251"	"1"	NA	-1	"SLC6A12"	"HGNC"	11045	"protein_coding"	"YES"	"CCDS8501.1"	"ENSP00000388184"	"P48065"	"F5H2T6,B3KTU1"	"UPI000013C8DB"	"NM_001122848.2"	NA	NA	""	"15/15"	""	"-:0.4299"	"TTA:0.6346"	"TTA:0.5692"	NA	"TTA:0.4137"	"TTA:0.5805"	"TTA:0.6339"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"5635bc6c-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"605"	"SLC6A13"	6540	"mskcc.org"	"GRCh37"	"12"	365017	365019	"+"	"Intron"	"DEL"	"CCT"	"-"	"-"	"rs55990424"	NA	"JHCCPT1"	"JHCCPN1"	"CCT"	"CCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.202+3998_202+4000delAGG"	""	""	"ENST00000343164"	""	8	"."	6	5	"."	0	"SLC6A13,intron_variant,,ENST00000343164,NM_016615.4;SLC6A13,intron_variant,,ENST00000445055,NM_001190997.2;SLC6A13,intron_variant,,ENST00000546319,;SLC6A13,downstream_gene_variant,,ENST00000436453,NM_001243392.1;RP11-283I3.4,intron_variant,,ENST00000540868,;SLC6A13,intron_variant,,ENST00000536842,;SLC6A13,intron_variant,,ENST00000539260,;SLC6A13,intron_variant,,ENST00000542272,;"	"-"	"ENSG00000010379"	"ENST00000343164"	"Transcript"	"intron_variant"	"-/2185"	"-/1809"	"-/602"	""	""	"rs55990424"	"1"	NA	-1	"SLC6A13"	"HGNC"	11046	"protein_coding"	"YES"	"CCDS8502.1"	"ENSP00000339260"	"Q9NSD5"	""	"UPI0000046060"	"NM_016615.4"	NA	NA	""	"2/14"	""	"-:0.2310"	"-:0.0219"	"-:0.2781"	NA	"-:0.0923"	"-:0.5368"	"-:0.3088"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACCTT"	"2ec907a6-2764-11e6-a5eb-9377424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"606"	"ENSR00000425007"	0	"mskcc.org"	"GRCh37"	"12"	831815	831816	"+"	"IGR"	"INS"	"-"	"G"	"G"	"rs5795945"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000425007"	""	6	"."	5	2	"."	0	""	"G"	""	"ENSR00000425007"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs5795945"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.4908"	"G:0.1324"	"G:0.6311"	NA	"G:0.7659"	"G:0.6034"	"G:0.4765"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"564a76fc-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"607"	"WNK1"	65125	"mskcc.org"	"GRCh37"	"12"	968797	968798	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGTGTGTG"	"rs111327474"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1620+169_1620+170insGTGTGTGTGGT"	""	""	"ENST00000315939"	""	55	"."	5	24	"."	0	"WNK1,intron_variant,,ENST00000537687,NM_001184985.1,NM_213655.4;WNK1,intron_variant,,ENST00000315939,NM_018979.3;WNK1,intron_variant,,ENST00000535572,NM_014823.2;WNK1,intron_variant,,ENST00000530271,;WNK1,intron_variant,,ENST00000340908,;WNK1,upstream_gene_variant,,ENST00000535698,;WNK1,upstream_gene_variant,,ENST00000544965,;WNK1,upstream_gene_variant,,ENST00000545285,;WNK1,intron_variant,,ENST00000540360,;WNK1,downstream_gene_variant,,ENST00000538787,;"	"GTGTGTGTGTG"	"ENSG00000060237"	"ENST00000315939"	"Transcript"	"intron_variant"	"-/10452"	"-/7149"	"-/2382"	""	""	"rs111327474"	"1"	NA	1	"WNK1"	"HGNC"	14540	"protein_coding"	"YES"	"CCDS8506.1"	"ENSP00000313059"	"Q9H4A3"	"Q96CZ6"	"UPI000013CD65"	"NM_018979.3"	NA	NA	""	"6/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"564fb31a-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WXS"	FALSE
"608"	"CACNA2D4"	93589	"mskcc.org"	"GRCh37"	"12"	2030401	2030402	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs35323237"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000382722"	""	11	"."	5	1	"."	0	"CACNA2D4,upstream_gene_variant,,ENST00000382722,NM_172364.4;CACNA2D4,upstream_gene_variant,,ENST00000587995,;CACNA2D4,upstream_gene_variant,,ENST00000586184,;CACNA2D4,upstream_gene_variant,,ENST00000585732,;RP5-1096D14.3,intron_variant,,ENST00000544163,;CACNA2D4,upstream_gene_variant,,ENST00000280663,;CACNA2D4,upstream_gene_variant,,ENST00000444595,;"	"G"	"ENSG00000151062"	"ENST00000382722"	"Transcript"	"upstream_gene_variant"	"-/5475"	"-/3414"	"-/1137"	""	""	"rs35323237"	"1"	"2399"	-1	"CACNA2D4"	"HGNC"	20202	"protein_coding"	"YES"	"CCDS44785.1"	"ENSP00000372169"	"Q7Z3S7"	""	"UPI0000E593D9"	"NM_172364.4"	NA	NA	""	""	""	"G:0.2977"	"G:0.407"	"G:0.2882"	NA	"G:0.0903"	"G:0.4115"	"G:0.2536"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTA"	"56e16210-2764-11e6-a5eb-9377424a729f"	"269"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"609"	"CACNA1C"	775	"mskcc.org"	"GRCh37"	"12"	2520035	2520059	"+"	"Intron"	"DEL"	"CCTATCCTTCCCTTCTCCTGGCTGC"	"CCTATCCTTCCCTTCTCCTGGCTGC"	"-"	"rs540436047"	NA	"JHCCPT1"	"JHCCPN1"	"CCTATCCTTCCCTTCTCCTGGCTGC"	"CCTATCCTTCCCTTCTCCTGGCTGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.478-38081_478-38057delCTATCCTTCCCTTCTCCTGGCTGCC"	""	""	"ENST00000347598"	""	12	"."	4	5	"."	0	"CACNA1C,intron_variant,,ENST00000399655,NM_001129834.1,NM_001129829.1,NM_000719.6;CACNA1C,intron_variant,,ENST00000399634,NM_001167625.1;CACNA1C,intron_variant,,ENST00000406454,;CACNA1C,intron_variant,,ENST00000399617,NM_001167624.1;CACNA1C,intron_variant,,ENST00000399603,NM_001167623.1;CACNA1C,intron_variant,,ENST00000335762,;CACNA1C,intron_variant,,ENST00000480911,;CACNA1C,intron_variant,,ENST00000347598,NM_199460.2,NM_001129827.1;CACNA1C,intron_variant,,ENST00000344100,;CACNA1C,intron_variant,,ENST00000327702,NM_001129830.1;CACNA1C,intron_variant,,ENST00000399638,NM_001129831.1;CACNA1C,intron_variant,,ENST00000399606,NM_001129832.1;CACNA1C,intron_variant,,ENST00000399621,;CACNA1C,intron_variant,,ENST00000399637,NM_001129835.1;CACNA1C,intron_variant,,ENST00000402845,NM_001129833.1;CACNA1C,intron_variant,,ENST00000399629,NM_001129836.1;CACNA1C,intron_variant,,ENST00000399591,NM_001129838.1,NM_001129846.1;CACNA1C,intron_variant,,ENST00000399595,NM_001129837.1;CACNA1C,intron_variant,,ENST00000399649,NM_001129839.1;CACNA1C,intron_variant,,ENST00000399597,NM_001129844.1,NM_001129842.1;CACNA1C,intron_variant,,ENST00000399601,NM_001129843.1;CACNA1C,intron_variant,,ENST00000399641,NM_001129840.1;CACNA1C,intron_variant,,ENST00000399644,NM_001129841.1;"	"-"	"ENSG00000151067"	"ENST00000347598"	"Transcript"	"intron_variant"	"-/6655"	"-/6561"	"-/2186"	""	""	"rs540436047"	"1"	NA	1	"CACNA1C"	"HGNC"	1390	"protein_coding"	"YES"	"CCDS44788.1"	"ENSP00000266376"	"Q13936"	"Q86XX0,O95234"	"UPI0000E593E5"	"NM_199460.2,NM_001129827.1"	NA	NA	""	"3/48"	""	"-:0.0164"	"-:0.0545"	"-:0.0086"	NA	"-:0"	"-:0.004"	"-:0"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"26"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTCCTATCCTTCCCTTCTCCTGGCTGCC"	"2fa90a18-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"610"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	3160524	3160525	"+"	"IGR"	"INS"	"-"	"-"	"TC"	"rs71057889"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	21	"."	3	4	"."	0	""	"TC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71057889"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"574f9e38-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"611"	"EFCAB4B"	84766	"mskcc.org"	"GRCh37"	"12"	3737393	3737394	"+"	"Intron"	"INS"	"-"	"-"	"TCTT"	"rs150027786"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1736-525_1736-522dupAAGA"	""	""	"ENST00000440314"	""	7	"."	3	4	"."	0	"EFCAB4B,intron_variant,,ENST00000440314,NM_001144958.1;EFCAB4B,intron_variant,,ENST00000333750,;"	"TCTT"	"ENSG00000130038"	"ENST00000440314"	"Transcript"	"intron_variant"	"-/2697"	"-/2196"	"-/731"	""	""	"rs150027786"	"1"	NA	-1	"EFCAB4B"	"HGNC"	28657	"protein_coding"	"YES"	"CCDS44803.1"	"ENSP00000409382"	"Q9BSW2"	""	"UPI00017A8807"	"NM_001144958.1"	NA	NA	""	"15/19"	""	"TCTT:0.0032"	"TCTT:0.0015"	"TCTT:0.0029"	NA	"TCTT:0.002"	"TCTT:0.006"	"TCTT:0.0041"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"576a282a-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"612"	"ANO2"	57101	"mskcc.org"	"GRCh37"	"12"	5922240	5922241	"+"	"Intron"	"INS"	"-"	"-"	"AGGAAGGAAGGA"	"rs143102055"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.881-5707_881-5706insTCCTTCCTTCCT"	""	""	"ENST00000327087"	""	12	"."	4	11	"."	0	"ANO2,intron_variant,,ENST00000327087,NM_001278596.1,NM_001278597.1;ANO2,intron_variant,,ENST00000356134,;ANO2,intron_variant,,ENST00000546188,;"	"AGGAAGGAAGGA"	"ENSG00000047617"	"ENST00000327087"	"Transcript"	"intron_variant"	"-/3717"	"-/2997"	"-/998"	""	""	"rs143102055"	"1"	NA	-1	"ANO2"	"HGNC"	1183	"protein_coding"	"YES"	""	"ENSP00000314048"	"Q9NQ90"	"Q69YW4"	"UPI0001823FDD"	"NM_001278596.1,NM_001278597.1"	NA	NA	""	"7/25"	""	"AGGAAGGAAGGA:0.4289"	"AGGAAGGAAGGA:0.3759"	"AGGAAGGAAGGA:0.4611"	NA	"AGGAAGGAAGGA:0.4802"	"AGGAAGGAAGGA:0.4443"	"AGGAAGGAAGGA:0.409"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"57c6f596-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"613"	"LTBR"	4055	"mskcc.org"	"GRCh37"	"12"	6494951	6494952	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs5796230"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.473-281_473-280insG"	""	""	"ENST00000228918"	""	12	"."	8	2	"."	0	"LTBR,intron_variant,,ENST00000228918,NM_002342.2;LTBR,intron_variant,,ENST00000539925,NM_001270987.1;LTBR,intron_variant,,ENST00000541102,;LTBR,intron_variant,,ENST00000536876,;LTBR,intron_variant,,ENST00000543190,;LTBR,downstream_gene_variant,,ENST00000546296,;LTBR,upstream_gene_variant,,ENST00000541005,;LTBR,downstream_gene_variant,,ENST00000542830,;LTBR,upstream_gene_variant,,ENST00000543542,;LTBR,non_coding_transcript_exon_variant,,ENST00000440421,;LTBR,intron_variant,,ENST00000535739,;LTBR,intron_variant,,ENST00000544454,;LTBR,upstream_gene_variant,,ENST00000441074,;LTBR,upstream_gene_variant,,ENST00000444814,;LTBR,downstream_gene_variant,,ENST00000545445,;"	"G"	"ENSG00000111321"	"ENST00000228918"	"Transcript"	"intron_variant"	"-/2260"	"-/1308"	"-/435"	""	""	"rs5796230"	"1"	NA	1	"LTBR"	"HGNC"	6718	"protein_coding"	"YES"	"CCDS8544.1"	"ENSP00000228918"	"P36941"	"Q75UT6,B3KTD9"	"UPI00001370E3"	"NM_002342.2"	NA	NA	""	"4/9"	""	"-:0.0002"	"G:1"	"G:1"	NA	"G:0.999"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"57ee7a44-2764-11e6-a5eb-9377424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"614"	"LPAR5"	57121	"mskcc.org"	"GRCh37"	"12"	6747210	6747210	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000329858"	""	16	"."	3	14	"."	0	"LPAR5,upstream_gene_variant,,ENST00000329858,NM_020400.5;ACRBP,downstream_gene_variant,,ENST00000229243,NM_032489.2;ACRBP,downstream_gene_variant,,ENST00000414226,;LPAR5,upstream_gene_variant,,ENST00000540335,;ACRBP,downstream_gene_variant,,ENST00000542357,;ACRBP,downstream_gene_variant,,ENST00000540513,;"	"-"	"ENSG00000184574"	"ENST00000329858"	"Transcript"	"upstream_gene_variant"	"-/3171"	"-/1119"	"-/372"	""	""	""	"1"	"1597"	-1	"LPAR5"	"HGNC"	13307	"protein_coding"	"YES"	"CCDS8553.1"	"ENSP00000327875"	"Q9H1C0"	"Q5KU18"	"UPI0000036A45"	"NM_020400.5"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"310b59ce-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"615"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	7663858	7663859	"+"	"IGR"	"INS"	"-"	"-"	"AGAAAGAGAGAG"	"rs113235201"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	4	3	"."	0	""	"AGAAAGAGAGAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113235201"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	"AGAAAGAGAGAG:0.3578"	"AGAAAGAGAGAG:0.4409"	NA	"AGAAAGAGAGAG:0.374"	"AGAAAGAGAGAG:0.4861"	"AGAAAGAGAGAG:0.4438"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"5912a2f6-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"616"	"SLC2A14"	144195	"mskcc.org"	"GRCh37"	"12"	7970347	7970348	"+"	"Intron"	"INS"	"-"	"-"	"ATAGATAGATAG"	"rs372370462"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1344+68_1344+79dupCTATCTATCTAT"	""	""	"ENST00000543909"	""	42	"."	3	20	"."	0	"SLC2A14,intron_variant,,ENST00000543909,NM_001286233.1;SLC2A14,intron_variant,,ENST00000340749,NM_001286235.1;SLC2A14,intron_variant,,ENST00000431042,NM_001286234.1;SLC2A14,intron_variant,,ENST00000396589,NM_153449.2;SLC2A14,intron_variant,,ENST00000539924,NM_001286237.1;SLC2A14,intron_variant,,ENST00000535295,;SLC2A14,intron_variant,,ENST00000542505,;SLC2A14,intron_variant,,ENST00000542546,;"	"ATAGATAGATAG"	"ENSG00000173262"	"ENST00000543909"	"Transcript"	"intron_variant"	"-/4125"	"-/1563"	"-/520"	""	""	"rs372370462"	"1"	NA	-1	"SLC2A14"	"HGNC"	18301	"protein_coding"	"YES"	"CCDS8585.1"	"ENSP00000440480"	"Q8TDB8"	"F5H6F6,F5GXP7"	"UPI000006D325"	"NM_001286233.1"	NA	NA	""	"15/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"594bb6cc-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WXS"	FALSE
"617"	"RP11-266K4.1"	0	"mskcc.org"	"GRCh37"	"12"	8365392	8365393	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs71042347"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.224+5891dupA"	""	""	"ENST00000542600"	""	7	"."	3	1	"."	0	"FAM66C,intron_variant,,ENST00000454799,;FAM66C,intron_variant,,ENST00000372173,;RP11-266K4.1,intron_variant,,ENST00000542600,;"	"T"	"ENSG00000244050"	"ENST00000542600"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/509"	""	""	""	""	"rs71042347"	"1"	NA	-1	"RP11-266K4.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	"T:0.3033"	"T:0.4856"	NA	"T:0.5099"	"T:0.5835"	"T:0.4182"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"5968f1ba-2764-11e6-a5eb-9377424a729f"	"132"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"618"	"LINC00937"	389634	"mskcc.org"	"GRCh37"	"12"	8550034	8550035	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"rs202225748"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000544461"	""	8	"."	4	6	"."	0	"LINC00937,upstream_gene_variant,,ENST00000544461,;LINC00937,upstream_gene_variant,,ENST00000538304,;"	"T"	"ENSG00000226091"	"ENST00000544461"	"Transcript"	"upstream_gene_variant"	"-/3033"	""	""	""	""	"rs202225748"	"1"	"635"	-1	"LINC00937"	"HGNC"	48629	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	"T:0.0234"	"T:0.1513"	NA	"T:0.0496"	"T:0.1491"	"T:0.1258"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"5973f89e-2764-11e6-a5eb-9377424a729f"	"149"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"619"	"A2ML1"	144568	"mskcc.org"	"GRCh37"	"12"	8992123	8992133	"+"	"Intron"	"DEL"	"AATCCCATAGA"	"TAATCCCAT"	"TAATCCCAT"	"rs775050216"	NA	"JHCCPT1"	"JHCCPN1"	"AATCCCATAGA"	"AATCCCATAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1080+305_1080+315delAATCCCATAGAinsTAATCCCAT"	""	""	"ENST00000299698"	""	20	"."	14	2	"."	0	"A2ML1,intron_variant,,ENST00000299698,NM_144670.4,NM_001282424.1;A2ML1,upstream_gene_variant,,ENST00000541459,;A2ML1,downstream_gene_variant,,ENST00000537546,;"	"TAATCCCAT"	"ENSG00000166535"	"ENST00000299698"	"Transcript"	"intron_variant"	"-/5274"	"-/4365"	"-/1454"	""	""	"rs775050216"	"1"	NA	1	"A2ML1"	"HGNC"	23336	"protein_coding"	"YES"	"CCDS8596.2"	"ENSP00000299698"	"A8K2U0"	"H0YGG5"	"UPI000022904E"	"NM_144670.4,NM_001282424.1"	NA	NA	""	"10/35"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCAATCCCATAGAA"	"554fca86-2764-11e6-a5eb-9377424a729f"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"620"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	9477186	9477187	"+"	"IGR"	"INS"	"-"	"AGCCGTACACCGGAG"	"AGCCGTACACCGGAG"	"rs139194166"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	2	"."	0	""	"AGCCGTACACCGGAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139194166"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"5a026c6e-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"621"	"KLRB1"	3820	"mskcc.org"	"GRCh37"	"12"	9759846	9759847	"+"	"Intron"	"INS"	"-"	"-"	"TCTTTTTCTTTCTT"	"rs143271674"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.85+491_85+504dupAAGAAAGAAAAAGA"	""	""	"ENST00000229402"	""	15	"."	4	4	"."	0	"KLRB1,intron_variant,,ENST00000229402,NM_002258.2;"	"TCTTTTTCTTTCTT"	"ENSG00000111796"	"ENST00000229402"	"Transcript"	"intron_variant"	"-/1448"	"-/678"	"-/225"	""	""	"rs143271674"	"1"	NA	-1	"KLRB1"	"HGNC"	6373	"protein_coding"	"YES"	"CCDS8601.1"	"ENSP00000229402"	"Q12918"	""	"UPI000006E273"	"NM_002258.2"	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"5a2cbf6e-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"622"	"CLEC1B"	51266	"mskcc.org"	"GRCh37"	"12"	10149204	10149207	"+"	"Intron"	"DEL"	"TGTA"	"TGTA"	"GGG"	"rs386760225"	NA	"JHCCPT1"	"JHCCPN1"	"TGTA"	"TGTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.438+238_438+241delTACAinsCCC"	""	""	"ENST00000298527"	""	17	"."	7	4	"."	0	"CLEC1B,intron_variant,,ENST00000428126,;CLEC1B,intron_variant,,ENST00000298527,NM_016509.3;CLEC1B,intron_variant,,ENST00000348658,NM_001099431.1;CLEC1B,intron_variant,,ENST00000398937,;CLEC12A,downstream_gene_variant,,ENST00000449959,;"	"GGG"	"ENSG00000165682"	"ENST00000298527"	"Transcript"	"intron_variant"	"-/952"	"-/690"	"-/229"	""	""	"rs386760225"	"1"	NA	-1	"CLEC1B"	"HGNC"	24356	"protein_coding"	"YES"	"CCDS41752.1"	"ENSP00000298527"	"Q9P126"	""	"UPI000013E4EA"	"NM_016509.3"	NA	NA	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATGTAC"	"55574770-2764-11e6-a5eb-9377424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411764705882353	"WXS"	FALSE
"623"	"HNRNPABP1"	0	"mskcc.org"	"GRCh37"	"12"	10265598	10265600	"+"	"3'Flank"	"DEL"	"CCG"	"CCG"	"-"	"rs148673526"	NA	"JHCCPT1"	"JHCCPN1"	"CCG"	"CCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000406003"	""	8	"."	4	1	"."	0	"CLEC7A,downstream_gene_variant,,ENST00000353231,NM_022570.4;CLEC7A,downstream_gene_variant,,ENST00000298523,NM_197949.2;CLEC1A,upstream_gene_variant,,ENST00000414501,;CLEC7A,downstream_gene_variant,,ENST00000534609,;CLEC7A,downstream_gene_variant,,ENST00000529761,;HNRNPABP1,downstream_gene_variant,,ENST00000406003,;"	"-"	"ENSG00000255734"	"ENST00000406003"	"Transcript"	"downstream_gene_variant"	"-/734"	""	""	""	""	"rs148673526"	"1"	"528"	1	"HNRNPABP1"	"HGNC"	48744	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3407"	"-:0.1513"	"-:0.3876"	NA	"-:0.2173"	"-:0.661"	"-:0.3354"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCCGC"	"32e796f4-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"624"	"RP11-711K1.8"	0	"mskcc.org"	"GRCh37"	"12"	11384996	11385000	"+"	"Intron"	"DEL"	"AAAGT"	"AAAGT"	"-"	"rs147876110"	NA	"JHCCPT1"	"JHCCPN1"	"AAAGT"	"AAAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.436-19233_436-19229delTAAAG"	""	""	"ENST00000539328"	""	7	"."	4	1	"."	0	"RP11-711K1.8,intron_variant,,ENST00000539328,;"	"-"	"ENSG00000256373"	"ENST00000539328"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/506"	""	""	""	""	"rs147876110"	"1"	NA	1	"RP11-711K1.8"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"AAAGT:0.1873"	"-:0.6868"	"-:0.9524"	NA	"-:0.6984"	"-:0.9553"	"-:0.8548"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAAGTA"	"33398c66-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"625"	"RP11-711K1.7"	0	"mskcc.org"	"GRCh37"	"12"	11600101	11600102	"+"	"Intron"	"INS"	"-"	"-"	"AAAG"	"rs141471688"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.215-12013_215-12010dupCTTT"	""	""	"ENST00000542062"	""	14	"."	3	5	"."	0	"RP11-711K1.7,intron_variant,,ENST00000542062,;RP11-711K1.7,intron_variant,,ENST00000538349,;RP11-711K1.7,intron_variant,,ENST00000540635,;PRB2,intron_variant,,ENST00000545829,;"	"AAAG"	"ENSG00000255790"	"ENST00000542062"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/562"	""	""	""	""	"rs141471688"	"1"	NA	-1	"RP11-711K1.7"	"Clone_based_vega_gene"	NA	"sense_intronic"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"5ace8ba0-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"626"	"GPRC5D"	55507	"mskcc.org"	"GRCh37"	"12"	13109088	13109109	"+"	"5'Flank"	"DEL"	"TTTTTCTTTCTTTCTTTCTTTC"	"TTTTTCTTTCTTTCTTTCTTTC"	"-"	"rs148079243"	NA	"JHCCPT1"	"JHCCPN1"	"TTTTTCTTTCTTTCTTTCTTTC"	"TTTTTCTTTCTTTCTTTCTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000541128"	""	11	"."	4	5	"."	0	"GPRC5D,upstream_gene_variant,,ENST00000541128,;RP11-392P7.6,intron_variant,,ENST00000543515,;RP11-392P7.6,intron_variant,,ENST00000545914,;RP11-392P7.6,intron_variant,,ENST00000536029,;RP11-392P7.6,intron_variant,,ENST00000542078,;RP11-392P7.6,downstream_gene_variant,,ENST00000540198,;RP11-392P7.6,downstream_gene_variant,,ENST00000394742,;"	"-"	"ENSG00000111291"	"ENST00000541128"	"Transcript"	"upstream_gene_variant"	"-/448"	"-/362"	"-/120"	""	""	"rs148079243"	"1"	"4007"	-1	"GPRC5D"	"HGNC"	13310	"protein_coding"	""	""	"ENSP00000440530"	""	"F5GWX9"	"UPI000204AB06"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTTTTCTTTCTTTCTTTCTTTCT"	"339c09a4-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"627"	"HEBP1"	50865	"mskcc.org"	"GRCh37"	"12"	13140524	13140525	"+"	"Intron"	"INS"	"-"	"-"	"TCTCTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.218-264_218-259dupGAGAGA"	""	""	"ENST00000014930"	""	23	"."	3	4	"."	0	"HEBP1,intron_variant,,ENST00000536942,;HEBP1,intron_variant,,ENST00000014930,NM_015987.4;HEBP1,intron_variant,,ENST00000535636,;RP11-392P7.6,downstream_gene_variant,,ENST00000499948,;RP11-392P7.6,downstream_gene_variant,,ENST00000607894,;RP11-392P7.6,downstream_gene_variant,,ENST00000542078,;"	"TCTCTC"	"ENSG00000013583"	"ENST00000014930"	"Transcript"	"intron_variant"	"-/1173"	"-/570"	"-/189"	""	""	""	"1"	NA	-1	"HEBP1"	"HGNC"	17176	"protein_coding"	"YES"	"CCDS31749.1"	"ENSP00000014930"	"Q9NRV9"	"F5GWX2"	"UPI0000038D71"	"NM_015987.4"	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"5af1cdd6-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"628"	"RERGL"	79785	"mskcc.org"	"GRCh37"	"12"	18237927	18237928	"+"	"Intron"	"INS"	"-"	"-"	"ATTT"	"rs10672311"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.187-332_187-329dupAAAT"	""	""	"ENST00000229002"	""	14	"."	3	3	"."	0	"RERGL,intron_variant,,ENST00000229002,NM_024730.2;RERGL,intron_variant,,ENST00000538724,NM_001286201.1;RERGL,intron_variant,,ENST00000536890,;RERGL,intron_variant,,ENST00000541632,;RERGL,intron_variant,,ENST00000540148,;"	"ATTT"	"ENSG00000111404"	"ENST00000229002"	"Transcript"	"intron_variant"	"-/1147"	"-/618"	"-/205"	""	""	"rs10672311"	"1"	NA	-1	"RERGL"	"HGNC"	26213	"protein_coding"	"YES"	"CCDS8679.1"	"ENSP00000229002"	"Q9H628"	""	"UPI000000D9FA"	"NM_024730.2"	NA	NA	""	"4/5"	""	"ATTT:0.4531"	"ATTT:0.4395"	"ATTT:0.3934"	NA	"ATTT:0.5754"	"ATTT:0.4284"	"ATTT:0.4131"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"5b69d236-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"629"	"PIK3C2G"	5288	"mskcc.org"	"GRCh37"	"12"	18410654	18410655	"+"	"5'Flank"	"INS"	"-"	"-"	"GGAA"	"rs71440359"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000433979"	""	14	"."	5	6	"."	0	"PIK3C2G,intron_variant,,ENST00000535651,;PIK3C2G,upstream_gene_variant,,ENST00000433979,NM_004570.4;RERGL,intron_variant,,ENST00000541632,;"	"GGAA"	"ENSG00000139144"	"ENST00000433979"	"Transcript"	"upstream_gene_variant"	"-/4840"	"-/4338"	"-/1445"	""	""	"rs71440359"	"1"	"3819"	1	"PIK3C2G"	"HGNC"	8973	"protein_coding"	"YES"	"CCDS44839.1"	"ENSP00000404845"	"O75747"	""	"UPI000013D6EF"	"NM_004570.4"	NA	NA	""	""	""	"GGAA:0.4303"	"GGAA:0.4561"	"GGAA:0.4741"	NA	"GGAA:0.249"	"GGAA:0.5706"	"GGAA:0.407"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"5b6fa454-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"630"	"PLEKHA5"	54477	"mskcc.org"	"GRCh37"	"12"	19407592	19407593	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs35159886"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.312-380dupA"	""	""	"ENST00000429027"	""	8	"."	4	1	"."	0	"PLEKHA5,intron_variant,,ENST00000538714,NM_001143821.2;PLEKHA5,intron_variant,,ENST00000429027,NM_001256470.1;PLEKHA5,intron_variant,,ENST00000317589,;PLEKHA5,intron_variant,,ENST00000355397,;PLEKHA5,intron_variant,,ENST00000424268,;PLEKHA5,intron_variant,,ENST00000299275,NM_019012.5;PLEKHA5,intron_variant,,ENST00000359180,;PLEKHA5,intron_variant,,ENST00000543806,NM_001256787.1;PLEKHA5,intron_variant,,ENST00000539256,;PLEKHA5,intron_variant,,ENST00000536974,;PLEKHA5,intron_variant,,ENST00000309364,;PLEKHA5,intron_variant,,ENST00000538305,;PLEKHA5,intron_variant,,ENST00000538034,;PLEKHA5,upstream_gene_variant,,ENST00000510738,;PLEKHA5,downstream_gene_variant,,ENST00000534979,;"	"A"	"ENSG00000052126"	"ENST00000429027"	"Transcript"	"intron_variant"	"-/4762"	"-/3849"	"-/1282"	""	""	"rs35159886"	"1"	NA	1	"PLEKHA5"	"HGNC"	30036	"protein_coding"	"YES"	"CCDS58213.1"	"ENSP00000404296"	"Q9HAU0"	"F5H1X3,B4DHK5"	"UPI000204ABA8"	"NM_001256470.1"	NA	NA	""	"4/31"	""	"-:0.3367"	"A:0.5477"	"A:0.8487"	NA	"A:0.4702"	"A:0.8817"	"A:0.6626"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"5b7d48b6-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"631"	"AEBP2"	121536	"mskcc.org"	"GRCh37"	"12"	19626309	19626310	"+"	"Intron"	"INS"	"-"	"-"	"AATT"	"rs199934534"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.987+21_987+24dupAATT"	""	""	"ENST00000398864"	""	126	"."	9	55	"."	0	"AEBP2,intron_variant,,ENST00000266508,NM_153207.4;AEBP2,intron_variant,,ENST00000360995,NM_001267043.1;AEBP2,intron_variant,,ENST00000398864,NM_001114176.1;AEBP2,intron_variant,,ENST00000541908,;AEBP2,intron_variant,,ENST00000538425,;"	"AATT"	"ENSG00000139154"	"ENST00000398864"	"Transcript"	"intron_variant"	"-/2235"	"-/1554"	"-/517"	""	""	"rs199934534"	"1"	NA	1	"AEBP2"	"HGNC"	24051	"protein_coding"	"YES"	"CCDS44841.1"	"ENSP00000381840"	"Q6ZN18"	"G5EA50,F5GZR7"	"UPI00002290BB"	"NM_001114176.1"	NA	NA	""	"3/8"	""	"AATT:0.2089"	"AATT:0.4274"	"AATT:0.1398"	NA	"AATT:0.0843"	"AATT:0.1402"	"AATT:0.1616"	"AATT:0.8688"	"AATT:0.7589"	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	"0.009512"	"0.1977"	"0.004762"	"0"	"0"	"0.00131"	"0"	"0.0008082"	NA	"common_variant"	"AAA"	"5b8594c6-2764-11e6-a5eb-9377424a729f"	"540"	0.01228	"92/7492"	"414/43524"	"85/430"	"1/210"	"0/118"	"0/636"	"3/2290"	"0/96"	"3/3712"	"PASS"	"FALSE"	0.0714285714285714	"WXS"	FALSE
"632"	"LST3"	0	"mskcc.org"	"GRCh37"	"12"	21199290	21199291	"+"	"Intron"	"INS"	"-"	"-"	"CTC"	"rs34171006"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1866-20961_1866-20960insCCT"	""	""	"ENST00000540229"	""	11	"."	3	11	"."	0	"LST3,intron_variant,,ENST00000540229,;LST3,intron_variant,,ENST00000381541,;SLCO1B3,intron_variant,,ENST00000553473,;SLCO1B7,intron_variant,,ENST00000554957,;SLCO1B7,intron_variant,,ENST00000421593,NM_001009562.4;RP11-125O5.2,upstream_gene_variant,,ENST00000543498,;"	"CTC"	"ENSG00000257046"	"ENST00000540229"	"Transcript"	"intron_variant"	"-/2451"	"-/2247"	"-/748"	""	""	"rs34171006"	"1"	NA	1	"LST3"	"Uniprot_gn"	NA	"protein_coding"	"YES"	""	"ENSP00000441269"	""	"Q5JAR4,F5H8K0"	"UPI00004A0698"	""	NA	NA	""	"13/15"	""	"CTC:0.0962"	"CTC:0.0825"	"CTC:0.1455"	NA	"CTC:0.003"	"CTC:0.1849"	"CTC:0.0849"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"5ba06634-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"633"	"LST3"	0	"mskcc.org"	"GRCh37"	"12"	21199797	21199798	"+"	"Intron"	"INS"	"-"	"-"	"AATA"	"rs150638582"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1866-20454_1866-20451dupATAA"	""	""	"ENST00000540229"	""	23	"."	5	4	"."	0	"LST3,intron_variant,,ENST00000540229,;LST3,intron_variant,,ENST00000381541,;SLCO1B3,intron_variant,,ENST00000553473,;SLCO1B7,intron_variant,,ENST00000554957,;SLCO1B7,intron_variant,,ENST00000421593,NM_001009562.4;RP11-125O5.2,upstream_gene_variant,,ENST00000543498,;"	"AATA"	"ENSG00000257046"	"ENST00000540229"	"Transcript"	"intron_variant"	"-/2451"	"-/2247"	"-/748"	""	""	"rs150638582"	"1"	NA	1	"LST3"	"Uniprot_gn"	NA	"protein_coding"	"YES"	""	"ENSP00000441269"	""	"Q5JAR4,F5H8K0"	"UPI00004A0698"	""	NA	NA	""	"13/15"	""	"AATA:0.0753"	"AATA:0.0083"	"AATA:0.1354"	NA	"AATA:0.003"	"AATA:0.1849"	"AATA:0.0849"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"5ba86366-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WXS"	FALSE
"634"	"LST3"	0	"mskcc.org"	"GRCh37"	"12"	21201560	21201584	"+"	"Intron"	"DEL"	"ATACATATTTAAATGTGTGTGTGTG"	"ATACATATTTAAATGTGTGTGTGTG"	"CATATTTAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ATACATATTTAAATGTGTGTGTGTG"	"ATACATATTTAAATGTGTGTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1866-18693_1866-18669delATACATATTTAAATGTGTGTGTGTGinsCATATTTAA"	""	""	"ENST00000540229"	""	26	"."	3	14	"."	0	"LST3,intron_variant,,ENST00000540229,;LST3,intron_variant,,ENST00000381541,;SLCO1B3,intron_variant,,ENST00000553473,;SLCO1B7,intron_variant,,ENST00000554957,;SLCO1B7,intron_variant,,ENST00000421593,NM_001009562.4;RP11-125O5.2,intron_variant,,ENST00000543498,;"	"CATATTTAA"	"ENSG00000257046"	"ENST00000540229"	"Transcript"	"intron_variant"	"-/2451"	"-/2247"	"-/748"	""	""	""	"1"	NA	1	"LST3"	"Uniprot_gn"	NA	"protein_coding"	"YES"	""	"ENSP00000441269"	""	"Q5JAR4,F5H8K0"	"UPI00004A0698"	""	NA	NA	""	"13/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATACATATTTAAATGTGTGTGTGTGT"	"556ec6ca-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WXS"	FALSE
"635"	"C2CD5"	9847	"mskcc.org"	"GRCh37"	"12"	22677889	22677895	"+"	"Intron"	"DEL"	"TAATTAT"	"-"	"-"	"rs67110033"	NA	"JHCCPT1"	"JHCCPN1"	"TAATTAT"	"TAATTAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.446-334_446-328delATAATTA"	""	""	"ENST00000333957"	""	10	"."	7	2	"."	0	"C2CD5,intron_variant,,ENST00000333957,NM_014802.1;C2CD5,intron_variant,,ENST00000536386,NM_001286173.1;C2CD5,intron_variant,,ENST00000446597,NM_001286176.1;C2CD5,intron_variant,,ENST00000544930,;C2CD5,intron_variant,,ENST00000545552,NM_001286175.1;C2CD5,intron_variant,,ENST00000396028,NM_001286177.1;C2CD5,intron_variant,,ENST00000542676,NM_001286174.1;C2CD5,upstream_gene_variant,,ENST00000544281,;C2CD5,intron_variant,,ENST00000540703,;C2CD5,intron_variant,,ENST00000541310,;C2CD5,upstream_gene_variant,,ENST00000542683,;"	"-"	"ENSG00000111731"	"ENST00000333957"	"Transcript"	"intron_variant"	"-/4436"	"-/3003"	"-/1000"	""	""	"rs67110033"	"1"	NA	-1	"C2CD5"	"HGNC"	29062	"protein_coding"	"YES"	"CCDS31758.1"	"ENSP00000334229"	"Q86YS7"	""	"UPI000000D850"	"NM_014802.1"	NA	NA	""	"5/24"	""	"-:0.1775"	"-:0.4909"	"-:0.0677"	NA	"-:0.0317"	"-:0.0616"	"-:0.1012"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTAATTATT"	"36144458-2764-11e6-a5eb-9377424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"636"	"RP11-114G22.1"	0	"mskcc.org"	"GRCh37"	"12"	22995100	22995149	"+"	"Intron"	"DEL"	"CTCCTTCTCTTTTTCCCTCCTCCTCCTTCTCTTTTTCCCTCCTCCTCCTT"	"CTCCTTCTCTTTTTCCCTCCTCCTCCTTCTCTTTTTCCCTCCTCCTCCTT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CTCCTTCTCTTTTTCCCTCCTCCTCCTTCTCTTTTTCCCTCCTCCTCCTT"	"CTCCTTCTCTTTTTCCCTCCTCCTCCTTCTCTTTTTCCCTCCTCCTCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.684-18894_684-18845delTTTTTCCCTCCTCCTCCTTCTCTTTTTCCCTCCTCCTCCTTCTCCTTCTC"	""	""	"ENST00000590328"	""	12	"."	5	9	"."	0	"RP11-114G22.1,intron_variant,,ENST00000590328,;RP11-114G22.1,intron_variant,,ENST00000536744,;RP11-114G22.1,intron_variant,,ENST00000413794,;"	"-"	"ENSG00000256995"	"ENST00000590328"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/897"	""	""	""	""	""	"1"	NA	1	"RP11-114G22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTCCTTCTCTTTTTCCCTCCTCCTCCTTCTCTTTTTCCCTCCTCCTCCTTC"	"361b73c2-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"637"	"RP11-114G22.1"	0	"mskcc.org"	"GRCh37"	"12"	23187763	23187765	"+"	"Intron"	"DEL"	"TTT"	"TTT"	"-"	"rs201559136"	NA	"JHCCPT1"	"JHCCPN1"	"TTT"	"TTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.509-11276_509-11274delTTT"	""	""	"ENST00000540895"	""	13	"."	3	7	"."	0	"RP11-114G22.1,intron_variant,,ENST00000540895,;RP11-114G22.1,intron_variant,,ENST00000540994,;"	"-"	"ENSG00000256995"	"ENST00000540895"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1920"	""	""	""	""	"rs201559136"	"1"	NA	1	"RP11-114G22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTT"	"3624521c-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"638"	"BCAT1"	586	"mskcc.org"	"GRCh37"	"12"	24989757	24989758	"+"	"Intron"	"INS"	"-"	"-"	"AGGAAGGAAGGAAGAAAG"	"rs778177716"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.854-228_854-227insCTTTCTTCCTTCCTTCCT"	""	""	"ENST00000539282"	""	23	"."	3	6	"."	0	"BCAT1,intron_variant,,ENST00000261192,NM_005504.6,NM_001178091.1;BCAT1,intron_variant,,ENST00000538118,NM_001178094.1;BCAT1,intron_variant,,ENST00000342945,NM_001178092.1;BCAT1,intron_variant,,ENST00000539282,NM_001178093.1;BCAT1,intron_variant,,ENST00000539780,;RP11-625L16.3,downstream_gene_variant,,ENST00000545410,;BCAT1,intron_variant,,ENST00000544418,;"	"AGGAAGGAAGGAAGAAAG"	"ENSG00000060982"	"ENST00000539282"	"Transcript"	"intron_variant"	"-/1811"	"-/1197"	"-/398"	""	""	"rs778177716"	"1"	NA	-1	"BCAT1"	"HGNC"	976	"protein_coding"	"YES"	"CCDS53761.1"	"ENSP00000443459"	"P54687"	""	"UPI0001D27F89"	"NM_001178093.1"	NA	NA	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"5bfb1322-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"639"	"LRMP"	4033	"mskcc.org"	"GRCh37"	"12"	25259676	25259677	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11397649"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1149-196dupT"	""	""	"ENST00000354454"	""	14	"."	5	5	"."	0	"LRMP,intron_variant,,ENST00000354454,NM_006152.3;LRMP,intron_variant,,ENST00000547044,NM_001204126.1;LRMP,intron_variant,,ENST00000548766,NM_001204127.1;LRMP,intron_variant,,ENST00000536173,;CASC1,downstream_gene_variant,,ENST00000354189,NM_001082972.1;CASC1,downstream_gene_variant,,ENST00000395990,NM_001204102.1;CASC1,downstream_gene_variant,,ENST00000395987,NM_018272.3;CASC1,downstream_gene_variant,,ENST00000320267,NM_001082973.1;CASC1,downstream_gene_variant,,ENST00000537577,;CASC1,downstream_gene_variant,,ENST00000545133,NM_001204101.1;CASC1,downstream_gene_variant,,ENST00000556006,;LRMP,intron_variant,,ENST00000361433,;LRMP,intron_variant,,ENST00000549437,;LRMP,intron_variant,,ENST00000555877,;LRMP,intron_variant,,ENST00000555194,;CASC1,downstream_gene_variant,,ENST00000554533,;LRMP,downstream_gene_variant,,ENST00000553398,;"	"T"	"ENSG00000118308"	"ENST00000354454"	"Transcript"	"intron_variant"	"-/2504"	"-/1500"	"-/499"	""	""	"rs11397649"	"1"	NA	1	"LRMP"	"HGNC"	6690	"protein_coding"	"YES"	"CCDS8701.1"	"ENSP00000346442"	"Q12912"	"G3V513,G3V2F6,F8W9L6,F8VRE4,F5H006"	"UPI000034ECC4"	"NM_006152.3"	NA	NA	""	"19/20"	""	"-:0.3245"	"T:0.5855"	"T:0.6945"	NA	"T:0.8968"	"T:0.6153"	"T:0.6176"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"5c010ba6-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"640"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	25538436	25538445	"+"	"IGR"	"DEL"	"ACACACACAC"	"-"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ACACACACAC"	"ACACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAACACACACACA"	"366c397e-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"641"	"RASSF8"	11228	"mskcc.org"	"GRCh37"	"12"	26222159	26222160	"+"	"3'UTR"	"DEL"	"TT"	"TT"	"-"	"rs3832809"	NA	"JHCCPT1"	"JHCCPN1"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*408_*409delTT"	""	""	"ENST00000405154"	"5/5"	8	"."	3	2	"."	0	"RASSF8,3_prime_UTR_variant,,ENST00000405154,NM_001164748.1;RASSF8,3_prime_UTR_variant,,ENST00000541490,;RASSF8,3_prime_UTR_variant,,ENST00000542865,NM_001164747.1;RASSF8,intron_variant,,ENST00000381352,NM_007211.4;RASSF8,downstream_gene_variant,,ENST00000282884,NM_001164746.1;RASSF8,downstream_gene_variant,,ENST00000542004,;RASSF8,downstream_gene_variant,,ENST00000541218,;RASSF8,downstream_gene_variant,,ENST00000545413,;RASSF8,downstream_gene_variant,,ENST00000542315,;RASSF8,downstream_gene_variant,,ENST00000535907,;RASSF8,intron_variant,,ENST00000539545,;"	"-"	"ENSG00000123094"	"ENST00000405154"	"Transcript"	"3_prime_UTR_variant"	"1867-1868/5510"	"-/1260"	"-/419"	""	""	"rs3832809"	"1"	NA	1	"RASSF8"	"HGNC"	13232	"protein_coding"	"YES"	"CCDS53765.1"	"ENSP00000384491"	"Q8NHQ8"	"H0YG85,F5H8C5,F5H8B9,F5H7J1,F5H343,F5H0S5,F5GYP8"	"UPI00001FB7C1"	"NM_001164748.1"	NA	NA	"5/5"	""	""	"-:0.3153"	"-:0.2617"	"-:0.2291"	NA	"-:0.2907"	"-:0.4374"	"-:0.3487"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACTTA"	"367d3828-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"642"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	27036303	27036304	"+"	"IGR"	"INS"	"-"	"-"	"GAAAGCCAAGGTACAGAGAGAAGGC"	"rs564532922"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	4	"."	0	""	"GAAAGCCAAGGTACAGAGAGAAGGC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs564532922"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GAAAGCCAAGGTACAGAGAGAAGGC:0.1074"	"GAAAGCCAAGGTACAGAGAGAAGGC:0.0068"	"GAAAGCCAAGGTACAGAGAGAAGGC:0.2594"	NA	"GAAAGCCAAGGTACAGAGAGAAGGC:0.0496"	"GAAAGCCAAGGTACAGAGAGAAGGC:0.1471"	"GAAAGCCAAGGTACAGAGAGAAGGC:0.1544"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"5c5b57c8-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"643"	"ENSR00001462435"	0	"mskcc.org"	"GRCh37"	"12"	29009282	29009283	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs11444293"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001462435"	""	11	"."	6	2	"."	0	""	"A"	""	"ENSR00001462435"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs11444293"	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3359"	"A:0.2572"	"A:0.4481"	NA	"A:0.3681"	"A:0.4294"	"A:0.2331"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"5c821f20-2764-11e6-a5eb-9377424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"644"	"RP11-776A13.1"	0	"mskcc.org"	"GRCh37"	"12"	30371318	30371742	"+"	"3'Flank"	"DEL"	"ATGGACTGAAAATTAAGTACAGTCATGTACTGTAAACTGCATATACAGGGGTAGATTTGTAAGATTATATTGGAGATGAAAAATTTCTAATGCCTAGTATGTCATAGTTGTTTTAACGTTATCAAGGCGCAATGCATTATGCATGGGTTTGTGGTGATGCTGGTGTAAACAAACCTACTACACTGCCAGTCTTGCAAAATAGAGCACATGTAATAATATATGGTACACGAGACTTGATAATGATAATAAATGACTATGTTAGTGTTTACGTACTTACTATACTTTTTATTGTTATTTTACAGTGTACTCCTTCTAGTTATTAAAAAAAGTAAAGCTAAGTATAAAACAGCTGCAGGTAGGTCTTTCAGGAGATGTTCTAGAAGAAAGCATTGTTACAGGAGGAGACAGCTCCATACATGTTATTG"	"ATGGACTGAAAATTAAGTACAGTCATGTACTGTAAACTGCATATACAGGGGTAGATTTGTAAGATTATATTGGAGATGAAAAATTTCTAATGCCTAGTATGTCATAGTTGTTTTAACGTTATCAAGGCGCAATGCATTATGCATGGGTTTGTGGTGATGCTGGTGTAAACAAACCTACTACACTGCCAGTCTTGCAAAATAGAGCACATGTAATAATATATGGTACACGAGACTTGATAATGATAATAAATGACTATGTTAGTGTTTACGTACTTACTATACTTTTTATTGTTATTTTACAGTGTACTCCTTCTAGTTATTAAAAAAAGTAAAGCTAAGTATAAAACAGCTGCAGGTAGGTCTTTCAGGAGATGTTCTAGAAGAAAGCATTGTTACAGGAGGAGACAGCTCCATACATGTTATTG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ATGGACTGAAAATTAAGTACAGTCATGTACTGTAAACTGCATATACAGGGGTAGATTTGTAAGATTATATTGGAGATGAAAAATTTCTAATGCCTAGTATGTCATAGTTGTTTTAACGTTATCAAGGCGCAATGCATTATGCATGGGTTTGTGGTGATGCTGGTGTAAACAAACCTACTACACTGCCAGTCTTGCAAAATAGAGCACATGTAATAATATATGGTACACGAGACTTGATAATGATAATAAATGACTATGTTAGTGTTTACGTACTTACTATACTTTTTATTGTTATTTTACAGTGTACTCCTTCTAGTTATTAAAAAAAGTAAAGCTAAGTATAAAACAGCTGCAGGTAGGTCTTTCAGGAGATGTTCTAGAAGAAAGCATTGTTACAGGAGGAGACAGCTCCATACATGTTATTG"	"ATGGACTGAAAATTAAGTACAGTCATGTACTGTAAACTGCATATACAGGGGTAGATTTGTAAGATTATATTGGAGATGAAAAATTTCTAATGCCTAGTATGTCATAGTTGTTTTAACGTTATCAAGGCGCAATGCATTATGCATGGGTTTGTGGTGATGCTGGTGTAAACAAACCTACTACACTGCCAGTCTTGCAAAATAGAGCACATGTAATAATATATGGTACACGAGACTTGATAATGATAATAAATGACTATGTTAGTGTTTACGTACTTACTATACTTTTTATTGTTATTTTACAGTGTACTCCTTCTAGTTATTAAAAAAAGTAAAGCTAAGTATAAAACAGCTGCAGGTAGGTCTTTCAGGAGATGTTCTAGAAGAAAGCATTGTTACAGGAGGAGACAGCTCCATACATGTTATTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000549055"	""	13	"."	4	3	"."	0	"RP11-776A13.1,downstream_gene_variant,,ENST00000549055,;"	"-"	"ENSG00000257262"	"ENST00000549055"	"Transcript"	"downstream_gene_variant"	"-/571"	""	""	""	""	""	"1"	"469"	1	"RP11-776A13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAATGGACTGAAAATTAAGTACAGTCATGTACTGTAAACTGCATATACAGGGGTAGATTTGTAAGATTATATTGGAGATGAAAAATTTCTAATGCCTAGTATGTCATAGTTGTTTTAACGTTATCAAGGCGCAATGCATTATGCATGGGTTTGTGGTGATGCTGGTGTAAACAAACCTACTACACTGCCAGTCTTGCAAAATAGAGCACATGTAATAATATATGGTACACGAGACTTGATAATGATAATAAATGACTATGTTAGTGTTTACGTACTTACTATACTTTTTATTGTTATTTTACAGTGTACTCCTTCTAGTTATTAAAAAAAGTAAAGCTAAGTATAAAACAGCTGCAGGTAGGTCTTTCAGGAGATGTTCTAGAAGAAAGCATTGTTACAGGAGGAGACAGCTCCATACATGTTATTGC"	"37796472-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"645"	"CAPRIN2"	65981	"mskcc.org"	"GRCh37"	"12"	30881503	30881504	"+"	"Intron"	"INS"	"-"	"-"	"G"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1782+78_1782+79insC"	""	""	"ENST00000298892"	""	53	"."	3	21	"."	0	"CAPRIN2,intron_variant,,ENST00000251071,NM_032156.3,NM_001002259.1;CAPRIN2,intron_variant,,ENST00000308433,;CAPRIN2,intron_variant,,ENST00000298892,NM_023925.3;CAPRIN2,intron_variant,,ENST00000395805,NM_001206856.1;CAPRIN2,intron_variant,,ENST00000417045,;CAPRIN2,intron_variant,,ENST00000433722,;CAPRIN2,intron_variant,,ENST00000537108,;CAPRIN2,downstream_gene_variant,,ENST00000538387,;CAPRIN2,downstream_gene_variant,,ENST00000534897,;CAPRIN2,non_coding_transcript_exon_variant,,ENST00000553026,;CAPRIN2,intron_variant,,ENST00000537553,;CAPRIN2,intron_variant,,ENST00000454014,;CAPRIN2,intron_variant,,ENST00000548676,;"	"G"	"ENSG00000110888"	"ENST00000298892"	"Transcript"	"intron_variant"	"-/4334"	"-/3234"	"-/1077"	""	""	""	"1"	NA	-1	"CAPRIN2"	"HGNC"	21259	"protein_coding"	"YES"	"CCDS8720.1"	"ENSP00000298892"	"Q6IMN6"	"F5H7T6,F5H5J8,F5GZX3,F5GYA1,F5GXI7"	"UPI000007080A"	"NM_023925.3"	NA	NA	""	"8/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"5ca486e6-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0566037735849057	"WXS"	FALSE
"646"	"DENND5B"	160518	"mskcc.org"	"GRCh37"	"12"	31562359	31562359	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs375022152"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2682-41delC"	""	""	"ENST00000389082"	""	58	"."	3	43	"."	0	"DENND5B,intron_variant,,ENST00000389082,NM_144973.3;DENND5B,intron_variant,,ENST00000306833,;DENND5B,intron_variant,,ENST00000536562,;"	"-"	"ENSG00000170456"	"ENST00000389082"	"Transcript"	"intron_variant"	"-/9470"	"-/3825"	"-/1274"	""	""	"rs375022152"	"1"	NA	-1	"DENND5B"	"HGNC"	28338	"protein_coding"	"YES"	"CCDS44857.1"	"ENSP00000373734"	"Q6ZUT9"	""	"UPI0000E23226"	"NM_144973.3"	NA	NA	""	"13/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.0005534"	"0.001563"	"0"	"0"	"0.003384"	"0.001638"	"0"	"0.0002572"	NA	"PASS"	"AAGA"	"37e1056e-2764-11e6-a5eb-9377424a729f"	"180"	0.001235	"13/10528"	"33/59628"	"2/1280"	"0/200"	"0/214"	"4/1182"	"6/3662"	"0/102"	"1/3888"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.0517241379310345	"WXS"	FALSE
"647"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"12"	32552387	32552388	"+"	"5'Flank"	"INS"	"-"	"-"	"CTT"	"rs201139297"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384447"	""	20	"."	5	12	"."	0	"FGD4,upstream_gene_variant,,ENST00000534526,;Y_RNA,upstream_gene_variant,,ENST00000384447,;FGD4,upstream_gene_variant,,ENST00000550091,;"	"CTT"	"ENSG00000207176"	"ENST00000384447"	"Transcript"	"upstream_gene_variant"	"-/98"	""	""	""	""	"rs201139297"	"1"	"3306"	-1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"CTT:0.0487"	"CTT:0.0038"	"CTT:0.0519"	NA	"CTT:0.0069"	"CTT:0.0905"	"CTT:0.1074"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"5cd109b4-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"648"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	33228307	33228308	"+"	"IGR"	"INS"	"-"	"-"	"GC"	"rs151167543"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	1	"."	0	""	"GC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs151167543"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GC:0.3922"	"GC:0.5673"	"GC:0.3386"	NA	"GC:0.1458"	"GC:0.4324"	"GC:0.4059"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"5cdd4f9e-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"649"	"ENSR00001629614"	0	"mskcc.org"	"GRCh37"	"12"	34430005	34430008	"+"	"IGR"	"DEL"	"CAGA"	"CAGA"	"-"	"rs71447671"	NA	"JHCCPT1"	"JHCCPN1"	"CAGA"	"CAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001629614"	""	10	"."	4	1	"."	0	""	"-"	""	"ENSR00001629614"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs71447671"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1901"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTCAGAC"	"386f82ee-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"650"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	37959756	37959757	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs74309661"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	3	2	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs74309661"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4465"	"T:0.2693"	"T:0.5922"	NA	"T:0.8075"	"T:0.5726"	"T:0.6288"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"5ce22384-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"651"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	42046839	42046840	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs5797752"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	2	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5797752"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.4407"	"G:0.472"	"G:0.5403"	NA	"G:0.5585"	"G:0.3509"	"G:0.2986"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"5d585ac2-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"652"	"YAF2"	10138	"mskcc.org"	"GRCh37"	"12"	42632275	42632276	"+"	"5'Flank"	"INS"	"-"	"-"	"GGTGGCCGCGGTGGCCGC"	"rs142252797"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000442791"	""	41	"."	9	22	"."	0	"PPHLN1,5_prime_UTR_variant,,ENST00000549190,;YAF2,upstream_gene_variant,,ENST00000555248,NM_001190980.1;YAF2,upstream_gene_variant,,ENST00000327791,;YAF2,upstream_gene_variant,,ENST00000442791,NM_001190979.1;YAF2,upstream_gene_variant,,ENST00000534854,NM_005748.4;YAF2,upstream_gene_variant,,ENST00000380790,NM_001190977.1;YAF2,upstream_gene_variant,,ENST00000380788,;YAF2,upstream_gene_variant,,ENST00000548917,;AC020629.1,downstream_gene_variant,,ENST00000601185,;RN7SL10P,upstream_gene_variant,,ENST00000490073,;YAF2,upstream_gene_variant,,ENST00000541702,;YAF2,upstream_gene_variant,,ENST00000547622,;YAF2,upstream_gene_variant,,ENST00000547724,;YAF2,upstream_gene_variant,,ENST00000552109,;YAF2,upstream_gene_variant,,ENST00000547351,;YAF2,upstream_gene_variant,,ENST00000551268,;YAF2,upstream_gene_variant,,ENST00000546726,;YAF2,upstream_gene_variant,,ENST00000547254,;YAF2,upstream_gene_variant,,ENST00000552928,;YAF2,upstream_gene_variant,,ENST00000546782,;YAF2,upstream_gene_variant,,ENST00000548661,;"	"GGTGGCCGCGGTGGCCGC"	"ENSG00000015153"	"ENST00000442791"	"Transcript"	"upstream_gene_variant"	"-/2226"	"-/615"	"-/204"	""	""	"rs142252797"	"1"	"237"	-1	"YAF2"	"HGNC"	17363	"protein_coding"	"YES"	"CCDS53779.1"	"ENSP00000401859"	"Q8IY57"	""	"UPI00000742C8"	"NM_001190979.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"5d699576-2764-11e6-a5eb-9377424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219512195121951	"WXS"	FALSE
"653"	"PPHLN1"	51535	"mskcc.org"	"GRCh37"	"12"	42749384	42749385	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs71434401"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.299+369dupA"	""	""	"ENST00000395568"	""	9	"."	4	3	"."	0	"PPHLN1,intron_variant,,ENST00000432191,NM_001143787.1;PPHLN1,intron_variant,,ENST00000395568,NM_016488.6;PPHLN1,intron_variant,,ENST00000256678,;PPHLN1,intron_variant,,ENST00000549190,;PPHLN1,intron_variant,,ENST00000395580,NM_201515.1;PPHLN1,intron_variant,,ENST00000358314,NM_201439.1;PPHLN1,intron_variant,,ENST00000449194,NM_001143788.1,NM_001143789.1;PPHLN1,intron_variant,,ENST00000337898,;PPHLN1,intron_variant,,ENST00000317560,;PPHLN1,intron_variant,,ENST00000552761,NM_201440.1;PPHLN1,intron_variant,,ENST00000546750,;PPHLN1,intron_variant,,ENST00000547847,;PPHLN1,downstream_gene_variant,,ENST00000551658,;PPHLN1,intron_variant,,ENST00000550535,;PPHLN1,intron_variant,,ENST00000552794,;PPHLN1,non_coding_transcript_exon_variant,,ENST00000549774,;PPHLN1,intron_variant,,ENST00000552202,;PPHLN1,intron_variant,,ENST00000551406,;PPHLN1,intron_variant,,ENST00000552429,;PPHLN1,intron_variant,,ENST00000551723,;"	"A"	"ENSG00000134283"	"ENST00000395568"	"Transcript"	"intron_variant"	"-/2170"	"-/1377"	"-/458"	""	""	"rs71434401"	"1"	NA	1	"PPHLN1"	"HGNC"	19369	"protein_coding"	"YES"	"CCDS31777.1"	"ENSP00000378935"	"Q8NEY8"	"F8VWU8"	"UPI0000351A1E"	"NM_016488.6"	NA	NA	""	"4/12"	""	"A:0.2085"	"A:0.0325"	"A:0.3473"	NA	"A:0.1756"	"A:0.3618"	"A:0.2239"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"5d70ddcc-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"654"	"ANO6"	196527	"mskcc.org"	"GRCh37"	"12"	45771918	45771918	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1228+22delC"	""	""	"ENST00000423947"	""	249	"."	3	125	"."	0	"ANO6,intron_variant,,ENST00000320560,NM_001025356.2;ANO6,intron_variant,,ENST00000441606,NM_001142678.1;ANO6,intron_variant,,ENST00000423947,NM_001204803.1;ANO6,intron_variant,,ENST00000425752,NM_001142679.1;ANO6,intron_variant,,ENST00000435642,;ANO6,intron_variant,,ENST00000426898,;"	"-"	"ENSG00000177119"	"ENST00000423947"	"Transcript"	"intron_variant"	"-/5504"	"-/2796"	"-/931"	""	""	""	"1"	NA	1	"ANO6"	"HGNC"	25240	"protein_coding"	"YES"	"CCDS55819.1"	"ENSP00000409126"	"Q4KMQ2"	""	"UPI000022935A"	"NM_001204803.1"	NA	NA	""	"11/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTCA"	"3a025366-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.0120481927710843	"WXS"	FALSE
"655"	"COL2A1"	1280	"mskcc.org"	"GRCh37"	"12"	48395043	48395044	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs41272791"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.86-1136dupC"	""	""	"ENST00000380518"	""	7	"."	6	1	"."	0	"COL2A1,intron_variant,,ENST00000380518,NM_033150.2,NM_001844.4;COL2A1,intron_variant,,ENST00000337299,;RP1-228P16.3,downstream_gene_variant,,ENST00000552958,;COL2A1,intron_variant,,ENST00000474996,;COL2A1,downstream_gene_variant,,ENST00000465743,;COL2A1,upstream_gene_variant,,ENST00000466884,;COL2A1,intron_variant,,ENST00000490609,;"	"G"	"ENSG00000139219"	"ENST00000380518"	"Transcript"	"intron_variant"	"-/5071"	"-/4464"	"-/1487"	""	""	"rs41272791"	"1"	NA	-1	"COL2A1"	"HGNC"	2200	"protein_coding"	"YES"	"CCDS41778.1"	"ENSP00000369889"	"P02458"	""	"UPI0000D79713"	"NM_033150.2,NM_001844.4"	NA	NA	""	"1/53"	""	"-:0.2953"	"G:0.7088"	"G:0.6311"	NA	"G:0.5724"	"G:0.8459"	"G:0.7423"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"5e039644-2764-11e6-a5eb-9377424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	TRUE
"656"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	48605925	48605928	"+"	"IGR"	"DEL"	"TGTC"	"-"	"-"	"rs150711487"	NA	"JHCCPT1"	"JHCCPN1"	"TGTC"	"TGTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150711487"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2015"	"-:0.1286"	"-:0.2032"	NA	"-:0.0159"	"-:0.335"	"-:0.3528"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGTCT"	"3ac240f4-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"657"	"CCDC65"	85478	"mskcc.org"	"GRCh37"	"12"	49311058	49311059	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs4018515"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.609+174dupC"	""	""	"ENST00000320516"	""	12	"."	7	3	"."	0	"CCDC65,intron_variant,,ENST00000266984,;CCDC65,intron_variant,,ENST00000320516,NM_033124.4;CCDC65,intron_variant,,ENST00000552942,;RP11-302B13.5,intron_variant,,ENST00000398092,;FKBP11,downstream_gene_variant,,ENST00000550765,NM_016594.2;FKBP11,downstream_gene_variant,,ENST00000444214,NM_001143781.1;AC073610.5,downstream_gene_variant,,ENST00000537495,;CCDC65,intron_variant,,ENST00000547861,NM_001286957.1;FKBP11,downstream_gene_variant,,ENST00000553027,;FKBP11,downstream_gene_variant,,ENST00000551694,;FKBP11,downstream_gene_variant,,ENST00000256680,;CCDC65,upstream_gene_variant,,ENST00000552188,;FKBP11,downstream_gene_variant,,ENST00000546847,;FKBP11,downstream_gene_variant,,ENST00000551094,;"	"C"	"ENSG00000139537"	"ENST00000320516"	"Transcript"	"intron_variant"	"-/1775"	"-/1455"	"-/484"	""	""	"rs4018515"	"1"	NA	1	"CCDC65"	"HGNC"	29937	"protein_coding"	"YES"	"CCDS8772.1"	"ENSP00000312706"	"Q8IXS2"	"B4DXQ7"	"UPI00001408DA"	"NM_033124.4"	NA	NA	""	"4/7"	""	"-:0.0040"	"C:0.9879"	"C:0.9971"	NA	"C:1"	"C:1"	"C:0.998"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTC"	"5e2f1968-2764-11e6-a5eb-9377424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"658"	"DHH"	50846	"mskcc.org"	"GRCh37"	"12"	49484494	49484495	"+"	"Intron"	"INS"	"-"	"-"	"TATT"	"rs368791583"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.566-231_566-228dupAATA"	""	""	"ENST00000266991"	""	27	"."	7	16	"."	0	"DHH,intron_variant,,ENST00000266991,NM_021044.2;RP11-386G11.8,intron_variant,,ENST00000553174,;RP11-386G11.8,upstream_gene_variant,,ENST00000548030,;"	"TATT"	"ENSG00000139549"	"ENST00000266991"	"Transcript"	"intron_variant"	"-/1936"	"-/1191"	"-/396"	""	""	"rs368791583"	"1"	NA	-1	"DHH"	"HGNC"	2865	"protein_coding"	"YES"	"CCDS8779.1"	"ENSP00000266991"	"O43323"	"F6KSZ4"	"UPI0000035884"	"NM_021044.2"	NA	NA	""	"2/2"	""	"TATT:0.1322"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"5e516bda-2764-11e6-a5eb-9377424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259259259259259	"WXS"	FALSE
"659"	"FAIM2"	23017	"mskcc.org"	"GRCh37"	"12"	50273010	50273013	"+"	"Intron"	"DEL"	"TGTA"	"TGTA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TGTA"	"TGTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.801+8156_801+8159delTACA"	""	""	"ENST00000320634"	""	18	"."	4	3	"."	0	"FAIM2,intron_variant,,ENST00000320634,NM_012306.3;FAIM2,intron_variant,,ENST00000550890,;FAIM2,intron_variant,,ENST00000552669,;FAIM2,intron_variant,,ENST00000552863,;FAIM2,intron_variant,,ENST00000550195,;"	"-"	"ENSG00000135472"	"ENST00000320634"	"Transcript"	"intron_variant"	"-/4654"	"-/951"	"-/316"	""	""	""	"1"	NA	-1	"FAIM2"	"HGNC"	17067	"protein_coding"	"YES"	"CCDS8791.1"	"ENSP00000321951"	"Q9BWQ8"	"F8VV65,B3KR08"	"UPI0000072B0C"	"NM_012306.3"	NA	NA	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTGTAT"	"3c43fdd2-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"660"	"FAIM2"	23017	"mskcc.org"	"GRCh37"	"12"	50278018	50278019	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs58004184"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.801+3150_801+3151insG"	""	""	"ENST00000320634"	""	11	"."	4	3	"."	0	"FAIM2,intron_variant,,ENST00000320634,NM_012306.3;FAIM2,intron_variant,,ENST00000550890,;FAIM2,intron_variant,,ENST00000552669,;FAIM2,intron_variant,,ENST00000552863,;FAIM2,downstream_gene_variant,,ENST00000550635,;FAIM2,intron_variant,,ENST00000550195,;"	"C"	"ENSG00000135472"	"ENST00000320634"	"Transcript"	"intron_variant"	"-/4654"	"-/951"	"-/316"	""	""	"rs58004184"	"1"	NA	-1	"FAIM2"	"HGNC"	17067	"protein_coding"	"YES"	"CCDS8791.1"	"ENSP00000321951"	"Q9BWQ8"	"F8VV65,B3KR08"	"UPI0000072B0C"	"NM_012306.3"	NA	NA	""	"11/11"	""	"-:0.2043"	"C:0.9077"	"C:0.8069"	NA	"C:0.7877"	"C:0.6759"	"C:0.7679"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"5eaf4eee-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"661"	"TFCP2"	7024	"mskcc.org"	"GRCh37"	"12"	51504894	51504894	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.458-128delC"	""	""	"ENST00000257915"	""	59	"."	3	24	"."	0	"TFCP2,intron_variant,,ENST00000307660,NM_001173453.1;TFCP2,intron_variant,,ENST00000257915,NM_005653.4,NM_001173452.1;TFCP2,intron_variant,,ENST00000548115,;TFCP2,intron_variant,,ENST00000549867,;TFCP2,intron_variant,,ENST00000548108,;RP11-416A17.1,downstream_gene_variant,,ENST00000469738,;"	"-"	"ENSG00000135457"	"ENST00000257915"	"Transcript"	"intron_variant"	"-/3546"	"-/1509"	"-/502"	""	""	""	"1"	NA	-1	"TFCP2"	"HGNC"	11748	"protein_coding"	"YES"	"CCDS8808.1"	"ENSP00000257915"	"Q12800"	"F8VWL0"	"UPI0000071CCA"	"NM_005653.4,NM_001173452.1"	NA	NA	""	"4/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"3cdae030-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0508474576271186	"WXS"	FALSE
"662"	"POU6F1"	5463	"mskcc.org"	"GRCh37"	"12"	51612060	51612061	"+"	"5'Flank"	"INS"	"-"	"C"	"C"	"rs11386813"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000389243"	""	7	"."	6	1	"."	0	"POU6F1,upstream_gene_variant,,ENST00000389243,;POU6F1,upstream_gene_variant,,ENST00000549309,;POU6F1,upstream_gene_variant,,ENST00000546685,;"	"C"	"ENSG00000184271"	"ENST00000389243"	"Transcript"	"upstream_gene_variant"	"-/5157"	"-/906"	"-/301"	""	""	"rs11386813"	"1"	"583"	-1	"POU6F1"	"HGNC"	9224	"protein_coding"	"YES"	"CCDS31803.1"	"ENSP00000373895"	"Q14863"	"F8VSI9"	"UPI0000131D97"	""	NA	NA	""	""	""	"C:0.4930"	"C:0.3616"	"C:0.5634"	NA	"C:0.3482"	"C:0.6461"	"C:0.6125"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"5eefd766-2764-11e6-a5eb-9377424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"663"	"SLC4A8"	9498	"mskcc.org"	"GRCh37"	"12"	51867811	51867812	"+"	"Intron"	"INS"	"-"	"-"	"AAAC"	"rs10635704"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1905-312_1905-311insCAAA"	""	""	"ENST00000453097"	""	18	"."	3	8	"."	0	"SLC4A8,intron_variant,,ENST00000453097,NM_001039960.2,NM_001258401.2;SLC4A8,intron_variant,,ENST00000358657,;SLC4A8,intron_variant,,ENST00000514353,NM_001258403.1;SLC4A8,intron_variant,,ENST00000394856,;SLC4A8,intron_variant,,ENST00000535225,NM_001258402.1,NM_001267615.1;SLC4A8,downstream_gene_variant,,ENST00000546663,;SLC4A8,downstream_gene_variant,,ENST00000550211,;SLC4A8,intron_variant,,ENST00000604314,;SLC4A8,intron_variant,,ENST00000551071,;SLC4A8,intron_variant,,ENST00000319957,;"	"AAAC"	"ENSG00000050438"	"ENST00000453097"	"Transcript"	"intron_variant"	"-/4395"	"-/3282"	"-/1093"	""	""	"rs10635704"	"1"	NA	1	"SLC4A8"	"HGNC"	11034	"protein_coding"	"YES"	"CCDS44890.1"	"ENSP00000405812"	"Q2Y0W8"	""	"UPI00005E6FB4"	"NM_001039960.2,NM_001258401.2"	NA	NA	""	"14/24"	""	"-:0.0986"	"AAAC:0.8729"	"AAAC:0.8804"	NA	"AAAC:0.9067"	"AAAC:0.9394"	"AAAC:0.91"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"5efe980a-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"664"	"NR4A1"	3164	"mskcc.org"	"GRCh37"	"12"	52423472	52423473	"+"	"Intron"	"INS"	"-"	"-"	"AAAAACAAAAAC"	"rs71092743"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-84+6750_-84+6761dupAAAAACAAAAAC"	""	""	"ENST00000360284"	""	7	"."	4	1	"."	0	"NR4A1,intron_variant,,ENST00000360284,NM_001202233.1;NR4A1,intron_variant,,ENST00000548977,;"	"AAAAACAAAAAC"	"ENSG00000123358"	"ENST00000360284"	"Transcript"	"intron_variant"	"-/2132"	"-/1836"	"-/611"	""	""	"rs71092743"	"1"	NA	1	"NR4A1"	"HGNC"	7980	"protein_coding"	"YES"	"CCDS55828.1"	"ENSP00000353427"	"P22736"	"H3BT85,H3BSB9,H3BPN8"	"UPI00001FC28B"	"NM_001202233.1"	NA	NA	""	"1/7"	""	"-:0.2035"	"AAAAACAAAAAC:0.9425"	"AAAAACAAAAAC:0.5519"	NA	"AAAAACAAAAAC:0.7312"	"AAAAACAAAAAC:0.8419"	"AAAAACAAAAAC:0.7935"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"12"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"5f17780c-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"665"	"KRT6B"	3854	"mskcc.org"	"GRCh37"	"12"	52844477	52844478	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs5798212"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.541-74_541-73insG"	""	""	"ENST00000252252"	""	10	"."	3	4	"."	0	"KRT6B,intron_variant,,ENST00000252252,NM_005555.3;"	"C"	"ENSG00000185479"	"ENST00000252252"	"Transcript"	"intron_variant"	"-/2282"	"-/1695"	"-/564"	""	""	"rs5798212"	"1"	NA	-1	"KRT6B"	"HGNC"	6444	"protein_coding"	"YES"	"CCDS8828.1"	"ENSP00000252252"	"P04259"	""	"UPI000013CD50"	"NM_005555.3"	NA	NA	""	"1/8"	""	"C:0.2023"	"C:0.0242"	"C:0.2248"	NA	"C:0.3532"	"C:0.3002"	"C:0.1708"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"5f34e1e4-2764-11e6-a5eb-9377424a729f"	"120"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"666"	"KRT71"	112802	"mskcc.org"	"GRCh37"	"12"	52935037	52935037	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"rs66674730"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000267119"	""	9	"."	4	1	"."	0	"KRT71,downstream_gene_variant,,ENST00000267119,NM_033448.2;"	"-"	"ENSG00000139648"	"ENST00000267119"	"Transcript"	"downstream_gene_variant"	"-/2265"	"-/1572"	"-/523"	""	""	"rs66674730"	"1"	"2656"	-1	"KRT71"	"HGNC"	28927	"protein_coding"	"YES"	"CCDS8831.1"	"ENSP00000267119"	"Q3SY84"	""	"UPI0000052B57"	"NM_033448.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CACC"	"3d77d1c4-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"667"	"RP11-641A6.8"	0	"mskcc.org"	"GRCh37"	"12"	53137555	53137556	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"rs35637909"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000550077"	""	6	"."	3	1	"."	0	"RP11-641A6.8,downstream_gene_variant,,ENST00000550077,;"	"A"	"ENSG00000257343"	"ENST00000550077"	"Transcript"	"downstream_gene_variant"	"-/495"	""	""	""	""	"rs35637909"	"1"	"2824"	-1	"RP11-641A6.8"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"5f472976-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"668"	"ENSR00000244181"	0	"mskcc.org"	"GRCh37"	"12"	53371411	53371412	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs77151184"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000244181"	""	13	"."	4	3	"."	0	""	"C"	""	"ENSR00000244181"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs77151184"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"CCCCCCC:0.0182"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"5f63ac5e-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"669"	"RP11-686F15.2"	0	"mskcc.org"	"GRCh37"	"12"	54150818	54150819	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs76246638"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.152+2529dupG"	""	""	"ENST00000566418"	""	7	"."	4	2	"."	0	"RP11-686F15.2,intron_variant,,ENST00000566418,;"	"G"	"ENSG00000260030"	"ENST00000566418"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/429"	""	""	""	""	"rs76246638"	"1"	NA	1	"RP11-686F15.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.4165"	"G:0.8343"	"G:0.4885"	NA	"G:0.6359"	"G:0.4225"	"G:0.4233"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"5fa5170c-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"670"	"ARHGAP9"	64333	"mskcc.org"	"GRCh37"	"12"	57869526	57869526	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1311+90delG"	""	""	"ENST00000393791"	""	422	"."	4	282	"."	0	"ARHGAP9,intron_variant,,ENST00000393797,;ARHGAP9,intron_variant,,ENST00000550288,;ARHGAP9,intron_variant,,ENST00000356411,;ARHGAP9,intron_variant,,ENST00000393791,NM_032496.2;ARHGAP9,intron_variant,,ENST00000424809,NM_001080157.1;ARHGAP9,intron_variant,,ENST00000430041,NM_001080156.1;ARHGAP9,intron_variant,,ENST00000548139,;GLI1,downstream_gene_variant,,ENST00000228682,NM_005269.2;GLI1,downstream_gene_variant,,ENST00000546141,NM_001167609.1;GLI1,downstream_gene_variant,,ENST00000543426,NM_001160045.1;GLI1,downstream_gene_variant,,ENST00000528467,;ARHGAP9,upstream_gene_variant,,ENST00000550399,;ARHGAP9,downstream_gene_variant,,ENST00000552066,;ARHGAP9,downstream_gene_variant,,ENST00000552249,;ARHGAP9,downstream_gene_variant,,ENST00000552604,;ARHGAP9,downstream_gene_variant,,ENST00000549602,;ARHGAP9,downstream_gene_variant,,ENST00000551452,;ARHGAP9,upstream_gene_variant,,ENST00000550130,;MARS,intron_variant,,ENST00000549133,;ARHGAP9,downstream_gene_variant,,ENST00000550454,;ARHGAP9,downstream_gene_variant,,ENST00000547200,;ARHGAP9,intron_variant,,ENST00000546200,;ARHGAP9,intron_variant,,ENST00000552953,;ARHGAP9,downstream_gene_variant,,ENST00000552420,;ARHGAP9,downstream_gene_variant,,ENST00000548148,;ARHGAP9,upstream_gene_variant,,ENST00000550440,;ARHGAP9,downstream_gene_variant,,ENST00000547216,;ARHGAP9,upstream_gene_variant,,ENST00000546704,;ARHGAP9,downstream_gene_variant,,ENST00000551000,;ARHGAP9,downstream_gene_variant,,ENST00000551574,;"	"-"	"ENSG00000123329"	"ENST00000393791"	"Transcript"	"intron_variant"	"-/2597"	"-/2196"	"-/731"	""	""	""	"1"	NA	-1	"ARHGAP9"	"HGNC"	14130	"protein_coding"	"YES"	"CCDS8941.2"	"ENSP00000377380"	"Q9BRR9"	"F8VW89,F8VSD0,F8VR90,F8VQY5"	"UPI000007131B"	"NM_032496.2"	NA	NA	""	"10/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"425c8ba8-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.00947867298578199	"WXS"	FALSE
"671"	"AVIL"	10677	"mskcc.org"	"GRCh37"	"12"	58206499	58206502	"+"	"Intron"	"DEL"	"CTTA"	"CTTA"	"-"	"rs67840872"	NA	"JHCCPT1"	"JHCCPN1"	"CTTA"	"CTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.338+508_338+511delTAAG"	""	""	"ENST00000257861"	""	14	"."	3	2	"."	0	"AVIL,intron_variant,,ENST00000537081,;AVIL,intron_variant,,ENST00000257861,NM_006576.3;AVIL,intron_variant,,ENST00000549994,;TSFM,downstream_gene_variant,,ENST00000548851,;RP11-571M6.18,upstream_gene_variant,,ENST00000602327,;AVIL,intron_variant,,ENST00000549851,;AVIL,intron_variant,,ENST00000548843,;AVIL,upstream_gene_variant,,ENST00000549548,;AVIL,upstream_gene_variant,,ENST00000550537,;"	"-"	"ENSG00000135407"	"ENST00000257861"	"Transcript"	"intron_variant"	"-/2891"	"-/2460"	"-/819"	""	""	"rs67840872"	"1"	NA	-1	"AVIL"	"HGNC"	14188	"protein_coding"	"YES"	"CCDS8959.1"	"ENSP00000257861"	"O75366"	"F8VVU1"	"UPI000013CF93"	"NM_006576.3"	NA	NA	""	"3/18"	""	"-:0.3117"	"-:0.0439"	"-:0.2421"	NA	"-:0.6339"	"-:0.2793"	"-:0.4243"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTTAC"	"42ea47ea-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"672"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	58543124	58543125	"+"	"IGR"	"DEL"	"TC"	"TC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCT"	"42f84f84-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"673"	"RASSF3"	283349	"mskcc.org"	"GRCh37"	"12"	65077782	65077801	"+"	"Intron"	"DEL"	"GAGAGAGAGTGAGTGTGTGT"	"GAGAGAGAGTGAGTGTGTGT"	"-"	"rs140980213"	NA	"JHCCPT1"	"JHCCPN1"	"GAGAGAGAGTGAGTGTGTGT"	"GAGAGAGAGTGAGTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.112-784_112-765delAGAGAGAGTGAGTGTGTGTG"	""	""	"ENST00000542104"	""	8	"."	4	1	"."	0	"RASSF3,intron_variant,,ENST00000542104,NM_178169.3;RASSF3,intron_variant,,ENST00000336061,;RASSF3,intron_variant,,ENST00000283172,;"	"-"	"ENSG00000153179"	"ENST00000542104"	"Transcript"	"intron_variant"	"-/3492"	"-/717"	"-/238"	""	""	"rs140980213"	"1"	NA	1	"RASSF3"	"HGNC"	14271	"protein_coding"	"YES"	"CCDS8969.1"	"ENSP00000443021"	"Q86WH2"	"Q496A9"	"UPI00000622AE"	"NM_178169.3"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGAGAGAGAGTGAGTGTGTGTG"	"44068e7c-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"674"	"RP11-637A17.2"	100507250	"mskcc.org"	"GRCh37"	"12"	69071033	69071034	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11376085"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.283-1433dupT"	""	""	"ENST00000500695"	""	10	"."	4	2	"."	0	"RP11-637A17.2,intron_variant,,ENST00000500695,;RP11-637A17.2,intron_variant,,ENST00000502102,;"	"A"	"ENSG00000247363"	"ENST00000500695"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1733"	""	""	""	""	"rs11376085"	"1"	NA	-1	"RP11-637A17.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"60dfe64c-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"675"	"CPM"	1368	"mskcc.org"	"GRCh37"	"12"	69263671	69263672	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs34215977"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.616+323dupA"	""	""	"ENST00000551568"	""	13	"."	4	6	"."	0	"CPM,intron_variant,,ENST00000551568,NM_001005502.2,NM_198320.3;CPM,intron_variant,,ENST00000338356,;CPM,intron_variant,,ENST00000546373,NM_001874.4;CPM,intron_variant,,ENST00000548954,;CPM,intron_variant,,ENST00000551897,;CPM,downstream_gene_variant,,ENST00000548262,;CPM,intron_variant,,ENST00000551728,;CPM,intron_variant,,ENST00000546912,;CPM,downstream_gene_variant,,ENST00000547924,;CPM,downstream_gene_variant,,ENST00000547134,;"	"T"	"ENSG00000135678"	"ENST00000551568"	"Transcript"	"intron_variant"	"-/6655"	"-/1332"	"-/443"	""	""	"rs34215977"	"1"	NA	-1	"CPM"	"HGNC"	2311	"protein_coding"	"YES"	"CCDS8987.1"	"ENSP00000448517"	"P14384"	"H0YHG6,F8W111,F8VVI6"	"UPI00001271D4"	"NM_001005502.2,NM_198320.3"	NA	NA	""	"5/8"	""	"-:0.4111"	"T:0.5045"	"T:0.6628"	NA	"T:0.6359"	"T:0.5944"	"T:0.5961"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"60e40b5a-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"676"	"BEST3"	144453	"mskcc.org"	"GRCh37"	"12"	70065140	70065140	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1100+68delT"	""	""	"ENST00000330891"	""	39	"."	3	18	"."	0	"BEST3,intron_variant,,ENST00000330891,NM_032735.2;BEST3,intron_variant,,ENST00000553096,NM_001282613.1;BEST3,intron_variant,,ENST00000488961,NM_152439.2;BEST3,intron_variant,,ENST00000476098,;BEST3,intron_variant,,ENST00000331471,NM_001282614.1;BEST3,downstream_gene_variant,,ENST00000552295,;BEST3,intron_variant,,ENST00000547208,;"	"-"	"ENSG00000127325"	"ENST00000330891"	"Transcript"	"intron_variant"	"-/3532"	"-/2007"	"-/668"	""	""	""	"1"	NA	-1	"BEST3"	"HGNC"	17105	"protein_coding"	"YES"	"CCDS8992.2"	"ENSP00000332413"	"Q8N1M1"	"F8VVZ2"	"UPI000006E397"	"NM_032735.2"	NA	NA	""	"9/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAT"	"456f970e-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WXS"	FALSE
"677"	"MYRFL"	0	"mskcc.org"	"GRCh37"	"12"	70326642	70326643	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGT"	"rs3970822"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.11+279_11+284dupGTGTGT"	""	""	"ENST00000535034"	""	44	"."	5	17	"."	0	"MYRFL,intron_variant,,ENST00000547771,;MYRFL,intron_variant,,ENST00000552032,;MYRFL,intron_variant,,ENST00000548892,;MYRFL,intron_variant,,ENST00000299350,;MYRFL,intron_variant,,ENST00000535034,;RP11-611E13.2,intron_variant,,ENST00000549419,;"	"GTGTGT"	"ENSG00000166268"	"ENST00000535034"	"Transcript"	"intron_variant"	"-/881"	"-/753"	"-/250"	""	""	"rs3970822"	"1"	NA	1	"MYRFL"	"HGNC"	26316	"protein_coding"	"YES"	""	"ENSP00000440626"	""	"F5GYH9"	"UPI00020654F3"	""	NA	NA	""	"1/8"	""	"GTGTGT:0.2694"	"GTGTGT:0.0976"	"GTGTGT:0.2896"	NA	"GTGTGT:0.5437"	"GTGTGT:0.2008"	"GTGTGT:0.2751"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"610524ac-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WXS"	FALSE
"678"	"CNOT2"	4848	"mskcc.org"	"GRCh37"	"12"	70720992	70720996	"+"	"Intron"	"DEL"	"AAAGT"	"AAAGT"	"-"	"rs147358981"	NA	"JHCCPT1"	"JHCCPN1"	"AAAGT"	"AAAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.239-2207_239-2203delTAAAG"	""	""	"ENST00000229195"	""	8	"."	5	1	"."	0	"CNOT2,intron_variant,,ENST00000229195,NM_014515.5;CNOT2,intron_variant,,ENST00000418359,NM_001199302.1;CNOT2,intron_variant,,ENST00000548159,;CNOT2,intron_variant,,ENST00000551043,NM_001199303.1;CNOT2,intron_variant,,ENST00000552231,;CNOT2,intron_variant,,ENST00000549750,;CNOT2,intron_variant,,ENST00000552915,;CNOT2,intron_variant,,ENST00000550160,;CNOT2,intron_variant,,ENST00000550641,;CNOT2,intron_variant,,ENST00000552483,;CNOT2,intron_variant,,ENST00000550194,;CNOT2,intron_variant,,ENST00000551873,;CNOT2,intron_variant,,ENST00000551132,;CNOT2,intron_variant,,ENST00000549443,;CNOT2,upstream_gene_variant,,ENST00000548230,;CNOT2,upstream_gene_variant,,ENST00000547149,;CNOT2,intron_variant,,ENST00000552151,;CNOT2,intron_variant,,ENST00000552319,;CNOT2,intron_variant,,ENST00000548863,;CNOT2,intron_variant,,ENST00000548021,;CNOT2,intron_variant,,ENST00000548599,;CNOT2,intron_variant,,ENST00000547321,;"	"-"	"ENSG00000111596"	"ENST00000229195"	"Transcript"	"intron_variant"	"-/3280"	"-/1623"	"-/540"	""	""	"rs147358981"	"1"	NA	1	"CNOT2"	"HGNC"	7878	"protein_coding"	"YES"	"CCDS31857.1"	"ENSP00000229195"	"Q9NZN8"	"F8VWH8,F8VVY1,F8VUB4,F8VRS2,F8VQD8,F8VPX5,F8VP97"	"UPI0000052E12"	"NM_014515.5"	NA	NA	""	"4/15"	""	"-:0.0929"	"-:0.0098"	"-:0.1297"	NA	"-:0.1528"	"-:0.0596"	"-:0.1513"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAAGTA"	"45a7ed7a-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"679"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	73854724	73854729	"+"	"IGR"	"DEL"	"TGTGTG"	"TGTGTG"	"-"	"rs71661290"	NA	"JHCCPT1"	"JHCCPN1"	"TGTGTG"	"TGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71661290"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATGTGTGT"	"46414c18-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"680"	"ZDHHC17"	23390	"mskcc.org"	"GRCh37"	"12"	77216509	77216510	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11386189"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.897+207dupT"	""	""	"ENST00000426126"	""	22	"."	7	6	"."	0	"ZDHHC17,intron_variant,,ENST00000426126,NM_015336.2;ZDHHC17,intron_variant,,ENST00000334822,;ZDHHC17,intron_variant,,ENST00000550876,;ZDHHC17,downstream_gene_variant,,ENST00000359019,;ZDHHC17,intron_variant,,ENST00000546778,;ZDHHC17,intron_variant,,ENST00000552453,;ZDHHC17,downstream_gene_variant,,ENST00000549944,;ZDHHC17,downstream_gene_variant,,ENST00000550163,;"	"T"	"ENSG00000186908"	"ENST00000426126"	"Transcript"	"intron_variant"	"-/5259"	"-/1899"	"-/632"	""	""	"rs11386189"	"1"	NA	1	"ZDHHC17"	"HGNC"	18412	"protein_coding"	"YES"	"CCDS44946.1"	"ENSP00000403397"	"Q8IUH5"	"A8KA01"	"UPI0000051F55"	"NM_015336.2"	NA	NA	""	"8/16"	""	"T:0.4651"	"T:0.4236"	"T:0.5447"	NA	"T:0.6488"	"T:0.3688"	"T:0.3742"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"61913e10-2764-11e6-a5eb-9377424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318181818181818	"WXS"	FALSE
"681"	"PTPRQ"	0	"mskcc.org"	"GRCh37"	"12"	81009859	81009860	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs3994957"	NA	"JHCCPT1"	"JHCCPN1"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5152-106_5152-105delTA"	""	""	"ENST00000266688"	""	20	"."	5	5	"."	0	"PTPRQ,intron_variant,,ENST00000266688,;"	"-"	"ENSG00000139304"	"ENST00000266688"	"Transcript"	"intron_variant"	"-/6888"	"-/6888"	"-/2295"	""	""	"rs3994957"	"1"	NA	1	"PTPRQ"	"HGNC"	9679	"protein_coding"	"YES"	""	"ENSP00000266688"	"Q9UMZ3"	""	"UPI00020655BB"	""	NA	NA	""	"34/49"	""	"-:0.2290"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"14"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTTAT"	"4781b4b4-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"682"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	85242253	85242254	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs11397282"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"."	7	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11397282"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0000"	"A:1"	"A:1"	NA	"A:1"	"A:1"	"A:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"623924b8-2764-11e6-a5eb-9377424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WXS"	FALSE
"683"	"C12orf50"	160419	"mskcc.org"	"GRCh37"	"12"	88388138	88388139	"+"	"Intron"	"INS"	"-"	"-"	"AC"	"rs541219981"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.592+270_592+271dupGT"	""	""	"ENST00000298699"	""	23	"."	4	9	"."	0	"C12orf50,intron_variant,,ENST00000298699,NM_152589.1;C12orf50,intron_variant,,ENST00000550553,;C12orf50,downstream_gene_variant,,ENST00000551163,;C12orf50,intron_variant,,ENST00000551944,;"	"AC"	"ENSG00000165805"	"ENST00000298699"	"Transcript"	"intron_variant"	"-/1718"	"-/1245"	"-/414"	""	""	"rs541219981"	"1"	NA	-1	"C12orf50"	"HGNC"	26665	"protein_coding"	"YES"	"CCDS9031.1"	"ENSP00000298699"	"Q8NA57"	"F8VXH4"	"UPI0000071382"	"NM_152589.1"	NA	NA	""	"7/12"	""	"AC:0.0180"	"AC:0.0015"	"AC:0.0403"	NA	"AC:0"	"AC:0.0348"	"AC:0.0256"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"625a1ee8-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"684"	"CEP290"	80184	"mskcc.org"	"GRCh37"	"12"	88466066	88466076	"+"	"Intron"	"DEL"	"GTTTTGACTGT"	"GTTTTGACTGT"	"-"	"rs66473631"	NA	"JHCCPT1"	"JHCCPN1"	"GTTTTGACTGT"	"GTTTTGACTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5710-373_5710-363delACAGTCAAAAC"	""	""	"ENST00000552810"	""	9	"."	5	2	"."	0	"CEP290,intron_variant,,ENST00000552810,NM_025114.3;CEP290,intron_variant,,ENST00000309041,;CEP290,intron_variant,,ENST00000397838,;CEP290,intron_variant,,ENST00000547691,;"	"-"	"ENSG00000198707"	"ENST00000552810"	"Transcript"	"intron_variant"	"-/7948"	"-/7440"	"-/2479"	""	""	"rs66473631"	"1"	NA	-1	"CEP290"	"HGNC"	29021	"protein_coding"	"YES"	"CCDS55858.1"	"ENSP00000448012"	"O15078"	""	"UPI0000D60D15"	"NM_025114.3"	NA	NA	""	"41/53"	""	"GTTTTGACTGT:0.2356"	"-:0.3245"	"-:0.8804"	NA	"-:0.9673"	"-:0.9225"	"-:0.9049"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAGTTTTGACTGTG"	"4829a8b8-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"685"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	88637182	88637197	"+"	"IGR"	"DEL"	"TCTCTCTCTGTCTCTC"	"TCTCTCTCTGTCTCTC"	"GTCTCTCCCTTT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TCTCTCTCTGTCTCTC"	"TCTCTCTCTGTCTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"."	5	14	"."	0	""	"GTCTCTCCCTTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTCTCTCTGTCTCTCC"	"55e58062-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WXS"	FALSE
"686"	"ENSR00000434158"	0	"mskcc.org"	"GRCh37"	"12"	88701275	88701276	"+"	"IGR"	"INS"	"-"	"-"	"AGAGAG"	"rs143626164"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000434158"	""	15	"."	3	5	"."	0	""	"AGAGAG"	""	"ENSR00000434158"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs143626164"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"AGAGAA:0.0086"	"AGAGAG:0.5469"	"AGAGAG:0.134"	NA	"AGAGAG:0.0278"	"AGAGAG:0.1243"	"AGAGAG:0.1697"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"627fbd92-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"687"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	90484259	90484260	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs71088696"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	6	1	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71088696"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"62ab24f0-2764-11e6-a5eb-9377424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"688"	"EPYC"	1833	"mskcc.org"	"GRCh37"	"12"	91401357	91401358	"+"	"5'Flank"	"INS"	"-"	"-"	"AAAC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000261172"	""	8	"."	4	1	"."	0	"EPYC,upstream_gene_variant,,ENST00000261172,NM_004950.4;EPYC,upstream_gene_variant,,ENST00000551767,;"	"AAAC"	"ENSG00000083782"	"ENST00000261172"	"Transcript"	"upstream_gene_variant"	"-/1539"	"-/969"	"-/322"	""	""	""	"1"	"2554"	-1	"EPYC"	"HGNC"	3053	"protein_coding"	"YES"	"CCDS31870.1"	"ENSP00000261172"	"Q99645"	"F8VSI4"	"UPI000013D136"	"NM_004950.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"62b6c080-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"689"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	91470465	91470466	"+"	"IGR"	"INS"	"-"	"-"	"AGGAGAGGAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	4	"."	0	""	"AGGAGAGGAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"62ba462e-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"690"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	92014280	92014317	"+"	"IGR"	"DEL"	"AGGAAGGAAGGGAAAGAGGGAGGGAGGGAGGGAAAGGC"	"AGGAAGGAAGGGAAAGAGGGAGGGAGGGAGGGAAAGGC"	"-"	"rs765190388"	NA	"JHCCPT1"	"JHCCPN1"	"AGGAAGGAAGGGAAAGAGGGAGGGAGGGAGGGAAAGGC"	"AGGAAGGAAGGGAAAGAGGGAGGGAGGGAGGGAAAGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs765190388"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAGGAAGGAAGGGAAAGAGGGAGGGAGGGAGGGAAAGGCA"	"48f3d322-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"691"	"ENSR00001465930"	0	"mskcc.org"	"GRCh37"	"12"	93015583	93015585	"+"	"IGR"	"DEL"	"GAA"	"GAA"	"-"	"rs140751114"	NA	"JHCCPT1"	"JHCCPN1"	"GAA"	"GAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001465930"	""	19	"."	4	3	"."	0	""	"-"	""	"ENSR00001465930"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs140751114"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"GAA:0.2897"	"-:0.6188"	"-:0.7017"	NA	"-:0.8413"	"-:0.6849"	"-:0.7311"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGAAG"	"4905af20-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"692"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	94474881	94474881	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs10710012"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10710012"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.4273"	"-:0.6657"	"-:0.6066"	NA	"-:0.5188"	"-:0.6074"	"-:0.4427"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"49406e8a-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"693"	"PLXNC1"	10154	"mskcc.org"	"GRCh37"	"12"	94613587	94613588	"+"	"Intron"	"INS"	"-"	"-"	"TTTATTTATTTG"	"rs199804478"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1555-194_1555-193insGTTTATTTATTT"	""	""	"ENST00000258526"	""	9	"."	3	2	"."	0	"PLXNC1,intron_variant,,ENST00000258526,NM_005761.2;"	"TTTATTTATTTG"	"ENSG00000136040"	"ENST00000258526"	"Transcript"	"intron_variant"	"-/7346"	"-/4707"	"-/1568"	""	""	"rs199804478"	"1"	NA	1	"PLXNC1"	"HGNC"	9106	"protein_coding"	"YES"	"CCDS9049.1"	"ENSP00000258526"	"O60486"	"F8VUW4,F5H3A2"	"UPI0000038AF4"	"NM_005761.2"	NA	NA	""	"5/30"	""	"-:0.4954"	"TTTATTTATTTG:0.143"	"TTTATTTATTTG:0.4683"	NA	"TTTATTTATTTG:0.8026"	"TTTATTTATTTG:0.5596"	"TTTATTTATTTG:0.6554"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"11"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"62ebe760-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"694"	"RN7SL483P"	0	"mskcc.org"	"GRCh37"	"12"	94907793	94907793	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000478417"	""	6	"."	4	1	"."	0	"RN7SL483P,upstream_gene_variant,,ENST00000478417,;"	"-"	"ENSG00000244091"	"ENST00000478417"	"Transcript"	"upstream_gene_variant"	"-/285"	""	""	""	""	""	"1"	"1459"	1	"RN7SL483P"	"HGNC"	46499	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAA"	"496b4844-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"695"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	95749359	95749360	"+"	"IGR"	"INS"	"-"	"-"	"AAGGAAAGAAAGAAGAAAGAGAGAAAGAAAGAAAAGAGAGAAAGAAAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	3	7	"."	0	""	"AAGGAAAGAAAGAAGAAAGAGAGAAAGAAAGAAAAGAGAGAAAGAAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"6311c85e-2764-11e6-a5eb-9377424a729f"	"150"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"696"	"NTN4"	59277	"mskcc.org"	"GRCh37"	"12"	96184706	96184707	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs369924618"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000343702"	""	21	"."	4	2	"."	0	"NTN4,intron_variant,,ENST00000538383,;NTN4,upstream_gene_variant,,ENST00000343702,NM_021229.3;NTN4,upstream_gene_variant,,ENST00000344911,;NTN4,upstream_gene_variant,,ENST00000553059,;NTN4,upstream_gene_variant,,ENST00000547980,;RNU6-247P,downstream_gene_variant,,ENST00000362636,;RP11-536G4.2,downstream_gene_variant,,ENST00000553194,;"	"G"	"ENSG00000074527"	"ENST00000343702"	"Transcript"	"upstream_gene_variant"	"-/3615"	"-/1887"	"-/628"	""	""	"rs369924618"	"1"	"170"	-1	"NTN4"	"HGNC"	13658	"protein_coding"	"YES"	"CCDS9054.1"	"ENSP00000340998"	"Q9HB63"	"F8W0I7"	"UPI0000049824"	"NM_021229.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"631a9498-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"697"	"CCDC38"	120935	"mskcc.org"	"GRCh37"	"12"	96287106	96287110	"+"	"Intron"	"DEL"	"CCCTT"	"CCCTT"	"-"	"rs141665822"	NA	"JHCCPT1"	"JHCCPN1"	"CCCTT"	"CCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.772+1657_772+1661delAAGGG"	""	""	"ENST00000344280"	""	8	"."	4	2	"."	0	"CCDC38,intron_variant,,ENST00000344280,NM_182496.2;SNRPF,intron_variant,,ENST00000552085,;CCDC38,downstream_gene_variant,,ENST00000548771,;"	"-"	"ENSG00000165972"	"ENST00000344280"	"Transcript"	"intron_variant"	"-/2277"	"-/1692"	"-/563"	""	""	"rs141665822"	"1"	NA	-1	"CCDC38"	"HGNC"	26843	"protein_coding"	"YES"	"CCDS9056.1"	"ENSP00000345470"	"Q502W7"	"F8VY05"	"UPI00001AEC9B"	"NM_182496.2"	NA	NA	""	"8/15"	""	"-:0.0160"	"-:0.003"	"-:0.0389"	NA	"-:0.001"	"-:0.0408"	"-:0.0072"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCCCTTC"	"49ab858a-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"698"	"CCDC38"	120935	"mskcc.org"	"GRCh37"	"12"	96289187	96289188	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs67934581"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.615-264dupA"	""	""	"ENST00000344280"	""	19	"."	6	6	"."	0	"CCDC38,intron_variant,,ENST00000344280,NM_182496.2;SNRPF,intron_variant,,ENST00000552085,;CCDC38,downstream_gene_variant,,ENST00000548771,;"	"T"	"ENSG00000165972"	"ENST00000344280"	"Transcript"	"intron_variant"	"-/2277"	"-/1692"	"-/563"	""	""	"rs67934581"	"1"	NA	-1	"CCDC38"	"HGNC"	26843	"protein_coding"	"YES"	"CCDS9056.1"	"ENSP00000345470"	"Q502W7"	"F8VY05"	"UPI00001AEC9B"	"NM_182496.2"	NA	NA	""	"7/15"	""	"T:0.4409"	"T:0.618"	"T:0.2493"	NA	"T:0.5437"	"T:0.3728"	"T:0.3016"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"631c9ce8-2764-11e6-a5eb-9377424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WXS"	FALSE
"699"	"EEF1A1P33"	0	"mskcc.org"	"GRCh37"	"12"	97291799	97291800	"+"	"3'Flank"	"DEL"	"GC"	"GC"	"-"	"rs146319307"	NA	"JHCCPT1"	"JHCCPN1"	"GC"	"GC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000554413"	""	7	"."	3	1	"."	0	"EEF1A1P33,downstream_gene_variant,,ENST00000554413,;"	"-"	"ENSG00000258846"	"ENST00000554413"	"Transcript"	"downstream_gene_variant"	"-/1362"	""	""	""	""	"rs146319307"	"1"	"2675"	-1	"EEF1A1P33"	"HGNC"	37911	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"GC:0.0671"	"-:0.9607"	"-:0.9121"	NA	"-:0.9583"	"-:0.9264"	"-:0.8906"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGCG"	"4a39cffc-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"700"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	100823767	100823790	"+"	"IGR"	"DEL"	"CTCTCTTCCTCTCTCTCTTCTTAC"	"CTCTCTTCCTCTCTCTCTTCTTAC"	"-"	"rs11271067"	NA	"JHCCPT1"	"JHCCPN1"	"CTCTCTTCCTCTCTCTCTTCTTAC"	"CTCTCTTCCTCTCTCTCTTCTTAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"."	8	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11271067"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCTCTCTTCCTCTCTCTCTTCTTACC"	"4aa301f2-2764-11e6-a5eb-9377424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.421052631578947	"WXS"	FALSE
"701"	"ANO4"	121601	"mskcc.org"	"GRCh37"	"12"	101240724	101240724	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs11363490"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-141+51927delC"	""	""	"ENST00000392979"	""	9	"."	5	1	"."	0	"ANO4,intron_variant,,ENST00000392979,NM_178826.3,NM_001286616.1;ANO4,intron_variant,,ENST00000392977,NM_001286615.1;ANO4,intron_variant,,ENST00000299222,;ANO4,intron_variant,,ENST00000538618,;ANO4,intron_variant,,ENST00000546991,;ANO4,intron_variant,,ENST00000551148,;ANO4,intron_variant,,ENST00000549155,;"	"-"	"ENSG00000151572"	"ENST00000392979"	"Transcript"	"intron_variant"	"-/3909"	"-/2763"	"-/920"	""	""	"rs11363490"	"1"	NA	1	"ANO4"	"HGNC"	23837	"protein_coding"	"YES"	"CCDS31884.1"	"ENSP00000376705"	"Q32M45"	""	"UPI0000198E2E"	"NM_178826.3,NM_001286616.1"	NA	NA	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"4aacc0ca-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"702"	"NT5DC3"	51559	"mskcc.org"	"GRCh37"	"12"	104171941	104171942	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1395-83dupA"	""	""	"ENST00000392876"	""	87	"."	3	52	"."	0	"NT5DC3,intron_variant,,ENST00000392876,NM_001031701.2;NT5DC3,intron_variant,,ENST00000447799,;NT5DC3,intron_variant,,ENST00000415849,;"	"T"	"ENSG00000111696"	"ENST00000392876"	"Transcript"	"intron_variant"	"-/7207"	"-/1647"	"-/548"	""	""	""	"1"	NA	-1	"NT5DC3"	"HGNC"	30826	"protein_coding"	"YES"	"CCDS41824.1"	"ENSP00000376615"	"Q86UY8"	""	"UPI0000192759"	"NM_001031701.2"	NA	NA	""	"13/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"640c6d22-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0344827586206897	"WXS"	FALSE
"703"	"NT5DC3"	51559	"mskcc.org"	"GRCh37"	"12"	104180972	104180973	"+"	"Intron"	"INS"	"-"	"-"	"CTG"	"rs113015092"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1188+246_1188+247insCAG"	""	""	"ENST00000392876"	""	13	"."	3	2	"."	0	"NT5DC3,intron_variant,,ENST00000392876,NM_001031701.2;NT5DC3,downstream_gene_variant,,ENST00000474268,;NT5DC3,intron_variant,,ENST00000415849,;NT5DC3,upstream_gene_variant,,ENST00000447799,;"	"CTG"	"ENSG00000111696"	"ENST00000392876"	"Transcript"	"intron_variant"	"-/7207"	"-/1647"	"-/548"	""	""	"rs113015092"	"1"	NA	-1	"NT5DC3"	"HGNC"	30826	"protein_coding"	"YES"	"CCDS41824.1"	"ENSP00000376615"	"Q86UY8"	""	"UPI0000192759"	"NM_001031701.2"	NA	NA	""	"11/13"	""	"-:0.4724"	"CTG:0.289"	"CTG:0.4841"	NA	"CTG:0.8929"	"CTG:0.3588"	"CTG:0.6779"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"641156a2-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"704"	"NT5DC3"	51559	"mskcc.org"	"GRCh37"	"12"	104218469	104218491	"+"	"Intron"	"DEL"	"ATGCCACCAACACAATAAAGGCA"	"ATGCCACCAACACAATAAAGGCA"	"-"	"rs138720943"	NA	"JHCCPT1"	"JHCCPN1"	"ATGCCACCAACACAATAAAGGCA"	"ATGCCACCAACACAATAAAGGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.209-9592_209-9570delTGCCTTTATTGTGTTGGTGGCAT"	""	""	"ENST00000392876"	""	6	"."	3	2	"."	0	"NT5DC3,intron_variant,,ENST00000392876,NM_001031701.2;RP11-650K20.2,downstream_gene_variant,,ENST00000549448,;"	"-"	"ENSG00000111696"	"ENST00000392876"	"Transcript"	"intron_variant"	"-/7207"	"-/1647"	"-/548"	""	""	"rs138720943"	"1"	NA	-1	"NT5DC3"	"HGNC"	30826	"protein_coding"	"YES"	"CCDS41824.1"	"ENSP00000376615"	"Q86UY8"	""	"UPI0000192759"	"NM_001031701.2"	NA	NA	""	"1/13"	""	"-:0.1094"	"-:0.1089"	"-:0.17"	NA	"-:0.0188"	"-:0.163"	"-:0.1053"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGATGCCACCAACACAATAAAGGCAA"	"4b6881ac-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"705"	"HSP90B1"	7184	"mskcc.org"	"GRCh37"	"12"	104324063	104324063	"+"	"5'Flank"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000299767"	""	13	"."	5	4	"."	0	"HSP90B1,5_prime_UTR_variant,,ENST00000549334,;HSP90B1,upstream_gene_variant,,ENST00000299767,NM_003299.2;MIR3652,upstream_gene_variant,,ENST00000579335,;RP11-642P15.1,upstream_gene_variant,,ENST00000548897,;RP11-642P15.1,upstream_gene_variant,,ENST00000388789,;HSP90B1,upstream_gene_variant,,ENST00000548462,;HSP90B1,upstream_gene_variant,,ENST00000548622,;HSP90B1,upstream_gene_variant,,ENST00000540297,;"	"-"	"ENSG00000166598"	"ENST00000299767"	"Transcript"	"upstream_gene_variant"	"-/2858"	"-/2412"	"-/803"	""	""	""	"1"	"49"	1	"HSP90B1"	"HGNC"	12028	"protein_coding"	"YES"	"CCDS9094.1"	"ENSP00000299767"	"P14625"	"Q5CAQ5,F8W026,B4DHT9"	"UPI0000129FBA"	"NM_003299.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCC"	"4b6abef4-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"706"	"HSP90B1"	7184	"mskcc.org"	"GRCh37"	"12"	104333016	104333017	"+"	"Intron"	"INS"	"-"	"-"	"ACAGACACACGCCACCA"	"rs143241333"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.976-270_976-254dupACAGACACACGCCACCA"	""	""	"ENST00000299767"	""	13	"."	4	3	"."	0	"HSP90B1,intron_variant,,ENST00000299767,NM_003299.2;HSP90B1,upstream_gene_variant,,ENST00000550595,;HSP90B1,intron_variant,,ENST00000548462,;HSP90B1,intron_variant,,ENST00000550479,;HSP90B1,upstream_gene_variant,,ENST00000551983,;HSP90B1,upstream_gene_variant,,ENST00000552051,;"	"ACAGACACACGCCACCA"	"ENSG00000166598"	"ENST00000299767"	"Transcript"	"intron_variant"	"-/2858"	"-/2412"	"-/803"	""	""	"rs143241333"	"1"	NA	1	"HSP90B1"	"HGNC"	12028	"protein_coding"	"YES"	"CCDS9094.1"	"ENSP00000299767"	"P14625"	"Q5CAQ5,F8W026,B4DHT9"	"UPI0000129FBA"	"NM_003299.2"	NA	NA	""	"7/17"	""	"-:0.0759"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"17"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"64180af6-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"707"	"TDG"	6996	"mskcc.org"	"GRCh37"	"12"	104378840	104378841	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs10549241"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.964+145_964+146delGT"	""	""	"ENST00000392872"	""	22	"."	10	5	"."	0	"TDG,intron_variant,,ENST00000392872,NM_003211.4;TDG,intron_variant,,ENST00000266775,;TDG,intron_variant,,ENST00000544861,;TDG,intron_variant,,ENST00000542036,;GLT8D2,downstream_gene_variant,,ENST00000360814,NM_031302.3;GLT8D2,downstream_gene_variant,,ENST00000548660,;GLT8D2,downstream_gene_variant,,ENST00000546436,;TDG,downstream_gene_variant,,ENST00000537100,;TDG,downstream_gene_variant,,ENST00000436021,;AC078819.1,upstream_gene_variant,,ENST00000401157,;TDG,upstream_gene_variant,,ENST00000536395,;TDG,intron_variant,,ENST00000542926,;TDG,intron_variant,,ENST00000540956,;TDG,downstream_gene_variant,,ENST00000544060,;TDG,downstream_gene_variant,,ENST00000545698,;"	"-"	"ENSG00000139372"	"ENST00000392872"	"Transcript"	"intron_variant"	"-/3251"	"-/1233"	"-/410"	""	""	"rs10549241"	"1"	NA	1	"TDG"	"HGNC"	11700	"protein_coding"	"YES"	"CCDS9095.1"	"ENSP00000376611"	"Q13569"	"F5H539,B4E127"	"UPI00000740E5"	"NM_003211.4"	NA	NA	""	"8/9"	""	"TG:0.2500"	"-:0.7738"	"-:0.7032"	NA	"-:0.9355"	"-:0.6471"	"-:0.6656"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATGT"	"4bd7fa32-2764-11e6-a5eb-9377424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"708"	"HCFC2"	29915	"mskcc.org"	"GRCh37"	"12"	104480398	104480409	"+"	"Intron"	"DEL"	"AAATAAATAAAT"	"-"	"-"	"rs201240479"	NA	"JHCCPT1"	"JHCCPN1"	"AAATAAATAAAT"	"AAATAAATAAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1064-202_1064-191delAATAAATAAATA"	""	""	"ENST00000229330"	""	15	"."	12	3	"."	0	"HCFC2,intron_variant,,ENST00000229330,NM_013320.2;HCFC2,upstream_gene_variant,,ENST00000550335,;HCFC2,intron_variant,,ENST00000544223,;HCFC2,downstream_gene_variant,,ENST00000547194,;"	"-"	"ENSG00000111727"	"ENST00000229330"	"Transcript"	"intron_variant"	"-/4071"	"-/2379"	"-/792"	""	""	"rs201240479"	"1"	NA	1	"HCFC2"	"HGNC"	24972	"protein_coding"	"YES"	"CCDS9097.1"	"ENSP00000229330"	"Q9Y5Z7"	"F8VU09"	"UPI000006CF31"	"NM_013320.2"	NA	NA	""	"7/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"25"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAATAAATAAATA"	"4c06fb20-2764-11e6-a5eb-9377424a729f"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.8	"WXS"	FALSE
"709"	"TCP11L2"	255394	"mskcc.org"	"GRCh37"	"12"	106717526	106717527	"+"	"Intron"	"INS"	"-"	"-"	"AAT"	"rs144794557"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.772+105_772+107dupTAA"	""	""	"ENST00000299045"	""	13	"."	3	3	"."	0	"TCP11L2,3_prime_UTR_variant,,ENST00000546625,;TCP11L2,intron_variant,,ENST00000299045,NM_152772.1;TCP11L2,intron_variant,,ENST00000547153,NM_001286262.1;TCP11L2,downstream_gene_variant,,ENST00000553098,;TCP11L2,intron_variant,,ENST00000552690,;"	"AAT"	"ENSG00000166046"	"ENST00000299045"	"Transcript"	"intron_variant"	"-/2219"	"-/1560"	"-/519"	""	""	"rs144794557"	"1"	NA	1	"TCP11L2"	"HGNC"	28627	"protein_coding"	"YES"	"CCDS9104.1"	"ENSP00000299045"	"Q8N4U5"	"F8W1M6,F8W0R5,F8VW27,F8VRQ3"	"UPI000006D6D5"	"NM_152772.1"	NA	NA	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"646c28b6-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"710"	"RP11-144F15.1"	0	"mskcc.org"	"GRCh37"	"12"	106976190	106976191	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs111371565"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.210-82231dupG"	""	""	"ENST00000551505"	""	7	"."	4	1	"."	0	"RP11-144F15.1,intron_variant,,ENST00000551505,;RFX4,upstream_gene_variant,,ENST00000392842,NM_213594.2;RFX4,upstream_gene_variant,,ENST00000539967,;RFX4,upstream_gene_variant,,ENST00000549040,;RP11-144F15.1,intron_variant,,ENST00000549203,;RFX4,upstream_gene_variant,,ENST00000546882,;"	"C"	"ENSG00000257545"	"ENST00000551505"	"Transcript"	"intron_variant"	"-/570"	"-/348"	"-/115"	""	""	"rs111371565"	"1"	NA	-1	"RP11-144F15.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000449766"	""	"F8VWV3"	"UPI0001637870"	""	NA	NA	""	"1/2"	""	"C:0.3071"	"C:0.438"	"C:0.2997"	NA	"C:0.0714"	"C:0.34"	"C:0.3446"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"647a5756-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"711"	"RIC8B"	55188	"mskcc.org"	"GRCh37"	"12"	107239106	107239107	"+"	"Intron"	"INS"	"-"	"-"	"TTCT"	"rs111790413"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1161+1383_1161+1384insCTTT"	""	""	"ENST00000392839"	""	6	"."	4	1	"."	0	"RIC8B,intron_variant,,ENST00000392837,;RIC8B,intron_variant,,ENST00000355478,;RIC8B,intron_variant,,ENST00000392839,NM_018157.2;RIC8B,intron_variant,,ENST00000548914,;RIC8B,intron_variant,,ENST00000549643,;RIC8B,intron_variant,,ENST00000470960,;RIC8B,intron_variant,,ENST00000462949,;RIC8B,intron_variant,,ENST00000470628,;"	"TTCT"	"ENSG00000111785"	"ENST00000392839"	"Transcript"	"intron_variant"	"-/2440"	"-/1563"	"-/520"	""	""	"rs111790413"	"1"	NA	1	"RIC8B"	"HGNC"	25555	"protein_coding"	"YES"	"CCDS9109.2"	"ENSP00000376583"	"Q9NVN3"	"F8VR30"	"UPI00001FB46B"	"NM_018157.2"	NA	NA	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"648039c8-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"712"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	108381736	108381737	"+"	"IGR"	"INS"	"-"	"-"	"ACACACACACACAC"	"rs35563197"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	3	"."	0	""	"ACACACACACACAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35563197"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.5000"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"648cfb72-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"713"	"SVOP"	55530	"mskcc.org"	"GRCh37"	"12"	109337649	109337651	"+"	"Intron"	"DEL"	"TCT"	"TCT"	"-"	"rs201280387"	NA	"JHCCPT1"	"JHCCPN1"	"TCT"	"TCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.446+1228_446+1230delAGA"	""	""	"ENST00000299134"	""	27	"."	6	9	"."	0	"SVOP,intron_variant,,ENST00000299134,NM_018711.2;SVOP,intron_variant,,ENST00000550436,;SVOP,upstream_gene_variant,,ENST00000551211,;"	"-"	"ENSG00000166111"	"ENST00000299134"	"Transcript"	"intron_variant"	"-/3104"	"-/1452"	"-/483"	""	""	"rs201280387"	"1"	NA	-1	"SVOP"	"HGNC"	25417	"protein_coding"	"YES"	""	"ENSP00000299134"	"Q8N4V2"	""	"UPI00020CE167"	"NM_018711.2"	NA	NA	""	"5/13"	""	"TCT:0.4992"	"-:0.3215"	"-:0.4121"	NA	"-:0.5089"	"-:0.6282"	"-:0.6667"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTCTT"	"4d37a198-2764-11e6-a5eb-9377424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"714"	"ACACB"	32	"mskcc.org"	"GRCh37"	"12"	109672740	109672741	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs71443847"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4348-371dupA"	""	""	"ENST00000338432"	""	18	"."	3	3	"."	0	"ACACB,intron_variant,,ENST00000338432,;ACACB,intron_variant,,ENST00000377848,NM_001093.3;ACACB,intron_variant,,ENST00000377854,;ACACB,intron_variant,,ENST00000543201,;ACACB,intron_variant,,ENST00000538526,;ACACB,upstream_gene_variant,,ENST00000542524,;"	"A"	"ENSG00000076555"	"ENST00000338432"	"Transcript"	"intron_variant"	"-/9360"	"-/7377"	"-/2458"	""	""	"rs71443847"	"1"	NA	1	"ACACB"	"HGNC"	85	"protein_coding"	"YES"	"CCDS31898.1"	"ENSP00000341044"	"O00763"	"F5H5C3,E9PEW7"	"UPI0000DBEEFB"	""	NA	NA	""	"31/52"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"64f591f0-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"715"	"MYO1H"	283446	"mskcc.org"	"GRCh37"	"12"	109831352	109831353	"+"	"Intron"	"INS"	"-"	"-"	"CATTCATCCATCCATCCATCCATCCATCCATT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.242+104_242+105insTCATCCATCCATCCATCCATCCATCCATTCAT"	""	""	"ENST00000310903"	""	38	"."	5	18	"."	0	"MYO1H,intron_variant,,ENST00000310903,;MYO1H,intron_variant,,ENST00000431443,NM_001101421.3;"	"CATTCATCCATCCATCCATCCATCCATCCATT"	"ENSG00000174527"	"ENST00000310903"	"Transcript"	"intron_variant"	"-/4364"	"-/3069"	"-/1022"	""	""	""	"1"	NA	1	"MYO1H"	"HGNC"	13879	"protein_coding"	"YES"	"CCDS53826.1"	"ENSP00000439182"	""	"S4R387,F5H3C6"	"UPI0001AFF951"	""	NA	NA	""	"3/31"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"65004c6c-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WXS"	FALSE
"716"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	110072974	110072975	"+"	"IGR"	"INS"	"-"	"-"	"CAC"	"rs147461690"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	2	"."	0	""	"CAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147461690"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2083"	"CAC:0.7602"	"CAC:0.7608"	NA	"CAC:0.878"	"CAC:0.838"	"CAC:0.7198"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"6537ae82-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"717"	"FAM222A"	84915	"mskcc.org"	"GRCh37"	"12"	110198419	110198419	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs5800872"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.83-7396delC"	""	""	"ENST00000538780"	""	7	"."	4	4	"."	0	"FAM222A,intron_variant,,ENST00000538780,NM_032829.2;FAM222A,intron_variant,,ENST00000358906,;FAM222A-AS1,intron_variant,,ENST00000541723,;FAM222A-AS1,intron_variant,,ENST00000541460,;"	"-"	"ENSG00000139438"	"ENST00000538780"	"Transcript"	"intron_variant"	"-/3294"	"-/1359"	"-/452"	""	""	"rs5800872"	"1"	NA	1	"FAM222A"	"HGNC"	25915	"protein_coding"	"YES"	"CCDS9133.1"	"ENSP00000443292"	"Q5U5X8"	""	"UPI000013D712"	"NM_032829.2"	NA	NA	""	"2/2"	""	"-:0.3686"	"-:0.3079"	"-:0.3919"	NA	"-:0.3075"	"-:0.4493"	"-:0.4141"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"4dc61248-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"718"	"DTX1"	1840	"mskcc.org"	"GRCh37"	"12"	113535350	113535350	"+"	"3'UTR"	"DEL"	"G"	"G"	"-"	"rs11325819"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*606delG"	""	""	"ENST00000257600"	"9/9"	9	"."	4	1	"."	0	"DTX1,3_prime_UTR_variant,,ENST00000257600,NM_004416.2;RASAL1,downstream_gene_variant,,ENST00000546530,NM_004658.2,NM_001193520.1;RASAL1,downstream_gene_variant,,ENST00000261729,;RASAL1,downstream_gene_variant,,ENST00000446861,NM_001193521.1;RASAL1,downstream_gene_variant,,ENST00000548055,;DTX1,non_coding_transcript_exon_variant,,ENST00000547974,;RASAL1,downstream_gene_variant,,ENST00000549444,;DTX1,downstream_gene_variant,,ENST00000547730,;DTX1,downstream_gene_variant,,ENST00000553140,;RASAL1,downstream_gene_variant,,ENST00000551051,;RASAL1,downstream_gene_variant,,ENST00000546727,;"	"-"	"ENSG00000135144"	"ENST00000257600"	"Transcript"	"3_prime_UTR_variant"	"2972/3455"	"-/1863"	"-/620"	""	""	"rs11325819"	"1"	NA	1	"DTX1"	"HGNC"	3060	"protein_coding"	"YES"	"CCDS9164.1"	"ENSP00000257600"	"Q86Y01"	""	"UPI000013CF71"	"NM_004416.2"	NA	NA	"9/9"	""	""	"G:0.1967"	"-:0.8109"	"-:0.8718"	NA	"-:0.7867"	"-:0.7823"	"-:0.7832"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGA"	"4ec9586c-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"719"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	114080776	114080776	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs34638127"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34638127"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.4605"	"-:0.4796"	"-:0.6268"	NA	"-:0.4653"	"-:0.5865"	"-:0.5869"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGA"	"4effca1e-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"720"	"RP11-438N16.1"	100506465	"mskcc.org"	"GRCh37"	"12"	114179626	114179627	"+"	"3'Flank"	"INS"	"-"	"-"	"G"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000547963"	""	11	"."	3	5	"."	0	"RP11-438N16.1,intron_variant,,ENST00000551982,;RP11-438N16.1,intron_variant,,ENST00000550905,;RP11-438N16.1,downstream_gene_variant,,ENST00000547963,;RP11-438N16.1,downstream_gene_variant,,ENST00000550223,;"	"G"	"ENSG00000249550"	"ENST00000547963"	"Transcript"	"downstream_gene_variant"	"-/2088"	""	""	""	""	""	"1"	"2755"	-1	"RP11-438N16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"6573f4c8-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"721"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	115217680	115217681	"+"	"IGR"	"INS"	"-"	"-"	"TT"	"rs147055455"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	5	"."	0	""	"TT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147055455"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"657d5342-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"722"	"MIR4472-2"	100616309	"mskcc.org"	"GRCh37"	"12"	116866113	116866114	"+"	"RNA"	"DEL"	"CA"	"CA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.10_11delTG"	""	""	"ENST00000582069"	"1/1"	53	"."	5	35	"."	0	"MIR4472-2,mature_miRNA_variant,,ENST00000582069,;"	"-"	"ENSG00000264037"	"ENST00000582069"	"Transcript"	"mature_miRNA_variant"	"10-11/67"	""	""	""	""	""	"1"	NA	-1	"MIR4472-2"	"HGNC"	41752	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.009622"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	NA	"PASS"	"CCCAC"	"4f5c00ae-2764-11e6-a5eb-9377424a729f"	"300"	0	"0/0"	"27/2806"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"AC_Adj0_Filter"	"FALSE"	0.0943396226415094	"WXS"	FALSE
"723"	"FBXO21"	23014	"mskcc.org"	"GRCh37"	"12"	117595444	117595446	"+"	"Intron"	"DEL"	"AGA"	"AGA"	"-"	"rs536724073"	NA	"JHCCPT1"	"JHCCPN1"	"AGA"	"AGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1538+232_1538+234delTCT"	""	""	"ENST00000330622"	""	6	"."	4	1	"."	0	"FBXO21,intron_variant,,ENST00000427718,NM_015002.2,NM_033624.2;FBXO21,intron_variant,,ENST00000330622,;FBXO21,intron_variant,,ENST00000550180,;FBXO21,intron_variant,,ENST00000548840,;FBXO21,intron_variant,,ENST00000547806,;"	"-"	"ENSG00000135108"	"ENST00000330622"	"Transcript"	"intron_variant"	"-/2906"	"-/1887"	"-/628"	""	""	"rs536724073"	"1"	NA	-1	"FBXO21"	"HGNC"	13592	"protein_coding"	"YES"	"CCDS9184.1"	"ENSP00000328187"	"O94952"	""	"UPI000013CF6D"	""	NA	NA	""	"10/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAGAA"	"4f868400-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"724"	"KSR2"	283455	"mskcc.org"	"GRCh37"	"12"	118403819	118403820	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11379472"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.180+2061dupC"	""	""	"ENST00000339824"	""	9	"."	3	2	"."	0	"KSR2,intron_variant,,ENST00000425217,NM_173598.4;KSR2,intron_variant,,ENST00000339824,;"	"G"	"ENSG00000171435"	"ENST00000339824"	"Transcript"	"intron_variant"	"-/4429"	"-/2853"	"-/950"	""	""	"rs11379472"	"1"	NA	-1	"KSR2"	"HGNC"	18610	"protein_coding"	"YES"	""	"ENSP00000339952"	"Q6VAB6"	"E9PB13"	"UPI000152636C"	""	NA	NA	""	"1/19"	""	"-:0.0028"	"G:1"	"G:0.9957"	NA	"G:1"	"G:0.9901"	"G:0.999"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"65cfae6c-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"725"	"TAOK3"	51347	"mskcc.org"	"GRCh37"	"12"	118589091	118589102	"+"	"Intron"	"DEL"	"CGCGCACACACA"	"CGCGCACACACA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CGCGCACACACA"	"CGCGCACACACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2536-139_2536-128delTGTGTGTGCGCG"	""	""	"ENST00000392533"	""	47	"."	5	24	"."	0	"TAOK3,intron_variant,,ENST00000392533,NM_016281.3;TAOK3,intron_variant,,ENST00000419821,;TAOK3,intron_variant,,ENST00000537952,;TAOK3,intron_variant,,ENST00000536979,;TAOK3,intron_variant,,ENST00000543709,;TAOK3,intron_variant,,ENST00000537305,;"	"-"	"ENSG00000135090"	"ENST00000392533"	"Transcript"	"intron_variant"	"-/4384"	"-/2697"	"-/898"	""	""	""	"1"	NA	-1	"TAOK3"	"HGNC"	18133	"protein_coding"	"YES"	"CCDS9188.1"	"ENSP00000376317"	"Q9H2K8"	"G3V1Q8,F5H7G4,F5H5E0,F5H5C7,F5H3L7,F5H005,F5GY38,F5GX96,F5GWV8"	"UPI000007231B"	"NM_016281.3"	NA	NA	""	"20/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCGCGCACACACAC"	"4fd1ee7c-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106382978723404	"WXS"	FALSE
"726"	"SRRM4"	84530	"mskcc.org"	"GRCh37"	"12"	119558337	119558339	"+"	"Intron"	"DEL"	"TAC"	"TAC"	"-"	"rs59057088"	NA	"JHCCPT1"	"JHCCPN1"	"TAC"	"TAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.464+259_464+261delTAC"	""	""	"ENST00000267260"	""	12	"."	4	4	"."	0	"SRRM4,intron_variant,,ENST00000267260,NM_194286.3;RP11-364C11.2,upstream_gene_variant,,ENST00000537730,;SRRM4,intron_variant,,ENST00000545224,;SRRM4,upstream_gene_variant,,ENST00000537597,;"	"-"	"ENSG00000139767"	"ENST00000267260"	"Transcript"	"intron_variant"	"-/8477"	"-/1836"	"-/611"	""	""	"rs59057088"	"1"	NA	1	"SRRM4"	"HGNC"	29389	"protein_coding"	"YES"	"CCDS44994.1"	"ENSP00000267260"	"A7MD48"	""	"UPI00001FBC3F"	"NM_194286.3"	NA	NA	""	"5/12"	""	"TAC:0.2740"	"-:0.8116"	"-:0.7795"	NA	"-:0.6429"	"-:0.6581"	"-:0.728"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTACT"	"4ff25c34-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"727"	"CCDC60"	160777	"mskcc.org"	"GRCh37"	"12"	119884507	119884514	"+"	"Intron"	"DEL"	"TGTGTGCC"	"-"	"-"	"rs71969843"	NA	"JHCCPT1"	"JHCCPN1"	"TGTGTGCC"	"TGTGTGCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.170+17946_170+17953delCCTGTGTG"	""	""	"ENST00000327554"	""	6	"."	5	2	"."	0	"CCDC60,intron_variant,,ENST00000327554,NM_178499.3;RP11-768F21.1,intron_variant,,ENST00000509470,;RP11-768F21.1,intron_variant,,ENST00000537366,;RP11-768F21.1,intron_variant,,ENST00000535511,;CCDC60,intron_variant,,ENST00000546345,;CCDC60,intron_variant,,ENST00000535685,;"	"-"	"ENSG00000183273"	"ENST00000327554"	"Transcript"	"intron_variant"	"-/2450"	"-/1653"	"-/550"	""	""	"rs71969843"	"1"	NA	1	"CCDC60"	"HGNC"	28610	"protein_coding"	"YES"	"CCDS9190.1"	"ENSP00000333374"	"Q8IWA6"	"F5H5H4"	"UPI000019906E"	"NM_178499.3"	NA	NA	""	"2/13"	""	"-:0.4916"	"-:0.5174"	"-:0.379"	NA	"-:0.4385"	"-:0.3827"	"-:0.7035"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTGTGTGCCT"	"4ff49f9e-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"728"	"SPPL3"	121665	"mskcc.org"	"GRCh37"	"12"	121209354	121209355	"+"	"Intron"	"INS"	"-"	"-"	"TTC"	"rs113253204"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.503-2495_503-2493dupGAA"	""	""	"ENST00000353487"	""	6	"."	4	1	"."	0	"SPPL3,intron_variant,,ENST00000353487,NM_139015.4;SPPL3,intron_variant,,ENST00000536996,;SPPL3,intron_variant,,ENST00000543608,;SPPL3,intron_variant,,ENST00000543854,;SPPL3,upstream_gene_variant,,ENST00000392495,;SPPL3,upstream_gene_variant,,ENST00000545209,;"	"TTC"	"ENSG00000157837"	"ENST00000353487"	"Transcript"	"intron_variant"	"-/4148"	"-/1155"	"-/384"	""	""	"rs113253204"	"1"	NA	-1	"SPPL3"	"HGNC"	30424	"protein_coding"	"YES"	"CCDS9208.1"	"ENSP00000288680"	"Q8TCT6"	"F5H7J2,F5H6I1,F5H4Y6,F5H4L1,F5H2A2"	"UPI0000013590"	"NM_139015.4"	NA	NA	""	"6/10"	""	"-:0.0647"	"TTC:0.9909"	"TTC:0.938"	NA	"TTC:0.8938"	"TTC:0.9245"	"TTC:0.9121"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"66241f92-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"729"	"SETD1B"	23067	"mskcc.org"	"GRCh37"	"12"	122264173	122264174	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs56348409"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5208+902dupT"	""	""	"ENST00000267197"	""	7	"."	6	1	"."	0	"SETD1B,intron_variant,,ENST00000267197,NM_015048.1;SETD1B,intron_variant,,ENST00000542440,;SETD1B,intron_variant,,ENST00000604567,;"	"T"	"ENSG00000139718"	"ENST00000267197"	"Transcript"	"intron_variant"	"-/8195"	"-/5772"	"-/1923"	""	""	"rs56348409"	"1"	NA	1	"SETD1B"	"HGNC"	29187	"protein_coding"	"YES"	"CCDS53838.1"	"ENSP00000267197"	"Q9UPS6"	""	"UPI00006C12ED"	"NM_015048.1"	NA	NA	""	"13/16"	""	"T:0.3900"	"T:0.0477"	"T:0.4856"	NA	"T:0.5476"	"T:0.5288"	"T:0.4796"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"666da0ea-2764-11e6-a5eb-9377424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"730"	"PITPNM2"	57605	"mskcc.org"	"GRCh37"	"12"	123552741	123552742	"+"	"Intron"	"INS"	"-"	"-"	"CGGCCGGGCG"	"rs141138502"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-95-33510_-95-33509insCGCCCGGCCG"	""	""	"ENST00000320201"	""	8	"."	4	3	"."	0	"PITPNM2,intron_variant,,ENST00000280562,;PITPNM2,intron_variant,,ENST00000320201,NM_020845.2;PITPNM2,intron_variant,,ENST00000392428,;PITPNM2,intron_variant,,ENST00000546049,;PITPNM2,intron_variant,,ENST00000541244,;PITPNM2,intron_variant,,ENST00000542210,;PITPNM2,intron_variant,,ENST00000451868,;PITPNM2,intron_variant,,ENST00000535289,;"	"CGGCCGGGCG"	"ENSG00000090975"	"ENST00000320201"	"Transcript"	"intron_variant"	"-/6736"	"-/4050"	"-/1349"	""	""	"rs141138502"	"1"	NA	-1	"PITPNM2"	"HGNC"	21044	"protein_coding"	"YES"	"CCDS9242.1"	"ENSP00000322218"	"Q9BZ72"	"Q9UF51,F5H664"	"UPI0000070D27"	"NM_020845.2"	NA	NA	""	"1/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"66f8fe7e-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"731"	"SBNO1"	55206	"mskcc.org"	"GRCh37"	"12"	123822861	123822861	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs35226798"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.652-1823delT"	""	""	"ENST00000420886"	""	6	"."	4	3	"."	0	"SBNO1,intron_variant,,ENST00000420886,NM_001167856.1;SBNO1,intron_variant,,ENST00000267176,NM_018183.3;SBNO1,intron_variant,,ENST00000602750,;SBNO1,intron_variant,,ENST00000602398,;"	"-"	"ENSG00000139697"	"ENST00000420886"	"Transcript"	"intron_variant"	"-/10981"	"-/4182"	"-/1393"	""	""	"rs35226798"	"1"	NA	-1	"SBNO1"	"HGNC"	22973	"protein_coding"	"YES"	"CCDS53844.1"	"ENSP00000387361"	"A3KN83"	"Q9NVJ3"	"UPI00001FB922"	"NM_001167856.1"	NA	NA	""	"4/30"	""	"A:0.0887"	"-:0.9644"	"-:0.938"	NA	"-:0.746"	"-:0.9493"	"-:0.9519"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAA"	"525cd198-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"732"	"FAM101A"	144347	"mskcc.org"	"GRCh37"	"12"	124779148	124779149	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs5801543"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-37+5237dupC"	""	""	"ENST00000324038"	""	13	"."	8	4	"."	0	"FAM101A,intron_variant,,ENST00000324038,NM_181709.4;FAM101A,intron_variant,,ENST00000540762,;FAM101A,upstream_gene_variant,,ENST00000389727,;FAM101A,upstream_gene_variant,,ENST00000546355,NM_001204299.1;"	"C"	"ENSG00000178882"	"ENST00000324038"	"Transcript"	"intron_variant"	"-/2148"	"-/408"	"-/135"	""	""	"rs5801543"	"1"	NA	1	"FAM101A"	"HGNC"	27051	"protein_coding"	"YES"	"CCDS9258.1"	"ENSP00000315626"	"Q6ZTI6"	""	"UPI00001FB96E"	"NM_181709.4"	NA	NA	""	"1/2"	""	"-:0.0224"	"C:0.9191"	"C:0.9942"	NA	"C:1"	"C:0.999"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"6742edea-2764-11e6-a5eb-9377424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.615384615384615	"WXS"	FALSE
"733"	"NCOR2"	9612	"mskcc.org"	"GRCh37"	"12"	124812752	124812753	"+"	"Intron"	"INS"	"-"	"-"	"CC"	"rs58204892"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6959-574_6959-573insGG"	""	""	"ENST00000405201"	""	10	"."	6	2	"."	0	"NCOR2,intron_variant,,ENST00000356219,NM_006312.5;NCOR2,intron_variant,,ENST00000404121,NM_001206654.1;NCOR2,intron_variant,,ENST00000405201,;NCOR2,intron_variant,,ENST00000397355,;NCOR2,intron_variant,,ENST00000404621,NM_001077261.3;NCOR2,intron_variant,,ENST00000429285,;NCOR2,intron_variant,,ENST00000443451,;NCOR2,intron_variant,,ENST00000418829,;NCOR2,downstream_gene_variant,,ENST00000440337,;NCOR2,upstream_gene_variant,,ENST00000413172,;NCOR2,downstream_gene_variant,,ENST00000461081,;NCOR2,upstream_gene_variant,,ENST00000464377,;"	"CC"	"ENSG00000196498"	"ENST00000405201"	"Transcript"	"intron_variant"	"-/8533"	"-/7545"	"-/2514"	""	""	"rs58204892"	"1"	NA	-1	"NCOR2"	"HGNC"	7673	"protein_coding"	"YES"	"CCDS41858.2"	"ENSP00000384018"	""	"C9JFD3,C9J330"	"UPI000013D737"	""	NA	NA	""	"44/46"	""	"-:0.0208"	"CC:0.9251"	"CC:0.9942"	NA	"CC:1"	"CC:0.999"	"CC:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"67440dc4-2764-11e6-a5eb-9377424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	TRUE
"734"	"NCOR2"	9612	"mskcc.org"	"GRCh37"	"12"	124978766	124978767	"+"	"Intron"	"INS"	"-"	"-"	"AC"	"rs527941628"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.105+925_105+926dupGT"	""	""	"ENST00000405201"	""	20	"."	4	6	"."	0	"NCOR2,intron_variant,,ENST00000356219,NM_006312.5;NCOR2,intron_variant,,ENST00000404121,NM_001206654.1;NCOR2,intron_variant,,ENST00000405201,;NCOR2,intron_variant,,ENST00000397355,;NCOR2,intron_variant,,ENST00000404621,NM_001077261.3;NCOR2,intron_variant,,ENST00000429285,;NCOR2,intron_variant,,ENST00000458234,;NCOR2,intron_variant,,ENST00000420698,;NCOR2,intron_variant,,ENST00000542565,;"	"AC"	"ENSG00000196498"	"ENST00000405201"	"Transcript"	"intron_variant"	"-/8533"	"-/7545"	"-/2514"	""	""	"rs527941628"	"1"	NA	-1	"NCOR2"	"HGNC"	7673	"protein_coding"	"YES"	"CCDS41858.2"	"ENSP00000384018"	""	"C9JFD3,C9J330"	"UPI000013D737"	""	NA	NA	""	"1/46"	""	"AC:0.1068"	"AC:0.1634"	"AC:0.1268"	NA	"AC:0.0208"	"AC:0.0994"	"AC:0.1125"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"675b5f1a-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	TRUE
"735"	"TMEM132B"	114795	"mskcc.org"	"GRCh37"	"12"	126005088	126005089	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs5801606"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1278+919dupG"	""	""	"ENST00000299308"	""	6	"."	4	1	"."	0	"TMEM132B,intron_variant,,ENST00000299308,NM_052907.2;TMEM132B,intron_variant,,ENST00000534945,;"	"G"	"ENSG00000139364"	"ENST00000299308"	"Transcript"	"intron_variant"	"-/10906"	"-/3237"	"-/1078"	""	""	"rs5801606"	"1"	NA	1	"TMEM132B"	"HGNC"	29397	"protein_coding"	"YES"	"CCDS41859.1"	"ENSP00000299308"	"Q14DG7"	""	"UPI00006BFF58"	"NM_052907.2"	NA	NA	""	"4/8"	""	"-:0.3093"	"G:0.7965"	"G:0.5403"	NA	"G:0.87"	"G:0.4881"	"G:0.6779"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"6773c622-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"736"	"RP11-955H22.3"	101927616	"mskcc.org"	"GRCh37"	"12"	127826229	127826229	"+"	"5'Flank"	"DEL"	"T"	"T"	"-"	"rs71098531"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000545739"	""	10	"."	5	3	"."	0	"RP11-955H22.3,upstream_gene_variant,,ENST00000545739,;RP11-955H22.2,downstream_gene_variant,,ENST00000541512,;"	"-"	"ENSG00000256362"	"ENST00000545739"	"Transcript"	"upstream_gene_variant"	"-/852"	""	""	""	""	"rs71098531"	"1"	"1612"	-1	"RP11-955H22.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"535c0e42-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"737"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	128057008	128057015	"+"	"IGR"	"DEL"	"TGATTGAT"	"-"	"-"	"rs138790179"	NA	"JHCCPT1"	"JHCCPN1"	"TGATTGAT"	"TGATTGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	7	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138790179"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATGATTGATT"	"5360eb60-2764-11e6-a5eb-9377424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"738"	"SLC15A4"	121260	"mskcc.org"	"GRCh37"	"12"	129276658	129276659	"+"	"3'Flank"	"INS"	"-"	"C"	"C"	"rs41508750"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000266771"	""	7	"."	5	1	"."	0	"SLC15A4,downstream_gene_variant,,ENST00000266771,NM_145648.3;SLC15A4,downstream_gene_variant,,ENST00000544112,;SLC15A4,downstream_gene_variant,,ENST00000545031,;SLC15A4,downstream_gene_variant,,ENST00000376744,;"	"C"	"ENSG00000139370"	"ENST00000266771"	"Transcript"	"downstream_gene_variant"	"-/2776"	"-/1734"	"-/577"	""	""	"rs41508750"	"1"	"1080"	-1	"SLC15A4"	"HGNC"	23090	"protein_coding"	"YES"	"CCDS9264.1"	"ENSP00000266771"	"Q8N697"	"F5GZQ7,B6ZDF2"	"UPI000006F120"	"NM_145648.3"	NA	NA	""	""	""	"-:0.1841"	"C:0.8064"	"C:0.7666"	NA	"C:0.8085"	"C:0.8897"	"C:0.7955"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"6788272a-2764-11e6-a5eb-9377424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"739"	"TMEM132D"	121256	"mskcc.org"	"GRCh37"	"12"	129717374	129717375	"+"	"Intron"	"INS"	"-"	"-"	"AG"	"rs138298025"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1300-23168_1300-23167dupCT"	""	""	"ENST00000422113"	""	10	"."	3	3	"."	0	"TMEM132D,intron_variant,,ENST00000422113,NM_133448.2;"	"AG"	"ENSG00000151952"	"ENST00000422113"	"Transcript"	"intron_variant"	"-/5776"	"-/3300"	"-/1099"	""	""	"rs138298025"	"1"	NA	-1	"TMEM132D"	"HGNC"	29411	"protein_coding"	"YES"	"CCDS9266.1"	"ENSP00000408581"	"Q14C87"	""	"UPI000023759C"	"NM_133448.2"	NA	NA	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"679eb04e-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"740"	"TMEM132D"	121256	"mskcc.org"	"GRCh37"	"12"	129865103	129865104	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs35075834"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1116-42742_1116-42741delCA"	""	""	"ENST00000422113"	""	8	"."	3	2	"."	0	"TMEM132D,intron_variant,,ENST00000422113,NM_133448.2;"	"-"	"ENSG00000151952"	"ENST00000422113"	"Transcript"	"intron_variant"	"-/5776"	"-/3300"	"-/1099"	""	""	"rs35075834"	"1"	NA	-1	"TMEM132D"	"HGNC"	29411	"protein_coding"	"YES"	"CCDS9266.1"	"ENSP00000408581"	"Q14C87"	""	"UPI000023759C"	"NM_133448.2"	NA	NA	""	"3/8"	""	"TG:0.4036"	"-:0.68"	"-:0.5591"	NA	"-:0.4355"	"-:0.7097"	"-:0.5593"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTGT"	"53a7f4d8-2764-11e6-a5eb-9377424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"741"	"RIMBP2"	23504	"mskcc.org"	"GRCh37"	"12"	131067955	131067957	"+"	"Intron"	"DEL"	"CAT"	"CAT"	"-"	"rs34904786"	NA	"JHCCPT1"	"JHCCPN1"	"CAT"	"CAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1133+44910_-1133+44912delATG"	""	""	"ENST00000536002"	""	9	"."	4	3	"."	0	"RIMBP2,intron_variant,,ENST00000536002,;"	"-"	"ENSG00000060709"	"ENST00000536002"	"Transcript"	"intron_variant"	"-/3868"	"-/1938"	"-/645"	""	""	"rs34904786"	"1"	NA	-1	"RIMBP2"	"HGNC"	30339	"protein_coding"	""	""	"ENSP00000439159"	"O15034"	""	"UPI000006E1C3"	""	NA	NA	""	"2/15"	""	"CAT:0.1550"	"-:0.7912"	"-:0.8559"	NA	"-:0.8661"	"-:0.8459"	"-:0.8875"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACATC"	"53d50572-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"742"	"GPR133"	283383	"mskcc.org"	"GRCh37"	"12"	131569969	131569969	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs67054050"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1671+761delA"	""	""	"ENST00000261654"	""	10	"."	4	4	"."	0	"GPR133,intron_variant,,ENST00000261654,NM_198827.3;GPR133,intron_variant,,ENST00000376682,;GPR133,intron_variant,,ENST00000335486,;GPR133,intron_variant,,ENST00000535015,;GPR133,intron_variant,,ENST00000543617,;GPR133,intron_variant,,ENST00000446583,;"	"-"	"ENSG00000111452"	"ENST00000261654"	"Transcript"	"intron_variant"	"-/5168"	"-/2625"	"-/874"	""	""	"rs67054050"	"1"	NA	1	"GPR133"	"HGNC"	19893	"protein_coding"	"YES"	"CCDS9272.1"	"ENSP00000261654"	"Q6QNK2"	"F5H4Y0,B2CKK9"	"UPI0000241C7A"	"NM_198827.3"	NA	NA	""	"15/24"	""	"-:0.1090"	"-:0.1944"	"-:0.1182"	NA	"-:0.0308"	"-:0.1292"	"-:0.047"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAG"	"53f8ea32-2764-11e6-a5eb-9377424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"743"	"RP11-638F5.1"	116437	"mskcc.org"	"GRCh37"	"12"	131653889	131653890	"+"	"Intron"	"INS"	"-"	"-"	"CTTTCTT"	"rs141680823"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.220+4131_220+4137dupTTCTTCT"	""	""	"ENST00000376678"	""	20	"."	6	5	"."	0	"RP11-638F5.1,intron_variant,,ENST00000376678,;"	"CTTTCTT"	"ENSG00000204603"	"ENST00000376678"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2473"	""	""	""	""	"rs141680823"	"1"	NA	1	"RP11-638F5.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"23"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"67d5cba6-2764-11e6-a5eb-9377424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"744"	"ENSR00001468476"	0	"mskcc.org"	"GRCh37"	"12"	131716377	131716382	"+"	"IGR"	"DEL"	"CTCCTC"	"CTCCTC"	"-"	"rs143083134"	NA	"JHCCPT1"	"JHCCPN1"	"CTCCTC"	"CTCCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001468476"	""	16	"."	6	4	"."	0	""	"-"	""	"ENSR00001468476"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs143083134"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTCCTCC"	"54046e3e-2764-11e6-a5eb-9377424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"745"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	132137845	132137851	"+"	"IGR"	"DEL"	"TTGTGTG"	"TTGTGTG"	"-"	"rs199627785"	NA	"JHCCPT1"	"JHCCPN1"	"TTGTGTG"	"TTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs199627785"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTTGTGTGT"	"54129720-2764-11e6-a5eb-9377424a729f"	"171"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"746"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	132976482	132976483	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs35375488"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	6	1	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35375488"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1791"	"G:0.9123"	"G:0.8156"	NA	"G:0.8631"	"G:0.6511"	"G:0.8323"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"68045f0c-2764-11e6-a5eb-9377424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"747"	"LINC00408"	100652856	"mskcc.org"	"GRCh37"	"13"	19479034	19479035	"+"	"5'Flank"	"INS"	"-"	"-"	"CC"	"rs140102220"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000447784"	""	9	"."	3	6	"."	0	"LINC00408,upstream_gene_variant,,ENST00000447784,;"	"CC"	"ENSG00000226250"	"ENST00000447784"	"Transcript"	"upstream_gene_variant"	"-/560"	""	""	""	""	"rs140102220"	"1"	"544"	1	"LINC00408"	"HGNC"	42740	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"4045b984-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"748"	"RP11-301J16.7"	0	"mskcc.org"	"GRCh37"	"13"	19601357	19601358	"+"	"5'Flank"	"INS"	"-"	"-"	"AA"	"rs3078060"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000450212"	""	13	"."	9	7	"."	0	"RP11-301J16.7,upstream_gene_variant,,ENST00000450212,;PHF2P2,intron_variant,,ENST00000444553,;GTF2IP3,intron_variant,,ENST00000560687,;GTF2IP3,intron_variant,,ENST00000433887,;"	"AA"	"ENSG00000226619"	"ENST00000450212"	"Transcript"	"upstream_gene_variant"	"-/199"	""	""	""	""	"rs3078060"	"1"	"619"	1	"RP11-301J16.7"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3161"	"AA:0.7148"	"AA:0.745"	NA	"AA:0.8185"	"AA:0.5497"	"AA:0.5982"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"404e948c-2764-11e6-a7f0-9277424a729f"	"537"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.692307692307692	"WXS"	FALSE
"749"	"RNA5SP24"	0	"mskcc.org"	"GRCh37"	"13"	19661597	19661598	"+"	"5'Flank"	"INS"	"-"	"-"	"CCC"	"rs138282015"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516478"	""	15	"."	7	3	"."	0	"RNA5SP24,upstream_gene_variant,,ENST00000516478,;"	"CCC"	"ENSG00000252287"	"ENST00000516478"	"Transcript"	"upstream_gene_variant"	"-/95"	""	""	""	""	"rs138282015"	"1"	"1029"	1	"RNA5SP24"	"HGNC"	42600	"rRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0248"	"CCC:0.9614"	"CCC:0.9798"	NA	"CCC:1"	"CCC:0.9791"	"CCC:0.9611"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"4051cb70-2764-11e6-a7f0-9277424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.466666666666667	"WXS"	FALSE
"750"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	20930759	20930760	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs5802064"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5802064"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0266"	"G:0.9039"	"G:0.9942"	NA	"G:1"	"G:0.998"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"40a247ee-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"751"	"ENSR00001507636"	0	"mskcc.org"	"GRCh37"	"13"	20962332	20962333	"+"	"IGR"	"INS"	"-"	"G"	"G"	"rs36122618"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001507636"	""	7	"."	5	1	"."	0	""	"G"	""	"ENSR00001507636"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs36122618"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4113"	"AG:0.7534"	"AG:0.6138"	NA	"AG:0.6825"	"AG:0.4722"	"AG:0.3712"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"40a2f810-2764-11e6-a7f0-9277424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"752"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	21816984	21816984	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs67531839"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	5	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs67531839"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"304398bc-2764-11e6-a7f0-9277424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"753"	"LINC00422"	100652865	"mskcc.org"	"GRCh37"	"13"	21874006	21874007	"+"	"3'Flank"	"INS"	"-"	"-"	"TTGT"	"rs113469052"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000434601"	""	7	"."	3	3	"."	0	"LINC00422,downstream_gene_variant,,ENST00000434601,;MIPEPP3,intron_variant,,ENST00000424756,;MIPEPP3,intron_variant,,ENST00000412105,;"	"TTGT"	"ENSG00000224429"	"ENST00000434601"	"Transcript"	"downstream_gene_variant"	"-/960"	""	""	""	""	"rs113469052"	"1"	"3647"	-1	"LINC00422"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"TTGT:0.4139"	"TTGT:0.2716"	"TTGT:0.5101"	NA	"TTGT:0.6677"	"TTGT:0.2575"	"TTGT:0.4376"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"40e3e53c-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"754"	"MICU2"	221154	"mskcc.org"	"GRCh37"	"13"	22113183	22113184	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11403747"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.466+257dupC"	""	""	"ENST00000382374"	""	13	"."	3	3	"."	0	"MICU2,intron_variant,,ENST00000382374,NM_152726.2;MICU2,intron_variant,,ENST00000468222,;MICU2,intron_variant,,ENST00000469058,;MICU2,intron_variant,,ENST00000476895,;"	"G"	"ENSG00000165487"	"ENST00000382374"	"Transcript"	"intron_variant"	"-/1920"	"-/1305"	"-/434"	""	""	"rs11403747"	"1"	NA	-1	"MICU2"	"HGNC"	31830	"protein_coding"	"YES"	"CCDS9297.1"	"ENSP00000371811"	"Q8IYU8"	""	"UPI0000035DB8"	"NM_152726.2"	NA	NA	""	"4/11"	""	"G:0.3321"	"G:0.2247"	"G:0.3617"	NA	"G:0.3056"	"G:0.4076"	"G:0.4059"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"40f1443e-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"755"	"PARP4"	143	"mskcc.org"	"GRCh37"	"13"	25066409	25066409	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs34651960"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1053+150delC"	""	""	"ENST00000381989"	""	24	"."	3	6	"."	0	"PARP4,intron_variant,,ENST00000381989,NM_006437.3;TPTE2P6,intron_variant,,ENST00000445572,;"	"-"	"ENSG00000102699"	"ENST00000381989"	"Transcript"	"intron_variant"	"-/5474"	"-/5175"	"-/1724"	""	""	"rs34651960"	"1"	NA	-1	"PARP4"	"HGNC"	271	"protein_coding"	"YES"	"CCDS9307.1"	"ENSP00000371419"	"Q9UKK3"	""	"UPI000013C76E"	"NM_006437.3"	NA	NA	""	"9/33"	""	"-:0.0933"	"-:0.1793"	"-:0.072"	NA	"-:0.0317"	"-:0.0944"	"-:0.0542"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGG"	"31391d50-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"756"	"RNF17"	56163	"mskcc.org"	"GRCh37"	"13"	25440519	25440520	"+"	"Intron"	"INS"	"-"	"-"	"CTAT"	"rs34836277"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4161+179_4161+182dupCTAT"	""	""	"ENST00000255324"	""	32	"."	13	4	"."	0	"RNF17,intron_variant,,ENST00000255324,NM_031277.2,NM_001184993.1;RNF17,intron_variant,,ENST00000381921,;RNF17,intron_variant,,ENST00000418120,;RNF17,intron_variant,,ENST00000339524,;"	"CTAT"	"ENSG00000132972"	"ENST00000255324"	"Transcript"	"intron_variant"	"-/5119"	"-/4872"	"-/1623"	""	""	"rs34836277"	"1"	NA	1	"RNF17"	"HGNC"	10060	"protein_coding"	"YES"	"CCDS9308.2"	"ENSP00000255324"	"Q9BXT8"	""	"UPI00001FC8BA"	"NM_031277.2,NM_001184993.1"	NA	NA	""	"30/35"	""	"-:0.3810"	"CTAT:0.5303"	"CTAT:0.6671"	NA	"CTAT:0.6796"	"CTAT:0.662"	"CTAT:0.5982"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"4176c906-2764-11e6-a7f0-9277424a729f"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.40625	"WXS"	FALSE
"757"	"MTMR6"	9107	"mskcc.org"	"GRCh37"	"13"	25855669	25855669	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs35028759"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.24+5693delT"	""	""	"ENST00000381801"	""	9	"."	5	2	"."	0	"MTMR6,intron_variant,,ENST00000381801,NM_004685.3;MTMR6,intron_variant,,ENST00000540661,;"	"-"	"ENSG00000139505"	"ENST00000381801"	"Transcript"	"intron_variant"	"-/5659"	"-/1866"	"-/621"	""	""	"rs35028759"	"1"	NA	-1	"MTMR6"	"HGNC"	7453	"protein_coding"	"YES"	"CCDS9313.1"	"ENSP00000371221"	"Q9Y217"	"Q8N5Q4"	"UPI00001FC8D0"	"NM_004685.3"	NA	NA	""	"1/13"	""	"-:0.4894"	"-:0.1384"	"-:0.5144"	NA	"-:0.5665"	"-:0.8231"	"-:0.5235"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"31aaa95c-2764-11e6-a7f0-9277424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"758"	"ATP8A2"	51761	"mskcc.org"	"GRCh37"	"13"	26411562	26411567	"+"	"Intron"	"DEL"	"CACACA"	"CACACA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CACACA"	"CACACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2877+180_2877+185delACACAC"	""	""	"ENST00000381655"	""	43	"."	4	16	"."	0	"ATP8A2,intron_variant,,ENST00000381655,NM_016529.4;ATP8A2,intron_variant,,ENST00000255283,;ATP8A2,intron_variant,,ENST00000491840,;ATP8A2,intron_variant,,ENST00000281620,;"	"-"	"ENSG00000132932"	"ENST00000381655"	"Transcript"	"intron_variant"	"-/9575"	"-/3567"	"-/1188"	""	""	""	"1"	NA	1	"ATP8A2"	"HGNC"	13533	"protein_coding"	"YES"	"CCDS41873.1"	"ENSP00000371070"	"Q9NTI2"	""	"UPI0000229592"	"NM_016529.4"	NA	NA	""	"29/36"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"41"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACCACACAC"	"31e95b2a-2764-11e6-a7f0-9277424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WXS"	FALSE
"759"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	27601592	27601593	"+"	"IGR"	"INS"	"-"	"-"	"GAA"	"rs35138578"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	1	"."	0	""	"GAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35138578"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2077"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"41d4856e-2764-11e6-a7f0-9277424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"760"	"POLR1D"	51082	"mskcc.org"	"GRCh37"	"13"	28197801	28197802	"+"	"3'Flank"	"INS"	"-"	"GTTA"	"GTTA"	"rs5802435"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000302979"	""	6	"."	5	2	"."	0	"POLR1D,intron_variant,,ENST00000399697,NM_152705.2,NM_001206559.1;LNX2,upstream_gene_variant,,ENST00000316334,NM_153371.3;POLR1D,downstream_gene_variant,,ENST00000302979,NM_015972.3;POLR1D,downstream_gene_variant,,ENST00000399696,;POLR1D,intron_variant,,ENST00000465887,;POLR1D,intron_variant,,ENST00000489647,;"	"GTTA"	"ENSG00000186184"	"ENST00000302979"	"Transcript"	"downstream_gene_variant"	"-/1626"	"-/402"	"-/133"	""	""	"rs5802435"	"1"	"212"	1	"POLR1D"	"HGNC"	20422	"protein_coding"	"YES"	"CCDS9325.1"	"ENSP00000302478"	"Q9Y2S0"	""	"UPI00001345BE"	"NM_015972.3"	NA	NA	""	""	""	"-:0.2218"	"GTTA:0.6157"	"GTTA:0.83"	NA	"GTTA:0.9187"	"GTTA:0.7863"	"GTTA:0.8078"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"41f25602-2764-11e6-a7f0-9277424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"761"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	28260833	28260833	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs34879251"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34879251"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4525"	"-:0.528"	"-:0.7017"	NA	"-:0.5119"	"-:0.6322"	"-:0.4141"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"3253d6b2-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"762"	"FLT3"	2322	"mskcc.org"	"GRCh37"	"13"	28651234	28651235	"+"	"Intron"	"INS"	"-"	"-"	"AG"	"rs34410286"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.44-6486_44-6485insCT"	""	""	"ENST00000241453"	""	29	"."	4	7	"."	0	"FLT3,intron_variant,,ENST00000380982,;FLT3,intron_variant,,ENST00000241453,NM_004119.2;FLT3,intron_variant,,ENST00000537084,;FLT3,intron_variant,,ENST00000380987,;"	"AG"	"ENSG00000122025"	"ENST00000241453"	"Transcript"	"intron_variant"	"-/3842"	"-/2982"	"-/993"	""	""	"rs34410286"	"1"	NA	-1	"FLT3"	"HGNC"	3765	"protein_coding"	"YES"	"CCDS31953.1"	"ENSP00000241453"	"P36888"	""	"UPI00001FC90B"	"NM_004119.2"	NA	NA	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"420c827a-2764-11e6-a7f0-9277424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WXS"	TRUE
"763"	"FLT3"	2322	"mskcc.org"	"GRCh37"	"13"	28651263	28651265	"+"	"Intron"	"DEL"	"AAG"	"AAG"	"-"	"rs138500773"	NA	"JHCCPT1"	"JHCCPN1"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.44-6516_44-6514delCTT"	""	""	"ENST00000241453"	""	30	"."	3	5	"."	0	"FLT3,intron_variant,,ENST00000380982,;FLT3,intron_variant,,ENST00000241453,NM_004119.2;FLT3,intron_variant,,ENST00000537084,;FLT3,intron_variant,,ENST00000380987,;"	"-"	"ENSG00000122025"	"ENST00000241453"	"Transcript"	"intron_variant"	"-/3842"	"-/2982"	"-/993"	""	""	"rs138500773"	"1"	NA	-1	"FLT3"	"HGNC"	3765	"protein_coding"	"YES"	"CCDS31953.1"	"ENSP00000241453"	"P36888"	""	"UPI00001FC90B"	"NM_004119.2"	NA	NA	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAAAGA"	"3297a612-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WXS"	TRUE
"764"	"MTUS2"	23281	"mskcc.org"	"GRCh37"	"13"	29703714	29703715	"+"	"Intron"	"INS"	"-"	"-"	"ATGTC"	"rs10694315"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2674+28609_2674+28610insGTCAT"	""	""	"ENST00000431530"	""	6	"."	4	1	"."	0	"MTUS2,intron_variant,,ENST00000431530,NM_001033602.2;MTUS2,intron_variant,,ENST00000255289,;"	"ATGTC"	"ENSG00000132938"	"ENST00000431530"	"Transcript"	"intron_variant"	"-/4747"	"-/4140"	"-/1379"	""	""	"rs10694315"	"1"	NA	1	"MTUS2"	"HGNC"	20595	"protein_coding"	"YES"	"CCDS45022.1"	"ENSP00000392057"	""	"J3KQA9,B4DWQ4"	"UPI0000F734AC"	"NM_001033602.2"	NA	NA	""	"3/13"	""	"-:0.2867"	"ATGTC:0.7133"	"ATGTC:0.781"	NA	"ATGTC:0.5813"	"ATGTC:0.8181"	"ATGTC:0.6933"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"423699d4-2764-11e6-a7f0-9277424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"765"	"KATNAL1"	84056	"mskcc.org"	"GRCh37"	"13"	30881531	30881532	"+"	"5'UTR"	"INS"	"-"	"-"	"GCC"	"rs765633852"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-81_-79dupGGC"	""	""	"ENST00000380615"	"1/11"	11	"."	3	3	"."	0	"KATNAL1,5_prime_UTR_variant,,ENST00000380615,NM_032116.4;KATNAL1,upstream_gene_variant,,ENST00000380617,NM_001014380.2;KATNAL1,upstream_gene_variant,,ENST00000441394,;KATNAL1,upstream_gene_variant,,ENST00000414289,;"	"GCC"	"ENSG00000102781"	"ENST00000380615"	"Transcript"	"5_prime_UTR_variant"	"90-91/7551"	"-/1473"	"-/490"	""	""	"rs765633852"	"1"	NA	-1	"KATNAL1"	"HGNC"	28361	"protein_coding"	"YES"	"CCDS31956.1"	"ENSP00000369989"	"Q9BW62"	"Q5T558,A2A3H2"	"UPI000006F05B"	"NM_032116.4"	NA	NA	"1/11"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"42526d12-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"766"	"HMGB1"	3146	"mskcc.org"	"GRCh37"	"13"	31040433	31040434	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs59963662"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-14-2603dupG"	""	""	"ENST00000405805"	""	9	"."	5	1	"."	0	"HMGB1,intron_variant,,ENST00000405805,;HMGB1,intron_variant,,ENST00000398908,;HMGB1,upstream_gene_variant,,ENST00000341423,NM_002128.4;HMGB1,upstream_gene_variant,,ENST00000339872,;HMGB1,upstream_gene_variant,,ENST00000399489,;HMGB1,upstream_gene_variant,,ENST00000399494,;HMGB1,upstream_gene_variant,,ENST00000326004,;HMGB1,upstream_gene_variant,,ENST00000468384,;HMGB1,upstream_gene_variant,,ENST00000490788,;"	"C"	"ENSG00000189403"	"ENST00000405805"	"Transcript"	"intron_variant"	"-/4199"	"-/648"	"-/215"	""	""	"rs59963662"	"1"	NA	-1	"HMGB1"	"HGNC"	4983	"protein_coding"	"YES"	"CCDS9335.1"	"ENSP00000384678"	"P09429"	"Q9NYD7,Q5T7C0"	"UPI00000015ED"	""	NA	NA	""	"1/4"	""	"-:0.0325"	"C:0.9319"	"C:0.9726"	NA	"C:0.9841"	"C:0.9911"	"C:0.9703"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"425d38e6-2764-11e6-a7f0-9277424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"767"	"HMGB1"	3146	"mskcc.org"	"GRCh37"	"13"	31058903	31058907	"+"	"Intron"	"DEL"	"AGAGG"	"AGAGG"	"-"	"rs71858402"	NA	"JHCCPT1"	"JHCCPN1"	"AGAGG"	"AGAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-14-21076_-14-21072delCCTCT"	""	""	"ENST00000405805"	""	10	"."	4	7	"."	0	"HMGB1,intron_variant,,ENST00000405805,;"	"-"	"ENSG00000189403"	"ENST00000405805"	"Transcript"	"intron_variant"	"-/4199"	"-/648"	"-/215"	""	""	"rs71858402"	"1"	NA	-1	"HMGB1"	"HGNC"	4983	"protein_coding"	"YES"	"CCDS9335.1"	"ENSP00000384678"	"P09429"	"Q9NYD7,Q5T7C0"	"UPI00000015ED"	""	NA	NA	""	"1/4"	""	"-:0.4433"	"-:0.1664"	"-:0.5014"	NA	"-:0.5139"	"-:0.5656"	"-:0.5777"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGAGGA"	"32fd8ac2-2764-11e6-a7f0-9277424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"768"	"USPL1"	10208	"mskcc.org"	"GRCh37"	"13"	31216426	31216426	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11324654"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.983-338delT"	""	""	"ENST00000255304"	""	10	"."	6	1	"."	0	"USPL1,intron_variant,,ENST00000255304,NM_005800.4;"	"-"	"ENSG00000132952"	"ENST00000255304"	"Transcript"	"intron_variant"	"-/3814"	"-/3279"	"-/1092"	""	""	"rs11324654"	"1"	NA	1	"USPL1"	"HGNC"	20294	"protein_coding"	"YES"	"CCDS9336.1"	"ENSP00000255304"	"Q5W0Q7"	""	"UPI000013CEA3"	"NM_005800.4"	NA	NA	""	"5/8"	""	"-:0.4611"	"-:0.7587"	"-:0.3818"	NA	"-:0.1796"	"-:0.4115"	"-:0.456"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTT"	"330ffafe-2764-11e6-a7f0-9277424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"769"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	31755767	31755772	"+"	"IGR"	"DEL"	"TGGCCC"	"TGGCCC"	"-"	"rs112197723"	NA	"JHCCPT1"	"JHCCPN1"	"TGGCCC"	"TGGCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	5	9	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112197723"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2708"	"-:0.1074"	"-:0.2695"	NA	"-:0.4474"	"-:0.2266"	"-:0.3558"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTGGCCCT"	"333d1994-2764-11e6-a7f0-9277424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"770"	"DCLK1"	9201	"mskcc.org"	"GRCh37"	"13"	36341060	36341061	"+"	"3'Flank"	"INS"	"-"	"-"	"TCCTTCCTTCCTTCCT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000255448"	""	13	"."	3	4	"."	0	"DCLK1,downstream_gene_variant,,ENST00000255448,NM_004734.4;DCLK1,downstream_gene_variant,,ENST00000360631,;DCLK1,downstream_gene_variant,,ENST00000379893,NM_001195416.1,NM_001195415.1;"	"TCCTTCCTTCCTTCCT"	"ENSG00000133083"	"ENST00000255448"	"Transcript"	"downstream_gene_variant"	"-/5703"	"-/2190"	"-/729"	""	""	""	"1"	"4417"	-1	"DCLK1"	"HGNC"	2700	"protein_coding"	"YES"	"CCDS9354.1"	"ENSP00000255448"	"O15075"	""	"UPI000002A7C2"	"NM_004734.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"4349de76-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"771"	"ALG5"	29880	"mskcc.org"	"GRCh37"	"13"	37539442	37539443	"+"	"Intron"	"INS"	"-"	"-"	"AAGGAAAAAAAAGGAAGTCT"	"rs139879453"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.773+269_773+270insAGACTTCCTTTTTTTTCCTT"	""	""	"ENST00000239891"	""	6	"."	4	4	"."	0	"ALG5,intron_variant,,ENST00000239891,NM_013338.4;ALG5,intron_variant,,ENST00000443765,NM_001142364.1;ALG5,intron_variant,,ENST00000413537,;ALG5,intron_variant,,ENST00000460230,;"	"AAGGAAAAAAAAGGAAGTCT"	"ENSG00000120697"	"ENST00000239891"	"Transcript"	"intron_variant"	"-/1154"	"-/975"	"-/324"	""	""	"rs139879453"	"1"	NA	-1	"ALG5"	"HGNC"	20266	"protein_coding"	"YES"	"CCDS9361.1"	"ENSP00000239891"	"Q9Y673"	""	"UPI000012583A"	"NM_013338.4"	NA	NA	""	"8/9"	""	"-:0.0579"	"AAGGAAAAAAAAGGAAGTCT:0.9743"	"AAGGAAAAAAAAGGAAGTCT:0.8444"	NA	"AAGGAAAAAAAAGGAAGTCT:0.995"	"AAGGAAAAAAAAGGAAGTCT:0.8946"	"AAGGAAAAAAAAGGAAGTCT:0.9622"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"4358dfd4-2764-11e6-a7f0-9277424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"772"	"TRPC4"	7223	"mskcc.org"	"GRCh37"	"13"	38357025	38357025	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs67971290"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.378+68delC"	""	""	"ENST00000379681"	""	76	"."	3	30	"."	0	"TRPC4,intron_variant,,ENST00000379705,;TRPC4,intron_variant,,ENST00000379681,NM_001135955.1,NM_016179.2,NM_003306.1;TRPC4,intron_variant,,ENST00000447043,;TRPC4,intron_variant,,ENST00000358477,;TRPC4,intron_variant,,ENST00000338947,NM_001135958.1;TRPC4,intron_variant,,ENST00000355779,NM_001135957.1;TRPC4,intron_variant,,ENST00000379673,NM_001135956.1;TRPC4,intron_variant,,ENST00000426868,;TRPC4,intron_variant,,ENST00000379679,;TRPC4,intron_variant,,ENST00000488717,;"	"-"	"ENSG00000133107"	"ENST00000379681"	"Transcript"	"intron_variant"	"-/3446"	"-/2949"	"-/982"	""	""	"rs67971290"	"1"	NA	-1	"TRPC4"	"HGNC"	12336	"protein_coding"	"YES"	"CCDS45037.1"	"ENSP00000369003"	"Q9UBN4"	""	"UPI000006E5BE"	"NM_001135955.1,NM_016179.2,NM_003306.1"	NA	NA	""	"2/10"	""	"G:0.4874"	"-:0.3109"	"-:0.5807"	NA	"-:0.75"	"-:0.4682"	"-:0.5378"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGA"	"3499c0ee-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0394736842105263	"WXS"	FALSE
"773"	"DGKH"	160851	"mskcc.org"	"GRCh37"	"13"	42766763	42766764	"+"	"Intron"	"INS"	"-"	"-"	"TTC"	"rs140648748"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2035+2115_2035+2117dupTTC"	""	""	"ENST00000337343"	""	16	"."	3	6	"."	0	"DGKH,intron_variant,,ENST00000261491,NM_152910.4;DGKH,intron_variant,,ENST00000379274,;DGKH,intron_variant,,ENST00000337343,NM_178009.3;DGKH,intron_variant,,ENST00000540693,NM_001204504.1;DGKH,intron_variant,,ENST00000536612,NM_001204506.1,NM_001204505.1;DGKH,intron_variant,,ENST00000538674,;DGKH,intron_variant,,ENST00000498255,;"	"TTC"	"ENSG00000102780"	"ENST00000337343"	"Transcript"	"intron_variant"	"-/4246"	"-/3663"	"-/1220"	""	""	"rs140648748"	"1"	NA	1	"DGKH"	"HGNC"	2854	"protein_coding"	"YES"	"CCDS9381.1"	"ENSP00000337572"	"Q86XP1"	""	"UPI000017DA47"	"NM_178009.3"	NA	NA	""	"16/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"15"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"43d94d04-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"774"	"EPSTI1"	94240	"mskcc.org"	"GRCh37"	"13"	43532928	43532929	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11440601"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.489+4462dupT"	""	""	"ENST00000313640"	""	6	"."	3	1	"."	0	"EPSTI1,intron_variant,,ENST00000313640,NM_001002264.2;EPSTI1,intron_variant,,ENST00000313624,NM_033255.3;EPSTI1,intron_variant,,ENST00000398762,;EPSTI1,intron_variant,,ENST00000537828,;EPSTI1,intron_variant,,ENST00000476830,;EPSTI1,intron_variant,,ENST00000535677,;EPSTI1,downstream_gene_variant,,ENST00000542706,;EPSTI1,intron_variant,,ENST00000540470,;EPSTI1,intron_variant,,ENST00000538562,;"	"A"	"ENSG00000133106"	"ENST00000313640"	"Transcript"	"intron_variant"	"-/3160"	"-/1233"	"-/410"	""	""	"rs11440601"	"1"	NA	-1	"EPSTI1"	"HGNC"	16465	"protein_coding"	"YES"	"CCDS31964.1"	"ENSP00000318982"	"Q96J88"	"F5H799"	"UPI0000074657"	"NM_001002264.2"	NA	NA	""	"5/12"	""	"-:0.2899"	"AAAAAAAAA:0.4811"	"AAAAAAAAA:0.7666"	NA	"AAAAAAAAA:0.8175"	"AAAAAAAAA:0.829"	"AAAAAAAAA:0.7464"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"4410b4b0-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"775"	"NUFIP1"	26747	"mskcc.org"	"GRCh37"	"13"	45556056	45556057	"+"	"Intron"	"INS"	"-"	"-"	"CATGTTTAACATAAAACATAAAA"	"rs148833607"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.495+150_495+151insTTTTATGTTTTATGTTAAACATG"	""	""	"ENST00000379161"	""	6	"."	3	2	"."	0	"NUFIP1,intron_variant,,ENST00000379161,NM_012345.2;RP11-321C24.1,downstream_gene_variant,,ENST00000437748,;"	"CATGTTTAACATAAAACATAAAA"	"ENSG00000083635"	"ENST00000379161"	"Transcript"	"intron_variant"	"-/3492"	"-/1488"	"-/495"	""	""	"rs148833607"	"1"	NA	-1	"NUFIP1"	"HGNC"	8057	"protein_coding"	"YES"	"CCDS9393.1"	"ENSP00000368459"	"Q9UHK0"	""	"UPI000013C768"	"NM_012345.2"	NA	NA	""	"2/9"	""	"-:0.4938"	"CATGTTTAACATAAAACATAAAA:0.0968"	"CATGTTTAACATAAAACATAAAA:0.6427"	NA	"CATGTTTAACATAAAACATAAAA:0.5585"	"CATGTTTAACATAAAACATAAAA:0.7853"	"CATGTTTAACATAAAACATAAAA:0.6217"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"44473792-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"776"	"ENSR00000515546"	0	"mskcc.org"	"GRCh37"	"13"	45885631	45885632	"+"	"IGR"	"INS"	"-"	"-"	"GAG"	"rs113348265"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000515546"	""	22	"."	8	10	"."	0	""	"GAG"	""	"ENSR00000515546"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs113348265"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"GAG:0.2145"	"GAG:0.3676"	"GAG:0.2046"	NA	"GAG:0.0188"	"GAG:0.2982"	"GAG:0.1299"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"444fc3e4-2764-11e6-a7f0-9277424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"777"	"LRCH1"	23143	"mskcc.org"	"GRCh37"	"13"	47224705	47224705	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs78561930"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.452+231delA"	""	""	"ENST00000389797"	""	32	"."	6	8	"."	0	"LRCH1,intron_variant,,ENST00000311191,NM_001164213.1;LRCH1,intron_variant,,ENST00000389798,NM_015116.2;LRCH1,intron_variant,,ENST00000389797,NM_001164211.1;LRCH1,intron_variant,,ENST00000443945,;"	"-"	"ENSG00000136141"	"ENST00000389797"	"Transcript"	"intron_variant"	"-/3314"	"-/2292"	"-/763"	""	""	"rs78561930"	"1"	NA	1	"LRCH1"	"HGNC"	20309	"protein_coding"	"YES"	"CCDS53865.1"	"ENSP00000374447"	"Q9Y2L9"	"C9JWE0,C9J5B8"	"UPI00015DFE06"	"NM_001164211.1"	NA	NA	""	"2/19"	""	"A:0.1875"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"36240b40-2764-11e6-a7f0-9277424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"778"	"ARL11"	115761	"mskcc.org"	"GRCh37"	"13"	50198746	50198746	"+"	"5'Flank"	"DEL"	"C"	"C"	"-"	"rs11345457"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000282026"	""	11	"."	5	3	"."	0	"ARL11,upstream_gene_variant,,ENST00000282026,NM_138450.5;ARL11,upstream_gene_variant,,ENST00000490932,;RP11-432M24.4,downstream_gene_variant,,ENST00000316159,;RP11-432M24.4,downstream_gene_variant,,ENST00000451812,;"	"-"	"ENSG00000152213"	"ENST00000282026"	"Transcript"	"upstream_gene_variant"	"-/3760"	"-/591"	"-/196"	""	""	"rs11345457"	"1"	"3689"	1	"ARL11"	"HGNC"	24046	"protein_coding"	"YES"	"CCDS9419.1"	"ENSP00000282026"	"Q969Q4"	""	"UPI0000073EDE"	"NM_138450.5"	NA	NA	""	""	""	"-:0.2059"	"-:0.261"	"-:0.1931"	NA	"-:0.3601"	"-:0.0706"	"-:0.1207"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGCC"	"37103862-2764-11e6-a7f0-9277424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"779"	"RNY4P30"	0	"mskcc.org"	"GRCh37"	"13"	50467039	50467039	"+"	"5'Flank"	"DEL"	"T"	"T"	"-"	"rs375406271"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000410216"	""	38	"."	5	16	"."	0	"RNY4P30,upstream_gene_variant,,ENST00000410216,;CTAGE10P,non_coding_transcript_exon_variant,,ENST00000318353,;"	"-"	"ENSG00000222148"	"ENST00000410216"	"Transcript"	"upstream_gene_variant"	"-/95"	""	""	""	""	"rs375406271"	"1"	"3175"	-1	"RNY4P30"	"HGNC"	42498	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	"0.1504"	"0.1654"	"0.2737"	"0.3399"	"0.1058"	"0.1142"	"0.1383"	"0.1449"	NA	"common_variant"	"CCTA"	"3741f5a0-2764-11e6-a7f0-9277424a729f"	"165"	0.1571	"15770/100378"	"15952/106046"	"1285/7770"	"3007/10986"	"2607/7670"	"696/6578"	"5894/51604"	"91/658"	"2190/15112"	"VQSRTrancheINDEL99.00to99.50"	"FALSE"	0.131578947368421	"WXS"	FALSE
"780"	"DLEU1"	10301	"mskcc.org"	"GRCh37"	"13"	50950420	50950429	"+"	"Intron"	"DEL"	"TTTCTTTTCT"	"TTTCTTTTCT"	"-"	"rs139892797"	NA	"JHCCPT1"	"JHCCPN1"	"TTTCTTTTCT"	"TTTCTTTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1638-57111_1638-57102delCTTTTCTTTT"	""	""	"ENST00000490577"	""	12	"."	4	2	"."	0	"DLEU1,intron_variant,,ENST00000490577,;DLEU1,intron_variant,,ENST00000467721,;DLEU1,intron_variant,,ENST00000491615,;DLEU1,intron_variant,,ENST00000468522,;DLEU1,intron_variant,,ENST00000491341,;DLEU1,intron_variant,,ENST00000463474,;DLEU1,intron_variant,,ENST00000468168,;DLEU1,intron_variant,,ENST00000461527,;DLEU1,intron_variant,,ENST00000476738,;DLEU1,intron_variant,,ENST00000489542,;DLEU1,intron_variant,,ENST00000485007,;DLEU1,intron_variant,,ENST00000475913,;DLEU1,intron_variant,,ENST00000486895,;DLEU1,intron_variant,,ENST00000484529,;DLEU1,intron_variant,,ENST00000483444,;DLEU1,intron_variant,,ENST00000469127,;DLEU1,intron_variant,,ENST00000463357,;"	"-"	"ENSG00000176124"	"ENST00000490577"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2440"	""	""	""	""	"rs139892797"	"1"	NA	1	"DLEU1"	"HGNC"	13747	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"2/5"	""	"TTTCTTTTCT:0.0126"	"-:0.9546"	"-:0.9971"	NA	"-:1"	"-:0.999"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"18"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTCTTTTCTT"	"3751a810-2764-11e6-a7f0-9277424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"781"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	56083416	56083417	"+"	"IGR"	"INS"	"-"	"-"	"AG"	"rs144757321"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	30	"."	6	4	"."	0	""	"AG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144757321"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"45b54862-2764-11e6-a7f0-9277424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"782"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	56358056	56358057	"+"	"IGR"	"INS"	"-"	"-"	"TTCCTTCC"	"rs143638910"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"TTCCTTCC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143638910"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"45b6bd3c-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"783"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	62099660	62099661	"+"	"IGR"	"INS"	"-"	"-"	"AAC"	"rs4052421"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"AAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs4052421"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AAC:0.3970"	"AAC:0.6619"	"AAC:0.4063"	NA	"AAC:0.1419"	"AAC:0.3807"	"AAC:0.3119"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"460912d0-2764-11e6-a7f0-9277424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"784"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	66566668	66566669	"+"	"IGR"	"INS"	"-"	"-"	"ATA"	"rs112548852"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	4	"."	0	""	"ATA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112548852"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"ATA:0.2196"	"ATA:0.2587"	"ATA:0.1124"	NA	"ATA:0.3135"	"ATA:0.168"	"ATA:0.1994"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"461c5778-2764-11e6-a7f0-9277424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"785"	"LINC00348"	100885781	"mskcc.org"	"GRCh37"	"13"	71641036	71641036	"+"	"Intron"	"DEL"	"T"	"-"	"-"	"rs34221741"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.108+51659delT"	""	""	"ENST00000428761"	""	10	"."	7	3	"."	0	"LINC00348,intron_variant,,ENST00000428761,;"	"-"	"ENSG00000226846"	"ENST00000428761"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/948"	""	""	""	""	"rs34221741"	"1"	NA	1	"LINC00348"	"HGNC"	42658	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"-:0.3223"	"-:0.208"	"-:0.4553"	NA	"-:0.1915"	"-:0.3519"	"-:0.4867"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"38de0d36-2764-11e6-a7f0-9277424a729f"	"392"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"786"	"TBC1D4"	9882	"mskcc.org"	"GRCh37"	"13"	75934237	75934238	"+"	"Intron"	"INS"	"-"	"ACAA"	"ACAA"	"rs35494328"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1081-247_1081-244dupTTGT"	""	""	"ENST00000377636"	""	8	"."	6	1	"."	0	"TBC1D4,intron_variant,,ENST00000377636,NM_014832.2;TBC1D4,intron_variant,,ENST00000431480,NM_001286658.1;TBC1D4,intron_variant,,ENST00000425511,;TBC1D4,intron_variant,,ENST00000377625,NM_001286659.1;"	"ACAA"	"ENSG00000136111"	"ENST00000377636"	"Transcript"	"intron_variant"	"-/6364"	"-/3897"	"-/1298"	""	""	"rs35494328"	"1"	NA	-1	"TBC1D4"	"HGNC"	19165	"protein_coding"	"YES"	"CCDS41901.1"	"ENSP00000366863"	"O60343"	""	"UPI00001AE7B3"	"NM_014832.2"	NA	NA	""	"2/20"	""	"-:0.2518"	"ACAA:0.5734"	"ACAA:0.7795"	NA	"ACAA:0.8522"	"ACAA:0.7346"	"ACAA:0.8691"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"46a1bc74-2764-11e6-a7f0-9277424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"787"	"SCEL"	8796	"mskcc.org"	"GRCh37"	"13"	78133646	78133650	"+"	"Intron"	"DEL"	"AACAC"	"AACAC"	"-"	"rs371678998"	NA	"JHCCPT1"	"JHCCPN1"	"AACAC"	"AACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.162-258_162-254delAACAC"	""	""	"ENST00000349847"	""	20	"."	5	7	"."	0	"SCEL,intron_variant,,ENST00000535157,NM_001160706.1;SCEL,intron_variant,,ENST00000377246,NM_003843.3;SCEL,intron_variant,,ENST00000349847,NM_144777.2;SCEL,intron_variant,,ENST00000471491,;"	"-"	"ENSG00000136155"	"ENST00000349847"	"Transcript"	"intron_variant"	"-/2386"	"-/2067"	"-/688"	""	""	"rs371678998"	"1"	NA	1	"SCEL"	"HGNC"	10573	"protein_coding"	"YES"	"CCDS9459.1"	"ENSP00000302579"	"O95171"	""	"UPI000013CFF1"	"NM_144777.2"	NA	NA	""	"3/32"	""	"-:0.1549"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"35"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAACACA"	"3a2f59a6-2764-11e6-a7f0-9277424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"788"	"RNF219-AS1"	100874222	"mskcc.org"	"GRCh37"	"13"	78998295	78998296	"+"	"Intron"	"INS"	"-"	"-"	"AGGA"	"rs5804981"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.315+149837_315+149840dupGGAA"	""	""	"ENST00000607862"	""	13	"."	6	2	"."	0	"RNF219-AS1,intron_variant,,ENST00000607862,;RNF219-AS1,intron_variant,,ENST00000606429,;RNF219-AS1,intron_variant,,ENST00000605996,;RNF219-AS1,intron_variant,,ENST00000444769,;RNF219-AS1,intron_variant,,ENST00000560209,;RNF219-AS1,intron_variant,,ENST00000607860,;RNF219-AS1,intron_variant,,ENST00000607205,;RNF219-AS1,intron_variant,,ENST00000606124,;RNF219-AS1,intron_variant,,ENST00000606376,;RNF219-AS1,intron_variant,,ENST00000606803,;RNF219-AS1,intron_variant,,ENST00000607220,;RNF219-AS1,intron_variant,,ENST00000430549,;RPL31P54,downstream_gene_variant,,ENST00000429803,;"	"AGGA"	"ENSG00000234377"	"ENST00000607862"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/6001"	""	""	""	""	"rs5804981"	"1"	NA	1	"RNF219-AS1"	"HGNC"	42700	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	"-:0.0216"	"AGGA:0.9387"	"AGGA:1"	NA	"AGGA:0.999"	"AGGA:0.992"	"AGGA:0.9816"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"17"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"46f76156-2764-11e6-a7f0-9277424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"789"	"NDFIP2"	54602	"mskcc.org"	"GRCh37"	"13"	80112115	80112116	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs150880081"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.622-1701dupA"	""	""	"ENST00000218652"	""	7	"."	4	3	"."	0	"NDFIP2,intron_variant,,ENST00000218652,NM_001161407.1,NM_019080.2;NDFIP2,intron_variant,,ENST00000487865,;NDFIP2,intron_variant,,ENST00000465762,;"	"A"	"ENSG00000102471"	"ENST00000218652"	"Transcript"	"intron_variant"	"-/4625"	"-/1011"	"-/336"	""	""	"rs150880081"	"1"	NA	1	"NDFIP2"	"HGNC"	18537	"protein_coding"	"YES"	"CCDS31998.1"	"ENSP00000218652"	"Q9NV92"	""	"UPI000015F962"	"NM_001161407.1,NM_019080.2"	NA	NA	""	"3/7"	""	"A:0.2694"	"A:0.0234"	"A:0.2781"	NA	"A:0.2897"	"A:0.4115"	"A:0.4284"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"47185ad2-2764-11e6-a7f0-9277424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"790"	"ENSR00001642282"	0	"mskcc.org"	"GRCh37"	"13"	80507770	80507771	"+"	"IGR"	"INS"	"-"	"ACTC"	"ACTC"	"rs3065534"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001642282"	""	6	"."	6	1	"."	0	""	"ACTC"	""	"ENSR00001642282"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs3065534"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0883"	"ACTC:0.6815"	"ACTC:0.9741"	NA	"ACTC:0.999"	"ACTC:0.999"	"ACTC:0.999"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"471a8ac8-2764-11e6-a7f0-9277424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"791"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	83541269	83541270	"+"	"IGR"	"INS"	"-"	"-"	"AGGA"	"rs34028905"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	5	4	"."	0	""	"AGGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34028905"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2971"	"AGGA:0.854"	"AGGA:0.5461"	NA	"AGGA:0.7857"	"AGGA:0.5746"	"AGGA:0.6564"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"472e6c28-2764-11e6-a7f0-9277424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"792"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	85317572	85317573	"+"	"IGR"	"INS"	"-"	"-"	"AG"	"rs139343804"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	5	"."	0	""	"AG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139343804"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3920"	"AG:0.6006"	"AG:0.6715"	NA	"AG:0.3919"	"AG:0.8171"	"AG:0.5808"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"47379b36-2764-11e6-a7f0-9277424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"793"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	87458240	87458243	"+"	"IGR"	"DEL"	"TCCA"	"TCCA"	"-"	"rs146965846"	NA	"JHCCPT1"	"JHCCPN1"	"TCCA"	"TCCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs146965846"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0186"	"-:0.0008"	"-:0.0389"	NA	"-:0"	"-:0.0567"	"-:0.0082"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTCCAT"	"3afcabc2-2764-11e6-a7f0-9277424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"794"	"GPC6"	10082	"mskcc.org"	"GRCh37"	"13"	94757602	94757615	"+"	"Intron"	"DEL"	"ATAGAGCAAAATAT"	"ATAGAGCAAAATAT"	"GAC"	"rs386773487"	NA	"JHCCPT1"	"JHCCPN1"	"ATAGAGCAAAATAT"	"ATAGAGCAAAATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.877+77454_877+77467delATAGAGCAAAATATinsGAC"	""	""	"ENST00000377047"	""	7	"."	4	1	"."	0	"GPC6,intron_variant,,ENST00000377047,NM_005708.3;"	"GAC"	"ENSG00000183098"	"ENST00000377047"	"Transcript"	"intron_variant"	"-/6467"	"-/1668"	"-/555"	""	""	"rs386773487"	"1"	NA	1	"GPC6"	"HGNC"	4454	"protein_coding"	"YES"	"CCDS9469.1"	"ENSP00000366246"	"Q9Y625"	""	"UPI0000032F5B"	"NM_005708.3"	NA	NA	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAATAGAGCAAAATATC"	"402769d4-2764-11e6-a7f0-9277424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"795"	"GPC6"	10082	"mskcc.org"	"GRCh37"	"13"	95055795	95055796	"+"	"3'UTR"	"INS"	"-"	"-"	"T"	"rs35614368"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*334dupT"	""	""	"ENST00000377047"	"9/9"	12	"."	5	12	"."	0	"GPC6,3_prime_UTR_variant,,ENST00000377047,NM_005708.3;"	"T"	"ENSG00000183098"	"ENST00000377047"	"Transcript"	"3_prime_UTR_variant"	"2607-2608/6467"	"-/1668"	"-/555"	""	""	"rs35614368"	"1"	NA	1	"GPC6"	"HGNC"	4454	"protein_coding"	"YES"	"CCDS9469.1"	"ENSP00000366246"	"Q9Y625"	""	"UPI0000032F5B"	"NM_005708.3"	NA	NA	"9/9"	""	""	"T:0.4605"	"T:0.3434"	"T:0.415"	NA	"T:0.7202"	"T:0.3221"	"T:0.5256"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"4782a4dc-2764-11e6-a7f0-9277424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"796"	"ABCC4"	10257	"mskcc.org"	"GRCh37"	"13"	95715150	95715152	"+"	"Intron"	"DEL"	"AAG"	"AAG"	"-"	"rs541375934"	NA	"JHCCPT1"	"JHCCPN1"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3211-39_3211-37delCTT"	""	""	"ENST00000376887"	""	161	"."	7	74	"."	0	"ABCC4,intron_variant,,ENST00000376887,NM_005845.3;ABCC4,intron_variant,,ENST00000412704,;"	"-"	"ENSG00000125257"	"ENST00000376887"	"Transcript"	"intron_variant"	"-/5837"	"-/3978"	"-/1325"	""	""	"rs541375934"	"1"	NA	-1	"ABCC4"	"HGNC"	55	"protein_coding"	"YES"	"CCDS9474.1"	"ENSP00000366084"	"O15439"	"Q8IUA3"	"UPI00001A36E6"	"NM_005845.3"	NA	NA	""	"25/30"	""	"-:0.0164"	"-:0.0091"	"-:0.0173"	NA	"-:0.0149"	"-:0.0169"	"-:0.0266"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.3072"	"0.2436"	"0.2339"	"0.3321"	"0.3229"	"0.3604"	"0.31"	"0.4432"	NA	"common_variant"	"AAAAGA"	"3b93d1aa-2764-11e6-a7f0-9277424a729f"	"420"	0.3445	"5869/17038"	"8100/26364"	"382/1568"	"335/1432"	"538/1620"	"485/1502"	"3029/8404"	"31/100"	"1069/2412"	"InbreedingCoeff_Filter"	"FALSE"	0.0434782608695652	"WXS"	FALSE
"797"	"ABCC4"	10257	"mskcc.org"	"GRCh37"	"13"	95877404	95877423	"+"	"Intron"	"DEL"	"CTCTCACACACACACACACA"	"CTCTCACACACACACACACA"	"-"	"rs149823350"	NA	"JHCCPT1"	"JHCCPN1"	"CTCTCACACACACACACACA"	"CTCTCACACACACACACACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.531+9441_531+9460delTGTGTGTGTGTGTGTGAGAG"	""	""	"ENST00000376887"	""	15	"."	5	2	"."	0	"ABCC4,intron_variant,,ENST00000376887,NM_005845.3;ABCC4,intron_variant,,ENST00000412704,;ABCC4,intron_variant,,ENST00000431522,NM_001105515.1;ABCC4,intron_variant,,ENST00000536256,;ABCC4,intron_variant,,ENST00000538287,;"	"-"	"ENSG00000125257"	"ENST00000376887"	"Transcript"	"intron_variant"	"-/5837"	"-/3978"	"-/1325"	""	""	"rs149823350"	"1"	NA	-1	"ABCC4"	"HGNC"	55	"protein_coding"	"YES"	"CCDS9474.1"	"ENSP00000366084"	"O15439"	"Q8IUA3"	"UPI00001A36E6"	"NM_005845.3"	NA	NA	""	"4/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCTCTCACACACACACACACAC"	"3b9db92c-2764-11e6-a7f0-9277424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"798"	"ABCC4"	10257	"mskcc.org"	"GRCh37"	"13"	95900172	95900173	"+"	"Intron"	"INS"	"-"	"-"	"CACACACACACACACA"	"rs145006616"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.75-181_75-166dupTGTGTGTGTGTGTGTG"	""	""	"ENST00000376887"	""	38	"."	3	25	"."	0	"ABCC4,intron_variant,,ENST00000376887,NM_005845.3;ABCC4,intron_variant,,ENST00000412704,;ABCC4,intron_variant,,ENST00000431522,NM_001105515.1;ABCC4,intron_variant,,ENST00000536256,;ABCC4,intron_variant,,ENST00000538287,;"	"CACACACACACACACA"	"ENSG00000125257"	"ENST00000376887"	"Transcript"	"intron_variant"	"-/5837"	"-/3978"	"-/1325"	""	""	"rs145006616"	"1"	NA	-1	"ABCC4"	"HGNC"	55	"protein_coding"	"YES"	"CCDS9474.1"	"ENSP00000366084"	"O15439"	"Q8IUA3"	"UPI00001A36E6"	"NM_005845.3"	NA	NA	""	"1/30"	""	"CACACACACACACACA:0.4679"	"CACACACACACACACA:0.6089"	"CACACACACACACACA:0.4078"	NA	"CACACACACACACACA:0.4395"	"CACACACACACACACA:0.4115"	"CACACACACACACACA:0.407"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"479fff00-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WXS"	FALSE
"799"	"HS6ST3"	266722	"mskcc.org"	"GRCh37"	"13"	97343878	97343882	"+"	"Intron"	"DEL"	"CTTCC"	"CTTCC"	"-"	"rs71658960"	NA	"JHCCPT1"	"JHCCPN1"	"CTTCC"	"CTTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.708-140846_708-140842delCTTCC"	""	""	"ENST00000376705"	""	10	"."	3	3	"."	0	"HS6ST3,intron_variant,,ENST00000376705,NM_153456.3;"	"-"	"ENSG00000185352"	"ENST00000376705"	"Transcript"	"intron_variant"	"-/1659"	"-/1416"	"-/471"	""	""	"rs71658960"	"1"	NA	1	"HS6ST3"	"HGNC"	19134	"protein_coding"	"YES"	"CCDS9481.1"	"ENSP00000365895"	"Q8IZP7"	"B3KX95"	"UPI00001AF933"	"NM_153456.3"	NA	NA	""	"1/1"	""	"CTTCC:0.0084"	"-:0.9713"	"-:0.9942"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"20"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTTCCC"	"3bc5dc54-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"800"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	98202482	98202483	"+"	"IGR"	"INS"	"-"	"-"	"AG"	"rs10664202"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	6	2	"."	0	""	"AG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10664202"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0783"	"AG:0.7405"	"AG:0.9683"	NA	"AG:0.995"	"AG:0.9891"	"AG:0.9888"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"47bc2090-2764-11e6-a7f0-9277424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"801"	"IPO5"	3843	"mskcc.org"	"GRCh37"	"13"	98669495	98669496	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs140562728"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2670+405_2670+406dupAT"	""	""	"ENST00000261574"	""	7	"."	3	1	"."	0	"IPO5,intron_variant,,ENST00000261574,NM_002271.4;IPO5,intron_variant,,ENST00000357602,;IPO5,intron_variant,,ENST00000469360,;IPO5,intron_variant,,ENST00000490680,;IPO5,intron_variant,,ENST00000539640,;IPO5,intron_variant,,ENST00000491555,;IPO5,upstream_gene_variant,,ENST00000493122,;IPO5,upstream_gene_variant,,ENST00000468620,;"	"AT"	"ENSG00000065150"	"ENST00000261574"	"Transcript"	"intron_variant"	"-/6003"	"-/3348"	"-/1115"	""	""	"rs140562728"	"1"	NA	1	"IPO5"	"HGNC"	6402	"protein_coding"	"YES"	"CCDS31999.1"	"ENSP00000261574"	"O00410"	"Q9BVS9,E7EX05,E7EWK4,E7ETV3,E7ESZ1,E7ESA1,C9JZD8,C9JZ53,C9JXE0,C9JQT6,C9J875,B3KWG6"	"UPI0000163C1C"	"NM_002271.4"	NA	NA	""	"25/28"	""	"ATAT:0.1072"	"ATAT:0.0287"	"ATAT:0.0173"	NA	"ATAT:0.2798"	"ATAT:0.0417"	"ATAT:0.1667"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"47c61672-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"802"	"FARP1"	10160	"mskcc.org"	"GRCh37"	"13"	99096115	99096116	"+"	"Intron"	"INS"	"-"	"-"	"GGGTGCAGACAGGACCAGGAGGAGGGAACGGACAGTGGGGCAGGGGAGGGAAAGGACA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2797-2221_2797-2220insAGGAGGAGGGAACGGACAGTGGGGCAGGGGAGGGAAAGGACAGGGTGCAGACAGGACC"	""	""	"ENST00000319562"	""	30	"."	8	10	"."	0	"FARP1,intron_variant,,ENST00000376586,;FARP1,intron_variant,,ENST00000595437,NM_001286839.1;FARP1,intron_variant,,ENST00000319562,NM_005766.2;FARP1,downstream_gene_variant,,ENST00000596256,;FARP1,upstream_gene_variant,,ENST00000594346,;"	"GGGTGCAGACAGGACCAGGAGGAGGGAACGGACAGTGGGGCAGGGGAGGGAAAGGACA"	"ENSG00000152767"	"ENST00000319562"	"Transcript"	"intron_variant"	"-/4855"	"-/3138"	"-/1045"	""	""	""	"1"	NA	1	"FARP1"	"HGNC"	3591	"protein_coding"	"YES"	"CCDS9487.1"	"ENSP00000322926"	"Q9Y4F1"	"M0QYB0"	"UPI000007052C"	"NM_005766.2"	NA	NA	""	"24/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"47e24ab8-2764-11e6-a7f0-9277424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"803"	"DOCK9"	23348	"mskcc.org"	"GRCh37"	"13"	99477981	99477982	"+"	"Intron"	"INS"	"-"	"-"	"ACC"	"rs138712151"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5023+142_5023+144dupGGT"	""	""	"ENST00000376460"	""	10	"."	5	8	"."	0	"DOCK9,intron_variant,,ENST00000376460,NM_015296.2,NM_001130048.1;DOCK9,intron_variant,,ENST00000339416,;DOCK9,intron_variant,,ENST00000448493,;DOCK9,intron_variant,,ENST00000400228,;DOCK9,intron_variant,,ENST00000340449,;DOCK9,intron_variant,,ENST00000419908,;DOCK9,intron_variant,,ENST00000451563,;DOCK9,intron_variant,,ENST00000481051,;"	"ACC"	"ENSG00000088387"	"ENST00000376460"	"Transcript"	"intron_variant"	"-/7549"	"-/6207"	"-/2068"	""	""	"rs138712151"	"1"	NA	-1	"DOCK9"	"HGNC"	14132	"protein_coding"	"YES"	"CCDS45062.1"	"ENSP00000365643"	"Q9BZ29"	""	"UPI000046FD7F"	"NM_015296.2,NM_001130048.1"	NA	NA	""	"45/56"	""	"ACC:0.3778"	"ACC:0.1188"	"ACC:0.3184"	NA	"ACC:0.6776"	"ACC:0.4414"	"ACC:0.3957"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"47ed78f2-2764-11e6-a7f0-9277424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"804"	"PCCA"	5095	"mskcc.org"	"GRCh37"	"13"	100932558	100932559	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11439835"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1065+6968dupT"	""	""	"ENST00000376285"	""	6	"."	4	3	"."	0	"PCCA,intron_variant,,ENST00000376285,NM_000282.3;PCCA,intron_variant,,ENST00000376286,NM_001127692.2;PCCA,intron_variant,,ENST00000376279,NM_001178004.1;"	"T"	"ENSG00000175198"	"ENST00000376285"	"Transcript"	"intron_variant"	"-/2491"	"-/2187"	"-/728"	""	""	"rs11439835"	"1"	NA	1	"PCCA"	"HGNC"	8653	"protein_coding"	"YES"	"CCDS9496.2"	"ENSP00000365462"	"P05165"	""	"UPI0000070089"	"NM_000282.3"	NA	NA	""	"12/23"	""	"-:0.2093"	"T:0.5265"	"T:0.8718"	NA	"T:0.9048"	"T:0.9076"	"T:0.8528"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"483f0eec-2764-11e6-a7f0-9277424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"805"	"TMTC4"	84899	"mskcc.org"	"GRCh37"	"13"	101276598	101276608	"+"	"Intron"	"DEL"	"AAAAAAAAAAT"	"AAAAAAAAAAT"	"-"	"rs202200823"	NA	"JHCCPT1"	"JHCCPN1"	"AAAAAAAAAAT"	"AAAAAAAAAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1836+1181_1836+1191delATTTTTTTTTT"	""	""	"ENST00000342624"	""	19	"."	8	3	"."	0	"TMTC4,intron_variant,,ENST00000342624,NM_032813.2;TMTC4,intron_variant,,ENST00000376234,NM_001079669.1;TMTC4,intron_variant,,ENST00000328767,NM_001286453.1;TMTC4,downstream_gene_variant,,ENST00000462211,;TMTC4,downstream_gene_variant,,ENST00000478272,;TMTC4,downstream_gene_variant,,ENST00000489713,;COX5BP6,intron_variant,,ENST00000454311,;"	"-"	"ENSG00000125247"	"ENST00000342624"	"Transcript"	"intron_variant"	"-/3602"	"-/2283"	"-/760"	""	""	"rs202200823"	"1"	NA	-1	"TMTC4"	"HGNC"	25904	"protein_coding"	"YES"	"CCDS9497.2"	"ENSP00000343871"	"Q5T4D3"	"C9K0R2"	"UPI000004B63E"	"NM_032813.2"	NA	NA	""	"15/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAAAAAAATA"	"3d040096-2764-11e6-a7f0-9277424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.421052631578947	"WXS"	FALSE
"806"	"NALCN"	259232	"mskcc.org"	"GRCh37"	"13"	102028868	102028872	"+"	"Intron"	"DEL"	"AAAAT"	"AAAAT"	"-"	"rs149479126"	NA	"JHCCPT1"	"JHCCPN1"	"AAAAT"	"AAAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.644+179_644+183delATTTT"	""	""	"ENST00000251127"	""	16	"."	4	6	"."	0	"NALCN,intron_variant,,ENST00000251127,NM_052867.2;NALCN,intron_variant,,ENST00000376196,;NALCN,intron_variant,,ENST00000376200,;NALCN,intron_variant,,ENST00000470333,;NALCN,intron_variant,,ENST00000497170,;"	"-"	"ENSG00000102452"	"ENST00000251127"	"Transcript"	"intron_variant"	"-/6816"	"-/5217"	"-/1738"	""	""	"rs149479126"	"1"	NA	-1	"NALCN"	"HGNC"	19082	"protein_coding"	"YES"	"CCDS9498.1"	"ENSP00000251127"	"Q8IZF0"	"B3KX53,B3KMK1"	"UPI000004EBBD"	"NM_052867.2"	NA	NA	""	"6/43"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAAAAATA"	"3d40eac4-2764-11e6-a7f0-9277424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"807"	"BIVM"	54841	"mskcc.org"	"GRCh37"	"13"	103452916	103452917	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"rs10617400"	NA	"JHCCPT1"	"JHCCPN1"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-207+1046_-207+1047delCT"	""	""	"ENST00000257336"	""	9	"."	4	2	"."	0	"BIVM,intron_variant,,ENST00000257336,NM_017693.3;BIVM,intron_variant,,ENST00000448849,NM_001159596.1;BIVM,intron_variant,,ENST00000419638,;KDELC1,upstream_gene_variant,,ENST00000376004,NM_024089.2;BIVM,non_coding_transcript_exon_variant,,ENST00000491929,;KDELC1,upstream_gene_variant,,ENST00000460338,;BIVM,upstream_gene_variant,,ENST00000481069,;"	"-"	"ENSG00000134897"	"ENST00000257336"	"Transcript"	"intron_variant"	"-/3857"	"-/1512"	"-/503"	""	""	"rs10617400"	"1"	NA	1	"BIVM"	"HGNC"	16034	"protein_coding"	"YES"	"CCDS9505.1"	"ENSP00000257336"	"Q86UB2"	""	"UPI000011BE25"	"NM_017693.3"	NA	NA	""	"1/10"	""	"-:0.2804"	"-:0.3986"	"-:0.2363"	NA	"-:0.373"	"-:0.1789"	"-:0.1605"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTCT"	"3da637a8-2764-11e6-a7f0-9277424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"808"	"ARGLU1"	55082	"mskcc.org"	"GRCh37"	"13"	107219670	107219671	"+"	"Intron"	"INS"	"-"	"-"	"TTAT"	"rs3832891"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.347+250_347+251insATAA"	""	""	"ENST00000400198"	""	14	"."	3	7	"."	0	"ARGLU1,intron_variant,,ENST00000400198,NM_018011.3;ARGLU1,intron_variant,,ENST00000360629,;"	"TTAT"	"ENSG00000134884"	"ENST00000400198"	"Transcript"	"intron_variant"	"-/3390"	"-/822"	"-/273"	""	""	"rs3832891"	"1"	NA	-1	"ARGLU1"	"HGNC"	25482	"protein_coding"	"YES"	"CCDS41906.1"	"ENSP00000383059"	"Q9NWB6"	""	"UPI00000373ED"	"NM_018011.3"	NA	NA	""	"1/3"	""	"-:0.2522"	"TTAT:0.767"	"TTAT:0.7824"	NA	"TTAT:0.8393"	"TTAT:0.6282"	"TTAT:0.726"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"48f4c7f0-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"809"	"FAM155A"	728215	"mskcc.org"	"GRCh37"	"13"	108231934	108231935	"+"	"Intron"	"INS"	"-"	"-"	"TTTCT"	"rs113622994"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.915+286091_915+286095dupAGAAA"	""	""	"ENST00000375915"	""	8	"."	5	2	"."	0	"FAM155A,intron_variant,,ENST00000375915,NM_001080396.2;"	"TTTCT"	"ENSG00000204442"	"ENST00000375915"	"Transcript"	"intron_variant"	"-/3478"	"-/1377"	"-/458"	""	""	"rs113622994"	"1"	NA	-1	"FAM155A"	"HGNC"	33877	"protein_coding"	"YES"	"CCDS32006.1"	"ENSP00000365080"	"B1AL88"	""	"UPI000045882C"	"NM_001080396.2"	NA	NA	""	"1/2"	""	"-:0.0188"	"TTTCT:0.9433"	"TTTCT:0.9885"	NA	"TTTCT:0.996"	"TTTCT:0.996"	"TTTCT:0.9969"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"48f93bbe-2764-11e6-a7f0-9277424a729f"	"250"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"810"	"MYO16"	23026	"mskcc.org"	"GRCh37"	"13"	109700502	109700509	"+"	"Intron"	"DEL"	"TGTGTGTG"	"TGTGTGTG"	"-"	"rs72524983"	NA	"JHCCPT1"	"JHCCPN1"	"TGTGTGTG"	"TGTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2806+1204_2806+1211delGTGTGTGT"	""	""	"ENST00000356711"	""	7	"."	3	2	"."	0	"MYO16,intron_variant,,ENST00000356711,NM_015011.1;MYO16,intron_variant,,ENST00000357550,NM_001198950.1;MYO16,intron_variant,,ENST00000251041,;MYO16,intron_variant,,ENST00000457511,;MYO16,intron_variant,,ENST00000375857,;"	"-"	"ENSG00000041515"	"ENST00000356711"	"Transcript"	"intron_variant"	"-/6874"	"-/5577"	"-/1858"	""	""	"rs72524983"	"1"	NA	1	"MYO16"	"HGNC"	29822	"protein_coding"	"YES"	"CCDS32008.1"	"ENSP00000349145"	"Q9Y6X6"	""	"UPI0000160FF2"	"NM_015011.1"	NA	NA	""	"24/34"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"41"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATGTGTGTGT"	"3e2c0c5c-2764-11e6-a7f0-9277424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"811"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	110499123	110499124	"+"	"IGR"	"INS"	"-"	"A"	"A"	"rs34338249"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	7	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34338249"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"492831b2-2764-11e6-a7f0-9277424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	FALSE
"812"	"RAB20"	55647	"mskcc.org"	"GRCh37"	"13"	111216844	111216845	"+"	"5'Flank"	"INS"	"-"	"-"	"CA"	"rs111949680"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000267328"	""	9	"."	5	1	"."	0	"RAB20,upstream_gene_variant,,ENST00000267328,NM_017817.1;"	"CA"	"ENSG00000139832"	"ENST00000267328"	"Transcript"	"upstream_gene_variant"	"-/1514"	"-/705"	"-/234"	""	""	"rs111949680"	"1"	"2764"	-1	"RAB20"	"HGNC"	18260	"protein_coding"	"YES"	"CCDS9512.1"	"ENSP00000267328"	"Q9NX57"	""	"UPI0000001299"	"NM_017817.1"	NA	NA	""	""	""	"-:0.3413"	"CA:0.5651"	"CA:0.6427"	NA	"CA:0.7183"	"CA:0.7425"	"CA:0.6493"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"497a600e-2764-11e6-a7f0-9277424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"813"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	111484678	111484678	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs11343108"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11343108"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.0669"	"-:0.7587"	"-:0.9813"	NA	"-:0.997"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGG"	"3eb09102-2764-11e6-a7f0-9277424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"814"	"LINC01070"	101928698	"mskcc.org"	"GRCh37"	"13"	112849952	112849953	"+"	"5'Flank"	"INS"	"-"	"-"	"CCTTCCTT"	"rs527953326"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000561786"	""	28	"."	6	10	"."	0	"LINC01070,upstream_gene_variant,,ENST00000561786,;"	"CCTTCCTT"	"ENSG00000260102"	"ENST00000561786"	"Transcript"	"upstream_gene_variant"	"-/2829"	""	""	""	""	"rs527953326"	"1"	"1711"	1	"LINC01070"	"HGNC"	49110	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"CCTT:0.2606"	"CCTTCCTT:0.2201"	"CCTTCCTT:0.3012"	NA	"CCTTCCTT:0.499"	"CCTTCCTT:0.3012"	"CCTTCCTT:0.3446"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"49cd549e-2764-11e6-a7f0-9277424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"815"	"MCF2L"	23263	"mskcc.org"	"GRCh37"	"13"	113738638	113738639	"+"	"Intron"	"INS"	"-"	"-"	"ACCCCAGAACCTCCTGA"	"rs369857169"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2061+270_2061+286dupCCTGAACCCCAGAACCT"	""	""	"ENST00000535094"	""	20	"."	4	10	"."	0	"MCF2L,intron_variant,,ENST00000397030,;MCF2L,intron_variant,,ENST00000375601,;MCF2L,intron_variant,,ENST00000375604,;MCF2L,intron_variant,,ENST00000397017,;MCF2L,intron_variant,,ENST00000535094,NM_001112732.2;MCF2L,intron_variant,,ENST00000375608,;MCF2L,intron_variant,,ENST00000423482,NM_024979.4;MCF2L,intron_variant,,ENST00000434480,;MCF2L,intron_variant,,ENST00000421756,;MCF2L,intron_variant,,ENST00000442652,;MCF2L,intron_variant,,ENST00000375597,;MCF2L,upstream_gene_variant,,ENST00000261963,;MCF2L,upstream_gene_variant,,ENST00000453297,;MCF2L,upstream_gene_variant,,ENST00000413354,;MCF2L,upstream_gene_variant,,ENST00000439475,;MCF2L,upstream_gene_variant,,ENST00000487354,;"	"ACCCCAGAACCTCCTGA"	"ENSG00000126217"	"ENST00000535094"	"Transcript"	"intron_variant"	"-/3752"	"-/3378"	"-/1125"	""	""	"rs369857169"	"1"	NA	1	"MCF2L"	"HGNC"	14576	"protein_coding"	"YES"	"CCDS45070.2"	"ENSP00000440374"	"O15068"	"B7ZBR9,B7Z9K4"	"UPI0001CE935F"	"NM_001112732.2"	NA	NA	""	"18/29"	""	"-:0.4800"	"ACCCCAGAACCTCCTGA:0.4107"	"ACCCCAGAACCTCCTGA:0.5317"	NA	"ACCCCAGAACCTCCTGA:0.4831"	"ACCCCAGAACCTCCTGA:0.6362"	"ACCCCAGAACCTCCTGA:0.5777"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"29"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"49f58d10-2764-11e6-a7f0-9277424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"816"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	114065028	114065029	"+"	"IGR"	"DEL"	"CA"	"CA"	"-"	"rs10571731"	NA	"JHCCPT1"	"JHCCPN1"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	6	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10571731"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2630"	"-:0.5469"	"-:0.2147"	NA	"-:0.0268"	"-:0.2505"	"-:0.1697"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCAG"	"3f3f51e4-2764-11e6-a7f0-9277424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"817"	"GRK1"	6011	"mskcc.org"	"GRCh37"	"13"	114440888	114440891	"+"	"3'Flank"	"DEL"	"TCCT"	"TCCT"	"-"	"rs36177381"	NA	"JHCCPT1"	"JHCCPN1"	"TCCT"	"TCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000335678"	""	13	"."	4	9	"."	0	"GRK1,downstream_gene_variant,,ENST00000335678,NM_002929.2;GRK1,downstream_gene_variant,,ENST00000545304,;GRK1,downstream_gene_variant,,ENST00000606140,;"	"-"	"ENSG00000185974"	"ENST00000335678"	"Transcript"	"downstream_gene_variant"	"-/4296"	"-/1692"	"-/563"	""	""	"rs36177381"	"1"	"180"	1	"GRK1"	"HGNC"	10013	"protein_coding"	"YES"	""	"ENSP00000334876"	"Q15835"	"Q71VB6"	"UPI0000133B08"	"NM_002929.2"	NA	NA	""	""	""	"-:0.1901"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTCCTT"	"3f63b386-2764-11e6-a7f0-9277424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"818"	"GAS6"	2621	"mskcc.org"	"GRCh37"	"13"	114525675	114525676	"+"	"Intron"	"INS"	"-"	"-"	"CA"	"rs59614507"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1654-517_1654-516insTG"	""	""	"ENST00000327773"	""	14	"."	6	5	"."	0	"GAS6,intron_variant,,ENST00000357389,;GAS6,intron_variant,,ENST00000418959,NM_001143946.1;GAS6,intron_variant,,ENST00000327773,NM_000820.2;GAS6,intron_variant,,ENST00000355761,;GAS6,intron_variant,,ENST00000450766,NM_001143945.1;GAS6-AS1,intron_variant,,ENST00000458001,;GAS6,non_coding_transcript_exon_variant,,ENST00000608763,;GAS6,intron_variant,,ENST00000480426,;GAS6,intron_variant,,ENST00000610073,;"	"CA"	"ENSG00000183087"	"ENST00000327773"	"Transcript"	"intron_variant"	"-/2490"	"-/2037"	"-/678"	""	""	"rs59614507"	"1"	NA	-1	"GAS6"	"HGNC"	4168	"protein_coding"	"YES"	"CCDS45072.1"	"ENSP00000331831"	"Q14393"	"B4DZY7"	"UPI0000073CCA"	"NM_000820.2"	NA	NA	""	"13/14"	""	"-:0.3914"	"CA:0.8903"	"CA:0.5778"	NA	"CA:0.4167"	"CA:0.4354"	"CA:0.6258"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"4a349b72-2764-11e6-a7f0-9277424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"819"	"RASA3"	22821	"mskcc.org"	"GRCh37"	"13"	114871127	114871127	"+"	"Intron"	"DEL"	"T"	"-"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55+26783delA"	""	""	"ENST00000334062"	""	8	"."	6	1	"."	0	"RASA3,intron_variant,,ENST00000334062,NM_007368.2;RASA3,intron_variant,,ENST00000542651,;RASA3-IT1,downstream_gene_variant,,ENST00000454005,;"	"-"	"ENSG00000185989"	"ENST00000334062"	"Transcript"	"intron_variant"	"-/4191"	"-/2505"	"-/834"	""	""	""	"1"	NA	-1	"RASA3"	"HGNC"	20331	"protein_coding"	"YES"	"CCDS32016.1"	"ENSP00000335029"	"Q14644"	"F8W6X8"	"UPI000000DBC1"	"NM_007368.2"	NA	NA	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTG"	"3f890852-2764-11e6-a7f0-9277424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"820"	"RP11-536C10.14"	0	"mskcc.org"	"GRCh37"	"14"	19422820	19422821	"+"	"RNA"	"INS"	"-"	"-"	"CCTCGCCGCGCTCC"	"rs763990283"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.358_371dupGCCGCGCTCCCCTC"	""	""	"ENST00000549567"	"1/1"	41	"."	8	7	"."	0	"RP11-536C10.14,non_coding_transcript_exon_variant,,ENST00000549567,;RP11-536C10.13,intron_variant,,ENST00000550518,;RP11-536C10.11,upstream_gene_variant,,ENST00000546860,;"	"CCTCGCCGCGCTCC"	"ENSG00000258076"	"ENST00000549567"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"353-354/513"	""	""	""	""	"rs763990283"	"1"	NA	1	"RP11-536C10.14"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"18"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"407ac912-2764-11e6-9fb9-9177424a729f"	"186"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195121951219512	"WXS"	FALSE
"821"	"RP11-597A11.6"	0	"mskcc.org"	"GRCh37"	"14"	20146528	20146529	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs60664680"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.226-389dupG"	""	""	"ENST00000555580"	""	10	"."	5	3	"."	0	"RP11-597A11.6,intron_variant,,ENST00000555580,;RP11-597A11.2,upstream_gene_variant,,ENST00000547175,;RP11-597A11.1,downstream_gene_variant,,ENST00000548261,;RP11-597A11.1,downstream_gene_variant,,ENST00000548217,;RP11-597A11.4,non_coding_transcript_exon_variant,,ENST00000547785,;RP11-536C10.20,intron_variant,,ENST00000548456,;"	"C"	"ENSG00000259069"	"ENST00000555580"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/563"	""	""	""	""	"rs60664680"	"1"	NA	-1	"RP11-597A11.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.1591"	"C:0.7436"	"C:0.9424"	NA	"C:0.8978"	"C:0.8936"	"C:0.7873"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"408f77f4-2764-11e6-9fb9-9177424a729f"	"275"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"822"	"OR4Q3"	441669	"mskcc.org"	"GRCh37"	"14"	20217964	20217965	"+"	"3'Flank"	"DEL"	"TC"	"TC"	"-"	"rs140815460"	NA	"JHCCPT1"	"JHCCPN1"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000331723"	""	10	"."	4	7	"."	0	"OR4N2,intron_variant,,ENST00000557414,;OR4Q3,downstream_gene_variant,,ENST00000331723,NM_172194.1;OR11K2P,intron_variant,,ENST00000593630,;"	"-"	"ENSG00000182652"	"ENST00000331723"	"Transcript"	"downstream_gene_variant"	"-/942"	"-/942"	"-/313"	""	""	"rs140815460"	"1"	"1436"	1	"OR4Q3"	"HGNC"	15426	"protein_coding"	"YES"	"CCDS32020.1"	"ENSP00000330049"	"Q8NH05"	""	"UPI0000061EF0"	"NM_172194.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCT"	"2eedb38a-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"823"	"OR11H6"	122748	"mskcc.org"	"GRCh37"	"14"	20693822	20693823	"+"	"3'Flank"	"INS"	"-"	"-"	"C"	"rs71108583"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000315519"	""	9	"."	4	1	"."	0	"OR11H6,downstream_gene_variant,,ENST00000315519,NM_001004480.1;OR11H7,upstream_gene_variant,,ENST00000553765,;"	"C"	"ENSG00000176219"	"ENST00000315519"	"Transcript"	"downstream_gene_variant"	"-/1174"	"-/993"	"-/330"	""	""	"rs71108583"	"1"	"858"	1	"OR11H6"	"HGNC"	15349	"protein_coding"	"YES"	"CCDS32033.1"	"ENSP00000319071"	"Q8NGC7"	""	"UPI000004B1F1"	"NM_001004480.1"	NA	NA	""	""	""	"C:0.3556"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"40bb2d36-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"824"	"METTL17"	64745	"mskcc.org"	"GRCh37"	"14"	21461635	21461636	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs563210158"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.602+295dupT"	""	""	"ENST00000382985"	""	26	"."	4	13	"."	0	"METTL17,intron_variant,,ENST00000339374,NM_001029991.1,NM_022734.2;METTL17,intron_variant,,ENST00000382985,;METTL17,intron_variant,,ENST00000556670,;METTL17,intron_variant,,ENST00000553564,;METTL17,intron_variant,,ENST00000555670,;METTL17,downstream_gene_variant,,ENST00000554283,;METTL17,downstream_gene_variant,,ENST00000554751,;METTL17,upstream_gene_variant,,ENST00000556733,;RP11-84C10.4,downstream_gene_variant,,ENST00000557335,;METTL17,intron_variant,,ENST00000554354,;METTL17,downstream_gene_variant,,ENST00000555177,;METTL17,3_prime_UTR_variant,,ENST00000555640,;METTL17,intron_variant,,ENST00000555533,;METTL17,intron_variant,,ENST00000557550,;METTL17,intron_variant,,ENST00000555902,;METTL17,downstream_gene_variant,,ENST00000554588,;METTL17,upstream_gene_variant,,ENST00000553389,;METTL17,upstream_gene_variant,,ENST00000554849,;METTL17,downstream_gene_variant,,ENST00000553536,;METTL17,downstream_gene_variant,,ENST00000557279,;METTL17,downstream_gene_variant,,ENST00000553441,;METTL17,downstream_gene_variant,,ENST00000554985,;METTL17,downstream_gene_variant,,ENST00000556442,;METTL17,downstream_gene_variant,,ENST00000554949,;METTL17,downstream_gene_variant,,ENST00000557701,;METTL17,downstream_gene_variant,,ENST00000555390,;"	"T"	"ENSG00000165792"	"ENST00000382985"	"Transcript"	"intron_variant"	"-/1586"	"-/1437"	"-/478"	""	""	"rs563210158"	"1"	NA	1	"METTL17"	"HGNC"	19280	"protein_coding"	"YES"	"CCDS41913.1"	"ENSP00000372445"	"Q9H7H0"	"G3V4P2,G3V3X6,G3V353"	"UPI00001410AF"	""	NA	NA	""	"6/12"	""	"T:0.2532"	"T:0.1233"	"T:0.3012"	NA	"T:0.2946"	"T:0.2614"	"T:0.3436"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"40e5dd56-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WXS"	FALSE
"825"	"TRAJ45"	0	"mskcc.org"	"GRCh37"	"14"	22965120	22965145	"+"	"3'Flank"	"DEL"	"CTGGCAATCTTAAGGATTAGGTCAAC"	"CTGGCAATCTTAAGGATTAGGTCAAC"	"TGGCAATCTTAAGGATTAGGTCAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CTGGCAATCTTAAGGATTAGGTCAAC"	"CTGGCAATCTTAAGGATTAGGTCAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390492"	""	89	"."	17	37	"."	0	"TRAJ45,downstream_gene_variant,,ENST00000390492,;TRAJ42,upstream_gene_variant,,ENST00000390495,;TRAJ46,downstream_gene_variant,,ENST00000390491,;TRAJ44,downstream_gene_variant,,ENST00000390493,;TRAJ41,upstream_gene_variant,,ENST00000390496,;TRAJ40,upstream_gene_variant,,ENST00000390497,;TRAJ47,downstream_gene_variant,,ENST00000390490,;TRAJ43,downstream_gene_variant,,ENST00000390494,;"	"TGGCAATCTTAAGGATTAGGTCAA"	"ENSG00000211844"	"ENST00000390492"	"Transcript"	"downstream_gene_variant"	"-/66"	"-/67"	"-/22"	""	""	""	"1"	"2144"	1	"TRAJ45"	"HGNC"	12076	"TR_J_gene"	"YES"	""	"ENSP00000451312"	""	""	"UPI00021CF137"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTGGCAATCTTAAGGATTAGGTCAACG"	"3ffa4ca6-2764-11e6-9fb9-9177424a729f"	"1020"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191011235955056	"WXS"	FALSE
"826"	"TRAJ45"	0	"mskcc.org"	"GRCh37"	"14"	22965120	22965145	"+"	"3'Flank"	"DEL"	"CTGGCAATCTTAAGGATTAGGTCAAC"	"CTGGCAATCTTAAGGATTAGGTCAAC"	"TGGCAATCTTAAGGATTAGGTCAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CTGGCAATCTTAAGGATTAGGTCAAC"	"CTGGCAATCTTAAGGATTAGGTCAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390492"	""	89	"."	22	37	"."	0	"TRAJ45,downstream_gene_variant,,ENST00000390492,;TRAJ42,upstream_gene_variant,,ENST00000390495,;TRAJ46,downstream_gene_variant,,ENST00000390491,;TRAJ44,downstream_gene_variant,,ENST00000390493,;TRAJ41,upstream_gene_variant,,ENST00000390496,;TRAJ40,upstream_gene_variant,,ENST00000390497,;TRAJ47,downstream_gene_variant,,ENST00000390490,;TRAJ43,downstream_gene_variant,,ENST00000390494,;"	"TGGCAATCTTAAGGATTAGGTCAA"	"ENSG00000211844"	"ENST00000390492"	"Transcript"	"downstream_gene_variant"	"-/66"	"-/67"	"-/22"	""	""	""	"1"	"2144"	1	"TRAJ45"	"HGNC"	12076	"TR_J_gene"	"YES"	""	"ENSP00000451312"	""	""	"UPI00021CF137"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTGGCAATCTTAAGGATTAGGTCAACG"	"3ffd6314-2764-11e6-9fb9-9177424a729f"	"1320"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247191011235955	"WXS"	FALSE
"827"	"SLC7A8"	23428	"mskcc.org"	"GRCh37"	"14"	23630153	23630154	"+"	"Intron"	"INS"	"-"	"-"	"TC"	"rs148796933"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.508+4339_508+4340dupGA"	""	""	"ENST00000316902"	""	7	"."	4	1	"."	0	"SLC7A8,intron_variant,,ENST00000316902,NM_012244.3;SLC7A8,intron_variant,,ENST00000469263,;RNU6-1138P,upstream_gene_variant,,ENST00000365359,;"	"TC"	"ENSG00000092068"	"ENST00000316902"	"Transcript"	"intron_variant"	"-/4216"	"-/1608"	"-/535"	""	""	"rs148796933"	"1"	NA	-1	"SLC7A8"	"HGNC"	11066	"protein_coding"	"YES"	"CCDS9590.1"	"ENSP00000320378"	"Q9UHI5"	"E9PQT4,E9PIC3,B3KSX4"	"UPI000012E235"	"NM_012244.3"	NA	NA	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"430ccc48-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"828"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	24281444	24281448	"+"	"IGR"	"DEL"	"TTTGT"	"TTTGT"	"-"	"rs138201815"	NA	"JHCCPT1"	"JHCCPN1"	"TTTGT"	"TTTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138201815"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TTTGT:0.0517"	"-:0.8124"	"-:0.9899"	NA	"-:0.998"	"-:0.998"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTTGTT"	"31a4f6a6-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"829"	"PCK2"	5106	"mskcc.org"	"GRCh37"	"14"	24565829	24565830	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs765381309"	NA	"JHCCPT1"	"JHCCPN1"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.30-270_30-269delTA"	""	""	"ENST00000216780"	""	18	"."	9	5	"."	0	"PCK2,intron_variant,,ENST00000545054,;PCK2,intron_variant,,ENST00000558096,;PCK2,intron_variant,,ENST00000216780,NM_004563.2;NRL,intron_variant,,ENST00000561028,;PCK2,intron_variant,,ENST00000561286,;PCK2,intron_variant,,ENST00000396973,NM_001018073.1;PCK2,intron_variant,,ENST00000559250,;PCK2,intron_variant,,ENST00000560736,;PCK2,intron_variant,,ENST00000559837,;NRL,intron_variant,,ENST00000558280,;NRL,upstream_gene_variant,,ENST00000396997,;PCK2,upstream_gene_variant,,ENST00000559171,;PCK2,intron_variant,,ENST00000560657,;PCK2,intron_variant,,ENST00000558674,;PCK2,intron_variant,,ENST00000561050,;PCK2,intron_variant,,ENST00000560106,;PCK2,intron_variant,,ENST00000559584,;PCK2,upstream_gene_variant,,ENST00000559503,;"	"-"	"ENSG00000100889"	"ENST00000216780"	"Transcript"	"intron_variant"	"-/2357"	"-/1923"	"-/640"	""	""	"rs765381309"	"1"	NA	1	"PCK2"	"HGNC"	8725	"protein_coding"	"YES"	"CCDS9609.1"	"ENSP00000216780"	"Q16822"	"H0YNG4,H0YMU6,B4DW73"	"UPI000013C708"	"NM_004563.2"	NA	NA	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTAT"	"31b325b4-2764-11e6-9fb9-9177424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"830"	"RNF31"	55072	"mskcc.org"	"GRCh37"	"14"	24621618	24621619	"+"	"Intron"	"INS"	"-"	"-"	"TTTA"	"rs57452223"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2130+430_2130+433dupTTTA"	""	""	"ENST00000324103"	""	8	"."	3	1	"."	0	"RNF31,intron_variant,,ENST00000324103,NM_017999.4;RNF31,intron_variant,,ENST00000559275,;RNF31,intron_variant,,ENST00000382687,;RNF31,intron_variant,,ENST00000560787,;RNF31,downstream_gene_variant,,ENST00000559533,;RNF31,upstream_gene_variant,,ENST00000560754,;RNF31,downstream_gene_variant,,ENST00000557991,;RNF31,downstream_gene_variant,,ENST00000560071,;RNF31,downstream_gene_variant,,ENST00000559308,;RNF31,downstream_gene_variant,,ENST00000559260,;RNF31,downstream_gene_variant,,ENST00000560875,;RNF31,downstream_gene_variant,,ENST00000557878,;RNF31,downstream_gene_variant,,ENST00000559438,;RNF31,downstream_gene_variant,,ENST00000559882,;RNF31,downstream_gene_variant,,ENST00000558634,;RNF31,downstream_gene_variant,,ENST00000559583,;PSME2,upstream_gene_variant,,ENST00000561103,;RP11-468E2.4,intron_variant,,ENST00000558468,;RNF31,intron_variant,,ENST00000559071,;RNF31,intron_variant,,ENST00000491351,;RNF31,downstream_gene_variant,,ENST00000560342,;RNF31,upstream_gene_variant,,ENST00000559449,;RNF31,downstream_gene_variant,,ENST00000558907,;RNF31,upstream_gene_variant,,ENST00000483895,;RNF31,upstream_gene_variant,,ENST00000558452,;"	"TTTA"	"ENSG00000092098"	"ENST00000324103"	"Transcript"	"intron_variant"	"-/3627"	"-/3219"	"-/1072"	""	""	"rs57452223"	"1"	NA	1	"RNF31"	"HGNC"	16031	"protein_coding"	"YES"	"CCDS41931.1"	"ENSP00000315112"	"Q96EP0"	"H0YNK5,H0YNJ0,H0YNC1,H0YMK6,H0YM83,H0YM57,H0YM13"	"UPI0000072F93"	"NM_017999.4"	NA	NA	""	"11/20"	""	"-:0.2979"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"436a8856-2764-11e6-9fb9-9177424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"831"	"STXBP6"	29091	"mskcc.org"	"GRCh37"	"14"	25460380	25460382	"+"	"Intron"	"DEL"	"GAG"	"GAG"	"-"	"rs112495862"	NA	"JHCCPT1"	"JHCCPN1"	"GAG"	"GAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-32-16326_-32-16324delCTC"	""	""	"ENST00000323944"	""	15	"."	8	2	"."	0	"STXBP6,intron_variant,,ENST00000323944,;STXBP6,intron_variant,,ENST00000396700,;STXBP6,intron_variant,,ENST00000548724,;STXBP6,intron_variant,,ENST00000419632,NM_014178.6;STXBP6,intron_variant,,ENST00000550887,;STXBP6,intron_variant,,ENST00000546511,;STXBP6,intron_variant,,ENST00000358326,;STXBP6,intron_variant,,ENST00000548182,;"	"-"	"ENSG00000168952"	"ENST00000323944"	"Transcript"	"intron_variant"	"-/4132"	"-/633"	"-/210"	""	""	"rs112495862"	"1"	NA	-1	"STXBP6"	"HGNC"	19666	"protein_coding"	"YES"	"CCDS9634.1"	"ENSP00000324302"	"Q8NFX7"	""	"UPI000006DD7D"	""	NA	NA	""	"1/5"	""	"-:0.3702"	"-:0.7776"	"-:0.2478"	NA	"-:0.121"	"-:0.2853"	"-:0.2505"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGAGG"	"32613334-2764-11e6-9fb9-9177424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.533333333333333	"WXS"	FALSE
"832"	"STXBP6"	29091	"mskcc.org"	"GRCh37"	"14"	25519171	25519172	"+"	"5'UTR"	"INS"	"-"	"-"	"GGGCTCC"	"rs5807279"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-127_-121dupGGAGCCC"	""	""	"ENST00000323944"	"1/6"	10	"."	5	1	"."	0	"STXBP6,5_prime_UTR_variant,,ENST00000323944,;STXBP6,5_prime_UTR_variant,,ENST00000396700,;STXBP6,5_prime_UTR_variant,,ENST00000548724,;STXBP6,upstream_gene_variant,,ENST00000419632,NM_014178.6;STXBP6,upstream_gene_variant,,ENST00000546511,;STXBP6,upstream_gene_variant,,ENST00000358326,;STXBP6,upstream_gene_variant,,ENST00000548182,;"	"GGGCTCC"	"ENSG00000168952"	"ENST00000323944"	"Transcript"	"5_prime_UTR_variant"	"332-333/4132"	"-/633"	"-/210"	""	""	"rs5807279"	"1"	NA	-1	"STXBP6"	"HGNC"	19666	"protein_coding"	"YES"	"CCDS9634.1"	"ENSP00000324302"	"Q8NFX7"	""	"UPI000006DD7D"	""	NA	NA	"1/6"	""	""	"GGGCTCC:0.2133"	"GGGCTCC:0.1437"	"GGGCTCC:0.147"	NA	"GGGCTCC:0.2688"	"GGGCTCC:0.2038"	"GGGCTCC:0.3067"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"43a1d2ca-2764-11e6-9fb9-9177424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"833"	"RP11-148E17.1"	0	"mskcc.org"	"GRCh37"	"14"	29444437	29444437	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34508045"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.108-11167delT"	""	""	"ENST00000551227"	""	6	"."	4	1	"."	0	"RP11-148E17.1,intron_variant,,ENST00000551227,;CTD-2384A14.2,downstream_gene_variant,,ENST00000552028,;"	"-"	"ENSG00000258028"	"ENST00000551227"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/741"	""	""	""	""	"rs34508045"	"1"	NA	1	"RP11-148E17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/5"	""	"-:0.3460"	"-:0.6959"	"-:0.2205"	NA	"-:0.2143"	"-:0.1909"	"-:0.2577"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"328d2480-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"834"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	29578360	29578361	"+"	"IGR"	"INS"	"-"	"-"	"GAAA"	"rs34622565"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	29	"."	5	6	"."	0	""	"GAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34622565"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"43c8d168-2764-11e6-9fb9-9177424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WXS"	FALSE
"835"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	29578360	29578361	"+"	"IGR"	"INS"	"-"	"-"	"AAAGGAAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	28	"."	3	6	"."	0	""	"AAAGGAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"43c98d56-2764-11e6-9fb9-9177424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WXS"	FALSE
"836"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	35849677	35849678	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs34284513"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34284513"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4201"	"A:0.4849"	"A:0.4539"	NA	"A:0.8611"	"A:0.499"	"A:0.591"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"444caff6-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"837"	"SLC25A21"	89874	"mskcc.org"	"GRCh37"	"14"	37540260	37540261	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs34092270"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.70+101225dupT"	""	""	"ENST00000331299"	""	7	"."	4	3	"."	0	"SLC25A21,intron_variant,,ENST00000331299,NM_030631.3;SLC25A21,intron_variant,,ENST00000555449,NM_001171170.1;SLC25A21,intron_variant,,ENST00000557611,;"	"A"	"ENSG00000183032"	"ENST00000331299"	"Transcript"	"intron_variant"	"-/2785"	"-/900"	"-/299"	""	""	"rs34092270"	"1"	NA	-1	"SLC25A21"	"HGNC"	14411	"protein_coding"	"YES"	"CCDS9663.1"	"ENSP00000329452"	"Q9BQT8"	""	"UPI0000130BCE"	"NM_030631.3"	NA	NA	""	"1/9"	""	"-:0.4956"	"A:0.8631"	"A:0.3847"	NA	"A:0.4077"	"A:0.3539"	"A:0.3589"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"44642e1a-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"838"	"TTC6"	319089	"mskcc.org"	"GRCh37"	"14"	38290229	38290234	"+"	"Intron"	"DEL"	"TCTTCT"	"TCTTCT"	"-"	"rs10599374"	NA	"JHCCPT1"	"JHCCPN1"	"TCTTCT"	"TCTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4764-2700_4764-2695delTTCTTC"	""	""	"ENST00000553443"	""	34	"."	4	5	"."	0	"TTC6,intron_variant,,ENST00000553443,;TTC6,intron_variant,,ENST00000476979,;TTC6,intron_variant,,ENST00000382320,;TTC6,intron_variant,,ENST00000267368,;TTC6,intron_variant,,ENST00000533625,;TTC6,intron_variant,,ENST00000478811,;"	"-"	"ENSG00000139865"	"ENST00000553443"	"Transcript"	"intron_variant"	"-/5833"	"-/5661"	"-/1886"	""	""	"rs10599374"	"1"	NA	1	"TTC6"	"HGNC"	19739	"protein_coding"	"YES"	""	"ENSP00000451131"	""	"Q3SY87,G3V3A5"	"UPI00021CF1B4"	""	NA	NA	""	"26/30"	""	"TCTTCT:0.1178"	"-:0.7557"	"-:0.9265"	NA	"-:0.881"	"-:0.9493"	"-:0.954"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"23"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTCTTCTT"	"3398d1ee-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WXS"	FALSE
"839"	"TTC6"	319089	"mskcc.org"	"GRCh37"	"14"	38311897	38311898	"+"	"3'Flank"	"INS"	"-"	"-"	"AAAC"	"rs3842323"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000553443"	""	17	"."	3	3	"."	0	"TTC6,3_prime_UTR_variant,,ENST00000476979,;TTC6,downstream_gene_variant,,ENST00000553443,;TTC6,downstream_gene_variant,,ENST00000382320,;TTC6,downstream_gene_variant,,ENST00000267368,;TTC6,intron_variant,,ENST00000533625,;TTC6,downstream_gene_variant,,ENST00000478811,;TTC6,downstream_gene_variant,,ENST00000555921,;"	"AAAC"	"ENSG00000139865"	"ENST00000553443"	"Transcript"	"downstream_gene_variant"	"-/5833"	"-/5661"	"-/1886"	""	""	"rs3842323"	"1"	"229"	1	"TTC6"	"HGNC"	19739	"protein_coding"	"YES"	""	"ENSP00000451131"	""	"Q3SY87,G3V3A5"	"UPI00021CF1B4"	""	NA	NA	""	""	""	"-:0.1306"	"AAAC:0.7065"	"AAAC:0.9251"	NA	"AAAC:0.8909"	"AAAC:0.9423"	"AAAC:0.953"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"447829b0-2764-11e6-9fb9-9177424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"840"	"SEC23A"	10484	"mskcc.org"	"GRCh37"	"14"	39536740	39536740	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs11322514"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1104-240delT"	""	""	"ENST00000307712"	""	17	"."	8	6	"."	0	"SEC23A,intron_variant,,ENST00000537403,;SEC23A,intron_variant,,ENST00000307712,NM_006364.2;SEC23A,intron_variant,,ENST00000545328,;SEC23A,intron_variant,,ENST00000536508,;SEC23A,upstream_gene_variant,,ENST00000553925,;"	"-"	"ENSG00000100934"	"ENST00000307712"	"Transcript"	"intron_variant"	"-/4135"	"-/2298"	"-/765"	""	""	"rs11322514"	"1"	NA	-1	"SEC23A"	"HGNC"	10701	"protein_coding"	"YES"	"CCDS9668.1"	"ENSP00000306881"	"Q15436"	"G3V5K1,G3V3G5,G3V2R6,B3KXI2"	"UPI000013EC46"	"NM_006364.2"	NA	NA	""	"9/19"	""	"A:0.0978"	"-:0.9115"	"-:0.817"	NA	"-:0.9663"	"-:0.9344"	"-:0.8507"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTAA"	"33b4c4a8-2764-11e6-9fb9-9177424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.470588235294118	"WXS"	FALSE
"841"	"RP11-111A21.1"	0	"mskcc.org"	"GRCh37"	"14"	39969511	39969512	"+"	"Intron"	"INS"	"-"	"-"	"CCTCCCTTC"	"rs147783457"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.418+7776_418+7784dupTTCCCTCCC"	""	""	"ENST00000554328"	""	18	"."	5	3	"."	0	"RP11-111A21.1,intron_variant,,ENST00000554328,;RP11-111A21.1,intron_variant,,ENST00000555555,;"	"CCTCCCTTC"	"ENSG00000258526"	"ENST00000554328"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/582"	""	""	""	""	"rs147783457"	"1"	NA	1	"RP11-111A21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"33"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"449a164c-2764-11e6-9fb9-9177424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"842"	"MDGA2"	161357	"mskcc.org"	"GRCh37"	"14"	47766696	47766697	"+"	"Intron"	"INS"	"-"	"-"	"GAAGG"	"rs111427314"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-470+3913_-470+3917dupCCTTC"	""	""	"ENST00000426342"	""	12	"."	3	1	"."	0	"MDGA2,intron_variant,,ENST00000426342,NM_182830.4;MDGA2,intron_variant,,ENST00000399232,NM_001113498.2;MDGA2,intron_variant,,ENST00000439988,;MDGA2,intron_variant,,ENST00000357362,;MDGA2,intron_variant,,ENST00000486952,;MDGA2,downstream_gene_variant,,ENST00000472499,;MDGA2,intron_variant,,ENST00000557238,;MDGA2,intron_variant,,ENST00000482848,;"	"GAAGG"	"ENSG00000139915"	"ENST00000426342"	"Transcript"	"intron_variant"	"-/5239"	"-/2184"	"-/727"	""	""	"rs111427314"	"1"	NA	-1	"MDGA2"	"HGNC"	19835	"protein_coding"	"YES"	"CCDS41948.1"	"ENSP00000405456"	"Q7Z553"	"F8WE89"	"UPI0000213DB6"	"NM_182830.4"	NA	NA	""	"2/16"	""	"-:0.3934"	"GAAGG:0.5885"	"GAAGG:0.6196"	NA	"GAAGG:0.5913"	"GAAGG:0.5746"	"GAAGG:0.6708"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"44c290fe-2764-11e6-9fb9-9177424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"843"	"C14orf182"	283551	"mskcc.org"	"GRCh37"	"14"	50457175	50457176	"+"	"Intron"	"INS"	"-"	"-"	"AAACAAAC"	"rs145854991"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*48+1791_*48+1798dupGTTTGTTT"	""	""	"ENST00000399206"	""	7	"."	4	2	"."	0	"C14orf182,intron_variant,,ENST00000399206,NM_001012706.1;C14orf182,intron_variant,,ENST00000530176,;C14orf182,downstream_gene_variant,,ENST00000529902,;C14orf182,downstream_gene_variant,,ENST00000528300,;C14orf182,downstream_gene_variant,,ENST00000533506,;"	"AAACAAAC"	"ENSG00000214900"	"ENST00000399206"	"Transcript"	"intron_variant"	"-/2686"	"-/324"	"-/107"	""	""	"rs145854991"	"1"	NA	-1	"C14orf182"	"HGNC"	27503	"protein_coding"	"YES"	"CCDS41949.1"	"ENSP00000382157"	"A1A4T8"	""	"UPI000013F5E9"	"NM_001012706.1"	NA	NA	""	"3/3"	""	"-:0.4113"	"AAACAAACAAAC:0.0129"	"AAACAAACAAAC:0.0029"	NA	"AAACAAACAAAC:0.001"	"AAACAAACAAAC:0.001"	"AAACAAACAAAC:0.0286"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"44da3c40-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"844"	"SOS2"	6655	"mskcc.org"	"GRCh37"	"14"	50640907	50640910	"+"	"Intron"	"DEL"	"TATA"	"TATA"	"-"	"rs67592782"	NA	"JHCCPT1"	"JHCCPN1"	"TATA"	"TATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1068+262_1068+265delTATA"	""	""	"ENST00000216373"	""	8	"."	4	2	"."	0	"SOS2,intron_variant,,ENST00000216373,NM_006939.2;SOS2,intron_variant,,ENST00000543680,;SOS2,intron_variant,,ENST00000555794,;"	"-"	"ENSG00000100485"	"ENST00000216373"	"Transcript"	"intron_variant"	"-/5489"	"-/3999"	"-/1332"	""	""	"rs67592782"	"1"	NA	-1	"SOS2"	"HGNC"	11188	"protein_coding"	"YES"	"CCDS9697.1"	"ENSP00000216373"	"Q07890"	"B4DJ05"	"UPI000013C6E8"	"NM_006939.2"	NA	NA	""	"8/22"	""	"TATA:0.4834"	"-:0.4024"	"-:0.647"	NA	"-:0.4137"	"-:0.673"	"-:0.5235"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTATAT"	"347e14e8-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"845"	"PYGL"	5836	"mskcc.org"	"GRCh37"	"14"	51381214	51381215	"+"	"Intron"	"INS"	"-"	"-"	"AATAATAAT"	"rs141988011"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1518+196_1518+204dupATTATTATT"	""	""	"ENST00000216392"	""	12	"."	3	2	"."	0	"PYGL,intron_variant,,ENST00000216392,NM_002863.4;PYGL,intron_variant,,ENST00000532462,;PYGL,intron_variant,,ENST00000544180,NM_001163940.1;RP11-218E20.5,downstream_gene_variant,,ENST00000557343,;PYGL,downstream_gene_variant,,ENST00000553872,;PYGL,upstream_gene_variant,,ENST00000532107,;PYGL,downstream_gene_variant,,ENST00000528757,;"	"AATAATAAT"	"ENSG00000100504"	"ENST00000216392"	"Transcript"	"intron_variant"	"-/3048"	"-/2544"	"-/847"	""	""	"rs141988011"	"1"	NA	-1	"PYGL"	"HGNC"	9725	"protein_coding"	"YES"	"CCDS32080.1"	"ENSP00000216392"	"P06737"	""	"UPI000011136E"	"NM_002863.4"	NA	NA	""	"12/19"	""	"AATAATAAT:0.1042"	"AATAATAAT:0.1392"	"AATAATAAT:0.0605"	NA	"AATAATAAT:0.1062"	"AATAATAAT:0.0815"	"AATAATAAT:0.1094"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"453bab1a-2764-11e6-9fb9-9177424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"846"	"TRIM9"	114088	"mskcc.org"	"GRCh37"	"14"	51563010	51563011	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs770552284"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000298355"	""	7	"."	3	1	"."	0	"TRIM9,upstream_gene_variant,,ENST00000298355,NM_015163.5;TRIM9,upstream_gene_variant,,ENST00000360392,NM_052978.4;TRIM9,upstream_gene_variant,,ENST00000338969,;"	"G"	"ENSG00000100505"	"ENST00000298355"	"Transcript"	"upstream_gene_variant"	"-/5284"	"-/2133"	"-/710"	""	""	"rs770552284"	"1"	"231"	-1	"TRIM9"	"HGNC"	16288	"protein_coding"	"YES"	"CCDS9703.1"	"ENSP00000298355"	"Q9C026"	""	"UPI000006D630"	"NM_015163.5"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"454d4f14-2764-11e6-9fb9-9177424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"847"	"RP11-1033H12.1"	0	"mskcc.org"	"GRCh37"	"14"	52584892	52584893	"+"	"Intron"	"INS"	"-"	"-"	"AAAC"	"rs376062439,rs150407682"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.149+5495_149+5498dupGTTT"	""	""	"ENST00000555852"	""	8	"."	3	1	"."	0	"RP11-1033H12.1,intron_variant,,ENST00000555852,;COX5AP2,downstream_gene_variant,,ENST00000554418,;"	"AAAC"	"ENSG00000258694"	"ENST00000555852"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/349"	""	""	""	""	"rs376062439,rs150407682"	"1"	NA	-1	"RP11-1033H12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	"-:0.2182"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"456a23be-2764-11e6-9fb9-9177424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"848"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	52857372	52857373	"+"	"IGR"	"INS"	"-"	"-"	"ACA"	"rs151131086"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	21	"."	8	3	"."	0	""	"ACA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs151131086"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2758"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"456c7394-2764-11e6-9fb9-9177424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.380952380952381	"WXS"	FALSE
"849"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	54204250	54204251	"+"	"IGR"	"INS"	"-"	"-"	"AG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	5	1	"."	0	""	"AG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"458ce25a-2764-11e6-9fb9-9177424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"850"	"BMP4"	652	"mskcc.org"	"GRCh37"	"14"	54416601	54416602	"+"	"3'UTR"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*148_*149insT"	""	""	"ENST00000245451"	"4/4"	70	"."	4	36	"."	0	"BMP4,3_prime_UTR_variant,,ENST00000245451,NM_001202.3;BMP4,3_prime_UTR_variant,,ENST00000417573,NM_130851.2;BMP4,3_prime_UTR_variant,,ENST00000559087,NM_130850.2;BMP4,3_prime_UTR_variant,,ENST00000558984,;BMP4,downstream_gene_variant,,ENST00000559501,;BMP4,downstream_gene_variant,,ENST00000559642,;BMP4,downstream_gene_variant,,ENST00000558961,;BMP4,downstream_gene_variant,,ENST00000609748,;MIR5580,upstream_gene_variant,,ENST00000580850,;"	"A"	"ENSG00000125378"	"ENST00000245451"	"Transcript"	"3_prime_UTR_variant"	"1769-1770/1917"	"-/1227"	"-/408"	""	""	""	"1"	NA	-1	"BMP4"	"HGNC"	1071	"protein_coding"	"YES"	"CCDS9715.1"	"ENSP00000245451"	"P12644"	"U3MVU6,Q53XC5,H0YM53,H0YLW3"	"UPI000000CC31"	"NM_001202.3"	NA	NA	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"458fe432-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0571428571428571	"WXS"	FALSE
"851"	"OTX2-AS1"	100309464	"mskcc.org"	"GRCh37"	"14"	57341996	57341997	"+"	"Intron"	"INS"	"-"	"-"	"TC"	"rs141504735"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.288-22260_288-22259dupCT"	""	""	"ENST00000534909"	""	12	"."	6	3	"."	0	"RP11-1085N6.5,intron_variant,,ENST00000557467,;RP11-1085N6.5,intron_variant,,ENST00000554149,;OTX2-AS1,intron_variant,,ENST00000534909,;OTX2-AS1,intron_variant,,ENST00000554725,;OTX2-AS1,intron_variant,,ENST00000554358,;OTX2-AS1,intron_variant,,ENST00000554428,;"	"TC"	"ENSG00000248550"	"ENST00000534909"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2428"	""	""	""	""	"rs141504735"	"1"	NA	1	"OTX2-AS1"	"HGNC"	43906	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"TC:0.2514"	"TC:0.2194"	"TC:0.3516"	NA	"TC:0.3056"	"TC:0.0954"	"TC:0.3282"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"45ce7e9a-2764-11e6-9fb9-9177424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"852"	"C14orf37"	145407	"mskcc.org"	"GRCh37"	"14"	58600101	58600101	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs199576244"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1370-42delA"	""	""	"ENST00000267485"	""	108	"."	4	67	"."	0	"C14orf37,intron_variant,,ENST00000267485,NM_001001872.2;C14orf37,intron_variant,,ENST00000334342,;C14orf37,intron_variant,,ENST00000557175,;C14orf37,upstream_gene_variant,,ENST00000555101,;"	"-"	"ENSG00000139971"	"ENST00000267485"	"Transcript"	"intron_variant"	"-/6495"	"-/2325"	"-/774"	""	""	"rs199576244"	"1"	NA	-1	"C14orf37"	"HGNC"	19846	"protein_coding"	"YES"	"CCDS32089.1"	"ENSP00000267485"	"Q86TY3"	""	"UPI000000CC37"	"NM_001001872.2"	NA	NA	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.1027"	"0.03373"	"0.03986"	"0.03816"	"0.06606"	"0.1078"	"0.1164"	"0.06584"	NA	"common_variant"	"TATT"	"362f84f2-2764-11e6-9fb9-9177424a729f"	"240"	0.07882	"6223/78950"	"10846/105604"	"230/6818"	"385/9658"	"243/6368"	"376/5692"	"4221/39152"	"61/524"	"707/10738"	"PASS"	"FALSE"	0.037037037037037	"WXS"	FALSE
"853"	"KIAA0586"	9786	"mskcc.org"	"GRCh37"	"14"	58915354	58915355	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11381841"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1120+150dupT"	""	""	"ENST00000354386"	""	27	"."	13	3	"."	0	"KIAA0586,intron_variant,,ENST00000423743,NM_001244192.1,NM_001244191.1;KIAA0586,intron_variant,,ENST00000354386,NM_001244189.1;KIAA0586,intron_variant,,ENST00000556134,NM_001244190.1,NM_001244193.1;KIAA0586,intron_variant,,ENST00000261244,NM_014749.3;KIAA0586,downstream_gene_variant,,ENST00000555833,;KIAA0586,downstream_gene_variant,,ENST00000554463,;KIAA0586,intron_variant,,ENST00000538571,;KIAA0586,downstream_gene_variant,,ENST00000555203,;KIAA0586,downstream_gene_variant,,ENST00000557590,;"	"T"	"ENSG00000100578"	"ENST00000354386"	"Transcript"	"intron_variant"	"-/5226"	"-/4935"	"-/1644"	""	""	"rs11381841"	"1"	NA	1	"KIAA0586"	"HGNC"	19960	"protein_coding"	"YES"	"CCDS58320.1"	"ENSP00000346359"	"Q9BVV6"	""	"UPI0001AE6998"	"NM_001244189.1"	NA	NA	""	"9/33"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"45ed6f76-2764-11e6-9fb9-9177424a729f"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.481481481481481	"WXS"	FALSE
"854"	"PRKCH"	5583	"mskcc.org"	"GRCh37"	"14"	61656104	61656116	"+"	"Intron"	"DEL"	"TGCCCCGACTCTG"	"TGCCCCGACTCTG"	"CCCCGACTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TGCCCCGACTCTG"	"TGCCCCGACTCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-19+1718_-19+1730delTGCCCCGACTCTGinsCCCCGACTC"	""	""	"ENST00000555185"	""	9	"."	4	4	"."	0	"PRKCH,intron_variant,,ENST00000555185,;PRKCH,intron_variant,,ENST00000557294,;PRKCH,intron_variant,,ENST00000556778,;"	"CCCCGACTC"	"ENSG00000027075"	"ENST00000555185"	"Transcript"	"intron_variant"	"-/582"	"-/454"	"-/151"	""	""	""	"1"	NA	1	"PRKCH"	"HGNC"	9403	"protein_coding"	""	""	"ENSP00000451871"	""	"G3V4L3"	"UPI00021CF172"	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTGCCCCGACTCTGT"	"403d4236-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"855"	"RP11-643G16.3"	0	"mskcc.org"	"GRCh37"	"14"	68076621	68076625	"+"	"5'Flank"	"DEL"	"TCCTG"	"TCCTG"	"-"	"rs57083917"	NA	"JHCCPT1"	"JHCCPN1"	"TCCTG"	"TCCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000559594"	""	9	"."	3	1	"."	0	"RP11-643G16.3,upstream_gene_variant,,ENST00000559594,;"	"-"	"ENSG00000259502"	"ENST00000559594"	"Transcript"	"upstream_gene_variant"	"-/619"	""	""	""	""	"rs57083917"	"1"	"1078"	1	"RP11-643G16.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4570"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTCCTGT"	"37ec60a8-2764-11e6-9fb9-9177424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"856"	"RP11-1046B16.1"	0	"mskcc.org"	"GRCh37"	"14"	70029688	70029699	"+"	"5'Flank"	"DEL"	"CTCCCTCCCTCT"	"CTCCCTCCCTCT"	"-"	"rs145758285"	NA	"JHCCPT1"	"JHCCPN1"	"CTCCCTCCCTCT"	"CTCCCTCCCTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000467051"	""	10	"."	4	1	"."	0	"RP11-1046B16.1,upstream_gene_variant,,ENST00000467051,;"	"-"	"ENSG00000244237"	"ENST00000467051"	"Transcript"	"upstream_gene_variant"	"-/452"	""	""	""	""	"rs145758285"	"1"	"1501"	-1	"RP11-1046B16.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCTCCCTCCCTCTC"	"38440ec0-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"857"	"SYNJ2BP"	55333	"mskcc.org"	"GRCh37"	"14"	70882367	70882368	"+"	"Intron"	"INS"	"-"	"ATG"	"ATG"	"rs5809486"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.64+1247_64+1249dupCAT"	""	""	"ENST00000256366"	""	9	"."	8	1	"."	0	"SYNJ2BP,intron_variant,,ENST00000256366,NM_018373.2;SYNJ2BP,intron_variant,,ENST00000554216,;SYNJ2BP-COX16,intron_variant,,ENST00000555276,;"	"ATG"	"ENSG00000213463"	"ENST00000256366"	"Transcript"	"intron_variant"	"-/2080"	"-/438"	"-/145"	""	""	"rs5809486"	"1"	NA	-1	"SYNJ2BP"	"HGNC"	18955	"protein_coding"	"YES"	"CCDS9803.1"	"ENSP00000256366"	"P57105"	""	"UPI00000373B1"	"NM_018373.2"	NA	NA	""	"1/3"	""	"-:0.0244"	"ATG:0.9221"	"ATG:0.9856"	NA	"ATG:1"	"ATG:0.994"	"ATG:0.9969"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"46fffcc6-2764-11e6-9fb9-9177424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.888888888888889	"WXS"	FALSE
"858"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	72292988	72292989	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs11419491"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11419491"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0411"	"G:0.9977"	"G:0.9856"	NA	"G:0.8115"	"G:1"	"G:0.9969"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"471797be-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"859"	"PAPLN"	89932	"mskcc.org"	"GRCh37"	"14"	73727247	73727247	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs71112723"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1905-170delA"	""	""	"ENST00000340738"	""	8	"."	3	2	"."	0	"PAPLN,intron_variant,,ENST00000427855,;PAPLN,intron_variant,,ENST00000340738,NM_173462.3;PAPLN,intron_variant,,ENST00000381166,;PAPLN,intron_variant,,ENST00000555445,;PAPLN,intron_variant,,ENST00000554301,;PAPLN,upstream_gene_variant,,ENST00000559759,;PAPLN,upstream_gene_variant,,ENST00000554314,;PAPLN,intron_variant,,ENST00000216658,;PAPLN,intron_variant,,ENST00000555123,;PAPLN,upstream_gene_variant,,ENST00000555700,;PAPLN,upstream_gene_variant,,ENST00000557061,;"	"-"	"ENSG00000100767"	"ENST00000340738"	"Transcript"	"intron_variant"	"-/5834"	"-/3756"	"-/1251"	""	""	"rs71112723"	"1"	NA	1	"PAPLN"	"HGNC"	19262	"protein_coding"	"YES"	"CCDS32114.1"	"ENSP00000345395"	"O95428"	"B3KXI1"	"UPI0000D6242C"	"NM_173462.3"	NA	NA	""	"15/25"	""	"-:0.1791"	"-:0.2799"	"-:0.111"	NA	"-:0.12"	"-:0.1869"	"-:0.1442"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAG"	"39203bac-2764-11e6-9fb9-9177424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"860"	"ESRRB"	2103	"mskcc.org"	"GRCh37"	"14"	76782826	76782827	"+"	"Intron"	"INS"	"-"	"-"	"CTT"	"rs34390004"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2+5567_2+5568insCTT"	""	""	"ENST00000512784"	""	6	"."	4	2	"."	0	"ESRRB,intron_variant,,ENST00000512784,;"	"CTT"	"ENSG00000119715"	"ENST00000512784"	"Transcript"	"intron_variant"	"-/1826"	"-/1525"	"-/508"	""	""	"rs34390004"	"1"	NA	1	"ESRRB"	"HGNC"	3473	"protein_coding"	""	""	"ENSP00000424992"	""	"Q9HCB2,E7EWD9"	"UPI0001D3BD94"	""	NA	NA	""	"1/8"	""	"-:0.3554"	"CTT:0.4849"	"CTT:0.7939"	NA	"CTT:0.5595"	"CTT:0.7396"	"CTT:0.7444"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"47db62de-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"861"	"TMEM63C"	57156	"mskcc.org"	"GRCh37"	"14"	77725967	77725968	"+"	"3'Flank"	"INS"	"-"	"-"	"TCTC"	"rs111834706"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000298351"	""	11	"."	4	2	"."	0	"TMEM63C,downstream_gene_variant,,ENST00000298351,NM_020431.2;TMEM63C,downstream_gene_variant,,ENST00000557504,;"	"TCTC"	"ENSG00000165548"	"ENST00000298351"	"Transcript"	"downstream_gene_variant"	"-/5334"	"-/2421"	"-/806"	""	""	"rs111834706"	"1"	"129"	1	"TMEM63C"	"HGNC"	23787	"protein_coding"	"YES"	"CCDS45141.1"	"ENSP00000298351"	"Q9P1W3"	"G3V4J5,G3V3S9,G3V3S4,G3V3H0,G3V2V1"	"UPI0000049C5C"	"NM_020431.2"	NA	NA	""	""	""	"TCTC:0.3035"	"TCTC:0.143"	"TCTC:0.2522"	NA	"TCTC:0.3353"	"TCTC:0.4553"	"TCTC:0.3681"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"47f47ba2-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"862"	"NRXN3"	9369	"mskcc.org"	"GRCh37"	"14"	79276733	79276733	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs199711859"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1156+46delC"	""	""	"ENST00000554719"	""	128	"."	3	76	"."	0	"NRXN3,intron_variant,,ENST00000554719,NM_004796.5;NRXN3,intron_variant,,ENST00000335750,;NRXN3,intron_variant,,ENST00000554738,;NRXN3,intron_variant,,ENST00000556496,;"	"-"	"ENSG00000021645"	"ENST00000554719"	"Transcript"	"intron_variant"	"-/4156"	"-/3186"	"-/1061"	""	""	"rs199711859"	"1"	NA	1	"NRXN3"	"HGNC"	8010	"protein_coding"	"YES"	"CCDS9870.1"	"ENSP00000451648"	"Q9Y4C0"	"G3V4R9,G3V247"	"UPI0000167BBA"	"NM_004796.5"	NA	NA	""	"7/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.3242"	"0.3615"	"0.4799"	"0.4108"	"0.3514"	"0.427"	"0.3975"	"0.3722"	NA	"common_variant"	"AACA"	"3ac09e02-2764-11e6-9fb9-9177424a729f"	"180"	0.4083	"12170/29804"	"18713/57720"	"911/2520"	"1744/3634"	"903/2198"	"816/2322"	"5218/12220"	"97/244"	"2481/6666"	"InbreedingCoeff_Filter"	"FALSE"	0.0234375	"WXS"	FALSE
"863"	"NRXN3"	9369	"mskcc.org"	"GRCh37"	"14"	79933909	79933909	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs547025871"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2325+170delA"	""	""	"ENST00000554719"	""	17	"."	5	4	"."	0	"NRXN3,intron_variant,,ENST00000281127,NM_138970.4,NM_001272020.1;NRXN3,intron_variant,,ENST00000428277,NM_001105250.2;NRXN3,intron_variant,,ENST00000554719,NM_004796.5;NRXN3,intron_variant,,ENST00000335750,;NRXN3,intron_variant,,ENST00000557594,;NRXN3,intron_variant,,ENST00000556003,;NRXN3,intron_variant,,ENST00000553803,;NRXN3,intron_variant,,ENST00000555073,;NRXN3,intron_variant,,ENST00000554738,;NRXN3,intron_variant,,ENST00000555387,;"	"-"	"ENSG00000021645"	"ENST00000554719"	"Transcript"	"intron_variant"	"-/4156"	"-/3186"	"-/1061"	""	""	"rs547025871"	"1"	NA	1	"NRXN3"	"HGNC"	8010	"protein_coding"	"YES"	"CCDS9870.1"	"ENSP00000451648"	"Q9Y4C0"	"G3V4R9,G3V247"	"UPI0000167BBA"	"NM_004796.5"	NA	NA	""	"13/16"	""	"-:0.0038"	"-:0"	"-:0.0086"	NA	"-:0"	"-:0.0089"	"-:0.0041"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"3acb935c-2764-11e6-9fb9-9177424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"864"	"NRXN3"	9369	"mskcc.org"	"GRCh37"	"14"	80300635	80300636	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11428870"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2885-27367dupT"	""	""	"ENST00000554719"	""	6	"."	3	1	"."	0	"NRXN3,intron_variant,,ENST00000281127,NM_138970.4,NM_001272020.1;NRXN3,intron_variant,,ENST00000428277,NM_001105250.2;NRXN3,intron_variant,,ENST00000554719,NM_004796.5;NRXN3,intron_variant,,ENST00000335750,;NRXN3,intron_variant,,ENST00000557594,;NRXN3,intron_variant,,ENST00000556003,;NRXN3,intron_variant,,ENST00000554738,;NRXN3,intron_variant,,ENST00000555387,;"	"T"	"ENSG00000021645"	"ENST00000554719"	"Transcript"	"intron_variant"	"-/4156"	"-/3186"	"-/1061"	""	""	"rs11428870"	"1"	NA	1	"NRXN3"	"HGNC"	8010	"protein_coding"	"YES"	"CCDS9870.1"	"ENSP00000451648"	"Q9Y4C0"	"G3V4R9,G3V247"	"UPI0000167BBA"	"NM_004796.5"	NA	NA	""	"16/16"	""	"-:0.0837"	"T:0.8873"	"T:0.9164"	NA	"T:0.9534"	"T:0.9026"	"T:0.9315"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"485596f8-2764-11e6-9fb9-9177424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"865"	"RP11-26L16.1"	0	"mskcc.org"	"GRCh37"	"14"	86867580	86867581	"+"	"RNA"	"INS"	"-"	"-"	"AAG"	"rs10637165"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.179_181dupGAA"	""	""	"ENST00000553679"	"3/3"	7	"."	3	2	"."	0	"RP11-26L16.1,non_coding_transcript_exon_variant,,ENST00000553679,;"	"AAG"	"ENSG00000258994"	"ENST00000553679"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"158-159/207"	""	""	""	""	"rs10637165"	"1"	NA	1	"RP11-26L16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	"3/3"	""	""	"-:0.4549"	"AAG:0.4887"	"AAG:0.5447"	NA	"AAG:0.6865"	"AAG:0.5109"	"AAG:0.5112"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"23"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"48e53c0e-2764-11e6-9fb9-9177424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"866"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	87769185	87769186	"+"	"IGR"	"INS"	"-"	"C"	"C"	"rs144205593"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144205593"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.0242"	"C:0.0083"	"C:0.0231"	NA	"C:0.0367"	"C:0.0229"	"C:0.0348"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"48e78220-2764-11e6-9fb9-9177424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"867"	"PTPN21"	11099	"mskcc.org"	"GRCh37"	"14"	88950848	88950849	"+"	"Intron"	"DEL"	"TT"	"TT"	"-"	"rs34038895"	NA	"JHCCPT1"	"JHCCPN1"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1078+571_1078+572delAA"	""	""	"ENST00000556564"	""	9	"."	5	1	"."	0	"PTPN21,intron_variant,,ENST00000556564,NM_007039.3;PTPN21,intron_variant,,ENST00000328736,;PTPN21,intron_variant,,ENST00000554270,;PTPN21,intron_variant,,ENST00000536337,;"	"-"	"ENSG00000070778"	"ENST00000556564"	"Transcript"	"intron_variant"	"-/6166"	"-/3525"	"-/1174"	""	""	"rs34038895"	"1"	NA	-1	"PTPN21"	"HGNC"	9651	"protein_coding"	"YES"	"CCDS9884.1"	"ENSP00000452414"	"Q16825"	"Q8WX29,G3V3S6"	"UPI000013D15F"	"NM_007039.3"	NA	NA	""	"12/18"	""	"-:0.3544"	"-:0.3835"	"-:0.2651"	NA	"-:0.369"	"-:0.2962"	"-:0.4233"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTT"	"3b9adbd0-2764-11e6-9fb9-9177424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"868"	"ZC3H14"	79882	"mskcc.org"	"GRCh37"	"14"	89037482	89037483	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs10682918"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.235+14_235+15insA"	""	""	"ENST00000251038"	""	168	"."	4	59	"."	0	"ZC3H14,intron_variant,,ENST00000251038,NM_024824.4,NM_001160103.1,NM_001160104.1;ZC3H14,intron_variant,,ENST00000359301,;ZC3H14,intron_variant,,ENST00000302216,NM_207660.3;ZC3H14,intron_variant,,ENST00000555755,;ZC3H14,intron_variant,,ENST00000393514,;ZC3H14,intron_variant,,ENST00000556945,;ZC3H14,intron_variant,,ENST00000336693,NM_207661.2;ZC3H14,intron_variant,,ENST00000557607,;ZC3H14,intron_variant,,ENST00000556158,;ZC3H14,intron_variant,,ENST00000555799,;ZC3H14,intron_variant,,ENST00000554602,;ZC3H14,intron_variant,,ENST00000557693,;ZC3H14,intron_variant,,ENST00000555120,;ZC3H14,upstream_gene_variant,,ENST00000556000,;ZC3H14,upstream_gene_variant,,ENST00000557605,;ZC3H14,upstream_gene_variant,,ENST00000557047,;ZC3H14,intron_variant,,ENST00000553495,;ZC3H14,upstream_gene_variant,,ENST00000556110,;"	"A"	"ENSG00000100722"	"ENST00000251038"	"Transcript"	"intron_variant"	"-/4194"	"-/2211"	"-/736"	""	""	"rs10682918"	"1"	NA	1	"ZC3H14"	"HGNC"	20509	"protein_coding"	"YES"	"CCDS32133.1"	"ENSP00000251038"	"Q6PJT7"	"G3V572,G3V473,G3V3Y4,G3V2X4,G3V240"	"UPI00001BDB9B"	"NM_024824.4,NM_001160103.1,NM_001160104.1"	NA	NA	""	"4/16"	""	"T:0.0008"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	"0.03257"	"0.006884"	"0.0124"	"0.005612"	"0.00967"	"0.02885"	"0.03323"	"0.0366"	"1"	"common_variant"	"ACT"	"490bf5ec-2764-11e6-9fb9-9177424a729f"	"240"	0.02341	"2311/98712"	"3458/106164"	"60/8716"	"128/10326"	"42/7484"	"61/6308"	"1447/50164"	"21/632"	"552/15082"	"PASS"	"FALSE"	0.0238095238095238	"WXS"	FALSE
"869"	"EML5"	161436	"mskcc.org"	"GRCh37"	"14"	89193382	89193383	"+"	"Intron"	"INS"	"-"	"-"	"TTG"	"rs139626436"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1050-363_1050-361dupCAA"	""	""	"ENST00000554922"	""	14	"."	4	2	"."	0	"EML5,intron_variant,,ENST00000554922,NM_183387.2;EML5,intron_variant,,ENST00000352093,;EML5,intron_variant,,ENST00000380664,;"	"TTG"	"ENSG00000165521"	"ENST00000554922"	"Transcript"	"intron_variant"	"-/9570"	"-/5934"	"-/1977"	""	""	"rs139626436"	"1"	NA	-1	"EML5"	"HGNC"	18197	"protein_coding"	"YES"	"CCDS45148.1"	"ENSP00000451998"	"Q05BV3"	""	"UPI00001C0438"	"NM_183387.2"	NA	NA	""	"7/43"	""	"TTG:0.2302"	"TTGTTG:0.0613"	"TTGTTG:0.0029"	NA	"TTGTTG:0"	"TTGTTG:0"	"TTGTTG:0.001"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"4924b776-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"870"	"TTC7B"	145567	"mskcc.org"	"GRCh37"	"14"	91041330	91041338	"+"	"Intron"	"DEL"	"CCCTGGCCT"	"CCCTGGCCT"	"-"	"rs201188669"	NA	"JHCCPT1"	"JHCCPN1"	"CCCTGGCCT"	"CCCTGGCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2310+3112_2310+3120delAGGCCAGGG"	""	""	"ENST00000328459"	""	13	"."	3	2	"."	0	"TTC7B,intron_variant,,ENST00000357056,;TTC7B,intron_variant,,ENST00000328459,NM_001010854.1;TTC7B,intron_variant,,ENST00000553972,;TTC7B,intron_variant,,ENST00000557292,;TTC7B,intron_variant,,ENST00000555894,;TTC7B,intron_variant,,ENST00000554654,;TTC7B,downstream_gene_variant,,ENST00000556960,;TTC7B,intron_variant,,ENST00000555005,;TTC7B,downstream_gene_variant,,ENST00000557059,;"	"-"	"ENSG00000165914"	"ENST00000328459"	"Transcript"	"intron_variant"	"-/3433"	"-/2532"	"-/843"	""	""	"rs201188669"	"1"	NA	-1	"TTC7B"	"HGNC"	19858	"protein_coding"	"YES"	"CCDS32140.1"	"ENSP00000336127"	"Q86TV6"	"G3V3E4,B3KX34"	"UPI00001FD9F0"	"NM_001010854.1"	NA	NA	""	"19/19"	""	"-:0.0361"	"-:0.003"	"-:0.0548"	NA	"-:0"	"-:0.0706"	"-:0.0695"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACCCTGGCCTC"	"3be98f46-2764-11e6-9fb9-9177424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"871"	"TTC7B"	145567	"mskcc.org"	"GRCh37"	"14"	91110587	91110599	"+"	"Intron"	"DEL"	"ACACACATGCACA"	"ACACACATGCACA"	"GCA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ACACACATGCACA"	"ACACACATGCACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1591-45_1591-35delTGCATGTGTGTinsC"	""	""	"ENST00000328459"	""	37	"."	5	29	"."	0	"TTC7B,intron_variant,,ENST00000357056,;TTC7B,intron_variant,,ENST00000328459,NM_001010854.1;TTC7B,upstream_gene_variant,,ENST00000553972,;RP11-1078H9.5,intron_variant,,ENST00000557007,;RP11-1078H9.5,intron_variant,,ENST00000553826,;TTC7B,intron_variant,,ENST00000554654,;TTC7B,intron_variant,,ENST00000556490,;TTC7B,intron_variant,,ENST00000555005,;TTC7B,intron_variant,,ENST00000555239,;TTC7B,downstream_gene_variant,,ENST00000556749,;"	"G"	"ENSG00000165914"	"ENST00000328459"	"Transcript"	"intron_variant"	"-/3433"	"-/2532"	"-/843"	""	""	""	"1"	NA	-1	"TTC7B"	"HGNC"	19858	"protein_coding"	"YES"	"CCDS32140.1"	"ENSP00000336127"	"Q86TV6"	"G3V3E4,B3KX34"	"UPI00001FD9F0"	"NM_001010854.1"	NA	NA	""	"14/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACATACACACATGCACAC"	"4047f460-2764-11e6-9fb9-9177424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135135135135135	"WXS"	FALSE
"872"	"C14orf159"	80017	"mskcc.org"	"GRCh37"	"14"	91682568	91682569	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11462551"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1716+670dupG"	""	""	"ENST00000518868"	""	6	"."	4	1	"."	0	"C14orf159,intron_variant,,ENST00000518868,NM_001286470.1;C14orf159,intron_variant,,ENST00000523771,NM_001286471.1;C14orf159,intron_variant,,ENST00000256324,NM_001102368.1;C14orf159,intron_variant,,ENST00000522322,NM_001102367.1;C14orf159,intron_variant,,ENST00000412671,;C14orf159,intron_variant,,ENST00000523816,NM_001102366.1;C14orf159,intron_variant,,ENST00000521077,NM_001286472.1;C14orf159,intron_variant,,ENST00000520328,NM_001102369.1;C14orf159,intron_variant,,ENST00000428926,NM_024952.6;C14orf159,intron_variant,,ENST00000525393,;C14orf159,intron_variant,,ENST00000522816,;C14orf159,non_coding_transcript_exon_variant,,ENST00000523576,;C14orf159,downstream_gene_variant,,ENST00000557303,;C14orf159,intron_variant,,ENST00000523837,;C14orf159,intron_variant,,ENST00000523461,;C14orf159,intron_variant,,ENST00000517306,;"	"G"	"ENSG00000133943"	"ENST00000518868"	"Transcript"	"intron_variant"	"-/3075"	"-/1866"	"-/621"	""	""	"rs11462551"	"1"	NA	1	"C14orf159"	"HGNC"	20498	"protein_coding"	"YES"	"CCDS41979.1"	"ENSP00000428263"	"Q7Z3D6"	"E5RK56,E5RK14,E5RJD1,E5RJ87,E5RJ62,E5RIU5,E5RIL4,E5RHG2,E5RGP9,E5RFT5"	"UPI000000CC60"	"NM_001286470.1"	NA	NA	""	"16/16"	""	"-:0.0002"	"G:1"	"G:0.9986"	NA	"G:1"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"49532d7c-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"873"	"TC2N"	123036	"mskcc.org"	"GRCh37"	"14"	92264080	92264080	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs201894129"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.855+49delA"	""	""	"ENST00000435962"	""	117	"."	3	52	"."	0	"TC2N,intron_variant,,ENST00000435962,NM_001128596.1;TC2N,intron_variant,,ENST00000340892,NM_152332.4;TC2N,intron_variant,,ENST00000360594,NM_001128595.1;TC2N,intron_variant,,ENST00000556018,;TC2N,intron_variant,,ENST00000556590,;"	"-"	"ENSG00000165929"	"ENST00000435962"	"Transcript"	"intron_variant"	"-/5146"	"-/1473"	"-/490"	""	""	"rs201894129"	"1"	NA	-1	"TC2N"	"HGNC"	19859	"protein_coding"	"YES"	"CCDS9897.1"	"ENSP00000387882"	"Q8N9U0"	""	"UPI000013E531"	"NM_001128596.1"	NA	NA	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.1003"	"0.08734"	"0.09785"	"0.2182"	"0.1276"	"0.19"	"0.17"	"0.2572"	NA	"common_variant"	"TATA"	"3c290824-2764-11e6-9fb9-9177424a729f"	"180"	0.185	"9883/53424"	"10456/104268"	"501/5736"	"427/4364"	"750/3438"	"432/3386"	"4469/23520"	"68/400"	"3236/12580"	"PASS"	"FALSE"	0.0256410256410256	"WXS"	FALSE
"874"	"FBLN5"	10516	"mskcc.org"	"GRCh37"	"14"	92347971	92347971	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs35187606"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.863-209delT"	""	""	"ENST00000342058"	""	15	"."	6	7	"."	0	"FBLN5,intron_variant,,ENST00000267620,;FBLN5,intron_variant,,ENST00000342058,NM_006329.3;FBLN5,intron_variant,,ENST00000556154,;FBLN5,upstream_gene_variant,,ENST00000554121,;"	"-"	"ENSG00000140092"	"ENST00000342058"	"Transcript"	"intron_variant"	"-/2123"	"-/1347"	"-/448"	""	""	"rs35187606"	"1"	NA	-1	"FBLN5"	"HGNC"	3602	"protein_coding"	"YES"	"CCDS9898.1"	"ENSP00000345008"	"Q9UBX5"	"G3V3Y2"	"UPI0000001070"	"NM_006329.3"	NA	NA	""	"8/10"	""	"-:0.2945"	"-:0.0734"	"-:0.4366"	NA	"-:0.4296"	"-:0.326"	"-:0.3211"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTAG"	"3c329f4c-2764-11e6-9fb9-9177424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"875"	"FBLN5"	10516	"mskcc.org"	"GRCh37"	"14"	92407293	92407293	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11366771"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.73-333delA"	""	""	"ENST00000342058"	""	17	"."	7	4	"."	0	"FBLN5,intron_variant,,ENST00000267620,;FBLN5,intron_variant,,ENST00000342058,NM_006329.3;FBLN5,intron_variant,,ENST00000556154,;FBLN5,intron_variant,,ENST00000554468,;FBLN5,intron_variant,,ENST00000557462,;FBLN5,intron_variant,,ENST00000557088,;FBLN5,intron_variant,,ENST00000557570,;"	"-"	"ENSG00000140092"	"ENST00000342058"	"Transcript"	"intron_variant"	"-/2123"	"-/1347"	"-/448"	""	""	"rs11366771"	"1"	NA	-1	"FBLN5"	"HGNC"	3602	"protein_coding"	"YES"	"CCDS9898.1"	"ENSP00000345008"	"Q9UBX5"	"G3V3Y2"	"UPI0000001070"	"NM_006329.3"	NA	NA	""	"2/10"	""	"-:0.0960"	"-:0.2352"	"-:0.0749"	NA	"-:0.0069"	"-:0.0596"	"-:0.0521"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TATT"	"3c356d44-2764-11e6-9fb9-9177424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411764705882353	"WXS"	FALSE
"876"	"SLC24A4"	123041	"mskcc.org"	"GRCh37"	"14"	92911277	92911282	"+"	"Intron"	"DEL"	"ACACAC"	"ACACAC"	"-"	"rs377422000"	NA	"JHCCPT1"	"JHCCPN1"	"ACACAC"	"ACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.658-350_658-345delACACAC"	""	""	"ENST00000532405"	""	20	"."	3	2	"."	0	"SLC24A4,intron_variant,,ENST00000532405,;SLC24A4,intron_variant,,ENST00000531433,NM_153647.3;SLC24A4,intron_variant,,ENST00000298877,NM_153646.3;SLC24A4,intron_variant,,ENST00000393265,NM_153648.3;SLC24A4,intron_variant,,ENST00000351924,;SLC24A4,intron_variant,,ENST00000525557,;SLC24A4,downstream_gene_variant,,ENST00000554461,;SLC24A4,intron_variant,,ENST00000554925,;"	"-"	"ENSG00000140090"	"ENST00000532405"	"Transcript"	"intron_variant"	"-/4718"	"-/1869"	"-/622"	""	""	"rs377422000"	"1"	NA	1	"SLC24A4"	"HGNC"	10978	"protein_coding"	"YES"	"CCDS9903.2"	"ENSP00000431840"	"Q8NFF2"	"G3V505,B4DHR5"	"UPI000044C5DE"	""	NA	NA	""	"7/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"34"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATACACACA"	"3c6ce1de-2764-11e6-9fb9-9177424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"877"	"UBR7"	55148	"mskcc.org"	"GRCh37"	"14"	93676426	93676427	"+"	"Intron"	"INS"	"-"	"-"	"ATTTATTTATTTATTT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.284+128_284+143dupATTTATTTATTTATTT"	""	""	"ENST00000013070"	""	32	"."	4	11	"."	0	"UBR7,intron_variant,,ENST00000013070,NM_175748.3;UBR7,intron_variant,,ENST00000416753,;UBR7,intron_variant,,ENST00000554232,;RP11-371E8.4,intron_variant,,ENST00000557574,;UBR7,intron_variant,,ENST00000553857,;UBR7,intron_variant,,ENST00000556871,;UBR7,intron_variant,,ENST00000555113,;C14orf142,upstream_gene_variant,,ENST00000306954,NM_032490.4;C14orf142,upstream_gene_variant,,ENST00000556566,;RP11-371E8.4,intron_variant,,ENST00000557048,;UBR7,intron_variant,,ENST00000553674,;RP11-371E8.4,downstream_gene_variant,,ENST00000554824,;"	"ATTTATTTATTTATTT"	"ENSG00000012963"	"ENST00000013070"	"Transcript"	"intron_variant"	"-/3694"	"-/1278"	"-/425"	""	""	""	"1"	NA	1	"UBR7"	"HGNC"	20344	"protein_coding"	"YES"	"CCDS9909.1"	"ENSP00000013070"	"Q8N806"	""	"UPI00000373D9"	"NM_175748.3"	NA	NA	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"49b8e6b2-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"878"	"ASB2"	51676	"mskcc.org"	"GRCh37"	"14"	94431114	94431115	"+"	"Intron"	"INS"	"-"	"-"	"ATCC"	"rs34475911"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-73-160_-73-157dupGGAT"	""	""	"ENST00000555019"	""	16	"."	4	4	"."	0	"ASB2,intron_variant,,ENST00000555019,NM_001202429.1;ASB2,intron_variant,,ENST00000555287,;ASB2,intron_variant,,ENST00000557613,;ASB2,intron_variant,,ENST00000556337,;ASB2,downstream_gene_variant,,ENST00000555374,;"	"ATCC"	"ENSG00000100628"	"ENST00000555019"	"Transcript"	"intron_variant"	"-/2842"	"-/1908"	"-/635"	""	""	"rs34475911"	"1"	NA	-1	"ASB2"	"HGNC"	16012	"protein_coding"	"YES"	"CCDS55940.1"	"ENSP00000451575"	"Q96Q27"	"G3V484,B3KPZ6"	"UPI000013D23C"	"NM_001202429.1"	NA	NA	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"49d1d24e-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"879"	"ASB2"	51676	"mskcc.org"	"GRCh37"	"14"	94444434	94444435	"+"	"5'Flank"	"INS"	"-"	"-"	"CA"	"rs35912882"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000555019"	""	9	"."	6	1	"."	0	"ASB2,upstream_gene_variant,,ENST00000555019,NM_001202429.1;ASB2,upstream_gene_variant,,ENST00000555287,;ASB2,upstream_gene_variant,,ENST00000557613,;ASB2,upstream_gene_variant,,ENST00000556337,;ASB2,upstream_gene_variant,,ENST00000555374,;"	"CA"	"ENSG00000100628"	"ENST00000555019"	"Transcript"	"upstream_gene_variant"	"-/2842"	"-/1908"	"-/635"	""	""	"rs35912882"	"1"	"1297"	-1	"ASB2"	"HGNC"	16012	"protein_coding"	"YES"	"CCDS55940.1"	"ENSP00000451575"	"Q96Q27"	"G3V484,B3KPZ6"	"UPI000013D23C"	"NM_001202429.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"49d436d8-2764-11e6-9fb9-9177424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"880"	"ENSR00000423034"	0	"mskcc.org"	"GRCh37"	"14"	95007065	95007065	"+"	"IGR"	"DEL"	"A"	"-"	"-"	"rs11354340"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000423034"	""	8	"."	7	2	"."	0	""	"-"	""	"ENSR00000423034"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs11354340"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4688"	"-:0.4992"	"-:0.4006"	NA	"-:0.7054"	"-:0.4284"	"-:0.593"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAC"	"3ced7bbe-2764-11e6-9fb9-9177424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.875	"WXS"	FALSE
"881"	"SERPINA5"	5104	"mskcc.org"	"GRCh37"	"14"	95057415	95057444	"+"	"Intron"	"DEL"	"TCCACTCCACTCCAGTTCACTCTATTCAGT"	"TCCACTCCACTCCAGTTCACTCTATTCAGT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TCCACTCCACTCCAGTTCACTCTATTCAGT"	"TCCACTCCACTCCAGTTCACTCTATTCAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1038+196_1038+225delGTTCACTCTATTCAGTTCCACTCCACTCCA"	""	""	"ENST00000329597"	""	20	"."	3	13	"."	0	"SERPINA5,intron_variant,,ENST00000329597,NM_000624.5;SERPINA5,intron_variant,,ENST00000554866,;SERPINA5,intron_variant,,ENST00000554276,;SERPINA5,intron_variant,,ENST00000553780,;SERPINA5,downstream_gene_variant,,ENST00000554760,;SERPINA5,downstream_gene_variant,,ENST00000556775,;SERPINA5,downstream_gene_variant,,ENST00000555681,;SERPINA5,downstream_gene_variant,,ENST00000557598,;SERPINA5,downstream_gene_variant,,ENST00000554220,;SERPINA5,downstream_gene_variant,,ENST00000553511,;SERPINA5,downstream_gene_variant,,ENST00000554633,;SERPINA5,downstream_gene_variant,,ENST00000556064,;RP11-986E7.7,upstream_gene_variant,,ENST00000553947,;SERPINA5,downstream_gene_variant,,ENST00000556730,;"	"-"	"ENSG00000188488"	"ENST00000329597"	"Transcript"	"intron_variant"	"-/2312"	"-/1221"	"-/406"	""	""	""	"1"	NA	1	"SERPINA5"	"HGNC"	8723	"protein_coding"	"YES"	"CCDS9928.1"	"ENSP00000333203"	"P05154"	"G3V4B4,G3V482,G3V3Y3,G3V3F5,G3V2M1,G3V265,G3V264"	"UPI000013E52C"	"NM_000624.5"	NA	NA	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"14"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTCCACTCCACTCCAGTTCACTCTATTCAGTT"	"3cf6536a-2764-11e6-9fb9-9177424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"882"	"RP11-991C1.2"	0	"mskcc.org"	"GRCh37"	"14"	95516588	95516610	"+"	"Intron"	"DEL"	"GGAAGGAAGGAAGGAAAGAAGAA"	"GGAAGGAAGGAAGGAAAGAAGAA"	"-"	"rs141805851"	NA	"JHCCPT1"	"JHCCPN1"	"GGAAGGAAGGAAGGAAAGAAGAA"	"GGAAGGAAGGAAGGAAAGAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.42-237_42-215delAGAAGGAAGGAAGGAAGGAAAGA"	""	""	"ENST00000554033"	""	12	"."	4	6	"."	0	"RP11-991C1.2,intron_variant,,ENST00000554033,;"	"-"	"ENSG00000258866"	"ENST00000554033"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/465"	""	""	""	""	"rs141805851"	"1"	NA	1	"RP11-991C1.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"42"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGGAAGGAAGGAAGGAAAGAAGAAG"	"3cfb65bc-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"883"	"RP11-1070N10.5"	0	"mskcc.org"	"GRCh37"	"14"	96085207	96085208	"+"	"5'Flank"	"INS"	"-"	"TCTG"	"TCTG"	"rs79377009"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000555032"	""	6	"."	5	2	"."	0	"RP11-1070N10.5,upstream_gene_variant,,ENST00000555032,;"	"TCTG"	"ENSG00000258927"	"ENST00000555032"	"Transcript"	"upstream_gene_variant"	"-/1714"	""	""	""	""	"rs79377009"	"1"	"2043"	1	"RP11-1070N10.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1589"	"TCTG:0.8109"	"TCTG:0.8963"	NA	"TCTG:0.6994"	"TCTG:0.9235"	"TCTG:0.9039"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"4a05004c-2764-11e6-9fb9-9177424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"884"	"C14orf132"	56967	"mskcc.org"	"GRCh37"	"14"	96550673	96550674	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11379926"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-4034-2169dupA"	""	""	"ENST00000555004"	""	7	"."	4	2	"."	0	"C14orf132,intron_variant,,ENST00000555004,NM_001252507.1;C14orf132,intron_variant,,ENST00000556728,;C14orf132,intron_variant,,ENST00000553764,;C14orf132,intron_variant,,ENST00000553782,;"	"A"	"ENSG00000227051"	"ENST00000555004"	"Transcript"	"intron_variant"	"-/7774"	"-/522"	"-/173"	""	""	"rs11379926"	"1"	NA	1	"C14orf132"	"HGNC"	20346	"protein_coding"	"YES"	""	"ENSP00000451731"	"Q9NPU4"	""	"UPI000000DA03"	"NM_001252507.1"	NA	NA	""	"1/1"	""	"A:0.2484"	"A:0.2557"	"A:0.281"	NA	"A:0.1032"	"A:0.3022"	"A:0.3098"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"4a0b8e3a-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"885"	"RN7SKP108"	0	"mskcc.org"	"GRCh37"	"14"	97099811	97099812	"+"	"3'Flank"	"INS"	"-"	"-"	"CTTCCTTT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000411367"	""	15	"."	4	3	"."	0	"RN7SKP108,downstream_gene_variant,,ENST00000411367,;"	"CTTCCTTT"	"ENSG00000223299"	"ENST00000411367"	"Transcript"	"downstream_gene_variant"	"-/328"	""	""	""	""	""	"1"	"4712"	-1	"RN7SKP108"	"HGNC"	45832	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"4a294696-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"886"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	98733821	98733828	"+"	"IGR"	"DEL"	"AGATAGAC"	"AGATAGAC"	"-"	"rs150227448"	NA	"JHCCPT1"	"JHCCPN1"	"AGATAGAC"	"AGATAGAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150227448"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGATAGACA"	"3db442f8-2764-11e6-9fb9-9177424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"887"	"SETD3"	84193	"mskcc.org"	"GRCh37"	"14"	99865785	99865786	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs11471223"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1339-324_1339-323delCA"	""	""	"ENST00000331768"	""	13	"."	7	7	"."	0	"SETD3,intron_variant,,ENST00000331768,NM_032233.2;SETD3,intron_variant,,ENST00000446066,;SETD3,intron_variant,,ENST00000489770,;"	"-"	"ENSG00000183576"	"ENST00000331768"	"Transcript"	"intron_variant"	"-/2878"	"-/1785"	"-/594"	""	""	"rs11471223"	"1"	NA	-1	"SETD3"	"HGNC"	20493	"protein_coding"	"YES"	"CCDS9951.1"	"ENSP00000327436"	"Q86TU7"	""	"UPI000000CC6D"	"NM_032233.2"	NA	NA	""	"12/12"	""	"-:0.4291"	"-:0.2277"	"-:0.5533"	NA	"-:0.5635"	"-:0.4284"	"-:0.4755"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATGT"	"3dc45030-2764-11e6-9fb9-9177424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.538461538461538	"WXS"	FALSE
"888"	"CCDC85C"	317762	"mskcc.org"	"GRCh37"	"14"	99989014	99989015	"+"	"Intron"	"INS"	"-"	"CCTCCCA"	"CCTCCCA"	"rs146119370"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.868-444_868-438dupTGGGAGG"	""	""	"ENST00000380243"	""	7	"."	5	3	"."	0	"CCDC85C,5_prime_UTR_variant,,ENST00000555822,;CCDC85C,intron_variant,,ENST00000380243,NM_001144995.1;CCNK,intron_variant,,ENST00000555049,;CCDC85C,intron_variant,,ENST00000557576,;CCDC85C,intron_variant,,ENST00000554996,;CCDC85C,intron_variant,,ENST00000556348,;CCDC85C,intron_variant,,ENST00000554877,;CCDC85C,upstream_gene_variant,,ENST00000557769,;"	"CCTCCCA"	"ENSG00000205476"	"ENST00000380243"	"Transcript"	"intron_variant"	"-/5307"	"-/1260"	"-/419"	""	""	"rs146119370"	"1"	NA	-1	"CCDC85C"	"HGNC"	35459	"protein_coding"	"YES"	"CCDS45161.1"	"ENSP00000369592"	"A6NKD9"	"G3V5D5,G3V2D7"	"UPI0000D62448"	"NM_001144995.1"	NA	NA	""	"2/5"	""	"-:0.1496"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"4a415ed4-2764-11e6-9fb9-9177424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"889"	"VDAC3P1"	0	"mskcc.org"	"GRCh37"	"14"	100430533	100430534	"+"	"5'Flank"	"INS"	"-"	"C"	"C"	"rs11413795"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000604654"	""	8	"."	6	2	"."	0	"VDAC3P1,upstream_gene_variant,,ENST00000604654,;"	"C"	"ENSG00000271198"	"ENST00000604654"	"Transcript"	"upstream_gene_variant"	"-/850"	""	""	""	""	"rs11413795"	"1"	"332"	1	"VDAC3P1"	"HGNC"	20722	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0002"	"C:0.9992"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"4a6847ba-2764-11e6-9fb9-9177424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"890"	"MIR337"	442905	"mskcc.org"	"GRCh37"	"14"	101338289	101338290	"+"	"5'Flank"	"DEL"	"CT"	"CT"	"-"	"rs71929058"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000362281"	""	7	"."	4	2	"."	0	"MIR337,upstream_gene_variant,,ENST00000362281,;MIR493,downstream_gene_variant,,ENST00000385254,;MIR665,upstream_gene_variant,,ENST00000606903,;"	"-"	"ENSG00000199151"	"ENST00000362281"	"Transcript"	"upstream_gene_variant"	"-/93"	""	""	""	""	"rs71929058"	"1"	"2540"	1	"MIR337"	"HGNC"	31774	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0921"	"-:0.0151"	"-:0.1556"	NA	"-:0.0079"	"-:0.2296"	"-:0.0961"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTC"	"3e22bb16-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"891"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	101929208	101929208	"+"	"IGR"	"DEL"	"C"	"-"	"-"	"rs35597202"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	6	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35597202"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.0112"	"-:0.9992"	"-:0.9784"	NA	"-:1"	"-:0.9712"	"-:0.9888"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"3e615dee-2764-11e6-9fb9-9177424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"892"	"WDR20"	91833	"mskcc.org"	"GRCh37"	"14"	102664435	102664442	"+"	"Intron"	"DEL"	"TTTATTTA"	"TTTATTTA"	"-"	"rs201180116"	NA	"JHCCPT1"	"JHCCPN1"	"TTTATTTA"	"TTTATTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.525+292_525+299delTTATTTAT"	""	""	"ENST00000454394"	""	18	"."	5	4	"."	0	"WDR20,intron_variant,,ENST00000322340,NM_001242415.1;WDR20,intron_variant,,ENST00000335263,NM_181291.2;WDR20,intron_variant,,ENST00000342702,NM_144574.3,NM_001242418.1;WDR20,intron_variant,,ENST00000556807,NM_001242416.1;WDR20,intron_variant,,ENST00000424963,NM_001242414.1;WDR20,intron_variant,,ENST00000299135,;WDR20,intron_variant,,ENST00000499851,;WDR20,intron_variant,,ENST00000545563,;WDR20,intron_variant,,ENST00000556511,NM_181308.2;WDR20,intron_variant,,ENST00000454394,NM_001242417.1;WDR20,intron_variant,,ENST00000558567,;WDR20,intron_variant,,ENST00000558854,;WDR20,intron_variant,,ENST00000559478,;WDR20,intron_variant,,ENST00000558448,;WDR20,intron_variant,,ENST00000558135,;WDR20,intron_variant,,ENST00000559708,;WDR20,intron_variant,,ENST00000555973,;WDR20,intron_variant,,ENST00000557485,;WDR20,downstream_gene_variant,,ENST00000557186,;WDR20,intron_variant,,ENST00000555879,;WDR20,intron_variant,,ENST00000556094,;"	"-"	"ENSG00000140153"	"ENST00000454394"	"Transcript"	"intron_variant"	"-/2067"	"-/1803"	"-/600"	""	""	"rs201180116"	"1"	NA	1	"WDR20"	"HGNC"	19667	"protein_coding"	"YES"	"CCDS55943.1"	"ENSP00000406084"	"Q8TBZ3"	"H0YNU0,F5H8E6,B3KPG5"	"UPI0000E23AC1"	"NM_001242417.1"	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"41"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTTATTTAT"	"3ea75fec-2764-11e6-9fb9-9177424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"893"	"PPP1R13B"	23368	"mskcc.org"	"GRCh37"	"14"	104251571	104251572	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs143384357"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.158-321dupA"	""	""	"ENST00000202556"	""	8	"."	5	4	"."	0	"PPP1R13B,intron_variant,,ENST00000202556,NM_015316.2;PPP1R13B,intron_variant,,ENST00000553739,;PPP1R13B,intron_variant,,ENST00000555734,;PPP1R13B,intron_variant,,ENST00000554106,;PPP1R13B,intron_variant,,ENST00000556325,;PPP1R13B,intron_variant,,ENST00000557082,;PPP1R13B,intron_variant,,ENST00000554136,;"	"T"	"ENSG00000088808"	"ENST00000202556"	"Transcript"	"intron_variant"	"-/4958"	"-/3273"	"-/1090"	""	""	"rs143384357"	"1"	NA	-1	"PPP1R13B"	"HGNC"	14950	"protein_coding"	"YES"	"CCDS41997.1"	"ENSP00000202556"	"Q96KQ4"	"G3V5J1"	"UPI000049DDC7"	"NM_015316.2"	NA	NA	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"4b35e30a-2764-11e6-9fb9-9177424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"894"	"LINC00638"	196872	"mskcc.org"	"GRCh37"	"14"	105287393	105287394	"+"	"5'Flank"	"INS"	"-"	"-"	"AG"	"rs71129258"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000555578"	""	6	"."	4	1	"."	0	"LINC00638,upstream_gene_variant,,ENST00000555578,;"	"AG"	"ENSG00000258701"	"ENST00000555578"	"Transcript"	"upstream_gene_variant"	"-/2518"	""	""	""	""	"rs71129258"	"1"	"144"	1	"LINC00638"	"HGNC"	28325	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0034"	"AG:0.9887"	"AG:0.9986"	NA	"AG:1"	"AG:1"	"AG:0.999"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"4b6283f6-2764-11e6-9fb9-9177424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"895"	"CTD-3051D23.4"	0	"mskcc.org"	"GRCh37"	"14"	105326518	105326519	"+"	"5'Flank"	"DEL"	"CA"	"CA"	"-"	"rs111368348"	NA	"JHCCPT1"	"JHCCPN1"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000553344"	""	10	"."	5	1	"."	0	"CTD-3051D23.4,upstream_gene_variant,,ENST00000553344,;"	"-"	"ENSG00000258593"	"ENST00000553344"	"Transcript"	"upstream_gene_variant"	"-/1045"	""	""	""	""	"rs111368348"	"1"	"1345"	-1	"CTD-3051D23.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACCAC"	"3f7a6e78-2764-11e6-9fb9-9177424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"896"	"RP11-44N21.2"	0	"mskcc.org"	"GRCh37"	"14"	105580242	105580242	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"rs35517303"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000546955"	""	7	"."	4	1	"."	0	"RP11-44N21.2,upstream_gene_variant,,ENST00000546955,;"	"-"	"ENSG00000258154"	"ENST00000546955"	"Transcript"	"upstream_gene_variant"	"-/175"	""	""	""	""	"rs35517303"	"1"	"1041"	-1	"RP11-44N21.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4403"	"-:0.4939"	"-:0.6052"	NA	"-:0.245"	"-:0.5934"	"-:0.2945"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"3f9a10ca-2764-11e6-9fb9-9177424a729f"	"229"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"897"	"IGHV4-55"	0	"mskcc.org"	"GRCh37"	"14"	107061552	107061552	"+"	"3'Flank"	"DEL"	"A"	"-"	"-"	"rs61181108"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000520889"	""	8	"."	6	3	"."	0	"IGHV4-55,downstream_gene_variant,,ENST00000520889,;IGHV7-56,downstream_gene_variant,,ENST00000518372,;IGHV3-54,upstream_gene_variant,,ENST00000521200,;"	"-"	"ENSG00000254395"	"ENST00000520889"	"Transcript"	"downstream_gene_variant"	"-/368"	""	""	""	""	"rs61181108"	"1"	"559"	-1	"IGHV4-55"	"HGNC"	5653	"IG_V_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"3fe447ee-2764-11e6-9fb9-9177424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"898"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	20409068	20409072	"+"	"IGR"	"DEL"	"AGGGC"	"AGGGC"	"GGT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AGGGC"	"AGGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	3	"."	0	""	"GGT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGGGCG"	"427a5b24-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"899"	"NBEAP1"	0	"mskcc.org"	"GRCh37"	"15"	20866888	20866889	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"rs59071647"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000556948"	""	8	"."	3	1	"."	0	"NBEAP1,downstream_gene_variant,,ENST00000556948,;NBEAP1,intron_variant,,ENST00000554452,;"	"A"	"ENSG00000258590"	"ENST00000556948"	"Transcript"	"downstream_gene_variant"	"-/3036"	""	""	""	""	"rs59071647"	"1"	"3165"	-1	"NBEAP1"	"HGNC"	1007	"retained_intron"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4782"	"A:0.5756"	"A:0.5086"	NA	"A:0.4226"	"A:0.4702"	"A:0.3906"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"4366496c-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"900"	"POTEB2"	100996331	"mskcc.org"	"GRCh37"	"15"	21051536	21051537	"+"	"Intron"	"DEL"	"AA"	"AA"	"-"	"rs528345616"	NA	"JHCCPT1"	"JHCCPN1"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1132-209_1132-208delTT"	""	""	"ENST00000454856"	""	10	"."	3	1	"."	0	"POTEB2,intron_variant,,ENST00000454856,NM_001277303.1;POTEB2,intron_variant,,ENST00000438063,;"	"-"	"ENSG00000230031"	"ENST00000454856"	"Transcript"	"intron_variant"	"-/1687"	"-/1635"	"-/544"	""	""	"rs528345616"	"1"	NA	-1	"POTEB2"	"HGNC"	48327	"protein_coding"	"YES"	"CCDS59248.1"	"ENSP00000456953"	"H3BUK9"	""	"UPI0001A5E771"	"NM_001277303.1"	NA	NA	""	"8/10"	""	"AA:0.4493"	"-:0.5008"	"-:0.5548"	NA	"-:0.5645"	"-:0.5606"	"-:0.591"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTAAA"	"2f452f70-2764-11e6-a0e1-9add414a729f"	"81"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"901"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	21081121	21081122	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs562954961"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs562954961"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4688"	"A:0.4992"	"A:0.5115"	NA	"A:0.5546"	"A:0.5537"	"A:0.5409"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"436bf006-2764-11e6-a0e1-9add414a729f"	"155"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"902"	"IGHD3OR15-3B"	0	"mskcc.org"	"GRCh37"	"15"	21216813	21216814	"+"	"3'Flank"	"INS"	"-"	"-"	"T"	"rs200239023"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000603935"	""	231	"."	5	135	"."	0	"IGHD3OR15-3B,downstream_gene_variant,,ENST00000603935,;IGHD2OR15-2B,downstream_gene_variant,,ENST00000604102,;IGHD5OR15-5B,upstream_gene_variant,,ENST00000604446,;IGHD4OR15-4B,upstream_gene_variant,,ENST00000603693,;"	"T"	"ENSG00000271255"	"ENST00000603935"	"Transcript"	"downstream_gene_variant"	"-/31"	"-/33"	"-/11"	""	""	"rs200239023"	"1"	"1074"	-1	"IGHD3OR15-3B"	"HGNC"	5501	"IG_D_gene"	"YES"	""	"ENSP00000474573"	""	""	"UPI000333517A"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	"0.04758"	"0.1111"	"0.2308"	"0.1667"	"0.5"	"0"	"0"	"0.1389"	NA	"PASS"	"CCT"	"4375516e-2764-11e6-a0e1-9add414a729f"	"117"	0.1488	"25/168"	"59/1240"	"6/54"	"6/26"	"2/12"	"1/2"	"0/2"	"0/0"	"10/72"	"VQSRTrancheINDEL99.95to100.00"	"FALSE"	0.0216450216450216	"WXS"	FALSE
"903"	"RP11-32B5.2"	0	"mskcc.org"	"GRCh37"	"15"	21907965	21907967	"+"	"5'Flank"	"DEL"	"ATG"	"ATG"	"-"	"rs138928652"	NA	"JHCCPT1"	"JHCCPN1"	"ATG"	"ATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000555285"	""	8	"."	4	1	"."	0	"RP11-32B5.2,upstream_gene_variant,,ENST00000555285,;"	"-"	"ENSG00000258883"	"ENST00000555285"	"Transcript"	"upstream_gene_variant"	"-/382"	""	""	""	""	"rs138928652"	"1"	"4908"	-1	"RP11-32B5.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0212"	"-:0.0023"	"-:0.0029"	NA	"-:0.0536"	"-:0.0268"	"-:0.0204"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAATGA"	"2f4da90c-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"904"	"POTEB"	317754	"mskcc.org"	"GRCh37"	"15"	22084384	22084439	"+"	"5'Flank"	"DEL"	"CTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAA"	"ACCTGGGTGACAAAGCAAGACTCTGTC"	"ACCTGGGTGACAAAGCAAGACTCTGTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAA"	"CTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000439682"	""	7	"."	5	1	"."	0	"POTEB,upstream_gene_variant,,ENST00000439682,NM_001277304.1,NM_207355.2;POTEB,upstream_gene_variant,,ENST00000553662,;POTEB,upstream_gene_variant,,ENST00000570157,;POTEB,upstream_gene_variant,,ENST00000435397,;"	"ACCTGGGTGACAAAGCAAGACTCTGTC"	"ENSG00000233917"	"ENST00000439682"	"Transcript"	"upstream_gene_variant"	"-/1706"	"-/1635"	"-/544"	""	""	""	"1"	"1562"	-1	"POTEB"	"HGNC"	33734	"protein_coding"	"YES"	"CCDS59250.1"	"ENSP00000457689"	""	""	"UPI0001A5E771"	"NM_001277304.1,NM_207355.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAA"	"427ff188-2764-11e6-a0e1-9add414a729f"	"25"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"905"	"RP11-69H14.6"	101927079	"mskcc.org"	"GRCh37"	"15"	22323961	22324066	"+"	"Intron"	"DEL"	"CTCTTTTCCTTCCCTTCCCTTCCCTTCTTTTCTTTCTTTCTTTCTCTTTCTTTCTTTCTTTCTTTCTTCCTTTCTTTCTTTCTTTCTTTCTCTCTCTCTTTTCCTT"	"CTCTTTTCCTTCCCTTCCCTTCCCTTCTTTTCTTTCTTTCTTTCTCTTTCTTTCTTTCTTTCTTTCTTCCTTTCTTTCTTTCTTTCTTTCTCTCTCTCTTTTCCTT"	"TT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CTCTTTTCCTTCCCTTCCCTTCCCTTCTTTTCTTTCTTTCTTTCTCTTTCTTTCTTTCTTTCTTTCTTCCTTTCTTTCTTTCTTTCTTTCTCTCTCTCTTTTCCTT"	"CTCTTTTCCTTCCCTTCCCTTCCCTTCTTTTCTTTCTTTCTTTCTCTTTCTTTCTTTCTTTCTTTCTTCCTTTCTTTCTTTCTTTCTTTCTCTCTCTCTTTTCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.194+4990_194+5093delCTCTTTTCCTTCCCTTCCCTTCCCTTCTTTTCTTTCTTTCTTTCTCTTTCTTTCTTTCTTTCTTTCTTCCTTTCTTTCTTTCTTTCTTTCTCTCTCTCTTTTCC"	""	""	"ENST00000558896"	""	15	"."	3	7	"."	0	"RP11-69H14.6,intron_variant,,ENST00000558896,;RP11-69H14.6,intron_variant,,ENST00000558312,;RP11-69H14.6,intron_variant,,ENST00000560134,;RP11-69H14.6,intron_variant,,ENST00000560193,;RP11-69H14.6,intron_variant,,ENST00000557817,;RP11-69H14.6,intron_variant,,ENST00000558798,;RP11-69H14.6,intron_variant,,ENST00000557855,;RP11-69H14.6,intron_variant,,ENST00000559392,;OR11K1P,upstream_gene_variant,,ENST00000558299,;"	"-"	"ENSG00000259176"	"ENST00000558896"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2317"	""	""	""	""	""	"1"	NA	1	"RP11-69H14.6"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTCTTTTCCTTCCCTTCCCTTCCCTTCTTTTCTTTCTTTCTTTCTCTTTCTTTCTTTCTTTCTTTCTTCCTTTCTTTCTTTCTTTCTTTCTCTCTCTCTTTTCCTTC"	"42816522-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"906"	"OR4N3P"	390539	"mskcc.org"	"GRCh37"	"15"	22409805	22409806	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs58363164"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000559395"	""	17	"."	7	4	"."	0	"RP11-69H14.6,intron_variant,,ENST00000559392,;RP11-69H14.6,downstream_gene_variant,,ENST00000558798,;OR4N3P,upstream_gene_variant,,ENST00000559395,;"	"A"	"ENSG00000259435"	"ENST00000559395"	"Transcript"	"upstream_gene_variant"	"-/818"	""	""	""	""	"rs58363164"	"1"	"3763"	1	"OR4N3P"	"HGNC"	15374	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.2578"	"A:0.3366"	"A:0.2248"	NA	"A:0.131"	"A:0.2813"	"A:0.2812"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"4390a586-2764-11e6-a0e1-9add414a729f"	"418"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411764705882353	"WXS"	FALSE
"907"	"AC116165.1"	0	"mskcc.org"	"GRCh37"	"15"	22709283	22709284	"+"	"5'Flank"	"INS"	"-"	"-"	"AAAAG"	"rs533928773"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408073"	""	10	"."	3	1	"."	0	"AC116165.1,upstream_gene_variant,,ENST00000408073,;RN7SL545P,upstream_gene_variant,,ENST00000495815,;GOLGA8DP,intron_variant,,ENST00000314246,;GOLGA8DP,intron_variant,,ENST00000341390,;"	"AAAAG"	"ENSG00000221000"	"ENST00000408073"	"Transcript"	"upstream_gene_variant"	"-/83"	""	""	""	""	"rs533928773"	"1"	"3273"	-1	"AC116165.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	"0.003698"	"0.003868"	"0.002367"	"0.001185"	"0.007225"	"0.001437"	"0.004658"	"0.002699"	NA	"common_variant"	"AAA"	"43b1962e-2764-11e6-a0e1-9add414a729f"	"81"	0.002304	"218/94626"	"378/102220"	"27/6980"	"25/10564"	"8/6752"	"44/6090"	"69/48032"	"3/644"	"42/15564"	"VQSRTrancheINDEL99.00to99.50"	"FALSE"	0.3	"WXS"	FALSE
"908"	"GABRG3"	2567	"mskcc.org"	"GRCh37"	"15"	27445201	27445213	"+"	"Intron"	"DEL"	"TTCTTTCCTTCCT"	"TTCTTTCCTTCCT"	"-"	"rs143815994"	NA	"JHCCPT1"	"JHCCPN1"	"TTCTTTCCTTCCT"	"TTCTTTCCTTCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.271-126747_271-126735delTTCCTTTCTTTCC"	""	""	"ENST00000333743"	""	16	"."	4	3	"."	0	"GABRG3,intron_variant,,ENST00000333743,NM_033223.4;GABRG3,intron_variant,,ENST00000555083,NM_001270873.1;"	"-"	"ENSG00000182256"	"ENST00000333743"	"Transcript"	"intron_variant"	"-/2004"	"-/1404"	"-/467"	""	""	"rs143815994"	"1"	NA	1	"GABRG3"	"HGNC"	4088	"protein_coding"	"YES"	"CCDS45195.1"	"ENSP00000331912"	"Q99928"	""	"UPI000012AFCB"	"NM_033223.4"	NA	NA	""	"3/9"	""	"-:0.2075"	"-:0.1944"	"-:0.2392"	NA	"-:0.3224"	"-:0.175"	"-:0.1176"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTCTTTCCTTCCTT"	"30711d32-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"909"	"GOLGA8G"	283768	"mskcc.org"	"GRCh37"	"15"	28771704	28771705	"+"	"Intron"	"INS"	"-"	"-"	"AG"	"rs570701376"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.914-48_914-47insCT"	""	""	"ENST00000525590"	""	17	"."	3	11	"."	0	"GOLGA8G,intron_variant,,ENST00000329523,;GOLGA8G,intron_variant,,ENST00000525590,;AC138749.1,upstream_gene_variant,,ENST00000458870,;RN7SL829P,upstream_gene_variant,,ENST00000489494,;GOLGA8G,intron_variant,,ENST00000562627,;GOLGA8G,intron_variant,,ENST00000382949,;GOLGA8G,intron_variant,,ENST00000524859,;GOLGA8G,intron_variant,,ENST00000569308,;GOLGA8G,downstream_gene_variant,,ENST00000570018,;GOLGA8G,downstream_gene_variant,,ENST00000561497,;GOLGA8G,downstream_gene_variant,,ENST00000568534,;"	"AG"	"ENSG00000183629"	"ENST00000525590"	"Transcript"	"intron_variant"	"-/2009"	"-/1947"	"-/648"	""	""	"rs570701376"	"1"	NA	-1	"GOLGA8G"	"HGNC"	25328	"protein_coding"	"YES"	""	"ENSP00000458130"	""	"H3BMC3"	"UPI00024672FE"	""	NA	NA	""	"11/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"4445626e-2764-11e6-a0e1-9add414a729f"	"3"	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.176470588235294	"WXS"	FALSE
"910"	"RP11-932O9.10"	0	"mskcc.org"	"GRCh37"	"15"	30936941	30936942	"+"	"5'Flank"	"DEL"	"GT"	"GT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GT"	"GT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000602684"	""	8	"."	5	1	"."	0	"RP11-932O9.10,upstream_gene_variant,,ENST00000602684,;U8,downstream_gene_variant,,ENST00000516793,;ARHGAP11B,intron_variant,,ENST00000564902,;ARHGAP11B,upstream_gene_variant,,ENST00000566548,;ARHGAP11B,intron_variant,,ENST00000563110,;"	"-"	"ENSG00000269974"	"ENST00000602684"	"Transcript"	"upstream_gene_variant"	"-/733"	""	""	""	""	""	"1"	"4058"	1	"RP11-932O9.10"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTGTC"	"42b21118-2764-11e6-a0e1-9add414a729f"	"228"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"911"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	32300550	32300556	"+"	"IGR"	"DEL"	"CCCTTCT"	"CCCTTCT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CCCTTCT"	"CCCTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTCCCTTCTC"	"42b4bc1a-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"912"	"CHRNA7"	89832	"mskcc.org"	"GRCh37"	"15"	32366265	32366266	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs138618250"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.283-27240dupC"	""	""	"ENST00000454250"	""	11	"."	3	1	"."	0	"CHRNA7,intron_variant,,ENST00000306901,NM_000746.5;CHRNA7,intron_variant,,ENST00000454250,NM_001190455.2;CHRNA7,intron_variant,,ENST00000455693,;CHRNA7,intron_variant,,ENST00000437966,;"	"C"	"ENSG00000175344"	"ENST00000454250"	"Transcript"	"intron_variant"	"-/2093"	"-/1596"	"-/531"	""	""	"rs138618250"	"1"	NA	1	"CHRNA7"	"HGNC"	1960	"protein_coding"	"YES"	"CCDS53924.1"	"ENSP00000407546"	"P36544"	"Q693P7"	"UPI0000E23BA6"	"NM_001190455.2"	NA	NA	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTC"	"44860828-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"913"	"RYR3"	6263	"mskcc.org"	"GRCh37"	"15"	33842940	33842940	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs5811770"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.972+430delA"	""	""	"ENST00000389232"	""	11	"."	4	2	"."	0	"RYR3,intron_variant,,ENST00000389232,NM_001036.3;RYR3,intron_variant,,ENST00000415757,NM_001243996.1;"	"-"	"ENSG00000198838"	"ENST00000389232"	"Transcript"	"intron_variant"	"-/15559"	"-/14613"	"-/4870"	""	""	"rs5811770"	"1"	NA	1	"RYR3"	"HGNC"	10485	"protein_coding"	"YES"	"CCDS45210.1"	"ENSP00000373884"	"Q15413"	""	"UPI0000E5B01A"	"NM_001036.3"	NA	NA	""	"10/103"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"314cd714-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"914"	"CHRM5"	1133	"mskcc.org"	"GRCh37"	"15"	34300685	34300697	"+"	"Intron"	"DEL"	"TTTTTTTTTTTTT"	"TTTTTTTTTTTTT"	"-"	"rs200355232"	NA	"JHCCPT1"	"JHCCPN1"	"TTTTTTTTTTTTT"	"TTTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-407-38046_-407-38034delTTTTTTTTTTTTT"	""	""	"ENST00000383263"	""	12	"."	4	1	"."	0	"CHRM5,intron_variant,,ENST00000383263,NM_012125.3;AVEN,intron_variant,,ENST00000306730,NM_020371.2;CHRM5,intron_variant,,ENST00000560035,;"	"-"	"ENSG00000184984"	"ENST00000383263"	"Transcript"	"intron_variant"	"-/3043"	"-/1599"	"-/532"	""	""	"rs200355232"	"1"	NA	1	"CHRM5"	"HGNC"	1954	"protein_coding"	"YES"	"CCDS10031.1"	"ENSP00000372750"	"P08912"	"H0YKC0"	"UPI0000050412"	"NM_012125.3"	NA	NA	""	"1/2"	""	"TTTTTTTTTTTTT:0.2137"	"-:0.3986"	"-:0.9092"	NA	"-:0.9573"	"-:0.9453"	"-:0.8834"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTTTTTTTTTTTTT"	"31b325b4-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"915"	"DPH6-AS1"	100507466	"mskcc.org"	"GRCh37"	"15"	36094015	36094039	"+"	"Intron"	"DEL"	"TTCTTCTTCTTCTTCCGCTTCTTCT"	"TTCTTCTTCTTCTTCCGCTTCTTCT"	"-"	"rs146836170"	NA	"JHCCPT1"	"JHCCPN1"	"TTCTTCTTCTTCTTCCGCTTCTTCT"	"TTCTTCTTCTTCTTCCGCTTCTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.463-56158_463-56134delCGCTTCTTCTTTCTTCTTCTTCTTC"	""	""	"ENST00000501169"	""	12	"."	3	6	"."	0	"DPH6-AS1,intron_variant,,ENST00000501169,;DPH6-AS1,intron_variant,,ENST00000559210,;"	"-"	"ENSG00000248079"	"ENST00000501169"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1477"	""	""	""	""	"rs146836170"	"1"	NA	1	"DPH6-AS1"	"HGNC"	44147	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTCTTCTTCTTCTTCCGCTTCTTCTT"	"32a671ce-2764-11e6-a0e1-9add414a729f"	"144"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"916"	"MIR4510"	100616293	"mskcc.org"	"GRCh37"	"15"	36218919	36218922	"+"	"5'Flank"	"DEL"	"AATT"	"AATT"	"-"	"rs775892094"	NA	"JHCCPT1"	"JHCCPN1"	"AATT"	"AATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000578635"	""	47	"."	10	15	"."	0	"MIR4510,upstream_gene_variant,,ENST00000578635,;"	"-"	"ENSG00000265098"	"ENST00000578635"	"Transcript"	"upstream_gene_variant"	"-/68"	""	""	""	""	"rs775892094"	"1"	"135"	1	"MIR4510"	"HGNC"	41708	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAAATTA"	"32a8ed50-2764-11e6-a0e1-9add414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212765957446809	"WXS"	FALSE
"917"	"SPRED1"	161742	"mskcc.org"	"GRCh37"	"15"	38556764	38556765	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35263920"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.32+11354dupT"	""	""	"ENST00000299084"	""	8	"."	4	1	"."	0	"SPRED1,intron_variant,,ENST00000299084,NM_152594.2;SPRED1,intron_variant,,ENST00000561317,;SPRED1,intron_variant,,ENST00000561205,;"	"T"	"ENSG00000166068"	"ENST00000299084"	"Transcript"	"intron_variant"	"-/7780"	"-/1335"	"-/444"	""	""	"rs35263920"	"1"	NA	1	"SPRED1"	"HGNC"	20249	"protein_coding"	"YES"	"CCDS32193.1"	"ENSP00000299084"	"Q7Z699"	"H0YMN8"	"UPI0000072FBD"	"NM_152594.2"	NA	NA	""	"1/6"	""	"-:0.2460"	"T:0.5174"	"T:0.8213"	NA	"T:0.8026"	"T:0.8718"	"T:0.8548"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"454a511a-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"918"	"ZFYVE19"	84936	"mskcc.org"	"GRCh37"	"15"	41104772	41104789	"+"	"Intron"	"DEL"	"AAAGAAAGAAAGAAAGAA"	"AAAGAAAGAAAGAAAGAA"	"-"	"rs141515751"	NA	"JHCCPT1"	"JHCCPN1"	"AAAGAAAGAAAGAAAGAA"	"AAAGAAAGAAAGAAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.827-122_827-105delGAAAGAAAGAAAGAAAAA"	""	""	"ENST00000355341"	""	28	"."	8	10	"."	0	"ZFYVE19,intron_variant,,ENST00000355341,NM_001077268.1;ZFYVE19,intron_variant,,ENST00000564258,NM_001258421.1;ZFYVE19,intron_variant,,ENST00000336455,NM_032850.4;ZFYVE19,intron_variant,,ENST00000570108,;ZFYVE19,intron_variant,,ENST00000299173,NM_001258420.1;ZFYVE19,intron_variant,,ENST00000566407,;ZFYVE19,intron_variant,,ENST00000561617,;PPP1R14D,downstream_gene_variant,,ENST00000299174,NM_017726.7;PPP1R14D,downstream_gene_variant,,ENST00000427255,NM_001130143.1;ZFYVE19,downstream_gene_variant,,ENST00000566767,;ZFYVE19,downstream_gene_variant,,ENST00000563530,;ZFYVE19,intron_variant,,ENST00000560078,;ZFYVE19,intron_variant,,ENST00000561768,;ZFYVE19,intron_variant,,ENST00000569057,;ZFYVE19,downstream_gene_variant,,ENST00000568062,;ZFYVE19,downstream_gene_variant,,ENST00000567756,;ZFYVE19,downstream_gene_variant,,ENST00000570162,;ZFYVE19,upstream_gene_variant,,ENST00000563497,;"	"-"	"ENSG00000166140"	"ENST00000355341"	"Transcript"	"intron_variant"	"-/2260"	"-/1416"	"-/471"	""	""	"rs141515751"	"1"	NA	1	"ZFYVE19"	"HGNC"	20758	"protein_coding"	"YES"	"CCDS42025.1"	"ENSP00000347498"	"Q96K21"	"H3BUW6"	"UPI0000E5924A"	"NM_001077268.1"	NA	NA	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAAGAAAGAAAGAAAGAAA"	"33f1db86-2764-11e6-a0e1-9add414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"919"	"MGA"	23269	"mskcc.org"	"GRCh37"	"15"	41943881	41943897	"+"	"Intron"	"DEL"	"TTCCCCTCTCTTACCCC"	"TTCCCCTCTCTTACCCC"	"-"	"rs138040840"	NA	"JHCCPT1"	"JHCCPN1"	"TTCCCCTCTCTTACCCC"	"TTCCCCTCTCTTACCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-67-17121_-67-17105delCTCTTACCCCTTCCCCT"	""	""	"ENST00000563576"	""	9	"."	6	2	"."	0	"MGA,intron_variant,,ENST00000563576,;MGA,intron_variant,,ENST00000568630,;"	"-"	"ENSG00000174197"	"ENST00000563576"	"Transcript"	"intron_variant"	"-/3537"	"-/3416"	"-/1138"	""	""	"rs138040840"	"1"	NA	1	"MGA"	"HGNC"	14010	"protein_coding"	""	""	"ENSP00000457151"	""	"H3BTF4,H3BP52"	"UPI00024672F1"	""	NA	NA	""	"1/8"	""	"TTCCCCTCTCTTACCCC:0.3407"	"-:0.4455"	"-:0.7248"	NA	"-:0.7649"	"-:0.7157"	"-:0.7352"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"24"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTCCCCTCTCTTACCCCT"	"342caea0-2764-11e6-a0e1-9add414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"920"	"TMEM87A"	25963	"mskcc.org"	"GRCh37"	"15"	42534720	42534721	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs72493971"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.622+1527dupC"	""	""	"ENST00000389834"	""	9	"."	4	2	"."	0	"TMEM87A,intron_variant,,ENST00000389834,NM_015497.3;TMEM87A,intron_variant,,ENST00000448392,NM_001286487.1;TMEM87A,intron_variant,,ENST00000568400,;TMEM87A,intron_variant,,ENST00000563371,;TMEM87A,intron_variant,,ENST00000561578,;TMEM87A,downstream_gene_variant,,ENST00000566474,;TMEM87A,intron_variant,,ENST00000562946,;TMEM87A,intron_variant,,ENST00000569075,;"	"G"	"ENSG00000103978"	"ENST00000389834"	"Transcript"	"intron_variant"	"-/3109"	"-/1668"	"-/555"	""	""	"rs72493971"	"1"	NA	-1	"TMEM87A"	"HGNC"	24522	"protein_coding"	"YES"	"CCDS32205.1"	"ENSP00000374484"	"Q8NBN3"	"H3BPJ4,H3BMU0,H3BM87"	"UPI0000073A7E"	"NM_015497.3"	NA	NA	""	"7/19"	""	"-:0.3980"	"G:0.264"	"G:0.5072"	NA	"G:0.8185"	"G:0.8648"	"G:0.6329"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"465a5244-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"921"	"TGM7"	116179	"mskcc.org"	"GRCh37"	"15"	43576541	43576542	"+"	"Intron"	"INS"	"-"	"-"	"AC"	"rs10654403"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1004+469_1004+470dupGT"	""	""	"ENST00000452443"	""	9	"."	4	2	"."	0	"TGM7,intron_variant,,ENST00000452443,NM_052955.2;"	"AC"	"ENSG00000159495"	"ENST00000452443"	"Transcript"	"intron_variant"	"-/2313"	"-/2133"	"-/710"	""	""	"rs10654403"	"1"	NA	-1	"TGM7"	"HGNC"	30790	"protein_coding"	"YES"	"CCDS32213.1"	"ENSP00000389466"	"Q96PF1"	""	"UPI0000049F68"	"NM_052955.2"	NA	NA	""	"7/12"	""	"AC:0.4806"	"AC:0.7943"	"AC:0.3199"	NA	"AC:0.4058"	"AC:0.326"	"AC:0.407"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"46917d78-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"922"	"ENSR00000236971"	0	"mskcc.org"	"GRCh37"	"15"	45586202	45586217	"+"	"IGR"	"DEL"	"GAGAGGCAGAGAGGCA"	"GAGAGGCAGAGAGGCA"	"-"	"rs540951961"	NA	"JHCCPT1"	"JHCCPN1"	"GAGAGGCAGAGAGGCA"	"GAGAGGCAGAGAGGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000236971"	""	8	"."	4	5	"."	0	""	"-"	""	"ENSR00000236971"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs540951961"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGAGAGGCAGAGAGGCAG"	"359caaba-2764-11e6-a0e1-9add414a729f"	"186"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"923"	"GATM"	2628	"mskcc.org"	"GRCh37"	"15"	45661894	45661895	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs58836959"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.289-176dupT"	""	""	"ENST00000396659"	""	8	"."	3	4	"."	0	"GATM,intron_variant,,ENST00000396659,NM_001482.2;GATM,intron_variant,,ENST00000558336,;GATM,intron_variant,,ENST00000561148,;GATM,intron_variant,,ENST00000559885,;GATM,intron_variant,,ENST00000558163,;GATM,intron_variant,,ENST00000558537,;GATM,non_coding_transcript_exon_variant,,ENST00000558916,;GATM,intron_variant,,ENST00000558362,;GATM,intron_variant,,ENST00000558118,;GATM,upstream_gene_variant,,ENST00000561376,;"	"A"	"ENSG00000171766"	"ENST00000396659"	"Transcript"	"intron_variant"	"-/2597"	"-/1272"	"-/423"	""	""	"rs58836959"	"1"	NA	-1	"GATM"	"HGNC"	4175	"protein_coding"	"YES"	"CCDS10122.1"	"ENSP00000379895"	"P50440"	"H0YN43,H0YLC6,H0YKW9"	"UPI0000111EFD"	"NM_001482.2"	NA	NA	""	"2/8"	""	"A:0.0992"	"A:0.0537"	"A:0.0634"	NA	"A:0.0804"	"A:0.1302"	"A:0.1738"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTA"	"46f34634-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"924"	"SEMA6D"	80031	"mskcc.org"	"GRCh37"	"15"	48023509	48023510	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs111256165"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-55+12446dupC"	""	""	"ENST00000316364"	""	8	"."	4	6	"."	0	"SEMA6D,intron_variant,,ENST00000316364,NM_153618.1;SEMA6D,intron_variant,,ENST00000389433,;SEMA6D,intron_variant,,ENST00000558014,NM_001198999.1;SEMA6D,intron_variant,,ENST00000389432,;SEMA6D,intron_variant,,ENST00000354744,NM_153617.1;SEMA6D,intron_variant,,ENST00000358066,NM_020858.1;SEMA6D,intron_variant,,ENST00000355997,NM_153619.1;SEMA6D,intron_variant,,ENST00000389428,NM_153616.1;SEMA6D,intron_variant,,ENST00000537942,;SEMA6D,intron_variant,,ENST00000558816,;SEMA6D,intron_variant,,ENST00000536845,;SEMA6D,intron_variant,,ENST00000389425,NM_024966.2;SEMA6D,intron_variant,,ENST00000561133,;SEMA6D,intron_variant,,ENST00000559184,;SEMA6D,intron_variant,,ENST00000560636,;SEMA6D,intron_variant,,ENST00000561106,;CTD-2270N23.1,upstream_gene_variant,,ENST00000497325,;"	"C"	"ENSG00000137872"	"ENST00000316364"	"Transcript"	"intron_variant"	"-/6099"	"-/3222"	"-/1073"	""	""	"rs111256165"	"1"	NA	1	"SEMA6D"	"HGNC"	16770	"protein_coding"	"YES"	"CCDS32225.1"	"ENSP00000324857"	"Q8NFY4"	"Q9HAH9,H0YMV0,H0YMA6,H0YL82"	"UPI000006E201"	"NM_153618.1"	NA	NA	""	"1/18"	""	"C:0.1991"	"C:0.0416"	"C:0.2507"	NA	"C:0.1825"	"C:0.2823"	"C:0.3067"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"470d0290-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"925"	"RP11-208K4.1"	0	"mskcc.org"	"GRCh37"	"15"	48339247	48339247	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35597048"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.259-1738delT"	""	""	"ENST00000560900"	""	7	"."	4	1	"."	0	"RP11-208K4.1,intron_variant,,ENST00000560900,;"	"-"	"ENSG00000259754"	"ENST00000560900"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/581"	""	""	""	""	"rs35597048"	"1"	NA	1	"RP11-208K4.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	"-:0.4659"	"-:0.2065"	"-:0.4164"	NA	"-:0.6736"	"-:0.5755"	"-:0.5245"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATT"	"35d0767e-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"926"	"SPPL2A"	84888	"mskcc.org"	"GRCh37"	"15"	51024530	51024531	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11407403"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1014+269dupT"	""	""	"ENST00000261854"	""	16	"."	7	8	"."	0	"SPPL2A,intron_variant,,ENST00000261854,NM_032802.3;SPPL2A,intron_variant,,ENST00000558934,;SPPL2A,intron_variant,,ENST00000559527,;"	"A"	"ENSG00000138600"	"ENST00000261854"	"Transcript"	"intron_variant"	"-/2329"	"-/1563"	"-/520"	""	""	"rs11407403"	"1"	NA	-1	"SPPL2A"	"HGNC"	30227	"protein_coding"	"YES"	"CCDS10138.1"	"ENSP00000261854"	"Q8TCT8"	"H0YNA7"	"UPI0000013591"	"NM_032802.3"	NA	NA	""	"9/14"	""	"-:0.0016"	"A:0.9985"	"A:1"	NA	"A:0.997"	"A:0.999"	"A:0.998"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"47b596ee-2764-11e6-a0e1-9add414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4375	"WXS"	FALSE
"927"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	51194058	51194058	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs34946033"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34946033"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1857"	"-:0.1415"	"-:0.1758"	NA	"-:0.1488"	"-:0.2396"	"-:0.2352"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGA"	"3682f5ec-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"928"	"TMOD3"	29766	"mskcc.org"	"GRCh37"	"15"	52153621	52153621	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs35434219"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-74-1386delC"	""	""	"ENST00000308580"	""	13	"."	4	3	"."	0	"TMOD3,intron_variant,,ENST00000308580,NM_014547.4;TMOD3,intron_variant,,ENST00000558455,;TMOD3,upstream_gene_variant,,ENST00000544199,;RP11-56B16.1,upstream_gene_variant,,ENST00000560291,;"	"-"	"ENSG00000138594"	"ENST00000308580"	"Transcript"	"intron_variant"	"-/4668"	"-/1059"	"-/352"	""	""	"rs35434219"	"1"	NA	1	"TMOD3"	"HGNC"	11873	"protein_coding"	"YES"	"CCDS10145.1"	"ENSP00000308753"	"Q9NYL9"	"H0YNU8,H0YNJ8"	"UPI0000137082"	"NM_014547.4"	NA	NA	""	"1/9"	""	"-:0.3134"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"36d784d6-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"929"	"TMOD3"	29766	"mskcc.org"	"GRCh37"	"15"	52193769	52193770	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGTGT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.880-287_880-280dupGTGTGTGT"	""	""	"ENST00000308580"	""	7	"."	3	6	"."	0	"TMOD3,intron_variant,,ENST00000308580,NM_014547.4;TMOD3,intron_variant,,ENST00000544199,;RP11-56B16.5,upstream_gene_variant,,ENST00000558142,;TMOD3,intron_variant,,ENST00000560725,;TMOD3,intron_variant,,ENST00000560549,;TMOD3,intron_variant,,ENST00000561438,;"	"GTGTGTGT"	"ENSG00000138594"	"ENST00000308580"	"Transcript"	"intron_variant"	"-/4668"	"-/1059"	"-/352"	""	""	""	"1"	NA	1	"TMOD3"	"HGNC"	11873	"protein_coding"	"YES"	"CCDS10145.1"	"ENSP00000308753"	"Q9NYL9"	"H0YNU8,H0YNJ8"	"UPI0000137082"	"NM_014547.4"	NA	NA	""	"8/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"40"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"47f84994-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"930"	"MYO5A"	4644	"mskcc.org"	"GRCh37"	"15"	52602752	52602754	"+"	"3'UTR"	"DEL"	"AAC"	"-"	"-"	"rs34647073"	NA	"JHCCPT1"	"JHCCPN1"	"AAC"	"AAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*3139_*3141delGTT"	""	""	"ENST00000399231"	"41/41"	7	"."	5	2	"."	0	"MYO5A,3_prime_UTR_variant,,ENST00000399231,NM_000259.3;MYO5A,3_prime_UTR_variant,,ENST00000399233,;MYO5A,3_prime_UTR_variant,,ENST00000358212,;MYO5A,3_prime_UTR_variant,,ENST00000356338,NM_001142495.1;MYO5A,downstream_gene_variant,,ENST00000553916,;MYO5A,downstream_gene_variant,,ENST00000399229,;"	"-"	"ENSG00000197535"	"ENST00000399231"	"Transcript"	"3_prime_UTR_variant"	"8951-8953/12225"	"-/5568"	"-/1855"	""	""	"rs34647073"	"1"	NA	-1	"MYO5A"	"HGNC"	7602	"protein_coding"	"YES"	"CCDS42037.1"	"ENSP00000382177"	"Q9Y4I1"	"Q9UES4"	"UPI0000E445E1"	"NM_000259.3"	NA	NA	"41/41"	""	""	"-:0.1500"	"-:0.1104"	"-:0.1527"	NA	"-:0.1706"	"-:0.1819"	"-:0.1472"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGAACA"	"37005154-2764-11e6-a0e1-9add414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	TRUE
"931"	"MYO5A"	4644	"mskcc.org"	"GRCh37"	"15"	52752853	52752854	"+"	"Intron"	"INS"	"-"	"-"	"GCGAGG"	"rs150007594"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.28-27377_28-27372dupCCTCGC"	""	""	"ENST00000399231"	""	26	"."	5	4	"."	0	"MYO5A,intron_variant,,ENST00000399231,NM_000259.3;MYO5A,intron_variant,,ENST00000399233,;MYO5A,intron_variant,,ENST00000356338,NM_001142495.1;MYO5A,intron_variant,,ENST00000553916,;MYO5A,intron_variant,,ENST00000556196,;"	"GCGAGG"	"ENSG00000197535"	"ENST00000399231"	"Transcript"	"intron_variant"	"-/12225"	"-/5568"	"-/1855"	""	""	"rs150007594"	"1"	NA	-1	"MYO5A"	"HGNC"	7602	"protein_coding"	"YES"	"CCDS42037.1"	"ENSP00000382177"	"Q9Y4I1"	"Q9UES4"	"UPI0000E445E1"	"NM_000259.3"	NA	NA	""	"1/40"	""	"GCGAGG:0.1394"	"GCGAGG:0.0862"	"GCGAGG:0.1499"	NA	"GCGAGG:0.1587"	"GCGAGG:0.171"	"GCGAGG:0.1513"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"4843a740-2764-11e6-a0e1-9add414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WXS"	TRUE
"932"	"RP11-209E8.1"	0	"mskcc.org"	"GRCh37"	"15"	53409318	53409327	"+"	"Intron"	"DEL"	"TCTTTCTTTC"	"TCTTTCTTTC"	"-"	"rs199668472"	NA	"JHCCPT1"	"JHCCPN1"	"TCTTTCTTTC"	"TCTTTCTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.94+674_94+683delCTTTCTTTCT"	""	""	"ENST00000559915"	""	20	"."	6	7	"."	0	"RP11-209E8.1,intron_variant,,ENST00000559915,;"	"-"	"ENSG00000259237"	"ENST00000559915"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/601"	""	""	""	""	"rs199668472"	"1"	NA	1	"RP11-209E8.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"11"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCTTTCTTTCT"	"3728fcc6-2764-11e6-a0e1-9add414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"933"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	54166097	54166120	"+"	"IGR"	"DEL"	"CTTCCTTCCTTCCTTCCTTCCTTT"	"CTTCCTTCCTTCCTTCCTTCCTTT"	"-"	"rs779382657"	NA	"JHCCPT1"	"JHCCPN1"	"CTTCCTTCCTTCCTTCCTTCCTTT"	"CTTCCTTCCTTCCTTCCTTCCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs779382657"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTCCTTCCTTCCTTCCTTCCTTTC"	"374cea78-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"934"	"PRTG"	283659	"mskcc.org"	"GRCh37"	"15"	55974742	55974743	"+"	"Intron"	"INS"	"-"	"-"	"TTTATTTATTTA"	"rs375857024"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.543-59_543-48dupTAAATAAATAAA"	""	""	"ENST00000389286"	""	88	"."	7	23	"."	0	"PRTG,intron_variant,,ENST00000389286,NM_173814.4;RP11-420M1.2,downstream_gene_variant,,ENST00000561155,;PRTG,upstream_gene_variant,,ENST00000559842,;"	"TTTATTTATTTA"	"ENSG00000166450"	"ENST00000389286"	"Transcript"	"intron_variant"	"-/11967"	"-/3453"	"-/1150"	""	""	"rs375857024"	"1"	NA	-1	"PRTG"	"HGNC"	26373	"protein_coding"	"YES"	"CCDS42040.1"	"ENSP00000373937"	"Q2VWP7"	"H0YKD6"	"UPI00001555A7"	"NM_173814.4"	NA	NA	""	"3/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	"0.009756"	"0.00593"	"0.004307"	"0.003591"	"0.02835"	"0.003948"	"0.004274"	"0.0124"	NA	"common_variant"	"ATT"	"489afe28-2764-11e6-a0e1-9add414a729f"	"420"	0.006948	"251/36126"	"875/89688"	"19/3204"	"23/5340"	"4/1114"	"66/2328"	"74/18746"	"1/234"	"64/5160"	"PASS"	"FALSE"	0.0795454545454545	"WXS"	FALSE
"935"	"CNOT6LP1"	0	"mskcc.org"	"GRCh37"	"15"	56298047	56298048	"+"	"RNA"	"DEL"	"TG"	"TG"	"-"	"rs201014537"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1327_1328delCA"	""	""	"ENST00000559681"	"1/1"	10	"."	5	8	"."	0	"CNOT6LP1,non_coding_transcript_exon_variant,,ENST00000559681,;CNOT6LP1,non_coding_transcript_exon_variant,,ENST00000393358,;"	"-"	"ENSG00000230183"	"ENST00000559681"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1327-1328/1462"	""	""	""	""	"rs201014537"	"1"	NA	-1	"CNOT6LP1"	"HGNC"	32355	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"-:0.0102"	"-:0"	"-:0.0173"	NA	"-:0"	"-:0.0258"	"-:0.0133"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTGA"	"37acf6d4-2764-11e6-a0e1-9add414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"936"	"MNS1"	55329	"mskcc.org"	"GRCh37"	"15"	56738782	56738785	"+"	"Intron"	"DEL"	"AGTT"	"AGTT"	"-"	"rs146362248"	NA	"JHCCPT1"	"JHCCPN1"	"AGTT"	"AGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.456+254_456+257delAACT"	""	""	"ENST00000260453"	""	13	"."	4	4	"."	0	"MNS1,intron_variant,,ENST00000260453,NM_018365.2;TEX9,downstream_gene_variant,,ENST00000537232,NM_001286449.1;TEX9,downstream_gene_variant,,ENST00000352903,NM_198524.1;"	"-"	"ENSG00000138587"	"ENST00000260453"	"Transcript"	"intron_variant"	"-/2023"	"-/1488"	"-/495"	""	""	"rs146362248"	"1"	NA	-1	"MNS1"	"HGNC"	29636	"protein_coding"	"YES"	"CCDS10158.1"	"ENSP00000260453"	"Q8NEH6"	"B3KQ70"	"UPI0000070061"	"NM_018365.2"	NA	NA	""	"4/9"	""	"-:0.0317"	"-:0.0038"	"-:0.1095"	NA	"-:0.005"	"-:0.0527"	"-:0.0204"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAGTTA"	"37d98956-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"937"	"ZNF280D"	54816	"mskcc.org"	"GRCh37"	"15"	57049895	57049896	"+"	"Intron"	"INS"	"-"	"-"	"GAAG"	"rs148889583"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-199-32711_-199-32708dupCTTC"	""	""	"ENST00000559000"	""	8	"."	4	1	"."	0	"ZNF280D,intron_variant,,ENST00000559000,;"	"GAAG"	"ENSG00000137871"	"ENST00000559000"	"Transcript"	"intron_variant"	"-/4726"	"-/2244"	"-/747"	""	""	"rs148889583"	"1"	NA	-1	"ZNF280D"	"HGNC"	25953	"protein_coding"	""	""	"ENSP00000453045"	""	"H0YL38"	"UPI0000E01FB5"	""	NA	NA	""	"6/23"	""	"-:0.0056"	"GAAG:0.9818"	"GAAG:0.9986"	NA	"GAAG:0.999"	"GAAG:1"	"GAAG:0.998"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"48bb027c-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"938"	"CCNB2"	9133	"mskcc.org"	"GRCh37"	"15"	59408734	59408735	"+"	"Intron"	"INS"	"-"	"-"	"ATAATTACAATTATAGGACGCTTCCTTTAGGTAA"	"rs28383539"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.598-155_598-154insATAATTACAATTATAGGACGCTTCCTTTAGGTAA"	""	""	"ENST00000288207"	""	18	"."	7	5	"."	0	"CCNB2,intron_variant,,ENST00000288207,NM_004701.3;CCNB2,intron_variant,,ENST00000559622,;RP11-59H7.3,upstream_gene_variant,,ENST00000559026,;CCNB2,downstream_gene_variant,,ENST00000561077,;CCNB2,upstream_gene_variant,,ENST00000559301,;"	"ATAATTACAATTATAGGACGCTTCCTTTAGGTAA"	"ENSG00000157456"	"ENST00000288207"	"Transcript"	"intron_variant"	"-/1556"	"-/1197"	"-/398"	""	""	"rs28383539"	"1"	NA	1	"CCNB2"	"HGNC"	1580	"protein_coding"	"YES"	"CCDS10170.1"	"ENSP00000288207"	"O95067"	""	"UPI00001275B3"	"NM_004701.3"	NA	NA	""	"5/8"	""	"ATAATTACAATTATAGGACGCTTCCTTTAGGTAA:0.3035"	"ATAATTACAATTATAGGACGCTTCCTTTAGGTAA:0.2315"	"ATAATTACAATTATAGGACGCTTCCTTTAGGTAA:0.4236"	NA	"ATAATTACAATTATAGGACGCTTCCTTTAGGTAA:0.4385"	"ATAATTACAATTATAGGACGCTTCCTTTAGGTAA:0.2664"	"ATAATTACAATTATAGGACGCTTCCTTTAGGTAA:0.2147"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"48f580c8-2764-11e6-a0e1-9add414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388888888888889	"WXS"	FALSE
"939"	"AC126323.1"	0	"mskcc.org"	"GRCh37"	"15"	62539156	62547165	"+"	"5'Flank"	"DEL"	"CATTCTAAGCCATCCCCACAGCCCTCTGATGCCAGTCCTGCTCCCAGGTCACCCCAGCCCCAGCTTACCCACCTGGTTCCTTAGTTCAGCCAAGATCGTCTCCAGCTCCTGTACTCGACTCATGCTGTGCACTCTCTCCTCCCTCAACGTGTGCACCTGCCCAAAGCACAGGGGGAAAGGGCCCTGCAGAGAGGGGCTGGCAGCTGGACAAGCTACCATCTCCCTCTCTGCCCCTACCTCCACAAAGCCCAGACCCATGACCACCTCTGGCTGTGCTCCTCCCATTTCACAGATGCCTGGAACAATCAAGTGACCTATCTACGGTGGGGGCTGAAGGGTCAGGTCTCACCTGCTCTGACATCTCCCGCATCCTCTGCCACCACATGGCACTCTCTCCATGCAGATACTCGGCATACTGCTCTCTCTCCATTTGCAGATACTTCAGCCACTCCATCACCTGCAAGAATGGGCACAGAAGTTAGGAAGGGCTGTCTGGTCCTCACATGCTTCTGGCCCCCTGGGGTCACCTTCCTTCCACATCCCTCCCTCTGCAAAGCCTCACCTGCCCCAGGTGTGCTTCCAGCTGTGCCCGTTCGTCTGTGGGCTGCTGTAACTGCTGGTTAGCATCAGGGGCTTCACACCAGCTAGATAACTGAATGATGAAGAAAGAGAAGTTTCAATCTGAGGAGCCTGGGCTGTTCCACACAGTGCCCCTTAAAAGGGCTAGAGCTAGGTTCAATGTACAACTTGGTCAATAAAGATCTCTACTGTGAAGGTGCTTTCCTTTAGAAATAAAAAATTAGGTAATTTTAAAGAGATCTCAGGCCGGGGATGGTAGCCCATGCCTGTAATCCCAACACTTTGGGAGGCTGAGGTGGGTGGATTGCTTGAGCTCAGGAGTTAGAGACCAGCCTGGGCAACATGGCGAAGCCTTGTCTCTACAAATACAAAAATTACCCAGGCGTGGTGGCATGCGCCTATAGTCCCAGCTACTTGAGAGGCTGAGGCAGGAGGATTGCTTGAGCATGGAAGGCCGAAGGTTGCAATGAGCCGAGATCACGCCACTGCACTCCAGCCCAGGTGACAGAGCGAGACCCTGTCCCAAAACAAACAAACAAATAAGAAATCTACTCTCTATTATTACCGTGGAATAGTCGAAGTGTTGGCTTGAACCTCAGAAGGAAATAAACAGGCTCATGAGCTAGCCGTATAAGTGTAATCTATAAAATAATGATTTTCATCTACGCTGCATTTAAAAAAAAAAATTTAAGCCCTAACCCTGAGATTCTGATTCCCCAGATCTATGGCAGGGCCCCAATCTGTAGATTTTTAGCAGTCTCTAGAGGATTCTATGGCAGGACCAGAACAAGGACTCAAATTTTCCAGCTCTTGGCTGGAGCCTTCCCATACCCCACCACCCCTAGGGCTGCAGCCTCTCACCTGTTGAAGCGTGAGCTCAGTGAGTTCCAGTTTCTTTTTCAGCTCCTCCAAGTCACACTGCATCCCTGCCTTGTCAATCAGTACAACTTGAAGCTGCTCTGCCAAAGCTGAGTTCTCCTGCTTCAGCTCCTTATTGCTGTTGCTACGGCCAGAGGCAGTAGAGAAAGGAATGAACAAAGAACAGAAAGGGCTGCTTTGGTGATCAGCCCTCTACCCTCACCCCACAACCACAGAACCATGGCACTGGAAGGGACCTCAGGAATCAAAAGTCACAGGTGGCGGGCCAGAGAGAAGACATGAGTTCCCCAAGGCTATCCCATGAGTCAGAGGCACAGCTGGCCCTAAAGCGTAGCCTGTGCACGCATTCAAACCTGTGTGACCACGTCACCATGCTCACATGCAGCCCTTCCACCTCCCAGCACATCACCCACACTAAGGGCCCCACACCTCCCATCCCACCCTCCCCCGTCCTACCTGTTATTGTATAACTCCAGCCTGAGGGCATCGCTGTCTCTGGTTAACTGGTTGTTGTACTGAAAATACAGAAAGGTGAAGTCAGGATACAGCAGGCAGAGAAGCAGCTGGCAGACTAGGAACGACAGCTACAGTGACTATTCCACAGTAACACTTCCTCACTCTCAATCACGCCTGACATGTTTGCAAGGCATTTCCAAGCCCACAGTCTCATTTGTTTCTCAAATAACTCAGTAAGGGTGGAAGGGACAGGGAAAGAGATCGAATTTACAGCTGGCTACCAGAGGCCCAGAGAAAAAAGAGAATATTACTATTGTTATTACCGTTATGACTGCCATTGTTGGAACCTTTATTGAGTGCTTCACCAGGCACCATGCTAACAATCCCATTTAATCCTCACAACCACCATAGGAGACAGTTACTATTATCACCTCTATTGTGTCGTTGAAAAACATGGGGTATTAGAGGTTAAGTGCTTGTCTAAGATCATTCAGACAGAGCTGGGATTTGAACACCCAGGTATATCTGATTCTCTAAGCCCATTTTTTCGCTGTGAGGCAGGAAAATAGGATCTGGAGGCAGGGAACATAAGGCCTGTTCACACTTCAGCTATAACAGGAAATATCCTCTCTATGGGGCCTATGGCTAAATGACTTTGTAACTTTACTTCATCCTCTCCATTTACATAGGGCATACCCCAAGTAACCAATGGAATCCTCTAGGGGGTAAACTCCCAAAAATTCTGTAATGGTGCCTTTGAGCCCTTATGCTCGGGTGCGCTCCCACACTGTGGAGTGTGCTTTCAGTTTCAGTAAGTCCTTTCATTCCTTCCTCGCTTTGTTTGTGCATTTTGTCCAGTTCTTTGTTCAAGACGTCAAGAAGCTGGACACCCTCCACTTTTAACAGCTGGGGGTGGGGGCACAGATGGAAAGGGGGATAATCTTGTGTTCAGTTTTTGAAGGGTACATTCTCATAGTCCAAAACTCAGAAAATACAGAAGGGAAATATCTCCCAGCCACCCTGGTCCTTTCTCCTGAGTTTTTTACAAATCCTTGCAGACATGTTTTATGTATATTATCATAGTACACACACACACGTGTTCCCTCTCTCTGCACAAATGTTAACATACTAAAGATACTCTTCTGTACCTTCACAGTGCAAGTACCATATCTCCCACCTAGGACTTGACCAAGGCCACAGCCAGGTAAGGGCAGGGTAGGCACTTGGCCTCCGAGCTCTGCATCCAGTGCTCGCTCCCCACAGCACCCCCCAACTCACCCACAGCAGCCGACACAGCCCCAGGCTGACTCTAACAAGCACGCACAAAAGCAGCGAGAAATGGCCCATGCTGCTTTCTGGGCAGGACACTCCATCCCGCAGAAGGGACCTAAAGGTCCCTCACTCCTCCATCTGGAAAGCCGGGCTGCCAGGGTATGGGGCAGGCGGTTGGACTCACCCTATCTGCCTTCCTCTGCTCCTGCTCCAACTCTCCCACATGCTGCCAGGAATACAGCAGATGGCTGGCCAGATCCTCGGCCTCTTCTAGAATGAGAGAGGTTGAGATGGGGCCCAAAGGACTCCCCCTAAAGGCCTGTCAAAGCACCAGGTTGAAGGATGACGGGTGCCCAGATTCCCACATTCAAACTGCCTGGCAGCACGTTCATTGTGATACAGTGTTGTCTTCAATTCTGCTTTCTCAAACATCAAGACTCTAATTATCTGAATTGAACCTTTAGGAGAAAAGCCAAGCAAATGCTGAAAGAGGAGGAAAGCAACATTCTCCAGAGGACAGGAGGGAACTTCACACCCTCCACTCACCTGTAATTGCCTCTTTAGGGCTCCCCGGTTTTGCTGGCTTTCTTGCTTTTCCTATAGGAAGAGGAAGACAGAGCTCTTACTAGGGGGAGGCAGAGATGGCACAGCAAGGGACATGCCCCTAGAATGCCACCAATGCCCCAGGACAGGCCCACCCATGGGACCAGGTTATCAGGGACCCTGTGGGGATGAGGTGGAATCTGGGGAGTGAGCCTTTTTCCCCAGGCTGGGGGTGGGCAAGACGAGACTGGGGCCTCTACATCTGAGTGCCCCCCAAACCCAGCAGTCATGCCGTGAGCAAACAAATCATTTCTTCTAGTTGCTTGACAAGTTTTTGGTTGTGCTGTTTCTGCGGGGAGAGTCAAAGGAAGGTGACCAAGGATGGCCCCCTCCACTCTATTCCCCAGACCAGGAAGCGGTAGACAGGGGCCAGAAATGGATTTTAAAGGCAAAGTTCTCAGACCCACTAGGACCATGAACTGGTAAACTCTCCTCAAGCTCCCAAGGACAGAGGATTTGGGTCTTTGTTGGTTTTGGCCCACGGCCACAGAACTGAAAGTCCGAATCTGGATTCTCCCGAAAGGACAGTAACATAAACCTTTAGAGATGGAGTCTGAGAAAAGCTCACCCTTCTACCAGCTTGTGATTTAGAAAGGTGCATTCACTCAACAAACATTGACTGAGCACATACAGGCCAGGTATGGTTCTTCATAGCAGAGATGTAGGACAGAAAAGGACAGACAGGATCCCTTGGCCCTGAGGCTTACATTCTACTGGACCTTTAAATCGTGGACTCTCAGAGCTAACAGAGACTTTTGATACTTTCTAACTCTACCTCCTCGGGAAACACAAGCCCAAGGAGGAGAGGTGGCTTGCCCAGAATCAAAGAGCAAATTAGGGCCTGAGTCAGAGTGGAAATACGGGGCTCCTGACAACCAATCAGGCCAGTGCTTCCCTGAGAAGCCACAACCCCAGGACATGTGTGGCAAGGGCTGGAGCATGGGTATCTGAAGAAGAGACAGTAGGCAAAGAGGGCAGCAACAGAAGAGCCATGATGCATGCTCCGTGCTCTGGGGTCCCTCTAGCTGAGGCCTCGGCCCCCCTGCTCCCCATTTGCCCTTGGCATCAGGGACCCTCAGCCCTTTCTTCAGGGCCCCAAGGGGAAACTGGAGCCCAGGACTTGCAGCGTGGAATTGGTGGACCCCATTGAACTCTTACCAATGACTCGATGGTTTTATTCCGTCGACTGATTGTTATATAACTCGAGTCCAGGGCGACTGTTACCTCTTGGTATCTGCTCTGAGGCACGTGAAGAGAGGAGGAGTTGGAGGAGGATCGAGGGGAGAGGTAGAGAGAGCAATCATTAGGGTTGGGGGGAGGGTGTGAGAGGTCTCAGATGGCAGAGGGGCACCCAGCCCCCACTGTGGGAGGAGGTTGGAGGGCTGGCCTGCAGGGTCACTGGGTCATGGCCCAGGGCCTCTTACTTCCAGATCCTTCAGGGTAGCGGATGATCCAGAGCCCTCCGCACAGATACCTGTTGCTGACTACAAGAGATGAGAGTGCGCATGGAAATCTTCTGTCCCCTCCATGTCTAAGCCCTCTGACTTCCTTTCTTCCCCAGCAACTGACAACATTTTCTTTTCTGCCTAACTTGGACCCTTCATCCCATAACCTCTTTGTGCCAACTTCTCTCATGGTTTTTATCTCCCCACCATCCCTTCCTCCCAAGCAGCTCTCATCTGGTGTTTCTACAGTAGGATAAAATGATGTAACCAGCCACGGGGTACAACTCCTTCATGTGAACAGCCTCAAGGAAGAAGCCTCAGGGAAGAGGCAACTTCCTCAACATGGCCCAGCAAATCGGCCAGTCCCAGGATCTTTCCTCTCTCTGGTGATTCCTGCCTCAGTTTCTTTCTATCATACTTTCCTTTCCCCCGCACTCCCCTCAATTTCTGAAGTTCCTCAGAAACAACGCCATTGAGCTGTTGGGAGAGTTGTTGCAGGCTCTCGGTTAATGAGAAGGTCCTAAGGGCAGAGACACAGGCGTCAGGGGTGCAGGTGGCTCAATGGGAAAGAAGGTGTTAGACAGTGGCCTCCCTGACTCCCTCAGCCTAGAGACTGCTGCCCTGATAAGAGACACTCACTTGCTTTCATCCATGAGATTGGGGCTAGCATGATGATTCTGTGTGGGAAGAAACATATGAGATGGTCATTCAATTTCTGTAAGAATCACCGAGGACAGGTGAGCCAAGTTCCCAAGCTCATTCCAACAATATTCTATCTCCCCAAACCTCAAGGAAAAGCCCAGTCTCAGCCTTCCCCCAGCCCAGTCCCCAGGAAGGGCACCTGGCCCTAGGGAACAAACTACTTGTGAAAAGAGAAGAGAATCCATAGTAGGTACAGGAGGGCAGTGGGCAGAGGAGGAGGAAGCATGAACCTGAGGTGCCGCTATGCTAGCAAGACTGGCACCAGGGCAAGGGACACCACCAGGTAACACGGTGTCATTGGCAGGTGGCTAGACAGATGCAGCATTGTCTTTGGCGTCTGTCACAGAACAAAGCAGGGCATTAGGGGGCCATGCAGGAGAGAAGGTGCCTCAGTGGCATGGACACAAGAGTGTGGAACAGGTATGACAGATACTCACGCAATGACAGTGACAGTCATGCATGCTTGGAGCCACTCGGGGGTGTGGATATGGTTTGCCCAGGCCTTGGGCTGCTAGGCAGCATTTTGAATGGCCAAAGCTCAAAGCAGGGGCTGCACGGCCTCCTTCATGAATACATGAGGACCTCGCTCCCCCTGGAGTTCAGCAAAAGACAGCAGCAGGTTCTGACCTGTGGCAGCCACAGCAGGCTGGAGGAAGGTGTACCAAAGTCAGGGAAGAGAAAGGCACTGTTCTTCCAGACGGCCAGTCTGTGCCACAGAGTGACCCTAACTGGGCCCCTCCTGGGCAGAGGACAGTGATGAGGAAGTAGTAGTCTGGGCAATGTACAATGTAGCTGCCTCTCTCTTCTCTCTTCCCTTCTCCCTTGCAGTGGCATAATCAGCAGGGGCTACCATCTCCTACAGCTCGCCCAGCTTCTCCTGCAGCTCCTCCTTGACATGCTGCTCAGACTAAAGTGCATTGTTGATCTCCATATTCTCACTGTTCTGGACAGAGAGAAGCAATCACGCCACCCACTGCAGCTGGAGACCGCAGAACTTGGTGTCTGCCTCCCATGGCGCCGGGAAGGATGGAGGCAGATTAGAAAAATGATCCCCTCTCCCCCATAGCCATCAAACCAGGGCTCTGGCTCACAGGTCCCTTCAGAAGTGCCACTTCACATGAGGGCTACACTGCCCCACTTAACAGATGGGGAAACAAAGGCCTAGAGGGCTGGGGAGGAGGGCAGTCTCCCCAGGTGGGATGCACCAGTTTTACAAAGCTGCTCTCTGTAGCTGCTCCTTGAGCTCAGGGTTCTGGGAGAGTGTGGGGCTGATGGTGGTGAGGTCATTTTGCACGGTCCCCAGGGTTTGCCTGCATACCTCCGCCTGCTCCCCTCAGAGCTCAGCCACCCGCCCCAGCTCCAGCAGCCTCTCCTGCTCCCAGTTCAGGCATTTCAAGTCCTCATTGTCTTGCATGTGGGCCCACTGGAGCTGTCCTGCTAGACTTTCCAGCTCCTCCCACAGGTGCTCAGCCTCTGCCTGTAGCTGCTGCTGCAGCTGCAGACCCCAGAACTTGGTGTCTGCCTCCCACGGCACTGGGAAGGATGGAGGCAGATTAGAAAAATCATCGCCTCTCATCCACAGCCATCAAAGCAGGGCTCTGGCTCACAGGTCCCCTCAGAAGTGCCGCTTCACATGAGGGCTGCGCCCCCTGCTGGGGGCTCCAGGGGTGGGATTCAGCTGAGAAAGGAAGCAGACAATAACGGCCTCTGGATTCTCAAAAACACCCTCCTCTTGGTACACAGCTCCTCTCGGGCTCCCCAGACTTGGCCTCCCTGCTAATGATTCTCAAAAAAACCCTCTGCATTCTCAAAAAAAAAAAAACCCTCCTCTTGATCCACTGCACCCCTCAGGCTCCCCAAACTTGGCCTCCCTGCTAATGATTCCTTGCACCCTGATGGTAGCCAATCTTCCAAGCCACTTTCAGATAGAGACAACTGTGGGTGGCTGACAACACACACTTTTTCCTCTTTGCTGATGGGGACATTGAGGCTCATGACGATTACAAGACTTGCCGCCTCCTGGCACAGACCTCTTTCCCTCTGCCTCAAAGCCTTTCCATGCATCCACCTCTCT"	"CATTCTAAGCCATCCCCACAGCCCTCTGATGCCAGTCCTGCTCCCAGGTCACCCCAGCCCCAGCTTACCCACCTGGTTCCTTAGTTCAGCCAAGATCGTCTCCAGCTCCTGTACTCGACTCATGCTGTGCACTCTCTCCTCCCTCAACGTGTGCACCTGCCCAAAGCACAGGGGGAAAGGGCCCTGCAGAGAGGGGCTGGCAGCTGGACAAGCTACCATCTCCCTCTCTGCCCCTACCTCCACAAAGCCCAGACCCATGACCACCTCTGGCTGTGCTCCTCCCATTTCACAGATGCCTGGAACAATCAAGTGACCTATCTACGGTGGGGGCTGAAGGGTCAGGTCTCACCTGCTCTGACATCTCCCGCATCCTCTGCCACCACATGGCACTCTCTCCATGCAGATACTCGGCATACTGCTCTCTCTCCATTTGCAGATACTTCAGCCACTCCATCACCTGCAAGAATGGGCACAGAAGTTAGGAAGGGCTGTCTGGTCCTCACATGCTTCTGGCCCCCTGGGGTCACCTTCCTTCCACATCCCTCCCTCTGCAAAGCCTCACCTGCCCCAGGTGTGCTTCCAGCTGTGCCCGTTCGTCTGTGGGCTGCTGTAACTGCTGGTTAGCATCAGGGGCTTCACACCAGCTAGATAACTGAATGATGAAGAAAGAGAAGTTTCAATCTGAGGAGCCTGGGCTGTTCCACACAGTGCCCCTTAAAAGGGCTAGAGCTAGGTTCAATGTACAACTTGGTCAATAAAGATCTCTACTGTGAAGGTGCTTTCCTTTAGAAATAAAAAATTAGGTAATTTTAAAGAGATCTCAGGCCGGGGATGGTAGCCCATGCCTGTAATCCCAACACTTTGGGAGGCTGAGGTGGGTGGATTGCTTGAGCTCAGGAGTTAGAGACCAGCCTGGGCAACATGGCGAAGCCTTGTCTCTACAAATACAAAAATTACCCAGGCGTGGTGGCATGCGCCTATAGTCCCAGCTACTTGAGAGGCTGAGGCAGGAGGATTGCTTGAGCATGGAAGGCCGAAGGTTGCAATGAGCCGAGATCACGCCACTGCACTCCAGCCCAGGTGACAGAGCGAGACCCTGTCCCAAAACAAACAAACAAATAAGAAATCTACTCTCTATTATTACCGTGGAATAGTCGAAGTGTTGGCTTGAACCTCAGAAGGAAATAAACAGGCTCATGAGCTAGCCGTATAAGTGTAATCTATAAAATAATGATTTTCATCTACGCTGCATTTAAAAAAAAAAATTTAAGCCCTAACCCTGAGATTCTGATTCCCCAGATCTATGGCAGGGCCCCAATCTGTAGATTTTTAGCAGTCTCTAGAGGATTCTATGGCAGGACCAGAACAAGGACTCAAATTTTCCAGCTCTTGGCTGGAGCCTTCCCATACCCCACCACCCCTAGGGCTGCAGCCTCTCACCTGTTGAAGCGTGAGCTCAGTGAGTTCCAGTTTCTTTTTCAGCTCCTCCAAGTCACACTGCATCCCTGCCTTGTCAATCAGTACAACTTGAAGCTGCTCTGCCAAAGCTGAGTTCTCCTGCTTCAGCTCCTTATTGCTGTTGCTACGGCCAGAGGCAGTAGAGAAAGGAATGAACAAAGAACAGAAAGGGCTGCTTTGGTGATCAGCCCTCTACCCTCACCCCACAACCACAGAACCATGGCACTGGAAGGGACCTCAGGAATCAAAAGTCACAGGTGGCGGGCCAGAGAGAAGACATGAGTTCCCCAAGGCTATCCCATGAGTCAGAGGCACAGCTGGCCCTAAAGCGTAGCCTGTGCACGCATTCAAACCTGTGTGACCACGTCACCATGCTCACATGCAGCCCTTCCACCTCCCAGCACATCACCCACACTAAGGGCCCCACACCTCCCATCCCACCCTCCCCCGTCCTACCTGTTATTGTATAACTCCAGCCTGAGGGCATCGCTGTCTCTGGTTAACTGGTTGTTGTACTGAAAATACAGAAAGGTGAAGTCAGGATACAGCAGGCAGAGAAGCAGCTGGCAGACTAGGAACGACAGCTACAGTGACTATTCCACAGTAACACTTCCTCACTCTCAATCACGCCTGACATGTTTGCAAGGCATTTCCAAGCCCACAGTCTCATTTGTTTCTCAAATAACTCAGTAAGGGTGGAAGGGACAGGGAAAGAGATCGAATTTACAGCTGGCTACCAGAGGCCCAGAGAAAAAAGAGAATATTACTATTGTTATTACCGTTATGACTGCCATTGTTGGAACCTTTATTGAGTGCTTCACCAGGCACCATGCTAACAATCCCATTTAATCCTCACAACCACCATAGGAGACAGTTACTATTATCACCTCTATTGTGTCGTTGAAAAACATGGGGTATTAGAGGTTAAGTGCTTGTCTAAGATCATTCAGACAGAGCTGGGATTTGAACACCCAGGTATATCTGATTCTCTAAGCCCATTTTTTCGCTGTGAGGCAGGAAAATAGGATCTGGAGGCAGGGAACATAAGGCCTGTTCACACTTCAGCTATAACAGGAAATATCCTCTCTATGGGGCCTATGGCTAAATGACTTTGTAACTTTACTTCATCCTCTCCATTTACATAGGGCATACCCCAAGTAACCAATGGAATCCTCTAGGGGGTAAACTCCCAAAAATTCTGTAATGGTGCCTTTGAGCCCTTATGCTCGGGTGCGCTCCCACACTGTGGAGTGTGCTTTCAGTTTCAGTAAGTCCTTTCATTCCTTCCTCGCTTTGTTTGTGCATTTTGTCCAGTTCTTTGTTCAAGACGTCAAGAAGCTGGACACCCTCCACTTTTAACAGCTGGGGGTGGGGGCACAGATGGAAAGGGGGATAATCTTGTGTTCAGTTTTTGAAGGGTACATTCTCATAGTCCAAAACTCAGAAAATACAGAAGGGAAATATCTCCCAGCCACCCTGGTCCTTTCTCCTGAGTTTTTTACAAATCCTTGCAGACATGTTTTATGTATATTATCATAGTACACACACACACGTGTTCCCTCTCTCTGCACAAATGTTAACATACTAAAGATACTCTTCTGTACCTTCACAGTGCAAGTACCATATCTCCCACCTAGGACTTGACCAAGGCCACAGCCAGGTAAGGGCAGGGTAGGCACTTGGCCTCCGAGCTCTGCATCCAGTGCTCGCTCCCCACAGCACCCCCCAACTCACCCACAGCAGCCGACACAGCCCCAGGCTGACTCTAACAAGCACGCACAAAAGCAGCGAGAAATGGCCCATGCTGCTTTCTGGGCAGGACACTCCATCCCGCAGAAGGGACCTAAAGGTCCCTCACTCCTCCATCTGGAAAGCCGGGCTGCCAGGGTATGGGGCAGGCGGTTGGACTCACCCTATCTGCCTTCCTCTGCTCCTGCTCCAACTCTCCCACATGCTGCCAGGAATACAGCAGATGGCTGGCCAGATCCTCGGCCTCTTCTAGAATGAGAGAGGTTGAGATGGGGCCCAAAGGACTCCCCCTAAAGGCCTGTCAAAGCACCAGGTTGAAGGATGACGGGTGCCCAGATTCCCACATTCAAACTGCCTGGCAGCACGTTCATTGTGATACAGTGTTGTCTTCAATTCTGCTTTCTCAAACATCAAGACTCTAATTATCTGAATTGAACCTTTAGGAGAAAAGCCAAGCAAATGCTGAAAGAGGAGGAAAGCAACATTCTCCAGAGGACAGGAGGGAACTTCACACCCTCCACTCACCTGTAATTGCCTCTTTAGGGCTCCCCGGTTTTGCTGGCTTTCTTGCTTTTCCTATAGGAAGAGGAAGACAGAGCTCTTACTAGGGGGAGGCAGAGATGGCACAGCAAGGGACATGCCCCTAGAATGCCACCAATGCCCCAGGACAGGCCCACCCATGGGACCAGGTTATCAGGGACCCTGTGGGGATGAGGTGGAATCTGGGGAGTGAGCCTTTTTCCCCAGGCTGGGGGTGGGCAAGACGAGACTGGGGCCTCTACATCTGAGTGCCCCCCAAACCCAGCAGTCATGCCGTGAGCAAACAAATCATTTCTTCTAGTTGCTTGACAAGTTTTTGGTTGTGCTGTTTCTGCGGGGAGAGTCAAAGGAAGGTGACCAAGGATGGCCCCCTCCACTCTATTCCCCAGACCAGGAAGCGGTAGACAGGGGCCAGAAATGGATTTTAAAGGCAAAGTTCTCAGACCCACTAGGACCATGAACTGGTAAACTCTCCTCAAGCTCCCAAGGACAGAGGATTTGGGTCTTTGTTGGTTTTGGCCCACGGCCACAGAACTGAAAGTCCGAATCTGGATTCTCCCGAAAGGACAGTAACATAAACCTTTAGAGATGGAGTCTGAGAAAAGCTCACCCTTCTACCAGCTTGTGATTTAGAAAGGTGCATTCACTCAACAAACATTGACTGAGCACATACAGGCCAGGTATGGTTCTTCATAGCAGAGATGTAGGACAGAAAAGGACAGACAGGATCCCTTGGCCCTGAGGCTTACATTCTACTGGACCTTTAAATCGTGGACTCTCAGAGCTAACAGAGACTTTTGATACTTTCTAACTCTACCTCCTCGGGAAACACAAGCCCAAGGAGGAGAGGTGGCTTGCCCAGAATCAAAGAGCAAATTAGGGCCTGAGTCAGAGTGGAAATACGGGGCTCCTGACAACCAATCAGGCCAGTGCTTCCCTGAGAAGCCACAACCCCAGGACATGTGTGGCAAGGGCTGGAGCATGGGTATCTGAAGAAGAGACAGTAGGCAAAGAGGGCAGCAACAGAAGAGCCATGATGCATGCTCCGTGCTCTGGGGTCCCTCTAGCTGAGGCCTCGGCCCCCCTGCTCCCCATTTGCCCTTGGCATCAGGGACCCTCAGCCCTTTCTTCAGGGCCCCAAGGGGAAACTGGAGCCCAGGACTTGCAGCGTGGAATTGGTGGACCCCATTGAACTCTTACCAATGACTCGATGGTTTTATTCCGTCGACTGATTGTTATATAACTCGAGTCCAGGGCGACTGTTACCTCTTGGTATCTGCTCTGAGGCACGTGAAGAGAGGAGGAGTTGGAGGAGGATCGAGGGGAGAGGTAGAGAGAGCAATCATTAGGGTTGGGGGGAGGGTGTGAGAGGTCTCAGATGGCAGAGGGGCACCCAGCCCCCACTGTGGGAGGAGGTTGGAGGGCTGGCCTGCAGGGTCACTGGGTCATGGCCCAGGGCCTCTTACTTCCAGATCCTTCAGGGTAGCGGATGATCCAGAGCCCTCCGCACAGATACCTGTTGCTGACTACAAGAGATGAGAGTGCGCATGGAAATCTTCTGTCCCCTCCATGTCTAAGCCCTCTGACTTCCTTTCTTCCCCAGCAACTGACAACATTTTCTTTTCTGCCTAACTTGGACCCTTCATCCCATAACCTCTTTGTGCCAACTTCTCTCATGGTTTTTATCTCCCCACCATCCCTTCCTCCCAAGCAGCTCTCATCTGGTGTTTCTACAGTAGGATAAAATGATGTAACCAGCCACGGGGTACAACTCCTTCATGTGAACAGCCTCAAGGAAGAAGCCTCAGGGAAGAGGCAACTTCCTCAACATGGCCCAGCAAATCGGCCAGTCCCAGGATCTTTCCTCTCTCTGGTGATTCCTGCCTCAGTTTCTTTCTATCATACTTTCCTTTCCCCCGCACTCCCCTCAATTTCTGAAGTTCCTCAGAAACAACGCCATTGAGCTGTTGGGAGAGTTGTTGCAGGCTCTCGGTTAATGAGAAGGTCCTAAGGGCAGAGACACAGGCGTCAGGGGTGCAGGTGGCTCAATGGGAAAGAAGGTGTTAGACAGTGGCCTCCCTGACTCCCTCAGCCTAGAGACTGCTGCCCTGATAAGAGACACTCACTTGCTTTCATCCATGAGATTGGGGCTAGCATGATGATTCTGTGTGGGAAGAAACATATGAGATGGTCATTCAATTTCTGTAAGAATCACCGAGGACAGGTGAGCCAAGTTCCCAAGCTCATTCCAACAATATTCTATCTCCCCAAACCTCAAGGAAAAGCCCAGTCTCAGCCTTCCCCCAGCCCAGTCCCCAGGAAGGGCACCTGGCCCTAGGGAACAAACTACTTGTGAAAAGAGAAGAGAATCCATAGTAGGTACAGGAGGGCAGTGGGCAGAGGAGGAGGAAGCATGAACCTGAGGTGCCGCTATGCTAGCAAGACTGGCACCAGGGCAAGGGACACCACCAGGTAACACGGTGTCATTGGCAGGTGGCTAGACAGATGCAGCATTGTCTTTGGCGTCTGTCACAGAACAAAGCAGGGCATTAGGGGGCCATGCAGGAGAGAAGGTGCCTCAGTGGCATGGACACAAGAGTGTGGAACAGGTATGACAGATACTCACGCAATGACAGTGACAGTCATGCATGCTTGGAGCCACTCGGGGGTGTGGATATGGTTTGCCCAGGCCTTGGGCTGCTAGGCAGCATTTTGAATGGCCAAAGCTCAAAGCAGGGGCTGCACGGCCTCCTTCATGAATACATGAGGACCTCGCTCCCCCTGGAGTTCAGCAAAAGACAGCAGCAGGTTCTGACCTGTGGCAGCCACAGCAGGCTGGAGGAAGGTGTACCAAAGTCAGGGAAGAGAAAGGCACTGTTCTTCCAGACGGCCAGTCTGTGCCACAGAGTGACCCTAACTGGGCCCCTCCTGGGCAGAGGACAGTGATGAGGAAGTAGTAGTCTGGGCAATGTACAATGTAGCTGCCTCTCTCTTCTCTCTTCCCTTCTCCCTTGCAGTGGCATAATCAGCAGGGGCTACCATCTCCTACAGCTCGCCCAGCTTCTCCTGCAGCTCCTCCTTGACATGCTGCTCAGACTAAAGTGCATTGTTGATCTCCATATTCTCACTGTTCTGGACAGAGAGAAGCAATCACGCCACCCACTGCAGCTGGAGACCGCAGAACTTGGTGTCTGCCTCCCATGGCGCCGGGAAGGATGGAGGCAGATTAGAAAAATGATCCCCTCTCCCCCATAGCCATCAAACCAGGGCTCTGGCTCACAGGTCCCTTCAGAAGTGCCACTTCACATGAGGGCTACACTGCCCCACTTAACAGATGGGGAAACAAAGGCCTAGAGGGCTGGGGAGGAGGGCAGTCTCCCCAGGTGGGATGCACCAGTTTTACAAAGCTGCTCTCTGTAGCTGCTCCTTGAGCTCAGGGTTCTGGGAGAGTGTGGGGCTGATGGTGGTGAGGTCATTTTGCACGGTCCCCAGGGTTTGCCTGCATACCTCCGCCTGCTCCCCTCAGAGCTCAGCCACCCGCCCCAGCTCCAGCAGCCTCTCCTGCTCCCAGTTCAGGCATTTCAAGTCCTCATTGTCTTGCATGTGGGCCCACTGGAGCTGTCCTGCTAGACTTTCCAGCTCCTCCCACAGGTGCTCAGCCTCTGCCTGTAGCTGCTGCTGCAGCTGCAGACCCCAGAACTTGGTGTCTGCCTCCCACGGCACTGGGAAGGATGGAGGCAGATTAGAAAAATCATCGCCTCTCATCCACAGCCATCAAAGCAGGGCTCTGGCTCACAGGTCCCCTCAGAAGTGCCGCTTCACATGAGGGCTGCGCCCCCTGCTGGGGGCTCCAGGGGTGGGATTCAGCTGAGAAAGGAAGCAGACAATAACGGCCTCTGGATTCTCAAAAACACCCTCCTCTTGGTACACAGCTCCTCTCGGGCTCCCCAGACTTGGCCTCCCTGCTAATGATTCTCAAAAAAACCCTCTGCATTCTCAAAAAAAAAAAAACCCTCCTCTTGATCCACTGCACCCCTCAGGCTCCCCAAACTTGGCCTCCCTGCTAATGATTCCTTGCACCCTGATGGTAGCCAATCTTCCAAGCCACTTTCAGATAGAGACAACTGTGGGTGGCTGACAACACACACTTTTTCCTCTTTGCTGATGGGGACATTGAGGCTCATGACGATTACAAGACTTGCCGCCTCCTGGCACAGACCTCTTTCCCTCTGCCTCAAAGCCTTTCCATGCATCCACCTCTCT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CATTCTAAGCCATCCCCACAGCCCTCTGATGCCAGTCCTGCTCCCAGGTCACCCCAGCCCCAGCTTACCCACCTGGTTCCTTAGTTCAGCCAAGATCGTCTCCAGCTCCTGTACTCGACTCATGCTGTGCACTCTCTCCTCCCTCAACGTGTGCACCTGCCCAAAGCACAGGGGGAAAGGGCCCTGCAGAGAGGGGCTGGCAGCTGGACAAGCTACCATCTCCCTCTCTGCCCCTACCTCCACAAAGCCCAGACCCATGACCACCTCTGGCTGTGCTCCTCCCATTTCACAGATGCCTGGAACAATCAAGTGACCTATCTACGGTGGGGGCTGAAGGGTCAGGTCTCACCTGCTCTGACATCTCCCGCATCCTCTGCCACCACATGGCACTCTCTCCATGCAGATACTCGGCATACTGCTCTCTCTCCATTTGCAGATACTTCAGCCACTCCATCACCTGCAAGAATGGGCACAGAAGTTAGGAAGGGCTGTCTGGTCCTCACATGCTTCTGGCCCCCTGGGGTCACCTTCCTTCCACATCCCTCCCTCTGCAAAGCCTCACCTGCCCCAGGTGTGCTTCCAGCTGTGCCCGTTCGTCTGTGGGCTGCTGTAACTGCTGGTTAGCATCAGGGGCTTCACACCAGCTAGATAACTGAATGATGAAGAAAGAGAAGTTTCAATCTGAGGAGCCTGGGCTGTTCCACACAGTGCCCCTTAAAAGGGCTAGAGCTAGGTTCAATGTACAACTTGGTCAATAAAGATCTCTACTGTGAAGGTGCTTTCCTTTAGAAATAAAAAATTAGGTAATTTTAAAGAGATCTCAGGCCGGGGATGGTAGCCCATGCCTGTAATCCCAACACTTTGGGAGGCTGAGGTGGGTGGATTGCTTGAGCTCAGGAGTTAGAGACCAGCCTGGGCAACATGGCGAAGCCTTGTCTCTACAAATACAAAAATTACCCAGGCGTGGTGGCATGCGCCTATAGTCCCAGCTACTTGAGAGGCTGAGGCAGGAGGATTGCTTGAGCATGGAAGGCCGAAGGTTGCAATGAGCCGAGATCACGCCACTGCACTCCAGCCCAGGTGACAGAGCGAGACCCTGTCCCAAAACAAACAAACAAATAAGAAATCTACTCTCTATTATTACCGTGGAATAGTCGAAGTGTTGGCTTGAACCTCAGAAGGAAATAAACAGGCTCATGAGCTAGCCGTATAAGTGTAATCTATAAAATAATGATTTTCATCTACGCTGCATTTAAAAAAAAAAATTTAAGCCCTAACCCTGAGATTCTGATTCCCCAGATCTATGGCAGGGCCCCAATCTGTAGATTTTTAGCAGTCTCTAGAGGATTCTATGGCAGGACCAGAACAAGGACTCAAATTTTCCAGCTCTTGGCTGGAGCCTTCCCATACCCCACCACCCCTAGGGCTGCAGCCTCTCACCTGTTGAAGCGTGAGCTCAGTGAGTTCCAGTTTCTTTTTCAGCTCCTCCAAGTCACACTGCATCCCTGCCTTGTCAATCAGTACAACTTGAAGCTGCTCTGCCAAAGCTGAGTTCTCCTGCTTCAGCTCCTTATTGCTGTTGCTACGGCCAGAGGCAGTAGAGAAAGGAATGAACAAAGAACAGAAAGGGCTGCTTTGGTGATCAGCCCTCTACCCTCACCCCACAACCACAGAACCATGGCACTGGAAGGGACCTCAGGAATCAAAAGTCACAGGTGGCGGGCCAGAGAGAAGACATGAGTTCCCCAAGGCTATCCCATGAGTCAGAGGCACAGCTGGCCCTAAAGCGTAGCCTGTGCACGCATTCAAACCTGTGTGACCACGTCACCATGCTCACATGCAGCCCTTCCACCTCCCAGCACATCACCCACACTAAGGGCCCCACACCTCCCATCCCACCCTCCCCCGTCCTACCTGTTATTGTATAACTCCAGCCTGAGGGCATCGCTGTCTCTGGTTAACTGGTTGTTGTACTGAAAATACAGAAAGGTGAAGTCAGGATACAGCAGGCAGAGAAGCAGCTGGCAGACTAGGAACGACAGCTACAGTGACTATTCCACAGTAACACTTCCTCACTCTCAATCACGCCTGACATGTTTGCAAGGCATTTCCAAGCCCACAGTCTCATTTGTTTCTCAAATAACTCAGTAAGGGTGGAAGGGACAGGGAAAGAGATCGAATTTACAGCTGGCTACCAGAGGCCCAGAGAAAAAAGAGAATATTACTATTGTTATTACCGTTATGACTGCCATTGTTGGAACCTTTATTGAGTGCTTCACCAGGCACCATGCTAACAATCCCATTTAATCCTCACAACCACCATAGGAGACAGTTACTATTATCACCTCTATTGTGTCGTTGAAAAACATGGGGTATTAGAGGTTAAGTGCTTGTCTAAGATCATTCAGACAGAGCTGGGATTTGAACACCCAGGTATATCTGATTCTCTAAGCCCATTTTTTCGCTGTGAGGCAGGAAAATAGGATCTGGAGGCAGGGAACATAAGGCCTGTTCACACTTCAGCTATAACAGGAAATATCCTCTCTATGGGGCCTATGGCTAAATGACTTTGTAACTTTACTTCATCCTCTCCATTTACATAGGGCATACCCCAAGTAACCAATGGAATCCTCTAGGGGGTAAACTCCCAAAAATTCTGTAATGGTGCCTTTGAGCCCTTATGCTCGGGTGCGCTCCCACACTGTGGAGTGTGCTTTCAGTTTCAGTAAGTCCTTTCATTCCTTCCTCGCTTTGTTTGTGCATTTTGTCCAGTTCTTTGTTCAAGACGTCAAGAAGCTGGACACCCTCCACTTTTAACAGCTGGGGGTGGGGGCACAGATGGAAAGGGGGATAATCTTGTGTTCAGTTTTTGAAGGGTACATTCTCATAGTCCAAAACTCAGAAAATACAGAAGGGAAATATCTCCCAGCCACCCTGGTCCTTTCTCCTGAGTTTTTTACAAATCCTTGCAGACATGTTTTATGTATATTATCATAGTACACACACACACGTGTTCCCTCTCTCTGCACAAATGTTAACATACTAAAGATACTCTTCTGTACCTTCACAGTGCAAGTACCATATCTCCCACCTAGGACTTGACCAAGGCCACAGCCAGGTAAGGGCAGGGTAGGCACTTGGCCTCCGAGCTCTGCATCCAGTGCTCGCTCCCCACAGCACCCCCCAACTCACCCACAGCAGCCGACACAGCCCCAGGCTGACTCTAACAAGCACGCACAAAAGCAGCGAGAAATGGCCCATGCTGCTTTCTGGGCAGGACACTCCATCCCGCAGAAGGGACCTAAAGGTCCCTCACTCCTCCATCTGGAAAGCCGGGCTGCCAGGGTATGGGGCAGGCGGTTGGACTCACCCTATCTGCCTTCCTCTGCTCCTGCTCCAACTCTCCCACATGCTGCCAGGAATACAGCAGATGGCTGGCCAGATCCTCGGCCTCTTCTAGAATGAGAGAGGTTGAGATGGGGCCCAAAGGACTCCCCCTAAAGGCCTGTCAAAGCACCAGGTTGAAGGATGACGGGTGCCCAGATTCCCACATTCAAACTGCCTGGCAGCACGTTCATTGTGATACAGTGTTGTCTTCAATTCTGCTTTCTCAAACATCAAGACTCTAATTATCTGAATTGAACCTTTAGGAGAAAAGCCAAGCAAATGCTGAAAGAGGAGGAAAGCAACATTCTCCAGAGGACAGGAGGGAACTTCACACCCTCCACTCACCTGTAATTGCCTCTTTAGGGCTCCCCGGTTTTGCTGGCTTTCTTGCTTTTCCTATAGGAAGAGGAAGACAGAGCTCTTACTAGGGGGAGGCAGAGATGGCACAGCAAGGGACATGCCCCTAGAATGCCACCAATGCCCCAGGACAGGCCCACCCATGGGACCAGGTTATCAGGGACCCTGTGGGGATGAGGTGGAATCTGGGGAGTGAGCCTTTTTCCCCAGGCTGGGGGTGGGCAAGACGAGACTGGGGCCTCTACATCTGAGTGCCCCCCAAACCCAGCAGTCATGCCGTGAGCAAACAAATCATTTCTTCTAGTTGCTTGACAAGTTTTTGGTTGTGCTGTTTCTGCGGGGAGAGTCAAAGGAAGGTGACCAAGGATGGCCCCCTCCACTCTATTCCCCAGACCAGGAAGCGGTAGACAGGGGCCAGAAATGGATTTTAAAGGCAAAGTTCTCAGACCCACTAGGACCATGAACTGGTAAACTCTCCTCAAGCTCCCAAGGACAGAGGATTTGGGTCTTTGTTGGTTTTGGCCCACGGCCACAGAACTGAAAGTCCGAATCTGGATTCTCCCGAAAGGACAGTAACATAAACCTTTAGAGATGGAGTCTGAGAAAAGCTCACCCTTCTACCAGCTTGTGATTTAGAAAGGTGCATTCACTCAACAAACATTGACTGAGCACATACAGGCCAGGTATGGTTCTTCATAGCAGAGATGTAGGACAGAAAAGGACAGACAGGATCCCTTGGCCCTGAGGCTTACATTCTACTGGACCTTTAAATCGTGGACTCTCAGAGCTAACAGAGACTTTTGATACTTTCTAACTCTACCTCCTCGGGAAACACAAGCCCAAGGAGGAGAGGTGGCTTGCCCAGAATCAAAGAGCAAATTAGGGCCTGAGTCAGAGTGGAAATACGGGGCTCCTGACAACCAATCAGGCCAGTGCTTCCCTGAGAAGCCACAACCCCAGGACATGTGTGGCAAGGGCTGGAGCATGGGTATCTGAAGAAGAGACAGTAGGCAAAGAGGGCAGCAACAGAAGAGCCATGATGCATGCTCCGTGCTCTGGGGTCCCTCTAGCTGAGGCCTCGGCCCCCCTGCTCCCCATTTGCCCTTGGCATCAGGGACCCTCAGCCCTTTCTTCAGGGCCCCAAGGGGAAACTGGAGCCCAGGACTTGCAGCGTGGAATTGGTGGACCCCATTGAACTCTTACCAATGACTCGATGGTTTTATTCCGTCGACTGATTGTTATATAACTCGAGTCCAGGGCGACTGTTACCTCTTGGTATCTGCTCTGAGGCACGTGAAGAGAGGAGGAGTTGGAGGAGGATCGAGGGGAGAGGTAGAGAGAGCAATCATTAGGGTTGGGGGGAGGGTGTGAGAGGTCTCAGATGGCAGAGGGGCACCCAGCCCCCACTGTGGGAGGAGGTTGGAGGGCTGGCCTGCAGGGTCACTGGGTCATGGCCCAGGGCCTCTTACTTCCAGATCCTTCAGGGTAGCGGATGATCCAGAGCCCTCCGCACAGATACCTGTTGCTGACTACAAGAGATGAGAGTGCGCATGGAAATCTTCTGTCCCCTCCATGTCTAAGCCCTCTGACTTCCTTTCTTCCCCAGCAACTGACAACATTTTCTTTTCTGCCTAACTTGGACCCTTCATCCCATAACCTCTTTGTGCCAACTTCTCTCATGGTTTTTATCTCCCCACCATCCCTTCCTCCCAAGCAGCTCTCATCTGGTGTTTCTACAGTAGGATAAAATGATGTAACCAGCCACGGGGTACAACTCCTTCATGTGAACAGCCTCAAGGAAGAAGCCTCAGGGAAGAGGCAACTTCCTCAACATGGCCCAGCAAATCGGCCAGTCCCAGGATCTTTCCTCTCTCTGGTGATTCCTGCCTCAGTTTCTTTCTATCATACTTTCCTTTCCCCCGCACTCCCCTCAATTTCTGAAGTTCCTCAGAAACAACGCCATTGAGCTGTTGGGAGAGTTGTTGCAGGCTCTCGGTTAATGAGAAGGTCCTAAGGGCAGAGACACAGGCGTCAGGGGTGCAGGTGGCTCAATGGGAAAGAAGGTGTTAGACAGTGGCCTCCCTGACTCCCTCAGCCTAGAGACTGCTGCCCTGATAAGAGACACTCACTTGCTTTCATCCATGAGATTGGGGCTAGCATGATGATTCTGTGTGGGAAGAAACATATGAGATGGTCATTCAATTTCTGTAAGAATCACCGAGGACAGGTGAGCCAAGTTCCCAAGCTCATTCCAACAATATTCTATCTCCCCAAACCTCAAGGAAAAGCCCAGTCTCAGCCTTCCCCCAGCCCAGTCCCCAGGAAGGGCACCTGGCCCTAGGGAACAAACTACTTGTGAAAAGAGAAGAGAATCCATAGTAGGTACAGGAGGGCAGTGGGCAGAGGAGGAGGAAGCATGAACCTGAGGTGCCGCTATGCTAGCAAGACTGGCACCAGGGCAAGGGACACCACCAGGTAACACGGTGTCATTGGCAGGTGGCTAGACAGATGCAGCATTGTCTTTGGCGTCTGTCACAGAACAAAGCAGGGCATTAGGGGGCCATGCAGGAGAGAAGGTGCCTCAGTGGCATGGACACAAGAGTGTGGAACAGGTATGACAGATACTCACGCAATGACAGTGACAGTCATGCATGCTTGGAGCCACTCGGGGGTGTGGATATGGTTTGCCCAGGCCTTGGGCTGCTAGGCAGCATTTTGAATGGCCAAAGCTCAAAGCAGGGGCTGCACGGCCTCCTTCATGAATACATGAGGACCTCGCTCCCCCTGGAGTTCAGCAAAAGACAGCAGCAGGTTCTGACCTGTGGCAGCCACAGCAGGCTGGAGGAAGGTGTACCAAAGTCAGGGAAGAGAAAGGCACTGTTCTTCCAGACGGCCAGTCTGTGCCACAGAGTGACCCTAACTGGGCCCCTCCTGGGCAGAGGACAGTGATGAGGAAGTAGTAGTCTGGGCAATGTACAATGTAGCTGCCTCTCTCTTCTCTCTTCCCTTCTCCCTTGCAGTGGCATAATCAGCAGGGGCTACCATCTCCTACAGCTCGCCCAGCTTCTCCTGCAGCTCCTCCTTGACATGCTGCTCAGACTAAAGTGCATTGTTGATCTCCATATTCTCACTGTTCTGGACAGAGAGAAGCAATCACGCCACCCACTGCAGCTGGAGACCGCAGAACTTGGTGTCTGCCTCCCATGGCGCCGGGAAGGATGGAGGCAGATTAGAAAAATGATCCCCTCTCCCCCATAGCCATCAAACCAGGGCTCTGGCTCACAGGTCCCTTCAGAAGTGCCACTTCACATGAGGGCTACACTGCCCCACTTAACAGATGGGGAAACAAAGGCCTAGAGGGCTGGGGAGGAGGGCAGTCTCCCCAGGTGGGATGCACCAGTTTTACAAAGCTGCTCTCTGTAGCTGCTCCTTGAGCTCAGGGTTCTGGGAGAGTGTGGGGCTGATGGTGGTGAGGTCATTTTGCACGGTCCCCAGGGTTTGCCTGCATACCTCCGCCTGCTCCCCTCAGAGCTCAGCCACCCGCCCCAGCTCCAGCAGCCTCTCCTGCTCCCAGTTCAGGCATTTCAAGTCCTCATTGTCTTGCATGTGGGCCCACTGGAGCTGTCCTGCTAGACTTTCCAGCTCCTCCCACAGGTGCTCAGCCTCTGCCTGTAGCTGCTGCTGCAGCTGCAGACCCCAGAACTTGGTGTCTGCCTCCCACGGCACTGGGAAGGATGGAGGCAGATTAGAAAAATCATCGCCTCTCATCCACAGCCATCAAAGCAGGGCTCTGGCTCACAGGTCCCCTCAGAAGTGCCGCTTCACATGAGGGCTGCGCCCCCTGCTGGGGGCTCCAGGGGTGGGATTCAGCTGAGAAAGGAAGCAGACAATAACGGCCTCTGGATTCTCAAAAACACCCTCCTCTTGGTACACAGCTCCTCTCGGGCTCCCCAGACTTGGCCTCCCTGCTAATGATTCTCAAAAAAACCCTCTGCATTCTCAAAAAAAAAAAAACCCTCCTCTTGATCCACTGCACCCCTCAGGCTCCCCAAACTTGGCCTCCCTGCTAATGATTCCTTGCACCCTGATGGTAGCCAATCTTCCAAGCCACTTTCAGATAGAGACAACTGTGGGTGGCTGACAACACACACTTTTTCCTCTTTGCTGATGGGGACATTGAGGCTCATGACGATTACAAGACTTGCCGCCTCCTGGCACAGACCTCTTTCCCTCTGCCTCAAAGCCTTTCCATGCATCCACCTCTCT"	"CATTCTAAGCCATCCCCACAGCCCTCTGATGCCAGTCCTGCTCCCAGGTCACCCCAGCCCCAGCTTACCCACCTGGTTCCTTAGTTCAGCCAAGATCGTCTCCAGCTCCTGTACTCGACTCATGCTGTGCACTCTCTCCTCCCTCAACGTGTGCACCTGCCCAAAGCACAGGGGGAAAGGGCCCTGCAGAGAGGGGCTGGCAGCTGGACAAGCTACCATCTCCCTCTCTGCCCCTACCTCCACAAAGCCCAGACCCATGACCACCTCTGGCTGTGCTCCTCCCATTTCACAGATGCCTGGAACAATCAAGTGACCTATCTACGGTGGGGGCTGAAGGGTCAGGTCTCACCTGCTCTGACATCTCCCGCATCCTCTGCCACCACATGGCACTCTCTCCATGCAGATACTCGGCATACTGCTCTCTCTCCATTTGCAGATACTTCAGCCACTCCATCACCTGCAAGAATGGGCACAGAAGTTAGGAAGGGCTGTCTGGTCCTCACATGCTTCTGGCCCCCTGGGGTCACCTTCCTTCCACATCCCTCCCTCTGCAAAGCCTCACCTGCCCCAGGTGTGCTTCCAGCTGTGCCCGTTCGTCTGTGGGCTGCTGTAACTGCTGGTTAGCATCAGGGGCTTCACACCAGCTAGATAACTGAATGATGAAGAAAGAGAAGTTTCAATCTGAGGAGCCTGGGCTGTTCCACACAGTGCCCCTTAAAAGGGCTAGAGCTAGGTTCAATGTACAACTTGGTCAATAAAGATCTCTACTGTGAAGGTGCTTTCCTTTAGAAATAAAAAATTAGGTAATTTTAAAGAGATCTCAGGCCGGGGATGGTAGCCCATGCCTGTAATCCCAACACTTTGGGAGGCTGAGGTGGGTGGATTGCTTGAGCTCAGGAGTTAGAGACCAGCCTGGGCAACATGGCGAAGCCTTGTCTCTACAAATACAAAAATTACCCAGGCGTGGTGGCATGCGCCTATAGTCCCAGCTACTTGAGAGGCTGAGGCAGGAGGATTGCTTGAGCATGGAAGGCCGAAGGTTGCAATGAGCCGAGATCACGCCACTGCACTCCAGCCCAGGTGACAGAGCGAGACCCTGTCCCAAAACAAACAAACAAATAAGAAATCTACTCTCTATTATTACCGTGGAATAGTCGAAGTGTTGGCTTGAACCTCAGAAGGAAATAAACAGGCTCATGAGCTAGCCGTATAAGTGTAATCTATAAAATAATGATTTTCATCTACGCTGCATTTAAAAAAAAAAATTTAAGCCCTAACCCTGAGATTCTGATTCCCCAGATCTATGGCAGGGCCCCAATCTGTAGATTTTTAGCAGTCTCTAGAGGATTCTATGGCAGGACCAGAACAAGGACTCAAATTTTCCAGCTCTTGGCTGGAGCCTTCCCATACCCCACCACCCCTAGGGCTGCAGCCTCTCACCTGTTGAAGCGTGAGCTCAGTGAGTTCCAGTTTCTTTTTCAGCTCCTCCAAGTCACACTGCATCCCTGCCTTGTCAATCAGTACAACTTGAAGCTGCTCTGCCAAAGCTGAGTTCTCCTGCTTCAGCTCCTTATTGCTGTTGCTACGGCCAGAGGCAGTAGAGAAAGGAATGAACAAAGAACAGAAAGGGCTGCTTTGGTGATCAGCCCTCTACCCTCACCCCACAACCACAGAACCATGGCACTGGAAGGGACCTCAGGAATCAAAAGTCACAGGTGGCGGGCCAGAGAGAAGACATGAGTTCCCCAAGGCTATCCCATGAGTCAGAGGCACAGCTGGCCCTAAAGCGTAGCCTGTGCACGCATTCAAACCTGTGTGACCACGTCACCATGCTCACATGCAGCCCTTCCACCTCCCAGCACATCACCCACACTAAGGGCCCCACACCTCCCATCCCACCCTCCCCCGTCCTACCTGTTATTGTATAACTCCAGCCTGAGGGCATCGCTGTCTCTGGTTAACTGGTTGTTGTACTGAAAATACAGAAAGGTGAAGTCAGGATACAGCAGGCAGAGAAGCAGCTGGCAGACTAGGAACGACAGCTACAGTGACTATTCCACAGTAACACTTCCTCACTCTCAATCACGCCTGACATGTTTGCAAGGCATTTCCAAGCCCACAGTCTCATTTGTTTCTCAAATAACTCAGTAAGGGTGGAAGGGACAGGGAAAGAGATCGAATTTACAGCTGGCTACCAGAGGCCCAGAGAAAAAAGAGAATATTACTATTGTTATTACCGTTATGACTGCCATTGTTGGAACCTTTATTGAGTGCTTCACCAGGCACCATGCTAACAATCCCATTTAATCCTCACAACCACCATAGGAGACAGTTACTATTATCACCTCTATTGTGTCGTTGAAAAACATGGGGTATTAGAGGTTAAGTGCTTGTCTAAGATCATTCAGACAGAGCTGGGATTTGAACACCCAGGTATATCTGATTCTCTAAGCCCATTTTTTCGCTGTGAGGCAGGAAAATAGGATCTGGAGGCAGGGAACATAAGGCCTGTTCACACTTCAGCTATAACAGGAAATATCCTCTCTATGGGGCCTATGGCTAAATGACTTTGTAACTTTACTTCATCCTCTCCATTTACATAGGGCATACCCCAAGTAACCAATGGAATCCTCTAGGGGGTAAACTCCCAAAAATTCTGTAATGGTGCCTTTGAGCCCTTATGCTCGGGTGCGCTCCCACACTGTGGAGTGTGCTTTCAGTTTCAGTAAGTCCTTTCATTCCTTCCTCGCTTTGTTTGTGCATTTTGTCCAGTTCTTTGTTCAAGACGTCAAGAAGCTGGACACCCTCCACTTTTAACAGCTGGGGGTGGGGGCACAGATGGAAAGGGGGATAATCTTGTGTTCAGTTTTTGAAGGGTACATTCTCATAGTCCAAAACTCAGAAAATACAGAAGGGAAATATCTCCCAGCCACCCTGGTCCTTTCTCCTGAGTTTTTTACAAATCCTTGCAGACATGTTTTATGTATATTATCATAGTACACACACACACGTGTTCCCTCTCTCTGCACAAATGTTAACATACTAAAGATACTCTTCTGTACCTTCACAGTGCAAGTACCATATCTCCCACCTAGGACTTGACCAAGGCCACAGCCAGGTAAGGGCAGGGTAGGCACTTGGCCTCCGAGCTCTGCATCCAGTGCTCGCTCCCCACAGCACCCCCCAACTCACCCACAGCAGCCGACACAGCCCCAGGCTGACTCTAACAAGCACGCACAAAAGCAGCGAGAAATGGCCCATGCTGCTTTCTGGGCAGGACACTCCATCCCGCAGAAGGGACCTAAAGGTCCCTCACTCCTCCATCTGGAAAGCCGGGCTGCCAGGGTATGGGGCAGGCGGTTGGACTCACCCTATCTGCCTTCCTCTGCTCCTGCTCCAACTCTCCCACATGCTGCCAGGAATACAGCAGATGGCTGGCCAGATCCTCGGCCTCTTCTAGAATGAGAGAGGTTGAGATGGGGCCCAAAGGACTCCCCCTAAAGGCCTGTCAAAGCACCAGGTTGAAGGATGACGGGTGCCCAGATTCCCACATTCAAACTGCCTGGCAGCACGTTCATTGTGATACAGTGTTGTCTTCAATTCTGCTTTCTCAAACATCAAGACTCTAATTATCTGAATTGAACCTTTAGGAGAAAAGCCAAGCAAATGCTGAAAGAGGAGGAAAGCAACATTCTCCAGAGGACAGGAGGGAACTTCACACCCTCCACTCACCTGTAATTGCCTCTTTAGGGCTCCCCGGTTTTGCTGGCTTTCTTGCTTTTCCTATAGGAAGAGGAAGACAGAGCTCTTACTAGGGGGAGGCAGAGATGGCACAGCAAGGGACATGCCCCTAGAATGCCACCAATGCCCCAGGACAGGCCCACCCATGGGACCAGGTTATCAGGGACCCTGTGGGGATGAGGTGGAATCTGGGGAGTGAGCCTTTTTCCCCAGGCTGGGGGTGGGCAAGACGAGACTGGGGCCTCTACATCTGAGTGCCCCCCAAACCCAGCAGTCATGCCGTGAGCAAACAAATCATTTCTTCTAGTTGCTTGACAAGTTTTTGGTTGTGCTGTTTCTGCGGGGAGAGTCAAAGGAAGGTGACCAAGGATGGCCCCCTCCACTCTATTCCCCAGACCAGGAAGCGGTAGACAGGGGCCAGAAATGGATTTTAAAGGCAAAGTTCTCAGACCCACTAGGACCATGAACTGGTAAACTCTCCTCAAGCTCCCAAGGACAGAGGATTTGGGTCTTTGTTGGTTTTGGCCCACGGCCACAGAACTGAAAGTCCGAATCTGGATTCTCCCGAAAGGACAGTAACATAAACCTTTAGAGATGGAGTCTGAGAAAAGCTCACCCTTCTACCAGCTTGTGATTTAGAAAGGTGCATTCACTCAACAAACATTGACTGAGCACATACAGGCCAGGTATGGTTCTTCATAGCAGAGATGTAGGACAGAAAAGGACAGACAGGATCCCTTGGCCCTGAGGCTTACATTCTACTGGACCTTTAAATCGTGGACTCTCAGAGCTAACAGAGACTTTTGATACTTTCTAACTCTACCTCCTCGGGAAACACAAGCCCAAGGAGGAGAGGTGGCTTGCCCAGAATCAAAGAGCAAATTAGGGCCTGAGTCAGAGTGGAAATACGGGGCTCCTGACAACCAATCAGGCCAGTGCTTCCCTGAGAAGCCACAACCCCAGGACATGTGTGGCAAGGGCTGGAGCATGGGTATCTGAAGAAGAGACAGTAGGCAAAGAGGGCAGCAACAGAAGAGCCATGATGCATGCTCCGTGCTCTGGGGTCCCTCTAGCTGAGGCCTCGGCCCCCCTGCTCCCCATTTGCCCTTGGCATCAGGGACCCTCAGCCCTTTCTTCAGGGCCCCAAGGGGAAACTGGAGCCCAGGACTTGCAGCGTGGAATTGGTGGACCCCATTGAACTCTTACCAATGACTCGATGGTTTTATTCCGTCGACTGATTGTTATATAACTCGAGTCCAGGGCGACTGTTACCTCTTGGTATCTGCTCTGAGGCACGTGAAGAGAGGAGGAGTTGGAGGAGGATCGAGGGGAGAGGTAGAGAGAGCAATCATTAGGGTTGGGGGGAGGGTGTGAGAGGTCTCAGATGGCAGAGGGGCACCCAGCCCCCACTGTGGGAGGAGGTTGGAGGGCTGGCCTGCAGGGTCACTGGGTCATGGCCCAGGGCCTCTTACTTCCAGATCCTTCAGGGTAGCGGATGATCCAGAGCCCTCCGCACAGATACCTGTTGCTGACTACAAGAGATGAGAGTGCGCATGGAAATCTTCTGTCCCCTCCATGTCTAAGCCCTCTGACTTCCTTTCTTCCCCAGCAACTGACAACATTTTCTTTTCTGCCTAACTTGGACCCTTCATCCCATAACCTCTTTGTGCCAACTTCTCTCATGGTTTTTATCTCCCCACCATCCCTTCCTCCCAAGCAGCTCTCATCTGGTGTTTCTACAGTAGGATAAAATGATGTAACCAGCCACGGGGTACAACTCCTTCATGTGAACAGCCTCAAGGAAGAAGCCTCAGGGAAGAGGCAACTTCCTCAACATGGCCCAGCAAATCGGCCAGTCCCAGGATCTTTCCTCTCTCTGGTGATTCCTGCCTCAGTTTCTTTCTATCATACTTTCCTTTCCCCCGCACTCCCCTCAATTTCTGAAGTTCCTCAGAAACAACGCCATTGAGCTGTTGGGAGAGTTGTTGCAGGCTCTCGGTTAATGAGAAGGTCCTAAGGGCAGAGACACAGGCGTCAGGGGTGCAGGTGGCTCAATGGGAAAGAAGGTGTTAGACAGTGGCCTCCCTGACTCCCTCAGCCTAGAGACTGCTGCCCTGATAAGAGACACTCACTTGCTTTCATCCATGAGATTGGGGCTAGCATGATGATTCTGTGTGGGAAGAAACATATGAGATGGTCATTCAATTTCTGTAAGAATCACCGAGGACAGGTGAGCCAAGTTCCCAAGCTCATTCCAACAATATTCTATCTCCCCAAACCTCAAGGAAAAGCCCAGTCTCAGCCTTCCCCCAGCCCAGTCCCCAGGAAGGGCACCTGGCCCTAGGGAACAAACTACTTGTGAAAAGAGAAGAGAATCCATAGTAGGTACAGGAGGGCAGTGGGCAGAGGAGGAGGAAGCATGAACCTGAGGTGCCGCTATGCTAGCAAGACTGGCACCAGGGCAAGGGACACCACCAGGTAACACGGTGTCATTGGCAGGTGGCTAGACAGATGCAGCATTGTCTTTGGCGTCTGTCACAGAACAAAGCAGGGCATTAGGGGGCCATGCAGGAGAGAAGGTGCCTCAGTGGCATGGACACAAGAGTGTGGAACAGGTATGACAGATACTCACGCAATGACAGTGACAGTCATGCATGCTTGGAGCCACTCGGGGGTGTGGATATGGTTTGCCCAGGCCTTGGGCTGCTAGGCAGCATTTTGAATGGCCAAAGCTCAAAGCAGGGGCTGCACGGCCTCCTTCATGAATACATGAGGACCTCGCTCCCCCTGGAGTTCAGCAAAAGACAGCAGCAGGTTCTGACCTGTGGCAGCCACAGCAGGCTGGAGGAAGGTGTACCAAAGTCAGGGAAGAGAAAGGCACTGTTCTTCCAGACGGCCAGTCTGTGCCACAGAGTGACCCTAACTGGGCCCCTCCTGGGCAGAGGACAGTGATGAGGAAGTAGTAGTCTGGGCAATGTACAATGTAGCTGCCTCTCTCTTCTCTCTTCCCTTCTCCCTTGCAGTGGCATAATCAGCAGGGGCTACCATCTCCTACAGCTCGCCCAGCTTCTCCTGCAGCTCCTCCTTGACATGCTGCTCAGACTAAAGTGCATTGTTGATCTCCATATTCTCACTGTTCTGGACAGAGAGAAGCAATCACGCCACCCACTGCAGCTGGAGACCGCAGAACTTGGTGTCTGCCTCCCATGGCGCCGGGAAGGATGGAGGCAGATTAGAAAAATGATCCCCTCTCCCCCATAGCCATCAAACCAGGGCTCTGGCTCACAGGTCCCTTCAGAAGTGCCACTTCACATGAGGGCTACACTGCCCCACTTAACAGATGGGGAAACAAAGGCCTAGAGGGCTGGGGAGGAGGGCAGTCTCCCCAGGTGGGATGCACCAGTTTTACAAAGCTGCTCTCTGTAGCTGCTCCTTGAGCTCAGGGTTCTGGGAGAGTGTGGGGCTGATGGTGGTGAGGTCATTTTGCACGGTCCCCAGGGTTTGCCTGCATACCTCCGCCTGCTCCCCTCAGAGCTCAGCCACCCGCCCCAGCTCCAGCAGCCTCTCCTGCTCCCAGTTCAGGCATTTCAAGTCCTCATTGTCTTGCATGTGGGCCCACTGGAGCTGTCCTGCTAGACTTTCCAGCTCCTCCCACAGGTGCTCAGCCTCTGCCTGTAGCTGCTGCTGCAGCTGCAGACCCCAGAACTTGGTGTCTGCCTCCCACGGCACTGGGAAGGATGGAGGCAGATTAGAAAAATCATCGCCTCTCATCCACAGCCATCAAAGCAGGGCTCTGGCTCACAGGTCCCCTCAGAAGTGCCGCTTCACATGAGGGCTGCGCCCCCTGCTGGGGGCTCCAGGGGTGGGATTCAGCTGAGAAAGGAAGCAGACAATAACGGCCTCTGGATTCTCAAAAACACCCTCCTCTTGGTACACAGCTCCTCTCGGGCTCCCCAGACTTGGCCTCCCTGCTAATGATTCTCAAAAAAACCCTCTGCATTCTCAAAAAAAAAAAAACCCTCCTCTTGATCCACTGCACCCCTCAGGCTCCCCAAACTTGGCCTCCCTGCTAATGATTCCTTGCACCCTGATGGTAGCCAATCTTCCAAGCCACTTTCAGATAGAGACAACTGTGGGTGGCTGACAACACACACTTTTTCCTCTTTGCTGATGGGGACATTGAGGCTCATGACGATTACAAGACTTGCCGCCTCCTGGCACAGACCTCTTTCCCTCTGCCTCAAAGCCTTTCCATGCATCCACCTCTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408214"	""	62	"."	5	25	"."	0	"AC126323.1,upstream_gene_variant,,ENST00000408214,;hsa-mir-7162,splice_donor_variant,,ENST00000570077,;hsa-mir-7162,upstream_gene_variant,,ENST00000563606,;hsa-mir-7162,upstream_gene_variant,,ENST00000561706,;hsa-mir-7162,splice_donor_variant,,ENST00000429274,;hsa-mir-7162,splice_donor_variant,,ENST00000562306,;RP11-299H22.5,splice_donor_variant,,ENST00000562660,;RP11-299H22.4,downstream_gene_variant,,ENST00000566935,;"	"-"	"ENSG00000221141"	"ENST00000408214"	"Transcript"	"upstream_gene_variant"	"-/83"	""	""	""	""	""	"1"	"3509"	-1	"AC126323.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCATTCTAAGCCATCCCCACAGCCCTCTGATGCCAGTCCTGCTCCCAGGTCACCCCAGCCCCAGCTTACCCACCTGGTTCCTTAGTTCAGCCAAGATCGTCTCCAGCTCCTGTACTCGACTCATGCTGTGCACTCTCTCCTCCCTCAACGTGTGCACCTGCCCAAAGCACAGGGGGAAAGGGCCCTGCAGAGAGGGGCTGGCAGCTGGACAAGCTACCATCTCCCTCTCTGCCCCTACCTCCACAAAGCCCAGACCCATGACCACCTCTGGCTGTGCTCCTCCCATTTCACAGATGCCTGGAACAATCAAGTGACCTATCTACGGTGGGGGCTGAAGGGTCAGGTCTCACCTGCTCTGACATCTCCCGCATCCTCTGCCACCACATGGCACTCTCTCCATGCAGATACTCGGCATACTGCTCTCTCTCCATTTGCAGATACTTCAGCCACTCCATCACCTGCAAGAATGGGCACAGAAGTTAGGAAGGGCTGTCTGGTCCTCACATGCTTCTGGCCCCCTGGGGTCACCTTCCTTCCACATCCCTCCCTCTGCAAAGCCTCACCTGCCCCAGGTGTGCTTCCAGCTGTGCCCGTTCGTCTGTGGGCTGCTGTAACTGCTGGTTAGCATCAGGGGCTTCACACCAGCTAGATAACTGAATGATGAAGAAAGAGAAGTTTCAATCTGAGGAGCCTGGGCTGTTCCACACAGTGCCCCTTAAAAGGGCTAGAGCTAGGTTCAATGTACAACTTGGTCAATAAAGATCTCTACTGTGAAGGTGCTTTCCTTTAGAAATAAAAAATTAGGTAATTTTAAAGAGATCTCAGGCCGGGGATGGTAGCCCATGCCTGTAATCCCAACACTTTGGGAGGCTGAGGTGGGTGGATTGCTTGAGCTCAGGAGTTAGAGACCAGCCTGGGCAACATGGCGAAGCCTTGTCTCTACAAATACAAAAATTACCCAGGCGTGGTGGCATGCGCCTATAGTCCCAGCTACTTGAGAGGCTGAGGCAGGAGGATTGCTTGAGCATGGAAGGCCGAAGGTTGCAATGAGCCGAGATCACGCCACTGCACTCCAGCCCAGGTGACAGAGCGAGACCCTGTCCCAAAACAAACAAACAAATAAGAAATCTACTCTCTATTATTACCGTGGAATAGTCGAAGTGTTGGCTTGAACCTCAGAAGGAAATAAACAGGCTCATGAGCTAGCCGTATAAGTGTAATCTATAAAATAATGATTTTCATCTACGCTGCATTTAAAAAAAAAAATTTAAGCCCTAACCCTGAGATTCTGATTCCCCAGATCTATGGCAGGGCCCCAATCTGTAGATTTTTAGCAGTCTCTAGAGGATTCTATGGCAGGACCAGAACAAGGACTCAAATTTTCCAGCTCTTGGCTGGAGCCTTCCCATACCCCACCACCCCTAGGGCTGCAGCCTCTCACCTGTTGAAGCGTGAGCTCAGTGAGTTCCAGTTTCTTTTTCAGCTCCTCCAAGTCACACTGCATCCCTGCCTTGTCAATCAGTACAACTTGAAGCTGCTCTGCCAAAGCTGAGTTCTCCTGCTTCAGCTCCTTATTGCTGTTGCTACGGCCAGAGGCAGTAGAGAAAGGAATGAACAAAGAACAGAAAGGGCTGCTTTGGTGATCAGCCCTCTACCCTCACCCCACAACCACAGAACCATGGCACTGGAAGGGACCTCAGGAATCAAAAGTCACAGGTGGCGGGCCAGAGAGAAGACATGAGTTCCCCAAGGCTATCCCATGAGTCAGAGGCACAGCTGGCCCTAAAGCGTAGCCTGTGCACGCATTCAAACCTGTGTGACCACGTCACCATGCTCACATGCAGCCCTTCCACCTCCCAGCACATCACCCACACTAAGGGCCCCACACCTCCCATCCCACCCTCCCCCGTCCTACCTGTTATTGTATAACTCCAGCCTGAGGGCATCGCTGTCTCTGGTTAACTGGTTGTTGTACTGAAAATACAGAAAGGTGAAGTCAGGATACAGCAGGCAGAGAAGCAGCTGGCAGACTAGGAACGACAGCTACAGTGACTATTCCACAGTAACACTTCCTCACTCTCAATCACGCCTGACATGTTTGCAAGGCATTTCCAAGCCCACAGTCTCATTTGTTTCTCAAATAACTCAGTAAGGGTGGAAGGGACAGGGAAAGAGATCGAATTTACAGCTGGCTACCAGAGGCCCAGAGAAAAAAGAGAATATTACTATTGTTATTACCGTTATGACTGCCATTGTTGGAACCTTTATTGAGTGCTTCACCAGGCACCATGCTAACAATCCCATTTAATCCTCACAACCACCATAGGAGACAGTTACTATTATCACCTCTATTGTGTCGTTGAAAAACATGGGGTATTAGAGGTTAAGTGCTTGTCTAAGATCATTCAGACAGAGCTGGGATTTGAACACCCAGGTATATCTGATTCTCTAAGCCCATTTTTTCGCTGTGAGGCAGGAAAATAGGATCTGGAGGCAGGGAACATAAGGCCTGTTCACACTTCAGCTATAACAGGAAATATCCTCTCTATGGGGCCTATGGCTAAATGACTTTGTAACTTTACTTCATCCTCTCCATTTACATAGGGCATACCCCAAGTAACCAATGGAATCCTCTAGGGGGTAAACTCCCAAAAATTCTGTAATGGTGCCTTTGAGCCCTTATGCTCGGGTGCGCTCCCACACTGTGGAGTGTGCTTTCAGTTTCAGTAAGTCCTTTCATTCCTTCCTCGCTTTGTTTGTGCATTTTGTCCAGTTCTTTGTTCAAGACGTCAAGAAGCTGGACACCCTCCACTTTTAACAGCTGGGGGTGGGGGCACAGATGGAAAGGGGGATAATCTTGTGTTCAGTTTTTGAAGGGTACATTCTCATAGTCCAAAACTCAGAAAATACAGAAGGGAAATATCTCCCAGCCACCCTGGTCCTTTCTCCTGAGTTTTTTACAAATCCTTGCAGACATGTTTTATGTATATTATCATAGTACACACACACACGTGTTCCCTCTCTCTGCACAAATGTTAACATACTAAAGATACTCTTCTGTACCTTCACAGTGCAAGTACCATATCTCCCACCTAGGACTTGACCAAGGCCACAGCCAGGTAAGGGCAGGGTAGGCACTTGGCCTCCGAGCTCTGCATCCAGTGCTCGCTCCCCACAGCACCCCCCAACTCACCCACAGCAGCCGACACAGCCCCAGGCTGACTCTAACAAGCACGCACAAAAGCAGCGAGAAATGGCCCATGCTGCTTTCTGGGCAGGACACTCCATCCCGCAGAAGGGACCTAAAGGTCCCTCACTCCTCCATCTGGAAAGCCGGGCTGCCAGGGTATGGGGCAGGCGGTTGGACTCACCCTATCTGCCTTCCTCTGCTCCTGCTCCAACTCTCCCACATGCTGCCAGGAATACAGCAGATGGCTGGCCAGATCCTCGGCCTCTTCTAGAATGAGAGAGGTTGAGATGGGGCCCAAAGGACTCCCCCTAAAGGCCTGTCAAAGCACCAGGTTGAAGGATGACGGGTGCCCAGATTCCCACATTCAAACTGCCTGGCAGCACGTTCATTGTGATACAGTGTTGTCTTCAATTCTGCTTTCTCAAACATCAAGACTCTAATTATCTGAATTGAACCTTTAGGAGAAAAGCCAAGCAAATGCTGAAAGAGGAGGAAAGCAACATTCTCCAGAGGACAGGAGGGAACTTCACACCCTCCACTCACCTGTAATTGCCTCTTTAGGGCTCCCCGGTTTTGCTGGCTTTCTTGCTTTTCCTATAGGAAGAGGAAGACAGAGCTCTTACTAGGGGGAGGCAGAGATGGCACAGCAAGGGACATGCCCCTAGAATGCCACCAATGCCCCAGGACAGGCCCACCCATGGGACCAGGTTATCAGGGACCCTGTGGGGATGAGGTGGAATCTGGGGAGTGAGCCTTTTTCCCCAGGCTGGGGGTGGGCAAGACGAGACTGGGGCCTCTACATCTGAGTGCCCCCCAAACCCAGCAGTCATGCCGTGAGCAAACAAATCATTTCTTCTAGTTGCTTGACAAGTTTTTGGTTGTGCTGTTTCTGCGGGGAGAGTCAAAGGAAGGTGACCAAGGATGGCCCCCTCCACTCTATTCCCCAGACCAGGAAGCGGTAGACAGGGGCCAGAAATGGATTTTAAAGGCAAAGTTCTCAGACCCACTAGGACCATGAACTGGTAAACTCTCCTCAAGCTCCCAAGGACAGAGGATTTGGGTCTTTGTTGGTTTTGGCCCACGGCCACAGAACTGAAAGTCCGAATCTGGATTCTCCCGAAAGGACAGTAACATAAACCTTTAGAGATGGAGTCTGAGAAAAGCTCACCCTTCTACCAGCTTGTGATTTAGAAAGGTGCATTCACTCAACAAACATTGACTGAGCACATACAGGCCAGGTATGGTTCTTCATAGCAGAGATGTAGGACAGAAAAGGACAGACAGGATCCCTTGGCCCTGAGGCTTACATTCTACTGGACCTTTAAATCGTGGACTCTCAGAGCTAACAGAGACTTTTGATACTTTCTAACTCTACCTCCTCGGGAAACACAAGCCCAAGGAGGAGAGGTGGCTTGCCCAGAATCAAAGAGCAAATTAGGGCCTGAGTCAGAGTGGAAATACGGGGCTCCTGACAACCAATCAGGCCAGTGCTTCCCTGAGAAGCCACAACCCCAGGACATGTGTGGCAAGGGCTGGAGCATGGGTATCTGAAGAAGAGACAGTAGGCAAAGAGGGCAGCAACAGAAGAGCCATGATGCATGCTCCGTGCTCTGGGGTCCCTCTAGCTGAGGCCTCGGCCCCCCTGCTCCCCATTTGCCCTTGGCATCAGGGACCCTCAGCCCTTTCTTCAGGGCCCCAAGGGGAAACTGGAGCCCAGGACTTGCAGCGTGGAATTGGTGGACCCCATTGAACTCTTACCAATGACTCGATGGTTTTATTCCGTCGACTGATTGTTATATAACTCGAGTCCAGGGCGACTGTTACCTCTTGGTATCTGCTCTGAGGCACGTGAAGAGAGGAGGAGTTGGAGGAGGATCGAGGGGAGAGGTAGAGAGAGCAATCATTAGGGTTGGGGGGAGGGTGTGAGAGGTCTCAGATGGCAGAGGGGCACCCAGCCCCCACTGTGGGAGGAGGTTGGAGGGCTGGCCTGCAGGGTCACTGGGTCATGGCCCAGGGCCTCTTACTTCCAGATCCTTCAGGGTAGCGGATGATCCAGAGCCCTCCGCACAGATACCTGTTGCTGACTACAAGAGATGAGAGTGCGCATGGAAATCTTCTGTCCCCTCCATGTCTAAGCCCTCTGACTTCCTTTCTTCCCCAGCAACTGACAACATTTTCTTTTCTGCCTAACTTGGACCCTTCATCCCATAACCTCTTTGTGCCAACTTCTCTCATGGTTTTTATCTCCCCACCATCCCTTCCTCCCAAGCAGCTCTCATCTGGTGTTTCTACAGTAGGATAAAATGATGTAACCAGCCACGGGGTACAACTCCTTCATGTGAACAGCCTCAAGGAAGAAGCCTCAGGGAAGAGGCAACTTCCTCAACATGGCCCAGCAAATCGGCCAGTCCCAGGATCTTTCCTCTCTCTGGTGATTCCTGCCTCAGTTTCTTTCTATCATACTTTCCTTTCCCCCGCACTCCCCTCAATTTCTGAAGTTCCTCAGAAACAACGCCATTGAGCTGTTGGGAGAGTTGTTGCAGGCTCTCGGTTAATGAGAAGGTCCTAAGGGCAGAGACACAGGCGTCAGGGGTGCAGGTGGCTCAATGGGAAAGAAGGTGTTAGACAGTGGCCTCCCTGACTCCCTCAGCCTAGAGACTGCTGCCCTGATAAGAGACACTCACTTGCTTTCATCCATGAGATTGGGGCTAGCATGATGATTCTGTGTGGGAAGAAACATATGAGATGGTCATTCAATTTCTGTAAGAATCACCGAGGACAGGTGAGCCAAGTTCCCAAGCTCATTCCAACAATATTCTATCTCCCCAAACCTCAAGGAAAAGCCCAGTCTCAGCCTTCCCCCAGCCCAGTCCCCAGGAAGGGCACCTGGCCCTAGGGAACAAACTACTTGTGAAAAGAGAAGAGAATCCATAGTAGGTACAGGAGGGCAGTGGGCAGAGGAGGAGGAAGCATGAACCTGAGGTGCCGCTATGCTAGCAAGACTGGCACCAGGGCAAGGGACACCACCAGGTAACACGGTGTCATTGGCAGGTGGCTAGACAGATGCAGCATTGTCTTTGGCGTCTGTCACAGAACAAAGCAGGGCATTAGGGGGCCATGCAGGAGAGAAGGTGCCTCAGTGGCATGGACACAAGAGTGTGGAACAGGTATGACAGATACTCACGCAATGACAGTGACAGTCATGCATGCTTGGAGCCACTCGGGGGTGTGGATATGGTTTGCCCAGGCCTTGGGCTGCTAGGCAGCATTTTGAATGGCCAAAGCTCAAAGCAGGGGCTGCACGGCCTCCTTCATGAATACATGAGGACCTCGCTCCCCCTGGAGTTCAGCAAAAGACAGCAGCAGGTTCTGACCTGTGGCAGCCACAGCAGGCTGGAGGAAGGTGTACCAAAGTCAGGGAAGAGAAAGGCACTGTTCTTCCAGACGGCCAGTCTGTGCCACAGAGTGACCCTAACTGGGCCCCTCCTGGGCAGAGGACAGTGATGAGGAAGTAGTAGTCTGGGCAATGTACAATGTAGCTGCCTCTCTCTTCTCTCTTCCCTTCTCCCTTGCAGTGGCATAATCAGCAGGGGCTACCATCTCCTACAGCTCGCCCAGCTTCTCCTGCAGCTCCTCCTTGACATGCTGCTCAGACTAAAGTGCATTGTTGATCTCCATATTCTCACTGTTCTGGACAGAGAGAAGCAATCACGCCACCCACTGCAGCTGGAGACCGCAGAACTTGGTGTCTGCCTCCCATGGCGCCGGGAAGGATGGAGGCAGATTAGAAAAATGATCCCCTCTCCCCCATAGCCATCAAACCAGGGCTCTGGCTCACAGGTCCCTTCAGAAGTGCCACTTCACATGAGGGCTACACTGCCCCACTTAACAGATGGGGAAACAAAGGCCTAGAGGGCTGGGGAGGAGGGCAGTCTCCCCAGGTGGGATGCACCAGTTTTACAAAGCTGCTCTCTGTAGCTGCTCCTTGAGCTCAGGGTTCTGGGAGAGTGTGGGGCTGATGGTGGTGAGGTCATTTTGCACGGTCCCCAGGGTTTGCCTGCATACCTCCGCCTGCTCCCCTCAGAGCTCAGCCACCCGCCCCAGCTCCAGCAGCCTCTCCTGCTCCCAGTTCAGGCATTTCAAGTCCTCATTGTCTTGCATGTGGGCCCACTGGAGCTGTCCTGCTAGACTTTCCAGCTCCTCCCACAGGTGCTCAGCCTCTGCCTGTAGCTGCTGCTGCAGCTGCAGACCCCAGAACTTGGTGTCTGCCTCCCACGGCACTGGGAAGGATGGAGGCAGATTAGAAAAATCATCGCCTCTCATCCACAGCCATCAAAGCAGGGCTCTGGCTCACAGGTCCCCTCAGAAGTGCCGCTTCACATGAGGGCTGCGCCCCCTGCTGGGGGCTCCAGGGGTGGGATTCAGCTGAGAAAGGAAGCAGACAATAACGGCCTCTGGATTCTCAAAAACACCCTCCTCTTGGTACACAGCTCCTCTCGGGCTCCCCAGACTTGGCCTCCCTGCTAATGATTCTCAAAAAAACCCTCTGCATTCTCAAAAAAAAAAAAACCCTCCTCTTGATCCACTGCACCCCTCAGGCTCCCCAAACTTGGCCTCCCTGCTAATGATTCCTTGCACCCTGATGGTAGCCAATCTTCCAAGCCACTTTCAGATAGAGACAACTGTGGGTGGCTGACAACACACACTTTTTCCTCTTTGCTGATGGGGACATTGAGGCTCATGACGATTACAAGACTTGCCGCCTCCTGGCACAGACCTCTTTCCCTCTGCCTCAAAGCCTTTCCATGCATCCACCTCTCTG"	"3970fb50-2764-11e6-a0e1-9add414a729f"	"285"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WXS"	FALSE
"940"	"TLN2"	83660	"mskcc.org"	"GRCh37"	"15"	62923747	62923748	"+"	"Intron"	"INS"	"-"	"-"	"TTCCTTTCCT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-36-15708_-36-15699dupCTTTCCTTTC"	""	""	"ENST00000561311"	""	22	"."	3	6	"."	0	"TLN2,intron_variant,,ENST00000561311,;"	"TTCCTTTCCT"	"ENSG00000171914"	"ENST00000561311"	"Transcript"	"intron_variant"	"-/11880"	"-/7629"	"-/2542"	""	""	""	"1"	NA	1	"TLN2"	"HGNC"	15447	"protein_coding"	"YES"	"CCDS32261.1"	"ENSP00000453508"	"Q9Y4G6"	""	"UPI00001FE5FC"	""	NA	NA	""	"2/57"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"28"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"493e033e-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"941"	"TLN2"	83660	"mskcc.org"	"GRCh37"	"15"	63075919	63075926	"+"	"Intron"	"DEL"	"TCTGTGTG"	"TCTGTGTG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TCTGTGTG"	"TCTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5617-50_5617-43delCTGTGTGT"	""	""	"ENST00000561311"	""	126	"."	6	69	"."	0	"TLN2,intron_variant,,ENST00000561311,;TLN2,intron_variant,,ENST00000306829,NM_015059.2;TLN2,intron_variant,,ENST00000494733,;TLN2,intron_variant,,ENST00000472902,;AC103740.1,upstream_gene_variant,,ENST00000577415,;TLN2,intron_variant,,ENST00000489129,;"	"-"	"ENSG00000171914"	"ENST00000561311"	"Transcript"	"intron_variant"	"-/11880"	"-/7629"	"-/2542"	""	""	""	"1"	NA	1	"TLN2"	"HGNC"	15447	"protein_coding"	"YES"	"CCDS32261.1"	"ENSP00000453508"	"Q9Y4G6"	""	"UPI00001FE5FC"	""	NA	NA	""	"43/57"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTGTGTGT"	"3998f614-2764-11e6-a0e1-9add414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0476190476190476	"WXS"	FALSE
"942"	"USP3"	9960	"mskcc.org"	"GRCh37"	"15"	63804539	63804580	"+"	"Intron"	"DEL"	"CTTCCTCCTCTTCCTCTTCTTCTTCTTTCTTCTTTCTTCTTT"	"CTTCCTCCTCTTCCTCTTCTTCTTCTTTCTTCTTTCTTCTTT"	"TTCTTTCTTCTTTCTTCTTTCTTTTTCTTCTTTCTTCCTTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CTTCCTCCTCTTCCTCTTCTTCTTCTTTCTTCTTTCTTCTTT"	"CTTCCTCCTCTTCCTCTTCTTCTTCTTTCTTCTTTCTTCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.91+7510_91+7551delCTTCCTCCTCTTCCTCTTCTTCTTCTTTCTTCTTTCTTCTTTinsTTCTTTCTTCTTTCTTCTTTCTTTTTCTTCTTTCTTCCTTC"	""	""	"ENST00000380324"	""	38	"."	4	17	"."	0	"USP3,intron_variant,,ENST00000268049,;USP3,intron_variant,,ENST00000380324,NM_006537.3;USP3,intron_variant,,ENST00000540797,NM_001256702.1;USP3,intron_variant,,ENST00000539772,;USP3,intron_variant,,ENST00000536001,;USP3,intron_variant,,ENST00000560070,;USP3,intron_variant,,ENST00000561442,;USP3,upstream_gene_variant,,ENST00000559771,;USP3,intron_variant,,ENST00000561326,;USP3,intron_variant,,ENST00000559192,;USP3,intron_variant,,ENST00000558157,;USP3,intron_variant,,ENST00000557884,;USP3,intron_variant,,ENST00000559873,;"	"TTCTTTCTTCTTTCTTCTTTCTTTTTCTTCTTTCTTCCTTC"	"ENSG00000140455"	"ENST00000380324"	"Transcript"	"intron_variant"	"-/2333"	"-/1563"	"-/520"	""	""	""	"1"	NA	1	"USP3"	"HGNC"	12626	"protein_coding"	"YES"	"CCDS32265.1"	"ENSP00000369681"	"Q9Y6I4"	"Q9Y2R8,H0YM72,B4DWJ6"	"UPI0000071F2D"	"NM_006537.3"	NA	NA	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCTTCCTCCTCTTCCTCTTCTTCTTCTTTCTTCTTTCTTCTTTC"	"42f1718c-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WXS"	FALSE
"943"	"DAPK2"	23604	"mskcc.org"	"GRCh37"	"15"	64269307	64269308	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs5813270"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.315-5548dupC"	""	""	"ENST00000261891"	""	14	"."	5	2	"."	0	"DAPK2,intron_variant,,ENST00000261891,;DAPK2,intron_variant,,ENST00000457488,NM_014326.3;DAPK2,intron_variant,,ENST00000558069,;DAPK2,intron_variant,,ENST00000558482,;DAPK2,intron_variant,,ENST00000559897,;DAPK2,intron_variant,,ENST00000559007,;DAPK2,intron_variant,,ENST00000561162,;"	"G"	"ENSG00000035664"	"ENST00000261891"	"Transcript"	"intron_variant"	"-/2603"	"-/1113"	"-/370"	""	""	"rs5813270"	"1"	NA	-1	"DAPK2"	"HGNC"	2675	"protein_coding"	"YES"	"CCDS10188.1"	"ENSP00000261891"	"Q9UIK4"	"H0YKW8"	"UPI000006DFD1"	""	NA	NA	""	"2/10"	""	"-:0.2851"	"G:0.7284"	"G:0.5591"	NA	"G:0.9772"	"G:0.506"	"G:0.7515"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"499a5bd4-2764-11e6-a0e1-9add414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"944"	"ZNF609"	23060	"mskcc.org"	"GRCh37"	"15"	64968640	64968640	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs111824351"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3402+192delT"	""	""	"ENST00000326648"	""	33	"."	5	6	"."	0	"ZNF609,intron_variant,,ENST00000326648,NM_015042.1;ZNF609,downstream_gene_variant,,ENST00000559364,;"	"-"	"ENSG00000180357"	"ENST00000326648"	"Transcript"	"intron_variant"	"-/8743"	"-/4236"	"-/1411"	""	""	"rs111824351"	"1"	NA	1	"ZNF609"	"HGNC"	29003	"protein_coding"	"YES"	"CCDS32270.1"	"ENSP00000316527"	"O15014"	""	"UPI00001D7783"	"NM_015042.1"	NA	NA	""	"4/8"	""	"-:0.0950"	"-:0.2201"	"-:0.0432"	NA	"-:0.002"	"-:0.0696"	"-:0.0849"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"3a45f5b2-2764-11e6-a0e1-9add414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151515151515152	"WXS"	FALSE
"945"	"RNU6-686P"	0	"mskcc.org"	"GRCh37"	"15"	65525251	65525254	"+"	"3'Flank"	"DEL"	"AAAC"	"AAAC"	"-"	"rs137908633"	NA	"JHCCPT1"	"JHCCPN1"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000364839"	""	6	"."	4	1	"."	0	"RNU6-686P,downstream_gene_variant,,ENST00000364839,;PARP16,downstream_gene_variant,,ENST00000559805,;"	"-"	"ENSG00000201709"	"ENST00000364839"	"Transcript"	"downstream_gene_variant"	"-/107"	""	""	""	""	"rs137908633"	"1"	"2946"	1	"RNU6-686P"	"HGNC"	47649	"snRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"AAAC:0.0232"	"-:0.9251"	"-:0.9914"	NA	"-:1"	"-:0.996"	"-:0.9928"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAAAACA"	"3ab6be6e-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"946"	"IGDCC4"	57722	"mskcc.org"	"GRCh37"	"15"	65688558	65688559	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35517676"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.998-58_998-57insA"	""	""	"ENST00000352385"	""	23	"."	4	28	"."	0	"IGDCC4,intron_variant,,ENST00000352385,NM_020962.1;IGDCC4,non_coding_transcript_exon_variant,,ENST00000559327,;"	"T"	"ENSG00000103742"	"ENST00000352385"	"Transcript"	"intron_variant"	"-/6508"	"-/3753"	"-/1250"	""	""	"rs35517676"	"1"	NA	-1	"IGDCC4"	"HGNC"	13770	"protein_coding"	"YES"	"CCDS10206.1"	"ENSP00000319623"	"Q8TDY8"	""	"UPI000006F31C"	"NM_020962.1"	NA	NA	""	"6/19"	""	"T:0.4896"	"T:0.5446"	"T:0.5778"	NA	"T:0.6617"	"T:0.3638"	"T:0.3047"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	"0.3561"	"0.6702"	"0.5"	"0.7959"	"0.6087"	"0.5701"	"0.6389"	"0.5529"	NA	"common_variant"	"CCC"	"4a21b246-2764-11e6-a0e1-9add414a729f"	"240"	0.5686	"1924/3384"	"4215/11838"	"63/94"	"21/42"	"78/98"	"28/46"	"488/856"	"23/36"	"1223/2212"	"VQSRTrancheINDEL96.00to97.00"	"FALSE"	0.173913043478261	"WXS"	FALSE
"947"	"RP11-321F6.1"	0	"mskcc.org"	"GRCh37"	"15"	66925896	66925897	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs56198191"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.34-30797dupC"	""	""	"ENST00000558797"	""	14	"."	3	3	"."	0	"RP11-321F6.1,intron_variant,,ENST00000558797,;"	"C"	"ENSG00000259471"	"ENST00000558797"	"Transcript"	"intron_variant"	"-/833"	"-/342"	"-/113"	""	""	"rs56198191"	"1"	NA	1	"RP11-321F6.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000453953"	""	"H0YNC6"	"UPI0000D49682"	""	NA	NA	""	"1/4"	""	"-:0.2857"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"4a64d238-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"948"	"RP11-321F6.1"	0	"mskcc.org"	"GRCh37"	"15"	66944221	66944222	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11377084"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.34-12479_34-12478insA"	""	""	"ENST00000558797"	""	12	"."	5	4	"."	0	"RP11-321F6.1,intron_variant,,ENST00000558797,;"	"A"	"ENSG00000259471"	"ENST00000558797"	"Transcript"	"intron_variant"	"-/833"	"-/342"	"-/113"	""	""	"rs11377084"	"1"	NA	1	"RP11-321F6.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000453953"	""	"H0YNC6"	"UPI0000D49682"	""	NA	NA	""	"1/4"	""	"-:0.3101"	"A:0.9418"	"A:0.6772"	NA	"A:0.4722"	"A:0.5716"	"A:0.7045"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"4a6710f2-2764-11e6-a0e1-9add414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"949"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	67140575	67140576	"+"	"IGR"	"INS"	"-"	"-"	"CAGGACCGAGCA"	"rs141658133"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"CAGGACCGAGCA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141658133"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CAGGACCGAGCA:0.4217"	"CAGGACCGAGCA:0.6831"	"CAGGACCGAGCA:0.415"	NA	"CAGGACCGAGCA:0.2808"	"CAGGACCGAGCA:0.3529"	"CAGGACCGAGCA:0.2894"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"4a6e6c44-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"950"	"ITGA11"	22801	"mskcc.org"	"GRCh37"	"15"	68630081	68630081	"+"	"Intron"	"DEL"	"G"	"-"	"-"	"rs3837691"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1276+1757delC"	""	""	"ENST00000315757"	""	7	"."	6	1	"."	0	"ITGA11,intron_variant,,ENST00000423218,;ITGA11,intron_variant,,ENST00000315757,NM_001004439.1;ITGA11,intron_variant,,ENST00000566429,;ITGA11,upstream_gene_variant,,ENST00000569346,;"	"-"	"ENSG00000137809"	"ENST00000315757"	"Transcript"	"intron_variant"	"-/5001"	"-/3567"	"-/1188"	""	""	"rs3837691"	"1"	NA	-1	"ITGA11"	"HGNC"	6136	"protein_coding"	"YES"	"CCDS45291.1"	"ENSP00000327290"	"Q9UKX5"	""	"UPI00001FE74D"	"NM_001004439.1"	NA	NA	""	"11/29"	""	"G:0.3560"	"-:0.2201"	"-:0.8156"	NA	"-:0.8036"	"-:0.7903"	"-:0.7802"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGC"	"3b76e9a0-2764-11e6-a0e1-9add414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"951"	"ENSR00001657866"	0	"mskcc.org"	"GRCh37"	"15"	69026067	69026068	"+"	"IGR"	"INS"	"-"	"GT"	"GT"	"rs10659803"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001657866"	""	6	"."	6	1	"."	0	""	"GT"	""	"ENSR00001657866"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs10659803"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2943"	"GT:0.3472"	"GT:0.7867"	NA	"GT:0.7976"	"GT:0.9115"	"GT:0.8262"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"4a977a08-2764-11e6-a0e1-9add414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"952"	"SPESP1"	246777	"mskcc.org"	"GRCh37"	"15"	69180976	69180980	"+"	"Intron"	"DEL"	"CACTC"	"-"	"-"	"rs71457409"	NA	"JHCCPT1"	"JHCCPN1"	"CACTC"	"CACTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.98-56962_98-56958delCACTC"	""	""	"ENST00000560188"	""	6	"."	5	2	"."	0	"SPESP1,intron_variant,,ENST00000560188,;"	"-"	"ENSG00000258484"	"ENST00000560188"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/621"	""	""	""	""	"rs71457409"	"1"	NA	1	"SPESP1"	"HGNC"	15570	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.3327"	"-:0.2867"	"-:0.3804"	NA	"-:0.3175"	"-:0.331"	"-:0.3783"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACACTCG"	"3b84c458-2764-11e6-a0e1-9add414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"953"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	70575139	70575140	"+"	"IGR"	"INS"	"-"	"-"	"GATA"	"rs113073767"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	3	"."	0	""	"GATA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113073767"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GATA:0.4213"	"GATA:0.3601"	"GATA:0.4914"	NA	"GATA:0.4127"	"GATA:0.4533"	"GATA:0.4305"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"4ac85790-2764-11e6-a0e1-9add414a729f"	"130"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"954"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	70849178	70849178	"+"	"IGR"	"DEL"	"A"	"-"	"-"	"rs11362037"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11362037"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.0499"	"-:0.8419"	"-:0.9885"	NA	"-:0.9821"	"-:0.992"	"-:0.9928"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"3bc91dba-2764-11e6-a0e1-9add414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"955"	"THSD4"	79875	"mskcc.org"	"GRCh37"	"15"	71574822	71574822	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs11290911"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1015+25769delA"	""	""	"ENST00000355327"	""	6	"."	3	1	"."	0	"THSD4,intron_variant,,ENST00000355327,;THSD4,intron_variant,,ENST00000261862,NM_024817.2;"	"-"	"ENSG00000187720"	"ENST00000355327"	"Transcript"	"intron_variant"	"-/9200"	"-/3057"	"-/1018"	""	""	"rs11290911"	"1"	NA	1	"THSD4"	"HGNC"	25835	"protein_coding"	"YES"	"CCDS10238.2"	"ENSP00000347484"	"Q6ZMP0"	""	"UPI00001A797D"	""	NA	NA	""	"6/17"	""	"A:0.0108"	"-:0.9592"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"3bf3a40e-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"956"	"THSD4"	79875	"mskcc.org"	"GRCh37"	"15"	71602505	71602508	"+"	"Intron"	"DEL"	"CTAT"	"CTAT"	"-"	"rs67614436"	NA	"JHCCPT1"	"JHCCPN1"	"CTAT"	"CTAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1015+53453_1015+53456delATCT"	""	""	"ENST00000355327"	""	6	"."	4	1	"."	0	"THSD4,intron_variant,,ENST00000355327,;THSD4,intron_variant,,ENST00000261862,NM_024817.2;"	"-"	"ENSG00000187720"	"ENST00000355327"	"Transcript"	"intron_variant"	"-/9200"	"-/3057"	"-/1018"	""	""	"rs67614436"	"1"	NA	1	"THSD4"	"HGNC"	25835	"protein_coding"	"YES"	"CCDS10238.2"	"ENSP00000347484"	"Q6ZMP0"	""	"UPI00001A797D"	""	NA	NA	""	"6/17"	""	"CTAT:0.1058"	"-:0.6392"	"-:0.9712"	NA	"-:1"	"-:0.9702"	"-:0.9969"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACCTATC"	"3bf4a34a-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"957"	"ENSR00001453765"	0	"mskcc.org"	"GRCh37"	"15"	73943533	73943534	"+"	"IGR"	"INS"	"-"	"-"	"GAAGGAAAGAAGGAAG"	"rs138222590"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001453765"	""	15	"."	5	3	"."	0	""	"GAAGGAAAGAAGGAAG"	""	"ENSR00001453765"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs138222590"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"4b3349c4-2764-11e6-a0e1-9add414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"958"	"CCDC33"	80125	"mskcc.org"	"GRCh37"	"15"	74615873	74615873	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs77449652"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1291-6650delT"	""	""	"ENST00000398814"	""	7	"."	4	2	"."	0	"CCDC33,intron_variant,,ENST00000321288,;CCDC33,intron_variant,,ENST00000398814,NM_025055.4;CCDC33,intron_variant,,ENST00000558659,;CCDC33,intron_variant,,ENST00000268082,NM_182791.3;CCDC33,intron_variant,,ENST00000558821,NM_001287181.1;CCDC33,intron_variant,,ENST00000321374,;CCDC33,intron_variant,,ENST00000560565,;"	"-"	"ENSG00000140481"	"ENST00000398814"	"Transcript"	"intron_variant"	"-/2787"	"-/2268"	"-/755"	""	""	"rs77449652"	"1"	NA	1	"CCDC33"	"HGNC"	26552	"protein_coding"	"YES"	"CCDS42058.1"	"ENSP00000381795"	"Q8N5R6"	""	"UPI0000E671FE"	"NM_025055.4"	NA	NA	""	"11/18"	""	"T:0.4117"	"-:0.7163"	"-:0.3746"	NA	"-:0.6736"	"-:0.3897"	"-:0.683"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"3cb78b62-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"959"	"C15orf27"	123591	"mskcc.org"	"GRCh37"	"15"	76462483	76462483	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs34621040"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.513+273delA"	""	""	"ENST00000388942"	""	9	"."	3	3	"."	0	"C15orf27,intron_variant,,ENST00000388942,NM_152335.2;RP11-593F23.1,downstream_gene_variant,,ENST00000558424,;C15orf27,intron_variant,,ENST00000484722,;C15orf27,intron_variant,,ENST00000561302,;"	"-"	"ENSG00000169758"	"ENST00000388942"	"Transcript"	"intron_variant"	"-/2520"	"-/1596"	"-/531"	""	""	"rs34621040"	"1"	NA	1	"C15orf27"	"HGNC"	26763	"protein_coding"	"YES"	"CCDS10289.2"	"ENSP00000373594"	"Q2M3C6"	""	"UPI0000DBEE67"	"NM_152335.2"	NA	NA	""	"6/10"	""	"-:0.1575"	"-:0.1263"	"-:0.2089"	NA	"-:0.0179"	"-:0.2624"	"-:0.1994"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"3d1cd166-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"960"	"RP11-114H24.7"	0	"mskcc.org"	"GRCh37"	"15"	78211412	78211432	"+"	"Intron"	"DEL"	"CCTCCTGCTCTCGGAGCATCT"	"CCTCCTGCTCTCGGAGCATCT"	"-"	"rs770562796"	NA	"JHCCPT1"	"JHCCPN1"	"CCTCCTGCTCTCGGAGCATCT"	"CCTCCTGCTCTCGGAGCATCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.111+2453_111+2473delGCATCTCCTCCTGCTCTCGGA"	""	""	"ENST00000565869"	""	21	"."	7	7	"."	0	"RP11-114H24.7,intron_variant,,ENST00000565869,;RN7SL214P,upstream_gene_variant,,ENST00000487317,;RP11-114H24.2,non_coding_transcript_exon_variant,,ENST00000567226,;RP11-114H24.2,upstream_gene_variant,,ENST00000563349,;RP11-114H24.2,upstream_gene_variant,,ENST00000568307,;RP11-114H24.2,non_coding_transcript_exon_variant,,ENST00000562938,;"	"-"	"ENSG00000261244"	"ENST00000565869"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/353"	""	""	""	""	"rs770562796"	"1"	NA	1	"RP11-114H24.7"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	"15"	NA	"1"	"0.1819"	"0.1159"	"0.1458"	"0.1261"	"0.2239"	"0.2209"	"0.1994"	"0.1204"	NA	"common_variant"	"CGCCTCCTGCTCTCGGAGCATCTC"	"3d53f3bc-2764-11e6-a0e1-9add414a729f"	"420"	0.1816	"19232/105894"	"19316/106174"	"1028/8870"	"1634/11206"	"992/7866"	"1478/6600"	"11987/54258"	"138/692"	"1975/16402"	"VQSRTrancheINDEL97.00to99.00"	"FALSE"	0.333333333333333	"WXS"	FALSE
"961"	"ADAMTS7P3"	0	"mskcc.org"	"GRCh37"	"15"	78271392	78271394	"+"	"Intron"	"DEL"	"TGG"	"TGG"	"-"	"rs67945507"	NA	"JHCCPT1"	"JHCCPN1"	"TGG"	"TGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.552+41_552+43delTGG"	""	""	"ENST00000566116"	""	6	"."	3	1	"."	0	"TBC1D2B,downstream_gene_variant,,ENST00000465531,;ADAMTS7P3,intron_variant,,ENST00000566116,;"	"-"	"ENSG00000261143"	"ENST00000566116"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3716"	""	""	""	""	"rs67945507"	"1"	NA	1	"ADAMTS7P3"	"HGNC"	49409	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/14"	""	"-:0.4193"	"-:0.1188"	"-:0.549"	NA	"-:0.756"	"-:0.5249"	"-:0.2781"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTGGT"	"3d56c2fe-2764-11e6-a0e1-9add414a729f"	"165"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"962"	"ACSBG1"	23205	"mskcc.org"	"GRCh37"	"15"	78504781	78504781	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs10706612"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.132-4337delT"	""	""	"ENST00000258873"	""	7	"."	4	2	"."	0	"ACSBG1,intron_variant,,ENST00000258873,NM_001199377.1,NM_015162.4;ACSBG1,intron_variant,,ENST00000560817,;ACSBG1,intron_variant,,ENST00000541759,;ACSBG1,intron_variant,,ENST00000559241,;ACSBG1,intron_variant,,ENST00000558130,;ACSBG1,upstream_gene_variant,,ENST00000559114,;ACSBG1,intron_variant,,ENST00000558828,;ACSBG1,intron_variant,,ENST00000558793,;ACSBG1,downstream_gene_variant,,ENST00000559713,;ACSBG1,intron_variant,,ENST00000560124,;ACSBG1,intron_variant,,ENST00000559707,;ACSBG1,intron_variant,,ENST00000557935,;"	"-"	"ENSG00000103740"	"ENST00000258873"	"Transcript"	"intron_variant"	"-/6357"	"-/2175"	"-/724"	""	""	"rs10706612"	"1"	NA	-1	"ACSBG1"	"HGNC"	29567	"protein_coding"	"YES"	"CCDS10298.1"	"ENSP00000258873"	"Q96GR2"	"H0YNX0,F5H4U6"	"UPI000006E955"	"NM_001199377.1,NM_015162.4"	NA	NA	""	"1/13"	""	"A:0.3574"	"-:0.6384"	"-:0.5951"	NA	"-:0.744"	"-:0.6322"	"-:0.5879"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"3d8009de-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"963"	"PSMA4"	5685	"mskcc.org"	"GRCh37"	"15"	78839110	78839110	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs139533815"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.631+70delC"	""	""	"ENST00000044462"	""	99	"."	4	73	"."	0	"PSMA4,intron_variant,,ENST00000044462,NM_002789.4;PSMA4,intron_variant,,ENST00000559082,NM_001102667.1;PSMA4,intron_variant,,ENST00000413382,NM_001102668.1;PSMA4,intron_variant,,ENST00000560217,;PSMA4,intron_variant,,ENST00000560737,;PSMA4,intron_variant,,ENST00000559365,;PSMA4,intron_variant,,ENST00000558281,;PSMA4,intron_variant,,ENST00000558341,;PSMA4,intron_variant,,ENST00000558094,;PSMA4,downstream_gene_variant,,ENST00000559437,;PSMA4,downstream_gene_variant,,ENST00000559948,;PSMA4,downstream_gene_variant,,ENST00000559146,;PSMA4,downstream_gene_variant,,ENST00000559154,;PSMA4,downstream_gene_variant,,ENST00000557929,;PSMA4,downstream_gene_variant,,ENST00000559906,;PSMA4,intron_variant,,ENST00000559934,;PSMA4,intron_variant,,ENST00000560099,;PSMA4,downstream_gene_variant,,ENST00000558635,;PSMA4,downstream_gene_variant,,ENST00000558639,;PSMA4,downstream_gene_variant,,ENST00000560842,;PSMA4,downstream_gene_variant,,ENST00000560033,;"	"-"	"ENSG00000041357"	"ENST00000044462"	"Transcript"	"intron_variant"	"-/1254"	"-/786"	"-/261"	""	""	"rs139533815"	"1"	NA	1	"PSMA4"	"HGNC"	9533	"protein_coding"	"YES"	"CCDS10303.1"	"ENSP00000044462"	"P25789"	"Q7Z474,H0YMZ1,H0YMA1,H0YL69,H0YKT8"	"UPI000000DC2A"	"NM_002789.4"	NA	NA	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCT"	"3ddc8240-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0404040404040404	"WXS"	FALSE
"964"	"RP11-160C18.2"	0	"mskcc.org"	"GRCh37"	"15"	79027167	79027168	"+"	"RNA"	"INS"	"-"	"-"	"GGAGGGTGCAGGAGCAGGAGAGACTGTGTGAGCAAAATG"	"rs71448820"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1039_1077dupGTGCAGGAGCAGGAGAGACTGTGTGAGCAAAATGGGAGG"	""	""	"ENST00000564933"	"11/12"	64	"."	6	49	"."	0	"RP11-160C18.2,intron_variant,,ENST00000570227,;RP11-160C18.2,downstream_gene_variant,,ENST00000568337,;RP11-160C18.2,non_coding_transcript_exon_variant,,ENST00000564933,;"	"GGAGGGTGCAGGAGCAGGAGAGACTGTGTGAGCAAAATG"	"ENSG00000261303"	"ENST00000564933"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1033-1034/1432"	""	""	""	""	"rs71448820"	"1"	NA	1	"RP11-160C18.2"	"Clone_based_vega_gene"	NA	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"11/12"	""	""	"GGAGGGTGCAGGAGCAGGAGAGACTGTGTGAGCAAAATG:0.1739"	"GGAGGGTGCAGGAGCAGGAGAGACTGTGTGAGCAAAATG:0.0393"	"GGAGGGTGCAGGAGCAGGAGAGACTGTGTGAGCAAAATG:0.2435"	NA	"GGAGGGTGCAGGAGCAGGAGAGACTGTGTGAGCAAAATG:0.0208"	"GGAGGGTGCAGGAGCAGGAGAGACTGTGTGAGCAAAATG:0.4016"	"GGAGGGTGCAGGAGCAGGAGAGACTGTGTGAGCAAAATG:0.2301"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"44"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"4bfb3722-2764-11e6-a0e1-9add414a729f"	"323"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WXS"	FALSE
"965"	"CTSH"	1512	"mskcc.org"	"GRCh37"	"15"	79220533	79220534	"+"	"Intron"	"INS"	"-"	"-"	"CAGGAGAGAAGGCAC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.631-411_631-410insGTGCCTTCTCTCCTG"	""	""	"ENST00000220166"	""	23	"."	6	8	"."	0	"CTSH,intron_variant,,ENST00000220166,NM_004390.3;CTSH,downstream_gene_variant,,ENST00000528741,;CTSH,intron_variant,,ENST00000534533,;CTSH,intron_variant,,ENST00000534237,;CTSH,downstream_gene_variant,,ENST00000534038,;CTSH,downstream_gene_variant,,ENST00000528191,;CTSH,intron_variant,,ENST00000533777,;CTSH,intron_variant,,ENST00000525807,;CTSH,intron_variant,,ENST00000527138,;CTSH,intron_variant,,ENST00000529612,;CTSH,upstream_gene_variant,,ENST00000527715,;CTSH,downstream_gene_variant,,ENST00000529861,;CTSH,downstream_gene_variant,,ENST00000529263,;"	"CAGGAGAGAAGGCAC"	"ENSG00000103811"	"ENST00000220166"	"Transcript"	"intron_variant"	"-/2190"	"-/1008"	"-/335"	""	""	""	"1"	NA	-1	"CTSH"	"HGNC"	2535	"protein_coding"	"YES"	"CCDS10308.1"	"ENSP00000220166"	"P09668"	"Q68D46,E9PKT6"	"UPI000013C799"	"NM_004390.3"	NA	NA	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"4c03c8ba-2764-11e6-a0e1-9add414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WXS"	FALSE
"966"	"RP11-17L5.4"	729911	"mskcc.org"	"GRCh37"	"15"	79513888	79513889	"+"	"Intron"	"DEL"	"TG"	"-"	"-"	"rs67553329"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.350-8188_350-8187delCA"	""	""	"ENST00000560533"	""	6	"."	5	1	"."	0	"RP11-17L5.4,intron_variant,,ENST00000560533,;RP11-17L5.4,intron_variant,,ENST00000560872,;RP11-17L5.4,intron_variant,,ENST00000559225,;"	"-"	"ENSG00000259234"	"ENST00000560533"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/612"	""	""	""	""	"rs67553329"	"1"	NA	-1	"RP11-17L5.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	"-:0.1971"	"-:0.0666"	"-:0.2622"	NA	"-:0.0347"	"-:0.4314"	"-:0.2536"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"3e13b36e-2764-11e6-a0e1-9add414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"967"	"KIAA1024"	23251	"mskcc.org"	"GRCh37"	"15"	79729757	79729760	"+"	"Intron"	"DEL"	"AGTG"	"AGTG"	"-"	"rs10587446"	NA	"JHCCPT1"	"JHCCPN1"	"AGTG"	"AGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-51+4879_-51+4882delAGTG"	""	""	"ENST00000305428"	""	6	"."	4	1	"."	0	"KIAA1024,intron_variant,,ENST00000305428,NM_015206.2;"	"-"	"ENSG00000169330"	"ENST00000305428"	"Transcript"	"intron_variant"	"-/6732"	"-/2751"	"-/916"	""	""	"rs10587446"	"1"	NA	1	"KIAA1024"	"HGNC"	29172	"protein_coding"	"YES"	"CCDS32306.1"	"ENSP00000307461"	"Q9UPX6"	""	"UPI00001B2F56"	"NM_015206.2"	NA	NA	""	"1/3"	""	"AGTG:0.4223"	"-:0.3873"	"-:0.6859"	NA	"-:0.6419"	"-:0.667"	"-:0.6002"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGTGA"	"3e16b352-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"968"	"ST20-MTHFS"	10588	"mskcc.org"	"GRCh37"	"15"	80211818	80211827	"+"	"Intron"	"DEL"	"TGGCTCTGGC"	"TGGCTCTGGC"	"-"	"rs5813999"	NA	"JHCCPT1"	"JHCCPN1"	"TGGCTCTGGC"	"TGGCTCTGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-12+3967_-12+3976delGCCAGAGCCA"	""	""	"ENST00000479961"	""	6	"."	3	1	"."	0	"ST20-MTHFS,intron_variant,,ENST00000479961,NM_001199760.1;ST20,intron_variant,,ENST00000485386,;C15orf37,upstream_gene_variant,,ENST00000560255,;C15ORF37,upstream_gene_variant,,ENST00000542003,;ST20,upstream_gene_variant,,ENST00000478497,NM_001100879.1;ST20-MTHFS,intron_variant,,ENST00000494999,;"	"-"	"ENSG00000259332"	"ENST00000479961"	"Transcript"	"intron_variant"	"-/859"	"-/540"	"-/179"	""	""	"rs5813999"	"1"	NA	-1	"ST20-MTHFS"	"HGNC"	44655	"protein_coding"	"YES"	"CCDS58394.1"	"ENSP00000455643"	""	""	"UPI00001FE9DE"	"NM_001199760.1"	NA	NA	""	"1/3"	""	"-:0.3377"	"-:0.5113"	"-:0.2233"	NA	"-:0.2579"	"-:0.2932"	"-:0.3119"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTGGCTCTGGCT"	"3e23a2e2-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"969"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	80308872	80308873	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs34573339"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34573339"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3868"	"C:0.7375"	"C:0.6816"	NA	"C:0.5456"	"C:0.4563"	"C:0.6278"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"4c2519ca-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"970"	"ARNT2"	9915	"mskcc.org"	"GRCh37"	"15"	80709684	80709685	"+"	"Intron"	"INS"	"-"	"-"	"TTTCT"	"rs71308049"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.31+12799_31+12800insCTTTT"	""	""	"ENST00000303329"	""	7	"."	4	1	"."	0	"ARNT2,intron_variant,,ENST00000303329,NM_014862.3;ARNT2,intron_variant,,ENST00000529181,;"	"TTTCT"	"ENSG00000172379"	"ENST00000303329"	"Transcript"	"intron_variant"	"-/6558"	"-/2154"	"-/717"	""	""	"rs71308049"	"1"	NA	1	"ARNT2"	"HGNC"	16876	"protein_coding"	"YES"	"CCDS32307.1"	"ENSP00000307479"	"Q9HBZ2"	"H0YKW1"	"UPI00001FEA05"	"NM_014862.3"	NA	NA	""	"1/18"	""	"-:0.1797"	"TTTCT:0.8275"	"TTTCT:0.683"	NA	"TTTCT:0.8938"	"TTTCT:0.833"	"TTTCT:0.819"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"4c2f24ce-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"971"	"TMC3"	342125	"mskcc.org"	"GRCh37"	"15"	81665211	81665212	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGTGTGT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.90-143_90-134dupACACACACAC"	""	""	"ENST00000359440"	""	17	"."	3	11	"."	0	"TMC3,intron_variant,,ENST00000558726,;TMC3,intron_variant,,ENST00000359440,NM_001080532.1;TMC3,intron_variant,,ENST00000559982,;"	"GTGTGTGTGT"	"ENSG00000188869"	"ENST00000359440"	"Transcript"	"intron_variant"	"-/4641"	"-/3303"	"-/1100"	""	""	""	"1"	NA	-1	"TMC3"	"HGNC"	22995	"protein_coding"	"YES"	"CCDS45324.1"	"ENSP00000352413"	"Q7Z5M5"	""	"UPI00006C154A"	"NM_001080532.1"	NA	NA	""	"1/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"4c6961f2-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"972"	"RP11-499F3.2"	0	"mskcc.org"	"GRCh37"	"15"	82119036	82119037	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs565106281"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.198+44232dupT"	""	""	"ENST00000560097"	""	9	"."	4	1	"."	0	"RP11-499F3.2,intron_variant,,ENST00000560097,;"	"A"	"ENSG00000259692"	"ENST00000560097"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/566"	""	""	""	""	"rs565106281"	"1"	NA	-1	"RP11-499F3.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"-:0.2402"	"A:0.7935"	"A:0.7363"	NA	"A:0.9216"	"A:0.5726"	"A:0.7566"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"4c6b035e-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"973"	"CPEB1"	64506	"mskcc.org"	"GRCh37"	"15"	83275912	83275913	"+"	"Intron"	"INS"	"-"	"-"	"TATCT"	"rs143880675"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.190+20027_190+20031dupAGATA"	""	""	"ENST00000568128"	""	6	"."	3	1	"."	0	"CPEB1,intron_variant,,ENST00000563800,;CPEB1,intron_variant,,ENST00000450751,NM_001288819.1;CPEB1,intron_variant,,ENST00000562019,;CPEB1,intron_variant,,ENST00000568757,;CPEB1,intron_variant,,ENST00000568128,NM_030594.3;CPEB1,intron_variant,,ENST00000567678,;CPEB1,intron_variant,,ENST00000569257,;"	"TATCT"	"ENSG00000214575"	"ENST00000568128"	"Transcript"	"intron_variant"	"-/2112"	"-/1686"	"-/561"	""	""	"rs143880675"	"1"	NA	-1	"CPEB1"	"HGNC"	21744	"protein_coding"	"YES"	"CCDS45329.1"	"ENSP00000457881"	"Q9BZB8"	"H3BPD6,H3BNX1,G8JLI7"	"UPI000018CEBD"	"NM_030594.3"	NA	NA	""	"2/11"	""	"-:0.4587"	"TATCT:0.6838"	"TATCT:0.5101"	NA	"TATCT:0.4613"	"TATCT:0.4642"	"TATCT:0.5327"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"4c7dbb20-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"974"	"AC136704.1"	0	"mskcc.org"	"GRCh37"	"15"	84950081	84950082	"+"	"3'Flank"	"INS"	"-"	"-"	"GGTGGA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408320"	""	113	"."	4	71	"."	0	"AC136704.1,downstream_gene_variant,,ENST00000408320,;RN7SL417P,downstream_gene_variant,,ENST00000459938,;DNM1P51,downstream_gene_variant,,ENST00000558801,;RP11-182J1.14,intron_variant,,ENST00000561247,;RP11-671M22.4,intron_variant,,ENST00000560672,;DNM1P51,downstream_gene_variant,,ENST00000456932,;DNM1P51,downstream_gene_variant,,ENST00000558149,;"	"GGTGGA"	"ENSG00000221247"	"ENST00000408320"	"Transcript"	"downstream_gene_variant"	"-/84"	""	""	""	""	""	"1"	"121"	1	"AC136704.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"4c98b2e0-2764-11e6-a0e1-9add414a729f"	"13"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0353982300884956	"WXS"	FALSE
"975"	"DNM1P51"	0	"mskcc.org"	"GRCh37"	"15"	84957462	84957473	"+"	"RNA"	"DEL"	"GTGGCATCTGTG"	"GTGGCATCTGTG"	"A"	"rs776202773"	NA	"JHCCPT1"	"JHCCPN1"	"GTGGCATCTGTG"	"GTGGCATCTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.7257_7268delCACAGATGCCACinsT"	""	""	"ENST00000558801"	"2/3"	17	"."	4	6	"."	0	"DNM1P51,non_coding_transcript_exon_variant,,ENST00000558801,;DNM1P51,non_coding_transcript_exon_variant,,ENST00000456932,;CSPG4P5,non_coding_transcript_exon_variant,,ENST00000558731,;DNM1P51,upstream_gene_variant,,ENST00000558149,;"	"A"	"ENSG00000235370"	"ENST00000558801"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"7257-7268/8752"	""	""	""	""	"rs776202773"	"1"	NA	-1	"DNM1P51"	"HGNC"	48500	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	"2/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGTGGCATCTGTGT"	"43163454-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"976"	"UBE2Q2P1"	388165	"mskcc.org"	"GRCh37"	"15"	85070734	85070737	"+"	"RNA"	"DEL"	"AAAC"	"AAAC"	"-"	"rs148315064"	NA	"JHCCPT1"	"JHCCPN1"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1840_1843delGTTT"	""	""	"ENST00000339094"	"6/6"	6	"."	4	1	"."	0	"UBE2Q2P1,non_coding_transcript_exon_variant,,ENST00000339094,;RP11-182J1.12,upstream_gene_variant,,ENST00000560239,;UBE2Q2P1,downstream_gene_variant,,ENST00000559958,;UBE2Q2P1,intron_variant,,ENST00000354771,;"	"-"	"ENSG00000189136"	"ENST00000339094"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1840-1843/2150"	""	""	""	""	"rs148315064"	"1"	NA	-1	"UBE2Q2P1"	"HGNC"	37439	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	"6/6"	""	""	"-:0.3325"	"-:0.4153"	"-:0.1326"	NA	"-:0.4891"	"-:0.1133"	"-:0.4264"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAAAACA"	"3f0e5dbe-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"977"	"ALPK3"	57538	"mskcc.org"	"GRCh37"	"15"	85385725	85385726	"+"	"Intron"	"INS"	"-"	"-"	"AC"	"rs34535608"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2259+1564_2259+1565dupCA"	""	""	"ENST00000258888"	""	9	"."	5	2	"."	0	"ALPK3,intron_variant,,ENST00000258888,NM_020778.4;"	"AC"	"ENSG00000136383"	"ENST00000258888"	"Transcript"	"intron_variant"	"-/10917"	"-/5724"	"-/1907"	""	""	"rs34535608"	"1"	NA	1	"ALPK3"	"HGNC"	17574	"protein_coding"	"YES"	"CCDS10333.1"	"ENSP00000258888"	"Q96L96"	""	"UPI000013D013"	"NM_020778.4"	NA	NA	""	"5/13"	""	"AC:0.1072"	"AC:0.0076"	"AC:0.1225"	NA	"AC:0.1379"	"AC:0.163"	"AC:0.1421"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"4ca20e12-2764-11e6-a0e1-9add414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"978"	"GOLGA6L3"	0	"mskcc.org"	"GRCh37"	"15"	85790528	85790531	"+"	"3'Flank"	"DEL"	"ATTT"	"ATTT"	"-"	"rs745602583"	NA	"JHCCPT1"	"JHCCPN1"	"ATTT"	"ATTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000507199"	""	10	"."	3	2	"."	0	"GOLGA6L3,downstream_gene_variant,,ENST00000507199,;GOLGA6L3,downstream_gene_variant,,ENST00000539445,;"	"-"	"ENSG00000188388"	"ENST00000507199"	"Transcript"	"downstream_gene_variant"	"-/1679"	""	""	""	""	"rs745602583"	"1"	"127"	1	"GOLGA6L3"	"HGNC"	37441	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAATTTA"	"3f509ec2-2764-11e6-a0e1-9add414a729f"	"64"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"979"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	85905778	85905779	"+"	"IGR"	"INS"	"-"	"-"	"GAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	5	"."	0	""	"GAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"4cc537ac-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"980"	"RP11-326A19.4"	0	"mskcc.org"	"GRCh37"	"15"	89582286	89582287	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs11431326"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000565938"	""	6	"."	4	2	"."	0	"RP11-326A19.4,upstream_gene_variant,,ENST00000565938,;RP11-326A19.2,upstream_gene_variant,,ENST00000564874,;"	"C"	"ENSG00000260123"	"ENST00000565938"	"Transcript"	"upstream_gene_variant"	"-/597"	""	""	""	""	"rs11431326"	"1"	"2167"	1	"RP11-326A19.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"4ce8f278-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"981"	"FANCI"	55215	"mskcc.org"	"GRCh37"	"15"	89783541	89783542	"+"	"5'Flank"	"INS"	"-"	"-"	"AAC"	"rs10649626"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000310775"	""	6	"."	3	3	"."	0	"FANCI,upstream_gene_variant,,ENST00000310775,NM_001113378.1;FANCI,upstream_gene_variant,,ENST00000300027,NM_018193.2;FANCI,upstream_gene_variant,,ENST00000567996,;FANCI,upstream_gene_variant,,ENST00000451393,;FANCI,upstream_gene_variant,,ENST00000565255,;FANCI,upstream_gene_variant,,ENST00000563250,;FANCI,upstream_gene_variant,,ENST00000567891,;FANCI,upstream_gene_variant,,ENST00000564920,;FANCI,upstream_gene_variant,,ENST00000568670,;FANCI,upstream_gene_variant,,ENST00000565522,;FANCI,upstream_gene_variant,,ENST00000447611,;FANCI,upstream_gene_variant,,ENST00000570110,;"	"AAC"	"ENSG00000140525"	"ENST00000310775"	"Transcript"	"upstream_gene_variant"	"-/4743"	"-/3987"	"-/1328"	""	""	"rs10649626"	"1"	"3656"	1	"FANCI"	"HGNC"	25568	"protein_coding"	"YES"	"CCDS45346.1"	"ENSP00000310842"	"Q9NVI1"	"H3BT54,H3BS60,H3BQE2"	"UPI00001FEB1D"	"NM_001113378.1"	NA	NA	""	""	""	"AAC:0.4133"	"AAC:0.5424"	"AAC:0.3862"	NA	"AAC:0.3333"	"AAC:0.4016"	"AAC:0.3528"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"4cf13a14-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"982"	"CRTC3"	64784	"mskcc.org"	"GRCh37"	"15"	91077793	91077794	"+"	"Intron"	"INS"	"-"	"-"	"GTTGGTTG"	"rs112984976"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.132+4370_132+4377dupGGTTGGTT"	""	""	"ENST00000268184"	""	8	"."	3	1	"."	0	"CRTC3,intron_variant,,ENST00000420329,NM_022769.4,NM_001042574.2;CRTC3,intron_variant,,ENST00000268184,;CRTC3,intron_variant,,ENST00000560098,;CRTC3,intron_variant,,ENST00000558619,;CRTC3,intron_variant,,ENST00000561218,;"	"GTTGGTTG"	"ENSG00000140577"	"ENST00000268184"	"Transcript"	"intron_variant"	"-/2537"	"-/1860"	"-/619"	""	""	"rs112984976"	"1"	NA	1	"CRTC3"	"HGNC"	26148	"protein_coding"	"YES"	"CCDS32331.1"	"ENSP00000268184"	"Q6UUV7"	""	"UPI00001FEB98"	""	NA	NA	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"19"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"4d671414-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	TRUE
"983"	"SLCO3A1"	28232	"mskcc.org"	"GRCh37"	"15"	92618011	92618011	"+"	"Intron"	"DEL"	"T"	"-"	"-"	"rs113918279"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.647-20100delT"	""	""	"ENST00000318445"	""	6	"."	5	1	"."	0	"SLCO3A1,intron_variant,,ENST00000318445,NM_013272.3;SLCO3A1,intron_variant,,ENST00000424469,NM_001145044.1;SLCO3A1,intron_variant,,ENST00000555769,;SLCO3A1,intron_variant,,ENST00000556649,;SLCO3A1,intron_variant,,ENST00000553653,;"	"-"	"ENSG00000176463"	"ENST00000318445"	"Transcript"	"intron_variant"	"-/5115"	"-/2133"	"-/710"	""	""	"rs113918279"	"1"	NA	1	"SLCO3A1"	"HGNC"	10952	"protein_coding"	"YES"	"CCDS10371.1"	"ENSP00000320634"	"Q9UIG8"	""	"UPI00001AF1F7"	"NM_013272.3"	NA	NA	""	"2/9"	""	"T:0.2276"	"-:0.6785"	"-:0.9049"	NA	"-:0.753"	"-:0.8191"	"-:0.7771"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTG"	"4106ec80-2764-11e6-a0e1-9add414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"984"	"RP11-326A13.1"	0	"mskcc.org"	"GRCh37"	"15"	93806677	93806679	"+"	"3'Flank"	"DEL"	"CCT"	"CCT"	"-"	"rs34160785"	NA	"JHCCPT1"	"JHCCPN1"	"CCT"	"CCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000555297"	""	8	"."	4	4	"."	0	"RP11-326A13.1,downstream_gene_variant,,ENST00000555297,;"	"-"	"ENSG00000258888"	"ENST00000555297"	"Transcript"	"downstream_gene_variant"	"-/682"	""	""	""	""	"rs34160785"	"1"	"2973"	1	"RP11-326A13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"CCT:0.3704"	"-:0.6384"	"-:0.572"	NA	"-:0.874"	"-:0.5169"	"-:0.5225"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCCTC"	"41368364-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"985"	"CTD-2643K12.3"	101927112	"mskcc.org"	"GRCh37"	"15"	94494635	94494636	"+"	"Intron"	"INS"	"-"	"-"	"TTC"	"rs77120190"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2015-2188_2015-2186dupGAA"	""	""	"ENST00000558874"	""	10	"."	6	2	"."	0	"CTD-2643K12.3,intron_variant,,ENST00000558874,;CTD-2643K12.2,intron_variant,,ENST00000555364,;CTD-3049M7.1,intron_variant,,ENST00000556928,;CTD-2643K12.2,intron_variant,,ENST00000555255,;"	"TTC"	"ENSG00000259724"	"ENST00000558874"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3173"	""	""	""	""	"rs77120190"	"1"	NA	-1	"CTD-2643K12.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"6/8"	""	"-:0.2758"	"TTC:0.9569"	"TTC:0.7118"	NA	"TTC:0.5625"	"TTC:0.7416"	"TTC:0.5675"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"4dde665e-2764-11e6-a0e1-9add414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"986"	"MCTP2"	55784	"mskcc.org"	"GRCh37"	"15"	94910408	94910409	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs60889070"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1302-417dupT"	""	""	"ENST00000357742"	""	8	"."	4	1	"."	0	"MCTP2,intron_variant,,ENST00000357742,NM_018349.3;MCTP2,intron_variant,,ENST00000451018,NM_001159643.1;MCTP2,intron_variant,,ENST00000331706,;MCTP2,intron_variant,,ENST00000557742,NM_001159644.1;MCTP2,intron_variant,,ENST00000456504,;"	"T"	"ENSG00000140563"	"ENST00000357742"	"Transcript"	"intron_variant"	"-/3965"	"-/2637"	"-/878"	""	""	"rs60889070"	"1"	NA	1	"MCTP2"	"HGNC"	25636	"protein_coding"	"YES"	"CCDS32338.1"	"ENSP00000350377"	"Q6DN12"	"Q9NPN6"	"UPI0000D613A2"	"NM_018349.3"	NA	NA	""	"9/21"	""	"T:0.1739"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"4de6b408-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"987"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	95357204	95357205	"+"	"IGR"	"INS"	"-"	"-"	"GGAAGGAAGGAAGGAAGGAAGGAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	3	5	"."	0	""	"GGAAGGAAGGAAGGAAGGAAGGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"4df33dd6-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"988"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	97084152	97084153	"+"	"IGR"	"INS"	"-"	"-"	"GA"	"rs10693628"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	3	"."	0	""	"GA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10693628"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2512"	"GA:0.5477"	"GA:0.7911"	NA	"GA:0.8899"	"GA:0.7992"	"GA:0.7935"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"4e01719e-2764-11e6-a0e1-9add414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"989"	"RP11-66B24.5"	0	"mskcc.org"	"GRCh37"	"15"	101306782	101306783	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs577589664"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.123+50212dupG"	""	""	"ENST00000559755"	""	8	"."	4	3	"."	0	"RP11-66B24.5,intron_variant,,ENST00000559755,;"	"G"	"ENSG00000259579"	"ENST00000559755"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/643"	""	""	""	""	"rs577589664"	"1"	NA	1	"RP11-66B24.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"G:0.4439"	"G:0.7156"	"G:0.4236"	NA	"G:0.379"	"G:0.2853"	"G:0.3211"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"4e6801b6-2764-11e6-a0e1-9add414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"990"	"LRRK1"	79705	"mskcc.org"	"GRCh37"	"15"	101611581	101611582	"+"	"3'Flank"	"INS"	"-"	"T"	"T"	"rs11403379"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000388948"	""	6	"."	5	3	"."	0	"LRRK1,downstream_gene_variant,,ENST00000284395,;LRRK1,downstream_gene_variant,,ENST00000388948,NM_024652.3;RP11-505E24.2,intron_variant,,ENST00000559857,;LRRK1,downstream_gene_variant,,ENST00000532145,;LRRK1,downstream_gene_variant,,ENST00000525284,;LRRK1,downstream_gene_variant,,ENST00000531270,;LRRK1,downstream_gene_variant,,ENST00000526457,;"	"T"	"ENSG00000154237"	"ENST00000388948"	"Transcript"	"downstream_gene_variant"	"-/7671"	"-/6048"	"-/2015"	""	""	"rs11403379"	"1"	"1264"	1	"LRRK1"	"HGNC"	18608	"protein_coding"	"YES"	"CCDS42086.1"	"ENSP00000373600"	"Q38SD2"	"E9PMK9,E9PLF8,E9PK39,B3KSX5"	"UPI0000D4FE63"	"NM_024652.3"	NA	NA	""	""	""	"-:0.1775"	"T:0.711"	"T:0.866"	NA	"T:0.8651"	"T:0.8728"	"T:0.8466"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"4e7643b6-2764-11e6-a0e1-9add414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"991"	"VIMP"	55829	"mskcc.org"	"GRCh37"	"15"	101809747	101809748	"+"	"3'Flank"	"INS"	"-"	"-"	"AGA"	"rs149748850"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000398226"	""	7	"."	3	4	"."	0	"VIMP,downstream_gene_variant,,ENST00000398226,;VIMP,downstream_gene_variant,,ENST00000537379,NM_203472.1;VIMP,downstream_gene_variant,,ENST00000526049,NM_018445.4;VIMP,downstream_gene_variant,,ENST00000531964,;VIMP,downstream_gene_variant,,ENST00000528346,;VIMP,downstream_gene_variant,,ENST00000526043,;VIMP,downstream_gene_variant,,ENST00000527833,;"	"AGA"	"ENSG00000131871"	"ENST00000398226"	"Transcript"	"downstream_gene_variant"	"-/1439"	"-/570"	"-/189"	""	""	"rs149748850"	"1"	"1274"	-1	"VIMP"	"HGNC"	30396	"protein_coding"	"YES"	"CCDS53979.1"	"ENSP00000381282"	"Q9BQE4"	"Q6GYA4"	"UPI00001B2973"	""	NA	NA	""	""	""	"AGA:0.2204"	"AGA:0.6014"	"AGA:0.1124"	NA	"AGA:0.0248"	"AGA:0.1521"	"AGA:0.0542"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"4e8a3a10-2764-11e6-a0e1-9add414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"992"	"PCSK6"	5046	"mskcc.org"	"GRCh37"	"15"	102042417	102042418	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs5815019"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.123+22865dupG"	""	""	"ENST00000557794"	""	8	"."	6	1	"."	0	"PCSK6,intron_variant,,ENST00000557794,;"	"C"	"ENSG00000140479"	"ENST00000557794"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1196"	""	""	""	""	"rs5815019"	"1"	NA	-1	"PCSK6"	"HGNC"	8569	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"1/4"	""	"-:0.4874"	"C:0.5817"	"C:0.4986"	NA	"C:0.5089"	"C:0.4304"	"C:0.5174"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"4e9a1228-2764-11e6-a0e1-9add414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"993"	"WFIKKN1"	117166	"mskcc.org"	"GRCh37"	"16"	681644	681644	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs66609666"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.171+223delG"	""	""	"ENST00000319070"	""	9	"."	4	2	"."	0	"WFIKKN1,intron_variant,,ENST00000319070,NM_053284.2;RAB40C,downstream_gene_variant,,ENST00000535977,NM_001172663.1;RAB40C,downstream_gene_variant,,ENST00000248139,NM_021168.4;RAB40C,downstream_gene_variant,,ENST00000539661,NM_001172664.1;RAB40C,downstream_gene_variant,,ENST00000538492,NM_001172665.1,NM_001172666.1;C16orf13,downstream_gene_variant,,ENST00000301686,NM_032366.3;RAB40C,downstream_gene_variant,,ENST00000566290,;C16orf13,downstream_gene_variant,,ENST00000397666,NM_001040160.1;RAB40C,downstream_gene_variant,,ENST00000563109,;C16orf13,downstream_gene_variant,,ENST00000397664,NM_001040162.1;C16orf13,downstream_gene_variant,,ENST00000568830,;C16orf13,downstream_gene_variant,,ENST00000397665,NM_001040165.1;C16orf13,downstream_gene_variant,,ENST00000338401,NM_001040161.1;C16orf13,downstream_gene_variant,,ENST00000568773,;C16orf13,downstream_gene_variant,,ENST00000565163,;WFIKKN1,non_coding_transcript_exon_variant,,ENST00000573440,;RAB40C,downstream_gene_variant,,ENST00000561781,;C16orf13,downstream_gene_variant,,ENST00000448973,;C16orf13,downstream_gene_variant,,ENST00000456420,;C16orf13,downstream_gene_variant,,ENST00000565799,;C16orf13,downstream_gene_variant,,ENST00000568077,;C16orf13,downstream_gene_variant,,ENST00000564039,;"	"-"	"ENSG00000127578"	"ENST00000319070"	"Transcript"	"intron_variant"	"-/2028"	"-/1647"	"-/548"	""	""	"rs66609666"	"1"	NA	1	"WFIKKN1"	"HGNC"	30912	"protein_coding"	"YES"	"CCDS10414.1"	"ENSP00000324763"	"Q96NZ8"	""	"UPI0000043725"	"NM_053284.2"	NA	NA	""	"1/1"	""	"G:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"2ef07732-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"994"	"MEIOB"	64735	"mskcc.org"	"GRCh37"	"16"	1915479	1915523	"+"	"Intron"	"DEL"	"CACACGTGTACACACATACACACACATACACATGCACACACATAC"	"CACACGTGTACACACATACACACACATACACATGCACACACATAC"	"TACACATGCACACACATACACAC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CACACGTGTACACACATACACACACATACACATGCACACACATAC"	"CACACGTGTACACACATACACACACATACACATGCACACACATAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.127+258_127+300delATGTGTGTGCATGTGTATGTGTGTGTATGTGTGTACACGTGTGinsGTGTATGTGTGTGCATGTGTA"	""	""	"ENST00000412554"	""	6	"."	4	4	"."	0	"MEIOB,intron_variant,,ENST00000412554,NM_001163560.2;MEIOB,intron_variant,,ENST00000470044,;MEIOB,intron_variant,,ENST00000452149,;MEIOB,intron_variant,,ENST00000397344,NM_152764.2;MEIOB,intron_variant,,ENST00000325962,;MEIOB,intron_variant,,ENST00000496541,;MEIOB,intron_variant,,ENST00000460494,;"	"TACACATGCACACACATACAC"	"ENSG00000162039"	"ENST00000412554"	"Transcript"	"intron_variant"	"-/1884"	"-/1416"	"-/471"	""	""	""	"1"	NA	-1	"MEIOB"	"HGNC"	28569	"protein_coding"	"YES"	"CCDS53983.1"	"ENSP00000390778"	"Q8N635"	"H3BU10,H3BSU6"	"UPI000198C771"	"NM_001163560.2"	NA	NA	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACACACACGTGTACACACATACACACACATACACATGCACACACATACA"	"42a10fc6-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"995"	"MEIOB"	64735	"mskcc.org"	"GRCh37"	"16"	1915484	1915523	"+"	"Intron"	"DEL"	"GTGTACACACATACACACACATACACATGCACACACATAC"	"ATACACATGCACACACAT"	"ATACACATGCACACACAT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GTGTACACACATACACACACATACACATGCACACACATAC"	"GTGTACACACATACACACACATACACATGCACACACATAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.127+256_127+295delGTATGTGTGTGCATGTGTATGTGTGTGTATGTGTGTACACinsATGTGTGTGCATGTGTAT"	""	""	"ENST00000412554"	""	8	"."	6	4	"."	0	"MEIOB,intron_variant,,ENST00000412554,NM_001163560.2;MEIOB,intron_variant,,ENST00000470044,;MEIOB,intron_variant,,ENST00000452149,;MEIOB,intron_variant,,ENST00000397344,NM_152764.2;MEIOB,intron_variant,,ENST00000325962,;MEIOB,intron_variant,,ENST00000496541,;MEIOB,intron_variant,,ENST00000460494,;"	"ATACACATGCACACACAT"	"ENSG00000162039"	"ENST00000412554"	"Transcript"	"intron_variant"	"-/1884"	"-/1416"	"-/471"	""	""	""	"1"	NA	-1	"MEIOB"	"HGNC"	28569	"protein_coding"	"YES"	"CCDS53983.1"	"ENSP00000390778"	"Q8N635"	"H3BU10,H3BSU6"	"UPI000198C771"	"NM_001163560.2"	NA	NA	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACGTGTACACACATACACACACATACACATGCACACACATACA"	"42a93a98-2764-11e6-a260-9cdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"996"	"PRSS33"	260429	"mskcc.org"	"GRCh37"	"16"	2837269	2837270	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"rs56320634"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000293851"	""	10	"."	3	1	"."	0	"PRSS33,intron_variant,,ENST00000570702,;PRSS33,upstream_gene_variant,,ENST00000576886,;PRSS33,upstream_gene_variant,,ENST00000293851,NM_152891.2;PRSS33,upstream_gene_variant,,ENST00000571674,;"	"T"	"ENSG00000103355"	"ENST00000293851"	"Transcript"	"upstream_gene_variant"	"-/1694"	"-/843"	"-/280"	""	""	"rs56320634"	"1"	"561"	-1	"PRSS33"	"HGNC"	30405	"protein_coding"	"YES"	"CCDS42110.1"	"ENSP00000293851"	"Q8NF86"	""	"UPI0000062251"	"NM_152891.2"	NA	NA	""	""	""	"T:0.0088"	"T:0.0008"	"T:0.0159"	NA	"T:0.003"	"T:0.0249"	"T:0.0041"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"44b1e6d2-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"997"	"C16orf90"	646174	"mskcc.org"	"GRCh37"	"16"	3542745	3542746	"+"	"3'Flank"	"INS"	"-"	"-"	"AT"	"rs147919264"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000437192"	""	10	"."	5	1	"."	0	"C16orf90,downstream_gene_variant,,ENST00000399645,;C16orf90,downstream_gene_variant,,ENST00000437192,NM_001080524.1;LA16c-306E5.3,intron_variant,,ENST00000574423,;LA16c-306E5.1,upstream_gene_variant,,ENST00000459875,;"	"AT"	"ENSG00000215131"	"ENST00000437192"	"Transcript"	"downstream_gene_variant"	"-/907"	"-/549"	"-/182"	""	""	"rs147919264"	"1"	"738"	-1	"C16orf90"	"HGNC"	34455	"protein_coding"	"YES"	"CCDS45397.1"	"ENSP00000401335"	"A8MZG2"	""	"UPI00006C1606"	"NM_001080524.1"	NA	NA	""	""	""	"AT:0.2660"	"AT:0.3389"	"AT:0.1758"	NA	"AT:0.1835"	"AT:0.2048"	"AT:0.3793"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"44fe175a-2764-11e6-a260-9cdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"998"	"RP11-462G12.2"	0	"mskcc.org"	"GRCh37"	"16"	3978338	3978353	"+"	"3'Flank"	"DEL"	"TGGGAGGCCAAGGCAG"	"TGGGAGGCCAAGGCAG"	"GGGAGGCCGAGGAGC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TGGGAGGCCAAGGCAG"	"TGGGAGGCCAAGGCAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000571302"	""	10	"."	3	1	"."	0	"RP11-462G12.2,downstream_gene_variant,,ENST00000571302,;"	"GGGAGGCCGAGGAGC"	"ENSG00000262888"	"ENST00000571302"	"Transcript"	"downstream_gene_variant"	"-/774"	""	""	""	""	""	"1"	"2865"	-1	"RP11-462G12.2"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGGGAGGCCAAGGCAGG"	"42b3a726-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"999"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	6704994	6704995	"+"	"Intron"	"INS"	"-"	"-"	"ATT"	"rs5815339"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.114+345_114+347dupTTA"	""	""	"ENST00000547372"	""	19	"."	9	8	"."	0	"RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RBFOX1,intron_variant,,ENST00000535565,;RBFOX1,intron_variant,,ENST00000552089,;RBFOX1,intron_variant,,ENST00000551752,;RP11-420N3.2,intron_variant,,ENST00000569895,;RBFOX1,intron_variant,,ENST00000547427,;RBFOX1,intron_variant,,ENST00000548749,;"	"ATT"	"ENSG00000078328"	"ENST00000547372"	"Transcript"	"intron_variant"	"-/3524"	"-/1401"	"-/466"	""	""	"rs5815339"	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	""	""	"ENSP00000446842"	""	"Q8TCM0,Q59HD3,F8VZY7,F8VZG9"	"UPI00020CDFAB"	""	NA	NA	""	"3/16"	""	"-:0.2622"	"ATT:0.7322"	"ATT:0.8084"	NA	"ATT:0.6974"	"ATT:0.7366"	"ATT:0.7382"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"459fb63c-2764-11e6-a260-9cdd414a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.473684210526316	"WXS"	FALSE
"1000"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	7000898	7000901	"+"	"Intron"	"DEL"	"TCTT"	"TCTT"	"-"	"rs140800011"	NA	"JHCCPT1"	"JHCCPN1"	"TCTT"	"TCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.115-101149_115-101146delTTCT"	""	""	"ENST00000547372"	""	6	"."	3	1	"."	0	"RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RBFOX1,intron_variant,,ENST00000535565,;RBFOX1,intron_variant,,ENST00000547338,NM_001142334.1;RBFOX1,intron_variant,,ENST00000552089,;RBFOX1,intron_variant,,ENST00000551752,;RBFOX1,intron_variant,,ENST00000547427,;"	"-"	"ENSG00000078328"	"ENST00000547372"	"Transcript"	"intron_variant"	"-/3524"	"-/1401"	"-/466"	""	""	"rs140800011"	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	""	""	"ENSP00000446842"	""	"Q8TCM0,Q59HD3,F8VZY7,F8VZG9"	"UPI00020CDFAB"	""	NA	NA	""	"3/16"	""	"-:0.1913"	"-:0.152"	"-:0.1902"	NA	"-:0.1627"	"-:0.2137"	"-:0.2515"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	"11"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTCTTT"	"31d75fb0-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1001"	"RP11-279O17.3"	0	"mskcc.org"	"GRCh37"	"16"	8407952	8407952	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"rs142206885"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000564185"	""	6	"."	3	2	"."	0	"RP11-279O17.3,downstream_gene_variant,,ENST00000564185,;"	"-"	"ENSG00000260058"	"ENST00000564185"	"Transcript"	"downstream_gene_variant"	"-/481"	""	""	""	""	"rs142206885"	"1"	"90"	1	"RP11-279O17.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0645"	"-:0.0484"	"-:0.1182"	NA	"-:0"	"-:0.1412"	"-:0.0358"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"31eba984-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1002"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	8570944	8570967	"+"	"IGR"	"DEL"	"GGAAGGAAGGAAGGAAGGAAGGAA"	"GGAAGGAAGGAAGGAAGGAAGGAA"	"-"	"rs200843973"	NA	"JHCCPT1"	"JHCCPN1"	"GGAAGGAAGGAAGGAAGGAAGGAA"	"GGAAGGAAGGAAGGAAGGAAGGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	4	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200843973"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACGGAAGGAAGGAAGGAAGGAAGGAAG"	"31f0d936-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"1003"	"C16orf72"	29035	"mskcc.org"	"GRCh37"	"16"	9186511	9186511	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs35859762"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.227-267delA"	""	""	"ENST00000327827"	""	18	"."	5	6	"."	0	"C16orf72,intron_variant,,ENST00000327827,NM_014117.2;"	"-"	"ENSG00000182831"	"ENST00000327827"	"Transcript"	"intron_variant"	"-/5953"	"-/828"	"-/275"	""	""	"rs35859762"	"1"	NA	1	"C16orf72"	"HGNC"	30103	"protein_coding"	"YES"	"CCDS10538.1"	"ENSP00000331720"	"Q14CZ0"	""	"UPI00001E0574"	"NM_014117.2"	NA	NA	""	"1/3"	""	"-:0.0958"	"-:0.0076"	"-:0.1801"	NA	"-:0.1786"	"-:0.1133"	"-:0.0521"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAG"	"3237573a-2764-11e6-a260-9cdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"1004"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	9271109	9271110	"+"	"IGR"	"INS"	"-"	"-"	"CCCTCCTCTCCCCTCCTCTC"	"rs112032077"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	29	"."	5	5	"."	0	""	"CCCTCCTCTCCCCTCCTCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112032077"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1398"	"CCCTCCTCTC:0.646"	"CCCTCCTCTC:0.9308"	NA	"CCCTCCTCTC:0.9365"	"CCCTCCTCTC:0.9404"	"CCCTCCTCTC:0.9387"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"460d5d4a-2764-11e6-a260-9cdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WXS"	FALSE
"1005"	"RP11-418I22.2"	0	"mskcc.org"	"GRCh37"	"16"	9572251	9572252	"+"	"Intron"	"INS"	"-"	"-"	"TCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.356+11408_356+11409insTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTT"	""	""	"ENST00000570038"	""	11	"."	3	2	"."	0	"RP11-418I22.2,intron_variant,,ENST00000570038,;"	"TCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTT"	"ENSG00000260071"	"ENST00000570038"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/796"	""	""	""	""	""	"1"	NA	1	"RP11-418I22.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"24"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"4610b972-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"1006"	"GRIN2A"	2903	"mskcc.org"	"GRCh37"	"16"	9888769	9888771	"+"	"Intron"	"DEL"	"TGA"	"TGA"	"-"	"rs60808781"	NA	"JHCCPT1"	"JHCCPN1"	"TGA"	"TGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2356+3363_2356+3365delTCA"	""	""	"ENST00000330684"	""	8	"."	4	1	"."	0	"GRIN2A,intron_variant,,ENST00000396573,NM_000833.3;GRIN2A,intron_variant,,ENST00000330684,NM_001134407.1;GRIN2A,intron_variant,,ENST00000404927,NM_001134408.1;GRIN2A,intron_variant,,ENST00000562109,;GRIN2A,intron_variant,,ENST00000396575,;GRIN2A,intron_variant,,ENST00000535259,;"	"-"	"ENSG00000183454"	"ENST00000330684"	"Transcript"	"intron_variant"	"-/5031"	"-/4395"	"-/1464"	""	""	"rs60808781"	"1"	NA	-1	"GRIN2A"	"HGNC"	4585	"protein_coding"	""	"CCDS10539.1"	"ENSP00000332549"	"Q12879"	"Q547U9"	"UPI000000D7AB"	"NM_001134407.1"	NA	NA	""	"11/12"	""	"-:0.3480"	"-:0.5681"	"-:0.2608"	NA	"-:0.253"	"-:0.335"	"-:0.2239"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGTGAT"	"323e6c00-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	TRUE
"1007"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	10711063	10711064	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs59451622"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	3	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs59451622"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.2837"	"A:0.3169"	"A:0.3862"	NA	"A:0.374"	"A:0.2256"	"A:0.1329"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"462371ac-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1008"	"CTD-3088G3.8"	400499	"mskcc.org"	"GRCh37"	"16"	11570515	11570516	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs5815642"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2627+104_2627+105insAT"	""	""	"ENST00000598234"	""	6	"."	3	5	"."	0	"CTD-3088G3.8,intron_variant,,ENST00000598234,;CTD-3088G3.8,intron_variant,,ENST00000344649,;CTD-3088G3.6,downstream_gene_variant,,ENST00000572950,;RN7SL522P,upstream_gene_variant,,ENST00000578135,;CTD-3088G3.8,intron_variant,,ENST00000595170,;"	"AT"	"ENSG00000188897"	"ENST00000598234"	"Transcript"	"intron_variant"	"-/7627"	"-/7474"	"-/2491"	""	""	"rs5815642"	"1"	NA	-1	"CTD-3088G3.8"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000470478"	""	"M0QZD8"	"UPI0002A474E2"	""	NA	NA	""	"18/49"	""	"-:0.3840"	"AT:0.851"	"AT:0.6628"	NA	"AT:0.5466"	"AT:0.496"	"AT:0.4601"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"464e8766-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1009"	"CTD-3088G3.8"	400499	"mskcc.org"	"GRCh37"	"16"	11609572	11609573	"+"	"Intron"	"INS"	"-"	"-"	"AGGAGGAGGAAAAGGGAGG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.549+194_549+212dupCCTCCCTTTTCCTCCTCCT"	""	""	"ENST00000598234"	""	41	"."	3	30	"."	0	"CTD-3088G3.8,intron_variant,,ENST00000598234,;"	"AGGAGGAGGAAAAGGGAGG"	"ENSG00000188897"	"ENST00000598234"	"Transcript"	"intron_variant"	"-/7627"	"-/7474"	"-/2491"	""	""	""	"1"	NA	-1	"CTD-3088G3.8"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000470478"	""	"M0QZD8"	"UPI0002A474E2"	""	NA	NA	""	"5/49"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"464fdf4e-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WXS"	FALSE
"1010"	"SNX29"	92017	"mskcc.org"	"GRCh37"	"16"	12648984	12648984	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs141996425"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2319-13379delC"	""	""	"ENST00000566228"	""	10	"."	5	4	"."	0	"SNX29,intron_variant,,ENST00000566228,NM_032167.3;SNX29,intron_variant,,ENST00000306030,;CTD-3037G24.4,downstream_gene_variant,,ENST00000563116,;"	"-"	"ENSG00000048471"	"ENST00000566228"	"Transcript"	"intron_variant"	"-/8171"	"-/2442"	"-/813"	""	""	"rs141996425"	"1"	NA	1	"SNX29"	"HGNC"	30542	"protein_coding"	"YES"	"CCDS10553.2"	"ENSP00000456480"	"Q8TEQ0"	"J3KNF2"	"UPI00000382F9"	"NM_032167.3"	NA	NA	""	"20/20"	""	"-:0.2159"	"-:0.0393"	"-:0.3444"	NA	"-:0.005"	"-:0.5586"	"-:0.228"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCT"	"32ea5fba-2764-11e6-a260-9cdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1011"	"CTD-3037G24.3"	0	"mskcc.org"	"GRCh37"	"16"	12697428	12697428	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs34760762"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.307+7167delC"	""	""	"ENST00000564505"	""	6	"."	4	1	"."	0	"CTD-3037G24.3,intron_variant,,ENST00000564505,;"	"-"	"ENSG00000259899"	"ENST00000564505"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/698"	""	""	""	""	"rs34760762"	"1"	NA	-1	"CTD-3037G24.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.2971"	"-:0.1392"	"-:0.5086"	NA	"-:0.3631"	"-:0.331"	"-:0.2577"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGG"	"32f2df1e-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1012"	"SHISA9"	729993	"mskcc.org"	"GRCh37"	"16"	12996706	12996707	"+"	"Intron"	"INS"	"-"	"-"	"GTGT"	"rs3974950"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.563+238_563+241dupTGTG"	""	""	"ENST00000424107"	""	28	"."	4	8	"."	0	"SHISA9,intron_variant,,ENST00000558583,NM_001145204.2;SHISA9,intron_variant,,ENST00000558318,NM_001145205.1;SHISA9,intron_variant,,ENST00000423335,;SHISA9,intron_variant,,ENST00000424107,;SHISA9,upstream_gene_variant,,ENST00000482916,;"	"GTGT"	"ENSG00000237515"	"ENST00000424107"	"Transcript"	"intron_variant"	"-/2020"	"-/1275"	"-/424"	""	""	"rs3974950"	"1"	NA	1	"SHISA9"	"HGNC"	37231	"protein_coding"	"YES"	"CCDS45417.2"	"ENSP00000407958"	"B4DS77"	""	"UPI0001CE6F1C"	""	NA	NA	""	"1/4"	""	"GTGT:0.3818"	"GTGT:0.3003"	"GTGT:0.4683"	NA	"GTGT:0.3681"	"GTGT:0.4563"	"GTGT:0.3681"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"19"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"4681e3ea-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"1013"	"SHISA9"	729993	"mskcc.org"	"GRCh37"	"16"	13000549	13000550	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs56148618"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.563+4072dupA"	""	""	"ENST00000424107"	""	6	"."	3	2	"."	0	"SHISA9,intron_variant,,ENST00000558583,NM_001145204.2;SHISA9,intron_variant,,ENST00000558318,NM_001145205.1;SHISA9,intron_variant,,ENST00000423335,;SHISA9,intron_variant,,ENST00000424107,;SHISA9,intron_variant,,ENST00000482916,;"	"A"	"ENSG00000237515"	"ENST00000424107"	"Transcript"	"intron_variant"	"-/2020"	"-/1275"	"-/424"	""	""	"rs56148618"	"1"	NA	1	"SHISA9"	"HGNC"	37231	"protein_coding"	"YES"	"CCDS45417.2"	"ENSP00000407958"	"B4DS77"	""	"UPI0001CE6F1C"	""	NA	NA	""	"1/4"	""	"A:0.1745"	"A:0.0802"	"A:0.1052"	NA	"A:0.248"	"A:0.1332"	"A:0.318"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"46835e8c-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1014"	"SHISA9"	729993	"mskcc.org"	"GRCh37"	"16"	13000989	13001011	"+"	"Intron"	"DEL"	"TCTTCCTTTCCCTCCCTCCCTCC"	"TCTTCCTTTCCCTCCCTCCCTCC"	"CTTTCCCTCCCTCCTTCCCTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TCTTCCTTTCCCTCCCTCCCTCC"	"TCTTCCTTTCCCTCCCTCCCTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.563+4505_563+4526delTCTTCCTTTCCCTCCCTCCCTCinsCTTTCCCTCCCTCCTTCCCT"	""	""	"ENST00000424107"	""	13	"."	6	7	"."	0	"SHISA9,intron_variant,,ENST00000558583,NM_001145204.2;SHISA9,intron_variant,,ENST00000558318,NM_001145205.1;SHISA9,intron_variant,,ENST00000423335,;SHISA9,intron_variant,,ENST00000424107,;SHISA9,intron_variant,,ENST00000482916,;"	"CTTTCCCTCCCTCCTTCCCT"	"ENSG00000237515"	"ENST00000424107"	"Transcript"	"intron_variant"	"-/2020"	"-/1275"	"-/424"	""	""	""	"1"	NA	1	"SHISA9"	"HGNC"	37231	"protein_coding"	"YES"	"CCDS45417.2"	"ENSP00000407958"	"B4DS77"	""	"UPI0001CE6F1C"	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCTTCCTTTCCCTCCCTCCCTCCC"	"42c2de44-2764-11e6-a260-9cdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"1015"	"U95743.1"	0	"mskcc.org"	"GRCh37"	"16"	13864518	13864520	"+"	"Intron"	"DEL"	"AGA"	"AGA"	"-"	"rs66629966"	NA	"JHCCPT1"	"JHCCPN1"	"AGA"	"AGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.372-3297_372-3295delTCT"	""	""	"ENST00000573369"	""	25	"."	4	15	"."	0	"U95743.1,intron_variant,,ENST00000573369,;U95743.1,intron_variant,,ENST00000576944,;"	"-"	"ENSG00000262267"	"ENST00000573369"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1001"	""	""	""	""	"rs66629966"	"1"	NA	-1	"U95743.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/4"	""	"AGA:0.2762"	"-:0.5749"	"-:0.7925"	NA	"-:0.7808"	"-:0.7555"	"-:0.7853"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAGAA"	"3308c61c-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WXS"	FALSE
"1016"	"ABCC1"	4363	"mskcc.org"	"GRCh37"	"16"	16169845	16169881	"+"	"Intron"	"DEL"	"CTGAGAAGGGCCAGGGCATCGAGAGCATTGAGTAATT"	"-"	"-"	"rs71388795"	NA	"JHCCPT1"	"JHCCPN1"	"CTGAGAAGGGCCAGGGCATCGAGAGCATTGAGTAATT"	"CTGAGAAGGGCCAGGGCATCGAGAGCATTGAGTAATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1913-336_1913-300delGAGAAGGGCCAGGGCATCGAGAGCATTGAGTAATTCT"	""	""	"ENST00000399410"	""	8	"."	6	1	"."	0	"ABCC1,intron_variant,,ENST00000399408,;ABCC1,intron_variant,,ENST00000399410,NM_004996.3;ABCC1,intron_variant,,ENST00000346370,;ABCC1,intron_variant,,ENST00000351154,;ABCC1,intron_variant,,ENST00000345148,;ABCC1,intron_variant,,ENST00000349029,;ABCC1,intron_variant,,ENST00000572882,;ABCC1,upstream_gene_variant,,ENST00000575422,;"	"-"	"ENSG00000103222"	"ENST00000399410"	"Transcript"	"intron_variant"	"-/6552"	"-/4596"	"-/1531"	""	""	"rs71388795"	"1"	NA	1	"ABCC1"	"HGNC"	51	"protein_coding"	"YES"	"CCDS42122.1"	"ENSP00000382342"	"P33527"	"Q9BV39"	"UPI00001FEEFC"	"NM_004996.3"	NA	NA	""	"14/30"	""	"-:0.1214"	"-:0.0696"	"-:0.0922"	NA	"-:0.0903"	"-:0.1421"	"-:0.2229"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCTGAGAAGGGCCAGGGCATCGAGAGCATTGAGTAATTC"	"33714c46-2764-11e6-a260-9cdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"1017"	"ABCC6"	368	"mskcc.org"	"GRCh37"	"16"	16285500	16285504	"+"	"Intron"	"DEL"	"CTTTT"	"CTTTT"	"-"	"rs10550311"	NA	"JHCCPT1"	"JHCCPN1"	"CTTTT"	"CTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1431+1183_1431+1187delAAAAG"	""	""	"ENST00000205557"	""	23	"."	5	6	"."	0	"ABCC6,intron_variant,,ENST00000205557,NM_001171.5;ABCC6,intron_variant,,ENST00000574094,;ABCC6,intron_variant,,ENST00000456970,;"	"-"	"ENSG00000091262"	"ENST00000205557"	"Transcript"	"intron_variant"	"-/5747"	"-/4512"	"-/1503"	""	""	"rs10550311"	"1"	NA	-1	"ABCC6"	"HGNC"	57	"protein_coding"	"YES"	"CCDS10568.1"	"ENSP00000205557"	"O95255"	""	"UPI00001AE5CA"	"NM_001171.5"	NA	NA	""	"11/30"	""	"CTTTT:0.3161"	"-:0.6732"	"-:0.6801"	NA	"-:0.7391"	"-:0.7227"	"-:0.6043"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCCTTTTA"	"33910f04-2764-11e6-a260-9cdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WXS"	FALSE
"1018"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	17170465	17170466	"+"	"IGR"	"INS"	"-"	"-"	"AC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"AC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"46f384e6-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1019"	"XYLT1"	64131	"mskcc.org"	"GRCh37"	"16"	17212142	17212143	"+"	"Intron"	"INS"	"-"	"-"	"GAATGAATGAAT"	"rs146083737"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2224-318_2224-307dupATTCATTCATTC"	""	""	"ENST00000261381"	""	10	"."	5	4	"."	0	"XYLT1,intron_variant,,ENST00000261381,NM_022166.3;"	"GAATGAATGAAT"	"ENSG00000103489"	"ENST00000261381"	"Transcript"	"intron_variant"	"-/9891"	"-/2880"	"-/959"	""	""	"rs146083737"	"1"	NA	-1	"XYLT1"	"HGNC"	15516	"protein_coding"	"YES"	"CCDS10569.1"	"ENSP00000261381"	"Q86Y38"	""	"UPI000000DCCE"	"NM_022166.3"	NA	NA	""	"10/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"46f8fd2c-2764-11e6-a260-9cdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1020"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	17732715	17732715	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs567891953"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs567891953"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0016"	"-:0"	"-:0"	NA	"-:0"	"-:0.008"	"-:0"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGT"	"339d8ef0-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"1021"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	18297907	18297907	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs72410668"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs72410668"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"33a07cf0-2764-11e6-a260-9cdd414a729f"	"125"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"1022"	"C16orf62"	57020	"mskcc.org"	"GRCh37"	"16"	19627290	19627291	"+"	"Intron"	"INS"	"-"	"-"	"AAT"	"rs141641213"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1291-118_1291-116dupAAT"	""	""	"ENST00000438132"	""	41	"."	7	12	"."	0	"C16orf62,intron_variant,,ENST00000438132,NM_020314.5;C16orf62,intron_variant,,ENST00000251143,;C16orf62,intron_variant,,ENST00000543152,;C16orf62,intron_variant,,ENST00000542263,;C16orf62,intron_variant,,ENST00000417362,;C16orf62,intron_variant,,ENST00000448695,;C16orf62,intron_variant,,ENST00000513947,;C16orf62,intron_variant,,ENST00000538552,;C16orf62,intron_variant,,ENST00000540101,;C16orf62,intron_variant,,ENST00000535164,;C16orf62,intron_variant,,ENST00000539705,;C16orf62,intron_variant,,ENST00000541153,;"	"AAT"	"ENSG00000103544"	"ENST00000438132"	"Transcript"	"intron_variant"	"-/3855"	"-/3159"	"-/1052"	""	""	"rs141641213"	"1"	NA	1	"C16orf62"	"HGNC"	24641	"protein_coding"	"YES"	"CCDS32397.2"	"ENSP00000400815"	""	"I3L1U5,H3BV68,E7EWW0"	"UPI0001E1129C"	"NM_020314.5"	NA	NA	""	"12/30"	""	"AATAATAAT:0.0565"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"30"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"473eb29a-2764-11e6-a260-9cdd414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170731707317073	"WXS"	FALSE
"1023"	"PALB2"	79728	"mskcc.org"	"GRCh37"	"16"	23645961	23645972	"+"	"Intron"	"DEL"	"TTTATTTATTTA"	"TTTATTTATTTA"	"-"	"rs150221261"	NA	"JHCCPT1"	"JHCCPN1"	"TTTATTTATTTA"	"TTTATTTATTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1684+211_1684+222delTAAATAAATAAA"	""	""	"ENST00000261584"	""	6	"."	3	3	"."	0	"PALB2,intron_variant,,ENST00000261584,NM_024675.3;PALB2,downstream_gene_variant,,ENST00000561514,;PALB2,intron_variant,,ENST00000568219,;PALB2,intron_variant,,ENST00000565038,;PALB2,downstream_gene_variant,,ENST00000567003,;"	"-"	"ENSG00000083093"	"ENST00000261584"	"Transcript"	"intron_variant"	"-/4003"	"-/3561"	"-/1186"	""	""	"rs150221261"	"1"	NA	-1	"PALB2"	"HGNC"	26144	"protein_coding"	"YES"	"CCDS32406.1"	"ENSP00000261584"	"Q86YC2"	""	"UPI000000DA86"	"NM_024675.3"	NA	NA	""	"4/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTTTTATTTATTTAT"	"35135fa8-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	TRUE
"1024"	"PRKCB"	5579	"mskcc.org"	"GRCh37"	"16"	24130917	24130918	"+"	"Intron"	"INS"	"-"	"TGGGG"	"TGGGG"	"rs200621064"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.919-4238_919-4234dupTGGGG"	""	""	"ENST00000303531"	""	8	"."	6	1	"."	0	"PRKCB,intron_variant,,ENST00000303531,NM_002738.6;PRKCB,intron_variant,,ENST00000321728,NM_212535.2;"	"TGGGG"	"ENSG00000166501"	"ENST00000303531"	"Transcript"	"intron_variant"	"-/7969"	"-/2022"	"-/673"	""	""	"rs200621064"	"1"	NA	1	"PRKCB"	"HGNC"	9395	"protein_coding"	"YES"	"CCDS10619.1"	"ENSP00000305355"	"P05771"	"I3L1Z0"	"UPI000002ACF9"	"NM_002738.6"	NA	NA	""	"8/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"47c42f92-2764-11e6-a260-9cdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"1025"	"RP11-266L9.4"	0	"mskcc.org"	"GRCh37"	"16"	25038504	25038505	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"rs36108111"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000575694"	""	7	"."	4	1	"."	0	"RP11-266L9.4,upstream_gene_variant,,ENST00000575694,;"	"T"	"ENSG00000262587"	"ENST00000575694"	"Transcript"	"upstream_gene_variant"	"-/574"	""	""	""	""	"rs36108111"	"1"	"4697"	1	"RP11-266L9.4"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4637"	"T:0.3517"	"T:0.4813"	NA	"T:0.6478"	"T:0.6561"	"T:0.5869"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"47f1653e-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1026"	"C16orf82"	0	"mskcc.org"	"GRCh37"	"16"	27076382	27076383	"+"	"5'Flank"	"INS"	"-"	"-"	"AGCCGATGACCTGGGGTCAGG"	"rs11268410"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000505035"	""	6	"."	3	2	"."	0	"C16orf82,upstream_gene_variant,,ENST00000505035,;C16orf82,upstream_gene_variant,,ENST00000418886,;RP11-673P17.2,downstream_gene_variant,,ENST00000565783,;"	"AGCCGATGACCTGGGGTCAGG"	"ENSG00000234186"	"ENST00000505035"	"Transcript"	"upstream_gene_variant"	"-/2459"	""	""	""	""	"rs11268410"	"1"	"1645"	1	"C16orf82"	"HGNC"	30755	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0984"	"AGCCGATGACCTGGGGTCAGG:0.711"	"AGCCGATGACCTGGGGTCAGG:0.9568"	NA	"AGCCGATGACCTGGGGTCAGG:0.996"	"AGCCGATGACCTGGGGTCAGG:0.9563"	"AGCCGATGACCTGGGGTCAGG:0.9663"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"482d6930-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1027"	"GSG1L"	146395	"mskcc.org"	"GRCh37"	"16"	27958862	27958897	"+"	"Intron"	"DEL"	"GAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAA"	"GAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAA"	"-"	"rs773407925"	NA	"JHCCPT1"	"JHCCPN1"	"GAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAA"	"GAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.397+15580_397+15615delTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTC"	""	""	"ENST00000447459"	""	10	"."	3	4	"."	0	"GSG1L,intron_variant,,ENST00000380898,;GSG1L,intron_variant,,ENST00000447459,NM_001109763.1;GSG1L,intron_variant,,ENST00000395724,;GSG1L,intron_variant,,ENST00000562611,;"	"-"	"ENSG00000169181"	"ENST00000447459"	"Transcript"	"intron_variant"	"-/4916"	"-/996"	"-/331"	""	""	"rs773407925"	"1"	NA	-1	"GSG1L"	"HGNC"	28283	"protein_coding"	"YES"	"CCDS45450.1"	"ENSP00000394954"	"Q6UXU4"	""	"UPI0000EE765B"	"NM_001109763.1"	NA	NA	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAG"	"3581486a-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1028"	"SULT1A1"	6817	"mskcc.org"	"GRCh37"	"16"	28618894	28618894	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs145414314"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.373-496delC"	""	""	"ENST00000395609"	""	31	"."	4	14	"."	0	"SULT1A1,intron_variant,,ENST00000395609,;SULT1A1,intron_variant,,ENST00000395607,NM_177534.2,NM_177530.2;SULT1A1,intron_variant,,ENST00000350842,NM_177536.3;SULT1A1,intron_variant,,ENST00000314752,NM_177529.2,NM_001055.3;SULT1A1,intron_variant,,ENST00000569554,;SULT1A1,intron_variant,,ENST00000566189,;SULT1A1,intron_variant,,ENST00000567512,;SULT1A1,non_coding_transcript_exon_variant,,ENST00000567998,;SULT1A1,intron_variant,,ENST00000562058,;SULT1A1,intron_variant,,ENST00000564818,;SULT1A1,intron_variant,,ENST00000563493,;"	"-"	"ENSG00000196502"	"ENST00000395609"	"Transcript"	"intron_variant"	"-/1871"	"-/888"	"-/295"	""	""	"rs145414314"	"1"	NA	-1	"SULT1A1"	"HGNC"	11453	"protein_coding"	"YES"	"CCDS32420.1"	"ENSP00000378972"	"P50225"	"Q9UMT9,H3BRY5"	"UPI000013EA41"	""	NA	NA	""	"6/9"	""	"-:0.0639"	"-:0.0015"	"-:0.0951"	NA	"-:0.1845"	"-:0.0328"	"-:0.0337"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"35a7d50c-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WXS"	FALSE
"1029"	"RP11-426C22.5"	0	"mskcc.org"	"GRCh37"	"16"	29143383	29143386	"+"	"Intron"	"DEL"	"TGTT"	"TGTT"	"-"	"rs144214242"	NA	"JHCCPT1"	"JHCCPN1"	"TGTT"	"TGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.200+15738_200+15741delTTTG"	""	""	"ENST00000562902"	""	6	"."	4	2	"."	0	"RP11-426C22.5,intron_variant,,ENST00000562902,;"	"-"	"ENSG00000260517"	"ENST00000562902"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/580"	""	""	""	""	"rs144214242"	"1"	NA	1	"RP11-426C22.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.1478"	"-:0.093"	"-:0.2363"	NA	"-:0.004"	"-:0.1928"	"-:0.2607"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATGTTT"	"35d90c62-2764-11e6-a260-9cdd414a729f"	"208"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1030"	"STX1B"	112755	"mskcc.org"	"GRCh37"	"16"	31024697	31024734	"+"	"5'Flank"	"DEL"	"TCTTCTTCTTCTTCTTTTCTTCTTCTTCTTCCTCTTCC"	"TCTTCTTCTTCTTCTTTTCTTCTTCTTCTTCCTCTTCC"	"-"	"rs760959320"	NA	"JHCCPT1"	"JHCCPN1"	"TCTTCTTCTTCTTCTTTTCTTCTTCTTCTTCCTCTTCC"	"TCTTCTTCTTCTTCTTTTCTTCTTCTTCTTCCTCTTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000215095"	""	24	"."	4	25	"."	0	"STX1B,upstream_gene_variant,,ENST00000215095,NM_052874.3;STX1B,upstream_gene_variant,,ENST00000565419,;STX1B,upstream_gene_variant,,ENST00000561836,;"	"-"	"ENSG00000099365"	"ENST00000215095"	"Transcript"	"upstream_gene_variant"	"-/4664"	"-/867"	"-/288"	""	""	"rs760959320"	"1"	"2748"	-1	"STX1B"	"HGNC"	18539	"protein_coding"	"YES"	"CCDS10699.1"	"ENSP00000215095"	"P61266"	"H3BT82"	"UPI0000000C13"	"NM_052874.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTTCTTCTTCTTCTTCTTTTCTTCTTCTTCTTCCTCTTCCT"	"36b6273c-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"1031"	"RP11-293B20.3"	0	"mskcc.org"	"GRCh37"	"16"	33374050	33379405	"+"	"5'Flank"	"DEL"	"CGGGTCTGTGCTGAGGAAAACACTGCTCCGCCTTCGCTGTATCTCCGAAGTCTGTGCAGAGGAGAACTCAGCTCGCCCTCACGATGCAATCTGGGTCTGTGCTGAGGAGAGCGCAGCTCCGCCCTCGCAAAGGCGCACAGCGCGGGCGCAGGCGCAGAGAGGCGCACATTTTATGAATAGCAAATCAATTTCTCCCTGTTCCTCTTACATCGAGGCTGGACACACGTTTACAGGGGATCAGTGTGAAGGGAAGCTGGTGAGGCTGCCTGAGAAGCCCCCTGCCTGCGTCTCCCAGTGGACTCCTTGGGAGCGCCCCCTCCCCTGCTCTGCCCAACAGCGCCTGAACTGTGGCCACTTGCACTCCTGTTGCCTACCCAGTGGCTTGAACTCCAGAACTTGCCACCCTTCAGTGGAATTCCTGGAGGAGTGAGGAGCTCTGTGCTATGCTTGGCCACCGAACATGGGCCATCTCTCCTATTATGGTTTGAAATGTACCGTAGTGTCTTGTTTGGTAATTGTATAATAATATGGGGAGACTGTGCGGGTGTCTGCTAGCTTGTCTGCTGGTTCTTACTCATGGTGCCTTCTTCCCTTTCAGACTTGGATATCTTTGTGTGCTTCTTGGGGCCCTTGGAAGGGTGTCTGTGGGGTTTCCGTGAGGCCAAAGACAGAGGTTCCTTCTCACGAGGATGGTGTTTGCTTTCACATGGACAGCCCAGACCACCTGGAACCAAGTGCACAGAAGCCCCACCATCCCCGGGCCTCCCAGTTGTGATGGGTGAGCGGTCCAAGTCCGCAGGAGGCCAGAGGCTCTTTGTGGTTGAATCTGTGAGTTTCCTTTCCTTTTTCCCTCCCACTCCTTTTAATGCTAATGAATTCCTTGTTTGGGGGCAGGGGCCAGGGTTATCTCTTCTTCTGTCTTCACCCAAGGTGAGGCCTTTCAGGCTCCCAGCTTGATATGGGGGTGAATCCCCTATCAGCCTCCTCATACCTTGACCTCTGTCTACCCCCCTACTCCCTCCAAGGTCGAAGCCCAACTTGCCAGGTTGGCAAATGCTCACAGGCAACAATGGCCCCAGCGCTCCTCCCTAGGTTCTTGATTTTCCCCTGAAACTTGGCCTGGAGGTTTCCTACTAGCTTAGCAGCCCTTTGATGCTTTTAACGTAATTTTGTTATTATTTTATCCAAAATTCTTGCTTGTTTTAAGAGGGAAAGCAGGTCGGCCATTACTGCACAGAGAATCTGGGACAGTTATTATAACCATAGAAATTTATTTTCCATGTGCTGTCCCATCTTCTTGATGAGACAGATGTTTAACAGCTGGAGAACTGGACCCCGTATTTGTCCCCATCTTGCCTAGCAACAGAAGGTAGTCACTAATCAGGGATTTTCGAGCCCATTGCTTAAGGCCTTCATTGACCCAAAGGATAGTGGGTCCCTGCTCCTCTTCCTGCGGAGAGGCCCAGGTGCCCAGAGGGCCCTCCTGGCTTGGCTGCCTACAGAGTGGCTGATGAAGTGTCCGCTGTGCGCACAGGACACCCAGCCCCACTCCTCCCCAGGCAGCCCCTCAAACAGCTGTTGCTCTGCCTGCTTCGGCTGTGGACCTGAGGCTGAGAGGCTGAGCCATCGCCCTGAGCCGCATGCAGGGGAGTGGCAGGCCTGGACCCAGTGCCCAGACCTGGCTCACCTGACCTTACTTTTTCCACTGTGCCTGCTTCTCCCTCCCAGGCTCTGTGACCTTGGGCAGCCATGGCCATCCTGTGCCCATTCCCAGCTGTAAAATGAGAGGCTGGGCTGGCTGATCTCAAATGTCCCCTGCCAGCCTGAGATTCTGTGTTGTGTCCTGGGGTGTGACTGTGACATGCCACCAAAGGCAGCTGCCAGTGCTCATGAGGGAGGCCTTTTTCCTGAGTTAAGGCAGGTGGGGGGACTGGGGGTGAGTTGAGGGACTGGGAGGTGGGGGAAGCACACAGACAGTCCTCCCCAGCTGAGCGCTCATGGTGAATTACCTTCAGTCCCAGGCTCAGTGCTTTGGAAATGCTCTCAGGCCCAGCACCCAGGCCTGGAACCAGCCTCCAGGCCCCTGGCCCTCCCTTTCTCTACTGGAATCTTCCAGACCGAGGCAGGTCAGCTGAAAGTCACCGACTCTGCCTTCCACAAACTCATAGCTGACAGACCATTCCATGTCCCCTCCCAGCCCCGTCCCAGGAGCGGAACTCACTTTGCCTTCCCACCCTCCAGGCCGACTCACTGTCCGTCACTCTCTGGGTCCCACCCACTGTCCCACCGACTTCATTGGTCTAAAAATATGCTCTGGCATCTTGTTGGAAAGCAGCAGGAATGATGGGCCCTGCTGATAAGGTGAAGAAAGTGACCCGAGGGGGCAAACTTACGGACGGGACATACTTTGGCAAAACAACAAAACAGCGGGACCTGAAGGCTGGCTTCCCAAGCGTCCTCAAGGCCTTGTGCCAGGAACAGGACCCTCGGGCTTAGGAAAGTGAAAACCAGGCTCAGGTCCCTCACCCAGACCCTTCTGCCCGCTTTGGGAGGGAGCCCAAGAAGTCAGCTAGGGAGGGACCTCCCGGTGGGACCTGAGTCCTGATTGGAACTTTCTGGGGGCTTTCTTGGCATTTTACGTGTGTTGTCACAACTCCTTGATGGGAGAATTAAGCATGGTCTGTGGGATTCCACTGGGAGAGGACCCCTAAAAGCCTGGGCCGGGCCTCCTCCCAATTTCACCCCATATGCCTTTCCCTTTGCTCATTATGCTTTGTGTCTTTTGCTGTAGTAAACCGTAGCCATGACTTTTGCAAGTCCTCCTAGATTAACACTGAACTTGGGGGTGGTTTTAGGGACCCTGACGTACCTATGGATGTCAACTTGCTTTAGCACTATTTGTTGAAACAATAATCTTTTCCACATTGAATTGATTTGGCACTTTTGTTCAAAATCAATTGTAAAGATTTGCTACATGAATGTAAACATTTATTCCTGGACTCTTTTGTTGTTTTTTTCATGAGATGGAGTCTCGCTCTATCACCCAGGCTGGAGTGCAGTGGTGCAATCTCAGCTCACTGCAAGCTCCGCCTCCTGGATTCACACCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCCCACCACCACACCCGCCACCACGCTCTACTAAAAATACAATTTTTTTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTCAGCCCGGATGGTCTCGATCTCCTGACCTCGTGATCCATCCGTCTTGGCCTCCCAAAGTCCTGGGATTACAGGCATGAGCTACCACACCTGGCCTATTCCTGGACTCTTATTCTGTTTAATTGCCTATTTTTATGTCAGTACCATGCTATCTTGATGACTATGGCTTCTTAGTAAGTTTATTTTTTATTTTTTATTCTTTTTGGGGATGGAGTTTCTCTCTTGTTGCCCAGGCTGGAGTGCAGTGGTGTGATCTTGGCTCACTGCAACCTCTGCCTTCCAGGTTCAAGTGATTCTCCTGCATCAGGCTCGCGAGTAGCTGGGATTATATGCGTCTGCCACCACACCTGGCTAATTTTTTTGTATTTTTAGTAGAGATGGGGTTTCACTGTGTTGACTAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCTACCCGCCTCAGCCTCCCAAAGTGCTAGGATTACAGACATGAGCCACCATGCCCAGCCCAGCTTCTTAGTAAATTTTAAAATCAATATGTTTTCCAACTCTGTTCTTATTTTTCAAAATTATTTTGCCTATTGTAGGTTTTTTTTTTGCATTTCCATTCAGCTTGCCGAGTTTTATTAAAAAGGTTACTGGGATTTTGATTGAGGTTGCATTGAATGAATGTACCAACTAAGGAGGCTTGACATCTTGACAATAATGAGCCTTCCCATCCGTAAACATGGAATAGCTCTTCTTTTAATATATCTCAGCATTGTTTTGTAGTTTTCAGTTTACATGTCTTGTGATTCTTTTGTTTATTCCTGAGTATTTTATTCTTTTTGATGCTATTGTGAATGGAATGGTTTTCTCAGTTTCAAGATTGTTCAGTGCTATTATATAGAAATTGAATTGGCCAGGCACAGTGGCTCATGCCTGTAATCTCAGCACTTTGGGAGGCTGAGGCAGGAAGATTGCTTGAGCCCAGGATTTCTGGGCCAGCCTGGGCAACATAGTGAGACTCCATCTCTACAAAAAAAATACAAAAATCAGCCAGCGTGGTGGTGTGCACCTGTAGTTCCAGCTCCTTGGGAGGCTGAGGCTGGAGGATGGCTTCAGCCTGGGAAGTTGAGGCTGTAGTAAGCCATAATGGTGGCATTGCACTCCAGCCTAGGTGACAGAGTGATACCCTGTCTAGAGAAAAAAAAAAAGAATTGATTTTTGTATATTGATTATACCCTGTGACCTTGCTAAATTTATTAGTACTAATATTTATTTTATGGATGCCTTAGGATTTTCTATATATAAGATAATGCCATCTGTAAATAAAGACAGTTTTATTTTTTCCTTTCTAATCTGGATGCCTTTAATTTCTTTATTTGCCTCATTGATTAGAAATAGCAAAAGTGGGCATCTTTGCCTTGTTTGTGGTGAGAAGAGGAAAGCAGTCATTCACCACAAAGTGTGATGTTAACTGTGGGTTTTTATAGGTGTCTTTTATCAGATTTCATAAATTCTCTTTTATTTCTACTTTGTTGAGAATTTTTATTATGAATCTGTGATGGATTTTGTCATATAGTTTTTCCAATATCTGTTGAAGTCACCATGTGTTTTTTGTCCTTTATTCTGTTAATATAATATATTATATTGATTTTCAGATGTTAAACCTACCTTGCATTCCTGGGATAAATCCCACTTAGTTATGGTGTATAATCCTATTTATATGTTGCTAGGCTTGGGTTGCTAATACTAGTTTACAGAATGAATTGGGAAGCATTACCTCTCCCTTCATTTTCTCATTCATTTATTTTATTTTACTATCATATATATATATATATATAATTTCATATTATCTTATTTTAGTTTTTAGAGACAGTGTCTTGCCCTGTCACCCAGGCTGGATTGCGGTGGTGTGATCATAGTTCACTGCAGTATCAACCTCCTGGACTCAAGCGATCCTCCTGCCTGGGACTATAGGCATGCACCACCATGCCCAGCTAATCATCCATTTCTTTCTTTTTTTAAAACAAATTTTATGTTTATTTATTTATTTATTTGGATTTCTCCTACCGAAAGGAATCATTCTTTTTTTTTTTTTTTTTTTTTTGAGAGGGAGCCTTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGCACAATCTCAG"	"CGGGTCTGTGCTGAGGAAAACACTGCTCCGCCTTCGCTGTATCTCCGAAGTCTGTGCAGAGGAGAACTCAGCTCGCCCTCACGATGCAATCTGGGTCTGTGCTGAGGAGAGCGCAGCTCCGCCCTCGCAAAGGCGCACAGCGCGGGCGCAGGCGCAGAGAGGCGCACATTTTATGAATAGCAAATCAATTTCTCCCTGTTCCTCTTACATCGAGGCTGGACACACGTTTACAGGGGATCAGTGTGAAGGGAAGCTGGTGAGGCTGCCTGAGAAGCCCCCTGCCTGCGTCTCCCAGTGGACTCCTTGGGAGCGCCCCCTCCCCTGCTCTGCCCAACAGCGCCTGAACTGTGGCCACTTGCACTCCTGTTGCCTACCCAGTGGCTTGAACTCCAGAACTTGCCACCCTTCAGTGGAATTCCTGGAGGAGTGAGGAGCTCTGTGCTATGCTTGGCCACCGAACATGGGCCATCTCTCCTATTATGGTTTGAAATGTACCGTAGTGTCTTGTTTGGTAATTGTATAATAATATGGGGAGACTGTGCGGGTGTCTGCTAGCTTGTCTGCTGGTTCTTACTCATGGTGCCTTCTTCCCTTTCAGACTTGGATATCTTTGTGTGCTTCTTGGGGCCCTTGGAAGGGTGTCTGTGGGGTTTCCGTGAGGCCAAAGACAGAGGTTCCTTCTCACGAGGATGGTGTTTGCTTTCACATGGACAGCCCAGACCACCTGGAACCAAGTGCACAGAAGCCCCACCATCCCCGGGCCTCCCAGTTGTGATGGGTGAGCGGTCCAAGTCCGCAGGAGGCCAGAGGCTCTTTGTGGTTGAATCTGTGAGTTTCCTTTCCTTTTTCCCTCCCACTCCTTTTAATGCTAATGAATTCCTTGTTTGGGGGCAGGGGCCAGGGTTATCTCTTCTTCTGTCTTCACCCAAGGTGAGGCCTTTCAGGCTCCCAGCTTGATATGGGGGTGAATCCCCTATCAGCCTCCTCATACCTTGACCTCTGTCTACCCCCCTACTCCCTCCAAGGTCGAAGCCCAACTTGCCAGGTTGGCAAATGCTCACAGGCAACAATGGCCCCAGCGCTCCTCCCTAGGTTCTTGATTTTCCCCTGAAACTTGGCCTGGAGGTTTCCTACTAGCTTAGCAGCCCTTTGATGCTTTTAACGTAATTTTGTTATTATTTTATCCAAAATTCTTGCTTGTTTTAAGAGGGAAAGCAGGTCGGCCATTACTGCACAGAGAATCTGGGACAGTTATTATAACCATAGAAATTTATTTTCCATGTGCTGTCCCATCTTCTTGATGAGACAGATGTTTAACAGCTGGAGAACTGGACCCCGTATTTGTCCCCATCTTGCCTAGCAACAGAAGGTAGTCACTAATCAGGGATTTTCGAGCCCATTGCTTAAGGCCTTCATTGACCCAAAGGATAGTGGGTCCCTGCTCCTCTTCCTGCGGAGAGGCCCAGGTGCCCAGAGGGCCCTCCTGGCTTGGCTGCCTACAGAGTGGCTGATGAAGTGTCCGCTGTGCGCACAGGACACCCAGCCCCACTCCTCCCCAGGCAGCCCCTCAAACAGCTGTTGCTCTGCCTGCTTCGGCTGTGGACCTGAGGCTGAGAGGCTGAGCCATCGCCCTGAGCCGCATGCAGGGGAGTGGCAGGCCTGGACCCAGTGCCCAGACCTGGCTCACCTGACCTTACTTTTTCCACTGTGCCTGCTTCTCCCTCCCAGGCTCTGTGACCTTGGGCAGCCATGGCCATCCTGTGCCCATTCCCAGCTGTAAAATGAGAGGCTGGGCTGGCTGATCTCAAATGTCCCCTGCCAGCCTGAGATTCTGTGTTGTGTCCTGGGGTGTGACTGTGACATGCCACCAAAGGCAGCTGCCAGTGCTCATGAGGGAGGCCTTTTTCCTGAGTTAAGGCAGGTGGGGGGACTGGGGGTGAGTTGAGGGACTGGGAGGTGGGGGAAGCACACAGACAGTCCTCCCCAGCTGAGCGCTCATGGTGAATTACCTTCAGTCCCAGGCTCAGTGCTTTGGAAATGCTCTCAGGCCCAGCACCCAGGCCTGGAACCAGCCTCCAGGCCCCTGGCCCTCCCTTTCTCTACTGGAATCTTCCAGACCGAGGCAGGTCAGCTGAAAGTCACCGACTCTGCCTTCCACAAACTCATAGCTGACAGACCATTCCATGTCCCCTCCCAGCCCCGTCCCAGGAGCGGAACTCACTTTGCCTTCCCACCCTCCAGGCCGACTCACTGTCCGTCACTCTCTGGGTCCCACCCACTGTCCCACCGACTTCATTGGTCTAAAAATATGCTCTGGCATCTTGTTGGAAAGCAGCAGGAATGATGGGCCCTGCTGATAAGGTGAAGAAAGTGACCCGAGGGGGCAAACTTACGGACGGGACATACTTTGGCAAAACAACAAAACAGCGGGACCTGAAGGCTGGCTTCCCAAGCGTCCTCAAGGCCTTGTGCCAGGAACAGGACCCTCGGGCTTAGGAAAGTGAAAACCAGGCTCAGGTCCCTCACCCAGACCCTTCTGCCCGCTTTGGGAGGGAGCCCAAGAAGTCAGCTAGGGAGGGACCTCCCGGTGGGACCTGAGTCCTGATTGGAACTTTCTGGGGGCTTTCTTGGCATTTTACGTGTGTTGTCACAACTCCTTGATGGGAGAATTAAGCATGGTCTGTGGGATTCCACTGGGAGAGGACCCCTAAAAGCCTGGGCCGGGCCTCCTCCCAATTTCACCCCATATGCCTTTCCCTTTGCTCATTATGCTTTGTGTCTTTTGCTGTAGTAAACCGTAGCCATGACTTTTGCAAGTCCTCCTAGATTAACACTGAACTTGGGGGTGGTTTTAGGGACCCTGACGTACCTATGGATGTCAACTTGCTTTAGCACTATTTGTTGAAACAATAATCTTTTCCACATTGAATTGATTTGGCACTTTTGTTCAAAATCAATTGTAAAGATTTGCTACATGAATGTAAACATTTATTCCTGGACTCTTTTGTTGTTTTTTTCATGAGATGGAGTCTCGCTCTATCACCCAGGCTGGAGTGCAGTGGTGCAATCTCAGCTCACTGCAAGCTCCGCCTCCTGGATTCACACCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCCCACCACCACACCCGCCACCACGCTCTACTAAAAATACAATTTTTTTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTCAGCCCGGATGGTCTCGATCTCCTGACCTCGTGATCCATCCGTCTTGGCCTCCCAAAGTCCTGGGATTACAGGCATGAGCTACCACACCTGGCCTATTCCTGGACTCTTATTCTGTTTAATTGCCTATTTTTATGTCAGTACCATGCTATCTTGATGACTATGGCTTCTTAGTAAGTTTATTTTTTATTTTTTATTCTTTTTGGGGATGGAGTTTCTCTCTTGTTGCCCAGGCTGGAGTGCAGTGGTGTGATCTTGGCTCACTGCAACCTCTGCCTTCCAGGTTCAAGTGATTCTCCTGCATCAGGCTCGCGAGTAGCTGGGATTATATGCGTCTGCCACCACACCTGGCTAATTTTTTTGTATTTTTAGTAGAGATGGGGTTTCACTGTGTTGACTAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCTACCCGCCTCAGCCTCCCAAAGTGCTAGGATTACAGACATGAGCCACCATGCCCAGCCCAGCTTCTTAGTAAATTTTAAAATCAATATGTTTTCCAACTCTGTTCTTATTTTTCAAAATTATTTTGCCTATTGTAGGTTTTTTTTTTGCATTTCCATTCAGCTTGCCGAGTTTTATTAAAAAGGTTACTGGGATTTTGATTGAGGTTGCATTGAATGAATGTACCAACTAAGGAGGCTTGACATCTTGACAATAATGAGCCTTCCCATCCGTAAACATGGAATAGCTCTTCTTTTAATATATCTCAGCATTGTTTTGTAGTTTTCAGTTTACATGTCTTGTGATTCTTTTGTTTATTCCTGAGTATTTTATTCTTTTTGATGCTATTGTGAATGGAATGGTTTTCTCAGTTTCAAGATTGTTCAGTGCTATTATATAGAAATTGAATTGGCCAGGCACAGTGGCTCATGCCTGTAATCTCAGCACTTTGGGAGGCTGAGGCAGGAAGATTGCTTGAGCCCAGGATTTCTGGGCCAGCCTGGGCAACATAGTGAGACTCCATCTCTACAAAAAAAATACAAAAATCAGCCAGCGTGGTGGTGTGCACCTGTAGTTCCAGCTCCTTGGGAGGCTGAGGCTGGAGGATGGCTTCAGCCTGGGAAGTTGAGGCTGTAGTAAGCCATAATGGTGGCATTGCACTCCAGCCTAGGTGACAGAGTGATACCCTGTCTAGAGAAAAAAAAAAAGAATTGATTTTTGTATATTGATTATACCCTGTGACCTTGCTAAATTTATTAGTACTAATATTTATTTTATGGATGCCTTAGGATTTTCTATATATAAGATAATGCCATCTGTAAATAAAGACAGTTTTATTTTTTCCTTTCTAATCTGGATGCCTTTAATTTCTTTATTTGCCTCATTGATTAGAAATAGCAAAAGTGGGCATCTTTGCCTTGTTTGTGGTGAGAAGAGGAAAGCAGTCATTCACCACAAAGTGTGATGTTAACTGTGGGTTTTTATAGGTGTCTTTTATCAGATTTCATAAATTCTCTTTTATTTCTACTTTGTTGAGAATTTTTATTATGAATCTGTGATGGATTTTGTCATATAGTTTTTCCAATATCTGTTGAAGTCACCATGTGTTTTTTGTCCTTTATTCTGTTAATATAATATATTATATTGATTTTCAGATGTTAAACCTACCTTGCATTCCTGGGATAAATCCCACTTAGTTATGGTGTATAATCCTATTTATATGTTGCTAGGCTTGGGTTGCTAATACTAGTTTACAGAATGAATTGGGAAGCATTACCTCTCCCTTCATTTTCTCATTCATTTATTTTATTTTACTATCATATATATATATATATATAATTTCATATTATCTTATTTTAGTTTTTAGAGACAGTGTCTTGCCCTGTCACCCAGGCTGGATTGCGGTGGTGTGATCATAGTTCACTGCAGTATCAACCTCCTGGACTCAAGCGATCCTCCTGCCTGGGACTATAGGCATGCACCACCATGCCCAGCTAATCATCCATTTCTTTCTTTTTTTAAAACAAATTTTATGTTTATTTATTTATTTATTTGGATTTCTCCTACCGAAAGGAATCATTCTTTTTTTTTTTTTTTTTTTTTTGAGAGGGAGCCTTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGCACAATCTCAG"	"TTTAGGT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CGGGTCTGTGCTGAGGAAAACACTGCTCCGCCTTCGCTGTATCTCCGAAGTCTGTGCAGAGGAGAACTCAGCTCGCCCTCACGATGCAATCTGGGTCTGTGCTGAGGAGAGCGCAGCTCCGCCCTCGCAAAGGCGCACAGCGCGGGCGCAGGCGCAGAGAGGCGCACATTTTATGAATAGCAAATCAATTTCTCCCTGTTCCTCTTACATCGAGGCTGGACACACGTTTACAGGGGATCAGTGTGAAGGGAAGCTGGTGAGGCTGCCTGAGAAGCCCCCTGCCTGCGTCTCCCAGTGGACTCCTTGGGAGCGCCCCCTCCCCTGCTCTGCCCAACAGCGCCTGAACTGTGGCCACTTGCACTCCTGTTGCCTACCCAGTGGCTTGAACTCCAGAACTTGCCACCCTTCAGTGGAATTCCTGGAGGAGTGAGGAGCTCTGTGCTATGCTTGGCCACCGAACATGGGCCATCTCTCCTATTATGGTTTGAAATGTACCGTAGTGTCTTGTTTGGTAATTGTATAATAATATGGGGAGACTGTGCGGGTGTCTGCTAGCTTGTCTGCTGGTTCTTACTCATGGTGCCTTCTTCCCTTTCAGACTTGGATATCTTTGTGTGCTTCTTGGGGCCCTTGGAAGGGTGTCTGTGGGGTTTCCGTGAGGCCAAAGACAGAGGTTCCTTCTCACGAGGATGGTGTTTGCTTTCACATGGACAGCCCAGACCACCTGGAACCAAGTGCACAGAAGCCCCACCATCCCCGGGCCTCCCAGTTGTGATGGGTGAGCGGTCCAAGTCCGCAGGAGGCCAGAGGCTCTTTGTGGTTGAATCTGTGAGTTTCCTTTCCTTTTTCCCTCCCACTCCTTTTAATGCTAATGAATTCCTTGTTTGGGGGCAGGGGCCAGGGTTATCTCTTCTTCTGTCTTCACCCAAGGTGAGGCCTTTCAGGCTCCCAGCTTGATATGGGGGTGAATCCCCTATCAGCCTCCTCATACCTTGACCTCTGTCTACCCCCCTACTCCCTCCAAGGTCGAAGCCCAACTTGCCAGGTTGGCAAATGCTCACAGGCAACAATGGCCCCAGCGCTCCTCCCTAGGTTCTTGATTTTCCCCTGAAACTTGGCCTGGAGGTTTCCTACTAGCTTAGCAGCCCTTTGATGCTTTTAACGTAATTTTGTTATTATTTTATCCAAAATTCTTGCTTGTTTTAAGAGGGAAAGCAGGTCGGCCATTACTGCACAGAGAATCTGGGACAGTTATTATAACCATAGAAATTTATTTTCCATGTGCTGTCCCATCTTCTTGATGAGACAGATGTTTAACAGCTGGAGAACTGGACCCCGTATTTGTCCCCATCTTGCCTAGCAACAGAAGGTAGTCACTAATCAGGGATTTTCGAGCCCATTGCTTAAGGCCTTCATTGACCCAAAGGATAGTGGGTCCCTGCTCCTCTTCCTGCGGAGAGGCCCAGGTGCCCAGAGGGCCCTCCTGGCTTGGCTGCCTACAGAGTGGCTGATGAAGTGTCCGCTGTGCGCACAGGACACCCAGCCCCACTCCTCCCCAGGCAGCCCCTCAAACAGCTGTTGCTCTGCCTGCTTCGGCTGTGGACCTGAGGCTGAGAGGCTGAGCCATCGCCCTGAGCCGCATGCAGGGGAGTGGCAGGCCTGGACCCAGTGCCCAGACCTGGCTCACCTGACCTTACTTTTTCCACTGTGCCTGCTTCTCCCTCCCAGGCTCTGTGACCTTGGGCAGCCATGGCCATCCTGTGCCCATTCCCAGCTGTAAAATGAGAGGCTGGGCTGGCTGATCTCAAATGTCCCCTGCCAGCCTGAGATTCTGTGTTGTGTCCTGGGGTGTGACTGTGACATGCCACCAAAGGCAGCTGCCAGTGCTCATGAGGGAGGCCTTTTTCCTGAGTTAAGGCAGGTGGGGGGACTGGGGGTGAGTTGAGGGACTGGGAGGTGGGGGAAGCACACAGACAGTCCTCCCCAGCTGAGCGCTCATGGTGAATTACCTTCAGTCCCAGGCTCAGTGCTTTGGAAATGCTCTCAGGCCCAGCACCCAGGCCTGGAACCAGCCTCCAGGCCCCTGGCCCTCCCTTTCTCTACTGGAATCTTCCAGACCGAGGCAGGTCAGCTGAAAGTCACCGACTCTGCCTTCCACAAACTCATAGCTGACAGACCATTCCATGTCCCCTCCCAGCCCCGTCCCAGGAGCGGAACTCACTTTGCCTTCCCACCCTCCAGGCCGACTCACTGTCCGTCACTCTCTGGGTCCCACCCACTGTCCCACCGACTTCATTGGTCTAAAAATATGCTCTGGCATCTTGTTGGAAAGCAGCAGGAATGATGGGCCCTGCTGATAAGGTGAAGAAAGTGACCCGAGGGGGCAAACTTACGGACGGGACATACTTTGGCAAAACAACAAAACAGCGGGACCTGAAGGCTGGCTTCCCAAGCGTCCTCAAGGCCTTGTGCCAGGAACAGGACCCTCGGGCTTAGGAAAGTGAAAACCAGGCTCAGGTCCCTCACCCAGACCCTTCTGCCCGCTTTGGGAGGGAGCCCAAGAAGTCAGCTAGGGAGGGACCTCCCGGTGGGACCTGAGTCCTGATTGGAACTTTCTGGGGGCTTTCTTGGCATTTTACGTGTGTTGTCACAACTCCTTGATGGGAGAATTAAGCATGGTCTGTGGGATTCCACTGGGAGAGGACCCCTAAAAGCCTGGGCCGGGCCTCCTCCCAATTTCACCCCATATGCCTTTCCCTTTGCTCATTATGCTTTGTGTCTTTTGCTGTAGTAAACCGTAGCCATGACTTTTGCAAGTCCTCCTAGATTAACACTGAACTTGGGGGTGGTTTTAGGGACCCTGACGTACCTATGGATGTCAACTTGCTTTAGCACTATTTGTTGAAACAATAATCTTTTCCACATTGAATTGATTTGGCACTTTTGTTCAAAATCAATTGTAAAGATTTGCTACATGAATGTAAACATTTATTCCTGGACTCTTTTGTTGTTTTTTTCATGAGATGGAGTCTCGCTCTATCACCCAGGCTGGAGTGCAGTGGTGCAATCTCAGCTCACTGCAAGCTCCGCCTCCTGGATTCACACCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCCCACCACCACACCCGCCACCACGCTCTACTAAAAATACAATTTTTTTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTCAGCCCGGATGGTCTCGATCTCCTGACCTCGTGATCCATCCGTCTTGGCCTCCCAAAGTCCTGGGATTACAGGCATGAGCTACCACACCTGGCCTATTCCTGGACTCTTATTCTGTTTAATTGCCTATTTTTATGTCAGTACCATGCTATCTTGATGACTATGGCTTCTTAGTAAGTTTATTTTTTATTTTTTATTCTTTTTGGGGATGGAGTTTCTCTCTTGTTGCCCAGGCTGGAGTGCAGTGGTGTGATCTTGGCTCACTGCAACCTCTGCCTTCCAGGTTCAAGTGATTCTCCTGCATCAGGCTCGCGAGTAGCTGGGATTATATGCGTCTGCCACCACACCTGGCTAATTTTTTTGTATTTTTAGTAGAGATGGGGTTTCACTGTGTTGACTAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCTACCCGCCTCAGCCTCCCAAAGTGCTAGGATTACAGACATGAGCCACCATGCCCAGCCCAGCTTCTTAGTAAATTTTAAAATCAATATGTTTTCCAACTCTGTTCTTATTTTTCAAAATTATTTTGCCTATTGTAGGTTTTTTTTTTGCATTTCCATTCAGCTTGCCGAGTTTTATTAAAAAGGTTACTGGGATTTTGATTGAGGTTGCATTGAATGAATGTACCAACTAAGGAGGCTTGACATCTTGACAATAATGAGCCTTCCCATCCGTAAACATGGAATAGCTCTTCTTTTAATATATCTCAGCATTGTTTTGTAGTTTTCAGTTTACATGTCTTGTGATTCTTTTGTTTATTCCTGAGTATTTTATTCTTTTTGATGCTATTGTGAATGGAATGGTTTTCTCAGTTTCAAGATTGTTCAGTGCTATTATATAGAAATTGAATTGGCCAGGCACAGTGGCTCATGCCTGTAATCTCAGCACTTTGGGAGGCTGAGGCAGGAAGATTGCTTGAGCCCAGGATTTCTGGGCCAGCCTGGGCAACATAGTGAGACTCCATCTCTACAAAAAAAATACAAAAATCAGCCAGCGTGGTGGTGTGCACCTGTAGTTCCAGCTCCTTGGGAGGCTGAGGCTGGAGGATGGCTTCAGCCTGGGAAGTTGAGGCTGTAGTAAGCCATAATGGTGGCATTGCACTCCAGCCTAGGTGACAGAGTGATACCCTGTCTAGAGAAAAAAAAAAAGAATTGATTTTTGTATATTGATTATACCCTGTGACCTTGCTAAATTTATTAGTACTAATATTTATTTTATGGATGCCTTAGGATTTTCTATATATAAGATAATGCCATCTGTAAATAAAGACAGTTTTATTTTTTCCTTTCTAATCTGGATGCCTTTAATTTCTTTATTTGCCTCATTGATTAGAAATAGCAAAAGTGGGCATCTTTGCCTTGTTTGTGGTGAGAAGAGGAAAGCAGTCATTCACCACAAAGTGTGATGTTAACTGTGGGTTTTTATAGGTGTCTTTTATCAGATTTCATAAATTCTCTTTTATTTCTACTTTGTTGAGAATTTTTATTATGAATCTGTGATGGATTTTGTCATATAGTTTTTCCAATATCTGTTGAAGTCACCATGTGTTTTTTGTCCTTTATTCTGTTAATATAATATATTATATTGATTTTCAGATGTTAAACCTACCTTGCATTCCTGGGATAAATCCCACTTAGTTATGGTGTATAATCCTATTTATATGTTGCTAGGCTTGGGTTGCTAATACTAGTTTACAGAATGAATTGGGAAGCATTACCTCTCCCTTCATTTTCTCATTCATTTATTTTATTTTACTATCATATATATATATATATATAATTTCATATTATCTTATTTTAGTTTTTAGAGACAGTGTCTTGCCCTGTCACCCAGGCTGGATTGCGGTGGTGTGATCATAGTTCACTGCAGTATCAACCTCCTGGACTCAAGCGATCCTCCTGCCTGGGACTATAGGCATGCACCACCATGCCCAGCTAATCATCCATTTCTTTCTTTTTTTAAAACAAATTTTATGTTTATTTATTTATTTATTTGGATTTCTCCTACCGAAAGGAATCATTCTTTTTTTTTTTTTTTTTTTTTTGAGAGGGAGCCTTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGCACAATCTCAG"	"CGGGTCTGTGCTGAGGAAAACACTGCTCCGCCTTCGCTGTATCTCCGAAGTCTGTGCAGAGGAGAACTCAGCTCGCCCTCACGATGCAATCTGGGTCTGTGCTGAGGAGAGCGCAGCTCCGCCCTCGCAAAGGCGCACAGCGCGGGCGCAGGCGCAGAGAGGCGCACATTTTATGAATAGCAAATCAATTTCTCCCTGTTCCTCTTACATCGAGGCTGGACACACGTTTACAGGGGATCAGTGTGAAGGGAAGCTGGTGAGGCTGCCTGAGAAGCCCCCTGCCTGCGTCTCCCAGTGGACTCCTTGGGAGCGCCCCCTCCCCTGCTCTGCCCAACAGCGCCTGAACTGTGGCCACTTGCACTCCTGTTGCCTACCCAGTGGCTTGAACTCCAGAACTTGCCACCCTTCAGTGGAATTCCTGGAGGAGTGAGGAGCTCTGTGCTATGCTTGGCCACCGAACATGGGCCATCTCTCCTATTATGGTTTGAAATGTACCGTAGTGTCTTGTTTGGTAATTGTATAATAATATGGGGAGACTGTGCGGGTGTCTGCTAGCTTGTCTGCTGGTTCTTACTCATGGTGCCTTCTTCCCTTTCAGACTTGGATATCTTTGTGTGCTTCTTGGGGCCCTTGGAAGGGTGTCTGTGGGGTTTCCGTGAGGCCAAAGACAGAGGTTCCTTCTCACGAGGATGGTGTTTGCTTTCACATGGACAGCCCAGACCACCTGGAACCAAGTGCACAGAAGCCCCACCATCCCCGGGCCTCCCAGTTGTGATGGGTGAGCGGTCCAAGTCCGCAGGAGGCCAGAGGCTCTTTGTGGTTGAATCTGTGAGTTTCCTTTCCTTTTTCCCTCCCACTCCTTTTAATGCTAATGAATTCCTTGTTTGGGGGCAGGGGCCAGGGTTATCTCTTCTTCTGTCTTCACCCAAGGTGAGGCCTTTCAGGCTCCCAGCTTGATATGGGGGTGAATCCCCTATCAGCCTCCTCATACCTTGACCTCTGTCTACCCCCCTACTCCCTCCAAGGTCGAAGCCCAACTTGCCAGGTTGGCAAATGCTCACAGGCAACAATGGCCCCAGCGCTCCTCCCTAGGTTCTTGATTTTCCCCTGAAACTTGGCCTGGAGGTTTCCTACTAGCTTAGCAGCCCTTTGATGCTTTTAACGTAATTTTGTTATTATTTTATCCAAAATTCTTGCTTGTTTTAAGAGGGAAAGCAGGTCGGCCATTACTGCACAGAGAATCTGGGACAGTTATTATAACCATAGAAATTTATTTTCCATGTGCTGTCCCATCTTCTTGATGAGACAGATGTTTAACAGCTGGAGAACTGGACCCCGTATTTGTCCCCATCTTGCCTAGCAACAGAAGGTAGTCACTAATCAGGGATTTTCGAGCCCATTGCTTAAGGCCTTCATTGACCCAAAGGATAGTGGGTCCCTGCTCCTCTTCCTGCGGAGAGGCCCAGGTGCCCAGAGGGCCCTCCTGGCTTGGCTGCCTACAGAGTGGCTGATGAAGTGTCCGCTGTGCGCACAGGACACCCAGCCCCACTCCTCCCCAGGCAGCCCCTCAAACAGCTGTTGCTCTGCCTGCTTCGGCTGTGGACCTGAGGCTGAGAGGCTGAGCCATCGCCCTGAGCCGCATGCAGGGGAGTGGCAGGCCTGGACCCAGTGCCCAGACCTGGCTCACCTGACCTTACTTTTTCCACTGTGCCTGCTTCTCCCTCCCAGGCTCTGTGACCTTGGGCAGCCATGGCCATCCTGTGCCCATTCCCAGCTGTAAAATGAGAGGCTGGGCTGGCTGATCTCAAATGTCCCCTGCCAGCCTGAGATTCTGTGTTGTGTCCTGGGGTGTGACTGTGACATGCCACCAAAGGCAGCTGCCAGTGCTCATGAGGGAGGCCTTTTTCCTGAGTTAAGGCAGGTGGGGGGACTGGGGGTGAGTTGAGGGACTGGGAGGTGGGGGAAGCACACAGACAGTCCTCCCCAGCTGAGCGCTCATGGTGAATTACCTTCAGTCCCAGGCTCAGTGCTTTGGAAATGCTCTCAGGCCCAGCACCCAGGCCTGGAACCAGCCTCCAGGCCCCTGGCCCTCCCTTTCTCTACTGGAATCTTCCAGACCGAGGCAGGTCAGCTGAAAGTCACCGACTCTGCCTTCCACAAACTCATAGCTGACAGACCATTCCATGTCCCCTCCCAGCCCCGTCCCAGGAGCGGAACTCACTTTGCCTTCCCACCCTCCAGGCCGACTCACTGTCCGTCACTCTCTGGGTCCCACCCACTGTCCCACCGACTTCATTGGTCTAAAAATATGCTCTGGCATCTTGTTGGAAAGCAGCAGGAATGATGGGCCCTGCTGATAAGGTGAAGAAAGTGACCCGAGGGGGCAAACTTACGGACGGGACATACTTTGGCAAAACAACAAAACAGCGGGACCTGAAGGCTGGCTTCCCAAGCGTCCTCAAGGCCTTGTGCCAGGAACAGGACCCTCGGGCTTAGGAAAGTGAAAACCAGGCTCAGGTCCCTCACCCAGACCCTTCTGCCCGCTTTGGGAGGGAGCCCAAGAAGTCAGCTAGGGAGGGACCTCCCGGTGGGACCTGAGTCCTGATTGGAACTTTCTGGGGGCTTTCTTGGCATTTTACGTGTGTTGTCACAACTCCTTGATGGGAGAATTAAGCATGGTCTGTGGGATTCCACTGGGAGAGGACCCCTAAAAGCCTGGGCCGGGCCTCCTCCCAATTTCACCCCATATGCCTTTCCCTTTGCTCATTATGCTTTGTGTCTTTTGCTGTAGTAAACCGTAGCCATGACTTTTGCAAGTCCTCCTAGATTAACACTGAACTTGGGGGTGGTTTTAGGGACCCTGACGTACCTATGGATGTCAACTTGCTTTAGCACTATTTGTTGAAACAATAATCTTTTCCACATTGAATTGATTTGGCACTTTTGTTCAAAATCAATTGTAAAGATTTGCTACATGAATGTAAACATTTATTCCTGGACTCTTTTGTTGTTTTTTTCATGAGATGGAGTCTCGCTCTATCACCCAGGCTGGAGTGCAGTGGTGCAATCTCAGCTCACTGCAAGCTCCGCCTCCTGGATTCACACCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCCCACCACCACACCCGCCACCACGCTCTACTAAAAATACAATTTTTTTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTCAGCCCGGATGGTCTCGATCTCCTGACCTCGTGATCCATCCGTCTTGGCCTCCCAAAGTCCTGGGATTACAGGCATGAGCTACCACACCTGGCCTATTCCTGGACTCTTATTCTGTTTAATTGCCTATTTTTATGTCAGTACCATGCTATCTTGATGACTATGGCTTCTTAGTAAGTTTATTTTTTATTTTTTATTCTTTTTGGGGATGGAGTTTCTCTCTTGTTGCCCAGGCTGGAGTGCAGTGGTGTGATCTTGGCTCACTGCAACCTCTGCCTTCCAGGTTCAAGTGATTCTCCTGCATCAGGCTCGCGAGTAGCTGGGATTATATGCGTCTGCCACCACACCTGGCTAATTTTTTTGTATTTTTAGTAGAGATGGGGTTTCACTGTGTTGACTAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCTACCCGCCTCAGCCTCCCAAAGTGCTAGGATTACAGACATGAGCCACCATGCCCAGCCCAGCTTCTTAGTAAATTTTAAAATCAATATGTTTTCCAACTCTGTTCTTATTTTTCAAAATTATTTTGCCTATTGTAGGTTTTTTTTTTGCATTTCCATTCAGCTTGCCGAGTTTTATTAAAAAGGTTACTGGGATTTTGATTGAGGTTGCATTGAATGAATGTACCAACTAAGGAGGCTTGACATCTTGACAATAATGAGCCTTCCCATCCGTAAACATGGAATAGCTCTTCTTTTAATATATCTCAGCATTGTTTTGTAGTTTTCAGTTTACATGTCTTGTGATTCTTTTGTTTATTCCTGAGTATTTTATTCTTTTTGATGCTATTGTGAATGGAATGGTTTTCTCAGTTTCAAGATTGTTCAGTGCTATTATATAGAAATTGAATTGGCCAGGCACAGTGGCTCATGCCTGTAATCTCAGCACTTTGGGAGGCTGAGGCAGGAAGATTGCTTGAGCCCAGGATTTCTGGGCCAGCCTGGGCAACATAGTGAGACTCCATCTCTACAAAAAAAATACAAAAATCAGCCAGCGTGGTGGTGTGCACCTGTAGTTCCAGCTCCTTGGGAGGCTGAGGCTGGAGGATGGCTTCAGCCTGGGAAGTTGAGGCTGTAGTAAGCCATAATGGTGGCATTGCACTCCAGCCTAGGTGACAGAGTGATACCCTGTCTAGAGAAAAAAAAAAAGAATTGATTTTTGTATATTGATTATACCCTGTGACCTTGCTAAATTTATTAGTACTAATATTTATTTTATGGATGCCTTAGGATTTTCTATATATAAGATAATGCCATCTGTAAATAAAGACAGTTTTATTTTTTCCTTTCTAATCTGGATGCCTTTAATTTCTTTATTTGCCTCATTGATTAGAAATAGCAAAAGTGGGCATCTTTGCCTTGTTTGTGGTGAGAAGAGGAAAGCAGTCATTCACCACAAAGTGTGATGTTAACTGTGGGTTTTTATAGGTGTCTTTTATCAGATTTCATAAATTCTCTTTTATTTCTACTTTGTTGAGAATTTTTATTATGAATCTGTGATGGATTTTGTCATATAGTTTTTCCAATATCTGTTGAAGTCACCATGTGTTTTTTGTCCTTTATTCTGTTAATATAATATATTATATTGATTTTCAGATGTTAAACCTACCTTGCATTCCTGGGATAAATCCCACTTAGTTATGGTGTATAATCCTATTTATATGTTGCTAGGCTTGGGTTGCTAATACTAGTTTACAGAATGAATTGGGAAGCATTACCTCTCCCTTCATTTTCTCATTCATTTATTTTATTTTACTATCATATATATATATATATATAATTTCATATTATCTTATTTTAGTTTTTAGAGACAGTGTCTTGCCCTGTCACCCAGGCTGGATTGCGGTGGTGTGATCATAGTTCACTGCAGTATCAACCTCCTGGACTCAAGCGATCCTCCTGCCTGGGACTATAGGCATGCACCACCATGCCCAGCTAATCATCCATTTCTTTCTTTTTTTAAAACAAATTTTATGTTTATTTATTTATTTATTTGGATTTCTCCTACCGAAAGGAATCATTCTTTTTTTTTTTTTTTTTTTTTTGAGAGGGAGCCTTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGCACAATCTCAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000570636"	""	9	"."	4	1	"."	0	"RP11-23E10.4,upstream_gene_variant,,ENST00000567422,;RP11-293B20.3,upstream_gene_variant,,ENST00000570636,;"	"TTTAGGT"	"ENSG00000263277"	"ENST00000570636"	"Transcript"	"upstream_gene_variant"	"-/130"	""	""	""	""	""	"1"	"557"	1	"RP11-293B20.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCGGGTCTGTGCTGAGGAAAACACTGCTCCGCCTTCGCTGTATCTCCGAAGTCTGTGCAGAGGAGAACTCAGCTCGCCCTCACGATGCAATCTGGGTCTGTGCTGAGGAGAGCGCAGCTCCGCCCTCGCAAAGGCGCACAGCGCGGGCGCAGGCGCAGAGAGGCGCACATTTTATGAATAGCAAATCAATTTCTCCCTGTTCCTCTTACATCGAGGCTGGACACACGTTTACAGGGGATCAGTGTGAAGGGAAGCTGGTGAGGCTGCCTGAGAAGCCCCCTGCCTGCGTCTCCCAGTGGACTCCTTGGGAGCGCCCCCTCCCCTGCTCTGCCCAACAGCGCCTGAACTGTGGCCACTTGCACTCCTGTTGCCTACCCAGTGGCTTGAACTCCAGAACTTGCCACCCTTCAGTGGAATTCCTGGAGGAGTGAGGAGCTCTGTGCTATGCTTGGCCACCGAACATGGGCCATCTCTCCTATTATGGTTTGAAATGTACCGTAGTGTCTTGTTTGGTAATTGTATAATAATATGGGGAGACTGTGCGGGTGTCTGCTAGCTTGTCTGCTGGTTCTTACTCATGGTGCCTTCTTCCCTTTCAGACTTGGATATCTTTGTGTGCTTCTTGGGGCCCTTGGAAGGGTGTCTGTGGGGTTTCCGTGAGGCCAAAGACAGAGGTTCCTTCTCACGAGGATGGTGTTTGCTTTCACATGGACAGCCCAGACCACCTGGAACCAAGTGCACAGAAGCCCCACCATCCCCGGGCCTCCCAGTTGTGATGGGTGAGCGGTCCAAGTCCGCAGGAGGCCAGAGGCTCTTTGTGGTTGAATCTGTGAGTTTCCTTTCCTTTTTCCCTCCCACTCCTTTTAATGCTAATGAATTCCTTGTTTGGGGGCAGGGGCCAGGGTTATCTCTTCTTCTGTCTTCACCCAAGGTGAGGCCTTTCAGGCTCCCAGCTTGATATGGGGGTGAATCCCCTATCAGCCTCCTCATACCTTGACCTCTGTCTACCCCCCTACTCCCTCCAAGGTCGAAGCCCAACTTGCCAGGTTGGCAAATGCTCACAGGCAACAATGGCCCCAGCGCTCCTCCCTAGGTTCTTGATTTTCCCCTGAAACTTGGCCTGGAGGTTTCCTACTAGCTTAGCAGCCCTTTGATGCTTTTAACGTAATTTTGTTATTATTTTATCCAAAATTCTTGCTTGTTTTAAGAGGGAAAGCAGGTCGGCCATTACTGCACAGAGAATCTGGGACAGTTATTATAACCATAGAAATTTATTTTCCATGTGCTGTCCCATCTTCTTGATGAGACAGATGTTTAACAGCTGGAGAACTGGACCCCGTATTTGTCCCCATCTTGCCTAGCAACAGAAGGTAGTCACTAATCAGGGATTTTCGAGCCCATTGCTTAAGGCCTTCATTGACCCAAAGGATAGTGGGTCCCTGCTCCTCTTCCTGCGGAGAGGCCCAGGTGCCCAGAGGGCCCTCCTGGCTTGGCTGCCTACAGAGTGGCTGATGAAGTGTCCGCTGTGCGCACAGGACACCCAGCCCCACTCCTCCCCAGGCAGCCCCTCAAACAGCTGTTGCTCTGCCTGCTTCGGCTGTGGACCTGAGGCTGAGAGGCTGAGCCATCGCCCTGAGCCGCATGCAGGGGAGTGGCAGGCCTGGACCCAGTGCCCAGACCTGGCTCACCTGACCTTACTTTTTCCACTGTGCCTGCTTCTCCCTCCCAGGCTCTGTGACCTTGGGCAGCCATGGCCATCCTGTGCCCATTCCCAGCTGTAAAATGAGAGGCTGGGCTGGCTGATCTCAAATGTCCCCTGCCAGCCTGAGATTCTGTGTTGTGTCCTGGGGTGTGACTGTGACATGCCACCAAAGGCAGCTGCCAGTGCTCATGAGGGAGGCCTTTTTCCTGAGTTAAGGCAGGTGGGGGGACTGGGGGTGAGTTGAGGGACTGGGAGGTGGGGGAAGCACACAGACAGTCCTCCCCAGCTGAGCGCTCATGGTGAATTACCTTCAGTCCCAGGCTCAGTGCTTTGGAAATGCTCTCAGGCCCAGCACCCAGGCCTGGAACCAGCCTCCAGGCCCCTGGCCCTCCCTTTCTCTACTGGAATCTTCCAGACCGAGGCAGGTCAGCTGAAAGTCACCGACTCTGCCTTCCACAAACTCATAGCTGACAGACCATTCCATGTCCCCTCCCAGCCCCGTCCCAGGAGCGGAACTCACTTTGCCTTCCCACCCTCCAGGCCGACTCACTGTCCGTCACTCTCTGGGTCCCACCCACTGTCCCACCGACTTCATTGGTCTAAAAATATGCTCTGGCATCTTGTTGGAAAGCAGCAGGAATGATGGGCCCTGCTGATAAGGTGAAGAAAGTGACCCGAGGGGGCAAACTTACGGACGGGACATACTTTGGCAAAACAACAAAACAGCGGGACCTGAAGGCTGGCTTCCCAAGCGTCCTCAAGGCCTTGTGCCAGGAACAGGACCCTCGGGCTTAGGAAAGTGAAAACCAGGCTCAGGTCCCTCACCCAGACCCTTCTGCCCGCTTTGGGAGGGAGCCCAAGAAGTCAGCTAGGGAGGGACCTCCCGGTGGGACCTGAGTCCTGATTGGAACTTTCTGGGGGCTTTCTTGGCATTTTACGTGTGTTGTCACAACTCCTTGATGGGAGAATTAAGCATGGTCTGTGGGATTCCACTGGGAGAGGACCCCTAAAAGCCTGGGCCGGGCCTCCTCCCAATTTCACCCCATATGCCTTTCCCTTTGCTCATTATGCTTTGTGTCTTTTGCTGTAGTAAACCGTAGCCATGACTTTTGCAAGTCCTCCTAGATTAACACTGAACTTGGGGGTGGTTTTAGGGACCCTGACGTACCTATGGATGTCAACTTGCTTTAGCACTATTTGTTGAAACAATAATCTTTTCCACATTGAATTGATTTGGCACTTTTGTTCAAAATCAATTGTAAAGATTTGCTACATGAATGTAAACATTTATTCCTGGACTCTTTTGTTGTTTTTTTCATGAGATGGAGTCTCGCTCTATCACCCAGGCTGGAGTGCAGTGGTGCAATCTCAGCTCACTGCAAGCTCCGCCTCCTGGATTCACACCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCCCACCACCACACCCGCCACCACGCTCTACTAAAAATACAATTTTTTTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTCAGCCCGGATGGTCTCGATCTCCTGACCTCGTGATCCATCCGTCTTGGCCTCCCAAAGTCCTGGGATTACAGGCATGAGCTACCACACCTGGCCTATTCCTGGACTCTTATTCTGTTTAATTGCCTATTTTTATGTCAGTACCATGCTATCTTGATGACTATGGCTTCTTAGTAAGTTTATTTTTTATTTTTTATTCTTTTTGGGGATGGAGTTTCTCTCTTGTTGCCCAGGCTGGAGTGCAGTGGTGTGATCTTGGCTCACTGCAACCTCTGCCTTCCAGGTTCAAGTGATTCTCCTGCATCAGGCTCGCGAGTAGCTGGGATTATATGCGTCTGCCACCACACCTGGCTAATTTTTTTGTATTTTTAGTAGAGATGGGGTTTCACTGTGTTGACTAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCTACCCGCCTCAGCCTCCCAAAGTGCTAGGATTACAGACATGAGCCACCATGCCCAGCCCAGCTTCTTAGTAAATTTTAAAATCAATATGTTTTCCAACTCTGTTCTTATTTTTCAAAATTATTTTGCCTATTGTAGGTTTTTTTTTTGCATTTCCATTCAGCTTGCCGAGTTTTATTAAAAAGGTTACTGGGATTTTGATTGAGGTTGCATTGAATGAATGTACCAACTAAGGAGGCTTGACATCTTGACAATAATGAGCCTTCCCATCCGTAAACATGGAATAGCTCTTCTTTTAATATATCTCAGCATTGTTTTGTAGTTTTCAGTTTACATGTCTTGTGATTCTTTTGTTTATTCCTGAGTATTTTATTCTTTTTGATGCTATTGTGAATGGAATGGTTTTCTCAGTTTCAAGATTGTTCAGTGCTATTATATAGAAATTGAATTGGCCAGGCACAGTGGCTCATGCCTGTAATCTCAGCACTTTGGGAGGCTGAGGCAGGAAGATTGCTTGAGCCCAGGATTTCTGGGCCAGCCTGGGCAACATAGTGAGACTCCATCTCTACAAAAAAAATACAAAAATCAGCCAGCGTGGTGGTGTGCACCTGTAGTTCCAGCTCCTTGGGAGGCTGAGGCTGGAGGATGGCTTCAGCCTGGGAAGTTGAGGCTGTAGTAAGCCATAATGGTGGCATTGCACTCCAGCCTAGGTGACAGAGTGATACCCTGTCTAGAGAAAAAAAAAAAGAATTGATTTTTGTATATTGATTATACCCTGTGACCTTGCTAAATTTATTAGTACTAATATTTATTTTATGGATGCCTTAGGATTTTCTATATATAAGATAATGCCATCTGTAAATAAAGACAGTTTTATTTTTTCCTTTCTAATCTGGATGCCTTTAATTTCTTTATTTGCCTCATTGATTAGAAATAGCAAAAGTGGGCATCTTTGCCTTGTTTGTGGTGAGAAGAGGAAAGCAGTCATTCACCACAAAGTGTGATGTTAACTGTGGGTTTTTATAGGTGTCTTTTATCAGATTTCATAAATTCTCTTTTATTTCTACTTTGTTGAGAATTTTTATTATGAATCTGTGATGGATTTTGTCATATAGTTTTTCCAATATCTGTTGAAGTCACCATGTGTTTTTTGTCCTTTATTCTGTTAATATAATATATTATATTGATTTTCAGATGTTAAACCTACCTTGCATTCCTGGGATAAATCCCACTTAGTTATGGTGTATAATCCTATTTATATGTTGCTAGGCTTGGGTTGCTAATACTAGTTTACAGAATGAATTGGGAAGCATTACCTCTCCCTTCATTTTCTCATTCATTTATTTTATTTTACTATCATATATATATATATATATAATTTCATATTATCTTATTTTAGTTTTTAGAGACAGTGTCTTGCCCTGTCACCCAGGCTGGATTGCGGTGGTGTGATCATAGTTCACTGCAGTATCAACCTCCTGGACTCAAGCGATCCTCCTGCCTGGGACTATAGGCATGCACCACCATGCCCAGCTAATCATCCATTTCTTTCTTTTTTTAAAACAAATTTTATGTTTATTTATTTATTTATTTGGATTTCTCCTACCGAAAGGAATCATTCTTTTTTTTTTTTTTTTTTTTTTGAGAGGGAGCCTTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGCACAATCTCAGC"	"42e8cb40-2764-11e6-a260-9cdd414a729f"	"212"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1032"	"ENSR00000665338"	0	"mskcc.org"	"GRCh37"	"16"	33509922	33509922	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs34159595"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000665338"	""	7	"."	4	1	"."	0	""	"-"	""	"ENSR00000665338"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs34159595"	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4231"	"-:0.4947"	"-:0.304"	NA	"-:0.3948"	"-:0.3917"	"-:0.4724"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTC"	"3778389a-2764-11e6-a260-9cdd414a729f"	"223"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1033"	"RP11-488I20.8"	0	"mskcc.org"	"GRCh37"	"16"	34489362	34489363	"+"	"3'Flank"	"INS"	"-"	"G"	"G"	"rs71158839"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000569557"	""	28	"."	20	5	"."	1	"RP11-488I20.8,intron_variant,,ENST00000562572,;RP11-488I20.8,downstream_gene_variant,,ENST00000569557,;RP11-244B22.1,upstream_gene_variant,,ENST00000562979,;RARRES2P6,downstream_gene_variant,,ENST00000567333,;"	"G"	"ENSG00000260958"	"ENST00000569557"	"Transcript"	"downstream_gene_variant"	"-/849"	""	""	""	""	"rs71158839"	"1"	"1342"	1	"RP11-488I20.8"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0323"	"G:0.8933"	"G:0.987"	NA	"G:1"	"G:0.994"	"G:0.9939"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"494b08c2-2764-11e6-a260-9cdd414a729f"	"1260"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1034"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	49030511	49030512	"+"	"IGR"	"INS"	"-"	"-"	"AAAGAAA"	"rs71134574"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	4	"."	0	""	"AAAGAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71134574"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"4997f376-2764-11e6-a260-9cdd414a729f"	"127"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1035"	"ZNF423"	23090	"mskcc.org"	"GRCh37"	"16"	49890828	49890829	"+"	"Intron"	"INS"	"-"	"-"	"GGC"	"rs529788976"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-165+821_-165+823dupGCC"	""	""	"ENST00000562520"	""	12	"."	4	2	"."	0	"ZNF423,intron_variant,,ENST00000562520,NM_001271620.1;ZNF423,upstream_gene_variant,,ENST00000563137,;"	"GGC"	"ENSG00000102935"	"ENST00000562520"	"Transcript"	"intron_variant"	"-/4018"	"-/3675"	"-/1224"	""	""	"rs529788976"	"1"	NA	-1	"ZNF423"	"HGNC"	16762	"protein_coding"	""	"CCDS61930.1"	"ENSP00000457664"	"Q2M1K9"	"F5H7S1,B3KNG7"	"UPI000000120C"	"NM_001271620.1"	NA	NA	""	"1/7"	""	"GGC:0.4822"	"GGC:0.5174"	"GGC:0.415"	NA	"GGC:0.5198"	"GGC:0.4443"	"GGC:0.4826"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"49ac01f4-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1036"	"SNX20"	124460	"mskcc.org"	"GRCh37"	"16"	50700881	50700882	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"rs5816711"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000330943"	""	6	"."	4	1	"."	0	"SNX20,3_prime_UTR_variant,,ENST00000300590,NM_153337.2;SNX20,3_prime_UTR_variant,,ENST00000423026,NM_001144972.1;SNX20,downstream_gene_variant,,ENST00000330943,NM_182854.2;RP11-401P9.5,non_coding_transcript_exon_variant,,ENST00000570167,;RP11-401P9.5,upstream_gene_variant,,ENST00000570241,;SNX20,intron_variant,,ENST00000568993,;"	"A"	"ENSG00000167208"	"ENST00000330943"	"Transcript"	"downstream_gene_variant"	"-/2904"	"-/951"	"-/316"	""	""	"rs5816711"	"1"	"4654"	-1	"SNX20"	"HGNC"	30390	"protein_coding"	"YES"	"CCDS10745.1"	"ENSP00000332062"	"Q7Z614"	""	"UPI000004348D"	"NM_182854.2"	NA	NA	""	""	""	"-:0.1168"	"A:0.9962"	"A:0.8429"	NA	"A:0.8958"	"A:0.9374"	"A:0.6902"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"49de0794-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1037"	"CYLD"	1540	"mskcc.org"	"GRCh37"	"16"	50785891	50785904	"+"	"Intron"	"DEL"	"ACATATATATACAC"	"ACATATATATACAC"	"-"	"rs66613485"	NA	"JHCCPT1"	"JHCCPN1"	"ACATATATATACAC"	"ACATATATATACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.807+98_807+111delACACACATATATAT"	""	""	"ENST00000398568"	""	23	"."	8	6	"."	0	"CYLD,intron_variant,,ENST00000540145,;CYLD,intron_variant,,ENST00000427738,;CYLD,intron_variant,,ENST00000311559,NM_015247.2;CYLD,intron_variant,,ENST00000398568,NM_001042412.1;CYLD,intron_variant,,ENST00000569418,NM_001042355.1;CYLD,intron_variant,,ENST00000568704,;CYLD,intron_variant,,ENST00000564326,;CYLD,intron_variant,,ENST00000566206,;CYLD,intron_variant,,ENST00000566679,;CYLD,downstream_gene_variant,,ENST00000569681,;CYLD,downstream_gene_variant,,ENST00000564634,;CYLD,intron_variant,,ENST00000569891,;CYLD,intron_variant,,ENST00000563629,;"	"-"	"ENSG00000083799"	"ENST00000398568"	"Transcript"	"intron_variant"	"-/3536"	"-/2862"	"-/953"	""	""	"rs66613485"	"1"	NA	1	"CYLD"	"HGNC"	2584	"protein_coding"	""	"CCDS42164.1"	"ENSP00000381574"	"Q9NQC7"	"H3BTB8,H3BSW9,H3BPZ5"	"UPI000013F1A7"	"NM_001042412.1"	NA	NA	""	"4/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	"24"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAACATATATATACACA"	"392d11b0-2764-11e6-a260-9cdd414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347826086956522	"WXS"	TRUE
"1038"	"CYLD"	1540	"mskcc.org"	"GRCh37"	"16"	50811674	50811674	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs572862017"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1013-54delA"	""	""	"ENST00000398568"	""	73	"."	4	32	"."	0	"CYLD,intron_variant,,ENST00000540145,;CYLD,intron_variant,,ENST00000427738,;CYLD,intron_variant,,ENST00000311559,NM_015247.2;CYLD,intron_variant,,ENST00000398568,NM_001042412.1;CYLD,intron_variant,,ENST00000569418,NM_001042355.1;CYLD,intron_variant,,ENST00000568704,;CYLD,intron_variant,,ENST00000564326,;CYLD,intron_variant,,ENST00000566206,;CYLD,intron_variant,,ENST00000569891,;CYLD,intron_variant,,ENST00000563629,;CYLD,intron_variant,,ENST00000563976,;"	"-"	"ENSG00000083799"	"ENST00000398568"	"Transcript"	"intron_variant"	"-/3536"	"-/2862"	"-/953"	""	""	"rs572862017"	"1"	NA	1	"CYLD"	"HGNC"	2584	"protein_coding"	""	"CCDS42164.1"	"ENSP00000381574"	"Q9NQC7"	"H3BTB8,H3BSW9,H3BPZ5"	"UPI000013F1A7"	"NM_001042412.1"	NA	NA	""	"6/17"	""	"-:0.0006"	"-:0.0008"	"-:0"	NA	"-:0.001"	"-:0.001"	"-:0"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTAA"	"3935b37e-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0547945205479452	"WXS"	TRUE
"1039"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	51268491	51268491	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs11321959"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	6	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11321959"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"3958de1c-2764-11e6-a260-9cdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1040"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	51756725	51756725	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs35586330"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	5	8	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35586330"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.3133"	"-:0.6301"	"-:0.7478"	NA	"-:0.7391"	"-:0.6451"	"-:0.7086"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"395c1726-2764-11e6-a260-9cdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1041"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	54822016	54822043	"+"	"IGR"	"DEL"	"TTCCTTCCTTCCTTCCTTCCTTCCTCCC"	"TTCCTTCCTTCCTTCCTTCCTTCCTCCC"	"-"	"rs145526217"	NA	"JHCCPT1"	"JHCCPN1"	"TTCCTTCCTTCCTTCCTTCCTTCCTCCC"	"TTCCTTCCTTCCTTCCTTCCTTCCTCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145526217"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTCCTTCCTTCCTTCCTTCCTTCCTCCCT"	"39b14796-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1042"	"GNAO1"	2775	"mskcc.org"	"GRCh37"	"16"	56371092	56371093	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.723+327dupA"	""	""	"ENST00000262494"	""	12	"."	3	8	"."	0	"GNAO1,intron_variant,,ENST00000262494,NM_138736.2;GNAO1,intron_variant,,ENST00000262493,NM_020988.2;GNAO1,downstream_gene_variant,,ENST00000565363,;GNAO1,downstream_gene_variant,,ENST00000563440,;GNAO1,downstream_gene_variant,,ENST00000562316,;GNAO1,intron_variant,,ENST00000568375,;GNAO1,upstream_gene_variant,,ENST00000564798,;"	"A"	"ENSG00000087258"	"ENST00000262494"	"Transcript"	"intron_variant"	"-/5574"	"-/1065"	"-/354"	""	""	""	"1"	NA	1	"GNAO1"	"HGNC"	4389	"protein_coding"	"YES"	"CCDS10757.1"	"ENSP00000262494"	"P09471"	"Q6AWC5,H3BTM2,H3BQG8"	"UPI000007349C"	"NM_138736.2"	NA	NA	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"4aad6688-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1043"	"RP11-441F2.5"	0	"mskcc.org"	"GRCh37"	"16"	56389119	56389120	"+"	"5'Flank"	"INS"	"-"	"-"	"TA"	"rs141381720"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000606772"	""	25	"."	4	5	"."	0	"GNAO1,3_prime_UTR_variant,,ENST00000564727,;GNAO1,intron_variant,,ENST00000262493,NM_020988.2;RP11-441F2.5,upstream_gene_variant,,ENST00000606772,;GNAO1,downstream_gene_variant,,ENST00000568375,;"	"TA"	"ENSG00000272372"	"ENST00000606772"	"Transcript"	"upstream_gene_variant"	"-/1639"	""	""	""	""	"rs141381720"	"1"	"1683"	-1	"RP11-441F2.5"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"TA:0.3996"	"TA:0.4425"	"TA:0.3444"	NA	"TA:0.3601"	"TA:0.3976"	"TA:0.4233"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"4ab1536a-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WXS"	FALSE
"1044"	"AMFR"	267	"mskcc.org"	"GRCh37"	"16"	56459332	56459333	"+"	"5'UTR"	"INS"	"-"	"-"	"CGCTGCCGCTGC"	"rs752213917"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-105_-94dupGCAGCGGCAGCG"	""	""	"ENST00000290649"	"1/14"	30	"."	5	18	"."	0	"AMFR,5_prime_UTR_variant,,ENST00000290649,NM_001144.5;NUDT21,downstream_gene_variant,,ENST00000300291,NM_007006.2;AMFR,upstream_gene_variant,,ENST00000565445,;AMFR,upstream_gene_variant,,ENST00000563664,;AMFR,upstream_gene_variant,,ENST00000564283,;AMFR,upstream_gene_variant,,ENST00000568657,;"	"CGCTGCCGCTGC"	"ENSG00000159461"	"ENST00000290649"	"Transcript"	"5_prime_UTR_variant"	"118-119/3600"	"-/1932"	"-/643"	""	""	"rs752213917"	"1"	NA	-1	"AMFR"	"HGNC"	463	"protein_coding"	"YES"	"CCDS10758.1"	"ENSP00000290649"	"Q9UKV5"	"Q6PGR1,Q1RN03,H3BSK3,H3BQM3"	"UPI000013EDCA"	"NM_001144.5"	NA	NA	"1/14"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"4ab67ffc-2764-11e6-a260-9cdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"1045"	"NLRC5"	84166	"mskcc.org"	"GRCh37"	"16"	57104160	57104161	"+"	"Intron"	"INS"	"-"	"-"	"GT"	"rs36048473"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4584-268_4584-267dupGT"	""	""	"ENST00000262510"	""	20	"."	4	4	"."	0	"NLRC5,intron_variant,,ENST00000436936,;NLRC5,intron_variant,,ENST00000262510,NM_032206.4;NLRC5,intron_variant,,ENST00000308149,;NLRC5,intron_variant,,ENST00000539144,;NLRC5,intron_variant,,ENST00000545081,;NLRC5,intron_variant,,ENST00000538453,;NLRC5,intron_variant,,ENST00000540182,;NLRC5,intron_variant,,ENST00000537056,;NLRC5,intron_variant,,ENST00000545349,;NLRC5,upstream_gene_variant,,ENST00000544189,;"	"GT"	"ENSG00000140853"	"ENST00000262510"	"Transcript"	"intron_variant"	"-/6822"	"-/5601"	"-/1866"	""	""	"rs36048473"	"1"	NA	1	"NLRC5"	"HGNC"	29933	"protein_coding"	"YES"	"CCDS10773.1"	"ENSP00000262510"	"Q86WI3"	"F5H274,F5GYP0"	"UPI00001AEE94"	"NM_032206.4"	NA	NA	""	"37/48"	""	"-:0.4569"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"4b0af532-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"1046"	"CPNE2"	221184	"mskcc.org"	"GRCh37"	"16"	57125968	57125969	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs35321750"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000535318"	""	13	"."	6	9	"."	0	"CPNE2,upstream_gene_variant,,ENST00000535318,;CPNE2,upstream_gene_variant,,ENST00000290776,NM_152727.5;CPNE2,upstream_gene_variant,,ENST00000537605,;RP11-407G23.1,non_coding_transcript_exon_variant,,ENST00000565829,;"	"A"	"ENSG00000140848"	"ENST00000535318"	"Transcript"	"upstream_gene_variant"	"-/2316"	"-/1647"	"-/548"	""	""	"rs35321750"	"1"	"550"	1	"CPNE2"	"HGNC"	2315	"protein_coding"	"YES"	"CCDS10774.1"	"ENSP00000439018"	"Q96FN4"	"Q719H8,H3BQQ3,H3BPR8"	"UPI000017DA4F"	""	NA	NA	""	""	""	"A:0.3015"	"A:0.2201"	"A:0.2277"	NA	"A:0.2411"	"A:0.3777"	"A:0.4479"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"4b0db628-2764-11e6-a260-9cdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"1047"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	62683904	62683905	"+"	"IGR"	"INS"	"-"	"-"	"AGG"	"rs112234423"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	3	3	"."	0	""	"AGG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112234423"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1813"	"AGG:0.6906"	"AGG:0.8646"	NA	"AGG:0.9474"	"AGG:0.8062"	"AGG:0.8395"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"4ba518ba-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"1048"	"LINC00922"	283867	"mskcc.org"	"GRCh37"	"16"	65462758	65462759	"+"	"Intron"	"INS"	"-"	"-"	"CT"	"rs10661239"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.218-65049_218-65048dupAG"	""	""	"ENST00000569736"	""	7	"."	4	1	"."	0	"LINC00922,intron_variant,,ENST00000569736,;LINC00922,intron_variant,,ENST00000564041,;LINC00922,intron_variant,,ENST00000568492,;RP11-256I9.3,intron_variant,,ENST00000562656,;"	"CT"	"ENSG00000261742"	"ENST00000569736"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1760"	""	""	""	""	"rs10661239"	"1"	NA	-1	"LINC00922"	"HGNC"	27545	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/8"	""	"-:0.2634"	"CT:0.944"	"CT:0.6282"	NA	"CT:0.5486"	"CT:0.7316"	"CT:0.7321"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"4bc37ce2-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1049"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	65995974	65995999	"+"	"IGR"	"DEL"	"CAGGGAGGGAGAGAAGAAGGGAGGGA"	"CAGGGAGGGAGAGAAGAAGGGAGGGA"	"AGAGAAGAAGGGAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CAGGGAGGGAGAGAAGAAGGGAGGGA"	"CAGGGAGGGAGAGAAGAAGGGAGGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	2	"."	0	""	"AGAGAAGAAGGGAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGCAGGGAGGGAGAGAAGAAGGGAGGGAA"	"42f0fa9a-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1050"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	66203427	66203432	"+"	"IGR"	"DEL"	"AAAGAA"	"AAAGAA"	"-"	"rs138968961"	NA	"JHCCPT1"	"JHCCPN1"	"AAAGAA"	"AAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	24	"."	11	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138968961"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAAGAAA"	"3b25f72a-2764-11e6-a260-9cdd414a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.458333333333333	"WXS"	FALSE
"1051"	"PLEKHG4"	25894	"mskcc.org"	"GRCh37"	"16"	67315124	67315124	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs772708460"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.813+40delT"	""	""	"ENST00000360461"	""	102	"."	3	62	"."	0	"PLEKHG4,intron_variant,,ENST00000360461,NM_001129727.1,NM_015432.3;PLEKHG4,intron_variant,,ENST00000379344,NM_001129729.1;PLEKHG4,intron_variant,,ENST00000450733,NM_001129731.1;PLEKHG4,intron_variant,,ENST00000427155,NM_001129728.1;PLEKHG4,downstream_gene_variant,,ENST00000562144,;PLEKHG4,downstream_gene_variant,,ENST00000565899,;PLEKHG4,downstream_gene_variant,,ENST00000565773,;PLEKHG4,downstream_gene_variant,,ENST00000568621,;PLEKHG4,downstream_gene_variant,,ENST00000562744,;PLEKHG4,downstream_gene_variant,,ENST00000567938,;PLEKHG4,intron_variant,,ENST00000563969,;PLEKHG4,intron_variant,,ENST00000393966,;"	"-"	"ENSG00000196155"	"ENST00000360461"	"Transcript"	"intron_variant"	"-/6782"	"-/3576"	"-/1191"	""	""	"rs772708460"	"1"	NA	1	"PLEKHG4"	"HGNC"	24501	"protein_coding"	"YES"	"CCDS32466.1"	"ENSP00000353646"	"Q58EX7"	"H3BSU4,H3BQP9,H3BQE6,H3BPQ5,H3BME5,C5IFI8"	"UPI000013C774"	"NM_001129727.1,NM_015432.3"	NA	NA	""	"4/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	"0.1229"	"0.5981"	"0.1065"	"0.005066"	"0.2243"	"0.1418"	"0.2095"	"0.2514"	"1"	"common_variant"	"TCTT"	"3bd8fc3a-2764-11e6-a260-9cdd414a729f"	"180"	0.2051	"11445/55814"	"12831/104412"	"3834/6410"	"560/5256"	"17/3356"	"815/3634"	"4023/28362"	"75/358"	"2121/8438"	"PASS"	"FALSE"	0.0294117647058824	"WXS"	FALSE
"1052"	"SLC12A4"	6560	"mskcc.org"	"GRCh37"	"16"	67986691	67986692	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs145047819"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.682-364dupT"	""	""	"ENST00000422611"	""	13	"."	4	3	"."	0	"SLC12A4,intron_variant,,ENST00000422611,NM_001145962.1;SLC12A4,intron_variant,,ENST00000316341,NM_001145961.1,NM_005072.4;SLC12A4,intron_variant,,ENST00000576616,;SLC12A4,intron_variant,,ENST00000338335,;SLC12A4,intron_variant,,ENST00000541864,NM_001145964.1;SLC12A4,intron_variant,,ENST00000572037,;SLC12A4,intron_variant,,ENST00000537830,NM_001145963.1;SLC12A4,intron_variant,,ENST00000571299,;SLC12A4,intron_variant,,ENST00000572010,;SLC12A4,intron_variant,,ENST00000570802,;SLC12A4,intron_variant,,ENST00000573023,;SLC12A4,intron_variant,,ENST00000576377,;SLC12A4,upstream_gene_variant,,ENST00000574665,;SLC12A4,downstream_gene_variant,,ENST00000576462,;SLC12A4,upstream_gene_variant,,ENST00000573702,;SLC12A4,upstream_gene_variant,,ENST00000572476,;SLC12A4,upstream_gene_variant,,ENST00000572766,;SLC12A4,upstream_gene_variant,,ENST00000576513,;"	"A"	"ENSG00000124067"	"ENST00000422611"	"Transcript"	"intron_variant"	"-/4670"	"-/3264"	"-/1087"	""	""	"rs145047819"	"1"	NA	-1	"SLC12A4"	"HGNC"	10913	"protein_coding"	"YES"	"CCDS54032.1"	"ENSP00000395983"	"Q9UP95"	"J3QRE2,I3L4N6"	"UPI00019863A8"	"NM_001145962.1"	NA	NA	""	"5/22"	""	"A:0.0619"	"A:0.171"	"A:0.0576"	NA	"A:0.001"	"A:0.0358"	"A:0.0072"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"4c10f53a-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"1053"	"SMPD3"	55512	"mskcc.org"	"GRCh37"	"16"	68469039	68469040	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs35026889"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-269+13216_-269+13217insC"	""	""	"ENST00000219334"	""	6	"."	4	2	"."	0	"SMPD3,intron_variant,,ENST00000219334,NM_018667.3;SMPD3,intron_variant,,ENST00000561749,;SMPD3,intron_variant,,ENST00000566723,;"	"G"	"ENSG00000103056"	"ENST00000219334"	"Transcript"	"intron_variant"	"-/5450"	"-/1968"	"-/655"	""	""	"rs35026889"	"1"	NA	-1	"SMPD3"	"HGNC"	14240	"protein_coding"	"YES"	"CCDS10867.1"	"ENSP00000219334"	"Q9NY59"	"H3BTM0,D6Q0F1,C8CHW6"	"UPI0000037769"	"NM_018667.3"	NA	NA	""	"1/8"	""	"-:0.2167"	"G:0.6732"	"G:0.8386"	NA	"G:0.881"	"G:0.7773"	"G:0.7986"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"4c294770-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1054"	"PDPR"	55066	"mskcc.org"	"GRCh37"	"16"	70176336	70176336	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs766656869"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1471+44delG"	""	""	"ENST00000288050"	""	555	"."	3	341	"."	0	"PDPR,intron_variant,,ENST00000288050,NM_017990.3;PDPR,intron_variant,,ENST00000568530,;PDPR,intron_variant,,ENST00000398122,;PDPR,upstream_gene_variant,,ENST00000542659,;PDPR,upstream_gene_variant,,ENST00000567046,;PDPR,upstream_gene_variant,,ENST00000567896,;PDPR,upstream_gene_variant,,ENST00000569042,;PDPR,upstream_gene_variant,,ENST00000563930,;PDPR,intron_variant,,ENST00000562100,;PDPR,intron_variant,,ENST00000565186,;PDPR,intron_variant,,ENST00000561920,;PDPR,upstream_gene_variant,,ENST00000564563,;"	"-"	"ENSG00000090857"	"ENST00000288050"	"Transcript"	"intron_variant"	"-/7999"	"-/2640"	"-/879"	""	""	"rs766656869"	"1"	NA	1	"PDPR"	"HGNC"	30264	"protein_coding"	"YES"	"CCDS45520.1"	"ENSP00000288050"	"Q8NCN5"	"H3BV59,H3BU60,B7ZAR9,B3KSE1,A8MT40"	"UPI00001FF513"	"NM_017990.3"	NA	NA	""	"12/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.0004167"	"0"	"9.468e-05"	"0"	"0"	"0.0002271"	"0"	"0.0009347"	NA	"common_variant"	"TTGT"	"3d21da12-2764-11e6-a260-9cdd414a729f"	"90"	0.0002742	"28/102122"	"44/105584"	"0/8194"	"1/10562"	"0/7254"	"0/6552"	"12/52834"	"0/678"	"15/16048"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.00540540540540541	"WXS"	FALSE
"1055"	"VAC14"	55697	"mskcc.org"	"GRCh37"	"16"	70796009	70796010	"+"	"Intron"	"INS"	"-"	"-"	"TTTTG"	"rs113559875"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1371+433_1371+434insCAAAA"	""	""	"ENST00000261776"	""	16	"."	4	3	"."	0	"VAC14,intron_variant,,ENST00000261776,NM_018052.3;VAC14-AS1,intron_variant,,ENST00000562507,;VAC14-AS1,intron_variant,,ENST00000398177,;VAC14,intron_variant,,ENST00000568548,;VAC14,intron_variant,,ENST00000568886,;VAC14,intron_variant,,ENST00000563662,;"	"TTTTG"	"ENSG00000103043"	"ENST00000261776"	"Transcript"	"intron_variant"	"-/3099"	"-/2349"	"-/782"	""	""	"rs113559875"	"1"	NA	-1	"VAC14"	"HGNC"	25507	"protein_coding"	"YES"	"CCDS10896.1"	"ENSP00000261776"	"Q08AM6"	"Q9NTB8,B3KSM8"	"UPI00001A832B"	"NM_018052.3"	NA	NA	""	"12/18"	""	"TTTG:0.0601"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"4cb081c2-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1056"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	71353977	71353981	"+"	"IGR"	"DEL"	"GCATG"	"GCATG"	"-"	"rs72437812"	NA	"JHCCPT1"	"JHCCPN1"	"GCATG"	"GCATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs72437812"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2582"	"-:0.4138"	"-:0.0951"	NA	"-:0.3909"	"-:0.1103"	"-:0.1789"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGCATGG"	"3d908084-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1057"	"AP1G1"	164	"mskcc.org"	"GRCh37"	"16"	71788244	71788247	"+"	"Intron"	"DEL"	"AAAG"	"AAAG"	"-"	"rs139492288"	NA	"JHCCPT1"	"JHCCPN1"	"AAAG"	"AAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1239-457_1239-454delCTTT"	""	""	"ENST00000393512"	""	20	"."	4	3	"."	0	"AP1G1,intron_variant,,ENST00000299980,NM_001128.5;AP1G1,intron_variant,,ENST00000423132,;AP1G1,intron_variant,,ENST00000569748,;AP1G1,intron_variant,,ENST00000433195,;AP1G1,intron_variant,,ENST00000393512,NM_001030007.1;SNORD71,downstream_gene_variant,,ENST00000411292,NR_003059.1;AP1G1,upstream_gene_variant,,ENST00000562934,;AP1G1,intron_variant,,ENST00000565642,;AP1G1,intron_variant,,ENST00000565009,;AP1G1,intron_variant,,ENST00000568327,;AP1G1,intron_variant,,ENST00000566179,;AP1G1,intron_variant,,ENST00000569044,;AP1G1,downstream_gene_variant,,ENST00000450149,;"	"-"	"ENSG00000166747"	"ENST00000393512"	"Transcript"	"intron_variant"	"-/3593"	"-/2478"	"-/825"	""	""	"rs139492288"	"1"	NA	-1	"AP1G1"	"HGNC"	555	"protein_coding"	"YES"	"CCDS45522.1"	"ENSP00000377148"	"O43747"	"H3BV30,H3BS13,H3BRM7,H3BR36,H3BPN9,H3BN75,H3BN71,B3KNW1"	"UPI000016A4AD"	"NM_001030007.1"	NA	NA	""	"13/23"	""	"-:0.1532"	"-:0.1036"	"-:0.17"	NA	"-:0.0417"	"-:0.3012"	"-:0.1708"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAGA"	"3db6d888-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"1058"	"DHX38"	9785	"mskcc.org"	"GRCh37"	"16"	72140339	72140340	"+"	"Intron"	"INS"	"-"	"-"	"TTTCTTTC"	"rs137861150"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2600+331_2600+338dupCTTTCTTT"	""	""	"ENST00000268482"	""	17	"."	3	4	"."	0	"DHX38,intron_variant,,ENST00000268482,NM_014003.3;DHX38,intron_variant,,ENST00000536867,;DHX38,intron_variant,,ENST00000562774,;DHX38,upstream_gene_variant,,ENST00000567142,;DHX38,upstream_gene_variant,,ENST00000563819,;DHX38,intron_variant,,ENST00000579387,;DHX38,upstream_gene_variant,,ENST00000567552,;DHX38,downstream_gene_variant,,ENST00000569935,;DHX38,downstream_gene_variant,,ENST00000566329,;DHX38,upstream_gene_variant,,ENST00000569952,;DHX38,upstream_gene_variant,,ENST00000564622,;"	"TTTCTTTC"	"ENSG00000140829"	"ENST00000268482"	"Transcript"	"intron_variant"	"-/4608"	"-/3684"	"-/1227"	""	""	"rs137861150"	"1"	NA	1	"DHX38"	"HGNC"	17211	"protein_coding"	"YES"	"CCDS10907.1"	"ENSP00000268482"	"Q92620"	"H3BV01,H3BQT9,B4DN69,B4DM30"	"UPI000002FBFE"	"NM_014003.3"	NA	NA	""	"19/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"15"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"4d0aa6f2-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"1059"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	72429450	72429450	"+"	"IGR"	"DEL"	"A"	"-"	"-"	"rs34473234"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34473234"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0475"	"-:0.0061"	"-:0.0937"	NA	"-:0"	"-:0.1441"	"-:0.0204"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"3e031de2-2764-11e6-a260-9cdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1060"	"ADAT1"	23536	"mskcc.org"	"GRCh37"	"16"	75637618	75637618	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs35256603"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1290-549delT"	""	""	"ENST00000307921"	""	9	"."	5	5	"."	0	"ADAT1,intron_variant,,ENST00000307921,NM_012091.3;ADAT1,intron_variant,,ENST00000566450,;ADAT1,upstream_gene_variant,,ENST00000568510,;RP11-77K12.8,intron_variant,,ENST00000564489,;ADAT1,upstream_gene_variant,,ENST00000568478,;ADAT1,intron_variant,,ENST00000566445,;"	"-"	"ENSG00000065457"	"ENST00000307921"	"Transcript"	"intron_variant"	"-/1869"	"-/1509"	"-/502"	""	""	"rs35256603"	"1"	NA	-1	"ADAT1"	"HGNC"	228	"protein_coding"	"YES"	"CCDS10922.1"	"ENSP00000310015"	"Q9BUB4"	"H3BU72,H3BP18"	"UPI000006FD70"	"NM_012091.3"	NA	NA	""	"9/10"	""	"A:0.1873"	"-:0.966"	"-:0.7752"	NA	"-:0.9613"	"-:0.5626"	"-:0.7362"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAC"	"3ebe01a2-2764-11e6-a260-9cdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"1061"	"WWOX"	51741	"mskcc.org"	"GRCh37"	"16"	78534298	78534299	"+"	"Intron"	"INS"	"-"	"-"	"TTCT"	"rs112162641"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1056+67653_1056+67656dupTTTC"	""	""	"ENST00000566780"	""	9	"."	6	3	"."	0	"WWOX,intron_variant,,ENST00000566780,NM_016373.2;WWOX,intron_variant,,ENST00000406884,;WWOX,intron_variant,,ENST00000539474,;WWOX,intron_variant,,ENST00000402655,;WWOX,intron_variant,,ENST00000408984,;RP11-264L1.4,intron_variant,,ENST00000563408,;WWOX,intron_variant,,ENST00000569332,;"	"TTCT"	"ENSG00000186153"	"ENST00000566780"	"Transcript"	"intron_variant"	"-/2482"	"-/1245"	"-/414"	""	""	"rs112162641"	"1"	NA	1	"WWOX"	"HGNC"	12799	"protein_coding"	"YES"	"CCDS42196.1"	"ENSP00000457230"	"Q9NZC7"	""	"UPI000004C797"	"NM_016373.2"	NA	NA	""	"8/8"	""	"-:0.1316"	"TTCT:0.7572"	"TTCT:0.9827"	NA	"TTCT:0.8661"	"TTCT:0.9682"	"TTCT:0.8374"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"4db53fa4-2764-11e6-a260-9cdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1062"	"WWOX"	51741	"mskcc.org"	"GRCh37"	"16"	78867320	78867325	"+"	"Intron"	"DEL"	"CTCCTC"	"CTCCTC"	"-"	"rs111393268"	NA	"JHCCPT1"	"JHCCPN1"	"CTCCTC"	"CTCCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1057-378162_1057-378157delCCTCCT"	""	""	"ENST00000566780"	""	9	"."	3	2	"."	0	"WWOX,intron_variant,,ENST00000566780,NM_016373.2;WWOX,intron_variant,,ENST00000406884,;WWOX,intron_variant,,ENST00000539474,;WWOX,intron_variant,,ENST00000402655,;WWOX,intron_variant,,ENST00000569332,;"	"-"	"ENSG00000186153"	"ENST00000566780"	"Transcript"	"intron_variant"	"-/2482"	"-/1245"	"-/414"	""	""	"rs111393268"	"1"	NA	1	"WWOX"	"HGNC"	12799	"protein_coding"	"YES"	"CCDS42196.1"	"ENSP00000457230"	"Q9NZC7"	""	"UPI000004C797"	"NM_016373.2"	NA	NA	""	"8/8"	""	"CTCCTC:0.4422"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"23"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATCTCCTCC"	"3f0522d0-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1063"	"RP11-345M22.1"	101928248	"mskcc.org"	"GRCh37"	"16"	79711719	79711720	"+"	"Intron"	"DEL"	"GC"	"GC"	"-"	"rs138856451"	NA	"JHCCPT1"	"JHCCPN1"	"GC"	"GC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.101+1615_101+1616delCG"	""	""	"ENST00000563360"	""	8	"."	3	2	"."	0	"RP11-345M22.1,intron_variant,,ENST00000563360,;"	"-"	"ENSG00000260876"	"ENST00000563360"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/546"	""	""	""	""	"rs138856451"	"1"	NA	1	"RP11-345M22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGCG"	"3f2a2dc8-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1064"	"PLCG2"	5336	"mskcc.org"	"GRCh37"	"16"	81815479	81815485	"+"	"Intron"	"DEL"	"CCCCCCG"	"CCCCCCG"	"-"	"rs148669659"	NA	"JHCCPT1"	"JHCCPN1"	"CCCCCCG"	"CCCCCCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-48+2453_-48+2459delCCCGCCC"	""	""	"ENST00000359376"	""	11	"."	3	5	"."	0	"PLCG2,intron_variant,,ENST00000359376,NM_002661.3;PLCG2,intron_variant,,ENST00000565054,;PLCG2,intron_variant,,ENST00000569929,;PLCG2,upstream_gene_variant,,ENST00000567980,;"	"-"	"ENSG00000197943"	"ENST00000359376"	"Transcript"	"intron_variant"	"-/4308"	"-/3798"	"-/1265"	""	""	"rs148669659"	"1"	NA	1	"PLCG2"	"HGNC"	9066	"protein_coding"	"YES"	"CCDS42204.1"	"ENSP00000352336"	"P16885"	"H3BQV5"	"UPI00001411F7"	"NM_002661.3"	NA	NA	""	"1/32"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCCCCCCCGC"	"3fa4e130-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"1065"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	82254659	82254663	"+"	"IGR"	"DEL"	"CTTTC"	"CTTTC"	"-"	"rs71146068"	NA	"JHCCPT1"	"JHCCPN1"	"CTTTC"	"CTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71146068"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CTTTC:0.4004"	"-:0.3888"	"-:0.5403"	NA	"-:0.627"	"-:0.8489"	"-:0.6421"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCTTTCC"	"3fe2944e-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1066"	"CDH13"	1012	"mskcc.org"	"GRCh37"	"16"	83140931	83140933	"+"	"Intron"	"DEL"	"GTG"	"GTG"	"-"	"rs36058919"	NA	"JHCCPT1"	"JHCCPN1"	"GTG"	"GTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.508-18041_508-18039delGTG"	""	""	"ENST00000268613"	""	15	"."	4	11	"."	0	"CDH13,intron_variant,,ENST00000566620,NM_001257.4,NM_001220490.1,NM_001220489.1,NM_001220488.1;CDH13,intron_variant,,ENST00000268613,;CDH13,intron_variant,,ENST00000428848,;CDH13,intron_variant,,ENST00000431540,NM_001220491.1;CDH13,intron_variant,,ENST00000565636,NM_001220492.1;CDH13,intron_variant,,ENST00000446376,;CDH13,intron_variant,,ENST00000569454,;CDH13,intron_variant,,ENST00000539548,;"	"-"	"ENSG00000140945"	"ENST00000268613"	"Transcript"	"intron_variant"	"-/2722"	"-/2283"	"-/760"	""	""	"rs36058919"	"1"	NA	1	"CDH13"	"HGNC"	1753	"protein_coding"	"YES"	"CCDS58485.1"	"ENSP00000268613"	"P55290"	""	"UPI00020E71A6"	""	NA	NA	""	"4/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"18"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGTGG"	"3feebc2e-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"1067"	"CDH13"	1012	"mskcc.org"	"GRCh37"	"16"	83459352	83459355	"+"	"Intron"	"DEL"	"TTCT"	"TTCT"	"-"	"rs79002384"	NA	"JHCCPT1"	"JHCCPN1"	"TTCT"	"TTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.923-60722_923-60719delTTCT"	""	""	"ENST00000268613"	""	13	"."	4	3	"."	0	"CDH13,intron_variant,,ENST00000566620,NM_001257.4,NM_001220490.1,NM_001220489.1,NM_001220488.1;CDH13,intron_variant,,ENST00000268613,;CDH13,intron_variant,,ENST00000428848,;CDH13,intron_variant,,ENST00000569454,;CDH13,intron_variant,,ENST00000539548,;"	"-"	"ENSG00000140945"	"ENST00000268613"	"Transcript"	"intron_variant"	"-/2722"	"-/2283"	"-/760"	""	""	"rs79002384"	"1"	NA	1	"CDH13"	"HGNC"	1753	"protein_coding"	"YES"	"CCDS58485.1"	"ENSP00000268613"	"P55290"	""	"UPI00020E71A6"	""	NA	NA	""	"7/14"	""	"-:0.2552"	"-:0.1112"	"-:0.3242"	NA	"-:0.4901"	"-:0.2087"	"-:0.2065"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTCTT"	"3ff3a4c8-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"1068"	"DNAAF1"	123872	"mskcc.org"	"GRCh37"	"16"	84194731	84194731	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs55926645"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.863+1333delC"	""	""	"ENST00000378553"	""	6	"."	3	2	"."	0	"DNAAF1,intron_variant,,ENST00000378553,NM_178452.4;DNAAF1,intron_variant,,ENST00000334315,;DNAAF1,intron_variant,,ENST00000563818,;DNAAF1,intron_variant,,ENST00000567666,;DNAAF1,intron_variant,,ENST00000570298,;DNAAF1,intron_variant,,ENST00000563093,;DNAAF1,downstream_gene_variant,,ENST00000567918,;"	"-"	"ENSG00000154099"	"ENST00000378553"	"Transcript"	"intron_variant"	"-/2379"	"-/2178"	"-/725"	""	""	"rs55926645"	"1"	NA	1	"DNAAF1"	"HGNC"	30539	"protein_coding"	"YES"	"CCDS10943.2"	"ENSP00000367815"	"Q8NEP3"	"H3BP51"	"UPI000059D3C9"	"NM_178452.4"	NA	NA	""	"6/11"	""	"C:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTCC"	"40584b3a-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1069"	"RP11-254F19.3"	0	"mskcc.org"	"GRCh37"	"16"	84972598	84972599	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs72165774"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.376-385_376-384delTG"	""	""	"ENST00000569104"	""	9	"."	5	2	"."	0	"RP11-254F19.3,intron_variant,,ENST00000569104,;"	"-"	"ENSG00000260340"	"ENST00000569104"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/598"	""	""	""	""	"rs72165774"	"1"	NA	1	"RP11-254F19.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	"TG:0.4269"	"-:0.7693"	"-:0.6138"	NA	"-:0.3998"	"-:0.5557"	"-:0.4755"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"40cc9990-2764-11e6-a260-9cdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"1070"	"ENSR00001507172"	0	"mskcc.org"	"GRCh37"	"16"	85241165	85241166	"+"	"IGR"	"INS"	"-"	"-"	"TCTAC"	"rs111744350"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001507172"	""	7	"."	4	3	"."	0	""	"TCTAC"	""	"ENSR00001507172"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs111744350"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3429"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"4e9e086a-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1071"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	85455976	85455976	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	6	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCGG"	"40d9f4c8-2764-11e6-a260-9cdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1072"	"ENSR00000666131"	0	"mskcc.org"	"GRCh37"	"16"	86785371	86785372	"+"	"IGR"	"INS"	"-"	"-"	"CAGAGCCCGCACCCCCAC"	"rs148904286"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000666131"	""	10	"."	4	2	"."	0	""	"CAGAGCCCGCACCCCCAC"	""	"ENSR00000666131"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs148904286"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"CAGAGCCCGCACCCCCAC:0.2794"	"CAGAGCCCGCACCCCCAC:0.3994"	"CAGAGCCCGCACCCCCAC:0.2536"	NA	"CAGAGCCCGCACCCCCAC:0.2788"	"CAGAGCCCGCACCCCCAC:0.1262"	"CAGAGCCCGCACCCCCAC:0.2935"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"4ed43066-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1073"	"JPH3"	57338	"mskcc.org"	"GRCh37"	"16"	87654094	87654095	"+"	"Intron"	"INS"	"-"	"-"	"GAGAAGGAGAGAAGAGAGG"	"rs567233291"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.382+16963_382+16964insAAGGAGAGAAGAGAGGGAG"	""	""	"ENST00000284262"	""	10	"."	3	5	"."	0	"JPH3,intron_variant,,ENST00000284262,NM_020655.3;JPH3,intron_variant,,ENST00000537256,;"	"GAGAAGGAGAGAAGAGAGG"	"ENSG00000154118"	"ENST00000284262"	"Transcript"	"intron_variant"	"-/3985"	"-/2247"	"-/748"	""	""	"rs567233291"	"1"	NA	1	"JPH3"	"HGNC"	14203	"protein_coding"	"YES"	"CCDS10962.1"	"ENSP00000284262"	"Q8WXH2"	"B4DLY6,B4DIC1,B3KP13"	"UPI000012DAC4"	"NM_020655.3"	NA	NA	""	"1/4"	""	"GAGA:0.0027"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"4edf8c9a-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1074"	"ZFPM1"	161882	"mskcc.org"	"GRCh37"	"16"	88580325	88580325	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs746933401"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.269-468delG"	""	""	"ENST00000319555"	""	7	"."	4	4	"."	0	"ZFPM1,intron_variant,,ENST00000319555,NM_153813.2;RP11-21B21.4,intron_variant,,ENST00000563243,;ZFPM1,intron_variant,,ENST00000569086,;ZFPM1,intron_variant,,ENST00000562437,;ZFPM1,intron_variant,,ENST00000563351,;"	"-"	"ENSG00000179588"	"ENST00000319555"	"Transcript"	"intron_variant"	"-/5380"	"-/3021"	"-/1006"	""	""	"rs746933401"	"1"	NA	1	"ZFPM1"	"HGNC"	19762	"protein_coding"	"YES"	"CCDS32502.1"	"ENSP00000326630"	"Q8IX07"	""	"UPI000049DE26"	"NM_153813.2"	NA	NA	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGG"	"41540a60-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1075"	"ZFPM1"	161882	"mskcc.org"	"GRCh37"	"16"	88593211	88593211	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35678431"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.403-11delT"	""	""	"ENST00000319555"	""	38	"."	6	20	"."	0	"ZFPM1,intron_variant,,ENST00000319555,NM_153813.2;RP11-21B21.4,intron_variant,,ENST00000563243,;"	"-"	"ENSG00000179588"	"ENST00000319555"	"Transcript"	"intron_variant"	"-/5380"	"-/3021"	"-/1006"	""	""	"rs35678431"	"1"	NA	1	"ZFPM1"	"HGNC"	19762	"protein_coding"	"YES"	"CCDS32502.1"	"ENSP00000326630"	"Q8IX07"	""	"UPI000049DE26"	"NM_153813.2"	NA	NA	""	"4/9"	""	"T:0.3748"	"-:0.5242"	"-:0.6787"	NA	"-:0.6508"	"-:0.7068"	"-:0.6135"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.7765"	"0.4697"	"0.7269"	"0.5772"	"0.7083"	"0.628"	"0.5278"	"0.5741"	NA	"common_variant"	"CCTC"	"41595e98-2764-11e6-a260-9cdd414a729f"	"360"	0.589	"4507/7652"	"22415/28866"	"248/528"	"189/260"	"157/272"	"17/24"	"1496/2382"	"38/72"	"2362/4114"	"PASS"	"FALSE"	0.157894736842105	"WXS"	FALSE
"1076"	"CTD-2555A7.1"	0	"mskcc.org"	"GRCh37"	"16"	89060227	89060228	"+"	"Intron"	"INS"	"-"	"-"	"CT"	"rs74401570"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.289-1362_289-1361dupCT"	""	""	"ENST00000562040"	""	6	"."	4	3	"."	0	"CTD-2555A7.1,intron_variant,,ENST00000562040,;"	"CT"	"ENSG00000259989"	"ENST00000562040"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/472"	""	""	""	""	"rs74401570"	"1"	NA	1	"CTD-2555A7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"4f3967c4-2764-11e6-a260-9cdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1077"	"ANKRD11"	29123	"mskcc.org"	"GRCh37"	"16"	89356883	89356905	"+"	"Intron"	"DEL"	"GGGGGAGGCTCAGGGCTCCAATG"	"GGGGGAGGCTCAGGGCTCCAATG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GGGGGAGGCTCAGGGCTCCAATG"	"GGGGGAGGCTCAGGGCTCCAATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.601+128_601+150delCATTGGAGCCCTGAGCCTCCCCC"	""	""	"ENST00000301030"	""	8	"."	3	3	"."	0	"ANKRD11,intron_variant,,ENST00000301030,NM_001256183.1,NM_013275.5;ANKRD11,intron_variant,,ENST00000378330,NM_001256182.1;ANKRD11,upstream_gene_variant,,ENST00000562194,;ANKRD11,downstream_gene_variant,,ENST00000562816,;ANKRD11,intron_variant,,ENST00000330736,;ANKRD11,intron_variant,,ENST00000562275,;ANKRD11,intron_variant,,ENST00000378332,;ANKRD11,upstream_gene_variant,,ENST00000568100,;ANKRD11,downstream_gene_variant,,ENST00000564553,;"	"-"	"ENSG00000167522"	"ENST00000301030"	"Transcript"	"intron_variant"	"-/9301"	"-/7992"	"-/2663"	""	""	""	"1"	NA	-1	"ANKRD11"	"HGNC"	21316	"protein_coding"	"YES"	"CCDS32513.1"	"ENSP00000301030"	"Q6UB99"	""	"UPI00004569E1"	"NM_001256183.1,NM_013275.5"	NA	NA	""	"6/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCGGGGGAGGCTCAGGGCTCCAATGG"	"41f8f7f0-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1078"	"CPNE7"	27132	"mskcc.org"	"GRCh37"	"16"	89653524	89653525	"+"	"Intron"	"INS"	"-"	"-"	"CCGCCCCATG"	"rs139314142"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1152+22_1152+31dupATGCCGCCCC"	""	""	"ENST00000268720"	""	25	"."	6	12	"."	0	"CPNE7,intron_variant,,ENST00000268720,NM_014427.4;CPNE7,intron_variant,,ENST00000319518,NM_153636.2;CPNE7,intron_variant,,ENST00000529800,;CPNE7,intron_variant,,ENST00000532500,;CPNE7,upstream_gene_variant,,ENST00000568977,;CPNE7,downstream_gene_variant,,ENST00000525982,;"	"CCGCCCCATG"	"ENSG00000178773"	"ENST00000268720"	"Transcript"	"intron_variant"	"-/2657"	"-/1902"	"-/633"	""	""	"rs139314142"	"1"	NA	1	"CPNE7"	"HGNC"	2320	"protein_coding"	"YES"	"CCDS10980.1"	"ENSP00000268720"	"Q9UBL6"	""	"UPI0000127C17"	"NM_014427.4"	NA	NA	""	"11/16"	""	"CCGCCCCATG:0.3281"	"CCGCCCCATG:0.2421"	"CCGCCCCATG:0.255"	NA	"CCGCCCCATG:0.376"	"CCGCCCCATG:0.3231"	"CCGCCCCATG:0.4519"	"CCGCCCCATG:0.2107"	"CCGCCCCATG:0.2875"	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"17"	NA	"1"	"0.1323"	"0.1145"	"0.112"	"0.1482"	"0.1094"	"0.1059"	"0.1019"	"0.1309"	NA	"common_variant"	"CCC"	"4f68776c-2764-11e6-a260-9cdd414a729f"	"360"	0.1193	"1638/13730"	"11076/83708"	"226/1974"	"54/482"	"83/560"	"7/64"	"519/4902"	"11/108"	"738/5640"	"PASS"	"FALSE"	0.24	"WXS"	FALSE
"1079"	"FANCA"	2175	"mskcc.org"	"GRCh37"	"16"	89874487	89874493	"+"	"Intron"	"DEL"	"CAAACAA"	"CAAACAA"	"AACAAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CAAACAA"	"CAAACAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.596+211_596+215delGTTTGinsTGTT"	""	""	"ENST00000389301"	""	13	"."	3	4	"."	0	"FANCA,intron_variant,,ENST00000389301,NM_000135.2;FANCA,intron_variant,,ENST00000568369,NM_001286167.1;FANCA,intron_variant,,ENST00000563673,;FANCA,intron_variant,,ENST00000389302,NM_001018112.1;FANCA,intron_variant,,ENST00000534992,;FANCA,intron_variant,,ENST00000543736,;FANCA,intron_variant,,ENST00000566889,;FANCA,intron_variant,,ENST00000565582,;FANCA,intron_variant,,ENST00000567621,;FANCA,downstream_gene_variant,,ENST00000567943,;FANCA,downstream_gene_variant,,ENST00000567883,;FANCA,downstream_gene_variant,,ENST00000563513,;"	"AACA"	"ENSG00000187741"	"ENST00000389301"	"Transcript"	"intron_variant"	"-/5451"	"-/4368"	"-/1455"	""	""	""	"1"	NA	-1	"FANCA"	"HGNC"	3582	"protein_coding"	"YES"	"CCDS32515.1"	"ENSP00000373952"	"O15360"	"H3BT53"	"UPI0000520A1A"	"NM_000135.2"	NA	NA	""	"6/42"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGCAAACAAA"	"43160722-2764-11e6-a260-9cdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	TRUE
"1080"	"RPH3AL"	9501	"mskcc.org"	"GRCh37"	"17"	181082	181083	"+"	"Intron"	"INS"	"-"	"-"	"GAGCCAAATGCTGCAGAGATGAAGGGAGATGAAAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-37+2467_-37+2468insCTTTCATCTCCCTTCATCTCTGCAGCATTTGGCTC"	""	""	"ENST00000331302"	""	15	"."	5	4	"."	0	"RPH3AL,intron_variant,,ENST00000323434,NM_001190412.1;RPH3AL,intron_variant,,ENST00000331302,NM_006987.3,NM_001190411.1;RPH3AL,intron_variant,,ENST00000536489,NM_001190413.1;RPH3AL,intron_variant,,ENST00000576420,;RPH3AL,intron_variant,,ENST00000577079,;RPH3AL,intron_variant,,ENST00000573588,;RPH3AL,intron_variant,,ENST00000575130,;RPH3AL,intron_variant,,ENST00000575634,;RPH3AL,intron_variant,,ENST00000575736,;RPH3AL,intron_variant,,ENST00000570638,;RPH3AL,intron_variant,,ENST00000573780,;RPH3AL,intron_variant,,ENST00000573448,;RPH3AL,upstream_gene_variant,,ENST00000574953,;RPH3AL,upstream_gene_variant,,ENST00000574722,;RP11-1260E13.4,non_coding_transcript_exon_variant,,ENST00000570711,;RP11-1260E13.4,upstream_gene_variant,,ENST00000573601,;RPH3AL,downstream_gene_variant,,ENST00000574011,;RP11-1260E13.4,non_coding_transcript_exon_variant,,ENST00000575743,;RP11-1260E13.4,upstream_gene_variant,,ENST00000575899,;"	"GAGCCAAATGCTGCAGAGATGAAGGGAGATGAAAG"	"ENSG00000181031"	"ENST00000331302"	"Transcript"	"intron_variant"	"-/2606"	"-/948"	"-/315"	""	""	""	"1"	NA	-1	"RPH3AL"	"HGNC"	10296	"protein_coding"	"YES"	"CCDS10994.1"	"ENSP00000328977"	"Q9UNE2"	"I3NI49,I3L3M9,I3L349,I3L308,I3L2X0,I3L2W0,I3L2N0,I3L1Q0,I3L181"	"UPI000006FBCB"	"NM_006987.3,NM_001190411.1"	NA	NA	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"478eb6d2-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1081"	"ABR"	29	"mskcc.org"	"GRCh37"	"17"	947439	947440	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs35493163"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1791+5850dupC"	""	""	"ENST00000302538"	""	9	"."	4	1	"."	0	"ABR,intron_variant,,ENST00000544583,NM_001159746.2;ABR,intron_variant,,ENST00000302538,NM_021962.3,NM_001282149.1;ABR,intron_variant,,ENST00000574437,;ABR,intron_variant,,ENST00000291107,NM_001092.4;ABR,intron_variant,,ENST00000536794,;ABR,upstream_gene_variant,,ENST00000571022,;ABR,intron_variant,,ENST00000572152,;ABR,intron_variant,,ENST00000574257,;"	"G"	"ENSG00000159842"	"ENST00000302538"	"Transcript"	"intron_variant"	"-/5289"	"-/2580"	"-/859"	""	""	"rs35493163"	"1"	NA	-1	"ABR"	"HGNC"	81	"protein_coding"	"YES"	"CCDS10999.1"	"ENSP00000303909"	"Q12979"	"I3L4Y1,I3L2P5,I3L2L3,I3L259,B7Z2X0"	"UPI00001AED3D"	"NM_021962.3,NM_001282149.1"	NA	NA	""	"16/22"	""	"-:0.3748"	"G:0.413"	"G:0.4524"	NA	"G:0.8492"	"G:0.6163"	"G:0.8129"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"47ac802c-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1082"	"ABR"	29	"mskcc.org"	"GRCh37"	"17"	1133410	1133411	"+"	"5'Flank"	"INS"	"-"	"-"	"TGACTGAT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000575934"	""	6	"."	3	1	"."	0	"ABR,upstream_gene_variant,,ENST00000575934,;ABR,upstream_gene_variant,,ENST00000574139,;ABR,upstream_gene_variant,,ENST00000571543,;"	"TGACTGAT"	"ENSG00000159842"	"ENST00000575934"	"Transcript"	"upstream_gene_variant"	"-/689"	"-/400"	"-/133"	""	""	""	"1"	"1112"	-1	"ABR"	"HGNC"	81	"protein_coding"	""	""	"ENSP00000460770"	""	"I3L3W0"	"UPI00025A2C23"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"47b0d460-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1083"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	1236515	1236516	"+"	"IGR"	"INS"	"-"	"-"	"CAT"	"rs138256710"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	5	"."	0	""	"CAT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138256710"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CAT:0.0312"	"CAT:0.0923"	"CAT:0.0101"	NA	"CAT:0"	"CAT:0.0229"	"CAT:0.0041"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"47b2095c-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1084"	"SLC43A2"	124935	"mskcc.org"	"GRCh37"	"17"	1510427	1510428	"+"	"Intron"	"INS"	"-"	"-"	"CAA"	"rs72531703"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.501+6061_501+6062insTTG"	""	""	"ENST00000301335"	""	6	"."	4	2	"."	0	"SLC43A2,intron_variant,,ENST00000301335,;SLC43A2,intron_variant,,ENST00000571650,NM_001284498.1;SLC43A2,intron_variant,,ENST00000382147,NM_152346.1;SLC43A2,upstream_gene_variant,,ENST00000412517,NM_001284499.1;RN7SL105P,upstream_gene_variant,,ENST00000475661,;SLC43A2,upstream_gene_variant,,ENST00000574274,;SLC43A2,intron_variant,,ENST00000572135,;SLC43A2,intron_variant,,ENST00000574743,;SLC43A2,intron_variant,,ENST00000572801,;SLC43A2,intron_variant,,ENST00000571376,;SLC43A2,upstream_gene_variant,,ENST00000576721,;"	"CAA"	"ENSG00000167703"	"ENST00000301335"	"Transcript"	"intron_variant"	"-/8136"	"-/1710"	"-/569"	""	""	"rs72531703"	"1"	NA	-1	"SLC43A2"	"HGNC"	23087	"protein_coding"	"YES"	"CCDS11006.1"	"ENSP00000301335"	"Q8N370"	"Q8NBW0"	"UPI00000707A9"	""	NA	NA	""	"5/13"	""	"-:0.0581"	"CAA:0.792"	"CAA:0.9784"	NA	"CAA:0.999"	"CAA:1"	"CAA:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"47c1a524-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1085"	"DPH1"	1801	"mskcc.org"	"GRCh37"	"17"	1947990	1947991	"+"	"3'Flank"	"DEL"	"AC"	"AC"	"-"	"rs10556327"	NA	"JHCCPT1"	"JHCCPN1"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000263083"	""	6	"."	4	1	"."	0	"DPH1,downstream_gene_variant,,ENST00000263083,NM_001383.3;DPH1,downstream_gene_variant,,ENST00000571710,;DPH1,downstream_gene_variant,,ENST00000570477,;DPH1,downstream_gene_variant,,ENST00000571418,;OVCA2,downstream_gene_variant,,ENST00000572195,NM_080822.2;DPH1,downstream_gene_variant,,ENST00000607788,;DPH1,downstream_gene_variant,,ENST00000575162,;RP11-667K14.3,non_coding_transcript_exon_variant,,ENST00000572790,;RP11-667K14.4,upstream_gene_variant,,ENST00000572404,;DPH1,downstream_gene_variant,,ENST00000572684,;DPH1,downstream_gene_variant,,ENST00000570867,;DPH1,downstream_gene_variant,,ENST00000575667,;DPH1,downstream_gene_variant,,ENST00000572214,;DPH1,downstream_gene_variant,,ENST00000570833,;DPH1,downstream_gene_variant,,ENST00000263084,;DPH1,downstream_gene_variant,,ENST00000572248,;DPH1,downstream_gene_variant,,ENST00000575998,;"	"-"	"ENSG00000108963"	"ENST00000263083"	"Transcript"	"downstream_gene_variant"	"-/2221"	"-/1332"	"-/443"	""	""	"rs10556327"	"1"	"1266"	1	"DPH1"	"HGNC"	3003	"protein_coding"	"YES"	"CCDS42228.1"	"ENSP00000263083"	"Q9BZG8"	"B3KQW7"	"UPI000013D3A0"	"NM_001383.3"	NA	NA	""	""	""	"AC:0.1895"	"-:0.826"	"-:0.8718"	NA	"-:0.9306"	"-:0.7425"	"-:0.6922"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGACA"	"2f42c280-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1086"	"SMG6"	23293	"mskcc.org"	"GRCh37"	"17"	1975035	1975035	"+"	"Intron"	"DEL"	"G"	"-"	"-"	"rs11327052"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3682-2810delC"	""	""	"ENST00000263073"	""	7	"."	6	3	"."	0	"SMG6,intron_variant,,ENST00000544865,;SMG6,intron_variant,,ENST00000263073,NM_017575.4;SMG6,intron_variant,,ENST00000354901,NM_001256827.1;SMG6,intron_variant,,ENST00000536871,NM_001256828.1;SMG6,intron_variant,,ENST00000575454,;SMG6,intron_variant,,ENST00000573166,;SMG6,intron_variant,,ENST00000570756,;SMG6,intron_variant,,ENST00000576218,;SMG6,intron_variant,,ENST00000573827,;"	"-"	"ENSG00000070366"	"ENST00000263073"	"Transcript"	"intron_variant"	"-/5960"	"-/4260"	"-/1419"	""	""	"rs11327052"	"1"	NA	-1	"SMG6"	"HGNC"	17809	"protein_coding"	"YES"	"CCDS11016.1"	"ENSP00000263073"	"Q86US8"	"K7ENH7,K7ELM2,K7EKV2,I3L421,I3L3A9,I3L355,I3L1W8,I3L176"	"UPI00002005C8"	"NM_017575.4"	NA	NA	""	"15/18"	""	"G:0.3708"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCGG"	"2f452750-2764-11e6-a2cd-99dd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"1087"	"RAP1GAP2"	23108	"mskcc.org"	"GRCh37"	"17"	2888572	2888573	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs147694594"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.813+213_813+214delGT"	""	""	"ENST00000254695"	""	25	"."	5	9	"."	0	"RAP1GAP2,intron_variant,,ENST00000254695,NM_015085.4;RAP1GAP2,intron_variant,,ENST00000366401,NM_001100398.1;RAP1GAP2,intron_variant,,ENST00000540393,;RAP1GAP2,intron_variant,,ENST00000542807,;"	"-"	"ENSG00000132359"	"ENST00000254695"	"Transcript"	"intron_variant"	"-/6661"	"-/2193"	"-/730"	""	""	"rs147694594"	"1"	NA	1	"RAP1GAP2"	"HGNC"	29176	"protein_coding"	"YES"	"CCDS45573.1"	"ENSP00000254695"	"Q684P5"	""	"UPI0000D622A3"	"NM_015085.4"	NA	NA	""	"11/24"	""	"-:0.2897"	"-:0.1293"	"-:0.2839"	NA	"-:0.3135"	"-:0.2813"	"-:0.4949"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATGT"	"2f862962-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"1088"	"ATP2A3"	489	"mskcc.org"	"GRCh37"	"17"	3846565	3846565	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1419+120delG"	""	""	"ENST00000359983"	""	82	"."	3	41	"."	0	"ATP2A3,intron_variant,,ENST00000309890,NM_174954.2,NM_174953.2,NM_174955.2,NM_174956.2;ATP2A3,intron_variant,,ENST00000397041,NM_005173.3,NM_174957.2;ATP2A3,intron_variant,,ENST00000397035,NM_174958.2;ATP2A3,intron_variant,,ENST00000397039,;ATP2A3,intron_variant,,ENST00000359983,;ATP2A3,intron_variant,,ENST00000352011,;ATP2A3,intron_variant,,ENST00000397043,;ATP2A3,intron_variant,,ENST00000572694,;"	"-"	"ENSG00000074370"	"ENST00000359983"	"Transcript"	"intron_variant"	"-/3290"	"-/3159"	"-/1052"	""	""	""	"1"	NA	-1	"ATP2A3"	"HGNC"	813	"protein_coding"	"YES"	"CCDS11042.1"	"ENSP00000353072"	"Q93084"	""	"UPI0000161584"	""	NA	NA	""	"11/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCA"	"2fcd1548-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0365853658536585	"WXS"	FALSE
"1089"	"ZZEF1"	23140	"mskcc.org"	"GRCh37"	"17"	4040347	4040348	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs57127461"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.354+5488dupT"	""	""	"ENST00000381638"	""	8	"."	5	1	"."	0	"ZZEF1,intron_variant,,ENST00000381638,NM_015113.3;ZZEF1,intron_variant,,ENST00000574474,;"	"A"	"ENSG00000074755"	"ENST00000381638"	"Transcript"	"intron_variant"	"-/11456"	"-/8886"	"-/2961"	""	""	"rs57127461"	"1"	NA	-1	"ZZEF1"	"HGNC"	29027	"protein_coding"	"YES"	"CCDS11043.1"	"ENSP00000371051"	"O43149"	""	"UPI00004569F7"	"NM_015113.3"	NA	NA	""	"1/54"	""	"-:0.1623"	"A:0.5923"	"A:0.8732"	NA	"A:1"	"A:0.8608"	"A:0.953"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"482a91ce-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1090"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	4667001	4667001	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs34258618"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34258618"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.1583"	"-:0.7844"	"-:0.8689"	NA	"-:0.8631"	"-:0.8499"	"-:0.8691"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTT"	"30809596-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1091"	"WSCD1"	339166	"mskcc.org"	"GRCh37"	"17"	5685073	5685094	"+"	"Intron"	"DEL"	"CAGGTGGAGGATGGCTCAGGTG"	"CAGGTGGAGGATGGCTCAGGTG"	"-"	"rs779427133"	NA	"JHCCPT1"	"JHCCPN1"	"CAGGTGGAGGATGGCTCAGGTG"	"CAGGTGGAGGATGGCTCAGGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-524+8751_-524+8772delGTGGAGGATGGCTCAGGTGCAG"	""	""	"ENST00000573619"	""	15	"."	4	4	"."	0	"WSCD1,intron_variant,,ENST00000573619,;WSCD1,intron_variant,,ENST00000563763,;"	"-"	"ENSG00000179314"	"ENST00000573619"	"Transcript"	"intron_variant"	"-/759"	"-/134"	"-/44"	""	""	"rs779427133"	"1"	NA	1	"WSCD1"	"HGNC"	29060	"protein_coding"	""	""	"ENSP00000461865"	""	"I3NI40"	"UPI00025A2D7A"	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"25"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACAGGTGGAGGATGGCTCAGGTGC"	"3122b3d0-2764-11e6-a2cd-99dd414a729f"	"213"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"1092"	"WSCD1"	339166	"mskcc.org"	"GRCh37"	"17"	5720393	5720393	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34580070"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-523-20105delT"	""	""	"ENST00000573619"	""	8	"."	4	1	"."	0	"WSCD1,intron_variant,,ENST00000573619,;WSCD1,intron_variant,,ENST00000563763,;"	"-"	"ENSG00000179314"	"ENST00000573619"	"Transcript"	"intron_variant"	"-/759"	"-/134"	"-/44"	""	""	"rs34580070"	"1"	NA	1	"WSCD1"	"HGNC"	29060	"protein_coding"	""	""	"ENSP00000461865"	""	"I3NI40"	"UPI00025A2D7A"	""	NA	NA	""	"1/4"	""	"T:0.2414"	"-:0.7027"	"-:0.7392"	NA	"-:0.8026"	"-:0.669"	"-:0.8947"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATT"	"3126bf52-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1093"	"WSCD1"	339166	"mskcc.org"	"GRCh37"	"17"	5777958	5777958	"+"	"Intron"	"DEL"	"G"	"-"	"-"	"rs66667455"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-454-14118delG"	""	""	"ENST00000573619"	""	7	"."	6	2	"."	0	"WSCD1,intron_variant,,ENST00000573619,;WSCD1,intron_variant,,ENST00000563763,;"	"-"	"ENSG00000179314"	"ENST00000573619"	"Transcript"	"intron_variant"	"-/759"	"-/134"	"-/44"	""	""	"rs66667455"	"1"	NA	1	"WSCD1"	"HGNC"	29060	"protein_coding"	""	""	"ENSP00000461865"	""	"I3NI40"	"UPI00025A2D7A"	""	NA	NA	""	"2/4"	""	"-:0.3680"	"-:0.1914"	"-:0.3084"	NA	"-:0.4891"	"-:0.4791"	"-:0.41"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGG"	"312c1e98-2764-11e6-a2cd-99dd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"1094"	"KIAA0753"	9851	"mskcc.org"	"GRCh37"	"17"	6494332	6494333	"+"	"Intron"	"INS"	"-"	"-"	"GAAGGAAGAAGGAAGAAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2441-383_2441-382insCTTCTTCCTTCTTCCTTC"	""	""	"ENST00000361413"	""	16	"."	3	15	"."	0	"KIAA0753,intron_variant,,ENST00000361413,NM_014804.2;KIAA0753,intron_variant,,ENST00000542606,;KIAA0753,intron_variant,,ENST00000572370,;KIAA0753,intron_variant,,ENST00000589033,;KIAA0753,intron_variant,,ENST00000576281,;KIAA0753,intron_variant,,ENST00000575027,;KIAA0753,intron_variant,,ENST00000570790,;KIAA0753,intron_variant,,ENST00000542826,;"	"GAAGGAAGAAGGAAGAAG"	"ENSG00000198920"	"ENST00000361413"	"Transcript"	"intron_variant"	"-/4859"	"-/2904"	"-/967"	""	""	""	"1"	NA	-1	"KIAA0753"	"HGNC"	29110	"protein_coding"	"YES"	"CCDS42247.1"	"ENSP00000355250"	"Q2KHM9"	"I3L1P2,I3L0P7,B7Z6L6"	"UPI000013D2BF"	"NM_014804.2"	NA	NA	""	"16/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"4925ed9e-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"1095"	"NDEL1"	81565	"mskcc.org"	"GRCh37"	"17"	8318421	8318428	"+"	"Intron"	"DEL"	"CCTCCCTC"	"CCTCCCTC"	"-"	"rs143550449"	NA	"JHCCPT1"	"JHCCPN1"	"CCTCCCTC"	"CCTCCCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-13+1851_-13+1858delCTCCCTCC"	""	""	"ENST00000582812"	""	11	"."	4	4	"."	0	"NDEL1,intron_variant,,ENST00000582812,;NDEL1,intron_variant,,ENST00000579150,;NDEL1,intron_variant,,ENST00000580237,;"	"-"	"ENSG00000166579"	"ENST00000582812"	"Transcript"	"intron_variant"	"-/588"	"-/437"	"-/145"	""	""	"rs143550449"	"1"	NA	1	"NDEL1"	"HGNC"	17620	"protein_coding"	""	""	"ENSP00000462052"	""	"J3QL31,J3KT16,J3KSF2,J3KRK9"	"UPI000268B0E4"	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCCTCCCTCC"	"3383a472-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"1096"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	8565912	8565913	"+"	"IGR"	"INS"	"-"	"-"	"GAAGGAAG"	"rs57011685"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"GAAGGAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs57011685"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1224"	"GAAGGAAG:0.9644"	"GAAGGAAG:0.8804"	NA	"GAAGGAAG:0.8204"	"GAAGGAAG:0.8638"	"GAAGGAAG:0.8313"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"4a5d93ce-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1097"	"GAS7"	8522	"mskcc.org"	"GRCh37"	"17"	9830497	9830498	"+"	"Intron"	"INS"	"-"	"-"	"GCTCAT"	"rs145533685"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.886-417_886-412dupATGAGC"	""	""	"ENST00000432992"	""	6	"."	3	2	"."	0	"GAS7,intron_variant,,ENST00000323816,;GAS7,intron_variant,,ENST00000437099,NM_001130831.1;GAS7,intron_variant,,ENST00000432992,NM_201433.1;GAS7,intron_variant,,ENST00000540214,;GAS7,intron_variant,,ENST00000585266,NM_201432.1;GAS7,intron_variant,,ENST00000580865,NM_003644.2;GAS7,intron_variant,,ENST00000542249,;GAS7,intron_variant,,ENST00000579158,;GAS7,intron_variant,,ENST00000396115,;GAS7,intron_variant,,ENST00000583882,;GAS7,intron_variant,,ENST00000580811,;GAS7,intron_variant,,ENST00000581871,;GAS7,upstream_gene_variant,,ENST00000581112,;GAS7,upstream_gene_variant,,ENST00000578456,;"	"GCTCAT"	"ENSG00000007237"	"ENST00000432992"	"Transcript"	"intron_variant"	"-/4970"	"-/1431"	"-/476"	""	""	"rs145533685"	"1"	NA	-1	"GAS7"	"HGNC"	4169	"protein_coding"	"YES"	"CCDS11152.1"	"ENSP00000407552"	"O60861"	"J3QS26,J3QLH8,J3KTK6,J3KTB1,J3KS47,B7Z1Q2"	"UPI00001B4B17"	"NM_201433.1"	NA	NA	""	"9/13"	""	"GCTCAT:0.2819"	"GCTCAT:0.2814"	"GCTCAT:0.2723"	NA	"GCTCAT:0.1548"	"GCTCAT:0.4205"	"GCTCAT:0.2781"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"4a982e08-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	TRUE
"1098"	"MYH3"	4621	"mskcc.org"	"GRCh37"	"17"	10557479	10557479	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34881167"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.204+699delA"	""	""	"ENST00000583535"	""	9	"."	4	6	"."	0	"MYH3,intron_variant,,ENST00000583535,NM_002470.3;MYH3,intron_variant,,ENST00000226209,;CTC-297N7.1,downstream_gene_variant,,ENST00000569543,;MYH3,intron_variant,,ENST00000582580,;MYH3,upstream_gene_variant,,ENST00000579489,;"	"-"	"ENSG00000109063"	"ENST00000583535"	"Transcript"	"intron_variant"	"-/6037"	"-/5823"	"-/1940"	""	""	"rs34881167"	"1"	NA	-1	"MYH3"	"HGNC"	7573	"protein_coding"	"YES"	"CCDS11157.1"	"ENSP00000464317"	"P11055"	""	"UPI000013C892"	"NM_002470.3"	NA	NA	""	"3/40"	""	"-:0.4858"	"-:0.2526"	"-:0.5346"	NA	"-:0.378"	"-:0.7972"	"-:0.5573"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTT"	"34d0fe6a-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1099"	"DNAH9"	1770	"mskcc.org"	"GRCh37"	"17"	11778074	11778075	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs34987580"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.10243-182dupA"	""	""	"ENST00000262442"	""	19	"."	5	4	"."	0	"DNAH9,intron_variant,,ENST00000262442,NM_001372.3;DNAH9,intron_variant,,ENST00000454412,;DNAH9,intron_variant,,ENST00000579703,;RP11-628O18.1,downstream_gene_variant,,ENST00000579621,;DNAH9,intron_variant,,ENST00000580255,;"	"A"	"ENSG00000007174"	"ENST00000262442"	"Transcript"	"intron_variant"	"-/13750"	"-/13461"	"-/4486"	""	""	"rs34987580"	"1"	NA	1	"DNAH9"	"HGNC"	2953	"protein_coding"	"YES"	"CCDS11160.1"	"ENSP00000262442"	"Q9NYC9"	"Q92865"	"UPI0000141BA2"	"NM_001372.3"	NA	NA	""	"52/68"	""	"A:0.3257"	"A:0.3132"	"A:0.2752"	NA	"A:0.2669"	"A:0.4165"	"A:0.3456"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"4b326da6-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"1100"	"ARHGAP44"	9912	"mskcc.org"	"GRCh37"	"17"	12797625	12797626	"+"	"Intron"	"INS"	"-"	"-"	"GA"	"rs141952300"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.54-614_54-613dupAG"	""	""	"ENST00000379672"	""	7	"."	4	3	"."	0	"ARHGAP44,intron_variant,,ENST00000379672,NM_014859.4;ARHGAP44,intron_variant,,ENST00000340825,;ARHGAP44,intron_variant,,ENST00000262444,;ARHGAP44,intron_variant,,ENST00000580768,;ARHGAP44,intron_variant,,ENST00000544416,;ARHGAP44,intron_variant,,ENST00000578442,;"	"GA"	"ENSG00000006740"	"ENST00000379672"	"Transcript"	"intron_variant"	"-/4228"	"-/2457"	"-/818"	""	""	"rs141952300"	"1"	NA	1	"ARHGAP44"	"HGNC"	29096	"protein_coding"	"YES"	"CCDS45616.1"	"ENSP00000368994"	"Q17R89"	"J3QQU7"	"UPI0000252116"	"NM_014859.4"	NA	NA	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"19"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"4b4cbc74-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1101"	"ARHGAP44"	9912	"mskcc.org"	"GRCh37"	"17"	12800578	12800579	"+"	"Intron"	"INS"	"-"	"-"	"TT"	"rs10648314"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.198+759_198+760dupTT"	""	""	"ENST00000379672"	""	8	"."	4	1	"."	0	"ARHGAP44,intron_variant,,ENST00000379672,NM_014859.4;ARHGAP44,intron_variant,,ENST00000340825,;ARHGAP44,intron_variant,,ENST00000262444,;ARHGAP44,intron_variant,,ENST00000580768,;ARHGAP44,intron_variant,,ENST00000544416,;ARHGAP44,intron_variant,,ENST00000578442,;"	"TT"	"ENSG00000006740"	"ENST00000379672"	"Transcript"	"intron_variant"	"-/4228"	"-/2457"	"-/818"	""	""	"rs10648314"	"1"	NA	1	"ARHGAP44"	"HGNC"	29096	"protein_coding"	"YES"	"CCDS45616.1"	"ENSP00000368994"	"Q17R89"	"J3QQU7"	"UPI0000252116"	"NM_014859.4"	NA	NA	""	"3/20"	""	"-:0.0899"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"4b4e6c9a-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1102"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	12929374	12929375	"+"	"IGR"	"INS"	"-"	"-"	"TCTTTCTTTCTT"	"rs774136188"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"."	3	8	"."	0	""	"TCTTTCTTTCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs774136188"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"4b5e8328-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"1103"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	13606431	13606432	"+"	"IGR"	"INS"	"-"	"-"	"AGAAAGAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	4	"."	0	""	"AGAAAGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"4b65d5ce-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1104"	"AC022816.2"	0	"mskcc.org"	"GRCh37"	"17"	14319077	14319078	"+"	"Intron"	"INS"	"-"	"-"	"CTTC"	"rs370108511"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.435-4871_435-4868dupTTCC"	""	""	"ENST00000436469"	""	21	"."	4	7	"."	0	"AC022816.2,intron_variant,,ENST00000436469,;"	"CTTC"	"ENSG00000230647"	"ENST00000436469"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/804"	""	""	""	""	"rs370108511"	"1"	NA	1	"AC022816.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/4"	""	"CTTC:0.1753"	"CTTC:0.2005"	"CTTC:0.196"	NA	"CTTC:0.2073"	"CTTC:0.171"	"CTTC:0.0982"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"29"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"4b7a6192-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"1105"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	14842805	14842806	"+"	"IGR"	"DEL"	"AG"	"AG"	"-"	"rs566753304"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs566753304"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0006"	"-:0"	"-:0.0014"	NA	"-:0"	"-:0.001"	"-:0.001"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAGG"	"355b77ca-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1106"	"AC005703.3"	0	"mskcc.org"	"GRCh37"	"17"	15172419	15172419	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs5819517"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.620-488delT"	""	""	"ENST00000431343"	""	12	"."	5	2	"."	0	"PMP22,upstream_gene_variant,,ENST00000312280,NM_000304.3,NM_001281456.1,NM_153322.2;PMP22,upstream_gene_variant,,ENST00000494511,;PMP22,upstream_gene_variant,,ENST00000580584,;AC005703.3,intron_variant,,ENST00000431343,;RP11-849N15.1,downstream_gene_variant,,ENST00000579159,;PMP22,upstream_gene_variant,,ENST00000471150,;"	"-"	"ENSG00000230971"	"ENST00000431343"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1773"	""	""	""	""	"rs5819517"	"1"	NA	-1	"AC005703.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"A:0.4996"	"-:0.6755"	"-:0.4769"	NA	"-:0.5744"	"-:0.3926"	"-:0.3149"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"35631728-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"1107"	"PIGL"	9487	"mskcc.org"	"GRCh37"	"17"	16216242	16216243	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs142283954"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.427-619_427-618delAG"	""	""	"ENST00000225609"	""	8	"."	3	1	"."	0	"PIGL,intron_variant,,ENST00000395844,;PIGL,intron_variant,,ENST00000225609,NM_004278.3;PIGL,intron_variant,,ENST00000498772,;PIGL,intron_variant,,ENST00000477745,;PIGL,intron_variant,,ENST00000584797,;PIGL,intron_variant,,ENST00000581006,;PIGL,intron_variant,,ENST00000580201,;PIGL,intron_variant,,ENST00000585034,;PIGL,upstream_gene_variant,,ENST00000488375,;PIGL,upstream_gene_variant,,ENST00000596678,;"	"-"	"ENSG00000108474"	"ENST00000225609"	"Transcript"	"intron_variant"	"-/1137"	"-/759"	"-/252"	""	""	"rs142283954"	"1"	NA	1	"PIGL"	"HGNC"	8966	"protein_coding"	"YES"	"CCDS11176.1"	"ENSP00000225609"	"Q9Y2B2"	""	"UPI0000131AB3"	"NM_004278.3"	NA	NA	""	"3/6"	""	"-:0.3325"	"-:0.3132"	"-:0.464"	NA	"-:0.123"	"-:0.503"	"-:0.3057"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAAGG"	"35ca050a-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1108"	"FAM211A"	388341	"mskcc.org"	"GRCh37"	"17"	16353748	16353749	"+"	"Intron"	"INS"	"-"	"-"	"CCCCTGCCCCCAG"	"rs6146006"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.376-2487_376-2475dupCTGGGGGCAGGGG"	""	""	"ENST00000470794"	""	14	"."	4	3	"."	0	"FAM211A,intron_variant,,ENST00000409083,NM_207387.3;FAM211A,intron_variant,,ENST00000470794,NM_001113567.2;FAM211A-AS1,intron_variant,,ENST00000581361,;FAM211A-AS1,intron_variant,,ENST00000483588,;FAM211A-AS1,intron_variant,,ENST00000472367,;FAM211A-AS1,intron_variant,,ENST00000478103,;FAM211A-AS1,intron_variant,,ENST00000583400,;FAM211A-AS1,intron_variant,,ENST00000579473,;FAM211A-AS1,intron_variant,,ENST00000581718,;FAM211A-AS1,intron_variant,,ENST00000584177,;FAM211A-AS1,intron_variant,,ENST00000580770,;FAM211A,upstream_gene_variant,,ENST00000409887,;"	"CCCCTGCCCCCAG"	"ENSG00000181350"	"ENST00000470794"	"Transcript"	"intron_variant"	"-/1390"	"-/1035"	"-/344"	""	""	"rs6146006"	"1"	NA	-1	"FAM211A"	"HGNC"	32403	"protein_coding"	"YES"	"CCDS45620.1"	"ENSP00000419502"	"Q8NAA5"	""	"UPI0000200A49"	"NM_001113567.2"	NA	NA	""	"2/3"	""	"CCCCTGC:0.0074"	"CCCCTGC:0.0265"	"CCCCTGC:0.0029"	NA	"CCCCTGC:0"	"CCCCTGC:0"	"CCCCTGC:0"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"4bced5f6-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1109"	"NOS2P3"	0	"mskcc.org"	"GRCh37"	"17"	20347257	20347258	"+"	"RNA"	"INS"	"-"	"-"	"T"	"rs542078096"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2694dupT"	""	""	"ENST00000458685"	"4/5"	126	"."	8	68	"."	0	"NOS2P3,non_coding_transcript_exon_variant,,ENST00000458685,;NOS2P3,non_coding_transcript_exon_variant,,ENST00000411468,;"	"T"	"ENSG00000230528"	"ENST00000458685"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"2693-2694/3323"	""	""	""	""	"rs542078096"	"1"	NA	1	"NOS2P3"	"HGNC"	35124	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	"4/5"	""	""	"T:0.2336"	"T:0.1172"	"T:0.3199"	NA	"T:0.1597"	"T:0.4036"	"T:0.2311"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"4c87b8e6-2764-11e6-a2cd-99dd414a729f"	"345"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0634920634920635	"WXS"	FALSE
"1110"	"USP22"	23326	"mskcc.org"	"GRCh37"	"17"	20932263	20932293	"+"	"Intron"	"DEL"	"GCTCCTGATCCTGATGGGCACCCCAAGCCCA"	"GCTCCTGATCCTGATGGGCACCCCAAGCCCA"	"-"	"rs112154616"	NA	"JHCCPT1"	"JHCCPN1"	"GCTCCTGATCCTGATGGGCACCCCAAGCCCA"	"GCTCCTGATCCTGATGGGCACCCCAAGCCCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.172-306_172-276delTGGGCTTGGGGTGCCCATCAGGATCAGGAGC"	""	""	"ENST00000261497"	""	20	"."	7	9	"."	0	"USP22,intron_variant,,ENST00000261497,NM_015276.1;USP22,intron_variant,,ENST00000537526,;USP22,intron_variant,,ENST00000476111,;USP22,intron_variant,,ENST00000584538,;USP22,intron_variant,,ENST00000455117,;USP22,intron_variant,,ENST00000579645,;"	"-"	"ENSG00000124422"	"ENST00000261497"	"Transcript"	"intron_variant"	"-/5216"	"-/1578"	"-/525"	""	""	"rs112154616"	"1"	NA	-1	"USP22"	"HGNC"	12621	"protein_coding"	"YES"	"CCDS42285.1"	"ENSP00000261497"	"Q9UPT9"	"Q9NSJ7,K7ESK0,K7ERX6"	"UPI00001C1FC6"	"NM_015276.1"	NA	NA	""	"1/12"	""	"-:0.2933"	"-:0.4924"	"-:0.3516"	NA	"-:0.0139"	"-:0.3101"	"-:0.2536"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGCTCCTGATCCTGATGGGCACCCCAAGCCCAG"	"36cd0114-2764-11e6-a2cd-99dd414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WXS"	FALSE
"1111"	"KCNJ12"	3768	"mskcc.org"	"GRCh37"	"17"	21305663	21305663	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs10714057"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-178-6160delT"	""	""	"ENST00000583088"	""	22	"."	10	8	"."	0	"KCNJ12,intron_variant,,ENST00000583088,NM_021012.4;KCNJ12,upstream_gene_variant,,ENST00000331718,NM_001194958.2;"	"-"	"ENSG00000184185"	"ENST00000583088"	"Transcript"	"intron_variant"	"-/5420"	"-/1302"	"-/433"	""	""	"rs10714057"	"1"	NA	1	"KCNJ12"	"HGNC"	6258	"protein_coding"	"YES"	"CCDS11219.1"	"ENSP00000463778"	"Q14500"	""	"UPI00000725C7"	"NM_021012.4"	NA	NA	""	"1/2"	""	"T:0.2831"	"-:0.7632"	"-:0.7075"	NA	"-:0.6548"	"-:0.7256"	"-:0.7157"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"36f4e47c-2764-11e6-a2cd-99dd414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"1112"	"KCNJ12"	3768	"mskcc.org"	"GRCh37"	"17"	21320400	21320422	"+"	"3'UTR"	"DEL"	"AAAAATTACCATGCAATTGAAAA"	"AAAAATTACCATGCAATTGAAAA"	"CCATGCAATTGGAGAAAAAAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AAAAATTACCATGCAATTGAAAA"	"AAAAATTACCATGCAATTGAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*444_*462delAAAAATTACCATGCAATTGinsCCATGCAATTGGAGAAA"	""	""	"ENST00000583088"	"3/3"	22	"."	3	10	"."	0	"KCNJ12,3_prime_UTR_variant,,ENST00000583088,NM_021012.4;KCNJ12,3_prime_UTR_variant,,ENST00000331718,NM_001194958.2;"	"CCATGCAATTGGAGAAA"	"ENSG00000184185"	"ENST00000583088"	"Transcript"	"3_prime_UTR_variant"	"2641-2659/5420"	"-/1302"	"-/433"	""	""	""	"1"	NA	1	"KCNJ12"	"HGNC"	6258	"protein_coding"	"YES"	"CCDS11219.1"	"ENSP00000463778"	"Q14500"	""	"UPI00000725C7"	"NM_021012.4"	NA	NA	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAAAATTACCATGCAATTGAAAAA"	"46e0e192-2764-11e6-a2cd-99dd414a729f"	"165"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"1113"	"NCOR1P2"	0	"mskcc.org"	"GRCh37"	"17"	21540909	21540910	"+"	"Intron"	"INS"	"-"	"-"	"TT"	"rs373853660"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.105-3496_105-3495dupTT"	""	""	"ENST00000584728"	""	6	"."	4	2	"."	0	"NCOR1P2,intron_variant,,ENST00000584728,;"	"TT"	"ENSG00000265019"	"ENST00000584728"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/294"	""	""	""	""	"rs373853660"	"1"	NA	1	"NCOR1P2"	"HGNC"	42997	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"T:0.1729"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"4ce06478-2764-11e6-a2cd-99dd414a729f"	"229"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1114"	"ERAL1"	26284	"mskcc.org"	"GRCh37"	"17"	27189004	27189005	"+"	"3'Flank"	"INS"	"-"	"-"	"CCTTCCTCTT"	"rs113231461"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000254928"	""	8	"."	4	1	"."	0	"ERAL1,downstream_gene_variant,,ENST00000254928,NM_005702.2;ERAL1,downstream_gene_variant,,ENST00000580917,;ERAL1,downstream_gene_variant,,ENST00000583487,;MIR451B,upstream_gene_variant,,ENST00000582320,;MIR451B,upstream_gene_variant,,ENST00000384886,;MIR451B,upstream_gene_variant,,ENST00000581873,;MIR451B,upstream_gene_variant,,ENST00000385059,;ERAL1,downstream_gene_variant,,ENST00000578001,;ERAL1,downstream_gene_variant,,ENST00000461894,;ERAL1,downstream_gene_variant,,ENST00000471992,;ERAL1,downstream_gene_variant,,ENST00000412138,;ERAL1,downstream_gene_variant,,ENST00000577942,;"	"CCTTCCTCTT"	"ENSG00000132591"	"ENST00000254928"	"Transcript"	"downstream_gene_variant"	"-/1925"	"-/1314"	"-/437"	""	""	"rs113231461"	"1"	"919"	1	"ERAL1"	"HGNC"	3424	"protein_coding"	"YES"	"CCDS11244.1"	"ENSP00000254928"	"O75616"	""	"UPI000006DECC"	"NM_005702.2"	NA	NA	""	""	""	"-:0.3365"	"CCTTCCTCTT:0.6074"	"CCTTCCTCTT:0.634"	NA	"CCTTCCTCTT:0.6925"	"CCTTCCTCTT:0.7982"	"CCTTCCTCTT:0.592"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"4d9038b2-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1115"	"MYO18A"	399687	"mskcc.org"	"GRCh37"	"17"	27443631	27443632	"+"	"Intron"	"INS"	"-"	"-"	"CACACACACACACA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2039-159_2039-158insTGTGTGTGTGTGTG"	""	""	"ENST00000527372"	""	53	"."	5	24	"."	0	"MYO18A,intron_variant,,ENST00000527372,NM_078471.3;MYO18A,intron_variant,,ENST00000354329,;MYO18A,intron_variant,,ENST00000533112,;MYO18A,intron_variant,,ENST00000531253,NM_203318.1;MYO18A,downstream_gene_variant,,ENST00000528564,;MYO18A,downstream_gene_variant,,ENST00000590242,;MYO18A,intron_variant,,ENST00000530254,;MYO18A,intron_variant,,ENST00000588791,;MYO18A,downstream_gene_variant,,ENST00000528322,;MYO18A,upstream_gene_variant,,ENST00000533399,;"	"CACACACACACACA"	"ENSG00000196535"	"ENST00000527372"	"Transcript"	"intron_variant"	"-/7597"	"-/6165"	"-/2054"	""	""	""	"1"	NA	-1	"MYO18A"	"HGNC"	31104	"protein_coding"	"YES"	"CCDS45642.1"	"ENSP00000437073"	"Q92614"	""	"UPI0000167F32"	"NM_078471.3"	NA	NA	""	"10/41"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"4d92e80a-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0943396226415094	"WXS"	FALSE
"1116"	"SLC6A4"	6532	"mskcc.org"	"GRCh37"	"17"	28556708	28556709	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs11417957"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-124+5922dupC"	""	""	"ENST00000401766"	""	6	"."	5	4	"."	0	"SLC6A4,intron_variant,,ENST00000401766,;SLC6A4,intron_variant,,ENST00000261707,NM_001045.5;SLC6A4,intron_variant,,ENST00000394821,;"	"G"	"ENSG00000108576"	"ENST00000401766"	"Transcript"	"intron_variant"	"-/6543"	"-/1893"	"-/630"	""	""	"rs11417957"	"1"	NA	-1	"SLC6A4"	"HGNC"	11050	"protein_coding"	"YES"	"CCDS11256.1"	"ENSP00000385822"	"P31645"	"Q9NYN7,J3KPR9,B3VRW0,B3VRV5,B3VRV0,B3VRU5,B3VRU0,B3VRS5,B3VRS0,B3VRR5,B3VRR0,B3VRQ5,B3VRQ0"	"UPI0000135493"	""	NA	NA	""	"1/13"	""	"-:0.0004"	"G:0.9985"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"4dbcb130-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1117"	"ASIC2"	40	"mskcc.org"	"GRCh37"	"17"	32396340	32396365	"+"	"Intron"	"DEL"	"TCCTCTCTTTCTTTTTCTTTCATTTT"	"TCCTCTCTTTCTTTTTCTTTCATTTT"	"CCTTTCCTCTCTTTTTCTTTCA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TCCTCTCTTTCTTTTTCTTTCATTTT"	"TCCTCTCTTTCTTTTTCTTTCATTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.555+86632_555+86657delAAAATGAAAGAAAAAGAAAGAGAGGAinsTGAAAGAAAAAGAGAGGAAAGG"	""	""	"ENST00000359872"	""	17	"."	3	6	"."	0	"ASIC2,intron_variant,,ENST00000359872,NM_001094.4;"	"CCTTTCCTCTCTTTTTCTTTCA"	"ENSG00000108684"	"ENST00000359872"	"Transcript"	"intron_variant"	"-/3179"	"-/1539"	"-/512"	""	""	""	"1"	NA	-1	"ASIC2"	"HGNC"	99	"protein_coding"	""	"CCDS42296.1"	"ENSP00000352934"	"Q16515"	""	"UPI00000441F0"	"NM_001094.4"	NA	NA	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCCTCTCTTTCTTTTTCTTTCATTTTT"	"46e7d2c2-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"1118"	"ASIC2"	40	"mskcc.org"	"GRCh37"	"17"	32426753	32426788	"+"	"Intron"	"DEL"	"GAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAA"	"GAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAA"	"GAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.555+56209_555+56244delTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTC"	""	""	"ENST00000359872"	""	9	"."	3	4	"."	0	"ASIC2,intron_variant,,ENST00000359872,NM_001094.4;"	"-"	"ENSG00000108684"	"ENST00000359872"	"Transcript"	"intron_variant"	"-/3179"	"-/1539"	"-/512"	""	""	""	"1"	NA	-1	"ASIC2"	"HGNC"	99	"protein_coding"	""	"CCDS42296.1"	"ENSP00000352934"	"Q16515"	""	"UPI00000441F0"	"NM_001094.4"	NA	NA	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAG"	"3906dafe-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1119"	"TMEM132E"	124842	"mskcc.org"	"GRCh37"	"17"	32909534	32909534	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs34545022"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67+1378delG"	""	""	"ENST00000321639"	""	7	"."	4	1	"."	0	"TMEM132E,intron_variant,,ENST00000321639,NM_207313.1;C17orf102,upstream_gene_variant,,ENST00000357754,NM_207454.2;"	"-"	"ENSG00000181291"	"ENST00000321639"	"Transcript"	"intron_variant"	"-/4369"	"-/2955"	"-/984"	""	""	"rs34545022"	"1"	NA	1	"TMEM132E"	"HGNC"	26991	"protein_coding"	"YES"	"CCDS11283.1"	"ENSP00000316532"	"Q6IEE7"	""	"UPI000035960F"	"NM_207313.1"	NA	NA	""	"1/9"	""	"G:0.2244"	"-:0.8026"	"-:0.7824"	NA	"-:0.8056"	"-:0.8161"	"-:0.6616"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGG"	"391ac2c6-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1120"	"TMEM132E"	124842	"mskcc.org"	"GRCh37"	"17"	32942159	32942189	"+"	"Intron"	"DEL"	"GGGTTTCCCCAGGAGCAGGACTAGGAGGCCA"	"GGGTTTCCCCAGGAGCAGGACTAGGAGGCCA"	"-"	"rs149672153"	NA	"JHCCPT1"	"JHCCPN1"	"GGGTTTCCCCAGGAGCAGGACTAGGAGGCCA"	"GGGTTTCCCCAGGAGCAGGACTAGGAGGCCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.68-10986_68-10956delGGTTTCCCCAGGAGCAGGACTAGGAGGCCAG"	""	""	"ENST00000321639"	""	6	"."	4	1	"."	0	"TMEM132E,intron_variant,,ENST00000321639,NM_207313.1;"	"-"	"ENSG00000181291"	"ENST00000321639"	"Transcript"	"intron_variant"	"-/4369"	"-/2955"	"-/984"	""	""	"rs149672153"	"1"	NA	1	"TMEM132E"	"HGNC"	26991	"protein_coding"	"YES"	"CCDS11283.1"	"ENSP00000316532"	"Q6IEE7"	""	"UPI000035960F"	"NM_207313.1"	NA	NA	""	"1/9"	""	"GGGTTTCCCCAGGAGCAGGACTAGGAGGCCA:0.4365"	"-:0.3056"	"-:0.7392"	NA	"-:0.6875"	"-:0.6511"	"-:0.5695"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGGGTTTCCCCAGGAGCAGGACTAGGAGGCCAG"	"391c0780-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1121"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	35167621	35167635	"+"	"IGR"	"DEL"	"AAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAA"	"-"	"rs61628068"	NA	"JHCCPT1"	"JHCCPN1"	"AAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs61628068"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAAAAAAAAAAAAAAA"	"39d88176-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1122"	"DUSP14"	11072	"mskcc.org"	"GRCh37"	"17"	35873400	35873400	"+"	"3'UTR"	"DEL"	"A"	"-"	"-"	"rs11317104"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*430delA"	""	""	"ENST00000487847"	"2/2"	8	"."	7	5	"."	0	"DUSP14,3_prime_UTR_variant,,ENST00000487847,;DUSP14,3_prime_UTR_variant,,ENST00000394386,;DUSP14,3_prime_UTR_variant,,ENST00000394389,NM_007026.2;SYNRG,downstream_gene_variant,,ENST00000339208,NM_001163544.1,NM_001163545.1,NM_007247.4;SYNRG,downstream_gene_variant,,ENST00000346661,;SYNRG,downstream_gene_variant,,ENST00000345615,NM_080550.3,NM_001163546.1;SYNRG,downstream_gene_variant,,ENST00000590102,;"	"-"	"ENSG00000161326"	"ENST00000487847"	"Transcript"	"3_prime_UTR_variant"	"2004/2207"	"-/597"	"-/198"	""	""	"rs11317104"	"1"	NA	1	"DUSP14"	"HGNC"	17007	"protein_coding"	"YES"	"CCDS11320.1"	"ENSP00000466299"	"O95147"	"Q6FI36"	"UPI0000129965"	""	NA	NA	"2/2"	""	""	"A:0.2496"	"-:0.6619"	"-:0.7767"	NA	"-:0.9702"	"-:0.6551"	"-:0.7229"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"3a37ad86-2764-11e6-a2cd-99dd414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.875	"WXS"	FALSE
"1123"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	36310516	36310517	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs374041745"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	3	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs374041745"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4786"	"TTTT:0.5825"	"TTTT:0.5403"	NA	"TTTT:0.3938"	"TTTT:0.5577"	"TTTT:0.5194"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"4ebafa38-2764-11e6-a2cd-99dd414a729f"	"162"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1124"	"RP11-1407O15.2"	101929950	"mskcc.org"	"GRCh37"	"17"	36400918	36400919	"+"	"Intron"	"INS"	"-"	"-"	"GTGT"	"rs113184438"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.256-2620_256-2617dupACAC"	""	""	"ENST00000520237"	""	9	"."	3	6	"."	0	"RP11-1407O15.2,intron_variant,,ENST00000520237,;RP11-1407O15.2,intron_variant,,ENST00000312412,;RP11-1407O15.2,intron_variant,,ENST00000518004,;RP11-1407O15.2,intron_variant,,ENST00000523089,;RP11-1407O15.2,intron_variant,,ENST00000400815,;RP11-1407O15.2,intron_variant,,ENST00000520499,;"	"GTGT"	"ENSG00000174093"	"ENST00000520237"	"Transcript"	"intron_variant"	"-/1676"	"-/1433"	"-/477"	""	""	"rs113184438"	"1"	NA	-1	"RP11-1407O15.2"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000428261"	""	"E7EWZ2"	"UPI0001AE669C"	""	NA	NA	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"4ee49582-2764-11e6-a2cd-99dd414a729f"	"153"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1125"	"FBXO47"	494188	"mskcc.org"	"GRCh37"	"17"	37101101	37101102	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTGTGTGTGTGTG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.793+94_793+111dupCACACACACACACACACA"	""	""	"ENST00000378079"	""	21	"."	3	7	"."	0	"FBXO47,intron_variant,,ENST00000378079,NM_001008777.2;"	"TGTGTGTGTGTGTGTGTG"	"ENSG00000204952"	"ENST00000378079"	"Transcript"	"intron_variant"	"-/2302"	"-/1359"	"-/452"	""	""	""	"1"	NA	-1	"FBXO47"	"HGNC"	31969	"protein_coding"	"YES"	"CCDS32639.1"	"ENSP00000367319"	"Q5MNV8"	""	"UPI00004DDAF1"	"NM_001008777.2"	NA	NA	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"4f102c4c-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"1126"	"IKZF3"	22806	"mskcc.org"	"GRCh37"	"17"	38020058	38020059	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs35564481"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7+314dupG"	""	""	"ENST00000346872"	""	28	"."	7	8	"."	0	"IKZF3,intron_variant,,ENST00000346872,NM_012481.4;IKZF3,intron_variant,,ENST00000535189,NM_001257408.1;IKZF3,intron_variant,,ENST00000439167,NM_001257409.1;IKZF3,intron_variant,,ENST00000377958,NM_001257410.1;IKZF3,intron_variant,,ENST00000377945,NM_001257414.1;IKZF3,intron_variant,,ENST00000377944,NM_001257411.1;IKZF3,intron_variant,,ENST00000394189,NM_001257412.1;IKZF3,intron_variant,,ENST00000377952,NM_001257413.1;IKZF3,intron_variant,,ENST00000350532,NM_183230.2;IKZF3,intron_variant,,ENST00000351680,NM_183229.2;IKZF3,intron_variant,,ENST00000467757,NM_183228.2;IKZF3,intron_variant,,ENST00000346243,NM_183232.2;IKZF3,intron_variant,,ENST00000439016,NM_183231.2;ZPBP2,upstream_gene_variant,,ENST00000377940,NM_198844.2;ZPBP2,upstream_gene_variant,,ENST00000348931,NM_199321.2;ZPBP2,upstream_gene_variant,,ENST00000584588,;ZPBP2,upstream_gene_variant,,ENST00000583811,;IKZF3,intron_variant,,ENST00000293068,NM_001284514.1;IKZF3,intron_variant,,ENST00000348427,NM_001284515.1;"	"C"	"ENSG00000161405"	"ENST00000346872"	"Transcript"	"intron_variant"	"-/2437"	"-/1530"	"-/509"	""	""	"rs35564481"	"1"	NA	-1	"IKZF3"	"HGNC"	13178	"protein_coding"	"YES"	"CCDS11346.1"	"ENSP00000344544"	"Q9UKT9"	"B4DVV5"	"UPI000006E6CC"	"NM_012481.4"	NA	NA	""	"1/7"	""	"C:0.4541"	"C:0.6316"	"C:0.4251"	NA	"C:0.2827"	"C:0.5189"	"C:0.3446"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"4f490efe-2764-11e6-a2cd-99dd414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1127"	"GSDMB"	55876	"mskcc.org"	"GRCh37"	"17"	38062944	38062945	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs373359271"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.727+269dupG"	""	""	"ENST00000418519"	""	16	"."	5	6	"."	0	"GSDMB,intron_variant,,ENST00000394175,NM_018530.2;GSDMB,intron_variant,,ENST00000418519,NM_001165958.1;GSDMB,intron_variant,,ENST00000394179,;GSDMB,intron_variant,,ENST00000520542,NM_001165959.1;GSDMB,intron_variant,,ENST00000309481,NM_001042471.1;GSDMB,intron_variant,,ENST00000360317,;GSDMB,non_coding_transcript_exon_variant,,ENST00000477054,;GSDMB,non_coding_transcript_exon_variant,,ENST00000479136,;GSDMB,intron_variant,,ENST00000523371,;GSDMB,intron_variant,,ENST00000524039,;GSDMB,intron_variant,,ENST00000522564,;GSDMB,intron_variant,,ENST00000519429,;GSDMB,intron_variant,,ENST00000468820,;GSDMB,downstream_gene_variant,,ENST00000464556,;GSDMB,upstream_gene_variant,,ENST00000486560,;"	"C"	"ENSG00000073605"	"ENST00000418519"	"Transcript"	"intron_variant"	"-/1597"	"-/1251"	"-/416"	""	""	"rs373359271"	"1"	NA	-1	"GSDMB"	"HGNC"	23690	"protein_coding"	"YES"	"CCDS54120.1"	"ENSP00000415049"	"Q8TAX9"	""	"UPI0000200C24"	"NM_001165958.1"	NA	NA	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"4f536778-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"1128"	"GSDMB"	55876	"mskcc.org"	"GRCh37"	"17"	38064576	38064577	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"rs373519020"	NA	"JHCCPT1"	"JHCCPN1"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.662-110_662-109delGA"	""	""	"ENST00000418519"	""	148	"."	3	78	"."	0	"GSDMB,intron_variant,,ENST00000394175,NM_018530.2;GSDMB,intron_variant,,ENST00000418519,NM_001165958.1;GSDMB,intron_variant,,ENST00000394179,;GSDMB,intron_variant,,ENST00000520542,NM_001165959.1;GSDMB,intron_variant,,ENST00000309481,NM_001042471.1;GSDMB,intron_variant,,ENST00000360317,;GSDMB,intron_variant,,ENST00000477054,;GSDMB,intron_variant,,ENST00000523371,;GSDMB,intron_variant,,ENST00000524039,;GSDMB,intron_variant,,ENST00000522564,;GSDMB,intron_variant,,ENST00000468820,;GSDMB,upstream_gene_variant,,ENST00000479136,;GSDMB,downstream_gene_variant,,ENST00000464556,;GSDMB,upstream_gene_variant,,ENST00000519429,;GSDMB,upstream_gene_variant,,ENST00000486560,;"	"-"	"ENSG00000073605"	"ENST00000418519"	"Transcript"	"intron_variant"	"-/1597"	"-/1251"	"-/416"	""	""	"rs373519020"	"1"	NA	-1	"GSDMB"	"HGNC"	23690	"protein_coding"	"YES"	"CCDS54120.1"	"ENSP00000415049"	"Q8TAX9"	""	"UPI0000200C24"	"NM_001165958.1"	NA	NA	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATCA"	"3b47821e-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0202702702702703	"WXS"	FALSE
"1129"	"ORMDL3"	94103	"mskcc.org"	"GRCh37"	"17"	38088032	38088032	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"rs71152629"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000394169"	""	6	"."	3	1	"."	0	"ORMDL3,upstream_gene_variant,,ENST00000394169,;ORMDL3,upstream_gene_variant,,ENST00000304046,NM_139280.2;ORMDL3,upstream_gene_variant,,ENST00000579695,;ORMDL3,upstream_gene_variant,,ENST00000584000,;RP11-387H17.4,intron_variant,,ENST00000582263,;RP11-387H17.4,downstream_gene_variant,,ENST00000578802,;RP11-387H17.4,downstream_gene_variant,,ENST00000578478,;ORMDL3,upstream_gene_variant,,ENST00000582052,;"	"-"	"ENSG00000172057"	"ENST00000394169"	"Transcript"	"upstream_gene_variant"	"-/2230"	"-/462"	"-/153"	""	""	"rs71152629"	"1"	"4938"	-1	"ORMDL3"	"HGNC"	16038	"protein_coding"	"YES"	"CCDS11355.1"	"ENSP00000377724"	"Q8N138"	"J3QRM9"	"UPI0000035F64"	""	NA	NA	""	""	""	"G:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTGG"	"3b5a1230-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1130"	"KRT12"	3859	"mskcc.org"	"GRCh37"	"17"	39020205	39020206	"+"	"Intron"	"INS"	"-"	"-"	"ACACACACAC"	"rs149005773"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.808-99_808-90dupGTGTGTGTGT"	""	""	"ENST00000251643"	""	36	"."	3	10	"."	0	"KRT12,intron_variant,,ENST00000251643,NM_000223.3;RP5-1110E20.1,downstream_gene_variant,,ENST00000579136,;"	"ACACACACAC"	"ENSG00000187242"	"ENST00000251643"	"Transcript"	"intron_variant"	"-/1867"	"-/1485"	"-/494"	""	""	"rs149005773"	"1"	NA	-1	"KRT12"	"HGNC"	6414	"protein_coding"	"YES"	"CCDS11378.1"	"ENSP00000251643"	"Q99456"	""	"UPI000012DAE4"	"NM_000223.3"	NA	NA	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"4fd7c6a8-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WXS"	FALSE
"1131"	"KRT12"	3859	"mskcc.org"	"GRCh37"	"17"	39023703	39023706	"+"	"5'Flank"	"DEL"	"TTGT"	"TTGT"	"-"	"rs142348401"	NA	"JHCCPT1"	"JHCCPN1"	"TTGT"	"TTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000251643"	""	10	"."	4	5	"."	0	"KRT12,upstream_gene_variant,,ENST00000251643,NM_000223.3;RP5-1110E20.1,downstream_gene_variant,,ENST00000579136,;"	"-"	"ENSG00000187242"	"ENST00000251643"	"Transcript"	"upstream_gene_variant"	"-/1867"	"-/1485"	"-/494"	""	""	"rs142348401"	"1"	"241"	-1	"KRT12"	"HGNC"	6414	"protein_coding"	"YES"	"CCDS11378.1"	"ENSP00000251643"	"Q99456"	""	"UPI000012DAE4"	"NM_000223.3"	NA	NA	""	""	""	"-:0.0325"	"-:0.0045"	"-:0.0533"	NA	"-:0"	"-:0.0785"	"-:0.0419"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCTTGTC"	"3c014262-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1132"	"KRT20"	54474	"mskcc.org"	"GRCh37"	"17"	39038941	39038942	"+"	"Intron"	"INS"	"-"	"-"	"TTTATTTA"	"rs149855322"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.391-43_391-36dupTAAATAAA"	""	""	"ENST00000167588"	""	72	"."	5	41	"."	0	"KRT20,intron_variant,,ENST00000167588,NM_019010.2;KRT20,intron_variant,,ENST00000482529,;"	"TTTATTTA"	"ENSG00000171431"	"ENST00000167588"	"Transcript"	"intron_variant"	"-/1737"	"-/1275"	"-/424"	""	""	"rs149855322"	"1"	NA	-1	"KRT20"	"HGNC"	20412	"protein_coding"	"YES"	"CCDS11379.1"	"ENSP00000167588"	"P35900"	""	"UPI000012DAF1"	"NM_019010.2"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	"0.02352"	"0.02259"	"0.003836"	"0.007731"	"0.03631"	"0.00428"	"0.02292"	"0.02832"	NA	"common_variant"	"TTT"	"4fe57816-2764-11e6-a2cd-99dd414a729f"	"300"	0.01148	"833/72570"	"2441/103780"	"112/4958"	"33/8602"	"37/4786"	"178/4902"	"164/38318"	"11/480"	"298/10524"	"PASS"	"FALSE"	0.0694444444444444	"WXS"	FALSE
"1133"	"KRT16"	3868	"mskcc.org"	"GRCh37"	"17"	39772036	39772037	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs5820427"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000301653"	""	13	"."	4	5	"."	0	"KRT16,5_prime_UTR_variant,,ENST00000590990,;JUP,downstream_gene_variant,,ENST00000540235,;KRT16,upstream_gene_variant,,ENST00000301653,NM_005557.3;KRT17,downstream_gene_variant,,ENST00000311208,NM_000422.2;KRT16,upstream_gene_variant,,ENST00000593067,;KRT17,downstream_gene_variant,,ENST00000493253,;KRT16,upstream_gene_variant,,ENST00000588319,;"	"A"	"ENSG00000186832"	"ENST00000301653"	"Transcript"	"upstream_gene_variant"	"-/1644"	"-/1422"	"-/473"	""	""	"rs5820427"	"1"	"3031"	-1	"KRT16"	"HGNC"	6423	"protein_coding"	"YES"	"CCDS11401.1"	"ENSP00000301653"	"P08779"	"K7ENW6,K7ENV3"	"UPI0000001C7B"	"NM_005557.3"	NA	NA	""	""	""	"A:0.3662"	"A:0.7738"	"A:0.3026"	NA	"A:0.003"	"A:0.3887"	"A:0.2117"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"503e4662-2764-11e6-a2cd-99dd414a729f"	"222"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"1134"	"FZD2"	2535	"mskcc.org"	"GRCh37"	"17"	42637733	42637734	"+"	"3'Flank"	"INS"	"-"	"A"	"A"	"rs11373641"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000315323"	""	7	"."	5	3	"."	0	"FZD2,downstream_gene_variant,,ENST00000315323,NM_001466.3;"	"A"	"ENSG00000180340"	"ENST00000315323"	"Transcript"	"downstream_gene_variant"	"-/1983"	"-/1698"	"-/565"	""	""	"rs11373641"	"1"	"826"	1	"FZD2"	"HGNC"	4040	"protein_coding"	"YES"	"CCDS11484.1"	"ENSP00000323901"	"Q14332"	"Q86UZ8"	"UPI0000050444"	"NM_001466.3"	NA	NA	""	""	""	"-:0.3950"	"A:0.4289"	"A:0.6715"	NA	"A:0.7192"	"A:0.7475"	"A:0.5317"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"5133ef22-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1135"	"PLCD3"	113026	"mskcc.org"	"GRCh37"	"17"	43205184	43205185	"+"	"Intron"	"INS"	"-"	"-"	"GT"	"rs144234608"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.163+4429_163+4430dupAC"	""	""	"ENST00000322765"	""	6	"."	3	2	"."	0	"PLCD3,intron_variant,,ENST00000322765,NM_133373.3;PLCD3,intron_variant,,ENST00000590644,;PLCD3,intron_variant,,ENST00000538093,;ACBD4,upstream_gene_variant,,ENST00000431281,NM_001135704.1;ACBD4,upstream_gene_variant,,ENST00000591859,;PLCD3,intron_variant,,ENST00000540511,;PLCD3,intron_variant,,ENST00000544446,;ACBD4,upstream_gene_variant,,ENST00000587111,;ACBD4,upstream_gene_variant,,ENST00000587976,;ACBD4,upstream_gene_variant,,ENST00000586279,;"	"GT"	"ENSG00000161714"	"ENST00000322765"	"Transcript"	"intron_variant"	"-/3456"	"-/2367"	"-/788"	""	""	"rs144234608"	"1"	NA	-1	"PLCD3"	"HGNC"	9061	"protein_coding"	"YES"	""	"ENSP00000313731"	"Q8N3E9"	""	"UPI00015DFB4E"	"NM_133373.3"	NA	NA	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"516ffb8e-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1136"	"HEXIM1"	10614	"mskcc.org"	"GRCh37"	"17"	43226472	43226473	"+"	"5'UTR"	"INS"	"-"	"-"	"TT"	"rs111687345"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-82_-81dupTT"	""	""	"ENST00000332499"	"1/1"	101	"."	3	52	"."	0	"HEXIM1,5_prime_UTR_variant,,ENST00000332499,NM_006460.2;ACBD4,downstream_gene_variant,,ENST00000431281,NM_001135704.1;ACBD4,downstream_gene_variant,,ENST00000591859,;ACBD4,downstream_gene_variant,,ENST00000398322,NM_024722.2;ACBD4,downstream_gene_variant,,ENST00000321854,NM_001135705.1;ACBD4,downstream_gene_variant,,ENST00000592162,;AC002117.1,downstream_gene_variant,,ENST00000589950,;AC002117.1,downstream_gene_variant,,ENST00000452741,;ACBD4,downstream_gene_variant,,ENST00000585553,;"	"TT"	"ENSG00000186834"	"ENST00000332499"	"Transcript"	"5_prime_UTR_variant"	"1789-1790/4785"	"-/1080"	"-/359"	""	""	"rs111687345"	"1"	NA	1	"HEXIM1"	"HGNC"	24953	"protein_coding"	"YES"	"CCDS11495.1"	"ENSP00000328773"	"O94992"	""	"UPI000006E405"	"NM_006460.2"	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"51740f12-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0297029702970297	"WXS"	FALSE
"1137"	"FMNL1"	752	"mskcc.org"	"GRCh37"	"17"	43306417	43306418	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs60531740"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.130-1549dupC"	""	""	"ENST00000331495"	""	8	"."	3	4	"."	0	"FMNL1,intron_variant,,ENST00000331495,NM_005892.3;FMNL1,intron_variant,,ENST00000328118,;FMNL1,upstream_gene_variant,,ENST00000592006,;FMNL1,upstream_gene_variant,,ENST00000587856,;FMNL1,upstream_gene_variant,,ENST00000585852,;FMNL1,upstream_gene_variant,,ENST00000592527,;"	"C"	"ENSG00000184922"	"ENST00000331495"	"Transcript"	"intron_variant"	"-/4101"	"-/3303"	"-/1100"	""	""	"rs60531740"	"1"	NA	1	"FMNL1"	"HGNC"	1212	"protein_coding"	"YES"	"CCDS11497.1"	"ENSP00000329219"	"O95466"	""	"UPI0000246EE9"	"NM_005892.3"	NA	NA	""	"1/26"	""	"C:0.3632"	"C:0.4947"	"C:0.3689"	NA	"C:0.4931"	"C:0.2604"	"C:0.1534"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"517ca1c2-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1138"	"ENSR00001347424"	0	"mskcc.org"	"GRCh37"	"17"	43462700	43462701	"+"	"IGR"	"INS"	"-"	"-"	"TTCTCTTGGGAGAGGGA"	"rs141425020"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001347424"	""	9	"."	4	2	"."	0	""	"TTCTCTTGGGAGAGGGA"	""	"ENSR00001347424"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs141425020"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"TTCTCTTGGGAGAGGGA:0.4710"	"TTCTCTTGGGAGAGGGA:0.5363"	"TTCTCTTGGGAGAGGGA:0.5043"	NA	"TTCTCTTGGGAGAGGGA:0.4147"	"TTCTCTTGGGAGAGGGA:0.4861"	"TTCTCTTGGGAGAGGGA:0.4018"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"51968542-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1139"	"RP11-105N13.4"	0	"mskcc.org"	"GRCh37"	"17"	43742455	43742455	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.372-7735delC"	""	""	"ENST00000587305"	""	9	"."	5	1	"."	0	"CRHR1,intron_variant,,ENST00000293493,NM_001256299.1;CRHR1,intron_variant,,ENST00000339069,;RP11-105N13.4,intron_variant,,ENST00000587305,;RP11-105N13.4,intron_variant,,ENST00000582044,;"	"-"	"ENSG00000263715"	"ENST00000587305"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/560"	""	""	""	""	""	"1"	NA	1	"RP11-105N13.4"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACC"	"3f267200-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"1140"	"RP11-105N13.4"	0	"mskcc.org"	"GRCh37"	"17"	43775213	43775215	"+"	"Intron"	"DEL"	"CTT"	"-"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.447+24950_447+24952delTCT"	""	""	"ENST00000587305"	""	8	"."	6	4	"."	0	"CRHR1,intron_variant,,ENST00000293493,NM_001256299.1;CRHR1,intron_variant,,ENST00000339069,;RP11-105N13.4,intron_variant,,ENST00000587305,;RP11-105N13.4,intron_variant,,ENST00000582044,;"	"-"	"ENSG00000263715"	"ENST00000587305"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/560"	""	""	""	""	""	"1"	NA	1	"RP11-105N13.4"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCTTC"	"3f28076e-2764-11e6-a2cd-99dd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"1141"	"CRHR1"	1394	"mskcc.org"	"GRCh37"	"17"	43894485	43894486	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs55757142"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.241+537_241+538insA"	""	""	"ENST00000398285"	""	7	"."	4	2	"."	0	"CRHR1,intron_variant,,ENST00000314537,NM_001145148.1,NM_004382.4,NM_001145147.1;CRHR1,intron_variant,,ENST00000398285,NM_001145146.1;CRHR1,intron_variant,,ENST00000293493,NM_001256299.1;CRHR1,intron_variant,,ENST00000339069,;CRHR1,intron_variant,,ENST00000577353,;CRHR1,intron_variant,,ENST00000352855,;RP11-105N13.4,downstream_gene_variant,,ENST00000587305,;RP11-105N13.4,downstream_gene_variant,,ENST00000582044,;CRHR1,intron_variant,,ENST00000347197,;CRHR1,intron_variant,,ENST00000582766,;CRHR1,intron_variant,,ENST00000583888,;CRHR1,intron_variant,,ENST00000580955,;"	"A"	"ENSG00000120088"	"ENST00000398285"	"Transcript"	"intron_variant"	"-/2399"	"-/1335"	"-/444"	""	""	"rs55757142"	"1"	NA	1	"CRHR1"	"HGNC"	2357	"protein_coding"	"YES"	"CCDS45712.1"	"ENSP00000381333"	"P34998"	""	"UPI0000128429"	"NM_001145146.1"	NA	NA	""	"3/13"	""	""	"A:0.0151"	"A:0.1571"	NA	"A:0.001"	"A:0.2396"	"A:0.0613"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"51ca701e-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1142"	"KANSL1"	284058	"mskcc.org"	"GRCh37"	"17"	44269837	44269841	"+"	"5'UTR"	"DEL"	"AAGAG"	"AAGAG"	"-"	"rs141752007"	NA	"JHCCPT1"	"JHCCPN1"	"AAGAG"	"AAGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-146_-142delCTCTT"	""	""	"ENST00000262419"	"1/15"	11	"."	3	1	"."	0	"KANSL1,5_prime_UTR_variant,,ENST00000262419,NM_001193466.1;KANSL1,5_prime_UTR_variant,,ENST00000393476,;KANSL1,intron_variant,,ENST00000574590,NM_001193465.1;KANSL1,intron_variant,,ENST00000572904,NM_015443.3;KANSL1,intron_variant,,ENST00000574655,;KANSL1,intron_variant,,ENST00000571698,;KANSL1,intron_variant,,ENST00000576739,;KANSL1-AS1,upstream_gene_variant,,ENST00000572634,;KANSL1-AS1,upstream_gene_variant,,ENST00000398275,;KANSL1-AS1,upstream_gene_variant,,ENST00000572973,;"	"-"	"ENSG00000120071"	"ENST00000262419"	"Transcript"	"5_prime_UTR_variant"	"326-330/5309"	"-/3318"	"-/1105"	""	""	"rs141752007"	"1"	NA	-1	"KANSL1"	"HGNC"	24565	"protein_coding"	"YES"	"CCDS11503.1"	"ENSP00000262419"	"Q7Z3B3"	"I3L243,I3L233"	"UPI0001AE66EA"	"NM_001193466.1"	NA	NA	"1/15"	""	""	""	"-:0.0106"	"-:0.1412"	NA	"-:0.001"	"-:0.1998"	"-:0.0481"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCAAGAGA"	"3f6bdd54-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"1143"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"17"	44290654	44290655	"+"	"3'Flank"	"INS"	"-"	"-"	"TTG"	"rs376025054"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000458981"	""	6	"."	3	2	"."	0	"KANSL1,intron_variant,,ENST00000574590,NM_001193465.1;KANSL1,intron_variant,,ENST00000574655,;KANSL1,intron_variant,,ENST00000576739,;Y_RNA,downstream_gene_variant,,ENST00000458981,;"	"TTG"	"ENSG00000238723"	"ENST00000458981"	"Transcript"	"downstream_gene_variant"	"-/102"	""	""	""	""	"rs376025054"	"1"	"1781"	-1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"522603de-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1144"	"RP11-259G18.3"	0	"mskcc.org"	"GRCh37"	"17"	44339110	44339116	"+"	"5'Flank"	"DEL"	"AAAAAAG"	"AAAAAAG"	"-"	"rs201657714"	NA	"JHCCPT1"	"JHCCPN1"	"AAAAAAG"	"AAAAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000571422"	""	8	"."	4	2	"."	0	"RP11-259G18.3,upstream_gene_variant,,ENST00000571422,;"	"-"	"ENSG00000262539"	"ENST00000571422"	"Transcript"	"upstream_gene_variant"	"-/1056"	""	""	""	""	"rs201657714"	"1"	"1138"	-1	"RP11-259G18.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0869"	"-:0.0144"	"-:0.1599"	NA	"-:0.001"	"-:0.2406"	"-:0.0634"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAAAGA"	"3f81c25e-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1145"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	44575706	44575709	"+"	"IGR"	"DEL"	"AGAA"	"AGAA"	"-"	"rs368657496"	NA	"JHCCPT1"	"JHCCPN1"	"AGAA"	"AGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs368657496"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGAAA"	"3f99f306-2764-11e6-a2cd-99dd414a729f"	"103"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1146"	"ITGB3"	3690	"mskcc.org"	"GRCh37"	"17"	45377702	45377703	"+"	"Intron"	"INS"	"-"	"-"	"GCGT"	"rs376389757"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1914-139_1914-138insTGCG"	""	""	"ENST00000559488"	""	31	"."	6	10	"."	0	"ITGB3,intron_variant,,ENST00000559488,NM_000212.2;ITGB3,intron_variant,,ENST00000435993,;RP11-290H9.4,downstream_gene_variant,,ENST00000575039,;RP11-290H9.4,downstream_gene_variant,,ENST00000576345,;ITGB3,intron_variant,,ENST00000560629,;"	"GCGT"	"ENSG00000259207"	"ENST00000559488"	"Transcript"	"intron_variant"	"-/3995"	"-/2367"	"-/788"	""	""	"rs376389757"	"1"	NA	1	"ITGB3"	"HGNC"	6156	"protein_coding"	"YES"	"CCDS11511.1"	"ENSP00000452786"	"P05106"	"F2X0V0,F1C634,F1C632,F1C630"	"UPI000013D240"	"NM_000212.2"	NA	NA	""	"11/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"52854740-2764-11e6-a2cd-99dd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193548387096774	"WXS"	FALSE
"1147"	"RP11-81K2.1"	0	"mskcc.org"	"GRCh37"	"17"	47515954	47515966	"+"	"Intron"	"DEL"	"TGAAGCGACCGAG"	"TGAAGCGACCGAG"	"-"	"rs72158728"	NA	"JHCCPT1"	"JHCCPN1"	"TGAAGCGACCGAG"	"TGAAGCGACCGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.179-38283_179-38271delAAGCGACCGAGTG"	""	""	"ENST00000576461"	""	14	"."	4	6	"."	0	"RP11-81K2.1,intron_variant,,ENST00000576461,;"	"-"	"ENSG00000262039"	"ENST00000576461"	"Transcript"	"intron_variant"	"-/382"	"-/237"	"-/78"	""	""	"rs72158728"	"1"	NA	1	"RP11-81K2.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000458747"	""	"I3L1D3"	"UPI00025A2DB5"	""	NA	NA	""	"2/2"	""	"-:0.0777"	"-:0.0802"	"-:0.0937"	NA	"-:0"	"-:0.1133"	"-:0.1063"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTGAAGCGACCGAGT"	"405cfd88-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1148"	"KAT7"	11143	"mskcc.org"	"GRCh37"	"17"	47876152	47876152	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs3214720"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.580+233delC"	""	""	"ENST00000259021"	""	8	"."	3	4	"."	0	"KAT7,intron_variant,,ENST00000503935,;KAT7,intron_variant,,ENST00000259021,NM_007067.4;KAT7,intron_variant,,ENST00000435742,;KAT7,intron_variant,,ENST00000424009,NM_001199155.1;KAT7,intron_variant,,ENST00000454930,NM_001199156.1;KAT7,intron_variant,,ENST00000509773,NM_001199157.1;KAT7,intron_variant,,ENST00000510819,NM_001199158.1;KAT7,downstream_gene_variant,,ENST00000506533,;KAT7,intron_variant,,ENST00000509124,;RP11-613C6.4,downstream_gene_variant,,ENST00000513669,;"	"-"	"ENSG00000136504"	"ENST00000259021"	"Transcript"	"intron_variant"	"-/3710"	"-/1836"	"-/611"	""	""	"rs3214720"	"1"	NA	1	"KAT7"	"HGNC"	17016	"protein_coding"	"YES"	"CCDS11554.1"	"ENSP00000259021"	"O95251"	"G3V125,B4DJ40,B4DGH8"	"UPI000006D3D5"	"NM_007067.4"	NA	NA	""	"4/14"	""	"C:0.4902"	"-:0.7005"	"-:0.4035"	NA	"-:0.6677"	"-:0.2117"	"-:0.4714"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCC"	"40688068-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1149"	"ITGA3"	3675	"mskcc.org"	"GRCh37"	"17"	48135386	48135387	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs3842376"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.206+1379_206+1380delCT"	""	""	"ENST00000007722"	""	10	"."	6	1	"."	0	"ITGA3,intron_variant,,ENST00000320031,NM_002204.2,NM_005501.2;ITGA3,intron_variant,,ENST00000007722,;ITGA3,intron_variant,,ENST00000544892,;RP11-1094H24.4,upstream_gene_variant,,ENST00000499842,;ITGA3,intron_variant,,ENST00000505306,;ITGA3,intron_variant,,ENST00000506401,;ITGA3,intron_variant,,ENST00000508100,;"	"-"	"ENSG00000005884"	"ENST00000007722"	"Transcript"	"intron_variant"	"-/3665"	"-/3201"	"-/1066"	""	""	"rs3842376"	"1"	NA	1	"ITGA3"	"HGNC"	6139	"protein_coding"	"YES"	"CCDS11557.1"	"ENSP00000007722"	"P26006"	"Q86SW1"	"UPI0000140781"	""	NA	NA	""	"1/24"	""	"-:0.1887"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGCTC"	"406dc65e-2764-11e6-a2cd-99dd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"1150"	"ITGA3"	3675	"mskcc.org"	"GRCh37"	"17"	48157869	48157870	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGA"	"rs577531446"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2820+131_2820+132insTGTGAG"	""	""	"ENST00000007722"	""	31	"."	5	21	"."	0	"ITGA3,intron_variant,,ENST00000320031,NM_002204.2,NM_005501.2;ITGA3,intron_variant,,ENST00000007722,;ITGA3,intron_variant,,ENST00000506827,;ITGA3,downstream_gene_variant,,ENST00000544892,;ITGA3,intron_variant,,ENST00000505306,;ITGA3,intron_variant,,ENST00000504417,;ITGA3,downstream_gene_variant,,ENST00000506401,;ITGA3,downstream_gene_variant,,ENST00000505612,;ITGA3,downstream_gene_variant,,ENST00000515147,;ITGA3,downstream_gene_variant,,ENST00000510809,;ITGA3,downstream_gene_variant,,ENST00000507771,;"	"GTGTGA"	"ENSG00000005884"	"ENST00000007722"	"Transcript"	"intron_variant"	"-/3665"	"-/3201"	"-/1066"	""	""	"rs577531446"	"1"	NA	1	"ITGA3"	"HGNC"	6139	"protein_coding"	"YES"	"CCDS11557.1"	"ENSP00000007722"	"P26006"	"Q86SW1"	"UPI0000140781"	""	NA	NA	""	"22/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"532a7c56-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161290322580645	"WXS"	FALSE
"1151"	"SAMD14"	201191	"mskcc.org"	"GRCh37"	"17"	48210270	48210271	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs74329139"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000503131"	""	6	"."	4	1	"."	0	"SAMD14,upstream_gene_variant,,ENST00000330175,NM_001257359.1;PPP1R9B,downstream_gene_variant,,ENST00000316878,NM_032595.3;SAMD14,upstream_gene_variant,,ENST00000503131,NM_174920.3;SAMD14,upstream_gene_variant,,ENST00000511964,;AC002401.1,upstream_gene_variant,,ENST00000451776,;PPP1R9B,downstream_gene_variant,,ENST00000501501,;SAMD14,upstream_gene_variant,,ENST00000513474,;SAMD14,upstream_gene_variant,,ENST00000507043,;"	"G"	"ENSG00000167100"	"ENST00000503131"	"Transcript"	"upstream_gene_variant"	"-/1938"	"-/1338"	"-/445"	""	""	"rs74329139"	"1"	"3024"	-1	"SAMD14"	"HGNC"	27312	"protein_coding"	"YES"	"CCDS11560.1"	"ENSP00000424474"	"Q8IZD0"	""	"UPI0000074135"	"NM_174920.3"	NA	NA	""	""	""	"-:0.0024"	"G:0.9985"	"G:0.9971"	NA	"G:1"	"G:0.997"	"G:0.9949"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"533dfd4e-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1152"	"SGCA"	6442	"mskcc.org"	"GRCh37"	"17"	48246775	48246776	"+"	"Intron"	"INS"	"-"	"-"	"ACACAC"	"rs3986433"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.747+187_747+192dupACACAC"	""	""	"ENST00000262018"	""	30	"."	3	16	"."	0	"SGCA,3_prime_UTR_variant,,ENST00000451235,;SGCA,intron_variant,,ENST00000262018,NM_000023.2;SGCA,intron_variant,,ENST00000543315,;SGCA,intron_variant,,ENST00000344627,NM_001135697.1;SGCA,intron_variant,,ENST00000504073,;SGCA,intron_variant,,ENST00000511303,;RP11-893F2.14,upstream_gene_variant,,ENST00000572855,;SGCA,intron_variant,,ENST00000513942,;HILS1,downstream_gene_variant,,ENST00000504307,;SGCA,upstream_gene_variant,,ENST00000508382,;SGCA,3_prime_UTR_variant,,ENST00000502555,;SGCA,intron_variant,,ENST00000513821,;SGCA,intron_variant,,ENST00000512526,;SGCA,downstream_gene_variant,,ENST00000514934,;HILS1,downstream_gene_variant,,ENST00000340499,;HILS1,downstream_gene_variant,,ENST00000545329,;"	"ACACAC"	"ENSG00000108823"	"ENST00000262018"	"Transcript"	"intron_variant"	"-/1432"	"-/1164"	"-/387"	""	""	"rs3986433"	"1"	NA	1	"SGCA"	"HGNC"	10805	"protein_coding"	"YES"	"CCDS32679.1"	"ENSP00000262018"	"Q16586"	""	"UPI0000135907"	"NM_000023.2"	NA	NA	""	"6/9"	""	"-:0.4928"	"AC:0.5356"	"AC:0.572"	NA	"AC:0.3879"	"AC:0.5626"	"AC:0.4888"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"32"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"536c56b2-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WXS"	FALSE
"1153"	"MYCBPAP"	84073	"mskcc.org"	"GRCh37"	"17"	48602098	48602099	"+"	"Intron"	"INS"	"-"	"-"	"GTGAGAGA"	"rs373928628"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1765-139_1765-138insTGAGAGAG"	""	""	"ENST00000323776"	""	76	"."	9	42	"."	0	"MYCBPAP,intron_variant,,ENST00000323776,NM_032133.4;MYCBPAP,intron_variant,,ENST00000436259,;MYCBPAP,intron_variant,,ENST00000488432,;MYCBPAP,downstream_gene_variant,,ENST00000468821,;MYCBPAP,intron_variant,,ENST00000437498,;MYCBPAP,downstream_gene_variant,,ENST00000470609,;MYCBPAP,upstream_gene_variant,,ENST00000485169,;MYCBPAP,downstream_gene_variant,,ENST00000459754,;MYCBPAP,upstream_gene_variant,,ENST00000477744,;"	"GTGAGAGA"	"ENSG00000136449"	"ENST00000323776"	"Transcript"	"intron_variant"	"-/3186"	"-/2955"	"-/984"	""	""	"rs373928628"	"1"	NA	1	"MYCBPAP"	"HGNC"	19677	"protein_coding"	"YES"	"CCDS32680.2"	"ENSP00000323184"	"Q8TBZ2"	""	"UPI0000E5A00B"	"NM_032133.4"	NA	NA	""	"12/18"	""	"GTGAGAGA:0.4235"	"GTGAGAGA:0.3555"	"GTGAGAGA:0.3847"	NA	"GTGAGAGA:0.5099"	"GTGAGAGA:0.4066"	"GTGAGAGA:0.4714"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"53c0493e-2764-11e6-a2cd-99dd414a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.118421052631579	"WXS"	FALSE
"1154"	"CA10"	56934	"mskcc.org"	"GRCh37"	"17"	50128471	50128472	"+"	"Intron"	"INS"	"-"	"-"	"AAGAA"	"rs141666932"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.136+21203_136+21207dupTTCTT"	""	""	"ENST00000451037"	""	19	"."	6	4	"."	0	"CA10,intron_variant,,ENST00000451037,NM_020178.4;CA10,intron_variant,,ENST00000442502,NM_001082534.1;CA10,intron_variant,,ENST00000285273,NM_001082533.1;CA10,intron_variant,,ENST00000340813,;CA10,intron_variant,,ENST00000570565,;CA10,intron_variant,,ENST00000575181,;CA10,intron_variant,,ENST00000573294,;CA10,intron_variant,,ENST00000571371,;"	"AAGAA"	"ENSG00000154975"	"ENST00000451037"	"Transcript"	"intron_variant"	"-/3189"	"-/987"	"-/328"	""	""	"rs141666932"	"1"	NA	-1	"CA10"	"HGNC"	1369	"protein_coding"	"YES"	"CCDS32684.1"	"ENSP00000405388"	"Q9NS85"	"I3L375,B4DGL6"	"UPI000000167C"	"NM_020178.4"	NA	NA	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"542f4802-2764-11e6-a2cd-99dd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WXS"	FALSE
"1155"	"C17orf67"	339210	"mskcc.org"	"GRCh37"	"17"	54874228	54874228	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs11323544"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.157-1687delC"	""	""	"ENST00000397861"	""	8	"."	5	3	"."	0	"C17orf67,intron_variant,,ENST00000397861,;C17orf67,intron_variant,,ENST00000575658,NM_001085430.2;C17orf67,intron_variant,,ENST00000397862,;C17orf67,upstream_gene_variant,,ENST00000570754,;"	"-"	"ENSG00000214226"	"ENST00000397861"	"Transcript"	"intron_variant"	"-/2013"	"-/273"	"-/90"	""	""	"rs11323544"	"1"	NA	-1	"C17orf67"	"HGNC"	27900	"protein_coding"	"YES"	"CCDS42364.2"	"ENSP00000380959"	"Q0P5P2"	""	"UPI000015F12E"	""	NA	NA	""	"6/7"	""	"G:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"4152d60e-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1156"	"RNF126P1"	376412	"mskcc.org"	"GRCh37"	"17"	55119841	55119852	"+"	"5'Flank"	"DEL"	"CTTTCTTTCTCT"	"CTTTCTTTCTCT"	"-"	"rs145000749"	NA	"JHCCPT1"	"JHCCPN1"	"CTTTCTTTCTCT"	"CTTTCTTTCTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000567452"	""	8	"."	5	10	"."	0	"RNF126P1,upstream_gene_variant,,ENST00000567452,;RNF126P1,upstream_gene_variant,,ENST00000569893,;"	"-"	"ENSG00000261192"	"ENST00000567452"	"Transcript"	"upstream_gene_variant"	"-/1320"	""	""	""	""	"rs145000749"	"1"	"2987"	1	"RNF126P1"	"HGNC"	30340	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0208"	"-:0.0023"	"-:0.0231"	NA	"-:0.001"	"-:0.0487"	"-:0.0358"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCTTTCTTTCTCTT"	"41600d7e-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1157"	"RNF126P1"	376412	"mskcc.org"	"GRCh37"	"17"	55125180	55125181	"+"	"3'Flank"	"INS"	"-"	"-"	"AAGAC"	"rs4048319"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000567452"	""	8	"."	4	1	"."	0	"RNF126P1,downstream_gene_variant,,ENST00000567452,;RNF126P1,downstream_gene_variant,,ENST00000569893,;"	"AAGAC"	"ENSG00000261192"	"ENST00000567452"	"Transcript"	"downstream_gene_variant"	"-/1320"	""	""	""	""	"rs4048319"	"1"	"1022"	1	"RNF126P1"	"HGNC"	30340	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"54ab3c96-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1158"	"MSI2"	124540	"mskcc.org"	"GRCh37"	"17"	55358175	55358176	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs35019880"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.312+18629dupA"	""	""	"ENST00000284073"	""	8	"."	3	1	"."	0	"MSI2,intron_variant,,ENST00000284073,NM_138962.2;MSI2,intron_variant,,ENST00000322684,NM_170721.1;MSI2,intron_variant,,ENST00000416426,;MSI2,intron_variant,,ENST00000579590,;MSI2,intron_variant,,ENST00000582453,;MSI2,intron_variant,,ENST00000581776,;"	"A"	"ENSG00000153944"	"ENST00000284073"	"Transcript"	"intron_variant"	"-/6364"	"-/987"	"-/328"	""	""	"rs35019880"	"1"	NA	1	"MSI2"	"HGNC"	18585	"protein_coding"	"YES"	"CCDS11596.1"	"ENSP00000284073"	"Q96DH6"	""	"UPI0000070D73"	"NM_138962.2"	NA	NA	""	"5/13"	""	"-:0.3910"	"A:0.27"	"A:0.7608"	NA	"A:0.7014"	"A:0.7575"	"A:0.7117"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"54bf6464-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	TRUE
"1159"	"TEX14"	56155	"mskcc.org"	"GRCh37"	"17"	56707604	56707607	"+"	"Intron"	"DEL"	"AGGC"	"AGGC"	"-"	"rs144066774"	NA	"JHCCPT1"	"JHCCPN1"	"AGGC"	"AGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.251+194_251+197delGCCT"	""	""	"ENST00000240361"	""	20	"."	5	5	"."	0	"TEX14,intron_variant,,ENST00000389934,NM_198393.3,NM_001201457.1;TEX14,intron_variant,,ENST00000240361,;TEX14,intron_variant,,ENST00000349033,NM_031272.4;U3,downstream_gene_variant,,ENST00000390893,;TEX14,intron_variant,,ENST00000582740,;"	"-"	"ENSG00000121101"	"ENST00000240361"	"Transcript"	"intron_variant"	"-/4911"	"-/4494"	"-/1497"	""	""	"rs144066774"	"1"	NA	-1	"TEX14"	"HGNC"	11737	"protein_coding"	"YES"	"CCDS56042.1"	"ENSP00000240361"	"Q8IWB6"	""	"UPI0000DAC9CA"	""	NA	NA	""	"3/32"	""	"-:0.1466"	"-:0.0908"	"-:0.1816"	NA	"-:0"	"-:0.3529"	"-:0.136"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGGCA"	"419e6a60-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1160"	"GDPD1"	284161	"mskcc.org"	"GRCh37"	"17"	57311744	57311744	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs536685704"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.143-105delC"	""	""	"ENST00000284116"	""	39	"."	3	18	"."	0	"GDPD1,intron_variant,,ENST00000284116,NM_182569.3;GDPD1,intron_variant,,ENST00000581140,NM_001165993.1;GDPD1,intron_variant,,ENST00000581276,NM_001165994.1;GDPD1,intron_variant,,ENST00000578026,;GDPD1,intron_variant,,ENST00000579020,;GDPD1,intron_variant,,ENST00000583543,;"	"-"	"ENSG00000153982"	"ENST00000284116"	"Transcript"	"intron_variant"	"-/1821"	"-/945"	"-/314"	""	""	"rs536685704"	"1"	NA	1	"GDPD1"	"HGNC"	20883	"protein_coding"	"YES"	"CCDS11616.1"	"ENSP00000284116"	"Q8N9F7"	"J3QRR6"	"UPI000019850B"	"NM_182569.3"	NA	NA	""	"1/9"	""	"-:0.1138"	"-:0.1989"	"-:0.0793"	NA	"-:0.0655"	"-:0.0765"	"-:0.1115"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACC"	"41b90ba4-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WXS"	FALSE
"1161"	"CLTC"	1213	"mskcc.org"	"GRCh37"	"17"	57719365	57719366	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs759412956"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.43-2272_43-2271insG"	""	""	"ENST00000269122"	""	210	"."	3	132	"."	0	"CLTC,intron_variant,,ENST00000269122,NM_004859.3,NM_001288653.1;CLTC,intron_variant,,ENST00000393043,;CLTC,intron_variant,,ENST00000579456,;CLTC,intron_variant,,ENST00000580081,;CLTC,intron_variant,,ENST00000584313,;"	"G"	"ENSG00000141367"	"ENST00000269122"	"Transcript"	"intron_variant"	"-/7760"	"-/5028"	"-/1675"	""	""	"rs759412956"	"1"	NA	1	"CLTC"	"HGNC"	2092	"protein_coding"	"YES"	"CCDS32696.1"	"ENSP00000269122"	"Q00610"	"Q49AL0"	"UPI0000127ABD"	"NM_004859.3,NM_001288653.1"	NA	NA	""	"1/31"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"55519a46-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0142857142857143	"WXS"	TRUE
"1162"	"CA4"	762	"mskcc.org"	"GRCh37"	"17"	58241641	58241643	"+"	"3'Flank"	"DEL"	"CCT"	"CCT"	"-"	"rs534818449"	NA	"JHCCPT1"	"JHCCPN1"	"CCT"	"CCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000300900"	""	20	"."	8	2	"."	0	"CA4,downstream_gene_variant,,ENST00000300900,NM_000717.3;CA4,downstream_gene_variant,,ENST00000590203,;CA4,intron_variant,,ENST00000586876,;"	"-"	"ENSG00000167434"	"ENST00000300900"	"Transcript"	"downstream_gene_variant"	"-/1154"	"-/939"	"-/312"	""	""	"rs534818449"	"1"	"4740"	1	"CA4"	"HGNC"	1375	"protein_coding"	"YES"	"CCDS11624.1"	"ENSP00000300900"	"P22748"	"Q6FHI7,K7ENI8"	"UPI000004EC91"	"NM_000717.3"	NA	NA	""	""	""	"-:0.0074"	"-:0"	"-:0.0014"	NA	"-:0"	"-:0.003"	"-:0.0337"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCCCTC"	"42123418-2764-11e6-a2cd-99dd414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1163"	"USP32"	84669	"mskcc.org"	"GRCh37"	"17"	58313873	58313874	"+"	"Intron"	"INS"	"-"	"-"	"AATT"	"rs112819714"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1137-276_1137-273dupAATT"	""	""	"ENST00000300896"	""	10	"."	3	4	"."	0	"USP32,intron_variant,,ENST00000300896,NM_032582.3;USP32,intron_variant,,ENST00000592339,;USP32,intron_variant,,ENST00000590133,;USP32,intron_variant,,ENST00000589335,;SCARNA20,upstream_gene_variant,,ENST00000516768,;"	"AATT"	"ENSG00000170832"	"ENST00000300896"	"Transcript"	"intron_variant"	"-/5171"	"-/4815"	"-/1604"	""	""	"rs112819714"	"1"	NA	-1	"USP32"	"HGNC"	19143	"protein_coding"	"YES"	"CCDS32697.1"	"ENSP00000300896"	"Q8NFA0"	"Q86WP5,Q6IRT0,Q4VC15,K7EQL6"	"UPI0000047AF8"	"NM_032582.3"	NA	NA	""	"11/33"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"55753c1c-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1164"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	60330354	60330354	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs5821357"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5821357"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.2332"	"-:0.5166"	"-:0.83"	NA	"-:0.8313"	"-:0.8579"	"-:0.8998"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAT"	"425622ae-2764-11e6-a2cd-99dd414a729f"	"179"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1165"	"SCN4A"	6329	"mskcc.org"	"GRCh37"	"17"	62019619	62019628	"+"	"Intron"	"DEL"	"GTGTGTGTGT"	"GTGTGTGTGT"	"-"	"rs72037283"	NA	"JHCCPT1"	"JHCCPN1"	"GTGTGTGTGT"	"GTGTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4289-275_4289-266delACACACACAC"	""	""	"ENST00000435607"	""	11	"."	4	7	"."	0	"SCN4A,intron_variant,,ENST00000435607,NM_000334.4;SCN4A,intron_variant,,ENST00000578147,;"	"-"	"ENSG00000007314"	"ENST00000435607"	"Transcript"	"intron_variant"	"-/7805"	"-/5511"	"-/1836"	""	""	"rs72037283"	"1"	NA	-1	"SCN4A"	"HGNC"	10591	"protein_coding"	"YES"	"CCDS45761.1"	"ENSP00000396320"	"P35499"	"Q9H3L9"	"UPI0000201254"	"NM_000334.4"	NA	NA	""	"23/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGGTGTGTGTGTG"	"428d6f7a-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"1166"	"CEP112"	201134	"mskcc.org"	"GRCh37"	"17"	64024101	64024104	"+"	"Intron"	"DEL"	"GAAA"	"GAAA"	"-"	"rs141029568"	NA	"JHCCPT1"	"JHCCPN1"	"GAAA"	"GAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1596+327_1596+330delTTTC"	""	""	"ENST00000392769"	""	9	"."	3	7	"."	0	"CEP112,intron_variant,,ENST00000392769,NM_145036.3;CEP112,intron_variant,,ENST00000535342,NM_001199165.1;CEP112,intron_variant,,ENST00000537949,;CEP112,intron_variant,,ENST00000541355,;CEP112,intron_variant,,ENST00000583358,;"	"-"	"ENSG00000154240"	"ENST00000392769"	"Transcript"	"intron_variant"	"-/3517"	"-/2868"	"-/955"	""	""	"rs141029568"	"1"	NA	-1	"CEP112"	"HGNC"	28514	"protein_coding"	"YES"	"CCDS32710.1"	"ENSP00000376522"	"Q8N8E3"	"J3QQV3"	"UPI0000603C26"	"NM_145036.3"	NA	NA	""	"15/26"	""	"GAAA:0.4637"	"-:0.2322"	"-:0.6585"	NA	"-:0.875"	"-:0.4374"	"-:0.6135"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGAAAG"	"42cf66e6-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1167"	"CEP112"	201134	"mskcc.org"	"GRCh37"	"17"	64049620	64049621	"+"	"Intron"	"INS"	"-"	"-"	"AAT"	"rs372811803,rs143255919"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1218+231_1218+233dupATT"	""	""	"ENST00000392769"	""	45	"."	3	12	"."	0	"CEP112,intron_variant,,ENST00000392769,NM_145036.3;CEP112,intron_variant,,ENST00000535342,NM_001199165.1;CEP112,intron_variant,,ENST00000537949,;CEP112,intron_variant,,ENST00000541355,;CEP112,intron_variant,,ENST00000583358,;"	"AAT"	"ENSG00000154240"	"ENST00000392769"	"Transcript"	"intron_variant"	"-/3517"	"-/2868"	"-/955"	""	""	"rs372811803,rs143255919"	"1"	NA	-1	"CEP112"	"HGNC"	28514	"protein_coding"	"YES"	"CCDS32710.1"	"ENSP00000376522"	"Q8N8E3"	"J3QQV3"	"UPI0000603C26"	"NM_145036.3"	NA	NA	""	"12/26"	""	"AAT:0.0455"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"561533f2-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WXS"	FALSE
"1168"	"CACNG4"	27092	"mskcc.org"	"GRCh37"	"17"	64961274	64961275	"+"	"Intron"	"DEL"	"CC"	"CC"	"-"	""	NA	"JHCCPT1"	"JHCCPN1"	"CC"	"CC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.220+29_220+30delCC"	""	""	"ENST00000262138"	""	173	"."	3	99	"."	0	"CACNG4,intron_variant,,ENST00000262138,NM_014405.3;"	"-"	"ENSG00000075461"	"ENST00000262138"	"Transcript"	"intron_variant"	"-/3380"	"-/984"	"-/327"	""	""	"TMP_ESP_17_64961274_64961275"	"1"	NA	1	"CACNG4"	"HGNC"	1408	"protein_coding"	"YES"	"CCDS11667.1"	"ENSP00000262138"	"Q9UBN1"	""	"UPI0000001649"	"NM_014405.3"	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	"-:0.4587"	"-:0.5"	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	"0.3193"	"0.237"	"0.3145"	"0.1557"	"0.2826"	"0.2362"	"0.2604"	"0.3008"	NA	"common_variant"	"CGCCC"	"42e7a6b6-2764-11e6-a2cd-99dd414a729f"	"180"	0.2743	"2544/9276"	"22618/70836"	"64/270"	"39/124"	"19/122"	"13/46"	"762/3226"	"25/96"	"1622/5392"	"PASS"	"FALSE"	0.0173410404624277	"WXS"	FALSE
"1169"	"PITPNC1"	26207	"mskcc.org"	"GRCh37"	"17"	65579897	65579897	"+"	"Intron"	"DEL"	"G"	"-"	"-"	"rs373163284"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.366+5525delG"	""	""	"ENST00000581322"	""	6	"."	6	2	"."	0	"PITPNC1,intron_variant,,ENST00000580974,NM_012417.3,NM_181671.2;PITPNC1,intron_variant,,ENST00000299954,;PITPNC1,intron_variant,,ENST00000335257,;PITPNC1,intron_variant,,ENST00000581322,;PITPNC1,intron_variant,,ENST00000578527,;PITPNC1,intron_variant,,ENST00000581923,;"	"-"	"ENSG00000154217"	"ENST00000581322"	"Transcript"	"intron_variant"	"-/1124"	"-/999"	"-/332"	""	""	"rs373163284"	"1"	NA	1	"PITPNC1"	"HGNC"	21045	"protein_coding"	"YES"	"CCDS58588.1"	"ENSP00000464006"	""	"J3QS95,J3QRS7,J3QR20"	"UPI00001AE46B"	""	NA	NA	""	"5/8"	""	"G:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGG"	"42f0fa9a-2764-11e6-a2cd-99dd414a729f"	"353"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"1170"	"C17orf58"	284018	"mskcc.org"	"GRCh37"	"17"	65993813	65993814	"+"	"5'Flank"	"INS"	"-"	"-"	"GAA"	"rs146896605"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000449250"	""	13	"."	4	8	"."	0	"C17orf58,upstream_gene_variant,,ENST00000536693,;C17orf58,upstream_gene_variant,,ENST00000334461,NM_181655.2,NM_181656.3;C17orf58,upstream_gene_variant,,ENST00000449250,;RP11-855A2.5,upstream_gene_variant,,ENST00000580729,;"	"GAA"	"ENSG00000186665"	"ENST00000449250"	"Transcript"	"upstream_gene_variant"	"-/1296"	"-/294"	"-/97"	""	""	"rs146896605"	"1"	"4173"	-1	"C17orf58"	"HGNC"	27568	"protein_coding"	"YES"	"CCDS45765.1"	"ENSP00000402020"	"Q2M2W7"	""	"UPI0000160F31"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"56554a00-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"1171"	"ABCA8"	10351	"mskcc.org"	"GRCh37"	"17"	66921390	66921390	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs35431659"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1274-380delT"	""	""	"ENST00000269080"	""	9	"."	3	2	"."	0	"ABCA8,intron_variant,,ENST00000269080,NM_007168.2;ABCA8,intron_variant,,ENST00000586539,;ABCA8,intron_variant,,ENST00000430352,;ABCA8,intron_variant,,ENST00000541225,;ABCA8,intron_variant,,ENST00000589533,;"	"-"	"ENSG00000141338"	"ENST00000269080"	"Transcript"	"intron_variant"	"-/5677"	"-/4746"	"-/1581"	""	""	"rs35431659"	"1"	NA	-1	"ABCA8"	"HGNC"	38	"protein_coding"	"YES"	"CCDS11680.1"	"ENSP00000269080"	"O94911"	"K7ELK9"	"UPI000004C4B7"	"NM_007168.2"	NA	NA	""	"9/37"	""	"-:0.4157"	"-:0.3548"	"-:0.428"	NA	"-:0.1796"	"-:0.5596"	"-:0.5849"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAT"	"433021fc-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1172"	"ABCA9"	10350	"mskcc.org"	"GRCh37"	"17"	67012261	67012266	"+"	"Intron"	"DEL"	"ATATAC"	"ATATAC"	"-"	"rs201422135"	NA	"JHCCPT1"	"JHCCPN1"	"ATATAC"	"ATATAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3039+128_3039+133delGTATAT"	""	""	"ENST00000340001"	""	28	"."	3	11	"."	0	"ABCA9,intron_variant,,ENST00000340001,NM_080283.3;ABCA9,intron_variant,,ENST00000370732,;ABCA9,intron_variant,,ENST00000453985,;ABCA9-AS1,intron_variant,,ENST00000458677,;ABCA9,intron_variant,,ENST00000492580,;"	"-"	"ENSG00000154258"	"ENST00000340001"	"Transcript"	"intron_variant"	"-/6514"	"-/4875"	"-/1624"	""	""	"rs201422135"	"1"	NA	-1	"ABCA9"	"HGNC"	39	"protein_coding"	"YES"	"CCDS11681.1"	"ENSP00000342216"	"Q8IUA7"	"K7EJJ0"	"UPI00000747B1"	"NM_080283.3"	NA	NA	""	"22/38"	""	"-:0.3261"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATATACA"	"43356f90-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WXS"	FALSE
"1173"	"ABCA9"	10350	"mskcc.org"	"GRCh37"	"17"	67012263	67012266	"+"	"Intron"	"DEL"	"ATAC"	"ATAC"	"-"	"rs201716826"	NA	"JHCCPT1"	"JHCCPN1"	"ATAC"	"ATAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3039+128_3039+131delGTAT"	""	""	"ENST00000340001"	""	29	"."	3	11	"."	0	"ABCA9,intron_variant,,ENST00000340001,NM_080283.3;ABCA9,intron_variant,,ENST00000370732,;ABCA9,intron_variant,,ENST00000453985,;ABCA9-AS1,intron_variant,,ENST00000458677,;ABCA9,intron_variant,,ENST00000492580,;"	"-"	"ENSG00000154258"	"ENST00000340001"	"Transcript"	"intron_variant"	"-/6514"	"-/4875"	"-/1624"	""	""	"rs201716826"	"1"	NA	-1	"ABCA9"	"HGNC"	39	"protein_coding"	"YES"	"CCDS11681.1"	"ENSP00000342216"	"Q8IUA7"	"K7EJJ0"	"UPI00000747B1"	"NM_080283.3"	NA	NA	""	"22/38"	""	"-:0.1577"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATACA"	"4339a808-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WXS"	FALSE
"1174"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	68451075	68451078	"+"	"IGR"	"DEL"	"AAAA"	"AAAA"	"-"	"rs143282108"	NA	"JHCCPT1"	"JHCCPN1"	"AAAA"	"AAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"."	4	8	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143282108"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAAAAA"	"4352926e-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WXS"	FALSE
"1175"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	69335037	69335079	"+"	"IGR"	"DEL"	"CTTTCTTTCTTTCTTTCTTTCTTTCTTTTTCTTTATTTCTCTT"	"CTTTCTTTCTTTCTTTCTTTCTTTCTTTTTCTTTATTTCTCTT"	"TTCTTTATTTCTCTTTCTCTCTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CTTTCTTTCTTTCTTTCTTTCTTTCTTTTTCTTTATTTCTCTT"	"CTTTCTTTCTTTCTTTCTTTCTTTCTTTTTCTTTATTTCTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"."	3	17	"."	0	""	"TTCTTTATTTCTCTTTCTCTCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTTTCTTTCTTTCTTTCTTTCTTTCTTTTTCTTTATTTCTCTTT"	"4715a922-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WXS"	FALSE
"1176"	"SLC39A11"	201266	"mskcc.org"	"GRCh37"	"17"	70836269	70836270	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs61391472"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.622+9503dupT"	""	""	"ENST00000542342"	""	10	"."	4	2	"."	0	"SLC39A11,intron_variant,,ENST00000542342,NM_001159770.1;SLC39A11,intron_variant,,ENST00000255559,NM_139177.3;SLC39A11,intron_variant,,ENST00000579732,;SLC39A11,intron_variant,,ENST00000583715,;SLC39A11,intron_variant,,ENST00000582769,;SLC39A11,intron_variant,,ENST00000581581,;RP11-171G2.1,downstream_gene_variant,,ENST00000583916,;SLC39A11,intron_variant,,ENST00000579491,;SLC39A11,intron_variant,,ENST00000584129,;SLC39A11,intron_variant,,ENST00000579319,;"	"A"	"ENSG00000133195"	"ENST00000542342"	"Transcript"	"intron_variant"	"-/2752"	"-/1029"	"-/342"	""	""	"rs61391472"	"1"	NA	-1	"SLC39A11"	"HGNC"	14463	"protein_coding"	"YES"	"CCDS54160.1"	"ENSP00000445829"	"Q8N1S5"	"J3QLA9,J3KT59,J3KRI1"	"UPI000020017B"	"NM_001159770.1"	NA	NA	""	"6/9"	""	"-:0.1212"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"56aae97e-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1177"	"COG1"	9382	"mskcc.org"	"GRCh37"	"17"	71202795	71202795	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs375913481"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2620-52delG"	""	""	"ENST00000299886"	""	287	"."	3	176	"."	0	"COG1,intron_variant,,ENST00000438720,;COG1,intron_variant,,ENST00000299886,NM_018714.2;COG1,intron_variant,,ENST00000582672,;COG1,intron_variant,,ENST00000582512,;FAM104A,downstream_gene_variant,,ENST00000405159,NM_001098832.1;FAM104A,downstream_gene_variant,,ENST00000403627,NM_032837.2;FAM104A,downstream_gene_variant,,ENST00000581110,;FAM104A,downstream_gene_variant,,ENST00000580032,;FAM104A,downstream_gene_variant,,ENST00000579872,;FAM104A,downstream_gene_variant,,ENST00000583024,;FAM104A,downstream_gene_variant,,ENST00000583178,;COG1,intron_variant,,ENST00000577238,;COG1,intron_variant,,ENST00000580271,;COG1,downstream_gene_variant,,ENST00000577844,;COG1,upstream_gene_variant,,ENST00000582973,;"	"-"	"ENSG00000166685"	"ENST00000299886"	"Transcript"	"intron_variant"	"-/3079"	"-/2943"	"-/980"	""	""	"rs375913481"	"1"	NA	1	"COG1"	"HGNC"	6545	"protein_coding"	"YES"	"CCDS11692.1"	"ENSP00000299886"	"Q8WTW3"	"J3KSY3"	"UPI0000127E34"	"NM_018714.2"	NA	NA	""	"11/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTGC"	"437edbe4-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0104529616724739	"WXS"	FALSE
"1178"	"COG1"	9382	"mskcc.org"	"GRCh37"	"17"	71203232	71203236	"+"	"Intron"	"DEL"	"AAAAA"	"AAAAA"	"-"	"rs562461417"	NA	"JHCCPT1"	"JHCCPN1"	"AAAAA"	"AAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2730-71_2730-67delAAAAA"	""	""	"ENST00000299886"	""	40	"."	3	22	"."	0	"COG1,intron_variant,,ENST00000438720,;COG1,intron_variant,,ENST00000299886,NM_018714.2;COG1,intron_variant,,ENST00000582672,;COG1,intron_variant,,ENST00000582512,;FAM104A,downstream_gene_variant,,ENST00000405159,NM_001098832.1;FAM104A,downstream_gene_variant,,ENST00000403627,NM_032837.2;FAM104A,downstream_gene_variant,,ENST00000581110,;FAM104A,downstream_gene_variant,,ENST00000580032,;FAM104A,downstream_gene_variant,,ENST00000579872,;FAM104A,downstream_gene_variant,,ENST00000583024,;FAM104A,downstream_gene_variant,,ENST00000583178,;COG1,intron_variant,,ENST00000582973,;COG1,downstream_gene_variant,,ENST00000577238,;COG1,downstream_gene_variant,,ENST00000580271,;COG1,downstream_gene_variant,,ENST00000577844,;"	"-"	"ENSG00000166685"	"ENST00000299886"	"Transcript"	"intron_variant"	"-/3079"	"-/2943"	"-/980"	""	""	"rs562461417"	"1"	NA	1	"COG1"	"HGNC"	6545	"protein_coding"	"YES"	"CCDS11692.1"	"ENSP00000299886"	"Q8WTW3"	"J3KSY3"	"UPI0000127E34"	"NM_018714.2"	NA	NA	""	"12/13"	""	"AAAAA:0.1166"	"-:0.8956"	"-:0.8602"	NA	"-:0.9048"	"-:0.8489"	"-:0.8967"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCAAAAAA"	"43878302-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WXS"	FALSE
"1179"	"SDK2"	54549	"mskcc.org"	"GRCh37"	"17"	71579844	71579845	"+"	"Intron"	"INS"	"-"	"-"	"CCACTCCCCATTCTGTCTGGGG"	"rs60250608"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.64+60319_64+60320insCCCCAGACAGAATGGGGAGTGG"	""	""	"ENST00000392650"	""	7	"."	4	2	"."	0	"SDK2,intron_variant,,ENST00000392650,NM_001144952.1;SDK2,intron_variant,,ENST00000388726,;"	"CCACTCCCCATTCTGTCTGGGG"	"ENSG00000069188"	"ENST00000392650"	"Transcript"	"intron_variant"	"-/10723"	"-/6519"	"-/2172"	""	""	"rs60250608"	"1"	NA	-1	"SDK2"	"HGNC"	19308	"protein_coding"	"YES"	"CCDS45769.1"	"ENSP00000376421"	"Q58EX2"	""	"UPI0000E5A088"	"NM_001144952.1"	NA	NA	""	"1/44"	""	"CCACTCCCCATTCTGTCTGGGG:0.1729"	"CCACTCCCCATTCTGTCTGGGG:0.3366"	"CCACTCCCCATTCTGTCTGGGG:0.1657"	NA	"CCACTCCCCATTCTGTCTGGGG:0.005"	"CCACTCCCCATTCTGTCTGGGG:0.1491"	"CCACTCCCCATTCTGTCTGGGG:0.1544"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"56d2656c-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1180"	"SDK2"	54549	"mskcc.org"	"GRCh37"	"17"	71591341	71591343	"+"	"Intron"	"DEL"	"GAG"	"GAG"	"-"	"rs72207708"	NA	"JHCCPT1"	"JHCCPN1"	"GAG"	"GAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.64+48821_64+48823delCTC"	""	""	"ENST00000392650"	""	17	"."	5	6	"."	0	"SDK2,intron_variant,,ENST00000392650,NM_001144952.1;SDK2,intron_variant,,ENST00000388726,;"	"-"	"ENSG00000069188"	"ENST00000392650"	"Transcript"	"intron_variant"	"-/10723"	"-/6519"	"-/2172"	""	""	"rs72207708"	"1"	NA	-1	"SDK2"	"HGNC"	19308	"protein_coding"	"YES"	"CCDS45769.1"	"ENSP00000376421"	"Q58EX2"	""	"UPI0000E5A088"	"NM_001144952.1"	NA	NA	""	"1/44"	""	"-:0.2145"	"-:0.351"	"-:0.2205"	NA	"-:0.0486"	"-:0.2068"	"-:0.2045"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGAGG"	"4398ed7c-2764-11e6-a2cd-99dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"1181"	"TTYH2"	94015	"mskcc.org"	"GRCh37"	"17"	72239161	72239161	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs5822032"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.636-351delC"	""	""	"ENST00000269346"	""	13	"."	4	5	"."	0	"TTYH2,intron_variant,,ENST00000269346,NM_032646.5;TTYH2,intron_variant,,ENST00000529107,;TTYH2,upstream_gene_variant,,ENST00000441391,NM_052869.1;TTYH2,intron_variant,,ENST00000534346,;TTYH2,intron_variant,,ENST00000578825,;TTYH2,upstream_gene_variant,,ENST00000528128,;"	"-"	"ENSG00000141540"	"ENST00000269346"	"Transcript"	"intron_variant"	"-/3486"	"-/1605"	"-/534"	""	""	"rs5822032"	"1"	NA	1	"TTYH2"	"HGNC"	13877	"protein_coding"	"YES"	"CCDS32717.1"	"ENSP00000269346"	"Q9BSA4"	""	"UPI00002001AA"	"NM_032646.5"	NA	NA	""	"4/13"	""	"-:0.1583"	"-:0.2489"	"-:0.1643"	NA	"-:0.0655"	"-:0.1541"	"-:0.1319"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCC"	"43ac950c-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"1182"	"TTYH2"	94015	"mskcc.org"	"GRCh37"	"17"	72250322	72250322	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs111583451"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1524+350delA"	""	""	"ENST00000269346"	""	12	"."	4	1	"."	0	"TTYH2,intron_variant,,ENST00000441391,NM_052869.1;TTYH2,intron_variant,,ENST00000269346,NM_032646.5;TTYH2,intron_variant,,ENST00000529107,;CTD-2514K5.4,downstream_gene_variant,,ENST00000583018,;TTYH2,downstream_gene_variant,,ENST00000534346,;TTYH2,intron_variant,,ENST00000526858,;TTYH2,downstream_gene_variant,,ENST00000534039,;TTYH2,downstream_gene_variant,,ENST00000528152,;TTYH2,downstream_gene_variant,,ENST00000528128,;"	"-"	"ENSG00000141540"	"ENST00000269346"	"Transcript"	"intron_variant"	"-/3486"	"-/1605"	"-/534"	""	""	"rs111583451"	"1"	NA	1	"TTYH2"	"HGNC"	13877	"protein_coding"	"YES"	"CCDS32717.1"	"ENSP00000269346"	"Q9BSA4"	""	"UPI00002001AA"	"NM_032646.5"	NA	NA	""	"13/13"	""	"-:0.3530"	"-:0.5348"	"-:0.2939"	NA	"-:0.1121"	"-:0.3618"	"-:0.3885"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAT"	"43b8b918-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1183"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	72386644	72386664	"+"	"IGR"	"DEL"	"TTCTTCTCTCCTTATTTTCTT"	"TTCTTCTCTCCTTATTTTCTT"	"CTCCTTATTTTCTTTGCTT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TTCTTCTCTCCTTATTTTCTT"	"TTCTTCTCTCCTTATTTTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	7	4	"."	0	""	"CTCCTTATTTTCTTTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTTCTTCTCTCCTTATTTTCTTT"	"472141e2-2764-11e6-a2cd-99dd414a729f"	"417"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1184"	"FADS6"	283985	"mskcc.org"	"GRCh37"	"17"	72889246	72889271	"+"	"Intron"	"DEL"	"CATCAGACCCCTCCCTCCTCCTGCGC"	"CATCAGACCCCTCCCTCCTCCTGCGC"	"G"	"rs782124441"	NA	"JHCCPT1"	"JHCCPN1"	"CATCAGACCCCTCCCTCCTCCTGCGC"	"CATCAGACCCCTCCCTCCTCCTGCGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.190+233_190+258delGCGCAGGAGGAGGGAGGGGTCTGATGinsC"	""	""	"ENST00000310226"	""	8	"."	3	3	"."	0	"FADS6,intron_variant,,ENST00000310226,NM_178128.3;"	"G"	"ENSG00000172782"	"ENST00000310226"	"Transcript"	"intron_variant"	"-/2100"	"-/1053"	"-/350"	""	""	"rs782124441"	"1"	NA	-1	"FADS6"	"HGNC"	30459	"protein_coding"	"YES"	"CCDS54163.1"	"ENSP00000307821"	"Q8N9I5"	""	"UPI00001A95BE"	"NM_178128.3"	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCATCAGACCCCTCCCTCCTCCTGCGCC"	"472cd05c-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1185"	"RECQL5"	9400	"mskcc.org"	"GRCh37"	"17"	73619953	73619958	"+"	"3'Flank"	"DEL"	"CTTCTG"	"CTTCTG"	"GGT"	"rs386799251"	NA	"JHCCPT1"	"JHCCPN1"	"CTTCTG"	"CTTCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000317905"	""	151	"."	9	99	"."	0	"RECQL5,downstream_gene_variant,,ENST00000317905,NM_004259.6;RECQL5,downstream_gene_variant,,ENST00000423245,;RECQL5,downstream_gene_variant,,ENST00000581825,;RECQL5,downstream_gene_variant,,ENST00000582548,;MYO15B,intron_variant,,ENST00000578382,;MYO15B,intron_variant,,ENST00000580414,;MYO15B,intron_variant,,ENST00000578220,;MYO15B,intron_variant,,ENST00000577948,;MYO15B,intron_variant,,ENST00000580096,;RECQL5,downstream_gene_variant,,ENST00000443199,;MYO15B,upstream_gene_variant,,ENST00000580262,;MYO15B,downstream_gene_variant,,ENST00000577342,;MYO15B,downstream_gene_variant,,ENST00000583140,;MYO15B,intron_variant,,ENST00000577986,;RECQL5,downstream_gene_variant,,ENST00000578865,;MYO15B,downstream_gene_variant,,ENST00000577785,;MYO15B,downstream_gene_variant,,ENST00000582597,;MYO15B,downstream_gene_variant,,ENST00000577613,;MYO15B,downstream_gene_variant,,ENST00000579052,;MYO15B,downstream_gene_variant,,ENST00000578960,;MYO15B,downstream_gene_variant,,ENST00000579048,;MYO15B,downstream_gene_variant,,ENST00000577296,;MYO15B,downstream_gene_variant,,ENST00000578300,;"	"GGT"	"ENSG00000108469"	"ENST00000317905"	"Transcript"	"downstream_gene_variant"	"-/3704"	"-/2976"	"-/991"	""	""	"rs386799251"	"1"	"2976"	-1	"RECQL5"	"HGNC"	9950	"protein_coding"	"YES"	"CCDS42380.1"	"ENSP00000317636"	"O94762"	"Q9BW80,Q9BSD6,J3QLU0,J3KTQ2"	"UPI0000133477"	"NM_004259.6"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCTTCTGG"	"474fe9ca-2764-11e6-a2cd-99dd414a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.0596026490066225	"WXS"	FALSE
"1186"	"RECQL5"	9400	"mskcc.org"	"GRCh37"	"17"	73619953	73619958	"+"	"3'Flank"	"DEL"	"CTTCTG"	"CTTCTG"	"GGT"	"rs386799251"	NA	"JHCCPT1"	"JHCCPN1"	"CTTCTG"	"CTTCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000317905"	""	151	"."	78	99	"."	0	"RECQL5,downstream_gene_variant,,ENST00000317905,NM_004259.6;RECQL5,downstream_gene_variant,,ENST00000423245,;RECQL5,downstream_gene_variant,,ENST00000581825,;RECQL5,downstream_gene_variant,,ENST00000582548,;MYO15B,intron_variant,,ENST00000578382,;MYO15B,intron_variant,,ENST00000580414,;MYO15B,intron_variant,,ENST00000578220,;MYO15B,intron_variant,,ENST00000577948,;MYO15B,intron_variant,,ENST00000580096,;RECQL5,downstream_gene_variant,,ENST00000443199,;MYO15B,upstream_gene_variant,,ENST00000580262,;MYO15B,downstream_gene_variant,,ENST00000577342,;MYO15B,downstream_gene_variant,,ENST00000583140,;MYO15B,intron_variant,,ENST00000577986,;RECQL5,downstream_gene_variant,,ENST00000578865,;MYO15B,downstream_gene_variant,,ENST00000577785,;MYO15B,downstream_gene_variant,,ENST00000582597,;MYO15B,downstream_gene_variant,,ENST00000577613,;MYO15B,downstream_gene_variant,,ENST00000579052,;MYO15B,downstream_gene_variant,,ENST00000578960,;MYO15B,downstream_gene_variant,,ENST00000579048,;MYO15B,downstream_gene_variant,,ENST00000577296,;MYO15B,downstream_gene_variant,,ENST00000578300,;"	"GGT"	"ENSG00000108469"	"ENST00000317905"	"Transcript"	"downstream_gene_variant"	"-/3704"	"-/2976"	"-/991"	""	""	"rs386799251"	"1"	"2976"	-1	"RECQL5"	"HGNC"	9950	"protein_coding"	"YES"	"CCDS42380.1"	"ENSP00000317636"	"O94762"	"Q9BW80,Q9BSD6,J3QLU0,J3KTQ2"	"UPI0000133477"	"NM_004259.6"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCTTCTGG"	"4753ba6e-2764-11e6-a2cd-99dd414a729f"	"4680"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.516556291390728	"WXS"	FALSE
"1187"	"RHBDF2"	79651	"mskcc.org"	"GRCh37"	"17"	74500404	74500405	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"rs34601559"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000313080"	""	6	"."	3	3	"."	0	"RHBDF2,upstream_gene_variant,,ENST00000591885,;RHBDF2,upstream_gene_variant,,ENST00000313080,NM_024599.5;RHBDF2,upstream_gene_variant,,ENST00000389760,NM_001005498.3;RHBDF2,upstream_gene_variant,,ENST00000592123,;RHBDF2,upstream_gene_variant,,ENST00000590288,;RHBDF2,upstream_gene_variant,,ENST00000591697,;RHBDF2,upstream_gene_variant,,ENST00000585989,;RHBDF2,upstream_gene_variant,,ENST00000591255,;RHBDF2,upstream_gene_variant,,ENST00000592378,;RHBDF2,upstream_gene_variant,,ENST00000593103,;"	"T"	"ENSG00000129667"	"ENST00000313080"	"Transcript"	"upstream_gene_variant"	"-/3582"	"-/2571"	"-/856"	""	""	"rs34601559"	"1"	"2915"	-1	"RHBDF2"	"HGNC"	20788	"protein_coding"	"YES"	"CCDS32743.1"	"ENSP00000322775"	"Q6PJF5"	"K7EQT5,K7EPV3,K7ELA9,K7EJ10"	"UPI0000DBEF0D"	"NM_024599.5"	NA	NA	""	""	""	"T:0.3942"	"T:0.3593"	"T:0.3487"	NA	"T:0.3413"	"T:0.3946"	"T:0.5276"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"5812293a-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1188"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	75924450	75924451	"+"	"IGR"	"DEL"	"CT"	"CT"	"-"	"rs150440981"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150440981"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0883"	"-:0.0386"	"-:0.1196"	NA	"-:0.0377"	"-:0.1551"	"-:0.1166"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCTC"	"4500bdb6-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1189"	"TNRC6C"	57690	"mskcc.org"	"GRCh37"	"17"	76073179	76073180	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs78684306"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3052-86dupG"	""	""	"ENST00000335749"	""	27	"."	8	12	"."	0	"TNRC6C,intron_variant,,ENST00000335749,NM_001142640.1;TNRC6C,intron_variant,,ENST00000301624,NM_018996.3;TNRC6C,intron_variant,,ENST00000588847,;TNRC6C,intron_variant,,ENST00000588061,;TNRC6C,intron_variant,,ENST00000541771,;TNRC6C,intron_variant,,ENST00000544502,;TNRC6C,intron_variant,,ENST00000591851,;TNRC6C,downstream_gene_variant,,ENST00000587990,;"	"G"	"ENSG00000078687"	"ENST00000335749"	"Transcript"	"intron_variant"	"-/9740"	"-/5181"	"-/1726"	""	""	"rs78684306"	"1"	NA	1	"TNRC6C"	"HGNC"	29318	"protein_coding"	"YES"	"CCDS45799.1"	"ENSP00000336783"	""	"K7ELY5,K7EKN9,G3XAB8"	"UPI0000EE5F80"	"NM_001142640.1"	NA	NA	""	"8/20"	""	"G:0.1661"	"G:0.2337"	"G:0.1888"	NA	"G:0.1806"	"G:0.0676"	"G:0.1452"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"58678416-2764-11e6-a2cd-99dd414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WXS"	FALSE
"1190"	"RP11-219G17.4"	100996291	"mskcc.org"	"GRCh37"	"17"	76266512	76266512	"+"	"Intron"	"DEL"	"G"	"-"	"-"	"rs142934944"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.960+221delC"	""	""	"ENST00000374945"	""	8	"."	7	3	"."	0	"RP11-219G17.4,intron_variant,,ENST00000374945,;"	"-"	"ENSG00000204277"	"ENST00000374945"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2934"	""	""	""	""	"rs142934944"	"1"	NA	-1	"RP11-219G17.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/6"	""	"-:0.1762"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGG"	"451f0398-2764-11e6-a2cd-99dd414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.875	"WXS"	FALSE
"1191"	"PGS1"	9489	"mskcc.org"	"GRCh37"	"17"	76398125	76398133	"+"	"Intron"	"DEL"	"TGTGCGCAG"	"TGTGCGCAG"	"GCTCA"	"rs386799522"	NA	"JHCCPT1"	"JHCCPN1"	"TGTGCGCAG"	"TGTGCGCAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.880+1189_880+1197delTGTGCGCAGinsGCTCA"	""	""	"ENST00000262764"	""	6	"."	4	1	"."	0	"PGS1,intron_variant,,ENST00000262764,NM_024419.3;PGS1,intron_variant,,ENST00000329897,;PGS1,intron_variant,,ENST00000589689,;PGS1,intron_variant,,ENST00000592043,;PGS1,downstream_gene_variant,,ENST00000587356,;PGS1,upstream_gene_variant,,ENST00000586355,;PGS1,upstream_gene_variant,,ENST00000586019,;SNORA30,downstream_gene_variant,,ENST00000363193,;PGS1,intron_variant,,ENST00000588281,;PGS1,intron_variant,,ENST00000585521,;PGS1,intron_variant,,ENST00000591996,;PGS1,intron_variant,,ENST00000589426,;PGS1,intron_variant,,ENST00000589425,;PGS1,intron_variant,,ENST00000588169,;PGS1,downstream_gene_variant,,ENST00000586510,;"	"GCTCA"	"ENSG00000087157"	"ENST00000262764"	"Transcript"	"intron_variant"	"-/2201"	"-/1671"	"-/556"	""	""	"rs386799522"	"1"	NA	1	"PGS1"	"HGNC"	30029	"protein_coding"	"YES"	"CCDS42391.1"	"ENSP00000262764"	"Q32NB8"	""	"UPI00000435E5"	"NM_024419.3"	NA	NA	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTGTGCGCAGG"	"47604e28-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1192"	"RBFOX3"	146713	"mskcc.org"	"GRCh37"	"17"	77273388	77273389	"+"	"Intron"	"INS"	"-"	"GGT"	"GGT"	"rs35977745"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-74+30417_-74+30418insACC"	""	""	"ENST00000415831"	""	10	"."	9	2	"."	0	"RBFOX3,intron_variant,,ENST00000583458,;RBFOX3,intron_variant,,ENST00000415831,;RBFOX3,intron_variant,,ENST00000584778,;RBFOX3,intron_variant,,ENST00000453134,;RBFOX3,intron_variant,,ENST00000580155,NM_001082575.2;RBFOX3,intron_variant,,ENST00000578887,;"	"GGT"	"ENSG00000167281"	"ENST00000415831"	"Transcript"	"intron_variant"	"-/2678"	"-/939"	"-/312"	""	""	"rs35977745"	"1"	NA	-1	"RBFOX3"	"HGNC"	27097	"protein_coding"	"YES"	"CCDS45805.1"	"ENSP00000408395"	"A6NFN3"	""	"UPI000020041C"	""	NA	NA	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"58d2e3d2-2764-11e6-a2cd-99dd414a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.9	"WXS"	FALSE
"1193"	"RBFOX3"	146713	"mskcc.org"	"GRCh37"	"17"	77276320	77276321	"+"	"Intron"	"DEL"	"CA"	"CA"	"-"	"rs10561578"	NA	"JHCCPT1"	"JHCCPN1"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-74+27485_-74+27486delTG"	""	""	"ENST00000415831"	""	7	"."	3	1	"."	0	"RBFOX3,intron_variant,,ENST00000583458,;RBFOX3,intron_variant,,ENST00000415831,;RBFOX3,intron_variant,,ENST00000584778,;RBFOX3,intron_variant,,ENST00000453134,;RBFOX3,intron_variant,,ENST00000580155,NM_001082575.2;RBFOX3,intron_variant,,ENST00000578887,;"	"-"	"ENSG00000167281"	"ENST00000415831"	"Transcript"	"intron_variant"	"-/2678"	"-/939"	"-/312"	""	""	"rs10561578"	"1"	NA	-1	"RBFOX3"	"HGNC"	27097	"protein_coding"	"YES"	"CCDS45805.1"	"ENSP00000408395"	"A6NFN3"	""	"UPI000020041C"	""	NA	NA	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCAC"	"456ad192-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1194"	"GAA"	2548	"mskcc.org"	"GRCh37"	"17"	78083424	78083424	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11315030"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1327-315delT"	""	""	"ENST00000302262"	""	11	"."	4	3	"."	0	"GAA,intron_variant,,ENST00000302262,NM_000152.3;GAA,intron_variant,,ENST00000390015,NM_001079804.1,NM_001079803.1;GAA,downstream_gene_variant,,ENST00000570803,;GAA,downstream_gene_variant,,ENST00000577106,;GAA,upstream_gene_variant,,ENST00000572080,;GAA,upstream_gene_variant,,ENST00000572803,;GAA,upstream_gene_variant,,ENST00000570716,;"	"-"	"ENSG00000171298"	"ENST00000302262"	"Transcript"	"intron_variant"	"-/3626"	"-/2859"	"-/952"	""	""	"rs11315030"	"1"	NA	1	"GAA"	"HGNC"	4065	"protein_coding"	"YES"	"CCDS32760.1"	"ENSP00000305692"	"P10253"	"I3L3L3,I3L0S5"	"UPI00000744FF"	"NM_000152.3"	NA	NA	""	"8/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACTT"	"458fdb18-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"1195"	"BAIAP2"	10458	"mskcc.org"	"GRCh37"	"17"	79024157	79024158	"+"	"Intron"	"INS"	"-"	"-"	"CTGCCCGCTGT"	"rs544212403"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55-3308_55-3298dupGCCCGCTGTCT"	""	""	"ENST00000321300"	""	10	"."	3	4	"."	0	"BAIAP2,intron_variant,,ENST00000321300,NM_001144888.1,NM_017451.2;BAIAP2,intron_variant,,ENST00000575712,;BAIAP2,intron_variant,,ENST00000575245,;BAIAP2,intron_variant,,ENST00000435091,NM_006340.2;BAIAP2,intron_variant,,ENST00000428708,;BAIAP2,intron_variant,,ENST00000321280,NM_017450.2;BAIAP2,intron_variant,,ENST00000392411,;BAIAP2,intron_variant,,ENST00000571530,;BAIAP2,intron_variant,,ENST00000575989,;BAIAP2,upstream_gene_variant,,ENST00000572918,;BAIAP2,intron_variant,,ENST00000573894,;BAIAP2,intron_variant,,ENST00000570913,;BAIAP2,upstream_gene_variant,,ENST00000573017,;BAIAP2,intron_variant,,ENST00000572329,;BAIAP2,intron_variant,,ENST00000576470,;BAIAP2,intron_variant,,ENST00000575750,;"	"CTGCCCGCTGT"	"ENSG00000175866"	"ENST00000321300"	"Transcript"	"intron_variant"	"-/2879"	"-/1659"	"-/552"	""	""	"rs544212403"	"1"	NA	1	"BAIAP2"	"HGNC"	947	"protein_coding"	"YES"	"CCDS11775.1"	"ENSP00000316338"	"Q9UQB8"	"I3L526,I3L327,I3L2M4,I3L1C8,I3L125,I3L113,I3L0Y9,I3L0M4"	"UPI000000D762"	"NM_001144888.1,NM_017451.2"	NA	NA	""	"1/14"	""	"CTGCCCGCTGT:0.1156"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"13"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"59485356-2764-11e6-a2cd-99dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1196"	"BAIAP2"	10458	"mskcc.org"	"GRCh37"	"17"	79066879	79066898	"+"	"Intron"	"DEL"	"CTGGGCTGGGCTGGGCTGGG"	"CTGGGCTGGGCTGGGCTGGG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CTGGGCTGGGCTGGGCTGGG"	"CTGGGCTGGGCTGGGCTGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.489+6532_489+6551delGGCTGGGCTGGGCTGGGCTG"	""	""	"ENST00000321300"	""	14	"."	6	13	"."	0	"BAIAP2,intron_variant,,ENST00000321300,NM_001144888.1,NM_017451.2;BAIAP2,intron_variant,,ENST00000575712,;BAIAP2,intron_variant,,ENST00000575245,;BAIAP2,intron_variant,,ENST00000435091,NM_006340.2;BAIAP2,intron_variant,,ENST00000428708,;BAIAP2,intron_variant,,ENST00000321280,NM_017450.2;BAIAP2,intron_variant,,ENST00000392411,;BAIAP2,intron_variant,,ENST00000572073,;BAIAP2,intron_variant,,ENST00000573677,;BAIAP2,intron_variant,,ENST00000572918,;BAIAP2,intron_variant,,ENST00000573659,;BAIAP2,intron_variant,,ENST00000575958,;BAIAP2,intron_variant,,ENST00000575841,;BAIAP2,upstream_gene_variant,,ENST00000576756,;BAIAP2,intron_variant,,ENST00000574027,;BAIAP2,intron_variant,,ENST00000573017,;BAIAP2,intron_variant,,ENST00000576364,;BAIAP2,intron_variant,,ENST00000576225,;BAIAP2,intron_variant,,ENST00000572329,;BAIAP2,intron_variant,,ENST00000577097,;BAIAP2,intron_variant,,ENST00000574804,;"	"-"	"ENSG00000175866"	"ENST00000321300"	"Transcript"	"intron_variant"	"-/2879"	"-/1659"	"-/552"	""	""	""	"1"	NA	1	"BAIAP2"	"HGNC"	947	"protein_coding"	"YES"	"CCDS11775.1"	"ENSP00000316338"	"Q9UQB8"	"I3L526,I3L327,I3L2M4,I3L1C8,I3L125,I3L113,I3L0Y9,I3L0M4"	"UPI000000D762"	"NM_001144888.1,NM_017451.2"	NA	NA	""	"6/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"33"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCTGGGCTGGGCTGGGCTGGGC"	"45cbc9de-2764-11e6-a2cd-99dd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1197"	"AATK"	9625	"mskcc.org"	"GRCh37"	"17"	79125219	79125220	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs547225343"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55+14518dupT"	""	""	"ENST00000326724"	""	8	"."	4	4	"."	0	"AATK,intron_variant,,ENST00000326724,NM_001080395.2;AATK,intron_variant,,ENST00000572798,;AATK,intron_variant,,ENST00000374792,;"	"A"	"ENSG00000181409"	"ENST00000326724"	"Transcript"	"intron_variant"	"-/5257"	"-/4125"	"-/1374"	""	""	"rs547225343"	"1"	NA	-1	"AATK"	"HGNC"	21	"protein_coding"	"YES"	"CCDS45807.1"	"ENSP00000324196"	"Q6ZMQ8"	"H7C175"	"UPI000041EA63"	"NM_001080395.2"	NA	NA	""	"1/13"	""	"-:0.2075"	"A:0.5772"	"A:0.83"	NA	"A:0.9663"	"A:0.7853"	"A:0.8855"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"595a8b7a-2764-11e6-a2cd-99dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1198"	"RP11-683L23.1"	0	"mskcc.org"	"GRCh37"	"18"	45884	45893	"+"	"3'Flank"	"DEL"	"TGGGGGAGTA"	"TGGGGGAGTA"	"-"	"rs777829599"	NA	"JHCCPT1"	"JHCCPN1"	"TGGGGGAGTA"	"TGGGGGAGTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000308911"	""	30	"."	3	11	"."	0	"RP11-683L23.1,downstream_gene_variant,,ENST00000573909,;RP11-683L23.1,downstream_gene_variant,,ENST00000308911,;RP11-683L23.1,downstream_gene_variant,,ENST00000594555,;RP11-683L23.1,downstream_gene_variant,,ENST00000575325,;RP11-683L23.1,downstream_gene_variant,,ENST00000572530,;RP11-683L23.2,downstream_gene_variant,,ENST00000575066,;"	"-"	"ENSG00000173213"	"ENST00000308911"	"Transcript"	"downstream_gene_variant"	"-/1335"	"-/1335"	"-/444"	""	""	"rs777829599"	"1"	"1497"	-1	"RP11-683L23.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000309431"	"A6NNZ2"	""	"UPI000049DE76"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTGGGGGAGTAT"	"2e72de62-2764-11e6-9a47-98dd414a729f"	"117"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WXS"	FALSE
"1199"	"RP11-161I6.2"	0	"mskcc.org"	"GRCh37"	"18"	2127382	2127383	"+"	"Intron"	"INS"	"-"	"-"	"CAAAA"	"rs140676314"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.133-1005_133-1004insTTTTG"	""	""	"ENST00000579097"	""	11	"."	4	2	"."	0	"RP11-161I6.2,intron_variant,,ENST00000579097,;RP11-161I6.2,intron_variant,,ENST00000584867,;"	"CAAAA"	"ENSG00000263745"	"ENST00000579097"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/779"	""	""	""	""	"rs140676314"	"1"	NA	-1	"RP11-161I6.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	"CAAAA:0.3714"	"CAAAA:0.5371"	"CAAAA:0.3329"	NA	"CAAAA:0.4127"	"CAAAA:0.2903"	"CAAAA:0.2157"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"38be815a-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"1200"	"EMILIN2"	84034	"mskcc.org"	"GRCh37"	"18"	2899079	2899080	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs56048908"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2359+6602_2359+6603dupAA"	""	""	"ENST00000254528"	""	6	"."	3	1	"."	0	"EMILIN2,intron_variant,,ENST00000254528,NM_032048.2;"	"AA"	"ENSG00000132205"	"ENST00000254528"	"Transcript"	"intron_variant"	"-/5910"	"-/3162"	"-/1053"	""	""	"rs56048908"	"1"	NA	1	"EMILIN2"	"HGNC"	19881	"protein_coding"	"YES"	"CCDS11828.1"	"ENSP00000254528"	"Q9BXX0"	""	"UPI000013CE3E"	"NM_032048.2"	NA	NA	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"38d512da-2764-11e6-9a47-98dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1201"	"MYOM1"	8736	"mskcc.org"	"GRCh37"	"18"	3169070	3169071	"+"	"Intron"	"INS"	"-"	"-"	"AAAAA"	"rs140809501"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1175-96_1175-92dupTTTTT"	""	""	"ENST00000356443"	""	37	"."	4	15	"."	0	"MYOM1,intron_variant,,ENST00000356443,NM_019856.1,NM_003803.3;MYOM1,intron_variant,,ENST00000400569,;MYOM1,intron_variant,,ENST00000261606,;"	"AAAAA"	"ENSG00000101605"	"ENST00000356443"	"Transcript"	"intron_variant"	"-/5847"	"-/5058"	"-/1685"	""	""	"rs140809501"	"1"	NA	-1	"MYOM1"	"HGNC"	7613	"protein_coding"	"YES"	"CCDS45824.1"	"ENSP00000348821"	"P52179"	""	"UPI000022A657"	"NM_019856.1,NM_003803.3"	NA	NA	""	"8/37"	""	"AAAAAA:0.2851"	"AAAAAA:0.2973"	"AAAAAA:0.2277"	NA	"AAAAAA:0.372"	"AAAAAA:0.2495"	"AAAAAA:0.2566"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"38ed53fe-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WXS"	FALSE
"1202"	"TGIF1"	7050	"mskcc.org"	"GRCh37"	"18"	3448107	3448108	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"rs5822762"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000330513"	""	15	"."	6	8	"."	0	"TGIF1,intron_variant,,ENST00000401449,NM_174886.2;TGIF1,intron_variant,,ENST00000548489,NM_173207.2;TGIF1,intron_variant,,ENST00000552383,;TGIF1,intron_variant,,ENST00000550958,;TGIF1,upstream_gene_variant,,ENST00000343820,NM_001278684.1,NM_173208.2,NM_003244.3;TGIF1,upstream_gene_variant,,ENST00000330513,NM_170695.3;TGIF1,upstream_gene_variant,,ENST00000407501,;TGIF1,upstream_gene_variant,,ENST00000405385,NM_173209.2;TGIF1,upstream_gene_variant,,ENST00000551402,;TGIF1,upstream_gene_variant,,ENST00000345133,;TGIF1,upstream_gene_variant,,ENST00000551541,;TGIF1,upstream_gene_variant,,ENST00000549546,;TGIF1,upstream_gene_variant,,ENST00000549780,;TGIF1,upstream_gene_variant,,ENST00000577543,;TGIF1,upstream_gene_variant,,ENST00000549253,;TGIF1,upstream_gene_variant,,ENST00000546979,;TGIF1,upstream_gene_variant,,ENST00000551557,;"	"T"	"ENSG00000177426"	"ENST00000330513"	"Transcript"	"upstream_gene_variant"	"-/1980"	"-/1206"	"-/401"	""	""	"rs5822762"	"1"	"3567"	1	"TGIF1"	"HGNC"	11776	"protein_coding"	"YES"	"CCDS11834.1"	"ENSP00000327959"	"Q15583"	"F8VZH2,F8VXG3,F8VX54,F8VWK5,F8VW34,F8VVS9,F8VUY0"	"UPI0000140386"	"NM_170695.3"	NA	NA	""	""	""	"T:0.4822"	"T:0.6861"	"T:0.4366"	NA	"T:0.2758"	"T:0.6014"	"T:0.3292"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"38f93804-2764-11e6-9a47-98dd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1203"	"DLGAP1"	9229	"mskcc.org"	"GRCh37"	"18"	4118642	4118643	"+"	"Intron"	"INS"	"-"	"-"	"GCTGGGGA"	"rs111739455"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-159+32530_-159+32537dupTCCCCAGC"	""	""	"ENST00000315677"	""	11	"."	6	2	"."	0	"DLGAP1,intron_variant,,ENST00000315677,NM_004746.3;DLGAP1,intron_variant,,ENST00000581527,NM_001242761.1;DLGAP1,intron_variant,,ENST00000515196,;DLGAP1,intron_variant,,ENST00000581550,;DLGAP1,intron_variant,,ENST00000577430,;DLGAP1,intron_variant,,ENST00000578250,;"	"GCTGGGGA"	"ENSG00000170579"	"ENST00000315677"	"Transcript"	"intron_variant"	"-/6683"	"-/2934"	"-/977"	""	""	"rs111739455"	"1"	NA	-1	"DLGAP1"	"HGNC"	2905	"protein_coding"	"YES"	"CCDS11836.1"	"ENSP00000316377"	"O14490"	""	"UPI0000129490"	"NM_004746.3"	NA	NA	""	"2/12"	""	"-:0.1625"	"GCTGGGGA:0.9054"	"GCTGGGGA:0.8559"	NA	"GCTGGGGA:0.7292"	"GCTGGGGA:0.7724"	"GCTGGGGA:0.911"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"390308a2-2764-11e6-9a47-98dd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"1204"	"PTPRM"	5797	"mskcc.org"	"GRCh37"	"18"	8088291	8088292	"+"	"Intron"	"INS"	"-"	"-"	"TC"	"rs10667618"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1754-454_1754-453dupCT"	""	""	"ENST00000580170"	""	19	"."	5	4	"."	0	"PTPRM,intron_variant,,ENST00000332175,NM_002845.3;PTPRM,intron_variant,,ENST00000580170,NM_001105244.1;PTPRM,intron_variant,,ENST00000400053,;PTPRM,intron_variant,,ENST00000444013,;PTPRM,intron_variant,,ENST00000400060,;PTPRM,intron_variant,,ENST00000583289,;PTPRM,intron_variant,,ENST00000578571,;"	"TC"	"ENSG00000173482"	"ENST00000580170"	"Transcript"	"intron_variant"	"-/5941"	"-/4398"	"-/1465"	""	""	"rs10667618"	"1"	NA	1	"PTPRM"	"HGNC"	9675	"protein_coding"	"YES"	"CCDS58613.1"	"ENSP00000463325"	"P28827"	"Q49AC9"	"UPI00015CFC03"	"NM_001105244.1"	NA	NA	""	"10/32"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"3938b2fe-2764-11e6-9a47-98dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"1205"	"PTPRM"	5797	"mskcc.org"	"GRCh37"	"18"	8138214	8138215	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs33959470"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2168-5428dupC"	""	""	"ENST00000580170"	""	11	"."	5	1	"."	0	"PTPRM,intron_variant,,ENST00000332175,NM_002845.3;PTPRM,intron_variant,,ENST00000580170,NM_001105244.1;PTPRM,intron_variant,,ENST00000400053,;PTPRM,intron_variant,,ENST00000444013,;PTPRM,intron_variant,,ENST00000400060,;PTPRM,intron_variant,,ENST00000583289,;PTPRM,intron_variant,,ENST00000577468,;PTPRM,intron_variant,,ENST00000577827,;"	"C"	"ENSG00000173482"	"ENST00000580170"	"Transcript"	"intron_variant"	"-/5941"	"-/4398"	"-/1465"	""	""	"rs33959470"	"1"	NA	1	"PTPRM"	"HGNC"	9675	"protein_coding"	"YES"	"CCDS58613.1"	"ENSP00000463325"	"P28827"	"Q49AC9"	"UPI00015CFC03"	"NM_001105244.1"	NA	NA	""	"13/32"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"39397248-2764-11e6-9a47-98dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"1206"	"ENSR00001513050"	0	"mskcc.org"	"GRCh37"	"18"	8890963	8890963	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs35741855"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001513050"	""	7	"."	4	2	"."	0	""	"-"	""	"ENSR00001513050"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs35741855"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2949"	"-:0.354"	"-:0.3156"	NA	"-:0.251"	"-:0.2982"	"-:0.2423"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"2fd7c024-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1207"	"PPP4R1"	9989	"mskcc.org"	"GRCh37"	"18"	9548252	9548256	"+"	"Intron"	"DEL"	"AAAGA"	"AAAGA"	"-"	"rs148192036"	NA	"JHCCPT1"	"JHCCPN1"	"AAAGA"	"AAAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2690-306_2690-302delTCTTT"	""	""	"ENST00000400556"	""	15	"."	6	7	"."	0	"PPP4R1,intron_variant,,ENST00000400556,NM_001042388.2;PPP4R1,intron_variant,,ENST00000400555,NM_005134.3;PPP4R1,intron_variant,,ENST00000579609,;PPP4R1,downstream_gene_variant,,ENST00000584754,;PPP4R1,intron_variant,,ENST00000582594,;PPP4R1,intron_variant,,ENST00000285124,;PPP4R1,downstream_gene_variant,,ENST00000578010,;PPP4R1,downstream_gene_variant,,ENST00000578329,;"	"-"	"ENSG00000154845"	"ENST00000400556"	"Transcript"	"intron_variant"	"-/3925"	"-/2853"	"-/950"	""	""	"rs148192036"	"1"	NA	-1	"PPP4R1"	"HGNC"	9320	"protein_coding"	"YES"	"CCDS42412.1"	"ENSP00000383402"	"Q8TF05"	"J3QLA6,J3QL26,J3KSB0,J3KRU1,B4DID3"	"UPI000006D6DE"	"NM_001042388.2"	NA	NA	""	"19/19"	""	"-:0.0857"	"-:0.0401"	"-:0.1441"	NA	"-:0.0278"	"-:0.16"	"-:0.089"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAAAGAA"	"2fec30c2-2764-11e6-9a47-98dd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1208"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	9968860	9968861	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs11405049"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11405049"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0106"	"C:0.9682"	"C:0.987"	NA	"C:1"	"C:0.998"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"396e2c0e-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1209"	"RP11-856M7.6"	0	"mskcc.org"	"GRCh37"	"18"	10619917	10619918	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"rs373369272"	NA	"JHCCPT1"	"JHCCPN1"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.126-2904_126-2903delGA"	""	""	"ENST00000584734"	""	11	"."	4	10	"."	0	"RP11-856M7.6,intron_variant,,ENST00000584734,;RP11-856M7.6,upstream_gene_variant,,ENST00000583691,;CCDC58P1,downstream_gene_variant,,ENST00000578567,;RP11-856M7.7,downstream_gene_variant,,ENST00000582221,;"	"-"	"ENSG00000266604"	"ENST00000584734"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/860"	""	""	""	""	"rs373369272"	"1"	NA	-1	"RP11-856M7.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTCT"	"30134e6e-2764-11e6-9a47-98dd414a729f"	"187"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"1210"	"PIEZO2"	63895	"mskcc.org"	"GRCh37"	"18"	11018381	11018394	"+"	"Intron"	"DEL"	"GTGTGTGTGTGTGT"	"GTGTGTGTGTGTGT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GTGTGTGTGTGTGT"	"GTGTGTGTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.161-38736_161-38723delACACACACACACAC"	""	""	"ENST00000503781"	""	11	"."	3	2	"."	0	"PIEZO2,intron_variant,,ENST00000302079,;PIEZO2,intron_variant,,ENST00000580640,;PIEZO2,intron_variant,,ENST00000503781,NM_022068.2;PIEZO2,intron_variant,,ENST00000582913,;"	"-"	"ENSG00000154864"	"ENST00000503781"	"Transcript"	"intron_variant"	"-/8259"	"-/8259"	"-/2752"	""	""	""	"1"	NA	-1	"PIEZO2"	"HGNC"	26270	"protein_coding"	"YES"	""	"ENSP00000421377"	"Q9H5I5"	"J3KSM7"	"UPI0001B3CB29"	"NM_022068.2"	NA	NA	""	"2/51"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCGTGTGTGTGTGTGTG"	"302af01e-2764-11e6-9a47-98dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"1211"	"CABYR"	26256	"mskcc.org"	"GRCh37"	"18"	21731121	21731122	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs10646467"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.200-4543_200-4542dupAT"	""	""	"ENST00000399496"	""	6	"."	4	1	"."	0	"CABYR,intron_variant,,ENST00000399481,;CABYR,intron_variant,,ENST00000399496,NM_012189.3,NM_153769.2;CABYR,intron_variant,,ENST00000399499,NM_138644.2;CABYR,intron_variant,,ENST00000581397,;CABYR,intron_variant,,ENST00000327201,NM_138643.2;CABYR,intron_variant,,ENST00000415309,NM_153770.2;CABYR,intron_variant,,ENST00000585037,;CABYR,intron_variant,,ENST00000577705,;CABYR,intron_variant,,ENST00000579102,;CABYR,intron_variant,,ENST00000486759,NM_153768.2;CABYR,intron_variant,,ENST00000463087,;CABYR,intron_variant,,ENST00000581872,;CABYR,intron_variant,,ENST00000584752,;CABYR,intron_variant,,ENST00000579956,;CABYR,upstream_gene_variant,,ENST00000582229,;"	"AT"	"ENSG00000154040"	"ENST00000399496"	"Transcript"	"intron_variant"	"-/1389"	"-/1140"	"-/379"	""	""	"rs10646467"	"1"	NA	1	"CABYR"	"HGNC"	15569	"protein_coding"	"YES"	"CCDS42420.1"	"ENSP00000382419"	"O75952"	"J3QQK7,J3QLW5,J3KT09,G9BQT7"	"UPI000006FA4E"	"NM_012189.3,NM_153769.2"	NA	NA	""	"3/5"	""	"-:0.0046"	"AT:0.9849"	"AT:0.9971"	NA	"AT:0.999"	"AT:1"	"AT:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"3a4a1048-2764-11e6-9a47-98dd414a729f"	"226"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1212"	"RP11-739N10.1"	0	"mskcc.org"	"GRCh37"	"18"	25098799	25098800	"+"	"Intron"	"DEL"	"AA"	"AA"	"-"	"rs140153574"	NA	"JHCCPT1"	"JHCCPN1"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.261-16971_261-16970delTT"	""	""	"ENST00000584546"	""	11	"."	5	4	"."	0	"RP11-739N10.1,intron_variant,,ENST00000584546,;"	"-"	"ENSG00000264151"	"ENST00000584546"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1352"	""	""	""	""	"rs140153574"	"1"	NA	-1	"RP11-739N10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	""	"-:0.2156"	"-:0.098"	NA	"-:0.001"	"-:0.0457"	"-:0.0419"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAAA"	"31e87ef8-2764-11e6-9a47-98dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"1213"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	28072018	28072042	"+"	"IGR"	"DEL"	"AAAAGAAAGAAAGAAAAAAGAAAAA"	"AAAAGAAAGAAAGAAAAAAGAAAAA"	"GA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AAAAGAAAGAAAGAAAAAAGAAAAA"	"AAAAGAAAGAAAGAAAAAAGAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"."	3	9	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAGAAAGAAAGAAAAAAGAAAAAG"	"388746ae-2764-11e6-9a47-98dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WXS"	FALSE
"1214"	"RNF125"	54941	"mskcc.org"	"GRCh37"	"18"	29613782	29613785	"+"	"Intron"	"DEL"	"CAAA"	"CAAA"	"-"	"rs111827492"	NA	"JHCCPT1"	"JHCCPN1"	"CAAA"	"CAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.165-3277_165-3274delCAAA"	""	""	"ENST00000217740"	""	8	"."	4	1	"."	0	"RNF125,intron_variant,,ENST00000217740,NM_017831.3;RP11-53I6.2,intron_variant,,ENST00000583184,;RNF125,upstream_gene_variant,,ENST00000580209,;"	"-"	"ENSG00000101695"	"ENST00000217740"	"Transcript"	"intron_variant"	"-/6020"	"-/699"	"-/232"	""	""	"rs111827492"	"1"	NA	1	"RNF125"	"HGNC"	21150	"protein_coding"	"YES"	"CCDS11902.1"	"ENSP00000217740"	"Q96EQ8"	""	"UPI000013C731"	"NM_017831.3"	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"20"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCAAAC"	"328ffbc4-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1215"	"ZNF397"	84307	"mskcc.org"	"GRCh37"	"18"	32830487	32830488	"+"	"3'Flank"	"INS"	"-"	"-"	"AGGC"	"rs34395192"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000330501"	""	8	"."	5	1	"."	0	"ZNF397,intron_variant,,ENST00000355632,;ZNF397,intron_variant,,ENST00000261333,NM_032347.2;ZNF397,intron_variant,,ENST00000592264,;ZSCAN30,downstream_gene_variant,,ENST00000420878,NM_001166012.1,NM_001288711.1;ZSCAN30,downstream_gene_variant,,ENST00000333206,NM_001112734.2,NM_001288711.1;ZNF397,downstream_gene_variant,,ENST00000330501,NM_001135178.2;ZNF397,intron_variant,,ENST00000589420,;ZSCAN30,downstream_gene_variant,,ENST00000590777,;ZNF397,upstream_gene_variant,,ENST00000591505,;"	"AGGC"	"ENSG00000186812"	"ENST00000330501"	"Transcript"	"downstream_gene_variant"	"-/2637"	"-/1605"	"-/534"	""	""	"rs34395192"	"1"	"3334"	1	"ZNF397"	"HGNC"	18818	"protein_coding"	"YES"	"CCDS45852.1"	"ENSP00000331577"	"Q8NF99"	"M0R288"	"UPI000000D7E4"	"NM_001135178.2"	NA	NA	""	""	""	"-:0.1957"	"AGGC:0.8517"	"AGGC:0.9222"	NA	"AGGC:0.5952"	"AGGC:0.9066"	"AGGC:0.7669"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"3b09e38c-2764-11e6-9a47-98dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1216"	"ZNF396"	252884	"mskcc.org"	"GRCh37"	"18"	32948446	32948447	"+"	"Intron"	"INS"	"-"	"-"	"TTTA"	"rs374405615"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.908-41_908-38dupTAAA"	""	""	"ENST00000306346"	""	60	"."	4	18	"."	0	"ZNF396,3_prime_UTR_variant,,ENST00000589332,;ZNF396,intron_variant,,ENST00000306346,NM_145756.2;ZNF396,downstream_gene_variant,,ENST00000586687,;ZNF396,downstream_gene_variant,,ENST00000586585,;"	"TTTA"	"ENSG00000186496"	"ENST00000306346"	"Transcript"	"intron_variant"	"-/2788"	"-/1002"	"-/333"	""	""	"rs374405615"	"1"	NA	-1	"ZNF396"	"HGNC"	18824	"protein_coding"	"YES"	"CCDS11913.1"	"ENSP00000302310"	"Q96N95"	"K7ERR8,K7EK38"	"UPI000013C36B"	"NM_145756.2"	NA	NA	""	"4/4"	""	"-:0.3534"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	"0.03799"	"0.006091"	"0.007108"	"0.01078"	"0.113"	"0.02034"	"0.07692"	"0.05297"	NA	"common_variant"	"TTT"	"3b2527c8-2764-11e6-9a47-98dd414a729f"	"240"	0.0288	"491/17050"	"3123/82198"	"12/1970"	"23/3236"	"11/1020"	"113/1000"	"119/5850"	"8/104"	"205/3870"	"PASS"	"FALSE"	0.0666666666666667	"WXS"	FALSE
"1217"	"ZNF396"	252884	"mskcc.org"	"GRCh37"	"18"	32948446	32948447	"+"	"Intron"	"INS"	"-"	"-"	"TTTATTTATTTATTTA"	"rs374405615"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.908-53_908-38dupTAAATAAATAAATAAA"	""	""	"ENST00000306346"	""	60	"."	3	18	"."	0	"ZNF396,3_prime_UTR_variant,,ENST00000589332,;ZNF396,intron_variant,,ENST00000306346,NM_145756.2;ZNF396,downstream_gene_variant,,ENST00000586687,;ZNF396,downstream_gene_variant,,ENST00000586585,;"	"TTTATTTATTTATTTA"	"ENSG00000186496"	"ENST00000306346"	"Transcript"	"intron_variant"	"-/2788"	"-/1002"	"-/333"	""	""	"rs374405615"	"1"	NA	-1	"ZNF396"	"HGNC"	18824	"protein_coding"	"YES"	"CCDS11913.1"	"ENSP00000302310"	"Q96N95"	"K7ERR8,K7EK38"	"UPI000013C36B"	"NM_145756.2"	NA	NA	""	"4/4"	""	"-:0.3534"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	"0.004927"	"0.0005076"	"0.000309"	"0"	"0.022"	"0.004444"	"0.01923"	"0.01111"	NA	"common_variant"	"TTT"	"3b2a5d6a-2764-11e6-9a47-98dd414a729f"	"180"	0.005572	"95/17050"	"405/82198"	"1/1970"	"1/3236"	"0/1020"	"22/1000"	"26/5850"	"2/104"	"43/3870"	"PASS"	"FALSE"	0.05	"WXS"	FALSE
"1218"	"GALNT1"	2589	"mskcc.org"	"GRCh37"	"18"	33161835	33161835	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs200797068"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-104+9delA"	""	""	"ENST00000591924"	""	13	"."	4	4	"."	0	"GALNT1,intron_variant,,ENST00000591924,;GALNT1,intron_variant,,ENST00000586725,;"	"-"	"ENSG00000141429"	"ENST00000591924"	"Transcript"	"intron_variant"	"-/542"	"-/316"	"-/105"	""	""	"rs200797068"	"1"	NA	1	"GALNT1"	"HGNC"	4123	"protein_coding"	""	""	"ENSP00000465699"	"Q10472"	""	"UPI000000DC4B"	""	NA	NA	""	"1/2"	""	"A:0.0002"	"-:1"	"-:0.9986"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTAT"	"33185384-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"1219"	"FHOD3"	80206	"mskcc.org"	"GRCh37"	"18"	34092654	34092664	"+"	"Intron"	"DEL"	"CATAGGTAAAA"	"CATAGGTAAAA"	"AT"	"rs386802395"	NA	"JHCCPT1"	"JHCCPN1"	"CATAGGTAAAA"	"CATAGGTAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.511+148_511+158delCATAGGTAAAAinsAT"	""	""	"ENST00000257209"	""	35	"."	4	17	"."	0	"FHOD3,intron_variant,,ENST00000257209,NM_025135.2;FHOD3,intron_variant,,ENST00000590592,NM_001281740.1;FHOD3,intron_variant,,ENST00000445677,;FHOD3,intron_variant,,ENST00000359247,NM_001281739.1;FHOD3,intron_variant,,ENST00000589114,;"	"AT"	"ENSG00000134775"	"ENST00000257209"	"Transcript"	"intron_variant"	"-/4967"	"-/4320"	"-/1439"	""	""	"rs386802395"	"1"	NA	1	"FHOD3"	"HGNC"	26178	"protein_coding"	"YES"	"CCDS32816.1"	"ENSP00000257209"	"Q2V2M9"	""	"UPI0000251DB7"	"NM_025135.2"	NA	NA	""	"5/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCATAGGTAAAAC"	"3888146c-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WXS"	FALSE
"1220"	"KIAA1328"	57536	"mskcc.org"	"GRCh37"	"18"	34664559	34664560	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs35268290"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1232+17053_1232+17054delTG"	""	""	"ENST00000280020"	""	10	"."	4	4	"."	0	"KIAA1328,intron_variant,,ENST00000591619,;KIAA1328,intron_variant,,ENST00000280020,NM_020776.1;KIAA1328,intron_variant,,ENST00000587139,;KIAA1328,intron_variant,,ENST00000586135,;KIAA1328,intron_variant,,ENST00000543923,;KIAA1328,intron_variant,,ENST00000435985,;KIAA1328,downstream_gene_variant,,ENST00000599493,;KIAA1328,intron_variant,,ENST00000590617,;KIAA1328,intron_variant,,ENST00000592611,;"	"-"	"ENSG00000150477"	"ENST00000280020"	"Transcript"	"intron_variant"	"-/4853"	"-/1734"	"-/577"	""	""	"rs35268290"	"1"	NA	1	"KIAA1328"	"HGNC"	29248	"protein_coding"	"YES"	"CCDS45855.1"	"ENSP00000280020"	"Q86T90"	""	"UPI00001C1FF0"	"NM_020776.1"	NA	NA	""	"7/9"	""	"-:0.2588"	"-:0.6422"	"-:0.1311"	NA	"-:0.1101"	"-:0.1292"	"-:0.1176"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"339cb4da-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1221"	"CELF4"	56853	"mskcc.org"	"GRCh37"	"18"	34892227	34892228	"+"	"Intron"	"INS"	"-"	"-"	"GACA"	"rs113228850"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.448+9535_448+9538dupTGTC"	""	""	"ENST00000420428"	""	9	"."	4	1	"."	0	"CELF4,intron_variant,,ENST00000420428,NM_020180.3;CELF4,intron_variant,,ENST00000412753,NM_001025088.1,NM_001025087.1;CELF4,intron_variant,,ENST00000591287,;CELF4,intron_variant,,ENST00000334919,NM_001025089.1;CELF4,intron_variant,,ENST00000603232,;CELF4,intron_variant,,ENST00000361795,;CELF4,intron_variant,,ENST00000601019,;CELF4,intron_variant,,ENST00000591282,;CELF4,intron_variant,,ENST00000588597,;CELF4,intron_variant,,ENST00000601392,;CELF4,intron_variant,,ENST00000587819,;CELF4,intron_variant,,ENST00000589229,;CELF4,intron_variant,,ENST00000587924,;CELF4,intron_variant,,ENST00000590112,;"	"GACA"	"ENSG00000101489"	"ENST00000420428"	"Transcript"	"intron_variant"	"-/4052"	"-/1461"	"-/486"	""	""	"rs113228850"	"1"	NA	-1	"CELF4"	"HGNC"	14015	"protein_coding"	"YES"	"CCDS32818.1"	"ENSP00000410584"	"Q9BZC1"	"K7EJK3"	"UPI00000726FC"	"NM_020180.3"	NA	NA	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"3b5e3266-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1222"	"CELF4"	56853	"mskcc.org"	"GRCh37"	"18"	35145841	35145852	"+"	"5'UTR"	"DEL"	"CCTCTCTCTCTC"	"CCTCTCTCTCTC"	"-"	"rs137896068"	NA	"JHCCPT1"	"JHCCPN1"	"CCTCTCTCTCTC"	"CCTCTCTCTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-248_-237delGAGAGAGAGAGG"	""	""	"ENST00000420428"	"1/13"	17	"."	3	3	"."	0	"CELF4,5_prime_UTR_variant,,ENST00000420428,NM_020180.3;CELF4,5_prime_UTR_variant,,ENST00000412753,NM_001025088.1,NM_001025087.1;CELF4,upstream_gene_variant,,ENST00000591287,;CELF4,upstream_gene_variant,,ENST00000334919,NM_001025089.1;CELF4,upstream_gene_variant,,ENST00000603232,;CELF4,upstream_gene_variant,,ENST00000361795,;CELF4,upstream_gene_variant,,ENST00000601019,;CELF4,upstream_gene_variant,,ENST00000591282,;CELF4,upstream_gene_variant,,ENST00000588597,;CELF4,upstream_gene_variant,,ENST00000601392,;CELF4,upstream_gene_variant,,ENST00000587449,;"	"-"	"ENSG00000101489"	"ENST00000420428"	"Transcript"	"5_prime_UTR_variant"	"149-160/4052"	"-/1461"	"-/486"	""	""	"rs137896068"	"1"	NA	-1	"CELF4"	"HGNC"	14015	"protein_coding"	"YES"	"CCDS32818.1"	"ENSP00000410584"	"Q9BZC1"	"K7EJK3"	"UPI00000726FC"	"NM_020180.3"	NA	NA	"1/13"	""	""	"CCTCTCTCTCTC:0.4002"	"-:0.2451"	"-:0.5548"	NA	"-:0.8462"	"-:0.7584"	"-:0.6943"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCCTCTCTCTCTCC"	"33aec7c4-2764-11e6-9a47-98dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"1223"	"RP11-653G8.2"	101927900	"mskcc.org"	"GRCh37"	"18"	37683360	37683361	"+"	"3'Flank"	"INS"	"-"	"-"	"CCT"	"rs141694531"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000566101"	""	15	"."	4	11	"."	0	"RP11-653G8.2,downstream_gene_variant,,ENST00000566101,;"	"CCT"	"ENSG00000261715"	"ENST00000566101"	"Transcript"	"downstream_gene_variant"	"-/1226"	""	""	""	""	"rs141694531"	"1"	"4163"	1	"RP11-653G8.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"CCTCC:0.3237"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"3b72746a-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"1224"	"C18orf25"	147339	"mskcc.org"	"GRCh37"	"18"	43826610	43826611	"+"	"Intron"	"INS"	"-"	"ATAAGAGCAGACCCCAGGCCAGGGCCT"	"ATAAGAGCAGACCCCAGGCCAGGGCCT"	"rs137938636"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.898+6471_898+6472insCAGGCCAGGGCCTATAAGAGCAGACCC"	""	""	"ENST00000282059"	""	8	"."	6	1	"."	0	"C18orf25,intron_variant,,ENST00000282059,NM_145055.3;C18orf25,intron_variant,,ENST00000321319,NM_001008239.2;"	"ATAAGAGCAGACCCCAGGCCAGGGCCT"	"ENSG00000152242"	"ENST00000282059"	"Transcript"	"intron_variant"	"-/5454"	"-/1212"	"-/403"	""	""	"rs137938636"	"1"	NA	1	"C18orf25"	"HGNC"	28172	"protein_coding"	"YES"	"CCDS42430.1"	"ENSP00000282059"	"Q96B23"	"Q5BIX2,K7ER64,K7EQH1"	"UPI000013DCB6"	"NM_145055.3"	NA	NA	""	"3/4"	""	"-:0.3415"	"ATAAGAGCAGACCCCAGGCCAGGGCCT:0.6157"	"ATAAGAGCAGACCCCAGGCCAGGGCCT:0.7032"	NA	"ATAAGAGCAGACCCCAGGCCAGGGCCT:0.6042"	"ATAAGAGCAGACCCCAGGCCAGGGCCT:0.7485"	"ATAAGAGCAGACCCCAGGCCAGGGCCT:0.6483"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"14"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"3bfa588a-2764-11e6-9a47-98dd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"1225"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	43891846	43891848	"+"	"IGR"	"DEL"	"GGA"	"GGA"	"-"	"rs147558470"	NA	"JHCCPT1"	"JHCCPN1"	"GGA"	"GGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	7	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147558470"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCGGAG"	"342c1350-2764-11e6-9a47-98dd414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388888888888889	"WXS"	FALSE
"1226"	"LOXHD1"	125336	"mskcc.org"	"GRCh37"	"18"	44083988	44083989	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs55668674"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2545+1812dupG"	""	""	"ENST00000300591"	""	7	"."	5	2	"."	0	"LOXHD1,intron_variant,,ENST00000536736,NM_144612.6;LOXHD1,intron_variant,,ENST00000441551,;LOXHD1,intron_variant,,ENST00000398722,;LOXHD1,intron_variant,,ENST00000300591,NM_001145472.2;LOXHD1,intron_variant,,ENST00000441893,;LOXHD1,intron_variant,,ENST00000582408,;LOXHD1,intron_variant,,ENST00000579038,;LOXHD1,intron_variant,,ENST00000398686,NM_001145473.2;LOXHD1,intron_variant,,ENST00000398705,NM_001173129.1;LOXHD1,downstream_gene_variant,,ENST00000414184,;"	"C"	"ENSG00000167210"	"ENST00000300591"	"Transcript"	"intron_variant"	"-/3970"	"-/3345"	"-/1114"	""	""	"rs55668674"	"1"	NA	-1	"LOXHD1"	"HGNC"	26521	"protein_coding"	"YES"	"CCDS45861.1"	"ENSP00000300591"	"Q8IVV2"	"C9J269,C9IYQ1"	"UPI0000456B8D"	"NM_001145472.2"	NA	NA	""	"19/23"	""	"C:0.3792"	"C:0.1309"	"C:0.5058"	NA	"C:0.6002"	"C:0.4483"	"C:0.3262"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAC"	"3c043be8-2764-11e6-9a47-98dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1227"	"CTIF"	9811	"mskcc.org"	"GRCh37"	"18"	46144240	46144240	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs34518713"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-28-1665delG"	""	""	"ENST00000382998"	""	7	"."	4	1	"."	0	"CTIF,intron_variant,,ENST00000256413,NM_014772.2;CTIF,intron_variant,,ENST00000382998,NM_001142397.1;CTIF,intron_variant,,ENST00000591387,;CTIF,intron_variant,,ENST00000587752,;CTIF,intron_variant,,ENST00000588345,;CTIF,intron_variant,,ENST00000591412,;CTIF,upstream_gene_variant,,ENST00000589585,;"	"-"	"ENSG00000134030"	"ENST00000382998"	"Transcript"	"intron_variant"	"-/4407"	"-/1803"	"-/600"	""	""	"rs34518713"	"1"	NA	1	"CTIF"	"HGNC"	23925	"protein_coding"	"YES"	"CCDS45864.1"	"ENSP00000372459"	"O43310"	"K7EQS5,K7EPK6,K7EK08"	"UPI0000074650"	"NM_001142397.1"	NA	NA	""	"2/12"	""	"G:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGG"	"347223b8-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1228"	"ACAA2"	10449	"mskcc.org"	"GRCh37"	"18"	47320560	47320561	"+"	"Intron"	"INS"	"-"	"-"	"TAAA"	"rs35615995"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.577+86_577+89dupTTTA"	""	""	"ENST00000285093"	""	16	"."	7	3	"."	0	"ACAA2,intron_variant,,ENST00000285093,NM_006111.2;ACAA2,intron_variant,,ENST00000589432,;ACAA2,intron_variant,,ENST00000587994,;ACAA2,downstream_gene_variant,,ENST00000586485,;ACAA2,downstream_gene_variant,,ENST00000586100,;ACAA2,downstream_gene_variant,,ENST00000585948,;RP11-886H22.1,downstream_gene_variant,,ENST00000590532,;"	"TAAA"	"ENSG00000167315"	"ENST00000285093"	"Transcript"	"intron_variant"	"-/2018"	"-/1194"	"-/397"	""	""	"rs35615995"	"1"	NA	-1	"ACAA2"	"HGNC"	83	"protein_coding"	"YES"	"CCDS11939.1"	"ENSP00000285093"	"P42765"	"K7ER88,K7EME0,K7EJB1,K7EJ68"	"UPI000006FECE"	"NM_006111.2"	NA	NA	""	"5/9"	""	"TAAA:0.2394"	"TAAA:0.09"	"TAAA:0.2003"	NA	"TAAA:0.4058"	"TAAA:0.2306"	"TAAA:0.3067"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"3c59f7d6-2764-11e6-9a47-98dd414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4375	"WXS"	FALSE
"1229"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	47957091	47957092	"+"	"IGR"	"INS"	"-"	"TTGGA"	"TTGGA"	"rs112135334"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	5	"."	0	""	"TTGGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112135334"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TTGGA:0.4301"	"TTGGA:0.3389"	"TTGGA:0.3775"	NA	"TTGGA:0.2887"	"TTGGA:0.6292"	"TTGGA:0.5317"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"3c7441c2-2764-11e6-9a47-98dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1230"	"DCC"	1630	"mskcc.org"	"GRCh37"	"18"	50159483	50159487	"+"	"Intron"	"DEL"	"TTCCT"	"TTCCT"	"-"	"rs79476075"	NA	"JHCCPT1"	"JHCCPN1"	"TTCCT"	"TTCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.92-118931_92-118927delTTCCT"	""	""	"ENST00000442544"	""	7	"."	3	4	"."	0	"DCC,intron_variant,,ENST00000442544,NM_005215.3;"	"-"	"ENSG00000187323"	"ENST00000442544"	"Transcript"	"intron_variant"	"-/5721"	"-/4344"	"-/1447"	""	""	"rs79476075"	"1"	NA	1	"DCC"	"HGNC"	2701	"protein_coding"	"YES"	"CCDS11952.1"	"ENSP00000389140"	"P43146"	"J3QQJ6"	"UPI00001AEDC6"	"NM_005215.3"	NA	NA	""	"1/28"	""	"-:0.2538"	"-:0.062"	"-:0.1873"	NA	"-:0.5397"	"-:0.2843"	"-:0.2342"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTTCCTT"	"350fda22-2764-11e6-9a47-98dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1231"	"DCC"	1630	"mskcc.org"	"GRCh37"	"18"	50325137	50325138	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs11442813"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.412+46393_412+46394insC"	""	""	"ENST00000442544"	""	6	"."	5	1	"."	0	"DCC,intron_variant,,ENST00000442544,NM_005215.3;DCC,intron_variant,,ENST00000412726,;DCC,intron_variant,,ENST00000582875,;DCC,intron_variant,,ENST00000580024,;DCC,intron_variant,,ENST00000304775,;DCC,intron_variant,,ENST00000579349,;DCC,intron_variant,,ENST00000581559,;"	"C"	"ENSG00000187323"	"ENST00000442544"	"Transcript"	"intron_variant"	"-/5721"	"-/4344"	"-/1447"	""	""	"rs11442813"	"1"	NA	1	"DCC"	"HGNC"	2701	"protein_coding"	"YES"	"CCDS11952.1"	"ENSP00000389140"	"P43146"	"J3QQJ6"	"UPI00001AEDC6"	"NM_005215.3"	NA	NA	""	"2/28"	""	"-:0.0895"	"C:0.7859"	"C:0.9135"	NA	"C:0.9891"	"C:0.9384"	"C:0.9673"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"3c87907e-2764-11e6-9a47-98dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1232"	"DCC"	1630	"mskcc.org"	"GRCh37"	"18"	50704965	50704965	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1419-366delG"	""	""	"ENST00000442544"	""	12	"."	7	3	"."	0	"DCC,intron_variant,,ENST00000442544,NM_005215.3;DCC,intron_variant,,ENST00000581580,;DCC,intron_variant,,ENST00000412726,;DCC,intron_variant,,ENST00000304775,;"	"-"	"ENSG00000187323"	"ENST00000442544"	"Transcript"	"intron_variant"	"-/5721"	"-/4344"	"-/1447"	""	""	""	"1"	NA	1	"DCC"	"HGNC"	2701	"protein_coding"	"YES"	"CCDS11952.1"	"ENSP00000389140"	"P43146"	"J3QQJ6"	"UPI00001AEDC6"	"NM_005215.3"	NA	NA	""	"8/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCGG"	"35223596-2764-11e6-9a47-98dd414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"1233"	"DCC"	1630	"mskcc.org"	"GRCh37"	"18"	50866417	50866418	"+"	"Intron"	"INS"	"-"	"-"	"ACACACAC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2359+162_2359+169dupCACACACA"	""	""	"ENST00000442544"	""	24	"."	3	4	"."	0	"DCC,intron_variant,,ENST00000442544,NM_005215.3;DCC,intron_variant,,ENST00000581580,;DCC,intron_variant,,ENST00000412726,;DCC,intron_variant,,ENST00000304775,;"	"ACACACAC"	"ENSG00000187323"	"ENST00000442544"	"Transcript"	"intron_variant"	"-/5721"	"-/4344"	"-/1447"	""	""	""	"1"	NA	1	"DCC"	"HGNC"	2701	"protein_coding"	"YES"	"CCDS11952.1"	"ENSP00000389140"	"P43146"	"J3QQJ6"	"UPI00001AEDC6"	"NM_005215.3"	NA	NA	""	"15/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"29"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"3c948b80-2764-11e6-9a47-98dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"1234"	"DCC"	1630	"mskcc.org"	"GRCh37"	"18"	50937258	50937259	"+"	"Intron"	"INS"	"-"	"-"	"TG"	"rs148787377"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3130+243_3130+244insGT"	""	""	"ENST00000442544"	""	21	"."	4	8	"."	0	"DCC,intron_variant,,ENST00000442544,NM_005215.3;DCC,intron_variant,,ENST00000581580,;DCC,intron_variant,,ENST00000412726,;DCC,intron_variant,,ENST00000579941,;DCC,intron_variant,,ENST00000304775,;"	"TG"	"ENSG00000187323"	"ENST00000442544"	"Transcript"	"intron_variant"	"-/5721"	"-/4344"	"-/1447"	""	""	"rs148787377"	"1"	NA	1	"DCC"	"HGNC"	2701	"protein_coding"	"YES"	"CCDS11952.1"	"ENSP00000389140"	"P43146"	"J3QQJ6"	"UPI00001AEDC6"	"NM_005215.3"	NA	NA	""	"20/28"	""	"TG:0.3433"	"TG:0.2958"	"TG:0.317"	NA	"TG:0.2262"	"TG:0.5378"	"TG:0.3466"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"3c98fc1a-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"1235"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	51570584	51570585	"+"	"IGR"	"INS"	"-"	"-"	"AAAACAAAACAAAAC"	"rs74180450"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"AAAACAAAACAAAAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs74180450"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"3c9c644a-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1236"	"RAB27B"	5874	"mskcc.org"	"GRCh37"	"18"	52447557	52447558	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs11401805"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-20+62187dupC"	""	""	"ENST00000586570"	""	8	"."	6	1	"."	0	"RAB27B,intron_variant,,ENST00000586570,;"	"C"	"ENSG00000041353"	"ENST00000586570"	"Transcript"	"intron_variant"	"-/432"	"-/262"	"-/87"	""	""	"rs11401805"	"1"	NA	1	"RAB27B"	"HGNC"	9767	"protein_coding"	""	""	"ENSP00000468542"	""	"K7ES41"	"UPI0002840EA4"	""	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"3cb6f738-2764-11e6-9a47-98dd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"1237"	"TCF4"	6925	"mskcc.org"	"GRCh37"	"18"	53290112	53290113	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTGTG"	"rs138216350"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.286+8407_286+8416dupCACACACACA"	""	""	"ENST00000398339"	""	8	"."	4	1	"."	0	"TCF4,intron_variant,,ENST00000398339,NM_001243226.1;TCF4,intron_variant,,ENST00000568169,;TCF4,intron_variant,,ENST00000569357,;TCF4,intron_variant,,ENST00000565124,;TCF4,intron_variant,,ENST00000565393,;"	"TGTGTGTGTG"	"ENSG00000196628"	"ENST00000398339"	"Transcript"	"intron_variant"	"-/2478"	"-/2322"	"-/773"	""	""	"rs138216350"	"1"	NA	-1	"TCF4"	"HGNC"	11634	"protein_coding"	"YES"	"CCDS58631.1"	"ENSP00000381382"	""	"K7ERJ0,H3BUQ3,H3BTM9,H3BTC3,H3BT24,H3BSX3,H3BRF7,H3BPG3,H3BP59,H3BNZ2,H3BNI2,H3BME8,H3BMC8,G0LNT8,G0LNT7,G0LNT4,G0LNT3,E9PH57"	"UPI000059D58C"	"NM_001243226.1"	NA	NA	""	"2/20"	""	"-:0.1064"	"TGTG:0.7519"	"TGTG:0.9654"	NA	"TGTG:0.9812"	"TGTG:0.9493"	"TGTG:0.8865"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"3ccebc56-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1238"	"LINC-ROR"	100885779	"mskcc.org"	"GRCh37"	"18"	54718304	54718304	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"rs33920412"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000553704"	""	6	"."	4	1	"."	0	"LINC-ROR,downstream_gene_variant,,ENST00000553704,;"	"-"	"ENSG00000258609"	"ENST00000553704"	"Transcript"	"downstream_gene_variant"	"-/2580"	""	""	""	""	"rs33920412"	"1"	"3509"	-1	"LINC-ROR"	"HGNC"	43773	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"354d6fe0-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1239"	"ST8SIA3"	51046	"mskcc.org"	"GRCh37"	"18"	55019963	55019964	"+"	"5'UTR"	"INS"	"-"	"-"	"CACACACA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-84_-77dupCACACACA"	""	""	"ENST00000324000"	"1/4"	55	"."	3	30	"."	0	"ST8SIA3,5_prime_UTR_variant,,ENST00000324000,NM_015879.2;ST8SIA3,upstream_gene_variant,,ENST00000586360,;"	"CACACACA"	"ENSG00000177511"	"ENST00000324000"	"Transcript"	"5_prime_UTR_variant"	"1920-1921/11833"	"-/1143"	"-/380"	""	""	""	"1"	NA	1	"ST8SIA3"	"HGNC"	14269	"protein_coding"	"YES"	"CCDS32834.1"	"ENSP00000320431"	"O43173"	"Q59GW3"	"UPI000014126D"	"NM_015879.2"	NA	NA	"1/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"38"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"3cfa94de-2764-11e6-9a47-98dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.0545454545454545	"WXS"	FALSE
"1240"	"ATP8B1"	5205	"mskcc.org"	"GRCh37"	"18"	55404810	55404810	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs11307178"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-22-5749delG"	""	""	"ENST00000536015"	""	7	"."	3	1	"."	0	"ATP8B1,intron_variant,,ENST00000536015,NM_005603.4;ATP8B1,intron_variant,,ENST00000585322,;RP11-35G9.5,intron_variant,,ENST00000588925,;RP11-35G9.3,intron_variant,,ENST00000599199,;RP11-35G9.5,intron_variant,,ENST00000586729,;ATP8B1,intron_variant,,ENST00000591728,;"	"-"	"ENSG00000081923"	"ENST00000536015"	"Transcript"	"intron_variant"	"-/5935"	"-/3756"	"-/1251"	""	""	"rs11307178"	"1"	NA	-1	"ATP8B1"	"HGNC"	3706	"protein_coding"	"YES"	"CCDS11965.1"	"ENSP00000445359"	"O43520"	"K7ERI0,K7EQC4"	"UPI000013DD54"	"NM_005603.4"	NA	NA	""	"1/27"	""	"C:0.0238"	"-:0.9168"	"-:0.9885"	NA	"-:1"	"-:0.999"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTCT"	"358af4fa-2764-11e6-9a47-98dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1241"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	55517497	55517503	"+"	"IGR"	"DEL"	"CCCCTGT"	"-"	"-"	"rs76856241"	NA	"JHCCPT1"	"JHCCPN1"	"CCCCTGT"	"CCCCTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs76856241"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4066"	"-:0.202"	"-:0.4841"	NA	"-:0.5794"	"-:0.4155"	"-:0.4407"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACCCCTGTG"	"358de17e-2764-11e6-9a47-98dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1242"	"ZNF532"	55205	"mskcc.org"	"GRCh37"	"18"	56609216	56609217	"+"	"Intron"	"INS"	"-"	"-"	"TCCTTCCCT"	"rs773792031"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2705+2371_2705+2379dupCTTCCTTCC"	""	""	"ENST00000336078"	""	16	"."	4	3	"."	0	"ZNF532,intron_variant,,ENST00000336078,NM_018181.4;ZNF532,intron_variant,,ENST00000589288,;ZNF532,intron_variant,,ENST00000591083,;ZNF532,intron_variant,,ENST00000591808,;ZNF532,intron_variant,,ENST00000591230,;ZNF532,intron_variant,,ENST00000586997,;ZNF532,downstream_gene_variant,,ENST00000589403,;ZNF532,intron_variant,,ENST00000586158,;"	"TCCTTCCCT"	"ENSG00000074657"	"ENST00000336078"	"Transcript"	"intron_variant"	"-/6696"	"-/3906"	"-/1301"	""	""	"rs773792031"	"1"	NA	1	"ZNF532"	"HGNC"	30940	"protein_coding"	"YES"	"CCDS11969.1"	"ENSP00000338217"	"Q9HCE3"	"K7ER18,K7EQW7,K7EPI7,K7EP49,K7EMF9,K7ELB7,K7EL14,K7EKV7,K7EJM2,B4DQV3"	"UPI000013D30C"	"NM_018181.4"	NA	NA	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"3d2ecbaa-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1243"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	56905078	56905080	"+"	"IGR"	"DEL"	"GAA"	"GAA"	"-"	"rs3070522"	NA	"JHCCPT1"	"JHCCPN1"	"GAA"	"GAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	23	"."	3	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs3070522"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GAA:0.4856"	"-:0.202"	"-:0.7046"	NA	"-:0.6935"	"-:0.501"	"-:0.6309"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAG"	"36108b38-2764-11e6-9a47-98dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"1244"	"RP11-325K19.6"	0	"mskcc.org"	"GRCh37"	"18"	58191469	58191469	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"rs11292276"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000587712"	""	7	"."	4	1	"."	0	"RP11-325K19.6,downstream_gene_variant,,ENST00000587712,;MRPS5P4,downstream_gene_variant,,ENST00000592830,;"	"-"	"ENSG00000267687"	"ENST00000587712"	"Transcript"	"downstream_gene_variant"	"-/541"	""	""	""	""	"rs11292276"	"1"	"1380"	-1	"RP11-325K19.6"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.0737"	"-:0.8699"	"-:0.9337"	NA	"-:0.9762"	"-:0.9056"	"-:0.9673"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"363d0a96-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1245"	"SERPINB5"	5268	"mskcc.org"	"GRCh37"	"18"	61166280	61166281	"+"	"Intron"	"INS"	"-"	"-"	"TATATATA"	"rs376117295"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.568-59_568-52dupATATATAT"	""	""	"ENST00000382771"	""	77	"."	5	34	"."	0	"SERPINB5,intron_variant,,ENST00000382771,NM_002639.4;SERPINB5,intron_variant,,ENST00000464346,;SERPINB5,intron_variant,,ENST00000465652,;ATP5G1P6,downstream_gene_variant,,ENST00000451206,;"	"TATATATA"	"ENSG00000206075"	"ENST00000382771"	"Transcript"	"intron_variant"	"-/2783"	"-/1128"	"-/375"	""	""	"rs376117295"	"1"	NA	1	"SERPINB5"	"HGNC"	8949	"protein_coding"	"YES"	"CCDS32839.1"	"ENSP00000372221"	"P36952"	"C9JLM5"	"UPI0000201E51"	"NM_002639.4"	NA	NA	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"21"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"3d9b7f7a-2764-11e6-9a47-98dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0649350649350649	"WXS"	FALSE
"1246"	"RPL12P39"	0	"mskcc.org"	"GRCh37"	"18"	61737049	61737050	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs35652046"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000455456"	""	6	"."	4	1	"."	0	"RPL12P39,upstream_gene_variant,,ENST00000455456,;"	"A"	"ENSG00000237314"	"ENST00000455456"	"Transcript"	"upstream_gene_variant"	"-/496"	""	""	""	""	"rs35652046"	"1"	"2342"	1	"RPL12P39"	"HGNC"	35976	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0032"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"3db81a40-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1247"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	63380452	63380453	"+"	"IGR"	"INS"	"-"	"-"	"CCTT"	"rs148434454"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	4	10	"."	0	""	"CCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148434454"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CCTT:0.1619"	"CCTT:0.211"	"CCTT:0.0764"	NA	"CCTT:0.1349"	"CCTT:0.166"	"CCTT:0.18"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"3dc2ae10-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"1248"	"CDH7"	1005	"mskcc.org"	"GRCh37"	"18"	63511410	63511411	"+"	"Intron"	"INS"	"-"	"-"	"ATTTATATATATATAT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1235+111_1235+112insTTATATATATATATAT"	""	""	"ENST00000397968"	""	44	"."	8	17	"."	0	"CDH7,intron_variant,,ENST00000536984,;CDH7,intron_variant,,ENST00000397968,NM_004361.2;CDH7,intron_variant,,ENST00000323011,NM_033646.1;"	"ATTTATATATATATAT"	"ENSG00000081138"	"ENST00000397968"	"Transcript"	"intron_variant"	"-/3292"	"-/2358"	"-/785"	""	""	""	"1"	NA	1	"CDH7"	"HGNC"	1766	"protein_coding"	"YES"	"CCDS11993.1"	"ENSP00000381058"	"Q9ULB5"	""	"UPI000013D269"	"NM_004361.2"	NA	NA	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"3dc8c598-2764-11e6-9a47-98dd414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"1249"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	64456089	64456090	"+"	"IGR"	"INS"	"-"	"CAAGAC"	"CAAGAC"	"rs5825723"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"CAAGAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5825723"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2774"	"CAAGAC:0.739"	"CAAGAC:0.696"	NA	"CAAGAC:0.6637"	"CAAGAC:0.7942"	"CAAGAC:0.7065"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"3dd54584-2764-11e6-9a47-98dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1250"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	64755652	64755679	"+"	"IGR"	"DEL"	"AAGCAAGCAAGCAAGCAAGCAAGCAAGC"	"AAGCAAGCAAGCAAGCAAGCAAGCAAGC"	"-"	"rs150846202"	NA	"JHCCPT1"	"JHCCPN1"	"AAGCAAGCAAGCAAGCAAGCAAGCAAGC"	"AAGCAAGCAAGCAAGCAAGCAAGCAAGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	22	"."	4	7	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150846202"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAGCAAGCAAGCAAGCAAGCAAGCAAGCA"	"36ee3a6e-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"1251"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	65125711	65125718	"+"	"IGR"	"DEL"	"TCTCTCTC"	"TCTCTCTC"	"-"	"rs145814293"	NA	"JHCCPT1"	"JHCCPN1"	"TCTCTCTC"	"TCTCTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145814293"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATCTCTCTCT"	"36f1c260-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1252"	"CCDC102B"	79839	"mskcc.org"	"GRCh37"	"18"	66503861	66503862	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs74175335"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-15-120dupA"	""	""	"ENST00000360242"	""	48	"."	3	19	"."	0	"CCDC102B,intron_variant,,ENST00000360242,NM_024781.2;CCDC102B,intron_variant,,ENST00000319445,NM_001093729.1;CCDC102B,intron_variant,,ENST00000358653,;CCDC102B,intron_variant,,ENST00000584775,;CCDC102B,intron_variant,,ENST00000582371,;CCDC102B,intron_variant,,ENST00000578970,;CCDC102B,intron_variant,,ENST00000581520,;CCDC102B,upstream_gene_variant,,ENST00000584156,;CCDC102B,intron_variant,,ENST00000577772,;"	"A"	"ENSG00000150636"	"ENST00000360242"	"Transcript"	"intron_variant"	"-/2711"	"-/1542"	"-/513"	""	""	"rs74175335"	"1"	NA	1	"CCDC102B"	"HGNC"	26295	"protein_coding"	"YES"	"CCDS11996.2"	"ENSP00000353377"	"Q68D86"	"J3QLG6,J3QL62,J3KRT2,J3KRG3,A1A4H1"	"UPI0000201E87"	"NM_024781.2"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"3df20dc2-2764-11e6-9a47-98dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WXS"	FALSE
"1253"	"DOK6"	220164	"mskcc.org"	"GRCh37"	"18"	67518130	67518131	"+"	"3'Flank"	"INS"	"-"	"-"	"CC"	"rs74175396"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000382713"	""	10	"."	3	4	"."	0	"DOK6,downstream_gene_variant,,ENST00000382713,NM_152721.5;CD226,intron_variant,,ENST00000578928,;"	"CC"	"ENSG00000206052"	"ENST00000382713"	"Transcript"	"downstream_gene_variant"	"-/8890"	"-/996"	"-/331"	""	""	"rs74175396"	"1"	"1807"	1	"DOK6"	"HGNC"	28301	"protein_coding"	"YES"	"CCDS32841.1"	"ENSP00000372160"	"Q6PKX4"	""	"UPI000035EC7C"	"NM_152721.5"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"3dfb3f3c-2764-11e6-9a47-98dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1254"	"DOK6"	220164	"mskcc.org"	"GRCh37"	"18"	67518135	67518136	"+"	"3'Flank"	"INS"	"-"	"-"	"AC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000382713"	""	8	"."	3	2	"."	0	"DOK6,downstream_gene_variant,,ENST00000382713,NM_152721.5;CD226,intron_variant,,ENST00000578928,;"	"AC"	"ENSG00000206052"	"ENST00000382713"	"Transcript"	"downstream_gene_variant"	"-/8890"	"-/996"	"-/331"	""	""	""	"1"	"1812"	1	"DOK6"	"HGNC"	28301	"protein_coding"	"YES"	"CCDS32841.1"	"ENSP00000372160"	"Q6PKX4"	""	"UPI000035EC7C"	"NM_152721.5"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"3dfc0872-2764-11e6-9a47-98dd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1255"	"DOK6"	220164	"mskcc.org"	"GRCh37"	"18"	67519188	67519189	"+"	"3'Flank"	"INS"	"-"	"-"	"AATT"	"rs147946272"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000382713"	""	6	"."	4	1	"."	0	"DOK6,downstream_gene_variant,,ENST00000382713,NM_152721.5;CD226,intron_variant,,ENST00000578928,;"	"AATT"	"ENSG00000206052"	"ENST00000382713"	"Transcript"	"downstream_gene_variant"	"-/8890"	"-/996"	"-/331"	""	""	"rs147946272"	"1"	"2865"	1	"DOK6"	"HGNC"	28301	"protein_coding"	"YES"	"CCDS32841.1"	"ENSP00000372160"	"Q6PKX4"	""	"UPI000035EC7C"	"NM_152721.5"	NA	NA	""	""	""	"-:0.0272"	"AATT:0.9039"	"AATT:0.9942"	NA	"AATT:0.995"	"AATT:1"	"AATT:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"3dfd0038-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1256"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	69056652	69056653	"+"	"IGR"	"INS"	"-"	"-"	"AG"	"rs10653751"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	6	1	"."	0	""	"AG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10653751"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AG:0.3357"	"AG:0.3669"	"AG:0.1744"	NA	"AG:0.4673"	"AG:0.2356"	"AG:0.3753"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"3e2706e4-2764-11e6-9a47-98dd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"1257"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	69127970	69127971	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs112862911"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	4	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112862911"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1220"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"3e27d7ae-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1258"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	71202590	71202602	"+"	"IGR"	"DEL"	"CAGCTGCCCTCCC"	"-"	"-"	"rs71958520"	NA	"JHCCPT1"	"JHCCPN1"	"CAGCTGCCCTCCC"	"CAGCTGCCCTCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71958520"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CAGCTGCCCTCCC:0.4443"	"-:0.5174"	"-:0.647"	NA	"-:0.3155"	"-:0.6163"	"-:0.728"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCAGCTGCCCTCCCC"	"37567d9a-2764-11e6-9a47-98dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1259"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	71840578	71840586	"+"	"IGR"	"DEL"	"CCCAGTCCT"	"CCCAGTCCT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CCCAGTCCT"	"CCCAGTCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACCCAGTCCTC"	"37660846-2764-11e6-9a47-98dd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"1260"	"CNDP1"	84735	"mskcc.org"	"GRCh37"	"18"	72246439	72246449	"+"	"Intron"	"DEL"	"CCTTCCCTTAC"	"CCTTCCCTTAC"	"-"	"rs142524170"	NA	"JHCCPT1"	"JHCCPN1"	"CCTTCCCTTAC"	"CCTTCCCTTAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1167+886_1167+896delACCCTTCCCTT"	""	""	"ENST00000358821"	""	15	"."	4	2	"."	0	"CNDP1,intron_variant,,ENST00000582365,;CNDP1,intron_variant,,ENST00000358821,NM_032649.5;CNDP1,downstream_gene_variant,,ENST00000578498,;CNDP1,intron_variant,,ENST00000582461,;CNDP1,intron_variant,,ENST00000584004,;CNDP1,downstream_gene_variant,,ENST00000584316,;"	"-"	"ENSG00000150656"	"ENST00000358821"	"Transcript"	"intron_variant"	"-/2215"	"-/1524"	"-/507"	""	""	"rs142524170"	"1"	NA	1	"CNDP1"	"HGNC"	20675	"protein_coding"	"YES"	"CCDS12007.1"	"ENSP00000351682"	"Q96KN2"	""	"UPI0000141054"	"NM_032649.5"	NA	NA	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCCTTCCCTTACC"	"37772ffe-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"1261"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	73221309	73221315	"+"	"IGR"	"DEL"	"GAATCTG"	"GAATCTG"	"-"	"rs74180813"	NA	"JHCCPT1"	"JHCCPN1"	"GAATCTG"	"GAATCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs74180813"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3049"	"-:0.2882"	"-:0.3256"	NA	"-:0.5317"	"-:0.2177"	"-:0.1687"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGAATCTGG"	"3797b7ba-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1262"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	75359796	75359805	"+"	"IGR"	"DEL"	"GAGAGAGAGA"	"GAGAGAGAGA"	"-"	"rs5826536"	NA	"JHCCPT1"	"JHCCPN1"	"GAGAGAGAGA"	"GAGAGAGAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5826536"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GAGAGAGAGA:0.0815"	"-:0.9138"	"-:0.9741"	NA	"-:0.9058"	"-:0.9503"	"-:0.8661"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGAGAGAGAGAG"	"37e6f154-2764-11e6-9a47-98dd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1263"	"C2CD4C"	126567	"mskcc.org"	"GRCh37"	"19"	410287	410291	"+"	"5'Flank"	"DEL"	"ATTGA"	"ATTGA"	"-"	"rs140286404"	NA	"JHCCPT1"	"JHCCPN1"	"ATTGA"	"ATTGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000332235"	""	10	"."	6	3	"."	0	"C2CD4C,upstream_gene_variant,,ENST00000332235,NM_001136263.1;"	"-"	"ENSG00000183186"	"ENST00000332235"	"Transcript"	"upstream_gene_variant"	"-/3098"	"-/1266"	"-/421"	""	""	"rs140286404"	"1"	"1148"	-1	"C2CD4C"	"HGNC"	29417	"protein_coding"	"YES"	"CCDS45890.1"	"ENSP00000328677"	"Q8TF44"	""	"UPI00001C2016"	"NM_001136263.1"	NA	NA	""	""	""	"-:0.0587"	"-:0.0015"	"-:0.0245"	NA	"-:0.1587"	"-:0.0219"	"-:0.0951"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTATTGAA"	"2e6ea388-2764-11e6-857b-9bdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"1264"	"FGF22"	27006	"mskcc.org"	"GRCh37"	"19"	643104	643105	"+"	"Intron"	"INS"	"-"	"-"	"GAGGGGACTCGTGGTCTGGGGCAGGGGGGGCTCCTCGTGTCTGTCGTGGTCAT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.215-115_215-114insTGGGGCAGGGGGGGCTCCTCGTGTCTGTCGTGGTCATGAGGGGACTCGTGGTC"	""	""	"ENST00000215530"	""	41	"."	5	21	"."	0	"FGF22,intron_variant,,ENST00000215530,NM_020637.1;FGF22,intron_variant,,ENST00000586042,;FGF22,intron_variant,,ENST00000166133,;RNF126,downstream_gene_variant,,ENST00000292363,NM_194460.2;RNF126,downstream_gene_variant,,ENST00000586749,;FGF22,downstream_gene_variant,,ENST00000591390,;RNF126,downstream_gene_variant,,ENST00000590885,;RNF126,downstream_gene_variant,,ENST00000591452,;"	"GAGGGGACTCGTGGTCTGGGGCAGGGGGGGCTCCTCGTGTCTGTCGTGGTCAT"	"ENSG00000070388"	"ENST00000215530"	"Transcript"	"intron_variant"	"-/643"	"-/513"	"-/170"	""	""	""	"1"	NA	1	"FGF22"	"HGNC"	3679	"protein_coding"	"YES"	"CCDS12037.1"	"ENSP00000215530"	"Q9HCT0"	""	"UPI0000035066"	"NM_020637.1"	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"4113584e-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WXS"	FALSE
"1265"	"AZU1"	566	"mskcc.org"	"GRCh37"	"19"	835500	835501	"+"	"3'Flank"	"INS"	"-"	"-"	"CAGCCCCGTCCAGGCCCCGACGCGTGCAGCCCCCTGGCAGAGC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000233997"	""	10	"."	4	3	"."	0	"AZU1,downstream_gene_variant,,ENST00000233997,NM_001700.3;AZU1,downstream_gene_variant,,ENST00000592205,;"	"CAGCCCCGTCCAGGCCCCGACGCGTGCAGCCCCCTGGCAGAGC"	"ENSG00000172232"	"ENST00000233997"	"Transcript"	"downstream_gene_variant"	"-/917"	"-/756"	"-/251"	""	""	""	"1"	"3483"	1	"AZU1"	"HGNC"	913	"protein_coding"	"YES"	"CCDS12044.1"	"ENSP00000233997"	"P20160"	""	"UPI0000126ECD"	"NM_001700.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"411a19a4-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1266"	"HMHA1"	23526	"mskcc.org"	"GRCh37"	"19"	1078130	1078137	"+"	"Intron"	"DEL"	"TTTTTGTT"	"TTTTTGTT"	"-"	"rs112640352"	NA	"JHCCPT1"	"JHCCPN1"	"TTTTTGTT"	"TTTTTGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1422+103_1422+110delTTTTGTTT"	""	""	"ENST00000539243"	""	20	"."	4	11	"."	0	"HMHA1,intron_variant,,ENST00000313093,NM_012292.3;HMHA1,intron_variant,,ENST00000590214,;HMHA1,intron_variant,,ENST00000586866,;HMHA1,intron_variant,,ENST00000539243,NM_001258328.1;HMHA1,intron_variant,,ENST00000543365,NM_001282335.1;HMHA1,intron_variant,,ENST00000536472,;HMHA1,intron_variant,,ENST00000590577,NM_001282334.1;HMHA1,downstream_gene_variant,,ENST00000587186,;HMHA1,downstream_gene_variant,,ENST00000592335,;HMHA1,upstream_gene_variant,,ENST00000591169,;HMHA1,upstream_gene_variant,,ENST00000590512,;HMHA1,intron_variant,,ENST00000587602,;HMHA1,intron_variant,,ENST00000591293,;HMHA1,upstream_gene_variant,,ENST00000592297,;HMHA1,upstream_gene_variant,,ENST00000586378,;HMHA1,upstream_gene_variant,,ENST00000586937,;HMHA1,downstream_gene_variant,,ENST00000586033,;"	"-"	"ENSG00000180448"	"ENST00000539243"	"Transcript"	"intron_variant"	"-/3822"	"-/3459"	"-/1152"	""	""	"rs112640352"	"1"	NA	1	"HMHA1"	"HGNC"	17102	"protein_coding"	"YES"	"CCDS58637.1"	"ENSP00000439601"	"Q92619"	"O78181"	"UPI0001AE63E1"	"NM_001258328.1"	NA	NA	""	"11/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTTTTGTTT"	"2efb9d2e-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"1267"	"ATP8B3"	148229	"mskcc.org"	"GRCh37"	"19"	1795784	1795795	"+"	"Intron"	"DEL"	"ACACACACACAC"	"ACACACACACAC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ACACACACACAC"	"ACACACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2055+79_2055+90delGTGTGTGTGTGT"	""	""	"ENST00000310127"	""	43	"."	3	21	"."	0	"ATP8B3,intron_variant,,ENST00000539485,;ATP8B3,intron_variant,,ENST00000310127,NM_138813.3;ATP8B3,intron_variant,,ENST00000525591,NM_001178002.2;ATP8B3,downstream_gene_variant,,ENST00000526092,;ATP8B3,intron_variant,,ENST00000531925,;ATP8B3,downstream_gene_variant,,ENST00000533107,;ATP8B3,upstream_gene_variant,,ENST00000526847,;"	"-"	"ENSG00000130270"	"ENST00000310127"	"Transcript"	"intron_variant"	"-/5095"	"-/3903"	"-/1300"	""	""	""	"1"	NA	-1	"ATP8B3"	"HGNC"	13535	"protein_coding"	"YES"	"CCDS45901.1"	"ENSP00000311336"	"O60423"	""	"UPI0000074660"	"NM_138813.3"	NA	NA	""	"18/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTACACACACACACA"	"2f33cab4-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WXS"	FALSE
"1268"	"CSNK1G2"	1455	"mskcc.org"	"GRCh37"	"19"	1947212	1947213	"+"	"Intron"	"INS"	"-"	"-"	"CAAGT"	"rs10675114"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-266+5797_-266+5801dupAAGTC"	""	""	"ENST00000255641"	""	8	"."	5	1	"."	0	"CSNK1G2,intron_variant,,ENST00000255641,NM_001319.6;CSNK1G2,intron_variant,,ENST00000591752,;CSNK1G2,intron_variant,,ENST00000587123,;"	"CAAGT"	"ENSG00000133275"	"ENST00000255641"	"Transcript"	"intron_variant"	"-/2878"	"-/1248"	"-/415"	""	""	"rs10675114"	"1"	NA	1	"CSNK1G2"	"HGNC"	2455	"protein_coding"	"YES"	"CCDS12077.1"	"ENSP00000255641"	"P78368"	""	"UPI00000015E2"	"NM_001319.6"	NA	NA	""	"1/11"	""	"CAAGT:0.1751"	"CAAGT:0.2587"	"CAAGT:0.1556"	NA	"CAAGT:0.2014"	"CAAGT:0.0875"	"CAAGT:0.1391"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"41638882-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1269"	"SF3A2"	8175	"mskcc.org"	"GRCh37"	"19"	2247109	2247110	"+"	"Intron"	"INS"	"-"	"-"	"GGCTTGGGGTCCCCTGGGCCCCCCCCAAGTCGGAGCCAGAAGGATCTGCACAGGCCGGGCAGGATGCCCCTCCCATCA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.546+131_546+132insATCTGCACAGGCCGGGCAGGATGCCCCTCCCATCAGGCTTGGGGTCCCCTGGGCCCCCCCCAAGTCGGAGCCAGAAGG"	""	""	"ENST00000221494"	""	56	"."	5	39	"."	0	"SF3A2,intron_variant,,ENST00000221494,NM_007165.4;AMH,upstream_gene_variant,,ENST00000221496,NM_000479.3;SF3A2,downstream_gene_variant,,ENST00000586396,;AMH,upstream_gene_variant,,ENST00000592877,;MIR4321,upstream_gene_variant,,ENST00000592276,;SF3A2,non_coding_transcript_exon_variant,,ENST00000587637,;SF3A2,intron_variant,,ENST00000592314,;AMH,upstream_gene_variant,,ENST00000589313,;SF3A2,downstream_gene_variant,,ENST00000592839,;AMH,upstream_gene_variant,,ENST00000609455,;SF3A2,downstream_gene_variant,,ENST00000589118,;SF3A2,downstream_gene_variant,,ENST00000590034,;SF3A2,downstream_gene_variant,,ENST00000591121,;"	"GGCTTGGGGTCCCCTGGGCCCCCCCCAAGTCGGAGCCAGAAGGATCTGCACAGGCCGGGCAGGATGCCCCTCCCATCA"	"ENSG00000104897"	"ENST00000221494"	"Transcript"	"intron_variant"	"-/1946"	"-/1395"	"-/464"	""	""	""	"1"	NA	1	"SF3A2"	"HGNC"	10766	"protein_coding"	"YES"	"CCDS12084.1"	"ENSP00000221494"	"Q15428"	"K7EP23"	"UPI0000135468"	"NM_007165.4"	NA	NA	""	"7/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"43"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"416eef2e-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0892857142857143	"WXS"	FALSE
"1270"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	2382305	2382306	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs58773202"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	6	5	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs58773202"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"417ef2f2-2764-11e6-857b-9bdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"1271"	"GADD45B"	4616	"mskcc.org"	"GRCh37"	"19"	2471270	2471271	"+"	"5'Flank"	"INS"	"-"	"C"	"C"	"rs149646506"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000215631"	""	7	"."	5	1	"."	0	"GADD45B,upstream_gene_variant,,ENST00000215631,NM_015675.3;GADD45B,upstream_gene_variant,,ENST00000587345,;GADD45B,upstream_gene_variant,,ENST00000592937,;GADD45B,upstream_gene_variant,,ENST00000585359,;GADD45B,upstream_gene_variant,,ENST00000586759,;"	"C"	"ENSG00000099860"	"ENST00000215631"	"Transcript"	"upstream_gene_variant"	"-/1373"	"-/483"	"-/160"	""	""	"rs149646506"	"1"	"4854"	1	"GADD45B"	"HGNC"	4096	"protein_coding"	"YES"	"CCDS32868.1"	"ENSP00000215631"	"O75293"	"Q6IX74"	"UPI000012AEF0"	"NM_015675.3"	NA	NA	""	""	""	"C:0.1953"	"C:0.0348"	"C:0.1182"	NA	"C:0.375"	"C:0.1978"	"C:0.2791"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"418224f4-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1272"	"AES"	166	"mskcc.org"	"GRCh37"	"19"	3058098	3058099	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs3217064"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.327-359dupA"	""	""	"ENST00000221561"	""	19	"."	6	9	"."	0	"AES,intron_variant,,ENST00000221561,NM_198969.1;AES,intron_variant,,ENST00000586742,;AES,intron_variant,,ENST00000327141,NM_001130.5,NM_198970.1;AES,intron_variant,,ENST00000586839,;AC005944.2,downstream_gene_variant,,ENST00000592758,;AES,intron_variant,,ENST00000592330,;AES,intron_variant,,ENST00000585782,;AES,intron_variant,,ENST00000585557,;AES,upstream_gene_variant,,ENST00000592414,;AES,upstream_gene_variant,,ENST00000590067,;AES,upstream_gene_variant,,ENST00000587393,;AES,upstream_gene_variant,,ENST00000587083,;AES,downstream_gene_variant,,ENST00000586003,;"	"T"	"ENSG00000104964"	"ENST00000221561"	"Transcript"	"intron_variant"	"-/1884"	"-/795"	"-/264"	""	""	"rs3217064"	"1"	NA	-1	"AES"	"HGNC"	307	"protein_coding"	"YES"	"CCDS12101.1"	"ENSP00000221561"	"Q08117"	"K7EQH5"	"UPI00001AE637"	"NM_198969.1"	NA	NA	""	"2/6"	""	"T:0.3632"	"T:0.4145"	"T:0.3271"	NA	"T:0.5347"	"T:0.2167"	"T:0.2935"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"41be8304-2764-11e6-857b-9bdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WXS"	FALSE
"1273"	"CELF5"	60680	"mskcc.org"	"GRCh37"	"19"	3274159	3274160	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs75777918"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.394+244dupG"	""	""	"ENST00000292672"	""	17	"."	4	8	"."	0	"CELF5,intron_variant,,ENST00000541430,NM_001172673.1;CELF5,intron_variant,,ENST00000292672,NM_021938.3;CELF5,intron_variant,,ENST00000589370,;CELF5,intron_variant,,ENST00000586050,;CELF5,intron_variant,,ENST00000588350,;CELF5,intron_variant,,ENST00000334293,;"	"G"	"ENSG00000161082"	"ENST00000292672"	"Transcript"	"intron_variant"	"-/1854"	"-/1458"	"-/485"	""	""	"rs75777918"	"1"	NA	1	"CELF5"	"HGNC"	14058	"protein_coding"	"YES"	"CCDS12106.1"	"ENSP00000292672"	"Q8N6W0"	""	"UPI00000705EC"	"NM_021938.3"	NA	NA	""	"3/12"	""	"G:0.4535"	"G:0.2239"	"G:0.5476"	NA	"G:0.6974"	"G:0.4642"	"G:0.4346"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"41c38390-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"1274"	"MATK"	4145	"mskcc.org"	"GRCh37"	"19"	3785430	3785431	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs112321940"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.76-549dupG"	""	""	"ENST00000395045"	""	18	"."	6	6	"."	0	"MATK,intron_variant,,ENST00000310132,NM_139355.2;MATK,intron_variant,,ENST00000395045,NM_002378.3;MATK,intron_variant,,ENST00000585778,;MATK,intron_variant,,ENST00000395040,NM_139354.2;MATK,intron_variant,,ENST00000590028,;MATK,intron_variant,,ENST00000591059,;MATK,intron_variant,,ENST00000590849,;MATK,intron_variant,,ENST00000590980,;MATK,upstream_gene_variant,,ENST00000590493,;MATK,upstream_gene_variant,,ENST00000587180,;MATK,upstream_gene_variant,,ENST00000588983,;MATK,downstream_gene_variant,,ENST00000590821,;"	"C"	"ENSG00000007264"	"ENST00000395045"	"Transcript"	"intron_variant"	"-/2073"	"-/1527"	"-/508"	""	""	"rs112321940"	"1"	NA	-1	"MATK"	"HGNC"	6906	"protein_coding"	"YES"	"CCDS12113.1"	"ENSP00000378485"	"P42679"	"K7ERY4,K7EQV3"	"UPI000013FB32"	"NM_002378.3"	NA	NA	""	"2/13"	""	"C:0.4077"	"C:0.1619"	"C:0.3559"	NA	"C:0.3611"	"C:0.5795"	"C:0.6483"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"41e155d2-2764-11e6-857b-9bdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1275"	"ATCAY"	85300	"mskcc.org"	"GRCh37"	"19"	3924231	3924232	"+"	"Intron"	"INS"	"-"	"-"	"TGGATGGA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1107-318_1107-311dupATGGATGG"	""	""	"ENST00000450849"	""	18	"."	3	11	"."	0	"ATCAY,intron_variant,,ENST00000450849,NM_033064.4;ATCAY,intron_variant,,ENST00000600960,;ATCAY,intron_variant,,ENST00000398448,;ATCAY,downstream_gene_variant,,ENST00000301260,;RN7SL202P,upstream_gene_variant,,ENST00000584410,;ATCAY,upstream_gene_variant,,ENST00000601323,;ATCAY,intron_variant,,ENST00000597739,;"	"TGGATGGA"	"ENSG00000167654"	"ENST00000450849"	"Transcript"	"intron_variant"	"-/5070"	"-/1116"	"-/371"	""	""	""	"1"	NA	1	"ATCAY"	"HGNC"	779	"protein_coding"	"YES"	"CCDS45923.1"	"ENSP00000390941"	"Q86WG3"	"M0R197"	"UPI000006DE3B"	"NM_033064.4"	NA	NA	""	"12/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"39"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"41ec9da2-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"1276"	"MAP2K2"	5605	"mskcc.org"	"GRCh37"	"19"	4103511	4103512	"+"	"Intron"	"INS"	"-"	"-"	"GAGGCTAGAGAGGGCGGGCTGGAG"	"rs142378386"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.451-1084_451-1061dupCTCCAGCCCGCCCTCTCTAGCCTC"	""	""	"ENST00000262948"	""	15	"."	4	3	"."	0	"MAP2K2,intron_variant,,ENST00000262948,NM_030662.3;MAP2K2,intron_variant,,ENST00000394867,;MAP2K2,upstream_gene_variant,,ENST00000599021,;MAP2K2,intron_variant,,ENST00000599345,;MAP2K2,intron_variant,,ENST00000602167,;MAP2K2,upstream_gene_variant,,ENST00000593364,;MAP2K2,upstream_gene_variant,,ENST00000595715,;MAP2K2,upstream_gene_variant,,ENST00000597263,;MAP2K2,upstream_gene_variant,,ENST00000600584,;MAP2K2,upstream_gene_variant,,ENST00000601786,;MAP2K2,upstream_gene_variant,,ENST00000597008,;"	"GAGGCTAGAGAGGGCGGGCTGGAG"	"ENSG00000126934"	"ENST00000262948"	"Transcript"	"intron_variant"	"-/1734"	"-/1203"	"-/400"	""	""	"rs142378386"	"1"	NA	-1	"MAP2K2"	"HGNC"	6842	"protein_coding"	"YES"	"CCDS12120.1"	"ENSP00000262948"	"P36507"	"G5E9C7,B3KS97"	"UPI000012F489"	"NM_030662.3"	NA	NA	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"41fd1aba-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	TRUE
"1277"	"STAP2"	55620	"mskcc.org"	"GRCh37"	"19"	4332194	4332203	"+"	"Intron"	"DEL"	"TTTTTTTTTT"	"TTTTTTTTTT"	"-"	"rs58828365"	NA	"JHCCPT1"	"JHCCPN1"	"TTTTTTTTTT"	"TTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.298-128_298-119delAAAAAAAAAA"	""	""	"ENST00000600324"	""	42	"."	5	14	"."	0	"STAP2,intron_variant,,ENST00000600324,NM_017720.2;STAP2,intron_variant,,ENST00000594605,NM_001013841.1;STAP2,intron_variant,,ENST00000601482,;STAP2,upstream_gene_variant,,ENST00000598443,;STAP2,upstream_gene_variant,,ENST00000597593,;STAP2,intron_variant,,ENST00000599736,;STAP2,upstream_gene_variant,,ENST00000602007,;STAP2,upstream_gene_variant,,ENST00000596242,;STAP2,upstream_gene_variant,,ENST00000601179,;"	"-"	"ENSG00000178078"	"ENST00000600324"	"Transcript"	"intron_variant"	"-/1508"	"-/1350"	"-/449"	""	""	"rs58828365"	"1"	NA	-1	"STAP2"	"HGNC"	30430	"protein_coding"	"YES"	"CCDS12128.1"	"ENSP00000468927"	"Q9UGK3"	""	"UPI00001AF0BC"	"NM_017720.2"	NA	NA	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTTTTTTTTT"	"2fd1aa36-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WXS"	FALSE
"1278"	"MPND"	84954	"mskcc.org"	"GRCh37"	"19"	4353560	4353567	"+"	"Intron"	"DEL"	"TGTTTTTT"	"-"	"-"	"rs71886973"	NA	"JHCCPT1"	"JHCCPN1"	"TGTTTTTT"	"TGTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.665-472_665-465delTTTTTTTG"	""	""	"ENST00000262966"	""	6	"."	5	1	"."	0	"MPND,intron_variant,,ENST00000599840,;MPND,intron_variant,,ENST00000596722,;MPND,intron_variant,,ENST00000262966,NM_032868.4;MPND,intron_variant,,ENST00000359935,NM_001159846.1;MPND,intron_variant,,ENST00000597036,;MPND,intron_variant,,ENST00000601877,;MPND,upstream_gene_variant,,ENST00000594162,;AC007292.4,intron_variant,,ENST00000594776,;AC007292.3,downstream_gene_variant,,ENST00000593524,;MPND,intron_variant,,ENST00000594716,;AC007292.1,upstream_gene_variant,,ENST00000600054,;"	"-"	"ENSG00000008382"	"ENST00000262966"	"Transcript"	"intron_variant"	"-/1567"	"-/1416"	"-/471"	""	""	"rs71886973"	"1"	NA	1	"MPND"	"HGNC"	25934	"protein_coding"	"YES"	"CCDS42470.1"	"ENSP00000262966"	"Q8N594"	""	"UPI000006EE47"	"NM_032868.4"	NA	NA	""	"4/11"	""	"-:0.4075"	"-:0.351"	"-:0.4006"	NA	"-:0.6577"	"-:0.2783"	"-:0.364"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTGTTTTTTT"	"2fd5e948-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1279"	"HDGFRP2"	84717	"mskcc.org"	"GRCh37"	"19"	4500059	4500059	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs59107768"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1804+347delG"	""	""	"ENST00000301284"	""	6	"."	4	4	"."	0	"HDGFRP2,intron_variant,,ENST00000301284,NM_001001520.1,NM_032631.2;HDGFRP2,intron_variant,,ENST00000586684,;HDGFRP2,intron_variant,,ENST00000586428,;HDGFRP2,intron_variant,,ENST00000587016,;HDGFRP2,intron_variant,,ENST00000592417,;HDGFRP2,intron_variant,,ENST00000588271,;HDGFRP2,intron_variant,,ENST00000591328,;PLIN4,downstream_gene_variant,,ENST00000301286,NM_001080400.1;HDGFRP2,intron_variant,,ENST00000590872,;"	"-"	"ENSG00000167674"	"ENST00000301284"	"Transcript"	"intron_variant"	"-/2296"	"-/2031"	"-/676"	""	""	"rs59107768"	"1"	NA	1	"HDGFRP2"	"Uniprot_gn"	NA	"protein_coding"	"YES"	"CCDS42472.1"	"ENSP00000301284"	"Q7Z4V5"	"K7EQ06,K7EJP7,K7EIG6"	"UPI000013E6F7"	"NM_001001520.1,NM_032631.2"	NA	NA	""	"14/15"	""	"G:0.0234"	"-:0.9909"	"-:0.9957"	NA	"-:0.9831"	"-:0.993"	"-:0.9202"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"30230778-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1280"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	5375725	5375726	"+"	"IGR"	"INS"	"-"	"-"	"GAA"	"rs145380868"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	4	5	"."	0	""	"GAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145380868"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4960"	"GAA:0.5628"	"GAA:0.4207"	NA	"GAA:0.5248"	"GAA:0.4831"	"GAA:0.4836"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"42419898-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"1281"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	6626899	6626901	"+"	"IGR"	"DEL"	"AGG"	"AGG"	"GA"	"rs386806340"	NA	"JHCCPT1"	"JHCCPN1"	"AGG"	"AGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	5	"."	0	""	"GA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs386806340"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGGA"	"403d9ed4-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1282"	"C3"	718	"mskcc.org"	"GRCh37"	"19"	6717759	6717760	"+"	"Intron"	"INS"	"-"	"-"	"GTG"	"rs147904211"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.504+343_504+345dupCAC"	""	""	"ENST00000245907"	""	7	"."	3	1	"."	0	"C3,intron_variant,,ENST00000245907,NM_000064.2;C3,downstream_gene_variant,,ENST00000600744,;C3,upstream_gene_variant,,ENST00000597442,;C3,upstream_gene_variant,,ENST00000594270,;C3,upstream_gene_variant,,ENST00000595577,;C3,downstream_gene_variant,,ENST00000594936,;"	"GTG"	"ENSG00000125730"	"ENST00000245907"	"Transcript"	"intron_variant"	"-/5263"	"-/4992"	"-/1663"	""	""	"rs147904211"	"1"	NA	-1	"C3"	"HGNC"	1318	"protein_coding"	"YES"	"CCDS32883.1"	"ENSP00000245907"	"P01024"	"Q6LDJ0,M0R1Q1"	"UPI000013EC9B"	"NM_000064.2"	NA	NA	""	"4/40"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"428bf744-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1283"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	6862438	6862439	"+"	"IGR"	"INS"	"-"	"-"	"AAT"	"rs112771505"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	3	"."	0	""	"AAT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112771505"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AAT:0.1887"	"AAT:0.5371"	"AAT:0.0778"	NA	"AAT:0.002"	"AAT:0.0805"	"AAT:0.1002"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"429f4c04-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1284"	"ARHGEF18"	23370	"mskcc.org"	"GRCh37"	"19"	7507011	7507026	"+"	"Intron"	"DEL"	"CCTTCCTTCCTTCCTT"	"CCTTCCTTCCTTCCTT"	"-"	"rs752211896"	NA	"JHCCPT1"	"JHCCPN1"	"CCTTCCTTCCTTCCTT"	"CCTTCCTTCCTTCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.796+105_796+120delCCTTCCTTCCTTCCTT"	""	""	"ENST00000359920"	""	36	"."	3	25	"."	0	"ARHGEF18,intron_variant,,ENST00000359920,NM_001130955.1;ARHGEF18,intron_variant,,ENST00000319670,NM_015318.3;CTD-2207O23.3,intron_variant,,ENST00000593531,;ARHGEF18,upstream_gene_variant,,ENST00000594665,;ARHGEF18,downstream_gene_variant,,ENST00000599752,;ARHGEF18,intron_variant,,ENST00000595600,;"	"-"	"ENSG00000104880"	"ENST00000359920"	"Transcript"	"intron_variant"	"-/5733"	"-/3522"	"-/1173"	""	""	"rs752211896"	"1"	NA	1	"ARHGEF18"	"HGNC"	17090	"protein_coding"	"YES"	"CCDS45946.1"	"ENSP00000352995"	"Q6ZSZ5"	"M0R125"	"UPI0000D6170D"	"NM_001130955.1"	NA	NA	""	"3/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"32"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCCTTCCTTCCTTCCTTC"	"3120e460-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WXS"	FALSE
"1285"	"ARHGEF18"	23370	"mskcc.org"	"GRCh37"	"19"	7507422	7507423	"+"	"Intron"	"INS"	"-"	"-"	"TCTCTGTCTT"	"rs149227041"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.796+490_796+499dupGTCTTTCTCT"	""	""	"ENST00000359920"	""	11	"."	7	1	"."	0	"ARHGEF18,intron_variant,,ENST00000359920,NM_001130955.1;ARHGEF18,intron_variant,,ENST00000319670,NM_015318.3;CTD-2207O23.3,intron_variant,,ENST00000593531,;ARHGEF18,upstream_gene_variant,,ENST00000594665,;ARHGEF18,downstream_gene_variant,,ENST00000599752,;ARHGEF18,intron_variant,,ENST00000595600,;"	"TCTCTGTCTT"	"ENSG00000104880"	"ENST00000359920"	"Transcript"	"intron_variant"	"-/5733"	"-/3522"	"-/1173"	""	""	"rs149227041"	"1"	NA	1	"ARHGEF18"	"HGNC"	17090	"protein_coding"	"YES"	"CCDS45946.1"	"ENSP00000352995"	"Q6ZSZ5"	"M0R125"	"UPI0000D6170D"	"NM_001130955.1"	NA	NA	""	"3/19"	""	"TCTCTGTCTT:0.2967"	"TCTCTGTCTT:0.4054"	"TCTCTGTCTT:0.2378"	NA	"TCTCTGTCTT:0.3135"	"TCTCTGTCTT:0.2634"	"TCTCTGTCTT:0.2086"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"15"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"42ce6124-2764-11e6-857b-9bdd414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.636363636363636	"WXS"	FALSE
"1286"	"MA0528.1"	0	"mskcc.org"	"GRCh37"	"19"	8111664	8111664	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs113950373"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"MA0528.1"	""	30	"."	7	16	"."	0	""	"-"	""	"MA0528.1"	"MotifFeature"	"TF_binding_site_variant"	""	""	""	""	""	"rs113950373"	"1"	NA	-1	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	"Znf263:MA0528.1"	"14"	"N"	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"319d0f40-2764-11e6-857b-9bdd414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WXS"	FALSE
"1287"	"FBN3"	84467	"mskcc.org"	"GRCh37"	"19"	8172108	8172123	"+"	"Intron"	"DEL"	"TGGAAGGATGGATGGA"	"TGGAAGGATGGATGGA"	"-"	"rs571144823"	NA	"JHCCPT1"	"JHCCPN1"	"TGGAAGGATGGATGGA"	"TGGAAGGATGGATGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4687+931_4687+946delTCCATCCATCCTTCCA"	""	""	"ENST00000600128"	""	9	"."	4	2	"."	0	"FBN3,intron_variant,,ENST00000600128,;FBN3,intron_variant,,ENST00000270509,NM_032447.3;FBN3,intron_variant,,ENST00000601739,;FBN3,downstream_gene_variant,,ENST00000594331,;"	"-"	"ENSG00000142449"	"ENST00000600128"	"Transcript"	"intron_variant"	"-/9362"	"-/8430"	"-/2809"	""	""	"rs571144823"	"1"	NA	-1	"FBN3"	"HGNC"	18794	"protein_coding"	"YES"	"CCDS12196.1"	"ENSP00000470498"	"Q75N90"	""	"UPI000013D88F"	""	NA	NA	""	"37/63"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTGGAAGGATGGATGGAT"	"31a8e5cc-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1288"	"CERS4"	79603	"mskcc.org"	"GRCh37"	"19"	8267205	8267206	"+"	"5'Flank"	"INS"	"-"	"-"	"AGGAAGGA"	"rs112079006"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000561008"	""	18	"."	4	3	"."	0	"CERS4,upstream_gene_variant,,ENST00000561008,;"	"AGGAAGGA"	"ENSG00000090661"	"ENST00000561008"	"Transcript"	"upstream_gene_variant"	"-/531"	"-/277"	"-/92"	""	""	"rs112079006"	"1"	"4414"	1	"CERS4"	"HGNC"	23747	"protein_coding"	""	""	"ENSP00000453796"	""	"H0YMY6,H0YKS3"	"UPI00022F8459"	""	NA	NA	""	""	""	"-:0.3409"	"AGGAAGGA:0.68"	"AGGAAGGA:0.7608"	NA	"AGGAAGGA:0.6339"	"AGGAAGGA:0.7167"	"AGGAAGGA:0.5256"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"43361dc8-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"1289"	"CTD-2557P19.4"	0	"mskcc.org"	"GRCh37"	"19"	8880564	8888015	"+"	"3'Flank"	"DEL"	"TTATTTTTTTTTTTTTTGTAGGGACGGGCTTTCACCGTGTTAGCCAGGACGGTCTCGATCTCCTGCCCTCGTGATGCACCCGCCTGAGCCTCCCGAAGTGCTCGGATTACAGGCATGAGCCACCATGCACGGCCCAGAAATGGAGATTTTTGAGCAAACACATTAAAGAAAAGAAACGCAAATAGACGAAACTCATTTTAACATTTTTATTTAACCCAAGGAATACAGATATAATCAACACCAATACAATTGATGTCACAGTGATGACTAAGATACATGCTACAATCCTTCATTCTCAGATGCAAAATCTAGTATGTGTTTTACAGCAAACGTCAGTTGGAAACTGAACGTCGATCACACATGCTTGATGTGCATGTCAATTTCATGAGAGTTACAATCTCAGGAGAAGTCTCACATAGCGTAAGAGTCCAAACATACCTTCAAGTGTTTCGACAAGTTCTTCACTACTCATTCTTAGAACTGAATTTACCAACAACAATCCCAGCCTATTCATTGCTGAACTGCATCCCATTGAAAGAATGGGTCACAGTTCCTCTCTCTAGACACTGTGGAACGACATTGAAGGCCCTTCCATCTTTTGGCGATTGTGAGGACAGGTGCTAGAAGCCTCTGCCCTCAGCCTTGTCCACGTGAGTTCTAATTCCTTTAGAACAACTATCTCAGGGTGGGAAAGATGGTTCCAATGCTAAGTGCCTATTGCATTGATTATGAATCAATGAAACTCTTTCTCCCTGGGGGTTGTCCCAGTTGGATTCCAAGCAGCACTGTCAGAGTGTTCCAGCTTCTCCACATGCTCCGCAGCCCTTGGGATGGTGAGTGATTGTCACGGTGGCTTCTGGGAGAGCTTCTTGGTTGTTGTTGAAGGTGTATTTGACGTGCATTTCCCCAGGGGAGGGACAGTGAACGCTTTTTGAAGTGGTTCTTTACATCCCCTTTGAGGAAATGTCTGCTCAAGTCTCTGGCTGGGTTTTGAACAGAATCATTTGTTTGTCCCATTGGAGTTTTGACAACTCTGTGTATTCTGAGTATGAGCAGTCCTTGCACGTATATGAGATTTGCAAATATTTTGTGCCCCAATCTCAAGGTTGCTCTTTGATACAAATCAAGAGCATCTGAGGCAGAGCAAAGGTTCAGGTGAGAGGACGGAGCATTTCTCCACCTCTCCAGCATGCGCAGCATCTCTCTCCTCCGAGATGCCGAGACATGTGTGCAGGGAGACACCATGAAAAAGCAGGTGTGCTTCATTCTGAATAGAGCGTCTCTGATTCCCGTCTGGTGCCTGAGGGTGCATGGCCCATGAGCCTTAGAAGAGACGTCTTCGGGCCTTGCACGTTGGCCTCCATAGAAACTTGTGGCAAATTCTGGGCTCCGGACTGGGTGATGGAGGTAGAGGTCTGAGGGCAGAGGTGGGCAGGGGCTCCAGGCCGTGGAGATCCAAGTGGAATTCTTCAGGCAGAGCCTGTCTCCAGGGACTAGGCTTGGGCATTTGGGATGAGCCCTGGGGGACGGCCGCTCTGTAGTCAGGTTTGAGGTAGAGGACACGCCAGGAAGAAGGGCTGACTCCATGCACAAGGTTTGCTGGGGGTCCCATCAGGGGCAGGAAGCCTTGGGGAGCCTCACCCTCTTCTACTGAAGGCGCCACACACACATTCTCTGCTCTCTGGGCTCTCACAGATCCATTTTCAATGTCAATCTCCCAGACAGTCTCTGTACTAGTGAGCAGGAGCCAGCGGGCATGGGCAGGGTACAAGAGATCCTTCAGGGACATCAAGAGTTGCTCAGGGACCACCAGGAGCTGCACATTGAGGAGGCTGAGTCGCAGGGCTCCCTGTGGGTCCAGCCCCAGGAACTCCTGCCCCAGGCGCAGGTGCAGGACCATTCCTGGTTCCAAGACCGCGATGATCATCTTCCTCTGGGGAAGCTGTGGGCCCTGGGGGAGAAAAGCCGTGGGTCAGTCATTGTCCTCTGAGGGTGGCTCAAACAGGGAGAGAGCAAGGCGGGGAGCTGCCAGTAACTTCCCCAGGCATAAATGAAACCCCGCAGGGACACCCAGAATTGGCACCTGTATTGACGCCCCTTGGGACGGTGATTTCCTGCAAGTCCCCTAGGGCCTGGAGCTCAGGCAGACCTGTCTCACCCACGCCCACCTAGGTGGTGTGACCTTACCTGGGGCAGCTCCAGGGGCAGCTGTGCAGGGTGGTGGGGAGCTGGCTGTACCGGAGCTGGTTCTGCACCTGTGGAGAGAGCAGAGTGTGCAGGTGAAAGCCCTTGTCATGCAGGATGCCCTTGAGGGTTCAAGGTGCCACCGTGAGAAAGACCAAATACAGAAGAAGCCAGGTACAGGACACCCAGCCACGGAGCTGCAGGAGGAAGCTCCCGACACTCTGGACAGCACAGCTGCTCGCCTCATGACGTGACGGGACACTGGCTTGGTAGCAGGGGACTCAGGATGAAAAAGAGAAGATGCCTCACCTGGATGAGGACCCAGCTCCTCCACTTTCTGGCGTTTTGGGGCATTTGATGGCGTGCCGCTGGAGCTGTAGGACAGAGAGACACAGTCAGATTTCGGGCAGTTCCCTAACGTCCAATTCCCTGAATCCCCACAAATTCACTCCACTTCCCTGCCTTTCATTCAAGGCCACAGACTCGTCATCCACTTCCTGTGAGACCTGCTCCCAATCTGTCCTAACTCCCAGCTGTTCTTGTTCTCACCCCATCTACCTGAGCTTCCCTGGGTGAAGAAAAGGCAGGGAAGGAGGGTCGGTGCCCACAGGGAGCAGTTGACCCTTTCAGGAGCTCATGCAGATGAGAGTTGGAAAACTCTCCTTGGGTGTGAGGAGCTGGAGAAAGATGTTGAGATCCCGGAGAGGTGGCACCTCTGTCTACACAGGTAACAAAGGAATGGGGTCTTAGGATTCGAATCACAGCAGGAGAAGAGGAAGGAATTTGTCGGGCATGACGGCATGCGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGTCGGAGGATTGCTTGAGTCCAGGAGTTTGAGAGCAGCCTGGGCAACATGGTGAAAGCTAGTCTCCACTAAAAATACTAAACATTAGTGGGTCATGGTGGTGCATGCCTGTGGTCTCACCTACTCAGGAGGCTCAGGTGGGAGGATCACCTGCGACTCAGAGGTGGAGCCCGCAGTCAGCTAAAATCACGCCACTGCACTCCAGTGTGGACCATCGGAGTGAGACGCTGTCTCAGTAAAATAAATCAGTAAATAAGACAAATAGAAAAATTAAAAATGAAAAAAGGAGGAAACTGTTTTATTTTTCCTAGTAGATCTTGAAACTCTCACATCATGTCCTACAATCTCCCTTCTTGCAGAACACAGAACCCATTCCCTGTGGAGCTGGTTGGGTGGATTGAAAGTGGGGCTGCCCTGAGATATGTGTGTGGTTGCGATGTAGAAGCCTTCCCAGCACCCTGTGATGACTTACGGGCACCTCACTTCCCTCTGGCCCCAAATTCAAAACATCCAATCTCATGGCAGGTTCATGCACCCTTTTCCCTTCCCCTCTCTCCAACACACACCCACACATCCCACAGGCAGGTCACCCCGCAGGCGTCCCCAGCACATAGCAAAGCTCACCCGCTCTCTCCTGCGTGGTCGCTCTTGGATTCGGTGCAGGAATCACTGGGGCTTCTTGGGCGCCGGGAACCTTTCATGGTGAAAATTTCCAGGGTTCTCCAAGTCAGCCACTGCCAGTGTTTGTCTGTCTCCTGCAAAGATTTCTTCTTGGCTCCCGAATCCTTTAGTTCCTTTGAGAGAGTGGTGTCAGCCCCAAAGCTGCTCCCGAAGGCTTGGGTTGTGTAGCGACGGGGCTGTGGCCAGCGGCAGGTGGACGAGGCTCCGACAACTGAGCTCTTGGGGGAATCTTGTACACTGTCAGCAGGGGGTGGAGCCAGGGGATTTGTCAGCAGGAACTGATGTGATTGGCTGTTCCTGGTATGACAACGGGAGGGGCCCTCATGGAGGATTGGGGCGTAACTCAATCCATAGATGACCGATCAACAGAACCTGCCTAATCCCATCAAGAGCCAACCTGTTTCCTGTCCCCTCCCATCCTCTAGGTCTTGCCTAATAATGATAGACACTTTCTGTCATACCCAATTCATCCATCGCTGAAATAGTTTTTCATGTGTGCCTTTTATATTTTCATGCAATAAAAATATGTTAATTTTCACGGTGGCCATCCTGGGGAATGCTATGTACATGAAATGAAGTGTCAAAGGAGCAGAAGCAGAAGGAAATTCACAAGCTTCTCTGAGCGTCTCTGCTTCAATTCCTGCCATGTTTCCTAAATATGTTGGCTTCTTTCTTCCTACCCAAGTAAGAAGGTGCTTCAGAAGATCAATCTTATGGCATTTGACAAACCCTGCTGAGAATTTCAGGATGACACGAAGGAACCTTTGATTGGATTTGTGGATGTGCCTGTGAAAGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGCCAGGATGAAGTGGCTGTTCCTGGGGTGGAGACCCTTCTTTCTCTTGAGAATGTTCATTGCTGTTGACTCATTGTGGGTTTTGGAGATATTTTCTCTCTTTCTTTCGTTCTTTCAGACATTTTTTGCTTTCTCCCTCCCTGGATCCTAACCCCCCTCCATCCCCCCCCTCACTCCCTCCCTCCTTGTTTCCATCCTTCCTCCCTCCCTTCCCTCTTTCCTTCCTTCCTGCCTTCTTCCCTTCCCCTTCCCCTCTTCCTTCTGTCCTTCCTTCCTGTGTGTAAAAGAAAAATTGGTGAATAGAAGAATAATTGAATAACTGCCTGAGTCACTTATACATTTCTCATCTCACTCTGGGGACACAGAAGACCGTGTTGTACTCATCTCCTCGATTTTAAAAACAGTCATTCTAAAATCAAGGATTCTAGATGTATCACTTCTAGGCGAAATCTTGAAAGAGAATGTGTAAGAGTTTCATGTGCTCTTCATCTCTATGATCACAATTGAAGAAGGCAGGAGGTTGAGATGCTGCATCGCCAAGATCGTGGTGATTCCATTATCATTACCCTTGTAACTTGTGAGCATCCTTACTGCCAGCAATCATTATTAGATATGGAATCTGATATAGGAGTTCATATTTACTGTATGAATATCTTGGTGTGGGAGTGTTGGCTCATGCCTGTAATCCCAGTGCTTTGGGAGGCAGAGGCAGGAGGCTCGCTTGAACCCAGGAGTTCGAGACAAGCCGGAAGAGCATGGCGAGACCCTCGTCTCTACAAAAATGTAAAAATCAGCCAAGTGTGCTGGTAGGTGCCTGTAGTCTCAGCTCCTTAGGAGGCTGAAGTGTTAGGATCGCTTTCGCCCGGGATGTAATGGCTACAGGGAGTCGAGATCTTGCCACTGAACTTCAGCCTGGGCAACAGAGCAAGACTCTCTCTCAAAAATAAAATGCTTTTTCCTTTAGGCTTAAATTCTAACACTCAAACCTCCAAAGCGGAGGTATTAGGAGGTGGGGCCCTTGGGAGATGATGAGATTATGAAAGTGGAACCCTCGTAAATGGGATTAGTGCCCTTCTGAAAGTGACGGAAGAGAGCTCGCCAGCACCTTCCATGTGGGGAGACAGGGAGGATATGACAGTCTCCAACCTGGAAGAGGGTCCTCACCAGACCCCGATCATGCTGGCACTCTCATCGTGGACTTCCGGCCTCCAGAACTCTGATCAACAAATGTGTGTTCTTAAAGAAAAAAAAAGTGTGGAAAGCAATGTTAATGTTCCCAATCACTTTGAGTACATTCTTTCCTTAACTATGTCTTAATGCATAGTTGTGTTGGATGGCCTAGTTTGTAATGTTAGAATATGCATGTTAGTGAATTAATAAATACAGCAGTAAAGAATAGAGTTGTGGTTGGGAATGGAGTCTCACGCCTGTAATCCCAGCACAATGGCATGCCGAGGCGGGTCAATCACCTGTAGTCGGGAGGTGGAGATCACCCTGACCAACATGGAGAAACCCGACTCTACTAAAAATACAAATCAGCCTGTCATAGAGGCACATGCCTTTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCTAGGAGGCAGAGGTTGCGGTGAGCCGAGATCGCGCCATTGCACTCCAGCCTGGGCAACAAAAGCTAAATTCTATATCAAAAAATTAAAAAAAAAAAAAAGAAGGCTGTTTGTTGACCATTTGAGTGGCCAGTCTTGGTGCTTCCTGGTGGGCGAGGAGAGCCCTGCCCCATTCCTACCCATTCCAGTAGTCATGGCATAAGAGTGATTCTCACTTTCTGCTATAGCCTCCTTATCCATTGGCTGAAATGATTCTTTTTTAATGTGTCTTATTAATGCTTCCATAGCAAAAAATATTGAATTGACTTTTATAGGGACTCTTTCGGGGATTGTTACCCATCATTCCATAATTTGTTTGTACTCCTAGAAAAGGGAAGTATGCCGAGCACAGTGGATATTTCGTCTCAAATAATAAATAAATAACCAAATAGAAAAGAAAGAAAAGGAAGTAAAGGGAAATATACAAATATACAAGGTGTTAGGAGAGAGTTGCTAATCGTGATTCCCCCTTAATTGTCCAAACAGACCACCTCTGGGGATCTATTCGTAAAAGACTCGTTAGAAGTGCAGACTCATGCATTTGAGAATCACTCAGGGAAATCTGAAGATGACCTGTGGTGGGGGTGTAAATGGATACTTAAATGTGTCTTGTGATTGTGTGAGAGTGTGACTGTGTGTTTGTGTGTGTGCTGTCATCTGTGGAGTGGGGGATCCTCTTTTGCCTTGAGAAAGCTCATCTCTGTCCACTTACTCTGGGCTCTACCATCTGTGCCTTGTATCCAGTAGAAATAAAACAGTTTGCGGCAGAAATGGAGTTTTATTTTATTTCACTTTACTTTTTATTAGGATTATTTGTAGACCGGGTCTCACTCTGTCACTCAGGCTGGAGTGCAATGGCACGATCTCAGATCACTGCAACCTGTGCCTCCTGCACTGAAGCCATCCTCCCACCTCAGCCTCTGGAGTGGGGAGATCCCACACCTGTGTAATTTTTGCATTTTTTCTAGAGATGGGGTTTCCTCATGCTGCCCGGGCTGGTTTCCAACGCCTGGGCTCAAGTGATCCACCCGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGTGGGAGCTACTGTGCCCGGCCAGAGATGGAGATTTTTGTTCTTCTTTTGATGAGACGGAACCTCGCACCGTGGCCCAGGCTGGAGTGCAGTGGAGTGACCTCGGCTCACTGCAAGCTCTGCCTCCTGGGGTCATGCCATTCTCCTGCCTCAGCCTCCCAAAGAGCTGGGACTACAGGCGCCCGACACCACGCCCAGCTAAGGTTTTTGCA"	"TTATTTTTTTTTTTTTTGTAGGGACGGGCTTTCACCGTGTTAGCCAGGACGGTCTCGATCTCCTGCCCTCGTGATGCACCCGCCTGAGCCTCCCGAAGTGCTCGGATTACAGGCATGAGCCACCATGCACGGCCCAGAAATGGAGATTTTTGAGCAAACACATTAAAGAAAAGAAACGCAAATAGACGAAACTCATTTTAACATTTTTATTTAACCCAAGGAATACAGATATAATCAACACCAATACAATTGATGTCACAGTGATGACTAAGATACATGCTACAATCCTTCATTCTCAGATGCAAAATCTAGTATGTGTTTTACAGCAAACGTCAGTTGGAAACTGAACGTCGATCACACATGCTTGATGTGCATGTCAATTTCATGAGAGTTACAATCTCAGGAGAAGTCTCACATAGCGTAAGAGTCCAAACATACCTTCAAGTGTTTCGACAAGTTCTTCACTACTCATTCTTAGAACTGAATTTACCAACAACAATCCCAGCCTATTCATTGCTGAACTGCATCCCATTGAAAGAATGGGTCACAGTTCCTCTCTCTAGACACTGTGGAACGACATTGAAGGCCCTTCCATCTTTTGGCGATTGTGAGGACAGGTGCTAGAAGCCTCTGCCCTCAGCCTTGTCCACGTGAGTTCTAATTCCTTTAGAACAACTATCTCAGGGTGGGAAAGATGGTTCCAATGCTAAGTGCCTATTGCATTGATTATGAATCAATGAAACTCTTTCTCCCTGGGGGTTGTCCCAGTTGGATTCCAAGCAGCACTGTCAGAGTGTTCCAGCTTCTCCACATGCTCCGCAGCCCTTGGGATGGTGAGTGATTGTCACGGTGGCTTCTGGGAGAGCTTCTTGGTTGTTGTTGAAGGTGTATTTGACGTGCATTTCCCCAGGGGAGGGACAGTGAACGCTTTTTGAAGTGGTTCTTTACATCCCCTTTGAGGAAATGTCTGCTCAAGTCTCTGGCTGGGTTTTGAACAGAATCATTTGTTTGTCCCATTGGAGTTTTGACAACTCTGTGTATTCTGAGTATGAGCAGTCCTTGCACGTATATGAGATTTGCAAATATTTTGTGCCCCAATCTCAAGGTTGCTCTTTGATACAAATCAAGAGCATCTGAGGCAGAGCAAAGGTTCAGGTGAGAGGACGGAGCATTTCTCCACCTCTCCAGCATGCGCAGCATCTCTCTCCTCCGAGATGCCGAGACATGTGTGCAGGGAGACACCATGAAAAAGCAGGTGTGCTTCATTCTGAATAGAGCGTCTCTGATTCCCGTCTGGTGCCTGAGGGTGCATGGCCCATGAGCCTTAGAAGAGACGTCTTCGGGCCTTGCACGTTGGCCTCCATAGAAACTTGTGGCAAATTCTGGGCTCCGGACTGGGTGATGGAGGTAGAGGTCTGAGGGCAGAGGTGGGCAGGGGCTCCAGGCCGTGGAGATCCAAGTGGAATTCTTCAGGCAGAGCCTGTCTCCAGGGACTAGGCTTGGGCATTTGGGATGAGCCCTGGGGGACGGCCGCTCTGTAGTCAGGTTTGAGGTAGAGGACACGCCAGGAAGAAGGGCTGACTCCATGCACAAGGTTTGCTGGGGGTCCCATCAGGGGCAGGAAGCCTTGGGGAGCCTCACCCTCTTCTACTGAAGGCGCCACACACACATTCTCTGCTCTCTGGGCTCTCACAGATCCATTTTCAATGTCAATCTCCCAGACAGTCTCTGTACTAGTGAGCAGGAGCCAGCGGGCATGGGCAGGGTACAAGAGATCCTTCAGGGACATCAAGAGTTGCTCAGGGACCACCAGGAGCTGCACATTGAGGAGGCTGAGTCGCAGGGCTCCCTGTGGGTCCAGCCCCAGGAACTCCTGCCCCAGGCGCAGGTGCAGGACCATTCCTGGTTCCAAGACCGCGATGATCATCTTCCTCTGGGGAAGCTGTGGGCCCTGGGGGAGAAAAGCCGTGGGTCAGTCATTGTCCTCTGAGGGTGGCTCAAACAGGGAGAGAGCAAGGCGGGGAGCTGCCAGTAACTTCCCCAGGCATAAATGAAACCCCGCAGGGACACCCAGAATTGGCACCTGTATTGACGCCCCTTGGGACGGTGATTTCCTGCAAGTCCCCTAGGGCCTGGAGCTCAGGCAGACCTGTCTCACCCACGCCCACCTAGGTGGTGTGACCTTACCTGGGGCAGCTCCAGGGGCAGCTGTGCAGGGTGGTGGGGAGCTGGCTGTACCGGAGCTGGTTCTGCACCTGTGGAGAGAGCAGAGTGTGCAGGTGAAAGCCCTTGTCATGCAGGATGCCCTTGAGGGTTCAAGGTGCCACCGTGAGAAAGACCAAATACAGAAGAAGCCAGGTACAGGACACCCAGCCACGGAGCTGCAGGAGGAAGCTCCCGACACTCTGGACAGCACAGCTGCTCGCCTCATGACGTGACGGGACACTGGCTTGGTAGCAGGGGACTCAGGATGAAAAAGAGAAGATGCCTCACCTGGATGAGGACCCAGCTCCTCCACTTTCTGGCGTTTTGGGGCATTTGATGGCGTGCCGCTGGAGCTGTAGGACAGAGAGACACAGTCAGATTTCGGGCAGTTCCCTAACGTCCAATTCCCTGAATCCCCACAAATTCACTCCACTTCCCTGCCTTTCATTCAAGGCCACAGACTCGTCATCCACTTCCTGTGAGACCTGCTCCCAATCTGTCCTAACTCCCAGCTGTTCTTGTTCTCACCCCATCTACCTGAGCTTCCCTGGGTGAAGAAAAGGCAGGGAAGGAGGGTCGGTGCCCACAGGGAGCAGTTGACCCTTTCAGGAGCTCATGCAGATGAGAGTTGGAAAACTCTCCTTGGGTGTGAGGAGCTGGAGAAAGATGTTGAGATCCCGGAGAGGTGGCACCTCTGTCTACACAGGTAACAAAGGAATGGGGTCTTAGGATTCGAATCACAGCAGGAGAAGAGGAAGGAATTTGTCGGGCATGACGGCATGCGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGTCGGAGGATTGCTTGAGTCCAGGAGTTTGAGAGCAGCCTGGGCAACATGGTGAAAGCTAGTCTCCACTAAAAATACTAAACATTAGTGGGTCATGGTGGTGCATGCCTGTGGTCTCACCTACTCAGGAGGCTCAGGTGGGAGGATCACCTGCGACTCAGAGGTGGAGCCCGCAGTCAGCTAAAATCACGCCACTGCACTCCAGTGTGGACCATCGGAGTGAGACGCTGTCTCAGTAAAATAAATCAGTAAATAAGACAAATAGAAAAATTAAAAATGAAAAAAGGAGGAAACTGTTTTATTTTTCCTAGTAGATCTTGAAACTCTCACATCATGTCCTACAATCTCCCTTCTTGCAGAACACAGAACCCATTCCCTGTGGAGCTGGTTGGGTGGATTGAAAGTGGGGCTGCCCTGAGATATGTGTGTGGTTGCGATGTAGAAGCCTTCCCAGCACCCTGTGATGACTTACGGGCACCTCACTTCCCTCTGGCCCCAAATTCAAAACATCCAATCTCATGGCAGGTTCATGCACCCTTTTCCCTTCCCCTCTCTCCAACACACACCCACACATCCCACAGGCAGGTCACCCCGCAGGCGTCCCCAGCACATAGCAAAGCTCACCCGCTCTCTCCTGCGTGGTCGCTCTTGGATTCGGTGCAGGAATCACTGGGGCTTCTTGGGCGCCGGGAACCTTTCATGGTGAAAATTTCCAGGGTTCTCCAAGTCAGCCACTGCCAGTGTTTGTCTGTCTCCTGCAAAGATTTCTTCTTGGCTCCCGAATCCTTTAGTTCCTTTGAGAGAGTGGTGTCAGCCCCAAAGCTGCTCCCGAAGGCTTGGGTTGTGTAGCGACGGGGCTGTGGCCAGCGGCAGGTGGACGAGGCTCCGACAACTGAGCTCTTGGGGGAATCTTGTACACTGTCAGCAGGGGGTGGAGCCAGGGGATTTGTCAGCAGGAACTGATGTGATTGGCTGTTCCTGGTATGACAACGGGAGGGGCCCTCATGGAGGATTGGGGCGTAACTCAATCCATAGATGACCGATCAACAGAACCTGCCTAATCCCATCAAGAGCCAACCTGTTTCCTGTCCCCTCCCATCCTCTAGGTCTTGCCTAATAATGATAGACACTTTCTGTCATACCCAATTCATCCATCGCTGAAATAGTTTTTCATGTGTGCCTTTTATATTTTCATGCAATAAAAATATGTTAATTTTCACGGTGGCCATCCTGGGGAATGCTATGTACATGAAATGAAGTGTCAAAGGAGCAGAAGCAGAAGGAAATTCACAAGCTTCTCTGAGCGTCTCTGCTTCAATTCCTGCCATGTTTCCTAAATATGTTGGCTTCTTTCTTCCTACCCAAGTAAGAAGGTGCTTCAGAAGATCAATCTTATGGCATTTGACAAACCCTGCTGAGAATTTCAGGATGACACGAAGGAACCTTTGATTGGATTTGTGGATGTGCCTGTGAAAGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGCCAGGATGAAGTGGCTGTTCCTGGGGTGGAGACCCTTCTTTCTCTTGAGAATGTTCATTGCTGTTGACTCATTGTGGGTTTTGGAGATATTTTCTCTCTTTCTTTCGTTCTTTCAGACATTTTTTGCTTTCTCCCTCCCTGGATCCTAACCCCCCTCCATCCCCCCCCTCACTCCCTCCCTCCTTGTTTCCATCCTTCCTCCCTCCCTTCCCTCTTTCCTTCCTTCCTGCCTTCTTCCCTTCCCCTTCCCCTCTTCCTTCTGTCCTTCCTTCCTGTGTGTAAAAGAAAAATTGGTGAATAGAAGAATAATTGAATAACTGCCTGAGTCACTTATACATTTCTCATCTCACTCTGGGGACACAGAAGACCGTGTTGTACTCATCTCCTCGATTTTAAAAACAGTCATTCTAAAATCAAGGATTCTAGATGTATCACTTCTAGGCGAAATCTTGAAAGAGAATGTGTAAGAGTTTCATGTGCTCTTCATCTCTATGATCACAATTGAAGAAGGCAGGAGGTTGAGATGCTGCATCGCCAAGATCGTGGTGATTCCATTATCATTACCCTTGTAACTTGTGAGCATCCTTACTGCCAGCAATCATTATTAGATATGGAATCTGATATAGGAGTTCATATTTACTGTATGAATATCTTGGTGTGGGAGTGTTGGCTCATGCCTGTAATCCCAGTGCTTTGGGAGGCAGAGGCAGGAGGCTCGCTTGAACCCAGGAGTTCGAGACAAGCCGGAAGAGCATGGCGAGACCCTCGTCTCTACAAAAATGTAAAAATCAGCCAAGTGTGCTGGTAGGTGCCTGTAGTCTCAGCTCCTTAGGAGGCTGAAGTGTTAGGATCGCTTTCGCCCGGGATGTAATGGCTACAGGGAGTCGAGATCTTGCCACTGAACTTCAGCCTGGGCAACAGAGCAAGACTCTCTCTCAAAAATAAAATGCTTTTTCCTTTAGGCTTAAATTCTAACACTCAAACCTCCAAAGCGGAGGTATTAGGAGGTGGGGCCCTTGGGAGATGATGAGATTATGAAAGTGGAACCCTCGTAAATGGGATTAGTGCCCTTCTGAAAGTGACGGAAGAGAGCTCGCCAGCACCTTCCATGTGGGGAGACAGGGAGGATATGACAGTCTCCAACCTGGAAGAGGGTCCTCACCAGACCCCGATCATGCTGGCACTCTCATCGTGGACTTCCGGCCTCCAGAACTCTGATCAACAAATGTGTGTTCTTAAAGAAAAAAAAAGTGTGGAAAGCAATGTTAATGTTCCCAATCACTTTGAGTACATTCTTTCCTTAACTATGTCTTAATGCATAGTTGTGTTGGATGGCCTAGTTTGTAATGTTAGAATATGCATGTTAGTGAATTAATAAATACAGCAGTAAAGAATAGAGTTGTGGTTGGGAATGGAGTCTCACGCCTGTAATCCCAGCACAATGGCATGCCGAGGCGGGTCAATCACCTGTAGTCGGGAGGTGGAGATCACCCTGACCAACATGGAGAAACCCGACTCTACTAAAAATACAAATCAGCCTGTCATAGAGGCACATGCCTTTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCTAGGAGGCAGAGGTTGCGGTGAGCCGAGATCGCGCCATTGCACTCCAGCCTGGGCAACAAAAGCTAAATTCTATATCAAAAAATTAAAAAAAAAAAAAAGAAGGCTGTTTGTTGACCATTTGAGTGGCCAGTCTTGGTGCTTCCTGGTGGGCGAGGAGAGCCCTGCCCCATTCCTACCCATTCCAGTAGTCATGGCATAAGAGTGATTCTCACTTTCTGCTATAGCCTCCTTATCCATTGGCTGAAATGATTCTTTTTTAATGTGTCTTATTAATGCTTCCATAGCAAAAAATATTGAATTGACTTTTATAGGGACTCTTTCGGGGATTGTTACCCATCATTCCATAATTTGTTTGTACTCCTAGAAAAGGGAAGTATGCCGAGCACAGTGGATATTTCGTCTCAAATAATAAATAAATAACCAAATAGAAAAGAAAGAAAAGGAAGTAAAGGGAAATATACAAATATACAAGGTGTTAGGAGAGAGTTGCTAATCGTGATTCCCCCTTAATTGTCCAAACAGACCACCTCTGGGGATCTATTCGTAAAAGACTCGTTAGAAGTGCAGACTCATGCATTTGAGAATCACTCAGGGAAATCTGAAGATGACCTGTGGTGGGGGTGTAAATGGATACTTAAATGTGTCTTGTGATTGTGTGAGAGTGTGACTGTGTGTTTGTGTGTGTGCTGTCATCTGTGGAGTGGGGGATCCTCTTTTGCCTTGAGAAAGCTCATCTCTGTCCACTTACTCTGGGCTCTACCATCTGTGCCTTGTATCCAGTAGAAATAAAACAGTTTGCGGCAGAAATGGAGTTTTATTTTATTTCACTTTACTTTTTATTAGGATTATTTGTAGACCGGGTCTCACTCTGTCACTCAGGCTGGAGTGCAATGGCACGATCTCAGATCACTGCAACCTGTGCCTCCTGCACTGAAGCCATCCTCCCACCTCAGCCTCTGGAGTGGGGAGATCCCACACCTGTGTAATTTTTGCATTTTTTCTAGAGATGGGGTTTCCTCATGCTGCCCGGGCTGGTTTCCAACGCCTGGGCTCAAGTGATCCACCCGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGTGGGAGCTACTGTGCCCGGCCAGAGATGGAGATTTTTGTTCTTCTTTTGATGAGACGGAACCTCGCACCGTGGCCCAGGCTGGAGTGCAGTGGAGTGACCTCGGCTCACTGCAAGCTCTGCCTCCTGGGGTCATGCCATTCTCCTGCCTCAGCCTCCCAAAGAGCTGGGACTACAGGCGCCCGACACCACGCCCAGCTAAGGTTTTTGCA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TTATTTTTTTTTTTTTTGTAGGGACGGGCTTTCACCGTGTTAGCCAGGACGGTCTCGATCTCCTGCCCTCGTGATGCACCCGCCTGAGCCTCCCGAAGTGCTCGGATTACAGGCATGAGCCACCATGCACGGCCCAGAAATGGAGATTTTTGAGCAAACACATTAAAGAAAAGAAACGCAAATAGACGAAACTCATTTTAACATTTTTATTTAACCCAAGGAATACAGATATAATCAACACCAATACAATTGATGTCACAGTGATGACTAAGATACATGCTACAATCCTTCATTCTCAGATGCAAAATCTAGTATGTGTTTTACAGCAAACGTCAGTTGGAAACTGAACGTCGATCACACATGCTTGATGTGCATGTCAATTTCATGAGAGTTACAATCTCAGGAGAAGTCTCACATAGCGTAAGAGTCCAAACATACCTTCAAGTGTTTCGACAAGTTCTTCACTACTCATTCTTAGAACTGAATTTACCAACAACAATCCCAGCCTATTCATTGCTGAACTGCATCCCATTGAAAGAATGGGTCACAGTTCCTCTCTCTAGACACTGTGGAACGACATTGAAGGCCCTTCCATCTTTTGGCGATTGTGAGGACAGGTGCTAGAAGCCTCTGCCCTCAGCCTTGTCCACGTGAGTTCTAATTCCTTTAGAACAACTATCTCAGGGTGGGAAAGATGGTTCCAATGCTAAGTGCCTATTGCATTGATTATGAATCAATGAAACTCTTTCTCCCTGGGGGTTGTCCCAGTTGGATTCCAAGCAGCACTGTCAGAGTGTTCCAGCTTCTCCACATGCTCCGCAGCCCTTGGGATGGTGAGTGATTGTCACGGTGGCTTCTGGGAGAGCTTCTTGGTTGTTGTTGAAGGTGTATTTGACGTGCATTTCCCCAGGGGAGGGACAGTGAACGCTTTTTGAAGTGGTTCTTTACATCCCCTTTGAGGAAATGTCTGCTCAAGTCTCTGGCTGGGTTTTGAACAGAATCATTTGTTTGTCCCATTGGAGTTTTGACAACTCTGTGTATTCTGAGTATGAGCAGTCCTTGCACGTATATGAGATTTGCAAATATTTTGTGCCCCAATCTCAAGGTTGCTCTTTGATACAAATCAAGAGCATCTGAGGCAGAGCAAAGGTTCAGGTGAGAGGACGGAGCATTTCTCCACCTCTCCAGCATGCGCAGCATCTCTCTCCTCCGAGATGCCGAGACATGTGTGCAGGGAGACACCATGAAAAAGCAGGTGTGCTTCATTCTGAATAGAGCGTCTCTGATTCCCGTCTGGTGCCTGAGGGTGCATGGCCCATGAGCCTTAGAAGAGACGTCTTCGGGCCTTGCACGTTGGCCTCCATAGAAACTTGTGGCAAATTCTGGGCTCCGGACTGGGTGATGGAGGTAGAGGTCTGAGGGCAGAGGTGGGCAGGGGCTCCAGGCCGTGGAGATCCAAGTGGAATTCTTCAGGCAGAGCCTGTCTCCAGGGACTAGGCTTGGGCATTTGGGATGAGCCCTGGGGGACGGCCGCTCTGTAGTCAGGTTTGAGGTAGAGGACACGCCAGGAAGAAGGGCTGACTCCATGCACAAGGTTTGCTGGGGGTCCCATCAGGGGCAGGAAGCCTTGGGGAGCCTCACCCTCTTCTACTGAAGGCGCCACACACACATTCTCTGCTCTCTGGGCTCTCACAGATCCATTTTCAATGTCAATCTCCCAGACAGTCTCTGTACTAGTGAGCAGGAGCCAGCGGGCATGGGCAGGGTACAAGAGATCCTTCAGGGACATCAAGAGTTGCTCAGGGACCACCAGGAGCTGCACATTGAGGAGGCTGAGTCGCAGGGCTCCCTGTGGGTCCAGCCCCAGGAACTCCTGCCCCAGGCGCAGGTGCAGGACCATTCCTGGTTCCAAGACCGCGATGATCATCTTCCTCTGGGGAAGCTGTGGGCCCTGGGGGAGAAAAGCCGTGGGTCAGTCATTGTCCTCTGAGGGTGGCTCAAACAGGGAGAGAGCAAGGCGGGGAGCTGCCAGTAACTTCCCCAGGCATAAATGAAACCCCGCAGGGACACCCAGAATTGGCACCTGTATTGACGCCCCTTGGGACGGTGATTTCCTGCAAGTCCCCTAGGGCCTGGAGCTCAGGCAGACCTGTCTCACCCACGCCCACCTAGGTGGTGTGACCTTACCTGGGGCAGCTCCAGGGGCAGCTGTGCAGGGTGGTGGGGAGCTGGCTGTACCGGAGCTGGTTCTGCACCTGTGGAGAGAGCAGAGTGTGCAGGTGAAAGCCCTTGTCATGCAGGATGCCCTTGAGGGTTCAAGGTGCCACCGTGAGAAAGACCAAATACAGAAGAAGCCAGGTACAGGACACCCAGCCACGGAGCTGCAGGAGGAAGCTCCCGACACTCTGGACAGCACAGCTGCTCGCCTCATGACGTGACGGGACACTGGCTTGGTAGCAGGGGACTCAGGATGAAAAAGAGAAGATGCCTCACCTGGATGAGGACCCAGCTCCTCCACTTTCTGGCGTTTTGGGGCATTTGATGGCGTGCCGCTGGAGCTGTAGGACAGAGAGACACAGTCAGATTTCGGGCAGTTCCCTAACGTCCAATTCCCTGAATCCCCACAAATTCACTCCACTTCCCTGCCTTTCATTCAAGGCCACAGACTCGTCATCCACTTCCTGTGAGACCTGCTCCCAATCTGTCCTAACTCCCAGCTGTTCTTGTTCTCACCCCATCTACCTGAGCTTCCCTGGGTGAAGAAAAGGCAGGGAAGGAGGGTCGGTGCCCACAGGGAGCAGTTGACCCTTTCAGGAGCTCATGCAGATGAGAGTTGGAAAACTCTCCTTGGGTGTGAGGAGCTGGAGAAAGATGTTGAGATCCCGGAGAGGTGGCACCTCTGTCTACACAGGTAACAAAGGAATGGGGTCTTAGGATTCGAATCACAGCAGGAGAAGAGGAAGGAATTTGTCGGGCATGACGGCATGCGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGTCGGAGGATTGCTTGAGTCCAGGAGTTTGAGAGCAGCCTGGGCAACATGGTGAAAGCTAGTCTCCACTAAAAATACTAAACATTAGTGGGTCATGGTGGTGCATGCCTGTGGTCTCACCTACTCAGGAGGCTCAGGTGGGAGGATCACCTGCGACTCAGAGGTGGAGCCCGCAGTCAGCTAAAATCACGCCACTGCACTCCAGTGTGGACCATCGGAGTGAGACGCTGTCTCAGTAAAATAAATCAGTAAATAAGACAAATAGAAAAATTAAAAATGAAAAAAGGAGGAAACTGTTTTATTTTTCCTAGTAGATCTTGAAACTCTCACATCATGTCCTACAATCTCCCTTCTTGCAGAACACAGAACCCATTCCCTGTGGAGCTGGTTGGGTGGATTGAAAGTGGGGCTGCCCTGAGATATGTGTGTGGTTGCGATGTAGAAGCCTTCCCAGCACCCTGTGATGACTTACGGGCACCTCACTTCCCTCTGGCCCCAAATTCAAAACATCCAATCTCATGGCAGGTTCATGCACCCTTTTCCCTTCCCCTCTCTCCAACACACACCCACACATCCCACAGGCAGGTCACCCCGCAGGCGTCCCCAGCACATAGCAAAGCTCACCCGCTCTCTCCTGCGTGGTCGCTCTTGGATTCGGTGCAGGAATCACTGGGGCTTCTTGGGCGCCGGGAACCTTTCATGGTGAAAATTTCCAGGGTTCTCCAAGTCAGCCACTGCCAGTGTTTGTCTGTCTCCTGCAAAGATTTCTTCTTGGCTCCCGAATCCTTTAGTTCCTTTGAGAGAGTGGTGTCAGCCCCAAAGCTGCTCCCGAAGGCTTGGGTTGTGTAGCGACGGGGCTGTGGCCAGCGGCAGGTGGACGAGGCTCCGACAACTGAGCTCTTGGGGGAATCTTGTACACTGTCAGCAGGGGGTGGAGCCAGGGGATTTGTCAGCAGGAACTGATGTGATTGGCTGTTCCTGGTATGACAACGGGAGGGGCCCTCATGGAGGATTGGGGCGTAACTCAATCCATAGATGACCGATCAACAGAACCTGCCTAATCCCATCAAGAGCCAACCTGTTTCCTGTCCCCTCCCATCCTCTAGGTCTTGCCTAATAATGATAGACACTTTCTGTCATACCCAATTCATCCATCGCTGAAATAGTTTTTCATGTGTGCCTTTTATATTTTCATGCAATAAAAATATGTTAATTTTCACGGTGGCCATCCTGGGGAATGCTATGTACATGAAATGAAGTGTCAAAGGAGCAGAAGCAGAAGGAAATTCACAAGCTTCTCTGAGCGTCTCTGCTTCAATTCCTGCCATGTTTCCTAAATATGTTGGCTTCTTTCTTCCTACCCAAGTAAGAAGGTGCTTCAGAAGATCAATCTTATGGCATTTGACAAACCCTGCTGAGAATTTCAGGATGACACGAAGGAACCTTTGATTGGATTTGTGGATGTGCCTGTGAAAGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGCCAGGATGAAGTGGCTGTTCCTGGGGTGGAGACCCTTCTTTCTCTTGAGAATGTTCATTGCTGTTGACTCATTGTGGGTTTTGGAGATATTTTCTCTCTTTCTTTCGTTCTTTCAGACATTTTTTGCTTTCTCCCTCCCTGGATCCTAACCCCCCTCCATCCCCCCCCTCACTCCCTCCCTCCTTGTTTCCATCCTTCCTCCCTCCCTTCCCTCTTTCCTTCCTTCCTGCCTTCTTCCCTTCCCCTTCCCCTCTTCCTTCTGTCCTTCCTTCCTGTGTGTAAAAGAAAAATTGGTGAATAGAAGAATAATTGAATAACTGCCTGAGTCACTTATACATTTCTCATCTCACTCTGGGGACACAGAAGACCGTGTTGTACTCATCTCCTCGATTTTAAAAACAGTCATTCTAAAATCAAGGATTCTAGATGTATCACTTCTAGGCGAAATCTTGAAAGAGAATGTGTAAGAGTTTCATGTGCTCTTCATCTCTATGATCACAATTGAAGAAGGCAGGAGGTTGAGATGCTGCATCGCCAAGATCGTGGTGATTCCATTATCATTACCCTTGTAACTTGTGAGCATCCTTACTGCCAGCAATCATTATTAGATATGGAATCTGATATAGGAGTTCATATTTACTGTATGAATATCTTGGTGTGGGAGTGTTGGCTCATGCCTGTAATCCCAGTGCTTTGGGAGGCAGAGGCAGGAGGCTCGCTTGAACCCAGGAGTTCGAGACAAGCCGGAAGAGCATGGCGAGACCCTCGTCTCTACAAAAATGTAAAAATCAGCCAAGTGTGCTGGTAGGTGCCTGTAGTCTCAGCTCCTTAGGAGGCTGAAGTGTTAGGATCGCTTTCGCCCGGGATGTAATGGCTACAGGGAGTCGAGATCTTGCCACTGAACTTCAGCCTGGGCAACAGAGCAAGACTCTCTCTCAAAAATAAAATGCTTTTTCCTTTAGGCTTAAATTCTAACACTCAAACCTCCAAAGCGGAGGTATTAGGAGGTGGGGCCCTTGGGAGATGATGAGATTATGAAAGTGGAACCCTCGTAAATGGGATTAGTGCCCTTCTGAAAGTGACGGAAGAGAGCTCGCCAGCACCTTCCATGTGGGGAGACAGGGAGGATATGACAGTCTCCAACCTGGAAGAGGGTCCTCACCAGACCCCGATCATGCTGGCACTCTCATCGTGGACTTCCGGCCTCCAGAACTCTGATCAACAAATGTGTGTTCTTAAAGAAAAAAAAAGTGTGGAAAGCAATGTTAATGTTCCCAATCACTTTGAGTACATTCTTTCCTTAACTATGTCTTAATGCATAGTTGTGTTGGATGGCCTAGTTTGTAATGTTAGAATATGCATGTTAGTGAATTAATAAATACAGCAGTAAAGAATAGAGTTGTGGTTGGGAATGGAGTCTCACGCCTGTAATCCCAGCACAATGGCATGCCGAGGCGGGTCAATCACCTGTAGTCGGGAGGTGGAGATCACCCTGACCAACATGGAGAAACCCGACTCTACTAAAAATACAAATCAGCCTGTCATAGAGGCACATGCCTTTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCTAGGAGGCAGAGGTTGCGGTGAGCCGAGATCGCGCCATTGCACTCCAGCCTGGGCAACAAAAGCTAAATTCTATATCAAAAAATTAAAAAAAAAAAAAAGAAGGCTGTTTGTTGACCATTTGAGTGGCCAGTCTTGGTGCTTCCTGGTGGGCGAGGAGAGCCCTGCCCCATTCCTACCCATTCCAGTAGTCATGGCATAAGAGTGATTCTCACTTTCTGCTATAGCCTCCTTATCCATTGGCTGAAATGATTCTTTTTTAATGTGTCTTATTAATGCTTCCATAGCAAAAAATATTGAATTGACTTTTATAGGGACTCTTTCGGGGATTGTTACCCATCATTCCATAATTTGTTTGTACTCCTAGAAAAGGGAAGTATGCCGAGCACAGTGGATATTTCGTCTCAAATAATAAATAAATAACCAAATAGAAAAGAAAGAAAAGGAAGTAAAGGGAAATATACAAATATACAAGGTGTTAGGAGAGAGTTGCTAATCGTGATTCCCCCTTAATTGTCCAAACAGACCACCTCTGGGGATCTATTCGTAAAAGACTCGTTAGAAGTGCAGACTCATGCATTTGAGAATCACTCAGGGAAATCTGAAGATGACCTGTGGTGGGGGTGTAAATGGATACTTAAATGTGTCTTGTGATTGTGTGAGAGTGTGACTGTGTGTTTGTGTGTGTGCTGTCATCTGTGGAGTGGGGGATCCTCTTTTGCCTTGAGAAAGCTCATCTCTGTCCACTTACTCTGGGCTCTACCATCTGTGCCTTGTATCCAGTAGAAATAAAACAGTTTGCGGCAGAAATGGAGTTTTATTTTATTTCACTTTACTTTTTATTAGGATTATTTGTAGACCGGGTCTCACTCTGTCACTCAGGCTGGAGTGCAATGGCACGATCTCAGATCACTGCAACCTGTGCCTCCTGCACTGAAGCCATCCTCCCACCTCAGCCTCTGGAGTGGGGAGATCCCACACCTGTGTAATTTTTGCATTTTTTCTAGAGATGGGGTTTCCTCATGCTGCCCGGGCTGGTTTCCAACGCCTGGGCTCAAGTGATCCACCCGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGTGGGAGCTACTGTGCCCGGCCAGAGATGGAGATTTTTGTTCTTCTTTTGATGAGACGGAACCTCGCACCGTGGCCCAGGCTGGAGTGCAGTGGAGTGACCTCGGCTCACTGCAAGCTCTGCCTCCTGGGGTCATGCCATTCTCCTGCCTCAGCCTCCCAAAGAGCTGGGACTACAGGCGCCCGACACCACGCCCAGCTAAGGTTTTTGCA"	"TTATTTTTTTTTTTTTTGTAGGGACGGGCTTTCACCGTGTTAGCCAGGACGGTCTCGATCTCCTGCCCTCGTGATGCACCCGCCTGAGCCTCCCGAAGTGCTCGGATTACAGGCATGAGCCACCATGCACGGCCCAGAAATGGAGATTTTTGAGCAAACACATTAAAGAAAAGAAACGCAAATAGACGAAACTCATTTTAACATTTTTATTTAACCCAAGGAATACAGATATAATCAACACCAATACAATTGATGTCACAGTGATGACTAAGATACATGCTACAATCCTTCATTCTCAGATGCAAAATCTAGTATGTGTTTTACAGCAAACGTCAGTTGGAAACTGAACGTCGATCACACATGCTTGATGTGCATGTCAATTTCATGAGAGTTACAATCTCAGGAGAAGTCTCACATAGCGTAAGAGTCCAAACATACCTTCAAGTGTTTCGACAAGTTCTTCACTACTCATTCTTAGAACTGAATTTACCAACAACAATCCCAGCCTATTCATTGCTGAACTGCATCCCATTGAAAGAATGGGTCACAGTTCCTCTCTCTAGACACTGTGGAACGACATTGAAGGCCCTTCCATCTTTTGGCGATTGTGAGGACAGGTGCTAGAAGCCTCTGCCCTCAGCCTTGTCCACGTGAGTTCTAATTCCTTTAGAACAACTATCTCAGGGTGGGAAAGATGGTTCCAATGCTAAGTGCCTATTGCATTGATTATGAATCAATGAAACTCTTTCTCCCTGGGGGTTGTCCCAGTTGGATTCCAAGCAGCACTGTCAGAGTGTTCCAGCTTCTCCACATGCTCCGCAGCCCTTGGGATGGTGAGTGATTGTCACGGTGGCTTCTGGGAGAGCTTCTTGGTTGTTGTTGAAGGTGTATTTGACGTGCATTTCCCCAGGGGAGGGACAGTGAACGCTTTTTGAAGTGGTTCTTTACATCCCCTTTGAGGAAATGTCTGCTCAAGTCTCTGGCTGGGTTTTGAACAGAATCATTTGTTTGTCCCATTGGAGTTTTGACAACTCTGTGTATTCTGAGTATGAGCAGTCCTTGCACGTATATGAGATTTGCAAATATTTTGTGCCCCAATCTCAAGGTTGCTCTTTGATACAAATCAAGAGCATCTGAGGCAGAGCAAAGGTTCAGGTGAGAGGACGGAGCATTTCTCCACCTCTCCAGCATGCGCAGCATCTCTCTCCTCCGAGATGCCGAGACATGTGTGCAGGGAGACACCATGAAAAAGCAGGTGTGCTTCATTCTGAATAGAGCGTCTCTGATTCCCGTCTGGTGCCTGAGGGTGCATGGCCCATGAGCCTTAGAAGAGACGTCTTCGGGCCTTGCACGTTGGCCTCCATAGAAACTTGTGGCAAATTCTGGGCTCCGGACTGGGTGATGGAGGTAGAGGTCTGAGGGCAGAGGTGGGCAGGGGCTCCAGGCCGTGGAGATCCAAGTGGAATTCTTCAGGCAGAGCCTGTCTCCAGGGACTAGGCTTGGGCATTTGGGATGAGCCCTGGGGGACGGCCGCTCTGTAGTCAGGTTTGAGGTAGAGGACACGCCAGGAAGAAGGGCTGACTCCATGCACAAGGTTTGCTGGGGGTCCCATCAGGGGCAGGAAGCCTTGGGGAGCCTCACCCTCTTCTACTGAAGGCGCCACACACACATTCTCTGCTCTCTGGGCTCTCACAGATCCATTTTCAATGTCAATCTCCCAGACAGTCTCTGTACTAGTGAGCAGGAGCCAGCGGGCATGGGCAGGGTACAAGAGATCCTTCAGGGACATCAAGAGTTGCTCAGGGACCACCAGGAGCTGCACATTGAGGAGGCTGAGTCGCAGGGCTCCCTGTGGGTCCAGCCCCAGGAACTCCTGCCCCAGGCGCAGGTGCAGGACCATTCCTGGTTCCAAGACCGCGATGATCATCTTCCTCTGGGGAAGCTGTGGGCCCTGGGGGAGAAAAGCCGTGGGTCAGTCATTGTCCTCTGAGGGTGGCTCAAACAGGGAGAGAGCAAGGCGGGGAGCTGCCAGTAACTTCCCCAGGCATAAATGAAACCCCGCAGGGACACCCAGAATTGGCACCTGTATTGACGCCCCTTGGGACGGTGATTTCCTGCAAGTCCCCTAGGGCCTGGAGCTCAGGCAGACCTGTCTCACCCACGCCCACCTAGGTGGTGTGACCTTACCTGGGGCAGCTCCAGGGGCAGCTGTGCAGGGTGGTGGGGAGCTGGCTGTACCGGAGCTGGTTCTGCACCTGTGGAGAGAGCAGAGTGTGCAGGTGAAAGCCCTTGTCATGCAGGATGCCCTTGAGGGTTCAAGGTGCCACCGTGAGAAAGACCAAATACAGAAGAAGCCAGGTACAGGACACCCAGCCACGGAGCTGCAGGAGGAAGCTCCCGACACTCTGGACAGCACAGCTGCTCGCCTCATGACGTGACGGGACACTGGCTTGGTAGCAGGGGACTCAGGATGAAAAAGAGAAGATGCCTCACCTGGATGAGGACCCAGCTCCTCCACTTTCTGGCGTTTTGGGGCATTTGATGGCGTGCCGCTGGAGCTGTAGGACAGAGAGACACAGTCAGATTTCGGGCAGTTCCCTAACGTCCAATTCCCTGAATCCCCACAAATTCACTCCACTTCCCTGCCTTTCATTCAAGGCCACAGACTCGTCATCCACTTCCTGTGAGACCTGCTCCCAATCTGTCCTAACTCCCAGCTGTTCTTGTTCTCACCCCATCTACCTGAGCTTCCCTGGGTGAAGAAAAGGCAGGGAAGGAGGGTCGGTGCCCACAGGGAGCAGTTGACCCTTTCAGGAGCTCATGCAGATGAGAGTTGGAAAACTCTCCTTGGGTGTGAGGAGCTGGAGAAAGATGTTGAGATCCCGGAGAGGTGGCACCTCTGTCTACACAGGTAACAAAGGAATGGGGTCTTAGGATTCGAATCACAGCAGGAGAAGAGGAAGGAATTTGTCGGGCATGACGGCATGCGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGTCGGAGGATTGCTTGAGTCCAGGAGTTTGAGAGCAGCCTGGGCAACATGGTGAAAGCTAGTCTCCACTAAAAATACTAAACATTAGTGGGTCATGGTGGTGCATGCCTGTGGTCTCACCTACTCAGGAGGCTCAGGTGGGAGGATCACCTGCGACTCAGAGGTGGAGCCCGCAGTCAGCTAAAATCACGCCACTGCACTCCAGTGTGGACCATCGGAGTGAGACGCTGTCTCAGTAAAATAAATCAGTAAATAAGACAAATAGAAAAATTAAAAATGAAAAAAGGAGGAAACTGTTTTATTTTTCCTAGTAGATCTTGAAACTCTCACATCATGTCCTACAATCTCCCTTCTTGCAGAACACAGAACCCATTCCCTGTGGAGCTGGTTGGGTGGATTGAAAGTGGGGCTGCCCTGAGATATGTGTGTGGTTGCGATGTAGAAGCCTTCCCAGCACCCTGTGATGACTTACGGGCACCTCACTTCCCTCTGGCCCCAAATTCAAAACATCCAATCTCATGGCAGGTTCATGCACCCTTTTCCCTTCCCCTCTCTCCAACACACACCCACACATCCCACAGGCAGGTCACCCCGCAGGCGTCCCCAGCACATAGCAAAGCTCACCCGCTCTCTCCTGCGTGGTCGCTCTTGGATTCGGTGCAGGAATCACTGGGGCTTCTTGGGCGCCGGGAACCTTTCATGGTGAAAATTTCCAGGGTTCTCCAAGTCAGCCACTGCCAGTGTTTGTCTGTCTCCTGCAAAGATTTCTTCTTGGCTCCCGAATCCTTTAGTTCCTTTGAGAGAGTGGTGTCAGCCCCAAAGCTGCTCCCGAAGGCTTGGGTTGTGTAGCGACGGGGCTGTGGCCAGCGGCAGGTGGACGAGGCTCCGACAACTGAGCTCTTGGGGGAATCTTGTACACTGTCAGCAGGGGGTGGAGCCAGGGGATTTGTCAGCAGGAACTGATGTGATTGGCTGTTCCTGGTATGACAACGGGAGGGGCCCTCATGGAGGATTGGGGCGTAACTCAATCCATAGATGACCGATCAACAGAACCTGCCTAATCCCATCAAGAGCCAACCTGTTTCCTGTCCCCTCCCATCCTCTAGGTCTTGCCTAATAATGATAGACACTTTCTGTCATACCCAATTCATCCATCGCTGAAATAGTTTTTCATGTGTGCCTTTTATATTTTCATGCAATAAAAATATGTTAATTTTCACGGTGGCCATCCTGGGGAATGCTATGTACATGAAATGAAGTGTCAAAGGAGCAGAAGCAGAAGGAAATTCACAAGCTTCTCTGAGCGTCTCTGCTTCAATTCCTGCCATGTTTCCTAAATATGTTGGCTTCTTTCTTCCTACCCAAGTAAGAAGGTGCTTCAGAAGATCAATCTTATGGCATTTGACAAACCCTGCTGAGAATTTCAGGATGACACGAAGGAACCTTTGATTGGATTTGTGGATGTGCCTGTGAAAGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGCCAGGATGAAGTGGCTGTTCCTGGGGTGGAGACCCTTCTTTCTCTTGAGAATGTTCATTGCTGTTGACTCATTGTGGGTTTTGGAGATATTTTCTCTCTTTCTTTCGTTCTTTCAGACATTTTTTGCTTTCTCCCTCCCTGGATCCTAACCCCCCTCCATCCCCCCCCTCACTCCCTCCCTCCTTGTTTCCATCCTTCCTCCCTCCCTTCCCTCTTTCCTTCCTTCCTGCCTTCTTCCCTTCCCCTTCCCCTCTTCCTTCTGTCCTTCCTTCCTGTGTGTAAAAGAAAAATTGGTGAATAGAAGAATAATTGAATAACTGCCTGAGTCACTTATACATTTCTCATCTCACTCTGGGGACACAGAAGACCGTGTTGTACTCATCTCCTCGATTTTAAAAACAGTCATTCTAAAATCAAGGATTCTAGATGTATCACTTCTAGGCGAAATCTTGAAAGAGAATGTGTAAGAGTTTCATGTGCTCTTCATCTCTATGATCACAATTGAAGAAGGCAGGAGGTTGAGATGCTGCATCGCCAAGATCGTGGTGATTCCATTATCATTACCCTTGTAACTTGTGAGCATCCTTACTGCCAGCAATCATTATTAGATATGGAATCTGATATAGGAGTTCATATTTACTGTATGAATATCTTGGTGTGGGAGTGTTGGCTCATGCCTGTAATCCCAGTGCTTTGGGAGGCAGAGGCAGGAGGCTCGCTTGAACCCAGGAGTTCGAGACAAGCCGGAAGAGCATGGCGAGACCCTCGTCTCTACAAAAATGTAAAAATCAGCCAAGTGTGCTGGTAGGTGCCTGTAGTCTCAGCTCCTTAGGAGGCTGAAGTGTTAGGATCGCTTTCGCCCGGGATGTAATGGCTACAGGGAGTCGAGATCTTGCCACTGAACTTCAGCCTGGGCAACAGAGCAAGACTCTCTCTCAAAAATAAAATGCTTTTTCCTTTAGGCTTAAATTCTAACACTCAAACCTCCAAAGCGGAGGTATTAGGAGGTGGGGCCCTTGGGAGATGATGAGATTATGAAAGTGGAACCCTCGTAAATGGGATTAGTGCCCTTCTGAAAGTGACGGAAGAGAGCTCGCCAGCACCTTCCATGTGGGGAGACAGGGAGGATATGACAGTCTCCAACCTGGAAGAGGGTCCTCACCAGACCCCGATCATGCTGGCACTCTCATCGTGGACTTCCGGCCTCCAGAACTCTGATCAACAAATGTGTGTTCTTAAAGAAAAAAAAAGTGTGGAAAGCAATGTTAATGTTCCCAATCACTTTGAGTACATTCTTTCCTTAACTATGTCTTAATGCATAGTTGTGTTGGATGGCCTAGTTTGTAATGTTAGAATATGCATGTTAGTGAATTAATAAATACAGCAGTAAAGAATAGAGTTGTGGTTGGGAATGGAGTCTCACGCCTGTAATCCCAGCACAATGGCATGCCGAGGCGGGTCAATCACCTGTAGTCGGGAGGTGGAGATCACCCTGACCAACATGGAGAAACCCGACTCTACTAAAAATACAAATCAGCCTGTCATAGAGGCACATGCCTTTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCTAGGAGGCAGAGGTTGCGGTGAGCCGAGATCGCGCCATTGCACTCCAGCCTGGGCAACAAAAGCTAAATTCTATATCAAAAAATTAAAAAAAAAAAAAAGAAGGCTGTTTGTTGACCATTTGAGTGGCCAGTCTTGGTGCTTCCTGGTGGGCGAGGAGAGCCCTGCCCCATTCCTACCCATTCCAGTAGTCATGGCATAAGAGTGATTCTCACTTTCTGCTATAGCCTCCTTATCCATTGGCTGAAATGATTCTTTTTTAATGTGTCTTATTAATGCTTCCATAGCAAAAAATATTGAATTGACTTTTATAGGGACTCTTTCGGGGATTGTTACCCATCATTCCATAATTTGTTTGTACTCCTAGAAAAGGGAAGTATGCCGAGCACAGTGGATATTTCGTCTCAAATAATAAATAAATAACCAAATAGAAAAGAAAGAAAAGGAAGTAAAGGGAAATATACAAATATACAAGGTGTTAGGAGAGAGTTGCTAATCGTGATTCCCCCTTAATTGTCCAAACAGACCACCTCTGGGGATCTATTCGTAAAAGACTCGTTAGAAGTGCAGACTCATGCATTTGAGAATCACTCAGGGAAATCTGAAGATGACCTGTGGTGGGGGTGTAAATGGATACTTAAATGTGTCTTGTGATTGTGTGAGAGTGTGACTGTGTGTTTGTGTGTGTGCTGTCATCTGTGGAGTGGGGGATCCTCTTTTGCCTTGAGAAAGCTCATCTCTGTCCACTTACTCTGGGCTCTACCATCTGTGCCTTGTATCCAGTAGAAATAAAACAGTTTGCGGCAGAAATGGAGTTTTATTTTATTTCACTTTACTTTTTATTAGGATTATTTGTAGACCGGGTCTCACTCTGTCACTCAGGCTGGAGTGCAATGGCACGATCTCAGATCACTGCAACCTGTGCCTCCTGCACTGAAGCCATCCTCCCACCTCAGCCTCTGGAGTGGGGAGATCCCACACCTGTGTAATTTTTGCATTTTTTCTAGAGATGGGGTTTCCTCATGCTGCCCGGGCTGGTTTCCAACGCCTGGGCTCAAGTGATCCACCCGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGTGGGAGCTACTGTGCCCGGCCAGAGATGGAGATTTTTGTTCTTCTTTTGATGAGACGGAACCTCGCACCGTGGCCCAGGCTGGAGTGCAGTGGAGTGACCTCGGCTCACTGCAAGCTCTGCCTCCTGGGGTCATGCCATTCTCCTGCCTCAGCCTCCCAAAGAGCTGGGACTACAGGCGCCCGACACCACGCCCAGCTAAGGTTTTTGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000600294"	""	13	"."	3	3	"."	0	"CTD-2557P19.4,downstream_gene_variant,,ENST00000600294,;"	"-"	"ENSG00000268922"	"ENST00000600294"	"Transcript"	"downstream_gene_variant"	"-/197"	""	""	""	""	""	"1"	"1326"	-1	"CTD-2557P19.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTTATTTTTTTTTTTTTTGTAGGGACGGGCTTTCACCGTGTTAGCCAGGACGGTCTCGATCTCCTGCCCTCGTGATGCACCCGCCTGAGCCTCCCGAAGTGCTCGGATTACAGGCATGAGCCACCATGCACGGCCCAGAAATGGAGATTTTTGAGCAAACACATTAAAGAAAAGAAACGCAAATAGACGAAACTCATTTTAACATTTTTATTTAACCCAAGGAATACAGATATAATCAACACCAATACAATTGATGTCACAGTGATGACTAAGATACATGCTACAATCCTTCATTCTCAGATGCAAAATCTAGTATGTGTTTTACAGCAAACGTCAGTTGGAAACTGAACGTCGATCACACATGCTTGATGTGCATGTCAATTTCATGAGAGTTACAATCTCAGGAGAAGTCTCACATAGCGTAAGAGTCCAAACATACCTTCAAGTGTTTCGACAAGTTCTTCACTACTCATTCTTAGAACTGAATTTACCAACAACAATCCCAGCCTATTCATTGCTGAACTGCATCCCATTGAAAGAATGGGTCACAGTTCCTCTCTCTAGACACTGTGGAACGACATTGAAGGCCCTTCCATCTTTTGGCGATTGTGAGGACAGGTGCTAGAAGCCTCTGCCCTCAGCCTTGTCCACGTGAGTTCTAATTCCTTTAGAACAACTATCTCAGGGTGGGAAAGATGGTTCCAATGCTAAGTGCCTATTGCATTGATTATGAATCAATGAAACTCTTTCTCCCTGGGGGTTGTCCCAGTTGGATTCCAAGCAGCACTGTCAGAGTGTTCCAGCTTCTCCACATGCTCCGCAGCCCTTGGGATGGTGAGTGATTGTCACGGTGGCTTCTGGGAGAGCTTCTTGGTTGTTGTTGAAGGTGTATTTGACGTGCATTTCCCCAGGGGAGGGACAGTGAACGCTTTTTGAAGTGGTTCTTTACATCCCCTTTGAGGAAATGTCTGCTCAAGTCTCTGGCTGGGTTTTGAACAGAATCATTTGTTTGTCCCATTGGAGTTTTGACAACTCTGTGTATTCTGAGTATGAGCAGTCCTTGCACGTATATGAGATTTGCAAATATTTTGTGCCCCAATCTCAAGGTTGCTCTTTGATACAAATCAAGAGCATCTGAGGCAGAGCAAAGGTTCAGGTGAGAGGACGGAGCATTTCTCCACCTCTCCAGCATGCGCAGCATCTCTCTCCTCCGAGATGCCGAGACATGTGTGCAGGGAGACACCATGAAAAAGCAGGTGTGCTTCATTCTGAATAGAGCGTCTCTGATTCCCGTCTGGTGCCTGAGGGTGCATGGCCCATGAGCCTTAGAAGAGACGTCTTCGGGCCTTGCACGTTGGCCTCCATAGAAACTTGTGGCAAATTCTGGGCTCCGGACTGGGTGATGGAGGTAGAGGTCTGAGGGCAGAGGTGGGCAGGGGCTCCAGGCCGTGGAGATCCAAGTGGAATTCTTCAGGCAGAGCCTGTCTCCAGGGACTAGGCTTGGGCATTTGGGATGAGCCCTGGGGGACGGCCGCTCTGTAGTCAGGTTTGAGGTAGAGGACACGCCAGGAAGAAGGGCTGACTCCATGCACAAGGTTTGCTGGGGGTCCCATCAGGGGCAGGAAGCCTTGGGGAGCCTCACCCTCTTCTACTGAAGGCGCCACACACACATTCTCTGCTCTCTGGGCTCTCACAGATCCATTTTCAATGTCAATCTCCCAGACAGTCTCTGTACTAGTGAGCAGGAGCCAGCGGGCATGGGCAGGGTACAAGAGATCCTTCAGGGACATCAAGAGTTGCTCAGGGACCACCAGGAGCTGCACATTGAGGAGGCTGAGTCGCAGGGCTCCCTGTGGGTCCAGCCCCAGGAACTCCTGCCCCAGGCGCAGGTGCAGGACCATTCCTGGTTCCAAGACCGCGATGATCATCTTCCTCTGGGGAAGCTGTGGGCCCTGGGGGAGAAAAGCCGTGGGTCAGTCATTGTCCTCTGAGGGTGGCTCAAACAGGGAGAGAGCAAGGCGGGGAGCTGCCAGTAACTTCCCCAGGCATAAATGAAACCCCGCAGGGACACCCAGAATTGGCACCTGTATTGACGCCCCTTGGGACGGTGATTTCCTGCAAGTCCCCTAGGGCCTGGAGCTCAGGCAGACCTGTCTCACCCACGCCCACCTAGGTGGTGTGACCTTACCTGGGGCAGCTCCAGGGGCAGCTGTGCAGGGTGGTGGGGAGCTGGCTGTACCGGAGCTGGTTCTGCACCTGTGGAGAGAGCAGAGTGTGCAGGTGAAAGCCCTTGTCATGCAGGATGCCCTTGAGGGTTCAAGGTGCCACCGTGAGAAAGACCAAATACAGAAGAAGCCAGGTACAGGACACCCAGCCACGGAGCTGCAGGAGGAAGCTCCCGACACTCTGGACAGCACAGCTGCTCGCCTCATGACGTGACGGGACACTGGCTTGGTAGCAGGGGACTCAGGATGAAAAAGAGAAGATGCCTCACCTGGATGAGGACCCAGCTCCTCCACTTTCTGGCGTTTTGGGGCATTTGATGGCGTGCCGCTGGAGCTGTAGGACAGAGAGACACAGTCAGATTTCGGGCAGTTCCCTAACGTCCAATTCCCTGAATCCCCACAAATTCACTCCACTTCCCTGCCTTTCATTCAAGGCCACAGACTCGTCATCCACTTCCTGTGAGACCTGCTCCCAATCTGTCCTAACTCCCAGCTGTTCTTGTTCTCACCCCATCTACCTGAGCTTCCCTGGGTGAAGAAAAGGCAGGGAAGGAGGGTCGGTGCCCACAGGGAGCAGTTGACCCTTTCAGGAGCTCATGCAGATGAGAGTTGGAAAACTCTCCTTGGGTGTGAGGAGCTGGAGAAAGATGTTGAGATCCCGGAGAGGTGGCACCTCTGTCTACACAGGTAACAAAGGAATGGGGTCTTAGGATTCGAATCACAGCAGGAGAAGAGGAAGGAATTTGTCGGGCATGACGGCATGCGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGTCGGAGGATTGCTTGAGTCCAGGAGTTTGAGAGCAGCCTGGGCAACATGGTGAAAGCTAGTCTCCACTAAAAATACTAAACATTAGTGGGTCATGGTGGTGCATGCCTGTGGTCTCACCTACTCAGGAGGCTCAGGTGGGAGGATCACCTGCGACTCAGAGGTGGAGCCCGCAGTCAGCTAAAATCACGCCACTGCACTCCAGTGTGGACCATCGGAGTGAGACGCTGTCTCAGTAAAATAAATCAGTAAATAAGACAAATAGAAAAATTAAAAATGAAAAAAGGAGGAAACTGTTTTATTTTTCCTAGTAGATCTTGAAACTCTCACATCATGTCCTACAATCTCCCTTCTTGCAGAACACAGAACCCATTCCCTGTGGAGCTGGTTGGGTGGATTGAAAGTGGGGCTGCCCTGAGATATGTGTGTGGTTGCGATGTAGAAGCCTTCCCAGCACCCTGTGATGACTTACGGGCACCTCACTTCCCTCTGGCCCCAAATTCAAAACATCCAATCTCATGGCAGGTTCATGCACCCTTTTCCCTTCCCCTCTCTCCAACACACACCCACACATCCCACAGGCAGGTCACCCCGCAGGCGTCCCCAGCACATAGCAAAGCTCACCCGCTCTCTCCTGCGTGGTCGCTCTTGGATTCGGTGCAGGAATCACTGGGGCTTCTTGGGCGCCGGGAACCTTTCATGGTGAAAATTTCCAGGGTTCTCCAAGTCAGCCACTGCCAGTGTTTGTCTGTCTCCTGCAAAGATTTCTTCTTGGCTCCCGAATCCTTTAGTTCCTTTGAGAGAGTGGTGTCAGCCCCAAAGCTGCTCCCGAAGGCTTGGGTTGTGTAGCGACGGGGCTGTGGCCAGCGGCAGGTGGACGAGGCTCCGACAACTGAGCTCTTGGGGGAATCTTGTACACTGTCAGCAGGGGGTGGAGCCAGGGGATTTGTCAGCAGGAACTGATGTGATTGGCTGTTCCTGGTATGACAACGGGAGGGGCCCTCATGGAGGATTGGGGCGTAACTCAATCCATAGATGACCGATCAACAGAACCTGCCTAATCCCATCAAGAGCCAACCTGTTTCCTGTCCCCTCCCATCCTCTAGGTCTTGCCTAATAATGATAGACACTTTCTGTCATACCCAATTCATCCATCGCTGAAATAGTTTTTCATGTGTGCCTTTTATATTTTCATGCAATAAAAATATGTTAATTTTCACGGTGGCCATCCTGGGGAATGCTATGTACATGAAATGAAGTGTCAAAGGAGCAGAAGCAGAAGGAAATTCACAAGCTTCTCTGAGCGTCTCTGCTTCAATTCCTGCCATGTTTCCTAAATATGTTGGCTTCTTTCTTCCTACCCAAGTAAGAAGGTGCTTCAGAAGATCAATCTTATGGCATTTGACAAACCCTGCTGAGAATTTCAGGATGACACGAAGGAACCTTTGATTGGATTTGTGGATGTGCCTGTGAAAGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGCCAGGATGAAGTGGCTGTTCCTGGGGTGGAGACCCTTCTTTCTCTTGAGAATGTTCATTGCTGTTGACTCATTGTGGGTTTTGGAGATATTTTCTCTCTTTCTTTCGTTCTTTCAGACATTTTTTGCTTTCTCCCTCCCTGGATCCTAACCCCCCTCCATCCCCCCCCTCACTCCCTCCCTCCTTGTTTCCATCCTTCCTCCCTCCCTTCCCTCTTTCCTTCCTTCCTGCCTTCTTCCCTTCCCCTTCCCCTCTTCCTTCTGTCCTTCCTTCCTGTGTGTAAAAGAAAAATTGGTGAATAGAAGAATAATTGAATAACTGCCTGAGTCACTTATACATTTCTCATCTCACTCTGGGGACACAGAAGACCGTGTTGTACTCATCTCCTCGATTTTAAAAACAGTCATTCTAAAATCAAGGATTCTAGATGTATCACTTCTAGGCGAAATCTTGAAAGAGAATGTGTAAGAGTTTCATGTGCTCTTCATCTCTATGATCACAATTGAAGAAGGCAGGAGGTTGAGATGCTGCATCGCCAAGATCGTGGTGATTCCATTATCATTACCCTTGTAACTTGTGAGCATCCTTACTGCCAGCAATCATTATTAGATATGGAATCTGATATAGGAGTTCATATTTACTGTATGAATATCTTGGTGTGGGAGTGTTGGCTCATGCCTGTAATCCCAGTGCTTTGGGAGGCAGAGGCAGGAGGCTCGCTTGAACCCAGGAGTTCGAGACAAGCCGGAAGAGCATGGCGAGACCCTCGTCTCTACAAAAATGTAAAAATCAGCCAAGTGTGCTGGTAGGTGCCTGTAGTCTCAGCTCCTTAGGAGGCTGAAGTGTTAGGATCGCTTTCGCCCGGGATGTAATGGCTACAGGGAGTCGAGATCTTGCCACTGAACTTCAGCCTGGGCAACAGAGCAAGACTCTCTCTCAAAAATAAAATGCTTTTTCCTTTAGGCTTAAATTCTAACACTCAAACCTCCAAAGCGGAGGTATTAGGAGGTGGGGCCCTTGGGAGATGATGAGATTATGAAAGTGGAACCCTCGTAAATGGGATTAGTGCCCTTCTGAAAGTGACGGAAGAGAGCTCGCCAGCACCTTCCATGTGGGGAGACAGGGAGGATATGACAGTCTCCAACCTGGAAGAGGGTCCTCACCAGACCCCGATCATGCTGGCACTCTCATCGTGGACTTCCGGCCTCCAGAACTCTGATCAACAAATGTGTGTTCTTAAAGAAAAAAAAAGTGTGGAAAGCAATGTTAATGTTCCCAATCACTTTGAGTACATTCTTTCCTTAACTATGTCTTAATGCATAGTTGTGTTGGATGGCCTAGTTTGTAATGTTAGAATATGCATGTTAGTGAATTAATAAATACAGCAGTAAAGAATAGAGTTGTGGTTGGGAATGGAGTCTCACGCCTGTAATCCCAGCACAATGGCATGCCGAGGCGGGTCAATCACCTGTAGTCGGGAGGTGGAGATCACCCTGACCAACATGGAGAAACCCGACTCTACTAAAAATACAAATCAGCCTGTCATAGAGGCACATGCCTTTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCTAGGAGGCAGAGGTTGCGGTGAGCCGAGATCGCGCCATTGCACTCCAGCCTGGGCAACAAAAGCTAAATTCTATATCAAAAAATTAAAAAAAAAAAAAAGAAGGCTGTTTGTTGACCATTTGAGTGGCCAGTCTTGGTGCTTCCTGGTGGGCGAGGAGAGCCCTGCCCCATTCCTACCCATTCCAGTAGTCATGGCATAAGAGTGATTCTCACTTTCTGCTATAGCCTCCTTATCCATTGGCTGAAATGATTCTTTTTTAATGTGTCTTATTAATGCTTCCATAGCAAAAAATATTGAATTGACTTTTATAGGGACTCTTTCGGGGATTGTTACCCATCATTCCATAATTTGTTTGTACTCCTAGAAAAGGGAAGTATGCCGAGCACAGTGGATATTTCGTCTCAAATAATAAATAAATAACCAAATAGAAAAGAAAGAAAAGGAAGTAAAGGGAAATATACAAATATACAAGGTGTTAGGAGAGAGTTGCTAATCGTGATTCCCCCTTAATTGTCCAAACAGACCACCTCTGGGGATCTATTCGTAAAAGACTCGTTAGAAGTGCAGACTCATGCATTTGAGAATCACTCAGGGAAATCTGAAGATGACCTGTGGTGGGGGTGTAAATGGATACTTAAATGTGTCTTGTGATTGTGTGAGAGTGTGACTGTGTGTTTGTGTGTGTGCTGTCATCTGTGGAGTGGGGGATCCTCTTTTGCCTTGAGAAAGCTCATCTCTGTCCACTTACTCTGGGCTCTACCATCTGTGCCTTGTATCCAGTAGAAATAAAACAGTTTGCGGCAGAAATGGAGTTTTATTTTATTTCACTTTACTTTTTATTAGGATTATTTGTAGACCGGGTCTCACTCTGTCACTCAGGCTGGAGTGCAATGGCACGATCTCAGATCACTGCAACCTGTGCCTCCTGCACTGAAGCCATCCTCCCACCTCAGCCTCTGGAGTGGGGAGATCCCACACCTGTGTAATTTTTGCATTTTTTCTAGAGATGGGGTTTCCTCATGCTGCCCGGGCTGGTTTCCAACGCCTGGGCTCAAGTGATCCACCCGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGTGGGAGCTACTGTGCCCGGCCAGAGATGGAGATTTTTGTTCTTCTTTTGATGAGACGGAACCTCGCACCGTGGCCCAGGCTGGAGTGCAGTGGAGTGACCTCGGCTCACTGCAAGCTCTGCCTCCTGGGGTCATGCCATTCTCCTGCCTCAGCCTCCCAAAGAGCTGGGACTACAGGCGCCCGACACCACGCCCAGCTAAGGTTTTTGCAT"	"31fd5dd2-2764-11e6-857b-9bdd414a729f"	"96"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"1290"	"ZNF709"	163051	"mskcc.org"	"GRCh37"	"19"	12597063	12597063	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs34353435"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4-19399delG"	""	""	"ENST00000428311"	""	7	"."	3	3	"."	0	"ZNF709,intron_variant,,ENST00000428311,;ZNF709,intron_variant,,ENST00000455490,;ZNF709,upstream_gene_variant,,ENST00000397732,NM_152601.3;CTD-3105H18.18,upstream_gene_variant,,ENST00000598753,;"	"-"	"ENSG00000196826"	"ENST00000428311"	"Transcript"	"intron_variant"	"-/4505"	"-/1926"	"-/641"	""	""	"rs34353435"	"1"	NA	-1	"ZNF709"	"Uniprot_gn"	20629	"protein_coding"	"YES"	""	"ENSP00000404127"	""	""	"UPI000006CF50"	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCC"	"33da5bdc-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1291"	"CTD-2192J16.22"	0	"mskcc.org"	"GRCh37"	"19"	12751924	12751924	"+"	"3'Flank"	"DEL"	"T"	"T"	"-"	"rs71168617"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000597692"	""	6	"."	4	1	"."	0	"ZNF490,upstream_gene_variant,,ENST00000465656,;CTD-2192J16.22,downstream_gene_variant,,ENST00000597692,;CTD-2192J16.15,downstream_gene_variant,,ENST00000325000,;"	"-"	"ENSG00000269242"	"ENST00000597692"	"Transcript"	"downstream_gene_variant"	"-/838"	"-/597"	"-/198"	""	""	"rs71168617"	"1"	"2721"	-1	"CTD-2192J16.22"	"Clone_based_vega_gene"	NA	"nonsense_mediated_decay"	"YES"	""	"ENSP00000470240"	""	""	"UPI0002A471DC"	""	NA	NA	""	""	""	"-:0.4529"	"-:0.4955"	"-:0.536"	NA	"-:0.1558"	"-:0.6918"	"-:0.3967"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATA"	"33e2b994-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1292"	"CACNA1A"	773	"mskcc.org"	"GRCh37"	"19"	13339877	13339877	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs61098915"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5528+1019delC"	""	""	"ENST00000360228"	""	16	"."	6	3	"."	0	"CACNA1A,intron_variant,,ENST00000360228,NM_001127222.1,NM_001174080.1,NM_023035.2,NM_000068.3;CACNA1A,intron_variant,,ENST00000573710,NM_001127221.1;CACNA1A,intron_variant,,ENST00000587525,;CACNA1A,intron_variant,,ENST00000585802,;CACNA1A,downstream_gene_variant,,ENST00000574822,;CACNA1A,downstream_gene_variant,,ENST00000573891,;CACNA1A,upstream_gene_variant,,ENST00000586190,;"	"-"	"ENSG00000141837"	"ENST00000360228"	"Transcript"	"intron_variant"	"-/8392"	"-/7521"	"-/2506"	""	""	"rs61098915"	"1"	NA	-1	"CACNA1A"	"HGNC"	1388	"protein_coding"	"YES"	"CCDS45998.1"	"ENSP00000353362"	"O00555"	"Q9UN69,Q9UHM9"	"UPI0000141565"	"NM_001127222.1,NM_001174080.1,NM_023035.2,NM_000068.3"	NA	NA	""	"36/46"	""	"G:0.2792"	"-:0.6036"	"-:0.7349"	NA	"-:0.877"	"-:0.666"	"-:0.7648"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTGG"	"341c4a92-2764-11e6-857b-9bdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1293"	"CACNA1A"	773	"mskcc.org"	"GRCh37"	"19"	13714046	13714057	"+"	"Intron"	"DEL"	"TTTATTTATTTA"	"TTTATTTATTTA"	"-"	"rs372392487"	NA	"JHCCPT1"	"JHCCPN1"	"TTTATTTATTTA"	"TTTATTTATTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-237-3187_-237-3176delTAAATAAATAAA"	""	""	"ENST00000574974"	""	24	"."	5	4	"."	0	"CACNA1A,intron_variant,,ENST00000574974,;CACNA1A,upstream_gene_variant,,ENST00000592864,;"	"-"	"ENSG00000141837"	"ENST00000574974"	"Transcript"	"intron_variant"	"-/659"	"-/309"	"-/103"	""	""	"rs372392487"	"1"	NA	-1	"CACNA1A"	"HGNC"	1388	"protein_coding"	""	""	"ENSP00000459963"	""	"I3L2V5"	"UPI00025A2C00"	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATTTTATTTATTTAT"	"342115cc-2764-11e6-857b-9bdd414a729f"	"256"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WXS"	FALSE
"1294"	"ENSR00000343827"	0	"mskcc.org"	"GRCh37"	"19"	13744539	13744540	"+"	"IGR"	"DEL"	"CT"	"CT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000343827"	""	19	"."	5	4	"."	0	""	"-"	""	"ENSR00000343827"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTC"	"3424779e-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"1295"	"CTD-2189E23.1"	0	"mskcc.org"	"GRCh37"	"19"	14367281	14367282	"+"	"Intron"	"INS"	"-"	"-"	"CT"	"rs143233131"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.385-2040_385-2039dupAG"	""	""	"ENST00000592263"	""	9	"."	4	2	"."	0	"CTD-2189E23.1,intron_variant,,ENST00000592263,;"	"CT"	"ENSG00000267723"	"ENST00000592263"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/627"	""	""	""	""	"rs143233131"	"1"	NA	-1	"CTD-2189E23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/4"	""	"CT:0.2891"	"CT:0.3124"	"CT:0.2968"	NA	"CT:0.3839"	"CT:0.175"	"CT:0.272"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"447dd22a-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1296"	"NDUFB7"	4713	"mskcc.org"	"GRCh37"	"19"	14678219	14678220	"+"	"Intron"	"INS"	"-"	"-"	"CT"	"rs3049969"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.113-476_113-475dupAG"	""	""	"ENST00000215565"	""	10	"."	4	3	"."	0	"NDUFB7,intron_variant,,ENST00000215565,NM_004146.5;TECR,downstream_gene_variant,,ENST00000600083,;TECR,downstream_gene_variant,,ENST00000436007,;TECR,downstream_gene_variant,,ENST00000215567,NM_138501.5;TECR,downstream_gene_variant,,ENST00000596073,;TECR,downstream_gene_variant,,ENST00000598298,;TECR,downstream_gene_variant,,ENST00000594545,;TECR,downstream_gene_variant,,ENST00000601187,;TECR,downstream_gene_variant,,ENST00000598715,;TECR,downstream_gene_variant,,ENST00000596164,;NDUFB7,intron_variant,,ENST00000593353,;TECR,downstream_gene_variant,,ENST00000598987,;TECR,downstream_gene_variant,,ENST00000597607,;TECR,downstream_gene_variant,,ENST00000593637,;TECR,downstream_gene_variant,,ENST00000596953,;TECR,downstream_gene_variant,,ENST00000600395,;TECR,downstream_gene_variant,,ENST00000601461,;TECR,downstream_gene_variant,,ENST00000598333,;TECR,downstream_gene_variant,,ENST00000593775,;TECR,downstream_gene_variant,,ENST00000601350,;TECR,downstream_gene_variant,,ENST00000594958,;TECR,downstream_gene_variant,,ENST00000599101,;TECR,downstream_gene_variant,,ENST00000594807,;TECR,downstream_gene_variant,,ENST00000601652,;TECR,downstream_gene_variant,,ENST00000598408,;TECR,downstream_gene_variant,,ENST00000600076,;TECR,downstream_gene_variant,,ENST00000598918,;"	"CT"	"ENSG00000099795"	"ENST00000215565"	"Transcript"	"intron_variant"	"-/531"	"-/414"	"-/137"	""	""	"rs3049969"	"1"	NA	-1	"NDUFB7"	"HGNC"	7702	"protein_coding"	"YES"	"CCDS12314.1"	"ENSP00000215565"	"P17568"	""	"UPI000013C68C"	"NM_004146.5"	NA	NA	""	"1/2"	""	"-:0.4760"	"CT:0.6634"	"CT:0.4625"	NA	"CT:0.3363"	"CT:0.5577"	"CT:0.5378"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"4490ae9a-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1297"	"EMR2"	30817	"mskcc.org"	"GRCh37"	"19"	14885486	14885487	"+"	"Intron"	"INS"	"-"	"-"	"TTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.32-369_32-368insGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAA"	""	""	"ENST00000315576"	""	18	"."	3	8	"."	0	"EMR2,intron_variant,,ENST00000315576,NM_013447.3;EMR2,intron_variant,,ENST00000392967,;EMR2,intron_variant,,ENST00000346057,;EMR2,intron_variant,,ENST00000353876,;EMR2,intron_variant,,ENST00000353005,;EMR2,intron_variant,,ENST00000601345,;EMR2,intron_variant,,ENST00000596991,;EMR2,intron_variant,,ENST00000392965,NM_001271052.1;EMR2,intron_variant,,ENST00000594294,;EMR2,intron_variant,,ENST00000594076,;EMR2,intron_variant,,ENST00000595839,;EMR2,upstream_gene_variant,,ENST00000392964,;EMR2,intron_variant,,ENST00000599423,;EMR2,intron_variant,,ENST00000601619,;EMR2,intron_variant,,ENST00000360222,;EMR2,intron_variant,,ENST00000392962,;EMR2,intron_variant,,ENST00000598500,;EMR2,upstream_gene_variant,,ENST00000595208,;"	"TTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTC"	"ENSG00000127507"	"ENST00000315576"	"Transcript"	"intron_variant"	"-/6767"	"-/2472"	"-/823"	""	""	""	"1"	NA	-1	"EMR2"	"HGNC"	3337	"protein_coding"	"YES"	"CCDS32935.1"	"ENSP00000319883"	"Q9UHX3"	""	"UPI000016393A"	"NM_013447.3"	NA	NA	""	"2/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"44aeec34-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"1298"	"SLC1A6"	6511	"mskcc.org"	"GRCh37"	"19"	15112226	15112227	"+"	"Intron"	"INS"	"-"	"-"	"AAGAACATTTCAGAGGAGA"	"rs140202080"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6+9070_6+9071insTCTCCTCTGAAATGTTCTT"	""	""	"ENST00000430939"	""	6	"."	3	4	"."	0	"SLC1A6,intron_variant,,ENST00000430939,;SLC1A6,intron_variant,,ENST00000599636,;SLC1A6,intron_variant,,ENST00000595863,;"	"AAGAACATTTCAGAGGAGA"	"ENSG00000105143"	"ENST00000430939"	"Transcript"	"intron_variant"	"-/1794"	"-/1503"	"-/500"	""	""	"rs140202080"	"1"	NA	-1	"SLC1A6"	"HGNC"	10944	"protein_coding"	""	""	"ENSP00000409386"	""	"E7EV13"	"UPI0002065165"	""	NA	NA	""	"1/8"	""	"AAGAACATTTCAGAGGAGA:0.0915"	"AAGAACATTTCAGAGGAGA:0.0265"	"AAGAACATTTCAGAGGAGA:0.0706"	NA	"AAGAACATTTCAGAGGAGA:0.1865"	"AAGAACATTTCAGAGGAGA:0.1282"	"AAGAACATTTCAGAGGAGA:0.0583"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"44cce932-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1299"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	15146628	15146629	"+"	"IGR"	"INS"	"-"	"-"	"GGAG"	"rs145739440"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	4	8	"."	0	""	"GGAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145739440"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"44d376bc-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1300"	"CYP4F12"	66002	"mskcc.org"	"GRCh37"	"19"	15806319	15806320	"+"	"Intron"	"INS"	"-"	"-"	"AAAAC"	"rs372256730"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1116-423_1116-422insCAAAA"	""	""	"ENST00000550308"	""	10	"."	4	2	"."	0	"CYP4F12,intron_variant,,ENST00000550308,NM_023944.3;CYP4F12,intron_variant,,ENST00000324632,;CYP4F12,intron_variant,,ENST00000546608,;CYP4F12,intron_variant,,ENST00000517734,;CYP4F12,intron_variant,,ENST00000550627,;CYP4F12,intron_variant,,ENST00000518629,;"	"AAAAC"	"ENSG00000186204"	"ENST00000550308"	"Transcript"	"intron_variant"	"-/2044"	"-/1575"	"-/524"	""	""	"rs372256730"	"1"	NA	1	"CYP4F12"	"HGNC"	18857	"protein_coding"	"YES"	"CCDS42517.1"	"ENSP00000448998"	"Q9HCS2"	""	"UPI000013D3F9"	"NM_023944.3"	NA	NA	""	"9/12"	""	"AAAAC:0.2376"	"AAAAC:0.3949"	"AAAAC:0.2349"	NA	"AAAAC:0.0139"	"AAAAC:0.2744"	"AAAAC:0.2198"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"4509433c-2764-11e6-857b-9bdd414a729f"	"206"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1301"	"CYP4F11"	57834	"mskcc.org"	"GRCh37"	"19"	16040919	16040920	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11430289"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.199-509dupA"	""	""	"ENST00000402119"	""	10	"."	6	3	"."	0	"CYP4F11,intron_variant,,ENST00000402119,NM_021187.3;CYP4F11,intron_variant,,ENST00000248041,NM_001128932.1;CYP4F11,intron_variant,,ENST00000326742,;CYP4F11,upstream_gene_variant,,ENST00000591841,;"	"T"	"ENSG00000171903"	"ENST00000402119"	"Transcript"	"intron_variant"	"-/3161"	"-/1575"	"-/524"	""	""	"rs11430289"	"1"	NA	-1	"CYP4F11"	"HGNC"	13265	"protein_coding"	"YES"	"CCDS12337.1"	"ENSP00000384588"	"Q9HBI6"	""	"UPI000013CC35"	"NM_021187.3"	NA	NA	""	"1/11"	""	"-:0.4910"	"T:0.5053"	"T:0.5317"	NA	"T:0.379"	"T:0.5865"	"T:0.5521"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"45174784-2764-11e6-857b-9bdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"1302"	"RAB8A"	4218	"mskcc.org"	"GRCh37"	"19"	16239967	16239968	"+"	"Intron"	"INS"	"-"	"-"	"CTT"	"rs139471109"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.481-395_481-394insTCT"	""	""	"ENST00000300935"	""	9	"."	4	1	"."	0	"RAB8A,intron_variant,,ENST00000300935,NM_005370.4;RAB8A,intron_variant,,ENST00000586682,;HSH2D,upstream_gene_variant,,ENST00000593154,NM_032855.2;HSH2D,upstream_gene_variant,,ENST00000253680,;HSH2D,upstream_gene_variant,,ENST00000397372,;CTD-2231E14.8,intron_variant,,ENST00000597983,;CTD-2231E14.8,downstream_gene_variant,,ENST00000599676,;RAB8A,intron_variant,,ENST00000592971,;RAB8A,downstream_gene_variant,,ENST00000589697,;RAB8A,downstream_gene_variant,,ENST00000587156,;"	"CTT"	"ENSG00000167461"	"ENST00000300935"	"Transcript"	"intron_variant"	"-/2827"	"-/624"	"-/207"	""	""	"rs139471109"	"1"	NA	1	"RAB8A"	"HGNC"	7007	"protein_coding"	"YES"	"CCDS12339.1"	"ENSP00000300935"	"P61006"	""	"UPI0000001261"	"NM_005370.4"	NA	NA	""	"6/7"	""	"CTT:0.3067"	"CTT:0.1952"	"CTT:0.3804"	NA	"CTT:0.3135"	"CTT:0.336"	"CTT:0.3681"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"4522c294-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1303"	"AP1M1"	8907	"mskcc.org"	"GRCh37"	"19"	16336949	16336952	"+"	"Intron"	"DEL"	"AGAG"	"GA"	"GA"	"rs386807315"	NA	"JHCCPT1"	"JHCCPN1"	"AGAG"	"AGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.583-283_583-280delAGAGinsGA"	""	""	"ENST00000444449"	""	10	"."	8	2	"."	0	"AP1M1,intron_variant,,ENST00000291439,NM_032493.3;AP1M1,intron_variant,,ENST00000444449,NM_001130524.1;AP1M1,intron_variant,,ENST00000541844,;AP1M1,intron_variant,,ENST00000590756,;AP1M1,intron_variant,,ENST00000429941,;AP1M1,upstream_gene_variant,,ENST00000586543,;AP1M1,intron_variant,,ENST00000586461,;AP1M1,intron_variant,,ENST00000591966,;"	"GA"	"ENSG00000072958"	"ENST00000444449"	"Transcript"	"intron_variant"	"-/2311"	"-/1308"	"-/435"	""	""	"rs386807315"	"1"	NA	1	"AP1M1"	"HGNC"	13667	"protein_coding"	"YES"	"CCDS46008.1"	"ENSP00000388996"	"Q9BXS5"	"Q59EK3,K7ER75,K7EQ90,K7EPJ8,K7ENA7"	"UPI000051DDEE"	"NM_001130524.1"	NA	NA	""	"6/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAGAGG"	"4060ee02-2764-11e6-857b-9bdd414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.8	"WXS"	FALSE
"1304"	"MYO9B"	4650	"mskcc.org"	"GRCh37"	"19"	17252478	17252478	"+"	"Intron"	"DEL"	"G"	"-"	"-"	"rs35907066"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.841-3726delG"	""	""	"ENST00000595618"	""	6	"."	5	1	"."	0	"MYO9B,intron_variant,,ENST00000595618,NM_001130065.1,NM_004145.3;MYO9B,intron_variant,,ENST00000594824,;MYO9B,intron_variant,,ENST00000397274,;MYO9B,intron_variant,,ENST00000595641,;"	"-"	"ENSG00000099331"	"ENST00000595618"	"Transcript"	"intron_variant"	"-/7623"	"-/6069"	"-/2022"	""	""	"rs35907066"	"1"	NA	1	"MYO9B"	"HGNC"	7609	"protein_coding"	"YES"	"CCDS46010.1"	"ENSP00000471457"	"Q13459"	"Q4LE74"	"UPI000020367C"	"NM_001130065.1,NM_004145.3"	NA	NA	""	"2/39"	""	"G:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAGG"	"35541bf6-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1305"	"FAM129C"	199786	"mskcc.org"	"GRCh37"	"19"	17649513	17649553	"+"	"Intron"	"DEL"	"GAAAGGAGAAAGAAAGAAGAAAGAAAGCAAGAAAGAAAGAA"	"GAAAGGAGAAAGAAAGAAGAAAGAAAGCAAGAAAGAAAGAA"	"AGGAGAAAGAAAGAAGAAAGAAAGCAAGAAAGAAAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GAAAGGAGAAAGAAAGAAGAAAGAAAGCAAGAAAGAAAGAA"	"GAAAGGAGAAAGAAAGAAGAAAGAAAGCAAGAAAGAAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.689-446_689-406delGAAAGGAGAAAGAAAGAAGAAAGAAAGCAAGAAAGAAAGAAinsAGGAGAAAGAAAGAAGAAAGAAAGCAAGAAAGAAAG"	""	""	"ENST00000335393"	""	21	"."	6	4	"."	0	"FAM129C,intron_variant,,ENST00000335393,NM_173544.4;FAM129C,intron_variant,,ENST00000595684,;FAM129C,intron_variant,,ENST00000332386,NM_001098524.1;FAM129C,intron_variant,,ENST00000601861,;FAM129C,intron_variant,,ENST00000352727,;FAM129C,intron_variant,,ENST00000599164,;FAM129C,intron_variant,,ENST00000449408,;FAM129C,intron_variant,,ENST00000300971,;FAM129C,intron_variant,,ENST00000599124,;FAM129C,intron_variant,,ENST00000600871,;FAM129C,downstream_gene_variant,,ENST00000597887,;FAM129C,intron_variant,,ENST00000600519,;FAM129C,intron_variant,,ENST00000599819,;FAM129C,upstream_gene_variant,,ENST00000595601,;"	"AGGAGAAAGAAAGAAGAAAGAAAGCAAGAAAGAAAG"	"ENSG00000167483"	"ENST00000335393"	"Transcript"	"intron_variant"	"-/2508"	"-/2094"	"-/697"	""	""	""	"1"	NA	1	"FAM129C"	"HGNC"	24130	"protein_coding"	"YES"	"CCDS12362.1"	"ENSP00000335040"	"Q86XR2"	"M0R0E0,B4DNU3"	"UPI0000246FFF"	"NM_173544.4"	NA	NA	""	"6/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGAAAGGAGAAAGAAAGAAGAAAGAAAGCAAGAAAGAAAGAAA"	"4065d372-2764-11e6-857b-9bdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1306"	"FAM129C"	199786	"mskcc.org"	"GRCh37"	"19"	17649552	17649553	"+"	"Intron"	"DEL"	"AA"	"AA"	"-"	"rs58704575"	NA	"JHCCPT1"	"JHCCPN1"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.689-406_689-405delAA"	""	""	"ENST00000335393"	""	21	"."	6	8	"."	0	"FAM129C,intron_variant,,ENST00000335393,NM_173544.4;FAM129C,intron_variant,,ENST00000595684,;FAM129C,intron_variant,,ENST00000332386,NM_001098524.1;FAM129C,intron_variant,,ENST00000601861,;FAM129C,intron_variant,,ENST00000352727,;FAM129C,intron_variant,,ENST00000599164,;FAM129C,intron_variant,,ENST00000449408,;FAM129C,intron_variant,,ENST00000300971,;FAM129C,intron_variant,,ENST00000599124,;FAM129C,intron_variant,,ENST00000600871,;FAM129C,downstream_gene_variant,,ENST00000597887,;FAM129C,intron_variant,,ENST00000600519,;FAM129C,intron_variant,,ENST00000599819,;FAM129C,upstream_gene_variant,,ENST00000595601,;"	"-"	"ENSG00000167483"	"ENST00000335393"	"Transcript"	"intron_variant"	"-/2508"	"-/2094"	"-/697"	""	""	"rs58704575"	"1"	NA	1	"FAM129C"	"HGNC"	24130	"protein_coding"	"YES"	"CCDS12362.1"	"ENSP00000335040"	"Q86XR2"	"M0R0E0,B4DNU3"	"UPI0000246FFF"	"NM_173544.4"	NA	NA	""	"6/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAA"	"359f3e88-2764-11e6-857b-9bdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1307"	"CTD-3131K8.1"	0	"mskcc.org"	"GRCh37"	"19"	17700823	17700823	"+"	"RNA"	"DEL"	"A"	"A"	"-"	"rs60425374"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.58delT"	""	""	"ENST00000469924"	"1/1"	20	"."	12	3	"."	0	"CTD-3131K8.1,non_coding_transcript_exon_variant,,ENST00000469924,;"	"-"	"ENSG00000243771"	"ENST00000469924"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"58/477"	""	""	""	""	"rs60425374"	"1"	NA	-1	"CTD-3131K8.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"A:0.4403"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAA"	"35a7398a-2764-11e6-857b-9bdd414a729f"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"1308"	"SLC5A5"	6528	"mskcc.org"	"GRCh37"	"19"	17986397	17986397	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs59128676"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.544-356delC"	""	""	"ENST00000222248"	""	9	"."	4	5	"."	0	"SLC5A5,intron_variant,,ENST00000222248,NM_000453.2;"	"-"	"ENSG00000105641"	"ENST00000222248"	"Transcript"	"intron_variant"	"-/3576"	"-/1932"	"-/643"	""	""	"rs59128676"	"1"	NA	1	"SLC5A5"	"HGNC"	11040	"protein_coding"	"YES"	"CCDS12368.1"	"ENSP00000222248"	"Q92911"	"Q9UEU3"	"UPI00001359F6"	"NM_000453.2"	NA	NA	""	"4/14"	""	"C:0.0833"	"-:0.916"	"-:0.9164"	NA	"-:0.8204"	"-:0.9642"	"-:0.9683"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GACC"	"35c6bbb6-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1309"	"PIK3R2"	5296	"mskcc.org"	"GRCh37"	"19"	18274631	18274632	"+"	"Intron"	"INS"	"-"	"-"	"TAAAAACAAA"	"rs10664639"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1416+441_1416+442insAATAAAAACA"	""	""	"ENST00000222254"	""	10	"."	4	1	"."	0	"PIK3R2,intron_variant,,ENST00000222254,NM_005027.3;PIK3R2,intron_variant,,ENST00000593731,;PIK3R2,intron_variant,,ENST00000426902,;PIK3R2,upstream_gene_variant,,ENST00000464016,;PIK3R2,upstream_gene_variant,,ENST00000459743,;PIK3R2,downstream_gene_variant,,ENST00000474310,;PIK3R2,downstream_gene_variant,,ENST00000600533,;"	"TAAAAACAAA"	"ENSG00000105647"	"ENST00000222254"	"Transcript"	"intron_variant"	"-/4033"	"-/2187"	"-/728"	""	""	"rs10664639"	"1"	NA	1	"PIK3R2"	"HGNC"	8980	"protein_coding"	"YES"	"CCDS12371.1"	"ENSP00000222254"	"O00459"	"Q96CK7,M0QYU3"	"UPI000006EF95"	"NM_005027.3"	NA	NA	""	"11/15"	""	"-:0.1324"	"TAAAAACAAA:0.7731"	"TAAAAACAAA:0.866"	NA	"TAAAAACAAA:0.9107"	"TAAAAACAAA:0.9423"	"TAAAAACAAA:0.8753"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"45c06512-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1310"	"PDE4C"	729966	"mskcc.org"	"GRCh37"	"19"	18331859	18331860	"+"	"Intron"	"INS"	"-"	"-"	"CCGCCAGGCCCCGCCCCACC"	"rs533243837"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.545+55_545+56insGGTGGGGCGGGGCCTGGCGG"	""	""	"ENST00000355502"	""	27	"."	3	12	"."	0	"PDE4C,intron_variant,,ENST00000355502,;PDE4C,intron_variant,,ENST00000594617,NM_000923.4;PDE4C,intron_variant,,ENST00000594465,;PDE4C,intron_variant,,ENST00000447275,NM_001098819.2;PDE4C,intron_variant,,ENST00000262805,NM_001098818.2;PDE4C,intron_variant,,ENST00000539010,;PDE4C,intron_variant,,ENST00000597297,;PDE4C,intron_variant,,ENST00000598111,;PDE4C,intron_variant,,ENST00000610023,;PDE4C,downstream_gene_variant,,ENST00000599754,;AC068499.10,downstream_gene_variant,,ENST00000594805,;PDE4C,non_coding_transcript_exon_variant,,ENST00000597360,;PDE4C,intron_variant,,ENST00000599188,;PDE4C,intron_variant,,ENST00000597573,;PDE4C,intron_variant,,ENST00000593594,;PDE4C,intron_variant,,ENST00000595343,;"	"CCGCCAGGCCCCGCCCCACC"	"ENSG00000105650"	"ENST00000355502"	"Transcript"	"intron_variant"	"-/5979"	"-/2139"	"-/712"	""	""	"rs533243837"	"1"	NA	-1	"PDE4C"	"HGNC"	8782	"protein_coding"	"YES"	"CCDS12373.1"	"ENSP00000347689"	"Q08493"	"Q9UPJ5,Q9P1U3,Q32MM7,O76105,M0R1P5,B7Z2S3"	"UPI0000127BF8"	""	NA	NA	""	"8/18"	""	"CCGCCAGGCCCCGCCCCACC:0.4151"	"CCGCCAGGCCCCGCCCCACC:0.4228"	"CCGCCAGGCCCCGCCCCACC:0.6282"	NA	"CCGCCAGGCCCCGCCCCACC:0.1895"	"CCGCCAGGCCCCGCCCCACC:0.6024"	"CCGCCAGGCCCCGCCCCACC:0.2935"	"CCGCCAGGCCCCGCCCCACC:0.3321"	"CCGCCAGGCCCCGCCCCACC:0.4739"	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"45c11872-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WXS"	FALSE
"1311"	"TMEM59L"	25789	"mskcc.org"	"GRCh37"	"19"	18727197	18727198	"+"	"Intron"	"INS"	"-"	"-"	"TTGTTGTTG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.561+272_561+280dupGTTGTTGTT"	""	""	"ENST00000600490"	""	14	"."	4	5	"."	0	"TMEM59L,intron_variant,,ENST00000600490,;TMEM59L,intron_variant,,ENST00000262817,NM_012109.2;TMEM59L,intron_variant,,ENST00000594709,;TMEM59L,intron_variant,,ENST00000598660,;TMEM59L,intron_variant,,ENST00000594859,;"	"TTGTTGTTG"	"ENSG00000105696"	"ENST00000600490"	"Transcript"	"intron_variant"	"-/1717"	"-/1029"	"-/342"	""	""	""	"1"	NA	1	"TMEM59L"	"HGNC"	13237	"protein_coding"	"YES"	"CCDS12383.1"	"ENSP00000470879"	"Q9UK28"	""	"UPI0000034024"	""	NA	NA	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"45d9636e-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1312"	"KLHL26"	55295	"mskcc.org"	"GRCh37"	"19"	18767242	18767243	"+"	"Intron"	"INS"	"-"	"-"	"GGG"	"rs534784608"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.84-7827_84-7826insGGG"	""	""	"ENST00000300976"	""	9	"."	6	1	"."	0	"KLHL26,intron_variant,,ENST00000300976,NM_018316.1;KLHL26,intron_variant,,ENST00000599006,;KLHL26,intron_variant,,ENST00000595423,;KLHL26,intron_variant,,ENST00000595182,;KLHL26,intron_variant,,ENST00000596843,;KLHL26,intron_variant,,ENST00000600657,;"	"GGG"	"ENSG00000167487"	"ENST00000300976"	"Transcript"	"intron_variant"	"-/3192"	"-/1848"	"-/615"	""	""	"rs534784608"	"1"	NA	1	"KLHL26"	"HGNC"	25623	"protein_coding"	"YES"	"CCDS12384.1"	"ENSP00000300976"	"Q53HC5"	""	"UPI0000071AC2"	"NM_018316.1"	NA	NA	""	"1/2"	""	"-:0.2696"	"GGG:0.944"	"GGG:0.6787"	NA	"GGG:0.6726"	"GGG:0.6262"	"GGG:0.6452"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"45da6afc-2764-11e6-857b-9bdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1313"	"CTD-3030D20.1"	0	"mskcc.org"	"GRCh37"	"19"	21459366	21459367	"+"	"5'Flank"	"INS"	"-"	"-"	"TTTG"	"rs149709680"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000595739"	""	9	"."	4	4	"."	0	"CTD-3030D20.1,upstream_gene_variant,,ENST00000595739,;"	"TTTG"	"ENSG00000268747"	"ENST00000595739"	"Transcript"	"upstream_gene_variant"	"-/310"	""	""	""	""	"rs149709680"	"1"	"232"	-1	"CTD-3030D20.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1462"	"TTTG:0.879"	"TTTG:0.7911"	NA	"TTTG:0.7361"	"TTTG:0.9513"	"TTTG:0.8855"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"4635ad90-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1314"	"ZNF257"	113835	"mskcc.org"	"GRCh37"	"19"	22255799	22255800	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs200402014"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.130+62_130+63insA"	""	""	"ENST00000594947"	""	29	"."	3	6	"."	0	"ZNF257,intron_variant,,ENST00000594947,NM_033468.2;ZNF257,intron_variant,,ENST00000600162,;ZNF257,intron_variant,,ENST00000594363,;ZNF257,intron_variant,,ENST00000597927,;ZNF257,intron_variant,,ENST00000435820,;ZNF257,intron_variant,,ENST00000597796,;"	"A"	"ENSG00000197134"	"ENST00000594947"	"Transcript"	"intron_variant"	"-/3874"	"-/1692"	"-/563"	""	""	"rs200402014"	"1"	NA	1	"ZNF257"	"HGNC"	13498	"protein_coding"	"YES"	"CCDS46030.1"	"ENSP00000470209"	"Q9Y2Q1"	"M0R0N1"	"UPI0000E045CA"	"NM_033468.2"	NA	NA	""	"2/3"	""	"A:0.1855"	"A:0.2708"	"A:0.1268"	NA	"A:0.1161"	"A:0.166"	"A:0.2035"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"4647d380-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WXS"	FALSE
"1315"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	22417830	22417831	"+"	"IGR"	"INS"	"-"	"-"	"AAAGAAAAGA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	1	"."	0	""	"AAAGAAAAGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"464d76dc-2764-11e6-857b-9bdd414a729f"	"227"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1316"	"RPSAP58"	0	"mskcc.org"	"GRCh37"	"19"	24003496	24003497	"+"	"Intron"	"INS"	"-"	"CTCT"	"CTCT"	"rs113934592"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-92-6373_-92-6372insTCTC"	""	""	"ENST00000496398"	""	7	"."	5	3	"."	0	"RPSAP58,intron_variant,,ENST00000496398,;RPSAP58,intron_variant,,ENST00000486528,;RP11-255H23.4,intron_variant,,ENST00000599944,;RP11-255H23.2,intron_variant,,ENST00000471224,;RP11-255H23.2,intron_variant,,ENST00000475499,;RP11-255H23.2,intron_variant,,ENST00000472297,;"	"CTCT"	"ENSG00000205246"	"ENST00000496398"	"Transcript"	"intron_variant"	"-/1397"	"-/888"	"-/295"	""	""	"rs113934592"	"1"	NA	1	"RPSAP58"	"HGNC"	36809	"protein_coding"	"YES"	""	"ENSP00000417240"	""	"C9JQR9,A6NE09"	"UPI00001972FD"	""	NA	NA	""	"3/3"	""	"-:0.0262"	"CTCT:0.913"	"CTCT:0.9914"	NA	"CTCT:0.996"	"CTCT:0.998"	"CTCT:0.9959"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"46696f54-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1317"	"RP11-255H23.4"	0	"mskcc.org"	"GRCh37"	"19"	24061349	24061351	"+"	"5'Flank"	"DEL"	"AGA"	"AGA"	"-"	"rs67258339"	NA	"JHCCPT1"	"JHCCPN1"	"AGA"	"AGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000599944"	""	23	"."	10	6	"."	0	"RP11-255H23.4,upstream_gene_variant,,ENST00000599944,;"	"-"	"ENSG00000267924"	"ENST00000599944"	"Transcript"	"upstream_gene_variant"	"-/2291"	""	""	""	""	"rs67258339"	"1"	"3846"	-1	"RP11-255H23.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAGAA"	"369a8b58-2764-11e6-857b-9bdd414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.434782608695652	"WXS"	FALSE
"1318"	"RP11-255H23.4"	0	"mskcc.org"	"GRCh37"	"19"	24062140	24062186	"+"	"5'Flank"	"DEL"	"AAAGAGGAGAGATAAAGAAGGAATAGTAGGAGGAGAGAAAAAGGAGG"	"AAAGAGGAGAGATAAAGAAGGAATAGTAGGAGGAGAGAAAAAGGAGG"	"GAAGA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AAAGAGGAGAGATAAAGAAGGAATAGTAGGAGGAGAGAAAAAGGAGG"	"AAAGAGGAGAGATAAAGAAGGAATAGTAGGAGGAGAGAAAAAGGAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000599944"	""	22	"."	5	17	"."	0	"RP11-255H23.4,upstream_gene_variant,,ENST00000599944,;"	"GAAGA"	"ENSG00000267924"	"ENST00000599944"	"Transcript"	"upstream_gene_variant"	"-/2291"	""	""	""	""	""	"1"	"4637"	-1	"RP11-255H23.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAAAGAGGAGAGATAAAGAAGGAATAGTAGGAGGAGAGAAAAAGGAGGA"	"406e03f8-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WXS"	FALSE
"1319"	"RP11-255H23.4"	0	"mskcc.org"	"GRCh37"	"19"	24062288	24062301	"+"	"5'Flank"	"DEL"	"AGGTGGAGGAGGAC"	"AGGTGGAGGAGGAC"	"TGGAGGAGGACA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AGGTGGAGGAGGAC"	"AGGTGGAGGAGGAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000599944"	""	28	"."	6	22	"."	0	"RP11-255H23.4,upstream_gene_variant,,ENST00000599944,;"	"TGGAGGAGGACA"	"ENSG00000267924"	"ENST00000599944"	"Transcript"	"upstream_gene_variant"	"-/2291"	""	""	""	""	""	"1"	"4785"	-1	"RP11-255H23.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAGGTGGAGGAGGACA"	"4072327a-2764-11e6-857b-9bdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"1320"	"AC093074.1"	0	"mskcc.org"	"GRCh37"	"19"	28882858	28882858	"+"	"3'Flank"	"DEL"	"G"	"-"	"-"	"rs35632294"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000590280"	""	6	"."	6	2	"."	0	"AC093074.1,downstream_gene_variant,,ENST00000590280,;"	"-"	"ENSG00000267238"	"ENST00000590280"	"Transcript"	"downstream_gene_variant"	"-/556"	""	""	""	""	"rs35632294"	"1"	"2900"	-1	"AC093074.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.3363"	"-:0.4917"	"-:0.8256"	NA	"-:0.7153"	"-:0.7296"	"-:0.6605"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"36b76f0c-2764-11e6-857b-9bdd414a729f"	"352"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"1321"	"CTC-478M6.1"	0	"mskcc.org"	"GRCh37"	"19"	29283942	29283943	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs373451387"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000590286"	""	26	"."	3	6	"."	0	"CTC-478M6.1,upstream_gene_variant,,ENST00000590286,;"	"C"	"ENSG00000267799"	"ENST00000590286"	"Transcript"	"upstream_gene_variant"	"-/1400"	""	""	""	""	"rs373451387"	"1"	"164"	-1	"CTC-478M6.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.2043"	"C:0.2511"	"C:0.2464"	NA	"C:0.1766"	"C:0.1918"	"C:0.1524"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"46839532-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WXS"	FALSE
"1322"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	33045216	33045220	"+"	"IGR"	"DEL"	"TTTAG"	"TTTAG"	"-"	"rs200392308"	NA	"JHCCPT1"	"JHCCPN1"	"TTTAG"	"TTTAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200392308"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3658"	"-:0.3427"	"-:0.3963"	NA	"-:0.4315"	"-:0.3072"	"-:0.3681"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTTTAGT"	"36fb81ba-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1323"	"TDRD12"	91646	"mskcc.org"	"GRCh37"	"19"	33302029	33302030	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs112360717"	NA	"JHCCPT1"	"JHCCPN1"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2838-84_2838-83delAT"	""	""	"ENST00000444215"	""	29	"."	11	8	"."	0	"TDRD12,intron_variant,,ENST00000444215,;TDRD12,upstream_gene_variant,,ENST00000564769,;"	"-"	"ENSG00000173809"	"ENST00000444215"	"Transcript"	"intron_variant"	"-/3934"	"-/3534"	"-/1177"	""	""	"rs112360717"	"1"	NA	1	"TDRD12"	"HGNC"	25044	"protein_coding"	""	""	"ENSP00000416248"	"Q587J7"	""	"UPI0000251D93"	""	NA	NA	""	"23/27"	""	"-:0.1274"	"-:0.1906"	"-:0.0576"	NA	"-:0.2361"	"-:0.0278"	"-:0.0818"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTAT"	"370599c0-2764-11e6-857b-9bdd414a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.379310344827586	"WXS"	FALSE
"1324"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	34039278	34039279	"+"	"IGR"	"INS"	"-"	"-"	"TTGGCTCACTGCAACCT"	"rs575386430"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"TTGGCTCACTGCAACCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs575386430"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1689"	"TTGGCTCACTGCAACCTTTGGCTCACTGCAA:0.8797"	"TTGGCTCACTGCAACCTTTGGCTCACTGCAA:0.8948"	NA	"TTGGCTCACTGCAACCTTTGGCTCACTGCAA:0.6935"	"TTGGCTCACTGCAACCTTTGGCTCACTGCAA:0.8062"	"TTGGCTCACTGCAACCTTTGGCTCACTGCAA:0.8875"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"46f17a8e-2764-11e6-857b-9bdd414a729f"	"229"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1325"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	34342348	34342349	"+"	"IGR"	"INS"	"-"	"-"	"AACATCTTCTCCACGTACCATT"	"rs143944680"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"AACATCTTCTCCACGTACCATT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143944680"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2294"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"46f4b0aa-2764-11e6-857b-9bdd414a729f"	"212"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1326"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	34536072	34536073	"+"	"IGR"	"INS"	"-"	"-"	"AAAGAAAGAAAGAAGAAAGAAAGAAAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	4	9	"."	0	""	"AAAGAAAGAAAGAAGAAAGAAAGAAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"46f54952-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"1327"	"SCGB2B2"	284402	"mskcc.org"	"GRCh37"	"19"	35136431	35136450	"+"	"Intron"	"DEL"	"ACACACACAGACACAGACAC"	"ACACACACAGACACAGACAC"	"-"	"rs148334128"	NA	"JHCCPT1"	"JHCCPN1"	"ACACACACAGACACAGACAC"	"ACACACACAGACACAGACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-2032+30085_-2032+30104delGTGTCTGTGTCTGTGTGTGT"	""	""	"ENST00000601241"	""	14	"."	4	3	"."	0	"SCGB2B2,intron_variant,,ENST00000601241,;CTD-2553L13.4,upstream_gene_variant,,ENST00000599404,;SCGB2B3P,upstream_gene_variant,,ENST00000599388,;"	"-"	"ENSG00000205209"	"ENST00000601241"	"Transcript"	"intron_variant"	"-/2505"	"-/291"	"-/96"	""	""	"rs148334128"	"1"	NA	-1	"SCGB2B2"	"HGNC"	27616	"protein_coding"	"YES"	"CCDS32989.1"	"ENSP00000469876"	"Q4G0G5"	""	"UPI0000252071"	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGACACACACAGACACAGACACA"	"3758e79c-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1328"	"FXYD3"	5349	"mskcc.org"	"GRCh37"	"19"	35610564	35610577	"+"	"Intron"	"DEL"	"TTTGTTTTTGTTTT"	"TTTGTTTTTGTTTT"	"GTTTTGTTTTGTT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TTTGTTTTTGTTTT"	"TTTGTTTTTGTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.211+244_211+255delTTTGTTTTTGTTinsGTTTTGTTTTG"	""	""	"ENST00000604255"	""	32	"."	4	15	"."	0	"FXYD3,intron_variant,,ENST00000435734,NM_021910.2,NM_001136011.1;FXYD3,intron_variant,,ENST00000344013,;FXYD3,intron_variant,,ENST00000604404,NM_005971.3,NM_001136012.1;FXYD3,intron_variant,,ENST00000346446,;FXYD3,intron_variant,,ENST00000605552,;FXYD3,intron_variant,,ENST00000604255,NM_001136007.1;FXYD3,intron_variant,,ENST00000406242,NM_001136008.1;FXYD3,intron_variant,,ENST00000454903,NM_001136009.1,NM_001136010.1;FXYD3,intron_variant,,ENST00000603181,;FXYD3,intron_variant,,ENST00000603524,;FXYD3,intron_variant,,ENST00000605677,;FXYD3,intron_variant,,ENST00000535103,;FXYD3,intron_variant,,ENST00000605550,;FXYD3,intron_variant,,ENST00000603449,;FXYD3,intron_variant,,ENST00000604804,;FXYD3,intron_variant,,ENST00000604621,;FXYD3,intron_variant,,ENST00000406988,;LGI4,downstream_gene_variant,,ENST00000392225,;LGI4,downstream_gene_variant,,ENST00000310123,NM_139284.2;LGI4,downstream_gene_variant,,ENST00000493050,;FXYD3,non_coding_transcript_exon_variant,,ENST00000604504,;"	"GTTTTGTTTTG"	"ENSG00000089356"	"ENST00000604255"	"Transcript"	"intron_variant"	"-/780"	"-/435"	"-/144"	""	""	""	"1"	NA	1	"FXYD3"	"HGNC"	4027	"protein_coding"	"YES"	"CCDS46048.1"	"ENSP00000473929"	"Q14802"	"S4R3M2"	"UPI0001823FD9"	"NM_001136007.1"	NA	NA	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTGTTTTTGTTTTT"	"407c1f10-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"1329"	"FAM187B"	148109	"mskcc.org"	"GRCh37"	"19"	35718450	35718451	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs75987558"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.722+411dupA"	""	""	"ENST00000324675"	""	9	"."	5	1	"."	0	"FAM187B,intron_variant,,ENST00000324675,NM_152481.1;FAM187B2P,downstream_gene_variant,,ENST00000577135,;"	"T"	"ENSG00000177558"	"ENST00000324675"	"Transcript"	"intron_variant"	"-/1184"	"-/1110"	"-/369"	""	""	"rs75987558"	"1"	NA	-1	"FAM187B"	"HGNC"	26366	"protein_coding"	"YES"	"CCDS12448.1"	"ENSP00000323355"	"Q17R55"	""	"UPI0000049306"	"NM_152481.1"	NA	NA	""	"1/1"	""	"T:0.1208"	"T:0.0098"	"T:0.2017"	NA	"T:0.1567"	"T:0.1412"	"T:0.1554"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"472f1b96-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"1330"	"GPR42"	0	"mskcc.org"	"GRCh37"	"19"	35866390	35866391	"+"	"3'Flank"	"INS"	"-"	"-"	"AGAAAGAAAGAAAGAGAGAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000454971"	""	7	"."	4	2	"."	0	"GPR42,downstream_gene_variant,,ENST00000454971,;GPR42,downstream_gene_variant,,ENST00000597214,;"	"AGAAAGAAAGAAAGAGAGAG"	"ENSG00000126251"	"ENST00000454971"	"Transcript"	"downstream_gene_variant"	"-/1795"	"-/1041"	"-/346"	""	""	""	"1"	"2535"	1	"GPR42"	"HGNC"	4500	"protein_coding"	"YES"	""	"ENSP00000410925"	"O15529"	""	"UPI0000040740"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"473571da-2764-11e6-857b-9bdd414a729f"	"220"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1331"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	35949324	35949325	"+"	"IGR"	"INS"	"-"	"-"	"TAGA"	"rs140240089"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"TAGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140240089"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3391"	"TAGA:0.6747"	"TAGA:0.7003"	NA	"TAGA:0.6627"	"TAGA:0.5825"	"TAGA:0.6933"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"473a3e0e-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1332"	"GAPDHS"	26330	"mskcc.org"	"GRCh37"	"19"	36028981	36028982	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs59068277"	NA	"JHCCPT1"	"JHCCPN1"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.246-212_246-211delAT"	""	""	"ENST00000222286"	""	8	"."	5	1	"."	0	"GAPDHS,intron_variant,,ENST00000222286,NM_014364.4;GAPDHS,intron_variant,,ENST00000585510,;AD000090.2,downstream_gene_variant,,ENST00000588286,;AD000090.2,downstream_gene_variant,,ENST00000590717,;AD000090.2,downstream_gene_variant,,ENST00000589137,;AD000090.2,downstream_gene_variant,,ENST00000590125,;AD000090.2,downstream_gene_variant,,ENST00000444728,;GAPDHS,intron_variant,,ENST00000586334,;"	"-"	"ENSG00000105679"	"ENST00000222286"	"Transcript"	"intron_variant"	"-/1489"	"-/1227"	"-/408"	""	""	"rs59068277"	"1"	NA	1	"GAPDHS"	"HGNC"	24864	"protein_coding"	"YES"	"CCDS12465.1"	"ENSP00000222286"	"O14556"	"K7EP73"	"UPI000012AE83"	"NM_014364.4"	NA	NA	""	"2/10"	""	"AT:0.3602"	"-:0.5257"	"-:0.6729"	NA	"-:0.7331"	"-:0.6153"	"-:0.6994"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAATA"	"37e7e320-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1333"	"SDHAF1"	644096	"mskcc.org"	"GRCh37"	"19"	36481713	36481714	"+"	"5'Flank"	"INS"	"-"	"-"	"AGGAGGA"	"rs748886371"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000378887"	""	19	"."	3	10	"."	0	"SDHAF1,upstream_gene_variant,,ENST00000378887,NM_001042631.2;"	"AGGAGGA"	"ENSG00000205138"	"ENST00000378887"	"Transcript"	"upstream_gene_variant"	"-/1131"	"-/348"	"-/115"	""	""	"rs748886371"	"1"	"4376"	1	"SDHAF1"	"HGNC"	33867	"protein_coding"	"YES"	"CCDS32999.1"	"ENSP00000368165"	"A6NFY7"	""	"UPI0000161497"	"NM_001042631.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"476b193e-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WXS"	FALSE
"1334"	"TBCB"	1155	"mskcc.org"	"GRCh37"	"19"	36612102	36612102	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11310846"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.356-326delT"	""	""	"ENST00000221855"	""	10	"."	6	3	"."	0	"TBCB,intron_variant,,ENST00000221855,NM_001281.2;TBCB,intron_variant,,ENST00000585746,;TBCB,intron_variant,,ENST00000588385,;TBCB,intron_variant,,ENST00000589996,;TBCB,intron_variant,,ENST00000586868,;TBCB,downstream_gene_variant,,ENST00000591296,;TBCB,intron_variant,,ENST00000392178,;TBCB,intron_variant,,ENST00000589308,;TBCB,upstream_gene_variant,,ENST00000468156,;TBCB,intron_variant,,ENST00000585910,;TBCB,downstream_gene_variant,,ENST00000481742,;TBCB,downstream_gene_variant,,ENST00000589624,;"	"-"	"ENSG00000105254"	"ENST00000221855"	"Transcript"	"intron_variant"	"-/1473"	"-/735"	"-/244"	""	""	"rs11310846"	"1"	NA	1	"TBCB"	"HGNC"	1989	"protein_coding"	"YES"	"CCDS12488.1"	"ENSP00000221855"	"Q99426"	"Q6FGY5,K7EP07"	"UPI0000136A4B"	"NM_001281.2"	NA	NA	""	"3/5"	""	"T:0.0675"	"-:0.9576"	"-:0.9308"	NA	"-:1"	"-:0.9056"	"-:0.8579"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"3855e104-2764-11e6-857b-9bdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"1335"	"SPINT2"	10653	"mskcc.org"	"GRCh37"	"19"	38758289	38758290	"+"	"Intron"	"INS"	"-"	"-"	"GGG"	"rs544253065"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.106+2656_106+2658dupGGG"	""	""	"ENST00000301244"	""	12	"."	4	5	"."	0	"SPINT2,intron_variant,,ENST00000301244,NM_021102.3;SPINT2,intron_variant,,ENST00000454580,NM_001166103.1;SPINT2,intron_variant,,ENST00000587090,;SPINT2,intron_variant,,ENST00000587516,;SPINT2,intron_variant,,ENST00000592007,;SPINT2,intron_variant,,ENST00000590510,;SPINT2,intron_variant,,ENST00000590210,;"	"GGG"	"ENSG00000167642"	"ENST00000301244"	"Transcript"	"intron_variant"	"-/1802"	"-/759"	"-/252"	""	""	"rs544253065"	"1"	NA	1	"SPINT2"	"HGNC"	11247	"protein_coding"	"YES"	"CCDS12510.1"	"ENSP00000301244"	"O43291"	"K7EM91,K7EKC8,K7EJS4"	"UPI0000135E8E"	"NM_021102.3"	NA	NA	""	"1/6"	""	"GG:0.2384"	"GG:0.0825"	"GG:0.33"	NA	"GG:0.2827"	"GG:0.2247"	"GG:0.3528"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"47b85fd2-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1336"	"CAPN12"	147968	"mskcc.org"	"GRCh37"	"19"	39227652	39227652	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs71165571"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1362+144delG"	""	""	"ENST00000328867"	""	7	"."	3	6	"."	0	"CAPN12,intron_variant,,ENST00000328867,NM_144691.3;CAPN12,intron_variant,,ENST00000601953,;CAPN12,upstream_gene_variant,,ENST00000597987,;CAPN12,downstream_gene_variant,,ENST00000598684,;CAPN12,upstream_gene_variant,,ENST00000595177,;CTD-2540F13.2,upstream_gene_variant,,ENST00000602255,;CAPN12,upstream_gene_variant,,ENST00000601685,;CAPN12,upstream_gene_variant,,ENST00000597716,;CAPN12,upstream_gene_variant,,ENST00000593700,;CAPN12,upstream_gene_variant,,ENST00000594552,;CAPN12,upstream_gene_variant,,ENST00000594497,;CAPN12,upstream_gene_variant,,ENST00000597354,;"	"-"	"ENSG00000182472"	"ENST00000328867"	"Transcript"	"intron_variant"	"-/2762"	"-/2160"	"-/719"	""	""	"rs71165571"	"1"	NA	-1	"CAPN12"	"HGNC"	13249	"protein_coding"	"YES"	"CCDS12519.1"	"ENSP00000331636"	"Q6ZSI9"	"M0R3D7"	"UPI00001C0E17"	"NM_144691.3"	NA	NA	""	"10/20"	""	"C:0.4681"	"-:0.4153"	"-:0.4611"	NA	"-:0.6022"	"-:0.5427"	"-:0.6564"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"38e8e8e6-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1337"	"CYP2A6"	1548	"mskcc.org"	"GRCh37"	"19"	41344569	41344570	"+"	"3'Flank"	"INS"	"-"	"-"	"TTTCTTTCTTTCCTTCTTTCT"	"rs11271389"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000301141"	""	21	"."	5	15	"."	0	"CYP2A6,downstream_gene_variant,,ENST00000301141,NM_000762.5;CTC-490E21.10,upstream_gene_variant,,ENST00000596135,;CTC-490E21.12,intron_variant,,ENST00000601627,;CYP2A6,downstream_gene_variant,,ENST00000599960,;"	"TTTCTTTCTTTCCTTCTTTCT"	"ENSG00000255974"	"ENST00000301141"	"Transcript"	"downstream_gene_variant"	"-/1764"	"-/1485"	"-/494"	""	""	"rs11271389"	"1"	"4873"	-1	"CYP2A6"	"HGNC"	2610	"protein_coding"	"YES"	"CCDS12568.1"	"ENSP00000301141"	"P11509"	""	"UPI000013E6D2"	"NM_000762.5"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"4844896c-2764-11e6-857b-9bdd414a729f"	"222"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WXS"	FALSE
"1338"	"CYP2B7P"	1556	"mskcc.org"	"GRCh37"	"19"	41429823	41429826	"+"	"5'Flank"	"DEL"	"AAAC"	"AAAC"	"-"	"rs10543656"	NA	"JHCCPT1"	"JHCCPN1"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000599198"	""	20	"."	5	6	"."	0	"CYP2B7P,upstream_gene_variant,,ENST00000599198,;CYP2B7P,upstream_gene_variant,,ENST00000599831,;CYP2B7P,upstream_gene_variant,,ENST00000593298,;CYP2B7P,upstream_gene_variant,,ENST00000541697,;"	"-"	"ENSG00000256612"	"ENST00000599198"	"Transcript"	"upstream_gene_variant"	"-/2956"	""	""	""	""	"rs10543656"	"1"	"298"	1	"CYP2B7P"	"HGNC"	2616	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3882"	"-:0.3593"	"-:0.4452"	NA	"-:0.3036"	"-:0.3877"	"-:0.4744"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAAACA"	"39c19010-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1339"	"PSG11"	5680	"mskcc.org"	"GRCh37"	"19"	43530641	43530641	"+"	"5'Flank"	"DEL"	"T"	"-"	"-"	"rs60941975"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000401740"	""	6	"."	5	1	"."	0	"PSG11,5_prime_UTR_variant,,ENST00000320078,NM_002785.2;PSG11,upstream_gene_variant,,ENST00000401740,;PSG11,upstream_gene_variant,,ENST00000403486,NM_203287.1,NM_001113410.1;PSG11,upstream_gene_variant,,ENST00000598133,;PSG11,upstream_gene_variant,,ENST00000306322,;PSG11,upstream_gene_variant,,ENST00000593983,;PSG11,upstream_gene_variant,,ENST00000595138,;PSG11,upstream_gene_variant,,ENST00000594655,;PSG11,upstream_gene_variant,,ENST00000597093,;PSG11,upstream_gene_variant,,ENST00000599245,;PSG11,upstream_gene_variant,,ENST00000488205,;"	"-"	"ENSG00000243130"	"ENST00000401740"	"Transcript"	"upstream_gene_variant"	"-/1576"	"-/1008"	"-/335"	""	""	"rs60941975"	"1"	"13"	-1	"PSG11"	"HGNC"	9516	"protein_coding"	"YES"	"CCDS12614.2"	"ENSP00000384995"	"Q9UQ72"	""	"UPI000004EE8C"	""	NA	NA	""	""	""	"T:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTG"	"3a16c4f4-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1340"	"CTC-490G23.2"	0	"mskcc.org"	"GRCh37"	"19"	43835876	43835887	"+"	"5'Flank"	"DEL"	"ACACACACAGAG"	"ACACACACAGAG"	"-"	"rs71685477"	NA	"JHCCPT1"	"JHCCPN1"	"ACACACACAGAG"	"ACACACACAGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000595748"	""	14	"."	4	5	"."	0	"CTC-490G23.2,upstream_gene_variant,,ENST00000595748,;"	"-"	"ENSG00000231412"	"ENST00000595748"	"Transcript"	"upstream_gene_variant"	"-/301"	""	""	""	""	"rs71685477"	"1"	"294"	-1	"CTC-490G23.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATACACACACAGAGA"	"3a19a3e0-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1341"	"XRCC1"	7515	"mskcc.org"	"GRCh37"	"19"	44081059	44081060	"+"	"5'Flank"	"INS"	"-"	"-"	"GGCC"	"rs3213239"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000262887"	""	15	"."	5	4	"."	0	"XRCC1,intron_variant,,ENST00000598165,;XRCC1,intron_variant,,ENST00000599693,;L34079.2,intron_variant,,ENST00000594374,;XRCC1,upstream_gene_variant,,ENST00000262887,;XRCC1,upstream_gene_variant,,ENST00000543982,NM_006297.2;PINLYP,upstream_gene_variant,,ENST00000599207,NM_001193621.1;PINLYP,upstream_gene_variant,,ENST00000562365,;XRCC1,upstream_gene_variant,,ENST00000594107,;PINLYP,upstream_gene_variant,,ENST00000562255,NM_001193622.1;PINLYP,upstream_gene_variant,,ENST00000569031,;L34079.4,downstream_gene_variant,,ENST00000600242,;PINLYP,non_coding_transcript_exon_variant,,ENST00000244321,;PINLYP,upstream_gene_variant,,ENST00000413422,;XRCC1,upstream_gene_variant,,ENST00000595789,;XRCC1,upstream_gene_variant,,ENST00000594511,;"	"GGCC"	"ENSG00000073050"	"ENST00000262887"	"Transcript"	"upstream_gene_variant"	"-/2802"	"-/1902"	"-/633"	""	""	"rs3213239"	"1"	"901"	-1	"XRCC1"	"HGNC"	12828	"protein_coding"	"YES"	"CCDS12624.1"	"ENSP00000262887"	"P18887"	"M4WFF9"	"UPI000013D351"	""	NA	NA	""	""	""	"-:0.2985"	"GGCC:0.6263"	"GGCC:0.7911"	NA	"GGCC:0.878"	"GGCC:0.6133"	"GGCC:0.6483"	""	""	NA	NA	"17425776,19604089"	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"48917272-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1342"	"IGSF23"	147710	"mskcc.org"	"GRCh37"	"19"	45138677	45138678	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"rs375878000"	NA	"JHCCPT1"	"JHCCPN1"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.546-10_546-9delTC"	""	""	"ENST00000402988"	""	136	"."	6	90	"."	0	"IGSF23,intron_variant,,ENST00000402988,NM_001205280.1;IGSF23,intron_variant,,ENST00000428245,;IGSF23,intron_variant,,ENST00000441389,;CTB-171A8.1,intron_variant,,ENST00000590796,;"	"-"	"ENSG00000216588"	"ENST00000402988"	"Transcript"	"intron_variant"	"-/989"	"-/579"	"-/192"	""	""	"rs375878000"	"1"	NA	1	"IGSF23"	"HGNC"	40040	"protein_coding"	"YES"	"CCDS54277.1"	"ENSP00000385592"	"A1L1A6"	""	"UPI0000EE6D20"	"NM_001205280.1"	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"14"	NA	"1"	"0.1732"	"0.3254"	"0.375"	"0.3229"	"0.1412"	"0.4008"	"0.2917"	"0.4273"	NA	"common_variant"	"TGTCT"	"3a991aa8-2764-11e6-857b-9bdd414a729f"	"360"	0.3909	"2422/6196"	"2657/15340"	"41/126"	"24/64"	"31/96"	"74/524"	"598/1492"	"21/72"	"1633/3822"	"PASS"	"FALSE"	0.0441176470588235	"WXS"	FALSE
"1343"	"KLC3"	147700	"mskcc.org"	"GRCh37"	"19"	45852955	45852955	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1143+103delG"	""	""	"ENST00000391946"	""	37	"."	3	49	"."	0	"KLC3,intron_variant,,ENST00000589373,;KLC3,intron_variant,,ENST00000470402,;KLC3,intron_variant,,ENST00000391946,NM_177417.2;KLC3,intron_variant,,ENST00000585434,;ERCC2,downstream_gene_variant,,ENST00000391945,NM_000400.3;ERCC2,downstream_gene_variant,,ENST00000391941,;ERCC2,downstream_gene_variant,,ENST00000391944,;KLC3,downstream_gene_variant,,ENST00000589837,;KLC3,downstream_gene_variant,,ENST00000590063,;ERCC2,downstream_gene_variant,,ENST00000588652,;ERCC2,downstream_gene_variant,,ENST00000391942,;KLC3,downstream_gene_variant,,ENST00000494686,;ERCC2,downstream_gene_variant,,ENST00000587376,;"	"-"	"ENSG00000104892"	"ENST00000391946"	"Transcript"	"intron_variant"	"-/1780"	"-/1515"	"-/504"	""	""	""	"1"	NA	1	"KLC3"	"HGNC"	20717	"protein_coding"	"YES"	"CCDS12660.2"	"ENSP00000375810"	"Q6P597"	"K7ELP9,K7EL76"	"UPI000007022B"	"NM_177417.2"	NA	NA	""	"8/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"3af1c248-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WXS"	FALSE
"1344"	"OPA3"	80207	"mskcc.org"	"GRCh37"	"19"	46067561	46067578	"+"	"Intron"	"DEL"	"GCAGGTAGAGGGAAGAAG"	"GCAGGTAGAGGGAAGAAG"	"CAGGTAGAGGGAAGAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GCAGGTAGAGGGAAGAAG"	"GCAGGTAGAGGGAAGAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.142+20303_142+20320delCTTCTTCCCTCTACCTGCinsTTCTTCCCTCTACCTG"	""	""	"ENST00000323060"	""	14	"."	3	3	"."	0	"OPA3,intron_variant,,ENST00000263275,NM_025136.3;OPA3,intron_variant,,ENST00000323060,NM_001017989.2;OPA3,intron_variant,,ENST00000544371,;"	"CAGGTAGAGGGAAGAA"	"ENSG00000125741"	"ENST00000323060"	"Transcript"	"intron_variant"	"-/2250"	"-/543"	"-/180"	""	""	""	"1"	NA	-1	"OPA3"	"HGNC"	8142	"protein_coding"	"YES"	"CCDS33052.1"	"ENSP00000319817"	"Q9H6K4"	""	"UPI0000140FD5"	"NM_001017989.2"	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGGCAGGTAGAGGGAAGAAGG"	"40982598-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"1345"	"SYMPK"	8189	"mskcc.org"	"GRCh37"	"19"	46329782	46329782	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs28362500"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2182-151delA"	""	""	"ENST00000245934"	""	40	"."	15	18	"."	0	"SYMPK,intron_variant,,ENST00000245934,NM_004819.2;AC092301.3,upstream_gene_variant,,ENST00000601618,;SYMPK,upstream_gene_variant,,ENST00000598155,;SYMPK,intron_variant,,ENST00000599814,;SYMPK,intron_variant,,ENST00000599460,;SYMPK,intron_variant,,ENST00000600237,;SYMPK,intron_variant,,ENST00000593504,;SYMPK,downstream_gene_variant,,ENST00000598896,;SYMPK,upstream_gene_variant,,ENST00000598329,;"	"-"	"ENSG00000125755"	"ENST00000245934"	"Transcript"	"intron_variant"	"-/4195"	"-/3825"	"-/1274"	""	""	"rs28362500"	"1"	NA	-1	"SYMPK"	"HGNC"	22935	"protein_coding"	"YES"	"CCDS12676.2"	"ENSP00000245934"	"Q92797"	"M0R1C2,M0R180,M0R039,M0QXP5"	"UPI00002026C0"	"NM_004819.2"	NA	NA	""	"16/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTG"	"3b260a58-2764-11e6-857b-9bdd414a729f"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1346"	"MYPOP"	339344	"mskcc.org"	"GRCh37"	"19"	46409125	46409126	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs5828253"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000322217"	""	6	"."	4	1	"."	0	"MYPOP,upstream_gene_variant,,ENST00000322217,NM_001012643.2;"	"G"	"ENSG00000176182"	"ENST00000322217"	"Transcript"	"upstream_gene_variant"	"-/1890"	"-/1200"	"-/399"	""	""	"rs5828253"	"1"	"3263"	-1	"MYPOP"	"HGNC"	20178	"protein_coding"	"YES"	"CCDS33055.1"	"ENSP00000325402"	"Q86VE0"	""	"UPI00001984F8"	"NM_001012643.2"	NA	NA	""	""	""	"-:0.0002"	"G:0.9992"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"494f93c4-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1347"	"NOVA2"	4858	"mskcc.org"	"GRCh37"	"19"	46432714	46432715	"+"	"3'Flank"	"INS"	"-"	"-"	"AG"	"rs112409757"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000263257"	""	14	"."	4	6	"."	0	"NOVA2,downstream_gene_variant,,ENST00000263257,NM_002516.2;"	"AG"	"ENSG00000104967"	"ENST00000263257"	"Transcript"	"downstream_gene_variant"	"-/7803"	"-/1479"	"-/492"	""	""	"rs112409757"	"1"	"4277"	-1	"NOVA2"	"HGNC"	7887	"protein_coding"	"YES"	"CCDS12679.1"	"ENSP00000263257"	"Q9UNW9"	"Q9HDB7,M0R1A0"	"UPI000006EBE8"	"NM_002516.2"	NA	NA	""	""	""	"AG:0.3343"	"AG:0.3896"	"AG:0.4841"	NA	"AG:0.3185"	"AG:0.2734"	"AG:0.2321"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"49506d4e-2764-11e6-857b-9bdd414a729f"	"188"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1348"	"BBC3"	27113	"mskcc.org"	"GRCh37"	"19"	47736342	47736343	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs61242858"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000449228"	""	8	"."	3	3	"."	0	"BBC3,upstream_gene_variant,,ENST00000439096,NM_014417.4;BBC3,upstream_gene_variant,,ENST00000449228,NM_001127240.2;BBC3,upstream_gene_variant,,ENST00000341983,NM_001127241.2;BBC3,upstream_gene_variant,,ENST00000300880,NM_001127242.2;"	"C"	"ENSG00000105327"	"ENST00000449228"	"Transcript"	"upstream_gene_variant"	"-/1827"	"-/786"	"-/261"	""	""	"rs61242858"	"1"	"319"	-1	"BBC3"	"HGNC"	17868	"protein_coding"	"YES"	"CCDS46129.1"	"ENSP00000404503"	"Q96PG8"	""	"UPI000013E6A8"	"NM_001127240.2"	NA	NA	""	""	""	"-:0.1048"	"C:0.9652"	"C:0.8934"	NA	"C:0.8651"	"C:0.8499"	"C:0.8793"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"4978589a-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1349"	"TPRX2P"	0	"mskcc.org"	"GRCh37"	"19"	48356292	48356293	"+"	"Intron"	"INS"	"-"	"-"	"TC"	"rs145845378"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.101-7077_101-7076insCT"	""	""	"ENST00000535362"	""	10	"."	5	2	"."	0	"TPRX2P,intron_variant,,ENST00000535362,;"	"TC"	"ENSG00000259009"	"ENST00000535362"	"Transcript"	"intron_variant"	"-/981"	"-/981"	"-/326"	""	""	"rs145845378"	"1"	NA	1	"TPRX2P"	"HGNC"	32175	"protein_coding"	"YES"	""	"ENSP00000440389"	""	"F5GXB4"	"UPI00020654F9"	""	NA	NA	""	"1/2"	""	"-:0.4906"	"TC:0.8828"	"TC:0.3674"	NA	"TC:0.0952"	"TC:0.502"	"TC:0.5399"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"49a4482e-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1350"	"CABP5"	56344	"mskcc.org"	"GRCh37"	"19"	48546790	48546791	"+"	"Intron"	"INS"	"-"	"-"	"CACCATCACCACCATCT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.63+326_63+327insAGATGGTGGTGATGGTG"	""	""	"ENST00000293255"	""	27	"."	3	11	"."	0	"CABP5,intron_variant,,ENST00000293255,NM_019855.4;PLA2G4C,downstream_gene_variant,,ENST00000354276,NM_001159323.1;PLA2G4C,downstream_gene_variant,,ENST00000599111,NM_003706.2,NM_001159322.1;PLA2G4C,downstream_gene_variant,,ENST00000599921,;PLA2G4C,downstream_gene_variant,,ENST00000413144,;CABP5,intron_variant,,ENST00000602032,;PLA2G4C,downstream_gene_variant,,ENST00000594790,;"	"CACCATCACCACCATCT"	"ENSG00000105507"	"ENST00000293255"	"Transcript"	"intron_variant"	"-/1257"	"-/522"	"-/173"	""	""	""	"1"	NA	-1	"CABP5"	"HGNC"	13714	"protein_coding"	"YES"	"CCDS12709.1"	"ENSP00000293255"	"Q9NP86"	""	"UPI0000126D6A"	"NM_019855.4"	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"49aa719a-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WXS"	FALSE
"1351"	"CCDC114"	93233	"mskcc.org"	"GRCh37"	"19"	48811767	48811768	"+"	"Intron"	"DEL"	"AA"	"AA"	"-"	"rs35411519"	NA	"JHCCPT1"	"JHCCPN1"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.487-2188_487-2187delTT"	""	""	"ENST00000315396"	""	8	"."	3	2	"."	0	"CCDC114,intron_variant,,ENST00000315396,NM_144577.3;CCDC114,intron_variant,,ENST00000504608,;CCDC114,intron_variant,,ENST00000474199,;"	"-"	"ENSG00000105479"	"ENST00000315396"	"Transcript"	"intron_variant"	"-/3215"	"-/2013"	"-/670"	""	""	"rs35411519"	"1"	NA	-1	"CCDC114"	"HGNC"	26560	"protein_coding"	"YES"	"CCDS12714.2"	"ENSP00000318429"	"Q96M63"	""	"UPI0000EE7B5F"	"NM_144577.3"	NA	NA	""	"5/13"	""	"-:0.2504"	"-:0.4743"	"-:0.1383"	NA	"-:0.123"	"-:0.2028"	"-:0.2076"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATAAA"	"3bbc9568-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1352"	"RASIP1"	54922	"mskcc.org"	"GRCh37"	"19"	49232029	49232030	"+"	"Intron"	"INS"	"-"	"-"	"CAAA"	"rs147766034"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1833+161_1833+164dupTTTG"	""	""	"ENST00000222145"	""	17	"."	3	2	"."	0	"RASIP1,intron_variant,,ENST00000222145,NM_017805.2;RASIP1,intron_variant,,ENST00000599291,;RASIP1,downstream_gene_variant,,ENST00000594232,;RASIP1,upstream_gene_variant,,ENST00000601530,;"	"CAAA"	"ENSG00000105538"	"ENST00000222145"	"Transcript"	"intron_variant"	"-/3308"	"-/2892"	"-/963"	""	""	"rs147766034"	"1"	NA	-1	"RASIP1"	"HGNC"	24716	"protein_coding"	"YES"	"CCDS12731.1"	"ENSP00000222145"	"Q5U651"	"Q9NX72,Q7L251,B3KVR5"	"UPI000020283D"	"NM_017805.2"	NA	NA	""	"5/11"	""	"-:0.4720"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"49d80204-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"1353"	"BCAT2"	587	"mskcc.org"	"GRCh37"	"19"	49315773	49315773	"+"	"5'Flank"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000316273"	""	8	"."	4	4	"."	0	"BCAT2,upstream_gene_variant,,ENST00000402551,NM_001284325.1;BCAT2,upstream_gene_variant,,ENST00000597011,;BCAT2,upstream_gene_variant,,ENST00000316273,NM_001190.3;BCAT2,upstream_gene_variant,,ENST00000599246,;BCAT2,upstream_gene_variant,,ENST00000598162,;BCAT2,upstream_gene_variant,,ENST00000545387,NM_001164773.1;HSD17B14,downstream_gene_variant,,ENST00000263278,NM_016246.2;BCAT2,upstream_gene_variant,,ENST00000601681,;HSD17B14,downstream_gene_variant,,ENST00000599157,;HSD17B14,downstream_gene_variant,,ENST00000595764,;HSD17B14,downstream_gene_variant,,ENST00000596349,;BCAT2,upstream_gene_variant,,ENST00000601496,;BCAT2,upstream_gene_variant,,ENST00000596981,;BCAT2,upstream_gene_variant,,ENST00000595376,;"	"-"	"ENSG00000105552"	"ENST00000316273"	"Transcript"	"upstream_gene_variant"	"-/1552"	"-/1179"	"-/392"	""	""	""	"1"	"1496"	-1	"BCAT2"	"HGNC"	977	"protein_coding"	"YES"	"CCDS12735.1"	"ENSP00000322991"	"O15382"	"M0R2K7,B3KSI3"	"UPI00001267CC"	"NM_001190.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"3c12b970-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1354"	"HSD17B14"	51171	"mskcc.org"	"GRCh37"	"19"	49325018	49325020	"+"	"Intron"	"DEL"	"GAT"	"GAT"	"-"	"rs142533915"	NA	"JHCCPT1"	"JHCCPN1"	"GAT"	"GAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.370-6622_370-6620delATC"	""	""	"ENST00000263278"	""	13	"."	4	2	"."	0	"HSD17B14,intron_variant,,ENST00000263278,NM_016246.2;HSD17B14,intron_variant,,ENST00000599157,;HSD17B14,intron_variant,,ENST00000595764,;"	"-"	"ENSG00000087076"	"ENST00000263278"	"Transcript"	"intron_variant"	"-/1238"	"-/813"	"-/270"	""	""	"rs142533915"	"1"	NA	-1	"HSD17B14"	"HGNC"	23238	"protein_coding"	"YES"	"CCDS12736.1"	"ENSP00000263278"	"Q9BPX1"	""	"UPI000004FACC"	"NM_016246.2"	NA	NA	""	"5/8"	""	"-:0.0715"	"-:0.0091"	"-:0.1037"	NA	"-:0"	"-:0.2187"	"-:0.0552"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGATG"	"3c14ea88-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"1355"	"SNRNP70"	6625	"mskcc.org"	"GRCh37"	"19"	49590128	49590129	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs199903067"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.147+320dupA"	""	""	"ENST00000598441"	""	18	"."	4	11	"."	0	"SNRNP70,intron_variant,,ENST00000221448,NM_003089.4;SNRNP70,intron_variant,,ENST00000598441,;SNRNP70,intron_variant,,ENST00000598984,;SNRNP70,intron_variant,,ENST00000601411,;SNRNP70,intron_variant,,ENST00000401730,;SNRNP70,intron_variant,,ENST00000601065,;SNRNP70,intron_variant,,ENST00000595231,;SNRNP70,intron_variant,,ENST00000597936,;SNRNP70,intron_variant,,ENST00000599687,;"	"A"	"ENSG00000104852"	"ENST00000598441"	"Transcript"	"intron_variant"	"-/1574"	"-/1314"	"-/437"	""	""	"rs199903067"	"1"	NA	1	"SNRNP70"	"HGNC"	11150	"protein_coding"	"YES"	"CCDS12756.1"	"ENSP00000472998"	"P08621"	"Q9UFS1,M0QX04"	"UPI00001352E4"	""	NA	NA	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"49e8ba9a-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"1356"	"TRPM4"	54795	"mskcc.org"	"GRCh37"	"19"	49700731	49700742	"+"	"Intron"	"DEL"	"TCCTTCCTTCCT"	"TCCTTCCTTCCT"	"-"	"rs72044710"	NA	"JHCCPT1"	"JHCCPN1"	"TCCTTCCTTCCT"	"TCCTTCCTTCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2645+630_2645+641delCTTCCTTCCTTC"	""	""	"ENST00000252826"	""	13	"."	7	4	"."	0	"TRPM4,intron_variant,,ENST00000252826,NM_017636.3;TRPM4,intron_variant,,ENST00000427978,NM_001195227.1;TRPM4,intron_variant,,ENST00000355712,;TRPM4,intron_variant,,ENST00000596338,;TRPM4,intron_variant,,ENST00000595519,;TRPM4,intron_variant,,ENST00000598502,;TRPM4,intron_variant,,ENST00000598697,;TRPM4,intron_variant,,ENST00000595071,;TRPM4,downstream_gene_variant,,ENST00000595882,;"	"-"	"ENSG00000130529"	"ENST00000252826"	"Transcript"	"intron_variant"	"-/4109"	"-/3645"	"-/1214"	""	""	"rs72044710"	"1"	NA	1	"TRPM4"	"HGNC"	17993	"protein_coding"	"YES"	"CCDS33073.1"	"ENSP00000252826"	"Q8TD43"	""	"UPI0000070598"	"NM_017636.3"	NA	NA	""	"17/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"30"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCTCCTTCCTTCCTT"	"3c6428dc-2764-11e6-857b-9bdd414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.538461538461538	"WXS"	FALSE
"1357"	"NUP62"	23636	"mskcc.org"	"GRCh37"	"19"	50432447	50432447	"+"	"5'UTR"	"DEL"	"C"	"C"	"-"	"rs5828422"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1574delG"	""	""	"ENST00000596217"	"1/2"	9	"."	5	4	"."	0	"NUP62,5_prime_UTR_variant,,ENST00000596217,;ATF5,5_prime_UTR_variant,,ENST00000423777,NM_001193646.1;NUP62,intron_variant,,ENST00000422090,NM_001193357.1;NUP62,intron_variant,,ENST00000413454,NM_153718.3,NM_012346.4;NUP62,intron_variant,,ENST00000352066,NM_016553.4;IL4I1,intron_variant,,ENST00000595948,NM_001258018.1;IL4I1,intron_variant,,ENST00000341114,NM_001258017.1,NM_172374.2;NUP62,intron_variant,,ENST00000597029,;NUP62,intron_variant,,ENST00000597723,;ATF5,intron_variant,,ENST00000595125,NM_012068.5;NUP62,intron_variant,,ENST00000593652,;NUP62,intron_variant,,ENST00000596437,;IL4I1,intron_variant,,ENST00000596022,;IL4I1,intron_variant,,ENST00000596011,;IL4I1,intron_variant,,ENST00000597295,;NUP62,intron_variant,,ENST00000600935,;NUP62,intron_variant,,ENST00000599567,;NUP62,intron_variant,,ENST00000594673,;NUP62,intron_variant,,ENST00000599788,;NUP62,intron_variant,,ENST00000596680,;ATF5,upstream_gene_variant,,ENST00000597227,;ATF5,upstream_gene_variant,,ENST00000596658,;ATF5,upstream_gene_variant,,ENST00000600336,;MIR4751,upstream_gene_variant,,ENST00000578027,;NUP62,intron_variant,,ENST00000600583,;NUP62,intron_variant,,ENST00000599830,;NUP62,intron_variant,,ENST00000598301,;NUP62,intron_variant,,ENST00000595463,;NUP62,intron_variant,,ENST00000599560,;NUP62,intron_variant,,ENST00000601665,;NUP62,intron_variant,,ENST00000597814,;NUP62,intron_variant,,ENST00000599186,;IL4I1,intron_variant,,ENST00000601717,;CTC-326K19.6,intron_variant,,ENST00000451973,;"	"-"	"ENSG00000213024"	"ENST00000596217"	"Transcript"	"5_prime_UTR_variant"	"315/3590"	"-/1569"	"-/522"	""	""	"rs5828422"	"1"	NA	-1	"NUP62"	"HGNC"	8066	"protein_coding"	"YES"	"CCDS12788.1"	"ENSP00000471191"	"P37198"	"M0R302,M0R1S1,M0R0B7,M0QZL5,M0QYY0,M0QX64,M0QX41,M0QX13,M0QX10"	"UPI000013EAFD"	""	NA	NA	"1/2"	""	""	"C:0.4716"	"-:0.3941"	"-:0.5576"	NA	"-:0.8115"	"-:0.4602"	"-:0.4673"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTCC"	"3cf6d11e-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"1358"	"NR1H2"	7376	"mskcc.org"	"GRCh37"	"19"	50886190	50886191	"+"	"3'UTR"	"INS"	"-"	"-"	"G"	"rs11398433"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*334dupG"	""	""	"ENST00000253727"	"10/10"	12	"."	7	4	"."	0	"NR1H2,3_prime_UTR_variant,,ENST00000542413,;NR1H2,3_prime_UTR_variant,,ENST00000253727,NM_007121.5;NR1H2,3_prime_UTR_variant,,ENST00000598168,;NR1H2,3_prime_UTR_variant,,ENST00000599105,;NR1H2,3_prime_UTR_variant,,ENST00000593926,;POLD1,upstream_gene_variant,,ENST00000440232,NM_002691.3,NM_001256849.1;POLD1,upstream_gene_variant,,ENST00000599857,;NR1H2,downstream_gene_variant,,ENST00000411902,NM_001256647.1;NR1H2,downstream_gene_variant,,ENST00000597130,;NR1H2,downstream_gene_variant,,ENST00000597157,;POLD1,upstream_gene_variant,,ENST00000601098,;NR1H2,downstream_gene_variant,,ENST00000597790,;POLD1,upstream_gene_variant,,ENST00000593887,;NR1H2,3_prime_UTR_variant,,ENST00000593532,;POLD1,upstream_gene_variant,,ENST00000600859,;POLD1,upstream_gene_variant,,ENST00000600746,;NR1H2,downstream_gene_variant,,ENST00000597085,;NR1H2,downstream_gene_variant,,ENST00000595730,;"	"G"	"ENSG00000131408"	"ENST00000253727"	"Transcript"	"3_prime_UTR_variant"	"1949-1950/1998"	"-/1383"	"-/460"	""	""	"rs11398433"	"1"	NA	1	"NR1H2"	"HGNC"	7965	"protein_coding"	"YES"	"CCDS42593.1"	"ENSP00000253727"	"P55055"	"M0R3A7,M0R1V8,M0QZF5,M0QYE6,F1D8P7"	"UPI000013CDEE"	"NM_007121.5"	NA	NA	"10/10"	""	""	"-:0.0002"	"G:1"	"G:0.9986"	NA	"G:1"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"4a978930-2764-11e6-857b-9bdd414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"1359"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	50996483	50996484	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs56153001"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	6	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs56153001"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0000"	"A:1"	"A:1"	NA	"A:1"	"A:1"	"A:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"4a9dd13c-2764-11e6-857b-9bdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1360"	"SIGLEC9"	27180	"mskcc.org"	"GRCh37"	"19"	51630783	51630784	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs5828457"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1015+230_1015+231insT"	""	""	"ENST00000440804"	""	17	"."	5	7	"."	0	"SIGLEC9,intron_variant,,ENST00000440804,NM_001198558.1;SIGLEC9,intron_variant,,ENST00000250360,NM_014441.2;SIGLEC9,intron_variant,,ENST00000599948,;SIGLEC18P,downstream_gene_variant,,ENST00000602271,;"	"T"	"ENSG00000129450"	"ENST00000440804"	"Transcript"	"intron_variant"	"-/1960"	"-/1440"	"-/479"	""	""	"rs5828457"	"1"	NA	1	"SIGLEC9"	"HGNC"	10878	"protein_coding"	"YES"	"CCDS56100.1"	"ENSP00000413861"	""	""	"UPI00017A75A8"	"NM_001198558.1"	NA	NA	""	"4/6"	""	"-:0.3241"	"T:0.913"	"T:0.5086"	NA	"T:0.5744"	"T:0.5895"	"T:0.6677"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"4adff7ec-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"1361"	"SIGLEC6"	946	"mskcc.org"	"GRCh37"	"19"	52023853	52023854	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs11415518"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1189-345dupG"	""	""	"ENST00000425629"	""	8	"."	4	2	"."	0	"SIGLEC6,intron_variant,,ENST00000346477,NM_198845.4;SIGLEC6,intron_variant,,ENST00000425629,NM_001245.5;SIGLEC6,intron_variant,,ENST00000359982,NM_001177548.1;SIGLEC6,intron_variant,,ENST00000343300,NM_001177549.1,NM_198846.4;SIGLEC6,intron_variant,,ENST00000436458,NM_001177547.1;SIGLEC6,intron_variant,,ENST00000391797,;CTD-3073N11.9,downstream_gene_variant,,ENST00000598220,;SIGLEC6,intron_variant,,ENST00000474054,;"	"C"	"ENSG00000105492"	"ENST00000425629"	"Transcript"	"intron_variant"	"-/1852"	"-/1362"	"-/453"	""	""	"rs11415518"	"1"	NA	-1	"SIGLEC6"	"HGNC"	10875	"protein_coding"	"YES"	"CCDS12834.3"	"ENSP00000401502"	"O43699"	""	"UPI0000223FFD"	"NM_001245.5"	NA	NA	""	"7/7"	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"4b081ab0-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1362"	"SIGLEC5"	8778	"mskcc.org"	"GRCh37"	"19"	52130148	52130149	"+"	"Intron"	"INS"	"-"	"-"	"TTTTG"	"rs147859411"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1382+249_1382+253dupCAAAA"	""	""	"ENST00000570106"	""	20	"."	5	4	"."	0	"SIGLEC5,intron_variant,,ENST00000222107,;SIGLEC5,intron_variant,,ENST00000570106,NM_003830.3;SIGLEC5,intron_variant,,ENST00000534261,;SIGLEC5,intron_variant,,ENST00000429354,;SIGLEC5,intron_variant,,ENST00000599649,;"	"TTTTG"	"ENSG00000105501"	"ENST00000570106"	"Transcript"	"intron_variant"	"-/2359"	"-/1656"	"-/551"	""	""	"rs147859411"	"1"	NA	-1	"SIGLEC5"	"HGNC"	10874	"protein_coding"	"YES"	"CCDS33088.1"	"ENSP00000455510"	"O15389"	""	"UPI000011B40C"	"NM_003830.3"	NA	NA	""	"7/8"	""	"TTTTG:0.1392"	"TTTTG:0.2405"	"TTTTG:0.0663"	NA	"TTTTG:0.0724"	"TTTTG:0.1272"	"TTTTG:0.135"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"4b1f12d8-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1363"	"HAS1"	3036	"mskcc.org"	"GRCh37"	"19"	52230114	52230148	"+"	"5'Flank"	"DEL"	"CCCATCCCCTCCTCCCTCAGACCCAGGAGTCCAGG"	"CCCATCCCCTCCTCCCTCAGACCCAGGAGTCCAGG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CCCATCCCCTCCTCCCTCAGACCCAGGAGTCCAGG"	"CCCATCCCCTCCTCCCTCAGACCCAGGAGTCCAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000222115"	""	20	"."	3	10	"."	0	"HAS1,upstream_gene_variant,,ENST00000540069,;HAS1,upstream_gene_variant,,ENST00000222115,NM_001523.2;"	"-"	"ENSG00000105509"	"ENST00000222115"	"Transcript"	"upstream_gene_variant"	"-/2087"	"-/1737"	"-/578"	""	""	""	"1"	"2893"	-1	"HAS1"	"HGNC"	4818	"protein_coding"	"YES"	"CCDS12838.1"	"ENSP00000222115"	"Q92839"	"Q4VHE4"	"UPI000006D531"	"NM_001523.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCCCATCCCCTCCTCCCTCAGACCCAGGAGTCCAGGC"	"3d8cab12-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"1364"	"ZNF578"	147660	"mskcc.org"	"GRCh37"	"19"	52994499	52994499	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs112121975"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-121-78delG"	""	""	"ENST00000421239"	""	11	"."	3	7	"."	0	"ZNF578,intron_variant,,ENST00000421239,NM_001099694.1;ZNF578,upstream_gene_variant,,ENST00000601120,;"	"-"	"ENSG00000258405"	"ENST00000421239"	"Transcript"	"intron_variant"	"-/2017"	"-/1773"	"-/590"	""	""	"rs112121975"	"1"	NA	1	"ZNF578"	"HGNC"	26449	"protein_coding"	"YES"	"CCDS54310.1"	"ENSP00000459216"	"Q96N58"	"M0QZV4"	"UPI000048A457"	"NM_001099694.1"	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"3db03780-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"1365"	"ZNF83"	55769	"mskcc.org"	"GRCh37"	"19"	53136736	53136736	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs36047542"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-234+1583delT"	""	""	"ENST00000597597"	""	7	"."	4	1	"."	0	"ZNF83,intron_variant,,ENST00000597597,;ZNF83,intron_variant,,ENST00000544146,NM_001105549.1;ZNF83,intron_variant,,ENST00000594682,NM_001277945.1,NM_001105552.1,NM_001277948.1,NM_001277946.1;ZNF83,intron_variant,,ENST00000536937,NM_001105551.1,NM_001277952.1,NM_001105550.1;ZNF83,intron_variant,,ENST00000545872,NM_001277951.1;ZNF83,intron_variant,,ENST00000301096,NM_018300.3,NM_001277947.1;ZNF83,intron_variant,,ENST00000600714,;ZNF83,intron_variant,,ENST00000601257,;ZNF83,intron_variant,,ENST00000596930,;ZNF83,intron_variant,,ENST00000598536,;ZNF83,intron_variant,,ENST00000597161,;ZNF83,intron_variant,,ENST00000595171,;ZNF83,intron_variant,,ENST00000596440,;ZNF83,intron_variant,,ENST00000601237,;ZNF83,intron_variant,,ENST00000595939,;ZNF83,intron_variant,,ENST00000601140,;ZNF83,intron_variant,,ENST00000602232,;"	"-"	"ENSG00000167766"	"ENST00000597597"	"Transcript"	"intron_variant"	"-/4442"	"-/1551"	"-/516"	""	""	"rs36047542"	"1"	NA	-1	"ZNF83"	"HGNC"	13158	"protein_coding"	"YES"	"CCDS12854.1"	"ENSP00000472619"	"P51522"	"H9XFB5"	"UPI000013E6CF"	""	NA	NA	""	"1/1"	""	"-:0.3239"	"-:0.5605"	"-:0.2896"	NA	"-:0.0516"	"-:0.4135"	"-:0.2168"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"3db7f1e6-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1366"	"CTD-2331H12.5"	0	"mskcc.org"	"GRCh37"	"19"	53370117	53370122	"+"	"5'Flank"	"DEL"	"ACATAC"	"ACATAC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ACATAC"	"ACATAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000594408"	""	54	"."	4	26	"."	0	"ZNF320,intron_variant,,ENST00000597909,;ZNF320,intron_variant,,ENST00000595202,;ZNF320,intron_variant,,ENST00000598199,;CTD-2331H12.5,upstream_gene_variant,,ENST00000594408,;"	"-"	"ENSG00000268225"	"ENST00000594408"	"Transcript"	"upstream_gene_variant"	"-/1060"	""	""	""	""	""	"1"	"3998"	-1	"CTD-2331H12.5"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAACATACA"	"3dc8de02-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WXS"	FALSE
"1367"	"ZNF320"	162967	"mskcc.org"	"GRCh37"	"19"	53391576	53391577	"+"	"Intron"	"INS"	"-"	"-"	"GA"	"rs199745224"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.16-72_16-71dupTC"	""	""	"ENST00000595635"	""	29	"."	5	17	"."	0	"ZNF320,intron_variant,,ENST00000595635,NM_207333.2;ZNF320,intron_variant,,ENST00000391781,;ZNF320,intron_variant,,ENST00000597909,;ZNF320,intron_variant,,ENST00000597091,;ZNF320,intron_variant,,ENST00000593618,;ZNF320,intron_variant,,ENST00000594741,;ZNF320,intron_variant,,ENST00000597265,;ZNF320,intron_variant,,ENST00000597111,;ZNF320,intron_variant,,ENST00000600930,;ZNF320,downstream_gene_variant,,ENST00000597856,;ZNF320,downstream_gene_variant,,ENST00000601334,;"	"GA"	"ENSG00000182986"	"ENST00000595635"	"Transcript"	"intron_variant"	"-/6448"	"-/1530"	"-/509"	""	""	"rs199745224"	"1"	NA	-1	"ZNF320"	"HGNC"	13842	"protein_coding"	"YES"	"CCDS33095.1"	"ENSP00000473091"	"A2RRD8"	"Q6ZP55,M0R2L4,M0R1K6,M0R0Z8,M0QZA2"	"UPI00004EC06C"	"NM_207333.2"	NA	NA	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"4b5cc88a-2764-11e6-857b-9bdd414a729f"	"165"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WXS"	FALSE
"1368"	"ZNF320"	162967	"mskcc.org"	"GRCh37"	"19"	53396182	53396183	"+"	"Intron"	"INS"	"-"	"-"	"CTCT"	"rs139934270"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-192+849_-192+850insAGAG"	""	""	"ENST00000595635"	""	7	"."	4	2	"."	0	"ZNF320,intron_variant,,ENST00000595635,NM_207333.2;ZNF320,intron_variant,,ENST00000597909,;ZNF320,intron_variant,,ENST00000593618,;ZNF320,intron_variant,,ENST00000594741,;ZNF320,intron_variant,,ENST00000597111,;ZNF320,upstream_gene_variant,,ENST00000391781,;ZNF320,upstream_gene_variant,,ENST00000597091,;ZNF320,upstream_gene_variant,,ENST00000597265,;ZNF320,intron_variant,,ENST00000600930,;ZNF320,intron_variant,,ENST00000597856,;ZNF320,intron_variant,,ENST00000601334,;ZNF320,downstream_gene_variant,,ENST00000596215,;"	"CTCT"	"ENSG00000182986"	"ENST00000595635"	"Transcript"	"intron_variant"	"-/6448"	"-/1530"	"-/509"	""	""	"rs139934270"	"1"	NA	-1	"ZNF320"	"HGNC"	13842	"protein_coding"	"YES"	"CCDS33095.1"	"ENSP00000473091"	"A2RRD8"	"Q6ZP55,M0R2L4,M0R1K6,M0R0Z8,M0QZA2"	"UPI00004EC06C"	"NM_207333.2"	NA	NA	""	"4/7"	""	"CTGT:0.0821"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"4b5ec0e0-2764-11e6-857b-9bdd414a729f"	"191"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1369"	"ZNF888"	0	"mskcc.org"	"GRCh37"	"19"	53418429	53418430	"+"	"3'Flank"	"INS"	"-"	"-"	"CTTCT"	"rs58621028"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000596623"	""	83	"."	9	46	"."	0	"ZNF888,downstream_gene_variant,,ENST00000596623,;ZNF888,downstream_gene_variant,,ENST00000454258,;"	"CTTCT"	"ENSG00000213793"	"ENST00000596623"	"Transcript"	"downstream_gene_variant"	"-/551"	""	""	""	""	"rs58621028"	"1"	"19"	-1	"ZNF888"	"HGNC"	38695	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"CTTCT:0.1621"	"CTTCT:0.2776"	"CTTCT:0.2565"	NA	"CTTCT:0.1438"	"CTTCT:0.0765"	"CTTCT:0.046"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	"0.05354"	"0.08043"	"0.04617"	"0.01894"	"0.02263"	"0.01315"	"0.02454"	"0.03795"	NA	"common_variant"	"CAG"	"4b60e37a-2764-11e6-857b-9bdd414a729f"	"187"	0.02596	"2479/95488"	"5536/103390"	"582/7236"	"366/7928"	"135/7126"	"142/6274"	"677/51488"	"16/652"	"561/14784"	"PASS"	"FALSE"	0.108433734939759	"WXS"	FALSE
"1370"	"CACNG7"	59284	"mskcc.org"	"GRCh37"	"19"	54440831	54440835	"+"	"Intron"	"DEL"	"CCCTC"	"CCCTC"	"-"	"rs149624132"	NA	"JHCCPT1"	"JHCCPN1"	"CCCTC"	"CCCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.425-3867_425-3863delCCTCC"	""	""	"ENST00000391767"	""	7	"."	3	2	"."	0	"CACNG7,intron_variant,,ENST00000391767,;CACNG7,intron_variant,,ENST00000222212,NM_031896.4;CACNG7,intron_variant,,ENST00000391766,;CACNG7,intron_variant,,ENST00000468076,;"	"-"	"ENSG00000105605"	"ENST00000391767"	"Transcript"	"intron_variant"	"-/2688"	"-/828"	"-/275"	""	""	"rs149624132"	"1"	NA	1	"CACNG7"	"HGNC"	13626	"protein_coding"	"YES"	"CCDS12868.1"	"ENSP00000375647"	"P62955"	""	"UPI00000010F1"	""	NA	NA	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"26"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCCCTCC"	"3e457282-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1371"	"MBOAT7"	79143	"mskcc.org"	"GRCh37"	"19"	54690818	54690819	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs11390266"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.333+224dupG"	""	""	"ENST00000245615"	""	7	"."	3	5	"."	0	"MBOAT7,intron_variant,,ENST00000245615,NM_024298.3;MBOAT7,intron_variant,,ENST00000431666,NM_001146083.1;MBOAT7,intron_variant,,ENST00000338624,NM_001146056.1;MBOAT7,intron_variant,,ENST00000391754,NM_001146082.1;MBOAT7,intron_variant,,ENST00000414665,;MBOAT7,intron_variant,,ENST00000449249,;MBOAT7,intron_variant,,ENST00000453320,;MBOAT7,upstream_gene_variant,,ENST00000495279,;TSEN34,upstream_gene_variant,,ENST00000396383,;TSEN34,upstream_gene_variant,,ENST00000302937,NM_024075.3;TSEN34,upstream_gene_variant,,ENST00000396388,NM_001077446.2;TSEN34,upstream_gene_variant,,ENST00000429671,;TSEN34,upstream_gene_variant,,ENST00000455798,;TSEN34,upstream_gene_variant,,ENST00000456872,;MBOAT7,intron_variant,,ENST00000474910,;MBOAT7,downstream_gene_variant,,ENST00000495968,;MBOAT7,intron_variant,,ENST00000437868,;MBOAT7,intron_variant,,ENST00000464098,;TSEN34,upstream_gene_variant,,ENST00000496583,;MBOAT7,downstream_gene_variant,,ENST00000491216,;"	"C"	"ENSG00000125505"	"ENST00000245615"	"Transcript"	"intron_variant"	"-/2529"	"-/1419"	"-/472"	""	""	"rs11390266"	"1"	NA	-1	"MBOAT7"	"HGNC"	15505	"protein_coding"	"YES"	"CCDS12883.1"	"ENSP00000245615"	"Q96N66"	"C9J4E9,A9C4B8"	"UPI000013CBAC"	"NM_024298.3"	NA	NA	""	"4/7"	""	"-:0.2626"	"C:0.8396"	"C:0.6729"	NA	"C:0.4673"	"C:0.8191"	"C:0.8395"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"4bd53a4a-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1372"	"PPP1R12C"	54776	"mskcc.org"	"GRCh37"	"19"	55604761	55605594	"+"	"Intron"	"DEL"	"CTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCC"	"CTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCC"	"TTA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCC"	"CTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1684-160_1683+119delGGGCTGGGGCCTGGACTCCTGGGTCTGAGGGAGGAGGGGCTGGAGGTCTGGACTCCTGGGTCTGAGGGAGGAGGGGCTGGGGCCTGGACTCCTGGGTCTGAGGGAGGAGGGGCTGGGGCCTGGGCTCCTGGGTCTGAGGGAGGAGGGGCTGGGGCCTGGACTCCTGGGTCTGAGGGAGGAGGGGCTGGAGGTCTGGACTCCTGGGTCTGAGGGAGGAGGGGCTGGGGCCTGGACTCCTGGGTCTGAGGGAGGAGGGGCTGGGGCCTGGGCTCCTGGGTCTGAGGGAGGAGGGGCTGGGGCCTGGACTCCTGGGTCTGAGGGAGGAGGGGCTGGGGTCTGGGCTCCTGGGTCTGAGGGAGGAGGGGCTGGAGGTCTGGACTCCTGGGTCTGAGGGAGGAGGGGCTGGGGCCTGGACTCCTGGGTCTGAGGGAGGAGGGGCTGGGGTCTGGGCTCCTGGGTCTGAGGGAGGAGGGGCTGGGGCCTGGGCTCCTGGGTCTGAGGGAGGAGGGGCTGGGGTCTGGGCTCCTGGGTCTGAGGGAGGAGGGGCTGGGGCCTGGGCTCCTGGGTCTGAGGGAGGAGGGGCTGGGGTCTGGGCTCCTGGGTCTGAGGGAGGAGGGGCTGGAGGTCTGGACTCCTGGGTCTGAGGGAGGAGGGGCTGGGGCCTGGGCTCCTGGGTCTGAGGGAGGAGGGGCTGGAGGTCTGGACTCCTGGGTCTGAGGGAGGAGGGGCTGGGGCCTGGACTCCTGGGTCTGAGGGAGGAGGGGCTGGAGGTCTGGACTCCTGGGTCTGAGGGAGGAGGGGCTGGGGCCTGGACTCCTGGGTCTGAGGGAGGAGinsTAA"	""	""	"ENST00000263433"	""	11	"."	3	15	"."	0	"PPP1R12C,intron_variant,,ENST00000263433,NM_017607.3,NM_001271618.1;PPP1R12C,intron_variant,,ENST00000376393,;PPP1R12C,intron_variant,,ENST00000435544,;PPP1R12C,intron_variant,,ENST00000592993,;PPP1R12C,intron_variant,,ENST00000591938,;PPP1R12C,intron_variant,,ENST00000592754,;PPP1R12C,intron_variant,,ENST00000588277,;PPP1R12C,upstream_gene_variant,,ENST00000590268,;PPP1R12C,downstream_gene_variant,,ENST00000586197,;"	"TTA"	"ENSG00000125503"	"ENST00000263433"	"Transcript"	"intron_variant"	"-/2924"	"-/2349"	"-/782"	""	""	""	"1"	NA	-1	"PPP1R12C"	"HGNC"	14947	"protein_coding"	"YES"	"CCDS12916.1"	"ENSP00000263433"	"Q9BZL4"	""	"UPI000006FEE1"	"NM_017607.3,NM_001271618.1"	NA	NA	""	"13/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGACCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGCCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGACCTCCAGCCCCTCCTCCCTCAGACCCAGGAGTCCAGGCCCCAGCCCC"	"40e044c2-2764-11e6-857b-9bdd414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"1373"	"PTPRH"	5794	"mskcc.org"	"GRCh37"	"19"	55717861	55717862	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs575318450"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.352+195dupA"	""	""	"ENST00000376350"	""	9	"."	4	7	"."	0	"PTPRH,intron_variant,,ENST00000376350,NM_002842.3;PTPRH,intron_variant,,ENST00000263434,NM_001161440.1;PTPRH,intron_variant,,ENST00000588559,;PTPRH,intron_variant,,ENST00000586852,;PTPRH,intron_variant,,ENST00000586310,;PTPRH,intron_variant,,ENST00000588370,;PTPRH,intron_variant,,ENST00000587662,;"	"T"	"ENSG00000080031"	"ENST00000376350"	"Transcript"	"intron_variant"	"-/3877"	"-/3348"	"-/1115"	""	""	"rs575318450"	"1"	NA	-1	"PTPRH"	"HGNC"	9672	"protein_coding"	"YES"	"CCDS33110.1"	"ENSP00000365528"	"Q9HD43"	""	"UPI000006EDE6"	"NM_002842.3"	NA	NA	""	"3/19"	""	"T:0.1158"	"T:0.1218"	"T:0.1052"	NA	"T:0.1002"	"T:0.0944"	"T:0.1534"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"4c30bb2c-2764-11e6-857b-9bdd414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1374"	"BRSK1"	84446	"mskcc.org"	"GRCh37"	"19"	55795030	55795033	"+"	"5'Flank"	"DEL"	"TGTT"	"TGTT"	"-"	"rs138183711"	NA	"JHCCPT1"	"JHCCPN1"	"TGTT"	"TGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000309383"	""	13	"."	6	4	"."	0	"BRSK1,intron_variant,,ENST00000590333,;BRSK1,upstream_gene_variant,,ENST00000309383,NM_032430.1;HSPBP1,upstream_gene_variant,,ENST00000255631,NM_012267.4,NM_001130106.1;HSPBP1,upstream_gene_variant,,ENST00000433386,;HSPBP1,upstream_gene_variant,,ENST00000587922,;HSPBP1,upstream_gene_variant,,ENST00000376343,;BRSK1,upstream_gene_variant,,ENST00000585418,;HSPBP1,upstream_gene_variant,,ENST00000593263,;HSPBP1,upstream_gene_variant,,ENST00000588971,;HSPBP1,upstream_gene_variant,,ENST00000585927,;HSPBP1,upstream_gene_variant,,ENST00000585698,;HSPBP1,upstream_gene_variant,,ENST00000587551,;HSPBP1,upstream_gene_variant,,ENST00000587959,;BRSK1,intron_variant,,ENST00000592539,;"	"-"	"ENSG00000160469"	"ENST00000309383"	"Transcript"	"upstream_gene_variant"	"-/3079"	"-/2337"	"-/778"	""	""	"rs138183711"	"1"	"501"	1	"BRSK1"	"HGNC"	18994	"protein_coding"	"YES"	"CCDS12921.1"	"ENSP00000310649"	"Q8TDC3"	"K7EM68,J3KNK0"	"UPI0000070495"	"NM_032430.1"	NA	NA	""	""	""	"-:0.4305"	"-:0.3094"	"-:0.4568"	NA	"-:0.6925"	"-:0.3469"	"-:0.3916"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGTTT"	"3f201130-2764-11e6-857b-9bdd414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"1375"	"ZNF787"	126208	"mskcc.org"	"GRCh37"	"19"	56622566	56622576	"+"	"Intron"	"DEL"	"CCAGGCCACAG"	"CCAGGCCACAG"	"-"	"rs151229831"	NA	"JHCCPT1"	"JHCCPN1"	"CCAGGCCACAG"	"CCAGGCCACAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10-7980_-10-7970delCTGTGGCCTGG"	""	""	"ENST00000270459"	""	8	"."	5	2	"."	0	"ZNF787,intron_variant,,ENST00000270459,NM_001002836.2;ZNF787,intron_variant,,ENST00000587279,;"	"-"	"ENSG00000142409"	"ENST00000270459"	"Transcript"	"intron_variant"	"-/1928"	"-/1152"	"-/383"	""	""	"rs151229831"	"1"	NA	-1	"ZNF787"	"HGNC"	26998	"protein_coding"	"YES"	"CCDS42634.1"	"ENSP00000270459"	"Q6DD87"	"M0R0X7"	"UPI00001C2014"	"NM_001002836.2"	NA	NA	""	"1/2"	""	"CCAGGCCACAG:0.1408"	"-:0.8638"	"-:0.7133"	NA	"-:0.7054"	"-:0.9821"	"-:0.9888"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCCAGGCCACAGC"	"3f726c82-2764-11e6-857b-9bdd414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1376"	"AC113607.2"	101060385	"mskcc.org"	"GRCh37"	"2"	900684	900684	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs5828793"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.232+222delT"	""	""	"ENST00000445279"	""	13	"."	9	5	"."	0	"AC113607.2,intron_variant,,ENST00000445279,;AC113607.2,intron_variant,,ENST00000449405,;"	"-"	"ENSG00000228799"	"ENST00000445279"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/694"	""	""	""	""	"rs5828793"	"1"	NA	-1	"AC113607.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"A:0.3490"	"-:0.5983"	"-:0.6124"	NA	"-:0.9554"	"-:0.5378"	"-:0.5521"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAG"	"2e9d1e48-2764-11e6-ab03-0c42424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.692307692307692	"WXS"	FALSE
"1377"	"AC144450.1"	0	"mskcc.org"	"GRCh37"	"2"	1601557	1601570	"+"	"Intron"	"DEL"	"ACACACACACGCAA"	"ACACACACACGCAA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ACACACACACGCAA"	"ACACACACACGCAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.515+19369_515+19382delTTGCGTGTGTGTGT"	""	""	"ENST00000438247"	""	6	"."	3	1	"."	0	"AC144450.1,intron_variant,,ENST00000438247,;"	"-"	"ENSG00000228613"	"ENST00000438247"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/786"	""	""	""	""	""	"1"	NA	-1	"AC144450.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGACACACACACGCAAA"	"2eafedb6-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1378"	"MYT1L"	23040	"mskcc.org"	"GRCh37"	"2"	1956737	1956744	"+"	"Intron"	"DEL"	"TCCCTCCT"	"TCCCTCCT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TCCCTCCT"	"TCCCTCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.153-9638_153-9631delAGGAGGGA"	""	""	"ENST00000428368"	""	14	"."	3	11	"."	0	"MYT1L,intron_variant,,ENST00000399161,NM_015025.2;MYT1L,intron_variant,,ENST00000428368,;"	"-"	"ENSG00000186487"	"ENST00000428368"	"Transcript"	"intron_variant"	"-/4850"	"-/3555"	"-/1184"	""	""	""	"1"	NA	-1	"MYT1L"	"HGNC"	7623	"protein_coding"	"YES"	"CCDS46222.1"	"ENSP00000396103"	"Q9UL68"	""	"UPI00004E55EA"	""	NA	NA	""	"8/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTCCCTCCTT"	"2ebc0998-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"1379"	"MYT1L"	23040	"mskcc.org"	"GRCh37"	"2"	2187751	2187752	"+"	"Intron"	"INS"	"-"	"-"	"AG"	"rs149039574"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-420-10993_-420-10992dupCT"	""	""	"ENST00000428368"	""	18	"."	4	6	"."	0	"MYT1L,intron_variant,,ENST00000399161,NM_015025.2;MYT1L,intron_variant,,ENST00000428368,;MYT1L,intron_variant,,ENST00000479156,;"	"AG"	"ENSG00000186487"	"ENST00000428368"	"Transcript"	"intron_variant"	"-/4850"	"-/3555"	"-/1184"	""	""	"rs149039574"	"1"	NA	-1	"MYT1L"	"HGNC"	7623	"protein_coding"	"YES"	"CCDS46222.1"	"ENSP00000396103"	"Q9UL68"	""	"UPI00004E55EA"	""	NA	NA	""	"2/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"4e476078-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"1380"	"TSSC1"	7260	"mskcc.org"	"GRCh37"	"2"	3264279	3264286	"+"	"Intron"	"DEL"	"AGGGAGGG"	"AGGGAGGG"	"-"	"rs544255402"	NA	"JHCCPT1"	"JHCCPN1"	"AGGGAGGG"	"AGGGAGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.260-3060_260-3053delCCCTCCCT"	""	""	"ENST00000382125"	""	6	"."	4	1	"."	0	"TSSC1,intron_variant,,ENST00000398659,;TSSC1,intron_variant,,ENST00000443925,;TSSC1,intron_variant,,ENST00000382125,NM_003310.2;TSSC1,intron_variant,,ENST00000441271,;TSSC1,intron_variant,,ENST00000444776,;TSSC1,intron_variant,,ENST00000478754,;TSSC1,intron_variant,,ENST00000463662,;TSSC1,intron_variant,,ENST00000462515,;TSSC1,intron_variant,,ENST00000455162,;TSSC1,intron_variant,,ENST00000406835,;TSSC1,intron_variant,,ENST00000435721,;TSSC1,upstream_gene_variant,,ENST00000482570,;"	"-"	"ENSG00000032389"	"ENST00000382125"	"Transcript"	"intron_variant"	"-/1766"	"-/1164"	"-/387"	""	""	"rs544255402"	"1"	NA	-1	"TSSC1"	"HGNC"	12383	"protein_coding"	"YES"	"CCDS1651.1"	"ENSP00000371559"	"Q53HC9"	""	"UPI000006DFE1"	"NM_003310.2"	NA	NA	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAGGGAGGGA"	"2ed5fc36-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1381"	"TRAPPC12"	51112	"mskcc.org"	"GRCh37"	"2"	3481881	3481908	"+"	"Intron"	"DEL"	"GTGCTCTGGTGTTCTGTGTCTGGATCCC"	"GTGCTCTGGTGTTCTGTGTCTGGATCCC"	"-"	"rs144945940"	NA	"JHCCPT1"	"JHCCPN1"	"GTGCTCTGGTGTTCTGTGTCTGGATCCC"	"GTGCTCTGGTGTTCTGTGTCTGGATCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1877+361_1877+388delTCTGGATCCCGTGCTCTGGTGTTCTGTG"	""	""	"ENST00000324266"	""	20	"."	4	3	"."	0	"TRAPPC12,intron_variant,,ENST00000324266,NM_016030.5;TRAPPC12,intron_variant,,ENST00000382110,;TRAPPC12,intron_variant,,ENST00000415624,;TRAPPC12,intron_variant,,ENST00000452495,;TRAPPC12,intron_variant,,ENST00000416918,;TRAPPC12-AS1,downstream_gene_variant,,ENST00000453806,;TRAPPC12,intron_variant,,ENST00000469400,;TRAPPC12,intron_variant,,ENST00000473348,;TRAPPC12,intron_variant,,ENST00000497597,;TRAPPC12,intron_variant,,ENST00000417243,;TRAPPC12,intron_variant,,ENST00000461577,;TRAPPC12,intron_variant,,ENST00000433382,;TRAPPC12,intron_variant,,ENST00000437733,;TRAPPC12,upstream_gene_variant,,ENST00000493792,;TRAPPC12,downstream_gene_variant,,ENST00000489032,;"	"-"	"ENSG00000171853"	"ENST00000324266"	"Transcript"	"intron_variant"	"-/2508"	"-/2208"	"-/735"	""	""	"rs144945940"	"1"	NA	1	"TRAPPC12"	"HGNC"	24284	"protein_coding"	"YES"	"CCDS1652.1"	"ENSP00000324318"	"Q8WVT3"	"Q53S18,Q53QD4"	"UPI000014132D"	"NM_016030.5"	NA	NA	""	"10/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"46"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGTGCTCTGGTGTTCTGTGTCTGGATCCCG"	"2ed85c56-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"1382"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	4052417	4052420	"+"	"IGR"	"DEL"	"TGTA"	"TGTA"	"-"	"rs140157161"	NA	"JHCCPT1"	"JHCCPN1"	"TGTA"	"TGTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140157161"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0180"	"-:0.0015"	"-:0.0216"	NA	"-:0"	"-:0.0606"	"-:0.0123"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGTAT"	"2ee49f34-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1383"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	6548547	6548554	"+"	"IGR"	"DEL"	"TCTTTCTT"	"TCTTTCTT"	"-"	"rs71400885"	NA	"JHCCPT1"	"JHCCPN1"	"TCTTTCTT"	"TCTTTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71400885"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3604"	"-:0.3018"	"-:0.3617"	NA	"-:0.3482"	"-:0.3499"	"-:0.4622"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTCTTTCTTT"	"2ef7311c-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1384"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	8672672	8672672	"+"	"IGR"	"DEL"	"G"	"-"	"-"	"rs35458230"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	6	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35458230"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.3132"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"2f28eb26-2764-11e6-ab03-0c42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"1385"	"AC011747.6"	0	"mskcc.org"	"GRCh37"	"2"	8736822	8736823	"+"	"3'Flank"	"INS"	"-"	"-"	"GT"	"rs70946371"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000425678"	""	7	"."	4	1	"."	0	"AC011747.6,downstream_gene_variant,,ENST00000425678,;"	"GT"	"ENSG00000231083"	"ENST00000425678"	"Transcript"	"downstream_gene_variant"	"-/565"	""	""	""	""	"rs70946371"	"1"	"4199"	-1	"AC011747.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"GT:0.3898"	"GT:0.1362"	"GT:0.4438"	NA	"GT:0.499"	"GT:0.4712"	"GT:0.498"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"4e95a0da-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1386"	"ADAM17"	6868	"mskcc.org"	"GRCh37"	"2"	9629943	9629944	"+"	"3'UTR"	"INS"	"-"	"-"	"A"	"rs111759422"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*362dupT"	""	""	"ENST00000310823"	"19/19"	10	"."	3	2	"."	0	"ADAM17,3_prime_UTR_variant,,ENST00000310823,NM_003183.4;IAH1,intron_variant,,ENST00000481367,;IAH1,intron_variant,,ENST00000545602,;IAH1,downstream_gene_variant,,ENST00000470914,;IAH1,downstream_gene_variant,,ENST00000497473,NM_001039613.1;IAH1,downstream_gene_variant,,ENST00000481688,;IAH1,downstream_gene_variant,,ENST00000482918,;IAH1,downstream_gene_variant,,ENST00000489468,;IAH1,downstream_gene_variant,,ENST00000487850,;IAH1,downstream_gene_variant,,ENST00000490621,;IAH1,downstream_gene_variant,,ENST00000495050,;IAH1,downstream_gene_variant,,ENST00000351760,;IAH1,downstream_gene_variant,,ENST00000492223,;IAH1,downstream_gene_variant,,ENST00000484826,;"	"A"	"ENSG00000151694"	"ENST00000310823"	"Transcript"	"3_prime_UTR_variant"	"3020-3021/4349"	"-/2475"	"-/824"	""	""	"rs111759422"	"1"	NA	-1	"ADAM17"	"HGNC"	195	"protein_coding"	"YES"	"CCDS1665.1"	"ENSP00000309968"	"P78536"	"Q53S40,Q53RS1,Q53RF5,B2RNB2"	"UPI00001254D4"	"NM_003183.4"	NA	NA	"19/19"	""	""	"A:0.3916"	"A:0.466"	"A:0.3761"	NA	"A:0.0942"	"A:0.5785"	"A:0.4162"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"4eac1f22-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1387"	"GRHL1"	29841	"mskcc.org"	"GRCh37"	"2"	10139017	10139018	"+"	"Intron"	"INS"	"-"	"-"	"GTATATATATGTACACATATATATACGTATATATATATGTACACATATATATACAT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1678-76_1678-75insGTATATATATGTACACATATATATACGTATATATATATGTACACATATATATACAT"	""	""	"ENST00000324907"	""	47	"."	4	22	"."	0	"GRHL1,intron_variant,,ENST00000324907,NM_198182.2;GRHL1,intron_variant,,ENST00000324883,;GRHL1,intron_variant,,ENST00000405379,;GRHL1,intron_variant,,ENST00000480736,;AC010969.1,downstream_gene_variant,,ENST00000340444,;GRHL1,intron_variant,,ENST00000464418,;GRHL1,intron_variant,,ENST00000472167,;"	"GTATATATATGTACACATATATATACGTATATATATATGTACACATATATATACAT"	"ENSG00000134317"	"ENST00000324907"	"Transcript"	"intron_variant"	"-/3563"	"-/1857"	"-/618"	""	""	""	"1"	NA	1	"GRHL1"	"HGNC"	17923	"protein_coding"	"YES"	"CCDS33144.2"	"ENSP00000324693"	"Q9NZI5"	"F8WFB0,C9JYY8"	"UPI00001E0586"	"NM_198182.2"	NA	NA	""	"14/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"4ec3fa3e-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WXS"	FALSE
"1388"	"CYS1"	192668	"mskcc.org"	"GRCh37"	"2"	10208160	10208161	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs143456195"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.319-2078_319-2077delCA"	""	""	"ENST00000381813"	""	7	"."	4	4	"."	0	"CYS1,intron_variant,,ENST00000381813,NM_001037160.2;CYS1,intron_variant,,ENST00000477304,;"	"-"	"ENSG00000205795"	"ENST00000381813"	"Transcript"	"intron_variant"	"-/2738"	"-/477"	"-/158"	""	""	"rs143456195"	"1"	NA	-1	"CYS1"	"HGNC"	18525	"protein_coding"	"YES"	"CCDS33145.1"	"ENSP00000371234"	"Q717R9"	""	"UPI00001D6281"	"NM_001037160.2"	NA	NA	""	"1/2"	""	"-:0.0829"	"-:0.1437"	"-:0.0778"	NA	"-:0.001"	"-:0.1113"	"-:0.0593"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTGT"	"2f789982-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1389"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	10385206	10385207	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs35899379"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	6	5	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35899379"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4553"	"A:0.5348"	"A:0.3905"	NA	"A:0.5734"	"A:0.3787"	"A:0.3507"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"4ed82a68-2764-11e6-ab03-0c42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1390"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	11164093	11164094	"+"	"IGR"	"INS"	"-"	"-"	"CT"	"rs70953353"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	1	"."	0	""	"CT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs70953353"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4902"	"CTCTC:0.7035"	"CTCTC:0.4452"	NA	"CTCTC:0.254"	"CTCTC:0.5845"	"CTCTC:0.4806"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"4efd0c0c-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1391"	"GREB1"	9687	"mskcc.org"	"GRCh37"	"2"	11678890	11678930	"+"	"Intron"	"DEL"	"CTTCCTTCCTTCCCGTCTTCCTTCCTTCCTTCCCTTCTTTA"	"CTTCCTTCCTTCCCGTCTTCCTTCCTTCCTTCCCTTCTTTA"	"-"	"rs777730472"	NA	"JHCCPT1"	"JHCCPN1"	"CTTCCTTCCTTCCCGTCTTCCTTCCTTCCTTCCCTTCTTTA"	"CTTCCTTCCTTCCCGTCTTCCTTCCTTCCTTCCCTTCTTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-162+4523_-162+4563delCGTCTTCCTTCCTTCCTTCCCTTCTTTACTTCCTTCCTTCC"	""	""	"ENST00000381486"	""	8	"."	4	1	"."	0	"GREB1,intron_variant,,ENST00000381486,NM_014668.3;GREB1,upstream_gene_variant,,ENST00000263834,NM_148903.2;GREB1,upstream_gene_variant,,ENST00000381483,NM_033090.2;GREB1,upstream_gene_variant,,ENST00000389825,;MIR4429,downstream_gene_variant,,ENST00000580105,;"	"-"	"ENSG00000196208"	"ENST00000381486"	"Transcript"	"intron_variant"	"-/8484"	"-/5850"	"-/1949"	""	""	"rs777730472"	"1"	NA	1	"GREB1"	"HGNC"	24885	"protein_coding"	"YES"	"CCDS42655.1"	"ENSP00000370896"	"Q4ZG55"	""	"UPI0000163937"	"NM_014668.3"	NA	NA	""	"1/32"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"13"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTCCTTCCTTCCCGTCTTCCTTCCTTCCTTCCCTTCTTTAC"	"2fd60eb4-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1392"	"GREB1"	9687	"mskcc.org"	"GRCh37"	"2"	11682754	11682755	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs60551961"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-162+8380dupG"	""	""	"ENST00000381486"	""	11	"."	3	1	"."	0	"GREB1,intron_variant,,ENST00000381486,NM_014668.3;GREB1,intron_variant,,ENST00000263834,NM_148903.2;GREB1,upstream_gene_variant,,ENST00000381483,NM_033090.2;GREB1,upstream_gene_variant,,ENST00000389825,;MIR4429,upstream_gene_variant,,ENST00000580105,;"	"G"	"ENSG00000196208"	"ENST00000381486"	"Transcript"	"intron_variant"	"-/8484"	"-/5850"	"-/1949"	""	""	"rs60551961"	"1"	NA	1	"GREB1"	"HGNC"	24885	"protein_coding"	"YES"	"CCDS42655.1"	"ENSP00000370896"	"Q4ZG55"	""	"UPI0000163937"	"NM_014668.3"	NA	NA	""	"1/32"	""	"-:0.3285"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"4f14105a-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"1393"	"NBAS"	51594	"mskcc.org"	"GRCh37"	"2"	15567625	15567625	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2423+210delA"	""	""	"ENST00000281513"	""	8	"."	5	2	"."	0	"NBAS,intron_variant,,ENST00000281513,NM_015909.3;NBAS,intron_variant,,ENST00000441750,;NBAS,upstream_gene_variant,,ENST00000442506,;NBAS,upstream_gene_variant,,ENST00000441755,;"	"-"	"ENSG00000151779"	"ENST00000281513"	"Transcript"	"intron_variant"	"-/7281"	"-/7116"	"-/2371"	""	""	""	"1"	NA	-1	"NBAS"	"HGNC"	15625	"protein_coding"	"YES"	"CCDS1685.1"	"ENSP00000281513"	"A2RRP1"	"Q4ZG05,H7C007"	"UPI00001AEA68"	"NM_015909.3"	NA	NA	""	"22/51"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CATT"	"3039ac6c-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1394"	"AC010145.4"	0	"mskcc.org"	"GRCh37"	"2"	16179654	16179655	"+"	"Intron"	"INS"	"-"	"-"	"TTCCTTTTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.152+22948_152+22949insGAAAAGGAA"	""	""	"ENST00000422415"	""	22	"."	4	9	"."	0	"AC010145.4,intron_variant,,ENST00000422415,;"	"TTCCTTTTC"	"ENSG00000226764"	"ENST00000422415"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/516"	""	""	""	""	""	"1"	NA	-1	"AC010145.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"4f6215d4-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"1395"	"KCNS3"	3790	"mskcc.org"	"GRCh37"	"2"	18418098	18418099	"+"	"Intron"	"INS"	"-"	"-"	"TGC"	"rs74519775"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.424+66326_424+66328dupGCT"	""	""	"ENST00000465292"	""	7	"."	3	1	"."	0	"KCNS3,intron_variant,,ENST00000465292,;"	"TGC"	"ENSG00000170745"	"ENST00000465292"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/585"	""	""	""	""	"rs74519775"	"1"	NA	1	"KCNS3"	"HGNC"	6302	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"3/4"	""	"-:0.2344"	"TGC:0.5976"	"TGC:0.8372"	NA	"TGC:0.754"	"TGC:0.9662"	"TGC:0.7474"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"4f76b16a-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1396"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	18676774	18676774	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs72118019"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs72118019"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1637"	"-:0.1626"	"-:0.1888"	NA	"-:0.0079"	"-:0.33"	"-:0.137"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"308c90da-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1397"	"GDF7"	151449	"mskcc.org"	"GRCh37"	"2"	20866889	20866889	"+"	"5'UTR"	"DEL"	"G"	"G"	"-"	"rs70939049"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-109delG"	""	""	"ENST00000272224"	"1/2"	9	"."	3	6	"."	0	"GDF7,5_prime_UTR_variant,,ENST00000272224,NM_182828.2;"	"-"	"ENSG00000143869"	"ENST00000272224"	"Transcript"	"5_prime_UTR_variant"	"466/4162"	"-/1353"	"-/450"	""	""	"rs70939049"	"1"	NA	1	"GDF7"	"HGNC"	4222	"protein_coding"	"YES"	"CCDS1701.1"	"ENSP00000272224"	"Q7Z4P5"	"Q75RY1"	"UPI0000208B29"	"NM_182828.2"	NA	NA	"1/2"	""	""	"G:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCGG"	"30cc10b6-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1398"	"ITSN2"	50618	"mskcc.org"	"GRCh37"	"2"	24446936	24446937	"+"	"Intron"	"INS"	"-"	"AGG"	"AGG"	"rs79947191"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3578-3004_3578-3002dupCCT"	""	""	"ENST00000355123"	""	11	"."	8	1	"."	0	"ITSN2,intron_variant,,ENST00000355123,NM_006277.2;ITSN2,intron_variant,,ENST00000361999,NM_019595.3;ITSN2,intron_variant,,ENST00000406921,NM_147152.2;AC009228.1,downstream_gene_variant,,ENST00000430105,;AC009228.1,downstream_gene_variant,,ENST00000413989,;"	"AGG"	"ENSG00000198399"	"ENST00000355123"	"Transcript"	"intron_variant"	"-/6300"	"-/5094"	"-/1697"	""	""	"rs79947191"	"1"	NA	-1	"ITSN2"	"HGNC"	6184	"protein_coding"	"YES"	"CCDS1710.2"	"ENSP00000347244"	"Q9NZM3"	"Q53TM3,Q53TK4,F8W719"	"UPI000013D415"	"NM_006277.2"	NA	NA	""	"29/39"	""	"-:0.0284"	"AGG:0.9622"	"AGG:0.9712"	NA	"AGG:0.9931"	"AGG:0.9811"	"AGG:0.953"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"4fc16020-2764-11e6-ab03-0c42424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.727272727272727	"WXS"	FALSE
"1399"	"ADCY3"	109	"mskcc.org"	"GRCh37"	"2"	25131485	25131485	"+"	"Intron"	"DEL"	"A"	"-"	"-"	"rs36048912"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.675+9697delT"	""	""	"ENST00000260600"	""	7	"."	5	2	"."	0	"ADCY3,intron_variant,,ENST00000260600,NM_004036.3;ADCY3,intron_variant,,ENST00000435135,;"	"-"	"ENSG00000138031"	"ENST00000260600"	"Transcript"	"intron_variant"	"-/5050"	"-/3435"	"-/1144"	""	""	"rs36048912"	"1"	NA	-1	"ADCY3"	"HGNC"	234	"protein_coding"	"YES"	"CCDS1715.1"	"ENSP00000260600"	"O60266"	"Q8NBM1,C9J969"	"UPI000013D0ED"	"NM_004036.3"	NA	NA	""	"1/20"	""	"A:0.4645"	"-:0.8555"	"-:0.3487"	NA	"-:0.4226"	"-:0.4264"	"-:0.4642"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"31379dea-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1400"	"EFR3B"	22979	"mskcc.org"	"GRCh37"	"2"	25378804	25378804	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"rs111592824"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000403714"	""	6	"."	4	1	"."	0	"EFR3B,downstream_gene_variant,,ENST00000402191,;EFR3B,downstream_gene_variant,,ENST00000403714,NM_014971.1;EFR3B,downstream_gene_variant,,ENST00000405108,;EFR3B,downstream_gene_variant,,ENST00000264719,;POMC,downstream_gene_variant,,ENST00000405623,;POMC,downstream_gene_variant,,ENST00000380794,NM_001035256.1;RP11-509E16.1,upstream_gene_variant,,ENST00000567599,;"	"-"	"ENSG00000084710"	"ENST00000403714"	"Transcript"	"downstream_gene_variant"	"-/3671"	"-/2454"	"-/817"	""	""	"rs111592824"	"1"	"561"	1	"EFR3B"	"HGNC"	29155	"protein_coding"	"YES"	"CCDS46231.1"	"ENSP00000384081"	"Q9Y2G0"	"E7ESK9"	"UPI0000208069"	"NM_014971.1"	NA	NA	""	""	""	"-:0.1835"	"-:0.2844"	"-:0.0533"	NA	"-:0.2976"	"-:0.0527"	"-:0.1564"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"3141a7a4-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1401"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	25932842	25932843	"+"	"IGR"	"DEL"	"GG"	"GG"	"-"	"rs35532840"	NA	"JHCCPT1"	"JHCCPN1"	"GG"	"GG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35532840"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GG:0.4087"	"-:0.6528"	"-:0.5576"	NA	"-:0.252"	"-:0.7565"	"-:0.7117"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCGGG"	"3157e2e4-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1402"	"EPT1"	85465	"mskcc.org"	"GRCh37"	"2"	26605440	26605441	"+"	"Intron"	"INS"	"-"	"-"	"AGA"	"rs60299481"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.683-723_683-721dupAGA"	""	""	"ENST00000260585"	""	8	"."	4	1	"."	0	"EPT1,intron_variant,,ENST00000260585,NM_033505.2;EPT1,intron_variant,,ENST00000447170,;"	"AGA"	"ENSG00000138018"	"ENST00000260585"	"Transcript"	"intron_variant"	"-/8101"	"-/1194"	"-/397"	""	""	"rs60299481"	"1"	NA	1	"EPT1"	"HGNC"	29361	"protein_coding"	"YES"	"CCDS46240.1"	"ENSP00000260585"	"Q9C0D9"	"G1UI38,C9JEZ2,C9J9I1"	"UPI00003CE422"	"NM_033505.2"	NA	NA	""	"6/9"	""	"-:0.0226"	"AGAAG:0.9281"	"AGAAG:0.9928"	NA	"AGAAG:0.996"	"AGAAG:0.996"	"AGAAG:0.9949"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"5009dbc0-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1403"	"AC015977.6"	0	"mskcc.org"	"GRCh37"	"2"	26893724	26893725	"+"	"3'Flank"	"INS"	"-"	"-"	"AAGGAAGGAAAAGGA"	"rs150984923"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000420852"	""	14	"."	3	2	"."	0	"AC015977.6,downstream_gene_variant,,ENST00000420852,;"	"AAGGAAGGAAAAGGA"	"ENSG00000225378"	"ENST00000420852"	"Transcript"	"downstream_gene_variant"	"-/567"	""	""	""	""	"rs150984923"	"1"	"397"	-1	"AC015977.6"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"5012eda0-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"1404"	"BRE"	9577	"mskcc.org"	"GRCh37"	"2"	28537891	28537894	"+"	"Intron"	"DEL"	"GAGA"	"GAGA"	"-"	"rs5830067"	NA	"JHCCPT1"	"JHCCPN1"	"GAGA"	"GAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1089-12242_1089-12239delGAGA"	""	""	"ENST00000344773"	""	13	"."	3	9	"."	0	"BRE,intron_variant,,ENST00000344773,NM_004899.4;BRE,intron_variant,,ENST00000379632,NM_199193.2;BRE,intron_variant,,ENST00000361704,NM_199192.2;BRE,intron_variant,,ENST00000342045,NM_199194.2;BRE,intron_variant,,ENST00000379624,NM_001261840.1,NM_199191.2;AC093690.1,upstream_gene_variant,,ENST00000418963,;"	"-"	"ENSG00000158019"	"ENST00000344773"	"Transcript"	"intron_variant"	"-/1852"	"-/1248"	"-/415"	""	""	"rs5830067"	"1"	NA	1	"BRE"	"HGNC"	1106	"protein_coding"	"YES"	"CCDS1764.1"	"ENSP00000343412"	"Q9NXR7"	"C9J2G0"	"UPI0000072A9C"	"NM_004899.4"	NA	NA	""	"11/12"	""	"GAGA:0.1218"	"-:0.7284"	"-:0.8905"	NA	"-:0.999"	"-:0.8996"	"-:0.9254"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAGAG"	"3273a51e-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"1405"	"PLB1"	151056	"mskcc.org"	"GRCh37"	"2"	28837836	28837837	"+"	"Intron"	"INS"	"-"	"-"	"CATGGT"	"rs10636752"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3195+877_3195+882dupGGTCAT"	""	""	"ENST00000327757"	""	6	"."	4	5	"."	0	"PLB1,intron_variant,,ENST00000422425,NM_001170585.1;PLB1,intron_variant,,ENST00000327757,NM_153021.4;PLB1,intron_variant,,ENST00000404858,;PLB1,intron_variant,,ENST00000541605,;PLB1,intron_variant,,ENST00000411743,;PLB1,intron_variant,,ENST00000444257,;PLB1,intron_variant,,ENST00000479065,;"	"CATGGT"	"ENSG00000163803"	"ENST00000327757"	"Transcript"	"intron_variant"	"-/5107"	"-/4377"	"-/1458"	""	""	"rs10636752"	"1"	NA	1	"PLB1"	"HGNC"	30041	"protein_coding"	"YES"	"CCDS33168.1"	"ENSP00000330442"	"Q6P1J6"	""	"UPI0000D6117C"	"NM_153021.4"	NA	NA	""	"44/57"	""	"CATGGT:0.0994"	"CATGGT:0.2224"	"CATGGT:0.0937"	NA	"CATGGT:0"	"CATGGT:0.1044"	"CATGGT:0.0348"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"50857ee2-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1406"	"ALK"	238	"mskcc.org"	"GRCh37"	"2"	30123861	30123862	"+"	"Intron"	"INS"	"-"	"-"	"AGAGCAAGCA"	"rs143158227"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.667+18997_667+18998insTGCTTGCTCT"	""	""	"ENST00000389048"	""	6	"."	4	1	"."	0	"ALK,intron_variant,,ENST00000389048,NM_004304.4;ALK,intron_variant,,ENST00000431873,;AC106870.2,intron_variant,,ENST00000359823,;"	"AGAGCAAGCA"	"ENSG00000171094"	"ENST00000389048"	"Transcript"	"intron_variant"	"-/6220"	"-/4863"	"-/1620"	""	""	"rs143158227"	"1"	NA	-1	"ALK"	"HGNC"	427	"protein_coding"	"YES"	"CCDS33172.1"	"ENSP00000373700"	"Q9UM73"	"Q580I3"	"UPI00001684DA"	"NM_004304.4"	NA	NA	""	"1/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"50b30bbe-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	TRUE
"1407"	"LBH"	81606	"mskcc.org"	"GRCh37"	"2"	30459804	30459805	"+"	"Intron"	"INS"	"-"	"-"	"GG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.129+2434_129+2435dupGG"	""	""	"ENST00000395323"	""	11	"."	5	1	"."	0	"LBH,intron_variant,,ENST00000395323,NM_030915.3;LBH,intron_variant,,ENST00000407930,;LBH,intron_variant,,ENST00000406087,;LBH,intron_variant,,ENST00000404397,;LBH,intron_variant,,ENST00000401506,;LBH,intron_variant,,ENST00000467242,;LBH,intron_variant,,ENST00000484150,;LBH,intron_variant,,ENST00000464412,;LBH,intron_variant,,ENST00000412933,;"	"GG"	"ENSG00000213626"	"ENST00000395323"	"Transcript"	"intron_variant"	"-/2933"	"-/318"	"-/105"	""	""	""	"1"	NA	1	"LBH"	"HGNC"	29532	"protein_coding"	"YES"	"CCDS33173.1"	"ENSP00000378733"	"Q53QV2"	"F8WC18,B5MBX5"	"UPI0000034E08"	"NM_030915.3"	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"50b42e2c-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"1408"	"EHD3"	30845	"mskcc.org"	"GRCh37"	"2"	31457155	31457167	"+"	"5'Flank"	"DEL"	"GGGACCCCGGCTT"	"GGGACCCCGGCTT"	"-"	"rs144609065"	NA	"JHCCPT1"	"JHCCPN1"	"GGGACCCCGGCTT"	"GGGACCCCGGCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000322054"	""	17	"."	8	7	"."	0	"EHD3,5_prime_UTR_variant,,ENST00000541626,;EHD3,upstream_gene_variant,,ENST00000322054,NM_014600.2;CAPN14,upstream_gene_variant,,ENST00000398824,;"	"-"	"ENSG00000013016"	"ENST00000322054"	"Transcript"	"upstream_gene_variant"	"-/4636"	"-/1608"	"-/535"	""	""	"rs144609065"	"1"	"36"	1	"EHD3"	"HGNC"	3244	"protein_coding"	"YES"	"CCDS1774.1"	"ENSP00000327116"	"Q9NZN3"	""	"UPI0000140D07"	"NM_014600.2"	NA	NA	""	""	""	"GGGACCCCGGCTT:0.3285"	"-:0.3328"	"-:0.7824"	NA	"-:0.8353"	"-:0.6789"	"-:0.8742"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGGGGACCCCGGCTTG"	"32d72d78-2764-11e6-ab03-0c42424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.470588235294118	"WXS"	FALSE
"1409"	"BIRC6"	57448	"mskcc.org"	"GRCh37"	"2"	32843295	32843295	"+"	"3'UTR"	"DEL"	"A"	"A"	"-"	"rs66698122"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*324delA"	""	""	"ENST00000421745"	"74/74"	10	"."	5	4	"."	0	"BIRC6,3_prime_UTR_variant,,ENST00000421745,NM_016252.3;BIRC6,non_coding_transcript_exon_variant,,ENST00000471232,;"	"-"	"ENSG00000115760"	"ENST00000421745"	"Transcript"	"3_prime_UTR_variant"	"15032/15703"	"-/14574"	"-/4857"	""	""	"rs66698122"	"1"	NA	1	"BIRC6"	"HGNC"	13516	"protein_coding"	"YES"	"CCDS33175.2"	"ENSP00000393596"	"Q9NR09"	""	"UPI0001611442"	"NM_016252.3"	NA	NA	"74/74"	""	""	"A:0.2706"	"-:0.5787"	"-:0.6686"	NA	"-:0.9405"	"-:0.7346"	"-:0.7536"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAT"	"333a185c-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1410"	"RASGRP3"	25780	"mskcc.org"	"GRCh37"	"2"	33788271	33788275	"+"	"3'UTR"	"DEL"	"TTGTT"	"TTGTT"	"-"	"rs3835879"	NA	"JHCCPT1"	"JHCCPN1"	"TTGTT"	"TTGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*487_*491delTTGTT"	""	""	"ENST00000403687"	"18/18"	15	"."	3	4	"."	0	"RASGRP3,3_prime_UTR_variant,,ENST00000403687,NM_001139488.1;RASGRP3,3_prime_UTR_variant,,ENST00000402538,NM_170672.2;RASGRP3,3_prime_UTR_variant,,ENST00000407811,NM_015376.2;AC020594.5,intron_variant,,ENST00000437680,;"	"-"	"ENSG00000152689"	"ENST00000403687"	"Transcript"	"3_prime_UTR_variant"	"3280-3284/4807"	"-/2073"	"-/690"	""	""	"rs3835879"	"1"	NA	1	"RASGRP3"	"HGNC"	14545	"protein_coding"	"YES"	"CCDS46256.1"	"ENSP00000384192"	"Q8IV61"	"C9K0P4,C9JWP0,C9JSS2,C9J9C9,C9IYA5"	"UPI0000074694"	"NM_001139488.1"	NA	NA	"18/18"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"20"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTGTTT"	"337539e6-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"1411"	"AC013442.1"	0	"mskcc.org"	"GRCh37"	"2"	35444341	35444341	"+"	"3'Flank"	"DEL"	"T"	"T"	"-"	"rs141151367"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000397347"	""	21	"."	6	2	"."	0	"AC013442.1,downstream_gene_variant,,ENST00000397347,;"	"-"	"ENSG00000196085"	"ENST00000397347"	"Transcript"	"downstream_gene_variant"	"-/228"	""	""	""	""	"rs141151367"	"1"	"102"	-1	"AC013442.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0815"	"-:0.0182"	"-:0.1037"	NA	"-:0.002"	"-:0.2097"	"-:0.1012"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATT"	"337f53f4-2764-11e6-ab03-0c42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1412"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	36563117	36563118	"+"	"IGR"	"INS"	"-"	"-"	"GGAAGGAAGGAAGGAAGGAAGGAAGGAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	2	"."	0	""	"GGAAGGAAGGAAGGAAGGAAGGAAGGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"50f3974c-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1413"	"CEBPZ"	10153	"mskcc.org"	"GRCh37"	"2"	37437678	37437682	"+"	"Intron"	"DEL"	"ATTCT"	"ATTCT"	"-"	"rs143572366"	NA	"JHCCPT1"	"JHCCPN1"	"ATTCT"	"ATTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2884+460_2884+464delAGAAT"	""	""	"ENST00000234170"	""	8	"."	3	1	"."	0	"CEBPZ,intron_variant,,ENST00000234170,NM_005760.2;CEBPZ-AS1,intron_variant,,ENST00000397064,;RP11-423P10.2,non_coding_transcript_exon_variant,,ENST00000606229,;CEBPZ-AS1,upstream_gene_variant,,ENST00000438935,;CEBPZ,intron_variant,,ENST00000489306,;"	"-"	"ENSG00000115816"	"ENST00000234170"	"Transcript"	"intron_variant"	"-/3463"	"-/3165"	"-/1054"	""	""	"rs143572366"	"1"	NA	-1	"CEBPZ"	"HGNC"	24218	"protein_coding"	"YES"	"CCDS1787.1"	"ENSP00000234170"	"Q03701"	""	"UPI0000072AAB"	"NM_005760.2"	NA	NA	""	"13/15"	""	"-:0.3369"	"-:0.3169"	"-:0.3674"	NA	"-:0.3462"	"-:0.4294"	"-:0.2372"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATTCTA"	"33c6e05c-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1414"	"PRKD3"	23683	"mskcc.org"	"GRCh37"	"2"	37495052	37495053	"+"	"Intron"	"DEL"	"CA"	"CA"	"-"	"rs34936390"	NA	"JHCCPT1"	"JHCCPN1"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1778-374_1778-373delTG"	""	""	"ENST00000379066"	""	10	"."	3	2	"."	0	"PRKD3,intron_variant,,ENST00000379066,;PRKD3,intron_variant,,ENST00000234179,NM_005813.3;PRKD3,intron_variant,,ENST00000452104,;PRKD3,intron_variant,,ENST00000443977,;PRKD3,non_coding_transcript_exon_variant,,ENST00000494667,;PRKD3,intron_variant,,ENST00000469275,;"	"-"	"ENSG00000115825"	"ENST00000379066"	"Transcript"	"intron_variant"	"-/6111"	"-/2673"	"-/890"	""	""	"rs34936390"	"1"	NA	-1	"PRKD3"	"HGNC"	9408	"protein_coding"	"YES"	"CCDS1789.1"	"ENSP00000368356"	"O94806"	"C9JKP8"	"UPI0000035B4D"	""	NA	NA	""	"13/18"	""	"-:0.1613"	"-:0.0772"	"-:0.2435"	NA	"-:0.3363"	"-:0.0795"	"-:0.1207"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCAC"	"33cc0280-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1415"	"AC012354.6"	0	"mskcc.org"	"GRCh37"	"2"	45190056	45190057	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs5830819"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.340+1669_340+1670insC"	""	""	"ENST00000425325"	""	7	"."	4	1	"."	0	"AC012354.6,intron_variant,,ENST00000425325,;"	"C"	"ENSG00000225156"	"ENST00000425325"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2685"	""	""	""	""	"rs5830819"	"1"	NA	1	"AC012354.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	"C:0.2526"	"C:0.1626"	"C:0.2536"	NA	"C:0.4335"	"C:0.1551"	"C:0.2873"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"5190ae24-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1416"	"PRKCE"	5581	"mskcc.org"	"GRCh37"	"2"	46287462	46287463	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs35438862"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1438-25883dupC"	""	""	"ENST00000306156"	""	12	"."	6	1	"."	0	"PRKCE,intron_variant,,ENST00000306156,NM_005400.2;"	"C"	"ENSG00000171132"	"ENST00000306156"	"Transcript"	"intron_variant"	"-/5650"	"-/2214"	"-/737"	""	""	"rs35438862"	"1"	NA	1	"PRKCE"	"HGNC"	9401	"protein_coding"	"YES"	"CCDS1824.1"	"ENSP00000306124"	"Q02156"	"Q53RT0,L7RTI5,C9JR22"	"UPI000012DF6B"	"NM_005400.2"	NA	NA	""	"10/14"	""	"CC:0.3179"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"519e6da2-2764-11e6-ab03-0c42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1417"	"TTC7A"	57217	"mskcc.org"	"GRCh37"	"2"	47224105	47224110	"+"	"Intron"	"DEL"	"GTTGTT"	"GTTGTT"	"-"	"rs375926625"	NA	"JHCCPT1"	"JHCCPN1"	"GTTGTT"	"GTTGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1065+1788_1065+1793delGTTGTT"	""	""	"ENST00000319190"	""	7	"."	4	2	"."	0	"TTC7A,intron_variant,,ENST00000319190,NM_020458.2;TTC7A,intron_variant,,ENST00000394850,;TTC7A,intron_variant,,ENST00000409245,;TTC7A,intron_variant,,ENST00000263737,;TTC7A,intron_variant,,ENST00000461601,;TTC7A,intron_variant,,ENST00000474321,;TTC7A,intron_variant,,ENST00000409825,;TTC7A,intron_variant,,ENST00000491786,;TTC7A,intron_variant,,ENST00000484061,;TTC7A,intron_variant,,ENST00000441914,;"	"-"	"ENSG00000068724"	"ENST00000319190"	"Transcript"	"intron_variant"	"-/5157"	"-/2577"	"-/858"	""	""	"rs375926625"	"1"	NA	1	"TTC7A"	"HGNC"	19750	"protein_coding"	"YES"	"CCDS33193.1"	"ENSP00000316699"	"Q9ULT0"	"F5H4E1"	"UPI00001BDC89"	"NM_020458.2"	NA	NA	""	"8/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"21"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGGTTGTTG"	"34fb753c-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1418"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	49490064	49490065	"+"	"IGR"	"INS"	"-"	"-"	"TCTT"	"rs35478108"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"TCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35478108"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TCTT:0.4994"	"TCTT:0.593"	"TCTT:0.4352"	NA	"TCTT:0.369"	"TCTT:0.494"	"TCTT:0.5583"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"51dd53a0-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1419"	"AC007682.1"	730100	"mskcc.org"	"GRCh37"	"2"	51806748	51806749	"+"	"Intron"	"INS"	"-"	"-"	"TTTCACTTTTTCTT"	"rs145381433"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.753+51959_753+51960insTTCTTTTTCACTTT"	""	""	"ENST00000440698"	""	10	"."	4	1	"."	0	"AC007682.1,intron_variant,,ENST00000440698,;"	"TTTCACTTTTTCTT"	"ENSG00000231918"	"ENST00000440698"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3939"	""	""	""	""	"rs145381433"	"1"	NA	1	"AC007682.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"5/10"	""	"TTTCACTTTTTCTT:0.4275"	"TTTCACTTTTTCTT:0.5197"	"TTTCACTTTTTCTT:0.4078"	NA	"TTTCACTTTTTCTT:0.3264"	"TTTCACTTTTTCTT:0.4185"	"TTTCACTTTTTCTT:0.4305"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"51ebc3cc-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1420"	"EML6"	400954	"mskcc.org"	"GRCh37"	"2"	55077715	55077716	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs34233616"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1444+369dupA"	""	""	"ENST00000356458"	""	8	"."	3	2	"."	0	"EML6,intron_variant,,ENST00000356458,NM_001039753.2;RNU7-81P,downstream_gene_variant,,ENST00000516698,;EML6,upstream_gene_variant,,ENST00000493997,;"	"A"	"ENSG00000214595"	"ENST00000356458"	"Transcript"	"intron_variant"	"-/8320"	"-/5877"	"-/1958"	""	""	"rs34233616"	"1"	NA	1	"EML6"	"HGNC"	35412	"protein_coding"	"YES"	"CCDS46286.1"	"ENSP00000348842"	"Q6ZMW3"	""	"UPI00006C0432"	"NM_001039753.2"	NA	NA	""	"9/40"	""	"A:0.3864"	"A:0.379"	"A:0.3588"	NA	"A:0.3393"	"A:0.505"	"A:0.3425"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"5202471e-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1421"	"RP11-444A22.1"	0	"mskcc.org"	"GRCh37"	"2"	59798149	59798149	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs56759255"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.237-58809delT"	""	""	"ENST00000606382"	""	8	"."	4	1	"."	0	"AC007131.2,intron_variant,,ENST00000412409,;RP11-444A22.1,intron_variant,,ENST00000606382,;"	"-"	"ENSG00000271955"	"ENST00000606382"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/478"	""	""	""	""	"rs56759255"	"1"	NA	-1	"RP11-444A22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"36215ed6-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1422"	"ENSR00000301636"	0	"mskcc.org"	"GRCh37"	"2"	65520935	65520936	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs140427072"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000301636"	""	10	"."	5	1	"."	0	""	"C"	""	"ENSR00000301636"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs140427072"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.2087"	"C:0.2352"	"C:0.2176"	NA	"C:0.1141"	"C:0.2903"	"C:0.18"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"52b7ba18-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1423"	"AAK1"	22848	"mskcc.org"	"GRCh37"	"2"	69775460	69775461	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11385217"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.283-3785dupT"	""	""	"ENST00000409085"	""	11	"."	4	3	"."	0	"AAK1,intron_variant,,ENST00000409085,NM_014911.3;AAK1,intron_variant,,ENST00000406297,;AAK1,intron_variant,,ENST00000409068,;AAK1,upstream_gene_variant,,ENST00000470281,;AAK1,intron_variant,,ENST00000495836,;"	"A"	"ENSG00000115977"	"ENST00000409085"	"Transcript"	"intron_variant"	"-/11345"	"-/2886"	"-/961"	""	""	"rs11385217"	"1"	NA	-1	"AAK1"	"HGNC"	19679	"protein_coding"	"YES"	"CCDS1893.2"	"ENSP00000386456"	"Q2M2I8"	""	"UPI0001881663"	"NM_014911.3"	NA	NA	""	"3/21"	""	"-:0.3684"	"A:0.711"	"A:0.6643"	NA	"A:0.754"	"A:0.3996"	"A:0.6135"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"52f9320e-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"1424"	"ADD2"	119	"mskcc.org"	"GRCh37"	"2"	70914726	70914733	"+"	"Intron"	"DEL"	"AAACAAAC"	"AAACAAAC"	"-"	"rs139750317"	NA	"JHCCPT1"	"JHCCPN1"	"AAACAAAC"	"AAACAAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.948+423_948+430delGTTTGTTT"	""	""	"ENST00000264436"	""	9	"."	4	1	"."	0	"ADD2,intron_variant,,ENST00000264436,NM_001617.3;ADD2,intron_variant,,ENST00000413157,NM_017482.3;ADD2,intron_variant,,ENST00000407644,NM_001185054.1;ADD2,intron_variant,,ENST00000355733,NM_017488.3;ADD2,intron_variant,,ENST00000430656,NM_001185055.1;ADD2,intron_variant,,ENST00000456320,;ADD2,intron_variant,,ENST00000522886,;ADD2,downstream_gene_variant,,ENST00000415348,;AC007395.3,intron_variant,,ENST00000457851,;ADD2,intron_variant,,ENST00000403045,;"	"-"	"ENSG00000075340"	"ENST00000264436"	"Transcript"	"intron_variant"	"-/9267"	"-/2181"	"-/726"	""	""	"rs139750317"	"1"	NA	-1	"ADD2"	"HGNC"	244	"protein_coding"	"YES"	"CCDS1906.1"	"ENSP00000264436"	"P35612"	"Q96HD4,C9J299,C9J080"	"UPI0000125503"	"NM_001617.3"	NA	NA	""	"9/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAAAACAAACA"	"37bd1dde-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1425"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	71492246	71492250	"+"	"IGR"	"DEL"	"ATTTA"	"ATTTA"	"CTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ATTTA"	"ATTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	1	"."	0	""	"CTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTATTTAT"	"4d25f600-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1426"	"DYSF"	8291	"mskcc.org"	"GRCh37"	"2"	71739927	71739938	"+"	"Intron"	"DEL"	"CAGCACAGGGCT"	"CAGCACAGGGCT"	"-"	"rs72107364"	NA	"JHCCPT1"	"JHCCPN1"	"CAGCACAGGGCT"	"CAGCACAGGGCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.461-442_461-431delAGCACAGGGCTC"	""	""	"ENST00000410020"	""	6	"."	4	3	"."	0	"DYSF,intron_variant,,ENST00000258104,NM_003494.3,NM_001130976.1;DYSF,intron_variant,,ENST00000409582,NM_001130981.1;DYSF,intron_variant,,ENST00000413539,NM_001130979.1;DYSF,intron_variant,,ENST00000429174,NM_001130978.1,NM_001130977.1;DYSF,intron_variant,,ENST00000409762,NM_001130980.1;DYSF,intron_variant,,ENST00000410020,NM_001130987.1;DYSF,intron_variant,,ENST00000409651,NM_001130982.1;DYSF,intron_variant,,ENST00000409366,NM_001130983.1;DYSF,intron_variant,,ENST00000410041,NM_001130985.1;DYSF,intron_variant,,ENST00000409744,NM_001130984.1;DYSF,intron_variant,,ENST00000394120,NM_001130986.1,NM_001130455.1;"	"-"	"ENSG00000135636"	"ENST00000410020"	"Transcript"	"intron_variant"	"-/6657"	"-/6360"	"-/2119"	""	""	"rs72107364"	"1"	NA	1	"DYSF"	"HGNC"	3097	"protein_coding"	"YES"	"CCDS46328.1"	"ENSP00000386881"	"O75923"	"A0FK00"	"UPI000171F710"	"NM_001130987.1"	NA	NA	""	"5/55"	""	"-:0.4565"	"-:0.6127"	"-:0.5403"	NA	"-:0.1518"	"-:0.6004"	"-:0.3517"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCCAGCACAGGGCTC"	"37e2da7e-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1427"	"DYSF"	8291	"mskcc.org"	"GRCh37"	"2"	71782192	71782193	"+"	"Intron"	"INS"	"-"	"-"	"GCATGGC"	"rs11282951"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2110-902_2110-896dupGCATGGC"	""	""	"ENST00000410020"	""	13	"."	4	4	"."	0	"DYSF,intron_variant,,ENST00000258104,NM_003494.3,NM_001130976.1;DYSF,intron_variant,,ENST00000409582,NM_001130981.1;DYSF,intron_variant,,ENST00000413539,NM_001130979.1;DYSF,intron_variant,,ENST00000429174,NM_001130978.1,NM_001130977.1;DYSF,intron_variant,,ENST00000409762,NM_001130980.1;DYSF,intron_variant,,ENST00000410020,NM_001130987.1;DYSF,intron_variant,,ENST00000409651,NM_001130982.1;DYSF,intron_variant,,ENST00000409366,NM_001130983.1;DYSF,intron_variant,,ENST00000410041,NM_001130985.1;DYSF,intron_variant,,ENST00000409744,NM_001130984.1;DYSF,intron_variant,,ENST00000394120,NM_001130986.1,NM_001130455.1;"	"GCATGGC"	"ENSG00000135636"	"ENST00000410020"	"Transcript"	"intron_variant"	"-/6657"	"-/6360"	"-/2119"	""	""	"rs11282951"	"1"	NA	1	"DYSF"	"HGNC"	3097	"protein_coding"	"YES"	"CCDS46328.1"	"ENSP00000386881"	"O75923"	"A0FK00"	"UPI000171F710"	"NM_001130987.1"	NA	NA	""	"21/55"	""	"GCATGGC:0.0218"	"GCATGGC:0.0144"	"GCATGGC:0.0288"	NA	"GCATGGC:0"	"GCATGGC:0.0358"	"GCATGGC:0.0348"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"532a1716-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"1428"	"DYSF"	8291	"mskcc.org"	"GRCh37"	"2"	71863642	71863642	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs71403000"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4528-7452delG"	""	""	"ENST00000410020"	""	7	"."	4	3	"."	0	"DYSF,intron_variant,,ENST00000258104,NM_003494.3,NM_001130976.1;DYSF,intron_variant,,ENST00000409582,NM_001130981.1;DYSF,intron_variant,,ENST00000413539,NM_001130979.1;DYSF,intron_variant,,ENST00000429174,NM_001130978.1,NM_001130977.1;DYSF,intron_variant,,ENST00000409762,NM_001130980.1;DYSF,intron_variant,,ENST00000410020,NM_001130987.1;DYSF,intron_variant,,ENST00000409651,NM_001130982.1;DYSF,intron_variant,,ENST00000409366,NM_001130983.1;DYSF,intron_variant,,ENST00000410041,NM_001130985.1;DYSF,intron_variant,,ENST00000409744,NM_001130984.1;DYSF,intron_variant,,ENST00000394120,NM_001130986.1,NM_001130455.1;DYSF,intron_variant,,ENST00000479049,;DYSF,intron_variant,,ENST00000468173,;"	"-"	"ENSG00000135636"	"ENST00000410020"	"Transcript"	"intron_variant"	"-/6657"	"-/6360"	"-/2119"	""	""	"rs71403000"	"1"	NA	1	"DYSF"	"HGNC"	3097	"protein_coding"	"YES"	"CCDS46328.1"	"ENSP00000386881"	"O75923"	"A0FK00"	"UPI000171F710"	"NM_001130987.1"	NA	NA	""	"41/55"	""	"-:0.2636"	"-:0.0151"	"-:0.2738"	NA	"-:0.3909"	"-:0.3598"	"-:0.362"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTGG"	"37ef6ff0-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1429"	"POLE4"	56655	"mskcc.org"	"GRCh37"	"2"	75181858	75181858	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"rs11290670"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000483063"	""	6	"."	4	1	"."	0	"POLE4,upstream_gene_variant,,ENST00000483063,NM_019896.2;POLE4,upstream_gene_variant,,ENST00000459636,;POLE4,upstream_gene_variant,,ENST00000233699,;POLE4,upstream_gene_variant,,ENST00000465242,;POLE4,upstream_gene_variant,,ENST00000485527,;POLE4,upstream_gene_variant,,ENST00000473023,;"	"-"	"ENSG00000115350"	"ENST00000483063"	"Transcript"	"upstream_gene_variant"	"-/1248"	"-/354"	"-/117"	""	""	"rs11290670"	"1"	"3761"	1	"POLE4"	"HGNC"	18755	"protein_coding"	"YES"	"CCDS1957.1"	"ENSP00000420176"	"Q9NR33"	""	"UPI000013C98A"	"NM_019896.2"	NA	NA	""	""	""	"-:0.3550"	"-:0.2912"	"-:0.3847"	NA	"-:0.3998"	"-:0.4543"	"-:0.272"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"38b460f8-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1430"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	76148861	76148862	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs34694144"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34694144"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1394"	"T:0.9228"	"T:0.7594"	NA	"T:0.9444"	"T:0.7614"	"T:0.864"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"538362b2-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1431"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	79039642	79039643	"+"	"IGR"	"INS"	"-"	"-"	"CT"	"rs3035915"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	2	"."	0	""	"CT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs3035915"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3762"	"CT:0.5998"	"CT:0.5865"	NA	"CT:0.4464"	"CT:0.7197"	"CT:0.7669"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"53945cfc-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1432"	"REG3G"	130120	"mskcc.org"	"GRCh37"	"2"	79253987	79254028	"+"	"Intron"	"DEL"	"ATAGGGGAAAGTCCATGCAGGTCTCAGGGGGAGGAGGGTCTC"	"ATAGGGGAAAGTCCATGCAGGTCTCAGGGGGAGGAGGGTCTC"	"CCGGTCTCAGGGGGAGGAGGGTCTCCA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ATAGGGGAAAGTCCATGCAGGTCTCAGGGGGAGGAGGGTCTC"	"ATAGGGGAAAGTCCATGCAGGTCTCAGGGGGAGGAGGGTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.195+30_195+71delATAGGGGAAAGTCCATGCAGGTCTCAGGGGGAGGAGGGTCTCinsCCGGTCTCAGGGGGAGGAGGGTCTCCA"	""	""	"ENST00000272324"	""	128	"."	35	44	"."	0	"REG3G,intron_variant,,ENST00000272324,NM_001008387.2;REG3G,intron_variant,,ENST00000393897,NM_198448.3;REG3G,intron_variant,,ENST00000409471,NM_001270040.1;REG3G,non_coding_transcript_exon_variant,,ENST00000498312,;REG3G,intron_variant,,ENST00000490944,;"	"CCGGTCTCAGGGGGAGGAGGGTCTCCA"	"ENSG00000143954"	"ENST00000272324"	"Transcript"	"intron_variant"	"-/938"	"-/528"	"-/175"	""	""	""	"1"	NA	1	"REG3G"	"HGNC"	29595	"protein_coding"	"YES"	"CCDS1962.1"	"ENSP00000272324"	"Q6UW15"	""	"UPI0000048F1E"	"NM_001008387.2"	NA	NA	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGATAGGGGAAAGTCCATGCAGGTCTCAGGGGGAGGAGGGTCTCC"	"4d358aa2-2764-11e6-ab03-0c42424a729f"	"2067"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2734375	"WXS"	FALSE
"1433"	"REG3G"	130120	"mskcc.org"	"GRCh37"	"2"	79253987	79254028	"+"	"Intron"	"DEL"	"ATAGGGGAAAGTCCATGCAGGTCTCAGGGGGAGGAGGGTCTC"	"ATAGGGGAAAGTCCATGCAGGTCTCAGGGGGAGGAGGGTCTC"	"CCGGTCTCAGGGGGAGGAGGGTCTCCA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ATAGGGGAAAGTCCATGCAGGTCTCAGGGGGAGGAGGGTCTC"	"ATAGGGGAAAGTCCATGCAGGTCTCAGGGGGAGGAGGGTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.195+30_195+71delATAGGGGAAAGTCCATGCAGGTCTCAGGGGGAGGAGGGTCTCinsCCGGTCTCAGGGGGAGGAGGGTCTCCA"	""	""	"ENST00000272324"	""	102	"."	23	44	"."	0	"REG3G,intron_variant,,ENST00000272324,NM_001008387.2;REG3G,intron_variant,,ENST00000393897,NM_198448.3;REG3G,intron_variant,,ENST00000409471,NM_001270040.1;REG3G,non_coding_transcript_exon_variant,,ENST00000498312,;REG3G,intron_variant,,ENST00000490944,;"	"CCGGTCTCAGGGGGAGGAGGGTCTCCA"	"ENSG00000143954"	"ENST00000272324"	"Transcript"	"intron_variant"	"-/938"	"-/528"	"-/175"	""	""	""	"1"	NA	1	"REG3G"	"HGNC"	29595	"protein_coding"	"YES"	"CCDS1962.1"	"ENSP00000272324"	"Q6UW15"	""	"UPI0000048F1E"	"NM_001008387.2"	NA	NA	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGATAGGGGAAAGTCCATGCAGGTCTCAGGGGGAGGAGGGTCTCC"	"4d38785c-2764-11e6-ab03-0c42424a729f"	"1380"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225490196078431	"WXS"	FALSE
"1434"	"REG1A"	5967	"mskcc.org"	"GRCh37"	"2"	79348129	79348129	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.64+78delG"	""	""	"ENST00000233735"	""	280	"."	4	122	"."	0	"REG1A,intron_variant,,ENST00000233735,NM_002909.4;REG1A,intron_variant,,ENST00000488524,;REG1A,intron_variant,,ENST00000485184,;REG1A,intron_variant,,ENST00000461579,;"	"-"	"ENSG00000115386"	"ENST00000233735"	"Transcript"	"intron_variant"	"-/808"	"-/501"	"-/166"	""	""	""	"1"	NA	1	"REG1A"	"HGNC"	9951	"protein_coding"	"YES"	"CCDS1964.1"	"ENSP00000233735"	"P05451"	"Q2TBE1"	"UPI000012E72D"	"NM_002909.4"	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"38f19efa-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0142857142857143	"WXS"	FALSE
"1435"	"CTNNA2"	1496	"mskcc.org"	"GRCh37"	"2"	80413243	80413244	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs56228111"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1057-207091dupC"	""	""	"ENST00000466387"	""	10	"."	4	5	"."	0	"CTNNA2,intron_variant,,ENST00000466387,;CTNNA2,intron_variant,,ENST00000496558,NM_001164883.1,NM_004389.3,NM_001282598.1;CTNNA2,intron_variant,,ENST00000402739,NM_001282597.1;CTNNA2,intron_variant,,ENST00000541047,;CTNNA2,intron_variant,,ENST00000361291,;CTNNA2,intron_variant,,ENST00000540488,;"	"C"	"ENSG00000066032"	"ENST00000466387"	"Transcript"	"intron_variant"	"-/4349"	"-/2718"	"-/905"	""	""	"rs56228111"	"1"	NA	1	"CTNNA2"	"HGNC"	2510	"protein_coding"	"YES"	"CCDS42703.2"	"ENSP00000418191"	"P26232"	"F6KRI5,C9J144,C9IZ88"	"UPI00001A3E86"	""	NA	NA	""	"11/21"	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"539dc40e-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1436"	"AC093162.5"	0	"mskcc.org"	"GRCh37"	"2"	85543651	85543652	"+"	"RNA"	"INS"	"-"	"-"	"AAGAAA"	"rs200104731"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.703_704insAAGAAA"	""	""	"ENST00000501107"	"5/5"	39	"."	3	39	"."	0	"TGOLN2,downstream_gene_variant,,ENST00000377386,;TGOLN2,downstream_gene_variant,,ENST00000398263,NM_001206844.1,NM_001206840.1,NM_001206841.1,NM_006464.3;TGOLN2,downstream_gene_variant,,ENST00000282120,;AC093162.5,non_coding_transcript_exon_variant,,ENST00000501107,;"	"AAGAAA"	"ENSG00000246575"	"ENST00000501107"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"703-704/704"	""	""	""	""	"rs200104731"	"1"	NA	1	"AC093162.5"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"5/5"	""	""	"AAGAAA:0.0032"	"AAGAAA:0.0015"	"AAGAAA:0.0014"	NA	"AAGAAA:0.0109"	"AAGAAA:0"	"AAGAAA:0.002"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"53cfa5e6-2764-11e6-ab03-0c42424a729f"	"160"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WXS"	FALSE
"1437"	"TGOLN2"	10618	"mskcc.org"	"GRCh37"	"2"	85548069	85548069	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"rs3832101"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000409232"	""	6	"."	3	1	"."	0	"TGOLN2,3_prime_UTR_variant,,ENST00000377386,;TGOLN2,3_prime_UTR_variant,,ENST00000398263,NM_001206844.1,NM_001206840.1,NM_001206841.1,NM_006464.3;TGOLN2,3_prime_UTR_variant,,ENST00000282120,;TGOLN2,downstream_gene_variant,,ENST00000409015,;TGOLN2,downstream_gene_variant,,ENST00000409232,;TGOLN2,downstream_gene_variant,,ENST00000444342,;AC093162.5,downstream_gene_variant,,ENST00000501107,;"	"-"	"ENSG00000152291"	"ENST00000409232"	"Transcript"	"downstream_gene_variant"	"-/2235"	"-/1362"	"-/453"	""	""	"rs3832101"	"1"	"948"	-1	"TGOLN2"	"HGNC"	15450	"protein_coding"	"YES"	"CCDS56126.1"	"ENSP00000386443"	""	"F8WBK2"	"UPI000020880A"	""	NA	NA	""	""	""	"A:0.3107"	"-:0.5832"	"-:0.745"	NA	"-:0.9563"	"-:0.5368"	"-:0.6748"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTAA"	"395ef0e0-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1438"	"CAPG"	822	"mskcc.org"	"GRCh37"	"2"	85624827	85624828	"+"	"Intron"	"INS"	"-"	"-"	"AAAGAAAGAAAGAAAGAAAGAAAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.892+292_892+315dupCTTTCTTTCTTTCTTTCTTTCTTT"	""	""	"ENST00000263867"	""	23	"."	3	9	"."	0	"CAPG,intron_variant,,ENST00000263867,NM_001256140.1,NM_001747.3;CAPG,intron_variant,,ENST00000409921,;CAPG,intron_variant,,ENST00000409670,;CAPG,intron_variant,,ENST00000409724,NM_001256139.1;CAPG,intron_variant,,ENST00000453973,;CAPG,downstream_gene_variant,,ENST00000447219,;CAPG,downstream_gene_variant,,ENST00000439385,;CAPG,downstream_gene_variant,,ENST00000449030,;CAPG,downstream_gene_variant,,ENST00000409275,;CAPG,intron_variant,,ENST00000483659,;CAPG,downstream_gene_variant,,ENST00000415012,;CAPG,downstream_gene_variant,,ENST00000479651,;CAPG,intron_variant,,ENST00000471064,;CAPG,downstream_gene_variant,,ENST00000459793,;CAPG,downstream_gene_variant,,ENST00000491267,;"	"AAAGAAAGAAAGAAAGAAAGAAAG"	"ENSG00000042493"	"ENST00000263867"	"Transcript"	"intron_variant"	"-/1442"	"-/1047"	"-/348"	""	""	""	"1"	NA	-1	"CAPG"	"HGNC"	1474	"protein_coding"	"YES"	"CCDS1974.1"	"ENSP00000263867"	"P40121"	"E7ENU9,B8ZZL6,B4DU58"	"UPI000013D47C"	"NM_001256140.1,NM_001747.3"	NA	NA	""	"8/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"53d42bfc-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"1439"	"POLR1A"	25885	"mskcc.org"	"GRCh37"	"2"	86304933	86304944	"+"	"Intron"	"DEL"	"CGCACACACACA"	"CGCACACACACA"	"-"	"rs754747389"	NA	"JHCCPT1"	"JHCCPN1"	"CGCACACACACA"	"CGCACACACACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1380+38_1380+49delTGTGTGTGTGCG"	""	""	"ENST00000263857"	""	29	"."	5	10	"."	0	"POLR1A,intron_variant,,ENST00000263857,;POLR1A,intron_variant,,ENST00000409681,NM_015425.3;POLR1A,downstream_gene_variant,,ENST00000486964,;POLR1A,downstream_gene_variant,,ENST00000424089,;"	"-"	"ENSG00000068654"	"ENST00000263857"	"Transcript"	"intron_variant"	"-/12749"	"-/5163"	"-/1720"	""	""	"rs754747389"	"1"	NA	-1	"POLR1A"	"HGNC"	17264	"protein_coding"	"YES"	"CCDS42706.1"	"ENSP00000263857"	"O95602"	"Q96AG9,Q53T12,B7Z8X7"	"UPI0000D7DB86"	""	NA	NA	""	"11/33"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.1834"	"0.08381"	"0.1011"	"0.03438"	"0.2551"	"0.2167"	"0.1814"	"0.1465"	"1"	"common_variant"	"CGCGCACACACACAC"	"39ab094e-2764-11e6-ab03-0c42424a729f"	"300"	0.1674	"10184/60842"	"19290/105156"	"441/5262"	"667/6596"	"189/5498"	"928/3638"	"6504/30012"	"74/408"	"1381/9428"	"PASS"	"FALSE"	0.172413793103448	"WXS"	FALSE
"1440"	"POLR1A"	25885	"mskcc.org"	"GRCh37"	"2"	86304933	86304948	"+"	"Intron"	"DEL"	"CGCACACACACACACA"	"CGCACACACACACACA"	"-"	"rs770317856"	NA	"JHCCPT1"	"JHCCPN1"	"CGCACACACACACACA"	"CGCACACACACACACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1380+34_1380+49delTGTGTGTGTGTGTGCG"	""	""	"ENST00000263857"	""	29	"."	10	10	"."	0	"POLR1A,intron_variant,,ENST00000263857,;POLR1A,intron_variant,,ENST00000409681,NM_015425.3;POLR1A,downstream_gene_variant,,ENST00000486964,;POLR1A,downstream_gene_variant,,ENST00000424089,;"	"-"	"ENSG00000068654"	"ENST00000263857"	"Transcript"	"intron_variant"	"-/12749"	"-/5163"	"-/1720"	""	""	"rs770317856"	"1"	NA	-1	"POLR1A"	"HGNC"	17264	"protein_coding"	"YES"	"CCDS42706.1"	"ENSP00000263857"	"O95602"	"Q96AG9,Q53T12,B7Z8X7"	"UPI0000D7DB86"	""	NA	NA	""	"11/33"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.2625"	"0.07317"	"0.3661"	"0.3067"	"0.2724"	"0.2516"	"0.2794"	"0.2756"	"1"	"common_variant"	"CGCGCACACACACACACAC"	"39aca312-2764-11e6-ab03-0c42424a729f"	"600"	0.2587	"15740/60842"	"27603/105156"	"385/5262"	"2415/6596"	"1686/5498"	"991/3638"	"7551/30012"	"114/408"	"2598/9428"	"PASS"	"FALSE"	0.344827586206897	"WXS"	FALSE
"1441"	"POLR1A"	25885	"mskcc.org"	"GRCh37"	"2"	86304933	86304950	"+"	"Intron"	"DEL"	"CGCACACACACACACACA"	"CGCACACACACACACACA"	"-"	"rs762869127"	NA	"JHCCPT1"	"JHCCPN1"	"CGCACACACACACACACA"	"CGCACACACACACACACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1380+32_1380+49delTGTGTGTGTGTGTGTGCG"	""	""	"ENST00000263857"	""	29	"."	3	10	"."	0	"POLR1A,intron_variant,,ENST00000263857,;POLR1A,intron_variant,,ENST00000409681,NM_015425.3;POLR1A,downstream_gene_variant,,ENST00000486964,;POLR1A,downstream_gene_variant,,ENST00000424089,;"	"-"	"ENSG00000068654"	"ENST00000263857"	"Transcript"	"intron_variant"	"-/12749"	"-/5163"	"-/1720"	""	""	"rs762869127"	"1"	NA	-1	"POLR1A"	"HGNC"	17264	"protein_coding"	"YES"	"CCDS42706.1"	"ENSP00000263857"	"O95602"	"Q96AG9,Q53T12,B7Z8X7"	"UPI0000D7DB86"	""	NA	NA	""	"11/33"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.09253"	"0.008742"	"0.1552"	"0.07475"	"0.07532"	"0.05574"	"0.09314"	"0.07669"	"1"	"common_variant"	"CGCGCACACACACACACACAC"	"39ad7486-2764-11e6-ab03-0c42424a729f"	"180"	0.06885	"4189/60842"	"9730/105156"	"46/5262"	"1024/6596"	"411/5498"	"274/3638"	"1673/30012"	"38/408"	"723/9428"	"PASS"	"FALSE"	0.103448275862069	"WXS"	FALSE
"1442"	"AC018696.4"	0	"mskcc.org"	"GRCh37"	"2"	91762557	91762558	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs56719850"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000454518"	""	16	"."	4	5	"."	0	"AC018696.4,upstream_gene_variant,,ENST00000454518,;"	"C"	"ENSG00000230964"	"ENST00000454518"	"Transcript"	"upstream_gene_variant"	"-/96"	""	""	""	""	"rs56719850"	"1"	"3979"	1	"AC018696.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"543ed3e4-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1443"	"AC116050.1"	0	"mskcc.org"	"GRCh37"	"2"	91774918	91774919	"+"	"5'Flank"	"INS"	"-"	"-"	"AAACAAAC"	"rs113867042"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000443031"	""	13	"."	5	5	"."	0	"AC116050.1,upstream_gene_variant,,ENST00000443031,;"	"AAACAAAC"	"ENSG00000233991"	"ENST00000443031"	"Transcript"	"upstream_gene_variant"	"-/1804"	""	""	""	""	"rs113867042"	"1"	"2617"	1	"AC116050.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"5445beca-2764-11e6-ab03-0c42424a729f"	"151"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"1444"	"AC116050.1"	0	"mskcc.org"	"GRCh37"	"2"	91784574	91784579	"+"	"Intron"	"DEL"	"TTAACT"	"-"	"-"	"rs200306342"	NA	"JHCCPT1"	"JHCCPN1"	"TTAACT"	"TTAACT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.401-6302_401-6297delCTTTAA"	""	""	"ENST00000443031"	""	6	"."	5	4	"."	0	"AC116050.1,intron_variant,,ENST00000443031,;"	"-"	"ENSG00000233991"	"ENST00000443031"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1804"	""	""	""	""	"rs200306342"	"1"	NA	1	"AC116050.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	"-:0.4950"	"-:0.4917"	"-:0.4942"	NA	"-:0.495"	"-:0.497"	"-:0.498"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATTAACTT"	"3a2a5a00-2764-11e6-ab03-0c42424a729f"	"280"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1445"	"AC116050.1"	0	"mskcc.org"	"GRCh37"	"2"	91785457	91785458	"+"	"Intron"	"INS"	"-"	"-"	"CTT"	"rs3976191"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.401-5422_401-5420dupCTT"	""	""	"ENST00000443031"	""	40	"."	3	10	"."	0	"AC116050.1,intron_variant,,ENST00000443031,;"	"CTT"	"ENSG00000233991"	"ENST00000443031"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1804"	""	""	""	""	"rs3976191"	"1"	NA	1	"AC116050.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"5455b64a-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WXS"	FALSE
"1446"	"AC116050.1"	0	"mskcc.org"	"GRCh37"	"2"	91804679	91804679	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs58540742"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1616+3608delG"	""	""	"ENST00000443031"	""	18	"."	5	4	"."	0	"AC027612.6,downstream_gene_variant,,ENST00000609777,;AC116050.1,intron_variant,,ENST00000443031,;"	"-"	"ENSG00000233991"	"ENST00000443031"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1804"	""	""	""	""	"rs58540742"	"1"	NA	1	"AC116050.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/4"	""	"G:0.4998"	"-:0.5008"	"-:0.5"	NA	"-:0.501"	"-:0.499"	"-:0.5"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"3a489b6e-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"1447"	"AC116050.1"	0	"mskcc.org"	"GRCh37"	"2"	91812418	91812418	"+"	"3'Flank"	"DEL"	"T"	"T"	"-"	"rs55869480"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000443031"	""	9	"."	4	2	"."	0	"AC027612.6,intron_variant,,ENST00000609777,;AC027612.6,downstream_gene_variant,,ENST00000608501,;AC116050.1,downstream_gene_variant,,ENST00000443031,;"	"-"	"ENSG00000233991"	"ENST00000443031"	"Transcript"	"downstream_gene_variant"	"-/1804"	""	""	""	""	"rs55869480"	"1"	"2971"	1	"AC116050.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4998"	"-:0.5"	"-:0.5"	NA	"-:0.5"	"-:0.5"	"-:0.499"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTT"	"3a5818c8-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1448"	"AC027612.6"	654342	"mskcc.org"	"GRCh37"	"2"	91847507	91847508	"+"	"5'Flank"	"INS"	"-"	"-"	"GG"	"rs138679921"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000544283"	""	21	"."	4	10	"."	0	"AC027612.6,intron_variant,,ENST00000609777,;AC027612.6,intron_variant,,ENST00000608531,;AC027612.6,intron_variant,,ENST00000608501,;AC027612.6,upstream_gene_variant,,ENST00000544283,;AC027612.6,upstream_gene_variant,,ENST00000608018,;AC027612.6,intron_variant,,ENST00000271699,;AC027612.6,upstream_gene_variant,,ENST00000423774,;"	"GG"	"ENSG00000143429"	"ENST00000544283"	"Transcript"	"upstream_gene_variant"	"-/1104"	""	""	""	""	"rs138679921"	"1"	"1596"	-1	"AC027612.6"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.2887"	"G:0.4123"	"G:0.2666"	NA	"G:0.3294"	"G:0.165"	"G:0.2229"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"547b3e74-2764-11e6-ab03-0c42424a729f"	"200"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"1449"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	91856429	91856430	"+"	"IGR"	"INS"	"-"	"-"	"AAAAATAAT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"."	4	7	"."	0	""	"AAAAATAAT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"547de048-2764-11e6-ab03-0c42424a729f"	"192"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"1450"	"AC027612.3"	0	"mskcc.org"	"GRCh37"	"2"	91896230	91896231	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs377007576"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.235-1989dupA"	""	""	"ENST00000445955"	""	9	"."	3	7	"."	0	"AC027612.3,intron_variant,,ENST00000436174,;AC027612.3,intron_variant,,ENST00000445955,;"	"T"	"ENSG00000230572"	"ENST00000445955"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1199"	""	""	""	""	"rs377007576"	"1"	NA	-1	"AC027612.3"	"Clone_based_vega_gene"	NA	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"548399ac-2764-11e6-ab03-0c42424a729f"	"63"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1451"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	92241605	92241612	"+"	"IGR"	"DEL"	"TTCTTTCT"	"TTCTTTCT"	"-"	"rs200201523"	NA	"JHCCPT1"	"JHCCPN1"	"TTCTTTCT"	"TTCTTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"."	3	8	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200201523"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTCTTTCTT"	"3a628bb4-2764-11e6-ab03-0c42424a729f"	"70"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"1452"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	97148018	97148030	"+"	"IGR"	"DEL"	"AAAAAGAAAAGAA"	"AAAAAGAAAAGAA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AAAAAGAAAAGAA"	"AAAAAGAAAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	13	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAAAAGAAAAGAAA"	"3abfba78-2764-11e6-ab03-0c42424a729f"	"138"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1453"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	97148428	97148429	"+"	"IGR"	"INS"	"-"	"-"	"AAAGAAAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	3	5	"."	0	""	"AAAGAAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"54bf9f24-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"1454"	"FAM178B"	51252	"mskcc.org"	"GRCh37"	"2"	97634430	97634431	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs66589843"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.627-1067dupG"	""	""	"ENST00000490605"	""	12	"."	6	1	"."	0	"FAM178B,intron_variant,,ENST00000417561,;FAM178B,intron_variant,,ENST00000490605,;FAM178B,intron_variant,,ENST00000327896,NM_001122646.2;"	"C"	"ENSG00000168754"	"ENST00000490605"	"Transcript"	"intron_variant"	"-/2710"	"-/2040"	"-/679"	""	""	"rs66589843"	"1"	NA	-1	"FAM178B"	"HGNC"	28036	"protein_coding"	"YES"	"CCDS46366.2"	"ENSP00000429896"	"Q8IXR5"	"F8W6I6,B3KV66"	"UPI0001C53D28"	""	NA	NA	""	"4/16"	""	"-:0.3656"	"C:0.8336"	"C:0.5951"	NA	"C:0.4276"	"C:0.8996"	"C:0.3333"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"54c6c632-2764-11e6-ab03-0c42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1455"	"ANKRD36"	375248	"mskcc.org"	"GRCh37"	"2"	97817564	97817565	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs33971912"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1102-51dupT"	""	""	"ENST00000420699"	""	7	"."	3	1	"."	0	"ANKRD36,intron_variant,,ENST00000420699,NM_001164315.1;ANKRD36,intron_variant,,ENST00000461153,;"	"T"	"ENSG00000135976"	"ENST00000420699"	"Transcript"	"intron_variant"	"-/6269"	"-/5826"	"-/1941"	""	""	"rs33971912"	"1"	NA	1	"ANKRD36"	"HGNC"	24079	"protein_coding"	"YES"	"CCDS54379.1"	"ENSP00000391950"	"A6QL64"	""	"UPI0001B23BB4"	"NM_001164315.1"	NA	NA	""	"12/75"	""	"-:0.0000"	"T:1"	"T:1"	NA	"T:1"	"T:1"	"T:1"	"T:0.9967"	"T:0.9959"	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"54cb466c-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1456"	"TMEM131"	23505	"mskcc.org"	"GRCh37"	"2"	98424296	98424297	"+"	"Intron"	"INS"	"-"	"-"	"AAGTC"	"rs112909580"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2055+1854_2055+1855insGACTT"	""	""	"ENST00000186436"	""	7	"."	4	1	"."	0	"TMEM131,intron_variant,,ENST00000186436,NM_015348.1;"	"AAGTC"	"ENSG00000075568"	"ENST00000186436"	"Transcript"	"intron_variant"	"-/6640"	"-/5652"	"-/1883"	""	""	"rs112909580"	"1"	NA	-1	"TMEM131"	"HGNC"	30366	"protein_coding"	"YES"	"CCDS46368.1"	"ENSP00000186436"	"Q92545"	"C9J6W0"	"UPI00006C0498"	"NM_015348.1"	NA	NA	""	"19/40"	""	"-:0.4181"	"AAGTC:0.9017"	"AAGTC:0.5418"	NA	"AAGTC:0.2907"	"AAGTC:0.7744"	"AAGTC:0.2802"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"54d39146-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1457"	"EIF5B"	9669	"mskcc.org"	"GRCh37"	"2"	100006061	100006062	"+"	"Intron"	"INS"	"-"	"-"	"AGTA"	"rs3842563"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2272-116_2272-113dupAAGT"	""	""	"ENST00000289371"	""	11	"."	6	4	"."	0	"EIF5B,intron_variant,,ENST00000289371,NM_015904.3;EIF5B,upstream_gene_variant,,ENST00000470868,;"	"AGTA"	"ENSG00000158417"	"ENST00000289371"	"Transcript"	"intron_variant"	"-/5777"	"-/3663"	"-/1220"	""	""	"rs3842563"	"1"	NA	1	"EIF5B"	"HGNC"	30793	"protein_coding"	"YES"	"CCDS42721.1"	"ENSP00000289371"	"O60841"	"D3DVI5"	"UPI0000207EC7"	"NM_015904.3"	NA	NA	""	"14/23"	""	"-:0.4097"	"AGTA:0.7602"	"AGTA:0.7032"	NA	"AGTA:0.3671"	"AGTA:0.5696"	"AGTA:0.5317"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"551e68f6-2764-11e6-ab03-0c42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"1458"	"REV1"	51455	"mskcc.org"	"GRCh37"	"2"	100066141	100066141	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11351549"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.182-175delA"	""	""	"ENST00000258428"	""	29	"."	5	7	"."	0	"REV1,intron_variant,,ENST00000258428,NM_001037872.1,NM_016316.2;REV1,intron_variant,,ENST00000393445,;REV1,intron_variant,,ENST00000465835,;REV1,intron_variant,,ENST00000413697,;REV1,intron_variant,,ENST00000473819,;"	"-"	"ENSG00000135945"	"ENST00000258428"	"Transcript"	"intron_variant"	"-/4751"	"-/3756"	"-/1251"	""	""	"rs11351549"	"1"	NA	-1	"REV1"	"HGNC"	14060	"protein_coding"	"YES"	"CCDS2045.1"	"ENSP00000258428"	"Q9UBZ9"	""	"UPI0000073A14"	"NM_001037872.1,NM_016316.2"	NA	NA	""	"3/22"	""	"T:0.4219"	"-:0.7254"	"-:0.6988"	NA	"-:0.3621"	"-:0.5646"	"-:0.5297"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTT"	"3b95fdfe-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WXS"	FALSE
"1459"	"REV1"	51455	"mskcc.org"	"GRCh37"	"2"	100066221	100066221	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs28369964"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.182-255delC"	""	""	"ENST00000258428"	""	20	"."	3	3	"."	0	"REV1,intron_variant,,ENST00000258428,NM_001037872.1,NM_016316.2;REV1,intron_variant,,ENST00000393445,;REV1,intron_variant,,ENST00000465835,;REV1,intron_variant,,ENST00000413697,;REV1,intron_variant,,ENST00000473819,;"	"-"	"ENSG00000135945"	"ENST00000258428"	"Transcript"	"intron_variant"	"-/4751"	"-/3756"	"-/1251"	""	""	"rs28369964"	"1"	NA	-1	"REV1"	"HGNC"	14060	"protein_coding"	"YES"	"CCDS2045.1"	"ENSP00000258428"	"Q9UBZ9"	""	"UPI0000073A14"	"NM_001037872.1,NM_016316.2"	NA	NA	""	"3/22"	""	"-:0.2264"	"-:0.3011"	"-:0.3415"	NA	"-:0.0635"	"-:0.2833"	"-:0.1534"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGG"	"3b9a0ee4-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"1460"	"REV1"	51455	"mskcc.org"	"GRCh37"	"2"	100105987	100105987	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs11339312"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-11+292delG"	""	""	"ENST00000258428"	""	8	"."	5	1	"."	0	"REV1,intron_variant,,ENST00000258428,NM_001037872.1,NM_016316.2;REV1,intron_variant,,ENST00000393445,;REV1,intron_variant,,ENST00000413697,;"	"-"	"ENSG00000135945"	"ENST00000258428"	"Transcript"	"intron_variant"	"-/4751"	"-/3756"	"-/1251"	""	""	"rs11339312"	"1"	NA	-1	"REV1"	"HGNC"	14060	"protein_coding"	"YES"	"CCDS2045.1"	"ENSP00000258428"	"Q9UBZ9"	""	"UPI0000073A14"	"NM_001037872.1,NM_016316.2"	NA	NA	""	"1/22"	""	"C:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCC"	"3b9bcd42-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1461"	"AFF3"	3899	"mskcc.org"	"GRCh37"	"2"	100235355	100235356	"+"	"Intron"	"INS"	"-"	"-"	"ATTCATTC"	"rs112677518"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1260-17280_1260-17273dupGAATGAAT"	""	""	"ENST00000356421"	""	9	"."	4	4	"."	0	"AFF3,intron_variant,,ENST00000409236,;AFF3,intron_variant,,ENST00000317233,NM_002285.2;AFF3,intron_variant,,ENST00000356421,NM_001025108.1;AFF3,intron_variant,,ENST00000409579,;"	"ATTCATTC"	"ENSG00000144218"	"ENST00000356421"	"Transcript"	"intron_variant"	"-/8118"	"-/3756"	"-/1251"	""	""	"rs112677518"	"1"	NA	-1	"AFF3"	"HGNC"	6473	"protein_coding"	"YES"	"CCDS33258.1"	"ENSP00000348793"	"P51826"	""	"UPI000041098C"	"NM_001025108.1"	NA	NA	""	"12/23"	""	"ATTCATTCATTCATTC:0.0052"	"ATTCATTCATTCATTC:0.0106"	"ATTCATTCATTCATTC:0.0043"	NA	"ATTCATTCATTCATTC:0.003"	"ATTCATTCATTCATTC:0.002"	"ATTCATTCATTCATTC:0.0041"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"5537af96-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	TRUE
"1462"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	101157307	101157308	"+"	"IGR"	"INS"	"-"	"AA"	"AA"	"rs34876688"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	10	1	"."	0	""	"AA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34876688"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1218"	"AA:0.9531"	"AA:0.7997"	NA	"AA:1"	"AA:0.6819"	"AA:0.909"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"554743b6-2764-11e6-ab03-0c42424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.909090909090909	"WXS"	FALSE
"1463"	"TBC1D8"	11138	"mskcc.org"	"GRCh37"	"2"	101791237	101791238	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs35712440"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.449+13458dupG"	""	""	"ENST00000463469"	""	7	"."	4	3	"."	0	"TBC1D8,intron_variant,,ENST00000463469,;"	"C"	"ENSG00000204634"	"ENST00000463469"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/561"	""	""	""	""	"rs35712440"	"1"	NA	-1	"TBC1D8"	"HGNC"	17791	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"4/4"	""	"-:0.3137"	"C:0.7398"	"C:0.621"	NA	"C:0.5744"	"C:0.7346"	"C:0.726"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"55598c24-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1464"	"NCK2"	8440	"mskcc.org"	"GRCh37"	"2"	106380058	106380059	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs3835868"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-201+18465_-201+18466delTG"	""	""	"ENST00000233154"	""	6	"."	4	2	"."	0	"NCK2,intron_variant,,ENST00000233154,NM_003581.4;NCK2,intron_variant,,ENST00000451463,NM_001004722.3;NCK2,intron_variant,,ENST00000393348,;"	"-"	"ENSG00000071051"	"ENST00000233154"	"Transcript"	"intron_variant"	"-/2683"	"-/1143"	"-/380"	""	""	"rs3835868"	"1"	NA	1	"NCK2"	"HGNC"	7665	"protein_coding"	"YES"	"CCDS33266.1"	"ENSP00000233154"	"O43639"	"Q53TG4,Q53T91,E9PEE2,E7EPF5"	"UPI000012FE3F"	"NM_003581.4"	NA	NA	""	"1/4"	""	"-:0.3267"	"-:0.0908"	"-:0.4121"	NA	"-:0.4683"	"-:0.4135"	"-:0.3497"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"3c5d134e-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1465"	"NCK2"	8440	"mskcc.org"	"GRCh37"	"2"	106403313	106403314	"+"	"Intron"	"INS"	"-"	"-"	"GCCTTAG"	"rs5833151"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-200-29571_-200-29565dupCTTAGGC"	""	""	"ENST00000233154"	""	10	"."	5	4	"."	0	"NCK2,intron_variant,,ENST00000233154,NM_003581.4;NCK2,intron_variant,,ENST00000451463,NM_001004722.3;NCK2,intron_variant,,ENST00000393348,;"	"GCCTTAG"	"ENSG00000071051"	"ENST00000233154"	"Transcript"	"intron_variant"	"-/2683"	"-/1143"	"-/380"	""	""	"rs5833151"	"1"	NA	1	"NCK2"	"HGNC"	7665	"protein_coding"	"YES"	"CCDS33266.1"	"ENSP00000233154"	"O43639"	"Q53TG4,Q53T91,E9PEE2,E7EPF5"	"UPI000012FE3F"	"NM_003581.4"	NA	NA	""	"1/4"	""	"-:0.1795"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"55922d2c-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1466"	"C2orf40"	84417	"mskcc.org"	"GRCh37"	"2"	106681791	106681791	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"rs5833168"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000238044"	""	6	"."	3	4	"."	0	"C2orf40,intron_variant,,ENST00000409944,;C2orf40,upstream_gene_variant,,ENST00000238044,NM_032411.2;C2orf40,upstream_gene_variant,,ENST00000437659,;C2orf40,intron_variant,,ENST00000489174,;C2orf40,intron_variant,,ENST00000493478,;"	"-"	"ENSG00000119147"	"ENST00000238044"	"Transcript"	"upstream_gene_variant"	"-/789"	"-/447"	"-/148"	""	""	"rs5833168"	"1"	"321"	1	"C2orf40"	"HGNC"	24642	"protein_coding"	"YES"	"CCDS2072.1"	"ENSP00000238044"	"Q9H1Z8"	"B8ZZE5"	"UPI000004220E"	"NM_032411.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"3c622ece-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1467"	"AC114755.2"	0	"mskcc.org"	"GRCh37"	"2"	106903345	106903345	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"rs59794430"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000481111"	""	6	"."	3	1	"."	0	"AC114755.2,downstream_gene_variant,,ENST00000481111,;AC114755.2,downstream_gene_variant,,ENST00000595915,;"	"-"	"ENSG00000230353"	"ENST00000481111"	"Transcript"	"downstream_gene_variant"	"-/251"	""	""	""	""	"rs59794430"	"1"	"1914"	-1	"AC114755.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.4988"	"-:0.329"	"-:0.572"	NA	"-:0.4792"	"-:0.6034"	"-:0.6012"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"3c68bd7a-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1468"	"AC096669.2"	0	"mskcc.org"	"GRCh37"	"2"	108086665	108086666	"+"	"Intron"	"INS"	"-"	"-"	"CG"	"rs146690844"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.296-53428_296-53427dupCG"	""	""	"ENST00000414300"	""	6	"."	4	2	"."	0	"AC096669.2,intron_variant,,ENST00000414300,;"	"CG"	"ENSG00000237880"	"ENST00000414300"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/609"	""	""	""	""	"rs146690844"	"1"	NA	-1	"AC096669.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"55b6e78e-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1469"	"AC123886.2"	0	"mskcc.org"	"GRCh37"	"2"	111368503	111368503	"+"	"RNA"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.16delC"	""	""	"ENST00000458252"	"1/2"	10	"."	3	4	"."	0	"AC123886.2,non_coding_transcript_exon_variant,,ENST00000458252,;"	"-"	"ENSG00000231536"	"ENST00000458252"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"11/747"	""	""	""	""	""	"1"	NA	1	"AC123886.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	"1/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCC"	"3cca308c-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1470"	"ACOXL"	55289	"mskcc.org"	"GRCh37"	"2"	111694956	111694957	"+"	"Intron"	"INS"	"-"	"-"	"TC"	"rs3059310"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1059+3737_1059+3738insTC"	""	""	"ENST00000439055"	""	10	"."	3	2	"."	0	"ACOXL,intron_variant,,ENST00000389811,;ACOXL,intron_variant,,ENST00000439055,NM_001142807.1;ACOXL,intron_variant,,ENST00000417074,;ACOXL,intron_variant,,ENST00000433706,;"	"TC"	"ENSG00000153093"	"ENST00000439055"	"Transcript"	"intron_variant"	"-/2373"	"-/1743"	"-/580"	""	""	"rs3059310"	"1"	NA	1	"ACOXL"	"HGNC"	25621	"protein_coding"	"YES"	"CCDS46389.1"	"ENSP00000407761"	"Q9NUZ1"	"C9JQI3"	"UPI0001884BE2"	"NM_001142807.1"	NA	NA	""	"12/17"	""	"TC:0.4886"	"TC:0.3026"	"TC:0.4942"	NA	"TC:0.6171"	"TC:0.5408"	"TC:0.5501"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"55dbc342-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1471"	"ACOXL"	55289	"mskcc.org"	"GRCh37"	"2"	111700875	111700877	"+"	"Intron"	"DEL"	"AAG"	"AAG"	"-"	"rs143675307"	NA	"JHCCPT1"	"JHCCPN1"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1059+9660_1059+9662delAGA"	""	""	"ENST00000439055"	""	13	"."	5	4	"."	0	"ACOXL,intron_variant,,ENST00000389811,;ACOXL,intron_variant,,ENST00000439055,NM_001142807.1;ACOXL,intron_variant,,ENST00000417074,;ACOXL,intron_variant,,ENST00000433706,;"	"-"	"ENSG00000153093"	"ENST00000439055"	"Transcript"	"intron_variant"	"-/2373"	"-/1743"	"-/580"	""	""	"rs143675307"	"1"	NA	1	"ACOXL"	"HGNC"	25621	"protein_coding"	"YES"	"CCDS46389.1"	"ENSP00000407761"	"Q9NUZ1"	"C9JQI3"	"UPI0001884BE2"	"NM_001142807.1"	NA	NA	""	"12/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAGA"	"3cdcb806-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"1472"	"AC012442.5"	0	"mskcc.org"	"GRCh37"	"2"	113364670	113364671	"+"	"Intron"	"INS"	"-"	"-"	"GCCTGCCTGCCT"	"rs149528820"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.207-7115_207-7104dupGCCTGCCTGCCT"	""	""	"ENST00000414784"	""	12	"."	4	4	"."	0	"AC012442.5,intron_variant,,ENST00000414784,;"	"GCCTGCCTGCCT"	"ENSG00000243389"	"ENST00000414784"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/425"	""	""	""	""	"rs149528820"	"1"	NA	1	"AC012442.5"	"Clone_based_vega_gene"	NA	"3prime_overlapping_ncrna"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"GCCTGCCTGCCT:0.3071"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"55efde18-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1473"	"IL1F10"	84639	"mskcc.org"	"GRCh37"	"2"	113835287	113835287	"+"	"3'Flank"	"DEL"	"T"	"-"	"-"	"rs70937205"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000393197"	""	11	"."	10	2	"."	0	"IL1F10,downstream_gene_variant,,ENST00000393197,NM_032556.5;IL1F10,downstream_gene_variant,,ENST00000337569,;IL1F10,downstream_gene_variant,,ENST00000341010,NM_173161.2;IL1F10,downstream_gene_variant,,ENST00000496265,;"	"-"	"ENSG00000136697"	"ENST00000393197"	"Transcript"	"downstream_gene_variant"	"-/1366"	"-/459"	"-/152"	""	""	"rs70937205"	"1"	"1860"	1	"IL1F10"	"HGNC"	15552	"protein_coding"	"YES"	"CCDS2112.1"	"ENSP00000376893"	"Q8WWZ1"	""	"UPI000003C9C3"	"NM_032556.5"	NA	NA	""	""	""	"T:0.2792"	"-:0.7284"	"-:0.7089"	NA	"-:0.6806"	"-:0.6839"	"-:0.7986"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTT"	"3d37f914-2764-11e6-ab03-0c42424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.909090909090909	"WXS"	FALSE
"1474"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	114048947	114048948	"+"	"IGR"	"INS"	"-"	"GGAGCTGTCAGGTTTCCAGCCCG"	"GGAGCTGTCAGGTTTCCAGCCCG"	"rs150541494"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	2	"."	0	""	"GGAGCTGTCAGGTTTCCAGCCCG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150541494"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0683"	"GGAGCTGTCAGGTTTCCAGCCCG:0.9175"	"GGAGCTGTCAGGTTTCCAGCCCG:0.9078"	NA	"GGAGCTGTCAGGTTTCCAGCCCG:0.9425"	"GGAGCTGTCAGGTTTCCAGCCCG:0.9443"	"GGAGCTGTCAGGTTTCCAGCCCG:0.9438"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"56300fd8-2764-11e6-ab03-0c42424a729f"	"248"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1475"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	116766618	116766619	"+"	"IGR"	"INS"	"-"	"-"	"ATCT"	"rs141578884"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	5	"."	0	""	"ATCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141578884"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"5645eb32-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1476"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	117815214	117815217	"+"	"IGR"	"DEL"	"TCTC"	"TCTC"	"-"	"rs141953480"	NA	"JHCCPT1"	"JHCCPN1"	"TCTC"	"TCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141953480"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCTCT"	"3d812116-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"1477"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	118315524	118315525	"+"	"IGR"	"INS"	"-"	"GAA"	"GAA"	"rs150137426"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	7	1	"."	0	""	"GAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150137426"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4385"	"GAA:0.3336"	"GAA:0.611"	NA	"GAA:0.5724"	"GAA:0.8052"	"GAA:0.5726"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"564b0c16-2764-11e6-ab03-0c42424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.875	"WXS"	FALSE
"1478"	"BIN1"	274	"mskcc.org"	"GRCh37"	"2"	127849543	127849543	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs76820004"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.84+14893delA"	""	""	"ENST00000316724"	""	12	"."	6	2	"."	0	"BIN1,intron_variant,,ENST00000316724,NM_139343.2;BIN1,intron_variant,,ENST00000357970,NM_139344.2;BIN1,intron_variant,,ENST00000346226,NM_139347.2;BIN1,intron_variant,,ENST00000351659,NM_139345.2;BIN1,intron_variant,,ENST00000259238,NM_139346.2;BIN1,intron_variant,,ENST00000393040,NM_139348.2;BIN1,intron_variant,,ENST00000393041,NM_139349.2;BIN1,intron_variant,,ENST00000352848,NM_004305.3;BIN1,intron_variant,,ENST00000409400,NM_139350.2;BIN1,intron_variant,,ENST00000348750,NM_139351.2;BIN1,intron_variant,,ENST00000376113,;"	"-"	"ENSG00000136717"	"ENST00000316724"	"Transcript"	"intron_variant"	"-/2693"	"-/1782"	"-/593"	""	""	"rs76820004"	"1"	NA	-1	"BIN1"	"HGNC"	1052	"protein_coding"	"YES"	"CCDS2138.1"	"ENSP00000316779"	"O00499"	""	"UPI0000001303"	"NM_139343.2"	NA	NA	""	"1/18"	""	"-:0.0927"	"-:0.0098"	"-:0.1527"	NA	"-:0.1081"	"-:0.1859"	"-:0.0501"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CATG"	"3e56a1b0-2764-11e6-ab03-0c42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1479"	"RNA5SP103"	0	"mskcc.org"	"GRCh37"	"2"	129198547	129198548	"+"	"3'Flank"	"INS"	"-"	"-"	"CC"	"rs554483286"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000459503"	""	10	"."	4	5	"."	0	"RNA5SP103,downstream_gene_variant,,ENST00000459503,;"	"CC"	"ENSG00000238379"	"ENST00000459503"	"Transcript"	"downstream_gene_variant"	"-/118"	""	""	""	""	"rs554483286"	"1"	"4107"	-1	"RNA5SP103"	"HGNC"	42901	"rRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.0092"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"570f9cac-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1480"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	129559906	129559926	"+"	"IGR"	"DEL"	"TTCCTCCCTCCTTCCTTTTCC"	"TTCCTCCCTCCTTCCTTTTCC"	"-"	"rs138856857"	NA	"JHCCPT1"	"JHCCPN1"	"TTCCTCCCTCCTTCCTTTTCC"	"TTCCTCCCTCCTTCCTTTTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	5	11	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138856857"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTCCTCCCTCCTTCCTTTTCCT"	"3ea36f90-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"1481"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	129793053	129793054	"+"	"IGR"	"DEL"	"AG"	"AG"	"-"	"rs147196609"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147196609"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AG:0.3099"	"-:0.68"	"-:0.7363"	NA	"-:0.6042"	"-:0.7962"	"-:0.6503"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"3ea6af5c-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"1482"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	130518962	130518971	"+"	"IGR"	"DEL"	"AAAAGAAAAG"	"AAAAGAAAAG"	"-"	"rs140872725"	NA	"JHCCPT1"	"JHCCPN1"	"AAAAGAAAAG"	"AAAAGAAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140872725"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AAAAGAAAAG:0.0238"	"-:0.9175"	"-:0.9899"	NA	"-:1"	"-:0.998"	"-:0.999"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAGAAAAGA"	"3eadf136-2764-11e6-ab03-0c42424a729f"	"215"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1483"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	132766712	132766713	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs70997935"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	4	5	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs70997935"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4643"	"A:0.6369"	"A:0.3703"	NA	"A:0.4425"	"A:0.336"	"A:0.4519"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"5757fe66-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1484"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	134569046	134569046	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs139624800"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	9	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139624800"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4994"	"-:0.5492"	"-:0.6037"	NA	"-:0.3879"	"-:0.5696"	"-:0.4008"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"3f000fe8-2764-11e6-ab03-0c42424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.692307692307692	"WXS"	FALSE
"1485"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	138981600	138981619	"+"	"IGR"	"DEL"	"CTTCCTTCCTTCCTTCCTTC"	"CTTCCTTCCTTCCTTCCTTC"	"-"	"rs373899005"	NA	"JHCCPT1"	"JHCCPN1"	"CTTCCTTCCTTCCTTCCTTC"	"CTTCCTTCCTTCCTTCCTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs373899005"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTTCCTTCCTTCCTTCCTTCC"	"3f728bfe-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1486"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	140020802	140020803	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs201469780"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201469780"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"57b287aa-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1487"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	140663688	140663689	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs35302618"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35302618"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.1841"	"A:0.0847"	"A:0.1974"	NA	"A:0.1369"	"A:0.3131"	"A:0.2249"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"57b42ef2-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1488"	"LRP1B"	53353	"mskcc.org"	"GRCh37"	"2"	141055886	141055887	"+"	"Intron"	"INS"	"-"	"AT"	"AT"	"rs34767625"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.12806-350_12806-349dupAT"	""	""	"ENST00000389484"	""	8	"."	6	2	"."	0	"LRP1B,intron_variant,,ENST00000389484,NM_018557.2;LRP1B,intron_variant,,ENST00000437977,;LRP1B,upstream_gene_variant,,ENST00000442974,;"	"AT"	"ENSG00000168702"	"ENST00000389484"	"Transcript"	"intron_variant"	"-/16535"	"-/13800"	"-/4599"	""	""	"rs34767625"	"1"	NA	-1	"LRP1B"	"HGNC"	6693	"protein_coding"	"YES"	"CCDS2182.1"	"ENSP00000374135"	"Q9NZR2"	"Q8WY27,Q8WY26,Q580W7,Q53TB8,Q53S76,Q53S73,Q53S26,Q53RL0,Q53RG4,Q53RA0,Q53QP5,Q53QM8,Q4ZG53,Q4ZFV5"	"UPI00001B045B"	"NM_018557.2"	NA	NA	""	"83/90"	""	"-:0.0361"	"AT:0.8707"	"AT:0.9899"	NA	"AT:1"	"AT:0.999"	"AT:0.998"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"57bbac4a-2764-11e6-ab03-0c42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"1489"	"LRP1B"	53353	"mskcc.org"	"GRCh37"	"2"	141707453	141707540	"+"	"Intron"	"DEL"	"AGCCGAGATGGCGCCACTGCACTCCAGCCTGGGTGACAGAGTGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAA"	"AGCCGAGATGGCGCCACTGCACTCCAGCCTGGGTGACAGAGTGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AGCCGAGATGGCGCCACTGCACTCCAGCCTGGGTGACAGAGTGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAA"	"AGCCGAGATGGCGCCACTGCACTCCAGCCTGGGTGACAGAGTGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3136+264_3136+351delTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCACTCTGTCACCCAGGCTGGAGTGCAGTGGCGCCATCTCGGCT"	""	""	"ENST00000389484"	""	12	"."	7	2	"."	0	"LRP1B,intron_variant,,ENST00000389484,NM_018557.2;LRP1B,intron_variant,,ENST00000434794,;"	"-"	"ENSG00000168702"	"ENST00000389484"	"Transcript"	"intron_variant"	"-/16535"	"-/13800"	"-/4599"	""	""	""	"1"	NA	-1	"LRP1B"	"HGNC"	6693	"protein_coding"	"YES"	"CCDS2182.1"	"ENSP00000374135"	"Q9NZR2"	"Q8WY27,Q8WY26,Q580W7,Q53TB8,Q53S76,Q53S73,Q53S26,Q53RL0,Q53RG4,Q53RA0,Q53QP5,Q53QM8,Q4ZG53,Q4ZFV5"	"UPI00001B045B"	"NM_018557.2"	NA	NA	""	"20/90"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAGCCGAGATGGCGCCACTGCACTCCAGCCTGGGTGACAGAGTGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAA"	"3fb4520a-2764-11e6-ab03-0c42424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"1490"	"ARHGAP15"	55843	"mskcc.org"	"GRCh37"	"2"	144049021	144049022	"+"	"Intron"	"INS"	"-"	"TTC"	"TTC"	"rs1611002"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.474+40854_474+40856dupTCT"	""	""	"ENST00000295095"	""	8	"."	6	1	"."	0	"ARHGAP15,intron_variant,,ENST00000295095,NM_018460.3;RP11-570L15.2,downstream_gene_variant,,ENST00000546678,;AC096558.1,downstream_gene_variant,,ENST00000549032,;ARHGAP15,intron_variant,,ENST00000460776,;ARHGAP15,intron_variant,,ENST00000469117,;ARHGAP15,intron_variant,,ENST00000474474,;ARHGAP15,intron_variant,,ENST00000552641,;"	"TTC"	"ENSG00000075884"	"ENST00000295095"	"Transcript"	"intron_variant"	"-/1775"	"-/1428"	"-/475"	""	""	"rs1611002"	"1"	NA	1	"ARHGAP15"	"HGNC"	21030	"protein_coding"	"YES"	"CCDS2184.1"	"ENSP00000295095"	"Q53QZ3"	""	"UPI0000035D98"	"NM_018460.3"	NA	NA	""	"6/13"	""	"-:0.2961"	"TTC:0.8676"	"TTC:0.5562"	NA	"TTC:0.6339"	"TTC:0.7575"	"TTC:0.6043"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"57dad598-2764-11e6-ab03-0c42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"1491"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	149591501	149591502	"+"	"IGR"	"INS"	"-"	"-"	"TCTTTCTTTCTTTCTT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	6	"."	0	""	"TCTTTCTTTCTTTCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"581650d2-2764-11e6-ab03-0c42424a729f"	"163"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1492"	"LYPD6B"	130576	"mskcc.org"	"GRCh37"	"2"	150069827	150069862	"+"	"Intron"	"DEL"	"AGACTCCATACAAAGATAAAATGGAGACCAAAGAAC"	"AGACTCCATACAAAGATAAAATGGAGACCAAAGAAC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AGACTCCATACAAAGATAAAATGGAGACCAAAGAAC"	"AGACTCCATACAAAGATAAAATGGAGACCAAAGAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.459+230_459+265delCTCCATACAAAGATAAAATGGAGACCAAAGAACAGA"	""	""	"ENST00000409642"	""	38	"."	8	12	"."	0	"LYPD6B,intron_variant,,ENST00000409642,NM_177964.3;LYPD6B,intron_variant,,ENST00000409029,;LYPD6B,intron_variant,,ENST00000409876,;LYPD6B,intron_variant,,ENST00000280115,;LYPD6B,intron_variant,,ENST00000498249,;LYPD6B,downstream_gene_variant,,ENST00000442722,;"	"-"	"ENSG00000150556"	"ENST00000409642"	"Transcript"	"intron_variant"	"-/1577"	"-/624"	"-/207"	""	""	""	"1"	NA	1	"LYPD6B"	"HGNC"	27018	"protein_coding"	"YES"	"CCDS46423.1"	"ENSP00000387077"	"Q8NI32"	""	"UPI00001BDB14"	"NM_177964.3"	NA	NA	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"39"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGACTCCATACAAAGATAAAATGGAGACCAAAGAACA"	"40204848-2764-11e6-ab03-0c42424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"1493"	"MMADHC"	27249	"mskcc.org"	"GRCh37"	"2"	150431892	150431903	"+"	"Intron"	"DEL"	"GGGGAGATGAAG"	"GGGGAGATGAAG"	"-"	"rs66640457"	NA	"JHCCPT1"	"JHCCPN1"	"GGGGAGATGAAG"	"GGGGAGATGAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.609+322_609+333delCTTCATCTCCCC"	""	""	"ENST00000428879"	""	17	"."	4	7	"."	0	"MMADHC,intron_variant,,ENST00000428879,;MMADHC,intron_variant,,ENST00000422782,;MMADHC,intron_variant,,ENST00000303319,NM_015702.2;"	"-"	"ENSG00000168288"	"ENST00000428879"	"Transcript"	"intron_variant"	"-/1726"	"-/891"	"-/296"	""	""	"rs66640457"	"1"	NA	-1	"MMADHC"	"HGNC"	25221	"protein_coding"	"YES"	"CCDS2189.1"	"ENSP00000389060"	"Q9H3L0"	""	"UPI0000073FE2"	""	NA	NA	""	"5/6"	""	"GGGGAGATGAAG:0.3758"	"-:0.2209"	"-:0.6599"	NA	"-:0.8651"	"-:0.7614"	"-:0.7546"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATGGGGAGATGAAGG"	"40276c4a-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"1494"	"RIF1"	55183	"mskcc.org"	"GRCh37"	"2"	152264373	152264374	"+"	"5'Flank"	"INS"	"-"	"-"	"GGCAATAAAAAGACCACATACAGCCC"	"rs143117885"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000243326"	""	6	"."	3	3	"."	0	"RIF1,upstream_gene_variant,,ENST00000243326,;RIF1,upstream_gene_variant,,ENST00000453091,NM_001177663.1;RIF1,upstream_gene_variant,,ENST00000430328,NM_001177665.1;RIF1,upstream_gene_variant,,ENST00000444746,NM_018151.4;RIF1,upstream_gene_variant,,ENST00000428287,NM_001177664.1;RIF1,upstream_gene_variant,,ENST00000414861,;RIF1,upstream_gene_variant,,ENST00000433166,;RIF1,upstream_gene_variant,,ENST00000420714,;RIF1,upstream_gene_variant,,ENST00000494333,;"	"GGCAATAAAAAGACCACATACAGCCC"	"ENSG00000080345"	"ENST00000243326"	"Transcript"	"upstream_gene_variant"	"-/15003"	"-/7419"	"-/2472"	""	""	"rs143117885"	"1"	"2081"	1	"RIF1"	"HGNC"	23207	"protein_coding"	"YES"	"CCDS2194.1"	"ENSP00000243326"	"Q5UIP0"	"C9J1D6,B4DRJ4"	"UPI000023729F"	""	NA	NA	""	""	""	"GGCAATAAAAAGACCACATACAGCCC:0.4359"	"GGCAATAAAAAGACCACATACAGCCC:0.4123"	"GGCAATAAAAAGACCACATACAGCCC:0.4467"	NA	"GGCAATAAAAAGACCACATACAGCCC:0.4871"	"GGCAATAAAAAGACCACATACAGCCC:0.4046"	"GGCAATAAAAAGACCACATACAGCCC:0.4397"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"582a0438-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1495"	"RIF1"	55183	"mskcc.org"	"GRCh37"	"2"	152288293	152288294	"+"	"Intron"	"INS"	"-"	"-"	"TGAATGAA"	"rs150479945"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.926-1269_926-1262dupTGAATGAA"	""	""	"ENST00000243326"	""	8	"."	4	5	"."	0	"RIF1,intron_variant,,ENST00000243326,;RIF1,intron_variant,,ENST00000453091,NM_001177663.1;RIF1,intron_variant,,ENST00000430328,NM_001177665.1;RIF1,intron_variant,,ENST00000444746,NM_018151.4;RIF1,intron_variant,,ENST00000428287,NM_001177664.1;RIF1,intron_variant,,ENST00000414861,;RIF1,intron_variant,,ENST00000433166,;"	"TGAATGAA"	"ENSG00000080345"	"ENST00000243326"	"Transcript"	"intron_variant"	"-/15003"	"-/7419"	"-/2472"	""	""	"rs150479945"	"1"	NA	1	"RIF1"	"HGNC"	23207	"protein_coding"	"YES"	"CCDS2194.1"	"ENSP00000243326"	"Q5UIP0"	"C9J1D6,B4DRJ4"	"UPI000023729F"	""	NA	NA	""	"8/34"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"36"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"582fd7dc-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1496"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	153779734	153779735	"+"	"IGR"	"INS"	"-"	"-"	"TCCCTCCCTCCCTCCCTCCC"	"rs371729067"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	3	7	"."	0	""	"TCCCTCCCTCCCTCCCTCCC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs371729067"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"58916876-2764-11e6-ab03-0c42424a729f"	"117"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"1497"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	156447291	156447291	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs58151954"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs58151954"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2648"	"-:0.1483"	"-:0.2104"	NA	"-:0.5794"	"-:0.1819"	"-:0.2219"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAG"	"40b8110a-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1498"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	157042105	157042106	"+"	"IGR"	"INS"	"-"	"-"	"TCTCTCTC"	"rs61542330"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	5	3	"."	0	""	"TCTCTCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs61542330"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TCTCTC:0.3298"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"589cf420-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"1499"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	157043553	157043554	"+"	"IGR"	"INS"	"-"	"-"	"AGAGAGAG"	"rs5835606"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	3	"."	0	""	"AGAGAGAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5835606"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"589e0a22-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1500"	"PKP4"	8502	"mskcc.org"	"GRCh37"	"2"	159507954	159507955	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs3836169"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1910-6689_1910-6688insA"	""	""	"ENST00000389759"	""	13	"."	7	3	"."	0	"PKP4,intron_variant,,ENST00000389757,NM_001005476.1;PKP4,intron_variant,,ENST00000389759,NM_003628.3;PKP4,intron_variant,,ENST00000426248,;PKP4,intron_variant,,ENST00000421462,;PKP4,intron_variant,,ENST00000452162,;PKP4,intron_variant,,ENST00000492496,;"	"A"	"ENSG00000144283"	"ENST00000389759"	"Transcript"	"intron_variant"	"-/4443"	"-/3579"	"-/1192"	""	""	"rs3836169"	"1"	NA	1	"PKP4"	"HGNC"	9026	"protein_coding"	"YES"	"CCDS33305.1"	"ENSP00000374409"	"Q99569"	"Q53TM5"	"UPI000044D379"	"NM_003628.3"	NA	NA	""	"11/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"58c195e6-2764-11e6-ab03-0c42424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.538461538461538	"WXS"	FALSE
"1501"	"PKP4"	8502	"mskcc.org"	"GRCh37"	"2"	159523552	159523552	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35006491"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2728+477delT"	""	""	"ENST00000389759"	""	8	"."	3	2	"."	0	"PKP4,intron_variant,,ENST00000389757,NM_001005476.1;PKP4,intron_variant,,ENST00000389759,NM_003628.3;AC005042.4,intron_variant,,ENST00000342892,;PKP4,intron_variant,,ENST00000495123,;PKP4,intron_variant,,ENST00000426248,;PKP4,intron_variant,,ENST00000480171,;PKP4,downstream_gene_variant,,ENST00000421462,;PKP4,downstream_gene_variant,,ENST00000452162,;PKP4,upstream_gene_variant,,ENST00000486254,;PKP4,downstream_gene_variant,,ENST00000483881,;"	"-"	"ENSG00000144283"	"ENST00000389759"	"Transcript"	"intron_variant"	"-/4443"	"-/3579"	"-/1192"	""	""	"rs35006491"	"1"	NA	1	"PKP4"	"HGNC"	9026	"protein_coding"	"YES"	"CCDS33305.1"	"ENSP00000374409"	"Q99569"	"Q53TM5"	"UPI000044D379"	"NM_003628.3"	NA	NA	""	"16/21"	""	"T:0.4960"	"-:0.208"	"-:0.6513"	NA	"-:0.6091"	"-:0.4881"	"-:0.7076"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTG"	"40f1b6ee-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1502"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	159748683	159748683	"+"	"IGR"	"DEL"	"C"	"-"	"-"	"rs35893870"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35893870"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2602"	"-:0.3812"	"-:0.2695"	NA	"-:0.0575"	"-:0.331"	"-:0.226"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"40f7471c-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1503"	"BAZ2B"	29994	"mskcc.org"	"GRCh37"	"2"	160181137	160181148	"+"	"Intron"	"DEL"	"ACACACACACAC"	"ACACACACACAC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ACACACACACAC"	"ACACACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6353+174_6353+185delGTGTGTGTGTGT"	""	""	"ENST00000392783"	""	8	"."	3	5	"."	0	"BAZ2B,intron_variant,,ENST00000392783,NM_013450.2;BAZ2B,intron_variant,,ENST00000392782,;BAZ2B,intron_variant,,ENST00000355831,;BAZ2B,intron_variant,,ENST00000343439,;BAZ2B,downstream_gene_variant,,ENST00000474437,;BAZ2B,intron_variant,,ENST00000548440,;"	"-"	"ENSG00000123636"	"ENST00000392783"	"Transcript"	"intron_variant"	"-/8289"	"-/6507"	"-/2168"	""	""	""	"1"	NA	-1	"BAZ2B"	"HGNC"	963	"protein_coding"	"YES"	"CCDS2209.2"	"ENSP00000376534"	"Q9UIF8"	"Q8NC87,Q53TG3,C9JCA6"	"UPI0000D74C4A"	"NM_013450.2"	NA	NA	""	"36/36"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATACACACACACACA"	"411895ca-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1504"	"AC013463.2"	0	"mskcc.org"	"GRCh37"	"2"	165918096	165918097	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs771255251"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.300-16033_300-16032insAA"	""	""	"ENST00000431341"	""	9	"."	4	5	"."	0	"AC013463.2,intron_variant,,ENST00000431341,;"	"AA"	"ENSG00000236283"	"ENST00000431341"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/635"	""	""	""	""	"rs771255251"	"1"	NA	1	"AC013463.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"5924df16-2764-11e6-ab03-0c42424a729f"	"239"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1505"	"DHRS9"	10170	"mskcc.org"	"GRCh37"	"2"	169951498	169951505	"+"	"Intron"	"DEL"	"TATACAAG"	"TATACAAG"	"-"	"rs145333083"	NA	"JHCCPT1"	"JHCCPN1"	"TATACAAG"	"TATACAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.737-547_737-540delATACAAGT"	""	""	"ENST00000327239"	""	12	"."	5	3	"."	0	"DHRS9,intron_variant,,ENST00000327239,NM_005771.4;DHRS9,intron_variant,,ENST00000602501,;DHRS9,intron_variant,,ENST00000357546,NM_199204.1;DHRS9,intron_variant,,ENST00000436483,NM_001142270.1;DHRS9,intron_variant,,ENST00000428522,;DHRS9,intron_variant,,ENST00000412271,NM_001142271.1;DHRS9,intron_variant,,ENST00000432060,;DHRS9,intron_variant,,ENST00000421653,;"	"-"	"ENSG00000073737"	"ENST00000327239"	"Transcript"	"intron_variant"	"-/2864"	"-/960"	"-/319"	""	""	"rs145333083"	"1"	NA	1	"DHRS9"	"HGNC"	16888	"protein_coding"	"YES"	"CCDS2231.1"	"ENSP00000316670"	"Q9BPW9"	"Q53TL1,Q4ZG83,C9J430"	"UPI00000389D3"	"NM_005771.4"	NA	NA	""	"7/7"	""	"-:0.1332"	"-:0.056"	"-:0.1297"	NA	"-:0.1488"	"-:0.1928"	"-:0.1626"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTATACAAGT"	"42160138-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"1506"	"LRP2"	4036	"mskcc.org"	"GRCh37"	"2"	170194959	170194960	"+"	"Intron"	"INS"	"-"	"-"	"AAGG"	"rs146499920"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.80-17569_80-17566dupCCTT"	""	""	"ENST00000263816"	""	16	"."	3	9	"."	0	"LRP2,intron_variant,,ENST00000263816,NM_004525.2;LRP2,intron_variant,,ENST00000443831,;"	"AAGG"	"ENSG00000081479"	"ENST00000263816"	"Transcript"	"intron_variant"	"-/15808"	"-/13968"	"-/4655"	""	""	"rs146499920"	"1"	NA	-1	"LRP2"	"HGNC"	6694	"protein_coding"	"YES"	"CCDS2232.1"	"ENSP00000263816"	"P98164"	"Q9NP34,Q53TL0,Q4ZG84"	"UPI0000141BA5"	"NM_004525.2"	NA	NA	""	"1/78"	""	"AAGG:0.0355"	"AAGG:0.0061"	"AAGG:0.0562"	NA	"AAGG:0.001"	"AAGG:0.0905"	"AAGG:0.0399"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAA"	"59849a28-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"1507"	"CCDC173"	129881	"mskcc.org"	"GRCh37"	"2"	170507245	170507254	"+"	"Intron"	"DEL"	"TGTGTGTGTG"	"TGTGTGTGTG"	"-"	"rs141624354"	NA	"JHCCPT1"	"JHCCPN1"	"TGTGTGTGTG"	"TGTGTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.960-223_960-214delCACACACACA"	""	""	"ENST00000447353"	""	29	"."	8	12	"."	0	"CCDC173,intron_variant,,ENST00000447353,NM_001085447.1;"	"-"	"ENSG00000154479"	"ENST00000447353"	"Transcript"	"intron_variant"	"-/2181"	"-/1659"	"-/552"	""	""	"rs141624354"	"1"	NA	-1	"CCDC173"	"HGNC"	25064	"protein_coding"	"YES"	"CCDS46445.1"	"ENSP00000391504"	"Q0VFZ6"	"C9J9F8,B4DX81"	"UPI0000160169"	"NM_001085447.1"	NA	NA	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGTGTGTGTGT"	"423ea9ee-2764-11e6-ab03-0c42424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275862068965517	"WXS"	FALSE
"1508"	"MYO3B"	140469	"mskcc.org"	"GRCh37"	"2"	171239297	171239297	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs5836272"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1069-278delT"	""	""	"ENST00000408978"	""	14	"."	5	2	"."	0	"MYO3B,intron_variant,,ENST00000334231,;MYO3B,intron_variant,,ENST00000408978,NM_138995.4;MYO3B,intron_variant,,ENST00000409044,NM_001083615.3;MYO3B,intron_variant,,ENST00000484338,;MYO3B,downstream_gene_variant,,ENST00000442690,;MYO3B,intron_variant,,ENST00000602629,;MYO3B,intron_variant,,ENST00000438642,;MYO3B,intron_variant,,ENST00000317935,;MYO3B,intron_variant,,ENST00000409940,;"	"-"	"ENSG00000071909"	"ENST00000408978"	"Transcript"	"intron_variant"	"-/5529"	"-/4026"	"-/1341"	""	""	"rs5836272"	"1"	NA	1	"MYO3B"	"HGNC"	15576	"protein_coding"	"YES"	"CCDS42773.1"	"ENSP00000386213"	"Q8WXR4"	""	"UPI000020907B"	"NM_138995.4"	NA	NA	""	"10/34"	""	"T:0.4603"	"-:0.3797"	"-:0.6369"	NA	"-:0.623"	"-:0.5398"	"-:0.6012"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTT"	"426803f2-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"1509"	"MYO3B"	140469	"mskcc.org"	"GRCh37"	"2"	171263198	171263199	"+"	"Intron"	"INS"	"-"	"TCTT"	"TCTT"	"rs58570436"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2521-1026_2521-1023dupTCTT"	""	""	"ENST00000408978"	""	7	"."	5	1	"."	0	"MYO3B,intron_variant,,ENST00000334231,;MYO3B,intron_variant,,ENST00000408978,NM_138995.4;MYO3B,intron_variant,,ENST00000409044,NM_001083615.3;MYO3B,intron_variant,,ENST00000484338,;MYO3B,intron_variant,,ENST00000602629,;MYO3B,intron_variant,,ENST00000438642,;MYO3B,upstream_gene_variant,,ENST00000469359,;MYO3B,intron_variant,,ENST00000317935,;MYO3B,intron_variant,,ENST00000409940,;"	"TCTT"	"ENSG00000071909"	"ENST00000408978"	"Transcript"	"intron_variant"	"-/5529"	"-/4026"	"-/1341"	""	""	"rs58570436"	"1"	NA	1	"MYO3B"	"HGNC"	15576	"protein_coding"	"YES"	"CCDS42773.1"	"ENSP00000386213"	"Q8WXR4"	""	"UPI000020907B"	"NM_138995.4"	NA	NA	""	"21/34"	""	"-:0.0875"	"TCTT:0.8079"	"TCTT:0.9784"	NA	"TCTT:0.9732"	"TCTT:0.9563"	"TCTT:0.8998"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"59b82f3c-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1510"	"MYO3B"	140469	"mskcc.org"	"GRCh37"	"2"	171364259	171364259	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs35494635"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3370+5888delG"	""	""	"ENST00000408978"	""	8	"."	4	3	"."	0	"MYO3B,intron_variant,,ENST00000334231,;MYO3B,intron_variant,,ENST00000408978,NM_138995.4;MYO3B,intron_variant,,ENST00000409044,NM_001083615.3;MYO3B,intron_variant,,ENST00000602629,;MYO3B,intron_variant,,ENST00000438642,;MYO3B,intron_variant,,ENST00000317935,;MYO3B,intron_variant,,ENST00000409940,;"	"-"	"ENSG00000071909"	"ENST00000408978"	"Transcript"	"intron_variant"	"-/5529"	"-/4026"	"-/1341"	""	""	"rs35494635"	"1"	NA	1	"MYO3B"	"HGNC"	15576	"protein_coding"	"YES"	"CCDS42773.1"	"ENSP00000386213"	"Q8WXR4"	""	"UPI000020907B"	"NM_138995.4"	NA	NA	""	"28/34"	""	"-:0.3121"	"-:0.4856"	"-:0.1628"	NA	"-:0.2966"	"-:0.1958"	"-:0.319"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGG"	"427319c2-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1511"	"TLK1"	9874	"mskcc.org"	"GRCh37"	"2"	171854592	171854603	"+"	"Intron"	"DEL"	"CTATCTATCTAC"	"CTATCTATCTAC"	"-"	"rs200834128"	NA	"JHCCPT1"	"JHCCPN1"	"CTATCTATCTAC"	"CTATCTATCTAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1905-270_1905-259delGTAGATAGATAG"	""	""	"ENST00000431350"	""	12	"."	3	4	"."	0	"TLK1,intron_variant,,ENST00000442919,NM_012290.4;TLK1,intron_variant,,ENST00000360843,;TLK1,intron_variant,,ENST00000431350,;TLK1,intron_variant,,ENST00000521943,NM_001136554.1;TLK1,intron_variant,,ENST00000434911,NM_001136555.1;TLK1,intron_variant,,ENST00000359766,;TLK1,intron_variant,,ENST00000409443,;"	"-"	"ENSG00000198586"	"ENST00000431350"	"Transcript"	"intron_variant"	"-/5663"	"-/2301"	"-/766"	""	""	"rs200834128"	"1"	NA	-1	"TLK1"	"HGNC"	11841	"protein_coding"	"YES"	"CCDS2241.1"	"ENSP00000411099"	"Q9UKI8"	"Q53TF9,Q53TE4"	"UPI0000073255"	""	NA	NA	""	"18/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCTATCTATCTACC"	"428dca1a-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1512"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	172355125	172355126	"+"	"IGR"	"INS"	"-"	"-"	"GTTGTTGTT"	"rs145983571"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"GTTGTTGTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145983571"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0803"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"59d2af2e-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1513"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	172995415	172995416	"+"	"IGR"	"INS"	"-"	"-"	"TCTTCTTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	4	6	"."	0	""	"TCTTCTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"59e1f2ea-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1514"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	173204945	173204948	"+"	"IGR"	"DEL"	"AAAC"	"AAAC"	"-"	"rs146812343"	NA	"JHCCPT1"	"JHCCPN1"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	7	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs146812343"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AAAC:0.1881"	"-:0.73"	"-:0.8285"	NA	"-:0.8958"	"-:0.8191"	"-:0.817"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAACA"	"42a79bca-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1515"	"CHN1"	1123	"mskcc.org"	"GRCh37"	"2"	175689342	175689343	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs149952097"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.628-98_628-97dupTA"	""	""	"ENST00000409900"	""	59	"."	4	20	"."	0	"CHN1,intron_variant,,ENST00000409900,NM_001822.5;CHN1,intron_variant,,ENST00000295497,NM_001206602.1;CHN1,intron_variant,,ENST00000409156,NM_001025201.3;CHN1,intron_variant,,ENST00000409597,;CHN1,intron_variant,,ENST00000444394,;CHN1,intron_variant,,ENST00000409089,;CHN1,intron_variant,,ENST00000413882,;CHN1,intron_variant,,ENST00000443238,;CHN1,intron_variant,,ENST00000444573,;CHN1,intron_variant,,ENST00000488080,;CHN1,intron_variant,,ENST00000425395,;CHN1,intron_variant,,ENST00000485882,;"	"TA"	"ENSG00000128656"	"ENST00000409900"	"Transcript"	"intron_variant"	"-/2447"	"-/1380"	"-/459"	""	""	"rs149952097"	"1"	NA	-1	"CHN1"	"HGNC"	1943	"protein_coding"	"YES"	"CCDS46455.1"	"ENSP00000386741"	"P15882"	"C9J3G1"	"UPI000012781D"	"NM_001822.5"	NA	NA	""	"7/12"	""	"TATA:0.3173"	"TATA:0.1157"	"TATA:0.6412"	NA	"TATA:0.3006"	"TATA:0.4553"	"TATA:0.2352"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"5a0e412e-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0677966101694915	"WXS"	TRUE
"1516"	"LINC01116"	375295	"mskcc.org"	"GRCh37"	"2"	177494186	177494189	"+"	"3'Flank"	"DEL"	"CCTC"	"CCTC"	"-"	"rs139641164"	NA	"JHCCPT1"	"JHCCPN1"	"CCTC"	"CCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000295549"	""	8	"."	4	1	"."	0	"LINC01116,downstream_gene_variant,,ENST00000295549,;LINC01116,downstream_gene_variant,,ENST00000339037,;"	"-"	"ENSG00000163364"	"ENST00000295549"	"Transcript"	"downstream_gene_variant"	"-/1407"	""	""	""	""	"rs139641164"	"1"	"128"	-1	"LINC01116"	"HGNC"	49259	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"CCTC:0.0567"	"-:0.885"	"-:0.9841"	NA	"-:0.9931"	"-:0.9911"	"-:0.8926"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCCTCC"	"4336fe00-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1517"	"PDE11A"	50940	"mskcc.org"	"GRCh37"	"2"	178681190	178681192	"+"	"Intron"	"DEL"	"CTC"	"CTC"	"-"	"rs10564225"	NA	"JHCCPT1"	"JHCCPN1"	"CTC"	"CTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1737+364_1737+366delGAG"	""	""	"ENST00000286063"	""	7	"."	3	3	"."	0	"PDE11A,intron_variant,,ENST00000286063,NM_016953.3;PDE11A,intron_variant,,ENST00000358450,NM_001077197.1;PDE11A,intron_variant,,ENST00000409504,;PDE11A,intron_variant,,ENST00000449286,NM_001077358.1;PDE11A,intron_variant,,ENST00000389683,NM_001077196.1;PDE11A,intron_variant,,ENST00000433879,;PDE11A,intron_variant,,ENST00000497003,;PDE11A,intron_variant,,ENST00000492761,;"	"-"	"ENSG00000128655"	"ENST00000286063"	"Transcript"	"intron_variant"	"-/9275"	"-/2802"	"-/933"	""	""	"rs10564225"	"1"	NA	-1	"PDE11A"	"HGNC"	8773	"protein_coding"	"YES"	"CCDS33334.1"	"ENSP00000286063"	"Q9HCR9"	"Q53S13,Q53S07,F8WAE1"	"UPI00001402C1"	"NM_016953.3"	NA	NA	""	"9/19"	""	"-:0.4181"	"-:0.7307"	"-:0.2622"	NA	"-:0.3056"	"-:0.3241"	"-:0.319"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTCTCC"	"435becce-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1518"	"PDE11A"	50940	"mskcc.org"	"GRCh37"	"2"	178764364	178764365	"+"	"Intron"	"INS"	"-"	"-"	"ATATAT"	"rs3037901"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1162-1445_1162-1440dupATATAT"	""	""	"ENST00000286063"	""	70	"."	6	16	"."	0	"PDE11A,intron_variant,,ENST00000286063,NM_016953.3;PDE11A,intron_variant,,ENST00000358450,NM_001077197.1;PDE11A,intron_variant,,ENST00000409504,;PDE11A,intron_variant,,ENST00000449286,NM_001077358.1;PDE11A,intron_variant,,ENST00000433879,;PDE11A,intron_variant,,ENST00000497003,;PDE11A,intron_variant,,ENST00000427127,;"	"ATATAT"	"ENSG00000128655"	"ENST00000286063"	"Transcript"	"intron_variant"	"-/9275"	"-/2802"	"-/933"	""	""	"rs3037901"	"1"	NA	-1	"PDE11A"	"HGNC"	8773	"protein_coding"	"YES"	"CCDS33334.1"	"ENSP00000286063"	"Q9HCR9"	"Q53S13,Q53S07,F8WAE1"	"UPI00001402C1"	"NM_016953.3"	NA	NA	""	"3/19"	""	"AT:0.4916"	"AT:0.3094"	"AT:0.6427"	NA	"AT:0.6349"	"AT:0.5179"	"AT:0.456"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	"0.08674"	"0.08889"	"0.1579"	"0.1471"	"0"	"0.1525"	"0.18"	"0.1017"	"1"	"common_variant"	"AAA"	"5a45abaa-2764-11e6-ab03-0c42424a729f"	"360"	0.1193	"428/3588"	"955/11010"	"8/90"	"6/38"	"15/102"	"0/0"	"161/1056"	"9/50"	"229/2252"	"PASS"	"FALSE"	0.0857142857142857	"WXS"	FALSE
"1519"	"RBM45"	129831	"mskcc.org"	"GRCh37"	"2"	178986131	178986136	"+"	"Intron"	"DEL"	"ACACAC"	"ACACAC"	"-"	"rs200040728"	NA	"JHCCPT1"	"JHCCPN1"	"ACACAC"	"ACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.853+80_853+85delCACACA"	""	""	"ENST00000286070"	""	46	"."	9	13	"."	0	"RBM45,intron_variant,,ENST00000286070,NM_152945.2;RBM45,upstream_gene_variant,,ENST00000455903,;RBM45,upstream_gene_variant,,ENST00000424099,;RBM45,upstream_gene_variant,,ENST00000464647,;RBM45,intron_variant,,ENST00000424000,;RBM45,intron_variant,,ENST00000493048,;"	"-"	"ENSG00000155636"	"ENST00000286070"	"Transcript"	"intron_variant"	"-/1785"	"-/1425"	"-/474"	""	""	"rs200040728"	"1"	NA	1	"RBM45"	"HGNC"	24468	"protein_coding"	"YES"	"CCDS33335.1"	"ENSP00000286070"	"Q8IUH3"	""	"UPI00001AEAD8"	"NM_152945.2"	NA	NA	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"35"	NA	"1"	"0.09136"	"0.1197"	"0.2738"	"0.3182"	"0.325"	"0.1429"	"0.25"	"0.3118"	NA	"common_variant"	"ATACACACA"	"436995ea-2764-11e6-ab03-0c42424a729f"	"540"	0.2157	"195/904"	"3210/35134"	"34/284"	"23/84"	"14/44"	"39/120"	"26/182"	"1/4"	"58/186"	"PASS"	"FALSE"	0.195652173913043	"WXS"	FALSE
"1520"	"TTN"	7273	"mskcc.org"	"GRCh37"	"2"	179540102	179540111	"+"	"Intron"	"DEL"	"GGAAGAAATG"	"GGAAGAAATG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GGAAGAAATG"	"GGAAGAAATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.34538-271_34538-262delCATTTCTTCC"	""	""	"ENST00000589042"	""	33	"."	5	12	"."	0	"TTN,intron_variant,,ENST00000589042,NM_001267550.1;TTN,intron_variant,,ENST00000591111,;TTN,intron_variant,,ENST00000342992,NM_133378.4,NM_001256850.1;TTN,intron_variant,,ENST00000342175,NM_133437.3;TTN,intron_variant,,ENST00000359218,NM_133432.3;TTN,intron_variant,,ENST00000460472,NM_003319.4;TTN,intron_variant,,ENST00000414766,;TTN,upstream_gene_variant,,ENST00000448510,;TTN-AS1,intron_variant,,ENST00000589487,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000431752,;TTN-AS1,intron_variant,,ENST00000589830,;"	"-"	"ENSG00000155657"	"ENST00000589042"	"Transcript"	"intron_variant"	"-/109224"	"-/107976"	"-/35991"	""	""	""	"1"	NA	-1	"TTN"	"HGNC"	12403	"protein_coding"	"YES"	"CCDS59435.1"	"ENSP00000467141"	"Q8WZ42"	"C9JQJ2,A2TKE6"	"UPI000264F4A1"	"NM_001267550.1"	NA	NA	""	"149/362"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAGGAAGAAATGG"	"4487bb14-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151515151515152	"WXS"	FALSE
"1521"	"CCDC141"	285025	"mskcc.org"	"GRCh37"	"2"	179714606	179714609	"+"	"Intron"	"DEL"	"AATT"	"AATT"	"-"	"rs113842328"	NA	"JHCCPT1"	"JHCCPN1"	"AATT"	"AATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3357+167_3357+170delAATT"	""	""	"ENST00000420890"	""	11	"."	5	2	"."	0	"CCDC141,intron_variant,,ENST00000420890,NM_173648.3;CCDC141,intron_variant,,ENST00000343876,;CCDC141,intron_variant,,ENST00000295723,;CCDC141,upstream_gene_variant,,ENST00000480419,;"	"-"	"ENSG00000163492"	"ENST00000420890"	"Transcript"	"intron_variant"	"-/9127"	"-/4593"	"-/1530"	""	""	"rs113842328"	"1"	NA	-1	"CCDC141"	"HGNC"	26821	"protein_coding"	"YES"	""	"ENSP00000395995"	""	"H7C0P1,E7ERF0"	"UPI0000EE2F1C"	"NM_173648.3"	NA	NA	""	"21/23"	""	"-:0.2238"	"-:0.1581"	"-:0.0922"	NA	"-:0.5714"	"-:0.0547"	"-:0.2219"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAATTA"	"44b012a8-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"1522"	"SESTD1"	91404	"mskcc.org"	"GRCh37"	"2"	179986990	179986991	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs144475229"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1283-335dupA"	""	""	"ENST00000428443"	""	13	"."	8	3	"."	0	"SESTD1,intron_variant,,ENST00000428443,NM_178123.4;snoU13,downstream_gene_variant,,ENST00000459087,;SESTD1,intron_variant,,ENST00000446758,;SESTD1,intron_variant,,ENST00000335289,;SESTD1,intron_variant,,ENST00000426988,;"	"T"	"ENSG00000187231"	"ENST00000428443"	"Transcript"	"intron_variant"	"-/10615"	"-/2091"	"-/696"	""	""	"rs144475229"	"1"	NA	-1	"SESTD1"	"HGNC"	18379	"protein_coding"	"YES"	"CCDS33338.1"	"ENSP00000415332"	"Q86VW0"	"Q7Z6D3,C9JHW6,C9J4X8"	"UPI0000043424"	"NM_178123.4"	NA	NA	""	"12/17"	""	"TTTTTTT:0.0607"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"5a930df0-2764-11e6-ab03-0c42424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.615384615384615	"WXS"	FALSE
"1523"	"ZNF385B"	151126	"mskcc.org"	"GRCh37"	"2"	180387416	180387420	"+"	"Intron"	"DEL"	"TATAA"	"-"	"-"	"rs67249061"	NA	"JHCCPT1"	"JHCCPN1"	"TATAA"	"TATAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.397-4055_397-4051delTTATA"	""	""	"ENST00000410066"	""	17	"."	13	3	"."	0	"ZNF385B,intron_variant,,ENST00000410066,NM_152520.4;ZNF385B,intron_variant,,ENST00000409343,NM_001113397.1;ZNF385B,intron_variant,,ENST00000336917,NM_001113398.1;ZNF385B,intron_variant,,ENST00000409692,;ZNF385B,intron_variant,,ENST00000457304,;ZNF385B,intron_variant,,ENST00000439340,;ZNF385B,intron_variant,,ENST00000466398,;ZNF385B,intron_variant,,ENST00000469551,;ZNF385B,intron_variant,,ENST00000495289,;ZNF385B,intron_variant,,ENST00000475539,;"	"-"	"ENSG00000144331"	"ENST00000410066"	"Transcript"	"intron_variant"	"-/3288"	"-/1416"	"-/471"	""	""	"rs67249061"	"1"	NA	-1	"ZNF385B"	"HGNC"	26332	"protein_coding"	"YES"	"CCDS33339.1"	"ENSP00000386845"	"Q569K4"	"Q53S82,Q53R81,C9JPH4,C9JKK0,C9J0U3"	"UPI00004F9C24"	"NM_152520.4"	NA	NA	""	"4/9"	""	"-:0.4465"	"-:0.3563"	"-:0.6282"	NA	"-:0.5317"	"-:0.4215"	"-:0.3773"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTATAAT"	"44b80378-2764-11e6-ab03-0c42424a729f"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.764705882352941	"WXS"	FALSE
"1524"	"DUSP19"	142679	"mskcc.org"	"GRCh37"	"2"	183947807	183947807	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs150305813"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.227-422delT"	""	""	"ENST00000354221"	""	11	"."	5	5	"."	0	"DUSP19,intron_variant,,ENST00000354221,NM_080876.3;DUSP19,intron_variant,,ENST00000342619,NM_001142314.1;AC064871.3,downstream_gene_variant,,ENST00000444562,;DUSP19,intron_variant,,ENST00000469344,;"	"-"	"ENSG00000162999"	"ENST00000354221"	"Transcript"	"intron_variant"	"-/5176"	"-/654"	"-/217"	""	""	"rs150305813"	"1"	NA	1	"DUSP19"	"HGNC"	18894	"protein_coding"	"YES"	"CCDS2289.1"	"ENSP00000346160"	"Q8WTR2"	""	"UPI000000D7B9"	"NM_080876.3"	NA	NA	""	"1/3"	""	"-:0.0280"	"-:0.0015"	"-:0.0562"	NA	"-:0"	"-:0.0746"	"-:0.0245"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"4500d256-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"1525"	"CALCRL"	10203	"mskcc.org"	"GRCh37"	"2"	188211568	188211569	"+"	"Intron"	"INS"	"-"	"-"	"CAG"	"rs79681168"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1171-445_1171-443dupCTG"	""	""	"ENST00000409998"	""	20	"."	9	3	"."	0	"CALCRL,intron_variant,,ENST00000409998,;CALCRL,intron_variant,,ENST00000392370,NM_005795.5;CALCRL,intron_variant,,ENST00000410068,NM_001271751.1;AC007319.1,intron_variant,,ENST00000412276,;AC007319.1,intron_variant,,ENST00000453517,;"	"CAG"	"ENSG00000064989"	"ENST00000409998"	"Transcript"	"intron_variant"	"-/5223"	"-/1386"	"-/461"	""	""	"rs79681168"	"1"	NA	-1	"CALCRL"	"HGNC"	16709	"protein_coding"	"YES"	"CCDS2293.1"	"ENSP00000386972"	"Q16602"	"E7EN01,B8ZZJ4"	"UPI000013D4CD"	""	NA	NA	""	"15/15"	""	"-:0.4557"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"5b4abd2e-2764-11e6-ab03-0c42424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.45	"WXS"	FALSE
"1526"	"SLC40A1"	30061	"mskcc.org"	"GRCh37"	"2"	190436162	190436163	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs202167407"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.514+278dupA"	""	""	"ENST00000261024"	""	22	"."	3	7	"."	0	"SLC40A1,intron_variant,,ENST00000261024,NM_014585.5;SLC40A1,intron_variant,,ENST00000427241,;SLC40A1,downstream_gene_variant,,ENST00000455320,;SLC40A1,downstream_gene_variant,,ENST00000418714,;SLC40A1,downstream_gene_variant,,ENST00000479598,;"	"T"	"ENSG00000138449"	"ENST00000261024"	"Transcript"	"intron_variant"	"-/3442"	"-/1716"	"-/571"	""	""	"rs202167407"	"1"	NA	-1	"SLC40A1"	"HGNC"	10909	"protein_coding"	"YES"	"CCDS2299.1"	"ENSP00000261024"	"Q9NP59"	"Q4PNE6,E7ES28,E7EQF8"	"UPI0000034CC2"	"NM_014585.5"	NA	NA	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"5b68eede-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"1527"	"C2orf88"	84281	"mskcc.org"	"GRCh37"	"2"	190903605	190903608	"+"	"Intron"	"DEL"	"TCTT"	"TCTT"	"-"	"rs143968802"	NA	"JHCCPT1"	"JHCCPN1"	"TCTT"	"TCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.220-40320_220-40317delTCTT"	""	""	"ENST00000478197"	""	7	"."	4	7	"."	0	"C2orf88,intron_variant,,ENST00000478197,;C2orf88,intron_variant,,ENST00000495546,;"	"-"	"ENSG00000187699"	"ENST00000478197"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/567"	""	""	""	""	"rs143968802"	"1"	NA	1	"C2orf88"	"HGNC"	28191	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"24"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTCTTT"	"45a088b4-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1528"	"NAB1"	4664	"mskcc.org"	"GRCh37"	"2"	191519380	191519381	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs76798590"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-196-1322_-196-1321insAT"	""	""	"ENST00000337386"	""	9	"."	4	1	"."	0	"NAB1,intron_variant,,ENST00000337386,NM_005966.3;NAB1,intron_variant,,ENST00000409581,;NAB1,intron_variant,,ENST00000357215,;NAB1,intron_variant,,ENST00000448811,;NAB1,intron_variant,,ENST00000416973,;NAB1,intron_variant,,ENST00000426601,;NAB1,intron_variant,,ENST00000423076,;NAB1,intron_variant,,ENST00000423376,;NAB1,upstream_gene_variant,,ENST00000409641,;"	"TA"	"ENSG00000138386"	"ENST00000337386"	"Transcript"	"intron_variant"	"-/4358"	"-/1464"	"-/487"	""	""	"rs76798590"	"1"	NA	1	"NAB1"	"HGNC"	7626	"protein_coding"	"YES"	"CCDS2307.1"	"ENSP00000336894"	"Q13506"	"C9JL92,C9JJ42,C9JID4,C9JFF6,C9J3V0"	"UPI0000001C43"	"NM_005966.3"	NA	NA	""	"2/9"	""	"-:0.1238"	"TA:0.6687"	"TA:0.9179"	NA	"TA:0.998"	"TA:0.9513"	"TA:0.9243"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"5b8841b2-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1529"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	193067767	193067768	"+"	"IGR"	"INS"	"-"	"-"	"TATCTATCTATCTATCTATCTATCTAATCTATCTATCTATCTATATCTATCTATATG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	2	"."	0	""	"TATCTATCTATCTATCTATCTATCTAATCTATCTATCTATCTATATCTATCTATATG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"5bb69314-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1530"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	195514889	195514890	"+"	"IGR"	"DEL"	"TC"	"TC"	"-"	"rs3065314"	NA	"JHCCPT1"	"JHCCPN1"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs3065314"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TC:0.0451"	"-:0.8366"	"-:0.9885"	NA	"-:0.998"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATCT"	"45e535fe-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"1531"	"HECW2"	57520	"mskcc.org"	"GRCh37"	"2"	197090963	197090964	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs368967643"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3918-370_3918-369delAG"	""	""	"ENST00000260983"	""	29	"."	3	7	"."	0	"HECW2,intron_variant,,ENST00000260983,NM_020760.1;HECW2,intron_variant,,ENST00000409111,;"	"-"	"ENSG00000138411"	"ENST00000260983"	"Transcript"	"intron_variant"	"-/11809"	"-/4719"	"-/1572"	""	""	"rs368967643"	"1"	NA	-1	"HECW2"	"HGNC"	29853	"protein_coding"	"YES"	"CCDS33354.1"	"ENSP00000260983"	"Q9P2P5"	"C9JPI9,C9JHL2"	"UPI00001A75E8"	"NM_020760.1"	NA	NA	""	"22/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACTC"	"46083fb8-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WXS"	FALSE
"1532"	"ANKRD44"	91526	"mskcc.org"	"GRCh37"	"2"	198127604	198127604	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs5837537"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.27+47698delC"	""	""	"ENST00000409919"	""	6	"."	3	1	"."	0	"ANKRD44,intron_variant,,ENST00000409153,;ANKRD44,intron_variant,,ENST00000539527,;ANKRD44,intron_variant,,ENST00000409919,NM_153697.2;ANKRD44,intron_variant,,ENST00000443014,;ANKRD44-IT1,intron_variant,,ENST00000428191,;ANKRD44,intron_variant,,ENST00000463879,;ANKRD44,intron_variant,,ENST00000447713,;ATP5G2P3,upstream_gene_variant,,ENST00000429083,;"	"-"	"ENSG00000065413"	"ENST00000409919"	"Transcript"	"intron_variant"	"-/1622"	"-/1104"	"-/367"	""	""	"rs5837537"	"1"	NA	-1	"ANKRD44"	"HGNC"	25259	"protein_coding"	"YES"	"CCDS33355.2"	"ENSP00000387233"	"Q8N8A2"	"C9JY51"	"UPI000004FDEC"	"NM_153697.2"	NA	NA	""	"1/9"	""	"G:0.1528"	"-:0.8396"	"-:0.8617"	NA	"-:0.8333"	"-:0.7942"	"-:0.9162"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"46329524-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1533"	"SPATS2L"	26010	"mskcc.org"	"GRCh37"	"2"	201249060	201249063	"+"	"Intron"	"DEL"	"TTTA"	"TTTA"	"-"	"rs138361016"	NA	"JHCCPT1"	"JHCCPN1"	"TTTA"	"TTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-22-4855_-22-4852delATTT"	""	""	"ENST00000358677"	""	15	"."	4	3	"."	0	"SPATS2L,intron_variant,,ENST00000358677,NM_015535.2,NM_001282744.1,NM_001282735.1,NM_001282743.1;SPATS2L,intron_variant,,ENST00000409988,NM_001100422.1;SPATS2L,intron_variant,,ENST00000409718,;SPATS2L,intron_variant,,ENST00000409140,NM_001100423.1;SPATS2L,intron_variant,,ENST00000409385,;SPATS2L,intron_variant,,ENST00000451764,;SPATS2L,intron_variant,,ENST00000360760,NM_001100424.1;SPATS2L,intron_variant,,ENST00000409151,;SPATS2L,intron_variant,,ENST00000409755,;SPATS2L,intron_variant,,ENST00000409397,;SPATS2L,intron_variant,,ENST00000457757,;SPATS2L,intron_variant,,ENST00000423749,;SPATS2L,intron_variant,,ENST00000449647,;SPATS2L,intron_variant,,ENST00000453663,;SPATS2L,intron_variant,,ENST00000444012,;SPATS2L,intron_variant,,ENST00000421573,;SPATS2L,intron_variant,,ENST00000439084,;SPATS2L,intron_variant,,ENST00000439395,;SPATS2L,intron_variant,,ENST00000428692,;AC105381.1,upstream_gene_variant,,ENST00000581684,;SPATS2L,intron_variant,,ENST00000459656,;SPATS2L,intron_variant,,ENST00000471601,;"	"-"	"ENSG00000196141"	"ENST00000358677"	"Transcript"	"intron_variant"	"-/6156"	"-/1677"	"-/558"	""	""	"rs138361016"	"1"	NA	1	"SPATS2L"	"HGNC"	24574	"protein_coding"	"YES"	"CCDS46483.1"	"ENSP00000351503"	"Q9NUQ6"	"F8WAV0,F8VT91,F2Z2S1,C9JKE4,C9J8M7,C9IZC3,B8ZZZ7"	"UPI0000D48A8E"	"NM_015535.2,NM_001282744.1,NM_001282735.1,NM_001282743.1"	NA	NA	""	"2/12"	""	"TTTA:0.2151"	"-:0.9039"	"-:0.7695"	NA	"-:0.8929"	"-:0.674"	"-:0.638"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"31"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTTTAT"	"46595e5c-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"1534"	"CASP10"	843	"mskcc.org"	"GRCh37"	"2"	202060265	202060266	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs10671854"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.578-298_578-297dupAA"	""	""	"ENST00000286186"	""	14	"."	4	6	"."	0	"CASP10,intron_variant,,ENST00000286186,NM_032977.3;CASP10,intron_variant,,ENST00000360132,NM_032976.3,NM_001230.4,NM_001206524.1;CASP10,intron_variant,,ENST00000346817,;CASP10,intron_variant,,ENST00000272879,NM_032974.4;CASP10,intron_variant,,ENST00000448480,NM_001206542.1;CASP10,intron_variant,,ENST00000313728,;CASP10,intron_variant,,ENST00000374650,;CASP10,intron_variant,,ENST00000492363,;CASP10,intron_variant,,ENST00000460140,;CASP10,intron_variant,,ENST00000438843,;CASP10,intron_variant,,ENST00000471191,;CASP10,downstream_gene_variant,,ENST00000485408,;"	"AA"	"ENSG00000003400"	"ENST00000286186"	"Transcript"	"intron_variant"	"-/5928"	"-/1569"	"-/522"	""	""	"rs10671854"	"1"	NA	1	"CASP10"	"HGNC"	1500	"protein_coding"	"YES"	"CCDS2340.1"	"ENSP00000286186"	"Q92851"	""	"UPI0000074732"	"NM_032977.3"	NA	NA	""	"4/9"	""	"AA:0.4627"	"AA:0.733"	"AA:0.428"	NA	"AA:0.2173"	"AA:0.5149"	"AA:0.3211"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"5c358818-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1535"	"CDK15"	65061	"mskcc.org"	"GRCh37"	"2"	202745600	202745600	"+"	"Intron"	"DEL"	"A"	"-"	"-"	"rs5837793"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1198+717delA"	""	""	"ENST00000450471"	""	8	"."	7	1	"."	0	"CDK15,intron_variant,,ENST00000450471,NM_001261435.1;CDK15,intron_variant,,ENST00000434439,NM_001261436.1;CDK15,intron_variant,,ENST00000410091,;CDK15,intron_variant,,ENST00000260967,NM_139158.2;CDK15,intron_variant,,ENST00000374598,;CDK15,intron_variant,,ENST00000460149,;CDK15,intron_variant,,ENST00000466337,;CDK15,downstream_gene_variant,,ENST00000451080,;"	"-"	"ENSG00000138395"	"ENST00000450471"	"Transcript"	"intron_variant"	"-/3659"	"-/1290"	"-/429"	""	""	"rs5837793"	"1"	NA	1	"CDK15"	"HGNC"	14434	"protein_coding"	"YES"	"CCDS58747.1"	"ENSP00000406472"	"Q96Q40"	""	"UPI0001D3BDAF"	"NM_001261435.1"	NA	NA	""	"12/13"	""	"A:0.0180"	"-:0.941"	"-:0.9899"	NA	"-:1"	"-:0.995"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"46d80860-2764-11e6-ab03-0c42424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.875	"WXS"	FALSE
"1536"	"ADAM23"	8745	"mskcc.org"	"GRCh37"	"2"	207304722	207304723	"+"	"5'Flank"	"DEL"	"TG"	"TG"	"-"	"rs67730370"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000264377"	""	6	"."	4	1	"."	0	"ADAM23,upstream_gene_variant,,ENST00000264377,NM_003812.3;ADAM23,upstream_gene_variant,,ENST00000374416,;ADAM23,upstream_gene_variant,,ENST00000374415,;"	"-"	"ENSG00000114948"	"ENST00000264377"	"Transcript"	"upstream_gene_variant"	"-/6327"	"-/2499"	"-/832"	""	""	"rs67730370"	"1"	"3540"	1	"ADAM23"	"HGNC"	202	"protein_coding"	"YES"	"CCDS2369.1"	"ENSP00000264377"	"O75077"	"Q53TK5,Q53TC0,Q53RX4"	"UPI0000044543"	"NM_003812.3"	NA	NA	""	""	""	"-:0.1440"	"-:0.0923"	"-:0.3256"	NA	"-:0.0516"	"-:0.2038"	"-:0.1186"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"4790943e-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1537"	"AC016697.1"	0	"mskcc.org"	"GRCh37"	"2"	209078373	209078374	"+"	"3'Flank"	"INS"	"-"	"-"	"ACACACAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000442177"	""	8	"."	5	1	"."	0	"AC016697.1,downstream_gene_variant,,ENST00000442177,;TPT1P2,downstream_gene_variant,,ENST00000413105,;"	"ACACACAG"	"ENSG00000233869"	"ENST00000442177"	"Transcript"	"downstream_gene_variant"	"-/850"	""	""	""	""	""	"1"	"4665"	1	"AC016697.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"5cf957e8-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1538"	"MAP2"	4133	"mskcc.org"	"GRCh37"	"2"	210288885	210288885	"+"	"5'UTR"	"DEL"	"C"	"C"	"-"	"rs113563544"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-330delC"	""	""	"ENST00000199940"	"1/15"	17	"."	8	2	"."	0	"MAP2,5_prime_UTR_variant,,ENST00000199940,NM_001039538.1;"	"-"	"ENSG00000078018"	"ENST00000199940"	"Transcript"	"5_prime_UTR_variant"	"104/2241"	"-/1680"	"-/559"	""	""	"rs113563544"	"1"	NA	1	"MAP2"	"HGNC"	6839	"protein_coding"	""	"CCDS33369.1"	"ENSP00000199940"	"P11137"	"Q16296,A8MZ31"	"UPI00000746E7"	"NM_001039538.1"	NA	NA	"1/15"	""	""	"-:0.0725"	"-:0.0257"	"-:0.0447"	NA	"-:0.1736"	"-:0.0596"	"-:0.0644"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCC"	"47ef46d2-2764-11e6-ab03-0c42424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.470588235294118	"WXS"	FALSE
"1539"	"UNC80"	285175	"mskcc.org"	"GRCh37"	"2"	210635721	210635722	"+"	"5'Flank"	"INS"	"-"	"-"	"GGAGGAGGAGGAGGAAGAAGAA"	"rs146937164"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000439458"	""	9	"."	5	7	"."	0	"UNC80,upstream_gene_variant,,ENST00000439458,NM_032504.1;UNC80,upstream_gene_variant,,ENST00000272845,NM_182587.3;UNC80,upstream_gene_variant,,ENST00000478701,;"	"GGAGGAGGAGGAGGAAGAAGAA"	"ENSG00000144406"	"ENST00000439458"	"Transcript"	"upstream_gene_variant"	"-/13562"	"-/9777"	"-/3258"	""	""	"rs146937164"	"1"	"995"	1	"UNC80"	"HGNC"	26582	"protein_coding"	"YES"	"CCDS46504.1"	"ENSP00000391088"	"Q8N2C7"	""	"UPI00017E10C9"	"NM_032504.1"	NA	NA	""	""	""	"GGAGGAGGAGGAGGAAGAAGAA:0.4239"	"GGAGGAGGAGGAGGAAGAAGAA:0.4153"	"GGAGGAGGAGGAGGAAGAAGAA:0.4337"	NA	"GGAGGAGGAGGAGGAAGAAGAA:0.4077"	"GGAGGAGGAGGAGGAAGAAGAA:0.4523"	"GGAGGAGGAGGAGGAAGAAGAA:0.4162"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"5d28d856-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"1540"	"UNC80"	285175	"mskcc.org"	"GRCh37"	"2"	210653950	210653951	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs113415959"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.725-306_725-305insA"	""	""	"ENST00000439458"	""	12	"."	3	3	"."	0	"UNC80,intron_variant,,ENST00000439458,NM_032504.1;UNC80,intron_variant,,ENST00000272845,NM_182587.3;UNC80,intron_variant,,ENST00000478701,;"	"A"	"ENSG00000144406"	"ENST00000439458"	"Transcript"	"intron_variant"	"-/13562"	"-/9777"	"-/3258"	""	""	"rs113415959"	"1"	NA	1	"UNC80"	"HGNC"	26582	"protein_coding"	"YES"	"CCDS46504.1"	"ENSP00000391088"	"Q8N2C7"	""	"UPI00017E10C9"	"NM_032504.1"	NA	NA	""	"5/63"	""	"A:0.1851"	"A:0.3253"	"A:0.072"	NA	"A:0.2163"	"A:0.0755"	"A:0.1564"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"5d2aa870-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1541"	"KANSL1L"	151050	"mskcc.org"	"GRCh37"	"2"	210887336	210887337	"+"	"3'UTR"	"INS"	"-"	"-"	"TA"	"rs147252533"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*335_*336dupTA"	""	""	"ENST00000281772"	"15/15"	37	"."	6	9	"."	0	"KANSL1L,3_prime_UTR_variant,,ENST00000281772,NM_152519.2;KANSL1L,3_prime_UTR_variant,,ENST00000418791,;RPE,downstream_gene_variant,,ENST00000359429,NM_199229.2;RPE,downstream_gene_variant,,ENST00000429921,NM_001278282.1,NM_001278283.1;RPE,downstream_gene_variant,,ENST00000354506,;RPE,downstream_gene_variant,,ENST00000454822,NM_006916.2;RPE,downstream_gene_variant,,ENST00000540255,NM_001278285.1;RPE,downstream_gene_variant,,ENST00000436630,;RPE,downstream_gene_variant,,ENST00000429907,NM_001278289.1;RPE,downstream_gene_variant,,ENST00000435437,;RPE,downstream_gene_variant,,ENST00000438204,;RPE,downstream_gene_variant,,ENST00000411934,;RPE,downstream_gene_variant,,ENST00000452025,;RPE,downstream_gene_variant,,ENST00000408981,;RPE,downstream_gene_variant,,ENST00000438265,;RPE,downstream_gene_variant,,ENST00000445268,;"	"TA"	"ENSG00000144445"	"ENST00000281772"	"Transcript"	"3_prime_UTR_variant"	"3564-3565/4754"	"-/2964"	"-/987"	""	""	"rs147252533"	"1"	NA	-1	"KANSL1L"	"HGNC"	26310	"protein_coding"	"YES"	"CCDS33370.1"	"ENSP00000281772"	"A0AUZ9"	""	"UPI00002094A9"	"NM_152519.2"	NA	NA	"15/15"	""	""	"TA:0.0968"	"TA:0.174"	"TA:0.0677"	NA	"TA:0.0069"	"TA:0.0845"	"TA:0.1186"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"5d2f51d6-2764-11e6-ab03-0c42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162162162162162	"WXS"	FALSE
"1542"	"KANSL1L"	151050	"mskcc.org"	"GRCh37"	"2"	211005887	211005888	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs76590997"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1089-11992_1089-11991delCA"	""	""	"ENST00000281772"	""	12	"."	6	1	"."	0	"KANSL1L,intron_variant,,ENST00000281772,NM_152519.2;KANSL1L,intron_variant,,ENST00000418791,;KANSL1L,intron_variant,,ENST00000452086,;KANSL1L,intron_variant,,ENST00000457374,;KANSL1L,intron_variant,,ENST00000428655,;KANSL1L,intron_variant,,ENST00000438563,;KANSL1L,intron_variant,,ENST00000415553,;"	"-"	"ENSG00000144445"	"ENST00000281772"	"Transcript"	"intron_variant"	"-/4754"	"-/2964"	"-/987"	""	""	"rs76590997"	"1"	NA	-1	"KANSL1L"	"HGNC"	26310	"protein_coding"	"YES"	"CCDS33370.1"	"ENSP00000281772"	"A0AUZ9"	""	"UPI00002094A9"	"NM_152519.2"	NA	NA	""	"2/14"	""	"-:0.4002"	"-:0.0946"	"-:0.5591"	NA	"-:0.4673"	"-:0.495"	"-:0.5337"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"480198fa-2764-11e6-ab03-0c42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1543"	"ERBB4"	2066	"mskcc.org"	"GRCh37"	"2"	212389379	212389380	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs561690937"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2487+37248dupG"	""	""	"ENST00000342788"	""	8	"."	4	2	"."	0	"ERBB4,intron_variant,,ENST00000342788,NM_005235.2;ERBB4,intron_variant,,ENST00000436443,NM_001042599.1;ERBB4,intron_variant,,ENST00000402597,;"	"C"	"ENSG00000178568"	"ENST00000342788"	"Transcript"	"intron_variant"	"-/12132"	"-/3927"	"-/1308"	""	""	"rs561690937"	"1"	NA	-1	"ERBB4"	"HGNC"	3432	"protein_coding"	"YES"	"CCDS2394.1"	"ENSP00000342235"	"Q15303"	"Q580Q7,Q53T57,Q53R48,Q53R25,Q53QS8,Q4ZG14,E9PDR1"	"UPI00000499DF"	"NM_005235.2"	NA	NA	""	"20/27"	""	"-:0.0010"	"C:0.9977"	"C:1"	NA	"C:0.999"	"C:1"	"C:0.999"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"5d57d58e-2764-11e6-ab03-0c42424a729f"	"225"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	TRUE
"1544"	"ERBB4"	2066	"mskcc.org"	"GRCh37"	"2"	212544412	212544413	"+"	"Intron"	"INS"	"-"	"TT"	"TT"	"rs56413763"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1490-504_1490-503insAA"	""	""	"ENST00000342788"	""	7	"."	5	1	"."	0	"ERBB4,intron_variant,,ENST00000342788,NM_005235.2;ERBB4,intron_variant,,ENST00000436443,NM_001042599.1;ERBB4,intron_variant,,ENST00000402597,;ERBB4,intron_variant,,ENST00000260943,;ERBB4,intron_variant,,ENST00000484594,;"	"TT"	"ENSG00000178568"	"ENST00000342788"	"Transcript"	"intron_variant"	"-/12132"	"-/3927"	"-/1308"	""	""	"rs56413763"	"1"	NA	-1	"ERBB4"	"HGNC"	3432	"protein_coding"	"YES"	"CCDS2394.1"	"ENSP00000342235"	"Q15303"	"Q580Q7,Q53T57,Q53R48,Q53R25,Q53QS8,Q4ZG14,E9PDR1"	"UPI00000499DF"	"NM_005235.2"	NA	NA	""	"12/27"	""	"-:0.0106"	"TT:0.9728"	"TT:0.9928"	NA	"TT:1"	"TT:0.9881"	"TT:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"5d5bcdb0-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	TRUE
"1545"	"IKZF2"	22807	"mskcc.org"	"GRCh37"	"2"	214015179	214015180	"+"	"5'Flank"	"INS"	"-"	"-"	"CCTCCT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000457361"	""	43	"."	3	38	"."	0	"IKZF2,intron_variant,,ENST00000434687,;IKZF2,intron_variant,,ENST00000374319,NM_001079526.1;IKZF2,intron_variant,,ENST00000452786,;IKZF2,upstream_gene_variant,,ENST00000457361,NM_016260.2;IKZF2,upstream_gene_variant,,ENST00000342002,;IKZF2,upstream_gene_variant,,ENST00000413091,;IKZF2,upstream_gene_variant,,ENST00000451136,;IKZF2,upstream_gene_variant,,ENST00000421754,;IKZF2,upstream_gene_variant,,ENST00000374327,;IKZF2,upstream_gene_variant,,ENST00000433134,;IKZF2,upstream_gene_variant,,ENST00000442445,;RP11-105N14.1,upstream_gene_variant,,ENST00000604818,;IKZF2,upstream_gene_variant,,ENST00000431520,;IKZF2,upstream_gene_variant,,ENST00000439848,;IKZF2,upstream_gene_variant,,ENST00000412444,;IKZF2,upstream_gene_variant,,ENST00000453575,;IKZF2,upstream_gene_variant,,ENST00000374326,;"	"CCTCCT"	"ENSG00000030419"	"ENST00000457361"	"Transcript"	"upstream_gene_variant"	"-/9405"	"-/1581"	"-/526"	""	""	""	"1"	"121"	-1	"IKZF2"	"HGNC"	13177	"protein_coding"	"YES"	"CCDS2395.1"	"ENSP00000410447"	"Q9UKS7"	"Q53SU9,Q53RV5,Q53QP1,E7EPU0"	"UPI000013D4DA"	"NM_016260.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"5d7580d4-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WXS"	FALSE
"1546"	"BARD1"	580	"mskcc.org"	"GRCh37"	"2"	215678086	215678087	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"rs35029440"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000260947"	""	8	"."	3	1	"."	0	"BARD1,upstream_gene_variant,,ENST00000260947,NM_000465.2,NM_001282548.1,NM_001282545.1,NM_001282543.1;BARD1,upstream_gene_variant,,ENST00000449967,;BARD1,upstream_gene_variant,,ENST00000421162,;AC072062.1,intron_variant,,ENST00000607412,;BARD1,upstream_gene_variant,,ENST00000471787,;BARD1,upstream_gene_variant,,ENST00000455743,;BARD1,upstream_gene_variant,,ENST00000479904,;"	"T"	"ENSG00000138376"	"ENST00000260947"	"Transcript"	"upstream_gene_variant"	"-/5499"	"-/2334"	"-/777"	""	""	"rs35029440"	"1"	"3658"	-1	"BARD1"	"HGNC"	952	"protein_coding"	"YES"	"CCDS2397.1"	"ENSP00000260947"	"Q99728"	""	"UPI000013D11D"	"NM_000465.2,NM_001282548.1,NM_001282545.1,NM_001282543.1"	NA	NA	""	""	""	"T:0.3349"	"T:0.2005"	"T:0.4078"	NA	"T:0.3304"	"T:0.3976"	"T:0.4049"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"5d898516-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1547"	"FN1"	2335	"mskcc.org"	"GRCh37"	"2"	216236191	216236192	"+"	"Intron"	"INS"	"-"	"-"	"TCTT"	"rs71399195"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6714+437_6714+440dupAAGA"	""	""	"ENST00000354785"	""	11	"."	4	1	"."	0	"FN1,intron_variant,,ENST00000354785,;FN1,intron_variant,,ENST00000323926,NM_212482.1;FN1,intron_variant,,ENST00000359671,;FN1,intron_variant,,ENST00000336916,NM_212478.1,NM_002026.2;FN1,intron_variant,,ENST00000421182,;FN1,intron_variant,,ENST00000357009,;FN1,intron_variant,,ENST00000346544,;FN1,intron_variant,,ENST00000446046,;FN1,intron_variant,,ENST00000345488,;FN1,intron_variant,,ENST00000357867,NM_212474.1;FN1,intron_variant,,ENST00000356005,NM_212476.1;FN1,intron_variant,,ENST00000443816,;FN1,intron_variant,,ENST00000432072,;FN1,intron_variant,,ENST00000456923,;FN1,downstream_gene_variant,,ENST00000438981,;FN1,intron_variant,,ENST00000492816,;FN1,intron_variant,,ENST00000485567,;FN1,intron_variant,,ENST00000461974,;FN1,downstream_gene_variant,,ENST00000474036,;FN1,downstream_gene_variant,,ENST00000460217,;FN1,upstream_gene_variant,,ENST00000480024,;"	"TCTT"	"ENSG00000115414"	"ENST00000354785"	"Transcript"	"intron_variant"	"-/8905"	"-/7434"	"-/2477"	""	""	"rs71399195"	"1"	NA	-1	"FN1"	"HGNC"	3778	"protein_coding"	"YES"	"CCDS42814.1"	"ENSP00000346839"	"P02751"	"Q9H382,Q7L553,Q53S27,A6YID6"	"UPI0000E5A2B5"	""	NA	NA	""	"40/45"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"5d9dcada-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"1548"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	216365496	216365497	"+"	"IGR"	"INS"	"-"	"-"	"CTTT"	"rs147349945"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	7	1	"."	0	""	"CTTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147349945"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CTTT:0.2692"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"5db3d7ee-2764-11e6-ab03-0c42424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"1549"	"MREG"	55686	"mskcc.org"	"GRCh37"	"2"	216859334	216859344	"+"	"Intron"	"DEL"	"GAAGAAGAAGA"	"GAAGAAGAAGA"	"-"	"rs71409891"	NA	"JHCCPT1"	"JHCCPN1"	"GAAGAAGAAGA"	"GAAGAAGAAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.255+1685_255+1695delTCTTCTTCTTC"	""	""	"ENST00000263268"	""	16	"."	7	3	"."	0	"MREG,intron_variant,,ENST00000263268,NM_018000.2;MREG,intron_variant,,ENST00000420348,;MREG,intron_variant,,ENST00000439791,;MREG,intron_variant,,ENST00000424992,;PECR,downstream_gene_variant,,ENST00000442122,;"	"-"	"ENSG00000118242"	"ENST00000263268"	"Transcript"	"intron_variant"	"-/1314"	"-/645"	"-/214"	""	""	"rs71409891"	"1"	NA	-1	"MREG"	"HGNC"	25478	"protein_coding"	"YES"	"CCDS46513.1"	"ENSP00000263268"	"Q8N565"	"C9JYV9,C9JFU1,C9JAG4"	"UPI000006D682"	"NM_018000.2"	NA	NA	""	"2/4"	""	"-:0.4255"	"-:0.0946"	"-:0.5951"	NA	"-:0.5556"	"-:0.5606"	"-:0.4796"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAGAAGAAGAG"	"48aa5620-2764-11e6-ab03-0c42424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4375	"WXS"	FALSE
"1550"	"RP11-566E18.3"	150967	"mskcc.org"	"GRCh37"	"2"	217084078	217084079	"+"	"RNA"	"INS"	"-"	"ACAC"	"ACAC"	"rs140981722"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2313_2316dupCACA"	""	""	"ENST00000562038"	"1/1"	8	"."	6	1	"."	0	"RP11-566E18.3,non_coding_transcript_exon_variant,,ENST00000562038,;RP11-566E18.3,non_coding_transcript_exon_variant,,ENST00000597904,;"	"ACAC"	"ENSG00000260804"	"ENST00000562038"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"2311-2312/3148"	""	""	""	""	"rs140981722"	"1"	NA	1	"RP11-566E18.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"-:0.2380"	"ACAC:0.8638"	"ACAC:0.6931"	NA	"ACAC:0.4782"	"ACAC:0.8767"	"ACAC:0.8476"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"5db75cb6-2764-11e6-ab03-0c42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"1551"	"ARPC2"	10109	"mskcc.org"	"GRCh37"	"2"	219103314	219103318	"+"	"Intron"	"DEL"	"TTTTT"	"TTTTT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TTTTT"	"TTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.269-56_269-52delTTTTT"	""	""	"ENST00000295685"	""	60	"."	3	18	"."	0	"ARPC2,intron_variant,,ENST00000295685,NM_005731.3;ARPC2,intron_variant,,ENST00000315717,NM_152862.2;ARPC2,downstream_gene_variant,,ENST00000420104,;ARPC2,intron_variant,,ENST00000477992,;ARPC2,intron_variant,,ENST00000484961,;ARPC2,intron_variant,,ENST00000478612,;ARPC2,intron_variant,,ENST00000480062,;ARPC2,downstream_gene_variant,,ENST00000491780,;ARPC2,upstream_gene_variant,,ENST00000462034,;ARPC2,intron_variant,,ENST00000470146,;ARPC2,intron_variant,,ENST00000465395,;ARPC2,intron_variant,,ENST00000420201,;ARPC2,intron_variant,,ENST00000414983,;ARPC2,intron_variant,,ENST00000472753,;ARPC2,downstream_gene_variant,,ENST00000489598,;"	"-"	"ENSG00000163466"	"ENST00000295685"	"Transcript"	"intron_variant"	"-/1605"	"-/903"	"-/300"	""	""	""	"1"	NA	1	"ARPC2"	"HGNC"	705	"protein_coding"	"YES"	"CCDS2410.1"	"ENSP00000295685"	"O15144"	"Q53R19,C9JTV5"	"UPI0000125D3D"	"NM_005731.3"	NA	NA	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTTTTTT"	"48e72ac8-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.05	"WXS"	FALSE
"1552"	"PNKD"	25953	"mskcc.org"	"GRCh37"	"2"	219179761	219179762	"+"	"Intron"	"INS"	"-"	"-"	"TCTTTCTTTC"	"rs145811353"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.237-24744_237-24743insCTTTCTTTCT"	""	""	"ENST00000273077"	""	9	"."	4	2	"."	0	"PNKD,intron_variant,,ENST00000273077,NM_015488.4;PNKD,intron_variant,,ENST00000472650,;PNKD,upstream_gene_variant,,ENST00000494954,;"	"TCTTTCTTTC"	"ENSG00000127838"	"ENST00000273077"	"Transcript"	"intron_variant"	"-/3021"	"-/1158"	"-/385"	""	""	"rs145811353"	"1"	NA	1	"PNKD"	"HGNC"	9153	"protein_coding"	"YES"	"CCDS2411.1"	"ENSP00000273077"	"Q8N490"	""	"UPI0000246C7E"	"NM_015488.4"	NA	NA	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"5ddd06d2-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1553"	"CYP27A1"	1593	"mskcc.org"	"GRCh37"	"2"	219646547	219646548	"+"	"5'UTR"	"INS"	"-"	"-"	"C"	"rs11375701"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-357dupC"	""	""	"ENST00000258415"	"1/9"	7	"."	4	1	"."	0	"CYP27A1,5_prime_UTR_variant,,ENST00000258415,NM_000784.3;CYP27A1,non_coding_transcript_exon_variant,,ENST00000494263,;CYP27A1,upstream_gene_variant,,ENST00000466602,;CYP27A1,upstream_gene_variant,,ENST00000445971,;"	"C"	"ENSG00000135929"	"ENST00000258415"	"Transcript"	"5_prime_UTR_variant"	"69-70/2286"	"-/1596"	"-/531"	""	""	"rs11375701"	"1"	NA	1	"CYP27A1"	"HGNC"	2605	"protein_coding"	"YES"	"CCDS2423.1"	"ENSP00000258415"	"Q02318"	"C9J1K5"	"UPI00001281BD"	"NM_000784.3"	NA	NA	"1/9"	""	""	"-:0.0002"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:0.999"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAC"	"5e02a3f6-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1554"	"AC114765.1"	0	"mskcc.org"	"GRCh37"	"2"	221223563	221223564	"+"	"Intron"	"INS"	"-"	"-"	"TTCTTTCTT"	"rs113325914"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.427+36625_427+36633dupTTTCTTTTC"	""	""	"ENST00000432993"	""	6	"."	4	1	"."	0	"AC114765.1,intron_variant,,ENST00000432993,;"	"TTCTTTCTT"	"ENSG00000239498"	"ENST00000432993"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/754"	""	""	""	""	"rs113325914"	"1"	NA	1	"AC114765.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	"-:0.0162"	"TTCTTTCTT:0.9448"	"TTCTTTCTT:0.9885"	NA	"TTCTTTCTT:1"	"TTCTTTCTT:1"	"TTCTTTCTT:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"12"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"5e6a30a2-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1555"	"KCNE4"	23704	"mskcc.org"	"GRCh37"	"2"	224014976	224014976	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs34617696"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.190-42803delA"	""	""	"ENST00000488477"	""	12	"."	4	1	"."	0	"KCNE4,intron_variant,,ENST00000488477,;"	"-"	"ENSG00000152049"	"ENST00000488477"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/908"	""	""	""	""	"rs34617696"	"1"	NA	1	"KCNE4"	"HGNC"	6244	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"2/3"	""	"A:0.3998"	"-:0.5098"	"-:0.5865"	NA	"-:0.5992"	"-:0.6561"	"-:0.6759"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"4a0cf89c-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1556"	"AP1S3"	130340	"mskcc.org"	"GRCh37"	"2"	224621170	224621171	"+"	"3'Flank"	"INS"	"-"	"-"	"AAAGAAAGAAAGA"	"rs559533193"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000396654"	""	13	"."	4	4	"."	0	"AP1S3,intron_variant,,ENST00000443700,;AP1S3,downstream_gene_variant,,ENST00000396654,NM_001039569.1;AP1S3,downstream_gene_variant,,ENST00000415298,;AP1S3,downstream_gene_variant,,ENST00000334271,;"	"AAAGAAAGAAAGA"	"ENSG00000152056"	"ENST00000396654"	"Transcript"	"downstream_gene_variant"	"-/830"	"-/465"	"-/154"	""	""	"rs559533193"	"1"	"2028"	-1	"AP1S3"	"HGNC"	18971	"protein_coding"	"YES"	"CCDS42827.1"	"ENSP00000379891"	"Q96PC3"	"Q53R44"	"UPI00003D357B"	"NM_001039569.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"5e94bac0-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"1557"	"COL4A4"	1286	"mskcc.org"	"GRCh37"	"2"	227953894	227953895	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11396112"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1460-363dupT"	""	""	"ENST00000396625"	""	14	"."	6	3	"."	0	"COL4A4,intron_variant,,ENST00000396625,NM_000092.4;COL4A4,intron_variant,,ENST00000329662,;"	"A"	"ENSG00000081052"	"ENST00000396625"	"Transcript"	"intron_variant"	"-/9895"	"-/5073"	"-/1690"	""	""	"rs11396112"	"1"	NA	-1	"COL4A4"	"HGNC"	2206	"protein_coding"	"YES"	"CCDS42828.1"	"ENSP00000379866"	"P53420"	""	"UPI000013D987"	"NM_000092.4"	NA	NA	""	"21/47"	""	"A:0.4433"	"A:0.2912"	"A:0.5115"	NA	"A:0.4623"	"A:0.4841"	"A:0.5389"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"5ecde746-2764-11e6-ab03-0c42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1558"	"SP140L"	93349	"mskcc.org"	"GRCh37"	"2"	231191616	231191616	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000415673"	""	24	"."	3	9	"."	0	"SP140,intron_variant,,ENST00000486687,;SP140L,upstream_gene_variant,,ENST00000243810,;SP140L,upstream_gene_variant,,ENST00000396563,;SP140L,upstream_gene_variant,,ENST00000415673,NM_138402.4;SP140L,upstream_gene_variant,,ENST00000444636,;"	"-"	"ENSG00000185404"	"ENST00000415673"	"Transcript"	"upstream_gene_variant"	"-/2665"	"-/1743"	"-/580"	""	""	""	"1"	"283"	1	"SP140L"	"HGNC"	25105	"protein_coding"	"YES"	"CCDS46538.1"	"ENSP00000397911"	"Q9H930"	""	"UPI000020974D"	"NM_138402.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGC"	"4adc600a-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"1559"	"SP100"	6672	"mskcc.org"	"GRCh37"	"2"	231325295	231325637	"+"	"Intron"	"DEL"	"GGTAATCTGTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCCGGACTGCGGACTGCAGTGGCGCAATCTCGGCTCACTGCAAGCTCCGCTTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCCCGCCACCGCGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCTTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCATGATCCACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCC"	"GGTAATCTGTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCCGGACTGCGGACTGCAGTGGCGCAATCTCGGCTCACTGCAAGCTCCGCTTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCCCGCCACCGCGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCTTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCATGATCCACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GGTAATCTGTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCCGGACTGCGGACTGCAGTGGCGCAATCTCGGCTCACTGCAAGCTCCGCTTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCCCGCCACCGCGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCTTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCATGATCCACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCC"	"GGTAATCTGTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCCGGACTGCGGACTGCAGTGGCGCAATCTCGGCTCACTGCAAGCTCCGCTTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCCCGCCACCGCGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCTTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCATGATCCACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.821-667_821-325delTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCCGGACTGCGGACTGCAGTGGCGCAATCTCGGCTCACTGCAAGCTCCGCTTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCCCGCCACCGCGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCTTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCATGATCCACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCGGTAATCTGTTTCTT"	""	""	"ENST00000340126"	""	8	"."	5	2	"."	0	"SP100,intron_variant,,ENST00000264052,NM_003113.3;SP100,intron_variant,,ENST00000340126,NM_001080391.1;SP100,intron_variant,,ENST00000409112,NM_001206701.1;SP100,intron_variant,,ENST00000409897,NM_001206704.1;SP100,intron_variant,,ENST00000409341,NM_001206702.1;SP100,intron_variant,,ENST00000427101,NM_001206703.1;SP100,intron_variant,,ENST00000409824,;SP100,intron_variant,,ENST00000341950,;SP100,upstream_gene_variant,,ENST00000452345,;SP100,upstream_gene_variant,,ENST00000413284,;SP100,intron_variant,,ENST00000466710,;SP100,intron_variant,,ENST00000470940,;SP100,upstream_gene_variant,,ENST00000462751,;"	"-"	"ENSG00000067066"	"ENST00000340126"	"Transcript"	"intron_variant"	"-/2926"	"-/2658"	"-/885"	""	""	""	"1"	NA	1	"SP100"	"HGNC"	11206	"protein_coding"	"YES"	"CCDS42832.1"	"ENSP00000343023"	"P23497"	"Q4ZG64"	"UPI000013DD6A"	"NM_001080391.1"	NA	NA	""	"8/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGGTAATCTGTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCCGGACTGCGGACTGCAGTGGCGCAATCTCGGCTCACTGCAAGCTCCGCTTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCCCGCCACCGCGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCTTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCATGATCCACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCG"	"4ae63b7a-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1560"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	231483669	231483670	"+"	"IGR"	"INS"	"-"	"-"	"AGAG"	"rs35540105"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	5	9	"."	0	""	"AGAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35540105"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"5f1a9622-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"1561"	"PDE6D"	5147	"mskcc.org"	"GRCh37"	"2"	232611620	232611621	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs67108912"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.51-7723dupT"	""	""	"ENST00000287600"	""	7	"."	3	2	"."	0	"PDE6D,intron_variant,,ENST00000287600,NM_002601.2;PDE6D,intron_variant,,ENST00000409772,;PDE6D,intron_variant,,ENST00000428104,;PDE6D,intron_variant,,ENST00000486044,;"	"A"	"ENSG00000156973"	"ENST00000287600"	"Transcript"	"intron_variant"	"-/1175"	"-/453"	"-/150"	""	""	"rs67108912"	"1"	NA	-1	"PDE6D"	"HGNC"	8788	"protein_coding"	"YES"	"CCDS33398.1"	"ENSP00000287600"	"O43924"	"Q6IB24,C9IZ52"	"UPI0000000C8B"	"NM_002601.2"	NA	NA	""	"1/4"	""	"A:0.2987"	"A:0.4546"	"A:0.2767"	NA	"A:0.1052"	"A:0.3499"	"A:0.2505"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"5f3c2bfc-2764-11e6-ab03-0c42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1562"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	233362315	233362315	"+"	"IGR"	"DEL"	"A"	"-"	"-"	"rs11299623"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11299623"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.0168"	"-:0.9667"	"-:0.987"	NA	"-:1"	"-:0.9722"	"-:0.9969"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"4b286428-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1563"	"CHRND"	1144	"mskcc.org"	"GRCh37"	"2"	233398497	233398498	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11385225"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1048-144_1048-143insG"	""	""	"ENST00000258385"	""	8	"."	5	2	"."	0	"CHRND,intron_variant,,ENST00000258385,NM_000751.2;CHRND,intron_variant,,ENST00000543200,NM_001256657.1;CHRND,intron_variant,,ENST00000457943,;CHRND,downstream_gene_variant,,ENST00000536614,;CHRND,downstream_gene_variant,,ENST00000449596,;CHRND,intron_variant,,ENST00000441621,;CHRND,intron_variant,,ENST00000446616,;CHRND,downstream_gene_variant,,ENST00000412233,;"	"G"	"ENSG00000135902"	"ENST00000258385"	"Transcript"	"intron_variant"	"-/2112"	"-/1554"	"-/517"	""	""	"rs11385225"	"1"	NA	1	"CHRND"	"HGNC"	1965	"protein_coding"	"YES"	"CCDS2494.1"	"ENSP00000258385"	"Q07001"	""	"UPI000012525E"	"NM_000751.2"	NA	NA	""	"9/11"	""	"G:0.4115"	"G:0.2595"	"G:0.562"	NA	"G:0.5506"	"G:0.3539"	"G:0.4264"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAA"	"5f49710e-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1564"	"EFHD1"	80303	"mskcc.org"	"GRCh37"	"2"	233551085	233551086	"+"	"3'Flank"	"INS"	"-"	"C"	"C"	"rs58771933"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000264059"	""	9	"."	7	1	"."	0	"EFHD1,downstream_gene_variant,,ENST00000264059,NM_025202.3;EFHD1,downstream_gene_variant,,ENST00000409708,;EFHD1,downstream_gene_variant,,ENST00000410095,;EFHD1,downstream_gene_variant,,ENST00000409613,NM_001243252.1;EFHD1,downstream_gene_variant,,ENST00000442845,;"	"C"	"ENSG00000115468"	"ENST00000264059"	"Transcript"	"downstream_gene_variant"	"-/2259"	"-/720"	"-/239"	""	""	"rs58771933"	"1"	"3594"	1	"EFHD1"	"HGNC"	29556	"protein_coding"	"YES"	"CCDS2497.1"	"ENSP00000264059"	"Q9BUP0"	"Q8WYH2,Q53SA2,Q53S38,C9JTV4,B4DEE0"	"UPI00001362A7"	"NM_025202.3"	NA	NA	""	""	""	"-:0.2206"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"5f550fd2-2764-11e6-ab03-0c42424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	FALSE
"1565"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	235092557	235092559	"+"	"IGR"	"DEL"	"AAG"	"AAG"	"-"	"rs148812788"	NA	"JHCCPT1"	"JHCCPN1"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148812788"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAGA"	"4bb0343e-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"1566"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	235099918	235099919	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs57685753"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs57685753"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"5f9d3dd4-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1567"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	236354135	236354136	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs147499193"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	6	3	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147499193"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.3782"	"C:0.5976"	"C:0.3112"	NA	"C:0.3472"	"C:0.2783"	"C:0.2638"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"5fa53656-2764-11e6-ab03-0c42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"1568"	"RBM44"	375316	"mskcc.org"	"GRCh37"	"2"	238718049	238718050	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs771301769"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-15-4180dupA"	""	""	"ENST00000316997"	""	7	"."	4	1	"."	0	"RBM44,intron_variant,,ENST00000316997,NM_001080504.2;RBM44,intron_variant,,ENST00000409864,;LRRFIP1,intron_variant,,ENST00000489603,;RBM44,intron_variant,,ENST00000444524,;RBM44,intron_variant,,ENST00000480583,;"	"A"	"ENSG00000177483"	"ENST00000316997"	"Transcript"	"intron_variant"	"-/4282"	"-/3159"	"-/1052"	""	""	"rs771301769"	"1"	NA	1	"RBM44"	"HGNC"	24756	"protein_coding"	"YES"	"CCDS46554.1"	"ENSP00000321179"	"Q6ZP01"	""	"UPI000179A941"	"NM_001080504.2"	NA	NA	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"5fd176bc-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1569"	"RAMP1"	10267	"mskcc.org"	"GRCh37"	"2"	238819880	238819880	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11321617"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.192-288delT"	""	""	"ENST00000254661"	""	11	"."	4	5	"."	0	"RAMP1,intron_variant,,ENST00000254661,NM_005855.2;RAMP1,intron_variant,,ENST00000404910,;RAMP1,intron_variant,,ENST00000409726,;RAMP1,intron_variant,,ENST00000403885,;"	"-"	"ENSG00000132329"	"ENST00000254661"	"Transcript"	"intron_variant"	"-/910"	"-/447"	"-/148"	""	""	"rs11321617"	"1"	NA	1	"RAMP1"	"HGNC"	9843	"protein_coding"	"YES"	"CCDS2522.1"	"ENSP00000254661"	"O60894"	"Q53T50,Q53SN3,E9PC20"	"UPI00001342FF"	"NM_005855.2"	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"4c0b7d8a-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"1570"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	239888961	239888962	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs11387730"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11387730"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0958"	"A:0.9546"	"A:0.902"	NA	"A:0.9802"	"A:0.8201"	"A:0.8456"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"600017e2-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1571"	"HDAC4"	9759	"mskcc.org"	"GRCh37"	"2"	240134941	240134942	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs11432561"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.95-23169dupG"	""	""	"ENST00000345617"	""	12	"."	5	1	"."	0	"HDAC4,intron_variant,,ENST00000345617,NM_006037.3;HDAC4,intron_variant,,ENST00000446876,;HDAC4,intron_variant,,ENST00000493582,;HDAC4,intron_variant,,ENST00000463007,;HDAC4,intron_variant,,ENST00000535493,;HDAC4,intron_variant,,ENST00000496347,;"	"C"	"ENSG00000068024"	"ENST00000345617"	"Transcript"	"intron_variant"	"-/8976"	"-/3255"	"-/1084"	""	""	"rs11432561"	"1"	NA	-1	"HDAC4"	"HGNC"	14063	"protein_coding"	"YES"	"CCDS2529.1"	"ENSP00000264606"	"P56524"	"Q53SM2,Q53SB4,F5H0B1,F5GX36,C9J0X4"	"UPI000013D541"	"NM_006037.3"	NA	NA	""	"3/26"	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"6007947c-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"1572"	"HDAC4"	9759	"mskcc.org"	"GRCh37"	"2"	240147439	240147440	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs11456343"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.94+10849dupG"	""	""	"ENST00000345617"	""	6	"."	5	1	"."	0	"HDAC4,intron_variant,,ENST00000345617,NM_006037.3;HDAC4,intron_variant,,ENST00000446876,;HDAC4,intron_variant,,ENST00000493582,;HDAC4,intron_variant,,ENST00000463007,;HDAC4,intron_variant,,ENST00000535493,;HDAC4,intron_variant,,ENST00000496347,;"	"C"	"ENSG00000068024"	"ENST00000345617"	"Transcript"	"intron_variant"	"-/8976"	"-/3255"	"-/1084"	""	""	"rs11456343"	"1"	NA	-1	"HDAC4"	"HGNC"	14063	"protein_coding"	"YES"	"CCDS2529.1"	"ENSP00000264606"	"P56524"	"Q53SM2,Q53SB4,F5H0B1,F5GX36,C9J0X4"	"UPI000013D541"	"NM_006037.3"	NA	NA	""	"3/26"	""	"-:0.0715"	"C:0.91"	"C:0.9164"	NA	"C:0.9742"	"C:0.8757"	"C:0.9693"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"60084dc2-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1573"	"NDUFA10"	4705	"mskcc.org"	"GRCh37"	"2"	240861510	240861517	"+"	"Intron"	"DEL"	"CCTTCCTC"	"CCTTCCTC"	"-"	"rs149799775"	NA	"JHCCPT1"	"JHCCPN1"	"CCTTCCTC"	"CCTTCCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.295-26786_295-26779delGAGGAAGG"	""	""	"ENST00000419408"	""	18	"."	4	8	"."	0	"NDUFA10,intron_variant,,ENST00000419408,;"	"-"	"ENSG00000130414"	"ENST00000419408"	"Transcript"	"intron_variant"	"-/662"	"-/390"	"-/129"	""	""	"rs149799775"	"1"	NA	-1	"NDUFA10"	"HGNC"	7684	"protein_coding"	""	""	"ENSP00000408055"	""	"H7C2W5"	"UPI000173A5FD"	""	NA	NA	""	"4/5"	""	"-:0.4223"	"-:0.6165"	"-:0.4885"	NA	"-:0.3512"	"-:0.3072"	"-:0.3047"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTCCTTCCTCC"	"4c623f4e-2764-11e6-ab03-0c42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"1574"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	241290179	241290180	"+"	"IGR"	"INS"	"-"	"A"	"A"	"rs35627134"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35627134"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3349"	"A:0.2587"	"A:0.5086"	NA	"A:0.0744"	"A:0.5606"	"A:0.3507"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"60153e6a-2764-11e6-ab03-0c42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1575"	"GPR35"	2859	"mskcc.org"	"GRCh37"	"2"	241563643	241563644	"+"	"Intron"	"INS"	"-"	"-"	"GGGAGTTGAGATCGGGC"	"rs137897964"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.89+5197_89+5198insGAGTTGAGATCGGGCGG"	""	""	"ENST00000438013"	""	9	"."	6	2	"."	0	"GPR35,intron_variant,,ENST00000319838,NM_001195381.1;GPR35,intron_variant,,ENST00000403859,NM_001195382.1;GPR35,intron_variant,,ENST00000438013,;GPR35,upstream_gene_variant,,ENST00000407714,NM_005301.3;"	"GGGAGTTGAGATCGGGC"	"ENSG00000178623"	"ENST00000438013"	"Transcript"	"intron_variant"	"-/2032"	"-/1023"	"-/340"	""	""	"rs137897964"	"1"	NA	1	"GPR35"	"HGNC"	4492	"protein_coding"	"YES"	"CCDS56174.1"	"ENSP00000415890"	"Q9HC97"	""	"UPI0000E6291C"	""	NA	NA	""	"5/5"	""	"GGGAGTTGAGATCGGGC:0.4866"	"GGGAGTTGAGATCGGGC:0.1566"	"GGGAGTTGAGATCGGGC:0.3674"	NA	"GGGAGTTGAGATCGGGC:0.6845"	"GGGAGTTGAGATCGGGC:0.5318"	"GGGAGTTGAGATCGGGC:0.7669"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"60271fe0-2764-11e6-ab03-0c42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1576"	"BOK-AS1"	100379249	"mskcc.org"	"GRCh37"	"2"	242484881	242484884	"+"	"Intron"	"DEL"	"ATGG"	"-"	"-"	"rs150194885"	NA	"JHCCPT1"	"JHCCPN1"	"ATGG"	"ATGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.202-625_202-622delCCAT"	""	""	"ENST00000434306"	""	8	"."	6	1	"."	0	"BOK-AS1,intron_variant,,ENST00000434306,;"	"-"	"ENSG00000234235"	"ENST00000434306"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/643"	""	""	""	""	"rs150194885"	"1"	NA	-1	"BOK-AS1"	"HGNC"	35125	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.1462"	"-:0.2141"	"-:0.1744"	NA	"-:0.0139"	"-:0.2714"	"-:0.0419"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAATGGA"	"4cd7b940-2764-11e6-ab03-0c42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"1577"	"SDCBP2"	27111	"mskcc.org"	"GRCh37"	"20"	1292719	1292719	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11318673"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.732+262delA"	""	""	"ENST00000360779"	""	37	"."	12	8	"."	0	"SDCBP2,intron_variant,,ENST00000360779,NM_080489.4;SDCBP2,intron_variant,,ENST00000381812,;SDCBP2,intron_variant,,ENST00000339987,NM_001199784.1;SDCBP2,intron_variant,,ENST00000381808,NM_015685.5;SNPH,downstream_gene_variant,,ENST00000381867,;SNPH,downstream_gene_variant,,ENST00000381873,NM_014723.2;SDCBP2,upstream_gene_variant,,ENST00000467129,;"	"-"	"ENSG00000125775"	"ENST00000360779"	"Transcript"	"intron_variant"	"-/1519"	"-/879"	"-/292"	""	""	"rs11318673"	"1"	NA	-1	"SDCBP2"	"HGNC"	15756	"protein_coding"	"YES"	"CCDS42848.1"	"ENSP00000354013"	"Q9H190"	""	"UPI0000135710"	"NM_080489.4"	NA	NA	""	"7/8"	""	"T:0.0090"	"-:0.9675"	"-:0.9971"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTT"	"2f1dd150-2764-11e6-92b9-0b42424a729f"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324324324324324	"WXS"	FALSE
"1578"	"SIRPA"	140885	"mskcc.org"	"GRCh37"	"20"	1895355	1895359	"+"	"Intron"	"DEL"	"TAACA"	"TAACA"	"AATG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TAACA"	"TAACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.80-390_80-386delTAACAinsAATG"	""	""	"ENST00000358771"	""	9	"."	3	1	"."	0	"SIRPA,intron_variant,,ENST00000358771,NM_001040023.1;SIRPA,intron_variant,,ENST00000400068,NM_001040022.1;SIRPA,intron_variant,,ENST00000356025,NM_080792.2;"	"AATG"	"ENSG00000198053"	"ENST00000358771"	"Transcript"	"intron_variant"	"-/3996"	"-/1515"	"-/504"	""	""	""	"1"	NA	1	"SIRPA"	"HGNC"	9662	"protein_coding"	"YES"	"CCDS13022.1"	"ENSP00000351621"	"P78324"	"B4DP97"	"UPI0000073ADE"	"NM_001040023.1"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTAACAC"	"3c366ece-2764-11e6-92b9-0b42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1579"	"TMC2"	117532	"mskcc.org"	"GRCh37"	"20"	2596748	2596749	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"rs374364073"	NA	"JHCCPT1"	"JHCCPN1"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1873-23_1873-22delTC"	""	""	"ENST00000358864"	""	77	"."	4	40	"."	0	"TMC2,intron_variant,,ENST00000358864,NM_080751.2;TMC2,intron_variant,,ENST00000496948,;"	"-"	"ENSG00000149488"	"ENST00000358864"	"Transcript"	"intron_variant"	"-/3169"	"-/2721"	"-/906"	""	""	"rs374364073"	"1"	NA	1	"TMC2"	"HGNC"	16527	"protein_coding"	"YES"	"CCDS13029.2"	"ENSP00000351732"	"Q8TDI7"	""	"UPI0000246C98"	"NM_080751.2"	NA	NA	""	"14/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"12"	NA	"1"	"0.05039"	"0.05441"	"0.0697"	"0.0467"	"0.0542"	"0.08362"	"0.09048"	"0.07645"	NA	"common_variant"	"TTTCT"	"2f6b3580-2764-11e6-92b9-0b42424a729f"	"240"	0.07355	"4806/65342"	"5341/106002"	"353/6488"	"444/6370"	"231/4946"	"227/4188"	"2695/32230"	"38/420"	"818/10700"	"PASS"	"FALSE"	0.051948051948052	"WXS"	FALSE
"1580"	"IDH3B"	3420	"mskcc.org"	"GRCh37"	"20"	2641823	2641824	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTGTG"	"rs71329398"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.338-218_338-209dupCACACACACA"	""	""	"ENST00000380843"	""	44	"."	3	31	"."	0	"IDH3B,intron_variant,,ENST00000380843,NM_006899.3;IDH3B,intron_variant,,ENST00000380851,NM_001258384.1,NM_174855.2;NOP56,downstream_gene_variant,,ENST00000329276,NM_006392.3;NOP56,downstream_gene_variant,,ENST00000415272,;SNORD86,downstream_gene_variant,,ENST00000391196,NR_004399.1;SNORD57,downstream_gene_variant,,ENST00000448188,NR_002738.1;SNORD56,downstream_gene_variant,,ENST00000413522,NR_002739.1;RP4-686C3.7,upstream_gene_variant,,ENST00000418739,;IDH3B,intron_variant,,ENST00000488299,;IDH3B,intron_variant,,ENST00000474315,;IDH3B,intron_variant,,ENST00000462967,;IDH3B,intron_variant,,ENST00000491065,;NOP56,downstream_gene_variant,,ENST00000492135,;NOP56,downstream_gene_variant,,ENST00000466447,;NOP56,downstream_gene_variant,,ENST00000484998,;IDH3B,upstream_gene_variant,,ENST00000492240,;NOP56,downstream_gene_variant,,ENST00000480992,;NOP56,downstream_gene_variant,,ENST00000462630,;NOP56,downstream_gene_variant,,ENST00000467857,;IDH3B,upstream_gene_variant,,ENST00000466494,;NOP56,downstream_gene_variant,,ENST00000480447,;NOP56,downstream_gene_variant,,ENST00000490753,;IDH3B,upstream_gene_variant,,ENST00000477689,;NOP56,downstream_gene_variant,,ENST00000471023,;IDH3B,upstream_gene_variant,,ENST00000466999,;IDH3B,upstream_gene_variant,,ENST00000479376,;NOP56,downstream_gene_variant,,ENST00000467196,;"	"TGTGTGTGTG"	"ENSG00000101365"	"ENST00000380843"	"Transcript"	"intron_variant"	"-/1545"	"-/1158"	"-/385"	""	""	"rs71329398"	"1"	NA	-1	"IDH3B"	"HGNC"	5385	"protein_coding"	"YES"	"CCDS13032.1"	"ENSP00000370223"	"O43837"	"Q9UIC5,B4DU38"	"UPI000013CBC6"	"NM_006899.3"	NA	NA	""	"4/11"	""	"TG:0.3936"	"TG:0.3714"	"TG:0.451"	NA	"TG:0.3115"	"TG:0.4831"	"TG:0.3753"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"3ce9e814-2764-11e6-92b9-0b42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WXS"	FALSE
"1581"	"SLC4A11"	83959	"mskcc.org"	"GRCh37"	"20"	3215049	3215050	"+"	"Intron"	"INS"	"-"	"-"	"CCAGCCC"	"rs575672476"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.421-96_421-90dupGGGCTGG"	""	""	"ENST00000380059"	""	72	"."	5	52	"."	0	"SLC4A11,intron_variant,,ENST00000380059,NM_001174090.1;SLC4A11,intron_variant,,ENST00000380056,NM_032034.3;SLC4A11,intron_variant,,ENST00000539553,NM_001174089.1;SLC4A11,intron_variant,,ENST00000437836,;SLC4A11,upstream_gene_variant,,ENST00000488544,;SLC4A11,upstream_gene_variant,,ENST00000470631,;SLC4A11,intron_variant,,ENST00000474451,;"	"CCAGCCC"	"ENSG00000088836"	"ENST00000380059"	"Transcript"	"intron_variant"	"-/3229"	"-/2757"	"-/918"	""	""	"rs575672476"	"1"	NA	-1	"SLC4A11"	"HGNC"	16438	"protein_coding"	"YES"	"CCDS54445.1"	"ENSP00000369399"	""	"R9UQR4,R9UQ67,R9UQ64,R9UQ62,R9UQ58,R9UNY3"	"UPI00000738A5"	"NM_001174090.1"	NA	NA	""	"4/19"	""	"CCAGCCC:0.1404"	"CCAGCCC:0.0492"	"CCAGCCC:0.1657"	NA	"CCAGCCC:0.2292"	"CCAGCCC:0.1551"	"CCAGCCC:0.1391"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTC"	"3d1ba25a-2764-11e6-92b9-0b42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0694444444444444	"WXS"	FALSE
"1582"	"MAVS"	57506	"mskcc.org"	"GRCh37"	"20"	3839778	3839781	"+"	"Intron"	"DEL"	"CCTC"	"CCTC"	"-"	"rs150692447"	NA	"JHCCPT1"	"JHCCPN1"	"CCTC"	"CCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.292+1337_292+1340delCCCT"	""	""	"ENST00000428216"	""	14	"."	3	2	"."	0	"MAVS,intron_variant,,ENST00000428216,NM_020746.4;MAVS,intron_variant,,ENST00000416600,NM_001206491.1;MAVS,intron_variant,,ENST00000358134,;"	"-"	"ENSG00000088888"	"ENST00000428216"	"Transcript"	"intron_variant"	"-/4237"	"-/1623"	"-/540"	""	""	"rs150692447"	"1"	NA	1	"MAVS"	"HGNC"	29233	"protein_coding"	"YES"	"CCDS33437.1"	"ENSP00000401980"	"Q7Z434"	"M1P2Z0"	"UPI000015F983"	"NM_020746.4"	NA	NA	""	"3/6"	""	"-:0.4910"	"-:0.7179"	"-:0.3184"	NA	"-:0.3839"	"-:0.3867"	"-:0.5245"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCCTCC"	"301d6dfe-2764-11e6-92b9-0b42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"1583"	"ENSR00001718958"	0	"mskcc.org"	"GRCh37"	"20"	4590266	4590267	"+"	"IGR"	"INS"	"-"	"-"	"CTGGCC"	"rs11473172"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001718958"	""	8	"."	4	4	"."	0	""	"CTGGCC"	""	"ENSR00001718958"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs11473172"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"CTGGCC:0.3389"	"CTGGCC:0.2542"	"CTGGCC:0.3415"	NA	"CTGGCC:0.4067"	"CTGGCC:0.334"	"CTGGCC:0.3865"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"3d63a988-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1584"	"SLC23A2"	9962	"mskcc.org"	"GRCh37"	"20"	4837926	4837929	"+"	"Intron"	"DEL"	"ACAT"	"ACAT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ACAT"	"ACAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1721-79_1721-76delATGT"	""	""	"ENST00000379333"	""	61	"."	4	48	"."	0	"SLC23A2,intron_variant,,ENST00000379333,NM_203327.1;SLC23A2,intron_variant,,ENST00000338244,NM_005116.5;SLC23A2,intron_variant,,ENST00000424750,;SLC23A2,downstream_gene_variant,,ENST00000423430,;"	"-"	"ENSG00000089057"	"ENST00000379333"	"Transcript"	"intron_variant"	"-/6962"	"-/1953"	"-/650"	""	""	""	"1"	NA	-1	"SLC23A2"	"HGNC"	10973	"protein_coding"	"YES"	"CCDS13085.1"	"ENSP00000368637"	"Q9UGH3"	"Q4ZGM1"	"UPI0000136292"	"NM_203327.1"	NA	NA	""	"16/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACACATA"	"30408262-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0655737704918033	"WXS"	FALSE
"1585"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	7578904	7578913	"+"	"IGR"	"DEL"	"AGAGAGAGAA"	"AGAGAGAGAA"	"-"	"rs200309407"	NA	"JHCCPT1"	"JHCCPN1"	"AGAGAGAGAA"	"AGAGAGAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	5	8	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200309407"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AGAGAGAGAA:0.4187"	"-:0.4024"	"-:0.5519"	NA	"-:0.6756"	"-:0.5855"	"-:0.7423"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGAGAGAGAAG"	"30a3a9b4-2764-11e6-92b9-0b42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1586"	"PLCB1"	23236	"mskcc.org"	"GRCh37"	"20"	8702590	8702593	"+"	"Intron"	"DEL"	"GATA"	"-"	"-"	"rs11470538"	NA	"JHCCPT1"	"JHCCPN1"	"GATA"	"GATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1514-406_1514-403delATAG"	""	""	"ENST00000338037"	""	7	"."	5	3	"."	0	"PLCB1,intron_variant,,ENST00000378641,NM_182734.2;PLCB1,intron_variant,,ENST00000338037,NM_015192.3;PLCB1,intron_variant,,ENST00000378637,;PLCB1,intron_variant,,ENST00000494924,;PLCB1,intron_variant,,ENST00000487210,;"	"-"	"ENSG00000182621"	"ENST00000338037"	"Transcript"	"intron_variant"	"-/6729"	"-/3651"	"-/1216"	""	""	"rs11470538"	"1"	NA	1	"PLCB1"	"HGNC"	15917	"protein_coding"	"YES"	"CCDS13102.1"	"ENSP00000338185"	"Q9NQ66"	""	"UPI0000131A8F"	"NM_015192.3"	NA	NA	""	"14/31"	""	"GATA:0.0537"	"-:0.9773"	"-:0.8617"	NA	"-:1"	"-:0.9155"	"-:0.9407"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGGATAG"	"30c3f868-2764-11e6-92b9-0b42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1587"	"ENSR00001719459"	0	"mskcc.org"	"GRCh37"	"20"	9865310	9865312	"+"	"IGR"	"DEL"	"GAA"	"GAA"	"-"	"rs33968852"	NA	"JHCCPT1"	"JHCCPN1"	"GAA"	"GAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001719459"	""	12	"."	7	1	"."	0	""	"-"	""	"ENSR00001719459"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs33968852"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"GAA:0.4830"	"-:0.6604"	"-:0.402"	NA	"-:0.5238"	"-:0.4076"	"-:0.5102"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAG"	"30eac664-2764-11e6-92b9-0b42424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"1588"	"SLX4IP"	128710	"mskcc.org"	"GRCh37"	"20"	10428733	10428736	"+"	"Intron"	"DEL"	"TGTT"	"TGTT"	"-"	"rs71332998"	NA	"JHCCPT1"	"JHCCPN1"	"TGTT"	"TGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-29-10082_-29-10079delGTTT"	""	""	"ENST00000334534"	""	7	"."	3	3	"."	0	"SLX4IP,intron_variant,,ENST00000334534,NM_001009608.1;"	"-"	"ENSG00000149346"	"ENST00000334534"	"Transcript"	"intron_variant"	"-/1407"	"-/1227"	"-/408"	""	""	"rs71332998"	"1"	NA	1	"SLX4IP"	"HGNC"	16225	"protein_coding"	"YES"	"CCDS33439.1"	"ENSP00000335557"	"Q5VYV7"	""	"UPI00001D8318"	"NM_001009608.1"	NA	NA	""	"1/7"	""	"-:0.3506"	"-:0.2511"	"-:0.4611"	NA	"-:0.1518"	"-:0.6034"	"-:0.3517"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATGTTT"	"3104631c-2764-11e6-92b9-0b42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1589"	"SLX4IP"	128710	"mskcc.org"	"GRCh37"	"20"	10527937	10527938	"+"	"Intron"	"INS"	"-"	"-"	"TTACTC"	"rs5840382"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.28-8940_28-8939insACTCTT"	""	""	"ENST00000334534"	""	10	"."	4	1	"."	0	"SLX4IP,intron_variant,,ENST00000334534,NM_001009608.1;"	"TTACTC"	"ENSG00000149346"	"ENST00000334534"	"Transcript"	"intron_variant"	"-/1407"	"-/1227"	"-/408"	""	""	"rs5840382"	"1"	NA	1	"SLX4IP"	"HGNC"	16225	"protein_coding"	"YES"	"CCDS33439.1"	"ENSP00000335557"	"Q5VYV7"	""	"UPI00001D8318"	"NM_001009608.1"	NA	NA	""	"2/7"	""	"-:0.4225"	"TTACTC:0.4501"	"TTACTC:0.5951"	NA	"TTACTC:0.495"	"TTACTC:0.6451"	"TTACTC:0.7526"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"3dd122a6-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1590"	"ISM1"	140862	"mskcc.org"	"GRCh37"	"20"	13270311	13270322	"+"	"Intron"	"DEL"	"GGAGGAGGAGGG"	"GGAGGAGGAGGG"	"-"	"rs148528962"	NA	"JHCCPT1"	"JHCCPN1"	"GGAGGAGGAGGG"	"GGAGGAGGAGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.787+992_787+1003delGGGAGGAGGAGG"	""	""	"ENST00000262487"	""	32	"."	11	13	"."	0	"ISM1,intron_variant,,ENST00000262487,NM_080826.1;TASP1,intron_variant,,ENST00000539805,;"	"-"	"ENSG00000101230"	"ENST00000262487"	"Transcript"	"intron_variant"	"-/2593"	"-/1395"	"-/464"	""	""	"rs148528962"	"1"	NA	1	"ISM1"	"HGNC"	16213	"protein_coding"	"YES"	"CCDS46579.1"	"ENSP00000262487"	"B1AKI9"	""	"UPI00004A0D4C"	"NM_080826.1"	NA	NA	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"11"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGGAGGAGGAGGGG"	"315883ca-2764-11e6-92b9-0b42424a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34375	"WXS"	FALSE
"1591"	"MACROD2"	140733	"mskcc.org"	"GRCh37"	"20"	15578682	15578682	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs11474875"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.645+98192delC"	""	""	"ENST00000217246"	""	6	"."	4	1	"."	0	"MACROD2,intron_variant,,ENST00000217246,NM_080676.5;MACROD2,intron_variant,,ENST00000402914,NM_001033087.1;MACROD2,intron_variant,,ENST00000310348,;"	"-"	"ENSG00000172264"	"ENST00000217246"	"Transcript"	"intron_variant"	"-/4994"	"-/1278"	"-/425"	""	""	"rs11474875"	"1"	NA	1	"MACROD2"	"HGNC"	16126	"protein_coding"	"YES"	"CCDS13120.2"	"ENSP00000217246"	"A1Z1Q3"	""	"UPI00005B2E12"	"NM_080676.5"	NA	NA	""	"8/16"	""	"C:0.0531"	"-:0.997"	"-:0.9553"	NA	"-:0.9196"	"-:0.9185"	"-:0.9305"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"319d24e4-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1592"	"MACROD2"	140733	"mskcc.org"	"GRCh37"	"20"	16013402	16013413	"+"	"Intron"	"DEL"	"GGAAGAGAGGAA"	"GGAAGAGAGGAA"	"-"	"rs201685550"	NA	"JHCCPT1"	"JHCCPN1"	"GGAAGAGAGGAA"	"GGAAGAGAGGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1154-8427_1154-8416delAGAGGAAGGAAG"	""	""	"ENST00000217246"	""	17	"."	7	7	"."	0	"MACROD2,intron_variant,,ENST00000217246,NM_080676.5;MACROD2,intron_variant,,ENST00000402914,NM_001033087.1;MACROD2,intron_variant,,ENST00000310348,;MACROD2,intron_variant,,ENST00000407045,;MACROD2,intron_variant,,ENST00000378058,;MACROD2,intron_variant,,ENST00000486914,;"	"-"	"ENSG00000172264"	"ENST00000217246"	"Transcript"	"intron_variant"	"-/4994"	"-/1278"	"-/425"	""	""	"rs201685550"	"1"	NA	1	"MACROD2"	"HGNC"	16126	"protein_coding"	"YES"	"CCDS13120.2"	"ENSP00000217246"	"A1Z1Q3"	""	"UPI00005B2E12"	"NM_080676.5"	NA	NA	""	"15/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGGAAGAGAGGAAG"	"31a94a08-2764-11e6-92b9-0b42424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411764705882353	"WXS"	FALSE
"1593"	"OTOR"	56914	"mskcc.org"	"GRCh37"	"20"	16731048	16731049	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTG"	"rs143050519"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.363+414_363+419dupTGTGTG"	""	""	"ENST00000246081"	""	14	"."	4	6	"."	0	"OTOR,intron_variant,,ENST00000246081,NM_020157.3;OTOR,intron_variant,,ENST00000486129,;OTOR,intron_variant,,ENST00000490148,;"	"TGTGTG"	"ENSG00000125879"	"ENST00000246081"	"Transcript"	"intron_variant"	"-/1477"	"-/387"	"-/128"	""	""	"rs143050519"	"1"	NA	1	"OTOR"	"HGNC"	8517	"protein_coding"	"YES"	"CCDS13124.1"	"ENSP00000246081"	"Q9NRC9"	""	"UPI0000047809"	"NM_020157.3"	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"26"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"3e4b6d5e-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1594"	"RP4-760C5.3"	0	"mskcc.org"	"GRCh37"	"20"	25991241	25991242	"+"	"5'Flank"	"INS"	"-"	"-"	"AGAG"	"rs111468377"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000448580"	""	8	"."	5	2	"."	0	"RP4-760C5.3,upstream_gene_variant,,ENST00000448580,;"	"AGAG"	"ENSG00000231081"	"ENST00000448580"	"Transcript"	"upstream_gene_variant"	"-/542"	""	""	""	""	"rs111468377"	"1"	"74"	-1	"RP4-760C5.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2242"	"AGAG:0.9085"	"AGAG:0.6297"	NA	"AGAG:0.9881"	"AGAG:0.5805"	"AGAG:0.682"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"3f6a6d7a-2764-11e6-92b9-0b42424a729f"	"102"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1595"	"FAM182A"	728882	"mskcc.org"	"GRCh37"	"20"	26062336	26062336	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs375253292"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1046+311delC"	""	""	"ENST00000376398"	""	6	"."	4	1	"."	0	"FAM182A,intron_variant,,ENST00000376398,;FAM182A,intron_variant,,ENST00000415411,;FAM182A,intron_variant,,ENST00000482133,;"	"-"	"ENSG00000125804"	"ENST00000376398"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/5070"	""	""	""	""	"rs375253292"	"1"	NA	1	"FAM182A"	"HGNC"	16222	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/4"	""	"C:0.3444"	"-:0.9735"	"-:0.5303"	NA	"-:0.619"	"-:0.5119"	"-:0.5"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCC"	"33d80f9e-2764-11e6-92b9-0b42424a729f"	"218"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1596"	"RP4-610C12.3"	0	"mskcc.org"	"GRCh37"	"20"	29522449	29522450	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs56034052"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.42-302dupA"	""	""	"ENST00000454331"	""	10	"."	9	1	"."	0	"RP4-610C12.3,intron_variant,,ENST00000454331,;RP4-610C12.4,upstream_gene_variant,,ENST00000380888,;"	"T"	"ENSG00000225490"	"ENST00000454331"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/553"	""	""	""	""	"rs56034052"	"1"	NA	-1	"RP4-610C12.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.0002"	"T:1"	"T:0.9986"	NA	"T:1"	"T:1"	"T:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"3f6ec4f6-2764-11e6-92b9-0b42424a729f"	"520"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.9	"WXS"	FALSE
"1597"	"PDRG1"	81572	"mskcc.org"	"GRCh37"	"20"	30536415	30536416	"+"	"Intron"	"INS"	"-"	"-"	"ACAGATG"	"rs58738885"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.238+189_238+195dupCATCTGT"	""	""	"ENST00000202017"	""	12	"."	4	1	"."	0	"PDRG1,intron_variant,,ENST00000202017,NM_030815.2;TTLL9,downstream_gene_variant,,ENST00000375938,;TTLL9,downstream_gene_variant,,ENST00000375921,;TTLL9,downstream_gene_variant,,ENST00000375922,;"	"ACAGATG"	"ENSG00000088356"	"ENST00000202017"	"Transcript"	"intron_variant"	"-/1385"	"-/402"	"-/133"	""	""	"rs58738885"	"1"	NA	-1	"PDRG1"	"HGNC"	16119	"protein_coding"	"YES"	"CCDS13194.1"	"ENSP00000202017"	"Q9NUG6"	""	"UPI0000034E24"	"NM_030815.2"	NA	NA	""	"3/4"	""	"ACAGATG:0.1358"	"ACAGATG:0.2057"	"ACAGATG:0.0879"	NA	"ACAGATG:0.0863"	"ACAGATG:0.1421"	"ACAGATG:0.1196"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"3f9cd260-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1598"	"C20orf203"	0	"mskcc.org"	"GRCh37"	"20"	31225797	31225799	"+"	"Intron"	"DEL"	"TTG"	"TTG"	"-"	"rs112866150"	NA	"JHCCPT1"	"JHCCPN1"	"TTG"	"TTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2457+2569_2457+2571delCAA"	""	""	"ENST00000608990"	""	10	"."	5	1	"."	0	"C20orf203,intron_variant,,ENST00000608990,;C20orf203,intron_variant,,ENST00000360785,;"	"-"	"ENSG00000198547"	"ENST00000608990"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/5076"	""	""	""	""	"rs112866150"	"1"	NA	-1	"C20orf203"	"HGNC"	26592	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"5/5"	""	"-:0.1338"	"-:0.0998"	"-:0.1455"	NA	"-:0"	"-:0.2704"	"-:0.1687"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTGT"	"343e1802-2764-11e6-92b9-0b42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1599"	"RALY"	22913	"mskcc.org"	"GRCh37"	"20"	32600248	32600249	"+"	"Intron"	"INS"	"-"	"-"	"CTCTTCTCTTT"	"rs111363781"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-93+18319_-93+18329dupCTTTCTCTTCT"	""	""	"ENST00000246194"	""	8	"."	4	3	"."	0	"RALY,intron_variant,,ENST00000375114,NM_007367.3;RALY,intron_variant,,ENST00000246194,NM_016732.2;RALY,intron_variant,,ENST00000448364,;RALY,intron_variant,,ENST00000333552,;RALY,intron_variant,,ENST00000413297,;RP5-1125A11.4,downstream_gene_variant,,ENST00000451556,;"	"CTCTTCTCTTT"	"ENSG00000125970"	"ENST00000246194"	"Transcript"	"intron_variant"	"-/1789"	"-/921"	"-/306"	""	""	"rs111363781"	"1"	NA	1	"RALY"	"HGNC"	15921	"protein_coding"	"YES"	"CCDS13230.1"	"ENSP00000246194"	"Q9UKM9"	"Q5QPM2,Q5QPM1,Q53GL6,B4DSJ1"	"UPI00000467E6"	"NM_016732.2"	NA	NA	""	"1/9"	""	"-:0.4471"	"CTCTTCTCTTT:0.1982"	"CTCTTCTCTTT:0.5648"	NA	"CTCTTCTCTTT:0.7242"	"CTCTTCTCTTT:0.6402"	"CTCTTCTCTTT:0.7577"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"18"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"3fe45252-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1600"	"EIF2S2"	8894	"mskcc.org"	"GRCh37"	"20"	32704668	32704669	"+"	"5'Flank"	"INS"	"-"	"-"	"AC"	"rs10627372"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000374980"	""	7	"."	3	1	"."	0	"EIF2S2,upstream_gene_variant,,ENST00000374980,NM_003908.3;"	"AC"	"ENSG00000125977"	"ENST00000374980"	"Transcript"	"upstream_gene_variant"	"-/2656"	"-/1002"	"-/333"	""	""	"rs10627372"	"1"	"4530"	-1	"EIF2S2"	"HGNC"	3266	"protein_coding"	"YES"	"CCDS13231.1"	"ENSP00000364119"	"P20042"	"Q96I16,Q6IBR8"	"UPI000012D28F"	"NM_003908.3"	NA	NA	""	""	""	"-:0.4990"	"AC:0.1906"	"AC:0.4942"	NA	"AC:0.6577"	"AC:0.5755"	"AC:0.6871"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"3fed4772-2764-11e6-92b9-0b42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1601"	"FER1L4"	0	"mskcc.org"	"GRCh37"	"20"	34153451	34153451	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11476717"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.4382-308delA"	""	""	"ENST00000431615"	""	13	"."	3	7	"."	0	"FER1L4,intron_variant,,ENST00000400461,;FER1L4,intron_variant,,ENST00000411519,;FER1L4,intron_variant,,ENST00000400465,;FER1L4,intron_variant,,ENST00000262870,;FER1L4,upstream_gene_variant,,ENST00000434828,;FER1L4,intron_variant,,ENST00000431615,;"	"-"	"ENSG00000088340"	"ENST00000431615"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/5995"	""	""	""	""	"rs11476717"	"1"	NA	-1	"FER1L4"	"HGNC"	15801	"unitary_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"35/44"	""	"-:0.1344"	"-:0.1717"	"-:0.1138"	NA	"-:0.0804"	"-:0.0865"	"-:0.2035"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"355f9238-2764-11e6-92b9-0b42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"1602"	"RBM39"	9584	"mskcc.org"	"GRCh37"	"20"	34319417	34319418	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs3056766"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.296+445_296+446insTT"	""	""	"ENST00000253363"	""	10	"."	6	5	"."	0	"RBM39,3_prime_UTR_variant,,ENST00000426951,;RBM39,intron_variant,,ENST00000361162,NM_184234.2,NM_004902.3;RBM39,intron_variant,,ENST00000253363,;RBM39,intron_variant,,ENST00000528062,NM_001242599.1,NM_001242600.1;RBM39,intron_variant,,ENST00000407261,;RBM39,intron_variant,,ENST00000374038,;RBM39,intron_variant,,ENST00000434927,;RBM39,upstream_gene_variant,,ENST00000448303,;RBM39,downstream_gene_variant,,ENST00000397370,;RBM39,downstream_gene_variant,,ENST00000442447,;RBM39,downstream_gene_variant,,ENST00000498280,;RBM39,downstream_gene_variant,,ENST00000487604,;RBM39,non_coding_transcript_exon_variant,,ENST00000477334,;RBM39,intron_variant,,ENST00000463004,;RBM39,intron_variant,,ENST00000403542,;RBM39,intron_variant,,ENST00000338163,;RBM39,intron_variant,,ENST00000461283,;RBM39,intron_variant,,ENST00000492779,;RBM39,intron_variant,,ENST00000429968,;RBM39,intron_variant,,ENST00000444878,;RBM39,intron_variant,,ENST00000412738,;RBM39,intron_variant,,ENST00000481037,;RBM39,intron_variant,,ENST00000416108,;RBM39,intron_variant,,ENST00000425184,;RBM39,intron_variant,,ENST00000455343,;RBM39,downstream_gene_variant,,ENST00000453310,;RBM39,downstream_gene_variant,,ENST00000433027,;RBM39,downstream_gene_variant,,ENST00000416529,;RBM39,downstream_gene_variant,,ENST00000449489,;"	"AA"	"ENSG00000131051"	"ENST00000253363"	"Transcript"	"intron_variant"	"-/2488"	"-/1593"	"-/530"	""	""	"rs3056766"	"1"	NA	-1	"RBM39"	"HGNC"	15923	"protein_coding"	"YES"	"CCDS13266.1"	"ENSP00000253363"	"Q14498"	"Q68DD9,Q5QP22,E1P5S2,B7Z4L7,B4E1M7"	"UPI0000134418"	""	NA	NA	""	"4/16"	""	"-:0.0831"	"AA:0.9932"	"AA:0.8112"	NA	"AA:0.998"	"AA:0.8241"	"AA:0.9008"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"4076940a-2764-11e6-92b9-0b42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"1603"	"NDRG3"	57446	"mskcc.org"	"GRCh37"	"20"	35315631	35315634	"+"	"Intron"	"DEL"	"ACTT"	"ACTT"	"-"	"rs66481141"	NA	"JHCCPT1"	"JHCCPN1"	"ACTT"	"ACTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.320+261_320+264delAAGT"	""	""	"ENST00000349004"	""	12	"."	7	1	"."	0	"NDRG3,intron_variant,,ENST00000373803,;NDRG3,intron_variant,,ENST00000349004,NM_032013.3;NDRG3,intron_variant,,ENST00000359675,NM_022477.3;NDRG3,intron_variant,,ENST00000373773,;NDRG3,intron_variant,,ENST00000540765,;NDRG3,intron_variant,,ENST00000422536,;"	"-"	"ENSG00000101079"	"ENST00000349004"	"Transcript"	"intron_variant"	"-/2964"	"-/1128"	"-/375"	""	""	"rs66481141"	"1"	NA	-1	"NDRG3"	"HGNC"	14462	"protein_coding"	"YES"	"CCDS13285.1"	"ENSP00000345292"	"Q9UGV2"	""	"UPI000012FEDF"	"NM_032013.3"	NA	NA	""	"5/15"	""	"ACTT:0.3419"	"-:0.5408"	"-:0.6902"	NA	"-:0.6687"	"-:0.7883"	"-:0.6493"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACACTTA"	"359784ae-2764-11e6-92b9-0b42424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"1604"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	36052977	36052978	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs11481705"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	1	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11481705"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"40ec8be2-2764-11e6-92b9-0b42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1605"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	36202825	36202826	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs56142044"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs56142044"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4874"	"A:0.4365"	"A:0.4481"	NA	"A:0.4841"	"A:0.67"	"A:0.3998"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"40efa3e0-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1606"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	37303450	37303451	"+"	"IGR"	"INS"	"-"	"-"	"TCAG"	"rs3064413"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"TCAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs3064413"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0789"	"TCAG:0.8585"	"TCAG:0.9424"	NA	"TCAG:0.999"	"TCAG:0.9076"	"TCAG:0.9243"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"413221f2-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1607"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	37888942	37888943	"+"	"IGR"	"INS"	"-"	"A"	"A"	"rs544384818"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	6	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs544384818"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"4148f15c-2764-11e6-92b9-0b42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"1608"	"ENSR00001722563"	0	"mskcc.org"	"GRCh37"	"20"	38903738	38903739	"+"	"IGR"	"DEL"	"TG"	"TG"	"-"	"rs11471054"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001722563"	""	7	"."	4	1	"."	0	""	"-"	""	"ENSR00001722563"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs11471054"	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2041"	"-:0.385"	"-:0.111"	NA	"-:0.2698"	"-:0.0974"	"-:0.0675"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATGT"	"36675828-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1609"	"ENSR00001722575"	0	"mskcc.org"	"GRCh37"	"20"	38988237	38988238	"+"	"IGR"	"INS"	"-"	"-"	"TGC"	"rs138734381"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001722575"	""	14	"."	6	2	"."	0	""	"TGC"	""	"ENSR00001722575"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs138734381"	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"TGCTGC:0.0022"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"414f8f26-2764-11e6-92b9-0b42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1610"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	39393844	39393845	"+"	"IGR"	"INS"	"-"	"-"	"TTTTGTTTTG"	"rs375123402"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"TTTTGTTTTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs375123402"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"4151928a-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1611"	"PABPC1L"	80336	"mskcc.org"	"GRCh37"	"20"	43559638	43559639	"+"	"Intron"	"INS"	"-"	"-"	"TTCCTTCCTTCCTTCC"	"rs144338158"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1239+280_1239+281insTCCTTCCTTCCTTCCT"	""	""	"ENST00000255136"	""	12	"."	5	11	"."	0	"PABPC1L,intron_variant,,ENST00000255136,NM_001124756.1;PABPC1L,intron_variant,,ENST00000537323,;PABPC1L,intron_variant,,ENST00000217073,;PABPC1L,upstream_gene_variant,,ENST00000372824,;PABPC1L,upstream_gene_variant,,ENST00000372819,;PABPC1L,downstream_gene_variant,,ENST00000217074,;PABPC1L,upstream_gene_variant,,ENST00000372826,;PABPC1L,upstream_gene_variant,,ENST00000217075,;PABPC1L,upstream_gene_variant,,ENST00000372822,;PABPC1L,intron_variant,,ENST00000490798,;PABPC1L,intron_variant,,ENST00000476056,;PABPC1L,upstream_gene_variant,,ENST00000465761,;PABPC1L,downstream_gene_variant,,ENST00000481196,;PABPC1L,upstream_gene_variant,,ENST00000489068,;PABPC1L,upstream_gene_variant,,ENST00000474208,;PABPC1L,upstream_gene_variant,,ENST00000479873,;"	"TTCCTTCCTTCCTTCC"	"ENSG00000101104"	"ENST00000255136"	"Transcript"	"intron_variant"	"-/2129"	"-/1845"	"-/614"	""	""	"rs144338158"	"1"	NA	1	"PABPC1L"	"HGNC"	15797	"protein_coding"	"YES"	"CCDS42878.1"	"ENSP00000255136"	"Q4VXU2"	"Q4VXT4"	"UPI00005190DD"	"NM_001124756.1"	NA	NA	""	"8/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"419ee4f4-2764-11e6-92b9-0b42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"1612"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	44779566	44779566	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs147259884"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147259884"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"379639d0-2764-11e6-92b9-0b42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1613"	"CDH22"	64405	"mskcc.org"	"GRCh37"	"20"	44828586	44828587	"+"	"Intron"	"INS"	"-"	"-"	"TCTTCTC"	"rs141654236"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1287-389_1287-388insGAGAAGA"	""	""	"ENST00000372262"	""	10	"."	4	1	"."	0	"CDH22,intron_variant,,ENST00000372262,;CDH22,intron_variant,,ENST00000537909,NM_021248.2;"	"TCTTCTC"	"ENSG00000149654"	"ENST00000372262"	"Transcript"	"intron_variant"	"-/3661"	"-/2487"	"-/828"	""	""	"rs141654236"	"1"	NA	-1	"CDH22"	"HGNC"	13251	"protein_coding"	"YES"	"CCDS13395.1"	"ENSP00000361336"	"Q9UJ99"	"Q49AS4"	"UPI0000126DC0"	""	NA	NA	""	"6/10"	""	"-:0.0515"	"TCTTCTC:0.997"	"TCTTCTC:0.9265"	NA	"TCTTCTC:0.9474"	"TCTTCTC:0.8857"	"TCTTCTC:0.9642"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"421b6272-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1614"	"EYA2"	2139	"mskcc.org"	"GRCh37"	"20"	45542227	45542230	"+"	"Intron"	"DEL"	"AGGG"	"AGGG"	"-"	"rs74176888"	NA	"JHCCPT1"	"JHCCPN1"	"AGGG"	"AGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-11+18604_-11+18607delGAGG"	""	""	"ENST00000327619"	""	8	"."	4	1	"."	0	"EYA2,intron_variant,,ENST00000327619,NM_005244.4;EYA2,intron_variant,,ENST00000357410,NM_172110.3;EYA2,intron_variant,,ENST00000497062,;"	"-"	"ENSG00000064655"	"ENST00000327619"	"Transcript"	"intron_variant"	"-/2702"	"-/1617"	"-/538"	""	""	"rs74176888"	"1"	NA	1	"EYA2"	"HGNC"	3520	"protein_coding"	"YES"	"CCDS13403.1"	"ENSP00000333640"	"O00167"	"O60647"	"UPI000012A3B4"	"NM_005244.4"	NA	NA	""	"1/15"	""	"-:0.4261"	"-:0.2602"	"-:0.549"	NA	"-:0.3522"	"-:0.493"	"-:0.5706"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGGGA"	"37b2387e-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1615"	"RNU6-497P"	0	"mskcc.org"	"GRCh37"	"20"	46109784	46109797	"+"	"3'Flank"	"DEL"	"TTTCTTTCTTTCTT"	"TTTCTTTCTTTCTT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TTTCTTTCTTTCTT"	"TTTCTTTCTTTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000365316"	""	10	"."	5	5	"."	0	"RNU6-497P,downstream_gene_variant,,ENST00000365316,;RPL35AP,upstream_gene_variant,,ENST00000425552,;"	"-"	"ENSG00000202186"	"ENST00000365316"	"Transcript"	"downstream_gene_variant"	"-/104"	""	""	""	""	""	"1"	"3225"	-1	"RNU6-497P"	"HGNC"	47460	"snRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTTCTTTCTTTCTTT"	"37f32794-2764-11e6-92b9-0b42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1616"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	47227594	47227595	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs11482431"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11482431"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.4225"	"T:0.4039"	"T:0.4467"	NA	"T:0.3571"	"T:0.3817"	"T:0.5399"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"4278b512-2764-11e6-92b9-0b42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1617"	"ZNFX1"	57169	"mskcc.org"	"GRCh37"	"20"	47872035	47872036	"+"	"Intron"	"INS"	"-"	"-"	"TTTC"	"rs149939274"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2804+306_2804+309dupGAAA"	""	""	"ENST00000396105"	""	12	"."	4	1	"."	0	"ZNFX1,intron_variant,,ENST00000396105,NM_021035.2;ZNFX1,intron_variant,,ENST00000371752,;ZNFX1,intron_variant,,ENST00000371754,;ZNFX1,downstream_gene_variant,,ENST00000371744,;ZNFX1,downstream_gene_variant,,ENST00000455070,;"	"TTTC"	"ENSG00000124201"	"ENST00000396105"	"Transcript"	"intron_variant"	"-/7371"	"-/5757"	"-/1918"	""	""	"rs149939274"	"1"	NA	-1	"ZNFX1"	"HGNC"	29271	"protein_coding"	"YES"	"CCDS13417.1"	"ENSP00000379412"	"Q9P2E3"	"Q5JXR5"	"UPI000012DD83"	"NM_021035.2"	NA	NA	""	"9/13"	""	"-:0.3924"	"TTTC:0.5348"	"TTTC:0.6427"	NA	"TTTC:0.5278"	"TTTC:0.7624"	"TTTC:0.6043"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"42bfa6de-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1618"	"ZFAS1"	441951	"mskcc.org"	"GRCh37"	"20"	47906898	47906898	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"rs11477127"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000450535"	""	6	"."	4	2	"."	0	"ZFAS1,downstream_gene_variant,,ENST00000450535,;ZFAS1,downstream_gene_variant,,ENST00000371743,;ZFAS1,downstream_gene_variant,,ENST00000441722,;ZFAS1,downstream_gene_variant,,ENST00000417721,;ZFAS1,downstream_gene_variant,,ENST00000458653,;ZFAS1,downstream_gene_variant,,ENST00000428008,;ZFAS1,downstream_gene_variant,,ENST00000326677,;"	"-"	"ENSG00000177410"	"ENST00000450535"	"Transcript"	"downstream_gene_variant"	"-/1075"	""	""	""	""	"rs11477127"	"1"	"1101"	1	"ZFAS1"	"HGNC"	33101	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4010"	"-:0.5045"	"-:0.6427"	NA	"-:0.5258"	"-:0.7624"	"-:0.6033"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"389fe02e-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1619"	"SNRPFP1"	0	"mskcc.org"	"GRCh37"	"20"	48345682	48345682	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"rs142057261"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000414761"	""	7	"."	4	1	"."	0	"SNRPFP1,downstream_gene_variant,,ENST00000414761,;"	"-"	"ENSG00000231878"	"ENST00000414761"	"Transcript"	"downstream_gene_variant"	"-/252"	""	""	""	""	"rs142057261"	"1"	"446"	-1	"SNRPFP1"	"HGNC"	16551	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCT"	"38b3134c-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1620"	"SNRPFP1"	0	"mskcc.org"	"GRCh37"	"20"	48345879	48345879	"+"	"3'Flank"	"DEL"	"T"	"T"	"-"	"rs145480421"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000414761"	""	29	"."	10	8	"."	0	"SNRPFP1,downstream_gene_variant,,ENST00000414761,;"	"-"	"ENSG00000231878"	"ENST00000414761"	"Transcript"	"downstream_gene_variant"	"-/252"	""	""	""	""	"rs145480421"	"1"	"249"	-1	"SNRPFP1"	"HGNC"	16551	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"38b4aee6-2764-11e6-92b9-0b42424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344827586206897	"WXS"	FALSE
"1621"	"SLC9A8"	23315	"mskcc.org"	"GRCh37"	"20"	48471099	48471100	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs3092660"	NA	"JHCCPT1"	"JHCCPN1"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.618-876_618-875delAT"	""	""	"ENST00000417961"	""	8	"."	4	2	"."	0	"SLC9A8,intron_variant,,ENST00000417961,NM_015266.2,NM_001260491.1;SLC9A8,intron_variant,,ENST00000361573,;SLC9A8,intron_variant,,ENST00000539601,;SLC9A8,intron_variant,,ENST00000541138,;"	"-"	"ENSG00000197818"	"ENST00000417961"	"Transcript"	"intron_variant"	"-/6303"	"-/1794"	"-/597"	""	""	"rs3092660"	"1"	NA	1	"SLC9A8"	"HGNC"	20728	"protein_coding"	"YES"	"CCDS58774.1"	"ENSP00000416418"	"Q9Y2E8"	"B7Z3B1,B4DIV9"	"UPI00017A7E08"	"NM_015266.2,NM_001260491.1"	NA	NA	""	"7/15"	""	"AT:0.1805"	"-:0.7897"	"-:0.8256"	NA	"-:0.8373"	"-:0.7952"	"-:0.862"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATG"	"38b8906a-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1622"	"ZFP64"	55734	"mskcc.org"	"GRCh37"	"20"	50783965	50784032	"+"	"Intron"	"DEL"	"CTACTTTGTTAACTACATTTATAGTCTGGGACTTAGGCATGTTTCCTCCCTCCCTTCCTCCCTCCCTT"	"CTACTTTGTTAACTACATTTATAGTCTGGGACTTAGGCATGTTTCCTCCCTCCCTTCCTCCCTCCCTT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CTACTTTGTTAACTACATTTATAGTCTGGGACTTAGGCATGTTTCCTCCCTCCCTTCCTCCCTCCCTT"	"CTACTTTGTTAACTACATTTATAGTCTGGGACTTAGGCATGTTTCCTCCCTCCCTTCCTCCCTCCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.287-1468_287-1401delAAGGGAGGGAGGAAGGGAGGGAGGAAACATGCCTAAGTCCCAGACTATAAATGTAGTTAACAAAGTAG"	""	""	"ENST00000216923"	""	7	"."	4	1	"."	0	"ZFP64,intron_variant,,ENST00000216923,NM_199426.1,NM_018197.2;ZFP64,intron_variant,,ENST00000371515,;ZFP64,intron_variant,,ENST00000346617,NM_022088.4;ZFP64,intron_variant,,ENST00000361387,NM_199427.2;ZFP64,intron_variant,,ENST00000371518,;ZFP64,intron_variant,,ENST00000477786,;ZFP64,intron_variant,,ENST00000461898,;"	"-"	"ENSG00000020256"	"ENST00000216923"	"Transcript"	"intron_variant"	"-/3264"	"-/2046"	"-/681"	""	""	""	"1"	NA	-1	"ZFP64"	"HGNC"	15940	"protein_coding"	"YES"	"CCDS13440.1"	"ENSP00000216923"	"Q9NPA5"	"B3KQX0"	"UPI000006D699"	"NM_199426.1,NM_018197.2"	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACTACTTTGTTAACTACATTTATAGTCTGGGACTTAGGCATGTTTCCTCCCTCCCTTCCTCCCTCCCTTC"	"3961bae6-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1623"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	52261534	52261535	"+"	"IGR"	"INS"	"-"	"-"	"AAATG"	"rs200305145"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	5	1	"."	0	""	"AAATG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200305145"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AAATG:0.0335"	"AAATG:0.0091"	"AAATG:0.0115"	NA	"AAATG:0.0109"	"AAATG:0.0328"	"AAATG:0.1063"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"433f776a-2764-11e6-92b9-0b42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1624"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	55514319	55514332	"+"	"IGR"	"DEL"	"GAAAGAAAGAAAGA"	"GAAAGAAAGAAAGA"	"AGAAAGGAAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GAAAGAAAGAAAGA"	"GAAAGAAAGAAAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	3	3	"."	0	""	"AGAAAGGAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGAAAGAAAGAAAGAA"	"3c674620-2764-11e6-92b9-0b42424a729f"	"142"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"1625"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	55514761	55514763	"+"	"IGR"	"DEL"	"AAG"	"AAG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAGA"	"39c643b2-2764-11e6-92b9-0b42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1626"	"RBM38"	55544	"mskcc.org"	"GRCh37"	"20"	55969369	55969399	"+"	"Intron"	"DEL"	"GCCTGGCTCCCAGGTGAATGGGTCCCCTGGG"	"GCCTGGCTCCCAGGTGAATGGGTCCCCTGGG"	"-"	"rs66888736"	NA	"JHCCPT1"	"JHCCPN1"	"GCCTGGCTCCCAGGTGAATGGGTCCCCTGGG"	"GCCTGGCTCCCAGGTGAATGGGTCCCCTGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.416+1004_416+1034delCCCTGGGGCCTGGCTCCCAGGTGAATGGGTC"	""	""	"ENST00000356208"	""	10	"."	4	1	"."	0	"RBM38,intron_variant,,ENST00000356208,NM_017495.5;RBM38,intron_variant,,ENST00000371219,;RBM38,intron_variant,,ENST00000440234,NM_183425.2;RP4-800J21.3,upstream_gene_variant,,ENST00000417346,;RBM38,intron_variant,,ENST00000344785,;RBM38,intron_variant,,ENST00000342690,;"	"-"	"ENSG00000132819"	"ENST00000356208"	"Transcript"	"intron_variant"	"-/2382"	"-/720"	"-/239"	""	""	"rs66888736"	"1"	NA	1	"RBM38"	"HGNC"	15818	"protein_coding"	"YES"	"CCDS46617.1"	"ENSP00000348538"	"Q9H0Z9"	"H0UI71,A6NG75"	"UPI00001C1571"	"NM_017495.5"	NA	NA	""	"3/3"	""	"GCCTGGCTCCCAGGTGAATGGGTCCCCTGGG:0.3976"	"-:0.27"	"-:0.7334"	NA	"-:0.9464"	"-:0.5924"	"-:0.6145"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"24"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGCCTGGCTCCCAGGTGAATGGGTCCCCTGGGG"	"39db3bd2-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1627"	"ZBP1"	81030	"mskcc.org"	"GRCh37"	"20"	56199143	56199143	"+"	"5'Flank"	"DEL"	"G"	"-"	"-"	"rs5842185"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371173"	""	6	"."	6	2	"."	0	"ZBP1,upstream_gene_variant,,ENST00000340462,;ZBP1,upstream_gene_variant,,ENST00000371173,NM_001160417.1,NM_030776.2;ZBP1,upstream_gene_variant,,ENST00000395822,NM_001160418.1;ZBP1,upstream_gene_variant,,ENST00000343535,;ZBP1,upstream_gene_variant,,ENST00000541799,NM_001160419.2;ZBP1,upstream_gene_variant,,ENST00000538947,;ZBP1,upstream_gene_variant,,ENST00000432548,;ZBP1,upstream_gene_variant,,ENST00000546110,;ZBP1,upstream_gene_variant,,ENST00000480037,;"	"-"	"ENSG00000124256"	"ENST00000371173"	"Transcript"	"upstream_gene_variant"	"-/2195"	"-/1290"	"-/429"	""	""	"rs5842185"	"1"	"3614"	-1	"ZBP1"	"HGNC"	16176	"protein_coding"	"YES"	"CCDS13461.1"	"ENSP00000360215"	"Q9H171"	""	"UPI000013CB5B"	"NM_001160417.1,NM_030776.2"	NA	NA	""	""	""	"G:0.2406"	"-:0.4697"	"-:0.8184"	NA	"-:0.9812"	"-:0.7614"	"-:0.8783"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"3a01df1c-2764-11e6-92b9-0b42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"1628"	"STX16"	8675	"mskcc.org"	"GRCh37"	"20"	57246478	57246479	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11481330"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.792+128dupT"	""	""	"ENST00000371141"	""	24	"."	3	8	"."	0	"STX16,intron_variant,,ENST00000371141,NM_001001433.2;STX16,intron_variant,,ENST00000355957,NM_001134773.2;STX16,intron_variant,,ENST00000361770,;STX16,intron_variant,,ENST00000371132,NM_001134772.2,NM_003763.5;STX16,intron_variant,,ENST00000358029,;STX16,intron_variant,,ENST00000359617,NM_001204868.1;STX16,intron_variant,,ENST00000361830,;STX16,intron_variant,,ENST00000438253,;STX16,downstream_gene_variant,,ENST00000312283,;STX16,downstream_gene_variant,,ENST00000412911,;STX16,downstream_gene_variant,,ENST00000458280,;STX16,intron_variant,,ENST00000496003,;STX16,intron_variant,,ENST00000490700,;STX16,downstream_gene_variant,,ENST00000468590,;STX16,downstream_gene_variant,,ENST00000496117,;STX16-NPEPL1,intron_variant,,ENST00000530122,;STX16,intron_variant,,ENST00000467096,;STX16,intron_variant,,ENST00000476384,;STX16,intron_variant,,ENST00000483434,;STX16,intron_variant,,ENST00000464640,;STX16,downstream_gene_variant,,ENST00000493301,;STX16,downstream_gene_variant,,ENST00000460655,;STX16-NPEPL1,upstream_gene_variant,,ENST00000413559,;"	"T"	"ENSG00000124222"	"ENST00000371141"	"Transcript"	"intron_variant"	"-/4937"	"-/978"	"-/325"	""	""	"rs11481330"	"1"	NA	1	"STX16"	"HGNC"	11431	"protein_coding"	"YES"	"CCDS13468.1"	"ENSP00000360183"	"O14662"	"F8W9Z6,B7ZBM5,B7ZBM4,B4DJX9"	"UPI0000376BCD"	"NM_001001433.2"	NA	NA	""	"7/8"	""	"T:0.1783"	"T:0.1838"	"T:0.1628"	NA	"T:0.1171"	"T:0.2217"	"T:0.2004"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"43dc6688-2764-11e6-92b9-0b42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"1629"	"CTSZ"	1522	"mskcc.org"	"GRCh37"	"20"	57582279	57582280	"+"	"5'UTR"	"INS"	"-"	"-"	"CGGCCC"	"rs200474697"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-102_-97dupGGGCCG"	""	""	"ENST00000217131"	"1/6"	14	"."	4	9	"."	0	"CTSZ,5_prime_UTR_variant,,ENST00000217131,NM_001336.3;CTSZ,non_coding_transcript_exon_variant,,ENST00000503833,;CTSZ,upstream_gene_variant,,ENST00000488395,;CTSZ,upstream_gene_variant,,ENST00000472025,;"	"CGGCCC"	"ENSG00000101160"	"ENST00000217131"	"Transcript"	"5_prime_UTR_variant"	"23-24/1495"	"-/912"	"-/303"	""	""	"rs200474697"	"1"	NA	-1	"CTSZ"	"HGNC"	2547	"protein_coding"	"YES"	"CCDS13474.1"	"ENSP00000217131"	"Q9UBR2"	""	"UPI000000D9CC"	"NM_001336.3"	NA	NA	"1/6"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"43f18aa4-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1630"	"RP5-1043L13.1"	729296	"mskcc.org"	"GRCh37"	"20"	59006470	59006470	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11086711"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.428-95972delT"	""	""	"ENST00000437035"	""	9	"."	4	3	"."	0	"RP5-1043L13.1,intron_variant,,ENST00000437035,;"	"-"	"ENSG00000228340"	"ENST00000437035"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/499"	""	""	""	""	"rs11086711"	"1"	NA	1	"RP5-1043L13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"4/4"	""	"T:0.1190"	"-:0.9153"	"-:0.9107"	NA	"-:0.9206"	"-:0.8141"	"-:0.8415"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTT"	"3aa3d0c4-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1631"	"CDH4"	1002	"mskcc.org"	"GRCh37"	"20"	59921337	59921338	"+"	"Intron"	"INS"	"-"	"-"	"GG"	"rs146409432"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.169+91347_169+91348dupGG"	""	""	"ENST00000360469"	""	9	"."	4	4	"."	0	"CDH4,intron_variant,,ENST00000360469,NM_001794.3;"	"GG"	"ENSG00000179242"	"ENST00000360469"	"Transcript"	"intron_variant"	"-/6511"	"-/2751"	"-/916"	""	""	"rs146409432"	"1"	NA	1	"CDH4"	"HGNC"	1763	"protein_coding"	"YES"	"CCDS13488.1"	"ENSP00000353656"	"P55283"	"Q8ND09"	"UPI000015FE86"	"NM_001794.3"	NA	NA	""	"2/15"	""	"GG:0.1711"	"GG:0.0129"	"GG:0.2767"	NA	"GG:0.3065"	"GG:0.175"	"GG:0.1667"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"4429bf28-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1632"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	61024289	61024292	"+"	"IGR"	"DEL"	"ACCG"	"ACCG"	"-"	"rs10536296"	NA	"JHCCPT1"	"JHCCPN1"	"ACCG"	"ACCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10536296"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCACCGA"	"3b4d6b5c-2764-11e6-92b9-0b42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1633"	"ENSR00001725644"	0	"mskcc.org"	"GRCh37"	"20"	61071670	61071671	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs111999628"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001725644"	""	7	"."	3	1	"."	0	""	"C"	""	"ENSR00001725644"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs111999628"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"449e011c-2764-11e6-92b9-0b42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1634"	"SLCO4A1"	28231	"mskcc.org"	"GRCh37"	"20"	61292373	61292374	"+"	"Intron"	"INS"	"-"	"-"	"AGCCCCC"	"rs144381587"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1010-29_1010-23dupCAGCCCC"	""	""	"ENST00000217159"	""	43	"."	4	16	"."	0	"SLCO4A1,intron_variant,,ENST00000217159,NM_016354.3;SLCO4A1,intron_variant,,ENST00000370507,;RP11-93B14.5,downstream_gene_variant,,ENST00000433126,;RP11-93B14.5,downstream_gene_variant,,ENST00000411824,;RP11-93B14.5,downstream_gene_variant,,ENST00000451648,;SLCO4A1,intron_variant,,ENST00000497209,;"	"AGCCCCC"	"ENSG00000101187"	"ENST00000217159"	"Transcript"	"intron_variant"	"-/2776"	"-/2169"	"-/722"	""	""	"rs144381587"	"1"	NA	1	"SLCO4A1"	"HGNC"	10953	"protein_coding"	"YES"	"CCDS13501.1"	"ENSP00000217159"	"Q96BD0"	""	"UPI00000557C6"	"NM_016354.3"	NA	NA	""	"4/11"	""	"-:0.0960"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	NA	"1"	"0.9186"	"0.5212"	"0.9611"	"0.9782"	"0.9964"	"0.9797"	"0.9558"	"0.9412"	NA	"common_variant"	"GGA"	"44a833da-2764-11e6-92b9-0b42424a729f"	"240"	0.9261	"29936/32324"	"84582/92078"	"1571/3014"	"2818/2932"	"2156/2204"	"546/548"	"15391/15710"	"216/226"	"7238/7690"	"PASS"	"FALSE"	0.0930232558139535	"WXS"	FALSE
"1635"	"NTSR1"	4923	"mskcc.org"	"GRCh37"	"20"	61364993	61364994	"+"	"Intron"	"INS"	"-"	"-"	"AAAG"	"rs11474338"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.715-21043_715-21042insAAGA"	""	""	"ENST00000370501"	""	9	"."	5	1	"."	0	"NTSR1,intron_variant,,ENST00000370501,NM_002531.2;RP11-93B14.4,intron_variant,,ENST00000430184,;"	"AAAG"	"ENSG00000101188"	"ENST00000370501"	"Transcript"	"intron_variant"	"-/4132"	"-/1257"	"-/418"	""	""	"rs11474338"	"1"	NA	1	"NTSR1"	"HGNC"	8039	"protein_coding"	"YES"	"CCDS13502.1"	"ENSP00000359532"	"P30989"	""	"UPI000013D6CF"	"NM_002531.2"	NA	NA	""	"1/3"	""	"AAAG:0.4858"	"AAAG:0.6346"	"AAAG:0.5014"	NA	"AAAG:0.5615"	"AAAG:0.3559"	"AAAG:0.3292"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"44ad3948-2764-11e6-92b9-0b42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"1636"	"OGFR"	11054	"mskcc.org"	"GRCh37"	"20"	61441445	61441446	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs10629509"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.399-405_399-404insTA"	""	""	"ENST00000290291"	""	10	"."	4	4	"."	0	"OGFR,intron_variant,,ENST00000370461,;OGFR,intron_variant,,ENST00000290291,NM_007346.2;OGFR,intron_variant,,ENST00000450048,;OGFR-AS1,upstream_gene_variant,,ENST00000431361,;"	"AT"	"ENSG00000060491"	"ENST00000290291"	"Transcript"	"intron_variant"	"-/2410"	"-/2034"	"-/677"	""	""	"rs10629509"	"1"	NA	1	"OGFR"	"HGNC"	15768	"protein_coding"	"YES"	"CCDS13504.1"	"ENSP00000290291"	"Q9NZT2"	"Q4VXW3"	"UPI000013F107"	"NM_007346.2"	NA	NA	""	"4/6"	""	"-:0.3506"	"AT:0.6634"	"AT:0.572"	NA	"AT:0.753"	"AT:0.5656"	"AT:0.6646"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"44c22fb0-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1637"	"RP11-305P22.9"	63930	"mskcc.org"	"GRCh37"	"20"	61647320	61647359	"+"	"Intron"	"DEL"	"CTCCCTGCCTCTCCCTGCCTCTCCCTGCCTCTCCCTGCCT"	"CTCCCTGCCTCTCCCTGCCTCTCCCTGCCTCTCCCTGCCT"	"-"	"rs755952641"	NA	"JHCCPT1"	"JHCCPN1"	"CTCCCTGCCTCTCCCTGCCTCTCCCTGCCTCTCCCTGCCT"	"CTCCCTGCCTCTCCCTGCCTCTCCCTGCCTCTCCCTGCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.91+6526_91+6565delTCCCTGCCTCTCCCTGCCTCTCCCTGCCTCTCCCTGCCTC"	""	""	"ENST00000607802"	""	9	"."	3	3	"."	0	"RP11-305P22.9,intron_variant,,ENST00000607802,;RP11-305P22.9,intron_variant,,ENST00000606208,;"	"-"	"ENSG00000272259"	"ENST00000607802"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3408"	""	""	""	""	"rs755952641"	"1"	NA	1	"RP11-305P22.9"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"31"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCTCCCTGCCTCTCCCTGCCTCTCCCTGCCTCTCCCTGCCTC"	"3b93d920-2764-11e6-92b9-0b42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1638"	"RP11-305P22.9"	63930	"mskcc.org"	"GRCh37"	"20"	61654652	61654653	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs5842414"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.91+13828dupA"	""	""	"ENST00000607802"	""	8	"."	5	1	"."	0	"RP11-305P22.9,intron_variant,,ENST00000607802,;RP11-305P22.9,intron_variant,,ENST00000606208,;"	"A"	"ENSG00000272259"	"ENST00000607802"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3408"	""	""	""	""	"rs5842414"	"1"	NA	1	"RP11-305P22.9"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"44d331f2-2764-11e6-92b9-0b42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1639"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	61820557	61820558	"+"	"IGR"	"INS"	"-"	"-"	"GATCGCCAGGAGGATGGATCGCCAGGAGGATG"	"rs571101130"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"."	4	7	"."	0	""	"GATCGCCAGGAGGATGGATCGCCAGGAGGATG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs571101130"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3574"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"44d820f4-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"1640"	"TPD52L2"	7165	"mskcc.org"	"GRCh37"	"20"	62520824	62520842	"+"	"Intron"	"DEL"	"CACTGCCCTTCCTGGTCCC"	"CACTGCCCTTCCTGGTCCC"	"-"	"rs36224634"	NA	"JHCCPT1"	"JHCCPN1"	"CACTGCCCTTCCTGGTCCC"	"CACTGCCCTTCCTGGTCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.594+268_594+286delCCCCACTGCCCTTCCTGGT"	""	""	"ENST00000217121"	""	31	"."	4	13	"."	0	"TPD52L2,intron_variant,,ENST00000217121,NM_199360.2;TPD52L2,intron_variant,,ENST00000352482,NM_199362.2;TPD52L2,intron_variant,,ENST00000351424,NM_199361.2;TPD52L2,intron_variant,,ENST00000346249,NM_001243891.1,NM_003288.3;TPD52L2,intron_variant,,ENST00000358548,NM_199363.2;TPD52L2,intron_variant,,ENST00000348257,NM_199359.2;TPD52L2,intron_variant,,ENST00000369927,NM_001243892.1;TPD52L2,intron_variant,,ENST00000474176,;"	"-"	"ENSG00000101150"	"ENST00000217121"	"Transcript"	"intron_variant"	"-/2362"	"-/690"	"-/229"	""	""	"rs36224634"	"1"	NA	1	"TPD52L2"	"HGNC"	12007	"protein_coding"	"YES"	"CCDS13542.1"	"ENSP00000217121"	"O43399"	""	"UPI000023360A"	"NM_199360.2"	NA	NA	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"35"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACACTGCCCTTCCTGGTCCCC"	"3c006626-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WXS"	FALSE
"1641"	"LINC00266-1"	140849	"mskcc.org"	"GRCh37"	"20"	62947779	62947785	"+"	"3'Flank"	"DEL"	"GCACCCA"	"GCACCCA"	"-"	"rs143676252"	NA	"JHCCPT1"	"JHCCPN1"	"GCACCCA"	"GCACCCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000425473"	""	18	"."	4	2	"."	0	"LINC00266-1,downstream_gene_variant,,ENST00000425473,;"	"-"	"ENSG00000149656"	"ENST00000425473"	"Transcript"	"downstream_gene_variant"	"-/629"	""	""	""	""	"rs143676252"	"1"	"3294"	1	"LINC00266-1"	"HGNC"	16202	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	""	""	"GCACCCA:0.2013"	"-:0.6793"	"-:0.8156"	NA	"-:0.9871"	"-:0.7833"	"-:0.7699"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCGCACCCAG"	"3c30fb06-2764-11e6-92b9-0b42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"1642"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	10776448	10776449	"+"	"IGR"	"INS"	"-"	"-"	"GGAATGGAATGGAAT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	4	"."	0	""	"GGAATGGAATGGAAT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"3de0e948-2764-11e6-9a08-0e42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1643"	"SLC25A15P4"	0	"mskcc.org"	"GRCh37"	"21"	10894837	10894838	"+"	"5'Flank"	"INS"	"-"	"-"	"TTC"	"rs112405673"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000456889"	""	30	"."	4	13	"."	0	"SLC25A15P4,upstream_gene_variant,,ENST00000456889,;"	"TTC"	"ENSG00000223925"	"ENST00000456889"	"Transcript"	"upstream_gene_variant"	"-/288"	""	""	""	""	"rs112405673"	"1"	"4244"	1	"SLC25A15P4"	"HGNC"	39845	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"3dff7ae8-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WXS"	FALSE
"1644"	"TPTE"	7179	"mskcc.org"	"GRCh37"	"21"	10990903	10990904	"+"	"5'Flank"	"INS"	"-"	"-"	"GCCCCGCCCCCTGCCTTCAACGGCCGCGCCG"	"rs765402639"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000361285"	""	14	"."	3	5	"."	0	"TPTE,5_prime_UTR_variant,,ENST00000298232,NM_199259.2;TPTE,upstream_gene_variant,,ENST00000361285,NM_199261.2;TPTE,upstream_gene_variant,,ENST00000342420,NM_199260.2;TPTE,upstream_gene_variant,,ENST00000328758,;TPTE,intron_variant,,ENST00000415664,;TPTE,upstream_gene_variant,,ENST00000447568,;"	"GCCCCGCCCCCTGCCTTCAACGGCCGCGCCG"	"ENSG00000166157"	"ENST00000361285"	"Transcript"	"upstream_gene_variant"	"-/2150"	"-/1656"	"-/551"	""	""	"rs765402639"	"1"	"21"	-1	"TPTE"	"HGNC"	12023	"protein_coding"	"YES"	"CCDS13560.2"	"ENSP00000355208"	"P56180"	""	"UPI000016A18A"	"NM_199261.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"3e02deb8-2764-11e6-9a08-0e42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"1645"	"BAGE2"	0	"mskcc.org"	"GRCh37"	"21"	11024346	11024347	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs145312403"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1713+2376dupT"	""	""	"ENST00000470054"	""	10	"."	4	3	"."	0	"TPTE,intron_variant,,ENST00000415664,;BAGE2,intron_variant,,ENST00000470054,;BAGE2,intron_variant,,ENST00000496773,;"	"A"	"ENSG00000187172"	"ENST00000470054"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1891"	""	""	""	""	"rs145312403"	"1"	NA	-1	"BAGE2"	"HGNC"	15723	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"8/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"3e16a326-2764-11e6-9a08-0e42424a729f"	"124"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1646"	"BAGE2"	0	"mskcc.org"	"GRCh37"	"21"	11032074	11032075	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1477-2358dupA"	""	""	"ENST00000470054"	""	11	"."	3	4	"."	0	"BAGE2,intron_variant,,ENST00000470054,;TPTE,upstream_gene_variant,,ENST00000415664,;BAGE2,intron_variant,,ENST00000496773,;"	"T"	"ENSG00000187172"	"ENST00000470054"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1891"	""	""	""	""	""	"1"	NA	-1	"BAGE2"	"HGNC"	15723	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"3e18bbb6-2764-11e6-9a08-0e42424a729f"	"132"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"1647"	"BAGE2"	0	"mskcc.org"	"GRCh37"	"21"	11099069	11099070	"+"	"5'Flank"	"INS"	"-"	"-"	"CTTT"	"rs374030835"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000470054"	""	24	"."	4	19	"."	0	"BAGE2,upstream_gene_variant,,ENST00000470054,;BAGE2,upstream_gene_variant,,ENST00000474011,;"	"CTTT"	"ENSG00000187172"	"ENST00000470054"	"Transcript"	"upstream_gene_variant"	"-/1891"	""	""	""	""	"rs374030835"	"1"	"144"	-1	"BAGE2"	"HGNC"	15723	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"CTTT:0.2448"	"CTTT:0.2557"	"CTTT:0.2046"	NA	"CTTT:0.2361"	"CTTT:0.2256"	"CTTT:0.2873"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"3e3400c4-2764-11e6-9a08-0e42424a729f"	"179"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"1648"	"BAGE2"	0	"mskcc.org"	"GRCh37"	"21"	11101386	11101387	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs58325875"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000470054"	""	10	"."	4	1	"."	0	"BAGE2,upstream_gene_variant,,ENST00000470054,;BAGE2,upstream_gene_variant,,ENST00000474011,;"	"G"	"ENSG00000187172"	"ENST00000470054"	"Transcript"	"upstream_gene_variant"	"-/1891"	""	""	""	""	"rs58325875"	"1"	"2461"	-1	"BAGE2"	"HGNC"	15723	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0002"	"G:1"	"G:1"	NA	"G:0.999"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"3e3df5ca-2764-11e6-9a08-0e42424a729f"	"220"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1649"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	11116486	11116487	"+"	"IGR"	"INS"	"-"	"-"	"GT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"."	4	22	"."	0	""	"GT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"3e777142-2764-11e6-9a08-0e42424a729f"	"132"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WXS"	FALSE
"1650"	"AP001347.6"	0	"mskcc.org"	"GRCh37"	"21"	15449589	15449590	"+"	"Intron"	"INS"	"-"	"-"	"AAGGAAGGAAGGAAGAAAGA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.178-6679_178-6678insGAAGGAAGGAAGAAAGAAAG"	""	""	"ENST00000428809"	""	8	"."	4	3	"."	0	"AP001347.6,intron_variant,,ENST00000428809,;AP001347.6,intron_variant,,ENST00000432621,;AP001347.6,intron_variant,,ENST00000448463,;"	"AAGGAAGGAAGGAAGAAAGA"	"ENSG00000224905"	"ENST00000428809"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1332"	""	""	""	""	""	"1"	NA	1	"AP001347.6"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"3e92dd1a-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1651"	"TMPRSS15"	5651	"mskcc.org"	"GRCh37"	"21"	19650929	19650929	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34807048"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2764+352delA"	""	""	"ENST00000284885"	""	6	"."	4	2	"."	0	"TMPRSS15,intron_variant,,ENST00000284885,NM_002772.2;"	"-"	"ENSG00000154646"	"ENST00000284885"	"Transcript"	"intron_variant"	"-/3947"	"-/3060"	"-/1019"	""	""	"rs34807048"	"1"	NA	-1	"TMPRSS15"	"HGNC"	9490	"protein_coding"	"YES"	"CCDS13571.1"	"ENSP00000284885"	"P98073"	"Q9NR95"	"UPI000013DDBE"	"NM_002772.2"	NA	NA	""	"23/24"	""	"T:0.0190"	"-:0.997"	"-:0.9654"	NA	"-:1"	"-:0.9404"	"-:0.9928"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACTT"	"35d6f72e-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1652"	"AL109763.2"	101927797	"mskcc.org"	"GRCh37"	"21"	20079305	20079321	"+"	"Intron"	"DEL"	"CCTTTTTCTTCTTCTAT"	"CCTTTTTCTTCTTCTAT"	"TCCA"	"rs756883297"	NA	"JHCCPT1"	"JHCCPN1"	"CCTTTTTCTTCTTCTAT"	"CCTTTTTCTTCTTCTAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.332+30921_332+30937delATAGAAGAAGAAAAAGGinsTGGA"	""	""	"ENST00000437492"	""	10	"."	3	1	"."	0	"AL109763.2,intron_variant,,ENST00000437492,;AL109763.2,intron_variant,,ENST00000355189,;AL109763.2,intron_variant,,ENST00000414582,;AP001537.1,upstream_gene_variant,,ENST00000408114,;"	"TCCA"	"ENSG00000224141"	"ENST00000437492"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/853"	""	""	""	""	"rs756883297"	"1"	NA	-1	"AL109763.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCCTTTTTCTTCTTCTATT"	"3cbc9a26-2764-11e6-9a08-0e42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1653"	"PPIAP22"	0	"mskcc.org"	"GRCh37"	"21"	20230689	20230690	"+"	"3'Flank"	"DEL"	"TT"	"TT"	"-"	"rs35180072"	NA	"JHCCPT1"	"JHCCPN1"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000358455"	""	9	"."	4	1	"."	0	"PPIAP22,downstream_gene_variant,,ENST00000358455,;PPIAP22,downstream_gene_variant,,ENST00000394336,;"	"-"	"ENSG00000198618"	"ENST00000358455"	"Transcript"	"downstream_gene_variant"	"-/498"	""	""	""	""	"rs35180072"	"1"	"95"	1	"PPIAP22"	"HGNC"	17236	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1302"	"-:0.2708"	"-:0.1729"	NA	"-:0.0208"	"-:0.0775"	"-:0.0767"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTT"	"35e5bd04-2764-11e6-9a08-0e42424a729f"	"197"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1654"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	21406892	21406922	"+"	"IGR"	"DEL"	"TATCTATCTATCTATCTATCTATCTATCATC"	"TATCTATCTATCTATCTATCTATCTATCATC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TATCTATCTATCTATCTATCTATCTATCATC"	"TATCTATCTATCTATCTATCTATCTATCATC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGTATCTATCTATCTATCTATCTATCTATCATCT"	"35f99324-2764-11e6-9a08-0e42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1655"	"AP000705.7"	0	"mskcc.org"	"GRCh37"	"21"	23667244	23667245	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs5842986"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.385+82122dupA"	""	""	"ENST00000444130"	""	9	"."	4	3	"."	0	"AP000705.7,intron_variant,,ENST00000444130,;"	"A"	"ENSG00000226043"	"ENST00000444130"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/435"	""	""	""	""	"rs5842986"	"1"	NA	1	"AP000705.7"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	"-:0.3872"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"3ef260e6-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1656"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	23934627	23934628	"+"	"IGR"	"INS"	"-"	"-"	"AGA"	"rs71324032"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"AGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71324032"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4056"	"AGA:0.851"	"AGA:0.5403"	NA	"AGA:0.2986"	"AGA:0.7038"	"AGA:0.4785"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"3ef426b0-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1657"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	25586889	25586893	"+"	"IGR"	"DEL"	"AAAAG"	"AAAAG"	"-"	"rs67003623"	NA	"JHCCPT1"	"JHCCPN1"	"AAAAG"	"AAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs67003623"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2001"	"-:0.1853"	"-:0.2882"	NA	"-:0.0149"	"-:0.3499"	"-:0.1943"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAAAAGA"	"362c156a-2764-11e6-9a08-0e42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"1658"	"APP"	351	"mskcc.org"	"GRCh37"	"21"	27483897	27483898	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs201994202"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.225+398dupT"	""	""	"ENST00000346798"	""	13	"."	5	6	"."	0	"APP,intron_variant,,ENST00000358918,NM_001204302.1,NM_001204301.1;APP,intron_variant,,ENST00000357903,NM_201413.2;APP,intron_variant,,ENST00000346798,NM_000484.3;APP,intron_variant,,ENST00000359726,;APP,intron_variant,,ENST00000348990,NM_001204303.1,NM_201414.2;APP,intron_variant,,ENST00000354192,NM_001136129.2;APP,intron_variant,,ENST00000440126,NM_001136016.3;APP,intron_variant,,ENST00000448388,NM_001136131.2;APP,intron_variant,,ENST00000439274,NM_001136130.2;APP,intron_variant,,ENST00000474136,;APP,downstream_gene_variant,,ENST00000466453,;APP,intron_variant,,ENST00000462267,;"	"A"	"ENSG00000142192"	"ENST00000346798"	"Transcript"	"intron_variant"	"-/3467"	"-/2313"	"-/770"	""	""	"rs201994202"	"1"	NA	-1	"APP"	"HGNC"	620	"protein_coding"	"YES"	"CCDS13576.1"	"ENSP00000284981"	"P05067"	"L7XE61,L7XCZ9,B7Z313"	"UPI000002DB1C"	"NM_000484.3"	NA	NA	""	"2/17"	""	"A:0.0627"	"A:0.0431"	"A:0.1441"	NA	"A:0.0506"	"A:0.0189"	"A:0.089"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"3f25cf3a-2764-11e6-9a08-0e42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"1659"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	28421996	28421996	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs35795582"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35795582"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.4511"	"-:0.6036"	"-:0.5908"	NA	"-:0.4752"	"-:0.5845"	"-:0.4847"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTT"	"36661d5a-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"1660"	"GRIK1"	2897	"mskcc.org"	"GRCh37"	"21"	31233626	31233627	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs71191129"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.118+78074dupA"	""	""	"ENST00000399907"	""	7	"."	6	1	"."	0	"GRIK1,intron_variant,,ENST00000399914,;GRIK1,intron_variant,,ENST00000399907,NM_000830.3;GRIK1,intron_variant,,ENST00000399909,;GRIK1,intron_variant,,ENST00000399913,;GRIK1,intron_variant,,ENST00000327783,;GRIK1,intron_variant,,ENST00000389125,NM_175611.2;GRIK1,intron_variant,,ENST00000535441,;GRIK1,intron_variant,,ENST00000309434,;GRIK1,intron_variant,,ENST00000389124,;GRIK1,intron_variant,,ENST00000472429,;"	"T"	"ENSG00000171189"	"ENST00000399907"	"Transcript"	"intron_variant"	"-/3472"	"-/2757"	"-/918"	""	""	"rs71191129"	"1"	NA	-1	"GRIK1"	"HGNC"	4579	"protein_coding"	"YES"	"CCDS42913.1"	"ENSP00000382791"	"P39086"	"Q9UNN1,Q71UA3"	"UPI000012B612"	"NM_000830.3"	NA	NA	""	"1/16"	""	"-:0.1280"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"3f835240-2764-11e6-9a08-0e42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"1661"	"AP000253.1"	0	"mskcc.org"	"GRCh37"	"21"	33026587	33026588	"+"	"RNA"	"INS"	"-"	"-"	"C"	"rs11422260"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1551dupG"	""	""	"ENST00000449339"	"3/3"	8	"."	4	1	"."	0	"AP000253.1,non_coding_transcript_exon_variant,,ENST00000449339,;"	"C"	"ENSG00000234509"	"ENST00000449339"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1551-1552/2233"	""	""	""	""	"rs11422260"	"1"	NA	-1	"AP000253.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	"3/3"	""	""	"-:0.0417"	"C:0.8502"	"C:0.9885"	NA	"C:0.999"	"C:0.999"	"C:0.999"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"3fb7944c-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1662"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	33624540	33624560	"+"	"IGR"	"DEL"	"AGAAGAAGAAGAAGGAGGAGG"	"AGAAGAAGAAGAAGGAGGAGG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AGAAGAAGAAGAAGGAGGAGG"	"AGAAGAAGAAGAAGGAGGAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAGAAGAAGAAGAAGGAGGAGGA"	"3767e832-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"1663"	"EVA1C"	59271	"mskcc.org"	"GRCh37"	"21"	33828503	33828506	"+"	"Intron"	"DEL"	"TTTT"	"TTTT"	"-"	"rs10597444"	NA	"JHCCPT1"	"JHCCPN1"	"TTTT"	"TTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.358-1402_358-1399delTTTT"	""	""	"ENST00000300255"	""	6	"."	4	1	"."	0	"EVA1C,intron_variant,,ENST00000300255,NM_058187.3;EVA1C,intron_variant,,ENST00000382699,NM_001286556.1;EVA1C,intron_variant,,ENST00000401402,;EVA1C,intron_variant,,ENST00000412833,;EVA1C,intron_variant,,ENST00000459833,;EVA1C,intron_variant,,ENST00000464037,;EVA1C,intron_variant,,ENST00000437338,;EVA1C,intron_variant,,ENST00000469079,;EVA1C,intron_variant,,ENST00000435323,;EVA1C,intron_variant,,ENST00000457807,;"	"-"	"ENSG00000166979"	"ENST00000300255"	"Transcript"	"intron_variant"	"-/1998"	"-/1326"	"-/441"	""	""	"rs10597444"	"1"	NA	1	"EVA1C"	"HGNC"	13239	"protein_coding"	"YES"	"CCDS13614.1"	"ENSP00000300255"	"P58658"	"C9JS02,B3KWG0"	"UPI00000373F4"	"NM_058187.3"	NA	NA	""	"2/7"	""	"-:0.1763"	"-:0.0802"	"-:0.2507"	NA	"-:0.2252"	"-:0.1938"	"-:0.1851"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTTG"	"3783daba-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1664"	"PAXBP1"	94104	"mskcc.org"	"GRCh37"	"21"	34133202	34133205	"+"	"Intron"	"DEL"	"GTGC"	"GTGC"	"-"	"rs202232037"	NA	"JHCCPT1"	"JHCCPN1"	"GTGC"	"GTGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.975+165_975+168delGCAC"	""	""	"ENST00000331923"	""	29	"."	4	11	"."	0	"PAXBP1,intron_variant,,ENST00000331923,NM_016631.3;PAXBP1,intron_variant,,ENST00000290178,NM_013329.3;PAXBP1,intron_variant,,ENST00000472588,;PAXBP1,intron_variant,,ENST00000443785,;PAXBP1,intron_variant,,ENST00000464256,;PAXBP1,upstream_gene_variant,,ENST00000466846,;"	"-"	"ENSG00000159086"	"ENST00000331923"	"Transcript"	"intron_variant"	"-/3995"	"-/2754"	"-/917"	""	""	"rs202232037"	"1"	NA	-1	"PAXBP1"	"HGNC"	13579	"protein_coding"	"YES"	"CCDS13619.1"	"ENSP00000328992"	"Q9Y5B6"	"Q9NZD7,Q8N6E6,Q8N2J1,B3KY25"	"UPI000012B294"	"NM_016631.3"	NA	NA	""	"5/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGTGCG"	"37af0adc-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WXS"	FALSE
"1665"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	34516664	34516665	"+"	"IGR"	"INS"	"-"	"-"	"CT"	"rs3057303"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"CT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs3057303"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CT:0.3728"	"CT:0.4221"	"CT:0.3501"	NA	"CT:0.3254"	"CT:0.328"	"CT:0.4172"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"40546222-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1666"	"IL10RB"	3588	"mskcc.org"	"GRCh37"	"21"	34660685	34660688	"+"	"Intron"	"DEL"	"CGCA"	"CGCA"	"-"	"rs144081392"	NA	"JHCCPT1"	"JHCCPN1"	"CGCA"	"CGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.804+120_804+123delGCAC"	""	""	"ENST00000290200"	""	68	"."	4	52	"."	0	"IL10RB,intron_variant,,ENST00000290200,NM_000628.4;IL10RB,intron_variant,,ENST00000493295,;IL10RB,intron_variant,,ENST00000451065,;IL10RB,intron_variant,,ENST00000422891,;IL10RB,downstream_gene_variant,,ENST00000498371,;"	"-"	"ENSG00000243646"	"ENST00000290200"	"Transcript"	"intron_variant"	"-/1963"	"-/978"	"-/325"	""	""	"rs144081392"	"1"	NA	1	"IL10RB"	"HGNC"	5965	"protein_coding"	"YES"	"CCDS13623.1"	"ENSP00000290200"	"Q08334"	""	"UPI0000072ECA"	"NM_000628.4"	NA	NA	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGCGCAC"	"37ceac98-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WXS"	FALSE
"1667"	"IFNGR2"	3460	"mskcc.org"	"GRCh37"	"21"	34782861	34782862	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs113703853"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.74-4333dupC"	""	""	"ENST00000290219"	""	10	"."	5	2	"."	0	"IFNGR2,intron_variant,,ENST00000290219,NM_005534.3;IFNGR2,intron_variant,,ENST00000381995,;IFNGR2,intron_variant,,ENST00000405436,;IFNGR2,intron_variant,,ENST00000545369,;IFNGR2,intron_variant,,ENST00000439213,;"	"C"	"ENSG00000159128"	"ENST00000290219"	"Transcript"	"intron_variant"	"-/2221"	"-/1014"	"-/337"	""	""	"rs113703853"	"1"	NA	1	"IFNGR2"	"HGNC"	5440	"protein_coding"	"YES"	"CCDS33544.1"	"ENSP00000290219"	"P38484"	"B5MCZ0,A8K881,A1Z2N6"	"UPI00001514B0"	"NM_005534.3"	NA	NA	""	"1/6"	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"4082b8e8-2764-11e6-9a08-0e42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1668"	"RCAN1"	1827	"mskcc.org"	"GRCh37"	"21"	35914729	35914730	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs11406016"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.253-18722dupC"	""	""	"ENST00000313806"	""	7	"."	5	1	"."	0	"RCAN1,intron_variant,,ENST00000487990,;RCAN1,intron_variant,,ENST00000313806,NM_004414.5;RCAN1,intron_variant,,ENST00000443408,NM_203417.1;RCAN1,intron_variant,,ENST00000399272,NM_001285389.2;RCAN1,intron_variant,,ENST00000489903,;RCAN1,intron_variant,,ENST00000463276,;"	"G"	"ENSG00000159200"	"ENST00000313806"	"Transcript"	"intron_variant"	"-/2490"	"-/759"	"-/252"	""	""	"rs11406016"	"1"	NA	-1	"RCAN1"	"HGNC"	3040	"protein_coding"	"YES"	"CCDS13637.1"	"ENSP00000320768"	"P53805"	"Q9H2A1"	"UPI00001B4EA7"	"NM_004414.5"	NA	NA	""	"1/3"	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"41377e40-2764-11e6-9a08-0e42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1669"	"RUNX1"	861	"mskcc.org"	"GRCh37"	"21"	36483012	36483013	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11451912"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-196-45644dupC"	""	""	"ENST00000475045"	""	9	"."	4	1	"."	0	"RUNX1,intron_variant,,ENST00000475045,;"	"G"	"ENSG00000159216"	"ENST00000475045"	"Transcript"	"intron_variant"	"-/1582"	"-/148"	"-/49"	""	""	"rs11451912"	"1"	NA	-1	"RUNX1"	"HGNC"	10471	"protein_coding"	""	""	"ENSP00000477072"	""	""	"UPI0003B92906"	""	NA	NA	""	"9/12"	""	"-:0.0873"	"G:0.7413"	"G:0.9625"	NA	"G:0.9891"	"G:0.9742"	"G:0.9673"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"414ab35c-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	TRUE
"1670"	"CBR3"	874	"mskcc.org"	"GRCh37"	"21"	37509798	37509813	"+"	"Intron"	"DEL"	"AAGAAAGGAAGGAAGG"	"AAGAAAGGAAGGAAGG"	"-"	"rs760700887"	NA	"JHCCPT1"	"JHCCPN1"	"AAGAAAGGAAGGAAGG"	"AAGAAAGGAAGGAAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.290-322_290-307delAAAGGAAGGAAGGAAG"	""	""	"ENST00000290354"	""	31	"."	6	12	"."	0	"CBR3,intron_variant,,ENST00000290354,NM_001236.3;CBR3-AS1,intron_variant,,ENST00000413862,;CBR3-AS1,intron_variant,,ENST00000453159,;CBR3-AS1,intron_variant,,ENST00000608641,;CBR3-AS1,intron_variant,,ENST00000608632,;CBR3-AS1,intron_variant,,ENST00000608690,;CBR3-AS1,intron_variant,,ENST00000608622,;CBR3-AS1,downstream_gene_variant,,ENST00000427491,;CBR3-AS1,downstream_gene_variant,,ENST00000432988,;CBR3-AS1,upstream_gene_variant,,ENST00000609192,;RPS9P1,downstream_gene_variant,,ENST00000419943,;"	"-"	"ENSG00000159231"	"ENST00000290354"	"Transcript"	"intron_variant"	"-/1169"	"-/834"	"-/277"	""	""	"rs760700887"	"1"	NA	1	"CBR3"	"HGNC"	1549	"protein_coding"	"YES"	"CCDS13642.1"	"ENSP00000290354"	"O75828"	""	"UPI000004C785"	"NM_001236.3"	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAGAAAGGAAGGAAGGA"	"3873dace-2764-11e6-9a08-0e42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193548387096774	"WXS"	FALSE
"1671"	"DOPEY2"	9980	"mskcc.org"	"GRCh37"	"21"	37619141	37619142	"+"	"Intron"	"INS"	"-"	"-"	"TTATG"	"rs377281569"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4697+216_4697+220dupGTTAT"	""	""	"ENST00000399151"	""	26	"."	3	15	"."	0	"DOPEY2,intron_variant,,ENST00000399151,NM_005128.2;DOPEY2,intron_variant,,ENST00000463668,;"	"TTATG"	"ENSG00000142197"	"ENST00000399151"	"Transcript"	"intron_variant"	"-/7685"	"-/6897"	"-/2298"	""	""	"rs377281569"	"1"	NA	1	"DOPEY2"	"HGNC"	1291	"protein_coding"	"YES"	"CCDS13643.1"	"ENSP00000382104"	"Q9Y3R5"	"F8W8U9"	"UPI000013D876"	"NM_005128.2"	NA	NA	""	"19/36"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"54"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"4168a2fe-2764-11e6-9a08-0e42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WXS"	FALSE
"1672"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	38016355	38016355	"+"	"IGR"	"DEL"	"C"	"-"	"-"	"rs34547252"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34547252"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2708"	"-:0.264"	"-:0.1931"	NA	"-:0.1667"	"-:0.3429"	"-:0.3681"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"38c70fd2-2764-11e6-9a08-0e42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1673"	"TTC3"	7267	"mskcc.org"	"GRCh37"	"21"	38532060	38532087	"+"	"Intron"	"DEL"	"GATCACTTGAATCTTACGTTCTAATCTG"	"GATCACTTGAATCTTACGTTCTAATCTG"	"ATCACTTGAAATCTTACGTTCTAATCT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GATCACTTGAATCTTACGTTCTAATCTG"	"GATCACTTGAATCTTACGTTCTAATCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3039+13_3039+40delGATCACTTGAATCTTACGTTCTAATCTGinsATCACTTGAAATCTTACGTTCTAATCT"	""	""	"ENST00000399017"	""	103	"."	7	54	"."	0	"TTC3,intron_variant,,ENST00000399017,NM_003316.3;TTC3,intron_variant,,ENST00000354749,;TTC3,intron_variant,,ENST00000355666,NM_001001894.1;TTC3,intron_variant,,ENST00000418766,;TTC3,intron_variant,,ENST00000438055,;TTC3,intron_variant,,ENST00000411496,;TTC3,intron_variant,,ENST00000479930,;TTC3,intron_variant,,ENST00000485402,;TTC3,intron_variant,,ENST00000487711,;TTC3,intron_variant,,ENST00000469939,;TTC3,intron_variant,,ENST00000476784,;TTC3,intron_variant,,ENST00000472398,;"	"ATCACTTGAAATCTTACGTTCTAATCT"	"ENSG00000182670"	"ENST00000399017"	"Transcript"	"intron_variant"	"-/10363"	"-/6078"	"-/2025"	""	""	""	"1"	NA	1	"TTC3"	"HGNC"	12393	"protein_coding"	"YES"	"CCDS13651.1"	"ENSP00000381981"	"P53804"	"E9PMS7,E9PMP8"	"UPI00001B043E"	"NM_003316.3"	NA	NA	""	"29/45"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGATCACTTGAATCTTACGTTCTAATCTGA"	"3d019f86-2764-11e6-9a08-0e42424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0679611650485437	"WXS"	FALSE
"1674"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	38671518	38671519	"+"	"IGR"	"INS"	"-"	"C"	"C"	"rs34869459"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	6	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34869459"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"41f3ba42-2764-11e6-9a08-0e42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"1675"	"KCNJ6"	3763	"mskcc.org"	"GRCh37"	"21"	39084930	39085069	"+"	"Intron"	"DEL"	"TTCCCTCCCTCCTCCCCTTCTCCTCCTCTCCTTCCTCCCTTTCTCTTCCCTCCTTCCTCCCCTTCTCCTCCTCTCCTTCCTCCCTTTCTCTTCCCTCCTTCCTCCCCTTCTCCTCCTCTCCTTCCTCCCCTTCCTCCTCC"	"TTCCCTCCCTCCTCCCCTTCTCCTCCTCTCCTTCCTCCCTTTCTCTTCCCTCCTTCCTCCCCTTCTCCTCCTCTCCTTCCTCCCTTTCTCTTCCCTCCTTCCTCCCCTTCTCCTCCTCTCCTTCCTCCCCTTCCTCCTCC"	"CCTTTCTCTTCCCT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TTCCCTCCCTCCTCCCCTTCTCCTCCTCTCCTTCCTCCCTTTCTCTTCCCTCCTTCCTCCCCTTCTCCTCCTCTCCTTCCTCCCTTTCTCTTCCCTCCTTCCTCCCCTTCTCCTCCTCTCCTTCCTCCCCTTCCTCCTCC"	"TTCCCTCCCTCCTCCCCTTCTCCTCCTCTCCTTCCTCCCTTTCTCTTCCCTCCTTCCTCCCCTTCTCCTCCTCTCCTTCCTCCCTTTCTCTTCCCTCCTTCCTCCCCTTCTCCTCCTCTCCTTCCTCCCCTTCCTCCTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.946+1445_946+1584delGGAGGAGGAAGGGGAGGAAGGAGAGGAGGAGAAGGGGAGGAAGGAGGGAAGAGAAAGGGAGGAAGGAGAGGAGGAGAAGGGGAGGAAGGAGGGAAGAGAAAGGGAGGAAGGAGAGGAGGAGAAGGGGAGGAGGGAGGGAAinsAGGGAAGAGAAAGG"	""	""	"ENST00000609713"	""	12	"."	3	9	"."	0	"KCNJ6,intron_variant,,ENST00000609713,NM_002240.3;KCNJ6,intron_variant,,ENST00000288309,;KCNJ6-IT1,downstream_gene_variant,,ENST00000435001,;"	"CCTTTCTCTTCCCT"	"ENSG00000157542"	"ENST00000609713"	"Transcript"	"intron_variant"	"-/19645"	"-/1272"	"-/423"	""	""	""	"1"	NA	-1	"KCNJ6"	"HGNC"	6267	"protein_coding"	"YES"	"CCDS42927.1"	"ENSP00000477437"	""	""	"UPI0000000B10"	"NM_002240.3"	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTTCCCTCCCTCCTCCCCTTCTCCTCCTCTCCTTCCTCCCTTTCTCTTCCCTCCTTCCTCCCCTTCTCCTCCTCTCCTTCCTCCCTTTCTCTTCCCTCCTTCCTCCCCTTCTCCTCCTCTCCTTCCTCCCCTTCCTCCTCCC"	"3d02b3c6-2764-11e6-9a08-0e42424a729f"	"82"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1676"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	40425661	40425668	"+"	"IGR"	"DEL"	"CATCTGTT"	"CATCTGTT"	"-"	"rs112545664"	NA	"JHCCPT1"	"JHCCPN1"	"CATCTGTT"	"CATCTGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112545664"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4511"	"-:0.5673"	"-:0.3516"	NA	"-:0.4484"	"-:0.3926"	"-:0.4274"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCATCTGTTC"	"394d8a62-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1677"	"TMPRSS2"	7113	"mskcc.org"	"GRCh37"	"21"	42890105	42890105	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs35304539"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-57+11795delG"	""	""	"ENST00000454499"	""	6	"."	4	2	"."	0	"TMPRSS2,intron_variant,,ENST00000454499,;"	"-"	"ENSG00000184012"	"ENST00000454499"	"Transcript"	"intron_variant"	"-/1901"	"-/1467"	"-/489"	""	""	"rs35304539"	"1"	NA	-1	"TMPRSS2"	"HGNC"	11876	"protein_coding"	""	""	"ENSP00000389006"	""	"C9JKZ3,C9JB05"	"UPI000198C841"	""	NA	NA	""	"2/13"	""	"-:0.2742"	"-:0.4244"	"-:0.2752"	NA	"-:0.0188"	"-:0.3996"	"-:0.2045"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCC"	"39e16746-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	TRUE
"1678"	"UMODL1"	89766	"mskcc.org"	"GRCh37"	"21"	43550724	43550725	"+"	"Intron"	"INS"	"-"	"GTGA"	"GTGA"	"rs10671342"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4159+819_4159+820insGAGT"	""	""	"ENST00000408989"	""	7	"."	6	1	"."	0	"UMODL1,intron_variant,,ENST00000400424,NM_001199528.2;UMODL1,intron_variant,,ENST00000400427,NM_001199527.1;UMODL1,intron_variant,,ENST00000408989,NM_173568.3;UMODL1,intron_variant,,ENST00000408910,NM_001004416.2;UMODL1,intron_variant,,ENST00000400423,;UMODL1,intron_variant,,ENST00000484712,;UMODL1,downstream_gene_variant,,ENST00000484174,;"	"GTGA"	"ENSG00000177398"	"ENST00000408989"	"Transcript"	"intron_variant"	"-/5262"	"-/4341"	"-/1446"	""	""	"rs10671342"	"1"	NA	1	"UMODL1"	"HGNC"	12560	"protein_coding"	"YES"	"CCDS42935.1"	"ENSP00000386126"	"Q5DID0"	"Q6L9N9"	"UPI0000D6254B"	"NM_173568.3"	NA	NA	""	"20/21"	""	"-:0.2079"	"GTGA:0.7194"	"GTGA:0.8862"	NA	"GTGA:0.746"	"GTGA:0.9085"	"GTGA:0.7515"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"42e23b86-2764-11e6-9a08-0e42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"1679"	"SLC37A1"	54020	"mskcc.org"	"GRCh37"	"21"	43994125	43994126	"+"	"Intron"	"INS"	"-"	"CCT"	"CCT"	"rs10692602"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1424-802_1424-801insCTC"	""	""	"ENST00000352133"	""	6	"."	5	1	"."	0	"SLC37A1,intron_variant,,ENST00000352133,;SLC37A1,intron_variant,,ENST00000398341,NM_018964.3;SLC37A1,intron_variant,,ENST00000496416,;"	"CCT"	"ENSG00000160190"	"ENST00000352133"	"Transcript"	"intron_variant"	"-/3664"	"-/1602"	"-/533"	""	""	"rs10692602"	"1"	NA	1	"SLC37A1"	"HGNC"	11024	"protein_coding"	"YES"	"CCDS13689.1"	"ENSP00000344648"	"P57057"	""	"UPI00001AEB81"	""	NA	NA	""	"17/19"	""	"-:0.3466"	"CCT:0.9017"	"CCT:0.8242"	NA	"CCT:0.1855"	"CCT:0.7187"	"CCT:0.6115"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"43108996-2764-11e6-9a08-0e42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1680"	"PDE9A"	5152	"mskcc.org"	"GRCh37"	"21"	44189669	44189674	"+"	"Intron"	"DEL"	"CACACA"	"CACACA"	"-"	"rs140679113"	NA	"JHCCPT1"	"JHCCPN1"	"CACACA"	"CACACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1590+416_1590+421delCACACA"	""	""	"ENST00000291539"	""	14	"."	5	2	"."	0	"PDE9A,intron_variant,,ENST00000291539,NM_002606.2;PDE9A,intron_variant,,ENST00000398225,NM_001001585.1,NM_001001582.1;PDE9A,intron_variant,,ENST00000328862,NM_001001583.1;PDE9A,intron_variant,,ENST00000398232,NM_001001581.1,NM_001001573.1;PDE9A,intron_variant,,ENST00000335512,NM_001001567.1;PDE9A,intron_variant,,ENST00000380328,NM_001001570.1;PDE9A,intron_variant,,ENST00000398234,NM_001001571.1;PDE9A,intron_variant,,ENST00000539837,;PDE9A,intron_variant,,ENST00000398236,NM_001001574.1,NM_001001579.1;PDE9A,intron_variant,,ENST00000335440,NM_001001578.1;PDE9A,intron_variant,,ENST00000398229,NM_001001577.1;PDE9A,intron_variant,,ENST00000398224,NM_001001568.1,NM_001001584.2;PDE9A,intron_variant,,ENST00000349112,NM_001001569.1,NM_001001576.1;PDE9A,intron_variant,,ENST00000398227,NM_001001580.1,NM_001001572.1,NM_001001575.1;PDE9A,intron_variant,,ENST00000470987,;PDE9A,intron_variant,,ENST00000497805,;PDE9A,intron_variant,,ENST00000490803,;PDE9A,intron_variant,,ENST00000462571,;PDE9A,intron_variant,,ENST00000468805,;PDE9A,intron_variant,,ENST00000495343,;PDE9A,intron_variant,,ENST00000467403,;PDE9A,intron_variant,,ENST00000495521,;PDE9A,intron_variant,,ENST00000460989,;PDE9A,downstream_gene_variant,,ENST00000466472,;PDE9A,intron_variant,,ENST00000489319,;"	"-"	"ENSG00000160191"	"ENST00000291539"	"Transcript"	"intron_variant"	"-/2058"	"-/1782"	"-/593"	""	""	"rs140679113"	"1"	NA	1	"PDE9A"	"HGNC"	8795	"protein_coding"	"YES"	"CCDS13690.1"	"ENSP00000291539"	"O76083"	""	"UPI0000127C02"	"NM_002606.2"	NA	NA	""	"17/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"12"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCACACAC"	"3a63209c-2764-11e6-9a08-0e42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"1681"	"TRAPPC10"	7109	"mskcc.org"	"GRCh37"	"21"	45527045	45527045	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"rs71197878"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000291574"	""	10	"."	5	5	"."	0	"TRAPPC10,downstream_gene_variant,,ENST00000291574,NM_003274.4;PWP2,upstream_gene_variant,,ENST00000291576,NM_005049.2;PWP2,upstream_gene_variant,,ENST00000456705,;TRAPPC10,downstream_gene_variant,,ENST00000459741,;TRAPPC10,downstream_gene_variant,,ENST00000422875,;TRAPPC10,downstream_gene_variant,,ENST00000468864,;"	"-"	"ENSG00000160218"	"ENST00000291574"	"Transcript"	"downstream_gene_variant"	"-/6976"	"-/3780"	"-/1259"	""	""	"rs71197878"	"1"	"612"	1	"TRAPPC10"	"HGNC"	11868	"protein_coding"	"YES"	"CCDS13704.1"	"ENSP00000291574"	"P48553"	"Q76NH5"	"UPI0000129E26"	"NM_003274.4"	NA	NA	""	""	""	"C:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCC"	"3aca4cc2-2764-11e6-9a08-0e42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1682"	"AP001058.3"	0	"mskcc.org"	"GRCh37"	"21"	45632082	45632083	"+"	"5'Flank"	"INS"	"-"	"TGAA"	"TGAA"	"rs150240279"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000423967"	""	9	"."	7	2	"."	0	"AP001058.3,upstream_gene_variant,,ENST00000423967,;"	"TGAA"	"ENSG00000232698"	"ENST00000423967"	"Transcript"	"upstream_gene_variant"	"-/463"	""	""	""	""	"rs150240279"	"1"	"4800"	-1	"AP001058.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3341"	"TGAA:0.882"	"TGAA:0.4063"	NA	"TGAA:0.5417"	"TGAA:0.6183"	"TGAA:0.7352"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"437f1b5e-2764-11e6-9a08-0e42424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	FALSE
"1683"	"KRTAP10-9"	386676	"mskcc.org"	"GRCh37"	"21"	46048138	46048143	"+"	"3'UTR"	"DEL"	"CGGGCA"	"CGGGCA"	"GGGCG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CGGGCA"	"CGGGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*171_*176delCGGGCAinsGGGCG"	""	""	"ENST00000397911"	"1/1"	37	"."	7	13	"."	0	"KRTAP10-9,3_prime_UTR_variant,,ENST00000397911,NM_198690.2;TSPEAR,intron_variant,,ENST00000323084,NM_001272037.1,NM_144991.2;KRTAP10-9,non_coding_transcript_exon_variant,,ENST00000484861,;"	"GGGCG"	"ENSG00000221837"	"ENST00000397911"	"Transcript"	"3_prime_UTR_variant"	"1099-1104/1255"	"-/879"	"-/292"	""	""	""	"1"	NA	1	"KRTAP10-9"	"HGNC"	22971	"protein_coding"	"YES"	"CCDS42961.1"	"ENSP00000381009"	"P60411"	""	"UPI000036709D"	"NM_198690.2"	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCGGGCAG"	"3d0f78ae-2764-11e6-9a08-0e42424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189189189189189	"WXS"	FALSE
"1684"	"KRTAP10-10"	353333	"mskcc.org"	"GRCh37"	"21"	46057626	46057640	"+"	"In_Frame_Del"	"DEL"	"GTCTGCTGTGTGCCC"	"GTCTGCTGTGTGCCC"	"-"	"rs782171437"	NA	"JHCCPT1"	"JHCCPN1"	"GTCTGCTGTGTGCCC"	"GTCTGCTGTGTGCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.300_314delTGTGCCCGTCTGCTG"	"p.Cys105_Cys109del"	"p.C105_C109del"	"ENST00000380095"	"1/1"	120	"."	10	56	"."	0	"KRTAP10-10,inframe_deletion,p.Cys105_Cys109del,ENST00000380095,NM_181688.1;TSPEAR,intron_variant,,ENST00000323084,NM_001272037.1,NM_144991.2;"	"-"	"ENSG00000221859"	"ENST00000380095"	"Transcript"	"inframe_deletion"	"354-368/1098"	"292-306/756"	"98-102/251"	"VCCVP/-"	"GTCTGCTGTGTGCCC/-"	"rs782171437"	"1"	NA	1	"KRTAP10-10"	"HGNC"	22972	"protein_coding"	"YES"	"CCDS33585.1"	"ENSP00000369438"	"P60014"	""	"UPI00001A95B8"	"NM_181688.1"	NA	NA	"1/1"	""	"Pfam_domain:PF13885,hmmpanther:PTHR23262,hmmpanther:PTHR23262:SF40,Low_complexity_(Seg):seg"	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODERATE"	"1"	"deletion"	NA	"8"	NA	"1"	"0.1902"	"0.1343"	"0.2436"	"0.01849"	"0.2393"	"0.2049"	"0.2227"	"0.2186"	NA	"common_variant"	"CTGTCTGCTGTGTGCCCG"	"3b37b500-2764-11e6-9a08-0e42424a729f"	"588"	0.191	"6011/31464"	"6015/31618"	"295/2196"	"419/1720"	"52/2812"	"427/1784"	"2997/14628"	"53/238"	"1768/8086"	"PASS"	"FALSE"	0.0833333333333333	"WXS"	FALSE
"1685"	"TSPEAR"	54084	"mskcc.org"	"GRCh37"	"21"	46071000	46071001	"+"	"Intron"	"INS"	"-"	"-"	"CAC"	"rs113937453"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.82+60345_82+60347dupGTG"	""	""	"ENST00000323084"	""	7	"."	4	1	"."	0	"TSPEAR,intron_variant,,ENST00000323084,NM_001272037.1,NM_144991.2;KRTAP10-11,downstream_gene_variant,,ENST00000334670,NM_198692.2;KRTAP12-4,downstream_gene_variant,,ENST00000391618,NM_198698.1;"	"CAC"	"ENSG00000175894"	"ENST00000323084"	"Transcript"	"intron_variant"	"-/3967"	"-/2010"	"-/669"	""	""	"rs113937453"	"1"	NA	-1	"TSPEAR"	"HGNC"	1268	"protein_coding"	"YES"	"CCDS13712.1"	"ENSP00000321987"	"Q8WU66"	""	"UPI0000137746"	"NM_001272037.1,NM_144991.2"	NA	NA	""	"1/11"	""	"CAC:0.2364"	"CAC:0.4697"	"CAC:0.1916"	NA	"CAC:0.0466"	"CAC:0.1909"	"CAC:0.1953"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"43b782a0-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1686"	"FAM207A"	85395	"mskcc.org"	"GRCh37"	"21"	46392875	46392876	"+"	"Intron"	"INS"	"-"	"-"	"TCAGGCAGTTGCACTGCTTGTCCGGGGCGGTCACAGGACGA"	"rs149625472"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.501-197_501-196insATCAGGCAGTTGCACTGCTTGTCCGGGGCGGTCACAGGACG"	""	""	"ENST00000291634"	""	18	"."	3	9	"."	0	"FAM207A,intron_variant,,ENST00000291634,NM_058190.2;FAM207A,intron_variant,,ENST00000397826,;FAM207A,downstream_gene_variant,,ENST00000458015,;FAM207A,intron_variant,,ENST00000479127,;FAM207A,upstream_gene_variant,,ENST00000485207,;"	"TCAGGCAGTTGCACTGCTTGTCCGGGGCGGTCACAGGACGA"	"ENSG00000160256"	"ENST00000291634"	"Transcript"	"intron_variant"	"-/927"	"-/693"	"-/230"	""	""	"rs149625472"	"1"	NA	1	"FAM207A"	"HGNC"	15811	"protein_coding"	"YES"	"CCDS13718.1"	"ENSP00000291634"	"Q9NSI2"	""	"UPI00001286B9"	"NM_058190.2"	NA	NA	""	"4/5"	""	"TCAGGCAGTTGCACTGCTTGTCCGGGGCGGTCACAGGACGA:0.4453"	"TCAGGCAGTTGCACTGCTTGTCCGGGGCGGTCACAGGACGA:0.4244"	"TCAGGCAGTTGCACTGCTTGTCCGGGGCGGTCACAGGACGA:0.4063"	NA	"TCAGGCAGTTGCACTGCTTGTCCGGGGCGGTCACAGGACGA:0.4514"	"TCAGGCAGTTGCACTGCTTGTCCGGGGCGGTCACAGGACGA:0.4433"	"TCAGGCAGTTGCACTGCTTGTCCGGGGCGGTCACAGGACGA:0.4969"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"40"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"43d1d344-2764-11e6-9a08-0e42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"1687"	"SLC19A1"	6573	"mskcc.org"	"GRCh37"	"21"	46934406	46934407	"+"	"3'UTR"	"INS"	"-"	"-"	"TGCTGAGC"	"rs143596002"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1158_*1165dupGCTCAGCA"	""	""	"ENST00000311124"	"6/6"	8	"."	4	2	"."	0	"SLC19A1,3_prime_UTR_variant,,ENST00000311124,NM_194255.2;SLC19A1,intron_variant,,ENST00000417954,;SLC19A1,intron_variant,,ENST00000567670,;COL18A1,downstream_gene_variant,,ENST00000359759,;COL18A1,downstream_gene_variant,,ENST00000355480,NM_030582.3;COL18A1,downstream_gene_variant,,ENST00000400337,NM_130445.2;COL18A1,downstream_gene_variant,,ENST00000342220,;SLC19A1,downstream_gene_variant,,ENST00000380010,NM_001205206.1;SLC19A1,downstream_gene_variant,,ENST00000485649,NM_001205207.1;COL18A1,downstream_gene_variant,,ENST00000423214,;SLC19A1,intron_variant,,ENST00000468508,;SLC19A1,intron_variant,,ENST00000460174,;COL18A1,downstream_gene_variant,,ENST00000473212,;"	"TGCTGAGC"	"ENSG00000173638"	"ENST00000311124"	"Transcript"	"3_prime_UTR_variant"	"3094-3095/3811"	"-/1776"	"-/591"	""	""	"rs143596002"	"1"	NA	-1	"SLC19A1"	"HGNC"	10937	"protein_coding"	"YES"	"CCDS13725.1"	"ENSP00000308895"	"P41440"	"E9PIL5,D3DSM6,C9JKP4,C9J8K6"	"UPI000012AA0F"	"NM_194255.2"	NA	NA	"6/6"	""	""	"-:0.4673"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"440a5624-2764-11e6-9a08-0e42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1688"	"DIP2A"	23181	"mskcc.org"	"GRCh37"	"21"	47915093	47915097	"+"	"Intron"	"DEL"	"TTCTC"	"TTCTC"	"-"	"rs373831760"	NA	"JHCCPT1"	"JHCCPN1"	"TTCTC"	"TTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.284-1749_284-1745delCTTCT"	""	""	"ENST00000417564"	""	9	"."	5	2	"."	0	"DIP2A,intron_variant,,ENST00000318711,NM_001146116.1,NM_015151.3;DIP2A,intron_variant,,ENST00000400274,;DIP2A,intron_variant,,ENST00000417564,;DIP2A,intron_variant,,ENST00000427143,NM_001146114.1;DIP2A,intron_variant,,ENST00000457905,NM_206889.2;DIP2A,intron_variant,,ENST00000435722,NM_206890.2,NM_206891.2;DIP2A,intron_variant,,ENST00000466639,NM_001146115.1;"	"-"	"ENSG00000160305"	"ENST00000417564"	"Transcript"	"intron_variant"	"-/6967"	"-/4716"	"-/1571"	""	""	"rs373831760"	"1"	NA	1	"DIP2A"	"HGNC"	17217	"protein_coding"	"YES"	"CCDS46655.1"	"ENSP00000392066"	"Q14689"	"Q9NSX6,Q96NX2"	"UPI00001B2E47"	""	NA	NA	""	"3/37"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"59"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTCTCT"	"3c2c1dde-2764-11e6-9a08-0e42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"1689"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	16300054	16300055	"+"	"IGR"	"INS"	"-"	"-"	"TC"	"rs370960681"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	4	2	"."	0	""	"TC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs370960681"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"36320f74-2764-11e6-88b6-0d42424a729f"	"160"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1690"	"HIRA"	7290	"mskcc.org"	"GRCh37"	"22"	19394388	19394389	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs112414295"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.302+318dupT"	""	""	"ENST00000263208"	""	12	"."	3	6	"."	0	"HIRA,intron_variant,,ENST00000263208,NM_003325.3;HIRA,intron_variant,,ENST00000541063,;HIRA,intron_variant,,ENST00000340170,;HIRA,intron_variant,,ENST00000546308,;HIRA,intron_variant,,ENST00000464189,;C22orf39,intron_variant,,ENST00000509549,;HIRA,intron_variant,,ENST00000452818,;"	"A"	"ENSG00000100084"	"ENST00000263208"	"Transcript"	"intron_variant"	"-/4053"	"-/3054"	"-/1017"	""	""	"rs112414295"	"1"	NA	-1	"HIRA"	"HGNC"	4916	"protein_coding"	"YES"	"CCDS13759.1"	"ENSP00000263208"	"P54198"	"F5H4M2"	"UPI0000074373"	"NM_003325.3"	NA	NA	""	"4/24"	""	"A:0.0164"	"A:0.0416"	"A:0.013"	NA	"A:0"	"A:0.004"	"A:0.0143"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"368c27c0-2764-11e6-88b6-0d42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1691"	"DGCR8"	54487	"mskcc.org"	"GRCh37"	"22"	20067929	20067930	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs373154640"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-278+26dupC"	""	""	"ENST00000351989"	""	6	"."	5	2	"."	0	"DGCR8,intron_variant,,ENST00000351989,NM_022720.6;DGCR8,intron_variant,,ENST00000383024,NM_001190326.1;DGCR8,upstream_gene_variant,,ENST00000457069,;"	"C"	"ENSG00000128191"	"ENST00000351989"	"Transcript"	"intron_variant"	"-/4514"	"-/2322"	"-/773"	""	""	"rs373154640"	"1"	NA	1	"DGCR8"	"HGNC"	2847	"protein_coding"	"YES"	"CCDS13773.1"	"ENSP00000263209"	"Q8WYQ5"	"C9JSD5"	"UPI0000129225"	"NM_022720.6"	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"36ae3658-2764-11e6-88b6-0d42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1692"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	20212447	20212448	"+"	"IGR"	"INS"	"-"	"-"	"CACACACATGCACACATGTGTAGCACGCT"	"rs148193105"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"CACACACATGCACACATGTGTAGCACGCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148193105"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1458"	"CACACACATGCACACATGTGTAGCACGCT:0.5908"	"CACACACATGCACACATGTGTAGCACGCT:0.9467"	NA	"CACACACATGCACACATGTGTAGCACGCT:0.9504"	"CACACACATGCACACATGTGTAGCACGCT:0.9742"	"CACACACATGCACACATGTGTAGCACGCT:0.9223"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"36b76e9e-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1693"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	20215376	20215377	"+"	"IGR"	"INS"	"-"	"-"	"TGTC"	"rs113169311"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	1	"."	0	""	"TGTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113169311"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3117"	"TGTC:0.6755"	"TGTC:0.6455"	NA	"TGTC:0.6389"	"TGTC:0.8002"	"TGTC:0.6718"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"36b7f58a-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1694"	"ZNF280B"	140883	"mskcc.org"	"GRCh37"	"22"	22844003	22844004	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs113718398"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-68-213dupT"	""	""	"ENST00000360412"	""	12	"."	6	5	"."	0	"ZNF280B,intron_variant,,ENST00000360412,NM_080764.2;ZNF280B,intron_variant,,ENST00000406426,;"	"A"	"ENSG00000198477"	"ENST00000360412"	"Transcript"	"intron_variant"	"-/5726"	"-/1632"	"-/543"	""	""	"rs113718398"	"1"	NA	-1	"ZNF280B"	"HGNC"	23022	"protein_coding"	"YES"	"CCDS13799.1"	"ENSP00000353586"	"Q86YH2"	""	"UPI000013FF86"	"NM_080764.2"	NA	NA	""	"3/3"	""	"-:0.3072"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"36fec3f2-2764-11e6-88b6-0d42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1695"	"GNAZ"	2781	"mskcc.org"	"GRCh37"	"22"	23412786	23412787	"+"	"Intron"	"INS"	"-"	"-"	"GCCGCTGA"	"rs201366455"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-450+34_-450+41dupGCTGAGCC"	""	""	"ENST00000248996"	""	9	"."	4	3	"."	0	"GNAZ,intron_variant,,ENST00000248996,NM_002073.2;RTDR1,intron_variant,,ENST00000216036,NM_014433.2;GNAZ,non_coding_transcript_exon_variant,,ENST00000492538,;"	"GCCGCTGA"	"ENSG00000128266"	"ENST00000248996"	"Transcript"	"intron_variant"	"-/3340"	"-/1068"	"-/355"	""	""	"rs201366455"	"1"	NA	1	"GNAZ"	"HGNC"	4395	"protein_coding"	"YES"	"CCDS13804.1"	"ENSP00000248996"	"P19086"	""	"UPI0000001249"	"NM_002073.2"	NA	NA	""	"1/2"	""	"GCCGCTGA:0.0917"	"GCCGCTGA:0.0348"	"GCCGCTGA:0.0994"	NA	"GCCGCTGA:0.0427"	"GCCGCTGA:0.1481"	"GCCGCTGA:0.1554"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"11"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"3723742c-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1696"	"GNAZ"	2781	"mskcc.org"	"GRCh37"	"22"	23466377	23466378	"+"	"3'UTR"	"INS"	"-"	"-"	"T"	"rs112183291"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*769dupT"	""	""	"ENST00000248996"	"3/3"	109	"."	3	45	"."	0	"GNAZ,3_prime_UTR_variant,,ENST00000248996,NM_002073.2;RTDR1,intron_variant,,ENST00000216036,NM_014433.2;RTDR1,downstream_gene_variant,,ENST00000421213,;GNAZ,downstream_gene_variant,,ENST00000479571,;"	"T"	"ENSG00000128266"	"ENST00000248996"	"Transcript"	"3_prime_UTR_variant"	"2493-2494/3340"	"-/1068"	"-/355"	""	""	"rs112183291"	"1"	NA	1	"GNAZ"	"HGNC"	4395	"protein_coding"	"YES"	"CCDS13804.1"	"ENSP00000248996"	"P19086"	""	"UPI0000001249"	"NM_002073.2"	NA	NA	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"372a3bcc-2764-11e6-88b6-0d42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0275229357798165	"WXS"	FALSE
"1697"	"SLC2A11"	66035	"mskcc.org"	"GRCh37"	"22"	24204625	24204626	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs5844571"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.141+242dupG"	""	""	"ENST00000398356"	""	19	"."	9	10	"."	0	"SLC2A11,intron_variant,,ENST00000345044,;SLC2A11,intron_variant,,ENST00000398356,NM_001024938.2,NM_030807.3;SLC2A11,intron_variant,,ENST00000316185,NM_001024939.2;AP000350.10,intron_variant,,ENST00000433835,;SLC2A11,intron_variant,,ENST00000405847,;SLC2A11,intron_variant,,ENST00000403208,;SLC2A11,intron_variant,,ENST00000467660,;SLC2A11,intron_variant,,ENST00000405286,;SLC2A11,intron_variant,,ENST00000440493,;SLC2A11,intron_variant,,ENST00000461809,;SLC2A11,intron_variant,,ENST00000405340,;SLC2A11,intron_variant,,ENST00000489322,;SLC2A11,intron_variant,,ENST00000255830,;SLC2A11,intron_variant,,ENST00000473740,;SLC2A11,intron_variant,,ENST00000423972,;SLC2A11,intron_variant,,ENST00000436643,;SLC2A11,intron_variant,,ENST00000491948,;SLC2A11,intron_variant,,ENST00000418102,;SLC2A11,downstream_gene_variant,,ENST00000492516,;"	"G"	"ENSG00000133460"	"ENST00000398356"	"Transcript"	"intron_variant"	"-/2388"	"-/1512"	"-/503"	""	""	"rs5844571"	"1"	NA	1	"SLC2A11"	"HGNC"	14239	"protein_coding"	"YES"	"CCDS13818.1"	"ENSP00000381399"	"Q9BYW1"	"Q8TDC5,Q496K8"	"UPI000013CED4"	"NM_001024938.2,NM_030807.3"	NA	NA	""	"3/12"	""	"G:0.2859"	"G:0.1785"	"G:0.33"	NA	"G:0.2837"	"G:0.3469"	"G:0.3395"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"3787ec4a-2764-11e6-88b6-0d42424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.473684210526316	"WXS"	FALSE
"1698"	"AP000350.10"	0	"mskcc.org"	"GRCh37"	"22"	24235750	24235751	"+"	"Intron"	"INS"	"-"	"-"	"CATT"	"rs5844572"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.432-1190_432-1187dupTTCA"	""	""	"ENST00000433835"	""	8	"."	4	2	"."	0	"AP000350.10,intron_variant,,ENST00000433835,;AP000350.4,downstream_gene_variant,,ENST00000406213,;MIF,upstream_gene_variant,,ENST00000215754,NM_002415.1;MIF,upstream_gene_variant,,ENST00000465752,;MIF,upstream_gene_variant,,ENST00000498385,;"	"CATT"	"ENSG00000251357"	"ENST00000433835"	"Transcript"	"intron_variant"	"-/788"	"-/630"	"-/209"	""	""	"rs5844572"	"1"	NA	1	"AP000350.10"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000400325"	""	"H7C1H1"	"UPI00033350A2"	""	NA	NA	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	"24151396,24530749,25972622,25356116,23721694,24158957,22127710,23402792,23913513"	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"22"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"3789644e-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1699"	"SPECC1L"	23384	"mskcc.org"	"GRCh37"	"22"	24807190	24807191	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs34730325"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3088-359dupG"	""	""	"ENST00000314328"	""	13	"."	4	4	"."	0	"SPECC1L,intron_variant,,ENST00000314328,NM_015330.4,NM_001254733.1;SPECC1L,intron_variant,,ENST00000437398,NM_001145468.3,NM_001254732.2;SPECC1L,intron_variant,,ENST00000541492,;SPECC1L-ADORA2A,intron_variant,,ENST00000358654,;SPECC1L,upstream_gene_variant,,ENST00000472799,;"	"G"	"ENSG00000100014"	"ENST00000314328"	"Transcript"	"intron_variant"	"-/6756"	"-/3354"	"-/1117"	""	""	"rs34730325"	"1"	NA	1	"SPECC1L"	"HGNC"	29022	"protein_coding"	"YES"	"CCDS33619.1"	"ENSP00000325785"	"Q69YQ0"	"C9JLY8,C9J8U1"	"UPI00001B64E9"	"NM_015330.4,NM_001254733.1"	NA	NA	""	"14/16"	""	"G:0.3514"	"G:0.1672"	"G:0.4424"	NA	"G:0.4593"	"G:0.496"	"G:0.2761"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"3798d5f0-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"1700"	"POM121L10P"	646074	"mskcc.org"	"GRCh37"	"22"	25046647	25046647	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs765519111"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.6205-319delG"	""	""	"ENST00000504931"	""	31	"."	4	28	"."	0	"POM121L10P,intron_variant,,ENST00000504931,;BCRP3,intron_variant,,ENST00000382243,;BCRP3,downstream_gene_variant,,ENST00000447261,;AP000356.1,upstream_gene_variant,,ENST00000344557,;"	"-"	"ENSG00000224124"	"ENST00000504931"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/9547"	""	""	""	""	"rs765519111"	"1"	NA	-1	"POM121L10P"	"HGNC"	35448	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.0004142"	"0.02326"	"0"	"0"	"0"	"0.007289"	"0"	"0.005107"	NA	"PASS"	"CTCC"	"30bd9432-2764-11e6-88b6-0d42424a729f"	"220"	0.005633	"17/3018"	"29/70018"	"2/86"	"0/104"	"0/136"	"0/14"	"5/686"	"0/34"	"10/1958"	"PASS"	"FALSE"	0.129032258064516	"WXS"	FALSE
"1701"	"PIWIL3"	440822	"mskcc.org"	"GRCh37"	"22"	25153627	25153634	"+"	"Intron"	"DEL"	"ACACACAC"	"ACACACAC"	"-"	"rs201868992"	NA	"JHCCPT1"	"JHCCPN1"	"ACACACAC"	"ACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.355+241_355+248delGTGTGTGT"	""	""	"ENST00000332271"	""	19	"."	3	6	"."	0	"PIWIL3,intron_variant,,ENST00000332271,NM_001255975.1,NM_001008496.3;PIWIL3,intron_variant,,ENST00000533313,;PIWIL3,intron_variant,,ENST00000527701,;PIWIL3,intron_variant,,ENST00000532537,;"	"-"	"ENSG00000184571"	"ENST00000332271"	"Transcript"	"intron_variant"	"-/3504"	"-/2649"	"-/882"	""	""	"rs201868992"	"1"	NA	-1	"PIWIL3"	"HGNC"	18443	"protein_coding"	"YES"	"CCDS33623.1"	"ENSP00000330031"	"Q7Z3Z3"	""	"UPI00002073D6"	"NM_001255975.1,NM_001008496.3"	NA	NA	""	"4/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTACACACACA"	"30c535a2-2764-11e6-88b6-0d42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WXS"	FALSE
"1702"	"SGSM1"	129049	"mskcc.org"	"GRCh37"	"22"	25219264	25219265	"+"	"Intron"	"INS"	"-"	"CAGCTGCTGTGC"	"CAGCTGCTGTGC"	"rs111614349"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.63+16815_63+16816insGCTGCTGTGCCA"	""	""	"ENST00000400359"	""	6	"."	5	1	"."	0	"SGSM1,intron_variant,,ENST00000400358,NM_001098498.1,NM_001098497.1;SGSM1,intron_variant,,ENST00000400359,NM_133454.2,NM_001039948.2;"	"CAGCTGCTGTGC"	"ENSG00000167037"	"ENST00000400359"	"Transcript"	"intron_variant"	"-/4317"	"-/3447"	"-/1148"	""	""	"rs111614349"	"1"	NA	1	"SGSM1"	"HGNC"	29410	"protein_coding"	"YES"	"CCDS46674.1"	"ENSP00000383212"	"Q2NKQ1"	""	"UPI00006EB130"	"NM_133454.2,NM_001039948.2"	NA	NA	""	"2/25"	""	"-:0.3075"	"CAGCTGCTGTGC:0.6694"	"CAGCTGCTGTGC:0.7017"	NA	"CAGCTGCTGTGC:0.8294"	"CAGCTGCTGTGC:0.6113"	"CAGCTGCTGTGC:0.6595"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"37a3b254-2764-11e6-88b6-0d42424a729f"	"262"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1703"	"CRYBB2"	1415	"mskcc.org"	"GRCh37"	"22"	25627289	25627303	"+"	"Intron"	"DEL"	"CAGTACAGTACAGTA"	"CAGTACAGTACAGTA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CAGTACAGTACAGTA"	"CAGTACAGTACAGTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.450-264_450-250delTACAGTACAGTACAG"	""	""	"ENST00000398215"	""	16	"."	5	9	"."	0	"CRYBB2,intron_variant,,ENST00000398215,NM_000496.2;"	"-"	"ENSG00000244752"	"ENST00000398215"	"Transcript"	"intron_variant"	"-/886"	"-/618"	"-/205"	""	""	""	"1"	NA	1	"CRYBB2"	"HGNC"	2398	"protein_coding"	"YES"	"CCDS13831.1"	"ENSP00000381273"	"P43320"	"R4UMM2"	"UPI000013C6A2"	"NM_000496.2"	NA	NA	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"18"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCCAGTACAGTACAGTAC"	"30d0165c-2764-11e6-88b6-0d42424a729f"	"280"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"1704"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	25640301	25640301	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs11321521"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11321521"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4167"	"-:0.4834"	"-:0.5014"	NA	"-:0.1359"	"-:0.5676"	"-:0.4008"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAC"	"30d2ab6a-2764-11e6-88b6-0d42424a729f"	"167"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1705"	"LRP5L"	91355	"mskcc.org"	"GRCh37"	"22"	25803705	25803705	"+"	"5'Flank"	"DEL"	"C"	"C"	"-"	"rs133241"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000444995"	""	8	"."	4	1	"."	0	"LRP5L,upstream_gene_variant,,ENST00000444995,;"	"-"	"ENSG00000100068"	"ENST00000444995"	"Transcript"	"upstream_gene_variant"	"-/1714"	"-/675"	"-/224"	""	""	"rs133241"	"1"	"2361"	-1	"LRP5L"	"HGNC"	25323	"protein_coding"	""	""	"ENSP00000407283"	"A4QPB2"	""	"UPI0000F705B5"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACC"	"30d77974-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1706"	"MYO18B"	84700	"mskcc.org"	"GRCh37"	"22"	26174254	26174255	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs113893172"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2068+507dupA"	""	""	"ENST00000335473"	""	6	"."	4	1	"."	0	"MYO18B,intron_variant,,ENST00000335473,NM_032608.5;MYO18B,intron_variant,,ENST00000407587,;MYO18B,intron_variant,,ENST00000536101,;MYO18B,intron_variant,,ENST00000539302,;MYO18B,intron_variant,,ENST00000418374,;"	"A"	"ENSG00000133454"	"ENST00000335473"	"Transcript"	"intron_variant"	"-/8565"	"-/7704"	"-/2567"	""	""	"rs113893172"	"1"	NA	1	"MYO18B"	"HGNC"	18150	"protein_coding"	"YES"	"CCDS54507.1"	"ENSP00000334563"	""	"Q8N903"	"UPI0000207402"	"NM_032608.5"	NA	NA	""	"8/43"	""	"A:0.3710"	"A:0.5567"	"A:0.3934"	NA	"A:0.2302"	"A:0.3857"	"A:0.2342"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"37c465f8-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1707"	"MYO18B"	84700	"mskcc.org"	"GRCh37"	"22"	26344285	26344285	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs150160143"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5748+491delA"	""	""	"ENST00000335473"	""	6	"."	4	2	"."	0	"MYO18B,intron_variant,,ENST00000335473,NM_032608.5;MYO18B,intron_variant,,ENST00000407587,;MYO18B,intron_variant,,ENST00000536101,;MYO18B,intron_variant,,ENST00000539302,;MYO18B,intron_variant,,ENST00000418374,;"	"-"	"ENSG00000133454"	"ENST00000335473"	"Transcript"	"intron_variant"	"-/8565"	"-/7704"	"-/2567"	""	""	"rs150160143"	"1"	NA	1	"MYO18B"	"HGNC"	18150	"protein_coding"	"YES"	"CCDS54507.1"	"ENSP00000334563"	""	"Q8N903"	"UPI0000207402"	"NM_032608.5"	NA	NA	""	"36/43"	""	"-:0.1753"	"-:0.1861"	"-:0.1282"	NA	"-:0.244"	"-:0.169"	"-:0.1299"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAT"	"30f05002-2764-11e6-88b6-0d42424a729f"	"220"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1708"	"SEZ6L"	23544	"mskcc.org"	"GRCh37"	"22"	26709567	26709570	"+"	"Intron"	"DEL"	"CACG"	"CACG"	"-"	"rs5844687"	NA	"JHCCPT1"	"JHCCPN1"	"CACG"	"CACG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1877-160_1877-157delGCAC"	""	""	"ENST00000248933"	""	14	"."	3	3	"."	0	"SEZ6L,intron_variant,,ENST00000529632,NM_001184777.1,NM_001184775.1,NM_001184774.1;SEZ6L,intron_variant,,ENST00000360929,NM_001184776.1;SEZ6L,intron_variant,,ENST00000404234,NM_001184773.1,NM_021115.4;SEZ6L,intron_variant,,ENST00000402979,;SEZ6L,intron_variant,,ENST00000248933,;SEZ6L,intron_variant,,ENST00000403121,;SEZ6L,intron_variant,,ENST00000343706,;"	"-"	"ENSG00000100095"	"ENST00000248933"	"Transcript"	"intron_variant"	"-/3248"	"-/3075"	"-/1024"	""	""	"rs5844687"	"1"	NA	1	"SEZ6L"	"HGNC"	10763	"protein_coding"	"YES"	"CCDS13833.1"	"ENSP00000248933"	"Q9BYH1"	""	"UPI0000136779"	""	NA	NA	""	"8/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACACGC"	"30f84c6c-2764-11e6-88b6-0d42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"1709"	"CTA-211A9.5"	0	"mskcc.org"	"GRCh37"	"22"	27090988	27090989	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs57971611"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.183+22039dupC"	""	""	"ENST00000437071"	""	6	"."	4	2	"."	0	"CTA-211A9.5,intron_variant,,ENST00000437071,;CTA-211A9.5,intron_variant,,ENST00000444388,;CTA-211A9.5,intron_variant,,ENST00000435162,;CTA-211A9.5,intron_variant,,ENST00000450963,;CTA-211A9.5,intron_variant,,ENST00000421253,;CTA-211A9.5,intron_variant,,ENST00000440816,;CTA-211A9.5,intron_variant,,ENST00000449017,;"	"C"	"ENSG00000244625"	"ENST00000437071"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1006"	""	""	""	""	"rs57971611"	"1"	NA	1	"CTA-211A9.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/5"	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"37d804d2-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1710"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	27638634	27638635	"+"	"IGR"	"INS"	"-"	"-"	"TCTC"	"rs139915878"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	1	"."	0	""	"TCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139915878"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"37e01032-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1711"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	28051513	28051514	"+"	"IGR"	"INS"	"-"	"-"	"AA"	"rs71707626"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	4	"."	0	""	"AA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71707626"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AA:0.1871"	"AA:0.084"	"AA:0.245"	NA	"AA:0.2748"	"AA:0.2744"	"AA:0.1053"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"37ed7786-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1712"	"CCDC117"	150275	"mskcc.org"	"GRCh37"	"22"	29169051	29169058	"+"	"Intron"	"DEL"	"GGGCGGGC"	"GGGCGGGC"	"-"	"rs139091725"	NA	"JHCCPT1"	"JHCCPN1"	"GGGCGGGC"	"GGGCGGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.185+41_185+48delGGGCGGGC"	""	""	"ENST00000249064"	""	8	"."	3	2	"."	0	"CCDC117,intron_variant,,ENST00000249064,NM_173510.2,NM_001284265.1;CCDC117,intron_variant,,ENST00000421503,NM_001284264.1;CCDC117,intron_variant,,ENST00000448492,NM_001284263.1;CCDC117,intron_variant,,ENST00000444523,;CCDC117,upstream_gene_variant,,ENST00000443309,;CCDC117,upstream_gene_variant,,ENST00000432510,;CCDC117,3_prime_UTR_variant,,ENST00000453543,;"	"-"	"ENSG00000159873"	"ENST00000249064"	"Transcript"	"intron_variant"	"-/3985"	"-/840"	"-/279"	""	""	"rs139091725"	"1"	NA	1	"CCDC117"	"HGNC"	26599	"protein_coding"	"YES"	"CCDS13846.1"	"ENSP00000249064"	"Q8IWD4"	"F8WBN8,B7Z820,B0QYH3"	"UPI000007450B"	"NM_173510.2,NM_001284265.1"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	"-:1"	"-:0.7857"	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"12"	NA	"1"	"0.04945"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	NA	"PASS"	"CAGGGCGGGCG"	"3155e2b4-2764-11e6-88b6-0d42424a729f"	"180"	0	"0/0"	"9/182"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"VQSRTrancheINDEL96.00to97.00"	"FALSE"	0.375	"WXS"	FALSE
"1713"	"SEC14L3"	266629	"mskcc.org"	"GRCh37"	"22"	30863234	30863235	"+"	"Intron"	"INS"	"-"	"-"	"CATC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.424-174_424-171dupGATG"	""	""	"ENST00000215812"	""	55	"."	3	23	"."	0	"SEC14L3,intron_variant,,ENST00000403066,;SEC14L3,intron_variant,,ENST00000415957,;SEC14L3,intron_variant,,ENST00000215812,NM_174975.4;SEC14L3,intron_variant,,ENST00000402286,NM_001257378.1;SEC14L3,intron_variant,,ENST00000539629,NM_001257382.1;SEC14L3,intron_variant,,ENST00000540910,;SEC14L3,intron_variant,,ENST00000401751,NM_001257379.1;SEC14L3,intron_variant,,ENST00000435069,;SEC14L3,intron_variant,,ENST00000434642,;"	"CATC"	"ENSG00000100012"	"ENST00000215812"	"Transcript"	"intron_variant"	"-/2086"	"-/1203"	"-/400"	""	""	""	"1"	NA	-1	"SEC14L3"	"HGNC"	18655	"protein_coding"	"YES"	"CCDS13877.1"	"ENSP00000215812"	"Q9UDX4"	""	"UPI000000D83C"	"NM_174975.4"	NA	NA	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"384a5406-2764-11e6-88b6-0d42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0545454545454545	"WXS"	FALSE
"1714"	"PATZ1"	23598	"mskcc.org"	"GRCh37"	"22"	31742451	31742452	"+"	"5'Flank"	"INS"	"-"	"C"	"C"	"rs140076"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000266269"	""	9	"."	8	1	"."	0	"PATZ1,upstream_gene_variant,,ENST00000266269,NM_014323.2;PATZ1,upstream_gene_variant,,ENST00000405309,NM_032052.1;PATZ1,upstream_gene_variant,,ENST00000351933,NM_032050.1;PATZ1,upstream_gene_variant,,ENST00000215919,NM_032051.1;AC005003.1,upstream_gene_variant,,ENST00000504184,;PATZ1,upstream_gene_variant,,ENST00000465287,;PATZ1,upstream_gene_variant,,ENST00000494109,;"	"C"	"ENSG00000100105"	"ENST00000266269"	"Transcript"	"upstream_gene_variant"	"-/3781"	"-/2064"	"-/687"	""	""	"rs140076"	"1"	"233"	-1	"PATZ1"	"HGNC"	13071	"protein_coding"	"YES"	"CCDS13894.1"	"ENSP00000266269"	"Q9HBE1"	"Q9HD72"	"UPI000006D7C4"	"NM_014323.2"	NA	NA	""	""	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"386e51a8-2764-11e6-88b6-0d42424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.888888888888889	"WXS"	FALSE
"1715"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	32708373	32708374	"+"	"IGR"	"INS"	"-"	"-"	"ACACACAT"	"rs200216289"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	9	"."	0	""	"ACACACAT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200216289"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4932"	"ACAT:0.3744"	"ACAT:0.4683"	NA	"ACAT:0.6399"	"ACAT:0.4811"	"ACAT:0.6022"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"388553e4-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1716"	"LL22NC03-86D4.1"	0	"mskcc.org"	"GRCh37"	"22"	34492870	34492871	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs135185"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.115-3469dupC"	""	""	"ENST00000412218"	""	6	"."	5	1	"."	0	"LL22NC03-86D4.1,intron_variant,,ENST00000412218,;"	"C"	"ENSG00000236052"	"ENST00000412218"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/757"	""	""	""	""	"rs135185"	"1"	NA	1	"LL22NC03-86D4.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/7"	""	"-:0.3806"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"38a02ae8-2764-11e6-88b6-0d42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1717"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	34714121	34714124	"+"	"IGR"	"DEL"	"GGAA"	"GGAA"	"-"	"rs140489539"	NA	"JHCCPT1"	"JHCCPN1"	"GGAA"	"GGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	6	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140489539"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GGAA:0.2546"	"-:0.9024"	"-:0.7032"	NA	"-:0.8899"	"-:0.5865"	"-:0.5777"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGGAAG"	"32668e38-2764-11e6-88b6-0d42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"1718"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	34884267	34884268	"+"	"IGR"	"INS"	"-"	"-"	"CCTT"	"rs140489464"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	6	3	"."	0	""	"CCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140489464"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CCTT:0.2764"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"38a453de-2764-11e6-88b6-0d42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1719"	"HMGXB4"	10042	"mskcc.org"	"GRCh37"	"22"	35679787	35679788	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs60002253"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1216-153_1216-152dupAT"	""	""	"ENST00000216106"	""	44	"."	8	15	"."	0	"HMGXB4,intron_variant,,ENST00000216106,NM_001003681.2;HMGXB4,intron_variant,,ENST00000444518,;HMGXB4,intron_variant,,ENST00000418170,;HMGXB4,upstream_gene_variant,,ENST00000498212,;"	"AT"	"ENSG00000100281"	"ENST00000216106"	"Transcript"	"intron_variant"	"-/4047"	"-/1806"	"-/601"	""	""	"rs60002253"	"1"	NA	1	"HMGXB4"	"HGNC"	5003	"protein_coding"	"YES"	"CCDS33641.1"	"ENSP00000216106"	"Q9UGU5"	"Q7Z641,B0QXZ9,B0QXZ8"	"UPI00003765B4"	"NM_001003681.2"	NA	NA	""	"5/10"	""	"AT:0.4141"	"AT:0.0741"	"AT:0.536"	NA	"AT:0.4841"	"AT:0.5934"	"AT:0.5307"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"38adb302-2764-11e6-88b6-0d42424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"1720"	"APOL5"	80831	"mskcc.org"	"GRCh37"	"22"	36116095	36116097	"+"	"Intron"	"DEL"	"CTT"	"CTT"	"TG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.56-520_56-518delCTTinsTG"	""	""	"ENST00000249044"	""	9	"."	4	2	"."	0	"APOL5,intron_variant,,ENST00000249044,NM_030642.1;"	"TG"	"ENSG00000128313"	"ENST00000249044"	"Transcript"	"intron_variant"	"-/1438"	"-/1302"	"-/433"	""	""	""	"1"	NA	1	"APOL5"	"HGNC"	14869	"protein_coding"	"YES"	"CCDS13920.1"	"ENSP00000249044"	"Q9BWW9"	""	"UPI0000125C99"	"NM_030642.1"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTTC"	"3613412a-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1721"	"APOL2"	23780	"mskcc.org"	"GRCh37"	"22"	36622708	36622709	"+"	"3'UTR"	"INS"	"-"	"-"	"G"	"rs146028158"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*741dupC"	""	""	"ENST00000249066"	"6/6"	16	"."	5	4	"."	0	"APOL2,3_prime_UTR_variant,,ENST00000249066,NM_145637.1;APOL2,3_prime_UTR_variant,,ENST00000358502,NM_030882.2;APOL2,downstream_gene_variant,,ENST00000451256,;APOL2,downstream_gene_variant,,ENST00000529194,;APOL2,downstream_gene_variant,,ENST00000454728,;"	"G"	"ENSG00000128335"	"ENST00000249066"	"Transcript"	"3_prime_UTR_variant"	"2232-2233/2685"	"-/1014"	"-/337"	""	""	"rs146028158"	"1"	NA	-1	"APOL2"	"HGNC"	619	"protein_coding"	"YES"	"CCDS43014.1"	"ENSP00000249066"	"Q9BQE5"	"E9PM95,B0QYK8"	"UPI0000125C91"	"NM_145637.1"	NA	NA	"6/6"	""	""	"G:0.4718"	"G:0.1626"	"G:0.549"	NA	"G:0.7966"	"G:0.3757"	"G:0.5992"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"38cced3a-2764-11e6-88b6-0d42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"1722"	"NCF4"	4689	"mskcc.org"	"GRCh37"	"22"	37255235	37255236	"+"	"5'Flank"	"INS"	"-"	"TCTT"	"TCTT"	"rs10622881"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000397147"	""	6	"."	5	1	"."	0	"NCF4,upstream_gene_variant,,ENST00000397147,NM_013416.3;NCF4,upstream_gene_variant,,ENST00000248899,NM_000631.4;NCF4,upstream_gene_variant,,ENST00000447071,;CTA-833B7.2,intron_variant,,ENST00000330602,;CTA-833B7.2,intron_variant,,ENST00000431290,;"	"TCTT"	"ENSG00000100365"	"ENST00000397147"	"Transcript"	"upstream_gene_variant"	"-/1641"	"-/1047"	"-/348"	""	""	"rs10622881"	"1"	"1794"	1	"NCF4"	"HGNC"	7662	"protein_coding"	"YES"	"CCDS13935.1"	"ENSP00000380334"	"Q15080"	"B0QY04"	"UPI000013CC59"	"NM_013416.3"	NA	NA	""	""	""	"-:0.1158"	"TCTT:0.9811"	"TCTT:0.8429"	NA	"TCTT:0.9246"	"TCTT:0.825"	"TCTT:0.8016"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"38f136fe-2764-11e6-88b6-0d42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1723"	"CYTH4"	27128	"mskcc.org"	"GRCh37"	"22"	37678325	37678328	"+"	"5'Flank"	"DEL"	"TGTT"	"TGTT"	"-"	"rs67959830"	NA	"JHCCPT1"	"JHCCPN1"	"TGTT"	"TGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000248901"	""	27	"."	4	7	"."	0	"CYTH4,intron_variant,,ENST00000457992,;CYTH4,upstream_gene_variant,,ENST00000248901,NM_013385.3;CYTH4,upstream_gene_variant,,ENST00000405206,;CYTH4,upstream_gene_variant,,ENST00000402997,;CYTH4,upstream_gene_variant,,ENST00000439667,;CYTH4,upstream_gene_variant,,ENST00000462927,;CYTH4,upstream_gene_variant,,ENST00000469886,;CYTH4,upstream_gene_variant,,ENST00000480510,;"	"-"	"ENSG00000100055"	"ENST00000248901"	"Transcript"	"upstream_gene_variant"	"-/3202"	"-/1185"	"-/394"	""	""	"rs67959830"	"1"	"96"	1	"CYTH4"	"HGNC"	9505	"protein_coding"	"YES"	"CCDS13946.1"	"ENSP00000248901"	"Q9UIA0"	"Q8WWE8,B4E2V8,B1AHH4"	"UPI000000D99D"	"NM_013385.3"	NA	NA	""	""	""	"-:0.4996"	"-:0.8865"	"-:0.2421"	NA	"-:0.3641"	"-:0.3847"	"-:0.4172"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGTTT"	"32ee32f2-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WXS"	FALSE
"1724"	"ELFN2"	114794	"mskcc.org"	"GRCh37"	"22"	37800560	37800561	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs133742"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-463+13247dupC"	""	""	"ENST00000402918"	""	6	"."	4	1	"."	0	"ELFN2,intron_variant,,ENST00000402918,NM_052906.3;RP1-63G5.5,intron_variant,,ENST00000452946,;ELFN2,intron_variant,,ENST00000435824,;ELFN2,intron_variant,,ENST00000415408,;ELFN2,intron_variant,,ENST00000414347,;ELFN2,intron_variant,,ENST00000451509,;ELFN2,intron_variant,,ENST00000424973,;"	"G"	"ENSG00000166897"	"ENST00000402918"	"Transcript"	"intron_variant"	"-/8361"	"-/2463"	"-/820"	""	""	"rs133742"	"1"	NA	-1	"ELFN2"	"HGNC"	29396	"protein_coding"	"YES"	"CCDS33642.1"	"ENSP00000385277"	"Q5R3F8"	""	"UPI000004E87D"	"NM_052906.3"	NA	NA	""	"2/2"	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"391b4a8e-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1725"	"TRIOBP"	11078	"mskcc.org"	"GRCh37"	"22"	38177113	38177113	"+"	"3'Flank"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000406386"	""	7	"."	4	2	"."	0	"TRIOBP,downstream_gene_variant,,ENST00000406386,NM_001039141.2;snoU13,upstream_gene_variant,,ENST00000459462,;"	"-"	"ENSG00000100106"	"ENST00000406386"	"Transcript"	"downstream_gene_variant"	"-/10129"	"-/7098"	"-/2365"	""	""	""	"1"	"4550"	1	"TRIOBP"	"HGNC"	17009	"protein_coding"	"YES"	"CCDS43015.1"	"ENSP00000384312"	"Q9H2D6"	"F6WYE2,F6WMF4"	"UPI000067CB88"	"NM_001039141.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AATT"	"331bd568-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1726"	"KCNJ4"	3761	"mskcc.org"	"GRCh37"	"22"	38830280	38830280	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs35689801"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-39-6104delG"	""	""	"ENST00000303592"	""	6	"."	4	1	"."	0	"KCNJ4,intron_variant,,ENST00000303592,NM_152868.2,NM_004981.1;"	"-"	"ENSG00000168135"	"ENST00000303592"	"Transcript"	"intron_variant"	"-/2065"	"-/1338"	"-/445"	""	""	"rs35689801"	"1"	NA	-1	"KCNJ4"	"HGNC"	6265	"protein_coding"	"YES"	"CCDS13971.1"	"ENSP00000306497"	"P48050"	"Q58F07"	"UPI000012D89B"	"NM_152868.2,NM_004981.1"	NA	NA	""	"1/1"	""	"-:0.2248"	"-:0.084"	"-:0.1671"	NA	"-:0.245"	"-:0.3211"	"-:0.3364"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCC"	"334e2d10-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1727"	"MKL1"	57591	"mskcc.org"	"GRCh37"	"22"	40965721	40965728	"+"	"Intron"	"DEL"	"ATACATAC"	"ATACATAC"	"-"	"rs368545904"	NA	"JHCCPT1"	"JHCCPN1"	"ATACATAC"	"ATACATAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-321-17357_-321-17350delGTATGTAT"	""	""	"ENST00000355630"	""	6	"."	4	2	"."	0	"MKL1,intron_variant,,ENST00000396617,NM_001282662.1;MKL1,intron_variant,,ENST00000355630,NM_020831.3;MKL1,intron_variant,,ENST00000402042,NM_001282661.1;MKL1,intron_variant,,ENST00000466278,;MKL1,intron_variant,,ENST00000463769,;COX6B1P3,intron_variant,,ENST00000312310,;"	"-"	"ENSG00000196588"	"ENST00000355630"	"Transcript"	"intron_variant"	"-/4496"	"-/2796"	"-/931"	""	""	"rs368545904"	"1"	NA	-1	"MKL1"	"HGNC"	14334	"protein_coding"	"YES"	"CCDS14003.1"	"ENSP00000347847"	"Q969V6"	"Q29R68"	"UPI000007311D"	"NM_020831.3"	NA	NA	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAATACATACA"	"33d50470-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	TRUE
"1728"	"SCUBE1"	80274	"mskcc.org"	"GRCh37"	"22"	43602657	43602658	"+"	"Intron"	"INS"	"-"	"-"	"AAG"	"rs34063931"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2814+880_2814+882dupCTT"	""	""	"ENST00000360835"	""	8	"."	4	2	"."	0	"SCUBE1,intron_variant,,ENST00000360835,NM_173050.3;"	"AAG"	"ENSG00000159307"	"ENST00000360835"	"Transcript"	"intron_variant"	"-/9808"	"-/2967"	"-/988"	""	""	"rs34063931"	"1"	NA	-1	"SCUBE1"	"HGNC"	13441	"protein_coding"	"YES"	"CCDS14048.1"	"ENSP00000354080"	"Q8IWY4"	""	"UPI000020790F"	"NM_173050.3"	NA	NA	""	"21/21"	""	"AAG:0.4880"	"AAG:0.5809"	"AAG:0.5965"	NA	"AAG:0.0764"	"AAG:0.6849"	"AAG:0.5072"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"3a127606-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1729"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	44774284	44774303	"+"	"IGR"	"DEL"	"CTCCCTCTCTCTCTCTTCCC"	"CTCCCTCTCTCTCTCTTCCC"	"-"	"rs201838160"	NA	"JHCCPT1"	"JHCCPN1"	"CTCCCTCTCTCTCTCTTCCC"	"CTCCCTCTCTCTCTCTTCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201838160"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4688"	"-:0.3101"	"-:0.5922"	NA	"-:0.6171"	"-:0.3827"	"-:0.5317"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCTCCCTCTCTCTCTCTTCCCC"	"34c599b2-2764-11e6-88b6-0d42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1730"	"FAM118A"	55007	"mskcc.org"	"GRCh37"	"22"	45718922	45718923	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTGTG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.48-108_48-99dupGTGTGTGTGT"	""	""	"ENST00000216214"	""	78	"."	3	53	"."	0	"FAM118A,intron_variant,,ENST00000216214,NM_001104595.1;FAM118A,intron_variant,,ENST00000441876,NM_017911.2;FAM118A,intron_variant,,ENST00000405673,;FAM118A,intron_variant,,ENST00000427777,;FAM118A,downstream_gene_variant,,ENST00000452238,;FAM118A,downstream_gene_variant,,ENST00000424557,;FAM118A,intron_variant,,ENST00000477714,;"	"TGTGTGTGTG"	"ENSG00000100376"	"ENST00000216214"	"Transcript"	"intron_variant"	"-/3458"	"-/1074"	"-/357"	""	""	""	"1"	NA	1	"FAM118A"	"HGNC"	1313	"protein_coding"	"YES"	"CCDS14065.1"	"ENSP00000216214"	"Q9NWS6"	"B4DY02,B0QY28"	"UPI000022B897"	"NM_001104595.1"	NA	NA	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"35"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"3a5d27aa-2764-11e6-88b6-0d42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0384615384615385	"WXS"	FALSE
"1731"	"ENSR00001734540"	0	"mskcc.org"	"GRCh37"	"22"	46260340	46260341	"+"	"IGR"	"INS"	"-"	"-"	"AAG"	"rs136038"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001734540"	""	7	"."	4	2	"."	0	""	"AAG"	""	"ENSR00001734540"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs136038"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0825"	"AAG:0.9894"	"AAG:0.8934"	NA	"AAG:0.8641"	"AAG:0.8718"	"AAG:0.9397"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"3a78401c-2764-11e6-88b6-0d42424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1732"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	47841143	47841146	"+"	"IGR"	"DEL"	"CTGT"	"CTGT"	"-"	"rs201550151"	NA	"JHCCPT1"	"JHCCPN1"	"CTGT"	"CTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201550151"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0266"	"-:0.0272"	"-:0.0317"	NA	"-:0.0069"	"-:0.0626"	"-:0.0051"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTGTC"	"3542b23a-2764-11e6-88b6-0d42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1733"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	47889185	47889186	"+"	"IGR"	"INS"	"-"	"-"	"CCGT"	"rs139607033"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	5	3	"."	0	""	"CCGT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139607033"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CCGT:0.1422"	"CCGT:0.1467"	"CCGT:0.1009"	NA	"CCGT:0.1696"	"CCGT:0.0775"	"CCGT:0.2035"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"3a9e3330-2764-11e6-88b6-0d42424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1734"	"ENSR00000619973"	0	"mskcc.org"	"GRCh37"	"22"	48493457	48493458	"+"	"IGR"	"INS"	"-"	"G"	"G"	"rs11403607"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000619973"	""	9	"."	8	1	"."	0	""	"G"	""	"ENSR00000619973"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs11403607"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"3aa2b68a-2764-11e6-88b6-0d42424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.888888888888889	"WXS"	FALSE
"1735"	"FAM19A5"	25817	"mskcc.org"	"GRCh37"	"22"	48974948	48974949	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs71818723"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.113-67461_113-67460delCT"	""	""	"ENST00000402357"	""	6	"."	3	1	"."	0	"FAM19A5,intron_variant,,ENST00000358295,NM_015381.5;FAM19A5,intron_variant,,ENST00000402357,NM_001082967.1;FAM19A5,intron_variant,,ENST00000336769,;FAM19A5,intron_variant,,ENST00000473898,;"	"-"	"ENSG00000219438"	"ENST00000402357"	"Transcript"	"intron_variant"	"-/1508"	"-/399"	"-/132"	""	""	"rs71818723"	"1"	NA	1	"FAM19A5"	"HGNC"	21592	"protein_coding"	"YES"	"CCDS46728.1"	"ENSP00000383933"	"Q7Z5A7"	""	"UPI0000074351"	"NM_001082967.1"	NA	NA	""	"1/3"	""	"-:0.3768"	"-:0.2958"	"-:0.513"	NA	"-:0.2609"	"-:0.5716"	"-:0.3088"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCTG"	"35523b88-2764-11e6-88b6-0d42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1736"	"MOV10L1"	54456	"mskcc.org"	"GRCh37"	"22"	50572752	50572753	"+"	"Intron"	"INS"	"-"	"-"	"TG"	"rs375157245"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1970-206_1970-205insGT"	""	""	"ENST00000262794"	""	54	"."	6	25	"."	0	"MOV10L1,intron_variant,,ENST00000262794,NM_018995.2;MOV10L1,intron_variant,,ENST00000540615,NM_001164105.1;MOV10L1,intron_variant,,ENST00000545383,;MOV10L1,intron_variant,,ENST00000395858,NM_001164104.1;MOV10L1,intron_variant,,ENST00000395843,;MOV10L1,intron_variant,,ENST00000434497,;"	"TG"	"ENSG00000073146"	"ENST00000262794"	"Transcript"	"intron_variant"	"-/3960"	"-/3636"	"-/1211"	""	""	"rs375157245"	"1"	NA	1	"MOV10L1"	"HGNC"	7201	"protein_coding"	"YES"	"CCDS14084.1"	"ENSP00000262794"	"Q9BXT6"	""	"UPI00000421FB"	"NM_018995.2"	NA	NA	""	"14/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"3ad92288-2764-11e6-88b6-0d42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WXS"	FALSE
"1737"	"PLXNB2"	23654	"mskcc.org"	"GRCh37"	"22"	50739838	50739839	"+"	"Intron"	"INS"	"-"	"CACA"	"CACA"	"rs112867060"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-67+6140_-67+6143dupTGTG"	""	""	"ENST00000449103"	""	6	"."	6	2	"."	0	"PLXNB2,5_prime_UTR_variant,,ENST00000432455,;PLXNB2,intron_variant,,ENST00000449103,;PLXNB2,intron_variant,,ENST00000359337,NM_012401.3;PLXNB2,intron_variant,,ENST00000425954,;"	"CACA"	"ENSG00000196576"	"ENST00000449103"	"Transcript"	"intron_variant"	"-/6383"	"-/5517"	"-/1838"	""	""	"rs112867060"	"1"	NA	-1	"PLXNB2"	"HGNC"	9104	"protein_coding"	"YES"	"CCDS43035.1"	"ENSP00000409171"	"O15031"	"Q2TBE4,E2PU09,A6QRH1"	"UPI000003812D"	""	NA	NA	""	"1/36"	""	"-:0.1693"	"CACA:0.9523"	"CACA:0.696"	NA	"CACA:0.7887"	"CACA:0.832"	"CACA:0.8037"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"3af126a8-2764-11e6-88b6-0d42424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"1738"	"SBF1"	6305	"mskcc.org"	"GRCh37"	"22"	50913395	50913397	"+"	"5'UTR"	"DEL"	"GCG"	"GCG"	"-"	"rs373485644"	NA	"JHCCPT1"	"JHCCPN1"	"GCG"	"GCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-128_-126delCGC"	""	""	"ENST00000380817"	"1/41"	33	"."	3	19	"."	0	"SBF1,5_prime_UTR_variant,,ENST00000380817,NM_002972.2;SBF1,5_prime_UTR_variant,,ENST00000390679,;SBF1,upstream_gene_variant,,ENST00000348911,;SBF1,upstream_gene_variant,,ENST00000399627,;"	"-"	"ENSG00000100241"	"ENST00000380817"	"Transcript"	"5_prime_UTR_variant"	"57-59/8008"	"-/5682"	"-/1893"	""	""	"rs373485644"	"1"	NA	-1	"SBF1"	"HGNC"	10542	"protein_coding"	"YES"	"CCDS14091.2"	"ENSP00000370196"	"O95248"	"Q86TK5"	"UPI00001D69ED"	"NM_002972.2"	NA	NA	"1/41"	""	""	"GCG:0.2664"	"-:0.6067"	"-:0.7608"	NA	"-:0.9524"	"-:0.7505"	"-:0.6431"	"-:1"	"-:0.8"	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.2175"	"0"	"0"	"0"	"0"	"0.25"	"0.25"	"0.2939"	"1"	"common_variant"	"CCGCGG"	"35cc0f26-2764-11e6-88b6-0d42424a729f"	"180"	0.286	"171/598"	"1686/7750"	"0/6"	"0/0"	"0/0"	"0/0"	"15/60"	"2/8"	"154/524"	"PASS"	"FALSE"	0.0909090909090909	"WXS"	FALSE
"1739"	"SHANK3"	85358	"mskcc.org"	"GRCh37"	"22"	51173463	51173464	"+"	"3'Flank"	"INS"	"-"	"-"	"T"	"rs565916589"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000262795"	""	8	"."	3	1	"."	0	"SHANK3,downstream_gene_variant,,ENST00000414786,;SHANK3,downstream_gene_variant,,ENST00000262795,NM_033517.1;SHANK3,downstream_gene_variant,,ENST00000445220,;ACR,upstream_gene_variant,,ENST00000216139,NM_001097.2;ACR,upstream_gene_variant,,ENST00000529621,;AC000036.4,downstream_gene_variant,,ENST00000449652,;ACR,upstream_gene_variant,,ENST00000533930,;"	"T"	"ENSG00000251322"	"ENST00000262795"	"Transcript"	"downstream_gene_variant"	"-/7145"	"-/5244"	"-/1747"	""	""	"rs565916589"	"1"	"1822"	1	"SHANK3"	"HGNC"	14294	"protein_coding"	"YES"	""	"ENSP00000442518"	""	"F8TCV3,F2Z3L0"	"UPI0000DD85FB"	"NM_033517.1"	NA	NA	""	""	""	"T:0.1985"	"T:0.1293"	"T:0.1873"	NA	"T:0.25"	"T:0.171"	"T:0.2751"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"3b03dc8a-2764-11e6-88b6-0d42424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1740"	"CNTN4"	152330	"mskcc.org"	"GRCh37"	"3"	2576503	2576504	"+"	"Intron"	"INS"	"-"	"-"	"TGCTGCTGCTGCTGC"	"rs554324649"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-88-36594_-88-36580dupCTGCTGCTGCTGCTG"	""	""	"ENST00000397461"	""	23	"."	3	5	"."	0	"CNTN4,intron_variant,,ENST00000397461,NM_001206955.1;CNTN4,intron_variant,,ENST00000418658,NM_175607.2;CNTN4,intron_variant,,ENST00000422330,;CNTN4,intron_variant,,ENST00000455083,;CNTN4,intron_variant,,ENST00000434053,;CNTN4,intron_variant,,ENST00000427741,;CNTN4,intron_variant,,ENST00000430505,;CNTN4,intron_variant,,ENST00000438282,;"	"TGCTGCTGCTGCTGC"	"ENSG00000144619"	"ENST00000397461"	"Transcript"	"intron_variant"	"-/5198"	"-/3081"	"-/1026"	""	""	"rs554324649"	"1"	NA	1	"CNTN4"	"HGNC"	2174	"protein_coding"	"YES"	"CCDS43041.1"	"ENSP00000380602"	"Q8IWV2"	"G3XAD4,C9JMQ2,C9JGK9"	"UPI000007446C"	"NM_001206955.1"	NA	NA	""	"2/23"	""	"TGCTGCTGCTGCTGCTGCTGCTGC:0.1218"	"TGCTGCTGCTGCTGCTGCTGCTGC:0.1278"	"TGCTGCTGCTGCTGCTGCTGCTGC:0.1383"	NA	"TGCTGCTGCTGCTGCTGCTGCTGC:0.0139"	"TGCTGCTGCTGCTGCTGCTGCTGC:0.2276"	"TGCTGCTGCTGCTGCTGCTGCTGC:0.1043"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"17"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"5bbedf88-2764-11e6-be88-1087424a729f"	"149"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"1741"	"AC026188.1"	0	"mskcc.org"	"GRCh37"	"3"	3506770	3506789	"+"	"Intron"	"DEL"	"TACCAGATGAGAGAGACATA"	"TACCAGATGAGAGAGACATA"	"AAGAGAGAGAGAGAGAGAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TACCAGATGAGAGAGACATA"	"TACCAGATGAGAGAGACATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.59+18934_59+18953delTATGTCTCTCTCATCTGGTAinsCTCTCTCTCTCTCTCTCTT"	""	""	"ENST00000455703"	""	7	"."	4	3	"."	0	"AC026188.1,intron_variant,,ENST00000455703,;AC026188.1,intron_variant,,ENST00000451031,;AC026188.1,intron_variant,,ENST00000420000,;"	"AAGAGAGAGAGAGAGAGAG"	"ENSG00000223727"	"ENST00000455703"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/728"	""	""	""	""	""	"1"	NA	-1	"AC026188.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGTACCAGATGAGAGAGACATAT"	"5a80b7ae-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1742"	"ITPR1"	3708	"mskcc.org"	"GRCh37"	"3"	4872815	4872816	"+"	"Intron"	"INS"	"-"	"-"	"CACACACACACA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7984-5631_7984-5620dupACACACACACAC"	""	""	"ENST00000302640"	""	15	"."	4	15	"."	0	"ITPR1,intron_variant,,ENST00000302640,NM_001168272.1;ITPR1,intron_variant,,ENST00000354582,;ITPR1,intron_variant,,ENST00000423119,NM_001099952.2;ITPR1,intron_variant,,ENST00000357086,;ITPR1,intron_variant,,ENST00000456211,NM_002222.5;ITPR1,intron_variant,,ENST00000443694,;ITPR1,intron_variant,,ENST00000544951,;AC018816.3,intron_variant,,ENST00000449914,;AC018816.3,intron_variant,,ENST00000441894,;ITPR1,intron_variant,,ENST00000463980,;ITPR1,intron_variant,,ENST00000493491,;AC018816.3,intron_variant,,ENST00000489771,;AC018816.3,intron_variant,,ENST00000496600,;AC018816.3,intron_variant,,ENST00000465436,;ITPR1,intron_variant,,ENST00000478515,;"	"CACACACACACA"	"ENSG00000150995"	"ENST00000302640"	"Transcript"	"intron_variant"	"-/10197"	"-/8232"	"-/2743"	""	""	""	"1"	NA	1	"ITPR1"	"HGNC"	6180	"protein_coding"	"YES"	"CCDS54551.1"	"ENSP00000306253"	"Q14643"	""	"UPI0000E5A461"	"NM_001168272.1"	NA	NA	""	"59/60"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"23"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"5c3a2c74-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"1743"	"GRM7"	2917	"mskcc.org"	"GRCh37"	"3"	6904373	6904374	"+"	"Intron"	"INS"	"-"	"-"	"GCTAACT"	"rs113925177"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.519+781_519+782insTAACTGC"	""	""	"ENST00000357716"	""	11	"."	6	6	"."	0	"GRM7,intron_variant,,ENST00000486284,NM_181874.2;GRM7,intron_variant,,ENST00000357716,NM_000844.3;GRM7,intron_variant,,ENST00000389336,;GRM7,intron_variant,,ENST00000402647,;GRM7,intron_variant,,ENST00000403881,;GRM7,intron_variant,,ENST00000448328,;GRM7,intron_variant,,ENST00000467425,;GRM7,intron_variant,,ENST00000440923,;GRM7,intron_variant,,ENST00000389335,;GRM7,intron_variant,,ENST00000443259,;GRM7,upstream_gene_variant,,ENST00000435689,;"	"GCTAACT"	"ENSG00000196277"	"ENST00000357716"	"Transcript"	"intron_variant"	"-/4127"	"-/2748"	"-/915"	""	""	"rs113925177"	"1"	NA	1	"GRM7"	"HGNC"	4599	"protein_coding"	"YES"	"CCDS43042.1"	"ENSP00000350348"	"Q14831"	"C9JU97"	"UPI000004A7E3"	"NM_000844.3"	NA	NA	""	"1/9"	""	"-:0.2378"	"GCTAACT:0.829"	"GCTAACT:0.7767"	NA	"GCTAACT:0.6518"	"GCTAACT:0.7555"	"GCTAACT:0.7822"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"5c8d31c6-2764-11e6-be88-1087424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"1744"	"LMCD1-AS1"	101927394	"mskcc.org"	"GRCh37"	"3"	8299405	8299428	"+"	"Intron"	"DEL"	"GAAGGAAGGAAGGAAGGAAGGAAG"	"GAAGGAAGGAAGGAAGGAAGGAAG"	"-"	"rs145434533"	NA	"JHCCPT1"	"JHCCPN1"	"GAAGGAAGGAAGGAAGGAAGGAAG"	"GAAGGAAGGAAGGAAGGAAGGAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.572-35022_572-34999delCTTCCTTCCTTCCTTCCTTCCTTC"	""	""	"ENST00000420095"	""	8	"."	3	4	"."	0	"LMCD1-AS1,intron_variant,,ENST00000420095,;LMCD1-AS1,intron_variant,,ENST00000452802,;LMCD1-AS1,intron_variant,,ENST00000446281,;"	"-"	"ENSG00000227110"	"ENST00000420095"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2144"	""	""	""	""	"rs145434533"	"1"	NA	-1	"LMCD1-AS1"	"HGNC"	44477	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"3/3"	""	"GAAGGAAGGAAGGAAGGAAGGAAG:0.4902"	"-:0.7602"	"-:0.4957"	NA	"-:0.3532"	"-:0.4384"	"-:0.4162"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGAAGGAAGGAAGGAAGGAAGGAAGG"	"301d91ee-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1745"	"LMCD1-AS1"	101927394	"mskcc.org"	"GRCh37"	"3"	8299494	8299495	"+"	"Intron"	"INS"	"-"	"-"	"GAAGGAAAGAAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.572-35100_572-35089dupTTTCTTTCCTTC"	""	""	"ENST00000420095"	""	35	"."	4	25	"."	0	"LMCD1-AS1,intron_variant,,ENST00000420095,;LMCD1-AS1,intron_variant,,ENST00000452802,;LMCD1-AS1,intron_variant,,ENST00000446281,;"	"GAAGGAAAGAAA"	"ENSG00000227110"	"ENST00000420095"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2144"	""	""	""	""	""	"1"	NA	-1	"LMCD1-AS1"	"HGNC"	44477	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"5c969ff4-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WXS"	FALSE
"1746"	"RAD18"	56852	"mskcc.org"	"GRCh37"	"3"	8955647	8955648	"+"	"Intron"	"INS"	"-"	"AGTCA"	"AGTCA"	"rs2307528"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.890-248_890-244dupTGACT"	""	""	"ENST00000264926"	""	13	"."	10	2	"."	0	"RAD18,intron_variant,,ENST00000264926,NM_020165.3;RAD18,intron_variant,,ENST00000415439,;RAD18,upstream_gene_variant,,ENST00000473069,;"	"AGTCA"	"ENSG00000070950"	"ENST00000264926"	"Transcript"	"intron_variant"	"-/5886"	"-/1488"	"-/495"	""	""	"rs2307528"	"1"	NA	-1	"RAD18"	"HGNC"	18278	"protein_coding"	"YES"	"CCDS2571.1"	"ENSP00000264926"	"Q9NS91"	"H7C0A5,C9J0Q4"	"UPI000013D592"	"NM_020165.3"	NA	NA	""	"7/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"5cbd5cac-2764-11e6-be88-1087424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.769230769230769	"WXS"	FALSE
"1747"	"SRGAP3-AS4"	0	"mskcc.org"	"GRCh37"	"3"	9300897	9300898	"+"	"3'Flank"	"INS"	"-"	"A"	"A"	"rs35179542"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000449023"	""	9	"."	7	2	"."	0	"SRGAP3-AS4,downstream_gene_variant,,ENST00000449023,;SRGAP3,intron_variant,,ENST00000490889,;"	"A"	"ENSG00000235830"	"ENST00000449023"	"Transcript"	"downstream_gene_variant"	"-/377"	""	""	""	""	"rs35179542"	"1"	"1706"	1	"SRGAP3-AS4"	"HGNC"	42434	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.0230"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"5cc5c2c0-2764-11e6-be88-1087424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	FALSE
"1748"	"IL17RE"	132014	"mskcc.org"	"GRCh37"	"3"	9941190	9941191	"+"	"5'Flank"	"INS"	"-"	"-"	"TTCCTCCCTCCCTTCCTCCCTCCCTCCCTTCTTTCCTCCCTTCCTCCTTCCCTCCCTGCTGCCTTCTCTCCCTCCCTCCT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000295980"	""	28	"."	3	9	"."	0	"IL17RE,upstream_gene_variant,,ENST00000454190,NM_001193380.1;IL17RE,upstream_gene_variant,,ENST00000295980,NM_153483.2;IL17RE,upstream_gene_variant,,ENST00000383814,NM_153480.1;IL17RE,upstream_gene_variant,,ENST00000421412,;IL17RE,upstream_gene_variant,,ENST00000454992,;IL17RE,upstream_gene_variant,,ENST00000383815,;IL17RE,upstream_gene_variant,,ENST00000434065,NM_153481.1;IL17RE,upstream_gene_variant,,ENST00000489181,;IL17RE,upstream_gene_variant,,ENST00000444427,;IL17RE,upstream_gene_variant,,ENST00000461534,;"	"TTCCTCCCTCCCTTCCTCCCTCCCTCCCTTCTTTCCTCCCTTCCTCCTTCCCTCCCTGCTGCCTTCTCTCCCTCCCTCCT"	"ENSG00000163701"	"ENST00000295980"	"Transcript"	"upstream_gene_variant"	"-/2709"	"-/2004"	"-/667"	""	""	""	"1"	"3112"	1	"IL17RE"	"HGNC"	18439	"protein_coding"	"YES"	"CCDS2589.1"	"ENSP00000295980"	"Q8NFR9"	""	"UPI000003E87E"	"NM_153483.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"5d0963e0-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WXS"	FALSE
"1749"	"ATP2B2"	491	"mskcc.org"	"GRCh37"	"3"	10363139	10363140	"+"	"3'Flank"	"INS"	"-"	"-"	"G"	"rs576703880"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000360273"	""	9	"."	4	3	"."	0	"ATP2B2,downstream_gene_variant,,ENST00000397077,;ATP2B2,downstream_gene_variant,,ENST00000360273,NM_001001331.2;ATP2B2,downstream_gene_variant,,ENST00000343816,;ATP2B2,downstream_gene_variant,,ENST00000383800,NM_001683.3;ATP2B2,downstream_gene_variant,,ENST00000352432,;SEC13,upstream_gene_variant,,ENST00000397117,;SEC13,upstream_gene_variant,,ENST00000383801,NM_001136026.2;SEC13,upstream_gene_variant,,ENST00000397109,NM_001136232.2;SEC13,upstream_gene_variant,,ENST00000350697,NM_183352.2;SEC13,upstream_gene_variant,,ENST00000337354,NM_030673.3;SEC13,upstream_gene_variant,,ENST00000431352,;SEC13,upstream_gene_variant,,ENST00000445064,;SEC13,upstream_gene_variant,,ENST00000432213,;SEC13,upstream_gene_variant,,ENST00000428626,;ATP2B2,downstream_gene_variant,,ENST00000460129,;SEC13,upstream_gene_variant,,ENST00000477547,;SEC13,upstream_gene_variant,,ENST00000397105,;SEC13,upstream_gene_variant,,ENST00000397101,;SEC13,upstream_gene_variant,,ENST00000397102,;SEC13,upstream_gene_variant,,ENST00000397099,;"	"G"	"ENSG00000157087"	"ENST00000360273"	"Transcript"	"downstream_gene_variant"	"-/8962"	"-/3732"	"-/1243"	""	""	"rs576703880"	"1"	"2567"	-1	"ATP2B2"	"HGNC"	815	"protein_coding"	"YES"	"CCDS33701.1"	"ENSP00000353414"	"Q01814"	"Q4J699,Q4J696"	"UPI00001261EF"	"NM_001001331.2"	NA	NA	""	""	""	"G:0.0903"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"5d445568-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1750"	"ATP2B2"	491	"mskcc.org"	"GRCh37"	"3"	10376498	10376499	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs5846654"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3420+3361dupC"	""	""	"ENST00000360273"	""	7	"."	5	1	"."	0	"ATP2B2,intron_variant,,ENST00000397077,;ATP2B2,intron_variant,,ENST00000360273,NM_001001331.2;ATP2B2,intron_variant,,ENST00000343816,;ATP2B2,intron_variant,,ENST00000383800,NM_001683.3;ATP2B2,intron_variant,,ENST00000352432,;ATP2B2,intron_variant,,ENST00000452124,;MIR378B,downstream_gene_variant,,ENST00000578876,;ATP2B2,intron_variant,,ENST00000467702,;ATP2B2,upstream_gene_variant,,ENST00000468426,;ATP2B2,intron_variant,,ENST00000460129,;"	"G"	"ENSG00000157087"	"ENST00000360273"	"Transcript"	"intron_variant"	"-/8962"	"-/3732"	"-/1243"	""	""	"rs5846654"	"1"	NA	-1	"ATP2B2"	"HGNC"	815	"protein_coding"	"YES"	"CCDS33701.1"	"ENSP00000353414"	"Q01814"	"Q4J699,Q4J696"	"UPI00001261EF"	"NM_001001331.2"	NA	NA	""	"22/22"	""	"-:0.0008"	"G:0.9985"	"G:1"	NA	"G:1"	"G:1"	"G:0.998"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"5d467e24-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1751"	"ATG7"	10533	"mskcc.org"	"GRCh37"	"3"	11559737	11559737	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs34253168"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2080-36548delG"	""	""	"ENST00000354449"	""	8	"."	4	2	"."	0	"ATG7,intron_variant,,ENST00000354449,NM_006395.2;ATG7,intron_variant,,ENST00000354956,NM_001136031.2;ATG7,intron_variant,,ENST00000446450,NM_001144912.1;"	"-"	"ENSG00000197548"	"ENST00000354449"	"Transcript"	"intron_variant"	"-/4959"	"-/2112"	"-/703"	""	""	"rs34253168"	"1"	NA	1	"ATG7"	"HGNC"	16935	"protein_coding"	"YES"	"CCDS2605.1"	"ENSP00000346437"	"O95352"	"H7C059,C9JNU2,C9JKA3,C9JGL2,C9JFF4,C9JE55"	"UPI00000705C7"	"NM_006395.2"	NA	NA	""	"18/18"	""	"G:0.2522"	"-:0.4826"	"-:0.8199"	NA	"-:0.9196"	"-:0.7485"	"-:0.8773"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGA"	"3194e9fa-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1752"	"AC090939.1"	0	"mskcc.org"	"GRCh37"	"3"	11766767	11766792	"+"	"5'Flank"	"DEL"	"CTTCTCCTCCTCCTTTTTTTCTTCTC"	"CTTCTCCTCCTCCTTTTTTTCTTCTC"	"-"	"rs201962805"	NA	"JHCCPT1"	"JHCCPN1"	"CTTCTCCTCCTCCTTTTTTTCTTCTC"	"CTTCTCCTCCTCCTTTTTTTCTTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000414047"	""	22	"."	3	6	"."	0	"VGLL4,upstream_gene_variant,,ENST00000273038,NM_014667.2;VGLL4,upstream_gene_variant,,ENST00000404339,NM_001284390.1;VGLL4,upstream_gene_variant,,ENST00000445411,;AC090939.1,upstream_gene_variant,,ENST00000414047,;VGLL4,upstream_gene_variant,,ENST00000463387,;VGLL4,upstream_gene_variant,,ENST00000426568,;"	"-"	"ENSG00000244030"	"ENST00000414047"	"Transcript"	"upstream_gene_variant"	"-/453"	""	""	""	""	"rs201962805"	"1"	"314"	-1	"AC090939.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTTCTCCTCCTCCTTTTTTTCTTCTCC"	"319ef81e-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"1753"	"MARK2P14"	0	"mskcc.org"	"GRCh37"	"3"	11947803	11947825	"+"	"5'Flank"	"DEL"	"TCACCACAGGGCTGCCAGGATAT"	"TCACCACAGGGCTGCCAGGATAT"	"GCCACAGGGCTGCCAGGATAT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TCACCACAGGGCTGCCAGGATAT"	"TCACCACAGGGCTGCCAGGATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000449657"	""	151	"."	48	71	"."	0	"MARK2P14,upstream_gene_variant,,ENST00000449657,;AC090958.5,downstream_gene_variant,,ENST00000511122,;"	"G"	"ENSG00000231897"	"ENST00000449657"	"Transcript"	"upstream_gene_variant"	"-/628"	""	""	""	""	""	"1"	"196"	1	"MARK2P14"	"HGNC"	44495	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTCACCACAGGGCTGCCAGGATATC"	"5ab59f8c-2764-11e6-be88-1087424a729f"	"2880"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317880794701987	"WXS"	FALSE
"1754"	"MARK2P14"	0	"mskcc.org"	"GRCh37"	"3"	11947803	11947825	"+"	"5'Flank"	"DEL"	"TCACCACAGGGCTGCCAGGATAT"	"TCACCACAGGGCTGCCAGGATAT"	"GCCACAGGGCTGCCAGGATAT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TCACCACAGGGCTGCCAGGATAT"	"TCACCACAGGGCTGCCAGGATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000449657"	""	151	"."	15	71	"."	0	"MARK2P14,upstream_gene_variant,,ENST00000449657,;AC090958.5,downstream_gene_variant,,ENST00000511122,;"	"G"	"ENSG00000231897"	"ENST00000449657"	"Transcript"	"upstream_gene_variant"	"-/628"	""	""	""	""	""	"1"	"196"	1	"MARK2P14"	"HGNC"	44495	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTCACCACAGGGCTGCCAGGATATC"	"5ab6a5ee-2764-11e6-be88-1087424a729f"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0993377483443709	"WXS"	FALSE
"1755"	"RNU6-905P"	0	"mskcc.org"	"GRCh37"	"3"	14568898	14568899	"+"	"3'Flank"	"INS"	"-"	"-"	"GGAAAGGAAAGGAAAGAAAG"	"rs72297166"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384434"	""	13	"."	3	5	"."	0	"RNU6-905P,downstream_gene_variant,,ENST00000384434,;GRIP2,intron_variant,,ENST00000273083,;GRIP2,intron_variant,,ENST00000443613,;GRIP2,intron_variant,,ENST00000507975,;GRIP2,intron_variant,,ENST00000383795,;GRIP2,intron_variant,,ENST00000413414,;GRIP2,upstream_gene_variant,,ENST00000422481,;"	"GGAAAGGAAAGGAAAGAAAG"	"ENSG00000207163"	"ENST00000384434"	"Transcript"	"downstream_gene_variant"	"-/107"	""	""	""	""	"rs72297166"	"1"	"3590"	-1	"RNU6-905P"	"HGNC"	47868	"snRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"GGAAAGGAAAGGAAAGAAAG:0.4177"	"GGAAAGGAAAGGAAAGAAAG:0.1112"	"GGAAAGGAAAGGAAAGAAAG:0.513"	NA	"GGAAAGGAAAGGAAAGAAAG:0.5645"	"GGAAAGGAAAGGAAAGAAAG:0.4125"	"GGAAAGGAAAGGAAAGAAAG:0.6186"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"5defaae4-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"1756"	"C3orf20"	84077	"mskcc.org"	"GRCh37"	"3"	14815041	14815042	"+"	"3'Flank"	"INS"	"-"	"-"	"GGAGGGGAACAAGTAAGCGGG"	"rs372578779"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000253697"	""	14	"."	3	10	"."	0	"C3orf20,downstream_gene_variant,,ENST00000253697,NM_032137.4;C3orf20,downstream_gene_variant,,ENST00000435614,NM_001184958.1;C3orf20,downstream_gene_variant,,ENST00000412910,NM_001184957.1;"	"GGAGGGGAACAAGTAAGCGGG"	"ENSG00000131379"	"ENST00000253697"	"Transcript"	"downstream_gene_variant"	"-/3326"	"-/2715"	"-/904"	""	""	"rs372578779"	"1"	"500"	1	"C3orf20"	"HGNC"	25320	"protein_coding"	"YES"	"CCDS33706.1"	"ENSP00000253697"	"Q8ND61"	""	"UPI000013CDE9"	"NM_032137.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"5dfc9146-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"1757"	"NR2C2"	7182	"mskcc.org"	"GRCh37"	"3"	15071349	15071350	"+"	"Intron"	"INS"	"-"	"-"	"AGATATAG"	"rs748604063"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.990-432_990-431insGATATAGA"	""	""	"ENST00000323373"	""	20	"."	4	5	"."	0	"NR2C2,intron_variant,,ENST00000425241,;NR2C2,intron_variant,,ENST00000323373,NM_003298.3;NR2C2,intron_variant,,ENST00000393102,;NR2C2,intron_variant,,ENST00000406272,;NR2C2,upstream_gene_variant,,ENST00000439011,;NR2C2,upstream_gene_variant,,ENST00000413194,;NR2C2,intron_variant,,ENST00000478572,;NR2C2,intron_variant,,ENST00000475707,;NR2C2,upstream_gene_variant,,ENST00000495282,;"	"AGATATAG"	"ENSG00000177463"	"ENST00000323373"	"Transcript"	"intron_variant"	"-/2406"	"-/1848"	"-/615"	""	""	"rs748604063"	"1"	NA	1	"NR2C2"	"HGNC"	7972	"protein_coding"	"YES"	"CCDS2621.1"	"ENSP00000320447"	"P49116"	"F2YGU2,C9J2Y1"	"UPI00001AF3B4"	"NM_003298.3"	NA	NA	""	"9/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"5e176c6e-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"1758"	"COLQ"	8292	"mskcc.org"	"GRCh37"	"3"	15563252	15563253	"+"	"5'UTR"	"DEL"	"GC"	"GC"	"-"	"rs530131087"	NA	"JHCCPT1"	"JHCCPN1"	"GC"	"GC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-121_-120delGC"	""	""	"ENST00000383788"	"1/17"	97	"."	4	31	"."	0	"COLQ,5_prime_UTR_variant,,ENST00000383785,;COLQ,5_prime_UTR_variant,,ENST00000383788,NM_005677.3;COLQ,5_prime_UTR_variant,,ENST00000383787,;COLQ,5_prime_UTR_variant,,ENST00000603808,;COLQ,upstream_gene_variant,,ENST00000383786,NM_080539.3;"	"-"	"ENSG00000206561"	"ENST00000383788"	"Transcript"	"5_prime_UTR_variant"	"6-7/2991"	"-/1368"	"-/455"	""	""	"rs530131087"	"1"	NA	-1	"COLQ"	"HGNC"	2226	"protein_coding"	"YES"	"CCDS33709.1"	"ENSP00000373298"	"Q9Y215"	""	"UPI000013F74C"	"NM_005677.3"	NA	NA	"1/17"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTGCG"	"32e31084-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0412371134020619	"WXS"	FALSE
"1759"	"ENSR00001358511"	0	"mskcc.org"	"GRCh37"	"3"	16018302	16018304	"+"	"IGR"	"DEL"	"CTT"	"CTT"	"-"	"rs10592090"	NA	"JHCCPT1"	"JHCCPN1"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001358511"	""	7	"."	3	1	"."	0	""	"-"	""	"ENSR00001358511"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs10592090"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3588"	"-:0.2436"	"-:0.5418"	NA	"-:0.244"	"-:0.5308"	"-:0.3262"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACCTTC"	"330a403c-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1760"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	17160541	17160541	"+"	"IGR"	"DEL"	"T"	"-"	"-"	"rs11303857"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11303857"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTT"	"3352e2b0-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1761"	"TBC1D5"	9779	"mskcc.org"	"GRCh37"	"3"	17469888	17469889	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs35081140"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.167+53_167+54delCA"	""	""	"ENST00000446818"	""	38	"."	5	6	"."	0	"TBC1D5,intron_variant,,ENST00000253692,NM_014744.2;TBC1D5,intron_variant,,ENST00000429383,NM_001134380.1;TBC1D5,intron_variant,,ENST00000446818,NM_001134381.1;TBC1D5,intron_variant,,ENST00000415814,;TBC1D5,intron_variant,,ENST00000428355,;TBC1D5,intron_variant,,ENST00000414349,;TBC1D5,intron_variant,,ENST00000445294,;TBC1D5,intron_variant,,ENST00000425944,;TBC1D5,intron_variant,,ENST00000507877,;TBC1D5,intron_variant,,ENST00000446863,;TBC1D5,intron_variant,,ENST00000434420,;TBC1D5,intron_variant,,ENST00000414318,;TBC1D5,intron_variant,,ENST00000443499,;TBC1D5,intron_variant,,ENST00000497531,;TBC1D5,intron_variant,,ENST00000443386,;TBC1D5,intron_variant,,ENST00000444756,;TBC1D5,intron_variant,,ENST00000412981,;TBC1D5,intron_variant,,ENST00000452492,;TBC1D5,intron_variant,,ENST00000430169,;"	"-"	"ENSG00000131374"	"ENST00000446818"	"Transcript"	"intron_variant"	"-/3124"	"-/2454"	"-/817"	""	""	"rs35081140"	"1"	NA	-1	"TBC1D5"	"HGNC"	19166	"protein_coding"	"YES"	"CCDS46770.1"	"ENSP00000402935"	"Q92609"	"F2Z3C3,C9K0P2,C9JWX0,C9JW04,C9JNM0,C9JMP7,C9JIU4,C9JED7,C9JDR8,C9J397"	"UPI00017E10F6"	"NM_001134381.1"	NA	NA	""	"5/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATGT"	"3357ae62-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WXS"	FALSE
"1762"	"NR1D2"	9975	"mskcc.org"	"GRCh37"	"3"	23986698	23986698	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"rs369272943"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000312521"	""	7	"."	4	2	"."	0	"NKIRAS1,intron_variant,,ENST00000421515,;NR1D2,upstream_gene_variant,,ENST00000312521,NM_005126.4,NM_001145425.1;NR1D2,upstream_gene_variant,,ENST00000492552,;NR1D2,upstream_gene_variant,,ENST00000383773,;"	"-"	"ENSG00000174738"	"ENST00000312521"	"Transcript"	"upstream_gene_variant"	"-/5258"	"-/1740"	"-/579"	""	""	"rs369272943"	"1"	"53"	1	"NR1D2"	"HGNC"	7963	"protein_coding"	"YES"	"CCDS33718.1"	"ENSP00000310006"	"Q14995"	""	"UPI0000209A6C"	"NM_005126.4,NM_001145425.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGG"	"342fb53c-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1763"	"RARB"	5915	"mskcc.org"	"GRCh37"	"3"	25455566	25455567	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs5847354"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.179-47115dupC"	""	""	"ENST00000404969"	""	6	"."	4	1	"."	0	"RARB,intron_variant,,ENST00000404969,;RARB,intron_variant,,ENST00000383772,;"	"C"	"ENSG00000077092"	"ENST00000404969"	"Transcript"	"intron_variant"	"-/1368"	"-/1368"	"-/455"	""	""	"rs5847354"	"1"	NA	1	"RARB"	"HGNC"	9865	"protein_coding"	""	""	"ENSP00000385865"	"P10826"	"Q5QHG3,D6RBI3,B4DSI3"	"UPI0000134A16"	""	NA	NA	""	"1/7"	""	"-:0.3015"	"C:0.7405"	"C:0.621"	NA	"C:0.8125"	"C:0.5835"	"C:0.6973"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTC"	"5f367c48-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1764"	"RARB"	5915	"mskcc.org"	"GRCh37"	"3"	25484913	25484913	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs5847355"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.157+14542delT"	""	""	"ENST00000330688"	""	8	"."	4	3	"."	0	"RARB,intron_variant,,ENST00000330688,NM_000965.3;RARB,intron_variant,,ENST00000437042,NM_016152.3;RARB,intron_variant,,ENST00000404969,;RARB,intron_variant,,ENST00000383772,;RARB,intron_variant,,ENST00000462272,;RARB,intron_variant,,ENST00000479097,;RARB,intron_variant,,ENST00000480001,;RARB,intron_variant,,ENST00000489694,;AC133141.1,upstream_gene_variant,,ENST00000443015,;"	"-"	"ENSG00000077092"	"ENST00000330688"	"Transcript"	"intron_variant"	"-/3084"	"-/1347"	"-/448"	""	""	"rs5847355"	"1"	NA	1	"RARB"	"HGNC"	9865	"protein_coding"	"YES"	"CCDS2642.1"	"ENSP00000332296"	"P10826"	"Q5QHG3,F1D8S6"	"UPI000002B2CB"	"NM_000965.3"	NA	NA	""	"1/7"	""	"-:0.3361"	"-:0.3139"	"-:0.3012"	NA	"-:0.3978"	"-:0.3748"	"-:0.2873"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCTT"	"3456cbea-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1765"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	26873130	26873131	"+"	"IGR"	"INS"	"-"	"AG"	"AG"	"rs3033267"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	2	"."	0	""	"AG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs3033267"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AG:0.2188"	"AG:0.0658"	"AG:0.255"	NA	"AG:0.2877"	"AG:0.326"	"AG:0.2188"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"5f573a1e-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1766"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	27997364	27997369	"+"	"IGR"	"DEL"	"CCCTTC"	"CCCTTC"	"-"	"rs150344616"	NA	"JHCCPT1"	"JHCCPN1"	"CCCTTC"	"CCCTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	9	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150344616"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCCCTTCC"	"3498cb9e-2764-11e6-be88-1087424a729f"	"177"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1767"	"AC092415.1"	0	"mskcc.org"	"GRCh37"	"3"	28069392	28069395	"+"	"Intron"	"DEL"	"TTCC"	"TTCC"	"-"	"rs143373205"	NA	"JHCCPT1"	"JHCCPN1"	"TTCC"	"TTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.96+605_96+608delGGAA"	""	""	"ENST00000356047"	""	12	"."	3	2	"."	0	"AC092415.1,intron_variant,,ENST00000356047,;AC092415.1,intron_variant,,ENST00000437506,;"	"-"	"ENSG00000235493"	"ENST00000356047"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/755"	""	""	""	""	"rs143373205"	"1"	NA	-1	"AC092415.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTCCT"	"3499df84-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1768"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	28270789	28270790	"+"	"IGR"	"INS"	"-"	"-"	"TCTCTCTCTC"	"rs141802691"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	2	"."	0	""	"TCTCTCTCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141802691"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"5f709a0e-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1769"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	31477960	31477963	"+"	"IGR"	"DEL"	"CTAA"	"-"	"-"	"rs35091557"	NA	"JHCCPT1"	"JHCCPN1"	"CTAA"	"CTAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35091557"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3878"	"-:0.5287"	"-:0.3401"	NA	"-:0.381"	"-:0.3569"	"-:0.2699"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCTAAC"	"34e9713e-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1770"	"RPL30P4"	0	"mskcc.org"	"GRCh37"	"3"	32677110	32677111	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs35777019"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000429309"	""	18	"."	5	5	"."	0	"RPL30P4,upstream_gene_variant,,ENST00000429309,;"	"G"	"ENSG00000237676"	"ENST00000429309"	"Transcript"	"upstream_gene_variant"	"-/333"	""	""	""	""	"rs35777019"	"1"	"64"	-1	"RPL30P4"	"HGNC"	35871	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.4167"	"G:0.826"	"G:0.2118"	NA	"G:0.3095"	"G:0.2525"	"G:0.2883"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"5fc8195a-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"1771"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	32704859	32704860	"+"	"IGR"	"INS"	"-"	"-"	"GA"	"rs10654808"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	5	2	"."	0	""	"GA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10654808"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4637"	"GA:0.7027"	"GA:0.4179"	NA	"GA:0.5893"	"GA:0.3588"	"GA:0.5235"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"5fcaaa8a-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1772"	"UBP1"	7342	"mskcc.org"	"GRCh37"	"3"	33454090	33454090	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.448+124delC"	""	""	"ENST00000283629"	""	292	"."	3	165	"."	0	"UBP1,intron_variant,,ENST00000283629,NM_014517.4,NM_001128161.1;UBP1,intron_variant,,ENST00000447368,NM_001128160.1;UBP1,intron_variant,,ENST00000283628,;UBP1,downstream_gene_variant,,ENST00000456378,;RNU7-110P,upstream_gene_variant,,ENST00000516891,;UBP1,intron_variant,,ENST00000467613,;UBP1,intron_variant,,ENST00000481761,;UBP1,upstream_gene_variant,,ENST00000486388,;UBP1,downstream_gene_variant,,ENST00000496310,;UBP1,upstream_gene_variant,,ENST00000411650,;"	"-"	"ENSG00000153560"	"ENST00000283629"	"Transcript"	"intron_variant"	"-/4148"	"-/1623"	"-/540"	""	""	""	"1"	NA	-1	"UBP1"	"HGNC"	12507	"protein_coding"	"YES"	"CCDS2659.1"	"ENSP00000283629"	"Q9NZI7"	"C9JWL3"	"UPI00000701D7"	"NM_014517.4,NM_001128161.1"	NA	NA	""	"4/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGA"	"35b9912a-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0102739726027397	"WXS"	FALSE
"1773"	"STAC"	6769	"mskcc.org"	"GRCh37"	"3"	36591020	36591021	"+"	"3'Flank"	"INS"	"-"	"-"	"C"	"rs11387771"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000273183"	""	8	"."	4	3	"."	0	"STAC,downstream_gene_variant,,ENST00000273183,NM_003149.1;STAC,downstream_gene_variant,,ENST00000457375,;"	"C"	"ENSG00000144681"	"ENST00000273183"	"Transcript"	"downstream_gene_variant"	"-/3227"	"-/1209"	"-/402"	""	""	"rs11387771"	"1"	"1521"	1	"STAC"	"HGNC"	11353	"protein_coding"	"YES"	"CCDS2662.1"	"ENSP00000273183"	"Q99469"	"B4DZ13"	"UPI0000136081"	"NM_003149.1"	NA	NA	""	""	""	"-:0.1238"	"C:0.9947"	"C:0.9164"	NA	"C:0.8343"	"C:0.8658"	"C:0.7413"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"60466b52-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1774"	"TRANK1"	9881	"mskcc.org"	"GRCh37"	"3"	36934344	36934345	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.504+47_504+48delAT"	""	""	"ENST00000429976"	""	12	"."	5	5	"."	0	"TRANK1,intron_variant,,ENST00000301807,NM_014831.2;TRANK1,intron_variant,,ENST00000429976,;TRANK1,intron_variant,,ENST00000505962,;"	"-"	"ENSG00000168016"	"ENST00000429976"	"Transcript"	"intron_variant"	"-/10481"	"-/8778"	"-/2925"	""	""	""	"1"	NA	-1	"TRANK1"	"HGNC"	29011	"protein_coding"	"YES"	"CCDS46789.2"	"ENSP00000416168"	"O15050"	"B7WP88"	"UPI00017BE82B"	""	NA	NA	""	"5/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.2185"	"0.2105"	"0.4474"	"0.5213"	"0.4458"	"0.3903"	"0.4"	"0.4031"	NA	"common_variant"	"ACATA"	"3642fe9c-2764-11e6-be88-1087424a729f"	"300"	0.3961	"1551/3916"	"2961/13552"	"48/228"	"34/76"	"49/94"	"148/332"	"370/948"	"20/50"	"882/2188"	"PASS"	"FALSE"	0.416666666666667	"WXS"	FALSE
"1775"	"CTDSPL"	10217	"mskcc.org"	"GRCh37"	"3"	38029293	38029294	"+"	"3'Flank"	"INS"	"-"	"-"	"ACAC"	"rs144034952"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000273179"	""	8	"."	4	1	"."	0	"CTDSPL,downstream_gene_variant,,ENST00000443503,NM_005808.2;CTDSPL,downstream_gene_variant,,ENST00000273179,NM_001008392.1;VILL,upstream_gene_variant,,ENST00000283713,;CTDSPL,downstream_gene_variant,,ENST00000447745,;VILL,upstream_gene_variant,,ENST00000492491,;VILL,upstream_gene_variant,,ENST00000416303,;"	"ACAC"	"ENSG00000144677"	"ENST00000273179"	"Transcript"	"downstream_gene_variant"	"-/4459"	"-/831"	"-/276"	""	""	"rs144034952"	"1"	"3333"	1	"CTDSPL"	"HGNC"	16890	"protein_coding"	"YES"	"CCDS33734.1"	"ENSP00000273179"	"O15194"	""	"UPI00001BE8E2"	"NM_001008392.1"	NA	NA	""	""	""	"ACAC:0.1394"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"6089b808-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1776"	"MYRIP"	25924	"mskcc.org"	"GRCh37"	"3"	39953545	39953546	"+"	"Intron"	"INS"	"-"	"GAG"	"GAG"	"rs10622572"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.110+11129_110+11130insAGG"	""	""	"ENST00000302541"	""	6	"."	5	2	"."	0	"MYRIP,intron_variant,,ENST00000302541,NM_015460.2,NM_001284423.1;MYRIP,intron_variant,,ENST00000396217,NM_001284425.1;MYRIP,intron_variant,,ENST00000425621,NM_001284424.1;MYRIP,intron_variant,,ENST00000444716,;MYRIP,intron_variant,,ENST00000475082,;MYRIP,intron_variant,,ENST00000458292,;MYRIP,intron_variant,,ENST00000458441,;"	"GAG"	"ENSG00000170011"	"ENST00000302541"	"Transcript"	"intron_variant"	"-/5077"	"-/2580"	"-/859"	""	""	"rs10622572"	"1"	NA	1	"MYRIP"	"HGNC"	19156	"protein_coding"	"YES"	"CCDS2689.1"	"ENSP00000301972"	"Q8NFW9"	""	"UPI0000074787"	"NM_015460.2,NM_001284423.1"	NA	NA	""	"2/16"	""	"GAG:0.4567"	"GAG:0.5227"	"GAG:0.438"	NA	"GAG:0.4881"	"GAG:0.4394"	"GAG:0.3661"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"61198f6e-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1777"	"ULK4"	54986	"mskcc.org"	"GRCh37"	"3"	41338410	41338412	"+"	"Intron"	"DEL"	"GAA"	"-"	"-"	"rs34460419"	NA	"JHCCPT1"	"JHCCPN1"	"GAA"	"GAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3679-47347_3679-47345delTTC"	""	""	"ENST00000301831"	""	7	"."	6	2	"."	0	"ULK4,intron_variant,,ENST00000301831,NM_017886.2;"	"-"	"ENSG00000168038"	"ENST00000301831"	"Transcript"	"intron_variant"	"-/4613"	"-/3828"	"-/1275"	""	""	"rs34460419"	"1"	NA	-1	"ULK4"	"HGNC"	15784	"protein_coding"	"YES"	"CCDS43071.1"	"ENSP00000301831"	"Q96C45"	"B3KSE5"	"UPI0000E8267C"	"NM_017886.2"	NA	NA	""	"35/36"	""	"-:0.4205"	"-:0.1165"	"-:0.5144"	NA	"-:0.6319"	"-:0.5388"	"-:0.4254"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAG"	"378157a4-2764-11e6-be88-1087424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"1778"	"SEC22C"	9117	"mskcc.org"	"GRCh37"	"3"	42608013	42608013	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs372280770"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.182+2344delT"	""	""	"ENST00000264454"	""	11	"."	5	4	"."	0	"SEC22C,intron_variant,,ENST00000273156,NM_032970.3,NM_004206.3;SEC22C,intron_variant,,ENST00000417572,NM_001201572.1;SEC22C,intron_variant,,ENST00000423701,NM_001201584.1;SEC22C,intron_variant,,ENST00000536332,;SEC22C,intron_variant,,ENST00000264454,;SEC22C,intron_variant,,ENST00000456515,;SEC22C,intron_variant,,ENST00000450981,;SEC22C,intron_variant,,ENST00000420163,;SEC22C,intron_variant,,ENST00000416880,;SEC22C,upstream_gene_variant,,ENST00000451653,;SEC22C,intron_variant,,ENST00000493107,;SEC22C,intron_variant,,ENST00000456222,;SEC22C,intron_variant,,ENST00000449617,;SEC22C,intron_variant,,ENST00000445388,;SEC22C,intron_variant,,ENST00000454141,;SEC22C,intron_variant,,ENST00000383750,;SEC22C,upstream_gene_variant,,ENST00000487701,;"	"-"	"ENSG00000093183"	"ENST00000264454"	"Transcript"	"intron_variant"	"-/1380"	"-/912"	"-/303"	""	""	"rs372280770"	"1"	NA	-1	"SEC22C"	"HGNC"	16828	"protein_coding"	"YES"	"CCDS2700.1"	"ENSP00000264454"	"Q9BRL7"	"C9J9A4,C9J448,C9J2R1"	"UPI000006D0A7"	""	NA	NA	""	"2/6"	""	"-:0.1278"	"-:0.2572"	"-:0.0476"	NA	"-:0.004"	"-:0.1143"	"-:0.1513"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"37ea6b7c-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"1779"	"SNRK"	54861	"mskcc.org"	"GRCh37"	"3"	43344363	43344364	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35710087"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-106-218dupT"	""	""	"ENST00000296088"	""	12	"."	3	4	"."	0	"SNRK,intron_variant,,ENST00000296088,NM_017719.4;SNRK,intron_variant,,ENST00000429705,NM_001100594.1;SNRK,intron_variant,,ENST00000454177,;SNRK,intron_variant,,ENST00000437827,;SNRK,upstream_gene_variant,,ENST00000462810,;"	"T"	"ENSG00000163788"	"ENST00000296088"	"Transcript"	"intron_variant"	"-/5183"	"-/2298"	"-/765"	""	""	"rs35710087"	"1"	NA	1	"SNRK"	"HGNC"	30598	"protein_coding"	"YES"	"CCDS43075.1"	"ENSP00000296088"	"Q9NRH2"	"E7EUC4"	"UPI00000558E4"	"NM_017719.4"	NA	NA	""	"2/6"	""	"T:0.0533"	"T:0.0076"	"T:0.0893"	NA	"T:0.002"	"T:0.1451"	"T:0.0481"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"61791c86-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1780"	"ENSR00001362361"	0	"mskcc.org"	"GRCh37"	"3"	43785326	43785327	"+"	"IGR"	"INS"	"-"	"-"	"TGTGTG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001362361"	""	12	"."	4	5	"."	0	""	"TGTGTG"	""	"ENSR00001362361"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"61936456-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1781"	"ZNF502"	91392	"mskcc.org"	"GRCh37"	"3"	44750688	44750689	"+"	"5'Flank"	"DEL"	"TG"	"TG"	"-"	"rs72142029"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000296091"	""	9	"."	5	6	"."	0	"ZNF502,upstream_gene_variant,,ENST00000296091,NM_001134440.1,NM_033210.4,NM_001282880.1;ZNF502,upstream_gene_variant,,ENST00000449836,NM_001134441.1,NM_001134442.1;ZNF502,upstream_gene_variant,,ENST00000436624,;ZNF502,upstream_gene_variant,,ENST00000411443,;SOCS5P3,downstream_gene_variant,,ENST00000425115,;"	"-"	"ENSG00000196653"	"ENST00000296091"	"Transcript"	"upstream_gene_variant"	"-/3270"	"-/1635"	"-/544"	""	""	"rs72142029"	"1"	"3449"	1	"ZNF502"	"HGNC"	23718	"protein_coding"	"YES"	"CCDS2719.1"	"ENSP00000296091"	"Q8TBZ5"	"C9JLT3"	"UPI0000072CFB"	"NM_001134440.1,NM_033210.4,NM_001282880.1"	NA	NA	""	""	""	"TG:0.0068"	"-:0.9977"	"-:0.987"	NA	"-:0.994"	"-:0.9861"	"-:0.998"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGT"	"38af2f84-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"1782"	"LRRC2"	79442	"mskcc.org"	"GRCh37"	"3"	46605786	46605787	"+"	"Intron"	"INS"	"-"	"-"	"CCACTTTACAGAGCCAT"	"rs780916592"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-20+1864_-20+1880dupATGGCTCTGTAAAGTGG"	""	""	"ENST00000395905"	""	9	"."	4	1	"."	0	"LRRC2,intron_variant,,ENST00000395905,NM_024512.4;LRRC2,intron_variant,,ENST00000296144,;LUZPP1,downstream_gene_variant,,ENST00000599511,;LRRC2,intron_variant,,ENST00000496388,;LRRC2,intron_variant,,ENST00000469912,;"	"CCACTTTACAGAGCCAT"	"ENSG00000163827"	"ENST00000395905"	"Transcript"	"intron_variant"	"-/5100"	"-/1116"	"-/371"	""	""	"rs780916592"	"1"	NA	-1	"LRRC2"	"HGNC"	14676	"protein_coding"	"YES"	"CCDS2741.1"	"ENSP00000379241"	"Q9BYS8"	""	"UPI00000362F5"	"NM_024512.4"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"623bdd7a-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1783"	"AC104304.1"	0	"mskcc.org"	"GRCh37"	"3"	46666454	46666455	"+"	"5'Flank"	"DEL"	"TA"	"TA"	"-"	"rs35282889"	NA	"JHCCPT1"	"JHCCPN1"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000537000"	""	9	"."	3	1	"."	0	"TDGF1,intron_variant,,ENST00000444264,;AC104304.1,upstream_gene_variant,,ENST00000537000,;"	"-"	"ENSG00000256354"	"ENST00000537000"	"Transcript"	"upstream_gene_variant"	"-/426"	""	""	""	""	"rs35282889"	"1"	"817"	1	"AC104304.1"	"Clone_based_ensembl_gene"	NA	"pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"TA:0.3981"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTAT"	"39672daa-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1784"	"SLC26A6"	65010	"mskcc.org"	"GRCh37"	"3"	48666660	48666661	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs11459984"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1599+414dupG"	""	""	"ENST00000395550"	""	12	"."	5	2	"."	0	"SLC26A6,intron_variant,,ENST00000358747,NM_001040454.1;SLC26A6,intron_variant,,ENST00000420764,NM_134263.2,NM_022911.2;SLC26A6,intron_variant,,ENST00000395550,;SLC26A6,intron_variant,,ENST00000383733,NM_134426.2;SLC26A6,intron_variant,,ENST00000455886,NM_001281732.1;SLC26A6,intron_variant,,ENST00000337000,NM_001281733.1;SLC26A6,downstream_gene_variant,,ENST00000421649,;SLC26A6,downstream_gene_variant,,ENST00000431739,;SLC26A6,downstream_gene_variant,,ENST00000426599,;SLC26A6,downstream_gene_variant,,ENST00000482282,;SLC26A6,intron_variant,,ENST00000489483,;SLC26A6,intron_variant,,ENST00000480524,;SLC26A6,intron_variant,,ENST00000307364,;SLC26A6,intron_variant,,ENST00000496469,;SLC26A6,intron_variant,,ENST00000462009,;SLC26A6,intron_variant,,ENST00000469693,;SLC26A6,downstream_gene_variant,,ENST00000444531,;SLC26A6,downstream_gene_variant,,ENST00000414944,;SLC26A6,upstream_gene_variant,,ENST00000466257,;SLC26A6,downstream_gene_variant,,ENST00000485361,;SLC26A6,downstream_gene_variant,,ENST00000431213,;SLC26A6,downstream_gene_variant,,ENST00000494717,;"	"C"	"ENSG00000225697"	"ENST00000395550"	"Transcript"	"intron_variant"	"-/2589"	"-/2280"	"-/759"	""	""	"rs11459984"	"1"	NA	-1	"SLC26A6"	"HGNC"	14472	"protein_coding"	"YES"	"CCDS43087.1"	"ENSP00000378920"	"Q9BXS9"	"Q9Y3Y1"	"UPI0000135460"	""	NA	NA	""	"14/20"	""	"C:0.0649"	"C:0.2141"	"C:0.0403"	NA	"C:0"	"C:0.0119"	"C:0.002"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"63035472-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"1785"	"DOCK3"	1795	"mskcc.org"	"GRCh37"	"3"	50900318	50900319	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs34443675"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.162+21172_162+21173insAA"	""	""	"ENST00000266037"	""	6	"."	4	4	"."	0	"DOCK3,intron_variant,,ENST00000266037,NM_004947.4;"	"AA"	"ENSG00000088538"	"ENST00000266037"	"Transcript"	"intron_variant"	"-/8755"	"-/6093"	"-/2030"	""	""	"rs34443675"	"1"	NA	1	"DOCK3"	"HGNC"	2989	"protein_coding"	"YES"	"CCDS46835.1"	"ENSP00000266037"	"Q8IZD9"	""	"UPI000007412C"	"NM_004947.4"	NA	NA	""	"3/52"	""	"AA:0.3015"	"AA:0.4289"	"AA:0.4092"	NA	"AA:0.4028"	"AA:0.1421"	"AA:0.1125"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"63994144-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1786"	"TMEM110-MUSTN1"	375346	"mskcc.org"	"GRCh37"	"3"	52868717	52868717	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs77032405"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.880-952delG"	""	""	"ENST00000504329"	""	21	"."	7	9	"."	0	"TMEM110-MUSTN1,intron_variant,,ENST00000504329,NM_001198974.2;TMEM110-MUSTN1,intron_variant,,ENST00000514466,;MUSTN1,intron_variant,,ENST00000446157,NM_205853.3;MUSTN1,intron_variant,,ENST00000486659,;TMEM110,downstream_gene_variant,,ENST00000355083,NM_198563.2;ITIH4,upstream_gene_variant,,ENST00000266041,NM_002218.4;ITIH4,upstream_gene_variant,,ENST00000346281,NM_001166449.1;ITIH4,upstream_gene_variant,,ENST00000485816,;ITIH4,upstream_gene_variant,,ENST00000406595,;ITIH4,upstream_gene_variant,,ENST00000434759,;TMEM110,downstream_gene_variant,,ENST00000482155,;RP5-966M1.6,upstream_gene_variant,,ENST00000513520,;RP5-966M1.6,intron_variant,,ENST00000468472,;TMEM110-MUSTN1,intron_variant,,ENST00000495552,;ITIH4,upstream_gene_variant,,ENST00000491663,;ITIH4,upstream_gene_variant,,ENST00000537897,;ITIH4,upstream_gene_variant,,ENST00000473904,;"	"-"	"ENSG00000248592"	"ENST00000504329"	"Transcript"	"intron_variant"	"-/1405"	"-/1119"	"-/372"	""	""	"rs77032405"	"1"	NA	-1	"TMEM110-MUSTN1"	"HGNC"	38834	"protein_coding"	"YES"	"CCDS56264.1"	"ENSP00000422941"	""	"A8MSY1"	"UPI000020AD4B"	"NM_001198974.2"	NA	NA	""	"8/9"	""	"-:0.4996"	"-:0.2973"	"-:0.4452"	NA	"-:0.629"	"-:0.5895"	"-:0.5859"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.3184"	"0.2963"	"0.5175"	"0.6771"	"0.5"	"0.6744"	"0.4286"	"0.6302"	NA	"common_variant"	"GGCC"	"3de5bcc0-2764-11e6-be88-1087424a729f"	"420"	0.5828	"887/1522"	"6403/20110"	"64/216"	"59/114"	"65/96"	"1/2"	"174/258"	"6/14"	"518/822"	"PASS"	"FALSE"	0.333333333333333	"WXS"	FALSE
"1787"	"DCP1A"	55802	"mskcc.org"	"GRCh37"	"3"	53346143	53346144	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs144565232"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.510+127_510+128delAG"	""	""	"ENST00000607628"	""	11	"."	6	4	"."	0	"DCP1A,intron_variant,,ENST00000607628,NM_018403.5;DCP1A,intron_variant,,ENST00000294241,;DCP1A,intron_variant,,ENST00000606822,;DCP1A,intron_variant,,ENST00000480258,;DCP1A,intron_variant,,ENST00000494659,;DCP1A,intron_variant,,ENST00000560624,;DCP1A,intron_variant,,ENST00000560076,;DCP1A,intron_variant,,ENST00000559748,;"	"-"	"ENSG00000162290"	"ENST00000607628"	"Transcript"	"intron_variant"	"-/6016"	"-/1755"	"-/584"	""	""	"rs144565232"	"1"	NA	-1	"DCP1A"	"HGNC"	18714	"protein_coding"	"YES"	""	"ENSP00000475920"	""	"U3KQI9"	"UPI00001AEBBA"	"NM_018403.5"	NA	NA	""	"5/9"	""	"-:0.2402"	"-:0.0825"	"-:0.4035"	NA	"-:0.2798"	"-:0.3469"	"-:0.1871"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCTC"	"3e3e7ad6-2764-11e6-be88-1087424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"1788"	"CACNA2D3"	55799	"mskcc.org"	"GRCh37"	"3"	54676442	54676442	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs3832224"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1167+179delA"	""	""	"ENST00000474759"	""	17	"."	6	5	"."	0	"CACNA2D3,intron_variant,,ENST00000474759,NM_018398.2;CACNA2D3,intron_variant,,ENST00000288197,;CACNA2D3,intron_variant,,ENST00000415676,;CACNA2D3,intron_variant,,ENST00000490478,;ESRG,upstream_gene_variant,,ENST00000583516,;CACNA2D3,intron_variant,,ENST00000471363,;CACNA2D3,intron_variant,,ENST00000477024,;CACNA2D3,intron_variant,,ENST00000468658,;"	"-"	"ENSG00000157445"	"ENST00000474759"	"Transcript"	"intron_variant"	"-/3675"	"-/3276"	"-/1091"	""	""	"rs3832224"	"1"	NA	1	"CACNA2D3"	"HGNC"	15460	"protein_coding"	"YES"	"CCDS54598.1"	"ENSP00000419101"	"Q8IZS8"	"C9JAV5"	"UPI000004A7BF"	"NM_018398.2"	NA	NA	""	"11/37"	""	"A:0.3151"	"-:0.3147"	"-:0.902"	NA	"-:0.6032"	"-:0.9374"	"-:0.8558"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"3e6baf2e-2764-11e6-be88-1087424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WXS"	FALSE
"1789"	"WNT5A"	7474	"mskcc.org"	"GRCh37"	"3"	55519688	55519689	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs57574670"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6+1319dupA"	""	""	"ENST00000474267"	""	7	"."	5	1	"."	0	"WNT5A,intron_variant,,ENST00000474267,;WNT5A,intron_variant,,ENST00000264634,NM_003392.4;WNT5A,upstream_gene_variant,,ENST00000497027,NM_001256105.1;WNT5A,upstream_gene_variant,,ENST00000482079,;WNT5A-AS1,upstream_gene_variant,,ENST00000469484,;WNT5A,upstream_gene_variant,,ENST00000497817,;"	"T"	"ENSG00000114251"	"ENST00000474267"	"Transcript"	"intron_variant"	"-/6042"	"-/1143"	"-/380"	""	""	"rs57574670"	"1"	NA	-1	"WNT5A"	"HGNC"	12784	"protein_coding"	"YES"	"CCDS46850.1"	"ENSP00000417310"	"P41221"	""	"UPI0000231C66"	""	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"650ad38a-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1790"	"ARHGEF3"	50650	"mskcc.org"	"GRCh37"	"3"	57074934	57074942	"+"	"Intron"	"DEL"	"TGAAGGAGT"	"CTCT"	"CTCT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TGAAGGAGT"	"TGAAGGAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-27-5737_-27-5730delCTCCTTCAinsGAG"	""	""	"ENST00000338458"	""	7	"."	6	1	"."	0	"ARHGEF3,intron_variant,,ENST00000338458,NM_001128615.1;ARHGEF3,intron_variant,,ENST00000468727,;ARHGEF3,intron_variant,,ENST00000468466,;ARHGEF3,intron_variant,,ENST00000477440,;ARHGEF3,intron_variant,,ENST00000477833,;"	"CTC"	"ENSG00000163947"	"ENST00000338458"	"Transcript"	"intron_variant"	"-/3639"	"-/1677"	"-/558"	""	""	""	"1"	NA	-1	"ARHGEF3"	"HGNC"	683	"protein_coding"	"YES"	"CCDS46854.1"	"ENSP00000341071"	"Q9NR81"	"C9J609,C9J5K8"	"UPI00001B3D98"	"NM_001128615.1"	NA	NA	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTGAAGGAGTA"	"5aeb1cca-2764-11e6-be88-1087424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"1791"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	59330328	59330333	"+"	"IGR"	"DEL"	"TCTCTG"	"TCTCTG"	"-"	"rs72016380"	NA	"JHCCPT1"	"JHCCPN1"	"TCTCTG"	"TCTCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs72016380"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTCTGT"	"400725c0-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1792"	"CADPS"	8618	"mskcc.org"	"GRCh37"	"3"	62477233	62477234	"+"	"Intron"	"INS"	"-"	"-"	"ACACAC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2885-84_2885-79dupGTGTGT"	""	""	"ENST00000383710"	""	26	"."	5	9	"."	0	"CADPS,intron_variant,,ENST00000383710,NM_003716.3;CADPS,intron_variant,,ENST00000357948,NM_183393.2;CADPS,intron_variant,,ENST00000283269,NM_183394.2;CADPS,intron_variant,,ENST00000491424,;CADPS,intron_variant,,ENST00000478570,;CADPS,intron_variant,,ENST00000463002,;"	"ACACAC"	"ENSG00000163618"	"ENST00000383710"	"Transcript"	"intron_variant"	"-/5471"	"-/4062"	"-/1353"	""	""	""	"1"	NA	-1	"CADPS"	"HGNC"	1426	"protein_coding"	"YES"	"CCDS46858.1"	"ENSP00000373215"	"Q9ULU8"	""	"UPI00001C036A"	"NM_003716.3"	NA	NA	""	"20/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"663932ce-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WXS"	FALSE
"1793"	"ADAMTS9"	56999	"mskcc.org"	"GRCh37"	"3"	64526652	64526658	"+"	"Intron"	"DEL"	"CAATGTG"	"CAATGTG"	"-"	"rs3841969"	NA	"JHCCPT1"	"JHCCPN1"	"CAATGTG"	"CAATGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5521+113_5521+119delCACATTG"	""	""	"ENST00000498707"	""	18	"."	11	9	"."	0	"ADAMTS9,intron_variant,,ENST00000498707,NM_182920.1;ADAMTS9,intron_variant,,ENST00000295903,;ADAMTS9,intron_variant,,ENST00000481060,;"	"-"	"ENSG00000163638"	"ENST00000498707"	"Transcript"	"intron_variant"	"-/7464"	"-/5808"	"-/1935"	""	""	"rs3841969"	"1"	NA	-1	"ADAMTS9"	"HGNC"	13202	"protein_coding"	"YES"	"CCDS2903.1"	"ENSP00000418735"	"Q9P2N4"	"B4E0E4"	"UPI00000463F0"	"NM_182920.1"	NA	NA	""	"36/39"	""	"CAATGTG:0.4673"	"-:0.2496"	"-:0.4726"	NA	"-:0.4147"	"-:0.833"	"-:0.771"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCAATGTGC"	"40acfda6-2764-11e6-be88-1087424a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.611111111111111	"WXS"	FALSE
"1794"	"ADAMTS9-AS2"	100507098	"mskcc.org"	"GRCh37"	"3"	64831628	64831629	"+"	"Intron"	"INS"	"-"	"-"	"AAAAT"	"rs564684130"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.574-21201_574-21197dupATAAA"	""	""	"ENST00000474768"	""	6	"."	4	2	"."	0	"ADAMTS9-AS2,intron_variant,,ENST00000474768,;ADAMTS9-AS2,intron_variant,,ENST00000481312,;"	"AAAAT"	"ENSG00000241684"	"ENST00000474768"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2388"	""	""	""	""	"rs564684130"	"1"	NA	1	"ADAMTS9-AS2"	"HGNC"	42435	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"3/4"	""	"AAAAT:0.0128"	"AAAAT:0"	"AAAAT:0.0058"	NA	"AAAAT:0.0188"	"AAAAT:0.002"	"AAAAT:0.0399"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"18"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"6659a270-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1795"	"MAGI1"	9223	"mskcc.org"	"GRCh37"	"3"	65370456	65370461	"+"	"Intron"	"DEL"	"GTGTGT"	"GTGTGT"	"-"	"rs202181811"	NA	"JHCCPT1"	"JHCCPN1"	"GTGTGT"	"GTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2417-1163_2417-1158delACACAC"	""	""	"ENST00000402939"	""	11	"."	4	4	"."	0	"MAGI1,intron_variant,,ENST00000330909,NM_015520.1;MAGI1,intron_variant,,ENST00000483466,NM_004742.2;MAGI1,intron_variant,,ENST00000402939,NM_001033057.1;MAGI1,intron_variant,,ENST00000463103,;MAGI1,intron_variant,,ENST00000460329,;MAGI1,intron_variant,,ENST00000497477,;MAGI1,intron_variant,,ENST00000472257,;MAGI1,upstream_gene_variant,,ENST00000480729,;MAGI1,intron_variant,,ENST00000468159,;"	"-"	"ENSG00000151276"	"ENST00000402939"	"Transcript"	"intron_variant"	"-/4389"	"-/4389"	"-/1462"	""	""	"rs202181811"	"1"	NA	-1	"MAGI1"	"HGNC"	946	"protein_coding"	"YES"	"CCDS33780.1"	"ENSP00000385450"	"Q96QZ7"	""	"UPI0000457132"	"NM_001033057.1"	NA	NA	""	"14/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGTGTGTG"	"410cb278-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"1796"	"MAGI1"	9223	"mskcc.org"	"GRCh37"	"3"	65964774	65964774	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs11326267"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.313+58897delC"	""	""	"ENST00000402939"	""	7	"."	3	2	"."	0	"MAGI1,intron_variant,,ENST00000330909,NM_015520.1;MAGI1,intron_variant,,ENST00000483466,NM_004742.2;MAGI1,intron_variant,,ENST00000402939,NM_001033057.1;MAGI1,intron_variant,,ENST00000497477,;MAGI1,intron_variant,,ENST00000464060,;"	"-"	"ENSG00000151276"	"ENST00000402939"	"Transcript"	"intron_variant"	"-/4389"	"-/4389"	"-/1462"	""	""	"rs11326267"	"1"	NA	-1	"MAGI1"	"HGNC"	946	"protein_coding"	"YES"	"CCDS33780.1"	"ENSP00000385450"	"Q96QZ7"	""	"UPI0000457132"	"NM_001033057.1"	NA	NA	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGC"	"4129bca6-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1797"	"SUCLG2"	8801	"mskcc.org"	"GRCh37"	"3"	67659682	67659699	"+"	"Intron"	"DEL"	"CACCATGTGATTCCTGCA"	"CACCATGTGATTCCTGCA"	"-"	"rs71830786"	NA	"JHCCPT1"	"JHCCPN1"	"CACCATGTGATTCCTGCA"	"CACCATGTGATTCCTGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.226+180_226+197delTGCAGGAATCACATGGTG"	""	""	"ENST00000493112"	""	17	"."	8	6	"."	0	"SUCLG2,intron_variant,,ENST00000307227,NM_003848.3;SUCLG2,intron_variant,,ENST00000493112,NM_001177599.1;SUCLG2,intron_variant,,ENST00000492795,;"	"-"	"ENSG00000172340"	"ENST00000493112"	"Transcript"	"intron_variant"	"-/1516"	"-/1323"	"-/440"	""	""	"rs71830786"	"1"	NA	-1	"SUCLG2"	"HGNC"	11450	"protein_coding"	"YES"	"CCDS54605.1"	"ENSP00000419325"	"Q96I99"	""	"UPI000189265B"	"NM_001177599.1"	NA	NA	""	"2/10"	""	"-:0.4475"	"-:0.6793"	"-:0.2608"	NA	"-:0.4385"	"-:0.4274"	"-:0.2965"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTCACCATGTGATTCCTGCAC"	"415dd59a-2764-11e6-be88-1087424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.470588235294118	"WXS"	FALSE
"1798"	"LMOD3"	56203	"mskcc.org"	"GRCh37"	"3"	69169385	69169389	"+"	"Intron"	"DEL"	"TAAAA"	"TAAAA"	"-"	"rs10575592"	NA	"JHCCPT1"	"JHCCPN1"	"TAAAA"	"TAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.295-178_295-174delTTTTA"	""	""	"ENST00000420581"	""	8	"."	3	1	"."	0	"LMOD3,intron_variant,,ENST00000420581,NM_198271.3;LMOD3,intron_variant,,ENST00000475434,;LMOD3,intron_variant,,ENST00000489031,;"	"-"	"ENSG00000163380"	"ENST00000420581"	"Transcript"	"intron_variant"	"-/4086"	"-/1683"	"-/560"	""	""	"rs10575592"	"1"	NA	-1	"LMOD3"	"HGNC"	6649	"protein_coding"	"YES"	"CCDS46862.1"	"ENSP00000414670"	"Q0VAK6"	""	"UPI00001612AC"	"NM_198271.3"	NA	NA	""	"1/2"	""	"-:0.1691"	"-:0.3116"	"-:0.1095"	NA	"-:0.0804"	"-:0.1491"	"-:0.1309"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATTAAAAT"	"41b2c3de-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1799"	"FRMD4B"	23150	"mskcc.org"	"GRCh37"	"3"	69334407	69334407	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs35704031"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.501+2496delT"	""	""	"ENST00000398540"	""	7	"."	3	2	"."	0	"FRMD4B,intron_variant,,ENST00000542259,;FRMD4B,intron_variant,,ENST00000398540,NM_015123.1;FRMD4B,intron_variant,,ENST00000460709,;FRMD4B,intron_variant,,ENST00000473029,;FRMD4B,intron_variant,,ENST00000493880,;FRMD4B,downstream_gene_variant,,ENST00000459638,;FRMD4B,intron_variant,,ENST00000470070,;FRMD4B,downstream_gene_variant,,ENST00000473188,;"	"-"	"ENSG00000114541"	"ENST00000398540"	"Transcript"	"intron_variant"	"-/5060"	"-/3105"	"-/1034"	""	""	"rs35704031"	"1"	NA	-1	"FRMD4B"	"HGNC"	24886	"protein_coding"	"YES"	"CCDS46863.1"	"ENSP00000381549"	"Q9Y2L6"	"E9PGA7,C9JAW0,C9JA15,C9J6Q2,B3KNA2"	"UPI00001C1DF1"	"NM_015123.1"	NA	NA	""	"5/22"	""	"-:0.4559"	"-:0.3018"	"-:0.5663"	NA	"-:0.494"	"-:0.5229"	"-:0.4775"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"41f003de-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1800"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	73843913	73843914	"+"	"IGR"	"DEL"	"AG"	"AG"	"-"	"rs144029452"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144029452"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAGA"	"42b8b4d2-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1801"	"ROBO2"	6092	"mskcc.org"	"GRCh37"	"3"	76529181	76529190	"+"	"Intron"	"DEL"	"AAGGAGGAAG"	"AAGGAGGAAG"	"-"	"rs143713284"	NA	"JHCCPT1"	"JHCCPN1"	"AAGGAGGAAG"	"AAGGAGGAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.109+542436_109+542445delAGAAGGAGGA"	""	""	"ENST00000487694"	""	7	"."	4	2	"."	0	"ROBO2,intron_variant,,ENST00000487694,NM_001128929.2;ROBO2,intron_variant,,ENST00000602589,;ROBO2,intron_variant,,ENST00000475034,;"	"-"	"ENSG00000185008"	"ENST00000487694"	"Transcript"	"intron_variant"	"-/5919"	"-/4185"	"-/1394"	""	""	"rs143713284"	"1"	NA	1	"ROBO2"	"HGNC"	10250	"protein_coding"	"YES"	"CCDS54609.1"	"ENSP00000417335"	"Q9HCK4"	"H9XFA4"	"UPI0000D891EC"	"NM_001128929.2"	NA	NA	""	"2/26"	""	"-:0.4227"	"-:0.2716"	"-:0.549"	NA	"-:0.5744"	"-:0.4155"	"-:0.3885"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAAAGGAGGAAGA"	"42e19906-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1802"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	77760799	77760800	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs551341510"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs551341510"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1819"	"T:0.6929"	"T:0.8934"	NA	"T:0.9296"	"T:0.8559"	"T:0.7802"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"6766028a-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1803"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	77950328	77950328	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs11299100"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11299100"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.0280"	"-:0.8986"	"-:0.9928"	NA	"-:1"	"-:0.999"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"42fc6c7c-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1804"	"ROBO1"	6091	"mskcc.org"	"GRCh37"	"3"	78642340	78642340	"+"	"3'Flank"	"DEL"	"T"	"T"	"-"	"rs11337188"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000464233"	""	8	"."	4	2	"."	0	"ROBO1,downstream_gene_variant,,ENST00000436010,;ROBO1,downstream_gene_variant,,ENST00000464233,NM_002941.3;"	"-"	"ENSG00000169855"	"ENST00000464233"	"Transcript"	"downstream_gene_variant"	"-/6742"	"-/4956"	"-/1651"	""	""	"rs11337188"	"1"	"4051"	-1	"ROBO1"	"HGNC"	10249	"protein_coding"	"YES"	"CCDS54611.1"	"ENSP00000420321"	"Q9Y6N7"	""	"UPI00000713D9"	"NM_002941.3"	NA	NA	""	""	""	"T:0.0022"	"-:0.9947"	"-:0.9971"	NA	"-:1"	"-:0.998"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"430f47ca-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1805"	"RP11-6B4.1"	728290	"mskcc.org"	"GRCh37"	"3"	81054639	81054644	"+"	"Intron"	"DEL"	"TCTCTC"	"TCTCTC"	"-"	"rs3078345"	NA	"JHCCPT1"	"JHCCPN1"	"TCTCTC"	"TCTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.60+11586_60+11591delCTCTCT"	""	""	"ENST00000482617"	""	13	"."	7	6	"."	0	"RP11-6B4.1,intron_variant,,ENST00000482617,;"	"-"	"ENSG00000243694"	"ENST00000482617"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/596"	""	""	""	""	"rs3078345"	"1"	NA	1	"RP11-6B4.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"25"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTCTCTCT"	"433b5e0a-2764-11e6-be88-1087424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.538461538461538	"WXS"	FALSE
"1806"	"POU1F1"	5449	"mskcc.org"	"GRCh37"	"3"	87308747	87308748	"+"	"3'Flank"	"DEL"	"AT"	"AT"	"-"	"rs3840197"	NA	"JHCCPT1"	"JHCCPN1"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000344265"	""	22	"."	5	5	"."	0	"POU1F1,3_prime_UTR_variant,,ENST00000350375,NM_000306.2;CHMP2B,downstream_gene_variant,,ENST00000263780,NM_014043.3;POU1F1,downstream_gene_variant,,ENST00000344265,NM_001122757.1;POU1F1,downstream_gene_variant,,ENST00000561167,;POU1F1,downstream_gene_variant,,ENST00000560656,;"	"-"	"ENSG00000064835"	"ENST00000344265"	"Transcript"	"downstream_gene_variant"	"-/1149"	"-/954"	"-/317"	""	""	"rs3840197"	"1"	"143"	-1	"POU1F1"	"HGNC"	9210	"protein_coding"	"YES"	"CCDS46873.1"	"ENSP00000342931"	"P28069"	""	"UPI000002B11B"	"NM_001122757.1"	NA	NA	""	""	""	"-:0.1883"	"-:0.2163"	"-:0.1254"	NA	"-:0.2619"	"-:0.1143"	"-:0.1953"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCATA"	"4397e080-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WXS"	FALSE
"1807"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	88682594	88682595	"+"	"IGR"	"INS"	"-"	"-"	"AGAG"	"rs144305047"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	2	"."	0	""	"AGAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144305047"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4343"	"AGAG:0.6286"	"AGAG:0.6744"	NA	"AGAG:0.6538"	"AGAG:0.4513"	"AGAG:0.4305"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"67e9f45a-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1808"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	88875115	88875116	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs11369743"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	7	2	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11369743"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"67ecc3ce-2764-11e6-be88-1087424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4375	"WXS"	FALSE
"1809"	"RP11-325B23.2"	0	"mskcc.org"	"GRCh37"	"3"	98154024	98154025	"+"	"Intron"	"INS"	"-"	"-"	"TT"	"rs10658513"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.189-22514_189-22513insTT"	""	""	"ENST00000508616"	""	9	"."	5	1	"."	0	"RP11-325B23.2,intron_variant,,ENST00000508616,;UBFD1P1,downstream_gene_variant,,ENST00000473259,;"	"TT"	"ENSG00000251088"	"ENST00000508616"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/392"	""	""	""	""	"rs10658513"	"1"	NA	1	"RP11-325B23.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	"TT:0.4808"	"TT:0.6626"	"TT:0.4524"	NA	"TT:0.4643"	"TT:0.3499"	"TT:0.407"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"683f1840-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"1810"	"CMSS1"	84319	"mskcc.org"	"GRCh37"	"3"	99551577	99551578	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs112101348"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.64+14692dupG"	""	""	"ENST00000421999"	""	6	"."	3	2	"."	0	"CMSS1,intron_variant,,ENST00000421999,NM_032359.3;FILIP1L,intron_variant,,ENST00000477258,;CMSS1,intron_variant,,ENST00000463526,;FILIP1L,downstream_gene_variant,,ENST00000354552,NM_182909.2;FILIP1L,downstream_gene_variant,,ENST00000471562,NM_001282794.1;FILIP1L,downstream_gene_variant,,ENST00000487087,NM_001282793.1;CMSS1,intron_variant,,ENST00000496116,;FILIP1L,intron_variant,,ENST00000476723,;CMSS1,intron_variant,,ENST00000491299,;"	"G"	"ENSG00000184220"	"ENST00000421999"	"Transcript"	"intron_variant"	"-/1201"	"-/840"	"-/279"	""	""	"rs112101348"	"1"	NA	1	"CMSS1"	"HGNC"	28666	"protein_coding"	"YES"	"CCDS2935.1"	"ENSP00000410396"	"Q9BQ75"	"D3DN44,C9IY68"	"UPI00001B0297"	"NM_032359.3"	NA	NA	""	"1/9"	""	"-:0.2310"	"G:0.9123"	"G:0.6556"	NA	"G:0.8046"	"G:0.6968"	"G:0.6933"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"687f9244-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1811"	"ABI3BP"	25890	"mskcc.org"	"GRCh37"	"3"	100551677	100551677	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs376041447"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1597+13539delG"	""	""	"ENST00000284322"	""	21	"."	7	2	"."	0	"ABI3BP,intron_variant,,ENST00000471714,;ABI3BP,intron_variant,,ENST00000284322,NM_015429.3;ABI3BP,intron_variant,,ENST00000495063,;ABI3BP,intron_variant,,ENST00000383691,;ABI3BP,intron_variant,,ENST00000495591,;ABI3BP,intron_variant,,ENST00000533795,;ABI3BP,intron_variant,,ENST00000528490,;ABI3BP,intron_variant,,ENST00000466947,;ABI3BP,intron_variant,,ENST00000534413,;ABI3BP,intron_variant,,ENST00000528305,;ABI3BP,upstream_gene_variant,,ENST00000471901,;ABI3BP,upstream_gene_variant,,ENST00000478235,;ABI3BP,downstream_gene_variant,,ENST00000534256,;ABI3BP,intron_variant,,ENST00000470336,;ABI3BP,intron_variant,,ENST00000487012,;ABI3BP,intron_variant,,ENST00000487249,;"	"-"	"ENSG00000154175"	"ENST00000284322"	"Transcript"	"intron_variant"	"-/4498"	"-/3228"	"-/1075"	""	""	"rs376041447"	"1"	NA	-1	"ABI3BP"	"HGNC"	17265	"protein_coding"	"YES"	"CCDS46880.1"	"ENSP00000284322"	"Q7Z7G0"	""	"UPI000011C136"	"NM_015429.3"	NA	NA	""	"18/34"	""	"-:0.0010"	"-:0"	"-:0"	NA	"-:0"	"-:0.005"	"-:0"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACT"	"44c3e1d4-2764-11e6-be88-1087424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1812"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	102576912	102576935	"+"	"IGR"	"DEL"	"CTCTCTCTCTCTTTCTTTCTTTCT"	"CTCTCTCTCTCTTTCTTTCTTTCT"	"TCTCTCTCTTTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CTCTCTCTCTCTTTCTTTCTTTCT"	"CTCTCTCTCTCTTTCTTTCTTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	5	5	"."	0	""	"TCTCTCTCTTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTCTCTCTCTCTTTCTTTCTTTCTT"	"5b02f2dc-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"1813"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	102576973	102576974	"+"	"IGR"	"INS"	"-"	"-"	"TTTCTTTTTTTCTCTCTCTCTTTCTCTTTCTTTCTTTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	9	"."	0	""	"TTTCTTTTTTTCTCTCTCTCTTTCTCTTTCTTTCTTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"69124a3a-2764-11e6-be88-1087424a729f"	"132"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1814"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	104027846	104027847	"+"	"IGR"	"INS"	"-"	"-"	"AAAC"	"rs138779933"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"AAAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138779933"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AAACAAAC:0.0130"	"AAACAAAC:0.0008"	"AAACAAAC:0.0072"	NA	"AAACAAAC:0.002"	"AAACAAAC:0.0209"	"AAACAAAC:0.0368"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"691e9128-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1815"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	104776533	104776533	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs138455781"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138455781"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4930"	"-:0.1036"	"-:0.5576"	NA	"-:0.8929"	"-:0.4364"	"-:0.6196"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"4551bf72-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1816"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	104999194	104999195	"+"	"IGR"	"INS"	"-"	"-"	"TT"	"rs63699460"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	1	"."	0	""	"TT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs63699460"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"69255396-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1817"	"ALCAM"	214	"mskcc.org"	"GRCh37"	"3"	105219072	105219072	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs11333135"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.74-19839delG"	""	""	"ENST00000306107"	""	6	"."	4	1	"."	0	"ALCAM,intron_variant,,ENST00000306107,NM_001627.3;ALCAM,intron_variant,,ENST00000472644,NM_001243280.1;ALCAM,intron_variant,,ENST00000481337,;ALCAM,intron_variant,,ENST00000470756,;"	"-"	"ENSG00000170017"	"ENST00000306107"	"Transcript"	"intron_variant"	"-/4701"	"-/1752"	"-/583"	""	""	"rs11333135"	"1"	NA	1	"ALCAM"	"HGNC"	400	"protein_coding"	"YES"	"CCDS33810.1"	"ENSP00000305988"	"Q13740"	"F5GXJ9"	"UPI0000209ECA"	"NM_001627.3"	NA	NA	""	"1/15"	""	"G:0.0447"	"-:0.8374"	"-:0.9885"	NA	"-:1"	"-:0.999"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACGA"	"455de98c-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1818"	"DZIP3"	9666	"mskcc.org"	"GRCh37"	"3"	108355588	108355588	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1011+33delC"	""	""	"ENST00000361582"	""	125	"."	4	70	"."	0	"DZIP3,intron_variant,,ENST00000361582,NM_014648.3;DZIP3,intron_variant,,ENST00000463306,;DZIP3,intron_variant,,ENST00000479138,;DZIP3,intron_variant,,ENST00000495008,;"	"-"	"ENSG00000198919"	"ENST00000361582"	"Transcript"	"intron_variant"	"-/5350"	"-/3627"	"-/1208"	""	""	""	"1"	NA	1	"DZIP3"	"HGNC"	30938	"protein_coding"	"YES"	"CCDS2952.1"	"ENSP00000355028"	"Q86Y13"	"Q5MY58,D3DN61,C9JRX4,C9J9M8,C9J702"	"UPI000006E7D4"	"NM_014648.3"	NA	NA	""	"11/32"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCT"	"466a08ec-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.032	"WXS"	FALSE
"1819"	"RP11-59E19.1"	401081	"mskcc.org"	"GRCh37"	"3"	108855918	108855923	"+"	"Intron"	"DEL"	"TGTGTG"	"TGTGTG"	"-"	"rs36222136"	NA	"JHCCPT1"	"JHCCPN1"	"TGTGTG"	"TGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.81+195_81+200delTGTGTG"	""	""	"ENST00000467240"	""	20	"."	6	16	"."	0	"RP11-59E19.1,intron_variant,,ENST00000467240,;RP11-59E19.1,intron_variant,,ENST00000593799,;RP11-59E19.1,intron_variant,,ENST00000479039,;RP11-59E19.1,intron_variant,,ENST00000477643,;"	"-"	"ENSG00000241224"	"ENST00000467240"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1952"	""	""	""	""	"rs36222136"	"1"	NA	1	"RP11-59E19.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"20"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTGTGTGT"	"468f2816-2764-11e6-be88-1087424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1820"	"SLC9C1"	285335	"mskcc.org"	"GRCh37"	"3"	111988585	111988586	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs71134818"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.775+177dupA"	""	""	"ENST00000305815"	""	25	"."	11	5	"."	0	"SLC9C1,intron_variant,,ENST00000305815,NM_183061.1;SLC9C1,intron_variant,,ENST00000487372,;SLC9C1,intron_variant,,ENST00000471295,;"	"T"	"ENSG00000172139"	"ENST00000305815"	"Transcript"	"intron_variant"	"-/4172"	"-/3534"	"-/1177"	""	""	"rs71134818"	"1"	NA	-1	"SLC9C1"	"HGNC"	31401	"protein_coding"	"YES"	"CCDS33817.1"	"ENSP00000306627"	"Q4G0N8"	"C9J3M6"	"UPI00002372C5"	"NM_183061.1"	NA	NA	""	"7/28"	""	"T:0.3139"	"T:0.1399"	"T:0.3084"	NA	"T:0.4345"	"T:0.3588"	"T:0.3824"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"6a5ed00c-2764-11e6-be88-1087424a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.44	"WXS"	FALSE
"1821"	"GRAMD1C"	54762	"mskcc.org"	"GRCh37"	"3"	113659497	113659500	"+"	"Intron"	"DEL"	"TCTT"	"TCTT"	"-"	"rs5851909"	NA	"JHCCPT1"	"JHCCPN1"	"TCTT"	"TCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1908+308_1908+311delTTCT"	""	""	"ENST00000358160"	""	14	"."	5	5	"."	0	"GRAMD1C,intron_variant,,ENST00000358160,NM_017577.4;GRAMD1C,intron_variant,,ENST00000440446,NM_001172105.1;GRAMD1C,intron_variant,,ENST00000452134,;GRAMD1C,intron_variant,,ENST00000472026,;GRAMD1C,downstream_gene_variant,,ENST00000462838,;GRAMD1C,intron_variant,,ENST00000479212,;GRAMD1C,intron_variant,,ENST00000466898,;GRAMD1C,intron_variant,,ENST00000491038,;GRAMD1C,downstream_gene_variant,,ENST00000471031,;"	"-"	"ENSG00000178075"	"ENST00000358160"	"Transcript"	"intron_variant"	"-/4177"	"-/1989"	"-/662"	""	""	"rs5851909"	"1"	NA	1	"GRAMD1C"	"HGNC"	25252	"protein_coding"	"YES"	"CCDS33826.1"	"ENSP00000350881"	"Q8IYS0"	"C9J7B8,A8KA99"	"UPI00001AF15F"	"NM_017577.4"	NA	NA	""	"17/17"	""	"-:0.2432"	"-:0.0726"	"-:0.3271"	NA	"-:0.256"	"-:0.339"	"-:0.3027"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATCTTT"	"485ec71e-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"1822"	"LSAMP"	4045	"mskcc.org"	"GRCh37"	"3"	116782340	116782340	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs67474828"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.68-618538delT"	""	""	"ENST00000539563"	""	8	"."	4	2	"."	0	"LSAMP,intron_variant,,ENST00000539563,;LSAMP,intron_variant,,ENST00000474851,;"	"-"	"ENSG00000185565"	"ENST00000539563"	"Transcript"	"intron_variant"	"-/1077"	"-/1077"	"-/358"	""	""	"rs67474828"	"1"	NA	-1	"LSAMP"	"HGNC"	6705	"protein_coding"	""	""	"ENSP00000443429"	""	"F5H5G1"	"UPI0002064E9B"	""	NA	NA	""	"1/9"	""	"-:0.3037"	"-:0.3396"	"-:0.3228"	NA	"-:0.1478"	"-:0.4394"	"-:0.2628"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAA"	"48a49f5a-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1823"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	118333257	118333257	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs10707807"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10707807"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.4181"	"-:0.4486"	"-:0.6571"	NA	"-:0.5169"	"-:0.6978"	"-:0.6564"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTT"	"48d26b2e-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1824"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	118529364	118529365	"+"	"IGR"	"INS"	"-"	"AAT"	"AAT"	"rs10641773"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	1	"."	0	""	"AAT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10641773"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0455"	"AAT:0.879"	"AAT:0.9726"	NA	"AAT:0.9772"	"AAT:0.9831"	"AAT:0.9908"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"6b8ac67a-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1825"	"POLQ"	10721	"mskcc.org"	"GRCh37"	"3"	121203758	121203759	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs41554312"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5773+129dupT"	""	""	"ENST00000264233"	""	57	"."	8	21	"."	0	"POLQ,intron_variant,,ENST00000264233,NM_199420.3;POLQ,upstream_gene_variant,,ENST00000474243,;"	"A"	"ENSG00000051341"	"ENST00000264233"	"Transcript"	"intron_variant"	"-/8775"	"-/7773"	"-/2590"	""	""	"rs41554312"	"1"	NA	-1	"POLQ"	"HGNC"	9186	"protein_coding"	"YES"	"CCDS33833.1"	"ENSP00000264233"	"O75417"	""	"UPI0000D61B5F"	"NM_199420.3"	NA	NA	""	"17/29"	""	"AAAA:0.0256"	"AAAA:0.0008"	"AAAA:0.0591"	NA	"AAAA:0.002"	"AAAA:0.0537"	"AAAA:0.0307"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"6c1eda90-2764-11e6-be88-1087424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.140350877192982	"WXS"	FALSE
"1826"	"RP11-67L2.2"	100129550	"mskcc.org"	"GRCh37"	"3"	122606425	122606426	"+"	"RNA"	"INS"	"-"	"-"	"AT"	"rs11426282"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.638_639insAT"	""	""	"ENST00000610128"	"1/1"	29	"."	3	12	"."	0	"RP11-67L2.2,non_coding_transcript_exon_variant,,ENST00000610128,;"	"AT"	"ENSG00000273033"	"ENST00000610128"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"638-639/5456"	""	""	""	""	"rs11426282"	"1"	NA	1	"RP11-67L2.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"6ca3b3aa-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WXS"	FALSE
"1827"	"PTPLB"	201562	"mskcc.org"	"GRCh37"	"3"	123253645	123253646	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTGTGTGTGTG"	"rs139815832"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.293-6325_293-6324insCACACACACACACACA"	""	""	"ENST00000383657"	""	9	"."	4	3	"."	0	"PTPLB,intron_variant,,ENST00000383657,NM_198402.3;PTPLB,intron_variant,,ENST00000469317,;"	"TGTGTGTGTGTGTGTG"	"ENSG00000206527"	"ENST00000383657"	"Transcript"	"intron_variant"	"-/4257"	"-/765"	"-/254"	""	""	"rs139815832"	"1"	NA	-1	"PTPLB"	"HGNC"	9640	"protein_coding"	"YES"	"CCDS46895.1"	"ENSP00000373153"	"Q6Y1H2"	"C9JWG1"	"UPI0000160B26"	"NM_198402.3"	NA	NA	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"6ce835ca-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1828"	"KALRN"	8997	"mskcc.org"	"GRCh37"	"3"	124257107	124257108	"+"	"Intron"	"INS"	"-"	"-"	"TGTG"	"rs113800335"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4930-24569_4930-24566dupGTGT"	""	""	"ENST00000360013"	""	16	"."	5	3	"."	0	"KALRN,intron_variant,,ENST00000360013,NM_001024660.3;KALRN,intron_variant,,ENST00000354186,;KALRN,intron_variant,,ENST00000393496,;"	"TGTG"	"ENSG00000160145"	"ENST00000360013"	"Transcript"	"intron_variant"	"-/10806"	"-/8961"	"-/2986"	""	""	"rs113800335"	"1"	NA	1	"KALRN"	"HGNC"	4814	"protein_coding"	""	""	"ENSP00000353109"	""	"J3QSW6"	"UPI0000D61B68"	"NM_001024660.3"	NA	NA	""	"33/59"	""	"-:0.4750"	"TGTG:0.7322"	"TGTG:0.3718"	NA	"TGTG:0.3879"	"TGTG:0.4742"	"TGTG:0.547"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"17"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"6d15c800-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"1829"	"KALRN"	8997	"mskcc.org"	"GRCh37"	"3"	124378672	124378676	"+"	"Intron"	"DEL"	"ATATT"	"ATATT"	"-"	"rs143833949"	NA	"JHCCPT1"	"JHCCPN1"	"ATATT"	"ATATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1122+369_1122+373delTATTA"	""	""	"ENST00000291478"	""	6	"."	3	2	"."	0	"KALRN,intron_variant,,ENST00000291478,NM_007064.3;KALRN,intron_variant,,ENST00000360013,NM_001024660.3;KALRN,intron_variant,,ENST00000354186,;KALRN,intron_variant,,ENST00000428018,;KALRN,intron_variant,,ENST00000393496,;KALRN,intron_variant,,ENST00000459915,;"	"-"	"ENSG00000160145"	"ENST00000291478"	"Transcript"	"intron_variant"	"-/10888"	"-/3870"	"-/1289"	""	""	"rs143833949"	"1"	NA	1	"KALRN"	"HGNC"	4814	"protein_coding"	""	"CCDS3028.1"	"ENSP00000291478"	"O60229"	""	"UPI00001AEB7E"	"NM_007064.3"	NA	NA	""	"10/26"	""	"-:0.1174"	"-:0.171"	"-:0.1138"	NA	"-:0.0833"	"-:0.1014"	"-:0.0992"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAATATTA"	"4aca2e94-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1830"	"SLC12A8"	84561	"mskcc.org"	"GRCh37"	"3"	124929863	124929866	"+"	"Intron"	"DEL"	"CTGT"	"CTGT"	"-"	"rs60013053"	NA	"JHCCPT1"	"JHCCPN1"	"CTGT"	"CTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.51+277_51+280delACAG"	""	""	"ENST00000393469"	""	10	"."	4	2	"."	0	"SLC12A8,intron_variant,,ENST00000423114,;SLC12A8,intron_variant,,ENST00000393469,NM_001195483.1;SLC12A8,intron_variant,,ENST00000469902,NM_024628.5;SLC12A8,intron_variant,,ENST00000314584,;SLC12A8,intron_variant,,ENST00000481760,;"	"-"	"ENSG00000221955"	"ENST00000393469"	"Transcript"	"intron_variant"	"-/3447"	"-/2145"	"-/714"	""	""	"rs60013053"	"1"	NA	-1	"SLC12A8"	"HGNC"	15595	"protein_coding"	"YES"	"CCDS43143.1"	"ENSP00000377112"	"A0AV02"	"C9IZN2"	"UPI000049DFB2"	"NM_001195483.1"	NA	NA	""	"1/12"	""	"CTGT:0.2648"	"-:0.966"	"-:0.6167"	NA	"-:0.752"	"-:0.5209"	"-:0.7106"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACTGTC"	"4af02626-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1831"	"RP11-379B18.6"	0	"mskcc.org"	"GRCh37"	"3"	125504605	125504606	"+"	"Intron"	"INS"	"-"	"TGGG"	"TGGG"	"rs748077680"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.194+10856_194+10859dupTGGG"	""	""	"ENST00000610060"	""	7	"."	5	2	"."	0	"RP11-379B18.6,intron_variant,,ENST00000610060,;MIR548I1,downstream_gene_variant,,ENST00000408810,;RP11-379B18.1,downstream_gene_variant,,ENST00000486999,;"	"TGGG"	"ENSG00000272840"	"ENST00000610060"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/373"	""	""	""	""	"rs748077680"	"1"	NA	1	"RP11-379B18.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"6d4b2b9e-2764-11e6-be88-1087424a729f"	"201"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1832"	"RP11-71E19.1"	644662	"mskcc.org"	"GRCh37"	"3"	126009349	126009350	"+"	"Intron"	"INS"	"-"	"-"	"CCTTCCTT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.175-411_175-404dupTCCTTCCT"	""	""	"ENST00000511512"	""	11	"."	3	2	"."	0	"RP11-71E19.1,intron_variant,,ENST00000511512,;RP11-71E19.2,intron_variant,,ENST00000514281,;RP11-71E19.1,downstream_gene_variant,,ENST00000512435,;"	"CCTTCCTT"	"ENSG00000250934"	"ENST00000511512"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/501"	""	""	""	""	""	"1"	NA	1	"RP11-71E19.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"43"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"6d6b953c-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"1833"	"ENSR00001372885"	0	"mskcc.org"	"GRCh37"	"3"	126020103	126020103	"+"	"IGR"	"DEL"	"C"	"-"	"-"	"rs5852478"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001372885"	""	7	"."	6	1	"."	0	""	"-"	""	"ENSR00001372885"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs5852478"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2734"	"-:0.1467"	"-:0.2954"	NA	"-:0.2669"	"-:0.4155"	"-:0.2894"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCA"	"4b401f78-2764-11e6-be88-1087424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"1834"	"KLF15"	28999	"mskcc.org"	"GRCh37"	"3"	126076773	126076774	"+"	"5'Flank"	"INS"	"-"	"AG"	"AG"	"rs5852479"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000296233"	""	7	"."	6	1	"."	0	"KLF15,upstream_gene_variant,,ENST00000296233,NM_014079.3;KLF15,upstream_gene_variant,,ENST00000509675,;"	"AG"	"ENSG00000163884"	"ENST00000296233"	"Transcript"	"upstream_gene_variant"	"-/2574"	"-/1251"	"-/416"	""	""	"rs5852479"	"1"	"488"	-1	"KLF15"	"HGNC"	14536	"protein_coding"	"YES"	"CCDS3036.1"	"ENSP00000296233"	"Q9UIH9"	""	"UPI0000001659"	"NM_014079.3"	NA	NA	""	""	""	"-:0.4103"	"AG:0.6702"	"AG:0.5576"	NA	"AG:0.4792"	"AG:0.6223"	"AG:0.5838"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"6d6f4376-2764-11e6-be88-1087424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"1835"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	126689889	126689890	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs11394403"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	6	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11394403"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0112"	"T:0.9803"	"T:0.9942"	NA	"T:0.9881"	"T:0.994"	"T:0.9918"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"6da71558-2764-11e6-be88-1087424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1836"	"RP11-88I21.2"	101927123	"mskcc.org"	"GRCh37"	"3"	127073778	127073778	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs35131583"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.309+955delG"	""	""	"ENST00000488425"	""	11	"."	5	1	"."	0	"RP11-88I21.2,intron_variant,,ENST00000488425,;"	"-"	"ENSG00000244215"	"ENST00000488425"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/927"	""	""	""	""	"rs35131583"	"1"	NA	-1	"RP11-88I21.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/4"	""	"-:0.3862"	"-:0.2655"	"-:0.2349"	NA	"-:0.5804"	"-:0.3519"	"-:0.4918"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCC"	"4b78eaf6-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"1837"	"RP11-59J16.1"	101927149	"mskcc.org"	"GRCh37"	"3"	127196119	127196119	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"rs59559172"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000461398"	""	8	"."	5	1	"."	0	"RP11-59J16.1,downstream_gene_variant,,ENST00000461398,;"	"-"	"ENSG00000239921"	"ENST00000461398"	"Transcript"	"downstream_gene_variant"	"-/3039"	""	""	""	""	"rs59559172"	"1"	"3414"	-1	"RP11-59J16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4988"	"-:0.5393"	"-:0.4179"	NA	"-:0.4712"	"-:0.5785"	"-:0.4601"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"4b7c60b4-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1838"	"RP11-59J16.1"	101927149	"mskcc.org"	"GRCh37"	"3"	127250377	127250382	"+"	"Intron"	"DEL"	"CCCCCC"	"CCCCCC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CCCCCC"	"CCCCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2169+846_2169+851delGGGGGG"	""	""	"ENST00000461398"	""	23	"."	3	14	"."	0	"RP11-59J16.1,intron_variant,,ENST00000461398,;"	"-"	"ENSG00000239921"	"ENST00000461398"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3039"	""	""	""	""	""	"1"	NA	-1	"RP11-59J16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCCCCCCC"	"4b7dfc80-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"1839"	"RP11-221E20.5"	0	"mskcc.org"	"GRCh37"	"3"	128562117	128562118	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"rs138792456"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000498560"	""	8	"."	5	1	"."	0	"RP11-221E20.5,downstream_gene_variant,,ENST00000498560,;"	"A"	"ENSG00000244065"	"ENST00000498560"	"Transcript"	"downstream_gene_variant"	"-/841"	""	""	""	""	"rs138792456"	"1"	"289"	-1	"RP11-221E20.5"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.1156"	"A:0.1452"	"A:0.0965"	NA	"A:0.128"	"A:0.0229"	"A:0.1718"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"6df855f8-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1840"	"COL6A6"	131873	"mskcc.org"	"GRCh37"	"3"	130347567	130353108	"+"	"Intron"	"DEL"	"AAGATCGTGTCGAAGATGGCCGAATAGGAACAGCTCCGGTCTACAGCTCCCTGCGTGAGCGACGCAGAAGACGGTGATTTCTGCATTTCCATCTGAGACCTGCAGCTGAGGGTCCTGTCTGTTAGAAGGAAAACTAACAACCAGAAAGGACATCTACACCGAAAACCCATCTGTACATCACCATCATCAAAGACCAAAAGTAGATAAAACCACAAAGATGGGGAAAAAACAGAACAGAAAAACTGGAAACTCTAAAACACAGAGCGCCTCTCCTCCTCCAAAGGAACGCAGTTCCTCACCAGCAACAGAACAAAGCTGGATGGAGAATGATTTTGACGAGCTGAGAGAAGAAGGCTTCAGACGATCAAATTACTCTGAGCTACGGGAGGACATTCAAACCAAAGGCAAAGAAGTTGAAAACTTTGAAAAAAATTTAGAAGAATGTATAACTAGAATAACCAATACAGAGAAGTGCTTAAAGGAGCTGATGGAGCTGAAAACCAAGGCTCGAGAACTACGTGAAGAATGCAGAAGCCTCAGGAGCCGATGCGATCAACTGGAAGAAAGGGTATCAGCAATGGAAGATGAAATGAATGAAATGAAGCGAGAAGGGAAGTTTAGAGAAAAAAGAATAAAAAGAAATGAGCAAAGCCTCCAAGAAATATGGGACTATGTGAAAAGACCAAATCTACGTCTGATTGGTGTACCTGAAAGTGATGTGGAGAATGGAACCAAGTTGGAAAACACTCTGCAGGATATTATCCAGGAGAACTTCCCCAATCTAGCAAGGCAGGCCAACGTTCAGATTCAGGAAATACAGAGAACGCCACAAAGATACTCCTCGAGAAGAGCAACTCCAAGACACATAATTGTCAGATTCACCAAAGTTGAAATGAAGGAAAAAATGTTAAGGGCAGCCAGAGAGAAAGGTCGGGTTACCCTCAAAGGAAAGCCCATCAGACTAACAGCGGATCTCTCGGCAGAAACCCTACAAGCCAGAAGAGAGTGGGGGCCAATATTCAACATTCTTAAAGAAAAGAATTTTCAACCCAGAATTTCATATCCAGCCAAACTAAGCTTCATAAGTGAAGGAGAAATAAAATACTTTATAGACAAGCAAATGTTGAGAGATTTTGTCACCACCACGCCTGCCCTAAAAGAGCTCCTGAAGGAAGCACTAAACATGGAAAGGAACAACCGGTACCAGCCGCTGCAAAATCATGCCAAAATGTAAAGACCATCGAGACTAGGAAGAAACTGCATCAACTAATGAGCAAAATCACCAGCTAACATCATAATGACAGGATCAAATTCACACATAACAATATTAACTTTAAATATAAATGGACTAAATTCTGCAATTAAAAGACACAGACTGGCAAGTTGGATAAAGAGTCAAGACCCATCAGTGTGCTGTATTCAGGAAACCCATCTCACGTGCAGAGACACACATAGGCTCAAAATAAAAGGATGGAGGAAGATCTACCAAGCCAATGGAAAACAAAAAAAGGCAGGGGTTGCAATCCTAGTCTCTGATAAAACAGACTTTAAACCAACAAAGATCAAAAGAGACAAAGAAGGCCATTACATAATGGTAAAGGGATCAATTCAACAAGAGGAGCTAACTATCCTAAATATTTATGCACCCAATACAGGAGCACCCAGATTCATAAAGCAAGTCCTCAGTGACCTACAAAGAGACTTAGACTCCCACACATTAATAATGGGAGACTTTAACACCCCACTGTCAACATTAGACAGATCAACAAGACAGAAAGTCAACAAGGATACCCAGGAATTGAACTCAGCTCTGCACCAAGCAGACCTAATAGACATCTACAGAACTCTCCACCCCAAATCAACAGAATATACATTTTTTTCAGCACCACACCACACCTATTCCAAAATTGACCACATAGTTGGAAGTAAAGCTCTCCTCAGCAAATGTAAAAGAACAGAAATTATAACAAACTATCTCTCAGACCACAGTGCAATCAAACTAGAACTCAGGATTAAGAATCTCACTCAAAGCCGCTCAACTACATGGAAACTGAACAACCTGCTCCTGAATGACTACTGGGTACATAACGAAATGAAGGCAGAAATAAAGATGTTCTTTGAAACCAACGAGAACAAAGACACCACATACCAGAATCTCTGGGACGCATTCAAAGCAGTGTGTAGAGGGAAATTTATAGCACTAAATGCCTACCAGAGAAAGCAGGAAAGATCCAAAATTGACACCCTAACATCACAATTAAAAGAACTAGAAAAGCAAGAGCAAACACATTCAAAAGCTAGCAGAAGGCAAGAAATAACTAAAATCAGAGCAGAACTGAAGGAAATAGAGACACAAAAAACCCTTCAAAAAATCAATGAATCCAGGAGCTGGTTTTTTGAAAGGATCAACAAAATTGATAGACCGCTAGCAAGACTAATAAAGAAAAAAAGAGAGAAGAATCAAATAGACACAATAAAAAATGATAAAGGGGATATCACCACCGATCCCACAGAAATACAAACTACCATCAGAGAATACTACAAACACCTCTATGCAAATAAACTAGAAAATCTGGAAGAAACGGATACATTCCTCGACACATACACTCTCCCAAGACTAAACCAGGAAGAAGTTGAATCTCTGAATCGACCAATAACAGGCTCTGAAATTGTGGCAATAATCAATAGTTTACCAACCAAAAAGAGTCCAGGACCAGATGGATTCACAGCCGAATTCTACCAGAGGTACAAGGAGGAACTGGTACCATTCCTTCTGAAACTATTCCAATCAATAGAAAAAGAGGGAATCCTCCCTAACTCATTTTATGAGGCCAGCATCATTCTGATACCAAAGCCGGGCAGAGACACAACCAAAAAAGAGAATTTTAGACCAATATCCTTGATGAACATTGATGCAAAAATCCTCAATAAAATACTGGCAAACCGAATCCAGCAGCACATCAAAAAGCTTATCCACCATGATCAAGTGGGCTTCATCCCTGGGATGCAAGGCTGGTTCAATATACGCAAATCAATAAATGTAATCCAGCATATAAACAGAGCCAAAGACAAAAACCACATGATTATCTCAATAGATGCAGAAAAAGCCTTTGACAAAATTCAACAACCCTTCATGCTAAAAACTCTCAATAAATTAGGTATTGATGGGACGTATTTCAAAATAATAAGAGCTATCTATGACAAACCCACAGCCAATATCATACTGAATGGGCAAAAACTGGAAGCATTCCCTTTGAAAACTGGCACAAGACAGGGATGCCCTCTCTCACCGCTCCTATTCAACATAGTGTTGGAAGTTCTGGCCAGGGCAATCAGGCAGGAGAAGGAAATAAAGGGTATTCAATTAGGAAAAGAGGAAGTCAAATTGTCCCTGTTTGCAGACGACATGATTGTTTATCTAGAAAACCCCATCGTCTCAGCCCAAAATCTCCTTAAGCTGATAAGCAACTTCAGCAAAGTCTCAGGATACAAAATCAATGTACAAAAATCACAAGCATTCTTATACACCAACAACAGACAAACAGAGAGCCAAATCATGAGTGAACTCCCATTCACAATTGCTTCAAAGAGAATAAAATACCTAGGAATCCAACTTACAAGGGATGTGAAGGACCTCTTCAAGGAGAACTACAAACCACTGCTCAAGGAAATAAAAGAGGAGACAAACAAATGGAAGAACATTCCATGCTCATGGGTAGGAAGAATCAATATCGTGAAAATGGCCATACTGCCCAAGGTAATTTACAGATTCAATGCCATCCCCATCAAGCTACCAATGACTTTCTTCACAGAATTGGAAAAAACTACTTTAAAGTTCATATGGAACCAAAAAAGAGCCCGCATTGCCAAGTCAATCCTAAGCCAAAAGAACAAAGCTGGAGGCATCACACTACCTGACTTCAAACTATACTACAAGGCTACAGTAACCAAAACAGCATGGTACTGGTACCAAAACAGAGATATAGATCAATGGAACAGAACAGAGCCCTCAGAAATAATGCCGCATATCTACAACTATCTGATCTTTGACAAACCTGAGAAAAACAAGCAATGGGGAAAGGATTCCCTGTTTAATAAATGGTGCTGGGAAAACTGGCTAGCCATATGTAGAAAGCTGAAACTGGATCCCTTCCTTACACCTTATACAAAAATCAATTCAAGATGGATTAAAGATTTAAACGTTAAACCTAAAACCATAAAAACCCTAGAAGAAAACCTAGGCATTACCATTCAGGACATAGGCGTGGGCAAGGACTTCATGTCCAAAACACCAAAAGCAATGGCAACAAAAGACAAAATTGACAAATGGGATCTAATTAAACTAAAGAGCTTCTGCACAGCAAAAGAAACTACCATCAGAGTGAACAGGCAACCTACAACATGGGAGAAAATTTTTGCAACCTACTCATCTGACAAAGGGCTAATATCCAGAATCTACAATGAACTCAAACAAATTTACAAGAAAAAAACAAACAACCCCATCAAAAAGTGGGCGAAGGACATGAACAGACACTTCTCAAAAGAAGACATTTATGCAGCCAAAAAACACATGAAGAAATGCTCATCATCACTGGCCATCAGAGAAATGCAAATCAAAACCACTATGAGATATCATCTCACACCAGTTAGAATGGCAATCATTAAAAAGTCAGGAAACAACAGGTGCTGGAGAGGATGCGGAGAAATAGGAACACTTTTACACTGTTGGTGGGACTGTAAACTAGTTCAACCATTGTGGAAGTCAGTGTGGCGATTCCTCAGGGATCTAGAACTAGAAATACCATTTGACCCAGCCATCCCATTACTGGGTATATACCCAAATGAGTATAAATCATGCTGCTATAAAGACACATGCACACGTATGTTTATTGCGGCACTATTCACAATAGCAAAGACTTGGAACCAACCCAAATGTCCAACAATGATAGACTGGATTAAGAAAATGTGGCACATATACACCATGGAATACTATGCAGCCATAAAAAATGATGAGTTCATATCCTTTGTAGGGACATGGATGAAATTGGAAACCATCATTCTCAGTAAACTATCGCAAGAACAAAAAACCAAACACCGCATATTCTCACTCATAGGTGGGAATTGAACAATGAGATCACATGGACACAGGAAGGGGAATATCACACTCTGGGGACTGTGGTGGGGTCGGGGGAGGGGGGAGGGATAGCATTGGGAGATATACCTAATGCTAGATGACACATTAGTGGGTGCAGCGCACCAGCATGGCACATGTATACATATGTAACTAACCTGCACAATGTGCACATGTACCCTAAAACTTAGAGTATAATAAAAAAAAAAAAAAAAAAAAAAAATGCCAGTTACATTCTAAATCCCTGTAGCAGCATTTCAGGGAAACAGTTTGTCAATATTACTTTCCTTTGTCAAATCCGTGAAATAGCAGTTGATTTCTTAAAATAAATCTCAAGCTATAAAATGTTAAAAAAAAAAATAAATAAATAAATAAATAAATAAATAAATAAAAAAAAAAAAAAAAAAAAAA"	"-"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AAGATCGTGTCGAAGATGGCCGAATAGGAACAGCTCCGGTCTACAGCTCCCTGCGTGAGCGACGCAGAAGACGGTGATTTCTGCATTTCCATCTGAGACCTGCAGCTGAGGGTCCTGTCTGTTAGAAGGAAAACTAACAACCAGAAAGGACATCTACACCGAAAACCCATCTGTACATCACCATCATCAAAGACCAAAAGTAGATAAAACCACAAAGATGGGGAAAAAACAGAACAGAAAAACTGGAAACTCTAAAACACAGAGCGCCTCTCCTCCTCCAAAGGAACGCAGTTCCTCACCAGCAACAGAACAAAGCTGGATGGAGAATGATTTTGACGAGCTGAGAGAAGAAGGCTTCAGACGATCAAATTACTCTGAGCTACGGGAGGACATTCAAACCAAAGGCAAAGAAGTTGAAAACTTTGAAAAAAATTTAGAAGAATGTATAACTAGAATAACCAATACAGAGAAGTGCTTAAAGGAGCTGATGGAGCTGAAAACCAAGGCTCGAGAACTACGTGAAGAATGCAGAAGCCTCAGGAGCCGATGCGATCAACTGGAAGAAAGGGTATCAGCAATGGAAGATGAAATGAATGAAATGAAGCGAGAAGGGAAGTTTAGAGAAAAAAGAATAAAAAGAAATGAGCAAAGCCTCCAAGAAATATGGGACTATGTGAAAAGACCAAATCTACGTCTGATTGGTGTACCTGAAAGTGATGTGGAGAATGGAACCAAGTTGGAAAACACTCTGCAGGATATTATCCAGGAGAACTTCCCCAATCTAGCAAGGCAGGCCAACGTTCAGATTCAGGAAATACAGAGAACGCCACAAAGATACTCCTCGAGAAGAGCAACTCCAAGACACATAATTGTCAGATTCACCAAAGTTGAAATGAAGGAAAAAATGTTAAGGGCAGCCAGAGAGAAAGGTCGGGTTACCCTCAAAGGAAAGCCCATCAGACTAACAGCGGATCTCTCGGCAGAAACCCTACAAGCCAGAAGAGAGTGGGGGCCAATATTCAACATTCTTAAAGAAAAGAATTTTCAACCCAGAATTTCATATCCAGCCAAACTAAGCTTCATAAGTGAAGGAGAAATAAAATACTTTATAGACAAGCAAATGTTGAGAGATTTTGTCACCACCACGCCTGCCCTAAAAGAGCTCCTGAAGGAAGCACTAAACATGGAAAGGAACAACCGGTACCAGCCGCTGCAAAATCATGCCAAAATGTAAAGACCATCGAGACTAGGAAGAAACTGCATCAACTAATGAGCAAAATCACCAGCTAACATCATAATGACAGGATCAAATTCACACATAACAATATTAACTTTAAATATAAATGGACTAAATTCTGCAATTAAAAGACACAGACTGGCAAGTTGGATAAAGAGTCAAGACCCATCAGTGTGCTGTATTCAGGAAACCCATCTCACGTGCAGAGACACACATAGGCTCAAAATAAAAGGATGGAGGAAGATCTACCAAGCCAATGGAAAACAAAAAAAGGCAGGGGTTGCAATCCTAGTCTCTGATAAAACAGACTTTAAACCAACAAAGATCAAAAGAGACAAAGAAGGCCATTACATAATGGTAAAGGGATCAATTCAACAAGAGGAGCTAACTATCCTAAATATTTATGCACCCAATACAGGAGCACCCAGATTCATAAAGCAAGTCCTCAGTGACCTACAAAGAGACTTAGACTCCCACACATTAATAATGGGAGACTTTAACACCCCACTGTCAACATTAGACAGATCAACAAGACAGAAAGTCAACAAGGATACCCAGGAATTGAACTCAGCTCTGCACCAAGCAGACCTAATAGACATCTACAGAACTCTCCACCCCAAATCAACAGAATATACATTTTTTTCAGCACCACACCACACCTATTCCAAAATTGACCACATAGTTGGAAGTAAAGCTCTCCTCAGCAAATGTAAAAGAACAGAAATTATAACAAACTATCTCTCAGACCACAGTGCAATCAAACTAGAACTCAGGATTAAGAATCTCACTCAAAGCCGCTCAACTACATGGAAACTGAACAACCTGCTCCTGAATGACTACTGGGTACATAACGAAATGAAGGCAGAAATAAAGATGTTCTTTGAAACCAACGAGAACAAAGACACCACATACCAGAATCTCTGGGACGCATTCAAAGCAGTGTGTAGAGGGAAATTTATAGCACTAAATGCCTACCAGAGAAAGCAGGAAAGATCCAAAATTGACACCCTAACATCACAATTAAAAGAACTAGAAAAGCAAGAGCAAACACATTCAAAAGCTAGCAGAAGGCAAGAAATAACTAAAATCAGAGCAGAACTGAAGGAAATAGAGACACAAAAAACCCTTCAAAAAATCAATGAATCCAGGAGCTGGTTTTTTGAAAGGATCAACAAAATTGATAGACCGCTAGCAAGACTAATAAAGAAAAAAAGAGAGAAGAATCAAATAGACACAATAAAAAATGATAAAGGGGATATCACCACCGATCCCACAGAAATACAAACTACCATCAGAGAATACTACAAACACCTCTATGCAAATAAACTAGAAAATCTGGAAGAAACGGATACATTCCTCGACACATACACTCTCCCAAGACTAAACCAGGAAGAAGTTGAATCTCTGAATCGACCAATAACAGGCTCTGAAATTGTGGCAATAATCAATAGTTTACCAACCAAAAAGAGTCCAGGACCAGATGGATTCACAGCCGAATTCTACCAGAGGTACAAGGAGGAACTGGTACCATTCCTTCTGAAACTATTCCAATCAATAGAAAAAGAGGGAATCCTCCCTAACTCATTTTATGAGGCCAGCATCATTCTGATACCAAAGCCGGGCAGAGACACAACCAAAAAAGAGAATTTTAGACCAATATCCTTGATGAACATTGATGCAAAAATCCTCAATAAAATACTGGCAAACCGAATCCAGCAGCACATCAAAAAGCTTATCCACCATGATCAAGTGGGCTTCATCCCTGGGATGCAAGGCTGGTTCAATATACGCAAATCAATAAATGTAATCCAGCATATAAACAGAGCCAAAGACAAAAACCACATGATTATCTCAATAGATGCAGAAAAAGCCTTTGACAAAATTCAACAACCCTTCATGCTAAAAACTCTCAATAAATTAGGTATTGATGGGACGTATTTCAAAATAATAAGAGCTATCTATGACAAACCCACAGCCAATATCATACTGAATGGGCAAAAACTGGAAGCATTCCCTTTGAAAACTGGCACAAGACAGGGATGCCCTCTCTCACCGCTCCTATTCAACATAGTGTTGGAAGTTCTGGCCAGGGCAATCAGGCAGGAGAAGGAAATAAAGGGTATTCAATTAGGAAAAGAGGAAGTCAAATTGTCCCTGTTTGCAGACGACATGATTGTTTATCTAGAAAACCCCATCGTCTCAGCCCAAAATCTCCTTAAGCTGATAAGCAACTTCAGCAAAGTCTCAGGATACAAAATCAATGTACAAAAATCACAAGCATTCTTATACACCAACAACAGACAAACAGAGAGCCAAATCATGAGTGAACTCCCATTCACAATTGCTTCAAAGAGAATAAAATACCTAGGAATCCAACTTACAAGGGATGTGAAGGACCTCTTCAAGGAGAACTACAAACCACTGCTCAAGGAAATAAAAGAGGAGACAAACAAATGGAAGAACATTCCATGCTCATGGGTAGGAAGAATCAATATCGTGAAAATGGCCATACTGCCCAAGGTAATTTACAGATTCAATGCCATCCCCATCAAGCTACCAATGACTTTCTTCACAGAATTGGAAAAAACTACTTTAAAGTTCATATGGAACCAAAAAAGAGCCCGCATTGCCAAGTCAATCCTAAGCCAAAAGAACAAAGCTGGAGGCATCACACTACCTGACTTCAAACTATACTACAAGGCTACAGTAACCAAAACAGCATGGTACTGGTACCAAAACAGAGATATAGATCAATGGAACAGAACAGAGCCCTCAGAAATAATGCCGCATATCTACAACTATCTGATCTTTGACAAACCTGAGAAAAACAAGCAATGGGGAAAGGATTCCCTGTTTAATAAATGGTGCTGGGAAAACTGGCTAGCCATATGTAGAAAGCTGAAACTGGATCCCTTCCTTACACCTTATACAAAAATCAATTCAAGATGGATTAAAGATTTAAACGTTAAACCTAAAACCATAAAAACCCTAGAAGAAAACCTAGGCATTACCATTCAGGACATAGGCGTGGGCAAGGACTTCATGTCCAAAACACCAAAAGCAATGGCAACAAAAGACAAAATTGACAAATGGGATCTAATTAAACTAAAGAGCTTCTGCACAGCAAAAGAAACTACCATCAGAGTGAACAGGCAACCTACAACATGGGAGAAAATTTTTGCAACCTACTCATCTGACAAAGGGCTAATATCCAGAATCTACAATGAACTCAAACAAATTTACAAGAAAAAAACAAACAACCCCATCAAAAAGTGGGCGAAGGACATGAACAGACACTTCTCAAAAGAAGACATTTATGCAGCCAAAAAACACATGAAGAAATGCTCATCATCACTGGCCATCAGAGAAATGCAAATCAAAACCACTATGAGATATCATCTCACACCAGTTAGAATGGCAATCATTAAAAAGTCAGGAAACAACAGGTGCTGGAGAGGATGCGGAGAAATAGGAACACTTTTACACTGTTGGTGGGACTGTAAACTAGTTCAACCATTGTGGAAGTCAGTGTGGCGATTCCTCAGGGATCTAGAACTAGAAATACCATTTGACCCAGCCATCCCATTACTGGGTATATACCCAAATGAGTATAAATCATGCTGCTATAAAGACACATGCACACGTATGTTTATTGCGGCACTATTCACAATAGCAAAGACTTGGAACCAACCCAAATGTCCAACAATGATAGACTGGATTAAGAAAATGTGGCACATATACACCATGGAATACTATGCAGCCATAAAAAATGATGAGTTCATATCCTTTGTAGGGACATGGATGAAATTGGAAACCATCATTCTCAGTAAACTATCGCAAGAACAAAAAACCAAACACCGCATATTCTCACTCATAGGTGGGAATTGAACAATGAGATCACATGGACACAGGAAGGGGAATATCACACTCTGGGGACTGTGGTGGGGTCGGGGGAGGGGGGAGGGATAGCATTGGGAGATATACCTAATGCTAGATGACACATTAGTGGGTGCAGCGCACCAGCATGGCACATGTATACATATGTAACTAACCTGCACAATGTGCACATGTACCCTAAAACTTAGAGTATAATAAAAAAAAAAAAAAAAAAAAAAAATGCCAGTTACATTCTAAATCCCTGTAGCAGCATTTCAGGGAAACAGTTTGTCAATATTACTTTCCTTTGTCAAATCCGTGAAATAGCAGTTGATTTCTTAAAATAAATCTCAAGCTATAAAATGTTAAAAAAAAAAATAAATAAATAAATAAATAAATAAATAAATAAAAAAAAAAAAAAAAAAAAAA"	"AAGATCGTGTCGAAGATGGCCGAATAGGAACAGCTCCGGTCTACAGCTCCCTGCGTGAGCGACGCAGAAGACGGTGATTTCTGCATTTCCATCTGAGACCTGCAGCTGAGGGTCCTGTCTGTTAGAAGGAAAACTAACAACCAGAAAGGACATCTACACCGAAAACCCATCTGTACATCACCATCATCAAAGACCAAAAGTAGATAAAACCACAAAGATGGGGAAAAAACAGAACAGAAAAACTGGAAACTCTAAAACACAGAGCGCCTCTCCTCCTCCAAAGGAACGCAGTTCCTCACCAGCAACAGAACAAAGCTGGATGGAGAATGATTTTGACGAGCTGAGAGAAGAAGGCTTCAGACGATCAAATTACTCTGAGCTACGGGAGGACATTCAAACCAAAGGCAAAGAAGTTGAAAACTTTGAAAAAAATTTAGAAGAATGTATAACTAGAATAACCAATACAGAGAAGTGCTTAAAGGAGCTGATGGAGCTGAAAACCAAGGCTCGAGAACTACGTGAAGAATGCAGAAGCCTCAGGAGCCGATGCGATCAACTGGAAGAAAGGGTATCAGCAATGGAAGATGAAATGAATGAAATGAAGCGAGAAGGGAAGTTTAGAGAAAAAAGAATAAAAAGAAATGAGCAAAGCCTCCAAGAAATATGGGACTATGTGAAAAGACCAAATCTACGTCTGATTGGTGTACCTGAAAGTGATGTGGAGAATGGAACCAAGTTGGAAAACACTCTGCAGGATATTATCCAGGAGAACTTCCCCAATCTAGCAAGGCAGGCCAACGTTCAGATTCAGGAAATACAGAGAACGCCACAAAGATACTCCTCGAGAAGAGCAACTCCAAGACACATAATTGTCAGATTCACCAAAGTTGAAATGAAGGAAAAAATGTTAAGGGCAGCCAGAGAGAAAGGTCGGGTTACCCTCAAAGGAAAGCCCATCAGACTAACAGCGGATCTCTCGGCAGAAACCCTACAAGCCAGAAGAGAGTGGGGGCCAATATTCAACATTCTTAAAGAAAAGAATTTTCAACCCAGAATTTCATATCCAGCCAAACTAAGCTTCATAAGTGAAGGAGAAATAAAATACTTTATAGACAAGCAAATGTTGAGAGATTTTGTCACCACCACGCCTGCCCTAAAAGAGCTCCTGAAGGAAGCACTAAACATGGAAAGGAACAACCGGTACCAGCCGCTGCAAAATCATGCCAAAATGTAAAGACCATCGAGACTAGGAAGAAACTGCATCAACTAATGAGCAAAATCACCAGCTAACATCATAATGACAGGATCAAATTCACACATAACAATATTAACTTTAAATATAAATGGACTAAATTCTGCAATTAAAAGACACAGACTGGCAAGTTGGATAAAGAGTCAAGACCCATCAGTGTGCTGTATTCAGGAAACCCATCTCACGTGCAGAGACACACATAGGCTCAAAATAAAAGGATGGAGGAAGATCTACCAAGCCAATGGAAAACAAAAAAAGGCAGGGGTTGCAATCCTAGTCTCTGATAAAACAGACTTTAAACCAACAAAGATCAAAAGAGACAAAGAAGGCCATTACATAATGGTAAAGGGATCAATTCAACAAGAGGAGCTAACTATCCTAAATATTTATGCACCCAATACAGGAGCACCCAGATTCATAAAGCAAGTCCTCAGTGACCTACAAAGAGACTTAGACTCCCACACATTAATAATGGGAGACTTTAACACCCCACTGTCAACATTAGACAGATCAACAAGACAGAAAGTCAACAAGGATACCCAGGAATTGAACTCAGCTCTGCACCAAGCAGACCTAATAGACATCTACAGAACTCTCCACCCCAAATCAACAGAATATACATTTTTTTCAGCACCACACCACACCTATTCCAAAATTGACCACATAGTTGGAAGTAAAGCTCTCCTCAGCAAATGTAAAAGAACAGAAATTATAACAAACTATCTCTCAGACCACAGTGCAATCAAACTAGAACTCAGGATTAAGAATCTCACTCAAAGCCGCTCAACTACATGGAAACTGAACAACCTGCTCCTGAATGACTACTGGGTACATAACGAAATGAAGGCAGAAATAAAGATGTTCTTTGAAACCAACGAGAACAAAGACACCACATACCAGAATCTCTGGGACGCATTCAAAGCAGTGTGTAGAGGGAAATTTATAGCACTAAATGCCTACCAGAGAAAGCAGGAAAGATCCAAAATTGACACCCTAACATCACAATTAAAAGAACTAGAAAAGCAAGAGCAAACACATTCAAAAGCTAGCAGAAGGCAAGAAATAACTAAAATCAGAGCAGAACTGAAGGAAATAGAGACACAAAAAACCCTTCAAAAAATCAATGAATCCAGGAGCTGGTTTTTTGAAAGGATCAACAAAATTGATAGACCGCTAGCAAGACTAATAAAGAAAAAAAGAGAGAAGAATCAAATAGACACAATAAAAAATGATAAAGGGGATATCACCACCGATCCCACAGAAATACAAACTACCATCAGAGAATACTACAAACACCTCTATGCAAATAAACTAGAAAATCTGGAAGAAACGGATACATTCCTCGACACATACACTCTCCCAAGACTAAACCAGGAAGAAGTTGAATCTCTGAATCGACCAATAACAGGCTCTGAAATTGTGGCAATAATCAATAGTTTACCAACCAAAAAGAGTCCAGGACCAGATGGATTCACAGCCGAATTCTACCAGAGGTACAAGGAGGAACTGGTACCATTCCTTCTGAAACTATTCCAATCAATAGAAAAAGAGGGAATCCTCCCTAACTCATTTTATGAGGCCAGCATCATTCTGATACCAAAGCCGGGCAGAGACACAACCAAAAAAGAGAATTTTAGACCAATATCCTTGATGAACATTGATGCAAAAATCCTCAATAAAATACTGGCAAACCGAATCCAGCAGCACATCAAAAAGCTTATCCACCATGATCAAGTGGGCTTCATCCCTGGGATGCAAGGCTGGTTCAATATACGCAAATCAATAAATGTAATCCAGCATATAAACAGAGCCAAAGACAAAAACCACATGATTATCTCAATAGATGCAGAAAAAGCCTTTGACAAAATTCAACAACCCTTCATGCTAAAAACTCTCAATAAATTAGGTATTGATGGGACGTATTTCAAAATAATAAGAGCTATCTATGACAAACCCACAGCCAATATCATACTGAATGGGCAAAAACTGGAAGCATTCCCTTTGAAAACTGGCACAAGACAGGGATGCCCTCTCTCACCGCTCCTATTCAACATAGTGTTGGAAGTTCTGGCCAGGGCAATCAGGCAGGAGAAGGAAATAAAGGGTATTCAATTAGGAAAAGAGGAAGTCAAATTGTCCCTGTTTGCAGACGACATGATTGTTTATCTAGAAAACCCCATCGTCTCAGCCCAAAATCTCCTTAAGCTGATAAGCAACTTCAGCAAAGTCTCAGGATACAAAATCAATGTACAAAAATCACAAGCATTCTTATACACCAACAACAGACAAACAGAGAGCCAAATCATGAGTGAACTCCCATTCACAATTGCTTCAAAGAGAATAAAATACCTAGGAATCCAACTTACAAGGGATGTGAAGGACCTCTTCAAGGAGAACTACAAACCACTGCTCAAGGAAATAAAAGAGGAGACAAACAAATGGAAGAACATTCCATGCTCATGGGTAGGAAGAATCAATATCGTGAAAATGGCCATACTGCCCAAGGTAATTTACAGATTCAATGCCATCCCCATCAAGCTACCAATGACTTTCTTCACAGAATTGGAAAAAACTACTTTAAAGTTCATATGGAACCAAAAAAGAGCCCGCATTGCCAAGTCAATCCTAAGCCAAAAGAACAAAGCTGGAGGCATCACACTACCTGACTTCAAACTATACTACAAGGCTACAGTAACCAAAACAGCATGGTACTGGTACCAAAACAGAGATATAGATCAATGGAACAGAACAGAGCCCTCAGAAATAATGCCGCATATCTACAACTATCTGATCTTTGACAAACCTGAGAAAAACAAGCAATGGGGAAAGGATTCCCTGTTTAATAAATGGTGCTGGGAAAACTGGCTAGCCATATGTAGAAAGCTGAAACTGGATCCCTTCCTTACACCTTATACAAAAATCAATTCAAGATGGATTAAAGATTTAAACGTTAAACCTAAAACCATAAAAACCCTAGAAGAAAACCTAGGCATTACCATTCAGGACATAGGCGTGGGCAAGGACTTCATGTCCAAAACACCAAAAGCAATGGCAACAAAAGACAAAATTGACAAATGGGATCTAATTAAACTAAAGAGCTTCTGCACAGCAAAAGAAACTACCATCAGAGTGAACAGGCAACCTACAACATGGGAGAAAATTTTTGCAACCTACTCATCTGACAAAGGGCTAATATCCAGAATCTACAATGAACTCAAACAAATTTACAAGAAAAAAACAAACAACCCCATCAAAAAGTGGGCGAAGGACATGAACAGACACTTCTCAAAAGAAGACATTTATGCAGCCAAAAAACACATGAAGAAATGCTCATCATCACTGGCCATCAGAGAAATGCAAATCAAAACCACTATGAGATATCATCTCACACCAGTTAGAATGGCAATCATTAAAAAGTCAGGAAACAACAGGTGCTGGAGAGGATGCGGAGAAATAGGAACACTTTTACACTGTTGGTGGGACTGTAAACTAGTTCAACCATTGTGGAAGTCAGTGTGGCGATTCCTCAGGGATCTAGAACTAGAAATACCATTTGACCCAGCCATCCCATTACTGGGTATATACCCAAATGAGTATAAATCATGCTGCTATAAAGACACATGCACACGTATGTTTATTGCGGCACTATTCACAATAGCAAAGACTTGGAACCAACCCAAATGTCCAACAATGATAGACTGGATTAAGAAAATGTGGCACATATACACCATGGAATACTATGCAGCCATAAAAAATGATGAGTTCATATCCTTTGTAGGGACATGGATGAAATTGGAAACCATCATTCTCAGTAAACTATCGCAAGAACAAAAAACCAAACACCGCATATTCTCACTCATAGGTGGGAATTGAACAATGAGATCACATGGACACAGGAAGGGGAATATCACACTCTGGGGACTGTGGTGGGGTCGGGGGAGGGGGGAGGGATAGCATTGGGAGATATACCTAATGCTAGATGACACATTAGTGGGTGCAGCGCACCAGCATGGCACATGTATACATATGTAACTAACCTGCACAATGTGCACATGTACCCTAAAACTTAGAGTATAATAAAAAAAAAAAAAAAAAAAAAAAATGCCAGTTACATTCTAAATCCCTGTAGCAGCATTTCAGGGAAACAGTTTGTCAATATTACTTTCCTTTGTCAAATCCGTGAAATAGCAGTTGATTTCTTAAAATAAATCTCAAGCTATAAAATGTTAAAAAAAAAAATAAATAAATAAATAAATAAATAAATAAATAAAAAAAAAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4993-315_4992+1365delGAAGATGGCCGAATAGGAACAGCTCCGGTCTACAGCTCCCTGCGTGAGCGACGCAGAAGACGGTGATTTCTGCATTTCCATCTGAGACCTGCAGCTGAGGGTCCTGTCTGTTAGAAGGAAAACTAACAACCAGAAAGGACATCTACACCGAAAACCCATCTGTACATCACCATCATCAAAGACCAAAAGTAGATAAAACCACAAAGATGGGGAAAAAACAGAACAGAAAAACTGGAAACTCTAAAACACAGAGCGCCTCTCCTCCTCCAAAGGAACGCAGTTCCTCACCAGCAACAGAACAAAGCTGGATGGAGAATGATTTTGACGAGCTGAGAGAAGAAGGCTTCAGACGATCAAATTACTCTGAGCTACGGGAGGACATTCAAACCAAAGGCAAAGAAGTTGAAAACTTTGAAAAAAATTTAGAAGAATGTATAACTAGAATAACCAATACAGAGAAGTGCTTAAAGGAGCTGATGGAGCTGAAAACCAAGGCTCGAGAACTACGTGAAGAATGCAGAAGCCTCAGGAGCCGATGCGATCAACTGGAAGAAAGGGTATCAGCAATGGAAGATGAAATGAATGAAATGAAGCGAGAAGGGAAGTTTAGAGAAAAAAGAATAAAAAGAAATGAGCAAAGCCTCCAAGAAATATGGGACTATGTGAAAAGACCAAATCTACGTCTGATTGGTGTACCTGAAAGTGATGTGGAGAATGGAACCAAGTTGGAAAACACTCTGCAGGATATTATCCAGGAGAACTTCCCCAATCTAGCAAGGCAGGCCAACGTTCAGATTCAGGAAATACAGAGAACGCCACAAAGATACTCCTCGAGAAGAGCAACTCCAAGACACATAATTGTCAGATTCACCAAAGTTGAAATGAAGGAAAAAATGTTAAGGGCAGCCAGAGAGAAAGGTCGGGTTACCCTCAAAGGAAAGCCCATCAGACTAACAGCGGATCTCTCGGCAGAAACCCTACAAGCCAGAAGAGAGTGGGGGCCAATATTCAACATTCTTAAAGAAAAGAATTTTCAACCCAGAATTTCATATCCAGCCAAACTAAGCTTCATAAGTGAAGGAGAAATAAAATACTTTATAGACAAGCAAATGTTGAGAGATTTTGTCACCACCACGCCTGCCCTAAAAGAGCTCCTGAAGGAAGCACTAAACATGGAAAGGAACAACCGGTACCAGCCGCTGCAAAATCATGCCAAAATGTAAAGACCATCGAGACTAGGAAGAAACTGCATCAACTAATGAGCAAAATCACCAGCTAACATCATAATGACAGGATCAAATTCACACATAACAATATTAACTTTAAATATAAATGGACTAAATTCTGCAATTAAAAGACACAGACTGGCAAGTTGGATAAAGAGTCAAGACCCATCAGTGTGCTGTATTCAGGAAACCCATCTCACGTGCAGAGACACACATAGGCTCAAAATAAAAGGATGGAGGAAGATCTACCAAGCCAATGGAAAACAAAAAAAGGCAGGGGTTGCAATCCTAGTCTCTGATAAAACAGACTTTAAACCAACAAAGATCAAAAGAGACAAAGAAGGCCATTACATAATGGTAAAGGGATCAATTCAACAAGAGGAGCTAACTATCCTAAATATTTATGCACCCAATACAGGAGCACCCAGATTCATAAAGCAAGTCCTCAGTGACCTACAAAGAGACTTAGACTCCCACACATTAATAATGGGAGACTTTAACACCCCACTGTCAACATTAGACAGATCAACAAGACAGAAAGTCAACAAGGATACCCAGGAATTGAACTCAGCTCTGCACCAAGCAGACCTAATAGACATCTACAGAACTCTCCACCCCAAATCAACAGAATATACATTTTTTTCAGCACCACACCACACCTATTCCAAAATTGACCACATAGTTGGAAGTAAAGCTCTCCTCAGCAAATGTAAAAGAACAGAAATTATAACAAACTATCTCTCAGACCACAGTGCAATCAAACTAGAACTCAGGATTAAGAATCTCACTCAAAGCCGCTCAACTACATGGAAACTGAACAACCTGCTCCTGAATGACTACTGGGTACATAACGAAATGAAGGCAGAAATAAAGATGTTCTTTGAAACCAACGAGAACAAAGACACCACATACCAGAATCTCTGGGACGCATTCAAAGCAGTGTGTAGAGGGAAATTTATAGCACTAAATGCCTACCAGAGAAAGCAGGAAAGATCCAAAATTGACACCCTAACATCACAATTAAAAGAACTAGAAAAGCAAGAGCAAACACATTCAAAAGCTAGCAGAAGGCAAGAAATAACTAAAATCAGAGCAGAACTGAAGGAAATAGAGACACAAAAAACCCTTCAAAAAATCAATGAATCCAGGAGCTGGTTTTTTGAAAGGATCAACAAAATTGATAGACCGCTAGCAAGACTAATAAAGAAAAAAAGAGAGAAGAATCAAATAGACACAATAAAAAATGATAAAGGGGATATCACCACCGATCCCACAGAAATACAAACTACCATCAGAGAATACTACAAACACCTCTATGCAAATAAACTAGAAAATCTGGAAGAAACGGATACATTCCTCGACACATACACTCTCCCAAGACTAAACCAGGAAGAAGTTGAATCTCTGAATCGACCAATAACAGGCTCTGAAATTGTGGCAATAATCAATAGTTTACCAACCAAAAAGAGTCCAGGACCAGATGGATTCACAGCCGAATTCTACCAGAGGTACAAGGAGGAACTGGTACCATTCCTTCTGAAACTATTCCAATCAATAGAAAAAGAGGGAATCCTCCCTAACTCATTTTATGAGGCCAGCATCATTCTGATACCAAAGCCGGGCAGAGACACAACCAAAAAAGAGAATTTTAGACCAATATCCTTGATGAACATTGATGCAAAAATCCTCAATAAAATACTGGCAAACCGAATCCAGCAGCACATCAAAAAGCTTATCCACCATGATCAAGTGGGCTTCATCCCTGGGATGCAAGGCTGGTTCAATATACGCAAATCAATAAATGTAATCCAGCATATAAACAGAGCCAAAGACAAAAACCACATGATTATCTCAATAGATGCAGAAAAAGCCTTTGACAAAATTCAACAACCCTTCATGCTAAAAACTCTCAATAAATTAGGTATTGATGGGACGTATTTCAAAATAATAAGAGCTATCTATGACAAACCCACAGCCAATATCATACTGAATGGGCAAAAACTGGAAGCATTCCCTTTGAAAACTGGCACAAGACAGGGATGCCCTCTCTCACCGCTCCTATTCAACATAGTGTTGGAAGTTCTGGCCAGGGCAATCAGGCAGGAGAAGGAAATAAAGGGTATTCAATTAGGAAAAGAGGAAGTCAAATTGTCCCTGTTTGCAGACGACATGATTGTTTATCTAGAAAACCCCATCGTCTCAGCCCAAAATCTCCTTAAGCTGATAAGCAACTTCAGCAAAGTCTCAGGATACAAAATCAATGTACAAAAATCACAAGCATTCTTATACACCAACAACAGACAAACAGAGAGCCAAATCATGAGTGAACTCCCATTCACAATTGCTTCAAAGAGAATAAAATACCTAGGAATCCAACTTACAAGGGATGTGAAGGACCTCTTCAAGGAGAACTACAAACCACTGCTCAAGGAAATAAAAGAGGAGACAAACAAATGGAAGAACATTCCATGCTCATGGGTAGGAAGAATCAATATCGTGAAAATGGCCATACTGCCCAAGGTAATTTACAGATTCAATGCCATCCCCATCAAGCTACCAATGACTTTCTTCACAGAATTGGAAAAAACTACTTTAAAGTTCATATGGAACCAAAAAAGAGCCCGCATTGCCAAGTCAATCCTAAGCCAAAAGAACAAAGCTGGAGGCATCACACTACCTGACTTCAAACTATACTACAAGGCTACAGTAACCAAAACAGCATGGTACTGGTACCAAAACAGAGATATAGATCAATGGAACAGAACAGAGCCCTCAGAAATAATGCCGCATATCTACAACTATCTGATCTTTGACAAACCTGAGAAAAACAAGCAATGGGGAAAGGATTCCCTGTTTAATAAATGGTGCTGGGAAAACTGGCTAGCCATATGTAGAAAGCTGAAACTGGATCCCTTCCTTACACCTTATACAAAAATCAATTCAAGATGGATTAAAGATTTAAACGTTAAACCTAAAACCATAAAAACCCTAGAAGAAAACCTAGGCATTACCATTCAGGACATAGGCGTGGGCAAGGACTTCATGTCCAAAACACCAAAAGCAATGGCAACAAAAGACAAAATTGACAAATGGGATCTAATTAAACTAAAGAGCTTCTGCACAGCAAAAGAAACTACCATCAGAGTGAACAGGCAACCTACAACATGGGAGAAAATTTTTGCAACCTACTCATCTGACAAAGGGCTAATATCCAGAATCTACAATGAACTCAAACAAATTTACAAGAAAAAAACAAACAACCCCATCAAAAAGTGGGCGAAGGACATGAACAGACACTTCTCAAAAGAAGACATTTATGCAGCCAAAAAACACATGAAGAAATGCTCATCATCACTGGCCATCAGAGAAATGCAAATCAAAACCACTATGAGATATCATCTCACACCAGTTAGAATGGCAATCATTAAAAAGTCAGGAAACAACAGGTGCTGGAGAGGATGCGGAGAAATAGGAACACTTTTACACTGTTGGTGGGACTGTAAACTAGTTCAACCATTGTGGAAGTCAGTGTGGCGATTCCTCAGGGATCTAGAACTAGAAATACCATTTGACCCAGCCATCCCATTACTGGGTATATACCCAAATGAGTATAAATCATGCTGCTATAAAGACACATGCACACGTATGTTTATTGCGGCACTATTCACAATAGCAAAGACTTGGAACCAACCCAAATGTCCAACAATGATAGACTGGATTAAGAAAATGTGGCACATATACACCATGGAATACTATGCAGCCATAAAAAATGATGAGTTCATATCCTTTGTAGGGACATGGATGAAATTGGAAACCATCATTCTCAGTAAACTATCGCAAGAACAAAAAACCAAACACCGCATATTCTCACTCATAGGTGGGAATTGAACAATGAGATCACATGGACACAGGAAGGGGAATATCACACTCTGGGGACTGTGGTGGGGTCGGGGGAGGGGGGAGGGATAGCATTGGGAGATATACCTAATGCTAGATGACACATTAGTGGGTGCAGCGCACCAGCATGGCACATGTATACATATGTAACTAACCTGCACAATGTGCACATGTACCCTAAAACTTAGAGTATAATAAAAAAAAAAAAAAAAAAAAAAAATGCCAGTTACATTCTAAATCCCTGTAGCAGCATTTCAGGGAAACAGTTTGTCAATATTACTTTCCTTTGTCAAATCCGTGAAATAGCAGTTGATTTCTTAAAATAAATCTCAAGCTATAAAATGTTAAAAAAAAAAATAAATAAATAAATAAATAAATAAATAAATAAAAAAAAAAAAAAAAAAAAAAAAGATCGTGTC"	""	""	"ENST00000358511"	""	7	"."	5	1	"."	0	"COL6A6,intron_variant,,ENST00000358511,NM_001102608.1;COL6A6,intron_variant,,ENST00000453409,;COL6A6,intron_variant,,ENST00000506143,;"	"-"	"ENSG00000206384"	"ENST00000358511"	"Transcript"	"intron_variant"	"-/9581"	"-/6792"	"-/2263"	""	""	""	"1"	NA	1	"COL6A6"	"HGNC"	27023	"protein_coding"	"YES"	"CCDS46911.1"	"ENSP00000351310"	"A6NMZ7"	""	"UPI00015B6548"	"NM_001102608.1"	NA	NA	""	"25/35"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"11"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAAGATCGTGTCGAAGATGGCCGAATAGGAACAGCTCCGGTCTACAGCTCCCTGCGTGAGCGACGCAGAAGACGGTGATTTCTGCATTTCCATCTGAGACCTGCAGCTGAGGGTCCTGTCTGTTAGAAGGAAAACTAACAACCAGAAAGGACATCTACACCGAAAACCCATCTGTACATCACCATCATCAAAGACCAAAAGTAGATAAAACCACAAAGATGGGGAAAAAACAGAACAGAAAAACTGGAAACTCTAAAACACAGAGCGCCTCTCCTCCTCCAAAGGAACGCAGTTCCTCACCAGCAACAGAACAAAGCTGGATGGAGAATGATTTTGACGAGCTGAGAGAAGAAGGCTTCAGACGATCAAATTACTCTGAGCTACGGGAGGACATTCAAACCAAAGGCAAAGAAGTTGAAAACTTTGAAAAAAATTTAGAAGAATGTATAACTAGAATAACCAATACAGAGAAGTGCTTAAAGGAGCTGATGGAGCTGAAAACCAAGGCTCGAGAACTACGTGAAGAATGCAGAAGCCTCAGGAGCCGATGCGATCAACTGGAAGAAAGGGTATCAGCAATGGAAGATGAAATGAATGAAATGAAGCGAGAAGGGAAGTTTAGAGAAAAAAGAATAAAAAGAAATGAGCAAAGCCTCCAAGAAATATGGGACTATGTGAAAAGACCAAATCTACGTCTGATTGGTGTACCTGAAAGTGATGTGGAGAATGGAACCAAGTTGGAAAACACTCTGCAGGATATTATCCAGGAGAACTTCCCCAATCTAGCAAGGCAGGCCAACGTTCAGATTCAGGAAATACAGAGAACGCCACAAAGATACTCCTCGAGAAGAGCAACTCCAAGACACATAATTGTCAGATTCACCAAAGTTGAAATGAAGGAAAAAATGTTAAGGGCAGCCAGAGAGAAAGGTCGGGTTACCCTCAAAGGAAAGCCCATCAGACTAACAGCGGATCTCTCGGCAGAAACCCTACAAGCCAGAAGAGAGTGGGGGCCAATATTCAACATTCTTAAAGAAAAGAATTTTCAACCCAGAATTTCATATCCAGCCAAACTAAGCTTCATAAGTGAAGGAGAAATAAAATACTTTATAGACAAGCAAATGTTGAGAGATTTTGTCACCACCACGCCTGCCCTAAAAGAGCTCCTGAAGGAAGCACTAAACATGGAAAGGAACAACCGGTACCAGCCGCTGCAAAATCATGCCAAAATGTAAAGACCATCGAGACTAGGAAGAAACTGCATCAACTAATGAGCAAAATCACCAGCTAACATCATAATGACAGGATCAAATTCACACATAACAATATTAACTTTAAATATAAATGGACTAAATTCTGCAATTAAAAGACACAGACTGGCAAGTTGGATAAAGAGTCAAGACCCATCAGTGTGCTGTATTCAGGAAACCCATCTCACGTGCAGAGACACACATAGGCTCAAAATAAAAGGATGGAGGAAGATCTACCAAGCCAATGGAAAACAAAAAAAGGCAGGGGTTGCAATCCTAGTCTCTGATAAAACAGACTTTAAACCAACAAAGATCAAAAGAGACAAAGAAGGCCATTACATAATGGTAAAGGGATCAATTCAACAAGAGGAGCTAACTATCCTAAATATTTATGCACCCAATACAGGAGCACCCAGATTCATAAAGCAAGTCCTCAGTGACCTACAAAGAGACTTAGACTCCCACACATTAATAATGGGAGACTTTAACACCCCACTGTCAACATTAGACAGATCAACAAGACAGAAAGTCAACAAGGATACCCAGGAATTGAACTCAGCTCTGCACCAAGCAGACCTAATAGACATCTACAGAACTCTCCACCCCAAATCAACAGAATATACATTTTTTTCAGCACCACACCACACCTATTCCAAAATTGACCACATAGTTGGAAGTAAAGCTCTCCTCAGCAAATGTAAAAGAACAGAAATTATAACAAACTATCTCTCAGACCACAGTGCAATCAAACTAGAACTCAGGATTAAGAATCTCACTCAAAGCCGCTCAACTACATGGAAACTGAACAACCTGCTCCTGAATGACTACTGGGTACATAACGAAATGAAGGCAGAAATAAAGATGTTCTTTGAAACCAACGAGAACAAAGACACCACATACCAGAATCTCTGGGACGCATTCAAAGCAGTGTGTAGAGGGAAATTTATAGCACTAAATGCCTACCAGAGAAAGCAGGAAAGATCCAAAATTGACACCCTAACATCACAATTAAAAGAACTAGAAAAGCAAGAGCAAACACATTCAAAAGCTAGCAGAAGGCAAGAAATAACTAAAATCAGAGCAGAACTGAAGGAAATAGAGACACAAAAAACCCTTCAAAAAATCAATGAATCCAGGAGCTGGTTTTTTGAAAGGATCAACAAAATTGATAGACCGCTAGCAAGACTAATAAAGAAAAAAAGAGAGAAGAATCAAATAGACACAATAAAAAATGATAAAGGGGATATCACCACCGATCCCACAGAAATACAAACTACCATCAGAGAATACTACAAACACCTCTATGCAAATAAACTAGAAAATCTGGAAGAAACGGATACATTCCTCGACACATACACTCTCCCAAGACTAAACCAGGAAGAAGTTGAATCTCTGAATCGACCAATAACAGGCTCTGAAATTGTGGCAATAATCAATAGTTTACCAACCAAAAAGAGTCCAGGACCAGATGGATTCACAGCCGAATTCTACCAGAGGTACAAGGAGGAACTGGTACCATTCCTTCTGAAACTATTCCAATCAATAGAAAAAGAGGGAATCCTCCCTAACTCATTTTATGAGGCCAGCATCATTCTGATACCAAAGCCGGGCAGAGACACAACCAAAAAAGAGAATTTTAGACCAATATCCTTGATGAACATTGATGCAAAAATCCTCAATAAAATACTGGCAAACCGAATCCAGCAGCACATCAAAAAGCTTATCCACCATGATCAAGTGGGCTTCATCCCTGGGATGCAAGGCTGGTTCAATATACGCAAATCAATAAATGTAATCCAGCATATAAACAGAGCCAAAGACAAAAACCACATGATTATCTCAATAGATGCAGAAAAAGCCTTTGACAAAATTCAACAACCCTTCATGCTAAAAACTCTCAATAAATTAGGTATTGATGGGACGTATTTCAAAATAATAAGAGCTATCTATGACAAACCCACAGCCAATATCATACTGAATGGGCAAAAACTGGAAGCATTCCCTTTGAAAACTGGCACAAGACAGGGATGCCCTCTCTCACCGCTCCTATTCAACATAGTGTTGGAAGTTCTGGCCAGGGCAATCAGGCAGGAGAAGGAAATAAAGGGTATTCAATTAGGAAAAGAGGAAGTCAAATTGTCCCTGTTTGCAGACGACATGATTGTTTATCTAGAAAACCCCATCGTCTCAGCCCAAAATCTCCTTAAGCTGATAAGCAACTTCAGCAAAGTCTCAGGATACAAAATCAATGTACAAAAATCACAAGCATTCTTATACACCAACAACAGACAAACAGAGAGCCAAATCATGAGTGAACTCCCATTCACAATTGCTTCAAAGAGAATAAAATACCTAGGAATCCAACTTACAAGGGATGTGAAGGACCTCTTCAAGGAGAACTACAAACCACTGCTCAAGGAAATAAAAGAGGAGACAAACAAATGGAAGAACATTCCATGCTCATGGGTAGGAAGAATCAATATCGTGAAAATGGCCATACTGCCCAAGGTAATTTACAGATTCAATGCCATCCCCATCAAGCTACCAATGACTTTCTTCACAGAATTGGAAAAAACTACTTTAAAGTTCATATGGAACCAAAAAAGAGCCCGCATTGCCAAGTCAATCCTAAGCCAAAAGAACAAAGCTGGAGGCATCACACTACCTGACTTCAAACTATACTACAAGGCTACAGTAACCAAAACAGCATGGTACTGGTACCAAAACAGAGATATAGATCAATGGAACAGAACAGAGCCCTCAGAAATAATGCCGCATATCTACAACTATCTGATCTTTGACAAACCTGAGAAAAACAAGCAATGGGGAAAGGATTCCCTGTTTAATAAATGGTGCTGGGAAAACTGGCTAGCCATATGTAGAAAGCTGAAACTGGATCCCTTCCTTACACCTTATACAAAAATCAATTCAAGATGGATTAAAGATTTAAACGTTAAACCTAAAACCATAAAAACCCTAGAAGAAAACCTAGGCATTACCATTCAGGACATAGGCGTGGGCAAGGACTTCATGTCCAAAACACCAAAAGCAATGGCAACAAAAGACAAAATTGACAAATGGGATCTAATTAAACTAAAGAGCTTCTGCACAGCAAAAGAAACTACCATCAGAGTGAACAGGCAACCTACAACATGGGAGAAAATTTTTGCAACCTACTCATCTGACAAAGGGCTAATATCCAGAATCTACAATGAACTCAAACAAATTTACAAGAAAAAAACAAACAACCCCATCAAAAAGTGGGCGAAGGACATGAACAGACACTTCTCAAAAGAAGACATTTATGCAGCCAAAAAACACATGAAGAAATGCTCATCATCACTGGCCATCAGAGAAATGCAAATCAAAACCACTATGAGATATCATCTCACACCAGTTAGAATGGCAATCATTAAAAAGTCAGGAAACAACAGGTGCTGGAGAGGATGCGGAGAAATAGGAACACTTTTACACTGTTGGTGGGACTGTAAACTAGTTCAACCATTGTGGAAGTCAGTGTGGCGATTCCTCAGGGATCTAGAACTAGAAATACCATTTGACCCAGCCATCCCATTACTGGGTATATACCCAAATGAGTATAAATCATGCTGCTATAAAGACACATGCACACGTATGTTTATTGCGGCACTATTCACAATAGCAAAGACTTGGAACCAACCCAAATGTCCAACAATGATAGACTGGATTAAGAAAATGTGGCACATATACACCATGGAATACTATGCAGCCATAAAAAATGATGAGTTCATATCCTTTGTAGGGACATGGATGAAATTGGAAACCATCATTCTCAGTAAACTATCGCAAGAACAAAAAACCAAACACCGCATATTCTCACTCATAGGTGGGAATTGAACAATGAGATCACATGGACACAGGAAGGGGAATATCACACTCTGGGGACTGTGGTGGGGTCGGGGGAGGGGGGAGGGATAGCATTGGGAGATATACCTAATGCTAGATGACACATTAGTGGGTGCAGCGCACCAGCATGGCACATGTATACATATGTAACTAACCTGCACAATGTGCACATGTACCCTAAAACTTAGAGTATAATAAAAAAAAAAAAAAAAAAAAAAAATGCCAGTTACATTCTAAATCCCTGTAGCAGCATTTCAGGGAAACAGTTTGTCAATATTACTTTCCTTTGTCAAATCCGTGAAATAGCAGTTGATTTCTTAAAATAAATCTCAAGCTATAAAATGTTAAAAAAAAAAATAAATAAATAAATAAATAAATAAATAAATAAAAAAAAAAAAAAAAAAAAAAA"	"4cd979b0-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1841"	"COL6A6"	131873	"mskcc.org"	"GRCh37"	"3"	130364072	130364074	"+"	"Intron"	"DEL"	"AAA"	"AAA"	"-"	"rs10586900"	NA	"JHCCPT1"	"JHCCPN1"	"AAA"	"AAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5239+229_5239+231delAAA"	""	""	"ENST00000358511"	""	28	"."	7	5	"."	0	"COL6A6,intron_variant,,ENST00000358511,NM_001102608.1;COL6A6,intron_variant,,ENST00000453409,;COL6A6,intron_variant,,ENST00000506143,;"	"-"	"ENSG00000206384"	"ENST00000358511"	"Transcript"	"intron_variant"	"-/9581"	"-/6792"	"-/2263"	""	""	"rs10586900"	"1"	NA	1	"COL6A6"	"HGNC"	27023	"protein_coding"	"YES"	"CCDS46911.1"	"ENSP00000351310"	"A6NMZ7"	""	"UPI00015B6548"	"NM_001102608.1"	NA	NA	""	"31/35"	""	"-:0.2656"	"-:0.5061"	"-:0.1988"	NA	"-:0.246"	"-:0.0974"	"-:0.181"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAAAA"	"4ce2ec0c-2764-11e6-be88-1087424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1842"	"ATP2C1"	27032	"mskcc.org"	"GRCh37"	"3"	130698528	130698528	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs5852612"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1843+266delA"	""	""	"ENST00000393221"	""	10	"."	4	2	"."	0	"ATP2C1,intron_variant,,ENST00000510168,;ATP2C1,intron_variant,,ENST00000508532,NM_001199179.1;ATP2C1,intron_variant,,ENST00000505330,NM_001199181.1;ATP2C1,intron_variant,,ENST00000428331,NM_014382.3;ATP2C1,intron_variant,,ENST00000504948,NM_001199184.1;ATP2C1,intron_variant,,ENST00000507488,NM_001199180.1;ATP2C1,intron_variant,,ENST00000504381,NM_001199182.1;ATP2C1,intron_variant,,ENST00000328560,NM_001199185.1,NM_001001485.2;ATP2C1,intron_variant,,ENST00000393221,;ATP2C1,intron_variant,,ENST00000513801,NM_001199183.1;ATP2C1,intron_variant,,ENST00000359644,NM_001001486.1;ATP2C1,intron_variant,,ENST00000422190,NM_001001487.1;ATP2C1,intron_variant,,ENST00000533801,;ATP2C1,intron_variant,,ENST00000504612,;ATP2C1,intron_variant,,ENST00000508660,;ATP2C1,intron_variant,,ENST00000514654,;ATP2C1,intron_variant,,ENST00000504571,;ATP2C1,upstream_gene_variant,,ENST00000510774,;"	"-"	"ENSG00000017260"	"ENST00000393221"	"Transcript"	"intron_variant"	"-/3446"	"-/2922"	"-/973"	""	""	"rs5852612"	"1"	NA	1	"ATP2C1"	"HGNC"	13211	"protein_coding"	"YES"	"CCDS56278.1"	"ENSP00000376914"	"P98194"	"D6RGE9,D6R9U9"	"UPI0000EE224C"	""	NA	NA	""	"18/27"	""	"A:0.2075"	"-:0.7776"	"-:0.7939"	NA	"-:0.5823"	"-:0.9264"	"-:0.8906"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCAA"	"4d1cd674-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1843"	"CPNE4"	131034	"mskcc.org"	"GRCh37"	"3"	131270994	131270996	"+"	"Intron"	"DEL"	"TTA"	"TTA"	"-"	"rs149887152"	NA	"JHCCPT1"	"JHCCPN1"	"TTA"	"TTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1168+288_1168+290delTAA"	""	""	"ENST00000512055"	""	26	"."	3	12	"."	0	"CPNE4,intron_variant,,ENST00000512055,;CPNE4,intron_variant,,ENST00000429747,NM_130808.1;CPNE4,intron_variant,,ENST00000511604,;CPNE4,intron_variant,,ENST00000512332,;CPNE4,intron_variant,,ENST00000502818,;CPNE4,intron_variant,,ENST00000515418,;"	"-"	"ENSG00000196353"	"ENST00000512055"	"Transcript"	"intron_variant"	"-/5431"	"-/1674"	"-/557"	""	""	"rs149887152"	"1"	NA	-1	"CPNE4"	"HGNC"	2317	"protein_coding"	"YES"	"CCDS3072.1"	"ENSP00000421705"	"Q96A23"	"Q4G168,D6RI99,D6RFY4,D6RCT2"	"UPI0000127C14"	""	NA	NA	""	"17/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTTAT"	"4d44a00a-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WXS"	FALSE
"1844"	"RYK"	6259	"mskcc.org"	"GRCh37"	"3"	133788607	133788607	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs200491164"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.180-3652delC"	""	""	"ENST00000484106"	""	6	"."	4	1	"."	0	"RYK,intron_variant,,ENST00000484106,;"	"-"	"ENSG00000163785"	"ENST00000484106"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/823"	""	""	""	""	"rs200491164"	"1"	NA	-1	"RYK"	"HGNC"	10481	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"-:0.1098"	"-:0.1921"	"-:0.0937"	NA	"-:0.1379"	"-:0.0477"	"-:0.045"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"4e47eb42-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1845"	"CEP63"	80254	"mskcc.org"	"GRCh37"	"3"	134270587	134270598	"+"	"Intron"	"DEL"	"ATATATATATAC"	"ATATATATATAC"	"-"	"rs753900140"	NA	"JHCCPT1"	"JHCCPN1"	"ATATATATATAC"	"ATATATATATAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1381-180_1381-169delTATATATATACA"	""	""	"ENST00000337090"	""	10	"."	4	3	"."	0	"CEP63,intron_variant,,ENST00000337090,;CEP63,intron_variant,,ENST00000513612,NM_025180.3;CEP63,intron_variant,,ENST00000606977,;CEP63,intron_variant,,ENST00000332047,NM_001042383.1;CEP63,intron_variant,,ENST00000383229,NM_001042400.1;CEP63,intron_variant,,ENST00000354446,NM_001042384.1;CEP63,intron_variant,,ENST00000504929,;CEP63,intron_variant,,ENST00000514678,;CEP63,intron_variant,,ENST00000510625,;CEP63,intron_variant,,ENST00000513295,;"	"-"	"ENSG00000182923"	"ENST00000337090"	"Transcript"	"intron_variant"	"-/5778"	"-/2112"	"-/703"	""	""	"rs753900140"	"1"	NA	1	"CEP63"	"HGNC"	25815	"protein_coding"	"YES"	"CCDS3086.1"	"ENSP00000336524"	"Q96MT8"	"D6RAY6,D6R9Q4"	"UPI000006D2FD"	""	NA	NA	""	"11/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATATATATATATACA"	"4e6801a2-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1846"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	135671433	135671434	"+"	"IGR"	"INS"	"-"	"-"	"AAGT"	"rs139692793"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	4	"."	0	""	"AAGT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139692793"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AAGT:0.1422"	"AAGT:0.056"	"AAGT:0.1369"	NA	"AAGT:0.0268"	"AAGT:0.2773"	"AAGT:0.2423"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"6f5aae6e-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"1847"	"STAG1"	10274	"mskcc.org"	"GRCh37"	"3"	136455668	136455668	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34047257"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-84+15369delA"	""	""	"ENST00000383202"	""	23	"."	5	9	"."	0	"STAG1,intron_variant,,ENST00000383202,NM_005862.2;STAG1,intron_variant,,ENST00000236698,;STAG1,intron_variant,,ENST00000434713,;STAG1,intron_variant,,ENST00000480733,;STAG1,intron_variant,,ENST00000483235,;STAG1,intron_variant,,ENST00000487065,;RP11-102M11.1,non_coding_transcript_exon_variant,,ENST00000468074,;"	"-"	"ENSG00000118007"	"ENST00000383202"	"Transcript"	"intron_variant"	"-/6053"	"-/3777"	"-/1258"	""	""	"rs34047257"	"1"	NA	-1	"STAG1"	"HGNC"	11354	"protein_coding"	"YES"	"CCDS3090.1"	"ENSP00000372689"	"Q8WVM7"	"Q4LE48"	"UPI000020A2DE"	"NM_005862.2"	NA	NA	""	"1/33"	""	"-:0.0637"	"-:0.0076"	"-:0.1124"	NA	"-:0.005"	"-:0.1541"	"-:0.0726"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTT"	"4ea489d8-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WXS"	FALSE
"1848"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	139499779	139499779	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs35524164"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35524164"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2496"	"-:0.2708"	"-:0.17"	NA	"-:0.2163"	"-:0.2893"	"-:0.271"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCT"	"4f9e1548-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1849"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	139620430	139620431	"+"	"IGR"	"INS"	"-"	"-"	"AA"	"rs10646971"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	4	4	"."	0	""	"AA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10646971"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2925"	"AA:0.4168"	"AA:0.8228"	NA	"AA:0.7728"	"AA:0.8111"	"AA:0.8446"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"6fe7a936-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"1850"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	140723117	140723118	"+"	"IGR"	"DEL"	"CT"	"-"	"-"	"rs34470332"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34470332"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0933"	"-:0.1225"	"-:0.0576"	NA	"-:0.1696"	"-:0.0557"	"-:0.0389"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCTG"	"4fc02c0a-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"1851"	"PLS1"	5357	"mskcc.org"	"GRCh37"	"3"	142408271	142408272	"+"	"Intron"	"INS"	"-"	"-"	"ATAA"	"rs141970064"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.982-163_982-160dupTAAA"	""	""	"ENST00000337777"	""	17	"."	4	3	"."	0	"PLS1,intron_variant,,ENST00000337777,NM_002670.2;PLS1,intron_variant,,ENST00000457734,NM_001145319.1;PLS1,intron_variant,,ENST00000497002,NM_001172312.1;PLS1,intron_variant,,ENST00000476044,;PLS1,upstream_gene_variant,,ENST00000483507,;"	"ATAA"	"ENSG00000120756"	"ENST00000337777"	"Transcript"	"intron_variant"	"-/3755"	"-/1890"	"-/629"	""	""	"rs141970064"	"1"	NA	1	"PLS1"	"HGNC"	9090	"protein_coding"	"YES"	"CCDS3125.1"	"ENSP00000336831"	"Q14651"	"C9JYI1,C9JVY2,C9JU08,C9JAM8,C9JAM3,C9J359,C9J0F3"	"UPI000013D59A"	"NM_002670.2"	NA	NA	""	"9/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"29"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"70627aa8-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"1852"	"CP"	1356	"mskcc.org"	"GRCh37"	"3"	148897498	148897499	"+"	"Intron"	"INS"	"-"	"-"	"ACACAC"	"rs372473602"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2555-55_2555-50dupGTGTGT"	""	""	"ENST00000264613"	""	41	"."	3	23	"."	0	"CP,intron_variant,,ENST00000264613,NM_000096.3;CP,intron_variant,,ENST00000494544,;CP,upstream_gene_variant,,ENST00000479771,;CP,non_coding_transcript_exon_variant,,ENST00000460674,;CP,non_coding_transcript_exon_variant,,ENST00000463556,;CP,intron_variant,,ENST00000481169,;CP,intron_variant,,ENST00000490639,;CP,upstream_gene_variant,,ENST00000474204,;CP,upstream_gene_variant,,ENST00000473296,;"	"ACACAC"	"ENSG00000047457"	"ENST00000264613"	"Transcript"	"intron_variant"	"-/4676"	"-/3198"	"-/1065"	""	""	"rs372473602"	"1"	NA	-1	"CP"	"HGNC"	2295	"protein_coding"	"YES"	"CCDS3141.1"	"ENSP00000264613"	"P00450"	""	"UPI000045718B"	"NM_000096.3"	NA	NA	""	"14/18"	""	"AC:0.3141"	"AC:0.2209"	"AC:0.3271"	NA	"AC:0.376"	"AC:0.336"	"AC:0.3446"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	"0.001931"	"0.002358"	"0.01582"	"0.03648"	"0.00173"	"0.004479"	"0.006849"	"0.008677"	"1"	"common_variant"	"GTA"	"7115ff24-2764-11e6-be88-1087424a729f"	"180"	0.006994	"106/15156"	"196/101502"	"5/2120"	"10/632"	"17/466"	"1/578"	"27/6028"	"1/146"	"45/5186"	"PASS"	"FALSE"	0.0731707317073171	"WXS"	FALSE
"1853"	"RNF13"	11342	"mskcc.org"	"GRCh37"	"3"	149613250	149613251	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs375993643"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.322-10_322-9delTG"	""	""	"ENST00000344229"	""	52	"."	3	28	"."	0	"RNF13,intron_variant,,ENST00000344229,NM_007282.4;RNF13,intron_variant,,ENST00000392894,NM_183381.2;RNF13,intron_variant,,ENST00000361785,;RNF13,intron_variant,,ENST00000491086,;RNF13,intron_variant,,ENST00000459632,;RNF13,intron_variant,,ENST00000482083,;RNF13,intron_variant,,ENST00000467977,;RNF13,intron_variant,,ENST00000466795,;RNF13,intron_variant,,ENST00000490631,;RNF13,intron_variant,,ENST00000468648,;ANKUB1,intron_variant,,ENST00000481585,;RNF13,intron_variant,,ENST00000474348,;RNF13,intron_variant,,ENST00000467996,;"	"-"	"ENSG00000082996"	"ENST00000344229"	"Transcript"	"intron_variant"	"-/2866"	"-/1146"	"-/381"	""	""	"rs375993643"	"1"	NA	1	"RNF13"	"HGNC"	10057	"protein_coding"	"YES"	"CCDS3146.1"	"ENSP00000341361"	"O43567"	"F8W989,C9JYY4,C9JYN7,C9JU37,C9JRV0,C9J8T4"	"UPI0000134318"	"NM_007282.4"	NA	NA	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.01134"	"0.01134"	"0.01748"	"0.01832"	"0.01177"	"0.008793"	"0.008065"	"0.01318"	NA	"common_variant"	"TTTGC"	"515aaf86-2764-11e6-be88-1087424a729f"	"180"	0.01132	"932/82356"	"1190/104942"	"84/7406"	"150/8580"	"105/5732"	"59/5012"	"394/44810"	"4/496"	"136/10320"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.0576923076923077	"WXS"	FALSE
"1854"	"PFN2"	5217	"mskcc.org"	"GRCh37"	"3"	149686355	149686355	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs753659453"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.133-18delC"	""	""	"ENST00000239940"	""	252	"."	7	134	"."	0	"PFN2,intron_variant,,ENST00000239940,;PFN2,intron_variant,,ENST00000452853,NM_053024.3,NM_002628.4;PFN2,intron_variant,,ENST00000481767,;PFN2,intron_variant,,ENST00000423691,;PFN2,intron_variant,,ENST00000490975,;PFN2,intron_variant,,ENST00000494827,;PFN2,intron_variant,,ENST00000497148,;PFN2,intron_variant,,ENST00000475518,;PFN2,intron_variant,,ENST00000489155,;PFN2,intron_variant,,ENST00000461868,;PFN2,intron_variant,,ENST00000461930,;PFN2,intron_variant,,ENST00000481275,;PFN2,intron_variant,,ENST00000498307,;AC117395.1,upstream_gene_variant,,ENST00000593416,;ANKUB1,upstream_gene_variant,,ENST00000481585,;PFN2,non_coding_transcript_exon_variant,,ENST00000497060,;PFN2,intron_variant,,ENST00000460404,;PFN2,intron_variant,,ENST00000468323,;PFN2,intron_variant,,ENST00000498169,;"	"-"	"ENSG00000070087"	"ENST00000239940"	"Transcript"	"intron_variant"	"-/2261"	"-/423"	"-/140"	""	""	"rs753659453"	"1"	NA	-1	"PFN2"	"HGNC"	8882	"protein_coding"	"YES"	"CCDS3148.1"	"ENSP00000239940"	"P35080"	"C9J712"	"UPI000013CA98"	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.009262"	"0.007202"	"0.006368"	"0.008194"	"0.004547"	"0.007506"	"0.01277"	"0.0122"	NA	"common_variant"	"AAGA"	"51716f96-2764-11e6-be88-1087424a729f"	"420"	0.007767	"599/77124"	"974/105164"	"49/6804"	"60/9422"	"49/5980"	"24/5278"	"302/40234"	"6/470"	"109/8936"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.0277777777777778	"WXS"	FALSE
"1855"	"MME"	4311	"mskcc.org"	"GRCh37"	"3"	154834379	154834380	"+"	"Intron"	"INS"	"-"	"-"	"TATATATA"	"rs10522735"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.439+41_439+48dupATATATAT"	""	""	"ENST00000460393"	""	188	"."	10	68	"."	0	"MME,intron_variant,,ENST00000460393,NM_007287.2,NM_000902.3;MME,intron_variant,,ENST00000462745,NM_007288.2;MME,intron_variant,,ENST00000492661,;MME,intron_variant,,ENST00000493237,;MME,intron_variant,,ENST00000360490,NM_007289.2;MME,intron_variant,,ENST00000481828,;MME,intron_variant,,ENST00000462837,;MME,downstream_gene_variant,,ENST00000473730,;MME,downstream_gene_variant,,ENST00000491026,;MME,downstream_gene_variant,,ENST00000477669,;"	"TATATATA"	"ENSG00000196549"	"ENST00000460393"	"Transcript"	"intron_variant"	"-/5622"	"-/2253"	"-/750"	""	""	"rs10522735"	"1"	NA	1	"MME"	"HGNC"	7154	"protein_coding"	"YES"	"CCDS3172.1"	"ENSP00000418525"	"P08473"	"C9JR96,C9JDZ3,C9J9X7,C9IYX7"	"UPI0000033C41"	"NM_007287.2,NM_000902.3"	NA	NA	""	"5/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"17"	NA	"1"	"0.03482"	"0.01385"	"0.01534"	"0.009596"	"0.03018"	"0.01719"	"0.04772"	"0.1269"	NA	"common_variant"	"AGT"	"71baa9c0-2764-11e6-be88-1087424a729f"	"600"	0.03588	"2449/68258"	"3657/105032"	"83/5994"	"93/6062"	"39/4064"	"147/4870"	"607/35304"	"23/482"	"1457/11482"	"PASS"	"FALSE"	0.0531914893617021	"WXS"	FALSE
"1856"	"PLCH1"	23007	"mskcc.org"	"GRCh37"	"3"	155286543	155286544	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTG"	"rs147486526"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.736-436_736-431dupCACACA"	""	""	"ENST00000340059"	""	9	"."	3	7	"."	0	"PLCH1,intron_variant,,ENST00000460012,;PLCH1,intron_variant,,ENST00000414191,;PLCH1,intron_variant,,ENST00000447496,NM_001130961.1;PLCH1,intron_variant,,ENST00000340059,NM_001130960.1;PLCH1,intron_variant,,ENST00000334686,NM_014996.2;PLCH1,intron_variant,,ENST00000494598,;"	"TGTGTG"	"ENSG00000114805"	"ENST00000340059"	"Transcript"	"intron_variant"	"-/6168"	"-/5082"	"-/1693"	""	""	"rs147486526"	"1"	NA	-1	"PLCH1"	"HGNC"	29185	"protein_coding"	"YES"	"CCDS46939.1"	"ENSP00000345988"	"Q4KWH8"	""	"UPI00001D800E"	"NM_001130960.1"	NA	NA	""	"5/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"71d4be78-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1857"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	158671768	158671768	"+"	"IGR"	"DEL"	"A"	"-"	"-"	"rs34029073"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34029073"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4928"	"-:0.6989"	"-:0.5115"	NA	"-:0.2867"	"-:0.5477"	"-:0.3569"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"535cbf9a-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1858"	"IQCJ-SCHIP1"	29970	"mskcc.org"	"GRCh37"	"3"	158850725	158850726	"+"	"Intron"	"INS"	"-"	"-"	"CTTTCTTTT"	"rs140109175"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9+63503_9+63511dupTTCTTTCTT"	""	""	"ENST00000485419"	""	9	"."	5	3	"."	0	"IQCJ-SCHIP1,intron_variant,,ENST00000485419,NM_001197113.1;IQCJ-SCHIP1,intron_variant,,ENST00000476809,NM_001197114.1;IQCJ,intron_variant,,ENST00000397832,NM_001042706.2;IQCJ,intron_variant,,ENST00000482126,NM_001197100.1;IQCJ,intron_variant,,ENST00000451172,NM_001042705.2;IQCJ-SCHIP1,intron_variant,,ENST00000483486,;IQCJ-SCHIP1,intron_variant,,ENST00000481715,;IQCJ-SCHIP1,intron_variant,,ENST00000488898,;IQCJ-SCHIP1,intron_variant,,ENST00000471575,;IQCJ,intron_variant,,ENST00000481796,;IQCJ-SCHIP1,intron_variant,,ENST00000467442,;"	"CTTTCTTTT"	"ENSG00000250588"	"ENST00000485419"	"Transcript"	"intron_variant"	"-/2445"	"-/1692"	"-/563"	""	""	"rs140109175"	"1"	NA	1	"IQCJ-SCHIP1"	"HGNC"	38842	"protein_coding"	"YES"	"CCDS56289.1"	"ENSP00000420182"	""	"C9JMW4,C9J630,C9J615"	"UPI0000E5AA62"	"NM_001197113.1"	NA	NA	""	"1/10"	""	"CTTTCTTTT:0.2618"	"CTTTCTTTT:0.0234"	"CTTTCTTTT:0.3329"	NA	"CTTTCTTTT:0.3046"	"CTTTCTTTT:0.3022"	"CTTTCTTTT:0.4479"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"7284b788-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"1859"	"SMC4"	10051	"mskcc.org"	"GRCh37"	"3"	160130592	160130593	"+"	"Intron"	"INS"	"-"	"-"	"TATC"	"rs10673842"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.980+351_980+352insTATC"	""	""	"ENST00000357388"	""	18	"."	4	5	"."	0	"SMC4,intron_variant,,ENST00000357388,NM_001002800.1;SMC4,intron_variant,,ENST00000344722,NM_005496.3;SMC4,intron_variant,,ENST00000462787,;SMC4,intron_variant,,ENST00000360111,;SMC4,intron_variant,,ENST00000469762,;SMC4,intron_variant,,ENST00000489573,;SMC4,downstream_gene_variant,,ENST00000472991,;SMC4,downstream_gene_variant,,ENST00000467468,;SMC4,non_coding_transcript_exon_variant,,ENST00000470240,;SMC4,non_coding_transcript_exon_variant,,ENST00000494612,;SMC4,intron_variant,,ENST00000487747,;SMC4,intron_variant,,ENST00000497984,;SMC4,downstream_gene_variant,,ENST00000472282,;SMC4,non_coding_transcript_exon_variant,,ENST00000468653,;RP11-432B6.3,intron_variant,,ENST00000483754,;SMC4,intron_variant,,ENST00000469858,;SMC4,intron_variant,,ENST00000465563,;SMC4,intron_variant,,ENST00000467263,;SMC4,upstream_gene_variant,,ENST00000462668,;SMC4,upstream_gene_variant,,ENST00000484799,;SMC4,upstream_gene_variant,,ENST00000493695,;"	"TATC"	"ENSG00000113810"	"ENST00000357388"	"Transcript"	"intron_variant"	"-/5471"	"-/3867"	"-/1288"	""	""	"rs10673842"	"1"	NA	1	"SMC4"	"HGNC"	14013	"protein_coding"	"YES"	"CCDS3189.1"	"ENSP00000349961"	"Q9NTJ3"	"C9JWF0,C9JVD8,C9JR83,C9JJ64,C9J9E4,C9J578,C9IYK2"	"UPI000006DA0A"	"NM_001002800.1"	NA	NA	""	"7/23"	""	"TATC:0.4461"	"TATC:0.6067"	"TATC:0.4481"	NA	"TATC:0.244"	"TATC:0.5159"	"TATC:0.364"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"72947a56-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"1860"	"KPNA4"	3840	"mskcc.org"	"GRCh37"	"3"	160219811	160219812	"+"	"3'UTR"	"DEL"	"TA"	"TA"	"-"	"rs113978211"	NA	"JHCCPT1"	"JHCCPN1"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*80_*81delTA"	""	""	"ENST00000334256"	"17/17"	30	"."	5	11	"."	0	"KPNA4,3_prime_UTR_variant,,ENST00000334256,NM_002268.4;KPNA4,downstream_gene_variant,,ENST00000483437,;"	"-"	"ENSG00000186432"	"ENST00000334256"	"Transcript"	"3_prime_UTR_variant"	"1952-1953/8981"	"-/1566"	"-/521"	""	""	"rs113978211"	"1"	NA	-1	"KPNA4"	"HGNC"	6397	"protein_coding"	"YES"	"CCDS3191.1"	"ENSP00000334373"	"O00629"	""	"UPI0000001648"	"NM_002268.4"	NA	NA	"17/17"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTAT"	"53a3ee2e-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"1861"	"NMD3"	51068	"mskcc.org"	"GRCh37"	"3"	160939743	160939763	"+"	"5'UTR"	"DEL"	"TCTCTTTTTTTTTTTTTTTTT"	"TCTCTTTTTTTTTTTTTTTTT"	"CCCAACATTCTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TCTCTTTTTTTTTTTTTTTTT"	"TCTCTTTTTTTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-59_-39delTCTCTTTTTTTTTTTTTTTTTinsCCCAACATTCTC"	""	""	"ENST00000460469"	"1/15"	159	"."	33	55	"."	0	"NMD3,5_prime_UTR_variant,,ENST00000460469,;NMD3,intron_variant,,ENST00000351193,NM_015938.3;NMD3,intron_variant,,ENST00000472947,;NMD3,intron_variant,,ENST00000463518,;NMD3,intron_variant,,ENST00000493066,;NMD3,intron_variant,,ENST00000476237,;NMD3,intron_variant,,ENST00000468606,;NMD3,intron_variant,,ENST00000460503,;NMD3,upstream_gene_variant,,ENST00000478160,;NMD3,intron_variant,,ENST00000473909,;RP11-479I16.2,downstream_gene_variant,,ENST00000603703,;"	"CCCAACATTCTC"	"ENSG00000169251"	"ENST00000460469"	"Transcript"	"5_prime_UTR_variant"	"397-417/3061"	"-/1512"	"-/503"	""	""	""	"1"	NA	1	"NMD3"	"HGNC"	24250	"protein_coding"	"YES"	"CCDS3194.1"	"ENSP00000419004"	"Q96D46"	"C9K0C2,C9J0B9,C9IZW9,C9IY70,B4DKU1"	"UPI0000035FBE"	""	NA	NA	"1/15"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTCTCTTTTTTTTTTTTTTTTTT"	"5b507c28-2764-11e6-be88-1087424a729f"	"1980"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207547169811321	"WXS"	FALSE
"1862"	"NMD3"	51068	"mskcc.org"	"GRCh37"	"3"	160939743	160939763	"+"	"5'UTR"	"DEL"	"TCTCTTTTTTTTTTTTTTTTT"	"TCTCTTTTTTTTTTTTTTTTT"	"CCCAACATTCTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TCTCTTTTTTTTTTTTTTTTT"	"TCTCTTTTTTTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-59_-39delTCTCTTTTTTTTTTTTTTTTTinsCCCAACATTCTC"	""	""	"ENST00000460469"	"1/15"	154	"."	7	55	"."	0	"NMD3,5_prime_UTR_variant,,ENST00000460469,;NMD3,intron_variant,,ENST00000351193,NM_015938.3;NMD3,intron_variant,,ENST00000472947,;NMD3,intron_variant,,ENST00000463518,;NMD3,intron_variant,,ENST00000493066,;NMD3,intron_variant,,ENST00000476237,;NMD3,intron_variant,,ENST00000468606,;NMD3,intron_variant,,ENST00000460503,;NMD3,upstream_gene_variant,,ENST00000478160,;NMD3,intron_variant,,ENST00000473909,;RP11-479I16.2,downstream_gene_variant,,ENST00000603703,;"	"CCCAACATTCTC"	"ENSG00000169251"	"ENST00000460469"	"Transcript"	"5_prime_UTR_variant"	"397-417/3061"	"-/1512"	"-/503"	""	""	""	"1"	NA	1	"NMD3"	"HGNC"	24250	"protein_coding"	"YES"	"CCDS3194.1"	"ENSP00000419004"	"Q96D46"	"C9K0C2,C9J0B9,C9IZW9,C9IY70,B4DKU1"	"UPI0000035FBE"	""	NA	NA	"1/15"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTCTCTTTTTTTTTTTTTTTTTT"	"5b52a3b8-2764-11e6-be88-1087424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0454545454545455	"WXS"	FALSE
"1863"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	161261905	161261906	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs144265466"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144265466"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.0883"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"72c3363e-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1864"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	162213422	162213423	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs34004122"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34004122"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2612"	"G:0.7988"	"G:0.6758"	NA	"G:0.9226"	"G:0.5398"	"G:0.7178"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"72c7ff34-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1865"	"BCHE"	590	"mskcc.org"	"GRCh37"	"3"	165491585	165491585	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35163888"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1685-291delA"	""	""	"ENST00000264381"	""	15	"."	5	2	"."	0	"BCHE,intron_variant,,ENST00000264381,NM_000055.2;BCHE,intron_variant,,ENST00000479451,;BCHE,intron_variant,,ENST00000540653,;BCHE,downstream_gene_variant,,ENST00000488954,;BCHE,intron_variant,,ENST00000482958,;BCHE,intron_variant,,ENST00000497011,;"	"-"	"ENSG00000114200"	"ENST00000264381"	"Transcript"	"intron_variant"	"-/2454"	"-/1809"	"-/602"	""	""	"rs35163888"	"1"	NA	-1	"BCHE"	"HGNC"	983	"protein_coding"	"YES"	"CCDS3198.1"	"ENSP00000264381"	"P06276"	"Q96HL2,F8WF14,D3DNN4"	"UPI0000127866"	"NM_000055.2"	NA	NA	""	"3/3"	""	"T:0.3526"	"-:0.3449"	"-:0.7867"	NA	"-:0.7937"	"-:0.7356"	"-:0.7157"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TATT"	"54184fbc-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1866"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	165761856	165761859	"+"	"IGR"	"DEL"	"ACTT"	"ACTT"	"-"	"rs3052293"	NA	"JHCCPT1"	"JHCCPN1"	"ACTT"	"ACTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs3052293"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4501"	"-:0.6278"	"-:0.4726"	NA	"-:0.3958"	"-:0.4095"	"-:0.2914"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGACTTA"	"541bd7ea-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1867"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	165969235	165969236	"+"	"IGR"	"INS"	"-"	"-"	"AGA"	"rs3073956"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"."	4	12	"."	0	""	"AGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs3073956"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AGA:0.4030"	"AGA:0.0772"	"AGA:0.4553"	NA	"AGA:0.5685"	"AGA:0.4185"	"AGA:0.6196"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"72e83e70-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WXS"	FALSE
"1868"	"ENSR00001378616"	0	"mskcc.org"	"GRCh37"	"3"	165981220	165981221	"+"	"IGR"	"INS"	"-"	"-"	"TCTC"	"rs145313395"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001378616"	""	6	"."	4	1	"."	0	""	"TCTC"	""	"ENSR00001378616"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs145313395"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"72e96aac-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1869"	"ZBBX"	79740	"mskcc.org"	"GRCh37"	"3"	167066144	167066145	"+"	"Intron"	"INS"	"-"	"-"	"AAAGAAAGAA"	"rs767816748"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.528+2054_528+2063dupTTCTTTCTTT"	""	""	"ENST00000455345"	""	26	"."	4	7	"."	0	"ZBBX,intron_variant,,ENST00000392766,NM_001199201.1,NM_024687.3;ZBBX,intron_variant,,ENST00000455345,;ZBBX,intron_variant,,ENST00000307529,;ZBBX,intron_variant,,ENST00000392767,;ZBBX,intron_variant,,ENST00000392764,NM_001199202.1;ZBBX,downstream_gene_variant,,ENST00000474464,;ZBBX,intron_variant,,ENST00000469220,;"	"AAAGAAAGAA"	"ENSG00000169064"	"ENST00000455345"	"Transcript"	"intron_variant"	"-/3185"	"-/2520"	"-/839"	""	""	"rs767816748"	"1"	NA	-1	"ZBBX"	"HGNC"	26245	"protein_coding"	"YES"	"CCDS56296.1"	"ENSP00000390232"	"A8MT70"	"C9JVV2"	"UPI000020A746"	""	NA	NA	""	"8/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"72f4dc5c-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WXS"	FALSE
"1870"	"EGFEM1P"	93556	"mskcc.org"	"GRCh37"	"3"	168154011	168154022	"+"	"Intron"	"DEL"	"AGAGAGAAAAGG"	"-"	"-"	"rs6148185"	NA	"JHCCPT1"	"JHCCPN1"	"AGAGAGAAAAGG"	"AGAGAGAAAAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.605-83312_605-83301delGAGAGAAAAGGA"	""	""	"ENST00000511230"	""	7	"."	5	1	"."	0	"EGFEM1P,intron_variant,,ENST00000511230,;EGFEM1P,intron_variant,,ENST00000502778,;EGFEM1P,intron_variant,,ENST00000431685,;"	"-"	"ENSG00000206120"	"ENST00000511230"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/690"	""	""	""	""	"rs6148185"	"1"	NA	1	"EGFEM1P"	"HGNC"	25149	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"3/3"	""	"-:0.2049"	"-:0.2927"	"-:0.353"	NA	"-:0.2083"	"-:0.1093"	"-:0.0757"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAGAGAGAAAAGGA"	"544d01f8-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1871"	"MECOM"	2122	"mskcc.org"	"GRCh37"	"3"	168862968	168862981	"+"	"Intron"	"DEL"	"ACACACACACAGAG"	"ACACACACACAGAG"	"-"	"rs151149708"	NA	"JHCCPT1"	"JHCCPN1"	"ACACACACACAGAG"	"ACACACACACAGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-59-135_-59-122delCTCTGTGTGTGTGT"	""	""	"ENST00000264674"	""	36	"."	6	14	"."	0	"MECOM,5_prime_UTR_variant,,ENST00000460890,;MECOM,intron_variant,,ENST00000464456,NM_001164000.1;MECOM,intron_variant,,ENST00000264674,NM_001105077.3;MECOM,intron_variant,,ENST00000392736,NM_005241.3,NM_001205194.1,NM_001163999.1;MECOM,intron_variant,,ENST00000494292,NM_004991.3;MECOM,intron_variant,,ENST00000468789,NM_001105078.3;MECOM,intron_variant,,ENST00000472280,;MECOM,intron_variant,,ENST00000433243,;MECOM,intron_variant,,ENST00000487503,;MECOM,intron_variant,,ENST00000494597,;MECOM,intron_variant,,ENST00000484519,;MECOM,intron_variant,,ENST00000475754,;MECOM,intron_variant,,ENST00000481315,;MECOM,downstream_gene_variant,,ENST00000485957,;"	"-"	"ENSG00000085276"	"ENST00000264674"	"Transcript"	"intron_variant"	"-/4900"	"-/3351"	"-/1116"	""	""	"rs151149708"	"1"	NA	-1	"MECOM"	"HGNC"	3498	"protein_coding"	"YES"	"CCDS54670.1"	"ENSP00000264674"	"Q03112"	"Q9UBK3,Q8IU84,E9PGE9,E7EU48,E7ERX0,E7EPY2,D3DNP4"	"UPI00015D43FA"	"NM_001105077.3"	NA	NA	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACACACACACACAGAGA"	"54661cba-2764-11e6-be88-1087424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	TRUE
"1872"	"MECOM"	2122	"mskcc.org"	"GRCh37"	"3"	168979533	168979534	"+"	"Intron"	"INS"	"-"	"-"	"AAG"	"rs10662806"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.376-117916_376-117914dupCTT"	""	""	"ENST00000494292"	""	15	"."	4	3	"."	0	"MECOM,intron_variant,,ENST00000494292,NM_004991.3;MECOM,intron_variant,,ENST00000481315,;MECOM,intron_variant,,ENST00000485957,;"	"AAG"	"ENSG00000085276"	"ENST00000494292"	"Transcript"	"intron_variant"	"-/3939"	"-/3693"	"-/1230"	""	""	"rs10662806"	"1"	NA	-1	"MECOM"	"HGNC"	3498	"protein_coding"	""	""	"ENSP00000417899"	""	"Q8IU84,E9PGE9,E7EU48,E7ERX0,E7EQ57,E7EPY2"	"UPI0001B797A4"	"NM_004991.3"	NA	NA	""	"2/15"	""	"-:0.3193"	"AAG:0.9092"	"AAG:0.634"	NA	"AAG:0.8502"	"AAG:0.3459"	"AAG:0.5746"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"732dd494-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	TRUE
"1873"	"PLD1"	5337	"mskcc.org"	"GRCh37"	"3"	171396777	171396778	"+"	"Intron"	"INS"	"-"	"-"	"CCCTAGAGAGACCTC"	"rs141520390"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1868-1294_1868-1293insGAGGTCTCTCTAGGG"	""	""	"ENST00000351298"	""	8	"."	5	1	"."	0	"PLD1,intron_variant,,ENST00000356327,NM_001130081.2;PLD1,intron_variant,,ENST00000351298,NM_002662.4;PLD1,intron_variant,,ENST00000342215,;PLD1,intron_variant,,ENST00000340989,;PLD1,upstream_gene_variant,,ENST00000446289,;PLD1,upstream_gene_variant,,ENST00000471075,;"	"CCCTAGAGAGACCTC"	"ENSG00000075651"	"ENST00000351298"	"Transcript"	"intron_variant"	"-/5604"	"-/3225"	"-/1074"	""	""	"rs141520390"	"1"	NA	-1	"PLD1"	"HGNC"	9067	"protein_coding"	"YES"	"CCDS3216.1"	"ENSP00000342793"	"Q13393"	"C9IY79"	"UPI0000131BDC"	"NM_002662.4"	NA	NA	""	"16/26"	""	"CCCTAGAGAGACCTC:0.3760"	"CCCTAGAGAGACCTC:0.416"	"CCCTAGAGAGACCTC:0.4308"	NA	"CCCTAGAGAGACCTC:0.3234"	"CCCTAGAGAGACCTC:0.3857"	"CCCTAGAGAGACCTC:0.3272"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"7368d9c2-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1874"	"FNDC3B"	64778	"mskcc.org"	"GRCh37"	"3"	171917792	171917793	"+"	"Intron"	"INS"	"-"	"-"	"ATTCATTC"	"rs60702751"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.188-26844_188-26837dupATTCATTC"	""	""	"ENST00000336824"	""	9	"."	6	1	"."	0	"FNDC3B,intron_variant,,ENST00000336824,NM_001135095.1;FNDC3B,intron_variant,,ENST00000415807,NM_022763.3;FNDC3B,intron_variant,,ENST00000416957,;FNDC3B,intron_variant,,ENST00000443501,;FNDC3B,intron_variant,,ENST00000469491,;FNDC3B,intron_variant,,ENST00000478016,;"	"ATTCATTC"	"ENSG00000075420"	"ENST00000336824"	"Transcript"	"intron_variant"	"-/7904"	"-/3615"	"-/1204"	""	""	"rs60702751"	"1"	NA	1	"FNDC3B"	"HGNC"	24670	"protein_coding"	"YES"	"CCDS3217.1"	"ENSP00000338523"	"Q53EP0"	""	"UPI00001AE8B2"	"NM_001135095.1"	NA	NA	""	"3/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"32"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"736b35f0-2764-11e6-be88-1087424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1875"	"FNDC3B"	64778	"mskcc.org"	"GRCh37"	"3"	172073307	172073307	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs35691130"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2795+2442delG"	""	""	"ENST00000336824"	""	8	"."	3	1	"."	0	"FNDC3B,intron_variant,,ENST00000336824,NM_001135095.1;FNDC3B,intron_variant,,ENST00000415807,NM_022763.3;FNDC3B,intron_variant,,ENST00000416957,;FNDC3B,downstream_gene_variant,,ENST00000490832,;"	"-"	"ENSG00000075420"	"ENST00000336824"	"Transcript"	"intron_variant"	"-/7904"	"-/3615"	"-/1204"	""	""	"rs35691130"	"1"	NA	1	"FNDC3B"	"HGNC"	24670	"protein_coding"	"YES"	"CCDS3217.1"	"ENSP00000338523"	"Q53EP0"	""	"UPI00001AE8B2"	"NM_001135095.1"	NA	NA	""	"22/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGG"	"55391958-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1876"	"FNDC3B"	64778	"mskcc.org"	"GRCh37"	"3"	172080165	172080166	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs537763545"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2796-250dupT"	""	""	"ENST00000336824"	""	21	"."	5	4	"."	0	"FNDC3B,intron_variant,,ENST00000336824,NM_001135095.1;FNDC3B,intron_variant,,ENST00000415807,NM_022763.3;FNDC3B,intron_variant,,ENST00000416957,;"	"T"	"ENSG00000075420"	"ENST00000336824"	"Transcript"	"intron_variant"	"-/7904"	"-/3615"	"-/1204"	""	""	"rs537763545"	"1"	NA	1	"FNDC3B"	"HGNC"	24670	"protein_coding"	"YES"	"CCDS3217.1"	"ENSP00000338523"	"Q53EP0"	""	"UPI00001AE8B2"	"NM_001135095.1"	NA	NA	""	"22/25"	""	"T:0.3105"	"T:0.1581"	"T:0.4078"	NA	"T:0.2708"	"T:0.4891"	"T:0.3047"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"737a7f38-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WXS"	FALSE
"1877"	"SPATA16"	83893	"mskcc.org"	"GRCh37"	"3"	172678665	172678666	"+"	"Intron"	"INS"	"-"	"-"	"TCTTTCTT"	"rs139523157"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.934-4059_934-4052dupAAGAAAGA"	""	""	"ENST00000351008"	""	16	"."	4	4	"."	0	"SPATA16,intron_variant,,ENST00000351008,NM_031955.5;"	"TCTTTCTT"	"ENSG00000144962"	"ENST00000351008"	"Transcript"	"intron_variant"	"-/2106"	"-/1710"	"-/569"	""	""	"rs139523157"	"1"	NA	-1	"SPATA16"	"HGNC"	29935	"protein_coding"	"YES"	"CCDS3221.1"	"ENSP00000341765"	"Q9BXB7"	""	"UPI000013D9BF"	"NM_031955.5"	NA	NA	""	"5/10"	""	"TCTTTCTT:0.4531"	"TCTTTCTT:0.4713"	"TCTTTCTT:0.4813"	NA	"TCTTTCTT:0.3601"	"TCTTTCTT:0.498"	"TCTTTCTT:0.4581"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"739318a4-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1878"	"NAALADL2"	254827	"mskcc.org"	"GRCh37"	"3"	175345369	175345376	"+"	"Intron"	"DEL"	"TGTCTGTA"	"TGTCTGTA"	"-"	"rs63431360"	NA	"JHCCPT1"	"JHCCPN1"	"TGTCTGTA"	"TGTCTGTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1896+197_1896+204delTCTGTATG"	""	""	"ENST00000454872"	""	17	"."	11	2	"."	0	"NAALADL2,intron_variant,,ENST00000454872,NM_207015.2;NAALADL2,intron_variant,,ENST00000489299,;"	"-"	"ENSG00000177694"	"ENST00000454872"	"Transcript"	"intron_variant"	"-/4953"	"-/2388"	"-/795"	""	""	"rs63431360"	"1"	NA	1	"NAALADL2"	"HGNC"	23219	"protein_coding"	"YES"	"CCDS46960.1"	"ENSP00000404705"	"Q58DX5"	"C9JQ86"	"UPI0000161608"	"NM_207015.2"	NA	NA	""	"11/13"	""	"TGTCTGTA:0.2416"	"-:0.5598"	"-:0.83"	NA	"-:0.8611"	"-:0.8032"	"-:0.8241"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTGTCTGTAT"	"559b168a-2764-11e6-be88-1087424a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.647058823529412	"WXS"	FALSE
"1879"	"USP13"	8975	"mskcc.org"	"GRCh37"	"3"	179426228	179426234	"+"	"Intron"	"DEL"	"TGGGATT"	"-"	"-"	"rs3831867"	NA	"JHCCPT1"	"JHCCPN1"	"TGGGATT"	"TGGGATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.621-326_621-320delTGGGATT"	""	""	"ENST00000263966"	""	7	"."	5	4	"."	0	"USP13,intron_variant,,ENST00000263966,NM_003940.2;USP13,intron_variant,,ENST00000496897,;USP13,intron_variant,,ENST00000482333,;USP13,intron_variant,,ENST00000497380,;"	"-"	"ENSG00000058056"	"ENST00000263966"	"Transcript"	"intron_variant"	"-/8323"	"-/2592"	"-/863"	""	""	"rs3831867"	"1"	NA	1	"USP13"	"HGNC"	12611	"protein_coding"	"YES"	"CCDS3235.1"	"ENSP00000263966"	"Q92995"	""	"UPI000006DC10"	"NM_003940.2"	NA	NA	""	"5/20"	""	"TGGGATT:0.3289"	"-:0.5855"	"-:0.7767"	NA	"-:0.6865"	"-:0.6978"	"-:0.6687"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTGGGATTT"	"560ff6b2-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1880"	"RN7SL229P"	0	"mskcc.org"	"GRCh37"	"3"	180454172	180454173	"+"	"3'Flank"	"INS"	"-"	"-"	"TATTTATT"	"rs147094596"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000495651"	""	10	"."	3	1	"."	0	"CCDC39,intron_variant,,ENST00000273654,;CCDC39,intron_variant,,ENST00000471307,;RN7SL229P,downstream_gene_variant,,ENST00000495651,;CCDC39,intron_variant,,ENST00000485055,;CCDC39,intron_variant,,ENST00000495817,;CCDC39,intron_variant,,ENST00000476379,;"	"TATTTATT"	"ENSG00000242811"	"ENST00000495651"	"Transcript"	"downstream_gene_variant"	"-/296"	""	""	""	""	"rs147094596"	"1"	"23"	-1	"RN7SL229P"	"HGNC"	46245	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3668"	"TATTTATT:0.969"	"TATTTATT:0.4827"	NA	"TATTTATT:0.5367"	"TATTTATT:0.4682"	"TATTTATT:0.5552"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7448e274-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1881"	"ATP11B"	23200	"mskcc.org"	"GRCh37"	"3"	182553489	182553489	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs10708300"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.316-334delA"	""	""	"ENST00000323116"	""	21	"."	4	5	"."	0	"ATP11B,intron_variant,,ENST00000323116,NM_014616.2;ATP11B,intron_variant,,ENST00000493826,;ATP11B,upstream_gene_variant,,ENST00000498086,;ATP11B,intron_variant,,ENST00000482794,;"	"-"	"ENSG00000058063"	"ENST00000323116"	"Transcript"	"intron_variant"	"-/7325"	"-/3534"	"-/1177"	""	""	"rs10708300"	"1"	NA	1	"ATP11B"	"HGNC"	13553	"protein_coding"	"YES"	"CCDS33896.1"	"ENSP00000321195"	"Q9Y2G3"	"B4E3T1"	"UPI000004124E"	"NM_014616.2"	NA	NA	""	"4/29"	""	"-:0.1092"	"-:0.2209"	"-:0.1009"	NA	"-:0.0417"	"-:0.0895"	"-:0.0542"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAT"	"56a230ea-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"1882"	"YEATS2"	55689	"mskcc.org"	"GRCh37"	"3"	183508194	183508213	"+"	"Intron"	"DEL"	"TTGTTCAATGAAGTGAATCA"	"-"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TTGTTCAATGAAGTGAATCA"	"TTGTTCAATGAAGTGAATCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2914-387_2914-368delTCAATGAAGTGAATCATTGT"	""	""	"ENST00000305135"	""	8	"."	6	1	"."	0	"YEATS2,intron_variant,,ENST00000305135,NM_018023.4;YEATS2,intron_variant,,ENST00000432781,;"	"-"	"ENSG00000163872"	"ENST00000305135"	"Transcript"	"intron_variant"	"-/6506"	"-/4269"	"-/1422"	""	""	""	"1"	NA	1	"YEATS2"	"HGNC"	25489	"protein_coding"	"YES"	"CCDS43175.1"	"ENSP00000306983"	"Q9ULM3"	""	"UPI00001BB2B9"	"NM_018023.4"	NA	NA	""	"20/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTTGTTCAATGAAGTGAATCAT"	"56e78f8c-2764-11e6-be88-1087424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"1883"	"HTR3E"	285242	"mskcc.org"	"GRCh37"	"3"	183818718	183818719	"+"	"Intron"	"INS"	"-"	"-"	"TTTTGT"	"rs552115738"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.279+298_279+303dupTTTTGT"	""	""	"ENST00000440596"	""	30	"."	4	4	"."	0	"HTR3E,intron_variant,,ENST00000415389,NM_001256613.1,NM_198313.2;HTR3E,intron_variant,,ENST00000335304,NM_182589.2,NM_198314.2;HTR3E,intron_variant,,ENST00000440596,NM_001256614.1;HTR3E,intron_variant,,ENST00000436361,;HTR3E,intron_variant,,ENST00000425359,;HTR3E,intron_variant,,ENST00000431041,;HTR3E-AS1,intron_variant,,ENST00000431427,;"	"TTTTGT"	"ENSG00000186038"	"ENST00000440596"	"Transcript"	"intron_variant"	"-/1449"	"-/1449"	"-/482"	""	""	"rs552115738"	"1"	NA	1	"HTR3E"	"HGNC"	24005	"protein_coding"	"YES"	"CCDS58871.1"	"ENSP00000406050"	"A5X5Y0"	""	"UPI000198CB5D"	"NM_001256614.1"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"24"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"74bad91a-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WXS"	FALSE
"1884"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	184512923	184512923	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs143141767"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143141767"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0467"	"-:0.0363"	"-:0.0389"	NA	"-:0.0367"	"-:0.0924"	"-:0.0297"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTT"	"5777f22a-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1885"	"RP11-48F14.1"	253573	"mskcc.org"	"GRCh37"	"3"	186204336	186204339	"+"	"Intron"	"DEL"	"GGAA"	"GGAA"	"-"	"rs144848119"	NA	"JHCCPT1"	"JHCCPN1"	"GGAA"	"GGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.735+5562_735+5565delTTCC"	""	""	"ENST00000427914"	""	11	"."	3	3	"."	0	"RP11-48F14.1,intron_variant,,ENST00000427914,;"	"-"	"ENSG00000224406"	"ENST00000427914"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2285"	""	""	""	""	"rs144848119"	"1"	NA	-1	"RP11-48F14.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGGAAG"	"57bc11a8-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"1886"	"HRG"	3273	"mskcc.org"	"GRCh37"	"3"	186382628	186382638	"+"	"5'Flank"	"DEL"	"AGCTGTATCAT"	"AGCTGTATCAT"	"-"	"rs67635656"	NA	"JHCCPT1"	"JHCCPN1"	"AGCTGTATCAT"	"AGCTGTATCAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000232003"	""	6	"."	3	1	"."	0	"HRG,upstream_gene_variant,,ENST00000232003,NM_000412.2;RP11-134F2.2,intron_variant,,ENST00000428501,;RP11-134F2.2,intron_variant,,ENST00000455926,;HRG,intron_variant,,ENST00000468154,;HRG,upstream_gene_variant,,ENST00000495413,;"	"-"	"ENSG00000113905"	"ENST00000232003"	"Transcript"	"upstream_gene_variant"	"-/2015"	"-/1578"	"-/525"	""	""	"rs67635656"	"1"	"1103"	1	"HRG"	"HGNC"	5181	"protein_coding"	"YES"	"CCDS3280.1"	"ENSP00000232003"	"P04196"	""	"UPI000012CBC3"	"NM_000412.2"	NA	NA	""	""	""	"AGCTGTATCAT:0.2506"	"-:0.7368"	"-:0.7925"	NA	"-:0.6369"	"-:0.8509"	"-:0.7474"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCAGCTGTATCATA"	"57c65d98-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1887"	"RP11-573D15.8"	0	"mskcc.org"	"GRCh37"	"3"	186478662	186478667	"+"	"5'Flank"	"DEL"	"ACACAC"	"ACACAC"	"-"	"rs201679379"	NA	"JHCCPT1"	"JHCCPN1"	"ACACAC"	"ACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000596329"	""	13	"."	6	4	"."	0	"RP11-573D15.8,upstream_gene_variant,,ENST00000596329,;RP11-573D15.8,upstream_gene_variant,,ENST00000599314,;RP11-573D15.8,upstream_gene_variant,,ENST00000608173,;PSMD10P2,upstream_gene_variant,,ENST00000432890,;"	"-"	"ENSG00000197099"	"ENST00000596329"	"Transcript"	"upstream_gene_variant"	"-/770"	""	""	""	""	"rs201679379"	"1"	"1605"	-1	"RP11-573D15.8"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAACACACA"	"57e038e4-2764-11e6-be88-1087424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"1888"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	187021434	187021435	"+"	"IGR"	"INS"	"-"	"-"	"CCTTCCTTCCTT"	"rs374589305"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	3	8	"."	0	""	"CCTTCCTTCCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs374589305"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"75b83dc6-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"1889"	"TPRG1"	285386	"mskcc.org"	"GRCh37"	"3"	189039065	189039066	"+"	"3'UTR"	"INS"	"-"	"-"	"A"	"rs34279364"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*457dupA"	""	""	"ENST00000345063"	"6/6"	8	"."	4	1	"."	0	"TPRG1,3_prime_UTR_variant,,ENST00000345063,NM_198485.3;TPRG1,downstream_gene_variant,,ENST00000433971,;TPRG1,downstream_gene_variant,,ENST00000485836,;"	"A"	"ENSG00000188001"	"ENST00000345063"	"Transcript"	"3_prime_UTR_variant"	"1451-1452/5479"	"-/828"	"-/275"	""	""	"rs34279364"	"1"	NA	1	"TPRG1"	"HGNC"	24759	"protein_coding"	"YES"	"CCDS3292.1"	"ENSP00000341031"	"Q6ZUI0"	"C9JDW1"	"UPI00001C08BF"	"NM_198485.3"	NA	NA	"6/6"	""	""	"A:0.2470"	"A:0.1369"	"A:0.3026"	NA	"A:0.3056"	"A:0.2425"	"A:0.3006"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"7601a5a6-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1890"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	189667147	189667147	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs143217394"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143217394"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2510"	"-:0.1755"	"-:0.3127"	NA	"-:0.3264"	"-:0.2584"	"-:0.2239"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"5852ab86-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1891"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	190206980	190206999	"+"	"IGR"	"DEL"	"TCCTTCCTCTCTTCCTTCCT"	"TCCTTCCTCTCTTCCTTCCT"	"-"	"rs199861747"	NA	"JHCCPT1"	"JHCCPN1"	"TCCTTCCTCTCTTCCTTCCT"	"TCCTTCCTCTCTTCCTTCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs199861747"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATCCTTCCTCTCTTCCTTCCTT"	"587ad8ae-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"1892"	"IL1RAP"	3556	"mskcc.org"	"GRCh37"	"3"	190345089	190345099	"+"	"Intron"	"DEL"	"GTTTTTTTGGT"	"GTTTTTTTGGT"	"TTTGG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GTTTTTTTGGT"	"GTTTTTTTGGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.776-23_776-13delGTTTTTTTGGTinsTTTGG"	""	""	"ENST00000317757"	""	69	"."	5	27	"."	0	"IL1RAP,intron_variant,,ENST00000412504,;IL1RAP,intron_variant,,ENST00000447382,NM_002182.3;IL1RAP,intron_variant,,ENST00000072516,NM_001167929.1;IL1RAP,intron_variant,,ENST00000317757,NM_001167931.1;IL1RAP,intron_variant,,ENST00000439062,NM_001167928.1;IL1RAP,intron_variant,,ENST00000443369,;IL1RAP,intron_variant,,ENST00000422485,NM_134470.3;IL1RAP,intron_variant,,ENST00000422940,NM_001167930.1;IL1RAP,intron_variant,,ENST00000434491,;IL1RAP,intron_variant,,ENST00000412080,;IL1RAP,intron_variant,,ENST00000413869,;IL1RAP,intron_variant,,ENST00000342550,;GCNT1P3,downstream_gene_variant,,ENST00000450607,;"	"TTTGG"	"ENSG00000196083"	"ENST00000317757"	"Transcript"	"intron_variant"	"-/3717"	"-/2064"	"-/687"	""	""	""	"1"	NA	1	"IL1RAP"	"HGNC"	5995	"protein_coding"	"YES"	"CCDS54696.1"	"ENSP00000314807"	"Q9NPH3"	"Q8N9C1,C9JT28,C9J1D9"	"UPI000020A9C1"	"NM_001167931.1"	NA	NA	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGTTTTTTTGGTT"	"5b859a3e-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.072463768115942	"WXS"	FALSE
"1893"	"OSTN"	344901	"mskcc.org"	"GRCh37"	"3"	190930559	190930560	"+"	"Intron"	"INS"	"-"	"-"	"TT"	"rs10635852"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.102+136_102+137insTT"	""	""	"ENST00000339051"	""	23	"."	4	3	"."	0	"OSTN,intron_variant,,ENST00000445281,;OSTN,intron_variant,,ENST00000339051,NM_198184.1;OSTN-AS1,downstream_gene_variant,,ENST00000430375,;"	"TT"	"ENSG00000188729"	"ENST00000339051"	"Transcript"	"intron_variant"	"-/402"	"-/402"	"-/133"	""	""	"rs10635852"	"1"	NA	1	"OSTN"	"HGNC"	29961	"protein_coding"	"YES"	"CCDS3299.1"	"ENSP00000342356"	"P61366"	""	"UPI00001996D8"	"NM_198184.1"	NA	NA	""	"1/2"	""	"TT:0.3994"	"TT:0.6702"	"TT:0.3084"	NA	"TT:0.3075"	"TT:0.3141"	"TT:0.2802"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"763dc842-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"1894"	"SDHAP2"	0	"mskcc.org"	"GRCh37"	"3"	195390919	195390919	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs201451562"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.464-38delA"	""	""	"ENST00000455183"	""	32	"."	6	17	"."	0	"LINC00969,intron_variant,,ENST00000445430,;LINC00969,intron_variant,,ENST00000414625,;LINC00969,intron_variant,,ENST00000429897,;LINC00969,intron_variant,,ENST00000453324,;LINC00969,intron_variant,,ENST00000457233,;LINC00969,intron_variant,,ENST00000539717,;LINC00969,intron_variant,,ENST00000539252,;LINC00969,intron_variant,,ENST00000452844,;LINC00969,intron_variant,,ENST00000425425,;SDHAP2,intron_variant,,ENST00000455183,;"	"-"	"ENSG00000215837"	"ENST00000455183"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2001"	""	""	""	""	"rs201451562"	"1"	NA	1	"SDHAP2"	"HGNC"	27408	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.08498"	"0.01593"	"0.03739"	"0.009699"	"0.07748"	"0.09551"	"0.09821"	"0.1625"	NA	"common_variant"	"TTAG"	"5951097e-2764-11e6-be88-1087424a729f"	"192"	0.0855	"8785/102752"	"9025/106196"	"134/8410"	"412/11020"	"76/7836"	"503/6492"	"5001/52362"	"66/672"	"2593/15960"	"PASS"	"FALSE"	0.1875	"WXS"	FALSE
"1895"	"LINC00969"	0	"mskcc.org"	"GRCh37"	"3"	195425289	195425290	"+"	"5'Flank"	"INS"	"-"	"-"	"AT"	"rs112086025"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000445707"	""	7	"."	4	3	"."	0	"LINC00969,intron_variant,,ENST00000597482,;LINC00969,intron_variant,,ENST00000598992,;LINC00969,intron_variant,,ENST00000420851,;LINC00969,intron_variant,,ENST00000451982,;LINC00969,intron_variant,,ENST00000599448,;LINC00969,intron_variant,,ENST00000602127,;LINC00969,intron_variant,,ENST00000597034,;LINC00969,intron_variant,,ENST00000594715,;LINC00969,intron_variant,,ENST00000451228,;LINC00969,intron_variant,,ENST00000431767,;LINC00969,upstream_gene_variant,,ENST00000445707,;LINC00969,upstream_gene_variant,,ENST00000608737,;LINC00969,downstream_gene_variant,,ENST00000600527,;LINC00969,upstream_gene_variant,,ENST00000596584,;LINC00969,upstream_gene_variant,,ENST00000438608,;LINC00969,upstream_gene_variant,,ENST00000432194,;LINC00969,upstream_gene_variant,,ENST00000451216,;MIR570,upstream_gene_variant,,ENST00000384917,;"	"AT"	"ENSG00000242086"	"ENST00000445707"	"Transcript"	"upstream_gene_variant"	"-/2362"	""	""	""	""	"rs112086025"	"1"	"1902"	1	"LINC00969"	"HGNC"	48729	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"AT:0.2208"	"AT:0.1377"	"AT:0.2392"	NA	"AT:0.3641"	"AT:0.1252"	"AT:0.271"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"76cabc7a-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1896"	"MUC4"	4585	"mskcc.org"	"GRCh37"	"3"	195477263	195477267	"+"	"Intron"	"DEL"	"GGCCT"	"GGCCT"	"-"	"rs10564482"	NA	"JHCCPT1"	"JHCCPN1"	"GGCCT"	"GGCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.15871+493_15871+497delAGGCC"	""	""	"ENST00000463781"	""	7	"."	3	6	"."	0	"MUC4,intron_variant,,ENST00000463781,NM_018406.6;MUC4,intron_variant,,ENST00000475231,;MUC4,intron_variant,,ENST00000346145,NM_004532.5;MUC4,intron_variant,,ENST00000349607,NM_138297.4;MUC4,non_coding_transcript_exon_variant,,ENST00000467235,;MUC4,intron_variant,,ENST00000478156,;MUC4,intron_variant,,ENST00000466475,;MUC4,intron_variant,,ENST00000477756,;MUC4,intron_variant,,ENST00000477086,;MUC4,intron_variant,,ENST00000480843,;MUC4,intron_variant,,ENST00000462323,;MUC4,intron_variant,,ENST00000470451,;MUC4,intron_variant,,ENST00000479406,;MUC4,intron_variant,,ENST00000448861,;MUC4,intron_variant,,ENST00000308466,;MUC4,intron_variant,,ENST00000339251,;MUC4,intron_variant,,ENST00000415455,;MUC4,intron_variant,,ENST00000392407,;MUC4,intron_variant,,ENST00000464234,;MUC4,downstream_gene_variant,,ENST00000469992,;"	"-"	"ENSG00000145113"	"ENST00000463781"	"Transcript"	"intron_variant"	"-/17110"	"-/16239"	"-/5412"	""	""	"rs10564482"	"1"	NA	-1	"MUC4"	"HGNC"	7514	"protein_coding"	"YES"	"CCDS54700.1"	"ENSP00000417498"	""	"O75456,E9PDY6"	"UPI0001B3CB30"	"NM_018406.6"	NA	NA	""	"23/24"	""	"GGCCT:0.4459"	"-:0.7035"	"-:0.4553"	NA	"-:0.4732"	"-:0.5765"	"-:0.4826"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGGCCTG"	"59880f50-2764-11e6-be88-1087424a729f"	"129"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1897"	"AC092933.3"	0	"mskcc.org"	"GRCh37"	"3"	196265106	196265130	"+"	"3'Flank"	"DEL"	"CTCCTCCTCCTCCTCCTTCTTCCTC"	"CTCCTCCTCCTCCTCCTTCTTCCTC"	"-"	"rs146390182"	NA	"JHCCPT1"	"JHCCPN1"	"CTCCTCCTCCTCCTCCTTCTTCCTC"	"CTCCTCCTCCTCCTCCTTCTTCCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000439929"	""	9	"."	5	1	"."	0	"AC092933.3,downstream_gene_variant,,ENST00000439929,;"	"-"	"ENSG00000225770"	"ENST00000439929"	"Transcript"	"downstream_gene_variant"	"-/171"	""	""	""	""	"rs146390182"	"1"	"1533"	1	"AC092933.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTCTCCTCCTCCTCCTCCTTCTTCCTCC"	"5a033f68-2764-11e6-be88-1087424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"1898"	"PIGX"	54965	"mskcc.org"	"GRCh37"	"3"	196395233	196395234	"+"	"Intron"	"INS"	"-"	"-"	"AAATGA"	"rs11282170"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-12+13716_-12+13717insAATGAA"	""	""	"ENST00000426755"	""	8	"."	4	2	"."	0	"PIGX,intron_variant,,ENST00000426755,;"	"AAATGA"	"ENSG00000163964"	"ENST00000426755"	"Transcript"	"intron_variant"	"-/744"	"-/511"	"-/170"	""	""	"rs11282170"	"1"	NA	1	"PIGX"	"HGNC"	26046	"protein_coding"	""	""	"ENSP00000409073"	""	"C9JLT7,C9JF71"	"UPI000198CC79"	""	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7744dc4e-2764-11e6-be88-1087424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1899"	"DLG1"	1739	"mskcc.org"	"GRCh37"	"3"	196864850	196864851	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11395100"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.982+242dupT"	""	""	"ENST00000346964"	""	18	"."	3	9	"."	0	"DLG1,intron_variant,,ENST00000346964,NM_004087.2;DLG1,intron_variant,,ENST00000357674,NM_001204386.1;DLG1,intron_variant,,ENST00000314062,;DLG1,intron_variant,,ENST00000419354,;DLG1,intron_variant,,ENST00000452595,NM_001204388.1;DLG1,intron_variant,,ENST00000448528,NM_001098424.1;DLG1,intron_variant,,ENST00000422288,;DLG1,intron_variant,,ENST00000392382,;DLG1,intron_variant,,ENST00000450955,;DLG1,intron_variant,,ENST00000443183,NM_001204387.1;DLG1,intron_variant,,ENST00000447466,;DLG1,downstream_gene_variant,,ENST00000453607,;DLG1,intron_variant,,ENST00000392381,;DLG1,intron_variant,,ENST00000471733,;DLG1,intron_variant,,ENST00000419227,;DLG1,intron_variant,,ENST00000477312,;"	"A"	"ENSG00000075711"	"ENST00000346964"	"Transcript"	"intron_variant"	"-/5034"	"-/2781"	"-/926"	""	""	"rs11395100"	"1"	NA	-1	"DLG1"	"HGNC"	2900	"protein_coding"	"YES"	"CCDS3327.1"	"ENSP00000345731"	"Q12959"	"F2Z2L0,C9JUA9,C9JN61,C9J110,A8MUT6"	"UPI000013CD24"	"NM_004087.2"	NA	NA	""	"10/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7760c792-2764-11e6-be88-1087424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"1900"	"LRCH3"	84859	"mskcc.org"	"GRCh37"	"3"	197562506	197562507	"+"	"Intron"	"DEL"	"GT"	"GT"	"-"	"rs746980511"	NA	"JHCCPT1"	"JHCCPN1"	"GT"	"GT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1103-24_1103-23delTG"	""	""	"ENST00000334859"	""	125	"."	3	68	"."	0	"LRCH3,intron_variant,,ENST00000438796,;LRCH3,intron_variant,,ENST00000425562,;LRCH3,intron_variant,,ENST00000414675,;LRCH3,intron_variant,,ENST00000334859,NM_032773.2;LRCH3,intron_variant,,ENST00000536618,;LRCH3,intron_variant,,ENST00000441090,;AC055764.1,upstream_gene_variant,,ENST00000454526,;LRCH3,upstream_gene_variant,,ENST00000494069,;"	"-"	"ENSG00000186001"	"ENST00000334859"	"Transcript"	"intron_variant"	"-/2258"	"-/2139"	"-/712"	""	""	"rs746980511,TMP_ESP_3_197562506_197562507"	"1"	NA	1	"LRCH3"	"HGNC"	28637	"protein_coding"	"YES"	"CCDS3330.1"	"ENSP00000334375"	"Q96II8"	""	"UPI000006E903"	"NM_032773.2"	NA	NA	""	"8/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	NA	"1"	"0.02467"	"0.03533"	"0.07841"	"0.08185"	"0.04992"	"0.08057"	"0.1078"	"0.1564"	NA	"common_variant"	"TGGTG"	"5a5b23fe-2764-11e6-be88-1087424a729f"	"180"	0.08644	"2283/26410"	"2604/105546"	"131/3708"	"130/1658"	"156/1906"	"125/2504"	"904/11220"	"22/204"	"815/5210"	"PASS"	"FALSE"	0.024	"WXS"	FALSE
"1901"	"ENSR00001751054"	0	"mskcc.org"	"GRCh37"	"4"	36444	36444	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs56089230"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001751054"	""	11	"."	5	1	"."	0	""	"-"	""	"ENSR00001751054"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs56089230"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGG"	"2ebad320-2764-11e6-b33c-1287424a729f"	"287"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"1902"	"ZNF732"	654254	"mskcc.org"	"GRCh37"	"4"	259874	259875	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"rs146849646"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000419098"	""	9	"."	3	2	"."	0	"ZNF732,downstream_gene_variant,,ENST00000419098,NM_001137608.1;RP11-478C6.6,downstream_gene_variant,,ENST00000511111,;RP11-478C6.5,downstream_gene_variant,,ENST00000507882,;"	"A"	"ENSG00000186777"	"ENST00000419098"	"Transcript"	"downstream_gene_variant"	"-/2193"	"-/1758"	"-/585"	""	""	"rs146849646"	"1"	"4589"	-1	"ZNF732"	"HGNC"	37138	"protein_coding"	"YES"	"CCDS46990.1"	"ENSP00000415774"	"B4DXR9"	""	"UPI00017A8291"	"NM_001137608.1"	NA	NA	""	""	""	"A:0.2652"	"A:0.2799"	"A:0.3055"	NA	"A:0.1845"	"A:0.2058"	"A:0.3609"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"5106c72c-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1903"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	307710	307711	"+"	"IGR"	"INS"	"-"	"-"	"AAG"	"rs34024398"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	22	"."	3	11	"."	0	""	"AAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34024398"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0653"	"AAG:0.7769"	"AAG:0.9841"	NA	"AAG:1"	"AAG:0.999"	"AAG:0.9796"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"5114ba30-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"1904"	"GAK"	2580	"mskcc.org"	"GRCh37"	"4"	843622	843622	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3834+58delT"	""	""	"ENST00000314167"	""	325	"."	4	223	"."	0	"GAK,intron_variant,,ENST00000314167,NM_005255.2;GAK,intron_variant,,ENST00000511163,;GAK,intron_variant,,ENST00000511980,;GAK,downstream_gene_variant,,ENST00000510799,;GAK,intron_variant,,ENST00000509566,;GAK,intron_variant,,ENST00000515868,;GAK,intron_variant,,ENST00000511345,;GAK,intron_variant,,ENST00000502799,;GAK,intron_variant,,ENST00000504668,;"	"-"	"ENSG00000178950"	"ENST00000314167"	"Transcript"	"intron_variant"	"-/4442"	"-/3936"	"-/1311"	""	""	""	"1"	NA	-1	"GAK"	"HGNC"	4113	"protein_coding"	"YES"	"CCDS3340.1"	"ENSP00000314499"	"O14976"	"Q59HA5,D6RF16,D6RC24"	"UPI000012B04A"	"NM_005255.2"	NA	NA	""	"27/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAC"	"2f49dad4-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0123076923076923	"WXS"	FALSE
"1905"	"FGFRL1"	53834	"mskcc.org"	"GRCh37"	"4"	1007325	1007325	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs59933999"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.79+973delT"	""	""	"ENST00000398484"	""	8	"."	3	2	"."	0	"FGFRL1,intron_variant,,ENST00000398484,;FGFRL1,intron_variant,,ENST00000264748,NM_021923.3,NM_001004358.1;FGFRL1,intron_variant,,ENST00000510644,NM_001004356.2;FGFRL1,intron_variant,,ENST00000504138,;FGFRL1,intron_variant,,ENST00000512174,;FGFRL1,intron_variant,,ENST00000507339,;FGFRL1,downstream_gene_variant,,ENST00000512562,;"	"-"	"ENSG00000127418"	"ENST00000398484"	"Transcript"	"intron_variant"	"-/3639"	"-/1515"	"-/504"	""	""	"rs59933999"	"1"	NA	1	"FGFRL1"	"HGNC"	3693	"protein_coding"	"YES"	"CCDS3344.1"	"ENSP00000381498"	"Q8N441"	"D6REM7,D6RBN8,A0PJ49"	"UPI000003ED0B"	""	NA	NA	""	"3/7"	""	"-:0.3870"	"-:0.5061"	"-:0.2075"	NA	"-:0.2579"	"-:0.3787"	"-:0.4949"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTA"	"2f8d9fa8-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1906"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	1612367	1612367	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs139906466"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139906466"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1683"	"-:0.09"	"-:0.2046"	NA	"-:0.1925"	"-:0.2624"	"-:0.1268"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATT"	"2fd49a2a-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1907"	"POLN"	353497	"mskcc.org"	"GRCh37"	"4"	2130402	2130403	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs33913492"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1868-449dupC"	""	""	"ENST00000511885"	""	9	"."	6	1	"."	0	"POLN,intron_variant,,ENST00000511885,;POLN,intron_variant,,ENST00000382865,NM_181808.2;POLN,intron_variant,,ENST00000511098,;POLN,intron_variant,,ENST00000514858,;"	"G"	"ENSG00000130997"	"ENST00000511885"	"Transcript"	"intron_variant"	"-/3253"	"-/2703"	"-/900"	""	""	"rs33913492"	"1"	NA	-1	"POLN"	"HGNC"	18870	"protein_coding"	"YES"	"CCDS3360.1"	"ENSP00000435506"	"Q7Z5Q5"	""	"UPI0000246FC3"	""	NA	NA	""	"18/25"	""	"-:0.2169"	"G:0.7042"	"G:0.8372"	NA	"G:0.7034"	"G:0.9115"	"G:0.8016"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"51a6536e-2764-11e6-b33c-1287424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1908"	"DOK7"	285489	"mskcc.org"	"GRCh37"	"4"	3492123	3492124	"+"	"Intron"	"INS"	"-"	"-"	"TCCTTCATTACCCTCCTGCTCATTCAT"	"rs147752087"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.772+606_772+607insATTACCCTCCTGCTCATTCATTCCTTC"	""	""	"ENST00000340083"	""	6	"."	4	6	"."	0	"DOK7,intron_variant,,ENST00000340083,NM_173660.4;DOK7,intron_variant,,ENST00000507039,NM_001164673.1;DOK7,intron_variant,,ENST00000389653,;DOK7,intron_variant,,ENST00000503688,;DOK7,upstream_gene_variant,,ENST00000512714,;DOK7,intron_variant,,ENST00000515886,;DOK7,intron_variant,,ENST00000513995,;"	"TCCTTCATTACCCTCCTGCTCATTCAT"	"ENSG00000175920"	"ENST00000340083"	"Transcript"	"intron_variant"	"-/2562"	"-/1515"	"-/504"	""	""	"rs147752087"	"1"	NA	1	"DOK7"	"HGNC"	26594	"protein_coding"	"YES"	"CCDS3370.2"	"ENSP00000344432"	"Q18PE1"	""	"UPI0000DA4A17"	"NM_173660.4"	NA	NA	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"51d5fd4e-2764-11e6-b33c-1287424a729f"	"201"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1909"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	3719693	3719694	"+"	"IGR"	"INS"	"-"	"-"	"GCGCTGACTTCTCCCCGA"	"rs145501199"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	2	"."	0	""	"GCGCTGACTTCTCCCCGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145501199"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"5204ace8-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1910"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	3861911	3861920	"+"	"IGR"	"DEL"	"GCGTGACTGT"	"GCGTGACTGT"	"-"	"rs144531578"	NA	"JHCCPT1"	"JHCCPN1"	"GCGTGACTGT"	"GCGTGACTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144531578"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4834"	"-:0.5605"	"-:0.4164"	NA	"-:0.6577"	"-:0.4195"	"-:0.3129"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGCGTGACTGTG"	"30e7cd4c-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1911"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	4059858	4059859	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs34825779"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	33	"."	7	22	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34825779"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.2300"	"T:0.2224"	"T:0.2997"	NA	"T:0.1687"	"T:0.3131"	"T:0.1687"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"521a4d50-2764-11e6-b33c-1287424a729f"	"409"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212121212121212	"WXS"	FALSE
"1912"	"RP11-489M13.1"	0	"mskcc.org"	"GRCh37"	"4"	4078007	4078008	"+"	"3'Flank"	"INS"	"-"	"-"	"TGTATGTATGTATGTGTGTG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000485355"	""	9	"."	3	3	"."	0	"RP11-489M13.1,downstream_gene_variant,,ENST00000485355,;"	"TGTATGTATGTATGTGTGTG"	"ENSG00000243894"	"ENST00000485355"	"Transcript"	"downstream_gene_variant"	"-/781"	""	""	""	""	""	"1"	"430"	-1	"RP11-489M13.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"521e15a2-2764-11e6-b33c-1287424a729f"	"168"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1913"	"TMEM128"	85013	"mskcc.org"	"GRCh37"	"4"	4239361	4239374	"+"	"Intron"	"DEL"	"AAGCTGTCTCAAAA"	"AAGCTGTCTCAAAA"	"CACTGTCTCAAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AAGCTGTCTCAAAA"	"AAGCTGTCTCAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*9+183_*9+193delTGAGACAGCTTinsGAGACAGTG"	""	""	"ENST00000254742"	""	26	"."	3	20	"."	0	"TMEM128,intron_variant,,ENST00000254742,NM_032927.2;TMEM128,intron_variant,,ENST00000382753,;TMEM128,intron_variant,,ENST00000538516,;TMEM128,intron_variant,,ENST00000540397,;"	"CACTGTCTC"	"ENSG00000132406"	"ENST00000254742"	"Transcript"	"intron_variant"	"-/1737"	"-/426"	"-/141"	""	""	""	"1"	NA	-1	"TMEM128"	"HGNC"	28201	"protein_coding"	"YES"	"CCDS3373.1"	"ENSP00000254742"	"Q5BJH2"	""	"UPI0000073696"	"NM_032927.2"	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAGCTGTCTCAAAAC"	"4fb1b1b6-2764-11e6-b33c-1287424a729f"	"130"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WXS"	FALSE
"1914"	"LDHAP1"	0	"mskcc.org"	"GRCh37"	"4"	4896666	4896666	"+"	"RNA"	"DEL"	"A"	"A"	"-"	"rs35671704"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.235delT"	""	""	"ENST00000509421"	"1/1"	8	"."	4	8	"."	0	"LDHAP1,non_coding_transcript_exon_variant,,ENST00000509421,;"	"-"	"ENSG00000251587"	"ENST00000509421"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"235/992"	""	""	""	""	"rs35671704"	"1"	NA	-1	"LDHAP1"	"HGNC"	6536	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"-:0.0361"	"-:0.0393"	"-:0.0663"	NA	"-:0"	"-:0.0517"	"-:0.0317"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAG"	"31317c58-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1915"	"EVC"	2121	"mskcc.org"	"GRCh37"	"4"	5722614	5722614	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs5855897"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.300+1514delC"	""	""	"ENST00000382674"	""	6	"."	3	3	"."	0	"EVC,intron_variant,,ENST00000382674,;EVC,intron_variant,,ENST00000264956,NM_153717.2;EVC,intron_variant,,ENST00000509451,;"	"-"	"ENSG00000072840"	"ENST00000382674"	"Transcript"	"intron_variant"	"-/7063"	"-/2979"	"-/992"	""	""	"rs5855897"	"1"	NA	1	"EVC"	"HGNC"	3497	"protein_coding"	"YES"	"CCDS3383.1"	"ENSP00000372120"	"P57679"	"Q4W5F2,Q4W5A3"	"UPI000012A2A5"	""	NA	NA	""	"2/23"	""	"-:0.4143"	"-:0.4281"	"-:0.389"	NA	"-:0.3482"	"-:0.5437"	"-:0.3487"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AACT"	"3171469e-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1916"	"EVC"	2121	"mskcc.org"	"GRCh37"	"4"	5753522	5753522	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs3836550"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1099-1041delT"	""	""	"ENST00000382674"	""	7	"."	3	5	"."	0	"EVC,intron_variant,,ENST00000382674,;EVC,intron_variant,,ENST00000264956,NM_153717.2;EVC,intron_variant,,ENST00000509451,;CRMP1,intron_variant,,ENST00000506216,;EVC,upstream_gene_variant,,ENST00000514919,;"	"-"	"ENSG00000072840"	"ENST00000382674"	"Transcript"	"intron_variant"	"-/7063"	"-/2979"	"-/992"	""	""	"rs3836550"	"1"	NA	1	"EVC"	"HGNC"	3497	"protein_coding"	"YES"	"CCDS3383.1"	"ENSP00000372120"	"P57679"	"Q4W5F2,Q4W5A3"	"UPI000012A2A5"	""	NA	NA	""	"8/23"	""	"-:0.2658"	"-:0.1036"	"-:0.4265"	NA	"-:0.3224"	"-:0.3767"	"-:0.1984"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CATA"	"3178902a-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1917"	"JAKMIP1"	152789	"mskcc.org"	"GRCh37"	"4"	6171145	6171146	"+"	"Intron"	"INS"	"-"	"CT"	"CT"	"rs148506647"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-148+30834_-148+30835insAG"	""	""	"ENST00000409021"	""	7	"."	6	1	"."	0	"JAKMIP1,intron_variant,,ENST00000409021,NM_001099433.1;JAKMIP1,intron_variant,,ENST00000282924,NM_144720.3;JAKMIP1,intron_variant,,ENST00000409371,;JAKMIP1,intron_variant,,ENST00000409831,;JAKMIP1,intron_variant,,ENST00000410077,;JAKMIP1,intron_variant,,ENST00000473053,;"	"CT"	"ENSG00000152969"	"ENST00000409021"	"Transcript"	"intron_variant"	"-/2975"	"-/2496"	"-/831"	""	""	"rs148506647"	"1"	NA	-1	"JAKMIP1"	"HGNC"	26460	"protein_coding"	"YES"	"CCDS47005.1"	"ENSP00000386711"	"Q96N16"	"F2Z2K5"	"UPI00015734C1"	"NM_001099433.1"	NA	NA	""	"1/20"	""	"CT:0.2510"	"CT:0.2769"	"CT:0.2349"	NA	"CT:0.1885"	"CT:0.2833"	"CT:0.2587"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"527cbce2-2764-11e6-b33c-1287424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"1918"	"PPP2R2C"	5522	"mskcc.org"	"GRCh37"	"4"	6342100	6342117	"+"	"Intron"	"DEL"	"GGTGCAATGCATCAGAGG"	"GGTGCAATGCATCAGAGG"	"-"	"rs141214263"	NA	"JHCCPT1"	"JHCCPN1"	"GGTGCAATGCATCAGAGG"	"GGTGCAATGCATCAGAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.791-6659_791-6642delCCTCTGATGCATTGCACC"	""	""	"ENST00000335585"	""	8	"."	4	5	"."	0	"PPP2R2C,intron_variant,,ENST00000335585,NM_181876.2;PPP2R2C,intron_variant,,ENST00000515571,NM_001206996.1;PPP2R2C,intron_variant,,ENST00000382599,;PPP2R2C,intron_variant,,ENST00000506140,NM_001206994.1;PPP2R2C,intron_variant,,ENST00000507294,NM_001206995.1;PPP2R2C,intron_variant,,ENST00000513943,;"	"-"	"ENSG00000074211"	"ENST00000335585"	"Transcript"	"intron_variant"	"-/4092"	"-/1344"	"-/447"	""	""	"rs141214263"	"1"	NA	-1	"PPP2R2C"	"HGNC"	9306	"protein_coding"	"YES"	"CCDS3388.1"	"ENSP00000335083"	"Q9Y2T4"	""	"UPI0000140CE7"	"NM_181876.2"	NA	NA	""	"6/8"	""	"-:0.4513"	"-:0.2519"	"-:0.5173"	NA	"-:0.3988"	"-:0.6213"	"-:0.5532"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGGTGCAATGCATCAGAGGG"	"31e0bc5e-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1919"	"PPP2R2C"	5522	"mskcc.org"	"GRCh37"	"4"	6451955	6451955	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs5855914"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.70+21932delC"	""	""	"ENST00000382599"	""	9	"."	6	1	"."	0	"PPP2R2C,intron_variant,,ENST00000382599,;PPP2R2C,intron_variant,,ENST00000506140,NM_001206994.1;PPP2R2C,intron_variant,,ENST00000507294,NM_001206995.1;PPP2R2C,intron_variant,,ENST00000314348,;PPP2R2C,intron_variant,,ENST00000507028,;"	"-"	"ENSG00000074211"	"ENST00000382599"	"Transcript"	"intron_variant"	"-/1807"	"-/1344"	"-/447"	""	""	"rs5855914"	"1"	NA	-1	"PPP2R2C"	"HGNC"	9306	"protein_coding"	""	""	"ENSP00000372042"	"Q9Y2T4"	""	"UPI000017C2F0"	""	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"31ea4e36-2764-11e6-b33c-1287424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1920"	"MRFAP1"	93621	"mskcc.org"	"GRCh37"	"4"	6642185	6642193	"+"	"5'UTR"	"DEL"	"ACAGGGGTG"	"-"	"-"	"rs72104570"	NA	"JHCCPT1"	"JHCCPN1"	"ACAGGGGTG"	"ACAGGGGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-284_-276delAGGGGTGAC"	""	""	"ENST00000320912"	"1/3"	7	"."	5	1	"."	0	"MRFAP1,5_prime_UTR_variant,,ENST00000320912,NM_001272053.1,NM_033296.2,NM_001272054.1;MRFAP1,upstream_gene_variant,,ENST00000382581,;MRFAP1,upstream_gene_variant,,ENST00000507420,;MRFAP1,upstream_gene_variant,,ENST00000512914,;"	"-"	"ENSG00000179010"	"ENST00000320912"	"Transcript"	"5_prime_UTR_variant"	"368-376/2049"	"-/384"	"-/127"	""	""	"rs72104570"	"1"	NA	1	"MRFAP1"	"HGNC"	24549	"protein_coding"	"YES"	"CCDS3389.1"	"ENSP00000318352"	"Q9Y605"	""	"UPI000006F0BC"	"NM_001272053.1,NM_033296.2,NM_001272054.1"	NA	NA	"1/3"	""	""	"-:0.2278"	"-:0.0825"	"-:0.2305"	NA	"-:0.4137"	"-:0.175"	"-:0.2853"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAACAGGGGTGA"	"31ed2d36-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1921"	"GRPEL1"	80273	"mskcc.org"	"GRCh37"	"4"	7064218	7064223	"+"	"Intron"	"DEL"	"TATATA"	"TATATA"	"-"	"rs566148352"	NA	"JHCCPT1"	"JHCCPN1"	"TATATA"	"TATATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.226-30_226-25delTATATA"	""	""	"ENST00000264954"	""	44	"."	9	11	"."	0	"GRPEL1,intron_variant,,ENST00000264954,NM_025196.2;TADA2B,downstream_gene_variant,,ENST00000310074,NM_152293.2;GRPEL1,intron_variant,,ENST00000514056,;GRPEL1,intron_variant,,ENST00000504920,;GRPEL1,intron_variant,,ENST00000509696,;"	"-"	"ENSG00000109519"	"ENST00000264954"	"Transcript"	"intron_variant"	"-/2775"	"-/654"	"-/217"	""	""	"rs566148352"	"1"	NA	-1	"GRPEL1"	"HGNC"	19696	"protein_coding"	"YES"	"CCDS3396.1"	"ENSP00000264954"	"Q9HAV7"	"B4DWV5"	"UPI000012BA91"	"NM_025196.2"	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.0006037"	"0.003662"	"0.001381"	"0"	"0"	"0.0006748"	"0"	"0"	NA	"common_variant"	"TTTATATAT"	"320133e4-2764-11e6-b33c-1287424a729f"	"540"	0.001567	"14/8934"	"25/41414"	"11/3004"	"1/724"	"0/314"	"0/448"	"2/2964"	"0/74"	"0/1406"	"PASS"	"FALSE"	0.204545454545455	"WXS"	FALSE
"1922"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	7186411	7186412	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs34067090"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34067090"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4920"	"T:0.7345"	"T:0.3098"	NA	"T:0.7907"	"T:0.1282"	"T:0.4417"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"52b8d8f8-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1923"	"SORCS2"	57537	"mskcc.org"	"GRCh37"	"4"	7501489	7501490	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs58601543"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.549-31768_549-31767insG"	""	""	"ENST00000507866"	""	10	"."	5	2	"."	0	"SORCS2,intron_variant,,ENST00000507866,NM_020777.2;SORCS2,intron_variant,,ENST00000329016,;SORCS2,intron_variant,,ENST00000511199,;"	"G"	"ENSG00000184985"	"ENST00000507866"	"Transcript"	"intron_variant"	"-/6152"	"-/3480"	"-/1159"	""	""	"rs58601543"	"1"	NA	1	"SORCS2"	"HGNC"	16698	"protein_coding"	"YES"	"CCDS47008.1"	"ENSP00000422185"	"Q96PQ0"	""	"UPI0000EE6E4F"	"NM_020777.2"	NA	NA	""	"2/26"	""	"-:0.1807"	"G:0.7995"	"G:0.7767"	NA	"G:0.9931"	"G:0.663"	"G:0.8579"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"52d10338-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1924"	"SORCS2"	57537	"mskcc.org"	"GRCh37"	"4"	7690437	7690438	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs5855977"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1489-772dupG"	""	""	"ENST00000507866"	""	8	"."	5	1	"."	0	"SORCS2,intron_variant,,ENST00000507866,NM_020777.2;SORCS2,intron_variant,,ENST00000329016,;"	"G"	"ENSG00000184985"	"ENST00000507866"	"Transcript"	"intron_variant"	"-/6152"	"-/3480"	"-/1159"	""	""	"rs5855977"	"1"	NA	1	"SORCS2"	"HGNC"	16698	"protein_coding"	"YES"	"CCDS47008.1"	"ENSP00000422185"	"Q96PQ0"	""	"UPI0000EE6E4F"	"NM_020777.2"	NA	NA	""	"10/26"	""	"G:0.4772"	"G:0.4448"	"G:0.536"	NA	"G:0.4504"	"G:0.4095"	"G:0.5767"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"52d8773a-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"1925"	"SORCS2"	57537	"mskcc.org"	"GRCh37"	"4"	7706756	7706757	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs552629117"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1868+748dupC"	""	""	"ENST00000507866"	""	7	"."	5	1	"."	0	"SORCS2,intron_variant,,ENST00000507866,NM_020777.2;SORCS2,intron_variant,,ENST00000329016,;"	"C"	"ENSG00000184985"	"ENST00000507866"	"Transcript"	"intron_variant"	"-/6152"	"-/3480"	"-/1159"	""	""	"rs552629117"	"1"	NA	1	"SORCS2"	"HGNC"	16698	"protein_coding"	"YES"	"CCDS47008.1"	"ENSP00000422185"	"Q96PQ0"	""	"UPI0000EE6E4F"	"NM_020777.2"	NA	NA	""	"14/26"	""	"-:0.0391"	"C:0.969"	"C:0.9568"	NA	"C:1"	"C:0.8996"	"C:0.9755"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"52dc9130-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1926"	"SORCS2"	57537	"mskcc.org"	"GRCh37"	"4"	7726054	7726055	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs537240150"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2611+444_2611+445delAG"	""	""	"ENST00000507866"	""	9	"."	5	3	"."	0	"SORCS2,intron_variant,,ENST00000507866,NM_020777.2;SORCS2,intron_variant,,ENST00000329016,;"	"-"	"ENSG00000184985"	"ENST00000507866"	"Transcript"	"intron_variant"	"-/6152"	"-/3480"	"-/1159"	""	""	"rs537240150"	"1"	NA	1	"SORCS2"	"HGNC"	16698	"protein_coding"	"YES"	"CCDS47008.1"	"ENSP00000422185"	"Q96PQ0"	""	"UPI0000EE6E4F"	"NM_020777.2"	NA	NA	""	"19/26"	""	"-:0.1392"	"-:0.0946"	"-:0.1268"	NA	"-:0.1845"	"-:0.1421"	"-:0.1585"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGG"	"32253f8c-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"1927"	"RP11-774O3.2"	0	"mskcc.org"	"GRCh37"	"4"	8316929	8316929	"+"	"5'Flank"	"DEL"	"T"	"T"	"-"	"rs33979021"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000509453"	""	6	"."	3	1	"."	0	"RP11-774O3.2,upstream_gene_variant,,ENST00000509453,;"	"-"	"ENSG00000249145"	"ENST00000509453"	"Transcript"	"upstream_gene_variant"	"-/492"	""	""	""	""	"rs33979021"	"1"	"4974"	1	"RP11-774O3.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.2420"	"-:0.6581"	"-:0.8516"	NA	"-:0.8026"	"-:0.8191"	"-:0.7178"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTC"	"323fb600-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1928"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	8881856	8881857	"+"	"IGR"	"INS"	"-"	"A"	"A"	"rs201701528"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	3	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201701528"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.1761"	"A:0.4289"	"A:0.0865"	NA	"A:0.0784"	"A:0.0646"	"A:0.1135"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"532d831a-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"1929"	"CPEB2"	132864	"mskcc.org"	"GRCh37"	"4"	15060742	15060742	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2581-65delA"	""	""	"ENST00000538197"	""	49	"."	5	24	"."	0	"CPEB2,intron_variant,,ENST00000538197,NM_001177382.1;CPEB2,intron_variant,,ENST00000541112,NM_182485.2;CPEB2,intron_variant,,ENST00000442003,NM_001177381.1,NM_001177383.1;CPEB2,intron_variant,,ENST00000259997,;CPEB2,intron_variant,,ENST00000382395,;CPEB2,intron_variant,,ENST00000382401,NM_001177384.1,NM_182646.2;CPEB2,intron_variant,,ENST00000507071,;CPEB2,intron_variant,,ENST00000345451,;CPEB2,intron_variant,,ENST00000509684,;RP11-665G4.1,intron_variant,,ENST00000502344,;RP11-665G4.1,intron_variant,,ENST00000513384,;"	"-"	"ENSG00000137449"	"ENST00000538197"	"Transcript"	"intron_variant"	"-/6878"	"-/3105"	"-/1034"	""	""	""	"1"	NA	1	"CPEB2"	"HGNC"	21745	"protein_coding"	"YES"	"CCDS56325.1"	"ENSP00000443985"	""	"J3KN18,H0Y9D9,F5H160"	"UPI0001D0434B"	"NM_001177382.1"	NA	NA	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAA"	"332612b2-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WXS"	FALSE
"1930"	"FBXL5"	26234	"mskcc.org"	"GRCh37"	"4"	15618006	15618007	"+"	"Intron"	"INS"	"-"	"-"	"CACTCCTGCCATG"	"rs113065979"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1851-3970_1851-3969insCATGGCAGGAGTG"	""	""	"ENST00000341285"	""	10	"."	5	1	"."	0	"FBXL5,intron_variant,,ENST00000341285,NM_001193534.1,NM_012161.3,NM_001193535.1;FBXL5,intron_variant,,ENST00000382358,;FBXL5,intron_variant,,ENST00000412094,;FBXL5,intron_variant,,ENST00000513163,;FBXL5,intron_variant,,ENST00000511441,;FBXL5,intron_variant,,ENST00000507700,;"	"CACTCCTGCCATG"	"ENSG00000118564"	"ENST00000341285"	"Transcript"	"intron_variant"	"-/3385"	"-/2076"	"-/691"	""	""	"rs113065979"	"1"	NA	-1	"FBXL5"	"HGNC"	13602	"protein_coding"	"YES"	"CCDS3415.1"	"ENSP00000344866"	"Q9UKA1"	"D6RHC3,D6RCR7,D6RBW7,D6RB50"	"UPI0000035C83"	"NM_001193534.1,NM_012161.3,NM_001193535.1"	NA	NA	""	"9/10"	""	"-:0.2169"	"CACTCCTGCCATG:0.6717"	"CACTCCTGCCATG:0.8199"	NA	"CACTCCTGCCATG:0.9087"	"CACTCCTGCCATG:0.7475"	"CACTCCTGCCATG:0.8149"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"5394eb36-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1931"	"PROM1"	8842	"mskcc.org"	"GRCh37"	"4"	16019639	16019640	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs112385573"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1002+306dupA"	""	""	"ENST00000510224"	""	6	"."	4	1	"."	0	"PROM1,intron_variant,,ENST00000505450,NM_001145848.1;PROM1,intron_variant,,ENST00000508167,NM_001145847.1;PROM1,intron_variant,,ENST00000510224,;PROM1,intron_variant,,ENST00000447510,NM_006017.2;PROM1,intron_variant,,ENST00000540805,NM_001145849.1,NM_001145851.1;PROM1,intron_variant,,ENST00000539194,NM_001145850.1,NM_001145852.1;PROM1,intron_variant,,ENST00000543373,;PROM1,downstream_gene_variant,,ENST00000502943,;PROM1,intron_variant,,ENST00000511153,;"	"T"	"ENSG00000007062"	"ENST00000510224"	"Transcript"	"intron_variant"	"-/4006"	"-/2598"	"-/865"	""	""	"rs112385573"	"1"	NA	-1	"PROM1"	"HGNC"	9454	"protein_coding"	"YES"	"CCDS47029.1"	"ENSP00000426809"	"O43490"	"D6RIF3,D6RBI0"	"UPI000004ECD6"	""	NA	NA	""	"9/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"53bb044c-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1932"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	17394554	17394555	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs201022340"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	4	9	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201022340"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.1108"	"A:0.0991"	"A:0.1311"	NA	"A:0"	"A:0.2416"	"A:0.092"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"53db5904-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"1933"	"RP11-608O21.1"	0	"mskcc.org"	"GRCh37"	"4"	19775868	19775871	"+"	"Intron"	"DEL"	"AAGG"	"AAGG"	"-"	"rs34193568"	NA	"JHCCPT1"	"JHCCPN1"	"AAGG"	"AAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.289-82009_289-82006delGGAA"	""	""	"ENST00000511431"	""	11	"."	6	1	"."	0	"RP11-608O21.1,intron_variant,,ENST00000511431,;"	"-"	"ENSG00000248515"	"ENST00000511431"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/889"	""	""	""	""	"rs34193568"	"1"	NA	1	"RP11-608O21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"22"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAGGA"	"33ca6506-2764-11e6-b33c-1287424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"1934"	"LGI2"	55203	"mskcc.org"	"GRCh37"	"4"	25007888	25007888	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs10718500"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.821-1998delG"	""	""	"ENST00000382114"	""	7	"."	4	2	"."	0	"LGI2,intron_variant,,ENST00000382114,NM_018176.3;LGI2,intron_variant,,ENST00000512108,;"	"-"	"ENSG00000153012"	"ENST00000382114"	"Transcript"	"intron_variant"	"-/6428"	"-/1638"	"-/545"	""	""	"rs10718500"	"1"	NA	-1	"LGI2"	"HGNC"	18710	"protein_coding"	"YES"	"CCDS3431.1"	"ENSP00000371548"	"Q8N0V4"	""	"UPI0000047256"	"NM_018176.3"	NA	NA	""	"7/7"	""	"-:0.3982"	"-:0.3797"	"-:0.4107"	NA	"-:0.4504"	"-:0.3559"	"-:0.4039"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"345facc4-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1935"	"LGI2"	55203	"mskcc.org"	"GRCh37"	"4"	25016106	25016107	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11443287"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.656-1986dupT"	""	""	"ENST00000382114"	""	8	"."	3	3	"."	0	"LGI2,intron_variant,,ENST00000382114,NM_018176.3;LGI2,intron_variant,,ENST00000512108,;"	"A"	"ENSG00000153012"	"ENST00000382114"	"Transcript"	"intron_variant"	"-/6428"	"-/1638"	"-/545"	""	""	"rs11443287"	"1"	NA	-1	"LGI2"	"HGNC"	18710	"protein_coding"	"YES"	"CCDS3431.1"	"ENSP00000371548"	"Q8N0V4"	""	"UPI0000047256"	"NM_018176.3"	NA	NA	""	"6/7"	""	"-:0.1290"	"A:0.9138"	"A:0.8444"	NA	"A:0.9266"	"A:0.7376"	"A:0.9121"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"548fb37c-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1936"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	25496548	25496549	"+"	"IGR"	"INS"	"-"	"-"	"AGAAAGAAAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"AGAAAGAAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"54c56058-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1937"	"RBPJ"	3516	"mskcc.org"	"GRCh37"	"4"	26216156	26216163	"+"	"Intron"	"DEL"	"AGGGAGGG"	"AGGGAGGG"	"-"	"rs139788316"	NA	"JHCCPT1"	"JHCCPN1"	"AGGGAGGG"	"AGGGAGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-167+50933_-167+50940delGGGAGGGA"	""	""	"ENST00000512351"	""	8	"."	3	6	"."	0	"RBPJ,intron_variant,,ENST00000512351,;"	"-"	"ENSG00000168214"	"ENST00000512351"	"Transcript"	"intron_variant"	"-/609"	"-/283"	"-/94"	""	""	"rs139788316"	"1"	NA	1	"RBPJ"	"HGNC"	5724	"protein_coding"	""	""	"ENSP00000424789"	""	"D6RF98,D6REP3,D6RE93,D6RAT2"	"UPI0001D3B2C5"	""	NA	NA	""	"1/4"	""	"AGGGAGGG:0.1949"	"-:0.8366"	"-:0.8228"	NA	"-:0.9405"	"-:0.7127"	"-:0.7055"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"13"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAAGGGAGGGA"	"34c7d498-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1938"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	27162862	27162863	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs71645516"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	5	3	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71645516"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.0857"	"T:0.0257"	"T:0.1081"	NA	"T:0.006"	"T:0.16"	"T:0.1564"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"5506c1ec-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1939"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	27622419	27622419	"+"	"IGR"	"DEL"	"G"	"-"	"-"	"rs35042058"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	8	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35042058"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0162"	"-:0.0083"	"-:0.0086"	NA	"-:0"	"-:0.0338"	"-:0.0307"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGG"	"350dccdc-2764-11e6-b33c-1287424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.8	"WXS"	FALSE
"1940"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"4"	37699579	37699579	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"rs67981500"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384347"	""	12	"."	5	2	"."	0	"Y_RNA,downstream_gene_variant,,ENST00000384347,;"	"-"	"ENSG00000207075"	"ENST00000384347"	"Transcript"	"downstream_gene_variant"	"-/108"	""	""	""	""	"rs67981500"	"1"	"1938"	-1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4247"	"-:0.1172"	"-:0.5663"	NA	"-:0.4702"	"-:0.5974"	"-:0.5153"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAG"	"35a766da-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"1941"	"TBC1D1"	23216	"mskcc.org"	"GRCh37"	"4"	37892687	37892688	"+"	"5'Flank"	"INS"	"-"	"-"	"TCCTCCTCCTCCTCCTCC"	"rs139911274"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000261439"	""	29	"."	3	5	"."	0	"TBC1D1,upstream_gene_variant,,ENST00000261439,NM_015173.3,NM_001253914.1,NM_001253915.1;TBC1D1,upstream_gene_variant,,ENST00000508802,NM_001253912.1;TBC1D1,upstream_gene_variant,,ENST00000402522,;"	"TCCTCCTCCTCCTCCTCC"	"ENSG00000065882"	"ENST00000261439"	"Transcript"	"upstream_gene_variant"	"-/5700"	"-/3507"	"-/1168"	""	""	"rs139911274"	"1"	"20"	1	"TBC1D1"	"HGNC"	11578	"protein_coding"	"YES"	"CCDS33972.1"	"ENSP00000261439"	"Q86TI0"	"H0Y8P0,Q8NC59,Q7Z6H2,Q6PJJ8,B9A6J6,A0JNU9"	"UPI0000367235"	"NM_015173.3,NM_001253914.1,NM_001253915.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"5576c74e-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WXS"	FALSE
"1942"	"FAM114A1"	92689	"mskcc.org"	"GRCh37"	"4"	38892978	38892979	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs3216719"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-384dupA"	""	""	"ENST00000358869"	""	14	"."	4	9	"."	0	"FAM114A1,intron_variant,,ENST00000358869,NM_138389.2;FAM114A1,intron_variant,,ENST00000515037,;FAM114A1,intron_variant,,ENST00000510213,;"	"A"	"ENSG00000197712"	"ENST00000358869"	"Transcript"	"intron_variant"	"-/4050"	"-/1692"	"-/563"	""	""	"rs3216719"	"1"	NA	1	"FAM114A1"	"HGNC"	25087	"protein_coding"	"YES"	"CCDS3447.1"	"ENSP00000351740"	"Q8IWE2"	"Q6MZV4,D6R9C9,B3KSS5"	"UPI00001DFE17"	"NM_138389.2"	NA	NA	""	"3/14"	""	"A:0.3924"	"A:0.5129"	"A:0.3314"	NA	"A:0.4038"	"A:0.2903"	"A:0.3661"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"559db7be-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1943"	"RFC1"	5981	"mskcc.org"	"GRCh37"	"4"	39287860	39287862	"+"	"3'Flank"	"DEL"	"CTT"	"-"	"-"	"rs33929647"	NA	"JHCCPT1"	"JHCCPN1"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000381897"	""	7	"."	6	2	"."	0	"RFC1,downstream_gene_variant,,ENST00000381897,NM_002913.4,NM_001204747.1;RFC1,downstream_gene_variant,,ENST00000349703,;WDR19,downstream_gene_variant,,ENST00000399820,NM_025132.3;WDR19,downstream_gene_variant,,ENST00000288634,;RFC1,downstream_gene_variant,,ENST00000514572,;RFC1,downstream_gene_variant,,ENST00000510783,;RFC1,downstream_gene_variant,,ENST00000502991,;RFC1,downstream_gene_variant,,ENST00000504974,;WDR19,downstream_gene_variant,,ENST00000506869,;WDR19,downstream_gene_variant,,ENST00000512534,;WDR19,downstream_gene_variant,,ENST00000503733,;WDR19,downstream_gene_variant,,ENST00000512588,;WDR19,downstream_gene_variant,,ENST00000510315,;"	"-"	"ENSG00000035928"	"ENST00000381897"	"Transcript"	"downstream_gene_variant"	"-/4886"	"-/3447"	"-/1148"	""	""	"rs33929647"	"1"	"1214"	-1	"RFC1"	"HGNC"	9969	"protein_coding"	"YES"	"CCDS56329.1"	"ENSP00000371321"	"P35251"	""	"UPI0000167BB4"	"NM_002913.4,NM_001204747.1"	NA	NA	""	""	""	"CTT:0.0323"	"-:0.8835"	"-:0.9899"	NA	"-:1"	"-:1"	"-:0.999"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACTTC"	"36168290-2764-11e6-b33c-1287424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"1944"	"SMIM14"	201895	"mskcc.org"	"GRCh37"	"4"	39553345	39553345	"+"	"3'UTR"	"DEL"	"G"	"G"	"-"	"rs142268159"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*401delC"	""	""	"ENST00000295958"	"5/5"	8	"."	4	4	"."	0	"SMIM14,3_prime_UTR_variant,,ENST00000295958,NM_174921.1;SMIM14,3_prime_UTR_variant,,ENST00000511809,;SMIM14,downstream_gene_variant,,ENST00000505729,;UGDH-AS1,intron_variant,,ENST00000504032,;SMIM14,non_coding_transcript_exon_variant,,ENST00000512441,;SMIM14,downstream_gene_variant,,ENST00000510628,;SMIM14,downstream_gene_variant,,ENST00000507613,;"	"-"	"ENSG00000163683"	"ENST00000295958"	"Transcript"	"3_prime_UTR_variant"	"1088/6483"	"-/300"	"-/99"	""	""	"rs142268159"	"1"	NA	-1	"SMIM14"	"HGNC"	27321	"protein_coding"	"YES"	"CCDS3456.1"	"ENSP00000295958"	"Q96QK8"	"D6R9U3"	"UPI00000420ED"	"NM_174921.1"	NA	NA	"5/5"	""	""	"-:0.0228"	"-:0.0008"	"-:0.0245"	NA	"-:0"	"-:0.0596"	"-:0.0368"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGA"	"3635de24-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1945"	"RP11-1E6.1"	0	"mskcc.org"	"GRCh37"	"4"	43345693	43345694	"+"	"Intron"	"INS"	"-"	"-"	"TCCTTCCTTCCCTCCC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.430+663_430+678dupCTCCCTCCTTCCTTCC"	""	""	"ENST00000507388"	""	47	"."	3	17	"."	0	"RP11-1E6.1,intron_variant,,ENST00000507388,;RP11-1E6.1,intron_variant,,ENST00000508352,;"	"TCCTTCCTTCCCTCCC"	"ENSG00000250657"	"ENST00000507388"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/653"	""	""	""	""	""	"1"	NA	1	"RP11-1E6.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"27"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"568a85d0-2764-11e6-b33c-1287424a729f"	"90"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WXS"	FALSE
"1946"	"RP11-663P9.1"	0	"mskcc.org"	"GRCh37"	"4"	43986936	43986939	"+"	"5'Flank"	"DEL"	"AGAA"	"AGAA"	"-"	"rs150379945"	NA	"JHCCPT1"	"JHCCPN1"	"AGAA"	"AGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000509098"	""	16	"."	4	5	"."	0	"RP11-663P9.1,upstream_gene_variant,,ENST00000509098,;"	"-"	"ENSG00000250863"	"ENST00000509098"	"Transcript"	"upstream_gene_variant"	"-/449"	""	""	""	""	"rs150379945"	"1"	"3299"	-1	"RP11-663P9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0581"	"-:0.0068"	"-:0.0706"	NA	"-:0.001"	"-:0.1093"	"-:0.1247"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGAAA"	"371bda1e-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1947"	"NFXL1"	152518	"mskcc.org"	"GRCh37"	"4"	47869659	47869660	"+"	"Intron"	"INS"	"-"	"-"	"GGA"	"rs35467475"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2247-4730_2247-4728dupTCC"	""	""	"ENST00000507489"	""	13	"."	5	3	"."	0	"NFXL1,intron_variant,,ENST00000507489,NM_001278624.1;NFXL1,intron_variant,,ENST00000381538,NM_152995.5,NM_001278623.1;NFXL1,intron_variant,,ENST00000464756,;NFXL1,intron_variant,,ENST00000507131,;NFXL1,intron_variant,,ENST00000502448,;NFXL1,intron_variant,,ENST00000508115,;"	"GGA"	"ENSG00000170448"	"ENST00000507489"	"Transcript"	"intron_variant"	"-/3833"	"-/2736"	"-/911"	""	""	"rs35467475"	"1"	NA	-1	"NFXL1"	"HGNC"	18726	"protein_coding"	"YES"	"CCDS3478.2"	"ENSP00000422037"	"Q6ZNB6"	""	"UPI000020BC5D"	"NM_001278624.1"	NA	NA	""	"18/22"	""	"GGA:0.2873"	"GGA:0.1815"	"GGA:0.3977"	NA	"GGA:0.0873"	"GGA:0.4215"	"GGA:0.4202"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"570aacc4-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"1948"	"NFXL1"	152518	"mskcc.org"	"GRCh37"	"4"	47895942	47895943	"+"	"Intron"	"INS"	"-"	"-"	"AGTC"	"rs10642870"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1452+254_1452+255insGACT"	""	""	"ENST00000507489"	""	24	"."	8	5	"."	0	"NFXL1,intron_variant,,ENST00000507489,NM_001278624.1;NFXL1,intron_variant,,ENST00000381538,NM_152995.5,NM_001278623.1;NFXL1,intron_variant,,ENST00000329043,;NFXL1,intron_variant,,ENST00000464756,;NFXL1,intron_variant,,ENST00000507131,;"	"AGTC"	"ENSG00000170448"	"ENST00000507489"	"Transcript"	"intron_variant"	"-/3833"	"-/2736"	"-/911"	""	""	"rs10642870"	"1"	NA	-1	"NFXL1"	"HGNC"	18726	"protein_coding"	"YES"	"CCDS3478.2"	"ENSP00000422037"	"Q6ZNB6"	""	"UPI000020BC5D"	"NM_001278624.1"	NA	NA	""	"11/22"	""	"AGTC:0.3145"	"AGTC:0.2806"	"AGTC:0.4063"	NA	"AGTC:0.0873"	"AGTC:0.4205"	"AGTC:0.4202"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"57130838-2764-11e6-b33c-1287424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1949"	"SLC10A4"	201780	"mskcc.org"	"GRCh37"	"4"	48485250	48485251	"+"	"5'Flank"	"DEL"	"GA"	"GA"	"-"	"rs35118024"	NA	"JHCCPT1"	"JHCCPN1"	"GA"	"GA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000273861"	""	25	"."	6	5	"."	0	"SLC10A4,upstream_gene_variant,,ENST00000273861,NM_152679.3;"	"-"	"ENSG00000145248"	"ENST00000273861"	"Transcript"	"upstream_gene_variant"	"-/1790"	"-/1314"	"-/437"	""	""	"rs35118024"	"1"	"109"	1	"SLC10A4"	"HGNC"	22980	"protein_coding"	"YES"	"CCDS3482.1"	"ENSP00000273861"	"Q96EP9"	""	"UPI000006E8DB"	"NM_152679.3"	NA	NA	""	""	""	"GA:0.4073"	"-:0.7769"	"-:0.4164"	NA	"-:0.5446"	"-:0.4771"	"-:0.637"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCGAT"	"38042788-2764-11e6-b33c-1287424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WXS"	FALSE
"1950"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	49268345	49268346	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs373166780"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	5	3	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs373166780"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"5762e0ba-2764-11e6-b33c-1287424a729f"	"174"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"1951"	"MA0147.2"	0	"mskcc.org"	"GRCh37"	"4"	49289900	49296050	"+"	"IGR"	"DEL"	"ACAGACAGACAGACAGAGATTCACTTGCCCAAGTGTTCTGTCCTGTCCTCTGAATCCGCCTCCAAGTCGCAAGACGCCGTGAGCTCCAAGTCCACGCAGAGTCCGCCAAAGGCTCCGGCCGCTGATCCGCTCCACGAAGATCTGAGTACAGGCCAGCCAGGGTGGGTTTAAATAGCCTCGGGCGCAACCTAGCAGCGGAAAGGGCGGAGCTTCACTCCTCCTTTCCGTCAGTCACCCCCAACTTTCCCAGGCTACACCTCTTAGGAAACTGTTCTCCTACATTGATTTCATGCGCCACCTTTGGAACAATTTAAGAACTTCCAAGTTTTCTGGGCCAGATATGTTAGGAATTGTATGCACTGAAACACTGAAAACCAACTAGTGGTTCTGTGGTTCCCACGTTGTGGTTTTGACGCCAGCAGCATCCTTGCCACAATCAAACCCCGGAGATCCACAGATCTGTGTTGTAACAAGACCTCCCCCTGACCCTGATGCATGGCAGTTTAAGAAGTCTTTCCGTGTAAGCGAAAAGACTTTGAACAAAAGGTGGAGATATGCGTTGTATAAACATTCTTTTGCTCTGGAACCACGTGGAGACTTGGGAGCCAGTTGGGTGGAGCATTCGTTGGATGAGGGTGCTCGGGTTCGGAATATCAAGGTGTGGCTCCAGATAATCCAATCATCTAATTAAGATTCCAGTTGTGCTCATCTGTTTTAAAATTCCGTTTGGGTAAATTCTTTTATTCAGATTGAGAATGGCAAAGCCTCAACCCCAATTTCCAGGGAGGGTTGAGAGCCTCAGGTGGAGTTGATCACCAATAGCCTATGGTTTAACCCATCATGCCTATAGAATGAGGTCTCCATAAAAACCCAAAAGGACTGGGTTCAGAGAGGTTCTGGATAACACTTCCTGGAAGGTAGTGCGCCCCTCCCCACATGCCGGGCCCCACATTTATTTCTGAACTTTTTGCAATGTCCGCTAAAATACAACGGCAAATGTAAGTGCTTCCCTGAGTGCTGTGAGCTCTTCCAGCAAATGAATGCAACTGAATCTGAGAGTGGTGGCAACCTGATTTATAGCCAGTTGCTGAGAAGCGCAGGTAAAACAACGTAGGGCTTCCCGTTGTTATTAGTGTTGGAGGCCTGCCTGGCGGGACTCGGCCCTTTGGAATCTAATGCTATGTCCCGGTAGATAGCGTCACCATTGAATTAGAAGACACACATATGTTGAGAATAATCTTTCTGGTCATTTGCTGCATGTCTTATTTACAATATGTAATCAAATTGTTTATCCTGACCTTATGGCACCTGGGTTGAGAACCATGATTTGAACCAAACATTGGTCTGTCACTTTCTGAGTTTGAAACTTTATTTTGCCTTTAGCGTTTTGCTATTGCTTTTTCGTTTTCTTTTGTTTCGTTTCGTTTCTAAGTTCTGGGGTATATGTGCAGGATGGACAGATTTGTTACTAAGGTAAACGTGTGCCATGGTGGTTTGCTGCACCTGTCAACCCATCACCTAGGTATTAAGCCAAGCATGCAGTAGCTGTTTTCCTTAAGGCTCCGCCTCCCGAAAGGCCCCAGTGTGTGTTGTTCTTCTTCCTGTGTCCATGTGATCTCATTCTTCAGCTCCCATTATAAGTGAGAATGTGGCGTTTGGTTTTCTTTCCCTGGATTAGTTTGCTGAGGGTAATGACCACACGTCACCACTGTTTTTGTTTTTTAGTATAAAGAGTAGCATTTTATTGAATAAGATTTGCTCACAGAAAAATAAGCTTAAATCTACAATGAATGCCAGACTCTACAGCAGAAAGCAATTTTCTCACTTTTCCACACACAATGGTTCCTACTAAGTGAAAAAAAGCCATAAAATGTCATTCACAAATGTACTAATCTGTCTCAAAACATCTCACATAATCATGCACTGCACTAAAGCCATTAGATCAGTTCTTCAGTGAGGTTAAAGAAGTATCCCTCTAATAACTGAATTTTATAATGCTATCAATATCCACTCCCAATCAGTATGCCATTGTTAATGGTGTACAGCATTACTGTATACAATGGAATTGATGACACCCATATCCACGGACAAACCGTGACTTATGATGGTTTGATTCATGATTTTTCAACGTTATGATGGGTTTATTGGAATATGAGATGCGGTTCTGAGTTACACTGGGTTTATGAGTATGCGACCCTATACTCCAGAAACAGCTGTATAAGGAAAAACAGGTGTACCTAATAAAAATATGCTTAGTGACTTGGGATAAACCAATAGATGTTCACAACTGATGGAGAGCCGTGAAAGAGAGATAGCGGTAAATAGTTACAATAACACAATTTTCCTGCACCTGTCGAGGATTTCCCCAAAAAAACGCAGAACGTGTGATGCACCTAAGGCATATGAAAGAGAGAGGGCAGAAGGAGTAAGAGAGAAATAGGAGGAAGGAAGGAAGGAAGGAAAGAAGGAAGGTAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAAGAAGGACGAAAGGAAGGATAAAACACCCGGTGTTACCAAACCCCCCCCAAAATATGGTTTCCCCCTGTGTGTAAGCCTACAATGTGGATGAATCTTGAAAATATTGTGCTACGTGTTATGTCAGTCATAACAGCTCACCTATTGTGCAATTCTGTTTATAGGAAATGTCCACAATGTGGAAATCTATACATATGGGGTTGGTCGCACTAGGTAGTTGCTACCTAGGGCTGAGGGTCAGGGAGAGGGTTTGAGACAGAATGAGGAGTGACTAATGTCTACAGGTTTTTCTCTGGTCGGGGGTGATAAGACGTTCTACAATGGATTGCGAATTAAAATTGAATGTGCACAACCACAGGTATACTAAAAGCCACTCAATTCATGACTTTTAATGGGGGAATCTTATGTGGCGCACTCTCATGGAGACCACGGCAGACATAGTGAGAGAGAAAAAGGTGAGTAAATATCTGAAACGGAGGCAGAAACAGAGAGAATGAAAAGCCCTGTGAATGGAAGGGAGAGCGAAAAGGGGAAATGGTCCTATTTACAAATGACAGATGTGAAACTGGGGTTCACATCAACAGTGTCACTGCCAGGAAGGAGGGTGATGCTAGCCATGTCACCGGCAGTGTGTCCCGCAGGGACGCCGACCTGCTGGAGCGTCTTGCCAGCATGGGCTCTGGCAGCCACGTGGGCCAGCAGGAGGGTCCCGCTGCACAGCTGTGGGGTGAGGATAGACTGGGTGGTGATATCGGCCATGACAGGGGCCTCTTCTGCTGGCAAGAGTGTGACAGTAGCAAGTAGATGGACAGGCCTGCGTGTGAGGACGGAATGCAGGAGGGTCTCTTGTGAGGCTGGGTGTGGGGCCCTCACGGGAACCGTGGAGTAATGGCCAGGTAACTGCGTCATGTGGGCTAGTAGATTGGCCAGGGCTTCGAACTGAAGGACAATAACAGGGAGTAGCTGTCAGGCCCTGGGAGTGTCTGAGTGTAAGTGGAGATGGGTTTGGGGTCACTGAGGGATGCGTGGGAGCCATCCCTGTATAGGTACAGGTCATAGGGAGATAGTCTCGTGTGGCCCGTGAGTGTCTAGGGTTGTCCTGGGTGCCTGGGGCTGACTGTGGCAGAAATCTGGGGAAGGCTGGAGAGAAGCTGGGAGACCCAGGAGAGTCCCTGAAGGCAGGGGGTGAAGAGGTGAAAGAAATGGGGGAGGGTTGCAGTAAGGTCCGTGAGTTTGTAGGTGATTCCTGGGTGCGTGAAGCTGACTCCACGTGAAATCTGGAGATGGTTGGAGAGTAGCTGAGAGAGACAGAAGAGTCCCTGAGGGCTGGGGGTGAGAACATGAGGGAGACTGGGGAGTAAGTCAGTGAAATTCGTGAGTTCGGTGGTGTATCGTGGGTGCCTGGAACTGACTCCAGCTGGAATCTAGAGAAGTTTTGAGAGTAGCTGAAAGAGACACAAGAGTCCCTGTGGGCTGAGGGCAAAGACCTGAGAGAGACCAGGGAGGACCTCAGTGAAGTCTGTGAGTCCGTAGGTGATTCTGGAGTGTGGGAGGCTGACTCCCGCTGAAATCTGGGCGTGGTGGGGGAGTAGCTGGGACAGACAGGAGAGTCCCAGGGGGCTGGGGGTGAAGACATGAGAGAGACTGGGGAGTAACTCAGTGAAACTGCTGAGTTTGTAGGTGATACCTGGGTGCCTGGAACTGACTCCCGCTGAAATCTGGGCATGGTTGGAGAGTATCTGGGACACACAGGAGAGTCCCTGAGGGCTGGTGAAGACATGAGAGAGACTGGAGAGTAATTGAGTGAAATTGGTGAGTTTGGTGGTGATTCCTGGGTGCCTGGAACTGACTCCCGCTGAAGTGTGGGCGTGGTTGGAGAGTAGCTGGGACACACAGGAGAGTCCCTGAGGGTTGGAGATAAAGACGTGCTAGAGACTGAGGAGTAACTGAGTGAAACAGGTGAGTTTGGTGGTGATTCCGGGGTGCCTGGAACTGACTCCAGCTGCAATGTGGGCGTGGTTGGAGAGTAGCTGGGACAGACGGGAGAGTCCCTGAGGGATGGTGAAGACATGAGAGAGACTGGGGAGTAACGCAGTGAAATTGGTGAGTTTGGTGGTGATTTCTGGGTGCCTGCAACGGACTCCGGCTGAAGTGTGGGCGTGTTTGGAGAGTAGCTGGGACAGACAGGCGAGTCCCTGAGGGTTGGAGATAAAGACGTGCTAGAGACTGGGGAGTAACTCAGTGAAAGTGGTGGGCTTGGCGGTGATCCCTGGGTTCCCGGAACCGACCCGCGCTGAAATGTGGGCGTGGTTGGAGAGTAGCTGGGACAGACTGGAGGGTCCGTAAGGGCTGGGGGTGAAGACGTGAGAGAATCTGGCCAGGATCTCACTGAGGTCTGTGAGTTTGTAGGTGTTGCTGGGGTGTGGGGTACAGACAGCCGCTGAAATGTGGGCGTGGTTGGAGAGTAGCTGGGACAGACAGGAGAGTCATGGGTGGCTGGGGGTGAGCTGCTGGATGATGGCAGTAAGAACATATGGTATATTATTGATGAATGAGGTGACTGTGAAGAATCTCCAGAGGAGGACATGGGAGAACACAATGACATGAGTGACTGTCCTGCTTGGTTAGGAAAGGGAAACGTAAAGCTGTGGAATTCTGTTGATGATGGATGTGAGACTGGTGAAGCCCTGCGGGATGATGTAGAGTTCTTCCACATCCCTGGTGAGGAGCTGCCCCTTGGGTCTGAGTTTCTGGGAGGGGAGAGGGAGAAGCTGGGTGAGGCAGGCATGAATCTTGAGGAGTCAGGGCTGGGGGACCGCTCATATTCTCCCGAGACGTGTGAGTCTCTGGGCGACTCCTGGGTGCATGGGGCTGACTCCCGCAGGAACCTGGGGATGGCTGGAGAGTAACTGGGAGCCACAGGAGAGTCCCTGAGGCCTGGGGGTGAAGAGATGAAAGACACAAGGGTGGAGCACCGTGAGGCTCGTGAGTTTGTAGGTGATTCCCGGGTGTGGGGGGCTGACTCCAGCTGAAATCTGGGGTTGTTTGGAGAGTAGCTGGGAGACACAGGAGACCCCCCGAGAGCTGGGGGTGAGCTGCTGGGTGATGGCAGTAAGAACATGTGGTATATTATTGATGAACCTGGGGACTCTGAGGAATCCTCAGAGGAGGACAGAGGAGAGCCCGATGGCTTCATTGATTGCCCATCATGGTGAGGACAGGGAAATGGGAGCTTGTGGGATTCTGGTGATGACAGAGGTGAGTGTGGTGAAGCCCTAGGGGATGGTGAATGGTAGCTCCGGATCCCTGGTGAGGAGCTTCCCATTAAGCCTGAGTTTCTGAGAGGGGAGAAGGAGAAGCTGGGTGAGGCTCGCATGGACCTTGGGGAGTCCGGGCTGGGGGACCGTTCATAAGAAGAGCCAGACAAGACCCTACTGTTCTTAGGTGCAGACATGATTAGGAAACCTGCAGCTCCCAGGGGCCCCTACTAATTTTCTAACTCGCAGATGGAAGGAGTGTGTGTGCGTGTGTGTGAGTGTGTGCGTGTGTGTGCGTGTGTGTGTGTCTGTGTGTGTGCGGTGTGAGGTATATGCCCCTTAAGAAAATGGAAATCAACCAACCAATGAGACAGACAC"	"ACAGACAGACAGACAGAGATTCACTTGCCCAAGTGTTCTGTCCTGTCCTCTGAATCCGCCTCCAAGTCGCAAGACGCCGTGAGCTCCAAGTCCACGCAGAGTCCGCCAAAGGCTCCGGCCGCTGATCCGCTCCACGAAGATCTGAGTACAGGCCAGCCAGGGTGGGTTTAAATAGCCTCGGGCGCAACCTAGCAGCGGAAAGGGCGGAGCTTCACTCCTCCTTTCCGTCAGTCACCCCCAACTTTCCCAGGCTACACCTCTTAGGAAACTGTTCTCCTACATTGATTTCATGCGCCACCTTTGGAACAATTTAAGAACTTCCAAGTTTTCTGGGCCAGATATGTTAGGAATTGTATGCACTGAAACACTGAAAACCAACTAGTGGTTCTGTGGTTCCCACGTTGTGGTTTTGACGCCAGCAGCATCCTTGCCACAATCAAACCCCGGAGATCCACAGATCTGTGTTGTAACAAGACCTCCCCCTGACCCTGATGCATGGCAGTTTAAGAAGTCTTTCCGTGTAAGCGAAAAGACTTTGAACAAAAGGTGGAGATATGCGTTGTATAAACATTCTTTTGCTCTGGAACCACGTGGAGACTTGGGAGCCAGTTGGGTGGAGCATTCGTTGGATGAGGGTGCTCGGGTTCGGAATATCAAGGTGTGGCTCCAGATAATCCAATCATCTAATTAAGATTCCAGTTGTGCTCATCTGTTTTAAAATTCCGTTTGGGTAAATTCTTTTATTCAGATTGAGAATGGCAAAGCCTCAACCCCAATTTCCAGGGAGGGTTGAGAGCCTCAGGTGGAGTTGATCACCAATAGCCTATGGTTTAACCCATCATGCCTATAGAATGAGGTCTCCATAAAAACCCAAAAGGACTGGGTTCAGAGAGGTTCTGGATAACACTTCCTGGAAGGTAGTGCGCCCCTCCCCACATGCCGGGCCCCACATTTATTTCTGAACTTTTTGCAATGTCCGCTAAAATACAACGGCAAATGTAAGTGCTTCCCTGAGTGCTGTGAGCTCTTCCAGCAAATGAATGCAACTGAATCTGAGAGTGGTGGCAACCTGATTTATAGCCAGTTGCTGAGAAGCGCAGGTAAAACAACGTAGGGCTTCCCGTTGTTATTAGTGTTGGAGGCCTGCCTGGCGGGACTCGGCCCTTTGGAATCTAATGCTATGTCCCGGTAGATAGCGTCACCATTGAATTAGAAGACACACATATGTTGAGAATAATCTTTCTGGTCATTTGCTGCATGTCTTATTTACAATATGTAATCAAATTGTTTATCCTGACCTTATGGCACCTGGGTTGAGAACCATGATTTGAACCAAACATTGGTCTGTCACTTTCTGAGTTTGAAACTTTATTTTGCCTTTAGCGTTTTGCTATTGCTTTTTCGTTTTCTTTTGTTTCGTTTCGTTTCTAAGTTCTGGGGTATATGTGCAGGATGGACAGATTTGTTACTAAGGTAAACGTGTGCCATGGTGGTTTGCTGCACCTGTCAACCCATCACCTAGGTATTAAGCCAAGCATGCAGTAGCTGTTTTCCTTAAGGCTCCGCCTCCCGAAAGGCCCCAGTGTGTGTTGTTCTTCTTCCTGTGTCCATGTGATCTCATTCTTCAGCTCCCATTATAAGTGAGAATGTGGCGTTTGGTTTTCTTTCCCTGGATTAGTTTGCTGAGGGTAATGACCACACGTCACCACTGTTTTTGTTTTTTAGTATAAAGAGTAGCATTTTATTGAATAAGATTTGCTCACAGAAAAATAAGCTTAAATCTACAATGAATGCCAGACTCTACAGCAGAAAGCAATTTTCTCACTTTTCCACACACAATGGTTCCTACTAAGTGAAAAAAAGCCATAAAATGTCATTCACAAATGTACTAATCTGTCTCAAAACATCTCACATAATCATGCACTGCACTAAAGCCATTAGATCAGTTCTTCAGTGAGGTTAAAGAAGTATCCCTCTAATAACTGAATTTTATAATGCTATCAATATCCACTCCCAATCAGTATGCCATTGTTAATGGTGTACAGCATTACTGTATACAATGGAATTGATGACACCCATATCCACGGACAAACCGTGACTTATGATGGTTTGATTCATGATTTTTCAACGTTATGATGGGTTTATTGGAATATGAGATGCGGTTCTGAGTTACACTGGGTTTATGAGTATGCGACCCTATACTCCAGAAACAGCTGTATAAGGAAAAACAGGTGTACCTAATAAAAATATGCTTAGTGACTTGGGATAAACCAATAGATGTTCACAACTGATGGAGAGCCGTGAAAGAGAGATAGCGGTAAATAGTTACAATAACACAATTTTCCTGCACCTGTCGAGGATTTCCCCAAAAAAACGCAGAACGTGTGATGCACCTAAGGCATATGAAAGAGAGAGGGCAGAAGGAGTAAGAGAGAAATAGGAGGAAGGAAGGAAGGAAGGAAAGAAGGAAGGTAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAAGAAGGACGAAAGGAAGGATAAAACACCCGGTGTTACCAAACCCCCCCCAAAATATGGTTTCCCCCTGTGTGTAAGCCTACAATGTGGATGAATCTTGAAAATATTGTGCTACGTGTTATGTCAGTCATAACAGCTCACCTATTGTGCAATTCTGTTTATAGGAAATGTCCACAATGTGGAAATCTATACATATGGGGTTGGTCGCACTAGGTAGTTGCTACCTAGGGCTGAGGGTCAGGGAGAGGGTTTGAGACAGAATGAGGAGTGACTAATGTCTACAGGTTTTTCTCTGGTCGGGGGTGATAAGACGTTCTACAATGGATTGCGAATTAAAATTGAATGTGCACAACCACAGGTATACTAAAAGCCACTCAATTCATGACTTTTAATGGGGGAATCTTATGTGGCGCACTCTCATGGAGACCACGGCAGACATAGTGAGAGAGAAAAAGGTGAGTAAATATCTGAAACGGAGGCAGAAACAGAGAGAATGAAAAGCCCTGTGAATGGAAGGGAGAGCGAAAAGGGGAAATGGTCCTATTTACAAATGACAGATGTGAAACTGGGGTTCACATCAACAGTGTCACTGCCAGGAAGGAGGGTGATGCTAGCCATGTCACCGGCAGTGTGTCCCGCAGGGACGCCGACCTGCTGGAGCGTCTTGCCAGCATGGGCTCTGGCAGCCACGTGGGCCAGCAGGAGGGTCCCGCTGCACAGCTGTGGGGTGAGGATAGACTGGGTGGTGATATCGGCCATGACAGGGGCCTCTTCTGCTGGCAAGAGTGTGACAGTAGCAAGTAGATGGACAGGCCTGCGTGTGAGGACGGAATGCAGGAGGGTCTCTTGTGAGGCTGGGTGTGGGGCCCTCACGGGAACCGTGGAGTAATGGCCAGGTAACTGCGTCATGTGGGCTAGTAGATTGGCCAGGGCTTCGAACTGAAGGACAATAACAGGGAGTAGCTGTCAGGCCCTGGGAGTGTCTGAGTGTAAGTGGAGATGGGTTTGGGGTCACTGAGGGATGCGTGGGAGCCATCCCTGTATAGGTACAGGTCATAGGGAGATAGTCTCGTGTGGCCCGTGAGTGTCTAGGGTTGTCCTGGGTGCCTGGGGCTGACTGTGGCAGAAATCTGGGGAAGGCTGGAGAGAAGCTGGGAGACCCAGGAGAGTCCCTGAAGGCAGGGGGTGAAGAGGTGAAAGAAATGGGGGAGGGTTGCAGTAAGGTCCGTGAGTTTGTAGGTGATTCCTGGGTGCGTGAAGCTGACTCCACGTGAAATCTGGAGATGGTTGGAGAGTAGCTGAGAGAGACAGAAGAGTCCCTGAGGGCTGGGGGTGAGAACATGAGGGAGACTGGGGAGTAAGTCAGTGAAATTCGTGAGTTCGGTGGTGTATCGTGGGTGCCTGGAACTGACTCCAGCTGGAATCTAGAGAAGTTTTGAGAGTAGCTGAAAGAGACACAAGAGTCCCTGTGGGCTGAGGGCAAAGACCTGAGAGAGACCAGGGAGGACCTCAGTGAAGTCTGTGAGTCCGTAGGTGATTCTGGAGTGTGGGAGGCTGACTCCCGCTGAAATCTGGGCGTGGTGGGGGAGTAGCTGGGACAGACAGGAGAGTCCCAGGGGGCTGGGGGTGAAGACATGAGAGAGACTGGGGAGTAACTCAGTGAAACTGCTGAGTTTGTAGGTGATACCTGGGTGCCTGGAACTGACTCCCGCTGAAATCTGGGCATGGTTGGAGAGTATCTGGGACACACAGGAGAGTCCCTGAGGGCTGGTGAAGACATGAGAGAGACTGGAGAGTAATTGAGTGAAATTGGTGAGTTTGGTGGTGATTCCTGGGTGCCTGGAACTGACTCCCGCTGAAGTGTGGGCGTGGTTGGAGAGTAGCTGGGACACACAGGAGAGTCCCTGAGGGTTGGAGATAAAGACGTGCTAGAGACTGAGGAGTAACTGAGTGAAACAGGTGAGTTTGGTGGTGATTCCGGGGTGCCTGGAACTGACTCCAGCTGCAATGTGGGCGTGGTTGGAGAGTAGCTGGGACAGACGGGAGAGTCCCTGAGGGATGGTGAAGACATGAGAGAGACTGGGGAGTAACGCAGTGAAATTGGTGAGTTTGGTGGTGATTTCTGGGTGCCTGCAACGGACTCCGGCTGAAGTGTGGGCGTGTTTGGAGAGTAGCTGGGACAGACAGGCGAGTCCCTGAGGGTTGGAGATAAAGACGTGCTAGAGACTGGGGAGTAACTCAGTGAAAGTGGTGGGCTTGGCGGTGATCCCTGGGTTCCCGGAACCGACCCGCGCTGAAATGTGGGCGTGGTTGGAGAGTAGCTGGGACAGACTGGAGGGTCCGTAAGGGCTGGGGGTGAAGACGTGAGAGAATCTGGCCAGGATCTCACTGAGGTCTGTGAGTTTGTAGGTGTTGCTGGGGTGTGGGGTACAGACAGCCGCTGAAATGTGGGCGTGGTTGGAGAGTAGCTGGGACAGACAGGAGAGTCATGGGTGGCTGGGGGTGAGCTGCTGGATGATGGCAGTAAGAACATATGGTATATTATTGATGAATGAGGTGACTGTGAAGAATCTCCAGAGGAGGACATGGGAGAACACAATGACATGAGTGACTGTCCTGCTTGGTTAGGAAAGGGAAACGTAAAGCTGTGGAATTCTGTTGATGATGGATGTGAGACTGGTGAAGCCCTGCGGGATGATGTAGAGTTCTTCCACATCCCTGGTGAGGAGCTGCCCCTTGGGTCTGAGTTTCTGGGAGGGGAGAGGGAGAAGCTGGGTGAGGCAGGCATGAATCTTGAGGAGTCAGGGCTGGGGGACCGCTCATATTCTCCCGAGACGTGTGAGTCTCTGGGCGACTCCTGGGTGCATGGGGCTGACTCCCGCAGGAACCTGGGGATGGCTGGAGAGTAACTGGGAGCCACAGGAGAGTCCCTGAGGCCTGGGGGTGAAGAGATGAAAGACACAAGGGTGGAGCACCGTGAGGCTCGTGAGTTTGTAGGTGATTCCCGGGTGTGGGGGGCTGACTCCAGCTGAAATCTGGGGTTGTTTGGAGAGTAGCTGGGAGACACAGGAGACCCCCCGAGAGCTGGGGGTGAGCTGCTGGGTGATGGCAGTAAGAACATGTGGTATATTATTGATGAACCTGGGGACTCTGAGGAATCCTCAGAGGAGGACAGAGGAGAGCCCGATGGCTTCATTGATTGCCCATCATGGTGAGGACAGGGAAATGGGAGCTTGTGGGATTCTGGTGATGACAGAGGTGAGTGTGGTGAAGCCCTAGGGGATGGTGAATGGTAGCTCCGGATCCCTGGTGAGGAGCTTCCCATTAAGCCTGAGTTTCTGAGAGGGGAGAAGGAGAAGCTGGGTGAGGCTCGCATGGACCTTGGGGAGTCCGGGCTGGGGGACCGTTCATAAGAAGAGCCAGACAAGACCCTACTGTTCTTAGGTGCAGACATGATTAGGAAACCTGCAGCTCCCAGGGGCCCCTACTAATTTTCTAACTCGCAGATGGAAGGAGTGTGTGTGCGTGTGTGTGAGTGTGTGCGTGTGTGTGCGTGTGTGTGTGTCTGTGTGTGTGCGGTGTGAGGTATATGCCCCTTAAGAAAATGGAAATCAACCAACCAATGAGACAGACAC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ACAGACAGACAGACAGAGATTCACTTGCCCAAGTGTTCTGTCCTGTCCTCTGAATCCGCCTCCAAGTCGCAAGACGCCGTGAGCTCCAAGTCCACGCAGAGTCCGCCAAAGGCTCCGGCCGCTGATCCGCTCCACGAAGATCTGAGTACAGGCCAGCCAGGGTGGGTTTAAATAGCCTCGGGCGCAACCTAGCAGCGGAAAGGGCGGAGCTTCACTCCTCCTTTCCGTCAGTCACCCCCAACTTTCCCAGGCTACACCTCTTAGGAAACTGTTCTCCTACATTGATTTCATGCGCCACCTTTGGAACAATTTAAGAACTTCCAAGTTTTCTGGGCCAGATATGTTAGGAATTGTATGCACTGAAACACTGAAAACCAACTAGTGGTTCTGTGGTTCCCACGTTGTGGTTTTGACGCCAGCAGCATCCTTGCCACAATCAAACCCCGGAGATCCACAGATCTGTGTTGTAACAAGACCTCCCCCTGACCCTGATGCATGGCAGTTTAAGAAGTCTTTCCGTGTAAGCGAAAAGACTTTGAACAAAAGGTGGAGATATGCGTTGTATAAACATTCTTTTGCTCTGGAACCACGTGGAGACTTGGGAGCCAGTTGGGTGGAGCATTCGTTGGATGAGGGTGCTCGGGTTCGGAATATCAAGGTGTGGCTCCAGATAATCCAATCATCTAATTAAGATTCCAGTTGTGCTCATCTGTTTTAAAATTCCGTTTGGGTAAATTCTTTTATTCAGATTGAGAATGGCAAAGCCTCAACCCCAATTTCCAGGGAGGGTTGAGAGCCTCAGGTGGAGTTGATCACCAATAGCCTATGGTTTAACCCATCATGCCTATAGAATGAGGTCTCCATAAAAACCCAAAAGGACTGGGTTCAGAGAGGTTCTGGATAACACTTCCTGGAAGGTAGTGCGCCCCTCCCCACATGCCGGGCCCCACATTTATTTCTGAACTTTTTGCAATGTCCGCTAAAATACAACGGCAAATGTAAGTGCTTCCCTGAGTGCTGTGAGCTCTTCCAGCAAATGAATGCAACTGAATCTGAGAGTGGTGGCAACCTGATTTATAGCCAGTTGCTGAGAAGCGCAGGTAAAACAACGTAGGGCTTCCCGTTGTTATTAGTGTTGGAGGCCTGCCTGGCGGGACTCGGCCCTTTGGAATCTAATGCTATGTCCCGGTAGATAGCGTCACCATTGAATTAGAAGACACACATATGTTGAGAATAATCTTTCTGGTCATTTGCTGCATGTCTTATTTACAATATGTAATCAAATTGTTTATCCTGACCTTATGGCACCTGGGTTGAGAACCATGATTTGAACCAAACATTGGTCTGTCACTTTCTGAGTTTGAAACTTTATTTTGCCTTTAGCGTTTTGCTATTGCTTTTTCGTTTTCTTTTGTTTCGTTTCGTTTCTAAGTTCTGGGGTATATGTGCAGGATGGACAGATTTGTTACTAAGGTAAACGTGTGCCATGGTGGTTTGCTGCACCTGTCAACCCATCACCTAGGTATTAAGCCAAGCATGCAGTAGCTGTTTTCCTTAAGGCTCCGCCTCCCGAAAGGCCCCAGTGTGTGTTGTTCTTCTTCCTGTGTCCATGTGATCTCATTCTTCAGCTCCCATTATAAGTGAGAATGTGGCGTTTGGTTTTCTTTCCCTGGATTAGTTTGCTGAGGGTAATGACCACACGTCACCACTGTTTTTGTTTTTTAGTATAAAGAGTAGCATTTTATTGAATAAGATTTGCTCACAGAAAAATAAGCTTAAATCTACAATGAATGCCAGACTCTACAGCAGAAAGCAATTTTCTCACTTTTCCACACACAATGGTTCCTACTAAGTGAAAAAAAGCCATAAAATGTCATTCACAAATGTACTAATCTGTCTCAAAACATCTCACATAATCATGCACTGCACTAAAGCCATTAGATCAGTTCTTCAGTGAGGTTAAAGAAGTATCCCTCTAATAACTGAATTTTATAATGCTATCAATATCCACTCCCAATCAGTATGCCATTGTTAATGGTGTACAGCATTACTGTATACAATGGAATTGATGACACCCATATCCACGGACAAACCGTGACTTATGATGGTTTGATTCATGATTTTTCAACGTTATGATGGGTTTATTGGAATATGAGATGCGGTTCTGAGTTACACTGGGTTTATGAGTATGCGACCCTATACTCCAGAAACAGCTGTATAAGGAAAAACAGGTGTACCTAATAAAAATATGCTTAGTGACTTGGGATAAACCAATAGATGTTCACAACTGATGGAGAGCCGTGAAAGAGAGATAGCGGTAAATAGTTACAATAACACAATTTTCCTGCACCTGTCGAGGATTTCCCCAAAAAAACGCAGAACGTGTGATGCACCTAAGGCATATGAAAGAGAGAGGGCAGAAGGAGTAAGAGAGAAATAGGAGGAAGGAAGGAAGGAAGGAAAGAAGGAAGGTAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAAGAAGGACGAAAGGAAGGATAAAACACCCGGTGTTACCAAACCCCCCCCAAAATATGGTTTCCCCCTGTGTGTAAGCCTACAATGTGGATGAATCTTGAAAATATTGTGCTACGTGTTATGTCAGTCATAACAGCTCACCTATTGTGCAATTCTGTTTATAGGAAATGTCCACAATGTGGAAATCTATACATATGGGGTTGGTCGCACTAGGTAGTTGCTACCTAGGGCTGAGGGTCAGGGAGAGGGTTTGAGACAGAATGAGGAGTGACTAATGTCTACAGGTTTTTCTCTGGTCGGGGGTGATAAGACGTTCTACAATGGATTGCGAATTAAAATTGAATGTGCACAACCACAGGTATACTAAAAGCCACTCAATTCATGACTTTTAATGGGGGAATCTTATGTGGCGCACTCTCATGGAGACCACGGCAGACATAGTGAGAGAGAAAAAGGTGAGTAAATATCTGAAACGGAGGCAGAAACAGAGAGAATGAAAAGCCCTGTGAATGGAAGGGAGAGCGAAAAGGGGAAATGGTCCTATTTACAAATGACAGATGTGAAACTGGGGTTCACATCAACAGTGTCACTGCCAGGAAGGAGGGTGATGCTAGCCATGTCACCGGCAGTGTGTCCCGCAGGGACGCCGACCTGCTGGAGCGTCTTGCCAGCATGGGCTCTGGCAGCCACGTGGGCCAGCAGGAGGGTCCCGCTGCACAGCTGTGGGGTGAGGATAGACTGGGTGGTGATATCGGCCATGACAGGGGCCTCTTCTGCTGGCAAGAGTGTGACAGTAGCAAGTAGATGGACAGGCCTGCGTGTGAGGACGGAATGCAGGAGGGTCTCTTGTGAGGCTGGGTGTGGGGCCCTCACGGGAACCGTGGAGTAATGGCCAGGTAACTGCGTCATGTGGGCTAGTAGATTGGCCAGGGCTTCGAACTGAAGGACAATAACAGGGAGTAGCTGTCAGGCCCTGGGAGTGTCTGAGTGTAAGTGGAGATGGGTTTGGGGTCACTGAGGGATGCGTGGGAGCCATCCCTGTATAGGTACAGGTCATAGGGAGATAGTCTCGTGTGGCCCGTGAGTGTCTAGGGTTGTCCTGGGTGCCTGGGGCTGACTGTGGCAGAAATCTGGGGAAGGCTGGAGAGAAGCTGGGAGACCCAGGAGAGTCCCTGAAGGCAGGGGGTGAAGAGGTGAAAGAAATGGGGGAGGGTTGCAGTAAGGTCCGTGAGTTTGTAGGTGATTCCTGGGTGCGTGAAGCTGACTCCACGTGAAATCTGGAGATGGTTGGAGAGTAGCTGAGAGAGACAGAAGAGTCCCTGAGGGCTGGGGGTGAGAACATGAGGGAGACTGGGGAGTAAGTCAGTGAAATTCGTGAGTTCGGTGGTGTATCGTGGGTGCCTGGAACTGACTCCAGCTGGAATCTAGAGAAGTTTTGAGAGTAGCTGAAAGAGACACAAGAGTCCCTGTGGGCTGAGGGCAAAGACCTGAGAGAGACCAGGGAGGACCTCAGTGAAGTCTGTGAGTCCGTAGGTGATTCTGGAGTGTGGGAGGCTGACTCCCGCTGAAATCTGGGCGTGGTGGGGGAGTAGCTGGGACAGACAGGAGAGTCCCAGGGGGCTGGGGGTGAAGACATGAGAGAGACTGGGGAGTAACTCAGTGAAACTGCTGAGTTTGTAGGTGATACCTGGGTGCCTGGAACTGACTCCCGCTGAAATCTGGGCATGGTTGGAGAGTATCTGGGACACACAGGAGAGTCCCTGAGGGCTGGTGAAGACATGAGAGAGACTGGAGAGTAATTGAGTGAAATTGGTGAGTTTGGTGGTGATTCCTGGGTGCCTGGAACTGACTCCCGCTGAAGTGTGGGCGTGGTTGGAGAGTAGCTGGGACACACAGGAGAGTCCCTGAGGGTTGGAGATAAAGACGTGCTAGAGACTGAGGAGTAACTGAGTGAAACAGGTGAGTTTGGTGGTGATTCCGGGGTGCCTGGAACTGACTCCAGCTGCAATGTGGGCGTGGTTGGAGAGTAGCTGGGACAGACGGGAGAGTCCCTGAGGGATGGTGAAGACATGAGAGAGACTGGGGAGTAACGCAGTGAAATTGGTGAGTTTGGTGGTGATTTCTGGGTGCCTGCAACGGACTCCGGCTGAAGTGTGGGCGTGTTTGGAGAGTAGCTGGGACAGACAGGCGAGTCCCTGAGGGTTGGAGATAAAGACGTGCTAGAGACTGGGGAGTAACTCAGTGAAAGTGGTGGGCTTGGCGGTGATCCCTGGGTTCCCGGAACCGACCCGCGCTGAAATGTGGGCGTGGTTGGAGAGTAGCTGGGACAGACTGGAGGGTCCGTAAGGGCTGGGGGTGAAGACGTGAGAGAATCTGGCCAGGATCTCACTGAGGTCTGTGAGTTTGTAGGTGTTGCTGGGGTGTGGGGTACAGACAGCCGCTGAAATGTGGGCGTGGTTGGAGAGTAGCTGGGACAGACAGGAGAGTCATGGGTGGCTGGGGGTGAGCTGCTGGATGATGGCAGTAAGAACATATGGTATATTATTGATGAATGAGGTGACTGTGAAGAATCTCCAGAGGAGGACATGGGAGAACACAATGACATGAGTGACTGTCCTGCTTGGTTAGGAAAGGGAAACGTAAAGCTGTGGAATTCTGTTGATGATGGATGTGAGACTGGTGAAGCCCTGCGGGATGATGTAGAGTTCTTCCACATCCCTGGTGAGGAGCTGCCCCTTGGGTCTGAGTTTCTGGGAGGGGAGAGGGAGAAGCTGGGTGAGGCAGGCATGAATCTTGAGGAGTCAGGGCTGGGGGACCGCTCATATTCTCCCGAGACGTGTGAGTCTCTGGGCGACTCCTGGGTGCATGGGGCTGACTCCCGCAGGAACCTGGGGATGGCTGGAGAGTAACTGGGAGCCACAGGAGAGTCCCTGAGGCCTGGGGGTGAAGAGATGAAAGACACAAGGGTGGAGCACCGTGAGGCTCGTGAGTTTGTAGGTGATTCCCGGGTGTGGGGGGCTGACTCCAGCTGAAATCTGGGGTTGTTTGGAGAGTAGCTGGGAGACACAGGAGACCCCCCGAGAGCTGGGGGTGAGCTGCTGGGTGATGGCAGTAAGAACATGTGGTATATTATTGATGAACCTGGGGACTCTGAGGAATCCTCAGAGGAGGACAGAGGAGAGCCCGATGGCTTCATTGATTGCCCATCATGGTGAGGACAGGGAAATGGGAGCTTGTGGGATTCTGGTGATGACAGAGGTGAGTGTGGTGAAGCCCTAGGGGATGGTGAATGGTAGCTCCGGATCCCTGGTGAGGAGCTTCCCATTAAGCCTGAGTTTCTGAGAGGGGAGAAGGAGAAGCTGGGTGAGGCTCGCATGGACCTTGGGGAGTCCGGGCTGGGGGACCGTTCATAAGAAGAGCCAGACAAGACCCTACTGTTCTTAGGTGCAGACATGATTAGGAAACCTGCAGCTCCCAGGGGCCCCTACTAATTTTCTAACTCGCAGATGGAAGGAGTGTGTGTGCGTGTGTGTGAGTGTGTGCGTGTGTGTGCGTGTGTGTGTGTCTGTGTGTGTGCGGTGTGAGGTATATGCCCCTTAAGAAAATGGAAATCAACCAACCAATGAGACAGACAC"	"ACAGACAGACAGACAGAGATTCACTTGCCCAAGTGTTCTGTCCTGTCCTCTGAATCCGCCTCCAAGTCGCAAGACGCCGTGAGCTCCAAGTCCACGCAGAGTCCGCCAAAGGCTCCGGCCGCTGATCCGCTCCACGAAGATCTGAGTACAGGCCAGCCAGGGTGGGTTTAAATAGCCTCGGGCGCAACCTAGCAGCGGAAAGGGCGGAGCTTCACTCCTCCTTTCCGTCAGTCACCCCCAACTTTCCCAGGCTACACCTCTTAGGAAACTGTTCTCCTACATTGATTTCATGCGCCACCTTTGGAACAATTTAAGAACTTCCAAGTTTTCTGGGCCAGATATGTTAGGAATTGTATGCACTGAAACACTGAAAACCAACTAGTGGTTCTGTGGTTCCCACGTTGTGGTTTTGACGCCAGCAGCATCCTTGCCACAATCAAACCCCGGAGATCCACAGATCTGTGTTGTAACAAGACCTCCCCCTGACCCTGATGCATGGCAGTTTAAGAAGTCTTTCCGTGTAAGCGAAAAGACTTTGAACAAAAGGTGGAGATATGCGTTGTATAAACATTCTTTTGCTCTGGAACCACGTGGAGACTTGGGAGCCAGTTGGGTGGAGCATTCGTTGGATGAGGGTGCTCGGGTTCGGAATATCAAGGTGTGGCTCCAGATAATCCAATCATCTAATTAAGATTCCAGTTGTGCTCATCTGTTTTAAAATTCCGTTTGGGTAAATTCTTTTATTCAGATTGAGAATGGCAAAGCCTCAACCCCAATTTCCAGGGAGGGTTGAGAGCCTCAGGTGGAGTTGATCACCAATAGCCTATGGTTTAACCCATCATGCCTATAGAATGAGGTCTCCATAAAAACCCAAAAGGACTGGGTTCAGAGAGGTTCTGGATAACACTTCCTGGAAGGTAGTGCGCCCCTCCCCACATGCCGGGCCCCACATTTATTTCTGAACTTTTTGCAATGTCCGCTAAAATACAACGGCAAATGTAAGTGCTTCCCTGAGTGCTGTGAGCTCTTCCAGCAAATGAATGCAACTGAATCTGAGAGTGGTGGCAACCTGATTTATAGCCAGTTGCTGAGAAGCGCAGGTAAAACAACGTAGGGCTTCCCGTTGTTATTAGTGTTGGAGGCCTGCCTGGCGGGACTCGGCCCTTTGGAATCTAATGCTATGTCCCGGTAGATAGCGTCACCATTGAATTAGAAGACACACATATGTTGAGAATAATCTTTCTGGTCATTTGCTGCATGTCTTATTTACAATATGTAATCAAATTGTTTATCCTGACCTTATGGCACCTGGGTTGAGAACCATGATTTGAACCAAACATTGGTCTGTCACTTTCTGAGTTTGAAACTTTATTTTGCCTTTAGCGTTTTGCTATTGCTTTTTCGTTTTCTTTTGTTTCGTTTCGTTTCTAAGTTCTGGGGTATATGTGCAGGATGGACAGATTTGTTACTAAGGTAAACGTGTGCCATGGTGGTTTGCTGCACCTGTCAACCCATCACCTAGGTATTAAGCCAAGCATGCAGTAGCTGTTTTCCTTAAGGCTCCGCCTCCCGAAAGGCCCCAGTGTGTGTTGTTCTTCTTCCTGTGTCCATGTGATCTCATTCTTCAGCTCCCATTATAAGTGAGAATGTGGCGTTTGGTTTTCTTTCCCTGGATTAGTTTGCTGAGGGTAATGACCACACGTCACCACTGTTTTTGTTTTTTAGTATAAAGAGTAGCATTTTATTGAATAAGATTTGCTCACAGAAAAATAAGCTTAAATCTACAATGAATGCCAGACTCTACAGCAGAAAGCAATTTTCTCACTTTTCCACACACAATGGTTCCTACTAAGTGAAAAAAAGCCATAAAATGTCATTCACAAATGTACTAATCTGTCTCAAAACATCTCACATAATCATGCACTGCACTAAAGCCATTAGATCAGTTCTTCAGTGAGGTTAAAGAAGTATCCCTCTAATAACTGAATTTTATAATGCTATCAATATCCACTCCCAATCAGTATGCCATTGTTAATGGTGTACAGCATTACTGTATACAATGGAATTGATGACACCCATATCCACGGACAAACCGTGACTTATGATGGTTTGATTCATGATTTTTCAACGTTATGATGGGTTTATTGGAATATGAGATGCGGTTCTGAGTTACACTGGGTTTATGAGTATGCGACCCTATACTCCAGAAACAGCTGTATAAGGAAAAACAGGTGTACCTAATAAAAATATGCTTAGTGACTTGGGATAAACCAATAGATGTTCACAACTGATGGAGAGCCGTGAAAGAGAGATAGCGGTAAATAGTTACAATAACACAATTTTCCTGCACCTGTCGAGGATTTCCCCAAAAAAACGCAGAACGTGTGATGCACCTAAGGCATATGAAAGAGAGAGGGCAGAAGGAGTAAGAGAGAAATAGGAGGAAGGAAGGAAGGAAGGAAAGAAGGAAGGTAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAAGAAGGACGAAAGGAAGGATAAAACACCCGGTGTTACCAAACCCCCCCCAAAATATGGTTTCCCCCTGTGTGTAAGCCTACAATGTGGATGAATCTTGAAAATATTGTGCTACGTGTTATGTCAGTCATAACAGCTCACCTATTGTGCAATTCTGTTTATAGGAAATGTCCACAATGTGGAAATCTATACATATGGGGTTGGTCGCACTAGGTAGTTGCTACCTAGGGCTGAGGGTCAGGGAGAGGGTTTGAGACAGAATGAGGAGTGACTAATGTCTACAGGTTTTTCTCTGGTCGGGGGTGATAAGACGTTCTACAATGGATTGCGAATTAAAATTGAATGTGCACAACCACAGGTATACTAAAAGCCACTCAATTCATGACTTTTAATGGGGGAATCTTATGTGGCGCACTCTCATGGAGACCACGGCAGACATAGTGAGAGAGAAAAAGGTGAGTAAATATCTGAAACGGAGGCAGAAACAGAGAGAATGAAAAGCCCTGTGAATGGAAGGGAGAGCGAAAAGGGGAAATGGTCCTATTTACAAATGACAGATGTGAAACTGGGGTTCACATCAACAGTGTCACTGCCAGGAAGGAGGGTGATGCTAGCCATGTCACCGGCAGTGTGTCCCGCAGGGACGCCGACCTGCTGGAGCGTCTTGCCAGCATGGGCTCTGGCAGCCACGTGGGCCAGCAGGAGGGTCCCGCTGCACAGCTGTGGGGTGAGGATAGACTGGGTGGTGATATCGGCCATGACAGGGGCCTCTTCTGCTGGCAAGAGTGTGACAGTAGCAAGTAGATGGACAGGCCTGCGTGTGAGGACGGAATGCAGGAGGGTCTCTTGTGAGGCTGGGTGTGGGGCCCTCACGGGAACCGTGGAGTAATGGCCAGGTAACTGCGTCATGTGGGCTAGTAGATTGGCCAGGGCTTCGAACTGAAGGACAATAACAGGGAGTAGCTGTCAGGCCCTGGGAGTGTCTGAGTGTAAGTGGAGATGGGTTTGGGGTCACTGAGGGATGCGTGGGAGCCATCCCTGTATAGGTACAGGTCATAGGGAGATAGTCTCGTGTGGCCCGTGAGTGTCTAGGGTTGTCCTGGGTGCCTGGGGCTGACTGTGGCAGAAATCTGGGGAAGGCTGGAGAGAAGCTGGGAGACCCAGGAGAGTCCCTGAAGGCAGGGGGTGAAGAGGTGAAAGAAATGGGGGAGGGTTGCAGTAAGGTCCGTGAGTTTGTAGGTGATTCCTGGGTGCGTGAAGCTGACTCCACGTGAAATCTGGAGATGGTTGGAGAGTAGCTGAGAGAGACAGAAGAGTCCCTGAGGGCTGGGGGTGAGAACATGAGGGAGACTGGGGAGTAAGTCAGTGAAATTCGTGAGTTCGGTGGTGTATCGTGGGTGCCTGGAACTGACTCCAGCTGGAATCTAGAGAAGTTTTGAGAGTAGCTGAAAGAGACACAAGAGTCCCTGTGGGCTGAGGGCAAAGACCTGAGAGAGACCAGGGAGGACCTCAGTGAAGTCTGTGAGTCCGTAGGTGATTCTGGAGTGTGGGAGGCTGACTCCCGCTGAAATCTGGGCGTGGTGGGGGAGTAGCTGGGACAGACAGGAGAGTCCCAGGGGGCTGGGGGTGAAGACATGAGAGAGACTGGGGAGTAACTCAGTGAAACTGCTGAGTTTGTAGGTGATACCTGGGTGCCTGGAACTGACTCCCGCTGAAATCTGGGCATGGTTGGAGAGTATCTGGGACACACAGGAGAGTCCCTGAGGGCTGGTGAAGACATGAGAGAGACTGGAGAGTAATTGAGTGAAATTGGTGAGTTTGGTGGTGATTCCTGGGTGCCTGGAACTGACTCCCGCTGAAGTGTGGGCGTGGTTGGAGAGTAGCTGGGACACACAGGAGAGTCCCTGAGGGTTGGAGATAAAGACGTGCTAGAGACTGAGGAGTAACTGAGTGAAACAGGTGAGTTTGGTGGTGATTCCGGGGTGCCTGGAACTGACTCCAGCTGCAATGTGGGCGTGGTTGGAGAGTAGCTGGGACAGACGGGAGAGTCCCTGAGGGATGGTGAAGACATGAGAGAGACTGGGGAGTAACGCAGTGAAATTGGTGAGTTTGGTGGTGATTTCTGGGTGCCTGCAACGGACTCCGGCTGAAGTGTGGGCGTGTTTGGAGAGTAGCTGGGACAGACAGGCGAGTCCCTGAGGGTTGGAGATAAAGACGTGCTAGAGACTGGGGAGTAACTCAGTGAAAGTGGTGGGCTTGGCGGTGATCCCTGGGTTCCCGGAACCGACCCGCGCTGAAATGTGGGCGTGGTTGGAGAGTAGCTGGGACAGACTGGAGGGTCCGTAAGGGCTGGGGGTGAAGACGTGAGAGAATCTGGCCAGGATCTCACTGAGGTCTGTGAGTTTGTAGGTGTTGCTGGGGTGTGGGGTACAGACAGCCGCTGAAATGTGGGCGTGGTTGGAGAGTAGCTGGGACAGACAGGAGAGTCATGGGTGGCTGGGGGTGAGCTGCTGGATGATGGCAGTAAGAACATATGGTATATTATTGATGAATGAGGTGACTGTGAAGAATCTCCAGAGGAGGACATGGGAGAACACAATGACATGAGTGACTGTCCTGCTTGGTTAGGAAAGGGAAACGTAAAGCTGTGGAATTCTGTTGATGATGGATGTGAGACTGGTGAAGCCCTGCGGGATGATGTAGAGTTCTTCCACATCCCTGGTGAGGAGCTGCCCCTTGGGTCTGAGTTTCTGGGAGGGGAGAGGGAGAAGCTGGGTGAGGCAGGCATGAATCTTGAGGAGTCAGGGCTGGGGGACCGCTCATATTCTCCCGAGACGTGTGAGTCTCTGGGCGACTCCTGGGTGCATGGGGCTGACTCCCGCAGGAACCTGGGGATGGCTGGAGAGTAACTGGGAGCCACAGGAGAGTCCCTGAGGCCTGGGGGTGAAGAGATGAAAGACACAAGGGTGGAGCACCGTGAGGCTCGTGAGTTTGTAGGTGATTCCCGGGTGTGGGGGGCTGACTCCAGCTGAAATCTGGGGTTGTTTGGAGAGTAGCTGGGAGACACAGGAGACCCCCCGAGAGCTGGGGGTGAGCTGCTGGGTGATGGCAGTAAGAACATGTGGTATATTATTGATGAACCTGGGGACTCTGAGGAATCCTCAGAGGAGGACAGAGGAGAGCCCGATGGCTTCATTGATTGCCCATCATGGTGAGGACAGGGAAATGGGAGCTTGTGGGATTCTGGTGATGACAGAGGTGAGTGTGGTGAAGCCCTAGGGGATGGTGAATGGTAGCTCCGGATCCCTGGTGAGGAGCTTCCCATTAAGCCTGAGTTTCTGAGAGGGGAGAAGGAGAAGCTGGGTGAGGCTCGCATGGACCTTGGGGAGTCCGGGCTGGGGGACCGTTCATAAGAAGAGCCAGACAAGACCCTACTGTTCTTAGGTGCAGACATGATTAGGAAACCTGCAGCTCCCAGGGGCCCCTACTAATTTTCTAACTCGCAGATGGAAGGAGTGTGTGTGCGTGTGTGTGAGTGTGTGCGTGTGTGTGCGTGTGTGTGTGTCTGTGTGTGTGCGGTGTGAGGTATATGCCCCTTAAGAAAATGGAAATCAACCAACCAATGAGACAGACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"MA0147.2"	""	16	"."	3	12	"."	0	""	"-"	""	"MA0147.2"	"MotifFeature"	"TF_binding_site_variant,TFBS_ablation"	""	""	""	""	""	""	"1"	NA	-1	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	"Cmyc:MA0147.2"	NA	"N"	NA	"MODERATE"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGACAGACAGACAGACAGAGATTCACTTGCCCAAGTGTTCTGTCCTGTCCTCTGAATCCGCCTCCAAGTCGCAAGACGCCGTGAGCTCCAAGTCCACGCAGAGTCCGCCAAAGGCTCCGGCCGCTGATCCGCTCCACGAAGATCTGAGTACAGGCCAGCCAGGGTGGGTTTAAATAGCCTCGGGCGCAACCTAGCAGCGGAAAGGGCGGAGCTTCACTCCTCCTTTCCGTCAGTCACCCCCAACTTTCCCAGGCTACACCTCTTAGGAAACTGTTCTCCTACATTGATTTCATGCGCCACCTTTGGAACAATTTAAGAACTTCCAAGTTTTCTGGGCCAGATATGTTAGGAATTGTATGCACTGAAACACTGAAAACCAACTAGTGGTTCTGTGGTTCCCACGTTGTGGTTTTGACGCCAGCAGCATCCTTGCCACAATCAAACCCCGGAGATCCACAGATCTGTGTTGTAACAAGACCTCCCCCTGACCCTGATGCATGGCAGTTTAAGAAGTCTTTCCGTGTAAGCGAAAAGACTTTGAACAAAAGGTGGAGATATGCGTTGTATAAACATTCTTTTGCTCTGGAACCACGTGGAGACTTGGGAGCCAGTTGGGTGGAGCATTCGTTGGATGAGGGTGCTCGGGTTCGGAATATCAAGGTGTGGCTCCAGATAATCCAATCATCTAATTAAGATTCCAGTTGTGCTCATCTGTTTTAAAATTCCGTTTGGGTAAATTCTTTTATTCAGATTGAGAATGGCAAAGCCTCAACCCCAATTTCCAGGGAGGGTTGAGAGCCTCAGGTGGAGTTGATCACCAATAGCCTATGGTTTAACCCATCATGCCTATAGAATGAGGTCTCCATAAAAACCCAAAAGGACTGGGTTCAGAGAGGTTCTGGATAACACTTCCTGGAAGGTAGTGCGCCCCTCCCCACATGCCGGGCCCCACATTTATTTCTGAACTTTTTGCAATGTCCGCTAAAATACAACGGCAAATGTAAGTGCTTCCCTGAGTGCTGTGAGCTCTTCCAGCAAATGAATGCAACTGAATCTGAGAGTGGTGGCAACCTGATTTATAGCCAGTTGCTGAGAAGCGCAGGTAAAACAACGTAGGGCTTCCCGTTGTTATTAGTGTTGGAGGCCTGCCTGGCGGGACTCGGCCCTTTGGAATCTAATGCTATGTCCCGGTAGATAGCGTCACCATTGAATTAGAAGACACACATATGTTGAGAATAATCTTTCTGGTCATTTGCTGCATGTCTTATTTACAATATGTAATCAAATTGTTTATCCTGACCTTATGGCACCTGGGTTGAGAACCATGATTTGAACCAAACATTGGTCTGTCACTTTCTGAGTTTGAAACTTTATTTTGCCTTTAGCGTTTTGCTATTGCTTTTTCGTTTTCTTTTGTTTCGTTTCGTTTCTAAGTTCTGGGGTATATGTGCAGGATGGACAGATTTGTTACTAAGGTAAACGTGTGCCATGGTGGTTTGCTGCACCTGTCAACCCATCACCTAGGTATTAAGCCAAGCATGCAGTAGCTGTTTTCCTTAAGGCTCCGCCTCCCGAAAGGCCCCAGTGTGTGTTGTTCTTCTTCCTGTGTCCATGTGATCTCATTCTTCAGCTCCCATTATAAGTGAGAATGTGGCGTTTGGTTTTCTTTCCCTGGATTAGTTTGCTGAGGGTAATGACCACACGTCACCACTGTTTTTGTTTTTTAGTATAAAGAGTAGCATTTTATTGAATAAGATTTGCTCACAGAAAAATAAGCTTAAATCTACAATGAATGCCAGACTCTACAGCAGAAAGCAATTTTCTCACTTTTCCACACACAATGGTTCCTACTAAGTGAAAAAAAGCCATAAAATGTCATTCACAAATGTACTAATCTGTCTCAAAACATCTCACATAATCATGCACTGCACTAAAGCCATTAGATCAGTTCTTCAGTGAGGTTAAAGAAGTATCCCTCTAATAACTGAATTTTATAATGCTATCAATATCCACTCCCAATCAGTATGCCATTGTTAATGGTGTACAGCATTACTGTATACAATGGAATTGATGACACCCATATCCACGGACAAACCGTGACTTATGATGGTTTGATTCATGATTTTTCAACGTTATGATGGGTTTATTGGAATATGAGATGCGGTTCTGAGTTACACTGGGTTTATGAGTATGCGACCCTATACTCCAGAAACAGCTGTATAAGGAAAAACAGGTGTACCTAATAAAAATATGCTTAGTGACTTGGGATAAACCAATAGATGTTCACAACTGATGGAGAGCCGTGAAAGAGAGATAGCGGTAAATAGTTACAATAACACAATTTTCCTGCACCTGTCGAGGATTTCCCCAAAAAAACGCAGAACGTGTGATGCACCTAAGGCATATGAAAGAGAGAGGGCAGAAGGAGTAAGAGAGAAATAGGAGGAAGGAAGGAAGGAAGGAAAGAAGGAAGGTAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAAGAAGGACGAAAGGAAGGATAAAACACCCGGTGTTACCAAACCCCCCCCAAAATATGGTTTCCCCCTGTGTGTAAGCCTACAATGTGGATGAATCTTGAAAATATTGTGCTACGTGTTATGTCAGTCATAACAGCTCACCTATTGTGCAATTCTGTTTATAGGAAATGTCCACAATGTGGAAATCTATACATATGGGGTTGGTCGCACTAGGTAGTTGCTACCTAGGGCTGAGGGTCAGGGAGAGGGTTTGAGACAGAATGAGGAGTGACTAATGTCTACAGGTTTTTCTCTGGTCGGGGGTGATAAGACGTTCTACAATGGATTGCGAATTAAAATTGAATGTGCACAACCACAGGTATACTAAAAGCCACTCAATTCATGACTTTTAATGGGGGAATCTTATGTGGCGCACTCTCATGGAGACCACGGCAGACATAGTGAGAGAGAAAAAGGTGAGTAAATATCTGAAACGGAGGCAGAAACAGAGAGAATGAAAAGCCCTGTGAATGGAAGGGAGAGCGAAAAGGGGAAATGGTCCTATTTACAAATGACAGATGTGAAACTGGGGTTCACATCAACAGTGTCACTGCCAGGAAGGAGGGTGATGCTAGCCATGTCACCGGCAGTGTGTCCCGCAGGGACGCCGACCTGCTGGAGCGTCTTGCCAGCATGGGCTCTGGCAGCCACGTGGGCCAGCAGGAGGGTCCCGCTGCACAGCTGTGGGGTGAGGATAGACTGGGTGGTGATATCGGCCATGACAGGGGCCTCTTCTGCTGGCAAGAGTGTGACAGTAGCAAGTAGATGGACAGGCCTGCGTGTGAGGACGGAATGCAGGAGGGTCTCTTGTGAGGCTGGGTGTGGGGCCCTCACGGGAACCGTGGAGTAATGGCCAGGTAACTGCGTCATGTGGGCTAGTAGATTGGCCAGGGCTTCGAACTGAAGGACAATAACAGGGAGTAGCTGTCAGGCCCTGGGAGTGTCTGAGTGTAAGTGGAGATGGGTTTGGGGTCACTGAGGGATGCGTGGGAGCCATCCCTGTATAGGTACAGGTCATAGGGAGATAGTCTCGTGTGGCCCGTGAGTGTCTAGGGTTGTCCTGGGTGCCTGGGGCTGACTGTGGCAGAAATCTGGGGAAGGCTGGAGAGAAGCTGGGAGACCCAGGAGAGTCCCTGAAGGCAGGGGGTGAAGAGGTGAAAGAAATGGGGGAGGGTTGCAGTAAGGTCCGTGAGTTTGTAGGTGATTCCTGGGTGCGTGAAGCTGACTCCACGTGAAATCTGGAGATGGTTGGAGAGTAGCTGAGAGAGACAGAAGAGTCCCTGAGGGCTGGGGGTGAGAACATGAGGGAGACTGGGGAGTAAGTCAGTGAAATTCGTGAGTTCGGTGGTGTATCGTGGGTGCCTGGAACTGACTCCAGCTGGAATCTAGAGAAGTTTTGAGAGTAGCTGAAAGAGACACAAGAGTCCCTGTGGGCTGAGGGCAAAGACCTGAGAGAGACCAGGGAGGACCTCAGTGAAGTCTGTGAGTCCGTAGGTGATTCTGGAGTGTGGGAGGCTGACTCCCGCTGAAATCTGGGCGTGGTGGGGGAGTAGCTGGGACAGACAGGAGAGTCCCAGGGGGCTGGGGGTGAAGACATGAGAGAGACTGGGGAGTAACTCAGTGAAACTGCTGAGTTTGTAGGTGATACCTGGGTGCCTGGAACTGACTCCCGCTGAAATCTGGGCATGGTTGGAGAGTATCTGGGACACACAGGAGAGTCCCTGAGGGCTGGTGAAGACATGAGAGAGACTGGAGAGTAATTGAGTGAAATTGGTGAGTTTGGTGGTGATTCCTGGGTGCCTGGAACTGACTCCCGCTGAAGTGTGGGCGTGGTTGGAGAGTAGCTGGGACACACAGGAGAGTCCCTGAGGGTTGGAGATAAAGACGTGCTAGAGACTGAGGAGTAACTGAGTGAAACAGGTGAGTTTGGTGGTGATTCCGGGGTGCCTGGAACTGACTCCAGCTGCAATGTGGGCGTGGTTGGAGAGTAGCTGGGACAGACGGGAGAGTCCCTGAGGGATGGTGAAGACATGAGAGAGACTGGGGAGTAACGCAGTGAAATTGGTGAGTTTGGTGGTGATTTCTGGGTGCCTGCAACGGACTCCGGCTGAAGTGTGGGCGTGTTTGGAGAGTAGCTGGGACAGACAGGCGAGTCCCTGAGGGTTGGAGATAAAGACGTGCTAGAGACTGGGGAGTAACTCAGTGAAAGTGGTGGGCTTGGCGGTGATCCCTGGGTTCCCGGAACCGACCCGCGCTGAAATGTGGGCGTGGTTGGAGAGTAGCTGGGACAGACTGGAGGGTCCGTAAGGGCTGGGGGTGAAGACGTGAGAGAATCTGGCCAGGATCTCACTGAGGTCTGTGAGTTTGTAGGTGTTGCTGGGGTGTGGGGTACAGACAGCCGCTGAAATGTGGGCGTGGTTGGAGAGTAGCTGGGACAGACAGGAGAGTCATGGGTGGCTGGGGGTGAGCTGCTGGATGATGGCAGTAAGAACATATGGTATATTATTGATGAATGAGGTGACTGTGAAGAATCTCCAGAGGAGGACATGGGAGAACACAATGACATGAGTGACTGTCCTGCTTGGTTAGGAAAGGGAAACGTAAAGCTGTGGAATTCTGTTGATGATGGATGTGAGACTGGTGAAGCCCTGCGGGATGATGTAGAGTTCTTCCACATCCCTGGTGAGGAGCTGCCCCTTGGGTCTGAGTTTCTGGGAGGGGAGAGGGAGAAGCTGGGTGAGGCAGGCATGAATCTTGAGGAGTCAGGGCTGGGGGACCGCTCATATTCTCCCGAGACGTGTGAGTCTCTGGGCGACTCCTGGGTGCATGGGGCTGACTCCCGCAGGAACCTGGGGATGGCTGGAGAGTAACTGGGAGCCACAGGAGAGTCCCTGAGGCCTGGGGGTGAAGAGATGAAAGACACAAGGGTGGAGCACCGTGAGGCTCGTGAGTTTGTAGGTGATTCCCGGGTGTGGGGGGCTGACTCCAGCTGAAATCTGGGGTTGTTTGGAGAGTAGCTGGGAGACACAGGAGACCCCCCGAGAGCTGGGGGTGAGCTGCTGGGTGATGGCAGTAAGAACATGTGGTATATTATTGATGAACCTGGGGACTCTGAGGAATCCTCAGAGGAGGACAGAGGAGAGCCCGATGGCTTCATTGATTGCCCATCATGGTGAGGACAGGGAAATGGGAGCTTGTGGGATTCTGGTGATGACAGAGGTGAGTGTGGTGAAGCCCTAGGGGATGGTGAATGGTAGCTCCGGATCCCTGGTGAGGAGCTTCCCATTAAGCCTGAGTTTCTGAGAGGGGAGAAGGAGAAGCTGGGTGAGGCTCGCATGGACCTTGGGGAGTCCGGGCTGGGGGACCGTTCATAAGAAGAGCCAGACAAGACCCTACTGTTCTTAGGTGCAGACATGATTAGGAAACCTGCAGCTCCCAGGGGCCCCTACTAATTTTCTAACTCGCAGATGGAAGGAGTGTGTGTGCGTGTGTGTGAGTGTGTGCGTGTGTGTGCGTGTGTGTGTGTCTGTGTGTGTGCGGTGTGAGGTATATGCCCCTTAAGAAAATGGAAATCAACCAACCAATGAGACAGACACA"	"3879062a-2764-11e6-b33c-1287424a729f"	"94"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"1952"	"SPATA18"	132671	"mskcc.org"	"GRCh37"	"4"	52943582	52943585	"+"	"Intron"	"DEL"	"CTCT"	"CTCT"	"-"	"rs72361679"	NA	"JHCCPT1"	"JHCCPN1"	"CTCT"	"CTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1020+381_1020+384delTCTC"	""	""	"ENST00000295213"	""	14	"."	4	6	"."	0	"SPATA18,intron_variant,,ENST00000295213,NM_145263.2;SPATA18,intron_variant,,ENST00000419395,;SPATA18,downstream_gene_variant,,ENST00000514670,;SPATA18,intron_variant,,ENST00000511028,;SPATA18,intron_variant,,ENST00000505320,;SPATA18,upstream_gene_variant,,ENST00000510549,;"	"-"	"ENSG00000163071"	"ENST00000295213"	"Transcript"	"intron_variant"	"-/4396"	"-/1617"	"-/538"	""	""	"rs72361679"	"1"	NA	1	"SPATA18"	"HGNC"	29579	"protein_coding"	"YES"	"CCDS3489.1"	"ENSP00000295213"	"Q8TC71"	""	"UPI000006FB0D"	"NM_145263.2"	NA	NA	""	"7/12"	""	"-:0.3866"	"-:0.087"	"-:0.6138"	NA	"-:0.3948"	"-:0.6581"	"-:0.3425"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTCTC"	"38981fba-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1953"	"CLOCK"	9575	"mskcc.org"	"GRCh37"	"4"	56315981	56315981	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs11347931"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1348+277delT"	""	""	"ENST00000309964"	""	22	"."	5	5	"."	0	"CLOCK,intron_variant,,ENST00000309964,NM_004898.3;CLOCK,intron_variant,,ENST00000381322,NM_001267843.1;CLOCK,intron_variant,,ENST00000513440,;TMEM165,intron_variant,,ENST00000608091,;TMEM165,intron_variant,,ENST00000506103,;CLOCK,upstream_gene_variant,,ENST00000511124,;CLOCK,downstream_gene_variant,,ENST00000506747,;"	"-"	"ENSG00000134852"	"ENST00000309964"	"Transcript"	"intron_variant"	"-/10304"	"-/2541"	"-/846"	""	""	"rs11347931"	"1"	NA	-1	"CLOCK"	"HGNC"	2082	"protein_coding"	"YES"	"CCDS3500.1"	"ENSP00000308741"	"O15516"	"C9JK03"	"UPI0000031303"	"NM_004898.3"	NA	NA	""	"15/21"	""	"-:0.3766"	"-:0.1717"	"-:0.4481"	NA	"-:0.5724"	"-:0.3429"	"-:0.4356"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTAA"	"394ce29c-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WXS"	FALSE
"1954"	"SRP72"	6731	"mskcc.org"	"GRCh37"	"4"	57336245	57336248	"+"	"Intron"	"DEL"	"TAAC"	"TAAC"	"-"	"rs145835499"	NA	"JHCCPT1"	"JHCCPN1"	"TAAC"	"TAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.230+307_230+310delAACT"	""	""	"ENST00000342756"	""	19	"."	5	6	"."	0	"SRP72,intron_variant,,ENST00000342756,NM_006947.3;SRP72,intron_variant,,ENST00000510663,NM_001267722.1;SRP72,intron_variant,,ENST00000504757,;SRP72,upstream_gene_variant,,ENST00000505314,;"	"-"	"ENSG00000174780"	"ENST00000342756"	"Transcript"	"intron_variant"	"-/3983"	"-/2016"	"-/671"	""	""	"rs145835499"	"1"	NA	1	"SRP72"	"HGNC"	11303	"protein_coding"	"YES"	"CCDS3506.1"	"ENSP00000342181"	"O76094"	"Q86X80"	"UPI000013EEB0"	"NM_006947.3"	NA	NA	""	"2/18"	""	"-:0.2194"	"-:0.0946"	"-:0.4107"	NA	"-:0.2242"	"-:0.2167"	"-:0.2505"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AATAACT"	"39a52e7a-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"1955"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	60054723	60054749	"+"	"IGR"	"DEL"	"TTTCTTTCTTTCTTTCTTTCTTTCTTT"	"TTTCTTTCTTTCTTTCTTTCTTTCTTT"	"CTTTCTT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TTTCTTTCTTTCTTTCTTTCTTTCTTT"	"TTTCTTTCTTTCTTTCTTTCTTTCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	2	"."	0	""	"CTTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTCTTTCTTTCTTTCTTTCTTTCTTTC"	"4fd6b25e-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1956"	"LPHN3"	23284	"mskcc.org"	"GRCh37"	"4"	62775479	62775480	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTG"	"rs771690107"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1869+52_1869+57dupGTGTGT"	""	""	"ENST00000514591"	""	99	"."	4	49	"."	0	"LPHN3,intron_variant,,ENST00000512091,;LPHN3,intron_variant,,ENST00000514591,;LPHN3,intron_variant,,ENST00000545650,NM_015236.4;LPHN3,intron_variant,,ENST00000509896,;LPHN3,intron_variant,,ENST00000511324,;LPHN3,intron_variant,,ENST00000508693,;LPHN3,intron_variant,,ENST00000507164,;LPHN3,intron_variant,,ENST00000506720,;LPHN3,intron_variant,,ENST00000506746,;LPHN3,intron_variant,,ENST00000507625,;LPHN3,intron_variant,,ENST00000506700,;LPHN3,intron_variant,,ENST00000504896,;LPHN3,intron_variant,,ENST00000514157,;LPHN3,intron_variant,,ENST00000508946,;LPHN3,intron_variant,,ENST00000514996,;LPHN3,intron_variant,,ENST00000502815,;Y_RNA,downstream_gene_variant,,ENST00000365299,;"	"TGTGTG"	"ENSG00000150471"	"ENST00000514591"	"Transcript"	"intron_variant"	"-/6297"	"-/4410"	"-/1469"	""	""	"rs771690107"	"1"	NA	1	"LPHN3"	"HGNC"	20974	"protein_coding"	"YES"	"CCDS54768.1"	"ENSP00000422533"	""	"Q4W5J9,E9PE04"	"UPI00016278EF"	""	NA	NA	""	"11/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"41"	NA	"1"	"0.008825"	"0.009368"	"0.03448"	"0.06122"	"0.03774"	"0.01774"	"0"	"0.01647"	NA	"common_variant"	"TAT"	"5862a766-2764-11e6-b33c-1287424a729f"	"240"	0.01898	"80/4214"	"295/33428"	"8/854"	"4/116"	"6/98"	"16/424"	"26/1466"	"0/42"	"20/1214"	"PASS"	"FALSE"	0.0404040404040404	"WXS"	FALSE
"1957"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	63489685	63489686	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs56186005"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	5	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs56186005"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1446"	"C:0.7814"	"C:0.8775"	NA	"C:0.9425"	"C:0.8022"	"C:0.9049"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"587c5706-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1958"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	65916137	65916138	"+"	"IGR"	"INS"	"-"	"-"	"ACACACACACACAC"	"rs10530020"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	1	"."	0	""	"ACACACACACACAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10530020"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1735"	"ACACACACACACAC:0.6165"	"ACACACACACACAC:0.9135"	NA	"ACACACACACACAC:0.9067"	"ACACACACACACAC:0.9215"	"ACACACACACACAC:0.8681"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"58935f14-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"1959"	"EPHA5"	2044	"mskcc.org"	"GRCh37"	"4"	66218917	66218918	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs139336386"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2237-98_2237-97dupTA"	""	""	"ENST00000273854"	""	32	"."	4	12	"."	0	"EPHA5,intron_variant,,ENST00000273854,NM_004439.5,NM_001281765.1;EPHA5,intron_variant,,ENST00000511294,NM_001281767.1;EPHA5,intron_variant,,ENST00000432638,;EPHA5,intron_variant,,ENST00000354839,NM_182472.2;"	"TA"	"ENSG00000145242"	"ENST00000273854"	"Transcript"	"intron_variant"	"-/8266"	"-/3114"	"-/1037"	""	""	"rs139336386"	"1"	NA	-1	"EPHA5"	"HGNC"	3389	"protein_coding"	"YES"	"CCDS3513.1"	"ENSP00000273854"	"P54756"	""	"UPI000013D9D9"	"NM_004439.5,NM_001281765.1"	NA	NA	""	"12/17"	""	"TA:0.2756"	"TA:0.267"	"TA:0.2493"	NA	"TA:0.3413"	"TA:0.2346"	"TA:0.2802"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"589b5732-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"1960"	"UBA6"	55236	"mskcc.org"	"GRCh37"	"4"	68541485	68541494	"+"	"Intron"	"DEL"	"GAAAGGAAAA"	"GAAAGGAAAA"	"-"	"rs149106764"	NA	"JHCCPT1"	"JHCCPN1"	"GAAAGGAAAA"	"GAAAGGAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.465+1835_465+1844delTTTTCCTTTC"	""	""	"ENST00000322244"	""	12	"."	4	2	"."	0	"UBA6,intron_variant,,ENST00000322244,NM_018227.5;UBA6,intron_variant,,ENST00000420827,;UBA6,intron_variant,,ENST00000429659,;UBA6,downstream_gene_variant,,ENST00000506571,;"	"-"	"ENSG00000033178"	"ENST00000322244"	"Transcript"	"intron_variant"	"-/9564"	"-/3159"	"-/1052"	""	""	"rs149106764"	"1"	NA	-1	"UBA6"	"HGNC"	25581	"protein_coding"	"YES"	"CCDS3516.1"	"ENSP00000313454"	"A0AVT1"	"B3KSS1"	"UPI000004A4F7"	"NM_018227.5"	NA	NA	""	"6/32"	""	"-:0.1793"	"-:0.1702"	"-:0.2277"	NA	"-:0.1746"	"-:0.2575"	"-:0.0818"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAAGGAAAAG"	"3ab58616-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1961"	"UGT2B15"	7366	"mskcc.org"	"GRCh37"	"4"	69520182	69520183	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs34449264"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1094-209dupT"	""	""	"ENST00000338206"	""	20	"."	6	5	"."	0	"UGT2B15,intron_variant,,ENST00000338206,NM_001076.3;"	"A"	"ENSG00000196620"	"ENST00000338206"	"Transcript"	"intron_variant"	"-/2077"	"-/1593"	"-/530"	""	""	"rs34449264"	"1"	NA	-1	"UGT2B15"	"HGNC"	12546	"protein_coding"	"YES"	"CCDS3524.1"	"ENSP00000341045"	"P54855"	""	"UPI000045721A"	"NM_001076.3"	NA	NA	""	"4/5"	""	"A:0.3648"	"A:0.1172"	"A:0.5014"	NA	"A:0.1895"	"A:0.6352"	"A:0.5051"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"5923eb9c-2764-11e6-b33c-1287424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"1962"	"UGT2B7"	7364	"mskcc.org"	"GRCh37"	"4"	69968825	69968826	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs34407256"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1002+178dupT"	""	""	"ENST00000305231"	""	12	"."	7	1	"."	0	"UGT2B7,intron_variant,,ENST00000305231,NM_001074.2;UGT2B7,intron_variant,,ENST00000508661,;UGT2B7,intron_variant,,ENST00000502942,;UGT2B7,intron_variant,,ENST00000509763,;"	"T"	"ENSG00000171234"	"ENST00000305231"	"Transcript"	"intron_variant"	"-/1887"	"-/1590"	"-/529"	""	""	"rs34407256"	"1"	NA	1	"UGT2B7"	"HGNC"	12554	"protein_coding"	"YES"	"CCDS3526.1"	"ENSP00000304811"	"P16662"	"Q9HCT7,Q5QKR3,D6RH08"	"UPI00000015EC"	"NM_001074.2"	NA	NA	""	"3/5"	""	"-:0.3011"	"T:0.8638"	"T:0.7176"	NA	"T:0.7192"	"T:0.5497"	"T:0.5951"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"5947f6ea-2764-11e6-b33c-1287424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"1963"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	70235917	70235918	"+"	"IGR"	"INS"	"-"	"-"	"TTTCTTTCT"	"rs200599332"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"TTTCTTTCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200599332"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"5948c6a6-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1964"	"CSN3"	1448	"mskcc.org"	"GRCh37"	"4"	71110506	71110506	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs140888032"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-8-15delT"	""	""	"ENST00000304954"	""	38	"."	7	14	"."	0	"CSN3,intron_variant,,ENST00000304954,NM_005212.2;"	"-"	"ENSG00000171209"	"ENST00000304954"	"Transcript"	"intron_variant"	"-/836"	"-/549"	"-/182"	""	""	"rs140888032"	"1"	NA	1	"CSN3"	"HGNC"	2446	"protein_coding"	"YES"	"CCDS3538.1"	"ENSP00000304822"	"P07498"	""	"UPI000004F262"	"NM_005212.2"	NA	NA	""	"1/4"	""	"-:0.1484"	"-:0.0098"	"-:0.0836"	NA	"-:0.2857"	"-:0.1392"	"-:0.2495"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	"0.1369"	"0.04094"	"0.06573"	"0.3816"	"0.209"	"0.2103"	"0.2569"	"0.275"	NA	"common_variant"	"AATT"	"3b555e3e-2764-11e6-b33c-1287424a729f"	"420"	0.2022	"12069/59684"	"14362/104914"	"192/4690"	"504/7668"	"1367/3582"	"732/3502"	"5807/27608"	"112/436"	"3355/12198"	"PASS"	"FALSE"	0.184210526315789	"WXS"	FALSE
"1965"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	72744446	72744447	"+"	"IGR"	"INS"	"-"	"-"	"TCCCTCCTTCCT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	3	"."	0	""	"TCCCTCCTTCCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"59c5ffea-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1966"	"ADAMTS3"	9508	"mskcc.org"	"GRCh37"	"4"	73280847	73280850	"+"	"Intron"	"DEL"	"TAAT"	"TAAT"	"-"	"rs5859320"	NA	"JHCCPT1"	"JHCCPN1"	"TAAT"	"TAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.505-162_505-159delATTA"	""	""	"ENST00000286657"	""	16	"."	5	7	"."	0	"ADAMTS3,intron_variant,,ENST00000286657,NM_014243.2;"	"-"	"ENSG00000156140"	"ENST00000286657"	"Transcript"	"intron_variant"	"-/5822"	"-/3618"	"-/1205"	""	""	"rs5859320"	"1"	NA	-1	"ADAMTS3"	"HGNC"	219	"protein_coding"	"YES"	"CCDS3553.1"	"ENSP00000286657"	"O15072"	"Q96AY5"	"UPI00001AEAEA"	"NM_014243.2"	NA	NA	""	"3/21"	""	"TAAT:0.3460"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATAATT"	"3ba6abc2-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"1967"	"NUP54"	53371	"mskcc.org"	"GRCh37"	"4"	77045739	77045779	"+"	"Intron"	"DEL"	"TTTAGTACATTATTTCACACACATAGTCTTATAAACACTGG"	"TTTAGTACATTATTTCACACACATAGTCTTATAAACACTGG"	"GTACATTATTTCACACACAGAGTCTTATAAACACT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TTTAGTACATTATTTCACACACATAGTCTTATAAACACTGG"	"TTTAGTACATTATTTCACACACATAGTCTTATAAACACTGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1164+23_1164+63delCCAGTGTTTATAAGACTATGTGTGTGAAATAATGTACTAAAinsAGTGTTTATAAGACTCTGTGTGTGAAATAATGTAC"	""	""	"ENST00000264883"	""	68	"."	16	40	"."	0	"NUP54,intron_variant,,ENST00000264883,NM_001278603.1,NM_017426.3;NUP54,intron_variant,,ENST00000342467,;NUP54,intron_variant,,ENST00000514987,;NUP54,intron_variant,,ENST00000458189,;NUP54,intron_variant,,ENST00000508465,;NUP54,non_coding_transcript_exon_variant,,ENST00000504173,;NUP54,intron_variant,,ENST00000507257,;NUP54,intron_variant,,ENST00000508604,;NUP54,intron_variant,,ENST00000502850,;NUP54,intron_variant,,ENST00000512151,;"	"GTACATTATTTCACACACAGAGTCTTATAAACACT"	"ENSG00000138750"	"ENST00000264883"	"Transcript"	"intron_variant"	"-/2367"	"-/1524"	"-/507"	""	""	""	"1"	NA	-1	"NUP54"	"HGNC"	17359	"protein_coding"	"YES"	"CCDS3576.1"	"ENSP00000264883"	"Q7Z3B4"	"Q53H29,E7EUM5"	"UPI0000036166"	"NM_001278603.1,NM_017426.3"	NA	NA	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATTTAGTACATTATTTCACACACATAGTCTTATAAACACTGGG"	"50097446-2764-11e6-b33c-1287424a729f"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"1968"	"NUP54"	53371	"mskcc.org"	"GRCh37"	"4"	77046292	77046293	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs76968621"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1057-384dupT"	""	""	"ENST00000264883"	""	7	"."	4	3	"."	0	"NUP54,intron_variant,,ENST00000264883,NM_001278603.1,NM_017426.3;NUP54,intron_variant,,ENST00000342467,;NUP54,intron_variant,,ENST00000514987,;NUP54,intron_variant,,ENST00000458189,;NUP54,intron_variant,,ENST00000508465,;NUP54,intron_variant,,ENST00000507257,;NUP54,intron_variant,,ENST00000508604,;NUP54,intron_variant,,ENST00000502850,;NUP54,intron_variant,,ENST00000512151,;NUP54,intron_variant,,ENST00000504173,;"	"A"	"ENSG00000138750"	"ENST00000264883"	"Transcript"	"intron_variant"	"-/2367"	"-/1524"	"-/507"	""	""	"rs76968621"	"1"	NA	-1	"NUP54"	"HGNC"	17359	"protein_coding"	"YES"	"CCDS3576.1"	"ENSP00000264883"	"Q7Z3B4"	"Q53H29,E7EUM5"	"UPI0000036166"	"NM_001278603.1,NM_017426.3"	NA	NA	""	"8/11"	""	"A:0.1550"	"A:0.0567"	"A:0.1282"	NA	"A:0.3512"	"A:0.1312"	"A:0.1288"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"5a51afea-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"1969"	"FRAS1"	80144	"mskcc.org"	"GRCh37"	"4"	79390789	79390790	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs55741307"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7258-334dupT"	""	""	"ENST00000264895"	""	28	"."	5	8	"."	0	"FRAS1,intron_variant,,ENST00000264895,NM_025074.6;FRAS1,intron_variant,,ENST00000512123,;"	"T"	"ENSG00000138759"	"ENST00000264895"	"Transcript"	"intron_variant"	"-/12479"	"-/12039"	"-/4012"	""	""	"rs55741307"	"1"	NA	1	"FRAS1"	"HGNC"	19185	"protein_coding"	"YES"	"CCDS54771.1"	"ENSP00000264895"	"Q86XX4"	"Q69YV4,Q4W596"	"UPI000021D4C2"	"NM_025074.6"	NA	NA	""	"50/73"	""	"-:0.4510"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"5b25e76a-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WXS"	FALSE
"1970"	"BMP2K"	55589	"mskcc.org"	"GRCh37"	"4"	79768295	79768296	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs146999088"	NA	"JHCCPT1"	"JHCCPN1"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.669-32_669-31delAT"	""	""	"ENST00000335016"	""	68	"."	3	26	"."	0	"BMP2K,intron_variant,,ENST00000335016,NM_198892.1;BMP2K,intron_variant,,ENST00000502871,NM_017593.3;BMP2K,intron_variant,,ENST00000389010,;BMP2K,upstream_gene_variant,,ENST00000505725,;"	"-"	"ENSG00000138756"	"ENST00000335016"	"Transcript"	"intron_variant"	"-/3804"	"-/3486"	"-/1161"	""	""	"rs146999088"	"1"	NA	1	"BMP2K"	"HGNC"	18041	"protein_coding"	"YES"	"CCDS47083.1"	"ENSP00000334836"	"Q9NSY1"	""	"UPI00001BDC7C"	"NM_198892.1"	NA	NA	""	"5/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	NA	"1"	"0.03441"	"0.1693"	"0.262"	"0.2262"	"0.1716"	"0.2177"	"0.1923"	"0.1654"	NA	"common_variant"	"TTTAT"	"3df5a090-2764-11e6-b33c-1287424a729f"	"180"	0.2084	"2199/10550"	"3204/93104"	"128/756"	"503/1920"	"95/420"	"151/880"	"968/4446"	"15/78"	"339/2050"	"PASS"	"FALSE"	0.0441176470588235	"WXS"	FALSE
"1971"	"PCAT4"	118425	"mskcc.org"	"GRCh37"	"4"	80777450	80777451	"+"	"Intron"	"INS"	"-"	"-"	"CAGCAGC"	"rs146892186"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.134-4967_134-4961dupGCCAGCA"	""	""	"ENST00000504263"	""	14	"."	4	4	"."	0	"PCAT4,intron_variant,,ENST00000504263,;PCAT4,intron_variant,,ENST00000514836,;"	"CAGCAGC"	"ENSG00000251321"	"ENST00000504263"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2091"	""	""	""	""	"rs146892186"	"1"	NA	1	"PCAT4"	"HGNC"	24853	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.2077"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"33"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"5b40c54e-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"1972"	"C4orf22"	255119	"mskcc.org"	"GRCh37"	"4"	81352520	81352521	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs71664805"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.242+68488dupC"	""	""	"ENST00000508675"	""	19	"."	4	5	"."	0	"C4orf22,intron_variant,,ENST00000358105,NM_152770.2;C4orf22,intron_variant,,ENST00000508675,NM_001206997.1;C4orf22,intron_variant,,ENST00000512931,;C4orf22,intron_variant,,ENST00000502497,;C4orf22,intron_variant,,ENST00000503883,;C4orf22,intron_variant,,ENST00000513920,;C4orf22,intron_variant,,ENST00000514249,;"	"C"	"ENSG00000197826"	"ENST00000508675"	"Transcript"	"intron_variant"	"-/753"	"-/753"	"-/250"	""	""	"rs71664805"	"1"	NA	1	"C4orf22"	"HGNC"	28554	"protein_coding"	"YES"	"CCDS56336.1"	"ENSP00000425786"	"Q6V702"	""	"UPI0000D61589"	"NM_001206997.1"	NA	NA	""	"2/6"	""	"C:0.4888"	"C:0.1573"	"C:0.6499"	NA	"C:0.6329"	"C:0.6968"	"C:0.4601"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"5b65ff76-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"1973"	"PRKG2"	5593	"mskcc.org"	"GRCh37"	"4"	82013619	82013620	"+"	"Intron"	"INS"	"-"	"-"	"AAGGAAGG"	"rs374648052"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2127-21_2127-14dupCCTTCCTT"	""	""	"ENST00000395578"	""	77	"."	3	50	"."	0	"PRKG2,intron_variant,,ENST00000395578,;PRKG2,intron_variant,,ENST00000264399,NM_006259.1;PRKG2,intron_variant,,ENST00000418486,NM_001282485.1;PRKG2,intron_variant,,ENST00000545647,;PRKG2,intron_variant,,ENST00000509169,;PRKG2,intron_variant,,ENST00000509474,;"	"AAGGAAGG"	"ENSG00000138669"	"ENST00000395578"	"Transcript"	"intron_variant"	"-/3431"	"-/2289"	"-/762"	""	""	"rs374648052"	"1"	NA	-1	"PRKG2"	"HGNC"	9416	"protein_coding"	"YES"	"CCDS3589.1"	"ENSP00000378945"	"Q13237"	"B7ZA25"	"UPI000012DDC6"	""	NA	NA	""	"17/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"5b7d01da-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.038961038961039	"WXS"	FALSE
"1974"	"ARHGAP24"	83478	"mskcc.org"	"GRCh37"	"4"	86572211	86572211	"+"	"Intron"	"DEL"	"A"	"-"	"-"	"rs11305280"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.181-70823delA"	""	""	"ENST00000395184"	""	9	"."	7	2	"."	0	"ARHGAP24,intron_variant,,ENST00000395184,NM_001025616.2,NM_001287805.1;ARHGAP24,intron_variant,,ENST00000503995,;ARHGAP24,intron_variant,,ENST00000512201,;ARHGAP24,intron_variant,,ENST00000506421,;ARHGAP24,intron_variant,,ENST00000509709,;"	"-"	"ENSG00000138639"	"ENST00000395184"	"Transcript"	"intron_variant"	"-/4661"	"-/2247"	"-/748"	""	""	"rs11305280"	"1"	NA	1	"ARHGAP24"	"HGNC"	25361	"protein_coding"	"YES"	"CCDS34025.1"	"ENSP00000378611"	"Q8N264"	"D6RHH1,B3KUX7"	"UPI00001AF1D9"	"NM_001025616.2,NM_001287805.1"	NA	NA	""	"2/9"	""	"A:0.0629"	"-:0.9856"	"-:0.9193"	NA	"-:0.9712"	"-:0.9135"	"-:0.8732"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGAA"	"3f2d323e-2764-11e6-b33c-1287424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	FALSE
"1975"	"SPARCL1"	8404	"mskcc.org"	"GRCh37"	"4"	88413104	88413110	"+"	"Intron"	"DEL"	"CCCCAAA"	"CCCCAAA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CCCCAAA"	"CCCCAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1219-268_1219-262delTTTGGGG"	""	""	"ENST00000418378"	""	20	"."	4	16	"."	0	"SPARCL1,intron_variant,,ENST00000418378,NM_001128310.1;SPARCL1,intron_variant,,ENST00000282470,NM_004684.4;SPARCL1,intron_variant,,ENST00000503414,;SPARCL1,downstream_gene_variant,,ENST00000434434,;SPARCL1,downstream_gene_variant,,ENST00000541496,;SPARCL1,downstream_gene_variant,,ENST00000512317,;SPARCL1,downstream_gene_variant,,ENST00000509407,;SPARCL1,downstream_gene_variant,,ENST00000543631,;SPARCL1,downstream_gene_variant,,ENST00000458304,;SPARCL1,downstream_gene_variant,,ENST00000535835,;"	"-"	"ENSG00000152583"	"ENST00000418378"	"Transcript"	"intron_variant"	"-/2994"	"-/1995"	"-/664"	""	""	""	"1"	NA	-1	"SPARCL1"	"HGNC"	11220	"protein_coding"	"YES"	"CCDS3622.1"	"ENSP00000414856"	"Q14515"	"F5H4Y3,F5H331,E9PC64,E7EU82,D6RA29,C9JJR8,B4E2Z0"	"UPI000013DCE3"	"NM_001128310.1"	NA	NA	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCCCCAAAA"	"3fa1865c-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"1976"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	88839858	88839860	"+"	"IGR"	"DEL"	"AGG"	"AGG"	"-"	"rs137990764"	NA	"JHCCPT1"	"JHCCPN1"	"AGG"	"AGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"."	4	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs137990764"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AGG:0.3389"	"-:0.5416"	"-:0.7161"	NA	"-:0.6825"	"-:0.67"	"-:0.7526"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAGGA"	"3ffd5b12-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"1977"	"ABCG2"	9429	"mskcc.org"	"GRCh37"	"4"	89080716	89080717	"+"	"5'Flank"	"INS"	"-"	"-"	"GTGA"	"rs4148162"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000237612"	""	12	"."	4	3	"."	0	"ABCG2,intron_variant,,ENST00000515655,NM_001257386.1;ABCG2,upstream_gene_variant,,ENST00000237612,NM_004827.2;ABCG2,upstream_gene_variant,,ENST00000505480,;ABCG2,upstream_gene_variant,,ENST00000503830,;RP11-147K6.1,upstream_gene_variant,,ENST00000471148,;"	"GTGA"	"ENSG00000118777"	"ENST00000237612"	"Transcript"	"upstream_gene_variant"	"-/4479"	"-/1968"	"-/655"	""	""	"rs4148162"	"1"	"652"	-1	"ABCG2"	"HGNC"	74	"protein_coding"	"YES"	"CCDS3628.1"	"ENSP00000237612"	"Q9UNQ0"	"F8S0F2"	"UPI0000001275"	"NM_004827.2"	NA	NA	""	""	""	"GTGA:0.4211"	"GTGA:0.1989"	"GTGA:0.5072"	NA	"GTGA:0.631"	"GTGA:0.3956"	"GTGA:0.4703"	""	""	NA	NA	"24598718"	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"5cedaf6a-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"1978"	"FAM13A-AS1"	285512	"mskcc.org"	"GRCh37"	"4"	89640785	89640796	"+"	"Intron"	"DEL"	"TCTTCTCCTTCT"	"TCTTCTCCTTCT"	"CTCCTTCTTC"	"rs756912146"	NA	"JHCCPT1"	"JHCCPN1"	"TCTTCTCCTTCT"	"TCTTCTCCTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.641-2517_641-2506delTCTTCTCCTTCTinsCTCCTTCTTC"	""	""	"ENST00000500765"	""	21	"."	5	5	"."	0	"FAM13A-AS1,intron_variant,,ENST00000500765,;FAM13A-AS1,upstream_gene_variant,,ENST00000511543,;"	"CTCCTTCTTC"	"ENSG00000248019"	"ENST00000500765"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3210"	""	""	""	""	"rs756912146"	"1"	NA	1	"FAM13A-AS1"	"HGNC"	19370	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCTTCTCCTTCTT"	"50619482-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WXS"	FALSE
"1979"	"SNCA"	6622	"mskcc.org"	"GRCh37"	"4"	90742476	90742477	"+"	"Intron"	"INS"	"-"	"-"	"AAAGAAAGAAAGGAAAGAAAGT"	"rs142125351"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.306+920_306+921insACTTTCTTTCCTTTCTTTCTTT"	""	""	"ENST00000394986"	""	13	"."	4	10	"."	0	"SNCA,intron_variant,,ENST00000394989,;SNCA,intron_variant,,ENST00000420646,NM_007308.2,NM_001146054.1;SNCA,intron_variant,,ENST00000394986,;SNCA,intron_variant,,ENST00000394991,NM_000345.3;SNCA,intron_variant,,ENST00000345009,;SNCA,intron_variant,,ENST00000336904,NM_001146055.1;SNCA,intron_variant,,ENST00000508895,;SNCA,intron_variant,,ENST00000506244,;SNCA,intron_variant,,ENST00000505199,;SNCA,downstream_gene_variant,,ENST00000502987,;SNCA,downstream_gene_variant,,ENST00000506691,;"	"AAAGAAAGAAAGGAAAGAAAGT"	"ENSG00000145335"	"ENST00000394986"	"Transcript"	"intron_variant"	"-/1420"	"-/423"	"-/140"	""	""	"rs142125351"	"1"	NA	-1	"SNCA"	"HGNC"	11138	"protein_coding"	"YES"	"CCDS3634.1"	"ENSP00000378437"	"P37840"	"Q4W5L2,F6L6N6,D6RA31"	"UPI000003173B"	""	NA	NA	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAA"	"5d27d92e-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"1980"	"CCSER1"	401145	"mskcc.org"	"GRCh37"	"4"	91800656	91800696	"+"	"Intron"	"DEL"	"AAGAAGAAGAAGAGGAAGAGGAAGAGGAAGAAGAAGAAAGA"	"AAGAAGAAGAAGAGGAAGAGGAAGAGGAAGAAGAAGAAAGA"	"GAAGAGGAAGAGGAAGAGGAAGAGGAAGAAGAAGA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AAGAAGAAGAAGAGGAAGAGGAAGAGGAAGAAGAAGAAAGA"	"AAGAAGAAGAAGAGGAAGAGGAAGAGGAAGAAGAAGAAAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2095-43865_2095-43829delAAGAAGAAGAAGAGGAAGAGGAAGAGGAAGAAGAAGAinsGAAGAGGAAGAGGAAGAGGAAGAGGAAGAAG"	""	""	"ENST00000509176"	""	29	"."	3	12	"."	0	"CCSER1,intron_variant,,ENST00000509176,NM_001145065.1;CCSER1,intron_variant,,ENST00000333691,;CCSER1,intron_variant,,ENST00000503421,;CCSER1,intron_variant,,ENST00000515693,;CCSER1,intron_variant,,ENST00000505073,;CCSER1,intron_variant,,ENST00000509109,;CCSER1,intron_variant,,ENST00000513522,;"	"GAAGAGGAAGAGGAAGAGGAAGAGGAAGAAG"	"ENSG00000184305"	"ENST00000509176"	"Transcript"	"intron_variant"	"-/5847"	"-/2703"	"-/900"	""	""	""	"1"	NA	1	"CCSER1"	"HGNC"	29349	"protein_coding"	"YES"	"CCDS47099.1"	"ENSP00000425040"	"Q9C0I3"	""	"UPI00005A6104"	"NM_001145065.1"	NA	NA	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGAAGAAGAAGAAGAGGAAGAGGAAGAGGAAGAAGAAGAAAGAA"	"50691496-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WXS"	FALSE
"1981"	"ENSR00001757127"	0	"mskcc.org"	"GRCh37"	"4"	95649189	95649189	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs35191953"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001757127"	""	9	"."	6	1	"."	0	""	"-"	""	"ENSR00001757127"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs35191953"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.2190"	"-:0.9879"	"-:0.6916"	NA	"-:0.6647"	"-:0.8012"	"-:0.6636"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"4123e466-2764-11e6-b33c-1287424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1982"	"ADH1C"	126	"mskcc.org"	"GRCh37"	"4"	100268753	100268754	"+"	"Intron"	"INS"	"-"	"-"	"ATTTAT"	"rs34736030"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.120+143_120+148dupATAAAT"	""	""	"ENST00000515683"	""	16	"."	5	3	"."	0	"ADH1C,intron_variant,,ENST00000510055,;ADH1C,intron_variant,,ENST00000511397,;ADH1C,intron_variant,,ENST00000505942,;ADH1C,intron_variant,,ENST00000515683,NM_000669.3;"	"ATTTAT"	"ENSG00000248144"	"ENST00000515683"	"Transcript"	"intron_variant"	"-/1740"	"-/1128"	"-/375"	""	""	"rs34736030"	"1"	NA	-1	"ADH1C"	"HGNC"	251	"polymorphic_pseudogene"	"YES"	""	"ENSP00000426083"	""	""	""	"NM_000669.3"	NA	NA	""	"2/8"	""	"ATTTAT:0.2147"	"ATTTAT:0.0998"	"ATTTAT:0.2709"	NA	"ATTTAT:0.0764"	"ATTTAT:0.4056"	"ATTTAT:0.2761"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"5dd029c6-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"1983"	"MTTP"	4547	"mskcc.org"	"GRCh37"	"4"	100502779	100502779	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs112469528"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.62-275delA"	""	""	"ENST00000457717"	""	6	"."	3	1	"."	0	"MTTP,intron_variant,,ENST00000457717,NM_000253.2;MTTP,intron_variant,,ENST00000265517,;MTTP,intron_variant,,ENST00000511045,;MTTP,intron_variant,,ENST00000422897,;MTTP,intron_variant,,ENST00000506883,;MTTP,intron_variant,,ENST00000515141,;MTTP,intron_variant,,ENST00000513404,;MTTP,intron_variant,,ENST00000505094,;MTTP,intron_variant,,ENST00000511610,;MTTP,intron_variant,,ENST00000505142,;"	"-"	"ENSG00000138823"	"ENST00000457717"	"Transcript"	"intron_variant"	"-/4092"	"-/2685"	"-/894"	""	""	"rs112469528"	"1"	NA	1	"MTTP"	"HGNC"	7467	"protein_coding"	"YES"	"CCDS3651.1"	"ENSP00000400821"	"P55157"	""	"UPI000012F826"	"NM_000253.2"	NA	NA	""	"2/18"	""	"-:0.2524"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAA"	"41aab2f2-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1984"	"DAPP1"	27071	"mskcc.org"	"GRCh37"	"4"	100760354	100760355	"+"	"Intron"	"INS"	"-"	"-"	"GGTGGA"	"rs142338950"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.225-1080_225-1075dupAGGTGG"	""	""	"ENST00000512369"	""	6	"."	4	1	"."	0	"DAPP1,intron_variant,,ENST00000296414,;DAPP1,intron_variant,,ENST00000512369,NM_014395.2;DAPP1,intron_variant,,ENST00000507994,;"	"GGTGGA"	"ENSG00000070190"	"ENST00000512369"	"Transcript"	"intron_variant"	"-/1440"	"-/843"	"-/280"	""	""	"rs142338950"	"1"	NA	1	"DAPP1"	"HGNC"	16500	"protein_coding"	"YES"	"CCDS47112.1"	"ENSP00000423602"	"Q9UN19"	""	"UPI0000037612"	"NM_014395.2"	NA	NA	""	"2/8"	""	"GGTGGA:0.2945"	"GGTGGA:0.4561"	"GGTGGA:0.2709"	NA	"GGTGGA:0.1508"	"GGTGGA:0.3062"	"GGTGGA:0.229"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"17"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"5df641d8-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"1985"	"DAPP1"	27071	"mskcc.org"	"GRCh37"	"4"	100783884	100783958	"+"	"Intron"	"DEL"	"TGAGCTTAATGCATGAAATTAATTTTTATAGATATTTTGAAACTTTTTTCTCAGAAATGACACAAAAGAATTTTT"	"TGAGCTTAATGCATGAAATTAATTTTTATAGATATTTTGAAACTTTTTTCTCAGAAATGACACAAAAGAATTTTT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TGAGCTTAATGCATGAAATTAATTTTTATAGATATTTTGAAACTTTTTTCTCAGAAATGACACAAAAGAATTTTT"	"TGAGCTTAATGCATGAAATTAATTTTTATAGATATTTTGAAACTTTTTTCTCAGAAATGACACAAAAGAATTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.538-262_538-188delATTTTTATAGATATTTTGAAACTTTTTTCTCAGAAATGACACAAAAGAATTTTTTGAGCTTAATGCATGAAATTA"	""	""	"ENST00000512369"	""	11	"."	6	2	"."	0	"DAPP1,intron_variant,,ENST00000296414,;DAPP1,intron_variant,,ENST00000512369,NM_014395.2;DAPP1,intron_variant,,ENST00000507994,;DAPP1,upstream_gene_variant,,ENST00000514301,;"	"-"	"ENSG00000070190"	"ENST00000512369"	"Transcript"	"intron_variant"	"-/1440"	"-/843"	"-/280"	""	""	""	"1"	NA	1	"DAPP1"	"HGNC"	16500	"protein_coding"	"YES"	"CCDS47112.1"	"ENSP00000423602"	"Q9UN19"	""	"UPI0000037612"	"NM_014395.2"	NA	NA	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"21"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATGAGCTTAATGCATGAAATTAATTTTTATAGATATTTTGAAACTTTTTTCTCAGAAATGACACAAAAGAATTTTTT"	"41bfc8f4-2764-11e6-b33c-1287424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"1986"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	103546589	103546592	"+"	"IGR"	"DEL"	"TCTT"	"TCTT"	"-"	"rs142069134"	NA	"JHCCPT1"	"JHCCPN1"	"TCTT"	"TCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142069134"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0419"	"-:0.0015"	"-:0.0317"	NA	"-:0.0823"	"-:0.0606"	"-:0.0429"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTTT"	"42377b9c-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"1987"	"UBE2D3"	7323	"mskcc.org"	"GRCh37"	"4"	103748875	103748876	"+"	"Intron"	"INS"	"-"	"CTC"	"CTC"	"rs34654981"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.31-17864_31-17863insGAG"	""	""	"ENST00000357194"	""	10	"."	7	1	"."	0	"UBE2D3,5_prime_UTR_variant,,ENST00000453744,NM_181891.2;UBE2D3,5_prime_UTR_variant,,ENST00000394804,NM_181886.3;UBE2D3,5_prime_UTR_variant,,ENST00000394801,NM_003340.6,NM_181888.3;UBE2D3,5_prime_UTR_variant,,ENST00000502690,;UBE2D3,intron_variant,,ENST00000394803,NM_181889.2;UBE2D3,intron_variant,,ENST00000338145,NM_181890.2;UBE2D3,intron_variant,,ENST00000349311,;UBE2D3,intron_variant,,ENST00000357194,NM_181893.2;UBE2D3,intron_variant,,ENST00000508249,;UBE2D3,intron_variant,,ENST00000508238,;UBE2D3,upstream_gene_variant,,ENST00000343106,NM_181892.3;UBE2D3,upstream_gene_variant,,ENST00000321805,NM_181887.2;UBE2D3,upstream_gene_variant,,ENST00000350435,;UBE2D3,upstream_gene_variant,,ENST00000508476,;UBE2D3,upstream_gene_variant,,ENST00000504211,;UBE2D3,upstream_gene_variant,,ENST00000507845,;UBE2D3,upstream_gene_variant,,ENST00000502404,;UBE2D3,upstream_gene_variant,,ENST00000505207,;RP11-10L12.4,upstream_gene_variant,,ENST00000501133,;UBE2D3,upstream_gene_variant,,ENST00000513098,;UBE2D3,5_prime_UTR_variant,,ENST00000503418,;UBE2D3,intron_variant,,ENST00000514755,;UBE2D3,intron_variant,,ENST00000508818,;UBE2D3,upstream_gene_variant,,ENST00000503742,;UBE2D3,upstream_gene_variant,,ENST00000505307,;UBE2D3,upstream_gene_variant,,ENST00000502563,;UBE2D3,upstream_gene_variant,,ENST00000508635,;UBE2D3,upstream_gene_variant,,ENST00000503282,;UBE2D3,upstream_gene_variant,,ENST00000510129,;UBE2D3,upstream_gene_variant,,ENST00000508974,;"	"CTC"	"ENSG00000109332"	"ENST00000357194"	"Transcript"	"intron_variant"	"-/660"	"-/450"	"-/149"	""	""	"rs34654981"	"1"	NA	-1	"UBE2D3"	"HGNC"	12476	"protein_coding"	"YES"	"CCDS3659.1"	"ENSP00000349722"	"P61077"	"D6RFM0,D6RAW0,D6RAH7"	"UPI00001B31EA"	"NM_181893.2"	NA	NA	""	"1/6"	""	"-:0.4411"	"CTC:0.7716"	"CTC:0.5303"	NA	"CTC:0.4841"	"CTC:0.4652"	"CTC:0.4652"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"5e88f01e-2764-11e6-b33c-1287424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"1988"	"AC004053.1"	101929468	"mskcc.org"	"GRCh37"	"4"	105523187	105523199	"+"	"Intron"	"DEL"	"CTTTCTTTCTTTT"	"CTTTCTTTCTTTT"	"-"	"rs141631525"	NA	"JHCCPT1"	"JHCCPN1"	"CTTTCTTTCTTTT"	"CTTTCTTTCTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.97-40961_97-40949delTCTTTTCTTTCTT"	""	""	"ENST00000500179"	""	16	"."	4	4	"."	0	"AC004053.1,intron_variant,,ENST00000500179,;"	"-"	"ENSG00000245384"	"ENST00000500179"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2968"	""	""	""	""	"rs141631525"	"1"	NA	1	"AC004053.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"20"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTTCTTTCTTTTC"	"42a08d80-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"1989"	"PAPSS1"	9061	"mskcc.org"	"GRCh37"	"4"	108577671	108577672	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs58386912"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.895+380dupT"	""	""	"ENST00000265174"	""	10	"."	5	5	"."	0	"PAPSS1,intron_variant,,ENST00000265174,NM_005443.4;PAPSS1,intron_variant,,ENST00000511304,;PAPSS1,downstream_gene_variant,,ENST00000502431,;"	"A"	"ENSG00000138801"	"ENST00000265174"	"Transcript"	"intron_variant"	"-/2731"	"-/1875"	"-/624"	""	""	"rs58386912"	"1"	NA	-1	"PAPSS1"	"HGNC"	8603	"protein_coding"	"YES"	"CCDS3676.1"	"ENSP00000265174"	"O43252"	"Q6IAX6,Q4W5H3,Q4W5F0"	"UPI0000132102"	"NM_005443.4"	NA	NA	""	"7/11"	""	"A:0.2328"	"A:0.1929"	"A:0.255"	NA	"A:0.3522"	"A:0.2256"	"A:0.1554"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"5eda05b2-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1990"	"SGMS2"	166929	"mskcc.org"	"GRCh37"	"4"	108815348	108815349	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs60526603"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-244-1114dupG"	""	""	"ENST00000394684"	""	11	"."	5	1	"."	0	"SGMS2,intron_variant,,ENST00000394684,NM_001136258.1;SGMS2,intron_variant,,ENST00000394686,NM_152621.5;SGMS2,intron_variant,,ENST00000359079,NM_001136257.1;SGMS2,intron_variant,,ENST00000506993,;SGMS2,intron_variant,,ENST00000503862,;SGMS2,upstream_gene_variant,,ENST00000503385,;RP11-286E11.1,intron_variant,,ENST00000499098,;RP11-286E11.1,intron_variant,,ENST00000513071,;SGMS2,intron_variant,,ENST00000506462,;SGMS2,intron_variant,,ENST00000515332,;"	"G"	"ENSG00000164023"	"ENST00000394684"	"Transcript"	"intron_variant"	"-/6149"	"-/1098"	"-/365"	""	""	"rs60526603"	"1"	NA	1	"SGMS2"	"HGNC"	28395	"protein_coding"	"YES"	"CCDS3677.1"	"ENSP00000378176"	"Q8NHU3"	"E5RJU3,E5RJ63,E5RGG5"	"UPI000000D9A6"	"NM_001136258.1"	NA	NA	""	"2/6"	""	"-:0.2690"	"G:0.643"	"G:0.6715"	NA	"G:0.9702"	"G:0.5905"	"G:0.7904"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"5ede3e48-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"1991"	"CFI"	3426	"mskcc.org"	"GRCh37"	"4"	110723490	110723491	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"rs3840506"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000394634"	""	7	"."	3	2	"."	0	"CFI,upstream_gene_variant,,ENST00000394634,NM_000204.3;CFI,upstream_gene_variant,,ENST00000394635,;CFI,upstream_gene_variant,,ENST00000512148,;CFI,upstream_gene_variant,,ENST00000510800,;"	"T"	"ENSG00000205403"	"ENST00000394634"	"Transcript"	"upstream_gene_variant"	"-/2157"	"-/1752"	"-/583"	""	""	"rs3840506"	"1"	"155"	-1	"CFI"	"HGNC"	5394	"protein_coding"	"YES"	"CCDS34049.1"	"ENSP00000378130"	"P05156"	"Q6LAM0,D6R9Z8"	"UPI0000D615A9"	"NM_000204.3"	NA	NA	""	""	""	"T:0.1000"	"T:0.1551"	"T:0.0403"	NA	"T:0.1815"	"T:0.0159"	"T:0.0706"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAA"	"5f426454-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1992"	"EGF"	1950	"mskcc.org"	"GRCh37"	"4"	110889829	110889830	"+"	"Intron"	"INS"	"-"	"-"	"ATCTATCTATCT"	"rs373493222"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1576-272_1576-261dupTCTATCTATCTA"	""	""	"ENST00000265171"	""	29	"."	4	8	"."	0	"EGF,intron_variant,,ENST00000265171,NM_001963.4,NM_001178130.1;EGF,intron_variant,,ENST00000509793,NM_001178131.1;EGF,intron_variant,,ENST00000503392,;EGF,upstream_gene_variant,,ENST00000502579,;"	"ATCTATCTATCT"	"ENSG00000138798"	"ENST00000265171"	"Transcript"	"intron_variant"	"-/4880"	"-/3624"	"-/1207"	""	""	"rs373493222"	"1"	NA	1	"EGF"	"HGNC"	3229	"protein_coding"	"YES"	"CCDS3689.1"	"ENSP00000265171"	"P01133"	"Q6QBS2"	"UPI000013D5C8"	"NM_001963.4,NM_001178130.1"	NA	NA	""	"10/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"37"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"5f47769c-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WXS"	FALSE
"1993"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	112597151	112597152	"+"	"IGR"	"DEL"	"CT"	"-"	"-"	"rs10565201"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	6	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10565201"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CT:0.0775"	"-:0.829"	"-:0.9236"	NA	"-:0.9028"	"-:0.997"	"-:0.9918"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCTG"	"43bb7112-2764-11e6-b33c-1287424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"1994"	"ANK2"	287	"mskcc.org"	"GRCh37"	"4"	114135112	114135113	"+"	"Intron"	"INS"	"-"	"-"	"TTA"	"rs10682641"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.384+14849_384+14850insATT"	""	""	"ENST00000357077"	""	14	"."	3	4	"."	0	"ANK2,intron_variant,,ENST00000357077,NM_001148.4;ANK2,intron_variant,,ENST00000264366,;ANK2,intron_variant,,ENST00000506722,NM_001127493.1;ANK2,intron_variant,,ENST00000394537,NM_020977.3;ANK2,intron_variant,,ENST00000504454,;ANK2,intron_variant,,ENST00000503423,;ANK2,intron_variant,,ENST00000503271,;ANK2,intron_variant,,ENST00000508613,;ANK2,intron_variant,,ENST00000515034,;AC004057.1,downstream_gene_variant,,ENST00000356247,;AC004057.1,downstream_gene_variant,,ENST00000539199,;AC004057.1,downstream_gene_variant,,ENST00000485827,;"	"TTA"	"ENSG00000145362"	"ENST00000357077"	"Transcript"	"intron_variant"	"-/14196"	"-/11874"	"-/3957"	""	""	"rs10682641"	"1"	NA	1	"ANK2"	"HGNC"	493	"protein_coding"	"YES"	"CCDS3702.1"	"ENSP00000349588"	"Q01484"	"D6RHC5"	"UPI0000441EF3"	"NM_001148.4"	NA	NA	""	"4/45"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"5fab6aa8-2764-11e6-b33c-1287424a729f"	"140"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"1995"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	115656566	115656566	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs35154935"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35154935"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3572"	"-:0.09"	"-:0.4179"	NA	"-:0.2847"	"-:0.674"	"-:0.4243"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACC"	"446f5eac-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1996"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	118046762	118046763	"+"	"IGR"	"DEL"	"CT"	"CT"	"-"	"rs33986444"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs33986444"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CT:0.4958"	"-:0.4274"	"-:0.5144"	NA	"-:0.6081"	"-:0.4165"	"-:0.5838"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCTG"	"4478519c-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"1997"	"AC092661.1"	0	"mskcc.org"	"GRCh37"	"4"	118494161	118494162	"+"	"Intron"	"INS"	"-"	"-"	"GAAG"	"rs3051623"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.160-81798_160-81797insGGAA"	""	""	"ENST00000422145"	""	13	"."	6	3	"."	0	"AC092661.1,intron_variant,,ENST00000422145,;AC092661.1,intron_variant,,ENST00000600624,;AC092661.1,intron_variant,,ENST00000608048,;NT5C3AP1,downstream_gene_variant,,ENST00000441170,;NT5C3AP1,downstream_gene_variant,,ENST00000394500,;"	"GAAG"	"ENSG00000236922"	"ENST00000422145"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2516"	""	""	""	""	"rs3051623"	"1"	NA	1	"AC092661.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	"GAAG:0.3838"	"GAAG:0.1543"	"GAAG:0.5562"	NA	"GAAG:0.5903"	"GAAG:0.3966"	"GAAG:0.3456"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"5febd5a2-2764-11e6-b33c-1287424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"1998"	"USP53"	54532	"mskcc.org"	"GRCh37"	"4"	120192085	120192088	"+"	"Intron"	"DEL"	"TGTT"	"TGTT"	"-"	"rs35009727"	NA	"JHCCPT1"	"JHCCPN1"	"TGTT"	"TGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1436-362_1436-359delTGTT"	""	""	"ENST00000450251"	""	7	"."	3	3	"."	0	"USP53,intron_variant,,ENST00000450251,;USP53,intron_variant,,ENST00000274030,NM_019050.2;USP53,intron_variant,,ENST00000509769,;USP53,intron_variant,,ENST00000510852,;USP53,intron_variant,,ENST00000507906,;"	"-"	"ENSG00000145390"	"ENST00000450251"	"Transcript"	"intron_variant"	"-/6072"	"-/3222"	"-/1073"	""	""	"rs35009727"	"1"	NA	1	"USP53"	"HGNC"	29255	"protein_coding"	"YES"	"CCDS43265.1"	"ENSP00000409906"	"Q70EK8"	""	"UPI0000251D9D"	""	NA	NA	""	"11/14"	""	"-:0.2374"	"-:0.0673"	"-:0.3372"	NA	"-:0.2629"	"-:0.2714"	"-:0.3354"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGTTT"	"44c8a9bc-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"1999"	"RP11-679C8.2"	0	"mskcc.org"	"GRCh37"	"4"	121288825	121288826	"+"	"Intron"	"INS"	"-"	"-"	"GAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.287-25827_287-25789dupAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGA"	""	""	"ENST00000508362"	""	37	"."	3	11	"."	0	"RP11-679C8.2,intron_variant,,ENST00000508362,;RP11-679C8.2,intron_variant,,ENST00000504106,;"	"GAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAA"	"ENSG00000250938"	"ENST00000508362"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/558"	""	""	""	""	""	"1"	NA	1	"RP11-679C8.2"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"41"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"60965aae-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WXS"	FALSE
"2000"	"PRDM5"	11107	"mskcc.org"	"GRCh37"	"4"	121615886	121615893	"+"	"3'UTR"	"DEL"	"ACAGACAC"	"ACAGACAC"	"-"	"rs145127241"	NA	"JHCCPT1"	"JHCCPN1"	"ACAGACAC"	"ACAGACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*373_*380delGTGTCTGT"	""	""	"ENST00000264808"	"16/16"	19	"."	5	6	"."	0	"PRDM5,3_prime_UTR_variant,,ENST00000264808,NM_018699.2;PRDM5,downstream_gene_variant,,ENST00000428209,;PRDM5,downstream_gene_variant,,ENST00000515109,;PRDM5,intron_variant,,ENST00000513741,;PRDM5,downstream_gene_variant,,ENST00000506065,;PRDM5,downstream_gene_variant,,ENST00000505484,;"	"-"	"ENSG00000138738"	"ENST00000264808"	"Transcript"	"3_prime_UTR_variant"	"2507-2514/5330"	"-/1893"	"-/630"	""	""	"rs145127241"	"1"	NA	-1	"PRDM5"	"HGNC"	9349	"protein_coding"	"YES"	"CCDS3716.1"	"ENSP00000264808"	"Q9NQX1"	""	"UPI000013D572"	"NM_018699.2"	NA	NA	"16/16"	""	""	"-:0.0867"	"-:0.0068"	"-:0.1153"	NA	"-:0.0853"	"-:0.2048"	"-:0.0542"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATACAGACACA"	"452119a8-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"2001"	"PRDM5"	11107	"mskcc.org"	"GRCh37"	"4"	121732339	121732340	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs5861493"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.945+185dupA"	""	""	"ENST00000264808"	""	27	"."	12	5	"."	0	"PRDM5,intron_variant,,ENST00000264808,NM_018699.2;PRDM5,intron_variant,,ENST00000428209,;PRDM5,intron_variant,,ENST00000515109,;RNU6-550P,downstream_gene_variant,,ENST00000391057,;PRDM5,intron_variant,,ENST00000505484,;PRDM5,intron_variant,,ENST00000502409,;PRDM5,intron_variant,,ENST00000503661,;PRDM5,downstream_gene_variant,,ENST00000512845,;"	"T"	"ENSG00000138738"	"ENST00000264808"	"Transcript"	"intron_variant"	"-/5330"	"-/1893"	"-/630"	""	""	"rs5861493"	"1"	NA	-1	"PRDM5"	"HGNC"	9349	"protein_coding"	"YES"	"CCDS3716.1"	"ENSP00000264808"	"Q9NQX1"	""	"UPI000013D572"	"NM_018699.2"	NA	NA	""	"8/15"	""	"T:0.3586"	"T:0.4561"	"T:0.4352"	NA	"T:0.3512"	"T:0.3539"	"T:0.1851"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"60a9d20a-2764-11e6-b33c-1287424a729f"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2002"	"KIAA1109"	84162	"mskcc.org"	"GRCh37"	"4"	123191801	123191802	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11409282"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7494-365dupG"	""	""	"ENST00000264501"	""	12	"."	6	3	"."	0	"KIAA1109,intron_variant,,ENST00000264501,;KIAA1109,intron_variant,,ENST00000388738,NM_015312.3;KIAA1109,intron_variant,,ENST00000455637,;KIAA1109,intron_variant,,ENST00000419325,;KIAA1109,intron_variant,,ENST00000446180,;"	"G"	"ENSG00000138688"	"ENST00000264501"	"Transcript"	"intron_variant"	"-/15896"	"-/15018"	"-/5005"	""	""	"rs11409282"	"1"	NA	1	"KIAA1109"	"HGNC"	26953	"protein_coding"	"YES"	"CCDS43267.1"	"ENSP00000264501"	"Q2LD37"	"B3KN93"	"UPI0000DD87B4"	""	NA	NA	""	"46/85"	""	"G:0.2738"	"G:0.0552"	"G:0.3012"	NA	"G:0.3552"	"G:0.2873"	"G:0.4519"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"60eeb802-2764-11e6-b33c-1287424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2003"	"KIAA1109"	84162	"mskcc.org"	"GRCh37"	"4"	123249012	123249013	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs58986527"	NA	"JHCCPT1"	"JHCCPN1"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.10996-243_10996-242delAT"	""	""	"ENST00000264501"	""	6	"."	4	1	"."	0	"KIAA1109,intron_variant,,ENST00000264501,;KIAA1109,intron_variant,,ENST00000388738,NM_015312.3;KIAA1109,intron_variant,,ENST00000438707,;KIAA1109,intron_variant,,ENST00000306802,;KIAA1109,downstream_gene_variant,,ENST00000455637,;KIAA1109,downstream_gene_variant,,ENST00000419325,;KIAA1109,upstream_gene_variant,,ENST00000480651,;"	"-"	"ENSG00000138688"	"ENST00000264501"	"Transcript"	"intron_variant"	"-/15896"	"-/15018"	"-/5005"	""	""	"rs58986527"	"1"	NA	1	"KIAA1109"	"HGNC"	26953	"protein_coding"	"YES"	"CCDS43267.1"	"ENSP00000264501"	"Q2LD37"	"B3KN93"	"UPI0000DD87B4"	""	NA	NA	""	"65/85"	""	"-:0.3077"	"-:0.1331"	"-:0.3112"	NA	"-:0.3571"	"-:0.2992"	"-:0.499"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAATA"	"457bf5b2-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2004"	"FAT4"	79633	"mskcc.org"	"GRCh37"	"4"	126232710	126232710	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"rs55779689"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000394329"	""	6	"."	3	4	"."	0	"FAT4,upstream_gene_variant,,ENST00000394329,NM_024582.4;"	"-"	"ENSG00000196159"	"ENST00000394329"	"Transcript"	"upstream_gene_variant"	"-/16123"	"-/14946"	"-/4981"	""	""	"rs55779689"	"1"	"4844"	1	"FAT4"	"HGNC"	23109	"protein_coding"	"YES"	"CCDS3732.3"	"ENSP00000377862"	"Q6V0I7"	"B3KRB4"	"UPI000155D6E3"	"NM_024582.4"	NA	NA	""	""	""	"-:0.2262"	"-:0.1997"	"-:0.2061"	NA	"-:0.1151"	"-:0.3608"	"-:0.2526"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAGT"	"45cbfb2a-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	TRUE
"2005"	"RP11-18O11.2"	0	"mskcc.org"	"GRCh37"	"4"	128415066	128415067	"+"	"5'Flank"	"DEL"	"CA"	"CA"	"-"	"rs142609149"	NA	"JHCCPT1"	"JHCCPN1"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000504623"	""	16	"."	3	6	"."	0	"RP11-18O11.2,upstream_gene_variant,,ENST00000504623,;RP11-18O11.1,downstream_gene_variant,,ENST00000514125,;"	"-"	"ENSG00000249795"	"ENST00000504623"	"Transcript"	"upstream_gene_variant"	"-/481"	""	""	""	""	"rs142609149"	"1"	"4415"	1	"RP11-18O11.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCAA"	"45e499dc-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"2006"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	132517425	132517426	"+"	"IGR"	"INS"	"-"	"-"	"TCCT"	"rs138264898"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	23	"."	4	5	"."	0	""	"TCCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138264898"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"61593ad8-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"2007"	"LINC00616"	641365	"mskcc.org"	"GRCh37"	"4"	139000730	139000731	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs58238426"	NA	"JHCCPT1"	"JHCCPN1"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.870+11366_870+11367delTA"	""	""	"ENST00000514600"	""	11	"."	5	1	"."	0	"LINC00616,intron_variant,,ENST00000514600,;LINC00616,intron_variant,,ENST00000505874,;SLC7A11-AS1,intron_variant,,ENST00000510066,;"	"-"	"ENSG00000248307"	"ENST00000514600"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2017"	""	""	""	""	"rs58238426"	"1"	NA	-1	"LINC00616"	"HGNC"	44065	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTAT"	"46892bd2-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"2008"	"CCRN4L"	25819	"mskcc.org"	"GRCh37"	"4"	139965411	139965414	"+"	"Intron"	"DEL"	"AGTC"	"AGTC"	"-"	"rs3840278"	NA	"JHCCPT1"	"JHCCPN1"	"AGTC"	"AGTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.461-380_461-377delTCAG"	""	""	"ENST00000280614"	""	8	"."	3	1	"."	0	"CCRN4L,intron_variant,,ENST00000280614,NM_012118.3;ELF2,intron_variant,,ENST00000515489,;CCRN4L,intron_variant,,ENST00000515616,;"	"-"	"ENSG00000151014"	"ENST00000280614"	"Transcript"	"intron_variant"	"-/1767"	"-/1296"	"-/431"	""	""	"rs3840278"	"1"	NA	1	"CCRN4L"	"HGNC"	14254	"protein_coding"	"YES"	"CCDS3743.1"	"ENSP00000280614"	"Q9UK39"	""	"UPI000013DC2C"	"NM_012118.3"	NA	NA	""	"2/2"	""	"-:0.2770"	"-:0.3245"	"-:0.1744"	NA	"-:0.2093"	"-:0.2614"	"-:0.3712"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGTCA"	"4695dd78-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2009"	"ENSR00001250602"	0	"mskcc.org"	"GRCh37"	"4"	141710860	141710861	"+"	"IGR"	"INS"	"-"	"-"	"AAAAGAAAG"	"rs71584383"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001250602"	""	6	"."	3	1	"."	0	""	"AAAAGAAAG"	""	"ENSR00001250602"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs71584383"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1947"	"AAAAGAAAG:0.7678"	"AAAAGAAAG:0.8026"	NA	"AAAAGAAAG:0.9474"	"AAAAGAAAG:0.6402"	"AAAAGAAAG:0.8814"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"61e8173a-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2010"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	142264463	142264464	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs5862518"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	3	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5862518"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.3375"	"T:0.3472"	"T:0.2262"	NA	"T:0.3274"	"T:0.3807"	"T:0.3691"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"61f7d74c-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2011"	"INPP4B"	8821	"mskcc.org"	"GRCh37"	"4"	143465283	143465284	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTGTGT"	"rs55638202"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-289-76076_-289-76075insACACACACACA"	""	""	"ENST00000513000"	""	10	"."	3	1	"."	0	"INPP4B,intron_variant,,ENST00000513000,NM_003866.2;INPP4B,intron_variant,,ENST00000509777,;INPP4B,intron_variant,,ENST00000510812,;INPP4B,intron_variant,,ENST00000503927,;INPP4B,intron_variant,,ENST00000506788,;"	"TGTGTGTGTGT"	"ENSG00000109452"	"ENST00000513000"	"Transcript"	"intron_variant"	"-/8831"	"-/2775"	"-/924"	""	""	"rs55638202"	"1"	NA	-1	"INPP4B"	"HGNC"	6075	"protein_coding"	"YES"	"CCDS3757.1"	"ENSP00000425487"	"O15327"	"E9PCZ3,D6RJC3,D6RE59,D6R9J5"	"UPI000013D37A"	"NM_003866.2"	NA	NA	""	"2/26"	""	"-:0.0312"	"TGTGTGTGTGTGTGTGTGT:0.9123"	"TGTGTGTGTGTGTGTGTGT:0.9856"	NA	"TGTGTGTGTGTGTGTGTGT:0.9901"	"TGTGTGTGTGTGTGTGTGT:0.992"	"TGTGTGTGTGTGTGTGTGT:0.9877"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"62115a50-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"2012"	"USP38"	84640	"mskcc.org"	"GRCh37"	"4"	144133745	144133746	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11402432"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1604+173dupT"	""	""	"ENST00000307017"	""	13	"."	6	2	"."	0	"USP38,intron_variant,,ENST00000307017,NM_032557.5;USP38,intron_variant,,ENST00000510377,;USP38,intron_variant,,ENST00000511739,;"	"T"	"ENSG00000170185"	"ENST00000307017"	"Transcript"	"intron_variant"	"-/7009"	"-/3129"	"-/1042"	""	""	"rs11402432"	"1"	NA	1	"USP38"	"HGNC"	20067	"protein_coding"	"YES"	"CCDS3758.1"	"ENSP00000303434"	"Q8NB14"	"B3KSB9"	"UPI0000047AF9"	"NM_032557.5"	NA	NA	""	"8/9"	""	"-:0.3908"	"T:0.5439"	"T:0.6037"	NA	"T:0.8125"	"T:0.6014"	"T:0.5"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"621a7a54-2764-11e6-b33c-1287424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"2013"	"ZNF827"	152485	"mskcc.org"	"GRCh37"	"4"	146735758	146735759	"+"	"Intron"	"INS"	"-"	"-"	"AACA"	"rs111913584"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2383+8812_2383+8815dupTGTT"	""	""	"ENST00000379448"	""	9	"."	5	2	"."	0	"ZNF827,intron_variant,,ENST00000508784,;ZNF827,intron_variant,,ENST00000379448,NM_178835.3;ZNF827,intron_variant,,ENST00000513320,;"	"AACA"	"ENSG00000151612"	"ENST00000379448"	"Transcript"	"intron_variant"	"-/4197"	"-/3234"	"-/1077"	""	""	"rs111913584"	"1"	NA	-1	"ZNF827"	"HGNC"	27193	"protein_coding"	"YES"	"CCDS34072.1"	"ENSP00000368761"	"Q17R98"	""	"UPI000049DFF1"	"NM_178835.3"	NA	NA	""	"8/14"	""	"-:0.3227"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"6250396e-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"2014"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	146989030	146989030	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs68009731"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	3	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs68009731"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"48349a16-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"2015"	"NR3C2"	4306	"mskcc.org"	"GRCh37"	"4"	149333973	149333974	"+"	"Intron"	"INS"	"-"	"-"	"CACA"	"rs370759208"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1757+22279_1757+22282dupTGTG"	""	""	"ENST00000358102"	""	6	"."	4	1	"."	0	"NR3C2,intron_variant,,ENST00000355292,;NR3C2,intron_variant,,ENST00000358102,NM_001166104.1,NM_000901.4;NR3C2,intron_variant,,ENST00000344721,;NR3C2,intron_variant,,ENST00000512865,;NR3C2,intron_variant,,ENST00000511528,;NR3C2,intron_variant,,ENST00000342437,;"	"CACA"	"ENSG00000151623"	"ENST00000358102"	"Transcript"	"intron_variant"	"-/5893"	"-/2955"	"-/984"	""	""	"rs370759208"	"1"	NA	-1	"NR3C2"	"HGNC"	7979	"protein_coding"	"YES"	"CCDS3772.1"	"ENSP00000350815"	""	"Q4W5E8,B0ZBF6"	"UPI000013DC6D"	"NM_001166104.1,NM_000901.4"	NA	NA	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"6290001c-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2016"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	149632366	149632367	"+"	"IGR"	"INS"	"-"	"G"	"G"	"rs70962732"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	3	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs70962732"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"62926e9c-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2017"	"LRBA"	987	"mskcc.org"	"GRCh37"	"4"	151501447	151501448	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs70941416"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6363+7752dupA"	""	""	"ENST00000357115"	""	8	"."	6	1	"."	0	"LRBA,intron_variant,,ENST00000535741,;LRBA,intron_variant,,ENST00000510413,NM_001199282.2;LRBA,intron_variant,,ENST00000357115,NM_006726.4;LRBA,intron_variant,,ENST00000507224,;LRBA,intron_variant,,ENST00000509835,;MAB21L2,upstream_gene_variant,,ENST00000317605,NM_006439.4;RP11-1336O20.2,non_coding_transcript_exon_variant,,ENST00000507934,;LRBA,intron_variant,,ENST00000503716,;LRBA,intron_variant,,ENST00000513021,;"	"T"	"ENSG00000198589"	"ENST00000357115"	"Transcript"	"intron_variant"	"-/9899"	"-/8592"	"-/2863"	""	""	"rs70941416"	"1"	NA	-1	"LRBA"	"HGNC"	1742	"protein_coding"	"YES"	"CCDS3773.1"	"ENSP00000349629"	"P50851"	"Q7KZN3"	"UPI000013E35C"	"NM_006726.4"	NA	NA	""	"41/57"	""	"T:0.4273"	"T:0.2655"	"T:0.585"	NA	"T:0.4464"	"T:0.4851"	"T:0.455"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"62afeddc-2764-11e6-b33c-1287424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"2018"	"RPS3A"	8944	"mskcc.org"	"GRCh37"	"4"	152023629	152023630	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs68077379"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.355-391_355-390delGT"	""	""	"ENST00000274065"	""	10	"."	4	3	"."	0	"RPS3A,intron_variant,,ENST00000322686,;RPS3A,intron_variant,,ENST00000514682,;RPS3A,intron_variant,,ENST00000274065,NM_001006.4;RPS3A,intron_variant,,ENST00000506126,;RPS3A,intron_variant,,ENST00000512690,;RPS3A,intron_variant,,ENST00000510993,;RPS3A,intron_variant,,ENST00000512797,;RPS3A,intron_variant,,ENST00000507327,;RPS3A,intron_variant,,ENST00000515792,;RPS3A,intron_variant,,ENST00000505243,;RPS3A,intron_variant,,ENST00000508783,;RPS3A,intron_variant,,ENST00000509736,;RPS3A,downstream_gene_variant,,ENST00000503002,;SNORD73,downstream_gene_variant,,ENST00000364394,;SNORD73A,upstream_gene_variant,,ENST00000386062,NR_000007.1;SH3D19,downstream_gene_variant,,ENST00000604922,;RPS3A,intron_variant,,ENST00000507485,;RPS3A,intron_variant,,ENST00000515818,;"	"-"	"ENSG00000145425"	"ENST00000274065"	"Transcript"	"intron_variant"	"-/934"	"-/795"	"-/264"	""	""	"rs68077379"	"1"	NA	1	"RPS3A"	"HGNC"	10421	"protein_coding"	"YES"	"CCDS3775.1"	"ENSP00000346050"	"P61247"	"D6RGE0,D6RED7,D6RB09,D6RAT0,D6RAS7,D6R9B6"	"UPI000013D9EC"	"NM_001006.4"	NA	NA	""	"3/5"	""	"TG:0.2977"	"-:0.4962"	"-:0.8213"	NA	"-:0.7341"	"-:0.8986"	"-:0.6616"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATGT"	"48ec4314-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2019"	"FAM160A1"	729830	"mskcc.org"	"GRCh37"	"4"	152487829	152487830	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.105+325_105+326delCT"	""	""	"ENST00000435205"	""	34	"."	3	5	"."	0	"FAM160A1,intron_variant,,ENST00000435205,NM_001109977.1;FAM160A1,intron_variant,,ENST00000505231,;FAM160A1,intron_variant,,ENST00000503146,;FAM160A1,intron_variant,,ENST00000513962,;FAM160A1,intron_variant,,ENST00000512597,;FAM160A1,downstream_gene_variant,,ENST00000513086,;AC097455.1,upstream_gene_variant,,ENST00000408730,;FAM160A1,downstream_gene_variant,,ENST00000508198,;"	"-"	"ENSG00000164142"	"ENST00000435205"	"Transcript"	"intron_variant"	"-/4576"	"-/3123"	"-/1040"	""	""	""	"1"	NA	1	"FAM160A1"	"HGNC"	34237	"protein_coding"	"YES"	"CCDS47146.1"	"ENSP00000413196"	"Q05DH4"	"D6RF38,D6RBF5,D6RAG2"	"UPI00015DE720"	"NM_001109977.1"	NA	NA	""	"4/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"12"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTC"	"48fa57b0-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WXS"	FALSE
"2020"	"FAM160A1"	729830	"mskcc.org"	"GRCh37"	"4"	152508249	152508249	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35374212"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.891+299delT"	""	""	"ENST00000435205"	""	11	"."	3	4	"."	0	"FAM160A1,intron_variant,,ENST00000435205,NM_001109977.1;FAM160A1,intron_variant,,ENST00000505231,;"	"-"	"ENSG00000164142"	"ENST00000435205"	"Transcript"	"intron_variant"	"-/4576"	"-/3123"	"-/1040"	""	""	"rs35374212"	"1"	NA	1	"FAM160A1"	"HGNC"	34237	"protein_coding"	"YES"	"CCDS47146.1"	"ENSP00000413196"	"Q05DH4"	"D6RF38,D6RBF5,D6RAG2"	"UPI00015DE720"	"NM_001109977.1"	NA	NA	""	"6/13"	""	"-:0.2863"	"-:0.2935"	"-:0.3184"	NA	"-:0.1944"	"-:0.341"	"-:0.2924"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATT"	"48fccd38-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2021"	"MND1"	84057	"mskcc.org"	"GRCh37"	"4"	154318805	154318806	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11392102"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.466+330dupA"	""	""	"ENST00000240488"	""	11	"."	3	6	"."	0	"MND1,intron_variant,,ENST00000240488,NM_032117.3,NM_001253861.1;MND1,intron_variant,,ENST00000504860,;MND1,downstream_gene_variant,,ENST00000508731,;MND1,intron_variant,,ENST00000509752,;"	"A"	"ENSG00000121211"	"ENST00000240488"	"Transcript"	"intron_variant"	"-/968"	"-/618"	"-/205"	""	""	"rs11392102"	"1"	NA	1	"MND1"	"HGNC"	24839	"protein_coding"	"YES"	"CCDS3782.1"	"ENSP00000240488"	"Q9BWT6"	"D6RCT6"	"UPI000006EAB8"	"NM_032117.3,NM_001253861.1"	NA	NA	""	"6/7"	""	"G:0.0006"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"63366a7e-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2022"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	157913547	157913548	"+"	"IGR"	"INS"	"-"	"G"	"G"	"rs5863243"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	6	3	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5863243"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0262"	"G:0.9047"	"G:0.9942"	NA	"G:1"	"G:0.999"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"63b5f492-2764-11e6-b33c-1287424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"2023"	"RXFP1"	59350	"mskcc.org"	"GRCh37"	"4"	159548262	159548263	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs143595744"	NA	"JHCCPT1"	"JHCCPN1"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.827+220_827+221delTA"	""	""	"ENST00000307765"	""	13	"."	4	5	"."	0	"RXFP1,intron_variant,,ENST00000307765,NM_001253728.1,NM_001253730.1,NM_001253733.1,NM_001253732.1,NM_021634.3,NM_001253727.1;RXFP1,intron_variant,,ENST00000448688,;RXFP1,intron_variant,,ENST00000460056,;RXFP1,intron_variant,,ENST00000470033,;RXFP1,intron_variant,,ENST00000343542,NM_001253729.1;RXFP1,intron_variant,,ENST00000342048,;RXFP1,intron_variant,,ENST00000471616,;"	"-"	"ENSG00000171509"	"ENST00000307765"	"Transcript"	"intron_variant"	"-/3842"	"-/2274"	"-/757"	""	""	"rs143595744"	"1"	NA	1	"RXFP1"	"HGNC"	19718	"protein_coding"	"YES"	"CCDS43276.1"	"ENSP00000303248"	"Q9HBX9"	"Q4W5D9,E9PCA3"	"UPI000013EC4B"	"NM_001253728.1,NM_001253730.1,NM_001253733.1,NM_001253732.1,NM_021634.3,NM_001253727.1"	NA	NA	""	"10/17"	""	"-:0.2298"	"-:0.5113"	"-:0.2219"	NA	"-:0.0248"	"-:0.1292"	"-:0.1697"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAATA"	"4a5dfb2a-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"2024"	"RAPGEF2"	9693	"mskcc.org"	"GRCh37"	"4"	160236188	160236188	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.370+268delC"	""	""	"ENST00000264431"	""	58	"."	4	26	"."	0	"RAPGEF2,intron_variant,,ENST00000264431,NM_014247.2;RAPGEF2,intron_variant,,ENST00000514565,;RAPGEF2,intron_variant,,ENST00000511336,;RAPGEF2,intron_variant,,ENST00000510510,;RAPGEF2,downstream_gene_variant,,ENST00000505478,;RAPGEF2,intron_variant,,ENST00000504604,;"	"-"	"ENSG00000109756"	"ENST00000264431"	"Transcript"	"intron_variant"	"-/6949"	"-/4500"	"-/1499"	""	""	""	"1"	NA	1	"RAPGEF2"	"HGNC"	16854	"protein_coding"	"YES"	"CCDS43277.1"	"ENSP00000264431"	"Q9Y4G8"	"Q9UFT5,Q4W5Q4,Q17RH5,D6REY8,B4DG82"	"UPI0000033783"	"NM_014247.2"	NA	NA	""	"3/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACA"	"4aa30ad0-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WXS"	FALSE
"2025"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	160387485	160387489	"+"	"IGR"	"DEL"	"CCCTT"	"CCCTT"	"-"	"rs55889662"	NA	"JHCCPT1"	"JHCCPN1"	"CCCTT"	"CCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	30	"."	7	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs55889662"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCCCTTC"	"4ada9ef0-2764-11e6-b33c-1287424a729f"	"419"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WXS"	FALSE
"2026"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	160778717	160778718	"+"	"IGR"	"INS"	"-"	"-"	"TCT"	"rs3072860"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"TCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs3072860"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1268"	"TCT:0.829"	"TCT:0.9251"	NA	"TCT:0.8601"	"TCT:0.8907"	"TCT:0.8916"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"6412c802-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2027"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	163486045	163486048	"+"	"IGR"	"DEL"	"GAAG"	"GAAG"	"-"	"rs35849633"	NA	"JHCCPT1"	"JHCCPN1"	"GAAG"	"GAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35849633"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGAAGG"	"4b033fcc-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2028"	"MARCH1"	55016	"mskcc.org"	"GRCh37"	"4"	164449477	164449478	"+"	"3'UTR"	"INS"	"-"	"-"	"TTA"	"rs3832318"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*420_*422dupTAA"	""	""	"ENST00000503008"	"8/8"	7	"."	4	1	"."	0	"MARCH1,3_prime_UTR_variant,,ENST00000503008,NM_001166373.1;MARCH1,3_prime_UTR_variant,,ENST00000274056,;MARCH1,3_prime_UTR_variant,,ENST00000514618,;MARCH1,3_prime_UTR_variant,,ENST00000339875,NM_017923.3;RP11-218F10.3,upstream_gene_variant,,ENST00000609356,;AC093788.1,downstream_gene_variant,,ENST00000577895,;MARCH1,downstream_gene_variant,,ENST00000510786,;"	"TTA"	"ENSG00000145416"	"ENST00000503008"	"Transcript"	"3_prime_UTR_variant"	"2269-2270/5877"	"-/870"	"-/289"	""	""	"rs3832318"	"1"	NA	-1	"MARCH1"	"HGNC"	26077	"protein_coding"	"YES"	"CCDS54814.1"	"ENSP00000427223"	"Q8TCQ1"	"D6REN1"	"UPI0000037BB3"	"NM_001166373.1"	NA	NA	"8/8"	""	""	"-:0.4808"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"643e5760-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2029"	"MARCH1"	55016	"mskcc.org"	"GRCh37"	"4"	164762130	164762130	"+"	"Intron"	"DEL"	"A"	"-"	"-"	"rs11367550"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.111+13043delT"	""	""	"ENST00000503008"	""	6	"."	5	1	"."	0	"MARCH1,intron_variant,,ENST00000503008,NM_001166373.1;MARCH1,intron_variant,,ENST00000274056,;MARCH1,intron_variant,,ENST00000514618,;MARCH1,intron_variant,,ENST00000507270,;MARCH1,intron_variant,,ENST00000503104,;MARCH1,intron_variant,,ENST00000510696,;"	"-"	"ENSG00000145416"	"ENST00000503008"	"Transcript"	"intron_variant"	"-/5877"	"-/870"	"-/289"	""	""	"rs11367550"	"1"	NA	-1	"MARCH1"	"HGNC"	26077	"protein_coding"	"YES"	"CCDS54814.1"	"ENSP00000427223"	"Q8TCQ1"	"D6REN1"	"UPI0000037BB3"	"NM_001166373.1"	NA	NA	""	"3/7"	""	"A:0.1388"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"4b3275ee-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2030"	"MARCH1"	55016	"mskcc.org"	"GRCh37"	"4"	164819044	164819045	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs71600649"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-38-43724dupT"	""	""	"ENST00000503008"	""	6	"."	3	2	"."	0	"MARCH1,intron_variant,,ENST00000503008,NM_001166373.1;MARCH1,intron_variant,,ENST00000514618,;MARCH1,intron_variant,,ENST00000507270,;MARCH1,intron_variant,,ENST00000503104,;MARCH1,intron_variant,,ENST00000510696,;"	"A"	"ENSG00000145416"	"ENST00000503008"	"Transcript"	"intron_variant"	"-/5877"	"-/870"	"-/289"	""	""	"rs71600649"	"1"	NA	-1	"MARCH1"	"HGNC"	26077	"protein_coding"	"YES"	"CCDS54814.1"	"ENSP00000427223"	"Q8TCQ1"	"D6REN1"	"UPI0000037BB3"	"NM_001166373.1"	NA	NA	""	"2/7"	""	"A:0.2702"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"64497a28-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2031"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	167072205	167072213	"+"	"IGR"	"DEL"	"GAAGAAGAA"	"GAAGAAGAA"	"-"	"rs113887638"	NA	"JHCCPT1"	"JHCCPN1"	"GAAGAAGAA"	"GAAGAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113887638"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GAAGAAGAA:0.1765"	"-:0.8124"	"-:0.8674"	NA	"-:0.7649"	"-:0.829"	"-:0.862"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGAAGAAGAAG"	"4b9e5a16-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2032"	"ANXA10"	11199	"mskcc.org"	"GRCh37"	"4"	169086539	169086539	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.480+63delC"	""	""	"ENST00000359299"	""	64	"."	3	16	"."	0	"ANXA10,intron_variant,,ENST00000359299,NM_007193.4;ANXA10,intron_variant,,ENST00000507278,;ANXA10,intron_variant,,ENST00000503003,;"	"-"	"ENSG00000109511"	"ENST00000359299"	"Transcript"	"intron_variant"	"-/1417"	"-/975"	"-/324"	""	""	""	"1"	NA	1	"ANXA10"	"HGNC"	534	"protein_coding"	"YES"	"CCDS34096.1"	"ENSP00000352248"	"Q9UJ72"	""	"UPI0000169E98"	"NM_007193.4"	NA	NA	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"4bba4e60-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.046875	"WXS"	FALSE
"2033"	"PALLD"	23022	"mskcc.org"	"GRCh37"	"4"	169837642	169837643	"+"	"Intron"	"INS"	"-"	"-"	"CTTTAAATCT"	"rs11280960"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2850+464_2850+465insCTTTAAATCT"	""	""	"ENST00000505667"	""	6	"."	4	1	"."	0	"PALLD,intron_variant,,ENST00000335742,;PALLD,intron_variant,,ENST00000261509,NM_001166108.1,NM_016081.3;PALLD,intron_variant,,ENST00000507735,NM_001166110.1;PALLD,intron_variant,,ENST00000505667,;PALLD,intron_variant,,ENST00000512127,NM_001166109.1;PALLD,downstream_gene_variant,,ENST00000393726,;CBR4,intron_variant,,ENST00000509108,;PALLD,intron_variant,,ENST00000507699,;CBR4,intron_variant,,ENST00000510042,;PALLD,downstream_gene_variant,,ENST00000513187,;"	"CTTTAAATCT"	"ENSG00000129116"	"ENST00000505667"	"Transcript"	"intron_variant"	"-/3637"	"-/3372"	"-/1123"	""	""	"rs11280960"	"1"	NA	1	"PALLD"	"HGNC"	17068	"protein_coding"	"YES"	"CCDS54818.1"	"ENSP00000425556"	"Q8WX93"	"Q4W5A6,D6RBH5,D6RBB1,D6R9Z5,D6R948"	"UPI000189A85C"	""	NA	NA	""	"17/21"	""	"-:0.4327"	"CTTTAAATCT:0.1172"	"CTTTAAATCT:0.6326"	NA	"CTTTAAATCT:0.8978"	"CTTTAAATCT:0.6491"	"CTTTAAATCT:0.7045"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAA"	"64c1b3da-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2034"	"RPL5P11"	0	"mskcc.org"	"GRCh37"	"4"	174346048	174346049	"+"	"5'Flank"	"INS"	"-"	"-"	"TAAAATAAAATAAAATAAAATAAAATAAAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000498068"	""	8	"."	3	1	"."	0	"RPL5P11,upstream_gene_variant,,ENST00000498068,;"	"TAAAATAAAATAAAATAAAATAAAATAAAA"	"ENSG00000242882"	"ENST00000498068"	"Transcript"	"upstream_gene_variant"	"-/893"	""	""	""	""	""	"1"	"4760"	-1	"RPL5P11"	"HGNC"	35483	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"64fd5700-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2035"	"GPM6A"	2823	"mskcc.org"	"GRCh37"	"4"	176593070	176593072	"+"	"Intron"	"DEL"	"GCA"	"GCA"	"-"	"rs66532355"	NA	"JHCCPT1"	"JHCCPN1"	"GCA"	"GCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.387+1759_387+1761delTGC"	""	""	"ENST00000280187"	""	6	"."	4	1	"."	0	"GPM6A,intron_variant,,ENST00000280187,NM_005277.4;GPM6A,intron_variant,,ENST00000393658,NM_201591.2;GPM6A,intron_variant,,ENST00000506894,NM_201592.2;GPM6A,intron_variant,,ENST00000515090,NM_001261448.1;GPM6A,intron_variant,,ENST00000503397,;GPM6A,intron_variant,,ENST00000505561,;GPM6A,intron_variant,,ENST00000502754,;GPM6A,intron_variant,,ENST00000512610,;GPM6A,intron_variant,,ENST00000513667,;GPM6A,intron_variant,,ENST00000507520,;GPM6A,intron_variant,,ENST00000512509,;GPM6A,intron_variant,,ENST00000505375,;GPM6A,downstream_gene_variant,,ENST00000513365,;GPM6A,downstream_gene_variant,,ENST00000512897,;GPM6A,downstream_gene_variant,,ENST00000507540,;GPM6A,downstream_gene_variant,,ENST00000509865,;"	"-"	"ENSG00000150625"	"ENST00000280187"	"Transcript"	"intron_variant"	"-/2854"	"-/837"	"-/278"	""	""	"rs66532355"	"1"	NA	-1	"GPM6A"	"HGNC"	4460	"protein_coding"	"YES"	"CCDS3824.1"	"ENSP00000280187"	"P51674"	"Q49AH3,D6RIF4,D6RFZ3,D6RFY0,D6REJ8,D6RD95,D6RBM6,D6RBH3,D6RAE4,D6R9T7"	"UPI000012EAE1"	"NM_005277.4"	NA	NA	""	"4/7"	""	"GCA:0.4309"	"-:0.2572"	"-:0.7478"	NA	"-:0.6508"	"-:0.839"	"-:0.502"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACGCAG"	"4d011fec-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2036"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	179164368	179164397	"+"	"IGR"	"DEL"	"GTGTGTGTGTGTGTGTGTGTGTGTGTGTGT"	"GTGTGTGTGTGTGTGTGTGTGTGTGTGTGT"	"-"	"rs200862641"	NA	"JHCCPT1"	"JHCCPN1"	"GTGTGTGTGTGTGTGTGTGTGTGTGTGTGT"	"GTGTGTGTGTGTGTGTGTGTGTGTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200862641"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTG"	"4d839cb0-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2037"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	179938785	179938787	"+"	"IGR"	"DEL"	"AGC"	"-"	"-"	"rs70958785"	NA	"JHCCPT1"	"JHCCPN1"	"AGC"	"AGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs70958785"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2157"	"-:0.1316"	"-:0.3141"	NA	"-:0.0823"	"-:0.3042"	"-:0.3057"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAGCA"	"4d96635e-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2038"	"AC108142.1"	90768	"mskcc.org"	"GRCh37"	"4"	182814641	182814644	"+"	"Intron"	"DEL"	"CCCA"	"CCCA"	"-"	"rs149445718"	NA	"JHCCPT1"	"JHCCPN1"	"CCCA"	"CCCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.379-16370_379-16367delTGGG"	""	""	"ENST00000509012"	""	6	"."	3	4	"."	0	"AC108142.1,intron_variant,,ENST00000509012,;"	"-"	"ENSG00000177822"	"ENST00000509012"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/564"	""	""	""	""	"rs149445718"	"1"	NA	-1	"AC108142.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"3/4"	""	"CCCA:0.0339"	"-:0.9281"	"-:0.9784"	NA	"-:1"	"-:0.9652"	"-:0.9744"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCCCAC"	"4dabe6a2-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2039"	"AC108142.1"	90768	"mskcc.org"	"GRCh37"	"4"	183001981	183001982	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs35866279"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.354+927dupT"	""	""	"ENST00000507869"	""	7	"."	4	1	"."	0	"AC108142.1,intron_variant,,ENST00000507869,;AC108142.1,intron_variant,,ENST00000509012,;AC108142.1,intron_variant,,ENST00000505537,;"	"A"	"ENSG00000177822"	"ENST00000507869"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2129"	""	""	""	""	"rs35866279"	"1"	NA	-1	"AC108142.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"2/4"	""	"A:0.2993"	"A:0.1982"	"A:0.3602"	NA	"A:0.3452"	"A:0.3221"	"A:0.3221"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"6567df94-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2040"	"IRF2"	3660	"mskcc.org"	"GRCh37"	"4"	185338995	185338996	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs3214513"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.411+325_411+326insG"	""	""	"ENST00000393593"	""	16	"."	6	2	"."	0	"IRF2,intron_variant,,ENST00000393593,NM_002199.3;IRF2,intron_variant,,ENST00000507523,;IRF2,intron_variant,,ENST00000505067,;IRF2,intron_variant,,ENST00000510814,;IRF2,intron_variant,,ENST00000502750,;IRF2,downstream_gene_variant,,ENST00000506230,;IRF2,intron_variant,,ENST00000512020,;IRF2,downstream_gene_variant,,ENST00000509274,;"	"C"	"ENSG00000168310"	"ENST00000393593"	"Transcript"	"intron_variant"	"-/2303"	"-/1050"	"-/349"	""	""	"rs3214513"	"1"	NA	-1	"IRF2"	"HGNC"	6117	"protein_coding"	"YES"	"CCDS3835.1"	"ENSP00000377218"	"P14316"	"K4DIA5,D6RB08,D6R9N5"	"UPI000012D888"	"NM_002199.3"	NA	NA	""	"5/8"	""	"C:0.1492"	"C:0.0469"	"C:0.2133"	NA	"C:0.0516"	"C:0.2425"	"C:0.2464"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"65dc9ae6-2764-11e6-b33c-1287424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2041"	"FAT1"	2195	"mskcc.org"	"GRCh37"	"4"	187583161	187583161	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs67163880"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3580+1292delG"	""	""	"ENST00000441802"	""	6	"."	3	1	"."	0	"FAT1,intron_variant,,ENST00000441802,NM_005245.3;"	"-"	"ENSG00000083857"	"ENST00000441802"	"Transcript"	"intron_variant"	"-/14786"	"-/13767"	"-/4588"	""	""	"rs67163880"	"1"	NA	-1	"FAT1"	"HGNC"	3595	"protein_coding"	"YES"	"CCDS47177.1"	"ENSP00000406229"	"Q14517"	"D6RCE4"	"UPI000051946B"	"NM_005245.3"	NA	NA	""	"3/26"	""	"-:0.3405"	"-:0.0998"	"-:0.3343"	NA	"-:0.375"	"-:0.4235"	"-:0.5491"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"4f3f8a3c-2764-11e6-b33c-1287424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	TRUE
"2042"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	188950531	188950532	"+"	"IGR"	"INS"	"-"	"-"	"TG"	"rs146877170"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	5	2	"."	0	""	"TG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs146877170"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1246"	"TG:0.8744"	"TG:0.8271"	NA	"TG:0.9534"	"TG:0.7714"	"TG:0.9376"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"66a7d6ac-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"2043"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	189192011	189192022	"+"	"IGR"	"DEL"	"CAGCAGCCCCAC"	"CAGCAGCCCCAC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CAGCAGCCCCAC"	"CAGCAGCCCCAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	61	"."	5	26	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCAGCAGCCCCACC"	"4f7e6d4c-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0819672131147541	"WXS"	FALSE
"2044"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	189192041	189192061	"+"	"IGR"	"DEL"	"CAGCCCCACCAGCACCAGCAC"	"CAGCCCCACCAGCACCAGCAC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CAGCCCCACCAGCACCAGCAC"	"CAGCCCCACCAGCACCAGCAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"."	4	40	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCAGCCCCACCAGCACCAGCACC"	"4f7ffd9c-2764-11e6-b33c-1287424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0493827160493827	"WXS"	FALSE
"2045"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	189296527	189296527	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs35322725"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35322725"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.4042"	"-:0.4569"	"-:0.5965"	NA	"-:0.8165"	"-:0.493"	"-:0.6616"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"4f81d130-2764-11e6-b33c-1287424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2046"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	190328799	190328801	"+"	"IGR"	"DEL"	"ATG"	"-"	"-"	"rs10596655"	NA	"JHCCPT1"	"JHCCPN1"	"ATG"	"ATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10596655"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"ATG:0.0543"	"-:0.8752"	"-:0.9179"	NA	"-:1"	"-:0.9563"	"-:0.9939"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAATGA"	"4f9e06ca-2764-11e6-b33c-1287424a729f"	"241"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2047"	"ENSR00001762336"	0	"mskcc.org"	"GRCh37"	"4"	190528585	190528613	"+"	"IGR"	"DEL"	"CCAGAGCCTGCTGAAAGCATTCAAACTGG"	"CCAGAGCCTGCTGAAAGCATTCAAACTGG"	"-"	"rs368200679"	NA	"JHCCPT1"	"JHCCPN1"	"CCAGAGCCTGCTGAAAGCATTCAAACTGG"	"CCAGAGCCTGCTGAAAGCATTCAAACTGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001762336"	""	9	"."	3	3	"."	0	""	"-"	""	"ENSR00001762336"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs368200679"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0719"	"-:0.0998"	"-:0.0533"	NA	"-:0.002"	"-:0.1173"	"-:0.0726"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACCCAGAGCCTGCTGAAAGCATTCAAACTGGC"	"4fa414d4-2764-11e6-b33c-1287424a729f"	"120"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2048"	"FRG1"	2483	"mskcc.org"	"GRCh37"	"4"	190884225	190884226	"+"	"Intron"	"INS"	"-"	"-"	"TTC"	"rs150701093"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.741-21_741-20insCTT"	""	""	"ENST00000226798"	""	15	"."	8	2	"."	0	"FRG1,intron_variant,,ENST00000226798,NM_004477.2;FRG1,downstream_gene_variant,,ENST00000524583,;FRG1,intron_variant,,ENST00000505327,;FRG1,downstream_gene_variant,,ENST00000514482,;FRG1,intron_variant,,ENST00000507103,;"	"TTC"	"ENSG00000109536"	"ENST00000226798"	"Transcript"	"intron_variant"	"-/1074"	"-/777"	"-/258"	""	""	"rs150701093"	"1"	NA	1	"FRG1"	"HGNC"	3954	"protein_coding"	"YES"	"CCDS34121.1"	"ENSP00000226798"	"Q14331"	"E9PRR7"	"UPI000012AC04"	"NM_004477.2"	NA	NA	""	"8/8"	""	"TTC:0.4187"	"TTC:0.6059"	"TTC:0.2695"	NA	"TTC:0.3909"	"TTC:0.3241"	"TTC:0.3978"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	"0.3153"	"0.575"	"0.1774"	"0.35"	"0.2784"	"0.2851"	"0.319"	"0.3416"	"1"	"common_variant"	"TTT"	"66fc888c-2764-11e6-b33c-1287424a729f"	"480"	0.3108	"31144/100208"	"33431/106028"	"4784/8320"	"1930/10878"	"2553/7294"	"1757/6312"	"14585/51154"	"215/674"	"5320/15576"	"VQSRTrancheINDEL99.00to99.50"	"FALSE"	0.533333333333333	"WXS"	FALSE
"2049"	"AHRR"	57491	"mskcc.org"	"GRCh37"	"5"	318845	318846	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs59022103"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2+14512dupC"	""	""	"ENST00000316418"	""	8	"."	6	1	"."	0	"AHRR,intron_variant,,ENST00000316418,NM_020731.4;AHRR,intron_variant,,ENST00000505113,NM_001242412.1;AHRR,intron_variant,,ENST00000512529,;PDCD6,downstream_gene_variant,,ENST00000264933,NM_001267556.1,NM_001267558.1,NM_013232.3;PDCD6,downstream_gene_variant,,ENST00000507528,;PDCD6,downstream_gene_variant,,ENST00000505221,NM_001267559.1;AHRR,upstream_gene_variant,,ENST00000510400,;AHRR,upstream_gene_variant,,ENST00000514523,;PDCD6,downstream_gene_variant,,ENST00000507473,;AHRR,upstream_gene_variant,,ENST00000515206,;PDCD6,downstream_gene_variant,,ENST00000511482,;PDCD6,intron_variant,,ENST00000506909,;PDCD6,downstream_gene_variant,,ENST00000512466,;PDCD6,downstream_gene_variant,,ENST00000513582,;"	"C"	"ENSG00000063438"	"ENST00000316418"	"Transcript"	"intron_variant"	"-/5661"	"-/2160"	"-/719"	""	""	"rs59022103"	"1"	NA	1	"AHRR"	"HGNC"	346	"protein_coding"	"YES"	"CCDS43297.1"	"ENSP00000323816"	"A9YTQ3"	"E5RGQ2,E5RFG4"	"UPI00004572BE"	"NM_020731.4"	NA	NA	""	"1/11"	""	"-:0.0002"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:0.999"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"54589414-2764-11e6-b684-1187424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"2050"	"TPPP"	11076	"mskcc.org"	"GRCh37"	"5"	669389	669397	"+"	"Intron"	"DEL"	"GGTGAGCCC"	"GGTGAGCCC"	"-"	"rs145649492"	NA	"JHCCPT1"	"JHCCPN1"	"GGTGAGCCC"	"GGTGAGCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.312-3159_312-3151delGGGCTCACC"	""	""	"ENST00000360578"	""	10	"."	4	3	"."	0	"TPPP,intron_variant,,ENST00000360578,NM_007030.2;AC026740.1,downstream_gene_variant,,ENST00000594226,;CEP72,downstream_gene_variant,,ENST00000514507,;"	"-"	"ENSG00000171368"	"ENST00000360578"	"Transcript"	"intron_variant"	"-/5116"	"-/660"	"-/219"	""	""	"rs145649492"	"1"	NA	-1	"TPPP"	"HGNC"	24164	"protein_coding"	"YES"	"CCDS3856.1"	"ENSP00000353785"	"O94811"	"Q4L233"	"UPI0000130FB2"	"NM_007030.2"	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGGTGAGCCCG"	"2f3b83c6-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2051"	"TPPP"	11076	"mskcc.org"	"GRCh37"	"5"	697003	697004	"+"	"5'Flank"	"INS"	"-"	"-"	"TT"	"rs72043448"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000360578"	""	8	"."	4	2	"."	0	"TPPP,upstream_gene_variant,,ENST00000360578,NM_007030.2;"	"TT"	"ENSG00000171368"	"ENST00000360578"	"Transcript"	"upstream_gene_variant"	"-/5116"	"-/660"	"-/219"	""	""	"rs72043448"	"1"	"3493"	-1	"TPPP"	"HGNC"	24164	"protein_coding"	"YES"	"CCDS3856.1"	"ENSP00000353785"	"O94811"	"Q4L233"	"UPI0000130FB2"	"NM_007030.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"54dcad6c-2764-11e6-b684-1187424a729f"	"167"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2052"	"SLC12A7"	10723	"mskcc.org"	"GRCh37"	"5"	1081113	1081133	"+"	"Intron"	"DEL"	"AGAGAGAGAGACAGACAGACA"	"AGAGAGAGAGACAGACAGACA"	"-"	"rs148319434"	NA	"JHCCPT1"	"JHCCPN1"	"AGAGAGAGAGACAGACAGACA"	"AGAGAGAGAGACAGACAGACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1297+559_1297+579delTGTCTGTCTGTCTCTCTCTCT"	""	""	"ENST00000264930"	""	13	"."	3	9	"."	0	"SLC12A7,intron_variant,,ENST00000264930,NM_006598.2;SLC12A7,intron_variant,,ENST00000510943,;SLC12A7,upstream_gene_variant,,ENST00000504576,;"	"-"	"ENSG00000113504"	"ENST00000264930"	"Transcript"	"intron_variant"	"-/5272"	"-/3252"	"-/1083"	""	""	"rs148319434"	"1"	NA	-1	"SLC12A7"	"HGNC"	10915	"protein_coding"	"YES"	"CCDS34129.1"	"ENSP00000264930"	"Q9Y666"	""	"UPI0000141815"	"NM_006598.2"	NA	NA	""	"9/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGAGAGAGAGACAGACAGACAG"	"2fc619b4-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"2053"	"SLC6A18"	348932	"mskcc.org"	"GRCh37"	"5"	1227088	1227089	"+"	"Intron"	"INS"	"-"	"-"	"GCCTTGCCCACCGAT"	"rs577692948"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.160+1361_160+1375dupACCGATGCCTTGCCC"	""	""	"ENST00000324642"	""	8	"."	3	2	"."	0	"SLC6A18,intron_variant,,ENST00000324642,NM_182632.2;SLC6A18,intron_variant,,ENST00000296821,;SLC6A19,downstream_gene_variant,,ENST00000304460,NM_001003841.2;SLC6A18,intron_variant,,ENST00000513607,;SLC6A19,downstream_gene_variant,,ENST00000515652,;"	"GCCTTGCCCACCGAT"	"ENSG00000164363"	"ENST00000324642"	"Transcript"	"intron_variant"	"-/2121"	"-/1887"	"-/628"	""	""	"rs577692948"	"1"	NA	1	"SLC6A18"	"HGNC"	26441	"protein_coding"	"YES"	"CCDS3860.1"	"ENSP00000323549"	"Q96N87"	""	"UPI0000197EA2"	"NM_182632.2"	NA	NA	""	"1/11"	""	"GCCTTGCCCACCGAT:0.2260"	"GCCTTGCCCACCGAT:0.2648"	"GCCTTGCCCACCGAT:0.2867"	NA	"GCCTTGCCCACCGAT:0.123"	"GCCTTGCCCACCGAT:0.2515"	"GCCTTGCCCACCGAT:0.2106"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"39"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"5546d6a6-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2054"	"SLC6A18"	348932	"mskcc.org"	"GRCh37"	"5"	1238757	1238758	"+"	"Intron"	"INS"	"-"	"-"	"CTCAGGAAAGACATCAGGTTTGGAGTGGGCCTGGAGGACTCAGGAAAGACATCAGGTTTGGAGTGAGCCTGGGGC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.732+593_732+594insCATCAGGTTTGGAGTGGGCCTGGAGGACTCAGGAAAGACATCAGGTTTGGAGTGAGCCTGGGGCCTCAGGAAAGA"	""	""	"ENST00000324642"	""	7	"."	3	1	"."	0	"SLC6A18,intron_variant,,ENST00000324642,NM_182632.2;SLC6A18,intron_variant,,ENST00000296821,;"	"CTCAGGAAAGACATCAGGTTTGGAGTGGGCCTGGAGGACTCAGGAAAGACATCAGGTTTGGAGTGAGCCTGGGGC"	"ENSG00000164363"	"ENST00000324642"	"Transcript"	"intron_variant"	"-/2121"	"-/1887"	"-/628"	""	""	""	"1"	NA	1	"SLC6A18"	"HGNC"	26441	"protein_coding"	"YES"	"CCDS3860.1"	"ENSP00000323549"	"Q96N87"	""	"UPI0000197EA2"	"NM_182632.2"	NA	NA	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"11"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAC"	"55508d04-2764-11e6-b684-1187424a729f"	"145"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2055"	"CTD-2245E15.3"	0	"mskcc.org"	"GRCh37"	"5"	1549377	1549378	"+"	"Intron"	"DEL"	"GA"	"GA"	"-"	"rs545335141"	NA	"JHCCPT1"	"JHCCPN1"	"GA"	"GA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.208-787_208-786delTC"	""	""	"ENST00000503113"	""	8	"."	4	1	"."	0	"CTD-2245E15.3,intron_variant,,ENST00000503113,;"	"-"	"ENSG00000251532"	"ENST00000503113"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/692"	""	""	""	""	"rs545335141"	"1"	NA	-1	"CTD-2245E15.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"-:0.0034"	"-:0"	"-:0.0014"	NA	"-:0"	"-:0.002"	"-:0.0143"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGAG"	"30326290-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2056"	"RP11-43F13.1"	0	"mskcc.org"	"GRCh37"	"5"	1638431	1638432	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs57933284"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000507841"	""	10	"."	6	4	"."	0	"RP11-43F13.1,upstream_gene_variant,,ENST00000507841,;RP11-43F13.1,upstream_gene_variant,,ENST00000512335,;RP11-43F13.1,upstream_gene_variant,,ENST00000343123,;RP11-43F13.1,upstream_gene_variant,,ENST00000522848,;RP11-43F13.1,upstream_gene_variant,,ENST00000507290,;RP11-43F13.1,upstream_gene_variant,,ENST00000507505,;RP11-43F13.1,upstream_gene_variant,,ENST00000502273,;"	"C"	"ENSG00000188002"	"ENST00000507841"	"Transcript"	"upstream_gene_variant"	"-/2338"	""	""	""	""	"rs57933284"	"1"	"4311"	-1	"RP11-43F13.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"5586043e-2764-11e6-b684-1187424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"2057"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	1652674	1652694	"+"	"IGR"	"DEL"	"GATCTGGCCGTGTGGCCATGG"	"GATCTGGCCGTGTGGCCATGG"	"-"	"rs11269282"	NA	"JHCCPT1"	"JHCCPN1"	"GATCTGGCCGTGTGGCCATGG"	"GATCTGGCCGTGTGGCCATGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11269282"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3520"	"-:0.3502"	"-:0.389"	NA	"-:0.3194"	"-:0.4026"	"-:0.3098"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGATCTGGCCGTGTGGCCATGGG"	"3037cf64-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"2058"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	2153013	2153014	"+"	"IGR"	"INS"	"-"	"-"	"CTTCCCTCCCTCTCTT"	"rs148527570"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	22	"."	3	6	"."	0	""	"CTTCCCTCCCTCTCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148527570"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CTTCCCTCCCTCTCTT:0.1284"	"CTTCCCTCCCTCTCTT:0.1657"	"CTTCCCTCCCTCTCTT:0.1182"	NA	"CTTCCCTCCCTCTCTT:0.121"	"CTTCCCTCCCTCTCTT:0.1123"	"CTTCCCTCCCTCTCTT:0.1094"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"55a52378-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"2059"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	3274637	3274638	"+"	"IGR"	"INS"	"-"	"TGGCAGAATTCACGAGTTAGCAAAGCCCGA"	"TGGCAGAATTCACGAGTTAGCAAAGCCCGA"	"rs149895118"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	6	1	"."	0	""	"TGGCAGAATTCACGAGTTAGCAAAGCCCGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs149895118"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3592"	"TGGCAGAATTCACGAGTTAGCAAAGCCCGA:0.6785"	"TGGCAGAATTCACGAGTTAGCAAAGCCCGA:0.6801"	NA	"TGGCAGAATTCACGAGTTAGCAAAGCCCGA:0.5893"	"TGGCAGAATTCACGAGTTAGCAAAGCCCGA:0.6421"	"TGGCAGAATTCACGAGTTAGCAAAGCCCGA:0.6135"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"55bd8724-2764-11e6-b684-1187424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"2060"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	3305601	3305602	"+"	"IGR"	"INS"	"-"	"-"	"GGCCG"	"rs139805185"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	2	"."	0	""	"GGCCG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139805185"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GGCCG:0.1835"	"GGCCG:0.3578"	"GGCCG:0.1542"	NA	"GGCCG:0.0238"	"GGCCG:0.166"	"GGCCG:0.1513"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"55bec7ce-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"2061"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	4150751	4150752	"+"	"IGR"	"INS"	"-"	"-"	"TCTA"	"rs138286367"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	2	"."	0	""	"TCTA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138286367"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"55cfb2fa-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2062"	"LINC01020"	0	"mskcc.org"	"GRCh37"	"5"	5043499	5043500	"+"	"Intron"	"INS"	"-"	"-"	"GGAGGGAGGGA"	"rs141154793"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.308+4597_308+4598insGAGGAGGGAGG"	""	""	"ENST00000508201"	""	15	"."	4	5	"."	0	"LINC01020,intron_variant,,ENST00000508201,;LINC01020,intron_variant,,ENST00000509382,;LINC01020,intron_variant,,ENST00000507599,;CTD-2247C11.4,downstream_gene_variant,,ENST00000511514,;CTD-2247C11.4,downstream_gene_variant,,ENST00000502893,;"	"GGAGGGAGGGA"	"ENSG00000215231"	"ENST00000508201"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1800"	""	""	""	""	"rs141154793"	"1"	NA	1	"LINC01020"	"HGNC"	27968	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/7"	""	"-:0.1078"	"GGAGGGAGGGA:0.848"	"GGAGGGAGGGA:0.9366"	NA	"GGAGGGAGGGA:0.873"	"GGAGGGAGGGA:0.9125"	"GGAGGGAGGGA:0.9192"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"55dc4916-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"2063"	"ADAMTS16"	170690	"mskcc.org"	"GRCh37"	"5"	5232310	5232357	"+"	"Intron"	"DEL"	"AACAACATTGAATGTACTGTATTTATATTAGGTGCTGCTTGAGTGTAG"	"AACAACATTGAATGTACTGTATTTATATTAGGTGCTGCTTGAGTGTAG"	"CAACATTGAATGTACTGTATTTATATTAGGTGCTACTTGAGTGTA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AACAACATTGAATGTACTGTATTTATATTAGGTGCTGCTTGAGTGTAG"	"AACAACATTGAATGTACTGTATTTATATTAGGTGCTGCTTGAGTGTAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1702-171_1702-124delAACAACATTGAATGTACTGTATTTATATTAGGTGCTGCTTGAGTGTAGinsCAACATTGAATGTACTGTATTTATATTAGGTGCTACTTGAGTGTA"	""	""	"ENST00000274181"	""	62	"."	21	19	"."	0	"ADAMTS16,intron_variant,,ENST00000274181,NM_139056.2;ADAMTS16,upstream_gene_variant,,ENST00000513709,;ADAMTS16,intron_variant,,ENST00000433402,;"	"CAACATTGAATGTACTGTATTTATATTAGGTGCTACTTGAGTGTA"	"ENSG00000145536"	"ENST00000274181"	"Transcript"	"intron_variant"	"-/4979"	"-/3675"	"-/1224"	""	""	""	"1"	NA	1	"ADAMTS16"	"HGNC"	17108	"protein_coding"	"YES"	"CCDS43299.1"	"ENSP00000274181"	"Q8TE57"	"B2G3Q1"	"UPI00004572CA"	"NM_139056.2"	NA	NA	""	"11/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAACAACATTGAATGTACTGTATTTATATTAGGTGCTGCTTGAGTGTAGG"	"5356b5be-2764-11e6-b684-1187424a729f"	"1260"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.338709677419355	"WXS"	FALSE
"2064"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	5955367	5955368	"+"	"IGR"	"INS"	"-"	"-"	"CTTCCCCTTCCTTCCTTGCCCTTCCTTT"	"rs150854554"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"."	10	14	"."	0	""	"CTTCCCCTTCCTTCCTTGCCCTTCCTTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150854554"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"5608d62a-2764-11e6-b684-1187424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196078431372549	"WXS"	FALSE
"2065"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	6572060	6572061	"+"	"IGR"	"INS"	"-"	"-"	"TC"	"rs113891923"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	3	"."	0	""	"TC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113891923"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TC:0.2851"	"TC:0.5643"	"TC:0.1888"	NA	"TC:0.0923"	"TC:0.2266"	"TC:0.2352"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"561a4626-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2066"	"ADCY2"	108	"mskcc.org"	"GRCh37"	"5"	7742025	7742026	"+"	"Intron"	"INS"	"-"	"-"	"ATC"	"rs75442379"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1872-1751_1872-1749dupTCA"	""	""	"ENST00000338316"	""	8	"."	3	2	"."	0	"ADCY2,intron_variant,,ENST00000338316,NM_020546.2;ADCY2,intron_variant,,ENST00000537121,;RP11-711G10.1,intron_variant,,ENST00000514105,;"	"ATC"	"ENSG00000078295"	"ENST00000338316"	"Transcript"	"intron_variant"	"-/6575"	"-/3276"	"-/1091"	""	""	"rs75442379"	"1"	NA	1	"ADCY2"	"HGNC"	233	"protein_coding"	"YES"	"CCDS3872.2"	"ENSP00000342952"	"Q08462"	"Q7RTV6,Q71UM8,D6REB8"	"UPI000066D9F2"	"NM_020546.2"	NA	NA	""	"14/24"	""	"-:0.3155"	"ATC:0.6694"	"ATC:0.7133"	NA	"ATC:0.6687"	"ATC:0.7058"	"ATC:0.6789"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"5634a12e-2764-11e6-b684-1187424a729f"	"168"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2067"	"C5orf49"	134121	"mskcc.org"	"GRCh37"	"5"	7850899	7850914	"+"	"Intron"	"DEL"	"GCCCAGCCGCCCAGCC"	"GCCCAGCCGCCCAGCC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GCCCAGCCGCCCAGCC"	"GCCCAGCCGCCCAGCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.147+74_147+89delGGCTGGGCGGCTGGGC"	""	""	"ENST00000399810"	""	16	"."	4	4	"."	0	"C5orf49,intron_variant,,ENST00000399810,NM_001089584.2;C5orf49,intron_variant,,ENST00000509627,;MTRR,upstream_gene_variant,,ENST00000502509,;MTRR,upstream_gene_variant,,ENST00000511639,;MTRR,upstream_gene_variant,,ENST00000507837,;"	"-"	"ENSG00000215217"	"ENST00000399810"	"Transcript"	"intron_variant"	"-/2385"	"-/444"	"-/147"	""	""	""	"1"	NA	-1	"C5orf49"	"HGNC"	27028	"protein_coding"	"YES"	"CCDS43300.1"	"ENSP00000382708"	"A4QMS7"	""	"UPI0000160436"	"NM_001089584.2"	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGCCCAGCCGCCCAGCCG"	"31764216-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2068"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	8801588	8801599	"+"	"IGR"	"DEL"	"AAGAAAGAAAGA"	"AAGAAAGAAAGA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AAGAAAGAAAGA"	"AAGAAAGAAAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAGAAAGAAAGAA"	"31a37146-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2069"	"CCT5"	22948	"mskcc.org"	"GRCh37"	"5"	10260656	10260657	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11453082"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.874-248_874-247insT"	""	""	"ENST00000280326"	""	6	"."	4	1	"."	0	"CCT5,intron_variant,,ENST00000280326,NM_012073.3;CCT5,intron_variant,,ENST00000515676,;CCT5,intron_variant,,ENST00000506600,;CCT5,intron_variant,,ENST00000503026,;CCT5,intron_variant,,ENST00000515390,;CTD-2256P15.4,downstream_gene_variant,,ENST00000606194,;CCT5,intron_variant,,ENST00000423695,;CCT5,intron_variant,,ENST00000512975,;CCT5,intron_variant,,ENST00000509846,;CCT5,upstream_gene_variant,,ENST00000511995,;CCT5,downstream_gene_variant,,ENST00000503454,;CCT5,downstream_gene_variant,,ENST00000511700,;CCT5,downstream_gene_variant,,ENST00000514674,;"	"T"	"ENSG00000150753"	"ENST00000280326"	"Transcript"	"intron_variant"	"-/3675"	"-/1626"	"-/541"	""	""	"rs11453082"	"1"	NA	1	"CCT5"	"HGNC"	1618	"protein_coding"	"YES"	"CCDS3877.1"	"ENSP00000280326"	"P48643"	"Q9HB74,Q9BU08,Q96GI1,B7ZAR1"	"UPI0000001C34"	"NM_012073.3"	NA	NA	""	"6/10"	""	"-:0.3143"	"T:0.388"	"T:0.7752"	NA	"T:0.879"	"T:0.8539"	"T:0.6524"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"56a43b9c-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2070"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	12433646	12433649	"+"	"IGR"	"DEL"	"TCTT"	"TCTT"	"-"	"rs142232162"	NA	"JHCCPT1"	"JHCCPN1"	"TCTT"	"TCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	7	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142232162"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TCTT:0.3982"	"-:0.3048"	"-:0.7176"	NA	"-:0.5476"	"-:0.8767"	"-:0.6943"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTCTTT"	"32136b0e-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2071"	"TRIO"	7204	"mskcc.org"	"GRCh37"	"5"	14183703	14183703	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs33915930"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.157+39716delA"	""	""	"ENST00000344204"	""	12	"."	3	2	"."	0	"TRIO,intron_variant,,ENST00000344204,NM_007118.2;TRIO,intron_variant,,ENST00000537187,;TRIO,upstream_gene_variant,,ENST00000509967,;TRIO,intron_variant,,ENST00000512070,;TRIO,intron_variant,,ENST00000502816,;TRIO,intron_variant,,ENST00000505971,;"	"-"	"ENSG00000038382"	"ENST00000344204"	"Transcript"	"intron_variant"	"-/11100"	"-/9294"	"-/3097"	""	""	"rs33915930"	"1"	NA	1	"TRIO"	"HGNC"	12303	"protein_coding"	"YES"	"CCDS3883.1"	"ENSP00000339299"	"O75962"	""	"UPI000034ECE6"	"NM_007118.2"	NA	NA	""	"1/56"	""	"A:0.1404"	"-:0.8275"	"-:0.7839"	NA	"-:0.9881"	"-:0.8668"	"-:0.817"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTAA"	"326c4120-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2072"	"MYO10"	4651	"mskcc.org"	"GRCh37"	"5"	16689674	16689675	"+"	"Intron"	"DEL"	"GA"	"GA"	"-"	"rs571082197"	NA	"JHCCPT1"	"JHCCPN1"	"GA"	"GA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3896+258_3896+259delTC"	""	""	"ENST00000513610"	""	11	"."	4	3	"."	0	"MYO10,intron_variant,,ENST00000513610,NM_012334.2;MYO10,intron_variant,,ENST00000515803,;MYO10,intron_variant,,ENST00000274203,;MYO10,intron_variant,,ENST00000427430,;MYO10,intron_variant,,ENST00000505695,;"	"-"	"ENSG00000145555"	"ENST00000513610"	"Transcript"	"intron_variant"	"-/8038"	"-/6177"	"-/2058"	""	""	"rs571082197"	"1"	NA	-1	"MYO10"	"HGNC"	7593	"protein_coding"	"YES"	"CCDS54834.1"	"ENSP00000421280"	"Q9HD67"	"E9PEW5,E7EPL7,B4E0P0"	"UPI0001597062"	"NM_012334.2"	NA	NA	""	"28/40"	""	"-:0.0038"	"-:0"	"-:0.0029"	NA	"-:0"	"-:0.0109"	"-:0.0061"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGAG"	"33027474-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2073"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	18008811	18008812	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs11384894"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	7	7	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11384894"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1639"	"T:0.8169"	"T:0.83"	NA	"T:0.7252"	"T:0.9473"	"T:0.8661"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"5758d976-2764-11e6-b684-1187424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.636363636363636	"WXS"	FALSE
"2074"	"GUSBP1"	728411	"mskcc.org"	"GRCh37"	"5"	21491963	21491964	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs148509065"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.180-9830dupT"	""	""	"ENST00000607545"	""	10	"."	4	3	"."	0	"GUSBP1,intron_variant,,ENST00000607545,;GUSBP1,intron_variant,,ENST00000508260,;GUSBP1,intron_variant,,ENST00000449061,;GUSBP1,intron_variant,,ENST00000328346,;AC138951.1,upstream_gene_variant,,ENST00000366374,;"	"T"	"ENSG00000183666"	"ENST00000607545"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4157"	""	""	""	""	"rs148509065"	"1"	NA	1	"GUSBP1"	"HGNC"	13670	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/4"	""	"T:0.1813"	"T:0.1097"	"T:0.2565"	NA	"T:0.0714"	"T:0.2913"	"T:0.2249"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"577ab992-2764-11e6-b684-1187424a729f"	"176"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2075"	"RP11-804N13.1"	0	"mskcc.org"	"GRCh37"	"5"	21651013	21651017	"+"	"Intron"	"DEL"	"TTTCT"	"-"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TTTCT"	"TTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.476+26826_476+26830delTCTTT"	""	""	"ENST00000522350"	""	6	"."	5	5	"."	0	"RP11-804N13.1,intron_variant,,ENST00000522350,;"	"-"	"ENSG00000253766"	"ENST00000522350"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/852"	""	""	""	""	""	"1"	NA	1	"RP11-804N13.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"32"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTCTT"	"33b3b0ae-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2076"	"C5orf17"	0	"mskcc.org"	"GRCh37"	"5"	24116921	24116921	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs144792021"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*856-61025delT"	""	""	"ENST00000512559"	""	7	"."	4	1	"."	0	"C5orf17,intron_variant,,ENST00000512559,;"	"-"	"ENSG00000248874"	"ENST00000512559"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/1984"	"-/486"	"-/161"	""	""	"rs144792021"	"1"	NA	1	"C5orf17"	"HGNC"	26630	"nonsense_mediated_decay"	"YES"	""	"ENSP00000423422"	"Q8NAS9"	""	"UPI000007184B"	""	NA	NA	""	"4/4"	""	"-:0.3672"	"-:0.0998"	"-:0.4597"	NA	"-:0.247"	"-:0.6272"	"-:0.5194"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATA"	"33c2fc26-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2077"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	24740356	24740357	"+"	"IGR"	"INS"	"-"	"-"	"TC"	"rs34082994"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	1	"."	0	""	"TC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34082994"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4535"	"TC:0.4728"	"TC:0.6037"	NA	"TC:0.4306"	"TC:0.7117"	"TC:0.5552"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"57a5d1cc-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"2078"	"CDH6"	1004	"mskcc.org"	"GRCh37"	"5"	31313052	31313053	"+"	"Intron"	"INS"	"-"	"-"	"CACACA"	"rs3028834"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1254-352_1254-347dupCACACA"	""	""	"ENST00000265071"	""	11	"."	4	6	"."	0	"CDH6,intron_variant,,ENST00000265071,NM_004932.3;CDH6,intron_variant,,ENST00000514738,;CDH6,upstream_gene_variant,,ENST00000504835,;"	"CACACA"	"ENSG00000113361"	"ENST00000265071"	"Transcript"	"intron_variant"	"-/8476"	"-/2373"	"-/790"	""	""	"rs3028834"	"1"	NA	1	"CDH6"	"HGNC"	1765	"protein_coding"	"YES"	"CCDS3894.1"	"ENSP00000265071"	"P55285"	""	"UPI0000126D9B"	"NM_004932.3"	NA	NA	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"26"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"57cd5fb2-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2079"	"PDZD2"	23037	"mskcc.org"	"GRCh37"	"5"	31665350	31665351	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs5867090"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-361+25806_-361+25807insT"	""	""	"ENST00000438447"	""	6	"."	4	1	"."	0	"PDZD2,intron_variant,,ENST00000438447,;RP11-5N11.2,downstream_gene_variant,,ENST00000509750,;"	"T"	"ENSG00000133401"	"ENST00000438447"	"Transcript"	"intron_variant"	"-/11704"	"-/8520"	"-/2839"	""	""	"rs5867090"	"1"	NA	1	"PDZD2"	"HGNC"	18486	"protein_coding"	"YES"	"CCDS34137.1"	"ENSP00000402033"	"O15018"	"B4DGS3"	"UPI000069648B"	""	NA	NA	""	"1/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"57d61170-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2080"	"PDZD2"	23037	"mskcc.org"	"GRCh37"	"5"	31693205	31693206	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs11432368"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-361+53662dupC"	""	""	"ENST00000438447"	""	8	"."	4	1	"."	0	"PDZD2,intron_variant,,ENST00000438447,;PDZD2,intron_variant,,ENST00000502824,;"	"C"	"ENSG00000133401"	"ENST00000438447"	"Transcript"	"intron_variant"	"-/11704"	"-/8520"	"-/2839"	""	""	"rs11432368"	"1"	NA	1	"PDZD2"	"HGNC"	18486	"protein_coding"	"YES"	"CCDS34137.1"	"ENSP00000402033"	"O15018"	"B4DGS3"	"UPI000069648B"	""	NA	NA	""	"1/24"	""	"-:0.4343"	"C:0.6808"	"C:0.4438"	NA	"C:0.625"	"C:0.502"	"C:0.501"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"57d72dc6-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2081"	"ZFR"	51663	"mskcc.org"	"GRCh37"	"5"	32415620	32415621	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGTGCGCGC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.566-329_566-328insGCGCGCACACAC"	""	""	"ENST00000265069"	""	20	"."	3	3	"."	0	"ZFR,intron_variant,,ENST00000265069,NM_016107.3;ZFR,intron_variant,,ENST00000505366,;ZFR,downstream_gene_variant,,ENST00000505204,;"	"GTGTGTGCGCGC"	"ENSG00000056097"	"ENST00000265069"	"Transcript"	"intron_variant"	"-/4738"	"-/3225"	"-/1074"	""	""	""	"1"	NA	-1	"ZFR"	"HGNC"	17277	"protein_coding"	"YES"	"CCDS34139.1"	"ENSP00000265069"	"Q96KR1"	"B3KP82"	"UPI00001BBB38"	"NM_016107.3"	NA	NA	""	"4/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"5801f0f6-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"2082"	"ADAMTS12"	81792	"mskcc.org"	"GRCh37"	"5"	33561028	33561028	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4125+104delC"	""	""	"ENST00000504830"	""	249	"."	3	121	"."	0	"ADAMTS12,intron_variant,,ENST00000504830,NM_030955.2;ADAMTS12,intron_variant,,ENST00000352040,;"	"-"	"ENSG00000151388"	"ENST00000504830"	"Transcript"	"intron_variant"	"-/8774"	"-/4785"	"-/1594"	""	""	""	"1"	NA	-1	"ADAMTS12"	"HGNC"	14605	"protein_coding"	"YES"	"CCDS34140.1"	"ENSP00000422554"	"P58397"	""	"UPI000013DC51"	"NM_030955.2"	NA	NA	""	"20/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGA"	"34e9d80e-2764-11e6-b684-1187424a729f"	"146"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0120481927710843	"WXS"	FALSE
"2083"	"SPEF2"	79925	"mskcc.org"	"GRCh37"	"5"	35704335	35704336	"+"	"Intron"	"INS"	"-"	"A"	"A"	"rs11434496"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2399-319dupA"	""	""	"ENST00000356031"	""	7	"."	6	1	"."	0	"SPEF2,intron_variant,,ENST00000440995,;SPEF2,intron_variant,,ENST00000356031,NM_024867.3;SPEF2,intron_variant,,ENST00000509059,;SPEF2,intron_variant,,ENST00000504054,;CTD-2113L7.1,intron_variant,,ENST00000510433,;SPEF2,intron_variant,,ENST00000503074,;SPEF2,intron_variant,,ENST00000508817,;"	"A"	"ENSG00000152582"	"ENST00000356031"	"Transcript"	"intron_variant"	"-/5681"	"-/5469"	"-/1822"	""	""	"rs11434496"	"1"	NA	1	"SPEF2"	"HGNC"	26293	"protein_coding"	"YES"	"CCDS43309.1"	"ENSP00000348314"	"Q9C093"	""	"UPI0001505B9F"	"NM_024867.3"	NA	NA	""	"16/36"	""	"A:0.4403"	"A:0.531"	"A:0.4078"	NA	"A:0.2589"	"A:0.5676"	"A:0.3967"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"588c651a-2764-11e6-b684-1187424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"2084"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	40137584	40137585	"+"	"IGR"	"INS"	"-"	"-"	"TCCCTTCCCTTTCTTTCCCCTACCCTCCCCTCCCC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"."	4	10	"."	0	""	"TCCCTTCCCTTTCTTTCCCCTACCCTCCCCTCCCC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"593b7c80-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"2085"	"EMB"	133418	"mskcc.org"	"GRCh37"	"5"	49707502	49707511	"+"	"Intron"	"DEL"	"ACCCTATAAC"	"ACCCTATAAC"	"-"	"rs113800612"	NA	"JHCCPT1"	"JHCCPN1"	"ACCCTATAAC"	"ACCCTATAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.197-294_197-285delGTTATAGGGT"	""	""	"ENST00000303221"	""	11	"."	3	4	"."	0	"EMB,intron_variant,,ENST00000303221,NM_198449.2;EMB,intron_variant,,ENST00000508934,;EMB,intron_variant,,ENST00000514111,;EMB,intron_variant,,ENST00000506190,;EMB,non_coding_transcript_exon_variant,,ENST00000505896,;"	"-"	"ENSG00000170571"	"ENST00000303221"	"Transcript"	"intron_variant"	"-/4281"	"-/984"	"-/327"	""	""	"rs113800612"	"1"	NA	-1	"EMB"	"HGNC"	30465	"protein_coding"	"YES"	"CCDS3953.1"	"ENSP00000302289"	"Q6PCB8"	"B7Z902"	"UPI0000160A6D"	"NM_198449.2"	NA	NA	""	"2/8"	""	"-:0.4095"	"-:0.5045"	"-:0.3228"	NA	"-:0.4732"	"-:0.33"	"-:0.3589"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTACCCTATAACA"	"377dd890-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2086"	"ITGA1"	3672	"mskcc.org"	"GRCh37"	"5"	52176958	52176959	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs5867844"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.625-746dupT"	""	""	"ENST00000282588"	""	9	"."	4	1	"."	0	"ITGA1,intron_variant,,ENST00000282588,NM_181501.1;ITGA1,intron_variant,,ENST00000513737,;ITGA1,intron_variant,,ENST00000509049,;"	"T"	"ENSG00000213949"	"ENST00000282588"	"Transcript"	"intron_variant"	"-/10757"	"-/3540"	"-/1179"	""	""	"rs5867844"	"1"	NA	1	"ITGA1"	"HGNC"	6134	"protein_coding"	"YES"	"CCDS3955.1"	"ENSP00000282588"	"P56199"	""	"UPI00001A95E8"	"NM_181501.1"	NA	NA	""	"6/28"	""	"-:0.0002"	"T:1"	"T:1"	NA	"T:1"	"T:1"	"T:0.999"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"59ffcb9e-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2087"	"ITGA2"	3673	"mskcc.org"	"GRCh37"	"5"	52284522	52284523	"+"	"5'Flank"	"INS"	"-"	"-"	"TC"	"rs71615609"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000296585"	""	13	"."	3	4	"."	0	"ITGA2,upstream_gene_variant,,ENST00000296585,NM_002203.3;CTD-2175A23.1,intron_variant,,ENST00000505701,;CTD-2175A23.1,intron_variant,,ENST00000503559,;ITGA2,upstream_gene_variant,,ENST00000503810,;ITGA2,upstream_gene_variant,,ENST00000509960,;ITGA2,upstream_gene_variant,,ENST00000510722,;ITGA2,upstream_gene_variant,,ENST00000513685,;ITGA2,upstream_gene_variant,,ENST00000509814,;"	"TC"	"ENSG00000164171"	"ENST00000296585"	"Transcript"	"upstream_gene_variant"	"-/7869"	"-/3546"	"-/1181"	""	""	"rs71615609"	"1"	"633"	1	"ITGA2"	"HGNC"	6137	"protein_coding"	"YES"	"CCDS3957.1"	"ENSP00000296585"	"P17301"	"Q71V33,G3LGR5,F1C629,F1C627,E7ESP4"	"UPI0000169C36"	"NM_002203.3"	NA	NA	""	""	""	"TC:0.1102"	"TC:0.0227"	"TC:0.1398"	NA	"TC:0.1101"	"TC:0.2167"	"TC:0.0982"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"5a1d1b2c-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"2088"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	53801788	53801788	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs34860422"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34860422"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3125"	"-:0.3744"	"-:0.2738"	NA	"-:0.2123"	"-:0.4056"	"-:0.2638"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTT"	"37f5a5c8-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2089"	"GZMA"	3001	"mskcc.org"	"GRCh37"	"5"	54397794	54397794	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"rs66887182"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000274306"	""	11	"."	4	3	"."	0	"GZMA,upstream_gene_variant,,ENST00000274306,NM_006144.3;"	"-"	"ENSG00000145649"	"ENST00000274306"	"Transcript"	"upstream_gene_variant"	"-/894"	"-/789"	"-/262"	""	""	"rs66887182"	"1"	"682"	1	"GZMA"	"HGNC"	4708	"protein_coding"	"YES"	"CCDS3965.1"	"ENSP00000274306"	"P12544"	""	"UPI000013D9FC"	"NM_006144.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCGG"	"3810f3be-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2090"	"IPO11"	51194	"mskcc.org"	"GRCh37"	"5"	61846847	61846848	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2467-186_2467-185delAT"	""	""	"ENST00000409296"	""	11	"."	3	5	"."	0	"IPO11,intron_variant,,ENST00000325324,NM_016338.4;IPO11,intron_variant,,ENST00000409296,NM_001134779.1;IPO11,intron_variant,,ENST00000511713,;IPO11,intron_variant,,ENST00000424533,;"	"-"	"ENSG00000086200"	"ENST00000409296"	"Transcript"	"intron_variant"	"-/3564"	"-/3048"	"-/1015"	""	""	""	"1"	NA	1	"IPO11"	"HGNC"	20628	"protein_coding"	"YES"	"CCDS47217.1"	"ENSP00000386992"	"Q9UI26"	"E7EMB7,D6RJB1,D6RCQ2,D6RCN7"	"UPI00017EE9F4"	"NM_001134779.1"	NA	NA	""	"25/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTAT"	"39b65b78-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2091"	"CENPK"	64105	"mskcc.org"	"GRCh37"	"5"	64850955	64850955	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs11309041"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-39-182delC"	""	""	"ENST00000396679"	""	18	"."	6	3	"."	0	"CENPK,5_prime_UTR_variant,,ENST00000502997,;CENPK,intron_variant,,ENST00000396679,NM_022145.4;CENPK,intron_variant,,ENST00000514814,NM_001267038.1;CENPK,intron_variant,,ENST00000508421,;CENPK,intron_variant,,ENST00000510354,;CENPK,intron_variant,,ENST00000510693,;CENPK,intron_variant,,ENST00000515497,;CENPK,upstream_gene_variant,,ENST00000242872,;CENPK,intron_variant,,ENST00000506282,;CENPK,intron_variant,,ENST00000515873,;CENPK,upstream_gene_variant,,ENST00000511841,;CENPK,intron_variant,,ENST00000505960,;CENPK,intron_variant,,ENST00000510768,;"	"-"	"ENSG00000123219"	"ENST00000396679"	"Transcript"	"intron_variant"	"-/1734"	"-/810"	"-/269"	""	""	"rs11309041"	"1"	NA	-1	"CENPK"	"HGNC"	29479	"protein_coding"	"YES"	"CCDS3984.1"	"ENSP00000379911"	"Q9BS16"	"D6RHD3,D6RAX0"	"UPI000006F749"	"NM_022145.4"	NA	NA	""	"2/10"	""	"G:0.4752"	"-:0.6044"	"-:0.4798"	NA	"-:0.3234"	"-:0.6004"	"-:0.5787"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGT"	"39fe0496-2764-11e6-b684-1187424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2092"	"TRAPPC13"	80006	"mskcc.org"	"GRCh37"	"5"	64960851	64960851	"+"	"3'Flank"	"DEL"	"A"	"-"	"-"	"rs34375720"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000438419"	""	7	"."	5	1	"."	0	"TRAPPC13,3_prime_UTR_variant,,ENST00000399438,NM_001093755.1,NM_024941.3;TRAPPC13,3_prime_UTR_variant,,ENST00000545191,;TRAPPC13,3_prime_UTR_variant,,ENST00000231526,NM_001243737.1,NM_001093756.1;SGTB,downstream_gene_variant,,ENST00000381007,NM_019072.2;TRAPPC13,downstream_gene_variant,,ENST00000438419,;TRAPPC13,downstream_gene_variant,,ENST00000505553,;TRAPPC13,non_coding_transcript_exon_variant,,ENST00000512009,;TRAPPC13,downstream_gene_variant,,ENST00000509234,;TRAPPC13,downstream_gene_variant,,ENST00000505108,;TRAPPC13,downstream_gene_variant,,ENST00000504243,;TRAPPC13,downstream_gene_variant,,ENST00000520525,;TRAPPC13,downstream_gene_variant,,ENST00000415825,;"	"-"	"ENSG00000113597"	"ENST00000438419"	"Transcript"	"downstream_gene_variant"	"-/1437"	"-/1257"	"-/418"	""	""	"rs34375720"	"1"	"260"	1	"TRAPPC13"	"HGNC"	25828	"protein_coding"	"YES"	"CCDS47221.1"	"ENSP00000409231"	"A5PLN9"	""	"UPI00005A7644"	""	NA	NA	""	""	""	"A:0.4283"	"-:0.6067"	"-:0.5043"	NA	"-:0.4246"	"-:0.6183"	"-:0.6759"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"3a4b0aca-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2093"	"SGTB"	54557	"mskcc.org"	"GRCh37"	"5"	64967472	64967483	"+"	"Intron"	"DEL"	"GGGGGTGGGGGT"	"GGGGGTGGGGGT"	"-"	"rs144609440"	NA	"JHCCPT1"	"JHCCPN1"	"GGGGGTGGGGGT"	"GGGGGTGGGGGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.803+259_803+270delACCCCCACCCCC"	""	""	"ENST00000381007"	""	7	"."	4	5	"."	0	"SGTB,intron_variant,,ENST00000381007,NM_019072.2;"	"-"	"ENSG00000197860"	"ENST00000381007"	"Transcript"	"intron_variant"	"-/5469"	"-/915"	"-/304"	""	""	"rs144609440"	"1"	NA	-1	"SGTB"	"HGNC"	23567	"protein_coding"	"YES"	"CCDS3988.1"	"ENSP00000370395"	"Q96EQ0"	"O75589,D6RFW1"	"UPI000004D24F"	"NM_019072.2"	NA	NA	""	"10/10"	""	"GGGGGTGGGGGT:0.4435"	"-:0.5772"	"-:0.4669"	NA	"-:0.4563"	"-:0.6014"	"-:0.6493"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCGGGGGTGGGGGTG"	"3a522b34-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2094"	"NLN"	57486	"mskcc.org"	"GRCh37"	"5"	65116791	65116791	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs10717210"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1981-1815delC"	""	""	"ENST00000380985"	""	7	"."	3	1	"."	0	"NLN,intron_variant,,ENST00000380985,NM_020726.4;NLN,intron_variant,,ENST00000502464,;NLN,intron_variant,,ENST00000511299,;NLN,intron_variant,,ENST00000509935,;NLN,intron_variant,,ENST00000515595,;NLN,intron_variant,,ENST00000506799,;"	"-"	"ENSG00000123213"	"ENST00000380985"	"Transcript"	"intron_variant"	"-/8661"	"-/2115"	"-/704"	""	""	"rs10717210"	"1"	NA	1	"NLN"	"HGNC"	16058	"protein_coding"	"YES"	"CCDS3989.1"	"ENSP00000370372"	"Q9BYT8"	"Q8NDD9,E9PCB6"	"UPI000003989D"	"NM_020726.4"	NA	NA	""	"12/12"	""	"C:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACC"	"3a6e265e-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2095"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	65703968	65703968	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs76657721"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	6	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs76657721"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1390"	"-:0.0416"	"-:0.2349"	NA	"-:0.246"	"-:0.1819"	"-:0.0481"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACA"	"3a79e066-2764-11e6-b684-1187424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2096"	"RP11-5P22.1"	0	"mskcc.org"	"GRCh37"	"5"	65869215	65869222	"+"	"3'Flank"	"DEL"	"GAGAGGAA"	"GAGAGGAA"	"-"	"rs200293313"	NA	"JHCCPT1"	"JHCCPN1"	"GAGAGGAA"	"GAGAGGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000414951"	""	11	"."	4	6	"."	0	"RP11-5P22.1,downstream_gene_variant,,ENST00000414951,;"	"-"	"ENSG00000234838"	"ENST00000414951"	"Transcript"	"downstream_gene_variant"	"-/490"	""	""	""	""	"rs200293313"	"1"	"841"	1	"RP11-5P22.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2011"	"-:0.2118"	"-:0.281"	NA	"-:0.2123"	"-:0.1859"	"-:0.1339"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAGAGGAAG"	"3a7dcf6e-2764-11e6-b684-1187424a729f"	"225"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2097"	"PIK3R1"	5295	"mskcc.org"	"GRCh37"	"5"	67575339	67575339	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs370760704"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.503-91delG"	""	""	"ENST00000274335"	""	125	"."	4	57	"."	0	"PIK3R1,intron_variant,,ENST00000521381,NM_181523.2;PIK3R1,intron_variant,,ENST00000396611,;PIK3R1,intron_variant,,ENST00000274335,;PIK3R1,intron_variant,,ENST00000521657,;PIK3R1,intron_variant,,ENST00000520675,;PIK3R1,upstream_gene_variant,,ENST00000522084,;PIK3R1,upstream_gene_variant,,ENST00000523807,;"	"-"	"ENSG00000145675"	"ENST00000274335"	"Transcript"	"intron_variant"	"-/6435"	"-/2175"	"-/724"	""	""	"rs370760704"	"1"	NA	1	"PIK3R1"	"HGNC"	8979	"protein_coding"	""	"CCDS3993.1"	"ENSP00000274335"	"P27986"	"J7GXU7,J7GU64,E5RJY0,E5RHI0,E5RGI8,B3KWZ7"	"UPI000013D9FF"	""	NA	NA	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTGT"	"3adf18dc-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.032	"WXS"	TRUE
"2098"	"CDK7"	1022	"mskcc.org"	"GRCh37"	"5"	68569147	68569151	"+"	"Intron"	"DEL"	"TACTT"	"TACTT"	"-"	"rs67129724"	NA	"JHCCPT1"	"JHCCPN1"	"TACTT"	"TACTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.864+284_864+288delTACTT"	""	""	"ENST00000256443"	""	18	"."	7	6	"."	0	"CDK7,intron_variant,,ENST00000502604,;CDK7,intron_variant,,ENST00000256443,NM_001799.3;CDK7,intron_variant,,ENST00000514676,;CDK7,downstream_gene_variant,,ENST00000506563,;CDK7,downstream_gene_variant,,ENST00000513629,;CDK7,intron_variant,,ENST00000508726,;CDK7,downstream_gene_variant,,ENST00000510106,;CDK7,downstream_gene_variant,,ENST00000515391,;"	"-"	"ENSG00000134058"	"ENST00000256443"	"Transcript"	"intron_variant"	"-/1432"	"-/1041"	"-/346"	""	""	"rs67129724"	"1"	NA	1	"CDK7"	"HGNC"	1778	"protein_coding"	"YES"	"CCDS3999.1"	"ENSP00000256443"	"P50613"	"D6REC6,D6R9G1"	"UPI0000127431"	"NM_001799.3"	NA	NA	""	"10/11"	""	"-:0.1985"	"-:0.4304"	"-:0.098"	NA	"-:0.0526"	"-:0.0934"	"-:0.2147"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATACTTT"	"3b43f2ac-2764-11e6-b684-1187424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388888888888889	"WXS"	FALSE
"2099"	"RP11-1415C14.1"	0	"mskcc.org"	"GRCh37"	"5"	69515692	69515693	"+"	"3'Flank"	"INS"	"-"	"-"	"T"	"rs202180149"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000511282"	""	188	"."	10	87	"."	0	"RP11-1415C14.1,downstream_gene_variant,,ENST00000511282,;RP11-1415C14.3,downstream_gene_variant,,ENST00000417337,;RP11-1415C14.3,downstream_gene_variant,,ENST00000514522,;"	"T"	"ENSG00000251007"	"ENST00000511282"	"Transcript"	"downstream_gene_variant"	"-/1182"	""	""	""	""	"rs202180149"	"1"	"3742"	1	"RP11-1415C14.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.1118"	"T:0.1248"	"T:0.1326"	NA	"T:0.0923"	"T:0.0825"	"T:0.1299"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"5c78a22e-2764-11e6-b684-1187424a729f"	"213"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0531914893617021	"WXS"	FALSE
"2100"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	72231074	72231074	"+"	"IGR"	"DEL"	"G"	"-"	"-"	"rs34854538"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34854538"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4467"	"-:0.2791"	"-:0.6513"	NA	"-:0.3482"	"-:0.5477"	"-:0.5256"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCGG"	"3bdaacd8-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2101"	"FOXD1"	2297	"mskcc.org"	"GRCh37"	"5"	72743299	72743300	"+"	"Frame_Shift_Ins"	"INS"	"-"	"-"	"GC"	"rs587745355"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.888_889insGC"	"p.Arg297AlafsTer170"	"p.R297Afs*170"	"ENST00000499003"	"1/1"	24	"."	10	2	"."	0	"FOXD1,frameshift_variant,p.Arg297AlafsTer170,ENST00000499003,NM_004472.2;RP11-79P5.7,upstream_gene_variant,,ENST00000512310,;RP11-79P5.2,downstream_gene_variant,,ENST00000514661,;FOXD1,upstream_gene_variant,,ENST00000513595,;AC099522.1,splice_acceptor_variant,,ENST00000328926,;"	"GC"	"ENSG00000251493"	"ENST00000499003"	"Transcript"	"frameshift_variant"	"1053-1054/2270"	"888-889/1380"	"296-297/459"	"-/X"	"-/GC"	"rs587745355"	"1"	NA	-1	"FOXD1"	"HGNC"	3802	"protein_coding"	"YES"	""	"ENSP00000462795"	""	"J3KT45"	"UPI000268B492"	"NM_004472.2"	NA	NA	"1/1"	""	"Low_complexity_(Seg):seg,hmmpanther:PTHR11829,hmmpanther:PTHR11829:SF121"	"-:0.0162"	"GC:0.9697"	"GC:0.9914"	NA	"GC:0.9931"	"GC:0.9811"	"GC:0.9908"	"GC:1"	"GC:0.86"	NA	NA	""	""	NA	""	NA	"HIGH"	"1"	"insertion"	NA	NA	NA	"1"	"1"	"0"	"0"	"0"	"0"	"1"	"0"	"0"	NA	"PASS"	"CGC"	"5cee139c-2764-11e6-b684-1187424a729f"	"600"	1	"2/2"	"232/232"	"0/0"	"0/0"	"0/0"	"0/0"	"2/2"	"0/0"	"0/0"	"PASS"	"FALSE"	0.416666666666667	"WXS"	FALSE
"2102"	"ANKRD31"	256006	"mskcc.org"	"GRCh37"	"5"	74433834	74433835	"+"	"Intron"	"INS"	"-"	"-"	"C"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3734-12_3734-11insG"	""	""	"ENST00000506364"	""	83	"."	3	42	"."	0	"ANKRD31,intron_variant,,ENST00000506364,;ANKRD31,intron_variant,,ENST00000274361,NM_001164443.1;ANKRD31,intron_variant,,ENST00000504022,;"	"C"	"ENSG00000145700"	"ENST00000506364"	"Transcript"	"intron_variant"	"-/6207"	"-/5793"	"-/1930"	""	""	""	"1"	NA	-1	"ANKRD31"	"HGNC"	26853	"protein_coding"	"YES"	""	"ENSP00000427262"	""	"H0YAM5,D6RJB7"	"UPI0003B9283E"	""	NA	NA	""	"16/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"5d294368-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.036144578313253	"WXS"	FALSE
"2103"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	75310093	75310096	"+"	"IGR"	"DEL"	"GAAA"	"GAAA"	"-"	"rs71600476"	NA	"JHCCPT1"	"JHCCPN1"	"GAAA"	"GAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71600476"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAAG"	"3ccddc3c-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2104"	"IQGAP2"	10788	"mskcc.org"	"GRCh37"	"5"	75948269	75948270	"+"	"Intron"	"INS"	"-"	"-"	"TTA"	"rs3217250"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2095-305_2095-303dupTTA"	""	""	"ENST00000274364"	""	20	"."	7	5	"."	0	"IQGAP2,intron_variant,,ENST00000274364,NM_006633.2,NM_001285460.1;IQGAP2,intron_variant,,ENST00000379730,;IQGAP2,intron_variant,,ENST00000505766,;IQGAP2,intron_variant,,ENST00000502745,NM_001285462.1;IQGAP2,intron_variant,,ENST00000396234,NM_001285461.1;IQGAP2,intron_variant,,ENST00000514350,;IQGAP2,intron_variant,,ENST00000514001,;IQGAP2,upstream_gene_variant,,ENST00000514579,;"	"TTA"	"ENSG00000145703"	"ENST00000274364"	"Transcript"	"intron_variant"	"-/5844"	"-/4728"	"-/1575"	""	""	"rs3217250"	"1"	NA	1	"IQGAP2"	"HGNC"	6111	"protein_coding"	"YES"	"CCDS34188.1"	"ENSP00000274364"	"Q13576"	"E7EWC2,D6R939"	"UPI000020CB2C"	"NM_006633.2,NM_001285460.1"	NA	NA	""	"17/35"	""	"TTA:0.4185"	"TTA:0.4319"	"TTA:0.415"	NA	"TTA:0.2163"	"TTA:0.5626"	"TTA:0.4632"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"5d4c58e4-2764-11e6-b684-1187424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WXS"	FALSE
"2105"	"SCAMP1"	9522	"mskcc.org"	"GRCh37"	"5"	77730383	77730384	"+"	"Intron"	"INS"	"-"	"-"	"TCC"	"rs10640748"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.632+12607_632+12609dupCCT"	""	""	"ENST00000538629"	""	21	"."	6	4	"."	0	"SCAMP1,intron_variant,,ENST00000538629,NM_004866.4;SCAMP1,intron_variant,,ENST00000339292,;SCAMP1,intron_variant,,ENST00000320280,;SCAMP1,intron_variant,,ENST00000508822,;SCAMP1,intron_variant,,ENST00000509998,;"	"TCC"	"ENSG00000085365"	"ENST00000538629"	"Transcript"	"intron_variant"	"-/6245"	"-/1017"	"-/338"	""	""	"rs10640748"	"1"	NA	1	"SCAMP1"	"HGNC"	10563	"protein_coding"	"YES"	""	"ENSP00000475496"	""	"U3KQ30"	"UPI00001B94D7"	"NM_004866.4"	NA	NA	""	"6/8"	""	"-:0.1649"	"TCC:0.9455"	"TCC:0.562"	NA	"TCC:0.9236"	"TCC:0.7893"	"TCC:0.8354"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"5dadce4e-2764-11e6-b684-1187424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"2106"	"JMY"	133746	"mskcc.org"	"GRCh37"	"5"	78608354	78608354	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs376479667"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2064+33delC"	""	""	"ENST00000396137"	""	175	"."	6	89	"."	0	"JMY,intron_variant,,ENST00000396137,NM_152405.4;JMY,intron_variant,,ENST00000412001,;"	"-"	"ENSG00000152409"	"ENST00000396137"	"Transcript"	"intron_variant"	"-/9042"	"-/2967"	"-/988"	""	""	"rs376479667"	"1"	NA	1	"JMY"	"HGNC"	28916	"protein_coding"	"YES"	"CCDS4047.3"	"ENSP00000379441"	"Q8N9B5"	""	"UPI0000E5AC67"	"NM_152405.4"	NA	NA	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.01298"	"0.01876"	"0.017"	"0.01796"	"0.0151"	"0.01348"	"0.007663"	"0.006722"	NA	"common_variant"	"TTCT"	"3d5f8b00-2764-11e6-b684-1187424a729f"	"360"	0.01375	"1082/78716"	"1341/103332"	"116/6182"	"143/8412"	"102/5680"	"88/5826"	"556/41234"	"4/522"	"73/10860"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.0342857142857143	"WXS"	FALSE
"2107"	"CMYA5"	202333	"mskcc.org"	"GRCh37"	"5"	79037893	79037925	"+"	"Intron"	"DEL"	"TCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTTC"	"TCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTTC"	"-"	"rs759487804"	NA	"JHCCPT1"	"JHCCPN1"	"TCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTTC"	"TCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.10639-1756_10639-1724delCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTTCT"	""	""	"ENST00000446378"	""	21	"."	5	10	"."	0	"CMYA5,intron_variant,,ENST00000446378,NM_153610.3;CMYA5,intron_variant,,ENST00000506603,;"	"-"	"ENSG00000164309"	"ENST00000446378"	"Transcript"	"intron_variant"	"-/12847"	"-/12210"	"-/4069"	""	""	"rs759487804"	"1"	NA	1	"CMYA5"	"HGNC"	14305	"protein_coding"	"YES"	"CCDS47238.1"	"ENSP00000394770"	"Q8N3K9"	""	"UPI00004F9478"	"NM_153610.3"	NA	NA	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTTCT"	"3d7d3470-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WXS"	FALSE
"2108"	"RP11-168A11.1"	0	"mskcc.org"	"GRCh37"	"5"	79253743	79253744	"+"	"Intron"	"INS"	"-"	"-"	"GAAT"	"rs141272568"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.522-9636_522-9633dupATGA"	""	""	"ENST00000503167"	""	11	"."	5	1	"."	0	"RP11-168A11.1,intron_variant,,ENST00000503167,;"	"GAAT"	"ENSG00000250888"	"ENST00000503167"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/561"	""	""	""	""	"rs141272568"	"1"	NA	1	"RP11-168A11.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	"GAATGAAT:0.0260"	"GAATGAATGAAT:0.0113"	"GAATGAATGAAT:0.0029"	NA	"GAATGAATGAAT:0"	"GAATGAATGAAT:0.001"	"GAATGAATGAAT:0"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"34"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"5dd3a2d6-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"2109"	"MTX3"	345778	"mskcc.org"	"GRCh37"	"5"	79281748	79281749	"+"	"Intron"	"INS"	"-"	"-"	"TG"	"rs5869013"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.557-267_557-266insCA"	""	""	"ENST00000512560"	""	29	"."	4	16	"."	0	"MTX3,intron_variant,,ENST00000512560,NM_001167741.1;MTX3,intron_variant,,ENST00000509852,NM_001010891.4;MTX3,intron_variant,,ENST00000512528,;"	"TG"	"ENSG00000177034"	"ENST00000512560"	"Transcript"	"intron_variant"	"-/4799"	"-/756"	"-/251"	""	""	"rs5869013"	"1"	NA	-1	"MTX3"	"HGNC"	24812	"protein_coding"	"YES"	"CCDS54872.1"	"ENSP00000423600"	"Q5HYI7"	""	"UPI0001BDAB0C"	"NM_001167741.1"	NA	NA	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"5ddcfa16-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WXS"	FALSE
"2110"	"CTC-512J14.7"	0	"mskcc.org"	"GRCh37"	"5"	79595405	79595405	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"rs33987570"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000507366"	""	6	"."	4	2	"."	0	"CTC-512J14.7,downstream_gene_variant,,ENST00000507366,;"	"-"	"ENSG00000184188"	"ENST00000507366"	"Transcript"	"downstream_gene_variant"	"-/1101"	""	""	""	""	"rs33987570"	"1"	"92"	-1	"CTC-512J14.7"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4299"	"-:0.4932"	"-:0.3977"	NA	"-:0.4375"	"-:0.3837"	"-:0.407"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"3db6b4f2-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2111"	"RASGRF2"	5924	"mskcc.org"	"GRCh37"	"5"	80321860	80321875	"+"	"Intron"	"DEL"	"TCCTTCCATCCTTCCC"	"TCCTTCCATCCTTCCC"	"-"	"rs138766571"	NA	"JHCCPT1"	"JHCCPN1"	"TCCTTCCATCCTTCCC"	"TCCTTCCATCCTTCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.289-16835_289-16820delCCTTCCATCCTTCCCT"	""	""	"ENST00000265080"	""	11	"."	3	2	"."	0	"RASGRF2,intron_variant,,ENST00000265080,NM_006909.2;RASGRF2,intron_variant,,ENST00000514946,;RASGRF2,intron_variant,,ENST00000503795,;"	"-"	"ENSG00000113319"	"ENST00000265080"	"Transcript"	"intron_variant"	"-/8167"	"-/3714"	"-/1237"	""	""	"rs138766571"	"1"	NA	1	"RASGRF2"	"HGNC"	9876	"protein_coding"	"YES"	"CCDS4052.1"	"ENSP00000265080"	"O14827"	"Q68DX5"	"UPI0000047ABF"	"NM_006909.2"	NA	NA	""	"1/26"	""	"-:0.4411"	"-:0.6263"	"-:0.3357"	NA	"-:0.2738"	"-:0.4483"	"-:0.4305"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTCCTTCCATCCTTCCCT"	"3de7e360-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2112"	"RASGRF2"	5924	"mskcc.org"	"GRCh37"	"5"	80321983	80321990	"+"	"Intron"	"DEL"	"CTTCCTCC"	"CTTCCTCC"	"-"	"rs142024545"	NA	"JHCCPT1"	"JHCCPN1"	"CTTCCTCC"	"CTTCCTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.289-16699_289-16692delCCCTTCCT"	""	""	"ENST00000265080"	""	15	"."	3	3	"."	0	"RASGRF2,intron_variant,,ENST00000265080,NM_006909.2;RASGRF2,intron_variant,,ENST00000514946,;RASGRF2,intron_variant,,ENST00000503795,;"	"-"	"ENSG00000113319"	"ENST00000265080"	"Transcript"	"intron_variant"	"-/8167"	"-/3714"	"-/1237"	""	""	"rs142024545"	"1"	NA	1	"RASGRF2"	"HGNC"	9876	"protein_coding"	"YES"	"CCDS4052.1"	"ENSP00000265080"	"O14827"	"Q68DX5"	"UPI0000047ABF"	"NM_006909.2"	NA	NA	""	"1/26"	""	"-:0.4409"	"-:0.3661"	"-:0.5331"	NA	"-:0.3264"	"-:0.5388"	"-:0.4939"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"14"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCTTCCTCCC"	"3debf55e-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"2113"	"TMEM161B"	153396	"mskcc.org"	"GRCh37"	"5"	87502325	87502326	"+"	"Intron"	"DEL"	"GA"	"GA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GA"	"GA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.599-10_599-9delTC"	""	""	"ENST00000296595"	""	151	"."	3	57	"."	0	"TMEM161B,intron_variant,,ENST00000296595,NM_153354.3;TMEM161B,intron_variant,,ENST00000506536,;TMEM161B,intron_variant,,ENST00000514135,;TMEM161B,intron_variant,,ENST00000512429,;TMEM161B,intron_variant,,ENST00000511218,;TMEM161B,intron_variant,,ENST00000509387,;TMEM161B,intron_variant,,ENST00000503755,;TMEM161B,downstream_gene_variant,,ENST00000513487,;TMEM161B,intron_variant,,ENST00000510089,;TMEM161B,intron_variant,,ENST00000511087,;TMEM161B,intron_variant,,ENST00000507872,;"	"-"	"ENSG00000164180"	"ENST00000296595"	"Transcript"	"intron_variant"	"-/2594"	"-/1464"	"-/487"	""	""	""	"1"	NA	-1	"TMEM161B"	"HGNC"	28483	"protein_coding"	"YES"	"CCDS4065.1"	"ENSP00000296595"	"Q8NDZ6"	"D6RBE8,B7Z6T3"	"UPI000007229D"	"NM_153354.3"	NA	NA	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.003149"	"0.002819"	"0.004829"	"0.00622"	"0.002061"	"0.0033"	"0.003247"	"0.001786"	NA	"common_variant"	"GGGAA"	"3ed7ab7a-2764-11e6-b684-1187424a729f"	"180"	0.003298	"153/46388"	"327/103846"	"11/3902"	"26/5384"	"26/4180"	"7/3396"	"65/19698"	"1/308"	"17/9520"	"VQSRTrancheINDEL95.00to96.00"	"FALSE"	0.0198675496688742	"WXS"	FALSE
"2114"	"RHOBTB3"	22836	"mskcc.org"	"GRCh37"	"5"	95099506	95099507	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTG"	"rs113130788"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1161+205_1161+210dupTGTGTG"	""	""	"ENST00000379982"	""	42	"."	10	11	"."	0	"RHOBTB3,intron_variant,,ENST00000379982,NM_014899.3;GLRX,intron_variant,,ENST00000508780,;RHOBTB3,upstream_gene_variant,,ENST00000510313,;RHOBTB3,upstream_gene_variant,,ENST00000504179,;RHOBTB3,downstream_gene_variant,,ENST00000502541,;"	"TGTGTG"	"ENSG00000164292"	"ENST00000379982"	"Transcript"	"intron_variant"	"-/5537"	"-/1836"	"-/611"	""	""	"rs113130788"	"1"	NA	1	"RHOBTB3"	"HGNC"	18757	"protein_coding"	"YES"	"CCDS4077.1"	"ENSP00000369318"	"O94955"	""	"UPI0000367303"	"NM_014899.3"	NA	NA	""	"7/11"	""	"TGTGTG:0.3522"	"TGTGTGTGTG:0.09"	"TGTGTGTGTG:0.0144"	NA	"TGTGTGTGTG:0"	"TGTGTGTGTG:0.003"	"TGTGTGTGTG:0"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"28"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"5fc370c6-2764-11e6-b684-1187424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WXS"	FALSE
"2115"	"ERAP2"	64167	"mskcc.org"	"GRCh37"	"5"	96252944	96252944	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs5869740"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2740-220delG"	""	""	"ENST00000437043"	""	6	"."	3	3	"."	0	"ERAP2,intron_variant,,ENST00000437043,NM_001130140.1,NM_022350.3;ERAP2,intron_variant,,ENST00000379904,;ERAP2,downstream_gene_variant,,ENST00000512869,;CTD-2260A17.2,intron_variant,,ENST00000501338,;ERAP2,intron_variant,,ENST00000513084,;"	"-"	"ENSG00000164308"	"ENST00000437043"	"Transcript"	"intron_variant"	"-/5705"	"-/2883"	"-/960"	""	""	"rs5869740"	"1"	NA	1	"ERAP2"	"HGNC"	29499	"protein_coding"	"YES"	"CCDS4086.1"	"ENSP00000400376"	"Q6P179"	"D6RGW0"	"UPI0000036336"	"NM_001130140.1,NM_022350.3"	NA	NA	""	"18/18"	""	"-:0.3407"	"-:0.3238"	"-:0.3127"	NA	"-:0.3442"	"-:0.4046"	"-:0.3139"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"403a81ae-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2116"	"CTD-2260A17.2"	0	"mskcc.org"	"GRCh37"	"5"	96265173	96265173	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35867517"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1688+4653delA"	""	""	"ENST00000501338"	""	12	"."	4	5	"."	0	"CTD-2260A17.2,intron_variant,,ENST00000501338,;"	"-"	"ENSG00000247121"	"ENST00000501338"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2245"	""	""	""	""	"rs35867517"	"1"	NA	-1	"CTD-2260A17.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"-:0.3385"	"-:0.3162"	"-:0.3112"	NA	"-:0.3433"	"-:0.4046"	"-:0.3149"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTT"	"403ba32c-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2117"	"RIOK2"	55781	"mskcc.org"	"GRCh37"	"5"	96514033	96514062	"+"	"Intron"	"DEL"	"CAGTACCTACATGCTCTTCATGCTCTTCTA"	"CAGTACCTACATGCTCTTCATGCTCTTCTA"	"-"	"rs143107012"	NA	"JHCCPT1"	"JHCCPN1"	"CAGTACCTACATGCTCTTCATGCTCTTCTA"	"CAGTACCTACATGCTCTTCATGCTCTTCTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.206-510_206-481delTAGAAGAGCATGAAGAGCATGTAGGTACTG"	""	""	"ENST00000283109"	""	6	"."	4	1	"."	0	"RIOK2,intron_variant,,ENST00000283109,NM_018343.2;RIOK2,intron_variant,,ENST00000508447,NM_001159749.1;CTD-2215E18.1,intron_variant,,ENST00000509481,;RNU1-73P,upstream_gene_variant,,ENST00000383971,;RIOK2,intron_variant,,ENST00000508991,;RIOK2,downstream_gene_variant,,ENST00000510384,;RIOK2,downstream_gene_variant,,ENST00000511920,;"	"-"	"ENSG00000058729"	"ENST00000283109"	"Transcript"	"intron_variant"	"-/3922"	"-/1659"	"-/552"	""	""	"rs143107012"	"1"	NA	-1	"RIOK2"	"HGNC"	18999	"protein_coding"	"YES"	"CCDS4089.1"	"ENSP00000283109"	"Q9BVS4"	""	"UPI000013DD20"	"NM_018343.2"	NA	NA	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCAGTACCTACATGCTCTTCATGCTCTTCTAC"	"407566fc-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2118"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	98023187	98023198	"+"	"IGR"	"DEL"	"AGGAAGGAAGGA"	"AGGAAGGAAGGA"	"-"	"rs142323362"	NA	"JHCCPT1"	"JHCCPN1"	"AGGAAGGAAGGA"	"AGGAAGGAAGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142323362"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AGGAAGGAAGGA:0.1897"	"-:0.888"	"-:0.8761"	NA	"-:0.7847"	"-:0.836"	"-:0.6585"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAGGAAGGAAGGAA"	"407e9dda-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2119"	"NUDT12"	83594	"mskcc.org"	"GRCh37"	"5"	102891992	102891992	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs143398928"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.797-193delC"	""	""	"ENST00000230792"	""	18	"."	3	2	"."	0	"NUDT12,intron_variant,,ENST00000230792,NM_031438.2;NUDT12,intron_variant,,ENST00000507423,;NUDT12,upstream_gene_variant,,ENST00000515407,;NUDT12,downstream_gene_variant,,ENST00000508889,;"	"-"	"ENSG00000112874"	"ENST00000230792"	"Transcript"	"intron_variant"	"-/3492"	"-/1389"	"-/462"	""	""	"rs143398928"	"1"	NA	-1	"NUDT12"	"HGNC"	18826	"protein_coding"	"YES"	"CCDS4096.1"	"ENSP00000230792"	"Q9BQG2"	""	"UPI0000073C53"	"NM_031438.2"	NA	NA	""	"3/6"	""	"-:0.0801"	"-:0.0605"	"-:0.1484"	NA	"-:0.0129"	"-:0.162"	"-:0.0429"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"40e86d00-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"2120"	"RP11-6N13.1"	0	"mskcc.org"	"GRCh37"	"5"	104276475	104276482	"+"	"Intron"	"DEL"	"ACACACAC"	"ACACACAC"	"-"	"rs201864400"	NA	"JHCCPT1"	"JHCCPN1"	"ACACACAC"	"ACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.211-53806_211-53799delGTGTGTGT"	""	""	"ENST00000503650"	""	8	"."	4	5	"."	0	"RP11-6N13.1,intron_variant,,ENST00000503650,;CTD-2374C24.1,intron_variant,,ENST00000517758,;"	"-"	"ENSG00000251574"	"ENST00000503650"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/777"	""	""	""	""	"rs201864400"	"1"	NA	-1	"RP11-6N13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"ACACACAC:0.4681"	"-:0.2534"	"-:0.6974"	NA	"-:0.7292"	"-:0.5815"	"-:0.5368"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAACACACACA"	"410bcca0-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2121"	"FBXL17"	64839	"mskcc.org"	"GRCh37"	"5"	107394102	107394122	"+"	"Intron"	"DEL"	"CTTCTTTCTTTCTCTTTCTTT"	"CTTCTTTCTTTCTCTTTCTTT"	"-"	"rs138541567"	NA	"JHCCPT1"	"JHCCPN1"	"CTTCTTTCTTTCTCTTTCTTT"	"CTTCTTTCTTTCTCTTTCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1746-37420_1746-37400delAAAGAAAGAGAAAGAAAGAAG"	""	""	"ENST00000542267"	""	10	"."	4	1	"."	0	"FBXL17,intron_variant,,ENST00000542267,NM_001163315.2;FBXL17,intron_variant,,ENST00000359660,;FBXL17,intron_variant,,ENST00000496714,;FBXL17,intron_variant,,ENST00000481160,;"	"-"	"ENSG00000145743"	"ENST00000542267"	"Transcript"	"intron_variant"	"-/5188"	"-/2106"	"-/701"	""	""	"rs138541567"	"1"	NA	-1	"FBXL17"	"HGNC"	13615	"protein_coding"	"YES"	"CCDS54886.1"	"ENSP00000437464"	"Q9UF56"	""	"UPI00019B21FB"	"NM_001163315.2"	NA	NA	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTCTTTCTTTCTCTTTCTTTC"	"4134ff80-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2122"	"EPB41L4A"	64097	"mskcc.org"	"GRCh37"	"5"	111674730	111674731	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11396298"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.100-31544dupC"	""	""	"ENST00000261486"	""	7	"."	4	2	"."	0	"EPB41L4A,intron_variant,,ENST00000261486,NM_022140.3;EPB41L4A,intron_variant,,ENST00000512395,;EPB41L4A,intron_variant,,ENST00000305368,;"	"G"	"ENSG00000129595"	"ENST00000261486"	"Transcript"	"intron_variant"	"-/4707"	"-/2061"	"-/686"	""	""	"rs11396298"	"1"	NA	-1	"EPB41L4A"	"HGNC"	13278	"protein_coding"	"YES"	"CCDS43350.1"	"ENSP00000261486"	"Q9HCS5"	"Q8NEH8"	"UPI000020C3F8"	"NM_022140.3"	NA	NA	""	"1/22"	""	"-:0.1144"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"613ff0be-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2123"	"YTHDC2"	64848	"mskcc.org"	"GRCh37"	"5"	112889937	112889940	"+"	"Intron"	"DEL"	"TAAA"	"TAAA"	"-"	"rs72295461"	NA	"JHCCPT1"	"JHCCPN1"	"TAAA"	"TAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2133+221_2133+224delATAA"	""	""	"ENST00000161863"	""	17	"."	7	3	"."	0	"YTHDC2,intron_variant,,ENST00000161863,NM_022828.3;YTHDC2,intron_variant,,ENST00000515883,;YTHDC2,intron_variant,,ENST00000503857,;"	"-"	"ENSG00000047188"	"ENST00000161863"	"Transcript"	"intron_variant"	"-/6316"	"-/4293"	"-/1430"	""	""	"rs72295461"	"1"	NA	1	"YTHDC2"	"HGNC"	24721	"protein_coding"	"YES"	"CCDS4113.1"	"ENSP00000161863"	"Q9H6S0"	"D6RA70"	"UPI0000367311"	"NM_022828.3"	NA	NA	""	"16/29"	""	"-:0.0464"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTAAAT"	"4209e4c0-2764-11e6-b684-1187424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411764705882353	"WXS"	FALSE
"2124"	"COMMD10"	51397	"mskcc.org"	"GRCh37"	"5"	115628133	115628134	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs374981242"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.571-14_571-13delGT"	""	""	"ENST00000274458"	""	96	"."	3	44	"."	0	"COMMD10,intron_variant,,ENST00000274458,NM_016144.2;COMMD10,intron_variant,,ENST00000515539,;COMMD10,intron_variant,,ENST00000506589,;COMMD10,intron_variant,,ENST00000508250,;COMMD10,upstream_gene_variant,,ENST00000503424,;COMMD10,intron_variant,,ENST00000507356,;"	"-"	"ENSG00000145781"	"ENST00000274458"	"Transcript"	"intron_variant"	"-/1469"	"-/609"	"-/202"	""	""	"rs374981242"	"1"	NA	1	"COMMD10"	"HGNC"	30201	"protein_coding"	"YES"	"CCDS34215.1"	"ENSP00000274458"	"Q9Y6G5"	"D6RJ90"	"UPI0000034E1B"	"NM_016144.2"	NA	NA	""	"6/6"	""	"-:0.0054"	"-:0.0015"	"-:0.0072"	NA	"-:0.0119"	"-:0.005"	"-:0.0031"	"-:0.1822"	"-:0.1465"	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	"0.01005"	"0.002563"	"0.01338"	"0.01193"	"0.004147"	"0.00669"	"0.004518"	"0.008669"	NA	"common_variant"	"TTTGT"	"4276cb9e-2764-11e6-b684-1187424a729f"	"180"	0.007534	"779/103402"	"1062/105630"	"23/8974"	"142/10610"	"90/7546"	"27/6510"	"355/53064"	"3/664"	"139/16034"	"VQSRTrancheINDEL97.00to99.00"	"FALSE"	0.03125	"WXS"	FALSE
"2125"	"COMMD10"	51397	"mskcc.org"	"GRCh37"	"5"	115679969	115679970	"+"	"Intron"	"INS"	"-"	"-"	"CAGT"	"rs111378410"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.405-38003_405-38002insTCAG"	""	""	"ENST00000503424"	""	10	"."	5	9	"."	0	"COMMD10,intron_variant,,ENST00000503424,;"	"CAGT"	"ENSG00000145781"	"ENST00000503424"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/842"	""	""	""	""	"rs111378410"	"1"	NA	1	"COMMD10"	"HGNC"	30201	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"3/5"	""	"-:0.4479"	"CAGT:0.8306"	"CAGT:0.464"	NA	"CAGT:0.6071"	"CAGT:0.3131"	"CAGT:0.4274"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"61b2530c-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2126"	"PPIC"	5480	"mskcc.org"	"GRCh37"	"5"	122356799	122356800	"+"	"3'Flank"	"INS"	"-"	"-"	"C"	"rs147785627"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000306442"	""	9	"."	5	2	"."	0	"PPIC,downstream_gene_variant,,ENST00000306442,NM_000943.4;RN7SL689P,downstream_gene_variant,,ENST00000577215,;SNX24,intron_variant,,ENST00000510914,;SNX24,intron_variant,,ENST00000502387,;"	"C"	"ENSG00000168938"	"ENST00000306442"	"Transcript"	"downstream_gene_variant"	"-/1380"	"-/639"	"-/212"	""	""	"rs147785627"	"1"	"2145"	-1	"PPIC"	"HGNC"	9256	"protein_coding"	"YES"	"CCDS4133.1"	"ENSP00000303057"	"P45877"	""	"UPI0000128C7E"	"NM_000943.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"620569f2-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"2127"	"CTC-228N24.1"	728586	"mskcc.org"	"GRCh37"	"5"	127213367	127213368	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs5871278"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.591+2015dupT"	""	""	"ENST00000514853"	""	6	"."	5	1	"."	0	"CTC-228N24.1,intron_variant,,ENST00000514853,;"	"T"	"ENSG00000230561"	"ENST00000514853"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1044"	""	""	""	""	"rs5871278"	"1"	NA	1	"CTC-228N24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"6/6"	""	"-:0.3884"	"T:0.6316"	"T:0.611"	NA	"T:0.5437"	"T:0.673"	"T:0.592"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"6255d57c-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2128"	"ADAMTS19"	171019	"mskcc.org"	"GRCh37"	"5"	129020192	129020193	"+"	"Intron"	"INS"	"-"	"-"	"CATTATATTACATTA"	"rs143668031"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2800+231_2800+232insTATTACATTACATTA"	""	""	"ENST00000274487"	""	17	"."	4	4	"."	0	"ADAMTS19,intron_variant,,ENST00000274487,NM_133638.3;CTC-575N7.1,intron_variant,,ENST00000503616,;ADAMTS19,upstream_gene_variant,,ENST00000509467,;"	"CATTATATTACATTA"	"ENSG00000145808"	"ENST00000274487"	"Transcript"	"intron_variant"	"-/5234"	"-/3624"	"-/1207"	""	""	"rs143668031"	"1"	NA	1	"ADAMTS19"	"HGNC"	17111	"protein_coding"	"YES"	"CCDS4146.1"	"ENSP00000274487"	"Q8TE59"	""	"UPI000013DA0D"	"NM_133638.3"	NA	NA	""	"18/22"	""	"-:0.0463"	"CATTATATTACATTA:0.9902"	"CATTATATTACATTA:0.938"	NA	"CATTATATTACATTA:0.994"	"CATTATATTACATTA:0.9145"	"CATTATATTACATTA:0.9141"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"626b7fe4-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"2129"	"KIF3A"	11127	"mskcc.org"	"GRCh37"	"5"	132034482	132034489	"+"	"Intron"	"DEL"	"CATGATCT"	"CATGATCT"	"-"	"rs70974055"	NA	"JHCCPT1"	"JHCCPN1"	"CATGATCT"	"CATGATCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2051+374_2051+381delAGATCATG"	""	""	"ENST00000378746"	""	12	"."	7	3	"."	0	"KIF3A,intron_variant,,ENST00000378746,NM_007054.5;KIF3A,intron_variant,,ENST00000378735,;KIF3A,intron_variant,,ENST00000403231,;KIF3A,intron_variant,,ENST00000450441,;AC004237.1,intron_variant,,ENST00000431165,;KIF3A,intron_variant,,ENST00000488471,;KIF3A,downstream_gene_variant,,ENST00000487055,;"	"-"	"ENSG00000131437"	"ENST00000378746"	"Transcript"	"intron_variant"	"-/6325"	"-/2100"	"-/699"	""	""	"rs70974055"	"1"	NA	-1	"KIF3A"	"HGNC"	6319	"protein_coding"	"YES"	"CCDS34235.1"	"ENSP00000368020"	"Q9Y496"	""	"UPI000035B258"	"NM_007054.5"	NA	NA	""	"16/16"	""	"CATGATCT:0.1168"	"-:0.9002"	"-:0.8516"	NA	"-:0.9196"	"-:0.8887"	"-:0.8395"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCATGATCTC"	"44cac206-2764-11e6-b684-1187424a729f"	"418"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"2130"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	133137734	133137734	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs11297224"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11297224"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.0128"	"-:0.9546"	"-:0.9942"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAA"	"451c3b90-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2131"	"PPP2CA"	5515	"mskcc.org"	"GRCh37"	"5"	133535479	133535480	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11372221"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.738+546dupT"	""	""	"ENST00000481195"	""	7	"."	4	1	"."	0	"PPP2CA,intron_variant,,ENST00000481195,NM_002715.2;CTD-2410N18.5,intron_variant,,ENST00000519718,;PPP2CA,downstream_gene_variant,,ENST00000522385,;PPP2CA,downstream_gene_variant,,ENST00000523082,;PPP2CA,downstream_gene_variant,,ENST00000231504,;PPP2CA,downstream_gene_variant,,ENST00000495833,;PPP2CA,upstream_gene_variant,,ENST00000472253,;"	"A"	"ENSG00000113575"	"ENST00000481195"	"Transcript"	"intron_variant"	"-/4649"	"-/930"	"-/309"	""	""	"rs11372221"	"1"	NA	-1	"PPP2CA"	"HGNC"	9299	"protein_coding"	"YES"	"CCDS4173.1"	"ENSP00000418447"	"P67775"	"E5RHP4,B3KUN1,B3KQ51"	"UPI0000000C15"	"NM_002715.2"	NA	NA	""	"5/6"	""	"-:0.1859"	"A:0.9312"	"A:0.768"	NA	"A:0.5942"	"A:0.8827"	"A:0.8446"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"62db84c4-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2132"	"PPP2CA"	5515	"mskcc.org"	"GRCh37"	"5"	133541415	133541419	"+"	"Intron"	"DEL"	"TTTTG"	"TTTTG"	"-"	"rs3831747"	NA	"JHCCPT1"	"JHCCPN1"	"TTTTG"	"TTTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.312+194_312+198delCAAAA"	""	""	"ENST00000481195"	""	27	"."	9	8	"."	0	"CDKL3,3_prime_UTR_variant,,ENST00000609654,;PPP2CA,intron_variant,,ENST00000481195,NM_002715.2;PPP2CA,intron_variant,,ENST00000522385,;PPP2CA,intron_variant,,ENST00000523082,;CTD-2410N18.5,intron_variant,,ENST00000519718,;CDKL3,downstream_gene_variant,,ENST00000609383,;PPP2CA,intron_variant,,ENST00000231504,;CTD-2410N18.4,downstream_gene_variant,,ENST00000518409,;CTD-2410N18.4,non_coding_transcript_exon_variant,,ENST00000520515,;PPP2CA,upstream_gene_variant,,ENST00000495833,;"	"-"	"ENSG00000113575"	"ENST00000481195"	"Transcript"	"intron_variant"	"-/4649"	"-/930"	"-/309"	""	""	"rs3831747"	"1"	NA	-1	"PPP2CA"	"HGNC"	9299	"protein_coding"	"YES"	"CCDS4173.1"	"ENSP00000418447"	"P67775"	"E5RHP4,B3KUN1,B3KQ51"	"UPI0000000C15"	"NM_002715.2"	NA	NA	""	"2/6"	""	"-:0.1128"	"-:0.1566"	"-:0.1657"	NA	"-:0.0556"	"-:0.0924"	"-:0.0961"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTTTGT"	"45374124-2764-11e6-b684-1187424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2133"	"CDKL3"	51265	"mskcc.org"	"GRCh37"	"5"	133637580	133637583	"+"	"Intron"	"DEL"	"AAAC"	"AAAC"	"-"	"rs143683893"	NA	"JHCCPT1"	"JHCCPN1"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1719+698_1719+701delGTTT"	""	""	"ENST00000265334"	""	17	"."	4	5	"."	0	"CDKL3,intron_variant,,ENST00000521118,;CDKL3,intron_variant,,ENST00000265334,NM_001113575.1;CDKL3,intron_variant,,ENST00000523054,;CDKL3,intron_variant,,ENST00000609654,;CDKL3,intron_variant,,ENST00000435240,;CDKL3,intron_variant,,ENST00000536186,;CDKL3,intron_variant,,ENST00000609383,;CDKL3,intron_variant,,ENST00000518990,;CTD-2410N18.4,intron_variant,,ENST00000518409,;CTD-2410N18.4,intron_variant,,ENST00000520515,;CDKL3,intron_variant,,ENST00000520693,;CDKL3,intron_variant,,ENST00000519312,;"	"-"	"ENSG00000006837"	"ENST00000265334"	"Transcript"	"intron_variant"	"-/2127"	"-/1779"	"-/592"	""	""	"rs143683893"	"1"	NA	-1	"CDKL3"	"HGNC"	15483	"protein_coding"	"YES"	"CCDS47264.1"	"ENSP00000265334"	"Q8IVW4"	""	"UPI00000745AD"	"NM_001113575.1"	NA	NA	""	"12/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAACA"	"4541254a-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"2134"	"SEC24A"	10802	"mskcc.org"	"GRCh37"	"5"	134039743	134039746	"+"	"Intron"	"DEL"	"TTTA"	"TTTA"	"-"	"rs151247213"	NA	"JHCCPT1"	"JHCCPN1"	"TTTA"	"TTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2440+150_2440+153delTTAT"	""	""	"ENST00000398844"	""	9	"."	3	5	"."	0	"SEC24A,intron_variant,,ENST00000398844,NM_021982.2;RNU6-1164P,upstream_gene_variant,,ENST00000364428,;"	"-"	"ENSG00000113615"	"ENST00000398844"	"Transcript"	"intron_variant"	"-/6299"	"-/3282"	"-/1093"	""	""	"rs151247213"	"1"	NA	1	"SEC24A"	"HGNC"	10703	"protein_coding"	"YES"	"CCDS43363.1"	"ENSP00000381823"	"O95486"	""	"UPI0000185FF9"	"NM_021982.2"	NA	NA	""	"16/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"29"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTAT"	"456aa6a4-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2135"	"ENSR00001414158"	0	"mskcc.org"	"GRCh37"	"5"	135341853	135341857	"+"	"IGR"	"DEL"	"CGTAT"	"CGTAT"	"-"	"rs67401640"	NA	"JHCCPT1"	"JHCCPN1"	"CGTAT"	"CGTAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001414158"	""	8	"."	5	1	"."	0	""	"-"	""	"ENSR00001414158"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs67401640"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACGTATC"	"45c149aa-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"2136"	"SPOCK1"	6695	"mskcc.org"	"GRCh37"	"5"	136874720	136874721	"+"	"Intron"	"INS"	"-"	"-"	"CCGT"	"rs112874348"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.183-33328_183-33325dupACGG"	""	""	"ENST00000503916"	""	6	"."	4	1	"."	0	"SPOCK1,intron_variant,,ENST00000503916,;"	"CCGT"	"ENSG00000152377"	"ENST00000503916"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/480"	""	""	""	""	"rs112874348"	"1"	NA	-1	"SPOCK1"	"HGNC"	11251	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"1/4"	""	"-:0.1372"	"CCGT:0.649"	"CCGT:0.9553"	NA	"CCGT:0.9524"	"CCGT:0.9692"	"CCGT:0.8845"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"638e2dfe-2764-11e6-b684-1187424a729f"	"167"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2137"	"FAM13B"	51306	"mskcc.org"	"GRCh37"	"5"	137277975	137277976	"+"	"Intron"	"INS"	"-"	"-"	"AG"	"rs140192100"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2523-243_2523-242dupCT"	""	""	"ENST00000033079"	""	19	"."	3	9	"."	0	"FAM13B,intron_variant,,ENST00000033079,NM_016603.2;FAM13B,intron_variant,,ENST00000420893,NM_001101800.1;FAM13B,intron_variant,,ENST00000425075,NM_001101801.1;PKD2L2,intron_variant,,ENST00000508883,;PKD2L2,downstream_gene_variant,,ENST00000508638,NM_001258449.1;PKD2L2,downstream_gene_variant,,ENST00000290431,NM_014386.3;PKD2L2,downstream_gene_variant,,ENST00000502810,NM_001258448.1;FAM13B,downstream_gene_variant,,ENST00000513640,;"	"AG"	"ENSG00000031003"	"ENST00000033079"	"Transcript"	"intron_variant"	"-/5465"	"-/2748"	"-/915"	""	""	"rs140192100"	"1"	NA	-1	"FAM13B"	"HGNC"	1335	"protein_coding"	"YES"	"CCDS4195.1"	"ENSP00000033079"	"Q9NYF5"	"D6RE97,D6RDL7,D6RCA0,D6RBJ3,D6RAT6"	"UPI000004A03C"	"NM_016603.2"	NA	NA	""	"21/22"	""	"AG:0.1296"	"AG:0.1899"	"AG:0.1686"	NA	"AG:0.0288"	"AG:0.1799"	"AG:0.0726"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"63af7734-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WXS"	FALSE
"2138"	"FGF1"	2246	"mskcc.org"	"GRCh37"	"5"	142000919	142000920	"+"	"5'Flank"	"INS"	"-"	"-"	"TC"	"rs10674553"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000359370"	""	11	"."	4	5	"."	0	"FGF1,intron_variant,,ENST00000378046,NM_001257209.1,NM_001257211.1,NM_001257208.1;FGF1,intron_variant,,ENST00000337706,;FGF1,intron_variant,,ENST00000441680,;FGF1,intron_variant,,ENST00000407758,;FGF1,intron_variant,,ENST00000360966,NM_033136.3;FGF1,intron_variant,,ENST00000419524,;FGF1,intron_variant,,ENST00000411960,;FGF1,intron_variant,,ENST00000394496,;FGF1,upstream_gene_variant,,ENST00000359370,NM_001257212.1,NM_001144892.2,NM_001257210.1,NM_001257207.1,NM_001257206.1,NM_001257205.1,NM_000800.4,NM_001144935.1,NM_001144934.1,NM_033137.2;AC005592.2,intron_variant,,ENST00000443800,;AC005592.2,intron_variant,,ENST00000414314,;FGF1,intron_variant,,ENST00000494579,;FGF1,intron_variant,,ENST00000494344,;FGF1,intron_variant,,ENST00000489937,;"	"TC"	"ENSG00000113578"	"ENST00000359370"	"Transcript"	"upstream_gene_variant"	"-/3660"	"-/468"	"-/155"	""	""	"rs10674553"	"1"	"12"	-1	"FGF1"	"HGNC"	3665	"protein_coding"	"YES"	"CCDS4275.1"	"ENSP00000352329"	"P05230"	"Q9UBK1,Q6LBM3,C9JUP6,C9JDC5,A8K147"	"UPI00000411BE"	"NM_001257212.1,NM_001144892.2,NM_001257210.1,NM_001257207.1,NM_001257206.1,NM_001257205.1,NM_000800.4,NM_001144935.1,NM_001144934.1,NM_033137.2"	NA	NA	""	""	""	"TC:0.3552"	"TC:0.4856"	"TC:0.4107"	NA	"TC:0.3284"	"TC:0.2316"	"TC:0.2945"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"654be58c-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2139"	"ARHGAP26"	23092	"mskcc.org"	"GRCh37"	"5"	142308454	142308454	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs11286150"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1029-3157delA"	""	""	"ENST00000274498"	""	10	"."	3	1	"."	0	"ARHGAP26,intron_variant,,ENST00000378004,NM_001135608.1;ARHGAP26,intron_variant,,ENST00000274498,NM_015071.4;ARHGAP26,intron_variant,,ENST00000451259,;ARHGAP26,intron_variant,,ENST00000461314,;ARHGAP26,intron_variant,,ENST00000469396,;ARHGAP26,intron_variant,,ENST00000469131,;"	"-"	"ENSG00000145819"	"ENST00000274498"	"Transcript"	"intron_variant"	"-/6862"	"-/2445"	"-/814"	""	""	"rs11286150"	"1"	NA	1	"ARHGAP26"	"HGNC"	17073	"protein_coding"	"YES"	"CCDS4277.1"	"ENSP00000274498"	"Q9UNA1"	"Q9HBW4,Q8NFJ1,C9J6V4"	"UPI0000130D6B"	"NM_015071.4"	NA	NA	""	"10/22"	""	"A:0.4679"	"-:0.6558"	"-:0.4424"	NA	"-:0.6349"	"-:0.2624"	"-:0.6002"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCAA"	"48dfd700-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	TRUE
"2140"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	144540146	144540146	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs11333333"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11333333"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.4996"	"-:0.7239"	"-:0.5403"	NA	"-:0.3869"	"-:0.5298"	"-:0.2566"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"48fd2472-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2141"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	146929042	146929046	"+"	"IGR"	"DEL"	"TTCCC"	"TTCCC"	"-"	"rs34759209"	NA	"JHCCPT1"	"JHCCPN1"	"TTCCC"	"TTCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34759209"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4425"	"-:0.3048"	"-:0.4755"	NA	"-:0.6716"	"-:0.2982"	"-:0.5174"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTCCCT"	"493f97e4-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2142"	"MIR143HG"	728264	"mskcc.org"	"GRCh37"	"5"	148808875	148808876	"+"	"3'Flank"	"INS"	"-"	"-"	"T"	"rs34290100"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000602964"	""	14	"."	5	5	"."	0	"MIR143HG,downstream_gene_variant,,ENST00000602964,;MIR143HG,downstream_gene_variant,,ENST00000505254,;MIR145,upstream_gene_variant,,ENST00000602315,;MIR143HG,downstream_gene_variant,,ENST00000519898,;MIR143HG,downstream_gene_variant,,ENST00000512096,;MIR143HG,downstream_gene_variant,,ENST00000509909,;MIR143,downstream_gene_variant,,ENST00000385300,;MIR145,upstream_gene_variant,,ENST00000384967,;MIR143HG,downstream_gene_variant,,ENST00000522358,;"	"T"	"ENSG00000249669"	"ENST00000602964"	"Transcript"	"downstream_gene_variant"	"-/8398"	""	""	""	""	"rs34290100"	"1"	"634"	1	"MIR143HG"	"HGNC"	42872	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.2041"	"T:0.1074"	"T:0.304"	NA	"T:0.0347"	"T:0.3678"	"T:0.2699"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"66383950-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"2143"	"IRGM"	345611	"mskcc.org"	"GRCh37"	"5"	150258346	150258348	"+"	"Intron"	"DEL"	"TAT"	"TAT"	"-"	"rs10542952"	NA	"JHCCPT1"	"JHCCPN1"	"TAT"	"TAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*78+680_*78+682delATT"	""	""	"ENST00000520549"	""	7	"."	4	2	"."	0	"IRGM,intron_variant,,ENST00000520549,;"	"-"	"ENSG00000237693"	"ENST00000520549"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/503"	"-/216"	"-/71"	""	""	"rs10542952"	"1"	NA	1	"IRGM"	"HGNC"	29597	"nonsense_mediated_decay"	""	""	"ENSP00000429819"	""	""	"UPI0001E8F2F9"	""	NA	NA	""	"2/3"	""	"-:0.3073"	"-:0.5144"	"-:0.1499"	NA	"-:0.4315"	"-:0.1064"	"-:0.2178"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TATATT"	"4b0ec0c2-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2144"	"G3BP1"	10146	"mskcc.org"	"GRCh37"	"5"	151183898	151183899	"+"	"3'UTR"	"INS"	"-"	"-"	"A"	"rs140252175"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*255dupA"	""	""	"ENST00000394123"	"12/12"	24	"."	7	11	"."	0	"G3BP1,3_prime_UTR_variant,,ENST00000394123,;G3BP1,3_prime_UTR_variant,,ENST00000356245,NM_005754.2,NM_198395.1;G3BP1,downstream_gene_variant,,ENST00000543466,;G3BP1,3_prime_UTR_variant,,ENST00000520177,;G3BP1,downstream_gene_variant,,ENST00000522761,;"	"A"	"ENSG00000145907"	"ENST00000394123"	"Transcript"	"3_prime_UTR_variant"	"1792-1793/10240"	"-/1401"	"-/466"	""	""	"rs140252175"	"1"	NA	1	"G3BP1"	"HGNC"	30292	"protein_coding"	"YES"	"CCDS4319.1"	"ENSP00000377681"	"Q13283"	"Q5U0Q1,F5H4D6,E5RIF8,E5RI46,E5RH42"	"UPI0000030309"	""	NA	NA	"12/12"	""	""	"A:0.2348"	"A:0.0908"	"A:0.255"	NA	"A:0.3135"	"A:0.2634"	"A:0.3047"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"67291e56-2764-11e6-b684-1187424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WXS"	FALSE
"2145"	"LARP1"	23367	"mskcc.org"	"GRCh37"	"5"	154134818	154134819	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11416035"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.206-35065dupG"	""	""	"ENST00000336314"	""	10	"."	4	3	"."	0	"LARP1,intron_variant,,ENST00000336314,NM_015315.4;LARP1,upstream_gene_variant,,ENST00000518297,;LARP1,upstream_gene_variant,,ENST00000524248,;LARP1,upstream_gene_variant,,ENST00000519931,;LARP1,upstream_gene_variant,,ENST00000517616,;LARP1,upstream_gene_variant,,ENST00000518892,;LARP1,upstream_gene_variant,,ENST00000521577,;"	"G"	"ENSG00000155506"	"ENST00000336314"	"Transcript"	"intron_variant"	"-/6595"	"-/3060"	"-/1019"	""	""	"rs11416035"	"1"	NA	1	"LARP1"	"HGNC"	29531	"protein_coding"	"YES"	"CCDS4328.1"	"ENSP00000336721"	"Q6PKG0"	"E5RHK4,E5RH50"	"UPI00001DFE1B"	"NM_015315.4"	NA	NA	""	"1/18"	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"67421136-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2146"	"CTB-95D12.1"	0	"mskcc.org"	"GRCh37"	"5"	154870183	154870186	"+"	"5'Flank"	"DEL"	"TGTC"	"TGTC"	"-"	"rs67211153"	NA	"JHCCPT1"	"JHCCPN1"	"TGTC"	"TGTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000605123"	""	11	"."	3	6	"."	0	"CTB-95D12.1,upstream_gene_variant,,ENST00000605123,;"	"-"	"ENSG00000270442"	"ENST00000605123"	"Transcript"	"upstream_gene_variant"	"-/2263"	""	""	""	""	"rs67211153"	"1"	"710"	1	"CTB-95D12.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4133"	"-:0.3873"	"-:0.5159"	NA	"-:0.5129"	"-:0.2913"	"-:0.3988"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGTCT"	"4c4ff21c-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2147"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	155004394	155004396	"+"	"IGR"	"DEL"	"AGA"	"AGA"	"-"	"rs10592637"	NA	"JHCCPT1"	"JHCCPN1"	"AGA"	"AGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	4	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10592637"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2220"	"-:0.4168"	"-:0.1527"	NA	"-:0.1657"	"-:0.1173"	"-:0.1738"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAGAA"	"4c67376a-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"2148"	"HAVCR1"	26762	"mskcc.org"	"GRCh37"	"5"	156470149	156470151	"+"	"Intron"	"DEL"	"AGA"	"AGA"	"-"	"rs3215120"	NA	"JHCCPT1"	"JHCCPN1"	"AGA"	"AGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.782-458_782-456delTCT"	""	""	"ENST00000339252"	""	7	"."	3	2	"."	0	"HAVCR1,intron_variant,,ENST00000339252,NM_012206.2;HAVCR1,intron_variant,,ENST00000425854,;HAVCR1,intron_variant,,ENST00000522693,;HAVCR1,intron_variant,,ENST00000544197,NM_001099414.1;HAVCR1,intron_variant,,ENST00000523175,NM_001173393.1;HAVCR1,intron_variant,,ENST00000517644,;"	"-"	"ENSG00000113249"	"ENST00000339252"	"Transcript"	"intron_variant"	"-/1845"	"-/1095"	"-/364"	""	""	"rs3215120"	"1"	NA	-1	"HAVCR1"	"HGNC"	17866	"protein_coding"	"YES"	"CCDS43392.1"	"ENSP00000344844"	"Q96D42"	"E5RIF6"	"UPI000006EEEC"	"NM_012206.2"	NA	NA	""	"4/7"	""	"-:0.3836"	"-:0.1074"	"-:0.3718"	NA	"-:0.6379"	"-:0.3579"	"-:0.5297"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAGAA"	"4c889b8a-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2149"	"CYFIP2"	26999	"mskcc.org"	"GRCh37"	"5"	156734666	156734667	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.718-87_718-86delTG"	""	""	"ENST00000521420"	""	95	"."	3	38	"."	0	"CYFIP2,intron_variant,,ENST00000347377,NM_001037332.2;CYFIP2,intron_variant,,ENST00000377576,NM_014376.2;CYFIP2,intron_variant,,ENST00000318218,;CYFIP2,intron_variant,,ENST00000521420,;CYFIP2,intron_variant,,ENST00000541131,;CYFIP2,intron_variant,,ENST00000442283,NM_001037333.1;CYFIP2,intron_variant,,ENST00000522463,;CYFIP2,upstream_gene_variant,,ENST00000435847,;CYFIP2,intron_variant,,ENST00000519153,;CYFIP2,intron_variant,,ENST00000523969,;CYFIP2,intron_variant,,ENST00000520759,;CYFIP2,intron_variant,,ENST00000517753,;CYFIP2,intron_variant,,ENST00000523119,;CYFIP2,intron_variant,,ENST00000519252,;CYFIP2,downstream_gene_variant,,ENST00000519002,;CYFIP2,downstream_gene_variant,,ENST00000522423,;CYFIP2,downstream_gene_variant,,ENST00000517850,;CYFIP2,upstream_gene_variant,,ENST00000520942,;CYFIP2,downstream_gene_variant,,ENST00000522637,;CYFIP2,downstream_gene_variant,,ENST00000518511,;"	"-"	"ENSG00000055163"	"ENST00000521420"	"Transcript"	"intron_variant"	"-/6370"	"-/3684"	"-/1227"	""	""	""	"1"	NA	1	"CYFIP2"	"HGNC"	13760	"protein_coding"	"YES"	""	"ENSP00000430904"	""	"E7EVJ5"	"UPI0001D55E6B"	""	NA	NA	""	"7/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATGT"	"4cfe59e2-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0315789473684211	"WXS"	FALSE
"2150"	"ENSR00001774447"	0	"mskcc.org"	"GRCh37"	"5"	159067908	159067909	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs34484678"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001774447"	""	9	"."	4	4	"."	0	""	"G"	""	"ENSR00001774447"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs34484678"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.3980"	"G:0.646"	"G:0.3112"	NA	"G:0.2937"	"G:0.3648"	"G:0.2658"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"67d317c6-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2151"	"FABP6"	2172	"mskcc.org"	"GRCh37"	"5"	159656829	159656848	"+"	"Intron"	"DEL"	"TTTTATTTTATTTTATTTTA"	"TTTTATTTTATTTTATTTTA"	"-"	"rs200570698"	NA	"JHCCPT1"	"JHCCPN1"	"TTTTATTTTATTTTATTTTA"	"TTTTATTTTATTTTATTTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.214+247_214+266delATTTTATTTTATTTTATTTT"	""	""	"ENST00000393980"	""	27	"."	4	13	"."	0	"FABP6,intron_variant,,ENST00000393980,NM_001130958.1;FABP6,intron_variant,,ENST00000393982,NM_001040442.1;FABP6,intron_variant,,ENST00000402432,NM_001445.2;FABP6,intron_variant,,ENST00000523955,;FABP6,upstream_gene_variant,,ENST00000521362,;"	"-"	"ENSG00000170231"	"ENST00000393980"	"Transcript"	"intron_variant"	"-/756"	"-/534"	"-/177"	""	""	"rs200570698"	"1"	NA	1	"FABP6"	"HGNC"	3561	"protein_coding"	"YES"	"CCDS43393.1"	"ENSP00000377549"	"P51161"	"Q8IUB1"	"UPI000020C072"	"NM_001130958.1"	NA	NA	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"49"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTTATTTTATTTTATTTTAT"	"4dc1fabe-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WXS"	FALSE
"2152"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	165827169	165827170	"+"	"IGR"	"INS"	"-"	"-"	"ACACACAC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	2	"."	0	""	"ACACACAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"6819fff6-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2153"	"TENM2"	57451	"mskcc.org"	"GRCh37"	"5"	167398268	167398271	"+"	"Intron"	"DEL"	"AGAA"	"AGAA"	"-"	"rs72370570"	NA	"JHCCPT1"	"JHCCPN1"	"AGAA"	"AGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.947+18447_947+18450delAAAG"	""	""	"ENST00000518659"	""	8	"."	5	2	"."	0	"TENM2,intron_variant,,ENST00000519204,;TENM2,intron_variant,,ENST00000403607,;TENM2,intron_variant,,ENST00000518659,NM_001122679.1;TENM2,intron_variant,,ENST00000545108,;TENM2,intron_variant,,ENST00000520394,;CTB-77H17.1,upstream_gene_variant,,ENST00000518837,;TENM2,intron_variant,,ENST00000518693,;TENM2,intron_variant,,ENST00000520393,;TENM2,intron_variant,,ENST00000522488,;"	"-"	"ENSG00000145934"	"ENST00000518659"	"Transcript"	"intron_variant"	"-/8550"	"-/8325"	"-/2774"	""	""	"rs72370570"	"1"	NA	1	"TENM2"	"HGNC"	29943	"protein_coding"	"YES"	""	"ENSP00000429430"	"Q9NT68"	"G8BLJ6,G3CAS7"	"UPI0001C48FC2"	"NM_001122679.1"	NA	NA	""	"4/28"	""	"AGAA:0.4736"	"-:0.5719"	"-:0.5533"	NA	"-:0.6399"	"-:0.332"	"-:0.5286"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGAAA"	"4e63ad78-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"2154"	"DOCK2"	1794	"mskcc.org"	"GRCh37"	"5"	169131456	169131456	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs34992489"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1383+2028delG"	""	""	"ENST00000256935"	""	8	"."	4	3	"."	0	"DOCK2,intron_variant,,ENST00000256935,NM_004946.2;DOCK2,intron_variant,,ENST00000520908,;DOCK2,intron_variant,,ENST00000540750,;DOCK2,downstream_gene_variant,,ENST00000523684,;DOCK2,downstream_gene_variant,,ENST00000519734,;DOCK2,intron_variant,,ENST00000524185,;DOCK2,downstream_gene_variant,,ENST00000519223,;"	"-"	"ENSG00000134516"	"ENST00000256935"	"Transcript"	"intron_variant"	"-/6097"	"-/5493"	"-/1830"	""	""	"rs34992489"	"1"	NA	1	"DOCK2"	"HGNC"	2988	"protein_coding"	"YES"	"CCDS4371.1"	"ENSP00000256935"	"Q92608"	"Q5XG91,B3KXW9"	"UPI00001A38CC"	"NM_004946.2"	NA	NA	""	"14/51"	""	"-:0.1146"	"-:0.031"	"-:0.0865"	NA	"-:0.12"	"-:0.1918"	"-:0.1626"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGG"	"4ea99612-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2155"	"DOCK2"	1794	"mskcc.org"	"GRCh37"	"5"	169206428	169206428	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs70979144"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2554+17804delG"	""	""	"ENST00000256935"	""	10	"."	4	1	"."	0	"DOCK2,intron_variant,,ENST00000256935,NM_004946.2;DOCK2,intron_variant,,ENST00000520908,;DOCK2,intron_variant,,ENST00000540750,;DOCK2,intron_variant,,ENST00000519628,;CTB-37A13.1,upstream_gene_variant,,ENST00000523398,;DOCK2,intron_variant,,ENST00000523351,;DOCK2,intron_variant,,ENST00000520181,;DOCK2,intron_variant,,ENST00000520836,;DOCK2,intron_variant,,ENST00000524185,;"	"-"	"ENSG00000134516"	"ENST00000256935"	"Transcript"	"intron_variant"	"-/6097"	"-/5493"	"-/1830"	""	""	"rs70979144"	"1"	NA	1	"DOCK2"	"HGNC"	2988	"protein_coding"	"YES"	"CCDS4371.1"	"ENSP00000256935"	"Q92608"	"Q5XG91,B3KXW9"	"UPI00001A38CC"	"NM_004946.2"	NA	NA	""	"25/51"	""	"-:0.0919"	"-:0.0098"	"-:0.0706"	NA	"-:0.0734"	"-:0.1879"	"-:0.138"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGG"	"4eaacbe0-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2156"	"DOCK2"	1794	"mskcc.org"	"GRCh37"	"5"	169293102	169293103	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs113186074"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2799+25251dupG"	""	""	"ENST00000256935"	""	14	"."	3	3	"."	0	"DOCK2,intron_variant,,ENST00000256935,NM_004946.2;DOCK2,intron_variant,,ENST00000520908,;DOCK2,intron_variant,,ENST00000540750,;FAM196B,intron_variant,,ENST00000377365,NM_001129891.1;DOCK2,intron_variant,,ENST00000519628,;DOCK2,intron_variant,,ENST00000523351,;DOCK2,intron_variant,,ENST00000520181,;DOCK2,intron_variant,,ENST00000524185,;"	"G"	"ENSG00000134516"	"ENST00000256935"	"Transcript"	"intron_variant"	"-/6097"	"-/5493"	"-/1830"	""	""	"rs113186074"	"1"	NA	1	"DOCK2"	"HGNC"	2988	"protein_coding"	"YES"	"CCDS4371.1"	"ENSP00000256935"	"Q92608"	"Q5XG91,B3KXW9"	"UPI00001A38CC"	"NM_004946.2"	NA	NA	""	"27/51"	""	"G:0.1038"	"G:0.0439"	"G:0.1772"	NA	"G:0.1111"	"G:0.1441"	"G:0.0838"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"68577a48-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"2157"	"DOCK2"	1794	"mskcc.org"	"GRCh37"	"5"	169442571	169442572	"+"	"Intron"	"INS"	"-"	"-"	"TTTG"	"rs113103035"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3233-3373_3233-3370dupGTTT"	""	""	"ENST00000256935"	""	11	"."	5	2	"."	0	"DOCK2,intron_variant,,ENST00000256935,NM_004946.2;DOCK2,intron_variant,,ENST00000520908,;DOCK2,intron_variant,,ENST00000540750,;DOCK2,intron_variant,,ENST00000523351,;DOCK2,intron_variant,,ENST00000524185,;DOCK2,intron_variant,,ENST00000433448,;"	"TTTG"	"ENSG00000134516"	"ENST00000256935"	"Transcript"	"intron_variant"	"-/6097"	"-/5493"	"-/1830"	""	""	"rs113103035"	"1"	NA	1	"DOCK2"	"HGNC"	2988	"protein_coding"	"YES"	"CCDS4371.1"	"ENSP00000256935"	"Q92608"	"Q5XG91,B3KXW9"	"UPI00001A38CC"	"NM_004946.2"	NA	NA	""	"32/51"	""	"GTTTG:0.0327"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"23"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"685834ba-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"2158"	"LCP2"	3937	"mskcc.org"	"GRCh37"	"5"	169688488	169688489	"+"	"Intron"	"INS"	"-"	"-"	"ACATAT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.927-348_927-347insATATGT"	""	""	"ENST00000046794"	""	12	"."	3	3	"."	0	"LCP2,intron_variant,,ENST00000046794,NM_005565.3;LCP2,intron_variant,,ENST00000521416,;LCP2,intron_variant,,ENST00000520344,;LCP2,upstream_gene_variant,,ENST00000523369,;"	"ACATAT"	"ENSG00000043462"	"ENST00000046794"	"Transcript"	"intron_variant"	"-/4678"	"-/1602"	"-/533"	""	""	""	"1"	NA	-1	"LCP2"	"HGNC"	6529	"protein_coding"	"YES"	"CCDS47339.1"	"ENSP00000046794"	"Q13094"	""	"UPI000012E2AE"	"NM_005565.3"	NA	NA	""	"13/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"686097f4-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2159"	"KCNIP1"	30820	"mskcc.org"	"GRCh37"	"5"	170103178	170103197	"+"	"Intron"	"DEL"	"AAGGAAAGGAAAGGAAAGGA"	"AAGGAAAGGAAAGGAAAGGA"	"-"	"rs147050444"	NA	"JHCCPT1"	"JHCCPN1"	"AAGGAAAGGAAAGGAAAGGA"	"AAGGAAAGGAAAGGAAAGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.62-36650_62-36631delAAGGAAAGGAAAGGAAAGGA"	""	""	"ENST00000411494"	""	12	"."	4	1	"."	0	"KCNIP1,intron_variant,,ENST00000328939,NM_001034837.2,NM_014592.3,NM_001278339.1;KCNIP1,intron_variant,,ENST00000390656,;KCNIP1,intron_variant,,ENST00000520740,NM_001278340.1;KCNIP1,intron_variant,,ENST00000377360,NM_001034838.2;KCNIP1,intron_variant,,ENST00000434108,;KCNIP1,intron_variant,,ENST00000411494,;CTC-265N9.1,intron_variant,,ENST00000523591,;"	"-"	"ENSG00000182132"	"ENST00000411494"	"Transcript"	"intron_variant"	"-/684"	"-/684"	"-/227"	""	""	"rs147050444"	"1"	NA	1	"KCNIP1"	"HGNC"	15521	"protein_coding"	"YES"	"CCDS34286.1"	"ENSP00000395323"	"Q9NZI2"	""	"UPI000004A27F"	""	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"30"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAAGGAAAGGAAAGGAAAGGAA"	"4ed43b60-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2160"	"RANBP17"	64901	"mskcc.org"	"GRCh37"	"5"	170340777	170340778	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35892185"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.761-393dupT"	""	""	"ENST00000523189"	""	9	"."	5	3	"."	0	"RANBP17,intron_variant,,ENST00000523189,NM_022897.3;RANBP17,intron_variant,,ENST00000522734,;RANBP17,upstream_gene_variant,,ENST00000520879,;RANBP17,intron_variant,,ENST00000522066,;RANBP17,intron_variant,,ENST00000519949,;RANBP17,intron_variant,,ENST00000520864,;RANBP17,intron_variant,,ENST00000522533,;RANBP17,intron_variant,,ENST00000389118,;RANBP17,intron_variant,,ENST00000519256,;RANBP17,downstream_gene_variant,,ENST00000519130,;RANBP17,downstream_gene_variant,,ENST00000443155,;"	"T"	"ENSG00000204764"	"ENST00000523189"	"Transcript"	"intron_variant"	"-/4588"	"-/3267"	"-/1088"	""	""	"rs35892185"	"1"	NA	1	"RANBP17"	"HGNC"	14428	"protein_coding"	"YES"	"CCDS34287.1"	"ENSP00000427975"	"Q9H2T7"	"Q546R4,E5RHX1"	"UPI000000107C"	"NM_022897.3"	NA	NA	""	"7/27"	""	"-:0.3588"	"T:0.3132"	"T:0.6398"	NA	"T:0.7808"	"T:0.6819"	"T:0.8998"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"6869bf5a-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	TRUE
"2161"	"SNORA70"	0	"mskcc.org"	"GRCh37"	"5"	170792158	170792158	"+"	"5'Flank"	"DEL"	"T"	"T"	"-"	"rs140633071"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384182"	""	11	"."	6	3	"."	0	"SNORA70,upstream_gene_variant,,ENST00000384182,;RP11-117L6.1,upstream_gene_variant,,ENST00000522496,;RP11-546B8.5,upstream_gene_variant,,ENST00000522888,;"	"-"	"ENSG00000206909"	"ENST00000384182"	"Transcript"	"upstream_gene_variant"	"-/135"	""	""	""	""	"rs140633071"	"1"	"964"	1	"SNORA70"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1346"	"-:0.2769"	"-:0.0994"	NA	"-:0.001"	"-:0.1859"	"-:0.0521"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATT"	"4ef197be-2764-11e6-b684-1187424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"2162"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	170924424	170924425	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs35180311"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	5	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35180311"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.1224"	"T:0.3207"	"T:0.0432"	NA	"T:0.0486"	"T:0.0219"	"T:0.09"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"6875eabe-2764-11e6-b684-1187424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"2163"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	172630412	172630413	"+"	"IGR"	"INS"	"-"	"-"	"CCCTC"	"rs201330011"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"."	4	6	"."	0	""	"CCCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201330011"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"68acafd6-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"2164"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	172728055	172728074	"+"	"IGR"	"DEL"	"TTCTTTCTTTCTTTCTTTCC"	"TTCTTTCTTTCTTTCTTTCC"	"-"	"rs201300279"	NA	"JHCCPT1"	"JHCCPN1"	"TTCTTTCTTTCTTTCTTTCC"	"TTCTTTCTTTCTTTCTTTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201300279"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTCTTTCTTTCTTTCTTTCCT"	"4f6f047e-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2165"	"RP11-267A15.1"	0	"mskcc.org"	"GRCh37"	"5"	173950477	173950477	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs770541025"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.342-587delG"	""	""	"ENST00000510234"	""	8	"."	4	4	"."	0	"RP11-267A15.1,intron_variant,,ENST00000510234,;RP11-267A15.1,intron_variant,,ENST00000507361,;RP11-267A15.1,intron_variant,,ENST00000515513,;RP11-267A15.1,intron_variant,,ENST00000506862,;RP11-267A15.1,intron_variant,,ENST00000504512,;RP11-267A15.1,downstream_gene_variant,,ENST00000511707,;"	"-"	"ENSG00000249306"	"ENST00000510234"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/844"	""	""	""	""	"rs770541025"	"1"	NA	1	"RP11-267A15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"4f83a15e-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2166"	"CTD-2532K18.1"	0	"mskcc.org"	"GRCh37"	"5"	174237470	174237473	"+"	"Intron"	"DEL"	"TCTT"	"TCTT"	"-"	"rs10585769"	NA	"JHCCPT1"	"JHCCPN1"	"TCTT"	"TCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.51-37138_51-37135delCTTT"	""	""	"ENST00000502684"	""	9	"."	4	3	"."	0	"CTD-2532K18.1,intron_variant,,ENST00000502684,;"	"-"	"ENSG00000251670"	"ENST00000502684"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/457"	""	""	""	""	"rs10585769"	"1"	NA	1	"CTD-2532K18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"-:0.2600"	"-:0.3275"	"-:0.2622"	NA	"-:0.1161"	"-:0.3131"	"-:0.2607"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTCTTT"	"4f8da532-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2167"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	175077724	175077725	"+"	"IGR"	"INS"	"-"	"-"	"CTT"	"rs535652143"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	3	2	"."	0	""	"CTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs535652143"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"68d68aae-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"2168"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	175321274	175321274	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs70991504"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs70991504"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.3786"	"-:0.3654"	"-:0.6657"	NA	"-:0.8899"	"-:0.5815"	"-:0.7004"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTA"	"4fa671a2-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2169"	"AC136604.1"	0	"mskcc.org"	"GRCh37"	"5"	179081305	179081306	"+"	"3'Flank"	"INS"	"-"	"-"	"AG"	"rs140395648"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000425471"	""	6	"."	4	3	"."	0	"AC136604.1,downstream_gene_variant,,ENST00000425471,;AC136604.1,downstream_gene_variant,,ENST00000418535,;RP11-1379J22.5,upstream_gene_variant,,ENST00000514793,;RP11-1379J22.5,upstream_gene_variant,,ENST00000508188,;RP11-1379J22.5,upstream_gene_variant,,ENST00000503428,;"	"AG"	"ENSG00000228259"	"ENST00000425471"	"Transcript"	"downstream_gene_variant"	"-/777"	"-/777"	"-/258"	""	""	"rs140395648"	"1"	"2011"	1	"AC136604.1"	"Clone_based_ensembl_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000388857"	"Q8NA96"	"I3L0D6"	"UPI0001AE74B2"	""	NA	NA	""	""	""	"-:0.0395"	"AG:0.8608"	"AG:0.9827"	NA	"AG:1"	"AG:0.998"	"AG:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"69a0d322-2764-11e6-b684-1187424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2170"	"RASGEF1C"	255426	"mskcc.org"	"GRCh37"	"5"	179562045	179562046	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs71974375"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.438+1332dupG"	""	""	"ENST00000393371"	""	9	"."	3	3	"."	0	"RASGEF1C,intron_variant,,ENST00000393371,;RASGEF1C,intron_variant,,ENST00000361132,NM_175062.3;RASGEF1C,intron_variant,,ENST00000522500,;RASGEF1C,intron_variant,,ENST00000519883,;RASGEF1C,intron_variant,,ENST00000520209,;"	"C"	"ENSG00000146090"	"ENST00000393371"	"Transcript"	"intron_variant"	"-/2395"	"-/1401"	"-/466"	""	""	"rs71974375"	"1"	NA	-1	"RASGEF1C"	"HGNC"	27400	"protein_coding"	"YES"	"CCDS4452.1"	"ENSP00000377037"	"Q8N431"	""	"UPI0000037308"	""	NA	NA	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"69e250f4-2764-11e6-b684-1187424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2171"	"GFPT2"	9945	"mskcc.org"	"GRCh37"	"5"	179780324	179780341	"+"	"5'UTR"	"DEL"	"GCGGGCTCCAGCTCCCGT"	"GCGGGCTCCAGCTCCCGT"	"AGCTCCCG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GCGGGCTCCAGCTCCCGT"	"GCGGGCTCCAGCTCCCGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-124_-107delACGGGAGCTGGAGCCCGCinsCGGGAGCT"	""	""	"ENST00000253778"	"1/19"	119	"."	33	95	"."	0	"GFPT2,5_prime_UTR_variant,,ENST00000253778,NM_005110.2;GFPT2,upstream_gene_variant,,ENST00000503228,;GFPT2,non_coding_transcript_exon_variant,,ENST00000503546,;GFPT2,non_coding_transcript_exon_variant,,ENST00000518158,;"	"AGCTCCCG"	"ENSG00000131459"	"ENST00000253778"	"Transcript"	"5_prime_UTR_variant"	"47-64/3093"	"-/2049"	"-/682"	""	""	""	"1"	NA	-1	"GFPT2"	"HGNC"	4242	"protein_coding"	"YES"	"CCDS43411.1"	"ENSP00000253778"	"O94808"	"B3KM63"	"UPI000014F5AC"	"NM_005110.2"	NA	NA	"1/19"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGCGGGCTCCAGCTCCCGTC"	"542733f6-2764-11e6-b684-1187424a729f"	"1980"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277310924369748	"WXS"	FALSE
"2172"	"GMDS"	2762	"mskcc.org"	"GRCh37"	"6"	1675106	1675107	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs34059761"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.988-50332dupA"	""	""	"ENST00000380815"	""	7	"."	5	1	"."	0	"GMDS,intron_variant,,ENST00000380815,NM_001500.3;GMDS,intron_variant,,ENST00000530927,NM_001253846.1;GMDS,downstream_gene_variant,,ENST00000533279,;GMDS,intron_variant,,ENST00000380805,;"	"T"	"ENSG00000112699"	"ENST00000380815"	"Transcript"	"intron_variant"	"-/1752"	"-/1119"	"-/372"	""	""	"rs34059761"	"1"	NA	-1	"GMDS"	"HGNC"	4369	"protein_coding"	"YES"	"CCDS4474.1"	"ENSP00000370194"	"O60547"	""	"UPI000012B8AA"	"NM_001500.3"	NA	NA	""	"9/10"	""	"T:0.2875"	"T:0.2602"	"T:0.2334"	NA	"T:0.1806"	"T:0.3877"	"T:0.3701"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"53940338-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2173"	"RP11-420G6.4"	0	"mskcc.org"	"GRCh37"	"6"	2861513	2861517	"+"	"Intron"	"DEL"	"TCTTT"	"TCTTT"	"-"	"rs200560708"	NA	"JHCCPT1"	"JHCCPN1"	"TCTTT"	"TCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.219-5593_219-5589delAAAGA"	""	""	"ENST00000420981"	""	17	"."	3	9	"."	0	"RP11-420G6.4,intron_variant,,ENST00000545177,;RP11-420G6.4,intron_variant,,ENST00000420981,;"	"-"	"ENSG00000230438"	"ENST00000420981"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/983"	""	""	""	""	"rs200560708"	"1"	NA	-1	"RP11-420G6.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTTTT"	"2f13514e-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"2174"	"SERPINB9"	5272	"mskcc.org"	"GRCh37"	"6"	2895174	2895174	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs67243171"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.424+451delG"	""	""	"ENST00000380698"	""	6	"."	3	1	"."	0	"SERPINB9,intron_variant,,ENST00000380698,NM_004155.5;"	"-"	"ENSG00000170542"	"ENST00000380698"	"Transcript"	"intron_variant"	"-/4118"	"-/1131"	"-/376"	""	""	"rs67243171"	"1"	NA	-1	"SERPINB9"	"HGNC"	8955	"protein_coding"	"YES"	"CCDS4478.1"	"ENSP00000370074"	"P50453"	"Q6N0A8"	"UPI000000121F"	"NM_004155.5"	NA	NA	""	"4/6"	""	"C:0.4824"	"-:0.4592"	"-:0.6311"	NA	"-:0.6409"	"-:0.4781"	"-:0.4294"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCG"	"2f1751ea-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2175"	"NQO2"	4835	"mskcc.org"	"GRCh37"	"6"	3016229	3016233	"+"	"Intron"	"DEL"	"CCTGG"	"CCTGG"	"-"	"rs552157596"	NA	"JHCCPT1"	"JHCCPN1"	"CCTGG"	"CCTGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.417+358_417+362delCTGGC"	""	""	"ENST00000338130"	""	10	"."	3	9	"."	0	"NQO2,intron_variant,,ENST00000338130,;NQO2,intron_variant,,ENST00000380430,;NQO2,intron_variant,,ENST00000380441,;NQO2,intron_variant,,ENST00000380455,NM_000904.3;NQO2,intron_variant,,ENST00000380454,;NQO2,downstream_gene_variant,,ENST00000397717,;NQO2,downstream_gene_variant,,ENST00000380472,;NQO2,downstream_gene_variant,,ENST00000426637,;RP1-90J20.12,upstream_gene_variant,,ENST00000603222,;"	"-"	"ENSG00000124588"	"ENST00000338130"	"Transcript"	"intron_variant"	"-/1515"	"-/696"	"-/231"	""	""	"rs552157596"	"1"	NA	1	"NQO2"	"HGNC"	7856	"protein_coding"	"YES"	"CCDS4481.1"	"ENSP00000337773"	"P16083"	"Q5TD05,A2A2U4"	"UPI000020E40D"	""	NA	NA	""	"8/9"	""	"-:0.0008"	"-:0.0023"	"-:0.0014"	NA	"-:0"	"-:0"	"-:0"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCCTGGC"	"2f24ffa2-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"2176"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	3481888	3481888	"+"	"IGR"	"DEL"	"G"	"-"	"-"	"rs34505739"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	6	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34505739"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.4411"	"-:0.764"	"-:0.6268"	NA	"-:0.5"	"-:0.4732"	"-:0.3824"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGC"	"2f4f81a0-2764-11e6-a497-bf4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"2177"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	4574100	4574101	"+"	"IGR"	"INS"	"-"	"-"	"TCTC"	"rs71540820"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	2	"."	0	""	"TCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71540820"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0128"	"TCTC:0.9682"	"TCTC:0.9957"	NA	"TCTC:0.995"	"TCTC:0.9911"	"TCTC:0.9949"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"53e75c9a-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2178"	"CDYL"	9425	"mskcc.org"	"GRCh37"	"6"	4716327	4716327	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs71647224"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103+218delA"	""	""	"ENST00000328908"	""	27	"."	5	7	"."	0	"CDYL,intron_variant,,ENST00000328908,;CDYL,intron_variant,,ENST00000491864,;"	"-"	"ENSG00000153046"	"ENST00000328908"	"Transcript"	"intron_variant"	"-/3419"	"-/1797"	"-/598"	""	""	"rs71647224"	"1"	NA	1	"CDYL"	"HGNC"	1811	"protein_coding"	""	""	"ENSP00000330512"	"Q9Y232"	""	"UPI000013DD13"	""	NA	NA	""	"2/8"	""	"-:0.2536"	"-:0.379"	"-:0.33"	NA	"-:0.2679"	"-:0.2247"	"-:0.045"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"2f7d29ca-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WXS"	FALSE
"2179"	"CDYL"	9425	"mskcc.org"	"GRCh37"	"6"	4749702	4749713	"+"	"Intron"	"DEL"	"ATGGATGGATGA"	"ATGGATGGATGA"	"-"	"rs66892548"	NA	"JHCCPT1"	"JHCCPN1"	"ATGGATGGATGA"	"ATGGATGGATGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.186+14639_186+14650delGATGGATGAATG"	""	""	"ENST00000328908"	""	10	"."	4	1	"."	0	"CDYL,intron_variant,,ENST00000328908,;CDYL,intron_variant,,ENST00000491864,;"	"-"	"ENSG00000153046"	"ENST00000328908"	"Transcript"	"intron_variant"	"-/3419"	"-/1797"	"-/598"	""	""	"rs66892548"	"1"	NA	1	"CDYL"	"HGNC"	1811	"protein_coding"	""	""	"ENSP00000330512"	"Q9Y232"	""	"UPI000013DD13"	""	NA	NA	""	"3/8"	""	"ATGGATGGATGA:0.3584"	"-:0.1974"	"-:0.7075"	NA	"-:0.7917"	"-:0.8718"	"-:0.8037"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGATGGATGGATGAA"	"2f7f90d4-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2180"	"LYRM4"	57128	"mskcc.org"	"GRCh37"	"6"	5109983	5109984	"+"	"Intron"	"INS"	"-"	"-"	"C"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.208-258dupG"	""	""	"ENST00000330636"	""	9	"."	4	4	"."	0	"LYRM4,intron_variant,,ENST00000330636,NM_020408.5;LYRM4,intron_variant,,ENST00000464010,NM_001164841.1;LYRM4,intron_variant,,ENST00000468929,;LYRM4,intron_variant,,ENST00000458438,;LYRM4,upstream_gene_variant,,ENST00000606472,;LYRM4,intron_variant,,ENST00000463032,;"	"C"	"ENSG00000214113"	"ENST00000330636"	"Transcript"	"intron_variant"	"-/7312"	"-/276"	"-/91"	""	""	""	"1"	NA	-1	"LYRM4"	"HGNC"	21365	"protein_coding"	""	"CCDS4493.1"	"ENSP00000418787"	"Q9HD34"	""	"UPI000006F715"	"NM_020408.5"	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	"-1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"54039266-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2181"	"LY86"	9450	"mskcc.org"	"GRCh37"	"6"	6595611	6595634	"+"	"Intron"	"DEL"	"AGGGGAGAAGAGAAGGAGGAAAAG"	"AGGGGAGAAGAGAAGGAGGAAAAG"	"GGGAGAAGAGAAGGAGGAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AGGGGAGAAGAGAAGGAGGAAAAG"	"AGGGGAGAAGAGAAGGAGGAAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.136+6508_136+6531delAGGGGAGAAGAGAAGGAGGAAAAGinsGGGAGAAGAGAAGGAGGAA"	""	""	"ENST00000379953"	""	17	"."	5	6	"."	0	"LY86,intron_variant,,ENST00000379953,;LY86,intron_variant,,ENST00000230568,NM_004271.3;LY86-AS1,intron_variant,,ENST00000435641,;LY86-AS1,intron_variant,,ENST00000429345,;"	"GGGAGAAGAGAAGGAGGAA"	"ENSG00000112799"	"ENST00000379953"	"Transcript"	"intron_variant"	"-/1197"	"-/489"	"-/162"	""	""	""	"1"	NA	1	"LY86"	"HGNC"	16837	"protein_coding"	"YES"	"CCDS4498.1"	"ENSP00000369286"	"O95711"	""	"UPI0000001C73"	""	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGGGGAGAAGAGAAGGAGGAAAAGA"	"4fff9584-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"2182"	"BLOC1S5"	63915	"mskcc.org"	"GRCh37"	"6"	8049306	8049307	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs139693797"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.196-7806dupC"	""	""	"ENST00000397457"	""	12	"."	4	3	"."	0	"BLOC1S5,intron_variant,,ENST00000397457,NM_201280.2,NM_001199323.1;BLOC1S5,intron_variant,,ENST00000543936,NM_001199322.1;BLOC1S5-TXNDC5,intron_variant,,ENST00000439343,;BLOC1S5,intron_variant,,ENST00000244777,;EEF1E1-BLOC1S5,intron_variant,,ENST00000397456,;"	"G"	"ENSG00000188428"	"ENST00000397457"	"Transcript"	"intron_variant"	"-/2684"	"-/564"	"-/187"	""	""	"rs139693797"	"1"	NA	-1	"BLOC1S5"	"HGNC"	18561	"protein_coding"	"YES"	"CCDS4506.1"	"ENSP00000380598"	"Q8TDH9"	""	"UPI000006D3CA"	"NM_201280.2,NM_001199323.1"	NA	NA	""	"2/4"	""	"-:0.2947"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"5472e774-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2183"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	12471890	12471891	"+"	"IGR"	"INS"	"-"	"-"	"GGATT"	"rs111296999"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	6	2	"."	0	""	"GGATT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs111296999"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GGATT:0.3299"	"GGATT:0.4425"	"GGATT:0.3084"	NA	"GGATT:0.3105"	"GGATT:0.2177"	"GGATT:0.3282"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"55122960-2764-11e6-a497-bf4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2184"	"GFOD1"	54438	"mskcc.org"	"GRCh37"	"6"	13428926	13428926	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs55751952"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.253+57944delG"	""	""	"ENST00000379287"	""	8	"."	4	2	"."	0	"GFOD1,intron_variant,,ENST00000379287,NM_018988.3;"	"-"	"ENSG00000145990"	"ENST00000379287"	"Transcript"	"intron_variant"	"-/8751"	"-/1173"	"-/390"	""	""	"rs55751952"	"1"	NA	-1	"GFOD1"	"HGNC"	21096	"protein_coding"	"YES"	"CCDS4524.1"	"ENSP00000368589"	"Q9NXC2"	""	"UPI0000072450"	"NM_018988.3"	NA	NA	""	"1/1"	""	"C:0.4429"	"-:0.1467"	"-:0.7493"	NA	"-:0.6448"	"-:0.7396"	"-:0.6973"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCC"	"30c6ff86-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2185"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	16035869	16035869	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"310d765a-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2186"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	16099895	16099903	"+"	"IGR"	"DEL"	"GAAGAAGAA"	"GAAGAAGAA"	"-"	"rs201557867"	NA	"JHCCPT1"	"JHCCPN1"	"GAAGAAGAA"	"GAAGAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"."	5	24	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201557867"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAGAAGAAG"	"3117849c-2764-11e6-a497-bf4a424a729f"	"260"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WXS"	FALSE
"2187"	"CAP2"	10486	"mskcc.org"	"GRCh37"	"6"	17438587	17438589	"+"	"Intron"	"DEL"	"ATT"	"ATT"	"-"	"rs78468038"	NA	"JHCCPT1"	"JHCCPN1"	"ATT"	"ATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.222+11666_222+11668delATT"	""	""	"ENST00000229922"	""	7	"."	4	1	"."	0	"CAP2,intron_variant,,ENST00000229922,NM_006366.2;CAP2,intron_variant,,ENST00000378990,;CAP2,intron_variant,,ENST00000489374,;CAP2,intron_variant,,ENST00000465994,;CAP2,intron_variant,,ENST00000493172,;CAP2,intron_variant,,ENST00000479291,;CAP2,intron_variant,,ENST00000476263,;"	"-"	"ENSG00000112186"	"ENST00000229922"	"Transcript"	"intron_variant"	"-/3316"	"-/1434"	"-/477"	""	""	"rs78468038"	"1"	NA	1	"CAP2"	"HGNC"	20039	"protein_coding"	"YES"	"CCDS4539.1"	"ENSP00000229922"	"P40123"	""	"UPI0000126EC6"	"NM_006366.2"	NA	NA	""	"3/12"	""	"ATT:0.2921"	"-:0.9092"	"-:0.5274"	NA	"-:0.8532"	"-:0.5378"	"-:0.589"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGATTC"	"3139a2c0-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2188"	"KIF13A"	63971	"mskcc.org"	"GRCh37"	"6"	17779475	17779504	"+"	"Intron"	"DEL"	"TATATATATATATATTTTTTTTTTTTTTTT"	"TATATATATATATATTTTTTTTTTTTTTTT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TATATATATATATATTTTTTTTTTTTTTTT"	"TATATATATATATATTTTTTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3940-174_3940-145delAAAAAAAAAAAAAAAATATATATATATATA"	""	""	"ENST00000259711"	""	20	"."	3	10	"."	0	"KIF13A,intron_variant,,ENST00000378814,NM_001105568.2;KIF13A,intron_variant,,ENST00000259711,NM_022113.5;KIF13A,intron_variant,,ENST00000378816,;KIF13A,intron_variant,,ENST00000378826,NM_001105566.2;KIF13A,intron_variant,,ENST00000378843,NM_001105567.2;KIF13A,intron_variant,,ENST00000358380,;KIF13A,intron_variant,,ENST00000502297,;KIF13A,downstream_gene_variant,,ENST00000506044,;"	"-"	"ENSG00000137177"	"ENST00000259711"	"Transcript"	"intron_variant"	"-/5941"	"-/5418"	"-/1805"	""	""	""	"1"	NA	-1	"KIF13A"	"HGNC"	14566	"protein_coding"	"YES"	"CCDS47381.1"	"ENSP00000259711"	"Q9H1H9"	""	"UPI0000E20DA3"	"NM_022113.5"	NA	NA	""	"32/38"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATATATATATATATATTTTTTTTTTTTTTTTT"	"317990e2-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"2189"	"KIF13A"	63971	"mskcc.org"	"GRCh37"	"6"	17804381	17804382	"+"	"Intron"	"INS"	"-"	"-"	"CAAA"	"rs60485477"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2454+207_2454+210dupTTTG"	""	""	"ENST00000259711"	""	24	"."	6	6	"."	0	"KIF13A,intron_variant,,ENST00000378814,NM_001105568.2;KIF13A,intron_variant,,ENST00000259711,NM_022113.5;KIF13A,intron_variant,,ENST00000378816,;KIF13A,intron_variant,,ENST00000378826,NM_001105566.2;KIF13A,intron_variant,,ENST00000378843,NM_001105567.2;KIF13A,intron_variant,,ENST00000358380,;"	"CAAA"	"ENSG00000137177"	"ENST00000259711"	"Transcript"	"intron_variant"	"-/5941"	"-/5418"	"-/1805"	""	""	"rs60485477"	"1"	NA	-1	"KIF13A"	"HGNC"	14566	"protein_coding"	"YES"	"CCDS47381.1"	"ENSP00000259711"	"Q9H1H9"	""	"UPI0000E20DA3"	"NM_022113.5"	NA	NA	""	"20/38"	""	"-:0.0964"	"CAAA:0.8268"	"CAAA:0.9207"	NA	"CAAA:0.9851"	"CAAA:0.9006"	"CAAA:0.9141"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"55afde9e-2764-11e6-a497-bf4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2190"	"KIF13A"	63971	"mskcc.org"	"GRCh37"	"6"	17808617	17808618	"+"	"Intron"	"INS"	"-"	"-"	"AAACAAAC"	"rs147253477"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2163+374_2163+381dupGTTTGTTT"	""	""	"ENST00000259711"	""	8	"."	3	4	"."	0	"KIF13A,intron_variant,,ENST00000378814,NM_001105568.2;KIF13A,intron_variant,,ENST00000259711,NM_022113.5;KIF13A,intron_variant,,ENST00000378816,;KIF13A,intron_variant,,ENST00000378826,NM_001105566.2;KIF13A,intron_variant,,ENST00000378843,NM_001105567.2;KIF13A,intron_variant,,ENST00000358380,;KIF13A,downstream_gene_variant,,ENST00000503342,;"	"AAACAAAC"	"ENSG00000137177"	"ENST00000259711"	"Transcript"	"intron_variant"	"-/5941"	"-/5418"	"-/1805"	""	""	"rs147253477"	"1"	NA	-1	"KIF13A"	"HGNC"	14566	"protein_coding"	"YES"	"CCDS47381.1"	"ENSP00000259711"	"Q9H1H9"	""	"UPI0000E20DA3"	"NM_022113.5"	NA	NA	""	"18/38"	""	"AAACAAACAAACAAAC:0.0062"	"AAACAAACAAACAAAC:0.0219"	"AAACAAACAAACAAAC:0.0014"	NA	"AAACAAACAAACAAAC:0.001"	"AAACAAACAAACAAAC:0"	"AAACAAACAAACAAAC:0"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"55ba41ea-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2191"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	18281937	18281952	"+"	"IGR"	"DEL"	"CTTCTTCTTCGTTCTT"	"CTTCTTCTTCGTTCTT"	"-"	"rs150325898"	NA	"JHCCPT1"	"JHCCPN1"	"CTTCTTCTTCGTTCTT"	"CTTCTTCTTCGTTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	23	"."	7	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150325898"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTCTTCTTCGTTCTTC"	"31a66e5a-2764-11e6-a497-bf4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WXS"	FALSE
"2192"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	18925838	18925839	"+"	"IGR"	"INS"	"-"	"-"	"CTCTCTCT"	"rs149846481"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	3	3	"."	0	""	"CTCTCTCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs149846481"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CTCTCTCT:0.3171"	"CTCTCTCT:0.2292"	"CTCTCTCT:0.2839"	NA	"CTCTCTCT:0.4454"	"CTCTCTCT:0.3688"	"CTCTCTCT:0.274"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"55dbfe48-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2193"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	19113361	19113362	"+"	"IGR"	"DEL"	"TT"	"TT"	"-"	"rs70980998"	NA	"JHCCPT1"	"JHCCPN1"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	5	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs70980998"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TT:0.2670"	"-:0.6808"	"-:0.6427"	NA	"-:0.8363"	"-:0.7634"	"-:0.7301"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTT"	"31b5fe88-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2194"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	20382477	20382478	"+"	"IGR"	"INS"	"-"	"T"	"T"	"rs11403344"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11403344"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0389"	"T:0.9584"	"T:0.9568"	NA	"T:0.997"	"T:0.9354"	"T:0.9571"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"55e6ce0e-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2195"	"CDKAL1"	54901	"mskcc.org"	"GRCh37"	"6"	20609498	20609499	"+"	"Intron"	"INS"	"-"	"-"	"CTCCTCCTTCTCCTCCTT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.287-40021_287-40020insCCTTCTCCTCCTTCTCCT"	""	""	"ENST00000274695"	""	19	"."	3	11	"."	0	"CDKAL1,intron_variant,,ENST00000274695,NM_017774.3;CDKAL1,intron_variant,,ENST00000378610,;CDKAL1,intron_variant,,ENST00000378624,;"	"CTCCTCCTTCTCCTCCTT"	"ENSG00000145996"	"ENST00000274695"	"Transcript"	"intron_variant"	"-/3272"	"-/1740"	"-/579"	""	""	""	"1"	NA	1	"CDKAL1"	"HGNC"	21050	"protein_coding"	"YES"	"CCDS4546.1"	"ENSP00000274695"	"Q5VV42"	""	"UPI000013DA21"	"NM_017774.3"	NA	NA	""	"4/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"55e8b32c-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WXS"	FALSE
"2196"	"RP11-524C21.2"	0	"mskcc.org"	"GRCh37"	"6"	22226078	22226080	"+"	"3'Flank"	"DEL"	"CTC"	"CTC"	"-"	"rs137917982"	NA	"JHCCPT1"	"JHCCPN1"	"CTC"	"CTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000567753"	""	9	"."	4	1	"."	0	"RP11-524C21.2,downstream_gene_variant,,ENST00000567753,;"	"-"	"ENSG00000261568"	"ENST00000567753"	"Transcript"	"downstream_gene_variant"	"-/1615"	""	""	""	""	"rs137917982"	"1"	"3454"	1	"RP11-524C21.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3027"	"-:0.0726"	"-:0.3919"	NA	"-:0.3254"	"-:0.5109"	"-:0.3129"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCTCC"	"32093544-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2197"	"HNRNPA1P58"	0	"mskcc.org"	"GRCh37"	"6"	24002983	24002984	"+"	"3'Flank"	"INS"	"-"	"-"	"T"	"rs34664233"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000403629"	""	6	"."	4	1	"."	0	"HNRNPA1P58,downstream_gene_variant,,ENST00000403629,;"	"T"	"ENSG00000219582"	"ENST00000403629"	"Transcript"	"downstream_gene_variant"	"-/607"	""	""	""	""	"rs34664233"	"1"	"325"	1	"HNRNPA1P58"	"HGNC"	48788	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1510"	"T:0.7405"	"T:0.8761"	NA	"T:0.9127"	"T:0.8887"	"T:0.8701"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"5608207c-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2198"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	24376077	24376078	"+"	"IGR"	"INS"	"-"	"-"	"AGAT"	"rs111677182"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	5	2	"."	0	""	"AGAT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs111677182"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3978"	"AGAT:0.3419"	"AGAT:0.6931"	NA	"AGAT:0.8056"	"AGAT:0.5994"	"AGAT:0.683"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"56142372-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"2199"	"KIAA0319"	9856	"mskcc.org"	"GRCh37"	"6"	24646511	24646536	"+"	"5'Flank"	"DEL"	"CAGCTCCCCTGCTCAGCTCCCCTGCT"	"CAGCTCCCCTGCTCAGCTCCCCTGCT"	"-"	"rs72144620"	NA	"JHCCPT1"	"JHCCPN1"	"CAGCTCCCCTGCTCAGCTCCCCTGCT"	"CAGCTCCCCTGCTCAGCTCCCCTGCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000378214"	""	10	"."	4	4	"."	0	"KIAA0319,upstream_gene_variant,,ENST00000535378,NM_001168374.1;KIAA0319,upstream_gene_variant,,ENST00000378214,NM_014809.3,NM_001168375.1;KIAA0319,upstream_gene_variant,,ENST00000537886,NM_001168377.1;KIAA0319,upstream_gene_variant,,ENST00000430948,NM_001168376.1;KIAA0319,upstream_gene_variant,,ENST00000543707,;TDP2,downstream_gene_variant,,ENST00000341060,;TDP2,downstream_gene_variant,,ENST00000378198,;TDP2,downstream_gene_variant,,ENST00000545995,NM_016614.2;TDP2,downstream_gene_variant,,ENST00000478507,;"	"-"	"ENSG00000137261"	"ENST00000378214"	"Transcript"	"upstream_gene_variant"	"-/6802"	"-/3219"	"-/1072"	""	""	"rs72144620"	"1"	"128"	-1	"KIAA0319"	"HGNC"	21580	"protein_coding"	"YES"	"CCDS34348.1"	"ENSP00000367459"	"Q5VV43"	""	"UPI000020D61A"	"NM_014809.3,NM_001168375.1"	NA	NA	""	""	""	"CAGCTCCCCTGCTCAGCTCCCCTGCT:0.2312"	"-:0.826"	"-:0.7882"	NA	"-:0.8889"	"-:0.6272"	"-:0.6994"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCCAGCTCCCCTGCTCAGCTCCCCTGCTC"	"325c2088-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2200"	"HIST1H2AA"	221613	"mskcc.org"	"GRCh37"	"6"	25727809	25727810	"+"	"5'Flank"	"DEL"	"GG"	"GG"	"-"	"rs34662107"	NA	"JHCCPT1"	"JHCCPN1"	"GG"	"GG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000297012"	""	13	"."	3	7	"."	0	"HIST1H2AA,upstream_gene_variant,,ENST00000297012,NM_170745.3;HIST1H2BA,downstream_gene_variant,,ENST00000274764,NM_170610.2;HIST1H2BPS1,downstream_gene_variant,,ENST00000319443,;HIST1H2APS1,upstream_gene_variant,,ENST00000406683,;HIST1H2BPS1,downstream_gene_variant,,ENST00000369177,;"	"-"	"ENSG00000164508"	"ENST00000297012"	"Transcript"	"upstream_gene_variant"	"-/500"	"-/396"	"-/131"	""	""	"rs34662107"	"1"	"1019"	-1	"HIST1H2AA"	"HGNC"	18729	"protein_coding"	"YES"	"CCDS4562.1"	"ENSP00000297012"	"Q96QV6"	""	"UPI0000073CDD"	"NM_170745.3"	NA	NA	""	""	""	"-:0.1629"	"-:0.0219"	"-:0.1614"	NA	"-:0.129"	"-:0.2783"	"-:0.271"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACGGG"	"32c331ce-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"2201"	"ZNF184"	7738	"mskcc.org"	"GRCh37"	"6"	27424044	27424045	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs142263308"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.298+559_298+560dupTT"	""	""	"ENST00000211936"	""	9	"."	6	1	"."	0	"ZNF184,intron_variant,,ENST00000211936,NM_007149.2;ZNF184,intron_variant,,ENST00000377419,;"	"AA"	"ENSG00000096654"	"ENST00000211936"	"Transcript"	"intron_variant"	"-/3101"	"-/2256"	"-/751"	""	""	"rs142263308"	"1"	NA	-1	"ZNF184"	"HGNC"	12975	"protein_coding"	"YES"	"CCDS4624.1"	"ENSP00000211936"	"Q99676"	""	"UPI000013C311"	"NM_007149.2"	NA	NA	""	"5/5"	""	"-:0.3828"	"AA:0.5303"	"AA:0.67"	NA	"AA:0.5764"	"AA:0.6461"	"AA:0.7096"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"56f185aa-2764-11e6-a497-bf4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2202"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	28639205	28639207	"+"	"IGR"	"DEL"	"CGG"	"-"	"-"	"rs67863558"	NA	"JHCCPT1"	"JHCCPN1"	"CGG"	"CGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs67863558"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3375"	"-:0.0734"	"-:0.4308"	NA	"-:0.3224"	"-:0.5497"	"-:0.4254"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCGGC"	"33624dcc-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2203"	"OR2AD1P"	0	"mskcc.org"	"GRCh37"	"6"	28996509	28996509	"+"	"5'Flank"	"DEL"	"T"	"T"	"-"	"rs146884983"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000441992"	""	6	"."	3	3	"."	0	"OR2AD1P,upstream_gene_variant,,ENST00000441992,;"	"-"	"ENSG00000223677"	"ENST00000441992"	"Transcript"	"upstream_gene_variant"	"-/928"	""	""	""	""	"rs146884983"	"1"	"1125"	-1	"OR2AD1P"	"HGNC"	14749	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1046"	"-:0.1082"	"-:0.0735"	NA	"-:0.1131"	"-:0.0746"	"-:0.1442"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTT"	"337374f8-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2204"	"OR2W1"	26692	"mskcc.org"	"GRCh37"	"6"	29013155	29013158	"+"	"5'Flank"	"DEL"	"AGAG"	"AGAG"	"-"	"rs150624018"	NA	"JHCCPT1"	"JHCCPN1"	"AGAG"	"AGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000377175"	""	36	"."	9	18	"."	0	"OR2W1,upstream_gene_variant,,ENST00000377175,NM_030903.3;"	"-"	"ENSG00000204704"	"ENST00000377175"	"Transcript"	"upstream_gene_variant"	"-/1028"	"-/963"	"-/320"	""	""	"rs150624018"	"1"	"138"	-1	"OR2W1"	"HGNC"	8281	"protein_coding"	"YES"	"CCDS4656.1"	"ENSP00000366380"	"Q9Y3N9"	""	"UPI000003FF8A"	"NM_030903.3"	NA	NA	""	""	""	"-:0.1064"	"-:0.1082"	"-:0.0706"	NA	"-:0.1151"	"-:0.0746"	"-:0.1534"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGAGA"	"3378bdd2-2764-11e6-a497-bf4a424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2205"	"HLA-V"	0	"mskcc.org"	"GRCh37"	"6"	29761082	29761083	"+"	"Intron"	"INS"	"-"	"-"	"ATG"	"rs10659163"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.670+601_670+603dupTGA"	""	""	"ENST00000476601"	""	7	"."	3	5	"."	0	"HLA-V,intron_variant,,ENST00000457107,;HLA-V,intron_variant,,ENST00000476601,;HLA-V,downstream_gene_variant,,ENST00000446817,;HCG4,upstream_gene_variant,,ENST00000320533,;HCG4,upstream_gene_variant,,ENST00000418983,;HLA-V,downstream_gene_variant,,ENST00000429037,;"	"ATG"	"ENSG00000181126"	"ENST00000476601"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1289"	""	""	""	""	"rs10659163"	"1"	NA	1	"HLA-V"	"HGNC"	23482	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	"ATG:0.3381"	"ATG:0.317"	NA	"ATG:0.1171"	"ATG:0.2763"	"ATG:0.3262"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"577722a0-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2206"	"HLA-V"	0	"mskcc.org"	"GRCh37"	"6"	29762390	29762390	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs28724922"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.670+1907delA"	""	""	"ENST00000476601"	""	8	"."	5	1	"."	0	"HLA-V,non_coding_transcript_exon_variant,,ENST00000457107,;HLA-V,intron_variant,,ENST00000476601,;HLA-V,downstream_gene_variant,,ENST00000446817,;HCG4,upstream_gene_variant,,ENST00000320533,;HCG4,upstream_gene_variant,,ENST00000418983,;HLA-V,downstream_gene_variant,,ENST00000429037,;"	"-"	"ENSG00000181126"	"ENST00000476601"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1289"	""	""	""	""	"rs28724922"	"1"	NA	1	"HLA-V"	"HGNC"	23482	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	"-:0.2606"	"-:0.1921"	"-:0.2839"	NA	"-:0.3472"	"-:0.3469"	"-:0.1585"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAT"	"33c77440-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"2207"	"HLA-W"	0	"mskcc.org"	"GRCh37"	"6"	29923899	29923902	"+"	"5'Flank"	"DEL"	"CTGG"	"CTGG"	"GA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CTGG"	"CTGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000439514"	""	19	"."	4	8	"."	0	"HLA-W,upstream_gene_variant,,ENST00000439514,;"	"GA"	"ENSG00000235290"	"ENST00000439514"	"Transcript"	"upstream_gene_variant"	"-/771"	""	""	""	""	""	"1"	"471"	1	"HLA-W"	"HGNC"	23425	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTGGT"	"50cf56ca-2764-11e6-a497-bf4a424a729f"	"183"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"2208"	"ZNRD1-AS1"	80862	"mskcc.org"	"GRCh37"	"6"	29975193	29975203	"+"	"Intron"	"DEL"	"ATCGCCCTGAA"	"ATCGCCCTGAA"	"CGT"	"rs386698684"	NA	"JHCCPT1"	"JHCCPN1"	"ATCGCCCTGAA"	"ATCGCCCTGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1173-30_1173-20delTTCAGGGCGATinsACG"	""	""	"ENST00000376797"	""	103	"."	10	53	"."	0	"ZNRD1-AS1,intron_variant,,ENST00000376797,;ZNRD1-AS1,intron_variant,,ENST00000420251,;ZNRD1-AS1,intron_variant,,ENST00000448093,;ZNRD1-AS1,intron_variant,,ENST00000425604,;ZNRD1-AS1,downstream_gene_variant,,ENST00000444051,;HLA-J,intron_variant,,ENST00000462773,;HLA-J,intron_variant,,ENST00000469281,;HLA-J,intron_variant,,ENST00000495278,;HLA-J,non_coding_transcript_exon_variant,,ENST00000494367,;HCG4P3,upstream_gene_variant,,ENST00000458060,;"	"CGT"	"ENSG00000204623"	"ENST00000376797"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3270"	""	""	""	""	"rs386698684"	"1"	NA	-1	"ZNRD1-AS1"	"HGNC"	13924	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATCGCCCTGAAC"	"50d5a606-2764-11e6-a497-bf4a424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0970873786407767	"WXS"	FALSE
"2209"	"MICC"	0	"mskcc.org"	"GRCh37"	"6"	30385524	30385525	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs533386478,rs35890956"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.939+1112dupC"	""	""	"ENST00000445710"	""	6	"."	5	1	"."	0	"MICC,intron_variant,,ENST00000445710,;"	"C"	"ENSG00000226577"	"ENST00000445710"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1055"	""	""	""	""	"rs533386478,rs35890956"	"1"	NA	1	"MICC"	"HGNC"	7092	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/4"	""	"C:0.4203"	"C:0.1982,C:0.1982"	"C:0.4625,C:0.4625"	NA	"C:0.6538,C:0.6538"	"C:0.4314,C:0.4314"	"C:0.4387,C:0.4387"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"5848c846-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2210"	"DHX16"	8449	"mskcc.org"	"GRCh37"	"6"	30621393	30621394	"+"	"Intron"	"INS"	"-"	"-"	"CTTGGCCTCCCAAAGTGCTAGGATCCTGC"	"rs140329547"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2998-247_2998-246insGCAGGATCCTAGCACTTTGGGAGGCCAAG"	""	""	"ENST00000376442"	""	13	"."	7	4	"."	0	"DHX16,intron_variant,,ENST00000376442,NM_001164239.1,NM_003587.4;DHX16,intron_variant,,ENST00000376437,;C6orf136,downstream_gene_variant,,ENST00000293604,NM_001161376.1;C6orf136,downstream_gene_variant,,ENST00000446773,;C6orf136,downstream_gene_variant,,ENST00000376473,NM_001109938.2;C6orf136,downstream_gene_variant,,ENST00000528347,;C6orf136,downstream_gene_variant,,ENST00000465699,;C6orf136,downstream_gene_variant,,ENST00000376471,NM_145029.3;C6orf136,downstream_gene_variant,,ENST00000467801,;C6orf136,downstream_gene_variant,,ENST00000468785,;AL662800.2,downstream_gene_variant,,ENST00000583820,;C6orf136,downstream_gene_variant,,ENST00000493705,;C6orf136,downstream_gene_variant,,ENST00000488383,;C6orf136,downstream_gene_variant,,ENST00000484551,;C6orf136,downstream_gene_variant,,ENST00000487873,;C6orf136,downstream_gene_variant,,ENST00000463794,;C6orf136,downstream_gene_variant,,ENST00000460172,;"	"CTTGGCCTCCCAAAGTGCTAGGATCCTGC"	"ENSG00000204560"	"ENST00000376442"	"Transcript"	"intron_variant"	"-/3445"	"-/3126"	"-/1041"	""	""	"rs140329547"	"1"	NA	-1	"DHX16"	"HGNC"	2739	"protein_coding"	"YES"	"CCDS4685.1"	"ENSP00000365625"	"O60231"	"Q5SQH4"	"UPI000000D73D"	"NM_001164239.1,NM_003587.4"	NA	NA	""	"19/19"	""	"-:0.0347"	"CTTGGCCTCCCAAAGTGCTAGGATCCTGC:0.9955"	"CTTGGCCTCCCAAAGTGCTAGGATCCTGC:0.9337"	NA	"CTTGGCCTCCCAAAGTGCTAGGATCCTGC:0.9871"	"CTTGGCCTCCCAAAGTGCTAGGATCCTGC:0.9125"	"CTTGGCCTCCCAAAGTGCTAGGATCCTGC:0.9785"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"586b18ce-2764-11e6-a497-bf4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.538461538461538	"WXS"	FALSE
"2211"	"LINC00243"	401247	"mskcc.org"	"GRCh37"	"6"	30786313	30786314	"+"	"Intron"	"INS"	"-"	"-"	"TTTG"	"rs112067532"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.146-3765_146-3764insCAAA"	""	""	"ENST00000399196"	""	8	"."	5	1	"."	0	"LINC00243,intron_variant,,ENST00000399196,;LINC00243,intron_variant,,ENST00000419357,;"	"TTTG"	"ENSG00000214894"	"ENST00000399196"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2052"	""	""	""	""	"rs112067532"	"1"	NA	-1	"LINC00243"	"HGNC"	30956	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.0391"	"TTTG:0.9977"	"TTTG:0.9409"	NA	"TTTG:0.9712"	"TTTG:0.9046"	"TTTG:0.9724"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"58788734-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"2212"	"HLA-C"	3107	"mskcc.org"	"GRCh37"	"6"	31236451	31236452	"+"	"3'Flank"	"INS"	"-"	"-"	"C"	"rs139891314"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000376228"	""	13	"."	5	5	"."	0	"HLA-C,downstream_gene_variant,,ENST00000383329,;HLA-C,downstream_gene_variant,,ENST00000376228,NM_002117.5;HLA-C,downstream_gene_variant,,ENST00000415537,;HLA-C,downstream_gene_variant,,ENST00000487245,;HLA-C,downstream_gene_variant,,ENST00000376237,;HLA-C,downstream_gene_variant,,ENST00000470363,;HLA-C,downstream_gene_variant,,ENST00000495835,;HLA-C,downstream_gene_variant,,ENST00000484378,;HLA-C,downstream_gene_variant,,ENST00000466892,;"	"C"	"ENSG00000204525"	"ENST00000376228"	"Transcript"	"downstream_gene_variant"	"-/1536"	"-/1101"	"-/366"	""	""	"rs139891314"	"1"	"74"	-1	"HLA-C"	"HGNC"	4933	"protein_coding"	"YES"	"CCDS34393.1"	"ENSP00000365402"	"P10321"	"S5DU09,S5DN70,S5DLG2,S5DLF2,S5DI32,S5DI31,S5DHQ8,S5DHQ4,Q6R739,N0A4B4,M9XMB2,M9PAK8,M9PAK7,M9PAG6,M9PAG3,M9PAG2,M9PAF9,M9PAF5,M9PAF4,M9PAF2,M9PAC6,M9PA33,M9P9W6,M9P9W3,M9P9V5,M9P9U9,M9P9U4,M9P9R9,M9P9P5,M9P9N1,M9P9M9,M9P9L6,M9P9L0,M9P9H8,M9P9H2,M9P9F8,M9P9F2,M9P9D8,M9P9A7,M9P971,M9P965,M9P962,M9P961,M9P959,M9P955,M9P944,M9P8M1,M9P8L9,M9P8L8,M9P8L7,M9P8L4,M9P8L2,M9P8L0,M9P8K5,Q9TNT2,Q9MY32,Q95HC2,Q8HWM5,Q8HWG1,Q5C9P9,Q29752,Q0MT77,O19579,K9L8F4,K9L7Z3,K9L7R8,K9L7R5,K9L7E8,J9PVP1,J9PVD3,J9PVC3,J7K040,J7JWN4,J7JHR0,I7APJ0,I7A4F1,I6TRY5,I6TRX6,I6TN19,I6TF01,I6SJ94,I6NXM6,I6NXH6,I6NS49,I6NN86,I6MHJ6,I6M570,I6M569,I2GUK7,H9BQ96,H9BQ94,H6V083,H6A2G1,H2DMK4,H2DMJ8,H2BE96,G9I2P1,G9I2N8,G9I2N5,G9I2N2,G9HWA9,G9HWA8,G9HW96,G9HW51,G3D6H6,G3D6G8,G3D6F7,G3D6F5,G3D6E6,G1EQI7,G1EQI3,G1EQH0,G1EQD5,G1EQ80,G1EQ55,G1ENX7,G1ENX4,G1ENX1,G1ENW1,G1ENW0,G1ENV4,G1ENV3,G1ENV2,G1ENT9,G1ENT7,G1ENT3,G1ENT1,G1ENT0,G1EMU8,G1EMU5,G1EMT8,G1EMT7,G1EMT3,G1EMT2,G1EMS4,G1EMS2,G1EMR7,G1EMR6,G1EMR4,G1EMR0,G1EMQ7,G0ZMM1,G0ZMJ9,G0X8S7,G0WVC4,F8SY67,F8SL02,F8SL01,F8SKZ7,F8SKZ5,F8SKZ4,F8SKY8,F8R8K2,F8R1B3,F6KVT8,F6KS12,F6KS10,F6KS09,F6KS07,F6KRY5,F6KRY2,F6KRY0,F6KRX9,F6KRX3,F6KRW4,F6KRW3,F6IQL8,F6IQL6,F6IQL4,F6IQL2,F6IQK7,F6IQK5,F6IQK4,F6IQK3,F6IQK2,F6IQK1,F6IQJ9,F4YU88,F4YU76,F2VNS0,F2VNR5,F2VNQ5,F2VNQ1,F1CCL2,F1CCK3,F1CCJ3,E3SWK0,E3SGA8,E3SGA7,E3SGA4,E3Q1I6,E2GJI9,E2GJH5,E2DHB8,E1Y7F7,E1U661,E0YTP0,E0YTN9,E0X9L4,E0WBV9,E0WBV8,D9UAZ7,D7RJ45,D7NQZ6,D7NP34,D6MLE9,D6MLD2,D6ML93,D6MKV1,D6MJJ2,D6MJI1,D6MJH9,D6C6F9,D6C6D5,D6C6D4,D6C6C3,D5M8B1,D5FZR1,D5FZM4,D3U749,D3U748,D3U733,D3U3P8,D3U3P6,D2DKH1,C9WEV2,C9WEV1,C9WEU1,C9WES3,C9WER9,C9WER5,C9WER2,C8CHA9,C8CH96,C7FDU3,C7FDU2,C7FDT6,C7EDP3,C7C4Z5,C6K4P2,C6K4N9,C6K4N7,C6K4M5,C6JSX9,C5J031,C5IZU8,C5IZU6,C0KJZ4,B9WPN5,B8Y6A8,B5BLP2,B1PQ27,B0JF23"	"UPI000008AEBB"	"NM_002117.5"	NA	NA	""	""	""	"C:0.1310"	"C:0.0825"	"C:0.1282"	NA	"C:0.253"	"C:0.1272"	"C:0.0767"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"58e54ef0-2764-11e6-a497-bf4a424a729f"	"289"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"2213"	"HLA-B"	3106	"mskcc.org"	"GRCh37"	"6"	31320870	31320871	"+"	"3'Flank"	"INS"	"-"	"-"	"TGA"	"rs35506574"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000412585"	""	7	"."	3	1	"."	0	"HLA-B,downstream_gene_variant,,ENST00000412585,NM_005514.6;HLA-B,downstream_gene_variant,,ENST00000434333,;HLA-B,downstream_gene_variant,,ENST00000474381,;HLA-B,downstream_gene_variant,,ENST00000498007,;HLA-B,downstream_gene_variant,,ENST00000497377,;HLA-B,downstream_gene_variant,,ENST00000481849,;HLA-B,downstream_gene_variant,,ENST00000463574,;XXbac-BPG248L24.12,upstream_gene_variant,,ENST00000603274,;"	"TGA"	"ENSG00000234745"	"ENST00000412585"	"Transcript"	"downstream_gene_variant"	"-/1547"	"-/1089"	"-/362"	""	""	"rs35506574"	"1"	"778"	-1	"HLA-B"	"HGNC"	4932	"protein_coding"	"YES"	"CCDS34394.1"	"ENSP00000399168"	"Q31612,P01889,P30480,Q29836,Q31610,P30486"	"T1R372,R4QQU0,N0A4A9,N0A0K3,M9XMA8,M9PAL2,M9P9U8,M9P9C4,M9P9A4,M9P990,M9P8G8,M1FXF1,M1FWX2,M1F4D0,E5FQ95,Q9UIP1,Q9TQC5,Q9TQC2,Q9TPU4,Q9GIM0,Q95IE1,Q95HL7,Q8SP64,Q8HWQ3,Q861E5,Q861D6,Q861D4,Q7YP17,Q7YNX2,Q7JGR7,Q710M8,Q710M7,Q70HJ6,Q709M5,Q6ZXT6,Q5QR88,Q5QR87,Q5QR86,Q5QR85,Q5QR84,Q5QR83,Q5QR76,Q5QR73,Q5QR69,Q5QR62,Q5QR60,Q5QR59,Q5QR58,Q5QR57,Q5QR48,Q5QR47,Q5QR46,Q5QR36,Q5QR34,Q5QR33,Q5QR31,Q5F311,Q53ZP0,Q29923,Q29843,Q256S0,O19782,O19746,O19644,O19638,O19563,L0RH50,L0BXM2,K9LCN4,K9L8E6,K7QT39,K7P5R9,K4JQY2,J9UP90,J9PWQ9,J9PW07,J7K017,J7F682,J7F577,I7A4E3,I6TRW4,I6RCX9,I6NXG0,I6NWI0,I6NVS4,I4EC43,I3VZ13,I3UI65,I3QHR8,I2B2Z4,I2B2W6,H9C5J4,H9BQ86,H9BQ83,H9BQ82,G9I2L1,G3D6I7,G1EPU3,G1EPN0,G1EPJ1,G1ENJ6,G1ENJ0,G1EMP0,G1EMK6,G0ZMJ0,G0ZMH5,G0Z8C9,G0WVB6,F8SKV9,F8RHF3,F6KRS1,F6KRR7,F6KRQ7,F4YU56,F4YTC4,F4NBP2,F4NBP0,F2X5W5,F2X5T3,F2VNN2,E9LY38,E7BYA5,E3SWI1,E3SWH9,E2GJN0,E2DH92,E2D5Q2,E2D5P9,E2D5N8,D9U3G7,D7NSR4,D5L9C9,D5FWA6,D5FI14,D5FHY1,D5FHV8,D5FHU6,D4HPL2,D4HPB9,D4HPB2,D4HP81,D3Y5Y4,D3U4B8,D2DL25,D2DKQ8,D2DKN8,D2DKN6,D2DKF7,D2DKF6,C9WEP9,C9WEN6,C9WD06,C9WCZ5,C9WCQ2,C9E1H2,C8CH80,C8CAX9,C7FDQ9,C6L830,C5JA70,C3VIU8,B9VWB1,B4DUK6,B2YG95,A7E1C3,A5PHP5,A2VC07"	"UPI0000000B17"	"NM_005514.6"	NA	NA	""	""	""	""	"TGA:0.7474"	"TGA:0.6816"	NA	"TGA:0.3819"	"TGA:0.5746"	"TGA:0.5481"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"59205c66-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2214"	"NFKBIL1"	4795	"mskcc.org"	"GRCh37"	"6"	31514973	31514973	"+"	"5'Flank"	"DEL"	"T"	"T"	"-"	"rs555320565,rs3219186"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000376148"	""	11	"."	6	1	"."	0	"NFKBIL1,intron_variant,,ENST00000376146,NM_001144962.1,NM_001144963.1;ATP6V1G2,intron_variant,,ENST00000415099,;DDX39B,upstream_gene_variant,,ENST00000417556,;DDX39B,upstream_gene_variant,,ENST00000396172,NM_004640.6;DDX39B,upstream_gene_variant,,ENST00000458640,NM_080598.5;ATP6V1G2,upstream_gene_variant,,ENST00000303892,NM_138282.2,NM_130463.3;NFKBIL1,upstream_gene_variant,,ENST00000376148,NM_005007.3;NFKBIL1,upstream_gene_variant,,ENST00000376145,NM_001144961.1;ATP6V1G2,upstream_gene_variant,,ENST00000376151,NM_001204078.1;ATP6V1G2,upstream_gene_variant,,ENST00000483251,;DDX39B-AS1,downstream_gene_variant,,ENST00000420520,;DDX39B-AS1,downstream_gene_variant,,ENST00000416684,;ATP6V1G2,upstream_gene_variant,,ENST00000483170,;ATP6V1G2-DDX39B,upstream_gene_variant,,ENST00000475917,;ATP6V1G2-DDX39B,upstream_gene_variant,,ENST00000376185,;DDX39B,upstream_gene_variant,,ENST00000482195,;NFKBIL1,upstream_gene_variant,,ENST00000473655,;ATP6V1G2,upstream_gene_variant,,ENST00000481998,;NFKBIL1,upstream_gene_variant,,ENST00000496233,;ATP6V1G2-DDX39B,upstream_gene_variant,,ENST00000480131,;"	"-"	"ENSG00000204498"	"ENST00000376148"	"Transcript"	"upstream_gene_variant"	"-/1478"	"-/1146"	"-/381"	""	""	"rs555320565,rs3219186"	"1"	"385"	1	"NFKBIL1"	"HGNC"	7800	"protein_coding"	"YES"	"CCDS4700.1"	"ENSP00000365318"	"Q9UBC1"	"Q5STV6"	"UPI0000071DDF"	"NM_005007.3"	NA	NA	""	""	""	"T:0.0960"	"-:0.9236,-:0.9236"	"-:0.9107,-:0.9107"	NA	"-:0.9157,-:0.9157"	"-:0.8509,-:0.8509"	"-:0.9151,-:0.9151"	""	""	NA	NA	"12509789,16720219"	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTT"	"364064fc-2764-11e6-a497-bf4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"2215"	"PRRC2A"	7916	"mskcc.org"	"GRCh37"	"6"	31588686	31588687	"+"	"Intron"	"INS"	"-"	"-"	"GGTGGC"	"rs548847640"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-101+66_-101+71dupTGGCGG"	""	""	"ENST00000376033"	""	12	"."	3	7	"."	0	"PRRC2A,intron_variant,,ENST00000376033,NM_004638.3;PRRC2A,intron_variant,,ENST00000376007,NM_080686.2;AIF1,downstream_gene_variant,,ENST00000376059,NM_001623.3;AIF1,downstream_gene_variant,,ENST00000337917,NM_004847.3;AIF1,downstream_gene_variant,,ENST00000376049,NM_032955.1;SNORA38,upstream_gene_variant,,ENST00000363946,NR_002971.1;PRRC2A,intron_variant,,ENST00000469577,;AIF1,downstream_gene_variant,,ENST00000466820,;AIF1,downstream_gene_variant,,ENST00000497362,;PRRC2A,upstream_gene_variant,,ENST00000464890,;PRRC2A,upstream_gene_variant,,ENST00000464079,;"	"GGTGGC"	"ENSG00000204469"	"ENST00000376033"	"Transcript"	"intron_variant"	"-/6893"	"-/6474"	"-/2157"	""	""	"rs548847640"	"1"	NA	1	"PRRC2A"	"HGNC"	13918	"protein_coding"	"YES"	"CCDS4708.1"	"ENSP00000365201"	"P48634"	""	"UPI000020E56F"	"NM_004638.3"	NA	NA	""	"1/30"	""	"GGTGGC:0.3630"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"59537290-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2216"	"SLC44A4"	80736	"mskcc.org"	"GRCh37"	"6"	31836574	31836577	"+"	"Intron"	"DEL"	"AAAC"	"AAAC"	"-"	"rs200393731"	NA	"JHCCPT1"	"JHCCPN1"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1233+355_1233+358delGTTT"	""	""	"ENST00000229729"	""	8	"."	3	1	"."	0	"SLC44A4,intron_variant,,ENST00000544672,NM_001178045.1;SLC44A4,intron_variant,,ENST00000229729,NM_025257.2;SLC44A4,intron_variant,,ENST00000375562,NM_001178044.1;SLC44A4,intron_variant,,ENST00000414427,;SLC44A4,upstream_gene_variant,,ENST00000487680,;SLC44A4,intron_variant,,ENST00000479777,;SLC44A4,downstream_gene_variant,,ENST00000475563,;"	"-"	"ENSG00000204385"	"ENST00000229729"	"Transcript"	"intron_variant"	"-/2589"	"-/2133"	"-/710"	""	""	"rs200393731"	"1"	NA	-1	"SLC44A4"	"HGNC"	13941	"protein_coding"	"YES"	"CCDS4724.2"	"ENSP00000229729"	"Q53GD3"	""	"UPI00004702CE"	"NM_025257.2"	NA	NA	""	"13/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAAAACA"	"371920c6-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2217"	"HLA-DQA1"	3117	"mskcc.org"	"GRCh37"	"6"	32610553	32610601	"+"	"3'UTR"	"DEL"	"GAAGGGAAGGTAAGATTGAGACTGGTTACAGTTGAAGCGGCAGTATGAA"	"GAAGGGAAGGTAAGATTGAGACTGGTTACAGTTGAAGCGGCAGTATGAA"	"AAAAGGAAGGTAAGATTGAGATTTGTTAGAGCTGAAGCTGC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GAAGGGAAGGTAAGATTGAGACTGGTTACAGTTGAAGCGGCAGTATGAA"	"GAAGGGAAGGTAAGATTGAGACTGGTTACAGTTGAAGCGGCAGTATGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*12_*20+40delGAAGGGAAGGTAAGATTGAGACTGGTTACAGTTGAAGCGGCAGTATGAAinsAAAAGGAAGGTAAGATTGAGATTTGTTAGAGCTGAAGCTGC"	""	""	"ENST00000343139"	"4/5"	78	"."	5	47	"."	0	"HLA-DQA1,3_prime_UTR_variant,,ENST00000343139,NM_002122.3;HLA-DQA1,3_prime_UTR_variant,,ENST00000395363,;HLA-DQA1,3_prime_UTR_variant,,ENST00000374949,;HLA-DQA1,intron_variant,,ENST00000496318,;HLA-DQA1,3_prime_UTR_variant,,ENST00000482745,;HLA-DQA1,non_coding_transcript_exon_variant,,ENST00000460633,;"	"AAAAGGAAGGTAAGATTGAGATTTGTTAGAGCTGAAGCTGC"	"ENSG00000196735"	"ENST00000343139"	"Transcript"	"3_prime_UTR_variant,intron_variant"	"882-?/1591"	"-/768"	"-/255"	""	""	""	"1"	NA	1	"HLA-DQA1"	"HGNC"	4942	"protein_coding"	"YES"	"CCDS4752.1"	"ENSP00000339398"	"P01909"	"Q67AI2,Q67AI1,Q67AI0,Q67AH9,Q67AH8,Q67AH7,Q67AH6,Q67AC4,Q67AC3,Q67AC2,Q67AC1,Q67AC0,Q67AB9,Q67AB8,Q67AB7,Q67AB6,Q67AB5,Q67AA7,Q67AA6,Q67AA5,Q67A93,Q67A92,Q30066,Q30065,O19703,F6UB03"	"UPI0000140E19"	"NM_002122.3"	NA	NA	"4/5"	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGGAAGGGAAGGTAAGATTGAGACTGGTTACAGTTGAAGCGGCAGTATGAAA"	"52142fba-2764-11e6-a497-bf4a424a729f"	"229"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0641025641025641	"WXS"	FALSE
"2218"	"MTCO3P1"	0	"mskcc.org"	"GRCh37"	"6"	32673636	32673636	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"rs770397339,rs111709029"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000422088"	""	8	"."	5	3	"."	0	"MTCO3P1,downstream_gene_variant,,ENST00000422088,;"	"-"	"ENSG00000235040"	"ENST00000422088"	"Transcript"	"downstream_gene_variant"	"-/832"	""	""	""	""	"rs770397339,rs111709029"	"1"	"265"	-1	"MTCO3P1"	"HGNC"	31342	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"385e71c0-2764-11e6-a497-bf4a424a729f"	"278"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"2219"	"HLA-DQB2"	3120	"mskcc.org"	"GRCh37"	"6"	32723359	32723360	"+"	"3'Flank"	"INS"	"-"	"-"	"AG"	"rs375560176,rs141702193"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000411527"	""	11	"."	4	4	"."	0	"HLA-DQB2,downstream_gene_variant,,ENST00000435145,;HLA-DQB2,downstream_gene_variant,,ENST00000437316,;HLA-DQB2,downstream_gene_variant,,ENST00000411527,NM_001198858.1;HLA-DQB2,downstream_gene_variant,,ENST00000427449,;"	"AG"	"ENSG00000232629"	"ENST00000411527"	"Transcript"	"downstream_gene_variant"	"-/1059"	"-/684"	"-/227"	""	""	"rs375560176,rs141702193"	"1"	"515"	-1	"HLA-DQB2"	"HGNC"	4945	"protein_coding"	"YES"	"CCDS56419.1"	"ENSP00000390431"	"P05538"	""	"UPI0000457414"	"NM_001198858.1"	NA	NA	""	""	""	""	"AG:0.649,AG:0.649"	"AG:0.7147,AG:0.7147"	NA	"AG:0.8075,AG:0.8075"	"AG:0.6133,AG:0.6133"	"AG:0.6718,AG:0.6718"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"5a33c638-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2220"	"RP3-468B3.2"	100653005	"mskcc.org"	"GRCh37"	"6"	33878479	33878480	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs61550660"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000530000"	""	11	"."	4	4	"."	0	"RP3-468B3.2,intron_variant,,ENST00000451317,;RP3-468B3.2,intron_variant,,ENST00000526556,;RP3-468B3.2,upstream_gene_variant,,ENST00000530000,;"	"G"	"ENSG00000233183"	"ENST00000530000"	"Transcript"	"upstream_gene_variant"	"-/6593"	""	""	""	""	"rs61550660"	"1"	"399"	1	"RP3-468B3.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"GGC:0.0006"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"5b0c2500-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2221"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	33933578	33933579	"+"	"IGR"	"INS"	"-"	"-"	"TCTTTCTTTCTTTCTTTCTT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	1	"."	0	""	"TCTTTCTTTCTTTCTTTCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"5b0dbf64-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2222"	"GRM4"	2914	"mskcc.org"	"GRCh37"	"6"	34003089	34003090	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs571058191"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2442+355dupC"	""	""	"ENST00000538487"	""	31	"."	7	9	"."	0	"GRM4,intron_variant,,ENST00000538487,NM_000841.2,NM_001256811.1;GRM4,intron_variant,,ENST00000374181,;GRM4,intron_variant,,ENST00000374177,NM_001256809.1;GRM4,intron_variant,,ENST00000609222,NM_001256813.1;GRM4,intron_variant,,ENST00000535756,;GRM4,intron_variant,,ENST00000544773,NM_001256812.1;GRM4,intron_variant,,ENST00000455714,NM_001256814.1;GRM4,intron_variant,,ENST00000545715,;GRM4,intron_variant,,ENST00000609860,;GRM4,intron_variant,,ENST00000609278,NM_001282847.1;"	"G"	"ENSG00000124493"	"ENST00000538487"	"Transcript"	"intron_variant"	"-/4153"	"-/2739"	"-/912"	""	""	"rs571058191"	"1"	NA	-1	"GRM4"	"HGNC"	4596	"protein_coding"	"YES"	"CCDS4787.1"	"ENSP00000440556"	"Q14833"	"A8K0J8,A1L4F9"	"UPI000004A7DE"	"NM_000841.2,NM_001256811.1"	NA	NA	""	"9/10"	""	"G:0.1280"	"G:0.3533"	"G:0.0807"	NA	"G:0.0675"	"G:0.0368"	"G:0.0133"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"5b0f64f4-2764-11e6-a497-bf4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225806451612903	"WXS"	FALSE
"2223"	"GRM4"	2914	"mskcc.org"	"GRCh37"	"6"	34108114	34108115	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs5875496"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-364+5662dupC"	""	""	"ENST00000538487"	""	6	"."	4	3	"."	0	"GRM4,intron_variant,,ENST00000538487,NM_000841.2,NM_001256811.1;GRM4,intron_variant,,ENST00000374177,NM_001256809.1;GRM4,intron_variant,,ENST00000609278,NM_001282847.1;"	"G"	"ENSG00000124493"	"ENST00000538487"	"Transcript"	"intron_variant"	"-/4153"	"-/2739"	"-/912"	""	""	"rs5875496"	"1"	NA	-1	"GRM4"	"HGNC"	4596	"protein_coding"	"YES"	"CCDS4787.1"	"ENSP00000440556"	"Q14833"	"A8K0J8,A1L4F9"	"UPI000004A7DE"	"NM_000841.2,NM_001256811.1"	NA	NA	""	"1/10"	""	"-:0.3988"	"G:0.5817"	"G:0.8026"	NA	"G:0.5248"	"G:0.6342"	"G:0.5297"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"5b193c18-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2224"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	34224636	34224638	"+"	"IGR"	"DEL"	"AGC"	"AGC"	"-"	"rs66754415"	NA	"JHCCPT1"	"JHCCPN1"	"AGC"	"AGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	6	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs66754415"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGCA"	"3986e528-2764-11e6-a497-bf4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2225"	"CLPS"	1208	"mskcc.org"	"GRCh37"	"6"	35762438	35762445	"+"	"3'Flank"	"DEL"	"GTGTGTGT"	"GTGTGTGT"	"-"	"rs113204123"	NA	"JHCCPT1"	"JHCCPN1"	"GTGTGTGT"	"GTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000259938"	""	12	"."	3	5	"."	0	"CLPS,downstream_gene_variant,,ENST00000259938,NM_001832.3;CLPSL1,downstream_gene_variant,,ENST00000428710,;"	"-"	"ENSG00000137392"	"ENST00000259938"	"Transcript"	"downstream_gene_variant"	"-/526"	"-/339"	"-/112"	""	""	"rs113204123"	"1"	"314"	-1	"CLPS"	"HGNC"	2085	"protein_coding"	"YES"	"CCDS4811.1"	"ENSP00000259938"	"P04118"	""	"UPI0000127E78"	"NM_001832.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGTGTGTGTG"	"3a22adf0-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2226"	"MDGA1"	266727	"mskcc.org"	"GRCh37"	"6"	37611884	37611903	"+"	"Intron"	"DEL"	"CCCCACGCATCCTGCCTCAC"	"CCCCACGCATCCTGCCTCAC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CCCCACGCATCCTGCCTCAC"	"CCCCACGCATCCTGCCTCAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2402-184_2402-165delGTGAGGCAGGATGCGTGGGG"	""	""	"ENST00000434837"	""	20	"."	3	4	"."	0	"MDGA1,intron_variant,,ENST00000297153,;MDGA1,intron_variant,,ENST00000434837,NM_153487.3;MDGA1,intron_variant,,ENST00000505425,;MDGA1,intron_variant,,ENST00000418178,;MDGA1,downstream_gene_variant,,ENST00000510077,;MDGA1,upstream_gene_variant,,ENST00000503419,;MDGA1,intron_variant,,ENST00000502298,;MDGA1,upstream_gene_variant,,ENST00000373401,;"	"-"	"ENSG00000112139"	"ENST00000434837"	"Transcript"	"intron_variant"	"-/8898"	"-/2868"	"-/955"	""	""	""	"1"	NA	-1	"MDGA1"	"HGNC"	19267	"protein_coding"	"YES"	"CCDS47417.1"	"ENSP00000402584"	"Q8NFP4"	"D6RHU8,D6RFG6"	"UPI0000071D28"	"NM_153487.3"	NA	NA	""	"13/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACCCCACGCATCCTGCCTCACC"	"3ae749b2-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"2227"	"KCNK5"	8645	"mskcc.org"	"GRCh37"	"6"	39152285	39152286	"+"	"3'Flank"	"INS"	"-"	"-"	"AT"	"rs10667498"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000359534"	""	6	"."	4	1	"."	0	"KCNK5,downstream_gene_variant,,ENST00000359534,NM_003740.3;"	"AT"	"ENSG00000164626"	"ENST00000359534"	"Transcript"	"downstream_gene_variant"	"-/3756"	"-/1500"	"-/499"	""	""	"rs10667498"	"1"	"4463"	-1	"KCNK5"	"HGNC"	6280	"protein_coding"	"YES"	"CCDS4841.1"	"ENSP00000352527"	"O95279"	""	"UPI000003AFB5"	"NM_003740.3"	NA	NA	""	""	""	"-:0.1945"	"AT:0.677"	"AT:0.8127"	NA	"AT:0.9425"	"AT:0.7594"	"AT:0.8804"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"5c2033be-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2228"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	40593116	40593117	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs113812009"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113812009"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4944"	"A:0.7375"	"A:0.3602"	NA	"A:0.3274"	"A:0.5169"	"A:0.4673"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"5c3c4f86-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2229"	"ENSR00001781610"	0	"mskcc.org"	"GRCh37"	"6"	41424492	41424493	"+"	"IGR"	"INS"	"-"	"-"	"CCTC"	"rs149867012"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001781610"	""	12	"."	3	8	"."	0	""	"CCTC"	""	"ENSR00001781610"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs149867012"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"CCTC:0.0699"	"CCTC:0.115"	"CCTC:0.0504"	NA	"CCTC:0.0139"	"CCTC:0.0586"	"CCTC:0.092"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"5c645e18-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2230"	"UBR2"	23304	"mskcc.org"	"GRCh37"	"6"	42627257	42627262	"+"	"Intron"	"DEL"	"ATACAC"	"ATACAC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ATACAC"	"ATACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3243-136_3243-131delTACACA"	""	""	"ENST00000372899"	""	22	"."	3	7	"."	0	"UBR2,intron_variant,,ENST00000372899,NM_015255.2;UBR2,intron_variant,,ENST00000372901,;UBR2,intron_variant,,ENST00000372883,;RNU6-890P,upstream_gene_variant,,ENST00000384121,;"	"-"	"ENSG00000024048"	"ENST00000372899"	"Transcript"	"intron_variant"	"-/7857"	"-/5268"	"-/1755"	""	""	""	"1"	NA	1	"UBR2"	"HGNC"	21289	"protein_coding"	"YES"	"CCDS4870.1"	"ENSP00000361990"	"Q8IWV8"	"B3KXG6"	"UPI0000074466"	"NM_015255.2"	NA	NA	""	"29/46"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATACACA"	"3c0cb2be-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"2231"	"PTK7"	5754	"mskcc.org"	"GRCh37"	"6"	43098768	43098781	"+"	"Intron"	"DEL"	"CACACACACACACA"	"CACACACACACACA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CACACACACACACA"	"CACACACACACACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.836+404_836+417delACACACACACACAC"	""	""	"ENST00000481273"	""	11	"."	3	1	"."	0	"PTK7,intron_variant,,ENST00000230419,NM_002821.4;PTK7,intron_variant,,ENST00000345201,NM_152880.3;PTK7,intron_variant,,ENST00000352931,NM_152882.3;PTK7,intron_variant,,ENST00000349241,NM_152881.3;PTK7,intron_variant,,ENST00000481273,NM_001270398.1;PTK7,intron_variant,,ENST00000471863,;PTK7,intron_variant,,ENST00000481946,;PTK7,upstream_gene_variant,,ENST00000489707,;PTK7,downstream_gene_variant,,ENST00000476760,;PTK7,intron_variant,,ENST00000487673,;PTK7,intron_variant,,ENST00000470019,;PTK7,intron_variant,,ENST00000230418,;PTK7,upstream_gene_variant,,ENST00000490710,;"	"-"	"ENSG00000112655"	"ENST00000481273"	"Transcript"	"intron_variant"	"-/3436"	"-/3237"	"-/1078"	""	""	""	"1"	NA	1	"PTK7"	"HGNC"	9618	"protein_coding"	"YES"	"CCDS59021.1"	"ENSP00000418754"	"Q13308"	""	"UPI0001B79423"	"NM_001270398.1"	NA	NA	""	"5/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"35"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCACACACACACACAC"	"3c81f97a-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2232"	"RSPH9"	221421	"mskcc.org"	"GRCh37"	"6"	43623725	43623726	"+"	"Intron"	"INS"	"-"	"-"	"CTTCCTTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.478+339_478+346dupTTCCTTCC"	""	""	"ENST00000372165"	""	31	"."	5	6	"."	0	"RSPH9,intron_variant,,ENST00000372165,NM_001193341.1;RSPH9,intron_variant,,ENST00000372163,NM_152732.4;"	"CTTCCTTC"	"ENSG00000172426"	"ENST00000372165"	"Transcript"	"intron_variant"	"-/2586"	"-/921"	"-/306"	""	""	""	"1"	NA	1	"RSPH9"	"HGNC"	21057	"protein_coding"	"YES"	"CCDS55005.1"	"ENSP00000361238"	"Q9H1X1"	""	"UPI0000073514"	"NM_001193341.1"	NA	NA	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"49"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAC"	"5d03bbb6-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161290322580645	"WXS"	FALSE
"2233"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	43826324	43826325	"+"	"IGR"	"DEL"	"GG"	"-"	"-"	"rs5875853"	NA	"JHCCPT1"	"JHCCPN1"	"GG"	"GG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5875853"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGGG"	"3d480f8e-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2234"	"SUPT3H"	8464	"mskcc.org"	"GRCh37"	"6"	45171987	45171988	"+"	"Intron"	"INS"	"-"	"-"	"AAGAAGAAGAAGAAGAAGAAGAAGAAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.135-98271_135-98245dupCTTCTTCTTCTTCTTCTTCTTCTTCTT"	""	""	"ENST00000371460"	""	12	"."	4	2	"."	0	"SUPT3H,intron_variant,,ENST00000371460,NM_181356.2;SUPT3H,intron_variant,,ENST00000371459,NM_003599.3,NM_001261823.1;SUPT3H,intron_variant,,ENST00000371461,;SUPT3H,intron_variant,,ENST00000306867,;SUPT3H,intron_variant,,ENST00000475057,;"	"AAGAAGAAGAAGAAGAAGAAGAAGAAG"	"ENSG00000196284"	"ENST00000371460"	"Transcript"	"intron_variant"	"-/2389"	"-/987"	"-/328"	""	""	""	"1"	NA	-1	"SUPT3H"	"HGNC"	11466	"protein_coding"	"YES"	"CCDS34466.1"	"ENSP00000360515"	"O75486"	"B4E1H0"	"UPI000018CE7C"	"NM_181356.2"	NA	NA	""	"4/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"5d51185c-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2235"	"ENSR00001782380"	0	"mskcc.org"	"GRCh37"	"6"	45725830	45725831	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs138181578"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001782380"	""	6	"."	3	1	"."	0	""	"T"	""	"ENSR00001782380"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs138181578"	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0120"	"T:0.972"	"T:0.987"	NA	"T:0.997"	"T:0.992"	"T:0.9969"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"5d5952d8-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2236"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	45764957	45764966	"+"	"IGR"	"DEL"	"CAGGGCAGCT"	"CAGGGCAGCT"	"-"	"rs11276783"	NA	"JHCCPT1"	"JHCCPN1"	"CAGGGCAGCT"	"CAGGGCAGCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11276783"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CAGGGCAGCT:0.2007"	"-:0.5711"	"-:0.8473"	NA	"-:0.9077"	"-:0.8012"	"-:0.9601"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACAGGGCAGCTC"	"3db70510-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2237"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	45833837	45833840	"+"	"IGR"	"DEL"	"TTTC"	"TTTC"	"-"	"rs142466444"	NA	"JHCCPT1"	"JHCCPN1"	"TTTC"	"TTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	21	"."	5	8	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142466444"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TTTC:0.2242"	"-:0.6747"	"-:0.8285"	NA	"-:0.9216"	"-:0.7386"	"-:0.7628"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTTCT"	"3dbfa440-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WXS"	FALSE
"2238"	"GPR115"	221393	"mskcc.org"	"GRCh37"	"6"	47694530	47694530	"+"	"3'Flank"	"DEL"	"T"	"T"	"-"	"rs56092599"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000283303"	""	9	"."	4	3	"."	0	"GPR115,downstream_gene_variant,,ENST00000283303,NM_153838.3;GPR115,downstream_gene_variant,,ENST00000371220,;GPR115,downstream_gene_variant,,ENST00000327753,;RP11-550C4.6,downstream_gene_variant,,ENST00000446733,;"	"-"	"ENSG00000153294"	"ENST00000283303"	"Transcript"	"downstream_gene_variant"	"-/3162"	"-/2088"	"-/695"	""	""	"rs56092599"	"1"	"4773"	1	"GPR115"	"HGNC"	19011	"protein_coding"	"YES"	"CCDS4922.2"	"ENSP00000283303"	"Q8IZF3"	""	"UPI000046FF2B"	"NM_153838.3"	NA	NA	""	""	""	"T:0.0885"	"-:0.6868"	"-:0.9625"	NA	"-:1"	"-:0.997"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTT"	"3e26664e-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2239"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	49169185	49169186	"+"	"IGR"	"INS"	"-"	"-"	"TTCT"	"rs150534464"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	2	"."	0	""	"TTCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150534464"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2666"	"TTCT:0.8427"	"TTCT:0.7406"	NA	"TTCT:0.7659"	"TTCT:0.6233"	"TTCT:0.6605"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"5d97ad3a-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2240"	"TFAP2B"	7021	"mskcc.org"	"GRCh37"	"6"	50811233	50811233	"+"	"3'UTR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*128delC"	""	""	"ENST00000393655"	"7/7"	115	"."	4	50	"."	0	"TFAP2B,3_prime_UTR_variant,,ENST00000263046,;TFAP2B,3_prime_UTR_variant,,ENST00000393655,NM_003221.3;"	"-"	"ENSG00000008196"	"ENST00000393655"	"Transcript"	"3_prime_UTR_variant"	"1680/5773"	"-/1383"	"-/460"	""	""	""	"1"	NA	1	"TFAP2B"	"HGNC"	11743	"protein_coding"	"YES"	"CCDS4934.2"	"ENSP00000377265"	"Q92481"	"A8K557"	"UPI000020DE90"	"NM_003221.3"	NA	NA	"7/7"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATCA"	"3e8d8d60-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0347826086956522	"WXS"	FALSE
"2241"	"PRIM2"	5558	"mskcc.org"	"GRCh37"	"6"	57415028	57415029	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs5876609"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1020+16712dupT"	""	""	"ENST00000607273"	""	16	"."	4	8	"."	0	"PRIM2,intron_variant,,ENST00000607273,NM_000947.3;PRIM2,intron_variant,,ENST00000389488,;PRIM2,intron_variant,,ENST00000550475,;"	"T"	"ENSG00000146143"	"ENST00000607273"	"Transcript"	"intron_variant"	"-/2290"	"-/1041"	"-/346"	""	""	"rs5876609"	"1"	NA	1	"PRIM2"	"HGNC"	9370	"protein_coding"	"YES"	""	"ENSP00000475738"	""	"U3KQB9,I0CMK6,I0CMJ8,H9XFA6"	"UPI00004588DE"	"NM_000947.3"	NA	NA	""	"10/13"	""	"T:0.4986"	"T:0.4977"	"T:0.4986"	NA	"T:0.498"	"T:0.5"	"T:0.499"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"5e70a1ee-2764-11e6-a497-bf4a424a729f"	"211"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2242"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	62277625	62277628	"+"	"IGR"	"DEL"	"TCCT"	"TCCT"	"-"	"rs35140810"	NA	"JHCCPT1"	"JHCCPN1"	"TCCT"	"TCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	22	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35140810"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TCCT:0.4397"	"-:0.5998"	"-:0.6427"	NA	"-:0.5565"	"-:0.5964"	"-:0.4151"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTCCTT"	"3fa1d3fa-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"2243"	"KHDRBS2"	202559	"mskcc.org"	"GRCh37"	"6"	62887453	62887454	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs10564516"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.92-237_92-236delCA"	""	""	"ENST00000281156"	""	32	"."	9	4	"."	0	"KHDRBS2,intron_variant,,ENST00000281156,NM_152688.2;"	"-"	"ENSG00000112232"	"ENST00000281156"	"Transcript"	"intron_variant"	"-/2332"	"-/1050"	"-/349"	""	""	"rs10564516"	"1"	NA	-1	"KHDRBS2"	"HGNC"	18114	"protein_coding"	"YES"	"CCDS4963.1"	"ENSP00000281156"	"Q5VWX1"	""	"UPI000004D256"	"NM_152688.2"	NA	NA	""	"1/8"	""	"TG:0.4882"	"-:0.4266"	"-:0.4683"	NA	"-:0.5714"	"-:0.6571"	"-:0.4468"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTGT"	"3faef5c6-2764-11e6-a497-bf4a424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28125	"WXS"	FALSE
"2244"	"EYS"	346007	"mskcc.org"	"GRCh37"	"6"	64658512	64658515	"+"	"Intron"	"DEL"	"TCTT"	"TCTT"	"-"	"rs113457331"	NA	"JHCCPT1"	"JHCCPN1"	"TCTT"	"TCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7055+35761_7055+35764delAAGA"	""	""	"ENST00000503581"	""	11	"."	3	1	"."	0	"EYS,intron_variant,,ENST00000503581,NM_001142800.1;EYS,intron_variant,,ENST00000370621,;EYS,intron_variant,,ENST00000370616,;EYS,intron_variant,,ENST00000398580,;"	"-"	"ENSG00000188107"	"ENST00000503581"	"Transcript"	"intron_variant"	"-/10589"	"-/9435"	"-/3144"	""	""	"rs113457331"	"1"	NA	-1	"EYS"	"HGNC"	21555	"protein_coding"	"YES"	"CCDS47445.1"	"ENSP00000424243"	"Q5T1H1"	""	"UPI000188F466"	"NM_001142800.1"	NA	NA	""	"35/42"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTCTTT"	"3fd613e0-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2245"	"EYS"	346007	"mskcc.org"	"GRCh37"	"6"	65375827	65375828	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs56159514"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3444-39690dupG"	""	""	"ENST00000503581"	""	6	"."	4	2	"."	0	"EYS,intron_variant,,ENST00000503581,NM_001142800.1;EYS,intron_variant,,ENST00000370621,;EYS,intron_variant,,ENST00000370616,;EYS,intron_variant,,ENST00000330816,;"	"C"	"ENSG00000188107"	"ENST00000503581"	"Transcript"	"intron_variant"	"-/10589"	"-/9435"	"-/3144"	""	""	"rs56159514"	"1"	NA	-1	"EYS"	"HGNC"	21555	"protein_coding"	"YES"	"CCDS47445.1"	"ENSP00000424243"	"Q5T1H1"	""	"UPI000188F466"	"NM_001142800.1"	NA	NA	""	"22/42"	""	"-:0.1174"	"C:0.674"	"C:0.9755"	NA	"C:0.8889"	"C:0.9871"	"C:0.9847"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"5ea86638-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2246"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	68928913	68928913	"+"	"IGR"	"DEL"	"A"	"-"	"-"	"rs71536440"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71536440"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.2536"	"-:0.5129"	"-:0.83"	NA	"-:0.8304"	"-:0.8062"	"-:0.8548"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"400ecc80-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2247"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	72564710	72564711	"+"	"IGR"	"INS"	"-"	"-"	"GAG"	"rs33998626"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	1	"."	0	""	"GAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs33998626"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GAG:0.4924"	"GAG:0.1717"	"GAG:0.67"	NA	"GAG:0.5863"	"GAG:0.6093"	"GAG:0.5828"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"5f37f1f4-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"2248"	"IBTK"	25998	"mskcc.org"	"GRCh37"	"6"	82883391	82883392	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs141243564"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3726-238_3726-237dupAT"	""	""	"ENST00000306270"	""	10	"."	5	3	"."	0	"IBTK,intron_variant,,ENST00000306270,NM_015525.2;IBTK,intron_variant,,ENST00000510291,;IBTK,intron_variant,,ENST00000503631,;IBTK,intron_variant,,ENST00000505222,;IBTK,intron_variant,,ENST00000503400,;IBTK,intron_variant,,ENST00000445419,;IBTK,intron_variant,,ENST00000471036,;IBTK,upstream_gene_variant,,ENST00000508381,;"	"AT"	"ENSG00000005700"	"ENST00000306270"	"Transcript"	"intron_variant"	"-/6054"	"-/4062"	"-/1353"	""	""	"rs141243564"	"1"	NA	-1	"IBTK"	"HGNC"	17853	"protein_coding"	"YES"	"CCDS34490.1"	"ENSP00000305721"	"Q9P2D0"	""	"UPI000041929F"	"NM_015525.2"	NA	NA	""	"26/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"5ff06e3c-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2249"	"SRSF12"	135295	"mskcc.org"	"GRCh37"	"6"	89827812	89827813	"+"	"5'Flank"	"INS"	"-"	"-"	"GGCGGC"	"rs201618537"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000452027"	""	23	"."	3	19	"."	0	"SRSF12,upstream_gene_variant,,ENST00000452027,NM_080743.4;SRSF12,upstream_gene_variant,,ENST00000475068,;SRSF12,upstream_gene_variant,,ENST00000517387,;"	"GGCGGC"	"ENSG00000154548"	"ENST00000452027"	"Transcript"	"upstream_gene_variant"	"-/3599"	"-/786"	"-/261"	""	""	"rs201618537"	"1"	"12"	-1	"SRSF12"	"HGNC"	21220	"protein_coding"	"YES"	"CCDS47459.1"	"ENSP00000414302"	"Q8WXF0"	"B3KVR7"	"UPI00000721B8"	"NM_080743.4"	NA	NA	""	""	""	"-:0.3510"	"GGCGGC:0.4236"	"GGCGGC:0.6902"	NA	"GGCGGC:0.7887"	"GGCGGC:0.6998"	"GGCGGC:0.728"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"60840462-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"2250"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	91122413	91122414	"+"	"IGR"	"INS"	"-"	"-"	"AAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	3	"."	0	""	"AAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"60b783b4-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2251"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	91854127	91854128	"+"	"IGR"	"INS"	"-"	"-"	"CCTTCCTTCCTTC"	"rs564314501"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	3	"."	0	""	"CCTTCCTTCCTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs564314501"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.2318"	"C:0.1581"	"C:0.2651"	NA	"C:0.2788"	"C:0.2406"	"C:0.2505"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"60c6bcd0-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2252"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	97155679	97155680	"+"	"IGR"	"INS"	"-"	"-"	"TCTG"	"rs150046487"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	6	"."	0	""	"TCTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150046487"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TCTG:0.2434"	"TCTG:0.2852"	"TCTG:0.1499"	NA	"TCTG:0.2679"	"TCTG:0.2346"	"TCTG:0.2372"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"60fa4866-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2253"	"USP45"	85015	"mskcc.org"	"GRCh37"	"6"	99923694	99923694	"+"	"Intron"	"DEL"	"T"	"-"	"-"	"rs5878581"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.933+325delA"	""	""	"ENST00000327681"	""	8	"."	6	2	"."	0	"USP45,intron_variant,,ENST00000327681,NM_001080481.1;USP45,intron_variant,,ENST00000392738,;USP45,intron_variant,,ENST00000500704,;USP45,intron_variant,,ENST00000369233,;USP45,intron_variant,,ENST00000496090,;USP45,intron_variant,,ENST00000511403,;USP45,intron_variant,,ENST00000496518,;USP45,intron_variant,,ENST00000506871,;USP45,intron_variant,,ENST00000507717,;"	"-"	"ENSG00000123552"	"ENST00000327681"	"Transcript"	"intron_variant"	"-/6255"	"-/2445"	"-/814"	""	""	"rs5878581"	"1"	NA	-1	"USP45"	"HGNC"	20080	"protein_coding"	"YES"	"CCDS34501.1"	"ENSP00000333376"	"Q70EL2"	"F5H1L5,D6RE98"	"UPI0000253B80"	"NM_001080481.1"	NA	NA	""	"9/17"	""	"T:0.0192"	"-:0.9304"	"-:0.9942"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"43f89baa-2764-11e6-a497-bf4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"2254"	"GRIK2"	2898	"mskcc.org"	"GRCh37"	"6"	102483068	102483069	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs139440547"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2086-128_2086-127dupAT"	""	""	"ENST00000421544"	""	23	"."	5	4	"."	0	"GRIK2,intron_variant,,ENST00000369138,NM_001166247.1;GRIK2,intron_variant,,ENST00000413795,NM_175768.3;GRIK2,intron_variant,,ENST00000421544,NM_021956.4;GRIK2,intron_variant,,ENST00000369134,;GRIK2,intron_variant,,ENST00000318991,;GRIK2,intron_variant,,ENST00000369137,;GRIK2,intron_variant,,ENST00000487161,;"	"TA"	"ENSG00000164418"	"ENST00000421544"	"Transcript"	"intron_variant"	"-/4789"	"-/2727"	"-/908"	""	""	"rs139440547"	"1"	NA	1	"GRIK2"	"HGNC"	4580	"protein_coding"	"YES"	"CCDS5048.1"	"ENSP00000397026"	"Q13002"	"Q9BZ15,Q6P3V6,H7C2P5,F8WEZ8,D7RWZ8"	"UPI000012B617"	"NM_021956.4"	NA	NA	""	"13/15"	""	"TA:0.3698"	"TA:0.4138"	"TA:0.3617"	NA	"TA:0.376"	"TA:0.3181"	"TA:0.363"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"21"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"6158664e-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WXS"	FALSE
"2255"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	103633589	103633590	"+"	"IGR"	"INS"	"-"	"-"	"AAAGAAAGAAAGAA"	"rs113106940"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	5	"."	0	""	"AAAGAAAGAAAGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113106940"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0958"	"AA:0.9523"	"AA:0.9164"	NA	"AA:0.8968"	"AA:0.8569"	"AA:0.8865"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"615bd48c-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"2256"	"AIM1"	202	"mskcc.org"	"GRCh37"	"6"	107006037	107006037	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs5878897"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4492-324delG"	""	""	"ENST00000369066"	""	8	"."	5	1	"."	0	"AIM1,intron_variant,,ENST00000369066,NM_001624.2;AIM1,intron_variant,,ENST00000535438,;AIM1,downstream_gene_variant,,ENST00000457437,;"	"-"	"ENSG00000112297"	"ENST00000369066"	"Transcript"	"intron_variant"	"-/7544"	"-/5172"	"-/1723"	""	""	"rs5878897"	"1"	NA	1	"AIM1"	"HGNC"	356	"protein_coding"	"YES"	"CCDS34506.1"	"ENSP00000358062"	"Q9Y4K1"	"B3KPT0"	"UPI000013C91D"	"NM_001624.2"	NA	NA	""	"15/19"	""	"G:0.2406"	"-:0.5061"	"-:0.8588"	NA	"-:0.8294"	"-:0.8469"	"-:0.8691"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGT"	"44c97662-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"2257"	"RP1-60O19.1"	100422737	"mskcc.org"	"GRCh37"	"6"	107161073	107161074	"+"	"3'Flank"	"INS"	"-"	"-"	"T"	"rs34272051"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000602621"	""	6	"."	3	1	"."	0	"RP1-60O19.1,downstream_gene_variant,,ENST00000602621,;RP1-60O19.1,downstream_gene_variant,,ENST00000436659,;RP1-60O19.1,downstream_gene_variant,,ENST00000428750,;"	"T"	"ENSG00000235142"	"ENST00000602621"	"Transcript"	"downstream_gene_variant"	"-/2232"	""	""	""	""	"rs34272051"	"1"	"4253"	-1	"RP1-60O19.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2610"	"T:0.7935"	"T:0.8012"	NA	"T:0.7103"	"T:0.7266"	"T:0.6636"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"61937e32-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2258"	"SCML4"	256380	"mskcc.org"	"GRCh37"	"6"	108028579	108028580	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs57892324"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1119+490dupT"	""	""	"ENST00000369020"	""	8	"."	3	1	"."	0	"SCML4,intron_variant,,ENST00000369022,NM_001286408.1;SCML4,intron_variant,,ENST00000369025,;SCML4,intron_variant,,ENST00000369020,NM_198081.3;"	"A"	"ENSG00000146285"	"ENST00000369020"	"Transcript"	"intron_variant"	"-/1491"	"-/1245"	"-/414"	""	""	"rs57892324"	"1"	NA	-1	"SCML4"	"HGNC"	21397	"protein_coding"	"YES"	"CCDS5060.2"	"ENSP00000358016"	"Q8N228"	""	"UPI0000EE1E57"	"NM_198081.3"	NA	NA	""	"7/7"	""	"-:0.3442"	"A:0.6407"	"A:0.7522"	NA	"A:0.5278"	"A:0.6869"	"A:0.7076"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"619e41fa-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2259"	"CCDC162P"	221262	"mskcc.org"	"GRCh37"	"6"	109674617	109674618	"+"	"Intron"	"INS"	"-"	"-"	"TCTT"	"rs150804322"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.394+502_394+505dupCTTT"	""	""	"ENST00000440451"	""	12	"."	3	2	"."	0	"CCDC162P,intron_variant,,ENST00000440451,;CCDC162P,intron_variant,,ENST00000473454,;CCDC162P,intron_variant,,ENST00000368966,;CCDC162P,intron_variant,,ENST00000368965,;"	"TCTT"	"ENSG00000203799"	"ENST00000440451"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/588"	""	""	""	""	"rs150804322"	"1"	NA	1	"CCDC162P"	"HGNC"	21565	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"61d5486c-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2260"	"CDC40"	51362	"mskcc.org"	"GRCh37"	"6"	110531596	110531597	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs143694164"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.631-313_631-312delGA"	""	""	"ENST00000368932"	""	6	"."	3	3	"."	0	"CDC40,intron_variant,,ENST00000368932,;CDC40,intron_variant,,ENST00000307731,NM_015891.2;CDC40,intron_variant,,ENST00000368930,;CDC40,downstream_gene_variant,,ENST00000453107,;CDC40,intron_variant,,ENST00000606893,;CDC40,downstream_gene_variant,,ENST00000431461,;"	"-"	"ENSG00000168438"	"ENST00000368932"	"Transcript"	"intron_variant"	"-/3927"	"-/1740"	"-/579"	""	""	"rs143694164"	"1"	NA	1	"CDC40"	"HGNC"	17350	"protein_coding"	"YES"	"CCDS5081.1"	"ENSP00000357928"	"O60508"	"Q5SRM9"	"UPI0000132145"	""	NA	NA	""	"6/15"	""	"-:0.0591"	"-:0.1195"	"-:0.0605"	NA	"-:0"	"-:0.0557"	"-:0.0409"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGA"	"458d47e0-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2261"	"RPF2"	84154	"mskcc.org"	"GRCh37"	"6"	111306084	111306085	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35242084"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.24-117dupT"	""	""	"ENST00000441448"	""	30	"."	3	10	"."	0	"RPF2,intron_variant,,ENST00000441448,NM_032194.1;RPF2,intron_variant,,ENST00000425871,;RPF2,intron_variant,,ENST00000607388,;RPF2,intron_variant,,ENST00000368864,;"	"T"	"ENSG00000197498"	"ENST00000441448"	"Transcript"	"intron_variant"	"-/1531"	"-/921"	"-/306"	""	""	"rs35242084"	"1"	NA	1	"RPF2"	"HGNC"	20870	"protein_coding"	"YES"	"CCDS5088.1"	"ENSP00000402338"	"Q9H7B2"	"Q5VXN0"	"UPI000006E56D"	"NM_032194.1"	NA	NA	""	"1/9"	""	"T:0.2556"	"T:0.3389"	"T:0.1254"	NA	"T:0.2569"	"T:0.169"	"T:0.3231"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"623ff554-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WXS"	FALSE
"2262"	"RPF2"	84154	"mskcc.org"	"GRCh37"	"6"	111310383	111310384	"+"	"Intron"	"DEL"	"AC"	"AC"	"-"	"rs67767509"	NA	"JHCCPT1"	"JHCCPN1"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.194+116_194+117delCA"	""	""	"ENST00000441448"	""	20	"."	3	10	"."	0	"RPF2,intron_variant,,ENST00000441448,NM_032194.1;RPF2,intron_variant,,ENST00000425871,;RPF2,intron_variant,,ENST00000607388,;RPF2,intron_variant,,ENST00000368864,;"	"-"	"ENSG00000197498"	"ENST00000441448"	"Transcript"	"intron_variant"	"-/1531"	"-/921"	"-/306"	""	""	"rs67767509"	"1"	NA	1	"RPF2"	"HGNC"	20870	"protein_coding"	"YES"	"CCDS5088.1"	"ENSP00000402338"	"Q9H7B2"	"Q5VXN0"	"UPI000006E56D"	"NM_032194.1"	NA	NA	""	"3/9"	""	"-:0.3536"	"-:0.3464"	"-:0.1542"	NA	"-:0.631"	"-:0.2008"	"-:0.3763"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTACA"	"45c935c0-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"2263"	"KIAA1919"	91749	"mskcc.org"	"GRCh37"	"6"	111585630	111585631	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11400802"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.313+484dupT"	""	""	"ENST00000368847"	""	9	"."	4	1	"."	0	"KIAA1919,intron_variant,,ENST00000368847,NM_153369.2;"	"T"	"ENSG00000173214"	"ENST00000368847"	"Transcript"	"intron_variant"	"-/5958"	"-/1557"	"-/518"	""	""	"rs11400802"	"1"	NA	1	"KIAA1919"	"HGNC"	21053	"protein_coding"	"YES"	"CCDS5090.1"	"ENSP00000357840"	"Q5TF39"	""	"UPI000013EF89"	"NM_153369.2"	NA	NA	""	"3/3"	""	"-:0.1833"	"T:0.739"	"T:0.8833"	NA	"T:0.8522"	"T:0.8628"	"T:0.7904"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"62497728-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2264"	"REV3L"	5980	"mskcc.org"	"GRCh37"	"6"	111685503	111685504	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs17539770"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6754-323dupA"	""	""	"ENST00000358835"	""	8	"."	3	4	"."	0	"REV3L,intron_variant,,ENST00000435970,NM_001286432.1;REV3L,intron_variant,,ENST00000358835,;REV3L,intron_variant,,ENST00000368802,NM_002912.3;REV3L,intron_variant,,ENST00000368805,;REV3L-IT1,upstream_gene_variant,,ENST00000411895,;REV3L,intron_variant,,ENST00000422377,;REV3L,intron_variant,,ENST00000434009,NM_001286431.1;REV3L,intron_variant,,ENST00000413831,;"	"T"	"ENSG00000009413"	"ENST00000358835"	"Transcript"	"intron_variant"	"-/10789"	"-/9393"	"-/3130"	""	""	"rs17539770"	"1"	NA	-1	"REV3L"	"HGNC"	9968	"protein_coding"	"YES"	"CCDS5091.2"	"ENSP00000351697"	"O60673"	"Q9UID5,C4TNX2,C4TNX1,C4TNX0,C4B7Q4"	"UPI0000140023"	""	NA	NA	""	"16/32"	""	"T:0.0601"	"T:0.0045"	"T:0.1023"	NA	"T:0.001"	"T:0.1799"	"T:0.0429"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"62520208-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2265"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	117336233	117336234	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs34402108"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	4	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34402108"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4421"	"C:0.6437"	"C:0.549"	NA	"C:0.3105"	"C:0.5427"	"C:0.7188"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"62c26e12-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2266"	"CEP85L"	387119	"mskcc.org"	"GRCh37"	"6"	118812358	118812365	"+"	"Intron"	"DEL"	"ATACACAC"	"ATACACAC"	"-"	"rs762011293"	NA	"JHCCPT1"	"JHCCPN1"	"ATACACAC"	"ATACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1446+484_1446+491delGTGTGTAT"	""	""	"ENST00000368488"	""	10	"."	3	4	"."	0	"CEP85L,intron_variant,,ENST00000368491,NM_001042475.2;CEP85L,intron_variant,,ENST00000368488,NM_001178035.1;CEP85L,intron_variant,,ENST00000434604,;CEP85L,downstream_gene_variant,,ENST00000419517,NM_206921.2;CEP85L,downstream_gene_variant,,ENST00000392500,;CEP85L,downstream_gene_variant,,ENST00000360290,;"	"-"	"ENSG00000111860"	"ENST00000368488"	"Transcript"	"intron_variant"	"-/7118"	"-/2427"	"-/808"	""	""	"rs762011293"	"1"	NA	-1	"CEP85L"	"HGNC"	21638	"protein_coding"	"YES"	"CCDS55052.1"	"ENSP00000357474"	"Q5SZL2"	"A2A3P3"	"UPI0001D1E40A"	"NM_001178035.1"	NA	NA	""	"7/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTATACACACA"	"46b799f4-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"2267"	"CEP85L"	387119	"mskcc.org"	"GRCh37"	"6"	118879790	118879797	"+"	"Intron"	"DEL"	"ACACACAC"	"ACACACAC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ACACACAC"	"ACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1029+6895_1029+6902delGTGTGTGT"	""	""	"ENST00000368488"	""	17	"."	4	14	"."	0	"CEP85L,intron_variant,,ENST00000368491,NM_001042475.2;CEP85L,intron_variant,,ENST00000368488,NM_001178035.1;CEP85L,intron_variant,,ENST00000419517,NM_206921.2;PLN,intron_variant,,ENST00000357525,NM_002667.3;CEP85L,intron_variant,,ENST00000392500,;CEP85L,intron_variant,,ENST00000434604,;CEP85L,intron_variant,,ENST00000360290,;"	"-"	"ENSG00000111860"	"ENST00000368488"	"Transcript"	"intron_variant"	"-/7118"	"-/2427"	"-/808"	""	""	""	"1"	NA	-1	"CEP85L"	"HGNC"	21638	"protein_coding"	"YES"	"CCDS55052.1"	"ENSP00000357474"	"Q5SZL2"	"A2A3P3"	"UPI0001D1E40A"	"NM_001178035.1"	NA	NA	""	"4/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATACACACACA"	"46ba38f8-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"2268"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	120673912	120673915	"+"	"IGR"	"DEL"	"AAAG"	"AAAG"	"-"	"rs140166934"	NA	"JHCCPT1"	"JHCCPN1"	"AAAG"	"AAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140166934"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAGA"	"46d6cef0-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"2269"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	120949130	120949131	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs36099844"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	3	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs36099844"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1997"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"62ff039a-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2270"	"NKAIN2"	154215	"mskcc.org"	"GRCh37"	"6"	124700370	124700371	"+"	"Intron"	"INS"	"-"	"-"	"GGAGGGGAGGGGAGGAGAAGGAGGGAGGGAGGG"	"rs373141872"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.273+23878_273+23879insGAGGGGAGGGGAGGAGAAGGAGGGAGGGAGGGG"	""	""	"ENST00000368417"	""	7	"."	4	3	"."	0	"NKAIN2,intron_variant,,ENST00000368417,NM_001040214.1;NKAIN2,intron_variant,,ENST00000368416,;NKAIN2,intron_variant,,ENST00000545433,;NKAIN2,intron_variant,,ENST00000546092,;NKAIN2,intron_variant,,ENST00000476571,;"	"GGAGGGGAGGGGAGGAGAAGGAGGGAGGGAGGG"	"ENSG00000188580"	"ENST00000368417"	"Transcript"	"intron_variant"	"-/3115"	"-/627"	"-/208"	""	""	"rs373141872"	"1"	NA	1	"NKAIN2"	"HGNC"	16443	"protein_coding"	"YES"	"CCDS34526.1"	"ENSP00000357402"	"Q5VXU1"	"B3KNZ0,B0AZU5"	"UPI0000458919"	"NM_001040214.1"	NA	NA	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"6341081c-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2271"	"TPD52L1"	7164	"mskcc.org"	"GRCh37"	"6"	125582052	125582053	"+"	"Intron"	"INS"	"-"	"-"	"AGGAAAGAAAGAAAG"	"rs139147177"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.487-1926_487-1912dupGGAAAGAAAGAAAGA"	""	""	"ENST00000534000"	""	6	"."	3	1	"."	0	"TPD52L1,intron_variant,,ENST00000534000,NM_003287.2;TPD52L1,intron_variant,,ENST00000368388,NM_001003397.1;TPD52L1,intron_variant,,ENST00000304877,;TPD52L1,intron_variant,,ENST00000368402,NM_001003396.1;TPD52L1,intron_variant,,ENST00000392482,;TPD52L1,intron_variant,,ENST00000532429,NM_001003395.1;TPD52L1,intron_variant,,ENST00000527711,;TPD52L1,intron_variant,,ENST00000524679,;TPD52L1,intron_variant,,ENST00000534199,;TPD52L1,intron_variant,,ENST00000528193,;TPD52L1,intron_variant,,ENST00000530868,;TPD52L1,intron_variant,,ENST00000576089,;HDDC2,intron_variant,,ENST00000608456,;HDDC2,intron_variant,,ENST00000609477,;TPD52L1,intron_variant,,ENST00000532423,;TPD52L1,upstream_gene_variant,,ENST00000571678,;"	"AGGAAAGAAAGAAAG"	"ENSG00000111907"	"ENST00000534000"	"Transcript"	"intron_variant"	"-/2356"	"-/615"	"-/204"	""	""	"rs139147177"	"1"	NA	1	"TPD52L1"	"HGNC"	12006	"protein_coding"	"YES"	"CCDS5130.1"	"ENSP00000434142"	"Q16890"	"F6V707,E9PNQ9"	"UPI0000136B40"	"NM_003287.2"	NA	NA	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"635272e6-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2272"	"HINT3"	135114	"mskcc.org"	"GRCh37"	"6"	126277696	126277697	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs3832432"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000229633"	""	8	"."	3	3	"."	0	"HINT3,upstream_gene_variant,,ENST00000229633,NM_138571.4;"	"A"	"ENSG00000111911"	"ENST00000229633"	"Transcript"	"upstream_gene_variant"	"-/3311"	"-/549"	"-/182"	""	""	"rs3832432"	"1"	"230"	1	"HINT3"	"HGNC"	18468	"protein_coding"	"YES"	"CCDS5133.1"	"ENSP00000229633"	"Q9NQE9"	""	"UPI000006F73F"	"NM_138571.4"	NA	NA	""	""	""	"-:0.4255"	"A:0.2965"	"A:0.6167"	NA	"A:0.9405"	"A:0.4901"	"A:0.6299"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"63585012-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2273"	"TMEM244"	253582	"mskcc.org"	"GRCh37"	"6"	130154964	130154966	"+"	"Intron"	"DEL"	"TTT"	"TTT"	"-"	"rs66939937"	NA	"JHCCPT1"	"JHCCPN1"	"TTT"	"TTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.194-236_194-234delAAA"	""	""	"ENST00000438392"	""	14	"."	6	2	"."	0	"TMEM244,intron_variant,,ENST00000438392,;TMEM244,intron_variant,,ENST00000368143,NM_001010876.1;"	"-"	"ENSG00000203756"	"ENST00000438392"	"Transcript"	"intron_variant"	"-/568"	"-/387"	"-/128"	""	""	"rs66939937"	"1"	NA	-1	"TMEM244"	"HGNC"	21571	"protein_coding"	"YES"	"CCDS34536.1"	"ENSP00000403755"	"Q5VVB8"	""	"UPI0000161685"	""	NA	NA	""	"4/5"	""	"-:0.3740"	"-:0.4924"	"-:0.2651"	NA	"-:0.2252"	"-:0.3161"	"-:0.5041"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTG"	"47c9c89e-2764-11e6-a497-bf4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2274"	"EPB41L2"	2037	"mskcc.org"	"GRCh37"	"6"	131198985	131198986	"+"	"Intron"	"INS"	"-"	"-"	"CTAC"	"rs149670043"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2043+258_2043+259insGTAG"	""	""	"ENST00000337057"	""	6	"."	3	3	"."	0	"EPB41L2,intron_variant,,ENST00000337057,NM_001431.3;EPB41L2,intron_variant,,ENST00000368128,;EPB41L2,intron_variant,,ENST00000530757,;EPB41L2,intron_variant,,ENST00000527411,;EPB41L2,intron_variant,,ENST00000530481,NM_001199388.2;EPB41L2,intron_variant,,ENST00000445890,;EPB41L2,intron_variant,,ENST00000528282,NM_001252660.1;EPB41L2,intron_variant,,ENST00000392427,NM_001135554.1,NM_001135555.3;EPB41L2,intron_variant,,ENST00000524581,;EPB41L2,intron_variant,,ENST00000529208,NM_001199389.1;EPB41L2,intron_variant,,ENST00000531410,;EPB41L2,intron_variant,,ENST00000525271,;EPB41L2,intron_variant,,ENST00000527659,;EPB41L2,intron_variant,,ENST00000525193,;EPB41L2,intron_variant,,ENST00000456097,;EPB41L2,intron_variant,,ENST00000525198,;EPB41L2,intron_variant,,ENST00000527423,;EPB41L2,intron_variant,,ENST00000527017,;EPB41L2,intron_variant,,ENST00000533912,;EPB41L2,intron_variant,,ENST00000534166,;"	"CTAC"	"ENSG00000079819"	"ENST00000337057"	"Transcript"	"intron_variant"	"-/4457"	"-/3018"	"-/1005"	""	""	"rs149670043"	"1"	NA	-1	"EPB41L2"	"HGNC"	3379	"protein_coding"	"YES"	"CCDS5141.1"	"ENSP00000338481"	"O43491"	"E9PRG1,E9PQN0,E9PQD2,E9PJP4,E9PIG0"	"UPI0000129AF9"	"NM_001431.3"	NA	NA	""	"14/19"	""	"-:0.1667"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"639a7ef6-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2275"	"MED23"	9439	"mskcc.org"	"GRCh37"	"6"	131948486	131948487	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs377631753"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.159+49_159+50delCT"	""	""	"ENST00000368068"	""	371	"."	3	209	"."	0	"MED23,intron_variant,,ENST00000403834,;MED23,intron_variant,,ENST00000368068,NM_004830.3;MED23,intron_variant,,ENST00000354577,NM_015979.3,NM_001270521.1;MED23,intron_variant,,ENST00000368058,;MED23,intron_variant,,ENST00000368060,NM_001270522.1;MED23,intron_variant,,ENST00000540546,;MED23,intron_variant,,ENST00000368053,;MED23,intron_variant,,ENST00000539158,;ENPP3,upstream_gene_variant,,ENST00000414305,;MED23,non_coding_transcript_exon_variant,,ENST00000489888,;ENPP3,upstream_gene_variant,,ENST00000427707,;"	"-"	"ENSG00000112282"	"ENST00000368068"	"Transcript"	"intron_variant"	"-/5233"	"-/4107"	"-/1368"	""	""	"rs377631753"	"1"	NA	-1	"MED23"	"HGNC"	2372	"protein_coding"	"YES"	"CCDS5147.1"	"ENSP00000357047"	"Q9ULK4"	"B9TX51"	"UPI000012855F"	"NM_004830.3"	NA	NA	""	"3/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.0001319"	"0.0002413"	"9.074e-05"	"0"	"0.0001521"	"3.752e-05"	"0"	"0"	"1"	"PASS"	"AAAGA"	"483e6596-2764-11e6-a497-bf4a424a729f"	"180"	5.787e-05	"6/103672"	"14/106176"	"2/8288"	"1/11020"	"0/7526"	"1/6574"	"2/53298"	"0/686"	"0/16280"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.00808625336927224	"WXS"	FALSE
"2276"	"RPL21P66"	0	"mskcc.org"	"GRCh37"	"6"	132840608	132840609	"+"	"5'Flank"	"INS"	"-"	"T"	"T"	"rs113840779"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000426566"	""	7	"."	5	2	"."	0	"RPL21P66,upstream_gene_variant,,ENST00000426566,;"	"T"	"ENSG00000225343"	"ENST00000426566"	"Transcript"	"upstream_gene_variant"	"-/466"	""	""	""	""	"rs113840779"	"1"	"174"	-1	"RPL21P66"	"HGNC"	36476	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"63e1d242-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2277"	"SGK1"	6446	"mskcc.org"	"GRCh37"	"6"	134536272	134536273	"+"	"Intron"	"INS"	"-"	"-"	"TTTCTT"	"rs569795606"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.286-7704_286-7703insAAGAAA"	""	""	"ENST00000367858"	""	66	"."	3	30	"."	0	"SGK1,intron_variant,,ENST00000367858,NM_001143676.1;SGK1,intron_variant,,ENST00000461976,;SGK1,intron_variant,,ENST00000460769,;SGK1,intron_variant,,ENST00000524387,;SGK1,intron_variant,,ENST00000531575,;SGK1,intron_variant,,ENST00000485771,;SGK1,intron_variant,,ENST00000484353,;"	"TTTCTT"	"ENSG00000118515"	"ENST00000367858"	"Transcript"	"intron_variant"	"-/3201"	"-/1581"	"-/526"	""	""	"rs569795606"	"1"	NA	-1	"SGK1"	"HGNC"	10810	"protein_coding"	"YES"	"CCDS47476.1"	"ENSP00000356832"	"O00141"	"E9PP33,E9PJN2,B7Z1G1"	"UPI000013CA0E"	"NM_001143676.1"	NA	NA	""	"2/13"	""	"-:0.3281"	"TTTCTT:0.1241"	"TTTCTT:0.6988"	NA	"TTTCTT:0.8859"	"TTTCTT:0.8847"	"TTTCTT:0.954"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	"0.3883"	"0.161"	"0.3333"	"0.3864"	"0"	"0.3697"	"0.3667"	"0.3952"	NA	"common_variant"	"TCT"	"6415f496-2764-11e6-a497-bf4a424a729f"	"180"	0.3832	"2176/5678"	"3910/10070"	"19/118"	"16/48"	"34/88"	"0/0"	"508/1374"	"22/60"	"1577/3990"	"PASS"	"FALSE"	0.0454545454545455	"WXS"	FALSE
"2278"	"ENSR00001787257"	0	"mskcc.org"	"GRCh37"	"6"	134734269	134734269	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs61207958"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001787257"	""	11	"."	4	4	"."	0	""	"-"	""	"ENSR00001787257"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs61207958"	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACC"	"48e2102e-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2279"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	137279223	137279224	"+"	"IGR"	"INS"	"-"	"TTC"	"TTC"	"rs142859691"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	6	3	"."	0	""	"TTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142859691"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3313"	"TTC:0.9281"	"TTC:0.6441"	NA	"TTC:0.5258"	"TTC:0.5378"	"TTC:0.6176"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"645d43be-2764-11e6-a497-bf4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"2280"	"ENSR00001228294"	0	"mskcc.org"	"GRCh37"	"6"	137561811	137561811	"+"	"IGR"	"DEL"	"C"	"-"	"-"	"rs35046986"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001228294"	""	8	"."	7	1	"."	0	""	"-"	""	"ENSR00001228294"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs35046986"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.4956"	"-:0.5809"	"-:0.5576"	NA	"-:0.2093"	"-:0.7306"	"-:0.4346"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCC"	"496aab5a-2764-11e6-a497-bf4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.875	"WXS"	FALSE
"2281"	"ENSR00001500886"	0	"mskcc.org"	"GRCh37"	"6"	143059373	143059374	"+"	"IGR"	"INS"	"-"	"-"	"CTG"	"rs141043123"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001500886"	""	10	"."	5	1	"."	0	""	"CTG"	""	"ENSR00001500886"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs141043123"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"CTG:0.2508"	"CTG:0.0303"	"CTG:0.1628"	NA	"CTG:0.4405"	"CTG:0.2614"	"CTG:0.4049"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"64bd6956-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2282"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	145187949	145187950	"+"	"IGR"	"INS"	"-"	"AAGA"	"AAGA"	"rs10655543"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	1	"."	0	""	"AAGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10655543"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3063"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"64ee129a-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2283"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	145688877	145688877	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs35247427"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	6	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35247427"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2778"	"-:0.2655"	"-:0.219"	NA	"-:0.1974"	"-:0.3181"	"-:0.3773"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGG"	"4a7ca11a-2764-11e6-a497-bf4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2284"	"GRM1"	2911	"mskcc.org"	"GRCh37"	"6"	146747328	146747329	"+"	"Intron"	"INS"	"-"	"-"	"AAG"	"rs111940220"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2661-7679_2661-7678insAGA"	""	""	"ENST00000361719"	""	13	"."	3	5	"."	0	"GRM1,intron_variant,,ENST00000392299,;GRM1,intron_variant,,ENST00000361719,;GRM1,intron_variant,,ENST00000492807,NM_001278066.1,NM_001278065.1;GRM1,intron_variant,,ENST00000282753,NM_001278067.1,NM_001278064.1;GRM1,intron_variant,,ENST00000355289,;GRM1,intron_variant,,ENST00000507907,;"	"AAG"	"ENSG00000152822"	"ENST00000361719"	"Transcript"	"intron_variant"	"-/6854"	"-/3585"	"-/1194"	""	""	"rs111940220"	"1"	NA	1	"GRM1"	"HGNC"	4593	"protein_coding"	"YES"	"CCDS5209.1"	"ENSP00000354896"	"Q13255"	""	"UPI000013DCFD"	""	NA	NA	""	"8/8"	""	"-:0.4351"	"AAG:0.556"	"AAG:0.4784"	NA	"AAG:0.5456"	"AAG:0.5775"	"AAG:0.6452"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"650a5964-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"2285"	"TAB2"	23118	"mskcc.org"	"GRCh37"	"6"	149570171	149570172	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs150875884"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6+30263_6+30264dupAT"	""	""	"ENST00000536230"	""	7	"."	3	1	"."	0	"TAB2,intron_variant,,ENST00000536230,;TAB2,intron_variant,,ENST00000606202,;RP1-111D6.3,downstream_gene_variant,,ENST00000445901,;"	"TA"	"ENSG00000055208"	"ENST00000536230"	"Transcript"	"intron_variant"	"-/2336"	"-/1986"	"-/661"	""	""	"rs150875884"	"1"	NA	1	"TAB2"	"HGNC"	17075	"protein_coding"	""	""	"ENSP00000443206"	""	"U3KQR0,B4DIR9"	"UPI00017A71F8"	""	NA	NA	""	"1/5"	""	"TA:0.2081"	"TA:0.208"	"TA:0.1311"	NA	"TA:0.3403"	"TA:0.166"	"TA:0.1697"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"6540d84a-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2286"	"PLEKHG1"	57480	"mskcc.org"	"GRCh37"	"6"	151116877	151116878	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs67415110"	NA	"JHCCPT1"	"JHCCPN1"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.583-100_583-99delTA"	""	""	"ENST00000367328"	""	23	"."	3	8	"."	0	"PLEKHG1,intron_variant,,ENST00000367328,NM_001029884.1;PLEKHG1,intron_variant,,ENST00000358517,;PLEKHG1,intron_variant,,ENST00000475490,;"	"-"	"ENSG00000120278"	"ENST00000367328"	"Transcript"	"intron_variant"	"-/7237"	"-/4158"	"-/1385"	""	""	"rs67415110"	"1"	NA	1	"PLEKHG1"	"HGNC"	20884	"protein_coding"	"YES"	"CCDS34552.1"	"ENSP00000356297"	"Q9ULL1"	"Q5T1F3,Q5JYA6,Q5EBL9"	"UPI000015FC80"	"NM_001029884.1"	NA	NA	""	"5/16"	""	"-:0.3025"	"-:0.1997"	"-:0.317"	NA	"-:0.3681"	"-:0.329"	"-:0.3364"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATA"	"4b5e595c-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"2287"	"IPCEF1"	26034	"mskcc.org"	"GRCh37"	"6"	154597406	154597420	"+"	"Intron"	"DEL"	"AAAAAAGAAAAGAAA"	"AAAAAAGAAAAGAAA"	"-"	"rs201543956"	NA	"JHCCPT1"	"JHCCPN1"	"AAAAAAGAAAAGAAA"	"AAAAAAGAAAAGAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17-10322_-17-10308delTTTCTTTTCTTTTTT"	""	""	"ENST00000422970"	""	13	"."	4	5	"."	0	"IPCEF1,intron_variant,,ENST00000265198,NM_015553.2,NM_001130700.1;IPCEF1,intron_variant,,ENST00000422970,NM_001130699.1;IPCEF1,intron_variant,,ENST00000367220,;IPCEF1,intron_variant,,ENST00000520261,;"	"-"	"ENSG00000074706"	"ENST00000422970"	"Transcript"	"intron_variant"	"-/3267"	"-/1317"	"-/438"	""	""	"rs201543956"	"1"	NA	-1	"IPCEF1"	"HGNC"	21204	"protein_coding"	"YES"	"CCDS47509.1"	"ENSP00000394751"	"Q8WWN9"	"G3V132,E5RJQ7,E5RGN6,E5RGB6"	"UPI000022CD0D"	"NM_001130699.1"	NA	NA	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAAAAAGAAAAGAAAA"	"4c5a8d12-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"2288"	"IPCEF1"	26034	"mskcc.org"	"GRCh37"	"6"	154597468	154597469	"+"	"Intron"	"INS"	"-"	"-"	"AAAAG"	"rs138041510"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17-10375_-17-10371dupCTTTT"	""	""	"ENST00000422970"	""	11	"."	4	5	"."	0	"IPCEF1,intron_variant,,ENST00000265198,NM_015553.2,NM_001130700.1;IPCEF1,intron_variant,,ENST00000422970,NM_001130699.1;IPCEF1,intron_variant,,ENST00000367220,;IPCEF1,intron_variant,,ENST00000520261,;"	"AAAAG"	"ENSG00000074706"	"ENST00000422970"	"Transcript"	"intron_variant"	"-/3267"	"-/1317"	"-/438"	""	""	"rs138041510"	"1"	NA	-1	"IPCEF1"	"HGNC"	21204	"protein_coding"	"YES"	"CCDS47509.1"	"ENSP00000394751"	"Q8WWN9"	"G3V132,E5RJQ7,E5RGN6,E5RGB6"	"UPI000022CD0D"	"NM_001130699.1"	NA	NA	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"6612c300-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2289"	"TIAM2"	26230	"mskcc.org"	"GRCh37"	"6"	155578324	155578326	"+"	"3'UTR"	"DEL"	"CAA"	"CAA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CAA"	"CAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*69_*71delCAA"	""	""	"ENST00000461783"	"29/29"	161	"."	3	68	"."	0	"TIAM2,3_prime_UTR_variant,,ENST00000461783,;TIAM2,3_prime_UTR_variant,,ENST00000456144,;TIAM2,3_prime_UTR_variant,,ENST00000367174,;TIAM2,3_prime_UTR_variant,,ENST00000318981,NM_012454.3;TIAM2,3_prime_UTR_variant,,ENST00000360366,;TIAM2,3_prime_UTR_variant,,ENST00000529824,;TIAM2,3_prime_UTR_variant,,ENST00000528391,;TIAM2,3_prime_UTR_variant,,ENST00000456877,;TIAM2,3_prime_UTR_variant,,ENST00000275246,NM_001010927.2;TFB1M,downstream_gene_variant,,ENST00000367166,NM_016020.3;RP11-477D19.2,upstream_gene_variant,,ENST00000435295,;TFB1M,downstream_gene_variant,,ENST00000468889,;TFB1M,downstream_gene_variant,,ENST00000489874,;TFB1M,downstream_gene_variant,,ENST00000495806,;TFB1M,downstream_gene_variant,,ENST00000470239,;TIAM2,downstream_gene_variant,,ENST00000537845,;"	"-"	"ENSG00000146426"	"ENST00000461783"	"Transcript"	"3_prime_UTR_variant"	"6448-6450/6981"	"-/5106"	"-/1701"	""	""	""	"1"	NA	1	"TIAM2"	"HGNC"	11806	"protein_coding"	"YES"	"CCDS34558.1"	"ENSP00000437188"	"Q8IVF5"	"F5H8H5,F5H6W6,F5H6R0,F5H1M3,E9PMZ8"	"UPI00004DF8BE"	""	NA	NA	"29/29"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCAAA"	"4c8cb59e-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0186335403726708	"WXS"	FALSE
"2290"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	156215394	156215407	"+"	"IGR"	"DEL"	"ACCTCCCACTGGGC"	"-"	"-"	"rs140620903"	NA	"JHCCPT1"	"JHCCPN1"	"ACCTCCCACTGGGC"	"ACCTCCCACTGGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140620903"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4728"	"-:0.3464"	"-:0.5562"	NA	"-:0.6528"	"-:0.4324"	"-:0.4407"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTACCTCCCACTGGGCC"	"4c985c6e-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2291"	"SYNJ2"	8871	"mskcc.org"	"GRCh37"	"6"	158480589	158480599	"+"	"Intron"	"DEL"	"TTTTTTTTTTT"	"TTTTTTTTTTT"	"-"	"rs71805887"	NA	"JHCCPT1"	"JHCCPN1"	"TTTTTTTTTTT"	"TTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.954+208_954+218delTTTTTTTTTTT"	""	""	"ENST00000355585"	""	8	"."	3	1	"."	0	"SYNJ2,intron_variant,,ENST00000355585,NM_001178088.1,NM_003898.3;SYNJ2,intron_variant,,ENST00000367122,;SYNJ2,intron_variant,,ENST00000367121,;SYNJ2,intron_variant,,ENST00000449859,;SYNJ2,intron_variant,,ENST00000485863,;"	"-"	"ENSG00000078269"	"ENST00000355585"	"Transcript"	"intron_variant"	"-/7378"	"-/4491"	"-/1496"	""	""	"rs71805887"	"1"	NA	1	"SYNJ2"	"HGNC"	11504	"protein_coding"	"YES"	"CCDS5254.1"	"ENSP00000347792"	"O15056"	"B4DLC4"	"UPI000006E2F8"	"NM_001178088.1,NM_003898.3"	NA	NA	""	"7/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTTTTTTTTTT"	"4cd917d6-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2292"	"RP1-276N6.2"	0	"mskcc.org"	"GRCh37"	"6"	160699877	160699905	"+"	"3'Flank"	"DEL"	"TCCTCCTCACTCAGGAATAAGCCCTGCAC"	"TCCTCCTCACTCAGGAATAAGCCCTGCAC"	"A"	"rs781696387"	NA	"JHCCPT1"	"JHCCPN1"	"TCCTCCTCACTCAGGAATAAGCCCTGCAC"	"TCCTCCTCACTCAGGAATAAGCCCTGCAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000419196"	""	11	"."	5	3	"."	0	"SLC22A2,upstream_gene_variant,,ENST00000366952,;RP1-276N6.2,downstream_gene_variant,,ENST00000419196,;"	"A"	"ENSG00000230234"	"ENST00000419196"	"Transcript"	"downstream_gene_variant"	"-/467"	""	""	""	""	"rs781696387"	"1"	"2715"	1	"RP1-276N6.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCCTCCTCACTCAGGAATAAGCCCTGCACG"	"530d5e3c-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"2293"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	161111166	161111167	"+"	"IGR"	"INS"	"-"	"-"	"GT"	"rs148094949"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	7	3	"."	0	""	"GT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148094949"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GTGTGT:0.0008"	"GTGTGT:0"	"GTGTGT:0"	NA	"GTGTGT:0.004"	"GTGTGT:0"	"GTGTGT:0"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"66b63940-2764-11e6-a497-bf4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2294"	"PLG"	5340	"mskcc.org"	"GRCh37"	"6"	161159001	161159002	"+"	"Intron"	"INS"	"-"	"A"	"A"	"rs536483674"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1803-566dupA"	""	""	"ENST00000308192"	""	7	"."	5	1	"."	0	"PLG,intron_variant,,ENST00000308192,NM_000301.3;PLG,upstream_gene_variant,,ENST00000461414,;PLG,upstream_gene_variant,,ENST00000467466,;"	"A"	"ENSG00000122194"	"ENST00000308192"	"Transcript"	"intron_variant"	"-/2741"	"-/2433"	"-/810"	""	""	"rs536483674"	"1"	NA	1	"PLG"	"HGNC"	9071	"protein_coding"	"YES"	"CCDS5279.1"	"ENSP00000308938"	"P00747"	"Q9UMI2,Q68DS2,Q5TEH5,B4DPH4"	"UPI000000D8B8"	"NM_000301.3"	NA	NA	""	"14/18"	""	"A:0.1402"	"A:0.1536"	"A:0.1772"	NA	"A:0"	"A:0.2972"	"A:0.0787"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"66b8c692-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2295"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	161200873	161200874	"+"	"IGR"	"DEL"	"CA"	"CA"	"-"	"rs199981326"	NA	"JHCCPT1"	"JHCCPN1"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs199981326"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCAC"	"4e0ad9d2-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2296"	"PDE10A"	10846	"mskcc.org"	"GRCh37"	"6"	165845110	165845111	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs138383646"	NA	"JHCCPT1"	"JHCCPN1"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.694-151_694-150delAT"	""	""	"ENST00000539869"	""	12	"."	7	3	"."	0	"PDE10A,intron_variant,,ENST00000366882,;PDE10A,intron_variant,,ENST00000354448,;PDE10A,intron_variant,,ENST00000539869,NM_001130690.2;"	"-"	"ENSG00000112541"	"ENST00000539869"	"Transcript"	"intron_variant"	"-/4401"	"-/2370"	"-/789"	""	""	"rs138383646"	"1"	NA	-1	"PDE10A"	"HGNC"	8772	"protein_coding"	"YES"	"CCDS47513.1"	"ENSP00000438284"	"Q9Y233"	""	"UPI000006F80E"	"NM_001130690.2"	NA	NA	""	"7/21"	""	"-:0.3125"	"-:0.2307"	"-:0.3141"	NA	"-:0.247"	"-:0.3529"	"-:0.4479"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATA"	"4ea36fda-2764-11e6-a497-bf4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"2297"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	168215133	168215134	"+"	"IGR"	"INS"	"-"	"-"	"AAAGAAA"	"rs71004169"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"AAAGAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71004169"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3664"	"AAAGAAA:0.2965"	"AAAGAAA:0.6945"	NA	"AAAGAAA:0.8165"	"AAAGAAA:0.6909"	"AAAGAAA:0.7986"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"675f5f16-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2298"	"FRMD1"	79981	"mskcc.org"	"GRCh37"	"6"	168451690	168451690	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"rs10718004"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000283309"	""	7	"."	3	1	"."	0	"FRMD1,downstream_gene_variant,,ENST00000283309,NM_024919.3;FRMD1,downstream_gene_variant,,ENST00000440994,NM_001122841.1;FRMD1,downstream_gene_variant,,ENST00000432403,;FRMD1,downstream_gene_variant,,ENST00000358587,;FRMD1,downstream_gene_variant,,ENST00000468647,;"	"-"	"ENSG00000153303"	"ENST00000283309"	"Transcript"	"downstream_gene_variant"	"-/3067"	"-/1650"	"-/549"	""	""	"rs10718004"	"1"	"4735"	-1	"FRMD1"	"HGNC"	21240	"protein_coding"	"YES"	"CCDS5306.1"	"ENSP00000283309"	"Q8N878"	"F5GXR0"	"UPI000013F36A"	"NM_024919.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"4f59a142-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2299"	"RP11-503C24.6"	0	"mskcc.org"	"GRCh37"	"6"	168695256	168695261	"+"	"3'Flank"	"DEL"	"TGTATA"	"TGTATA"	"-"	"rs71777643"	NA	"JHCCPT1"	"JHCCPN1"	"TGTATA"	"TGTATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000445442"	""	40	"."	3	8	"."	0	"DACT2,intron_variant,,ENST00000366796,NM_001286351.1;RP11-503C24.6,downstream_gene_variant,,ENST00000445442,;"	"-"	"ENSG00000224417"	"ENST00000445442"	"Transcript"	"downstream_gene_variant"	"-/2559"	""	""	""	""	"rs71777643"	"1"	"3488"	-1	"RP11-503C24.6"	"Clone_based_vega_gene"	NA	"sense_intronic"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTGTATAT"	"4f709f50-2764-11e6-a497-bf4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WXS"	FALSE
"2300"	"SMOC2"	64094	"mskcc.org"	"GRCh37"	"6"	168919274	168919275	"+"	"Intron"	"DEL"	"TG"	"-"	"-"	"rs72507344"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.257-7747_257-7746delGT"	""	""	"ENST00000354536"	""	7	"."	5	1	"."	0	"SMOC2,intron_variant,,ENST00000354536,NM_022138.2;SMOC2,intron_variant,,ENST00000356284,NM_001166412.1;"	"-"	"ENSG00000112562"	"ENST00000354536"	"Transcript"	"intron_variant"	"-/3150"	"-/1374"	"-/457"	""	""	"rs72507344"	"1"	NA	1	"SMOC2"	"HGNC"	20323	"protein_coding"	"YES"	"CCDS5307.1"	"ENSP00000346537"	"Q9H3U7"	"B4DNB1"	"UPI0000072A56"	"NM_022138.2"	NA	NA	""	"2/12"	""	"-:0.2173"	"-:0.2587"	"-:0.2839"	NA	"-:0.2212"	"-:0.1431"	"-:0.1861"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AATGT"	"4f7b78da-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2301"	"WDR27"	253769	"mskcc.org"	"GRCh37"	"6"	169964953	169964954	"+"	"Intron"	"INS"	"-"	"-"	"GTGA"	"rs3029660"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2645+7558_2645+7561dupTCAC"	""	""	"ENST00000448612"	""	11	"."	7	3	"."	0	"WDR27,intron_variant,,ENST00000333572,;WDR27,intron_variant,,ENST00000448612,NM_182552.4;WDR27,intron_variant,,ENST00000423258,NM_001202550.1;WDR27,intron_variant,,ENST00000546525,;WDR27,intron_variant,,ENST00000479310,;"	"GTGA"	"ENSG00000184465"	"ENST00000448612"	"Transcript"	"intron_variant"	"-/3178"	"-/2688"	"-/895"	""	""	"rs3029660"	"1"	NA	-1	"WDR27"	"HGNC"	21248	"protein_coding"	"YES"	"CCDS47520.2"	"ENSP00000416289"	"A2RRH5"	"F8VUY7"	"UPI00015E06AF"	"NM_182552.4"	NA	NA	""	"25/25"	""	"-:0.0940"	"GTGA:0.7738"	"GTGA:0.9452"	NA	"GTGA:0.9821"	"GTGA:0.9404"	"GTGA:0.9427"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"67a85b9e-2764-11e6-a497-bf4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.636363636363636	"WXS"	FALSE
"2302"	"ENSR00001502875"	0	"mskcc.org"	"GRCh37"	"6"	170468234	170468235	"+"	"IGR"	"INS"	"-"	"-"	"AC"	"rs376782880"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001502875"	""	8	"."	5	2	"."	0	""	"AC"	""	"ENSR00001502875"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs376782880"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2023"	"A:0.7027"	"A:0.8271"	NA	"A:0.7579"	"A:0.8857"	"A:0.8558"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"67ae010c-2764-11e6-a497-bf4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"2303"	"TBP"	6908	"mskcc.org"	"GRCh37"	"6"	170875641	170875642	"+"	"Intron"	"INS"	"-"	"-"	"ATT"	"rs10691201"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.586-364_586-363insTTA"	""	""	"ENST00000392092"	""	14	"."	4	3	"."	0	"TBP,intron_variant,,ENST00000392092,NM_003194.4;TBP,intron_variant,,ENST00000230354,;TBP,intron_variant,,ENST00000540980,NM_001172085.1;TBP,intron_variant,,ENST00000421512,;TBP,upstream_gene_variant,,ENST00000446829,;TBP,downstream_gene_variant,,ENST00000423353,;"	"ATT"	"ENSG00000112592"	"ENST00000392092"	"Transcript"	"intron_variant"	"-/1903"	"-/1020"	"-/339"	""	""	"rs10691201"	"1"	NA	1	"TBP"	"HGNC"	11588	"protein_coding"	"YES"	"CCDS5315.1"	"ENSP00000375942"	"P20226"	"Q7Z6S5,Q7Z6S4,Q32MN7,D2CT66,D2CT65,D2CT64,D2CT63,C0LUL1,B4DPC1"	"UPI0000136C3F"	"NM_003194.4"	NA	NA	""	"4/7"	""	"-:0.3642"	"ATT:0.7927"	"ATT:0.5"	NA	"ATT:0.7877"	"ATT:0.5109"	"ATT:0.4918"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"67b2cebc-2764-11e6-a497-bf4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"2304"	"RP11-90P13.1"	0	"mskcc.org"	"GRCh37"	"7"	168514	168515	"+"	"5'Flank"	"INS"	"-"	"-"	"TCCGTCTCCTGGAGGGTCCATGTCCCTGGAGGG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000567533"	""	6	"."	3	1	"."	0	"RP11-90P13.1,upstream_gene_variant,,ENST00000567533,;"	"TCCGTCTCCTGGAGGGTCCATGTCCCTGGAGGG"	"ENSG00000261795"	"ENST00000567533"	"Transcript"	"upstream_gene_variant"	"-/3208"	""	""	""	""	""	"1"	"3542"	-1	"RP11-90P13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"4e661e82-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2305"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	1343454	1343457	"+"	"IGR"	"DEL"	"GAGG"	"GAGG"	"-"	"rs138949651"	NA	"JHCCPT1"	"JHCCPN1"	"GAGG"	"GAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	7	7	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138949651"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GAGG:0.4301"	"-:0.3192"	"-:0.7104"	NA	"-:0.6558"	"-:0.6978"	"-:0.589"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGAGGG"	"2ef8149c-2764-11e6-bdfe-c14a424a729f"	"400"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"2306"	"ELFN1"	392617	"mskcc.org"	"GRCh37"	"7"	1783879	1783904	"+"	"Intron"	"DEL"	"GTCCCCTGACCGCTGTCTTCTCTCTT"	"-"	"-"	"rs72191756"	NA	"JHCCPT1"	"JHCCPN1"	"GTCCCCTGACCGCTGTCTTCTCTCTT"	"GTCCCCTGACCGCTGTCTTCTCTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-293-32_-293-7delCCCTGACCGCTGTCTTCTCTCTTGTC"	""	""	"ENST00000424383"	""	6	"."	5	1	"."	0	"ELFN1,intron_variant,,ENST00000424383,;ELFN1,intron_variant,,ENST00000561626,NM_001128636.2;ELFN1,upstream_gene_variant,,ENST00000541472,;AC074389.9,upstream_gene_variant,,ENST00000453348,;AC074389.9,upstream_gene_variant,,ENST00000415399,;"	"-"	"ENSG00000225968"	"ENST00000424383"	"Transcript"	"intron_variant"	"-/3845"	"-/2487"	"-/828"	""	""	"rs72191756"	"1"	NA	1	"ELFN1"	"HGNC"	33154	"protein_coding"	"YES"	"CCDS59046.1"	"ENSP00000456548"	"P0C7U0"	""	"UPI0000251E11"	""	NA	NA	""	"2/2"	""	"-:0.3213"	"-:0.2534"	"-:0.3401"	NA	"-:0.4067"	"-:0.3171"	"-:0.316"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"29"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGTCCCCTGACCGCTGTCTTCTCTCTTG"	"2f2651ea-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2307"	"MAD1L1"	8379	"mskcc.org"	"GRCh37"	"7"	2048406	2048407	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs5881916"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1359+5730dupC"	""	""	"ENST00000406869"	""	10	"."	5	2	"."	0	"MAD1L1,intron_variant,,ENST00000406869,;MAD1L1,intron_variant,,ENST00000399654,NM_001013837.1,NM_003550.2,NM_001013836.1;MAD1L1,intron_variant,,ENST00000265854,;MAD1L1,intron_variant,,ENST00000402746,;MAD1L1,intron_variant,,ENST00000438959,;MAD1L1,intron_variant,,ENST00000444373,;"	"G"	"ENSG00000002822"	"ENST00000406869"	"Transcript"	"intron_variant"	"-/2991"	"-/2157"	"-/718"	""	""	"rs5881916"	"1"	NA	-1	"MAD1L1"	"HGNC"	6762	"protein_coding"	"YES"	"CCDS43539.1"	"ENSP00000385334"	"Q9Y6D9"	"C9K086,C9JX80,C9JTA2,C9JKI7,C9JJ38,C9J9H5"	"UPI0000072C4D"	""	NA	NA	""	"13/18"	""	"G:0.4010"	"G:0.2428"	"G:0.5"	NA	"G:0.5923"	"G:0.3956"	"G:0.3528"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"4f55fefc-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2308"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	4524172	4524173	"+"	"IGR"	"INS"	"-"	"-"	"AGAG"	"rs147143717"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	5	"."	0	""	"AGAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147143717"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"4fee74c0-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2309"	"AC004538.3"	0	"mskcc.org"	"GRCh37"	"7"	11344235	11344235	"+"	"Intron"	"DEL"	"C"	"-"	"-"	"rs11331871"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.113+51385delC"	""	""	"ENST00000421121"	""	6	"."	6	2	"."	0	"AC004538.3,intron_variant,,ENST00000421121,;AC004538.3,intron_variant,,ENST00000428533,;AC004538.3,intron_variant,,ENST00000599875,;AC004538.3,intron_variant,,ENST00000441110,;AC004538.3,intron_variant,,ENST00000428967,;AC004538.3,intron_variant,,ENST00000445839,;"	"-"	"ENSG00000230333"	"ENST00000421121"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2078"	""	""	""	""	"rs11331871"	"1"	NA	1	"AC004538.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"-:0.3886"	"-:0.4539"	"-:0.3602"	NA	"-:0.4405"	"-:0.3708"	"-:0.2853"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCC"	"31573f6a-2764-11e6-bdfe-c14a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"2310"	"THSD7A"	221981	"mskcc.org"	"GRCh37"	"7"	11528577	11528578	"+"	"Intron"	"INS"	"-"	"-"	"TG"	"rs57523568"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1823-6970_1823-6969dupCA"	""	""	"ENST00000423059"	""	18	"."	5	6	"."	0	"THSD7A,intron_variant,,ENST00000423059,NM_015204.2;AC004538.3,intron_variant,,ENST00000445839,;THSD7A,intron_variant,,ENST00000497575,;"	"TG"	"ENSG00000005108"	"ENST00000423059"	"Transcript"	"intron_variant"	"-/10663"	"-/4974"	"-/1657"	""	""	"rs57523568"	"1"	NA	-1	"THSD7A"	"HGNC"	22207	"protein_coding"	"YES"	"CCDS47543.1"	"ENSP00000406482"	"Q9UPZ6"	""	"UPI00006C0B74"	"NM_015204.2"	NA	NA	""	"6/27"	""	"TG:0.2043"	"TG:0.27"	"TG:0.134"	NA	"TG:0.1567"	"TG:0.1461"	"TG:0.274"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"509da878-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"2311"	"THSD7A"	221981	"mskcc.org"	"GRCh37"	"7"	11776928	11776929	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs140765081"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.190+94454dupC"	""	""	"ENST00000423059"	""	6	"."	5	2	"."	0	"THSD7A,intron_variant,,ENST00000423059,NM_015204.2;THSD7A,intron_variant,,ENST00000480061,;"	"G"	"ENSG00000005108"	"ENST00000423059"	"Transcript"	"intron_variant"	"-/10663"	"-/4974"	"-/1657"	""	""	"rs140765081"	"1"	NA	-1	"THSD7A"	"HGNC"	22207	"protein_coding"	"YES"	"CCDS47543.1"	"ENSP00000406482"	"Q9UPZ6"	""	"UPI00006C0B74"	"NM_015204.2"	NA	NA	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"50a05d2a-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2312"	"DGKB"	1607	"mskcc.org"	"GRCh37"	"7"	14741535	14741535	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35307487"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.467-180delA"	""	""	"ENST00000403951"	""	24	"."	8	12	"."	0	"DGKB,intron_variant,,ENST00000403951,;DGKB,intron_variant,,ENST00000258767,;DGKB,intron_variant,,ENST00000399322,NM_004080.2;DGKB,intron_variant,,ENST00000402815,;DGKB,intron_variant,,ENST00000407950,;DGKB,intron_variant,,ENST00000444700,;DGKB,intron_variant,,ENST00000406247,NM_145695.2;DGKB,intron_variant,,ENST00000403963,;DGKB,intron_variant,,ENST00000471732,;DGKB,intron_variant,,ENST00000477401,;DGKB,intron_variant,,ENST00000464065,;"	"-"	"ENSG00000136267"	"ENST00000403951"	"Transcript"	"intron_variant"	"-/6917"	"-/2415"	"-/804"	""	""	"rs35307487"	"1"	NA	-1	"DGKB"	"HGNC"	2850	"protein_coding"	"YES"	"CCDS47547.1"	"ENSP00000385780"	"Q9Y6T7"	"C9JA18,B7Z3B3"	"UPI0000033B9B"	""	NA	NA	""	"6/25"	""	"-:0.4902"	"-:0.0946"	"-:0.5793"	NA	"-:0.8839"	"-:0.4374"	"-:0.6104"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATA"	"31bc99dc-2764-11e6-bdfe-c14a424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2313"	"HDAC9"	9734	"mskcc.org"	"GRCh37"	"7"	18312537	18312554	"+"	"Intron"	"DEL"	"CTACTACTACTACTACTA"	"CTACTACTACTACTACTA"	"-"	"rs149171355"	NA	"JHCCPT1"	"JHCCPN1"	"CTACTACTACTACTACTA"	"CTACTACTACTACTACTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.25+110601_25+110618delCTACTACTACTACTACTA"	""	""	"ENST00000417496"	""	10	"."	4	1	"."	0	"HDAC9,intron_variant,,ENST00000417496,NM_001204144.1;HDAC9,intron_variant,,ENST00000425071,;"	"-"	"ENSG00000048052"	"ENST00000417496"	"Transcript"	"intron_variant"	"-/2524"	"-/1767"	"-/588"	""	""	"rs149171355"	"1"	NA	1	"HDAC9"	"HGNC"	14065	"protein_coding"	""	"CCDS56465.1"	"ENSP00000401669"	"Q9UKV0"	"Q75N08,C9JLX1,C9JD56"	"UPI00019154CE"	"NM_001204144.1"	NA	NA	""	"2/12"	""	"CTACTACTACTACTACTA:0.2857"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"36"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGCTACTACTACTACTACTAC"	"32519f32-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2314"	"LINC01162"	0	"mskcc.org"	"GRCh37"	"7"	21044355	21044356	"+"	"Intron"	"INS"	"-"	"-"	"AGAA"	"rs148932421"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.152-16122_152-16119dupGAAA"	""	""	"ENST00000447262"	""	9	"."	3	4	"."	0	"LINC01162,intron_variant,,ENST00000447262,;"	"AGAA"	"ENSG00000232790"	"ENST00000447262"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/447"	""	""	""	""	"rs148932421"	"1"	NA	1	"LINC01162"	"HGNC"	49528	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"13"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"51840d72-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2315"	"CDCA7L"	55536	"mskcc.org"	"GRCh37"	"7"	21944850	21944850	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11331068"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1047+274delA"	""	""	"ENST00000406877"	""	9	"."	5	3	"."	0	"CDCA7L,intron_variant,,ENST00000406877,NM_018719.4;CDCA7L,intron_variant,,ENST00000356195,NM_001127370.2;CDCA7L,intron_variant,,ENST00000373934,NM_001127371.2;DNAH11,downstream_gene_variant,,ENST00000328843,;DNAH11,downstream_gene_variant,,ENST00000409508,NM_001277115.1;CDCA7L,upstream_gene_variant,,ENST00000435717,;CDCA7L,downstream_gene_variant,,ENST00000447180,;CDCA7L,downstream_gene_variant,,ENST00000457951,;CDCA7L,downstream_gene_variant,,ENST00000435031,;CDCA7L,intron_variant,,ENST00000465490,;CDCA7L,intron_variant,,ENST00000488845,;CDCA7L,intron_variant,,ENST00000489669,;DNAH11,downstream_gene_variant,,ENST00000479878,;"	"-"	"ENSG00000164649"	"ENST00000406877"	"Transcript"	"intron_variant"	"-/3066"	"-/1365"	"-/454"	""	""	"rs11331068"	"1"	NA	-1	"CDCA7L"	"HGNC"	30777	"protein_coding"	"YES"	"CCDS5374.1"	"ENSP00000383986"	"Q96GN5"	"C9JFL7"	"UPI000000D840"	"NM_018719.4"	NA	NA	""	"7/9"	""	"T:0.4904"	"-:0.32"	"-:0.5648"	NA	"-:0.369"	"-:0.7823"	"-:0.591"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATT"	"3305b896-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"2316"	"RAPGEF5"	9771	"mskcc.org"	"GRCh37"	"7"	22201834	22201834	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11325059"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.969+181delA"	""	""	"ENST00000344041"	""	18	"."	8	6	"."	0	"RAPGEF5,intron_variant,,ENST00000344041,NM_012294.3;RAPGEF5,intron_variant,,ENST00000401957,;RAPGEF5,intron_variant,,ENST00000458533,;RAPGEF5,downstream_gene_variant,,ENST00000420196,;RAPGEF5,intron_variant,,ENST00000451559,;"	"-"	"ENSG00000136237"	"ENST00000344041"	"Transcript"	"intron_variant"	"-/6621"	"-/2193"	"-/730"	""	""	"rs11325059"	"1"	NA	-1	"RAPGEF5"	"HGNC"	16862	"protein_coding"	"YES"	"CCDS55093.1"	"ENSP00000343656"	""	"C9JBS6,A8MQ07"	"UPI0000EA87E4"	"NM_012294.3"	NA	NA	""	"13/25"	""	"T:0.0262"	"-:0.9546"	"-:0.9899"	NA	"-:0.9921"	"-:0.9662"	"-:0.9775"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTT"	"3319919a-2764-11e6-bdfe-c14a424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2317"	"ENSR00000623132"	0	"mskcc.org"	"GRCh37"	"7"	23090304	23090305	"+"	"IGR"	"INS"	"-"	"-"	"TTC"	"rs113188594"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000623132"	""	19	"."	5	6	"."	0	""	"TTC"	""	"ENSR00000623132"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs113188594"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"51c43e60-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"2318"	"MPP6"	51678	"mskcc.org"	"GRCh37"	"7"	24612917	24612922	"+"	"5'Flank"	"DEL"	"GGAGGA"	"GGAGGA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GGAGGA"	"GGAGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000222644"	""	29	"."	7	8	"."	0	"MPP6,5_prime_UTR_variant,,ENST00000432190,;MPP6,upstream_gene_variant,,ENST00000222644,;MPP6,upstream_gene_variant,,ENST00000396475,NM_016447.2;MPP6,upstream_gene_variant,,ENST00000409761,;MPP6,upstream_gene_variant,,ENST00000430180,;"	"-"	"ENSG00000105926"	"ENST00000222644"	"Transcript"	"upstream_gene_variant"	"-/8452"	"-/1623"	"-/540"	""	""	""	"1"	"43"	1	"MPP6"	"HGNC"	18167	"protein_coding"	"YES"	"CCDS5388.1"	"ENSP00000222644"	"Q9NZW5"	"C9JGI8,C9J4Q3,B8ZZG1"	"UPI0000001C1B"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGGAGGAG"	"33a8d5d0-2764-11e6-bdfe-c14a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241379310344828	"WXS"	FALSE
"2319"	"DFNA5"	1687	"mskcc.org"	"GRCh37"	"7"	24747495	24747496	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs149009306"	NA	"JHCCPT1"	"JHCCPN1"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.990+250_990+251delTA"	""	""	"ENST00000342947"	""	14	"."	5	6	"."	0	"DFNA5,intron_variant,,ENST00000545231,;DFNA5,intron_variant,,ENST00000342947,NM_004403.2;DFNA5,intron_variant,,ENST00000419307,NM_001127454.1;DFNA5,intron_variant,,ENST00000409970,NM_001127453.1;DFNA5,intron_variant,,ENST00000409775,;DFNA5,intron_variant,,ENST00000446822,;DFNA5,intron_variant,,ENST00000415480,;DFNA5,upstream_gene_variant,,ENST00000430096,;DFNA5,downstream_gene_variant,,ENST00000559637,;DFNA5,upstream_gene_variant,,ENST00000479636,;DFNA5,downstream_gene_variant,,ENST00000411476,;DFNA5,downstream_gene_variant,,ENST00000469133,;"	"-"	"ENSG00000105928"	"ENST00000342947"	"Transcript"	"intron_variant"	"-/2590"	"-/1491"	"-/496"	""	""	"rs149009306"	"1"	NA	-1	"DFNA5"	"HGNC"	2810	"protein_coding"	"YES"	"CCDS5389.1"	"ENSP00000339587"	"O60443"	""	"UPI00001291FC"	"NM_004403.2"	NA	NA	""	"7/9"	""	"-:0.0647"	"-:0.0068"	"-:0.1167"	NA	"-:0.0556"	"-:0.1014"	"-:0.0777"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACTAT"	"33ad16b8-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"2320"	"HOXA13"	3209	"mskcc.org"	"GRCh37"	"7"	27240015	27240016	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs11411359"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000222753"	""	14	"."	7	3	"."	0	"HOXA13,upstream_gene_variant,,ENST00000222753,NM_000522.4;HOTTIP,intron_variant,,ENST00000421733,;HOTTIP,upstream_gene_variant,,ENST00000521028,;HOTTIP,upstream_gene_variant,,ENST00000472494,;HOTTIP,upstream_gene_variant,,ENST00000605136,;HOXA13,upstream_gene_variant,,ENST00000518136,;"	"G"	"ENSG00000106031"	"ENST00000222753"	"Transcript"	"upstream_gene_variant"	"-/4376"	"-/1167"	"-/388"	""	""	"rs11411359"	"1"	"290"	-1	"HOXA13"	"HGNC"	5102	"protein_coding"	"YES"	"CCDS5412.1"	"ENSP00000222753"	"P31271"	""	"UPI000013C812"	"NM_000522.4"	NA	NA	""	""	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"52297d8e-2764-11e6-bdfe-c14a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	TRUE
"2321"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	27484901	27484902	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs138769552"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	5	3	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138769552"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.2354"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"522c0d9c-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2322"	"JAZF1"	221895	"mskcc.org"	"GRCh37"	"7"	27944954	27944958	"+"	"Intron"	"DEL"	"TCTAA"	"TCTAA"	"-"	"rs68117111"	NA	"JHCCPT1"	"JHCCPN1"	"TCTAA"	"TCTAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.189-9923_189-9919delTTAGA"	""	""	"ENST00000283928"	""	6	"."	4	2	"."	0	"JAZF1,intron_variant,,ENST00000283928,NM_175061.3;JAZF1,intron_variant,,ENST00000427814,;JAZF1,intron_variant,,ENST00000447620,;JAZF1,intron_variant,,ENST00000430432,;JAZF1,intron_variant,,ENST00000420835,;JAZF1,intron_variant,,ENST00000452993,;JAZF1,intron_variant,,ENST00000454041,;"	"-"	"ENSG00000153814"	"ENST00000283928"	"Transcript"	"intron_variant"	"-/3125"	"-/732"	"-/243"	""	""	"rs68117111"	"1"	NA	-1	"JAZF1"	"HGNC"	28917	"protein_coding"	"YES"	"CCDS5416.1"	"ENSP00000283928"	"Q86VZ6"	""	"UPI00001B2E49"	"NM_175061.3"	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATTCTAAT"	"344a3920-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	TRUE
"2323"	"MTURN"	222166	"mskcc.org"	"GRCh37"	"7"	30175744	30175745	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11393796"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.162+831dupG"	""	""	"ENST00000324453"	""	9	"."	4	2	"."	0	"MTURN,intron_variant,,ENST00000324453,NM_152793.2;MTURN,intron_variant,,ENST00000415604,;MTURN,intron_variant,,ENST00000409688,;MTURN,upstream_gene_variant,,ENST00000434060,;AC007036.4,upstream_gene_variant,,ENST00000415934,;"	"G"	"ENSG00000180354"	"ENST00000324453"	"Transcript"	"intron_variant"	"-/5937"	"-/396"	"-/131"	""	""	"rs11393796"	"1"	NA	1	"MTURN"	"HGNC"	25457	"protein_coding"	"YES"	"CCDS5425.2"	"ENSP00000324204"	"Q8N3F0"	"B4DH90"	"UPI0000073903"	"NM_152793.2"	NA	NA	""	"1/2"	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"529a762e-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2324"	"AC007036.6"	0	"mskcc.org"	"GRCh37"	"7"	30216775	30216776	"+"	"Intron"	"INS"	"-"	"-"	"AACA"	"rs142441259"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.79-181_79-178dupTGTT"	""	""	"ENST00000430537"	""	8	"."	5	1	"."	0	"AC007036.6,intron_variant,,ENST00000430537,;"	"AACA"	"ENSG00000227017"	"ENST00000430537"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/674"	""	""	""	""	"rs142441259"	"1"	NA	-1	"AC007036.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"AACA:0.1170"	"AACA:0.2337"	"AACA:0.1383"	NA	"AACA:0"	"AACA:0.1252"	"AACA:0.0562"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"52a141ac-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"2325"	"INMT-FAM188B"	11185	"mskcc.org"	"GRCh37"	"7"	30805810	30805813	"+"	"Intron"	"DEL"	"CTCA"	"CTCA"	"-"	"rs146676127"	NA	"JHCCPT1"	"JHCCPN1"	"CTCA"	"CTCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.360-150_360-147delTCAC"	""	""	"ENST00000458257"	""	18	"."	4	11	"."	0	"INMT-FAM188B,intron_variant,,ENST00000458257,;INMT-FAM188B,intron_variant,,ENST00000451002,;"	"-"	"ENSG00000254959"	"ENST00000458257"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/2877"	"-/426"	"-/141"	""	""	"rs146676127"	"1"	NA	1	"INMT-FAM188B"	"HGNC"	41995	"nonsense_mediated_decay"	"YES"	""	"ENSP00000456039"	""	"F8WBC2"	"UPI0000E0A960"	""	NA	NA	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTCAC"	"34d0303e-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"2326"	"ADCYAP1R1"	117	"mskcc.org"	"GRCh37"	"7"	31105699	31105700	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs11408437"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.157+1149dupC"	""	""	"ENST00000396211"	""	6	"."	3	2	"."	0	"ADCYAP1R1,intron_variant,,ENST00000304166,NM_001199636.1,NM_001199635.1,NM_001118.4;ADCYAP1R1,intron_variant,,ENST00000409363,NM_001199637.1;ADCYAP1R1,intron_variant,,ENST00000409489,;ADCYAP1R1,intron_variant,,ENST00000396211,;ADCYAP1R1,intron_variant,,ENST00000431811,;"	"C"	"ENSG00000078549"	"ENST00000396211"	"Transcript"	"intron_variant"	"-/1587"	"-/1491"	"-/496"	""	""	"rs11408437"	"1"	NA	1	"ADCYAP1R1"	"HGNC"	242	"protein_coding"	"YES"	"CCDS56480.1"	"ENSP00000379514"	"P41586"	"Q6S991,Q6RKA2,C9JVH3"	"UPI0000DA58BA"	""	NA	NA	""	"2/15"	""	"-:0.0002"	"C:0.9992"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"52c76742-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2327"	"ADCYAP1R1"	117	"mskcc.org"	"GRCh37"	"7"	31152261	31152262	"+"	"3'Flank"	"INS"	"-"	"-"	"C"	"rs5883272"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000304166"	""	6	"."	4	1	"."	0	"ADCYAP1R1,downstream_gene_variant,,ENST00000304166,NM_001199636.1,NM_001199635.1,NM_001118.4;"	"C"	"ENSG00000078549"	"ENST00000304166"	"Transcript"	"downstream_gene_variant"	"-/6487"	"-/1407"	"-/468"	""	""	"rs5883272"	"1"	"1172"	1	"ADCYAP1R1"	"HGNC"	242	"protein_coding"	""	"CCDS5433.1"	"ENSP00000306620"	"P41586"	"C9JVH3"	"UPI0000061EE0"	"NM_001199636.1,NM_001199635.1,NM_001118.4"	NA	NA	""	""	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"52d2bf02-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2328"	"PDE1C"	5137	"mskcc.org"	"GRCh37"	"7"	31980290	31980291	"+"	"Intron"	"INS"	"-"	"-"	"TAGTCA"	"rs111927385"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.309-59818_309-59817insTGACTA"	""	""	"ENST00000396193"	""	10	"."	4	4	"."	0	"PDE1C,intron_variant,,ENST00000396184,NM_005020.2;PDE1C,intron_variant,,ENST00000396193,NM_001191058.1;PDE1C,intron_variant,,ENST00000396191,NM_001191057.1;PDE1C,intron_variant,,ENST00000321453,NM_001191059.1;PDE1C,intron_variant,,ENST00000396182,NM_001191056.1;PDE1C,intron_variant,,ENST00000396189,;PDE1C,intron_variant,,ENST00000464881,;SNX2P2,upstream_gene_variant,,ENST00000424553,;"	"TAGTCA"	"ENSG00000154678"	"ENST00000396193"	"Transcript"	"intron_variant"	"-/5109"	"-/2310"	"-/769"	""	""	"rs111927385"	"1"	NA	-1	"PDE1C"	"HGNC"	8776	"protein_coding"	"YES"	"CCDS55100.1"	"ENSP00000379496"	""	""	"UPI000045753D"	"NM_001191058.1"	NA	NA	""	"3/18"	""	"TAGTCA:0.1050"	"TAGTCA:0.2678"	"TAGTCA:0.0418"	NA	"TAGTCA:0"	"TAGTCA:0.0596"	"TAGTCA:0.0849"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"52d90ae2-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2329"	"BMPER"	168667	"mskcc.org"	"GRCh37"	"7"	33946083	33946083	"+"	"Intron"	"DEL"	"T"	"-"	"-"	"rs11294906"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.134-341delT"	""	""	"ENST00000297161"	""	7	"."	5	2	"."	0	"BMPER,intron_variant,,ENST00000297161,NM_133468.4;BMPER,intron_variant,,ENST00000426693,;BMPER,intron_variant,,ENST00000436222,;BMPER,intron_variant,,ENST00000448280,;BMPER,intron_variant,,ENST00000496609,;BMPER,intron_variant,,ENST00000444773,;"	"-"	"ENSG00000164619"	"ENST00000297161"	"Transcript"	"intron_variant"	"-/5031"	"-/2058"	"-/685"	""	""	"rs11294906"	"1"	NA	1	"BMPER"	"HGNC"	24154	"protein_coding"	"YES"	"CCDS5442.1"	"ENSP00000297161"	"Q8N8U9"	""	"UPI000006D462"	"NM_133468.4"	NA	NA	""	"2/15"	""	"T:0.3772"	"-:0.5885"	"-:0.6945"	NA	"-:0.6181"	"-:0.6461"	"-:0.5992"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TATT"	"35442214-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2330"	"NPSR1"	387129	"mskcc.org"	"GRCh37"	"7"	34700149	34700149	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs33939624"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.147+1981delC"	""	""	"ENST00000359791"	""	15	"."	4	3	"."	0	"NPSR1,intron_variant,,ENST00000360581,NM_207172.1;NPSR1,intron_variant,,ENST00000359791,NM_207173.1;NPSR1,intron_variant,,ENST00000531252,;NPSR1,intron_variant,,ENST00000381542,;NPSR1,intron_variant,,ENST00000381539,;NPSR1,intron_variant,,ENST00000381553,;NPSR1,intron_variant,,ENST00000465305,;AC005493.1,upstream_gene_variant,,ENST00000399077,;NPSR1-AS1,intron_variant,,ENST00000419766,;NPSR1-AS1,intron_variant,,ENST00000537560,;NPSR1-AS1,intron_variant,,ENST00000539747,;NPSR1-AS1,intron_variant,,ENST00000439852,;NPSR1-AS1,intron_variant,,ENST00000358772,;NPSR1-AS1,intron_variant,,ENST00000544556,;NPSR1-AS1,intron_variant,,ENST00000431669,;NPSR1-AS1,intron_variant,,ENST00000535640,;NPSR1,intron_variant,,ENST00000396095,;NPSR1,intron_variant,,ENST00000381544,;"	"-"	"ENSG00000187258"	"ENST00000359791"	"Transcript"	"intron_variant"	"-/1410"	"-/1134"	"-/377"	""	""	"rs33939624"	"1"	NA	1	"NPSR1"	"HGNC"	23631	"protein_coding"	"YES"	"CCDS5443.1"	"ENSP00000352839"	"Q6W5P4"	""	"UPI0000353D0F"	"NM_207173.1"	NA	NA	""	"1/8"	""	"-:0.2999"	"-:0.6059"	"-:0.1787"	NA	"-:0.1577"	"-:0.2197"	"-:0.2014"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATCC"	"354b41b6-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"2331"	"AOAH"	313	"mskcc.org"	"GRCh37"	"7"	36750505	36750506	"+"	"Intron"	"INS"	"-"	"GTT"	"GTT"	"rs10623795"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.127+13119_127+13121dupAAC"	""	""	"ENST00000258749"	""	7	"."	5	1	"."	0	"AOAH,intron_variant,,ENST00000431169,NM_001177506.1;AOAH,intron_variant,,ENST00000258749,NM_001637.3;AOAH,intron_variant,,ENST00000535891,NM_001177507.1;AOAH,intron_variant,,ENST00000435386,;AOAH,intron_variant,,ENST00000414637,;"	"GTT"	"ENSG00000136250"	"ENST00000258749"	"Transcript"	"intron_variant"	"-/2379"	"-/1728"	"-/575"	""	""	"rs10623795"	"1"	NA	-1	"AOAH"	"HGNC"	548	"protein_coding"	"YES"	"CCDS5448.1"	"ENSP00000258749"	"P28039"	""	"UPI0000001291"	"NM_001637.3"	NA	NA	""	"1/20"	""	"-:0.3626"	"GTT:0.4985"	"GTT:0.6643"	NA	"GTT:0.8562"	"GTT:0.6044"	"GTT:0.6145"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"535ffd04-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2332"	"ELMO1"	9844	"mskcc.org"	"GRCh37"	"7"	37273328	37273329	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs34529692"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.450-530dupA"	""	""	"ENST00000310758"	""	8	"."	4	1	"."	0	"ELMO1,intron_variant,,ENST00000310758,NM_014800.10,NM_001206480.1;ELMO1,intron_variant,,ENST00000442504,NM_001206482.1;ELMO1,intron_variant,,ENST00000448602,;ELMO1,intron_variant,,ENST00000455119,;"	"T"	"ENSG00000155849"	"ENST00000310758"	"Transcript"	"intron_variant"	"-/4022"	"-/2184"	"-/727"	""	""	"rs34529692"	"1"	NA	-1	"ELMO1"	"HGNC"	16286	"protein_coding"	"YES"	"CCDS5449.1"	"ENSP00000312185"	"Q92556"	"C9JIW2,C9JB20,C9J5X3,B4DJV6,A4D1X5"	"UPI000006F687"	"NM_014800.10,NM_001206480.1"	NA	NA	""	"7/21"	""	"T:0.3530"	"T:0.3185"	"T:0.389"	NA	"T:0.2837"	"T:0.3111"	"T:0.4888"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"53680274-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2333"	"ELMO1"	9844	"mskcc.org"	"GRCh37"	"7"	37296330	37296334	"+"	"Intron"	"DEL"	"GGGAA"	"GGGAA"	"-"	"rs367820559"	NA	"JHCCPT1"	"JHCCPN1"	"GGGAA"	"GGGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.413+2452_413+2456delTTCCC"	""	""	"ENST00000310758"	""	18	"."	3	6	"."	0	"ELMO1,intron_variant,,ENST00000310758,NM_014800.10,NM_001206480.1;ELMO1,intron_variant,,ENST00000442504,NM_001206482.1;ELMO1,intron_variant,,ENST00000448602,;ELMO1,intron_variant,,ENST00000455879,;ELMO1,intron_variant,,ENST00000455119,;"	"-"	"ENSG00000155849"	"ENST00000310758"	"Transcript"	"intron_variant"	"-/4022"	"-/2184"	"-/727"	""	""	"rs367820559"	"1"	NA	-1	"ELMO1"	"HGNC"	16286	"protein_coding"	"YES"	"CCDS5449.1"	"ENSP00000312185"	"Q92556"	"C9JIW2,C9JB20,C9J5X3,B4DJV6,A4D1X5"	"UPI000006F687"	"NM_014800.10,NM_001206480.1"	NA	NA	""	"6/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGGGAAG"	"35a9bf98-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"2334"	"NME8"	51314	"mskcc.org"	"GRCh37"	"7"	37887440	37887477	"+"	"5'Flank"	"DEL"	"GAGGAAGAAGAAGAAGAAAGAAGAGGAAGAAGAAGAAA"	"GAGGAAGAAGAAGAAGAAAGAAGAGGAAGAAGAAGAAA"	"AGAAGAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GAGGAAGAAGAAGAAGAAAGAAGAGGAAGAAGAAGAAA"	"GAGGAAGAAGAAGAAGAAAGAAGAGGAAGAAGAAGAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000199447"	""	35	"."	3	13	"."	0	"EPDR1,intron_variant,,ENST00000476620,;NME8,upstream_gene_variant,,ENST00000199447,NM_016616.4;NME8,upstream_gene_variant,,ENST00000440017,;NME8,upstream_gene_variant,,ENST00000444718,;NME8,upstream_gene_variant,,ENST00000455500,;NME8,upstream_gene_variant,,ENST00000426106,;"	"AGAAGAG"	"ENSG00000086288"	"ENST00000199447"	"Transcript"	"upstream_gene_variant"	"-/2312"	"-/1767"	"-/588"	""	""	""	"1"	"722"	1	"NME8"	"HGNC"	16473	"protein_coding"	"YES"	"CCDS5452.1"	"ENSP00000199447"	"Q8N427"	""	"UPI00000700CB"	"NM_016616.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAGAGGAAGAAGAAGAAGAAAGAAGAGGAAGAAGAAGAAAG"	"4d47f9f8-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WXS"	FALSE
"2335"	"AMPH"	273	"mskcc.org"	"GRCh37"	"7"	38433247	38433248	"+"	"Intron"	"INS"	"-"	"-"	"TC"	"rs112486775"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1608+356_1608+357dupGA"	""	""	"ENST00000356264"	""	14	"."	4	4	"."	0	"AMPH,intron_variant,,ENST00000356264,NM_001635.3;AMPH,intron_variant,,ENST00000325590,NM_139316.2;AMPH,intron_variant,,ENST00000428293,;AMPH,intron_variant,,ENST00000441628,;AMPH,intron_variant,,ENST00000471913,;AMPH,intron_variant,,ENST00000467580,;AMPH,upstream_gene_variant,,ENST00000460887,;AMPH,intron_variant,,ENST00000450124,;AMPH,intron_variant,,ENST00000475581,;AMPH,downstream_gene_variant,,ENST00000462072,;"	"TC"	"ENSG00000078053"	"ENST00000356264"	"Transcript"	"intron_variant"	"-/3418"	"-/2088"	"-/695"	""	""	"rs112486775"	"1"	NA	-1	"AMPH"	"HGNC"	471	"protein_coding"	"YES"	"CCDS5456.1"	"ENSP00000348602"	"P49418"	"Q9UQI5,Q9UQI4,Q9UQI3,Q9UQI2"	"UPI00001259EA"	"NM_001635.3"	NA	NA	""	"18/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"53951a02-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"2336"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	38703877	38703878	"+"	"IGR"	"INS"	"-"	"-"	"AGGGC"	"rs144120801"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	30	"."	4	9	"."	0	""	"AGGGC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144120801"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AGGGCAGGGC:0.0399"	"AGGGCAGGGC:0.0053"	"AGGGCAGGGC:0.0432"	NA	"AGGGCAGGGC:0.001"	"AGGGCAGGGC:0.0497"	"AGGGCAGGGC:0.1145"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"53a3a37e-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WXS"	FALSE
"2337"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	41602204	41602209	"+"	"IGR"	"DEL"	"CCTTCT"	"CCTTCT"	"T"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CCTTCT"	"CCTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	37	"."	4	22	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCCTTCTC"	"4d4b9932-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WXS"	FALSE
"2338"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	42695568	42695569	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs60030655"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs60030655"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0260"	"A:0.9047"	"A:0.9942"	NA	"A:1"	"A:1"	"A:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"53dbb624-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2339"	"MRPL32"	64983	"mskcc.org"	"GRCh37"	"7"	42972437	42972438	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs34028102"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.130+325dupA"	""	""	"ENST00000223324"	""	12	"."	8	3	"."	0	"MRPL32,intron_variant,,ENST00000223324,NM_031903.2;PSMA2,upstream_gene_variant,,ENST00000538645,;PSMA2,upstream_gene_variant,,ENST00000223321,NM_002787.4;PSMA2,upstream_gene_variant,,ENST00000445517,;MRPL32,upstream_gene_variant,,ENST00000496564,;MRPL32,intron_variant,,ENST00000432845,;PSMA2,upstream_gene_variant,,ENST00000411875,;PSMA2,upstream_gene_variant,,ENST00000442788,;PSMA2,upstream_gene_variant,,ENST00000436986,;PSMA2,upstream_gene_variant,,ENST00000433579,;MRPL32,upstream_gene_variant,,ENST00000413995,;"	"A"	"ENSG00000106591"	"ENST00000223324"	"Transcript"	"intron_variant"	"-/1035"	"-/567"	"-/188"	""	""	"rs34028102"	"1"	NA	1	"MRPL32"	"HGNC"	14035	"protein_coding"	"YES"	"CCDS5468.1"	"ENSP00000223324"	"Q9BYC8"	"A4D1V4"	"UPI00001342E5"	"NM_031903.2"	NA	NA	""	"1/2"	""	"-:0.3377"	"A:0.3759"	"A:0.6585"	NA	"A:0.7718"	"A:0.8032"	"A:0.7945"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"53e5829e-2764-11e6-bdfe-c14a424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2340"	"HECW1"	23072	"mskcc.org"	"GRCh37"	"7"	43287533	43287534	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs141906259"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.27+4009_27+4010delGA"	""	""	"ENST00000395891"	""	13	"."	3	6	"."	0	"HECW1,intron_variant,,ENST00000395891,NM_015052.3;HECW1,intron_variant,,ENST00000453890,NM_001287059.1;AC004692.4,intron_variant,,ENST00000458590,;AC004692.4,intron_variant,,ENST00000458680,;AC004692.4,intron_variant,,ENST00000457315,;HECW1,intron_variant,,ENST00000492310,;HECW1,intron_variant,,ENST00000490954,;HECW1,upstream_gene_variant,,ENST00000493057,;HECW1,upstream_gene_variant,,ENST00000464944,;HECW1,upstream_gene_variant,,ENST00000471527,;"	"-"	"ENSG00000002746"	"ENST00000395891"	"Transcript"	"intron_variant"	"-/9501"	"-/4821"	"-/1606"	""	""	"rs141906259"	"1"	NA	1	"HECW1"	"HGNC"	22195	"protein_coding"	"YES"	"CCDS5469.2"	"ENSP00000379228"	"Q76N89"	"A4D1V5"	"UPI0000D74C41"	"NM_015052.3"	NA	NA	""	"3/29"	""	"-:0.2558"	"-:0.5371"	"-:0.1167"	NA	"-:0.256"	"-:0.1064"	"-:0.1278"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"367d5d3a-2764-11e6-bdfe-c14a424a729f"	"149"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"2341"	"BLVRA"	644	"mskcc.org"	"GRCh37"	"7"	43829280	43829284	"+"	"Intron"	"DEL"	"CACAC"	"CACAC"	"-"	"rs71897996"	NA	"JHCCPT1"	"JHCCPN1"	"CACAC"	"CACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.135-1567_135-1563delACACC"	""	""	"ENST00000402924"	""	6	"."	3	1	"."	0	"BLVRA,intron_variant,,ENST00000402924,NM_001253823.1;BLVRA,intron_variant,,ENST00000265523,NM_000712.3;BLVRA,intron_variant,,ENST00000424330,;BLVRA,intron_variant,,ENST00000453612,;"	"-"	"ENSG00000106605"	"ENST00000402924"	"Transcript"	"intron_variant"	"-/1159"	"-/891"	"-/296"	""	""	"rs71897996"	"1"	NA	1	"BLVRA"	"HGNC"	1062	"protein_coding"	"YES"	"CCDS5472.1"	"ENSP00000385757"	"P53004"	"C9J1E1"	"UPI0000126937"	"NM_001253823.1"	NA	NA	""	"4/8"	""	"-:0.2881"	"-:0.1097"	"-:0.2997"	NA	"-:0.3472"	"-:0.2913"	"-:0.4571"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTCACACC"	"369bf416-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2342"	"GCK"	2645	"mskcc.org"	"GRCh37"	"7"	44214295	44214297	"+"	"Intron"	"DEL"	"TCC"	"TCC"	"-"	"rs148602629"	NA	"JHCCPT1"	"JHCCPN1"	"TCC"	"TCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.45+14211_45+14213delGGA"	""	""	"ENST00000403799"	""	43	"."	4	24	"."	0	"GCK,intron_variant,,ENST00000403799,NM_000162.3;GCK,intron_variant,,ENST00000437084,;GCK,intron_variant,,ENST00000476008,;"	"-"	"ENSG00000106633"	"ENST00000403799"	"Transcript"	"intron_variant"	"-/2729"	"-/1398"	"-/465"	""	""	"rs148602629"	"1"	NA	-1	"GCK"	"HGNC"	4195	"protein_coding"	""	"CCDS5479.1"	"ENSP00000384247"	"P35557"	"M4PS83,M4PPE1,Q53Y25"	"UPI0000036BD4"	"NM_000162.3"	NA	NA	""	"1/9"	""	"-:0.2204"	"-:0.3147"	"-:0.1671"	NA	"-:0.2917"	"-:0.1551"	"-:0.1247"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTTCCT"	"36ae12c2-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WXS"	FALSE
"2343"	"AC004854.5"	0	"mskcc.org"	"GRCh37"	"7"	44961244	44961245	"+"	"3'Flank"	"INS"	"-"	"-"	"C"	"rs5883917"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000440356"	""	14	"."	4	5	"."	0	"AC004854.5,downstream_gene_variant,,ENST00000440356,;"	"C"	"ENSG00000230160"	"ENST00000440356"	"Transcript"	"downstream_gene_variant"	"-/349"	""	""	""	""	"rs5883917"	"1"	"1316"	1	"AC004854.5"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.1921"	"C:0.1589"	"C:0.2205"	NA	"C:0.1915"	"C:0.2594"	"C:0.1483"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"5484d7d6-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"2344"	"MYO1G"	64005	"mskcc.org"	"GRCh37"	"7"	45003311	45003311	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs34563873"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2745+337delG"	""	""	"ENST00000258787"	""	21	"."	11	9	"."	0	"MYO1G,intron_variant,,ENST00000258787,NM_033054.2;RP4-647J21.1,upstream_gene_variant,,ENST00000568457,;MYO1G,non_coding_transcript_exon_variant,,ENST00000463516,;MYO1G,intron_variant,,ENST00000488554,;MYO1G,intron_variant,,ENST00000483585,;MYO1G,intron_variant,,ENST00000495831,;MYO1G,downstream_gene_variant,,ENST00000480503,;MYO1G,downstream_gene_variant,,ENST00000464434,;"	"-"	"ENSG00000136286"	"ENST00000258787"	"Transcript"	"intron_variant"	"-/3267"	"-/3057"	"-/1018"	""	""	"rs34563873"	"1"	NA	-1	"MYO1G"	"HGNC"	13880	"protein_coding"	"YES"	"CCDS34629.1"	"ENSP00000258787"	"B0I1T2"	""	"UPI00001D747C"	"NM_033054.2"	NA	NA	""	"20/21"	""	"-:0.1444"	"-:0.27"	"-:0.0533"	NA	"-:0.0337"	"-:0.0507"	"-:0.2495"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCC"	"36dcf89e-2764-11e6-bdfe-c14a424a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.523809523809524	"WXS"	FALSE
"2345"	"RAMP3"	10268	"mskcc.org"	"GRCh37"	"7"	45201139	45201140	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs3839754"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.58+3654_58+3655insT"	""	""	"ENST00000242249"	""	7	"."	4	1	"."	0	"RAMP3,intron_variant,,ENST00000242249,NM_005856.2;RAMP3,intron_variant,,ENST00000481345,;RAMP3,intron_variant,,ENST00000496212,;"	"T"	"ENSG00000122679"	"ENST00000242249"	"Transcript"	"intron_variant"	"-/1323"	"-/447"	"-/148"	""	""	"rs3839754"	"1"	NA	1	"RAMP3"	"HGNC"	9845	"protein_coding"	"YES"	"CCDS5503.1"	"ENSP00000242249"	"O60896"	"M5AMS3,A4D2L1"	"UPI0000134303"	"NM_005856.2"	NA	NA	""	"1/2"	""	"T:0.2746"	"T:0.5961"	"T:0.1686"	NA	"T:0.0159"	"T:0.2266"	"T:0.2311"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"54887f1c-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2346"	"PKD1L1"	168507	"mskcc.org"	"GRCh37"	"7"	47921880	47921881	"+"	"Intron"	"INS"	"-"	"-"	"TCCC"	"rs142686062"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3266-201_3266-198dupGGGA"	""	""	"ENST00000289672"	""	23	"."	5	8	"."	0	"PKD1L1,intron_variant,,ENST00000289672,NM_138295.3;HUS1,intron_variant,,ENST00000436444,;"	"TCCC"	"ENSG00000158683"	"ENST00000289672"	"Transcript"	"intron_variant"	"-/9092"	"-/8550"	"-/2849"	""	""	"rs142686062"	"1"	NA	-1	"PKD1L1"	"HGNC"	18053	"protein_coding"	"YES"	"CCDS34633.1"	"ENSP00000289672"	"Q8TDX9"	""	"UPI0000130FA9"	"NM_138295.3"	NA	NA	""	"19/56"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"54b6b300-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WXS"	FALSE
"2347"	"HUS1"	3364	"mskcc.org"	"GRCh37"	"7"	48004514	48004515	"+"	"3'UTR"	"INS"	"-"	"-"	"A"	"rs3176611"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*438dupT"	""	""	"ENST00000258774"	"8/8"	9	"."	5	1	"."	0	"HUS1,3_prime_UTR_variant,,ENST00000258774,NM_004507.3;HUS1,downstream_gene_variant,,ENST00000432325,;HUS1,downstream_gene_variant,,ENST00000432627,;HUS1,3_prime_UTR_variant,,ENST00000436444,;HUS1,intron_variant,,ENST00000458191,;HUS1,downstream_gene_variant,,ENST00000442024,;"	"A"	"ENSG00000136273"	"ENST00000258774"	"Transcript"	"3_prime_UTR_variant"	"1305-1306/2935"	"-/843"	"-/280"	""	""	"rs3176611"	"1"	NA	-1	"HUS1"	"HGNC"	5309	"protein_coding"	"YES"	"CCDS34635.1"	"ENSP00000258774"	"O60921"	"C9JCK8,C9JA95,B4DFI9,A4D2F2"	"UPI000006FE43"	"NM_004507.3"	NA	NA	"8/8"	""	""	"A:0.4329"	"A:0.3154"	"A:0.4942"	NA	"A:0.5119"	"A:0.5189"	"A:0.3783"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"54b8c5be-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"2348"	"C7orf57"	136288	"mskcc.org"	"GRCh37"	"7"	48091363	48091364	"+"	"Intron"	"INS"	"-"	"-"	"TTTCT"	"rs372788473"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.606-931_606-927dupTCTTT"	""	""	"ENST00000348904"	""	7	"."	4	2	"."	0	"C7orf57,intron_variant,,ENST00000348904,NM_001100159.2;C7orf57,intron_variant,,ENST00000539619,;C7orf57,intron_variant,,ENST00000430738,;C7orf57,intron_variant,,ENST00000420324,NM_001267865.1;C7orf57,intron_variant,,ENST00000435376,NM_001267866.1;"	"TTTCT"	"ENSG00000164746"	"ENST00000348904"	"Transcript"	"intron_variant"	"-/2125"	"-/888"	"-/295"	""	""	"rs372788473"	"1"	NA	1	"C7orf57"	"HGNC"	22247	"protein_coding"	"YES"	"CCDS47583.1"	"ENSP00000335500"	"Q8NEG2"	""	"UPI00001C1E6B"	"NM_001100159.2"	NA	NA	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"54cb7542-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2349"	"VWC2"	375567	"mskcc.org"	"GRCh37"	"7"	49896252	49896252	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs143248903"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.826+53816delA"	""	""	"ENST00000340652"	""	7	"."	4	1	"."	0	"VWC2,intron_variant,,ENST00000340652,NM_198570.3;ZPBP,intron_variant,,ENST00000491129,;ZPBP,intron_variant,,ENST00000465922,;"	"-"	"ENSG00000188730"	"ENST00000340652"	"Transcript"	"intron_variant"	"-/11299"	"-/978"	"-/325"	""	""	"rs143248903"	"1"	NA	1	"VWC2"	"HGNC"	30200	"protein_coding"	"YES"	"CCDS5508.1"	"ENSP00000341819"	"Q2TAL6"	""	"UPI00002373A5"	"NM_198570.3"	NA	NA	""	"3/3"	""	"-:0.0056"	"-:0.0008"	"-:0.0014"	NA	"-:0.001"	"-:0.0219"	"-:0.0031"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAC"	"379b2742-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2350"	"COBL"	23242	"mskcc.org"	"GRCh37"	"7"	51150357	51150358	"+"	"Intron"	"DEL"	"TT"	"TT"	"-"	"rs34254780"	NA	"JHCCPT1"	"JHCCPN1"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1096+2505_1096+2506delAA"	""	""	"ENST00000265136"	""	8	"."	4	5	"."	0	"COBL,intron_variant,,ENST00000395542,;COBL,intron_variant,,ENST00000265136,NM_015198.3;COBL,intron_variant,,ENST00000431948,;COBL,intron_variant,,ENST00000445054,;COBL,intron_variant,,ENST00000441453,NM_001287438.1;COBL,intron_variant,,ENST00000395540,;COBL,intron_variant,,ENST00000452534,;"	"-"	"ENSG00000106078"	"ENST00000265136"	"Transcript"	"intron_variant"	"-/5291"	"-/3786"	"-/1261"	""	""	"rs34254780"	"1"	NA	-1	"COBL"	"HGNC"	22199	"protein_coding"	"YES"	"CCDS34637.1"	"ENSP00000265136"	"O75128"	"C9J9X1"	"UPI00001A9480"	"NM_015198.3"	NA	NA	""	"7/12"	""	"-:0.0944"	"-:0.0666"	"-:0.1196"	NA	"-:0.0248"	"-:0.0954"	"-:0.1851"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTG"	"37d48992-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2351"	"COBL"	23242	"mskcc.org"	"GRCh37"	"7"	51250349	51250350	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs60646368"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.783+1449dupC"	""	""	"ENST00000265136"	""	10	"."	5	2	"."	0	"COBL,intron_variant,,ENST00000395542,;COBL,intron_variant,,ENST00000265136,NM_015198.3;COBL,intron_variant,,ENST00000431948,;COBL,intron_variant,,ENST00000445054,;COBL,intron_variant,,ENST00000441453,NM_001287438.1;COBL,intron_variant,,ENST00000395540,;COBL,intron_variant,,ENST00000452534,;"	"G"	"ENSG00000106078"	"ENST00000265136"	"Transcript"	"intron_variant"	"-/5291"	"-/3786"	"-/1261"	""	""	"rs60646368"	"1"	NA	-1	"COBL"	"HGNC"	22199	"protein_coding"	"YES"	"CCDS34637.1"	"ENSP00000265136"	"O75128"	"C9J9X1"	"UPI00001A9480"	"NM_015198.3"	NA	NA	""	"5/12"	""	"-:0.4838"	"G:0.2973"	"G:0.6066"	NA	"G:0.6597"	"G:0.6541"	"G:0.4581"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"551d5416-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2352"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	52224166	52224167	"+"	"IGR"	"INS"	"-"	"CACT"	"CACT"	"rs5884242"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	6	1	"."	0	""	"CACT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5884242"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1959"	"CACT:0.6142"	"CACT:0.8501"	NA	"CACT:0.8879"	"CACT:0.8797"	"CACT:0.864"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"552973c2-2764-11e6-bdfe-c14a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"2353"	"PHKG1"	5260	"mskcc.org"	"GRCh37"	"7"	56156044	56156044	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34792572"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.83+508delA"	""	""	"ENST00000452681"	""	9	"."	5	2	"."	0	"PHKG1,intron_variant,,ENST00000452681,NM_001258459.1;PHKG1,intron_variant,,ENST00000537360,;PHKG1,intron_variant,,ENST00000297373,NM_006213.4,NM_001258460.1;PHKG1,intron_variant,,ENST00000432123,;PHKG1,intron_variant,,ENST00000446428,;PHKG1,intron_variant,,ENST00000489604,;PHKG1,intron_variant,,ENST00000467726,;PHKG1,intron_variant,,ENST00000395428,;PHKG1,downstream_gene_variant,,ENST00000492124,;PHKG1,upstream_gene_variant,,ENST00000471665,;"	"-"	"ENSG00000164776"	"ENST00000452681"	"Transcript"	"intron_variant"	"-/1717"	"-/1260"	"-/419"	""	""	"rs34792572"	"1"	NA	-1	"PHKG1"	"HGNC"	8930	"protein_coding"	"YES"	"CCDS59057.1"	"ENSP00000445440"	"Q16816"	""	"UPI0002065859"	"NM_001258459.1"	NA	NA	""	"2/10"	""	"-:0.4842"	"-:0.3911"	"-:0.4597"	NA	"-:0.6647"	"-:0.4861"	"-:0.4397"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCTT"	"384a7328-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"2354"	"RP4-725G10.4"	0	"mskcc.org"	"GRCh37"	"7"	56244318	56244326	"+"	"3'Flank"	"DEL"	"TATATAATG"	"TATATAATG"	"-"	"rs144437695"	NA	"JHCCPT1"	"JHCCPN1"	"TATATAATG"	"TATATAATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000450065"	""	11	"."	3	4	"."	0	"RP4-725G10.4,downstream_gene_variant,,ENST00000450065,;"	"-"	"ENSG00000233028"	"ENST00000450065"	"Transcript"	"downstream_gene_variant"	"-/779"	""	""	""	""	"rs144437695"	"1"	"213"	1	"RP4-725G10.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATATATAATGT"	"3850ca52-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2355"	"CCNJP1"	0	"mskcc.org"	"GRCh37"	"7"	56295997	56295998	"+"	"3'Flank"	"DEL"	"TA"	"TA"	"-"	"rs34720910"	NA	"JHCCPT1"	"JHCCPN1"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000450600"	""	10	"."	4	2	"."	0	"CCNJP1,downstream_gene_variant,,ENST00000450600,;"	"-"	"ENSG00000227491"	"ENST00000450600"	"Transcript"	"downstream_gene_variant"	"-/1149"	""	""	""	""	"rs34720910"	"1"	"329"	-1	"CCNJP1"	"HGNC"	22512	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4133"	"-:0.5696"	"-:0.2349"	NA	"-:0.6111"	"-:0.2058"	"-:0.3384"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTAT"	"385d9480-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2356"	"RP13-492C18.2"	0	"mskcc.org"	"GRCh37"	"7"	56491636	56491637	"+"	"RNA"	"INS"	"-"	"-"	"ATA"	"rs142342878"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1212_1214dupTAT"	""	""	"ENST00000422212"	"4/5"	6	"."	4	3	"."	0	"RP13-492C18.2,downstream_gene_variant,,ENST00000443198,;RP13-492C18.2,non_coding_transcript_exon_variant,,ENST00000422212,;"	"ATA"	"ENSG00000237268"	"ENST00000422212"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1214-1215/1621"	""	""	""	""	"rs142342878"	"1"	NA	-1	"RP13-492C18.2"	"Clone_based_vega_gene"	NA	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"4/5"	""	""	"ATA:0.1320"	"ATA:0.1331"	"ATA:0.2536"	NA	"ATA:0.0089"	"ATA:0.1809"	"ATA:0.1207"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"55646eaa-2764-11e6-bdfe-c14a424a729f"	"192"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2357"	"ZNF479"	90827	"mskcc.org"	"GRCh37"	"7"	57193370	57193371	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs564637463"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.262+354dupT"	""	""	"ENST00000331162"	""	20	"."	7	4	"."	0	"ZNF479,intron_variant,,ENST00000331162,NM_033273.1;"	"A"	"ENSG00000185177"	"ENST00000331162"	"Transcript"	"intron_variant"	"-/2072"	"-/1575"	"-/524"	""	""	"rs564637463"	"1"	NA	-1	"ZNF479"	"HGNC"	23258	"protein_coding"	"YES"	"CCDS43590.1"	"ENSP00000333776"	"Q96JC4"	"I0EZ75"	"UPI000006E615"	"NM_033273.1"	NA	NA	""	"4/4"	""	"AA:0.3031"	"AA:0.2307"	"AA:0.2507"	NA	"AA:0.6409"	"AA:0.1759"	"AA:0.2209"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"556b3212-2764-11e6-bdfe-c14a424a729f"	"379"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WXS"	FALSE
"2358"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	57384832	57384880	"+"	"IGR"	"DEL"	"CCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTTCTCTCTTT"	"CCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTTCTCTCTTT"	"TCTCTCTCTCTTTCTTTCTTTCTTTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTTCTCTCTTT"	"CCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTTCTCTCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	5	3	"."	0	""	"TCTCTCTCTCTTTCTTTCTTTCTTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTTCTCTCTTTC"	"4d62cfbc-2764-11e6-bdfe-c14a424a729f"	"259"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"2359"	"ZNF716"	441234	"mskcc.org"	"GRCh37"	"7"	57519708	57519708	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34091018"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.40-2457delT"	""	""	"ENST00000420713"	""	10	"."	5	1	"."	0	"ZNF716,intron_variant,,ENST00000420713,NM_001159279.1;"	"-"	"ENSG00000182111"	"ENST00000420713"	"Transcript"	"intron_variant"	"-/5197"	"-/1488"	"-/495"	""	""	"rs34091018"	"1"	NA	1	"ZNF716"	"HGNC"	32458	"protein_coding"	"YES"	"CCDS55112.1"	"ENSP00000394248"	"A6NP11"	""	"UPI00004192FD"	"NM_001159279.1"	NA	NA	""	"1/3"	""	"T:0.4413"	"-:0.5741"	"-:0.6153"	NA	"-:0.6667"	"-:0.4453"	"-:0.5031"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"388f25f4-2764-11e6-bdfe-c14a424a729f"	"260"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2360"	"TNRC18P2"	0	"mskcc.org"	"GRCh37"	"7"	63047630	63047632	"+"	"5'Flank"	"DEL"	"CTT"	"CTT"	"-"	"rs200971162"	NA	"JHCCPT1"	"JHCCPN1"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000417666"	""	9	"."	4	2	"."	0	"TNRC18P2,upstream_gene_variant,,ENST00000417666,;"	"-"	"ENSG00000223566"	"ENST00000417666"	"Transcript"	"upstream_gene_variant"	"-/2714"	""	""	""	""	"rs200971162"	"1"	"2177"	-1	"TNRC18P2"	"HGNC"	34014	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTC"	"38a218ee-2764-11e6-bdfe-c14a424a729f"	"108"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2361"	"ZNF679"	730291	"mskcc.org"	"GRCh37"	"7"	63697267	63697267	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs142750337"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-91+8243delA"	""	""	"ENST00000421025"	""	7	"."	3	4	"."	0	"ZNF679,intron_variant,,ENST00000421025,NM_153363.2,NM_001159524.1;"	"-"	"ENSG00000197123"	"ENST00000421025"	"Transcript"	"intron_variant"	"-/1567"	"-/1236"	"-/411"	""	""	"rs142750337"	"1"	NA	1	"ZNF679"	"HGNC"	28650	"protein_coding"	"YES"	"CCDS47592.1"	"ENSP00000416809"	"Q8IYX0"	""	"UPI000045756A"	"NM_153363.2,NM_001159524.1"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"38bf82bc-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2362"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	64984951	64984954	"+"	"IGR"	"DEL"	"TTTG"	"TTTG"	"-"	"rs200186446"	NA	"JHCCPT1"	"JHCCPN1"	"TTTG"	"TTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	21	"."	4	8	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200186446"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1899"	"-:0.2428"	"-:0.2205"	NA	"-:0.1548"	"-:0.0915"	"-:0.2342"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTGT"	"38ed27c6-2764-11e6-bdfe-c14a424a729f"	"192"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"2363"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	65048044	65048046	"+"	"IGR"	"DEL"	"TTC"	"TTC"	"-"	"rs782012094"	NA	"JHCCPT1"	"JHCCPN1"	"TTC"	"TTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	3	7	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs782012094"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTCT"	"38f2f4bc-2764-11e6-bdfe-c14a424a729f"	"121"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"2364"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	65311451	65311452	"+"	"IGR"	"INS"	"-"	"-"	"TTCT"	"rs113002891"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	6	1	"."	0	""	"TTCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113002891"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0062"	"TTCT:0.9947"	"TTCT:0.9942"	NA	"TTCT:0.997"	"TTCT:0.9851"	"TTCT:0.998"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"55b276e0-2764-11e6-bdfe-c14a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"2365"	"VKORC1L1"	154807	"mskcc.org"	"GRCh37"	"7"	65354438	65354439	"+"	"Intron"	"INS"	"-"	"-"	"TTCT"	"rs773654379"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.194+15887_194+15890dupTTCT"	""	""	"ENST00000360768"	""	6	"."	4	4	"."	0	"VKORC1L1,intron_variant,,ENST00000360768,NM_173517.4;VKORC1L1,intron_variant,,ENST00000434382,NM_001284342.1;"	"TTCT"	"ENSG00000196715"	"ENST00000360768"	"Transcript"	"intron_variant"	"-/5899"	"-/531"	"-/176"	""	""	"rs773654379"	"1"	NA	1	"VKORC1L1"	"HGNC"	21492	"protein_coding"	"YES"	"CCDS5529.1"	"ENSP00000353998"	"Q8N0U8"	""	"UPI000020E7D2"	"NM_173517.4"	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"55bcc870-2764-11e6-bdfe-c14a424a729f"	"120"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2366"	"AC068533.7"	0	"mskcc.org"	"GRCh37"	"7"	65563900	65563902	"+"	"Intron"	"DEL"	"GAG"	"GAG"	"-"	"rs150526782"	NA	"JHCCPT1"	"JHCCPN1"	"GAG"	"GAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.555+6267_555+6269delGGA"	""	""	"ENST00000450043"	""	16	"."	5	3	"."	0	"AC068533.7,intron_variant,,ENST00000450043,;"	"-"	"ENSG00000249319"	"ENST00000450043"	"Transcript"	"intron_variant"	"-/878"	"-/880"	"-/293"	""	""	"rs150526782"	"1"	NA	1	"AC068533.7"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000396527"	""	""	"UPI000198CCDA"	""	NA	NA	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGAGG"	"39218b10-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"2367"	"AC068533.7"	0	"mskcc.org"	"GRCh37"	"7"	65565448	65565449	"+"	"Intron"	"INS"	"-"	"-"	"GAGGAAAGAGGGAGAAAGAAAAAGAAACAAGAGGAGGAGGAGGAAAA"	"rs374577070"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.555+7812_555+7813insAAAGAAAAAGAAACAAGAGGAGGAGGAGGAAAAGAGGAAAGAGGGAG"	""	""	"ENST00000450043"	""	21	"."	6	11	"."	0	"AC068533.7,intron_variant,,ENST00000450043,;"	"GAGGAAAGAGGGAGAAAGAAAAAGAAACAAGAGGAGGAGGAGGAAAA"	"ENSG00000249319"	"ENST00000450043"	"Transcript"	"intron_variant"	"-/878"	"-/880"	"-/293"	""	""	"rs374577070"	"1"	NA	1	"AC068533.7"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000396527"	""	""	"UPI000198CCDA"	""	NA	NA	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"14"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"55ce2192-2764-11e6-bdfe-c14a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"2368"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	66920584	66920585	"+"	"IGR"	"INS"	"-"	"-"	"TTTCTTTTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	2	"."	0	""	"TTTCTTTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"56199578-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2369"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	67251951	67251952	"+"	"IGR"	"INS"	"-"	"-"	"TC"	"rs150535869"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"TC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150535869"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"561e31fa-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2370"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	68010776	68010781	"+"	"IGR"	"DEL"	"CTCCTT"	"CTCCTT"	"-"	"rs10537591"	NA	"JHCCPT1"	"JHCCPN1"	"CTCCTT"	"CTCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	3	7	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10537591"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CTCCTT:0.1841"	"-:0.8306"	"-:0.8242"	NA	"-:0.6448"	"-:0.9095"	"-:0.8701"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTCCTTC"	"39a96508-2764-11e6-bdfe-c14a424a729f"	"141"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"2371"	"AUTS2"	26053	"mskcc.org"	"GRCh37"	"7"	70083709	70083710	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs34608343"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.691-79837_691-79836delGA"	""	""	"ENST00000342771"	""	7	"."	4	2	"."	0	"AUTS2,intron_variant,,ENST00000342771,NM_015570.2;AUTS2,intron_variant,,ENST00000406775,NM_001127231.1;"	"-"	"ENSG00000158321"	"ENST00000342771"	"Transcript"	"intron_variant"	"-/6173"	"-/3780"	"-/1259"	""	""	"rs34608343"	"1"	NA	1	"AUTS2"	"HGNC"	14262	"protein_coding"	"YES"	"CCDS5539.1"	"ENSP00000344087"	"Q8WXX7"	"Q75MQ7,Q75MQ4,Q75MQ3,Q75MD7"	"UPI0000126665"	"NM_015570.2"	NA	NA	""	"5/18"	""	"AG:0.1454"	"-:0.9228"	"-:0.853"	NA	"-:0.744"	"-:0.8231"	"-:0.91"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAGA"	"39b9f4ea-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2372"	"TYW1B"	0	"mskcc.org"	"GRCh37"	"7"	72071592	72071593	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs782240914"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.663+10064dupG"	""	""	"ENST00000343721"	""	6	"."	4	2	"."	0	"TYW1B,intron_variant,,ENST00000343721,;TYW1B,intron_variant,,ENST00000438125,;TYW1B,intron_variant,,ENST00000435769,NM_001145440.1;"	"C"	"ENSG00000254184"	"ENST00000343721"	"Transcript"	"intron_variant"	"-/1302"	"-/885"	"-/294"	""	""	"rs782240914"	"1"	NA	-1	"TYW1B"	"HGNC"	33908	"protein_coding"	""	""	"ENSP00000476766"	""	"B4DG43,B4DFY2"	"UPI00001980B4"	""	NA	NA	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"566d43da-2764-11e6-bdfe-c14a424a729f"	"174"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2373"	"WBSCR27"	155368	"mskcc.org"	"GRCh37"	"7"	73249451	73249456	"+"	"Intron"	"DEL"	"CTCTCC"	"CTCTCC"	"-"	"rs147740582"	NA	"JHCCPT1"	"JHCCPN1"	"CTCTCC"	"CTCTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.479-124_479-119delGGAGAG"	""	""	"ENST00000297873"	""	31	"."	3	22	"."	0	"WBSCR27,intron_variant,,ENST00000297873,NM_152559.2;CLDN4,downstream_gene_variant,,ENST00000435050,;CLDN4,downstream_gene_variant,,ENST00000431918,;CLDN4,downstream_gene_variant,,ENST00000340958,NM_001305.3;WBSCR27,intron_variant,,ENST00000458679,;WBSCR27,downstream_gene_variant,,ENST00000493174,;"	"-"	"ENSG00000165171"	"ENST00000297873"	"Transcript"	"intron_variant"	"-/941"	"-/738"	"-/245"	""	""	"rs147740582"	"1"	NA	-1	"WBSCR27"	"HGNC"	19068	"protein_coding"	"YES"	"CCDS5561.1"	"ENSP00000297873"	"Q8N6F8"	""	"UPI000013E466"	"NM_152559.2"	NA	NA	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCTCTCCC"	"3a462780-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WXS"	FALSE
"2374"	"GTF2IRD1"	9569	"mskcc.org"	"GRCh37"	"7"	73886594	73886595	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs11447596"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-7+18091dupC"	""	""	"ENST00000455841"	""	11	"."	6	2	"."	0	"GTF2IRD1,intron_variant,,ENST00000265755,NM_005685.3,NM_016328.2;GTF2IRD1,intron_variant,,ENST00000455841,NM_001199207.1;GTF2IRD1,intron_variant,,ENST00000424337,;"	"C"	"ENSG00000006704"	"ENST00000455841"	"Transcript"	"intron_variant"	"-/3315"	"-/2931"	"-/976"	""	""	"rs11447596"	"1"	NA	1	"GTF2IRD1"	"HGNC"	4661	"protein_coding"	"YES"	"CCDS56492.1"	"ENSP00000397566"	"Q9UHL9"	""	"UPI00003BF92B"	"NM_001199207.1"	NA	NA	""	"1/26"	""	"-:0.2119"	"C:0.8132"	"C:0.8588"	NA	"C:0.7698"	"C:0.7833"	"C:0.728"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTC"	"5696969a-2764-11e6-bdfe-c14a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"2375"	"HIP1"	3092	"mskcc.org"	"GRCh37"	"7"	75245902	75245903	"+"	"Intron"	"INS"	"-"	"-"	"GGAGGAGGA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.121-17346_121-17338dupTCCTCCTCC"	""	""	"ENST00000336926"	""	11	"."	4	11	"."	0	"HIP1,intron_variant,,ENST00000336926,NM_005338.6;HIP1,intron_variant,,ENST00000434438,NM_001243198.2;HIP1,upstream_gene_variant,,ENST00000420909,;"	"GGAGGAGGA"	"ENSG00000127946"	"ENST00000336926"	"Transcript"	"intron_variant"	"-/8013"	"-/3114"	"-/1037"	""	""	""	"1"	NA	-1	"HIP1"	"HGNC"	4913	"protein_coding"	"YES"	"CCDS34669.1"	"ENSP00000336747"	"O00291"	"Q8TDA4,B4DYD7,B4DK46"	"UPI000013D65F"	"NM_005338.6"	NA	NA	""	"1/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"56a79aa8-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	TRUE
"2376"	"YWHAG"	7532	"mskcc.org"	"GRCh37"	"7"	75960603	75960604	"+"	"Intron"	"INS"	"-"	"-"	"GGAGAGGAGA"	"rs112289084"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.88-1063_88-1054dupTCTCCTCTCC"	""	""	"ENST00000307630"	""	8	"."	3	1	"."	0	"YWHAG,intron_variant,,ENST00000307630,NM_012479.3;"	"GGAGAGGAGA"	"ENSG00000170027"	"ENST00000307630"	"Transcript"	"intron_variant"	"-/3745"	"-/744"	"-/247"	""	""	"rs112289084"	"1"	NA	-1	"YWHAG"	"HGNC"	12852	"protein_coding"	"YES"	"CCDS5584.1"	"ENSP00000306330"	"P61981"	"B4DHC4"	"UPI000000106B"	"NM_012479.3"	NA	NA	""	"1/1"	""	"-:0.3382"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"56b7dfa8-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2377"	"GSAP"	54103	"mskcc.org"	"GRCh37"	"7"	76985342	76985345	"+"	"Intron"	"DEL"	"CAAG"	"-"	"-"	"rs144861072"	NA	"JHCCPT1"	"JHCCPN1"	"CAAG"	"CAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1028-381_1028-378delCTTG"	""	""	"ENST00000257626"	""	8	"."	6	1	"."	0	"GSAP,intron_variant,,ENST00000257626,NM_017439.3;GSAP,upstream_gene_variant,,ENST00000434084,;GSAP,intron_variant,,ENST00000334003,;GSAP,upstream_gene_variant,,ENST00000449779,;"	"-"	"ENSG00000186088"	"ENST00000257626"	"Transcript"	"intron_variant"	"-/3251"	"-/2565"	"-/854"	""	""	"rs144861072"	"1"	NA	-1	"GSAP"	"HGNC"	28042	"protein_coding"	"YES"	"CCDS34672.2"	"ENSP00000257626"	"A4D1B5"	"B7ZL33"	"UPI000015FEE3"	"NM_017439.3"	NA	NA	""	"14/30"	""	"-:0.3125"	"-:0.5643"	"-:0.2219"	NA	"-:0.0893"	"-:0.2266"	"-:0.3548"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCAAGC"	"3b46c5a4-2764-11e6-bdfe-c14a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"2378"	"PTPN12"	5782	"mskcc.org"	"GRCh37"	"7"	77166520	77166521	"+"	"5'Flank"	"INS"	"-"	"-"	"GGCGGCGGCGGCGGCGGCGGCGGC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000248594"	""	26	"."	6	16	"."	0	"PTPN12,upstream_gene_variant,,ENST00000248594,NM_002835.3;PTPN12,upstream_gene_variant,,ENST00000435495,NM_001131009.1;PTPN12,upstream_gene_variant,,ENST00000415482,NM_001131008.1;PTPN12,upstream_gene_variant,,ENST00000433369,;PTPN12,upstream_gene_variant,,ENST00000460731,;PTPN12,upstream_gene_variant,,ENST00000523952,;"	"GGCGGCGGCGGCGGCGGCGGCGGC"	"ENSG00000127947"	"ENST00000248594"	"Transcript"	"upstream_gene_variant"	"-/3406"	"-/2343"	"-/780"	""	""	""	"1"	"71"	1	"PTPN12"	"HGNC"	9645	"protein_coding"	"YES"	"CCDS5592.1"	"ENSP00000248594"	"Q05209"	"F8WB51,E9PBR5,C9JJC1,C9J1X8,A4D1C5"	"UPI000013CC4C"	"NM_002835.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"571fe562-2764-11e6-bdfe-c14a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"2379"	"MAGI2"	9863	"mskcc.org"	"GRCh37"	"7"	78304564	78304565	"+"	"Intron"	"INS"	"-"	"-"	"TGT"	"rs369486000"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.419-48012_419-48010dupACA"	""	""	"ENST00000354212"	""	12	"."	4	1	"."	0	"MAGI2,intron_variant,,ENST00000354212,NM_012301.3;MAGI2,intron_variant,,ENST00000419488,;MAGI2,intron_variant,,ENST00000522391,;MAGI2,intron_variant,,ENST00000536571,;MAGI2,intron_variant,,ENST00000535697,;"	"TGT"	"ENSG00000187391"	"ENST00000354212"	"Transcript"	"intron_variant"	"-/6861"	"-/4368"	"-/1455"	""	""	"rs369486000"	"1"	NA	-1	"MAGI2"	"HGNC"	18957	"protein_coding"	"YES"	"CCDS5594.1"	"ENSP00000346151"	"Q86UL8"	""	"UPI00001615D2"	"NM_012301.3"	NA	NA	""	"2/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"573acdaa-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2380"	"HGF"	3082	"mskcc.org"	"GRCh37"	"7"	81366210	81366211	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGTGTGTGTGT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.865+6445_865+6458dupACACACACACACAC"	""	""	"ENST00000222390"	""	38	"."	4	36	"."	0	"HGF,intron_variant,,ENST00000222390,NM_000601.4;HGF,intron_variant,,ENST00000457544,NM_001010932.1;"	"GTGTGTGTGTGTGT"	"ENSG00000019991"	"ENST00000222390"	"Transcript"	"intron_variant"	"-/5989"	"-/2187"	"-/728"	""	""	""	"1"	NA	-1	"HGF"	"HGNC"	4893	"protein_coding"	"YES"	"CCDS5597.1"	"ENSP00000222390"	"P14210"	"C9JS80,C9JDP4"	"UPI000000D92B"	"NM_000601.4"	NA	NA	""	"7/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"57555fc6-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WXS"	FALSE
"2381"	"CDK14"	5218	"mskcc.org"	"GRCh37"	"7"	90838708	90838709	"+"	"3'UTR"	"INS"	"-"	"-"	"TC"	"rs149920442"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*2269_*2270dupCT"	""	""	"ENST00000265741"	"14/14"	7	"."	3	2	"."	0	"CDK14,3_prime_UTR_variant,,ENST00000406263,NM_001287136.1;CDK14,3_prime_UTR_variant,,ENST00000380050,NM_001287137.1,NM_001287135.1;CDK14,3_prime_UTR_variant,,ENST00000265741,NM_012395.2;CDK14,downstream_gene_variant,,ENST00000436577,;"	"TC"	"ENSG00000058091"	"ENST00000265741"	"Transcript"	"3_prime_UTR_variant"	"3757-3758/4953"	"-/1356"	"-/451"	""	""	"rs149920442"	"1"	NA	1	"CDK14"	"HGNC"	8883	"protein_coding"	"YES"	"CCDS5619.1"	"ENSP00000265741"	"O94921"	"C9JWL6,C9IYJ9"	"UPI0000161B93"	"NM_012395.2"	NA	NA	"14/14"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"13"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"57f89da8-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2382"	"CCDC132"	55610	"mskcc.org"	"GRCh37"	"7"	92885515	92885516	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs5885823"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.298-306_298-305insG"	""	""	"ENST00000305866"	""	9	"."	6	2	"."	0	"CCDC132,intron_variant,,ENST00000544910,NM_001257998.1;CCDC132,intron_variant,,ENST00000305866,NM_017667.3;CCDC132,intron_variant,,ENST00000541136,;CCDC132,intron_variant,,ENST00000535481,;CCDC132,intron_variant,,ENST00000317751,;CCDC132,intron_variant,,ENST00000251739,NM_024553.2;CCDC132,intron_variant,,ENST00000458530,;CCDC132,upstream_gene_variant,,ENST00000458707,;CCDC132,intron_variant,,ENST00000441602,;CCDC132,intron_variant,,ENST00000477935,;CCDC132,intron_variant,,ENST00000436177,;CCDC132,intron_variant,,ENST00000485994,;CCDC132,intron_variant,,ENST00000438395,;CCDC132,upstream_gene_variant,,ENST00000471188,;CCDC132,upstream_gene_variant,,ENST00000495039,;CCDC132,upstream_gene_variant,,ENST00000476413,;"	"G"	"ENSG00000004766"	"ENST00000305866"	"Transcript"	"intron_variant"	"-/3613"	"-/2895"	"-/964"	""	""	"rs5885823"	"1"	NA	1	"CCDC132"	"HGNC"	25956	"protein_coding"	"YES"	"CCDS43617.1"	"ENSP00000307666"	"Q96JG6"	"A7MD03"	"UPI000015F998"	"NM_017667.3"	NA	NA	""	"4/27"	""	"-:0.0002"	"G:1"	"G:0.9986"	NA	"G:1"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"584296b0-2764-11e6-bdfe-c14a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2383"	"GNGT1"	2792	"mskcc.org"	"GRCh37"	"7"	93319732	93319734	"+"	"Intron"	"DEL"	"GGA"	"GGA"	"-"	"rs146107347"	NA	"JHCCPT1"	"JHCCPN1"	"GGA"	"GGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-56+98653_-56+98655delGAG"	""	""	"ENST00000455502"	""	9	"."	4	2	"."	0	"GNGT1,intron_variant,,ENST00000455502,;"	"-"	"ENSG00000127928"	"ENST00000455502"	"Transcript"	"intron_variant"	"-/1943"	"-/141"	"-/46"	""	""	"rs146107347"	"1"	NA	1	"GNGT1"	"HGNC"	4411	"protein_coding"	""	""	"ENSP00000395857"	""	"C9JGI9"	"UPI000048D1B3"	""	NA	NA	""	"1/3"	""	"-:0.2438"	"-:0.0719"	"-:0.2392"	NA	"-:0.2153"	"-:0.4056"	"-:0.3425"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGGAG"	"3d9bc570-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2384"	"PON1"	5444	"mskcc.org"	"GRCh37"	"7"	94940479	94940479	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs3917525"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.497+284delC"	""	""	"ENST00000222381"	""	21	"."	7	6	"."	0	"PON1,intron_variant,,ENST00000222381,NM_000446.5;PON1,intron_variant,,ENST00000542556,;PON1,intron_variant,,ENST00000433729,;PON1,downstream_gene_variant,,ENST00000470502,;"	"-"	"ENSG00000005421"	"ENST00000222381"	"Transcript"	"intron_variant"	"-/2568"	"-/1068"	"-/355"	""	""	"rs3917525"	"1"	NA	-1	"PON1"	"HGNC"	9204	"protein_coding"	"YES"	"CCDS5638.1"	"ENSP00000222381"	"P27169"	""	"UPI000013C7FD"	"NM_000446.5"	NA	NA	""	"5/8"	""	"-:0.3478"	"-:0.3843"	"-:0.2709"	NA	"-:0.5357"	"-:0.2256"	"-:0.2853"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTGG"	"3dfa2908-2764-11e6-bdfe-c14a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2385"	"BRI3"	25798	"mskcc.org"	"GRCh37"	"7"	97907610	97907611	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs766692225"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000297290"	""	7	"."	3	3	"."	0	"BRI3,upstream_gene_variant,,ENST00000297290,NM_015379.4;BRI3,upstream_gene_variant,,ENST00000539286,NM_001159491.1;BRI3,intron_variant,,ENST00000456357,;BRI3,upstream_gene_variant,,ENST00000473967,;BRI3,upstream_gene_variant,,ENST00000491463,;BRI3,upstream_gene_variant,,ENST00000474291,;"	"G"	"ENSG00000164713"	"ENST00000297290"	"Transcript"	"upstream_gene_variant"	"-/780"	"-/378"	"-/125"	""	""	"rs766692225"	"1"	"3376"	1	"BRI3"	"HGNC"	1109	"protein_coding"	"YES"	"CCDS5656.1"	"ENSP00000297290"	"O95415"	""	"UPI000012692F"	"NM_015379.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"589bb9b6-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2386"	"BAIAP2L1"	55971	"mskcc.org"	"GRCh37"	"7"	97944937	97944938	"+"	"Intron"	"INS"	"-"	"-"	"AATAAT"	"rs372695844"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.487-19_487-14dupATTATT"	""	""	"ENST00000005260"	""	26	"."	5	5	"."	0	"BAIAP2L1,intron_variant,,ENST00000005260,NM_018842.4;BAIAP2L1,intron_variant,,ENST00000462558,;BAIAP2L1,downstream_gene_variant,,ENST00000473569,;"	"AATAAT"	"ENSG00000006453"	"ENST00000005260"	"Transcript"	"intron_variant"	"-/3622"	"-/1536"	"-/511"	""	""	"rs372695844"	"1"	NA	-1	"BAIAP2L1"	"HGNC"	21649	"protein_coding"	"YES"	"CCDS34687.1"	"ENSP00000005260"	"Q9UHR4"	""	"UPI0000035DA9"	"NM_018842.4"	NA	NA	""	"6/13"	""	"AAATAAT:0.0166"	"AAATAAT:0.0605"	"AAATAAT:0.0043"	NA	"AAATAAT:0"	"AAATAAT:0"	"AAATAAT:0"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"58a3f55e-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.192307692307692	"WXS"	FALSE
"2387"	"TRIM4"	89122	"mskcc.org"	"GRCh37"	"7"	99506756	99506757	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGTGTGT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.568-331_568-322dupACACACACAC"	""	""	"ENST00000355947"	""	32	"."	3	16	"."	0	"TRIM4,intron_variant,,ENST00000355947,NM_033017.3;TRIM4,intron_variant,,ENST00000349062,NM_033091.2;TRIM4,intron_variant,,ENST00000354241,;TRIM4,intron_variant,,ENST00000447480,;TRIM4,intron_variant,,ENST00000496896,;"	"GTGTGTGTGT"	"ENSG00000146833"	"ENST00000355947"	"Transcript"	"intron_variant"	"-/3383"	"-/1503"	"-/500"	""	""	""	"1"	NA	-1	"TRIM4"	"HGNC"	16275	"protein_coding"	"YES"	"CCDS5679.1"	"ENSP00000348216"	"Q9C037"	"B4DEC5"	"UPI000013DA79"	"NM_033017.3"	NA	NA	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"58f90008-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WXS"	FALSE
"2388"	"C7orf61"	402573	"mskcc.org"	"GRCh37"	"7"	100054938	100054940	"+"	"Intron"	"DEL"	"TTC"	"TTC"	"-"	"rs144597561"	NA	"JHCCPT1"	"JHCCPN1"	"TTC"	"TTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.388-332_388-330delGAA"	""	""	"ENST00000332375"	""	12	"."	6	5	"."	0	"C7orf61,intron_variant,,ENST00000332375,NM_001004323.1;C7orf61,intron_variant,,ENST00000418952,;"	"-"	"ENSG00000185955"	"ENST00000332375"	"Transcript"	"intron_variant"	"-/1004"	"-/621"	"-/206"	""	""	"rs144597561"	"1"	NA	-1	"C7orf61"	"HGNC"	22135	"protein_coding"	"YES"	"CCDS47661.1"	"ENSP00000327732"	"Q8IZ16"	""	"UPI00000741A1"	"NM_001004323.1"	NA	NA	""	"2/2"	""	"-:0.0970"	"-:0.0386"	"-:0.1052"	NA	"-:0.119"	"-:0.1024"	"-:0.1421"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATTCT"	"3f981518-2764-11e6-bdfe-c14a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2389"	"ZAN"	7455	"mskcc.org"	"GRCh37"	"7"	100372540	100372543	"+"	"Intron"	"DEL"	"TTTT"	"TTTT"	"-"	"rs34372256"	NA	"JHCCPT1"	"JHCCPN1"	"TTTT"	"TTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5777-408_5777-405delTTTT"	""	""	"ENST00000546292"	""	7	"."	4	1	"."	0	"ZAN,intron_variant,,ENST00000542585,NM_003386.1;ZAN,intron_variant,,ENST00000538115,;ZAN,intron_variant,,ENST00000546292,NM_173059.1;ZAN,intron_variant,,ENST00000546213,;ZAN,intron_variant,,ENST00000427578,;ZAN,intron_variant,,ENST00000449052,;ZAN,intron_variant,,ENST00000349350,;ZAN,intron_variant,,ENST00000443370,;ZAN,intron_variant,,ENST00000421100,;ZAN,intron_variant,,ENST00000348028,;"	"-"	"ENSG00000146839"	"ENST00000546292"	"Transcript"	"intron_variant"	"-/8375"	"-/8163"	"-/2720"	""	""	"rs34372256"	"1"	NA	1	"ZAN"	"HGNC"	12857	"protein_coding"	"YES"	""	"ENSP00000445943"	""	"F5H0T8"	"UPI00004575C6"	"NM_173059.1"	NA	NA	""	"31/45"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTTTTT"	"40093842-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2390"	"SLC12A9"	56996	"mskcc.org"	"GRCh37"	"7"	100450407	100450408	"+"	"5'UTR"	"INS"	"-"	"G"	"G"	"rs72578591"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-92dupG"	""	""	"ENST00000354161"	"1/14"	10	"."	7	3	"."	0	"SLC12A9,5_prime_UTR_variant,,ENST00000354161,NM_020246.3;SLC12A9,5_prime_UTR_variant,,ENST00000540482,NM_001267812.1;SLC12A9,5_prime_UTR_variant,,ENST00000428758,;SLC12A9,5_prime_UTR_variant,,ENST00000415287,NM_001267814.1;SLC12A9,5_prime_UTR_variant,,ENST00000275729,;SLC12A9,5_prime_UTR_variant,,ENST00000418037,;SLC12A9,5_prime_UTR_variant,,ENST00000416675,;SLC12A9,upstream_gene_variant,,ENST00000434158,;RP11-126L15.4,upstream_gene_variant,,ENST00000412754,;SLC12A9,intron_variant,,ENST00000461016,;SLC12A9,5_prime_UTR_variant,,ENST00000448342,;SLC12A9,non_coding_transcript_exon_variant,,ENST00000462106,;SLC12A9,upstream_gene_variant,,ENST00000467972,;SLC12A9,upstream_gene_variant,,ENST00000475687,;SLC12A9,upstream_gene_variant,,ENST00000497958,;"	"G"	"ENSG00000146828"	"ENST00000354161"	"Transcript"	"5_prime_UTR_variant"	"33-34/3273"	"-/2745"	"-/914"	""	""	"rs72578591"	"1"	NA	1	"SLC12A9"	"HGNC"	17435	"protein_coding"	"YES"	"CCDS5707.1"	"ENSP00000275730"	"Q9BXP2"	"D6W5X5,D6W5X3,C9JMQ7,C9J0I5"	"UPI000006CD28"	"NM_020246.3"	NA	NA	"1/14"	""	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"593fc5c4-2764-11e6-bdfe-c14a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"2391"	"RP11-132A1.3"	101927721	"mskcc.org"	"GRCh37"	"7"	100947504	100947505	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"rs35726333"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000429254"	""	9	"."	3	3	"."	0	"RP11-132A1.3,downstream_gene_variant,,ENST00000429254,;RP11-132A1.4,upstream_gene_variant,,ENST00000419422,;"	"A"	"ENSG00000232301"	"ENST00000429254"	"Transcript"	"downstream_gene_variant"	"-/756"	""	""	""	""	"rs35726333"	"1"	"2953"	1	"RP11-132A1.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4279"	"A:0.7239"	"A:0.5706"	NA	"A:0.6468"	"A:0.4662"	"A:0.3998"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"599cda48-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2392"	"COL26A1"	136227	"mskcc.org"	"GRCh37"	"7"	101044808	101044809	"+"	"Intron"	"INS"	"-"	"-"	"GAG"	"rs527448294"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.159-18449_159-18447dupGAG"	""	""	"ENST00000313669"	""	16	"."	3	6	"."	0	"COL26A1,intron_variant,,ENST00000313669,NM_001278563.1,NM_133457.3;COL26A1,intron_variant,,ENST00000397927,;COL26A1,intron_variant,,ENST00000528707,;"	"GAG"	"ENSG00000160963"	"ENST00000313669"	"Transcript"	"intron_variant"	"-/3007"	"-/1323"	"-/440"	""	""	"rs527448294"	"1"	NA	1	"COL26A1"	"HGNC"	18038	"protein_coding"	"YES"	""	"ENSP00000318234"	""	"C9JPW4"	"UPI00004575C9"	"NM_001278563.1,NM_133457.3"	NA	NA	""	"1/13"	""	"GAG:0.2847"	"GAG:0.5061"	"GAG:0.219"	NA	"GAG:0.0536"	"GAG:0.3221"	"GAG:0.2321"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"59a2325e-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"2393"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	101287396	101287396	"+"	"IGR"	"DEL"	"A"	"-"	"-"	"rs56284860"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	6	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs56284860"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.0134"	"-:1"	"-:0.9798"	NA	"-:0.999"	"-:0.9563"	"-:0.9918"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"40b6d574-2764-11e6-bdfe-c14a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"2394"	"SH2B2"	10603	"mskcc.org"	"GRCh37"	"7"	101950546	101950547	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs11411430,rs77561028"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.960+444dupC"	""	""	"ENST00000536178"	""	8	"."	4	3	"."	0	"SH2B2,intron_variant,,ENST00000536178,;SH2B2,intron_variant,,ENST00000306803,;SH2B2,intron_variant,,ENST00000444095,;"	"C"	"ENSG00000160999"	"ENST00000536178"	"Transcript"	"intron_variant"	"-/2061"	"-/2016"	"-/671"	""	""	"rs11411430,rs77561028"	"1"	NA	1	"SH2B2"	"HGNC"	17381	"protein_coding"	"YES"	""	"ENSP00000440273"	""	"F5GY53,C9JK89"	"UPI0002064F59"	""	NA	NA	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"59e8d97a-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2395"	"CBLL1"	79872	"mskcc.org"	"GRCh37"	"7"	107392892	107392893	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.182-947_182-946delGT"	""	""	"ENST00000440859"	""	115	"."	4	55	"."	0	"CBLL1,intron_variant,,ENST00000440859,NM_024814.2;CBLL1,intron_variant,,ENST00000222597,NM_001284291.1;CBLL1,intron_variant,,ENST00000420796,;CBLL1,intron_variant,,ENST00000415884,;CBLL1,intron_variant,,ENST00000493361,;CBLL1,intron_variant,,ENST00000432748,;CBLL1,intron_variant,,ENST00000487517,;CBLL1,downstream_gene_variant,,ENST00000479443,;"	"-"	"ENSG00000105879"	"ENST00000440859"	"Transcript"	"intron_variant"	"-/4432"	"-/1476"	"-/491"	""	""	""	"1"	NA	1	"CBLL1"	"HGNC"	21225	"protein_coding"	"YES"	"CCDS5747.1"	"ENSP00000401277"	"Q75N03"	"C9J2P9,B4DDV7"	"UPI000006E5AC"	"NM_024814.2"	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"42733c68-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0347826086956522	"WXS"	FALSE
"2396"	"NRCAM"	4897	"mskcc.org"	"GRCh37"	"7"	107835895	107835896	"+"	"Intron"	"INS"	"-"	"-"	"TCTCTCTAT"	"rs113062231"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1463+309_1463+310insATAGAGAGA"	""	""	"ENST00000379028"	""	19	"."	7	5	"."	0	"NRCAM,intron_variant,,ENST00000379028,;NRCAM,intron_variant,,ENST00000413765,;NRCAM,intron_variant,,ENST00000351718,NM_005010.4;NRCAM,intron_variant,,ENST00000379024,NM_001193582.1,NM_001193584.1,NM_001193583.1;NRCAM,intron_variant,,ENST00000379022,;NRCAM,intron_variant,,ENST00000425651,NM_001037132.2;NRCAM,downstream_gene_variant,,ENST00000417701,;"	"TCTCTCTAT"	"ENSG00000091129"	"ENST00000379028"	"Transcript"	"intron_variant"	"-/6659"	"-/3915"	"-/1304"	""	""	"rs113062231"	"1"	NA	-1	"NRCAM"	"HGNC"	7994	"protein_coding"	"YES"	"CCDS47686.1"	"ENSP00000368314"	"Q92823"	"C9JUR7,C9JF43,B3KRX0"	"UPI00005E2661"	""	NA	NA	""	"15/32"	""	"-:0.3011"	"TCTCTCTAT:0.441"	"TCTCTCTAT:0.8012"	NA	"TCTCTCTAT:0.8839"	"TCTCTCTAT:0.7992"	"TCTCTCTAT:0.681"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"5aa3dcb6-2764-11e6-bdfe-c14a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.368421052631579	"WXS"	FALSE
"2397"	"FLJ00325"	0	"mskcc.org"	"GRCh37"	"7"	108536294	108536295	"+"	"3'Flank"	"INS"	"-"	"-"	"AAGG"	"rs113476005"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000602237"	""	8	"."	4	1	"."	0	"FLJ00325,downstream_gene_variant,,ENST00000602237,;"	"AAGG"	"ENSG00000269185"	"ENST00000602237"	"Transcript"	"downstream_gene_variant"	"-/267"	"-/267"	"-/89"	""	""	"rs113476005"	"1"	"4094"	-1	"FLJ00325"	"Uniprot_gn"	NA	"protein_coding"	"YES"	""	"ENSP00000470212"	""	"Q8NF62"	"UPI000006D4D3"	""	NA	NA	""	""	""	"-:0.2572"	"AAGG:0.7769"	"AAGG:0.7608"	NA	"AAGG:0.747"	"AAGG:0.7604"	"AAGG:0.6616"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"5ab5144a-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2398"	"DOCK4"	9732	"mskcc.org"	"GRCh37"	"7"	111382613	111382613	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs57736716"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4651-425delG"	""	""	"ENST00000437633"	""	9	"."	4	1	"."	0	"DOCK4,intron_variant,,ENST00000428084,;DOCK4,intron_variant,,ENST00000423057,;DOCK4,intron_variant,,ENST00000437633,NM_014705.3;DOCK4,intron_variant,,ENST00000445943,;DOCK4,intron_variant,,ENST00000494651,;DOCK4,upstream_gene_variant,,ENST00000486186,;"	"-"	"ENSG00000128512"	"ENST00000437633"	"Transcript"	"intron_variant"	"-/6212"	"-/5901"	"-/1966"	""	""	"rs57736716"	"1"	NA	-1	"DOCK4"	"HGNC"	19192	"protein_coding"	"YES"	"CCDS47688.1"	"ENSP00000404179"	"Q8N1I0"	"Q75MU6"	"UPI0000D5BB0D"	"NM_014705.3"	NA	NA	""	"43/51"	""	"C:0.0525"	"-:0.9319"	"-:0.9669"	NA	"-:0.9683"	"-:0.9642"	"-:0.9162"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"42e54b1e-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2399"	"FOXP2"	93986	"mskcc.org"	"GRCh37"	"7"	114303617	114303617	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs757265345"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1914+43delC"	""	""	"ENST00000408937"	""	187	"."	3	90	"."	0	"FOXP2,intron_variant,,ENST00000393500,;FOXP2,intron_variant,,ENST00000408937,NM_014491.3,NM_148898.3,NM_001172766.2;FOXP2,intron_variant,,ENST00000403559,NM_148900.3;FOXP2,intron_variant,,ENST00000393494,;FOXP2,intron_variant,,ENST00000350908,;FOXP2,intron_variant,,ENST00000393498,;FOXP2,intron_variant,,ENST00000393489,;FOXP2,intron_variant,,ENST00000393491,;FOXP2,intron_variant,,ENST00000441290,;FOXP2,intron_variant,,ENST00000412402,;"	"-"	"ENSG00000128573"	"ENST00000408937"	"Transcript"	"intron_variant"	"-/6443"	"-/2223"	"-/740"	""	""	"rs757265345"	"1"	NA	1	"FOXP2"	"HGNC"	13875	"protein_coding"	"YES"	"CCDS43635.1"	"ENSP00000386200"	"O15409"	""	"UPI000007412B"	"NM_014491.3,NM_148898.3,NM_001172766.2"	NA	NA	""	"16/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.0002079"	"0"	"0"	"0.0001427"	"0.0001699"	"0.0002973"	"0"	"0"	"1"	"common_variant"	"GGCT"	"43446b30-2764-11e6-bdfe-c14a424a729f"	"180"	0.000161	"14/86974"	"22/105812"	"0/8030"	"0/9900"	"1/7008"	"1/5886"	"12/40370"	"0/588"	"0/15192"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.0160427807486631	"WXS"	FALSE
"2400"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	115016616	115016618	"+"	"IGR"	"DEL"	"AAG"	"AAG"	"-"	"rs146488021"	NA	"JHCCPT1"	"JHCCPN1"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs146488021"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0843"	"-:0.0061"	"-:0.1484"	NA	"-:0.0417"	"-:0.172"	"-:0.0982"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAGA"	"4357f240-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2401"	"TES"	26136	"mskcc.org"	"GRCh37"	"7"	115897792	115897793	"+"	"3'UTR"	"INS"	"-"	"-"	"AG"	"rs3030648"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*256_*257insAG"	""	""	"ENST00000358204"	"7/7"	14	"."	4	7	"."	0	"TES,3_prime_UTR_variant,,ENST00000358204,NM_015641.3;TES,3_prime_UTR_variant,,ENST00000393481,NM_152829.2;TES,downstream_gene_variant,,ENST00000537767,;AC073130.3,intron_variant,,ENST00000444244,;AC002066.1,intron_variant,,ENST00000446355,;TES,downstream_gene_variant,,ENST00000492891,;TES,downstream_gene_variant,,ENST00000496912,;"	"AG"	"ENSG00000135269"	"ENST00000358204"	"Transcript"	"3_prime_UTR_variant"	"1737-1738/2782"	"-/1266"	"-/421"	""	""	"rs3030648"	"1"	NA	1	"TES"	"HGNC"	14620	"protein_coding"	"YES"	"CCDS5763.1"	"ENSP00000350937"	"Q9UGI8"	"A4D0U5,Q9Y423,F8W7T0,B7Z6L5"	"UPI0000136BF9"	"NM_015641.3"	NA	NA	"7/7"	""	""	"AG:0.3988"	"AG:0.41"	"AG:0.3617"	NA	"AG:0.5685"	"AG:0.2952"	"AG:0.3415"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"5aec2c28-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"2402"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	121131487	121131488	"+"	"IGR"	"INS"	"-"	"-"	"TTC"	"rs148887616"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	3	"."	0	""	"TTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148887616"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"5b1d7bac-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2403"	"WASL"	8976	"mskcc.org"	"GRCh37"	"7"	123361936	123361937	"+"	"Intron"	"INS"	"-"	"-"	"TAACT"	"rs144410836"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.118-12660_118-12659insAGTTA"	""	""	"ENST00000223023"	""	6	"."	4	1	"."	0	"WASL,intron_variant,,ENST00000223023,NM_003941.3;"	"TAACT"	"ENSG00000106299"	"ENST00000223023"	"Transcript"	"intron_variant"	"-/4435"	"-/1518"	"-/505"	""	""	"rs144410836"	"1"	NA	-1	"WASL"	"HGNC"	12735	"protein_coding"	"YES"	"CCDS34743.1"	"ENSP00000223023"	"O00401"	""	"UPI000013C821"	"NM_003941.3"	NA	NA	""	"1/10"	""	"-:0.4950"	"TAACT:0.3971"	"TAACT:0.4337"	NA	"TAACT:0.5575"	"TAACT:0.4404"	"TAACT:0.7137"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"5b541630-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2404"	"RP11-807H17.1"	0	"mskcc.org"	"GRCh37"	"7"	125102949	125102950	"+"	"3'Flank"	"INS"	"-"	"-"	"T"	"rs59886028"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000453278"	""	16	"."	3	5	"."	0	"RP11-807H17.1,intron_variant,,ENST00000458437,;RP11-807H17.1,downstream_gene_variant,,ENST00000453278,;RP11-807H17.1,downstream_gene_variant,,ENST00000415896,;"	"T"	"ENSG00000227869"	"ENST00000453278"	"Transcript"	"downstream_gene_variant"	"-/531"	""	""	""	""	"rs59886028"	"1"	"1284"	1	"RP11-807H17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"5b682fbc-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"2405"	"RP11-807H17.1"	0	"mskcc.org"	"GRCh37"	"7"	125109099	125109099	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"rs113519718"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000458437"	""	10	"."	4	1	"."	0	"RP11-807H17.1,downstream_gene_variant,,ENST00000458437,;"	"-"	"ENSG00000227869"	"ENST00000458437"	"Transcript"	"downstream_gene_variant"	"-/489"	""	""	""	""	"rs113519718"	"1"	"2644"	1	"RP11-807H17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3688"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCGG"	"44be6664-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2406"	"GRM8"	2918	"mskcc.org"	"GRCh37"	"7"	126342397	126342398	"+"	"Intron"	"DEL"	"AC"	"-"	"-"	"rs147492469"	NA	"JHCCPT1"	"JHCCPN1"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1357+67521_1357+67522delGT"	""	""	"ENST00000339582"	""	7	"."	5	1	"."	0	"GRM8,intron_variant,,ENST00000339582,;GRM8,intron_variant,,ENST00000358373,NM_001127323.1;GRM8,intron_variant,,ENST00000444921,NM_000845.2;GRM8,intron_variant,,ENST00000405249,;GRM8,intron_variant,,ENST00000480995,;GRM8,intron_variant,,ENST00000472701,;GRM8,intron_variant,,ENST00000341617,;"	"-"	"ENSG00000179603"	"ENST00000339582"	"Transcript"	"intron_variant"	"-/4057"	"-/2727"	"-/908"	""	""	"rs147492469"	"1"	NA	-1	"GRM8"	"HGNC"	4600	"protein_coding"	"YES"	"CCDS5794.1"	"ENSP00000344173"	"O00222"	"E7ETK3,C9J7I1"	"UPI000012F085"	""	NA	NA	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAACC"	"44e115ec-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2407"	"SND1"	27044	"mskcc.org"	"GRCh37"	"7"	127341569	127341570	"+"	"Intron"	"INS"	"-"	"-"	"AGATACATTCTGCAGAAGCT"	"rs11274961"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.589+195_589+214dupATACATTCTGCAGAAGCTAG"	""	""	"ENST00000354725"	""	27	"."	3	13	"."	0	"SND1,intron_variant,,ENST00000354725,NM_014390.2;SND1,intron_variant,,ENST00000483503,;SND1,intron_variant,,ENST00000492772,;SND1,downstream_gene_variant,,ENST00000461056,;SND1,downstream_gene_variant,,ENST00000468621,;"	"AGATACATTCTGCAGAAGCT"	"ENSG00000197157"	"ENST00000354725"	"Transcript"	"intron_variant"	"-/3476"	"-/2733"	"-/910"	""	""	"rs11274961"	"1"	NA	1	"SND1"	"HGNC"	30646	"protein_coding"	"YES"	"CCDS34747.1"	"ENSP00000346762"	"Q7KZF4"	"B2R5U1"	"UPI00000727E5"	"NM_014390.2"	NA	NA	""	"5/23"	""	"AGATACATTCTGCAGAAGCT:0.0046"	"AGATACATTCTGCAGAAGCT:0.0136"	"AGATACATTCTGCAGAAGCT:0"	NA	"AGATACATTCTGCAGAAGCT:0"	"AGATACATTCTGCAGAAGCT:0.001"	"AGATACATTCTGCAGAAGCT:0.0041"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"22"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"5b803260-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WXS"	TRUE
"2408"	"KCP"	0	"mskcc.org"	"GRCh37"	"7"	128525692	128525692	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs145340005"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2910-368delA"	""	""	"ENST00000476647"	""	12	"."	3	4	"."	0	"KCP,intron_variant,,ENST00000476647,;KCP,intron_variant,,ENST00000441244,;KCP,intron_variant,,ENST00000297801,;KCP,downstream_gene_variant,,ENST00000487494,;KCP,downstream_gene_variant,,ENST00000479474,;KCP,upstream_gene_variant,,ENST00000492679,;"	"-"	"ENSG00000135253"	"ENST00000476647"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/5108"	""	""	""	""	"rs145340005"	"1"	NA	-1	"KCP"	"HGNC"	17585	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"26/39"	""	"-:0.1198"	"-:0.0212"	"-:0.1657"	NA	"-:0.0119"	"-:0.2932"	"-:0.1534"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTC"	"455e9652-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2409"	"RP11-286H14.4"	407835	"mskcc.org"	"GRCh37"	"7"	128766773	128766804	"+"	"RNA"	"DEL"	"GACGATGACTTCGAAAGGACCTCAGAGCTGGA"	"GACGATGACTTCGAAAGGACCTCAGAGCTGGA"	"AGAACCCCGC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GACGATGACTTCGAAAGGACCTCAGAGCTGGA"	"GACGATGACTTCGAAAGGACCTCAGAGCTGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.202_233delGACGATGACTTCGAAAGGACCTCAGAGCTGGAinsAGAACCCCGC"	""	""	"ENST00000467614"	"1/1"	469	"."	54	289	"."	0	"RP11-286H14.4,upstream_gene_variant,,ENST00000471777,;RP11-286H14.4,non_coding_transcript_exon_variant,,ENST00000467614,;"	"AGAACCCCGC"	"ENSG00000230626"	"ENST00000467614"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"202-233/1200"	""	""	""	""	""	"1"	NA	1	"RP11-286H14.4"	"Clone_based_vega_gene"	NA	"transcribed_processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGACGATGACTTCGAAAGGACCTCAGAGCTGGAC"	"4de25fa2-2764-11e6-bdfe-c14a424a729f"	"3240"	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL95.00to96.00"	"FALSE"	0.115138592750533	"WXS"	FALSE
"2410"	"RP11-286H14.4"	407835	"mskcc.org"	"GRCh37"	"7"	128766773	128766804	"+"	"RNA"	"DEL"	"GACGATGACTTCGAAAGGACCTCAGAGCTGGA"	"GACGATGACTTCGAAAGGACCTCAGAGCTGGA"	"AGAACCCCGC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GACGATGACTTCGAAAGGACCTCAGAGCTGGA"	"GACGATGACTTCGAAAGGACCTCAGAGCTGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.202_233delGACGATGACTTCGAAAGGACCTCAGAGCTGGAinsAGAACCCCGC"	""	""	"ENST00000467614"	"1/1"	467	"."	42	289	"."	0	"RP11-286H14.4,upstream_gene_variant,,ENST00000471777,;RP11-286H14.4,non_coding_transcript_exon_variant,,ENST00000467614,;"	"AGAACCCCGC"	"ENSG00000230626"	"ENST00000467614"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"202-233/1200"	""	""	""	""	""	"1"	NA	1	"RP11-286H14.4"	"Clone_based_vega_gene"	NA	"transcribed_processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGACGATGACTTCGAAAGGACCTCAGAGCTGGAC"	"4e088a7e-2764-11e6-bdfe-c14a424a729f"	"2017"	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL95.00to96.00"	"FALSE"	0.0899357601713062	"WXS"	FALSE
"2411"	"RP11-286H14.4"	407835	"mskcc.org"	"GRCh37"	"7"	128766773	128766804	"+"	"RNA"	"DEL"	"GACGATGACTTCGAAAGGACCTCAGAGCTGGA"	"GACGATGACTTCGAAAGGACCTCAGAGCTGGA"	"AGAACCCCGC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GACGATGACTTCGAAAGGACCTCAGAGCTGGA"	"GACGATGACTTCGAAAGGACCTCAGAGCTGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.202_233delGACGATGACTTCGAAAGGACCTCAGAGCTGGAinsAGAACCCCGC"	""	""	"ENST00000467614"	"1/1"	451	"."	31	289	"."	0	"RP11-286H14.4,upstream_gene_variant,,ENST00000471777,;RP11-286H14.4,non_coding_transcript_exon_variant,,ENST00000467614,;"	"AGAACCCCGC"	"ENSG00000230626"	"ENST00000467614"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"202-233/1200"	""	""	""	""	""	"1"	NA	1	"RP11-286H14.4"	"Clone_based_vega_gene"	NA	"transcribed_processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGACGATGACTTCGAAAGGACCTCAGAGCTGGAC"	"4e0978b2-2764-11e6-bdfe-c14a424a729f"	"1709"	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL95.00to96.00"	"FALSE"	0.0687361419068736	"WXS"	FALSE
"2412"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	129869638	129869638	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs56253739"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	6	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs56253739"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0821"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"45da0f9e-2764-11e6-bdfe-c14a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2413"	"MIR29A"	646329	"mskcc.org"	"GRCh37"	"7"	130581616	130581617	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs10622895"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.404-12463_404-12462dupTT"	""	""	"ENST00000432045"	""	7	"."	4	1	"."	0	"MIR29A,intron_variant,,ENST00000432045,;AC016831.7,intron_variant,,ENST00000447430,;MIR29A,intron_variant,,ENST00000447307,;MIR29A,intron_variant,,ENST00000418546,;"	"AA"	"ENSG00000226380"	"ENST00000432045"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/6411"	""	""	""	""	"rs10622895"	"1"	NA	-1	"MIR29A"	"HGNC"	31616	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	"AA:0.3385"	"AA:0.4841"	"AA:0.3718"	NA	"AA:0.3155"	"AA:0.2883"	"AA:0.1933"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"5c0c14a6-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2414"	"LINC-PINT"	0	"mskcc.org"	"GRCh37"	"7"	130794804	130794805	"+"	"RNA"	"INS"	"-"	"-"	"GGCGGC"	"rs139750586"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.126_131dupGCCGCC"	""	""	"ENST00000451786"	"1/6"	40	"."	13	11	"."	0	"MKLN1,upstream_gene_variant,,ENST00000421797,NM_001145354.1;MKLN1,upstream_gene_variant,,ENST00000416992,;LINC-PINT,non_coding_transcript_exon_variant,,ENST00000451786,;LINC-PINT,upstream_gene_variant,,ENST00000433079,;LINC-PINT,upstream_gene_variant,,ENST00000431189,;LINC-PINT,upstream_gene_variant,,ENST00000423414,;LINC-PINT,upstream_gene_variant,,ENST00000429901,;"	"GGCGGC"	"ENSG00000231721"	"ENST00000451786"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"131-132/3505"	""	""	""	""	"rs139750586"	"1"	NA	-1	"LINC-PINT"	"HGNC"	26885	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	"1/6"	""	""	"-:0.0210"	"GGCGGC:0.944"	"GGCGGC:0.9899"	NA	"GGCGGC:0.995"	"GGCGGC:0.9901"	"GGCGGC:0.9908"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"5c0f6fe8-2764-11e6-bdfe-c14a424a729f"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325	"WXS"	FALSE
"2415"	"PODXL"	5420	"mskcc.org"	"GRCh37"	"7"	131229397	131229416	"+"	"Intron"	"DEL"	"CGCACGCACGCCCTGTACTA"	"-"	"-"	"rs66675436"	NA	"JHCCPT1"	"JHCCPN1"	"CGCACGCACGCCCTGTACTA"	"CGCACGCACGCCCTGTACTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.100+11603_100+11622delTAGTACAGGGCGTGCGTGCG"	""	""	"ENST00000378555"	""	6	"."	5	2	"."	0	"PODXL,intron_variant,,ENST00000541194,NM_001018111.2;PODXL,intron_variant,,ENST00000537928,;PODXL,intron_variant,,ENST00000378555,;PODXL,intron_variant,,ENST00000322985,NM_005397.3;PODXL,intron_variant,,ENST00000465001,;PODXL,intron_variant,,ENST00000446198,;"	"-"	"ENSG00000128567"	"ENST00000378555"	"Transcript"	"intron_variant"	"-/2105"	"-/1677"	"-/558"	""	""	"rs66675436"	"1"	NA	-1	"PODXL"	"HGNC"	9171	"protein_coding"	"YES"	"CCDS34755.1"	"ENSP00000367817"	"O00592"	""	"UPI000042467C"	""	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCGCACGCACGCCCTGTACTAC"	"4662233e-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2416"	"AGBL3"	340351	"mskcc.org"	"GRCh37"	"7"	134761552	134761555	"+"	"Intron"	"DEL"	"AGTG"	"AGTG"	"TA"	"rs386718090"	NA	"JHCCPT1"	"JHCCPN1"	"AGTG"	"AGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1980+332_1980+335delAGTGinsTA"	""	""	"ENST00000436302"	""	23	"."	3	7	"."	0	"AGBL3,intron_variant,,ENST00000458078,;AGBL3,intron_variant,,ENST00000436302,NM_178563.3;AGBL3,intron_variant,,ENST00000435976,;AGBL3,intron_variant,,ENST00000275763,;"	"TA"	"ENSG00000146856"	"ENST00000436302"	"Transcript"	"intron_variant"	"-/3533"	"-/2763"	"-/920"	""	""	"rs386718090"	"1"	NA	1	"AGBL3"	"HGNC"	27981	"protein_coding"	"YES"	"CCDS47718.1"	"ENSP00000388275"	"Q8NEM8"	""	"UPI000192952B"	"NM_178563.3"	NA	NA	""	"13/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGTGG"	"4e0bc644-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"2417"	"CNOT4"	4850	"mskcc.org"	"GRCh37"	"7"	135170429	135170430	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11464295"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-93+24207dupA"	""	""	"ENST00000541284"	""	6	"."	4	1	"."	0	"CNOT4,intron_variant,,ENST00000428680,NM_001008225.2;CNOT4,intron_variant,,ENST00000315544,NM_001190848.1;CNOT4,intron_variant,,ENST00000541284,NM_001190849.1,NM_001190850.1;CNOT4,intron_variant,,ENST00000451834,;CNOT4,intron_variant,,ENST00000423368,NM_001190847.1,NM_013316.3;CNOT4,intron_variant,,ENST00000361528,;CNOT4,intron_variant,,ENST00000356162,;CNOT4,intron_variant,,ENST00000465721,;CNOT4,intron_variant,,ENST00000491203,;CNOT4,intron_variant,,ENST00000498534,;"	"T"	"ENSG00000080802"	"ENST00000541284"	"Transcript"	"intron_variant"	"-/3563"	"-/2142"	"-/713"	""	""	"rs11464295"	"1"	NA	-1	"CNOT4"	"HGNC"	7880	"protein_coding"	"YES"	"CCDS55165.1"	"ENSP00000445508"	"O95628"	""	"UPI00004166A8"	"NM_001190849.1,NM_001190850.1"	NA	NA	""	"1/11"	""	"-:0.0000"	"T:1"	"T:1"	NA	"T:1"	"T:1"	"T:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"5c69607a-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2418"	"AC024084.1"	0	"mskcc.org"	"GRCh37"	"7"	135749134	135749135	"+"	"Intron"	"INS"	"-"	"-"	"CC"	"rs201896570"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.174+5882_174+5883insCC"	""	""	"ENST00000440744"	""	11	"."	4	3	"."	0	"AC024084.1,intron_variant,,ENST00000440744,;"	"CC"	"ENSG00000230649"	"ENST00000440744"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/455"	""	""	""	""	"rs201896570"	"1"	NA	1	"AC024084.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"5c7b47d6-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2419"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	137050409	137050413	"+"	"IGR"	"DEL"	"CTTTA"	"CTTTA"	"-"	"rs72484380"	NA	"JHCCPT1"	"JHCCPN1"	"CTTTA"	"CTTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs72484380"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CTTTA:0.3079"	"-:0.7814"	"-:0.634"	NA	"-:0.6855"	"-:0.6471"	"-:0.6656"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTTTAC"	"475ae366-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2420"	"DGKI"	9162	"mskcc.org"	"GRCh37"	"7"	137347287	137347287	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs56054778"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.607-6001delG"	""	""	"ENST00000288490"	""	10	"."	4	1	"."	0	"DGKI,intron_variant,,ENST00000453654,;DGKI,intron_variant,,ENST00000424189,;DGKI,intron_variant,,ENST00000446122,;DGKI,intron_variant,,ENST00000288490,NM_004717.2;DGKI,intron_variant,,ENST00000470895,;"	"-"	"ENSG00000157680"	"ENST00000288490"	"Transcript"	"intron_variant"	"-/3895"	"-/3198"	"-/1065"	""	""	"rs56054778"	"1"	NA	-1	"DGKI"	"HGNC"	2855	"protein_coding"	"YES"	"CCDS5845.1"	"ENSP00000288490"	"O75912"	"B3KR69"	"UPI000012DD23"	"NM_004717.2"	NA	NA	""	"3/33"	""	"C:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCC"	"4775e9ae-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2421"	"ATP6V0A4"	50617	"mskcc.org"	"GRCh37"	"7"	138453891	138453892	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.196+26_196+27delCT"	""	""	"ENST00000310018"	""	180	"."	4	93	"."	0	"ATP6V0A4,intron_variant,,ENST00000310018,NM_020632.2,NM_130840.2;ATP6V0A4,intron_variant,,ENST00000393054,NM_130841.2;ATP6V0A4,intron_variant,,ENST00000353492,;ATP6V0A4,intron_variant,,ENST00000483139,;"	"-"	"ENSG00000105929"	"ENST00000310018"	"Transcript"	"intron_variant"	"-/3135"	"-/2523"	"-/840"	""	""	""	"1"	NA	-1	"ATP6V0A4"	"HGNC"	866	"protein_coding"	"YES"	"CCDS5849.1"	"ENSP00000308122"	"Q9HBG4"	""	"UPI000013CDFD"	"NM_020632.2,NM_130840.2"	NA	NA	""	"4/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAAGA"	"47d237b8-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0222222222222222	"WXS"	FALSE
"2422"	"RAB19"	401409	"mskcc.org"	"GRCh37"	"7"	140105011	140105012	"+"	"Intron"	"INS"	"-"	"TTTG"	"TTTG"	"rs71520092"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-24+1014_-24+1017dupGTTT"	""	""	"ENST00000537763"	""	10	"."	7	2	"."	0	"RAB19,intron_variant,,ENST00000275874,;RAB19,intron_variant,,ENST00000537763,NM_001008749.2;RAB19,intron_variant,,ENST00000495590,;RAB19,upstream_gene_variant,,ENST00000356407,;SLC37A3,upstream_gene_variant,,ENST00000491505,;SLC37A3,upstream_gene_variant,,ENST00000493423,;"	"TTTG"	"ENSG00000146955"	"ENST00000537763"	"Transcript"	"intron_variant"	"-/952"	"-/654"	"-/217"	""	""	"rs71520092"	"1"	NA	1	"RAB19"	"HGNC"	19982	"protein_coding"	"YES"	"CCDS34762.2"	"ENSP00000440167"	"A4D1S5"	"C9JJQ5"	"UPI000013DA89"	"NM_001008749.2"	NA	NA	""	"1/3"	""	"TTTG:0.4179"	"TTTG:0.4115"	"TTTG:0.4539"	NA	"TTTG:0.4712"	"TTTG:0.339"	"TTTG:0.4274"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"23"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"5cb6e138-2764-11e6-bdfe-c14a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"2423"	"BRAF"	673	"mskcc.org"	"GRCh37"	"7"	140434597	140434598	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAAAAAAAAAAAAAAAAAAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2128-28_2128-27insTTTTTTTTTTTTTTTTTTTTTTTTT"	""	""	"ENST00000288602"	""	53	"."	3	11	"."	0	"BRAF,intron_variant,,ENST00000496384,;BRAF,intron_variant,,ENST00000288602,NM_004333.4;BRAF,intron_variant,,ENST00000497784,;BRAF,intron_variant,,ENST00000479537,;"	"AAAAAAAAAAAAAAAAAAAAAAAAA"	"ENSG00000157764"	"ENST00000288602"	"Transcript"	"intron_variant"	"-/2480"	"-/2301"	"-/766"	""	""	""	"1"	NA	-1	"BRAF"	"HGNC"	1097	"protein_coding"	"YES"	"CCDS5863.1"	"ENSP00000288602"	"P15056"	"Q75MQ8,E5FF37,D7PBN4"	"UPI000013DF26"	"NM_004333.4"	NA	NA	""	"17/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"5cc58710-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.0566037735849057	"WXS"	TRUE
"2424"	"MGAM"	8972	"mskcc.org"	"GRCh37"	"7"	141763016	141763017	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11461388"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4258-273dupA"	""	""	"ENST00000549489"	""	20	"."	3	8	"."	0	"MGAM,intron_variant,,ENST00000475668,;MGAM,intron_variant,,ENST00000549489,NM_004668.2;"	"A"	"ENSG00000257335"	"ENST00000549489"	"Transcript"	"intron_variant"	"-/6525"	"-/5574"	"-/1857"	""	""	"rs11461388"	"1"	NA	1	"MGAM"	"HGNC"	7043	"protein_coding"	"YES"	"CCDS47727.1"	"ENSP00000447378"	"O43451"	"Q8TE25,E9PEQ5,E7EW87"	"UPI000183CB7B"	"NM_004668.2"	NA	NA	""	"35/47"	""	"-:0.4453"	"A:0.3064"	"A:0.4207"	NA	"A:0.8274"	"A:0.5716"	"A:0.6871"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"5cead790-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"2425"	"RP11-1220K2.2"	0	"mskcc.org"	"GRCh37"	"7"	141901782	141901790	"+"	"Intron"	"DEL"	"AAAGCAATT"	"AAAGCAATT"	"-"	"rs147873909"	NA	"JHCCPT1"	"JHCCPN1"	"AAAGCAATT"	"AAAGCAATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5137+2025_5137+2033delAGCAATTAA"	""	""	"ENST00000477922"	""	15	"."	6	2	"."	0	"RP11-1220K2.2,intron_variant,,ENST00000477922,;RP11-1220K2.2,intron_variant,,ENST00000496337,;"	"-"	"ENSG00000257743"	"ENST00000477922"	"Transcript"	"intron_variant"	"-/7867"	"-/7548"	"-/2515"	""	""	"rs147873909"	"1"	NA	1	"RP11-1220K2.2"	"Clone_based_vega_gene"	NA	"protein_coding"	""	""	"ENSP00000420449"	""	"C9JNC2"	"UPI0002B8321D"	""	NA	NA	""	"45/47"	""	"AAAGCAATT:0.2666"	"-:0.8434"	"-:0.7853"	NA	"-:0.6657"	"-:0.7197"	"-:0.6319"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"11"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAGCAATTA"	"48eac5f2-2764-11e6-bdfe-c14a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2426"	"TAS2R41"	259287	"mskcc.org"	"GRCh37"	"7"	143174705	143174706	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs5888106"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408916"	""	10	"."	5	4	"."	0	"TAS2R41,upstream_gene_variant,,ENST00000408916,NM_176883.2;EPHA1-AS1,intron_variant,,ENST00000429289,;"	"C"	"ENSG00000221855"	"ENST00000408916"	"Transcript"	"upstream_gene_variant"	"-/924"	"-/924"	"-/307"	""	""	"rs5888106"	"1"	"260"	1	"TAS2R41"	"HGNC"	18883	"protein_coding"	"YES"	"CCDS43663.1"	"ENSP00000386201"	"P59536"	""	"UPI000000D823"	"NM_176883.2"	NA	NA	""	""	""	"-:0.1460"	"C:0.9803"	"C:0.8617"	NA	"C:0.9315"	"C:0.7535"	"C:0.7014"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"5d5f4706-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2427"	"CNTNAP2"	26047	"mskcc.org"	"GRCh37"	"7"	148025581	148025604	"+"	"Intron"	"DEL"	"AGATTCCATCTCTTGGTGTTCAAT"	"AGATTCCATCTCTTGGTGTTCAAT"	"CAT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AGATTCCATCTCTTGGTGTTCAAT"	"AGATTCCATCTCTTGGTGTTCAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3476-55160_3476-55139delAGATTCCATCTCTTGGTGTTCAinsC"	""	""	"ENST00000361727"	""	8	"."	3	1	"."	0	"CNTNAP2,intron_variant,,ENST00000361727,NM_014141.5;CNTNAP2,intron_variant,,ENST00000538075,;"	"C"	"ENSG00000174469"	"ENST00000361727"	"Transcript"	"intron_variant"	"-/9894"	"-/3996"	"-/1331"	""	""	""	"1"	NA	1	"CNTNAP2"	"HGNC"	13830	"protein_coding"	"YES"	"CCDS5889.1"	"ENSP00000354778"	"Q9UHC6"	"Q9UDV4,Q96T77,Q86UL9,Q86UL6,Q86UL4,Q86UJ1,Q86UI8,Q75MQ9,Q75MF8,Q75MF6,Q75MD4,Q75MA1,Q75M92,Q75LG9,O75852,B7Z1Y6"	"UPI00001285FA"	"NM_014141.5"	NA	NA	""	"21/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTAGATTCCATCTCTTGGTGTTCAATA"	"4e453d0c-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2428"	"EZH2"	2146	"mskcc.org"	"GRCh37"	"7"	148543931	148543940	"+"	"Intron"	"DEL"	"TGTGTGTGTG"	"TGTGTGTGTG"	"-"	"rs763389991"	NA	"JHCCPT1"	"JHCCPN1"	"TGTGTGTGTG"	"TGTGTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.118-250_118-241delCACACACACA"	""	""	"ENST00000320356"	""	12	"."	3	1	"."	0	"EZH2,intron_variant,,ENST00000320356,NM_004456.4,NM_001203248.1,NM_001203247.1;EZH2,intron_variant,,ENST00000460911,;EZH2,intron_variant,,ENST00000476773,NM_001203249.1;EZH2,intron_variant,,ENST00000478654,;EZH2,intron_variant,,ENST00000350995,NM_152998.2;EZH2,intron_variant,,ENST00000541220,;EZH2,intron_variant,,ENST00000483967,;EZH2,intron_variant,,ENST00000536783,;EZH2,intron_variant,,ENST00000492143,;EZH2,intron_variant,,ENST00000498186,;EZH2,intron_variant,,ENST00000483012,;"	"-"	"ENSG00000106462"	"ENST00000320356"	"Transcript"	"intron_variant"	"-/2639"	"-/2256"	"-/751"	""	""	"rs763389991"	"1"	NA	-1	"EZH2"	"HGNC"	3527	"protein_coding"	"YES"	"CCDS5891.1"	"ENSP00000320147"	"Q15910"	"Q75MQ0,Q6R125"	"UPI000006D77C"	"NM_004456.4,NM_001203248.1,NM_001203247.1"	NA	NA	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACTGTGTGTGTGT"	"4a1742ca-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	TRUE
"2429"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	148739728	148739728	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs140796289"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140796289"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.3696"	"-:0.2179"	"-:0.7205"	NA	"-:0.8542"	"-:0.6829"	"-:0.8395"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"4a22d054-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2430"	"ZNF862"	643641	"mskcc.org"	"GRCh37"	"7"	149544682	149544691	"+"	"Intron"	"DEL"	"GTGTGTGTGT"	"GTGTGTGTGT"	"-"	"rs10569456"	NA	"JHCCPT1"	"JHCCPN1"	"GTGTGTGTGT"	"GTGTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.242-111_242-102delTGTGTGTGTG"	""	""	"ENST00000223210"	""	18	"."	3	9	"."	0	"ZNF862,intron_variant,,ENST00000223210,NM_001099220.1;ZNF862,intron_variant,,ENST00000460379,;ZNF862,upstream_gene_variant,,ENST00000466435,;ZNF862,upstream_gene_variant,,ENST00000488265,;ZNF862,downstream_gene_variant,,ENST00000489820,;"	"-"	"ENSG00000106479"	"ENST00000223210"	"Transcript"	"intron_variant"	"-/6950"	"-/3510"	"-/1169"	""	""	"rs10569456"	"1"	NA	1	"ZNF862"	"HGNC"	34519	"protein_coding"	"YES"	"CCDS47741.1"	"ENSP00000223210"	"O60290"	"C9JB70"	"UPI000016105C"	"NM_001099220.1"	NA	NA	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"31"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGTGTGTGTGTG"	"4a87fd26-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"2431"	"RP11-545G3.1"	100134040	"mskcc.org"	"GRCh37"	"7"	149744754	149744756	"+"	"Intron"	"DEL"	"CGC"	"CGC"	"-"	"rs371352286"	NA	"JHCCPT1"	"JHCCPN1"	"CGC"	"CGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.233+6225_233+6227delCGC"	""	""	"ENST00000492054"	""	19	"."	4	5	"."	0	"RP11-545G3.1,intron_variant,,ENST00000492054,;RP11-545G3.1,downstream_gene_variant,,ENST00000493400,;"	"-"	"ENSG00000241449"	"ENST00000492054"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/573"	""	""	""	""	"rs371352286"	"1"	NA	1	"RP11-545G3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"2/4"	""	"-:0.0081"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"21"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCGCC"	"4aa19880-2764-11e6-bdfe-c14a424a729f"	"207"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"2432"	"ABCF2"	10061	"mskcc.org"	"GRCh37"	"7"	150914836	150914837	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs5888431"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1338+330dupG"	""	""	"ENST00000222388"	""	8	"."	3	1	"."	0	"ABCF2,intron_variant,,ENST00000287844,NM_007189.2;ABCF2,intron_variant,,ENST00000222388,NM_005692.4;ABCF2,downstream_gene_variant,,ENST00000468073,;ABCF2,downstream_gene_variant,,ENST00000473874,;"	"C"	"ENSG00000033050"	"ENST00000222388"	"Transcript"	"intron_variant"	"-/2185"	"-/1905"	"-/634"	""	""	"rs5888431"	"1"	NA	-1	"ABCF2"	"HGNC"	71	"protein_coding"	"YES"	"CCDS5922.1"	"ENSP00000222388"	""	"Q75MJ1,C9JZV3,C9JHK9"	"UPI000004C4C9"	"NM_005692.4"	NA	NA	""	"11/15"	""	"-:0.2620"	"C:0.798"	"C:0.7839"	NA	"C:0.874"	"C:0.7008"	"C:0.5225"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"5e431508-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2433"	"WDR86"	349136	"mskcc.org"	"GRCh37"	"7"	151102342	151102343	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs57351846"	NA	"JHCCPT1"	"JHCCPN1"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.163+4170_163+4171delTA"	""	""	"ENST00000334493"	""	15	"."	6	9	"."	0	"WDR86,intron_variant,,ENST00000334493,NM_198285.2,NM_001284262.1;WDR86,intron_variant,,ENST00000469830,NM_001284260.1;WDR86,intron_variant,,ENST00000477459,NM_001284261.1;WDR86-AS1,upstream_gene_variant,,ENST00000489632,;WDR86-AS1,upstream_gene_variant,,ENST00000480632,;WDR86,downstream_gene_variant,,ENST00000496971,;WDR86,downstream_gene_variant,,ENST00000484630,;WDR86-AS1,upstream_gene_variant,,ENST00000466677,;"	"-"	"ENSG00000187260"	"ENST00000334493"	"Transcript"	"intron_variant"	"-/2023"	"-/1131"	"-/376"	""	""	"rs57351846"	"1"	NA	-1	"WDR86"	"HGNC"	28020	"protein_coding"	"YES"	"CCDS5925.2"	"ENSP00000335522"	"Q86TI4"	""	"UPI000020F353"	"NM_198285.2,NM_001284262.1"	NA	NA	""	"1/5"	""	"-:0.1807"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTAG"	"4b7f293e-2764-11e6-bdfe-c14a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2434"	"DPP6"	1804	"mskcc.org"	"GRCh37"	"7"	153750161	153750161	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs199977459"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.243+13delC"	""	""	"ENST00000377770"	""	25	"."	10	14	"."	0	"DPP6,intron_variant,,ENST00000404039,NM_130797.2,NM_001936.3,NM_001039350.1;DPP6,intron_variant,,ENST00000377770,;DPP6,intron_variant,,ENST00000406326,;AC006019.3,downstream_gene_variant,,ENST00000425591,;"	"-"	"ENSG00000130226"	"ENST00000377770"	"Transcript"	"intron_variant"	"-/3710"	"-/2598"	"-/865"	""	""	"rs199977459"	"1"	NA	1	"DPP6"	"HGNC"	3010	"protein_coding"	"YES"	""	"ENSP00000367001"	"P42658"	"Q75MI8,Q75MI7,Q75MF0"	"UPI00001AE746"	""	NA	NA	""	"1/25"	""	"-:0.2835"	"-:0.2625"	"-:0.2392"	NA	"-:0.3899"	"-:0.2286"	"-:0.2904"	"-:0.2138"	"-:0.2357"	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.1041"	"0"	"0"	"0"	"0"	"0.375"	"0"	"0.6429"	"1"	"PASS"	"CTCG"	"4be68ed0-2764-11e6-bdfe-c14a424a729f"	"534"	0.5455	"12/22"	"1122/10776"	"0/0"	"0/0"	"0/0"	"0/0"	"3/8"	"0/0"	"9/14"	"PASS"	"FALSE"	0.4	"WXS"	FALSE
"2435"	"DPP6"	1804	"mskcc.org"	"GRCh37"	"7"	154666819	154666819	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs75749242"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1884-789delA"	""	""	"ENST00000377770"	""	6	"."	3	1	"."	0	"DPP6,intron_variant,,ENST00000404039,NM_130797.2,NM_001936.3,NM_001039350.1;DPP6,intron_variant,,ENST00000332007,;DPP6,intron_variant,,ENST00000377770,;DPP6,intron_variant,,ENST00000427557,;DPP6,intron_variant,,ENST00000479637,;DPP6,intron_variant,,ENST00000488512,;DPP6,intron_variant,,ENST00000484789,;"	"-"	"ENSG00000130226"	"ENST00000377770"	"Transcript"	"intron_variant"	"-/3710"	"-/2598"	"-/865"	""	""	"rs75749242"	"1"	NA	1	"DPP6"	"HGNC"	3010	"protein_coding"	"YES"	""	"ENSP00000367001"	"P42658"	"Q75MI8,Q75MI7,Q75MF0"	"UPI00001AE746"	""	NA	NA	""	"19/25"	""	"-:0.2400"	"-:0.1641"	"-:0.1398"	NA	"-:0.5357"	"-:0.1531"	"-:0.1984"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGAA"	"4c0d83d2-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2436"	"HTR5A"	3361	"mskcc.org"	"GRCh37"	"7"	154876657	154876658	"+"	"3'UTR"	"INS"	"-"	"-"	"CTC"	"rs10640095"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*461_*463dupCTC"	""	""	"ENST00000287907"	"2/2"	8	"."	4	1	"."	0	"HTR5A,3_prime_UTR_variant,,ENST00000287907,NM_024012.3;HTR5A,downstream_gene_variant,,ENST00000486819,;"	"CTC"	"ENSG00000157219"	"ENST00000287907"	"Transcript"	"3_prime_UTR_variant"	"2110-2111/2912"	"-/1074"	"-/357"	""	""	"rs10640095"	"1"	NA	1	"HTR5A"	"HGNC"	5300	"protein_coding"	"YES"	"CCDS5936.1"	"ENSP00000287907"	"P47898"	"Q86UN1,Q75LH0,A4D2N2"	"UPI000004477E"	"NM_024012.3"	NA	NA	"2/2"	""	""	"-:0.2121"	"CTC:0.9818"	"CTC:0.7579"	NA	"CTC:0.7411"	"CTC:0.6849"	"CTC:0.7014"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"5e9a1de4-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2437"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	155120533	155121116	"+"	"IGR"	"DEL"	"CACATCCTCATCTCTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCTCCCCAAAGACACCTACATCCTCATCTCTCCCTCCTCCCAGAGACACCCACATCATCTCTCCCTCCACAAAGACACTCACAGCCTCATCTTTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCCCCAAAGACACCCACATTCTCATCTCTCCCTCCCCAAAGACACTCACATCCTGATCTCTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCTCCCCAAAGACACTCACATCCTCATCTCTCCCTCCCCAAAGACACGAAAAACTCATCTCTCCCTCTCCCCAAAGACACTCACATGGTCATCTCTCCCTCCCCAAGACACTCACATCCCCATCTTCTCCTCTCCCCAAAGAAACCACAGCCTCATCTCTCCCTCTCCCCAAAGACACCCACATCCTCAACTCTCACTCCCCAAAGACACCCACATCCTCATCTCTCCCCCCCCCCAGACGCC"	"CACATCCTCATCTCTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCTCCCCAAAGACACCTACATCCTCATCTCTCCCTCCTCCCAGAGACACCCACATCATCTCTCCCTCCACAAAGACACTCACAGCCTCATCTTTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCCCCAAAGACACCCACATTCTCATCTCTCCCTCCCCAAAGACACTCACATCCTGATCTCTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCTCCCCAAAGACACTCACATCCTCATCTCTCCCTCCCCAAAGACACGAAAAACTCATCTCTCCCTCTCCCCAAAGACACTCACATGGTCATCTCTCCCTCCCCAAGACACTCACATCCCCATCTTCTCCTCTCCCCAAAGAAACCACAGCCTCATCTCTCCCTCTCCCCAAAGACACCCACATCCTCAACTCTCACTCCCCAAAGACACCCACATCCTCATCTCTCCCCCCCCCCAGACGCC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CACATCCTCATCTCTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCTCCCCAAAGACACCTACATCCTCATCTCTCCCTCCTCCCAGAGACACCCACATCATCTCTCCCTCCACAAAGACACTCACAGCCTCATCTTTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCCCCAAAGACACCCACATTCTCATCTCTCCCTCCCCAAAGACACTCACATCCTGATCTCTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCTCCCCAAAGACACTCACATCCTCATCTCTCCCTCCCCAAAGACACGAAAAACTCATCTCTCCCTCTCCCCAAAGACACTCACATGGTCATCTCTCCCTCCCCAAGACACTCACATCCCCATCTTCTCCTCTCCCCAAAGAAACCACAGCCTCATCTCTCCCTCTCCCCAAAGACACCCACATCCTCAACTCTCACTCCCCAAAGACACCCACATCCTCATCTCTCCCCCCCCCCAGACGCC"	"CACATCCTCATCTCTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCTCCCCAAAGACACCTACATCCTCATCTCTCCCTCCTCCCAGAGACACCCACATCATCTCTCCCTCCACAAAGACACTCACAGCCTCATCTTTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCCCCAAAGACACCCACATTCTCATCTCTCCCTCCCCAAAGACACTCACATCCTGATCTCTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCTCCCCAAAGACACTCACATCCTCATCTCTCCCTCCCCAAAGACACGAAAAACTCATCTCTCCCTCTCCCCAAAGACACTCACATGGTCATCTCTCCCTCCCCAAGACACTCACATCCCCATCTTCTCCTCTCCCCAAAGAAACCACAGCCTCATCTCTCCCTCTCCCCAAAGACACCCACATCCTCAACTCTCACTCCCCAAAGACACCCACATCCTCATCTCTCCCCCCCCCCAGACGCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"."	3	14	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACACATCCTCATCTCTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCTCCCCAAAGACACCTACATCCTCATCTCTCCCTCCTCCCAGAGACACCCACATCATCTCTCCCTCCACAAAGACACTCACAGCCTCATCTTTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCCCCAAAGACACCCACATTCTCATCTCTCCCTCCCCAAAGACACTCACATCCTGATCTCTCCCTCCCCAAAGACACCCACATCCTCATCTCTCCCTCTCCCCAAAGACACTCACATCCTCATCTCTCCCTCCCCAAAGACACGAAAAACTCATCTCTCCCTCTCCCCAAAGACACTCACATGGTCATCTCTCCCTCCCCAAGACACTCACATCCCCATCTTCTCCTCTCCCCAAAGAAACCACAGCCTCATCTCTCCCTCTCCCCAAAGACACCCACATCCTCAACTCTCACTCCCCAAAGACACCCACATCCTCATCTCTCCCCCCCCCCAGACGCCC"	"4c2aad36-2764-11e6-bdfe-c14a424a729f"	"94"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WXS"	FALSE
"2438"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	155775728	155775741	"+"	"IGR"	"DEL"	"GTGTGTGTGTGTGT"	"GTGTGTGTGTGTGT"	"-"	"rs139831804"	NA	"JHCCPT1"	"JHCCPN1"	"GTGTGTGTGTGTGT"	"GTGTGTGTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139831804"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACGTGTGTGTGTGTGTG"	"4c5a0ec8-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2439"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	155833376	155833377	"+"	"IGR"	"INS"	"-"	"-"	"ACCTGCTCCCT"	"rs150709048"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	5	6	"."	0	""	"ACCTGCTCCCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150709048"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"ACCTGCTCCCT:0.2187"	"ACCTGCTCCCT:0.1112"	"ACCTGCTCCCT:0.3343"	NA	"ACCTGCTCCCT:0.2371"	"ACCTGCTCCCT:0.3131"	"ACCTGCTCCCT:0.1656"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"5eba6d6a-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2440"	"DNAJB6"	10049	"mskcc.org"	"GRCh37"	"7"	157214847	157214848	"+"	"3'Flank"	"INS"	"-"	"-"	"CCCCTCT"	"rs111367291"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000262177"	""	6	"."	4	1	"."	0	"DNAJB6,downstream_gene_variant,,ENST00000262177,NM_058246.3;DNAJB6,downstream_gene_variant,,ENST00000452797,;DNAJB6,downstream_gene_variant,,ENST00000459889,;"	"CCCCTCT"	"ENSG00000105993"	"ENST00000262177"	"Transcript"	"downstream_gene_variant"	"-/2527"	"-/981"	"-/326"	""	""	"rs111367291"	"1"	"4714"	1	"DNAJB6"	"HGNC"	14888	"protein_coding"	"YES"	"CCDS5946.1"	"ENSP00000262177"	"O75190"	"Q75MP3,C9JN01,C9JDX6,C9JDR7,C9JB42,C9J2P2,C9J2C4"	"UPI0000129436"	"NM_058246.3"	NA	NA	""	""	""	"CCCCTCT:0.3456"	"CCCCTCT:0.466"	"CCCCTCT:0.2522"	NA	"CCCCTCT:0.256"	"CCCCTCT:0.3946"	"CCCCTCT:0.2914"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"5ed94c08-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2441"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	157946588	157946591	"+"	"Intron"	"DEL"	"GCTC"	"-"	"-"	"rs72132536"	NA	"JHCCPT1"	"JHCCPN1"	"GCTC"	"GCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.910+13032_910+13035delGAGC"	""	""	"ENST00000389418"	""	7	"."	5	1	"."	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"-"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	"rs72132536"	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	NA	NA	""	"6/22"	""	"GCTC:0.3309"	"-:0.4395"	"-:0.7522"	NA	"-:0.8224"	"-:0.7316"	"-:0.6984"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGCTCG"	"4cb5d226-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2442"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	157978708	157978708	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35056037"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.549+6311delA"	""	""	"ENST00000389418"	""	7	"."	4	1	"."	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"-"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	"rs35056037"	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	NA	NA	""	"5/22"	""	"T:0.3289"	"-:0.4879"	"-:0.7507"	NA	"-:0.8165"	"-:0.7346"	"-:0.6472"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTC"	"4cb828f0-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2443"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	158093246	158093247	"+"	"Intron"	"INS"	"-"	"-"	"CAGCGCCTCGCCCGCCACCCAGTCCCG"	"rs11268790"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.277+16238_277+16264dupCGGGACTGGGTGGCGGGCGAGGCGCTG"	""	""	"ENST00000389418"	""	12	"."	4	1	"."	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"CAGCGCCTCGCCCGCCACCCAGTCCCG"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	"rs11268790"	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	NA	NA	""	"3/22"	""	"-:0.0727"	"CAGCGCCTCGCCCGCCACCCAGTCCCG:0.9743"	"CAGCGCCTCGCCCGCCACCCAGTCCCG:0.8963"	NA	"CAGCGCCTCGCCCGCCACCCAGTCCCG:0.8472"	"CAGCGCCTCGCCCGCCACCCAGTCCCG:0.9543"	"CAGCGCCTCGCCCGCCACCCAGTCCCG:0.9407"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"5efca1d0-2764-11e6-bdfe-c14a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2444"	"NCAPG2"	54892	"mskcc.org"	"GRCh37"	"7"	158448369	158448370	"+"	"Intron"	"INS"	"-"	"-"	"TGCCCTGCACGCAGCACCACCCGTCCCCTCCCTGCCTCATGACCAGGCCCCGTCCTCCCCATC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2389-285_2389-223dupGATGGGGAGGACGGGGCCTGGTCATGAGGCAGGGAGGGGACGGGTGGTGCTGCGTGCAGGGCA"	""	""	"ENST00000409423"	""	22	"."	3	7	"."	0	"NCAPG2,intron_variant,,ENST00000409339,NM_001281933.1;NCAPG2,intron_variant,,ENST00000409423,NM_001281932.1;NCAPG2,intron_variant,,ENST00000356309,NM_017760.5;NCAPG2,intron_variant,,ENST00000449727,;NCAPG2,intron_variant,,ENST00000441982,;NCAPG2,intron_variant,,ENST00000275830,;NCAPG2,intron_variant,,ENST00000541468,;NCAPG2,downstream_gene_variant,,ENST00000474940,;NCAPG2,downstream_gene_variant,,ENST00000475918,;NCAPG2,intron_variant,,ENST00000432615,;NCAPG2,intron_variant,,ENST00000467785,;"	"TGCCCTGCACGCAGCACCACCCGTCCCCTCCCTGCCTCATGACCAGGCCCCGTCCTCCCCATC"	"ENSG00000146918"	"ENST00000409423"	"Transcript"	"intron_variant"	"-/3957"	"-/3432"	"-/1143"	""	""	""	"1"	NA	-1	"NCAPG2"	"HGNC"	21904	"protein_coding"	"YES"	"CCDS43686.1"	"ENSP00000386569"	"Q86XI2"	""	"UPI000000DA46"	"NM_001281932.1"	NA	NA	""	"20/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"5f171ea2-2764-11e6-bdfe-c14a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"2445"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	159053286	159053287	"+"	"IGR"	"DEL"	"GA"	"-"	"-"	"rs10586333"	NA	"JHCCPT1"	"JHCCPN1"	"GA"	"GA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10586333"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GA:0.3628"	"-:0.5688"	"-:0.6974"	NA	"-:0.7232"	"-:0.6223"	"-:0.6135"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGAG"	"4d1e5ea4-2764-11e6-bdfe-c14a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2446"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	2421928	2421929	"+"	"IGR"	"INS"	"-"	"-"	"AGAG"	"rs141015927"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	4	"."	0	""	"AGAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141015927"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"4800950e-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2447"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	2501375	2501376	"+"	"IGR"	"INS"	"-"	"-"	"AG"	"rs59704481"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	3	"."	0	""	"AG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs59704481"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4389"	"AG:0.8222"	"AG:0.5807"	NA	"AG:0.4177"	"AG:0.4533"	"AG:0.453"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"480459d2-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2448"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	3574952	3574953	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs76437790"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.932-8940_932-8939insT"	""	""	"ENST00000537824"	""	7	"."	4	1	"."	0	"CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;"	"A"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	"rs76437790"	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	NA	NA	""	"6/69"	""	"A:0.3540"	"A:0.1906"	"A:0.3329"	NA	"A:0.4752"	"A:0.3648"	"A:0.454"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"482552c2-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2449"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	3677083	3677084	"+"	"Intron"	"INS"	"-"	"-"	"ACTT"	"rs57863559"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.819-65520_819-65519insAAGT"	""	""	"ENST00000537824"	""	8	"."	3	1	"."	0	"CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;"	"ACTT"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	"rs57863559"	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	NA	NA	""	"5/69"	""	"-:0.2089"	"ACTT:0.8722"	"ACTT:0.7911"	NA	"ACTT:0.8472"	"ACTT:0.7813"	"ACTT:0.6339"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"48261fcc-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2450"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	4276310	4276311	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs35694084"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.415+1164dupA"	""	""	"ENST00000537824"	""	6	"."	5	1	"."	0	"CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;"	"T"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	"rs35694084"	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	NA	NA	""	"3/69"	""	"-:0.1012"	"T:0.907"	"T:0.8718"	NA	"T:0.996"	"T:0.7833"	"T:0.9254"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"4830ab18-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2451"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	6140169	6140171	"+"	"IGR"	"DEL"	"AGA"	"AGA"	"-"	"rs10601755"	NA	"JHCCPT1"	"JHCCPN1"	"AGA"	"AGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	7	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10601755"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0547"	"-:0.0688"	"-:0.0202"	NA	"-:0.0228"	"-:0.0517"	"-:0.0961"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGAA"	"2f4cab88-2764-11e6-9d29-be4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388888888888889	"WXS"	FALSE
"2452"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	6165911	6165913	"+"	"IGR"	"DEL"	"AGC"	"AGC"	"-"	"rs67635264"	NA	"JHCCPT1"	"JHCCPN1"	"AGC"	"AGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs67635264"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AGC:0.1817"	"-:0.6634"	"-:0.8055"	NA	"-:0.9077"	"-:0.8857"	"-:0.8753"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGCA"	"2f4e0744-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2453"	"AGPAT5"	55326	"mskcc.org"	"GRCh37"	"8"	6603596	6603597	"+"	"Intron"	"INS"	"-"	"-"	"TTTCTTTCTGT"	"rs59172826"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.587-1595_587-1594insTTTCTTTCTGT"	""	""	"ENST00000285518"	""	12	"."	6	3	"."	0	"AGPAT5,intron_variant,,ENST00000285518,NM_018361.3;AGPAT5,intron_variant,,ENST00000518327,;MIR4659B,downstream_gene_variant,,ENST00000580269,;AGPAT5,non_coding_transcript_exon_variant,,ENST00000533648,;AGPAT5,intron_variant,,ENST00000530716,;AGPAT5,upstream_gene_variant,,ENST00000533159,;AGPAT5,intron_variant,,ENST00000523234,;"	"TTTCTTTCTGT"	"ENSG00000155189"	"ENST00000285518"	"Transcript"	"intron_variant"	"-/3682"	"-/1095"	"-/364"	""	""	"rs59172826"	"1"	NA	1	"AGPAT5"	"HGNC"	20886	"protein_coding"	"YES"	"CCDS34796.1"	"ENSP00000285518"	"Q9NUQ2"	"Q6NUM7"	"UPI000003B4CB"	"NM_018361.3"	NA	NA	""	"5/7"	""	"-:0.2953"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"484c2f78-2764-11e6-9d29-be4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2454"	"DEFA7P"	0	"mskcc.org"	"GRCh37"	"8"	6899491	6899492	"+"	"5'Flank"	"INS"	"-"	"-"	"CCT"	"rs779149922"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000382676"	""	6	"."	4	1	"."	0	"DEFA7P,upstream_gene_variant,,ENST00000382676,;"	"CCT"	"ENSG00000206042"	"ENST00000382676"	"Transcript"	"upstream_gene_variant"	"-/285"	""	""	""	""	"rs779149922"	"1"	"2530"	-1	"DEFA7P"	"HGNC"	31798	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"484f381c-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2455"	"MSRA"	4482	"mskcc.org"	"GRCh37"	"8"	10041393	10041511	"+"	"Intron"	"DEL"	"TAGGTGGTGTTGGTGGTGGTAGTGGTGGTGATGGTCTTGGTGGTCTTGGTGGTGGTGCTGCTGCTGGTGGTATTGGTAGTGATGGTGTTGACAGTAGTGTTGCTGGTTTTCTTGGCTAC"	"TAGGTGGTGTTGGTGGTGGTAGTGGTGGTGATGGTCTTGGTGGTCTTGGTGGTGGTGCTGCTGCTGGTGGTATTGGTAGTGATGGTGTTGACAGTAGTGTTGCTGGTTTTCTTGGCTAC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TAGGTGGTGTTGGTGGTGGTAGTGGTGGTGATGGTCTTGGTGGTCTTGGTGGTGGTGCTGCTGCTGGTGGTATTGGTAGTGATGGTGTTGACAGTAGTGTTGCTGGTTTTCTTGGCTAC"	"TAGGTGGTGTTGGTGGTGGTAGTGGTGGTGATGGTCTTGGTGGTCTTGGTGGTGGTGCTGCTGCTGGTGGTATTGGTAGTGATGGTGTTGACAGTAGTGTTGCTGGTTTTCTTGGCTAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.143-23941_143-23823delTTGGTGGTGGTAGTGGTGGTGATGGTCTTGGTGGTCTTGGTGGTGGTGCTGCTGCTGGTGGTATTGGTAGTGATGGTGTTGACAGTAGTGTTGCTGGTTTTCTTGGCTACTAGGTGGTG"	""	""	"ENST00000317173"	""	34	"."	6	14	"."	0	"MSRA,intron_variant,,ENST00000528246,NM_001199729.1;MSRA,intron_variant,,ENST00000317173,NM_012331.3;MSRA,intron_variant,,ENST00000382490,NM_001135671.1;MSRA,intron_variant,,ENST00000522907,;MSRA,intron_variant,,ENST00000521209,;MSRA,intron_variant,,ENST00000441698,NM_001135670.1;MSRA,intron_variant,,ENST00000518255,;MSRA,intron_variant,,ENST00000523637,;"	"-"	"ENSG00000175806"	"ENST00000317173"	"Transcript"	"intron_variant"	"-/1536"	"-/708"	"-/235"	""	""	""	"1"	NA	1	"MSRA"	"HGNC"	7377	"protein_coding"	"YES"	"CCDS5975.1"	"ENSP00000313921"	"Q9UJ68"	"E5RJK1"	"UPI0000039C0C"	"NM_012331.3"	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATAGGTGGTGTTGGTGGTGGTAGTGGTGGTGATGGTCTTGGTGGTCTTGGTGGTGGTGCTGCTGCTGGTGGTATTGGTAGTGATGGTGTTGACAGTAGTGTTGCTGGTTTTCTTGGCTACT"	"301b4c90-2764-11e6-9d29-be4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"2456"	"MSRA"	4482	"mskcc.org"	"GRCh37"	"8"	10257888	10257889	"+"	"Intron"	"INS"	"-"	"-"	"GTGTA"	"rs112068172"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.544-27766_544-27765insAGTGT"	""	""	"ENST00000317173"	""	6	"."	3	4	"."	0	"MSRA,intron_variant,,ENST00000528246,NM_001199729.1;MSRA,intron_variant,,ENST00000317173,NM_012331.3;MSRA,intron_variant,,ENST00000382490,NM_001135671.1;MSRA,intron_variant,,ENST00000441698,NM_001135670.1;MSRA,intron_variant,,ENST00000517594,;"	"GTGTA"	"ENSG00000175806"	"ENST00000317173"	"Transcript"	"intron_variant"	"-/1536"	"-/708"	"-/235"	""	""	"rs112068172"	"1"	NA	1	"MSRA"	"HGNC"	7377	"protein_coding"	"YES"	"CCDS5975.1"	"ENSP00000313921"	"Q9UJ68"	"E5RJK1"	"UPI0000039C0C"	"NM_012331.3"	NA	NA	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"489614c6-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2457"	"PRSS51"	0	"mskcc.org"	"GRCh37"	"8"	10406282	10406282	"+"	"5'Flank"	"DEL"	"C"	"C"	"-"	"rs35179947"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000523024"	""	6	"."	4	1	"."	0	"PRSS55,intron_variant,,ENST00000522210,NM_001197020.1;PRSS51,upstream_gene_variant,,ENST00000523024,;PRSS55,downstream_gene_variant,,ENST00000518641,;"	"-"	"ENSG00000253649"	"ENST00000523024"	"Transcript"	"upstream_gene_variant"	"-/1123"	""	""	""	""	"rs35179947"	"1"	"1187"	-1	"PRSS51"	"HGNC"	37321	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.4131"	"-:0.3056"	"-:0.6542"	NA	"-:0.6815"	"-:0.672"	"-:0.7342"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"3028f002-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2458"	"C8orf12"	83656	"mskcc.org"	"GRCh37"	"8"	11275854	11275854	"+"	"Intron"	"DEL"	"A"	"-"	"-"	"rs34021736"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-452-15574delA"	""	""	"ENST00000284481"	""	9	"."	7	2	"."	0	"C8orf12,intron_variant,,ENST00000284481,;FAM167A,downstream_gene_variant,,ENST00000284486,NM_053279.2;C8orf12,intron_variant,,ENST00000529305,;"	"-"	"ENSG00000184608"	"ENST00000284481"	"Transcript"	"intron_variant"	"-/1222"	"-/315"	"-/104"	""	""	"rs34021736"	"1"	NA	1	"C8orf12"	"HGNC"	15548	"protein_coding"	"YES"	""	"ENSP00000284481"	"Q96KT0"	""	"UPI00000713FF"	""	NA	NA	""	"3/6"	""	"A:0.4675"	"-:0.9062"	"-:0.4006"	NA	"-:0.0675"	"-:0.5895"	"-:0.5419"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAA"	"304ad456-2764-11e6-9d29-be4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	FALSE
"2459"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	12752941	12752941	"+"	"IGR"	"DEL"	"C"	"-"	"-"	"rs34242777"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	7	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34242777"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"3095c556-2764-11e6-9d29-be4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"2460"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	17301225	17301228	"+"	"IGR"	"DEL"	"TCAT"	"TCAT"	"-"	"rs144565522"	NA	"JHCCPT1"	"JHCCPN1"	"TCAT"	"TCAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144565522"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2692"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCATT"	"310e190c-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2461"	"MTUS1"	57509	"mskcc.org"	"GRCh37"	"8"	17527361	17527362	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs150430981"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2905+5333dupT"	""	""	"ENST00000262102"	""	6	"."	3	2	"."	0	"MTUS1,intron_variant,,ENST00000381869,NM_001001925.2;MTUS1,intron_variant,,ENST00000262102,NM_001001924.2;MTUS1,intron_variant,,ENST00000519263,;MTUS1,intron_variant,,ENST00000381861,NM_001001931.2;MTUS1,intron_variant,,ENST00000297488,NM_020749.4;MTUS1,intron_variant,,ENST00000544260,NM_001166393.1;MTUS1,intron_variant,,ENST00000400046,;MTUS1,intron_variant,,ENST00000518713,;MTUS1,intron_variant,,ENST00000517818,;MTUS1,intron_variant,,ENST00000521772,;MTUS1,intron_variant,,ENST00000524044,;MTUS1,intron_variant,,ENST00000524371,;MTUS1,intron_variant,,ENST00000522757,;MTUS1,downstream_gene_variant,,ENST00000523183,;MTUS1,downstream_gene_variant,,ENST00000519066,;MTUS1,downstream_gene_variant,,ENST00000521635,;MTUS1,intron_variant,,ENST00000520196,;MTUS1,intron_variant,,ENST00000517413,;"	"A"	"ENSG00000129422"	"ENST00000262102"	"Transcript"	"intron_variant"	"-/6160"	"-/3813"	"-/1270"	""	""	"rs150430981"	"1"	NA	-1	"MTUS1"	"HGNC"	29789	"protein_coding"	"YES"	"CCDS43717.1"	"ENSP00000262102"	"Q9ULD2"	""	"UPI000003FF3C"	"NM_001001924.2"	NA	NA	""	"8/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"49b43cf2-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2462"	"PSD3"	23362	"mskcc.org"	"GRCh37"	"8"	18452964	18452965	"+"	"Intron"	"INS"	"-"	"-"	"AG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2481+4908_2481+4909dupCT"	""	""	"ENST00000327040"	""	9	"."	3	1	"."	0	"PSD3,intron_variant,,ENST00000440756,;PSD3,intron_variant,,ENST00000327040,NM_015310.3;PSD3,intron_variant,,ENST00000523619,;PSD3,intron_variant,,ENST00000286485,NM_206909.2;PSD3,intron_variant,,ENST00000428502,;PSD3,intron_variant,,ENST00000521878,;PSD3,intron_variant,,ENST00000518315,;"	"AG"	"ENSG00000156011"	"ENST00000327040"	"Transcript"	"intron_variant"	"-/11689"	"-/3144"	"-/1047"	""	""	""	"1"	NA	-1	"PSD3"	"HGNC"	19093	"protein_coding"	"YES"	"CCDS43720.1"	"ENSP00000324127"	"Q9NYI0"	"E5RJE4,E5RJ29"	"UPI0000210A46"	"NM_015310.3"	NA	NA	""	"12/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"4a023b82-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2463"	"PSD3"	23362	"mskcc.org"	"GRCh37"	"8"	18541715	18541722	"+"	"Intron"	"DEL"	"CACACACA"	"CACACACA"	"-"	"rs562264166"	NA	"JHCCPT1"	"JHCCPN1"	"CACACACA"	"CACACACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2173-28527_2173-28520delTGTGTGTG"	""	""	"ENST00000327040"	""	16	"."	4	5	"."	0	"PSD3,intron_variant,,ENST00000440756,;PSD3,intron_variant,,ENST00000327040,NM_015310.3;PSD3,intron_variant,,ENST00000523619,;PSD3,intron_variant,,ENST00000286485,NM_206909.2;PSD3,upstream_gene_variant,,ENST00000428502,;PSD3,upstream_gene_variant,,ENST00000521878,;PSD3,intron_variant,,ENST00000518315,;"	"-"	"ENSG00000156011"	"ENST00000327040"	"Transcript"	"intron_variant"	"-/11689"	"-/3144"	"-/1047"	""	""	"rs562264166"	"1"	NA	-1	"PSD3"	"HGNC"	19093	"protein_coding"	"YES"	"CCDS43720.1"	"ENSP00000324127"	"Q9NYI0"	"E5RJE4,E5RJ29"	"UPI0000210A46"	"NM_015310.3"	NA	NA	""	"9/15"	""	"CACACACA:0.3017"	"-:0.4304"	"-:0.7709"	NA	"-:0.7371"	"-:0.8827"	"-:0.7791"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCACACACAC"	"31ad54ae-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2464"	"PSD3"	23362	"mskcc.org"	"GRCh37"	"8"	18660899	18660900	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTGTGTGTG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1910+1119_1910+1132dupCACACACACACACA"	""	""	"ENST00000327040"	""	50	"."	5	15	"."	0	"PSD3,intron_variant,,ENST00000440756,;PSD3,intron_variant,,ENST00000327040,NM_015310.3;PSD3,intron_variant,,ENST00000523619,;PSD3,intron_variant,,ENST00000286485,NM_206909.2;PSD3,intron_variant,,ENST00000519851,;PSD3,intron_variant,,ENST00000520858,;PSD3,intron_variant,,ENST00000521027,;PSD3,intron_variant,,ENST00000519653,;PSD3,intron_variant,,ENST00000518315,;PSD3,intron_variant,,ENST00000518303,;PSD3,intron_variant,,ENST00000517971,;PSD3,intron_variant,,ENST00000518963,;PSD3,downstream_gene_variant,,ENST00000519633,;"	"TGTGTGTGTGTGTG"	"ENSG00000156011"	"ENST00000327040"	"Transcript"	"intron_variant"	"-/11689"	"-/3144"	"-/1047"	""	""	""	"1"	NA	-1	"PSD3"	"HGNC"	19093	"protein_coding"	"YES"	"CCDS43720.1"	"ENSP00000324127"	"Q9NYI0"	"E5RJE4,E5RJ29"	"UPI0000210A46"	"NM_015310.3"	NA	NA	""	"6/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"4a0f66a4-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WXS"	FALSE
"2465"	"PSD3"	23362	"mskcc.org"	"GRCh37"	"8"	18827566	18827567	"+"	"Intron"	"INS"	"-"	"GT"	"GT"	"rs141070572"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.22-33915_22-33914insAC"	""	""	"ENST00000327040"	""	6	"."	5	1	"."	0	"PSD3,intron_variant,,ENST00000440756,;PSD3,intron_variant,,ENST00000327040,NM_015310.3;PSD3,intron_variant,,ENST00000521475,;PSD3,intron_variant,,ENST00000521841,;"	"GT"	"ENSG00000156011"	"ENST00000327040"	"Transcript"	"intron_variant"	"-/11689"	"-/3144"	"-/1047"	""	""	"rs141070572"	"1"	NA	-1	"PSD3"	"HGNC"	19093	"protein_coding"	"YES"	"CCDS43720.1"	"ENSP00000324127"	"Q9NYI0"	"E5RJE4,E5RJ29"	"UPI0000210A46"	"NM_015310.3"	NA	NA	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"4a120648-2764-11e6-9d29-be4a424a729f"	"290"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2466"	"SH2D4A"	63898	"mskcc.org"	"GRCh37"	"8"	19190133	19190134	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs5889863"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.182-332dupG"	""	""	"ENST00000265807"	""	8	"."	3	3	"."	0	"SH2D4A,intron_variant,,ENST00000265807,NM_022071.3,NM_001174160.1;SH2D4A,intron_variant,,ENST00000519207,NM_001174159.1;SH2D4A,intron_variant,,ENST00000518040,;SH2D4A,intron_variant,,ENST00000523736,;"	"G"	"ENSG00000104611"	"ENST00000265807"	"Transcript"	"intron_variant"	"-/3352"	"-/1365"	"-/454"	""	""	"rs5889863"	"1"	NA	1	"SH2D4A"	"HGNC"	26102	"protein_coding"	"YES"	"CCDS6009.1"	"ENSP00000265807"	"Q9H788"	""	"UPI000007372B"	"NM_022071.3,NM_001174160.1"	NA	NA	""	"2/9"	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"4a1609aa-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2467"	"SH2D4A"	63898	"mskcc.org"	"GRCh37"	"8"	19191872	19191872	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs35335245"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.342-324delG"	""	""	"ENST00000265807"	""	6	"."	3	6	"."	0	"SH2D4A,intron_variant,,ENST00000265807,NM_022071.3,NM_001174160.1;SH2D4A,intron_variant,,ENST00000519207,NM_001174159.1;SH2D4A,intron_variant,,ENST00000518040,;SH2D4A,intron_variant,,ENST00000523736,;"	"-"	"ENSG00000104611"	"ENST00000265807"	"Transcript"	"intron_variant"	"-/3352"	"-/1365"	"-/454"	""	""	"rs35335245"	"1"	NA	1	"SH2D4A"	"HGNC"	26102	"protein_coding"	"YES"	"CCDS6009.1"	"ENSP00000265807"	"Q9H788"	""	"UPI000007372B"	"NM_022071.3,NM_001174160.1"	NA	NA	""	"3/9"	""	"-:0.1651"	"-:0.264"	"-:0.1052"	NA	"-:0.1181"	"-:0.163"	"-:0.1247"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"31e26568-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2468"	"LZTS1"	11178	"mskcc.org"	"GRCh37"	"8"	20132480	20132481	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTGTGTGTA"	"rs35314882"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-134-19655_-134-19654insTACACACACACACA"	""	""	"ENST00000381569"	""	9	"."	4	2	"."	0	"LZTS1,intron_variant,,ENST00000381569,;LZTS1-AS1,upstream_gene_variant,,ENST00000523103,;"	"TGTGTGTGTGTGTA"	"ENSG00000061337"	"ENST00000381569"	"Transcript"	"intron_variant"	"-/5706"	"-/1791"	"-/596"	""	""	"rs35314882"	"1"	NA	-1	"LZTS1"	"HGNC"	13861	"protein_coding"	"YES"	"CCDS6015.1"	"ENSP00000370981"	"Q9Y250"	""	"UPI000006DEE8"	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"4a49b354-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2469"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	21211913	21211913	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs34345448"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34345448"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTT"	"321476a2-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2470"	"DMTN"	2039	"mskcc.org"	"GRCh37"	"8"	21931151	21931168	"+"	"Intron"	"DEL"	"AAAAAAAAAAAAAGAAAG"	"AAAAAAAAAAAAAGAAAG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AAAAAAAAAAAAAGAAAG"	"AAAAAAAAAAAAAGAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.730-79_730-62delAAGAAAGAAAAAAAAAAA"	""	""	"ENST00000523266"	""	41	"."	3	23	"."	0	"DMTN,intron_variant,,ENST00000358242,;DMTN,intron_variant,,ENST00000523266,NM_001978.2;DMTN,intron_variant,,ENST00000519907,;DMTN,intron_variant,,ENST00000381470,NM_001114137.1;DMTN,intron_variant,,ENST00000415253,NM_001114138.1;DMTN,intron_variant,,ENST00000265800,NM_001114135.2;DMTN,intron_variant,,ENST00000432128,NM_001114136.1;DMTN,intron_variant,,ENST00000443491,NM_001114139.1;DMTN,intron_variant,,ENST00000523782,;DMTN,intron_variant,,ENST00000517600,;DMTN,downstream_gene_variant,,ENST00000517418,;DMTN,downstream_gene_variant,,ENST00000520174,;DMTN,downstream_gene_variant,,ENST00000517804,;DMTN,downstream_gene_variant,,ENST00000522148,;DMTN,downstream_gene_variant,,ENST00000523300,;DMTN,downstream_gene_variant,,ENST00000519850,;DMTN,downstream_gene_variant,,ENST00000523623,;DMTN,intron_variant,,ENST00000517305,;DMTN,downstream_gene_variant,,ENST00000518816,;DMTN,downstream_gene_variant,,ENST00000520856,;DMTN,downstream_gene_variant,,ENST00000519333,;"	"-"	"ENSG00000158856"	"ENST00000523266"	"Transcript"	"intron_variant"	"-/2735"	"-/1218"	"-/405"	""	""	""	"1"	NA	1	"DMTN"	"HGNC"	3382	"protein_coding"	"YES"	"CCDS6020.1"	"ENSP00000427866"	"Q08495"	"E5RJ61"	"UPI0000129189"	"NM_001978.2"	NA	NA	""	"9/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"11"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAAAAAAAAAAGAAAGA"	"32709ef0-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WXS"	FALSE
"2471"	"PEBP4"	157310	"mskcc.org"	"GRCh37"	"8"	22735170	22735177	"+"	"Intron"	"DEL"	"CCCCACCT"	"CCCCACCT"	"-"	"rs72006226"	NA	"JHCCPT1"	"JHCCPN1"	"CCCCACCT"	"CCCCACCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.258+42520_258+42527delAGGTGGGG"	""	""	"ENST00000256404"	""	9	"."	6	2	"."	0	"PEBP4,intron_variant,,ENST00000256404,NM_144962.2;RP11-87E22.2,upstream_gene_variant,,ENST00000511897,;RP11-87E22.2,upstream_gene_variant,,ENST00000520914,;RP11-87E22.2,upstream_gene_variant,,ENST00000522019,;PEBP4,intron_variant,,ENST00000521284,;"	"-"	"ENSG00000134020"	"ENST00000256404"	"Transcript"	"intron_variant"	"-/890"	"-/684"	"-/227"	""	""	"rs72006226"	"1"	NA	-1	"PEBP4"	"HGNC"	28319	"protein_coding"	"YES"	"CCDS43724.1"	"ENSP00000256404"	"Q96S96"	""	"UPI0000037788"	"NM_144962.2"	NA	NA	""	"3/6"	""	"CCCCACCT:0.0713"	"-:0.8094"	"-:0.9827"	NA	"-:0.9643"	"-:0.9871"	"-:0.955"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACCCCACCTC"	"32dd408c-2764-11e6-9d29-be4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2472"	"ENTPD4"	9583	"mskcc.org"	"GRCh37"	"8"	23291576	23291579	"+"	"Intron"	"DEL"	"ACAG"	"ACAG"	"-"	"rs141670740"	NA	"JHCCPT1"	"JHCCPN1"	"ACAG"	"ACAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1622+251_1622+254delCTGT"	""	""	"ENST00000358689"	""	15	"."	5	6	"."	0	"ENTPD4,intron_variant,,ENST00000358689,NM_001128930.2,NM_004901.4;ENTPD4,intron_variant,,ENST00000356206,;ENTPD4,intron_variant,,ENST00000417069,;ENTPD4,intron_variant,,ENST00000518471,;ENTPD4,intron_variant,,ENST00000521321,;ENTPD4,downstream_gene_variant,,ENST00000522913,;ENTPD4,intron_variant,,ENST00000522255,;ENTPD4,downstream_gene_variant,,ENST00000523958,;ENTPD4,downstream_gene_variant,,ENST00000520936,;"	"-"	"ENSG00000197217"	"ENST00000358689"	"Transcript"	"intron_variant"	"-/5861"	"-/1851"	"-/616"	""	""	"rs141670740"	"1"	NA	-1	"ENTPD4"	"HGNC"	14573	"protein_coding"	"YES"	"CCDS6041.1"	"ENSP00000351520"	"Q9Y227"	"E5RIB2"	"UPI0000129FB4"	"NM_001128930.2,NM_004901.4"	NA	NA	""	"12/12"	""	"-:0.0266"	"-:0.0038"	"-:0.0548"	NA	"-:0"	"-:0.0726"	"-:0.0174"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAACAGA"	"3320b128-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2473"	"RP11-213G6.2"	0	"mskcc.org"	"GRCh37"	"8"	23595472	23595473	"+"	"Intron"	"INS"	"-"	"-"	"TCC"	"rs149501726"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.50+5031_50+5033dupGGA"	""	""	"ENST00000520375"	""	23	"."	5	2	"."	0	"RP11-213G6.2,intron_variant,,ENST00000520375,;RP11-175E9.1,intron_variant,,ENST00000523874,;"	"TCC"	"ENSG00000254002"	"ENST00000520375"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/443"	""	""	""	""	"rs149501726"	"1"	NA	-1	"RP11-213G6.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"4adf01b6-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WXS"	FALSE
"2474"	"ADAM7"	8756	"mskcc.org"	"GRCh37"	"8"	24318850	24318851	"+"	"Intron"	"INS"	"-"	"-"	"CT"	"rs34275262"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.234-2542_234-2541dupCT"	""	""	"ENST00000175238"	""	8	"."	5	3	"."	0	"ADAM7,intron_variant,,ENST00000175238,NM_003817.3;ADAM7,intron_variant,,ENST00000380789,;ADAM7,intron_variant,,ENST00000441335,;RP11-624C23.1,intron_variant,,ENST00000519689,;RP11-624C23.1,intron_variant,,ENST00000523578,;"	"CT"	"ENSG00000069206"	"ENST00000175238"	"Transcript"	"intron_variant"	"-/3367"	"-/2265"	"-/754"	""	""	"rs34275262"	"1"	NA	1	"ADAM7"	"HGNC"	214	"protein_coding"	"YES"	"CCDS6045.1"	"ENSP00000175238"	"Q9H2U9"	""	"UPI000013C5CC"	"NM_003817.3"	NA	NA	""	"3/21"	""	"-:0.2298"	"CT:0.829"	"CT:0.8761"	NA	"CT:0.5337"	"CT:0.8479"	"CT:0.7791"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"4b2ec638-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"2475"	"DOCK5"	80005	"mskcc.org"	"GRCh37"	"8"	25200359	25200360	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs71214565"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2617+336_2617+337insC"	""	""	"ENST00000276440"	""	6	"."	5	3	"."	0	"DOCK5,intron_variant,,ENST00000276440,NM_024940.6;DOCK5,intron_variant,,ENST00000444569,;DOCK5,intron_variant,,ENST00000467709,;"	"C"	"ENSG00000147459"	"ENST00000276440"	"Transcript"	"intron_variant"	"-/10075"	"-/5613"	"-/1870"	""	""	"rs71214565"	"1"	NA	1	"DOCK5"	"HGNC"	23476	"protein_coding"	"YES"	"CCDS6047.1"	"ENSP00000276440"	"Q9H7D0"	""	"UPI000022D4F3"	"NM_024940.6"	NA	NA	""	"25/51"	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"4b392d8a-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2476"	"DOCK5"	80005	"mskcc.org"	"GRCh37"	"8"	25240480	25240481	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs34411677"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4131+187dupG"	""	""	"ENST00000276440"	""	23	"."	8	8	"."	0	"DOCK5,intron_variant,,ENST00000276440,NM_024940.6;DOCK5,intron_variant,,ENST00000467709,;"	"G"	"ENSG00000147459"	"ENST00000276440"	"Transcript"	"intron_variant"	"-/10075"	"-/5613"	"-/1870"	""	""	"rs34411677"	"1"	NA	1	"DOCK5"	"HGNC"	23476	"protein_coding"	"YES"	"CCDS6047.1"	"ENSP00000276440"	"Q9H7D0"	""	"UPI000022D4F3"	"NM_024940.6"	NA	NA	""	"40/51"	""	"G:0.3265"	"G:0.236"	"G:0.3458"	NA	"G:0.381"	"G:0.4056"	"G:0.2975"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"4b4fbd98-2764-11e6-9d29-be4a424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347826086956522	"WXS"	FALSE
"2477"	"EBF2"	64641	"mskcc.org"	"GRCh37"	"8"	25720534	25720577	"+"	"Intron"	"DEL"	"ATCATTTCTGCTTTAAGTATACATAAACTTCTCTGCTATCAAAT"	"ATCATTTCTGCTTTAAGTATACATAAACTTCTCTGCTATCAAAT"	"TCTGCTTTAAGTATACATAAACTTCTCTGCTATC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"ATCATTTCTGCTTTAAGTATACATAAACTTCTCTGCTATCAAAT"	"ATCATTTCTGCTTTAAGTATACATAAACTTCTCTGCTATCAAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1010-264_1010-221delATTTGATAGCAGAGAAGTTTATGTATACTTAAAGCAGAAATGATinsGATAGCAGAGAAGTTTATGTATACTTAAAGCAGA"	""	""	"ENST00000520164"	""	18	"."	4	9	"."	0	"EBF2,intron_variant,,ENST00000520164,NM_022659.3;EBF2,intron_variant,,ENST00000408929,;EBF2,intron_variant,,ENST00000535548,;"	"TCTGCTTTAAGTATACATAAACTTCTCTGCTATC"	"ENSG00000221818"	"ENST00000520164"	"Transcript"	"intron_variant"	"-/5145"	"-/1728"	"-/575"	""	""	""	"1"	NA	-1	"EBF2"	"HGNC"	19090	"protein_coding"	"YES"	"CCDS43726.1"	"ENSP00000430241"	"Q9HAK2"	"B7Z934,B2RNT0"	"UPI0000DD7EC9"	"NM_022659.3"	NA	NA	""	"10/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTATCATTTCTGCTTTAAGTATACATAAACTTCTCTGCTATCAAATA"	"4703bdf2-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"2478"	"SCARA3"	51435	"mskcc.org"	"GRCh37"	"8"	27491007	27491007	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"rs33993350"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000301904"	""	6	"."	4	3	"."	0	"SCARA3,upstream_gene_variant,,ENST00000301904,NM_016240.2;SCARA3,upstream_gene_variant,,ENST00000337221,NM_182826.1;"	"-"	"ENSG00000168077"	"ENST00000301904"	"Transcript"	"upstream_gene_variant"	"-/3510"	"-/1821"	"-/606"	""	""	"rs33993350"	"1"	"691"	1	"SCARA3"	"HGNC"	19000	"protein_coding"	"YES"	"CCDS34871.1"	"ENSP00000301904"	"Q6AZY7"	""	"UPI00001B94D8"	"NM_016240.2"	NA	NA	""	""	""	"-:0.3842"	"-:0.1906"	"-:0.4078"	NA	"-:0.5188"	"-:0.3787"	"-:0.4959"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"3468aaf4-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2479"	"SCARA3"	51435	"mskcc.org"	"GRCh37"	"8"	27506415	27506419	"+"	"Intron"	"DEL"	"AAGGA"	"AAGGA"	"-"	"rs35572827"	NA	"JHCCPT1"	"JHCCPN1"	"AAGGA"	"AAGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8-789_8-785delAAGGA"	""	""	"ENST00000301904"	""	9	"."	3	3	"."	0	"SCARA3,intron_variant,,ENST00000301904,NM_016240.2;SCARA3,intron_variant,,ENST00000337221,NM_182826.1;"	"-"	"ENSG00000168077"	"ENST00000301904"	"Transcript"	"intron_variant"	"-/3510"	"-/1821"	"-/606"	""	""	"rs35572827"	"1"	NA	1	"SCARA3"	"HGNC"	19000	"protein_coding"	"YES"	"CCDS34871.1"	"ENSP00000301904"	"Q6AZY7"	""	"UPI00001B94D8"	"NM_016240.2"	NA	NA	""	"1/5"	""	"-:0.1835"	"-:0.0242"	"-:0.2565"	NA	"-:0.1716"	"-:0.2555"	"-:0.2853"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAAGGAA"	"346c2774-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2480"	"SCARA5"	286133	"mskcc.org"	"GRCh37"	"8"	27761318	27761319	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs143494520"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1153+976dupC"	""	""	"ENST00000354914"	""	6	"."	4	1	"."	0	"SCARA5,intron_variant,,ENST00000354914,NM_173833.5;SCARA5,intron_variant,,ENST00000380385,;SCARA5,downstream_gene_variant,,ENST00000524352,;SCARA5,downstream_gene_variant,,ENST00000301906,;SCARA5,downstream_gene_variant,,ENST00000518030,;RP11-597M17.1,upstream_gene_variant,,ENST00000517735,;RP11-597M17.3,upstream_gene_variant,,ENST00000517763,;RP11-597M17.2,downstream_gene_variant,,ENST00000521019,;"	"G"	"ENSG00000168079"	"ENST00000354914"	"Transcript"	"intron_variant"	"-/4026"	"-/1488"	"-/495"	""	""	"rs143494520"	"1"	NA	-1	"SCARA5"	"HGNC"	28701	"protein_coding"	"YES"	"CCDS6064.1"	"ENSP00000346990"	"Q6ZMJ2"	""	"UPI000015FA6D"	"NM_173833.5"	NA	NA	""	"7/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"4badf6b0-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2481"	"SCARA5"	286133	"mskcc.org"	"GRCh37"	"8"	27776413	27776414	"+"	"Intron"	"INS"	"-"	"-"	"AAGAGGAGGAGGAGG"	"rs142177989"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.916+2674_916+2675insCCTCCTCCTCCTCTT"	""	""	"ENST00000354914"	""	30	"."	3	6	"."	0	"SCARA5,intron_variant,,ENST00000354914,NM_173833.5;SCARA5,intron_variant,,ENST00000380385,;SCARA5,intron_variant,,ENST00000524352,;SCARA5,intron_variant,,ENST00000301906,;SCARA5,intron_variant,,ENST00000518030,;"	"AAGAGGAGGAGGAGG"	"ENSG00000168079"	"ENST00000354914"	"Transcript"	"intron_variant"	"-/4026"	"-/1488"	"-/495"	""	""	"rs142177989"	"1"	NA	-1	"SCARA5"	"HGNC"	28701	"protein_coding"	"YES"	"CCDS6064.1"	"ENSP00000346990"	"Q6ZMJ2"	""	"UPI000015FA6D"	"NM_173833.5"	NA	NA	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"4bafa58c-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WXS"	FALSE
"2482"	"KIF13B"	23303	"mskcc.org"	"GRCh37"	"8"	29062712	29062713	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11407713"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.150-8997dupA"	""	""	"ENST00000524189"	""	10	"."	3	1	"."	0	"KIF13B,intron_variant,,ENST00000524189,NM_015254.3;KIF13B,intron_variant,,ENST00000521515,;KIF13B,intron_variant,,ENST00000522355,;KIF13B,intron_variant,,ENST00000522846,;KIF13B,intron_variant,,ENST00000523968,;"	"T"	"ENSG00000197892"	"ENST00000524189"	"Transcript"	"intron_variant"	"-/8745"	"-/5481"	"-/1826"	""	""	"rs11407713"	"1"	NA	-1	"KIF13B"	"HGNC"	14405	"protein_coding"	"YES"	"CCDS55217.1"	"ENSP00000427900"	"Q9NQT8"	""	"UPI000035B257"	"NM_015254.3"	NA	NA	""	"2/39"	""	"-:0.4842"	"T:0.3994"	"T:0.6441"	NA	"T:0.3046"	"T:0.7137"	"T:0.5961"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"4beb9f10-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"2483"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	29509949	29509950	"+"	"IGR"	"INS"	"-"	"-"	"AAGA"	"rs10665914"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	7	2	"."	0	""	"AAGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10665914"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4175"	"AAGA:0.2897"	"AAGA:0.6686"	NA	"AAGA:0.7004"	"AAGA:0.6332"	"AAGA:0.7434"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"4bf253fa-2764-11e6-9d29-be4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411764705882353	"WXS"	FALSE
"2484"	"WRN"	7486	"mskcc.org"	"GRCh37"	"8"	30993317	30993318	"+"	"Intron"	"INS"	"-"	"-"	"TCTCT"	"rs59676141"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2967+3311_2967+3315dupTCTCT"	""	""	"ENST00000298139"	""	6	"."	4	2	"."	0	"WRN,intron_variant,,ENST00000298139,NM_000553.4;WRN,intron_variant,,ENST00000521620,;SUMO2P16,upstream_gene_variant,,ENST00000519475,;"	"TCTCT"	"ENSG00000165392"	"ENST00000298139"	"Transcript"	"intron_variant"	"-/5215"	"-/4299"	"-/1432"	""	""	"rs59676141"	"1"	NA	1	"WRN"	"HGNC"	12791	"protein_coding"	"YES"	"CCDS6082.1"	"ENSP00000298139"	"Q14191"	""	"UPI000013E49D"	"NM_000553.4"	NA	NA	""	"24/34"	""	"-:0.0407"	"TCTCT:0.8873"	"TCTCT:0.9827"	NA	"TCTCT:0.995"	"TCTCT:0.996"	"TCTCT:0.9652"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"4c2a6196-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	TRUE
"2485"	"RP11-150O12.5"	0	"mskcc.org"	"GRCh37"	"8"	37418428	37418429	"+"	"Intron"	"INS"	"-"	"-"	"CT"	"rs146078284"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.261+301_261+302dupCT"	""	""	"ENST00000522643"	""	28	"."	6	4	"."	0	"RP11-150O12.5,intron_variant,,ENST00000522643,;"	"CT"	"ENSG00000254111"	"ENST00000522643"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/836"	""	""	""	""	"rs146078284"	"1"	NA	1	"RP11-150O12.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"CT:0.2931"	"CT:0.4652"	"CT:0.2579"	NA	"CT:0.4812"	"CT:0.0656"	"CT:0.1258"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"18"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"4ca49bd2-2764-11e6-9d29-be4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"2486"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	38521799	38521837	"+"	"IGR"	"DEL"	"GGAAAGAAAGAAAGAGAAAGAAAGAGAAAGAGAAGGAGA"	"GGAAAGAAAGAAAGAGAAAGAAAGAGAAAGAGAAGGAGA"	"AGAGAAAGAGAAGGA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GGAAAGAAAGAAAGAGAAAGAAAGAGAAAGAGAAGGAGA"	"GGAAAGAAAGAAAGAGAAAGAAAGAGAAAGAGAAGGAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	8	"."	0	""	"AGAGAAAGAGAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGAAAGAAGGAAAGAAAGAAAGAGAAAGAAAGAGAAAGAGAAGGAGAA"	"4705c7d2-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2487"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	39889555	39889556	"+"	"IGR"	"INS"	"-"	"-"	"AGAA"	"rs111798724"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	4	"."	0	""	"AGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs111798724"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4419"	"AGAA:0.413"	"AGAA:0.415"	NA	"AGAA:0.62"	"AGAA:0.6312"	"AGAA:0.7168"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"4d1f5ff2-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2488"	"RP11-359E19.2"	0	"mskcc.org"	"GRCh37"	"8"	39978344	39978345	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs77147891"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.224-4695dupG"	""	""	"ENST00000521257"	""	7	"."	5	1	"."	0	"RP11-359E19.2,intron_variant,,ENST00000521257,;"	"G"	"ENSG00000253665"	"ENST00000521257"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/739"	""	""	""	""	"rs77147891"	"1"	NA	1	"RP11-359E19.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"-:0.0966"	"G:0.677"	"G:0.9625"	NA	"G:0.994"	"G:0.9821"	"G:0.9928"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"4d23acec-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2489"	"ANK1"	286	"mskcc.org"	"GRCh37"	"8"	41522017	41522021	"+"	"Intron"	"DEL"	"AAGAG"	"AAGAG"	"-"	"rs146025758"	NA	"JHCCPT1"	"JHCCPN1"	"AAGAG"	"AAGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5518-761_5518-757delCTCTT"	""	""	"ENST00000265709"	""	19	"."	7	7	"."	0	"ANK1,intron_variant,,ENST00000396942,;ANK1,intron_variant,,ENST00000289734,NM_000037.3;ANK1,intron_variant,,ENST00000347528,NM_020477.2,NM_020476.2,NM_020475.2;ANK1,intron_variant,,ENST00000352337,;ANK1,intron_variant,,ENST00000379758,;ANK1,intron_variant,,ENST00000396945,;ANK1,intron_variant,,ENST00000265709,NM_001142446.1;ANK1,intron_variant,,ENST00000520299,;ANK1,intron_variant,,ENST00000457297,NM_020480.4;ANK1,intron_variant,,ENST00000314214,NM_020478.4;ANK1,intron_variant,,ENST00000522543,NM_001142445.1;ANK1,intron_variant,,ENST00000522231,;ANK1,intron_variant,,ENST00000348036,;ANK1,intron_variant,,ENST00000335651,;MIR486,downstream_gene_variant,,ENST00000408108,;RP11-930P14.1,intron_variant,,ENST00000522388,;RP11-930P14.1,downstream_gene_variant,,ENST00000520418,;RP11-930P14.1,downstream_gene_variant,,ENST00000585088,;ANK1,intron_variant,,ENST00000524227,;ANK1,intron_variant,,ENST00000518715,;ANK1,downstream_gene_variant,,ENST00000518061,;"	"-"	"ENSG00000029534"	"ENST00000265709"	"Transcript"	"intron_variant"	"-/6379"	"-/5694"	"-/1897"	""	""	"rs146025758"	"1"	NA	-1	"ANK1"	"HGNC"	492	"protein_coding"	"YES"	"CCDS47849.1"	"ENSP00000265709"	"P16157"	"Q9UMG4"	"UPI0000E4453A"	"NM_001142446.1"	NA	NA	""	"40/42"	""	"-:0.1328"	"-:0.0257"	"-:0.1686"	NA	"-:0.1448"	"-:0.2087"	"-:0.1616"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAAAGAGA"	"375daa52-2764-11e6-9d29-be4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.368421052631579	"WXS"	FALSE
"2490"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	42524930	42524935	"+"	"IGR"	"DEL"	"TGTGTG"	"TGTGTG"	"-"	"rs56247524"	NA	"JHCCPT1"	"JHCCPN1"	"TGTGTG"	"TGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs56247524"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TGTGTG:0.1709"	"-:0.6528"	"-:0.8703"	NA	"-:0.8363"	"-:0.9543"	"-:0.9018"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATGTGTGT"	"37a9e53e-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2491"	"RP11-643N23.1"	0	"mskcc.org"	"GRCh37"	"8"	43527877	43527878	"+"	"3'Flank"	"INS"	"-"	"-"	"TT"	"rs112974455"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000519417"	""	32	"."	11	8	"."	0	"RP11-643N23.1,downstream_gene_variant,,ENST00000519417,;RP11-643N23.2,upstream_gene_variant,,ENST00000517972,;"	"TT"	"ENSG00000253198"	"ENST00000519417"	"Transcript"	"downstream_gene_variant"	"-/322"	""	""	""	""	"rs112974455"	"1"	"1535"	-1	"RP11-643N23.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.4467"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"4d973e3c-2764-11e6-9d29-be4a424a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34375	"WXS"	FALSE
"2492"	"SNAI2"	6591	"mskcc.org"	"GRCh37"	"8"	49831218	49831219	"+"	"3'UTR"	"DEL"	"GT"	"GT"	"-"	"rs147930178"	NA	"JHCCPT1"	"JHCCPN1"	"GT"	"GT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*147_*148delAC"	""	""	"ENST00000396822"	"4/4"	34	"."	3	11	"."	0	"SNAI2,3_prime_UTR_variant,,ENST00000396822,;SNAI2,3_prime_UTR_variant,,ENST00000020945,NM_003068.4;RP11-22C8.1,downstream_gene_variant,,ENST00000522657,;RP11-22C8.1,downstream_gene_variant,,ENST00000438521,;"	"-"	"ENSG00000019549"	"ENST00000396822"	"Transcript"	"3_prime_UTR_variant"	"1312-1313/2204"	"-/807"	"-/268"	""	""	"rs147930178"	"1"	NA	-1	"SNAI2"	"HGNC"	11094	"protein_coding"	"YES"	"CCDS6146.1"	"ENSP00000380034"	"O43623"	""	"UPI0000135A3A"	""	NA	NA	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGGTG"	"38425026-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WXS"	FALSE
"2493"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	49994632	49994633	"+"	"IGR"	"INS"	"-"	"-"	"AAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"."	4	3	"."	0	""	"AAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"4db2affa-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"2494"	"SNTG1"	54212	"mskcc.org"	"GRCh37"	"8"	51205484	51205485	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs35761201"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-27-101285dupC"	""	""	"ENST00000522124"	""	7	"."	5	1	"."	0	"SNTG1,intron_variant,,ENST00000522124,NM_018967.2,NM_001287813.1;SNTG1,intron_variant,,ENST00000518864,;SNTG1,intron_variant,,ENST00000517473,NM_001287814.1;SNTG1,intron_variant,,ENST00000523085,;SNTG1,intron_variant,,ENST00000520825,;"	"C"	"ENSG00000147481"	"ENST00000522124"	"Transcript"	"intron_variant"	"-/3504"	"-/1554"	"-/517"	""	""	"rs35761201"	"1"	NA	1	"SNTG1"	"HGNC"	13740	"protein_coding"	"YES"	"CCDS6147.1"	"ENSP00000429842"	"Q9NSN8"	"E5RIN0"	"UPI000004A0DD"	"NM_018967.2,NM_001287813.1"	NA	NA	""	"2/18"	""	"C:0.4894"	"C:0.115"	"C:0.6095"	NA	"C:0.8165"	"C:0.5666"	"C:0.4939"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"4db78340-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2495"	"PXDNL"	137902	"mskcc.org"	"GRCh37"	"8"	52361260	52361261	"+"	"Intron"	"INS"	"-"	"-"	"AAACAAAC"	"rs149750971"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1366+294_1366+301dupGTTTGTTT"	""	""	"ENST00000356297"	""	25	"."	9	7	"."	0	"PXDNL,intron_variant,,ENST00000356297,NM_144651.4;PXDNL,intron_variant,,ENST00000543296,;"	"AAACAAAC"	"ENSG00000147485"	"ENST00000356297"	"Transcript"	"intron_variant"	"-/4805"	"-/4392"	"-/1463"	""	""	"rs149750971"	"1"	NA	-1	"PXDNL"	"HGNC"	26359	"protein_coding"	"YES"	"CCDS47855.1"	"ENSP00000348645"	"A1KZ92"	""	"UPI0001AE6ED6"	"NM_144651.4"	NA	NA	""	"11/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"4dde36ca-2764-11e6-9d29-be4a424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36	"WXS"	FALSE
"2496"	"PXDNL"	137902	"mskcc.org"	"GRCh37"	"8"	52526050	52526051	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs5891423"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.237-20793_237-20792insA"	""	""	"ENST00000356297"	""	9	"."	3	1	"."	0	"PXDNL,intron_variant,,ENST00000356297,NM_144651.4;PXDNL,intron_variant,,ENST00000543296,;"	"T"	"ENSG00000147485"	"ENST00000356297"	"Transcript"	"intron_variant"	"-/4805"	"-/4392"	"-/1463"	""	""	"rs5891423"	"1"	NA	-1	"PXDNL"	"HGNC"	26359	"protein_coding"	"YES"	"CCDS47855.1"	"ENSP00000348645"	"A1KZ92"	""	"UPI0001AE6ED6"	"NM_144651.4"	NA	NA	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"4de0de20-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2497"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	54008569	54008571	"+"	"IGR"	"DEL"	"GAG"	"GAG"	"-"	"rs113636679"	NA	"JHCCPT1"	"JHCCPN1"	"GAG"	"GAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	37	"."	4	10	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113636679"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGAGG"	"38b98d12-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WXS"	FALSE
"2498"	"NPM1P21"	0	"mskcc.org"	"GRCh37"	"8"	57015692	57015693	"+"	"5'Flank"	"INS"	"-"	"-"	"CTCTTG"	"rs527295805"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000513394"	""	11	"."	6	2	"."	0	"NPM1P21,upstream_gene_variant,,ENST00000513394,;"	"CTCTTG"	"ENSG00000248578"	"ENST00000513394"	"Transcript"	"upstream_gene_variant"	"-/762"	""	""	""	""	"rs527295805"	"1"	"866"	-1	"NPM1P21"	"HGNC"	13855	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"CTCTTG:0.0020"	"CTCTTG:0"	"CTCTTG:0"	NA	"CTCTTG:0"	"CTCTTG:0.004"	"CTCTTG:0.0061"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"4e2b5e28-2764-11e6-9d29-be4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"2499"	"RP11-246K15.1"	0	"mskcc.org"	"GRCh37"	"8"	58476076	58476077	"+"	"Intron"	"INS"	"-"	"-"	"AAGGAAGG"	"rs542190996"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.78-27937_78-27930dupAGGAAGGA"	""	""	"ENST00000520881"	""	9	"."	3	4	"."	0	"RP11-246K15.1,intron_variant,,ENST00000520881,;"	"AAGGAAGG"	"ENSG00000253821"	"ENST00000520881"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/157"	""	""	""	""	"rs542190996"	"1"	NA	1	"RP11-246K15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"33"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"4e3e7a12-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2500"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	60880091	60880092	"+"	"IGR"	"INS"	"-"	"-"	"CA"	"rs143906431"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	2	"."	0	""	"CA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143906431"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CA:0.4471"	"CA:0.5091"	"CA:0.3084"	NA	"CA:0.4464"	"CA:0.3728"	"CA:0.5389"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"4e5fdaae-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2501"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	61086362	61086372	"+"	"IGR"	"DEL"	"AAAGTCCTCTT"	"AAAGTCCTCTT"	"-"	"rs141645203"	NA	"JHCCPT1"	"JHCCPN1"	"AAAGTCCTCTT"	"AAAGTCCTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141645203"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2676"	"-:0.1868"	"-:0.219"	NA	"-:0.371"	"-:0.3181"	"-:0.2526"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAAAGTCCTCTTA"	"3978b69c-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2502"	"CLVS1"	157807	"mskcc.org"	"GRCh37"	"8"	62015613	62015614	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs35599479"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-242-28708dupT"	""	""	"ENST00000522621"	""	7	"."	7	2	"."	0	"CLVS1,intron_variant,,ENST00000522621,;"	"T"	"ENSG00000177182"	"ENST00000522621"	"Transcript"	"intron_variant"	"-/552"	"-/237"	"-/79"	""	""	"rs35599479"	"1"	NA	1	"CLVS1"	"HGNC"	23139	"protein_coding"	""	""	"ENSP00000428986"	""	"E5RK22"	"UPI0001E8F498"	""	NA	NA	""	"1/2"	""	"T:0.2009"	"T:0.1815"	"T:0.3588"	NA	"T:0.1587"	"T:0.1789"	"T:0.181"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"4e8babac-2764-11e6-9d29-be4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"2503"	"CLVS1"	157807	"mskcc.org"	"GRCh37"	"8"	62252357	62252358	"+"	"Intron"	"INS"	"-"	"-"	"AAG"	"rs145061246"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.456-36806_456-36805insAGA"	""	""	"ENST00000519846"	""	13	"."	5	3	"."	0	"CLVS1,intron_variant,,ENST00000519846,;CLVS1,intron_variant,,ENST00000325897,NM_173519.2;CLVS1,intron_variant,,ENST00000518592,;CLVS1,intron_variant,,ENST00000521189,;"	"AAG"	"ENSG00000177182"	"ENST00000519846"	"Transcript"	"intron_variant"	"-/3622"	"-/1065"	"-/354"	""	""	"rs145061246"	"1"	NA	1	"CLVS1"	"HGNC"	23139	"protein_coding"	"YES"	"CCDS6176.1"	"ENSP00000428402"	"Q8IUQ0"	"G3V122,E5RK22,E5RI68"	"UPI000007472D"	""	NA	NA	""	"3/6"	""	"AAG:0.4788"	"AAG:0.3449"	"AAG:0.4899"	NA	"AAG:0.621"	"AAG:0.504"	"AAG:0.4796"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"4e91c776-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"2504"	"RP11-280G9.1"	101929610	"mskcc.org"	"GRCh37"	"8"	62668972	62668981	"+"	"3'Flank"	"DEL"	"TGTTTTGTTT"	"-"	"-"	"rs77808556"	NA	"JHCCPT1"	"JHCCPN1"	"TGTTTTGTTT"	"TGTTTTGTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000505627"	""	7	"."	5	3	"."	0	"RP11-280G9.1,downstream_gene_variant,,ENST00000505627,;"	"-"	"ENSG00000251127"	"ENST00000505627"	"Transcript"	"downstream_gene_variant"	"-/2750"	""	""	""	""	"rs77808556"	"1"	"2672"	-1	"RP11-280G9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTGTTTTGTTTT"	"39f93ccc-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2505"	"NKAIN3"	286183	"mskcc.org"	"GRCh37"	"8"	63415098	63415099	"+"	"Intron"	"INS"	"-"	"-"	"TCCTTC"	"rs78398478"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55-76986_55-76981dupCCTTCT"	""	""	"ENST00000523211"	""	10	"."	3	6	"."	0	"NKAIN3,intron_variant,,ENST00000523211,NM_173688.2;NKAIN3,intron_variant,,ENST00000328472,;NKAIN3,intron_variant,,ENST00000524201,;NKAIN3,intron_variant,,ENST00000519049,;NKAIN3,intron_variant,,ENST00000523367,;"	"TCCTTC"	"ENSG00000185942"	"ENST00000523211"	"Transcript"	"intron_variant"	"-/1988"	"-/594"	"-/197"	""	""	"rs78398478"	"1"	NA	1	"NKAIN3"	"HGNC"	26829	"protein_coding"	"YES"	"CCDS55239.1"	"ENSP00000429073"	"Q8N8D7"	""	"UPI000006F596"	"NM_173688.2"	NA	NA	""	"1/6"	""	"-:0.3624"	"TCCTTC:0.5477"	"TCCTTC:0.621"	NA	"TCCTTC:0.5327"	"TCCTTC:0.7157"	"TCCTTC:0.7986"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"19"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"4e9fc43e-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"2506"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	66494722	66494727	"+"	"IGR"	"DEL"	"AGAAGG"	"AGAAGG"	"-"	"rs145594739"	NA	"JHCCPT1"	"JHCCPN1"	"AGAAGG"	"AGAAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	3	19	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145594739"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AGAAGG:0.1723"	"-:0.5817"	"-:0.9236"	NA	"-:0.8681"	"-:0.9732"	"-:0.9008"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAGAAGGA"	"3a4d9196-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"2507"	"ARMC1"	55156	"mskcc.org"	"GRCh37"	"8"	66534950	66534951	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs552531255"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.184-363_184-362dupTT"	""	""	"ENST00000276569"	""	13	"."	3	7	"."	0	"ARMC1,intron_variant,,ENST00000276569,NM_018120.4;ARMC1,intron_variant,,ENST00000518908,;ARMC1,intron_variant,,ENST00000458464,NM_001286702.1;ARMC1,intron_variant,,ENST00000519352,;ARMC1,intron_variant,,ENST00000523384,;ARMC1,intron_variant,,ENST00000528721,;"	"AA"	"ENSG00000104442"	"ENST00000276569"	"Transcript"	"intron_variant"	"-/3029"	"-/849"	"-/282"	""	""	"rs552531255"	"1"	NA	-1	"ARMC1"	"HGNC"	17684	"protein_coding"	"YES"	"CCDS6181.1"	"ENSP00000276569"	"Q9NVT9"	"E5RJ86,E5RHK3"	"UPI000004A03D"	"NM_018120.4"	NA	NA	""	"2/6"	""	"-:0.3482"	"AA:0.7254"	"AA:0.5994"	NA	"AA:0.5853"	"AA:0.6252"	"AA:0.6851"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"4ec62ef8-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"2508"	"ADHFE1"	137872	"mskcc.org"	"GRCh37"	"8"	67351283	67351284	"+"	"Intron"	"INS"	"-"	"-"	"GGCCC"	"rs201366185"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.60-1112_60-1108dupGCCCG"	""	""	"ENST00000396623"	""	11	"."	5	6	"."	0	"ADHFE1,intron_variant,,ENST00000396623,NM_144650.2;ADHFE1,intron_variant,,ENST00000415254,;ADHFE1,intron_variant,,ENST00000379385,;ADHFE1,intron_variant,,ENST00000523113,;ADHFE1,intron_variant,,ENST00000496501,;ADHFE1,upstream_gene_variant,,ENST00000518781,;ADHFE1,intron_variant,,ENST00000424777,;ADHFE1,intron_variant,,ENST00000426810,;ADHFE1,intron_variant,,ENST00000419955,;ADHFE1,intron_variant,,ENST00000276576,;ADHFE1,intron_variant,,ENST00000396621,;ADHFE1,intron_variant,,ENST00000422166,;ADHFE1,intron_variant,,ENST00000466920,;ADHFE1,intron_variant,,ENST00000449512,;ADHFE1,intron_variant,,ENST00000463261,;ADHFE1,intron_variant,,ENST00000431959,;ADHFE1,intron_variant,,ENST00000443372,;"	"GGCCC"	"ENSG00000147576"	"ENST00000396623"	"Transcript"	"intron_variant"	"-/1990"	"-/1404"	"-/467"	""	""	"rs201366185"	"1"	NA	1	"ADHFE1"	"HGNC"	16354	"protein_coding"	"YES"	"CCDS6190.2"	"ENSP00000379865"	"Q8IWW8"	"E5RFL4"	"UPI000004966C"	"NM_144650.2"	NA	NA	""	"1/13"	""	"GGCCC:0.0056"	"GGCCC:0.0015"	"GGCCC:0.0144"	NA	"GGCCC:0"	"GGCCC:0.0149"	"GGCCC:0.001"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"4eced24c-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"2509"	"PREX2"	80243	"mskcc.org"	"GRCh37"	"8"	69017916	69017917	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs57440333"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2716-2428_2716-2427insA"	""	""	"ENST00000288368"	""	8	"."	3	1	"."	0	"PREX2,intron_variant,,ENST00000288368,NM_024870.2,NM_025170.4;PREX2,non_coding_transcript_exon_variant,,ENST00000529398,;PREX2,intron_variant,,ENST00000517617,;"	"A"	"ENSG00000046889"	"ENST00000288368"	"Transcript"	"intron_variant"	"-/10750"	"-/4821"	"-/1606"	""	""	"rs57440333"	"1"	NA	1	"PREX2"	"HGNC"	22950	"protein_coding"	"YES"	"CCDS6201.1"	"ENSP00000288368"	"Q70Z35"	"Q56UR8"	"UPI0000375435"	"NM_024870.2,NM_025170.4"	NA	NA	""	"23/39"	""	"-:0.0004"	"A:1"	"A:1"	NA	"A:0.999"	"A:1"	"A:0.999"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"4ee3e7e0-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2510"	"RP11-664D7.4"	0	"mskcc.org"	"GRCh37"	"8"	69224115	69224116	"+"	"Intron"	"INS"	"-"	"-"	"CTCC"	"rs10622380"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.182-5286_182-5283dupGGAG"	""	""	"ENST00000512294"	""	16	"."	4	6	"."	0	"RP11-664D7.4,intron_variant,,ENST00000512294,;RP11-664D7.4,intron_variant,,ENST00000584858,;"	"CTCC"	"ENSG00000248801"	"ENST00000512294"	"Transcript"	"intron_variant"	"-/1600"	"-/294"	"-/97"	""	""	"rs10622380"	"1"	NA	-1	"RP11-664D7.4"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000427961"	""	"G3XAN2"	"UPI0000D4A71D"	""	NA	NA	""	"1/2"	""	"-:0.0813"	"CTCC:0.9652"	"CTCC:0.9597"	NA	"CTCC:0.7599"	"CTCC:0.9404"	"CTCC:0.9683"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"4ee79aac-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2511"	"SULF1"	23213	"mskcc.org"	"GRCh37"	"8"	70436405	70436406	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs5892195"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-134+22204dupA"	""	""	"ENST00000260128"	""	9	"."	4	2	"."	0	"SULF1,intron_variant,,ENST00000260128,NM_015170.2;SULF1,intron_variant,,ENST00000458141,NM_001128204.1;SULF1,intron_variant,,ENST00000402687,NM_001128205.1;SULF1,intron_variant,,ENST00000419716,NM_001128206.1;SULF1,intron_variant,,ENST00000525061,;SULF1,intron_variant,,ENST00000529134,;SULF1,intron_variant,,ENST00000529041,;"	"A"	"ENSG00000137573"	"ENST00000260128"	"Transcript"	"intron_variant"	"-/5710"	"-/2616"	"-/871"	""	""	"rs5892195"	"1"	NA	1	"SULF1"	"HGNC"	20391	"protein_coding"	"YES"	"CCDS6204.1"	"ENSP00000260128"	"Q8IWU6"	"Q96E28,E9PS14,E9PPQ3,E9PLS5,E9PJL8,E9PI06"	"UPI000003FD82"	"NM_015170.2"	NA	NA	""	"3/22"	""	"-:0.1308"	"A:0.9319"	"A:0.8401"	NA	"A:0.8869"	"A:0.7873"	"A:0.8712"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"4efb7e6e-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2512"	"NCOA2"	10499	"mskcc.org"	"GRCh37"	"8"	71082125	71082126	"+"	"Intron"	"INS"	"-"	"-"	"ATCATC"	"rs145655138"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.541+306_541+311dupGATGAT"	""	""	"ENST00000452400"	""	13	"."	3	3	"."	0	"NCOA2,intron_variant,,ENST00000452400,NM_006540.2;NCOA2,intron_variant,,ENST00000518287,;"	"ATCATC"	"ENSG00000140396"	"ENST00000452400"	"Transcript"	"intron_variant"	"-/8447"	"-/4395"	"-/1464"	""	""	"rs145655138"	"1"	NA	-1	"NCOA2"	"HGNC"	7669	"protein_coding"	"YES"	"CCDS47872.1"	"ENSP00000399968"	"Q15596"	""	"UPI000012FE42"	"NM_006540.2"	NA	NA	""	"6/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"4f0a0ce0-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	TRUE
"2513"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	84729786	84729787	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs141963886"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141963886"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.0631"	"T:0.0098"	"T:0.0778"	NA	"T:0"	"T:0.172"	"T:0.0777"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"4fbb94c4-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2514"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	88780881	88780882	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs138548501"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138548501"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.1757"	"A:0.0189"	"A:0.2046"	NA	"A:0.1111"	"A:0.3201"	"A:0.2853"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"500360d8-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2515"	"MMP16"	4325	"mskcc.org"	"GRCh37"	"8"	89341036	89341036	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"rs372964605"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000286614"	""	15	"."	8	5	"."	0	"MMP16,upstream_gene_variant,,ENST00000286614,NM_005941.4;MMP16,upstream_gene_variant,,ENST00000522726,;RP11-586K2.1,intron_variant,,ENST00000520849,;RP11-586K2.1,intron_variant,,ENST00000521433,;RP11-586K2.1,intron_variant,,ENST00000523254,;MMP16,upstream_gene_variant,,ENST00000544227,;MMP16,upstream_gene_variant,,ENST00000520568,;"	"-"	"ENSG00000156103"	"ENST00000286614"	"Transcript"	"upstream_gene_variant"	"-/11558"	"-/1824"	"-/607"	""	""	"rs372964605"	"1"	"1319"	-1	"MMP16"	"HGNC"	7162	"protein_coding"	"YES"	"CCDS6246.1"	"ENSP00000286614"	"P51512"	""	"UPI000003DC73"	"NM_005941.4"	NA	NA	""	""	""	"-:0.0034"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAG"	"3d281a6c-2764-11e6-9d29-be4a424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.533333333333333	"WXS"	FALSE
"2516"	"TMEM64"	169200	"mskcc.org"	"GRCh37"	"8"	91739139	91739139	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs61456236"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-239+588delG"	""	""	"ENST00000519519"	""	7	"."	3	2	"."	0	"TMEM64,intron_variant,,ENST00000519519,;TMEM64,intron_variant,,ENST00000521852,;TMEM64,intron_variant,,ENST00000521211,;"	"-"	"ENSG00000180694"	"ENST00000519519"	"Transcript"	"intron_variant"	"-/873"	"-/360"	"-/119"	""	""	"rs61456236"	"1"	NA	-1	"TMEM64"	"HGNC"	25441	"protein_coding"	""	""	"ENSP00000429832"	"Q6YI46"	"E5RIS8"	"UPI00006A8634"	""	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"3d503fa6-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2517"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	96977928	96977929	"+"	"IGR"	"INS"	"-"	"-"	"AGGAAGGAAGGAAGGAAGGA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	1	"."	0	""	"AGGAAGGAAGGAAGGAAGGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"50863b84-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2518"	"SDC2"	6383	"mskcc.org"	"GRCh37"	"8"	97553923	97553923	"+"	"Intron"	"DEL"	"G"	"-"	"-"	"rs36090888"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.60+47368delG"	""	""	"ENST00000302190"	""	6	"."	5	1	"."	0	"SDC2,intron_variant,,ENST00000302190,NM_002998.3;SDC2,intron_variant,,ENST00000518385,;SDC2,intron_variant,,ENST00000522911,;SDC2,downstream_gene_variant,,ENST00000520233,;SDC2,downstream_gene_variant,,ENST00000519587,;"	"-"	"ENSG00000169439"	"ENST00000302190"	"Transcript"	"intron_variant"	"-/3751"	"-/606"	"-/201"	""	""	"rs36090888"	"1"	NA	1	"SDC2"	"HGNC"	10659	"protein_coding"	"YES"	"CCDS6272.1"	"ENSP00000307046"	"P34741"	"E5RJB8,E9PBI9,E5RHU3,B4DT61"	"UPI000013E7A4"	"NM_002998.3"	NA	NA	""	"1/4"	""	"G:0.4347"	"-:0.2163"	"-:0.6239"	NA	"-:0.7629"	"-:0.7505"	"-:0.6012"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGG"	"3e46c9b6-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2519"	"PABPC1"	26986	"mskcc.org"	"GRCh37"	"8"	101721108	101721109	"+"	"Intron"	"INS"	"-"	"-"	"AAAT"	"rs143041643"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1336+249_1336+252dupATTT"	""	""	"ENST00000318607"	""	9	"."	4	7	"."	0	"PABPC1,intron_variant,,ENST00000318607,NM_002568.3;PABPC1,intron_variant,,ENST00000519004,;PABPC1,intron_variant,,ENST00000522387,;PABPC1,intron_variant,,ENST00000517403,;PABPC1,upstream_gene_variant,,ENST00000520868,;PABPC1,downstream_gene_variant,,ENST00000519100,;PABPC1,upstream_gene_variant,,ENST00000522658,;PABPC1,upstream_gene_variant,,ENST00000518293,;PABPC1,downstream_gene_variant,,ENST00000523555,;PABPC1,upstream_gene_variant,,ENST00000517990,;AP001205.1,upstream_gene_variant,,ENST00000579868,;PABPC1,intron_variant,,ENST00000519596,;PABPC1,intron_variant,,ENST00000523636,;PABPC1,intron_variant,,ENST00000518716,;PABPC1,downstream_gene_variant,,ENST00000517921,;PABPC1,upstream_gene_variant,,ENST00000519848,;PABPC1,downstream_gene_variant,,ENST00000519622,;"	"AAAT"	"ENSG00000070756"	"ENST00000318607"	"Transcript"	"intron_variant"	"-/3485"	"-/1911"	"-/636"	""	""	"rs143041643"	"1"	NA	-1	"PABPC1"	"HGNC"	8554	"protein_coding"	"YES"	"CCDS6289.1"	"ENSP00000313007"	"P11940"	"H0YB75,E7EQV3,E5RJM8,E5RJB9,E5RHG7,E5RH24,E5RGH3,E5RGC4,E5RFD8"	"UPI0000000BC4"	"NM_002568.3"	NA	NA	""	"9/14"	""	"-:0.4806"	"AAAT:0.6694"	"AAAT:0.451"	NA	"AAAT:0.4841"	"AAAT:0.4404"	"AAAT:0.4826"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"51087f40-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2520"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	103588267	103588268	"+"	"IGR"	"INS"	"-"	"A"	"A"	"rs35011032"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35011032"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1849"	"A:0.711"	"A:0.8862"	NA	"A:0.7054"	"A:0.9324"	"A:0.8978"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"51478528-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2521"	"KB-1639H6.4"	379034	"mskcc.org"	"GRCh37"	"8"	104130593	104130594	"+"	"5'Flank"	"INS"	"-"	"-"	"ATTCATTC"	"rs148602772"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000503718"	""	12	"."	7	2	"."	0	"KB-1639H6.4,upstream_gene_variant,,ENST00000503718,;"	"ATTCATTC"	"ENSG00000250929"	"ENST00000503718"	"Transcript"	"upstream_gene_variant"	"-/556"	""	""	""	""	"rs148602772"	"1"	"2666"	1	"KB-1639H6.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"ATAC:0.0026"	"ATTCATTCATTC:0.0424"	"ATTCATTCATTC:0.0375"	NA	"ATTCATTCATTC:0.0565"	"ATTCATTCATTC:0.0666"	"ATTCATTCATTC:0.0143"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"51654a72-2764-11e6-9d29-be4a424a729f"	"345"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"2522"	"RP11-127H5.1"	0	"mskcc.org"	"GRCh37"	"8"	105692234	105692234	"+"	"Intron"	"DEL"	"C"	"-"	"-"	"rs60121291"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-124-34837delC"	""	""	"ENST00000521923"	""	7	"."	5	1	"."	0	"RP11-127H5.1,intron_variant,,ENST00000521923,;"	"-"	"ENSG00000253350"	"ENST00000521923"	"Transcript"	"intron_variant"	"-/720"	"-/294"	"-/97"	""	""	"rs60121291"	"1"	NA	1	"RP11-127H5.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000427891"	""	"E5RFX5"	"UPI0001E8F5B4"	""	NA	NA	""	"1/4"	""	"C:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCC"	"3fe7a358-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2523"	"ZFPM2"	23414	"mskcc.org"	"GRCh37"	"8"	106331094	106331095	"+"	"5'UTR"	"INS"	"-"	"-"	"GCGGCGGGA"	"rs774809657"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-73_-65dupGGCGGGAGC"	""	""	"ENST00000407775"	"1/8"	20	"."	4	3	"."	0	"ZFPM2,5_prime_UTR_variant,,ENST00000407775,NM_012082.3;ZFPM2,upstream_gene_variant,,ENST00000520492,;RP11-127H5.1,intron_variant,,ENST00000518180,;"	"GCGGCGGGA"	"ENSG00000169946"	"ENST00000407775"	"Transcript"	"5_prime_UTR_variant"	"175-176/4700"	"-/3456"	"-/1151"	""	""	"rs774809657"	"1"	NA	1	"ZFPM2"	"HGNC"	16700	"protein_coding"	"YES"	"CCDS47908.1"	"ENSP00000384179"	"Q8WW38"	"Q9NPQ0,F5H542,E7ET52,E5RJX0"	"UPI000057A0B4"	"NM_012082.3"	NA	NA	"1/8"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"11"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGG"	"51c8a5a4-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"2524"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	108233546	108233546	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs11328168"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11328168"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2720"	"-:0.1967"	"-:0.3256"	NA	"-:0.246"	"-:0.3191"	"-:0.3139"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACA"	"401f6ca2-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2525"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	110141832	110141833	"+"	"IGR"	"INS"	"-"	"-"	"CA"	"rs35193960"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"CA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35193960"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"51e1bb66-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2526"	"CSMD3"	114788	"mskcc.org"	"GRCh37"	"8"	113599086	113599086	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs35354905"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3885+209delT"	""	""	"ENST00000297405"	""	17	"."	5	2	"."	0	"CSMD3,intron_variant,,ENST00000297405,NM_198123.1;CSMD3,intron_variant,,ENST00000343508,NM_198124.1;CSMD3,intron_variant,,ENST00000352409,;CSMD3,intron_variant,,ENST00000455883,NM_052900.2;CSMD3,intron_variant,,ENST00000339701,;"	"-"	"ENSG00000164796"	"ENST00000297405"	"Transcript"	"intron_variant"	"-/13212"	"-/11124"	"-/3707"	""	""	"rs35354905"	"1"	NA	-1	"CSMD3"	"HGNC"	19291	"protein_coding"	"YES"	"CCDS6315.1"	"ENSP00000297405"	"Q7Z407"	""	"UPI00001E0584"	"NM_198123.1"	NA	NA	""	"23/70"	""	"A:0.4338"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"40cf6d82-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"2527"	"CSMD3"	114788	"mskcc.org"	"GRCh37"	"8"	113649631	113649631	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs35870209"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3527-397delG"	""	""	"ENST00000297405"	""	7	"."	3	1	"."	0	"CSMD3,intron_variant,,ENST00000297405,NM_198123.1;CSMD3,intron_variant,,ENST00000343508,NM_198124.1;CSMD3,intron_variant,,ENST00000352409,;CSMD3,intron_variant,,ENST00000455883,NM_052900.2;CSMD3,intron_variant,,ENST00000339701,;"	"-"	"ENSG00000164796"	"ENST00000297405"	"Transcript"	"intron_variant"	"-/13212"	"-/11124"	"-/3707"	""	""	"rs35870209"	"1"	NA	-1	"CSMD3"	"HGNC"	19291	"protein_coding"	"YES"	"CCDS6315.1"	"ENSP00000297405"	"Q7Z407"	""	"UPI00001E0584"	"NM_198123.1"	NA	NA	""	"21/70"	""	"-:0.4483"	"-:0.6021"	"-:0.4553"	NA	"-:0.2748"	"-:0.4344"	"-:0.4284"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCT"	"40d76938-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2528"	"CSMD3"	114788	"mskcc.org"	"GRCh37"	"8"	113960338	113960338	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs33938771"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1421-232delA"	""	""	"ENST00000297405"	""	19	"."	7	5	"."	0	"CSMD3,intron_variant,,ENST00000297405,NM_198123.1;CSMD3,intron_variant,,ENST00000343508,NM_198124.1;CSMD3,intron_variant,,ENST00000352409,;CSMD3,intron_variant,,ENST00000455883,NM_052900.2;"	"-"	"ENSG00000164796"	"ENST00000297405"	"Transcript"	"intron_variant"	"-/13212"	"-/11124"	"-/3707"	""	""	"rs33938771"	"1"	NA	-1	"CSMD3"	"HGNC"	19291	"protein_coding"	"YES"	"CCDS6315.1"	"ENSP00000297405"	"Q7Z407"	""	"UPI00001E0584"	"NM_198123.1"	NA	NA	""	"8/70"	""	"T:0.2374"	"-:0.8858"	"-:0.7594"	NA	"-:0.9236"	"-:0.4891"	"-:0.7137"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"40e11e2e-2764-11e6-9d29-be4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.368421052631579	"WXS"	FALSE
"2529"	"TRPS1"	7227	"mskcc.org"	"GRCh37"	"8"	116527823	116527823	"+"	"Intron"	"DEL"	"G"	"-"	"-"	"rs5894266"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2700+71405delC"	""	""	"ENST00000395715"	""	10	"."	7	2	"."	0	"TRPS1,intron_variant,,ENST00000395715,NM_014112.2,NM_001282903.1;TRPS1,intron_variant,,ENST00000220888,;TRPS1,intron_variant,,ENST00000520276,NM_001282902.1;TRPS1,intron_variant,,ENST00000519076,;TRPS1,intron_variant,,ENST00000519674,;AF178030.2,downstream_gene_variant,,ENST00000415088,;"	"-"	"ENSG00000104447"	"ENST00000395715"	"Transcript"	"intron_variant"	"-/9990"	"-/3885"	"-/1294"	""	""	"rs5894266"	"1"	NA	-1	"TRPS1"	"HGNC"	12340	"protein_coding"	"YES"	"CCDS6318.2"	"ENSP00000379065"	"Q9UHF7"	"F8W8T0,E7EVN4,C9J6L7"	"UPI00002104B8"	"NM_014112.2,NM_001282903.1"	NA	NA	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTGG"	"40f14a7e-2764-11e6-9d29-be4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"2530"	"TRPS1"	7227	"mskcc.org"	"GRCh37"	"8"	116747242	116747243	"+"	"Intron"	"INS"	"-"	"-"	"TTCTTTCTTTCTTTCTTTCTTTCTTTCT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-355-33971_-355-33944dupAGAAAGAAAGAAAGAAAGAAAGAAAGAA"	""	""	"ENST00000422939"	""	11	"."	3	6	"."	0	"TRPS1,intron_variant,,ENST00000422939,;"	"TTCTTTCTTTCTTTCTTTCTTTCTTTCT"	"ENSG00000104447"	"ENST00000422939"	"Transcript"	"intron_variant"	"-/581"	"-/185"	"-/61"	""	""	""	"1"	NA	-1	"TRPS1"	"HGNC"	12340	"protein_coding"	""	""	"ENSP00000405028"	""	"C9J6L7"	"UPI000155D69C"	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"523078aa-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2531"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	117377883	117377902	"+"	"IGR"	"DEL"	"AAAGAAAGAAAGAAAGAAAA"	"AAAGAAAGAAAGAAAGAAAA"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AAAGAAAGAAAGAAAGAAAA"	"AAAGAAAGAAAGAAAGAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	3	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAAGAAAGAAAGAAAGAAAAA"	"40fe3f90-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"2532"	"TAF2"	6873	"mskcc.org"	"GRCh37"	"8"	120754578	120754578	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs77809633"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3337+196delT"	""	""	"ENST00000378164"	""	19	"."	8	3	"."	0	"TAF2,intron_variant,,ENST00000378164,NM_003184.3;TAF2,intron_variant,,ENST00000529653,;TAF2,downstream_gene_variant,,ENST00000519355,;TAF2,intron_variant,,ENST00000526969,;"	"-"	"ENSG00000064313"	"ENST00000378164"	"Transcript"	"intron_variant"	"-/5048"	"-/3600"	"-/1199"	""	""	"rs77809633"	"1"	NA	-1	"TAF2"	"HGNC"	11536	"protein_coding"	"YES"	"CCDS34937.1"	"ENSP00000367406"	"Q6P1X5"	""	"UPI0000210507"	"NM_003184.3"	NA	NA	""	"25/25"	""	"-:0.2492"	"-:0.0484"	"-:0.4813"	NA	"-:0.3849"	"-:0.3459"	"-:0.1166"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATAC"	"4184392e-2764-11e6-9d29-be4a424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.421052631578947	"WXS"	FALSE
"2533"	"TAF2"	6873	"mskcc.org"	"GRCh37"	"8"	120757572	120757577	"+"	"Intron"	"DEL"	"TATAAA"	"TATAAA"	"-"	"rs66493084"	NA	"JHCCPT1"	"JHCCPN1"	"TATAAA"	"TATAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3109-944_3109-939delTTTATA"	""	""	"ENST00000378164"	""	12	"."	5	4	"."	0	"TAF2,intron_variant,,ENST00000378164,NM_003184.3;TAF2,intron_variant,,ENST00000529653,;TAF2,downstream_gene_variant,,ENST00000519355,;TAF2,upstream_gene_variant,,ENST00000526969,;"	"-"	"ENSG00000064313"	"ENST00000378164"	"Transcript"	"intron_variant"	"-/5048"	"-/3600"	"-/1199"	""	""	"rs66493084"	"1"	NA	-1	"TAF2"	"HGNC"	11536	"protein_coding"	"YES"	"CCDS34937.1"	"ENSP00000367406"	"Q6P1X5"	""	"UPI0000210507"	"NM_003184.3"	NA	NA	""	"23/25"	""	"-:0.2494"	"-:0.0484"	"-:0.4813"	NA	"-:0.3859"	"-:0.3459"	"-:0.1166"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATTATAAAT"	"418629dc-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"2534"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	123549483	123549484	"+"	"IGR"	"INS"	"-"	"A"	"A"	"rs35254437"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35254437"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3482"	"A:0.0242"	"A:0.4611"	NA	"A:0.6895"	"A:0.339"	"A:0.364"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"528f087a-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2535"	"WDYHV1"	55093	"mskcc.org"	"GRCh37"	"8"	124440818	124440819	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs34714492"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.183+564dupT"	""	""	"ENST00000287387"	""	6	"."	3	3	"."	0	"WDYHV1,intron_variant,,ENST00000523984,NM_001283024.1;WDYHV1,intron_variant,,ENST00000287387,NM_018024.1;WDYHV1,intron_variant,,ENST00000523356,;WDYHV1,intron_variant,,ENST00000522194,;WDYHV1,upstream_gene_variant,,ENST00000518125,;WDYHV1,intron_variant,,ENST00000517609,;WDYHV1,intron_variant,,ENST00000523551,;WDYHV1,intron_variant,,ENST00000524254,;WDYHV1,intron_variant,,ENST00000519199,;"	"T"	"ENSG00000156795"	"ENST00000287387"	"Transcript"	"intron_variant"	"-/1349"	"-/618"	"-/205"	""	""	"rs34714492"	"1"	NA	1	"WDYHV1"	"HGNC"	25490	"protein_coding"	"YES"	"CCDS6344.1"	"ENSP00000287387"	"Q96HA8"	"E5RIY9,B4DE68"	"UPI0000073310"	"NM_018024.1"	NA	NA	""	"2/5"	""	"T:0.3978"	"T:0.2973"	"T:0.3934"	NA	"T:0.5853"	"T:0.3131"	"T:0.4305"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"52b836c8-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2536"	"KLHL38"	340359	"mskcc.org"	"GRCh37"	"8"	124657725	124657750	"+"	"3'Flank"	"DEL"	"CAGAGATAGGGGAGAGAAAGAAAGAA"	"CAGAGATAGGGGAGAGAAAGAAAGAA"	"GATAGGGGAGAGAAAGAAAGAAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CAGAGATAGGGGAGAGAAAGAAAGAA"	"CAGAGATAGGGGAGAGAAAGAAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000325995"	""	32	"."	7	7	"."	0	"KLHL38,downstream_gene_variant,,ENST00000325995,NM_001081675.2;CTD-2552K11.2,intron_variant,,ENST00000524355,;"	"GATAGGGGAGAGAAAGAAAGAAG"	"ENSG00000175946"	"ENST00000325995"	"Transcript"	"downstream_gene_variant"	"-/1982"	"-/1746"	"-/581"	""	""	""	"1"	"17"	-1	"KLHL38"	"HGNC"	34435	"protein_coding"	"YES"	"CCDS43766.1"	"ENSP00000321475"	"Q2WGJ6"	""	"UPI00001D82D1"	"NM_001081675.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACAGAGATAGGGGAGAGAAAGAAAGAAG"	"478334c4-2764-11e6-9d29-be4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WXS"	FALSE
"2537"	"ANXA13"	312	"mskcc.org"	"GRCh37"	"8"	124708793	124708793	"+"	"Intron"	"DEL"	"C"	"-"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.481-832delG"	""	""	"ENST00000262219"	""	7	"."	5	1	"."	0	"ANXA13,intron_variant,,ENST00000262219,NM_001003954.1;ANXA13,intron_variant,,ENST00000419625,NM_004306.2;ANXA13,intron_variant,,ENST00000520519,;"	"-"	"ENSG00000104537"	"ENST00000262219"	"Transcript"	"intron_variant"	"-/1588"	"-/1074"	"-/357"	""	""	""	"1"	NA	-1	"ANXA13"	"HGNC"	536	"protein_coding"	"YES"	"CCDS34939.1"	"ENSP00000262219"	"P27216"	"E5RIN3"	"UPI000016A41E"	"NM_001003954.1"	NA	NA	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"427a94d6-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2538"	"FER1L6"	654463	"mskcc.org"	"GRCh37"	"8"	125109328	125109337	"+"	"Intron"	"DEL"	"ATATATATAC"	"ATATATATAC"	"-"	"rs764055502"	NA	"JHCCPT1"	"JHCCPN1"	"ATATATATAC"	"ATATATATAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4696-181_4696-172delTATATACATA"	""	""	"ENST00000522917"	""	38	"."	3	15	"."	0	"FER1L6,intron_variant,,ENST00000522917,NM_001039112.2;FER1L6,intron_variant,,ENST00000399018,;FER1L6-AS2,intron_variant,,ENST00000520031,;"	"-"	"ENSG00000214814"	"ENST00000522917"	"Transcript"	"intron_variant"	"-/6051"	"-/5574"	"-/1857"	""	""	"rs764055502"	"1"	NA	1	"FER1L6"	"HGNC"	28065	"protein_coding"	"YES"	"CCDS43767.1"	"ENSP00000428280"	"Q2WGJ9"	""	"UPI0000E9B4AA"	"NM_001039112.2"	NA	NA	""	"35/40"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATATATATACA"	"429a4f6a-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WXS"	FALSE
"2539"	"ENSR00001445472"	0	"mskcc.org"	"GRCh37"	"8"	129288885	129288886	"+"	"IGR"	"INS"	"-"	"-"	"CTTC"	"rs34411686"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001445472"	""	10	"."	3	3	"."	0	""	"CTTC"	""	"ENSR00001445472"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs34411686"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"CTTC:0.1532"	"CTTC:0.3775"	"CTTC:0.0735"	NA	"CTTC:0.0565"	"CTTC:0.0934"	"CTTC:0.0675"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"530cbb12-2764-11e6-9d29-be4a424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"2540"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	130107461	130107463	"+"	"IGR"	"DEL"	"ATT"	"ATT"	"-"	"rs140533956"	NA	"JHCCPT1"	"JHCCPN1"	"ATT"	"ATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140533956"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1102"	"-:0.0272"	"-:0.085"	NA	"-:0.0992"	"-:0.1451"	"-:0.2157"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAATTA"	"433b7020-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2541"	"RP11-1057N3.2"	0	"mskcc.org"	"GRCh37"	"8"	130263599	130263600	"+"	"3'Flank"	"INS"	"-"	"-"	"C"	"rs5894979"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000517442"	""	10	"."	4	2	"."	0	"RP11-1057N3.2,downstream_gene_variant,,ENST00000517442,;"	"C"	"ENSG00000253225"	"ENST00000517442"	"Transcript"	"downstream_gene_variant"	"-/172"	""	""	""	""	"rs5894979"	"1"	"215"	1	"RP11-1057N3.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2919"	"C:0.708"	"C:0.7075"	NA	"C:0.8244"	"C:0.6223"	"C:0.6769"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"53124e38-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2542"	"CCDC26"	0	"mskcc.org"	"GRCh37"	"8"	130486240	130486241	"+"	"Intron"	"INS"	"-"	"GCTTAACATG"	"GCTTAACATG"	"rs112419261"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.360+6639_360+6648dupCATGTTAAGC"	""	""	"ENST00000446592"	""	7	"."	5	1	"."	0	"CCDC26,intron_variant,,ENST00000446592,;CCDC26,intron_variant,,ENST00000523151,;CCDC26,intron_variant,,ENST00000520048,;"	"GCTTAACATG"	"ENSG00000229140"	"ENST00000446592"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1721"	""	""	""	""	"rs112419261"	"1"	NA	-1	"CCDC26"	"HGNC"	28416	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	"-:0.3253"	"GCTTAACATG:0.8812"	"GCTTAACATG:0.5418"	NA	"GCTTAACATG:0.4871"	"GCTTAACATG:0.6203"	"GCTTAACATG:0.7393"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"531d698a-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2543"	"CCDC26"	0	"mskcc.org"	"GRCh37"	"8"	130495395	130495395	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs150773766"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.313-2459delC"	""	""	"ENST00000446592"	""	16	"."	4	5	"."	0	"CCDC26,intron_variant,,ENST00000446592,;CCDC26,intron_variant,,ENST00000523151,;CCDC26,intron_variant,,ENST00000520048,;MIR3686,downstream_gene_variant,,ENST00000577904,;"	"-"	"ENSG00000229140"	"ENST00000446592"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1721"	""	""	""	""	"rs150773766"	"1"	NA	-1	"CCDC26"	"HGNC"	28416	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"4341e928-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2544"	"ENSR00001402118"	0	"mskcc.org"	"GRCh37"	"8"	131048645	131048646	"+"	"IGR"	"INS"	"-"	"C"	"C"	"rs11373187"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001402118"	""	8	"."	6	1	"."	0	""	"C"	""	"ENSR00001402118"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs11373187"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2316"	"C:0.8661"	"C:0.8833"	NA	"C:0.8264"	"C:0.6958"	"C:0.5695"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"532001ea-2764-11e6-9d29-be4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"2545"	"ENSR00001445692"	0	"mskcc.org"	"GRCh37"	"8"	131495386	131495387	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs11441013"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001445692"	""	6	"."	4	4	"."	0	""	"T"	""	"ENSR00001445692"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs11441013"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.4864"	"T:0.3268"	"T:0.5562"	NA	"T:0.5377"	"T:0.493"	"T:0.593"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"533c40ee-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2546"	"HHLA1"	10086	"mskcc.org"	"GRCh37"	"8"	133090419	133090424	"+"	"Intron"	"DEL"	"ACACAC"	"ACACAC"	"-"	"rs201203744"	NA	"JHCCPT1"	"JHCCPN1"	"ACACAC"	"ACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1034-206_1034-201delGTGTGT"	""	""	"ENST00000434736"	""	20	"."	4	14	"."	0	"HHLA1,intron_variant,,ENST00000414222,NM_001145095.1;OC90,intron_variant,,ENST00000262283,;HHLA1,intron_variant,,ENST00000434736,;HHLA1,intron_variant,,ENST00000473291,;"	"-"	"ENSG00000132297"	"ENST00000434736"	"Transcript"	"intron_variant"	"-/2369"	"-/1632"	"-/543"	""	""	"rs201203744"	"1"	NA	-1	"HHLA1"	"HGNC"	4904	"protein_coding"	"YES"	""	"ENSP00000407107"	""	"C9JY47"	"UPI00021CEF49"	""	NA	NA	""	"12/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAACACACA"	"439d308a-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"2547"	"KCNQ3"	3786	"mskcc.org"	"GRCh37"	"8"	133144908	133144909	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs3837191"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1800-398dupC"	""	""	"ENST00000388996"	""	9	"."	5	4	"."	0	"KCNQ3,intron_variant,,ENST00000388996,NM_004519.3;KCNQ3,intron_variant,,ENST00000519445,;KCNQ3,intron_variant,,ENST00000521134,NM_001204824.1;KCNQ3,intron_variant,,ENST00000519589,;"	"G"	"ENSG00000184156"	"ENST00000388996"	"Transcript"	"intron_variant"	"-/11441"	"-/2619"	"-/872"	""	""	"rs3837191"	"1"	NA	-1	"KCNQ3"	"HGNC"	6297	"protein_coding"	"YES"	"CCDS34943.1"	"ENSP00000373648"	"O43525"	""	"UPI00001279F0"	"NM_004519.3"	NA	NA	""	"13/14"	""	"G:0.2798"	"G:0.1853"	"G:0.3357"	NA	"G:0.1577"	"G:0.5298"	"G:0.2362"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"537667b0-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"2548"	"NDRG1"	10397	"mskcc.org"	"GRCh37"	"8"	134255038	134255038	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs5895180"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.892-721delT"	""	""	"ENST00000414097"	""	6	"."	4	2	"."	0	"NDRG1,intron_variant,,ENST00000414097,NM_001135242.1;NDRG1,intron_variant,,ENST00000323851,NM_006096.3;NDRG1,intron_variant,,ENST00000537882,NM_001258433.1;NDRG1,intron_variant,,ENST00000354944,;NDRG1,intron_variant,,ENST00000522476,NM_001258432.1;NDRG1,intron_variant,,ENST00000518176,;NDRG1,intron_variant,,ENST00000518066,;NDRG1,intron_variant,,ENST00000521414,;NDRG1,downstream_gene_variant,,ENST00000517331,;NDRG1,intron_variant,,ENST00000519278,;NDRG1,intron_variant,,ENST00000517599,;NDRG1,intron_variant,,ENST00000521026,;NDRG1,intron_variant,,ENST00000523642,;NDRG1,intron_variant,,ENST00000522665,;NDRG1,upstream_gene_variant,,ENST00000521438,;NDRG1,downstream_gene_variant,,ENST00000522377,;NDRG1,downstream_gene_variant,,ENST00000521664,;"	"-"	"ENSG00000104419"	"ENST00000414097"	"Transcript"	"intron_variant"	"-/3755"	"-/1185"	"-/394"	""	""	"rs5895180"	"1"	NA	-1	"NDRG1"	"HGNC"	7679	"protein_coding"	"YES"	"CCDS34945.1"	"ENSP00000404854"	"Q92597"	"E5RIR1,E5RI76,E5RGM5,E5RGG6,E5RG99,B7Z505,B3KWB2"	"UPI000012FEDD"	"NM_001135242.1"	NA	NA	""	"14/15"	""	"A:0.2666"	"-:0.8457"	"-:0.8112"	NA	"-:0.6161"	"-:0.7187"	"-:0.6626"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGAA"	"43f753b2-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	TRUE
"2549"	"ZFAT"	57623	"mskcc.org"	"GRCh37"	"8"	135602795	135602797	"+"	"Intron"	"DEL"	"CAC"	"CAC"	"-"	"rs35087145"	NA	"JHCCPT1"	"JHCCPN1"	"CAC"	"CAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2476-199_2476-197delGTG"	""	""	"ENST00000377838"	""	36	"."	7	10	"."	0	"ZFAT,intron_variant,,ENST00000520727,NM_001029939.3;ZFAT,intron_variant,,ENST00000377838,NM_020863.3,NM_001174157.1;ZFAT,intron_variant,,ENST00000429442,;ZFAT,intron_variant,,ENST00000520214,NM_001167583.2;ZFAT,intron_variant,,ENST00000520356,NM_001174158.1;ZFAT,intron_variant,,ENST00000523399,;ZFAT,intron_variant,,ENST00000517307,;ZFAT,intron_variant,,ENST00000523243,;ZFAT,intron_variant,,ENST00000523924,;ZFAT,intron_variant,,ENST00000519827,;"	"-"	"ENSG00000066827"	"ENST00000377838"	"Transcript"	"intron_variant"	"-/4597"	"-/3732"	"-/1243"	""	""	"rs35087145"	"1"	NA	-1	"ZFAT"	"HGNC"	19899	"protein_coding"	"YES"	"CCDS47924.1"	"ENSP00000367069"	"Q9P243"	""	"UPI0000210061"	"NM_020863.3,NM_001174157.1"	NA	NA	""	"7/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCACC"	"4413e536-2764-11e6-9d29-be4a424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194444444444444	"WXS"	FALSE
"2550"	"ENSR00001403051"	0	"mskcc.org"	"GRCh37"	"8"	138637867	138637868	"+"	"IGR"	"DEL"	"AG"	"AG"	"-"	"rs35682655"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001403051"	""	8	"."	4	2	"."	0	""	"-"	""	"ENSR00001403051"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs35682655"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3930"	"-:0.3253"	"-:0.5"	NA	"-:0.3095"	"-:0.4324"	"-:0.454"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGA"	"4439d0d4-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2551"	"TSNARE1"	203062	"mskcc.org"	"GRCh37"	"8"	143306097	143306098	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs35763603"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*11+4736dupC"	""	""	"ENST00000307180"	""	10	"."	6	3	"."	0	"TSNARE1,intron_variant,,ENST00000524325,;TSNARE1,intron_variant,,ENST00000307180,NM_145003.3;TSNARE1,intron_variant,,ENST00000520166,;"	"G"	"ENSG00000171045"	"ENST00000307180"	"Transcript"	"intron_variant"	"-/1904"	"-/1542"	"-/513"	""	""	"rs35763603"	"1"	NA	-1	"TSNARE1"	"HGNC"	26437	"protein_coding"	"YES"	"CCDS6384.1"	"ENSP00000303437"	"Q96NA8"	"E5RHW3,A0AVG3"	"UPI00001AEE5E"	"NM_145003.3"	NA	NA	""	"13/13"	""	"-:0.1342"	"G:0.8169"	"G:0.8588"	NA	"G:0.8601"	"G:0.9324"	"G:0.8742"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"54a135c0-2764-11e6-9d29-be4a424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"2552"	"THEM6"	51337	"mskcc.org"	"GRCh37"	"8"	143806069	143806070	"+"	"5'Flank"	"INS"	"-"	"-"	"AG"	"rs150051936"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000336138"	""	10	"."	4	1	"."	0	"THEM6,upstream_gene_variant,,ENST00000336138,NM_016647.2;CTD-2292P10.4,intron_variant,,ENST00000520572,;CTD-2292P10.2,downstream_gene_variant,,ENST00000519782,;THEM6,upstream_gene_variant,,ENST00000520217,;"	"AG"	"ENSG00000130193"	"ENST00000336138"	"Transcript"	"upstream_gene_variant"	"-/2259"	"-/627"	"-/208"	""	""	"rs150051936"	"1"	"2551"	1	"THEM6"	"HGNC"	29656	"protein_coding"	"YES"	"CCDS6386.1"	"ENSP00000338607"	"Q8WUY1"	""	"UPI000003778B"	"NM_016647.2"	NA	NA	""	""	""	"AG:0.4860"	"AG:0.6331"	"AG:0.4568"	NA	"AG:0.4196"	"AG:0.4692"	"AG:0.3937"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"54b0b2b6-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2553"	"MROH6"	642475	"mskcc.org"	"GRCh37"	"8"	144655904	144655913	"+"	"5'Flank"	"DEL"	"CCTGGGGGTG"	"CCTGGGGGTG"	"-"	"rs72061193"	NA	"JHCCPT1"	"JHCCPN1"	"CCTGGGGGTG"	"CCTGGGGGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000398882"	""	18	"."	4	6	"."	0	"MROH6,upstream_gene_variant,,ENST00000398882,NM_001100878.1;NAPRT1,downstream_gene_variant,,ENST00000449291,;MROH6,upstream_gene_variant,,ENST00000533679,;NAPRT1,downstream_gene_variant,,ENST00000435154,;MROH6,upstream_gene_variant,,ENST00000524906,;MROH6,upstream_gene_variant,,ENST00000534459,;NAPRT1,downstream_gene_variant,,ENST00000340490,;NAPRT1,downstream_gene_variant,,ENST00000276844,;MROH6,upstream_gene_variant,,ENST00000529971,;NAPRT1,downstream_gene_variant,,ENST00000426292,NM_145201.4,NM_001286829.1;MROH6,upstream_gene_variant,,ENST00000532862,;RP11-661A12.9,intron_variant,,ENST00000531730,;NAPRT1,downstream_gene_variant,,ENST00000460623,;MROH6,upstream_gene_variant,,ENST00000533210,;NAPRT1,downstream_gene_variant,,ENST00000464332,;NAPRT1,downstream_gene_variant,,ENST00000480946,;NAPRT1,downstream_gene_variant,,ENST00000525583,;NAPRT1,downstream_gene_variant,,ENST00000488096,;NAPRT1,downstream_gene_variant,,ENST00000532645,;NAPRT1,downstream_gene_variant,,ENST00000462059,;MROH6,upstream_gene_variant,,ENST00000533083,;NAPRT1,downstream_gene_variant,,ENST00000491904,;NAPRT1,downstream_gene_variant,,ENST00000529179,;NAPRT1,downstream_gene_variant,,ENST00000498076,;"	"-"	"ENSG00000204839"	"ENST00000398882"	"Transcript"	"upstream_gene_variant"	"-/3469"	"-/2160"	"-/719"	""	""	"rs72061193"	"1"	"763"	-1	"MROH6"	"HGNC"	27814	"protein_coding"	"YES"	"CCDS47928.1"	"ENSP00000381857"	"A6NGR9"	"E9PJR4"	"UPI0000DD7EFB"	"NM_001100878.1"	NA	NA	""	""	""	"CCTGGGGGTG:0.3383"	"-:0.562"	"-:0.6744"	NA	"-:0.754"	"-:0.7575"	"-:0.5941"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCCTGGGGGTGC"	"45a9b34e-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"2554"	"SCRIB"	23513	"mskcc.org"	"GRCh37"	"8"	144873997	144873997	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs367554617"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4695+49delT"	""	""	"ENST00000356994"	""	136	"."	4	90	"."	0	"SCRIB,intron_variant,,ENST00000356994,NM_182706.4;SCRIB,intron_variant,,ENST00000320476,NM_015356.4;SCRIB,intron_variant,,ENST00000377533,;SCRIB,intron_variant,,ENST00000526832,;RP11-429J17.8,downstream_gene_variant,,ENST00000534089,;RP11-429J17.8,downstream_gene_variant,,ENST00000527139,;RP11-429J17.8,downstream_gene_variant,,ENST00000532625,;SCRIB,downstream_gene_variant,,ENST00000546337,;SCRIB,intron_variant,,ENST00000525051,;SCRIB,upstream_gene_variant,,ENST00000531163,;"	"-"	"ENSG00000180900"	"ENST00000356994"	"Transcript"	"intron_variant"	"-/5218"	"-/4968"	"-/1655"	""	""	"rs367554617"	"1"	NA	-1	"SCRIB"	"HGNC"	30377	"protein_coding"	"YES"	"CCDS6412.1"	"ENSP00000349486"	"Q14160"	""	"UPI00004576FD"	"NM_182706.4"	NA	NA	""	"34/36"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.1064"	"0.4151"	"0.1711"	"0.1311"	"0.1158"	"0.2193"	"0.2372"	"0.2271"	"1"	"common_variant"	"CCAC"	"45e7021c-2764-11e6-9d29-be4a424a729f"	"240"	0.2201	"5652/25680"	"10763/101142"	"836/2014"	"453/2648"	"254/1938"	"123/1062"	"3003/13696"	"37/156"	"946/4166"	"PASS"	"FALSE"	0.0294117647058824	"WXS"	FALSE
"2555"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	144965866	144965869	"+"	"IGR"	"DEL"	"CAAT"	"CAAT"	"-"	"rs34616757"	NA	"JHCCPT1"	"JHCCPN1"	"CAAT"	"CAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34616757"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3626"	"-:0.5575"	"-:0.33"	NA	"-:0.2639"	"-:0.2853"	"-:0.3037"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCAATC"	"45f952e6-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"2556"	"HSF1"	3297	"mskcc.org"	"GRCh37"	"8"	145516636	145516644	"+"	"Intron"	"DEL"	"AAGAAAAAA"	"-"	"-"	"rs200904767"	NA	"JHCCPT1"	"JHCCPN1"	"AAGAAAAAA"	"AAGAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.117+1095_117+1103delAAAAAGAAA"	""	""	"ENST00000528838"	""	7	"."	5	1	"."	0	"HSF1,intron_variant,,ENST00000528838,NM_005526.2;HSF1,intron_variant,,ENST00000533240,;BOP1,upstream_gene_variant,,ENST00000307404,NM_015201.3;BOP1,upstream_gene_variant,,ENST00000526552,;BOP1,upstream_gene_variant,,ENST00000529231,;HSF1,intron_variant,,ENST00000528988,;BOP1,upstream_gene_variant,,ENST00000533125,;"	"-"	"ENSG00000185122"	"ENST00000528838"	"Transcript"	"intron_variant"	"-/2142"	"-/1590"	"-/529"	""	""	"rs200904767"	"1"	NA	1	"HSF1"	"HGNC"	5224	"protein_coding"	"YES"	"CCDS6419.1"	"ENSP00000431512"	"Q00613"	"E9PI02,B4DTG4,B3KWP0"	"UPI0000000DE5"	"NM_005526.2"	NA	NA	""	"1/12"	""	"AAGAAAAAA:0.4499"	"-:0.5189"	"-:0.6542"	NA	"-:0.4623"	"-:0.493"	"-:0.6677"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAAGAAAAAAA"	"462855f0-2764-11e6-9d29-be4a424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2557"	"HSF1"	3297	"mskcc.org"	"GRCh37"	"8"	145520609	145520610	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs112681190"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.117+5061dupG"	""	""	"ENST00000528838"	""	10	"."	4	6	"."	0	"HSF1,intron_variant,,ENST00000528838,NM_005526.2;HSF1,intron_variant,,ENST00000533240,;HSF1,intron_variant,,ENST00000528988,;"	"G"	"ENSG00000185122"	"ENST00000528838"	"Transcript"	"intron_variant"	"-/2142"	"-/1590"	"-/529"	""	""	"rs112681190"	"1"	NA	1	"HSF1"	"HGNC"	5224	"protein_coding"	"YES"	"CCDS6419.1"	"ENSP00000431512"	"Q00613"	"E9PI02,B4DTG4,B3KWP0"	"UPI0000000DE5"	"NM_005526.2"	NA	NA	""	"1/12"	""	"-:0.4687"	"G:0.4773"	"G:0.6369"	NA	"G:0.4583"	"G:0.4801"	"G:0.6575"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"55561c38-2764-11e6-9d29-be4a424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2558"	"KANK1"	23189	"mskcc.org"	"GRCh37"	"9"	741248	741248	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs56880658"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3696+314delA"	""	""	"ENST00000382303"	""	6	"."	4	1	"."	0	"KANK1,intron_variant,,ENST00000382303,NM_001256876.1;KANK1,intron_variant,,ENST00000382293,NM_153186.4;KANK1,intron_variant,,ENST00000382297,NM_001256877.1,NM_015158.3;KANK1,intron_variant,,ENST00000382286,;KANK1,intron_variant,,ENST00000382289,;KANK1,intron_variant,,ENST00000489369,;"	"-"	"ENSG00000107104"	"ENST00000382303"	"Transcript"	"intron_variant"	"-/5581"	"-/4059"	"-/1352"	""	""	"rs56880658"	"1"	NA	1	"KANK1"	"HGNC"	19309	"protein_coding"	"YES"	"CCDS34976.1"	"ENSP00000371740"	"Q14678"	"Q8WUM7,Q53U93"	"UPI00001AF26E"	"NM_001256876.1"	NA	NA	""	"13/15"	""	"-:0.2266"	"-:0.1165"	"-:0.1888"	NA	"-:0.1716"	"-:0.337"	"-:0.3456"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGAC"	"2e9adfd4-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2559"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	2711379	2711381	"+"	"IGR"	"DEL"	"TGG"	"TGG"	"-"	"rs201508393"	NA	"JHCCPT1"	"JHCCPN1"	"TGG"	"TGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201508393"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGGT"	"2eb20ea2-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2560"	"AK3"	50808	"mskcc.org"	"GRCh37"	"9"	4733333	4733334	"+"	"Intron"	"INS"	"-"	"A"	"A"	"rs531051362"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.151+7603dupT"	""	""	"ENST00000381809"	""	7	"."	6	1	"."	0	"AK3,intron_variant,,ENST00000381809,NM_016282.3;AK3,intron_variant,,ENST00000359883,NM_001199853.1,NM_001199855.1,NM_001199856.1;AK3,intron_variant,,ENST00000447596,NM_001199852.1;"	"A"	"ENSG00000147853"	"ENST00000381809"	"Transcript"	"intron_variant"	"-/2736"	"-/684"	"-/227"	""	""	"rs531051362"	"1"	NA	-1	"AK3"	"HGNC"	17376	"protein_coding"	"YES"	"CCDS6455.1"	"ENSP00000371230"	"Q9UIJ7"	""	"UPI000013DAE5"	"NM_016282.3"	NA	NA	""	"1/4"	""	"-:0.4405"	"A:0.2095"	"A:0.6455"	NA	"A:0.7917"	"A:0.6789"	"A:0.6094"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"3b6d1074-2764-11e6-9f7d-873e424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"2561"	"ENSR00001469074"	0	"mskcc.org"	"GRCh37"	"9"	7315455	7315456	"+"	"IGR"	"DEL"	"CT"	"CT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001469074"	""	6	"."	4	1	"."	0	""	"-"	""	"ENSR00001469074"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCTC"	"2f1528f2-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2562"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	7991061	7991062	"+"	"IGR"	"INS"	"-"	"TCTCTG"	"TCTCTG"	"rs112610797"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	7	1	"."	0	""	"TCTCTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112610797"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"3b88e22c-2764-11e6-9f7d-873e424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"2563"	"PTPRD"	5789	"mskcc.org"	"GRCh37"	"9"	8331927	8331950	"+"	"Intron"	"DEL"	"AAATCCTAAATTTATTTACTCTTG"	"AAATCCTAAATTTATTTACTCTTG"	"-"	"rs35301976"	NA	"JHCCPT1"	"JHCCPN1"	"AAATCCTAAATTTATTTACTCTTG"	"AAATCCTAAATTTATTTACTCTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5380-214_5380-191delCAAGAGTAAATAAATTTAGGATTT"	""	""	"ENST00000356435"	""	25	"."	7	5	"."	0	"PTPRD,intron_variant,,ENST00000381196,NM_002839.3;PTPRD,intron_variant,,ENST00000356435,;PTPRD,intron_variant,,ENST00000360074,;PTPRD,intron_variant,,ENST00000358503,;PTPRD,intron_variant,,ENST00000355233,NM_130393.3,NM_130392.3,NM_130391.3;PTPRD,intron_variant,,ENST00000397617,;PTPRD,intron_variant,,ENST00000397611,NM_001040712.2;PTPRD,intron_variant,,ENST00000537002,;PTPRD,intron_variant,,ENST00000540109,;PTPRD,intron_variant,,ENST00000486161,;PTPRD,intron_variant,,ENST00000397606,NM_001171025.1;"	"-"	"ENSG00000153707"	"ENST00000356435"	"Transcript"	"intron_variant"	"-/9472"	"-/5739"	"-/1912"	""	""	"rs35301976"	"1"	NA	-1	"PTPRD"	"HGNC"	9668	"protein_coding"	""	"CCDS43786.1"	"ENSP00000348812"	"P23468"	"C9J6E4,B4DK48"	"UPI0000132990"	""	NA	NA	""	"32/34"	""	"AAATCCTAAATTTATTTACTCTTG:0.3139"	"-:0.9834"	"-:0.6686"	NA	"-:0.5804"	"-:0.3966"	"-:0.7035"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAAATCCTAAATTTATTTACTCTTGA"	"2f206172-2764-11e6-9f7d-873e424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WXS"	FALSE
"2564"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	11036750	11036751	"+"	"IGR"	"INS"	"-"	"-"	"TCT"	"rs111438474"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"TCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs111438474"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0721"	"TCT:0.7443"	"TCT:0.9683"	NA	"TCT:1"	"TCT:1"	"TCT:0.999"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"3ba2fc0c-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2565"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	11300314	11300315	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs549311046"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	2	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs549311046"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4984"	"C:0.2451"	"C:0.549"	NA	"C:0.5744"	"C:0.5149"	"C:0.726"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"3ba44f8a-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2566"	"TYRP1"	7306	"mskcc.org"	"GRCh37"	"9"	12709475	12709478	"+"	"3'UTR"	"DEL"	"TAAG"	"TAAG"	"-"	"rs35237346"	NA	"JHCCPT1"	"JHCCPN1"	"TAAG"	"TAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*298_*301delAAGT"	""	""	"ENST00000388918"	"8/8"	17	"."	7	7	"."	0	"TYRP1,3_prime_UTR_variant,,ENST00000388918,NM_000550.2;TYRP1,3_prime_UTR_variant,,ENST00000381137,;TYRP1,downstream_gene_variant,,ENST00000381136,;RP11-3L8.3,intron_variant,,ENST00000417638,;TYRP1,downstream_gene_variant,,ENST00000473504,;TYRP1,downstream_gene_variant,,ENST00000381142,;"	"-"	"ENSG00000107165"	"ENST00000388918"	"Transcript"	"3_prime_UTR_variant"	"2036-2039/2851"	"-/1614"	"-/537"	""	""	"rs35237346"	"1"	NA	1	"TYRP1"	"HGNC"	12450	"protein_coding"	"YES"	"CCDS34990.1"	"ENSP00000373570"	"P17643"	"C9JZ52,B4DNE6"	"UPI0000039DCA"	"NM_000550.2"	NA	NA	"8/8"	""	""	"TAAG:0.1382"	"-:0.9531"	"-:0.9251"	NA	"-:0.8254"	"-:0.9105"	"-:0.681"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TATAAGT"	"2f4c0552-2764-11e6-9f7d-873e424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411764705882353	"WXS"	FALSE
"2567"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	13009545	13009546	"+"	"IGR"	"INS"	"-"	"T"	"T"	"rs35986063"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	6	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35986063"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.3752"	"T:0.4599"	"T:0.3732"	NA	"T:0.13"	"T:0.5298"	"T:0.3558"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"3bbb6922-2764-11e6-9f7d-873e424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"2568"	"ENSR00001816949"	0	"mskcc.org"	"GRCh37"	"9"	13685130	13685130	"+"	"IGR"	"DEL"	"G"	"-"	"-"	"rs33917705"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001816949"	""	7	"."	5	1	"."	0	""	"-"	""	"ENSR00001816949"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs33917705"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4862"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"2f6047b0-2764-11e6-9f7d-873e424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2569"	"TTC39B"	158219	"mskcc.org"	"GRCh37"	"9"	15183462	15183462	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs143730041"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1615-1049delG"	""	""	"ENST00000512701"	""	98	"."	4	64	"."	0	"TTC39B,intron_variant,,ENST00000512701,;TTC39B,intron_variant,,ENST00000355694,NM_001168339.1,NM_152574.2;TTC39B,intron_variant,,ENST00000380850,NM_001168340.1;TTC39B,intron_variant,,ENST00000297615,NM_001168341.1;TTC39B,intron_variant,,ENST00000507285,;TTC39B,intron_variant,,ENST00000507993,NM_001168342.1;TTC39B,intron_variant,,ENST00000380853,;TTC39B,downstream_gene_variant,,ENST00000505732,;"	"-"	"ENSG00000155158"	"ENST00000512701"	"Transcript"	"intron_variant"	"-/10483"	"-/2049"	"-/682"	""	""	"rs143730041"	"1"	NA	-1	"TTC39B"	"HGNC"	23704	"protein_coding"	"YES"	"CCDS6477.2"	"ENSP00000422496"	"Q5VTQ0"	""	"UPI0001BE810F"	""	NA	NA	""	"16/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	"0.01336"	"0.05882"	"0"	"0"	"0.1297"	"0.1809"	"0.1875"	"0.08974"	NA	"common_variant"	"TACA"	"2f76f0aa-2764-11e6-9f7d-873e424a729f"	"240"	0.1232	"70/568"	"102/7636"	"2/34"	"0/26"	"0/4"	"41/316"	"17/94"	"3/16"	"7/78"	"VQSRTrancheINDEL99.95to100.00"	"FALSE"	0.0408163265306122	"WXS"	FALSE
"2570"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	15398342	15398343	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs58557740"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs58557740"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"3bd70998-2764-11e6-9f7d-873e424a729f"	"235"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2571"	"CCDC171"	203238	"mskcc.org"	"GRCh37"	"9"	15868496	15868497	"+"	"Intron"	"INS"	"-"	"-"	"GAGA"	"rs113322618"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3469-6018_3469-6015dupAGAG"	""	""	"ENST00000380701"	""	14	"."	7	2	"."	0	"CCDC171,intron_variant,,ENST00000380701,NM_173550.2;CCDC171,intron_variant,,ENST00000297641,;CCDC171,intron_variant,,ENST00000449575,;CCDC171,intron_variant,,ENST00000432954,;CCDC171,intron_variant,,ENST00000470191,;CCDC171,intron_variant,,ENST00000498725,;"	"GAGA"	"ENSG00000164989"	"ENST00000380701"	"Transcript"	"intron_variant"	"-/6512"	"-/3981"	"-/1326"	""	""	"rs113322618"	"1"	NA	1	"CCDC171"	"HGNC"	29828	"protein_coding"	"YES"	"CCDS6481.1"	"ENSP00000370077"	"Q6TFL3"	"Q8NCV3"	"UPI000021C44B"	"NM_173550.2"	NA	NA	""	"23/25"	""	"GAGA:0.4892"	"GAGA:0.3283"	"GAGA:0.5476"	NA	"GAGA:0.5536"	"GAGA:0.5487"	"GAGA:0.5378"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"19"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"3beb4fca-2764-11e6-9f7d-873e424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2572"	"C9orf92"	100129385	"mskcc.org"	"GRCh37"	"9"	16279840	16279848	"+"	"5'Flank"	"DEL"	"AGGAGGAGG"	"AGGAGGAGG"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"AGGAGGAGG"	"AGGAGGAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000380685"	""	14	"."	4	7	"."	0	"C9orf92,upstream_gene_variant,,ENST00000380685,;"	"-"	"ENSG00000205549"	"ENST00000380685"	"Transcript"	"upstream_gene_variant"	"-/379"	"-/234"	"-/77"	""	""	""	"1"	"3529"	-1	"C9orf92"	"HGNC"	19054	"protein_coding"	""	""	"ENSP00000370060"	"A6NGG3"	""	"UPI0000211173"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAGGAGGAGGA"	"2f94fcda-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"2573"	"DENND4C"	55667	"mskcc.org"	"GRCh37"	"9"	19336169	19336170	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs148975875"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2590-86_2590-85dupTA"	""	""	"ENST00000602925"	""	52	"."	6	14	"."	0	"DENND4C,intron_variant,,ENST00000380432,;DENND4C,intron_variant,,ENST00000602925,NM_017925.5;DENND4C,intron_variant,,ENST00000434457,;DENND4C,intron_variant,,ENST00000380437,;DENND4C,intron_variant,,ENST00000494124,;DENND4C,upstream_gene_variant,,ENST00000602442,;"	"TA"	"ENSG00000137145"	"ENST00000602925"	"Transcript"	"intron_variant"	"-/6831"	"-/5730"	"-/1909"	""	""	"rs148975875"	"1"	NA	1	"DENND4C"	"HGNC"	26079	"protein_coding"	"YES"	"CCDS6491.3"	"ENSP00000473565"	""	"R4GNB2"	"UPI0000EE421F"	"NM_017925.5"	NA	NA	""	"18/31"	""	"TA:0.4305"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"14"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"3c264cd8-2764-11e6-9f7d-873e424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WXS"	FALSE
"2574"	"SLC24A2"	25769	"mskcc.org"	"GRCh37"	"9"	19781396	19781396	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs5896865"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.930+4539delT"	""	""	"ENST00000341998"	""	11	"."	3	1	"."	0	"SLC24A2,intron_variant,,ENST00000341998,NM_001193288.2,NM_020344.3;SLC24A2,intron_variant,,ENST00000286344,;"	"-"	"ENSG00000155886"	"ENST00000341998"	"Transcript"	"intron_variant"	"-/10749"	"-/1986"	"-/661"	""	""	"rs5896865"	"1"	NA	-1	"SLC24A2"	"HGNC"	10976	"protein_coding"	"YES"	"CCDS6493.1"	"ENSP00000344801"	"Q9UI40"	""	"UPI000004FA46"	"NM_001193288.2,NM_020344.3"	NA	NA	""	"1/9"	""	"-:0.4253"	"-:0.348"	"-:0.572"	NA	"-:0.3631"	"-:0.494"	"-:0.4192"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"2fe48264-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2575"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	24162315	24162316	"+"	"IGR"	"INS"	"-"	"A"	"A"	"rs201056636"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	3	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201056636"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.0164"	"A:0.0008"	"A:0.0216"	NA	"A:0"	"A:0.0308"	"A:0.0358"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"3c4aa524-2764-11e6-9f7d-873e424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2576"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	24221384	24221385	"+"	"IGR"	"INS"	"-"	"-"	"TTCTCT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	7	5	"."	0	""	"TTCTCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"3c4c06bc-2764-11e6-9f7d-873e424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.466666666666667	"WXS"	FALSE
"2577"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	24533486	24533487	"+"	"IGR"	"INS"	"-"	"-"	"AGGG"	"rs139450637"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	3	"."	0	""	"AGGG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139450637"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AGGG:0.0395"	"AGGG:0.1006"	"AGGG:0.0317"	NA	"AGGG:0"	"AGGG:0.0388"	"AGGG:0.0041"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"3c4d4aae-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2578"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	24608989	24608991	"+"	"IGR"	"DEL"	"CTT"	"CTT"	"-"	"rs572043114"	NA	"JHCCPT1"	"JHCCPN1"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	8	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs572043114"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0046"	"-:0.0159"	"-:0.0029"	NA	"-:0"	"-:0"	"-:0"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTC"	"301a5772-2764-11e6-9f7d-873e424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2579"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	24609054	24609054	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs72105362"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	3	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs72105362"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	"-:0.2352"	"-:0.0418"	NA	"-:0.001"	"-:0.0358"	"-:0.0061"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"301ad1f2-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"2580"	"TEK"	7010	"mskcc.org"	"GRCh37"	"9"	27217517	27217520	"+"	"Intron"	"DEL"	"TGTT"	"TGTT"	"-"	"rs5897224"	NA	"JHCCPT1"	"JHCCPN1"	"TGTT"	"TGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2992-163_2992-160delTTTG"	""	""	"ENST00000380036"	""	10	"."	3	8	"."	0	"TEK,intron_variant,,ENST00000380036,NM_000459.3;TEK,intron_variant,,ENST00000406359,;TEK,intron_variant,,ENST00000519097,;"	"-"	"ENSG00000120156"	"ENST00000380036"	"Transcript"	"intron_variant"	"-/4760"	"-/3375"	"-/1124"	""	""	"rs5897224"	"1"	NA	1	"TEK"	"HGNC"	11724	"protein_coding"	"YES"	"CCDS6519.1"	"ENSP00000369375"	"Q02763"	""	"UPI000021121E"	"NM_000459.3"	NA	NA	""	"18/22"	""	"TGTT:0.1088"	"-:0.9516"	"-:0.7709"	NA	"-:0.999"	"-:0.8062"	"-:0.8712"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACTGTTT"	"3036f2ba-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"2581"	"RP11-460C6.1"	0	"mskcc.org"	"GRCh37"	"9"	29821034	29821035	"+"	"3'Flank"	"INS"	"-"	"-"	"AC"	"rs138596409"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000426028"	""	8	"."	4	3	"."	0	"RP11-460C6.1,downstream_gene_variant,,ENST00000426028,;"	"AC"	"ENSG00000230097"	"ENST00000426028"	"Transcript"	"downstream_gene_variant"	"-/1970"	""	""	""	""	"rs138596409"	"1"	"3705"	-1	"RP11-460C6.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"3c660724-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2582"	"APTX"	54840	"mskcc.org"	"GRCh37"	"9"	32997621	32997622	"+"	"Intron"	"INS"	"-"	"AAC"	"AAC"	"rs11471914"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-5+3941_-5+3943dupGTT"	""	""	"ENST00000379813"	""	7	"."	5	1	"."	0	"APTX,intron_variant,,ENST00000379825,;APTX,intron_variant,,ENST00000309615,NM_175069.2,NM_175073.2,NM_001195248.1,NM_001195251.1;APTX,intron_variant,,ENST00000379819,;APTX,intron_variant,,ENST00000397172,NM_001195252.1;APTX,intron_variant,,ENST00000463596,NM_001195249.1;APTX,intron_variant,,ENST00000379813,;APTX,intron_variant,,ENST00000476858,NM_001195250.1;APTX,intron_variant,,ENST00000473221,;APTX,intron_variant,,ENST00000379812,;APTX,intron_variant,,ENST00000477119,;APTX,upstream_gene_variant,,ENST00000468275,;APTX,intron_variant,,ENST00000460945,;APTX,intron_variant,,ENST00000494649,;APTX,intron_variant,,ENST00000495360,;APTX,intron_variant,,ENST00000474658,;APTX,intron_variant,,ENST00000478279,;APTX,intron_variant,,ENST00000464632,;APTX,intron_variant,,ENST00000480031,;APTX,intron_variant,,ENST00000494973,;APTX,upstream_gene_variant,,ENST00000479656,;"	"AAC"	"ENSG00000137074"	"ENST00000379813"	"Transcript"	"intron_variant"	"-/1200"	"-/1029"	"-/342"	""	""	"rs11471914"	"1"	NA	-1	"APTX"	"HGNC"	15984	"protein_coding"	"YES"	"CCDS47956.1"	"ENSP00000369141"	"Q7Z2E3"	"F5HRF8"	"UPI00001606F6"	""	NA	NA	""	"1/7"	""	"-:0.0487"	"AAC:0.8298"	"AAC:0.9856"	NA	"AAC:0.999"	"AAC:1"	"AAC:0.9918"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"3c84fad0-2764-11e6-9f7d-873e424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2583"	"NFX1"	4799	"mskcc.org"	"GRCh37"	"9"	33337730	33337739	"+"	"Intron"	"DEL"	"AAAACAAAAC"	"-"	"-"	"rs144681736"	NA	"JHCCPT1"	"JHCCPN1"	"AAAACAAAAC"	"AAAACAAAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2036-759_2036-750delCAAAACAAAA"	""	""	"ENST00000379540"	""	6	"."	5	1	"."	0	"NFX1,intron_variant,,ENST00000379540,NM_002504.4;NFX1,intron_variant,,ENST00000379521,NM_147133.2;NFX1,intron_variant,,ENST00000318524,NM_147134.2;"	"-"	"ENSG00000086102"	"ENST00000379540"	"Transcript"	"intron_variant"	"-/4604"	"-/3363"	"-/1120"	""	""	"rs144681736"	"1"	NA	1	"NFX1"	"HGNC"	7803	"protein_coding"	"YES"	"CCDS6538.1"	"ENSP00000368856"	"Q12986"	""	"UPI0000072140"	"NM_002504.4"	NA	NA	""	"11/23"	""	"AAAACAAAAC:0.3958"	"-:0.2277"	"-:0.7305"	NA	"-:0.7421"	"-:0.7545"	"-:0.727"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"19"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAAAACAAAACA"	"307bffcc-2764-11e6-9f7d-873e424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2584"	"UBAP2"	55833	"mskcc.org"	"GRCh37"	"9"	33943072	33943072	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11322843"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1715+346delA"	""	""	"ENST00000379238"	""	8	"."	3	5	"."	0	"UBAP2,intron_variant,,ENST00000379238,;UBAP2,intron_variant,,ENST00000360802,NM_018449.2;UBAP2,intron_variant,,ENST00000449054,;UBAP2,intron_variant,,ENST00000379239,NM_001282529.1;UBAP2,intron_variant,,ENST00000539807,;UBAP2,intron_variant,,ENST00000418786,;UBAP2,intron_variant,,ENST00000379225,;UBAP2,downstream_gene_variant,,ENST00000412543,;UBAP2,upstream_gene_variant,,ENST00000488443,;"	"-"	"ENSG00000137073"	"ENST00000379238"	"Transcript"	"intron_variant"	"-/4289"	"-/3360"	"-/1119"	""	""	"rs11322843"	"1"	NA	-1	"UBAP2"	"HGNC"	14185	"protein_coding"	"YES"	"CCDS6547.1"	"ENSP00000368540"	"Q5T6F2"	"Q5JV03"	"UPI0000140784"	""	NA	NA	""	"15/28"	""	"-:0.3710"	"-:0.5091"	"-:0.268"	NA	"-:0.1726"	"-:0.3837"	"-:0.4489"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"30a5440e-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2585"	"RP11-537H15.4"	0	"mskcc.org"	"GRCh37"	"9"	34133975	34133975	"+"	"RNA"	"DEL"	"T"	"T"	"-"	"rs34492545"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.720delA"	""	""	"ENST00000435838"	"1/1"	8	"."	4	1	"."	0	"RP11-537H15.4,non_coding_transcript_exon_variant,,ENST00000435838,;"	"-"	"ENSG00000239392"	"ENST00000435838"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"720/1540"	""	""	""	""	"rs34492545"	"1"	NA	-1	"RP11-537H15.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"T:0.3792"	"-:0.6762"	"-:0.6974"	NA	"-:0.2917"	"-:0.7555"	"-:0.6922"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"30b053c6-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2586"	"CNTFR"	1271	"mskcc.org"	"GRCh37"	"9"	34575985	34575986	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11432188"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1+5107dupA"	""	""	"ENST00000378980"	""	10	"."	6	1	"."	0	"CNTFR,intron_variant,,ENST00000378980,NM_147164.2,NM_001207011.1;CNTFR,intron_variant,,ENST00000351266,NM_001842.4;CNTFR,intron_variant,,ENST00000417345,;CNTFR-AS1,intron_variant,,ENST00000436360,;CNTFR-AS1,intron_variant,,ENST00000453642,;CNTFR-AS1,intron_variant,,ENST00000438244,;"	"T"	"ENSG00000122756"	"ENST00000378980"	"Transcript"	"intron_variant"	"-/2052"	"-/1119"	"-/372"	""	""	"rs11432188"	"1"	NA	-1	"CNTFR"	"HGNC"	2170	"protein_coding"	"YES"	"CCDS6558.1"	"ENSP00000368265"	"P26992"	"Q5T8H6,B3KXJ2"	"UPI0000000DBD"	"NM_147164.2,NM_001207011.1"	NA	NA	""	"2/9"	""	"T:0.1625"	"T:0.1982"	"T:0.0937"	NA	"T:0.2738"	"T:0.0557"	"T:0.1585"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"3ca760de-2764-11e6-9f7d-873e424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"2587"	"FAM205CP"	0	"mskcc.org"	"GRCh37"	"9"	34886831	34886832	"+"	"3'Flank"	"INS"	"-"	"-"	"TATCTATCTATC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000603640"	""	6	"."	4	1	"."	0	"FAM205CP,downstream_gene_variant,,ENST00000340783,;FAM205CP,downstream_gene_variant,,ENST00000603592,;FAM205CP,downstream_gene_variant,,ENST00000603640,;FAM205CP,downstream_gene_variant,,ENST00000604781,;"	"TATCTATCTATC"	"ENSG00000187791"	"ENST00000603640"	"Transcript"	"downstream_gene_variant"	"-/4148"	""	""	""	""	""	"1"	"2421"	-1	"FAM205CP"	"HGNC"	42673	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"3cc3a9d8-2764-11e6-9f7d-873e424a729f"	"207"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2588"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	44240224	44240225	"+"	"IGR"	"INS"	"-"	"-"	"AA"	"rs76599676"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"AA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs76599676"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3429"	"AA:0.5182"	"AA:0.8602"	NA	"AA:0.4544"	"AA:0.832"	"AA:0.7301"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"3d3ae1d8-2764-11e6-9f7d-873e424a729f"	"227"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2589"	"RP11-262H14.1"	100996870	"mskcc.org"	"GRCh37"	"9"	66456852	66456853	"+"	"5'Flank"	"INS"	"-"	"-"	"AC"	"rs111301450"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000424345"	""	17	"."	3	8	"."	0	"RP11-262H14.1,upstream_gene_variant,,ENST00000424345,;RP11-262H14.1,upstream_gene_variant,,ENST00000427509,;RP11-262H14.1,upstream_gene_variant,,ENST00000452184,;RNA5SP283,downstream_gene_variant,,ENST00000365604,;"	"AC"	"ENSG00000238113"	"ENST00000424345"	"Transcript"	"upstream_gene_variant"	"-/2877"	""	""	""	""	"rs111301450"	"1"	"436"	1	"RP11-262H14.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"3d4007b2-2764-11e6-9f7d-873e424a729f"	"177"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"2590"	"RP11-764K9.1"	0	"mskcc.org"	"GRCh37"	"9"	68414773	68414773	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"rs140844831"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000417843"	""	17	"."	5	7	"."	0	"RP11-764K9.1,upstream_gene_variant,,ENST00000417843,;MIR4477A,upstream_gene_variant,,ENST00000581659,;LINC00537,upstream_gene_variant,,ENST00000455245,;"	"-"	"ENSG00000225411"	"ENST00000417843"	"Transcript"	"upstream_gene_variant"	"-/2878"	""	""	""	""	"rs140844831"	"1"	"4880"	-1	"RP11-764K9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"31d0f1ca-2764-11e6-9f7d-873e424a729f"	"187"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"2591"	"RP11-764K9.4"	0	"mskcc.org"	"GRCh37"	"9"	68454578	68454579	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs200122762"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.217+580_217+581insTT"	""	""	"ENST00000376334"	""	13	"."	3	4	"."	0	"RP11-764K9.4,intron_variant,,ENST00000376334,;"	"AA"	"ENSG00000215548"	"ENST00000376334"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/931"	""	""	""	""	"rs200122762"	"1"	NA	-1	"RP11-764K9.4"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"3d4d6df8-2764-11e6-9f7d-873e424a729f"	"69"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"2592"	"RP11-764K9.4"	0	"mskcc.org"	"GRCh37"	"9"	68455233	68455234	"+"	"RNA"	"INS"	"-"	"-"	"AG"	"rs202146014"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.141_142dupCT"	""	""	"ENST00000376334"	"1/9"	10	"."	4	4	"."	0	"RP11-764K9.4,non_coding_transcript_exon_variant,,ENST00000376334,;"	"AG"	"ENSG00000215548"	"ENST00000376334"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"142-143/931"	""	""	""	""	"rs202146014"	"1"	NA	-1	"RP11-764K9.4"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/9"	""	""	"AG:0.2782"	"AG:0.354"	"AG:0.0994"	NA	"AG:0.5347"	"AG:0.1024"	"AG:0.2188"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"3d4f2c06-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2593"	"FOXD4L5"	653427	"mskcc.org"	"GRCh37"	"9"	70179475	70179477	"+"	"5'Flank"	"DEL"	"TTA"	"TTA"	"-"	"rs779250364"	NA	"JHCCPT1"	"JHCCPN1"	"TTA"	"TTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000377420"	""	6	"."	4	4	"."	0	"FOXD4L5,upstream_gene_variant,,ENST00000377420,NM_001126334.1;RP11-15J10.1,downstream_gene_variant,,ENST00000445695,;"	"-"	"ENSG00000204779"	"ENST00000377420"	"Transcript"	"upstream_gene_variant"	"-/3109"	"-/1251"	"-/416"	""	""	"rs779250364"	"1"	"660"	-1	"FOXD4L5"	"HGNC"	18522	"protein_coding"	"YES"	"CCDS47977.1"	"ENSP00000366637"	"Q5VV16"	"Q8WTR0"	"UPI0000458A33"	"NM_001126334.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTTAT"	"31dd922c-2764-11e6-9f7d-873e424a729f"	"103"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2594"	"APBA1"	320	"mskcc.org"	"GRCh37"	"9"	72130607	72130611	"+"	"Intron"	"DEL"	"GGGGG"	"GGGGG"	"-"	"rs60382603"	NA	"JHCCPT1"	"JHCCPN1"	"GGGGG"	"GGGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1200+316_1200+320delCCCCC"	""	""	"ENST00000265381"	""	11	"."	4	2	"."	0	"APBA1,intron_variant,,ENST00000265381,NM_001163.3;"	"-"	"ENSG00000107282"	"ENST00000265381"	"Transcript"	"intron_variant"	"-/6534"	"-/2514"	"-/837"	""	""	"rs60382603"	"1"	NA	-1	"APBA1"	"HGNC"	578	"protein_coding"	"YES"	"CCDS6630.1"	"ENSP00000265381"	"Q02410"	""	"UPI000013D611"	"NM_001163.3"	NA	NA	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGGGGGG"	"31fb9880-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2595"	"TRPM3"	80036	"mskcc.org"	"GRCh37"	"9"	73303211	73303212	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs5898162"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1273-6718dupT"	""	""	"ENST00000377110"	""	6	"."	4	1	"."	0	"TRPM3,intron_variant,,ENST00000377110,;TRPM3,intron_variant,,ENST00000377106,NM_020952.4,NM_206946.3;TRPM3,intron_variant,,ENST00000360823,NM_206944.3,NM_206947.3;TRPM3,intron_variant,,ENST00000377105,NM_206945.3,NM_024971.5;TRPM3,intron_variant,,ENST00000423814,;TRPM3,intron_variant,,ENST00000357533,;TRPM3,intron_variant,,ENST00000396292,;TRPM3,intron_variant,,ENST00000358082,;TRPM3,intron_variant,,ENST00000396285,;TRPM3,intron_variant,,ENST00000408909,;TRPM3,intron_variant,,ENST00000396280,;TRPM3,intron_variant,,ENST00000377111,NM_001007471.2;"	"A"	"ENSG00000083067"	"ENST00000377110"	"Transcript"	"intron_variant"	"-/12258"	"-/5124"	"-/1707"	""	""	"rs5898162"	"1"	NA	-1	"TRPM3"	"HGNC"	17992	"protein_coding"	"YES"	"CCDS43835.1"	"ENSP00000366314"	"Q9HCF6"	""	"UPI0001596895"	""	NA	NA	""	"8/24"	""	"-:0.1396"	"A:0.8812"	"A:0.8372"	NA	"A:0.7609"	"A:0.9105"	"A:0.8998"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"3d7f02dc-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2596"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	74270655	74270657	"+"	"IGR"	"DEL"	"CTC"	"CTC"	"-"	"rs71353503"	NA	"JHCCPT1"	"JHCCPN1"	"CTC"	"CTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	8	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71353503"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3483"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTCC"	"321c891e-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2597"	"ENSR00001305776"	0	"mskcc.org"	"GRCh37"	"9"	75814792	75814793	"+"	"IGR"	"INS"	"-"	"-"	"AC"	"rs138098383"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001305776"	""	8	"."	4	1	"."	0	""	"AC"	""	"ENSR00001305776"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs138098383"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1392"	"AC:0.9365"	"AC:0.8444"	NA	"AC:0.75"	"AC:0.8837"	"AC:0.8609"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"3da8126c-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2598"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	77314289	77314290	"+"	"IGR"	"INS"	"-"	"-"	"GAAGAAGAAGAGGAAGAAGAAGAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	3	16	"."	0	""	"GAAGAAGAAGAGGAAGAAGAAGAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"3dadcfd6-2764-11e6-9f7d-873e424a729f"	"126"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"2599"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	78332467	78332474	"+"	"IGR"	"DEL"	"ACACACAT"	"ACACACAT"	"-"	"rs202188845"	NA	"JHCCPT1"	"JHCCPN1"	"ACACACAT"	"ACACACAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs202188845"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACACACACATA"	"3270c632-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2600"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	80664089	80664090	"+"	"IGR"	"INS"	"-"	"-"	"AGAAGAGAAGAGAAA"	"rs71507989"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	3	"."	0	""	"AGAAGAGAAGAGAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71507989"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2957"	"AGAAGAGAAGAGAAA:0.7852"	"AGAAGAGAAGAGAAA:0.7118"	NA	"AGAAGAGAAGAGAAA:0.5119"	"AGAAGAGAAGAGAAA:0.7366"	"AGAAGAGAAGAGAAA:0.7546"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"3e0fe9d2-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2601"	"TLE1"	7088	"mskcc.org"	"GRCh37"	"9"	84202820	84202821	"+"	"Intron"	"INS"	"-"	"-"	"CCGTGTGTGTGTGTGTGTGTGTCATC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1830-78_1830-77insGATGACACACACACACACACACACGG"	""	""	"ENST00000376499"	""	92	"."	7	45	"."	0	"TLE1,intron_variant,,ENST00000376499,NM_005077.3;"	"CCGTGTGTGTGTGTGTGTGTGTCATC"	"ENSG00000196781"	"ENST00000376499"	"Transcript"	"intron_variant"	"-/3893"	"-/2313"	"-/770"	""	""	""	"1"	NA	-1	"TLE1"	"HGNC"	11837	"protein_coding"	"YES"	"CCDS6661.1"	"ENSP00000365682"	"Q04724"	""	"UPI0000137034"	"NM_005077.3"	NA	NA	""	"16/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"3e29a7f0-2764-11e6-9f7d-873e424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WXS"	FALSE
"2602"	"RN7SKP242"	0	"mskcc.org"	"GRCh37"	"9"	85813746	85813746	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"rs10709219"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000515967"	""	7	"."	4	2	"."	0	"RN7SKP242,downstream_gene_variant,,ENST00000515967,;"	"-"	"ENSG00000251776"	"ENST00000515967"	"Transcript"	"downstream_gene_variant"	"-/289"	""	""	""	""	"rs10709219"	"1"	"2109"	-1	"RN7SKP242"	"HGNC"	45966	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.1528"	"-:0.733"	"-:0.8084"	NA	"-:0.9514"	"-:0.828"	"-:0.9417"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"330ae884-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2603"	"FRMD3"	257019	"mskcc.org"	"GRCh37"	"9"	85924714	85924714	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35882956"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.838-175delA"	""	""	"ENST00000304195"	""	10	"."	5	2	"."	0	"FRMD3,intron_variant,,ENST00000304195,NM_001244960.1,NM_174938.5;FRMD3,intron_variant,,ENST00000376438,NM_001244959.1;FRMD3,intron_variant,,ENST00000376434,NM_001244961.1;FRMD3,intron_variant,,ENST00000431299,;"	"-"	"ENSG00000172159"	"ENST00000304195"	"Transcript"	"intron_variant"	"-/5297"	"-/1794"	"-/597"	""	""	"rs35882956"	"1"	NA	-1	"FRMD3"	"HGNC"	24125	"protein_coding"	"YES"	"CCDS43840.1"	"ENSP00000303508"	"A2A2Y4"	""	"UPI000066DA57"	"NM_001244960.1,NM_174938.5"	NA	NA	""	"9/13"	""	"-:0.2454"	"-:0.0953"	"-:0.2781"	NA	"-:0.381"	"-:0.2793"	"-:0.2505"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTC"	"3310a22e-2764-11e6-9f7d-873e424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2604"	"SLC28A3"	64078	"mskcc.org"	"GRCh37"	"9"	86927784	86927784	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs34450676"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.156+490delC"	""	""	"ENST00000376238"	""	6	"."	4	2	"."	0	"SLC28A3,intron_variant,,ENST00000376238,NM_001199633.1,NM_022127.2;SLC28A3,intron_variant,,ENST00000537648,;SLC28A3,intron_variant,,ENST00000495823,;"	"-"	"ENSG00000197506"	"ENST00000376238"	"Transcript"	"intron_variant"	"-/4887"	"-/2076"	"-/691"	""	""	"rs34450676"	"1"	NA	-1	"SLC28A3"	"HGNC"	16484	"protein_coding"	"YES"	"CCDS6670.1"	"ENSP00000365413"	"Q9HAS3"	"F5GYE3"	"UPI000006F5A6"	"NM_001199633.1,NM_022127.2"	NA	NA	""	"2/17"	""	"-:0.1092"	"-:0.1248"	"-:0.1643"	NA	"-:0.0784"	"-:0.0934"	"-:0.0971"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"33360622-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2605"	"STK33P1"	0	"mskcc.org"	"GRCh37"	"9"	88103987	88103988	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs5898908"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000423835"	""	8	"."	3	3	"."	0	"STK33P1,upstream_gene_variant,,ENST00000423835,;"	"A"	"ENSG00000227412"	"ENST00000423835"	"Transcript"	"upstream_gene_variant"	"-/1218"	""	""	""	""	"rs5898908"	"1"	"3506"	1	"STK33P1"	"HGNC"	26871	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2103"	"A:0.8623"	"A:0.7968"	NA	"A:0.7569"	"A:0.7326"	"A:0.7791"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"3e55ac9c-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2606"	"AGTPBP1"	23287	"mskcc.org"	"GRCh37"	"9"	88203741	88203742	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35317193"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2603-349dupA"	""	""	"ENST00000376083"	""	9	"."	4	1	"."	0	"AGTPBP1,intron_variant,,ENST00000357081,NM_001286715.1;AGTPBP1,intron_variant,,ENST00000337006,;AGTPBP1,intron_variant,,ENST00000376109,NM_001286717.1;AGTPBP1,intron_variant,,ENST00000376083,NM_015239.2;AGTPBP1,intron_variant,,ENST00000432218,;"	"T"	"ENSG00000135049"	"ENST00000376083"	"Transcript"	"intron_variant"	"-/4205"	"-/3561"	"-/1186"	""	""	"rs35317193"	"1"	NA	-1	"AGTPBP1"	"HGNC"	17258	"protein_coding"	"YES"	"CCDS6672.1"	"ENSP00000365251"	"Q9UPW5"	""	"UPI000013CF66"	"NM_015239.2"	NA	NA	""	"20/25"	""	"T:0.2979"	"T:0.354"	"T:0.1369"	NA	"T:0.5278"	"T:0.1302"	"T:0.272"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"3e58604a-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2607"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	90094930	90094930	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs34201650"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34201650"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4603"	"-:0.4297"	"-:0.4928"	NA	"-:0.4643"	"-:0.4324"	"-:0.5031"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"337ea1a2-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2608"	"RP11-350E12.5"	0	"mskcc.org"	"GRCh37"	"9"	90559880	90559881	"+"	"RNA"	"INS"	"-"	"-"	"G"	"rs57727829"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.58dupC"	""	""	"ENST00000427728"	"1/1"	10	"."	4	5	"."	0	"RP11-350E12.5,non_coding_transcript_exon_variant,,ENST00000427728,;"	"G"	"ENSG00000238110"	"ENST00000427728"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"58-59/748"	""	""	""	""	"rs57727829"	"1"	NA	-1	"RP11-350E12.5"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"-:0.1096"	"G:0.9289"	"G:0.8559"	NA	"G:0.7887"	"G:0.9404"	"G:0.9162"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"3e8e14e2-2764-11e6-9f7d-873e424a729f"	"222"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2609"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	90877946	90877951	"+"	"IGR"	"DEL"	"TCTCTT"	"TCTCTT"	"-"	"rs201087973"	NA	"JHCCPT1"	"JHCCPN1"	"TCTCTT"	"TCTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201087973"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4738"	"-:0.4115"	"-:0.5576"	NA	"-:0.6399"	"-:0.33"	"-:0.4755"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTCTTT"	"339db754-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2610"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	91809887	91809888	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs34670920"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	3	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34670920"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GGGGC:0.3564"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"3e9a8cd6-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2611"	"IARS"	3376	"mskcc.org"	"GRCh37"	"9"	95004037	95004038	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs75526527"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3177+398dupA"	""	""	"ENST00000375643"	""	10	"."	5	3	"."	0	"IARS,intron_variant,,ENST00000375643,NM_013417.3;IARS,intron_variant,,ENST00000443024,NM_002161.5;IARS,intron_variant,,ENST00000375629,;IARS,intron_variant,,ENST00000447699,;IARS,intron_variant,,ENST00000375627,;IARS,intron_variant,,ENST00000474340,;IARS,intron_variant,,ENST00000473915,;"	"T"	"ENSG00000196305"	"ENST00000375643"	"Transcript"	"intron_variant"	"-/4656"	"-/3789"	"-/1262"	""	""	"rs75526527"	"1"	NA	-1	"IARS"	"HGNC"	5330	"protein_coding"	"YES"	"CCDS6694.1"	"ENSP00000364794"	"P41252"	"Q9P1N9,Q7L4K8,Q5TCD1,Q5TCC4,Q59G75,J3KR24"	"UPI0000141335"	"NM_013417.3"	NA	NA	""	"29/33"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"3eb8ceda-2764-11e6-9f7d-873e424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2612"	"IARS"	3376	"mskcc.org"	"GRCh37"	"9"	95006829	95006829	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs3215719"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2904+412delC"	""	""	"ENST00000375643"	""	6	"."	4	1	"."	0	"IARS,intron_variant,,ENST00000375643,NM_013417.3;IARS,intron_variant,,ENST00000443024,NM_002161.5;IARS,intron_variant,,ENST00000375629,;IARS,intron_variant,,ENST00000447699,;IARS,intron_variant,,ENST00000375627,;IARS,upstream_gene_variant,,ENST00000474340,;IARS,upstream_gene_variant,,ENST00000473915,;"	"-"	"ENSG00000196305"	"ENST00000375643"	"Transcript"	"intron_variant"	"-/4656"	"-/3789"	"-/1262"	""	""	"rs3215719"	"1"	NA	-1	"IARS"	"HGNC"	5330	"protein_coding"	"YES"	"CCDS6694.1"	"ENSP00000364794"	"P41252"	"Q9P1N9,Q7L4K8,Q5TCD1,Q5TCC4,Q59G75,J3KR24"	"UPI0000141335"	"NM_013417.3"	NA	NA	""	"27/33"	""	"G:0.4475"	"-:0.9349"	"-:0.4582"	NA	"-:0.2212"	"-:0.4761"	"-:0.5225"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"33d4765e-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2613"	"ANKRD19P"	138649	"mskcc.org"	"GRCh37"	"9"	95599020	95599020	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35327181"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1140-31delT"	""	""	"ENST00000473204"	""	24	"."	4	10	"."	0	"ANKRD19P,intron_variant,,ENST00000473204,;ANKRD19P,intron_variant,,ENST00000464387,;ANKRD19P,intron_variant,,ENST00000375504,;EEF1DP2,downstream_gene_variant,,ENST00000433698,;"	"-"	"ENSG00000187984"	"ENST00000473204"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2370"	""	""	""	""	"rs35327181"	"1"	NA	1	"ANKRD19P"	"HGNC"	22567	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"7/10"	""	"-:0.2360"	"-:0.4092"	"-:0.3386"	NA	"-:0.1171"	"-:0.162"	"-:0.1278"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"33e615bc-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"2614"	"RP11-165J3.5"	0	"mskcc.org"	"GRCh37"	"9"	96192932	96192933	"+"	"RNA"	"INS"	"-"	"-"	"CAGCC"	"rs544232228"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.328_332dupGGCTG"	""	""	"ENST00000443716"	"2/2"	7	"."	4	1	"."	0	"RP11-165J3.5,non_coding_transcript_exon_variant,,ENST00000443716,;RP11-165J3.6,downstream_gene_variant,,ENST00000445280,;"	"CAGCC"	"ENSG00000237385"	"ENST00000443716"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"332-333/641"	""	""	""	""	"rs544232228"	"1"	NA	-1	"RP11-165J3.5"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	"2/2"	""	""	"-:0.4888"	"CAGCC:0.6543"	"CAGCC:0.5591"	NA	"CAGCC:0.5804"	"CAGCC:0.4911"	"CAGCC:0.2331"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"3ed4f6aa-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2615"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	99497192	99497193	"+"	"IGR"	"INS"	"-"	"-"	"AGT"	"rs59251815"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"AGT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs59251815"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1048"	"AGT:0.9879"	"AGT:0.8746"	NA	"AGT:0.9355"	"AGT:0.8499"	"AGT:0.7894"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"3f08c1c4-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2616"	"RP11-23B15.1"	101928337	"mskcc.org"	"GRCh37"	"9"	100565441	100565442	"+"	"3'Flank"	"INS"	"-"	"-"	"AAAG"	"rs112948091"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000430058"	""	14	"."	3	6	"."	0	"RP11-23B15.1,downstream_gene_variant,,ENST00000430058,;"	"AAAG"	"ENSG00000236130"	"ENST00000430058"	"Transcript"	"downstream_gene_variant"	"-/204"	""	""	""	""	"rs112948091"	"1"	"2775"	-1	"RP11-23B15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"AAAG:0.1567"	"AAAG:0.2474"	"AAAG:0.1816"	NA	"AAAG:0.0655"	"AAAG:0.164"	"AAAG:0.1033"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"3f0f992c-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"2617"	"TGFBR1"	7046	"mskcc.org"	"GRCh37"	"9"	101867538	101867546	"+"	"In_Frame_Del"	"DEL"	"GGCGGCGGC"	"GGCGGCGGC"	"-"	"rs538831129"	NA	"JHCCPT1"	"JHCCPN1"	"GGCGGCGGC"	"GGCGGCGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.70_78delGCGGCGGCG"	"p.Ala24_Ala26del"	"p.A24_A26del"	"ENST00000374994"	"1/9"	22	"."	3	10	"."	0	"TGFBR1,inframe_deletion,p.Ala24_Ala26del,ENST00000374994,NM_004612.2;TGFBR1,inframe_deletion,p.Ala24_Ala26del,ENST00000552516,;TGFBR1,inframe_deletion,p.Ala24_Ala26del,ENST00000374990,NM_001130916.1;TGFBR1,intron_variant,,ENST00000547314,;TGFBR1,intron_variant,,ENST00000552573,;TGFBR1,inframe_deletion,p.Ala24_Ala26del,ENST00000549766,;"	"-"	"ENSG00000106799"	"ENST00000374994"	"Transcript"	"inframe_deletion"	"168-176/6516"	"51-59/1512"	"17-20/503"	"LAAA/L"	"ctGGCGGCGGCg/ctg"	"rs538831129"	"1"	NA	1	"TGFBR1"	"HGNC"	11772	"protein_coding"	"YES"	"CCDS6738.1"	"ENSP00000364133"	"P36897"	"Q5T7S2,F8VVC4,B4DY26"	"UPI000011D62A"	"NM_004612.2"	NA	NA	"1/9"	""	"Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,Cleavage_site_(Signalp):SignalP-noTM,hmmpanther:PTHR23255:SF61,hmmpanther:PTHR23255"	"-:0.0513"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODERATE"	"1"	"deletion"	NA	"19"	NA	"1"	"0.0009246"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"1"	"PASS"	"CTGGCGGCGGCG"	"347a1636-2764-11e6-9f7d-873e424a729f"	"180"	0	"0/0"	"4/4326"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"VQSRTrancheINDEL99.00to99.50"	"FALSE"	0.136363636363636	"WXS"	FALSE
"2618"	"STX17"	55014	"mskcc.org"	"GRCh37"	"9"	102693601	102693602	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs5899395"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.189+2482dupT"	""	""	"ENST00000259400"	""	6	"."	3	2	"."	0	"STX17,intron_variant,,ENST00000259400,NM_017919.2;STX17,intron_variant,,ENST00000525640,;STX17,intron_variant,,ENST00000534052,;STX17,intron_variant,,ENST00000531035,;RP11-60I3.4,upstream_gene_variant,,ENST00000524512,;STX17,intron_variant,,ENST00000525579,;STX17,intron_variant,,ENST00000524405,;STX17,intron_variant,,ENST00000529340,;STX17,intron_variant,,ENST00000525342,;STX17,downstream_gene_variant,,ENST00000533696,;"	"T"	"ENSG00000136874"	"ENST00000259400"	"Transcript"	"intron_variant"	"-/2708"	"-/909"	"-/302"	""	""	"rs5899395"	"1"	NA	1	"STX17"	"HGNC"	11432	"protein_coding"	"YES"	"CCDS6745.1"	"ENSP00000259400"	"P56962"	"E9PJW1"	"UPI000013D04E"	"NM_017919.2"	NA	NA	""	"3/7"	""	"T:0.4537"	"T:0.4501"	"T:0.415"	NA	"T:0.7192"	"T:0.3211"	"T:0.3487"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"3f3d0e2a-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2619"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	110826506	110826506	"+"	"IGR"	"DEL"	"T"	"-"	"-"	"rs35719858"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	7	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35719858"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.4299"	"-:0.5136"	"-:0.6873"	NA	"-:0.6012"	"-:0.4264"	"-:0.6789"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"34f88b74-2764-11e6-9f7d-873e424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"2620"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	111155881	111155884	"+"	"IGR"	"DEL"	"CAGC"	"CAGC"	"-"	"rs369129628"	NA	"JHCCPT1"	"JHCCPN1"	"CAGC"	"CAGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs369129628"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CAGC:0.4018"	"-:0.6989"	"-:0.415"	NA	"-:0.88"	"-:0.33"	"-:0.5777"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCAGCC"	"34fa7a06-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2621"	"PALM2"	114299	"mskcc.org"	"GRCh37"	"9"	112624776	112624776	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35250905"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.46-4990delT"	""	""	"ENST00000314527"	""	12	"."	5	3	"."	0	"PALM2,intron_variant,,ENST00000448454,;PALM2-AKAP2,intron_variant,,ENST00000374530,NM_007203.4,NM_147150.2;PALM2-AKAP2,intron_variant,,ENST00000302798,;PALM2,intron_variant,,ENST00000374531,NM_001037293.2;AKAP2,intron_variant,,ENST00000555236,;AKAP2,intron_variant,,ENST00000510514,;PALM2,intron_variant,,ENST00000483909,;PALM2-AKAP2,intron_variant,,ENST00000413420,;PALM2,intron_variant,,ENST00000314527,NM_053016.5;PALM2,upstream_gene_variant,,ENST00000497711,;PALM2,upstream_gene_variant,,ENST00000465091,;"	"-"	"ENSG00000243444"	"ENST00000314527"	"Transcript"	"intron_variant"	"-/1332"	"-/1236"	"-/411"	""	""	"rs35250905"	"1"	NA	1	"PALM2"	"HGNC"	15845	"protein_coding"	"YES"	"CCDS48002.2"	"ENSP00000323805"	"Q8IXS6"	""	"UPI0000071924"	"NM_053016.5"	NA	NA	""	"1/6"	""	"-:0.1398"	"-:0.0098"	"-:0.2464"	NA	"-:0.2341"	"-:0.1561"	"-:0.1258"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"3524c1f8-2764-11e6-9f7d-873e424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"2622"	"KIAA0368"	23392	"mskcc.org"	"GRCh37"	"9"	114195316	114195316	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs11335472"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1382+197delG"	""	""	"ENST00000259335"	""	24	"."	9	9	"."	0	"KIAA0368,intron_variant,,ENST00000259335,NM_001080398.1;KIAA0368,intron_variant,,ENST00000338205,;KIAA0368,intron_variant,,ENST00000602447,;"	"-"	"ENSG00000136813"	"ENST00000259335"	"Transcript"	"intron_variant"	"-/7391"	"-/6054"	"-/2017"	""	""	"rs11335472"	"1"	NA	-1	"KIAA0368"	"HGNC"	29020	"protein_coding"	"YES"	"CCDS48006.1"	"ENSP00000259335"	""	"J3KN16"	"UPI0000DD7F7A"	"NM_001080398.1"	NA	NA	""	"9/50"	""	"-:0.1819"	"-:0.0802"	"-:0.2104"	NA	"-:0.001"	"-:0.4115"	"-:0.2495"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCA"	"35443092-2764-11e6-9f7d-873e424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2623"	"ZNF618"	114991	"mskcc.org"	"GRCh37"	"9"	116812983	116812984	"+"	"3'UTR"	"INS"	"-"	"-"	"G"	"rs199599508"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*538dupG"	""	""	"ENST00000288466"	"14/14"	6	"."	4	1	"."	0	"ZNF618,3_prime_UTR_variant,,ENST00000288466,NM_133374.2;ZNF618,downstream_gene_variant,,ENST00000374126,;ZNF618,downstream_gene_variant,,ENST00000470105,;"	"G"	"ENSG00000157657"	"ENST00000288466"	"Transcript"	"3_prime_UTR_variant"	"3221-3222/9109"	"-/2586"	"-/861"	""	""	"rs199599508"	"1"	NA	1	"ZNF618"	"HGNC"	29416	"protein_coding"	"YES"	"CCDS48008.1"	"ENSP00000288466"	"Q5T7W0"	""	"UPI0000D4BD81"	"NM_133374.2"	NA	NA	"14/14"	""	""	"G:0.0262"	"G:0.0885"	"G:0.0101"	NA	"G:0"	"G:0.006"	"G:0.001"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"40000fd8-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2624"	"ASTN2"	23245	"mskcc.org"	"GRCh37"	"9"	119538054	119538055	"+"	"Intron"	"INS"	"-"	"-"	"AGGAGGGAAGG"	"rs6151139"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2243+29846_2243+29856dupCCTTCCCTCCT"	""	""	"ENST00000361209"	""	20	"."	3	11	"."	0	"ASTN2,intron_variant,,ENST00000313400,;ASTN2,intron_variant,,ENST00000373996,;ASTN2,intron_variant,,ENST00000361209,NM_014010.4;ASTN2,intron_variant,,ENST00000361477,;ASTN2,intron_variant,,ENST00000373986,;"	"AGGAGGGAAGG"	"ENSG00000148219"	"ENST00000361209"	"Transcript"	"intron_variant"	"-/4622"	"-/3867"	"-/1288"	""	""	"rs6151139"	"1"	NA	-1	"ASTN2"	"HGNC"	17021	"protein_coding"	"YES"	"CCDS6815.1"	"ENSP00000354504"	"O75129"	"B7ZKP3,B2RCB6"	"UPI00002116D7"	"NM_014010.4"	NA	NA	""	"12/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"402333dc-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"2625"	"RP11-281A20.1"	0	"mskcc.org"	"GRCh37"	"9"	120662400	120662400	"+"	"5'Flank"	"DEL"	"T"	"T"	"-"	"rs36013644"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000449730"	""	15	"."	4	5	"."	0	"RP11-281A20.1,upstream_gene_variant,,ENST00000449730,;"	"-"	"ENSG00000231901"	"ENST00000449730"	"Transcript"	"upstream_gene_variant"	"-/625"	""	""	""	""	"rs36013644"	"1"	"2866"	-1	"RP11-281A20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2153"	"-:0.2602"	"-:0.1643"	NA	"-:0.1925"	"-:0.2485"	"-:0.18"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTC"	"36067b16-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"2626"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	120759404	120759406	"+"	"IGR"	"DEL"	"TCC"	"TCC"	"-"	"rs141808718"	NA	"JHCCPT1"	"JHCCPN1"	"TCC"	"TCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	28	"."	7	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141808718"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TCC:0.3007"	"-:0.5189"	"-:0.6758"	NA	"-:0.6835"	"-:0.8658"	"-:0.8047"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTCCT"	"3607e3ac-2764-11e6-9f7d-873e424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2627"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	122372142	122372143	"+"	"IGR"	"INS"	"-"	"-"	"TCTCTT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	4	8	"."	0	""	"TCTCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"4033a91a-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2628"	"GSN"	2934	"mskcc.org"	"GRCh37"	"9"	123987086	123987087	"+"	"Intron"	"INS"	"-"	"-"	"AATA"	"rs146397070"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-527-6337_-527-6334dupAAAT"	""	""	"ENST00000373823"	""	10	"."	5	1	"."	0	"GSN,intron_variant,,ENST00000373823,;RAB14,upstream_gene_variant,,ENST00000451303,;GSN,intron_variant,,ENST00000434663,;"	"AATA"	"ENSG00000148180"	"ENST00000373823"	"Transcript"	"intron_variant"	"-/3341"	"-/2196"	"-/731"	""	""	"rs146397070"	"1"	NA	1	"GSN"	"HGNC"	4620	"protein_coding"	""	"CCDS6829.1"	"ENSP00000362929"	"P06396"	"Q5T0I0"	"UPI00001E0581"	""	NA	NA	""	"4/24"	""	"-:0.2536"	"AATA:0.6959"	"AATA:0.7608"	NA	"AATA:0.8095"	"AATA:0.663"	"AATA:0.8252"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"23"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"4043a75c-2764-11e6-9f7d-873e424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2629"	"MIR4478"	100616312	"mskcc.org"	"GRCh37"	"9"	124879852	124879853	"+"	"3'Flank"	"INS"	"-"	"-"	"G"	"rs11389821"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000584530"	""	6	"."	4	1	"."	0	"MIR4478,downstream_gene_variant,,ENST00000584530,;"	"G"	"ENSG00000266583"	"ENST00000584530"	"Transcript"	"downstream_gene_variant"	"-/86"	""	""	""	""	"rs11389821"	"1"	"2508"	-1	"MIR4478"	"HGNC"	41759	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0058"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"404eff58-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2630"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	126757277	126757278	"+"	"IGR"	"INS"	"-"	"-"	"TTTCT"	"rs113530476"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	5	5	"."	0	""	"TTTCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113530476"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3093"	"TTTCT:0.4554"	"TTTCT:0.7983"	NA	"TTTCT:0.8681"	"TTTCT:0.6789"	"TTTCT:0.7618"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"4083c454-2764-11e6-9f7d-873e424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"2631"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	126898623	126898623	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs142341172"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142341172"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATT"	"36aaac68-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2632"	"NEK6"	10783	"mskcc.org"	"GRCh37"	"9"	127112781	127112788	"+"	"Intron"	"DEL"	"ACACACAC"	"ACACACAC"	"-"	"rs71490845"	NA	"JHCCPT1"	"JHCCPN1"	"ACACACAC"	"ACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.934-312_934-305delCACACACA"	""	""	"ENST00000373600"	""	7	"."	3	5	"."	0	"NEK6,intron_variant,,ENST00000373600,NM_001145001.2;NEK6,intron_variant,,ENST00000320246,NM_014397.5;NEK6,intron_variant,,ENST00000373603,;NEK6,intron_variant,,ENST00000394199,NM_001166171.1;NEK6,intron_variant,,ENST00000539416,NM_001166169.1;NEK6,intron_variant,,ENST00000546191,NM_001166170.1;NEK6,intron_variant,,ENST00000540326,NM_001166167.1;NEK6,intron_variant,,ENST00000545174,NM_001166168.1;PSMB7,downstream_gene_variant,,ENST00000259457,NM_002799.3;NEK6,downstream_gene_variant,,ENST00000454453,;AL137846.1,mature_miRNA_variant,,ENST00000583657,;PSMB7,downstream_gene_variant,,ENST00000498485,;"	"-"	"ENSG00000119408"	"ENST00000373600"	"Transcript"	"intron_variant"	"-/3619"	"-/1044"	"-/347"	""	""	"rs71490845"	"1"	NA	1	"NEK6"	"HGNC"	7749	"protein_coding"	"YES"	"CCDS48015.1"	"ENSP00000362702"	"Q9HC98"	"Q5TBH2,Q5TBH1,Q5TBG7,Q5TBG4,Q5TBG2,Q5TBG1"	"UPI000013ED34"	"NM_001145001.2"	NA	NA	""	"10/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"23"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGACACACACA"	"36b44d9a-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2633"	"PSMB7"	5695	"mskcc.org"	"GRCh37"	"9"	127166560	127166561	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs34372176"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.511+1035dupA"	""	""	"ENST00000259457"	""	10	"."	5	2	"."	0	"PSMB7,intron_variant,,ENST00000536392,;PSMB7,intron_variant,,ENST00000259457,NM_002799.3;PSMB7,intron_variant,,ENST00000441097,;PSMB7,intron_variant,,ENST00000498485,;"	"T"	"ENSG00000136930"	"ENST00000259457"	"Transcript"	"intron_variant"	"-/980"	"-/834"	"-/277"	""	""	"rs34372176"	"1"	NA	-1	"PSMB7"	"HGNC"	9544	"protein_coding"	"YES"	"CCDS6855.1"	"ENSP00000259457"	"Q99436"	"E9KL30"	"UPI00001325C7"	"NM_002799.3"	NA	NA	""	"5/7"	""	"T:0.4036"	"T:0.3472"	"T:0.487"	NA	"T:0.3214"	"T:0.5626"	"T:0.3415"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"40888cc8-2764-11e6-9f7d-873e424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2634"	"OLFML2A"	169611	"mskcc.org"	"GRCh37"	"9"	127573108	127573109	"+"	"3'UTR"	"INS"	"-"	"-"	"T"	"rs5900625"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*417_*418insT"	""	""	"ENST00000373580"	"8/8"	13	"."	8	2	"."	0	"OLFML2A,3_prime_UTR_variant,,ENST00000373580,NM_182487.2;OLFML2A,3_prime_UTR_variant,,ENST00000288815,NM_001282715.1;"	"T"	"ENSG00000185585"	"ENST00000373580"	"Transcript"	"3_prime_UTR_variant"	"2376-2377/6425"	"-/1959"	"-/652"	""	""	"rs5900625"	"1"	NA	1	"OLFML2A"	"HGNC"	27270	"protein_coding"	"YES"	"CCDS6857.2"	"ENSP00000362682"	"Q68BL7"	""	"UPI00001B6546"	"NM_182487.2"	NA	NA	"8/8"	""	""	"-:0.0202"	"T:0.9304"	"T:0.9899"	NA	"T:1"	"T:0.999"	"T:0.999"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"408afbfc-2764-11e6-9f7d-873e424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.615384615384615	"WXS"	FALSE
"2635"	"PPP6C"	5537	"mskcc.org"	"GRCh37"	"9"	127913971	127913981	"+"	"Intron"	"DEL"	"GTGTAGCTTTC"	"GTGTAGCTTTC"	"CAAGCTGG"	"rs386738517"	NA	"JHCCPT1"	"JHCCPN1"	"GTGTAGCTTTC"	"GTGTAGCTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.670-1781_670-1771delGAAAGCTACACinsCCAGCTTG"	""	""	"ENST00000373547"	""	217	"."	32	153	"."	0	"PPP6C,intron_variant,,ENST00000451402,NM_001123355.1;PPP6C,intron_variant,,ENST00000415905,NM_001123369.1;PPP6C,intron_variant,,ENST00000373547,NM_002721.4;PPP6C,intron_variant,,ENST00000373546,;PPP6C,downstream_gene_variant,,ENST00000456642,;PRPS1P2,downstream_gene_variant,,ENST00000430496,;"	"CAAGCTGG"	"ENSG00000119414"	"ENST00000373547"	"Transcript"	"intron_variant"	"-/4118"	"-/918"	"-/305"	""	""	"rs386738517"	"1"	NA	-1	"PPP6C"	"HGNC"	9323	"protein_coding"	""	"CCDS6861.1"	"ENSP00000362648"	"O00743"	"B7Z3E2"	"UPI00001320F6"	"NM_002721.4"	NA	NA	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGTGTAGCTTTCT"	"3ae96d0a-2764-11e6-9f7d-873e424a729f"	"1920"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147465437788018	"WXS"	TRUE
"2636"	"RABEPK"	10244	"mskcc.org"	"GRCh37"	"9"	127994524	127994525	"+"	"Intron"	"INS"	"-"	"-"	"ACAGAG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.677-350_677-349insCAGAGA"	""	""	"ENST00000373538"	""	13	"."	3	7	"."	0	"RABEPK,intron_variant,,ENST00000373538,NM_005833.3;RABEPK,intron_variant,,ENST00000394125,NM_001174152.1;RABEPK,intron_variant,,ENST00000394124,;RABEPK,intron_variant,,ENST00000259460,NM_001174153.1;HSPA5,downstream_gene_variant,,ENST00000324460,NM_005347.4;"	"ACAGAG"	"ENSG00000136933"	"ENST00000373538"	"Transcript"	"intron_variant"	"-/1504"	"-/1119"	"-/372"	""	""	""	"1"	NA	1	"RABEPK"	"HGNC"	16896	"protein_coding"	"YES"	"CCDS6862.1"	"ENSP00000362639"	"Q7Z6M1"	""	"UPI000013D058"	"NM_005833.3"	NA	NA	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"4099f45e-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"2637"	"RP11-343J18.2"	0	"mskcc.org"	"GRCh37"	"9"	128853019	128853020	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs34835338"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.235+32933dupG"	""	""	"ENST00000441473"	""	7	"."	7	2	"."	0	"RP11-343J18.2,intron_variant,,ENST00000441473,;"	"G"	"ENSG00000232413"	"ENST00000441473"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/316"	""	""	""	""	"rs34835338"	"1"	NA	1	"RP11-343J18.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"GGGGGGGG:0.3183"	"GGGGGGGG:0.1483"	"GGGGGGGG:0.3948"	NA	"GGGGGGGG:0.3532"	"GGGGGGGG:0.4235"	"GGGGGGGG:0.3497"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"40a00a24-2764-11e6-9f7d-873e424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"2638"	"RP11-343J18.2"	0	"mskcc.org"	"GRCh37"	"9"	128876583	128876584	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs11369897"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.236-45225dupC"	""	""	"ENST00000441473"	""	8	"."	4	3	"."	0	"RP11-343J18.2,intron_variant,,ENST00000441473,;"	"C"	"ENSG00000232413"	"ENST00000441473"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/316"	""	""	""	""	"rs11369897"	"1"	NA	1	"RP11-343J18.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.0409"	"C:0.8865"	"C:0.9885"	NA	"C:0.9782"	"C:0.999"	"C:0.9755"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"40a0aa92-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2639"	"AL161731.1"	0	"mskcc.org"	"GRCh37"	"9"	129477852	129477853	"+"	"3'Flank"	"INS"	"-"	"-"	"AG"	"rs533015415"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000579759"	""	8	"."	5	4	"."	0	"AL161731.1,downstream_gene_variant,,ENST00000579759,;"	"AG"	"ENSG00000266403"	"ENST00000579759"	"Transcript"	"downstream_gene_variant"	"-/91"	""	""	""	""	"rs533015415"	"1"	"2669"	-1	"AL161731.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"40a4b8ee-2764-11e6-9f7d-873e424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"2640"	"FAM129B"	64855	"mskcc.org"	"GRCh37"	"9"	130272052	130272093	"+"	"Intron"	"DEL"	"CCCTCCTCTCCTTCCCTCCTTCCCTCCTCTCCTTCCCTCCTT"	"CCCTCCTCTCCTTCCCTCCTTCCCTCCTCTCCTTCCCTCCTT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CCCTCCTCTCCTTCCCTCCTTCCCTCCTCTCCTTCCCTCCTT"	"CCCTCCTCTCCTTCCCTCCTTCCCTCCTCTCCTTCCCTCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1161+332_1161+373delAAGGAGGGAAGGAGAGGAGGGAAGGAGGGAAGGAGAGGAGGG"	""	""	"ENST00000373312"	""	10	"."	3	6	"."	0	"FAM129B,intron_variant,,ENST00000373312,NM_022833.2;FAM129B,intron_variant,,ENST00000373314,NM_001035534.1;FAM129B,intron_variant,,ENST00000468379,;FAM129B,intron_variant,,ENST00000484348,;FAM129B,intron_variant,,ENST00000478917,;FAM129B,downstream_gene_variant,,ENST00000465154,;"	"-"	"ENSG00000136830"	"ENST00000373312"	"Transcript"	"intron_variant"	"-/3957"	"-/2241"	"-/746"	""	""	""	"1"	NA	-1	"FAM129B"	"HGNC"	25282	"protein_coding"	"YES"	"CCDS35145.1"	"ENSP00000362409"	"Q96TA1"	"Q9H6L6"	"UPI00001592F0"	"NM_022833.2"	NA	NA	""	"9/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCCCTCCTCTCCTTCCCTCCTTCCCTCCTCTCCTTCCCTCCTTC"	"37172fc8-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"2641"	"DNM1"	1759	"mskcc.org"	"GRCh37"	"9"	130996530	130996531	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1422+151_1422+152delCT"	""	""	"ENST00000372923"	""	130	"."	5	46	"."	0	"DNM1,intron_variant,,ENST00000341179,NM_001005336.1;DNM1,intron_variant,,ENST00000372923,NM_004408.2,NM_001288739.1;DNM1,intron_variant,,ENST00000393594,NM_001288737.1;DNM1,intron_variant,,ENST00000486160,;DNM1,intron_variant,,ENST00000475805,NM_001288738.1;DNM1,intron_variant,,ENST00000441149,;DNM1,intron_variant,,ENST00000482638,;DNM1,intron_variant,,ENST00000463998,;"	"-"	"ENSG00000106976"	"ENST00000372923"	"Transcript"	"intron_variant"	"-/3221"	"-/2595"	"-/864"	""	""	""	"1"	NA	1	"DNM1"	"HGNC"	2972	"protein_coding"	"YES"	"CCDS6895.1"	"ENSP00000362014"	"Q05193"	""	"UPI000013CA31"	"NM_004408.2,NM_001288739.1"	NA	NA	""	"11/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTTCT"	"37467f8a-2764-11e6-9f7d-873e424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0384615384615385	"WXS"	FALSE
"2642"	"C9orf114"	51490	"mskcc.org"	"GRCh37"	"9"	131594800	131594801	"+"	"5'Flank"	"INS"	"-"	"-"	"CACA"	"rs56264700"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000361256"	""	11	"."	4	8	"."	0	"C9orf114,upstream_gene_variant,,ENST00000361256,NM_016390.3;CCBL1,downstream_gene_variant,,ENST00000436267,NM_001287390.1;CCBL1,downstream_gene_variant,,ENST00000302586,NM_004059.4,NM_001122671.1;CCBL1,downstream_gene_variant,,ENST00000320665,NM_001122672.1;CCBL1,downstream_gene_variant,,ENST00000451800,;CCBL1,downstream_gene_variant,,ENST00000483599,;CCBL1,downstream_gene_variant,,ENST00000462722,;CCBL1,downstream_gene_variant,,ENST00000466418,;C9orf114,upstream_gene_variant,,ENST00000466556,;"	"CACA"	"ENSG00000198917"	"ENST00000361256"	"Transcript"	"upstream_gene_variant"	"-/4286"	"-/1131"	"-/376"	""	""	"rs56264700"	"1"	"2700"	-1	"C9orf114"	"HGNC"	26933	"protein_coding"	"YES"	"CCDS6913.1"	"ENSP00000354812"	"Q5T280"	""	"UPI0000140A15"	"NM_016390.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"40f1c184-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2643"	"PPP2R4"	5524	"mskcc.org"	"GRCh37"	"9"	131904441	131904442	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs72003256"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.787-281_787-280delAG"	""	""	"ENST00000393370"	""	13	"."	4	4	"."	0	"PPP2R4,5_prime_UTR_variant,,ENST00000434095,;PPP2R4,intron_variant,,ENST00000337738,NM_178001.2;PPP2R4,intron_variant,,ENST00000348141,;PPP2R4,intron_variant,,ENST00000393370,NM_178000.2;PPP2R4,intron_variant,,ENST00000358994,NM_021131.4;PPP2R4,intron_variant,,ENST00000357197,NM_001271832.1;PPP2R4,intron_variant,,ENST00000355007,NM_178003.2;PPP2R4,intron_variant,,ENST00000347048,;PPP2R4,intron_variant,,ENST00000452489,;PPP2R4,intron_variant,,ENST00000524946,;PPP2R4,intron_variant,,ENST00000414510,;PPP2R4,intron_variant,,ENST00000423100,;PPP2R4,intron_variant,,ENST00000417728,NM_001193397.1;PPP2R4,intron_variant,,ENST00000419582,;PPP2R4,intron_variant,,ENST00000432651,;PPP2R4,intron_variant,,ENST00000411917,;PPP2R4,intron_variant,,ENST00000435132,;PPP2R4,intron_variant,,ENST00000432124,;PPP2R4,intron_variant,,ENST00000436883,;PPP2R4,intron_variant,,ENST00000435305,;PPP2R4,downstream_gene_variant,,ENST00000455240,;"	"-"	"ENSG00000119383"	"ENST00000393370"	"Transcript"	"intron_variant"	"-/2737"	"-/972"	"-/323"	""	""	"rs72003256"	"1"	NA	1	"PPP2R4"	"HGNC"	9308	"protein_coding"	"YES"	"CCDS6920.1"	"ENSP00000377036"	"Q15257"	"B7ZBQ0,A6PVN9,A6PVN8,A6PVN7"	"UPI000013D6D6"	"NM_178000.2"	NA	NA	""	"8/9"	""	"-:0.0188"	"-:0.0015"	"-:0.0101"	NA	"-:0.001"	"-:0.0388"	"-:0.046"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"379b4eac-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"2644"	"RP11-65J3.15"	0	"mskcc.org"	"GRCh37"	"9"	132085929	132085930	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs5900843"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000599815"	""	6	"."	4	1	"."	0	"RP11-65J3.15,upstream_gene_variant,,ENST00000599815,;C9orf106,non_coding_transcript_exon_variant,,ENST00000316786,;"	"C"	"ENSG00000268615"	"ENST00000599815"	"Transcript"	"upstream_gene_variant"	"-/141"	""	""	""	""	"rs5900843"	"1"	"4610"	1	"RP11-65J3.15"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0256"	"C:0.9977"	"C:0.9669"	NA	"C:0.9812"	"C:0.9284"	"C:0.9888"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"41189c6e-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2645"	"C9orf78"	51759	"mskcc.org"	"GRCh37"	"9"	132594659	132594661	"+"	"Intron"	"DEL"	"GTT"	"GTT"	"-"	"rs3054826"	NA	"JHCCPT1"	"JHCCPN1"	"GTT"	"GTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.267-409_267-407delAAC"	""	""	"ENST00000372447"	""	7	"."	3	2	"."	0	"C9orf78,intron_variant,,ENST00000372447,NM_016520.2;USP20,upstream_gene_variant,,ENST00000315480,;USP20,upstream_gene_variant,,ENST00000358355,NM_001008563.4;USP20,upstream_gene_variant,,ENST00000372429,NM_006676.7,NM_001110303.3;C9orf78,intron_variant,,ENST00000461762,;C9orf78,intron_variant,,ENST00000461349,;C9orf78,intron_variant,,ENST00000461539,;C9orf78,intron_variant,,ENST00000492991,;C9orf78,intron_variant,,ENST00000495934,;C9orf78,upstream_gene_variant,,ENST00000480023,;USP20,upstream_gene_variant,,ENST00000491053,;USP20,upstream_gene_variant,,ENST00000494971,;"	"-"	"ENSG00000136819"	"ENST00000372447"	"Transcript"	"intron_variant"	"-/1795"	"-/870"	"-/289"	""	""	"rs3054826"	"1"	NA	-1	"C9orf78"	"HGNC"	24932	"protein_coding"	"YES"	"CCDS6931.1"	"ENSP00000361524"	"Q9NZ63"	""	"UPI000006F0CA"	"NM_016520.2"	NA	NA	""	"4/8"	""	"-:0.2290"	"-:0.2005"	"-:0.2133"	NA	"-:0.2143"	"-:0.2744"	"-:0.2474"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGTTG"	"37aeea48-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2646"	"USP20"	10868	"mskcc.org"	"GRCh37"	"9"	132628734	132628735	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs71497498"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.690+1078_690+1079delAG"	""	""	"ENST00000315480"	""	6	"."	4	1	"."	0	"USP20,intron_variant,,ENST00000315480,;USP20,intron_variant,,ENST00000358355,NM_001008563.4;USP20,intron_variant,,ENST00000372429,NM_006676.7,NM_001110303.3;USP20,upstream_gene_variant,,ENST00000474895,;USP20,upstream_gene_variant,,ENST00000491731,;"	"-"	"ENSG00000136878"	"ENST00000315480"	"Transcript"	"intron_variant"	"-/4458"	"-/2745"	"-/914"	""	""	"rs71497498"	"1"	NA	1	"USP20"	"HGNC"	12619	"protein_coding"	"YES"	"CCDS43892.1"	"ENSP00000313811"	"Q9Y2K6"	"Q9UQN9"	"UPI000013D050"	""	NA	NA	""	"10/24"	""	"-:0.0238"	"-:0.003"	"-:0.0403"	NA	"-:0"	"-:0.0716"	"-:0.0153"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAGA"	"37b9cd96-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2647"	"ABL1"	25	"mskcc.org"	"GRCh37"	"9"	133730793	133730793	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs34258058"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.549+317delA"	""	""	"ENST00000318560"	""	10	"."	5	1	"."	0	"ABL1,intron_variant,,ENST00000318560,NM_005157.4;ABL1,intron_variant,,ENST00000372348,NM_007313.2;ABL1,downstream_gene_variant,,ENST00000393293,;"	"-"	"ENSG00000097007"	"ENST00000318560"	"Transcript"	"intron_variant"	"-/5766"	"-/3393"	"-/1130"	""	""	"rs34258058"	"1"	NA	1	"ABL1"	"HGNC"	76	"protein_coding"	""	"CCDS35166.1"	"ENSP00000323315"	"P00519"	""	"UPI000013D6D4"	"NM_005157.4"	NA	NA	""	"3/10"	""	"-:0.2546"	"-:0.593"	"-:0.2219"	NA	"-:0.0843"	"-:0.1511"	"-:0.1022"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTAA"	"37f7d636-2764-11e6-9f7d-873e424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	TRUE
"2648"	"ENSR00001316295"	0	"mskcc.org"	"GRCh37"	"9"	134210730	134210731	"+"	"IGR"	"INS"	"-"	"-"	"TTCTT"	"rs111959665"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001316295"	""	9	"."	4	2	"."	0	""	"TTCTT"	""	"ENSR00001316295"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs111959665"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"41742340-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2649"	"SETX"	23064	"mskcc.org"	"GRCh37"	"9"	135144476	135144477	"+"	"Intron"	"INS"	"-"	"-"	"TGTA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7287+522_7287+525dupTACA"	""	""	"ENST00000224140"	""	9	"."	3	5	"."	0	"SETX,intron_variant,,ENST00000372169,;SETX,intron_variant,,ENST00000224140,NM_015046.5;SETX,intron_variant,,ENST00000393220,;SETX,intron_variant,,ENST00000436441,;SETX,intron_variant,,ENST00000477049,;"	"TGTA"	"ENSG00000107290"	"ENST00000224140"	"Transcript"	"intron_variant"	"-/11100"	"-/8034"	"-/2677"	""	""	""	"1"	NA	-1	"SETX"	"HGNC"	445	"protein_coding"	"YES"	"CCDS6947.1"	"ENSP00000224140"	"Q7Z333"	""	"UPI0000210D28"	"NM_015046.5"	NA	NA	""	"25/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"41a2cc0e-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2650"	"CELP"	1057	"mskcc.org"	"GRCh37"	"9"	135962585	135962586	"+"	"RNA"	"INS"	"-"	"-"	"GCCCCATCCCCGCTACGGGTGACTCTGAGGCTGCCCCCGTGCCCACCTCAGGTGACTCTGAGGCC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1097_1098insATCCCCGCTACGGGTGACTCTGAGGCTGCCCCCGTGCCCACCTCAGGTGACTCTGAGGCCGCCCC"	""	""	"ENST00000411440"	"5/5"	49	"."	4	18	"."	0	"CELP,non_coding_transcript_exon_variant,,ENST00000411440,;CELP,non_coding_transcript_exon_variant,,ENST00000421286,;"	"GCCCCATCCCCGCTACGGGTGACTCTGAGGCTGCCCCCGTGCCCACCTCAGGTGACTCTGAGGCC"	"ENSG00000170827"	"ENST00000411440"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1092-1093/1249"	""	""	""	""	""	"1"	NA	1	"CELP"	"HGNC"	1849	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	"5/5"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"41bda056-2764-11e6-9f7d-873e424a729f"	"229"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WXS"	FALSE
"2651"	"LCN1P2"	0	"mskcc.org"	"GRCh37"	"9"	136184775	136184781	"+"	"Intron"	"DEL"	"CTGGATG"	"CTGGATG"	"ATGG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"CTGGATG"	"CTGGATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.91+56_91+61delCTGGATinsATG"	""	""	"ENST00000372030"	""	48	"."	4	28	"."	0	"LCN1P2,intron_variant,,ENST00000372030,;"	"ATG"	"ENSG00000204031"	"ENST00000372030"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/223"	""	""	""	""	""	"1"	NA	1	"LCN1P2"	"HGNC"	23680	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGCTGGATGA"	"3af29614-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WXS"	FALSE
"2652"	"VAV2"	7410	"mskcc.org"	"GRCh37"	"9"	136657227	136657255	"+"	"Intron"	"DEL"	"TGTACTGTGTGGGGTGTGTGTGAGCGGGT"	"TGTACTGTGTGGGGTGTGTGTGAGCGGGT"	"-"	"rs201208643"	NA	"JHCCPT1"	"JHCCPN1"	"TGTACTGTGTGGGGTGTGTGTGAGCGGGT"	"TGTACTGTGTGGGGTGTGTGTGAGCGGGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1102-264_1102-236delACCCGCTCACACACACCCCACACAGTACA"	""	""	"ENST00000371850"	""	11	"."	3	11	"."	0	"VAV2,intron_variant,,ENST00000371851,;VAV2,intron_variant,,ENST00000371850,NM_001134398.1;VAV2,intron_variant,,ENST00000406606,NM_003371.3;"	"-"	"ENSG00000160293"	"ENST00000371850"	"Transcript"	"intron_variant"	"-/4837"	"-/2637"	"-/878"	""	""	"rs201208643"	"1"	NA	-1	"VAV2"	"HGNC"	12658	"protein_coding"	"YES"	"CCDS48053.1"	"ENSP00000360916"	"P52735"	""	"UPI000013E06E"	"NM_001134398.1"	NA	NA	""	"12/29"	""	"-:0.2674"	"-:0.2814"	"-:0.3271"	NA	"-:0.2411"	"-:0.2346"	"-:0.2669"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTGTACTGTGTGGGGTGTGTGTGAGCGGGTT"	"38a5cdea-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2653"	"VAV2"	7410	"mskcc.org"	"GRCh37"	"9"	136668554	136668555	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs143850406"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.836+2648dupG"	""	""	"ENST00000371850"	""	8	"."	3	3	"."	0	"VAV2,intron_variant,,ENST00000371851,;VAV2,intron_variant,,ENST00000371850,NM_001134398.1;VAV2,intron_variant,,ENST00000406606,NM_003371.3;"	"C"	"ENSG00000160293"	"ENST00000371850"	"Transcript"	"intron_variant"	"-/4837"	"-/2637"	"-/878"	""	""	"rs143850406"	"1"	NA	-1	"VAV2"	"HGNC"	12658	"protein_coding"	"YES"	"CCDS48053.1"	"ENSP00000360916"	"P52735"	""	"UPI000013E06E"	"NM_001134398.1"	NA	NA	""	"9/29"	""	"C:0.0909"	"C:0.0446"	"C:0.1599"	NA	"C:0.0298"	"C:0.1223"	"C:0.135"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"41f5193c-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2654"	"VAV2"	7410	"mskcc.org"	"GRCh37"	"9"	136839891	136839892	"+"	"Intron"	"INS"	"-"	"-"	"CTGCACCCAGCA"	"rs11270393"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.204+17294_204+17305dupTGCTGGGTGCAG"	""	""	"ENST00000371850"	""	6	"."	4	2	"."	0	"VAV2,intron_variant,,ENST00000371851,;VAV2,intron_variant,,ENST00000371850,NM_001134398.1;VAV2,intron_variant,,ENST00000406606,NM_003371.3;VAV2,intron_variant,,ENST00000486113,;"	"CTGCACCCAGCA"	"ENSG00000160293"	"ENST00000371850"	"Transcript"	"intron_variant"	"-/4837"	"-/2637"	"-/878"	""	""	"rs11270393"	"1"	NA	-1	"VAV2"	"HGNC"	12658	"protein_coding"	"YES"	"CCDS48053.1"	"ENSP00000360916"	"P52735"	""	"UPI000013E06E"	"NM_001134398.1"	NA	NA	""	"1/29"	""	"-:0.0070"	"CTGCACCCAGCA:0.9841"	"CTGCACCCAGCA:1"	NA	"CTGCACCCAGCA:1"	"CTGCACCCAGCA:0.9911"	"CTGCACCCAGCA:0.9949"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"41fc5558-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2655"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	137193057	137193058	"+"	"IGR"	"DEL"	"AG"	"AG"	"-"	"rs374489815"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	5	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs374489815"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"38aeed94-2764-11e6-9f7d-873e424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"2656"	"COL5A1"	1289	"mskcc.org"	"GRCh37"	"9"	137644269	137644270	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11380412"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1663-166_1663-165insT"	""	""	"ENST00000371817"	""	109	"."	3	61	"."	0	"COL5A1,intron_variant,,ENST00000371817,NM_001278074.1,NM_000093.4;"	"T"	"ENSG00000130635"	"ENST00000371817"	"Transcript"	"intron_variant"	"-/8468"	"-/5517"	"-/1838"	""	""	"rs11380412"	"1"	NA	1	"COL5A1"	"HGNC"	2209	"protein_coding"	"YES"	"CCDS6982.1"	"ENSP00000360882"	"P20908"	"Q9UML4,Q96HC0,Q59EE7"	"UPI0000210EE3"	"NM_001278074.1,NM_000093.4"	NA	NA	""	"13/65"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"42118284-2764-11e6-9f7d-873e424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0275229357798165	"WXS"	FALSE
"2657"	"PAEP"	5047	"mskcc.org"	"GRCh37"	"9"	138455337	138455338	"+"	"Intron"	"INS"	"-"	"-"	"AGGTGGGT"	"rs140969604"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.310+604_310+611dupGGTAGGTG"	""	""	"ENST00000479141"	""	21	"."	5	10	"."	0	"PAEP,intron_variant,,ENST00000479141,NM_002571.2;PAEP,intron_variant,,ENST00000371766,;PAEP,intron_variant,,ENST00000433563,;PAEP,intron_variant,,ENST00000277508,NM_001018049.1;PAEP,intron_variant,,ENST00000454923,;PAEP,intron_variant,,ENST00000418284,;PAEP,upstream_gene_variant,,ENST00000457014,;PAEP,intron_variant,,ENST00000371768,;"	"AGGTGGGT"	"ENSG00000122133"	"ENST00000479141"	"Transcript"	"intron_variant"	"-/990"	"-/543"	"-/180"	""	""	"rs140969604"	"1"	NA	1	"PAEP"	"HGNC"	8573	"protein_coding"	"YES"	"CCDS35173.1"	"ENSP00000417898"	"P09466"	"Q5T6T6"	"UPI0000038E3A"	"NM_002571.2"	NA	NA	""	"3/6"	""	"-:0.0373"	"AGGTGGGT:0.9448"	"AGGTGGGT:0.9726"	NA	"AGGTGGGT:0.9752"	"AGGTGGGT:0.9602"	"AGGTGGGT:0.9693"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"13"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"422d7cb4-2764-11e6-9f7d-873e424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WXS"	FALSE
"2658"	"GLT6D1"	360203	"mskcc.org"	"GRCh37"	"9"	138534445	138534452	"+"	"5'Flank"	"DEL"	"TCTCTCTC"	"TCTCTCTC"	"-"	"rs147249916"	NA	"JHCCPT1"	"JHCCPN1"	"TCTCTCTC"	"TCTCTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371763"	""	8	"."	5	3	"."	0	"GLT6D1,upstream_gene_variant,,ENST00000371763,NM_182974.2;"	"-"	"ENSG00000204007"	"ENST00000371763"	"Transcript"	"upstream_gene_variant"	"-/1526"	"-/831"	"-/276"	""	""	"rs147249916"	"1"	"3059"	-1	"GLT6D1"	"HGNC"	23671	"protein_coding"	"YES"	"CCDS43900.1"	"ENSP00000360829"	"Q7Z4J2"	""	"UPI0000246F68"	"NM_182974.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCTCTCTCT"	"39076fbe-2764-11e6-9f7d-873e424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"2659"	"SOHLH1"	402381	"mskcc.org"	"GRCh37"	"9"	138588359	138588360	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs74710459"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.661+98dupG"	""	""	"ENST00000425225"	""	6	"."	4	3	"."	0	"SOHLH1,intron_variant,,ENST00000298466,NM_001012415.2;SOHLH1,intron_variant,,ENST00000425225,NM_001101677.1;"	"C"	"ENSG00000165643"	"ENST00000425225"	"Transcript"	"intron_variant"	"-/1411"	"-/1164"	"-/387"	""	""	"rs74710459"	"1"	NA	-1	"SOHLH1"	"HGNC"	27845	"protein_coding"	"YES"	"CCDS48054.1"	"ENSP00000404438"	"Q5JUK2"	""	"UPI0001AE6F1C"	"NM_001101677.1"	NA	NA	""	"5/7"	""	"-:0.0623"	"C:0.8805"	"C:0.9467"	NA	"C:0.9732"	"C:0.9523"	"C:0.9571"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAC"	"42331eee-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2660"	"ENSR00001317690"	0	"mskcc.org"	"GRCh37"	"9"	139524505	139524506	"+"	"IGR"	"INS"	"-"	"TGGGCA"	"TGGGCA"	"rs11280963"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001317690"	""	6	"."	6	2	"."	0	""	"TGGGCA"	""	"ENSR00001317690"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs11280963"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4866"	"TGGGCA:0.4486"	"TGGGCA:0.585"	NA	"TGGGCA:0.4147"	"TGGGCA:0.661"	"TGGGCA:0.5"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"4260da6e-2764-11e6-9f7d-873e424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"2661"	"AGPAT2"	10555	"mskcc.org"	"GRCh37"	"9"	139567986	139567987	"+"	"3'UTR"	"INS"	"-"	"-"	"CGAGCC"	"rs145169122"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*212_*217dupGGCTCG"	""	""	"ENST00000371696"	"6/6"	11	"."	4	5	"."	0	"AGPAT2,3_prime_UTR_variant,,ENST00000371696,NM_006412.3;AGPAT2,3_prime_UTR_variant,,ENST00000371694,NM_001012727.1;AGPAT2,3_prime_UTR_variant,,ENST00000538402,;EGFL7,downstream_gene_variant,,ENST00000371699,;EGFL7,downstream_gene_variant,,ENST00000308874,;EGFL7,downstream_gene_variant,,ENST00000406555,NM_016215.4;EGFL7,downstream_gene_variant,,ENST00000371698,NM_201446.2;EGFL7,downstream_gene_variant,,ENST00000492862,;MIR126,downstream_gene_variant,,ENST00000362291,;EGFL7,downstream_gene_variant,,ENST00000492002,;EGFL7,downstream_gene_variant,,ENST00000490469,;AGPAT2,downstream_gene_variant,,ENST00000472820,;AGPAT2,downstream_gene_variant,,ENST00000470861,;"	"CGAGCC"	"ENSG00000169692"	"ENST00000371696"	"Transcript"	"3_prime_UTR_variant"	"1120-1121/1512"	"-/837"	"-/278"	""	""	"rs145169122"	"1"	NA	-1	"AGPAT2"	"HGNC"	325	"protein_coding"	"YES"	"CCDS7003.1"	"ENSP00000360761"	"O15120"	"Q8WUW2"	"UPI0000131BD3"	"NM_006412.3"	NA	NA	"6/6"	""	""	"CGAGCC:0.0453"	"CGAGCC:0.0113"	"CGAGCC:0.0778"	NA	"CGAGCC:0"	"CGAGCC:0.1272"	"CGAGCC:0.0307"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"426595cc-2764-11e6-9f7d-873e424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2662"	"TOR4A"	54863	"mskcc.org"	"GRCh37"	"9"	140174967	140174977	"+"	"3'UTR"	"DEL"	"GGAGCGGAGGC"	"GGAGCGGAGGC"	"-"	"rs148615273"	NA	"JHCCPT1"	"JHCCPN1"	"GGAGCGGAGGC"	"GGAGCGGAGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*558_*568delCGGAGGCGGAG"	""	""	"ENST00000357503"	"2/2"	12	"."	6	1	"."	0	"TOR4A,3_prime_UTR_variant,,ENST00000357503,NM_017723.2;"	"-"	"ENSG00000198113"	"ENST00000357503"	"Transcript"	"3_prime_UTR_variant"	"2022-2032/4148"	"-/1272"	"-/423"	""	""	"rs148615273"	"1"	NA	1	"TOR4A"	"HGNC"	25981	"protein_coding"	"YES"	"CCDS7041.1"	"ENSP00000350102"	"Q9NXH8"	""	"UPI00004577EC"	"NM_017723.2"	NA	NA	"2/2"	""	""	"-:0.0120"	"-:0.003"	"-:0.0144"	NA	"-:0"	"-:0.0388"	"-:0.0072"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGGAGCGGAGGCG"	"3a70b716-2764-11e6-9f7d-873e424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2663"	"PLCXD1"	55344	"mskcc.org"	"GRCh37"	"X"	201442	201443	"+"	"Intron"	"INS"	"-"	"-"	"CA"	"rs35545254"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.127+462_127+463dupCA"	""	""	"ENST00000381657"	""	7	"."	4	1	"."	0	"PLCXD1,intron_variant,,ENST00000381657,NM_018390.3;PLCXD1,intron_variant,,ENST00000399012,;PLCXD1,intron_variant,,ENST00000381663,;PLCXD1,intron_variant,,ENST00000448477,;PLCXD1,intron_variant,,ENST00000430923,;PLCXD1,intron_variant,,ENST00000447472,;PLCXD1,intron_variant,,ENST00000415337,;PLCXD1,intron_variant,,ENST00000445062,;PLCXD1,intron_variant,,ENST00000429181,;PLCXD1,intron_variant,,ENST00000443019,;PLCXD1,intron_variant,,ENST00000484611,;"	"CA"	"ENSG00000182378"	"ENST00000381657"	"Transcript"	"intron_variant"	"-/5507"	"-/972"	"-/323"	""	""	"rs35545254"	"1"	NA	1	"PLCXD1"	"HGNC"	23148	"protein_coding"	"YES"	"CCDS14103.1"	"ENSP00000371073"	"Q9NUJ7"	"K7EIC3,C9JP92"	"UPI0000048190"	"NM_018390.3"	NA	NA	""	"2/6"	""	"-:0.4052"	"CA:0.59"	"CA:0.5"	NA	"CA:0.63"	"CA:0.7018"	"CA:0.5225"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"3cf843c8-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2664"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	443300	443300	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs67368814"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs67368814"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.4443"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACGG"	"2e77613a-2764-11e6-b4d5-bdf0414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2665"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	448783	448784	"+"	"IGR"	"INS"	"-"	"-"	"AGG"	"rs368196255"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	6	"."	0	""	"AGG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs368196255"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AGG:0.3179"	"AGG:0.2269"	"AGG:0.3818"	NA	"AGG:0.2827"	"AGG:0.3907"	"AGG:0.3569"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"3d03998a-2764-11e6-b4d5-bdf0414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2666"	"KRT18P53"	0	"mskcc.org"	"GRCh37"	"X"	503654	503655	"+"	"3'Flank"	"INS"	"-"	"T"	"T"	"rs765105349"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000431919"	""	7	"."	6	1	"."	0	"KRT18P53,downstream_gene_variant,,ENST00000431919,;"	"T"	"ENSG00000229232"	"ENST00000431919"	"Transcript"	"downstream_gene_variant"	"-/117"	""	""	""	""	"rs765105349"	"1"	"2316"	-1	"KRT18P53"	"HGNC"	38714	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.0026"	"T:0"	"T:0.0029"	NA	"T:0"	"T:0.006"	"T:0.0051"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"3d052ac0-2764-11e6-b4d5-bdf0414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"2667"	"ASMTL"	8623	"mskcc.org"	"GRCh37"	"X"	1532241	1532242	"+"	"Intron"	"INS"	"-"	"-"	"GGC"	"rs113902231"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1523-497_1523-495dupGCC"	""	""	"ENST00000381317"	""	10	"."	5	2	"."	0	"ASMTL,intron_variant,,ENST00000534940,NM_001173473.1;ASMTL,intron_variant,,ENST00000381333,NM_001173474.1;ASMTL,intron_variant,,ENST00000381317,NM_004192.3;ASMTL,intron_variant,,ENST00000416733,;ASMTL-AS1,intron_variant,,ENST00000425740,;ASMTL-AS1,intron_variant,,ENST00000419737,;ASMTL-AS1,intron_variant,,ENST00000602357,;ASMTL-AS1,downstream_gene_variant,,ENST00000420411,;"	"GGC"	"ENSG00000169093"	"ENST00000381317"	"Transcript"	"intron_variant"	"-/2027"	"-/1866"	"-/621"	""	""	"rs113902231"	"1"	NA	-1	"ASMTL"	"HGNC"	751	"protein_coding"	"YES"	"CCDS43917.1"	"ENSP00000370718"	"O95671"	""	"UPI0000141AF9"	"NM_004192.3"	NA	NA	""	"11/12"	""	"GGC:0.3405"	"GGC:0.2156"	"GGC:0.3285"	NA	"GGC:0.4335"	"GGC:0.3002"	"GGC:0.4632"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"3d1377ba-2764-11e6-b4d5-bdf0414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2668"	"ASMTL"	8623	"mskcc.org"	"GRCh37"	"X"	1533958	1533958	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs111631322"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1523-2211delA"	""	""	"ENST00000381317"	""	6	"."	3	2	"."	0	"ASMTL,intron_variant,,ENST00000534940,NM_001173473.1;ASMTL,intron_variant,,ENST00000381333,NM_001173474.1;ASMTL,intron_variant,,ENST00000381317,NM_004192.3;ASMTL,intron_variant,,ENST00000416733,;ASMTL-AS1,downstream_gene_variant,,ENST00000425740,;ASMTL-AS1,downstream_gene_variant,,ENST00000420411,;ASMTL-AS1,downstream_gene_variant,,ENST00000419737,;ASMTL-AS1,downstream_gene_variant,,ENST00000602357,;"	"-"	"ENSG00000169093"	"ENST00000381317"	"Transcript"	"intron_variant"	"-/2027"	"-/1866"	"-/621"	""	""	"rs111631322"	"1"	NA	-1	"ASMTL"	"HGNC"	751	"protein_coding"	"YES"	"CCDS43917.1"	"ENSP00000370718"	"O95671"	""	"UPI0000141AF9"	"NM_004192.3"	NA	NA	""	"11/12"	""	"T:0.0753"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTG"	"2ea7e3f0-2764-11e6-b4d5-bdf0414a729f"	"172"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2669"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1830901	1830902	"+"	"IGR"	"INS"	"-"	"-"	"TC"	"rs766477416"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	23	"."	5	5	"."	0	""	"TC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs766477416"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TC:0.4131"	"TC:0.4228"	"TC:0.3746"	NA	"TC:0.381"	"TC:0.4851"	"TC:0.3865"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"3d1a5e90-2764-11e6-b4d5-bdf0414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WXS"	FALSE
"2670"	"DHRSX"	207063	"mskcc.org"	"GRCh37"	"X"	2145636	2145636	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs773010108"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.805-6366delT"	""	""	"ENST00000334651"	""	28	"."	4	7	"."	0	"DHRSX,intron_variant,,ENST00000334651,NM_145177.2;"	"-"	"ENSG00000169084"	"ENST00000334651"	"Transcript"	"intron_variant"	"-/2571"	"-/993"	"-/330"	""	""	"rs773010108"	"1"	NA	-1	"DHRSX"	"HGNC"	18399	"protein_coding"	"YES"	"CCDS35195.1"	"ENSP00000334113"	"Q8N5I4"	"C9JRH1"	"UPI0000D61D1C"	"NM_145177.2"	NA	NA	""	"6/6"	""	"-:0.0336"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"2eb65228-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"2671"	"XG"	7499	"mskcc.org"	"GRCh37"	"X"	2707825	2707829	"+"	"Intron"	"DEL"	"TTTAC"	"TTTAC"	"-"	"rs201214222"	NA	"JHCCPT1"	"JHCCPN1"	"TTTAC"	"TTTAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.253+82_253+86delCTTTA"	""	""	"ENST00000419513"	""	36	"."	6	14	"."	0	"XG,intron_variant,,ENST00000426774,NM_001141920.1,NM_175569.2;XG,intron_variant,,ENST00000381174,;XG,intron_variant,,ENST00000419513,NM_001141919.1;XG,intron_variant,,ENST00000509484,;XG,upstream_gene_variant,,ENST00000519244,;"	"-"	"ENSG00000124343"	"ENST00000419513"	"Transcript"	"intron_variant"	"-/979"	"-/588"	"-/195"	""	""	"rs201214222"	"1"	NA	1	"XG"	"HGNC"	12806	"protein_coding"	"YES"	"CCDS48073.1"	"ENSP00000411004"	"P55808"	"Q496P1"	"UPI0000D61D1F"	"NM_001141919.1"	NA	NA	""	"5/10"	""	"-:0.1783"	"-:0.0598"	"-:0.049"	NA	"-:0.2183"	"-:0.0944"	"-:0.2505"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATTTTACT"	"2ec36454-2764-11e6-b4d5-bdf0414a729f"	"357"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"2672"	"GYG2"	8908	"mskcc.org"	"GRCh37"	"X"	2785338	2785339	"+"	"Intron"	"INS"	"-"	"A"	"A"	"rs57107092"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1131+5579dupA"	""	""	"ENST00000381163"	""	7	"."	5	1	"."	0	"GYG2,intron_variant,,ENST00000381163,NM_001079855.1,NM_001184702.1,NM_003918.2;GYG2,intron_variant,,ENST00000338623,;GYG2,intron_variant,,ENST00000542787,NM_001184703.1,NM_001184704.1;GYG2,intron_variant,,ENST00000398806,;GYG2,intron_variant,,ENST00000381157,;GYG2,intron_variant,,ENST00000381161,;GYG2,intron_variant,,ENST00000353656,;GYG2,intron_variant,,ENST00000453106,;"	"A"	"ENSG00000056998"	"ENST00000381163"	"Transcript"	"intron_variant"	"-/3393"	"-/1506"	"-/501"	""	""	"rs57107092"	"1"	NA	1	"GYG2"	"HGNC"	4700	"protein_coding"	"YES"	"CCDS14121.1"	"ENSP00000370555"	"O15488"	""	"UPI000049E10B"	"NM_001079855.1,NM_001184702.1,NM_003918.2"	NA	NA	""	"9/11"	""	"-:0.2389"	"A:0.3442"	"A:0.611"	NA	"A:0.6746"	"A:0.6789"	"A:0.6452"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"3d3a769e-2764-11e6-b4d5-bdf0414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2673"	"ARSD"	414	"mskcc.org"	"GRCh37"	"X"	2850443	2850444	"+"	"5'Flank"	"INS"	"-"	"-"	"CCTTCTTTTTCCTTCCTG"	"rs201326439"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000381154"	""	12	"."	4	2	"."	0	"ARSD,upstream_gene_variant,,ENST00000381154,NM_001669.3;ARSE,downstream_gene_variant,,ENST00000545496,NM_001282628.1;ARSE,downstream_gene_variant,,ENST00000540563,NM_001282631.1;ARSE,downstream_gene_variant,,ENST00000381134,NM_000047.2;ARSD,upstream_gene_variant,,ENST00000217890,;ARSD,upstream_gene_variant,,ENST00000495294,;ARSD,upstream_gene_variant,,ENST00000494870,;ARSD,upstream_gene_variant,,ENST00000559324,;"	"CCTTCTTTTTCCTTCCTG"	"ENSG00000006756"	"ENST00000381154"	"Transcript"	"upstream_gene_variant"	"-/5159"	"-/1782"	"-/593"	""	""	"rs201326439"	"1"	"3051"	-1	"ARSD"	"HGNC"	717	"protein_coding"	"YES"	"CCDS35196.1"	"ENSP00000370546"	"P51689"	""	"UPI0000070902"	"NM_001669.3"	NA	NA	""	""	""	"-:0.3012"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"3d40b644-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2674"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	3136523	3136524	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs113447502"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	4	8	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113447502"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.2956"	"G:0.3457"	"G:0.2089"	NA	"G:0.0367"	"G:0.1899"	"G:0.2924"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"3d43642a-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"2675"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	3137082	3137083	"+"	"IGR"	"INS"	"-"	"-"	"AGAAAGA"	"rs778421334"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"."	3	10	"."	0	""	"AGAAAGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs778421334"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AGAAAGA:0.2178"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"3d45051e-2764-11e6-b4d5-bdf0414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WXS"	FALSE
"2676"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	3158722	3158762	"+"	"IGR"	"DEL"	"TCTTTCTTTCTTTCTTTCTTTCTTTCTTTTCTTTCTTTCTT"	"TCTTTCTTTCTTTCTTTCTTTCTTTCTTTTCTTTCTTTCTT"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TCTTTCTTTCTTTCTTTCTTTCTTTCTTTTCTTTCTTTCTT"	"TCTTTCTTTCTTTCTTTCTTTCTTTCTTTTCTTTCTTTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTTTCTTTCTTTCTTTCTTTCTTTCTTTTCTTTCTTTCTTT"	"2ee4ad1c-2764-11e6-b4d5-bdf0414a729f"	"171"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2677"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	3710887	3710888	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs34102502"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34102502"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4421"	"A:0.0832"	"A:0.5173"	NA	"A:0.625"	"A:0.4831"	"A:0.5327"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"3d55c2e6-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2678"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	6444678	6444679	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs765742141"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	3	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs765742141"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0286"	"A:0.7133"	"A:0.7363"	NA	"A:0.751"	"A:0.7396"	"A:0.728"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"3d67d45e-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2679"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	7927315	7927316	"+"	"IGR"	"INS"	"-"	"-"	"TA"	"rs200458591"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	2	"."	0	""	"TA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200458591"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4334"	"TA:0.3033"	"TA:0.4568"	NA	"TA:0.5159"	"TA:0.4215"	"TA:0.4877"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"3d69f090-2764-11e6-b4d5-bdf0414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2680"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	8195246	8195247	"+"	"IGR"	"INS"	"-"	"-"	"CCTTCCTT"	"rs755574617"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	3	5	"."	0	""	"CCTTCCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs755574617"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CCTTCCTT:0.0066"	"CCTTCCTT:0.0068"	"CCTTCCTT:0.0043"	NA	"CCTTCCTT:0.0089"	"CCTTCCTT:0.002"	"CCTTCCTT:0.002"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"3d6c1e2e-2764-11e6-b4d5-bdf0414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"2681"	"TBL1X"	6907	"mskcc.org"	"GRCh37"	"X"	9622450	9622451	"+"	"Intron"	"INS"	"-"	"-"	"AGA"	"rs34335400"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.211+104_211+106dupAGA"	""	""	"ENST00000217964"	""	73	"."	17	25	"."	0	"TBL1X,intron_variant,,ENST00000217964,NM_005647.3;TBL1X,intron_variant,,ENST00000407597,NM_001139466.1;TBL1X,intron_variant,,ENST00000424279,NM_001139467.1;TBL1X,intron_variant,,ENST00000380961,NM_001139468.1;TBL1X,intron_variant,,ENST00000536365,;TBL1X,intron_variant,,ENST00000415293,;TBL1X,intron_variant,,ENST00000422314,;TBL1X,intron_variant,,ENST00000452824,;TBL1X,downstream_gene_variant,,ENST00000441088,;"	"AGA"	"ENSG00000101849"	"ENST00000217964"	"Transcript"	"intron_variant"	"-/5866"	"-/1734"	"-/577"	""	""	"rs34335400"	"1"	NA	1	"TBL1X"	"HGNC"	11585	"protein_coding"	"YES"	"CCDS14133.1"	"ENSP00000217964"	"O60907"	"C9JYQ8,C9JP56,C9JCW3,C9J5F9"	"UPI0000161FAF"	"NM_005647.3"	NA	NA	""	"5/17"	""	"-:0.3219"	"AGA:0.3336"	"AGA:0.5072"	NA	"AGA:0.7351"	"AGA:0.4523"	"AGA:0.5838"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"18"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"3d7ff12e-2764-11e6-b4d5-bdf0414a729f"	"1020"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232876712328767	"WXS"	FALSE
"2682"	"TBL1X"	6907	"mskcc.org"	"GRCh37"	"X"	9627108	9627109	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs5901409"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.211+4753dupC"	""	""	"ENST00000217964"	""	7	"."	4	1	"."	0	"TBL1X,intron_variant,,ENST00000217964,NM_005647.3;TBL1X,intron_variant,,ENST00000407597,NM_001139466.1;TBL1X,intron_variant,,ENST00000424279,NM_001139467.1;TBL1X,intron_variant,,ENST00000380961,NM_001139468.1;TBL1X,intron_variant,,ENST00000536365,;TBL1X,intron_variant,,ENST00000415293,;TBL1X,intron_variant,,ENST00000422314,;TBL1X,intron_variant,,ENST00000452824,;TBL1X,downstream_gene_variant,,ENST00000441088,;"	"C"	"ENSG00000101849"	"ENST00000217964"	"Transcript"	"intron_variant"	"-/5866"	"-/1734"	"-/577"	""	""	"rs5901409"	"1"	NA	1	"TBL1X"	"HGNC"	11585	"protein_coding"	"YES"	"CCDS14133.1"	"ENSP00000217964"	"O60907"	"C9JYQ8,C9JP56,C9JCW3,C9J5F9"	"UPI0000161FAF"	"NM_005647.3"	NA	NA	""	"5/17"	""	"-:0.1089"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"3d80b9e2-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2683"	"SHROOM2"	357	"mskcc.org"	"GRCh37"	"X"	9791146	9791147	"+"	"Intron"	"INS"	"-"	"-"	"CCTTCTCCTTCTCCCTTCTCCTTCTCCCTTCTCCTTCTCCTTCTCCCTTCTCCTTCTC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.165+36440_165+36441insCCCTTCTCCTTCTCCCTTCTCCTTCTCCCTTCTCCTTCTCCCTTCTCCTTCTCCTTCT"	""	""	"ENST00000380913"	""	36	"."	5	10	"."	0	"SHROOM2,intron_variant,,ENST00000380913,NM_001649.2;RP11-98L4.1,upstream_gene_variant,,ENST00000400019,;"	"CCTTCTCCTTCTCCCTTCTCCTTCTCCCTTCTCCTTCTCCTTCTCCCTTCTCCTTCTC"	"ENSG00000146950"	"ENST00000380913"	"Transcript"	"intron_variant"	"-/7447"	"-/4851"	"-/1616"	""	""	""	"1"	NA	1	"SHROOM2"	"HGNC"	630	"protein_coding"	"YES"	"CCDS14135.1"	"ENSP00000370299"	"Q13796"	"F5H3B6,C9IZC6"	"UPI0000125D05"	"NM_001649.2"	NA	NA	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"44"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"3d87046e-2764-11e6-b4d5-bdf0414a729f"	"250"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138888888888889	"WXS"	FALSE
"2684"	"AC002365.1"	100288814	"mskcc.org"	"GRCh37"	"X"	9938360	9938393	"+"	"3'Flank"	"DEL"	"TCCTCCTTCTCTTTCTCCCTTCTTCCCTCTTTCT"	"TCCTCCTTCTCTTTCTCCCTTCTTCCCTCTTTCT"	"CCTCCTTCTCTTTCTCC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"TCCTCCTTCTCTTTCTCCCTTCTTCCCTCTTTCT"	"TCCTCCTTCTCTTTCTCCCTTCTTCCCTCTTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000445307"	""	12	"."	4	5	"."	0	"AC002365.1,downstream_gene_variant,,ENST00000445307,NM_001195081.1;"	"CCTCCTTCTCTTTCTCC"	"ENSG00000234469"	"ENST00000445307"	"Transcript"	"downstream_gene_variant"	"-/642"	"-/642"	"-/214"	""	""	""	"1"	"2226"	1	"AC002365.1"	"Clone_based_ensembl_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000403980"	""	"H7C241"	"UPI0000D61D26"	"NM_001195081.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCCTCCTTCTCTTTCTCCCTTCTTCCCTCTTTCTC"	"3cb2ba2e-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2685"	"GEMIN8"	54960	"mskcc.org"	"GRCh37"	"X"	14039934	14039949	"+"	"Intron"	"DEL"	"TATATATATATATATA"	"TATATATATATATATA"	"-"	"rs147147045"	NA	"JHCCPT1"	"JHCCPN1"	"TATATATATATATATA"	"TATATATATATATATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-33-319_-33-304delTATATATATATATATA"	""	""	"ENST00000380523"	""	14	"."	6	2	"."	0	"GEMIN8,intron_variant,,ENST00000380523,NM_017856.2;GEMIN8,intron_variant,,ENST00000398355,;GEMIN8,intron_variant,,ENST00000332885,;GEMIN8,intron_variant,,ENST00000477386,;GEMIN8,upstream_gene_variant,,ENST00000460203,;"	"-"	"ENSG00000046647"	"ENST00000380523"	"Transcript"	"intron_variant"	"-/1682"	"-/729"	"-/242"	""	""	"rs147147045"	"1"	NA	-1	"GEMIN8"	"HGNC"	26044	"protein_coding"	"YES"	"CCDS14159.1"	"ENSP00000369895"	"Q9NWZ8"	"H7BYE2"	"UPI0000070657"	"NM_017856.2"	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTATATATATATATATAT"	"2f821f84-2764-11e6-b4d5-bdf0414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2686"	"RBBP7"	5931	"mskcc.org"	"GRCh37"	"X"	16862740	16862740	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"rs3214937"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000380084"	""	22	"."	8	6	"."	0	"RBBP7,3_prime_UTR_variant,,ENST00000380087,;RBBP7,intron_variant,,ENST00000425696,;TXLNG,downstream_gene_variant,,ENST00000380122,NM_018360.2;TXLNG,downstream_gene_variant,,ENST00000398155,NM_001168683.1;RBBP7,downstream_gene_variant,,ENST00000380084,NM_001198719.1;RBBP7,downstream_gene_variant,,ENST00000404022,NM_002893.3;RBBP7,downstream_gene_variant,,ENST00000444437,;TXLNG,downstream_gene_variant,,ENST00000485153,;RBBP7,downstream_gene_variant,,ENST00000465244,;RBBP7,downstream_gene_variant,,ENST00000330735,;RBBP7,downstream_gene_variant,,ENST00000481586,;"	"-"	"ENSG00000102054"	"ENST00000380084"	"Transcript"	"downstream_gene_variant"	"-/2036"	"-/1410"	"-/469"	""	""	"rs3214937"	"1"	"37"	-1	"RBBP7"	"HGNC"	9890	"protein_coding"	"YES"	"CCDS56598.1"	"ENSP00000369424"	"Q16576"	"Q5JNZ6,C9J7L0"	"UPI00001AE848"	"NM_001198719.1"	NA	NA	""	""	""	"C:0.3873"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCC"	"2fd6474e-2764-11e6-b4d5-bdf0414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2687"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	21941320	21941321	"+"	"IGR"	"INS"	"-"	"-"	"GAAAGAAA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	3	"."	0	""	"GAAAGAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"3dfceb5c-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"2688"	"PTCHD1"	139411	"mskcc.org"	"GRCh37"	"X"	23393687	23393689	"+"	"Intron"	"DEL"	"CGC"	"CGC"	"-"	"rs10597458"	NA	"JHCCPT1"	"JHCCPN1"	"CGC"	"CGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.352-4017_352-4015delGCC"	""	""	"ENST00000379361"	""	6	"."	4	1	"."	0	"PTCHD1,intron_variant,,ENST00000379361,NM_173495.2;PTCHD1,intron_variant,,ENST00000456522,;"	"-"	"ENSG00000165186"	"ENST00000379361"	"Transcript"	"intron_variant"	"-/13714"	"-/2667"	"-/888"	""	""	"rs10597458"	"1"	NA	1	"PTCHD1"	"HGNC"	26392	"protein_coding"	"YES"	"CCDS35215.2"	"ENSP00000368666"	"Q96NR3"	""	"UPI000059DAD8"	"NM_173495.2"	NA	NA	""	"1/2"	""	"CGC:0.1025"	"-:0.7458"	"-:0.7003"	NA	"-:0.6409"	"-:0.6531"	"-:0.6268"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGCGCC"	"307844cc-2764-11e6-b4d5-bdf0414a729f"	"220"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2689"	"ACOT9"	23597	"mskcc.org"	"GRCh37"	"X"	23739577	23739578	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11454533"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.588+420dupA"	""	""	"ENST00000379303"	""	10	"."	3	6	"."	0	"ACOT9,intron_variant,,ENST00000379303,NM_001037171.1;ACOT9,intron_variant,,ENST00000379295,;ACOT9,intron_variant,,ENST00000336430,NM_001033583.2;ACOT9,intron_variant,,ENST00000473710,;ACOT9,intron_variant,,ENST00000492081,;ACOT9,intron_variant,,ENST00000494361,;ACOT9,intron_variant,,ENST00000449612,;"	"T"	"ENSG00000123130"	"ENST00000379303"	"Transcript"	"intron_variant"	"-/3117"	"-/1347"	"-/448"	""	""	"rs11454533"	"1"	NA	-1	"ACOT9"	"HGNC"	17152	"protein_coding"	"YES"	"CCDS43924.1"	"ENSP00000368605"	"Q9Y305"	"Q9H2R8"	"UPI00003D7D31"	"NM_001037171.1"	NA	NA	""	"8/15"	""	"T:0.3976"	"T:0.3517"	"T:0.3026"	NA	"T:0.3204"	"T:0.174"	"T:0.3354"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"3e17ccd8-2764-11e6-b4d5-bdf0414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"2690"	"SUPT20HL1"	0	"mskcc.org"	"GRCh37"	"X"	24382419	24382420	"+"	"RNA"	"INS"	"-"	"-"	"GCTGCTGCTGCTCCTGCTCCTGCTCTA"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1551_1552insGCTCCTGCTCCTGCTCTAGCTGCTGCT"	""	""	"ENST00000436466"	"1/1"	85	"."	4	42	"."	0	"SUPT20HL1,non_coding_transcript_exon_variant,,ENST00000436466,;SUPT20HL1,intron_variant,,ENST00000413856,;"	"GCTGCTGCTGCTCCTGCTCCTGCTCTA"	"ENSG00000223731"	"ENST00000436466"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1542-1543/2618"	""	""	""	""	""	"1"	NA	1	"SUPT20HL1"	"HGNC"	30773	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"3e2f015a-2764-11e6-b4d5-bdf0414a729f"	"229"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.0470588235294118	"WXS"	FALSE
"2691"	"IL1RAPL1"	11141	"mskcc.org"	"GRCh37"	"X"	29610896	29610896	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs10714091"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.704-75646delC"	""	""	"ENST00000378993"	""	8	"."	4	1	"."	0	"IL1RAPL1,intron_variant,,ENST00000378993,NM_014271.3;IL1RAPL1,intron_variant,,ENST00000302196,;"	"-"	"ENSG00000169306"	"ENST00000378993"	"Transcript"	"intron_variant"	"-/3667"	"-/2091"	"-/696"	""	""	"rs10714091"	"1"	NA	1	"IL1RAPL1"	"HGNC"	5996	"protein_coding"	"YES"	"CCDS14218.1"	"ENSP00000368278"	"Q9NZN1"	"Q7Z2H0"	"UPI000006D1BF"	"NM_014271.3"	NA	NA	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGCC"	"31017620-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2692"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	30814999	30815003	"+"	"IGR"	"DEL"	"TGCCT"	"TGCCT"	"-"	"rs145709365"	NA	"JHCCPT1"	"JHCCPN1"	"TGCCT"	"TGCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145709365"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TGCCT:0.4389"	"-:0.4531"	"-:0.3631"	NA	"-:0.3681"	"-:0.492"	"-:0.41"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTGCCTT"	"311a0f5a-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2693"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	35480890	35480890	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs34199477"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34199477"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.1131"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"3163e9e0-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2694"	"USP9X"	8239	"mskcc.org"	"GRCh37"	"X"	41089604	41089604	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs373140087"	NA	"JHCCPT1"	"JHCCPN1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7480-150delG"	""	""	"ENST00000324545"	""	38	"."	4	19	"."	0	"USP9X,intron_variant,,ENST00000324545,NM_001039590.2,NM_001039591.2;USP9X,intron_variant,,ENST00000378308,;RP5-1172N10.4,upstream_gene_variant,,ENST00000602481,;USP9X,downstream_gene_variant,,ENST00000485180,;"	"-"	"ENSG00000124486"	"ENST00000324545"	"Transcript"	"intron_variant"	"-/12401"	"-/7713"	"-/2570"	""	""	"rs373140087"	"1"	NA	1	"USP9X"	"HGNC"	12632	"protein_coding"	"YES"	"CCDS43930.1"	"ENSP00000316357"	"Q93008"	""	"UPI00001AF419"	"NM_001039590.2,NM_001039591.2"	NA	NA	""	"43/44"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTGT"	"322dea06-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WXS"	FALSE
"2695"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	46968230	46968231	"+"	"IGR"	"INS"	"-"	"A"	"A"	"rs141669270"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	6	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141669270"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3870"	"A:0.0431"	"A:0.304"	NA	"A:0.503"	"A:0.4871"	"A:0.2004"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"3eef208e-2764-11e6-b4d5-bdf0414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"2696"	"CCDC22"	28952	"mskcc.org"	"GRCh37"	"X"	49101472	49101473	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs79168110"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.714+1547dupC"	""	""	"ENST00000376227"	""	6	"."	4	1	"."	0	"CCDC22,intron_variant,,ENST00000376227,NM_014008.3;CCDC22,downstream_gene_variant,,ENST00000496651,;CCDC22,downstream_gene_variant,,ENST00000490300,;"	"C"	"ENSG00000101997"	"ENST00000376227"	"Transcript"	"intron_variant"	"-/2319"	"-/1884"	"-/627"	""	""	"rs79168110"	"1"	NA	1	"CCDC22"	"HGNC"	28909	"protein_coding"	"YES"	"CCDS14322.1"	"ENSP00000365401"	"O60826"	""	"UPI000006FFC7"	"NM_014008.3"	NA	NA	""	"6/16"	""	"-:0.0005"	"C:0.7587"	"C:0.755"	NA	"C:0.7569"	"C:0.7614"	"C:0.7331"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"3f272970-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2697"	"RP11-622K12.1"	550643	"mskcc.org"	"GRCh37"	"X"	56780230	56780230	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs780800716"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.468+21606delA"	""	""	"ENST00000374922"	""	9	"."	4	1	"."	0	"RP11-622K12.1,intron_variant,,ENST00000423617,;RP11-622K12.1,intron_variant,,ENST00000451583,;RP11-622K12.1,intron_variant,,ENST00000374922,;"	"-"	"ENSG00000204272"	"ENST00000374922"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1529"	""	""	""	""	"rs780800716"	"1"	NA	1	"RP11-622K12.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	"-:0.1111"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"345e7ab6-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2698"	"RP11-747I9.1"	0	"mskcc.org"	"GRCh37"	"X"	65658624	65658625	"+"	"Intron"	"INS"	"-"	"TTTG"	"TTTG"	"rs57032928"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.923-136_923-133dupTTTG"	""	""	"ENST00000422490"	""	7	"."	5	3	"."	0	"RP11-747I9.1,intron_variant,,ENST00000422490,;"	"TTTG"	"ENSG00000226820"	"ENST00000422490"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1188"	""	""	""	""	"rs57032928"	"1"	NA	1	"RP11-747I9.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"-:0.0310"	"TTTG:0.7262"	"TTTG:0.7378"	NA	"TTTG:0.752"	"TTTG:0.7485"	"TTTG:0.6902"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"28"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"3f8ae438-2764-11e6-b4d5-bdf0414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2699"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	68499922	68499924	"+"	"IGR"	"DEL"	"CTT"	"-"	"-"	"rs67580776"	NA	"JHCCPT1"	"JHCCPN1"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs67580776"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3987"	"-:0.5265"	"-:0.3703"	NA	"-:0.0694"	"-:0.3638"	"-:0.1186"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTC"	"34ccdc90-2764-11e6-b4d5-bdf0414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2700"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	78323863	78323864	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs201130955"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	3	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201130955"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.0683"	"T:0.0287"	"T:0.0504"	NA	"T:0.0188"	"T:0.1133"	"T:0.0532"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"4020f888-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2701"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	82183386	82183386	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs111704754"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs111704754"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACC"	"3659fe26-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2702"	"CYLC1"	1538	"mskcc.org"	"GRCh37"	"X"	83127727	83127732	"+"	"Intron"	"DEL"	"ACACAC"	"ACACAC"	"-"	"rs759700592"	NA	"JHCCPT1"	"JHCCPN1"	"ACACAC"	"ACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.178-136_178-131delCACACA"	""	""	"ENST00000329312"	""	18	"."	3	2	"."	0	"CYLC1,intron_variant,,ENST00000329312,NM_021118.2;"	"-"	"ENSG00000183035"	"ENST00000329312"	"Transcript"	"intron_variant"	"-/2106"	"-/1956"	"-/651"	""	""	"rs759700592"	"1"	NA	1	"CYLC1"	"HGNC"	2582	"protein_coding"	"YES"	"CCDS35341.1"	"ENSP00000331556"	"P35663"	""	"UPI0000251E1D"	"NM_021118.2"	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"31"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTACACACA"	"365f5d80-2764-11e6-b4d5-bdf0414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"2703"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	97070558	97070559	"+"	"IGR"	"DEL"	"TT"	"TT"	"-"	"rs143271661"	NA	"JHCCPT1"	"JHCCPN1"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143271661"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1494"	"-:0.0121"	"-:0.1326"	NA	"-:0.0833"	"-:0.2396"	"-:0.1339"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTT"	"36ddf514-2764-11e6-b4d5-bdf0414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2704"	"TNMD"	64102	"mskcc.org"	"GRCh37"	"X"	99850446	99850447	"+"	"Intron"	"INS"	"-"	"-"	"TCTT"	"rs3086928"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.423+1108_423+1111dupTCTT"	""	""	"ENST00000373031"	""	21	"."	6	12	"."	0	"TNMD,intron_variant,,ENST00000373031,NM_022144.2;TNMD,intron_variant,,ENST00000485971,;"	"TCTT"	"ENSG00000000005"	"ENST00000373031"	"Transcript"	"intron_variant"	"-/1339"	"-/954"	"-/317"	""	""	"rs3086928"	"1"	NA	1	"TNMD"	"HGNC"	17757	"protein_coding"	"YES"	"CCDS14469.1"	"ENSP00000362122"	"Q9H2S6"	""	"UPI0000001042"	"NM_022144.2"	NA	NA	""	"4/6"	""	"-:0.4808"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"24"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"4079d49e-2764-11e6-b4d5-bdf0414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"2705"	"TCEAL5"	340543	"mskcc.org"	"GRCh37"	"X"	102533617	102533618	"+"	"5'Flank"	"INS"	"-"	"-"	"AAG"	"rs57575937"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000372680"	""	8	"."	5	1	"."	0	"TCEAL5,upstream_gene_variant,,ENST00000372680,NM_001012979.2;"	"AAG"	"ENSG00000204065"	"ENST00000372680"	"Transcript"	"upstream_gene_variant"	"-/1168"	"-/621"	"-/206"	""	""	"rs57575937"	"1"	"1817"	-1	"TCEAL5"	"HGNC"	22282	"protein_coding"	"YES"	"CCDS35356.1"	"ENSP00000361765"	"Q5H9L2"	""	"UPI00001998F8"	"NM_001012979.2"	NA	NA	""	""	""	"-:0.2167"	"AAG:0.7413"	"AAG:0.513"	NA	"AAG:0.5605"	"AAG:0.4404"	"AAG:0.6268"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"40be5326-2764-11e6-b4d5-bdf0414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"2706"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	103592209	103592210	"+"	"IGR"	"INS"	"-"	"-"	"AGGAGGGAGGAAAGTAGGG"	"rs545404798"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	3	"."	0	""	"AGGAGGGAGGAAAGTAGGG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs545404798"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"40cd90a2-2764-11e6-b4d5-bdf0414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2707"	"MORC4"	79710	"mskcc.org"	"GRCh37"	"X"	106199946	106199947	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs368706300"	NA	"JHCCPT1"	"JHCCPN1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1455-183_1455-182delCT"	""	""	"ENST00000355610"	""	63	"."	4	38	"."	0	"MORC4,intron_variant,,ENST00000355610,NM_001085354.2,NM_024657.4;MORC4,intron_variant,,ENST00000535534,;MORC4,intron_variant,,ENST00000255495,;MORC4,intron_variant,,ENST00000604604,;"	"-"	"ENSG00000133131"	"ENST00000355610"	"Transcript"	"intron_variant"	"-/3834"	"-/2814"	"-/937"	""	""	"rs368706300"	"1"	NA	-1	"MORC4"	"HGNC"	23485	"protein_coding"	"YES"	"CCDS14525.2"	"ENSP00000347821"	"Q8TE76"	""	"UPI00003E75D3"	"NM_001085354.2,NM_024657.4"	NA	NA	""	"12/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAGA"	"37e9ddec-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0634920634920635	"WXS"	FALSE
"2708"	"PSMD10"	5716	"mskcc.org"	"GRCh37"	"X"	107332134	107332134	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs201894843"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.115-54delT"	""	""	"ENST00000217958"	""	17	"."	4	8	"."	0	"PSMD10,intron_variant,,ENST00000217958,NM_170750.2,NM_002814.3;PSMD10,intron_variant,,ENST00000372296,;PSMD10,intron_variant,,ENST00000372295,;PSMD10,intron_variant,,ENST00000361815,;PSMD10,intron_variant,,ENST00000340200,;ATG4A,upstream_gene_variant,,ENST00000372232,NM_052936.3;ATG4A,upstream_gene_variant,,ENST00000372254,;ATG4A,upstream_gene_variant,,ENST00000345734,NM_178270.2;ATG4A,upstream_gene_variant,,ENST00000545696,;ATG4A,upstream_gene_variant,,ENST00000457035,;PSMD10,intron_variant,,ENST00000553388,;PSMD10,intron_variant,,ENST00000338548,;ATG4A,upstream_gene_variant,,ENST00000372246,;ATG4A,upstream_gene_variant,,ENST00000343524,;"	"-"	"ENSG00000101843"	"ENST00000217958"	"Transcript"	"intron_variant"	"-/1546"	"-/681"	"-/226"	""	""	"rs201894843"	"1"	NA	-1	"PSMD10"	"HGNC"	9555	"protein_coding"	"YES"	"CCDS14536.1"	"ENSP00000217958"	"O75832"	""	"UPI000013278F"	"NM_170750.2,NM_002814.3"	NA	NA	""	"1/4"	""	"-:0.2967"	"-:0.2821"	"-:0.134"	NA	"-:0.119"	"-:0.329"	"-:0.2076"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"380a3e5c-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"2709"	"RN7SL661P"	0	"mskcc.org"	"GRCh37"	"X"	110859173	110859174	"+"	"RNA"	"INS"	"-"	"-"	"G"	"rs200978057"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.50dupG"	""	""	"ENST00000581107"	"1/1"	7	"."	4	2	"."	0	"RN7SL661P,non_coding_transcript_exon_variant,,ENST00000581107,;EIF4BP7,downstream_gene_variant,,ENST00000432307,;RP11-111F16.2,upstream_gene_variant,,ENST00000448271,;"	"G"	"ENSG00000266829"	"ENST00000581107"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"49-50/277"	""	""	""	""	"rs200978057"	"1"	NA	1	"RN7SL661P"	"HGNC"	46677	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"-:0.0000"	"G:0.7587"	"G:0.755"	NA	"G:0.7579"	"G:0.7614"	"G:0.7342"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"40fede50-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2710"	"WDR44"	54521	"mskcc.org"	"GRCh37"	"X"	117512672	117512673	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGTGTGTGTGTGT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.111+268_111+283dupGTGTGTGTGTGTGTGT"	""	""	"ENST00000254029"	""	23	"."	3	9	"."	0	"WDR44,intron_variant,,ENST00000254029,NM_019045.4;WDR44,intron_variant,,ENST00000371825,NM_001184965.1;WDR44,intron_variant,,ENST00000371822,NM_001184966.1;AL391803.1,upstream_gene_variant,,ENST00000582573,;WDR44,intron_variant,,ENST00000493448,;"	"GTGTGTGTGTGTGTGT"	"ENSG00000131725"	"ENST00000254029"	"Transcript"	"intron_variant"	"-/4111"	"-/2742"	"-/913"	""	""	""	"1"	NA	1	"WDR44"	"HGNC"	30512	"protein_coding"	"YES"	"CCDS14572.1"	"ENSP00000254029"	"Q5JSH3"	"B7Z947"	"UPI000013CE0C"	"NM_019045.4"	NA	NA	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"26"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"41317e6e-2764-11e6-b4d5-bdf0414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"2711"	"GRIA3"	2892	"mskcc.org"	"GRCh37"	"X"	122318654	122318655	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs764744533"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.109+164dupG"	""	""	"ENST00000264357"	""	34	"."	4	21	"."	0	"GRIA3,intron_variant,,ENST00000264357,NM_000828.4;GRIA3,intron_variant,,ENST00000371256,NM_007325.4;GRIA3,intron_variant,,ENST00000542149,;GRIA3,intron_variant,,ENST00000371251,;GRIA3,intron_variant,,ENST00000371264,NM_001256743.1;GRIA3,intron_variant,,ENST00000371266,;GRIA3,upstream_gene_variant,,ENST00000541091,;GRIA3,intron_variant,,ENST00000479118,;"	"G"	"ENSG00000125675"	"ENST00000264357"	"Transcript"	"intron_variant"	"-/5172"	"-/2685"	"-/894"	""	""	"rs764744533"	"1"	NA	1	"GRIA3"	"HGNC"	4573	"protein_coding"	"YES"	"CCDS14604.1"	"ENSP00000264357"	"P42263"	"Q9UHA9"	"UPI000013D503"	"NM_000828.4"	NA	NA	""	"1/15"	""	"G:0.0283"	"G:0.0008"	"G:0.0058"	NA	"G:0.0099"	"G:0.0129"	"G:0.0808"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"4168b262-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WXS"	FALSE
"2712"	"TENM1"	10178	"mskcc.org"	"GRCh37"	"X"	123686338	123686339	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11374450"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2435-5399dupA"	""	""	"ENST00000422452"	""	11	"."	3	1	"."	0	"TENM1,intron_variant,,ENST00000422452,NM_001163279.1,NM_001163278.1;TENM1,intron_variant,,ENST00000371130,NM_014253.3;"	"T"	"ENSG00000009694"	"ENST00000422452"	"Transcript"	"intron_variant"	"-/12891"	"-/8199"	"-/2732"	""	""	"rs11374450"	"1"	NA	-1	"TENM1"	"HGNC"	8117	"protein_coding"	"YES"	"CCDS55488.1"	"ENSP00000403954"	"Q9UKZ4"	"G3CAS6,B7ZMH4"	"UPI0000211B6A"	"NM_001163279.1,NM_001163278.1"	NA	NA	""	"14/31"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"418c4b00-2764-11e6-b4d5-bdf0414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2713"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	129665702	129665702	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs34689127"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34689127"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.3346"	"-:0.4788"	"-:0.5533"	NA	"-:0.4782"	"-:0.5964"	"-:0.4223"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTCC"	"39da8f98-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2714"	"HPRT1"	3251	"mskcc.org"	"GRCh37"	"X"	133624532	133624533	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs67231548"	NA	"JHCCPT1"	"JHCCPN1"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.402+310_402+311delAT"	""	""	"ENST00000298556"	""	14	"."	5	3	"."	0	"HPRT1,intron_variant,,ENST00000298556,NM_000194.2;HPRT1,intron_variant,,ENST00000462974,;HPRT1,intron_variant,,ENST00000475720,;"	"-"	"ENSG00000165704"	"ENST00000298556"	"Transcript"	"intron_variant"	"-/1407"	"-/657"	"-/218"	""	""	"rs67231548"	"1"	NA	1	"HPRT1"	"HGNC"	5157	"protein_coding"	"YES"	"CCDS14641.1"	"ENSP00000298556"	"P00492"	""	"UPI00000004D7"	"NM_000194.2"	NA	NA	""	"5/8"	""	"TA:0.3072"	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"13"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTAT"	"3a144c10-2764-11e6-b4d5-bdf0414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"2715"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	143477754	143477755	"+"	"IGR"	"INS"	"-"	"-"	"CTCCTCCTC"	"rs781961853"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	6	5	"."	0	""	"CTCCTCCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs781961853"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CTCCTCCTC:0.4503"	"CTCCTCCTC:0.5719"	"CTCCTCCTC:0.2896"	NA	"CTCCTCCTC:0.1687"	"CTCCTCCTC:0.2873"	"CTCCTCCTC:0.2904"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"42281eb8-2764-11e6-b4d5-bdf0414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WXS"	FALSE
"2716"	"MIR514A1"	574516	"mskcc.org"	"GRCh37"	"X"	146358116	146358116	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"rs34620490"	NA	"JHCCPT1"	"JHCCPN1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000385133"	""	6	"."	3	1	"."	0	"MIR514A1,downstream_gene_variant,,ENST00000385133,;MIR510,upstream_gene_variant,,ENST00000384909,;"	"-"	"ENSG00000207868"	"ENST00000385133"	"Transcript"	"downstream_gene_variant"	"-/98"	""	""	""	""	"rs34620490"	"1"	"2649"	-1	"MIR514A1"	"HGNC"	32148	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.0546"	"-:0.6331"	"-:0.7421"	NA	"-:0.7381"	"-:0.7535"	"-:0.7311"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"3b14b0d2-2764-11e6-b4d5-bdf0414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2717"	"TMEM185A"	84548	"mskcc.org"	"GRCh37"	"X"	148713418	148713419	"+"	"5'UTR"	"INS"	"-"	"-"	"CGCCGCCGCCGCCGCCGCCGCCGCCGCCGC"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-156_-155insGCGGCGGCGGCGGCGGCGGCGGCGGCGGCG"	""	""	"ENST00000316916"	"1/7"	104	"."	10	31	"."	0	"TMEM185A,5_prime_UTR_variant,,ENST00000316916,NM_032508.2;TMEM185A,5_prime_UTR_variant,,ENST00000536359,NM_001174092.1;TMEM185A,upstream_gene_variant,,ENST00000507237,NM_001282302.1;TMEM185A,upstream_gene_variant,,ENST00000511776,;TMEM185A,upstream_gene_variant,,ENST00000513505,;TMEM185A,upstream_gene_variant,,ENST00000502900,;"	"CGCCGCCGCCGCCGCCGCCGCCGCCGCCGC"	"ENSG00000155984"	"ENST00000316916"	"Transcript"	"5_prime_UTR_variant"	"150-151/2813"	"-/1053"	"-/350"	""	""	""	"1"	NA	-1	"TMEM185A"	"HGNC"	17125	"protein_coding"	"YES"	"CCDS14689.1"	"ENSP00000359449"	"Q8NFB2"	""	"UPI0001AE6FF9"	"NM_032508.2"	NA	NA	"1/7"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"4247d3fc-2764-11e6-b4d5-bdf0414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0961538461538462	"WXS"	FALSE
"2718"	"ZNF185"	7739	"mskcc.org"	"GRCh37"	"X"	152110645	152110646	"+"	"Intron"	"INS"	"-"	"-"	"CT"	"rs200064518"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1305-3165_1305-3164insTC"	""	""	"ENST00000535861"	""	6	"."	3	4	"."	0	"ZNF185,intron_variant,,ENST00000535861,NM_001178106.1;ZNF185,intron_variant,,ENST00000539731,NM_001178109.1,NM_001178107.1;ZNF185,intron_variant,,ENST00000449285,NM_007150.3,NM_001178108.1;ZNF185,intron_variant,,ENST00000370268,;ZNF185,intron_variant,,ENST00000318504,NM_001178110.1;ZNF185,intron_variant,,ENST00000324823,;ZNF185,intron_variant,,ENST00000318529,NM_001178113.1;ZNF185,intron_variant,,ENST00000426821,;ZNF185,intron_variant,,ENST00000454925,NM_001178115.1;ZNF185,intron_variant,,ENST00000370270,;ZNF185,intron_variant,,ENST00000447792,;ZNF185,intron_variant,,ENST00000436731,;"	"CT"	"ENSG00000147394"	"ENST00000535861"	"Transcript"	"intron_variant"	"-/4421"	"-/2166"	"-/721"	""	""	"rs200064518"	"1"	NA	1	"ZNF185"	"HGNC"	12976	"protein_coding"	"YES"	"CCDS55529.1"	"ENSP00000440847"	"O15231"	"H7BZT5,B3KPM4"	"UPI0001D27F7E"	"NM_001178106.1"	NA	NA	""	"16/23"	""	"CT:0.3483"	"CT:0.3563"	"CT:0.2651"	NA	"CT:0.2063"	"CT:0.1819"	"CT:0.2751"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"4267db3e-2764-11e6-b4d5-bdf0414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2719"	"ZNF275"	10838	"mskcc.org"	"GRCh37"	"X"	152611191	152611229	"+"	"Intron"	"DEL"	"GGGGTCCCAGCTGAGCTCTTGGAGTTGAGGTTAGGGTTT"	"GGGGTCCCAGCTGAGCTCTTGGAGTTGAGGTTAGGGTTT"	"-"	"rs781868216"	NA	"JHCCPT1"	"JHCCPN1"	"GGGGTCCCAGCTGAGCTCTTGGAGTTGAGGTTAGGGTTT"	"GGGGTCCCAGCTGAGCTCTTGGAGTTGAGGTTAGGGTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.133+116_133+154delTCCCAGCTGAGCTCTTGGAGTTGAGGTTAGGGTTTGGGG"	""	""	"ENST00000370251"	""	88	"."	4	68	"."	0	"ZNF275,intron_variant,,ENST00000421401,;ZNF275,intron_variant,,ENST00000440091,;ZNF275,intron_variant,,ENST00000370251,NM_001080485.3;ZNF275,intron_variant,,ENST00000370249,;"	"-"	"ENSG00000063587"	"ENST00000370251"	"Transcript"	"intron_variant"	"-/6320"	"-/990"	"-/329"	""	""	"rs781868216"	"1"	NA	1	"ZNF275"	"HGNC"	13069	"protein_coding"	"YES"	""	"ENSP00000359271"	""	"A6NFS0"	"UPI000059DBB5"	"NM_001080485.3"	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGGGGTCCCAGCTGAGCTCTTGGAGTTGAGGTTAGGGTTTG"	"3badddac-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0454545454545455	"WXS"	FALSE
"2720"	"ATP2B3"	492	"mskcc.org"	"GRCh37"	"X"	152813740	152813740	"+"	"Intron"	"DEL"	"T"	"-"	"-"	"rs35878964"	NA	"JHCCPT1"	"JHCCPN1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1123+283delT"	""	""	"ENST00000263519"	""	18	"."	13	2	"."	0	"ATP2B3,intron_variant,,ENST00000370186,;ATP2B3,intron_variant,,ENST00000370181,;ATP2B3,intron_variant,,ENST00000263519,NM_001001344.2;ATP2B3,intron_variant,,ENST00000349466,;ATP2B3,intron_variant,,ENST00000359149,NM_021949.3;ATP2B3,intron_variant,,ENST00000393842,;"	"-"	"ENSG00000067842"	"ENST00000263519"	"Transcript"	"intron_variant"	"-/6420"	"-/3663"	"-/1220"	""	""	"rs35878964"	"1"	NA	1	"ATP2B3"	"HGNC"	816	"protein_coding"	"YES"	"CCDS35440.1"	"ENSP00000263519"	"Q16720"	"A1L3B5"	"UPI00001AE881"	"NM_001001344.2"	NA	NA	""	"7/19"	""	"-:0.2559"	"-:0.0499"	"-:0.2522"	NA	"-:0.2847"	"-:0.3121"	"-:0.1268"	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCTG"	"3bc7dbbc-2764-11e6-b4d5-bdf0414a729f"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.722222222222222	"WXS"	TRUE
"2721"	"LCA10"	100996465	"mskcc.org"	"GRCh37"	"X"	153151423	153151424	"+"	"Frame_Shift_Ins"	"INS"	"-"	"-"	"CGGC"	"rs58566947"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.794_795insCGGC"	"p.Thr266ArgfsTer21"	"p.T266Rfs*21"	"ENST00000452593"	"5/7"	15	"."	4	11	"."	0	"LCA10,frameshift_variant,p.Thr266ArgfsTer21,ENST00000452593,;LCA10,frameshift_variant,p.Thr97ArgfsTer21,ENST00000357566,;L1CAM,intron_variant,,ENST00000370060,NM_001278116.1;L1CAM,intron_variant,,ENST00000370055,;L1CAM,intron_variant,,ENST00000420165,;L1CAM,intron_variant,,ENST00000484587,;L1CAM,intron_variant,,ENST00000464967,;L1CAM,intron_variant,,ENST00000460553,;"	"CGGC"	"ENSG00000196987"	"ENST00000452593"	"Transcript"	"frameshift_variant"	"794-795/1391"	"795-796/999"	"265-266/332"	"-/RX"	"-/CGGC"	"rs58566947"	"1"	NA	1	"LCA10"	"Uniprot_gn"	NA	"protein_coding"	"YES"	""	"ENSP00000389835"	""	"I3L0A3"	"UPI000059DBE3"	""	NA	NA	"5/7"	""	""	""	""	""	NA	""	""	""	"CGGC:0.9813"	"CGGC:0.987"	NA	NA	""	""	NA	""	NA	"HIGH"	"1"	"insertion"	NA	NA	NA	"1"	"0.9962"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	NA	"PASS"	"GGA"	"428ff9b6-2764-11e6-b4d5-bdf0414a729f"	"240"	0	"0/0"	"530/532"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"AC_Adj0_Filter"	"FALSE"	0.266666666666667	"WXS"	FALSE
"2722"	"L1CAM"	3897	"mskcc.org"	"GRCh37"	"X"	153151469	153151489	"+"	"Intron"	"DEL"	"GGGGATCGCGGCCGCGGCCCG"	"GGGGATCGCGGCCGCGGCCCG"	"ATCGCGGCCGCGGCCCGGG"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"GGGGATCGCGGCCGCGGCCCG"	"GGGGATCGCGGCCGCGGCCCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-109+31_-109+50delGGGCCGCGGCCGCGATCCCCinsCCGGGCCGCGGCCGCGAT"	""	""	"ENST00000370060"	""	15	"."	4	11	"."	0	"L1CAM,intron_variant,,ENST00000370060,NM_001278116.1;L1CAM,intron_variant,,ENST00000370055,;LCA10,intron_variant,,ENST00000452593,;LCA10,intron_variant,,ENST00000357566,;L1CAM,intron_variant,,ENST00000420165,;L1CAM,intron_variant,,ENST00000484587,;L1CAM,intron_variant,,ENST00000464967,;L1CAM,intron_variant,,ENST00000460553,;"	"ATCGCGGCCGCGGCCCGG"	"ENSG00000198910"	"ENST00000370060"	"Transcript"	"intron_variant"	"-/5113"	"-/3774"	"-/1257"	""	""	""	"1"	NA	-1	"L1CAM"	"HGNC"	6470	"protein_coding"	"YES"	"CCDS14733.1"	"ENSP00000359077"	"P32004"	"Q86SE4,Q7Z3Z9,Q7Z2J9,Q7Z2J8,Q7Z2J6,Q7Z2J0,Q7Z2I3,Q7Z2H2,Q7Z2F9,E9PHJ4,E7EPI4"	"UPI0000126E89"	"NM_001278116.1"	NA	NA	""	"1/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGGGGGATCGCGGCCGCGGCCCGG"	"3cf55bc2-2764-11e6-b4d5-bdf0414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"2723"	"LAGE3"	8270	"mskcc.org"	"GRCh37"	"X"	153706041	153706041	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000357360"	""	37	"."	3	21	"."	0	"LAGE3,3_prime_UTR_variant,,ENST00000407062,;PLXNA3,downstream_gene_variant,,ENST00000369682,NM_017514.3;LAGE3,downstream_gene_variant,,ENST00000357360,NM_006014.4;"	"-"	"ENSG00000196976"	"ENST00000357360"	"Transcript"	"downstream_gene_variant"	"-/949"	"-/432"	"-/143"	""	""	""	"1"	"67"	-1	"LAGE3"	"HGNC"	26058	"protein_coding"	"YES"	"CCDS14753.1"	"ENSP00000349923"	"Q14657"	"B0S8I7"	"UPI00001614CA"	"NM_006014.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACC"	"3c70c9e8-2764-11e6-b4d5-bdf0414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WXS"	FALSE
"2724"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	13271783	13271788	"+"	"IGR"	"DEL"	"AAAAAC"	"AAAAAC"	"-"	"rs201200116"	NA	"JHCCPT1"	"JHCCPN1"	"AAAAAC"	"AAAAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201200116"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAACA"	"2e709daa-2764-11e6-98ba-bef0414a729f"	"206"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"2725"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	13451419	13451420	"+"	"IGR"	"INS"	"-"	"-"	"ATTCCATTCT"	"novel"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	40	"."	3	26	"."	0	""	"ATTCCATTCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"2e98c01e-2764-11e6-98ba-bef0414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WXS"	FALSE
"2726"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	59017384	59017385	"+"	"IGR"	"INS"	"-"	"G"	"G"	"rs59909964"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	6	2	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs59909964"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"2ea12966-2764-11e6-98ba-bef0414a729f"	"221"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"2727"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	59019360	59019361	"+"	"IGR"	"DEL"	"AT"	"AT"	"-"	"rs113599411"	NA	"JHCCPT1"	"JHCCPN1"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113599411"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAATA"	"2e84c4c4-2764-11e6-98ba-bef0414a729f"	"205"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2728"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	59022417	59022418	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs369786456"	NA	"JHCCPT1"	"JHCCPN1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	4	3	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs369786456"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	""	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"2ea39fca-2764-11e6-98ba-bef0414a729f"	"104"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"2729"	"PRKCZ"	5590	"mskcc.org"	"GRCh37"	"1"	2016641	2016641	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.334+25611A>T"	""	""	"ENST00000378567"	""	3	"1"	2	11	"11"	0	"PRKCZ,intron_variant,,ENST00000378567,NM_002744.4;PRKCZ,intron_variant,,ENST00000400921,NM_001033581.1;PRKCZ,intron_variant,,ENST00000461106,NM_001242874.1;PRKCZ,intron_variant,,ENST00000470596,;PRKCZ,intron_variant,,ENST00000495347,;PRKCZ,intron_variant,,ENST00000468310,;PRKCZ,intron_variant,,ENST00000496325,;PRKCZ,intron_variant,,ENST00000461465,;PRKCZ,intron_variant,,ENST00000466651,;PRKCZ,intron_variant,,ENST00000481140,;"	"T"	"ENSG00000067606"	"ENST00000378567"	"Transcript"	"intron_variant"	"-/2326"	"-/1779"	"-/592"	""	""	""	"1"	NA	1	"PRKCZ"	"HGNC"	9412	"protein_coding"	"YES"	"CCDS37.1"	"ENSP00000367830"	"Q05513"	"J3KRP7,F2Z2H9,D6RGG1,D6RG01,D6REZ8,D6RDM0,D6RD31,D6RCN4,D6RC84,D6RBD4,D6RAU1,D6RAN5"	"UPI0000169EB7"	"NM_002744.4"	""	""	""	"4/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"8e5c166a-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2730"	"UBR4"	23352	"mskcc.org"	"GRCh37"	"1"	19404354	19404354	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs753341350"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.15324+116G>A"	""	""	"ENST00000375254"	""	107	"82"	25	56	"56"	0	"UBR4,intron_variant,,ENST00000375267,;UBR4,intron_variant,,ENST00000375254,NM_020765.2;UBR4,intron_variant,,ENST00000375217,;UBR4,intron_variant,,ENST00000375226,;UBR4,intron_variant,,ENST00000375224,;UBR4,intron_variant,,ENST00000543981,;UBR4,intron_variant,,ENST00000429347,;UBR4,intron_variant,,ENST00000375225,;RP5-1126H10.2,upstream_gene_variant,,ENST00000606379,;UBR4,upstream_gene_variant,,ENST00000486515,;UBR4,intron_variant,,ENST00000459947,;"	"T"	"ENSG00000127481"	"ENST00000375254"	"Transcript"	"intron_variant"	"-/15906"	"-/15552"	"-/5183"	""	""	"rs753341350"	"1"	NA	-1	"UBR4"	"HGNC"	30313	"protein_coding"	"YES"	"CCDS189.1"	"ENSP00000364403"	"Q5T4S7"	"Q96HY5"	"UPI000021276F"	"NM_020765.2"	""	""	""	"104/105"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	"2.856e-05"	"0"	"0"	"0"	"0"	"0.0001423"	"0"	"0.0001201"	NA	"PASS"	"GCG"	"8e5cd55a-2834-11e6-b898-8e3f424a729f"	"."	9.829e-05	"2/20348"	"3/105048"	"0/1436"	"0/838"	"0/802"	"0/1730"	"1/7028"	"0/190"	"1/8324"	"PASS"	"FALSE"	0.233644859813084	"WXS"	FALSE
"2731"	"CAMK2N1"	55450	"mskcc.org"	"GRCh37"	"1"	20805595	20805595	"+"	"3'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000375078"	""	7	"4"	3	7	"7"	0	"CAMK2N1,downstream_gene_variant,,ENST00000375078,NM_018584.5;CAMK2N1,downstream_gene_variant,,ENST00000489020,;"	"T"	"ENSG00000162545"	"ENST00000375078"	"Transcript"	"downstream_gene_variant"	"-/2336"	"-/237"	"-/78"	""	""	""	"1"	"3289"	-1	"CAMK2N1"	"HGNC"	24190	"protein_coding"	"YES"	"CCDS207.1"	"ENSP00000364219"	"Q7Z7J9"	"Q7L2B8"	"UPI000013E179"	"NM_018584.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"8e5cd82a-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2732"	"JUN"	3725	"mskcc.org"	"GRCh37"	"1"	59247476	59247476	"+"	"3'UTR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*271A>C"	""	""	"ENST00000371222"	"1/1"	40	"29"	11	28	"28"	0	"JUN,3_prime_UTR_variant,,ENST00000371222,NM_002228.3;LINC01135,upstream_gene_variant,,ENST00000419531,;LINC01135,upstream_gene_variant,,ENST00000544621,;"	"G"	"ENSG00000177606"	"ENST00000371222"	"Transcript"	"3_prime_UTR_variant"	"2310/3321"	"-/996"	"-/331"	""	""	""	"1"	NA	-1	"JUN"	"HGNC"	6204	"protein_coding"	"YES"	"CCDS610.1"	"ENSP00000360266"	"P05412"	""	"UPI000000D908"	"NM_002228.3"	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"8e5da9a8-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275	"WXS"	TRUE
"2733"	"FOXD3"	27022	"mskcc.org"	"GRCh37"	"1"	63788728	63788728	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371116"	""	57	"44"	13	28	"28"	0	"FOXD3,upstream_gene_variant,,ENST00000371116,NM_012183.2;RP4-792G4.2,intron_variant,,ENST00000431294,;RP4-792G4.2,intron_variant,,ENST00000427268,;RP4-792G4.2,upstream_gene_variant,,ENST00000418244,;RP4-792G4.2,upstream_gene_variant,,ENST00000449386,;RP4-792G4.2,upstream_gene_variant,,ENST00000426393,;"	"A"	"ENSG00000187140"	"ENST00000371116"	"Transcript"	"upstream_gene_variant"	"-/2068"	"-/1437"	"-/478"	""	""	""	"1"	"2"	1	"FOXD3"	"HGNC"	3804	"protein_coding"	"YES"	"CCDS624.1"	"ENSP00000360157"	"Q9UJU5"	""	"UPI000012ADCB"	"NM_012183.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"8e5db3c6-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228070175438596	"WXS"	FALSE
"2734"	"RPAP2"	79871	"mskcc.org"	"GRCh37"	"1"	92788989	92788989	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.525-13T>A"	""	""	"ENST00000610020"	""	95	"76"	19	26	"26"	0	"RPAP2,intron_variant,,ENST00000610020,NM_024813.2;RPAP2,intron_variant,,ENST00000484158,;"	"A"	"ENSG00000122484"	"ENST00000610020"	"Transcript"	"intron_variant"	"-/16993"	"-/1839"	"-/612"	""	""	""	"1"	NA	1	"RPAP2"	"HGNC"	25791	"protein_coding"	"YES"	"CCDS740.1"	"ENSP00000476948"	"Q8IXW5"	""	"UPI0000074323"	"NM_024813.2"	""	""	""	"7/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"8e5de120-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"2735"	"ANKRD34A"	284615	"mskcc.org"	"GRCh37"	"1"	145474930	145474930	"+"	"3'UTR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*111G>T"	""	""	"ENST00000323397"	"4/4"	29	"26"	3	30	"30"	0	"ANKRD34A,3_prime_UTR_variant,,ENST00000323397,NM_001039888.3;LIX1L,upstream_gene_variant,,ENST00000369308,NM_153713.2;POLR3GL,upstream_gene_variant,,ENST00000369314,NM_032305.1;POLR3GL,upstream_gene_variant,,ENST00000369313,;RP11-315I20.1,downstream_gene_variant,,ENST00000600340,;POLR3GL,upstream_gene_variant,,ENST00000446572,;POLR3GL,upstream_gene_variant,,ENST00000471706,;"	"T"	"ENSG00000181039"	"ENST00000323397"	"Transcript"	"3_prime_UTR_variant"	"2895/3611"	"-/1491"	"-/496"	""	""	""	"1"	NA	1	"ANKRD34A"	"HGNC"	27639	"protein_coding"	"YES"	"CCDS30829.1"	"ENSP00000314103"	"Q69YU3"	""	"UPI00001410C4"	"NM_001039888.3"	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"8e5e78c4-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WXS"	FALSE
"2736"	"SPRR1A"	6698	"mskcc.org"	"GRCh37"	"1"	152953933	152953933	"+"	"5'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000307122"	""	3	"1"	2	10	"10"	0	"SPRR1A,upstream_gene_variant,,ENST00000307122,NM_001199828.1,NM_005987.3;SPRR1A,upstream_gene_variant,,ENST00000368762,;"	"T"	"ENSG00000169474"	"ENST00000307122"	"Transcript"	"upstream_gene_variant"	"-/647"	"-/270"	"-/89"	""	""	""	"1"	"2624"	1	"SPRR1A"	"HGNC"	11259	"protein_coding"	"YES"	"CCDS1032.1"	"ENSP00000307340"	"P35321"	""	"UPI000013EBCC"	"NM_001199828.1,NM_005987.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"8e5edb7a-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2737"	"DUSP12"	11266	"mskcc.org"	"GRCh37"	"1"	161726806	161726806	"+"	"3'UTR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*69T>G"	""	""	"ENST00000367943"	"6/6"	166	"120"	46	93	"93"	0	"DUSP12,3_prime_UTR_variant,,ENST00000367943,NM_007240.1;DUSP12,3_prime_UTR_variant,,ENST00000484291,;DUSP12,downstream_gene_variant,,ENST00000464004,;DUSP12,downstream_gene_variant,,ENST00000463365,;"	"G"	"ENSG00000081721"	"ENST00000367943"	"Transcript"	"3_prime_UTR_variant"	"1124/1270"	"-/1023"	"-/340"	""	""	""	"1"	NA	1	"DUSP12"	"HGNC"	3067	"protein_coding"	"YES"	"CCDS1234.1"	"ENSP00000356920"	"Q9UNI6"	""	"UPI0000034737"	"NM_007240.1"	""	""	"6/6"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"8e5f2f12-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27710843373494	"WXS"	FALSE
"2738"	"SWT1"	54823	"mskcc.org"	"GRCh37"	"1"	185250008	185250008	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2573+4208C>A"	""	""	"ENST00000367500"	""	44	"35"	9	22	"22"	0	"SWT1,intron_variant,,ENST00000367500,NM_017673.6;SWT1,intron_variant,,ENST00000367501,NM_001105518.1;RP4-635A23.4,non_coding_transcript_exon_variant,,ENST00000413701,;"	"A"	"ENSG00000116668"	"ENST00000367500"	"Transcript"	"intron_variant"	"-/3830"	"-/2703"	"-/900"	""	""	""	"1"	NA	1	"SWT1"	"HGNC"	16785	"protein_coding"	"YES"	"CCDS1367.1"	"ENSP00000356470"	"Q5T5J6"	"Q5TC96,B3KSB6"	"UPI000013D4C5"	"NM_017673.6"	""	""	""	"18/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"8e5fa438-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204545454545455	"WXS"	FALSE
"2739"	"EPRS"	2058	"mskcc.org"	"GRCh37"	"1"	220206808	220206808	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs199820135"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.388+36G>A"	""	""	"ENST00000366923"	""	72	"56"	16	23	"23"	0	"EPRS,intron_variant,,ENST00000366923,NM_004446.2;EPRS,intron_variant,,ENST00000609181,;EPRS,intron_variant,,ENST00000477030,;"	"T"	"ENSG00000136628"	"ENST00000366923"	"Transcript"	"intron_variant"	"-/5014"	"-/4539"	"-/1512"	""	""	"rs199820135"	"1"	NA	-1	"EPRS"	"HGNC"	3418	"protein_coding"	"YES"	"CCDS31027.1"	"ENSP00000355890"	"P07814"	""	"UPI0000205E8C"	"NM_004446.2"	""	""	""	"4/31"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	"9.418e-06"	"0"	"0"	"0"	"0"	"1.865e-05"	"0"	"0"	NA	"PASS"	"ACG"	"8e602c46-2834-11e6-b898-8e3f424a729f"	"."	9.647e-06	"1/103654"	"1/106180"	"0/8520"	"0/11196"	"0/7850"	"0/6614"	"1/53630"	"0/672"	"0/15172"	"PASS"	"FALSE"	0.222222222222222	"WXS"	FALSE
"2740"	"KMO"	8564	"mskcc.org"	"GRCh37"	"1"	241714358	241714358	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs201269391"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.312+14G>A"	""	""	"ENST00000366559"	""	253	"188"	65	94	"94"	0	"KMO,intron_variant,,ENST00000366559,NM_003679.4;KMO,intron_variant,,ENST00000366557,;KMO,intron_variant,,ENST00000366558,;KMO,intron_variant,,ENST00000484628,;KMO,intron_variant,,ENST00000480967,;KMO,intron_variant,,ENST00000477907,;KMO,intron_variant,,ENST00000481087,;KMO,downstream_gene_variant,,ENST00000484229,;"	"A"	"ENSG00000117009"	"ENST00000366559"	"Transcript"	"intron_variant"	"-/5261"	"-/1461"	"-/486"	""	""	"rs201269391"	"1"	NA	1	"KMO"	"HGNC"	6381	"protein_coding"	"YES"	"CCDS1618.1"	"ENSP00000355517"	"O15229"	""	"UPI000045632A"	"NM_003679.4"	""	""	""	"4/14"	""	"A:0.0002"	"A:0"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0"	"A:0"	"A:0.0001"	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	"0.0001601"	"0"	"0.0002677"	"0"	"0"	"0.0002576"	"0"	"0"	NA	"common_variant"	"CGG"	"8e606c56-2834-11e6-b898-8e3f424a729f"	"."	0.0001601	"17/106164"	"17/106210"	"0/9066"	"3/11208"	"0/7852"	"0/6612"	"14/54338"	"0/692"	"0/16396"	"PASS"	"FALSE"	0.256916996047431	"WXS"	FALSE
"2741"	"PRF1"	5551	"mskcc.org"	"GRCh37"	"10"	72354802	72354802	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000441259"	""	2	"0"	2	11	"11"	0	"PRF1,downstream_gene_variant,,ENST00000441259,NM_005041.4,NM_001083116.1;PRF1,downstream_gene_variant,,ENST00000373209,;"	"T"	"ENSG00000180644"	"ENST00000441259"	"Transcript"	"downstream_gene_variant"	"-/2533"	"-/1668"	"-/555"	""	""	""	"1"	"2303"	-1	"PRF1"	"HGNC"	9360	"protein_coding"	"YES"	"CCDS7305.1"	"ENSP00000398568"	"P14222"	"S5S2F2,S5RDP5"	"UPI000013162B"	"NM_005041.4,NM_001083116.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"8e61383e-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	TRUE
"2742"	"PPP6R3"	55291	"mskcc.org"	"GRCh37"	"11"	68326309	68326309	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.845+162A>C"	""	""	"ENST00000393801"	""	28	"17"	11	17	"17"	0	"PPP6R3,intron_variant,,ENST00000393799,;PPP6R3,intron_variant,,ENST00000393800,NM_001164161.1,NM_001164163.1,NM_001164162.1;PPP6R3,intron_variant,,ENST00000393801,NM_001164160.1;PPP6R3,intron_variant,,ENST00000527403,;PPP6R3,intron_variant,,ENST00000265636,NM_018312.4;PPP6R3,intron_variant,,ENST00000265637,;PPP6R3,intron_variant,,ENST00000524904,;PPP6R3,intron_variant,,ENST00000529710,NM_001164164.1;PPP6R3,intron_variant,,ENST00000534534,;PPP6R3,intron_variant,,ENST00000524845,;PPP6R3,intron_variant,,ENST00000534190,;PPP6R3,downstream_gene_variant,,ENST00000529907,;PPP6R3,intron_variant,,ENST00000531432,;"	"C"	"ENSG00000110075"	"ENST00000393801"	"Transcript"	"intron_variant"	"-/5069"	"-/2640"	"-/879"	""	""	""	"1"	NA	1	"PPP6R3"	"HGNC"	1173	"protein_coding"	"YES"	"CCDS53671.1"	"ENSP00000377390"	"Q5H9R7"	"E9PNN8,E9PKG4,E9PK08,E9PJD8"	"UPI0000688150"	"NM_001164160.1"	""	""	""	"8/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"8e6348c2-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.392857142857143	"WXS"	FALSE
"2743"	"CNTN5"	53942	"mskcc.org"	"GRCh37"	"11"	99690142	99690142	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs80112037"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.56-133C>T"	""	""	"ENST00000524871"	""	25	"13"	12	7	"7"	0	"CNTN5,intron_variant,,ENST00000524871,NM_014361.3;CNTN5,intron_variant,,ENST00000527185,NM_001243271.1;CNTN5,intron_variant,,ENST00000528682,NM_001243270.1;CNTN5,intron_variant,,ENST00000418526,NM_175566.2;CNTN5,intron_variant,,ENST00000279463,;CNTN5,intron_variant,,ENST00000528727,;"	"T"	"ENSG00000149972"	"ENST00000524871"	"Transcript"	"intron_variant"	"-/6258"	"-/3303"	"-/1100"	""	""	"rs80112037"	"1"	NA	1	"CNTN5"	"HGNC"	2175	"protein_coding"	"YES"	"CCDS53696.1"	"ENSP00000435637"	"O94779"	"B4DGP0"	"UPI000006DAB0"	"NM_014361.3"	""	""	""	"3/24"	""	"T:0.0078"	"T:0.0234"	"T:0.0014"	NA	"T:0.001"	"T:0.003"	"T:0.0031"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"8e63937c-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.48	"WXS"	FALSE
"2744"	"NTM"	50863	"mskcc.org"	"GRCh37"	"11"	131689700	131689700	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.83-91758A>T"	""	""	"ENST00000374791"	""	3	"1"	2	8	"8"	0	"NTM,intron_variant,,ENST00000374791,NM_001048209.1;NTM,intron_variant,,ENST00000539799,;NTM,intron_variant,,ENST00000427481,;NTM,intron_variant,,ENST00000550167,;NTM,intron_variant,,ENST00000436745,;"	"T"	"ENSG00000182667"	"ENST00000374791"	"Transcript"	"intron_variant"	"-/3040"	"-/1035"	"-/344"	""	""	""	"1"	NA	1	"NTM"	"HGNC"	17941	"protein_coding"	""	"CCDS41733.1"	"ENSP00000363923"	"Q9P121"	""	"UPI0000047814"	"NM_001048209.1"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"8e63f9b6-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2745"	"ERP27"	121506	"mskcc.org"	"GRCh37"	"12"	15073764	15073764	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.450+102A>T"	""	""	"ENST00000266397"	""	33	"24"	9	13	"13"	0	"ERP27,intron_variant,,ENST00000266397,NM_152321.2;ERP27,intron_variant,,ENST00000540097,;ERP27,upstream_gene_variant,,ENST00000544881,;"	"A"	"ENSG00000139055"	"ENST00000266397"	"Transcript"	"intron_variant"	"-/2096"	"-/822"	"-/273"	""	""	""	"1"	NA	-1	"ERP27"	"HGNC"	26495	"protein_coding"	"YES"	"CCDS8670.1"	"ENSP00000266397"	"Q96DN0"	""	"UPI0000037A99"	"NM_152321.2"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"8e6462ac-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2746"	"SLCO1C1"	53919	"mskcc.org"	"GRCh37"	"12"	20886240	20886240	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"rs73069318"	NA	"JHCCPT5"	"JHCCN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1382+202T>C"	""	""	"ENST00000381552"	""	17	"9"	8	6	"6"	0	"SLCO1C1,intron_variant,,ENST00000381552,;SLCO1C1,intron_variant,,ENST00000545604,NM_001145946.1;SLCO1C1,intron_variant,,ENST00000266509,NM_017435.4;SLCO1C1,intron_variant,,ENST00000545102,NM_001145944.1;SLCO1C1,intron_variant,,ENST00000540354,NM_001145945.1;SLCO1C1,intron_variant,,ENST00000539415,;"	"C"	"ENSG00000139155"	"ENST00000381552"	"Transcript"	"intron_variant"	"-/3466"	"-/2193"	"-/730"	""	""	"rs73069318"	"1"	NA	1	"SLCO1C1"	"HGNC"	13819	"protein_coding"	"YES"	"CCDS53757.1"	"ENSP00000370964"	"Q9NYB5"	""	"UPI00004C3E1B"	""	""	""	""	"10/14"	""	"C:0.0385"	"C:0.1309"	"C:0.0187"	NA	"C:0"	"C:0.006"	"C:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"8e647e18-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.470588235294118	"WXS"	FALSE
"2747"	"KIAA1033"	23325	"mskcc.org"	"GRCh37"	"12"	105515121	105515121	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.665+139T>A"	""	""	"ENST00000332180"	""	50	"33"	17	18	"18"	0	"KIAA1033,intron_variant,,ENST00000332180,NM_015275.1;KIAA1033,downstream_gene_variant,,ENST00000548195,;KIAA1033,intron_variant,,ENST00000550053,;KIAA1033,intron_variant,,ENST00000311317,;KIAA1033,intron_variant,,ENST00000547404,;"	"A"	"ENSG00000136051"	"ENST00000332180"	"Transcript"	"intron_variant"	"-/5812"	"-/3522"	"-/1173"	""	""	""	"1"	NA	1	"KIAA1033"	"HGNC"	29174	"protein_coding"	"YES"	"CCDS41826.1"	"ENSP00000328062"	"Q2M389"	"F8W1W1,F8VQX3,F8VNZ5"	"UPI00001C1F3B"	"NM_015275.1"	""	""	""	"9/32"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"8e65b03a-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34	"WXS"	FALSE
"2748"	"LINC00221"	338005	"mskcc.org"	"GRCh37"	"14"	106938248	106938248	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000334298"	""	19	"13"	6	11	"11"	0	"LINC00221,upstream_gene_variant,,ENST00000334298,;LINC00221,upstream_gene_variant,,ENST00000433371,;LINC00221,upstream_gene_variant,,ENST00000449670,;IGHVIII-44,upstream_gene_variant,,ENST00000521827,;"	"A"	"ENSG00000187156"	"ENST00000334298"	"Transcript"	"upstream_gene_variant"	"-/1657"	""	""	""	""	""	"1"	"226"	1	"LINC00221"	"HGNC"	20169	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"8e680fa6-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WXS"	FALSE
"2749"	"SNORD115-24"	100036563	"mskcc.org"	"GRCh37"	"15"	25455326	25455326	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000363528"	""	73	"53"	20	37	"37"	0	"SNORD115-24,upstream_gene_variant,,ENST00000363528,NR_003495.1;SNORD115-22,downstream_gene_variant,,ENST00000364456,NR_003314.1;SNORD115-23,upstream_gene_variant,,ENST00000364461,NR_003315.1;SNORD115-20,downstream_gene_variant,,ENST00000365099,NR_003312.1;SNORD115-21,downstream_gene_variant,,ENST00000362963,NR_003313.1;SNHG14,intron_variant,,ENST00000424208,;SNHG14,intron_variant,,ENST00000424333,;SNHG14,intron_variant,,ENST00000450809,;"	"C"	"ENSG00000200398"	"ENST00000363528"	"Transcript"	"upstream_gene_variant"	"-/82"	""	""	""	""	""	"1"	"3469"	1	"SNORD115-24"	"HGNC"	33043	"snoRNA"	"YES"	""	""	""	""	""	"NR_003495.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8e685100-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273972602739726	"WXS"	FALSE
"2750"	"SPRED1"	161742	"mskcc.org"	"GRCh37"	"15"	38545815	38545815	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.32+397A>T"	""	""	"ENST00000299084"	""	17	"13"	4	7	"7"	0	"SPRED1,intron_variant,,ENST00000299084,NM_152594.2;SPRED1,intron_variant,,ENST00000561317,;SPRED1,intron_variant,,ENST00000561205,;"	"T"	"ENSG00000166068"	"ENST00000299084"	"Transcript"	"intron_variant"	"-/7780"	"-/1335"	"-/444"	""	""	""	"1"	NA	1	"SPRED1"	"HGNC"	20249	"protein_coding"	"YES"	"CCDS32193.1"	"ENSP00000299084"	"Q7Z699"	"H0YMN8"	"UPI0000072FBD"	"NM_152594.2"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAA"	"8e68775c-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"2751"	"USP50"	373509	"mskcc.org"	"GRCh37"	"15"	50821740	50821740	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.936+254T>C"	""	""	"ENST00000532404"	""	18	"12"	6	8	"8"	0	"USP50,intron_variant,,ENST00000532404,NM_203494.4;USP50,intron_variant,,ENST00000530218,;USP50,intron_variant,,ENST00000559105,;USP50,intron_variant,,ENST00000529349,;"	"G"	"ENSG00000170236"	"ENST00000532404"	"Transcript"	"intron_variant"	"-/1386"	"-/1005"	"-/334"	""	""	""	"1"	NA	-1	"USP50"	"HGNC"	20079	"protein_coding"	"YES"	"CCDS53944.1"	"ENSP00000434676"	""	"E9PP86"	"UPI0001CB7F8F"	"NM_203494.4"	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"8e68afb0-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2752"	"TPM1"	7168	"mskcc.org"	"GRCh37"	"15"	63356394	63356394	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.772+1550T>G"	""	""	"ENST00000358278"	""	329	"268"	61	169	"169"	0	"TPM1,splice_region_variant,,ENST00000288398,NM_000366.5;TPM1,splice_region_variant,,ENST00000560970,;TPM1,3_prime_UTR_variant,,ENST00000558910,;TPM1,intron_variant,,ENST00000357980,;TPM1,intron_variant,,ENST00000358278,NM_001018006.1;TPM1,intron_variant,,ENST00000267996,NM_001018007.1;TPM1,intron_variant,,ENST00000559397,NM_001018020.1;TPM1,intron_variant,,ENST00000334895,NM_001018008.1;TPM1,intron_variant,,ENST00000404484,;TPM1,intron_variant,,ENST00000403994,NM_001018005.1;TPM1,intron_variant,,ENST00000559556,NM_001018004.1;TPM1,intron_variant,,ENST00000559281,;TPM1,intron_variant,,ENST00000317516,;TPM1,intron_variant,,ENST00000560445,;TPM1,downstream_gene_variant,,ENST00000560959,;TPM1,downstream_gene_variant,,ENST00000561266,;TPM1,downstream_gene_variant,,ENST00000560615,;TPM1,downstream_gene_variant,,ENST00000560679,;TPM1,intron_variant,,ENST00000560975,;TPM1,intron_variant,,ENST00000558264,;TPM1,intron_variant,,ENST00000558347,;TPM1,intron_variant,,ENST00000558544,;TPM1,intron_variant,,ENST00000561395,;TPM1,intron_variant,,ENST00000560131,;TPM1,intron_variant,,ENST00000558072,;TPM1,intron_variant,,ENST00000559108,;TPM1,downstream_gene_variant,,ENST00000558314,;TPM1,downstream_gene_variant,,ENST00000561242,;TPM1,downstream_gene_variant,,ENST00000558400,;TPM1,downstream_gene_variant,,ENST00000558868,;TPM1,downstream_gene_variant,,ENST00000559831,;"	"G"	"ENSG00000140416"	"ENST00000358278"	"Transcript"	"intron_variant"	"-/1717"	"-/855"	"-/284"	""	""	""	"1"	NA	1	"TPM1"	"HGNC"	12010	"protein_coding"	"YES"	"CCDS32263.1"	"ENSP00000351022"	"P09493"	"H0YL42,D9YZV5"	"UPI000002B5A9"	"NM_001018006.1"	""	""	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"8e68da94-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185410334346505	"WXS"	FALSE
"2753"	"RLBP1"	6017	"mskcc.org"	"GRCh37"	"15"	89755504	89755504	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.526-372T>A"	""	""	"ENST00000268125"	""	12	"9"	3	7	"7"	0	"RLBP1,intron_variant,,ENST00000268125,NM_000326.4;RLBP1,upstream_gene_variant,,ENST00000563254,;RLBP1,intron_variant,,ENST00000567787,;"	"T"	"ENSG00000140522"	"ENST00000268125"	"Transcript"	"intron_variant"	"-/1810"	"-/954"	"-/317"	""	""	""	"1"	NA	-1	"RLBP1"	"HGNC"	10024	"protein_coding"	"YES"	"CCDS32324.1"	"ENSP00000268125"	"P12271"	""	"UPI0000000C59"	"NM_000326.4"	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"8e69409c-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2754"	"CHD2"	1106	"mskcc.org"	"GRCh37"	"15"	93467713	93467713	"+"	"Silent"	"SNP"	"C"	"C"	"G"	"rs144667627"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.225C>G"	"p.="	"p.S75S"	"ENST00000394196"	"3/39"	446	"315"	131	195	"195"	0	"CHD2,synonymous_variant,p.=,ENST00000394196,NM_001271.3;CHD2,synonymous_variant,p.=,ENST00000557381,;CHD2,synonymous_variant,p.=,ENST00000420239,NM_001042572.2;CHD2,synonymous_variant,p.=,ENST00000536619,;CHD2,synonymous_variant,p.=,ENST00000556722,;CHD2,non_coding_transcript_exon_variant,,ENST00000556930,;CHD2,non_coding_transcript_exon_variant,,ENST00000309818,;CHD2,non_coding_transcript_exon_variant,,ENST00000556270,;"	"G"	"ENSG00000173575"	"ENST00000394196"	"Transcript"	"synonymous_variant"	"1293/9857"	"225/5487"	"75/1828"	"S"	"tcC/tcG"	"rs144667627"	"1"	NA	1	"CHD2"	"HGNC"	1917	"protein_coding"	"YES"	"CCDS10374.2"	"ENSP00000377747"	"O14647"	"Q6AI05,Q3YLD6,Q3YLD5,G3V4S8,G3V418"	"UPI0000E8A85C"	"NM_001271.3"	""	""	"3/39"	""	"hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF538,Low_complexity_(Seg):seg"	""	""	""	NA	""	""	""	"G:0"	"G:0.0001"	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"8e695d02-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29372197309417	"WXS"	FALSE
"2755"	"RPUSD1"	113000	"mskcc.org"	"GRCh37"	"16"	837023	837023	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs777067360"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.409+54G>A"	""	""	"ENST00000561734"	""	240	"220"	20	79	"79"	0	"RPUSD1,intron_variant,,ENST00000561734,;RPUSD1,intron_variant,,ENST00000007264,NM_058192.2;RPUSD1,intron_variant,,ENST00000565809,;RPUSD1,intron_variant,,ENST00000567114,;RPUSD1,intron_variant,,ENST00000562070,;RPUSD1,intron_variant,,ENST00000565377,;RPUSD1,intron_variant,,ENST00000569601,;RPUSD1,intron_variant,,ENST00000563560,;CHTF18,upstream_gene_variant,,ENST00000317063,;CHTF18,upstream_gene_variant,,ENST00000455171,;MSLNL,upstream_gene_variant,,ENST00000293892,;CHTF18,upstream_gene_variant,,ENST00000262315,NM_022092.2;MSLNL,upstream_gene_variant,,ENST00000543963,;MSLNL,upstream_gene_variant,,ENST00000442466,;CHTF18,upstream_gene_variant,,ENST00000426047,;CHTF18,upstream_gene_variant,,ENST00000491530,;CHTF18,upstream_gene_variant,,ENST00000570058,;RPUSD1,intron_variant,,ENST00000567283,;RPUSD1,intron_variant,,ENST00000565503,;CHTF18,upstream_gene_variant,,ENST00000471202,;CHTF18,upstream_gene_variant,,ENST00000464728,;CHTF18,upstream_gene_variant,,ENST00000440239,;CHTF18,upstream_gene_variant,,ENST00000479976,;CHTF18,upstream_gene_variant,,ENST00000569270,;CHTF18,upstream_gene_variant,,ENST00000567620,;CHTF18,upstream_gene_variant,,ENST00000565787,;CHTF18,upstream_gene_variant,,ENST00000563545,;CHTF18,upstream_gene_variant,,ENST00000484349,;"	"T"	"ENSG00000007376"	"ENST00000561734"	"Transcript"	"intron_variant"	"-/2159"	"-/939"	"-/312"	""	""	"rs777067360"	"1"	NA	-1	"RPUSD1"	"HGNC"	14173	"protein_coding"	"YES"	"CCDS10426.1"	"ENSP00000455026"	"Q9UJJ7"	"H3BSG4,H3BQN8"	"UPI0000073C11"	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	"9.473e-06"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	NA	"PASS"	"GCC"	"8e699f10-2834-11e6-b898-8e3f424a729f"	"."	0	"0/76134"	"1/105558"	"0/6076"	"0/8028"	"0/5204"	"0/4096"	"0/38696"	"0/486"	"0/13548"	"VQSRTrancheSNP99.60to99.80"	"FALSE"	0.0833333333333333	"WXS"	FALSE
"2756"	"TPSD1"	23430	"mskcc.org"	"GRCh37"	"16"	1311756	1311756	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000211076"	""	36	"21"	15	9	"9"	0	"TPSD1,downstream_gene_variant,,ENST00000211076,NM_012217.2;TPSD1,downstream_gene_variant,,ENST00000397534,;PRSS29P,intron_variant,,ENST00000568091,;PRSS29P,intron_variant,,ENST00000440800,;RP11-616M22.5,downstream_gene_variant,,ENST00000566997,;"	"T"	"ENSG00000095917"	"ENST00000211076"	"Transcript"	"downstream_gene_variant"	"-/963"	"-/729"	"-/242"	""	""	""	"1"	"3293"	1	"TPSD1"	"HGNC"	14118	"protein_coding"	"YES"	"CCDS10432.1"	"ENSP00000211076"	"Q9BZJ3"	""	"UPI000007066B"	"NM_012217.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"8e69a80c-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"2757"	"TSC2"	7249	"mskcc.org"	"GRCh37"	"16"	2103938	2103938	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.337-359C>G"	""	""	"ENST00000219476"	""	242	"172"	70	119	"119"	0	"TSC2,intron_variant,,ENST00000219476,NM_000548.3;TSC2,intron_variant,,ENST00000350773,NM_001114382.1;TSC2,intron_variant,,ENST00000353929,;TSC2,intron_variant,,ENST00000568454,;TSC2,intron_variant,,ENST00000401874,NM_001077183.1;TSC2,intron_variant,,ENST00000439673,;TSC2,intron_variant,,ENST00000382538,;TSC2,intron_variant,,ENST00000432909,;TSC2,upstream_gene_variant,,ENST00000467949,;TSC2,non_coding_transcript_exon_variant,,ENST00000461648,;TSC2,intron_variant,,ENST00000439117,;TSC2,upstream_gene_variant,,ENST00000568692,;"	"G"	"ENSG00000103197"	"ENST00000219476"	"Transcript"	"intron_variant"	"-/6156"	"-/5424"	"-/1807"	""	""	""	"1"	NA	1	"TSC2"	"HGNC"	12363	"protein_coding"	"YES"	"CCDS10458.1"	"ENSP00000219476"	"P49815"	""	"UPI000013C781"	"NM_000548.3"	""	""	""	"4/41"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"8e69b2fc-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289256198347107	"WXS"	TRUE
"2758"	"SDR42E2"	0	"mskcc.org"	"GRCh37"	"16"	22197829	22197829	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.839-213G>A"	""	""	"ENST00000602312"	""	58	"43"	15	20	"20"	0	"SDR42E2,intron_variant,,ENST00000602312,;SDR42E2,downstream_gene_variant,,ENST00000330898,;"	"A"	"ENSG00000183921"	"ENST00000602312"	"Transcript"	"intron_variant"	"-/2528"	"-/1167"	"-/388"	""	""	""	"1"	NA	1	"SDR42E2"	"HGNC"	35414	"protein_coding"	"YES"	""	"ENSP00000473474"	""	"R4GN39"	"UPI0002B831CA"	""	""	""	""	"9/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"8e6a25e8-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258620689655172	"WXS"	FALSE
"2759"	"MT1X"	4501	"mskcc.org"	"GRCh37"	"16"	56718139	56718139	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000394485"	""	230	"162"	68	77	"77"	0	"MT1X,downstream_gene_variant,,ENST00000562939,;MT1X,downstream_gene_variant,,ENST00000394485,NM_005952.3;RP11-343H19.2,intron_variant,,ENST00000567563,;MT1X,downstream_gene_variant,,ENST00000568370,;MT1X,downstream_gene_variant,,ENST00000564974,;DPPA2P4,upstream_gene_variant,,ENST00000563717,;"	"C"	"ENSG00000187193"	"ENST00000394485"	"Transcript"	"downstream_gene_variant"	"-/450"	"-/186"	"-/61"	""	""	""	"1"	"31"	1	"MT1X"	"HGNC"	7405	"protein_coding"	"YES"	"CCDS10768.1"	"ENSP00000377995"	"P80297"	""	"UPI000000160C"	"NM_005952.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"8e6ab440-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295652173913043	"WXS"	FALSE
"2760"	"NLRC5"	84166	"mskcc.org"	"GRCh37"	"16"	57056350	57056350	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.355+123C>G"	""	""	"ENST00000262510"	""	57	"37"	20	29	"28"	1	"NLRC5,intron_variant,,ENST00000436936,;NLRC5,intron_variant,,ENST00000262510,NM_032206.4;NLRC5,intron_variant,,ENST00000308149,;NLRC5,intron_variant,,ENST00000539144,;NLRC5,upstream_gene_variant,,ENST00000538805,;NLRC5,upstream_gene_variant,,ENST00000538110,;NLRC5,upstream_gene_variant,,ENST00000543030,;NLRC5,downstream_gene_variant,,ENST00000544641,;NLRC5,downstream_gene_variant,,ENST00000538059,;NLRC5,intron_variant,,ENST00000539881,;NLRC5,upstream_gene_variant,,ENST00000545081,;NLRC5,upstream_gene_variant,,ENST00000536231,;NLRC5,downstream_gene_variant,,ENST00000538273,;"	"G"	"ENSG00000140853"	"ENST00000262510"	"Transcript"	"intron_variant"	"-/6822"	"-/5601"	"-/1866"	""	""	""	"1"	NA	1	"NLRC5"	"HGNC"	29933	"protein_coding"	"YES"	"CCDS10773.1"	"ENSP00000262510"	"Q86WI3"	"F5H274,F5GYP0"	"UPI00001AEE94"	"NM_032206.4"	""	""	""	"4/48"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"8e6abaa8-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.350877192982456	"WXS"	FALSE
"2761"	"GPS2"	2874	"mskcc.org"	"GRCh37"	"17"	7218207	7218207	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.94+71C>A"	""	""	"ENST00000380728"	""	141	"129"	12	100	"100"	0	"GPS2,intron_variant,,ENST00000380728,;GPS2,intron_variant,,ENST00000389167,NM_004489.4;GPS2,intron_variant,,ENST00000391950,;GPS2,intron_variant,,ENST00000570780,;GPS2,intron_variant,,ENST00000577040,;NEURL4,downstream_gene_variant,,ENST00000399464,NM_032442.2;NEURL4,downstream_gene_variant,,ENST00000315614,NM_001005408.1;NEURL4,downstream_gene_variant,,ENST00000570460,;NEURL4,downstream_gene_variant,,ENST00000571887,;EIF5A,downstream_gene_variant,,ENST00000336458,NM_001970.4;EIF5A,downstream_gene_variant,,ENST00000576930,;EIF5A,downstream_gene_variant,,ENST00000571955,;EIF5A,downstream_gene_variant,,ENST00000416016,NM_001143762.1;EIF5A,downstream_gene_variant,,ENST00000419711,NM_001143761.1;EIF5A,downstream_gene_variant,,ENST00000336452,NM_001143760.1;EIF5A,downstream_gene_variant,,ENST00000573542,;EIF5A,downstream_gene_variant,,ENST00000572815,;EIF5A,downstream_gene_variant,,ENST00000573714,;GPS2,upstream_gene_variant,,ENST00000573684,;GPS2,upstream_gene_variant,,ENST00000574458,;NEURL4,downstream_gene_variant,,ENST00000574120,;GPS2,non_coding_transcript_exon_variant,,ENST00000571697,;GPS2,non_coding_transcript_exon_variant,,ENST00000571569,;GPS2,non_coding_transcript_exon_variant,,ENST00000572707,;RP11-542C16.2,intron_variant,,ENST00000575474,;RP11-542C16.2,intron_variant,,ENST00000315601,;GPS2,intron_variant,,ENST00000572172,;GPS2,intron_variant,,ENST00000572363,;GPS2,intron_variant,,ENST00000571098,;GPS2,intron_variant,,ENST00000573059,;GPS2,intron_variant,,ENST00000574201,;NEURL4,downstream_gene_variant,,ENST00000573186,;EIF5A,downstream_gene_variant,,ENST00000355068,;NEURL4,downstream_gene_variant,,ENST00000576794,;GPS2,upstream_gene_variant,,ENST00000573807,;NEURL4,downstream_gene_variant,,ENST00000572680,;NEURL4,downstream_gene_variant,,ENST00000572029,;EIF5A,downstream_gene_variant,,ENST00000575001,;GPS2,upstream_gene_variant,,ENST00000571695,;"	"T"	"ENSG00000132522"	"ENST00000380728"	"Transcript"	"intron_variant"	"-/1379"	"-/984"	"-/327"	""	""	""	"1"	NA	-1	"GPS2"	"HGNC"	4550	"protein_coding"	"YES"	"CCDS11100.1"	"ENSP00000370104"	"Q13227"	"I3L4X7"	"UPI0000000DD1"	""	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"8e6bb318-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WXS"	FALSE
"2762"	"SPDYE4"	388333	"mskcc.org"	"GRCh37"	"17"	8656878	8656878	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.486-71T>A"	""	""	"ENST00000328794"	""	33	"29"	4	12	"12"	0	"SPDYE4,intron_variant,,ENST00000328794,NM_001128076.1;SPDYE4,downstream_gene_variant,,ENST00000580999,;SPDYE4,intron_variant,,ENST00000582989,;"	"T"	"ENSG00000183318"	"ENST00000328794"	"Transcript"	"intron_variant"	"-/923"	"-/714"	"-/237"	""	""	""	"1"	NA	-1	"SPDYE4"	"HGNC"	35463	"protein_coding"	"YES"	"CCDS45609.1"	"ENSP00000329522"	"A6NLX3"	""	"UPI0000DD83CC"	"NM_001128076.1"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"8e6bd80c-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WXS"	FALSE
"2763"	"MYH2"	4620	"mskcc.org"	"GRCh37"	"17"	10428913	10428913	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4392G>A"	"p.="	"p.Q1464Q"	"ENST00000245503"	"32/40"	397	"297"	100	205	"205"	0	"MYH2,synonymous_variant,p.=,ENST00000245503,NM_017534.5;MYH2,synonymous_variant,p.=,ENST00000397183,NM_001100112.1;MYH2,intron_variant,,ENST00000532183,;CTC-297N7.11,intron_variant,,ENST00000587182,;RP11-799N11.1,intron_variant,,ENST00000399342,;RP11-799N11.1,intron_variant,,ENST00000581304,;"	"T"	"ENSG00000125414"	"ENST00000245503"	"Transcript"	"synonymous_variant"	"4777/6339"	"4392/5826"	"1464/1941"	"Q"	"caG/caA"	""	"1"	NA	-1	"MYH2"	"HGNC"	7572	"protein_coding"	"YES"	"CCDS11156.1"	"ENSP00000245503"	"Q9UKX2"	"J3QLR0,E7EX84,C9JIX4"	"UPI000012FB6C"	"NM_017534.5"	""	""	"32/40"	""	"Coiled-coils_(Ncoils):Coil,Pfam_domain:PF01576,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF314,Superfamily_domains:SSF90257"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"8e6bdc8a-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.251889168765743	"WXS"	FALSE
"2764"	"STXBP4"	252983	"mskcc.org"	"GRCh37"	"17"	53076580	53076580	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.181-126A>G"	""	""	"ENST00000376352"	""	40	"27"	13	15	"15"	0	"STXBP4,intron_variant,,ENST00000376352,NM_178509.5;STXBP4,intron_variant,,ENST00000434978,;STXBP4,intron_variant,,ENST00000405898,;STXBP4,intron_variant,,ENST00000398391,;STXBP4,intron_variant,,ENST00000299341,;STXBP4,upstream_gene_variant,,ENST00000463234,;"	"G"	"ENSG00000166263"	"ENST00000376352"	"Transcript"	"intron_variant"	"-/6243"	"-/1662"	"-/553"	""	""	""	"1"	NA	1	"STXBP4"	"HGNC"	19694	"protein_coding"	"YES"	"CCDS11584.2"	"ENSP00000365530"	"Q6ZWJ1"	""	"UPI000050D3EE"	"NM_178509.5"	""	""	""	"4/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"8e6d1f28-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325	"WXS"	FALSE
"2765"	"ZNF556"	80032	"mskcc.org"	"GRCh37"	"19"	2878463	2878463	"+"	"3'UTR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*136T>A"	""	""	"ENST00000307635"	"4/4"	25	"19"	6	6	"6"	0	"ZNF556,3_prime_UTR_variant,,ENST00000586426,;ZNF556,3_prime_UTR_variant,,ENST00000307635,NM_024967.1;ZNF556,downstream_gene_variant,,ENST00000586470,;AC006130.4,upstream_gene_variant,,ENST00000586202,;"	"A"	"ENSG00000172000"	"ENST00000307635"	"Transcript"	"3_prime_UTR_variant"	"1594/1632"	"-/1371"	"-/456"	""	""	""	"1"	NA	1	"ZNF556"	"HGNC"	25669	"protein_coding"	"YES"	"CCDS12097.1"	"ENSP00000302603"	"Q9HAH1"	""	"UPI000006DA0F"	"NM_024967.1"	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"8e6f3ef2-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WXS"	FALSE
"2766"	"KRI1"	65095	"mskcc.org"	"GRCh37"	"19"	10665630	10665630	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1799+133C>T"	""	""	"ENST00000312962"	""	33	"24"	9	18	"18"	0	"KRI1,intron_variant,,ENST00000312962,NM_023008.3;KRI1,intron_variant,,ENST00000361821,;ATG4D,downstream_gene_variant,,ENST00000309469,NM_032885.5,NM_001281504.1;ATG4D,downstream_gene_variant,,ENST00000540862,;ATG4D,downstream_gene_variant,,ENST00000588972,;ATG4D,downstream_gene_variant,,ENST00000587256,;KRI1,downstream_gene_variant,,ENST00000539027,;ATG4D,downstream_gene_variant,,ENST00000586863,;ATG4D,downstream_gene_variant,,ENST00000585437,;MIR1238,downstream_gene_variant,,ENST00000408483,;RNU7-140P,upstream_gene_variant,,ENST00000459546,;KRI1,intron_variant,,ENST00000536689,;KRI1,intron_variant,,ENST00000478863,;KRI1,intron_variant,,ENST00000537363,;ATG4D,downstream_gene_variant,,ENST00000586417,;ATG4D,downstream_gene_variant,,ENST00000588667,;ATG4D,downstream_gene_variant,,ENST00000588857,;ATG4D,downstream_gene_variant,,ENST00000589753,;KRI1,downstream_gene_variant,,ENST00000432197,;KRI1,downstream_gene_variant,,ENST00000536714,;ATG4D,downstream_gene_variant,,ENST00000585752,;KRI1,downstream_gene_variant,,ENST00000537433,;KRI1,downstream_gene_variant,,ENST00000543842,;"	"A"	"ENSG00000129347"	"ENST00000312962"	"Transcript"	"intron_variant"	"-/3016"	"-/2130"	"-/709"	""	""	""	"1"	NA	-1	"KRI1"	"HGNC"	25769	"protein_coding"	"YES"	"CCDS12242.1"	"ENSP00000320917"	"Q8N9T8"	""	"UPI0000246DCC"	"NM_023008.3"	""	""	""	"18/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"8e6fb13e-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2767"	"AP1M2"	10053	"mskcc.org"	"GRCh37"	"19"	10698007	10698007	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000250244"	""	63	"44"	19	23	"23"	0	"AP1M2,upstream_gene_variant,,ENST00000590923,;AP1M2,upstream_gene_variant,,ENST00000250244,NM_005498.4;AP1M2,upstream_gene_variant,,ENST00000591676,;AP1M2,upstream_gene_variant,,ENST00000589684,;AP1M2,upstream_gene_variant,,ENST00000591240,;AP1M2,upstream_gene_variant,,ENST00000589571,;AP1M2,upstream_gene_variant,,ENST00000589809,;"	"C"	"ENSG00000129354"	"ENST00000250244"	"Transcript"	"upstream_gene_variant"	"-/1749"	"-/1272"	"-/423"	""	""	""	"1"	"17"	-1	"AP1M2"	"HGNC"	558	"protein_coding"	"YES"	"CCDS45964.1"	"ENSP00000250244"	"Q9Y6Q5"	"K7EPR4"	"UPI0000124FEB"	"NM_005498.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"8e6fb350-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301587301587302	"WXS"	FALSE
"2768"	"SYCE2"	256126	"mskcc.org"	"GRCh37"	"19"	13015432	13015432	"+"	"Silent"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.180C>T"	"p.="	"p.F60F"	"ENST00000293695"	"3/6"	195	"136"	59	78	"78"	0	"SYCE2,synonymous_variant,p.=,ENST00000293695,NM_001105578.1;GCDH,intron_variant,,ENST00000591050,;GCDH,downstream_gene_variant,,ENST00000222214,NM_000159.3;GCDH,downstream_gene_variant,,ENST00000422947,;GCDH,downstream_gene_variant,,ENST00000591470,;GCDH,downstream_gene_variant,,ENST00000457854,NM_013976.3;SYCE2,upstream_gene_variant,,ENST00000592819,;SYCE2,non_coding_transcript_exon_variant,,ENST00000591229,;GCDH,downstream_gene_variant,,ENST00000588242,;GCDH,downstream_gene_variant,,ENST00000590530,;GCDH,downstream_gene_variant,,ENST00000591043,;GCDH,downstream_gene_variant,,ENST00000585420,;"	"A"	"ENSG00000161860"	"ENST00000293695"	"Transcript"	"synonymous_variant"	"199/1231"	"180/657"	"60/218"	"F"	"ttC/ttT"	""	"1"	NA	-1	"SYCE2"	"HGNC"	27411	"protein_coding"	"YES"	"CCDS42509.1"	"ENSP00000293695"	"Q6PIF2"	""	"UPI00000389A2"	"NM_001105578.1"	""	""	"3/6"	""	"Gene3D:1f5nA01"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"8e6fd34e-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302564102564103	"WXS"	FALSE
"2769"	"IRF2BP1"	26145	"mskcc.org"	"GRCh37"	"19"	46387947	46387947	"+"	"Silent"	"SNP"	"G"	"T"	"T"	""	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1086C>A"	"p.="	"p.L362L"	"ENST00000302165"	"1/1"	182	"117"	65	77	"77"	0	"IRF2BP1,synonymous_variant,p.=,ENST00000302165,NM_015649.1;"	"T"	"ENSG00000170604"	"ENST00000302165"	"Transcript"	"synonymous_variant"	"1430/2511"	"1086/1755"	"362/584"	"L"	"ctC/ctA"	"COSM3536025"	"1"	NA	-1	"IRF2BP1"	"HGNC"	21728	"protein_coding"	"YES"	"CCDS12678.1"	"ENSP00000307265"	"Q8IU81"	""	"UPI00000747C7"	"NM_015649.1"	""	""	"1/1"	""	"hmmpanther:PTHR10816:SF17,hmmpanther:PTHR10816"	""	""	""	NA	""	""	""	""	""	NA	"1"	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	"1"	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"8e70f1e8-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.357142857142857	"WXS"	FALSE
"2770"	"LILRB5"	10990	"mskcc.org"	"GRCh37"	"19"	54751458	54751458	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000449561"	""	55	"43"	12	31	"31"	0	"LILRB5,downstream_gene_variant,,ENST00000450632,;LILRB5,downstream_gene_variant,,ENST00000316219,NM_001081442.1,NM_006840.3;LILRA6,upstream_gene_variant,,ENST00000440558,;LILRB5,downstream_gene_variant,,ENST00000449561,;LILRB3,upstream_gene_variant,,ENST00000407860,;LILRA6,upstream_gene_variant,,ENST00000270464,;LILRA6,upstream_gene_variant,,ENST00000419410,;LILRA6,upstream_gene_variant,,ENST00000391735,;LILRA6,upstream_gene_variant,,ENST00000396365,NM_024318.2;LILRB5,downstream_gene_variant,,ENST00000345866,NM_001081443.1;LILRA6,upstream_gene_variant,,ENST00000245621,;CTD-2337J16.1,downstream_gene_variant,,ENST00000595133,;RPS9,3_prime_UTR_variant,,ENST00000448962,;LILRB5,downstream_gene_variant,,ENST00000463460,;LILRB5,downstream_gene_variant,,ENST00000466581,;LILRA6,upstream_gene_variant,,ENST00000430421,;LILRA6,upstream_gene_variant,,ENST00000474697,;AC010492.4,upstream_gene_variant,,ENST00000506567,;"	"A"	"ENSG00000105609"	"ENST00000449561"	"Transcript"	"downstream_gene_variant"	"-/2137"	"-/1776"	"-/591"	""	""	""	"1"	"2902"	-1	"LILRB5"	"HGNC"	6609	"protein_coding"	"YES"	"CCDS46176.1"	"ENSP00000406478"	"O75023"	""	"UPI0000202BB5"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"8e717d70-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218181818181818	"WXS"	FALSE
"2771"	"AC021021.2"	0	"mskcc.org"	"GRCh37"	"2"	6636071	6636071	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000436082"	""	25	"14"	11	11	"11"	0	"AC021021.2,upstream_gene_variant,,ENST00000436082,;AC021021.1,non_coding_transcript_exon_variant,,ENST00000454229,;"	"T"	"ENSG00000226488"	"ENST00000436082"	"Transcript"	"upstream_gene_variant"	"-/528"	""	""	""	""	""	"1"	"64"	1	"AC021021.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"8e71ce9c-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.44	"WXS"	FALSE
"2772"	"WDR75"	84128	"mskcc.org"	"GRCh37"	"2"	190322345	190322345	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.569+238T>C"	""	""	"ENST00000314761"	""	40	"19"	21	8	"8"	0	"WDR75,intron_variant,,ENST00000314761,NM_032168.1;WDR75,intron_variant,,ENST00000427960,;WDR75,intron_variant,,ENST00000436347,;WDR75,downstream_gene_variant,,ENST00000472286,;WDR75,upstream_gene_variant,,ENST00000498365,;"	"C"	"ENSG00000115368"	"ENST00000314761"	"Transcript"	"intron_variant"	"-/2701"	"-/2493"	"-/830"	""	""	""	"1"	NA	1	"WDR75"	"HGNC"	25725	"protein_coding"	"YES"	"CCDS2298.1"	"ENSP00000314193"	"Q8IWA0"	"Q05D27,A8K330"	"UPI000007452C"	"NM_032168.1"	""	""	""	"6/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"8e736982-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.525	"WXS"	FALSE
"2773"	"PMEPA1"	56937	"mskcc.org"	"GRCh37"	"20"	56251909	56251909	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.110-17156A>T"	""	""	"ENST00000341744"	""	2	"0"	2	8	"8"	0	"PMEPA1,intron_variant,,ENST00000341744,NM_020182.4;PMEPA1,intron_variant,,ENST00000265626,NM_199171.2;PMEPA1,intron_variant,,ENST00000347215,NM_199170.2,NM_199169.2;PMEPA1,intron_variant,,ENST00000395816,NM_001255976.1;PMEPA1,intron_variant,,ENST00000395819,;PMEPA1,intron_variant,,ENST00000414037,;PMEPA1,intron_variant,,ENST00000395814,;PMEPA1,intron_variant,,ENST00000472841,;"	"A"	"ENSG00000124225"	"ENST00000341744"	"Transcript"	"intron_variant"	"-/4845"	"-/864"	"-/287"	""	""	""	"1"	NA	-1	"PMEPA1"	"HGNC"	14107	"protein_coding"	"YES"	"CCDS13463.1"	"ENSP00000345826"	"Q969W9"	""	"UPI000004970A"	"NM_020182.4"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"8e74fce8-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"2774"	"NCAPH2"	29781	"mskcc.org"	"GRCh37"	"22"	50960726	50960726	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1233+46C>A"	""	""	"ENST00000299821"	""	156	"103"	53	109	"109"	0	"NCAPH2,intron_variant,,ENST00000395701,;NCAPH2,intron_variant,,ENST00000420993,NM_001185011.1,NM_152299.3;NCAPH2,intron_variant,,ENST00000299821,;TYMP,downstream_gene_variant,,ENST00000252029,NM_001953.4,NM_001113755.2,NM_001257989.1,NM_001113756.2,NM_001257988.1;TYMP,downstream_gene_variant,,ENST00000395678,;TYMP,downstream_gene_variant,,ENST00000395680,;TYMP,downstream_gene_variant,,ENST00000395681,;TYMP,downstream_gene_variant,,ENST00000425169,;NCAPH2,downstream_gene_variant,,ENST00000395698,NM_014551.4;SCO2,downstream_gene_variant,,ENST00000543927,NM_001169109.1;SCO2,downstream_gene_variant,,ENST00000535425,NM_001169110.1;SCO2,downstream_gene_variant,,ENST00000252785,NM_001169111.1;SCO2,downstream_gene_variant,,ENST00000395693,NM_005138.2;NCAPH2,downstream_gene_variant,,ENST00000523045,;SCO2,downstream_gene_variant,,ENST00000423348,;SCO2,downstream_gene_variant,,ENST00000439934,;NCAPH2,upstream_gene_variant,,ENST00000522304,;CTA-384D8.36,upstream_gene_variant,,ENST00000608319,;NCAPH2,intron_variant,,ENST00000520297,;NCAPH2,intron_variant,,ENST00000522048,;TYMP,downstream_gene_variant,,ENST00000487577,;TYMP,downstream_gene_variant,,ENST00000476284,;NCAPH2,downstream_gene_variant,,ENST00000518394,;NCAPH2,downstream_gene_variant,,ENST00000418794,;"	"A"	"ENSG00000025770"	"ENST00000299821"	"Transcript"	"intron_variant"	"-/1996"	"-/1821"	"-/606"	""	""	""	"1"	NA	1	"NCAPH2"	"HGNC"	25071	"protein_coding"	"YES"	"CCDS54546.1"	"ENSP00000299821"	"Q6IBW4"	""	"UPI0000207A65"	""	""	""	""	"14/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"8e76efa8-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.33974358974359	"WXS"	FALSE
"2775"	"LMCD1"	29995	"mskcc.org"	"GRCh37"	"3"	8556532	8556532	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.42+12866A>C"	""	""	"ENST00000157600"	""	185	"120"	65	87	"87"	0	"LMCD1,intron_variant,,ENST00000157600,NM_014583.3;LMCD1,intron_variant,,ENST00000454244,NM_001278233.1;LMCD1,intron_variant,,ENST00000397386,NM_001278234.1;LMCD1,intron_variant,,ENST00000415597,;LMCD1,intron_variant,,ENST00000535732,NM_001278235.1;LMCD1-AS1,intron_variant,,ENST00000439407,;LMCD1,intron_variant,,ENST00000456506,;LMCD1,intron_variant,,ENST00000470776,;"	"C"	"ENSG00000071282"	"ENST00000157600"	"Transcript"	"intron_variant"	"-/1851"	"-/1098"	"-/365"	""	""	""	"1"	NA	1	"LMCD1"	"HGNC"	6633	"protein_coding"	"YES"	"CCDS33688.1"	"ENSP00000157600"	"Q9NZU5"	"B4DG80"	"UPI000012E774"	"NM_014583.3"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"8e76fe12-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351351351351351	"WXS"	FALSE
"2776"	"ILDR1"	286676	"mskcc.org"	"GRCh37"	"3"	121741142	121741142	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000344209"	""	25	"21"	4	9	"9"	0	"ILDR1,upstream_gene_variant,,ENST00000273691,NM_175924.3;ILDR1,upstream_gene_variant,,ENST00000344209,NM_001199799.1;ILDR1,upstream_gene_variant,,ENST00000393631,NM_001199800.1;Y_RNA,downstream_gene_variant,,ENST00000365518,;ILDR1,upstream_gene_variant,,ENST00000460554,;"	"T"	"ENSG00000145103"	"ENST00000344209"	"Transcript"	"upstream_gene_variant"	"-/2226"	"-/1641"	"-/546"	""	""	""	"1"	"91"	-1	"ILDR1"	"HGNC"	28741	"protein_coding"	"YES"	"CCDS56271.1"	"ENSP00000345667"	"Q86SU0"	""	"UPI00003FF1E2"	"NM_001199799.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"8e7827ec-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WXS"	FALSE
"2777"	"FRAS1"	80144	"mskcc.org"	"GRCh37"	"4"	79367295	79367295	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5856+429A>T"	""	""	"ENST00000264895"	""	17	"12"	5	6	"6"	0	"FRAS1,3_prime_UTR_variant,,ENST00000325942,NM_001166133.1;FRAS1,3_prime_UTR_variant,,ENST00000510944,;FRAS1,intron_variant,,ENST00000264895,NM_025074.6;FRAS1,intron_variant,,ENST00000512123,;FRAS1,upstream_gene_variant,,ENST00000509802,;"	"T"	"ENSG00000138759"	"ENST00000264895"	"Transcript"	"intron_variant"	"-/12479"	"-/12039"	"-/4012"	""	""	""	"1"	NA	1	"FRAS1"	"HGNC"	19185	"protein_coding"	"YES"	"CCDS54771.1"	"ENSP00000264895"	"Q86XX4"	"Q69YV4,Q4W596"	"UPI000021D4C2"	"NM_025074.6"	""	""	""	"42/73"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"8e7a1b56-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"2778"	"CDC25C"	995	"mskcc.org"	"GRCh37"	"5"	137624853	137624853	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs774550906"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.927+337C>T"	""	""	"ENST00000323760"	""	12	"7"	5	6	"6"	0	"CDC25C,intron_variant,,ENST00000323760,NM_001790.3,NM_001287582.1;CDC25C,intron_variant,,ENST00000356505,;CDC25C,intron_variant,,ENST00000357274,;CDC25C,intron_variant,,ENST00000513970,NM_001287583.1;CDC25C,intron_variant,,ENST00000348983,NM_022809.2;CDC25C,intron_variant,,ENST00000415130,;CDC25C,intron_variant,,ENST00000514555,;CDC25C,intron_variant,,ENST00000514017,;CDC25C,downstream_gene_variant,,ENST00000503022,;"	"A"	"ENSG00000158402"	"ENST00000323760"	"Transcript"	"intron_variant"	"-/2128"	"-/1422"	"-/473"	""	""	"rs774550906"	"1"	NA	-1	"CDC25C"	"HGNC"	1727	"protein_coding"	"YES"	"CCDS4202.1"	"ENSP00000321656"	"P30307"	"D6RJC2"	"UPI000013E3D2"	"NM_001790.3,NM_001287582.1"	""	""	""	"10/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"8e7c59e8-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"2779"	"KIAA0141"	9812	"mskcc.org"	"GRCh37"	"5"	141303381	141303381	"+"	"5'UTR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-126A>G"	""	""	"ENST00000432126"	"1/12"	74	"52"	22	67	"67"	0	"KIAA0141,5_prime_UTR_variant,,ENST00000432126,NM_014773.3,NM_001142603.1;KIAA0141,upstream_gene_variant,,ENST00000194118,;KIAA0141,upstream_gene_variant,,ENST00000508751,;"	"G"	"ENSG00000081791"	"ENST00000432126"	"Transcript"	"5_prime_UTR_variant"	"9/4970"	"-/1548"	"-/515"	""	""	""	"1"	NA	1	"KIAA0141"	"HGNC"	28969	"protein_coding"	"YES"	"CCDS4268.1"	"ENSP00000396225"	"Q14154"	""	"UPI0000139350"	"NM_014773.3,NM_001142603.1"	""	""	"1/12"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"8e7c7b80-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297297297297297	"WXS"	FALSE
"2780"	"ULBP3"	79465	"mskcc.org"	"GRCh37"	"6"	150386117	150386117	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.629-268G>A"	""	""	"ENST00000367339"	""	19	"15"	4	10	"10"	0	"ULBP3,intron_variant,,ENST00000367339,;ULBP3,intron_variant,,ENST00000438272,NM_024518.1;"	"T"	"ENSG00000131019"	"ENST00000367339"	"Transcript"	"intron_variant"	"-/988"	"-/735"	"-/244"	""	""	""	"1"	NA	-1	"ULBP3"	"HGNC"	14895	"protein_coding"	"YES"	"CCDS5225.1"	"ENSP00000356308"	"Q9BZM4"	""	"UPI0000071255"	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"8e7faa80-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"2781"	"ANLN"	54443	"mskcc.org"	"GRCh37"	"7"	36459708	36459708	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1870-70A>G"	""	""	"ENST00000265748"	""	147	"139"	8	53	"53"	0	"ANLN,intron_variant,,ENST00000265748,NM_018685.2;ANLN,intron_variant,,ENST00000396068,NM_001284302.1,NM_001284301.1;ANLN,intron_variant,,ENST00000428612,;ANLN,upstream_gene_variant,,ENST00000446635,;ANLN,upstream_gene_variant,,ENST00000457743,;ANLN,downstream_gene_variant,,ENST00000495714,;ANLN,downstream_gene_variant,,ENST00000441696,;ANLN,downstream_gene_variant,,ENST00000452877,;"	"G"	"ENSG00000011426"	"ENST00000265748"	"Transcript"	"intron_variant"	"-/4787"	"-/3375"	"-/1124"	""	""	""	"1"	NA	1	"ANLN"	"HGNC"	14082	"protein_coding"	"YES"	"CCDS5447.1"	"ENSP00000265748"	"Q9NQW6"	"C9JJT6"	"UPI00001A95DE"	"NM_018685.2"	""	""	""	"10/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"8e8064c0-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.054421768707483	"WXS"	FALSE
"2782"	"CACNA2D1"	781	"mskcc.org"	"GRCh37"	"7"	81746107	81746107	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.526+253G>C"	""	""	"ENST00000356860"	""	12	"8"	4	10	"10"	0	"CACNA2D1,intron_variant,,ENST00000356860,NM_000722.2;CACNA2D1,intron_variant,,ENST00000356253,;CACNA2D1,intron_variant,,ENST00000423588,;CACNA2D1,downstream_gene_variant,,ENST00000484706,;"	"G"	"ENSG00000153956"	"ENST00000356860"	"Transcript"	"intron_variant"	"-/7563"	"-/3276"	"-/1091"	""	""	""	"1"	NA	-1	"CACNA2D1"	"HGNC"	1399	"protein_coding"	"YES"	"CCDS5598.1"	"ENSP00000349320"	"P54289"	"Q9UDU5,Q9UDQ3,Q9UDL7,O95026"	"UPI00003674CD"	"NM_000722.2"	""	""	""	"6/38"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"8e80d81a-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2783"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	157448903	157448903	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2196+146G>A"	""	""	"ENST00000389418"	""	30	"24"	6	24	"24"	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"T"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	""	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	""	""	""	"14/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"8e81f10a-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"2784"	"OSGIN2"	734	"mskcc.org"	"GRCh37"	"8"	90914821	90914821	"+"	"5'UTR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-201G>T"	""	""	"ENST00000451899"	"1/6"	2	"0"	2	19	"19"	0	"OSGIN2,5_prime_UTR_variant,,ENST00000451899,NM_001126111.1;OSGIN2,intron_variant,,ENST00000297438,NM_004337.2;OSGIN2,upstream_gene_variant,,ENST00000520659,;RNU6-925P,upstream_gene_variant,,ENST00000384629,;"	"T"	"ENSG00000164823"	"ENST00000451899"	"Transcript"	"5_prime_UTR_variant"	"60/4266"	"-/1650"	"-/549"	""	""	""	"1"	NA	1	"OSGIN2"	"HGNC"	1355	"protein_coding"	"YES"	"CCDS47888.1"	"ENSP00000396445"	"Q9Y236"	"E5RJZ3"	"UPI0000E5AF0B"	"NM_001126111.1"	""	""	"1/6"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"8e829aba-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"2785"	"PBX3"	5090	"mskcc.org"	"GRCh37"	"9"	128509063	128509063	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"rs140369825"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000373489"	""	5	"2"	3	10	"10"	0	"PBX3,upstream_gene_variant,,ENST00000373487,;PBX3,upstream_gene_variant,,ENST00000342287,;PBX3,upstream_gene_variant,,ENST00000373489,NM_006195.5;PBX3,upstream_gene_variant,,ENST00000447726,NM_001134778.1;PBX3,upstream_gene_variant,,ENST00000373483,;PBX3,upstream_gene_variant,,ENST00000491787,;RP11-423C15.3,upstream_gene_variant,,ENST00000606827,;RP11-423C15.3,upstream_gene_variant,,ENST00000444800,;PBX3,upstream_gene_variant,,ENST00000497091,;PBX3,upstream_gene_variant,,ENST00000373482,;PBX3,upstream_gene_variant,,ENST00000373492,;PBX3,upstream_gene_variant,,ENST00000492314,;"	"A"	"ENSG00000167081"	"ENST00000373489"	"Transcript"	"upstream_gene_variant"	"-/2502"	"-/1305"	"-/434"	""	""	"rs140369825"	"1"	"654"	1	"PBX3"	"HGNC"	8634	"protein_coding"	"YES"	"CCDS6865.1"	"ENSP00000362588"	"P40426"	"U3KQA2"	"UPI00001313B3"	"NM_006195.5"	""	""	""	""	""	"A:0.0705"	"A:0.2466"	"A:0.0288"	NA	"A:0"	"A:0.004"	"A:0.0031"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"8e8403f0-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"2786"	"LCN8"	138307	"mskcc.org"	"GRCh37"	"9"	139648693	139648693	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHCCPT5"	"JHCCN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371688"	""	91	"66"	25	44	"44"	0	"LCN8,downstream_gene_variant,,ENST00000371688,NM_178469.3;LCN8,downstream_gene_variant,,ENST00000482893,;LCN8,downstream_gene_variant,,ENST00000479767,;LCN8,downstream_gene_variant,,ENST00000480597,;"	"A"	"ENSG00000204001"	"ENST00000371688"	"Transcript"	"downstream_gene_variant"	"-/867"	"-/459"	"-/152"	""	""	""	"1"	"145"	-1	"LCN8"	"HGNC"	27038	"protein_coding"	"YES"	"CCDS35183.1"	"ENSP00000360753"	"Q6JVE9"	""	"UPI00000498C5"	"NM_178469.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"8e84871c-2834-11e6-b898-8e3f424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274725274725275	"WXS"	FALSE
"2787"	"AGRN"	375790	"mskcc.org"	"GRCh37"	"1"	976482	976492	"+"	"Intron"	"DEL"	"GGAGCGGGGCG"	"GGAGCGGGGCG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GGAGCGGGGCG"	"GGAGCGGGGCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.728-51_728-41delCGGGAGCGGGG"	""	""	"ENST00000379370"	""	9	"."	3	3	"."	0	"AGRN,intron_variant,,ENST00000379370,NM_198576.3;AGRN,downstream_gene_variant,,ENST00000477585,;AGRN,intron_variant,,ENST00000469403,;AGRN,upstream_gene_variant,,ENST00000479707,;"	"-"	"ENSG00000188157"	"ENST00000379370"	"Transcript"	"intron_variant"	"-/7323"	"-/6138"	"-/2045"	""	""	""	"1"	NA	1	"AGRN"	"HGNC"	329	"protein_coding"	"YES"	"CCDS30551.1"	"ENSP00000368678"	"O00468"	"Q5XG79"	"UPI00001D7C8B"	"NM_198576.3"	NA	NA	""	"4/35"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCGGAGCGGGGCGG"	"64bd2756-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2788"	"CDK11B"	984	"mskcc.org"	"GRCh37"	"1"	1585272	1585279	"+"	"Intron"	"DEL"	"ACACACAC"	"ACACACAC"	"-"	"rs766788309"	NA	"JHCCPT5"	"JHCCPN5"	"ACACACAC"	"ACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.227+1544_227+1551delGTGTGTGT"	""	""	"ENST00000407249"	""	22	"."	6	2	"."	0	"CDK11B,intron_variant,,ENST00000407249,;CDK11B,intron_variant,,ENST00000317673,;CDK11B,intron_variant,,ENST00000340677,;CDK11B,intron_variant,,ENST00000341832,;CDK11B,upstream_gene_variant,,ENST00000513088,;CDK11B,downstream_gene_variant,,ENST00000341028,;"	"-"	"ENSG00000248333"	"ENST00000407249"	"Transcript"	"intron_variant"	"-/2384"	"-/2358"	"-/785"	""	""	"rs766788309"	"1"	NA	-1	"CDK11B"	"HGNC"	1729	"protein_coding"	"YES"	""	"ENSP00000464036"	""	"Q6P5Y5,Q5QPQ9,J3QR44,A4VCI5"	"UPI0000D61E1A"	""	NA	NA	""	"2/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATACACACACA"	"66076248-280f-11e6-851e-0cd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2789"	"CDK11A"	984	"mskcc.org"	"GRCh37"	"1"	1633003	1633004	"+"	"3'Flank"	"INS"	"-"	"-"	"G"	"rs372203947"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000404249"	""	88	"."	5	17	"."	0	"CDK11A,downstream_gene_variant,,ENST00000356200,;CDK11A,downstream_gene_variant,,ENST00000378633,;CDK11A,downstream_gene_variant,,ENST00000404249,NM_024011.2,NM_033486.1;CDK11A,downstream_gene_variant,,ENST00000357760,NM_033492.1;CDK11A,downstream_gene_variant,,ENST00000378638,NM_033489.1;CDK11A,downstream_gene_variant,,ENST00000358779,NM_033529.2,NM_033493.1,NM_033488.1;CDK11A,downstream_gene_variant,,ENST00000378635,;RP1-283E3.8,downstream_gene_variant,,ENST00000598846,;CDK11A,downstream_gene_variant,,ENST00000495016,;CDK11A,downstream_gene_variant,,ENST00000460465,;CDK11A,downstream_gene_variant,,ENST00000509982,;CDK11A,downstream_gene_variant,,ENST00000356937,;CDK11A,downstream_gene_variant,,ENST00000463652,;CDK11A,downstream_gene_variant,,ENST00000492390,;CDK11A,downstream_gene_variant,,ENST00000478901,;CDK11A,downstream_gene_variant,,ENST00000468800,;CDK11A,downstream_gene_variant,,ENST00000468397,;CDK11A,downstream_gene_variant,,ENST00000474916,;CDK11A,downstream_gene_variant,,ENST00000491311,;CDK11A,downstream_gene_variant,,ENST00000489300,;CDK11A,downstream_gene_variant,,ENST00000464748,;MMP23A,intron_variant,,ENST00000412810,;MMP23A,intron_variant,,ENST00000234610,;"	"G"	"ENSG00000008128"	"ENST00000404249"	"Transcript"	"downstream_gene_variant"	"-/2449"	"-/2343"	"-/780"	""	""	"rs372203947"	"1"	"1316"	-1	"CDK11A"	"HGNC"	1730	"protein_coding"	"YES"	"CCDS44042.1"	"ENSP00000384442"	"Q9UQ88"	"Q5QPQ9,Q4VBY6"	"UPI000022B1E1"	"NM_024011.2,NM_033486.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	"0.03149"	"0.0257"	"0.05823"	"0.0375"	"0.03176"	"0.03001"	"0.03846"	"0.01686"	NA	"common_variant"	"GCG"	"a339bfc6-280f-11e6-851e-0cd4414a729f"	"51"	0.02869	"808/28168"	"2603/82670"	"35/1362"	"157/2696"	"51/1360"	"27/850"	"375/12496"	"8/208"	"155/9196"	"PASS"	"FALSE"	0.0568181818181818	"WXS"	FALSE
"2790"	"C1orf222"	85452	"mskcc.org"	"GRCh37"	"1"	1880358	1880359	"+"	"Intron"	"INS"	"-"	"-"	"CCTTCCTTCCTCTTTCCCTCCCTTCTTTCCTTCCCTTTCCCTCCCTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.26-1866_26-1865insGAGGGAGGGAAAGGGAAGGAAAGAAGGGAGGGAAAGAGGAAGGAAGG"	""	""	"ENST00000493964"	""	34	"."	3	10	"."	0	"C1orf222,intron_variant,,ENST00000493964,;C1orf222,intron_variant,,ENST00000493316,;C1orf222,downstream_gene_variant,,ENST00000270720,;"	"CCTTCCTTCCTCTTTCCCTCCCTTCTTTCCTTCCCTTTCCCTCCCTC"	"ENSG00000142609"	"ENST00000493964"	"Transcript"	"intron_variant"	"-/2604"	"-/2604"	"-/867"	""	""	""	"1"	NA	-1	"C1orf222"	"HGNC"	27917	"protein_coding"	"YES"	""	"ENSP00000417061"	""	"H7C4E1"	"UPI0001B798B8"	""	NA	NA	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"a3591326-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WXS"	FALSE
"2791"	"C1orf222"	85452	"mskcc.org"	"GRCh37"	"1"	1900364	1900432	"+"	"5'Flank"	"DEL"	"CCCTCCTGGGGGCTCCGGTCCTGCCCAGCAGCCCCAGGTGAGACAGCGCCTGGCGGCCCCTCCCTAGCT"	"CCCTCCTGGGGGCTCCGGTCCTGCCCAGCAGCCCCAGGTGAGACAGCGCCTGGCGGCCCCTCCCTAGCT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CCCTCCTGGGGGCTCCGGTCCTGCCCAGCAGCCCCAGGTGAGACAGCGCCTGGCGGCCCCTCCCTAGCT"	"CCCTCCTGGGGGCTCCGGTCCTGCCCAGCAGCCCCAGGTGAGACAGCGCCTGGCGGCCCCTCCCTAGCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000604159"	""	23	"."	5	9	"."	0	"C1orf222,upstream_gene_variant,,ENST00000604159,NM_001080484.1;C1orf222,intron_variant,,ENST00000270720,;C1orf222,intron_variant,,ENST00000468610,;"	"-"	"ENSG00000142609"	"ENST00000604159"	"Transcript"	"upstream_gene_variant"	"-/516"	"-/516"	"-/172"	""	""	""	"1"	"2399"	-1	"C1orf222"	"HGNC"	27917	"protein_coding"	""	""	"ENSP00000473959"	"Q9C0B2"	"S4R361"	"UPI000333519F"	"NM_001080484.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCCCTCCTGGGGGCTCCGGTCCTGCCCAGCAGCCCCAGGTGAGACAGCGCCTGGCGGCCCCTCCCTAGCTC"	"66833c42-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WXS"	FALSE
"2792"	"DFFB"	1677	"mskcc.org"	"GRCh37"	"1"	3785114	3785115	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs70940335"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.510+497_510+498insT"	""	""	"ENST00000378209"	""	6	"."	4	1	"."	0	"DFFB,intron_variant,,ENST00000378209,NM_004402.2;DFFB,intron_variant,,ENST00000338895,;DFFB,downstream_gene_variant,,ENST00000378212,;DFFB,intron_variant,,ENST00000491998,;DFFB,intron_variant,,ENST00000339350,;DFFB,intron_variant,,ENST00000468793,;DFFB,intron_variant,,ENST00000477548,;DFFB,intron_variant,,ENST00000378206,NM_001282669.1;DFFB,intron_variant,,ENST00000475969,;DFFB,intron_variant,,ENST00000481945,;"	"T"	"ENSG00000169598"	"ENST00000378209"	"Transcript"	"intron_variant"	"-/3028"	"-/1017"	"-/338"	""	""	"rs70940335"	"1"	NA	1	"DFFB"	"HGNC"	2773	"protein_coding"	"YES"	"CCDS52.1"	"ENSP00000367454"	"O76075"	"Q96P72"	"UPI000006230F"	"NM_004402.2"	NA	NA	""	"4/6"	""	"-:0.4639"	"T:0.6657"	"T:0.4582"	NA	"T:0.3423"	"T:0.6143"	"T:0.5358"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"a3ba7b0c-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2793"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	4909280	4909281	"+"	"IGR"	"INS"	"-"	"-"	"CATC"	"rs144518555"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	3	"."	0	""	"CATC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144518555"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"a3d56052-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2794"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	5375604	5375605	"+"	"IGR"	"INS"	"-"	"-"	"AAAGAA"	"rs71564532"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	3	2	"."	0	""	"AAAGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71564532"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"a3db9602-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2795"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	5857134	5857135	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs34835968"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34835968"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3245"	"A:0.2927"	"A:0.2925"	NA	"A:0.3651"	"A:0.2604"	"A:0.4141"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"a3e34c6c-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2796"	"ZBTB48"	3104	"mskcc.org"	"GRCh37"	"1"	6640437	6640437	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs5772241"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-69-163delC"	""	""	"ENST00000377674"	""	10	"."	3	8	"."	0	"ZBTB48,intron_variant,,ENST00000377674,NM_001278648.1,NM_001278647.1,NM_005341.3;ZBTB48,intron_variant,,ENST00000319084,;ZBTB48,intron_variant,,ENST00000435905,;ZBTB48,intron_variant,,ENST00000488936,;TAS1R1,downstream_gene_variant,,ENST00000333172,NM_138697.3;TAS1R1,downstream_gene_variant,,ENST00000328191,;TAS1R1,downstream_gene_variant,,ENST00000351136,NM_177540.2;TAS1R1,downstream_gene_variant,,ENST00000411823,;TAS1R1,downstream_gene_variant,,ENST00000415267,;ZBTB48,upstream_gene_variant,,ENST00000482360,;"	"-"	"ENSG00000204859"	"ENST00000377674"	"Transcript"	"intron_variant"	"-/2293"	"-/2067"	"-/688"	""	""	"rs5772241"	"1"	NA	1	"ZBTB48"	"HGNC"	4930	"protein_coding"	"YES"	"CCDS84.1"	"ENSP00000366902"	"P10074"	"Q6LCP1,Q5SY21,Q5SY20,K7EM76"	"UPI000012C932"	"NM_001278648.1,NM_001278647.1,NM_005341.3"	NA	NA	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCC"	"6808d25c-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"2797"	"CAMTA1"	23261	"mskcc.org"	"GRCh37"	"1"	7610887	7610887	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs59909650"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.510+82930delC"	""	""	"ENST00000303635"	""	9	"."	4	2	"."	0	"CAMTA1,intron_variant,,ENST00000303635,NM_015215.2;CAMTA1,intron_variant,,ENST00000439411,;"	"-"	"ENSG00000171735"	"ENST00000303635"	"Transcript"	"intron_variant"	"-/8444"	"-/5022"	"-/1673"	""	""	"rs59909650"	"1"	NA	1	"CAMTA1"	"HGNC"	18806	"protein_coding"	"YES"	"CCDS30576.1"	"ENSP00000306522"	"Q9Y6Y1"	""	"UPI00001C1D72"	"NM_015215.2"	NA	NA	""	"6/22"	""	"-:0.3656"	"-:0.23"	"-:0.562"	NA	"-:0.2698"	"-:0.495"	"-:0.3753"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGCC"	"682706c8-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	TRUE
"2798"	"CAMTA1"	23261	"mskcc.org"	"GRCh37"	"1"	7615675	7615675	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs34320937"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.511-84784delG"	""	""	"ENST00000303635"	""	7	"."	4	1	"."	0	"CAMTA1,intron_variant,,ENST00000303635,NM_015215.2;CAMTA1,intron_variant,,ENST00000439411,;"	"-"	"ENSG00000171735"	"ENST00000303635"	"Transcript"	"intron_variant"	"-/8444"	"-/5022"	"-/1673"	""	""	"rs34320937"	"1"	NA	1	"CAMTA1"	"HGNC"	18806	"protein_coding"	"YES"	"CCDS30576.1"	"ENSP00000306522"	"Q9Y6Y1"	""	"UPI00001C1D72"	"NM_015215.2"	NA	NA	""	"6/22"	""	"G:0.3992"	"-:0.4766"	"-:0.5663"	NA	"-:0.5506"	"-:0.6849"	"-:0.7587"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAGG"	"68289dee-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	TRUE
"2799"	"ENO1"	2023	"mskcc.org"	"GRCh37"	"1"	8927611	8927612	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.311-303_311-302delAT"	""	""	"ENST00000234590"	""	41	"."	3	8	"."	0	"ENO1,intron_variant,,ENST00000234590,NM_001428.3;ENO1,intron_variant,,ENST00000497492,;ENO1,intron_variant,,ENST00000464920,;ENO1,downstream_gene_variant,,ENST00000492343,;ENO1,downstream_gene_variant,,ENST00000486051,;"	"-"	"ENSG00000074800"	"ENST00000234590"	"Transcript"	"intron_variant"	"-/1783"	"-/1305"	"-/434"	""	""	""	"1"	NA	-1	"ENO1"	"HGNC"	3350	"protein_coding"	"YES"	"CCDS97.1"	"ENSP00000234590"	"P06733"	"Q9BT62,Q96GV1,K7EM90,E2DRY6,A4UCS8"	"UPI000013C9AF"	"NM_001428.3"	NA	NA	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAATT"	"689ef728-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WXS"	FALSE
"2800"	"CLSTN1"	22883	"mskcc.org"	"GRCh37"	"1"	9815024	9815024	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs138835664"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.440+148delA"	""	""	"ENST00000377298"	""	14	"."	5	4	"."	0	"CLSTN1,intron_variant,,ENST00000377298,NM_001009566.1;CLSTN1,intron_variant,,ENST00000377288,;CLSTN1,intron_variant,,ENST00000361311,NM_014944.3;CLSTN1,upstream_gene_variant,,ENST00000435891,;CLSTN1,upstream_gene_variant,,ENST00000464286,;"	"-"	"ENSG00000171603"	"ENST00000377298"	"Transcript"	"intron_variant"	"-/5221"	"-/2946"	"-/981"	""	""	"rs138835664"	"1"	NA	-1	"CLSTN1"	"HGNC"	17447	"protein_coding"	"YES"	"CCDS30580.1"	"ENSP00000366513"	"O94985"	""	"UPI0000127B95"	"NM_001009566.1"	NA	NA	""	"4/18"	""	"-:0.0100"	"-:0.0008"	"-:0.0115"	NA	"-:0"	"-:0.0378"	"-:0.0031"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"68eddc3a-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"2801"	"CASZ1"	54897	"mskcc.org"	"GRCh37"	"1"	10831715	10831717	"+"	"Intron"	"DEL"	"TCC"	"TCC"	"-"	"rs34581008"	NA	"JHCCPT5"	"JHCCPN5"	"TCC"	"TCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-233-10803_-233-10801delGGA"	""	""	"ENST00000377022"	""	17	"."	4	7	"."	0	"CASZ1,intron_variant,,ENST00000377022,NM_001079843.2;CASZ1,intron_variant,,ENST00000344008,NM_017766.4;"	"-"	"ENSG00000130940"	"ENST00000377022"	"Transcript"	"intron_variant"	"-/7936"	"-/5280"	"-/1759"	""	""	"rs34581008"	"1"	NA	-1	"CASZ1"	"HGNC"	26002	"protein_coding"	"YES"	"CCDS41246.1"	"ENSP00000366221"	"Q86V15"	""	"UPI0000EBB7D6"	"NM_001079843.2"	NA	NA	""	"1/20"	""	"TCC:0.4141"	"-:0.5454"	"-:0.621"	NA	"-:0.379"	"-:0.7724"	"-:0.637"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCCT"	"69bca15a-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"2802"	"CASZ1"	54897	"mskcc.org"	"GRCh37"	"1"	10856514	10856514	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs71583894"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-234+107delC"	""	""	"ENST00000377022"	""	17	"."	3	3	"."	0	"CASZ1,intron_variant,,ENST00000377022,NM_001079843.2;CASZ1,intron_variant,,ENST00000344008,NM_017766.4;"	"-"	"ENSG00000130940"	"ENST00000377022"	"Transcript"	"intron_variant"	"-/7936"	"-/5280"	"-/1759"	""	""	"rs71583894"	"1"	NA	-1	"CASZ1"	"HGNC"	26002	"protein_coding"	"YES"	"CCDS41246.1"	"ENSP00000366221"	"Q86V15"	""	"UPI0000EBB7D6"	"NM_001079843.2"	NA	NA	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"69c04292-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"2803"	"C1orf127"	148345	"mskcc.org"	"GRCh37"	"1"	11039049	11039049	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs33999286"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.27-2736delA"	""	""	"ENST00000377004"	""	6	"."	3	1	"."	0	"C1orf127,intron_variant,,ENST00000377004,NM_001170754.1;C1orf127,intron_variant,,ENST00000377008,;C1orf127,upstream_gene_variant,,ENST00000520253,;"	"-"	"ENSG00000175262"	"ENST00000377004"	"Transcript"	"intron_variant"	"-/2761"	"-/2472"	"-/823"	""	""	"rs33999286"	"1"	NA	-1	"C1orf127"	"HGNC"	26730	"protein_coding"	"YES"	"CCDS53267.1"	"ENSP00000366203"	""	"G8JLG8,B7ZLG7"	"UPI0001C0B385"	"NM_001170754.1"	NA	NA	""	"1/12"	""	"-:0.3848"	"-:0.7489"	"-:0.2795"	NA	"-:0.2917"	"-:0.2376"	"-:0.2147"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTT"	"69ca1c04-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2804"	"PTCHD2"	57540	"mskcc.org"	"GRCh37"	"1"	11559787	11559790	"+"	"Intron"	"DEL"	"TCTC"	"TCTC"	"-"	"rs58242122"	NA	"JHCCPT5"	"JHCCPN5"	"TCTC"	"TCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-3-1256_-3-1253delTCTC"	""	""	"ENST00000294484"	""	13	"."	4	3	"."	0	"PTCHD2,intron_variant,,ENST00000294484,NM_020780.1;PTCHD2,intron_variant,,ENST00000389575,;"	"-"	"ENSG00000204624"	"ENST00000294484"	"Transcript"	"intron_variant"	"-/5215"	"-/4179"	"-/1392"	""	""	"rs58242122"	"1"	NA	1	"PTCHD2"	"HGNC"	29251	"protein_coding"	"YES"	"CCDS41247.1"	"ENSP00000294484"	"Q9P2K9"	""	"UPI00001C1D7A"	"NM_020780.1"	NA	NA	""	"1/20"	""	"-:0.1831"	"-:0.4085"	"-:0.0764"	NA	"-:0.0476"	"-:0.0577"	"-:0.2229"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTCTCT"	"6a023490-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"2805"	"KAZN"	23254	"mskcc.org"	"GRCh37"	"1"	15046461	15046465	"+"	"Intron"	"DEL"	"TGGAG"	"TGGAG"	"-"	"rs150216700"	NA	"JHCCPT5"	"JHCCPN5"	"TGGAG"	"TGGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.226+120751_226+120755delGTGGA"	""	""	"ENST00000376030"	""	12	"."	7	5	"."	0	"KAZN,intron_variant,,ENST00000376030,NM_201628.2;KAZN,intron_variant,,ENST00000422387,NM_015209.2;KAZN,intron_variant,,ENST00000503743,;KAZN,intron_variant,,ENST00000491547,;"	"-"	"ENSG00000189337"	"ENST00000376030"	"Transcript"	"intron_variant"	"-/6030"	"-/2328"	"-/775"	""	""	"rs150216700"	"1"	NA	1	"KAZN"	"HGNC"	29173	"protein_coding"	"YES"	"CCDS152.2"	"ENSP00000365198"	"Q674X7"	"B4DEV2,B0QYQ6"	"UPI0000E1E68A"	"NM_201628.2"	NA	NA	""	"1/14"	""	"-:0.2288"	"-:0.1868"	"-:0.281"	NA	"-:0.2103"	"-:0.3072"	"-:0.1871"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATGGAGT"	"6b34b6bc-280f-11e6-851e-0cd4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"2806"	"KAZN"	23254	"mskcc.org"	"GRCh37"	"1"	15377316	15377317	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs5772615"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.727-5271_727-5270insA"	""	""	"ENST00000376030"	""	12	"."	4	2	"."	0	"KAZN,intron_variant,,ENST00000376030,NM_201628.2;KAZN,intron_variant,,ENST00000422387,NM_015209.2;KAZN,intron_variant,,ENST00000361144,NM_001018000.3;KAZN,intron_variant,,ENST00000400798,NM_001018001.2;KAZN,intron_variant,,ENST00000503743,;KAZN,intron_variant,,ENST00000400797,NM_001017999.2;KAZN,intron_variant,,ENST00000376028,;KAZN,intron_variant,,ENST00000491547,;"	"A"	"ENSG00000189337"	"ENST00000376030"	"Transcript"	"intron_variant"	"-/6030"	"-/2328"	"-/775"	""	""	"rs5772615"	"1"	NA	1	"KAZN"	"HGNC"	29173	"protein_coding"	"YES"	"CCDS152.2"	"ENSP00000365198"	"Q674X7"	"B4DEV2,B0QYQ6"	"UPI0000E1E68A"	"NM_201628.2"	NA	NA	""	"4/14"	""	"A:0.4024"	"A:0.4924"	"A:0.2219"	NA	"A:0.7143"	"A:0.1829"	"A:0.3129"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"a5336e08-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2807"	"RP4-680D5.2"	0	"mskcc.org"	"GRCh37"	"1"	15921663	15921664	"+"	"Intron"	"INS"	"-"	"ACAAA"	"ACAAA"	"rs112592181"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.539-6727_539-6726insTTTGT"	""	""	"ENST00000428945"	""	7	"."	5	1	"."	0	"RP4-680D5.2,intron_variant,,ENST00000428945,;DNAJC16,downstream_gene_variant,,ENST00000483270,;"	"ACAAA"	"ENSG00000237301"	"ENST00000428945"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2845"	""	""	""	""	"rs112592181"	"1"	NA	-1	"RP4-680D5.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"a5783bdc-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2808"	"PLEKHM2"	23207	"mskcc.org"	"GRCh37"	"1"	16056542	16056556	"+"	"Intron"	"DEL"	"GGGCGGGGCGGGGCG"	"GGGCGGGGCGGGGCG"	"-"	"rs145985905"	NA	"JHCCPT5"	"JHCCPN5"	"GGGCGGGGCGGGGCG"	"GGGCGGGGCGGGGCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2208+137_2208+151delGGGGCGGGGCGGGGC"	""	""	"ENST00000375799"	""	12	"."	5	4	"."	0	"PLEKHM2,intron_variant,,ENST00000375799,NM_015164.2;PLEKHM2,intron_variant,,ENST00000375793,;RP11-288I21.1,intron_variant,,ENST00000453804,;PLEKHM2,intron_variant,,ENST00000477849,;"	"-"	"ENSG00000116786"	"ENST00000375799"	"Transcript"	"intron_variant"	"-/4122"	"-/3060"	"-/1019"	""	""	"rs145985905"	"1"	NA	1	"PLEKHM2"	"HGNC"	29131	"protein_coding"	"YES"	"CCDS44063.1"	"ENSP00000364956"	"Q8IWE5"	""	"UPI00001C1D9C"	"NM_015164.2"	NA	NA	""	"14/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"19"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGGGCGGGGCGGGGCGG"	"6b98dda4-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"2809"	"SPEN"	23013	"mskcc.org"	"GRCh37"	"1"	16207482	16207483	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.881+4319dupT"	""	""	"ENST00000375759"	""	10	"."	5	1	"."	0	"SPEN,intron_variant,,ENST00000375759,NM_015001.2;SPEN,intron_variant,,ENST00000438066,;SPEN,intron_variant,,ENST00000442985,;SPEN,downstream_gene_variant,,ENST00000471538,;"	"T"	"ENSG00000065526"	"ENST00000375759"	"Transcript"	"intron_variant"	"-/12232"	"-/10995"	"-/3664"	""	""	""	"1"	NA	1	"SPEN"	"HGNC"	17575	"protein_coding"	"YES"	"CCDS164.1"	"ENSP00000364912"	"Q96T58"	""	"UPI000006FF0C"	"NM_015001.2"	NA	NA	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"a580a0a6-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	TRUE
"2810"	"CLCNKA"	1187	"mskcc.org"	"GRCh37"	"1"	16363393	16363412	"+"	"3'Flank"	"DEL"	"TCAGTGCACCATGATCTCCA"	"TCAGTGCACCATGATCTCCA"	"-"	"rs147696321"	NA	"JHCCPT5"	"JHCCPN5"	"TCAGTGCACCATGATCTCCA"	"TCAGTGCACCATGATCTCCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000331433"	""	19	"."	5	14	"."	0	"CLCNKA,downstream_gene_variant,,ENST00000375692,;CLCNKA,downstream_gene_variant,,ENST00000420078,NM_004070.3,NM_001042704.1,NM_001257139.1;CLCNKA,downstream_gene_variant,,ENST00000331433,;CLCNKA,downstream_gene_variant,,ENST00000439316,;CLCNKA,downstream_gene_variant,,ENST00000464764,;RP11-5P18.10,intron_variant,,ENST00000447882,;"	"-"	"ENSG00000186510"	"ENST00000331433"	"Transcript"	"downstream_gene_variant"	"-/2475"	"-/2064"	"-/687"	""	""	"rs147696321"	"1"	"2848"	1	"CLCNKA"	"HGNC"	2026	"protein_coding"	"YES"	"CCDS167.1"	"ENSP00000332771"	"P51800"	""	"UPI0000127993"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCTCAGTGCACCATGATCTCCAT"	"6bf64bba-280f-11e6-851e-0cd4414a729f"	"261"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"2811"	"CLCNKB"	1188	"mskcc.org"	"GRCh37"	"1"	16382828	16382834	"+"	"Intron"	"DEL"	"TCTTCCT"	"TCTTCCT"	"ACCA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TCTTCCT"	"TCTTCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1930-89_1930-83delTCTTCCTinsACCA"	""	""	"ENST00000375679"	""	409	"."	102	200	"."	0	"CLCNKB,intron_variant,,ENST00000375679,NM_000085.4;CLCNKB,intron_variant,,ENST00000375667,NM_001165945.2;CLCNKB,intron_variant,,ENST00000431772,;FAM131C,downstream_gene_variant,,ENST00000375662,NM_182623.2;FAM131C,downstream_gene_variant,,ENST00000494078,;"	"ACCA"	"ENSG00000184908"	"ENST00000375679"	"Transcript"	"intron_variant"	"-/2567"	"-/2064"	"-/687"	""	""	""	"1"	NA	1	"CLCNKB"	"HGNC"	2027	"protein_coding"	"YES"	"CCDS168.1"	"ENSP00000364831"	"P51801"	""	"UPI000040E261"	"NM_000085.4"	NA	NA	""	"18/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCTCTTCCTG"	"a1ac090c-280f-11e6-851e-0cd4414a729f"	"6120"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.249388753056235	"WXS"	FALSE
"2812"	"NBPF1"	55672	"mskcc.org"	"GRCh37"	"1"	16890788	16890796	"+"	"Intron"	"DEL"	"TAGATCCAT"	"TAGATCCAT"	"-"	"rs111418886"	NA	"JHCCPT5"	"JHCCPN5"	"TAGATCCAT"	"TAGATCCAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3177-115_3177-107delATGGATCTA"	""	""	"ENST00000430580"	""	19	"."	6	10	"."	0	"NBPF1,intron_variant,,ENST00000430580,NM_017940.4;NBPF1,downstream_gene_variant,,ENST00000432949,;NBPF1,downstream_gene_variant,,ENST00000287968,;NBPF1,downstream_gene_variant,,ENST00000420031,;NBPF1,downstream_gene_variant,,ENST00000392963,;"	"-"	"ENSG00000219481"	"ENST00000430580"	"Transcript"	"intron_variant"	"-/5932"	"-/3420"	"-/1139"	""	""	"rs111418886"	"1"	NA	-1	"NBPF1"	"HGNC"	26088	"protein_coding"	"YES"	""	"ENSP00000474456"	""	"S4R3W5,S4R3K2,S4R3H5,Q3BBU8"	"UPI0000E04FDF"	"NM_017940.4"	NA	NA	""	"28/28"	""	"-:0.4507"	"-:0.3684"	"-:0.5043"	NA	"-:0.4464"	"-:0.4811"	"-:0.4969"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATAGATCCATT"	"6c477a12-280f-11e6-851e-0cd4414a729f"	"243"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WXS"	FALSE
"2813"	"CROCCP2"	84809	"mskcc.org"	"GRCh37"	"1"	16959732	16959733	"+"	"RNA"	"INS"	"-"	"-"	"GGGCCTGCAGCA"	"rs112000683"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.265_266insTGCTGCAGGCCC"	""	""	"ENST00000362058"	"3/6"	28	"."	4	10	"."	0	"CROCCP2,intron_variant,,ENST00000412962,;CROCCP2,upstream_gene_variant,,ENST00000540383,;CROCCP2,non_coding_transcript_exon_variant,,ENST00000362058,;"	"GGGCCTGCAGCA"	"ENSG00000215908"	"ENST00000362058"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"265-266/2029"	""	""	""	""	"rs112000683"	"1"	NA	-1	"CROCCP2"	"HGNC"	28170	"retained_intron"	"YES"	""	""	""	""	""	""	NA	NA	"3/6"	""	""	"GGGCCTGCAGCA:0.3868"	"GGGCCTGCAGCA:0.4644"	"GGGCCTGCAGCA:0.3818"	NA	"GGGCCTGCAGCA:0.3363"	"GGGCCTGCAGCA:0.3439"	"GGGCCTGCAGCA:0.3814"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"a5bea072-280f-11e6-851e-0cd4414a729f"	"212"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"2814"	"ESPNP"	284729	"mskcc.org"	"GRCh37"	"1"	17018940	17018964	"+"	"Intron"	"DEL"	"GGCGGGGAGGCGCGGCGGGCCGGCG"	"GGCGGGGAGGCGCGGCGGGCCGGCG"	"-"	"rs751441826"	NA	"JHCCPT5"	"JHCCPN5"	"GGCGGGGAGGCGCGGCGGGCCGGCG"	"GGCGGGGAGGCGCGGCGGGCCGGCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1939-1175_1939-1151delCGCCGGCCCGCCGCGCCTCCCCGCC"	""	""	"ENST00000270691"	""	21	"."	6	9	"."	0	"ESPNP,intron_variant,,ENST00000492551,;ESPNP,upstream_gene_variant,,ENST00000414828,;ESPNP,intron_variant,,ENST00000270691,;"	"-"	"ENSG00000268869"	"ENST00000270691"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2015"	""	""	""	""	"rs751441826"	"1"	NA	-1	"ESPNP"	"HGNC"	23285	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"10/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCGGCGGGGAGGCGCGGCGGGCCGGCGG"	"6c7d9d54-280f-11e6-851e-0cd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"2815"	"MST1L"	0	"mskcc.org"	"GRCh37"	"1"	17082697	17082697	"+"	"RNA"	"DEL"	"C"	"C"	"-"	"rs202082001"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.3085delG"	""	""	"ENST00000389184"	"20/20"	10	"."	4	2	"."	0	"MST1L,non_coding_transcript_exon_variant,,ENST00000455405,;CROCC,intron_variant,,ENST00000466256,;MST1L,downstream_gene_variant,,ENST00000544155,;MST1L,downstream_gene_variant,,ENST00000545160,;MST1L,non_coding_transcript_exon_variant,,ENST00000389184,;MST1L,downstream_gene_variant,,ENST00000442552,;"	"-"	"ENSG00000186715"	"ENST00000389184"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"3085/4377"	""	""	""	""	"rs202082001"	"1"	NA	-1	"MST1L"	"HGNC"	7390	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"20/20"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCA"	"6cd4ab9e-280f-11e6-851e-0cd4414a729f"	"137"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2816"	"U1"	440570	"mskcc.org"	"GRCh37"	"1"	17200206	17200207	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs57069045"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2164-10dupT"	""	""	"ENST00000438002"	""	12	"."	3	4	"."	0	"U1,non_coding_transcript_exon_variant,,ENST00000451828,;U1,non_coding_transcript_exon_variant,,ENST00000362684,;U1,intron_variant,,ENST00000438002,;U1,intron_variant,,ENST00000453554,;U1,intron_variant,,ENST00000457856,;CROCC,intron_variant,,ENST00000466256,;"	"T"	"ENSG00000228549"	"ENST00000438002"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2520"	""	""	""	""	"rs57069045"	"1"	NA	1	"U1"	"RFAM"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"a60dd98a-280f-11e6-851e-0cd4414a729f"	"75"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2817"	"RCC2"	55920	"mskcc.org"	"GRCh37"	"1"	17731724	17731727	"+"	"3'Flank"	"DEL"	"AAAC"	"AAAC"	"-"	"rs138160381"	NA	"JHCCPT5"	"JHCCPN5"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000375436"	""	8	"."	4	2	"."	0	"RCC2,downstream_gene_variant,,ENST00000375436,NM_018715.3;RCC2,downstream_gene_variant,,ENST00000375433,NM_001136204.2;RP1-20B21.4,upstream_gene_variant,,ENST00000439577,;PADI6,downstream_gene_variant,,ENST00000434762,;PADI6,downstream_gene_variant,,ENST00000358481,;RCC2,downstream_gene_variant,,ENST00000474892,;"	"-"	"ENSG00000179051"	"ENST00000375436"	"Transcript"	"downstream_gene_variant"	"-/4087"	"-/1569"	"-/522"	""	""	"rs138160381"	"1"	"1529"	-1	"RCC2"	"HGNC"	30297	"protein_coding"	"YES"	"CCDS181.1"	"ENSP00000364585"	"Q9P258"	""	"UPI0000074608"	"NM_018715.3"	NA	NA	""	""	""	"AAAC:0.3660"	"-:0.6906"	"-:0.6513"	NA	"-:0.5456"	"-:0.6103"	"-:0.6605"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAACA"	"6d3ef2e2-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2818"	"MINOS1"	440574	"mskcc.org"	"GRCh37"	"1"	19935118	19935119	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs138778783"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.64+11522dupA"	""	""	"ENST00000322753"	""	52	"."	15	11	"."	0	"MINOS1,intron_variant,,ENST00000322753,NM_001032363.3,NM_001204083.1,NM_001204082.1;MINOS1-NBL1,intron_variant,,ENST00000602662,NM_001204089.1;MINOS1-NBL1,intron_variant,,ENST00000602293,;MINOS1,intron_variant,,ENST00000486890,;MINOS1,intron_variant,,ENST00000498642,;MINOS1,intron_variant,,ENST00000481464,;MINOS1,intron_variant,,ENST00000467029,;MINOS1,intron_variant,,ENST00000485362,;MINOS1,intron_variant,,ENST00000462646,;MINOS1-NBL1,intron_variant,,ENST00000602384,;MINOS1-NBL1,intron_variant,,ENST00000602450,;RPS14P3,downstream_gene_variant,,ENST00000457263,;"	"A"	"ENSG00000173436"	"ENST00000322753"	"Transcript"	"intron_variant"	"-/3712"	"-/237"	"-/78"	""	""	"rs138778783"	"1"	NA	1	"MINOS1"	"HGNC"	32068	"protein_coding"	"YES"	"CCDS30620.1"	"ENSP00000325562"	"Q5TGZ0"	"R4GNA1"	"UPI000015D608"	"NM_001032363.3,NM_001204083.1,NM_001204082.1"	NA	NA	""	"1/3"	""	"A:0.1973"	"A:0.0696"	"A:0.2695"	NA	"A:0.131"	"A:0.3201"	"A:0.2607"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	"7"	""	"1"	"0.2784"	"0.1263"	"0.4468"	"0.1346"	"0.3983"	"0.3404"	"0.3726"	"0.3399"	NA	"common_variant"	"ATA"	"a6bac82a-280f-11e6-851e-0cd4414a729f"	"900"	0.3279	"24326/74198"	"29107/104568"	"672/5322"	"3988/8926"	"695/5164"	"2139/5370"	"13174/38706"	"196/526"	"3462/10184"	"PASS"	"FALSE"	0.288461538461538	"WXS"	FALSE
"2819"	"VWA5B1"	127731	"mskcc.org"	"GRCh37"	"1"	20675864	20675865	"+"	"Intron"	"INS"	"-"	"-"	"TTTA"	"rs10667083"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2894-756_2894-753dupTTTA"	""	""	"ENST00000375079"	""	19	"."	3	9	"."	0	"VWA5B1,intron_variant,,ENST00000289815,;VWA5B1,intron_variant,,ENST00000375079,NM_001039500.2;VWA5B1,downstream_gene_variant,,ENST00000375083,;VWA5B1,intron_variant,,ENST00000525343,;VWA5B1,intron_variant,,ENST00000485375,;VWA5B1,intron_variant,,ENST00000467486,;"	"TTTA"	"ENSG00000158816"	"ENST00000375079"	"Transcript"	"intron_variant"	"-/3859"	"-/3663"	"-/1220"	""	""	"rs10667083"	"1"	NA	1	"VWA5B1"	"HGNC"	26538	"protein_coding"	"YES"	""	"ENSP00000364220"	"Q5TIE3"	"E9PQ62,E9PP07"	"UPI000066D8B8"	"NM_001039500.2"	NA	NA	""	"18/21"	""	"TTTA:0.2031"	"TTTA:0.1324"	"TTTA:0.1484"	NA	"TTTA:0.3581"	"TTTA:0.1501"	"TTTA:0.2321"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"32"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"a6d209ae-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WXS"	FALSE
"2820"	"KIF17"	57576	"mskcc.org"	"GRCh37"	"1"	21029663	21029664	"+"	"Intron"	"INS"	"-"	"-"	"ATGGATGA"	"rs543397456"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1123+1269_1123+1276dupTCATCCAT"	""	""	"ENST00000247986"	""	8	"."	3	3	"."	0	"KIF17,intron_variant,,ENST00000247986,;KIF17,intron_variant,,ENST00000400463,NM_001122819.1,NM_020816.2;KIF17,intron_variant,,ENST00000375044,NM_001287212.1;KIF17,upstream_gene_variant,,ENST00000490034,;"	"ATGGATGA"	"ENSG00000117245"	"ENST00000247986"	"Transcript"	"intron_variant"	"-/3969"	"-/3090"	"-/1029"	""	""	"rs543397456"	"1"	NA	-1	"KIF17"	"HGNC"	19167	"protein_coding"	"YES"	"CCDS213.1"	"ENSP00000247986"	"Q9P2E2"	""	"UPI0000185F1A"	""	NA	NA	""	"5/14"	""	"ATGGATGA:0.3055"	"ATGGATGA:0.2625"	"ATGGATGA:0.3501"	NA	"ATGGATGA:0.3601"	"ATGGATGA:0.332"	"ATGGATGA:0.2485"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"a6e6c63c-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2821"	"EIF4G3"	8672	"mskcc.org"	"GRCh37"	"1"	21377616	21377619	"+"	"Intron"	"DEL"	"AACA"	"AACA"	"-"	"rs540092535"	NA	"JHCCPT5"	"JHCCPN5"	"AACA"	"AACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-195-132_-195-129delTGTT"	""	""	"ENST00000602326"	""	10	"."	4	1	"."	0	"EIF4G3,intron_variant,,ENST00000602326,NM_001198802.1;EIF4G3,intron_variant,,ENST00000400422,NM_001198801.1;EIF4G3,intron_variant,,ENST00000356916,NM_001198803.1;EIF4G3,intron_variant,,ENST00000374927,;EIF4G3,intron_variant,,ENST00000438975,;EIF4G3,intron_variant,,ENST00000411888,;EIF4G3,upstream_gene_variant,,ENST00000264211,NM_003760.4;EIF4G3,upstream_gene_variant,,ENST00000374937,;EIF4G3,upstream_gene_variant,,ENST00000374935,;"	"-"	"ENSG00000075151"	"ENST00000602326"	"Transcript"	"intron_variant"	"-/6196"	"-/4776"	"-/1591"	""	""	"rs540092535"	"1"	NA	-1	"EIF4G3"	"HGNC"	3298	"protein_coding"	"YES"	"CCDS55580.1"	"ENSP00000473510"	"O43432"	"Q59GJ0,F5H564"	"UPI0001639589"	"NM_001198802.1"	NA	NA	""	"3/34"	""	"-:0.0010"	"-:0.0038"	"-:0"	NA	"-:0"	"-:0"	"-:0"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAACAA"	"6e65346a-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2822"	"AL359815.1"	0	"mskcc.org"	"GRCh37"	"1"	21916695	21916695	"+"	"3'Flank"	"DEL"	"T"	"T"	"-"	"rs57085521"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408854"	""	10	"."	4	1	"."	0	"AL359815.1,downstream_gene_variant,,ENST00000408854,;RP11-63N8.3,intron_variant,,ENST00000457706,;"	"-"	"ENSG00000221781"	"ENST00000408854"	"Transcript"	"downstream_gene_variant"	"-/138"	""	""	""	""	"rs57085521"	"1"	"2209"	-1	"AL359815.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2398"	"-:0.3502"	"-:0.1873"	NA	"-:0.0605"	"-:0.2515"	"-:0.3006"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTG"	"6e8382da-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2823"	"HSPG2"	3339	"mskcc.org"	"GRCh37"	"1"	22212868	22212868	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs35303294"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1078+840delG"	""	""	"ENST00000374695"	""	10	"."	5	2	"."	0	"HSPG2,intron_variant,,ENST00000374695,NM_005529.5;HSPG2,downstream_gene_variant,,ENST00000412328,;HSPG2,downstream_gene_variant,,ENST00000439717,;HSPG2,downstream_gene_variant,,ENST00000374673,;"	"-"	"ENSG00000142798"	"ENST00000374695"	"Transcript"	"intron_variant"	"-/14327"	"-/13176"	"-/4391"	""	""	"rs35303294"	"1"	NA	-1	"HSPG2"	"HGNC"	5273	"protein_coding"	"YES"	"CCDS30625.1"	"ENSP00000363827"	"P98160"	"B6EU51"	"UPI0000212778"	"NM_005529.5"	NA	NA	""	"9/96"	""	"C:0.0206"	"-:0.9251"	"-:0.9942"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTCC"	"6eda5d62-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2824"	"CDC42"	998	"mskcc.org"	"GRCh37"	"1"	22405633	22405640	"+"	"Intron"	"DEL"	"TTTTTTTT"	"TTTTTTTT"	"-"	"rs751848117"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTTTTT"	"TTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.105+566_105+573delTTTTTTTT"	""	""	"ENST00000344548"	""	14	"."	7	2	"."	0	"CDC42,intron_variant,,ENST00000344548,NM_001039802.1;CDC42,intron_variant,,ENST00000400259,NM_001791.3;CDC42,intron_variant,,ENST00000315554,NM_044472.2;CDC42,intron_variant,,ENST00000421089,;CDC42,intron_variant,,ENST00000411827,;CDC42,intron_variant,,ENST00000498236,;"	"-"	"ENSG00000070831"	"ENST00000344548"	"Transcript"	"intron_variant"	"-/2254"	"-/576"	"-/191"	""	""	"rs751848117"	"1"	NA	1	"CDC42"	"HGNC"	1736	"protein_coding"	"YES"	"CCDS221.1"	"ENSP00000341072"	"P60953"	"Q9UJM1,Q9UJM0,Q5JYX0"	"UPI0000000356"	"NM_001039802.1"	NA	NA	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTTTTTTT"	"6f083e8a-280f-11e6-851e-0cd4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2825"	"WNT4"	54361	"mskcc.org"	"GRCh37"	"1"	22446108	22446109	"+"	"3'UTR"	"INS"	"-"	"-"	"T"	"rs3835220"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*434dupA"	""	""	"ENST00000290167"	"5/5"	8	"."	4	1	"."	0	"WNT4,3_prime_UTR_variant,,ENST00000290167,NM_030761.4;WNT4,downstream_gene_variant,,ENST00000542383,;"	"T"	"ENSG00000162552"	"ENST00000290167"	"Transcript"	"3_prime_UTR_variant"	"1534-1535/3845"	"-/1056"	"-/351"	""	""	"rs3835220"	"1"	NA	-1	"WNT4"	"HGNC"	12783	"protein_coding"	"YES"	"CCDS223.1"	"ENSP00000290167"	"P56705"	"B4DJF9"	"UPI0000048EC6"	"NM_030761.4"	NA	NA	"5/5"	""	""	"T:0.4744"	"T:0.621"	"T:0.3775"	NA	"T:0.2014"	"T:0.5736"	"T:0.5245"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"a73f25d4-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2826"	"EPHA8"	2046	"mskcc.org"	"GRCh37"	"1"	22926361	22926362	"+"	"Intron"	"INS"	"-"	"-"	"GAAGGAAGGAAGGAGGGAAGGAGGGAGGGAAGGGAGA"	"rs750378077"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2389-787_2389-786insAGGAAGGAGGGAAGGAGGGAGGGAAGGGAGAGAAGGA"	""	""	"ENST00000166244"	""	21	"."	3	5	"."	0	"EPHA8,intron_variant,,ENST00000166244,NM_020526.3;"	"GAAGGAAGGAAGGAGGGAAGGAGGGAGGGAAGGGAGA"	"ENSG00000070886"	"ENST00000166244"	"Transcript"	"intron_variant"	"-/4943"	"-/3018"	"-/1005"	""	""	"rs750378077"	"1"	NA	1	"EPHA8"	"HGNC"	3391	"protein_coding"	"YES"	"CCDS225.1"	"ENSP00000166244"	"P29322"	""	"UPI000012A07B"	"NM_020526.3"	NA	NA	""	"13/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"a7482a94-280f-11e6-851e-0cd4414a729f"	"147"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"2827"	"MYOM3"	127294	"mskcc.org"	"GRCh37"	"1"	24380436	24380437	"+"	"3'Flank"	"DEL"	"AT"	"AT"	"-"	"rs149759438"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000374434"	""	7	"."	4	1	"."	0	"MYOM3,downstream_gene_variant,,ENST00000330966,;MYOM3,downstream_gene_variant,,ENST00000374434,NM_152372.3;MYOM3,downstream_gene_variant,,ENST00000338909,;RP11-293P20.2,intron_variant,,ENST00000439239,;MYOM3,downstream_gene_variant,,ENST00000448831,;"	"-"	"ENSG00000142661"	"ENST00000374434"	"Transcript"	"downstream_gene_variant"	"-/5804"	"-/4314"	"-/1437"	""	""	"rs149759438"	"1"	"2090"	-1	"MYOM3"	"HGNC"	26679	"protein_coding"	"YES"	"CCDS41281.1"	"ENSP00000363557"	"Q5VTT5"	""	"UPI0000203A5D"	"NM_152372.3"	NA	NA	""	""	""	"AT:0.3043"	"-:0.5386"	"-:0.572"	NA	"-:0.9514"	"-:0.7296"	"-:0.6973"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAATT"	"6ff32b52-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2828"	"RCAN3"	11123	"mskcc.org"	"GRCh37"	"1"	24826588	24826589	"+"	"5'Flank"	"DEL"	"AT"	"-"	"-"	"rs141341333"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000374395"	""	8	"."	7	1	"."	0	"RCAN3,upstream_gene_variant,,ENST00000374395,NM_001251984.1,NM_001251978.1,NM_001251979.1;RCAN3,upstream_gene_variant,,ENST00000436717,NM_001251977.1,NM_013441.3,NM_001251980.1;"	"-"	"ENSG00000117602"	"ENST00000374395"	"Transcript"	"upstream_gene_variant"	"-/6802"	"-/726"	"-/241"	""	""	"rs141341333"	"1"	"2798"	1	"RCAN3"	"HGNC"	3042	"protein_coding"	"YES"	"CCDS254.1"	"ENSP00000363516"	"Q9UKA8"	"Q5TGC7,G1FLF0,E5L4P7,E5L4P0,E3VWE2,C8CJH0"	"UPI0000001C4A"	"NM_001251984.1,NM_001251978.1,NM_001251979.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAATA"	"702e09b6-280f-11e6-851e-0cd4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.875	"WXS"	FALSE
"2829"	"NCMAP"	400746	"mskcc.org"	"GRCh37"	"1"	24921530	24921533	"+"	"Intron"	"DEL"	"TTGA"	"-"	"-"	"rs72089663"	NA	"JHCCPT5"	"JHCCPN5"	"TTGA"	"TTGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-7-381_-7-378delTTGA"	""	""	"ENST00000374392"	""	6	"."	6	2	"."	0	"NCMAP,intron_variant,,ENST00000374392,NM_001010980.4;NCMAP,intron_variant,,ENST00000486262,;"	"-"	"ENSG00000184454"	"ENST00000374392"	"Transcript"	"intron_variant"	"-/3953"	"-/309"	"-/102"	""	""	"rs72089663"	"1"	NA	1	"NCMAP"	"HGNC"	29332	"protein_coding"	"YES"	"CCDS30632.1"	"ENSP00000363513"	"Q5T1S8"	""	"UPI00001991A6"	"NM_001010980.4"	NA	NA	""	"1/3"	""	"TTGA:0.2562"	"-:0.7284"	"-:0.6484"	NA	"-:0.8105"	"-:0.7565"	"-:0.7505"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTTGAT"	"703739aa-280f-11e6-851e-0cd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"2830"	"RHCE"	6007	"mskcc.org"	"GRCh37"	"1"	25697212	25697213	"+"	"Intron"	"INS"	"-"	"-"	"TATTT"	"rs561909397"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1154-186_1154-182dupAAATA"	""	""	"ENST00000294413"	""	34	"."	5	3	"."	0	"RHCE,intron_variant,,ENST00000349320,;RHCE,intron_variant,,ENST00000294413,NM_020485.4;RHCE,intron_variant,,ENST00000243186,;RHCE,intron_variant,,ENST00000374352,;RHCE,intron_variant,,ENST00000413854,;RHCE,intron_variant,,ENST00000425135,;RHCE,intron_variant,,ENST00000455194,;RHCE,intron_variant,,ENST00000349438,NM_138618.3;RHCE,intron_variant,,ENST00000340849,NM_138617.3;RHCE,intron_variant,,ENST00000346452,NM_138616.3;RHCE,intron_variant,,ENST00000527747,;"	"TATTT"	"ENSG00000188672"	"ENST00000294413"	"Transcript"	"intron_variant"	"-/1591"	"-/1254"	"-/417"	""	""	"rs561909397"	"1"	NA	-1	"RHCE"	"HGNC"	10008	"protein_coding"	"YES"	"CCDS30635.1"	"ENSP00000294413"	"P18577"	"Q9UP89,Q9UEC6,Q8NDV4,Q5UD29,D0AB04,D0AB03,B6ZCF8,B6ZCF7,A8YPS4"	"UPI00001D9627"	"NM_020485.4"	NA	NA	""	"8/9"	""	"TATTTTATTT:0.0058"	"TATTTTATTT:0.0129"	"TATTTTATTT:0.0058"	NA	"TATTTTATTT:0.001"	"TATTTTATTT:0.006"	"TATTTTATTT:0.001"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"a7b703c4-280f-11e6-851e-0cd4414a729f"	"280"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WXS"	FALSE
"2831"	"CEP85"	64793	"mskcc.org"	"GRCh37"	"1"	26570483	26570493	"+"	"Intron"	"DEL"	"AAAAAAAAAAA"	"AAAAAAAAAAA"	"-"	"rs560183633"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAAAAAAAA"	"AAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.56-159_56-149delAAAAAAAAAAA"	""	""	"ENST00000252992"	""	19	"."	3	3	"."	0	"CEP85,intron_variant,,ENST00000252992,NM_022778.3;CEP85,intron_variant,,ENST00000451429,NM_001281517.1;CEP85,intron_variant,,ENST00000476272,;"	"-"	"ENSG00000130695"	"ENST00000252992"	"Transcript"	"intron_variant"	"-/3935"	"-/2289"	"-/762"	""	""	"rs560183633"	"1"	NA	1	"CEP85"	"HGNC"	25309	"protein_coding"	"YES"	"CCDS277.1"	"ENSP00000252992"	"Q6P2H3"	""	"UPI0000231C37"	"NM_022778.3"	NA	NA	""	"2/13"	""	"AAAAAAAAAAA:0.0116"	"-:0.9947"	"-:0.987"	NA	"-:0.9861"	"-:1"	"-:0.9714"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAAAAAAAAAAA"	"70deeba0-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WXS"	FALSE
"2832"	"IFI6"	2537	"mskcc.org"	"GRCh37"	"1"	27999953	27999954	"+"	"5'Flank"	"INS"	"-"	"-"	"TC"	"rs145044622"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000339145"	""	6	"."	3	1	"."	0	"IFI6,upstream_gene_variant,,ENST00000361157,NM_002038.3,NM_022872.2,NM_022873.2;IFI6,upstream_gene_variant,,ENST00000362020,;IFI6,upstream_gene_variant,,ENST00000339145,;RNU6-949P,downstream_gene_variant,,ENST00000384040,;RP11-288L9.4,downstream_gene_variant,,ENST00000430683,;"	"TC"	"ENSG00000126709"	"ENST00000339145"	"Transcript"	"upstream_gene_variant"	"-/822"	"-/417"	"-/138"	""	""	"rs145044622"	"1"	"1264"	-1	"IFI6"	"HGNC"	4054	"protein_coding"	"YES"	"CCDS308.1"	"ENSP00000342513"	"P09912"	""	"UPI000002ABE5"	""	NA	NA	""	""	""	"TC:0.4766"	"TC:0.351"	"TC:0.5303"	NA	"TC:0.4802"	"TC:0.5467"	"TC:0.5327"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"a80c3d6c-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2833"	"PHACTR4"	65979	"mskcc.org"	"GRCh37"	"1"	28733775	28733776	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs146400683"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-38-146_-38-145insG"	""	""	"ENST00000373839"	""	86	"."	7	16	"."	0	"PHACTR4,intron_variant,,ENST00000373839,NM_001048183.1;PHACTR4,intron_variant,,ENST00000493669,;PHACTR4,intron_variant,,ENST00000463428,;"	"G"	"ENSG00000204138"	"ENST00000373839"	"Transcript"	"intron_variant"	"-/6190"	"-/2109"	"-/702"	""	""	"rs146400683"	"1"	NA	1	"PHACTR4"	"HGNC"	25793	"protein_coding"	""	"CCDS41293.1"	"ENSP00000362945"	"Q8IZ21"	""	"UPI000007419C"	"NM_001048183.1"	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"a81e3b8e-280f-11e6-851e-0cd4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0813953488372093	"WXS"	FALSE
"2834"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	30199734	30199735	"+"	"IGR"	"INS"	"-"	"-"	"GC"	"rs148690655"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	4	"."	0	""	"GC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148690655"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GC:0.0421"	"GC:0.0257"	"GC:0.0101"	NA	"GC:0.0764"	"GC:0.0109"	"GC:0.0838"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"a85aa830-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2835"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	31067197	31067209	"+"	"IGR"	"DEL"	"AGGGAAGGGAGGG"	"AGGGAAGGGAGGG"	"-"	"rs148166035"	NA	"JHCCPT5"	"JHCCPN5"	"AGGGAAGGGAGGG"	"AGGGAAGGGAGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148166035"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4355"	"-:0.4644"	"-:0.3718"	NA	"-:0.6002"	"-:0.3082"	"-:0.4029"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAGGGAAGGGAGGGA"	"72302b04-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"2836"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	31272733	31272734	"+"	"IGR"	"INS"	"-"	"-"	"GAAAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	21	"."	3	4	"."	0	""	"GAAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"a86b144a-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"2837"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	31272972	31272973	"+"	"IGR"	"INS"	"-"	"-"	"GAAAGAAAGAGAAA"	"rs144941443"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"."	5	4	"."	0	""	"GAAAGAAAGAGAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144941443"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3588"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"a86d454e-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WXS"	FALSE
"2838"	"NKAIN1"	79570	"mskcc.org"	"GRCh37"	"1"	31671413	31671416	"+"	"Intron"	"DEL"	"TCAT"	"-"	"-"	"rs33957979"	NA	"JHCCPT5"	"JHCCPN5"	"TCAT"	"TCAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55-10382_55-10379delATGA"	""	""	"ENST00000373736"	""	7	"."	7	1	"."	0	"NKAIN1,intron_variant,,ENST00000373736,NM_024522.2;NKAIN1,upstream_gene_variant,,ENST00000530145,;"	"-"	"ENSG00000084628"	"ENST00000373736"	"Transcript"	"intron_variant"	"-/2589"	"-/624"	"-/207"	""	""	"rs33957979"	"1"	NA	-1	"NKAIN1"	"HGNC"	25743	"protein_coding"	"YES"	"CCDS339.2"	"ENSP00000362841"	"Q4KMZ8"	"R4GNE2"	"UPI000004A116"	"NM_024522.2"	NA	NA	""	"1/6"	""	"TCAT:0.3956"	"-:0.4652"	"-:0.7291"	NA	"-:0.4643"	"-:0.7773"	"-:0.6708"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCATA"	"724d6246-280f-11e6-851e-0cd4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"2839"	"SNRNP40"	9410	"mskcc.org"	"GRCh37"	"1"	31732602	31732602	"+"	"3'UTR"	"DEL"	"C"	"C"	"-"	"rs377750244"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*317delG"	""	""	"ENST00000263694"	"10/10"	246	"."	3	68	"."	0	"SNRNP40,3_prime_UTR_variant,,ENST00000263694,NM_004814.2;SNRNP40,3_prime_UTR_variant,,ENST00000373720,;SNRNP40,downstream_gene_variant,,ENST00000446633,;SNRNP40,non_coding_transcript_exon_variant,,ENST00000489853,;SNRNP40,non_coding_transcript_exon_variant,,ENST00000486941,;SNRNP40,downstream_gene_variant,,ENST00000491106,;RP11-490K7.4,downstream_gene_variant,,ENST00000452686,;"	"-"	"ENSG00000060688"	"ENST00000263694"	"Transcript"	"3_prime_UTR_variant"	"1410/1595"	"-/1074"	"-/357"	""	""	"rs377750244"	"1"	NA	-1	"SNRNP40"	"HGNC"	30857	"protein_coding"	"YES"	"CCDS340.1"	"ENSP00000263694"	"Q96DI7"	"A0MNP2"	"UPI000006FD38"	"NM_004814.2"	NA	NA	"10/10"	""	""	"-:0.0150"	"-:0.0333"	"-:0.0043"	NA	"-:0.004"	"-:0.0099"	"-:0.0143"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACA"	"726dd774-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0121951219512195	"WXS"	FALSE
"2840"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	32025114	32025114	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs5773365"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5773365"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4864"	"-:0.5144"	"-:0.5173"	NA	"-:0.5853"	"-:0.5626"	"-:0.3855"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAA"	"7295b49c-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"2841"	"RBBP4"	5928	"mskcc.org"	"GRCh37"	"1"	33139043	33139044	"+"	"Intron"	"INS"	"-"	"-"	"TCT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1212+542_1212+543insCTT"	""	""	"ENST00000373493"	""	99	"."	10	14	"."	0	"RBBP4,intron_variant,,ENST00000373493,NM_005610.2,NM_001135255.1;RBBP4,intron_variant,,ENST00000414241,;RBBP4,intron_variant,,ENST00000458695,NM_001135256.1;RBBP4,intron_variant,,ENST00000544435,;RBBP4,intron_variant,,ENST00000373485,;RBBP4,intron_variant,,ENST00000463378,;RBBP4,intron_variant,,ENST00000482190,;RBBP4,downstream_gene_variant,,ENST00000475321,;RBBP4,downstream_gene_variant,,ENST00000524393,;RBBP4,intron_variant,,ENST00000492348,;RBBP4,intron_variant,,ENST00000460669,;RBBP4,downstream_gene_variant,,ENST00000401893,;RBBP4,downstream_gene_variant,,ENST00000527118,;RBBP4,downstream_gene_variant,,ENST00000526193,;RBBP4,downstream_gene_variant,,ENST00000531983,;"	"TCT"	"ENSG00000162521"	"ENST00000373493"	"Transcript"	"intron_variant"	"-/7943"	"-/1278"	"-/425"	""	""	""	"1"	NA	1	"RBBP4"	"HGNC"	9887	"protein_coding"	"YES"	"CCDS366.1"	"ENSP00000362592"	"Q09028"	"H0YCT5,E9PND5,C9JPP3,B4DRT0"	"UPI000013318C"	"NM_005610.2,NM_001135255.1"	NA	NA	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"a8affae2-280f-11e6-851e-0cd4414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL97.00to99.00"	"FALSE"	0.101010101010101	"WXS"	FALSE
"2842"	"AK2"	204	"mskcc.org"	"GRCh37"	"1"	33476167	33476168	"+"	"3'Flank"	"INS"	"-"	"-"	"TCTG"	"rs145424098"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000354858"	""	41	"."	3	8	"."	0	"AK2,3_prime_UTR_variant,,ENST00000373449,NM_001199199.1,NM_013411.4;AK2,3_prime_UTR_variant,,ENST00000548033,;AK2,downstream_gene_variant,,ENST00000354858,NM_001625.3;AK2,downstream_gene_variant,,ENST00000467905,;AK2,downstream_gene_variant,,ENST00000480134,;RP1-117O3.2,intron_variant,,ENST00000427524,;AK2,downstream_gene_variant,,ENST00000491241,;AK2,non_coding_transcript_exon_variant,,ENST00000482191,;AK2,downstream_gene_variant,,ENST00000550338,;AK2,downstream_gene_variant,,ENST00000469238,;AK2,downstream_gene_variant,,ENST00000466029,;"	"TCTG"	"ENSG00000004455"	"ENST00000354858"	"Transcript"	"downstream_gene_variant"	"-/1021"	"-/720"	"-/239"	""	""	"rs145424098"	"1"	"2477"	-1	"AK2"	"HGNC"	362	"protein_coding"	"YES"	"CCDS374.1"	"ENSP00000346921"	"P54819"	"F8W1A4"	"UPI000016781E"	"NM_001625.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	"0.0009596"	"0.01095"	"0"	"0"	"0"	"0.002616"	"0"	"0.001332"	"1"	"PASS"	"TCT"	"a8b94a5c-280f-11e6-851e-0cd4414a729f"	"123"	0.001847	"20/10830"	"23/23968"	"3/274"	"0/106"	"0/152"	"0/0"	"7/2676"	"0/116"	"10/7506"	"VQSRTrancheINDEL99.00to99.50"	"FALSE"	0.0731707317073171	"WXS"	FALSE
"2843"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	33716453	33716454	"+"	"IGR"	"INS"	"-"	"-"	"GAAGAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	22	"."	6	16	"."	0	""	"GAAGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"a8bac13e-280f-11e6-851e-0cd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2844"	"PHC2"	1912	"mskcc.org"	"GRCh37"	"1"	33838166	33838192	"+"	"Intron"	"DEL"	"GTGACCACCACCACAGCCAATTGTGGC"	"GTGACCACCACCACAGCCAATTGTGGC"	"AGGGCAGTGGGAGGA"	"rs386630182"	NA	"JHCCPT5"	"JHCCPN5"	"GTGACCACCACCACAGCCAATTGTGGC"	"GTGACCACCACCACAGCCAATTGTGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.175-144_175-118delGCCACAATTGGCTGTGGTGGTGGTCACinsTCCTCCCACTGCCCT"	""	""	"ENST00000257118"	""	124	"."	34	85	"."	0	"PHC2,intron_variant,,ENST00000257118,NM_198040.2;PHC2,intron_variant,,ENST00000431992,;PHC2,intron_variant,,ENST00000419414,;PHC2,intron_variant,,ENST00000373416,;PHC2,intron_variant,,ENST00000468406,;PHC2,intron_variant,,ENST00000484692,;"	"AGGGCAGTGGGAGGA"	"ENSG00000134686"	"ENST00000257118"	"Transcript"	"intron_variant"	"-/3870"	"-/2577"	"-/858"	""	""	"rs386630182"	"1"	NA	-1	"PHC2"	"HGNC"	3183	"protein_coding"	"YES"	"CCDS378.1"	"ENSP00000257118"	"Q8IXK0"	""	"UPI0000074391"	"NM_198040.2"	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGTGACCACCACCACAGCCAATTGTGGCC"	"a1d7c704-280f-11e6-851e-0cd4414a729f"	"2040"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274193548387097	"WXS"	FALSE
"2845"	"CSMD2"	114784	"mskcc.org"	"GRCh37"	"1"	34237024	34237025	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs536590996"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1726+1145dupA"	""	""	"ENST00000241312"	""	6	"."	4	2	"."	0	"CSMD2,intron_variant,,ENST00000373381,NM_052896.3,NM_001281956.1;CSMD2,downstream_gene_variant,,ENST00000338325,;CSMD2,intron_variant,,ENST00000241312,;"	"T"	"ENSG00000121904"	"ENST00000241312"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/13108"	"-/10464"	"-/3487"	""	""	"rs536590996"	"1"	NA	-1	"CSMD2"	"HGNC"	19290	"nonsense_mediated_decay"	"YES"	"CCDS380.1"	"ENSP00000241312"	"Q7Z408"	""	"UPI00004561AB"	""	NA	NA	""	"13/69"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"a8ca5036-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2846"	"CSMD2"	114784	"mskcc.org"	"GRCh37"	"1"	34259296	34259297	"+"	"Intron"	"INS"	"-"	"-"	"GTGAGGCTGGTG"	"rs6143183"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1327-1170_1327-1169insCACCAGCCTCAC"	""	""	"ENST00000241312"	""	7	"."	4	1	"."	0	"CSMD2,intron_variant,,ENST00000373381,NM_052896.3,NM_001281956.1;CSMD2,intron_variant,,ENST00000338325,;CSMD2,intron_variant,,ENST00000471438,;CSMD2,intron_variant,,ENST00000241312,;"	"GTGAGGCTGGTG"	"ENSG00000121904"	"ENST00000241312"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/13108"	"-/10464"	"-/3487"	""	""	"rs6143183"	"1"	NA	-1	"CSMD2"	"HGNC"	19290	"nonsense_mediated_decay"	"YES"	"CCDS380.1"	"ENSP00000241312"	"Q7Z408"	""	"UPI00004561AB"	""	NA	NA	""	"10/69"	""	"-:0.0761"	"GTGAGGCTGGTG:0.8896"	"GTGAGGCTGGTG:0.951"	NA	"GTGAGGCTGGTG:0.9474"	"GTGAGGCTGGTG:0.9304"	"GTGAGGCTGGTG:0.9202"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"a8cc539a-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2847"	"RN7SL281P"	0	"mskcc.org"	"GRCh37"	"1"	36167165	36167166	"+"	"3'Flank"	"INS"	"-"	"-"	"TCTCTCTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000464618"	""	9	"."	4	2	"."	0	"RN7SL281P,downstream_gene_variant,,ENST00000464618,;"	"TCTCTCTC"	"ENSG00000239859"	"ENST00000464618"	"Transcript"	"downstream_gene_variant"	"-/250"	""	""	""	""	""	"1"	"4460"	-1	"RN7SL281P"	"HGNC"	46297	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"a90c24f2-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2848"	"CLSPN"	63967	"mskcc.org"	"GRCh37"	"1"	36219007	36219009	"+"	"Intron"	"DEL"	"TAC"	"TAC"	"AG"	"rs386630306"	NA	"JHCCPT5"	"JHCCPN5"	"TAC"	"TAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1771+337_1771+339delGTAinsCT"	""	""	"ENST00000318121"	""	9	"."	3	3	"."	0	"CLSPN,intron_variant,,ENST00000251195,;CLSPN,intron_variant,,ENST00000318121,NM_022111.3;CLSPN,intron_variant,,ENST00000520551,;CLSPN,intron_variant,,ENST00000373220,NM_001190481.1;CLSPN,upstream_gene_variant,,ENST00000517467,;"	"AG"	"ENSG00000092853"	"ENST00000318121"	"Transcript"	"intron_variant"	"-/4169"	"-/4020"	"-/1339"	""	""	"rs386630306"	"1"	NA	-1	"CLSPN"	"HGNC"	19715	"protein_coding"	"YES"	"CCDS396.1"	"ENSP00000312995"	"Q9HAW4"	""	"UPI0000161087"	"NM_022111.3"	NA	NA	""	"9/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTACA"	"a1e1f27e-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2849"	"SH3D21"	79729	"mskcc.org"	"GRCh37"	"1"	36784500	36784508	"+"	"Intron"	"DEL"	"AATAATAAT"	"AATAATAAT"	"-"	"rs148450587"	NA	"JHCCPT5"	"JHCCPN5"	"AATAATAAT"	"AATAATAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.770-138_770-130delATAATAATA"	""	""	"ENST00000453908"	""	14	"."	4	3	"."	0	"SH3D21,intron_variant,,ENST00000453908,NM_001162530.1;SH3D21,intron_variant,,ENST00000426732,;SH3D21,intron_variant,,ENST00000312808,NM_024676.4;SH3D21,intron_variant,,ENST00000505871,;SH3D21,intron_variant,,ENST00000373139,;RP11-268J15.5,upstream_gene_variant,,ENST00000373137,;EVA1B,downstream_gene_variant,,ENST00000270824,NM_018166.1;SH3D21,upstream_gene_variant,,ENST00000474766,;SH3D21,upstream_gene_variant,,ENST00000508854,;EVA1B,downstream_gene_variant,,ENST00000490466,;SH3D21,intron_variant,,ENST00000480549,;"	"-"	"ENSG00000214193"	"ENST00000453908"	"Transcript"	"intron_variant"	"-/2519"	"-/2271"	"-/756"	""	""	"rs148450587"	"1"	NA	1	"SH3D21"	"HGNC"	26236	"protein_coding"	"YES"	"CCDS53298.1"	"ENSP00000403476"	"A4FU49"	"B5MDU9"	"UPI0000EE3027"	"NM_001162530.1"	NA	NA	""	"10/15"	""	"AATAATAAT:0.2198"	"-:0.5961"	"-:0.804"	NA	"-:0.8968"	"-:0.8191"	"-:0.8517"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"34"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAAATAATAATA"	"74718d7c-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"2850"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	37035136	37035137	"+"	"IGR"	"DEL"	"GC"	"GC"	"-"	"rs540144655"	NA	"JHCCPT5"	"JHCCPN5"	"GC"	"GC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs540144655"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0168"	"-:0.0023"	"-:0.0303"	NA	"-:0.002"	"-:0.0408"	"-:0.0174"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGCG"	"74b02294-280f-11e6-851e-0cd4414a729f"	"236"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2851"	"RP5-1180C18.1"	0	"mskcc.org"	"GRCh37"	"1"	37760505	37760506	"+"	"Intron"	"INS"	"-"	"AGC"	"AGC"	"rs75007302"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.112-18648_112-18646dupGCT"	""	""	"ENST00000413901"	""	7	"."	7	1	"."	0	"RP5-1180C18.1,intron_variant,,ENST00000413901,;"	"AGC"	"ENSG00000223944"	"ENST00000413901"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/596"	""	""	""	""	"rs75007302"	"1"	NA	-1	"RP5-1180C18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"AGC:0.4994"	"AGC:0.3003"	"AGC:0.5778"	NA	"AGC:0.7242"	"AGC:0.4811"	"AGC:0.5"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"a937b9fa-280f-11e6-851e-0cd4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"2852"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	38114379	38114380	"+"	"IGR"	"INS"	"-"	"GCTGGGTCGGACTTTG"	"GCTGGGTCGGACTTTG"	"rs11267344"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	2	"."	0	""	"GCTGGGTCGGACTTTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11267344"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2448"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"a943c916-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2853"	"INPP5B"	3633	"mskcc.org"	"GRCh37"	"1"	38346095	38346096	"+"	"Intron"	"INS"	"-"	"-"	"TTTA"	"rs373379144"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1432-233_1432-230dupTAAA"	""	""	"ENST00000373024"	""	14	"."	7	4	"."	0	"INPP5B,intron_variant,,ENST00000373023,NM_005540.2;INPP5B,intron_variant,,ENST00000373027,;INPP5B,intron_variant,,ENST00000373026,;INPP5B,intron_variant,,ENST00000373024,;INPP5B,intron_variant,,ENST00000458109,;RNU6-584P,upstream_gene_variant,,ENST00000410350,;SNORA63,upstream_gene_variant,,ENST00000516639,;"	"TTTA"	"ENSG00000204084"	"ENST00000373024"	"Transcript"	"intron_variant"	"-/3060"	"-/2742"	"-/913"	""	""	"rs373379144"	"1"	NA	-1	"INPP5B"	"HGNC"	6077	"protein_coding"	"YES"	"CCDS41306.1"	"ENSP00000362115"	"P32019"	""	"UPI0000458AD7"	""	NA	NA	""	"14/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"a95906e6-280f-11e6-851e-0cd4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2854"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	38733849	38733850	"+"	"IGR"	"INS"	"-"	"-"	"AT"	"rs75277471"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	3	"."	0	""	"AT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs75277471"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3259"	"AT:0.8472"	"AT:0.536"	NA	"AT:0.75"	"AT:0.5497"	"AT:0.5879"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"a960df9c-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2855"	"RRAGC"	64121	"mskcc.org"	"GRCh37"	"1"	39312144	39312145	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs35489230"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.900-386dupG"	""	""	"ENST00000373001"	""	9	"."	4	1	"."	0	"RRAGC,intron_variant,,ENST00000373001,NM_022157.3,NM_001271851.1;RRAGC,non_coding_transcript_exon_variant,,ENST00000474456,;RRAGC,intron_variant,,ENST00000493015,;"	"C"	"ENSG00000116954"	"ENST00000373001"	"Transcript"	"intron_variant"	"-/2732"	"-/1200"	"-/399"	""	""	"rs35489230"	"1"	NA	-1	"RRAGC"	"HGNC"	19902	"protein_coding"	"YES"	"CCDS430.1"	"ENSP00000362092"	"Q9HB90"	"D3DPT8"	"UPI00000372EF"	"NM_022157.3,NM_001271851.1"	NA	NA	""	"5/6"	""	"-:0.1190"	"C:0.9894"	"C:0.915"	NA	"C:0.7183"	"C:0.9692"	"C:0.7873"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"a969597e-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2856"	"NFYC"	4802	"mskcc.org"	"GRCh37"	"1"	41193548	41193550	"+"	"Intron"	"DEL"	"AGA"	"AGA"	"-"	"rs35888850"	NA	"JHCCPT5"	"JHCCPN5"	"AGA"	"AGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-8-10958_-8-10956delAAG"	""	""	"ENST00000425457"	""	6	"."	4	1	"."	0	"NFYC,intron_variant,,ENST00000372652,;NFYC,intron_variant,,ENST00000447388,NM_014223.4,NM_001142587.1;NFYC,intron_variant,,ENST00000456393,;NFYC,intron_variant,,ENST00000372653,NM_001142590.1;NFYC,intron_variant,,ENST00000425457,NM_001142588.1;NFYC,intron_variant,,ENST00000372654,;NFYC,intron_variant,,ENST00000427410,NM_001142589.1;NFYC,intron_variant,,ENST00000372651,;NFYC,intron_variant,,ENST00000372669,;NFYC,intron_variant,,ENST00000453631,;NFYC,intron_variant,,ENST00000534399,;NFYC,intron_variant,,ENST00000424419,;NFYC,intron_variant,,ENST00000467203,;"	"-"	"ENSG00000066136"	"ENST00000425457"	"Transcript"	"intron_variant"	"-/1536"	"-/1065"	"-/354"	""	""	"rs35888850"	"1"	NA	1	"NFYC"	"HGNC"	7806	"protein_coding"	"YES"	"CCDS44120.1"	"ENSP00000396620"	"Q13952"	"Q5T6K7,Q14497,E9PQR2,E9PJA8"	"UPI0000D4DA2D"	"NM_001142588.1"	NA	NA	""	"1/10"	""	"-:0.2913"	"-:0.0802"	"-:0.353"	NA	"-:0.4504"	"-:0.2177"	"-:0.4448"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAGAA"	"75fec5d8-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2857"	"ENSR00000535244"	0	"mskcc.org"	"GRCh37"	"1"	41884733	41884733	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs141616112"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000535244"	""	8	"."	4	4	"."	0	""	"-"	""	"ENSR00000535244"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs141616112"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1474"	"-:0.0136"	"-:0.2882"	NA	"-:0.245"	"-:0.0885"	"-:0.1881"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCC"	"761f4786-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2858"	"LEPRE1"	64175	"mskcc.org"	"GRCh37"	"1"	43231679	43231679	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs774706967"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.465+499delG"	""	""	"ENST00000236040"	""	89	"."	4	28	"."	0	"LEPRE1,intron_variant,,ENST00000236040,NM_001243246.1;LEPRE1,intron_variant,,ENST00000397054,NM_022356.3,NM_001146289.1;LEPRE1,intron_variant,,ENST00000296388,;LEPRE1,intron_variant,,ENST00000372526,;C1orf50,upstream_gene_variant,,ENST00000536543,;C1orf50,upstream_gene_variant,,ENST00000372525,NM_024097.3;C1orf50,upstream_gene_variant,,ENST00000468913,;LEPRE1,intron_variant,,ENST00000492956,;LEPRE1,intron_variant,,ENST00000495874,;LEPRE1,intron_variant,,ENST00000460031,;C1orf50,upstream_gene_variant,,ENST00000603943,;LEPRE1,upstream_gene_variant,,ENST00000463465,;C1orf50,upstream_gene_variant,,ENST00000464081,;"	"-"	"ENSG00000117385"	"ENST00000236040"	"Transcript"	"intron_variant"	"-/2993"	"-/2415"	"-/804"	""	""	"rs774706967"	"1"	NA	-1	"LEPRE1"	"HGNC"	19316	"protein_coding"	"YES"	"CCDS57986.1"	"ENSP00000236040"	"Q32P28"	"B4DTG8"	"UPI000013E32E"	"NM_001243246.1"	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTCC"	"766a30c0-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0449438202247191	"WXS"	FALSE
"2859"	"ST3GAL3"	6487	"mskcc.org"	"GRCh37"	"1"	44283548	44283549	"+"	"Intron"	"INS"	"-"	"-"	"CTCCTCCTT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.254+2946_254+2954dupCCTCCTTCT"	""	""	"ENST00000262915"	""	20	"."	3	6	"."	0	"ST3GAL3,intron_variant,,ENST00000262915,NM_174963.3;ST3GAL3,intron_variant,,ENST00000372375,NM_174968.3;ST3GAL3,intron_variant,,ENST00000351035,NM_174971.3;ST3GAL3,intron_variant,,ENST00000361392,NM_006279.3,NM_001270459.1,NM_174964.2;ST3GAL3,intron_variant,,ENST00000361400,NM_174969.2;ST3GAL3,intron_variant,,ENST00000372374,NM_001270460.1;ST3GAL3,intron_variant,,ENST00000335430,;ST3GAL3,intron_variant,,ENST00000353126,NM_001270461.1,NM_174966.2;ST3GAL3,intron_variant,,ENST00000372377,;ST3GAL3,intron_variant,,ENST00000545417,NM_174965.2;ST3GAL3,intron_variant,,ENST00000330208,NM_174967.2,NM_174970.2;ST3GAL3,intron_variant,,ENST00000361746,;ST3GAL3,intron_variant,,ENST00000347631,;ST3GAL3,intron_variant,,ENST00000372368,;ST3GAL3,intron_variant,,ENST00000372372,;ST3GAL3,intron_variant,,ENST00000372369,;ST3GAL3,intron_variant,,ENST00000332628,;ST3GAL3,intron_variant,,ENST00000533933,;ST3GAL3,intron_variant,,ENST00000531993,;ST3GAL3,intron_variant,,ENST00000372365,;ST3GAL3,intron_variant,,ENST00000372366,NM_001270465.1;ST3GAL3,intron_variant,,ENST00000372367,NM_001270463.1;ST3GAL3,intron_variant,,ENST00000528371,NM_001270464.1;ST3GAL3,intron_variant,,ENST00000361812,;ST3GAL3,intron_variant,,ENST00000372362,;ST3GAL3,intron_variant,,ENST00000531451,;ST3GAL3,intron_variant,,ENST00000531816,NM_001270466.1;ST3GAL3,intron_variant,,ENST00000461375,;ST3GAL3,intron_variant,,ENST00000530154,;ST3GAL3,intron_variant,,ENST00000469715,;ST3GAL3,intron_variant,,ENST00000533997,;ST3GAL3,intron_variant,,ENST00000489897,;ST3GAL3,intron_variant,,ENST00000490541,;ST3GAL3,intron_variant,,ENST00000530581,;ST3GAL3,intron_variant,,ENST00000479383,;ST3GAL3,intron_variant,,ENST00000533212,;ST3GAL3,intron_variant,,ENST00000532911,;ST3GAL3,intron_variant,,ENST00000461066,;"	"CTCCTCCTT"	"ENSG00000126091"	"ENST00000262915"	"Transcript"	"intron_variant"	"-/2449"	"-/1335"	"-/444"	""	""	""	"1"	NA	1	"ST3GAL3"	"HGNC"	10866	"protein_coding"	"YES"	"CCDS493.1"	"ENSP00000262915"	"Q11203"	""	"UPI000007440A"	"NM_174963.3"	NA	NA	""	"4/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"11"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"aa18523a-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"2860"	"ZSWIM5"	57643	"mskcc.org"	"GRCh37"	"1"	45509466	45509468	"+"	"Intron"	"DEL"	"AGA"	"AGA"	"-"	"rs143819966"	NA	"JHCCPT5"	"JHCCPN5"	"AGA"	"AGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1433-401_1433-399delTCT"	""	""	"ENST00000359600"	""	7	"."	4	2	"."	0	"ZSWIM5,intron_variant,,ENST00000359600,NM_020883.1;"	"-"	"ENSG00000162415"	"ENST00000359600"	"Transcript"	"intron_variant"	"-/5819"	"-/3558"	"-/1185"	""	""	"rs143819966"	"1"	NA	-1	"ZSWIM5"	"HGNC"	29299	"protein_coding"	"YES"	"CCDS41319.1"	"ENSP00000352614"	"Q9P217"	""	"UPI00001C1D76"	"NM_020883.1"	NA	NA	""	"5/13"	""	"-:0.1064"	"-:0.034"	"-:0.2565"	NA	"-:0.1538"	"-:0.0785"	"-:0.0777"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGAA"	"775ad1ce-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2861"	"TESK2"	10420	"mskcc.org"	"GRCh37"	"1"	45922978	45922979	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs72387598"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.222+257_222+258delAT"	""	""	"ENST00000372086"	""	30	"."	8	3	"."	0	"TESK2,intron_variant,,ENST00000372086,NM_007170.2;TESK2,intron_variant,,ENST00000341771,;TESK2,intron_variant,,ENST00000372084,;TESK2,intron_variant,,ENST00000538496,;TESK2,intron_variant,,ENST00000451835,;TESK2,intron_variant,,ENST00000486676,;TESK2,intron_variant,,ENST00000493974,;"	"-"	"ENSG00000070759"	"ENST00000372086"	"Transcript"	"intron_variant"	"-/3074"	"-/1716"	"-/571"	""	""	"rs72387598"	"1"	NA	-1	"TESK2"	"HGNC"	11732	"protein_coding"	"YES"	"CCDS41323.1"	"ENSP00000361158"	"Q96S53"	"F5GWP9,D3DPZ7"	"UPI000004073A"	"NM_007170.2"	NA	NA	""	"2/10"	""	"-:0.2710"	"-:0.2284"	"-:0.33"	NA	"-:0.3403"	"-:0.2227"	"-:0.2648"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATG"	"7787e92a-280f-11e6-851e-0cd4414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"2862"	"EFCAB14"	9813	"mskcc.org"	"GRCh37"	"1"	47148676	47148677	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs570888813"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1312+295dupT"	""	""	"ENST00000371933"	""	17	"."	4	5	"."	0	"EFCAB14,intron_variant,,ENST00000371933,NM_014774.2;EFCAB14,intron_variant,,ENST00000544071,;EFCAB14-AS1,intron_variant,,ENST00000442839,;EFCAB14-AS1,intron_variant,,ENST00000418985,;EFCAB14,intron_variant,,ENST00000479745,;EFCAB14,downstream_gene_variant,,ENST00000484461,;EFCAB14,downstream_gene_variant,,ENST00000459797,;EFCAB14,intron_variant,,ENST00000487741,;EFCAB14,intron_variant,,ENST00000481623,;"	"A"	"ENSG00000159658"	"ENST00000371933"	"Transcript"	"intron_variant"	"-/5767"	"-/1488"	"-/495"	""	""	"rs570888813"	"1"	NA	-1	"EFCAB14"	"HGNC"	29051	"protein_coding"	"YES"	"CCDS30706.1"	"ENSP00000361001"	"O75071"	""	"UPI000003B443"	"NM_014774.2"	NA	NA	""	"10/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"aa9511d0-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"2863"	"FOXD2"	2306	"mskcc.org"	"GRCh37"	"1"	47907046	47907046	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"rs11322385"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000334793"	""	16	"."	3	2	"."	0	"FOXD2,downstream_gene_variant,,ENST00000334793,NM_004474.3;"	"-"	"ENSG00000186564"	"ENST00000334793"	"Transcript"	"downstream_gene_variant"	"-/4675"	"-/1488"	"-/495"	""	""	"rs11322385"	"1"	"683"	1	"FOXD2"	"HGNC"	3803	"protein_coding"	"YES"	"CCDS30708.1"	"ENSP00000335493"	"O60548"	""	"UPI000014153E"	"NM_004474.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"78b621e0-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"2864"	"SSBP3"	23648	"mskcc.org"	"GRCh37"	"1"	54690639	54690640	"+"	"3'Flank"	"INS"	"-"	"-"	"CCC"	"rs3215994"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371320"	""	25	"."	6	4	"."	0	"MRPL37,intron_variant,,ENST00000605337,;SSBP3,downstream_gene_variant,,ENST00000371320,NM_145716.3;SSBP3,downstream_gene_variant,,ENST00000417664,;SSBP3,downstream_gene_variant,,ENST00000371319,NM_001009955.3;SSBP3,downstream_gene_variant,,ENST00000357475,NM_018070.4;MRPL37,downstream_gene_variant,,ENST00000398219,;SSBP3,downstream_gene_variant,,ENST00000326956,;SSBP3,downstream_gene_variant,,ENST00000426150,;SSBP3,downstream_gene_variant,,ENST00000533946,;SSBP3,downstream_gene_variant,,ENST00000528930,;"	"CCC"	"ENSG00000157216"	"ENST00000371320"	"Transcript"	"downstream_gene_variant"	"-/2077"	"-/1167"	"-/388"	""	""	"rs3215994"	"1"	"1665"	-1	"SSBP3"	"HGNC"	15674	"protein_coding"	"YES"	"CCDS591.1"	"ENSP00000360371"	"Q9BWW4"	"Q9NW25,Q9BT57"	"UPI0000135F96"	"NM_145716.3"	NA	NA	""	""	""	"-:0.4836"	"CCC:0.5915"	"CCC:0.4222"	NA	"CCC:0.62"	"CCC:0.4354"	"CCC:0.4581"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"ab168652-280f-11e6-851e-0cd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WXS"	FALSE
"2865"	"PPAP2B"	8613	"mskcc.org"	"GRCh37"	"1"	56990479	56990484	"+"	"Intron"	"DEL"	"TGTGTG"	"TGTGTG"	"-"	"rs375643070"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTG"	"TGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.298-258_298-253delCACACA"	""	""	"ENST00000371250"	""	21	"."	5	6	"."	0	"PPAP2B,intron_variant,,ENST00000371250,NM_003713.4;PPAP2B,intron_variant,,ENST00000461655,;"	"-"	"ENSG00000162407"	"ENST00000371250"	"Transcript"	"intron_variant"	"-/3292"	"-/936"	"-/311"	""	""	"rs375643070"	"1"	NA	-1	"PPAP2B"	"HGNC"	9229	"protein_coding"	"YES"	"CCDS604.1"	"ENSP00000360296"	"O14495"	""	"UPI000006F261"	"NM_003713.4"	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATGTGTGT"	"7acd929c-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WXS"	FALSE
"2866"	"C1orf168"	199920	"mskcc.org"	"GRCh37"	"1"	57196063	57196067	"+"	"Intron"	"DEL"	"GAAGT"	"GAAGT"	"-"	"rs200811761"	NA	"JHCCPT5"	"JHCCPN5"	"GAAGT"	"GAAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1794-3811_1794-3807delACTTC"	""	""	"ENST00000343433"	""	7	"."	3	1	"."	0	"C1orf168,intron_variant,,ENST00000343433,NM_001004303.4;C1orf168,intron_variant,,ENST00000484327,;C1orf168,intron_variant,,ENST00000493000,;C1orf168,intron_variant,,ENST00000371240,;"	"-"	"ENSG00000187889"	"ENST00000343433"	"Transcript"	"intron_variant"	"-/3135"	"-/2187"	"-/728"	""	""	"rs200811761"	"1"	NA	-1	"C1orf168"	"HGNC"	27295	"protein_coding"	"YES"	"CCDS30729.1"	"ENSP00000345972"	"Q5VWT5"	""	"UPI000022AE5B"	"NM_001004303.4"	NA	NA	""	"15/19"	""	"-:0.1512"	"-:0.0961"	"-:0.0908"	NA	"-:0.2302"	"-:0.1541"	"-:0.184"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGAAGTG"	"7b02da6a-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2867"	"TACSTD2"	4070	"mskcc.org"	"GRCh37"	"1"	59045329	59045331	"+"	"5'Flank"	"DEL"	"TCG"	"TCG"	"-"	"rs72233190"	NA	"JHCCPT5"	"JHCCPN5"	"TCG"	"TCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371225"	""	24	"."	4	14	"."	0	"TACSTD2,upstream_gene_variant,,ENST00000371225,NM_002353.2;"	"-"	"ENSG00000184292"	"ENST00000371225"	"Transcript"	"upstream_gene_variant"	"-/2068"	"-/972"	"-/323"	""	""	"rs72233190"	"1"	"2163"	-1	"TACSTD2"	"HGNC"	11530	"protein_coding"	"YES"	"CCDS609.1"	"ENSP00000360269"	"P09758"	""	"UPI000006EBAF"	"NM_002353.2"	NA	NA	""	""	""	"-:0.1184"	"-:0.1225"	"-:0.0908"	NA	"-:0.0466"	"-:0.175"	"-:0.1483"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CATCGT"	"7b37efc0-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"2868"	"CACHD1"	57685	"mskcc.org"	"GRCh37"	"1"	65100061	65100062	"+"	"Intron"	"INS"	"-"	"-"	"TATT"	"rs780808784"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.853+137_853+140dupTTTA"	""	""	"ENST00000290039"	""	44	"."	4	13	"."	0	"CACHD1,intron_variant,,ENST00000371073,;CACHD1,intron_variant,,ENST00000290039,NM_020925.2;CACHD1,intron_variant,,ENST00000495994,;CACHD1,intron_variant,,ENST00000470527,;"	"TATT"	"ENSG00000158966"	"ENST00000290039"	"Transcript"	"intron_variant"	"-/5275"	"-/3672"	"-/1223"	""	""	"rs780808784"	"1"	NA	1	"CACHD1"	"HGNC"	29314	"protein_coding"	"YES"	"CCDS628.2"	"ENSP00000290039"	""	""	"UPI0000458A70"	"NM_020925.2"	NA	NA	""	"7/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"22"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"abeb968a-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WXS"	FALSE
"2869"	"JAK1"	3716	"mskcc.org"	"GRCh37"	"1"	65326102	65326103	"+"	"Intron"	"INS"	"-"	"-"	"ATTTATTT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1177-165_1177-158dupAAATAAAT"	""	""	"ENST00000342505"	""	22	"."	4	18	"."	0	"JAK1,intron_variant,,ENST00000342505,NM_002227.2;JAK1,intron_variant,,ENST00000494904,;"	"ATTTATTT"	"ENSG00000162434"	"ENST00000342505"	"Transcript"	"intron_variant"	"-/5047"	"-/3465"	"-/1154"	""	""	""	"1"	NA	-1	"JAK1"	"HGNC"	6190	"protein_coding"	"YES"	"CCDS41346.1"	"ENSP00000343204"	"P23458"	""	"UPI0000054C7D"	"NM_002227.2"	NA	NA	""	"8/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"abee885e-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	TRUE
"2870"	"LEPR"	54741	"mskcc.org"	"GRCh37"	"1"	66103043	66103044	"+"	"3'UTR"	"DEL"	"AC"	"AC"	"-"	"rs68144526"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*362_*363delCA"	""	""	"ENST00000349533"	"20/20"	10	"."	3	3	"."	0	"LEPR,3_prime_UTR_variant,,ENST00000349533,NM_002303.5;LEPR,downstream_gene_variant,,ENST00000371060,NM_001198689.1,NM_001003679.3;LEPR,downstream_gene_variant,,ENST00000406510,;"	"-"	"ENSG00000116678"	"ENST00000349533"	"Transcript"	"3_prime_UTR_variant"	"4028-4029/8227"	"-/3498"	"-/1165"	""	""	"rs68144526"	"1"	NA	1	"LEPR"	"HGNC"	6554	"protein_coding"	"YES"	"CCDS631.1"	"ENSP00000330393"	"P48357"	"L0I9J6,A2RRQ4"	"UPI000014C37B"	"NM_002303.5"	NA	NA	"20/20"	""	""	"AC:0.4263"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAACA"	"7cc156ba-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"2871"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	67538429	67538430	"+"	"IGR"	"INS"	"-"	"-"	"CT"	"rs370903006"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	3	"."	0	""	"CT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs370903006"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"ac34bc2a-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2872"	"IL12RB2"	3595	"mskcc.org"	"GRCh37"	"1"	67837761	67837762	"+"	"Intron"	"INS"	"-"	"-"	"TGTCTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1460-355_1460-354insCTGTGT"	""	""	"ENST00000262345"	""	24	"."	4	6	"."	0	"IL12RB2,intron_variant,,ENST00000262345,NM_001559.2;IL12RB2,intron_variant,,ENST00000371000,NM_001258216.1,NM_001258214.1;IL12RB2,intron_variant,,ENST00000541374,;IL12RB2,intron_variant,,ENST00000544434,NM_001258215.1;"	"TGTCTG"	"ENSG00000081985"	"ENST00000262345"	"Transcript"	"intron_variant"	"-/4040"	"-/2589"	"-/862"	""	""	""	"1"	NA	1	"IL12RB2"	"HGNC"	5972	"protein_coding"	"YES"	"CCDS638.1"	"ENSP00000262345"	"Q99665"	""	"UPI0000046B13"	"NM_001559.2"	NA	NA	""	"10/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"ac496904-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"2873"	"IL12RB2"	3595	"mskcc.org"	"GRCh37"	"1"	67852554	67852587	"+"	"Intron"	"DEL"	"TTTATATATATATATATATATATATATATATATA"	"TTTATATATATATATATATATATATATATATATA"	"-"	"rs145202966"	NA	"JHCCPT5"	"JHCCPN5"	"TTTATATATATATATATATATATATATATATATA"	"TTTATATATATATATATATATATATATATATATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1946+203_1946+236delTTATATATATATATATATATATATATATATATAT"	""	""	"ENST00000262345"	""	17	"."	8	7	"."	0	"IL12RB2,intron_variant,,ENST00000262345,NM_001559.2;IL12RB2,intron_variant,,ENST00000371000,NM_001258216.1,NM_001258214.1;IL12RB2,intron_variant,,ENST00000541374,;IL12RB2,intron_variant,,ENST00000544434,NM_001258215.1;IL12RB2,intron_variant,,ENST00000465396,;"	"-"	"ENSG00000081985"	"ENST00000262345"	"Transcript"	"intron_variant"	"-/4040"	"-/2589"	"-/862"	""	""	"rs145202966"	"1"	NA	1	"IL12RB2"	"HGNC"	5972	"protein_coding"	"YES"	"CCDS638.1"	"ENSP00000262345"	"Q99665"	""	"UPI0000046B13"	"NM_001559.2"	NA	NA	""	"14/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATTTTATATATATATATATATATATATATATATATAT"	"7d34ddc4-280f-11e6-851e-0cd4414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.470588235294118	"WXS"	FALSE
"2874"	"SERBP1"	26135	"mskcc.org"	"GRCh37"	"1"	67890362	67890362	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs3838405"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.695+209delT"	""	""	"ENST00000370995"	""	18	"."	6	3	"."	0	"SERBP1,intron_variant,,ENST00000370994,NM_001018068.1,NM_001018069.1,NM_001018067.1,NM_015640.3;SERBP1,intron_variant,,ENST00000370995,;SERBP1,intron_variant,,ENST00000361219,;SERBP1,intron_variant,,ENST00000370990,;SERBP1,intron_variant,,ENST00000484880,;SERBP1,intron_variant,,ENST00000490406,;SERBP1,upstream_gene_variant,,ENST00000462814,;SERBP1,upstream_gene_variant,,ENST00000493607,;"	"-"	"ENSG00000142864"	"ENST00000370995"	"Transcript"	"intron_variant"	"-/3482"	"-/1227"	"-/408"	""	""	"rs3838405"	"1"	NA	-1	"SERBP1"	"HGNC"	17860	"protein_coding"	"YES"	"CCDS30746.1"	"ENSP00000360034"	"Q8NC51"	""	"UPI0000036970"	""	NA	NA	""	"4/7"	""	"-:0.3810"	"-:0.0855"	"-:0.464"	NA	"-:0.3383"	"-:0.5845"	"-:0.5562"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"7d35d2ec-280f-11e6-851e-0cd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2875"	"ST6GALNAC3"	256435	"mskcc.org"	"GRCh37"	"1"	76843145	76843146	"+"	"Intron"	"INS"	"-"	"AGAG"	"AGAG"	"rs112217624"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.214-34534_214-34531dupGAGA"	""	""	"ENST00000328299"	""	7	"."	5	1	"."	0	"ST6GALNAC3,intron_variant,,ENST00000328299,NM_152996.2;ST6GALNAC3,intron_variant,,ENST00000464140,;"	"AGAG"	"ENSG00000184005"	"ENST00000328299"	"Transcript"	"intron_variant"	"-/6861"	"-/918"	"-/305"	""	""	"rs112217624"	"1"	NA	1	"ST6GALNAC3"	"HGNC"	19343	"protein_coding"	"YES"	"CCDS672.1"	"ENSP00000329214"	"Q8NDV1"	""	"UPI000006F75A"	"NM_152996.2"	NA	NA	""	"2/4"	""	"-:0.2770"	"AGAG:0.6952"	"AGAG:0.7378"	NA	"AGAG:0.7312"	"AGAG:0.7475"	"AGAG:0.7168"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"17"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"acb80008-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2876"	"AK5"	26289	"mskcc.org"	"GRCh37"	"1"	78024162	78024163	"+"	"Intron"	"INS"	"-"	"-"	"GG"	"rs10700476"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1621-118_1621-117dupGG"	""	""	"ENST00000354567"	""	46	"."	7	8	"."	0	"AK5,intron_variant,,ENST00000344720,NM_012093.3;AK5,intron_variant,,ENST00000354567,NM_174858.2;AK5,intron_variant,,ENST00000478255,;AK5,intron_variant,,ENST00000466393,;AK5,intron_variant,,ENST00000531672,;ZZZ3,downstream_gene_variant,,ENST00000481346,;AK5,intron_variant,,ENST00000527263,;"	"GG"	"ENSG00000154027"	"ENST00000354567"	"Transcript"	"intron_variant"	"-/3248"	"-/1689"	"-/562"	""	""	"rs10700476"	"1"	NA	1	"AK5"	"HGNC"	365	"protein_coding"	"YES"	"CCDS675.1"	"ENSP00000346577"	"Q9Y6K8"	"E9PQQ8,E9PIS7"	"UPI0000167E20"	"NM_174858.2"	NA	NA	""	"13/13"	""	"G:0.1683"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"acc21232-280f-11e6-851e-0cd4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152173913043478	"WXS"	FALSE
"2877"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	81481969	81481970	"+"	"IGR"	"INS"	"-"	"-"	"TCTATCTATCTATCTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"TCTATCTATCTATCTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"ad065564-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2878"	"RP11-475O6.1"	101927587	"mskcc.org"	"GRCh37"	"1"	84099876	84099877	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs557366978"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.281-55522dupG"	""	""	"ENST00000417975"	""	6	"."	4	1	"."	0	"RP11-475O6.1,intron_variant,,ENST00000417975,;"	"C"	"ENSG00000233008"	"ENST00000417975"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3177"	""	""	""	""	"rs557366978"	"1"	NA	-1	"RP11-475O6.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	"C:0.0188"	"C:0.0454"	"C:0.013"	NA	"C:0"	"C:0.0209"	"C:0.0041"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"ad1b67ec-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2879"	"COL24A1"	255631	"mskcc.org"	"GRCh37"	"1"	86554813	86554814	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs774329817"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1707+43dupT"	""	""	"ENST00000370571"	""	99	"."	10	21	"."	0	"COL24A1,intron_variant,,ENST00000370571,NM_152890.5;COL24A1,intron_variant,,ENST00000436319,;COL24A1,intron_variant,,ENST00000426639,;"	"A"	"ENSG00000171502"	"ENST00000370571"	"Transcript"	"intron_variant"	"-/6825"	"-/5145"	"-/1714"	""	""	"rs774329817"	"1"	NA	-1	"COL24A1"	"HGNC"	20821	"protein_coding"	"YES"	"CCDS41353.1"	"ENSP00000359603"	"Q17RW2"	"E9PNK8"	"UPI000013E81F"	"NM_152890.5"	NA	NA	""	"7/59"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	"0.437"	"0.2961"	"0.4426"	"0.1729"	"0.6075"	"0.4801"	"0.462"	"0.4171"	NA	"common_variant"	"AGA"	"ad6ff5b4-280f-11e6-851e-0cd4414a729f"	"600"	0.4365	"42305/96922"	"46008/105290"	"2381/8040"	"4538/10254"	"1227/7098"	"3759/6188"	"23741/49446"	"292/632"	"6367/15264"	"PASS"	"FALSE"	0.101010101010101	"WXS"	FALSE
"2880"	"GBP7"	388646	"mskcc.org"	"GRCh37"	"1"	89592459	89592460	"+"	"3'Flank"	"INS"	"-"	"-"	"GT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000294671"	""	8	"."	3	2	"."	0	"GBP7,downstream_gene_variant,,ENST00000294671,NM_207398.2;GBP2,upstream_gene_variant,,ENST00000370466,NM_004120.4;GBP2,intron_variant,,ENST00000464839,;"	"GT"	"ENSG00000213512"	"ENST00000294671"	"Transcript"	"downstream_gene_variant"	"-/2454"	"-/1917"	"-/638"	""	""	""	"1"	"4974"	-1	"GBP7"	"HGNC"	29606	"protein_coding"	"YES"	"CCDS720.1"	"ENSP00000294671"	"Q8N8V2"	""	"UPI000013E1A3"	"NM_207398.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"ad8b5eee-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2881"	"GBP5"	115362	"mskcc.org"	"GRCh37"	"1"	89726090	89726091	"+"	"3'UTR"	"INS"	"-"	"-"	"G"	"rs35850460"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*296dupC"	""	""	"ENST00000343435"	"12/12"	12	"."	8	1	"."	0	"GBP5,3_prime_UTR_variant,,ENST00000343435,NM_001134486.2,NM_052942.3;GBP5,downstream_gene_variant,,ENST00000443807,;GBP5,downstream_gene_variant,,ENST00000370459,;RP4-620F22.2,upstream_gene_variant,,ENST00000437128,;GBP5,downstream_gene_variant,,ENST00000471171,;GBP5,downstream_gene_variant,,ENST00000490568,;GBP5,non_coding_transcript_exon_variant,,ENST00000481145,;"	"G"	"ENSG00000154451"	"ENST00000343435"	"Transcript"	"3_prime_UTR_variant"	"2594-2595/4047"	"-/1761"	"-/586"	""	""	"rs35850460"	"1"	NA	-1	"GBP5"	"HGNC"	19895	"protein_coding"	"YES"	"CCDS722.1"	"ENSP00000340396"	"Q96PP8"	"E7ETN8"	"UPI000004B6D7"	"NM_001134486.2,NM_052942.3"	NA	NA	"12/12"	""	""	"-:0.3213"	"G:0.7602"	"G:0.5605"	NA	"G:0.5645"	"G:0.7376"	"G:0.7096"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"ad8f0a4e-280f-11e6-851e-0cd4414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2882"	"GBP5"	115362	"mskcc.org"	"GRCh37"	"1"	89732536	89732537	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs150724949"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.625+103_625+104delAT"	""	""	"ENST00000343435"	""	42	"."	5	14	"."	0	"GBP5,intron_variant,,ENST00000443807,;GBP5,intron_variant,,ENST00000343435,NM_001134486.2,NM_052942.3;GBP5,intron_variant,,ENST00000370459,;RP4-620F22.2,intron_variant,,ENST00000437128,;GBP5,intron_variant,,ENST00000490568,;GBP5,upstream_gene_variant,,ENST00000471171,;GBP5,upstream_gene_variant,,ENST00000481145,;"	"-"	"ENSG00000154451"	"ENST00000343435"	"Transcript"	"intron_variant"	"-/4047"	"-/1761"	"-/586"	""	""	"rs150724949"	"1"	NA	-1	"GBP5"	"HGNC"	19895	"protein_coding"	"YES"	"CCDS722.1"	"ENSP00000340396"	"Q96PP8"	"E7ETN8"	"UPI000004B6D7"	"NM_001134486.2,NM_052942.3"	NA	NA	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAATA"	"8047de4e-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WXS"	FALSE
"2883"	"CDC7"	8317	"mskcc.org"	"GRCh37"	"1"	91978971	91978972	"+"	"Intron"	"DEL"	"TT"	"TT"	"-"	"rs13447512"	NA	"JHCCPT5"	"JHCCPN5"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.822+113_822+114delTT"	""	""	"ENST00000428239"	""	27	"."	10	11	"."	0	"CDC7,intron_variant,,ENST00000428239,NM_001134420.1;CDC7,intron_variant,,ENST00000234626,NM_001134419.1,NM_003503.3;CDC7,intron_variant,,ENST00000430031,;CDC7,downstream_gene_variant,,ENST00000426137,;CDC7,intron_variant,,ENST00000486509,;"	"-"	"ENSG00000097046"	"ENST00000428239"	"Transcript"	"intron_variant"	"-/3313"	"-/1725"	"-/574"	""	""	"rs13447512"	"1"	NA	1	"CDC7"	"HGNC"	1745	"protein_coding"	"YES"	"CCDS734.1"	"ENSP00000393139"	"O00311"	"B1AMW7"	"UPI0000127400"	"NM_001134420.1"	NA	NA	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTT"	"809dba26-280f-11e6-851e-0cd4414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.37037037037037	"WXS"	FALSE
"2884"	"ENSR00000540710"	0	"mskcc.org"	"GRCh37"	"1"	92394632	92394633	"+"	"IGR"	"INS"	"-"	"AGAGAGAA"	"AGAGAGAA"	"rs67847568"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000540710"	""	7	"."	6	1	"."	0	""	"AGAGAGAA"	""	"ENSR00000540710"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs67847568"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0641"	"AGAGAGAA:0.879"	"AGAGAGAA:0.938"	NA	"AGAGAGAA:0.9792"	"AGAGAGAA:0.9205"	"AGAGAGAA:0.9826"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"adb5d804-280f-11e6-851e-0cd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"2885"	"EVI5"	7813	"mskcc.org"	"GRCh37"	"1"	93046197	93046198	"+"	"Intron"	"INS"	"-"	"-"	"TTTC"	"rs10664061"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2023-16904_2023-16903insGAAA"	""	""	"ENST00000370331"	""	25	"."	4	4	"."	0	"EVI5,intron_variant,,ENST00000370331,NM_005665.4;EVI5,intron_variant,,ENST00000540033,;EVI5,intron_variant,,ENST00000543509,;EVI5,intron_variant,,ENST00000491940,;RP4-593M8.1,non_coding_transcript_exon_variant,,ENST00000413730,;"	"TTTC"	"ENSG00000067208"	"ENST00000370331"	"Transcript"	"intron_variant"	"-/7403"	"-/2433"	"-/810"	""	""	"rs10664061"	"1"	NA	-1	"EVI5"	"HGNC"	3501	"protein_coding"	"YES"	"CCDS30774.1"	"ENSP00000359356"	"O60447"	""	"UPI0000470AFE"	"NM_005665.4"	NA	NA	""	"16/17"	""	"-:0.0497"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"adcc6d9e-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WXS"	FALSE
"2886"	"CCDC18"	343099	"mskcc.org"	"GRCh37"	"1"	93691872	93691872	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs373037965"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2334-18delG"	""	""	"ENST00000370276"	""	167	"."	4	21	"."	0	"CCDC18,intron_variant,,ENST00000343253,;CCDC18,intron_variant,,ENST00000370276,;CCDC18,intron_variant,,ENST00000557479,NM_206886.3;CCDC18,intron_variant,,ENST00000334652,;CCDC18,intron_variant,,ENST00000401026,;CCDC18,intron_variant,,ENST00000338949,;CCDC18,intron_variant,,ENST00000455267,;CCDC18,intron_variant,,ENST00000421014,;"	"-"	"ENSG00000122483"	"ENST00000370276"	"Transcript"	"intron_variant"	"-/4779"	"-/4527"	"-/1508"	""	""	"rs373037965"	"1"	NA	1	"CCDC18"	"HGNC"	30370	"protein_coding"	"YES"	""	"ENSP00000359299"	""	""	"UPI0001F78148"	""	NA	NA	""	"16/28"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.00612"	"0.02522"	"0.005792"	"0.00562"	"0.005224"	"0.004952"	"0.01007"	"0.002117"	NA	"common_variant"	"TTGC"	"8112d57c-280f-11e6-851e-0cd4414a729f"	"240"	0.006199	"566/91304"	"642/104902"	"170/6740"	"56/9668"	"39/6940"	"31/5934"	"234/47258"	"6/596"	"30/14168"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.0239520958083832	"WXS"	FALSE
"2887"	"LINC01057"	101928079	"mskcc.org"	"GRCh37"	"1"	95140627	95140628	"+"	"Intron"	"INS"	"-"	"GATT"	"GATT"	"rs78250507"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.808+4353_808+4354insAATC"	""	""	"ENST00000452922"	""	6	"."	5	4	"."	0	"LINC01057,intron_variant,,ENST00000452922,;LINC01057,intron_variant,,ENST00000442418,;LINC01057,intron_variant,,ENST00000421997,;LINC01057,intron_variant,,ENST00000432162,;LINC01057,downstream_gene_variant,,ENST00000418366,;LINC01057,downstream_gene_variant,,ENST00000414374,;PGBD4P7,upstream_gene_variant,,ENST00000424505,;"	"GATT"	"ENSG00000224081"	"ENST00000452922"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1331"	""	""	""	""	"rs78250507"	"1"	NA	-1	"LINC01057"	"HGNC"	49057	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/4"	""	"-:0.2326"	"GATT:0.5658"	"GATT:0.7968"	NA	"GATT:0.7143"	"GATT:0.9423"	"GATT:0.8937"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"adf30d46-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2888"	"DPYD"	1806	"mskcc.org"	"GRCh37"	"1"	98280640	98280656	"+"	"Intron"	"DEL"	"AGAAAAGAGAAGAGAAG"	"AGAAAAGAGAAGAGAAG"	"-"	"rs140717286"	NA	"JHCCPT5"	"JHCCPN5"	"AGAAAAGAGAAGAGAAG"	"AGAAAAGAGAAGAGAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.233+13014_233+13030delCTTCTCTTCTCTTTTCT"	""	""	"ENST00000370192"	""	29	"."	5	6	"."	0	"DPYD,intron_variant,,ENST00000370192,NM_000110.3;DPYD,intron_variant,,ENST00000306031,NM_001160301.1;DPYD,intron_variant,,ENST00000423006,;"	"-"	"ENSG00000188641"	"ENST00000370192"	"Transcript"	"intron_variant"	"-/4412"	"-/3078"	"-/1025"	""	""	"rs140717286"	"1"	NA	-1	"DPYD"	"HGNC"	3012	"protein_coding"	"YES"	"CCDS30777.1"	"ENSP00000359211"	"Q12882"	""	"UPI0000458949"	"NM_000110.3"	NA	NA	""	"3/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAAGAAAAGAGAAGAGAAGA"	"81d73fe8-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WXS"	FALSE
"2889"	"SNX7"	51375	"mskcc.org"	"GRCh37"	"1"	99157470	99157471	"+"	"Intron"	"INS"	"-"	"-"	"ATACAC"	"rs143738586"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.639+216_639+217insTACACA"	""	""	"ENST00000306121"	""	20	"."	4	4	"."	0	"SNX7,intron_variant,,ENST00000370189,;SNX7,intron_variant,,ENST00000306121,NM_015976.4;SNX7,intron_variant,,ENST00000529992,NM_152238.3;SNX7,downstream_gene_variant,,ENST00000454199,;SNX7,intron_variant,,ENST00000528824,;"	"ATACAC"	"ENSG00000162627"	"ENST00000306121"	"Transcript"	"intron_variant"	"-/1734"	"-/1356"	"-/451"	""	""	"rs143738586"	"1"	NA	1	"SNX7"	"HGNC"	14971	"protein_coding"	"YES"	"CCDS755.2"	"ENSP00000304429"	"Q9UNH6"	"B7ZC83"	"UPI0000205396"	"NM_015976.4"	NA	NA	""	"4/8"	""	"-:0.2656"	"ATAC:0.4985"	"ATAC:0.8271"	NA	"ATAC:0.7907"	"ATAC:0.8638"	"ATAC:0.7965"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"ae06b40e-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"2890"	"AGL"	178	"mskcc.org"	"GRCh37"	"1"	100366445	100366446	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs376846456"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3588+29_3588+30delGT"	""	""	"ENST00000294724"	""	178	"."	4	51	"."	0	"AGL,intron_variant,,ENST00000294724,NM_000028.2;AGL,intron_variant,,ENST00000361915,NM_000642.2;AGL,intron_variant,,ENST00000361302,NM_000646.2;AGL,intron_variant,,ENST00000361522,NM_000645.2;AGL,intron_variant,,ENST00000370163,NM_000643.2;AGL,intron_variant,,ENST00000370165,NM_000644.2;AGL,intron_variant,,ENST00000370161,;"	"-"	"ENSG00000162688"	"ENST00000294724"	"Transcript"	"intron_variant"	"-/7446"	"-/4599"	"-/1532"	""	""	"rs376846456"	"1"	NA	1	"AGL"	"HGNC"	321	"protein_coding"	"YES"	"CCDS759.1"	"ENSP00000294724"	"P35573"	"G1UI17"	"UPI00001694CB"	"NM_000028.2"	NA	NA	""	"26/33"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	"0.0004229"	"0"	"0.0001922"	"0.0004439"	"0.0004907"	"0.0002958"	"0"	"0"	"1"	"common_variant"	"TTTGT"	"82212de2-280f-11e6-851e-0cd4414a729f"	"240"	0.0002346	"22/93778"	"44/104036"	"0/7054"	"2/10408"	"3/6758"	"3/6114"	"14/47324"	"0/630"	"0/15490"	"PASS"	"FALSE"	0.0224719101123595	"WXS"	FALSE
"2891"	"AGL"	178	"mskcc.org"	"GRCh37"	"1"	100366461	100366462	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3588+45_3588+46delCT"	""	""	"ENST00000294724"	""	139	"."	3	39	"."	0	"AGL,intron_variant,,ENST00000294724,NM_000028.2;AGL,intron_variant,,ENST00000361915,NM_000642.2;AGL,intron_variant,,ENST00000361302,NM_000646.2;AGL,intron_variant,,ENST00000361522,NM_000645.2;AGL,intron_variant,,ENST00000370163,NM_000643.2;AGL,intron_variant,,ENST00000370165,NM_000644.2;AGL,intron_variant,,ENST00000370161,;"	"-"	"ENSG00000162688"	"ENST00000294724"	"Transcript"	"intron_variant"	"-/7446"	"-/4599"	"-/1532"	""	""	""	"1"	NA	1	"AGL"	"HGNC"	321	"protein_coding"	"YES"	"CCDS759.1"	"ENSP00000294724"	"P35573"	"G1UI17"	"UPI00001694CB"	"NM_000028.2"	NA	NA	""	"26/33"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTTCT"	"822fe4cc-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0215827338129496	"WXS"	FALSE
"2892"	"SASS6"	163786	"mskcc.org"	"GRCh37"	"1"	100584315	100584316	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs10563016"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.669+258_669+259delCT"	""	""	"ENST00000287482"	""	8	"."	4	1	"."	0	"SASS6,intron_variant,,ENST00000287482,NM_194292.1;SASS6,intron_variant,,ENST00000535161,;SASS6,intron_variant,,ENST00000462159,;"	"-"	"ENSG00000156876"	"ENST00000287482"	"Transcript"	"intron_variant"	"-/3880"	"-/1974"	"-/657"	""	""	"rs10563016"	"1"	NA	-1	"SASS6"	"HGNC"	25403	"protein_coding"	"YES"	"CCDS764.1"	"ENSP00000287482"	"Q6UVJ0"	"F5GXY5,B4DYM7"	"UPI00001BDF30"	"NM_194292.1"	NA	NA	""	"7/16"	""	"AG:0.2027"	"-:0.5257"	"-:0.8977"	NA	"-:0.9266"	"-:0.8559"	"-:0.8998"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAGA"	"8238c36c-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2893"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	107115638	107115639	"+"	"IGR"	"INS"	"-"	"-"	"ACC"	"rs141085720"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	37	"."	5	4	"."	0	""	"ACC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141085720"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"ACC:0.2873"	"ACC:0.3661"	"ACC:0.2248"	NA	"ACC:0.2768"	"ACC:0.2465"	"ACC:0.2781"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"ae688f08-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135135135135135	"WXS"	FALSE
"2894"	"NTNG1"	22854	"mskcc.org"	"GRCh37"	"1"	107946324	107946324	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1061-3980delC"	""	""	"ENST00000370068"	""	146	"."	4	32	"."	0	"NTNG1,intron_variant,,ENST00000370067,;NTNG1,intron_variant,,ENST00000370068,;NTNG1,intron_variant,,ENST00000370073,NM_001113226.1;NTNG1,intron_variant,,ENST00000370071,NM_001113228.1;NTNG1,intron_variant,,ENST00000370074,NM_014917.2;NTNG1,intron_variant,,ENST00000542803,;NTNG1,intron_variant,,ENST00000370061,;NTNG1,intron_variant,,ENST00000370072,;NTNG1,intron_variant,,ENST00000370070,;NTNG1,intron_variant,,ENST00000370065,;NTNG1,intron_variant,,ENST00000370066,;NTNG1,intron_variant,,ENST00000294649,;"	"-"	"ENSG00000162631"	"ENST00000370068"	"Transcript"	"intron_variant"	"-/4034"	"-/1620"	"-/539"	""	""	""	"1"	NA	1	"NTNG1"	"HGNC"	23319	"protein_coding"	"YES"	"CCDS44180.1"	"ENSP00000359085"	"Q9Y2I2"	"Q5IEC8"	"UPI0000458A3E"	""	NA	NA	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTCA"	"833c06c0-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0273972602739726	"WXS"	FALSE
"2895"	"WDR47"	22911	"mskcc.org"	"GRCh37"	"1"	109517699	109517700	"+"	"Intron"	"INS"	"-"	"-"	"GT"	"rs35885413"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2423-324_2423-323insAC"	""	""	"ENST00000400794"	""	6	"."	4	1	"."	0	"WDR47,intron_variant,,ENST00000357672,;WDR47,intron_variant,,ENST00000369965,NM_001142551.1,NM_014969.5,NM_001142550.1;WDR47,intron_variant,,ENST00000369962,;WDR47,intron_variant,,ENST00000400794,;WDR47,intron_variant,,ENST00000361054,;"	"GT"	"ENSG00000085433"	"ENST00000400794"	"Transcript"	"intron_variant"	"-/4134"	"-/2784"	"-/927"	""	""	"rs35885413"	"1"	NA	-1	"WDR47"	"HGNC"	29141	"protein_coding"	"YES"	"CCDS44186.1"	"ENSP00000383599"	"O94967"	"E9PKZ6"	"UPI0001639B05"	""	NA	NA	""	"13/14"	""	"-:0.0188"	"GT:0.9312"	"GT:0.9971"	NA	"GT:0.999"	"GT:1"	"GT:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"ae9c7570-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2896"	"GNAI3"	2773	"mskcc.org"	"GRCh37"	"1"	110111485	110111485	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs10712459"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.119-4866delT"	""	""	"ENST00000369851"	""	7	"."	3	2	"."	0	"GNAI3,intron_variant,,ENST00000369851,NM_006496.3;"	"-"	"ENSG00000065135"	"ENST00000369851"	"Transcript"	"intron_variant"	"-/3206"	"-/1065"	"-/354"	""	""	"rs10712459"	"1"	NA	1	"GNAI3"	"HGNC"	4387	"protein_coding"	"YES"	"CCDS802.1"	"ENSP00000358867"	"P08754"	"Q5TZX1,C9J2Z2"	"UPI000004D205"	"NM_006496.3"	NA	NA	""	"1/8"	""	"-:0.3746"	"-:0.618"	"-:0.1931"	NA	"-:0.369"	"-:0.1839"	"-:0.3763"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTT"	"8483a722-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2897"	"SLC6A17"	388662	"mskcc.org"	"GRCh37"	"1"	110729745	110729746	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAC"	"rs10623549"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.865-4831_865-4826dupCAAAAA"	""	""	"ENST00000331565"	""	8	"."	3	1	"."	0	"SLC6A17,intron_variant,,ENST00000331565,NM_001010898.2;"	"AAAAAC"	"ENSG00000197106"	"ENST00000331565"	"Transcript"	"intron_variant"	"-/6427"	"-/2184"	"-/727"	""	""	"rs10623549"	"1"	NA	1	"SLC6A17"	"HGNC"	31399	"protein_coding"	"YES"	"CCDS30799.1"	"ENSP00000330199"	"Q9H1V8"	""	"UPI0000470B3D"	"NM_001010898.2"	NA	NA	""	"6/11"	""	"-:0.4854"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"23"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"aee066f4-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2898"	"RP3-522D1.1"	0	"mskcc.org"	"GRCh37"	"1"	113425285	113425286	"+"	"3'Flank"	"INS"	"-"	"-"	"AGA"	"rs5777138"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000456651"	""	6	"."	4	2	"."	0	"RP3-522D1.1,downstream_gene_variant,,ENST00000456651,;RP3-522D1.1,downstream_gene_variant,,ENST00000422022,;"	"AGA"	"ENSG00000224167"	"ENST00000456651"	"Transcript"	"downstream_gene_variant"	"-/587"	""	""	""	""	"rs5777138"	"1"	"4792"	1	"RP3-522D1.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4367"	"AGA:0.7572"	"AGA:0.4452"	NA	"AGA:0.7282"	"AGA:0.3241"	"AGA:0.4611"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"af389324-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2899"	"PHTF1"	10745	"mskcc.org"	"GRCh37"	"1"	114295152	114295153	"+"	"Intron"	"INS"	"-"	"-"	"GCTGGGACTACAGGC"	"rs376536242"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.102+5168_102+5169insGCCTGTAGTCCCAGC"	""	""	"ENST00000369604"	""	6	"."	4	2	"."	0	"PHTF1,intron_variant,,ENST00000369604,;PHTF1,intron_variant,,ENST00000393357,NM_006608.2;PHTF1,intron_variant,,ENST00000369596,;PHTF1,intron_variant,,ENST00000369600,;PHTF1,intron_variant,,ENST00000369598,;PHTF1,intron_variant,,ENST00000357783,;PHTF1,intron_variant,,ENST00000447664,;PHTF1,intron_variant,,ENST00000446739,;PHTF1,intron_variant,,ENST00000493212,;"	"GCTGGGACTACAGGC"	"ENSG00000116793"	"ENST00000369604"	"Transcript"	"intron_variant"	"-/3273"	"-/2289"	"-/762"	""	""	"rs376536242"	"1"	NA	-1	"PHTF1"	"HGNC"	8939	"protein_coding"	"YES"	"CCDS861.1"	"ENSP00000358617"	"Q9UMS5"	"F6T5D1"	"UPI000013C9D0"	""	NA	NA	""	"3/18"	""	"-:0.3019"	"GCTGGGACTACAGGC:0.9062"	"GCTGGGACTACAGGC:0.5735"	NA	"GCTGGGACTACAGGC:0.3948"	"GCTGGGACTACAGGC:0.7406"	"GCTGGGACTACAGGC:0.774"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"af57b2d6-280f-11e6-851e-0cd4414a729f"	"206"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2900"	"SYCP1"	6847	"mskcc.org"	"GRCh37"	"1"	115419655	115419657	"+"	"Intron"	"DEL"	"ATA"	"ATA"	"-"	"rs141783933"	NA	"JHCCPT5"	"JHCCPN5"	"ATA"	"ATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.801+227_801+229delATA"	""	""	"ENST00000369522"	""	8	"."	3	2	"."	0	"SYCP1,intron_variant,,ENST00000369522,NM_003176.2,NM_001282541.1;SYCP1,intron_variant,,ENST00000369518,;SYCP1,intron_variant,,ENST00000455987,;SYCP1,downstream_gene_variant,,ENST00000477215,;"	"-"	"ENSG00000198765"	"ENST00000369522"	"Transcript"	"intron_variant"	"-/3522"	"-/2931"	"-/976"	""	""	"rs141783933"	"1"	NA	1	"SYCP1"	"HGNC"	11487	"protein_coding"	"YES"	"CCDS879.1"	"ENSP00000358535"	"Q15431"	"Q5VXJ5"	"UPI00001CE3B9"	"NM_003176.2,NM_001282541.1"	NA	NA	""	"11/31"	""	"-:0.0240"	"-:0.0038"	"-:0.0331"	NA	"-:0.001"	"-:0.0408"	"-:0.0511"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTATAA"	"864f9c8c-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2901"	"IGSF3"	3321	"mskcc.org"	"GRCh37"	"1"	117214318	117214319	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs145720526"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000369483"	""	18	"."	5	5	"."	0	"IGSF3,upstream_gene_variant,,ENST00000369486,NM_001007237.2;IGSF3,upstream_gene_variant,,ENST00000369483,NM_001542.3;MIR320B1,upstream_gene_variant,,ENST00000390209,;"	"A"	"ENSG00000143061"	"ENST00000369483"	"Transcript"	"upstream_gene_variant"	"-/7253"	"-/3645"	"-/1214"	""	""	"rs145720526"	"1"	"4004"	-1	"IGSF3"	"HGNC"	5950	"protein_coding"	"YES"	"CCDS30814.1"	"ENSP00000358495"	"O75054"	""	"UPI0000140437"	"NM_001542.3"	NA	NA	""	""	""	"A:0.0976"	"A:0.0174"	"A:0.17"	NA	"A:0.0169"	"A:0.164"	"A:0.1697"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"af9daf84-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"2902"	"TTF2"	8458	"mskcc.org"	"GRCh37"	"1"	117631883	117631884	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2342+294_2342+295delAT"	""	""	"ENST00000369466"	""	8	"."	3	3	"."	0	"TTF2,intron_variant,,ENST00000369466,NM_003594.3;TTF2,upstream_gene_variant,,ENST00000492682,;"	"-"	"ENSG00000116830"	"ENST00000369466"	"Transcript"	"intron_variant"	"-/9462"	"-/3489"	"-/1162"	""	""	""	"1"	NA	1	"TTF2"	"HGNC"	12398	"protein_coding"	"YES"	"CCDS892.1"	"ENSP00000358478"	"Q9UNY4"	""	"UPI000013CCE7"	"NM_003594.3"	NA	NA	""	"13/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTAT"	"86be2aa8-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2903"	"TBX15"	6913	"mskcc.org"	"GRCh37"	"1"	119427228	119427228	"+"	"3'UTR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*127delC"	""	""	"ENST00000207157"	"8/8"	125	"."	3	39	"."	0	"TBX15,3_prime_UTR_variant,,ENST00000369429,;TBX15,3_prime_UTR_variant,,ENST00000207157,NM_152380.2;TBX15,3_prime_UTR_variant,,ENST00000449873,;"	"-"	"ENSG00000092607"	"ENST00000207157"	"Transcript"	"3_prime_UTR_variant"	"1933/3492"	"-/1491"	"-/496"	""	""	""	"1"	NA	-1	"TBX15"	"HGNC"	11594	"protein_coding"	"YES"	"CCDS30816.1"	"ENSP00000207157"	"Q96SF7"	"Q8N8P2"	"UPI000046D38E"	"NM_152380.2"	NA	NA	"8/8"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAGA"	"87165b24-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.024	"WXS"	FALSE
"2904"	"HMGCS2"	3158	"mskcc.org"	"GRCh37"	"1"	120298519	120298522	"+"	"Intron"	"DEL"	"TGTA"	"TGTA"	"-"	"rs137953643"	NA	"JHCCPT5"	"JHCCPN5"	"TGTA"	"TGTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1017-302_1017-299delTACA"	""	""	"ENST00000369406"	""	9	"."	4	3	"."	0	"HMGCS2,intron_variant,,ENST00000369406,NM_005518.3;HMGCS2,intron_variant,,ENST00000544913,NM_001166107.1;HMGCS2,intron_variant,,ENST00000476640,;HMGCS2,intron_variant,,ENST00000472375,;"	"-"	"ENSG00000134240"	"ENST00000369406"	"Transcript"	"intron_variant"	"-/2428"	"-/1527"	"-/508"	""	""	"rs137953643"	"1"	NA	-1	"HMGCS2"	"HGNC"	5008	"protein_coding"	"YES"	"CCDS905.1"	"ENSP00000358414"	"P54868"	""	"UPI000000DA7A"	"NM_005518.3"	NA	NA	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTGTAT"	"874069c8-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2905"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	142540283	142540284	"+"	"IGR"	"INS"	"-"	"-"	"GAATT"	"rs112268404"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"."	6	20	"."	0	""	"GAATT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112268404"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"afda0916-280f-11e6-851e-0cd4414a729f"	"133"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WXS"	FALSE
"2906"	"SRGAP2B"	0	"mskcc.org"	"GRCh37"	"1"	143983223	143983224	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs199492514"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.916-30671dupA"	""	""	"ENST00000467933"	""	10	"."	4	3	"."	0	"SRGAP2B,intron_variant,,ENST00000467933,;SRGAP2B,intron_variant,,ENST00000491897,;"	"A"	"ENSG00000196369"	"ENST00000467933"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1334"	""	""	""	""	"rs199492514"	"1"	NA	1	"SRGAP2B"	"HGNC"	35237	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	"A:0.3912"	"A:0.3593"	"A:0.3963"	NA	"A:0.4325"	"A:0.3757"	"A:0.4039"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"afe749fa-280f-11e6-851e-0cd4414a729f"	"128"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2907"	"RN7SKP88"	0	"mskcc.org"	"GRCh37"	"1"	145044047	145044048	"+"	"5'Flank"	"INS"	"-"	"-"	"AAT"	"rs113290210"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516847"	""	7	"."	4	2	"."	0	"PDE4DIP,intron_variant,,ENST00000369359,;PDE4DIP,intron_variant,,ENST00000530740,;PDE4DIP,intron_variant,,ENST00000369348,NM_022359.5;PDE4DIP,upstream_gene_variant,,ENST00000313382,NM_001198832.2;PDE4DIP,upstream_gene_variant,,ENST00000493130,;PDE4DIP,upstream_gene_variant,,ENST00000532801,;PDE4DIP,upstream_gene_variant,,ENST00000478649,;PDE4DIP,upstream_gene_variant,,ENST00000533259,;PDE4DIP,upstream_gene_variant,,ENST00000531369,;RN7SKP88,upstream_gene_variant,,ENST00000516847,;PDE4DIP,intron_variant,,ENST00000528552,;PDE4DIP,intron_variant,,ENST00000533396,;PDE4DIP,upstream_gene_variant,,ENST00000532803,;PDE4DIP,upstream_gene_variant,,ENST00000533163,;PDE4DIP,upstream_gene_variant,,ENST00000497529,;PDE4DIP,upstream_gene_variant,,ENST00000530940,;PDE4DIP,upstream_gene_variant,,ENST00000485062,;PDE4DIP,intron_variant,,ENST00000527063,;PDE4DIP,intron_variant,,ENST00000526359,;PDE4DIP,intron_variant,,ENST00000528661,;PDE4DIP,upstream_gene_variant,,ENST00000530078,;PDE4DIP,upstream_gene_variant,,ENST00000530822,;"	"AAT"	"ENSG00000252656"	"ENST00000516847"	"Transcript"	"upstream_gene_variant"	"-/250"	""	""	""	""	"rs113290210"	"1"	"603"	1	"RN7SKP88"	"HGNC"	45812	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.0438"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"b0310572-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2908"	"SEC22B"	101060309	"mskcc.org"	"GRCh37"	"1"	145109290	145109306	"+"	"Intron"	"DEL"	"AAAGAAAAAAAAAAACC"	"AAAGAAAAAAAAAAACC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAAGAAAAAAAAAAACC"	"AAAGAAAAAAAAAAACC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.513-231_513-215delGAAAAAAAAAAACCAAA"	""	""	"ENST00000453618"	""	20	"."	3	4	"."	0	"SEC22B,intron_variant,,ENST00000453618,;"	"-"	"ENSG00000223380"	"ENST00000453618"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2008"	""	""	""	""	""	"1"	NA	1	"SEC22B"	"HGNC"	10700	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAGAAAAAAAAAAACCA"	"88c2d312-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"2909"	"SEC22B"	101060309	"mskcc.org"	"GRCh37"	"1"	145111173	145111176	"+"	"Intron"	"DEL"	"TTTA"	"TTTA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTA"	"TTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.674-1176_674-1173delTTTA"	""	""	"ENST00000453618"	""	9	"."	4	1	"."	0	"SEC22B,intron_variant,,ENST00000453618,;"	"-"	"ENSG00000223380"	"ENST00000453618"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2008"	""	""	""	""	""	"1"	NA	1	"SEC22B"	"HGNC"	10700	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"24"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTAT"	"88d3698e-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"2910"	"NBPF10"	25832	"mskcc.org"	"GRCh37"	"1"	145295547	145295548	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs767969128"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.278+24dupG"	""	""	"ENST00000342960"	""	147	"."	5	65	"."	0	"NBPF10,intron_variant,,ENST00000342960,NM_001039703.5;NBPF10,intron_variant,,ENST00000369339,;NBPF10,intron_variant,,ENST00000369338,;NBPF10,intron_variant,,ENST00000448873,;NOTCH2NL,downstream_gene_variant,,ENST00000344859,;NOTCH2NL,downstream_gene_variant,,ENST00000479995,;NBPF10,intron_variant,,ENST00000490598,;RP11-458D21.5,intron_variant,,ENST00000468030,;NBPF10,intron_variant,,ENST00000464433,;"	"G"	"ENSG00000163386"	"ENST00000342960"	"Transcript"	"intron_variant"	"-/10697"	"-/10662"	"-/3553"	""	""	"rs767969128"	"1"	NA	1	"NBPF10"	"HGNC"	31992	"protein_coding"	"YES"	""	"ENSP00000345684"	""	"S4R3H5,A6NDV3"	"UPI0001CE93AE"	"NM_001039703.5"	NA	NA	""	"2/83"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	"0.0002094"	"0.001554"	"0.0004914"	"0"	"0"	"0"	"0.001684"	"0"	NA	"common_variant"	"GAG"	"b064ea36-280f-11e6-851e-0cd4414a729f"	"89"	0.0002026	"18/88856"	"20/95490"	"12/7722"	"5/10174"	"0/6300"	"0/5540"	"0/44842"	"1/594"	"0/13684"	"PASS"	"FALSE"	0.0340136054421769	"WXS"	FALSE
"2911"	"NBPF10"	25832	"mskcc.org"	"GRCh37"	"1"	145354066	145354071	"+"	"Intron"	"DEL"	"TCTCTG"	"TCTCTG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TCTCTG"	"TCTCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8223-196_8223-191delCTGTCT"	""	""	"ENST00000342960"	""	39	"."	3	12	"."	0	"NBPF10,intron_variant,,ENST00000342960,NM_001039703.5;NBPF10,intron_variant,,ENST00000369339,;NBPF10,intron_variant,,ENST00000369338,;NBPF10,intron_variant,,ENST00000605176,;NBPF10,intron_variant,,ENST00000448873,;NBPF10,intron_variant,,ENST00000490598,;"	"-"	"ENSG00000163386"	"ENST00000342960"	"Transcript"	"intron_variant"	"-/10697"	"-/10662"	"-/3553"	""	""	""	"1"	NA	1	"NBPF10"	"HGNC"	31992	"protein_coding"	"YES"	""	"ENSP00000345684"	""	"S4R3H5,A6NDV3"	"UPI0001CE93AE"	"NM_001039703.5"	NA	NA	""	"65/83"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"33"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTCTGT"	"88f8cfe4-280f-11e6-851e-0cd4414a729f"	"32"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WXS"	FALSE
"2912"	"NBPF15"	284565	"mskcc.org"	"GRCh37"	"1"	148552350	148552355	"+"	"5'Flank"	"DEL"	"TGTATG"	"CTAGT"	"CTAGT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TGTATG"	"TGTATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000464336"	""	7	"."	5	1	"."	0	"NBPF15,upstream_gene_variant,,ENST00000464336,;NBPF15,upstream_gene_variant,,ENST00000488031,;NBPF15,upstream_gene_variant,,ENST00000478419,;"	"CTAGT"	"ENSG00000243452"	"ENST00000464336"	"Transcript"	"upstream_gene_variant"	"-/3303"	""	""	""	""	""	"1"	"3624"	1	"NBPF15"	"HGNC"	28791	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATGTATGC"	"a223c136-280f-11e6-851e-0cd4414a729f"	"109"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2913"	"ENSR00001591458"	0	"mskcc.org"	"GRCh37"	"1"	149272571	149272572	"+"	"IGR"	"INS"	"-"	"-"	"CTGTC"	"rs373644635"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001591458"	""	12	"."	4	8	"."	0	""	"CTGTC"	""	"ENSR00001591458"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs373644635"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"b0af036e-280f-11e6-851e-0cd4414a729f"	"167"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2914"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	149358395	149358396	"+"	"IGR"	"DEL"	"AA"	"AA"	"-"	"rs140522593"	NA	"JHCCPT5"	"JHCCPN5"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140522593"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AA:0.4694"	"-:0.5023"	"-:0.536"	NA	"-:0.5218"	"-:0.5278"	"-:0.5767"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAAA"	"89f9cbdc-280f-11e6-851e-0cd4414a729f"	"189"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2915"	"CTSK"	1513	"mskcc.org"	"GRCh37"	"1"	150779481	150779482	"+"	"Intron"	"INS"	"-"	"-"	"TCTCTCTCTCTCTCTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1-215_-1-200dupGAGAGAGAGAGAGAGA"	""	""	"ENST00000271651"	""	39	"."	3	34	"."	0	"CTSK,intron_variant,,ENST00000271651,NM_000396.3;CTSK,intron_variant,,ENST00000443913,;ARNT,downstream_gene_variant,,ENST00000358595,NM_178427.2,NM_001197325.1,NM_001668.3;ARNT,downstream_gene_variant,,ENST00000354396,NM_001286036.1;ARNT,downstream_gene_variant,,ENST00000515192,NM_001286035.1;ARNT,downstream_gene_variant,,ENST00000505755,;CTSK,upstream_gene_variant,,ENST00000480670,;ARNT,downstream_gene_variant,,ENST00000471844,;"	"TCTCTCTCTCTCTCTC"	"ENSG00000143387"	"ENST00000271651"	"Transcript"	"intron_variant"	"-/1692"	"-/990"	"-/329"	""	""	""	"1"	NA	-1	"CTSK"	"HGNC"	2536	"protein_coding"	"YES"	"CCDS969.1"	"ENSP00000271651"	"P43235"	""	"UPI0000000DFB"	"NM_000396.3"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"b0f44a32-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WXS"	FALSE
"2916"	"POGZ"	23126	"mskcc.org"	"GRCh37"	"1"	151380504	151380508	"+"	"Intron"	"DEL"	"AAAAG"	"AAAAG"	"-"	"rs369570327"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAG"	"AAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2375+68_2375+72delCTTTT"	""	""	"ENST00000271715"	""	138	"."	3	27	"."	0	"POGZ,intron_variant,,ENST00000271715,NM_015100.3,NM_001194937.1;POGZ,intron_variant,,ENST00000361398,NM_001194938.1;POGZ,intron_variant,,ENST00000392723,NM_207171.2;POGZ,intron_variant,,ENST00000368863,NM_145796.3;POGZ,intron_variant,,ENST00000409503,;POGZ,intron_variant,,ENST00000531094,;POGZ,intron_variant,,ENST00000491586,;POGZ,intron_variant,,ENST00000540984,;POGZ,intron_variant,,ENST00000529669,;POGZ,intron_variant,,ENST00000358476,;POGZ,intron_variant,,ENST00000492528,;POGZ,intron_variant,,ENST00000497787,;"	"-"	"ENSG00000143442"	"ENST00000271715"	"Transcript"	"intron_variant"	"-/6626"	"-/4233"	"-/1410"	""	""	"rs369570327"	"1"	NA	-1	"POGZ"	"HGNC"	18801	"protein_coding"	"YES"	"CCDS997.1"	"ENSP00000271715"	"Q7Z3K3"	"F5H8H4,E9PJY9,E9PIR8"	"UPI000035895F"	"NM_015100.3,NM_001194937.1"	NA	NA	""	"15/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAAAAAGA"	"8bbcefa8-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0217391304347826	"WXS"	FALSE
"2917"	"POGZ"	23126	"mskcc.org"	"GRCh37"	"1"	151380505	151380508	"+"	"Intron"	"DEL"	"AAAG"	"AAAG"	"-"	"rs200057999"	NA	"JHCCPT5"	"JHCCPN5"	"AAAG"	"AAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2375+68_2375+71delCTTT"	""	""	"ENST00000271715"	""	139	"."	3	28	"."	0	"POGZ,intron_variant,,ENST00000271715,NM_015100.3,NM_001194937.1;POGZ,intron_variant,,ENST00000361398,NM_001194938.1;POGZ,intron_variant,,ENST00000392723,NM_207171.2;POGZ,intron_variant,,ENST00000368863,NM_145796.3;POGZ,intron_variant,,ENST00000409503,;POGZ,intron_variant,,ENST00000531094,;POGZ,intron_variant,,ENST00000491586,;POGZ,intron_variant,,ENST00000540984,;POGZ,intron_variant,,ENST00000529669,;POGZ,intron_variant,,ENST00000358476,;POGZ,intron_variant,,ENST00000492528,;POGZ,intron_variant,,ENST00000497787,;"	"-"	"ENSG00000143442"	"ENST00000271715"	"Transcript"	"intron_variant"	"-/6626"	"-/4233"	"-/1410"	""	""	"rs200057999"	"1"	NA	-1	"POGZ"	"HGNC"	18801	"protein_coding"	"YES"	"CCDS997.1"	"ENSP00000271715"	"Q7Z3K3"	"F5H8H4,E9PJY9,E9PIR8"	"UPI000035895F"	"NM_015100.3,NM_001194937.1"	NA	NA	""	"15/18"	""	"AAAG:0.0074"	"-:0.9735"	"-:0.9971"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAAAAGA"	"8bd68fd0-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0215827338129496	"WXS"	FALSE
"2918"	"ENSR00001591855"	0	"mskcc.org"	"GRCh37"	"1"	151898884	151898885	"+"	"IGR"	"INS"	"-"	"-"	"CCAAGGGGGTTTTATTGGCT"	"rs142924977"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001591855"	""	7	"."	4	1	"."	0	""	"CCAAGGGGGTTTTATTGGCT"	""	"ENSR00001591855"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs142924977"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0763"	"CCAAGGGGGTTTTATTGGCT:0.9047"	"CCAAGGGGGTTTTATTGGCT:0.9092"	NA	"CCAAGGGGGTTTTATTGGCT:0.9484"	"CCAAGGGGGTTTTATTGGCT:0.9145"	"CCAAGGGGGTTTTATTGGCT:0.9438"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"b154bcfa-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2919"	"FLG-AS1"	339400	"mskcc.org"	"GRCh37"	"1"	152170327	152170328	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs144950285"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.158+8352dupT"	""	""	"ENST00000420707"	""	16	"."	3	6	"."	0	"FLG-AS1,intron_variant,,ENST00000420707,;FLG-AS1,intron_variant,,ENST00000593011,;"	"T"	"ENSG00000237975"	"ENST00000420707"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/906"	""	""	""	""	"rs144950285"	"1"	NA	1	"FLG-AS1"	"HGNC"	27913	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"b1a5485a-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"2920"	"IL6R"	3570	"mskcc.org"	"GRCh37"	"1"	154421674	154421675	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs75050204"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.997-712dupA"	""	""	"ENST00000368485"	""	6	"."	4	2	"."	0	"IL6R,intron_variant,,ENST00000368485,NM_000565.3;IL6R,intron_variant,,ENST00000344086,NM_181359.2;IL6R,intron_variant,,ENST00000476006,;IL6R,intron_variant,,ENST00000515190,;IL6R,intron_variant,,ENST00000507256,;IL6R,upstream_gene_variant,,ENST00000502679,;"	"A"	"ENSG00000160712"	"ENST00000368485"	"Transcript"	"intron_variant"	"-/5914"	"-/1407"	"-/468"	""	""	"rs75050204"	"1"	NA	1	"IL6R"	"HGNC"	6019	"protein_coding"	"YES"	"CCDS1067.1"	"ENSP00000357470"	"P08887"	"A0N0L5"	"UPI00000358BA"	"NM_000565.3"	NA	NA	""	"7/9"	""	"-:0.0000"	"A:1"	"A:1"	NA	"A:1"	"A:1"	"A:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTA"	"b222285c-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2921"	"KCNN3"	3782	"mskcc.org"	"GRCh37"	"1"	154728670	154728671	"+"	"Intron"	"INS"	"-"	"-"	"GGA"	"rs138746046"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1448+15778_1448+15780dupTCC"	""	""	"ENST00000271915"	""	50	"."	4	34	"."	0	"KCNN3,intron_variant,,ENST00000271915,NM_001204087.1,NM_002249.5;KCNN3,intron_variant,,ENST00000361147,NM_170782.2;KCNN3,intron_variant,,ENST00000358505,;"	"GGA"	"ENSG00000143603"	"ENST00000271915"	"Transcript"	"intron_variant"	"-/13033"	"-/2196"	"-/731"	""	""	"rs138746046"	"1"	NA	-1	"KCNN3"	"HGNC"	6292	"protein_coding"	"YES"	"CCDS30880.1"	"ENSP00000271915"	""	"Q6JXY2"	"UPI000013D915"	"NM_001204087.1,NM_002249.5"	NA	NA	""	"3/7"	""	"-:0.4758"	"GGA:0.3253"	"GGA:0.6196"	NA	"GGA:0.6885"	"GGA:0.4751"	"GGA:0.6063"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"b23f02c4-280f-11e6-851e-0cd4414a729f"	"238"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WXS"	FALSE
"2922"	"DAP3"	7818	"mskcc.org"	"GRCh37"	"1"	155691192	155691193	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs61465399"	NA	"JHCCPT5"	"JHCCPN5"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.169-100_169-99delTA"	""	""	"ENST00000368336"	""	89	"."	3	9	"."	0	"DAP3,intron_variant,,ENST00000368336,NM_004632.3,NM_001199849.1;DAP3,intron_variant,,ENST00000471642,;DAP3,intron_variant,,ENST00000343043,NM_033657.2;DAP3,intron_variant,,ENST00000421487,NM_001199850.1;DAP3,intron_variant,,ENST00000535183,NM_001199851.1;MSTO1,intron_variant,,ENST00000452804,;DAP3,intron_variant,,ENST00000471214,;MSTO1,intron_variant,,ENST00000538143,;DAP3,intron_variant,,ENST00000497826,;DAP3,intron_variant,,ENST00000465375,;DAP3,intron_variant,,ENST00000463575,;DAP3,intron_variant,,ENST00000470830,;DAP3,intron_variant,,ENST00000608852,;DAP3,upstream_gene_variant,,ENST00000479151,;DAP3,intron_variant,,ENST00000496863,;DAP3,intron_variant,,ENST00000462002,;DAP3,intron_variant,,ENST00000471523,;MSTO2P,intron_variant,,ENST00000538914,;"	"-"	"ENSG00000132676"	"ENST00000368336"	"Transcript"	"intron_variant"	"-/2089"	"-/1197"	"-/398"	""	""	"rs61465399"	"1"	NA	1	"DAP3"	"HGNC"	2673	"protein_coding"	"YES"	"CCDS1120.1"	"ENSP00000357320"	"P51398"	"E2JL21"	"UPI000004ABE5"	"NM_004632.3,NM_001199849.1"	NA	NA	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"16"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTAT"	"8eb3616a-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0337078651685393	"WXS"	FALSE
"2923"	"GPATCH4"	54865	"mskcc.org"	"GRCh37"	"1"	156565049	156565050	"+"	"Frame_Shift_Ins"	"INS"	"-"	"-"	"TC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1083_1084insGA"	"p.Phe362AspfsTer?"	"p.F362Dfs*?"	"ENST00000438976"	"8/8"	670	"."	4	343	"."	0	"GPATCH4,frameshift_variant,p.Phe357AspfsTer91,ENST00000368232,NM_015590.3,NM_182679.2;GPATCH4,frameshift_variant,p.Phe362AspfsTer?,ENST00000438976,;APOA1BP,downstream_gene_variant,,ENST00000368235,NM_144772.2;APOA1BP,downstream_gene_variant,,ENST00000368233,;GPATCH4,downstream_gene_variant,,ENST00000415314,;APOA1BP,downstream_gene_variant,,ENST00000368234,;GPATCH4,downstream_gene_variant,,ENST00000334588,;GPATCH4,downstream_gene_variant,,ENST00000497287,;APOA1BP,downstream_gene_variant,,ENST00000467374,;GPATCH4,downstream_gene_variant,,ENST00000531129,;APOA1BP,downstream_gene_variant,,ENST00000488840,;GPATCH4,downstream_gene_variant,,ENST00000473910,;GPATCH4,downstream_gene_variant,,ENST00000506832,;GPATCH4,downstream_gene_variant,,ENST00000463513,;GPATCH4,downstream_gene_variant,,ENST00000527691,;GPATCH4,downstream_gene_variant,,ENST00000494414,;GPATCH4,downstream_gene_variant,,ENST00000474904,;GPATCH4,downstream_gene_variant,,ENST00000531900,;GPATCH4,downstream_gene_variant,,ENST00000498756,;GPATCH4,downstream_gene_variant,,ENST00000529520,;GPATCH4,downstream_gene_variant,,ENST00000498641,;GPATCH4,downstream_gene_variant,,ENST00000525375,;"	"TC"	"ENSG00000160818"	"ENST00000438976"	"Transcript"	"frameshift_variant"	"1114-1115/1159"	"1083-1084/1128"	"361-362/375"	"-/X"	"-/GA"	""	"1"	NA	-1	"GPATCH4"	"HGNC"	25982	"protein_coding"	"YES"	"CCDS44245.1"	"ENSP00000396441"	""	"E9PAV9"	"UPI00001B55A9"	""	NA	NA	"8/8"	""	"hmmpanther:PTHR23149,hmmpanther:PTHR23149:SF8"	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"HIGH"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"b2c520f2-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.00597014925373134	"WXS"	FALSE
"2924"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	159612766	159612767	"+"	"IGR"	"INS"	"-"	"AG"	"AG"	"rs111984935"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	3	"."	0	""	"AG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs111984935"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1198"	"AG:0.8896"	"AG:0.9135"	NA	"AG:0.9802"	"AG:0.8429"	"AG:0.7791"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"b34df7f6-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2925"	"ENSR00000080526"	0	"mskcc.org"	"GRCh37"	"1"	160697491	160697492	"+"	"IGR"	"INS"	"-"	"-"	"TC"	"rs60207929"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000080526"	""	6	"."	4	3	"."	0	""	"TC"	""	"ENSR00000080526"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs60207929"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3027"	"TC:0.7874"	"TC:0.7594"	NA	"TC:0.6508"	"TC:0.7565"	"TC:0.5184"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"b3985224-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2926"	"ARHGAP30"	257106	"mskcc.org"	"GRCh37"	"1"	161034643	161034651	"+"	"Intron"	"DEL"	"AGGAAGGAG"	"AGGAAGGAG"	"-"	"rs140825765"	NA	"JHCCPT5"	"JHCCPN5"	"AGGAAGGAG"	"AGGAAGGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.97+4667_97+4675delCTCCTTCCT"	""	""	"ENST00000368013"	""	16	"."	5	4	"."	0	"ARHGAP30,intron_variant,,ENST00000368013,NM_181720.2,NM_001025598.1;ARHGAP30,intron_variant,,ENST00000368015,NM_001287602.1;ARHGAP30,intron_variant,,ENST00000368016,;AL591806.1,upstream_gene_variant,,ENST00000600454,;ARHGAP30,intron_variant,,ENST00000461003,;ARHGAP30,intron_variant,,ENST00000490279,;ARHGAP30,intron_variant,,ENST00000368018,;ARHGAP30,intron_variant,,ENST00000471492,;"	"-"	"ENSG00000186517"	"ENST00000368013"	"Transcript"	"intron_variant"	"-/4394"	"-/3306"	"-/1101"	""	""	"rs140825765"	"1"	NA	-1	"ARHGAP30"	"HGNC"	27414	"protein_coding"	"YES"	"CCDS30918.1"	"ENSP00000356992"	"Q7Z6I6"	""	"UPI0000160677"	"NM_181720.2,NM_001025598.1"	NA	NA	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGGAAGGAGA"	"9196304c-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"2927"	"DUSP12"	11266	"mskcc.org"	"GRCh37"	"1"	161722779	161722780	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs35439833"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.675-77_675-76dupAA"	""	""	"ENST00000367943"	""	135	"."	7	48	"."	0	"DUSP12,intron_variant,,ENST00000367943,NM_007240.1;DUSP12,intron_variant,,ENST00000484291,;DUSP12,intron_variant,,ENST00000464004,;DUSP12,intron_variant,,ENST00000463365,;DUSP12,downstream_gene_variant,,ENST00000490591,;"	"AA"	"ENSG00000081721"	"ENST00000367943"	"Transcript"	"intron_variant"	"-/1270"	"-/1023"	"-/340"	""	""	"rs35439833"	"1"	NA	1	"DUSP12"	"HGNC"	3067	"protein_coding"	"YES"	"CCDS1234.1"	"ENSP00000356920"	"Q9UNI6"	""	"UPI0000034737"	"NM_007240.1"	NA	NA	""	"4/5"	""	"-:0.1975"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"b3c85b04-280f-11e6-851e-0cd4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0518518518518519	"WXS"	FALSE
"2928"	"RGS4"	5999	"mskcc.org"	"GRCh37"	"1"	163038323	163038324	"+"	"5'Flank"	"INS"	"-"	"-"	"AGTTTGG"	"rs16864782"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000421743"	""	10	"."	4	8	"."	0	"RGS4,upstream_gene_variant,,ENST00000421743,NM_001102445.2,NM_001113380.1;RGS4,upstream_gene_variant,,ENST00000367909,NM_005613.5,NM_001113380.1;RGS4,upstream_gene_variant,,ENST00000367908,NM_001113381.1;RGS4,upstream_gene_variant,,ENST00000367906,;RGS4,upstream_gene_variant,,ENST00000527809,;RGS4,upstream_gene_variant,,ENST00000528938,;RGS4,upstream_gene_variant,,ENST00000531057,;RGS4,upstream_gene_variant,,ENST00000491263,;RGS4,upstream_gene_variant,,ENST00000527393,;RGS4,upstream_gene_variant,,ENST00000533019,;"	"AGTTTGG"	"ENSG00000117152"	"ENST00000421743"	"Transcript"	"upstream_gene_variant"	"-/3311"	"-/909"	"-/302"	""	""	"rs16864782"	"1"	"241"	1	"RGS4"	"HGNC"	10000	"protein_coding"	"YES"	"CCDS44270.1"	"ENSP00000397181"	"P49798"	"E9PS05"	"UPI0000E1EDBA"	"NM_001102445.2,NM_001113380.1"	NA	NA	""	""	""	"AGTTTGG:0.0937"	"AGTTTGG:0.1989"	"AGTTTGG:0.0749"	NA	"AGTTTGG:0.0585"	"AGTTTGG:0.0626"	"AGTTTGG:0.0327"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"b3eb556e-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2929"	"ALDH9A1"	223	"mskcc.org"	"GRCh37"	"1"	165649468	165649469	"+"	"Intron"	"DEL"	"AC"	"AC"	"-"	"rs139558109"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.789+255_789+256delGT"	""	""	"ENST00000354775"	""	7	"."	3	3	"."	0	"ALDH9A1,intron_variant,,ENST00000354775,NM_000696.3;ALDH9A1,intron_variant,,ENST00000538148,;ALDH9A1,intron_variant,,ENST00000491436,;ALDH9A1,downstream_gene_variant,,ENST00000461664,;ALDH9A1,downstream_gene_variant,,ENST00000471457,;RP11-466F5.4,downstream_gene_variant,,ENST00000437709,;"	"-"	"ENSG00000143149"	"ENST00000354775"	"Transcript"	"intron_variant"	"-/2696"	"-/1557"	"-/518"	""	""	"rs139558109"	"1"	NA	-1	"ALDH9A1"	"HGNC"	412	"protein_coding"	"YES"	"CCDS1250.2"	"ENSP00000346827"	"P49189"	"B9EKV4,B4DXY7,B4DX14,B4DE91"	"UPI00003E07DD"	"NM_000696.3"	NA	NA	""	"5/10"	""	"-:0.3241"	"-:0.3707"	"-:0.2795"	NA	"-:0.1458"	"-:0.4712"	"-:0.3252"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGACA"	"92d7716e-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2930"	"RPL4P2"	0	"mskcc.org"	"GRCh37"	"1"	166717478	166717478	"+"	"RNA"	"DEL"	"T"	"T"	"-"	"rs60029139"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.865delT"	""	""	"ENST00000447259"	"1/1"	10	"."	5	2	"."	0	"RPL4P2,non_coding_transcript_exon_variant,,ENST00000447259,;"	"-"	"ENSG00000232341"	"ENST00000447259"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"863/1282"	""	""	""	""	"rs60029139"	"1"	NA	1	"RPL4P2"	"HGNC"	36836	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"T:0.0733"	"-:0.9675"	"-:0.8876"	NA	"-:0.999"	"-:0.7922"	"-:0.9632"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"92fed18c-280f-11e6-851e-0cd4414a729f"	"291"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2931"	"POU2F1"	5451	"mskcc.org"	"GRCh37"	"1"	167368057	167368058	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs5778547"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1270-366_1270-365insC"	""	""	"ENST00000367866"	""	12	"."	5	2	"."	0	"POU2F1,intron_variant,,ENST00000367862,NM_001198783.1;POU2F1,intron_variant,,ENST00000367866,NM_002697.3,NM_001198786.1;POU2F1,intron_variant,,ENST00000541643,;POU2F1,intron_variant,,ENST00000429375,;POU2F1,intron_variant,,ENST00000420254,;POU2F1,intron_variant,,ENST00000443275,;POU2F1,downstream_gene_variant,,ENST00000452019,;POU2F1,intron_variant,,ENST00000367865,;POU2F1,downstream_gene_variant,,ENST00000559648,;POU2F1,intron_variant,,ENST00000271411,;POU2F1,intron_variant,,ENST00000557874,;POU2F1,downstream_gene_variant,,ENST00000560232,;"	"C"	"ENSG00000143190"	"ENST00000367866"	"Transcript"	"intron_variant"	"-/13905"	"-/2301"	"-/766"	""	""	"rs5778547"	"1"	NA	1	"POU2F1"	"HGNC"	9212	"protein_coding"	"YES"	"CCDS1259.2"	"ENSP00000356840"	""	"J3KP77"	"UPI0000EE3C74"	"NM_002697.3,NM_001198786.1"	NA	NA	""	"11/15"	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"b4254558-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"2932"	"CREG1"	8804	"mskcc.org"	"GRCh37"	"1"	167509624	167509625	"+"	"3'Flank"	"INS"	"-"	"-"	"GCAGCAGCAGCAGCAGCAGCA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000370509"	""	46	"."	3	32	"."	0	"CREG1,downstream_gene_variant,,ENST00000370509,NM_003851.2;CREG1,intron_variant,,ENST00000466652,;"	"GCAGCAGCAGCAGCAGCAGCA"	"ENSG00000143162"	"ENST00000370509"	"Transcript"	"downstream_gene_variant"	"-/1974"	"-/663"	"-/220"	""	""	""	"1"	"625"	-1	"CREG1"	"HGNC"	2351	"protein_coding"	"YES"	"CCDS1262.1"	"ENSP00000359540"	"O75629"	""	"UPI0000047822"	"NM_003851.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"b42da57c-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WXS"	FALSE
"2933"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	167583293	167583293	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs75544222"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs75544222"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3203"	"-:0.1634"	"-:0.3775"	NA	"-:0.3562"	"-:0.4195"	"-:0.3528"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTT"	"93268858-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2934"	"LINC00970"	101978719	"mskcc.org"	"GRCh37"	"1"	168993799	168993800	"+"	"Intron"	"INS"	"-"	"-"	"GAG"	"rs149423617"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.209+31620_209+31622dupCTC"	""	""	"ENST00000366408"	""	16	"."	4	2	"."	0	"LINC00970,intron_variant,,ENST00000366408,;"	"GAG"	"ENSG00000203601"	"ENST00000366408"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1129"	""	""	""	""	"rs149423617"	"1"	NA	-1	"LINC00970"	"HGNC"	48730	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"b4444cd2-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2935"	"NME7"	29922	"mskcc.org"	"GRCh37"	"1"	169256356	169256357	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs5778611"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.754+184dupT"	""	""	"ENST00000367811"	""	27	"."	8	4	"."	0	"NME7,intron_variant,,ENST00000367811,NM_013330.3;NME7,intron_variant,,ENST00000472647,NM_197972.1;NME7,intron_variant,,ENST00000480478,;NME7,intron_variant,,ENST00000483228,;NME7,downstream_gene_variant,,ENST00000469474,;NME7,non_coding_transcript_exon_variant,,ENST00000524967,;NME7,intron_variant,,ENST00000525440,;NME7,intron_variant,,ENST00000528517,;"	"A"	"ENSG00000143156"	"ENST00000367811"	"Transcript"	"intron_variant"	"-/1642"	"-/1131"	"-/376"	""	""	"rs5778611"	"1"	NA	-1	"NME7"	"HGNC"	20461	"protein_coding"	"YES"	"CCDS1277.1"	"ENSP00000356785"	"Q9Y5B8"	""	"UPI000012FE8C"	"NM_013330.3"	NA	NA	""	"7/11"	""	"A:0.4385"	"A:0.348"	"A:0.3285"	NA	"A:0.7679"	"A:0.4145"	"A:0.3241"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"b45750c0-280f-11e6-851e-0cd4414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WXS"	FALSE
"2936"	"RP11-576I22.2"	101928650	"mskcc.org"	"GRCh37"	"1"	170493247	170493248	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35728538"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.118-5621dupA"	""	""	"ENST00000421020"	""	8	"."	3	2	"."	0	"RP11-576I22.2,intron_variant,,ENST00000421020,;RP11-576I22.2,intron_variant,,ENST00000456083,;"	"T"	"ENSG00000231407"	"ENST00000421020"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/755"	""	""	""	""	"rs35728538"	"1"	NA	-1	"RP11-576I22.2"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"T:0.1472"	"T:0.0272"	"T:0.2709"	NA	"T:0.0159"	"T:0.3757"	"T:0.1217"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"b4901a36-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2937"	"RP1-15D23.2"	0	"mskcc.org"	"GRCh37"	"1"	172813984	172813985	"+"	"Intron"	"INS"	"-"	"-"	"AGAGAGAGAGAGAA"	"rs149279166"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.223+68721_223+68722insAGAGAGAGAAAGAG"	""	""	"ENST00000432694"	""	19	"."	4	6	"."	0	"RP1-15D23.2,intron_variant,,ENST00000432694,;"	"AGAGAGAGAGAGAA"	"ENSG00000224228"	"ENST00000432694"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/808"	""	""	""	""	"rs149279166"	"1"	NA	1	"RP1-15D23.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	"-:0.4673"	"AGAGAGAGAGAGAA:0.7398"	"AGAGAGAGAGAGAA:0.415"	NA	"AGAGAGAGAGAGAA:0.1458"	"AGAGAGAGAGAGAA:0.7237"	"AGAGAGAGAGAGAA:0.5389"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"b4c2d4a8-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"2938"	"RABGAP1L"	9910	"mskcc.org"	"GRCh37"	"1"	174846263	174846265	"+"	"Intron"	"DEL"	"TTG"	"TTG"	"-"	"rs150345425"	NA	"JHCCPT5"	"JHCCPN5"	"TTG"	"TTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2340+65173_2340+65175delGTT"	""	""	"ENST00000251507"	""	7	"."	3	1	"."	0	"RABGAP1L,intron_variant,,ENST00000489615,NM_001243765.1;RABGAP1L,intron_variant,,ENST00000251507,NM_014857.4;RABGAP1L,intron_variant,,ENST00000325589,;RABGAP1L,intron_variant,,ENST00000367687,;RABGAP1L,intron_variant,,ENST00000347255,;RABGAP1L,intron_variant,,ENST00000486220,NM_001035230.2;RABGAP1L,intron_variant,,ENST00000465412,;RABGAP1L,intron_variant,,ENST00000478442,NM_001243763.1;RABGAP1L,upstream_gene_variant,,ENST00000392064,;RABGAP1L,intron_variant,,ENST00000367686,;RABGAP1L,intron_variant,,ENST00000469553,;"	"-"	"ENSG00000152061"	"ENST00000251507"	"Transcript"	"intron_variant"	"-/2899"	"-/2448"	"-/815"	""	""	"rs150345425"	"1"	NA	1	"RABGAP1L"	"HGNC"	24663	"protein_coding"	"YES"	"CCDS1314.1"	"ENSP00000251507"	"Q5R372"	"F1LJ00"	"UPI0000458A9F"	"NM_014857.4"	NA	NA	""	"19/20"	""	"-:0.1278"	"-:0.0696"	"-:0.0893"	NA	"-:0.2073"	"-:0.1133"	"-:0.1667"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTGT"	"950bf8e2-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"2939"	"ABL2"	27	"mskcc.org"	"GRCh37"	"1"	179088222	179088224	"+"	"Intron"	"DEL"	"CTC"	"CTC"	"-"	"rs5779007"	NA	"JHCCPT5"	"JHCCPN5"	"CTC"	"CTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1046-325_1046-323delGAG"	""	""	"ENST00000502732"	""	12	"."	5	3	"."	0	"ABL2,intron_variant,,ENST00000502732,NM_001168237.1,NM_007314.3,NM_001168238.1,NM_001168236.1;ABL2,intron_variant,,ENST00000408940,NM_001168239.1;ABL2,intron_variant,,ENST00000344730,NM_001136000.2,NM_005158.4;ABL2,intron_variant,,ENST00000512653,;ABL2,intron_variant,,ENST00000367623,;ABL2,intron_variant,,ENST00000511413,;ABL2,intron_variant,,ENST00000507173,;ABL2,intron_variant,,ENST00000504405,;ABL2,intron_variant,,ENST00000392043,NM_001136001.1;ABL2,intron_variant,,ENST00000504324,;ABL2,intron_variant,,ENST00000509520,;"	"-"	"ENSG00000143322"	"ENST00000502732"	"Transcript"	"intron_variant"	"-/12144"	"-/3549"	"-/1182"	""	""	"rs5779007"	"1"	NA	-1	"ABL2"	"HGNC"	77	"protein_coding"	"YES"	"CCDS30947.1"	"ENSP00000427562"	"P42684"	""	"UPI0000125140"	"NM_001168237.1,NM_007314.3,NM_001168238.1,NM_001168236.1"	NA	NA	""	"6/11"	""	"CTC:0.4950"	"-:0.4758"	"-:0.4164"	NA	"-:0.5288"	"-:0.502"	"-:0.5859"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTCC"	"960cc62c-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	TRUE
"2940"	"ABL2"	27	"mskcc.org"	"GRCh37"	"1"	179143077	179143080	"+"	"Intron"	"DEL"	"ACCT"	"ACCT"	"-"	"rs3046361"	NA	"JHCCPT5"	"JHCCPN5"	"ACCT"	"ACCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.158-40571_158-40568delAGGT"	""	""	"ENST00000502732"	""	7	"."	4	2	"."	0	"ABL2,intron_variant,,ENST00000502732,NM_001168237.1,NM_007314.3,NM_001168238.1,NM_001168236.1;ABL2,intron_variant,,ENST00000367623,;ABL2,intron_variant,,ENST00000511413,;ABL2,intron_variant,,ENST00000507173,;ABL2,intron_variant,,ENST00000392043,NM_001136001.1;"	"-"	"ENSG00000143322"	"ENST00000502732"	"Transcript"	"intron_variant"	"-/12144"	"-/3549"	"-/1182"	""	""	"rs3046361"	"1"	NA	-1	"ABL2"	"HGNC"	77	"protein_coding"	"YES"	"CCDS30947.1"	"ENSP00000427562"	"P42684"	""	"UPI0000125140"	"NM_001168237.1,NM_007314.3,NM_001168238.1,NM_001168236.1"	NA	NA	""	"1/11"	""	"-:0.2304"	"-:0.0121"	"-:0.3487"	NA	"-:0.3214"	"-:0.2853"	"-:0.2914"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCACCTA"	"961a2420-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	TRUE
"2941"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	179217318	179217321	"+"	"IGR"	"DEL"	"GGAA"	"GGAA"	"-"	"rs60293082"	NA	"JHCCPT5"	"JHCCPN5"	"GGAA"	"GGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs60293082"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3107"	"-:0.143"	"-:0.402"	NA	"-:0.3998"	"-:0.3827"	"-:0.3067"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGGAAG"	"961ffe36-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"2942"	"SOAT1"	6646	"mskcc.org"	"GRCh37"	"1"	179259037	179259037	"+"	"5'Flank"	"DEL"	"C"	"C"	"-"	"rs148027220"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000367619"	""	6	"."	4	3	"."	0	"SOAT1,upstream_gene_variant,,ENST00000367619,NM_003101.5;SOAT1,upstream_gene_variant,,ENST00000540564,NM_001252511.1;SOAT1,upstream_gene_variant,,ENST00000535686,;SOAT1,upstream_gene_variant,,ENST00000539888,NM_001252512.1;SOAT1,upstream_gene_variant,,ENST00000426956,;"	"-"	"ENSG00000057252"	"ENST00000367619"	"Transcript"	"upstream_gene_variant"	"-/6835"	"-/1653"	"-/550"	""	""	"rs148027220"	"1"	"3900"	1	"SOAT1"	"HGNC"	11177	"protein_coding"	"YES"	"CCDS1330.1"	"ENSP00000356591"	"P35610"	"B4DFD8,B1APM4"	"UPI0000071233"	"NM_003101.5"	NA	NA	""	""	""	"-:0.0187"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"9621259a-280f-11e6-851e-0cd4414a729f"	"224"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2943"	"AXDND1"	126859	"mskcc.org"	"GRCh37"	"1"	179428995	179429033	"+"	"Intron"	"DEL"	"TTTCCTTCCTTTCTTTTCTTTTCTCTTTTCTTTTCTTTC"	"TTTCCTTCCTTTCTTTTCTTTTCTCTTTTCTTTTCTTTC"	"CTTCCTTTCTTTTCTTTTCTCTTTTCTT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTCCTTCCTTTCTTTTCTTTTCTCTTTTCTTTTCTTTC"	"TTTCCTTCCTTTCTTTTCTTTTCTCTTTTCTTTTCTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1799-8583_1799-8545delTTTCCTTCCTTTCTTTTCTTTTCTCTTTTCTTTTCTTTCinsCTTCCTTTCTTTTCTTTTCTCTTTTCTT"	""	""	"ENST00000367618"	""	23	"."	3	3	"."	0	"AXDND1,intron_variant,,ENST00000367618,NM_144696.5;AXDND1,intron_variant,,ENST00000434088,;AXDND1,intron_variant,,ENST00000457238,;AXDND1,intron_variant,,ENST00000461179,;AXDND1,intron_variant,,ENST00000511157,;HNRNPA1P54,upstream_gene_variant,,ENST00000411857,;"	"CTTCCTTTCTTTTCTTTTCTCTTTTCTT"	"ENSG00000162779"	"ENST00000367618"	"Transcript"	"intron_variant"	"-/3642"	"-/3039"	"-/1012"	""	""	""	"1"	NA	1	"AXDND1"	"HGNC"	26564	"protein_coding"	"YES"	"CCDS30948.1"	"ENSP00000356590"	"Q5T1B0"	"D6REE1,D6RDY4,D6RCN1,D6RB87,D6R9B7"	"UPI000022AC91"	"NM_144696.5"	NA	NA	""	"16/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTCCTTCCTTTCTTTTCTTTTCTCTTTTCTTTTCTTTCT"	"a27c99b4-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"2944"	"AXDND1"	126859	"mskcc.org"	"GRCh37"	"1"	179429030	179429070	"+"	"Intron"	"DEL"	"TTTCTTTCATTCCTTTTCTTTCTCTCTTTCCTTCCTTCCTT"	"TTTCTTTCATTCCTTTTCTTTCTCTCTTTCCTTCCTTCCTT"	"ATTCCTTTTCTTTCTCTCCTTCCTTCCT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTCTTTCATTCCTTTTCTTTCTCTCTTTCCTTCCTTCCTT"	"TTTCTTTCATTCCTTTTCTTTCTCTCTTTCCTTCCTTCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1799-8548_1799-8509delTTTCTTTCATTCCTTTTCTTTCTCTCTTTCCTTCCTTCCTinsATTCCTTTTCTTTCTCTCCTTCCTTCC"	""	""	"ENST00000367618"	""	21	"."	4	3	"."	0	"AXDND1,intron_variant,,ENST00000367618,NM_144696.5;AXDND1,intron_variant,,ENST00000434088,;AXDND1,intron_variant,,ENST00000457238,;AXDND1,intron_variant,,ENST00000461179,;AXDND1,intron_variant,,ENST00000511157,;HNRNPA1P54,upstream_gene_variant,,ENST00000411857,;"	"ATTCCTTTTCTTTCTCTCCTTCCTTCC"	"ENSG00000162779"	"ENST00000367618"	"Transcript"	"intron_variant"	"-/3642"	"-/3039"	"-/1012"	""	""	""	"1"	NA	1	"AXDND1"	"HGNC"	26564	"protein_coding"	"YES"	"CCDS30948.1"	"ENSP00000356590"	"Q5T1B0"	"D6REE1,D6RDY4,D6RCN1,D6RB87,D6R9B7"	"UPI000022AC91"	"NM_144696.5"	NA	NA	""	"16/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCTTTCTTTCATTCCTTTTCTTTCTCTCTTTCCTTCCTTCCTTC"	"a27ec298-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"2945"	"KIAA1614"	57710	"mskcc.org"	"GRCh37"	"1"	180923153	180923155	"+"	"3'Flank"	"DEL"	"CCC"	"CCC"	"-"	"rs143596193"	NA	"JHCCPT5"	"JHCCPN5"	"CCC"	"CCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000367588"	""	7	"."	4	2	"."	0	"KIAA1614,downstream_gene_variant,,ENST00000367588,NM_020950.1;RP11-46A10.5,intron_variant,,ENST00000358073,;RP11-46A10.4,intron_variant,,ENST00000415647,;KIAA1614,downstream_gene_variant,,ENST00000461346,;"	"-"	"ENSG00000135835"	"ENST00000367588"	"Transcript"	"downstream_gene_variant"	"-/9654"	"-/3573"	"-/1190"	""	""	"rs143596193"	"1"	"2403"	1	"KIAA1614"	"HGNC"	29327	"protein_coding"	"YES"	"CCDS41442.1"	"ENSP00000356560"	"Q5VZ46"	""	"UPI00001C1D75"	"NM_020950.1"	NA	NA	""	""	""	"CCC:0.4952"	"-:0.5635"	"-:0.3862"	NA	"-:0.5685"	"-:0.3956"	"-:0.5562"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCCCC"	"96b5a92c-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2946"	"GS1-122H1.2"	400799	"mskcc.org"	"GRCh37"	"1"	182227406	182227407	"+"	"Intron"	"INS"	"-"	"-"	"TTCCTTCTTTCCTTCCTTGC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.411-54167_411-54166insGCAAGGAAGGAAAGAAGGAA"	""	""	"ENST00000449842"	""	28	"."	3	4	"."	0	"GS1-122H1.2,intron_variant,,ENST00000449842,;"	"TTCCTTCTTTCCTTCCTTGC"	"ENSG00000228918"	"ENST00000449842"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/571"	""	""	""	""	""	"1"	NA	-1	"GS1-122H1.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"b552d7ec-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WXS"	FALSE
"2947"	"LAMC1"	3915	"mskcc.org"	"GRCh37"	"1"	183109260	183109260	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs59684476"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4474-278delT"	""	""	"ENST00000258341"	""	17	"."	6	4	"."	0	"LAMC1,intron_variant,,ENST00000258341,NM_002293.3;RP11-181K3.4,intron_variant,,ENST00000457852,;LAMC1,downstream_gene_variant,,ENST00000495918,;"	"-"	"ENSG00000135862"	"ENST00000258341"	"Transcript"	"intron_variant"	"-/7889"	"-/4830"	"-/1609"	""	""	"rs59684476"	"1"	NA	1	"LAMC1"	"HGNC"	6492	"protein_coding"	"YES"	"CCDS1351.1"	"ENSP00000258341"	"P11047"	"R4GNC7"	"UPI000013CFC7"	"NM_002293.3"	NA	NA	""	"26/27"	""	"T:0.4233"	"-:0.5045"	"-:0.6455"	NA	"-:0.622"	"-:0.5666"	"-:0.589"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATT"	"973d4e90-280f-11e6-851e-0cd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WXS"	FALSE
"2948"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	184226981	184226982	"+"	"IGR"	"INS"	"-"	"-"	"GT"	"rs57211832"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	3	"."	0	""	"GT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs57211832"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"b59e684c-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2949"	"HMCN1"	83872	"mskcc.org"	"GRCh37"	"1"	186043518	186043519	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs58246228"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8140-355_8140-354insA"	""	""	"ENST00000271588"	""	8	"."	3	2	"."	0	"HMCN1,intron_variant,,ENST00000271588,NM_031935.2;HMCN1,intron_variant,,ENST00000367492,;"	"A"	"ENSG00000143341"	"ENST00000271588"	"Transcript"	"intron_variant"	"-/18208"	"-/16908"	"-/5635"	""	""	"rs58246228"	"1"	NA	1	"HMCN1"	"HGNC"	19194	"protein_coding"	"YES"	"CCDS30956.1"	"ENSP00000271588"	"Q96RW7"	""	"UPI0000458C0E"	"NM_031935.2"	NA	NA	""	"52/106"	""	"-:0.0000"	"A:1"	"A:1"	NA	"A:1"	"A:1"	"A:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"b5b5cec4-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2950"	"PRG4"	10216	"mskcc.org"	"GRCh37"	"1"	186276268	186276291	"+"	"In_Frame_Del"	"DEL"	"GAGCCTGCACCCACCACTCCCAAA"	"GAGCCTGCACCCACCACTCCCAAA"	"-"	"rs770844232"	NA	"JHCCPT5"	"JHCCPN5"	"GAGCCTGCACCCACCACTCCCAAA"	"GAGCCTGCACCCACCACTCCCAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1431_1454delCACTCCCAAAGAGCCTGCACCCAC"	"p.Thr478_Thr485del"	"p.T478_T485del"	"ENST00000445192"	"7/13"	151	"."	7	40	"."	0	"PRG4,inframe_deletion,p.Thr478_Thr485del,ENST00000445192,NM_005807.3;PRG4,inframe_deletion,p.Thr437_Thr444del,ENST00000367483,NM_001127708.1;PRG4,inframe_deletion,p.Thr435_Thr442del,ENST00000367486,;PRG4,inframe_deletion,p.Thr385_Thr392del,ENST00000367485,NM_001127710.1,NM_001127709.1;PRG4,inframe_deletion,p.Thr344_Thr351del,ENST00000367482,;PRG4,intron_variant,,ENST00000367484,;TPR,downstream_gene_variant,,ENST00000367478,NM_003292.2;PRG4,downstream_gene_variant,,ENST00000533951,;RNU6-1240P,downstream_gene_variant,,ENST00000365155,;"	"-"	"ENSG00000116690"	"ENST00000445192"	"Transcript"	"inframe_deletion"	"1462-1485/5044"	"1417-1440/4215"	"473-480/1404"	"EPAPTTPK/-"	"GAGCCTGCACCCACCACTCCCAAA/-"	"rs770844232,COSM1337185"	"1"	NA	1	"PRG4"	"HGNC"	9364	"protein_coding"	"YES"	"CCDS1369.1"	"ENSP00000399679"	"Q92954"	"B3KQ20"	"UPI0000070EF9"	"NM_005807.3"	NA	NA	"7/13"	""	"hmmpanther:PTHR22917,hmmpanther:PTHR22917:SF1,Low_complexity_(Seg):seg"	""	""	""	NA	""	""	""	"-:0.1276"	"-:0.1616"	""	"0,1"	NA	""	NA	""	NA	"MODERATE"	"1"	"deletion"	NA	"14"	"0,1"	"1"	"0.1294"	"0.09748"	"0.04326"	"0.1126"	"0.1702"	"0.1453"	"0.1319"	"0.1456"	"1"	"common_variant"	"AGGAGCCTGCACCCACCACTCCCAAAG"	"97b398de-280f-11e6-851e-0cd4414a729f"	"340"	0.1295	"13681/105624"	"13738/106190"	"874/8966"	"483/11166"	"877/7790"	"1120/6580"	"7850/54044"	"91/690"	"2386/16388"	"VQSRTrancheINDEL99.00to99.50"	"FALSE"	0.0463576158940397	"WXS"	FALSE
"2951"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	186601742	186601743	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs11403117"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11403117"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0861"	"C:0.9871"	"C:0.9107"	NA	"C:0.999"	"C:0.8091"	"C:0.8374"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"b5cd03dc-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2952"	"PLA2G4A"	5321	"mskcc.org"	"GRCh37"	"1"	186915585	186915586	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs12720622"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1034-179dupT"	""	""	"ENST00000367466"	""	27	"."	9	6	"."	0	"PLA2G4A,intron_variant,,ENST00000367466,NM_024420.2;PLA2G4A,intron_variant,,ENST00000442353,;"	"T"	"ENSG00000116711"	"ENST00000367466"	"Transcript"	"intron_variant"	"-/2875"	"-/2250"	"-/749"	""	""	"rs12720622"	"1"	NA	1	"PLA2G4A"	"HGNC"	9035	"protein_coding"	"YES"	"CCDS1372.1"	"ENSP00000356436"	"P47712"	""	"UPI0000203D76"	"NM_024420.2"	NA	NA	""	"10/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"b5d047e0-280f-11e6-851e-0cd4414a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2953"	"RP11-463J7.2"	440704	"mskcc.org"	"GRCh37"	"1"	190618867	190618868	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"rs71103677"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.144+24705_144+24706delCT"	""	""	"ENST00000413356"	""	20	"."	5	2	"."	0	"RP11-463J7.2,intron_variant,,ENST00000413356,;"	"-"	"ENSG00000231175"	"ENST00000413356"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2216"	""	""	""	""	"rs71103677"	"1"	NA	1	"RP11-463J7.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	"-:0.3794"	"-:0.2625"	"-:0.4524"	NA	"-:0.2728"	"-:0.4652"	"-:0.5072"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTCT"	"97d5ae88-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2954"	"UCHL5"	51377	"mskcc.org"	"GRCh37"	"1"	192990036	192990039	"+"	"Intron"	"DEL"	"TTCT"	"TTCT"	"-"	"rs68090216"	NA	"JHCCPT5"	"JHCCPN5"	"TTCT"	"TTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.945+188_945+191delAGAA"	""	""	"ENST00000367455"	""	11	"."	4	5	"."	0	"UCHL5,intron_variant,,ENST00000367455,NM_015984.3,NM_001199261.1;UCHL5,intron_variant,,ENST00000367452,;UCHL5,intron_variant,,ENST00000367454,;UCHL5,intron_variant,,ENST00000367448,NM_001199262.1;UCHL5,intron_variant,,ENST00000367449,NM_001199263.1;UCHL5,intron_variant,,ENST00000367450,;UCHL5,intron_variant,,ENST00000367451,;UCHL5,intron_variant,,ENST00000420791,;UCHL5,intron_variant,,ENST00000530098,;UCHL5,intron_variant,,ENST00000443327,;UCHL5,intron_variant,,ENST00000449480,;UCHL5,intron_variant,,ENST00000416915,;UCHL5,downstream_gene_variant,,ENST00000421683,;"	"-"	"ENSG00000116750"	"ENST00000367455"	"Transcript"	"intron_variant"	"-/5327"	"-/990"	"-/329"	""	""	"rs68090216"	"1"	NA	-1	"UCHL5"	"HGNC"	19678	"protein_coding"	"YES"	"CCDS1378.1"	"ENSP00000356425"	"Q9Y5K5"	""	"UPI000013CF2A"	"NM_015984.3,NM_001199261.1"	NA	NA	""	"10/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATTCTT"	"97f124c4-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2955"	"CDC73"	79577	"mskcc.org"	"GRCh37"	"1"	193086568	193086569	"+"	"5'Flank"	"INS"	"-"	"-"	"AAGGAAAGA"	"rs141282635"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000367435"	""	8	"."	4	2	"."	0	"CDC73,upstream_gene_variant,,ENST00000367435,NM_024529.4;"	"AAGGAAAGA"	"ENSG00000134371"	"ENST00000367435"	"Transcript"	"upstream_gene_variant"	"-/4969"	"-/1596"	"-/531"	""	""	"rs141282635"	"1"	"4578"	1	"CDC73"	"HGNC"	16783	"protein_coding"	"YES"	"CCDS1382.1"	"ENSP00000356405"	"Q6P1J9"	""	"UPI0000021592"	"NM_024529.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"b5f55116-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	TRUE
"2956"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	195044738	195044740	"+"	"IGR"	"DEL"	"ATT"	"ATT"	"-"	"rs747049139"	NA	"JHCCPT5"	"JHCCPN5"	"ATT"	"ATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs747049139"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGATTA"	"98329f62-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2957"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	196060986	196060988	"+"	"IGR"	"DEL"	"AGA"	"AGA"	"-"	"rs139262277"	NA	"JHCCPT5"	"JHCCPN5"	"AGA"	"AGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139262277"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1524"	"-:0.1566"	"-:0.1326"	NA	"-:0.1627"	"-:0.1213"	"-:0.182"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAGAA"	"9836c4fc-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2958"	"NAV1"	89796	"mskcc.org"	"GRCh37"	"1"	201691786	201691789	"+"	"Intron"	"DEL"	"TTTG"	"TTTG"	"-"	"rs145591308"	NA	"JHCCPT5"	"JHCCPN5"	"TTTG"	"TTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1226+3926_1226+3929delGTTT"	""	""	"ENST00000367296"	""	6	"."	4	1	"."	0	"NAV1,intron_variant,,ENST00000367296,NM_020443.4;NAV1,intron_variant,,ENST00000295624,;NAV1,intron_variant,,ENST00000367297,;NAV1,intron_variant,,ENST00000367300,;NAV1,intron_variant,,ENST00000367302,;MIR5191,downstream_gene_variant,,ENST00000577455,;IPO9-AS1,intron_variant,,ENST00000413035,;RP11-90L20.2,downstream_gene_variant,,ENST00000429443,;"	"-"	"ENSG00000134369"	"ENST00000367296"	"Transcript"	"intron_variant"	"-/13091"	"-/5634"	"-/1877"	""	""	"rs145591308"	"1"	NA	1	"NAV1"	"HGNC"	15989	"protein_coding"	"YES"	"CCDS1414.2"	"ENSP00000356265"	"Q8NEY1"	""	"UPI00004562D4"	"NM_020443.4"	NA	NA	""	"3/29"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"23"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTGT"	"995881f4-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2959"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	202056431	202056434	"+"	"IGR"	"DEL"	"GGAT"	"GGAT"	"-"	"rs72439066"	NA	"JHCCPT5"	"JHCCPN5"	"GGAT"	"GGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs72439066"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GGAT:0.3828"	"-:0.8222"	"-:0.6282"	NA	"-:0.497"	"-:0.4006"	"-:0.6789"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGGATG"	"9982de5e-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2960"	"KDM5B"	10765	"mskcc.org"	"GRCh37"	"1"	202758728	202758729	"+"	"Intron"	"INS"	"-"	"-"	"AGGGGAGGAGAAAGGAAAAGGGAAGGGGAGGGGGAGAGAAAGGGGGAAGGGAAGGGGGAAGGGTAGGGG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.205-12507_205-12506insCCCCTACCCTTCCCCCTTCCCTTCCCCCTTTCTCTCCCCCTCCCCTTCCCTTTTCCTTTCTCCTCCCCT"	""	""	"ENST00000367265"	""	18	"."	3	7	"."	0	"KDM5B,intron_variant,,ENST00000367265,NM_006618.3;KDM5B,intron_variant,,ENST00000367264,;KDM5B,intron_variant,,ENST00000235790,;KDM5B,intron_variant,,ENST00000470573,;KDM5B,intron_variant,,ENST00000467487,;KDM5B,intron_variant,,ENST00000602511,;"	"AGGGGAGGAGAAAGGAAAAGGGAAGGGGAGGGGGAGAGAAAGGGGGAAGGGAAGGGGGAAGGGTAGGGG"	"ENSG00000117139"	"ENST00000367265"	"Transcript"	"intron_variant"	"-/7438"	"-/4635"	"-/1544"	""	""	""	"1"	NA	-1	"KDM5B"	"HGNC"	18039	"protein_coding"	"YES"	"CCDS30974.1"	"ENSP00000356234"	"Q9UGL1"	"Q9UIW7,Q9UFD3,Q9UFC7,Q9NSZ7,Q6UGB8,B3KV94,B3KMS8,B3KMS2"	"UPI0000032AA2"	"NM_006618.3"	NA	NA	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"b6e6f1c4-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"2961"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	203354629	203354637	"+"	"IGR"	"DEL"	"AAAAAAAAA"	"-"	"-"	"rs200981954"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAAAAAA"	"AAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200981954"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAAAAAAAAA"	"99db84b4-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2962"	"ZC3H11A"	9877	"mskcc.org"	"GRCh37"	"1"	203809733	203809734	"+"	"Intron"	"INS"	"-"	"-"	"TTAT"	"rs564585443"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1042+262_1042+265dupATTT"	""	""	"ENST00000545588"	""	16	"."	4	14	"."	0	"ZC3H11A,intron_variant,,ENST00000545588,NM_001271675.1;ZC3H11A,intron_variant,,ENST00000332127,;ZC3H11A,intron_variant,,ENST00000367210,;ZC3H11A,intron_variant,,ENST00000367214,;ZC3H11A,intron_variant,,ENST00000367212,NM_014827.4;ZC3H11A,intron_variant,,ENST00000453771,;ZC3H11A,intron_variant,,ENST00000495527,;RP11-397P13.7,upstream_gene_variant,,ENST00000427282,;"	"TTAT"	"ENSG00000058673"	"ENST00000545588"	"Transcript"	"intron_variant"	"-/7979"	"-/2433"	"-/810"	""	""	"rs564585443"	"1"	NA	1	"ZC3H11A"	"HGNC"	29093	"protein_coding"	"YES"	"CCDS30978.1"	"ENSP00000438527"	"O75152"	"E9PBY7,C9J0L0,B4DLG2"	"UPI000006F3FD"	"NM_001271675.1"	NA	NA	""	"11/16"	""	"TTATTTATTTAT:0.0447"	"TTATTTATTTAT:0.0303"	"TTATTTATTTAT:0.0403"	NA	"TTATTTATTTAT:0.0347"	"TTATTTATTTAT:0.0596"	"TTATTTATTTAT:0.0624"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"34"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"b724ba22-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"2963"	"PIK3C2B"	5287	"mskcc.org"	"GRCh37"	"1"	204426031	204426036	"+"	"Intron"	"DEL"	"CACACC"	"CACACC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CACACC"	"CACACC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1747+129_1747+134delGGTGTG"	""	""	"ENST00000367187"	""	29	"."	3	10	"."	0	"PIK3C2B,intron_variant,,ENST00000367187,NM_002646.3;PIK3C2B,intron_variant,,ENST00000424712,;PIK3C2B,upstream_gene_variant,,ENST00000496872,;"	"-"	"ENSG00000133056"	"ENST00000367187"	"Transcript"	"intron_variant"	"-/7686"	"-/4905"	"-/1634"	""	""	""	"1"	NA	-1	"PIK3C2B"	"HGNC"	8972	"protein_coding"	"YES"	"CCDS1446.1"	"ENSP00000356155"	"O00750"	"Q5SW98,Q5SW97,Q4LE65,A2RUF7"	"UPI00002056D1"	"NM_002646.3"	NA	NA	""	"11/33"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACACACCC"	"9a307cf8-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WXS"	FALSE
"2964"	"MDM4"	4194	"mskcc.org"	"GRCh37"	"1"	204505977	204505977	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs35493922"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.344-575delA"	""	""	"ENST00000367182"	""	67	"."	29	16	"."	1	"MDM4,intron_variant,,ENST00000367182,NM_001278516.1,NM_001204171.1,NM_002393.4,NM_001278519.1,NM_001278518.1,NM_001278517.1;MDM4,intron_variant,,ENST00000454264,;MDM4,intron_variant,,ENST00000391947,;MDM4,intron_variant,,ENST00000507825,;MDM4,intron_variant,,ENST00000367183,NM_001204172.1;MDM4,intron_variant,,ENST00000367180,;MDM4,upstream_gene_variant,,ENST00000367179,;MDM4,intron_variant,,ENST00000463049,;MDM4,intron_variant,,ENST00000470908,;MDM4,intron_variant,,ENST00000471783,;MDM4,downstream_gene_variant,,ENST00000470797,;MDM4,upstream_gene_variant,,ENST00000462012,;"	"-"	"ENSG00000198625"	"ENST00000367182"	"Transcript"	"intron_variant"	"-/10073"	"-/1473"	"-/490"	""	""	"rs35493922"	"1"	NA	1	"MDM4"	"HGNC"	6974	"protein_coding"	"YES"	"CCDS1447.1"	"ENSP00000356150"	"O15151"	""	"UPI000007467F"	"NM_001278516.1,NM_001204171.1,NM_002393.4,NM_001278519.1,NM_001278518.1,NM_001278517.1"	NA	NA	""	"5/10"	""	"-:0.3079"	"-:0.0658"	"-:0.5072"	NA	"-:0.3006"	"-:0.4592"	"-:0.3456"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"9a338cb8-280f-11e6-851e-0cd4414a729f"	"1800"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.432835820895522	"WXS"	TRUE
"2965"	"DYRK3"	8444	"mskcc.org"	"GRCh37"	"1"	206809998	206809999	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11412564"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.77+875dupA"	""	""	"ENST00000367109"	""	68	"."	25	18	"."	1	"DYRK3,intron_variant,,ENST00000367106,;DYRK3,intron_variant,,ENST00000367108,NM_001004023.1;DYRK3,intron_variant,,ENST00000367109,NM_003582.2;DYRK3,intron_variant,,ENST00000441486,;RP11-343H5.6,upstream_gene_variant,,ENST00000425161,;DYRK3,intron_variant,,ENST00000489878,;"	"A"	"ENSG00000143479"	"ENST00000367109"	"Transcript"	"intron_variant"	"-/2163"	"-/1767"	"-/588"	""	""	"rs11412564"	"1"	NA	1	"DYRK3"	"HGNC"	3094	"protein_coding"	"YES"	"CCDS30999.1"	"ENSP00000356076"	"O43781"	""	"UPI0000071267"	"NM_003582.2"	NA	NA	""	"1/2"	""	"-:0.2586"	"A:0.7337"	"A:0.8127"	NA	"A:0.5278"	"A:0.8231"	"A:0.8374"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"b7abdc50-280f-11e6-851e-0cd4414a729f"	"1560"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.367647058823529	"WXS"	FALSE
"2966"	"CD55"	1604	"mskcc.org"	"GRCh37"	"1"	207504820	207504821	"+"	"Intron"	"DEL"	"AC"	"AC"	"-"	"rs5780384"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.853+194_853+195delCA"	""	""	"ENST00000314754"	""	29	"."	7	4	"."	0	"CD55,intron_variant,,ENST00000367064,NM_000574.3;CD55,intron_variant,,ENST00000391921,;CD55,intron_variant,,ENST00000314754,NM_001114752.1;CD55,intron_variant,,ENST00000367063,;CD55,intron_variant,,ENST00000367065,;CD55,intron_variant,,ENST00000391920,;CD55,intron_variant,,ENST00000367062,;CD55,intron_variant,,ENST00000367067,;CD55,intron_variant,,ENST00000343420,;CD55,intron_variant,,ENST00000465534,;CD55,intron_variant,,ENST00000476590,;CD55,intron_variant,,ENST00000482390,;CD55,intron_variant,,ENST00000488171,;"	"-"	"ENSG00000196352"	"ENST00000314754"	"Transcript"	"intron_variant"	"-/2220"	"-/1323"	"-/440"	""	""	"rs5780384"	"1"	NA	1	"CD55"	"HGNC"	2665	"protein_coding"	"YES"	"CCDS44307.1"	"ENSP00000316333"	"P08174"	"Q76N74"	"UPI000002EA80"	"NM_001114752.1"	NA	NA	""	"6/10"	""	"AC:0.3437"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATACA"	"9acd099c-280f-11e6-851e-0cd4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241379310344828	"WXS"	FALSE
"2967"	"CD46"	4179	"mskcc.org"	"GRCh37"	"1"	207933318	207933319	"+"	"Intron"	"INS"	"-"	"A"	"A"	"rs11370836"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.475+250dupA"	""	""	"ENST00000322875"	""	30	"."	21	3	"."	1	"CD46,intron_variant,,ENST00000358170,NM_002389.4;CD46,intron_variant,,ENST00000367042,NM_172351.2;CD46,intron_variant,,ENST00000367041,NM_172352.2;CD46,intron_variant,,ENST00000322875,NM_172359.2;CD46,intron_variant,,ENST00000361067,;CD46,intron_variant,,ENST00000354848,NM_153826.3;CD46,intron_variant,,ENST00000357714,NM_172353.2;CD46,intron_variant,,ENST00000441839,;CD46,intron_variant,,ENST00000322918,NM_172350.2;CD46,intron_variant,,ENST00000367047,;CD46,intron_variant,,ENST00000360212,NM_172361.2;CD46,intron_variant,,ENST00000480003,;CD46,non_coding_transcript_exon_variant,,ENST00000469535,;CD46,downstream_gene_variant,,ENST00000493796,;CD46,upstream_gene_variant,,ENST00000464082,;RP11-454L1.2,upstream_gene_variant,,ENST00000435216,;"	"A"	"ENSG00000117335"	"ENST00000322875"	"Transcript"	"intron_variant"	"-/3278"	"-/1200"	"-/399"	""	""	"rs11370836"	"1"	NA	1	"CD46"	"HGNC"	6953	"protein_coding"	"YES"	"CCDS1482.1"	"ENSP00000313875"	"P15529"	"Q06C42"	"UPI000015FF6E"	"NM_172359.2"	NA	NA	""	"4/12"	""	"-:0.3279"	"A:0.5983"	"A:0.4813"	NA	"A:0.9157"	"A:0.6054"	"A:0.7249"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"b7c9d4b2-280f-11e6-851e-0cd4414a729f"	"1320"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"2968"	"PLXNA2"	5362	"mskcc.org"	"GRCh37"	"1"	208211260	208211261	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs377764819"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4764+455dupA"	""	""	"ENST00000367033"	""	7	"."	4	2	"."	0	"PLXNA2,intron_variant,,ENST00000367033,NM_025179.3;PLXNA2,downstream_gene_variant,,ENST00000463510,;"	"T"	"ENSG00000076356"	"ENST00000367033"	"Transcript"	"intron_variant"	"-/11444"	"-/5685"	"-/1894"	""	""	"rs377764819"	"1"	NA	-1	"PLXNA2"	"HGNC"	9100	"protein_coding"	"YES"	"CCDS31013.1"	"ENSP00000356000"	"O75051"	""	"UPI000022B239"	"NM_025179.3"	NA	NA	""	"26/31"	""	"T:0.3864"	"T:0.5182"	"T:0.3314"	NA	"T:0.1438"	"T:0.6004"	"T:0.2771"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"b7da496e-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2969"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	212381979	212381984	"+"	"IGR"	"DEL"	"TGGTGG"	"TGGTGG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TGGTGG"	"TGGTGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"."	4	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTGGTGGT"	"9ba55d88-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WXS"	FALSE
"2970"	"PROX1-AS1"	0	"mskcc.org"	"GRCh37"	"1"	214126998	214126999	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs777028202"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.195+12415_195+12416delCA"	""	""	"ENST00000433082"	""	10	"."	3	1	"."	0	"PROX1-AS1,intron_variant,,ENST00000433082,;PROX1-AS1,intron_variant,,ENST00000601744,;PROX1-AS1,intron_variant,,ENST00000598105,;PROX1-AS1,intron_variant,,ENST00000601907,;PROX1-AS1,intron_variant,,ENST00000601335,;PROX1-AS1,intron_variant,,ENST00000593620,;PROX1-AS1,intron_variant,,ENST00000601854,;PROX1-AS1,intron_variant,,ENST00000413560,;"	"-"	"ENSG00000230461"	"ENST00000433082"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/5185"	""	""	""	""	"rs777028202"	"1"	NA	-1	"PROX1-AS1"	"HGNC"	43656	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"9bd04b24-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"2971"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	214954487	214954488	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs36105937"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	2	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs36105937"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"b851ec9e-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2972"	"EPRS"	2058	"mskcc.org"	"GRCh37"	"1"	220188865	220188870	"+"	"Intron"	"DEL"	"GGAAAG"	"GGAAAG"	"-"	"rs145722721"	NA	"JHCCPT5"	"JHCCPN5"	"GGAAAG"	"GGAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1494+2921_1494+2926delCTTTCC"	""	""	"ENST00000366923"	""	11	"."	4	1	"."	0	"EPRS,intron_variant,,ENST00000366923,NM_004446.2;EPRS,intron_variant,,ENST00000609181,;EPRS,intron_variant,,ENST00000477030,;"	"-"	"ENSG00000136628"	"ENST00000366923"	"Transcript"	"intron_variant"	"-/5014"	"-/4539"	"-/1512"	""	""	"rs145722721"	"1"	NA	-1	"EPRS"	"HGNC"	3418	"protein_coding"	"YES"	"CCDS31027.1"	"ENSP00000355890"	"P07814"	""	"UPI0000205E8C"	"NM_004446.2"	NA	NA	""	"12/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGGAAAGG"	"9cc1e75e-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2973"	"RAB3GAP2"	6791	"mskcc.org"	"GRCh37"	"1"	220364781	220364783	"+"	"Intron"	"DEL"	"ATA"	"ATA"	"-"	"rs552735868"	NA	"JHCCPT5"	"JHCCPN5"	"ATA"	"ATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1271-157_1271-155delTAT"	""	""	"ENST00000358951"	""	11	"."	4	1	"."	0	"RAB3GAP2,intron_variant,,ENST00000358951,NM_012414.3;RAB3GAP2,intron_variant,,ENST00000478976,;RAB3GAP2,downstream_gene_variant,,ENST00000237724,;"	"-"	"ENSG00000118873"	"ENST00000358951"	"Transcript"	"intron_variant"	"-/7257"	"-/4182"	"-/1393"	""	""	"rs552735868"	"1"	NA	-1	"RAB3GAP2"	"HGNC"	17168	"protein_coding"	"YES"	"CCDS31028.1"	"ENSP00000351832"	"Q9H2M9"	""	"UPI0000072269"	"NM_012414.3"	NA	NA	""	"13/34"	""	"-:0.0036"	"-:0"	"-:0.0072"	NA	"-:0"	"-:0.0089"	"-:0.0041"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGATAA"	"9cdbcd7c-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2974"	"DUSP10"	11221	"mskcc.org"	"GRCh37"	"1"	221874328	221874328	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"rs143142719"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366899"	""	8	"."	4	1	"."	0	"DUSP10,downstream_gene_variant,,ENST00000366899,NM_007207.4;DUSP10,downstream_gene_variant,,ENST00000544095,NM_144728.2;DUSP10,downstream_gene_variant,,ENST00000323825,NM_144729.2;DUSP10,downstream_gene_variant,,ENST00000468085,;DUSP10,downstream_gene_variant,,ENST00000477026,;DUSP10,downstream_gene_variant,,ENST00000494642,;"	"-"	"ENSG00000143507"	"ENST00000366899"	"Transcript"	"downstream_gene_variant"	"-/2676"	"-/1449"	"-/482"	""	""	"rs143142719"	"1"	"438"	-1	"DUSP10"	"HGNC"	3065	"protein_coding"	"YES"	"CCDS1528.1"	"ENSP00000355866"	"Q9Y6W6"	""	"UPI000003473B"	"NM_007207.4"	NA	NA	""	""	""	""	"-:0.0991"	"-:0.0346"	NA	"-:0.001"	"-:0.0586"	"-:0.0348"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"9cf9e302-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2975"	"RNU6-791P"	0	"mskcc.org"	"GRCh37"	"1"	222681536	222681537	"+"	"5'Flank"	"INS"	"-"	"-"	"AG"	"rs201626183"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000410467"	""	7	"."	4	1	"."	0	"RNU6-791P,upstream_gene_variant,,ENST00000410467,;"	"AG"	"ENSG00000222399"	"ENST00000410467"	"Transcript"	"upstream_gene_variant"	"-/104"	""	""	""	""	"rs201626183"	"1"	"4459"	-1	"RNU6-791P"	"HGNC"	47754	"snRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0697"	"AG:0.9402"	"AG:0.9524"	NA	"AG:0.8562"	"AG:0.9622"	"AG:0.9448"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"b8ac3d66-280f-11e6-851e-0cd4414a729f"	"186"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"2976"	"DNAH14"	127602	"mskcc.org"	"GRCh37"	"1"	225339038	225339039	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs143201068"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4890-662dupG"	""	""	"ENST00000430092"	""	17	"."	4	2	"."	0	"DNAH14,intron_variant,,ENST00000430092,NM_001373.1;DNAH14,intron_variant,,ENST00000439375,;DNAH14,intron_variant,,ENST00000445597,;DNAH14,intron_variant,,ENST00000328556,;"	"G"	"ENSG00000185842"	"ENST00000430092"	"Transcript"	"intron_variant"	"-/13788"	"-/13548"	"-/4515"	""	""	"rs143201068"	"1"	NA	1	"DNAH14"	"HGNC"	2945	"protein_coding"	""	""	"ENSP00000414402"	"Q0VDD8"	"C9JU64"	"UPI000192C36D"	"NM_001373.1"	NA	NA	""	"30/83"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"b90569d6-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"2977"	"DNAH14"	127602	"mskcc.org"	"GRCh37"	"1"	225416309	225416310	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs34936665"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6374-2458dupG"	""	""	"ENST00000430092"	""	23	"."	4	6	"."	0	"DNAH14,intron_variant,,ENST00000430092,NM_001373.1;DNAH14,intron_variant,,ENST00000439375,;DNAH14,intron_variant,,ENST00000445597,;"	"G"	"ENSG00000185842"	"ENST00000430092"	"Transcript"	"intron_variant"	"-/13788"	"-/13548"	"-/4515"	""	""	"rs34936665"	"1"	NA	1	"DNAH14"	"HGNC"	2945	"protein_coding"	""	""	"ENSP00000414402"	"Q0VDD8"	"C9JU64"	"UPI000192C36D"	"NM_001373.1"	NA	NA	""	"40/83"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"b907a43a-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"2978"	"DNAH14"	127602	"mskcc.org"	"GRCh37"	"1"	225564672	225564673	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs5781402"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.12230-276dupT"	""	""	"ENST00000430092"	""	16	"."	3	6	"."	0	"DNAH14,intron_variant,,ENST00000430092,NM_001373.1;DNAH14,intron_variant,,ENST00000439375,;DNAH14,intron_variant,,ENST00000445597,;DNAH14,intron_variant,,ENST00000327794,;"	"T"	"ENSG00000185842"	"ENST00000430092"	"Transcript"	"intron_variant"	"-/13788"	"-/13548"	"-/4515"	""	""	"rs5781402"	"1"	NA	1	"DNAH14"	"HGNC"	2945	"protein_coding"	""	""	"ENSP00000414402"	"Q0VDD8"	"C9JU64"	"UPI000192C36D"	"NM_001373.1"	NA	NA	""	"76/83"	""	"-:0.4902"	"T:0.2277"	"T:0.7147"	NA	"T:0.7173"	"T:0.6243"	"T:0.4141"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"b917fe5c-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"2979"	"TMEM63A"	9725	"mskcc.org"	"GRCh37"	"1"	226046649	226046656	"+"	"Intron"	"DEL"	"TGTGTGTG"	"TGTGTGTG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTGTG"	"TGTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1377+240_1377+247delCACACACA"	""	""	"ENST00000366835"	""	16	"."	3	8	"."	0	"TMEM63A,intron_variant,,ENST00000366835,NM_014698.2;TMEM63A,downstream_gene_variant,,ENST00000537914,;TMEM63A,intron_variant,,ENST00000487971,;TMEM63A,downstream_gene_variant,,ENST00000474478,;TMEM63A,downstream_gene_variant,,ENST00000483779,;"	"-"	"ENSG00000196187"	"ENST00000366835"	"Transcript"	"intron_variant"	"-/4098"	"-/2424"	"-/807"	""	""	""	"1"	NA	-1	"TMEM63A"	"HGNC"	29118	"protein_coding"	"YES"	"CCDS31042.1"	"ENSP00000355800"	"O94886"	"Q2HIZ8"	"UPI000006DE50"	"NM_014698.2"	NA	NA	""	"15/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATGTGTGTGT"	"9d876060-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"2980"	"TMEM63A"	9725	"mskcc.org"	"GRCh37"	"1"	226058145	226058145	"+"	"Intron"	"DEL"	"C"	"-"	"-"	"rs3841810"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.371+631delG"	""	""	"ENST00000366835"	""	7	"."	5	2	"."	0	"TMEM63A,intron_variant,,ENST00000366835,NM_014698.2;TMEM63A,upstream_gene_variant,,ENST00000537914,;TMEM63A,downstream_gene_variant,,ENST00000436966,;TMEM63A,upstream_gene_variant,,ENST00000474478,;TMEM63A,downstream_gene_variant,,ENST00000487817,;TMEM63A,upstream_gene_variant,,ENST00000483779,;"	"-"	"ENSG00000196187"	"ENST00000366835"	"Transcript"	"intron_variant"	"-/4098"	"-/2424"	"-/807"	""	""	"rs3841810"	"1"	NA	-1	"TMEM63A"	"HGNC"	29118	"protein_coding"	"YES"	"CCDS31042.1"	"ENSP00000355800"	"O94886"	"Q2HIZ8"	"UPI000006DE50"	"NM_014698.2"	NA	NA	""	"6/24"	""	"C:0.1008"	"-:0.9304"	"-:0.8818"	NA	"-:0.8442"	"-:0.9155"	"-:0.909"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCC"	"9d90b084-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"2981"	"ACBD3"	64746	"mskcc.org"	"GRCh37"	"1"	226374605	226374605	"+"	"5'Flank"	"DEL"	"C"	"C"	"-"	"rs141330597"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366812"	""	8	"."	3	5	"."	0	"ACBD3,upstream_gene_variant,,ENST00000366812,NM_022735.3;RP11-275I14.2,downstream_gene_variant,,ENST00000429867,;"	"-"	"ENSG00000182827"	"ENST00000366812"	"Transcript"	"upstream_gene_variant"	"-/3573"	"-/1587"	"-/528"	""	""	"rs141330597"	"1"	"174"	-1	"ACBD3"	"HGNC"	15453	"protein_coding"	"YES"	"CCDS1551.1"	"ENSP00000355777"	"Q9H3P7"	""	"UPI000006F1E1"	"NM_022735.3"	NA	NA	""	""	""	"-:0.1002"	"-:0.0772"	"-:0.0951"	NA	"-:0.0714"	"-:0.1859"	"-:0.0767"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"9d9ea45a-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"2982"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	226387697	226387699	"+"	"IGR"	"DEL"	"TTT"	"TTT"	"-"	"rs34787454"	NA	"JHCCPT5"	"JHCCPN5"	"TTT"	"TTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	5	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34787454"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4056"	"-:0.4924"	"-:0.4006"	NA	"-:0.4246"	"-:0.4254"	"-:0.2515"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTT"	"9d9fd50a-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2983"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	226387788	226387792	"+"	"IGR"	"DEL"	"TCTTT"	"TCTTT"	"-"	"rs140399436"	NA	"JHCCPT5"	"JHCCPN5"	"TCTTT"	"TCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"."	4	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140399436"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTCTTTT"	"9da06998-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"2984"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	226715149	226715150	"+"	"IGR"	"DEL"	"GC"	"GC"	"-"	"rs145062370"	NA	"JHCCPT5"	"JHCCPN5"	"GC"	"GC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	5	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145062370"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1276"	"-:0.0416"	"-:0.1888"	NA	"-:0.0754"	"-:0.1998"	"-:0.18"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGCG"	"9dbb600e-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"2985"	"CDC42BPA"	8476	"mskcc.org"	"GRCh37"	"1"	227227573	227227574	"+"	"Intron"	"INS"	"-"	"-"	"AGAT"	"rs10664152"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3094+258_3094+259insATCT"	""	""	"ENST00000366769"	""	14	"."	5	3	"."	0	"CDC42BPA,intron_variant,,ENST00000366769,NM_003607.3;CDC42BPA,intron_variant,,ENST00000334218,;CDC42BPA,intron_variant,,ENST00000366766,;CDC42BPA,intron_variant,,ENST00000366764,;CDC42BPA,intron_variant,,ENST00000366767,NM_014826.4;CDC42BPA,intron_variant,,ENST00000448940,;CDC42BPA,intron_variant,,ENST00000366765,;CDC42BPA,intron_variant,,ENST00000535525,;CDC42BPA,intron_variant,,ENST00000442054,;CDC42BPA,intron_variant,,ENST00000441725,;"	"AGAT"	"ENSG00000143776"	"ENST00000366769"	"Transcript"	"intron_variant"	"-/10855"	"-/5160"	"-/1719"	""	""	"rs10664152"	"1"	NA	-1	"CDC42BPA"	"HGNC"	1737	"protein_coding"	"YES"	"CCDS1558.1"	"ENSP00000355731"	"Q5VT25"	"Q9NYF6"	"UPI000019097D"	"NM_003607.3"	NA	NA	""	"23/35"	""	"-:0.1629"	"AGAT:0.8495"	"AGAT:0.8314"	NA	"AGAT:0.872"	"AGAT:0.8121"	"AGAT:0.8139"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"b9877caa-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"2986"	"CDC42BPA"	8476	"mskcc.org"	"GRCh37"	"1"	227289114	227289114	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35736619"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2002-174delA"	""	""	"ENST00000366769"	""	21	"."	7	2	"."	0	"CDC42BPA,intron_variant,,ENST00000366769,NM_003607.3;CDC42BPA,intron_variant,,ENST00000334218,;CDC42BPA,intron_variant,,ENST00000366766,;CDC42BPA,intron_variant,,ENST00000366764,;CDC42BPA,intron_variant,,ENST00000366767,NM_014826.4;CDC42BPA,intron_variant,,ENST00000366765,;CDC42BPA,intron_variant,,ENST00000535525,;CDC42BPA,upstream_gene_variant,,ENST00000442054,;"	"-"	"ENSG00000143776"	"ENST00000366769"	"Transcript"	"intron_variant"	"-/10855"	"-/5160"	"-/1719"	""	""	"rs35736619"	"1"	NA	-1	"CDC42BPA"	"HGNC"	1737	"protein_coding"	"YES"	"CCDS1558.1"	"ENSP00000355731"	"Q5VT25"	"Q9NYF6"	"UPI000019097D"	"NM_003607.3"	NA	NA	""	"14/35"	""	"-:0.1240"	"-:0.2905"	"-:0.0879"	NA	"-:0"	"-:0.1342"	"-:0.0419"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"9de88728-280f-11e6-851e-0cd4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"2987"	"OBSCN"	84033	"mskcc.org"	"GRCh37"	"1"	228526742	228526743	"+"	"Intron"	"INS"	"-"	"-"	"CACACA"	"rs778045898"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.20129+45_20129+50dupACACAC"	""	""	"ENST00000570156"	""	31	"."	4	16	"."	0	"OBSCN,intron_variant,,ENST00000570156,NM_001271223.2;OBSCN,intron_variant,,ENST00000366707,;OBSCN,intron_variant,,ENST00000422127,NM_001098623.2;OBSCN,intron_variant,,ENST00000284548,NM_052843.3;OBSCN,intron_variant,,ENST00000366709,;OBSCN,intron_variant,,ENST00000441106,;"	"CACACA"	"ENSG00000154358"	"ENST00000570156"	"Transcript"	"intron_variant"	"-/26927"	"-/26772"	"-/8923"	""	""	"rs778045898"	"1"	NA	1	"OBSCN"	"HGNC"	15719	"protein_coding"	"YES"	"CCDS59204.1"	"ENSP00000455507"	""	"H3BPX2"	"UPI00027FCDB5"	"NM_001271223.2"	NA	NA	""	"80/115"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"35"	""	"1"	"0.01117"	"0.1027"	"0.2083"	"0.1538"	"0.3"	"0.1057"	"0"	"0.0625"	NA	"common_variant"	"GCC"	"b9be55ae-280f-11e6-851e-0cd4414a729f"	"240"	0.1229	"72/586"	"221/19786"	"15/146"	"10/48"	"16/104"	"3/10"	"26/246"	"0/0"	"2/32"	"PASS"	"FALSE"	0.129032258064516	"WXS"	FALSE
"2988"	"RNF187"	149603	"mskcc.org"	"GRCh37"	"1"	228681914	228681914	"+"	"3'UTR"	"DEL"	"T"	"T"	"-"	"rs3839025"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*328delT"	""	""	"ENST00000305943"	"4/4"	13	"."	3	3	"."	0	"RNF187,3_prime_UTR_variant,,ENST00000305943,NM_001010858.2;RNF187,non_coding_transcript_exon_variant,,ENST00000482739,;RNF187,non_coding_transcript_exon_variant,,ENST00000484293,;RNF187,intron_variant,,ENST00000493597,;"	"-"	"ENSG00000168159"	"ENST00000305943"	"Transcript"	"3_prime_UTR_variant"	"1464/3017"	"-/381"	"-/126"	""	""	"rs3839025"	"1"	NA	1	"RNF187"	"HGNC"	27146	"protein_coding"	"YES"	""	"ENSP00000306396"	"Q5TA31"	""	"UPI0000470B86"	"NM_001010858.2"	NA	NA	"4/4"	""	""	"-:0.3500"	"-:0.5197"	"-:0.2464"	NA	"-:0.5099"	"-:0.174"	"-:0.2106"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTC"	"9e1cce20-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"2989"	"NUP133"	55746	"mskcc.org"	"GRCh37"	"1"	229586486	229586487	"+"	"Intron"	"INS"	"-"	"-"	"TTTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3100-135_3100-134insCAAA"	""	""	"ENST00000261396"	""	23	"."	4	3	"."	0	"NUP133,intron_variant,,ENST00000261396,NM_018230.2;NUP133,intron_variant,,ENST00000537506,;NUP133,non_coding_transcript_exon_variant,,ENST00000485119,;NUP133,non_coding_transcript_exon_variant,,ENST00000490352,;"	"TTTG"	"ENSG00000069248"	"ENST00000261396"	"Transcript"	"intron_variant"	"-/4169"	"-/3471"	"-/1156"	""	""	""	"1"	NA	-1	"NUP133"	"HGNC"	18016	"protein_coding"	"YES"	"CCDS1579.1"	"ENSP00000261396"	"Q8WUM0"	""	"UPI000013D17A"	"NM_018230.2"	NA	NA	""	"22/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"b9e17f48-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"2990"	"GALNT2"	2590	"mskcc.org"	"GRCh37"	"1"	230230096	230230097	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs77961777"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.126+26943_126+26944insC"	""	""	"ENST00000366672"	""	9	"."	6	1	"."	0	"GALNT2,intron_variant,,ENST00000366672,NM_004481.3;GALNT2,intron_variant,,ENST00000543760,;GALNT2,intron_variant,,ENST00000541865,;GALNT2,intron_variant,,ENST00000494106,;GALNT2,downstream_gene_variant,,ENST00000488903,;"	"C"	"ENSG00000143641"	"ENST00000366672"	"Transcript"	"intron_variant"	"-/4454"	"-/1716"	"-/571"	""	""	"rs77961777"	"1"	NA	1	"GALNT2"	"HGNC"	4124	"protein_coding"	"YES"	"CCDS1582.1"	"ENSP00000355632"	"Q10471"	""	"UPI0000074053"	"NM_004481.3"	NA	NA	""	"1/15"	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"b9e981fc-280f-11e6-851e-0cd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"2991"	"EGLN1"	54583	"mskcc.org"	"GRCh37"	"1"	231509416	231509431	"+"	"Intron"	"DEL"	"GTGTGTGCGTGTGTGT"	"GTGTGTGCGTGTGTGT"	"-"	"rs67262882"	NA	"JHCCPT5"	"JHCCPN5"	"GTGTGTGCGTGTGTGT"	"GTGTGTGCGTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1011+295_1011+310delACACACACGCACACAC"	""	""	"ENST00000366641"	""	11	"."	4	1	"."	0	"EGLN1,intron_variant,,ENST00000366641,NM_022051.2;EGLN1,intron_variant,,ENST00000476717,;"	"-"	"ENSG00000135766"	"ENST00000366641"	"Transcript"	"intron_variant"	"-/7097"	"-/1281"	"-/426"	""	""	"rs67262882"	"1"	NA	-1	"EGLN1"	"HGNC"	1232	"protein_coding"	"YES"	"CCDS1595.1"	"ENSP00000355601"	"Q9GZT9"	"R4SCQ0,Q9NTU9"	"UPI0000050C90"	"NM_022051.2"	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCGTGTGTGCGTGTGTGTG"	"9ea4f1b0-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"2992"	"SLC35F3"	148641	"mskcc.org"	"GRCh37"	"1"	234068041	234068042	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11395145"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.283+26544dupA"	""	""	"ENST00000366618"	""	10	"."	5	3	"."	0	"SLC35F3,intron_variant,,ENST00000366618,NM_173508.2;"	"A"	"ENSG00000183780"	"ENST00000366618"	"Transcript"	"intron_variant"	"-/2891"	"-/1473"	"-/490"	""	""	"rs11395145"	"1"	NA	1	"SLC35F3"	"HGNC"	23616	"protein_coding"	"YES"	"CCDS1600.1"	"ENSP00000355577"	"Q8IY50"	""	"UPI000006DD13"	"NM_173508.2"	NA	NA	""	"2/7"	""	"A:0.3401"	"A:0.062"	"A:0.5447"	NA	"A:0.4792"	"A:0.3439"	"A:0.4233"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"ba195300-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"2993"	"IRF2BP2"	359948	"mskcc.org"	"GRCh37"	"1"	234735947	234735948	"+"	"3'Flank"	"INS"	"-"	"-"	"CCCGTCCCGTCCCGT"	"rs573339961"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366609"	""	21	"."	4	6	"."	0	"IRF2BP2,downstream_gene_variant,,ENST00000366609,NM_182972.2;IRF2BP2,downstream_gene_variant,,ENST00000366610,NM_001077397.1;"	"CCCGTCCCGTCCCGT"	"ENSG00000168264"	"ENST00000366609"	"Transcript"	"downstream_gene_variant"	"-/4663"	"-/1764"	"-/587"	""	""	"rs573339961"	"1"	"4067"	-1	"IRF2BP2"	"HGNC"	21729	"protein_coding"	"YES"	"CCDS1602.1"	"ENSP00000355568"	"Q7Z5L9"	"B4DTU9"	"UPI000004FA32"	"NM_182972.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"ba522810-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"2994"	"RBM34"	23029	"mskcc.org"	"GRCh37"	"1"	235316331	235316331	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs146607527"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.598-251delG"	""	""	"ENST00000408888"	""	11	"."	3	1	"."	0	"RBM34,intron_variant,,ENST00000408888,;RBM34,intron_variant,,ENST00000366606,NM_015014.2;RBM34,intron_variant,,ENST00000447801,;RBM34,downstream_gene_variant,,ENST00000429912,;ARID4B,intron_variant,,ENST00000474953,;RBM34,intron_variant,,ENST00000474086,;RBM34,intron_variant,,ENST00000476261,;RBM34,downstream_gene_variant,,ENST00000468751,;RBM34,downstream_gene_variant,,ENST00000475960,;"	"-"	"ENSG00000188739"	"ENST00000408888"	"Transcript"	"intron_variant"	"-/2054"	"-/1293"	"-/430"	""	""	"rs146607527"	"1"	NA	-1	"RBM34"	"HGNC"	28965	"protein_coding"	"YES"	"CCDS41477.2"	"ENSP00000386226"	"P42696"	""	"UPI00001D7E4C"	""	NA	NA	""	"4/10"	""	"-:0.1436"	"-:0.2201"	"-:0.1009"	NA	"-:0.1002"	"-:0.1869"	"-:0.0706"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCC"	"9f1cb740-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"2995"	"TBCE"	6905	"mskcc.org"	"GRCh37"	"1"	235602932	235602933	"+"	"Intron"	"DEL"	"AG"	"-"	"-"	"rs112572292"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1270+695_1270+696delAG"	""	""	"ENST00000366601"	""	6	"."	5	2	"."	0	"TBCE,intron_variant,,ENST00000543662,NM_001287801.1;TBCE,intron_variant,,ENST00000366601,;TBCE,intron_variant,,ENST00000406207,NM_001079515.1,NM_003193.3;TBCE,intron_variant,,ENST00000472011,;TBCE,downstream_gene_variant,,ENST00000482230,;TBCE,upstream_gene_variant,,ENST00000465463,;"	"-"	"ENSG00000116957"	"ENST00000366601"	"Transcript"	"intron_variant"	"-/1966"	"-/1584"	"-/527"	""	""	"rs112572292"	"1"	NA	1	"TBCE"	"HGNC"	11582	"protein_coding"	"YES"	"CCDS1605.1"	"ENSP00000355560"	"Q15813"	""	"UPI000006F791"	""	NA	NA	""	"13/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTAGC"	"9f2d77e2-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"2996"	"LYST"	1130	"mskcc.org"	"GRCh37"	"1"	235954580	235954581	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs200787319"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4543+417_4543+418dupTT"	""	""	"ENST00000389794"	""	11	"."	5	2	"."	0	"LYST,intron_variant,,ENST00000389794,;LYST,intron_variant,,ENST00000389793,NM_000081.3;LYST,intron_variant,,ENST00000536965,;LYST,intron_variant,,ENST00000489585,;LYST,downstream_gene_variant,,ENST00000465349,;LYST,upstream_gene_variant,,ENST00000492844,;"	"AA"	"ENSG00000143669"	"ENST00000389794"	"Transcript"	"intron_variant"	"-/13480"	"-/11406"	"-/3801"	""	""	"rs200787319"	"1"	NA	-1	"LYST"	"HGNC"	1968	"protein_coding"	"YES"	"CCDS31062.1"	"ENSP00000374444"	"Q99698"	""	"UPI000020509E"	""	NA	NA	""	"12/52"	""	"AA:0.0445"	"AA:0.0083"	"AA:0.0764"	NA	"AA:0"	"AA:0.1312"	"AA:0.0276"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"ba69b1ec-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"2997"	"EDARADD"	128178	"mskcc.org"	"GRCh37"	"1"	236557311	236557312	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs34738771"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000334232"	""	8	"."	5	1	"."	0	"EDARADD,intron_variant,,ENST00000439430,;EDARADD,upstream_gene_variant,,ENST00000359362,NM_080738.3;EDARADD,upstream_gene_variant,,ENST00000334232,NM_145861.2;"	"C"	"ENSG00000186197"	"ENST00000334232"	"Transcript"	"upstream_gene_variant"	"-/858"	"-/648"	"-/215"	""	""	"rs34738771"	"1"	"266"	1	"EDARADD"	"HGNC"	14341	"protein_coding"	"YES"	"CCDS1610.1"	"ENSP00000335076"	"Q8WWZ3"	"B1AL55"	"UPI0000456324"	"NM_145861.2"	NA	NA	""	""	""	"-:0.2035"	"C:0.5393"	"C:0.8718"	NA	"C:0.9177"	"C:0.825"	"C:0.9366"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAC"	"ba8315ba-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"2998"	"LGALS8"	3964	"mskcc.org"	"GRCh37"	"1"	236707828	236707829	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs34899120"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.765-219dupG"	""	""	"ENST00000526589"	""	17	"."	3	2	"."	0	"LGALS8,intron_variant,,ENST00000526589,;LGALS8,intron_variant,,ENST00000366584,NM_201544.2;LGALS8,intron_variant,,ENST00000450372,NM_006499.4;LGALS8,intron_variant,,ENST00000341872,NM_201543.2;LGALS8,intron_variant,,ENST00000323938,;LGALS8,intron_variant,,ENST00000526634,;LGALS8,intron_variant,,ENST00000352231,NM_201545.2;LGALS8,intron_variant,,ENST00000527974,;LGALS8,intron_variant,,ENST00000416919,;LGALS8,intron_variant,,ENST00000525042,;LGALS8,intron_variant,,ENST00000238181,;HEATR1,downstream_gene_variant,,ENST00000366582,NM_018072.5;LGALS8,downstream_gene_variant,,ENST00000406509,;LGALS8,downstream_gene_variant,,ENST00000454943,;LGALS8,downstream_gene_variant,,ENST00000430527,;RP11-385F5.4,intron_variant,,ENST00000433131,;LGALS8,intron_variant,,ENST00000489586,;LGALS8,intron_variant,,ENST00000528259,;LGALS8,intron_variant,,ENST00000525789,;LGALS8,intron_variant,,ENST00000532640,;LGALS8,downstream_gene_variant,,ENST00000366583,;LGALS8,downstream_gene_variant,,ENST00000434231,;LGALS8,downstream_gene_variant,,ENST00000528782,;LGALS8,downstream_gene_variant,,ENST00000442397,;LGALS8,downstream_gene_variant,,ENST00000529796,;LGALS8,downstream_gene_variant,,ENST00000526652,;"	"G"	"ENSG00000116977"	"ENST00000526589"	"Transcript"	"intron_variant"	"-/6420"	"-/1080"	"-/359"	""	""	"rs34899120"	"1"	NA	1	"LGALS8"	"HGNC"	6569	"protein_coding"	"YES"	"CCDS1611.1"	"ENSP00000435460"	"O00214"	"Q5T3P9,E9PPL1,E9PJ77,B1ANM0"	"UPI0000169CE4"	""	NA	NA	""	"12/13"	""	"G:0.4289"	"G:0.2269"	"G:0.4784"	NA	"G:0.4762"	"G:0.6362"	"G:0.4049"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"ba8e20fe-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"2999"	"HEATR1"	55127	"mskcc.org"	"GRCh37"	"1"	236729732	236729733	"+"	"Intron"	"INS"	"-"	"-"	"AGA"	"rs10695228"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4308+211_4308+213dupTCT"	""	""	"ENST00000366582"	""	13	"."	4	5	"."	0	"HEATR1,intron_variant,,ENST00000366582,NM_018072.5;HEATR1,intron_variant,,ENST00000366581,;"	"AGA"	"ENSG00000119285"	"ENST00000366582"	"Transcript"	"intron_variant"	"-/8447"	"-/6435"	"-/2144"	""	""	"rs10695228"	"1"	NA	-1	"HEATR1"	"HGNC"	25517	"protein_coding"	"YES"	"CCDS31066.1"	"ENSP00000355541"	"Q9H583"	"Q6P664"	"UPI000013D4D4"	"NM_018072.5"	NA	NA	""	"30/44"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"baa8af0a-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3000"	"RYR2"	6262	"mskcc.org"	"GRCh37"	"1"	237675150	237675151	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs57409517"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2822+59_2822+60insG"	""	""	"ENST00000366574"	""	104	"."	6	15	"."	0	"RYR2,intron_variant,,ENST00000366574,NM_001035.2;RYR2,intron_variant,,ENST00000542537,;RYR2,intron_variant,,ENST00000360064,;"	"G"	"ENSG00000198626"	"ENST00000366574"	"Transcript"	"intron_variant"	"-/16562"	"-/14904"	"-/4967"	""	""	"rs57409517"	"1"	NA	1	"RYR2"	"HGNC"	10484	"protein_coding"	"YES"	"CCDS55691.1"	"ENSP00000355533"	"Q92736"	"H0YGL9,D7UNU4,D7UNU3,D7UNU2"	"UPI0000DD0308"	"NM_001035.2"	NA	NA	""	"24/104"	""	"G:0.3433"	"G:0.6067"	"G:0.1931"	NA	"G:0.2738"	"G:0.2306"	"G:0.2812"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"bae3a63c-280f-11e6-851e-0cd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0576923076923077	"WXS"	FALSE
"3001"	"RYR2"	6262	"mskcc.org"	"GRCh37"	"1"	237955650	237955655	"+"	"Intron"	"DEL"	"TGTGTG"	"TGTGTG"	"-"	"rs749990949"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTG"	"TGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.13782+53_13782+58delTGTGTG"	""	""	"ENST00000366574"	""	56	"."	5	43	"."	0	"RYR2,intron_variant,,ENST00000366574,NM_001035.2;RYR2,intron_variant,,ENST00000542537,;RYR2,intron_variant,,ENST00000360064,;RYR2,intron_variant,,ENST00000608590,;"	"-"	"ENSG00000198626"	"ENST00000366574"	"Transcript"	"intron_variant"	"-/16562"	"-/14904"	"-/4967"	""	""	"rs749990949"	"1"	NA	1	"RYR2"	"HGNC"	10484	"protein_coding"	"YES"	"CCDS55691.1"	"ENSP00000355533"	"Q92736"	"H0YGL9,D7UNU4,D7UNU3,D7UNU2"	"UPI0000DD0308"	"NM_001035.2"	NA	NA	""	"94/104"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"26"	""	"1"	"0.06228"	"0.08003"	"0.1672"	"0.1362"	"0.09397"	"0.1408"	"0.1438"	"0.1186"	"1"	"common_variant"	"CCTGTGTGT"	"9fdb9b38-280f-11e6-851e-0cd4414a729f"	"300"	0.1323	"2911/22002"	"6402/102802"	"105/1312"	"326/1950"	"238/1748"	"212/2256"	"1770/12574"	"21/146"	"239/2016"	"PASS"	"FALSE"	0.0892857142857143	"WXS"	FALSE
"3002"	"RNU6-725P"	0	"mskcc.org"	"GRCh37"	"1"	238489563	238489564	"+"	"5'Flank"	"DEL"	"TG"	"-"	"-"	"rs34127859"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516562"	""	6	"."	5	2	"."	0	"RNU6-725P,upstream_gene_variant,,ENST00000516562,;"	"-"	"ENSG00000252371"	"ENST00000516562"	"Transcript"	"upstream_gene_variant"	"-/102"	""	""	""	""	"rs34127859"	"1"	"475"	-1	"RNU6-725P"	"HGNC"	47688	"snRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"TG:0.4046"	"-:0.2859"	"-:0.6196"	NA	"-:0.8849"	"-:0.5716"	"-:0.7229"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"9fec2908-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3003"	"WDR64"	128025	"mskcc.org"	"GRCh37"	"1"	241838140	241838213	"+"	"Intron"	"DEL"	"CCTTCCTTCCTTCTTTCCTTCCTCCCTCCCTCCTTTCTTTCTTTCCTTCTTGCTTTTATTTCCTTCCTCTTATT"	"CCTTCCTTCCTTCTTTCCTTCCTCCCTCCCTCCTTTCTTTCTTTCCTTCTTGCTTTTATTTCCTTCCTCTTATT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CCTTCCTTCCTTCTTTCCTTCCTCCCTCCCTCCTTTCTTTCTTTCCTTCTTGCTTTTATTTCCTTCCTCTTATT"	"CCTTCCTTCCTTCTTTCCTTCCTCCCTCCCTCCTTTCTTTCTTTCCTTCTTGCTTTTATTTCCTTCCTCTTATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.483+126_483+199delTCTTTCTTTCCTTCTTGCTTTTATTTCCTTCCTCTTATTCCTTCCTTCCTTCTTTCCTTCCTCCCTCCCTCCTT"	""	""	"ENST00000366552"	""	41	"."	4	13	"."	0	"WDR64,intron_variant,,ENST00000366552,NM_144625.4;WDR64,intron_variant,,ENST00000437684,;OPN3,intron_variant,,ENST00000463155,;WDR64,intron_variant,,ENST00000461971,;WDR64,intron_variant,,ENST00000496914,;WDR64,intron_variant,,ENST00000468967,;"	"-"	"ENSG00000162843"	"ENST00000366552"	"Transcript"	"intron_variant"	"-/4371"	"-/3246"	"-/1081"	""	""	""	"1"	NA	1	"WDR64"	"HGNC"	26570	"protein_coding"	"YES"	""	"ENSP00000355510"	"B1ANS9"	"D6RCR1"	"UPI0000519142"	"NM_144625.4"	NA	NA	""	"4/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"35"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCCTTCCTTCCTTCTTTCCTTCCTCCCTCCCTCCTTTCTTTCTTTCCTTCTTGCTTTTATTTCCTTCCTCTTATTC"	"a0321468-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WXS"	FALSE
"3004"	"EXO1"	9156	"mskcc.org"	"GRCh37"	"1"	242048514	242048515	"+"	"Intron"	"INS"	"-"	"-"	"TAAA"	"rs71570909"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2212-82_2212-79dupATAA"	""	""	"ENST00000366548"	""	84	"."	11	10	"."	0	"EXO1,intron_variant,,ENST00000366548,NM_130398.3;EXO1,intron_variant,,ENST00000348581,NM_003686.4,NM_006027.4;EXO1,intron_variant,,ENST00000518483,;EXO1,intron_variant,,ENST00000521202,;EXO1,upstream_gene_variant,,ENST00000518741,;"	"TAAA"	"ENSG00000174371"	"ENST00000366548"	"Transcript"	"intron_variant"	"-/3473"	"-/2541"	"-/846"	""	""	"rs71570909"	"1"	NA	1	"EXO1"	"HGNC"	3511	"protein_coding"	"YES"	"CCDS1620.1"	"ENSP00000355506"	"Q9UQ84"	"Q5T399"	"UPI000013DDA8"	"NM_130398.3"	NA	NA	""	"14/15"	""	"TAAA:0.1402"	"TAAATAAATAAATAAA:0.0038"	"TAAATAAATAAATAAA:0.0072"	NA	"TAAATAAATAAATAAA:0.005"	"TAAATAAATAAATAAA:0.004"	"TAAATAAATAAATAAA:0.0112"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"23"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"bb416e8e-280f-11e6-851e-0cd4414a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130952380952381	"WXS"	FALSE
"3005"	"PLD5"	200150	"mskcc.org"	"GRCh37"	"1"	242383609	242383613	"+"	"Intron"	"DEL"	"AAAAG"	"AAAAG"	"-"	"rs113967982"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAG"	"AAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.608-196_608-192delCTTTT"	""	""	"ENST00000536534"	""	12	"."	3	2	"."	0	"PLD5,intron_variant,,ENST00000536534,;PLD5,intron_variant,,ENST00000442594,NM_152666.2;PLD5,intron_variant,,ENST00000427495,NM_001195811.1,NM_001195812.1;PLD5,intron_variant,,ENST00000314833,;PLD5,intron_variant,,ENST00000366545,;PLD5,intron_variant,,ENST00000467561,;"	"-"	"ENSG00000180287"	"ENST00000536534"	"Transcript"	"intron_variant"	"-/8721"	"-/1611"	"-/536"	""	""	"rs113967982"	"1"	NA	-1	"PLD5"	"HGNC"	26879	"protein_coding"	"YES"	"CCDS1621.2"	"ENSP00000440896"	"Q8N7P1"	"J3KP61"	"UPI000040E1A4"	""	NA	NA	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAAAAGA"	"a05c408a-280f-11e6-851e-0cd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3006"	"PLD5"	200150	"mskcc.org"	"GRCh37"	"1"	242430497	242430498	"+"	"Intron"	"INS"	"-"	"-"	"GGAAAG"	"rs781730008"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.496-1753_496-1748dupCTTTCC"	""	""	"ENST00000536534"	""	12	"."	5	1	"."	0	"PLD5,intron_variant,,ENST00000536534,;PLD5,intron_variant,,ENST00000442594,NM_152666.2;PLD5,intron_variant,,ENST00000427495,NM_001195811.1,NM_001195812.1;PLD5,intron_variant,,ENST00000459864,;PLD5,upstream_gene_variant,,ENST00000474177,;PLD5,intron_variant,,ENST00000314833,;PLD5,intron_variant,,ENST00000366545,;PLD5,intron_variant,,ENST00000467561,;"	"GGAAAG"	"ENSG00000180287"	"ENST00000536534"	"Transcript"	"intron_variant"	"-/8721"	"-/1611"	"-/536"	""	""	"rs781730008"	"1"	NA	-1	"PLD5"	"HGNC"	26879	"protein_coding"	"YES"	"CCDS1621.2"	"ENSP00000440896"	"Q8N7P1"	"J3KP61"	"UPI000040E1A4"	""	NA	NA	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"bb4dd034-280f-11e6-851e-0cd4414a729f"	"249"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"3007"	"AKT3"	10000	"mskcc.org"	"GRCh37"	"1"	244013597	244013598	"+"	"5'Flank"	"INS"	"-"	"-"	"GGC"	"rs34490111"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366539"	""	9	"."	4	8	"."	0	"AKT3,intron_variant,,ENST00000552631,;AKT3,upstream_gene_variant,,ENST00000366539,;"	"GGC"	"ENSG00000117020"	"ENST00000366539"	"Transcript"	"upstream_gene_variant"	"-/5127"	"-/1440"	"-/479"	""	""	"rs34490111"	"1"	"167"	-1	"AKT3"	"HGNC"	393	"protein_coding"	"YES"	"CCDS31077.1"	"ENSP00000355497"	"Q9Y243"	"F8VS91"	"UPI00000335E8"	""	NA	NA	""	""	""	"GGC:0.4115"	"GGC:0.0968"	"GGC:0.5504"	NA	"GGC:0.4226"	"GGC:0.6501"	"GGC:0.4816"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"bb529254-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3008"	"C1orf100"	200159	"mskcc.org"	"GRCh37"	"1"	244520530	244520531	"+"	"Intron"	"INS"	"-"	"-"	"TACTTTCTAATGAGGGCAGGG"	"rs140964471"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-14+4495_-14+4496insACTTTCTAATGAGGGCAGGGT"	""	""	"ENST00000308105"	""	9	"."	5	2	"."	0	"C1orf100,intron_variant,,ENST00000308105,NM_001012970.2;C1orf100,intron_variant,,ENST00000366537,NM_001276348.1;C1orf100,intron_variant,,ENST00000486803,;"	"TACTTTCTAATGAGGGCAGGG"	"ENSG00000173728"	"ENST00000308105"	"Transcript"	"intron_variant"	"-/579"	"-/444"	"-/147"	""	""	"rs140964471"	"1"	NA	1	"C1orf100"	"HGNC"	30435	"protein_coding"	"YES"	"CCDS31079.1"	"ENSP00000311218"	"Q5SVJ3"	""	"UPI0000470251"	"NM_001012970.2"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"bb578930-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3009"	"C1orf101"	257044	"mskcc.org"	"GRCh37"	"1"	244803220	244803220	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2703-10delC"	""	""	"ENST00000366534"	""	120	"."	4	49	"."	0	"C1orf101,intron_variant,,ENST00000366534,NM_001130957.1;C1orf101,intron_variant,,ENST00000366533,NM_173807.4;C1orf101,intron_variant,,ENST00000366531,NM_001242340.1;C1orf101,intron_variant,,ENST00000428042,;C1orf101,downstream_gene_variant,,ENST00000485888,;C1orf101,upstream_gene_variant,,ENST00000487449,;"	"-"	"ENSG00000179397"	"ENST00000366534"	"Transcript"	"intron_variant"	"-/3333"	"-/2856"	"-/951"	""	""	""	"1"	NA	1	"C1orf101"	"HGNC"	28491	"protein_coding"	"YES"	"CCDS44340.1"	"ENSP00000355492"	"Q5SY80"	""	"UPI00004701CD"	"NM_001130957.1"	NA	NA	""	"21/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCT"	"a09a906a-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0333333333333333	"WXS"	FALSE
"3010"	"SMYD3"	64754	"mskcc.org"	"GRCh37"	"1"	246011579	246011580	"+"	"Intron"	"INS"	"-"	"TG"	"TG"	"rs3086296"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1076+10217_1076+10218dupCA"	""	""	"ENST00000388985"	""	7	"."	5	1	"."	0	"SMYD3,intron_variant,,ENST00000490107,NM_001167740.1;SMYD3,intron_variant,,ENST00000541742,NM_022743.2;SMYD3,intron_variant,,ENST00000388985,;SMYD3,intron_variant,,ENST00000366517,;SMYD3,intron_variant,,ENST00000470510,;SMYD3,intron_variant,,ENST00000493441,;SMYD3,intron_variant,,ENST00000488153,;SMYD3,intron_variant,,ENST00000483072,;SMYD3,intron_variant,,ENST00000366516,;"	"TG"	"ENSG00000185420"	"ENST00000388985"	"Transcript"	"intron_variant"	"-/1287"	"-/1287"	"-/428"	""	""	"rs3086296"	"1"	NA	-1	"SMYD3"	"HGNC"	15513	"protein_coding"	"YES"	"CCDS53486.1"	"ENSP00000373637"	"Q9H7B4"	"B3KN46,B0QZA0,B0QZ99,A8MXR1"	"UPI000022AFDA"	""	NA	NA	""	"10/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"bb78cf78-280f-11e6-851e-0cd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3011"	"AHCTF1"	25909	"mskcc.org"	"GRCh37"	"1"	247007026	247007042	"+"	"Intron"	"DEL"	"TTTATTAAAACATTTGT"	"TTTATTAAAACATTTGT"	"AAAACATTTGT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTATTAAAACATTTGT"	"TTTATTAAAACATTTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6552+67_6552+72delATAAAA"	""	""	"ENST00000326225"	""	32	"."	5	3	"."	0	"AHCTF1,intron_variant,,ENST00000366508,;AHCTF1,intron_variant,,ENST00000326225,NM_015446.4;AHCTF1,intron_variant,,ENST00000391829,;AHCTF1,intron_variant,,ENST00000470300,;AHCTF1,intron_variant,,ENST00000498601,;"	"-"	"ENSG00000153207"	"ENST00000326225"	"Transcript"	"intron_variant"	"-/8633"	"-/6828"	"-/2275"	""	""	""	"1"	NA	-1	"AHCTF1"	"HGNC"	24618	"protein_coding"	"YES"	"CCDS1629.2"	"ENSP00000355465"	"Q8WYP5"	"C9J5C5"	"UPI0000204034"	"NM_015446.4"	NA	NA	""	"34/35"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"-1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTTTATTAAAACATTTGTA"	"a29d92f4-280f-11e6-851e-0cd4414a729f"	"286"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WXS"	FALSE
"3012"	"AHCTF1"	25909	"mskcc.org"	"GRCh37"	"1"	247021266	247021267	"+"	"Intron"	"INS"	"-"	"-"	"TTCT"	"rs111386980"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4160-151_4160-150insAGAA"	""	""	"ENST00000326225"	""	28	"."	4	11	"."	0	"AHCTF1,intron_variant,,ENST00000366508,;AHCTF1,intron_variant,,ENST00000326225,NM_015446.4;AHCTF1,intron_variant,,ENST00000391829,;AHCTF1,intron_variant,,ENST00000470300,;AHCTF1,intron_variant,,ENST00000483900,;AHCTF1,downstream_gene_variant,,ENST00000477526,;"	"TTCT"	"ENSG00000153207"	"ENST00000326225"	"Transcript"	"intron_variant"	"-/8633"	"-/6828"	"-/2275"	""	""	"rs111386980"	"1"	NA	-1	"AHCTF1"	"HGNC"	24618	"protein_coding"	"YES"	"CCDS1629.2"	"ENSP00000355465"	"Q8WYP5"	"C9J5C5"	"UPI0000204034"	"NM_015446.4"	NA	NA	""	"29/35"	""	"-:0.0308"	"TTCT:0.9788"	"TTCT:0.9524"	NA	"TTCT:0.996"	"TTCT:0.9553"	"TTCT:0.955"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"bb9e1f26-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"3013"	"ZNF695"	57116	"mskcc.org"	"GRCh37"	"1"	247143030	247143034	"+"	"Intron"	"DEL"	"TTAGT"	"TTAGT"	"-"	"rs140208249"	NA	"JHCCPT5"	"JHCCPN5"	"TTAGT"	"TTAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.390+8393_390+8397delACTAA"	""	""	"ENST00000487338"	""	9	"."	4	1	"."	0	"ZNF695,intron_variant,,ENST00000487338,NM_001204221.1;ZNF695,intron_variant,,ENST00000498046,;ZNF670,intron_variant,,ENST00000474541,;ZNF670,intron_variant,,ENST00000465049,;ZNF695,intron_variant,,ENST00000479214,;ZNF695,intron_variant,,ENST00000366504,;ZNF695,intron_variant,,ENST00000491337,;"	"-"	"ENSG00000197472"	"ENST00000487338"	"Transcript"	"intron_variant"	"-/826"	"-/519"	"-/172"	""	""	"rs140208249"	"1"	NA	-1	"ZNF695"	"HGNC"	30954	"protein_coding"	""	"CCDS55694.1"	"ENSP00000429736"	"Q8IW36"	""	"UPI000047010D"	"NM_001204221.1"	NA	NA	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTAGTT"	"a0e4603c-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3014"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	247944471	247944471	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs34143435"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34143435"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.0875"	"-:0.7126"	"-:0.9741"	NA	"-:0.9921"	"-:1"	"-:0.9673"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAA"	"a1123aa2-280f-11e6-851e-0cd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3015"	"GTPBP4"	23560	"mskcc.org"	"GRCh37"	"10"	1056785	1057057	"+"	"Intron"	"DEL"	"ACTGGTGGAGATGCTGGGCCCCTTCATTCTCCTGCATCCCTCCATCCTGACTCTGCCCCCTACACCACCTTCCCCACCCCGAGACTCTGGTGGAGATGCTGGGCCTCTTCATTCTCCTGCACCCCTCCATCCTGACTGTGCCTCCTGCACCACCTTCCCCCCCACCCTGTGTCTCCGCCAGGCCCTGGATGGGCTCTGCTGTGCTGGGCCCTTCATTCTCCTGCATCCCTCCATCCTGACTGTGCCTCCTGCACCTCTTCCCCCCACCCCGAG"	"ACTGGTGGAGATGCTGGGCCCCTTCATTCTCCTGCATCCCTCCATCCTGACTCTGCCCCCTACACCACCTTCCCCACCCCGAGACTCTGGTGGAGATGCTGGGCCTCTTCATTCTCCTGCACCCCTCCATCCTGACTGTGCCTCCTGCACCACCTTCCCCCCCACCCTGTGTCTCCGCCAGGCCCTGGATGGGCTCTGCTGTGCTGGGCCCTTCATTCTCCTGCATCCCTCCATCCTGACTGTGCCTCCTGCACCTCTTCCCCCCACCCCGAG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"ACTGGTGGAGATGCTGGGCCCCTTCATTCTCCTGCATCCCTCCATCCTGACTCTGCCCCCTACACCACCTTCCCCACCCCGAGACTCTGGTGGAGATGCTGGGCCTCTTCATTCTCCTGCACCCCTCCATCCTGACTGTGCCTCCTGCACCACCTTCCCCCCCACCCTGTGTCTCCGCCAGGCCCTGGATGGGCTCTGCTGTGCTGGGCCCTTCATTCTCCTGCATCCCTCCATCCTGACTGTGCCTCCTGCACCTCTTCCCCCCACCCCGAG"	"ACTGGTGGAGATGCTGGGCCCCTTCATTCTCCTGCATCCCTCCATCCTGACTCTGCCCCCTACACCACCTTCCCCACCCCGAGACTCTGGTGGAGATGCTGGGCCTCTTCATTCTCCTGCACCCCTCCATCCTGACTGTGCCTCCTGCACCACCTTCCCCCCCACCCTGTGTCTCCGCCAGGCCCTGGATGGGCTCTGCTGTGCTGGGCCCTTCATTCTCCTGCATCCCTCCATCCTGACTGTGCCTCCTGCACCTCTTCCCCCCACCCCGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1344+328_1344+600delGGTGGAGATGCTGGGCCCCTTCATTCTCCTGCATCCCTCCATCCTGACTCTGCCCCCTACACCACCTTCCCCACCCCGAGACTCTGGTGGAGATGCTGGGCCTCTTCATTCTCCTGCACCCCTCCATCCTGACTGTGCCTCCTGCACCACCTTCCCCCCCACCCTGTGTCTCCGCCAGGCCCTGGATGGGCTCTGCTGTGCTGGGCCCTTCATTCTCCTGCATCCCTCCATCCTGACTGTGCCTCCTGCACCTCTTCCCCCCACCCCGAGACT"	""	""	"ENST00000360803"	""	9	"."	3	5	"."	0	"GTPBP4,intron_variant,,ENST00000360803,NM_012341.2;GTPBP4,intron_variant,,ENST00000545048,;GTPBP4,intron_variant,,ENST00000538293,;GTPBP4,downstream_gene_variant,,ENST00000491635,;GTPBP4,upstream_gene_variant,,ENST00000483839,;GTPBP4,downstream_gene_variant,,ENST00000491261,;"	"-"	"ENSG00000107937"	"ENST00000360803"	"Transcript"	"intron_variant"	"-/4696"	"-/1905"	"-/634"	""	""	""	"1"	NA	1	"GTPBP4"	"HGNC"	21535	"protein_coding"	"YES"	"CCDS31132.1"	"ENSP00000354040"	"Q9BZE4"	"Q5T3R7,D2CFK9,B7Z7A3,B4DY13"	"UPI000000D960"	"NM_012341.2"	NA	NA	""	"13/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACACTGGTGGAGATGCTGGGCCCCTTCATTCTCCTGCATCCCTCCATCCTGACTCTGCCCCCTACACCACCTTCCCCACCCCGAGACTCTGGTGGAGATGCTGGGCCTCTTCATTCTCCTGCACCCCTCCATCCTGACTGTGCCTCCTGCACCACCTTCCCCCCCACCCTGTGTCTCCGCCAGGCCCTGGATGGGCTCTGCTGTGCTGGGCCCTTCATTCTCCTGCATCCCTCCATCCTGACTGTGCCTCCTGCACCTCTTCCCCCCACCCCGAGA"	"64ca0296-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3016"	"ADARB2"	105	"mskcc.org"	"GRCh37"	"10"	1226606	1226607	"+"	"3'Flank"	"INS"	"-"	"CCCTCTG"	"CCCTCTG"	"rs144363283"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000381312"	""	7	"."	5	5	"."	0	"ADARB2,downstream_gene_variant,,ENST00000381312,NM_018702.3;ADARB2,downstream_gene_variant,,ENST00000381310,;ADARB2,downstream_gene_variant,,ENST00000381305,;ADARB2,downstream_gene_variant,,ENST00000474762,;ADARB2,downstream_gene_variant,,ENST00000490172,;"	"CCCTCTG"	"ENSG00000185736"	"ENST00000381312"	"Transcript"	"downstream_gene_variant"	"-/3606"	"-/2220"	"-/739"	""	""	"rs144363283"	"1"	"1466"	-1	"ADARB2"	"HGNC"	227	"protein_coding"	"YES"	"CCDS7058.1"	"ENSP00000370713"	"Q9NS39"	"Q5VW43"	"UPI0000071776"	"NM_018702.3"	NA	NA	""	""	""	"-:0.4267"	"CCCTCTG:0.3548"	"CCCTCTG:0.5259"	NA	"CCCTCTG:0.6696"	"CCCTCTG:0.6809"	"CCCTCTG:0.6922"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"8448a3fc-280f-11e6-bc21-fcd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3017"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	2991499	2991510	"+"	"IGR"	"DEL"	"AAGAAAGGAAGG"	"AAGAAAGGAAGG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAGAAAGGAAGG"	"AAGAAAGGAAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAGAAAGGAAGGA"	"6505504e-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3018"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	3705192	3705219	"+"	"IGR"	"DEL"	"CTTTCTTCCTTCCTTCCTTCCTTCCTTC"	"CTTTCTTCCTTCCTTCCTTCCTTCCTTC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CTTTCTTCCTTCCTTCCTTCCTTCCTTC"	"CTTTCTTCCTTCCTTCCTTCCTTCCTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTTTCTTCCTTCCTTCCTTCCTTCCTTCC"	"65427c76-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3019"	"AKR1E2"	83592	"mskcc.org"	"GRCh37"	"10"	4885134	4885134	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11351812"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.837+440delT"	""	""	"ENST00000298375"	""	8	"."	3	1	"."	0	"AKR1E2,intron_variant,,ENST00000298375,NM_001040177.2;AKR1E2,intron_variant,,ENST00000334019,NM_001271021.1;AKR1E2,intron_variant,,ENST00000345253,NM_001271025.1;AKR1E2,intron_variant,,ENST00000532248,;AKR1E2,intron_variant,,ENST00000487985,;AKR1E2,intron_variant,,ENST00000525281,;AKR1E2,intron_variant,,ENST00000441590,;AKR1E2,downstream_gene_variant,,ENST00000462718,;AKR1E2,intron_variant,,ENST00000463345,;AKR1E2,intron_variant,,ENST00000474119,;AKR1E2,downstream_gene_variant,,ENST00000525572,;"	"-"	"ENSG00000165568"	"ENST00000298375"	"Transcript"	"intron_variant"	"-/1566"	"-/963"	"-/320"	""	""	"rs11351812"	"1"	NA	1	"AKR1E2"	"HGNC"	23437	"protein_coding"	"YES"	"CCDS31134.1"	"ENSP00000298375"	"Q96JD6"	""	"UPI00001AEC7A"	"NM_001040177.2"	NA	NA	""	"8/9"	""	"-:0.1643"	"-:0.1422"	"-:0.1671"	NA	"-:0.1161"	"-:0.2247"	"-:0.18"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTT"	"6554ac2a-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3020"	"AKR1C4"	1109	"mskcc.org"	"GRCh37"	"10"	5248654	5248756	"+"	"Intron"	"DEL"	"ATCTCTAAGGTATGAAAGACCACCAGAGAGTGGATTGGTAAAGATGATTTGGAGTAGAATGTATATAATTATAGAGGCCATAAAAACATGGGATGAGCAATAA"	"ATCTCTAAGGTATGAAAGACCACCAGAGAGTGGATTGGTAAAGATGATTTGGAGTAGAATGTATATAATTATAGAGGCCATAAAAACATGGGATGAGCAATAA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"ATCTCTAAGGTATGAAAGACCACCAGAGAGTGGATTGGTAAAGATGATTTGGAGTAGAATGTATATAATTATAGAGGCCATAAAAACATGGGATGAGCAATAA"	"ATCTCTAAGGTATGAAAGACCACCAGAGAGTGGATTGGTAAAGATGATTTGGAGTAGAATGTATATAATTATAGAGGCCATAAAAACATGGGATGAGCAATAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.570+297_570+399delTCTAAGGTATGAAAGACCACCAGAGAGTGGATTGGTAAAGATGATTTGGAGTAGAATGTATATAATTATAGAGGCCATAAAAACATGGGATGAGCAATAAATC"	""	""	"ENST00000380448"	""	30	"."	9	5	"."	0	"AKR1C4,intron_variant,,ENST00000380448,;AKR1C4,intron_variant,,ENST00000263126,NM_001818.3;AKR1CL1,upstream_gene_variant,,ENST00000445191,;RP11-445P17.6,upstream_gene_variant,,ENST00000441452,;"	"-"	"ENSG00000198610"	"ENST00000380448"	"Transcript"	"intron_variant"	"-/1414"	"-/972"	"-/323"	""	""	""	"1"	NA	1	"AKR1C4"	"HGNC"	387	"protein_coding"	"YES"	"CCDS7064.1"	"ENSP00000369814"	"P17516"	"Q96SD9"	"UPI000013D3B2"	""	NA	NA	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTATCTCTAAGGTATGAAAGACCACCAGAGAGTGGATTGGTAAAGATGATTTGGAGTAGAATGTATATAATTATAGAGGCCATAAAAACATGGGATGAGCAATAAA"	"656b6c8a-280f-11e6-bc21-fcd3414a729f"	"529"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3021"	"AKR1C7P"	0	"mskcc.org"	"GRCh37"	"10"	5319144	5319144	"+"	"RNA"	"DEL"	"C"	"C"	"-"	"rs35054877"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.777delG"	""	""	"ENST00000305623"	"7/8"	22	"."	12	2	"."	0	"AKR1C7P,non_coding_transcript_exon_variant,,ENST00000432689,;AKR1C7P,non_coding_transcript_exon_variant,,ENST00000305623,;"	"-"	"ENSG00000215267"	"ENST00000305623"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"777/895"	""	""	""	""	"rs35054877"	"1"	NA	-1	"AKR1C7P"	"HGNC"	44681	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"7/8"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"658078a0-280f-11e6-bc21-fcd3414a729f"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"3022"	"ASB13"	79754	"mskcc.org"	"GRCh37"	"10"	5684534	5684535	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs61006671"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.518-611dupT"	""	""	"ENST00000357700"	""	129	"."	23	15	"."	1	"ASB13,intron_variant,,ENST00000357700,NM_024701.3;ASB13,intron_variant,,ENST00000479033,;ASB13,upstream_gene_variant,,ENST00000493897,;ASB13,intron_variant,,ENST00000459912,;"	"A"	"ENSG00000196372"	"ENST00000357700"	"Transcript"	"intron_variant"	"-/2699"	"-/837"	"-/278"	""	""	"rs61006671"	"1"	NA	-1	"ASB13"	"HGNC"	19765	"protein_coding"	"YES"	"CCDS7070.1"	"ENSP00000350331"	"Q8WXK3"	""	"UPI00001260DE"	"NM_024701.3"	NA	NA	""	"4/5"	""	"-:0.3325"	"A:0.5961"	"A:0.7334"	NA	"A:0.7837"	"A:0.5557"	"A:0.7127"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	"0.5675"	"0.5074"	"0.6204"	"0.7206"	"0.6321"	"0.4854"	"0.6"	"0.6119"	NA	"common_variant"	"GTA"	"8506d142-280f-11e6-bc21-fcd3414a729f"	"1314"	0.5832	"6659/11418"	"8552/15070"	"137/270"	"67/108"	"98/136"	"1005/1590"	"1326/2732"	"90/150"	"3936/6432"	"PASS"	"FALSE"	0.178294573643411	"WXS"	FALSE
"3023"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	6305689	6305690	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs35765433"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35765433"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4629"	"C:0.4849"	"C:0.5735"	NA	"C:0.3909"	"C:0.6561"	"C:0.6104"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"855ce186-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3024"	"LINC00707"	100507127	"mskcc.org"	"GRCh37"	"10"	6854168	6854169	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs56396119"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.474-21427dupT"	""	""	"ENST00000436383"	""	7	"."	4	1	"."	0	"LINC00707,intron_variant,,ENST00000436383,;"	"T"	"ENSG00000238266"	"ENST00000436383"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3070"	""	""	""	""	"rs56396119"	"1"	NA	1	"LINC00707"	"HGNC"	44691	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	"-:0.3055"	"T:0.5666"	"T:0.8012"	NA	"T:0.7133"	"T:0.84"	"T:0.6227"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"856a90ec-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3025"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	7594988	7594989	"+"	"IGR"	"INS"	"-"	"-"	"GAGA"	"rs3067992"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"GAGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs3067992"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0563"	"GAGA:0.8434"	"GAGA:0.9885"	NA	"GAGA:0.9653"	"GAGA:0.992"	"GAGA:0.9755"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"857f00ae-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3026"	"ITIH5"	80760	"mskcc.org"	"GRCh37"	"10"	7608720	7608721	"+"	"Intron"	"INS"	"-"	"-"	"AAGAAGA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2150-357_2150-351dupTCTTCTT"	""	""	"ENST00000256861"	""	24	"."	5	8	"."	0	"ITIH5,intron_variant,,ENST00000256861,NM_030569.6;ITIH5,intron_variant,,ENST00000446830,;ITIH5,intron_variant,,ENST00000298441,NM_032817.5;ITIH5,intron_variant,,ENST00000397146,;ITIH5,downstream_gene_variant,,ENST00000397145,NM_001001851.2;ITIH5,intron_variant,,ENST00000473591,;ITIH5,downstream_gene_variant,,ENST00000434980,;ITIH5,downstream_gene_variant,,ENST00000492668,;"	"AAGAAGA"	"ENSG00000123243"	"ENST00000256861"	"Transcript"	"intron_variant"	"-/6722"	"-/2871"	"-/956"	""	""	""	"1"	NA	-1	"ITIH5"	"HGNC"	21449	"protein_coding"	"YES"	""	"ENSP00000256861"	"Q86UX2"	""	"UPI00001F8AF3"	"NM_030569.6"	NA	NA	""	"12/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"85806692-280f-11e6-bc21-fcd3414a729f"	"253"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WXS"	FALSE
"3027"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	8977061	8977073	"+"	"IGR"	"DEL"	"TTTCTTTCTTTTC"	"TTTCTTTCTTTTC"	"-"	"rs141635958"	NA	"JHCCPT5"	"JHCCPN5"	"TTTCTTTCTTTTC"	"TTTCTTTCTTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	22	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141635958"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTCTTTCTTTTCT"	"668b4b76-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"3028"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	9922512	9922513	"+"	"IGR"	"INS"	"-"	"-"	"TATC"	"rs142204261"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"TATC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142204261"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TATC:0.1593"	"TATC:0.0303"	"TATC:0.268"	NA	"TATC:0.0952"	"TATC:0.2873"	"TATC:0.1912"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"85be7d38-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3029"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	11956682	11956683	"+"	"IGR"	"INS"	"-"	"-"	"GAC"	"rs149983796"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	5	2	"."	0	""	"GAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs149983796"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0958"	"GAC:0.7935"	"GAC:0.9251"	NA	"GAC:0.9702"	"GAC:0.9473"	"GAC:0.9264"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"85f1f762-280f-11e6-bc21-fcd3414a729f"	"250"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3030"	"UPF2"	26019	"mskcc.org"	"GRCh37"	"10"	12076561	12076562	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs33998669"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.365+496dupC"	""	""	"ENST00000356352"	""	14	"."	6	2	"."	0	"UPF2,intron_variant,,ENST00000356352,;UPF2,intron_variant,,ENST00000397053,NM_080599.2;UPF2,intron_variant,,ENST00000357604,NM_015542.3;UPF2,downstream_gene_variant,,ENST00000460569,;"	"G"	"ENSG00000151461"	"ENST00000356352"	"Transcript"	"intron_variant"	"-/5569"	"-/3819"	"-/1272"	""	""	"rs33998669"	"1"	NA	-1	"UPF2"	"HGNC"	17854	"protein_coding"	"YES"	"CCDS7086.1"	"ENSP00000348708"	"Q9HAU5"	"B4DHP3"	"UPI0000070D5E"	""	NA	NA	""	"1/20"	""	"-:0.4032"	"G:0.3374"	"G:0.6513"	NA	"G:0.8591"	"G:0.666"	"G:0.5675"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"85fc5eb4-280f-11e6-bc21-fcd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3031"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	12098861	12098861	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs34498836"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34498836"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4896"	"-:0.2133"	"-:0.598"	NA	"-:0.4226"	"-:0.6799"	"-:0.6595"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCA"	"66ed5528-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3032"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	12385846	12385847	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs61622602"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	1	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs61622602"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"860ec2d4-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3033"	"CAMK1D"	57118	"mskcc.org"	"GRCh37"	"10"	12869628	12869643	"+"	"Intron"	"DEL"	"CCTCTCTCCCCTCTCC"	"CCTCTCTCCCCTCTCC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CCTCTCTCCCCTCTCC"	"CCTCTCTCCCCTCTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1040-1134_1040-1119delTCCCCTCTCCCCTCTC"	""	""	"ENST00000378847"	""	13	"."	4	6	"."	0	"CAMK1D,intron_variant,,ENST00000378847,NM_153498.2;CAMK1D,downstream_gene_variant,,ENST00000378845,NM_020397.2;"	"-"	"ENSG00000183049"	"ENST00000378847"	"Transcript"	"intron_variant"	"-/8154"	"-/1158"	"-/385"	""	""	""	"1"	NA	1	"CAMK1D"	"HGNC"	19341	"protein_coding"	"YES"	"CCDS7091.1"	"ENSP00000368124"	"Q8IU85"	""	"UPI000003CA33"	"NM_153498.2"	NA	NA	""	"10/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCCTCTCTCCCCTCTCCC"	"67263e60-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3034"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	13616436	13616439	"+"	"IGR"	"DEL"	"CCTT"	"CCTT"	"-"	"rs71388103"	NA	"JHCCPT5"	"JHCCPN5"	"CCTT"	"CCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71388103"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CCTT:0.2596"	"-:0.6997"	"-:0.7824"	NA	"-:0.7887"	"-:0.7316"	"-:0.7249"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCCTTC"	"6770c7c8-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3035"	"FRMD4A"	55691	"mskcc.org"	"GRCh37"	"10"	14451986	14451987	"+"	"Intron"	"INS"	"-"	"-"	"AGAAAGAAAGAAAGAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-304-21100_-304-21085dupTTCTTTCTTTCTTTCT"	""	""	"ENST00000475141"	""	14	"."	5	2	"."	0	"FRMD4A,intron_variant,,ENST00000475141,;FRMD4A,intron_variant,,ENST00000493380,;"	"AGAAAGAAAGAAAGAA"	"ENSG00000151474"	"ENST00000475141"	"Transcript"	"intron_variant"	"-/1233"	"-/219"	"-/72"	""	""	""	"1"	NA	-1	"FRMD4A"	"HGNC"	25491	"protein_coding"	""	""	"ENSP00000473870"	""	"S4R324"	"UPI00033350DD"	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"86821cfc-280f-11e6-bc21-fcd3414a729f"	"267"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"3036"	"OR7E26P"	0	"mskcc.org"	"GRCh37"	"10"	15041595	15041596	"+"	"RNA"	"INS"	"-"	"-"	"A"	"rs35759753"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.459dupT"	""	""	"ENST00000502808"	"1/1"	27	"."	7	9	"."	0	"OR7E26P,non_coding_transcript_exon_variant,,ENST00000502808,;"	"A"	"ENSG00000228547"	"ENST00000502808"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"459-460/1006"	""	""	""	""	"rs35759753"	"1"	NA	-1	"OR7E26P"	"HGNC"	8398	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"-:0.2861"	"A:0.7602"	"A:0.6916"	NA	"A:0.7619"	"A:0.6233"	"A:0.7106"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"869213dc-280f-11e6-bc21-fcd3414a729f"	"407"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259259259259259	"WXS"	FALSE
"3037"	"FAM188A"	80013	"mskcc.org"	"GRCh37"	"10"	15863872	15863873	"+"	"Intron"	"INS"	"-"	"-"	"TATTTATTAGGAGATAATGTCAAC"	"rs367872580"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.731-148_731-147insGTTGACATTATCTCCTAATAAATA"	""	""	"ENST00000277632"	""	8	"."	4	8	"."	0	"FAM188A,intron_variant,,ENST00000277632,NM_024948.2;FAM188A,intron_variant,,ENST00000418767,;FAM188A,intron_variant,,ENST00000436829,;FAM188A,upstream_gene_variant,,ENST00000378036,;FAM188A,intron_variant,,ENST00000477891,;"	"TATTTATTAGGAGATAATGTCAAC"	"ENSG00000148481"	"ENST00000277632"	"Transcript"	"intron_variant"	"-/2381"	"-/1338"	"-/445"	""	""	"rs367872580"	"1"	NA	-1	"FAM188A"	"HGNC"	23578	"protein_coding"	"YES"	"CCDS7110.1"	"ENSP00000277632"	"Q9H8M7"	""	"UPI000006E7F1"	"NM_024948.2"	NA	NA	""	"8/14"	""	"TATTTATTAGGAGATAATGTCAAC:0.0497"	"TATTTATTAGGAGATAATGTCAAC:0.1346"	"TATTTATTAGGAGATAATGTCAAC:0.0231"	NA	"TATTTATTAGGAGATAATGTCAAC:0.0149"	"TATTTATTAGGAGATAATGTCAAC:0.0239"	"TATTTATTAGGAGATAATGTCAAC:0.0164"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"86a0ed30-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3038"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	16471656	16471656	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs34809326"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34809326"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4419"	"-:0.4592"	"-:0.3746"	NA	"-:0.5417"	"-:0.329"	"-:0.4796"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAG"	"681393c2-280f-11e6-bc21-fcd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"3039"	"CUBN"	8029	"mskcc.org"	"GRCh37"	"10"	16930778	16930779	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs200857510"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8756-214_8756-213delCT"	""	""	"ENST00000377833"	""	17	"."	4	2	"."	0	"CUBN,intron_variant,,ENST00000377833,NM_001081.3;"	"-"	"ENSG00000107611"	"ENST00000377833"	"Transcript"	"intron_variant"	"-/11949"	"-/10872"	"-/3623"	""	""	"rs200857510"	"1"	NA	-1	"CUBN"	"HGNC"	2548	"protein_coding"	"YES"	"CCDS7113.1"	"ENSP00000367064"	"O60494"	"B3KQA6"	"UPI00001AE8F4"	"NM_001081.3"	NA	NA	""	"55/66"	""	"-:0.0142"	"-:0.0023"	"-:0.0144"	NA	"-:0"	"-:0.0398"	"-:0.0184"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCAGA"	"682548ba-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"3040"	"TRDMT1"	1787	"mskcc.org"	"GRCh37"	"10"	17197009	17197010	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs35244566"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.888-277_888-276delCT"	""	""	"ENST00000377799"	""	11	"."	3	3	"."	0	"TRDMT1,intron_variant,,ENST00000377799,NM_004412.5;TRDMT1,intron_variant,,ENST00000457442,;TRDMT1,intron_variant,,ENST00000488990,;TRDMT1,intron_variant,,ENST00000412821,;TRDMT1,intron_variant,,ENST00000351358,;TRDMT1,intron_variant,,ENST00000358282,;TRDMT1,intron_variant,,ENST00000377766,;TRDMT1,downstream_gene_variant,,ENST00000313936,;TRDMT1,downstream_gene_variant,,ENST00000525762,;TRDMT1,downstream_gene_variant,,ENST00000436968,;TRDMT1,intron_variant,,ENST00000452380,;TRDMT1,intron_variant,,ENST00000354631,;TRDMT1,intron_variant,,ENST00000495022,;TRDMT1,downstream_gene_variant,,ENST00000424636,;"	"-"	"ENSG00000107614"	"ENST00000377799"	"Transcript"	"intron_variant"	"-/3527"	"-/1176"	"-/391"	""	""	"rs35244566"	"1"	NA	-1	"TRDMT1"	"HGNC"	2977	"protein_coding"	"YES"	"CCDS7114.1"	"ENSP00000367030"	"O14717"	"Q6ICS7"	"UPI0000129698"	"NM_004412.5"	NA	NA	""	"8/10"	""	"-:0.3784"	"-:0.3797"	"-:0.4251"	NA	"-:0.2599"	"-:0.494"	"-:0.3466"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAGA"	"6846792c-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"3041"	"ST8SIA6"	338596	"mskcc.org"	"GRCh37"	"10"	17390844	17390845	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs140732642"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.377+10668dupG"	""	""	"ENST00000377602"	""	7	"."	5	2	"."	0	"ST8SIA6,intron_variant,,ENST00000377602,NM_001004470.1;"	"C"	"ENSG00000148488"	"ENST00000377602"	"Transcript"	"intron_variant"	"-/2276"	"-/1197"	"-/398"	""	""	"rs140732642"	"1"	NA	-1	"ST8SIA6"	"HGNC"	23317	"protein_coding"	"YES"	"CCDS31158.1"	"ENSP00000366827"	"P61647"	""	"UPI0000359594"	"NM_001004470.1"	NA	NA	""	"4/7"	""	"C:0.4856"	"C:0.5401"	"C:0.3501"	NA	"C:0.6091"	"C:0.3549"	"C:0.5153"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"86e93464-280f-11e6-bc21-fcd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3042"	"NSUN6"	221078	"mskcc.org"	"GRCh37"	"10"	18841109	18841109	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs45485300"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.923-209delT"	""	""	"ENST00000377304"	""	17	"."	8	3	"."	0	"NSUN6,intron_variant,,ENST00000377304,NM_182543.2;NSUN6,upstream_gene_variant,,ENST00000493816,;"	"-"	"ENSG00000241058"	"ENST00000377304"	"Transcript"	"intron_variant"	"-/2201"	"-/1410"	"-/469"	""	""	"rs45485300"	"1"	NA	-1	"NSUN6"	"HGNC"	23529	"protein_coding"	"YES"	"CCDS7130.1"	"ENSP00000366519"	"Q8TEA1"	""	"UPI0000073CED"	"NM_182543.2"	NA	NA	""	"8/10"	""	"A:0.1705"	"-:0.8154"	"-:0.7666"	NA	"-:0.9792"	"-:0.7495"	"-:0.8211"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"68cf0850-280f-11e6-bc21-fcd3414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.470588235294118	"WXS"	FALSE
"3043"	"MALRD1"	0	"mskcc.org"	"GRCh37"	"10"	19637212	19637213	"+"	"Intron"	"DEL"	"TT"	"TT"	"-"	"rs34949607"	NA	"JHCCPT5"	"JHCCPN5"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2076+265_2076+266delTT"	""	""	"ENST00000377266"	""	13	"."	7	3	"."	0	"MALRD1,intron_variant,,ENST00000454679,;MALRD1,intron_variant,,ENST00000377266,;MALRD1,upstream_gene_variant,,ENST00000441070,;"	"-"	"ENSG00000204740"	"ENST00000377266"	"Transcript"	"intron_variant"	"-/4461"	"-/4461"	"-/1486"	""	""	"rs34949607"	"1"	NA	1	"MALRD1"	"HGNC"	24331	"protein_coding"	"YES"	""	"ENSP00000366477"	""	"U5GXS0"	"UPI000191551D"	""	NA	NA	""	"11/24"	""	"-:0.1803"	"-:0.2398"	"-:0.1052"	NA	"-:0.1577"	"-:0.165"	"-:0.1922"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATTC"	"68fbb6b6-280f-11e6-bc21-fcd3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.538461538461538	"WXS"	FALSE
"3044"	"MALRD1"	0	"mskcc.org"	"GRCh37"	"10"	19913989	19913990	"+"	"Intron"	"INS"	"-"	"-"	"AGAG"	"rs78057148"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4207+17174_4207+17177dupGAGA"	""	""	"ENST00000377266"	""	11	"."	3	2	"."	0	"MALRD1,intron_variant,,ENST00000454679,;MALRD1,intron_variant,,ENST00000377266,;MALRD1,intron_variant,,ENST00000377265,;MALRD1,intron_variant,,ENST00000455457,;"	"AGAG"	"ENSG00000204740"	"ENST00000377266"	"Transcript"	"intron_variant"	"-/4461"	"-/4461"	"-/1486"	""	""	"rs78057148"	"1"	NA	1	"MALRD1"	"HGNC"	24331	"protein_coding"	"YES"	""	"ENSP00000366477"	""	"U5GXS0"	"UPI000191551D"	""	NA	NA	""	"22/24"	""	"-:0.1440"	"AGAG:0.7284"	"AGAG:0.9121"	NA	"AGAG:0.9395"	"AGAG:0.9135"	"AGAG:0.8436"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"19"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"873a7838-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"3045"	"MALRD1"	0	"mskcc.org"	"GRCh37"	"10"	20006930	20006931	"+"	"Intron"	"INS"	"-"	"-"	"AAAA"	"rs775375144"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4305-12702_4305-12701insAAAA"	""	""	"ENST00000377266"	""	17	"."	7	2	"."	0	"MALRD1,intron_variant,,ENST00000454679,;MALRD1,intron_variant,,ENST00000377266,;MALRD1,intron_variant,,ENST00000377265,;MALRD1,intron_variant,,ENST00000455457,;RP11-354E11.2,intron_variant,,ENST00000451713,;RP11-354E11.2,downstream_gene_variant,,ENST00000431157,;RP11-354E11.2,downstream_gene_variant,,ENST00000423551,;MALRD1,intron_variant,,ENST00000480707,;"	"AAAA"	"ENSG00000204740"	"ENST00000377266"	"Transcript"	"intron_variant"	"-/4461"	"-/4461"	"-/1486"	""	""	"rs775375144"	"1"	NA	1	"MALRD1"	"HGNC"	24331	"protein_coding"	"YES"	""	"ENSP00000366477"	""	"U5GXS0"	"UPI000191551D"	""	NA	NA	""	"23/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"873b8d2c-280f-11e6-bc21-fcd3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411764705882353	"WXS"	FALSE
"3046"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	23126289	23126290	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs542276522"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs542276522"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.0012"	"A:0"	"A:0.0014"	NA	"A:0.001"	"A:0.004"	"A:0"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"87888c26-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3047"	"ARMC4"	55130	"mskcc.org"	"GRCh37"	"10"	28229190	28229191	"+"	"Intron"	"INS"	"-"	"-"	"TATG"	"rs145519493"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1987-255_1987-254insCATA"	""	""	"ENST00000305242"	""	22	"."	4	7	"."	0	"ARMC4,intron_variant,,ENST00000305242,NM_018076.2;ARMC4,intron_variant,,ENST00000537576,;ARMC4,intron_variant,,ENST00000545014,;ARMC4,downstream_gene_variant,,ENST00000480504,;"	"TATG"	"ENSG00000169126"	"ENST00000305242"	"Transcript"	"intron_variant"	"-/3572"	"-/3135"	"-/1044"	""	""	"rs145519493"	"1"	NA	-1	"ARMC4"	"HGNC"	25583	"protein_coding"	"YES"	"CCDS7157.1"	"ENSP00000306410"	"Q5T2S8"	"R4GN11,A8K906"	"UPI00001A95E1"	"NM_018076.2"	NA	NA	""	"13/19"	""	"TATG:0.4748"	"TATG:0.289"	"TATG:0.549"	NA	"TATG:0.4901"	"TATG:0.5378"	"TATG:0.593"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"87f94c68-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"3048"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	28926339	28926340	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs9335823"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	6	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs9335823"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0899"	"A:0.9334"	"A:0.915"	NA	"A:0.9494"	"A:0.8231"	"A:0.9243"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"881bf768-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3049"	"C10orf126"	283080	"mskcc.org"	"GRCh37"	"10"	29162311	29162314	"+"	"Intron"	"DEL"	"ATAC"	"ATAC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"ATAC"	"ATAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.210+92_210+95delTACA"	""	""	"ENST00000375520"	""	32	"."	5	5	"."	0	"C10orf126,intron_variant,,ENST00000375520,NM_001278522.1;RNA5SP308,downstream_gene_variant,,ENST00000362532,;"	"-"	"ENSG00000204365"	"ENST00000375520"	"Transcript"	"intron_variant"	"-/2149"	"-/519"	"-/172"	""	""	""	"1"	NA	1	"C10orf126"	"HGNC"	28693	"protein_coding"	"YES"	"CCDS60510.1"	"ENSP00000364670"	"Q8N4M7"	""	"UPI00001F90B6"	"NM_001278522.1"	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATACA"	"6ad818da-280f-11e6-bc21-fcd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WXS"	FALSE
"3050"	"SVIL"	6840	"mskcc.org"	"GRCh37"	"10"	29785092	29785092	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11301195"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3665-982delA"	""	""	"ENST00000375398"	""	20	"."	8	2	"."	0	"SVIL,intron_variant,,ENST00000375398,;SVIL,intron_variant,,ENST00000355867,NM_021738.2;SVIL,intron_variant,,ENST00000375400,NM_003174.3;SVIL,intron_variant,,ENST00000535393,;SVIL,intron_variant,,ENST00000538146,;SVIL,intron_variant,,ENST00000474106,;SVIL,intron_variant,,ENST00000491872,;"	"-"	"ENSG00000197321"	"ENST00000375398"	"Transcript"	"intron_variant"	"-/7994"	"-/6645"	"-/2214"	""	""	"rs11301195"	"1"	NA	-1	"SVIL"	"HGNC"	11480	"protein_coding"	"YES"	"CCDS7164.1"	"ENSP00000364547"	"O95425"	"Q569J5"	"UPI0000366678"	""	NA	NA	""	"20/39"	""	"-:0.2784"	"-:0.4054"	"-:0.4553"	NA	"-:0.0298"	"-:0.3161"	"-:0.1984"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATT"	"6b217c6e-280f-11e6-bc21-fcd3414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3051"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	30059574	30059585	"+"	"IGR"	"DEL"	"AAGAAGAAGAAG"	"AAGAAGAAGAAG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAGAAGAAGAAG"	"AAGAAGAAGAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	7	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAGAAGAAGAAGA"	"6b24efc0-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3052"	"ENSR00001422294"	0	"mskcc.org"	"GRCh37"	"10"	31435693	31435694	"+"	"IGR"	"DEL"	"CG"	"CG"	"-"	"rs151268729"	NA	"JHCCPT5"	"JHCCPN5"	"CG"	"CG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001422294"	""	10	"."	4	5	"."	0	""	"-"	""	"ENSR00001422294"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs151268729"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"CG:0.4597"	"-:0.3805"	"-:0.6556"	NA	"-:0.5367"	"-:0.6243"	"-:0.592"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACGC"	"6b705802-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3053"	"CCDC7"	79741	"mskcc.org"	"GRCh37"	"10"	32789969	32789974	"+"	"Intron"	"DEL"	"GGGAGA"	"GGGAGA"	"-"	"rs139553454"	NA	"JHCCPT5"	"JHCCPN5"	"GGGAGA"	"GGGAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.872+9064_872+9069delGAGAGG"	""	""	"ENST00000362006"	""	8	"."	4	1	"."	0	"CCDC7,intron_variant,,ENST00000545067,;CCDC7,intron_variant,,ENST00000362006,NM_145023.4;CCDC7,intron_variant,,ENST00000277657,NM_001026383.1;CCDC7,intron_variant,,ENST00000535327,;CCDC7,intron_variant,,ENST00000537047,;CCDC7,intron_variant,,ENST00000539197,;CCDC7,downstream_gene_variant,,ENST00000489718,;CCDC7,intron_variant,,ENST00000476558,;"	"-"	"ENSG00000216937"	"ENST00000362006"	"Transcript"	"intron_variant"	"-/2133"	"-/1461"	"-/486"	""	""	"rs139553454"	"1"	NA	1	"CCDC7"	"HGNC"	26533	"protein_coding"	"YES"	"CCDS7173.1"	"ENSP00000355078"	"Q96M83"	""	"UPI00000745EB"	"NM_145023.4"	NA	NA	""	"10/17"	""	"-:0.1603"	"-:0.2821"	"-:0.1095"	NA	"-:0.1597"	"-:0.1034"	"-:0.091"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGGGAGAG"	"6bafea1c-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3054"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	35110718	35110721	"+"	"IGR"	"DEL"	"AGAA"	"AGAA"	"-"	"rs144392021"	NA	"JHCCPT5"	"JHCCPN5"	"AGAA"	"AGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144392021"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAGAAA"	"6be74502-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"3055"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	37008430	37008431	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs141220490"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	4	4	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141220490"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.2450"	"A:0.2458"	"A:0.2478"	NA	"A:0.0556"	"A:0.4304"	"A:0.2464"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"8915d7b0-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3056"	"ANKRD30A"	91074	"mskcc.org"	"GRCh37"	"10"	37418691	37418693	"+"	"Intron"	"DEL"	"AGG"	"AGG"	"-"	"rs72246787"	NA	"JHCCPT5"	"JHCCPN5"	"AGG"	"AGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.54-128_54-126delGAG"	""	""	"ENST00000361713"	""	8	"."	5	2	"."	0	"ANKRD30A,intron_variant,,ENST00000374660,;ANKRD30A,intron_variant,,ENST00000602533,;ANKRD30A,intron_variant,,ENST00000361713,NM_052997.2;"	"-"	"ENSG00000148513"	"ENST00000361713"	"Transcript"	"intron_variant"	"-/4405"	"-/4026"	"-/1341"	""	""	"rs72246787"	"1"	NA	1	"ANKRD30A"	"HGNC"	17234	"protein_coding"	"YES"	"CCDS7193.1"	"ENSP00000354432"	"Q9BXX3"	"R4GNA2"	"UPI0000458879"	"NM_052997.2"	NA	NA	""	"1/35"	""	"AGG:0.4836"	"-:0.3245"	"-:0.4971"	NA	"-:0.6756"	"-:0.4115"	"-:0.7331"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAGGA"	"6c381432-280f-11e6-bc21-fcd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"3057"	"ANKRD30A"	91074	"mskcc.org"	"GRCh37"	"10"	37467712	37467712	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs5784544"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2253+2566delG"	""	""	"ENST00000361713"	""	14	"."	4	5	"."	0	"ANKRD30A,intron_variant,,ENST00000374660,;ANKRD30A,intron_variant,,ENST00000602533,;ANKRD30A,intron_variant,,ENST00000361713,NM_052997.2;"	"-"	"ENSG00000148513"	"ENST00000361713"	"Transcript"	"intron_variant"	"-/4405"	"-/4026"	"-/1341"	""	""	"rs5784544"	"1"	NA	1	"ANKRD30A"	"HGNC"	17234	"protein_coding"	"YES"	"CCDS7193.1"	"ENSP00000354432"	"Q9BXX3"	"R4GNA2"	"UPI0000458879"	"NM_052997.2"	NA	NA	""	"24/35"	""	"-:0.4445"	"-:0.6188"	"-:0.4841"	NA	"-:0.2946"	"-:0.5467"	"-:0.2301"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGC"	"6c393d8a-280f-11e6-bc21-fcd3414a729f"	"220"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3058"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	38817915	38817916	"+"	"IGR"	"DEL"	"AG"	"AG"	"-"	"rs138318347"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"."	5	8	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138318347"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGA"	"6c67aad0-280f-11e6-bc21-fcd3414a729f"	"272"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106382978723404	"WXS"	FALSE
"3059"	"SLC9B1P3"	0	"mskcc.org"	"GRCh37"	"10"	38948494	38948497	"+"	"Intron"	"DEL"	"GCCT"	"GCCT"	"CC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GCCT"	"GCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.618-4033_618-4030delAGGCinsGG"	""	""	"ENST00000452667"	""	6	"."	3	3	"."	0	"SLC9B1P3,intron_variant,,ENST00000452667,;"	"CC"	"ENSG00000233867"	"ENST00000452667"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1334"	""	""	""	""	""	"1"	NA	-1	"SLC9B1P3"	"HGNC"	43582	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGCCTT"	"839085c4-280f-11e6-bc21-fcd3414a729f"	"116"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3060"	"RP11-313J2.1"	441666	"mskcc.org"	"GRCh37"	"10"	42861256	42861256	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11284178"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.159+2008delA"	""	""	"ENST00000609841"	""	9	"."	5	1	"."	0	"RP11-313J2.1,intron_variant,,ENST00000609841,;RP11-313J2.1,intron_variant,,ENST00000609034,;RP11-313J2.1,intron_variant,,ENST00000609502,;"	"-"	"ENSG00000215146"	"ENST00000609841"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/6590"	""	""	""	""	"rs11284178"	"1"	NA	-1	"RP11-313J2.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTT"	"6c7e8520-280f-11e6-bc21-fcd3414a729f"	"253"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3061"	"AL022344.5"	0	"mskcc.org"	"GRCh37"	"10"	43193287	43193288	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35232362"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.177+1637dupT"	""	""	"ENST00000439913"	""	10	"."	4	5	"."	0	"AL022344.5,intron_variant,,ENST00000439913,;CUBNP1,intron_variant,,ENST00000412710,;"	"T"	"ENSG00000234864"	"ENST00000439913"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3965"	""	""	""	""	"rs35232362"	"1"	NA	1	"AL022344.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"-:0.2985"	"T:0.5015"	"T:0.6354"	NA	"T:0.9028"	"T:0.7594"	"T:0.7515"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"894f477a-280f-11e6-bc21-fcd3414a729f"	"219"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3062"	"MARCH8"	220972	"mskcc.org"	"GRCh37"	"10"	45984725	45984725	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.153+90delG"	""	""	"ENST00000395771"	""	198	"."	4	44	"."	0	"MARCH8,intron_variant,,ENST00000453424,NM_001282866.1;MARCH8,intron_variant,,ENST00000395771,NM_001002265.1;MARCH8,intron_variant,,ENST00000319836,NM_145021.4;MARCH8,intron_variant,,ENST00000395769,NM_001002266.1;MARCH8,intron_variant,,ENST00000453980,;MARCH8,intron_variant,,ENST00000602712,;"	"-"	"ENSG00000165406"	"ENST00000395771"	"Transcript"	"intron_variant"	"-/2589"	"-/876"	"-/291"	""	""	""	"1"	NA	-1	"MARCH8"	"HGNC"	23356	"protein_coding"	"YES"	"CCDS7213.1"	"ENSP00000379118"	"Q5T0T0"	""	"UPI000013E4A0"	"NM_001002265.1"	NA	NA	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCA"	"6cf33b90-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0202020202020202	"WXS"	FALSE
"3063"	"GPRIN2"	9721	"mskcc.org"	"GRCh37"	"10"	47001294	47001294	"+"	"3'UTR"	"DEL"	"G"	"G"	"-"	"rs5784701"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1041delG"	""	""	"ENST00000374314"	"1/1"	21	"."	6	7	"."	0	"GPRIN2,3_prime_UTR_variant,,ENST00000374314,;GPRIN2,downstream_gene_variant,,ENST00000374317,NM_014696.3;"	"-"	"ENSG00000204175"	"ENST00000374314"	"Transcript"	"3_prime_UTR_variant"	"3369/7718"	"-/1377"	"-/458"	""	""	"rs5784701"	"1"	NA	1	"GPRIN2"	"HGNC"	23730	"protein_coding"	"YES"	"CCDS31192.1"	"ENSP00000363433"	"O60269"	""	"UPI000013ECB4"	""	NA	NA	"1/1"	""	""	"G:0.4968"	"-:0.5045"	"-:0.5"	NA	"-:0.5"	"-:0.504"	"-:0.5061"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"6d5825e6-280f-11e6-bc21-fcd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3064"	"C10orf71"	118461	"mskcc.org"	"GRCh37"	"10"	50534969	50534970	"+"	"3'UTR"	"INS"	"-"	"-"	"ACACACACACAC"	""	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*98_*109dupACACACACACAC"	""	""	"ENST00000374144"	"3/3"	156	"."	4	84	"."	0	"C10orf71,splice_region_variant,p.Thr699_His702dup,ENST00000323868,NM_001135196.1;C10orf71,3_prime_UTR_variant,,ENST00000374144,;"	"ACACACACACAC"	"ENSG00000177354"	"ENST00000374144"	"Transcript"	"3_prime_UTR_variant"	"4667-4668/5230"	"-/4308"	"-/1435"	""	""	"COSM243268"	"1"	NA	1	"C10orf71"	"HGNC"	26973	"protein_coding"	"YES"	"CCDS44387.1"	"ENSP00000363259"	"Q711Q0"	""	"UPI0000161572"	""	NA	NA	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	""	"1"	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"38"	"1"	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"8a812b54-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0256410256410256	"WXS"	FALSE
"3065"	"RP11-324H6.5"	326332	"mskcc.org"	"GRCh37"	"10"	51784333	51784333	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs66963922"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1892-3106delG"	""	""	"ENST00000456967"	""	7	"."	3	3	"."	0	"RP11-324H6.5,intron_variant,,ENST00000456967,;SLC9A3P3,downstream_gene_variant,,ENST00000457608,;"	"-"	"ENSG00000235618"	"ENST00000456967"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2177"	""	""	""	""	"rs66963922"	"1"	NA	-1	"RP11-324H6.5"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"6/6"	""	"C:0.1416"	"-:0.652"	"-:0.9107"	NA	"-:0.9702"	"-:0.9066"	"-:0.9356"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCA"	"6e8985b8-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3066"	"A1CF"	29974	"mskcc.org"	"GRCh37"	"10"	52610352	52610353	"+"	"Intron"	"INS"	"-"	"-"	"TG"	"rs71457593"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.123+71_123+72dupCA"	""	""	"ENST00000373995"	""	19	"."	5	19	"."	0	"A1CF,intron_variant,,ENST00000374001,;A1CF,intron_variant,,ENST00000395489,NM_001198819.1;A1CF,intron_variant,,ENST00000373995,NM_138933.2;A1CF,intron_variant,,ENST00000282641,NM_138932.2;A1CF,intron_variant,,ENST00000373997,NM_001198820.1,NM_001198818.1,NM_014576.3;A1CF,intron_variant,,ENST00000373993,;A1CF,intron_variant,,ENST00000395495,;A1CF,intron_variant,,ENST00000414883,;A1CF,intron_variant,,ENST00000473480,;"	"TG"	"ENSG00000148584"	"ENST00000373995"	"Transcript"	"intron_variant"	"-/2211"	"-/1785"	"-/594"	""	""	"rs71457593"	"1"	NA	-1	"A1CF"	"HGNC"	24086	"protein_coding"	"YES"	"CCDS7243.1"	"ENSP00000363107"	"Q9NQ94"	""	"UPI000013DB32"	"NM_138933.2"	NA	NA	""	"3/12"	""	"TG:0.2290"	"TG:0.4153"	"TG:0.1499"	NA	"TG:0.0565"	"TG:0.2177"	"TG:0.2229"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8a99a35a-280f-11e6-bc21-fcd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"3067"	"PRKG1"	5592	"mskcc.org"	"GRCh37"	"10"	53388734	53388735	"+"	"Intron"	"INS"	"-"	"-"	"AAC"	"rs369464844"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.592+161140_592+161141insCAA"	""	""	"ENST00000373980"	""	8	"."	4	1	"."	0	"PRKG1,intron_variant,,ENST00000373980,NM_006258.3;PRKG1,intron_variant,,ENST00000373985,NM_001098512.2;PRKG1,intron_variant,,ENST00000401604,;PRKG1,intron_variant,,ENST00000373976,;"	"AAC"	"ENSG00000185532"	"ENST00000373980"	"Transcript"	"intron_variant"	"-/6928"	"-/2061"	"-/686"	""	""	"rs369464844"	"1"	NA	1	"PRKG1"	"HGNC"	9414	"protein_coding"	"YES"	"CCDS7244.1"	"ENSP00000363092"	"Q13976"	""	"UPI000012DDCD"	"NM_006258.3"	NA	NA	""	"3/17"	""	"-:0.1787"	"AAC:0.5787"	"AAC:0.9236"	NA	"AAC:0.8512"	"AAC:0.9185"	"AAC:0.9458"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"8aa859fe-280f-11e6-bc21-fcd3414a729f"	"171"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3068"	"PRKG1"	5592	"mskcc.org"	"GRCh37"	"10"	53717014	53717039	"+"	"Intron"	"DEL"	"ATACATAGCTTTTCCTTTCTTTCCTT"	"ATACATAGCTTTTCCTTTCTTTCCTT"	"TTTTCTTTTCCTTTCTTTCCTTTTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"ATACATAGCTTTTCCTTTCTTTCCTT"	"ATACATAGCTTTTCCTTTCTTTCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.762+49684_762+49709delATACATAGCTTTTCCTTTCTTTCCTTinsTTTTCTTTTCCTTTCTTTCCTTTTC"	""	""	"ENST00000373980"	""	11	"."	4	1	"."	0	"PRKG1,intron_variant,,ENST00000373980,NM_006258.3;PRKG1,intron_variant,,ENST00000373985,NM_001098512.2;PRKG1,intron_variant,,ENST00000401604,;PRKG1,intron_variant,,ENST00000373976,;"	"TTTTCTTTTCCTTTCTTTCCTTTTC"	"ENSG00000185532"	"ENST00000373980"	"Transcript"	"intron_variant"	"-/6928"	"-/2061"	"-/686"	""	""	""	"1"	NA	1	"PRKG1"	"HGNC"	9414	"protein_coding"	"YES"	"CCDS7244.1"	"ENSP00000363092"	"Q13976"	""	"UPI000012DDCD"	"NM_006258.3"	NA	NA	""	"5/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTTTCATACATAGCTTTTCCTTTCTTTCCTTT"	"83995d70-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3069"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	59302987	59302988	"+"	"IGR"	"INS"	"-"	"-"	"AAA"	"rs10649298"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	4	"."	0	""	"AAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10649298"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"8ada63a4-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3070"	"CCDC6"	8030	"mskcc.org"	"GRCh37"	"10"	61642372	61642373	"+"	"Intron"	"INS"	"-"	"-"	"GGGAGAAGGAAAGCCGGGGAGAAGGAAAGCCAGGGAGAAGGAAAGCCG"	"rs546117600"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.303+23507_303+23508insCGGCTTTCCTTCTCCCTGGCTTTCCTTCTCCCCGGCTTTCCTTCTCCC"	""	""	"ENST00000263102"	""	11	"."	3	15	"."	0	"CCDC6,intron_variant,,ENST00000263102,NM_005436.4;"	"GGGAGAAGGAAAGCCGGGGAGAAGGAAAGCCAGGGAGAAGGAAAGCCG"	"ENSG00000108091"	"ENST00000263102"	"Transcript"	"intron_variant"	"-/5811"	"-/1425"	"-/474"	""	""	"rs546117600"	"1"	NA	-1	"CCDC6"	"HGNC"	18782	"protein_coding"	"YES"	"CCDS7257.1"	"ENSP00000263102"	"Q16204"	""	"UPI000035B25A"	"NM_005436.4"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"8b0a60e0-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	TRUE
"3071"	"CTNNA3"	29119	"mskcc.org"	"GRCh37"	"10"	68280672	68280675	"+"	"Intron"	"DEL"	"AAAT"	"AAAT"	"-"	"rs145395911"	NA	"JHCCPT5"	"JHCCPN5"	"AAAT"	"AAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1375-144_1375-141delATTT"	""	""	"ENST00000433211"	""	28	"."	16	4	"."	0	"CTNNA3,intron_variant,,ENST00000433211,NM_013266.2;CTNNA3,intron_variant,,ENST00000373744,NM_001127384.1;"	"-"	"ENSG00000183230"	"ENST00000433211"	"Transcript"	"intron_variant"	"-/10675"	"-/2688"	"-/895"	""	""	"rs145395911"	"1"	NA	-1	"CTNNA3"	"HGNC"	2511	"protein_coding"	"YES"	"CCDS7269.1"	"ENSP00000389714"	"Q9UI47"	"Q5SW23,A6NKP0"	"UPI000004A0E6"	"NM_013266.2"	NA	NA	""	"10/17"	""	"-:0.2252"	"-:0.0446"	"-:0.1801"	NA	"-:0.5685"	"-:0.2356"	"-:0.137"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAAAATA"	"7055ebc0-280f-11e6-bc21-fcd3414a729f"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3072"	"KRT19P4"	0	"mskcc.org"	"GRCh37"	"10"	70022627	70022628	"+"	"3'Flank"	"DEL"	"TT"	"TT"	"-"	"rs58507013"	NA	"JHCCPT5"	"JHCCPN5"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000443208"	""	10	"."	4	3	"."	0	"KRT19P4,downstream_gene_variant,,ENST00000443208,;"	"-"	"ENSG00000234102"	"ENST00000443208"	"Transcript"	"downstream_gene_variant"	"-/943"	""	""	""	""	"rs58507013"	"1"	"1371"	1	"KRT19P4"	"HGNC"	45073	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"TT:0.3952"	"-:0.4236"	"-:0.5634"	NA	"-:0.6825"	"-:0.7435"	"-:0.6564"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTC"	"70d0988e-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3073"	"DNA2"	1763	"mskcc.org"	"GRCh37"	"10"	70179226	70179227	"+"	"Intron"	"INS"	"-"	"-"	"CA"	"rs149422990"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3046-258_3046-257dupTG"	""	""	"ENST00000399180"	""	20	"."	8	6	"."	0	"DNA2,intron_variant,,ENST00000399180,;DNA2,intron_variant,,ENST00000358410,NM_001080449.2;DNA2,intron_variant,,ENST00000399179,;DNA2,intron_variant,,ENST00000551118,;DNA2,intron_variant,,ENST00000440722,;DNA2,upstream_gene_variant,,ENST00000550545,;"	"CA"	"ENSG00000138346"	"ENST00000399180"	"Transcript"	"intron_variant"	"-/4416"	"-/3441"	"-/1146"	""	""	"rs149422990"	"1"	NA	-1	"DNA2"	"HGNC"	2939	"protein_coding"	"YES"	""	"ENSP00000382133"	""	"J3KPX5"	"UPI00001D80EF"	""	NA	NA	""	"18/20"	""	"CACA:0.0112"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"8bc53f6e-280f-11e6-bc21-fcd3414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3074"	"DDX21"	9188	"mskcc.org"	"GRCh37"	"10"	70742764	70742766	"+"	"3'UTR"	"DEL"	"CTT"	"CTT"	"-"	"rs71860993"	NA	"JHCCPT5"	"JHCCPN5"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*200_*202delTTC"	""	""	"ENST00000354185"	"15/15"	37	"."	11	7	"."	0	"DDX21,3_prime_UTR_variant,,ENST00000354185,NM_001256910.1,NM_004728.3;"	"-"	"ENSG00000165732"	"ENST00000354185"	"Transcript"	"3_prime_UTR_variant"	"2646-2648/4711"	"-/2352"	"-/783"	""	""	"rs71860993"	"1"	NA	1	"DDX21"	"HGNC"	2744	"protein_coding"	"YES"	"CCDS31211.1"	"ENSP00000346120"	"Q9NR30"	"Q8NI92"	"UPI00001A92E8"	"NM_001256910.1,NM_004728.3"	NA	NA	"15/15"	""	""	"CTT:0.3472"	"-:0.5159"	"-:0.6282"	NA	"-:0.9038"	"-:0.6441"	"-:0.6053"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACTTC"	"711ffe6a-280f-11e6-bc21-fcd3414a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297297297297297	"WXS"	FALSE
"3075"	"TSPAN15"	23555	"mskcc.org"	"GRCh37"	"10"	71221518	71221518	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34642904"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.96+10073delT"	""	""	"ENST00000373290"	""	11	"."	5	2	"."	0	"TSPAN15,intron_variant,,ENST00000373290,NM_012339.3;TSPAN15,intron_variant,,ENST00000478112,;"	"-"	"ENSG00000099282"	"ENST00000373290"	"Transcript"	"intron_variant"	"-/1698"	"-/885"	"-/294"	""	""	"rs34642904"	"1"	NA	1	"TSPAN15"	"HGNC"	23298	"protein_coding"	"YES"	"CCDS7294.1"	"ENSP00000362387"	"O95858"	""	"UPI00001370A4"	"NM_012339.3"	NA	NA	""	"1/7"	""	"-:0.3315"	"-:0.3018"	"-:0.366"	NA	"-:0.1498"	"-:0.4523"	"-:0.41"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTT"	"71725fa2-280f-11e6-bc21-fcd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"3076"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	72337432	72337439	"+"	"IGR"	"DEL"	"TTCTCCCT"	"TTCTCCCT"	"-"	"rs141234171"	NA	"JHCCPT5"	"JHCCPN5"	"TTCTCCCT"	"TTCTCCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141234171"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTCTCCCTT"	"71dbd9dc-280f-11e6-bc21-fcd3414a729f"	"146"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"3077"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	72814846	72814847	"+"	"IGR"	"INS"	"-"	"-"	"AGGAAGGGAGGAAGGAAGGAAGGAAGGA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	1	"."	0	""	"AGGAAGGGAGGAAGGAAGGAAGGAAGGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"8c760b82-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3078"	"ZNF503-AS1"	253264	"mskcc.org"	"GRCh37"	"10"	77054516	77054517	"+"	"5'Flank"	"INS"	"-"	"-"	"AGAA"	"rs10684333"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000416398"	""	20	"."	5	2	"."	0	"ZNF503-AS1,intron_variant,,ENST00000524517,;ZNF503-AS1,intron_variant,,ENST00000531808,;ZNF503-AS1,intron_variant,,ENST00000530606,;RP11-399K21.11,intron_variant,,ENST00000418818,;ZNF503-AS1,upstream_gene_variant,,ENST00000416398,;ZNF503-AS1,upstream_gene_variant,,ENST00000528121,;ZNF503-AS1,upstream_gene_variant,,ENST00000533822,;ZNF503-AS1,upstream_gene_variant,,ENST00000526759,;"	"AGAA"	"ENSG00000226051"	"ENST00000416398"	"Transcript"	"upstream_gene_variant"	"-/1860"	""	""	""	""	"rs10684333"	"1"	"1631"	1	"ZNF503-AS1"	"HGNC"	27370	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"AGAA:0.2504"	"AGAA:0.6082"	"AGAA:0.1686"	NA	"AGAA:0.0407"	"AGAA:0.2217"	"AGAA:0.0706"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"8d3d33f6-280f-11e6-bc21-fcd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3079"	"KCNMA1"	3778	"mskcc.org"	"GRCh37"	"10"	78839127	78839128	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGTGTGT"	"rs139730603"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1593+102_1593+111dupACACACACAC"	""	""	"ENST00000404857"	""	38	"."	3	26	"."	0	"KCNMA1,intron_variant,,ENST00000604624,NM_001271518.1,NM_001014797.2;KCNMA1,intron_variant,,ENST00000286627,NM_002247.3,NM_001271519.1;KCNMA1,intron_variant,,ENST00000286628,NM_001161352.1;KCNMA1,intron_variant,,ENST00000372443,;KCNMA1,intron_variant,,ENST00000372440,;KCNMA1,intron_variant,,ENST00000404771,;KCNMA1,intron_variant,,ENST00000457953,;KCNMA1,intron_variant,,ENST00000372437,;KCNMA1,intron_variant,,ENST00000372421,;KCNMA1,intron_variant,,ENST00000406533,;KCNMA1,intron_variant,,ENST00000354353,;KCNMA1,intron_variant,,ENST00000404857,NM_001161353.1;KCNMA1,intron_variant,,ENST00000372408,;KCNMA1,intron_variant,,ENST00000372403,;KCNMA1,intron_variant,,ENST00000434208,;KCNMA1,intron_variant,,ENST00000450795,;KCNMA1,intron_variant,,ENST00000428546,;KCNMA1,intron_variant,,ENST00000484507,;KCNMA1,intron_variant,,ENST00000484343,;"	"GTGTGTGTGT"	"ENSG00000156113"	"ENST00000404857"	"Transcript"	"intron_variant"	"-/3660"	"-/3660"	"-/1219"	""	""	"rs139730603"	"1"	NA	-1	"KCNMA1"	"HGNC"	6284	"protein_coding"	"YES"	"CCDS53545.1"	"ENSP00000385806"	"Q12791"	""	"UPI00003519E8"	"NM_001161353.1"	NA	NA	""	"13/27"	""	"GTGTGT:0.1036"	"GTGTGTGT:0.0333"	"GTGTGTGT:0.072"	NA	"GTGTGTGT:0.0536"	"GTGTGTGT:0.1233"	"GTGTGTGT:0.0941"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"8d5785ee-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WXS"	FALSE
"3080"	"RP11-589B3.7"	0	"mskcc.org"	"GRCh37"	"10"	81284646	81284646	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"rs745651185"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000606318"	""	45	"."	3	27	"."	0	"RP11-589B3.7,downstream_gene_variant,,ENST00000606318,;"	"-"	"ENSG00000271985"	"ENST00000606318"	"Transcript"	"downstream_gene_variant"	"-/124"	""	""	""	""	"rs745651185"	"1"	"1618"	-1	"RP11-589B3.7"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"74cf750e-280f-11e6-bc21-fcd3414a729f"	"86"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WXS"	FALSE
"3081"	"RP11-182L21.6"	642361	"mskcc.org"	"GRCh37"	"10"	81586763	81586764	"+"	"RNA"	"INS"	"-"	"-"	"TCGCCTCGCC"	"rs564141310"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1113_1122dupCGCCTCGCCT"	""	""	"ENST00000605920"	"1/1"	9	"."	4	1	"."	0	"RP11-182L21.6,non_coding_transcript_exon_variant,,ENST00000605920,;RP11-773D16.1,upstream_gene_variant,,ENST00000495430,;RP11-773D16.1,upstream_gene_variant,,ENST00000477192,;RP11-773D16.1,upstream_gene_variant,,ENST00000470445,;RP11-773D16.1,upstream_gene_variant,,ENST00000483080,;RP11-773D16.1,upstream_gene_variant,,ENST00000488805,;RP11-773D16.1,upstream_gene_variant,,ENST00000496359,;"	"TCGCCTCGCC"	"ENSG00000272447"	"ENST00000605920"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1106-1107/1701"	""	""	""	""	"rs564141310"	"1"	NA	1	"RP11-182L21.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"-:0.2141"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"8d9f0568-280f-11e6-bc21-fcd3414a729f"	"139"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3082"	"MBL1P"	8512	"mskcc.org"	"GRCh37"	"10"	81686508	81686509	"+"	"3'Flank"	"INS"	"-"	"TATT"	"TATT"	"rs10642630"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000480805"	""	8	"."	8	1	"."	0	"MBL1P,intron_variant,,ENST00000453174,;MBL1P,downstream_gene_variant,,ENST00000480805,;MBL1P,upstream_gene_variant,,ENST00000421889,;MBL1P,downstream_gene_variant,,ENST00000497731,;"	"TATT"	"ENSG00000242600"	"ENST00000480805"	"Transcript"	"downstream_gene_variant"	"-/1424"	""	""	""	""	"rs10642630"	"1"	"3633"	1	"MBL1P"	"HGNC"	6921	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2580"	"TATT:0.8896"	"TATT:0.6138"	NA	"TATT:0.7768"	"TATT:0.6083"	"TATT:0.7352"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"8db1bb36-280f-11e6-bc21-fcd3414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"3083"	"AL359195.1"	0	"mskcc.org"	"GRCh37"	"10"	82007525	82007533	"+"	"5'Flank"	"DEL"	"CCGCCGCCG"	"CCGCCGCCG"	"-"	"rs371966552"	NA	"JHCCPT5"	"JHCCPN5"	"CCGCCGCCG"	"CCGCCGCCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000356374"	""	23	"."	4	14	"."	0	"AL359195.1,upstream_gene_variant,,ENST00000356374,;RP11-40F6.1,downstream_gene_variant,,ENST00000423182,;EIF5AP4,upstream_gene_variant,,ENST00000441206,;"	"-"	"ENSG00000204038"	"ENST00000356374"	"Transcript"	"upstream_gene_variant"	"-/3930"	"-/843"	"-/280"	""	""	"rs371966552"	"1"	"1933"	1	"AL359195.1"	"Clone_based_ensembl_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000348738"	""	"Q6ZRL6"	"UPI00001C0F61"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCCGCCGCCGC"	"7515957a-280f-11e6-bc21-fcd3414a729f"	"94"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"3084"	"AL359195.1"	0	"mskcc.org"	"GRCh37"	"10"	82015925	82015926	"+"	"3'Flank"	"INS"	"-"	"-"	"GAT"	"rs142011303"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000356374"	""	14	"."	4	5	"."	0	"AL359195.1,downstream_gene_variant,,ENST00000356374,;"	"GAT"	"ENSG00000204038"	"ENST00000356374"	"Transcript"	"downstream_gene_variant"	"-/3930"	"-/843"	"-/280"	""	""	"rs142011303"	"1"	"2530"	1	"AL359195.1"	"Clone_based_ensembl_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000348738"	""	"Q6ZRL6"	"UPI00001C0F61"	""	NA	NA	""	""	""	"-:0.4443"	"GAT:0.348"	"GAT:0.5202"	NA	"GAT:0.9563"	"GAT:0.4682"	"GAT:0.5389"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"8dd025c6-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3085"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	83206181	83206183	"+"	"IGR"	"DEL"	"TCT"	"TCT"	"-"	"rs151153444"	NA	"JHCCPT5"	"JHCCPN5"	"TCT"	"TCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	33	"."	4	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs151153444"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3558"	"-:0.3548"	"-:0.2305"	NA	"-:0.6349"	"-:0.1948"	"-:0.3241"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTCTT"	"7535860a-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WXS"	FALSE
"3086"	"NRG3"	10718	"mskcc.org"	"GRCh37"	"10"	83857811	83857818	"+"	"Intron"	"DEL"	"ACACACAC"	"ACACACAC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"ACACACAC"	"ACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.823+221917_823+221924delCACACACA"	""	""	"ENST00000372141"	""	7	"."	4	2	"."	0	"NRG3,intron_variant,,ENST00000372142,NM_001165973.1;NRG3,intron_variant,,ENST00000404547,;NRG3,intron_variant,,ENST00000372141,NM_001165972.1,NM_001010848.3;NRG3,intron_variant,,ENST00000556918,;NRG3,intron_variant,,ENST00000404576,;NRG3,intron_variant,,ENST00000602794,;NRG3,intron_variant,,ENST00000555784,;"	"-"	"ENSG00000185737"	"ENST00000372141"	"Transcript"	"intron_variant"	"-/2158"	"-/2091"	"-/696"	""	""	""	"1"	NA	1	"NRG3"	"HGNC"	7999	"protein_coding"	"YES"	"CCDS31233.1"	"ENSP00000361214"	"P56975"	"D9ZHQ8"	"UPI00003D64C0"	"NM_001165972.1,NM_001010848.3"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"25"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATACACACACA"	"753cadcc-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3087"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	86399398	86399406	"+"	"IGR"	"DEL"	"AAAAAAAAA"	"AAAAAAAAA"	"-"	"rs201307398"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAAAAAA"	"AAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201307398"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAAAAAAAAA"	"756f25cc-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3088"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	87328710	87328711	"+"	"IGR"	"INS"	"-"	"-"	"TCTC"	"rs71475530"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	3	"."	0	""	"TCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71475530"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8e134ec8-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3089"	"GRID1"	2894	"mskcc.org"	"GRCh37"	"10"	87849882	87849883	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs34276202"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.726+48693dupG"	""	""	"ENST00000327946"	""	6	"."	4	1	"."	0	"GRID1,intron_variant,,ENST00000327946,NM_017551.2;GRID1,intron_variant,,ENST00000464741,;"	"C"	"ENSG00000182771"	"ENST00000327946"	"Transcript"	"intron_variant"	"-/5834"	"-/3030"	"-/1009"	""	""	"rs34276202"	"1"	NA	-1	"GRID1"	"HGNC"	4575	"protein_coding"	"YES"	"CCDS31236.1"	"ENSP00000330148"	"Q9ULK0"	"B7Z7L0"	"UPI00001D8051"	"NM_017551.2"	NA	NA	""	"4/15"	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"8e147d16-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3090"	"WAPAL"	23063	"mskcc.org"	"GRCh37"	"10"	88256643	88256644	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs138604710"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1644+314dupC"	""	""	"ENST00000298767"	""	9	"."	4	3	"."	0	"WAPAL,intron_variant,,ENST00000298767,NM_015045.2;"	"G"	"ENSG00000062650"	"ENST00000298767"	"Transcript"	"intron_variant"	"-/6333"	"-/3573"	"-/1190"	""	""	"rs138604710"	"1"	NA	-1	"WAPAL"	"HGNC"	23293	"protein_coding"	"YES"	"CCDS7375.1"	"ENSP00000298767"	"Q7Z5K2"	"B3Y1W2,B2RTX8"	"UPI00001AE41A"	"NM_015045.2"	NA	NA	""	"4/18"	""	"-:0.1865"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"8e21e87a-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3091"	"LIPN"	643418	"mskcc.org"	"GRCh37"	"10"	90521505	90521520	"+"	"Intron"	"DEL"	"TATCTATCTATCTATG"	"TATCTATCTATCTATG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TATCTATCTATCTATG"	"TATCTATCTATCTATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.108+250_108+265delGTATCTATCTATCTAT"	""	""	"ENST00000404459"	""	32	"."	3	11	"."	0	"LIPN,intron_variant,,ENST00000404459,NM_001102469.1;"	"-"	"ENSG00000204020"	"ENST00000404459"	"Transcript"	"intron_variant"	"-/1197"	"-/1197"	"-/398"	""	""	""	"1"	NA	1	"LIPN"	"HGNC"	23452	"protein_coding"	"YES"	"CCDS44456.1"	"ENSP00000383923"	"Q5VXI9"	""	"UPI000150AF6A"	"NM_001102469.1"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTATCTATCTATCTATGT"	"761680a6-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WXS"	FALSE
"3092"	"STAMBPL1"	57559	"mskcc.org"	"GRCh37"	"10"	90674435	90674436	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs776698254"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.903+36_903+37delAT"	""	""	"ENST00000371926"	""	128	"."	3	27	"."	0	"STAMBPL1,intron_variant,,ENST00000371927,;STAMBPL1,intron_variant,,ENST00000371926,NM_020799.3;STAMBPL1,intron_variant,,ENST00000371924,;STAMBPL1,intron_variant,,ENST00000371922,;"	"-"	"ENSG00000138134"	"ENST00000371926"	"Transcript"	"intron_variant"	"-/2532"	"-/1311"	"-/436"	""	""	"rs776698254"	"1"	NA	1	"STAMBPL1"	"HGNC"	24105	"protein_coding"	"YES"	"CCDS7391.1"	"ENSP00000360994"	"Q96FJ0"	"B3KR00"	"UPI000013FA61"	"NM_020799.3"	NA	NA	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"16"	""	"1"	"0.01785"	"0.08632"	"0.05474"	"0.03636"	"0.08542"	"0.06202"	"0.1143"	"0.06967"	NA	"common_variant"	"AAATA"	"761e7806-280f-11e6-bc21-fcd3414a729f"	"180"	0.06922	"599/8654"	"1402/78524"	"106/1228"	"45/822"	"8/220"	"109/1276"	"227/3660"	"8/70"	"96/1378"	"PASS"	"FALSE"	0.0234375	"WXS"	FALSE
"3093"	"HTR7"	3363	"mskcc.org"	"GRCh37"	"10"	92581661	92581662	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs34901745"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.539+35228_539+35229insG"	""	""	"ENST00000336152"	""	8	"."	6	2	"."	0	"HTR7,intron_variant,,ENST00000371721,;HTR7,intron_variant,,ENST00000336152,NM_019859.3;HTR7,intron_variant,,ENST00000371719,NM_019860.3;HTR7,intron_variant,,ENST00000277874,NM_000872.4;"	"C"	"ENSG00000148680"	"ENST00000336152"	"Transcript"	"intron_variant"	"-/3126"	"-/1440"	"-/479"	""	""	"rs34901745"	"1"	NA	-1	"HTR7"	"HGNC"	5302	"protein_coding"	"YES"	"CCDS7408.1"	"ENSP00000337949"	"P34969"	""	"UPI0000049B68"	"NM_019859.3"	NA	NA	""	"1/3"	""	"-:0.1731"	"C:0.9887"	"C:0.7795"	NA	"C:0.7034"	"C:0.828"	"C:0.7679"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"8e7c592c-280f-11e6-bc21-fcd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"3094"	"RPP30"	10556	"mskcc.org"	"GRCh37"	"10"	92632205	92632205	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34520335"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.82+382delT"	""	""	"ENST00000413330"	""	11	"."	4	2	"."	0	"RPP30,intron_variant,,ENST00000413330,NM_001104546.1;RPP30,intron_variant,,ENST00000371703,NM_006413.4;RPP30,intron_variant,,ENST00000277882,;RPP30,upstream_gene_variant,,ENST00000414836,;RPP30,upstream_gene_variant,,ENST00000466462,;RPP30,intron_variant,,ENST00000487998,;"	"-"	"ENSG00000148688"	"ENST00000413330"	"Transcript"	"intron_variant"	"-/4272"	"-/969"	"-/322"	""	""	"rs34520335"	"1"	NA	1	"RPP30"	"HGNC"	17688	"protein_coding"	"YES"	"CCDS44458.1"	"ENSP00000389182"	"P78346"	""	"UPI00001F9394"	"NM_001104546.1"	NA	NA	""	"1/13"	""	"-:0.2614"	"-:0.3964"	"-:0.2363"	NA	"-:0.255"	"-:0.1471"	"-:0.2209"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"76908a54-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3095"	"BTAF1"	9044	"mskcc.org"	"GRCh37"	"10"	93784488	93784489	"+"	"Intron"	"INS"	"-"	"-"	"GTTTTTTT"	"rs141297800"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4864-24_4864-17dupGTTTTTTT"	""	""	"ENST00000265990"	""	43	"."	6	19	"."	0	"BTAF1,intron_variant,,ENST00000265990,NM_003972.2;BTAF1,intron_variant,,ENST00000544642,;"	"GTTTTTTT"	"ENSG00000095564"	"ENST00000265990"	"Transcript"	"intron_variant"	"-/7250"	"-/5550"	"-/1849"	""	""	"rs141297800"	"1"	NA	1	"BTAF1"	"HGNC"	17307	"protein_coding"	"YES"	"CCDS7419.1"	"ENSP00000265990"	"O14981"	"Q8N6J1,Q2M1V9,B4E0W6"	"UPI0000136782"	"NM_003972.2"	NA	NA	""	"34/37"	""	"GTTTTTTT:0.1813"	"GTTTTTTT:0.0348"	"GTTTTTTT:0.2161"	NA	"GTTTTTTT:0.2401"	"GTTTTTTT:0.34"	"GTTTTTTT:0.1309"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	"0.2935"	"0.08798"	"0.2468"	"0.3264"	"0.3174"	"0.36"	"0.3243"	"0.2312"	NA	"common_variant"	"TAG"	"8eb78c0e-280f-11e6-bc21-fcd3414a729f"	"360"	0.2981	"25466/85420"	"31005/105634"	"688/7820"	"2175/8812"	"1926/5900"	"1745/5498"	"15676/43548"	"192/592"	"3064/13250"	"PASS"	"FALSE"	0.13953488372093	"WXS"	FALSE
"3096"	"CPEB3"	22849	"mskcc.org"	"GRCh37"	"10"	93836592	93836595	"+"	"Intron"	"DEL"	"GAAA"	"GAAA"	"-"	"rs111227026"	NA	"JHCCPT5"	"JHCCPN5"	"GAAA"	"GAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1869+4482_1869+4485delTTTC"	""	""	"ENST00000265997"	""	26	"."	9	9	"."	0	"CPEB3,intron_variant,,ENST00000412050,NM_001178137.1;CPEB3,intron_variant,,ENST00000265997,NM_014912.4;SNORA25,downstream_gene_variant,,ENST00000517184,;"	"-"	"ENSG00000107864"	"ENST00000265997"	"Transcript"	"intron_variant"	"-/4851"	"-/2097"	"-/698"	""	""	"rs111227026"	"1"	NA	-1	"CPEB3"	"HGNC"	21746	"protein_coding"	"YES"	"CCDS31246.1"	"ENSP00000265997"	"Q8NE35"	""	"UPI000013F7DE"	"NM_014912.4"	NA	NA	""	"9/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAAG"	"76e02618-280f-11e6-bc21-fcd3414a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WXS"	FALSE
"3097"	"MARCH5"	54708	"mskcc.org"	"GRCh37"	"10"	94079419	94079419	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs145183388"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.238+8333delT"	""	""	"ENST00000358935"	""	7	"."	4	4	"."	0	"MARCH5,intron_variant,,ENST00000358935,NM_017824.4;MARCH5,intron_variant,,ENST00000467521,;"	"-"	"ENSG00000198060"	"ENST00000358935"	"Transcript"	"intron_variant"	"-/3926"	"-/837"	"-/278"	""	""	"rs145183388"	"1"	NA	1	"MARCH5"	"HGNC"	26025	"protein_coding"	"YES"	"CCDS7420.1"	"ENSP00000351813"	"Q9NX47"	"B4DGV8"	"UPI000006D0BC"	"NM_017824.4"	NA	NA	""	"2/5"	""	"T:0.3604"	"-:0.8911"	"-:0.7392"	NA	"-:0.4901"	"-:0.6163"	"-:0.407"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"76e7a866-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3098"	"KIF11"	3832	"mskcc.org"	"GRCh37"	"10"	94352395	94352396	"+"	"5'Flank"	"INS"	"-"	"-"	"CACACACACACACA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000260731"	""	6	"."	3	1	"."	0	"KIF11,upstream_gene_variant,,ENST00000260731,NM_004523.3;RP11-366I13.3,downstream_gene_variant,,ENST00000332269,;"	"CACACACACACACA"	"ENSG00000138160"	"ENST00000260731"	"Transcript"	"upstream_gene_variant"	"-/4858"	"-/3171"	"-/1056"	""	""	""	"1"	"647"	1	"KIF11"	"HGNC"	6388	"protein_coding"	"YES"	"CCDS7422.1"	"ENSP00000260731"	"P52732"	""	"UPI000013D0FC"	"NM_004523.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"8ed155da-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3099"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	94521113	94521114	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs11374208"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	3	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11374208"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1156"	"C:0.7716"	"C:0.9193"	NA	"C:0.9732"	"C:0.8499"	"C:0.956"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"8ede8138-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3100"	"EXOC6"	54536	"mskcc.org"	"GRCh37"	"10"	94655058	94655059	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs67921640"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.412+287dupT"	""	""	"ENST00000260762"	""	6	"."	3	5	"."	0	"EXOC6,intron_variant,,ENST00000371552,NM_001013848.2;EXOC6,intron_variant,,ENST00000260762,NM_019053.4;EXOC6,intron_variant,,ENST00000443748,;EXOC6,intron_variant,,ENST00000371547,;EXOC6,intron_variant,,ENST00000371543,;"	"T"	"ENSG00000138190"	"ENST00000260762"	"Transcript"	"intron_variant"	"-/3564"	"-/2415"	"-/804"	""	""	"rs67921640"	"1"	NA	1	"EXOC6"	"HGNC"	23196	"protein_coding"	"YES"	"CCDS7424.2"	"ENSP00000260762"	"Q8TAG9"	"Q9NTA6,H0Y5J8,B1AP46"	"UPI0000141914"	"NM_019053.4"	NA	NA	""	"4/21"	""	"T:0.3065"	"T:0.1263"	"T:0.2349"	NA	"T:0.625"	"T:0.2286"	"T:0.3528"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"8ef6d544-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3101"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	95002175	95002176	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs200933945"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200933945"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.0302"	"C:0.0008"	"C:0.0346"	NA	"C:0"	"C:0.0885"	"C:0.0378"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"8f17c88a-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3102"	"FRA10AC1"	118924	"mskcc.org"	"GRCh37"	"10"	95429672	95429674	"+"	"Intron"	"DEL"	"TAC"	"TAC"	"-"	""	NA	"JHCCPT5"	"JHCCPN5"	"TAC"	"TAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.906-49_906-47delGTA"	""	""	"ENST00000359204"	""	71	"."	14	10	"."	0	"FRA10AC1,intron_variant,,ENST00000359204,NM_145246.4;FRA10AC1,intron_variant,,ENST00000536233,;PDE6C,downstream_gene_variant,,ENST00000371447,NM_006204.3;FRA10AC1,downstream_gene_variant,,ENST00000371430,;FRA10AC1,downstream_gene_variant,,ENST00000394100,;FRA10AC1,intron_variant,,ENST00000460752,;FRA10AC1,intron_variant,,ENST00000483229,;FRA10AC1,downstream_gene_variant,,ENST00000462771,;PDE6C,downstream_gene_variant,,ENST00000475427,;"	"-"	"ENSG00000148690"	"ENST00000359204"	"Transcript"	"intron_variant"	"-/3089"	"-/948"	"-/315"	""	""	"TMP_ESP_10_95429672_95429674"	"1"	NA	-1	"FRA10AC1"	"HGNC"	1162	"protein_coding"	"YES"	"CCDS7430.1"	"ENSP00000360488"	"Q70Z53"	""	"UPI000006F7A9"	"NM_145246.4"	NA	NA	""	"13/13"	""	""	"-:0.0227"	"-:0.0101"	NA	"-:0"	"-:0.0129"	"-:0.0082"	"-:0.0228"	"-:0.0201"	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.01467"	"0.02154"	"0.00566"	"0.0001853"	"0.01423"	"0.02343"	"0.01423"	"0.01008"	"1"	"common_variant"	"ATTACT"	"777d9d94-280f-11e6-bc21-fcd3414a729f"	"840"	0.01637	"1266/77338"	"1549/105558"	"136/6314"	"54/9540"	"1/5398"	"77/5410"	"851/36326"	"8/562"	"139/13788"	"PASS"	"FALSE"	0.197183098591549	"WXS"	FALSE
"3103"	"SLC35G1"	159371	"mskcc.org"	"GRCh37"	"10"	95660292	95660292	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs200050046"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.360-214delT"	""	""	"ENST00000427197"	""	8	"."	3	2	"."	0	"SLC35G1,intron_variant,,ENST00000371408,;SLC35G1,intron_variant,,ENST00000427197,NM_001134658.1,NM_153226.2;SLC35G1,intron_variant,,ENST00000483386,;SLC35G1,intron_variant,,ENST00000603665,;SLC35G1,intron_variant,,ENST00000494992,;SLC35G1,intron_variant,,ENST00000605679,;"	"-"	"ENSG00000176273"	"ENST00000427197"	"Transcript"	"intron_variant"	"-/2402"	"-/1098"	"-/365"	""	""	"rs200050046"	"1"	NA	1	"SLC35G1"	"HGNC"	26607	"protein_coding"	"YES"	"CCDS44459.1"	"ENSP00000400932"	"Q2M3R5"	""	"UPI000013FE98"	"NM_001134658.1,NM_153226.2"	NA	NA	""	"2/2"	""	"-:0.0052"	"-:0.0015"	"-:0.0029"	NA	"-:0"	"-:0.0139"	"-:0.0082"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTT"	"779bec2c-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3104"	"ALDH18A1"	5832	"mskcc.org"	"GRCh37"	"10"	97371527	97371527	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs34752566"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1924-328delT"	""	""	"ENST00000371224"	""	8	"."	3	7	"."	0	"ALDH18A1,intron_variant,,ENST00000371224,NM_002860.3;ALDH18A1,intron_variant,,ENST00000371221,NM_001017423.1;ALDH18A1,intron_variant,,ENST00000485428,;"	"-"	"ENSG00000059573"	"ENST00000371224"	"Transcript"	"intron_variant"	"-/3349"	"-/2388"	"-/795"	""	""	"rs34752566"	"1"	NA	-1	"ALDH18A1"	"HGNC"	9722	"protein_coding"	"YES"	"CCDS7443.1"	"ENSP00000360268"	"P54886"	""	"UPI0000131056"	"NM_002860.3"	NA	NA	""	"15/17"	""	"-:0.2796"	"-:0.1604"	"-:0.5403"	NA	"-:0.0764"	"-:0.4573"	"-:0.2822"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCAA"	"78417534-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3105"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	100035866	100035867	"+"	"IGR"	"INS"	"-"	"-"	"GAAGAAGAAGAA"	"rs746659994"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	31	"."	3	13	"."	0	""	"GAAGAAGAAGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs746659994"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"90219512-280f-11e6-bc21-fcd3414a729f"	"158"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WXS"	FALSE
"3106"	"RP11-441O15.3"	0	"mskcc.org"	"GRCh37"	"10"	101200561	101200562	"+"	"3'Flank"	"INS"	"-"	"-"	"TTTGTTTGTTTTTG"	"rs71868458"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000416191"	""	7	"."	4	2	"."	0	"RP11-441O15.3,downstream_gene_variant,,ENST00000416191,;"	"TTTGTTTGTTTTTG"	"ENSG00000224934"	"ENST00000416191"	"Transcript"	"downstream_gene_variant"	"-/2998"	""	""	""	""	"rs71868458"	"1"	"2687"	1	"RP11-441O15.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1030"	"TTTGTTTGTTTTTG:0.9622"	"TTTGTTTGTTTTTG:0.938"	NA	"TTTGTTTGTTTTTG:0.9603"	"TTTGTTTGTTTTTG:0.8708"	"TTTGTTTGTTTTTG:0.7413"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"902f00ee-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3107"	"ABCC2"	1244	"mskcc.org"	"GRCh37"	"10"	101579171	101579172	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs5787360"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2620+148_2620+149delGT"	""	""	"ENST00000370449"	""	22	"."	5	4	"."	0	"ABCC2,intron_variant,,ENST00000370449,NM_000392.3;"	"-"	"ENSG00000023839"	"ENST00000370449"	"Transcript"	"intron_variant"	"-/5312"	"-/4638"	"-/1545"	""	""	"rs5787360"	"1"	NA	1	"ABCC2"	"HGNC"	53	"protein_coding"	"YES"	"CCDS7484.1"	"ENSP00000359478"	"Q92887"	""	"UPI000013D6CA"	"NM_000392.3"	NA	NA	""	"19/31"	""	"-:0.2933"	"-:0.3026"	"-:0.3444"	NA	"-:0.3681"	"-:0.2535"	"-:0.2086"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTGT"	"794ddcce-280f-11e6-bc21-fcd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WXS"	FALSE
"3108"	"DNMBP"	23268	"mskcc.org"	"GRCh37"	"10"	101714807	101714808	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11445505"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2260+163dupT"	""	""	"ENST00000324109"	""	71	"."	7	16	"."	0	"DNMBP,intron_variant,,ENST00000342239,;DNMBP,intron_variant,,ENST00000324109,NM_015221.2;DNMBP-AS1,intron_variant,,ENST00000434409,;"	"A"	"ENSG00000107554"	"ENST00000324109"	"Transcript"	"intron_variant"	"-/6400"	"-/4734"	"-/1577"	""	""	"rs11445505"	"1"	NA	-1	"DNMBP"	"HGNC"	30373	"protein_coding"	"YES"	"CCDS7485.1"	"ENSP00000315659"	"Q6XZF7"	"B4E0Q3"	"UPI000013D6C9"	"NM_015221.2"	NA	NA	""	"4/16"	""	"A:0.3137"	"A:0.3933"	"A:0.33"	NA	"A:0.2282"	"A:0.3419"	"A:0.2536"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"9060aa40-280f-11e6-bc21-fcd3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0985915492957746	"WXS"	FALSE
"3109"	"PKD2L1"	9033	"mskcc.org"	"GRCh37"	"10"	102057460	102057473	"+"	"Intron"	"DEL"	"TGTGTGTGTGTGTG"	"TGTGTGTGTGTGTG"	"-"	"rs143147186"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTGTGTGTGTG"	"TGTGTGTGTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.732-110_732-97delCACACACACACACA"	""	""	"ENST00000318222"	""	31	"."	5	17	"."	0	"PKD2L1,intron_variant,,ENST00000318222,NM_016112.2,NM_001253837.1;PKD2L1,intron_variant,,ENST00000353274,;PKD2L1,intron_variant,,ENST00000338519,;PKD2L1,intron_variant,,ENST00000465680,;PKD2L1,intron_variant,,ENST00000528248,;PKD2L1,downstream_gene_variant,,ENST00000532547,;"	"-"	"ENSG00000107593"	"ENST00000318222"	"Transcript"	"intron_variant"	"-/3043"	"-/2418"	"-/805"	""	""	"rs143147186"	"1"	NA	-1	"PKD2L1"	"HGNC"	9011	"protein_coding"	"YES"	"CCDS7492.1"	"ENSP00000325296"	"Q9P0L9"	""	"UPI0000130FED"	"NM_016112.2,NM_001253837.1"	NA	NA	""	"4/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTGTGTGTGTGTGTGT"	"79797870-280f-11e6-bc21-fcd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161290322580645	"WXS"	FALSE
"3110"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	102414558	102414558	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs141314205"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141314205"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1653"	"-:0.0325"	"-:0.2262"	NA	"-:0.3065"	"-:0.1968"	"-:0.1237"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTA"	"79ac7248-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3111"	"TLX1NB"	100038246	"mskcc.org"	"GRCh37"	"10"	102873860	102873864	"+"	"Intron"	"DEL"	"AAAGA"	"AAAGA"	"-"	"rs147064903"	NA	"JHCCPT5"	"JHCCPN5"	"AAAGA"	"AAAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-798+12853_-798+12857delTCTTT"	""	""	"ENST00000445873"	""	17	"."	4	3	"."	0	"TLX1NB,intron_variant,,ENST00000445873,NM_001085398.1;TLX1NB,intron_variant,,ENST00000425505,;"	"-"	"ENSG00000236311"	"ENST00000445873"	"Transcript"	"intron_variant"	"-/1862"	"-/369"	"-/122"	""	""	"rs147064903"	"1"	NA	-1	"TLX1NB"	"HGNC"	37183	"protein_coding"	"YES"	"CCDS60615.1"	"ENSP00000475001"	"P0CAT3"	""	"UPI0000141B8A"	"NM_001085398.1"	NA	NA	""	"2/2"	""	"-:0.2607"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAAAGAA"	"79dfb3ce-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"3112"	"BTRC"	8945	"mskcc.org"	"GRCh37"	"10"	103292554	103292555	"+"	"Intron"	"INS"	"-"	"-"	"GTGCGC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.979-154_979-153insTGCGCG"	""	""	"ENST00000370187"	""	36	"."	4	25	"."	0	"BTRC,intron_variant,,ENST00000370187,NM_033637.3;BTRC,intron_variant,,ENST00000393441,NM_001256856.1;BTRC,intron_variant,,ENST00000408038,NM_003939.4;BTRC,upstream_gene_variant,,ENST00000493877,;"	"GTGCGC"	"ENSG00000166167"	"ENST00000370187"	"Transcript"	"intron_variant"	"-/6134"	"-/1818"	"-/605"	""	""	""	"1"	NA	1	"BTRC"	"HGNC"	1144	"protein_coding"	"YES"	"CCDS7512.1"	"ENSP00000359206"	"Q9Y297"	"Q5T1W7"	"UPI00000012B5"	"NM_033637.3"	NA	NA	""	"8/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"90c1391e-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WXS"	FALSE
"3113"	"SUFU"	51684	"mskcc.org"	"GRCh37"	"10"	104378688	104378689	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGTGT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1296+1544_1296+1551dupGTGTGTGT"	""	""	"ENST00000369902"	""	182	"."	7	97	"."	0	"SUFU,intron_variant,,ENST00000369902,NM_016169.3;SUFU,intron_variant,,ENST00000369899,NM_001178133.1;SUFU,downstream_gene_variant,,ENST00000423559,;"	"GTGTGTGT"	"ENSG00000107882"	"ENST00000369902"	"Transcript"	"intron_variant"	"-/5001"	"-/1455"	"-/484"	""	""	""	"1"	NA	1	"SUFU"	"HGNC"	16466	"protein_coding"	"YES"	"CCDS7537.1"	"ENSP00000358918"	"Q9UMX1"	""	"UPI0000073C79"	"NM_016169.3"	NA	NA	""	"10/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"48"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"90fb1b5c-280f-11e6-bc21-fcd3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0384615384615385	"WXS"	TRUE
"3114"	"CNNM2"	54805	"mskcc.org"	"GRCh37"	"10"	104828027	104828040	"+"	"Intron"	"DEL"	"GAGGCCAAGACAGT"	"GAGGCCAAGACAGT"	"-"	"rs147687891"	NA	"JHCCPT5"	"JHCCPN5"	"GAGGCCAAGACAGT"	"GAGGCCAAGACAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2074-356_2074-343delGCCAAGACAGTGAG"	""	""	"ENST00000369878"	""	9	"."	4	1	"."	0	"CNNM2,intron_variant,,ENST00000369878,NM_017649.4;CNNM2,intron_variant,,ENST00000433628,NM_199076.2;CNNM2,upstream_gene_variant,,ENST00000475511,;"	"-"	"ENSG00000148842"	"ENST00000369878"	"Transcript"	"intron_variant"	"-/15857"	"-/2628"	"-/875"	""	""	"rs147687891"	"1"	NA	1	"CNNM2"	"HGNC"	103	"protein_coding"	"YES"	"CCDS44474.1"	"ENSP00000358894"	"Q9H8M5"	""	"UPI0000231CA6"	"NM_017649.4"	NA	NA	""	"4/7"	""	"-:0.1520"	"-:0.025"	"-:0.1931"	NA	"-:0.2877"	"-:0.0885"	"-:0.2198"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGGAGGCCAAGACAGTG"	"7b21eedc-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3115"	"SORCS3"	22986	"mskcc.org"	"GRCh37"	"10"	106923641	106923642	"+"	"Intron"	"INS"	"-"	"-"	"ACACACACACACAC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1733-395_1733-382dupACACACACACACAC"	""	""	"ENST00000369701"	""	17	"."	3	10	"."	0	"SORCS3,intron_variant,,ENST00000369701,NM_014978.1;SORCS3,intron_variant,,ENST00000393176,;"	"ACACACACACACAC"	"ENSG00000156395"	"ENST00000369701"	"Transcript"	"intron_variant"	"-/5757"	"-/3669"	"-/1222"	""	""	""	"1"	NA	1	"SORCS3"	"HGNC"	16699	"protein_coding"	"YES"	"CCDS7558.1"	"ENSP00000358715"	"Q9UPU3"	"B7Z891"	"UPI0000135CE1"	"NM_014978.1"	NA	NA	""	"11/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"38"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"91b97ab6-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"3116"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	107037697	107037698	"+"	"IGR"	"DEL"	"CT"	"-"	"-"	"rs71706364"	NA	"JHCCPT5"	"JHCCPN5"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71706364"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2416"	"-:0.1778"	"-:0.268"	NA	"-:0.246"	"-:0.2237"	"-:0.3231"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACTC"	"7c1a7caa-280f-11e6-bc21-fcd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3117"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	108051743	108051743	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs61104301"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs61104301"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"7c2ce6ce-280f-11e6-bc21-fcd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3118"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	108143922	108143923	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs11463884"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11463884"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4860"	"T:0.6755"	"T:0.5447"	NA	"T:0.5764"	"T:0.2903"	"T:0.4397"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"91ccd0de-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3119"	"RP11-163F15.1"	0	"mskcc.org"	"GRCh37"	"10"	110325284	110325285	"+"	"5'Flank"	"INS"	"-"	"-"	"GGGAAG"	"rs762416682"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366253"	""	10	"."	3	1	"."	0	"RP11-163F15.1,upstream_gene_variant,,ENST00000366253,;"	"GGGAAG"	"ENSG00000203434"	"ENST00000366253"	"Transcript"	"upstream_gene_variant"	"-/575"	""	""	""	""	"rs762416682"	"1"	"3711"	-1	"RP11-163F15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"91e36344-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3120"	"RBM20"	282996	"mskcc.org"	"GRCh37"	"10"	112524032	112524035	"+"	"Intron"	"DEL"	"CAAA"	"-"	"-"	"rs145273952"	NA	"JHCCPT5"	"JHCCPN5"	"CAAA"	"CAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.192-16513_192-16510delAACA"	""	""	"ENST00000369519"	""	7	"."	6	2	"."	0	"RBM20,intron_variant,,ENST00000369519,NM_001134363.1;RNA5SP327,downstream_gene_variant,,ENST00000362494,;"	"-"	"ENSG00000203867"	"ENST00000369519"	"Transcript"	"intron_variant"	"-/7233"	"-/3684"	"-/1227"	""	""	"rs145273952"	"1"	NA	1	"RBM20"	"HGNC"	27424	"protein_coding"	"YES"	"CCDS44477.1"	"ENSP00000358532"	"Q5T481"	""	"UPI00016624E1"	"NM_001134363.1"	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"14"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGCAAAC"	"7ca44db8-280f-11e6-bc21-fcd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"3121"	"ABLIM1"	3983	"mskcc.org"	"GRCh37"	"10"	116217896	116217899	"+"	"Intron"	"DEL"	"ATAT"	"-"	"-"	"rs35858255"	NA	"JHCCPT5"	"JHCCPN5"	"ATAT"	"ATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1442-4657_1442-4654delATAT"	""	""	"ENST00000277895"	""	6	"."	5	1	"."	0	"ABLIM1,intron_variant,,ENST00000369252,NM_001003408.1,NM_001003407.1;ABLIM1,intron_variant,,ENST00000533213,;ABLIM1,intron_variant,,ENST00000392952,NM_006720.3;ABLIM1,intron_variant,,ENST00000369266,;ABLIM1,intron_variant,,ENST00000277895,NM_002313.5;ABLIM1,intron_variant,,ENST00000369253,;ABLIM1,intron_variant,,ENST00000428430,;ABLIM1,intron_variant,,ENST00000440467,;ABLIM1,intron_variant,,ENST00000392955,;ABLIM1,intron_variant,,ENST00000369256,;"	"-"	"ENSG00000099204"	"ENST00000277895"	"Transcript"	"intron_variant"	"-/2657"	"-/2337"	"-/778"	""	""	"rs35858255"	"1"	NA	-1	"ABLIM1"	"HGNC"	78	"protein_coding"	"YES"	"CCDS7590.1"	"ENSP00000277895"	"O14639"	""	"UPI0000418D06"	"NM_002313.5"	NA	NA	""	"12/22"	""	"-:0.4407"	"-:0.5151"	"-:0.4164"	NA	"-:0.3631"	"-:0.4264"	"-:0.4519"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATATA"	"7dda9778-280f-11e6-bc21-fcd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3122"	"GFRA1"	2674	"mskcc.org"	"GRCh37"	"10"	117856387	117856394	"+"	"Intron"	"DEL"	"CACACGCA"	"CACACGCA"	"-"	"rs376047022"	NA	"JHCCPT5"	"JHCCPN5"	"CACACGCA"	"CACACGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.771-119_771-112delTGCGTGTG"	""	""	"ENST00000355422"	""	61	"."	3	31	"."	0	"GFRA1,intron_variant,,ENST00000439649,NM_001145453.1;GFRA1,intron_variant,,ENST00000369236,NM_145793.3;GFRA1,intron_variant,,ENST00000355422,NM_005264.4;GFRA1,intron_variant,,ENST00000369234,;GFRA1,intron_variant,,ENST00000544592,;"	"-"	"ENSG00000151892"	"ENST00000355422"	"Transcript"	"intron_variant"	"-/2583"	"-/1398"	"-/465"	""	""	"rs376047022"	"1"	NA	-1	"GFRA1"	"HGNC"	4243	"protein_coding"	"YES"	"CCDS44481.1"	"ENSP00000347591"	"P56159"	""	"UPI000012B3A8"	"NM_005264.4"	NA	NA	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCACACGCAC"	"7e0b1736-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0491803278688525	"WXS"	FALSE
"3123"	"KIAA1598"	57698	"mskcc.org"	"GRCh37"	"10"	118765751	118765752	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"rs11434853"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000355371"	""	6	"."	3	2	"."	0	"KIAA1598,intron_variant,,ENST00000392901,NM_001258300.1;KIAA1598,upstream_gene_variant,,ENST00000355371,NM_001258299.1,NM_001127211.2,NM_001258298.1;KIAA1598,upstream_gene_variant,,ENST00000260777,NM_018330.6;KIAA1598,upstream_gene_variant,,ENST00000392903,;"	"T"	"ENSG00000187164"	"ENST00000355371"	"Transcript"	"upstream_gene_variant"	"-/3941"	"-/1896"	"-/631"	""	""	"rs11434853"	"1"	"663"	-1	"KIAA1598"	"HGNC"	29319	"protein_coding"	"YES"	"CCDS44482.1"	"ENSP00000347532"	"A0MZ66"	""	"UPI0000404A8F"	"NM_001258299.1,NM_001127211.2,NM_001258298.1"	NA	NA	""	""	""	"-:0.1148"	"T:0.6513"	"T:0.9597"	NA	"T:0.9653"	"T:0.996"	"T:0.9519"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"9322e522-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	TRUE
"3124"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	118905519	118905534	"+"	"IGR"	"DEL"	"GAAAGAAAGAAAGAAA"	"GAAAGAAAGAAAGAAA"	"-"	"rs759712736"	NA	"JHCCPT5"	"JHCCPN5"	"GAAAGAAAGAAAGAAA"	"GAAAGAAAGAAAGAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs759712736"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAAGAAAGAAAGAAAG"	"7e5d98c6-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"3125"	"ENSR00000644008"	0	"mskcc.org"	"GRCh37"	"10"	120263356	120263357	"+"	"IGR"	"INS"	"-"	"-"	"AGAAAGAAAGAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000644008"	""	12	"."	3	3	"."	0	""	"AGAAAGAAAGAA"	""	"ENSR00000644008"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"93405e04-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3126"	"ENSR00000644008"	0	"mskcc.org"	"GRCh37"	"10"	120263869	120263869	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs151102428"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000644008"	""	16	"."	4	4	"."	0	""	"-"	""	"ENSR00000644008"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs151102428"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0705"	"-:0.093"	"-:0.1585"	NA	"-:0.0139"	"-:0.0686"	"-:0.0378"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGG"	"7ec3374e-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3127"	"NANOS1"	340719	"mskcc.org"	"GRCh37"	"10"	120785228	120785235	"+"	"5'Flank"	"DEL"	"GCCCCACT"	"GCCCCACT"	"-"	"rs67555819"	NA	"JHCCPT5"	"JHCCPN5"	"GCCCCACT"	"GCCCCACT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000425699"	""	15	"."	4	6	"."	0	"NANOS1,upstream_gene_variant,,ENST00000425699,NM_199461.2;NANOS1,upstream_gene_variant,,ENST00000340087,;"	"-"	"ENSG00000188613"	"ENST00000425699"	"Transcript"	"upstream_gene_variant"	"-/4627"	"-/879"	"-/292"	""	""	"rs67555819"	"1"	"3993"	1	"NANOS1"	"HGNC"	23044	"protein_coding"	"YES"	"CCDS7607.1"	"ENSP00000393275"	"Q8WY41"	"Q5T9H5"	"UPI00001D68E9"	"NM_199461.2"	NA	NA	""	""	""	"GCCCCACT:0.4093"	"-:0.556"	"-:0.5778"	NA	"-:0.5238"	"-:0.5815"	"-:0.7249"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGGCCCCACTG"	"7edff4f6-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"3128"	"EIF3A"	8661	"mskcc.org"	"GRCh37"	"10"	120803907	120803908	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs72509488"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2659-254dupG"	""	""	"ENST00000369144"	""	19	"."	7	4	"."	0	"EIF3A,intron_variant,,ENST00000369144,NM_003750.2;EIF3A,intron_variant,,ENST00000541549,;"	"C"	"ENSG00000107581"	"ENST00000369144"	"Transcript"	"intron_variant"	"-/5472"	"-/4149"	"-/1382"	""	""	"rs72509488"	"1"	NA	-1	"EIF3A"	"HGNC"	3271	"protein_coding"	"YES"	"CCDS7608.1"	"ENSP00000358140"	"Q14152"	"F5H335"	"UPI000012D311"	"NM_003750.2"	NA	NA	""	"17/21"	""	"C:0.2889"	"C:0.0794"	"C:0.3646"	NA	"C:0.4246"	"C:0.3956"	"C:0.2689"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"93601500-280f-11e6-bc21-fcd3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.368421052631579	"WXS"	FALSE
"3129"	"GRK5"	2869	"mskcc.org"	"GRCh37"	"10"	121051644	121051664	"+"	"Intron"	"DEL"	"TCCTCCTTCTCCTCCTCTTCC"	"TCCTCCTTCTCCTCCTCTTCC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TCCTCCTTCTCCTCCTCTTCC"	"TCCTCCTTCTCCTCCTCTTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.53-34377_53-34357delTCTCCTCCTCTTCCTCCTCCT"	""	""	"ENST00000392870"	""	25	"."	4	4	"."	0	"GRK5,intron_variant,,ENST00000392870,NM_005308.2;"	"-"	"ENSG00000198873"	"ENST00000392870"	"Transcript"	"intron_variant"	"-/2654"	"-/1773"	"-/590"	""	""	""	"1"	NA	1	"GRK5"	"HGNC"	4544	"protein_coding"	"YES"	"CCDS7612.1"	"ENSP00000376609"	"P34947"	"Q24JT8,G8JLE8"	"UPI0000049BF9"	"NM_005308.2"	NA	NA	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTCCTCCTTCTCCTCCTCTTCCT"	"7f348660-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WXS"	FALSE
"3130"	"PPAPDC1A"	196051	"mskcc.org"	"GRCh37"	"10"	122340190	122340191	"+"	"Intron"	"INS"	"-"	"-"	"ACACAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.616+5379_616+5380insACAAAC"	""	""	"ENST00000398250"	""	55	"."	3	32	"."	0	"PPAPDC1A,intron_variant,,ENST00000398250,NM_001030059.1;PPAPDC1A,intron_variant,,ENST00000541332,;PPAPDC1A,intron_variant,,ENST00000439221,;PPAPDC1A,intron_variant,,ENST00000369073,;PPAPDC1A,intron_variant,,ENST00000398248,;PPAPDC1A,intron_variant,,ENST00000427079,;PPAPDC1A,intron_variant,,ENST00000496437,;"	"ACACAA"	"ENSG00000203805"	"ENST00000398250"	"Transcript"	"intron_variant"	"-/1521"	"-/816"	"-/271"	""	""	""	"1"	NA	1	"PPAPDC1A"	"HGNC"	23531	"protein_coding"	"YES"	"CCDS41573.1"	"ENSP00000381302"	"Q5VZY2"	""	"UPI00001619F5"	"NM_001030059.1"	NA	NA	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"93c772ea-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0545454545454545	"WXS"	FALSE
"3131"	"WDR11"	55717	"mskcc.org"	"GRCh37"	"10"	122625869	122625871	"+"	"Intron"	"DEL"	"GTT"	"GTT"	"-"	"rs3217469"	NA	"JHCCPT5"	"JHCCPN5"	"GTT"	"GTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.995-209_995-207delGTT"	""	""	"ENST00000263461"	""	11	"."	3	2	"."	0	"WDR11,intron_variant,,ENST00000263461,NM_018117.11;WDR11,intron_variant,,ENST00000604585,;WDR11,downstream_gene_variant,,ENST00000462529,;WDR11,upstream_gene_variant,,ENST00000604220,;WDR11,downstream_gene_variant,,ENST00000605178,;WDR11,downstream_gene_variant,,ENST00000605069,;WDR11,intron_variant,,ENST00000497136,;WDR11,intron_variant,,ENST00000605543,;"	"-"	"ENSG00000120008"	"ENST00000263461"	"Transcript"	"intron_variant"	"-/4732"	"-/3675"	"-/1224"	""	""	"rs3217469"	"1"	NA	1	"WDR11"	"HGNC"	13831	"protein_coding"	"YES"	"CCDS7619.1"	"ENSP00000263461"	"Q9BZH6"	"S4R3Z0,Q9NWV7,Q659C9"	"UPI0000138ED1"	"NM_018117.11"	NA	NA	""	"7/28"	""	"-:0.1815"	"-:0.0242"	"-:0.2882"	NA	"-:0.3472"	"-:0.1501"	"-:0.18"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAGTTG"	"7fdca37c-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"3132"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	123139494	123139501	"+"	"IGR"	"DEL"	"ACACACAC"	"ACACACAC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"ACACACAC"	"ACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATACACACACA"	"7ff16bea-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3133"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	123206397	123206398	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs201991816"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201991816"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3133"	"A:0.3132"	"A:0.5519"	NA	"A:0.0536"	"A:0.4781"	"A:0.2423"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"93f55a0c-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3134"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	123394583	123394584	"+"	"IGR"	"INS"	"-"	"G"	"G"	"rs71022853"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	1	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71022853"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0064"	"G:0.9766"	"G:0.9986"	NA	"G:1"	"G:1"	"G:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"94019bfa-280f-11e6-bc21-fcd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3135"	"ATE1"	11101	"mskcc.org"	"GRCh37"	"10"	123658716	123658717	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs3833740"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.814-233_814-232insG"	""	""	"ENST00000369043"	""	13	"."	4	3	"."	0	"ATE1,intron_variant,,ENST00000369043,NM_007041.2,NM_001288736.1,NM_001288735.1;ATE1,intron_variant,,ENST00000535655,;ATE1,intron_variant,,ENST00000224652,NM_001001976.1;ATE1,intron_variant,,ENST00000423243,;ATE1,intron_variant,,ENST00000369040,;ATE1,intron_variant,,ENST00000540606,;ATE1,intron_variant,,ENST00000543447,;ATE1,downstream_gene_variant,,ENST00000455628,;ATE1,intron_variant,,ENST00000481784,;"	"C"	"ENSG00000107669"	"ENST00000369043"	"Transcript"	"intron_variant"	"-/4900"	"-/1557"	"-/518"	""	""	"rs3833740"	"1"	NA	-1	"ATE1"	"HGNC"	782	"protein_coding"	"YES"	"CCDS31299.1"	"ENSP00000358039"	"O95260"	"B4E107"	"UPI000002A471"	"NM_007041.2,NM_001288736.1,NM_001288735.1"	NA	NA	""	"6/11"	""	"C:0.1156"	"C:0.0401"	"C:0.1369"	NA	"C:0.1806"	"C:0.165"	"C:0.0849"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"940a8ea4-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3136"	"ATE1"	11101	"mskcc.org"	"GRCh37"	"10"	123670009	123670009	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs35171498"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.583+412delT"	""	""	"ENST00000369043"	""	6	"."	3	1	"."	0	"ATE1,intron_variant,,ENST00000369043,NM_007041.2,NM_001288736.1,NM_001288735.1;ATE1,intron_variant,,ENST00000535655,;ATE1,intron_variant,,ENST00000224652,NM_001001976.1;ATE1,intron_variant,,ENST00000423243,;ATE1,intron_variant,,ENST00000369040,;ATE1,intron_variant,,ENST00000540606,;ATE1,intron_variant,,ENST00000543447,;ATE1,intron_variant,,ENST00000455628,;"	"-"	"ENSG00000107669"	"ENST00000369043"	"Transcript"	"intron_variant"	"-/4900"	"-/1557"	"-/518"	""	""	"rs35171498"	"1"	NA	-1	"ATE1"	"HGNC"	782	"protein_coding"	"YES"	"CCDS31299.1"	"ENSP00000358039"	"O95260"	"B4E107"	"UPI000002A471"	"NM_007041.2,NM_001288736.1,NM_001288735.1"	NA	NA	""	"5/11"	""	"-:0.2780"	"-:0.0635"	"-:0.3573"	NA	"-:0.3016"	"-:0.3211"	"-:0.4427"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"8005c02c-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3137"	"NSMCE4A"	54780	"mskcc.org"	"GRCh37"	"10"	123731021	123731022	"+"	"Intron"	"INS"	"-"	"-"	"AAAACA"	"rs141704212"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.371-443_371-438dupTGTTTT"	""	""	"ENST00000369023"	""	8	"."	3	2	"."	0	"NSMCE4A,intron_variant,,ENST00000538652,;NSMCE4A,intron_variant,,ENST00000369023,NM_001167865.1,NM_017615.2;NSMCE4A,intron_variant,,ENST00000369017,;NSMCE4A,intron_variant,,ENST00000489266,;NSMCE4A,intron_variant,,ENST00000468209,;NSMCE4A,intron_variant,,ENST00000464321,;NSMCE4A,intron_variant,,ENST00000472431,;NSMCE4A,intron_variant,,ENST00000465189,;NSMCE4A,intron_variant,,ENST00000481320,;"	"AAAACA"	"ENSG00000107672"	"ENST00000369023"	"Transcript"	"intron_variant"	"-/1394"	"-/1158"	"-/385"	""	""	"rs141704212"	"1"	NA	-1	"NSMCE4A"	"HGNC"	25935	"protein_coding"	"YES"	"CCDS7624.1"	"ENSP00000358019"	"Q9NXX6"	""	"UPI000013D40C"	"NM_001167865.1,NM_017615.2"	NA	NA	""	"2/10"	""	"AAAACA:0.1352"	"AAAACA:0.1271"	"AAAACA:0.1427"	NA	"AAAACA:0.1597"	"AAAACA:0.166"	"AAAACA:0.0838"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"941eddaa-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3138"	"DMBT1"	1755	"mskcc.org"	"GRCh37"	"10"	124319864	124319865	"+"	"5'Flank"	"INS"	"-"	"-"	"AA"	"rs5788566"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000368909"	""	13	"."	6	5	"."	0	"DMBT1,upstream_gene_variant,,ENST00000338354,;DMBT1,upstream_gene_variant,,ENST00000368909,NM_007329.2;DMBT1,upstream_gene_variant,,ENST00000344338,;DMBT1,upstream_gene_variant,,ENST00000368955,NM_017579.2;DMBT1,upstream_gene_variant,,ENST00000330163,;DMBT1,upstream_gene_variant,,ENST00000368956,NM_004406.2;DMBT1,upstream_gene_variant,,ENST00000359586,;"	"AA"	"ENSG00000187908"	"ENST00000368909"	"Transcript"	"upstream_gene_variant"	"-/7686"	"-/7242"	"-/2413"	""	""	"rs5788566"	"1"	"316"	1	"DMBT1"	"HGNC"	2926	"protein_coding"	"YES"	"CCDS44490.1"	"ENSP00000357905"	"Q9UGM3"	"B6V682"	"UPI000047021C"	"NM_007329.2"	NA	NA	""	""	""	"-:0.3009"	"AA:0.5756"	"AA:0.7824"	NA	"AA:0.752"	"AA:0.6819"	"AA:0.7699"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"942ef6fe-280f-11e6-bc21-fcd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"3139"	"RP11-282I1.1"	0	"mskcc.org"	"GRCh37"	"10"	125271933	125271934	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11455140"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.747-5206dupA"	""	""	"ENST00000448347"	""	6	"."	4	3	"."	0	"RP11-282I1.1,intron_variant,,ENST00000448347,;"	"A"	"ENSG00000230131"	"ENST00000448347"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/831"	""	""	""	""	"rs11455140"	"1"	NA	1	"RP11-282I1.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/4"	""	"-:0.0397"	"A:0.9546"	"A:0.9597"	NA	"A:0.999"	"A:0.9175"	"A:0.9724"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"946da930-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3140"	"CTBP2"	1488	"mskcc.org"	"GRCh37"	"10"	126730074	126730078	"+"	"Intron"	"DEL"	"CCCCC"	"CCCCC"	"-"	"rs199971426"	NA	"JHCCPT5"	"JHCCPN5"	"CCCCC"	"CCCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-101-2354_-101-2350delGGGGG"	""	""	"ENST00000337195"	""	20	"."	4	6	"."	0	"CTBP2,intron_variant,,ENST00000337195,NM_001329.2;CTBP2,intron_variant,,ENST00000411419,NM_001083914.1;CTBP2,intron_variant,,ENST00000494626,;CTBP2,intron_variant,,ENST00000531469,;CTBP2,intron_variant,,ENST00000530884,;CTBP2,intron_variant,,ENST00000476817,;CTBP2,intron_variant,,ENST00000460976,;"	"-"	"ENSG00000175029"	"ENST00000337195"	"Transcript"	"intron_variant"	"-/3404"	"-/1338"	"-/445"	""	""	"rs199971426"	"1"	NA	-1	"CTBP2"	"HGNC"	2495	"protein_coding"	""	"CCDS7643.1"	"ENSP00000338615"	"P56545"	""	"UPI0000128639"	"NM_001329.2"	NA	NA	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACCCCCC"	"80e7a230-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"3141"	"TEX36"	387718	"mskcc.org"	"GRCh37"	"10"	127277162	127277169	"+"	"Intron"	"DEL"	"GTTTGTTT"	"GTTTGTTT"	"-"	"rs138930304"	NA	"JHCCPT5"	"JHCCPN5"	"GTTTGTTT"	"GTTTGTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.265-11726_265-11719delAAACAAAC"	""	""	"ENST00000532135"	""	9	"."	4	3	"."	0	"TEX36,intron_variant,,ENST00000532135,;"	"-"	"ENSG00000175018"	"ENST00000532135"	"Transcript"	"intron_variant"	"-/734"	"-/390"	"-/129"	""	""	"rs138930304"	"1"	NA	-1	"TEX36"	"HGNC"	31653	"protein_coding"	""	""	"ENSP00000431764"	""	"E9PJL2"	"UPI00001F8954"	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGTTTGTTTG"	"80f1b694-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3142"	"FANK1"	92565	"mskcc.org"	"GRCh37"	"10"	127584491	127584491	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000368693"	""	9	"."	3	11	"."	0	"DHX32,intron_variant,,ENST00000415732,;FANK1,upstream_gene_variant,,ENST00000368695,NM_145235.3;FANK1,upstream_gene_variant,,ENST00000368693,;FANK1,upstream_gene_variant,,ENST00000449042,;"	"-"	"ENSG00000203780"	"ENST00000368693"	"Transcript"	"upstream_gene_variant"	"-/1294"	"-/1038"	"-/345"	""	""	""	"1"	"617"	1	"FANK1"	"HGNC"	23527	"protein_coding"	"YES"	"CCDS31309.1"	"ENSP00000357682"	"Q8TC84"	"C9JD80,A6NH44"	"UPI000046FFD6"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAG"	"8116f562-280f-11e6-bc21-fcd3414a729f"	"151"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3143"	"DOCK1"	1793	"mskcc.org"	"GRCh37"	"10"	128595709	128595709	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs71032528"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.46+1580delG"	""	""	"ENST00000280333"	""	6	"."	4	2	"."	0	"DOCK1,intron_variant,,ENST00000280333,NM_001380.3;"	"-"	"ENSG00000150760"	"ENST00000280333"	"Transcript"	"intron_variant"	"-/6797"	"-/5598"	"-/1865"	""	""	"rs71032528"	"1"	NA	1	"DOCK1"	"HGNC"	2987	"protein_coding"	"YES"	""	"ENSP00000280333"	"Q14185"	""	"UPI0000246CA1"	"NM_001380.3"	NA	NA	""	"1/51"	""	"G:0.0082"	"-:0.9697"	"-:0.9986"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCGG"	"815d953a-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3144"	"FOXI2"	399823	"mskcc.org"	"GRCh37"	"10"	129534316	129534320	"+"	"5'Flank"	"DEL"	"GCTTC"	"T"	"T"	"rs386748855"	NA	"JHCCPT5"	"JHCCPN5"	"GCTTC"	"GCTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000388920"	""	7	"."	6	1	"."	0	"FOXI2,upstream_gene_variant,,ENST00000388920,NM_207426.2;AL391005.1,downstream_gene_variant,,ENST00000341742,;"	"T"	"ENSG00000186766"	"ENST00000388920"	"Transcript"	"upstream_gene_variant"	"-/3217"	"-/957"	"-/318"	""	""	"rs386748855"	"1"	"1179"	1	"FOXI2"	"HGNC"	32448	"protein_coding"	"YES"	"CCDS7655.2"	"ENSP00000373572"	"Q6ZQN5"	"C4IXT1"	"UPI0000253B9D"	"NM_207426.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGCTTCC"	"83dedb16-280f-11e6-bc21-fcd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"3145"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	131798983	131798984	"+"	"IGR"	"INS"	"-"	"-"	"AG"	"rs373882241"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	3	2	"."	0	""	"AG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs373882241"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"95285776-280f-11e6-bc21-fcd3414a729f"	"152"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"3146"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	132486644	132486644	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs56866871"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs56866871"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2548"	"-:0.1899"	"-:0.3271"	NA	"-:0.0843"	"-:0.4334"	"-:0.2832"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"820e3a3e-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3147"	"TCERG1L"	256536	"mskcc.org"	"GRCh37"	"10"	132975111	132975116	"+"	"Intron"	"DEL"	"AGGAAC"	"AGGAAC"	"-"	"rs201139843"	NA	"JHCCPT5"	"JHCCPN5"	"AGGAAC"	"AGGAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.857-9968_857-9963delGTTCCT"	""	""	"ENST00000368642"	""	10	"."	3	1	"."	0	"TCERG1L,intron_variant,,ENST00000368642,NM_174937.3;TCERG1L,intron_variant,,ENST00000483040,;"	"-"	"ENSG00000176769"	"ENST00000368642"	"Transcript"	"intron_variant"	"-/2618"	"-/1761"	"-/586"	""	""	"rs201139843"	"1"	NA	-1	"TCERG1L"	"HGNC"	23533	"protein_coding"	"YES"	"CCDS7662.2"	"ENSP00000357631"	"Q5VWI1"	""	"UPI00004589C8"	"NM_174937.3"	NA	NA	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGGAACA"	"821f602a-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3148"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	133535247	133535248	"+"	"IGR"	"INS"	"-"	"C"	"C"	"rs11395575"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11395575"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2420"	"C:0.5877"	"C:0.8256"	NA	"C:0.881"	"C:0.7048"	"C:0.8681"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"954cfaae-280f-11e6-bc21-fcd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3149"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	133590749	133590750	"+"	"IGR"	"INS"	"-"	"-"	"CGTGTGTGTGCATGCGTGTGTGTATGCATGTGCGTGTGTGTGAATGCA"	"rs748015115"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	3	"."	0	""	"CGTGTGTGTGCATGCGTGTGTGTATGCATGTGCGTGTGTGTGAATGCA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs748015115"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"9551e1fe-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3150"	"DPYSL4"	10570	"mskcc.org"	"GRCh37"	"10"	134000839	134000863	"+"	"Intron"	"DEL"	"GGCCCGGCCCTGCCCGGCCCTGCCG"	"GGCCCGGCCCTGCCCGGCCCTGCCG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GGCCCGGCCCTGCCCGGCCCTGCCG"	"GGCCCGGCCCTGCCCGGCCCTGCCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.39+238_39+262delGGCCCTGCCCGGCCCTGCCGGGCCC"	""	""	"ENST00000338492"	""	13	"."	5	8	"."	0	"DPYSL4,intron_variant,,ENST00000338492,NM_006426.2;DPYSL4,intron_variant,,ENST00000368629,;JAKMIP3,downstream_gene_variant,,ENST00000298622,NM_001105521.2;RP11-140A10.3,upstream_gene_variant,,ENST00000414106,;RP11-140A10.3,upstream_gene_variant,,ENST00000443922,;DPYSL4,intron_variant,,ENST00000493882,;DPYSL4,intron_variant,,ENST00000493927,;JAKMIP3,downstream_gene_variant,,ENST00000477275,;"	"-"	"ENSG00000151640"	"ENST00000338492"	"Transcript"	"intron_variant"	"-/2729"	"-/1719"	"-/572"	""	""	""	"1"	NA	1	"DPYSL4"	"HGNC"	3016	"protein_coding"	"YES"	"CCDS7665.1"	"ENSP00000339850"	"O14531"	"D3DRG7"	"UPI000013DC70"	"NM_006426.2"	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGGCCCGGCCCTGCCCGGCCCTGCCGG"	"82590938-280f-11e6-bc21-fcd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"3151"	"PWWP2B"	170394	"mskcc.org"	"GRCh37"	"10"	134217366	134217367	"+"	"Intron"	"INS"	"-"	"-"	"GTGGGCAGGGAGGACCTTCCAGGGTGT"	"rs149647663"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.126-756_126-755insGGAGGACCTTCCAGGGTGTGTGGGCAG"	""	""	"ENST00000305233"	""	8	"."	3	2	"."	0	"PWWP2B,intron_variant,,ENST00000305233,NM_138499.3;PWWP2B,intron_variant,,ENST00000368609,NM_001098637.1;"	"GTGGGCAGGGAGGACCTTCCAGGGTGT"	"ENSG00000171813"	"ENST00000305233"	"Transcript"	"intron_variant"	"-/2651"	"-/1773"	"-/590"	""	""	"rs149647663"	"1"	NA	1	"PWWP2B"	"HGNC"	25150	"protein_coding"	"YES"	"CCDS7667.2"	"ENSP00000306324"	"Q6NUJ5"	""	"UPI00001D7FE3"	"NM_138499.3"	NA	NA	""	"1/2"	""	"GTGGGCAGGGAGGACCTTCCAGGTTGT:0.0016"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"9586031c-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3152"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	134241322	134241323	"+"	"IGR"	"INS"	"-"	"-"	"ATCACCATCATCATAACACAATCACCATT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	1	"."	0	""	"ATCACCATCATCATAACACAATCACCATT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"958c1dc4-280f-11e6-bc21-fcd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3153"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	134608631	134608632	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs34911688"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	6	3	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34911688"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0915"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"95984130-280f-11e6-bc21-fcd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"3154"	"ECHS1"	1892	"mskcc.org"	"GRCh37"	"10"	135187097	135187102	"+"	"5'UTR"	"DEL"	"CGCCCC"	"CGCCCC"	"-"	"rs376187127"	NA	"JHCCPT5"	"JHCCPN5"	"CGCCCC"	"CGCCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-265_-260delGGGGCG"	""	""	"ENST00000368547"	"1/8"	21	"."	6	3	"."	0	"ECHS1,5_prime_UTR_variant,,ENST00000368547,NM_004092.3;MIR3944,upstream_gene_variant,,ENST00000581277,;"	"-"	"ENSG00000127884"	"ENST00000368547"	"Transcript"	"5_prime_UTR_variant"	"92-97/1617"	"-/873"	"-/290"	""	""	"rs376187127"	"1"	NA	-1	"ECHS1"	"HGNC"	3151	"protein_coding"	"YES"	"CCDS7681.1"	"ENSP00000357535"	"P30084"	""	"UPI000013CC49"	"NM_004092.3"	NA	NA	"1/8"	""	""	"-:0.1450"	"-:0.4266"	"-:0.0706"	NA	"-:0.0089"	"-:0.0467"	"-:0.0583"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGCGCCCCC"	"8303e088-280f-11e6-bc21-fcd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3155"	"SPRN"	503542	"mskcc.org"	"GRCh37"	"10"	135347875	135347876	"+"	"Intron"	"INS"	"-"	"-"	"GTC"	"rs11368724"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17+34900_-17+34901insGAC"	""	""	"ENST00000541506"	""	6	"."	3	2	"."	0	"SPRN,intron_variant,,ENST00000541506,;CYP2E1,intron_variant,,ENST00000463117,;CYP2E1,intron_variant,,ENST00000252945,NM_000773.3;CYP2E1,intron_variant,,ENST00000421586,;CYP2E1,intron_variant,,ENST00000418356,;CYP2E1,downstream_gene_variant,,ENST00000480558,;CYP2E1,upstream_gene_variant,,ENST00000469258,;CYP2E1,downstream_gene_variant,,ENST00000477500,;CYP2E1,intron_variant,,ENST00000368520,;CYP2E1,intron_variant,,ENST00000541080,;"	"GTC"	"ENSG00000203772"	"ENST00000541506"	"Transcript"	"intron_variant"	"-/3172"	"-/456"	"-/151"	""	""	"rs11368724"	"1"	NA	-1	"SPRN"	"HGNC"	16871	"protein_coding"	"YES"	"CCDS53589.1"	"ENSP00000443979"	"Q5BIV9"	""	"UPI0000251EE8"	""	NA	NA	""	"1/1"	""	"-:0.0302"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"96234834-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3156"	"SPRN"	503542	"mskcc.org"	"GRCh37"	"10"	135351622	135351623	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs55734930"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17+31153dupA"	""	""	"ENST00000541506"	""	12	"."	3	7	"."	0	"SPRN,intron_variant,,ENST00000541506,;CYP2E1,intron_variant,,ENST00000463117,;CYP2E1,intron_variant,,ENST00000252945,NM_000773.3;CYP2E1,intron_variant,,ENST00000421586,;CYP2E1,intron_variant,,ENST00000418356,;CYP2E1,intron_variant,,ENST00000469258,;CYP2E1,intron_variant,,ENST00000368520,;CYP2E1,intron_variant,,ENST00000541080,;"	"T"	"ENSG00000203772"	"ENST00000541506"	"Transcript"	"intron_variant"	"-/3172"	"-/456"	"-/151"	""	""	"rs55734930"	"1"	NA	-1	"SPRN"	"HGNC"	16871	"protein_coding"	"YES"	"CCDS53589.1"	"ENSP00000443979"	"Q5BIV9"	""	"UPI0000251EE8"	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"9627a5be-280f-11e6-bc21-fcd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3157"	"ATHL1"	80162	"mskcc.org"	"GRCh37"	"11"	291710	291711	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs34140225"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.907-265dupG"	""	""	"ENST00000409548"	""	15	"."	4	5	"."	0	"ATHL1,intron_variant,,ENST00000409548,NM_025092.4;ATHL1,intron_variant,,ENST00000409479,;ATHL1,intron_variant,,ENST00000409655,;ATHL1,upstream_gene_variant,,ENST00000397660,;RP11-326C3.2,downstream_gene_variant,,ENST00000534742,;RP11-326C3.2,downstream_gene_variant,,ENST00000525217,;RP11-326C3.2,downstream_gene_variant,,ENST00000533924,;ATHL1,non_coding_transcript_exon_variant,,ENST00000474221,;ATHL1,non_coding_transcript_exon_variant,,ENST00000476372,;ATHL1,intron_variant,,ENST00000482937,;ATHL1,downstream_gene_variant,,ENST00000529087,;"	"G"	"ENSG00000142102"	"ENST00000409548"	"Transcript"	"intron_variant"	"-/3687"	"-/2214"	"-/737"	""	""	"rs34140225"	"1"	NA	1	"ATHL1"	"HGNC"	26210	"protein_coding"	"YES"	"CCDS31322.2"	"ENSP00000387185"	"Q32M88"	""	"UPI0000EE80CE"	"NM_025092.4"	NA	NA	""	"4/13"	""	"G:0.1573"	"G:0.0673"	"G:0.255"	NA	"G:0.0159"	"G:0.3797"	"G:0.1268"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"8d235a44-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"3158"	"POLR2L"	5441	"mskcc.org"	"GRCh37"	"11"	842099	842100	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs10678550"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.95+313_95+314dupTT"	""	""	"ENST00000322028"	""	12	"."	4	2	"."	0	"POLR2L,intron_variant,,ENST00000322028,NM_021128.4;CD151,downstream_gene_variant,,ENST00000397420,;CD151,downstream_gene_variant,,ENST00000322008,NM_004357.4,NM_139029.1;CD151,downstream_gene_variant,,ENST00000397421,NM_139030.3,NM_001039490.1;TSPAN4,upstream_gene_variant,,ENST00000397404,NM_001025237.1;TSPAN4,upstream_gene_variant,,ENST00000397408,NM_001025236.1,NM_001025235.1;TSPAN4,upstream_gene_variant,,ENST00000397406,NM_001025234.1;TSPAN4,upstream_gene_variant,,ENST00000397397,NM_003271.4;CD151,downstream_gene_variant,,ENST00000528011,;TSPAN4,upstream_gene_variant,,ENST00000397396,NM_001025239.1;TSPAN4,upstream_gene_variant,,ENST00000409543,;TSPAN4,upstream_gene_variant,,ENST00000397411,NM_001025238.1;TSPAN4,upstream_gene_variant,,ENST00000525334,;TSPAN4,upstream_gene_variant,,ENST00000525201,;TSPAN4,upstream_gene_variant,,ENST00000530404,;CD151,downstream_gene_variant,,ENST00000527341,;CD151,downstream_gene_variant,,ENST00000524748,;CD151,downstream_gene_variant,,ENST00000526693,;CD151,downstream_gene_variant,,ENST00000530320,;CD151,downstream_gene_variant,,ENST00000529810,;CD151,downstream_gene_variant,,ENST00000525181,;POLR2L,intron_variant,,ENST00000534030,;CD151,downstream_gene_variant,,ENST00000532045,;CD151,downstream_gene_variant,,ENST00000530726,;CD151,downstream_gene_variant,,ENST00000532075,;"	"AA"	"ENSG00000177700"	"ENST00000322028"	"Transcript"	"intron_variant"	"-/892"	"-/204"	"-/67"	""	""	"rs10678550"	"1"	NA	-1	"POLR2L"	"HGNC"	9199	"protein_coding"	"YES"	"CCDS7720.1"	"ENSP00000324124"	"P62875"	""	"UPI0000025AD1"	"NM_021128.4"	NA	NA	""	"1/1"	""	"AA:0.3594"	"AA:0.4213"	"AA:0.2089"	NA	"AA:0.2073"	"AA:0.34"	"AA:0.5593"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"8e026ee6-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3159"	"TSPAN4"	7106	"mskcc.org"	"GRCh37"	"11"	854731	854731	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs35948791"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.63+4368delG"	""	""	"ENST00000397404"	""	9	"."	5	3	"."	0	"TSPAN4,intron_variant,,ENST00000397404,NM_001025237.1;TSPAN4,intron_variant,,ENST00000397408,NM_001025236.1,NM_001025235.1;TSPAN4,intron_variant,,ENST00000397406,NM_001025234.1;TSPAN4,intron_variant,,ENST00000397397,NM_003271.4;TSPAN4,intron_variant,,ENST00000409531,;TSPAN4,intron_variant,,ENST00000397396,NM_001025239.1;TSPAN4,intron_variant,,ENST00000409543,;TSPAN4,intron_variant,,ENST00000397411,NM_001025238.1;TSPAN4,intron_variant,,ENST00000527644,;TSPAN4,intron_variant,,ENST00000346501,;TSPAN4,intron_variant,,ENST00000525334,;TSPAN4,intron_variant,,ENST00000525201,;TSPAN4,intron_variant,,ENST00000530404,;TSPAN4,intron_variant,,ENST00000532375,;RP11-1391J7.1,downstream_gene_variant,,ENST00000506172,;TSPAN4,intron_variant,,ENST00000464987,;TSPAN4,intron_variant,,ENST00000526055,;TSPAN4,intron_variant,,ENST00000524895,;"	"-"	"ENSG00000214063"	"ENST00000397404"	"Transcript"	"intron_variant"	"-/1462"	"-/717"	"-/238"	""	""	"rs35948791"	"1"	NA	1	"TSPAN4"	"HGNC"	11859	"protein_coding"	"YES"	"CCDS7721.1"	"ENSP00000380553"	"O14817"	"E9PSH3,E9PPX8,E9PMX4,A8MVV6"	"UPI000013683F"	"NM_001025237.1"	NA	NA	""	"3/8"	""	"G:0.0096"	"-:0.9652"	"-:0.9971"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGG"	"65d5f906-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3160"	"AP2A2"	161	"mskcc.org"	"GRCh37"	"11"	953551	953552	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs35341117"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.68-5886_68-5885insA"	""	""	"ENST00000448903"	""	9	"."	3	3	"."	0	"AP2A2,intron_variant,,ENST00000448903,NM_012305.3,NM_001242837.1;AP2A2,intron_variant,,ENST00000332231,;AP2A2,intron_variant,,ENST00000534328,;AP2A2,intron_variant,,ENST00000524559,;AP2A2,intron_variant,,ENST00000530801,;AP2A2,intron_variant,,ENST00000534485,;AP2A2,intron_variant,,ENST00000531548,;AP2A2,intron_variant,,ENST00000525796,;AP2A2,intron_variant,,ENST00000527024,;AP2A2,intron_variant,,ENST00000526753,;AP006477.1,upstream_gene_variant,,ENST00000584406,;AP2A2,intron_variant,,ENST00000528195,;AP2A2,intron_variant,,ENST00000529858,;AP2A2,intron_variant,,ENST00000529818,;AP2A2,intron_variant,,ENST00000528815,;"	"A"	"ENSG00000183020"	"ENST00000448903"	"Transcript"	"intron_variant"	"-/4575"	"-/2820"	"-/939"	""	""	"rs35341117"	"1"	NA	1	"AP2A2"	"HGNC"	562	"protein_coding"	"YES"	"CCDS44512.1"	"ENSP00000413234"	"O94973"	"Q9UFK5,E9PS94,E9PQP4,E9PPZ3,E9PNC4"	"UPI0000124FF5"	"NM_012305.3,NM_001242837.1"	NA	NA	""	"1/21"	""	"A:0.4253"	"A:0.3585"	"A:0.6916"	NA	"A:0.2897"	"A:0.6024"	"A:0.2843"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"8e12725a-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3161"	"MUC5AC"	4586	"mskcc.org"	"GRCh37"	"11"	1213047	1213092	"+"	"RNA"	"DEL"	"TAGCACAACCTCTGGTCCTGGAACTACTCCCAGCCCTGTTCCCACC"	"TAGCACAACCTCTGGTCCTGGAACTACTCCCAGCCCTGTTCCCACC"	"CAGCACAATCTCTCCCCTTACA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TAGCACAACCTCTGGTCCTGGAACTACTCCCAGCCCTGTTCCCACC"	"TAGCACAACCTCTGGTCCTGGAACTACTCCCAGCCCTGTTCCCACC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.288_333delTAGCACAACCTCTGGTCCTGGAACTACTCCCAGCCCTGTTCCCACCinsCAGCACAATCTCTCCCCTTACA"	""	""	"ENST00000358378"	"1/19"	91	"."	3	46	"."	0	"MUC5AC,non_coding_transcript_exon_variant,,ENST00000358378,;"	"CAGCACAATCTCTCCCCTTACA"	"ENSG00000215182"	"ENST00000358378"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"288-333/4012"	""	""	""	""	""	"1"	NA	1	"MUC5AC"	"HGNC"	7515	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	"1/19"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTAGCACAACCTCTGGTCCTGGAACTACTCCCAGCCCTGTTCCCACCA"	"8bdfae76-280f-11e6-891b-fbd3414a729f"	"17"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.032967032967033	"WXS"	FALSE
"3162"	"KRTAP5-3"	387266	"mskcc.org"	"GRCh37"	"11"	1630074	1630075	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs202117408"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000399685"	""	20	"."	3	2	"."	0	"KRTAP5-3,upstream_gene_variant,,ENST00000399685,NM_001012708.2;"	"A"	"ENSG00000196224"	"ENST00000399685"	"Transcript"	"upstream_gene_variant"	"-/899"	"-/717"	"-/238"	""	""	"rs202117408"	"1"	"381"	-1	"KRTAP5-3"	"HGNC"	23598	"protein_coding"	"YES"	"CCDS41591.1"	"ENSP00000382592"	"Q6L8H2"	""	"UPI000037605E"	"NM_001012708.2"	NA	NA	""	""	""	"A:0.0457"	"A:0.0386"	"A:0.0461"	NA	"A:0.0129"	"A:0.0517"	"A:0.0828"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"8eb647cc-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"3163"	"INS-IGF2"	723961	"mskcc.org"	"GRCh37"	"11"	2171460	2171460	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs61690641"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.188-885delG"	""	""	"ENST00000397270"	""	6	"."	3	2	"."	0	"INS-IGF2,intron_variant,,ENST00000397270,NM_001042376.2;IGF2,upstream_gene_variant,,ENST00000300632,NM_001007139.4;IGF2-AS,downstream_gene_variant,,ENST00000381361,;IGF2-AS,downstream_gene_variant,,ENST00000445504,;IGF2-AS,downstream_gene_variant,,ENST00000381363,;INS-IGF2,intron_variant,,ENST00000481781,;INS-IGF2,intron_variant,,ENST00000356578,;INS-IGF2,intron_variant,,ENST00000476874,;"	"-"	"ENSG00000129965"	"ENST00000397270"	"Transcript"	"intron_variant"	"-/828"	"-/603"	"-/200"	""	""	"rs61690641"	"1"	NA	-1	"INS-IGF2"	"HGNC"	33527	"protein_coding"	"YES"	"CCDS41598.1"	"ENSP00000380440"	"F8WCM5"	""	"UPI00001F9AED"	"NM_001042376.2"	NA	NA	""	"2/4"	""	"-:0.2640"	"-:0.0832"	"-:0.1326"	NA	"-:0.4901"	"-:0.2296"	"-:0.4039"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTCC"	"66fa40bc-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3164"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	3224529	3224530	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs34487974"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	6	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34487974"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4237"	"C:0.6195"	"C:0.7003"	NA	"C:0.4137"	"C:0.6451"	"C:0.5266"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"8f47fcbc-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3165"	"STIM1"	6786	"mskcc.org"	"GRCh37"	"11"	4042364	4042366	"+"	"Intron"	"DEL"	"TGG"	"TGG"	"-"	"rs147819151"	NA	"JHCCPT5"	"JHCCPN5"	"TGG"	"TGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.271-2720_271-2718delGGT"	""	""	"ENST00000300737"	""	20	"."	3	2	"."	0	"STIM1,intron_variant,,ENST00000300737,NM_003156.3,NM_001277961.1,NM_001277962.1;STIM1,intron_variant,,ENST00000527651,;STIM1,intron_variant,,ENST00000532990,;STIM1,intron_variant,,ENST00000525403,;STIM1,intron_variant,,ENST00000525055,;STIM1,intron_variant,,ENST00000528656,;STIM1,intron_variant,,ENST00000532919,;STIM1,intron_variant,,ENST00000530554,;STIM1,intron_variant,,ENST00000532610,;STIM1,intron_variant,,ENST00000524822,;STIM1,intron_variant,,ENST00000527484,;STIM1,intron_variant,,ENST00000526771,;RPS29P20,downstream_gene_variant,,ENST00000489592,;"	"-"	"ENSG00000167323"	"ENST00000300737"	"Transcript"	"intron_variant"	"-/4038"	"-/2058"	"-/685"	""	""	"rs147819151"	"1"	NA	1	"STIM1"	"HGNC"	11386	"protein_coding"	"YES"	"CCDS7749.1"	"ENSP00000300737"	"Q13586"	"E9PRZ7,E9PRE4,E9PR09,E9PR07,E9PNJ4,E9PMB4,E9PJ19,E9PIQ8"	"UPI00000724B7"	"NM_003156.3,NM_001277961.1,NM_001277962.1"	NA	NA	""	"2/11"	""	"-:0.3870"	"-:0.0983"	"-:0.4856"	NA	"-:0.4365"	"-:0.5666"	"-:0.4714"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"19"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TATGGT"	"67a21990-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"3166"	"HBG2"	3048	"mskcc.org"	"GRCh37"	"11"	5423083	5423085	"+"	"Intron"	"DEL"	"CTG"	"CTG"	"-"	"rs150422972"	NA	"JHCCPT5"	"JHCCPN5"	"CTG"	"CTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-564-55956_-564-55954delCAG"	""	""	"ENST00000380259"	""	15	"."	4	7	"."	0	"HBG2,intron_variant,,ENST00000380259,;HBE1,intron_variant,,ENST00000380237,;HBG2,intron_variant,,ENST00000380252,;HBE1,intron_variant,,ENST00000396895,;OR51J1,upstream_gene_variant,,ENST00000332043,;AC104389.28,intron_variant,,ENST00000415970,;AC104389.28,intron_variant,,ENST00000418729,;AC104389.28,intron_variant,,ENST00000420465,;AC104389.28,intron_variant,,ENST00000420726,;"	"-"	"ENSG00000196565"	"ENST00000380259"	"Transcript"	"intron_variant"	"-/1772"	"-/444"	"-/147"	""	""	"rs150422972"	"1"	NA	-1	"HBG2"	"HGNC"	4832	"protein_coding"	"YES"	"CCDS7755.1"	"ENSP00000369609"	"P69892"	"Q9UNL6,Q9UJ01,Q14476,Q14474,Q14402,D9YZU9,A1EGU3"	"UPI00000012DA"	""	NA	NA	""	"4/7"	""	"CTG:0.3433"	"-:0.4924"	"-:0.7882"	NA	"-:0.4673"	"-:0.8628"	"-:0.7689"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTCTGC"	"6853541c-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"3167"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	6117443	6117459	"+"	"IGR"	"DEL"	"CCCCACTGGCTTTGCCT"	"CCCCACTGGCTTTGCCT"	"-"	"rs141169884"	NA	"JHCCPT5"	"JHCCPN5"	"CCCCACTGGCTTTGCCT"	"CCCCACTGGCTTTGCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141169884"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2772"	"-:0.0567"	"-:0.3184"	NA	"-:0.4623"	"-:0.2604"	"-:0.3722"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCCCCACTGGCTTTGCCTC"	"68c49960-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3168"	"NLRP14"	338323	"mskcc.org"	"GRCh37"	"11"	7060589	7060590	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs10533835"	NA	"JHCCPT5"	"JHCCPN5"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.290-345_290-344delAT"	""	""	"ENST00000299481"	""	11	"."	6	1	"."	0	"NLRP14,intron_variant,,ENST00000299481,NM_176822.3;"	"-"	"ENSG00000158077"	"ENST00000299481"	"Transcript"	"intron_variant"	"-/3628"	"-/3282"	"-/1093"	""	""	"rs10533835"	"1"	NA	1	"NLRP14"	"HGNC"	22939	"protein_coding"	"YES"	"CCDS7776.1"	"ENSP00000299481"	"Q86W24"	""	"UPI0000167F6E"	"NM_176822.3"	NA	NA	""	"2/11"	""	"TA:0.3180"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"11"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTAT"	"6986c0e4-280f-11e6-891b-fbd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"3169"	"IPO7"	10527	"mskcc.org"	"GRCh37"	"11"	9459592	9459606	"+"	"Intron"	"DEL"	"GTTTTTTTTTTTTTT"	"GTTTTTTTTTTTTTT"	"-"	"rs778959295"	NA	"JHCCPT5"	"JHCCPN5"	"GTTTTTTTTTTTTTT"	"GTTTTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2490-35_2490-21delGTTTTTTTTTTTTTT"	""	""	"ENST00000379719"	""	336	"."	3	160	"."	0	"IPO7,intron_variant,,ENST00000379719,NM_006391.2;CTD-2371O3.2,upstream_gene_variant,,ENST00000531111,;"	"-"	"ENSG00000205339"	"ENST00000379719"	"Transcript"	"intron_variant"	"-/6191"	"-/3117"	"-/1038"	""	""	"rs778959295"	"1"	NA	1	"IPO7"	"HGNC"	9852	"protein_coding"	"YES"	"CCDS31425.1"	"ENSP00000369042"	"O95373"	"E9PLB2,B3KQG6,B3KNG9"	"UPI0000072C06"	"NM_006391.2"	NA	NA	""	"21/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGTTTTTTTTTTTTTTT"	"6adbc142-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.00892857142857143	"WXS"	FALSE
"3170"	"EIF4G2"	1982	"mskcc.org"	"GRCh37"	"11"	10820680	10820681	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2537-21_2537-20delCT"	""	""	"ENST00000526148"	""	264	"."	3	65	"."	0	"EIF4G2,intron_variant,,ENST00000526148,NM_001172705.1;EIF4G2,intron_variant,,ENST00000339995,NM_001418.3;EIF4G2,intron_variant,,ENST00000525681,;EIF4G2,intron_variant,,ENST00000396525,NM_001042559.2;EIF4G2,intron_variant,,ENST00000528839,;EIF4G2,downstream_gene_variant,,ENST00000531416,;EIF4G2,downstream_gene_variant,,ENST00000524932,;EIF4G2,downstream_gene_variant,,ENST00000532082,;EIF4G2,downstream_gene_variant,,ENST00000531180,;SNORD97,downstream_gene_variant,,ENST00000459187,NR_004403.1;RP11-685M7.5,intron_variant,,ENST00000532365,;EIF4G2,intron_variant,,ENST00000534272,;EIF4G2,intron_variant,,ENST00000532120,;EIF4G2,intron_variant,,ENST00000532383,;EIF4G2,intron_variant,,ENST00000525606,;EIF4G2,intron_variant,,ENST00000534470,;EIF4G2,downstream_gene_variant,,ENST00000530564,;EIF4G2,downstream_gene_variant,,ENST00000527015,;EIF4G2,downstream_gene_variant,,ENST00000531647,;EIF4G2,downstream_gene_variant,,ENST00000532349,;"	"-"	"ENSG00000110321"	"ENST00000526148"	"Transcript"	"intron_variant"	"-/4001"	"-/2724"	"-/907"	""	""	""	"1"	NA	-1	"EIF4G2"	"HGNC"	3297	"protein_coding"	"YES"	"CCDS31428.1"	"ENSP00000433664"	""	"Q59G42,Q2TU89,H0YEN8,H0YEC5,H0YDC0,H0YD99,H0YD77,H0YCF8,D3DQV9,B4DZF2"	"UPI000013C8BE"	"NM_001172705.1"	NA	NA	""	"20/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"6b8881c0-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0113636363636364	"WXS"	FALSE
"3171"	"TEAD1"	7003	"mskcc.org"	"GRCh37"	"11"	12873142	12873143	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs56012313"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.203-10653dupC"	""	""	"ENST00000361985"	""	6	"."	4	1	"."	0	"TEAD1,intron_variant,,ENST00000361905,NM_021961.5;TEAD1,intron_variant,,ENST00000361985,;TEAD1,intron_variant,,ENST00000334310,;TEAD1,intron_variant,,ENST00000527575,;TEAD1,intron_variant,,ENST00000527636,;RP11-47J17.1,downstream_gene_variant,,ENST00000528792,;TEAD1,intron_variant,,ENST00000525312,;"	"C"	"ENSG00000187079"	"ENST00000361985"	"Transcript"	"intron_variant"	"-/8156"	"-/1281"	"-/426"	""	""	"rs56012313"	"1"	NA	1	"TEAD1"	"HGNC"	11714	"protein_coding"	"YES"	"CCDS7810.2"	"ENSP00000354588"	""	"H0YE88,H0YCZ6"	"UPI000013D412"	""	NA	NA	""	"2/11"	""	"C:0.1134"	"C:0.0356"	"C:0.1383"	NA	"C:0.0069"	"C:0.1342"	"C:0.2894"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAC"	"91b2f646-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3172"	"RP11-396O20.1"	0	"mskcc.org"	"GRCh37"	"11"	15717245	15717245	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs78355472"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.152-8634delC"	""	""	"ENST00000532242"	""	10	"."	4	1	"."	0	"RP11-396O20.1,intron_variant,,ENST00000532242,;"	"-"	"ENSG00000254695"	"ENST00000532242"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/471"	""	""	""	""	"rs78355472"	"1"	NA	1	"RP11-396O20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"-:0.4399"	"-:0.4002"	"-:0.3804"	NA	"-:0.3829"	"-:0.5199"	"-:0.5123"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACA"	"6c424b64-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3173"	"NUCB2"	4925	"mskcc.org"	"GRCh37"	"11"	17332191	17332192	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs71313427"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.484-173_484-172dupAA"	""	""	"ENST00000529010"	""	19	"."	3	6	"."	0	"NUCB2,intron_variant,,ENST00000529010,NM_005013.2;NUCB2,intron_variant,,ENST00000323688,;NUCB2,intron_variant,,ENST00000530527,;NUCB2,intron_variant,,ENST00000458064,;NUCB2,intron_variant,,ENST00000529313,;NUCB2,upstream_gene_variant,,ENST00000527580,;NUCB2,upstream_gene_variant,,ENST00000527735,;NUCB2,intron_variant,,ENST00000533773,;NUCB2,upstream_gene_variant,,ENST00000531242,;"	"AA"	"ENSG00000070081"	"ENST00000529010"	"Transcript"	"intron_variant"	"-/2274"	"-/1263"	"-/420"	""	""	"rs71313427"	"1"	NA	1	"NUCB2"	"HGNC"	8044	"protein_coding"	"YES"	"CCDS41623.1"	"ENSP00000436455"	"P80303"	"E9PRQ3,E9PM22,E9PLR5,E9PLR0,E9PLE9,E9PJP3"	"UPI000013D6B1"	"NM_005013.2"	NA	NA	""	"6/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"9234ad30-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WXS"	FALSE
"3174"	"SAA1"	6288	"mskcc.org"	"GRCh37"	"11"	18290379	18290397	"+"	"Intron"	"DEL"	"AAAAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAAAA"	"-"	"rs371021832"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.92-350_92-332delAAAAAAAAAAAAAAAAAAA"	""	""	"ENST00000405158"	""	9	"."	3	2	"."	0	"SAA1,intron_variant,,ENST00000405158,NM_000331.4;SAA1,intron_variant,,ENST00000356524,NM_199161.3;SAA1,intron_variant,,ENST00000532858,NM_001178006.1;RNA5SP334,downstream_gene_variant,,ENST00000364825,;"	"-"	"ENSG00000173432"	"ENST00000405158"	"Transcript"	"intron_variant"	"-/675"	"-/369"	"-/122"	""	""	"rs371021832"	"1"	NA	1	"SAA1"	"HGNC"	10513	"protein_coding"	"YES"	"CCDS7835.1"	"ENSP00000384906"	"P0DJI8"	"E9PQD6"	"UPI000013F119"	"NM_000331.4"	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"13"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTAAAAAAAAAAAAAAAAAAAA"	"6d5f8818-280f-11e6-891b-fbd3414a729f"	"147"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3175"	"RP11-583F24.6"	0	"mskcc.org"	"GRCh37"	"11"	18908196	18908197	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"rs11463212"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000527164"	""	10	"."	3	1	"."	0	"RP11-583F24.6,downstream_gene_variant,,ENST00000527164,;"	"A"	"ENSG00000254541"	"ENST00000527164"	"Transcript"	"downstream_gene_variant"	"-/988"	""	""	""	""	"rs11463212"	"1"	"283"	-1	"RP11-583F24.6"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4649"	"A:0.3033"	"A:0.4308"	NA	"A:0.5437"	"A:0.5467"	"A:0.5419"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"92fd93da-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3176"	"NAV2"	89797	"mskcc.org"	"GRCh37"	"11"	19586201	19586202	"+"	"Intron"	"INS"	"-"	"-"	"AATCGAGAGCCAAGAGTC"	"rs140358730"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.75+213628_75+213629insATCGAGAGCCAAGAGTCA"	""	""	"ENST00000360655"	""	8	"."	5	4	"."	0	"NAV2,intron_variant,,ENST00000360655,NM_001111018.1;"	"AATCGAGAGCCAAGAGTC"	"ENSG00000166833"	"ENST00000360655"	"Transcript"	"intron_variant"	"-/10667"	"-/7098"	"-/2365"	""	""	"rs140358730"	"1"	NA	1	"NAV2"	"HGNC"	15997	"protein_coding"	""	"CCDS53612.1"	"ENSP00000353871"	"Q8IVL1"	""	"UPI0000228C68"	"NM_001111018.1"	NA	NA	""	"1/37"	""	"AATCCAGAGCCAAGAGTC:0.0585"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"931f824c-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"3177"	"NAV2"	89797	"mskcc.org"	"GRCh37"	"11"	19778555	19778556	"+"	"Intron"	"INS"	"-"	"-"	"GCTGGGCTGG"	"rs144431320"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.267+43057_267+43066dupGGCTGGGCTG"	""	""	"ENST00000396087"	""	18	"."	8	5	"."	0	"NAV2,intron_variant,,ENST00000396085,NM_182964.5;NAV2,intron_variant,,ENST00000349880,NM_145117.4;NAV2,intron_variant,,ENST00000360655,NM_001111018.1;NAV2,intron_variant,,ENST00000396087,NM_001244963.1;MIR4694,downstream_gene_variant,,ENST00000578534,;"	"GCTGGGCTGG"	"ENSG00000166833"	"ENST00000396087"	"Transcript"	"intron_variant"	"-/7882"	"-/7467"	"-/2488"	""	""	"rs144431320"	"1"	NA	1	"NAV2"	"HGNC"	15997	"protein_coding"	"YES"	"CCDS58126.1"	"ENSP00000379396"	"Q8IVL1"	""	"UPI00001E0580"	"NM_001244963.1"	NA	NA	""	"1/40"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"19"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"93245a6a-280f-11e6-891b-fbd3414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3178"	"NAV2"	89797	"mskcc.org"	"GRCh37"	"11"	19966883	19966892	"+"	"Intron"	"DEL"	"CTTTCCTTCC"	"CTTTCCTTCC"	"-"	"rs67392453"	NA	"JHCCPT5"	"JHCCPN5"	"CTTTCCTTCC"	"CTTTCCTTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2216-1051_2216-1042delTCCTTCCCTT"	""	""	"ENST00000396087"	""	12	"."	3	5	"."	0	"NAV2,intron_variant,,ENST00000396085,NM_182964.5;NAV2,intron_variant,,ENST00000349880,NM_145117.4;NAV2,intron_variant,,ENST00000360655,NM_001111018.1;NAV2,intron_variant,,ENST00000540292,;NAV2,intron_variant,,ENST00000527559,;NAV2,intron_variant,,ENST00000396087,NM_001244963.1;"	"-"	"ENSG00000166833"	"ENST00000396087"	"Transcript"	"intron_variant"	"-/7882"	"-/7467"	"-/2488"	""	""	"rs67392453"	"1"	NA	1	"NAV2"	"HGNC"	15997	"protein_coding"	"YES"	"CCDS58126.1"	"ENSP00000379396"	"Q8IVL1"	""	"UPI00001E0580"	"NM_001244963.1"	NA	NA	""	"9/40"	""	"-:0.3890"	"-:0.4357"	"-:0.4164"	NA	"-:0.2867"	"-:0.3926"	"-:0.408"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"13"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTTTCCTTCCC"	"6e0122d6-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3179"	"DBX1"	120237	"mskcc.org"	"GRCh37"	"11"	20178560	20178560	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs377308775"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.672+23delA"	""	""	"ENST00000227256"	""	96	"."	3	50	"."	0	"DBX1,intron_variant,,ENST00000524983,;DBX1,intron_variant,,ENST00000227256,NM_001029865.2;"	"-"	"ENSG00000109851"	"ENST00000227256"	"Transcript"	"intron_variant"	"-/1149"	"-/1149"	"-/382"	""	""	"rs377308775"	"1"	NA	-1	"DBX1"	"HGNC"	33185	"protein_coding"	"YES"	""	"ENSP00000227256"	""	"F8W811"	"UPI000041A75C"	"NM_001029865.2"	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTG"	"6e223f7a-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.03125	"WXS"	FALSE
"3180"	"NELL1"	4745	"mskcc.org"	"GRCh37"	"11"	20794159	20794160	"+"	"Intron"	"INS"	"-"	"-"	"TTCATTCATTCATTCA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.185-11051_185-11036dupATTCATTCATTCATTC"	""	""	"ENST00000357134"	""	12	"."	7	1	"."	0	"NELL1,intron_variant,,ENST00000298925,NM_001288713.1;NELL1,intron_variant,,ENST00000357134,NM_201551.1,NM_006157.3;NELL1,intron_variant,,ENST00000325319,NM_001288714.1;NELL1,intron_variant,,ENST00000532434,;NELL1,intron_variant,,ENST00000527873,;NELL1,intron_variant,,ENST00000528046,;NELL1,intron_variant,,ENST00000529595,;"	"TTCATTCATTCATTCA"	"ENSG00000165973"	"ENST00000357134"	"Transcript"	"intron_variant"	"-/3022"	"-/2433"	"-/810"	""	""	""	"1"	NA	1	"NELL1"	"HGNC"	7750	"protein_coding"	"YES"	"CCDS7855.1"	"ENSP00000349654"	"Q92832"	"K9UUD5"	"UPI000013E53D"	"NM_201551.1,NM_006157.3"	NA	NA	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"31"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"93522102-280f-11e6-891b-fbd3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"3181"	"NELL1"	4745	"mskcc.org"	"GRCh37"	"11"	21337408	21337410	"+"	"Intron"	"DEL"	"TGG"	"TGG"	"-"	"rs148401464"	NA	"JHCCPT5"	"JHCCPN5"	"TGG"	"TGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1550-54968_1550-54966delGTG"	""	""	"ENST00000357134"	""	14	"."	3	2	"."	0	"NELL1,intron_variant,,ENST00000298925,NM_001288713.1;NELL1,intron_variant,,ENST00000357134,NM_201551.1,NM_006157.3;NELL1,intron_variant,,ENST00000325319,NM_001288714.1;NELL1,intron_variant,,ENST00000532434,;NELL1,intron_variant,,ENST00000529218,;NELL1,intron_variant,,ENST00000534263,;CTD-2302A16.2,intron_variant,,ENST00000444420,;"	"-"	"ENSG00000165973"	"ENST00000357134"	"Transcript"	"intron_variant"	"-/3022"	"-/2433"	"-/810"	""	""	"rs148401464"	"1"	NA	1	"NELL1"	"HGNC"	7750	"protein_coding"	"YES"	"CCDS7855.1"	"ENSP00000349654"	"Q92832"	"K9UUD5"	"UPI000013E53D"	"NM_201551.1,NM_006157.3"	NA	NA	""	"14/19"	""	"-:0.4972"	"-:0.6309"	"-:0.5086"	NA	"-:0.3224"	"-:0.5417"	"-:0.4427"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"23"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTGGT"	"6e61651a-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"3182"	"SLC17A6"	57084	"mskcc.org"	"GRCh37"	"11"	22381332	22381333	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs200395953"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.573+268dupA"	""	""	"ENST00000263160"	""	12	"."	3	2	"."	0	"SLC17A6,intron_variant,,ENST00000263160,NM_020346.2;CTD-2140G10.4,downstream_gene_variant,,ENST00000534543,;SLC17A6,intron_variant,,ENST00000534115,;"	"A"	"ENSG00000091664"	"ENST00000263160"	"Transcript"	"intron_variant"	"-/3949"	"-/1749"	"-/582"	""	""	"rs200395953"	"1"	NA	1	"SLC17A6"	"HGNC"	16703	"protein_coding"	"YES"	"CCDS7856.1"	"ENSP00000263160"	"Q9P2U8"	""	"UPI0000073F14"	"NM_020346.2"	NA	NA	""	"4/11"	""	"A:0.0897"	"A:0.0083"	"A:0.1023"	NA	"A:0.0109"	"A:0.1511"	"A:0.2086"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"936d3d98-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3183"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	23434446	23434446	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs60216177"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	6	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs60216177"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.3409"	"-:0.4652"	"-:0.6441"	NA	"-:0.9187"	"-:0.6431"	"-:0.681"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTT"	"6e98c4d8-280f-11e6-891b-fbd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"3184"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	24207033	24207037	"+"	"IGR"	"DEL"	"GGAAG"	"GGAAG"	"-"	"rs138986607"	NA	"JHCCPT5"	"JHCCPN5"	"GGAAG"	"GGAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	32	"."	4	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138986607"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGGAAGG"	"6e9fc382-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"3185"	"LUZP2"	338645	"mskcc.org"	"GRCh37"	"11"	24998033	24998035	"+"	"Intron"	"DEL"	"TTC"	"TTC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTC"	"TTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.523-102_523-100delCTT"	""	""	"ENST00000336930"	""	121	"."	6	41	"."	0	"LUZP2,intron_variant,,ENST00000533227,NM_001009909.3,NM_001252008.1;LUZP2,intron_variant,,ENST00000336930,;LUZP2,intron_variant,,ENST00000529015,;"	"-"	"ENSG00000187398"	"ENST00000336930"	"Transcript"	"intron_variant"	"-/3553"	"-/1041"	"-/346"	""	""	""	"1"	NA	1	"LUZP2"	"HGNC"	23206	"protein_coding"	"YES"	"CCDS31446.1"	"ENSP00000336817"	"Q86TE4"	""	"UPI000019816C"	""	NA	NA	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTCT"	"6eb65bc4-280f-11e6-891b-fbd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0495867768595041	"WXS"	FALSE
"3186"	"LUZP2"	338645	"mskcc.org"	"GRCh37"	"11"	25071838	25071851	"+"	"Intron"	"DEL"	"TTTTTTTTTTTTTT"	"TTTTTTTTTTTTTT"	"-"	"rs531144201"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTTTTTTTTTTT"	"TTTTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.858+176_858+189delTTTTTTTTTTTTTT"	""	""	"ENST00000336930"	""	22	"."	5	6	"."	0	"LUZP2,intron_variant,,ENST00000533227,NM_001009909.3,NM_001252008.1;LUZP2,intron_variant,,ENST00000336930,;"	"-"	"ENSG00000187398"	"ENST00000336930"	"Transcript"	"intron_variant"	"-/3553"	"-/1041"	"-/346"	""	""	"rs531144201"	"1"	NA	1	"LUZP2"	"HGNC"	23206	"protein_coding"	"YES"	"CCDS31446.1"	"ENSP00000336817"	"Q86TE4"	""	"UPI000019816C"	""	NA	NA	""	"10/11"	""	"TTTTTTTTTTTTTT:0.0022"	"-:0.997"	"-:0.9971"	NA	"-:0.997"	"-:0.998"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"14"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTTTTTTTTTTTTT"	"6eb9767e-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WXS"	FALSE
"3187"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	26939800	26939800	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs142683994"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142683994"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1841"	"-:0.292"	"-:0.1527"	NA	"-:0.1776"	"-:0.1362"	"-:0.1166"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"6ef23a4a-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3188"	"RP11-587D21.4"	0	"mskcc.org"	"GRCh37"	"11"	27798785	27798786	"+"	"Intron"	"INS"	"-"	"-"	"ATGCAGCCCTGTG"	"rs6144281"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.148-80717_148-80716insCACAGGGCTGCAT"	""	""	"ENST00000530663"	""	8	"."	4	3	"."	0	"RP11-587D21.4,intron_variant,,ENST00000530663,;"	"ATGCAGCCCTGTG"	"ENSG00000255496"	"ENST00000530663"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/358"	""	""	""	""	"rs6144281"	"1"	NA	-1	"RP11-587D21.4"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.2109"	"ATGCAGCCCTGTG:0.9365"	"ATGCAGCCCTGTG:0.7795"	NA	"ATGCAGCCCTGTG:0.6756"	"ATGCAGCCCTGTG:0.6869"	"ATGCAGCCCTGTG:0.819"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"93dd67d0-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3189"	"DNAJC24"	120526	"mskcc.org"	"GRCh37"	"11"	31447915	31447931	"+"	"Intron"	"DEL"	"TTTTCTCTTGACAACAT"	"TTTTCTCTTGACAACAT"	"CTCTTGACAACATTT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTCTCTTGACAACAT"	"TTTTCTCTTGACAACAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.319+13_319+28delTTTTCTCTTGACAACAinsCTCTTGACAACATT"	""	""	"ENST00000465995"	""	146	"."	12	22	"."	0	"DNAJC24,3_prime_UTR_variant,,ENST00000536040,;DNAJC24,intron_variant,,ENST00000465995,NM_181706.4;DNAJC24,non_coding_transcript_exon_variant,,ENST00000524747,;DNAJC24,intron_variant,,ENST00000530125,;DNAJC24,3_prime_UTR_variant,,ENST00000526042,;DNAJC24,3_prime_UTR_variant,,ENST00000527731,;DNAJC24,intron_variant,,ENST00000395949,;"	"CTCTTGACAACATT"	"ENSG00000170946"	"ENST00000465995"	"Transcript"	"intron_variant"	"-/2004"	"-/450"	"-/149"	""	""	""	"1"	NA	1	"DNAJC24"	"HGNC"	26979	"protein_coding"	"YES"	"CCDS7873.2"	"ENSP00000417548"	"Q6P3W2"	""	"UPI0000160EAB"	"NM_181706.4"	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTTCTCTTGACAACATT"	"8c19e32a-280f-11e6-891b-fbd3414a729f"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WXS"	FALSE
"3190"	"RCN1"	5954	"mskcc.org"	"GRCh37"	"11"	31977248	31977249	"+"	"Intron"	"INS"	"-"	"-"	"CAACAACAA"	"rs773431257"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.101+139069_101+139070insACAACAACA"	""	""	"ENST00000532942"	""	8	"."	5	1	"."	0	"RCN1,intron_variant,,ENST00000532942,;RCN1,intron_variant,,ENST00000530348,;"	"CAACAACAA"	"ENSG00000049449"	"ENST00000532942"	"Transcript"	"intron_variant"	"-/1191"	"-/843"	"-/280"	""	""	"rs773431257"	"1"	NA	1	"RCN1"	"HGNC"	9934	"protein_coding"	""	""	"ENSP00000436422"	""	"Q5J7V8,H0YDA4,E9PP27,E9PLM2,B7Z1M1"	"UPI0001914AB9"	""	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"940e5d2c-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"3191"	"EIF3M"	10480	"mskcc.org"	"GRCh37"	"11"	32609935	32609942	"+"	"Intron"	"DEL"	"AAAAAAAA"	"AAAAAAAA"	"-"	"rs373689513"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAAAAA"	"AAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.176-190_176-183delAAAAAAAA"	""	""	"ENST00000531120"	""	17	"."	6	4	"."	0	"EIF3M,intron_variant,,ENST00000531120,NM_006360.4;EIF3M,intron_variant,,ENST00000524896,;EIF3M,intron_variant,,ENST00000323213,;EIF3M,intron_variant,,ENST00000533439,;EIF3M,upstream_gene_variant,,ENST00000526267,;EIF3M,intron_variant,,ENST00000532054,;EIF3M,intron_variant,,ENST00000525782,;EIF3M,intron_variant,,ENST00000531921,;EIF3M,intron_variant,,ENST00000524711,;EIF3M,intron_variant,,ENST00000530026,;EIF3M,intron_variant,,ENST00000532444,;EIF3M,intron_variant,,ENST00000531186,;HNRNPA3P9,downstream_gene_variant,,ENST00000604913,;"	"-"	"ENSG00000149100"	"ENST00000531120"	"Transcript"	"intron_variant"	"-/5051"	"-/1125"	"-/374"	""	""	"rs373689513"	"1"	NA	1	"EIF3M"	"HGNC"	24460	"protein_coding"	"YES"	"CCDS7880.1"	"ENSP00000436049"	"Q7L2H7"	"J3KNJ2,E9PN86"	"UPI0000070F8A"	"NM_006360.4"	NA	NA	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAAAAAAAAA"	"6fa46076-280f-11e6-891b-fbd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WXS"	FALSE
"3192"	"RP11-646J21.7"	0	"mskcc.org"	"GRCh37"	"11"	33806666	33806667	"+"	"3'Flank"	"INS"	"-"	"-"	"AGAAGAAAAGAAAAGAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000529152"	""	7	"."	4	2	"."	0	"RP11-646J21.7,downstream_gene_variant,,ENST00000529152,;"	"AGAAGAAAAGAAAAGAA"	"ENSG00000255161"	"ENST00000529152"	"Transcript"	"downstream_gene_variant"	"-/742"	""	""	""	""	""	"1"	"1933"	-1	"RP11-646J21.7"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"945d5576-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3193"	"EHF"	26298	"mskcc.org"	"GRCh37"	"11"	34678117	34678118	"+"	"Intron"	"INS"	"-"	"-"	"CTTCTATG"	"rs150936345"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.611-337_611-330dupCTTCTATG"	""	""	"ENST00000531794"	""	12	"."	4	3	"."	0	"EHF,intron_variant,,ENST00000257831,NM_012153.5;EHF,intron_variant,,ENST00000450654,NM_001206615.1;EHF,intron_variant,,ENST00000533754,;EHF,intron_variant,,ENST00000531794,NM_001206616.1;EHF,intron_variant,,ENST00000530286,;EHF,intron_variant,,ENST00000529527,;EHF,downstream_gene_variant,,ENST00000525253,;EHF,downstream_gene_variant,,ENST00000532302,;"	"CTTCTATG"	"ENSG00000135373"	"ENST00000531794"	"Transcript"	"intron_variant"	"-/1481"	"-/969"	"-/322"	""	""	"rs150936345"	"1"	NA	1	"EHF"	"HGNC"	3246	"protein_coding"	"YES"	"CCDS55752.1"	"ENSP00000435835"	"Q9NZC4"	"E9PQX0,E9PQR6"	"UPI0001892666"	"NM_001206616.1"	NA	NA	""	"6/8"	""	"CTTCTATG:0.2254"	"CTTCTATG:0.121"	"CTTCTATG:0.2522"	NA	"CTTCTATG:0.4087"	"CTTCTATG:0.1859"	"CTTCTATG:0.1994"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"947629ca-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3194"	"PAMR1"	25891	"mskcc.org"	"GRCh37"	"11"	35454530	35454530	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1678-90delT"	""	""	"ENST00000278360"	""	32	"."	3	20	"."	0	"PAMR1,intron_variant,,ENST00000378880,NM_001001991.1;PAMR1,intron_variant,,ENST00000532848,NM_001282675.1;PAMR1,intron_variant,,ENST00000278360,NM_015430.2;PAMR1,intron_variant,,ENST00000527605,;PAMR1,intron_variant,,ENST00000378878,NM_001282676.1;PAMR1,downstream_gene_variant,,ENST00000531219,;"	"-"	"ENSG00000149090"	"ENST00000278360"	"Transcript"	"intron_variant"	"-/2786"	"-/2214"	"-/737"	""	""	""	"1"	NA	-1	"PAMR1"	"HGNC"	24554	"protein_coding"	"YES"	"CCDS7898.1"	"ENSP00000278360"	"Q6UXH9"	"E9PQ70"	"UPI000013DB70"	"NM_015430.2"	NA	NA	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"70aa3d2e-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WXS"	FALSE
"3195"	"PRR5L"	79899	"mskcc.org"	"GRCh37"	"11"	36489476	36489477	"+"	"3'Flank"	"INS"	"-"	"-"	"CAA"	"rs148794164"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000378867"	""	7	"."	4	1	"."	0	"PRR5L,downstream_gene_variant,,ENST00000378867,NM_024841.4;PRR5L,downstream_gene_variant,,ENST00000311599,NM_001160168.1;PRR5L,downstream_gene_variant,,ENST00000530639,NM_001160167.1;PRR5L,downstream_gene_variant,,ENST00000389693,;PRR5L,downstream_gene_variant,,ENST00000530627,;"	"CAA"	"ENSG00000135362"	"ENST00000378867"	"Transcript"	"downstream_gene_variant"	"-/3930"	"-/1107"	"-/368"	""	""	"rs148794164"	"1"	"2722"	1	"PRR5L"	"HGNC"	25878	"protein_coding"	"YES"	"CCDS31463.1"	"ENSP00000368144"	"Q6MZQ0"	"E9PS02,E9PP62,E9PP25,E9PLJ6,E9PL62,E9PKK6,E9PJV4,E9PIU0"	"UPI0000DBEF36"	"NM_024841.4"	NA	NA	""	""	""	"CAA:0.2015"	"CAA:0.1589"	"CAA:0.3012"	NA	"CAA:0.1637"	"CAA:0.2783"	"CAA:0.1483"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"94c4b3e2-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3196"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	36851206	36851207	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs11451385"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11451385"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2985"	"G:0.6422"	"G:0.7507"	NA	"G:0.87"	"G:0.5905"	"G:0.6871"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"94cd51c8-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3197"	"LRRC4C"	57689	"mskcc.org"	"GRCh37"	"11"	41005918	41005965	"+"	"Intron"	"DEL"	"AAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAG"	"AAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAG"	"GAAAGAAAGAAAGAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAG"	"AAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-326-336137_-326-336090delCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTinsTTCTTTCTTTCTTTC"	""	""	"ENST00000530763"	""	17	"."	8	4	"."	0	"LRRC4C,intron_variant,,ENST00000530763,NM_020929.2;LRRC4C,intron_variant,,ENST00000528697,NM_001258419.1;LRRC4C,intron_variant,,ENST00000534577,;"	"GAAAGAAAGAAAGAA"	"ENSG00000148948"	"ENST00000530763"	"Transcript"	"intron_variant"	"-/2669"	"-/1923"	"-/640"	""	""	""	"1"	NA	-1	"LRRC4C"	"HGNC"	29317	"protein_coding"	""	"CCDS31464.1"	"ENSP00000434761"	"Q9HCJ2"	"E9PLP4"	"UPI000000D9A7"	"NM_020929.2"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGA"	"8c2a83c4-280f-11e6-891b-fbd3414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.470588235294118	"WXS"	FALSE
"3198"	"RP11-124G5.3"	0	"mskcc.org"	"GRCh37"	"11"	41672456	41672457	"+"	"Intron"	"INS"	"-"	"CTCAAGC"	"CTCAAGC"	"rs113081864"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.150-30508_150-30507insGCTTGAG"	""	""	"ENST00000526978"	""	6	"."	5	1	"."	0	"RP11-124G5.3,intron_variant,,ENST00000526978,;RP11-124G5.3,intron_variant,,ENST00000531210,;"	"CTCAAGC"	"ENSG00000255388"	"ENST00000526978"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/859"	""	""	""	""	"rs113081864"	"1"	NA	-1	"RP11-124G5.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/6"	""	"-:0.1745"	"CTCAAGC:0.7625"	"CTCAAGC:0.7997"	NA	"CTCAAGC:0.8929"	"CTCAAGC:0.8777"	"CTCAAGC:0.8057"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"94e68fa8-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3199"	"RP11-148I19.1"	0	"mskcc.org"	"GRCh37"	"11"	42125229	42125230	"+"	"Intron"	"INS"	"-"	"-"	"CTT"	"rs3043620"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.220+6825_220+6827dupAAG"	""	""	"ENST00000534059"	""	9	"."	6	3	"."	0	"RP11-148I19.1,intron_variant,,ENST00000534059,;"	"CTT"	"ENSG00000255300"	"ENST00000534059"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/625"	""	""	""	""	"rs3043620"	"1"	NA	-1	"RP11-148I19.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/4"	""	"-:0.0419"	"CTT:0.8548"	"CTT:0.9798"	NA	"CTT:0.999"	"CTT:0.998"	"CTT:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"94e8f626-280f-11e6-891b-fbd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3200"	"EXT2"	2132	"mskcc.org"	"GRCh37"	"11"	44257709	44257710	"+"	"Intron"	"DEL"	"GT"	"GT"	"-"	"rs151110171"	NA	"JHCCPT5"	"JHCCPN5"	"GT"	"GT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2035-117_2035-116delTG"	""	""	"ENST00000395673"	""	64	"."	6	40	"."	0	"EXT2,intron_variant,,ENST00000395673,NM_000401.3;EXT2,intron_variant,,ENST00000343631,;EXT2,intron_variant,,ENST00000533608,NM_207122.1;EXT2,intron_variant,,ENST00000358681,NM_001178083.1;EXT2,intron_variant,,ENST00000528159,;EXT2,downstream_gene_variant,,ENST00000531161,;"	"-"	"ENSG00000151348"	"ENST00000395673"	"Transcript"	"intron_variant"	"-/3454"	"-/2256"	"-/751"	""	""	"rs151110171"	"1"	NA	1	"EXT2"	"HGNC"	3513	"protein_coding"	"YES"	"CCDS53618.1"	"ENSP00000379032"	"Q93063"	"E9PNL9,E9PJA5"	"UPI0000EE3A5C"	"NM_000401.3"	NA	NA	""	"12/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGGTG"	"716645d2-280f-11e6-891b-fbd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WXS"	TRUE
"3201"	"ENSR00000561835"	0	"mskcc.org"	"GRCh37"	"11"	45109271	45109276	"+"	"IGR"	"DEL"	"TCTCTT"	"TCTCTT"	"-"	"rs72154928"	NA	"JHCCPT5"	"JHCCPN5"	"TCTCTT"	"TCTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000561835"	""	13	"."	4	2	"."	0	""	"-"	""	"ENSR00000561835"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs72154928"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0713"	"-:0.0741"	"-:0.1571"	NA	"-:0"	"-:0.0915"	"-:0.0593"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTCTTT"	"7182d33c-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3202"	"CKAP5"	9793	"mskcc.org"	"GRCh37"	"11"	46786436	46786437	"+"	"Intron"	"INS"	"-"	"-"	"AATGAATACATTCCATTCTTTGATTTTAAA"	"rs138761707"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3537+244_3537+245insTTTAAAATCAAAGAATGGAATGTATTCATT"	""	""	"ENST00000529230"	""	16	"."	7	3	"."	0	"CKAP5,intron_variant,,ENST00000529230,;CKAP5,intron_variant,,ENST00000415402,NM_001008938.3;CKAP5,intron_variant,,ENST00000312055,NM_014756.3;CKAP5,intron_variant,,ENST00000354558,;CKAP5,upstream_gene_variant,,ENST00000526876,;CKAP5,upstream_gene_variant,,ENST00000527333,;SNORD67,upstream_gene_variant,,ENST00000390833,NR_003056.1;CKAP5,intron_variant,,ENST00000533413,;CKAP5,intron_variant,,ENST00000526943,;"	"AATGAATACATTCCATTCTTTGATTTTAAA"	"ENSG00000175216"	"ENST00000529230"	"Transcript"	"intron_variant"	"-/7121"	"-/6099"	"-/2032"	""	""	"rs138761707"	"1"	NA	-1	"CKAP5"	"HGNC"	28959	"protein_coding"	"YES"	"CCDS31477.1"	"ENSP00000432768"	"Q14008"	"E9PQH5"	"UPI000013F21E"	""	NA	NA	""	"28/43"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"958f72ee-280f-11e6-891b-fbd3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4375	"WXS"	FALSE
"3203"	"RP11-707M1.1"	440040	"mskcc.org"	"GRCh37"	"11"	49639528	49639532	"+"	"Intron"	"DEL"	"CAAAA"	"CAAAA"	"-"	"rs72284929"	NA	"JHCCPT5"	"JHCCPN5"	"CAAAA"	"CAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1062+41115_1062+41119delCAAAA"	""	""	"ENST00000527477"	""	9	"."	5	1	"."	0	"RP11-707M1.1,intron_variant,,ENST00000527477,;RP11-707M1.1,intron_variant,,ENST00000534201,;RP11-707M1.1,intron_variant,,ENST00000530858,;"	"-"	"ENSG00000205035"	"ENST00000527477"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2196"	""	""	""	""	"rs72284929"	"1"	NA	1	"RP11-707M1.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/6"	""	"-:0.2867"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"45"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCAAAAC"	"73e4d008-280f-11e6-891b-fbd3414a729f"	"280"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3204"	"OR5M6P"	0	"mskcc.org"	"GRCh37"	"11"	56279563	56279563	"+"	"3'Flank"	"DEL"	"T"	"-"	"-"	"rs11301459"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000530227"	""	14	"."	11	2	"."	0	"OR5M6P,downstream_gene_variant,,ENST00000530227,;CTD-3051L14.14,downstream_gene_variant,,ENST00000532561,;"	"-"	"ENSG00000254603"	"ENST00000530227"	"Transcript"	"downstream_gene_variant"	"-/937"	""	""	""	""	"rs11301459"	"1"	"148"	-1	"OR5M6P"	"HGNC"	14814	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.4519"	"-:0.8064"	"-:0.4049"	NA	"-:0.3502"	"-:0.6183"	"-:0.4325"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATT"	"745bb22c-280f-11e6-891b-fbd3414a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.785714285714286	"WXS"	FALSE
"3205"	"OR5M11"	219487	"mskcc.org"	"GRCh37"	"11"	56311023	56311024	"+"	"5'Flank"	"INS"	"-"	"-"	"ATCTATCTATCTATCTATCT"	"rs146553448"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000528616"	""	27	"."	4	8	"."	0	"OR5M11,upstream_gene_variant,,ENST00000528616,NM_001005245.1;"	"ATCTATCTATCTATCTATCT"	"ENSG00000255223"	"ENST00000528616"	"Transcript"	"upstream_gene_variant"	"-/1012"	"-/918"	"-/305"	""	""	"rs146553448"	"1"	"266"	-1	"OR5M11"	"HGNC"	15291	"protein_coding"	"YES"	"CCDS53629.1"	"ENSP00000432417"	"Q96RB7"	""	"UPI00000405CF"	"NM_001005245.1"	NA	NA	""	""	""	"ATCTATCTATCTATCT:0.3734"	"ATCTATCTATCTATCT:0.3669"	"ATCTATCTATCTATCT:0.4006"	NA	"ATCTATCTATCTATCT:0.37"	"ATCTATCTATCTATCT:0.3897"	"ATCTATCTATCTATCT:0.3497"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"965a91c2-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WXS"	FALSE
"3206"	"P2RX3"	5024	"mskcc.org"	"GRCh37"	"11"	57106992	57106993	"+"	"Intron"	"INS"	"-"	"-"	"AC"	"rs10685137"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.119+866_119+867dupAC"	""	""	"ENST00000263314"	""	9	"."	3	4	"."	0	"P2RX3,intron_variant,,ENST00000263314,NM_002559.3;SSRP1,upstream_gene_variant,,ENST00000278412,NM_003146.2;SSRP1,upstream_gene_variant,,ENST00000526696,;SSRP1,upstream_gene_variant,,ENST00000529002,;P2RX3,intron_variant,,ENST00000533436,;SSRP1,upstream_gene_variant,,ENST00000293880,;"	"AC"	"ENSG00000109991"	"ENST00000263314"	"Transcript"	"intron_variant"	"-/1831"	"-/1194"	"-/397"	""	""	"rs10685137"	"1"	NA	1	"P2RX3"	"HGNC"	8534	"protein_coding"	"YES"	"CCDS7953.1"	"ENSP00000263314"	"P56373"	"H0YDR6"	"UPI00000342EB"	"NM_002559.3"	NA	NA	""	"1/11"	""	"AC:0.3273"	"AC:0.497"	"AC:0.2651"	NA	"AC:0.2212"	"AC:0.327"	"AC:0.2515"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"18"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"967ee4dc-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3207"	"RP11-872D17.8"	0	"mskcc.org"	"GRCh37"	"11"	57170943	57170944	"+"	"Intron"	"INS"	"-"	"-"	"GAAGAAGAAGAAGAAGAAGAAGAAGAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.303+5704_303+5705insCTCTTCTTCTTCTTCTTCTTCTTCTTC"	""	""	"ENST00000529411"	""	42	"."	3	7	"."	0	"RP11-872D17.8,intron_variant,,ENST00000529411,;SLC43A3,downstream_gene_variant,,ENST00000395123,NM_014096.3;SLC43A3,downstream_gene_variant,,ENST00000395124,NM_001278206.1,NM_199329.2,NM_001278201.1;SLC43A3,downstream_gene_variant,,ENST00000352187,NM_017611.2;SLC43A3,downstream_gene_variant,,ENST00000529554,;SLC43A3,downstream_gene_variant,,ENST00000533524,;RP11-872D17.8,intron_variant,,ENST00000534081,;RP11-872D17.8,intron_variant,,ENST00000528835,;SLC43A3,downstream_gene_variant,,ENST00000525205,;"	"GAAGAAGAAGAAGAAGAAGAAGAAGAG"	"ENSG00000254979"	"ENST00000529411"	"Transcript"	"intron_variant"	"-/681"	"-/681"	"-/227"	""	""	""	"1"	NA	-1	"RP11-872D17.8"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000431536"	""	"H0YCG3"	"UPI0001F77BDC"	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"96a00a72-280f-11e6-891b-fbd3414a729f"	"174"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WXS"	FALSE
"3208"	"CTNND1"	1500	"mskcc.org"	"GRCh37"	"11"	57579268	57579269	"+"	"Intron"	"INS"	"-"	"-"	"ATAG"	"rs5792065"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2638+311_2638+314dupATAG"	""	""	"ENST00000399050"	""	8	"."	4	1	"."	0	"CTNND1,intron_variant,,ENST00000524630,;CTNND1,intron_variant,,ENST00000399050,NM_001085458.1;CTNND1,intron_variant,,ENST00000361332,NM_001085459.1;CTNND1,intron_variant,,ENST00000360682,;CTNND1,intron_variant,,ENST00000361796,NM_001206885.1,NM_001085461.1;CTNND1,intron_variant,,ENST00000361391,NM_001331.2;CTNND1,intron_variant,,ENST00000358694,NM_001085460.1;CTNND1,intron_variant,,ENST00000529526,NM_001206891.1;CTNND1,intron_variant,,ENST00000532649,NM_001206889.1;CTNND1,intron_variant,,ENST00000534579,;CTNND1,intron_variant,,ENST00000428599,NM_001085462.1;CTNND1,intron_variant,,ENST00000532844,NM_001206883.1;CTNND1,intron_variant,,ENST00000526357,NM_001206886.1;CTNND1,intron_variant,,ENST00000529873,NM_001206887.1;CTNND1,intron_variant,,ENST00000530748,NM_001206884.1;CTNND1,intron_variant,,ENST00000528621,NM_001206888.1;CTNND1,intron_variant,,ENST00000415361,NM_001085463.1;CTNND1,intron_variant,,ENST00000530094,NM_001085464.1;CTNND1,intron_variant,,ENST00000426142,NM_001085467.1;CTNND1,intron_variant,,ENST00000532787,NM_001085465.1;CTNND1,intron_variant,,ENST00000532463,NM_001206890.1;CTNND1,intron_variant,,ENST00000528232,NM_001085466.1;CTNND1,intron_variant,,ENST00000529986,NM_001085468.1;CTNND1,intron_variant,,ENST00000532245,NM_001085469.1;CTNND1,intron_variant,,ENST00000399039,;CTNND1,intron_variant,,ENST00000527467,;CTNND1,intron_variant,,ENST00000531014,;CTNND1,intron_variant,,ENST00000533667,;CTNND1,intron_variant,,ENST00000525902,;CTNND1,intron_variant,,ENST00000526772,;CTNND1,intron_variant,,ENST00000529919,;CTNND1,intron_variant,,ENST00000526938,;CTNND1,intron_variant,,ENST00000531007,;CTNND1,downstream_gene_variant,,ENST00000530720,;CTNND1,upstream_gene_variant,,ENST00000525821,;"	"ATAG"	"ENSG00000198561"	"ENST00000399050"	"Transcript"	"intron_variant"	"-/6313"	"-/2907"	"-/968"	""	""	"rs5792065"	"1"	NA	1	"CTNND1"	"HGNC"	2515	"protein_coding"	"YES"	"CCDS44604.1"	"ENSP00000382004"	"O60716"	"E9PKY0,E9PKL1"	"UPI000012860B"	"NM_001085458.1"	NA	NA	""	"17/20"	""	"-:0.0707"	"ATAG:0.7534"	"ATAG:0.9885"	NA	"ATAG:0.999"	"ATAG:0.999"	"ATAG:0.9816"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"96bf501c-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3209"	"PATL1"	219988	"mskcc.org"	"GRCh37"	"11"	59419623	59419624	"+"	"Intron"	"INS"	"-"	"-"	"TT"	"rs10627707"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1426+313_1426+314insAA"	""	""	"ENST00000300146"	""	9	"."	6	1	"."	0	"PATL1,intron_variant,,ENST00000300146,NM_152716.2;PATL1,upstream_gene_variant,,ENST00000531919,;"	"TT"	"ENSG00000166889"	"ENST00000300146"	"Transcript"	"intron_variant"	"-/4072"	"-/2313"	"-/770"	""	""	"rs10627707"	"1"	NA	-1	"PATL1"	"HGNC"	26721	"protein_coding"	"YES"	"CCDS44613.1"	"ENSP00000300146"	"Q86TB9"	"B3KXN0"	"UPI00001FA7D8"	"NM_152716.2"	NA	NA	""	"11/18"	""	"-:0.0096"	"TT:0.9977"	"TT:0.9827"	NA	"TT:0.999"	"TT:0.9732"	"TT:0.9949"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"97112e46-280f-11e6-891b-fbd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3210"	"OOSP1"	0	"mskcc.org"	"GRCh37"	"11"	59707066	59707067	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs61407778"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.76+1071dupT"	""	""	"ENST00000398992"	""	15	"."	4	3	"."	0	"OOSP1,intron_variant,,ENST00000398992,;"	"T"	"ENSG00000214788"	"ENST00000398992"	"Transcript"	"intron_variant"	"-/369"	"-/369"	"-/123"	""	""	"rs61407778"	"1"	NA	1	"OOSP1"	"HGNC"	49233	"protein_coding"	"YES"	""	"ENSP00000381960"	"A8MZH6"	""	"UPI00015DFFDB"	""	NA	NA	""	"1/3"	""	"-:0.3335"	"T:0.6884"	"T:0.7161"	NA	"T:0.6329"	"T:0.6332"	"T:0.6708"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"9719275e-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"3211"	"MS4A3"	932	"mskcc.org"	"GRCh37"	"11"	59831540	59831541	"+"	"Intron"	"INS"	"-"	"-"	"TAAA"	"rs58312985"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.295-162_295-159dupTAAA"	""	""	"ENST00000278865"	""	40	"."	3	10	"."	0	"MS4A3,intron_variant,,ENST00000278865,NM_006138.4;MS4A3,intron_variant,,ENST00000358152,NM_001031809.1;MS4A3,intron_variant,,ENST00000395032,NM_001031666.1;MS4A3,intron_variant,,ENST00000534744,;MS4A3,downstream_gene_variant,,ENST00000526199,;MS4A3,intron_variant,,ENST00000525686,;MS4A3,downstream_gene_variant,,ENST00000528298,;"	"TAAA"	"ENSG00000149516"	"ENST00000278865"	"Transcript"	"intron_variant"	"-/1613"	"-/645"	"-/214"	""	""	"rs58312985"	"1"	NA	1	"MS4A3"	"HGNC"	7317	"protein_coding"	"YES"	"CCDS31567.1"	"ENSP00000278865"	"Q96HJ5"	""	"UPI000006E45E"	"NM_006138.4"	NA	NA	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"36"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"9721a596-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WXS"	FALSE
"3212"	"MS4A7"	58475	"mskcc.org"	"GRCh37"	"11"	60161528	60161529	"+"	"3'UTR"	"INS"	"-"	"-"	"A"	"rs35933988"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*197dupA"	""	""	"ENST00000300184"	"7/7"	39	"."	7	12	"."	0	"MS4A7,3_prime_UTR_variant,,ENST00000358246,NM_206938.1,NM_206940.1;MS4A7,3_prime_UTR_variant,,ENST00000300184,NM_206939.1,NM_021201.4;MS4A7,3_prime_UTR_variant,,ENST00000534016,;MS4A14,intron_variant,,ENST00000531787,;MS4A7,intron_variant,,ENST00000530234,;MS4A14,upstream_gene_variant,,ENST00000300187,NM_032597.4;MS4A14,upstream_gene_variant,,ENST00000531783,NM_001261828.1;MS4A14,upstream_gene_variant,,ENST00000395005,NM_001079692.2;MS4A14,upstream_gene_variant,,ENST00000395001,;MS4A7,downstream_gene_variant,,ENST00000530614,;MS4A7,downstream_gene_variant,,ENST00000530027,;MS4A14,upstream_gene_variant,,ENST00000526375,;MS4A14,upstream_gene_variant,,ENST00000534688,;MS4A6E,intron_variant,,ENST00000532756,;MS4A14,upstream_gene_variant,,ENST00000530662,;MS4A14,upstream_gene_variant,,ENST00000527841,;MS4A14,upstream_gene_variant,,ENST00000525397,;MS4A7,downstream_gene_variant,,ENST00000528808,;MS4A7,downstream_gene_variant,,ENST00000528587,;MS4A7,downstream_gene_variant,,ENST00000533849,;MS4A14,upstream_gene_variant,,ENST00000531949,;MS4A7,downstream_gene_variant,,ENST00000534310,;"	"A"	"ENSG00000166927"	"ENST00000300184"	"Transcript"	"3_prime_UTR_variant"	"1113-1114/1869"	"-/723"	"-/240"	""	""	"rs35933988"	"1"	NA	1	"MS4A7"	"HGNC"	13378	"protein_coding"	"YES"	"CCDS7985.1"	"ENSP00000300184"	"Q9GZW8"	""	"UPI0000043671"	"NM_206939.1,NM_021201.4"	NA	NA	"7/7"	""	""	"-:0.2208"	"A:0.8185"	"A:0.8343"	NA	"A:0.7192"	"A:0.7296"	"A:0.7996"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"9762727e-280f-11e6-891b-fbd3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179487179487179	"WXS"	FALSE
"3213"	"BEST1"	7439	"mskcc.org"	"GRCh37"	"11"	61719776	61719785	"+"	"Intron"	"DEL"	"AGAGAGAGAG"	"AGAGAGAGAG"	"-"	"rs72188115"	NA	"JHCCPT5"	"JHCCPN5"	"AGAGAGAGAG"	"AGAGAGAGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-29+1898_-29+1907delGAGAGAGAGA"	""	""	"ENST00000449131"	""	12	"."	6	2	"."	0	"BEST1,intron_variant,,ENST00000449131,NM_001139443.1;BEST1,intron_variant,,ENST00000378043,NM_004183.3;BEST1,intron_variant,,ENST00000378042,;BEST1,intron_variant,,ENST00000301774,;BEST1,intron_variant,,ENST00000534553,;BEST1,intron_variant,,ENST00000435278,;BEST1,upstream_gene_variant,,ENST00000526988,;BEST1,intron_variant,,ENST00000524877,;BEST1,intron_variant,,ENST00000524926,;BEST1,intron_variant,,ENST00000529265,;BEST1,intron_variant,,ENST00000533521,;"	"-"	"ENSG00000167995"	"ENST00000449131"	"Transcript"	"intron_variant"	"-/4267"	"-/1815"	"-/604"	""	""	"rs72188115"	"1"	NA	1	"BEST1"	"HGNC"	12703	"protein_coding"	"YES"	"CCDS44623.1"	"ENSP00000399709"	"O76090"	"G8JLA7"	"UPI0000232791"	"NM_001139443.1"	NA	NA	""	"1/8"	""	"AGAGAGAGAG:0.0743"	"-:0.8593"	"-:0.9179"	NA	"-:0.996"	"-:0.8986"	"-:0.9765"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"21"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAAGAGAGAGAGA"	"77100e1e-280f-11e6-891b-fbd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3214"	"ASRGL1"	80150	"mskcc.org"	"GRCh37"	"11"	62124696	62124697	"+"	"Intron"	"INS"	"-"	"-"	"TTTTG"	"rs143687152"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.491+119_491+123dupTGTTT"	""	""	"ENST00000415229"	""	50	"."	3	7	"."	0	"ASRGL1,intron_variant,,ENST00000415229,NM_001083926.1;ASRGL1,intron_variant,,ENST00000301776,NM_025080.3;ASRGL1,intron_variant,,ENST00000535727,;ASRGL1,intron_variant,,ENST00000528206,;ASRGL1,downstream_gene_variant,,ENST00000526096,;ASRGL1,intron_variant,,ENST00000534183,;ASRGL1,intron_variant,,ENST00000529226,;ASRGL1,downstream_gene_variant,,ENST00000534571,;"	"TTTTG"	"ENSG00000162174"	"ENST00000415229"	"Transcript"	"intron_variant"	"-/2268"	"-/927"	"-/308"	""	""	"rs143687152"	"1"	NA	1	"ASRGL1"	"HGNC"	16448	"protein_coding"	"YES"	"CCDS8019.1"	"ENSP00000400057"	"Q7L266"	"Q9BRH2"	"UPI000004BF00"	"NM_001083926.1"	NA	NA	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"43"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"983bec02-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.06	"WXS"	FALSE
"3215"	"SLC3A2"	6520	"mskcc.org"	"GRCh37"	"11"	62650688	62650689	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs148336191"	NA	"JHCCPT5"	"JHCCPN5"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.996+219_996+220delCT"	""	""	"ENST00000377891"	""	30	"."	12	9	"."	0	"SLC3A2,intron_variant,,ENST00000377892,;SLC3A2,intron_variant,,ENST00000377891,NM_001012662.2;SLC3A2,intron_variant,,ENST00000377890,NM_002394.5;SLC3A2,intron_variant,,ENST00000535296,;SLC3A2,intron_variant,,ENST00000377889,NM_001012664.2;SLC3A2,intron_variant,,ENST00000338663,NM_001013251.2;SLC3A2,intron_variant,,ENST00000536981,;SLC3A2,intron_variant,,ENST00000539891,;SLC3A2,downstream_gene_variant,,ENST00000538084,;SLC3A2,downstream_gene_variant,,ENST00000544377,;SLC3A2,downstream_gene_variant,,ENST00000539458,;SLC3A2,upstream_gene_variant,,ENST00000539507,;SLC3A2,downstream_gene_variant,,ENST00000541372,;SLC3A2,intron_variant,,ENST00000538682,;SLC3A2,intron_variant,,ENST00000457660,;SLC3A2,intron_variant,,ENST00000537839,;SLC3A2,intron_variant,,ENST00000537508,;SLC3A2,intron_variant,,ENST00000546253,;SLC3A2,intron_variant,,ENST00000541425,;SLC3A2,intron_variant,,ENST00000546312,;SLC3A2,upstream_gene_variant,,ENST00000542922,;SLC3A2,upstream_gene_variant,,ENST00000535768,;SLC3A2,upstream_gene_variant,,ENST00000542793,;SLC3A2,downstream_gene_variant,,ENST00000541649,;"	"-"	"ENSG00000168003"	"ENST00000377891"	"Transcript"	"intron_variant"	"-/2222"	"-/1896"	"-/631"	""	""	"rs148336191"	"1"	NA	1	"SLC3A2"	"HGNC"	11026	"protein_coding"	"YES"	"CCDS31588.1"	"ENSP00000367123"	""	"J3KPF3,F5H867,F5H056,F5GZI0,B4E2Z3"	"UPI00004EC298"	"NM_001012662.2"	NA	NA	""	"6/11"	""	"-:0.1270"	"-:0.0151"	"-:0.1282"	NA	"-:0.2044"	"-:0.2515"	"-:0.0695"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACTC"	"781d639c-280f-11e6-891b-fbd3414a729f"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3216"	"PLA2G16"	11145	"mskcc.org"	"GRCh37"	"11"	63357427	63357432	"+"	"Intron"	"DEL"	"CCTTGT"	"CCTTGT"	"-"	"rs71468633"	NA	"JHCCPT5"	"JHCCPN5"	"CCTTGT"	"CCTTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.387+140_387+145delACAAGG"	""	""	"ENST00000323646"	""	9	"."	4	6	"."	0	"PLA2G16,intron_variant,,ENST00000323646,NM_007069.3;PLA2G16,intron_variant,,ENST00000415826,NM_001128203.1;PLA2G16,downstream_gene_variant,,ENST00000540943,;PLA2G16,intron_variant,,ENST00000394613,;PLA2G16,downstream_gene_variant,,ENST00000544269,;"	"-"	"ENSG00000176485"	"ENST00000323646"	"Transcript"	"intron_variant"	"-/2594"	"-/489"	"-/162"	""	""	"rs71468633"	"1"	NA	-1	"PLA2G16"	"HGNC"	17825	"protein_coding"	"YES"	"CCDS8047.1"	"ENSP00000320337"	"P53816"	"F5H7E5"	"UPI000012CBE4"	"NM_007069.3"	NA	NA	""	"3/3"	""	"-:0.4986"	"-:0.7579"	"-:0.4827"	NA	"-:0.3968"	"-:0.3817"	"-:0.3845"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACCCTTGTC"	"7842a440-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3217"	"MARK2"	2011	"mskcc.org"	"GRCh37"	"11"	63666705	63666706	"+"	"Intron"	"INS"	"-"	"-"	"TTTC"	"rs536426137"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.531+141_531+144dupCTTT"	""	""	"ENST00000402010"	""	54	"."	3	23	"."	0	"MARK2,intron_variant,,ENST00000402010,NM_001039469.2;MARK2,intron_variant,,ENST00000315032,;MARK2,intron_variant,,ENST00000377809,;MARK2,intron_variant,,ENST00000413835,;MARK2,intron_variant,,ENST00000377810,NM_004954.4;MARK2,intron_variant,,ENST00000361128,NM_001163296.1;MARK2,intron_variant,,ENST00000508192,;MARK2,intron_variant,,ENST00000350490,NM_001163297.1;MARK2,intron_variant,,ENST00000502399,;MARK2,intron_variant,,ENST00000509502,NM_017490.3;MARK2,intron_variant,,ENST00000513765,;MARK2,intron_variant,,ENST00000408948,;MARK2,intron_variant,,ENST00000425897,;MARK2,intron_variant,,ENST00000543220,;MARK2,downstream_gene_variant,,ENST00000540169,;MARK2,downstream_gene_variant,,ENST00000543674,;MARK2,downstream_gene_variant,,ENST00000512060,;MARK2,upstream_gene_variant,,ENST00000535116,;"	"TTTC"	"ENSG00000072518"	"ENST00000402010"	"Transcript"	"intron_variant"	"-/4728"	"-/2367"	"-/788"	""	""	"rs536426137"	"1"	NA	1	"MARK2"	"HGNC"	3332	"protein_coding"	"YES"	"CCDS53649.1"	"ENSP00000385751"	"Q7KZI7"	"Q5DNC6,F5H6N2,F5H4F6"	"UPI00004F6F00"	"NM_001039469.2"	NA	NA	""	"7/18"	""	"TTTC:0.0074"	"TTTC:0.0023"	"TTTC:0.0058"	NA	"TTTC:0.001"	"TTTC:0.0239"	"TTTC:0.0051"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"19"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"98d17916-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WXS"	FALSE
"3218"	"NRXN2"	9379	"mskcc.org"	"GRCh37"	"11"	64449285	64449286	"+"	"Intron"	"INS"	"-"	"GGCAC"	"GGCAC"	"rs112713741"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1152+3832_1152+3833insGTGCC"	""	""	"ENST00000265459"	""	8	"."	6	3	"."	0	"NRXN2,intron_variant,,ENST00000265459,NM_015080.3;NRXN2,intron_variant,,ENST00000377559,NM_138732.2;NRXN2,intron_variant,,ENST00000409571,;NRXN2,intron_variant,,ENST00000377551,;NRXN2,intron_variant,,ENST00000442300,;NRXN2,intron_variant,,ENST00000437746,;NRXN2,intron_variant,,ENST00000417749,;NRXN2,intron_variant,,ENST00000466324,;"	"GGCAC"	"ENSG00000110076"	"ENST00000265459"	"Transcript"	"intron_variant"	"-/6621"	"-/5139"	"-/1712"	""	""	"rs112713741"	"1"	NA	-1	"NRXN2"	"HGNC"	8009	"protein_coding"	"YES"	"CCDS8077.1"	"ENSP00000265459"	"Q9P2S2"	""	"UPI0000130AA2"	"NM_015080.3"	NA	NA	""	"6/22"	""	"-:0.0174"	"GGCAC:0.9357"	"GGCAC:0.9971"	NA	"GGCAC:1"	"GGCAC:1"	"GGCAC:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"99191a46-280f-11e6-891b-fbd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"3219"	"SCYL1"	57410	"mskcc.org"	"GRCh37"	"11"	65303022	65303023	"+"	"Intron"	"DEL"	"CA"	"CA"	"-"	"rs3831381"	NA	"JHCCPT5"	"JHCCPN5"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1386+173_1386+174delCA"	""	""	"ENST00000270176"	""	20	"."	5	9	"."	0	"SCYL1,intron_variant,,ENST00000524944,;SCYL1,intron_variant,,ENST00000270176,NM_020680.3;SCYL1,intron_variant,,ENST00000527009,;SCYL1,intron_variant,,ENST00000525364,;SCYL1,intron_variant,,ENST00000420247,NM_001048218.1;SCYL1,intron_variant,,ENST00000533862,;SCYL1,intron_variant,,ENST00000279270,;LTBP3,downstream_gene_variant,,ENST00000301873,NM_001130144.2;LTBP3,downstream_gene_variant,,ENST00000322147,NM_001164266.1,NM_021070.4;LTBP3,downstream_gene_variant,,ENST00000530866,;LTBP3,downstream_gene_variant,,ENST00000532932,;LTBP3,downstream_gene_variant,,ENST00000526927,;LTBP3,downstream_gene_variant,,ENST00000536982,;LTBP3,downstream_gene_variant,,ENST00000530785,;LTBP3,downstream_gene_variant,,ENST00000529189,;SCYL1,upstream_gene_variant,,ENST00000528545,;LTBP3,downstream_gene_variant,,ENST00000532661,;LTBP3,downstream_gene_variant,,ENST00000529371,;SCYL1,upstream_gene_variant,,ENST00000534462,;SCYL1,non_coding_transcript_exon_variant,,ENST00000526454,;SCYL1,non_coding_transcript_exon_variant,,ENST00000529981,;SCYL1,intron_variant,,ENST00000531601,;SCYL1,intron_variant,,ENST00000524897,;LTBP3,downstream_gene_variant,,ENST00000528516,;LTBP3,downstream_gene_variant,,ENST00000529582,;SCYL1,upstream_gene_variant,,ENST00000532290,;SCYL1,downstream_gene_variant,,ENST00000529178,;"	"-"	"ENSG00000142186"	"ENST00000270176"	"Transcript"	"intron_variant"	"-/2642"	"-/2427"	"-/808"	""	""	"rs3831381"	"1"	NA	1	"SCYL1"	"HGNC"	14372	"protein_coding"	"YES"	"CCDS41672.1"	"ENSP00000270176"	"Q96KG9"	"E9PPN3"	"UPI0000035B94"	"NM_020680.3"	NA	NA	""	"10/17"	""	"-:0.1398"	"-:0.1089"	"-:0.1311"	NA	"-:0.1746"	"-:0.1948"	"-:0.0951"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTCAC"	"7a43a546-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3220"	"LRP5"	4041	"mskcc.org"	"GRCh37"	"11"	68132743	68132744	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs535431991"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.884-295dupG"	""	""	"ENST00000294304"	""	7	"."	5	2	"."	0	"LRP5,intron_variant,,ENST00000294304,NM_002335.2;LRP5,intron_variant,,ENST00000529993,;"	"G"	"ENSG00000162337"	"ENST00000294304"	"Transcript"	"intron_variant"	"-/5159"	"-/4848"	"-/1615"	""	""	"rs535431991"	"1"	NA	1	"LRP5"	"HGNC"	6697	"protein_coding"	"YES"	"CCDS8181.1"	"ENSP00000294304"	"O75197"	"E9PHY1"	"UPI0000073246"	"NM_002335.2"	NA	NA	""	"4/22"	""	"-:0.0002"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"9b733de4-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3221"	"LRP5"	4041	"mskcc.org"	"GRCh37"	"11"	68204021	68204022	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs538010414"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4001-329dupC"	""	""	"ENST00000294304"	""	10	"."	4	7	"."	0	"LRP5,intron_variant,,ENST00000294304,NM_002335.2;LRP5,upstream_gene_variant,,ENST00000529702,;LRP5,intron_variant,,ENST00000529993,;LRP5,upstream_gene_variant,,ENST00000533695,;"	"C"	"ENSG00000162337"	"ENST00000294304"	"Transcript"	"intron_variant"	"-/5159"	"-/4848"	"-/1615"	""	""	"rs538010414"	"1"	NA	1	"LRP5"	"HGNC"	6697	"protein_coding"	"YES"	"CCDS8181.1"	"ENSP00000294304"	"O75197"	"E9PHY1"	"UPI0000073246"	"NM_002335.2"	NA	NA	""	"18/22"	""	"C:0.0972"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"9b866130-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3222"	"IFITM9P"	0	"mskcc.org"	"GRCh37"	"11"	69070497	69070498	"+"	"3'Flank"	"INS"	"-"	"-"	"G"	"rs142727454"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000535743"	""	16	"."	3	6	"."	0	"MYEOV,intron_variant,,ENST00000544008,;MYEOV,intron_variant,,ENST00000544781,;IFITM9P,downstream_gene_variant,,ENST00000535743,;"	"G"	"ENSG00000213275"	"ENST00000535743"	"Transcript"	"downstream_gene_variant"	"-/396"	""	""	""	""	"rs142727454"	"1"	"381"	-1	"IFITM9P"	"HGNC"	33972	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"9bcd7fde-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"3223"	"FGF19"	9965	"mskcc.org"	"GRCh37"	"11"	69515534	69515535	"+"	"Intron"	"INS"	"-"	"-"	"CCAGG"	"rs149065170"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.337-1195_337-1191dupCCTGG"	""	""	"ENST00000294312"	""	10	"."	4	1	"."	0	"FGF19,intron_variant,,ENST00000294312,NM_005117.2;"	"CCAGG"	"ENSG00000162344"	"ENST00000294312"	"Transcript"	"intron_variant"	"-/2447"	"-/651"	"-/216"	""	""	"rs149065170"	"1"	NA	-1	"FGF19"	"HGNC"	3675	"protein_coding"	"YES"	"CCDS8193.1"	"ENSP00000294312"	"O95750"	""	"UPI0000037216"	"NM_005117.2"	NA	NA	""	"2/2"	""	"-:0.1334"	"CCAGG:0.8835"	"CCAGG:0.9049"	NA	"CCAGG:0.874"	"CCAGG:0.8549"	"CCAGG:0.8211"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"9bd470e6-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3224"	"ENSR00001620487"	0	"mskcc.org"	"GRCh37"	"11"	69715010	69715011	"+"	"IGR"	"INS"	"-"	"-"	"AAAGA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001620487"	""	17	"."	3	2	"."	0	""	"AAAGA"	""	"ENSR00001620487"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"9bdb58b6-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"3225"	"FADD"	8772	"mskcc.org"	"GRCh37"	"11"	70053123	70053124	"+"	"3'UTR"	"INS"	"-"	"-"	"TGT"	"rs4197"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*545_*547dupTGT"	""	""	"ENST00000301838"	"2/2"	9	"."	4	4	"."	0	"FADD,3_prime_UTR_variant,,ENST00000301838,NM_003824.3;RP11-805J14.5,intron_variant,,ENST00000526174,;RP11-805J14.5,intron_variant,,ENST00000527232,;"	"TGT"	"ENSG00000168040"	"ENST00000301838"	"Transcript"	"3_prime_UTR_variant"	"1468-1469/1841"	"-/627"	"-/208"	""	""	"rs4197"	"1"	NA	1	"FADD"	"HGNC"	3573	"protein_coding"	"YES"	"CCDS8196.1"	"ENSP00000301838"	"Q13158"	"Q6LCG1,Q6LCB0"	"UPI000012A4D1"	"NM_003824.3"	NA	NA	"2/2"	""	""	"TGT:0.4653"	"TGT:0.323"	"TGT:0.4251"	NA	"TGT:0.6448"	"TGT:0.5219"	"TGT:0.4427"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"9bee9430-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3226"	"AP002387.1"	399923	"mskcc.org"	"GRCh37"	"11"	71121840	71121842	"+"	"Intron"	"DEL"	"TGA"	"TGA"	"-"	"rs142254680"	NA	"JHCCPT5"	"JHCCPN5"	"TGA"	"TGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.126-3014_126-3012delTCA"	""	""	"ENST00000331301"	""	21	"."	6	6	"."	0	"AP002387.1,intron_variant,,ENST00000331301,;AP002387.1,downstream_gene_variant,,ENST00000508543,;AP002387.1,upstream_gene_variant,,ENST00000460880,;"	"-"	"ENSG00000172900"	"ENST00000331301"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2162"	""	""	""	""	"rs142254680"	"1"	NA	-1	"AP002387.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	"-:0.2684"	"-:0.2481"	"-:0.2176"	NA	"-:0.2103"	"-:0.2783"	"-:0.3814"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTGAT"	"7d31b00e-280f-11e6-891b-fbd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3227"	"PDE2A"	5138	"mskcc.org"	"GRCh37"	"11"	72330097	72330098	"+"	"Intron"	"DEL"	"CA"	"CA"	"-"	"rs141623815"	NA	"JHCCPT5"	"JHCCPN5"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.145-10303_145-10302delTG"	""	""	"ENST00000334456"	""	11	"."	3	3	"."	0	"PDE2A,intron_variant,,ENST00000334456,NM_002599.4;PDE2A,intron_variant,,ENST00000444035,;PDE2A,intron_variant,,ENST00000376450,;PDE2A,intron_variant,,ENST00000544570,NM_001243784.1,NM_001143839.3;PDE2A,intron_variant,,ENST00000540345,NM_001146209.2;PDE2A,intron_variant,,ENST00000418754,;PDE2A,intron_variant,,ENST00000542969,;PDE2A,intron_variant,,ENST00000538749,;MIR139,upstream_gene_variant,,ENST00000606837,;RNU7-105P,upstream_gene_variant,,ENST00000516110,;PDE2A,intron_variant,,ENST00000540380,;PDE2A,intron_variant,,ENST00000485058,;PDE2A,intron_variant,,ENST00000539367,;PDE2A,intron_variant,,ENST00000536308,;PDE2A,intron_variant,,ENST00000541998,;PDE2A,intron_variant,,ENST00000543750,;PDE2A,intron_variant,,ENST00000543575,;PDE2A,intron_variant,,ENST00000535701,;PDE2A,intron_variant,,ENST00000537631,;"	"-"	"ENSG00000186642"	"ENST00000334456"	"Transcript"	"intron_variant"	"-/4315"	"-/2826"	"-/941"	""	""	"rs141623815"	"1"	NA	-1	"PDE2A"	"HGNC"	8777	"protein_coding"	"YES"	"CCDS8216.1"	"ENSP00000334910"	"O00408"	"F5GXX2,C9JPD5"	"UPI000003B340"	"NM_002599.4"	NA	NA	""	"2/30"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCAC"	"7d9c98ba-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"3228"	"C2CD3"	26005	"mskcc.org"	"GRCh37"	"11"	73879124	73879125	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs61072997"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.325+264dupT"	""	""	"ENST00000313663"	""	14	"."	4	4	"."	0	"C2CD3,intron_variant,,ENST00000334126,NM_001286577.1;C2CD3,intron_variant,,ENST00000313663,NM_015531.4;C2CD3,intron_variant,,ENST00000539061,;C2CD3,intron_variant,,ENST00000535954,;PPME1,upstream_gene_variant,,ENST00000328257,NM_016147.2,NM_001271593.1;PPME1,upstream_gene_variant,,ENST00000398427,;PPME1,upstream_gene_variant,,ENST00000544401,;C2CD3,intron_variant,,ENST00000541922,;PPME1,upstream_gene_variant,,ENST00000542710,;C2CD3,non_coding_transcript_exon_variant,,ENST00000544293,;C2CD3,intron_variant,,ENST00000415191,;C2CD3,downstream_gene_variant,,ENST00000542930,;"	"A"	"ENSG00000168014"	"ENST00000313663"	"Transcript"	"intron_variant"	"-/6283"	"-/5892"	"-/1963"	""	""	"rs61072997"	"1"	NA	-1	"C2CD3"	"HGNC"	24564	"protein_coding"	"YES"	"CCDS31636.1"	"ENSP00000323339"	"Q4AC94"	""	"UPI0000D62650"	"NM_015531.4"	NA	NA	""	"2/30"	""	"A:0.2750"	"A:0.4569"	"A:0.1225"	NA	"A:0.2798"	"A:0.1819"	"A:0.228"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"9cc59f34-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3229"	"PGM2L1"	283209	"mskcc.org"	"GRCh37"	"11"	74038866	74038866	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"rs142965718"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000298198"	""	7	"."	4	1	"."	0	"PGM2L1,downstream_gene_variant,,ENST00000298198,NM_173582.3;RP11-632K5.3,downstream_gene_variant,,ENST00000502071,;"	"-"	"ENSG00000165434"	"ENST00000298198"	"Transcript"	"downstream_gene_variant"	"-/8515"	"-/1869"	"-/622"	""	""	"rs142965718"	"1"	"2497"	-1	"PGM2L1"	"HGNC"	20898	"protein_coding"	"YES"	"CCDS8231.1"	"ENSP00000298198"	"Q6PCE3"	""	"UPI0000072053"	"NM_173582.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGT"	"7e204ad4-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3230"	"PGM2L1"	283209	"mskcc.org"	"GRCh37"	"11"	74049932	74049935	"+"	"Intron"	"DEL"	"TAGT"	"TAGT"	"-"	"rs567463375"	NA	"JHCCPT5"	"JHCCPN5"	"TAGT"	"TAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1633-289_1633-286delACTA"	""	""	"ENST00000298198"	""	12	"."	3	3	"."	0	"PGM2L1,intron_variant,,ENST00000298198,NM_173582.3;"	"-"	"ENSG00000165434"	"ENST00000298198"	"Transcript"	"intron_variant"	"-/8515"	"-/1869"	"-/622"	""	""	"rs567463375"	"1"	NA	-1	"PGM2L1"	"HGNC"	20898	"protein_coding"	"YES"	"CCDS8231.1"	"ENSP00000298198"	"Q6PCE3"	""	"UPI0000072053"	"NM_173582.3"	NA	NA	""	"12/13"	""	"-:0.0028"	"-:0"	"-:0.0043"	NA	"-:0"	"-:0.007"	"-:0.0041"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATAGTT"	"7e28d62c-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3231"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	76764133	76764133	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs139641502"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	6	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139641502"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0543"	"-:0.0469"	"-:0.0418"	NA	"-:0.0794"	"-:0.0368"	"-:0.0654"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTG"	"7ee6afb2-280f-11e6-891b-fbd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"3232"	"MYO7A"	4647	"mskcc.org"	"GRCh37"	"11"	76908987	76908987	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs11328077"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4441+345delG"	""	""	"ENST00000409709"	""	15	"."	10	2	"."	0	"MYO7A,intron_variant,,ENST00000409709,NM_000260.3;MYO7A,intron_variant,,ENST00000458637,NM_001127180.1;MYO7A,intron_variant,,ENST00000409619,;MYO7A,intron_variant,,ENST00000458169,;MYO7A,intron_variant,,ENST00000481328,;"	"-"	"ENSG00000137474"	"ENST00000409709"	"Transcript"	"intron_variant"	"-/7462"	"-/6648"	"-/2215"	""	""	"rs11328077"	"1"	NA	1	"MYO7A"	"HGNC"	7606	"protein_coding"	"YES"	"CCDS53683.1"	"ENSP00000386331"	"Q13402"	""	"UPI00001FAFE6"	"NM_000260.3"	NA	NA	""	"33/48"	""	"-:0.4866"	"-:0.5144"	"-:0.6124"	NA	"-:0.4494"	"-:0.5517"	"-:0.3313"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTGG"	"7f0e5da0-280f-11e6-891b-fbd3414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3233"	"AQP11"	282679	"mskcc.org"	"GRCh37"	"11"	77300817	77300818	"+"	"5'UTR"	"INS"	"-"	"-"	"CG"	"rs370259820"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-219_-218dupGC"	""	""	"ENST00000313578"	"1/3"	22	"."	3	5	"."	0	"AQP11,5_prime_UTR_variant,,ENST00000313578,NM_173039.2;AQP11,intron_variant,,ENST00000528638,;CLNS1A,intron_variant,,ENST00000526761,;"	"CG"	"ENSG00000178301"	"ENST00000313578"	"Transcript"	"5_prime_UTR_variant"	"138-139/2152"	"-/816"	"-/271"	""	""	"rs370259820"	"1"	NA	1	"AQP11"	"HGNC"	19940	"protein_coding"	"YES"	"CCDS8251.1"	"ENSP00000318770"	"Q8NBQ7"	""	"UPI000003B106"	"NM_173039.2"	NA	NA	"1/3"	""	""	"CG:0.1474"	"CG:0.0938"	"CG:0.1614"	NA	"CG:0.0992"	"CG:0.2247"	"CG:0.18"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"9d4a5008-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"3234"	"INTS4"	92105	"mskcc.org"	"GRCh37"	"11"	77619130	77619131	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs5792784"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1923-275dupT"	""	""	"ENST00000534064"	""	9	"."	3	3	"."	0	"INTS4,intron_variant,,ENST00000534064,NM_033547.3;INTS4,intron_variant,,ENST00000535943,;AAMDC,intron_variant,,ENST00000532481,;INTS4,intron_variant,,ENST00000525268,;INTS4,intron_variant,,ENST00000433818,;INTS4,intron_variant,,ENST00000533180,;"	"A"	"ENSG00000149262"	"ENST00000534064"	"Transcript"	"intron_variant"	"-/3156"	"-/2892"	"-/963"	""	""	"rs5792784"	"1"	NA	-1	"INTS4"	"HGNC"	25048	"protein_coding"	"YES"	"CCDS31644.1"	"ENSP00000434466"	"Q96HW7"	""	"UPI00001FB00A"	"NM_033547.3"	NA	NA	""	"15/22"	""	"-:0.0000"	"A:1"	"A:1"	NA	"A:1"	"A:1"	"A:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"9d4f850a-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3235"	"TENM4"	26011	"mskcc.org"	"GRCh37"	"11"	78673375	78673375	"+"	"Intron"	"DEL"	"A"	"-"	"-"	"rs5792829"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.494-58807delT"	""	""	"ENST00000278550"	""	9	"."	7	1	"."	0	"TENM4,intron_variant,,ENST00000278550,NM_001098816.2;TENM4,intron_variant,,ENST00000529798,;TENM4,upstream_gene_variant,,ENST00000533013,;"	"-"	"ENSG00000149256"	"ENST00000278550"	"Transcript"	"intron_variant"	"-/14000"	"-/8310"	"-/2769"	""	""	"rs5792829"	"1"	NA	-1	"TENM4"	"HGNC"	29945	"protein_coding"	"YES"	"CCDS44688.1"	"ENSP00000278550"	"Q6N022"	"G3CAT1"	"UPI0000DD8112"	"NM_001098816.2"	NA	NA	""	"6/33"	""	"A:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAG"	"7f54e13a-280f-11e6-891b-fbd3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	FALSE
"3236"	"TENM4"	26011	"mskcc.org"	"GRCh37"	"11"	79044292	79044293	"+"	"Intron"	"INS"	"-"	"-"	"ATCC"	"rs34059534"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-320-35708_-320-35705dupGGAT"	""	""	"ENST00000278550"	""	14	"."	5	7	"."	0	"TENM4,intron_variant,,ENST00000278550,NM_001098816.2;TENM4,intron_variant,,ENST00000531583,;TENM4,intron_variant,,ENST00000528688,;"	"ATCC"	"ENSG00000149256"	"ENST00000278550"	"Transcript"	"intron_variant"	"-/14000"	"-/8310"	"-/2769"	""	""	"rs34059534"	"1"	NA	-1	"TENM4"	"HGNC"	29945	"protein_coding"	"YES"	"CCDS44688.1"	"ENSP00000278550"	"Q6N022"	"G3CAT1"	"UPI0000DD8112"	"NM_001098816.2"	NA	NA	""	"1/33"	""	"ATCC:0.3437"	"ATCC:0.2678"	"ATCC:0.304"	NA	"ATCC:0.2579"	"ATCC:0.3956"	"ATCC:0.5092"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"9d77ce5c-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"3237"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	79261275	79261276	"+"	"IGR"	"INS"	"-"	"-"	"TGG"	"rs141150257"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	24	"."	4	2	"."	0	""	"TGG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141150257"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TGG:0.0046"	"TGG:0"	"TGG:0"	NA	"TGG:0"	"TGG:0"	"TGG:0.0235"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"9d7ffbe0-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3238"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	79845841	79845842	"+"	"IGR"	"DEL"	"AT"	"AT"	"-"	"rs55692462"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	29	"."	10	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs55692462"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1467"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATG"	"7f5d4e06-280f-11e6-891b-fbd3414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344827586206897	"WXS"	FALSE
"3239"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	81304568	81304569	"+"	"IGR"	"INS"	"-"	"-"	"CACACACACCACCAC"	"rs770909770"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	24	"."	4	5	"."	0	""	"CACACACACCACCAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs770909770"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"9d8f815a-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3240"	"DLG2"	1740	"mskcc.org"	"GRCh37"	"11"	83253121	83253121	"+"	"Intron"	"DEL"	"T"	"-"	"-"	"rs3214598"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1941-220delA"	""	""	"ENST00000376104"	""	10	"."	7	1	"."	0	"DLG2,intron_variant,,ENST00000398309,NM_001364.3;DLG2,intron_variant,,ENST00000426717,NM_001142702.1;DLG2,intron_variant,,ENST00000376104,NM_001142699.1;DLG2,intron_variant,,ENST00000543673,;DLG2,intron_variant,,ENST00000280241,NM_001206769.1;DLG2,intron_variant,,ENST00000418306,NM_001142700.1;DLG2,intron_variant,,ENST00000531015,;DLG2,intron_variant,,ENST00000532653,;DLG2,intron_variant,,ENST00000524982,;DLG2,intron_variant,,ENST00000537455,;DLG2,intron_variant,,ENST00000330014,;DLG2,intron_variant,,ENST00000376106,;DLG2,intron_variant,,ENST00000404783,;DLG2,intron_variant,,ENST00000420775,;DLG2,intron_variant,,ENST00000398304,;DLG2,intron_variant,,ENST00000530800,;DLG2,intron_variant,,ENST00000529399,;DLG2,intron_variant,,ENST00000524601,;DLG2,intron_variant,,ENST00000434967,;"	"-"	"ENSG00000150672"	"ENST00000376104"	"Transcript"	"intron_variant"	"-/5139"	"-/2928"	"-/975"	""	""	"rs3214598"	"1"	NA	-1	"DLG2"	"HGNC"	2901	"protein_coding"	"YES"	"CCDS44690.1"	"ENSP00000365272"	"Q15700"	"F8W750,E9PQT9"	"UPI0000E59399"	"NM_001142699.1"	NA	NA	""	"19/27"	""	"T:0.3632"	"-:0.7549"	"-:0.464"	NA	"-:0.5556"	"-:0.661"	"-:0.6585"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATT"	"7fbc9ed8-280f-11e6-891b-fbd3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"3241"	"DLG2"	1740	"mskcc.org"	"GRCh37"	"11"	83585243	83585246	"+"	"Intron"	"DEL"	"AGAA"	"AGAA"	"-"	"rs142349827"	NA	"JHCCPT5"	"JHCCPN5"	"AGAA"	"AGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1565+217_1565+220delTTCT"	""	""	"ENST00000376104"	""	40	"."	5	12	"."	0	"DLG2,intron_variant,,ENST00000398309,NM_001364.3;DLG2,intron_variant,,ENST00000376104,NM_001142699.1;DLG2,intron_variant,,ENST00000543673,;DLG2,intron_variant,,ENST00000280241,NM_001206769.1;DLG2,intron_variant,,ENST00000418306,NM_001142700.1;DLG2,intron_variant,,ENST00000531015,;DLG2,intron_variant,,ENST00000532653,;DLG2,intron_variant,,ENST00000524982,;DLG2,intron_variant,,ENST00000537455,;DLG2,intron_variant,,ENST00000330014,;DLG2,intron_variant,,ENST00000376106,;DLG2,intron_variant,,ENST00000398301,;DLG2,intron_variant,,ENST00000529111,;"	"-"	"ENSG00000150672"	"ENST00000376104"	"Transcript"	"intron_variant"	"-/5139"	"-/2928"	"-/975"	""	""	"rs142349827"	"1"	NA	-1	"DLG2"	"HGNC"	2901	"protein_coding"	"YES"	"CCDS44690.1"	"ENSP00000365272"	"Q15700"	"F8W750,E9PQT9"	"UPI0000E59399"	"NM_001142699.1"	NA	NA	""	"16/27"	""	"-:0.4203"	"-:0.3903"	"-:0.3012"	NA	"-:0.4256"	"-:0.3917"	"-:0.5695"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGAAA"	"7fbd9e32-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"3242"	"EED"	8726	"mskcc.org"	"GRCh37"	"11"	85979636	85979637	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.966+60_966+65dupGTGTGT"	""	""	"ENST00000263360"	""	86	"."	3	34	"."	0	"EED,intron_variant,,ENST00000263360,NM_003797.3;EED,intron_variant,,ENST00000327320,NM_152991.2;EED,intron_variant,,ENST00000528180,;EED,intron_variant,,ENST00000351625,;EED,intron_variant,,ENST00000534595,;EED,intron_variant,,ENST00000534564,;EED,intron_variant,,ENST00000525244,;EED,intron_variant,,ENST00000524673,;EED,downstream_gene_variant,,ENST00000533228,;"	"GTGTGT"	"ENSG00000074266"	"ENST00000263360"	"Transcript"	"intron_variant"	"-/2223"	"-/1326"	"-/441"	""	""	""	"1"	NA	1	"EED"	"HGNC"	3188	"protein_coding"	"YES"	"CCDS8273.1"	"ENSP00000263360"	"O75530"	"E9PMU3"	"UPI00000E88CF"	"NM_003797.3"	NA	NA	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"32"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"9de03b72-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0348837209302326	"WXS"	FALSE
"3243"	"PRSS23"	11098	"mskcc.org"	"GRCh37"	"11"	86589227	86589228	"+"	"Intron"	"DEL"	"TT"	"-"	"-"	"rs142156395"	NA	"JHCCPT5"	"JHCCPN5"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.206+54592_206+54593delTT"	""	""	"ENST00000533902"	""	7	"."	5	2	"."	0	"PRSS23,intron_variant,,ENST00000533902,;PRSS23,intron_variant,,ENST00000531475,;PRSS23,intron_variant,,ENST00000533880,;PRSS23,intron_variant,,ENST00000532572,;PRSS23,intron_variant,,ENST00000532234,;"	"-"	"ENSG00000150687"	"ENST00000533902"	"Transcript"	"intron_variant"	"-/2043"	"-/276"	"-/91"	""	""	"rs142156395"	"1"	NA	1	"PRSS23"	"HGNC"	14370	"protein_coding"	""	""	"ENSP00000437268"	""	"E9PMX2"	"UPI0001EE4BF8"	""	NA	NA	""	"2/2"	""	"TT:0.4117"	"-:0.7746"	"-:0.5418"	NA	"-:0.5923"	"-:0.4294"	"-:0.5286"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTG"	"804a66fa-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3244"	"TMEM135"	65084	"mskcc.org"	"GRCh37"	"11"	86868733	86868733	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs5793242"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.462+291delA"	""	""	"ENST00000305494"	""	21	"."	11	4	"."	0	"TMEM135,intron_variant,,ENST00000340353,NM_001168724.1;TMEM135,intron_variant,,ENST00000305494,NM_022918.3;TMEM135,intron_variant,,ENST00000535167,;TMEM135,intron_variant,,ENST00000355734,;TMEM135,intron_variant,,ENST00000532959,;TMEM135,intron_variant,,ENST00000525018,;TMEM135,downstream_gene_variant,,ENST00000526733,;TMEM135,non_coding_transcript_exon_variant,,ENST00000529023,;TMEM135,downstream_gene_variant,,ENST00000531800,;"	"-"	"ENSG00000166575"	"ENST00000305494"	"Transcript"	"intron_variant"	"-/2433"	"-/1377"	"-/458"	""	""	"rs5793242"	"1"	NA	1	"TMEM135"	"HGNC"	26167	"protein_coding"	"YES"	"CCDS8280.1"	"ENSP00000306344"	"Q86UB9"	"Q7Z760,F5H254,B4DKZ1"	"UPI00001FB0C7"	"NM_022918.3"	NA	NA	""	"5/14"	""	"-:0.4625"	"-:0.4032"	"-:0.5014"	NA	"-:0.6895"	"-:0.3042"	"-:0.4438"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"806511b2-280f-11e6-891b-fbd3414a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.523809523809524	"WXS"	FALSE
"3245"	"NAALAD2"	10003	"mskcc.org"	"GRCh37"	"11"	89915803	89915804	"+"	"Intron"	"INS"	"-"	"-"	"AGAA"	"rs112463510"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1941-280_1941-277dupAGAA"	""	""	"ENST00000534061"	""	9	"."	5	4	"."	0	"NAALAD2,intron_variant,,ENST00000534061,NM_005467.3;NAALAD2,intron_variant,,ENST00000321955,;NAALAD2,intron_variant,,ENST00000375944,;"	"AGAA"	"ENSG00000077616"	"ENST00000534061"	"Transcript"	"intron_variant"	"-/3600"	"-/2223"	"-/740"	""	""	"rs112463510"	"1"	NA	1	"NAALAD2"	"HGNC"	14526	"protein_coding"	"YES"	"CCDS8288.1"	"ENSP00000432481"	"Q9Y3Q0"	"E9PJ53,E9PII2"	"UPI0000031A85"	"NM_005467.3"	NA	NA	""	"17/18"	""	"AGAA:0.4653"	"AGAA:0.5189"	"AGAA:0.5187"	NA	"AGAA:0.4137"	"AGAA:0.3648"	"AGAA:0.5112"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"9e57c142-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3246"	"CHORDC1"	26973	"mskcc.org"	"GRCh37"	"11"	89948802	89948803	"+"	"Intron"	"INS"	"-"	"TTAG"	"TTAG"	"rs137855377"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.115-408_115-405dupCTAA"	""	""	"ENST00000320585"	""	12	"."	9	2	"."	0	"CHORDC1,intron_variant,,ENST00000320585,NM_012124.2;CHORDC1,intron_variant,,ENST00000457199,NM_001144073.1;CHORDC1,intron_variant,,ENST00000530765,;CHORDC1,upstream_gene_variant,,ENST00000529987,;CHORDC1,intron_variant,,ENST00000533724,;CHORDC1,intron_variant,,ENST00000525317,;CHORDC1,intron_variant,,ENST00000529402,;CHORDC1,intron_variant,,ENST00000533062,;CHORDC1,intron_variant,,ENST00000533772,;CHORDC1,downstream_gene_variant,,ENST00000533739,;"	"TTAG"	"ENSG00000110172"	"ENST00000320585"	"Transcript"	"intron_variant"	"-/2654"	"-/999"	"-/332"	""	""	"rs137855377"	"1"	NA	-1	"CHORDC1"	"HGNC"	14525	"protein_coding"	"YES"	"CCDS8289.1"	"ENSP00000319255"	"Q9UHD1"	"E9PHZ2"	"UPI000013F1A2"	"NM_012124.2"	NA	NA	""	"2/10"	""	"TTAG:0.4575"	"TTAG:0.289"	"TTAG:0.5101"	NA	"TTAG:0.5605"	"TTAG:0.4294"	"TTAG:0.5706"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"9e5d5968-280f-11e6-891b-fbd3414a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"3247"	"CHORDC1"	26973	"mskcc.org"	"GRCh37"	"11"	89951367	89951367	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.65-15delC"	""	""	"ENST00000320585"	""	147	"."	4	20	"."	0	"CHORDC1,intron_variant,,ENST00000320585,NM_012124.2;CHORDC1,intron_variant,,ENST00000457199,NM_001144073.1;CHORDC1,intron_variant,,ENST00000530765,;CHORDC1,intron_variant,,ENST00000533724,;CHORDC1,intron_variant,,ENST00000525317,;CHORDC1,intron_variant,,ENST00000529402,;CHORDC1,intron_variant,,ENST00000533739,;CHORDC1,intron_variant,,ENST00000533062,;CHORDC1,intron_variant,,ENST00000533772,;"	"-"	"ENSG00000110172"	"ENST00000320585"	"Transcript"	"intron_variant"	"-/2654"	"-/999"	"-/332"	""	""	""	"1"	NA	-1	"CHORDC1"	"HGNC"	14525	"protein_coding"	"YES"	"CCDS8289.1"	"ENSP00000319255"	"Q9UHD1"	"E9PHZ2"	"UPI000013F1A2"	"NM_012124.2"	NA	NA	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGA"	"80cfe618-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0272108843537415	"WXS"	FALSE
"3248"	"FAT3"	120114	"mskcc.org"	"GRCh37"	"11"	92615751	92615752	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs757060368"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.12282-143dupC"	""	""	"ENST00000298047"	""	52	"."	5	27	"."	0	"FAT3,intron_variant,,ENST00000298047,;FAT3,intron_variant,,ENST00000409404,NM_001008781.2;FAT3,intron_variant,,ENST00000525166,;FAT3,intron_variant,,ENST00000533797,;FAT3,upstream_gene_variant,,ENST00000489716,;FAT3,upstream_gene_variant,,ENST00000469900,;"	"C"	"ENSG00000165323"	"ENST00000298047"	"Transcript"	"intron_variant"	"-/19126"	"-/13770"	"-/4589"	""	""	"rs757060368"	"1"	NA	1	"FAT3"	"HGNC"	23112	"protein_coding"	"YES"	""	"ENSP00000298047"	"Q8TDW7"	"E9PQ73"	"UPI000050B6C6"	""	NA	NA	""	"22/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"9e7d7842-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0961538461538462	"WXS"	FALSE
"3249"	"KIAA1731"	85459	"mskcc.org"	"GRCh37"	"11"	93421744	93421744	"+"	"Intron"	"DEL"	"G"	"-"	"-"	"rs5793652"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1336+714delG"	""	""	"ENST00000325212"	""	6	"."	5	1	"."	0	"KIAA1731,intron_variant,,ENST00000325212,;KIAA1731,intron_variant,,ENST00000411936,NM_033395.1;KIAA1731,intron_variant,,ENST00000344196,;KIAA1731,upstream_gene_variant,,ENST00000531877,;KIAA1731,upstream_gene_variant,,ENST00000531622,;"	"-"	"ENSG00000166004"	"ENST00000325212"	"Transcript"	"intron_variant"	"-/8055"	"-/7806"	"-/2601"	""	""	"rs5793652"	"1"	NA	1	"KIAA1731"	"HGNC"	29366	"protein_coding"	"YES"	"CCDS44708.1"	"ENSP00000316681"	"Q9C0D2"	"E9PM20"	"UPI0000251F0E"	""	NA	NA	""	"10/29"	""	"G:0.0915"	"-:0.6959"	"-:0.9553"	NA	"-:0.995"	"-:0.9901"	"-:0.9898"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGG"	"8139f08a-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3250"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	97971024	97971024	"+"	"IGR"	"DEL"	"G"	"-"	"-"	"rs71043360"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	7	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71043360"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4143"	"-:0.3101"	"-:0.5317"	NA	"-:0.2986"	"-:0.5676"	"-:0.4335"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGT"	"8233aff8-280f-11e6-891b-fbd3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"3251"	"CNTN5"	53942	"mskcc.org"	"GRCh37"	"11"	100126104	100126104	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs36106152"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2006-388delA"	""	""	"ENST00000524871"	""	7	"."	4	3	"."	0	"CNTN5,intron_variant,,ENST00000524871,NM_014361.3;CNTN5,intron_variant,,ENST00000527185,NM_001243271.1;CNTN5,intron_variant,,ENST00000528682,NM_001243270.1;CNTN5,intron_variant,,ENST00000418526,NM_175566.2;CNTN5,intron_variant,,ENST00000279463,;CNTN5,intron_variant,,ENST00000524560,;"	"-"	"ENSG00000149972"	"ENST00000524871"	"Transcript"	"intron_variant"	"-/6258"	"-/3303"	"-/1100"	""	""	"rs36106152"	"1"	NA	1	"CNTN5"	"HGNC"	2175	"protein_coding"	"YES"	"CCDS53696.1"	"ENSP00000435637"	"O94779"	"B4DGP0"	"UPI000006DAB0"	"NM_014361.3"	NA	NA	""	"16/24"	""	"-:0.2903"	"-:0.3548"	"-:0.2262"	NA	"-:0.25"	"-:0.2883"	"-:0.2924"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAT"	"8240ee2a-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3252"	"CNTN5"	53942	"mskcc.org"	"GRCh37"	"11"	100170340	100170347	"+"	"Intron"	"DEL"	"ACATCCTA"	"ACATCCTA"	"-"	"rs151101209"	NA	"JHCCPT5"	"JHCCPN5"	"ACATCCTA"	"ACATCCTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2620+215_2620+222delTCCTAACA"	""	""	"ENST00000524871"	""	16	"."	6	6	"."	0	"CNTN5,intron_variant,,ENST00000524871,NM_014361.3;CNTN5,intron_variant,,ENST00000527185,NM_001243271.1;CNTN5,intron_variant,,ENST00000528682,NM_001243270.1;CNTN5,intron_variant,,ENST00000418526,NM_175566.2;CNTN5,intron_variant,,ENST00000279463,;CNTN5,intron_variant,,ENST00000524560,;"	"-"	"ENSG00000149972"	"ENST00000524871"	"Transcript"	"intron_variant"	"-/6258"	"-/3303"	"-/1100"	""	""	"rs151101209"	"1"	NA	1	"CNTN5"	"HGNC"	2175	"protein_coding"	"YES"	"CCDS53696.1"	"ENSP00000435637"	"O94779"	"B4DGP0"	"UPI000006DAB0"	"NM_014361.3"	NA	NA	""	"20/24"	""	"-:0.0068"	"-:0.0015"	"-:0.0058"	NA	"-:0.003"	"-:0.0189"	"-:0.0061"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCACATCCTAA"	"824514fa-280f-11e6-891b-fbd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3253"	"TRPC6"	7225	"mskcc.org"	"GRCh37"	"11"	101360113	101360117	"+"	"Intron"	"DEL"	"TAATC"	"TAATC"	"-"	"rs10611884"	NA	"JHCCPT5"	"JHCCPN5"	"TAATC"	"TAATC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1129-285_1129-281delGATTA"	""	""	"ENST00000344327"	""	6	"."	4	3	"."	0	"TRPC6,intron_variant,,ENST00000344327,NM_004621.5;TRPC6,intron_variant,,ENST00000532133,;TRPC6,intron_variant,,ENST00000360497,;TRPC6,intron_variant,,ENST00000348423,;TRPC6,downstream_gene_variant,,ENST00000527240,;"	"-"	"ENSG00000137672"	"ENST00000344327"	"Transcript"	"intron_variant"	"-/4612"	"-/2796"	"-/931"	""	""	"rs10611884"	"1"	NA	-1	"TRPC6"	"HGNC"	12338	"protein_coding"	"YES"	"CCDS8311.1"	"ENSP00000340913"	"Q9Y210"	"B3KNL3"	"UPI00001374BA"	"NM_004621.5"	NA	NA	""	"3/12"	""	"-:0.3001"	"-:0.5598"	"-:0.2205"	NA	"-:0.0327"	"-:0.3241"	"-:0.2566"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATTAATCT"	"828ee63e-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3254"	"RP11-315O6.2"	0	"mskcc.org"	"GRCh37"	"11"	102367430	102367431	"+"	"Intron"	"INS"	"-"	"-"	"AAAC"	"rs369431253"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10-1780_-10-1777dupCAAA"	""	""	"ENST00000529278"	""	8	"."	3	1	"."	0	"RP11-315O6.2,intron_variant,,ENST00000529278,;"	"AAAC"	"ENSG00000255482"	"ENST00000529278"	"Transcript"	"intron_variant"	"-/494"	"-/231"	"-/76"	""	""	"rs369431253"	"1"	NA	1	"RP11-315O6.2"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000434948"	""	"G3V1C9"	"UPI0000EE39C1"	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"31"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"a02684d6-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3255"	"DYNC2H1"	79659	"mskcc.org"	"GRCh37"	"11"	103306924	103306926	"+"	"Intron"	"DEL"	"TAT"	"TAT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TAT"	"TAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.12477+165_12477+167delATT"	""	""	"ENST00000398093"	""	55	"."	3	20	"."	0	"DYNC2H1,intron_variant,,ENST00000375735,NM_001080463.1,NM_001377.2;DYNC2H1,intron_variant,,ENST00000398093,;DYNC2H1,intron_variant,,ENST00000334267,;DYNC2H1,intron_variant,,ENST00000533197,;DYNC2H1,intron_variant,,ENST00000528670,;"	"-"	"ENSG00000187240"	"ENST00000398093"	"Transcript"	"intron_variant"	"-/12945"	"-/12945"	"-/4314"	""	""	""	"1"	NA	1	"DYNC2H1"	"HGNC"	2962	"protein_coding"	"YES"	"CCDS44717.1"	"ENSP00000381167"	"Q8NCM8"	""	"UPI0000481AC7"	""	NA	NA	""	"86/89"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTATT"	"832d05a8-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0545454545454545	"WXS"	FALSE
"3256"	"PDGFD"	80310	"mskcc.org"	"GRCh37"	"11"	103870625	103870641	"+"	"Intron"	"DEL"	"TGTCTGTTAGGGTCTTT"	"TGTCTGTTAGGGTCTTT"	"GTTAGGGTTGACATAA"	"rs746275198"	NA	"JHCCPT5"	"JHCCPN5"	"TGTCTGTTAGGGTCTTT"	"TGTCTGTTAGGGTCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.329+138_329+154delAAAGACCCTAACAGACAinsTTATGTCAACCCTAAC"	""	""	"ENST00000393158"	""	43	"."	4	22	"."	0	"PDGFD,intron_variant,,ENST00000302251,NM_025208.4,NM_033135.3;PDGFD,intron_variant,,ENST00000393158,;PDGFD,intron_variant,,ENST00000529268,;"	"GTTAGGGTTGACATAA"	"ENSG00000170962"	"ENST00000393158"	"Transcript"	"intron_variant"	"-/3801"	"-/1113"	"-/370"	""	""	"rs746275198"	"1"	NA	-1	"PDGFD"	"HGNC"	30620	"protein_coding"	"YES"	"CCDS41703.1"	"ENSP00000376865"	"Q9GZP0"	""	"UPI0000034811"	""	NA	NA	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTGTCTGTTAGGGTCTTTA"	"8cb8c8aa-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WXS"	FALSE
"3257"	"RP11-886D15.1"	0	"mskcc.org"	"GRCh37"	"11"	104467145	104467146	"+"	"Intron"	"INS"	"-"	"-"	"ACC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.60+12817_60+12819dupGGT"	""	""	"ENST00000536529"	""	40	"."	6	5	"."	0	"RP11-886D15.1,intron_variant,,ENST00000536529,;RP11-886D15.1,intron_variant,,ENST00000545630,;RP11-886D15.1,intron_variant,,ENST00000538641,;"	"ACC"	"ENSG00000256422"	"ENST00000536529"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/652"	""	""	""	""	""	"1"	NA	-1	"RP11-886D15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"a0a46e96-280f-11e6-891b-fbd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"3258"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	109935338	109935339	"+"	"IGR"	"INS"	"-"	"-"	"CT"	"rs59248692"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"CT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs59248692"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CT:0.1460"	"CT:0.152"	"CT:0.0951"	NA	"CT:0.1538"	"CT:0.1491"	"CT:0.1626"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"a17b1bf8-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3259"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	110810928	110810929	"+"	"IGR"	"INS"	"-"	"-"	"TTCACCTGCTCCACAGGAGGC"	"rs144160146"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	2	"."	0	""	"TTCACCTGCTCCACAGGAGGC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144160146"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1032"	"TTCACCTGCTCCACAGGAGGC:0.9811"	"TTCACCTGCTCCACAGGAGGC:0.9524"	NA	"TTCACCTGCTCCACAGGAGGC:0.7778"	"TTCACCTGCTCCACAGGAGGC:0.9036"	"TTCACCTGCTCCACAGGAGGC:0.8589"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"a1b30d24-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3260"	"ENSR00001573560"	0	"mskcc.org"	"GRCh37"	"11"	112527408	112527408	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs11323732"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001573560"	""	6	"."	4	3	"."	0	""	"-"	""	"ENSR00001573560"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs11323732"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1867"	"-:0.1384"	"-:0.1801"	NA	"-:0.2609"	"-:0.2296"	"-:0.136"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"8539d81c-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3261"	"ZW10"	9183	"mskcc.org"	"GRCh37"	"11"	113631432	113631432	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs5794880"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.342+107delT"	""	""	"ENST00000200135"	""	119	"."	4	19	"."	0	"ZW10,intron_variant,,ENST00000200135,NM_004724.3;ZW10,intron_variant,,ENST00000535142,;ZW10,intron_variant,,ENST00000538209,;"	"-"	"ENSG00000086827"	"ENST00000200135"	"Transcript"	"intron_variant"	"-/2992"	"-/2340"	"-/779"	""	""	"rs5794880"	"1"	NA	-1	"ZW10"	"HGNC"	13194	"protein_coding"	"YES"	"CCDS8363.1"	"ENSP00000200135"	"O43264"	"B4E1J7,A1A528"	"UPI000013C491"	"NM_004724.3"	NA	NA	""	"3/15"	""	"-:0.2378"	"-:0.0371"	"-:0.2781"	NA	"-:0.2411"	"-:0.3907"	"-:0.32"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"856cafd0-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0336134453781513	"WXS"	FALSE
"3262"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	114924604	114924605	"+"	"IGR"	"INS"	"-"	"-"	"ATGG"	"rs150058085"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	2	"."	0	""	"ATGG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150058085"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"a2723410-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3263"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	115766079	115766098	"+"	"IGR"	"DEL"	"CATCCATCCATCCATCCATA"	"CATCCATCCATCCATCCATA"	"-"	"rs59297926"	NA	"JHCCPT5"	"JHCCPN5"	"CATCCATCCATCCATCCATA"	"CATCCATCCATCCATCCATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs59297926"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4583"	"-:0.4569"	"-:0.5879"	NA	"-:0.4266"	"-:0.4761"	"-:0.3824"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCATCCATCCATCCATCCATAA"	"85a4a804-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"3264"	"SIK3"	23387	"mskcc.org"	"GRCh37"	"11"	116942642	116942643	"+"	"Intron"	"INS"	"-"	"-"	"TGTT"	"rs36145559"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.99+26213_99+26216dupAACA"	""	""	"ENST00000292055"	""	6	"."	4	2	"."	0	"SIK3,intron_variant,,ENST00000445177,;SIK3,intron_variant,,ENST00000375300,;SIK3,intron_variant,,ENST00000292055,NM_025164.3;SIK3,intron_variant,,ENST00000375288,;SIK3,intron_variant,,ENST00000446921,NM_001281749.1;SIK3,intron_variant,,ENST00000434315,NM_001281748.1;SIK3,intron_variant,,ENST00000542607,;SIK3,intron_variant,,ENST00000485363,;SIK3,intron_variant,,ENST00000415541,;"	"TGTT"	"ENSG00000160584"	"ENST00000292055"	"Transcript"	"intron_variant"	"-/6067"	"-/3792"	"-/1263"	""	""	"rs36145559"	"1"	NA	-1	"SIK3"	"HGNC"	29165	"protein_coding"	"YES"	"CCDS8379.1"	"ENSP00000292055"	"Q9Y2K2"	""	"UPI00001FA400"	"NM_025164.3"	NA	NA	""	"1/23"	""	"TGTT:0.2963"	"TGTT:0.0794"	"TGTT:0.4063"	NA	"TGTT:0.2113"	"TGTT:0.6252"	"TGTT:0.2607"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"a2a35a04-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3265"	"CXCR5"	643	"mskcc.org"	"GRCh37"	"11"	118757055	118757057	"+"	"Intron"	"DEL"	"AGA"	"AGA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AGA"	"AGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.51+2355_51+2357delGAA"	""	""	"ENST00000292174"	""	358	"."	3	123	"."	0	"CXCR5,intron_variant,,ENST00000292174,NM_001716.4,NM_032966.2;RP11-158I9.5,non_coding_transcript_exon_variant,,ENST00000498872,;"	"-"	"ENSG00000160683"	"ENST00000292174"	"Transcript"	"intron_variant"	"-/4431"	"-/1119"	"-/372"	""	""	""	"1"	NA	1	"CXCR5"	"HGNC"	1060	"protein_coding"	"YES"	"CCDS8402.1"	"ENSP00000292174"	"P32302"	"A0N0R2"	"UPI000004358C"	"NM_001716.4,NM_032966.2"	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAGAA"	"873ece60-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.00837988826815642	"WXS"	FALSE
"3266"	"HINFP"	25988	"mskcc.org"	"GRCh37"	"11"	118998130	118998131	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11414972"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.181+303dupT"	""	""	"ENST00000350777"	""	15	"."	5	4	"."	0	"HINFP,intron_variant,,ENST00000532312,;HINFP,intron_variant,,ENST00000350777,NM_198971.2,NM_015517.4,NM_001243259.1;HINFP,intron_variant,,ENST00000527410,;HINFP,intron_variant,,ENST00000529988,;HINFP,downstream_gene_variant,,ENST00000530678,;HINFP,intron_variant,,ENST00000527354,;HINFP,non_coding_transcript_exon_variant,,ENST00000527206,;HINFP,intron_variant,,ENST00000529354,;HINFP,intron_variant,,ENST00000531360,;HINFP,upstream_gene_variant,,ENST00000527755,;HINFP,upstream_gene_variant,,ENST00000531022,;HINFP,upstream_gene_variant,,ENST00000529808,;HINFP,upstream_gene_variant,,ENST00000529610,;"	"T"	"ENSG00000172273"	"ENST00000350777"	"Transcript"	"intron_variant"	"-/3161"	"-/1554"	"-/517"	""	""	"rs11414972"	"1"	NA	1	"HINFP"	"HGNC"	17850	"protein_coding"	"YES"	"CCDS8414.1"	"ENSP00000318085"	"Q9BQA5"	"E9PL67,E9PJA3"	"UPI000013EB5D"	"NM_198971.2,NM_015517.4,NM_001243259.1"	NA	NA	""	"2/9"	""	"-:0.4004"	"T:0.8238"	"T:0.7161"	NA	"T:0.2817"	"T:0.5557"	"T:0.5869"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"a3e56f6a-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3267"	"POU2F3"	25833	"mskcc.org"	"GRCh37"	"11"	120171485	120171486	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs66899993"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.367+1050_367+1051insG"	""	""	"ENST00000260264"	""	13	"."	4	5	"."	0	"POU2F3,intron_variant,,ENST00000260264,NM_001244682.1;POU2F3,intron_variant,,ENST00000543440,NM_014352.3;POU2F3,upstream_gene_variant,,ENST00000532663,;POU2F3,intron_variant,,ENST00000533620,;POU2F3,upstream_gene_variant,,ENST00000606153,;POU2F3,upstream_gene_variant,,ENST00000532638,;"	"G"	"ENSG00000137709"	"ENST00000260264"	"Transcript"	"intron_variant"	"-/2903"	"-/1317"	"-/438"	""	""	"rs66899993"	"1"	NA	1	"POU2F3"	"HGNC"	19864	"protein_coding"	"YES"	"CCDS58190.1"	"ENSP00000260264"	"Q9UKI9"	""	"UPI0002064EE0"	"NM_001244682.1"	NA	NA	""	"5/12"	""	"G:0.0669"	"G:0.0998"	"G:0.1182"	NA	"G:0.0278"	"G:0.0298"	"G:0.0644"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"a44ec5be-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3268"	"POU2F3"	25833	"mskcc.org"	"GRCh37"	"11"	120188423	120188423	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs5795226"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1277+352delC"	""	""	"ENST00000260264"	""	11	"."	3	2	"."	0	"POU2F3,intron_variant,,ENST00000260264,NM_001244682.1;POU2F3,intron_variant,,ENST00000543440,NM_014352.3;POU2F3,downstream_gene_variant,,ENST00000532663,;POU2F3,intron_variant,,ENST00000532638,;POU2F3,intron_variant,,ENST00000533620,;POU2F3,intron_variant,,ENST00000529039,;"	"-"	"ENSG00000137709"	"ENST00000260264"	"Transcript"	"intron_variant"	"-/2903"	"-/1317"	"-/438"	""	""	"rs5795226"	"1"	NA	1	"POU2F3"	"HGNC"	19864	"protein_coding"	"YES"	"CCDS58190.1"	"ENSP00000260264"	"Q9UKI9"	""	"UPI0002064EE0"	"NM_001244682.1"	NA	NA	""	"12/12"	""	"-:0.2025"	"-:0.1589"	"-:0.268"	NA	"-:0.0377"	"-:0.4036"	"-:0.1779"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCC"	"885a0ecc-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"3269"	"TECTA"	7007	"mskcc.org"	"GRCh37"	"11"	120980448	120980448	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs3216095"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.486+249delA"	""	""	"ENST00000392793"	""	9	"."	3	3	"."	0	"TECTA,intron_variant,,ENST00000392793,;TECTA,intron_variant,,ENST00000264037,NM_005422.2;"	"-"	"ENSG00000109927"	"ENST00000392793"	"Transcript"	"intron_variant"	"-/7426"	"-/6468"	"-/2155"	""	""	"rs3216095"	"1"	NA	1	"TECTA"	"HGNC"	11720	"protein_coding"	"YES"	"CCDS8434.1"	"ENSP00000376543"	"O75443"	""	"UPI000045659D"	""	NA	NA	""	"4/23"	""	"-:0.3770"	"-:0.2693"	"-:0.3991"	NA	"-:0.3889"	"-:0.502"	"-:0.3661"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTAA"	"889693f6-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3270"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	121859433	121859434	"+"	"IGR"	"INS"	"-"	"-"	"AAAGAAAAGAAAGAAAAGA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	3	2	"."	0	""	"AAAGAAAAGAAAGAAAAGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"a468be10-280f-11e6-891b-fbd3414a729f"	"124"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"3271"	"C11orf63"	79864	"mskcc.org"	"GRCh37"	"11"	122830418	122830419	"+"	"3'UTR"	"INS"	"-"	"-"	"G"	"rs11446937"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*266dupG"	""	""	"ENST00000227349"	"9/9"	21	"."	3	6	"."	0	"C11orf63,3_prime_UTR_variant,,ENST00000227349,NM_024806.3;C11orf63,3_prime_UTR_variant,,ENST00000531316,;ATP5F1P5,upstream_gene_variant,,ENST00000526403,;"	"G"	"ENSG00000109944"	"ENST00000227349"	"Transcript"	"3_prime_UTR_variant"	"2899-2900/2910"	"-/2337"	"-/778"	""	""	"rs11446937"	"1"	NA	1	"C11orf63"	"HGNC"	26288	"protein_coding"	"YES"	"CCDS8438.1"	"ENSP00000227349"	"Q6NUN7"	""	"UPI00001FA5AB"	"NM_024806.3"	NA	NA	"9/9"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"a47a7a24-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"3272"	"CTD-2216M2.1"	0	"mskcc.org"	"GRCh37"	"11"	123079210	123079211	"+"	"Intron"	"INS"	"-"	"-"	"TCTC"	"rs35490917"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.306-3857_306-3854dupCTCT"	""	""	"ENST00000531681"	""	16	"."	4	4	"."	0	"CTD-2216M2.1,intron_variant,,ENST00000531681,;"	"TCTC"	"ENSG00000254710"	"ENST00000531681"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/701"	""	""	""	""	"rs35490917"	"1"	NA	1	"CTD-2216M2.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"21"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"a48111fe-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3273"	"GRAMD1B"	57476	"mskcc.org"	"GRCh37"	"11"	123492564	123492565	"+"	"Intron"	"INS"	"-"	"-"	"CTTTCTTC"	"rs145747840"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2128-643_2128-642insCCTTTCTT"	""	""	"ENST00000529750"	""	6	"."	4	4	"."	0	"GRAMD1B,intron_variant,,ENST00000529750,NM_020716.1;GRAMD1B,intron_variant,,ENST00000529432,NM_001286564.1;GRAMD1B,intron_variant,,ENST00000456860,NM_001286563.1;GRAMD1B,intron_variant,,ENST00000322282,;GRAMD1B,intron_variant,,ENST00000450171,;GRAMD1B,intron_variant,,ENST00000525945,;GRAMD1B,downstream_gene_variant,,ENST00000532581,;"	"CTTTCTTC"	"ENSG00000023171"	"ENST00000529750"	"Transcript"	"intron_variant"	"-/7723"	"-/2217"	"-/738"	""	""	"rs145747840"	"1"	NA	1	"GRAMD1B"	"HGNC"	29214	"protein_coding"	"YES"	"CCDS53720.1"	"ENSP00000436500"	"Q3KR37"	""	"UPI00005C3025"	"NM_020716.1"	NA	NA	""	"19/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"a4869f7a-280f-11e6-891b-fbd3414a729f"	"224"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3274"	"PKNOX2"	63876	"mskcc.org"	"GRCh37"	"11"	125040915	125040915	"+"	"Intron"	"DEL"	"G"	"-"	"-"	"rs34382540"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-201+6244delG"	""	""	"ENST00000298282"	""	6	"."	5	6	"."	0	"PKNOX2,intron_variant,,ENST00000298282,NM_022062.2;PKNOX2,intron_variant,,ENST00000542175,;PKNOX2,intron_variant,,ENST00000527238,;PKNOX2,intron_variant,,ENST00000530517,;PKNOX2,intron_variant,,ENST00000531116,;PKNOX2,intron_variant,,ENST00000559662,;PKNOX2,intron_variant,,ENST00000557814,;PKNOX2,intron_variant,,ENST00000561399,;PKNOX2,intron_variant,,ENST00000532623,;"	"-"	"ENSG00000165495"	"ENST00000298282"	"Transcript"	"intron_variant"	"-/3687"	"-/1419"	"-/472"	""	""	"rs34382540"	"1"	NA	1	"PKNOX2"	"HGNC"	16714	"protein_coding"	"YES"	"CCDS41730.1"	"ENSP00000298282"	"Q96KN3"	"H0YLX0,E9PRB6,E9PKL2,B7ZAF3"	"UPI000023271E"	"NM_022062.2"	NA	NA	""	"1/12"	""	"-:0.3239"	"-:0.3548"	"-:0.2262"	NA	"-:0.2867"	"-:0.3777"	"-:0.3344"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCGG"	"898ac566-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3275"	"AP000708.1"	0	"mskcc.org"	"GRCh37"	"11"	125365653	125365694	"+"	"Intron"	"DEL"	"CCTGCCTTCACACGCGCGCACACACGCGGGCACACACACGCG"	"CCTGCCTTCACACGCGCGCACACACGCGGGCACACACACGCG"	"TGCCTTCACACGCGCGCACACACGCGGGCACAC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CCTGCCTTCACACGCGCGCACACACGCGGGCACACACACGCG"	"CCTGCCTTCACACGCGCGCACACACGCGGGCACACACACGCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.287+142_287+183delCCTGCCTTCACACGCGCGCACACACGCGGGCACACACACGCGinsTGCCTTCACACGCGCGCACACACGCGGGCACAC"	""	""	"ENST00000527818"	""	29	"."	4	25	"."	0	"AP000708.1,intron_variant,,ENST00000527818,;FEZ1,intron_variant,,ENST00000278919,NM_005103.4;FEZ1,intron_variant,,ENST00000366139,NM_022549.3;FEZ1,intron_variant,,ENST00000527534,;FEZ1,upstream_gene_variant,,ENST00000524435,;FEZ1,intron_variant,,ENST00000392709,;FEZ1,intron_variant,,ENST00000532981,;"	"TGCCTTCACACGCGCGCACACACGCGGGCACAC"	"ENSG00000255537"	"ENST00000527818"	"Transcript"	"intron_variant"	"-/3423"	"-/591"	"-/196"	""	""	""	"1"	NA	1	"AP000708.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000434154"	"Q8IYB0"	""	"UPI00001AFDD3"	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCCTGCCTTCACACGCGCGCACACACGCGGGCACACACACGCGG"	"8cd5b28a-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WXS"	FALSE
"3276"	"CDON"	50937	"mskcc.org"	"GRCh37"	"11"	125871412	125871413	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs34580130"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2158+201_2158+202delCT"	""	""	"ENST00000392693"	""	11	"."	3	1	"."	0	"CDON,intron_variant,,ENST00000392693,NM_001243597.1,NM_016952.4;CDON,intron_variant,,ENST00000531738,;CDON,intron_variant,,ENST00000263577,;CDON,downstream_gene_variant,,ENST00000534661,;CDON,downstream_gene_variant,,ENST00000531830,;"	"-"	"ENSG00000064309"	"ENST00000392693"	"Transcript"	"intron_variant"	"-/9138"	"-/3864"	"-/1287"	""	""	"rs34580130"	"1"	NA	-1	"CDON"	"HGNC"	17104	"protein_coding"	"YES"	"CCDS58192.1"	"ENSP00000376458"	"Q4KMG0"	"E9PRD8,E9PPQ7,E9PNF2"	"UPI0000E0013A"	"NM_001243597.1,NM_016952.4"	NA	NA	""	"11/19"	""	"-:0.3025"	"-:0.4032"	"-:0.3415"	NA	"-:0.1617"	"-:0.336"	"-:0.2495"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCAGA"	"8a025982-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"3277"	"KCNJ5"	3762	"mskcc.org"	"GRCh37"	"11"	128774650	128774651	"+"	"Intron"	"INS"	"-"	"-"	"CTGA"	"rs3971774"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10-6506_-10-6503dupGACT"	""	""	"ENST00000529694"	""	18	"."	6	4	"."	0	"KCNJ5,intron_variant,,ENST00000529694,NM_000890.3;C11orf45,intron_variant,,ENST00000310799,NM_145013.2,NM_001256088.1;KCNJ5,intron_variant,,ENST00000338350,;C11orf45,intron_variant,,ENST00000524878,;C11orf45,upstream_gene_variant,,ENST00000530168,;"	"CTGA"	"ENSG00000120457"	"ENST00000529694"	"Transcript"	"intron_variant"	"-/5940"	"-/1260"	"-/419"	""	""	"rs3971774"	"1"	NA	1	"KCNJ5"	"HGNC"	6266	"protein_coding"	"YES"	"CCDS8479.1"	"ENSP00000433295"	"P48544"	"H9A8L0,H9A8K9"	"UPI000013D428"	"NM_000890.3"	NA	NA	""	"1/2"	""	"CTGA:0.3069"	"CTGA:0.5015"	"CTGA:0.2421"	NA	"CTGA:0.1944"	"CTGA:0.2942"	"CTGA:0.2188"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"a556f94a-280f-11e6-891b-fbd3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	TRUE
"3278"	"ZBTB44"	29068	"mskcc.org"	"GRCh37"	"11"	130183977	130183978	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs57820971"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-57+292dupG"	""	""	"ENST00000525842"	""	7	"."	5	1	"."	0	"ZBTB44,intron_variant,,ENST00000525842,NM_014155.4;ZBTB44,intron_variant,,ENST00000397753,;ZBTB44,intron_variant,,ENST00000357899,;RP11-121M22.1,upstream_gene_variant,,ENST00000532116,;RP11-121M22.1,upstream_gene_variant,,ENST00000602376,;RP11-121M22.1,upstream_gene_variant,,ENST00000602310,;Metazoa_SRP,downstream_gene_variant,,ENST00000607160,;ZBTB44,intron_variant,,ENST00000445008,;"	"C"	"ENSG00000196323"	"ENST00000525842"	"Transcript"	"intron_variant"	"-/9315"	"-/1362"	"-/453"	""	""	"rs57820971"	"1"	NA	-1	"ZBTB44"	"HGNC"	25001	"protein_coding"	"YES"	"CCDS44776.1"	"ENSP00000433457"	"Q8NCP5"	""	"UPI00001FA6D3"	"NM_014155.4"	NA	NA	""	"1/5"	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"a59d1ac4-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3279"	"ADAMTS8"	11095	"mskcc.org"	"GRCh37"	"11"	130287129	130287130	"+"	"Intron"	"INS"	"-"	"-"	"TTAAA"	"rs10522527"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.961-164_961-160dupTTTAA"	""	""	"ENST00000257359"	""	17	"."	5	2	"."	0	"ADAMTS8,intron_variant,,ENST00000257359,NM_007037.4;"	"TTAAA"	"ENSG00000134917"	"ENST00000257359"	"Transcript"	"intron_variant"	"-/4010"	"-/2670"	"-/889"	""	""	"rs10522527"	"1"	NA	-1	"ADAMTS8"	"HGNC"	224	"protein_coding"	"YES"	"CCDS41732.1"	"ENSP00000257359"	"Q9UP79"	""	"UPI000013CF5D"	"NM_007037.4"	NA	NA	""	"2/8"	""	"TTAAA:0.4948"	"TTAAA:0.2489"	"TTAAA:0.6945"	NA	"TTAAA:0.6349"	"TTAAA:0.5616"	"TTAAA:0.4724"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"a5a2d3ec-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"3280"	"SNX19"	399979	"mskcc.org"	"GRCh37"	"11"	130764010	130764010	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs3838801"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2573+9140delT"	""	""	"ENST00000265909"	""	9	"."	5	2	"."	0	"SNX19,intron_variant,,ENST00000265909,NM_014758.2;SNX19,intron_variant,,ENST00000534726,;SNX19,intron_variant,,ENST00000530356,;SNX19,intron_variant,,ENST00000539184,;SNX19,intron_variant,,ENST00000528555,;SNX19,intron_variant,,ENST00000545537,;SNX19,upstream_gene_variant,,ENST00000426933,;SNX19,intron_variant,,ENST00000533318,;SNX19,intron_variant,,ENST00000526579,;SNX19,upstream_gene_variant,,ENST00000530330,;"	"-"	"ENSG00000120451"	"ENST00000265909"	"Transcript"	"intron_variant"	"-/6535"	"-/2979"	"-/992"	""	""	"rs3838801"	"1"	NA	-1	"SNX19"	"HGNC"	21532	"protein_coding"	"YES"	"CCDS31721.1"	"ENSP00000265909"	"Q92543"	"E9PLV3,E9PJV7"	"UPI000013D6A5"	"NM_014758.2"	NA	NA	""	"8/10"	""	"-:0.1450"	"-:0.1142"	"-:0.0951"	NA	"-:0.1538"	"-:0.1988"	"-:0.1575"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"8afc85d8-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3281"	"SNX19"	399979	"mskcc.org"	"GRCh37"	"11"	130775256	130775256	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs71064216"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2443+592delT"	""	""	"ENST00000265909"	""	7	"."	3	1	"."	0	"SNX19,intron_variant,,ENST00000265909,NM_014758.2;SNX19,intron_variant,,ENST00000534726,;SNX19,intron_variant,,ENST00000530356,;SNX19,intron_variant,,ENST00000539184,;SNX19,intron_variant,,ENST00000528555,;SNX19,intron_variant,,ENST00000545537,;SNX19,downstream_gene_variant,,ENST00000533214,;SNX19,intron_variant,,ENST00000533318,;SNX19,intron_variant,,ENST00000526579,;SNX19,intron_variant,,ENST00000524460,;SNX19,intron_variant,,ENST00000527451,;SNX19,downstream_gene_variant,,ENST00000531608,;"	"-"	"ENSG00000120451"	"ENST00000265909"	"Transcript"	"intron_variant"	"-/6535"	"-/2979"	"-/992"	""	""	"rs71064216"	"1"	NA	-1	"SNX19"	"HGNC"	21532	"protein_coding"	"YES"	"CCDS31721.1"	"ENSP00000265909"	"Q92543"	"E9PLV3,E9PJV7"	"UPI000013D6A5"	"NM_014758.2"	NA	NA	""	"7/10"	""	"A:0.3367"	"-:0.5537"	"-:0.6916"	NA	"-:0.6468"	"-:0.6382"	"-:0.8344"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"8b05a276-280f-11e6-891b-fbd3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3282"	"SNX19"	399979	"mskcc.org"	"GRCh37"	"11"	130786580	130786581	"+"	"5'Flank"	"INS"	"-"	"-"	"AG"	"rs3834926"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000265909"	""	9	"."	4	1	"."	0	"SNX19,upstream_gene_variant,,ENST00000265909,NM_014758.2;SNX19,upstream_gene_variant,,ENST00000533214,;SNX19,upstream_gene_variant,,ENST00000530356,;SNX19,upstream_gene_variant,,ENST00000539184,;SNX19,upstream_gene_variant,,ENST00000528555,;SNX19,upstream_gene_variant,,ENST00000533318,;SNX19,upstream_gene_variant,,ENST00000531608,;"	"AG"	"ENSG00000120451"	"ENST00000265909"	"Transcript"	"upstream_gene_variant"	"-/6535"	"-/2979"	"-/992"	""	""	"rs3834926"	"1"	"176"	-1	"SNX19"	"HGNC"	21532	"protein_coding"	"YES"	"CCDS31721.1"	"ENSP00000265909"	"Q92543"	"E9PLV3,E9PJV7"	"UPI000013D6A5"	"NM_014758.2"	NA	NA	""	""	""	"-:0.3822"	"AG:0.7587"	"AG:0.6326"	NA	"AG:0.5337"	"AG:0.4374"	"AG:0.6892"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"a5ae8692-280f-11e6-891b-fbd3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3283"	"OPCML"	4978	"mskcc.org"	"GRCh37"	"11"	132298928	132298929	"+"	"Intron"	"INS"	"-"	"-"	"GGAT"	"rs71477763"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.937+7048_937+7051dupATCC"	""	""	"ENST00000331898"	""	9	"."	5	2	"."	0	"OPCML,intron_variant,,ENST00000331898,NM_002545.3;OPCML,intron_variant,,ENST00000524381,NM_001012393.1;OPCML,intron_variant,,ENST00000374778,;OPCML,intron_variant,,ENST00000541867,;OPCML,intron_variant,,ENST00000529038,;"	"GGAT"	"ENSG00000183715"	"ENST00000331898"	"Transcript"	"intron_variant"	"-/6833"	"-/1038"	"-/345"	""	""	"rs71477763"	"1"	NA	-1	"OPCML"	"HGNC"	8143	"protein_coding"	"YES"	"CCDS8492.1"	"ENSP00000330862"	"Q14982"	"B7ZLQ0,B2CZX3,A8K0Y0"	"UPI0000055AE0"	"NM_002545.3"	NA	NA	""	"6/6"	""	"-:0.4808"	"GGAT:0.3207"	"GGAT:0.5591"	NA	"GGAT:0.6855"	"GGAT:0.5139"	"GGAT:0.593"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"a5c676f8-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3284"	"MIR4697"	283174	"mskcc.org"	"GRCh37"	"11"	133765626	133765627	"+"	"3'Flank"	"DEL"	"AG"	"AG"	"-"	"rs150158584"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000582977"	""	10	"."	5	7	"."	0	"MIR4697,downstream_gene_variant,,ENST00000582977,;"	"-"	"ENSG00000264919"	"ENST00000582977"	"Transcript"	"downstream_gene_variant"	"-/78"	""	""	""	""	"rs150158584"	"1"	"2772"	-1	"MIR4697"	"HGNC"	41570	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2352"	"-:0.0129"	"-:0.2003"	NA	"-:0.5149"	"-:0.2266"	"-:0.2812"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGA"	"8b3525dc-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3285"	"B3GAT1"	27087	"mskcc.org"	"GRCh37"	"11"	134252200	134252201	"+"	"Intron"	"INS"	"-"	"-"	"GT"	"rs3065400"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.919-284_919-283dupAC"	""	""	"ENST00000524765"	""	34	"."	10	8	"."	0	"B3GAT1,intron_variant,,ENST00000524765,;B3GAT1,intron_variant,,ENST00000312527,NM_054025.2;B3GAT1,intron_variant,,ENST00000392580,NM_018644.3;B3GAT1,intron_variant,,ENST00000537389,;GLB1L2,downstream_gene_variant,,ENST00000389881,;GLB1L2,downstream_gene_variant,,ENST00000529077,;B3GAT1,downstream_gene_variant,,ENST00000531510,;B3GAT1,intron_variant,,ENST00000531778,;"	"GT"	"ENSG00000109956"	"ENST00000524765"	"Transcript"	"intron_variant"	"-/5737"	"-/1005"	"-/334"	""	""	"rs3065400"	"1"	NA	-1	"B3GAT1"	"HGNC"	921	"protein_coding"	"YES"	"CCDS8500.1"	"ENSP00000433847"	"Q9P2W7"	"Q8ND18"	"UPI0000073281"	""	NA	NA	""	"4/5"	""	"-:0.3013"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"a6146e1c-280f-11e6-891b-fbd3414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"3286"	"RP11-469N6.1"	0	"mskcc.org"	"GRCh37"	"11"	134614688	134614689	"+"	"Intron"	"DEL"	"GA"	"GA"	"-"	"rs58784206"	NA	"JHCCPT5"	"JHCCPN5"	"GA"	"GA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.947+8260_947+8261delGA"	""	""	"ENST00000513405"	""	11	"."	5	2	"."	0	"RP11-469N6.1,intron_variant,,ENST00000513405,;"	"-"	"ENSG00000251226"	"ENST00000513405"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3684"	""	""	""	""	"rs58784206"	"1"	NA	1	"RP11-469N6.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.4964"	"-:0.444"	"-:0.6037"	NA	"-:0.8284"	"-:0.339"	"-:0.3108"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGAG"	"8bb26858-280f-11e6-891b-fbd3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"3287"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	134643438	134643439	"+"	"IGR"	"INS"	"-"	"-"	"AAAGAAAGAAGAGG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	39	"."	7	14	"."	0	""	"AAAGAAAGAAGAGG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"a62b4826-280f-11e6-891b-fbd3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179487179487179	"WXS"	FALSE
"3288"	"IQSEC3"	440073	"mskcc.org"	"GRCh37"	"12"	289719	289720	"+"	"3'Flank"	"INS"	"-"	"-"	"CA"	"rs2307701"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000538872"	""	9	"."	3	4	"."	0	"IQSEC3,downstream_gene_variant,,ENST00000538872,;IQSEC3,downstream_gene_variant,,ENST00000326261,NM_001170738.1;RP11-598F7.6,intron_variant,,ENST00000537295,;RP11-598F7.6,intron_variant,,ENST00000537961,;IQSEC3,downstream_gene_variant,,ENST00000544511,;"	"CA"	"ENSG00000120645"	"ENST00000538872"	"Transcript"	"downstream_gene_variant"	"-/7094"	"-/3549"	"-/1182"	""	""	"rs2307701"	"1"	"2093"	1	"IQSEC3"	"HGNC"	29193	"protein_coding"	"YES"	"CCDS53728.1"	"ENSP00000437554"	"Q9UPP2"	""	"UPI0000DBEEF0"	""	NA	NA	""	""	""	"-:0.4601"	"CA:0.7526"	"CA:0.3934"	NA	"CA:0.4335"	"CA:0.4115"	"CA:0.5982"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"8f13e8be-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3289"	"RP11-885B4.1"	0	"mskcc.org"	"GRCh37"	"12"	2854965	2854966	"+"	"Intron"	"INS"	"-"	"-"	"CCTTCCCTTTCTTCCCTTCCCTTCCTTCCCTTCCTTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.57-3011_57-3010insGAAGGAAGGGAAGGAAGGGAAGGGAAGAAAGGGAAGG"	""	""	"ENST00000540093"	""	12	"."	4	2	"."	0	"RP11-885B4.1,intron_variant,,ENST00000540093,;"	"CCTTCCCTTTCTTCCCTTCCCTTCCTTCCCTTCCTTC"	"ENSG00000256150"	"ENST00000540093"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/220"	""	""	""	""	""	"1"	NA	-1	"RP11-885B4.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"8ffee026-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3290"	"NRIP2"	83714	"mskcc.org"	"GRCh37"	"12"	2944356	2944357	"+"	"5'Flank"	"INS"	"-"	"-"	"GTGA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000337508"	""	29	"."	3	6	"."	0	"NRIP2,intron_variant,,ENST00000542990,;NRIP2,intron_variant,,ENST00000542386,;NRIP2,upstream_gene_variant,,ENST00000337508,NM_031474.2;ITFG2,downstream_gene_variant,,ENST00000542548,;ITFG2,intron_variant,,ENST00000552005,;ITFG2,upstream_gene_variant,,ENST00000537710,;ITFG2,downstream_gene_variant,,ENST00000540929,;ITFG2,downstream_gene_variant,,ENST00000538822,;"	"GTGA"	"ENSG00000053702"	"ENST00000337508"	"Transcript"	"upstream_gene_variant"	"-/2746"	"-/846"	"-/281"	""	""	""	"1"	"166"	-1	"NRIP2"	"HGNC"	23078	"protein_coding"	"YES"	"CCDS8514.1"	"ENSP00000337501"	"Q9BQI9"	"F5H2G5,F5H065,A2RRE3"	"UPI000006E2A1"	"NM_031474.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"900ea6d2-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WXS"	FALSE
"3291"	"TEAD4"	7004	"mskcc.org"	"GRCh37"	"12"	3096583	3096587	"+"	"Intron"	"DEL"	"TTTGT"	"TTTGT"	"-"	"rs146023490"	NA	"JHCCPT5"	"JHCCPN5"	"TTTGT"	"TTTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-29-7293_-29-7289delGTTTT"	""	""	"ENST00000359864"	""	8	"."	3	1	"."	0	"TEAD4,intron_variant,,ENST00000359864,NM_003213.3;TEAD4,intron_variant,,ENST00000358409,NM_201441.2;TEAD4,intron_variant,,ENST00000397122,NM_201443.2;TEAD4,intron_variant,,ENST00000543035,;TEAD4,intron_variant,,ENST00000540314,;TEAD4,intron_variant,,ENST00000536826,;TEAD4,intron_variant,,ENST00000443986,;"	"-"	"ENSG00000197905"	"ENST00000359864"	"Transcript"	"intron_variant"	"-/1690"	"-/1305"	"-/434"	""	""	"rs146023490"	"1"	NA	1	"TEAD4"	"HGNC"	11717	"protein_coding"	"YES"	"CCDS31729.1"	"ENSP00000352926"	""	"Q53GI4,H0YGS2,H0YFK0,H0YFF9,D3DUQ6"	"UPI000013FEB3"	"NM_003213.3"	NA	NA	""	"2/12"	""	"TTTGT:0.0517"	"-:0.823"	"-:0.987"	NA	"-:0.9841"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"28"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTTGTT"	"65fa8532-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3292"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	3160479	3160512	"+"	"IGR"	"DEL"	"TTTCTTTCTTTCTTTCTTCTTTTCTCTTTTCCCT"	"TTTCTTTCTTTCTTTCTTCTTTTCTCTTTTCCCT"	"CTTTTCTCTTTTCCCTTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTCTTTCTTTCTTTCTTCTTTTCTCTTTTCCCT"	"TTTCTTTCTTTCTTTCTTCTTTTCTCTTTTCCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	21	"."	4	3	"."	0	""	"CTTTTCTCTTTTCCCTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTCTTTCTTTCTTTCTTCTTTTCTCTTTTCCCTT"	"8dc227b4-280f-11e6-aa73-0dd4414a729f"	"232"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"3293"	"RP5-1063M23.2"	0	"mskcc.org"	"GRCh37"	"12"	3429155	3429155	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs68177296"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1009+263delT"	""	""	"ENST00000432994"	""	9	"."	5	2	"."	0	"RP5-1063M23.2,intron_variant,,ENST00000432994,;RP5-1063M23.2,intron_variant,,ENST00000543036,;"	"-"	"ENSG00000236908"	"ENST00000432994"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3004"	""	""	""	""	"rs68177296"	"1"	NA	1	"RP5-1063M23.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.3223"	"-:0.3359"	"-:0.2406"	NA	"-:0.3442"	"-:0.3479"	"-:0.3129"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTC"	"660c10fe-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3294"	"EFCAB4B"	84766	"mskcc.org"	"GRCh37"	"12"	3829548	3829549	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs147985700"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-117-7066dupC"	""	""	"ENST00000440314"	""	23	"."	5	2	"."	0	"EFCAB4B,intron_variant,,ENST00000440314,NM_001144958.1;EFCAB4B,intron_variant,,ENST00000444507,;EFCAB4B,intron_variant,,ENST00000252322,NM_032680.3;"	"G"	"ENSG00000130038"	"ENST00000440314"	"Transcript"	"intron_variant"	"-/2697"	"-/2196"	"-/731"	""	""	"rs147985700"	"1"	NA	-1	"EFCAB4B"	"HGNC"	28657	"protein_coding"	"YES"	"CCDS44803.1"	"ENSP00000409382"	"Q9BSW2"	""	"UPI00017A8807"	"NM_001144958.1"	NA	NA	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"903455c6-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WXS"	FALSE
"3295"	"C12orf5"	57103	"mskcc.org"	"GRCh37"	"12"	4429704	4429705	"+"	"5'Flank"	"INS"	"-"	"-"	"GGGGGA"	"rs200425231"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000179259"	""	9	"."	3	3	"."	0	"C12orf5,upstream_gene_variant,,ENST00000179259,NM_020375.2;C12orf5,upstream_gene_variant,,ENST00000539671,;RP11-264F23.1,downstream_gene_variant,,ENST00000493323,;"	"GGGGGA"	"ENSG00000078237"	"ENST00000179259"	"Transcript"	"upstream_gene_variant"	"-/1361"	"-/813"	"-/270"	""	""	"rs200425231"	"1"	"666"	1	"C12orf5"	"HGNC"	1185	"protein_coding"	"YES"	"CCDS8525.1"	"ENSP00000179259"	"Q9NQ88"	""	"UPI000006DFEB"	"NM_020375.2"	NA	NA	""	""	""	"GGGGGA:0.0381"	"GGGGGA:0.0015"	"GGGGGA:0.0331"	NA	"GGGGGA:0.003"	"GGGGGA:0.0676"	"GGGGGA:0.0971"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"90467210-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3296"	"ANO2"	57101	"mskcc.org"	"GRCh37"	"12"	5848762	5848763	"+"	"Intron"	"INS"	"-"	"-"	"ACACACACAC"	"rs10644081"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1340-207_1340-198dupGTGTGTGTGT"	""	""	"ENST00000327087"	""	30	"."	5	10	"."	0	"ANO2,intron_variant,,ENST00000327087,NM_001278596.1,NM_001278597.1;ANO2,intron_variant,,ENST00000356134,;ANO2,intron_variant,,ENST00000546188,;ANO2,intron_variant,,ENST00000545860,;ANO2,intron_variant,,ENST00000538154,;ANO2,intron_variant,,ENST00000540543,;"	"ACACACACAC"	"ENSG00000047617"	"ENST00000327087"	"Transcript"	"intron_variant"	"-/3717"	"-/2997"	"-/998"	""	""	"rs10644081"	"1"	NA	-1	"ANO2"	"HGNC"	1183	"protein_coding"	"YES"	""	"ENSP00000314048"	"Q9NQ90"	"Q69YW4"	"UPI0001823FDD"	"NM_001278596.1,NM_001278597.1"	NA	NA	""	"12/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"908170d6-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3297"	"VWF"	7450	"mskcc.org"	"GRCh37"	"12"	6092709	6092710	"+"	"Intron"	"INS"	"-"	"-"	"GATAGATAGATAGATAGATAGATAGATA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6977-290_6977-289insTATCTATCTATCTATCTATCTATCTATC"	""	""	"ENST00000261405"	""	25	"."	4	7	"."	0	"VWF,intron_variant,,ENST00000261405,NM_000552.3;"	"GATAGATAGATAGATAGATAGATAGATA"	"ENSG00000110799"	"ENST00000261405"	"Transcript"	"intron_variant"	"-/8838"	"-/8442"	"-/2813"	""	""	""	"1"	NA	-1	"VWF"	"HGNC"	12726	"protein_coding"	"YES"	"CCDS8539.1"	"ENSP00000261405"	"P04275"	"H2DLA2"	"UPI00001AE7EE"	"NM_000552.3"	NA	NA	""	"40/51"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"90a623fe-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WXS"	FALSE
"3298"	"CD4"	920	"mskcc.org"	"GRCh37"	"12"	6927255	6927264	"+"	"Intron"	"DEL"	"CGCGCACACG"	"CGCGCACACG"	"-"	"rs72198994"	NA	"JHCCPT5"	"JHCCPN5"	"CGCGCACACG"	"CGCGCACACG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1157-323_1157-314delGCGCGCACAC"	""	""	"ENST00000011653"	""	9	"."	6	2	"."	0	"CD4,intron_variant,,ENST00000011653,NM_000616.4,NM_001195017.2,NM_001195016.2,NM_001195015.2;GPR162,upstream_gene_variant,,ENST00000311268,NM_019858.1;GPR162,upstream_gene_variant,,ENST00000428545,NM_014449.1;CD4,downstream_gene_variant,,ENST00000541982,;GPR162,upstream_gene_variant,,ENST00000382315,;CD4,downstream_gene_variant,,ENST00000538827,;GPR162,upstream_gene_variant,,ENST00000541431,;CD4,downstream_gene_variant,,ENST00000536610,;CD4,downstream_gene_variant,,ENST00000536563,;CD4,downstream_gene_variant,,ENST00000536590,;CD4,intron_variant,,ENST00000437800,;GPR162,upstream_gene_variant,,ENST00000535220,;CD4,downstream_gene_variant,,ENST00000544344,;CD4,downstream_gene_variant,,ENST00000543755,;"	"-"	"ENSG00000010610"	"ENST00000011653"	"Transcript"	"intron_variant"	"-/3114"	"-/1377"	"-/458"	""	""	"rs72198994"	"1"	NA	1	"CD4"	"HGNC"	1678	"protein_coding"	"YES"	"CCDS8562.1"	"ENSP00000011653"	"P01730"	"Q6LCP8,Q13969,F5GYA9,B4DT49"	"UPI0000001294"	"NM_000616.4,NM_001195017.2,NM_001195016.2,NM_001195015.2"	NA	NA	""	"7/9"	""	""	"-:0.3222"	"-:0.5922"	NA	"-:0.748"	"-:0.5209"	"-:0.5409"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CACGCGCACACGC"	"67ae17e0-280f-11e6-aa73-0dd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3299"	"ENO2"	2026	"mskcc.org"	"GRCh37"	"12"	7029175	7029176	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11458304"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.865+251dupG"	""	""	"ENST00000535366"	""	9	"."	3	2	"."	0	"ENO2,intron_variant,,ENST00000535366,;ENO2,intron_variant,,ENST00000541477,;ENO2,intron_variant,,ENST00000229277,NM_001975.2;ENO2,intron_variant,,ENST00000545045,;ENO2,intron_variant,,ENST00000538763,;ENO2,intron_variant,,ENST00000544774,;ATN1,upstream_gene_variant,,ENST00000356654,NM_001007026.1;ENO2,downstream_gene_variant,,ENST00000537688,;ENO2,upstream_gene_variant,,ENST00000543975,;ENO2,upstream_gene_variant,,ENST00000534977,;ENO2,intron_variant,,ENST00000535275,;ENO2,downstream_gene_variant,,ENST00000542509,;ENO2,downstream_gene_variant,,ENST00000536199,;ENO2,downstream_gene_variant,,ENST00000441285,;ENO2,downstream_gene_variant,,ENST00000539713,;ENO2,downstream_gene_variant,,ENST00000537838,;"	"G"	"ENSG00000111674"	"ENST00000535366"	"Transcript"	"intron_variant"	"-/2827"	"-/1305"	"-/434"	""	""	"rs11458304"	"1"	NA	1	"ENO2"	"HGNC"	3353	"protein_coding"	"YES"	"CCDS8570.1"	"ENSP00000437402"	"P09104"	"Q6FHV6,F5H1C3"	"UPI000013C8F1"	""	NA	NA	""	"7/10"	""	""	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"91748d66-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3300"	"ATN1"	1822	"mskcc.org"	"GRCh37"	"12"	7044050	7044051	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs200910295"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.279+318dupT"	""	""	"ENST00000356654"	""	11	"."	3	3	"."	0	"ATN1,intron_variant,,ENST00000356654,NM_001007026.1;ATN1,intron_variant,,ENST00000396684,NM_001940.3;ATN1,upstream_gene_variant,,ENST00000537488,;ATN1,upstream_gene_variant,,ENST00000541029,;"	"T"	"ENSG00000111676"	"ENST00000356654"	"Transcript"	"intron_variant"	"-/4351"	"-/3573"	"-/1190"	""	""	"rs200910295"	"1"	NA	1	"ATN1"	"HGNC"	3033	"protein_coding"	"YES"	"CCDS31734.1"	"ENSP00000349076"	"P54259"	"Q86V38"	"UPI000006F554"	"NM_001007026.1"	NA	NA	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"918519ba-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"3301"	"CD163"	9332	"mskcc.org"	"GRCh37"	"12"	7652026	7652030	"+"	"Intron"	"DEL"	"TGTTT"	"TGTTT"	"-"	"rs149116394"	NA	"JHCCPT5"	"JHCCPN5"	"TGTTT"	"TGTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.458-246_458-242delAAACA"	""	""	"ENST00000359156"	""	18	"."	10	2	"."	0	"CD163,intron_variant,,ENST00000359156,NM_004244.5;CD163,intron_variant,,ENST00000396620,;CD163,intron_variant,,ENST00000432237,NM_203416.3;CD163,intron_variant,,ENST00000541972,;CD163,intron_variant,,ENST00000537044,;"	"-"	"ENSG00000177575"	"ENST00000359156"	"Transcript"	"intron_variant"	"-/4268"	"-/3471"	"-/1156"	""	""	"rs149116394"	"1"	NA	-1	"CD163"	"HGNC"	1631	"protein_coding"	"YES"	"CCDS8578.1"	"ENSP00000352071"	"Q86VB7"	""	"UPI00004565CC"	"NM_004244.5"	NA	NA	""	"3/16"	""	""	"-:0.1051"	"-:0.0807"	NA	"-:0.1766"	"-:0.173"	"-:0.2556"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGTTTT"	"689e2726-280f-11e6-aa73-0dd4414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3302"	"GAPDHP31"	0	"mskcc.org"	"GRCh37"	"12"	7722055	7722055	"+"	"3'Flank"	"DEL"	"A"	"-"	"-"	"rs10710336"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000509325"	""	7	"."	6	1	"."	0	"GAPDHP31,downstream_gene_variant,,ENST00000509325,;"	"-"	"ENSG00000235868"	"ENST00000509325"	"Transcript"	"downstream_gene_variant"	"-/1014"	""	""	""	""	"rs10710336"	"1"	"2077"	1	"GAPDHP31"	"HGNC"	37783	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	"-:0.8737"	"-:0.9798"	NA	"-:1"	"-:0.997"	"-:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"689f3e7c-280f-11e6-aa73-0dd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"3303"	"CLEC4C"	170482	"mskcc.org"	"GRCh37"	"12"	7882950	7882951	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs143535945"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.497+442dupT"	""	""	"ENST00000542353"	""	10	"."	4	1	"."	0	"CLEC4C,intron_variant,,ENST00000542353,NM_130441.2;CLEC4C,intron_variant,,ENST00000540085,NM_203503.1;CLEC4C,intron_variant,,ENST00000354629,;CLEC4C,intron_variant,,ENST00000360345,;CLEC4C,intron_variant,,ENST00000537530,;CLEC4C,intron_variant,,ENST00000543765,;"	"A"	"ENSG00000198178"	"ENST00000542353"	"Transcript"	"intron_variant"	"-/1314"	"-/642"	"-/213"	""	""	"rs143535945"	"1"	NA	-1	"CLEC4C"	"HGNC"	13258	"protein_coding"	"YES"	"CCDS8583.1"	"ENSP00000440428"	"Q8WTT0"	"H0YFH6"	"UPI000003C38D"	"NM_130441.2"	NA	NA	""	"6/6"	""	""	"A:0.0166"	"A:0.0692"	NA	"A:0.0159"	"A:0.1262"	"A:0.1994"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"9222c4da-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3304"	"ENPP7P5"	0	"mskcc.org"	"GRCh37"	"12"	8427888	8427891	"+"	"Intron"	"DEL"	"CTCC"	"CTCC"	"-"	"rs138268814"	NA	"JHCCPT5"	"JHCCPN5"	"CTCC"	"CTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.241-10698_241-10695delGGAG"	""	""	"ENST00000541031"	""	14	"."	3	2	"."	0	"ENPP7P5,intron_variant,,ENST00000541031,;"	"-"	"ENSG00000256589"	"ENST00000541031"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1013"	""	""	""	""	"rs138268814"	"1"	NA	-1	"ENPP7P5"	"HGNC"	48688	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCTCCC"	"690edca0-280f-11e6-aa73-0dd4414a729f"	"140"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"3305"	"A2ML1"	144568	"mskcc.org"	"GRCh37"	"12"	8995357	8995357	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs79845780"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1249-369delT"	""	""	"ENST00000299698"	""	9	"."	5	4	"."	0	"A2ML1,intron_variant,,ENST00000299698,NM_144670.4,NM_001282424.1;A2ML1,upstream_gene_variant,,ENST00000539547,;A2ML1,upstream_gene_variant,,ENST00000541459,;A2ML1,upstream_gene_variant,,ENST00000545692,;A2ML1,upstream_gene_variant,,ENST00000536789,;A2ML1,upstream_gene_variant,,ENST00000540049,;"	"-"	"ENSG00000166535"	"ENST00000299698"	"Transcript"	"intron_variant"	"-/5274"	"-/4365"	"-/1454"	""	""	"rs79845780"	"1"	NA	1	"A2ML1"	"HGNC"	23336	"protein_coding"	"YES"	"CCDS8596.2"	"ENSP00000299698"	"A8K2U0"	"H0YGG5"	"UPI000022904E"	"NM_144670.4,NM_001282424.1"	NA	NA	""	"11/35"	""	""	"-:0.0582"	"-:0.1758"	NA	"-:0.0556"	"-:0.2018"	"-:0.2342"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TATT"	"6937a554-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3306"	"PZP"	5858	"mskcc.org"	"GRCh37"	"12"	9311350	9311353	"+"	"Intron"	"DEL"	"TTTC"	"TTTC"	"-"	"rs374078541"	NA	"JHCCPT5"	"JHCCPN5"	"TTTC"	"TTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3138-181_3138-178delGAAA"	""	""	"ENST00000261336"	""	48	"."	3	25	"."	0	"PZP,intron_variant,,ENST00000261336,NM_002864.2;PZP,intron_variant,,ENST00000381997,;PZP,downstream_gene_variant,,ENST00000539983,;PZP,downstream_gene_variant,,ENST00000546197,;PZP,downstream_gene_variant,,ENST00000543108,;PZP,downstream_gene_variant,,ENST00000540995,;PZP,intron_variant,,ENST00000535230,;TPT1P12,upstream_gene_variant,,ENST00000448968,;"	"-"	"ENSG00000126838"	"ENST00000261336"	"Transcript"	"intron_variant"	"-/4610"	"-/4449"	"-/1482"	""	""	"rs374078541"	"1"	NA	-1	"PZP"	"HGNC"	9750	"protein_coding"	"YES"	"CCDS8600.1"	"ENSP00000261336"	"P20742"	""	"UPI000013D168"	"NM_002864.2"	NA	NA	""	"25/35"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTTCT"	"6981ad8e-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WXS"	FALSE
"3307"	"ENSR00001461292"	0	"mskcc.org"	"GRCh37"	"12"	9939501	9939502	"+"	"IGR"	"INS"	"-"	"-"	"CACACACACACACA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001461292"	""	7	"."	3	2	"."	0	""	"CACACACACACACA"	""	"ENSR00001461292"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"934f0940-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3308"	"CLEC2B"	9976	"mskcc.org"	"GRCh37"	"12"	10005670	10005671	"+"	"3'UTR"	"INS"	"-"	"-"	"AGAAAGAAAGAAAG"	"rs10649717"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*215_*228dupCTTTCTTTCTTTCT"	""	""	"ENST00000228438"	"5/5"	15	"."	3	6	"."	0	"CLEC2B,3_prime_UTR_variant,,ENST00000228438,NM_005127.2;CLEC2B,downstream_gene_variant,,ENST00000538152,;CLEC2B,downstream_gene_variant,,ENST00000540743,;CLEC2B,downstream_gene_variant,,ENST00000539028,;"	"AGAAAGAAAGAAAG"	"ENSG00000110852"	"ENST00000228438"	"Transcript"	"3_prime_UTR_variant"	"1612-1613/1700"	"-/450"	"-/149"	""	""	"rs10649717"	"1"	NA	-1	"CLEC2B"	"HGNC"	2053	"protein_coding"	"YES"	"CCDS8605.1"	"ENSP00000228438"	"Q92478"	""	"UPI000013C8D4"	"NM_005127.2"	NA	NA	"5/5"	""	""	"-:0.0313"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"93511460-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"3309"	"TMEM52B"	120939	"mskcc.org"	"GRCh37"	"12"	10331242	10331243	"+"	"5'Flank"	"INS"	"-"	"-"	"AG"	"rs141826102"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000298530"	""	12	"."	4	1	"."	0	"TMEM52B,intron_variant,,ENST00000381923,NM_001079815.1;TMEM52B,upstream_gene_variant,,ENST00000298530,NM_153022.2;TMEM52B,upstream_gene_variant,,ENST00000536952,;TMEM52B,upstream_gene_variant,,ENST00000543484,;TMEM52B,downstream_gene_variant,,ENST00000545924,;"	"AG"	"ENSG00000165685"	"ENST00000298530"	"Transcript"	"upstream_gene_variant"	"-/2731"	"-/492"	"-/163"	""	""	"rs141826102"	"1"	"369"	1	"TMEM52B"	"HGNC"	26438	"protein_coding"	"YES"	"CCDS8619.1"	"ENSP00000298530"	"Q4KMG9"	""	"UPI000006D360"	"NM_153022.2"	NA	NA	""	""	""	"-:0.4800"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"93928454-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3310"	"KLRK1"	22914	"mskcc.org"	"GRCh37"	"12"	10521464	10521473	"+"	"3'Flank"	"DEL"	"GAGAGAGAGA"	"GAGAGAGAGA"	"-"	"rs146788228"	NA	"JHCCPT5"	"JHCCPN5"	"GAGAGAGAGA"	"GAGAGAGAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000240618"	""	9	"."	4	3	"."	0	"KLRK1,downstream_gene_variant,,ENST00000240618,NM_007360.3,NM_001199805.1;KLRK1,downstream_gene_variant,,ENST00000540818,;RP11-277P12.20,intron_variant,,ENST00000500682,;KLRK1,downstream_gene_variant,,ENST00000544449,;KLRK1,downstream_gene_variant,,ENST00000540267,;KLRC4-KLRK1,downstream_gene_variant,,ENST00000543572,;KLRC4-KLRK1,downstream_gene_variant,,ENST00000539300,;KLRC4-KLRK1,downstream_gene_variant,,ENST00000543812,;KLRC4-KLRK1,downstream_gene_variant,,ENST00000586581,;KLRC4-KLRK1,downstream_gene_variant,,ENST00000590131,;KLRC4-KLRK1,downstream_gene_variant,,ENST00000585711,;KLRC4-KLRK1,downstream_gene_variant,,ENST00000591546,;KLRK1,downstream_gene_variant,,ENST00000396451,;"	"-"	"ENSG00000213809"	"ENST00000240618"	"Transcript"	"downstream_gene_variant"	"-/1553"	"-/651"	"-/216"	""	""	"rs146788228"	"1"	"3479"	-1	"KLRK1"	"HGNC"	18788	"protein_coding"	"YES"	"CCDS8623.1"	"ENSP00000240618"	"P26718"	"Q8WZ67"	"UPI000013CAB1"	"NM_007360.3,NM_001199805.1"	NA	NA	""	""	""	"GAGAGAGAGA:0.2770"	"-:0.6747"	"-:0.6138"	NA	"-:0.8651"	"-:0.4642"	"-:0.7577"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGAGAGAGAGAG"	"6a0a6d54-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3311"	"GUCY2C"	2984	"mskcc.org"	"GRCh37"	"12"	14805097	14805098	"+"	"Intron"	"INS"	"-"	"-"	"TATTTATT"	"rs139251359"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1534-141_1534-134dupAATAAATA"	""	""	"ENST00000261170"	""	23	"."	7	8	"."	0	"GUCY2C,intron_variant,,ENST00000261170,NM_004963.3;"	"TATTTATT"	"ENSG00000070019"	"ENST00000261170"	"Transcript"	"intron_variant"	"-/3834"	"-/3222"	"-/1073"	""	""	"rs139251359"	"1"	NA	-1	"GUCY2C"	"HGNC"	4688	"protein_coding"	"YES"	"CCDS8664.1"	"ENSP00000261170"	"P25092"	""	"UPI000013D135"	"NM_004963.3"	NA	NA	""	"13/26"	""	"TATTTATT:0.3808"	"TATTTATT:0.1914"	"TATTTATT:0.4164"	NA	"TATTTATT:0.4623"	"TATTTATT:0.4533"	"TATTTATT:0.453"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"9466ab9e-280f-11e6-aa73-0dd4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WXS"	FALSE
"3312"	"ARHGDIB"	397	"mskcc.org"	"GRCh37"	"12"	15101034	15101035	"+"	"Intron"	"INS"	"-"	"-"	"CGCGCA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.266-152_266-151insTGCGCG"	""	""	"ENST00000228945"	""	70	"."	3	43	"."	0	"ARHGDIB,intron_variant,,ENST00000228945,NM_001175.4;ARHGDIB,intron_variant,,ENST00000536592,;ARHGDIB,intron_variant,,ENST00000541644,;ARHGDIB,intron_variant,,ENST00000541546,;ARHGDIB,intron_variant,,ENST00000545895,;ARHGDIB,intron_variant,,ENST00000541380,;ARHGDIB,downstream_gene_variant,,ENST00000542276,;ARHGDIB,intron_variant,,ENST00000539131,;ARHGDIB,intron_variant,,ENST00000535676,;"	"CGCGCA"	"ENSG00000111348"	"ENST00000228945"	"Transcript"	"intron_variant"	"-/1256"	"-/606"	"-/201"	""	""	""	"1"	NA	-1	"ARHGDIB"	"HGNC"	679	"protein_coding"	"YES"	"CCDS8671.1"	"ENSP00000228945"	"P52566"	"F5H6Q0,F5H3P3,F5H2R5"	"UPI0000030441"	"NM_001175.4"	NA	NA	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"9493395c-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0428571428571429	"WXS"	FALSE
"3313"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	15199291	15199292	"+"	"IGR"	"INS"	"-"	"-"	"TTCCCTTCCCTTCCTTTCCC"	"rs140454719"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	4	"."	0	""	"TTCCCTTCCCTTCCTTTCCC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140454719"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"9497f60e-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3314"	"PTPRO"	5800	"mskcc.org"	"GRCh37"	"12"	15660384	15660385	"+"	"Intron"	"INS"	"-"	"-"	"AAATAAC"	"rs141407524"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1268-1119_1268-1118insATAACAA"	""	""	"ENST00000281171"	""	9	"."	4	3	"."	0	"PTPRO,intron_variant,,ENST00000281171,NM_030667.2;PTPRO,intron_variant,,ENST00000348962,NM_002848.3;PTPRO,intron_variant,,ENST00000543886,;"	"AAATAAC"	"ENSG00000151490"	"ENST00000281171"	"Transcript"	"intron_variant"	"-/5301"	"-/3651"	"-/1216"	""	""	"rs141407524"	"1"	NA	1	"PTPRO"	"HGNC"	9678	"protein_coding"	"YES"	"CCDS8675.1"	"ENSP00000281171"	"Q16827"	"B4DS16"	"UPI000013DC62"	"NM_030667.2"	NA	NA	""	"6/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"9499d7d0-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3315"	"RP11-69C13.1"	0	"mskcc.org"	"GRCh37"	"12"	16842766	16842767	"+"	"5'Flank"	"INS"	"-"	"-"	"CT"	"rs57259222"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000418574"	""	7	"."	3	5	"."	0	"RP11-69C13.1,upstream_gene_variant,,ENST00000418574,;"	"CT"	"ENSG00000255871"	"ENST00000418574"	"Transcript"	"upstream_gene_variant"	"-/2178"	""	""	""	""	"rs57259222"	"1"	"3967"	1	"RP11-69C13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0198"	"CT:0.938"	"CT:0.9928"	NA	"CT:0.9891"	"CT:1"	"CT:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"94c12dbc-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3316"	"RP11-871F6.3"	0	"mskcc.org"	"GRCh37"	"12"	17695019	17695020	"+"	"Intron"	"INS"	"-"	"-"	"TCTCTCTCTTTCTCTCTT"	"rs141423605"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.888+10681_888+10682insAAGAGAGAAAGAGAGAGA"	""	""	"ENST00000540399"	""	13	"."	5	4	"."	0	"RP11-871F6.3,intron_variant,,ENST00000540399,;"	"TCTCTCTCTTTCTCTCTT"	"ENSG00000256994"	"ENST00000540399"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1003"	""	""	""	""	"rs141423605"	"1"	NA	-1	"RP11-871F6.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"7/7"	""	"TCTCTCTCTTTCTCTCTT:0.2659"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"94c37f68-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"3317"	"RP11-282K24.2"	0	"mskcc.org"	"GRCh37"	"12"	19265356	19265371	"+"	"5'Flank"	"DEL"	"AAAAGAAAAGAAAAGA"	"AAAAGAAAAGAAAAGA"	"-"	"rs200779150"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAGAAAAGAAAAGA"	"AAAAGAAAAGAAAAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000502742"	""	12	"."	3	3	"."	0	"RP11-282K24.2,upstream_gene_variant,,ENST00000502742,;"	"-"	"ENSG00000256844"	"ENST00000502742"	"Transcript"	"upstream_gene_variant"	"-/330"	""	""	""	""	"rs200779150"	"1"	"4239"	-1	"RP11-282K24.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"AAAAGAAAAGAAAAGA:0.1565"	"-:0.7156"	"-:0.8127"	NA	"-:0.9137"	"-:0.9483"	"-:0.8579"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAAAGAAAAGAAAAGAA"	"6c08a95e-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3318"	"PDE3A"	5139	"mskcc.org"	"GRCh37"	"12"	20807431	20807432	"+"	"Intron"	"INS"	"-"	"-"	"TTTGTTT"	"rs71442264"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3184+304_3184+310dupTTTTTTG"	""	""	"ENST00000359062"	""	11	"."	5	1	"."	0	"PDE3A,intron_variant,,ENST00000359062,NM_001244683.1,NM_000921.4;PDE3A,intron_variant,,ENST00000544307,;"	"TTTGTTT"	"ENSG00000172572"	"ENST00000359062"	"Transcript"	"intron_variant"	"-/7576"	"-/3426"	"-/1141"	""	""	"rs71442264"	"1"	NA	1	"PDE3A"	"HGNC"	8778	"protein_coding"	"YES"	"CCDS31754.1"	"ENSP00000351957"	"Q14432"	""	"UPI000014175F"	"NM_001244683.1,NM_000921.4"	NA	NA	""	"15/15"	""	"-:0.3135"	"TTTGTTT:0.73"	"TTTGTTT:0.5418"	NA	"TTTGTTT:0.7381"	"TTTGTTT:0.66"	"TTTGTTT:0.7045"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"18"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"94efcb22-280f-11e6-aa73-0dd4414a729f"	"280"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"3319"	"LST3"	0	"mskcc.org"	"GRCh37"	"12"	21168758	21168759	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs34168692"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1866-51486dupA"	""	""	"ENST00000540229"	""	13	"."	3	3	"."	0	"LST3,intron_variant,,ENST00000540229,;LST3,intron_variant,,ENST00000381541,;SLCO1B3,intron_variant,,ENST00000553473,;SLCO1B7,intron_variant,,ENST00000554957,;SLCO1B7,intron_variant,,ENST00000421593,NM_001009562.4;"	"A"	"ENSG00000257046"	"ENST00000540229"	"Transcript"	"intron_variant"	"-/2451"	"-/2247"	"-/748"	""	""	"rs34168692"	"1"	NA	1	"LST3"	"Uniprot_gn"	NA	"protein_coding"	"YES"	""	"ENSP00000441269"	""	"Q5JAR4,F5H8K0"	"UPI00004A0698"	""	NA	NA	""	"13/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	"9"	""	"1"	"0.6941"	"0.1765"	"0.7544"	"0.7594"	"0.7397"	"0.7675"	"0.6935"	"0.7913"	NA	"common_variant"	"TTA"	"94f8164c-280f-11e6-aa73-0dd4414a729f"	"180"	0.7005	"30270/43214"	"70742/101912"	"871/4934"	"2500/3314"	"2459/3238"	"2583/3492"	"14720/19178"	"215/310"	"6922/8748"	"PASS"	"FALSE"	0.230769230769231	"WXS"	FALSE
"3320"	"LST3"	0	"mskcc.org"	"GRCh37"	"12"	21201552	21201581	"+"	"Intron"	"DEL"	"ATTTAAATATACATATTTAAATGTGTGTGT"	"ATTTAAATATACATATTTAAATGTGTGTGT"	"TTAAATATACATATTTAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"ATTTAAATATACATATTTAAATGTGTGTGT"	"ATTTAAATATACATATTTAAATGTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1866-18701_1866-18672delATTTAAATATACATATTTAAATGTGTGTGTinsTTAAATATACATATTTAA"	""	""	"ENST00000540229"	""	19	"."	4	5	"."	0	"LST3,intron_variant,,ENST00000540229,;LST3,intron_variant,,ENST00000381541,;SLCO1B3,intron_variant,,ENST00000553473,;SLCO1B7,intron_variant,,ENST00000554957,;SLCO1B7,intron_variant,,ENST00000421593,NM_001009562.4;RP11-125O5.2,intron_variant,,ENST00000543498,;"	"TTAAATATACATATTTAA"	"ENSG00000257046"	"ENST00000540229"	"Transcript"	"intron_variant"	"-/2451"	"-/2247"	"-/748"	""	""	""	"1"	NA	1	"LST3"	"Uniprot_gn"	NA	"protein_coding"	"YES"	""	"ENSP00000441269"	""	"Q5JAR4,F5H8K0"	"UPI00004A0698"	""	NA	NA	""	"13/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATTTAAATATACATATTTAAATGTGTGTGTG"	"8e0aa5b6-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"3321"	"RP11-114G22.1"	0	"mskcc.org"	"GRCh37"	"12"	23187763	23187765	"+"	"Intron"	"DEL"	"TTT"	"TTT"	"-"	"rs201559136"	NA	"JHCCPT5"	"JHCCPN5"	"TTT"	"TTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.509-11276_509-11274delTTT"	""	""	"ENST00000540895"	""	18	"."	6	3	"."	0	"RP11-114G22.1,intron_variant,,ENST00000540895,;RP11-114G22.1,intron_variant,,ENST00000540994,;"	"-"	"ENSG00000256995"	"ENST00000540895"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1920"	""	""	""	""	"rs201559136"	"1"	NA	1	"RP11-114G22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTT"	"6d6ec33c-280f-11e6-aa73-0dd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3322"	"RP11-114G22.1"	0	"mskcc.org"	"GRCh37"	"12"	23187829	23187830	"+"	"Intron"	"INS"	"-"	"-"	"TTTCT"	"rs143680349"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.509-11209_509-11208insTTTTC"	""	""	"ENST00000540895"	""	20	"."	5	2	"."	0	"RP11-114G22.1,intron_variant,,ENST00000540895,;RP11-114G22.1,intron_variant,,ENST00000540994,;"	"TTTCT"	"ENSG00000256995"	"ENST00000540895"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1920"	""	""	""	""	"rs143680349"	"1"	NA	1	"RP11-114G22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/8"	""	"-:0.0054"	"TTTCT:0.9894"	"TTTCT:0.9971"	NA	"TTTCT:0.998"	"TTTCT:0.993"	"TTTCT:0.998"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"95480724-280f-11e6-aa73-0dd4414a729f"	"294"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3323"	"RP11-114G22.1"	0	"mskcc.org"	"GRCh37"	"12"	23264917	23264918	"+"	"Intron"	"INS"	"-"	"-"	"TTTT"	"rs139179458"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1185+54087_1185+54088insTTTT"	""	""	"ENST00000540895"	""	17	"."	5	4	"."	0	"RP11-114G22.1,intron_variant,,ENST00000540895,;RP11-153K16.1,intron_variant,,ENST00000541288,;RP11-686N4.1,upstream_gene_variant,,ENST00000541161,;"	"TTTT"	"ENSG00000256995"	"ENST00000540895"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1920"	""	""	""	""	"rs139179458"	"1"	NA	1	"RP11-114G22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"954c0a40-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"3324"	"RP11-662I13.1"	0	"mskcc.org"	"GRCh37"	"12"	25119957	25119958	"+"	"3'Flank"	"INS"	"-"	"-"	"AA"	"rs35805270"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000396004"	""	20	"."	5	6	"."	0	"RP11-662I13.1,downstream_gene_variant,,ENST00000396004,;"	"AA"	"ENSG00000213736"	"ENST00000396004"	"Transcript"	"downstream_gene_variant"	"-/378"	""	""	""	""	"rs35805270"	"1"	"103"	-1	"RP11-662I13.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3159"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"957cb8d4-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3325"	"IFLTD1"	160492	"mskcc.org"	"GRCh37"	"12"	25671431	25671431	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11356395"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1189+298delA"	""	""	"ENST00000458174"	""	7	"."	4	2	"."	0	"IFLTD1,intron_variant,,ENST00000539744,NM_001256266.1;IFLTD1,intron_variant,,ENST00000282881,NM_152590.3;IFLTD1,intron_variant,,ENST00000458174,NM_001145728.2;IFLTD1,intron_variant,,ENST00000413632,NM_001145729.1;IFLTD1,intron_variant,,ENST00000445693,NM_001145727.2;IFLTD1,intron_variant,,ENST00000543629,;IFLTD1,intron_variant,,ENST00000539523,;IFLTD1,downstream_gene_variant,,ENST00000545543,;"	"-"	"ENSG00000152936"	"ENST00000458174"	"Transcript"	"intron_variant"	"-/1677"	"-/1230"	"-/409"	""	""	"rs11356395"	"1"	NA	-1	"IFLTD1"	"HGNC"	26683	"protein_coding"	"YES"	"CCDS44849.1"	"ENSP00000407353"	"Q8N9Z9"	"H0YFE3,F5H8G2,F5H719,F5H5I3,F5H3Q3"	"UPI0000E004B3"	"NM_001145728.2"	NA	NA	""	"8/9"	""	"T:0.2817"	"-:0.5401"	"-:0.7277"	NA	"-:0.877"	"-:0.7942"	"-:0.7106"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"6db658e6-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3326"	"ITPR2"	3709	"mskcc.org"	"GRCh37"	"12"	26819095	26819096	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs34107444"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1410-112dupA"	""	""	"ENST00000381340"	""	74	"."	3	16	"."	0	"ITPR2,intron_variant,,ENST00000381340,NM_002223.2;"	"T"	"ENSG00000123104"	"ENST00000381340"	"Transcript"	"intron_variant"	"-/10511"	"-/8106"	"-/2701"	""	""	"rs34107444"	"1"	NA	-1	"ITPR2"	"HGNC"	6181	"protein_coding"	"YES"	"CCDS41764.1"	"ENSP00000370744"	"Q14571"	"I1VE21"	"UPI00001FB7D2"	"NM_002223.2"	NA	NA	""	"13/56"	""	"-:0.1797"	"T:0.7678"	"T:0.8818"	NA	"T:0.8542"	"T:0.831"	"T:0.8016"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"95e24a82-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0405405405405405	"WXS"	FALSE
"3327"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	28246977	28246978	"+"	"IGR"	"INS"	"-"	"-"	"TTTCTTTCTTTCTCCCTCTCTT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	2	"."	0	""	"TTTCTTTCTTTCTCCCTCTCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"965713a8-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3328"	"FAR2"	55711	"mskcc.org"	"GRCh37"	"12"	29464599	29464600	"+"	"Intron"	"INS"	"-"	"-"	"CACACA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.888-194_888-189dupCACACA"	""	""	"ENST00000536681"	""	21	"."	3	3	"."	0	"FAR2,intron_variant,,ENST00000536681,NM_001271783.1;FAR2,intron_variant,,ENST00000182377,NM_018099.4;FAR2,intron_variant,,ENST00000547116,NM_001271784.1;RP11-996F15.2,intron_variant,,ENST00000553105,;FAR2,downstream_gene_variant,,ENST00000552137,;"	"CACACA"	"ENSG00000064763"	"ENST00000536681"	"Transcript"	"intron_variant"	"-/3616"	"-/1548"	"-/515"	""	""	""	"1"	NA	1	"FAR2"	"HGNC"	25531	"protein_coding"	"YES"	"CCDS8717.1"	"ENSP00000443291"	"Q96K12"	"F8VV73,F8VPF2"	"UPI0000041260"	"NM_001271783.1"	NA	NA	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"28"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"9670ad72-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"3329"	"FAR2"	55711	"mskcc.org"	"GRCh37"	"12"	29464599	29464600	"+"	"Intron"	"INS"	"-"	"-"	"CTCACA"	"rs61236613"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.888-216_888-215insTCACAC"	""	""	"ENST00000536681"	""	18	"."	6	2	"."	0	"FAR2,intron_variant,,ENST00000536681,NM_001271783.1;FAR2,intron_variant,,ENST00000182377,NM_018099.4;FAR2,intron_variant,,ENST00000547116,NM_001271784.1;RP11-996F15.2,intron_variant,,ENST00000553105,;FAR2,downstream_gene_variant,,ENST00000552137,;"	"CTCACA"	"ENSG00000064763"	"ENST00000536681"	"Transcript"	"intron_variant"	"-/3616"	"-/1548"	"-/515"	""	""	"rs61236613"	"1"	NA	1	"FAR2"	"HGNC"	25531	"protein_coding"	"YES"	"CCDS8717.1"	"ENSP00000443291"	"Q96K12"	"F8VV73,F8VPF2"	"UPI0000041260"	"NM_001271783.1"	NA	NA	""	"7/11"	""	"CTCACA:0.3069"	"CTCACA:0.2958"	"CTCACA:0.2233"	NA	"CTCACA:0.378"	"CTCACA:0.2962"	"CTCACA:0.319"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"9673d920-280f-11e6-aa73-0dd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3330"	"OVCH1"	341350	"mskcc.org"	"GRCh37"	"12"	29586868	29586868	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs79588258"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3265-122delT"	""	""	"ENST00000318184"	""	85	"."	24	12	"."	1	"OVCH1,intron_variant,,ENST00000318184,NM_183378.2;OVCH1-AS1,intron_variant,,ENST00000551108,;OVCH1-AS1,intron_variant,,ENST00000550906,;OVCH1-AS1,intron_variant,,ENST00000549411,;OVCH1,intron_variant,,ENST00000539117,;"	"-"	"ENSG00000187950"	"ENST00000318184"	"Transcript"	"intron_variant"	"-/3405"	"-/3405"	"-/1134"	""	""	"rs79588258"	"1"	NA	-1	"OVCH1"	"HGNC"	23080	"protein_coding"	"YES"	""	"ENSP00000326708"	"Q7RTY7"	""	"UPI000040640A"	"NM_183378.2"	NA	NA	""	"26/27"	""	"-:0.0661"	"-:0.1097"	"-:0.0346"	NA	"-:0.0675"	"-:0.0437"	"-:0.0511"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"6e819a9c-280f-11e6-aa73-0dd4414a729f"	"1500"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282352941176471	"WXS"	FALSE
"3331"	"RP11-551L14.1"	144203	"mskcc.org"	"GRCh37"	"12"	31306900	31306901	"+"	"Intron"	"INS"	"-"	"A"	"A"	"rs71298070"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.813+366dupT"	""	""	"ENST00000518559"	""	11	"."	9	1	"."	0	"RP11-551L14.1,intron_variant,,ENST00000518559,;RP11-551L14.1,intron_variant,,ENST00000398963,;"	"A"	"ENSG00000177359"	"ENST00000518559"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4427"	""	""	""	""	"rs71298070"	"1"	NA	-1	"RP11-551L14.1"	"Clone_based_vega_gene"	NA	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"7/33"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"96c84884-280f-11e6-aa73-0dd4414a729f"	"432"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.818181818181818	"WXS"	FALSE
"3332"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	32080460	32080463	"+"	"IGR"	"DEL"	"CTGG"	"CTGG"	"-"	"rs111595194"	NA	"JHCCPT5"	"JHCCPN5"	"CTGG"	"CTGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs111595194"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CTGG:0.4077"	"-:0.388"	"-:0.5764"	NA	"-:0.5546"	"-:0.7356"	"-:0.771"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCTGGC"	"6f1f14e8-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3333"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	32182338	32182339	"+"	"IGR"	"INS"	"-"	"-"	"AAAG"	"rs371709002"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	29	"."	6	3	"."	0	""	"AAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs371709002"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"96e91ac8-280f-11e6-aa73-0dd4414a729f"	"321"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206896551724138	"WXS"	FALSE
"3334"	"C12orf40"	283461	"mskcc.org"	"GRCh37"	"12"	40040059	40040060	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs151119934"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.203-71dupA"	""	""	"ENST00000324616"	""	54	"."	19	6	"."	0	"C12orf40,intron_variant,,ENST00000324616,NM_001031748.2;C12orf40,intron_variant,,ENST00000405531,;C12orf40,intron_variant,,ENST00000398716,;C12orf40,intron_variant,,ENST00000468200,;"	"A"	"ENSG00000180116"	"ENST00000324616"	"Transcript"	"intron_variant"	"-/2776"	"-/1959"	"-/652"	""	""	"rs151119934"	"1"	NA	1	"C12orf40"	"HGNC"	26846	"protein_coding"	"YES"	"CCDS41770.1"	"ENSP00000317671"	"Q86WS4"	""	"UPI000069A925"	"NM_001031748.2"	NA	NA	""	"3/12"	""	"A:0.1581"	"A:0.3041"	"A:0.0994"	NA	"A:0.0843"	"A:0.1581"	"A:0.0787"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"9724dffe-280f-11e6-aa73-0dd4414a729f"	"1140"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351851851851852	"WXS"	FALSE
"3335"	"SLC2A13"	114134	"mskcc.org"	"GRCh37"	"12"	40345185	40345186	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11446411"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.926-19dupT"	""	""	"ENST00000280871"	""	104	"."	25	18	"."	1	"SLC2A13,intron_variant,,ENST00000280871,NM_052885.3;SLC2A13,intron_variant,,ENST00000380858,;"	"A"	"ENSG00000151229"	"ENST00000280871"	"Transcript"	"intron_variant"	"-/7003"	"-/1947"	"-/648"	""	""	"rs11446411"	"1"	NA	-1	"SLC2A13"	"HGNC"	15956	"protein_coding"	"YES"	"CCDS8736.2"	"ENSP00000280871"	"Q96QE2"	""	"UPI000066D913"	"NM_052885.3"	NA	NA	""	"3/9"	""	"-:0.4659"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	"0.5228"	"0.3803"	"0.5733"	"0.6135"	"0.5452"	"0.5532"	"0.5135"	"0.4805"	NA	"common_variant"	"AGA"	"972ca216-280f-11e6-aa73-0dd4414a729f"	"1560"	0.5334	"46521/87224"	"55450/106062"	"2818/7410"	"5209/9086"	"3929/6404"	"3235/5934"	"24758/44752"	"305/594"	"6267/13044"	"PASS"	"FALSE"	0.240384615384615	"WXS"	FALSE
"3336"	"LRRK2"	120892	"mskcc.org"	"GRCh37"	"12"	40713587	40713587	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs5797667"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4828-202delA"	""	""	"ENST00000298910"	""	17	"."	5	2	"."	0	"LRRK2,intron_variant,,ENST00000298910,NM_198578.3;LRRK2,intron_variant,,ENST00000481256,;LRRK2,intron_variant,,ENST00000479187,;LRRK2,intron_variant,,ENST00000430804,;"	"-"	"ENSG00000188906"	"ENST00000298910"	"Transcript"	"intron_variant"	"-/9158"	"-/7584"	"-/2527"	""	""	"rs5797667"	"1"	NA	1	"LRRK2"	"HGNC"	18618	"protein_coding"	"YES"	"CCDS31774.1"	"ENSP00000298910"	"Q5S007"	""	"UPI00006C128E"	"NM_198578.3"	NA	NA	""	"33/50"	""	"A:0.4143"	"-:0.5877"	"-:0.6052"	NA	"-:0.5"	"-:0.5417"	"-:0.7025"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAA"	"6fbfbfb0-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"3337"	"MUC19"	283463	"mskcc.org"	"GRCh37"	"12"	40852871	40852871	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs5797671"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3346+308delT"	""	""	"ENST00000454784"	""	11	"."	4	4	"."	0	"MUC19,intron_variant,,ENST00000454784,;MUC19,intron_variant,,ENST00000425730,;"	"-"	"ENSG00000205592"	"ENST00000454784"	"Transcript"	"intron_variant"	"-/19628"	"-/10893"	"-/3630"	""	""	"rs5797671"	"1"	NA	1	"MUC19"	"HGNC"	14362	"protein_coding"	"YES"	""	"ENSP00000476404"	""	"C9JCE7"	"UPI0003B927DE"	""	NA	NA	""	"37/83"	""	"T:0.4800"	"-:0.3661"	"-:0.5663"	NA	"-:0.4742"	"-:0.5447"	"-:0.7168"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"6feeb2a2-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3338"	"CNTN1"	1272	"mskcc.org"	"GRCh37"	"12"	41257728	41257729	"+"	"Intron"	"INS"	"-"	"-"	"CCTTCCTTCCTC"	"rs760801289"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-76-44428_-76-44427insTCCTTCCTCCCT"	""	""	"ENST00000551295"	""	10	"."	3	1	"."	0	"CNTN1,intron_variant,,ENST00000551295,NM_001843.3;CNTN1,intron_variant,,ENST00000547849,NM_001256064.1;CNTN1,intron_variant,,ENST00000547702,NM_001256063.1;CNTN1,intron_variant,,ENST00000552913,;CNTN1,intron_variant,,ENST00000551424,;CNTN1,intron_variant,,ENST00000548005,;CNTN1,intron_variant,,ENST00000552248,;"	"CCTTCCTTCCTC"	"ENSG00000018236"	"ENST00000551295"	"Transcript"	"intron_variant"	"-/5557"	"-/3057"	"-/1018"	""	""	"rs760801289"	"1"	NA	1	"CNTN1"	"HGNC"	2171	"protein_coding"	"YES"	"CCDS8737.1"	"ENSP00000447006"	"Q12860"	"F8VX96,F8VUI9,F8VUI8,F8VQW3"	"UPI0000127EBA"	"NM_001843.3"	NA	NA	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTC"	"979a086a-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3339"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	42039391	42039397	"+"	"IGR"	"DEL"	"GAAAGAA"	"GAAAGAA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GAAAGAA"	"GAAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAAGAAA"	"709eaf04-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3340"	"YAF2"	10138	"mskcc.org"	"GRCh37"	"12"	42606864	42606865	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11419731"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.153-2444dupC"	""	""	"ENST00000442791"	""	6	"."	3	1	"."	0	"YAF2,intron_variant,,ENST00000327791,;YAF2,intron_variant,,ENST00000442791,NM_001190979.1;YAF2,intron_variant,,ENST00000534854,NM_005748.4;YAF2,intron_variant,,ENST00000380790,NM_001190977.1;YAF2,intron_variant,,ENST00000380788,;YAF2,intron_variant,,ENST00000548917,;YAF2,intron_variant,,ENST00000547622,;YAF2,intron_variant,,ENST00000547724,;YAF2,intron_variant,,ENST00000552109,;YAF2,intron_variant,,ENST00000547351,;YAF2,intron_variant,,ENST00000551268,;YAF2,intron_variant,,ENST00000546726,;YAF2,intron_variant,,ENST00000547254,;YAF2,intron_variant,,ENST00000552928,;YAF2,intron_variant,,ENST00000548661,;YAF2,upstream_gene_variant,,ENST00000551528,;"	"G"	"ENSG00000015153"	"ENST00000442791"	"Transcript"	"intron_variant"	"-/2226"	"-/615"	"-/204"	""	""	"rs11419731"	"1"	NA	-1	"YAF2"	"HGNC"	17363	"protein_coding"	"YES"	"CCDS53779.1"	"ENSP00000401859"	"Q8IY57"	""	"UPI00000742C8"	"NM_001190979.1"	NA	NA	""	"2/4"	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"97b5912a-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3341"	"PPHLN1"	51535	"mskcc.org"	"GRCh37"	"12"	42835328	42835328	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1024+97delT"	""	""	"ENST00000395568"	""	124	"."	3	44	"."	0	"PPHLN1,3_prime_UTR_variant,,ENST00000549190,;PPHLN1,3_prime_UTR_variant,,ENST00000395580,NM_201515.1;PPHLN1,3_prime_UTR_variant,,ENST00000358314,NM_201439.1;PPHLN1,3_prime_UTR_variant,,ENST00000449194,NM_001143788.1,NM_001143789.1;PPHLN1,3_prime_UTR_variant,,ENST00000552761,NM_201440.1;PPHLN1,intron_variant,,ENST00000432191,NM_001143787.1;PPHLN1,intron_variant,,ENST00000395568,NM_016488.6;PPHLN1,intron_variant,,ENST00000256678,;PPHLN1,intron_variant,,ENST00000337898,;PPHLN1,intron_variant,,ENST00000317560,;"	"-"	"ENSG00000134283"	"ENST00000395568"	"Transcript"	"intron_variant"	"-/2170"	"-/1377"	"-/458"	""	""	""	"1"	NA	1	"PPHLN1"	"HGNC"	19369	"protein_coding"	"YES"	"CCDS31777.1"	"ENSP00000378935"	"Q8NEY8"	"F8VWU8"	"UPI0000351A1E"	"NM_016488.6"	NA	NA	""	"10/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTA"	"70cd0214-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.0241935483870968	"WXS"	FALSE
"3342"	"ENSR00001463153"	0	"mskcc.org"	"GRCh37"	"12"	47314812	47314812	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs78269644"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001463153"	""	7	"."	4	1	"."	0	""	"-"	""	"ENSR00001463153"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs78269644"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3504"	"-:0.1589"	"-:0.3401"	NA	"-:0.2857"	"-:0.5845"	"-:0.4427"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"717e5ff0-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3343"	"SNORA64"	0	"mskcc.org"	"GRCh37"	"12"	47739931	47739932	"+"	"3'Flank"	"INS"	"-"	"-"	"T"	"rs11463332"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000362696"	""	9	"."	4	8	"."	0	"SNORA64,downstream_gene_variant,,ENST00000362696,;RP11-493L12.6,upstream_gene_variant,,ENST00000546707,;"	"T"	"ENSG00000199566"	"ENST00000362696"	"Transcript"	"downstream_gene_variant"	"-/132"	""	""	""	""	"rs11463332"	"1"	"17"	-1	"SNORA64"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"982a9538-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3344"	"HDAC7"	51564	"mskcc.org"	"GRCh37"	"12"	48184817	48184818	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs147772246"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1983+224_1983+225insG"	""	""	"ENST00000080059"	""	17	"."	5	5	"."	0	"HDAC7,intron_variant,,ENST00000080059,NM_015401.3;HDAC7,intron_variant,,ENST00000354334,NM_001098416.2;HDAC7,intron_variant,,ENST00000380610,;HDAC7,intron_variant,,ENST00000552960,;HDAC7,intron_variant,,ENST00000427332,;HDAC7,intron_variant,,ENST00000548080,;HDAC7,downstream_gene_variant,,ENST00000430670,;HDAC7,intron_variant,,ENST00000488927,;HDAC7,intron_variant,,ENST00000477937,;HDAC7,non_coding_transcript_exon_variant,,ENST00000459625,;HDAC7,intron_variant,,ENST00000470668,;HDAC7,intron_variant,,ENST00000477203,;HDAC7,intron_variant,,ENST00000548938,;HDAC7,upstream_gene_variant,,ENST00000471235,;HDAC7,downstream_gene_variant,,ENST00000485796,;HDAC7,downstream_gene_variant,,ENST00000425451,;HDAC7,upstream_gene_variant,,ENST00000547259,;HDAC7,downstream_gene_variant,,ENST00000463732,;HDAC7,downstream_gene_variant,,ENST00000491464,;"	"C"	"ENSG00000061273"	"ENST00000080059"	"Transcript"	"intron_variant"	"-/4095"	"-/2976"	"-/991"	""	""	"rs147772246"	"1"	NA	-1	"HDAC7"	"HGNC"	14067	"protein_coding"	"YES"	"CCDS8756.2"	"ENSP00000080059"	"Q8WUI4"	"F8VWY3,C9JZ79,C9JS90,C9JNI4,C9JH46,C9JGF5,C9JBC2,C9J102"	"UPI00001D9A86"	"NM_015401.3"	NA	NA	""	"16/25"	""	"C:0.2001"	"C:0.1203"	"C:0.2305"	NA	"C:0.0615"	"C:0.3897"	"C:0.2342"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"984772ca-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"3345"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	48616439	48616440	"+"	"IGR"	"INS"	"-"	"-"	"TTCTTTCT"	"rs144120536"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	7	"."	0	""	"TTCTTTCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144120536"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TTCT:0.0276"	"TTCTTTCTTTCT:0.27"	"TTCTTTCTTTCT:0.1311"	NA	"TTCTTTCTTTCT:0.129"	"TTCTTTCTTTCT:0.2326"	"TTCTTTCTTTCT:0.2055"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"988c9134-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3346"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	48851068	48851070	"+"	"IGR"	"DEL"	"TGG"	"TGG"	"-"	"rs36090264"	NA	"JHCCPT5"	"JHCCPN5"	"TGG"	"TGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"."	4	9	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs36090264"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTGGT"	"71c08696-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WXS"	FALSE
"3347"	"FAIM2"	23017	"mskcc.org"	"GRCh37"	"12"	50272306	50272307	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs144546821"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.802-7871_802-7870delCA"	""	""	"ENST00000320634"	""	76	"."	4	27	"."	0	"FAIM2,intron_variant,,ENST00000320634,NM_012306.3;FAIM2,intron_variant,,ENST00000550890,;FAIM2,intron_variant,,ENST00000552669,;FAIM2,intron_variant,,ENST00000552863,;FAIM2,intron_variant,,ENST00000550195,;"	"-"	"ENSG00000135472"	"ENST00000320634"	"Transcript"	"intron_variant"	"-/4654"	"-/951"	"-/316"	""	""	"rs144546821"	"1"	NA	-1	"FAIM2"	"HGNC"	17067	"protein_coding"	"YES"	"CCDS8791.1"	"ENSP00000321951"	"Q9BWQ8"	"F8VV65,B3KR08"	"UPI0000072B0C"	"NM_012306.3"	NA	NA	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTGT"	"73546db0-280f-11e6-aa73-0dd4414a729f"	"228"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0526315789473684	"WXS"	FALSE
"3348"	"FAIM2"	23017	"mskcc.org"	"GRCh37"	"12"	50272643	50272670	"+"	"Intron"	"DEL"	"GTCTGTGCATGTGAGTGTGTATGCATGT"	"GTCTGTGCATGTGAGTGTGTATGCATGT"	"CTGTGCATGTGTGTATGCATGTGC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GTCTGTGCATGTGAGTGTGTATGCATGT"	"GTCTGTGCATGTGAGTGTGTATGCATGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.802-8234_802-8207delACATGCATACACACTCACATGCACAGACinsGCACATGCATACACACATGCACAG"	""	""	"ENST00000320634"	""	44	"."	4	13	"."	0	"FAIM2,intron_variant,,ENST00000320634,NM_012306.3;FAIM2,intron_variant,,ENST00000550890,;FAIM2,intron_variant,,ENST00000552669,;FAIM2,intron_variant,,ENST00000552863,;FAIM2,intron_variant,,ENST00000550195,;"	"CTGTGCATGTGTGTATGCATGTGC"	"ENSG00000135472"	"ENST00000320634"	"Transcript"	"intron_variant"	"-/4654"	"-/951"	"-/316"	""	""	""	"1"	NA	-1	"FAIM2"	"HGNC"	17067	"protein_coding"	"YES"	"CCDS8791.1"	"ENSP00000321951"	"Q9BWQ8"	"F8VV65,B3KR08"	"UPI0000072B0C"	"NM_012306.3"	NA	NA	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGTCTGTGCATGTGAGTGTGTATGCATGTG"	"8e463194-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WXS"	FALSE
"3349"	"BIN2"	51411	"mskcc.org"	"GRCh37"	"12"	51692878	51692878	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs58649283"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.602+109delG"	""	""	"ENST00000267012"	""	29	"."	4	16	"."	0	"BIN2,intron_variant,,ENST00000267012,NM_016293.2;BIN2,intron_variant,,ENST00000452142,;BIN2,intron_variant,,ENST00000604560,;BIN2,intron_variant,,ENST00000544402,;BIN2,intron_variant,,ENST00000605039,;BIN2,upstream_gene_variant,,ENST00000603177,;BIN2,upstream_gene_variant,,ENST00000605819,;BIN2,downstream_gene_variant,,ENST00000605423,;"	"-"	"ENSG00000110934"	"ENST00000267012"	"Transcript"	"intron_variant"	"-/2221"	"-/1698"	"-/565"	""	""	"rs58649283"	"1"	NA	-1	"BIN2"	"HGNC"	1053	"protein_coding"	"YES"	"CCDS8811.1"	"ENSP00000267012"	"Q9UBW5"	""	"UPI000013D71F"	"NM_016293.2"	NA	NA	""	"7/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCG"	"7457a970-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WXS"	FALSE
"3350"	"GALNT6"	11226	"mskcc.org"	"GRCh37"	"12"	51748714	51748727	"+"	"Intron"	"DEL"	"TGAGCTCAGCATGG"	"TGAGCTCAGCATGG"	"-"	"rs71443219"	NA	"JHCCPT5"	"JHCCPN5"	"TGAGCTCAGCATGG"	"TGAGCTCAGCATGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1756-451_1756-438delCCATGCTGAGCTCA"	""	""	"ENST00000543196"	""	7	"."	4	1	"."	0	"GALNT6,intron_variant,,ENST00000543196,;GALNT6,intron_variant,,ENST00000356317,NM_007210.3;GALNT6,intron_variant,,ENST00000603680,;GALNT6,intron_variant,,ENST00000603641,;"	"-"	"ENSG00000139629"	"ENST00000543196"	"Transcript"	"intron_variant"	"-/5207"	"-/1869"	"-/622"	""	""	"rs71443219"	"1"	NA	-1	"GALNT6"	"HGNC"	4128	"protein_coding"	"YES"	"CCDS8813.1"	"ENSP00000444171"	"Q8NCL4"	"S4R3M3,S4R3L4,S4R3A9,S4R396,S4R370,S4R355,S4R345,S4R310,B3KRZ8"	"UPI000013D726"	""	NA	NA	""	"10/10"	""	"-:0.2065"	"-:0.1936"	"-:0.2147"	NA	"-:0.0585"	"-:0.3628"	"-:0.2096"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTGAGCTCAGCATGGT"	"7467602c-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3351"	"ANKRD33"	341405	"mskcc.org"	"GRCh37"	"12"	52281568	52281569	"+"	"5'Flank"	"DEL"	"CC"	"-"	"-"	"rs35181728"	NA	"JHCCPT5"	"JHCCPN5"	"CC"	"CC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000301190"	""	6	"."	5	1	"."	0	"ANKRD33,upstream_gene_variant,,ENST00000301190,NM_001130015.1,NM_182608.3;ANKRD33,upstream_gene_variant,,ENST00000340970,;ANKRD33,upstream_gene_variant,,ENST00000538991,;ANKRD33,upstream_gene_variant,,ENST00000547119,;ANKRD33,upstream_gene_variant,,ENST00000549316,;ANKRD33,upstream_gene_variant,,ENST00000548526,;ANKRD33,upstream_gene_variant,,ENST00000548383,;ANKRD33,upstream_gene_variant,,ENST00000549751,;ANKRD33,upstream_gene_variant,,ENST00000550652,;"	"-"	"ENSG00000167612"	"ENST00000301190"	"Transcript"	"upstream_gene_variant"	"-/1935"	"-/1359"	"-/452"	""	""	"rs35181728"	"1"	"175"	1	"ANKRD33"	"HGNC"	13788	"protein_coding"	"YES"	"CCDS8815.1"	"ENSP00000301190"	"Q7Z3H0"	"Q5K626,Q5K625,Q5K618,Q5K617"	"UPI00003668C0"	"NM_001130015.1,NM_182608.3"	NA	NA	""	""	""	"-:0.4834"	"-:0.472"	"-:0.6066"	NA	"-:0.502"	"-:0.3767"	"-:0.502"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACCC"	"749c3cc0-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3352"	"KRT126P"	0	"mskcc.org"	"GRCh37"	"12"	53114862	53114863	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs547103047"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000549467"	""	20	"."	5	8	"."	0	"KRT126P,upstream_gene_variant,,ENST00000549467,;"	"A"	"ENSG00000257402"	"ENST00000549467"	"Transcript"	"upstream_gene_variant"	"-/690"	""	""	""	""	"rs547103047"	"1"	"2038"	-1	"KRT126P"	"HGNC"	32970	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"AAAA:0.3854"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"9aa03c3c-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3353"	"MUCL1"	118430	"mskcc.org"	"GRCh37"	"12"	55250056	55250057	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs34405498"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.101-497dupT"	""	""	"ENST00000308796"	""	9	"."	4	3	"."	0	"MUCL1,intron_variant,,ENST00000308796,NM_058173.2;MUCL1,intron_variant,,ENST00000546809,;MUCL1,intron_variant,,ENST00000547990,;MUCL1,downstream_gene_variant,,ENST00000547958,;"	"T"	"ENSG00000172551"	"ENST00000308796"	"Transcript"	"intron_variant"	"-/470"	"-/273"	"-/90"	""	""	"rs34405498"	"1"	NA	1	"MUCL1"	"HGNC"	30588	"protein_coding"	"YES"	"CCDS8885.1"	"ENSP00000311364"	"Q96DR8"	""	"UPI0000041AA1"	"NM_058173.2"	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"9b538030-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3354"	"RP11-616L12.4"	0	"mskcc.org"	"GRCh37"	"12"	55517517	55517518	"+"	"RNA"	"INS"	"-"	"-"	"T"	"rs61034128"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.387dupA"	""	""	"ENST00000553115"	"1/1"	116	"."	33	19	"."	1	"RP11-616L12.4,non_coding_transcript_exon_variant,,ENST00000553115,;"	"T"	"ENSG00000257350"	"ENST00000553115"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"387-388/1453"	""	""	""	""	"rs61034128"	"1"	NA	-1	"RP11-616L12.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"T:0.3037"	"T:0.4062"	"T:0.2421"	NA	"T:0.1151"	"T:0.334"	"T:0.3722"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"9b5fcdd6-280f-11e6-aa73-0dd4414a729f"	"2040"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28448275862069	"WXS"	FALSE
"3355"	"OR6C70"	390327	"mskcc.org"	"GRCh37"	"12"	55862676	55862677	"+"	"3'Flank"	"INS"	"-"	"-"	"AGC"	"rs35305455"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000327335"	""	8	"."	5	1	"."	0	"OR6C70,downstream_gene_variant,,ENST00000327335,NM_001005499.1;RP11-110A12.2,intron_variant,,ENST00000556750,;RP11-110A12.2,intron_variant,,ENST00000555146,;RP11-110A12.2,intron_variant,,ENST00000554049,;RP11-110A12.2,intron_variant,,ENST00000555138,;"	"AGC"	"ENSG00000184954"	"ENST00000327335"	"Transcript"	"downstream_gene_variant"	"-/939"	"-/939"	"-/312"	""	""	"rs35305455"	"1"	"307"	-1	"OR6C70"	"HGNC"	31299	"protein_coding"	"YES"	"CCDS31825.1"	"ENSP00000329153"	"A6NIJ9"	""	"UPI000044D40E"	"NM_001005499.1"	NA	NA	""	""	""	"-:0.2734"	"AGC:0.6415"	"AGC:0.7478"	NA	"AGC:0.8909"	"AGC:0.7515"	"AGC:0.6319"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"9b71ca36-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"3356"	"ENSR00000431488"	0	"mskcc.org"	"GRCh37"	"12"	58542734	58542737	"+"	"IGR"	"DEL"	"ATTT"	"ATTT"	"-"	"rs66928325"	NA	"JHCCPT5"	"JHCCPN5"	"ATTT"	"ATTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000431488"	""	21	"."	4	9	"."	0	""	"-"	""	"ENSR00000431488"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs66928325"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4209"	"-:0.0749"	"-:0.5"	NA	"-:0.4256"	"-:0.5845"	"-:0.6595"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATTTC"	"7a91baba-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"3357"	"RP11-154D9.1"	0	"mskcc.org"	"GRCh37"	"12"	60815896	60815923	"+"	"3'Flank"	"DEL"	"TCCTTCCTTCCTTCCTTCCTTCCTTCCG"	"TCCTTCCTTCCTTCCTTCCTTCCTTCCG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TCCTTCCTTCCTTCCTTCCTTCCTTCCG"	"TCCTTCCTTCCTTCCTTCCTTCCTTCCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000546569"	""	10	"."	3	3	"."	0	"RP11-154D9.1,downstream_gene_variant,,ENST00000546569,;"	"-"	"ENSG00000257865"	"ENST00000546569"	"Transcript"	"downstream_gene_variant"	"-/311"	""	""	""	""	""	"1"	"2822"	1	"RP11-154D9.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTCCTTCCTTCCTTCCTTCCTTCCTTCCGT"	"7aab1bf4-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3358"	"FAM19A2"	338811	"mskcc.org"	"GRCh37"	"12"	62384403	62384404	"+"	"Intron"	"INS"	"-"	"-"	"GCCACC"	"rs113439655"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1-123197_-1-123196insGGTGGC"	""	""	"ENST00000416284"	""	9	"."	5	1	"."	0	"FAM19A2,intron_variant,,ENST00000416284,NM_178539.4;FAM19A2,intron_variant,,ENST00000551619,;FAM19A2,intron_variant,,ENST00000551449,;FAM19A2,intron_variant,,ENST00000552075,;FAM19A2,intron_variant,,ENST00000548780,;FAM19A2,intron_variant,,ENST00000549958,;FAM19A2,intron_variant,,ENST00000549379,;"	"GCCACC"	"ENSG00000198673"	"ENST00000416284"	"Transcript"	"intron_variant"	"-/4128"	"-/396"	"-/131"	""	""	"rs113439655"	"1"	NA	-1	"FAM19A2"	"HGNC"	21589	"protein_coding"	"YES"	"CCDS8962.1"	"ENSP00000393987"	"Q8N3H0"	""	"UPI000006F642"	"NM_178539.4"	NA	NA	""	"1/4"	""	"-:0.2250"	"GCCACC:0.7277"	"GCCACC:0.8746"	NA	"GCCACC:0.7133"	"GCCACC:0.8539"	"GCCACC:0.7505"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"9cd0456a-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3359"	"C12orf56"	115749	"mskcc.org"	"GRCh37"	"12"	64671412	64671413	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs10624687"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.954+46_954+47dupTA"	""	""	"ENST00000333722"	""	157	"."	44	17	"."	2	"C12orf56,intron_variant,,ENST00000543942,NM_001170633.1;C12orf56,intron_variant,,ENST00000333722,NM_001099676.2;RPS11P6,intron_variant,,ENST00000535684,;C12orf56,intron_variant,,ENST00000536975,;C12orf56,intron_variant,,ENST00000542397,;C12orf56,intron_variant,,ENST00000541802,;"	"TA"	"ENSG00000185306"	"ENST00000333722"	"Transcript"	"intron_variant"	"-/1712"	"-/1389"	"-/462"	""	""	"rs10624687"	"1"	NA	-1	"C12orf56"	"HGNC"	26967	"protein_coding"	"YES"	"CCDS44935.1"	"ENSP00000329698"	"Q8IXR9"	""	"UPI00001D7985"	"NM_001099676.2"	NA	NA	""	"7/10"	""	"-:0.2310"	"TA:0.6248"	"TA:0.8141"	NA	"TA:0.7917"	"TA:0.8777"	"TA:0.7965"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	"0.4157"	"0.5078"	"0.5673"	"0.4603"	"0.75"	"0.5362"	"0.5862"	"0.5144"	NA	"common_variant"	"CCT"	"9d0f4ce2-280f-11e6-aa73-0dd4414a729f"	"2760"	0.5207	"2639/5068"	"7896/18994"	"195/384"	"59/104"	"58/126"	"9/12"	"711/1326"	"34/58"	"1573/3058"	"PASS"	"FALSE"	0.280254777070064	"WXS"	FALSE
"3360"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	67550356	67550357	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs201921934"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201921934"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.0491"	"T:0.0794"	"T:0.036"	NA	"T:0"	"T:0.0636"	"T:0.0532"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"9d74b960-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3361"	"IL26"	55801	"mskcc.org"	"GRCh37"	"12"	68618564	68618569	"+"	"Intron"	"DEL"	"AGACTT"	"AGACTT"	"-"	"rs11570916"	NA	"JHCCPT5"	"JHCCPN5"	"AGACTT"	"AGACTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.363+360_363+365delAAGTCT"	""	""	"ENST00000229134"	""	19	"."	4	4	"."	0	"IL26,intron_variant,,ENST00000229134,NM_018402.1;IFNG-AS1,intron_variant,,ENST00000536914,;"	"-"	"ENSG00000111536"	"ENST00000229134"	"Transcript"	"intron_variant"	"-/1075"	"-/516"	"-/171"	""	""	"rs11570916"	"1"	NA	-1	"IL26"	"HGNC"	17119	"protein_coding"	"YES"	"CCDS8981.1"	"ENSP00000229134"	"Q9NPH9"	""	"UPI0000035828"	"NM_018402.1"	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGACTTA"	"7c05bd92-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"3362"	"MDM1"	56890	"mskcc.org"	"GRCh37"	"12"	68714952	68714953	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11443071"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1005+174dupT"	""	""	"ENST00000303145"	""	46	"."	12	14	"."	0	"MDM1,intron_variant,,ENST00000303145,NM_017440.4;MDM1,intron_variant,,ENST00000540418,;MDM1,intron_variant,,ENST00000411698,NM_001205028.1;MDM1,downstream_gene_variant,,ENST00000393543,;MDM1,downstream_gene_variant,,ENST00000430606,NM_001205029.1,NM_020128.2;MDM1,downstream_gene_variant,,ENST00000541686,;MDM1,downstream_gene_variant,,ENST00000545724,;MDM1,downstream_gene_variant,,ENST00000540476,;MDM1,non_coding_transcript_exon_variant,,ENST00000538454,;MDM1,upstream_gene_variant,,ENST00000536313,;MDM1,downstream_gene_variant,,ENST00000536997,;MDM1,upstream_gene_variant,,ENST00000545964,;"	"A"	"ENSG00000111554"	"ENST00000303145"	"Transcript"	"intron_variant"	"-/2918"	"-/2145"	"-/714"	""	""	"rs11443071"	"1"	NA	-1	"MDM1"	"HGNC"	29917	"protein_coding"	"YES"	"CCDS8983.1"	"ENSP00000302537"	"Q8TC05"	"F5H804"	"UPI00001FC70C"	"NM_017440.4"	NA	NA	""	"7/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"9d8375cc-280f-11e6-aa73-0dd4414a729f"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WXS"	FALSE
"3363"	"RAP1B"	5908	"mskcc.org"	"GRCh37"	"12"	69048131	69048132	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs112638624"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.324+109dupG"	""	""	"ENST00000250559"	""	40	"."	6	24	"."	0	"RAP1B,intron_variant,,ENST00000250559,NM_001251922.1,NM_001251921.1,NM_015646.5,NM_001010942.2;RAP1B,intron_variant,,ENST00000393436,;RAP1B,intron_variant,,ENST00000450214,NM_001251917.1,NM_001251918.1;RAP1B,intron_variant,,ENST00000540209,;RAP1B,intron_variant,,ENST00000537460,;RAP1B,intron_variant,,ENST00000542145,;RAP1B,intron_variant,,ENST00000378985,;RAP1B,intron_variant,,ENST00000539091,;RAP1B,intron_variant,,ENST00000543393,;RAP1B,intron_variant,,ENST00000425247,;RAP1B,intron_variant,,ENST00000543697,;RAP1B,intron_variant,,ENST00000341355,;RAP1B,intron_variant,,ENST00000541216,;RAP1B,intron_variant,,ENST00000545270,;RAP1B,intron_variant,,ENST00000538980,;RAP1B,intron_variant,,ENST00000540781,;RAP1B,intron_variant,,ENST00000453560,;RAP1B,intron_variant,,ENST00000535492,;RAP1B,downstream_gene_variant,,ENST00000542018,;RAP1B,downstream_gene_variant,,ENST00000534899,;RAP1B,downstream_gene_variant,,ENST00000538283,;RAP1B,downstream_gene_variant,,ENST00000541167,;RAP1B,downstream_gene_variant,,ENST00000545720,;RAP1B,downstream_gene_variant,,ENST00000538877,;RAP1B,downstream_gene_variant,,ENST00000422358,;RAP1B,downstream_gene_variant,,ENST00000485252,;RAP1B,intron_variant,,ENST00000463493,;RAP1B,downstream_gene_variant,,ENST00000460800,;RAP1B,intron_variant,,ENST00000544639,;RAP1B,downstream_gene_variant,,ENST00000501412,;RAP1B,downstream_gene_variant,,ENST00000541968,;"	"G"	"ENSG00000127314"	"ENST00000250559"	"Transcript"	"intron_variant"	"-/2129"	"-/555"	"-/184"	""	""	"rs112638624"	"1"	NA	1	"RAP1B"	"HGNC"	9857	"protein_coding"	"YES"	"CCDS8984.1"	"ENSP00000250559"	"P61224"	"F8WBC0,F5H823,F5H6R7,F5H500,F5H4H0,F5H491,F5H0B7,F5H077,F5H004,F5GZG1,F5GYH7,F5GX62,F5GWU8,B7ZB78"	"UPI0000001221"	"NM_001251922.1,NM_001251921.1,NM_015646.5,NM_001010942.2"	NA	NA	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"9d917e06-280f-11e6-aa73-0dd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"3364"	"CPM"	1368	"mskcc.org"	"GRCh37"	"12"	69280108	69280108	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs139242638"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.161-439delG"	""	""	"ENST00000551568"	""	9	"."	3	3	"."	0	"CPM,intron_variant,,ENST00000551568,NM_001005502.2,NM_198320.3;CPM,intron_variant,,ENST00000338356,;CPM,intron_variant,,ENST00000546373,NM_001874.4;CPM,intron_variant,,ENST00000548954,;CPM,intron_variant,,ENST00000548262,;CPM,intron_variant,,ENST00000549781,;CPM,intron_variant,,ENST00000551728,;CPM,intron_variant,,ENST00000547924,;CPM,intron_variant,,ENST00000547134,;"	"-"	"ENSG00000135678"	"ENST00000551568"	"Transcript"	"intron_variant"	"-/6655"	"-/1332"	"-/443"	""	""	"rs139242638"	"1"	NA	-1	"CPM"	"HGNC"	2311	"protein_coding"	"YES"	"CCDS8987.1"	"ENSP00000448517"	"P14384"	"H0YHG6,F8W111,F8VVI6"	"UPI00001271D4"	"NM_001005502.2,NM_198320.3"	NA	NA	""	"2/8"	""	"C:0.2318"	"-:0.6006"	"-:0.8084"	NA	"-:0.7778"	"-:0.8748"	"-:0.8466"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACA"	"7c461162-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3365"	"MYRFL"	0	"mskcc.org"	"GRCh37"	"12"	70326642	70326643	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGT"	"rs3970822"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.11+279_11+284dupGTGTGT"	""	""	"ENST00000535034"	""	34	"."	6	27	"."	0	"MYRFL,intron_variant,,ENST00000547771,;MYRFL,intron_variant,,ENST00000552032,;MYRFL,intron_variant,,ENST00000548892,;MYRFL,intron_variant,,ENST00000299350,;MYRFL,intron_variant,,ENST00000535034,;RP11-611E13.2,intron_variant,,ENST00000549419,;"	"GTGTGT"	"ENSG00000166268"	"ENST00000535034"	"Transcript"	"intron_variant"	"-/881"	"-/753"	"-/250"	""	""	"rs3970822"	"1"	NA	1	"MYRFL"	"HGNC"	26316	"protein_coding"	"YES"	""	"ENSP00000440626"	""	"F5GYH9"	"UPI00020654F3"	""	NA	NA	""	"1/8"	""	"GTGTGT:0.2694"	"GTGTGT:0.0976"	"GTGTGT:0.2896"	NA	"GTGTGT:0.5437"	"GTGTGT:0.2008"	"GTGTGT:0.2751"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"9dcd50ac-280f-11e6-aa73-0dd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"3366"	"PTPRR"	5801	"mskcc.org"	"GRCh37"	"12"	71177844	71177845	"+"	"Intron"	"INS"	"-"	"-"	"CAACCC"	"rs111557746"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.358-19287_358-19286insGGGTTG"	""	""	"ENST00000283228"	""	7	"."	4	6	"."	0	"PTPRR,intron_variant,,ENST00000283228,NM_002849.3;PTPRR,intron_variant,,ENST00000342084,NM_001207015.1;"	"CAACCC"	"ENSG00000153233"	"ENST00000283228"	"Transcript"	"intron_variant"	"-/3529"	"-/1974"	"-/657"	""	""	"rs111557746"	"1"	NA	-1	"PTPRR"	"HGNC"	9680	"protein_coding"	"YES"	"CCDS8998.1"	"ENSP00000283228"	"Q15256"	"Q68CP6,F8VVE9"	"UPI000013DD2F"	"NM_002849.3"	NA	NA	""	"2/13"	""	"CAACCC:0.3556"	"CAACCC:0.7141"	"CAACCC:0.2622"	NA	"CAACCC:0.1548"	"CAACCC:0.2505"	"CAACCC:0.2526"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"9df22bca-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3367"	"OSBPL8"	114882	"mskcc.org"	"GRCh37"	"12"	76944880	76944881	"+"	"Intron"	"INS"	"-"	"-"	"AC"	"rs550477280"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-68+8295_-68+8296dupGT"	""	""	"ENST00000261183"	""	9	"."	4	1	"."	0	"OSBPL8,intron_variant,,ENST00000261183,NM_020841.4;OSBPL8,intron_variant,,ENST00000393249,;OSBPL8,intron_variant,,ENST00000393250,NM_001003712.1;OSBPL8,intron_variant,,ENST00000547540,;OSBPL8,intron_variant,,ENST00000553139,;OSBPL8,intron_variant,,ENST00000549570,;OSBPL8,intron_variant,,ENST00000549646,;OSBPL8,intron_variant,,ENST00000550628,;OSBPL8,intron_variant,,ENST00000551927,;OSBPL8,intron_variant,,ENST00000547544,;OSBPL8,intron_variant,,ENST00000552178,;"	"AC"	"ENSG00000091039"	"ENST00000261183"	"Transcript"	"intron_variant"	"-/7239"	"-/2670"	"-/889"	""	""	"rs550477280"	"1"	NA	-1	"OSBPL8"	"HGNC"	16396	"protein_coding"	"YES"	"CCDS31862.1"	"ENSP00000261183"	"Q9BZF1"	"Q96E43,Q6ZME5,F8VZB8,F8VVE7,F8VVD3,F8VQX7"	"UPI000006ECD1"	"NM_020841.4"	NA	NA	""	"1/23"	""	"AC:0.0060"	"AC:0"	"AC:0.0043"	NA	"AC:0.003"	"AC:0.0189"	"AC:0.0051"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"9e6e1d02-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3368"	"RP11-359M6.3"	0	"mskcc.org"	"GRCh37"	"12"	79953177	79953178	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"rs35825704"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000549457"	""	9	"."	3	4	"."	0	"RP11-359M6.3,downstream_gene_variant,,ENST00000549457,;"	"A"	"ENSG00000257956"	"ENST00000549457"	"Transcript"	"downstream_gene_variant"	"-/385"	""	""	""	""	"rs35825704"	"1"	"231"	1	"RP11-359M6.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4036"	"A:0.028"	"A:0.6441"	NA	"A:0.4177"	"A:0.675"	"A:0.4468"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"9e97587a-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3369"	"PTPRQ"	0	"mskcc.org"	"GRCh37"	"12"	80861832	80861833	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs140536566"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.899-656dupT"	""	""	"ENST00000266688"	""	29	"."	6	4	"."	0	"PTPRQ,intron_variant,,ENST00000266688,;"	"T"	"ENSG00000139304"	"ENST00000266688"	"Transcript"	"intron_variant"	"-/6888"	"-/6888"	"-/2295"	""	""	"rs140536566"	"1"	NA	1	"PTPRQ"	"HGNC"	9679	"protein_coding"	"YES"	""	"ENSP00000266688"	"Q9UMZ3"	""	"UPI00020655BB"	""	NA	NA	""	"11/49"	""	"T:0.1298"	"T:0.3222"	"T:0.0937"	NA	"T:0.0367"	"T:0.0209"	"T:0.1033"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"9ef85d5a-280f-11e6-aa73-0dd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206896551724138	"WXS"	FALSE
"3370"	"PPFIA2"	8499	"mskcc.org"	"GRCh37"	"12"	81660963	81660964	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs35647579"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3487-165dupT"	""	""	"ENST00000549396"	""	109	"."	12	30	"."	0	"PPFIA2,intron_variant,,ENST00000550584,NM_001220473.1;PPFIA2,intron_variant,,ENST00000549396,NM_003625.3,NM_001220476.1,NM_001282536.1;PPFIA2,intron_variant,,ENST00000549325,NM_001220474.1;PPFIA2,intron_variant,,ENST00000548586,;PPFIA2,intron_variant,,ENST00000552948,NM_001220475.1;PPFIA2,intron_variant,,ENST00000407050,NM_001220477.1;PPFIA2,intron_variant,,ENST00000550359,;PPFIA2,intron_variant,,ENST00000443686,NM_001220478.1;PPFIA2,intron_variant,,ENST00000333447,;PPFIA2,intron_variant,,ENST00000541570,NM_001220479.1;PPFIA2,intron_variant,,ENST00000541017,NM_001220480.1;RP11-121G22.3,upstream_gene_variant,,ENST00000549161,;RP11-121G22.3,upstream_gene_variant,,ENST00000550138,;PPFIA2,intron_variant,,ENST00000545296,;PPFIA2,intron_variant,,ENST00000551461,;"	"A"	"ENSG00000139220"	"ENST00000549396"	"Transcript"	"intron_variant"	"-/5363"	"-/3774"	"-/1257"	""	""	"rs35647579"	"1"	NA	-1	"PPFIA2"	"HGNC"	9246	"protein_coding"	"YES"	"CCDS55857.1"	"ENSP00000450337"	"O75334"	"H0YHK3,F8W1Y8,F8VU88"	"UPI0000168655"	"NM_003625.3,NM_001220476.1,NM_001282536.1"	NA	NA	""	"29/32"	""	"-:0.3946"	"A:0.6377"	"A:0.6182"	NA	"A:0.4454"	"A:0.7266"	"A:0.593"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"9f18a588-280f-11e6-aa73-0dd4414a729f"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.110091743119266	"WXS"	FALSE
"3371"	"PPFIA2"	8499	"mskcc.org"	"GRCh37"	"12"	81738709	81738710	"+"	"Intron"	"INS"	"-"	"-"	"TGTAC"	"rs59018607"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2233-242_2233-238dupGTACA"	""	""	"ENST00000549396"	""	24	"."	16	2	"."	0	"PPFIA2,intron_variant,,ENST00000550584,NM_001220473.1;PPFIA2,intron_variant,,ENST00000549396,NM_003625.3,NM_001220476.1,NM_001282536.1;PPFIA2,intron_variant,,ENST00000549325,NM_001220474.1;PPFIA2,intron_variant,,ENST00000548586,;PPFIA2,intron_variant,,ENST00000552948,NM_001220475.1;PPFIA2,intron_variant,,ENST00000407050,NM_001220477.1;PPFIA2,intron_variant,,ENST00000550359,;PPFIA2,intron_variant,,ENST00000443686,NM_001220478.1;PPFIA2,intron_variant,,ENST00000333447,;PPFIA2,intron_variant,,ENST00000541570,NM_001220479.1;PPFIA2,intron_variant,,ENST00000541017,NM_001220480.1;PPFIA2,downstream_gene_variant,,ENST00000553058,;PPFIA2,intron_variant,,ENST00000545296,;PPFIA2,intron_variant,,ENST00000549917,;PPFIA2,intron_variant,,ENST00000551461,;PPFIA2,upstream_gene_variant,,ENST00000549344,;"	"TGTAC"	"ENSG00000139220"	"ENST00000549396"	"Transcript"	"intron_variant"	"-/5363"	"-/3774"	"-/1257"	""	""	"rs59018607"	"1"	NA	-1	"PPFIA2"	"HGNC"	9246	"protein_coding"	"YES"	"CCDS55857.1"	"ENSP00000450337"	"O75334"	"H0YHK3,F8W1Y8,F8VU88"	"UPI0000168655"	"NM_003625.3,NM_001220476.1,NM_001282536.1"	NA	NA	""	"18/32"	""	"-:0.4351"	"TGTAC:0.3449"	"TGTAC:0.6254"	NA	"TGTAC:0.5407"	"TGTAC:0.7505"	"TGTAC:0.6534"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"9f1c9c6a-280f-11e6-aa73-0dd4414a729f"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3372"	"AC083810.1"	0	"mskcc.org"	"GRCh37"	"12"	82658484	82658486	"+"	"5'Flank"	"DEL"	"GAG"	"GAG"	"-"	"rs10605233"	NA	"JHCCPT5"	"JHCCPN5"	"GAG"	"GAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408333"	""	9	"."	5	1	"."	0	"CCDC59,intron_variant,,ENST00000552377,;AC083810.1,upstream_gene_variant,,ENST00000408333,;"	"-"	"ENSG00000221260"	"ENST00000408333"	"Transcript"	"upstream_gene_variant"	"-/102"	""	""	""	""	"rs10605233"	"1"	"236"	1	"AC083810.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"GAG:0.0232"	"-:0.916"	"-:0.9928"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGAGG"	"7eafbeb2-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3373"	"CCDC59"	29080	"mskcc.org"	"GRCh37"	"12"	82748167	82748168	"+"	"Intron"	"DEL"	"AC"	"AC"	"-"	"rs148916685"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.564+106_564+107delGT"	""	""	"ENST00000256151"	""	10	"."	5	1	"."	0	"CCDC59,intron_variant,,ENST00000256151,NM_014167.4;CCDC59,intron_variant,,ENST00000552377,;METTL25,upstream_gene_variant,,ENST00000248306,NM_032230.2;METTL25,upstream_gene_variant,,ENST00000548200,;METTL25,upstream_gene_variant,,ENST00000550058,;CCDC59,intron_variant,,ENST00000548126,;METTL25,upstream_gene_variant,,ENST00000547357,;METTL25,upstream_gene_variant,,ENST00000548569,;METTL25,upstream_gene_variant,,ENST00000547985,;CCDC59,downstream_gene_variant,,ENST00000552412,;CCDC59,intron_variant,,ENST00000550589,;CCDC59,downstream_gene_variant,,ENST00000552606,;CCDC59,downstream_gene_variant,,ENST00000547758,;"	"-"	"ENSG00000133773"	"ENST00000256151"	"Transcript"	"intron_variant"	"-/1983"	"-/726"	"-/241"	""	""	"rs148916685"	"1"	NA	-1	"CCDC59"	"HGNC"	25005	"protein_coding"	"YES"	"CCDS9023.1"	"ENSP00000256151"	"Q9P031"	""	"UPI0000034DFE"	"NM_014167.4"	NA	NA	""	"3/3"	""	"-:0.0677"	"-:0.0061"	"-:0.0865"	NA	"-:0.0069"	"-:0.169"	"-:0.0961"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTACA"	"7ebe6520-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3374"	"ENSR00001465559"	0	"mskcc.org"	"GRCh37"	"12"	88637010	88637050	"+"	"IGR"	"DEL"	"CCTTTCTCTCTTTCTTTTCCTTCCCTTCCTTCTTTCTTTCT"	"CCTTTCTCTCTTTCTTTTCCTTCCCTTCCTTCTTTCTTTCT"	"TCTCTCTTTCTTTTCCTTCCCTTCCTTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CCTTTCTCTCTTTCTTTTCCTTCCCTTCCTTCTTTCTTTCT"	"CCTTTCTCTCTTTCTTTTCCTTCCCTTCCTTCTTTCTTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001465559"	""	18	"."	5	4	"."	0	""	"TCTCTCTTTCTTTTCCTTCCCTTCCTTC"	""	"ENSR00001465559"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCCTTTCTCTCTTTCTTTTCCTTCCCTTCCTTCTTTCTTTCTT"	"8e9e85c4-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"3375"	"ENSR00001026220"	0	"mskcc.org"	"GRCh37"	"12"	89186812	89186813	"+"	"IGR"	"INS"	"-"	"-"	"TTTCT"	"rs375866990"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001026220"	""	8	"."	4	2	"."	0	""	"TTTCT"	""	"ENSR00001026220"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs375866990"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"9f7d4da8-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3376"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	90839241	90839242	"+"	"IGR"	"DEL"	"CT"	"CT"	"-"	"rs56936304"	NA	"JHCCPT5"	"JHCCPN5"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs56936304"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3205"	"-:0.5023"	"-:0.2594"	NA	"-:0.2341"	"-:0.1839"	"-:0.3476"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTC"	"7f7bc70a-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3377"	"EPYC"	1833	"mskcc.org"	"GRCh37"	"12"	91366991	91366992	"+"	"Intron"	"INS"	"-"	"-"	"TATT"	"rs58950567"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.341-238_341-235dupAATA"	""	""	"ENST00000261172"	""	7	"."	3	2	"."	0	"EPYC,intron_variant,,ENST00000261172,NM_004950.4;EPYC,intron_variant,,ENST00000551767,;EPYC,intron_variant,,ENST00000550203,;"	"TATT"	"ENSG00000083782"	"ENST00000261172"	"Transcript"	"intron_variant"	"-/1539"	"-/969"	"-/322"	""	""	"rs58950567"	"1"	NA	-1	"EPYC"	"HGNC"	3053	"protein_coding"	"YES"	"CCDS31870.1"	"ENSP00000261172"	"Q99645"	"F8VSI4"	"UPI000013D136"	"NM_004950.4"	NA	NA	""	"3/6"	""	"-:0.0927"	"TATT:0.8533"	"TATT:0.9424"	NA	"TATT:0.9246"	"TATT:0.8986"	"TATT:0.9468"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"9fa05abe-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3378"	"UBE2N"	7334	"mskcc.org"	"GRCh37"	"12"	93805122	93805140	"+"	"Intron"	"DEL"	"TAGACACCAAAAGTAAAAT"	"TAGACACCAAAAGTAAAAT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TAGACACCAAAAGTAAAAT"	"TAGACACCAAAAGTAAAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.31-65_31-47delATTTTACTTTTGGTGTCTA"	""	""	"ENST00000318066"	""	95	"."	16	45	"."	0	"UBE2N,intron_variant,,ENST00000318066,NM_003348.3;UBE2N,intron_variant,,ENST00000550657,;UBE2N,intron_variant,,ENST00000549833,;UBE2N,intron_variant,,ENST00000552442,;UBE2N,upstream_gene_variant,,ENST00000548946,;UBE2N,intron_variant,,ENST00000549490,;"	"-"	"ENSG00000177889"	"ENST00000318066"	"Transcript"	"intron_variant"	"-/3671"	"-/459"	"-/152"	""	""	""	"1"	NA	-1	"UBE2N"	"HGNC"	12492	"protein_coding"	"YES"	"CCDS31875.1"	"ENSP00000316176"	"P61088"	"F8VQQ8"	"UPI0000003EA3"	"NM_003348.3"	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTAGACACCAAAAGTAAAATT"	"7fc287c6-280f-11e6-aa73-0dd4414a729f"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168421052631579	"WXS"	FALSE
"3379"	"VEZT"	55591	"mskcc.org"	"GRCh37"	"12"	95680561	95680562	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs563270589"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1329-879_1329-878insC"	""	""	"ENST00000436874"	""	42	"."	3	8	"."	0	"VEZT,intron_variant,,ENST00000436874,NM_017599.3;VEZT,intron_variant,,ENST00000261219,;VEZT,intron_variant,,ENST00000397792,;RNU6-808P,upstream_gene_variant,,ENST00000391233,;VEZT,intron_variant,,ENST00000356859,;VEZT,intron_variant,,ENST00000550106,;VEZT,intron_variant,,ENST00000546398,;VEZT,intron_variant,,ENST00000551695,;VEZT,intron_variant,,ENST00000547997,;VEZT,intron_variant,,ENST00000552660,;VEZT,intron_variant,,ENST00000549192,;VEZT,intron_variant,,ENST00000551994,;VEZT,intron_variant,,ENST00000548838,;VEZT,intron_variant,,ENST00000547611,;VEZT,intron_variant,,ENST00000548371,;VEZT,downstream_gene_variant,,ENST00000552827,;CBX3P5,non_coding_transcript_exon_variant,,ENST00000552017,;"	"C"	"ENSG00000028203"	"ENST00000436874"	"Transcript"	"intron_variant"	"-/4562"	"-/2340"	"-/779"	""	""	"rs563270589"	"1"	NA	1	"VEZT"	"HGNC"	18258	"protein_coding"	"YES"	"CCDS44954.1"	"ENSP00000410083"	"Q9HBM0"	""	"UPI00001FB2EC"	"NM_017599.3"	NA	NA	""	"8/11"	""	"C:0.2504"	"C:0.2307"	"C:0.2752"	NA	"C:0.252"	"C:0.2157"	"C:0.2935"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"a023f860-280f-11e6-aa73-0dd4414a729f"	"134"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WXS"	FALSE
"3380"	"RP11-510I5.4"	0	"mskcc.org"	"GRCh37"	"12"	96875533	96875535	"+"	"Intron"	"DEL"	"TTG"	"TTG"	"-"	"rs150511532"	NA	"JHCCPT5"	"JHCCPN5"	"TTG"	"TTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.226+1693_226+1695delCAA"	""	""	"ENST00000548740"	""	6	"."	4	2	"."	0	"RP11-510I5.4,intron_variant,,ENST00000548740,;"	"-"	"ENSG00000258272"	"ENST00000548740"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/379"	""	""	""	""	"rs150511532"	"1"	NA	-1	"RP11-510I5.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	"-:0.3710"	"-:0.3268"	"-:0.3184"	NA	"-:0.2808"	"-:0.4245"	"-:0.5061"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTGT"	"8056cea4-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3381"	"C12orf55"	374467	"mskcc.org"	"GRCh37"	"12"	96897018	96897019	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"rs35808224"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.424-635_424-634delCT"	""	""	"ENST00000524981"	""	18	"."	3	6	"."	0	"C12orf55,intron_variant,,ENST00000524981,;C12orf55,intron_variant,,ENST00000298953,;C12orf55,intron_variant,,ENST00000553778,;C12orf55,downstream_gene_variant,,ENST00000554621,;"	"-"	"ENSG00000188596"	"ENST00000524981"	"Transcript"	"intron_variant"	"-/9766"	"-/9291"	"-/3096"	""	""	"rs35808224"	"1"	NA	1	"C12orf55"	"HGNC"	26456	"protein_coding"	"YES"	""	"ENSP00000431759"	""	"R4GNI2,E9PJL5"	"UPI0001F77A4D"	""	NA	NA	""	"2/67"	""	"-:0.2786"	"-:0.2663"	"-:0.2176"	NA	"-:0.1984"	"-:0.2932"	"-:0.4059"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"11"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCT"	"805d3d98-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3382"	"C12orf55"	374467	"mskcc.org"	"GRCh37"	"12"	97057273	97057274	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs61043394"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5461-334dupC"	""	""	"ENST00000524981"	""	8	"."	3	1	"."	0	"C12orf55,intron_variant,,ENST00000524981,;C12orf55,intron_variant,,ENST00000342887,;"	"C"	"ENSG00000188596"	"ENST00000524981"	"Transcript"	"intron_variant"	"-/9766"	"-/9291"	"-/3096"	""	""	"rs61043394"	"1"	NA	1	"C12orf55"	"HGNC"	26456	"protein_coding"	"YES"	""	"ENSP00000431759"	""	"R4GNI2,E9PJL5"	"UPI0001F77A4D"	""	NA	NA	""	"38/67"	""	"-:0.1148"	"C:0.9803"	"C:0.9135"	NA	"C:0.9583"	"C:0.8668"	"C:0.68"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"a0a354ac-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3383"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	97279764	97279778	"+"	"IGR"	"DEL"	"TTTCTTTCTTTCTTT"	"TTTCTTTCTTTCTTT"	"-"	"rs144963283"	NA	"JHCCPT5"	"JHCCPN5"	"TTTCTTTCTTTCTTT"	"TTTCTTTCTTTCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	7	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144963283"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4958"	"-:0.5265"	"-:0.4568"	NA	"-:0.4663"	"-:0.4662"	"-:0.5429"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTCTTTCTTTCTTTT"	"80a87542-280f-11e6-aa73-0dd4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.466666666666667	"WXS"	FALSE
"3384"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	97768250	97768252	"+"	"IGR"	"DEL"	"TTC"	"TTC"	"-"	"rs140429780"	NA	"JHCCPT5"	"JHCCPN5"	"TTC"	"TTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140429780"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4918"	"-:0.5234"	"-:0.5274"	NA	"-:0.2827"	"-:0.6362"	"-:0.4908"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTTCT"	"80d04586-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3385"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	97807209	97807210	"+"	"IGR"	"INS"	"-"	"G"	"G"	"rs555252699"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	3	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs555252699"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3876"	"G:0.5159"	"G:0.6484"	NA	"G:0.6974"	"G:0.5577"	"G:0.6861"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"a0acbc90-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3386"	"ANKS1B"	56899	"mskcc.org"	"GRCh37"	"12"	99194454	99194455	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11441175"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3195+320dupA"	""	""	"ENST00000547776"	""	7	"."	3	1	"."	0	"ANKS1B,intron_variant,,ENST00000547776,NM_152788.4;ANKS1B,intron_variant,,ENST00000329257,;ANKS1B,intron_variant,,ENST00000550693,NM_001204070.1,NM_001204069.1;ANKS1B,intron_variant,,ENST00000549493,NM_181670.3,NM_001204068.1;ANKS1B,intron_variant,,ENST00000549025,NM_001204066.1;ANKS1B,intron_variant,,ENST00000547010,;ANKS1B,intron_variant,,ENST00000549558,NM_020140.3;ANKS1B,intron_variant,,ENST00000341752,NM_001204081.1;ANKS1B,intron_variant,,ENST00000550778,;ANKS1B,intron_variant,,ENST00000547446,NM_001204067.1;ANKS1B,intron_variant,,ENST00000333732,NM_001204080.1,NM_001204079.1,NM_001204065.1;ANKS1B,intron_variant,,ENST00000546960,;ANKS1B,intron_variant,,ENST00000332712,;ANKS1B,intron_variant,,ENST00000546568,;ANKS1B,intron_variant,,ENST00000546364,;ANKS1B,intron_variant,,ENST00000549797,;ANKS1B,intron_variant,,ENST00000552407,;ANKS1B,intron_variant,,ENST00000551613,;ANKS1B,downstream_gene_variant,,ENST00000551560,;ANKS1B,downstream_gene_variant,,ENST00000552748,;ANKS1B,downstream_gene_variant,,ENST00000551830,;ANKS1B,intron_variant,,ENST00000547362,;"	"T"	"ENSG00000185046"	"ENST00000547776"	"Transcript"	"intron_variant"	"-/3885"	"-/3747"	"-/1248"	""	""	"rs11441175"	"1"	NA	-1	"ANKS1B"	"HGNC"	24600	"protein_coding"	"YES"	"CCDS55872.1"	"ENSP00000449629"	"Q7Z6G8"	"R4GN73,R4GN70,R4GN07"	"UPI00003FE521"	"NM_152788.4"	NA	NA	""	"20/25"	""	"-:0.4028"	"T:0.1362"	"T:0.7334"	NA	"T:0.9038"	"T:0.6362"	"T:0.7679"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"a0d69c72-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3387"	"UHRF1BP1L"	23074	"mskcc.org"	"GRCh37"	"12"	100480162	100480162	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs11338951"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1022-26delT"	""	""	"ENST00000279907"	""	71	"."	7	22	"."	0	"UHRF1BP1L,intron_variant,,ENST00000279907,NM_015054.1;UHRF1BP1L,intron_variant,,ENST00000545232,;UHRF1BP1L,intron_variant,,ENST00000356828,NM_001006947.1;UHRF1BP1L,intron_variant,,ENST00000551973,;UHRF1BP1L,intron_variant,,ENST00000550544,;UHRF1BP1L,intron_variant,,ENST00000551980,;UHRF1BP1L,intron_variant,,ENST00000548045,;"	"-"	"ENSG00000111647"	"ENST00000279907"	"Transcript"	"intron_variant"	"-/5168"	"-/4395"	"-/1464"	""	""	"TMP_ESP_12_100480162_100480162,rs11338951"	"1"	NA	-1	"UHRF1BP1L"	"HGNC"	29102	"protein_coding"	"YES"	"CCDS31882.1"	"ENSP00000279907"	"A0JNW5"	"F8W665,F8VWX2"	"UPI0000160563"	"NM_015054.1"	NA	NA	""	"8/20"	""	"-:0.1306"	"-:0.1543,-:0.1543"	"-:0.1167,-:0.1167"	NA	"-:0.0665,-:0.0665"	"-:0.1392,-:0.1392"	"-:0.1656,-:0.1656"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.1007"	"0.1381"	"0.06876"	"0.04326"	"0.101"	"0.1498"	"0.1198"	"0.1664"	NA	"common_variant"	"GGAA"	"81262a32-280f-11e6-aa73-0dd4414a729f"	"420"	0.132	"4633/35094"	"10317/102436"	"436/3158"	"258/3752"	"127/2936"	"232/2298"	"2060/13748"	"29/242"	"1491/8960"	"PASS"	"FALSE"	0.0985915492957746	"WXS"	FALSE
"3388"	"AC010203.1"	0	"mskcc.org"	"GRCh37"	"12"	100555585	100555586	"+"	"5'Flank"	"INS"	"-"	"-"	"GGTACC"	"rs80066811"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408843"	""	7	"."	4	1	"."	0	"AC010203.1,upstream_gene_variant,,ENST00000408843,;RN7SL176P,upstream_gene_variant,,ENST00000580352,;GOLGA2P5,non_coding_transcript_exon_variant,,ENST00000397112,;GOLGA2P5,downstream_gene_variant,,ENST00000421840,;GOLGA2P5,non_coding_transcript_exon_variant,,ENST00000537988,;GOLGA2P5,upstream_gene_variant,,ENST00000545820,;GOLGA2P5,upstream_gene_variant,,ENST00000304813,;GOLGA2P5,downstream_gene_variant,,ENST00000546413,;GOLGA2P5,non_coding_transcript_exon_variant,,ENST00000429462,;GOLGA2P5,intron_variant,,ENST00000266746,;GOLGA2P5,upstream_gene_variant,,ENST00000456437,;"	"GGTACC"	"ENSG00000221770"	"ENST00000408843"	"Transcript"	"upstream_gene_variant"	"-/83"	""	""	""	""	"rs80066811"	"1"	"4469"	-1	"AC010203.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"GGTACC:0.2512"	"GGTACC:0.6241"	"GGTACC:0.1282"	NA	"GGTACC:0.0605"	"GGTACC:0.1193"	"GGTACC:0.1667"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"a0faa31a-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3389"	"GNPTAB"	79158	"mskcc.org"	"GRCh37"	"12"	102193974	102193975	"+"	"Intron"	"INS"	"-"	"-"	"ATG"	"rs5800487"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.118-3435_118-3434insCAT"	""	""	"ENST00000299314"	""	9	"."	4	2	"."	0	"GNPTAB,intron_variant,,ENST00000299314,NM_024312.4;GNPTAB,intron_variant,,ENST00000549940,;GNPTAB,intron_variant,,ENST00000392919,;GNPTAB,intron_variant,,ENST00000549165,;RNU6-172P,upstream_gene_variant,,ENST00000411000,;"	"ATG"	"ENSG00000111670"	"ENST00000299314"	"Transcript"	"intron_variant"	"-/5701"	"-/3771"	"-/1256"	""	""	"rs5800487"	"1"	NA	-1	"GNPTAB"	"HGNC"	29670	"protein_coding"	"YES"	"CCDS9088.1"	"ENSP00000299314"	"Q3T906"	"Q9NV34,Q68CM9,F8VQW2"	"UPI000004CC0C"	"NM_024312.4"	NA	NA	""	"1/20"	""	"-:0.2742"	"ATG:0.8623"	"ATG:0.5865"	NA	"ATG:0.9177"	"ATG:0.5219"	"ATG:0.6524"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"a144dffc-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3390"	"DRAM1"	55332	"mskcc.org"	"GRCh37"	"12"	102300819	102300820	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs201711328"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.343-1137dupA"	""	""	"ENST00000258534"	""	12	"."	3	2	"."	0	"DRAM1,intron_variant,,ENST00000258534,NM_018370.2;DRAM1,intron_variant,,ENST00000544152,;DRAM1,upstream_gene_variant,,ENST00000549066,;DRAM1,intron_variant,,ENST00000551403,;DRAM1,intron_variant,,ENST00000549365,;"	"A"	"ENSG00000136048"	"ENST00000258534"	"Transcript"	"intron_variant"	"-/3519"	"-/717"	"-/238"	""	""	"rs201711328"	"1"	NA	1	"DRAM1"	"HGNC"	25645	"protein_coding"	"YES"	"CCDS41823.1"	"ENSP00000258534"	"Q8N682"	""	"UPI00000733DA"	"NM_018370.2"	NA	NA	""	"3/6"	""	"A:0.0391"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"a1487b62-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3391"	"DRAM1"	55332	"mskcc.org"	"GRCh37"	"12"	102302447	102302449	"+"	"Intron"	"DEL"	"GGA"	"GGA"	"-"	"rs145006696"	NA	"JHCCPT5"	"JHCCPN5"	"GGA"	"GGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.520+318_520+320delGGA"	""	""	"ENST00000258534"	""	22	"."	9	2	"."	0	"DRAM1,intron_variant,,ENST00000258534,NM_018370.2;DRAM1,intron_variant,,ENST00000544152,;DRAM1,intron_variant,,ENST00000549066,;DRAM1,intron_variant,,ENST00000551403,;DRAM1,downstream_gene_variant,,ENST00000549365,;"	"-"	"ENSG00000136048"	"ENST00000258534"	"Transcript"	"intron_variant"	"-/3519"	"-/717"	"-/238"	""	""	"rs145006696"	"1"	NA	1	"DRAM1"	"HGNC"	25645	"protein_coding"	"YES"	"CCDS41823.1"	"ENSP00000258534"	"Q8N682"	""	"UPI00000733DA"	"NM_018370.2"	NA	NA	""	"4/6"	""	"-:0.0911"	"-:0.1339"	"-:0.1671"	NA	"-:0.0159"	"-:0.1083"	"-:0.0389"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"12"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGGAG"	"82252b2c-280f-11e6-aa73-0dd4414a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.409090909090909	"WXS"	FALSE
"3392"	"STAB2"	55576	"mskcc.org"	"GRCh37"	"12"	104076726	104076726	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs35199507"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2806-251delA"	""	""	"ENST00000388887"	""	14	"."	3	4	"."	0	"STAB2,intron_variant,,ENST00000388887,NM_017564.9;"	"-"	"ENSG00000136011"	"ENST00000388887"	"Transcript"	"intron_variant"	"-/8251"	"-/7656"	"-/2551"	""	""	"rs35199507"	"1"	NA	1	"STAB2"	"HGNC"	18629	"protein_coding"	"YES"	"CCDS31888.1"	"ENSP00000373539"	"Q8WWQ8"	"H0YIF3"	"UPI00001ADDF4"	"NM_017564.9"	NA	NA	""	"25/68"	""	"-:0.3918"	"-:0.3888"	"-:0.3415"	NA	"-:0.3978"	"-:0.4125"	"-:0.4039"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"8290c526-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"3393"	"TXNRD1"	7296	"mskcc.org"	"GRCh37"	"12"	104741677	104741678	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs200325168"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1882-447dupA"	""	""	"ENST00000525566"	""	15	"."	7	5	"."	0	"TXNRD1,intron_variant,,ENST00000526691,NM_001261445.1,NM_003330.3;TXNRD1,intron_variant,,ENST00000503506,NM_182729.2,NM_001261446.1,NM_182743.2;TXNRD1,intron_variant,,ENST00000388854,;TXNRD1,intron_variant,,ENST00000378070,;TXNRD1,intron_variant,,ENST00000525566,NM_001093771.2;TXNRD1,intron_variant,,ENST00000429002,;TXNRD1,intron_variant,,ENST00000526390,;TXNRD1,intron_variant,,ENST00000354940,NM_182742.2;TXNRD1,intron_variant,,ENST00000427956,;TXNRD1,intron_variant,,ENST00000397736,;TXNRD1,intron_variant,,ENST00000540716,;TXNRD1,intron_variant,,ENST00000529546,;TXNRD1,intron_variant,,ENST00000524698,;TXNRD1,intron_variant,,ENST00000542918,;TXNRD1,intron_variant,,ENST00000526950,;TXNRD1,intron_variant,,ENST00000527688,;TXNRD1,intron_variant,,ENST00000525265,;"	"A"	"ENSG00000198431"	"ENST00000525566"	"Transcript"	"intron_variant"	"-/3836"	"-/1950"	"-/649"	""	""	"rs200325168"	"1"	NA	1	"TXNRD1"	"HGNC"	12437	"protein_coding"	"YES"	"CCDS53820.1"	"ENSP00000434516"	"Q16881"	"F5H780,E9PRI8,E9PQI3,E9PLT3,E9PKI4,E9PKD3,B7Z904,B2R5P6"	"UPI00015294EE"	"NM_001093771.2"	NA	NA	""	"16/16"	""	"A:0.0148"	"A:0.003"	"A:0.0288"	NA	"A:0"	"A:0.0457"	"A:0.0041"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"a1dec50e-280f-11e6-aa73-0dd4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.466666666666667	"WXS"	FALSE
"3394"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	104827625	104827626	"+"	"IGR"	"INS"	"-"	"CTGTC"	"CTGTC"	"rs138429460"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"CTGTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138429460"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4988"	"CTGTC:0.6036"	"CTGTC:0.451"	NA	"CTGTC:0.4921"	"CTGTC:0.3827"	"CTGTC:0.5297"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"a1e78f2c-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3395"	"KIAA1033"	23325	"mskcc.org"	"GRCh37"	"12"	105514484	105514485	"+"	"Intron"	"DEL"	"GT"	"GT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GT"	"GT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.561+125_561+126delGT"	""	""	"ENST00000332180"	""	141	"."	3	40	"."	0	"KIAA1033,intron_variant,,ENST00000332180,NM_015275.1;KIAA1033,downstream_gene_variant,,ENST00000548195,;KIAA1033,intron_variant,,ENST00000550053,;KIAA1033,intron_variant,,ENST00000311317,;KIAA1033,intron_variant,,ENST00000547404,;"	"-"	"ENSG00000136051"	"ENST00000332180"	"Transcript"	"intron_variant"	"-/5812"	"-/3522"	"-/1173"	""	""	""	"1"	NA	1	"KIAA1033"	"HGNC"	29174	"protein_coding"	"YES"	"CCDS41826.1"	"ENSP00000328062"	"Q2M389"	"F8W1W1,F8VQX3,F8VNZ5"	"UPI00001C1F3B"	"NM_015275.1"	NA	NA	""	"8/32"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"16"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCGTG"	"83f5d000-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0212765957446809	"WXS"	FALSE
"3396"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	106384959	106384960	"+"	"IGR"	"INS"	"-"	"-"	"TCTTCTTCTTCTTCTTCT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	22	"."	3	9	"."	0	""	"TCTTCTTCTTCTTCTTCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"a2216a76-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"3397"	"CKAP4"	10970	"mskcc.org"	"GRCh37"	"12"	106667788	106667799	"+"	"Intron"	"DEL"	"AAGGAAGGAAGG"	"AAGGAAGGAAGG"	"-"	"rs146295023"	NA	"JHCCPT5"	"JHCCPN5"	"AAGGAAGGAAGG"	"AAGGAAGGAAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-92+2394_-92+2405delCCTTCCTTCCTT"	""	""	"ENST00000553039"	""	6	"."	3	1	"."	0	"CKAP4,intron_variant,,ENST00000553039,;CKAP4,intron_variant,,ENST00000552828,;"	"-"	"ENSG00000136026"	"ENST00000553039"	"Transcript"	"intron_variant"	"-/573"	"-/79"	"-/26"	""	""	"rs146295023"	"1"	NA	-1	"CKAP4"	"HGNC"	16991	"protein_coding"	""	""	"ENSP00000449240"	""	"F8VVU0"	"UPI00020CE3EE"	""	NA	NA	""	"2/3"	""	"-:0.1300"	"-:0.0908"	"-:0.2032"	NA	"-:0.003"	"-:0.2803"	"-:0.1074"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAGGAAGGAAGGA"	"8431fc92-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3398"	"RFX4"	5992	"mskcc.org"	"GRCh37"	"12"	107144698	107144699	"+"	"Intron"	"INS"	"-"	"-"	"TTTATTTA"	"rs36084987"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1962+143_1962+150dupATTTATTT"	""	""	"ENST00000357881"	""	22	"."	8	7	"."	0	"RFX4,intron_variant,,ENST00000392842,NM_213594.2;RFX4,intron_variant,,ENST00000229387,NM_032491.5;RFX4,intron_variant,,ENST00000357881,NM_001206691.1;RP11-144F15.1,intron_variant,,ENST00000551505,;RP11-144F15.1,intron_variant,,ENST00000549203,;"	"TTTATTTA"	"ENSG00000111783"	"ENST00000357881"	"Transcript"	"intron_variant"	"-/2565"	"-/2235"	"-/744"	""	""	"rs36084987"	"1"	NA	1	"RFX4"	"HGNC"	9985	"protein_coding"	"YES"	"CCDS55880.1"	"ENSP00000350552"	"Q33E94"	"R4GMS3,F8VZC4"	"UPI00001FB460"	"NM_001206691.1"	NA	NA	""	"17/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"23"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"a23ec3e6-280f-11e6-aa73-0dd4414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3399"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	107650485	107650486	"+"	"IGR"	"INS"	"-"	"-"	"CCT"	"rs10624889"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	4	"."	0	""	"CCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10624889"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4649"	"CCT:0.6914"	"CCT:0.5793"	NA	"CCT:0.4177"	"CCT:0.4851"	"CCT:0.4652"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"a2474b9c-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3400"	"CMKLR1"	1240	"mskcc.org"	"GRCh37"	"12"	108735901	108735903	"+"	"5'Flank"	"DEL"	"GAA"	"GAA"	"-"	"rs140042760"	NA	"JHCCPT5"	"JHCCPN5"	"GAA"	"GAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000312143"	""	9	"."	4	10	"."	0	"CMKLR1,upstream_gene_variant,,ENST00000312143,NM_001142344.1,NM_004072.2;CMKLR1,upstream_gene_variant,,ENST00000397688,NM_004072.2;CMKLR1,upstream_gene_variant,,ENST00000550402,;CMKLR1,upstream_gene_variant,,ENST00000552995,;"	"-"	"ENSG00000174600"	"ENST00000312143"	"Transcript"	"upstream_gene_variant"	"-/5283"	"-/1122"	"-/373"	""	""	"rs140042760"	"1"	"2807"	-1	"CMKLR1"	"HGNC"	2121	"protein_coding"	"YES"	"CCDS44965.1"	"ENSP00000311733"	"Q99788"	"F8VYN7,F8VSC8"	"UPI0000127BD4"	"NM_001142344.1,NM_004072.2"	NA	NA	""	""	""	"-:0.3700"	"-:0.348"	"-:0.2392"	NA	"-:0.4276"	"-:0.3181"	"-:0.4867"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAG"	"84b1055a-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3401"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	108892094	108892095	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs138719215"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	3	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138719215"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.0385"	"G:0.0545"	"G:0.0159"	NA	"G:0.0188"	"G:0.0258"	"G:0.0665"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"a25cd69c-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3402"	"SVOP"	55530	"mskcc.org"	"GRCh37"	"12"	109330598	109330599	"+"	"Intron"	"INS"	"-"	"A"	"A"	"rs34643583"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.775+441_775+442insT"	""	""	"ENST00000299134"	""	6	"."	5	3	"."	0	"SVOP,intron_variant,,ENST00000299134,NM_018711.2;SVOP,downstream_gene_variant,,ENST00000551211,;SVOP,downstream_gene_variant,,ENST00000550436,;"	"A"	"ENSG00000166111"	"ENST00000299134"	"Transcript"	"intron_variant"	"-/3104"	"-/1452"	"-/483"	""	""	"rs34643583"	"1"	NA	-1	"SVOP"	"HGNC"	25417	"protein_coding"	"YES"	""	"ENSP00000299134"	"Q8N4V2"	""	"UPI00020CE167"	"NM_018711.2"	NA	NA	""	"8/13"	""	"-:0.4884"	"A:0.68"	"A:0.6037"	NA	"A:0.5357"	"A:0.3787"	"A:0.3303"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"a2a63224-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3403"	"MYO1H"	283446	"mskcc.org"	"GRCh37"	"12"	109836043	109836044	"+"	"Intron"	"INS"	"-"	"-"	"TCA"	"rs10695646"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.522+431_522+433dupCAT"	""	""	"ENST00000310903"	""	7	"."	4	1	"."	0	"MYO1H,intron_variant,,ENST00000310903,;MYO1H,intron_variant,,ENST00000431443,NM_001101421.3;MYO1H,upstream_gene_variant,,ENST00000542883,;"	"TCA"	"ENSG00000174527"	"ENST00000310903"	"Transcript"	"intron_variant"	"-/4364"	"-/3069"	"-/1022"	""	""	"rs10695646"	"1"	NA	1	"MYO1H"	"HGNC"	13879	"protein_coding"	"YES"	"CCDS53826.1"	"ENSP00000439182"	""	"S4R387,F5H3C6"	"UPI0001AFF951"	""	NA	NA	""	"5/31"	""	"-:0.4912"	"TCA:0.7027"	"TCA:0.5922"	NA	"TCA:0.3938"	"TCA:0.4583"	"TCA:0.3579"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"a2e37ddc-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3404"	"MYO1H"	283446	"mskcc.org"	"GRCh37"	"12"	109881161	109881166	"+"	"Intron"	"DEL"	"ACACAC"	"ACACAC"	"-"	"rs10545297"	NA	"JHCCPT5"	"JHCCPN5"	"ACACAC"	"ACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2641-125_2641-120delCACACA"	""	""	"ENST00000310903"	""	17	"."	5	5	"."	0	"MYO1H,intron_variant,,ENST00000310903,;MYO1H,intron_variant,,ENST00000431443,NM_001101421.3;RP11-256L11.3,downstream_gene_variant,,ENST00000539987,;MYO1H,intron_variant,,ENST00000542268,;MYO1H,intron_variant,,ENST00000457826,;MYO1H,upstream_gene_variant,,ENST00000543960,;"	"-"	"ENSG00000174527"	"ENST00000310903"	"Transcript"	"intron_variant"	"-/4364"	"-/3069"	"-/1022"	""	""	"rs10545297"	"1"	NA	1	"MYO1H"	"HGNC"	13879	"protein_coding"	"YES"	"CCDS53826.1"	"ENSP00000439182"	""	"S4R387,F5H3C6"	"UPI0001AFF951"	""	NA	NA	""	"27/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"33"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATACACACA"	"853b6434-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"3405"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	111230387	111230388	"+"	"IGR"	"INS"	"-"	"G"	"G"	"rs11450763"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	2	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11450763"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"a31696c2-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3406"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	113926759	113926770	"+"	"IGR"	"DEL"	"CTTTCTTTCTTT"	"CTTTCTTTCTTT"	"-"	"rs147180987"	NA	"JHCCPT5"	"JHCCPN5"	"CTTTCTTTCTTT"	"CTTTCTTTCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147180987"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTTCTTTCTTTC"	"86a30dcc-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3407"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	115217680	115217681	"+"	"IGR"	"INS"	"-"	"-"	"TT"	"rs147055455"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	5	4	"."	0	""	"TT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147055455"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"a3703574-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3408"	"C12orf49"	79794	"mskcc.org"	"GRCh37"	"12"	117175337	117175345	"+"	"Intron"	"DEL"	"GAGGAAGGT"	"GAGGAAGGT"	"-"	"rs138847778"	NA	"JHCCPT5"	"JHCCPN5"	"GAGGAAGGT"	"GAGGAAGGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.111+250_111+258delACCTTCCTC"	""	""	"ENST00000261318"	""	24	"."	4	9	"."	0	"C12orf49,intron_variant,,ENST00000261318,NM_024738.1;C12orf49,intron_variant,,ENST00000536380,;C12orf49,intron_variant,,ENST00000547606,;RNFT2,upstream_gene_variant,,ENST00000257575,;RNFT2,upstream_gene_variant,,ENST00000392549,NM_001109903.1;RNFT2,upstream_gene_variant,,ENST00000407967,NM_032814.3;RNFT2,upstream_gene_variant,,ENST00000319176,;C12orf49,intron_variant,,ENST00000547630,;RNFT2,upstream_gene_variant,,ENST00000547718,;RNFT2,upstream_gene_variant,,ENST00000552920,;"	"-"	"ENSG00000111412"	"ENST00000261318"	"Transcript"	"intron_variant"	"-/2801"	"-/618"	"-/205"	""	""	"rs138847778"	"1"	NA	-1	"C12orf49"	"HGNC"	26128	"protein_coding"	"YES"	"CCDS9179.1"	"ENSP00000261318"	"Q9H741"	"F8VVN2"	"UPI000004A078"	"NM_024738.1"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAGGAAGGTG"	"8711b722-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3409"	"NOS1"	4842	"mskcc.org"	"GRCh37"	"12"	117760487	117760490	"+"	"Intron"	"DEL"	"CTTC"	"CTTC"	"-"	"rs146560408"	NA	"JHCCPT5"	"JHCCPN5"	"CTTC"	"CTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.725+7660_725+7663delGAAG"	""	""	"ENST00000338101"	""	15	"."	4	7	"."	0	"NOS1,intron_variant,,ENST00000317775,NM_000620.4,NM_001204218.1;NOS1,intron_variant,,ENST00000344089,NM_001204213.1,NM_001204214.1;NOS1,intron_variant,,ENST00000338101,;"	"-"	"ENSG00000089250"	"ENST00000338101"	"Transcript"	"intron_variant"	"-/4462"	"-/4407"	"-/1468"	""	""	"rs146560408"	"1"	NA	-1	"NOS1"	"HGNC"	7872	"protein_coding"	"YES"	"CCDS55890.1"	"ENSP00000337459"	"P29475"	"A0PJJ7"	"UPI00001FBC10"	""	NA	NA	""	"1/28"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTCTTCC"	"8742dc76-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"3410"	"KSR2"	283455	"mskcc.org"	"GRCh37"	"12"	117965094	117965107	"+"	"Intron"	"DEL"	"ACACACACACACAG"	"ACACACACACACAG"	"-"	"rs574180330"	NA	"JHCCPT5"	"JHCCPN5"	"ACACACACACACAG"	"ACACACACACACAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1803-183_1803-170delCTGTGTGTGTGTGT"	""	""	"ENST00000339824"	""	57	"."	3	22	"."	0	"KSR2,intron_variant,,ENST00000425217,NM_173598.4;KSR2,intron_variant,,ENST00000339824,;KSR2,intron_variant,,ENST00000302438,;KSR2,intron_variant,,ENST00000545002,;"	"-"	"ENSG00000171435"	"ENST00000339824"	"Transcript"	"intron_variant"	"-/4429"	"-/2853"	"-/950"	""	""	"rs574180330"	"1"	NA	-1	"KSR2"	"HGNC"	18610	"protein_coding"	"YES"	""	"ENSP00000339952"	"Q6VAB6"	"E9PB13"	"UPI000152636C"	""	NA	NA	""	"12/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACACACACACACACAGA"	"874cb5ac-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0526315789473684	"WXS"	FALSE
"3411"	"KSR2"	283455	"mskcc.org"	"GRCh37"	"12"	118406112	118406113	"+"	"5'UTR"	"INS"	"-"	"-"	"G"	"rs200146000"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-53dupC"	""	""	"ENST00000339824"	"1/20"	36	"."	6	16	"."	0	"KSR2,5_prime_UTR_variant,,ENST00000339824,;KSR2,upstream_gene_variant,,ENST00000425217,NM_173598.4;"	"G"	"ENSG00000171435"	"ENST00000339824"	"Transcript"	"5_prime_UTR_variant"	"676-677/4429"	"-/2853"	"-/950"	""	""	"rs200146000"	"1"	NA	-1	"KSR2"	"HGNC"	18610	"protein_coding"	"YES"	""	"ENSP00000339952"	"Q6VAB6"	"E9PB13"	"UPI000152636C"	""	NA	NA	"1/20"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"a3f310ca-280f-11e6-aa73-0dd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3412"	"RP11-357K6.1"	0	"mskcc.org"	"GRCh37"	"12"	119207118	119207119	"+"	"3'Flank"	"INS"	"-"	"-"	"TG"	"rs35283492"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000545276"	""	11	"."	4	2	"."	0	"RP11-357K6.1,downstream_gene_variant,,ENST00000545276,;"	"TG"	"ENSG00000255618"	"ENST00000545276"	"Transcript"	"downstream_gene_variant"	"-/680"	""	""	""	""	"rs35283492"	"1"	"3718"	-1	"RP11-357K6.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4022"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"a40562de-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3413"	"COQ5"	84274	"mskcc.org"	"GRCh37"	"12"	120960341	120960341	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs201254653"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.203-175delT"	""	""	"ENST00000288532"	""	53	"."	7	20	"."	0	"COQ5,intron_variant,,ENST00000288532,NM_032314.3;COQ5,intron_variant,,ENST00000445328,;COQ5,intron_variant,,ENST00000552443,;COQ5,intron_variant,,ENST00000547736,;COQ5,intron_variant,,ENST00000551769,;COQ5,intron_variant,,ENST00000547943,;COQ5,downstream_gene_variant,,ENST00000547448,;RPL29P24,downstream_gene_variant,,ENST00000465434,;"	"-"	"ENSG00000110871"	"ENST00000288532"	"Transcript"	"intron_variant"	"-/1535"	"-/984"	"-/327"	""	""	"rs201254653"	"1"	NA	-1	"COQ5"	"HGNC"	28722	"protein_coding"	"YES"	"CCDS31912.1"	"ENSP00000288532"	"Q5HYK3"	"F8VVX6,F8VP53"	"UPI00001592AF"	"NM_032314.3"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAT"	"8828da1e-280f-11e6-aa73-0dd4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.132075471698113	"WXS"	FALSE
"3414"	"RNF10"	9921	"mskcc.org"	"GRCh37"	"12"	121004564	121004566	"+"	"Intron"	"DEL"	"CAA"	"CAA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CAA"	"CAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1886-64_1886-62delCAA"	""	""	"ENST00000325954"	""	200	"."	3	62	"."	0	"RNF10,intron_variant,,ENST00000325954,NM_014868.4;RNF10,intron_variant,,ENST00000413266,;RNF10,intron_variant,,ENST00000546262,;RNF10,intron_variant,,ENST00000538254,;RNF10,intron_variant,,ENST00000540046,;RNF10,downstream_gene_variant,,ENST00000542438,;RNF10,downstream_gene_variant,,ENST00000542207,;RNF10,downstream_gene_variant,,ENST00000537740,;RNF10,intron_variant,,ENST00000535470,;RNF10,upstream_gene_variant,,ENST00000542701,;RNF10,downstream_gene_variant,,ENST00000543675,;RNF10,upstream_gene_variant,,ENST00000543757,;RNF10,intron_variant,,ENST00000545419,;RNF10,intron_variant,,ENST00000366112,;RNF10,downstream_gene_variant,,ENST00000544124,;RNF10,downstream_gene_variant,,ENST00000535395,;RNF10,downstream_gene_variant,,ENST00000537376,;"	"-"	"ENSG00000022840"	"ENST00000325954"	"Transcript"	"intron_variant"	"-/3825"	"-/2436"	"-/811"	""	""	""	"1"	NA	1	"RNF10"	"HGNC"	10055	"protein_coding"	"YES"	"CCDS9201.1"	"ENSP00000322242"	"Q8N5U6"	"F5H3A4"	"UPI000006D77E"	"NM_014868.4"	NA	NA	""	"12/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCAAA"	"8848cd42-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.015	"WXS"	FALSE
"3415"	"SPPL3"	121665	"mskcc.org"	"GRCh37"	"12"	121203902	121203919	"+"	"Intron"	"DEL"	"CGCACACACACACACACA"	"CGCACACACACACACACA"	"-"	"rs11267128"	NA	"JHCCPT5"	"JHCCPN5"	"CGCACACACACACACACA"	"CGCACACACACACACACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1083+147_1083+164delTGTGTGTGTGTGTGTGCG"	""	""	"ENST00000353487"	""	21	"."	4	4	"."	0	"SPPL3,intron_variant,,ENST00000353487,NM_139015.4;SPPL3,downstream_gene_variant,,ENST00000536996,;SPPL3,downstream_gene_variant,,ENST00000543608,;SPPL3,downstream_gene_variant,,ENST00000543854,;RP11-173P15.7,upstream_gene_variant,,ENST00000542620,;SPPL3,intron_variant,,ENST00000392495,;SPPL3,intron_variant,,ENST00000545209,;"	"-"	"ENSG00000157837"	"ENST00000353487"	"Transcript"	"intron_variant"	"-/4148"	"-/1155"	"-/384"	""	""	"rs11267128"	"1"	NA	-1	"SPPL3"	"HGNC"	30424	"protein_coding"	"YES"	"CCDS9208.1"	"ENSP00000288680"	"Q8TCT6"	"F5H7J2,F5H6I1,F5H4Y6,F5H4L1,F5H2A2"	"UPI0000013590"	"NM_139015.4"	NA	NA	""	"10/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCGCACACACACACACACAC"	"88a82c10-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"3416"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	121379979	121379986	"+"	"IGR"	"DEL"	"GAATGAAT"	"GAATGAAT"	"-"	"rs781195874"	NA	"JHCCPT5"	"JHCCPN5"	"GAATGAAT"	"GAATGAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"."	3	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs781195874"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGAATGAATG"	"88ab9e9a-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"3417"	"ANAPC5"	51433	"mskcc.org"	"GRCh37"	"12"	121795203	121795204	"+"	"5'Flank"	"INS"	"-"	"-"	"AAAGAAAGAA"	"rs67844027"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000261819"	""	14	"."	3	5	"."	0	"ANAPC5,intron_variant,,ENST00000536837,;ANAPC5,upstream_gene_variant,,ENST00000261819,NM_016237.4;ANAPC5,upstream_gene_variant,,ENST00000536416,;"	"AAAGAAAGAA"	"ENSG00000089053"	"ENST00000261819"	"Transcript"	"upstream_gene_variant"	"-/2513"	"-/2268"	"-/755"	""	""	"rs67844027"	"1"	"4938"	-1	"ANAPC5"	"HGNC"	15713	"protein_coding"	"YES"	"CCDS9220.1"	"ENSP00000261819"	"Q9UJX4"	"Q49A41,F5GZ05,F5GY68,B4DFK4"	"UPI000006DF80"	"NM_016237.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"a4edf7d8-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"3418"	"MLXIP"	22877	"mskcc.org"	"GRCh37"	"12"	122604718	122604719	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35383681"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.414-7085_414-7084insT"	""	""	"ENST00000319080"	""	9	"."	5	4	"."	0	"MLXIP,intron_variant,,ENST00000319080,NM_014938.4_dupl16;"	"T"	"ENSG00000175727"	"ENST00000319080"	"Transcript"	"intron_variant"	"-/8427"	"-/2760"	"-/919"	""	""	"rs35383681"	"1"	NA	1	"MLXIP"	"HGNC"	17055	"protein_coding"	"YES"	""	"ENSP00000312834"	"Q9HAP2"	"F5H321"	"UPI0000D6226F"	"NM_014938.4_dupl16"	NA	NA	""	"1/16"	""	"-:0.4950"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"a553e066-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3419"	"HCAR1"	27198	"mskcc.org"	"GRCh37"	"12"	123150129	123150130	"+"	"Intron"	"INS"	"-"	"-"	"TCTTT"	"rs59995054"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*677+26829_*677+26833dupAAAGA"	""	""	"ENST00000356987"	""	17	"."	5	2	"."	0	"HCAR1,intron_variant,,ENST00000356987,;"	"TCTTT"	"ENSG00000196917"	"ENST00000356987"	"Transcript"	"intron_variant"	"-/2747"	"-/1041"	"-/346"	""	""	"rs59995054"	"1"	NA	-1	"HCAR1"	"HGNC"	4532	"protein_coding"	""	"CCDS9236.1"	"ENSP00000349478"	"Q9BXC0"	""	"UPI000003BC7A"	""	NA	NA	""	"3/4"	""	"-:0.4962"	"TCTTT:0.171"	"TCTTT:0.5245"	NA	"TCTTT:0.7143"	"TCTTT:0.5736"	"TCTTT:0.6503"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"a598325c-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"3420"	"HIP1R"	9026	"mskcc.org"	"GRCh37"	"12"	123338887	123338887	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.718+157delG"	""	""	"ENST00000253083"	""	62	"."	3	12	"."	0	"HIP1R,intron_variant,,ENST00000253083,NM_003959.1;HIP1R,intron_variant,,ENST00000535831,;HIP1R,intron_variant,,ENST00000452196,;HIP1R,intron_variant,,ENST00000536847,;HIP1R,intron_variant,,ENST00000536772,;HIP1R,upstream_gene_variant,,ENST00000541712,;"	"-"	"ENSG00000130787"	"ENST00000253083"	"Transcript"	"intron_variant"	"-/4539"	"-/3207"	"-/1068"	""	""	""	"1"	NA	1	"HIP1R"	"HGNC"	18415	"protein_coding"	"YES"	"CCDS31922.1"	"ENSP00000253083"	"O75146"	"B3KN98"	"UPI000012C72C"	"NM_003959.1"	NA	NA	""	"8/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGA"	"89d57be2-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0483870967741935	"WXS"	FALSE
"3421"	"SBNO1"	55206	"mskcc.org"	"GRCh37"	"12"	123815163	123815189	"+"	"Intron"	"DEL"	"AGAAAAAGAAAATACACTTACTCATTA"	"AGAAAAAGAAAATACACTTACTCATTA"	"GAAAAAGAAAATACACTTACTCATT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AGAAAAAGAAAATACACTTACTCATTA"	"AGAAAAAGAAAATACACTTACTCATTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1044-133_1044-107delTAATGAGTAAGTGTATTTTCTTTTTCTinsAATGAGTAAGTGTATTTTCTTTTTC"	""	""	"ENST00000420886"	""	30	"."	4	14	"."	0	"SBNO1,intron_variant,,ENST00000420886,NM_001167856.1;SBNO1,intron_variant,,ENST00000267176,NM_018183.3;SBNO1,intron_variant,,ENST00000602750,;SBNO1,intron_variant,,ENST00000602398,;"	"GAAAAAGAAAATACACTTACTCATT"	"ENSG00000139697"	"ENST00000420886"	"Transcript"	"intron_variant"	"-/10981"	"-/4182"	"-/1393"	""	""	""	"1"	NA	-1	"SBNO1"	"HGNC"	22973	"protein_coding"	"YES"	"CCDS53844.1"	"ENSP00000387361"	"A3KN83"	"Q9NVJ3"	"UPI00001FB922"	"NM_001167856.1"	NA	NA	""	"7/30"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGAAAAAGAAAATACACTTACTCATTAA"	"8ec49d9a-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WXS"	FALSE
"3422"	"CCDC92"	80212	"mskcc.org"	"GRCh37"	"12"	124427761	124427762	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs3833499"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.181+132dupT"	""	""	"ENST00000238156"	""	18	"."	5	5	"."	0	"CCDC92,intron_variant,,ENST00000545135,;CCDC92,intron_variant,,ENST00000238156,NM_025140.1;CCDC92,intron_variant,,ENST00000545891,;CCDC92,intron_variant,,ENST00000539551,;CCDC92,intron_variant,,ENST00000539761,;CCDC92,intron_variant,,ENST00000535556,;CCDC92,downstream_gene_variant,,ENST00000545037,;CCDC92,intron_variant,,ENST00000544798,;CCDC92,intron_variant,,ENST00000542348,;"	"A"	"ENSG00000119242"	"ENST00000238156"	"Transcript"	"intron_variant"	"-/2000"	"-/996"	"-/331"	""	""	"rs3833499"	"1"	NA	-1	"CCDC92"	"HGNC"	29563	"protein_coding"	"YES"	"CCDS9256.1"	"ENSP00000238156"	"Q53HC0"	"F5H7P8,F5H2Z7,F5H285,B3KNQ0"	"UPI000006FF96"	"NM_025140.1"	NA	NA	""	"3/4"	""	"A:0.2642"	"A:0.3321"	"A:0.3271"	NA	"A:0.0853"	"A:0.3678"	"A:0.2055"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"a64c599e-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"3423"	"ZNF664"	144348	"mskcc.org"	"GRCh37"	"12"	124500723	124500725	"+"	"3'Flank"	"DEL"	"AAT"	"AAT"	"C"	"rs386767220"	NA	"JHCCPT5"	"JHCCPN5"	"AAT"	"AAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000539644"	""	15	"."	3	5	"."	0	"FAM101A,intron_variant,,ENST00000540762,;ZNF664,downstream_gene_variant,,ENST00000539644,;ZNF664,downstream_gene_variant,,ENST00000538932,NM_152437.2;ZNF664,downstream_gene_variant,,ENST00000392404,NM_001204298.1;ZNF664,downstream_gene_variant,,ENST00000337815,;FAM101A,intron_variant,,ENST00000545615,;ZNF664,downstream_gene_variant,,ENST00000537532,;ZNF664,downstream_gene_variant,,ENST00000542493,;ZNF664,downstream_gene_variant,,ENST00000541448,;ZNF664,downstream_gene_variant,,ENST00000539501,;ZNF664,downstream_gene_variant,,ENST00000546098,;ZNF664,downstream_gene_variant,,ENST00000543017,;"	"C"	"ENSG00000179195"	"ENST00000539644"	"Transcript"	"downstream_gene_variant"	"-/5108"	"-/786"	"-/261"	""	""	"rs386767220"	"1"	"754"	1	"ZNF664"	"HGNC"	25406	"protein_coding"	"YES"	"CCDS9257.1"	"ENSP00000441405"	"Q8N3J9"	""	"UPI0000023E91"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAATC"	"8ec5affa-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"3424"	"DHX37"	57647	"mskcc.org"	"GRCh37"	"12"	125434023	125434026	"+"	"Intron"	"DEL"	"GGGA"	"GGGA"	"-"	"rs142506009"	NA	"JHCCPT5"	"JHCCPN5"	"GGGA"	"GGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3290+506_3290+509delTCCC"	""	""	"ENST00000308736"	""	10	"."	4	6	"."	0	"DHX37,intron_variant,,ENST00000308736,NM_032656.3;DHX37,intron_variant,,ENST00000544745,;DHX37,intron_variant,,ENST00000539298,;DHX37,intron_variant,,ENST00000542400,;DHX37,upstream_gene_variant,,ENST00000507267,;"	"-"	"ENSG00000150990"	"ENST00000308736"	"Transcript"	"intron_variant"	"-/4548"	"-/3474"	"-/1157"	""	""	"rs142506009"	"1"	NA	-1	"DHX37"	"HGNC"	17210	"protein_coding"	"YES"	"CCDS9261.1"	"ENSP00000311135"	"Q8IY37"	"Q6IPP7"	"UPI00000742DC"	"NM_032656.3"	NA	NA	""	"25/26"	""	"GGGA:0.3900"	"-:0.2315"	"-:0.6484"	NA	"-:0.8909"	"-:0.6044"	"-:0.8108"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGGGAG"	"8af4d356-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3425"	"RP11-351O2.1"	0	"mskcc.org"	"GRCh37"	"12"	128079527	128079528	"+"	"5'Flank"	"INS"	"-"	"-"	"GCA"	"rs76543780"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000535247"	""	6	"."	3	5	"."	0	"RP11-351O2.1,upstream_gene_variant,,ENST00000535247,;"	"GCA"	"ENSG00000255945"	"ENST00000535247"	"Transcript"	"upstream_gene_variant"	"-/556"	""	""	""	""	"rs76543780"	"1"	"3185"	1	"RP11-351O2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2638"	"GCA:0.6263"	"GCA:0.8285"	NA	"GCA:0.7609"	"GCA:0.7952"	"GCA:0.7331"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"a68475c2-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3426"	"GLT1D1"	144423	"mskcc.org"	"GRCh37"	"12"	129359599	129359600	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTGTGTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.69-834_69-823dupGTGTGTGTGTGT"	""	""	"ENST00000281703"	""	10	"."	4	1	"."	0	"GLT1D1,intron_variant,,ENST00000442111,;GLT1D1,intron_variant,,ENST00000281703,NM_144669.1;GLT1D1,intron_variant,,ENST00000537468,;GLT1D1,intron_variant,,ENST00000542193,;GLT1D1,intron_variant,,ENST00000441390,;GLT1D1,intron_variant,,ENST00000413816,;GLT1D1,intron_variant,,ENST00000539044,;"	"TGTGTGTGTGTG"	"ENSG00000151948"	"ENST00000281703"	"Transcript"	"intron_variant"	"-/2721"	"-/801"	"-/266"	""	""	""	"1"	NA	1	"GLT1D1"	"HGNC"	26483	"protein_coding"	"YES"	"CCDS9265.1"	"ENSP00000281703"	"Q96MS3"	""	"UPI0000070E33"	"NM_144669.1"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"37"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"a6987b8a-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3427"	"TMEM132D"	121256	"mskcc.org"	"GRCh37"	"12"	129556689	129556693	"+"	"3'UTR"	"DEL"	"GAGAT"	"GAGAT"	"-"	"rs63550660"	NA	"JHCCPT5"	"JHCCPN5"	"GAGAT"	"GAGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1727_*1731delATCTC"	""	""	"ENST00000422113"	"9/9"	7	"."	4	3	"."	0	"TMEM132D,3_prime_UTR_variant,,ENST00000422113,NM_133448.2;TMEM132D,3_prime_UTR_variant,,ENST00000389441,;"	"-"	"ENSG00000151952"	"ENST00000422113"	"Transcript"	"3_prime_UTR_variant"	"5354-5358/5776"	"-/3300"	"-/1099"	""	""	"rs63550660"	"1"	NA	-1	"TMEM132D"	"HGNC"	29411	"protein_coding"	"YES"	"CCDS9266.1"	"ENSP00000408581"	"Q14C87"	""	"UPI000023759C"	"NM_133448.2"	NA	NA	"9/9"	""	""	"GAGAT:0.3251"	"-:0.8185"	"-:0.634"	NA	"-:0.6458"	"-:0.6213"	"-:0.5951"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGAGATG"	"8b7aa602-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3428"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	130623256	130623257	"+"	"IGR"	"DEL"	"GG"	"-"	"-"	"rs60530636"	NA	"JHCCPT5"	"JHCCPN5"	"GG"	"GG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs60530636"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGGG"	"8b93a742-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3429"	"RIMBP2"	23504	"mskcc.org"	"GRCh37"	"12"	130890312	130890313	"+"	"Intron"	"INS"	"-"	"-"	"TTTTG"	"rs5801919"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2997+400_2997+404dupCAAAA"	""	""	"ENST00000261655"	""	18	"."	6	2	"."	0	"RIMBP2,intron_variant,,ENST00000261655,NM_015347.4;RIMBP2,intron_variant,,ENST00000536632,;RIMBP2,intron_variant,,ENST00000540658,;"	"TTTTG"	"ENSG00000060709"	"ENST00000261655"	"Transcript"	"intron_variant"	"-/6321"	"-/3159"	"-/1052"	""	""	"rs5801919"	"1"	NA	-1	"RIMBP2"	"HGNC"	30339	"protein_coding"	"YES"	"CCDS31925.1"	"ENSP00000261655"	"O15034"	"F5H3X3"	"UPI00001C1F42"	"NM_015347.4"	NA	NA	""	"17/18"	""	"-:0.0313"	"TTTTG:0.8964"	"TTTTG:0.9942"	NA	"TTTTG:0.994"	"TTTTG:0.997"	"TTTTG:0.9928"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"a6c0fae2-280f-11e6-aa73-0dd4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3430"	"STX2"	2054	"mskcc.org"	"GRCh37"	"12"	131271556	131271557	"+"	"3'Flank"	"INS"	"-"	"TGA"	"TGA"	"rs75266914"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000392373"	""	6	"."	5	1	"."	0	"STX2,downstream_gene_variant,,ENST00000261653,NM_001980.3;STX2,downstream_gene_variant,,ENST00000392373,NM_194356.2;"	"TGA"	"ENSG00000111450"	"ENST00000392373"	"Transcript"	"downstream_gene_variant"	"-/2151"	"-/867"	"-/288"	""	""	"rs75266914"	"1"	"3822"	-1	"STX2"	"HGNC"	3403	"protein_coding"	"YES"	"CCDS9270.1"	"ENSP00000376178"	"P32856"	""	"UPI00001D69FD"	"NM_194356.2"	NA	NA	""	""	""	"-:0.0272"	"TGA:0.9009"	"TGA:0.9942"	NA	"TGA:1"	"TGA:0.999"	"TGA:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"a6c8b458-280f-11e6-aa73-0dd4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3431"	"RP11-638F5.1"	116437	"mskcc.org"	"GRCh37"	"12"	131653889	131653890	"+"	"Intron"	"INS"	"-"	"-"	"CTTTCTT"	"rs141680823"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.220+4131_220+4137dupTTCTTCT"	""	""	"ENST00000376678"	""	14	"."	3	3	"."	0	"RP11-638F5.1,intron_variant,,ENST00000376678,;"	"CTTTCTT"	"ENSG00000204603"	"ENST00000376678"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2473"	""	""	""	""	"rs141680823"	"1"	NA	1	"RP11-638F5.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"23"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"a6d9faec-280f-11e6-aa73-0dd4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"3432"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	132924308	132924309	"+"	"IGR"	"INS"	"-"	"-"	"GGCCAGGGAGGCGGAGGCTGGGGCTGGTCCCGACACGGAGGAGCCGA"	"rs368093239"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	11	"."	0	""	"GGCCAGGGAGGCGGAGGCTGGGGCTGGTCCCGACACGGAGGAGCCGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs368093239"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"a72d9a80-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3433"	"ENSR00001638266"	0	"mskcc.org"	"GRCh37"	"12"	132999557	132999560	"+"	"IGR"	"DEL"	"TCTC"	"TCTC"	"-"	"rs149160497"	NA	"JHCCPT5"	"JHCCPN5"	"TCTC"	"TCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001638266"	""	9	"."	4	1	"."	0	""	"-"	""	"ENSR00001638266"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs149160497"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2206"	"-:0.0484"	"-:0.3732"	NA	"-:0.4008"	"-:0.1859"	"-:0.1953"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATCTCT"	"8cb362e8-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3434"	"FBRSL1"	57666	"mskcc.org"	"GRCh37"	"12"	133150254	133150254	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs11290044"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1585-647delG"	""	""	"ENST00000434748"	""	8	"."	4	2	"."	0	"FBRSL1,intron_variant,,ENST00000434748,NM_001142641.1;FBRSL1,intron_variant,,ENST00000261673,;FBRSL1,intron_variant,,ENST00000537804,;FBRSL1,intron_variant,,ENST00000536075,;FBRSL1,downstream_gene_variant,,ENST00000539264,;FBRSL1,downstream_gene_variant,,ENST00000543360,;FBRSL1,downstream_gene_variant,,ENST00000543453,;FBRSL1,intron_variant,,ENST00000542306,;"	"-"	"ENSG00000112787"	"ENST00000434748"	"Transcript"	"intron_variant"	"-/5568"	"-/3138"	"-/1045"	""	""	"rs11290044"	"1"	NA	1	"FBRSL1"	"HGNC"	29308	"protein_coding"	"YES"	"CCDS45010.1"	"ENSP00000396160"	"Q9HCM7"	""	"UPI00018830C3"	"NM_001142641.1"	NA	NA	""	"11/16"	""	"G:0.4776"	"-:0.3306"	"-:0.6599"	NA	"-:0.4325"	"-:0.6471"	"-:0.6483"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGG"	"8ccde6ae-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3435"	"POLE"	5426	"mskcc.org"	"GRCh37"	"12"	133234741	133234742	"+"	"Intron"	"INS"	"-"	"-"	"GTGT"	"rs10687579"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3276-186_3276-185insACAC"	""	""	"ENST00000320574"	""	19	"."	4	4	"."	0	"POLE,intron_variant,,ENST00000320574,NM_006231.2;POLE,intron_variant,,ENST00000535270,;POLE,intron_variant,,ENST00000539006,;POLE,intron_variant,,ENST00000536445,;POLE,3_prime_UTR_variant,,ENST00000537064,;"	"GTGT"	"ENSG00000177084"	"ENST00000320574"	"Transcript"	"intron_variant"	"-/7840"	"-/6861"	"-/2286"	""	""	"rs10687579"	"1"	NA	-1	"POLE"	"HGNC"	9177	"protein_coding"	"YES"	"CCDS9278.1"	"ENSP00000322570"	"Q07864"	"Q9UNE8,Q96IE1,Q8WU23,F5H7H6,F5H5Q5,F5H3W5,F5H0H8,D3DXI9"	"UPI00001FBF97"	"NM_006231.2"	NA	NA	""	"26/48"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"a757f014-280f-11e6-aa73-0dd4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	TRUE
"3436"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	19693159	19693160	"+"	"IGR"	"INS"	"-"	"-"	"AA"	"rs34776191"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	3	"."	0	""	"AA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34776191"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2484"	"AA:0.6256"	"AA:0.8156"	NA	"AA:0.7956"	"AA:0.8201"	"AA:0.7607"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"760ae804-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3437"	"CENPIP1"	0	"mskcc.org"	"GRCh37"	"13"	19705822	19705822	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34169062"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.702+107delT"	""	""	"ENST00000425713"	""	6	"."	4	1	"."	0	"CENPIP1,intron_variant,,ENST00000425713,;"	"-"	"ENSG00000224778"	"ENST00000425713"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/902"	""	""	""	""	"rs34169062"	"1"	NA	1	"CENPIP1"	"HGNC"	39575	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"6/6"	""	"T:0.3552"	"-:0.7103"	"-:0.6772"	NA	"-:0.4732"	"-:0.7207"	"-:0.6319"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"64adc2ca-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3438"	"MPHOSPH8"	54737	"mskcc.org"	"GRCh37"	"13"	20213983	20213995	"+"	"Intron"	"DEL"	"GCCTGTAATCTCA"	"GCCTGTAATCTCA"	"-"	"rs34631809"	NA	"JHCCPT5"	"JHCCPN5"	"GCCTGTAATCTCA"	"GCCTGTAATCTCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.214-2270_214-2258delCTGTAATCTCAGC"	""	""	"ENST00000361479"	""	7	"."	3	1	"."	0	"MPHOSPH8,intron_variant,,ENST00000361479,NM_017520.3;MPHOSPH8,intron_variant,,ENST00000414242,;"	"-"	"ENSG00000196199"	"ENST00000361479"	"Transcript"	"intron_variant"	"-/4235"	"-/2583"	"-/860"	""	""	"rs34631809"	"1"	NA	1	"MPHOSPH8"	"HGNC"	29810	"protein_coding"	"YES"	"CCDS9287.1"	"ENSP00000355388"	"Q99549"	""	"UPI0000051C18"	"NM_017520.3"	NA	NA	""	"1/13"	""	"-:0.1134"	"-:0.1982"	"-:0.0778"	NA	"-:0.0744"	"-:0.1252"	"-:0.0521"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGCCTGTAATCTCAG"	"64db123e-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3439"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	20494877	20494888	"+"	"IGR"	"DEL"	"TGTATGTATGTA"	"TGTATGTATGTA"	"-"	"rs72233021"	NA	"JHCCPT5"	"JHCCPN5"	"TGTATGTATGTA"	"TGTATGTATGTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs72233021"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTGTATGTATGTAT"	"64f81d7a-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3440"	"ENSR00000512577"	0	"mskcc.org"	"GRCh37"	"13"	20966212	20966212	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs141385671"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000512577"	""	9	"."	5	4	"."	0	""	"-"	""	"ENSR00000512577"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs141385671"	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3133"	"-:0.8888"	"-:0.7738"	NA	"-:0.6855"	"-:0.5457"	"-:0.498"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"6526abfe-280f-11e6-b631-12d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3441"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	21270871	21270872	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs34096934"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34096934"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1629"	"T:0.6936"	"T:0.7781"	NA	"T:0.9157"	"T:0.9245"	"T:0.9018"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7665fbe0-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3442"	"HIST1H2BPS3"	0	"mskcc.org"	"GRCh37"	"13"	22059000	22059003	"+"	"5'Flank"	"DEL"	"TTTC"	"TTTC"	"-"	"rs146849124"	NA	"JHCCPT5"	"JHCCPN5"	"TTTC"	"TTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000419683"	""	10	"."	4	1	"."	0	"HIST1H2BPS3,upstream_gene_variant,,ENST00000419683,;"	"-"	"ENSG00000226908"	"ENST00000419683"	"Transcript"	"upstream_gene_variant"	"-/341"	""	""	""	""	"rs146849124"	"1"	"687"	-1	"HIST1H2BPS3"	"HGNC"	42633	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2762"	"-:0.0514"	"-:0.3156"	NA	"-:0.3016"	"-:0.3907"	"-:0.408"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTTCT"	"6634fdfc-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3443"	"SGCG"	6445	"mskcc.org"	"GRCh37"	"13"	23824515	23824515	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs79337752"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.298-248delT"	""	""	"ENST00000218867"	""	8	"."	3	2	"."	0	"SGCG,intron_variant,,ENST00000218867,NM_000231.2;SGCG,intron_variant,,ENST00000537476,;SGCG,intron_variant,,ENST00000545013,;TATDN2P3,downstream_gene_variant,,ENST00000452855,;"	"-"	"ENSG00000102683"	"ENST00000218867"	"Transcript"	"intron_variant"	"-/1624"	"-/876"	"-/291"	""	""	"rs79337752"	"1"	NA	1	"SGCG"	"HGNC"	10809	"protein_coding"	"YES"	"CCDS9299.1"	"ENSP00000218867"	"Q13326"	""	"UPI000013C76D"	"NM_000231.2"	NA	NA	""	"3/7"	""	"-:0.1675"	"-:0.0605"	"-:0.2046"	NA	"-:0.3889"	"-:0.0954"	"-:0.1319"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TATT"	"6661a690-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3444"	"MIPEP"	4285	"mskcc.org"	"GRCh37"	"13"	24342288	24342294	"+"	"Intron"	"DEL"	"CCAGATG"	"CCAGATG"	"-"	"rs66917176"	NA	"JHCCPT5"	"JHCCPN5"	"CCAGATG"	"CCAGATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1849-7938_1849-7932delCATCTGG"	""	""	"ENST00000382172"	""	7	"."	4	3	"."	0	"MIPEP,intron_variant,,ENST00000382172,NM_005932.3;MTCO3P2,upstream_gene_variant,,ENST00000457365,;"	"-"	"ENSG00000027001"	"ENST00000382172"	"Transcript"	"intron_variant"	"-/2400"	"-/2142"	"-/713"	""	""	"rs66917176"	"1"	NA	-1	"MIPEP"	"HGNC"	7104	"protein_coding"	"YES"	"CCDS9303.1"	"ENSP00000371607"	"Q99797"	""	"UPI000013C54A"	"NM_005932.3"	NA	NA	""	"16/18"	""	"CCAGATG:0.3345"	"-:0.3404"	"-:0.7767"	NA	"-:0.8036"	"-:0.8231"	"-:0.7219"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACCAGATGC"	"6668cb50-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3445"	"PARP4"	143	"mskcc.org"	"GRCh37"	"13"	25008403	25008404	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs11434282"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4746+129dupG"	""	""	"ENST00000381989"	""	25	"."	6	12	"."	0	"PARP4,intron_variant,,ENST00000381989,NM_006437.3;TPTE2P6,intron_variant,,ENST00000445572,;"	"C"	"ENSG00000102699"	"ENST00000381989"	"Transcript"	"intron_variant"	"-/5474"	"-/5175"	"-/1724"	""	""	"rs11434282"	"1"	NA	-1	"PARP4"	"HGNC"	271	"protein_coding"	"YES"	"CCDS9307.1"	"ENSP00000371419"	"Q9UKK3"	""	"UPI000013C76E"	"NM_006437.3"	NA	NA	""	"31/33"	""	"-:0.0527"	"C:0.888"	"C:0.9654"	NA	"C:0.994"	"C:0.9513"	"C:0.9622"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"7724615c-280f-11e6-b631-12d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WXS"	FALSE
"3446"	"PARP4"	143	"mskcc.org"	"GRCh37"	"13"	25033898	25033898	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs149573501"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2298+212delT"	""	""	"ENST00000381989"	""	9	"."	3	2	"."	0	"PARP4,intron_variant,,ENST00000381989,NM_006437.3;PARP4,upstream_gene_variant,,ENST00000480576,;PARP4,upstream_gene_variant,,ENST00000484989,;TPTE2P6,intron_variant,,ENST00000445572,;"	"-"	"ENSG00000102699"	"ENST00000381989"	"Transcript"	"intron_variant"	"-/5474"	"-/5175"	"-/1724"	""	""	"rs149573501"	"1"	NA	-1	"PARP4"	"HGNC"	271	"protein_coding"	"YES"	"CCDS9307.1"	"ENSP00000371419"	"Q9UKK3"	""	"UPI000013C76E"	"NM_006437.3"	NA	NA	""	"18/33"	""	"-:0.0617"	"-:0.0098"	"-:0.0865"	NA	"-:0"	"-:0.1958"	"-:0.0399"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAG"	"66d8bd20-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3447"	"PARP4"	143	"mskcc.org"	"GRCh37"	"13"	25074176	25074177	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs746007549"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.401+277dupA"	""	""	"ENST00000381989"	""	22	"."	5	2	"."	0	"PARP4,intron_variant,,ENST00000381989,NM_006437.3;TPTE2P6,intron_variant,,ENST00000445572,;"	"T"	"ENSG00000102699"	"ENST00000381989"	"Transcript"	"intron_variant"	"-/5474"	"-/5175"	"-/1724"	""	""	"rs746007549"	"1"	NA	-1	"PARP4"	"HGNC"	271	"protein_coding"	"YES"	"CCDS9307.1"	"ENSP00000371419"	"Q9UKK3"	""	"UPI000013C76E"	"NM_006437.3"	NA	NA	""	"4/33"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"772fbe58-280f-11e6-b631-12d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WXS"	FALSE
"3448"	"SHISA2"	387914	"mskcc.org"	"GRCh37"	"13"	26626238	26626240	"+"	"5'Flank"	"DEL"	"CCG"	"CCG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CCG"	"CCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000319420"	""	9	"."	4	4	"."	0	"SHISA2,upstream_gene_variant,,ENST00000319420,NM_001007538.1;LINC00415,downstream_gene_variant,,ENST00000439079,;"	"-"	"ENSG00000180730"	"ENST00000319420"	"Transcript"	"upstream_gene_variant"	"-/2860"	"-/888"	"-/295"	""	""	""	"1"	"1069"	-1	"SHISA2"	"HGNC"	20366	"protein_coding"	"YES"	"CCDS31951.1"	"ENSP00000313079"	"Q6UWI4"	""	"UPI000004BA7B"	"NM_001007538.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCCGA"	"67abea88-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3449"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	28260583	28260592	"+"	"IGR"	"DEL"	"TGTGTGTGTG"	"TGTGTGTGTG"	"-"	"rs56707890"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTGTGTG"	"TGTGTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"."	7	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs56707890"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGTGTGTGTGT"	"67e222f6-280f-11e6-b631-12d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269230769230769	"WXS"	FALSE
"3450"	"MTUS2"	23281	"mskcc.org"	"GRCh37"	"13"	30074930	30074935	"+"	"Intron"	"DEL"	"ACACAC"	"ACACAC"	"-"	"rs768528546"	NA	"JHCCPT5"	"JHCCPN5"	"ACACAC"	"ACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3829-267_3829-262delCACACA"	""	""	"ENST00000431530"	""	10	"."	3	2	"."	0	"MTUS2,intron_variant,,ENST00000431530,NM_001033602.2;MTUS2,intron_variant,,ENST00000380808,NM_015233.5;MTUS2,intron_variant,,ENST00000542829,;MTUS2,intron_variant,,ENST00000400542,;MTUS2,downstream_gene_variant,,ENST00000467990,;"	"-"	"ENSG00000132938"	"ENST00000431530"	"Transcript"	"intron_variant"	"-/4747"	"-/4140"	"-/1379"	""	""	"rs768528546"	"1"	NA	1	"MTUS2"	"HGNC"	20595	"protein_coding"	"YES"	"CCDS45022.1"	"ENSP00000392057"	""	"J3KQA9,B4DWQ4"	"UPI0000F734AC"	"NM_001033602.2"	NA	NA	""	"12/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"37"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAACACACA"	"684c07ca-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3451"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	30327822	30327822	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs35457125"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35457125"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2845"	"-:0.2186"	"-:0.2435"	NA	"-:0.4385"	"-:0.2734"	"-:0.2556"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGAA"	"685955f6-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3452"	"HSPH1"	10808	"mskcc.org"	"GRCh37"	"13"	31722709	31722710	"+"	"Intron"	"DEL"	"CA"	"CA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1138-93_1138-92delTG"	""	""	"ENST00000320027"	""	102	"."	3	17	"."	0	"HSPH1,intron_variant,,ENST00000320027,NM_006644.2;HSPH1,intron_variant,,ENST00000380406,;HSPH1,intron_variant,,ENST00000380405,NM_001286503.1;HSPH1,intron_variant,,ENST00000445273,NM_001286504.1;HSPH1,intron_variant,,ENST00000429785,;HSPH1,intron_variant,,ENST00000602786,;"	"-"	"ENSG00000120694"	"ENST00000320027"	"Transcript"	"intron_variant"	"-/3612"	"-/2577"	"-/858"	""	""	""	"1"	NA	-1	"HSPH1"	"HGNC"	16969	"protein_coding"	"YES"	"CCDS9340.1"	"ENSP00000318687"	"Q92598"	""	"UPI0000001C62"	"NM_006644.2"	NA	NA	""	"8/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCAA"	"68b88774-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0294117647058824	"WXS"	FALSE
"3453"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	32064007	32064008	"+"	"IGR"	"INS"	"-"	"-"	"TCTATCTA"	"rs369742806"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	5	4	"."	0	""	"TCTATCTA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs369742806"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"78243b7c-280f-11e6-b631-12d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3454"	"FRY"	10129	"mskcc.org"	"GRCh37"	"13"	32735444	32735445	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1892+64_1892+65dupAA"	""	""	"ENST00000380250"	""	189	"."	3	80	"."	0	"FRY,intron_variant,,ENST00000380250,NM_023037.2;"	"AA"	"ENSG00000073910"	"ENST00000380250"	"Transcript"	"intron_variant"	"-/10735"	"-/9042"	"-/3013"	""	""	""	"1"	NA	1	"FRY"	"HGNC"	20367	"protein_coding"	"YES"	"CCDS41875.1"	"ENSP00000369600"	"Q5TBA9"	"Q96KW3,F5H4D2"	"UPI000046FD40"	"NM_023037.2"	NA	NA	""	"17/60"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7863fe88-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0158730158730159	"WXS"	FALSE
"3455"	"FRY"	10129	"mskcc.org"	"GRCh37"	"13"	32753640	32753641	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTGTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2872-142_2872-133dupGTGTGTGTGT"	""	""	"ENST00000380250"	""	23	"."	4	13	"."	0	"FRY,intron_variant,,ENST00000380250,NM_023037.2;"	"TGTGTGTGTG"	"ENSG00000073910"	"ENST00000380250"	"Transcript"	"intron_variant"	"-/10735"	"-/9042"	"-/3013"	""	""	""	"1"	NA	1	"FRY"	"HGNC"	20367	"protein_coding"	"YES"	"CCDS41875.1"	"ENSP00000369600"	"Q5TBA9"	"Q96KW3,F5H4D2"	"UPI000046FD40"	"NM_023037.2"	NA	NA	""	"22/60"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"39"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7868bd56-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"3456"	"FRY"	10129	"mskcc.org"	"GRCh37"	"13"	32798235	32798236	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs5802638"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4766-129dupA"	""	""	"ENST00000380250"	""	107	"."	24	12	"."	1	"FRY,intron_variant,,ENST00000380250,NM_023037.2;"	"A"	"ENSG00000073910"	"ENST00000380250"	"Transcript"	"intron_variant"	"-/10735"	"-/9042"	"-/3013"	""	""	"rs5802638"	"1"	NA	1	"FRY"	"HGNC"	20367	"protein_coding"	"YES"	"CCDS41875.1"	"ENSP00000369600"	"Q5TBA9"	"Q96KW3,F5H4D2"	"UPI000046FD40"	"NM_023037.2"	NA	NA	""	"36/60"	""	"-:0.3323"	"A:0.8359"	"A:0.4755"	NA	"A:0.6488"	"A:0.5417"	"A:0.726"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"78752d2a-280f-11e6-b631-12d4414a729f"	"1500"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224299065420561	"WXS"	FALSE
"3457"	"FRY"	10129	"mskcc.org"	"GRCh37"	"13"	32831780	32831780	"+"	"Intron"	"DEL"	"C"	"-"	"-"	"rs34804331"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7416+3249delC"	""	""	"ENST00000380250"	""	10	"."	7	1	"."	0	"FRY,intron_variant,,ENST00000380250,NM_023037.2;FRY,intron_variant,,ENST00000602645,;FRY,upstream_gene_variant,,ENST00000477712,;"	"-"	"ENSG00000073910"	"ENST00000380250"	"Transcript"	"intron_variant"	"-/10735"	"-/9042"	"-/3013"	""	""	"rs34804331"	"1"	NA	1	"FRY"	"HGNC"	20367	"protein_coding"	"YES"	"CCDS41875.1"	"ENSP00000369600"	"Q5TBA9"	"Q96KW3,F5H4D2"	"UPI000046FD40"	"NM_023037.2"	NA	NA	""	"51/60"	""	"-:0.4577"	"-:0.2065"	"-:0.549"	NA	"-:0.4752"	"-:0.5944"	"-:0.5736"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCA"	"691fe036-280f-11e6-b631-12d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"3458"	"PDS5B"	23047	"mskcc.org"	"GRCh37"	"13"	33253235	33253235	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs373794529"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1057+172delA"	""	""	"ENST00000315596"	""	56	"."	3	14	"."	0	"PDS5B,intron_variant,,ENST00000315596,NM_015032.3;PDS5B,intron_variant,,ENST00000450460,;PDS5B,intron_variant,,ENST00000498550,;"	"-"	"ENSG00000083642"	"ENST00000315596"	"Transcript"	"intron_variant"	"-/7497"	"-/4344"	"-/1447"	""	""	"rs373794529"	"1"	NA	1	"PDS5B"	"HGNC"	20418	"protein_coding"	"YES"	"CCDS41878.1"	"ENSP00000313851"	"Q9NTI5"	""	"UPI000006D4A9"	"NM_015032.3"	NA	NA	""	"10/34"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"695ad83a-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0535714285714286	"WXS"	FALSE
"3459"	"PDS5B"	23047	"mskcc.org"	"GRCh37"	"13"	33315184	33315184	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs367955557"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2407-32delC"	""	""	"ENST00000315596"	""	116	"."	4	36	"."	0	"PDS5B,intron_variant,,ENST00000315596,NM_015032.3;PDS5B,intron_variant,,ENST00000450460,;"	"-"	"ENSG00000083642"	"ENST00000315596"	"Transcript"	"intron_variant"	"-/7497"	"-/4344"	"-/1447"	""	""	"rs367955557"	"1"	NA	1	"PDS5B"	"HGNC"	20418	"protein_coding"	"YES"	"CCDS41878.1"	"ENSP00000313851"	"Q9NTI5"	""	"UPI000006D4A9"	"NM_015032.3"	NA	NA	""	"21/34"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	"0.07337"	"0.07143"	"0.05966"	"0.08816"	"0.02287"	"0.05533"	"0.06951"	"0.1645"	NA	"common_variant"	"GTCC"	"6970244c-280f-11e6-b631-12d4414a729f"	"240"	0.0733	"4757/64900"	"7735/105428"	"408/5712"	"428/7174"	"408/4628"	"107/4678"	"1813/32766"	"31/446"	"1562/9496"	"PASS"	"FALSE"	0.0344827586206897	"WXS"	FALSE
"3460"	"NBEA"	26960	"mskcc.org"	"GRCh37"	"13"	35864824	35864824	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs200226533"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5838+238delC"	""	""	"ENST00000400445"	""	23	"."	7	6	"."	0	"NBEA,intron_variant,,ENST00000400445,NM_015678.4;NBEA,intron_variant,,ENST00000540320,;NBEA,intron_variant,,ENST00000310336,;NBEA,intron_variant,,ENST00000379939,;"	"-"	"ENSG00000172915"	"ENST00000400445"	"Transcript"	"intron_variant"	"-/11119"	"-/8841"	"-/2946"	""	""	"rs200226533"	"1"	NA	1	"NBEA"	"HGNC"	7648	"protein_coding"	"YES"	"CCDS45026.1"	"ENSP00000383295"	"Q8NFP9"	""	"UPI00004FF92F"	"NM_015678.4"	NA	NA	""	"35/57"	""	"-:0.0208"	"-:0.0015"	"-:0.0101"	NA	"-:0.001"	"-:0.0497"	"-:0.045"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"69b19d1e-280f-11e6-b631-12d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WXS"	FALSE
"3461"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	36280472	36280473	"+"	"IGR"	"INS"	"-"	"G"	"G"	"rs60526534"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	7	2	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs60526534"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3830"	"G:0.593"	"G:0.5447"	NA	"G:0.5625"	"G:0.6918"	"G:0.68"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"78e59902-280f-11e6-b631-12d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"3462"	"CCDC169-SOHLH2"	100526761	"mskcc.org"	"GRCh37"	"13"	36870140	36870141	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs34495267"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-97+1633_-97+1634insA"	""	""	"ENST00000511166"	""	23	"."	6	2	"."	0	"CCDC169-SOHLH2,intron_variant,,ENST00000511166,NM_001198910.1;SOHLH2,intron_variant,,ENST00000554962,;CCDC169,intron_variant,,ENST00000510088,NM_001144981.2,NM_001144985.2,NM_001144986.2;CCDC169,intron_variant,,ENST00000503173,NM_001198908.1;CCDC169,intron_variant,,ENST00000379864,NM_001144982.2,NM_001144983.2;CCDC169,intron_variant,,ENST00000491049,;CCDC169,intron_variant,,ENST00000239860,NM_001144984.2;CCDC169,intron_variant,,ENST00000239859,;CCDC169,intron_variant,,ENST00000379862,;CCDC169,intron_variant,,ENST00000477250,;CCDC169,intron_variant,,ENST00000479850,;CCDC169,intron_variant,,ENST00000485600,;CCDC169,intron_variant,,ENST00000486683,;CCDC169,intron_variant,,ENST00000471781,;CCDC169,intron_variant,,ENST00000506800,;"	"T"	"ENSG00000250709"	"ENST00000511166"	"Transcript"	"intron_variant"	"-/2051"	"-/1509"	"-/502"	""	""	"rs34495267"	"1"	NA	-1	"CCDC169-SOHLH2"	"HGNC"	38866	"protein_coding"	"YES"	"CCDS55896.1"	"ENSP00000421868"	""	""	"UPI00017A803A"	"NM_001198910.1"	NA	NA	""	"1/15"	""	"T:0.2861"	"T:0.1415"	"T:0.3545"	NA	"T:0.4911"	"T:0.2495"	"T:0.2597"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"79086892-280f-11e6-b631-12d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WXS"	FALSE
"3463"	"TRPC4"	7223	"mskcc.org"	"GRCh37"	"13"	38229521	38229522	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs35109839"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1689-103_1689-102dupTT"	""	""	"ENST00000379681"	""	18	"."	5	3	"."	0	"TRPC4,intron_variant,,ENST00000379705,;TRPC4,intron_variant,,ENST00000379681,NM_001135955.1,NM_016179.2,NM_003306.1;TRPC4,intron_variant,,ENST00000447043,;TRPC4,intron_variant,,ENST00000358477,;TRPC4,intron_variant,,ENST00000338947,NM_001135958.1;TRPC4,intron_variant,,ENST00000355779,NM_001135957.1;TRPC4,intron_variant,,ENST00000379673,NM_001135956.1;TRPC4,intron_variant,,ENST00000426868,;TRPC4,intron_variant,,ENST00000379679,;TRPC4,intron_variant,,ENST00000488717,;"	"AA"	"ENSG00000133107"	"ENST00000379681"	"Transcript"	"intron_variant"	"-/3446"	"-/2949"	"-/982"	""	""	"rs35109839"	"1"	NA	-1	"TRPC4"	"HGNC"	12336	"protein_coding"	"YES"	"CCDS45037.1"	"ENSP00000369003"	"Q9UBN4"	""	"UPI000006E5BE"	"NM_001135955.1,NM_016179.2,NM_003306.1"	NA	NA	""	"6/10"	""	"AA:0.3161"	"AA:0.3926"	"AA:0.219"	NA	"AA:0.2222"	"AA:0.3549"	"AA:0.3384"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"793259f4-280f-11e6-b631-12d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"3464"	"ENSR00001508952"	0	"mskcc.org"	"GRCh37"	"13"	39675536	39675537	"+"	"IGR"	"INS"	"-"	"-"	"GTGTGTGTGC"	"rs112925872"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001508952"	""	10	"."	6	2	"."	0	""	"GTGTGTGTGC"	""	"ENSR00001508952"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs112925872"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1358"	"GTGTGTGTGC:0.6256"	"GTGTGTGTGC:0.9452"	NA	"GTGTGTGTGC:0.9881"	"GTGTGTGTGC:0.9443"	"GTGTGTGTGC:0.9192"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"79665ba0-280f-11e6-b631-12d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"3465"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	39847004	39847005	"+"	"IGR"	"INS"	"-"	"-"	"AG"	"rs142737248"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	4	2	"."	0	""	"AG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142737248"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7968f19e-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"3466"	"VWA8"	23078	"mskcc.org"	"GRCh37"	"13"	42149696	42149696	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5370+180delA"	""	""	"ENST00000379310"	""	41	"."	9	10	"."	0	"VWA8,intron_variant,,ENST00000379310,NM_015058.1;"	"-"	"ENSG00000102763"	"ENST00000379310"	"Transcript"	"intron_variant"	"-/7147"	"-/5718"	"-/1905"	""	""	""	"1"	NA	-1	"VWA8"	"HGNC"	29071	"protein_coding"	"YES"	"CCDS41881.1"	"ENSP00000368612"	"A3KMH1"	""	"UPI00001606AC"	"NM_015058.1"	NA	NA	""	"43/44"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"6af550ee-280f-11e6-b631-12d4414a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219512195121951	"WXS"	FALSE
"3467"	"DNAJC15"	29103	"mskcc.org"	"GRCh37"	"13"	43681427	43681427	"+"	"3'UTR"	"DEL"	"G"	"G"	"-"	"rs67714115"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*43delG"	""	""	"ENST00000379221"	"6/6"	152	"."	7	20	"."	0	"DNAJC15,3_prime_UTR_variant,,ENST00000379221,NM_013238.2;"	"-"	"ENSG00000120675"	"ENST00000379221"	"Transcript"	"3_prime_UTR_variant"	"920/2538"	"-/453"	"-/150"	""	""	"rs67714115"	"1"	NA	1	"DNAJC15"	"HGNC"	20325	"protein_coding"	"YES"	"CCDS9388.1"	"ENSP00000368523"	"Q9Y5T4"	""	"UPI000013D195"	"NM_013238.2"	NA	NA	"6/6"	""	""	"-:0.0816"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.07063"	"0.1559"	"0.1012"	"0.09483"	"0.08207"	"0.1108"	"0.1263"	"0.3038"	NA	"common_variant"	"TCGA"	"6b343da4-280f-11e6-b631-12d4414a729f"	"420"	0.1608	"3872/24074"	"6485/91822"	"351/2252"	"280/2768"	"220/2320"	"152/1852"	"928/8378"	"25/198"	"1916/6306"	"PASS"	"FALSE"	0.0460526315789474	"WXS"	FALSE
"3468"	"ENOX1"	55068	"mskcc.org"	"GRCh37"	"13"	43945045	43945045	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs71099831"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.209-9457delG"	""	""	"ENST00000261488"	""	10	"."	4	6	"."	0	"ENOX1,intron_variant,,ENST00000261488,NM_017993.3,NM_001242863.1;ENOX1,intron_variant,,ENST00000412891,NM_001127615.1;"	"-"	"ENSG00000120658"	"ENST00000261488"	"Transcript"	"intron_variant"	"-/2982"	"-/1932"	"-/643"	""	""	"rs71099831"	"1"	NA	-1	"ENOX1"	"HGNC"	25474	"protein_coding"	"YES"	"CCDS9389.1"	"ENSP00000261488"	"Q8TC92"	""	"UPI0000071D6F"	"NM_017993.3,NM_001242863.1"	NA	NA	""	"5/16"	""	"-:0.4201"	"-:0.1475"	"-:0.4582"	NA	"-:0.2421"	"-:0.7117"	"-:0.6452"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"6b3e5758-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3469"	"TSC22D1"	8848	"mskcc.org"	"GRCh37"	"13"	45021011	45021012	"+"	"Intron"	"INS"	"-"	"-"	"ATA"	"rs34867174"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2913-10783_2913-10781dupTAT"	""	""	"ENST00000458659"	""	19	"."	11	5	"."	0	"TSC22D1,intron_variant,,ENST00000458659,NM_183422.3;TSC22D1,intron_variant,,ENST00000501704,NM_001243799.1;TSC22D1,intron_variant,,ENST00000472477,;RP11-71C5.2,intron_variant,,ENST00000426579,;"	"ATA"	"ENSG00000102804"	"ENST00000458659"	"Transcript"	"intron_variant"	"-/4820"	"-/3222"	"-/1073"	""	""	"rs34867174"	"1"	NA	-1	"TSC22D1"	"HGNC"	16826	"protein_coding"	"YES"	"CCDS31966.1"	"ENSP00000397435"	"Q15714"	"C9IZ15"	"UPI0000D61A6B"	"NM_183422.3"	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"79f888c2-280f-11e6-b631-12d4414a729f"	"593"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.578947368421053	"WXS"	FALSE
"3470"	"SIAH3"	283514	"mskcc.org"	"GRCh37"	"13"	46375235	46375236	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs58273504"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.136-17044_136-17043insT"	""	""	"ENST00000400405"	""	10	"."	3	1	"."	0	"SIAH3,intron_variant,,ENST00000400405,NM_198849.2;"	"A"	"ENSG00000215475"	"ENST00000400405"	"Transcript"	"intron_variant"	"-/4030"	"-/810"	"-/269"	""	""	"rs58273504"	"1"	NA	-1	"SIAH3"	"HGNC"	30553	"protein_coding"	"YES"	"CCDS41883.1"	"ENSP00000383256"	"Q8IW03"	""	"UPI00001C1F5A"	"NM_198849.2"	NA	NA	""	"1/1"	""	"A:0.2155"	"A:0.1936"	"A:0.1772"	NA	"A:0.0556"	"A:0.4294"	"A:0.2168"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7a47fe70-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3471"	"CPB2"	1361	"mskcc.org"	"GRCh37"	"13"	46632101	46632102	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs58925531"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.999+212_999+213insT"	""	""	"ENST00000181383"	""	10	"."	3	1	"."	0	"CPB2,intron_variant,,ENST00000181383,NM_001872.4;CPB2,intron_variant,,ENST00000439329,NM_001278541.1;CPB2-AS1,intron_variant,,ENST00000606991,;CPB2-AS1,intron_variant,,ENST00000606243,;CPB2-AS1,intron_variant,,ENST00000415033,;CPB2-AS1,intron_variant,,ENST00000606351,;"	"A"	"ENSG00000080618"	"ENST00000181383"	"Transcript"	"intron_variant"	"-/1717"	"-/1272"	"-/423"	""	""	"rs58925531"	"1"	NA	-1	"CPB2"	"HGNC"	2300	"protein_coding"	"YES"	"CCDS9401.1"	"ENSP00000181383"	"Q96IY4"	""	"UPI000013C764"	"NM_001872.4"	NA	NA	""	"9/10"	""	"-:0.2025"	"A:0.9054"	"A:0.7911"	NA	"A:0.8056"	"A:0.7376"	"A:0.7096"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7a5b0ba0-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3472"	"LRCH1"	23143	"mskcc.org"	"GRCh37"	"13"	47256071	47256072	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTGTG"	"rs151080336"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.685+111_685+120dupTGTGTGTGTG"	""	""	"ENST00000389797"	""	30	"."	5	13	"."	0	"LRCH1,intron_variant,,ENST00000311191,NM_001164213.1;LRCH1,intron_variant,,ENST00000389798,NM_015116.2;LRCH1,intron_variant,,ENST00000389797,NM_001164211.1;LRCH1,intron_variant,,ENST00000463929,;LRCH1,intron_variant,,ENST00000478412,;LRCH1,intron_variant,,ENST00000443945,;"	"TGTGTGTGTG"	"ENSG00000136141"	"ENST00000389797"	"Transcript"	"intron_variant"	"-/3314"	"-/2292"	"-/763"	""	""	"rs151080336"	"1"	NA	1	"LRCH1"	"HGNC"	20309	"protein_coding"	"YES"	"CCDS53865.1"	"ENSP00000374447"	"Q9Y2L9"	"C9JWE0,C9J5B8"	"UPI00015DFE06"	"NM_001164211.1"	NA	NA	""	"4/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"30"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7a709d12-280f-11e6-b631-12d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3473"	"CDADC1"	81602	"mskcc.org"	"GRCh37"	"13"	49854941	49854942	"+"	"Intron"	"INS"	"-"	"-"	"ATT"	"rs10626538"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1410+135_1410+137dupATT"	""	""	"ENST00000251108"	""	35	"."	5	14	"."	0	"CDADC1,intron_variant,,ENST00000251108,NM_001193478.1,NM_030911.3;CDADC1,intron_variant,,ENST00000444959,;"	"ATT"	"ENSG00000102543"	"ENST00000251108"	"Transcript"	"intron_variant"	"-/3383"	"-/1545"	"-/514"	""	""	"rs10626538"	"1"	NA	1	"CDADC1"	"HGNC"	20299	"protein_coding"	"YES"	"CCDS9415.1"	"ENSP00000251108"	"Q9BWV3"	"G8JLM2"	"UPI0000073EF4"	"NM_001193478.1,NM_030911.3"	NA	NA	""	"8/9"	""	"ATTATTATT:0.2722"	"ATTATTATT:0.2632"	"ATTATTATT:0.2565"	NA	"ATTATTATT:0.4663"	"ATTATTATT:0.2008"	"ATTATTATT:0.1687"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"30"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7af005d4-280f-11e6-b631-12d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"3474"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	52425516	52425518	"+"	"IGR"	"DEL"	"GAG"	"GAG"	"-"	"rs147056819"	NA	"JHCCPT5"	"JHCCPN5"	"GAG"	"GAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"."	7	18	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147056819"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1042"	"-:0.0461"	"-:0.1282"	NA	"-:0.0744"	"-:0.2097"	"-:0.0879"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGAGG"	"6d57f080-280f-11e6-b631-12d4414a729f"	"406"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0551181102362205	"WXS"	FALSE
"3475"	"CTAGE3P"	0	"mskcc.org"	"GRCh37"	"13"	52482448	52482452	"+"	"RNA"	"DEL"	"GGGGT"	"GGGGT"	"-"	"rs201590716"	NA	"JHCCPT5"	"JHCCPN5"	"GGGGT"	"GGGGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2306_2310delACCCC"	""	""	"ENST00000454280"	"1/1"	26	"."	4	12	"."	0	"CTAGE3P,non_coding_transcript_exon_variant,,ENST00000454280,;"	"-"	"ENSG00000232872"	"ENST00000454280"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"2306-2310/2404"	""	""	""	""	"rs201590716"	"1"	NA	-1	"CTAGE3P"	"HGNC"	24348	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGGGGTG"	"6d60c17e-280f-11e6-b631-12d4414a729f"	"163"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WXS"	FALSE
"3476"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	54570293	54570294	"+"	"IGR"	"INS"	"-"	"-"	"GAAAA"	"rs370963444"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	3	7	"."	0	""	"GAAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs370963444"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GAAAAGAAAAGAAAA:0.2095"	"GAAAAGAAAAGAAAA:0.2458"	"GAAAAGAAAAGAAAA:0.2738"	NA	"GAAAAGAAAAGAAAA:0.0804"	"GAAAAGAAAAGAAAA:0.2545"	"GAAAAGAAAAGAAAA:0.2014"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7b43d9ca-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"3477"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	55217456	55217467	"+"	"IGR"	"DEL"	"CTTTTTCTTTCC"	"CTTTTTCTTTCC"	"-"	"rs766849269"	NA	"JHCCPT5"	"JHCCPN5"	"CTTTTTCTTTCC"	"CTTTTTCTTTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	3	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs766849269"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTTTTTCTTTCCT"	"6dc08960-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"3478"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	57035086	57035087	"+"	"IGR"	"INS"	"-"	"-"	"GA"	"rs11378402"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"GA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11378402"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0743"	"A:0.7284"	"A:0.9827"	NA	"A:1"	"A:0.999"	"A:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7b54df22-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3479"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	64935180	64935181	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs142190918"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142190918"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.0198"	"A:0.003"	"A:0.0144"	NA	"A:0.003"	"A:0.0258"	"A:0.0573"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"7b99f6e8-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3480"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	68230956	68230982	"+"	"IGR"	"DEL"	"AGCAGCAGCAGCAGCAGCAGCAGCAGC"	"AGCAGCAGCAGCAGCAGCAGCAGCAGC"	"-"	"rs146010751"	NA	"JHCCPT5"	"JHCCPN5"	"AGCAGCAGCAGCAGCAGCAGCAGCAGC"	"AGCAGCAGCAGCAGCAGCAGCAGCAGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	25	"."	4	9	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs146010751"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAGCAGCAGCAGCAGCAGCAGCAGCAGCA"	"6e6d125c-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WXS"	FALSE
"3481"	"ATXN8OS"	6315	"mskcc.org"	"GRCh37"	"13"	70713516	70713521	"+"	"RNA"	"DEL"	"CTGCTG"	"CTGCTG"	"-"	"rs370770198"	NA	"JHCCPT5"	"JHCCPN5"	"CTGCTG"	"CTGCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1138_1143delGCTGCT"	""	""	"ENST00000414504"	"5/5"	24	"."	4	8	"."	0	"ATXN8OS,non_coding_transcript_exon_variant,,ENST00000414504,;"	"-"	"ENSG00000230223"	"ENST00000414504"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1103-1108/1148"	""	""	""	""	"rs370770198"	"1"	NA	1	"ATXN8OS"	"HGNC"	10561	"antisense"	""	""	""	""	""	""	""	NA	NA	"5/5"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"35"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TACTGCTGC"	"6e8ef4f8-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3482"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	71158636	71158636	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs71712173"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71712173"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1374"	"-:0.1475"	"-:0.1326"	NA	"-:0.122"	"-:0.16"	"-:0.1196"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"6e97f30a-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3483"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	81126677	81126679	"+"	"IGR"	"DEL"	"AAG"	"AAG"	"-"	"rs74998694"	NA	"JHCCPT5"	"JHCCPN5"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs74998694"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AAG:0.3986"	"-:0.6384"	"-:0.5692"	NA	"-:0.5089"	"-:0.5557"	"-:0.7168"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAGA"	"704b1b32-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3484"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	89000326	89000327	"+"	"IGR"	"INS"	"-"	"-"	"GAAG"	"rs141385241"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	23	"."	4	6	"."	0	""	"GAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141385241"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3778"	"GAAG:0.5885"	"GAAG:0.6254"	NA	"GAAG:0.623"	"GAAG:0.6382"	"GAAG:0.6483"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"7cad9c24-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"3485"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	89728906	89728907	"+"	"IGR"	"INS"	"-"	"-"	"TTCCTCTTTCTTTC"	"rs11282045"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	5	2	"."	0	""	"TTCCTCTTTCTTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11282045"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7cb2d16c-280f-11e6-b631-12d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"3486"	"GPC5"	2262	"mskcc.org"	"GRCh37"	"13"	92549281	92549282	"+"	"Intron"	"INS"	"-"	"-"	"TCC"	"rs139144986"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1281-10901_1281-10899dupCTC"	""	""	"ENST00000377067"	""	16	"."	4	11	"."	0	"GPC5,intron_variant,,ENST00000377067,NM_004466.4;"	"TCC"	"ENSG00000179399"	"ENST00000377067"	"Transcript"	"intron_variant"	"-/2889"	"-/1719"	"-/572"	""	""	"rs139144986"	"1"	NA	1	"GPC5"	"HGNC"	4453	"protein_coding"	"YES"	"CCDS9468.1"	"ENSP00000366267"	"P78333"	""	"UPI0000001C85"	"NM_004466.4"	NA	NA	""	"5/7"	""	"-:0.0829"	"TCC:0.9871"	"TCC:0.7968"	NA	"TCC:0.9891"	"TCC:0.8698"	"TCC:0.8824"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"11"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7cc32d0a-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3487"	"DCT"	1638	"mskcc.org"	"GRCh37"	"13"	95117700	95117701	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs571945753"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.863+186dupA"	""	""	"ENST00000446125"	""	17	"."	5	3	"."	0	"DCT,intron_variant,,ENST00000377028,NM_001922.3;DCT,intron_variant,,ENST00000446125,NM_001129889.1;AL139318.1,upstream_gene_variant,,ENST00000390768,;DCT,intron_variant,,ENST00000490854,;DCT,intron_variant,,ENST00000483392,;DCT,downstream_gene_variant,,ENST00000472871,;"	"T"	"ENSG00000080166"	"ENST00000446125"	"Transcript"	"intron_variant"	"-/2395"	"-/1659"	"-/552"	""	""	"rs571945753"	"1"	NA	-1	"DCT"	"HGNC"	2709	"protein_coding"	"YES"	"CCDS45060.1"	"ENSP00000392762"	"P40126"	"Q9NQD8,Q0PK43"	"UPI0000E13F02"	"NM_001129889.1"	NA	NA	""	"4/9"	""	"T:0.2492"	"T:0.1884"	"T:0.2565"	NA	"T:0.1677"	"T:0.3489"	"T:0.3078"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7cce7e58-280f-11e6-b631-12d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"3488"	"ABCC4"	10257	"mskcc.org"	"GRCh37"	"13"	95900172	95900173	"+"	"Intron"	"INS"	"-"	"-"	"CACACACACACACACA"	"rs145006616"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.75-181_75-166dupTGTGTGTGTGTGTGTG"	""	""	"ENST00000376887"	""	35	"."	4	18	"."	0	"ABCC4,intron_variant,,ENST00000376887,NM_005845.3;ABCC4,intron_variant,,ENST00000412704,;ABCC4,intron_variant,,ENST00000431522,NM_001105515.1;ABCC4,intron_variant,,ENST00000536256,;ABCC4,intron_variant,,ENST00000538287,;"	"CACACACACACACACA"	"ENSG00000125257"	"ENST00000376887"	"Transcript"	"intron_variant"	"-/5837"	"-/3978"	"-/1325"	""	""	"rs145006616"	"1"	NA	-1	"ABCC4"	"HGNC"	55	"protein_coding"	"YES"	"CCDS9474.1"	"ENSP00000366084"	"O15439"	"Q8IUA3"	"UPI00001A36E6"	"NM_005845.3"	NA	NA	""	"1/30"	""	"CACACACACACACACA:0.4679"	"CACACACACACACACA:0.6089"	"CACACACACACACACA:0.4078"	NA	"CACACACACACACACA:0.4395"	"CACACACACACACACA:0.4115"	"CACACACACACACACA:0.407"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"7ce6e0c4-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WXS"	FALSE
"3489"	"DZIP1"	22873	"mskcc.org"	"GRCh37"	"13"	96289859	96289868	"+"	"Intron"	"DEL"	"TCTCTCTCTC"	"-"	"-"	"rs67243247"	NA	"JHCCPT5"	"JHCCPN5"	"TCTCTCTCTC"	"TCTCTCTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.597+3681_597+3690delGAGAGAGAGA"	""	""	"ENST00000347108"	""	6	"."	5	1	"."	0	"DZIP1,intron_variant,,ENST00000347108,;DZIP1,intron_variant,,ENST00000361156,;DZIP1,intron_variant,,ENST00000361396,NM_014934.4;DZIP1,intron_variant,,ENST00000376829,NM_198968.3;DZIP1,intron_variant,,ENST00000466027,;DZIP1,intron_variant,,ENST00000466569,;"	"-"	"ENSG00000134874"	"ENST00000347108"	"Transcript"	"intron_variant"	"-/7068"	"-/2604"	"-/867"	""	""	"rs67243247"	"1"	NA	-1	"DZIP1"	"HGNC"	20908	"protein_coding"	"YES"	"CCDS9478.1"	"ENSP00000257312"	"Q86YF9"	"B3KSP1"	"UPI000000D9B8"	""	NA	NA	""	"3/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATCTCTCTCTCT"	"71329444-280f-11e6-b631-12d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3490"	"UBAC2"	337867	"mskcc.org"	"GRCh37"	"13"	99897066	99897067	"+"	"Intron"	"INS"	"-"	"-"	"ATTA"	"rs138817519"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.389+191_389+192insAATT"	""	""	"ENST00000403766"	""	31	"."	6	4	"."	0	"UBAC2,intron_variant,,ENST00000376440,NM_177967.3;UBAC2,intron_variant,,ENST00000403766,NM_001144072.1;UBAC2,intron_variant,,ENST00000355700,;UBAC2,downstream_gene_variant,,ENST00000457666,;UBAC2,intron_variant,,ENST00000494576,;UBAC2,intron_variant,,ENST00000468067,;UBAC2,intron_variant,,ENST00000473091,;"	"ATTA"	"ENSG00000134882"	"ENST00000403766"	"Transcript"	"intron_variant"	"-/1375"	"-/1035"	"-/344"	""	""	"rs138817519"	"1"	NA	1	"UBAC2"	"HGNC"	20486	"protein_coding"	"YES"	"CCDS45064.1"	"ENSP00000383911"	"Q8NBM4"	"B3KW74"	"UPI000003B0B4"	"NM_001144072.1"	NA	NA	""	"4/8"	""	"ATTA:0.4681"	"ATTA:0.289"	"ATTA:0.4971"	NA	"ATTA:0.506"	"ATTA:0.7177"	"ATTA:0.3937"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"7d5d25e0-280f-11e6-b631-12d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193548387096774	"WXS"	FALSE
"3491"	"PCCA"	5095	"mskcc.org"	"GRCh37"	"13"	100945188	100945189	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGT"	"rs141432911"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1066-8505_1066-8500dupGTGTGT"	""	""	"ENST00000376285"	""	30	"."	7	5	"."	0	"PCCA,intron_variant,,ENST00000376285,NM_000282.3;PCCA,intron_variant,,ENST00000376286,NM_001127692.2;PCCA,intron_variant,,ENST00000376279,NM_001178004.1;PCCA,upstream_gene_variant,,ENST00000424527,;"	"GTGTGT"	"ENSG00000175198"	"ENST00000376285"	"Transcript"	"intron_variant"	"-/2491"	"-/2187"	"-/728"	""	""	"rs141432911"	"1"	NA	1	"PCCA"	"HGNC"	8653	"protein_coding"	"YES"	"CCDS9496.2"	"ENSP00000365462"	"P05165"	""	"UPI0000070089"	"NM_000282.3"	NA	NA	""	"12/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"26"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"7d89f6a6-280f-11e6-b631-12d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WXS"	FALSE
"3492"	"PCCA"	5095	"mskcc.org"	"GRCh37"	"13"	100945188	100945189	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGTGTGTGTGT"	"rs141432911"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1066-8513_1066-8500dupGTGTGTGTGTGTGT"	""	""	"ENST00000376285"	""	30	"."	5	5	"."	0	"PCCA,intron_variant,,ENST00000376285,NM_000282.3;PCCA,intron_variant,,ENST00000376286,NM_001127692.2;PCCA,intron_variant,,ENST00000376279,NM_001178004.1;PCCA,upstream_gene_variant,,ENST00000424527,;"	"GTGTGTGTGTGTGT"	"ENSG00000175198"	"ENST00000376285"	"Transcript"	"intron_variant"	"-/2491"	"-/2187"	"-/728"	""	""	"rs141432911"	"1"	NA	1	"PCCA"	"HGNC"	8653	"protein_coding"	"YES"	"CCDS9496.2"	"ENSP00000365462"	"P05165"	""	"UPI0000070089"	"NM_000282.3"	NA	NA	""	"12/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"26"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"7d8bcc1a-280f-11e6-b631-12d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3493"	"PCCA"	5095	"mskcc.org"	"GRCh37"	"13"	101104432	101104434	"+"	"Intron"	"DEL"	"CTC"	"CTC"	"-"	"rs145131239"	NA	"JHCCPT5"	"JHCCPN5"	"CTC"	"CTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1899+2876_1899+2878delCTC"	""	""	"ENST00000376285"	""	14	"."	4	5	"."	0	"PCCA,intron_variant,,ENST00000376285,NM_000282.3;PCCA,intron_variant,,ENST00000376286,NM_001127692.2;PCCA,intron_variant,,ENST00000376279,NM_001178004.1;PCCA,intron_variant,,ENST00000458283,;PCCA,intron_variant,,ENST00000413170,;"	"-"	"ENSG00000175198"	"ENST00000376285"	"Transcript"	"intron_variant"	"-/2491"	"-/2187"	"-/728"	""	""	"rs145131239"	"1"	NA	1	"PCCA"	"HGNC"	8653	"protein_coding"	"YES"	"CCDS9496.2"	"ENSP00000365462"	"P05165"	""	"UPI0000070089"	"NM_000282.3"	NA	NA	""	"21/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTCTCC"	"726e3a5c-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3494"	"TMTC4"	84899	"mskcc.org"	"GRCh37"	"13"	101308837	101308837	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs11315434"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.553-115delG"	""	""	"ENST00000342624"	""	27	"."	3	11	"."	0	"TMTC4,intron_variant,,ENST00000342624,NM_032813.2;TMTC4,intron_variant,,ENST00000376234,NM_001079669.1;TMTC4,intron_variant,,ENST00000328767,NM_001286453.1;"	"-"	"ENSG00000125247"	"ENST00000342624"	"Transcript"	"intron_variant"	"-/3602"	"-/2283"	"-/760"	""	""	"rs11315434"	"1"	NA	-1	"TMTC4"	"HGNC"	25904	"protein_coding"	"YES"	"CCDS9497.2"	"ENSP00000343871"	"Q5T4D3"	"C9K0R2"	"UPI000004B63E"	"NM_032813.2"	NA	NA	""	"5/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"728cb1f8-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WXS"	FALSE
"3495"	"NALCN"	259232	"mskcc.org"	"GRCh37"	"13"	101760434	101760434	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35197278"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2365-294delA"	""	""	"ENST00000251127"	""	8	"."	3	1	"."	0	"NALCN,intron_variant,,ENST00000251127,NM_052867.2;"	"-"	"ENSG00000102452"	"ENST00000251127"	"Transcript"	"intron_variant"	"-/6816"	"-/5217"	"-/1738"	""	""	"rs35197278"	"1"	NA	-1	"NALCN"	"HGNC"	19082	"protein_coding"	"YES"	"CCDS9498.1"	"ENSP00000251127"	"Q8IZF0"	"B3KX53,B3KMK1"	"UPI000004EBBD"	"NM_052867.2"	NA	NA	""	"20/43"	""	"-:0.0913"	"-:0.0166"	"-:0.0937"	NA	"-:0.0208"	"-:0.166"	"-:0.1861"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTA"	"72b23d10-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3496"	"FGF14"	2259	"mskcc.org"	"GRCh37"	"13"	102763100	102763101	"+"	"Intron"	"INS"	"-"	"A"	"A"	"rs34488656"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.209-235455dupT"	""	""	"ENST00000376131"	""	6	"."	6	3	"."	0	"FGF14,intron_variant,,ENST00000376131,NM_175929.2;"	"A"	"ENSG00000102466"	"ENST00000376131"	"Transcript"	"intron_variant"	"-/3902"	"-/759"	"-/252"	""	""	"rs34488656"	"1"	NA	-1	"FGF14"	"HGNC"	3671	"protein_coding"	"YES"	"CCDS9500.1"	"ENSP00000365301"	"Q92915"	""	"UPI000000D898"	"NM_175929.2"	NA	NA	""	"1/4"	""	"A:0.2007"	"A:0.1225"	"A:0.2911"	NA	"A:0.0764"	"A:0.3598"	"A:0.2065"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"7dbcfe70-280f-11e6-b631-12d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"3497"	"FGF14"	2259	"mskcc.org"	"GRCh37"	"13"	102951925	102951925	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs66497864"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.208+101896delA"	""	""	"ENST00000376131"	""	6	"."	3	3	"."	0	"FGF14,intron_variant,,ENST00000376131,NM_175929.2;FGF14-IT1,intron_variant,,ENST00000607251,;FGF14-IT1,intron_variant,,ENST00000437115,;"	"-"	"ENSG00000102466"	"ENST00000376131"	"Transcript"	"intron_variant"	"-/3902"	"-/759"	"-/252"	""	""	"rs66497864"	"1"	NA	-1	"FGF14"	"HGNC"	3671	"protein_coding"	"YES"	"CCDS9500.1"	"ENSP00000365301"	"Q92915"	""	"UPI000000D898"	"NM_175929.2"	NA	NA	""	"1/4"	""	"-:0.1953"	"-:0.0998"	"-:0.1844"	NA	"-:0.381"	"-:0.167"	"-:0.1697"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AATT"	"72d46d18-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3498"	"TPP2"	7174	"mskcc.org"	"GRCh37"	"13"	103298334	103298336	"+"	"Intron"	"DEL"	"GTT"	"GTT"	"-"	"rs10559731"	NA	"JHCCPT5"	"JHCCPN5"	"GTT"	"GTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2394-308_2394-306delTGT"	""	""	"ENST00000376065"	""	19	"."	6	2	"."	0	"TPP2,intron_variant,,ENST00000376052,;TPP2,intron_variant,,ENST00000376065,NM_003291.2;TPP2,upstream_gene_variant,,ENST00000490420,;"	"-"	"ENSG00000134900"	"ENST00000376065"	"Transcript"	"intron_variant"	"-/3931"	"-/3750"	"-/1249"	""	""	"rs10559731"	"1"	NA	1	"TPP2"	"HGNC"	12016	"protein_coding"	"YES"	"CCDS9502.1"	"ENSP00000365233"	"P29144"	""	"UPI0000001C91"	"NM_003291.2"	NA	NA	""	"19/28"	""	"-:0.4734"	"-:0.6172"	"-:0.3804"	NA	"-:0.4474"	"-:0.4742"	"-:0.3712"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGTTG"	"7300ff04-280f-11e6-b631-12d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WXS"	FALSE
"3499"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	104409089	104409090	"+"	"IGR"	"INS"	"-"	"-"	"CAAGGGAAGCAGCTTCTGCTGAC"	"rs143641890"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"CAAGGGAAGCAGCTTCTGCTGAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143641890"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"7e006156-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3500"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	105423053	105423054	"+"	"IGR"	"INS"	"-"	"C"	"C"	"rs58010173"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	7	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs58010173"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0729"	"C:0.7791"	"C:0.9553"	NA	"C:0.9722"	"C:0.9901"	"C:0.9959"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7e05f7f6-280f-11e6-b631-12d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"3501"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	107091044	107091050	"+"	"IGR"	"DEL"	"GATGGAT"	"GATGGAT"	"-"	"rs142694145"	NA	"JHCCPT5"	"JHCCPN5"	"GATGGAT"	"GATGGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142694145"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGATGGATG"	"736af120-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3502"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	107091190	107091191	"+"	"IGR"	"INS"	"-"	"-"	"AGGG"	"rs113583234"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	3	4	"."	0	""	"AGGG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113583234"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0170"	"AGGG:0.9622"	"AGGG:0.9827"	NA	"AGGG:0.999"	"AGGG:0.992"	"AGGG:0.9857"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"7e0d1ca2-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"3503"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	107091417	107091418	"+"	"IGR"	"INS"	"-"	"-"	"GATGGATG"	"rs144504924"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	24	"."	4	5	"."	0	""	"GATGGATG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144504924"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4758"	"GATG:0.3888"	"GATG:0.4726"	NA	"GATG:0.4911"	"GATG:0.7028"	"GATG:0.5941"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"7e0f48ec-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3504"	"MYO16"	23026	"mskcc.org"	"GRCh37"	"13"	109765691	109765694	"+"	"Intron"	"DEL"	"GAAG"	"GAAG"	"-"	"rs111306174"	NA	"JHCCPT5"	"JHCCPN5"	"GAAG"	"GAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3373-7019_3373-7016delGAAG"	""	""	"ENST00000356711"	""	13	"."	3	6	"."	0	"MYO16,intron_variant,,ENST00000356711,NM_015011.1;MYO16,intron_variant,,ENST00000357550,NM_001198950.1;MYO16,intron_variant,,ENST00000457511,;"	"-"	"ENSG00000041515"	"ENST00000356711"	"Transcript"	"intron_variant"	"-/6874"	"-/5577"	"-/1858"	""	""	"rs111306174"	"1"	NA	1	"MYO16"	"HGNC"	29822	"protein_coding"	"YES"	"CCDS32008.1"	"ENSP00000349145"	"Q9Y6X6"	""	"UPI0000160FF2"	"NM_015011.1"	NA	NA	""	"28/34"	""	"GAAG:0.3486"	"-:0.6301"	"-:0.6744"	NA	"-:0.6825"	"-:0.6352"	"-:0.6483"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGAAGG"	"73bf9824-280f-11e6-b631-12d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"3505"	"COL4A1"	1282	"mskcc.org"	"GRCh37"	"13"	110861647	110861648	"+"	"Intron"	"INS"	"-"	"-"	"AC"	"rs35906431"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.651+91_651+92insGT"	""	""	"ENST00000375820"	""	47	"."	4	26	"."	0	"COL4A1,intron_variant,,ENST00000375820,NM_001845.4;COL4A1,intron_variant,,ENST00000543140,;"	"AC"	"ENSG00000187498"	"ENST00000375820"	"Transcript"	"intron_variant"	"-/6524"	"-/5010"	"-/1669"	""	""	"rs35906431"	"1"	NA	-1	"COL4A1"	"HGNC"	2202	"protein_coding"	"YES"	"CCDS9511.1"	"ENSP00000364979"	"P02462"	"A9LSU1"	"UPI00001FCA8A"	"NM_001845.4"	NA	NA	""	"11/51"	""	"AC:0.2141"	"AC:0.2579"	"AC:0.3617"	NA	"AC:0.0546"	"AC:0.2495"	"AC:0.1779"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"7e62a5e6-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WXS"	FALSE
"3506"	"CARKD"	55739	"mskcc.org"	"GRCh37"	"13"	111278602	111278602	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs11333011"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.386+978delC"	""	""	"ENST00000309957"	""	13	"."	8	4	"."	0	"CARKD,intron_variant,,ENST00000309957,NM_001242881.1,NM_018210.3;CARKD,intron_variant,,ENST00000458711,;CARKD,intron_variant,,ENST00000397191,;CARKD,intron_variant,,ENST00000424185,NM_001242883.1;CARKD,intron_variant,,ENST00000470164,;"	"-"	"ENSG00000213995"	"ENST00000309957"	"Transcript"	"intron_variant"	"-/2659"	"-/1173"	"-/390"	""	""	"rs11333011"	"1"	NA	1	"CARKD"	"HGNC"	25576	"protein_coding"	"YES"	"CCDS9513.1"	"ENSP00000311984"	"Q8IW45"	""	"UPI000013DD48"	"NM_001242881.1,NM_018210.3"	NA	NA	""	"4/9"	""	"-:0.1593"	"-:0.1445"	"-:0.2709"	NA	"-:0.1776"	"-:0.1074"	"-:0.135"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCC"	"74481910-280f-11e6-b631-12d4414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.615384615384615	"WXS"	FALSE
"3507"	"RP11-65D24.2"	0	"mskcc.org"	"GRCh37"	"13"	112319049	112319050	"+"	"Intron"	"INS"	"-"	"-"	"TGCATGTG"	"rs138815160"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.170-5694_170-5687dupGCATGTGT"	""	""	"ENST00000375713"	""	7	"."	4	1	"."	0	"RP11-65D24.2,intron_variant,,ENST00000375713,;"	"TGCATGTG"	"ENSG00000204398"	"ENST00000375713"	"Transcript"	"intron_variant"	"-/443"	"-/198"	"-/65"	""	""	"rs138815160"	"1"	NA	1	"RP11-65D24.2"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000364865"	""	"Q5T400"	"UPI000046FFA7"	""	NA	NA	""	"3/3"	""	"-:0.3255"	"TGCATGTG:0.5787"	"TGCATGTG:0.6816"	NA	"TGCATGTG:0.7063"	"TGCATGTG:0.7018"	"TGCATGTG:0.7382"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"7ee3907a-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3508"	"MCF2L"	23263	"mskcc.org"	"GRCh37"	"13"	113694726	113694727	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTGTGTGTGTGTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.279-4851_279-4834dupGTGTGTGTGTGTGTGTGT"	""	""	"ENST00000535094"	""	12	"."	4	4	"."	0	"MCF2L,intron_variant,,ENST00000397030,;MCF2L,intron_variant,,ENST00000375601,;MCF2L,intron_variant,,ENST00000375604,;MCF2L,intron_variant,,ENST00000535094,NM_001112732.2;MCF2L,intron_variant,,ENST00000375608,;MCF2L,intron_variant,,ENST00000423482,NM_024979.4;MCF2L,intron_variant,,ENST00000434480,;MCF2L,intron_variant,,ENST00000421756,;MCF2L,intron_variant,,ENST00000442652,;MCF2L,intron_variant,,ENST00000375597,;MCF2L,intron_variant,,ENST00000409954,;MCF2L,intron_variant,,ENST00000473345,;MCF2L,upstream_gene_variant,,ENST00000423251,;MCF2L,upstream_gene_variant,,ENST00000397021,;MCF2L,non_coding_transcript_exon_variant,,ENST00000480321,;MCF2L,upstream_gene_variant,,ENST00000494043,;MCF2L,upstream_gene_variant,,ENST00000469558,;"	"TGTGTGTGTGTGTGTGTG"	"ENSG00000126217"	"ENST00000535094"	"Transcript"	"intron_variant"	"-/3752"	"-/3378"	"-/1125"	""	""	""	"1"	NA	1	"MCF2L"	"HGNC"	14576	"protein_coding"	"YES"	"CCDS45070.2"	"ENSP00000440374"	"O15068"	"B7ZBR9,B7Z9K4"	"UPI0001CE935F"	"NM_001112732.2"	NA	NA	""	"3/29"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"25"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7f0aaa98-280f-11e6-b631-12d4414a729f"	"184"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3509"	"TMCO3"	55002	"mskcc.org"	"GRCh37"	"13"	114192204	114192207	"+"	"Intron"	"DEL"	"GTGT"	"GTGT"	"-"	"rs67552559"	NA	"JHCCPT5"	"JHCCPN5"	"GTGT"	"GTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1540-1461_1540-1458delTGTG"	""	""	"ENST00000434316"	""	6	"."	4	5	"."	0	"TMCO3,intron_variant,,ENST00000434316,NM_017905.4;TMCO3,intron_variant,,ENST00000375391,;TMCO3,intron_variant,,ENST00000465556,;TMCO3,downstream_gene_variant,,ENST00000474393,;"	"-"	"ENSG00000150403"	"ENST00000434316"	"Transcript"	"intron_variant"	"-/3050"	"-/2034"	"-/677"	""	""	"rs67552559"	"1"	NA	1	"TMCO3"	"HGNC"	20329	"protein_coding"	"YES"	"CCDS9537.1"	"ENSP00000389399"	"Q6UWJ1"	""	"UPI000004C642"	"NM_017905.4"	NA	NA	""	"9/12"	""	"-:0.1787"	"-:0.1475"	"-:0.3199"	NA	"-:0.123"	"-:0.1312"	"-:0.227"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGTGTG"	"74f39dda-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3510"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	114213833	114213834	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs35428083"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35428083"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4503"	"A:0.6589"	"A:0.4741"	NA	"A:0.3879"	"A:0.3101"	"A:0.3599"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7f5cdb10-280f-11e6-b631-12d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3511"	"CDC16"	8881	"mskcc.org"	"GRCh37"	"13"	115004528	115004575	"+"	"Intron"	"DEL"	"TTATTTGGTTGAATAAAATGAGTGTTATGCATCTCTTAAATATGTGTG"	"TTATTTGGTTGAATAAAATGAGTGTTATGCATCTCTTAAATATGTGTG"	"ATTTGGTTGAATAAAATGAGTGTTAT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTATTTGGTTGAATAAAATGAGTGTTATGCATCTCTTAAATATGTGTG"	"TTATTTGGTTGAATAAAATGAGTGTTATGCATCTCTTAAATATGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.240+25_240+72delTTATTTGGTTGAATAAAATGAGTGTTATGCATCTCTTAAATATGTGTGinsATTTGGTTGAATAAAATGAGTGTTAT"	""	""	"ENST00000360383"	""	81	"."	14	41	"."	0	"CDC16,intron_variant,,ENST00000360383,NM_001078645.1,NM_003903.3;CDC16,intron_variant,,ENST00000356221,;CDC16,intron_variant,,ENST00000375310,;CDC16,intron_variant,,ENST00000375312,;CDC16,intron_variant,,ENST00000252457,;CDC16,intron_variant,,ENST00000375308,;CDC16,intron_variant,,ENST00000252458,;CDC16,intron_variant,,ENST00000494766,;"	"ATTTGGTTGAATAAAATGAGTGTTAT"	"ENSG00000130177"	"ENST00000360383"	"Transcript"	"intron_variant"	"-/2211"	"-/1863"	"-/620"	""	""	""	"1"	NA	1	"CDC16"	"HGNC"	1720	"protein_coding"	"YES"	"CCDS9542.2"	"ENSP00000353549"	"Q13042"	"Q7Z651"	"UPI000006F728"	"NM_001078645.1,NM_003903.3"	NA	NA	""	"4/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTATTTGGTTGAATAAAATGAGTGTTATGCATCTCTTAAATATGTGTGA"	"75f2d78c-280f-11e6-b631-12d4414a729f"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172839506172839	"WXS"	FALSE
"3512"	"OR11K2P"	0	"mskcc.org"	"GRCh37"	"14"	20202685	20202685	"+"	"5'Flank"	"DEL"	"T"	"T"	"-"	"rs71108543"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000553311"	""	23	"."	11	7	"."	0	"OR4N2,intron_variant,,ENST00000557414,;OR11K2P,intron_variant,,ENST00000593630,;OR11K2P,upstream_gene_variant,,ENST00000553311,;"	"-"	"ENSG00000258438"	"ENST00000553311"	"Transcript"	"upstream_gene_variant"	"-/948"	""	""	""	""	"rs71108543"	"1"	"224"	-1	"OR11K2P"	"HGNC"	19635	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTT"	"64b94852-280f-11e6-9f4f-03d4414a729f"	"649"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.478260869565217	"WXS"	FALSE
"3513"	"NDRG2"	57447	"mskcc.org"	"GRCh37"	"14"	21482224	21482224	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"rs11337192"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000556147"	""	8	"."	3	1	"."	0	"NDRG2,downstream_gene_variant,,ENST00000556147,;NDRG2,downstream_gene_variant,,ENST00000555158,NM_001282214.1;NDRG2,downstream_gene_variant,,ENST00000553503,NM_001282213.1;NDRG2,downstream_gene_variant,,ENST00000554104,;NDRG2,downstream_gene_variant,,ENST00000350792,NM_016250.2;NDRG2,downstream_gene_variant,,ENST00000298687,NM_201535.1;NDRG2,downstream_gene_variant,,ENST00000397844,NM_001282212.1;NDRG2,downstream_gene_variant,,ENST00000397847,NM_001282215.1;NDRG2,downstream_gene_variant,,ENST00000397853,NM_201540.1;NDRG2,downstream_gene_variant,,ENST00000397858,NM_201537.1;NDRG2,downstream_gene_variant,,ENST00000360463,NM_201536.1;NDRG2,downstream_gene_variant,,ENST00000397851,NM_201539.1;NDRG2,downstream_gene_variant,,ENST00000554143,NM_201538.1,NM_201541.1,NM_001282216.1;NDRG2,downstream_gene_variant,,ENST00000397856,;NDRG2,downstream_gene_variant,,ENST00000397855,;NDRG2,downstream_gene_variant,,ENST00000298684,;NDRG2,downstream_gene_variant,,ENST00000403829,NM_001282211.1;NDRG2,downstream_gene_variant,,ENST00000555026,;NDRG2,downstream_gene_variant,,ENST00000556008,;NDRG2,downstream_gene_variant,,ENST00000556974,;NDRG2,downstream_gene_variant,,ENST00000553593,;NDRG2,downstream_gene_variant,,ENST00000556366,;NDRG2,downstream_gene_variant,,ENST00000557633,;NDRG2,downstream_gene_variant,,ENST00000554277,;NDRG2,downstream_gene_variant,,ENST00000556716,;NDRG2,downstream_gene_variant,,ENST00000557353,;NDRG2,downstream_gene_variant,,ENST00000555650,;NDRG2,downstream_gene_variant,,ENST00000553793,;NDRG2,downstream_gene_variant,,ENST00000557416,;"	"-"	"ENSG00000165795"	"ENST00000556147"	"Transcript"	"downstream_gene_variant"	"-/2880"	"-/1116"	"-/371"	""	""	"rs11337192"	"1"	"2708"	-1	"NDRG2"	"HGNC"	14460	"protein_coding"	"YES"	"CCDS9565.1"	"ENSP00000451712"	"Q9UN36"	"G3V5S0,G3V5P9,G3V5L7,G3V5B5,G3V578,G3V552,G3V4T9,G3V3P1,G3V3D5,G3V383,G3V358,G3V2T2,G3V2S0,G3V2I9"	"UPI000012FEDE"	""	NA	NA	""	""	""	"A:0.3303"	"-:0.8185"	"-:0.6254"	NA	"-:0.7351"	"-:0.5676"	"-:0.5378"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"655de57e-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3514"	"TOX4"	9878	"mskcc.org"	"GRCh37"	"14"	21960425	21960425	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs59860769"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.811-30delG"	""	""	"ENST00000405508"	""	73	"."	4	16	"."	0	"TOX4,intron_variant,,ENST00000405508,;TOX4,intron_variant,,ENST00000262709,NM_014828.2;TOX4,intron_variant,,ENST00000448790,;TOX4,downstream_gene_variant,,ENST00000416256,;TOX4,downstream_gene_variant,,ENST00000457430,;TOX4,downstream_gene_variant,,ENST00000494242,;TOX4,non_coding_transcript_exon_variant,,ENST00000463119,;TOX4,intron_variant,,ENST00000476180,;TOX4,intron_variant,,ENST00000455393,;TOX4,intron_variant,,ENST00000473176,;TOX4,downstream_gene_variant,,ENST00000447695,;TOX4,downstream_gene_variant,,ENST00000455138,;TOX4,downstream_gene_variant,,ENST00000487242,;"	"-"	"ENSG00000092203"	"ENST00000405508"	"Transcript"	"intron_variant"	"-/4697"	"-/1866"	"-/621"	""	""	"rs59860769"	"1"	NA	1	"TOX4"	"HGNC"	20161	"protein_coding"	"YES"	"CCDS32043.1"	"ENSP00000385102"	"O94842"	""	"UPI000006EA81"	""	NA	NA	""	"6/9"	""	"-:0.2478"	"-:0.2511"	"-:0.17"	NA	"-:0.2133"	"-:0.2803"	"-:0.3006"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.2175"	"0.2042"	"0.1136"	"0.1591"	"0.2103"	"0.242"	"0.2455"	"0.2454"	NA	"common_variant"	"TTGT"	"65b21be4-280f-11e6-9f4f-03d4414a729f"	"240"	0.2176	"21684/99668"	"22839/105020"	"1629/7978"	"1229/10822"	"1140/7166"	"1363/6480"	"12307/50856"	"163/664"	"3853/15702"	"InbreedingCoeff_Filter"	"FALSE"	0.0547945205479452	"WXS"	FALSE
"3515"	"TRAJ45"	0	"mskcc.org"	"GRCh37"	"14"	22965120	22965145	"+"	"3'Flank"	"DEL"	"CTGGCAATCTTAAGGATTAGGTCAAC"	"CTGGCAATCTTAAGGATTAGGTCAAC"	"TGGCAATCTTAAGGATTAGGTCAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CTGGCAATCTTAAGGATTAGGTCAAC"	"CTGGCAATCTTAAGGATTAGGTCAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390492"	""	81	"."	25	45	"."	0	"TRAJ45,downstream_gene_variant,,ENST00000390492,;TRAJ42,upstream_gene_variant,,ENST00000390495,;TRAJ46,downstream_gene_variant,,ENST00000390491,;TRAJ44,downstream_gene_variant,,ENST00000390493,;TRAJ41,upstream_gene_variant,,ENST00000390496,;TRAJ40,upstream_gene_variant,,ENST00000390497,;TRAJ47,downstream_gene_variant,,ENST00000390490,;TRAJ43,downstream_gene_variant,,ENST00000390494,;"	"TGGCAATCTTAAGGATTAGGTCAA"	"ENSG00000211844"	"ENST00000390492"	"Transcript"	"downstream_gene_variant"	"-/66"	"-/67"	"-/22"	""	""	""	"1"	"2144"	1	"TRAJ45"	"HGNC"	12076	"TR_J_gene"	"YES"	""	"ENSP00000451312"	""	""	"UPI00021CF137"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTGGCAATCTTAAGGATTAGGTCAACG"	"7bafee44-280f-11e6-9f4f-03d4414a729f"	"1500"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308641975308642	"WXS"	FALSE
"3516"	"TRAJ32"	0	"mskcc.org"	"GRCh37"	"14"	22975344	22975345	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs5807142"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390505"	""	14	"."	6	3	"."	0	"TRAJ32,upstream_gene_variant,,ENST00000390505,;TRAJ39,downstream_gene_variant,,ENST00000390498,;TRAJ37,downstream_gene_variant,,ENST00000390500,;TRAJ38,downstream_gene_variant,,ENST00000390499,;TRAJ36,downstream_gene_variant,,ENST00000390501,;TRAJ35,upstream_gene_variant,,ENST00000390502,;TRAJ34,upstream_gene_variant,,ENST00000390503,;TRAJ33,upstream_gene_variant,,ENST00000390504,;TRAJ31,upstream_gene_variant,,ENST00000390506,;"	"C"	"ENSG00000211857"	"ENST00000390505"	"Transcript"	"upstream_gene_variant"	"-/66"	"-/67"	"-/22"	""	""	"rs5807142"	"1"	"2980"	1	"TRAJ32"	"HGNC"	12062	"TR_J_gene"	"YES"	""	"ENSP00000451503"	""	""	"UPI00021CF142"	""	NA	NA	""	""	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7e24c5aa-280f-11e6-9f4f-03d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3517"	"TRAJ18"	0	"mskcc.org"	"GRCh37"	"14"	22998593	22998620	"+"	"3'Flank"	"DEL"	"GAACTGCTCTGATCTTTGGGAAGGGAAC"	"GAACTGCTCTGATCTTTGGGAAGGGAAC"	"AACTGCTCTGATCTTTGGGAAGGGAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GAACTGCTCTGATCTTTGGGAAGGGAAC"	"GAACTGCTCTGATCTTTGGGAAGGGAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390519"	""	103	"."	49	53	"."	0	"TRAJ18,downstream_gene_variant,,ENST00000390519,;TRAJ10,upstream_gene_variant,,ENST00000390527,;TRAJ17,downstream_gene_variant,,ENST00000390520,;TRAJ13,upstream_gene_variant,,ENST00000390524,;TRAJ19,downstream_gene_variant,,ENST00000390518,;TRAJ16,downstream_gene_variant,,ENST00000390521,;TRAJ12,upstream_gene_variant,,ENST00000390525,;TRAJ11,upstream_gene_variant,,ENST00000390526,;TRAJ14,upstream_gene_variant,,ENST00000390523,;TRAJ15,non_coding_transcript_exon_variant,,ENST00000390522,;"	"AACTGCTCTGATCTTTGGGAAGGGAA"	"ENSG00000211871"	"ENST00000390519"	"Transcript"	"downstream_gene_variant"	"-/66"	"-/67"	"-/22"	""	""	""	"1"	"3908"	1	"TRAJ18"	"HGNC"	12046	"TR_J_gene"	"YES"	""	"ENSP00000451639"	""	""	"UPI00021CF14F"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGAACTGCTCTGATCTTTGGGAAGGGAACC"	"7bcd732e-280f-11e6-9f4f-03d4414a729f"	"2940"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.475728155339806	"WXS"	FALSE
"3518"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	23110535	23110536	"+"	"IGR"	"DEL"	"AA"	"AA"	"-"	"rs201148431"	NA	"JHCCPT5"	"JHCCPN5"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201148431"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAA"	"66de4e52-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3519"	"SLC7A7"	9056	"mskcc.org"	"GRCh37"	"14"	23244301	23244302	"+"	"Intron"	"INS"	"-"	"-"	"AC"	"rs140215401"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1095+350_1095+351dupGT"	""	""	"ENST00000397532"	""	13	"."	5	8	"."	0	"SLC7A7,intron_variant,,ENST00000397532,;SLC7A7,intron_variant,,ENST00000555702,NM_001126106.2;SLC7A7,intron_variant,,ENST00000285850,;SLC7A7,intron_variant,,ENST00000397528,NM_001126105.2;SLC7A7,intron_variant,,ENST00000397529,;SLC7A7,intron_variant,,ENST00000554517,;SLC7A7,intron_variant,,ENST00000556350,;OXA1L,downstream_gene_variant,,ENST00000358043,;OXA1L,downstream_gene_variant,,ENST00000285848,NM_005015.3;OXA1L,downstream_gene_variant,,ENST00000604262,;OXA1L,downstream_gene_variant,,ENST00000412791,;OXA1L,downstream_gene_variant,,ENST00000431881,;SLC7A7,intron_variant,,ENST00000554061,;SLC7A7,intron_variant,,ENST00000556287,;SLC7A7,intron_variant,,ENST00000555678,;OXA1L,downstream_gene_variant,,ENST00000495424,;OXA1L,downstream_gene_variant,,ENST00000481218,;OXA1L,downstream_gene_variant,,ENST00000473744,;OXA1L,downstream_gene_variant,,ENST00000442110,;"	"AC"	"ENSG00000155465"	"ENST00000397532"	"Transcript"	"intron_variant"	"-/2447"	"-/1536"	"-/511"	""	""	"rs140215401"	"1"	NA	-1	"SLC7A7"	"HGNC"	11065	"protein_coding"	"YES"	"CCDS9574.1"	"ENSP00000380666"	"Q9UM01"	"G3V5W2,G3V5A1,G3V4Z6,G3V4U1,G3V362,G3V2L0,G3V2H8,G3V273,D6RFE5"	"UPI000000CC04"	""	NA	NA	""	"7/9"	""	"-:0.2057"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"7f27bf48-280f-11e6-9f4f-03d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"3520"	"SLC7A7"	9056	"mskcc.org"	"GRCh37"	"14"	23282908	23282909	"+"	"Intron"	"INS"	"-"	"-"	"GCAA"	"rs10644590"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-42-263_-42-260dupTTGC"	""	""	"ENST00000397532"	""	17	"."	3	6	"."	0	"SLC7A7,intron_variant,,ENST00000397532,;SLC7A7,intron_variant,,ENST00000555702,NM_001126106.2;SLC7A7,intron_variant,,ENST00000285850,;SLC7A7,intron_variant,,ENST00000397528,NM_001126105.2;SLC7A7,intron_variant,,ENST00000397529,;SLC7A7,intron_variant,,ENST00000554517,;SLC7A7,intron_variant,,ENST00000488800,;SLC7A7,intron_variant,,ENST00000554741,;SLC7A7,intron_variant,,ENST00000554758,;SLC7A7,intron_variant,,ENST00000555911,;SLC7A7,intron_variant,,ENST00000557129,;SLC7A7,intron_variant,,ENST00000557629,;SLC7A7,intron_variant,,ENST00000555251,;SLC7A7,intron_variant,,ENST00000555959,;AL135998.1,downstream_gene_variant,,ENST00000399979,;SLC7A7,intron_variant,,ENST00000553351,;SLC7A7,intron_variant,,ENST00000553874,;SLC7A7,downstream_gene_variant,,ENST00000553632,;SLC7A7,intron_variant,,ENST00000556287,;"	"GCAA"	"ENSG00000155465"	"ENST00000397532"	"Transcript"	"intron_variant"	"-/2447"	"-/1536"	"-/511"	""	""	"rs10644590"	"1"	NA	-1	"SLC7A7"	"HGNC"	11065	"protein_coding"	"YES"	"CCDS9574.1"	"ENSP00000380666"	"Q9UM01"	"G3V5W2,G3V5A1,G3V4Z6,G3V4U1,G3V362,G3V2L0,G3V2H8,G3V273,D6RFE5"	"UPI000000CC04"	""	NA	NA	""	"1/9"	""	"-:0.3956"	"GCAA:0.4917"	"GCAA:0.7075"	NA	"GCAA:0.7837"	"GCAA:0.5964"	"GCAA:0.5072"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"7f2c137c-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"3521"	"SLC7A8"	23428	"mskcc.org"	"GRCh37"	"14"	23616287	23616288	"+"	"Intron"	"INS"	"-"	"-"	"ATCCATCCATCCATCC"	"rs151285462"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.509-3890_509-3875dupGGATGGATGGATGGAT"	""	""	"ENST00000316902"	""	8	"."	4	1	"."	0	"SLC7A8,intron_variant,,ENST00000316902,NM_012244.3;SLC7A8,intron_variant,,ENST00000469263,;SLC7A8,intron_variant,,ENST00000529705,NM_001267036.1;SLC7A8,intron_variant,,ENST00000453702,NM_182728.2;SLC7A8,intron_variant,,ENST00000422941,NM_001267037.1;SLC7A8,upstream_gene_variant,,ENST00000532568,;SLC7A8,intron_variant,,ENST00000339733,;SLC7A8,intron_variant,,ENST00000528860,;"	"ATCCATCCATCCATCC"	"ENSG00000092068"	"ENST00000316902"	"Transcript"	"intron_variant"	"-/4216"	"-/1608"	"-/535"	""	""	"rs151285462"	"1"	NA	-1	"SLC7A8"	"HGNC"	11066	"protein_coding"	"YES"	"CCDS9590.1"	"ENSP00000320378"	"Q9UHI5"	"E9PQT4,E9PIC3,B3KSX4"	"UPI000012E235"	"NM_012244.3"	NA	NA	""	"3/10"	""	"ATCCATCCATCCATCC:0.4762"	"ATCCATCCATCCATCC:0.3366"	"ATCCATCCATCCATCC:0.5576"	NA	"ATCCATCCATCCATCC:0.5298"	"ATCCATCCATCCATCC:0.5467"	"ATCCATCCATCCATCC:0.4796"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"7fbc0f22-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3522"	"RP11-104E19.1"	0	"mskcc.org"	"GRCh37"	"14"	25122612	25122623	"+"	"Intron"	"DEL"	"AAGCAAGCAAGC"	"AAGCAAGCAAGC"	"-"	"rs201919263"	NA	"JHCCPT5"	"JHCCPN5"	"AAGCAAGCAAGC"	"AAGCAAGCAAGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.178-1206_178-1195delCAAGCAAGCAAG"	""	""	"ENST00000555300"	""	13	"."	4	2	"."	0	"RP11-104E19.1,intron_variant,,ENST00000555300,;"	"-"	"ENSG00000258657"	"ENST00000555300"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/488"	""	""	""	""	"rs201919263"	"1"	NA	1	"RP11-104E19.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"35"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAGCAAGCAAGCA"	"6959bdec-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3523"	"RP11-966I7.1"	0	"mskcc.org"	"GRCh37"	"14"	29218164	29218165	"+"	"Intron"	"INS"	"-"	"-"	"TGTTGTTGTTGCTGTTGT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.278+13373_278+13374insACAACAGCAACAACAACA"	""	""	"ENST00000551395"	""	9	"."	3	1	"."	0	"RP11-966I7.1,intron_variant,,ENST00000551395,;RP11-966I7.1,intron_variant,,ENST00000546560,;RP11-966I7.1,intron_variant,,ENST00000549487,;"	"TGTTGTTGTTGCTGTTGT"	"ENSG00000257126"	"ENST00000551395"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/602"	""	""	""	""	""	"1"	NA	-1	"RP11-966I7.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"80806f66-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3524"	"NUBPL"	80224	"mskcc.org"	"GRCh37"	"14"	32160278	32160279	"+"	"Intron"	"INS"	"-"	"CAGA"	"CAGA"	"rs4011644"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.513+17499_513+17502dupCAGA"	""	""	"ENST00000281081"	""	7	"."	5	1	"."	0	"NUBPL,intron_variant,,ENST00000281081,NM_025152.2,NM_001201574.1,NM_001201573.1;NUBPL,intron_variant,,ENST00000536705,;NUBPL,intron_variant,,ENST00000551314,;NUBPL,intron_variant,,ENST00000550649,;RNU6-455P,upstream_gene_variant,,ENST00000384681,;NUBPL,intron_variant,,ENST00000548937,;NUBPL,intron_variant,,ENST00000547839,;NUBPL,intron_variant,,ENST00000549838,;"	"CAGA"	"ENSG00000151413"	"ENST00000281081"	"Transcript"	"intron_variant"	"-/3049"	"-/960"	"-/319"	""	""	"rs4011644"	"1"	NA	1	"NUBPL"	"HGNC"	20278	"protein_coding"	"YES"	"CCDS41940.1"	"ENSP00000281081"	"Q8TB37"	"F8W061,B3KSK2"	"UPI00003669AB"	"NM_025152.2,NM_001201574.1,NM_001201573.1"	NA	NA	""	"6/10"	""	"-:0.0050"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"8099c8d0-280f-11e6-9f4f-03d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3525"	"EAPP"	55837	"mskcc.org"	"GRCh37"	"14"	34993859	34993860	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTGTGTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.581+43_581+44insCACACACACACA"	""	""	"ENST00000250454"	""	64	"."	6	24	"."	0	"EAPP,intron_variant,,ENST00000250454,NM_018453.3;EAPP,intron_variant,,ENST00000554792,;EAPP,downstream_gene_variant,,ENST00000555705,;"	"TGTGTGTGTGTG"	"ENSG00000129518"	"ENST00000250454"	"Transcript"	"intron_variant"	"-/1321"	"-/858"	"-/285"	""	""	""	"1"	NA	-1	"EAPP"	"HGNC"	19312	"protein_coding"	"YES"	"CCDS41941.1"	"ENSP00000250454"	"Q56P03"	""	"UPI000013CCBB"	"NM_018453.3"	NA	NA	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"80ceb6bc-280f-11e6-9f4f-03d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WXS"	FALSE
"3526"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	41415673	41415674	"+"	"IGR"	"INS"	"-"	"-"	"ATAGATAGATAGATAGATACATAGATAGATAGATAG"	"rs140335609"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	1	"."	0	""	"ATAGATAGATAGATAGATACATAGATAGATAGATAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140335609"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"81424532-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3527"	"LINC00871"	100506412	"mskcc.org"	"GRCh37"	"14"	46950642	46950643	"+"	"Intron"	"INS"	"-"	"-"	"AGAG"	"rs111373876"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.350-19862_350-19859dupGAGA"	""	""	"ENST00000556886"	""	6	"."	4	2	"."	0	"LINC00871,intron_variant,,ENST00000556886,;LINC00871,intron_variant,,ENST00000556071,;LINC00871,intron_variant,,ENST00000556869,;"	"AGAG"	"ENSG00000258700"	"ENST00000556886"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/866"	""	""	""	""	"rs111373876"	"1"	NA	1	"LINC00871"	"HGNC"	47038	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"5/5"	""	"-:0.0016"	"AGAG:0.9947"	"AGAG:1"	NA	"AGAG:1"	"AGAG:1"	"AGAG:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"815b6076-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3528"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	48161096	48161099	"+"	"IGR"	"DEL"	"TCTC"	"TCTC"	"-"	"rs551879383"	NA	"JHCCPT5"	"JHCCPN5"	"TCTC"	"TCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs551879383"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0270"	"-:0.0091"	"-:0.0159"	NA	"-:0"	"-:0.0507"	"-:0.0624"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCTCT"	"6bd12b46-280f-11e6-9f4f-03d4414a729f"	"237"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"3529"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	48161315	48161316	"+"	"IGR"	"INS"	"-"	"-"	"CTTTCTTTTTCTTTCTTCCTTC"	"rs530644932"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	24	"."	6	3	"."	0	""	"CTTTCTTTTTCTTTCTTCCTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs530644932"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CTTTCTTTTTCTTTCTTCCTTC:0.4255"	"CTTTCTTTTTCTTTCTTCCTTC:0.7239"	"CTTTCTTTTTCTTTCTTCCTTC:0.3559"	NA	"CTTTCTTTTTCTTTCTTCCTTC:0.0982"	"CTTTCTTTTTCTTTCTTCCTTC:0.5875"	"CTTTCTTTTTCTTTCTTCCTTC:0.2423"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"81675dd6-280f-11e6-9f4f-03d4414a729f"	"305"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3530"	"SOS2"	6655	"mskcc.org"	"GRCh37"	"14"	50640907	50640910	"+"	"Intron"	"DEL"	"TATA"	"TATA"	"-"	"rs67592782"	NA	"JHCCPT5"	"JHCCPN5"	"TATA"	"TATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1068+262_1068+265delTATA"	""	""	"ENST00000216373"	""	10	"."	6	1	"."	0	"SOS2,intron_variant,,ENST00000216373,NM_006939.2;SOS2,intron_variant,,ENST00000543680,;SOS2,intron_variant,,ENST00000555794,;"	"-"	"ENSG00000100485"	"ENST00000216373"	"Transcript"	"intron_variant"	"-/5489"	"-/3999"	"-/1332"	""	""	"rs67592782"	"1"	NA	-1	"SOS2"	"HGNC"	11188	"protein_coding"	"YES"	"CCDS9697.1"	"ENSP00000216373"	"Q07890"	"B4DJ05"	"UPI000013C6E8"	"NM_006939.2"	NA	NA	""	"8/22"	""	"TATA:0.4834"	"-:0.4024"	"-:0.647"	NA	"-:0.4137"	"-:0.673"	"-:0.5235"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTATAT"	"6c623096-280f-11e6-9f4f-03d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"3531"	"MAP4K5"	11183	"mskcc.org"	"GRCh37"	"14"	50930610	50930630	"+"	"Intron"	"DEL"	"AAAAAAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAAAAAA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAAAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.819+140_819+160delTTTTTTTTTTTTTTTTTTTTT"	""	""	"ENST00000013125"	""	66	"."	7	9	"."	0	"MAP4K5,intron_variant,,ENST00000013125,NM_198794.2,NM_006575.4;Y_RNA,downstream_gene_variant,,ENST00000364703,;MAP4K5,downstream_gene_variant,,ENST00000557578,;MAP4K5,intron_variant,,ENST00000557210,;MAP4K5,downstream_gene_variant,,ENST00000554091,;"	"-"	"ENSG00000012983"	"ENST00000013125"	"Transcript"	"intron_variant"	"-/4354"	"-/2541"	"-/846"	""	""	""	"1"	NA	-1	"MAP4K5"	"HGNC"	6867	"protein_coding"	"YES"	""	"ENSP00000013125"	"Q9Y4K4"	"G3V5C6,G3V4T8,G3V3V7"	"UPI00015DFDAA"	"NM_198794.2,NM_006575.4"	NA	NA	""	"12/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAAAAAAAAAAAAAAAAAAAAAA"	"6c9e3cd0-280f-11e6-9f4f-03d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106060606060606	"WXS"	FALSE
"3532"	"DDHD1"	80821	"mskcc.org"	"GRCh37"	"14"	53569380	53569381	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs10532921"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1012+1020_1012+1021delCT"	""	""	"ENST00000323669"	""	20	"."	7	2	"."	0	"DDHD1,intron_variant,,ENST00000357758,NM_030637.2;DDHD1,intron_variant,,ENST00000395606,NM_001160147.1;DDHD1,intron_variant,,ENST00000323669,NM_001160148.1;DDHD1,intron_variant,,ENST00000556910,;DDHD1,downstream_gene_variant,,ENST00000557445,;"	"-"	"ENSG00000100523"	"ENST00000323669"	"Transcript"	"intron_variant"	"-/5503"	"-/2703"	"-/900"	""	""	"rs10532921"	"1"	NA	-1	"DDHD1"	"HGNC"	19714	"protein_coding"	"YES"	"CCDS53895.1"	"ENSP00000327104"	"Q8NEL9"	"G3V2P6"	"UPI00001D7B55"	"NM_001160148.1"	NA	NA	""	"2/12"	""	"AG:0.2458"	"-:0.382"	"-:0.8501"	NA	"-:0.9702"	"-:0.838"	"-:0.8804"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAAGA"	"6d869282-280f-11e6-9f4f-03d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WXS"	FALSE
"3533"	"ENSR00001457394"	0	"mskcc.org"	"GRCh37"	"14"	54811088	54811094	"+"	"IGR"	"DEL"	"ACAACAC"	"ACAACAC"	"-"	"rs146435569"	NA	"JHCCPT5"	"JHCCPN5"	"ACAACAC"	"ACAACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001457394"	""	6	"."	4	5	"."	0	""	"-"	""	"ENSR00001457394"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs146435569"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAACAACACA"	"6d93f38c-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3534"	"WDHD1"	11169	"mskcc.org"	"GRCh37"	"14"	55433058	55433059	"+"	"Intron"	"INS"	"-"	"-"	"AAC"	"rs143022988"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2310+132_2310+134dupGTT"	""	""	"ENST00000360586"	""	20	"."	5	2	"."	0	"WDHD1,intron_variant,,ENST00000360586,NM_007086.3;WDHD1,intron_variant,,ENST00000420358,NM_001008396.2;WDHD1,intron_variant,,ENST00000421192,;WDHD1,intron_variant,,ENST00000359167,;WDHD1,intron_variant,,ENST00000567693,;"	"AAC"	"ENSG00000198554"	"ENST00000360586"	"Transcript"	"intron_variant"	"-/5996"	"-/3390"	"-/1129"	""	""	"rs143022988"	"1"	NA	-1	"WDHD1"	"HGNC"	23170	"protein_coding"	"YES"	"CCDS9721.1"	"ENSP00000353793"	"O75717"	"C9JYB3,C9JW18"	"UPI0000125AC6"	"NM_007086.3"	NA	NA	""	"18/25"	""	"AAC:0.3656"	"AAC:0.6725"	"AAC:0.3458"	NA	"AAC:0.1468"	"AAC:0.338"	"AAC:0.2188"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"82313ea8-280f-11e6-9f4f-03d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3535"	"ATG14"	22863	"mskcc.org"	"GRCh37"	"14"	55839430	55839433	"+"	"Intron"	"DEL"	"TCCT"	"TCCT"	"-"	"rs141683602"	NA	"JHCCPT5"	"JHCCPN5"	"TCCT"	"TCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1173-2790_1173-2787delAGGA"	""	""	"ENST00000247178"	""	7	"."	3	8	"."	0	"ATG14,intron_variant,,ENST00000247178,NM_014924.4;ATG14,intron_variant,,ENST00000558189,;"	"-"	"ENSG00000126775"	"ENST00000247178"	"Transcript"	"intron_variant"	"-/4742"	"-/1479"	"-/492"	""	""	"rs141683602"	"1"	NA	-1	"ATG14"	"HGNC"	19962	"protein_coding"	"YES"	"CCDS32087.1"	"ENSP00000247178"	"Q6ZNE5"	""	"UPI00001FD5B2"	"NM_014924.4"	NA	NA	""	"9/9"	""	"-:0.0457"	"-:0.0008"	"-:0.0793"	NA	"-:0.006"	"-:0.0805"	"-:0.0879"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTCCTT"	"6e2f20f0-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3536"	"TMEM260"	54916	"mskcc.org"	"GRCh37"	"14"	57084208	57084209	"+"	"Intron"	"INS"	"-"	"-"	"TTAA"	"rs3068785"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1056+194_1056+197dupTTAA"	""	""	"ENST00000261556"	""	34	"."	22	5	"."	1	"TMEM260,intron_variant,,ENST00000261556,NM_017799.3;TMEM260,intron_variant,,ENST00000536419,;TMEM260,intron_variant,,ENST00000538838,;TMEM260,intron_variant,,ENST00000553335,;TMEM260,intron_variant,,ENST00000556422,;TMEM260,intron_variant,,ENST00000539559,;TMEM260,intron_variant,,ENST00000555497,;TMEM260,intron_variant,,ENST00000556648,;TMEM260,intron_variant,,ENST00000555905,;TMEM260,intron_variant,,ENST00000556929,;TMEM260,downstream_gene_variant,,ENST00000557657,;TMEM260,downstream_gene_variant,,ENST00000557626,;"	"TTAA"	"ENSG00000070269"	"ENST00000261556"	"Transcript"	"intron_variant"	"-/4264"	"-/2124"	"-/707"	""	""	"rs3068785"	"1"	NA	1	"TMEM260"	"HGNC"	20185	"protein_coding"	"YES"	"CCDS9727.2"	"ENSP00000261556"	"Q9NX78"	"G3V4Y3,B3KN73"	"UPI00001FD5D2"	"NM_017799.3"	NA	NA	""	"9/15"	""	"-:0.3580"	"TTAA:0.8434"	"TTAA:0.4496"	NA	"TTAA:0.5417"	"TTAA:0.5726"	"TTAA:0.681"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"826d488a-280f-11e6-9f4f-03d4414a729f"	"1380"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.647058823529412	"WXS"	FALSE
"3537"	"NAA30"	122830	"mskcc.org"	"GRCh37"	"14"	57863128	57863129	"+"	"Intron"	"INS"	"-"	"-"	"TAGG"	"rs79466034"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.772-340_772-337dupAGGT"	""	""	"ENST00000556492"	""	12	"."	4	2	"."	0	"NAA30,intron_variant,,ENST00000556492,NM_001011713.2;NAA30,intron_variant,,ENST00000298406,;NAA30,intron_variant,,ENST00000555166,;NAA30,intron_variant,,ENST00000554703,;"	"TAGG"	"ENSG00000139977"	"ENST00000556492"	"Transcript"	"intron_variant"	"-/7644"	"-/1089"	"-/362"	""	""	"rs79466034"	"1"	NA	1	"NAA30"	"HGNC"	19844	"protein_coding"	"YES"	"CCDS32088.1"	"ENSP00000452521"	"Q147X3"	"B4DK34"	"UPI0000161013"	"NM_001011713.2"	NA	NA	""	"2/4"	""	"-:0.3149"	"TAGG:0.1634"	"TAGG:0.8818"	NA	"TAGG:0.8452"	"TAGG:0.9006"	"TAGG:0.864"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"827b58d0-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3538"	"SLC35F4"	341880	"mskcc.org"	"GRCh37"	"14"	58239102	58239102	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs5808942"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103+93339delA"	""	""	"ENST00000556826"	""	17	"."	7	2	"."	0	"SLC35F4,intron_variant,,ENST00000556826,NM_001206920.1;SLC35F4,intron_variant,,ENST00000557430,;SLC35F4,intron_variant,,ENST00000556568,;"	"-"	"ENSG00000151812"	"ENST00000556826"	"Transcript"	"intron_variant"	"-/1908"	"-/1458"	"-/485"	""	""	"rs5808942"	"1"	NA	-1	"SLC35F4"	"HGNC"	19845	"protein_coding"	""	""	"ENSP00000452086"	""	"G3V4Z9"	"UPI000045678B"	"NM_001206920.1"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"6e7d4bfe-280f-11e6-9f4f-03d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411764705882353	"WXS"	FALSE
"3539"	"RP11-517O13.3"	0	"mskcc.org"	"GRCh37"	"14"	58854492	58854493	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs71107940"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.341+7526dupC"	""	""	"ENST00000556390"	""	7	"."	6	1	"."	0	"RP11-517O13.3,intron_variant,,ENST00000556390,;"	"G"	"ENSG00000258658"	"ENST00000556390"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/399"	""	""	""	""	"rs71107940"	"1"	NA	-1	"RP11-517O13.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.0473"	"G:0.8283"	"G:0.9856"	NA	"G:1"	"G:1"	"G:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"82930840-280f-11e6-9f4f-03d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"3540"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	59633150	59633151	"+"	"IGR"	"INS"	"-"	"-"	"AGAAAGAA"	"rs140691289"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	3	2	"."	0	""	"AGAAAGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140691289"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3003"	"AGAAAGAA:0.8306"	"AGAAAGAA:0.6729"	NA	"AGAAAGAA:0.62"	"AGAAAGAA:0.663"	"AGAAAGAA:0.6616"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"829f7eea-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"3541"	"CCDC175"	729665	"mskcc.org"	"GRCh37"	"14"	59972169	59972169	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs5809033"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2306-136delC"	""	""	"ENST00000537690"	""	34	"."	22	7	"."	1	"CCDC175,intron_variant,,ENST00000537690,NM_001164399.1;CCDC175,downstream_gene_variant,,ENST00000281581,;JKAMP,downstream_gene_variant,,ENST00000554271,NM_001284201.1;JKAMP,downstream_gene_variant,,ENST00000261247,NM_001098625.1,NM_016475.3,NM_001284203.1;JKAMP,downstream_gene_variant,,ENST00000425728,;JKAMP,downstream_gene_variant,,ENST00000356057,NM_001284202.1;JKAMP,downstream_gene_variant,,ENST00000554795,;RP11-701B16.2,intron_variant,,ENST00000554253,;CCDC175,intron_variant,,ENST00000553317,;JKAMP,downstream_gene_variant,,ENST00000602482,;JKAMP,downstream_gene_variant,,ENST00000554721,;JKAMP,downstream_gene_variant,,ENST00000553941,;JKAMP,downstream_gene_variant,,ENST00000555491,;JKAMP,downstream_gene_variant,,ENST00000553647,;"	"-"	"ENSG00000151838"	"ENST00000537690"	"Transcript"	"intron_variant"	"-/2616"	"-/2382"	"-/793"	""	""	"rs5809033"	"1"	NA	-1	"CCDC175"	"HGNC"	19847	"protein_coding"	"YES"	"CCDS53898.1"	"ENSP00000453940"	""	""	"UPI000059D254"	"NM_001164399.1"	NA	NA	""	"19/19"	""	"G:0.0411"	"-:0.8487"	"-:0.9942"	NA	"-:1"	"-:0.998"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGG"	"6eecf940-280f-11e6-9f4f-03d4414a729f"	"1380"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.647058823529412	"WXS"	FALSE
"3542"	"CCDC175"	729665	"mskcc.org"	"GRCh37"	"14"	60007131	60007131	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs149905004"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1355+262delC"	""	""	"ENST00000537690"	""	8	"."	3	3	"."	0	"CCDC175,intron_variant,,ENST00000537690,NM_001164399.1;CCDC175,intron_variant,,ENST00000281581,;CCDC175,downstream_gene_variant,,ENST00000556936,;"	"-"	"ENSG00000151838"	"ENST00000537690"	"Transcript"	"intron_variant"	"-/2616"	"-/2382"	"-/793"	""	""	"rs149905004"	"1"	NA	-1	"CCDC175"	"HGNC"	19847	"protein_coding"	"YES"	"CCDS53898.1"	"ENSP00000453940"	""	""	"UPI000059D254"	"NM_001164399.1"	NA	NA	""	"11/19"	""	"-:0.0178"	"-:0.0023"	"-:0.0144"	NA	"-:0.005"	"-:0.0527"	"-:0.0184"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"6ef53740-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3543"	"PPM1A"	5494	"mskcc.org"	"GRCh37"	"14"	60752196	60752197	"+"	"Intron"	"INS"	"-"	"-"	"TGCG"	"rs10653822"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1054-142_1054-139dupGTGC"	""	""	"ENST00000325642"	""	18	"."	6	4	"."	0	"PPM1A,intron_variant,,ENST00000395076,NM_021003.4;PPM1A,intron_variant,,ENST00000325658,NM_177951.2;PPM1A,intron_variant,,ENST00000325642,NM_177952.2;PPM1A,intron_variant,,ENST00000529574,;PPM1A,downstream_gene_variant,,ENST00000525399,;PPM1A,downstream_gene_variant,,ENST00000531937,;PPM1A,downstream_gene_variant,,ENST00000528241,;PPM1A,intron_variant,,ENST00000532036,;PPM1A,intron_variant,,ENST00000531143,;"	"TGCG"	"ENSG00000100614"	"ENST00000325642"	"Transcript"	"intron_variant"	"-/1713"	"-/1368"	"-/455"	""	""	"rs10653822"	"1"	NA	1	"PPM1A"	"HGNC"	9275	"protein_coding"	"YES"	"CCDS45120.1"	"ENSP00000327255"	"P35813"	"E9PL75,E9PKB5,E9PJN3"	"UPI0000E01530"	"NM_177952.2"	NA	NA	""	"2/5"	""	"TGCG:0.4966"	"TGCG:0.9372"	"TGCG:0.3228"	NA	"TGCG:0.1984"	"TGCG:0.332"	"TGCG:0.501"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"82b2d8b4-280f-11e6-9f4f-03d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3544"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	61616781	61616782	"+"	"IGR"	"INS"	"-"	"-"	"TC"	"rs549079231"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	3	"."	0	""	"TC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs549079231"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"82c5de78-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3545"	"RAD51B"	5890	"mskcc.org"	"GRCh37"	"14"	68769209	68769210	"+"	"Intron"	"INS"	"-"	"-"	"CCAGGCAGGGTGTAGAG"	"rs138361575"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.853+10522_853+10523insTGTAGAGCCAGGCAGGG"	""	""	"ENST00000487270"	""	8	"."	4	1	"."	0	"RAD51B,intron_variant,,ENST00000487270,NM_133509.3;RAD51B,intron_variant,,ENST00000487861,NM_002877.5;RAD51B,intron_variant,,ENST00000488612,;RAD51B,intron_variant,,ENST00000471583,NM_133510.3;RAD51B,intron_variant,,ENST00000390683,;RAD51B,intron_variant,,ENST00000469165,;RAD51B,intron_variant,,ENST00000468382,;RAD51B,intron_variant,,ENST00000553595,;RAD51B,intron_variant,,ENST00000460526,;RAD51B,intron_variant,,ENST00000554244,;RAD51B,intron_variant,,ENST00000478014,;RAD51B,intron_variant,,ENST00000497460,;RAD51B,intron_variant,,ENST00000557045,;RAD51B,intron_variant,,ENST00000492236,;RAD51B,intron_variant,,ENST00000479335,;"	"CCAGGCAGGGTGTAGAG"	"ENSG00000182185"	"ENST00000487270"	"Transcript"	"intron_variant"	"-/2596"	"-/1155"	"-/384"	""	""	"rs138361575"	"1"	NA	1	"RAD51B"	"HGNC"	9822	"protein_coding"	"YES"	"CCDS9789.1"	"ENSP00000419471"	"O15315"	"G3V4W9,C9J5S9"	"UPI0000073AB0"	"NM_133509.3"	NA	NA	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"835120f0-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	TRUE
"3546"	"RAD51B"	5890	"mskcc.org"	"GRCh37"	"14"	68886531	68886532	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs143915506"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.957+8290dupG"	""	""	"ENST00000487270"	""	9	"."	6	1	"."	0	"RAD51B,intron_variant,,ENST00000487270,NM_133509.3;RAD51B,intron_variant,,ENST00000487861,NM_002877.5;RAD51B,intron_variant,,ENST00000488612,;RAD51B,intron_variant,,ENST00000471583,NM_133510.3;RAD51B,intron_variant,,ENST00000390683,;RAD51B,intron_variant,,ENST00000554575,;RAD51B,intron_variant,,ENST00000469165,;RAD51B,intron_variant,,ENST00000468382,;RAD51B,intron_variant,,ENST00000553595,;RAD51B,intron_variant,,ENST00000460526,;RAD51B,intron_variant,,ENST00000554244,;RAD51B,intron_variant,,ENST00000478014,;RAD51B,intron_variant,,ENST00000554183,;RAD51B,intron_variant,,ENST00000497460,;RAD51B,intron_variant,,ENST00000557045,;RAD51B,intron_variant,,ENST00000479335,;PPIAP6,downstream_gene_variant,,ENST00000557078,;"	"G"	"ENSG00000182185"	"ENST00000487270"	"Transcript"	"intron_variant"	"-/2596"	"-/1155"	"-/384"	""	""	"rs143915506"	"1"	NA	1	"RAD51B"	"HGNC"	9822	"protein_coding"	"YES"	"CCDS9789.1"	"ENSP00000419471"	"O15315"	"G3V4W9,C9J5S9"	"UPI0000073AB0"	"NM_133509.3"	NA	NA	""	"9/10"	""	"G:0.0966"	"G:0.0242"	"G:0.1326"	NA	"G:0.0337"	"G:0.2326"	"G:0.0941"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"8351d5f4-280f-11e6-9f4f-03d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	TRUE
"3547"	"RNU6-921P"	0	"mskcc.org"	"GRCh37"	"14"	69203475	69203475	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"rs59744851"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384361"	""	10	"."	5	2	"."	0	"RNU6-921P,upstream_gene_variant,,ENST00000384361,;"	"-"	"ENSG00000207089"	"ENST00000384361"	"Transcript"	"upstream_gene_variant"	"-/107"	""	""	""	""	"rs59744851"	"1"	"730"	-1	"RNU6-921P"	"HGNC"	47884	"snRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1919"	"-:0.0794"	"-:0.1715"	NA	"-:0.4425"	"-:0.2038"	"-:0.0879"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGG"	"711584b2-280f-11e6-9f4f-03d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3548"	"ACTN1"	87	"mskcc.org"	"GRCh37"	"14"	69347181	69347182	"+"	"Intron"	"INS"	"-"	"-"	"ACAC"	"rs150904596"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2133+342_2133+345dupGTGT"	""	""	"ENST00000394419"	""	20	"."	4	19	"."	0	"ACTN1,intron_variant,,ENST00000193403,NM_001102.3;ACTN1,intron_variant,,ENST00000394419,NM_001130004.1;ACTN1,intron_variant,,ENST00000438964,NM_001130005.1;ACTN1,intron_variant,,ENST00000376839,;ACTN1,intron_variant,,ENST00000538545,;ACTN1,intron_variant,,ENST00000544964,;ACTN1,intron_variant,,ENST00000555075,;ACTN1,intron_variant,,ENST00000553290,;ACTN1,downstream_gene_variant,,ENST00000556343,;ACTN1,intron_variant,,ENST00000556083,;ACTN1,intron_variant,,ENST00000556432,;ACTN1,upstream_gene_variant,,ENST00000553882,;"	"ACAC"	"ENSG00000072110"	"ENST00000394419"	"Transcript"	"intron_variant"	"-/3464"	"-/2745"	"-/914"	""	""	"rs150904596"	"1"	NA	-1	"ACTN1"	"HGNC"	163	"protein_coding"	"YES"	"CCDS45130.1"	"ENSP00000377941"	"P12814"	"Q5ZEZ4,G3V2X9,G3V2W4,G3V2E8"	"UPI0000D79B2C"	"NM_001130004.1"	NA	NA	""	"17/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"835c10a0-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"3549"	"TTC9"	23508	"mskcc.org"	"GRCh37"	"14"	71137381	71137382	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11389513"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.590-403dupA"	""	""	"ENST00000256367"	""	10	"."	3	4	"."	0	"TTC9,intron_variant,,ENST00000256367,NM_015351.1;"	"A"	"ENSG00000133985"	"ENST00000256367"	"Transcript"	"intron_variant"	"-/5217"	"-/669"	"-/222"	""	""	"rs11389513"	"1"	NA	1	"TTC9"	"HGNC"	20267	"protein_coding"	"YES"	"CCDS45132.1"	"ENSP00000256367"	"Q92623"	""	"UPI00001C1F60"	"NM_015351.1"	NA	NA	""	"2/2"	""	"A:0.2528"	"A:0.4244"	"A:0.1801"	NA	"A:0.0615"	"A:0.2913"	"A:0.2301"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"837379c0-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3550"	"MAP3K9"	4293	"mskcc.org"	"GRCh37"	"14"	71245741	71245741	"+"	"Intron"	"DEL"	"A"	"-"	"-"	"rs36027985"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.821-17842delT"	""	""	"ENST00000555993"	""	7	"."	6	2	"."	0	"MAP3K9,intron_variant,,ENST00000554752,NM_001284230.1;MAP3K9,intron_variant,,ENST00000555993,NM_033141.2;MAP3K9,intron_variant,,ENST00000381250,;MAP3K9,intron_variant,,ENST00000553414,NM_001284232.1;MAP3K9,intron_variant,,ENST00000554146,;"	"-"	"ENSG00000006432"	"ENST00000555993"	"Transcript"	"intron_variant"	"-/4449"	"-/3357"	"-/1118"	""	""	"rs36027985"	"1"	NA	-1	"MAP3K9"	"HGNC"	6861	"protein_coding"	"YES"	"CCDS32112.1"	"ENSP00000451263"	"P80192"	"Q8NEB1,B4DSG3,B4DGF4,B3KRI5"	"UPI00001D7B5C"	"NM_033141.2"	NA	NA	""	"2/12"	""	"A:0.4627"	"-:0.5318"	"-:0.4914"	NA	"-:0.4563"	"-:0.5378"	"-:0.6605"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"71b77f42-280f-11e6-9f4f-03d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"3551"	"RP1-261D10.2"	0	"mskcc.org"	"GRCh37"	"14"	71784941	71784942	"+"	"Intron"	"INS"	"-"	"-"	"CCTT"	"rs111655508"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.141+3446_141+3449dupAAGG"	""	""	"ENST00000555771"	""	7	"."	4	2	"."	0	"SIPA1L1,upstream_gene_variant,,ENST00000557151,;RP1-261D10.2,intron_variant,,ENST00000555771,;SIPA1L1,upstream_gene_variant,,ENST00000556408,;SIPA1L1,upstream_gene_variant,,ENST00000556780,;SIPA1L1,upstream_gene_variant,,ENST00000554126,;SIPA1L1,upstream_gene_variant,,ENST00000555989,;SIPA1L1,upstream_gene_variant,,ENST00000554362,;SIPA1L1,upstream_gene_variant,,ENST00000553453,;SIPA1L1,upstream_gene_variant,,ENST00000555652,;"	"CCTT"	"ENSG00000259146"	"ENST00000555771"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/513"	""	""	""	""	"rs111655508"	"1"	NA	-1	"RP1-261D10.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"-:0.3860"	"CCTT:0.829"	"CCTT:0.5447"	NA	"CCTT:0.4911"	"CCTT:0.5706"	"CCTT:0.544"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"838777c2-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3552"	"SIPA1L1"	26037	"mskcc.org"	"GRCh37"	"14"	72138619	72138624	"+"	"Intron"	"DEL"	"TGTGTG"	"TGTGTG"	"-"	"rs373843991"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTG"	"TGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2829+246_2829+251delTGTGTG"	""	""	"ENST00000555818"	""	15	"."	3	12	"."	0	"SIPA1L1,intron_variant,,ENST00000555818,NM_015556.1,NM_001284247.1;SIPA1L1,intron_variant,,ENST00000358550,NM_001284246.1;SIPA1L1,intron_variant,,ENST00000381232,NM_001284245.1;SIPA1L1,intron_variant,,ENST00000537413,;"	"-"	"ENSG00000197555"	"ENST00000555818"	"Transcript"	"intron_variant"	"-/7831"	"-/5415"	"-/1804"	""	""	"rs373843991"	"1"	NA	1	"SIPA1L1"	"HGNC"	20284	"protein_coding"	"YES"	"CCDS9807.1"	"ENSP00000450832"	"O43166"	"G3V4Z3"	"UPI00000443CB"	"NM_015556.1,NM_001284247.1"	NA	NA	""	"8/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"36"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGTGTGT"	"71e5ec06-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"3553"	"RGS6"	9628	"mskcc.org"	"GRCh37"	"14"	72661407	72661408	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs146085533"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.85-157389dupA"	""	""	"ENST00000553525"	""	17	"."	4	2	"."	0	"RGS6,intron_variant,,ENST00000553530,NM_004296.5,NM_001204422.1,NM_001204421.1,NM_001204418.1,NM_001204417.1,NM_001204420.1;RGS6,intron_variant,,ENST00000553525,NM_001204424.1;RGS6,intron_variant,,ENST00000555571,;RGS6,intron_variant,,ENST00000556437,NM_001204416.1;RGS6,intron_variant,,ENST00000355512,;RGS6,intron_variant,,ENST00000404301,;RGS6,intron_variant,,ENST00000407322,;RGS6,intron_variant,,ENST00000406236,;RGS6,intron_variant,,ENST00000402788,NM_001204423.1;RGS6,intron_variant,,ENST00000343854,NM_001204419.1;RGS6,intron_variant,,ENST00000554474,;"	"A"	"ENSG00000182732"	"ENST00000553525"	"Transcript"	"intron_variant"	"-/2005"	"-/1473"	"-/490"	""	""	"rs146085533"	"1"	NA	1	"RGS6"	"HGNC"	10002	"protein_coding"	"YES"	"CCDS55924.1"	"ENSP00000451030"	"P49758"	"Q59FJ8"	"UPI00001698D0"	"NM_001204424.1"	NA	NA	""	"2/17"	""	"A:0.1747"	"A:0.1362"	"A:0.2392"	NA	"A:0.1369"	"A:0.1571"	"A:0.2382"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"838baee6-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"3554"	"DPF3"	8110	"mskcc.org"	"GRCh37"	"14"	73226216	73226217	"+"	"Intron"	"INS"	"-"	"-"	"AG"	"rs141367138"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.194-6139_194-6138dupCT"	""	""	"ENST00000541685"	""	15	"."	4	5	"."	0	"DPF3,intron_variant,,ENST00000541685,NM_012074.4;DPF3,intron_variant,,ENST00000546183,NM_001280543.1;DPF3,intron_variant,,ENST00000556509,NM_001280542.1;DPF3,intron_variant,,ENST00000366353,NM_001280544.1;DPF3,intron_variant,,ENST00000381216,;"	"AG"	"ENSG00000205683"	"ENST00000541685"	"Transcript"	"intron_variant"	"-/2271"	"-/1074"	"-/357"	""	""	"rs141367138"	"1"	NA	-1	"DPF3"	"HGNC"	17427	"protein_coding"	"YES"	"CCDS45133.1"	"ENSP00000441640"	"Q92784"	""	"UPI0000246CC0"	"NM_012074.4"	NA	NA	""	"2/8"	""	"AG:0.2520"	"AG:0.1104"	"AG:0.3343"	NA	"AG:0.3095"	"AG:0.341"	"AG:0.2342"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"83a21942-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"3555"	"DPF3"	8110	"mskcc.org"	"GRCh37"	"14"	73292399	73292408	"+"	"Intron"	"DEL"	"GCCCAGCCCA"	"GCCCAGCCCA"	"-"	"rs71961480"	NA	"JHCCPT5"	"JHCCPN5"	"GCCCAGCCCA"	"GCCCAGCCCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.33-53807_33-53798delTGGGCTGGGC"	""	""	"ENST00000541685"	""	24	"."	10	7	"."	0	"DPF3,intron_variant,,ENST00000541685,NM_012074.4;DPF3,intron_variant,,ENST00000546183,NM_001280543.1;DPF3,intron_variant,,ENST00000556509,NM_001280542.1;DPF3,intron_variant,,ENST00000556902,;DPF3,intron_variant,,ENST00000555469,;DPF3,intron_variant,,ENST00000366353,NM_001280544.1;DPF3,intron_variant,,ENST00000381216,;"	"-"	"ENSG00000205683"	"ENST00000541685"	"Transcript"	"intron_variant"	"-/2271"	"-/1074"	"-/357"	""	""	"rs71961480"	"1"	NA	-1	"DPF3"	"HGNC"	17427	"protein_coding"	"YES"	"CCDS45133.1"	"ENSP00000441640"	"Q92784"	""	"UPI0000246CC0"	"NM_012074.4"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGCCCAGCCCAG"	"72371acc-280f-11e6-9f4f-03d4414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"3556"	"PAPLN"	89932	"mskcc.org"	"GRCh37"	"14"	73719120	73719121	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11375642"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.887-236dupG"	""	""	"ENST00000340738"	""	23	"."	14	7	"."	0	"PAPLN,intron_variant,,ENST00000427855,;PAPLN,intron_variant,,ENST00000340738,NM_173462.3;PAPLN,intron_variant,,ENST00000381166,;PAPLN,intron_variant,,ENST00000555445,;PAPLN,intron_variant,,ENST00000554301,;PAPLN,intron_variant,,ENST00000216658,;PAPLN,intron_variant,,ENST00000555123,;PAPLN,downstream_gene_variant,,ENST00000555035,;"	"G"	"ENSG00000100767"	"ENST00000340738"	"Transcript"	"intron_variant"	"-/5834"	"-/3756"	"-/1251"	""	""	"rs11375642"	"1"	NA	1	"PAPLN"	"HGNC"	19262	"protein_coding"	"YES"	"CCDS32114.1"	"ENSP00000345395"	"O95428"	"B3KXI1"	"UPI0000D6242C"	"NM_173462.3"	NA	NA	""	"9/25"	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"83ce3bf8-280f-11e6-9f4f-03d4414a729f"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.608695652173913	"WXS"	FALSE
"3557"	"HEATR4"	399671	"mskcc.org"	"GRCh37"	"14"	73973509	73973513	"+"	"Intron"	"DEL"	"TTTTT"	"TTTTT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTT"	"TTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1882-238_1882-234delAAAAA"	""	""	"ENST00000553558"	""	49	"."	4	12	"."	0	"HEATR4,intron_variant,,ENST00000553558,NM_001220484.1;HEATR4,intron_variant,,ENST00000334988,NM_203309.2;HEATR4,intron_variant,,ENST00000560393,;"	"-"	"ENSG00000187105"	"ENST00000553558"	"Transcript"	"intron_variant"	"-/3523"	"-/3081"	"-/1026"	""	""	""	"1"	NA	-1	"HEATR4"	"HGNC"	16761	"protein_coding"	"YES"	"CCDS9815.2"	"ENSP00000450444"	"Q86WZ0"	"H3BSP2,G3V5L2,G3V3Q5"	"UPI00001FD7FD"	"NM_001220484.1"	NA	NA	""	"9/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTTTTT"	"729aa07e-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WXS"	FALSE
"3558"	"RP3-414A15.10"	0	"mskcc.org"	"GRCh37"	"14"	74098164	74098165	"+"	"Intron"	"INS"	"-"	"-"	"TGT"	"rs76037381"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.118+2198_118+2200dupACA"	""	""	"ENST00000555011"	""	9	"."	5	2	"."	0	"RP3-414A15.10,intron_variant,,ENST00000555011,;RP3-414A15.10,intron_variant,,ENST00000555500,;NDUFB8P1,upstream_gene_variant,,ENST00000557330,;"	"TGT"	"ENSG00000258603"	"ENST00000555011"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/621"	""	""	""	""	"rs76037381"	"1"	NA	-1	"RP3-414A15.10"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"TGT:0.1404"	"TGT:0.1059"	"TGT:0.2709"	NA	"TGT:0.003"	"TGT:0.2952"	"TGT:0.0767"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"83e287ca-280f-11e6-9f4f-03d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3559"	"PTGR2"	145482	"mskcc.org"	"GRCh37"	"14"	74347122	74347122	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs112355112"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.851+249delA"	""	""	"ENST00000555661"	""	14	"."	4	4	"."	0	"PTGR2,intron_variant,,ENST00000555661,;PTGR2,intron_variant,,ENST00000267568,NM_152444.2;PTGR2,intron_variant,,ENST00000555228,NM_001146155.1,NM_001146154.1;PTGR2,intron_variant,,ENST00000553813,;PTGR2,intron_variant,,ENST00000556219,;RP5-1021I20.4,intron_variant,,ENST00000556551,;"	"-"	"ENSG00000140043"	"ENST00000555661"	"Transcript"	"intron_variant"	"-/3851"	"-/1056"	"-/351"	""	""	"rs112355112"	"1"	NA	1	"PTGR2"	"HGNC"	20149	"protein_coding"	"YES"	"CCDS9820.1"	"ENSP00000452280"	"Q8N8N7"	"G3V2R9"	"UPI000004EC24"	""	NA	NA	""	"7/9"	""	"A:0.4958"	"-:0.4009"	"-:0.4827"	NA	"-:0.5079"	"-:0.5119"	"-:0.6472"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"72ae15dc-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3560"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	75866790	75866790	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs34695694"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34695694"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3758"	"-:0.6944"	"-:0.2939"	NA	"-:0.1171"	"-:0.4145"	"-:0.2301"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATT"	"736e6f26-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3561"	"TTLL5"	23093	"mskcc.org"	"GRCh37"	"14"	76258909	76258910	"+"	"Intron"	"INS"	"-"	"-"	"AAAT"	"rs113816354"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2987-348_2987-347insATAA"	""	""	"ENST00000298832"	""	9	"."	4	1	"."	0	"TTLL5,intron_variant,,ENST00000298832,NM_015072.4;TTLL5,intron_variant,,ENST00000557636,;TTLL5,intron_variant,,ENST00000556893,;TTLL5,intron_variant,,ENST00000554510,;TTLL5,upstream_gene_variant,,ENST00000555018,;"	"AAAT"	"ENSG00000119685"	"ENST00000298832"	"Transcript"	"intron_variant"	"-/4683"	"-/3846"	"-/1281"	""	""	"rs113816354"	"1"	NA	1	"TTLL5"	"HGNC"	19963	"protein_coding"	"YES"	"CCDS32124.1"	"ENSP00000298832"	"Q6EMB2"	"Q2TAY9,O95419"	"UPI00003FF22B"	"NM_015072.4"	NA	NA	""	"26/31"	""	"-:0.1629"	"AAAT:0.9054"	"AAAT:0.9424"	NA	"AAAT:0.6012"	"AAAT:0.9105"	"AAAT:0.8374"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"8420bfa4-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3562"	"RP11-187O7.3"	0	"mskcc.org"	"GRCh37"	"14"	77171141	77171141	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs56790916"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.194+21721delA"	""	""	"ENST00000554926"	""	6	"."	3	3	"."	0	"RP11-187O7.3,intron_variant,,ENST00000554926,;"	"-"	"ENSG00000259124"	"ENST00000554926"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/632"	""	""	""	""	"rs56790916"	"1"	NA	-1	"RP11-187O7.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"T:0.0142"	"-:0.9493"	"-:0.9942"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTT"	"73cf91c0-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3563"	"RP11-488C13.4"	0	"mskcc.org"	"GRCh37"	"14"	77385334	77385335	"+"	"3'Flank"	"INS"	"-"	"GGGAGGC"	"GGGAGGC"	"rs140559454"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000553991"	""	6	"."	5	4	"."	0	"RP11-488C13.4,downstream_gene_variant,,ENST00000553991,;"	"GGGAGGC"	"ENSG00000259058"	"ENST00000553991"	"Transcript"	"downstream_gene_variant"	"-/756"	""	""	""	""	"rs140559454"	"1"	"2848"	-1	"RP11-488C13.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"GGGAGGC:0.0429"	"GGGAGGC:0.0598"	"GGGAGGC:0.0173"	NA	"GGGAGGC:0.0734"	"GGGAGGC:0.0288"	"GGGAGGC:0.0215"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"843c08e0-280f-11e6-9f4f-03d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3564"	"ISM2"	145501	"mskcc.org"	"GRCh37"	"14"	77949268	77949268	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs5809836"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.628-258delC"	""	""	"ENST00000342219"	""	14	"."	8	5	"."	0	"ISM2,intron_variant,,ENST00000393684,;ISM2,intron_variant,,ENST00000342219,NM_199296.2;ISM2,intron_variant,,ENST00000412904,;ISM2,intron_variant,,ENST00000429906,;ISM2,intron_variant,,ENST00000493585,NM_182509.3;ISM2,intron_variant,,ENST00000554801,;ISM2,intron_variant,,ENST00000216481,;ISM2,intron_variant,,ENST00000471734,;ISM2,downstream_gene_variant,,ENST00000472744,;ISM2,upstream_gene_variant,,ENST00000487738,;ISM2,downstream_gene_variant,,ENST00000480979,;"	"-"	"ENSG00000100593"	"ENST00000342219"	"Transcript"	"intron_variant"	"-/2971"	"-/1716"	"-/571"	""	""	"rs5809836"	"1"	NA	-1	"ISM2"	"HGNC"	23176	"protein_coding"	"YES"	"CCDS9864.1"	"ENSP00000341490"	"Q6H9L7"	"G3XAI3"	"UPI000019950C"	"NM_199296.2"	NA	NA	""	"3/6"	""	"G:0.4199"	"-:0.1498"	"-:0.6326"	NA	"-:0.9534"	"-:0.6143"	"-:0.7045"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"740f82d0-280f-11e6-9f4f-03d4414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3565"	"TSHR"	7253	"mskcc.org"	"GRCh37"	"14"	81499900	81499901	"+"	"Intron"	"INS"	"-"	"-"	"GTT"	"rs142598924"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.171-28591_171-28589dupGTT"	""	""	"ENST00000298171"	""	28	"."	3	5	"."	0	"TSHR,intron_variant,,ENST00000541158,;TSHR,intron_variant,,ENST00000298171,NM_000369.2;TSHR,intron_variant,,ENST00000342443,NM_001142626.2,NM_001018036.2;TSHR,intron_variant,,ENST00000554263,;TSHR,intron_variant,,ENST00000554435,;TSHR,intron_variant,,ENST00000553763,;TSHR,intron_variant,,ENST00000555326,;NMNAT1P1,downstream_gene_variant,,ENST00000554095,;"	"GTT"	"ENSG00000165409"	"ENST00000298171"	"Transcript"	"intron_variant"	"-/4400"	"-/2295"	"-/764"	""	""	"rs142598924"	"1"	NA	1	"TSHR"	"HGNC"	12373	"protein_coding"	""	"CCDS9872.1"	"ENSP00000298171"	""	"Q0VAP8,F5GYU5"	"UPI000013E4A2"	"NM_000369.2"	NA	NA	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"84b7fbf8-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WXS"	TRUE
"3566"	"SEL1L"	6400	"mskcc.org"	"GRCh37"	"14"	81993782	81993783	"+"	"Intron"	"INS"	"-"	"-"	"ACACACAC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.108+255_108+262dupGTGTGTGT"	""	""	"ENST00000336735"	""	32	"."	5	16	"."	0	"SEL1L,intron_variant,,ENST00000336735,NM_005065.5;SEL1L,intron_variant,,ENST00000555824,NM_001244984.1;SEL1L,intron_variant,,ENST00000557372,;"	"ACACACAC"	"ENSG00000071537"	"ENST00000336735"	"Transcript"	"intron_variant"	"-/7925"	"-/2385"	"-/794"	""	""	""	"1"	NA	-1	"SEL1L"	"HGNC"	10717	"protein_coding"	"YES"	"CCDS9876.1"	"ENSP00000337053"	"Q9UBV2"	""	"UPI0000135746"	"NM_005065.5"	NA	NA	""	"2/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"84e2754a-280f-11e6-9f4f-03d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WXS"	FALSE
"3567"	"RP11-666E17.1"	0	"mskcc.org"	"GRCh37"	"14"	82349568	82349569	"+"	"Intron"	"INS"	"-"	"-"	"TGTT"	"rs10644809"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.315+55327_315+55330dupTTGT"	""	""	"ENST00000554814"	""	6	"."	3	1	"."	0	"RP11-666E17.1,intron_variant,,ENST00000554814,;"	"TGTT"	"ENSG00000259035"	"ENST00000554814"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/559"	""	""	""	""	"rs10644809"	"1"	NA	1	"RP11-666E17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	"-:0.4679"	"TGTT:0.7738"	"TGTT:0.5159"	NA	"TGTT:0.3601"	"TGTT:0.4821"	"TGTT:0.4458"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"84e40bda-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3568"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	88135076	88135091	"+"	"IGR"	"DEL"	"CGCACACACACACACA"	"CGCACACACACACACA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CGCACACACACACACA"	"CGCACACACACACACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCGCACACACACACACAC"	"74bf7aaa-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3569"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	88836305	88836306	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs71126979"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	2	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71126979"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.4892"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8516f928-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3570"	"PTPN21"	11099	"mskcc.org"	"GRCh37"	"14"	88974132	88974133	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs34965888"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.448+134_448+135delAT"	""	""	"ENST00000556564"	""	11	"."	4	2	"."	0	"PTPN21,intron_variant,,ENST00000556564,NM_007039.3;PTPN21,intron_variant,,ENST00000328736,;PTPN21,intron_variant,,ENST00000555243,;RP11-507K2.2,intron_variant,,ENST00000555444,;PTPN21,intron_variant,,ENST00000554628,;PTPN21,downstream_gene_variant,,ENST00000554178,;PTPN21,intron_variant,,ENST00000554270,;PTPN21,intron_variant,,ENST00000536337,;"	"-"	"ENSG00000070778"	"ENST00000556564"	"Transcript"	"intron_variant"	"-/6166"	"-/3525"	"-/1174"	""	""	"rs34965888"	"1"	NA	-1	"PTPN21"	"HGNC"	9651	"protein_coding"	"YES"	"CCDS9884.1"	"ENSP00000452414"	"Q16825"	"Q8WX29,G3V3S6"	"UPI000013D15F"	"NM_007039.3"	NA	NA	""	"4/18"	""	"-:0.3746"	"-:0.5234"	"-:0.2579"	NA	"-:0.3889"	"-:0.2674"	"-:0.3517"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGATA"	"74ea423a-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3571"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	91328690	91328690	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs35688812"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	3	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35688812"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.3672"	"-:0.7428"	"-:0.5605"	NA	"-:0.6567"	"-:0.5437"	"-:0.6022"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTT"	"7566a5b4-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"3572"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	91328800	91328805	"+"	"IGR"	"DEL"	"CTTCTT"	"CTTCTT"	"-"	"rs200183961"	NA	"JHCCPT5"	"JHCCPN5"	"CTTCTT"	"CTTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	5	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200183961"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2867"	"-:0.2844"	"-:0.3588"	NA	"-:0.2718"	"-:0.2803"	"-:0.2607"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTCTTC"	"756e5020-280f-11e6-9f4f-03d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"3573"	"CATSPERB"	79820	"mskcc.org"	"GRCh37"	"14"	92068990	92068991	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs201581764"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2709+5647dupT"	""	""	"ENST00000256343"	""	21	"."	4	3	"."	0	"CATSPERB,intron_variant,,ENST00000256343,NM_024764.2;CATSPERB,intron_variant,,ENST00000557036,;NANOGP7,downstream_gene_variant,,ENST00000554450,;RP11-248B24.4,downstream_gene_variant,,ENST00000594073,;"	"A"	"ENSG00000133962"	"ENST00000256343"	"Transcript"	"intron_variant"	"-/3623"	"-/3351"	"-/1116"	""	""	"rs201581764"	"1"	NA	-1	"CATSPERB"	"HGNC"	20500	"protein_coding"	"YES"	"CCDS32142.1"	"ENSP00000256343"	"Q9H7T0"	"G3V584,G3V352"	"UPI0000418DA1"	"NM_024764.2"	NA	NA	""	"22/26"	""	"A:0.0919"	"A:0.1112"	"A:0.1081"	NA	"A:0"	"A:0.167"	"A:0.0716"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"8565d67e-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"3574"	"BTBD7"	55727	"mskcc.org"	"GRCh37"	"14"	93799515	93799515	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"rs3215680"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000334746"	""	8	"."	4	5	"."	0	"BTBD7,upstream_gene_variant,,ENST00000334746,NM_001002860.2;UNC79,upstream_gene_variant,,ENST00000256339,NM_020818.3;BTBD7,upstream_gene_variant,,ENST00000554565,;BTBD7,upstream_gene_variant,,ENST00000298896,NM_018167.3;BTBD7,upstream_gene_variant,,ENST00000554968,;"	"-"	"ENSG00000011114"	"ENST00000334746"	"Transcript"	"upstream_gene_variant"	"-/8430"	"-/3399"	"-/1132"	""	""	"rs3215680"	"1"	"148"	-1	"BTBD7"	"HGNC"	18269	"protein_coding"	"YES"	"CCDS32146.1"	"ENSP00000335615"	"Q9P203"	"G3V2J4"	"UPI00001FDA78"	"NM_001002860.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"76926586-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3575"	"UNC79"	57578	"mskcc.org"	"GRCh37"	"14"	93830940	93837902	"+"	"Intron"	"DEL"	"GGATAATCGTCAGTGGGATTGTTAAGGGAACTATACTTAGCTATTTAGCATGTCAAACCCTCTCCCATCTCAGTTTGTGGCACTGGCTTAAAAAAATAACTTTATTGAGATATAATTTACATATCATTCAATTCACTAGCATTGGCTTATTGACTAATGTTGTAAATGTGGATACTGGGGCCTAAAGGTCCTGGGATTTTTTTCCAGGTAGTTGCTACTGCCCTTTAGAAAAAAATGGAAAGCTTTTACAACTATAATAGGTGCCACATGTCCTGCCCCTCCTCCTATATTTACCAGAATCAGGTCACAGTAAAAATAAACAGAAGGACAGAAATTCTCAAGTACAGAAGTGCTCAGGGCTGGGTGCAATGGCTCATGACTATAATCTCAACACTTTGAGAGGCTGAGGAGGGAAGATTGCTTGAGACCAGGAGTTTGAGACCAGCTTGGGCAACATAGGGAGACCCTATCTCTACAAAAAAAAACCTTTTAATTAAAAAAATGTTATCAGGCCAGGCATGGTGACTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGTGGATCACTTGAAGTGAGGACTGTGAGACCAGCCTGGCCAACATGGTGAAACCCTGTCTATACTAAAAATACAAAAATTAGCGGGTTGTGGTGGCAGGTGCCTATAATCCCAGCTACTTGAAGGCTGAGGCAGGAGAATCACTAGAACCTGGGAGGCGGAGGTTGGCGTGAGCCGAGATTGTGCCACTGCACTCCAGCCTGGGTGACACAGTGATACTCCATCTCAAAAAAAAAAAAAAAAAAAATGTGATCAGACTACCAAATTTCACCAAATACTTGAGGAAAATCAATACCATAAAAAAGAAGTACCAAACTCAAGAAATAGAACTAATACTGAGAACTCAGAGTTAACATGGCAAGCAGAGAACGATTTTTAAAGCAAACATATTCTCATAGATTTGACAATGGAACATCCTTGACTATGAAGCAGAGATCTTGAATATTAAAAATATAATTATTAAGATGAAGAACTCAACATCTGCGCTAAATATCAGAGTGATACAGTCAAAGATCAAATTAGCTGCCAGAGTAAGCTGTGAAAGTCTTTAAGAGCATAGAGAAAAGACGAAGGAATTAGAAACAGTGAGAAAAAAGGGCACATGGAATATAGATTCAGGAATTTAATATCTGTCTAATAGGAATTTCAGATAGAGAAAATGGAAGGGAGGAAATAAAGGAGTCAAATAAAAGTTTCCCAGAGCTGGAAATGATAAAAGGCCTCAGATTGAAACAATCCGTCAACTGGAAGTAGAATAAATTATAAAAAGCCTACACCTAAATACATTCTGGTGAAATTTGAGAAGACAAAGGATAATGAGAAAATTCCAAAAGCTTTCAGACAGAAAAAAAGAGGTTGTCTACAAAGCAGTAATCACATCTTTTATTGTAGCACAATCTTTGCAGGCAATGAAACAACACTTTCAAAGATAGAAAAGAAAATGATTTTTTAACCAATTAGAATACTATACCTACCCAAAGTAACATTTAGGTGGGAGGGCAAACTAAAGATGTGCAAGGCCTTAAGGTTTCCCACGTGAGGTATTTCAGGTGGATTGTGGGTTGTAGAAAATGTTCCTTCCCTTCCTTGTCTGAGCAAAGATTTTTTAAAATTTATGATTTAACTAACTAAGGATATAAATGTTATCACAAATGAGTTGGTTACACAGAGCAGATCCGAAACAGTATCTGTTCAGTGCATCTTTCCATGGCTCTCAGGTTCTTAATGGGATGTATCATTGCTGGAGATGATGTCCAGCCAGAGCAGGGTCCTATGGATGTGGGAAAACTCAAGTCTTGCTAAGCTTTTATTATTTTATATATTTAGGGTTGAGGCGACCATTCAGAAATAACTTAATCCATGTGTTTCCATTAGTGTAAGCAAATACTAAGTTCTCTTGATTCTTTTTTTATTCTTTTTTTTTTTTTTTATTTGAGACAGGGTTTTACTCTGTCACCCAGGCTGGAGTACAGTGGCATGATCTTGGCTGACTGCAACCTCTGCCTCCGGGGTTCGAGCGATTCTTGTGCCTCAGCCTCCTGAGTAGCTGGGATCATAGGCGCGCAACACCACGACCAGCAAATTTGTGTATTTTTATTAGAGATGGGGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCAGGTGATCCACCTGCCTCAGCCTCCCAAAGTGCTGGGATTATAGGTGTGAGCCACCGTGCCCAGCCTTTCTTAATTCTTTTTATTTTACCCAATAAATATAAGTGCTAGGACTCTTGATTCTTAACCAAAAGACAGTATTACCAAGGACACATCCTCTGAGTAGAAAAAGCAGTTGATTCCCAGTGTTCCTGAGCCTCTTGTTTCACAGACATCTATTTTTTTCCCACAGCCCTCATCTCCTGCTCTTATCTGGGAGGCTTTCATACTGACTTTGATTTGAAGACATTGTAAATCCAGTTCTCCATTTCTTTCCTATTAAATAGTGATTAGAGGCTTCATTCCTGCAAAACAAATCTATTATCACATAGGAAGCAAAAATAAAAATAATAAAATAGTAAAAAAAGAAATCTAAGGACGAGGAAGAAATGGGTACAGGAAATAGTGGTGAAGAATGCCAGTCAAACAAAATAGTTAAGTCCAAGTAATAGTTGATTCATTAAGTCAAACAATTTAATAATCCAGAACTGAACCCTCAGATGGTAGAACATGTGTCGTGGTAAAAGTGGATGGTAGCCAGCAGGGAAGGCTATAAATACTGATACTGATGGAGATACTTTTGGCCAATGAAATTGTGTTCCTTTATCAATGCTGTGTGAGAAAAGAAAAAAAAGGGTATTCCTTCAAAATTTAAGGTTAACTATAAGAAGCAGGGAAATAGGCTGGATATTTTCCAAACCATTAGAGTAAAAACATGGAAAAGAAAATGAATCCAAAATGAAAAGGCAGAAAAGTTAGAGTAGCAACAATAGGTATGGTAAATTGAAAAAATAGGAAAAATAACATAAGAGGGTAGGAATAAATTTTAAAAGATTAGTAATCACAACAAATGTGTTGACTCCCTGTGTTAGTCCCTTGTCTTGGGAAGCCCATCTATCTTGAGCAGTGTTAAGGGCAGGTAGACCAATCTAGGCAATAGGCTTCCTAATTTACTCTCTTCATCTCTGACTTGAGAAAAAGTGACCATTTGCCTTCCCGTAGTCCATGATTTCTTCTATGGATGGAAATAGTTGGAATAGAGAAGAAGTCAATATGGACACAATAGCTGCATGATTGATTACAATGACCTGATCAGAGTCAATGTGAGAGGAAACAGGAACACAGCATCCCAGTGACACAGGATTGAATTTACACATTTATGTAAAATTCAAAACTCACTCCTTAATCTTTGTTCCTATTTGACCCTTTCTCAGAGTGATTCTGCTATATGACTTATCCTGGGACCTTTAGTTAGGCCTGTTCTTCCAGTTTTGTTCATTTTGCAGTCATTGCATGAATTAGATATTGCCTTCTCATTGTTTTTCATTTTTCTTTGATTATTTTGATTAGTTTCATTTATATCTGGATTCTACTGAAGGATAAGTGTTTCTAAAACACTGAGACTTATTTTACTTGCTATCAAAATTTTAACAAGTTAAATTCACCTATTAGAATGTTCAGATTTTTAAAAATCTAAAGATATGTTTACTAGAGACAACACCCCTCTAAAAAAGTTTAAAATAAAGGGATGGATCTTCTGCAAAAGATGATGGGGAGTGGGGAGAAGGCATTTTTACTCTCTTCTTCTTTGACAATAAAATGACAAAAATGAAAATGTAGAGAAAAAATGCCATTTTCTTTTTTTTTGAGACATAGTCTTGTTCTGTCGTCCAGGCTGGAGTGCAGTAGGATGATCTTGACGCACTGCAACCTGTCTCCTGGGTTCAAGCAAGTCTCATGCCTCAGCCTTCTGAGTAACTGGGATTACAGGTGCATGCCACCACACCCAGCTAAATTTTTGTATTTTTAGTCGAGACAGGGTCTTGCTATGTTGCTCATGCTGGTCTCAAACTCCTGGACTCAAGTGATCCACCCGCCTCAGCCTTCCAAAGTGCGGGGATTACAGGCATGAGCCACTGTGCCTGGCTCAAAAATGCCATTTTCAAAGAATTGGAAAAGCTATTAAGACACAAACTACAAAATAGTATACCTTAGCAAATATTGTAAACAAGTGAACCTGAAACAAAGACTGAAAGCTGACTGTCTCCTTATTCCTTGAGCAGAATCCAGATTTCACCAAAAGTTCTTAAAGGCATTCAATGTTTATTTATGGGTGCTTGGATGAGGTCACTGGAGAAGACAAATGCCCTTTAGAAAACTTCTTTATTGCAGGGGTTTGAGTTTACTTGTCATTTCTATGATATATTCTCCTAGTCAACAACTGCAAGAGGTGAAGTAAGGTGGAGGAAGACGAGGCAATGATTGCTAAATCACAACACAACATACATTAACCCAAAGGGTGTTGTTGTGAGCTTTGGTGCAAAAAACTGGTAGTAGTAAAGGAAATACATTAGGTAGGAATGTGTTCCAGACAATAAACTTGTGTGAAATTCTTCGACTTGATTCCCCTTCTACTTATACTGTTCTTCAACATATTCCTGGCCCAATTCAAAGACTAGACTGTGCCTAAAAACATTTTTACAAATTGTAGTATAGAGACTTCCAGTTTCCAGTTCTGCATGTGAGGAACTTGAAAGCTGCCACTCCATTTTAACAACAAGTAAAAAGCTGAACTGACTGAAAAAATCAATAACTCTTCTTAGATTCATAAGAGAAGTAAGGAAGCAGAGCACACTGCTGCTTCCAGGATTAGAGTGTCATGCTTACCAGAGCAGAAAAGTCATGAACAGACACTGCCGTGGGAACAAGTGCCCAGGTAGGAAAACCTGAACTGTAATTGGCATATTAGTAGAGGCTCAGTGTGAATGAGTCTGAGGGTTAAATATTCCTGGGGACCTAGTCATAGGAACCCCTCCTTCCTTTTGTGAGTTTTACCTCTAGGCAGGTCGGCCTGGTTAGCCACGGTAAGTATCAGAGAAAAATCCCCTTGTGTTTCTGGCAGGCAGAGGGAAAAGGAACCATTTTGAAATATGCCAGATTAATCTGTTCTTAACAAGGCCTGCCTTTAGGGGAACTAGTTAACCACAGCCTGACCTACTGGGGTTTCATTGCTGCCTAATTTAGCTGAGGGACAGGAAGTAACCAGCTCCAGTTAGCTTTAGCCTTCCATGTGGGAGAAGGGAAATAACCCAATTCTAGCCTATGTAGCCATCCTGTCCCACTTAAGAGGGGTGAGAAAAAAATGATAAATACTTGTGGAGTTCGCAGTCCAGAAGCATAGGCTCACTAAAAGACTGAGGCTTAATCACAGGACTATAGAATGCTTCCCTTCCCCTCATACCTAATCACTACATTACTAAAGACCTATTTATGGCAGTTCCTTTTACCTGGCACACGATATCCGGCTATCAAGAAAAACATTACAGGACATTCTAAAAGACATAAAGAACGATTTGAAGAAACAGAGCAAGCATCAGAAGCAGACATGGAAGGGATGTTGCAATGATCAGACCAGGAATTTAAAACGACTATGATTAATTGCAAAGGACTCAAATAGATAAACTAGATTGTGTGCAAGAACAGAGGGACAATGTAAGCAGAGAGGTGGAAACCTTAAGAAAGAGCCAAAAAAAAGTGCTAGGAATCAAAAACACTGTAACAGAAATGAAGAATGCCTTTGATGGGCTTATTTAGTAGACTAGACACAGCTGAAGAAAGATCTCTGCGCTTAAAAATATAGTAATAGAGGCCAAGTGTGCTGGCTCACGCCTGTAATCCCATCACGTTGGGAGGCCAAGGTGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTGACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCAGACGTGGTGGTACATGCCTGTAGTCCTGGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCCGGGAGGTGGAGGTTGCAGTGAGCTGAGATCTCACCATTGCACTCCGGCCTGGGCTACAGAGCGAGACCCTGTCTCAAAAAGAAAAAGAAAAAGAAAAGATGTATTAATAGAAACCCTAAAACTGAAAAGCAGAAGACAAAGATTGAAAACAACAATGACAACAAAGAATATCCAAGGACTGTGGAACAACTACAGAAATGTAACATACAAGTAATGGGAATACTAGAGGGAGAAGATAGAAAAAAAAATAGAAGAATTATTTGAAAAGATAGTAATTAAGAATTTCCCTAAATTAATGTCAAACACCAAACTCCACATCCAGGAAGCTCAGAGACACAAAGCAAGGTATGCTCCACCTCCTGCCAAAAACCAAAACAAAACAAAACAACAACAACAAAACAGGGGTGGGTGCGGGGTGGCTCACCCCTGTACCCTGTAATCCCAGCACTTTGTGAGTCTGAGGTGGGCAGATCACAAGGTCAGGAGATTGAGACCATCCTGGCTAACACGGTGAAACTCCATCTCTACTAAAAATACCAAAATTAGCTGGCATGGTGGCACGTTCCTGAAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGCTTGAACCCAGTAGGTGGAGGTTGCAGTGAGCCAAGATCGCACCATGGCACTCCAGCCTGGGTGGCAGAGCGAGACTCCATCTCAAAAAAACAAAAACAAAACCCAAAAACACACACACAAACAAAACAAAACAAAAAAACGCAGAACACAACACTTAGGCACACTGTTTTCAATGAAAACGCAGAAAAAAATTCCTGAAGGAAACCAGTGGGGAAAAAAACTTCTTACCTGTAGAAGAACAAAGATAAGAATT"	"GGATAATCGTCAGTGGGATTGTTAAGGGAACTATACTTAGCTATTTAGCATGTCAAACCCTCTCCCATCTCAGTTTGTGGCACTGGCTTAAAAAAATAACTTTATTGAGATATAATTTACATATCATTCAATTCACTAGCATTGGCTTATTGACTAATGTTGTAAATGTGGATACTGGGGCCTAAAGGTCCTGGGATTTTTTTCCAGGTAGTTGCTACTGCCCTTTAGAAAAAAATGGAAAGCTTTTACAACTATAATAGGTGCCACATGTCCTGCCCCTCCTCCTATATTTACCAGAATCAGGTCACAGTAAAAATAAACAGAAGGACAGAAATTCTCAAGTACAGAAGTGCTCAGGGCTGGGTGCAATGGCTCATGACTATAATCTCAACACTTTGAGAGGCTGAGGAGGGAAGATTGCTTGAGACCAGGAGTTTGAGACCAGCTTGGGCAACATAGGGAGACCCTATCTCTACAAAAAAAAACCTTTTAATTAAAAAAATGTTATCAGGCCAGGCATGGTGACTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGTGGATCACTTGAAGTGAGGACTGTGAGACCAGCCTGGCCAACATGGTGAAACCCTGTCTATACTAAAAATACAAAAATTAGCGGGTTGTGGTGGCAGGTGCCTATAATCCCAGCTACTTGAAGGCTGAGGCAGGAGAATCACTAGAACCTGGGAGGCGGAGGTTGGCGTGAGCCGAGATTGTGCCACTGCACTCCAGCCTGGGTGACACAGTGATACTCCATCTCAAAAAAAAAAAAAAAAAAAATGTGATCAGACTACCAAATTTCACCAAATACTTGAGGAAAATCAATACCATAAAAAAGAAGTACCAAACTCAAGAAATAGAACTAATACTGAGAACTCAGAGTTAACATGGCAAGCAGAGAACGATTTTTAAAGCAAACATATTCTCATAGATTTGACAATGGAACATCCTTGACTATGAAGCAGAGATCTTGAATATTAAAAATATAATTATTAAGATGAAGAACTCAACATCTGCGCTAAATATCAGAGTGATACAGTCAAAGATCAAATTAGCTGCCAGAGTAAGCTGTGAAAGTCTTTAAGAGCATAGAGAAAAGACGAAGGAATTAGAAACAGTGAGAAAAAAGGGCACATGGAATATAGATTCAGGAATTTAATATCTGTCTAATAGGAATTTCAGATAGAGAAAATGGAAGGGAGGAAATAAAGGAGTCAAATAAAAGTTTCCCAGAGCTGGAAATGATAAAAGGCCTCAGATTGAAACAATCCGTCAACTGGAAGTAGAATAAATTATAAAAAGCCTACACCTAAATACATTCTGGTGAAATTTGAGAAGACAAAGGATAATGAGAAAATTCCAAAAGCTTTCAGACAGAAAAAAAGAGGTTGTCTACAAAGCAGTAATCACATCTTTTATTGTAGCACAATCTTTGCAGGCAATGAAACAACACTTTCAAAGATAGAAAAGAAAATGATTTTTTAACCAATTAGAATACTATACCTACCCAAAGTAACATTTAGGTGGGAGGGCAAACTAAAGATGTGCAAGGCCTTAAGGTTTCCCACGTGAGGTATTTCAGGTGGATTGTGGGTTGTAGAAAATGTTCCTTCCCTTCCTTGTCTGAGCAAAGATTTTTTAAAATTTATGATTTAACTAACTAAGGATATAAATGTTATCACAAATGAGTTGGTTACACAGAGCAGATCCGAAACAGTATCTGTTCAGTGCATCTTTCCATGGCTCTCAGGTTCTTAATGGGATGTATCATTGCTGGAGATGATGTCCAGCCAGAGCAGGGTCCTATGGATGTGGGAAAACTCAAGTCTTGCTAAGCTTTTATTATTTTATATATTTAGGGTTGAGGCGACCATTCAGAAATAACTTAATCCATGTGTTTCCATTAGTGTAAGCAAATACTAAGTTCTCTTGATTCTTTTTTTATTCTTTTTTTTTTTTTTTATTTGAGACAGGGTTTTACTCTGTCACCCAGGCTGGAGTACAGTGGCATGATCTTGGCTGACTGCAACCTCTGCCTCCGGGGTTCGAGCGATTCTTGTGCCTCAGCCTCCTGAGTAGCTGGGATCATAGGCGCGCAACACCACGACCAGCAAATTTGTGTATTTTTATTAGAGATGGGGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCAGGTGATCCACCTGCCTCAGCCTCCCAAAGTGCTGGGATTATAGGTGTGAGCCACCGTGCCCAGCCTTTCTTAATTCTTTTTATTTTACCCAATAAATATAAGTGCTAGGACTCTTGATTCTTAACCAAAAGACAGTATTACCAAGGACACATCCTCTGAGTAGAAAAAGCAGTTGATTCCCAGTGTTCCTGAGCCTCTTGTTTCACAGACATCTATTTTTTTCCCACAGCCCTCATCTCCTGCTCTTATCTGGGAGGCTTTCATACTGACTTTGATTTGAAGACATTGTAAATCCAGTTCTCCATTTCTTTCCTATTAAATAGTGATTAGAGGCTTCATTCCTGCAAAACAAATCTATTATCACATAGGAAGCAAAAATAAAAATAATAAAATAGTAAAAAAAGAAATCTAAGGACGAGGAAGAAATGGGTACAGGAAATAGTGGTGAAGAATGCCAGTCAAACAAAATAGTTAAGTCCAAGTAATAGTTGATTCATTAAGTCAAACAATTTAATAATCCAGAACTGAACCCTCAGATGGTAGAACATGTGTCGTGGTAAAAGTGGATGGTAGCCAGCAGGGAAGGCTATAAATACTGATACTGATGGAGATACTTTTGGCCAATGAAATTGTGTTCCTTTATCAATGCTGTGTGAGAAAAGAAAAAAAAGGGTATTCCTTCAAAATTTAAGGTTAACTATAAGAAGCAGGGAAATAGGCTGGATATTTTCCAAACCATTAGAGTAAAAACATGGAAAAGAAAATGAATCCAAAATGAAAAGGCAGAAAAGTTAGAGTAGCAACAATAGGTATGGTAAATTGAAAAAATAGGAAAAATAACATAAGAGGGTAGGAATAAATTTTAAAAGATTAGTAATCACAACAAATGTGTTGACTCCCTGTGTTAGTCCCTTGTCTTGGGAAGCCCATCTATCTTGAGCAGTGTTAAGGGCAGGTAGACCAATCTAGGCAATAGGCTTCCTAATTTACTCTCTTCATCTCTGACTTGAGAAAAAGTGACCATTTGCCTTCCCGTAGTCCATGATTTCTTCTATGGATGGAAATAGTTGGAATAGAGAAGAAGTCAATATGGACACAATAGCTGCATGATTGATTACAATGACCTGATCAGAGTCAATGTGAGAGGAAACAGGAACACAGCATCCCAGTGACACAGGATTGAATTTACACATTTATGTAAAATTCAAAACTCACTCCTTAATCTTTGTTCCTATTTGACCCTTTCTCAGAGTGATTCTGCTATATGACTTATCCTGGGACCTTTAGTTAGGCCTGTTCTTCCAGTTTTGTTCATTTTGCAGTCATTGCATGAATTAGATATTGCCTTCTCATTGTTTTTCATTTTTCTTTGATTATTTTGATTAGTTTCATTTATATCTGGATTCTACTGAAGGATAAGTGTTTCTAAAACACTGAGACTTATTTTACTTGCTATCAAAATTTTAACAAGTTAAATTCACCTATTAGAATGTTCAGATTTTTAAAAATCTAAAGATATGTTTACTAGAGACAACACCCCTCTAAAAAAGTTTAAAATAAAGGGATGGATCTTCTGCAAAAGATGATGGGGAGTGGGGAGAAGGCATTTTTACTCTCTTCTTCTTTGACAATAAAATGACAAAAATGAAAATGTAGAGAAAAAATGCCATTTTCTTTTTTTTTGAGACATAGTCTTGTTCTGTCGTCCAGGCTGGAGTGCAGTAGGATGATCTTGACGCACTGCAACCTGTCTCCTGGGTTCAAGCAAGTCTCATGCCTCAGCCTTCTGAGTAACTGGGATTACAGGTGCATGCCACCACACCCAGCTAAATTTTTGTATTTTTAGTCGAGACAGGGTCTTGCTATGTTGCTCATGCTGGTCTCAAACTCCTGGACTCAAGTGATCCACCCGCCTCAGCCTTCCAAAGTGCGGGGATTACAGGCATGAGCCACTGTGCCTGGCTCAAAAATGCCATTTTCAAAGAATTGGAAAAGCTATTAAGACACAAACTACAAAATAGTATACCTTAGCAAATATTGTAAACAAGTGAACCTGAAACAAAGACTGAAAGCTGACTGTCTCCTTATTCCTTGAGCAGAATCCAGATTTCACCAAAAGTTCTTAAAGGCATTCAATGTTTATTTATGGGTGCTTGGATGAGGTCACTGGAGAAGACAAATGCCCTTTAGAAAACTTCTTTATTGCAGGGGTTTGAGTTTACTTGTCATTTCTATGATATATTCTCCTAGTCAACAACTGCAAGAGGTGAAGTAAGGTGGAGGAAGACGAGGCAATGATTGCTAAATCACAACACAACATACATTAACCCAAAGGGTGTTGTTGTGAGCTTTGGTGCAAAAAACTGGTAGTAGTAAAGGAAATACATTAGGTAGGAATGTGTTCCAGACAATAAACTTGTGTGAAATTCTTCGACTTGATTCCCCTTCTACTTATACTGTTCTTCAACATATTCCTGGCCCAATTCAAAGACTAGACTGTGCCTAAAAACATTTTTACAAATTGTAGTATAGAGACTTCCAGTTTCCAGTTCTGCATGTGAGGAACTTGAAAGCTGCCACTCCATTTTAACAACAAGTAAAAAGCTGAACTGACTGAAAAAATCAATAACTCTTCTTAGATTCATAAGAGAAGTAAGGAAGCAGAGCACACTGCTGCTTCCAGGATTAGAGTGTCATGCTTACCAGAGCAGAAAAGTCATGAACAGACACTGCCGTGGGAACAAGTGCCCAGGTAGGAAAACCTGAACTGTAATTGGCATATTAGTAGAGGCTCAGTGTGAATGAGTCTGAGGGTTAAATATTCCTGGGGACCTAGTCATAGGAACCCCTCCTTCCTTTTGTGAGTTTTACCTCTAGGCAGGTCGGCCTGGTTAGCCACGGTAAGTATCAGAGAAAAATCCCCTTGTGTTTCTGGCAGGCAGAGGGAAAAGGAACCATTTTGAAATATGCCAGATTAATCTGTTCTTAACAAGGCCTGCCTTTAGGGGAACTAGTTAACCACAGCCTGACCTACTGGGGTTTCATTGCTGCCTAATTTAGCTGAGGGACAGGAAGTAACCAGCTCCAGTTAGCTTTAGCCTTCCATGTGGGAGAAGGGAAATAACCCAATTCTAGCCTATGTAGCCATCCTGTCCCACTTAAGAGGGGTGAGAAAAAAATGATAAATACTTGTGGAGTTCGCAGTCCAGAAGCATAGGCTCACTAAAAGACTGAGGCTTAATCACAGGACTATAGAATGCTTCCCTTCCCCTCATACCTAATCACTACATTACTAAAGACCTATTTATGGCAGTTCCTTTTACCTGGCACACGATATCCGGCTATCAAGAAAAACATTACAGGACATTCTAAAAGACATAAAGAACGATTTGAAGAAACAGAGCAAGCATCAGAAGCAGACATGGAAGGGATGTTGCAATGATCAGACCAGGAATTTAAAACGACTATGATTAATTGCAAAGGACTCAAATAGATAAACTAGATTGTGTGCAAGAACAGAGGGACAATGTAAGCAGAGAGGTGGAAACCTTAAGAAAGAGCCAAAAAAAAGTGCTAGGAATCAAAAACACTGTAACAGAAATGAAGAATGCCTTTGATGGGCTTATTTAGTAGACTAGACACAGCTGAAGAAAGATCTCTGCGCTTAAAAATATAGTAATAGAGGCCAAGTGTGCTGGCTCACGCCTGTAATCCCATCACGTTGGGAGGCCAAGGTGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTGACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCAGACGTGGTGGTACATGCCTGTAGTCCTGGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCCGGGAGGTGGAGGTTGCAGTGAGCTGAGATCTCACCATTGCACTCCGGCCTGGGCTACAGAGCGAGACCCTGTCTCAAAAAGAAAAAGAAAAAGAAAAGATGTATTAATAGAAACCCTAAAACTGAAAAGCAGAAGACAAAGATTGAAAACAACAATGACAACAAAGAATATCCAAGGACTGTGGAACAACTACAGAAATGTAACATACAAGTAATGGGAATACTAGAGGGAGAAGATAGAAAAAAAAATAGAAGAATTATTTGAAAAGATAGTAATTAAGAATTTCCCTAAATTAATGTCAAACACCAAACTCCACATCCAGGAAGCTCAGAGACACAAAGCAAGGTATGCTCCACCTCCTGCCAAAAACCAAAACAAAACAAAACAACAACAACAAAACAGGGGTGGGTGCGGGGTGGCTCACCCCTGTACCCTGTAATCCCAGCACTTTGTGAGTCTGAGGTGGGCAGATCACAAGGTCAGGAGATTGAGACCATCCTGGCTAACACGGTGAAACTCCATCTCTACTAAAAATACCAAAATTAGCTGGCATGGTGGCACGTTCCTGAAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGCTTGAACCCAGTAGGTGGAGGTTGCAGTGAGCCAAGATCGCACCATGGCACTCCAGCCTGGGTGGCAGAGCGAGACTCCATCTCAAAAAAACAAAAACAAAACCCAAAAACACACACACAAACAAAACAAAACAAAAAAACGCAGAACACAACACTTAGGCACACTGTTTTCAATGAAAACGCAGAAAAAAATTCCTGAAGGAAACCAGTGGGGAAAAAAACTTCTTACCTGTAGAAGAACAAAGATAAGAATT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GGATAATCGTCAGTGGGATTGTTAAGGGAACTATACTTAGCTATTTAGCATGTCAAACCCTCTCCCATCTCAGTTTGTGGCACTGGCTTAAAAAAATAACTTTATTGAGATATAATTTACATATCATTCAATTCACTAGCATTGGCTTATTGACTAATGTTGTAAATGTGGATACTGGGGCCTAAAGGTCCTGGGATTTTTTTCCAGGTAGTTGCTACTGCCCTTTAGAAAAAAATGGAAAGCTTTTACAACTATAATAGGTGCCACATGTCCTGCCCCTCCTCCTATATTTACCAGAATCAGGTCACAGTAAAAATAAACAGAAGGACAGAAATTCTCAAGTACAGAAGTGCTCAGGGCTGGGTGCAATGGCTCATGACTATAATCTCAACACTTTGAGAGGCTGAGGAGGGAAGATTGCTTGAGACCAGGAGTTTGAGACCAGCTTGGGCAACATAGGGAGACCCTATCTCTACAAAAAAAAACCTTTTAATTAAAAAAATGTTATCAGGCCAGGCATGGTGACTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGTGGATCACTTGAAGTGAGGACTGTGAGACCAGCCTGGCCAACATGGTGAAACCCTGTCTATACTAAAAATACAAAAATTAGCGGGTTGTGGTGGCAGGTGCCTATAATCCCAGCTACTTGAAGGCTGAGGCAGGAGAATCACTAGAACCTGGGAGGCGGAGGTTGGCGTGAGCCGAGATTGTGCCACTGCACTCCAGCCTGGGTGACACAGTGATACTCCATCTCAAAAAAAAAAAAAAAAAAAATGTGATCAGACTACCAAATTTCACCAAATACTTGAGGAAAATCAATACCATAAAAAAGAAGTACCAAACTCAAGAAATAGAACTAATACTGAGAACTCAGAGTTAACATGGCAAGCAGAGAACGATTTTTAAAGCAAACATATTCTCATAGATTTGACAATGGAACATCCTTGACTATGAAGCAGAGATCTTGAATATTAAAAATATAATTATTAAGATGAAGAACTCAACATCTGCGCTAAATATCAGAGTGATACAGTCAAAGATCAAATTAGCTGCCAGAGTAAGCTGTGAAAGTCTTTAAGAGCATAGAGAAAAGACGAAGGAATTAGAAACAGTGAGAAAAAAGGGCACATGGAATATAGATTCAGGAATTTAATATCTGTCTAATAGGAATTTCAGATAGAGAAAATGGAAGGGAGGAAATAAAGGAGTCAAATAAAAGTTTCCCAGAGCTGGAAATGATAAAAGGCCTCAGATTGAAACAATCCGTCAACTGGAAGTAGAATAAATTATAAAAAGCCTACACCTAAATACATTCTGGTGAAATTTGAGAAGACAAAGGATAATGAGAAAATTCCAAAAGCTTTCAGACAGAAAAAAAGAGGTTGTCTACAAAGCAGTAATCACATCTTTTATTGTAGCACAATCTTTGCAGGCAATGAAACAACACTTTCAAAGATAGAAAAGAAAATGATTTTTTAACCAATTAGAATACTATACCTACCCAAAGTAACATTTAGGTGGGAGGGCAAACTAAAGATGTGCAAGGCCTTAAGGTTTCCCACGTGAGGTATTTCAGGTGGATTGTGGGTTGTAGAAAATGTTCCTTCCCTTCCTTGTCTGAGCAAAGATTTTTTAAAATTTATGATTTAACTAACTAAGGATATAAATGTTATCACAAATGAGTTGGTTACACAGAGCAGATCCGAAACAGTATCTGTTCAGTGCATCTTTCCATGGCTCTCAGGTTCTTAATGGGATGTATCATTGCTGGAGATGATGTCCAGCCAGAGCAGGGTCCTATGGATGTGGGAAAACTCAAGTCTTGCTAAGCTTTTATTATTTTATATATTTAGGGTTGAGGCGACCATTCAGAAATAACTTAATCCATGTGTTTCCATTAGTGTAAGCAAATACTAAGTTCTCTTGATTCTTTTTTTATTCTTTTTTTTTTTTTTTATTTGAGACAGGGTTTTACTCTGTCACCCAGGCTGGAGTACAGTGGCATGATCTTGGCTGACTGCAACCTCTGCCTCCGGGGTTCGAGCGATTCTTGTGCCTCAGCCTCCTGAGTAGCTGGGATCATAGGCGCGCAACACCACGACCAGCAAATTTGTGTATTTTTATTAGAGATGGGGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCAGGTGATCCACCTGCCTCAGCCTCCCAAAGTGCTGGGATTATAGGTGTGAGCCACCGTGCCCAGCCTTTCTTAATTCTTTTTATTTTACCCAATAAATATAAGTGCTAGGACTCTTGATTCTTAACCAAAAGACAGTATTACCAAGGACACATCCTCTGAGTAGAAAAAGCAGTTGATTCCCAGTGTTCCTGAGCCTCTTGTTTCACAGACATCTATTTTTTTCCCACAGCCCTCATCTCCTGCTCTTATCTGGGAGGCTTTCATACTGACTTTGATTTGAAGACATTGTAAATCCAGTTCTCCATTTCTTTCCTATTAAATAGTGATTAGAGGCTTCATTCCTGCAAAACAAATCTATTATCACATAGGAAGCAAAAATAAAAATAATAAAATAGTAAAAAAAGAAATCTAAGGACGAGGAAGAAATGGGTACAGGAAATAGTGGTGAAGAATGCCAGTCAAACAAAATAGTTAAGTCCAAGTAATAGTTGATTCATTAAGTCAAACAATTTAATAATCCAGAACTGAACCCTCAGATGGTAGAACATGTGTCGTGGTAAAAGTGGATGGTAGCCAGCAGGGAAGGCTATAAATACTGATACTGATGGAGATACTTTTGGCCAATGAAATTGTGTTCCTTTATCAATGCTGTGTGAGAAAAGAAAAAAAAGGGTATTCCTTCAAAATTTAAGGTTAACTATAAGAAGCAGGGAAATAGGCTGGATATTTTCCAAACCATTAGAGTAAAAACATGGAAAAGAAAATGAATCCAAAATGAAAAGGCAGAAAAGTTAGAGTAGCAACAATAGGTATGGTAAATTGAAAAAATAGGAAAAATAACATAAGAGGGTAGGAATAAATTTTAAAAGATTAGTAATCACAACAAATGTGTTGACTCCCTGTGTTAGTCCCTTGTCTTGGGAAGCCCATCTATCTTGAGCAGTGTTAAGGGCAGGTAGACCAATCTAGGCAATAGGCTTCCTAATTTACTCTCTTCATCTCTGACTTGAGAAAAAGTGACCATTTGCCTTCCCGTAGTCCATGATTTCTTCTATGGATGGAAATAGTTGGAATAGAGAAGAAGTCAATATGGACACAATAGCTGCATGATTGATTACAATGACCTGATCAGAGTCAATGTGAGAGGAAACAGGAACACAGCATCCCAGTGACACAGGATTGAATTTACACATTTATGTAAAATTCAAAACTCACTCCTTAATCTTTGTTCCTATTTGACCCTTTCTCAGAGTGATTCTGCTATATGACTTATCCTGGGACCTTTAGTTAGGCCTGTTCTTCCAGTTTTGTTCATTTTGCAGTCATTGCATGAATTAGATATTGCCTTCTCATTGTTTTTCATTTTTCTTTGATTATTTTGATTAGTTTCATTTATATCTGGATTCTACTGAAGGATAAGTGTTTCTAAAACACTGAGACTTATTTTACTTGCTATCAAAATTTTAACAAGTTAAATTCACCTATTAGAATGTTCAGATTTTTAAAAATCTAAAGATATGTTTACTAGAGACAACACCCCTCTAAAAAAGTTTAAAATAAAGGGATGGATCTTCTGCAAAAGATGATGGGGAGTGGGGAGAAGGCATTTTTACTCTCTTCTTCTTTGACAATAAAATGACAAAAATGAAAATGTAGAGAAAAAATGCCATTTTCTTTTTTTTTGAGACATAGTCTTGTTCTGTCGTCCAGGCTGGAGTGCAGTAGGATGATCTTGACGCACTGCAACCTGTCTCCTGGGTTCAAGCAAGTCTCATGCCTCAGCCTTCTGAGTAACTGGGATTACAGGTGCATGCCACCACACCCAGCTAAATTTTTGTATTTTTAGTCGAGACAGGGTCTTGCTATGTTGCTCATGCTGGTCTCAAACTCCTGGACTCAAGTGATCCACCCGCCTCAGCCTTCCAAAGTGCGGGGATTACAGGCATGAGCCACTGTGCCTGGCTCAAAAATGCCATTTTCAAAGAATTGGAAAAGCTATTAAGACACAAACTACAAAATAGTATACCTTAGCAAATATTGTAAACAAGTGAACCTGAAACAAAGACTGAAAGCTGACTGTCTCCTTATTCCTTGAGCAGAATCCAGATTTCACCAAAAGTTCTTAAAGGCATTCAATGTTTATTTATGGGTGCTTGGATGAGGTCACTGGAGAAGACAAATGCCCTTTAGAAAACTTCTTTATTGCAGGGGTTTGAGTTTACTTGTCATTTCTATGATATATTCTCCTAGTCAACAACTGCAAGAGGTGAAGTAAGGTGGAGGAAGACGAGGCAATGATTGCTAAATCACAACACAACATACATTAACCCAAAGGGTGTTGTTGTGAGCTTTGGTGCAAAAAACTGGTAGTAGTAAAGGAAATACATTAGGTAGGAATGTGTTCCAGACAATAAACTTGTGTGAAATTCTTCGACTTGATTCCCCTTCTACTTATACTGTTCTTCAACATATTCCTGGCCCAATTCAAAGACTAGACTGTGCCTAAAAACATTTTTACAAATTGTAGTATAGAGACTTCCAGTTTCCAGTTCTGCATGTGAGGAACTTGAAAGCTGCCACTCCATTTTAACAACAAGTAAAAAGCTGAACTGACTGAAAAAATCAATAACTCTTCTTAGATTCATAAGAGAAGTAAGGAAGCAGAGCACACTGCTGCTTCCAGGATTAGAGTGTCATGCTTACCAGAGCAGAAAAGTCATGAACAGACACTGCCGTGGGAACAAGTGCCCAGGTAGGAAAACCTGAACTGTAATTGGCATATTAGTAGAGGCTCAGTGTGAATGAGTCTGAGGGTTAAATATTCCTGGGGACCTAGTCATAGGAACCCCTCCTTCCTTTTGTGAGTTTTACCTCTAGGCAGGTCGGCCTGGTTAGCCACGGTAAGTATCAGAGAAAAATCCCCTTGTGTTTCTGGCAGGCAGAGGGAAAAGGAACCATTTTGAAATATGCCAGATTAATCTGTTCTTAACAAGGCCTGCCTTTAGGGGAACTAGTTAACCACAGCCTGACCTACTGGGGTTTCATTGCTGCCTAATTTAGCTGAGGGACAGGAAGTAACCAGCTCCAGTTAGCTTTAGCCTTCCATGTGGGAGAAGGGAAATAACCCAATTCTAGCCTATGTAGCCATCCTGTCCCACTTAAGAGGGGTGAGAAAAAAATGATAAATACTTGTGGAGTTCGCAGTCCAGAAGCATAGGCTCACTAAAAGACTGAGGCTTAATCACAGGACTATAGAATGCTTCCCTTCCCCTCATACCTAATCACTACATTACTAAAGACCTATTTATGGCAGTTCCTTTTACCTGGCACACGATATCCGGCTATCAAGAAAAACATTACAGGACATTCTAAAAGACATAAAGAACGATTTGAAGAAACAGAGCAAGCATCAGAAGCAGACATGGAAGGGATGTTGCAATGATCAGACCAGGAATTTAAAACGACTATGATTAATTGCAAAGGACTCAAATAGATAAACTAGATTGTGTGCAAGAACAGAGGGACAATGTAAGCAGAGAGGTGGAAACCTTAAGAAAGAGCCAAAAAAAAGTGCTAGGAATCAAAAACACTGTAACAGAAATGAAGAATGCCTTTGATGGGCTTATTTAGTAGACTAGACACAGCTGAAGAAAGATCTCTGCGCTTAAAAATATAGTAATAGAGGCCAAGTGTGCTGGCTCACGCCTGTAATCCCATCACGTTGGGAGGCCAAGGTGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTGACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCAGACGTGGTGGTACATGCCTGTAGTCCTGGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCCGGGAGGTGGAGGTTGCAGTGAGCTGAGATCTCACCATTGCACTCCGGCCTGGGCTACAGAGCGAGACCCTGTCTCAAAAAGAAAAAGAAAAAGAAAAGATGTATTAATAGAAACCCTAAAACTGAAAAGCAGAAGACAAAGATTGAAAACAACAATGACAACAAAGAATATCCAAGGACTGTGGAACAACTACAGAAATGTAACATACAAGTAATGGGAATACTAGAGGGAGAAGATAGAAAAAAAAATAGAAGAATTATTTGAAAAGATAGTAATTAAGAATTTCCCTAAATTAATGTCAAACACCAAACTCCACATCCAGGAAGCTCAGAGACACAAAGCAAGGTATGCTCCACCTCCTGCCAAAAACCAAAACAAAACAAAACAACAACAACAAAACAGGGGTGGGTGCGGGGTGGCTCACCCCTGTACCCTGTAATCCCAGCACTTTGTGAGTCTGAGGTGGGCAGATCACAAGGTCAGGAGATTGAGACCATCCTGGCTAACACGGTGAAACTCCATCTCTACTAAAAATACCAAAATTAGCTGGCATGGTGGCACGTTCCTGAAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGCTTGAACCCAGTAGGTGGAGGTTGCAGTGAGCCAAGATCGCACCATGGCACTCCAGCCTGGGTGGCAGAGCGAGACTCCATCTCAAAAAAACAAAAACAAAACCCAAAAACACACACACAAACAAAACAAAACAAAAAAACGCAGAACACAACACTTAGGCACACTGTTTTCAATGAAAACGCAGAAAAAAATTCCTGAAGGAAACCAGTGGGGAAAAAAACTTCTTACCTGTAGAAGAACAAAGATAAGAATT"	"GGATAATCGTCAGTGGGATTGTTAAGGGAACTATACTTAGCTATTTAGCATGTCAAACCCTCTCCCATCTCAGTTTGTGGCACTGGCTTAAAAAAATAACTTTATTGAGATATAATTTACATATCATTCAATTCACTAGCATTGGCTTATTGACTAATGTTGTAAATGTGGATACTGGGGCCTAAAGGTCCTGGGATTTTTTTCCAGGTAGTTGCTACTGCCCTTTAGAAAAAAATGGAAAGCTTTTACAACTATAATAGGTGCCACATGTCCTGCCCCTCCTCCTATATTTACCAGAATCAGGTCACAGTAAAAATAAACAGAAGGACAGAAATTCTCAAGTACAGAAGTGCTCAGGGCTGGGTGCAATGGCTCATGACTATAATCTCAACACTTTGAGAGGCTGAGGAGGGAAGATTGCTTGAGACCAGGAGTTTGAGACCAGCTTGGGCAACATAGGGAGACCCTATCTCTACAAAAAAAAACCTTTTAATTAAAAAAATGTTATCAGGCCAGGCATGGTGACTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGTGGATCACTTGAAGTGAGGACTGTGAGACCAGCCTGGCCAACATGGTGAAACCCTGTCTATACTAAAAATACAAAAATTAGCGGGTTGTGGTGGCAGGTGCCTATAATCCCAGCTACTTGAAGGCTGAGGCAGGAGAATCACTAGAACCTGGGAGGCGGAGGTTGGCGTGAGCCGAGATTGTGCCACTGCACTCCAGCCTGGGTGACACAGTGATACTCCATCTCAAAAAAAAAAAAAAAAAAAATGTGATCAGACTACCAAATTTCACCAAATACTTGAGGAAAATCAATACCATAAAAAAGAAGTACCAAACTCAAGAAATAGAACTAATACTGAGAACTCAGAGTTAACATGGCAAGCAGAGAACGATTTTTAAAGCAAACATATTCTCATAGATTTGACAATGGAACATCCTTGACTATGAAGCAGAGATCTTGAATATTAAAAATATAATTATTAAGATGAAGAACTCAACATCTGCGCTAAATATCAGAGTGATACAGTCAAAGATCAAATTAGCTGCCAGAGTAAGCTGTGAAAGTCTTTAAGAGCATAGAGAAAAGACGAAGGAATTAGAAACAGTGAGAAAAAAGGGCACATGGAATATAGATTCAGGAATTTAATATCTGTCTAATAGGAATTTCAGATAGAGAAAATGGAAGGGAGGAAATAAAGGAGTCAAATAAAAGTTTCCCAGAGCTGGAAATGATAAAAGGCCTCAGATTGAAACAATCCGTCAACTGGAAGTAGAATAAATTATAAAAAGCCTACACCTAAATACATTCTGGTGAAATTTGAGAAGACAAAGGATAATGAGAAAATTCCAAAAGCTTTCAGACAGAAAAAAAGAGGTTGTCTACAAAGCAGTAATCACATCTTTTATTGTAGCACAATCTTTGCAGGCAATGAAACAACACTTTCAAAGATAGAAAAGAAAATGATTTTTTAACCAATTAGAATACTATACCTACCCAAAGTAACATTTAGGTGGGAGGGCAAACTAAAGATGTGCAAGGCCTTAAGGTTTCCCACGTGAGGTATTTCAGGTGGATTGTGGGTTGTAGAAAATGTTCCTTCCCTTCCTTGTCTGAGCAAAGATTTTTTAAAATTTATGATTTAACTAACTAAGGATATAAATGTTATCACAAATGAGTTGGTTACACAGAGCAGATCCGAAACAGTATCTGTTCAGTGCATCTTTCCATGGCTCTCAGGTTCTTAATGGGATGTATCATTGCTGGAGATGATGTCCAGCCAGAGCAGGGTCCTATGGATGTGGGAAAACTCAAGTCTTGCTAAGCTTTTATTATTTTATATATTTAGGGTTGAGGCGACCATTCAGAAATAACTTAATCCATGTGTTTCCATTAGTGTAAGCAAATACTAAGTTCTCTTGATTCTTTTTTTATTCTTTTTTTTTTTTTTTATTTGAGACAGGGTTTTACTCTGTCACCCAGGCTGGAGTACAGTGGCATGATCTTGGCTGACTGCAACCTCTGCCTCCGGGGTTCGAGCGATTCTTGTGCCTCAGCCTCCTGAGTAGCTGGGATCATAGGCGCGCAACACCACGACCAGCAAATTTGTGTATTTTTATTAGAGATGGGGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCAGGTGATCCACCTGCCTCAGCCTCCCAAAGTGCTGGGATTATAGGTGTGAGCCACCGTGCCCAGCCTTTCTTAATTCTTTTTATTTTACCCAATAAATATAAGTGCTAGGACTCTTGATTCTTAACCAAAAGACAGTATTACCAAGGACACATCCTCTGAGTAGAAAAAGCAGTTGATTCCCAGTGTTCCTGAGCCTCTTGTTTCACAGACATCTATTTTTTTCCCACAGCCCTCATCTCCTGCTCTTATCTGGGAGGCTTTCATACTGACTTTGATTTGAAGACATTGTAAATCCAGTTCTCCATTTCTTTCCTATTAAATAGTGATTAGAGGCTTCATTCCTGCAAAACAAATCTATTATCACATAGGAAGCAAAAATAAAAATAATAAAATAGTAAAAAAAGAAATCTAAGGACGAGGAAGAAATGGGTACAGGAAATAGTGGTGAAGAATGCCAGTCAAACAAAATAGTTAAGTCCAAGTAATAGTTGATTCATTAAGTCAAACAATTTAATAATCCAGAACTGAACCCTCAGATGGTAGAACATGTGTCGTGGTAAAAGTGGATGGTAGCCAGCAGGGAAGGCTATAAATACTGATACTGATGGAGATACTTTTGGCCAATGAAATTGTGTTCCTTTATCAATGCTGTGTGAGAAAAGAAAAAAAAGGGTATTCCTTCAAAATTTAAGGTTAACTATAAGAAGCAGGGAAATAGGCTGGATATTTTCCAAACCATTAGAGTAAAAACATGGAAAAGAAAATGAATCCAAAATGAAAAGGCAGAAAAGTTAGAGTAGCAACAATAGGTATGGTAAATTGAAAAAATAGGAAAAATAACATAAGAGGGTAGGAATAAATTTTAAAAGATTAGTAATCACAACAAATGTGTTGACTCCCTGTGTTAGTCCCTTGTCTTGGGAAGCCCATCTATCTTGAGCAGTGTTAAGGGCAGGTAGACCAATCTAGGCAATAGGCTTCCTAATTTACTCTCTTCATCTCTGACTTGAGAAAAAGTGACCATTTGCCTTCCCGTAGTCCATGATTTCTTCTATGGATGGAAATAGTTGGAATAGAGAAGAAGTCAATATGGACACAATAGCTGCATGATTGATTACAATGACCTGATCAGAGTCAATGTGAGAGGAAACAGGAACACAGCATCCCAGTGACACAGGATTGAATTTACACATTTATGTAAAATTCAAAACTCACTCCTTAATCTTTGTTCCTATTTGACCCTTTCTCAGAGTGATTCTGCTATATGACTTATCCTGGGACCTTTAGTTAGGCCTGTTCTTCCAGTTTTGTTCATTTTGCAGTCATTGCATGAATTAGATATTGCCTTCTCATTGTTTTTCATTTTTCTTTGATTATTTTGATTAGTTTCATTTATATCTGGATTCTACTGAAGGATAAGTGTTTCTAAAACACTGAGACTTATTTTACTTGCTATCAAAATTTTAACAAGTTAAATTCACCTATTAGAATGTTCAGATTTTTAAAAATCTAAAGATATGTTTACTAGAGACAACACCCCTCTAAAAAAGTTTAAAATAAAGGGATGGATCTTCTGCAAAAGATGATGGGGAGTGGGGAGAAGGCATTTTTACTCTCTTCTTCTTTGACAATAAAATGACAAAAATGAAAATGTAGAGAAAAAATGCCATTTTCTTTTTTTTTGAGACATAGTCTTGTTCTGTCGTCCAGGCTGGAGTGCAGTAGGATGATCTTGACGCACTGCAACCTGTCTCCTGGGTTCAAGCAAGTCTCATGCCTCAGCCTTCTGAGTAACTGGGATTACAGGTGCATGCCACCACACCCAGCTAAATTTTTGTATTTTTAGTCGAGACAGGGTCTTGCTATGTTGCTCATGCTGGTCTCAAACTCCTGGACTCAAGTGATCCACCCGCCTCAGCCTTCCAAAGTGCGGGGATTACAGGCATGAGCCACTGTGCCTGGCTCAAAAATGCCATTTTCAAAGAATTGGAAAAGCTATTAAGACACAAACTACAAAATAGTATACCTTAGCAAATATTGTAAACAAGTGAACCTGAAACAAAGACTGAAAGCTGACTGTCTCCTTATTCCTTGAGCAGAATCCAGATTTCACCAAAAGTTCTTAAAGGCATTCAATGTTTATTTATGGGTGCTTGGATGAGGTCACTGGAGAAGACAAATGCCCTTTAGAAAACTTCTTTATTGCAGGGGTTTGAGTTTACTTGTCATTTCTATGATATATTCTCCTAGTCAACAACTGCAAGAGGTGAAGTAAGGTGGAGGAAGACGAGGCAATGATTGCTAAATCACAACACAACATACATTAACCCAAAGGGTGTTGTTGTGAGCTTTGGTGCAAAAAACTGGTAGTAGTAAAGGAAATACATTAGGTAGGAATGTGTTCCAGACAATAAACTTGTGTGAAATTCTTCGACTTGATTCCCCTTCTACTTATACTGTTCTTCAACATATTCCTGGCCCAATTCAAAGACTAGACTGTGCCTAAAAACATTTTTACAAATTGTAGTATAGAGACTTCCAGTTTCCAGTTCTGCATGTGAGGAACTTGAAAGCTGCCACTCCATTTTAACAACAAGTAAAAAGCTGAACTGACTGAAAAAATCAATAACTCTTCTTAGATTCATAAGAGAAGTAAGGAAGCAGAGCACACTGCTGCTTCCAGGATTAGAGTGTCATGCTTACCAGAGCAGAAAAGTCATGAACAGACACTGCCGTGGGAACAAGTGCCCAGGTAGGAAAACCTGAACTGTAATTGGCATATTAGTAGAGGCTCAGTGTGAATGAGTCTGAGGGTTAAATATTCCTGGGGACCTAGTCATAGGAACCCCTCCTTCCTTTTGTGAGTTTTACCTCTAGGCAGGTCGGCCTGGTTAGCCACGGTAAGTATCAGAGAAAAATCCCCTTGTGTTTCTGGCAGGCAGAGGGAAAAGGAACCATTTTGAAATATGCCAGATTAATCTGTTCTTAACAAGGCCTGCCTTTAGGGGAACTAGTTAACCACAGCCTGACCTACTGGGGTTTCATTGCTGCCTAATTTAGCTGAGGGACAGGAAGTAACCAGCTCCAGTTAGCTTTAGCCTTCCATGTGGGAGAAGGGAAATAACCCAATTCTAGCCTATGTAGCCATCCTGTCCCACTTAAGAGGGGTGAGAAAAAAATGATAAATACTTGTGGAGTTCGCAGTCCAGAAGCATAGGCTCACTAAAAGACTGAGGCTTAATCACAGGACTATAGAATGCTTCCCTTCCCCTCATACCTAATCACTACATTACTAAAGACCTATTTATGGCAGTTCCTTTTACCTGGCACACGATATCCGGCTATCAAGAAAAACATTACAGGACATTCTAAAAGACATAAAGAACGATTTGAAGAAACAGAGCAAGCATCAGAAGCAGACATGGAAGGGATGTTGCAATGATCAGACCAGGAATTTAAAACGACTATGATTAATTGCAAAGGACTCAAATAGATAAACTAGATTGTGTGCAAGAACAGAGGGACAATGTAAGCAGAGAGGTGGAAACCTTAAGAAAGAGCCAAAAAAAAGTGCTAGGAATCAAAAACACTGTAACAGAAATGAAGAATGCCTTTGATGGGCTTATTTAGTAGACTAGACACAGCTGAAGAAAGATCTCTGCGCTTAAAAATATAGTAATAGAGGCCAAGTGTGCTGGCTCACGCCTGTAATCCCATCACGTTGGGAGGCCAAGGTGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTGACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCAGACGTGGTGGTACATGCCTGTAGTCCTGGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCCGGGAGGTGGAGGTTGCAGTGAGCTGAGATCTCACCATTGCACTCCGGCCTGGGCTACAGAGCGAGACCCTGTCTCAAAAAGAAAAAGAAAAAGAAAAGATGTATTAATAGAAACCCTAAAACTGAAAAGCAGAAGACAAAGATTGAAAACAACAATGACAACAAAGAATATCCAAGGACTGTGGAACAACTACAGAAATGTAACATACAAGTAATGGGAATACTAGAGGGAGAAGATAGAAAAAAAAATAGAAGAATTATTTGAAAAGATAGTAATTAAGAATTTCCCTAAATTAATGTCAAACACCAAACTCCACATCCAGGAAGCTCAGAGACACAAAGCAAGGTATGCTCCACCTCCTGCCAAAAACCAAAACAAAACAAAACAACAACAACAAAACAGGGGTGGGTGCGGGGTGGCTCACCCCTGTACCCTGTAATCCCAGCACTTTGTGAGTCTGAGGTGGGCAGATCACAAGGTCAGGAGATTGAGACCATCCTGGCTAACACGGTGAAACTCCATCTCTACTAAAAATACCAAAATTAGCTGGCATGGTGGCACGTTCCTGAAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGCTTGAACCCAGTAGGTGGAGGTTGCAGTGAGCCAAGATCGCACCATGGCACTCCAGCCTGGGTGGCAGAGCGAGACTCCATCTCAAAAAAACAAAAACAAAACCCAAAAACACACACACAAACAAAACAAAACAAAAAAACGCAGAACACAACACTTAGGCACACTGTTTTCAATGAAAACGCAGAAAAAAATTCCTGAAGGAAACCAGTGGGGAAAAAAACTTCTTACCTGTAGAAGAACAAAGATAAGAATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-351+31071_-351+38033delGGATAATCGTCAGTGGGATTGTTAAGGGAACTATACTTAGCTATTTAGCATGTCAAACCCTCTCCCATCTCAGTTTGTGGCACTGGCTTAAAAAAATAACTTTATTGAGATATAATTTACATATCATTCAATTCACTAGCATTGGCTTATTGACTAATGTTGTAAATGTGGATACTGGGGCCTAAAGGTCCTGGGATTTTTTTCCAGGTAGTTGCTACTGCCCTTTAGAAAAAAATGGAAAGCTTTTACAACTATAATAGGTGCCACATGTCCTGCCCCTCCTCCTATATTTACCAGAATCAGGTCACAGTAAAAATAAACAGAAGGACAGAAATTCTCAAGTACAGAAGTGCTCAGGGCTGGGTGCAATGGCTCATGACTATAATCTCAACACTTTGAGAGGCTGAGGAGGGAAGATTGCTTGAGACCAGGAGTTTGAGACCAGCTTGGGCAACATAGGGAGACCCTATCTCTACAAAAAAAAACCTTTTAATTAAAAAAATGTTATCAGGCCAGGCATGGTGACTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGTGGATCACTTGAAGTGAGGACTGTGAGACCAGCCTGGCCAACATGGTGAAACCCTGTCTATACTAAAAATACAAAAATTAGCGGGTTGTGGTGGCAGGTGCCTATAATCCCAGCTACTTGAAGGCTGAGGCAGGAGAATCACTAGAACCTGGGAGGCGGAGGTTGGCGTGAGCCGAGATTGTGCCACTGCACTCCAGCCTGGGTGACACAGTGATACTCCATCTCAAAAAAAAAAAAAAAAAAAATGTGATCAGACTACCAAATTTCACCAAATACTTGAGGAAAATCAATACCATAAAAAAGAAGTACCAAACTCAAGAAATAGAACTAATACTGAGAACTCAGAGTTAACATGGCAAGCAGAGAACGATTTTTAAAGCAAACATATTCTCATAGATTTGACAATGGAACATCCTTGACTATGAAGCAGAGATCTTGAATATTAAAAATATAATTATTAAGATGAAGAACTCAACATCTGCGCTAAATATCAGAGTGATACAGTCAAAGATCAAATTAGCTGCCAGAGTAAGCTGTGAAAGTCTTTAAGAGCATAGAGAAAAGACGAAGGAATTAGAAACAGTGAGAAAAAAGGGCACATGGAATATAGATTCAGGAATTTAATATCTGTCTAATAGGAATTTCAGATAGAGAAAATGGAAGGGAGGAAATAAAGGAGTCAAATAAAAGTTTCCCAGAGCTGGAAATGATAAAAGGCCTCAGATTGAAACAATCCGTCAACTGGAAGTAGAATAAATTATAAAAAGCCTACACCTAAATACATTCTGGTGAAATTTGAGAAGACAAAGGATAATGAGAAAATTCCAAAAGCTTTCAGACAGAAAAAAAGAGGTTGTCTACAAAGCAGTAATCACATCTTTTATTGTAGCACAATCTTTGCAGGCAATGAAACAACACTTTCAAAGATAGAAAAGAAAATGATTTTTTAACCAATTAGAATACTATACCTACCCAAAGTAACATTTAGGTGGGAGGGCAAACTAAAGATGTGCAAGGCCTTAAGGTTTCCCACGTGAGGTATTTCAGGTGGATTGTGGGTTGTAGAAAATGTTCCTTCCCTTCCTTGTCTGAGCAAAGATTTTTTAAAATTTATGATTTAACTAACTAAGGATATAAATGTTATCACAAATGAGTTGGTTACACAGAGCAGATCCGAAACAGTATCTGTTCAGTGCATCTTTCCATGGCTCTCAGGTTCTTAATGGGATGTATCATTGCTGGAGATGATGTCCAGCCAGAGCAGGGTCCTATGGATGTGGGAAAACTCAAGTCTTGCTAAGCTTTTATTATTTTATATATTTAGGGTTGAGGCGACCATTCAGAAATAACTTAATCCATGTGTTTCCATTAGTGTAAGCAAATACTAAGTTCTCTTGATTCTTTTTTTATTCTTTTTTTTTTTTTTTATTTGAGACAGGGTTTTACTCTGTCACCCAGGCTGGAGTACAGTGGCATGATCTTGGCTGACTGCAACCTCTGCCTCCGGGGTTCGAGCGATTCTTGTGCCTCAGCCTCCTGAGTAGCTGGGATCATAGGCGCGCAACACCACGACCAGCAAATTTGTGTATTTTTATTAGAGATGGGGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCAGGTGATCCACCTGCCTCAGCCTCCCAAAGTGCTGGGATTATAGGTGTGAGCCACCGTGCCCAGCCTTTCTTAATTCTTTTTATTTTACCCAATAAATATAAGTGCTAGGACTCTTGATTCTTAACCAAAAGACAGTATTACCAAGGACACATCCTCTGAGTAGAAAAAGCAGTTGATTCCCAGTGTTCCTGAGCCTCTTGTTTCACAGACATCTATTTTTTTCCCACAGCCCTCATCTCCTGCTCTTATCTGGGAGGCTTTCATACTGACTTTGATTTGAAGACATTGTAAATCCAGTTCTCCATTTCTTTCCTATTAAATAGTGATTAGAGGCTTCATTCCTGCAAAACAAATCTATTATCACATAGGAAGCAAAAATAAAAATAATAAAATAGTAAAAAAAGAAATCTAAGGACGAGGAAGAAATGGGTACAGGAAATAGTGGTGAAGAATGCCAGTCAAACAAAATAGTTAAGTCCAAGTAATAGTTGATTCATTAAGTCAAACAATTTAATAATCCAGAACTGAACCCTCAGATGGTAGAACATGTGTCGTGGTAAAAGTGGATGGTAGCCAGCAGGGAAGGCTATAAATACTGATACTGATGGAGATACTTTTGGCCAATGAAATTGTGTTCCTTTATCAATGCTGTGTGAGAAAAGAAAAAAAAGGGTATTCCTTCAAAATTTAAGGTTAACTATAAGAAGCAGGGAAATAGGCTGGATATTTTCCAAACCATTAGAGTAAAAACATGGAAAAGAAAATGAATCCAAAATGAAAAGGCAGAAAAGTTAGAGTAGCAACAATAGGTATGGTAAATTGAAAAAATAGGAAAAATAACATAAGAGGGTAGGAATAAATTTTAAAAGATTAGTAATCACAACAAATGTGTTGACTCCCTGTGTTAGTCCCTTGTCTTGGGAAGCCCATCTATCTTGAGCAGTGTTAAGGGCAGGTAGACCAATCTAGGCAATAGGCTTCCTAATTTACTCTCTTCATCTCTGACTTGAGAAAAAGTGACCATTTGCCTTCCCGTAGTCCATGATTTCTTCTATGGATGGAAATAGTTGGAATAGAGAAGAAGTCAATATGGACACAATAGCTGCATGATTGATTACAATGACCTGATCAGAGTCAATGTGAGAGGAAACAGGAACACAGCATCCCAGTGACACAGGATTGAATTTACACATTTATGTAAAATTCAAAACTCACTCCTTAATCTTTGTTCCTATTTGACCCTTTCTCAGAGTGATTCTGCTATATGACTTATCCTGGGACCTTTAGTTAGGCCTGTTCTTCCAGTTTTGTTCATTTTGCAGTCATTGCATGAATTAGATATTGCCTTCTCATTGTTTTTCATTTTTCTTTGATTATTTTGATTAGTTTCATTTATATCTGGATTCTACTGAAGGATAAGTGTTTCTAAAACACTGAGACTTATTTTACTTGCTATCAAAATTTTAACAAGTTAAATTCACCTATTAGAATGTTCAGATTTTTAAAAATCTAAAGATATGTTTACTAGAGACAACACCCCTCTAAAAAAGTTTAAAATAAAGGGATGGATCTTCTGCAAAAGATGATGGGGAGTGGGGAGAAGGCATTTTTACTCTCTTCTTCTTTGACAATAAAATGACAAAAATGAAAATGTAGAGAAAAAATGCCATTTTCTTTTTTTTTGAGACATAGTCTTGTTCTGTCGTCCAGGCTGGAGTGCAGTAGGATGATCTTGACGCACTGCAACCTGTCTCCTGGGTTCAAGCAAGTCTCATGCCTCAGCCTTCTGAGTAACTGGGATTACAGGTGCATGCCACCACACCCAGCTAAATTTTTGTATTTTTAGTCGAGACAGGGTCTTGCTATGTTGCTCATGCTGGTCTCAAACTCCTGGACTCAAGTGATCCACCCGCCTCAGCCTTCCAAAGTGCGGGGATTACAGGCATGAGCCACTGTGCCTGGCTCAAAAATGCCATTTTCAAAGAATTGGAAAAGCTATTAAGACACAAACTACAAAATAGTATACCTTAGCAAATATTGTAAACAAGTGAACCTGAAACAAAGACTGAAAGCTGACTGTCTCCTTATTCCTTGAGCAGAATCCAGATTTCACCAAAAGTTCTTAAAGGCATTCAATGTTTATTTATGGGTGCTTGGATGAGGTCACTGGAGAAGACAAATGCCCTTTAGAAAACTTCTTTATTGCAGGGGTTTGAGTTTACTTGTCATTTCTATGATATATTCTCCTAGTCAACAACTGCAAGAGGTGAAGTAAGGTGGAGGAAGACGAGGCAATGATTGCTAAATCACAACACAACATACATTAACCCAAAGGGTGTTGTTGTGAGCTTTGGTGCAAAAAACTGGTAGTAGTAAAGGAAATACATTAGGTAGGAATGTGTTCCAGACAATAAACTTGTGTGAAATTCTTCGACTTGATTCCCCTTCTACTTATACTGTTCTTCAACATATTCCTGGCCCAATTCAAAGACTAGACTGTGCCTAAAAACATTTTTACAAATTGTAGTATAGAGACTTCCAGTTTCCAGTTCTGCATGTGAGGAACTTGAAAGCTGCCACTCCATTTTAACAACAAGTAAAAAGCTGAACTGACTGAAAAAATCAATAACTCTTCTTAGATTCATAAGAGAAGTAAGGAAGCAGAGCACACTGCTGCTTCCAGGATTAGAGTGTCATGCTTACCAGAGCAGAAAAGTCATGAACAGACACTGCCGTGGGAACAAGTGCCCAGGTAGGAAAACCTGAACTGTAATTGGCATATTAGTAGAGGCTCAGTGTGAATGAGTCTGAGGGTTAAATATTCCTGGGGACCTAGTCATAGGAACCCCTCCTTCCTTTTGTGAGTTTTACCTCTAGGCAGGTCGGCCTGGTTAGCCACGGTAAGTATCAGAGAAAAATCCCCTTGTGTTTCTGGCAGGCAGAGGGAAAAGGAACCATTTTGAAATATGCCAGATTAATCTGTTCTTAACAAGGCCTGCCTTTAGGGGAACTAGTTAACCACAGCCTGACCTACTGGGGTTTCATTGCTGCCTAATTTAGCTGAGGGACAGGAAGTAACCAGCTCCAGTTAGCTTTAGCCTTCCATGTGGGAGAAGGGAAATAACCCAATTCTAGCCTATGTAGCCATCCTGTCCCACTTAAGAGGGGTGAGAAAAAAATGATAAATACTTGTGGAGTTCGCAGTCCAGAAGCATAGGCTCACTAAAAGACTGAGGCTTAATCACAGGACTATAGAATGCTTCCCTTCCCCTCATACCTAATCACTACATTACTAAAGACCTATTTATGGCAGTTCCTTTTACCTGGCACACGATATCCGGCTATCAAGAAAAACATTACAGGACATTCTAAAAGACATAAAGAACGATTTGAAGAAACAGAGCAAGCATCAGAAGCAGACATGGAAGGGATGTTGCAATGATCAGACCAGGAATTTAAAACGACTATGATTAATTGCAAAGGACTCAAATAGATAAACTAGATTGTGTGCAAGAACAGAGGGACAATGTAAGCAGAGAGGTGGAAACCTTAAGAAAGAGCCAAAAAAAAGTGCTAGGAATCAAAAACACTGTAACAGAAATGAAGAATGCCTTTGATGGGCTTATTTAGTAGACTAGACACAGCTGAAGAAAGATCTCTGCGCTTAAAAATATAGTAATAGAGGCCAAGTGTGCTGGCTCACGCCTGTAATCCCATCACGTTGGGAGGCCAAGGTGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTGACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCAGACGTGGTGGTACATGCCTGTAGTCCTGGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCCGGGAGGTGGAGGTTGCAGTGAGCTGAGATCTCACCATTGCACTCCGGCCTGGGCTACAGAGCGAGACCCTGTCTCAAAAAGAAAAAGAAAAAGAAAAGATGTATTAATAGAAACCCTAAAACTGAAAAGCAGAAGACAAAGATTGAAAACAACAATGACAACAAAGAATATCCAAGGACTGTGGAACAACTACAGAAATGTAACATACAAGTAATGGGAATACTAGAGGGAGAAGATAGAAAAAAAAATAGAAGAATTATTTGAAAAGATAGTAATTAAGAATTTCCCTAAATTAATGTCAAACACCAAACTCCACATCCAGGAAGCTCAGAGACACAAAGCAAGGTATGCTCCACCTCCTGCCAAAAACCAAAACAAAACAAAACAACAACAACAAAACAGGGGTGGGTGCGGGGTGGCTCACCCCTGTACCCTGTAATCCCAGCACTTTGTGAGTCTGAGGTGGGCAGATCACAAGGTCAGGAGATTGAGACCATCCTGGCTAACACGGTGAAACTCCATCTCTACTAAAAATACCAAAATTAGCTGGCATGGTGGCACGTTCCTGAAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGCTTGAACCCAGTAGGTGGAGGTTGCAGTGAGCCAAGATCGCACCATGGCACTCCAGCCTGGGTGGCAGAGCGAGACTCCATCTCAAAAAAACAAAAACAAAACCCAAAAACACACACACAAACAAAACAAAACAAAAAAACGCAGAACACAACACTTAGGCACACTGTTTTCAATGAAAACGCAGAAAAAAATTCCTGAAGGAAACCAGTGGGGAAAAAAACTTCTTACCTGTAGAAGAACAAAGATAAGAATT"	""	""	"ENST00000256339"	""	6	"."	3	3	"."	0	"UNC79,intron_variant,,ENST00000256339,NM_020818.3;"	"-"	"ENSG00000133958"	"ENST00000256339"	"Transcript"	"intron_variant"	"-/8400"	"-/7377"	"-/2458"	""	""	""	"1"	NA	1	"UNC79"	"HGNC"	19966	"protein_coding"	"YES"	"CCDS9911.2"	"ENSP00000256339"	"Q9P2D8"	""	"UPI0000D62441"	"NM_020818.3"	NA	NA	""	"1/49"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGGGATAATCGTCAGTGGGATTGTTAAGGGAACTATACTTAGCTATTTAGCATGTCAAACCCTCTCCCATCTCAGTTTGTGGCACTGGCTTAAAAAAATAACTTTATTGAGATATAATTTACATATCATTCAATTCACTAGCATTGGCTTATTGACTAATGTTGTAAATGTGGATACTGGGGCCTAAAGGTCCTGGGATTTTTTTCCAGGTAGTTGCTACTGCCCTTTAGAAAAAAATGGAAAGCTTTTACAACTATAATAGGTGCCACATGTCCTGCCCCTCCTCCTATATTTACCAGAATCAGGTCACAGTAAAAATAAACAGAAGGACAGAAATTCTCAAGTACAGAAGTGCTCAGGGCTGGGTGCAATGGCTCATGACTATAATCTCAACACTTTGAGAGGCTGAGGAGGGAAGATTGCTTGAGACCAGGAGTTTGAGACCAGCTTGGGCAACATAGGGAGACCCTATCTCTACAAAAAAAAACCTTTTAATTAAAAAAATGTTATCAGGCCAGGCATGGTGACTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGTGGATCACTTGAAGTGAGGACTGTGAGACCAGCCTGGCCAACATGGTGAAACCCTGTCTATACTAAAAATACAAAAATTAGCGGGTTGTGGTGGCAGGTGCCTATAATCCCAGCTACTTGAAGGCTGAGGCAGGAGAATCACTAGAACCTGGGAGGCGGAGGTTGGCGTGAGCCGAGATTGTGCCACTGCACTCCAGCCTGGGTGACACAGTGATACTCCATCTCAAAAAAAAAAAAAAAAAAAATGTGATCAGACTACCAAATTTCACCAAATACTTGAGGAAAATCAATACCATAAAAAAGAAGTACCAAACTCAAGAAATAGAACTAATACTGAGAACTCAGAGTTAACATGGCAAGCAGAGAACGATTTTTAAAGCAAACATATTCTCATAGATTTGACAATGGAACATCCTTGACTATGAAGCAGAGATCTTGAATATTAAAAATATAATTATTAAGATGAAGAACTCAACATCTGCGCTAAATATCAGAGTGATACAGTCAAAGATCAAATTAGCTGCCAGAGTAAGCTGTGAAAGTCTTTAAGAGCATAGAGAAAAGACGAAGGAATTAGAAACAGTGAGAAAAAAGGGCACATGGAATATAGATTCAGGAATTTAATATCTGTCTAATAGGAATTTCAGATAGAGAAAATGGAAGGGAGGAAATAAAGGAGTCAAATAAAAGTTTCCCAGAGCTGGAAATGATAAAAGGCCTCAGATTGAAACAATCCGTCAACTGGAAGTAGAATAAATTATAAAAAGCCTACACCTAAATACATTCTGGTGAAATTTGAGAAGACAAAGGATAATGAGAAAATTCCAAAAGCTTTCAGACAGAAAAAAAGAGGTTGTCTACAAAGCAGTAATCACATCTTTTATTGTAGCACAATCTTTGCAGGCAATGAAACAACACTTTCAAAGATAGAAAAGAAAATGATTTTTTAACCAATTAGAATACTATACCTACCCAAAGTAACATTTAGGTGGGAGGGCAAACTAAAGATGTGCAAGGCCTTAAGGTTTCCCACGTGAGGTATTTCAGGTGGATTGTGGGTTGTAGAAAATGTTCCTTCCCTTCCTTGTCTGAGCAAAGATTTTTTAAAATTTATGATTTAACTAACTAAGGATATAAATGTTATCACAAATGAGTTGGTTACACAGAGCAGATCCGAAACAGTATCTGTTCAGTGCATCTTTCCATGGCTCTCAGGTTCTTAATGGGATGTATCATTGCTGGAGATGATGTCCAGCCAGAGCAGGGTCCTATGGATGTGGGAAAACTCAAGTCTTGCTAAGCTTTTATTATTTTATATATTTAGGGTTGAGGCGACCATTCAGAAATAACTTAATCCATGTGTTTCCATTAGTGTAAGCAAATACTAAGTTCTCTTGATTCTTTTTTTATTCTTTTTTTTTTTTTTTATTTGAGACAGGGTTTTACTCTGTCACCCAGGCTGGAGTACAGTGGCATGATCTTGGCTGACTGCAACCTCTGCCTCCGGGGTTCGAGCGATTCTTGTGCCTCAGCCTCCTGAGTAGCTGGGATCATAGGCGCGCAACACCACGACCAGCAAATTTGTGTATTTTTATTAGAGATGGGGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCAGGTGATCCACCTGCCTCAGCCTCCCAAAGTGCTGGGATTATAGGTGTGAGCCACCGTGCCCAGCCTTTCTTAATTCTTTTTATTTTACCCAATAAATATAAGTGCTAGGACTCTTGATTCTTAACCAAAAGACAGTATTACCAAGGACACATCCTCTGAGTAGAAAAAGCAGTTGATTCCCAGTGTTCCTGAGCCTCTTGTTTCACAGACATCTATTTTTTTCCCACAGCCCTCATCTCCTGCTCTTATCTGGGAGGCTTTCATACTGACTTTGATTTGAAGACATTGTAAATCCAGTTCTCCATTTCTTTCCTATTAAATAGTGATTAGAGGCTTCATTCCTGCAAAACAAATCTATTATCACATAGGAAGCAAAAATAAAAATAATAAAATAGTAAAAAAAGAAATCTAAGGACGAGGAAGAAATGGGTACAGGAAATAGTGGTGAAGAATGCCAGTCAAACAAAATAGTTAAGTCCAAGTAATAGTTGATTCATTAAGTCAAACAATTTAATAATCCAGAACTGAACCCTCAGATGGTAGAACATGTGTCGTGGTAAAAGTGGATGGTAGCCAGCAGGGAAGGCTATAAATACTGATACTGATGGAGATACTTTTGGCCAATGAAATTGTGTTCCTTTATCAATGCTGTGTGAGAAAAGAAAAAAAAGGGTATTCCTTCAAAATTTAAGGTTAACTATAAGAAGCAGGGAAATAGGCTGGATATTTTCCAAACCATTAGAGTAAAAACATGGAAAAGAAAATGAATCCAAAATGAAAAGGCAGAAAAGTTAGAGTAGCAACAATAGGTATGGTAAATTGAAAAAATAGGAAAAATAACATAAGAGGGTAGGAATAAATTTTAAAAGATTAGTAATCACAACAAATGTGTTGACTCCCTGTGTTAGTCCCTTGTCTTGGGAAGCCCATCTATCTTGAGCAGTGTTAAGGGCAGGTAGACCAATCTAGGCAATAGGCTTCCTAATTTACTCTCTTCATCTCTGACTTGAGAAAAAGTGACCATTTGCCTTCCCGTAGTCCATGATTTCTTCTATGGATGGAAATAGTTGGAATAGAGAAGAAGTCAATATGGACACAATAGCTGCATGATTGATTACAATGACCTGATCAGAGTCAATGTGAGAGGAAACAGGAACACAGCATCCCAGTGACACAGGATTGAATTTACACATTTATGTAAAATTCAAAACTCACTCCTTAATCTTTGTTCCTATTTGACCCTTTCTCAGAGTGATTCTGCTATATGACTTATCCTGGGACCTTTAGTTAGGCCTGTTCTTCCAGTTTTGTTCATTTTGCAGTCATTGCATGAATTAGATATTGCCTTCTCATTGTTTTTCATTTTTCTTTGATTATTTTGATTAGTTTCATTTATATCTGGATTCTACTGAAGGATAAGTGTTTCTAAAACACTGAGACTTATTTTACTTGCTATCAAAATTTTAACAAGTTAAATTCACCTATTAGAATGTTCAGATTTTTAAAAATCTAAAGATATGTTTACTAGAGACAACACCCCTCTAAAAAAGTTTAAAATAAAGGGATGGATCTTCTGCAAAAGATGATGGGGAGTGGGGAGAAGGCATTTTTACTCTCTTCTTCTTTGACAATAAAATGACAAAAATGAAAATGTAGAGAAAAAATGCCATTTTCTTTTTTTTTGAGACATAGTCTTGTTCTGTCGTCCAGGCTGGAGTGCAGTAGGATGATCTTGACGCACTGCAACCTGTCTCCTGGGTTCAAGCAAGTCTCATGCCTCAGCCTTCTGAGTAACTGGGATTACAGGTGCATGCCACCACACCCAGCTAAATTTTTGTATTTTTAGTCGAGACAGGGTCTTGCTATGTTGCTCATGCTGGTCTCAAACTCCTGGACTCAAGTGATCCACCCGCCTCAGCCTTCCAAAGTGCGGGGATTACAGGCATGAGCCACTGTGCCTGGCTCAAAAATGCCATTTTCAAAGAATTGGAAAAGCTATTAAGACACAAACTACAAAATAGTATACCTTAGCAAATATTGTAAACAAGTGAACCTGAAACAAAGACTGAAAGCTGACTGTCTCCTTATTCCTTGAGCAGAATCCAGATTTCACCAAAAGTTCTTAAAGGCATTCAATGTTTATTTATGGGTGCTTGGATGAGGTCACTGGAGAAGACAAATGCCCTTTAGAAAACTTCTTTATTGCAGGGGTTTGAGTTTACTTGTCATTTCTATGATATATTCTCCTAGTCAACAACTGCAAGAGGTGAAGTAAGGTGGAGGAAGACGAGGCAATGATTGCTAAATCACAACACAACATACATTAACCCAAAGGGTGTTGTTGTGAGCTTTGGTGCAAAAAACTGGTAGTAGTAAAGGAAATACATTAGGTAGGAATGTGTTCCAGACAATAAACTTGTGTGAAATTCTTCGACTTGATTCCCCTTCTACTTATACTGTTCTTCAACATATTCCTGGCCCAATTCAAAGACTAGACTGTGCCTAAAAACATTTTTACAAATTGTAGTATAGAGACTTCCAGTTTCCAGTTCTGCATGTGAGGAACTTGAAAGCTGCCACTCCATTTTAACAACAAGTAAAAAGCTGAACTGACTGAAAAAATCAATAACTCTTCTTAGATTCATAAGAGAAGTAAGGAAGCAGAGCACACTGCTGCTTCCAGGATTAGAGTGTCATGCTTACCAGAGCAGAAAAGTCATGAACAGACACTGCCGTGGGAACAAGTGCCCAGGTAGGAAAACCTGAACTGTAATTGGCATATTAGTAGAGGCTCAGTGTGAATGAGTCTGAGGGTTAAATATTCCTGGGGACCTAGTCATAGGAACCCCTCCTTCCTTTTGTGAGTTTTACCTCTAGGCAGGTCGGCCTGGTTAGCCACGGTAAGTATCAGAGAAAAATCCCCTTGTGTTTCTGGCAGGCAGAGGGAAAAGGAACCATTTTGAAATATGCCAGATTAATCTGTTCTTAACAAGGCCTGCCTTTAGGGGAACTAGTTAACCACAGCCTGACCTACTGGGGTTTCATTGCTGCCTAATTTAGCTGAGGGACAGGAAGTAACCAGCTCCAGTTAGCTTTAGCCTTCCATGTGGGAGAAGGGAAATAACCCAATTCTAGCCTATGTAGCCATCCTGTCCCACTTAAGAGGGGTGAGAAAAAAATGATAAATACTTGTGGAGTTCGCAGTCCAGAAGCATAGGCTCACTAAAAGACTGAGGCTTAATCACAGGACTATAGAATGCTTCCCTTCCCCTCATACCTAATCACTACATTACTAAAGACCTATTTATGGCAGTTCCTTTTACCTGGCACACGATATCCGGCTATCAAGAAAAACATTACAGGACATTCTAAAAGACATAAAGAACGATTTGAAGAAACAGAGCAAGCATCAGAAGCAGACATGGAAGGGATGTTGCAATGATCAGACCAGGAATTTAAAACGACTATGATTAATTGCAAAGGACTCAAATAGATAAACTAGATTGTGTGCAAGAACAGAGGGACAATGTAAGCAGAGAGGTGGAAACCTTAAGAAAGAGCCAAAAAAAAGTGCTAGGAATCAAAAACACTGTAACAGAAATGAAGAATGCCTTTGATGGGCTTATTTAGTAGACTAGACACAGCTGAAGAAAGATCTCTGCGCTTAAAAATATAGTAATAGAGGCCAAGTGTGCTGGCTCACGCCTGTAATCCCATCACGTTGGGAGGCCAAGGTGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTGACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCAGACGTGGTGGTACATGCCTGTAGTCCTGGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCCGGGAGGTGGAGGTTGCAGTGAGCTGAGATCTCACCATTGCACTCCGGCCTGGGCTACAGAGCGAGACCCTGTCTCAAAAAGAAAAAGAAAAAGAAAAGATGTATTAATAGAAACCCTAAAACTGAAAAGCAGAAGACAAAGATTGAAAACAACAATGACAACAAAGAATATCCAAGGACTGTGGAACAACTACAGAAATGTAACATACAAGTAATGGGAATACTAGAGGGAGAAGATAGAAAAAAAAATAGAAGAATTATTTGAAAAGATAGTAATTAAGAATTTCCCTAAATTAATGTCAAACACCAAACTCCACATCCAGGAAGCTCAGAGACACAAAGCAAGGTATGCTCCACCTCCTGCCAAAAACCAAAACAAAACAAAACAACAACAACAAAACAGGGGTGGGTGCGGGGTGGCTCACCCCTGTACCCTGTAATCCCAGCACTTTGTGAGTCTGAGGTGGGCAGATCACAAGGTCAGGAGATTGAGACCATCCTGGCTAACACGGTGAAACTCCATCTCTACTAAAAATACCAAAATTAGCTGGCATGGTGGCACGTTCCTGAAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGCTTGAACCCAGTAGGTGGAGGTTGCAGTGAGCCAAGATCGCACCATGGCACTCCAGCCTGGGTGGCAGAGCGAGACTCCATCTCAAAAAAACAAAAACAAAACCCAAAAACACACACACAAACAAAACAAAACAAAAAAACGCAGAACACAACACTTAGGCACACTGTTTTCAATGAAAACGCAGAAAAAAATTCCTGAAGGAAACCAGTGGGGAAAAAAACTTCTTACCTGTAGAAGAACAAAGATAAGAATTA"	"7c2b64ca-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3576"	"PRIMA1"	145270	"mskcc.org"	"GRCh37"	"14"	94255435	94255436	"+"	"5'Flank"	"INS"	"-"	"-"	"GCGCTCCCGCCC"	"rs150505255"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000393140"	""	9	"."	3	3	"."	0	"PRIMA1,upstream_gene_variant,,ENST00000393140,NM_178013.3;PRIMA1,upstream_gene_variant,,ENST00000393143,;PRIMA1,upstream_gene_variant,,ENST00000316227,;PRIMA1,upstream_gene_variant,,ENST00000477603,;"	"GCGCTCCCGCCC"	"ENSG00000175785"	"ENST00000393140"	"Transcript"	"upstream_gene_variant"	"-/3711"	"-/462"	"-/153"	""	""	"rs150505255"	"1"	"608"	-1	"PRIMA1"	"HGNC"	18319	"protein_coding"	"YES"	"CCDS9912.1"	"ENSP00000376848"	"Q86XR5"	""	"UPI0000051D0A"	"NM_178013.3"	NA	NA	""	""	""	"-:0.2083"	"GCGCTCCCGCCC:0.9077"	"GCGCTCCCGCCC:0.8545"	NA	"GCGCTCCCGCCC:0.6052"	"GCGCTCCCGCCC:0.8728"	"GCGCTCCCGCCC:0.6994"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"85c59e2e-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3577"	"TCL6"	27004	"mskcc.org"	"GRCh37"	"14"	96137377	96137378	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs34691297"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2025-290dupA"	""	""	"ENST00000467865"	""	7	"."	3	1	"."	0	"TCL6,intron_variant,,ENST00000467865,;TCL6,intron_variant,,ENST00000352367,;TCL6,intron_variant,,ENST00000459662,;TCL6,intron_variant,,ENST00000483087,;TCL6,intron_variant,,ENST00000495696,;RP11-1070N10.6,intron_variant,,ENST00000461160,;RP11-1070N10.6,intron_variant,,ENST00000495847,;RP11-1070N10.6,intron_variant,,ENST00000553913,;RP11-1070N10.6,intron_variant,,ENST00000488933,;TCL6,intron_variant,,ENST00000497248,;TCL6,intron_variant,,ENST00000484207,;TCL6,intron_variant,,ENST00000465501,;TCL6,intron_variant,,ENST00000357168,;TCL6,downstream_gene_variant,,ENST00000486671,;"	"A"	"ENSG00000187621"	"ENST00000467865"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3663"	""	""	""	""	"rs34691297"	"1"	NA	1	"TCL6"	"HGNC"	13463	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/4"	""	"A:0.1558"	"A:0.0651"	"A:0.2334"	NA	"A:0.0308"	"A:0.3419"	"A:0.1605"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"85e604de-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	TRUE
"3578"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	97832669	97832670	"+"	"IGR"	"INS"	"-"	"-"	"TCTC"	"rs34310179"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	5	4	"."	0	""	"TCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34310179"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"860e016e-280f-11e6-9f4f-03d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"3579"	"RP11-76E12.1"	100129345	"mskcc.org"	"GRCh37"	"14"	98100330	98100331	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs202147352"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.626-303dupT"	""	""	"ENST00000355909"	""	19	"."	4	3	"."	0	"RP11-76E12.1,intron_variant,,ENST00000355909,;RP11-76E12.1,intron_variant,,ENST00000556163,;"	"A"	"ENSG00000197176"	"ENST00000355909"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1670"	""	""	""	""	"rs202147352"	"1"	NA	-1	"RP11-76E12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"86107430-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"3580"	"RP11-61O1.1"	0	"mskcc.org"	"GRCh37"	"14"	98627111	98627112	"+"	"Intron"	"INS"	"-"	"-"	"CTT"	"rs147558219"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.121+44246_121+44248dupAAG"	""	""	"ENST00000555776"	""	6	"."	3	1	"."	0	"RP11-61O1.1,intron_variant,,ENST00000555776,;"	"CTT"	"ENSG00000259097"	"ENST00000555776"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/542"	""	""	""	""	"rs147558219"	"1"	NA	-1	"RP11-61O1.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"CTT:0.3235"	"CTT:0.3828"	"CTT:0.2882"	NA	"CTT:0.1885"	"CTT:0.4016"	"CTT:0.3272"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"861398d6-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3581"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	98825676	98825677	"+"	"IGR"	"INS"	"-"	"-"	"TTTCT"	"rs137984443"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	21	"."	4	2	"."	0	""	"TTTCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs137984443"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"8615976c-280f-11e6-9f4f-03d4414a729f"	"178"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"3582"	"WARS"	7453	"mskcc.org"	"GRCh37"	"14"	100809043	100809044	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs10636945"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.940-137_940-136dupAT"	""	""	"ENST00000355338"	""	13	"."	4	5	"."	0	"WARS,intron_variant,,ENST00000355338,NM_173701.1;WARS,intron_variant,,ENST00000392882,NM_004184.3;WARS,intron_variant,,ENST00000344102,NM_213646.1;WARS,intron_variant,,ENST00000556645,;WARS,intron_variant,,ENST00000358655,NM_213645.1;WARS,intron_variant,,ENST00000557135,;WARS,intron_variant,,ENST00000554601,;WARS,downstream_gene_variant,,ENST00000556504,;WARS,downstream_gene_variant,,ENST00000553395,;RP11-638I2.8,intron_variant,,ENST00000557226,;RP11-638I2.9,downstream_gene_variant,,ENST00000556212,;WARS,intron_variant,,ENST00000554950,;WARS,upstream_gene_variant,,ENST00000557614,;"	"AT"	"ENSG00000140105"	"ENST00000355338"	"Transcript"	"intron_variant"	"-/3092"	"-/1416"	"-/471"	""	""	"rs10636945"	"1"	NA	-1	"WARS"	"HGNC"	12729	"protein_coding"	"YES"	"CCDS9960.1"	"ENSP00000347495"	"P23381"	"P78534,G3V5W1,G3V5U1,G3V5H5,G3V4S4,G3V4N8,G3V4C7,G3V456,G3V423,G3V3Y5,G3V3X0,G3V3S7,G3V3R3,G3V3P2,G3V3H8,G3V339,G3V313,G3V2F2,G3V2C0,G3V277,G3V227,B4DTK8"	"UPI0000000E0E"	"NM_173701.1"	NA	NA	""	"8/10"	""	"-:0.0537"	"AT:0.8048"	"AT:0.987"	NA	"AT:1"	"AT:0.998"	"AT:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"8637c080-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3583"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	101567315	101567316	"+"	"IGR"	"INS"	"-"	"-"	"CA"	"rs74901819"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	4	8	"."	0	""	"CA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs74901819"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0170"	"CA:0.9803"	"CA:0.9928"	NA	"CA:0.9921"	"CA:0.9751"	"CA:0.9785"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"86579176-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3584"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	101956622	101956623	"+"	"IGR"	"INS"	"-"	"-"	"AAGGAGAAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	6	2	"."	0	""	"AAGGAGAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"86618744-280f-11e6-9f4f-03d4414a729f"	"355"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"3585"	"DYNC1H1"	1778	"mskcc.org"	"GRCh37"	"14"	102484159	102484160	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs10657093"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8177+319_8177+320dupAA"	""	""	"ENST00000360184"	""	17	"."	4	2	"."	0	"DYNC1H1,intron_variant,,ENST00000360184,NM_001376.4;DYNC1H1,upstream_gene_variant,,ENST00000555204,;"	"AA"	"ENSG00000197102"	"ENST00000360184"	"Transcript"	"intron_variant"	"-/14333"	"-/13941"	"-/4646"	""	""	"rs10657093"	"1"	NA	1	"DYNC1H1"	"HGNC"	2961	"protein_coding"	"YES"	"CCDS9966.1"	"ENSP00000348965"	"Q14204"	"Q92862,B4DSR6"	"UPI00001B515A"	"NM_001376.4"	NA	NA	""	"40/77"	""	"AA:0.2566"	"AA:0.4455"	"AA:0.1686"	NA	"AA:0.252"	"AA:0.0915"	"AA:0.2382"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"867ff364-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"3586"	"ANKRD9"	122416	"mskcc.org"	"GRCh37"	"14"	102975878	102975878	"+"	"5'UTR"	"DEL"	"G"	"G"	"-"	"rs200622845"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-347delC"	""	""	"ENST00000286918"	"1/4"	7	"."	3	2	"."	0	"ANKRD9,5_prime_UTR_variant,,ENST00000286918,NM_152326.2;ANKRD9,5_prime_UTR_variant,,ENST00000560748,;ANKRD9,upstream_gene_variant,,ENST00000559404,;ANKRD9,upstream_gene_variant,,ENST00000559651,;ANKRD9,upstream_gene_variant,,ENST00000557902,;"	"-"	"ENSG00000156381"	"ENST00000286918"	"Transcript"	"5_prime_UTR_variant"	"251/1645"	"-/954"	"-/317"	""	""	"rs200622845"	"1"	NA	-1	"ANKRD9"	"HGNC"	20096	"protein_coding"	"YES"	"CCDS9973.1"	"ENSP00000286918"	"Q96BM1"	"H0YNN1,H0YM08"	"UPI000000CC75"	"NM_152326.2"	NA	NA	"1/4"	""	""	"G:0.2490"	"-:0.8563"	"-:0.7478"	NA	"-:0.7272"	"-:0.6312"	"-:0.7587"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCGG"	"795c6406-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3587"	"CDC42BPB"	9578	"mskcc.org"	"GRCh37"	"14"	103474135	103474136	"+"	"Intron"	"INS"	"-"	"-"	"AGC"	"rs35035878"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.351+671_351+673dupGCT"	""	""	"ENST00000361246"	""	8	"."	4	3	"."	0	"CDC42BPB,intron_variant,,ENST00000361246,NM_006035.3;CDC42BPB,upstream_gene_variant,,ENST00000561271,;CDC42BPB,upstream_gene_variant,,ENST00000558321,;"	"AGC"	"ENSG00000198752"	"ENST00000361246"	"Transcript"	"intron_variant"	"-/6758"	"-/5136"	"-/1711"	""	""	"rs35035878"	"1"	NA	-1	"CDC42BPB"	"HGNC"	1738	"protein_coding"	"YES"	"CCDS9978.1"	"ENSP00000355237"	"Q9Y5S2"	""	"UPI000013D27E"	"NM_006035.3"	NA	NA	""	"3/36"	""	"AGC:0.3702"	"AGC:0.6014"	"AGC:0.2939"	NA	"AGC:0.13"	"AGC:0.3996"	"AGC:0.3292"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"86b173c6-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3588"	"CDC42BPB"	9578	"mskcc.org"	"GRCh37"	"14"	103474403	103474404	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs34525697"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.351+405dupA"	""	""	"ENST00000361246"	""	6	"."	4	1	"."	0	"CDC42BPB,intron_variant,,ENST00000361246,NM_006035.3;CDC42BPB,upstream_gene_variant,,ENST00000561271,;CDC42BPB,upstream_gene_variant,,ENST00000558321,;"	"T"	"ENSG00000198752"	"ENST00000361246"	"Transcript"	"intron_variant"	"-/6758"	"-/5136"	"-/1711"	""	""	"rs34525697"	"1"	NA	-1	"CDC42BPB"	"HGNC"	1738	"protein_coding"	"YES"	"CCDS9978.1"	"ENSP00000355237"	"Q9Y5S2"	""	"UPI000013D27E"	"NM_006035.3"	NA	NA	""	"3/36"	""	"T:0.1815"	"T:0.5628"	"T:0.1037"	NA	"T:0.002"	"T:0.0616"	"T:0.0297"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"86b6231c-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3589"	"MARK3"	4140	"mskcc.org"	"GRCh37"	"14"	103941805	103941805	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs33957550"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1482+259delA"	""	""	"ENST00000429436"	""	11	"."	5	1	"."	0	"MARK3,intron_variant,,ENST00000429436,NM_001128918.1,NM_001128919.1;MARK3,intron_variant,,ENST00000303622,NM_001128920.1,NM_002376.5;MARK3,intron_variant,,ENST00000416682,;MARK3,intron_variant,,ENST00000216288,;MARK3,intron_variant,,ENST00000440884,NM_001128921.1;MARK3,intron_variant,,ENST00000335102,;MARK3,intron_variant,,ENST00000553942,;MARK3,intron_variant,,ENST00000554627,;MARK3,intron_variant,,ENST00000556744,;MARK3,intron_variant,,ENST00000561314,;MARK3,intron_variant,,ENST00000561071,;MARK3,intron_variant,,ENST00000559274,;"	"-"	"ENSG00000075413"	"ENST00000429436"	"Transcript"	"intron_variant"	"-/3371"	"-/2262"	"-/753"	""	""	"rs33957550"	"1"	NA	1	"MARK3"	"HGNC"	6897	"protein_coding"	"YES"	"CCDS45165.1"	"ENSP00000411397"	"P27448"	"Q86U11"	"UPI00004567CC"	"NM_001128918.1,NM_001128919.1"	NA	NA	""	"13/17"	""	"A:0.0154"	"-:0.9425"	"-:0.9986"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"79d7a79c-280f-11e6-9f4f-03d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"3590"	"TDRD9"	122402	"mskcc.org"	"GRCh37"	"14"	104429822	104429822	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs33910910"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.420+312delC"	""	""	"ENST00000409874"	""	9	"."	3	2	"."	0	"TDRD9,intron_variant,,ENST00000409874,NM_153046.2;TDRD9,intron_variant,,ENST00000339063,;TDRD9,intron_variant,,ENST00000554571,;TDRD9,intron_variant,,ENST00000496087,;"	"-"	"ENSG00000156414"	"ENST00000409874"	"Transcript"	"intron_variant"	"-/4782"	"-/4149"	"-/1382"	""	""	"rs33910910"	"1"	NA	1	"TDRD9"	"HGNC"	20122	"protein_coding"	"YES"	"CCDS9987.2"	"ENSP00000387303"	"Q8NDG6"	""	"UPI0001642306"	"NM_153046.2"	NA	NA	""	"3/35"	""	"-:0.3225"	"-:0.2738"	"-:0.353"	NA	"-:0.3343"	"-:0.3579"	"-:0.318"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCC"	"7a26d3ee-280f-11e6-9f4f-03d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3591"	"CTD-3051D23.1"	0	"mskcc.org"	"GRCh37"	"14"	105308375	105308376	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"rs78297199"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000556430"	""	10	"."	4	1	"."	0	"CTD-3051D23.1,upstream_gene_variant,,ENST00000556430,;"	"T"	"ENSG00000258811"	"ENST00000556430"	"Transcript"	"upstream_gene_variant"	"-/3254"	""	""	""	""	"rs78297199"	"1"	"624"	1	"CTD-3051D23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0038"	"T:0.9864"	"T:0.9986"	NA	"T:1"	"T:1"	"T:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"87133930-280f-11e6-9f4f-03d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3592"	"IGHV1-18"	0	"mskcc.org"	"GRCh37"	"14"	106641282	106641283	"+"	"3'Flank"	"DEL"	"AA"	"AA"	"-"	"rs782693540"	NA	"JHCCPT5"	"JHCCPN5"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390605"	""	14	"."	7	2	"."	0	"IGHV1-18,downstream_gene_variant,,ENST00000390605,;SLC20A1P2,upstream_gene_variant,,ENST00000438667,;"	"-"	"ENSG00000211945"	"ENST00000390605"	"Transcript"	"downstream_gene_variant"	"-/410"	"-/351"	"-/117"	""	""	"rs782693540"	"1"	"280"	-1	"IGHV1-18"	"HGNC"	5549	"IG_V_gene"	"YES"	""	"ENSP00000375014"	""	""	"UPI000011AAD9"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAAA"	"7b38bdd8-280f-11e6-9f4f-03d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3593"	"IGHV4-61"	0	"mskcc.org"	"GRCh37"	"14"	107094032	107094032	"+"	"3'Flank"	"DEL"	"T"	"-"	"-"	"rs11290243"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390630"	""	6	"."	5	7	"."	0	"IGHV4-61,downstream_gene_variant,,ENST00000390630,;RNA5SP357,downstream_gene_variant,,ENST00000362610,;IGHVII-60-1,upstream_gene_variant,,ENST00000519079,;"	"-"	"ENSG00000211970"	"ENST00000390630"	"Transcript"	"downstream_gene_variant"	"-/455"	"-/354"	"-/118"	""	""	"rs11290243"	"1"	"1094"	-1	"IGHV4-61"	"HGNC"	5655	"IG_V_gene"	"YES"	""	"ENSP00000375039"	""	""	"UPI000011AAC5"	""	NA	NA	""	""	""	"-:0.3536"	"-:0.3079"	"-:0.2983"	NA	"-:0.3353"	"-:0.2455"	"-:0.5849"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"7b77e9d6-280f-11e6-9f4f-03d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3594"	"IGHV4-61"	0	"mskcc.org"	"GRCh37"	"14"	107099143	107099143	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"rs373482413"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390630"	""	27	"."	7	13	"."	0	"IGHV4-61,upstream_gene_variant,,ENST00000390630,;IGHV3-62,downstream_gene_variant,,ENST00000520057,;"	"-"	"ENSG00000211970"	"ENST00000390630"	"Transcript"	"upstream_gene_variant"	"-/455"	"-/354"	"-/118"	""	""	"rs373482413"	"1"	"3481"	-1	"IGHV4-61"	"HGNC"	5655	"IG_V_gene"	"YES"	""	"ENSP00000375039"	""	""	"UPI000011AAC5"	""	NA	NA	""	""	""	"-:0.3802"	"-:0.4486"	"-:0.3314"	NA	"-:0.3304"	"-:0.2972"	"-:0.4591"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAG"	"7b7b760a-280f-11e6-9f4f-03d4414a729f"	"323"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259259259259259	"WXS"	FALSE
"3595"	"IGHV1OR15-9"	0	"mskcc.org"	"GRCh37"	"15"	20172487	20172601	"+"	"5'Flank"	"DEL"	"CTAACCATATTTATCACCAAACAACTGTAGCACAATAACACTTTCCTTCTCTGGCTCCCAAATTTAAGTAGACTCGTGTCAGCCTTCCCTAACACTGTAATCATTCTTTGAGAGG"	"CTAACCATATTTATCACCAAACAACTGTAGCACAATAACACTTTCCTTCTCTGGCTCCCAAATTTAAGTAGACTCGTGTCAGCCTTCCCTAACACTGTAATCATTCTTTGAGAGG"	"TGA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CTAACCATATTTATCACCAAACAACTGTAGCACAATAACACTTTCCTTCTCTGGCTCCCAAATTTAAGTAGACTCGTGTCAGCCTTCCCTAACACTGTAATCATTCTTTGAGAGG"	"CTAACCATATTTATCACCAAACAACTGTAGCACAATAACACTTTCCTTCTCTGGCTCCCAAATTTAAGTAGACTCGTGTCAGCCTTCCCTAACACTGTAATCATTCTTTGAGAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000338912"	""	20	"."	4	7	"."	0	"IGHV1OR15-9,upstream_gene_variant,,ENST00000338912,;SLC20A1P3,downstream_gene_variant,,ENST00000555979,;"	"TGA"	"ENSG00000188403"	"ENST00000338912"	"Transcript"	"upstream_gene_variant"	"-/353"	"-/353"	"-/117"	""	""	""	"1"	"2133"	-1	"IGHV1OR15-9"	"HGNC"	5569	"IG_V_gene"	"YES"	""	"ENSP00000474639"	""	""	"UPI0000113A94"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACCTAACCATATTTATCACCAAACAACTGTAGCACAATAACACTTTCCTTCTCTGGCTCCCAAATTTAAGTAGACTCGTGTCAGCCTTCCCTAACACTGTAATCATTCTTTGAGAGGG"	"7e209cfa-280f-11e6-8e39-0ed4414a729f"	"212"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"3596"	"IGHD2OR15-2A"	0	"mskcc.org"	"GRCh37"	"15"	20210083	20210084	"+"	"3'Flank"	"INS"	"-"	"-"	"T"	"rs530561872"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000603077"	""	210	"."	3	103	"."	0	"IGHD2OR15-2A,downstream_gene_variant,,ENST00000603077,;IGHD3OR15-3A,downstream_gene_variant,,ENST00000604950,;IGHD5OR15-5A,upstream_gene_variant,,ENST00000604642,;IGHD4OR15-4A,upstream_gene_variant,,ENST00000603326,;"	"T"	"ENSG00000271197"	"ENST00000603077"	"Transcript"	"downstream_gene_variant"	"-/31"	"-/33"	"-/11"	""	""	"rs530561872"	"1"	"3571"	-1	"IGHD2OR15-2A"	"HGNC"	5493	"IG_D_gene"	"YES"	""	"ENSP00000474065"	""	""	"UPI0003335174"	""	NA	NA	""	""	""	"T:0.1683"	"T:0.0772"	"T:0.1844"	NA	"T:0.1875"	"T:0.2008"	"T:0.227"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	"0.1246"	"0.2627"	"0.3857"	"0.4444"	"0.5"	"0.3333"	"0"	"0.4174"	NA	"common_variant"	"CCT"	"7ea4e7b2-280f-11e6-8e39-0ed4414a729f"	"57"	0.371	"161/434"	"212/1702"	"31/118"	"27/70"	"8/18"	"2/4"	"2/6"	"0/0"	"91/218"	"VQSRTrancheINDEL99.00to99.50"	"FALSE"	0.0142857142857143	"WXS"	FALSE
"3597"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	20509768	20509795	"+"	"IGR"	"DEL"	"TCTGGCCCTGGCCCTGTCCCAGCCCTGC"	"TCTGGCCCTGGCCCTGTCCCAGCCCTGC"	"-"	"rs139376481"	NA	"JHCCPT5"	"JHCCPN5"	"TCTGGCCCTGGCCCTGTCCCAGCCCTGC"	"TCTGGCCCTGGCCCTGTCCCAGCCCTGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	28	"."	4	10	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139376481"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTCTGGCCCTGGCCCTGTCCCAGCCCTGCT"	"64e0f316-280f-11e6-8e39-0ed4414a729f"	"155"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"3598"	"RP11-509A17.3"	0	"mskcc.org"	"GRCh37"	"15"	20556972	20556973	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs56059945"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000557528"	""	18	"."	3	11	"."	0	"RP11-509A17.3,intron_variant,,ENST00000556397,;RP11-509A17.3,intron_variant,,ENST00000554815,;RP11-509A17.3,upstream_gene_variant,,ENST00000557528,;snoU13,downstream_gene_variant,,ENST00000459119,;"	"C"	"ENSG00000258654"	"ENST00000557528"	"Transcript"	"upstream_gene_variant"	"-/906"	""	""	""	""	"rs56059945"	"1"	"641"	1	"RP11-509A17.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7ecd0436-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3599"	"HERC2P3"	283755	"mskcc.org"	"GRCh37"	"15"	20612978	20612978	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs11342902"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.4041+23368delT"	""	""	"ENST00000428453"	""	8	"."	4	1	"."	0	"HERC2P3,intron_variant,,ENST00000428453,;HERC2P3,intron_variant,,ENST00000437318,;HERC2P3,intron_variant,,ENST00000426501,;HERC2P3,downstream_gene_variant,,ENST00000430598,;"	"-"	"ENSG00000180229"	"ENST00000428453"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4383"	""	""	""	""	"rs11342902"	"1"	NA	-1	"HERC2P3"	"HGNC"	4871	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"26/26"	""	"A:0.4042"	"-:0.6256"	"-:0.621"	NA	"-:0.5347"	"-:0.6083"	"-:0.5879"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAA"	"65146b92-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3600"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	21081121	21081122	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs562954961"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	6	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs562954961"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4688"	"A:0.4992"	"A:0.5115"	NA	"A:0.5546"	"A:0.5537"	"A:0.5409"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7ee2686c-280f-11e6-8e39-0ed4414a729f"	"236"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3601"	"RP11-69H14.6"	101927079	"mskcc.org"	"GRCh37"	"15"	22318825	22318825	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs35131467"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.100-52delC"	""	""	"ENST00000558896"	""	91	"."	42	8	"."	2	"RP11-69H14.6,intron_variant,,ENST00000558896,;RP11-69H14.6,intron_variant,,ENST00000558312,;RP11-69H14.6,intron_variant,,ENST00000560134,;RP11-69H14.6,intron_variant,,ENST00000560193,;RP11-69H14.6,intron_variant,,ENST00000557817,;RP11-69H14.6,intron_variant,,ENST00000558798,;RP11-69H14.6,intron_variant,,ENST00000560625,;RP11-69H14.6,intron_variant,,ENST00000557855,;RP11-69H14.6,intron_variant,,ENST00000559392,;OR11K1P,downstream_gene_variant,,ENST00000558299,;"	"-"	"ENSG00000259176"	"ENST00000558896"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2317"	""	""	""	""	"rs35131467"	"1"	NA	1	"RP11-69H14.6"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/6"	""	"C:0.4844"	"-:0.4947"	"-:0.6542"	NA	"-:0.4901"	"-:0.508"	"-:0.4796"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACA"	"655a15ac-280f-11e6-8e39-0ed4414a729f"	"2455"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"3602"	"ABCB10P1"	0	"mskcc.org"	"GRCh37"	"15"	22691260	22691260	"+"	"RNA"	"DEL"	"T"	"T"	"-"	"rs201915154"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1941delA"	""	""	"ENST00000558695"	"1/1"	28	"."	3	12	"."	0	"ABCB10P1,non_coding_transcript_exon_variant,,ENST00000558695,;"	"-"	"ENSG00000259689"	"ENST00000558695"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1941/2185"	""	""	""	""	"rs201915154"	"1"	NA	-1	"ABCB10P1"	"HGNC"	14114	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATC"	"6593d8f0-280f-11e6-8e39-0ed4414a729f"	"75"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WXS"	FALSE
"3603"	"GOLGA6L1"	645202	"mskcc.org"	"GRCh37"	"15"	22741020	22741021	"+"	"Intron"	"INS"	"-"	"-"	"ATAAAAAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.580-187_580-186insTAAAAAGA"	""	""	"ENST00000316397"	""	14	"."	3	2	"."	0	"GOLGA6L1,intron_variant,,ENST00000316397,NM_001001413.3,NM_001271664.1;GOLGA6L1,intron_variant,,ENST00000560659,;"	"ATAAAAAG"	"ENSG00000197414"	"ENST00000316397"	"Transcript"	"intron_variant"	"-/3822"	"-/2007"	"-/668"	""	""	""	"1"	NA	1	"GOLGA6L1"	"HGNC"	37444	"protein_coding"	"YES"	"CCDS53919.1"	"ENSP00000320207"	""	"I3L087"	"UPI0001929533"	"NM_001001413.3,NM_001271664.1"	NA	NA	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7f291cb2-280f-11e6-8e39-0ed4414a729f"	"17"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"3604"	"CYFIP1"	23191	"mskcc.org"	"GRCh37"	"15"	22943123	22943123	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs113124856"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1111-1917delG"	""	""	"ENST00000313077"	""	9	"."	4	1	"."	0	"CYFIP1,intron_variant,,ENST00000313077,NM_014608.2;CYFIP1,intron_variant,,ENST00000560848,NM_001287810.1;CYFIP1,upstream_gene_variant,,ENST00000557859,;"	"-"	"ENSG00000068793"	"ENST00000313077"	"Transcript"	"intron_variant"	"-/6863"	"-/3762"	"-/1253"	""	""	"rs113124856"	"1"	NA	1	"CYFIP1"	"HGNC"	13759	"protein_coding"	"YES"	"CCDS10009.1"	"ENSP00000324549"	"Q7L576"	"H0YLJ5,H0YL39"	"UPI0000163A89"	"NM_014608.2"	NA	NA	""	"11/30"	""	"G:0.0709"	"-:0.9713"	"-:0.9568"	NA	"-:0.8829"	"-:0.9294"	"-:0.8998"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"65a79084-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3605"	"NIPA1"	123606	"mskcc.org"	"GRCh37"	"15"	23048393	23048394	"+"	"3'UTR"	"DEL"	"AC"	"AC"	"-"	"rs10611411"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*435_*436delGT"	""	""	"ENST00000337435"	"5/5"	13	"."	4	2	"."	0	"NIPA1,3_prime_UTR_variant,,ENST00000437912,;NIPA1,3_prime_UTR_variant,,ENST00000337435,NM_144599.4,NM_001142275.1;NIPA1,3_prime_UTR_variant,,ENST00000538684,;NIPA1,3_prime_UTR_variant,,ENST00000561183,;NIPA1,3_prime_UTR_variant,,ENST00000559448,;NIPA1,downstream_gene_variant,,ENST00000557930,;NIPA1,downstream_gene_variant,,ENST00000560069,;"	"-"	"ENSG00000170113"	"ENST00000337435"	"Transcript"	"3_prime_UTR_variant"	"1450-1451/6567"	"-/990"	"-/329"	""	""	"rs10611411"	"1"	NA	-1	"NIPA1"	"HGNC"	17043	"protein_coding"	"YES"	"CCDS10011.1"	"ENSP00000337452"	"Q7RTP0"	"Q3SYP4"	"UPI00001D9756"	"NM_144599.4,NM_001142275.1"	NA	NA	"5/5"	""	""	"-:0.4131"	"-:0.1082"	"-:0.6081"	NA	"-:0.5853"	"-:0.3748"	"-:0.5491"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTACA"	"65b4f882-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3606"	"AC100757.1"	0	"mskcc.org"	"GRCh37"	"15"	23448822	23448823	"+"	"3'Flank"	"DEL"	"TC"	"TC"	"-"	"rs374808041"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000458911"	""	17	"."	4	2	"."	0	"AC100757.1,downstream_gene_variant,,ENST00000458911,;RN7SL106P,downstream_gene_variant,,ENST00000488468,;GOLGA8EP,downstream_gene_variant,,ENST00000526079,;GOLGA8EP,downstream_gene_variant,,ENST00000530246,;"	"-"	"ENSG00000238347"	"ENST00000458911"	"Transcript"	"downstream_gene_variant"	"-/83"	""	""	""	""	"rs374808041"	"1"	"3972"	1	"AC100757.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTCT"	"65c0c4be-280f-11e6-8e39-0ed4414a729f"	"171"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"3607"	"GOLGA6L2"	283685	"mskcc.org"	"GRCh37"	"15"	23685826	23685828	"+"	"In_Frame_Del"	"DEL"	"TCT"	"TCT"	"-"	"rs766696615"	NA	"JHCCPT5"	"JHCCPN5"	"TCT"	"TCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1794_1796delAGA"	"p.Glu598del"	"p.E598del"	"ENST00000567107"	"8/8"	265	"."	3	74	"."	0	"GOLGA6L2,inframe_deletion,p.Glu598del,ENST00000567107,;GOLGA6L2,intron_variant,,ENST00000312015,;GOLGA6L2,intron_variant,,ENST00000345070,;GOLGA6L2,3_prime_UTR_variant,,ENST00000566571,;"	"-"	"ENSG00000174450"	"ENST00000567107"	"Transcript"	"inframe_deletion"	"1847-1849/3030"	"1794-1796/2730"	"598-599/909"	"ED/D"	"gaAGAt/gat"	"rs766696615,COSM1477981,COSM1477980"	"1"	NA	-1	"GOLGA6L2"	"HGNC"	26695	"protein_coding"	"YES"	""	"ENSP00000454407"	""	"H3BMJ4"	"UPI00024672CE"	""	NA	NA	"8/8"	""	"Low_complexity_(Seg):seg"	""	""	""	NA	""	""	""	""	""	""	"0,1,1"	NA	""	NA	""	NA	"MODERATE"	"1"	"deletion"	NA	NA	"0,1,1"	"1"	"0.2108"	"0.375"	"0.4817"	"0.4747"	"0.1154"	"0.4445"	"0.4569"	"0.4684"	NA	"common_variant"	"CATCTT"	"6624b2f8-280f-11e6-8e39-0ed4414a729f"	"107"	0.4592	"5059/11016"	"5142/24396"	"108/288"	"79/164"	"75/158"	"3/26"	"1242/2794"	"53/116"	"3499/7470"	"VQSRTrancheINDEL99.00to99.50"	"FALSE"	0.0113207547169811	"WXS"	FALSE
"3608"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	24057126	24057131	"+"	"IGR"	"DEL"	"GGAGGA"	"GGAGGA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GGAGGA"	"GGAGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	4	8	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGGAGGAG"	"662f389a-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3609"	"ATP10A"	57194	"mskcc.org"	"GRCh37"	"15"	25927497	25927498	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs5811393"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3492+935_3492+936delCT"	""	""	"ENST00000356865"	""	6	"."	4	3	"."	0	"ATP10A,intron_variant,,ENST00000356865,NM_024490.3;ATP10A,downstream_gene_variant,,ENST00000555756,;ATP10A,intron_variant,,ENST00000555815,;ATP10A,intron_variant,,ENST00000555450,;"	"-"	"ENSG00000206190"	"ENST00000356865"	"Transcript"	"intron_variant"	"-/6680"	"-/4500"	"-/1499"	""	""	"rs5811393"	"1"	NA	-1	"ATP10A"	"HGNC"	13542	"protein_coding"	"YES"	"CCDS32178.1"	"ENSP00000349325"	"O60312"	""	"UPI0000124FAB"	"NM_024490.3"	NA	NA	""	"17/20"	""	"AG:0.4457"	"-:0.7564"	"-:0.6715"	NA	"-:0.4365"	"-:0.5199"	"-:0.3548"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATAGA"	"66645a66-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3610"	"GABRG3"	2567	"mskcc.org"	"GRCh37"	"15"	27274585	27274586	"+"	"Intron"	"DEL"	"CA"	"CA"	"-"	"rs10564490"	NA	"JHCCPT5"	"JHCCPN5"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.270+2634_270+2635delAC"	""	""	"ENST00000333743"	""	7	"."	4	2	"."	0	"GABRG3,intron_variant,,ENST00000333743,NM_033223.4;GABRG3,intron_variant,,ENST00000555083,NM_001270873.1;GABRG3,downstream_gene_variant,,ENST00000553440,;"	"-"	"ENSG00000182256"	"ENST00000333743"	"Transcript"	"intron_variant"	"-/2004"	"-/1404"	"-/467"	""	""	"rs10564490"	"1"	NA	1	"GABRG3"	"HGNC"	4088	"protein_coding"	"YES"	"CCDS45195.1"	"ENSP00000331912"	"Q99928"	""	"UPI000012AFCB"	"NM_033223.4"	NA	NA	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCAC"	"66a7e72c-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3611"	"GABRG3"	2567	"mskcc.org"	"GRCh37"	"15"	27500035	27500036	"+"	"Intron"	"INS"	"-"	"-"	"ACAG"	"rs3068395"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.271-71905_271-71902dupGACA"	""	""	"ENST00000333743"	""	8	"."	3	1	"."	0	"GABRG3,intron_variant,,ENST00000333743,NM_033223.4;GABRG3,intron_variant,,ENST00000555083,NM_001270873.1;"	"ACAG"	"ENSG00000182256"	"ENST00000333743"	"Transcript"	"intron_variant"	"-/2004"	"-/1404"	"-/467"	""	""	"rs3068395"	"1"	NA	1	"GABRG3"	"HGNC"	4088	"protein_coding"	"YES"	"CCDS45195.1"	"ENSP00000331912"	"Q99928"	""	"UPI000012AFCB"	"NM_033223.4"	NA	NA	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"19"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7fd2fcdc-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3612"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	27967871	27967878	"+"	"IGR"	"DEL"	"TTCTTTCT"	"TTCTTTCT"	"-"	"rs150465820"	NA	"JHCCPT5"	"JHCCPN5"	"TTCTTTCT"	"TTCTTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150465820"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTCTTTCTT"	"66c2ba66-280f-11e6-8e39-0ed4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3613"	"OCA2"	4948	"mskcc.org"	"GRCh37"	"15"	28046070	28046071	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs34634396"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2432+44034_2432+44035delAT"	""	""	"ENST00000354638"	""	8	"."	5	1	"."	0	"OCA2,intron_variant,,ENST00000354638,NM_000275.2;OCA2,intron_variant,,ENST00000353809,;"	"-"	"ENSG00000104044"	"ENST00000354638"	"Transcript"	"intron_variant"	"-/3186"	"-/2517"	"-/838"	""	""	"rs34634396"	"1"	NA	-1	"OCA2"	"HGNC"	8101	"protein_coding"	"YES"	"CCDS10020.1"	"ENSP00000346659"	"Q04671"	"C9JDV3"	"UPI000013D158"	"NM_000275.2"	NA	NA	""	"23/23"	""	"AT:0.4345"	"-:0.503"	"-:0.5706"	NA	"-:0.4365"	"-:0.5775"	"-:0.7669"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCATC"	"66c59d44-280f-11e6-8e39-0ed4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"3614"	"OCA2"	4948	"mskcc.org"	"GRCh37"	"15"	28242386	28242387	"+"	"Intron"	"INS"	"-"	"-"	"GAAA"	"rs150570624"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1045-6597_1045-6594dupTTTC"	""	""	"ENST00000354638"	""	25	"."	4	5	"."	0	"OCA2,intron_variant,,ENST00000354638,NM_000275.2;OCA2,intron_variant,,ENST00000353809,;OCA2,intron_variant,,ENST00000382996,;"	"GAAA"	"ENSG00000104044"	"ENST00000354638"	"Transcript"	"intron_variant"	"-/3186"	"-/2517"	"-/838"	""	""	"rs150570624"	"1"	NA	-1	"OCA2"	"HGNC"	8101	"protein_coding"	"YES"	"CCDS10020.1"	"ENSP00000346659"	"Q04671"	"C9JDV3"	"UPI000013D158"	"NM_000275.2"	NA	NA	""	"9/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"7ff07848-280f-11e6-8e39-0ed4414a729f"	"192"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WXS"	FALSE
"3615"	"RP11-578F21.9"	0	"mskcc.org"	"GRCh37"	"15"	29009354	29009355	"+"	"5'Flank"	"INS"	"-"	"-"	"TTTG"	"rs199574700"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000562515"	""	63	"."	3	36	"."	0	"RP11-578F21.9,upstream_gene_variant,,ENST00000562515,;"	"TTTG"	"ENSG00000260844"	"ENST00000562515"	"Transcript"	"upstream_gene_variant"	"-/712"	""	""	""	""	"rs199574700"	"1"	"57"	-1	"RP11-578F21.9"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"8011dc40-280f-11e6-8e39-0ed4414a729f"	"59"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0476190476190476	"WXS"	FALSE
"3616"	"TRPM1"	4308	"mskcc.org"	"GRCh37"	"15"	31378237	31378238	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs148887135"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55-9051dupT"	""	""	"ENST00000542188"	""	9	"."	5	1	"."	0	"TRPM1,intron_variant,,ENST00000542188,NM_001252020.1;TRPM1,intron_variant,,ENST00000397795,NM_002420.5;TRPM1,intron_variant,,ENST00000256552,NM_001252024.1;TRPM1,intron_variant,,ENST00000558445,;TRPM1,intron_variant,,ENST00000559177,;TRPM1,intron_variant,,ENST00000559179,NM_001252030.1;TRPM1,intron_variant,,ENST00000560658,;"	"A"	"ENSG00000134160"	"ENST00000542188"	"Transcript"	"intron_variant"	"-/5715"	"-/4929"	"-/1642"	""	""	"rs148887135"	"1"	NA	-1	"TRPM1"	"HGNC"	7146	"protein_coding"	"YES"	"CCDS58347.1"	"ENSP00000437849"	"Q7Z4N2"	"H0YKU7"	"UPI0001DBB3A9"	"NM_001252020.1"	NA	NA	""	"1/26"	""	"A:0.2426"	"A:0.1339"	"A:0.3732"	NA	"A:0.1895"	"A:0.2455"	"A:0.3487"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"805dfb52-280f-11e6-8e39-0ed4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3617"	"RP11-126F18.2"	0	"mskcc.org"	"GRCh37"	"15"	31745406	31745406	"+"	"RNA"	"DEL"	"C"	"C"	"-"	"rs58902872"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.937delG"	""	""	"ENST00000559109"	"1/1"	57	"."	10	29	"."	0	"RP11-126F18.2,non_coding_transcript_exon_variant,,ENST00000559109,;"	"-"	"ENSG00000259696"	"ENST00000559109"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"937/939"	""	""	""	""	"rs58902872"	"1"	NA	-1	"RP11-126F18.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"-:0.3207"	"-:0.1664"	"-:0.3415"	NA	"-:0.6617"	"-:0.2753"	"-:0.2096"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCC"	"677c83ce-280f-11e6-8e39-0ed4414a729f"	"596"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175438596491228	"WXS"	FALSE
"3618"	"OTUD7A"	161725	"mskcc.org"	"GRCh37"	"15"	31918188	31918189	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs35053332"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.151+29110dupT"	""	""	"ENST00000307050"	""	13	"."	4	3	"."	0	"OTUD7A,intron_variant,,ENST00000382902,;OTUD7A,intron_variant,,ENST00000307050,NM_130901.1;OTUD7A,intron_variant,,ENST00000560598,;OTUD7A,intron_variant,,ENST00000560536,;OTUD7A,intron_variant,,ENST00000558371,;"	"A"	"ENSG00000169918"	"ENST00000307050"	"Transcript"	"intron_variant"	"-/3042"	"-/2781"	"-/926"	""	""	"rs35053332"	"1"	NA	-1	"OTUD7A"	"HGNC"	20718	"protein_coding"	"YES"	"CCDS10026.1"	"ENSP00000305926"	"Q8TE49"	"H0YN66"	"UPI0000073AA5"	"NM_130901.1"	NA	NA	""	"1/10"	""	"A:0.3367"	"A:0.6997"	"A:0.2622"	NA	"A:0.247"	"A:0.1978"	"A:0.1339"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"806d9a30-280f-11e6-8e39-0ed4414a729f"	"102"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3619"	"AC135983.2"	101060588	"mskcc.org"	"GRCh37"	"15"	32783981	32784023	"+"	"3'Flank"	"DEL"	"TTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTGTC"	"TTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTGTC"	"CTTTCTTTCTTTCTTTCT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTGTC"	"TTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTGTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000593303"	""	10	"."	3	6	"."	0	"AC135983.2,downstream_gene_variant,,ENST00000593303,;RP11-632K20.6,upstream_gene_variant,,ENST00000564116,;RP11-632K20.2,downstream_gene_variant,,ENST00000528049,;"	"CTTTCTTTCTTTCTTTCT"	"ENSG00000268759"	"ENST00000593303"	"Transcript"	"downstream_gene_variant"	"-/5466"	"-/561"	"-/186"	""	""	""	"1"	"3694"	1	"AC135983.2"	"Clone_based_ensembl_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000471732"	""	"M0R198"	"UPI000013F87B"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTGTCC"	"7e3a628e-280f-11e6-8e39-0ed4414a729f"	"57"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3620"	"FMN1"	342184	"mskcc.org"	"GRCh37"	"15"	33152348	33152349	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs35335246"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3167-3041_3167-3040delCT"	""	""	"ENST00000334528"	""	24	"."	5	9	"."	0	"FMN1,intron_variant,,ENST00000334528,NM_001103184.3;FMN1,intron_variant,,ENST00000559047,NM_001277313.1;FMN1,intron_variant,,ENST00000561249,;FMN1,intron_variant,,ENST00000559610,;FMN1,intron_variant,,ENST00000558882,;"	"-"	"ENSG00000248905"	"ENST00000334528"	"Transcript"	"intron_variant"	"-/12355"	"-/3591"	"-/1196"	""	""	"rs35335246"	"1"	NA	-1	"FMN1"	"HGNC"	3768	"protein_coding"	"YES"	"CCDS45209.1"	"ENSP00000333950"	"Q68DA7"	""	"UPI00004086C3"	"NM_001103184.3"	NA	NA	""	"12/16"	""	"-:0.1288"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"67be92dc-280f-11e6-8e39-0ed4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WXS"	FALSE
"3621"	"GOLGA8A"	23015	"mskcc.org"	"GRCh37"	"15"	34808355	34808356	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1598+21189dupA"	""	""	"ENST00000543376"	""	32	"."	4	33	"."	0	"GOLGA8A,intron_variant,,ENST00000543376,;"	"T"	"ENSG00000175265"	"ENST00000543376"	"Transcript"	"intron_variant"	"-/6478"	"-/1383"	"-/460"	""	""	""	"1"	NA	-1	"GOLGA8A"	"HGNC"	31972	"protein_coding"	""	""	"ENSP00000438613"	""	"F5H2E4"	"UPI000019C424"	""	NA	NA	""	"8/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"8110a69e-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"3622"	"DPH6"	89978	"mskcc.org"	"GRCh37"	"15"	35834917	35834918	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs35660588"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.24-211_24-210dupTA"	""	""	"ENST00000256538"	""	13	"."	6	5	"."	0	"DPH6,intron_variant,,ENST00000440392,NM_001141972.1;DPH6,intron_variant,,ENST00000256538,NM_080650.3;DPH6,intron_variant,,ENST00000561411,;DPH6-AS1,upstream_gene_variant,,ENST00000501169,;DPH6-AS1,upstream_gene_variant,,ENST00000559210,;DPH6,intron_variant,,ENST00000559585,;DPH6,upstream_gene_variant,,ENST00000559784,;DPH6,intron_variant,,ENST00000560526,;"	"TA"	"ENSG00000134146"	"ENST00000256538"	"Transcript"	"intron_variant"	"-/2099"	"-/804"	"-/267"	""	""	"rs35660588"	"1"	NA	-1	"DPH6"	"HGNC"	30543	"protein_coding"	"YES"	"CCDS10043.1"	"ENSP00000256538"	"Q7L8W6"	"H0YND7"	"UPI000007296C"	"NM_080650.3"	NA	NA	""	"1/8"	""	"TA:0.2602"	"TA:0.5643"	"TA:0.1571"	NA	"TA:0.1696"	"TA:0.1431"	"TA:0.136"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"8149b236-280f-11e6-8e39-0ed4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"3623"	"DPH6-AS1"	100507466	"mskcc.org"	"GRCh37"	"15"	35922382	35922383	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs35233307"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.280-81517dupC"	""	""	"ENST00000501169"	""	7	"."	3	1	"."	0	"DPH6-AS1,intron_variant,,ENST00000501169,;DPH6-AS1,intron_variant,,ENST00000559210,;"	"C"	"ENSG00000248079"	"ENST00000501169"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1477"	""	""	""	""	"rs35233307"	"1"	NA	1	"DPH6-AS1"	"HGNC"	44147	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"814a969c-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3624"	"RP11-624L4.1"	0	"mskcc.org"	"GRCh37"	"15"	39354404	39354405	"+"	"Intron"	"INS"	"-"	"-"	"TAAA"	"rs34979626"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.170+9296_170+9299dupTTTA"	""	""	"ENST00000560197"	""	9	"."	4	2	"."	0	"RP11-624L4.1,intron_variant,,ENST00000560197,;RP11-624L4.1,intron_variant,,ENST00000561058,;RP11-624L4.1,intron_variant,,ENST00000560484,;"	"TAAA"	"ENSG00000259345"	"ENST00000560197"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1378"	""	""	""	""	"rs34979626"	"1"	NA	-1	"RP11-624L4.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/7"	""	"TAAA:0.4145"	"TAAA:0.1641"	"TAAA:0.4539"	NA	"TAAA:0.6359"	"TAAA:0.3926"	"TAAA:0.5194"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"8194c4f6-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3625"	"CASC5"	57082	"mskcc.org"	"GRCh37"	"15"	40943489	40943490	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs71816272"	NA	"JHCCPT5"	"JHCCPN5"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6291-176_6291-175delTA"	""	""	"ENST00000346991"	""	30	"."	3	4	"."	0	"CASC5,intron_variant,,ENST00000346991,;CASC5,intron_variant,,ENST00000399668,NM_144508.4,NM_170589.4;CASC5,downstream_gene_variant,,ENST00000532406,;CTD-2339L15.3,downstream_gene_variant,,ENST00000559841,;CASC5,intron_variant,,ENST00000526913,;CASC5,intron_variant,,ENST00000532347,;CASC5,downstream_gene_variant,,ENST00000528967,;"	"-"	"ENSG00000137812"	"ENST00000346991"	"Transcript"	"intron_variant"	"-/9573"	"-/7029"	"-/2342"	""	""	"rs71816272"	"1"	NA	1	"CASC5"	"HGNC"	24054	"protein_coding"	"YES"	"CCDS42023.1"	"ENSP00000335463"	"Q8NG31"	""	"UPI0000E59BD3"	""	NA	NA	""	"20/26"	""	"TA:0.3482"	"-:0.7284"	"-:0.6124"	NA	"-:0.3522"	"-:0.8509"	"-:0.68"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTTAT"	"6a0ef950-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WXS"	TRUE
"3626"	"CEP152"	22995	"mskcc.org"	"GRCh37"	"15"	49012345	49012346	"+"	"Intron"	"INS"	"-"	"AGA"	"AGA"	"rs10675073"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.143-2980_143-2979insTCT"	""	""	"ENST00000561245"	""	9	"."	7	1	"."	0	"CEP152,intron_variant,,ENST00000561245,;"	"AGA"	"ENSG00000103995"	"ENST00000561245"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/577"	"-/195"	"-/64"	""	""	"rs10675073"	"1"	NA	-1	"CEP152"	"HGNC"	29298	"nonsense_mediated_decay"	""	""	"ENSP00000453591"	""	"H0YMG1"	"UPI00022F84BB"	""	NA	NA	""	"2/3"	""	"-:0.1715"	"AGA:0.7163"	"AGA:0.8069"	NA	"AGA:0.996"	"AGA:0.7724"	"AGA:0.8804"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"841f9f66-280f-11e6-8e39-0ed4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	FALSE
"3627"	"SECISBP2L"	9728	"mskcc.org"	"GRCh37"	"15"	49285288	49285289	"+"	"Intron"	"INS"	"-"	"-"	"AGAGAG"	"rs140847057"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2624-171_2624-166dupCTCTCT"	""	""	"ENST00000559471"	""	61	"."	4	12	"."	0	"SECISBP2L,intron_variant,,ENST00000559471,NM_001193489.1;SECISBP2L,intron_variant,,ENST00000261847,NM_014701.3;SECISBP2L,intron_variant,,ENST00000561428,;SECISBP2L,downstream_gene_variant,,ENST00000380927,;Y_RNA,downstream_gene_variant,,ENST00000384377,;"	"AGAGAG"	"ENSG00000138593"	"ENST00000559471"	"Transcript"	"intron_variant"	"-/7176"	"-/3306"	"-/1101"	""	""	"rs140847057"	"1"	NA	-1	"SECISBP2L"	"HGNC"	28997	"protein_coding"	"YES"	"CCDS53942.1"	"ENSP00000453854"	"Q93073"	"J3KPI1"	"UPI00001C1F8B"	"NM_001193489.1"	NA	NA	""	"17/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"842f9132-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0655737704918033	"WXS"	FALSE
"3628"	"ATP8B4"	79895	"mskcc.org"	"GRCh37"	"15"	50423232	50423233	"+"	"Intron"	"INS"	"-"	"-"	"GAAGGA"	"rs111262440"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-42-24033_-42-24028dupTCCTTC"	""	""	"ENST00000558829"	""	6	"."	3	1	"."	0	"ATP8B4,intron_variant,,ENST00000558829,;"	"GAAGGA"	"ENSG00000104043"	"ENST00000558829"	"Transcript"	"intron_variant"	"-/759"	"-/160"	"-/53"	""	""	"rs111262440"	"1"	NA	-1	"ATP8B4"	"HGNC"	13536	"protein_coding"	""	""	"ENSP00000453539"	""	"H0YMB5"	"UPI00022F8544"	""	NA	NA	""	"1/3"	""	"GAAGGA:0.2983"	"GAAGGA:0.0772"	"GAAGGA:0.3084"	NA	"GAAGGA:0.4573"	"GAAGGA:0.3956"	"GAAGGA:0.3262"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"847a118a-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3629"	"GABPB1"	2553	"mskcc.org"	"GRCh37"	"15"	50581976	50581977	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTT"	"rs140176493"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.734-112_734-111insAAAAAAA"	""	""	"ENST00000220429"	""	44	"."	5	12	"."	0	"GABPB1,intron_variant,,ENST00000380877,NM_005254.5,NM_016654.4;GABPB1,intron_variant,,ENST00000220429,;GABPB1,intron_variant,,ENST00000359031,NM_181427.3;GABPB1,intron_variant,,ENST00000543881,;GABPB1,intron_variant,,ENST00000560825,;GABPB1,intron_variant,,ENST00000396464,NM_016655.4;GABPB1,intron_variant,,ENST00000429662,NM_002041.4;GABPB1,intron_variant,,ENST00000561010,;"	"TTTTTTT"	"ENSG00000104064"	"ENST00000220429"	"Transcript"	"intron_variant"	"-/2726"	"-/1188"	"-/395"	""	""	"rs140176493"	"1"	NA	-1	"GABPB1"	"HGNC"	4074	"protein_coding"	"YES"	"CCDS32239.1"	"ENSP00000220429"	"Q06547"	"H0YNZ0,F5H7I4"	"UPI000012AFB3"	""	NA	NA	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"84938a66-280f-11e6-8e39-0ed4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WXS"	FALSE
"3630"	"CYP19A1"	1588	"mskcc.org"	"GRCh37"	"15"	51519869	51519870	"+"	"Intron"	"INS"	"-"	"-"	"AATA"	"rs149494347"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.451+103_451+106dupTATT"	""	""	"ENST00000396402"	""	48	"."	4	12	"."	0	"CYP19A1,intron_variant,,ENST00000396402,NM_000103.3;CYP19A1,intron_variant,,ENST00000260433,;CYP19A1,intron_variant,,ENST00000396404,NM_031226.2;CYP19A1,intron_variant,,ENST00000559878,;CYP19A1,intron_variant,,ENST00000405913,;CYP19A1,intron_variant,,ENST00000453807,;CYP19A1,intron_variant,,ENST00000558328,;CYP19A1,intron_variant,,ENST00000559980,;CYP19A1,intron_variant,,ENST00000561075,;CYP19A1,intron_variant,,ENST00000557858,;CYP19A1,intron_variant,,ENST00000405011,;CYP19A1,intron_variant,,ENST00000559646,;RP11-108K3.1,intron_variant,,ENST00000559909,;CYP19A1,intron_variant,,ENST00000439712,;CYP19A1,intron_variant,,ENST00000557934,;"	"AATA"	"ENSG00000137869"	"ENST00000396402"	"Transcript"	"intron_variant"	"-/4417"	"-/1512"	"-/503"	""	""	"rs149494347"	"1"	NA	-1	"CYP19A1"	"HGNC"	2594	"protein_coding"	"YES"	"CCDS10139.1"	"ENSP00000379683"	"P11511"	"Q16449,H0YLS2,H0YLP1,H0YKN1,E9PGZ6,E7EQ08,E7EPL6"	"UPI000013D0D7"	"NM_000103.3"	NA	NA	""	"4/9"	""	"AATAAATAAATAAATAAATA:0.1725"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"84cc28d0-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WXS"	FALSE
"3631"	"RP11-209E8.1"	0	"mskcc.org"	"GRCh37"	"15"	53409417	53409418	"+"	"Intron"	"INS"	"-"	"-"	"TT"	"rs138259788"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.94+763_94+764insTT"	""	""	"ENST00000559915"	""	11	"."	4	1	"."	0	"RP11-209E8.1,intron_variant,,ENST00000559915,;"	"TT"	"ENSG00000259237"	"ENST00000559915"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/601"	""	""	""	""	"rs138259788"	"1"	NA	1	"RP11-209E8.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"TT:0.3464"	"TT:0.0772"	"TT:0.4207"	NA	"TT:0.2401"	"TT:0.5964"	"TT:0.5102"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"853ab4d0-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3632"	"WDR72"	256764	"mskcc.org"	"GRCh37"	"15"	53998544	53998569	"+"	"Intron"	"DEL"	"TGTGTATATATATATATATATATATA"	"TGTGTATATATATATATATATATATA"	"-"	"rs201207547"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTATATATATATATATATATATA"	"TGTGTATATATATATATATATATATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.955-298_955-273delTATATATATATATATATATATACACA"	""	""	"ENST00000396328"	""	11	"."	4	2	"."	0	"WDR72,intron_variant,,ENST00000396328,NM_182758.3,NM_001277176.1;WDR72,intron_variant,,ENST00000557913,;WDR72,intron_variant,,ENST00000360509,;WDR72,intron_variant,,ENST00000559418,;WDR72,intron_variant,,ENST00000560036,;"	"-"	"ENSG00000166415"	"ENST00000396328"	"Transcript"	"intron_variant"	"-/7507"	"-/3309"	"-/1102"	""	""	"rs201207547"	"1"	NA	-1	"WDR72"	"HGNC"	26790	"protein_coding"	"YES"	"CCDS10151.1"	"ENSP00000379619"	"Q3MJ13"	"H0YN02"	"UPI00001D777D"	"NM_182758.3,NM_001277176.1"	NA	NA	""	"9/19"	""	"-:0.3830"	"-:0.2723"	"-:0.4006"	NA	"-:0.3889"	"-:0.4433"	"-:0.4519"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTGTGTATATATATATATATATATATAT"	"6f66d6ac-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3633"	"PRTG"	283659	"mskcc.org"	"GRCh37"	"15"	55931154	55931157	"+"	"Intron"	"DEL"	"TCAT"	"TCAT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TCAT"	"TCAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2325-283_2325-280delATGA"	""	""	"ENST00000389286"	""	9	"."	4	1	"."	0	"PRTG,intron_variant,,ENST00000389286,NM_173814.4;"	"-"	"ENSG00000166450"	"ENST00000389286"	"Transcript"	"intron_variant"	"-/11967"	"-/3453"	"-/1150"	""	""	""	"1"	NA	-1	"PRTG"	"HGNC"	26373	"protein_coding"	"YES"	"CCDS42040.1"	"ENSP00000373937"	"Q2VWP7"	"H0YKD6"	"UPI00001555A7"	"NM_173814.4"	NA	NA	""	"13/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATCATT"	"6fa374b8-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3634"	"PRTG"	283659	"mskcc.org"	"GRCh37"	"15"	55931153	55931154	"+"	"Intron"	"INS"	"-"	"-"	"TCAT"	"rs56726387,rs74702941"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2325-283_2325-280dupATGA"	""	""	"ENST00000389286"	""	10	"."	3	2	"."	0	"PRTG,intron_variant,,ENST00000389286,NM_173814.4;"	"TCAT"	"ENSG00000166450"	"ENST00000389286"	"Transcript"	"intron_variant"	"-/11967"	"-/3453"	"-/1150"	""	""	"rs56726387,rs74702941"	"1"	NA	-1	"PRTG"	"HGNC"	26373	"protein_coding"	"YES"	"CCDS42040.1"	"ENSP00000373937"	"Q2VWP7"	"H0YKD6"	"UPI00001555A7"	"NM_173814.4"	NA	NA	""	"13/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"8569bcd0-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3635"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	56100984	56100986	"+"	"IGR"	"DEL"	"AAC"	"AAC"	"-"	"rs143296621"	NA	"JHCCPT5"	"JHCCPN5"	"AAC"	"AAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143296621"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAACA"	"6fb532ca-280f-11e6-8e39-0ed4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"3636"	"NEDD4"	4734	"mskcc.org"	"GRCh37"	"15"	56144889	56144898	"+"	"Intron"	"DEL"	"ATATATATAT"	"ATATATATAT"	"-"	"rs201121993"	NA	"JHCCPT5"	"JHCCPN5"	"ATATATATAT"	"ATATATATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2068-157_2068-148delATATATATAT"	""	""	"ENST00000338963"	""	58	"."	8	10	"."	0	"NEDD4,intron_variant,,ENST00000508342,NM_001284338.1;NEDD4,intron_variant,,ENST00000338963,NM_198400.2;NEDD4,intron_variant,,ENST00000506154,NM_001284339.1;NEDD4,intron_variant,,ENST00000435532,NM_006154.2;NEDD4,intron_variant,,ENST00000508871,NM_001284340.1;NEDD4,intron_variant,,ENST00000503468,;"	"-"	"ENSG00000069869"	"ENST00000338963"	"Transcript"	"intron_variant"	"-/7019"	"-/3744"	"-/1247"	""	""	"rs201121993"	"1"	NA	-1	"NEDD4"	"HGNC"	7727	"protein_coding"	"YES"	"CCDS10156.1"	"ENSP00000345530"	"P46934"	""	"UPI00001418FE"	"NM_198400.2"	NA	NA	""	"5/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAATATATATATA"	"6fb63cba-280f-11e6-8e39-0ed4414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WXS"	FALSE
"3637"	"LIPC"	3990	"mskcc.org"	"GRCh37"	"15"	58852850	58852869	"+"	"Intron"	"DEL"	"ACAATATAAGTCCTGAATAG"	"-"	"-"	"rs3842660"	NA	"JHCCPT5"	"JHCCPN5"	"ACAATATAAGTCCTGAATAG"	"ACAATATAAGTCCTGAATAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1052-210_1052-191delATATAAGTCCTGAATAGACA"	""	""	"ENST00000356113"	""	11	"."	10	2	"."	0	"LIPC,intron_variant,,ENST00000414170,;LIPC,intron_variant,,ENST00000356113,;LIPC,intron_variant,,ENST00000299022,NM_000236.2;LIPC,intron_variant,,ENST00000433326,;LIPC,intron_variant,,ENST00000559845,;"	"-"	"ENSG00000166035"	"ENST00000356113"	"Transcript"	"intron_variant"	"-/2161"	"-/1500"	"-/499"	""	""	"rs3842660"	"1"	NA	1	"LIPC"	"HGNC"	6619	"protein_coding"	"YES"	"CCDS10166.1"	"ENSP00000348425"	"P11150"	""	"UPI000013E54D"	""	NA	NA	""	"8/10"	""	"ACAATATAAGTCCTGAATAG:0.0639"	"-:0.8313"	"-:0.987"	NA	"-:0.9405"	"-:0.9861"	"-:0.9857"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACACAATATAAGTCCTGAATAGA"	"7071b53a-280f-11e6-8e39-0ed4414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.909090909090909	"WXS"	FALSE
"3638"	"LIPC"	3990	"mskcc.org"	"GRCh37"	"15"	58853636	58853637	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs35925692"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1169+457dupA"	""	""	"ENST00000356113"	""	8	"."	3	1	"."	0	"LIPC,intron_variant,,ENST00000414170,;LIPC,intron_variant,,ENST00000356113,;LIPC,intron_variant,,ENST00000299022,NM_000236.2;LIPC,intron_variant,,ENST00000433326,;LIPC,intron_variant,,ENST00000559845,;"	"A"	"ENSG00000166035"	"ENST00000356113"	"Transcript"	"intron_variant"	"-/2161"	"-/1500"	"-/499"	""	""	"rs35925692"	"1"	NA	1	"LIPC"	"HGNC"	6619	"protein_coding"	"YES"	"CCDS10166.1"	"ENSP00000348425"	"P11150"	""	"UPI000013E54D"	""	NA	NA	""	"9/10"	""	"-:0.0635"	"A:0.8321"	"A:0.987"	NA	"A:0.9415"	"A:0.9861"	"A:0.9857"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"858ea09a-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3639"	"RORA"	6095	"mskcc.org"	"GRCh37"	"15"	60812026	60812027	"+"	"Intron"	"INS"	"-"	"-"	"AAAC"	"rs372746074"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.382-5074_382-5071dupGTTT"	""	""	"ENST00000261523"	""	6	"."	4	1	"."	0	"RORA,intron_variant,,ENST00000335670,NM_134261.2;RORA,intron_variant,,ENST00000261523,NM_134260.2;RORA,intron_variant,,ENST00000309157,NM_002943.3;RORA,intron_variant,,ENST00000449337,NM_134262.2;RORA,intron_variant,,ENST00000559343,;RP11-219B17.1,intron_variant,,ENST00000558140,;RP11-219B17.1,intron_variant,,ENST00000501579,;RP11-219B17.1,intron_variant,,ENST00000559824,;RP11-219B17.1,intron_variant,,ENST00000559902,;RP11-219B17.1,intron_variant,,ENST00000558235,;RP11-219B17.1,upstream_gene_variant,,ENST00000559203,;RORA,intron_variant,,ENST00000560004,;RORA,intron_variant,,ENST00000551975,;"	"AAAC"	"ENSG00000069667"	"ENST00000261523"	"Transcript"	"intron_variant"	"-/1951"	"-/1671"	"-/556"	""	""	"rs372746074"	"1"	NA	-1	"RORA"	"HGNC"	10258	"protein_coding"	"YES"	"CCDS10179.1"	"ENSP00000261523"	"P35398"	""	"UPI0000134548"	"NM_134260.2"	NA	NA	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"85cb9ab8-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3640"	"RORA"	6095	"mskcc.org"	"GRCh37"	"15"	61390474	61390475	"+"	"Intron"	"INS"	"-"	"-"	"CCTCCTTCCCTT"	"rs149085136"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.166+130777_166+130778insAAGGGAAGGAGG"	""	""	"ENST00000335670"	""	18	"."	4	2	"."	0	"RORA,intron_variant,,ENST00000335670,NM_134261.2;RORA,intron_variant,,ENST00000560300,;RORA,intron_variant,,ENST00000559145,;RORA,intron_variant,,ENST00000551975,;RORA,intron_variant,,ENST00000561093,;RORA,intron_variant,,ENST00000557822,;"	"CCTCCTTCCCTT"	"ENSG00000069667"	"ENST00000335670"	"Transcript"	"intron_variant"	"-/10844"	"-/1572"	"-/523"	""	""	"rs149085136"	"1"	NA	-1	"RORA"	"HGNC"	10258	"protein_coding"	""	"CCDS10177.1"	"ENSP00000335087"	"P35398"	""	"UPI000002B2A7"	"NM_134261.2"	NA	NA	""	"1/10"	""	"CCTCCTTCCCTT:0.0777"	"CCTCCTTCCCTT:0.0386"	"CCTCCTTCCCTT:0.0735"	NA	"CCTCCTTCCCTT:0.0794"	"CCTCCTTCCCTT:0.1163"	"CCTCCTTCCCTT:0.092"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"85d2aa1a-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"3641"	"VPS13C"	54832	"mskcc.org"	"GRCh37"	"15"	62160651	62160669	"+"	"Intron"	"DEL"	"AGCTTTGCTCCCATGTAGA"	"AGCTTTGCTCCCATGTAGA"	"GCTTTGCTCCCATGTAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AGCTTTGCTCCCATGTAGA"	"AGCTTTGCTCCCATGTAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.10863+189_10863+207delTCTACATGGGAGCAAAGCTinsCTACATGGGAGCAAAGC"	""	""	"ENST00000261517"	""	25	"."	6	5	"."	0	"VPS13C,intron_variant,,ENST00000261517,NM_020821.2;VPS13C,intron_variant,,ENST00000249837,NM_017684.4;VPS13C,intron_variant,,ENST00000395896,NM_001018088.2;VPS13C,intron_variant,,ENST00000395898,NM_018080.3;VPS13C,upstream_gene_variant,,ENST00000560637,;"	"GCTTTGCTCCCATGTAG"	"ENSG00000129003"	"ENST00000261517"	"Transcript"	"intron_variant"	"-/13400"	"-/11262"	"-/3753"	""	""	""	"1"	NA	-1	"VPS13C"	"HGNC"	23594	"protein_coding"	"YES"	"CCDS32257.1"	"ENSP00000261517"	"Q709C8"	"B4E2S9,B3KW10"	"UPI000023B7D3"	"NM_020821.2"	NA	NA	""	"81/84"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGCTTTGCTCCCATGTAGAA"	"7e79ffe8-280f-11e6-8e39-0ed4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WXS"	FALSE
"3642"	"VPS13C"	54832	"mskcc.org"	"GRCh37"	"15"	62182073	62182074	"+"	"Intron"	"INS"	"-"	"-"	"AC"	"rs10689074"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9341+289_9341+290dupGT"	""	""	"ENST00000261517"	""	9	"."	3	3	"."	0	"VPS13C,intron_variant,,ENST00000261517,NM_020821.2;VPS13C,intron_variant,,ENST00000249837,NM_017684.4;VPS13C,intron_variant,,ENST00000395896,NM_001018088.2;VPS13C,intron_variant,,ENST00000395898,NM_018080.3;"	"AC"	"ENSG00000129003"	"ENST00000261517"	"Transcript"	"intron_variant"	"-/13400"	"-/11262"	"-/3753"	""	""	"rs10689074"	"1"	NA	-1	"VPS13C"	"HGNC"	23594	"protein_coding"	"YES"	"CCDS32257.1"	"ENSP00000261517"	"Q709C8"	"B4E2S9,B3KW10"	"UPI000023B7D3"	"NM_020821.2"	NA	NA	""	"67/84"	""	"AC:0.0741"	"AC:0.093"	"AC:0.0432"	NA	"AC:0.0456"	"AC:0.0755"	"AC:0.0982"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"85e8d222-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3643"	"HERC1"	8925	"mskcc.org"	"GRCh37"	"15"	63987224	63987225	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs36115945"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5122-132_5122-131insC"	""	""	"ENST00000443617"	""	17	"."	6	12	"."	0	"HERC1,intron_variant,,ENST00000443617,NM_003922.3;HERC1,downstream_gene_variant,,ENST00000561400,;RP11-317G6.1,intron_variant,,ENST00000559303,;"	"G"	"ENSG00000103657"	"ENST00000443617"	"Transcript"	"intron_variant"	"-/15137"	"-/14586"	"-/4861"	""	""	"rs36115945"	"1"	NA	-1	"HERC1"	"HGNC"	4867	"protein_coding"	"YES"	"CCDS45277.1"	"ENSP00000390158"	"Q15751"	"H0YL74,H0YL07,H0YKW7"	"UPI0000212760"	"NM_003922.3"	NA	NA	""	"27/77"	""	"-:0.3646"	"G:0.8744"	"G:0.647"	NA	"G:0.0972"	"G:0.8966"	"G:0.59"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"8656b47c-280f-11e6-8e39-0ed4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WXS"	FALSE
"3644"	"FAM96A"	84191	"mskcc.org"	"GRCh37"	"15"	64367353	64367358	"+"	"Intron"	"DEL"	"TTCAAT"	"TTCAAT"	"-"	"rs145913637"	NA	"JHCCPT5"	"JHCCPN5"	"TTCAAT"	"TTCAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.385+333_385+338delATTGAA"	""	""	"ENST00000300030"	""	13	"."	5	4	"."	0	"FAM96A,3_prime_UTR_variant,,ENST00000557835,;FAM96A,intron_variant,,ENST00000300030,NM_032231.4;FAM96A,intron_variant,,ENST00000380290,NM_001014812.1;DAPK2,upstream_gene_variant,,ENST00000559306,;FAM96A,downstream_gene_variant,,ENST00000559950,;FAM96A,upstream_gene_variant,,ENST00000558779,;FAM96A,intron_variant,,ENST00000559705,;"	"-"	"ENSG00000166797"	"ENST00000300030"	"Transcript"	"intron_variant"	"-/1105"	"-/483"	"-/160"	""	""	"rs145913637"	"1"	NA	-1	"FAM96A"	"HGNC"	26235	"protein_coding"	"YES"	"CCDS10189.1"	"ENSP00000300030"	"Q9H5X1"	""	"UPI0000137917"	"NM_032231.4"	NA	NA	""	"4/4"	""	"-:0.3385"	"-:0.3941"	"-:0.3444"	NA	"-:0.1696"	"-:0.1889"	"-:0.5869"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTCAATT"	"72ad340a-280f-11e6-8e39-0ed4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"3645"	"CSNK1G1"	53944	"mskcc.org"	"GRCh37"	"15"	64600640	64600641	"+"	"Intron"	"INS"	"-"	"-"	"AAGT"	"rs112160596"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-224-7719_-224-7718insACTT"	""	""	"ENST00000303052"	""	10	"."	6	1	"."	0	"CSNK1G1,intron_variant,,ENST00000303052,NM_022048.3;CSNK1G1,intron_variant,,ENST00000607537,;CTD-2116N17.1,intron_variant,,ENST00000606793,;CTD-2116N17.1,intron_variant,,ENST00000561349,;CSNK1G1,intron_variant,,ENST00000303032,;CTD-2116N17.1,intron_variant,,ENST00000560278,;CTD-2116N17.1,intron_variant,,ENST00000558783,;"	"AAGT"	"ENSG00000169118"	"ENST00000303052"	"Transcript"	"intron_variant"	"-/8107"	"-/1269"	"-/422"	""	""	"rs112160596"	"1"	NA	-1	"CSNK1G1"	"HGNC"	2454	"protein_coding"	"YES"	"CCDS10192.2"	"ENSP00000305777"	"Q9HCP0"	"U3KQP7"	"UPI000003F575"	"NM_022048.3"	NA	NA	""	"1/11"	""	"-:0.1304"	"AAGT:0.6626"	"AAGT:0.938"	NA	"AAGT:0.9514"	"AAGT:0.9563"	"AAGT:0.9274"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"86844586-280f-11e6-8e39-0ed4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"3646"	"TRIP4"	9325	"mskcc.org"	"GRCh37"	"15"	64729462	64729463	"+"	"Intron"	"INS"	"-"	"A"	"A"	"rs66524310"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1576-7733dupA"	""	""	"ENST00000261884"	""	7	"."	6	1	"."	0	"TRIP4,intron_variant,,ENST00000261884,NM_016213.4;TRIP4,intron_variant,,ENST00000558162,;TRIP4,intron_variant,,ENST00000560475,;"	"A"	"ENSG00000103671"	"ENST00000261884"	"Transcript"	"intron_variant"	"-/2045"	"-/1746"	"-/581"	""	""	"rs66524310"	"1"	NA	1	"TRIP4"	"HGNC"	12310	"protein_coding"	"YES"	"CCDS10194.1"	"ENSP00000261884"	"Q15650"	""	"UPI0000035D96"	"NM_016213.4"	NA	NA	""	"11/12"	""	"-:0.1132"	"A:0.8691"	"A:0.9697"	NA	"A:0.9742"	"A:0.9652"	"A:0.681"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"8687344e-280f-11e6-8e39-0ed4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"3647"	"ANKDD1A"	348094	"mskcc.org"	"GRCh37"	"15"	65244119	65244128	"+"	"Intron"	"DEL"	"TTCTTATTCT"	"TTCTTATTCT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTCTTATTCT"	"TTCTTATTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1483+1941_1483+1950delATTCTTTCTT"	""	""	"ENST00000380230"	""	32	"."	5	3	"."	0	"ANKDD1A,intron_variant,,ENST00000380230,NM_182703.3;ANKDD1A,intron_variant,,ENST00000357698,;ANKDD1A,intron_variant,,ENST00000395723,;ANKDD1A,downstream_gene_variant,,ENST00000395720,;ANKDD1A,intron_variant,,ENST00000487867,;"	"-"	"ENSG00000166839"	"ENST00000380230"	"Transcript"	"intron_variant"	"-/3113"	"-/1569"	"-/522"	""	""	""	"1"	NA	1	"ANKDD1A"	"HGNC"	28002	"protein_coding"	"YES"	"CCDS10197.2"	"ENSP00000369579"	"Q495B1"	"Q6PI29"	"UPI0000D79C72"	"NM_182703.3"	NA	NA	""	"14/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTCTTATTCTT"	"72f07ad0-280f-11e6-8e39-0ed4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WXS"	FALSE
"3648"	"TIPIN"	54962	"mskcc.org"	"GRCh37"	"15"	66644263	66644264	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs62627278"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.212+203dupT"	""	""	"ENST00000261881"	""	17	"."	3	2	"."	0	"TIPIN,intron_variant,,ENST00000261881,NM_017858.2;TIPIN,intron_variant,,ENST00000367709,;TIPIN,intron_variant,,ENST00000562124,;TIPIN,intron_variant,,ENST00000570251,;TIPIN,intron_variant,,ENST00000568216,;SCARNA14,upstream_gene_variant,,ENST00000516903,;Y_RNA,downstream_gene_variant,,ENST00000411339,;TIPIN,intron_variant,,ENST00000566524,;"	"A"	"ENSG00000075131"	"ENST00000261881"	"Transcript"	"intron_variant"	"-/1744"	"-/906"	"-/301"	""	""	"rs62627278"	"1"	NA	-1	"TIPIN"	"HGNC"	30750	"protein_coding"	"YES"	"CCDS10215.1"	"ENSP00000261881"	"Q9BVW5"	"H3BVG9,H3BU04,G8JLE5"	"UPI000013D21A"	"NM_017858.2"	NA	NA	""	"3/7"	""	"A:0.1635"	"A:0.0166"	"A:0.1556"	NA	"A:0.1766"	"A:0.2425"	"A:0.273"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"8727b6a8-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"3649"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	66984030	66984031	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs36035651"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	3	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs36035651"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.2450"	"G:0.2042"	"G:0.4207"	NA	"G:0.2163"	"G:0.2634"	"G:0.1861"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"874114d6-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3650"	"RP11-798K3.4"	0	"mskcc.org"	"GRCh37"	"15"	67213588	67213588	"+"	"Intron"	"DEL"	"T"	"-"	"-"	"rs5813413"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.110+1330delT"	""	""	"ENST00000559904"	""	6	"."	5	3	"."	0	"RP11-798K3.4,intron_variant,,ENST00000559904,;"	"-"	"ENSG00000259437"	"ENST00000559904"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/423"	""	""	""	""	"rs5813413"	"1"	NA	1	"RP11-798K3.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"T:0.3952"	"-:0.298"	"-:0.6124"	NA	"-:0.6954"	"-:0.7823"	"-:0.7382"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTG"	"73e4d1de-280f-11e6-8e39-0ed4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3651"	"ENSR00000650886"	0	"mskcc.org"	"GRCh37"	"15"	68845689	68845690	"+"	"IGR"	"INS"	"-"	"T"	"T"	"rs5813498"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000650886"	""	8	"."	6	2	"."	0	""	"T"	""	"ENSR00000650886"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs5813498"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1731"	"T:0.7761"	"T:0.8213"	NA	"T:0.9464"	"T:0.7396"	"T:0.8661"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"877401ac-280f-11e6-8e39-0ed4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"3652"	"CORO2B"	10391	"mskcc.org"	"GRCh37"	"15"	68950639	68950640	"+"	"Intron"	"INS"	"-"	"-"	"GGA"	"rs10627263"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.216+12949_216+12951dupAGG"	""	""	"ENST00000566799"	""	11	"."	4	3	"."	0	"CORO2B,intron_variant,,ENST00000543950,NM_001190457.1;CORO2B,intron_variant,,ENST00000261861,NM_006091.4;CORO2B,intron_variant,,ENST00000540068,NM_001190456.1;CORO2B,intron_variant,,ENST00000566799,;"	"GGA"	"ENSG00000103647"	"ENST00000566799"	"Transcript"	"intron_variant"	"-/3301"	"-/1443"	"-/480"	""	""	"rs10627263"	"1"	NA	1	"CORO2B"	"HGNC"	2256	"protein_coding"	"YES"	"CCDS10229.2"	"ENSP00000454783"	"Q9UQ03"	"B3KWB4"	"UPI0000E59C95"	""	NA	NA	""	"2/11"	""	"-:0.0072"	"GGA:0.9826"	"GGA:0.9957"	NA	"GGA:0.997"	"GGA:0.997"	"GGA:0.9959"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"11"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"87764778-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3653"	"THSD4"	79875	"mskcc.org"	"GRCh37"	"15"	72046806	72046809	"+"	"Intron"	"DEL"	"AAAC"	"AAAC"	"-"	"rs143813105"	NA	"JHCCPT5"	"JHCCPN5"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2416-3408_2416-3405delCAAA"	""	""	"ENST00000355327"	""	10	"."	4	2	"."	0	"THSD4,intron_variant,,ENST00000355327,;THSD4,intron_variant,,ENST00000261862,NM_024817.2;THSD4,intron_variant,,ENST00000357769,NM_001286429.1;THSD4,intron_variant,,ENST00000567838,;"	"-"	"ENSG00000187720"	"ENST00000355327"	"Transcript"	"intron_variant"	"-/9200"	"-/3057"	"-/1018"	""	""	"rs143813105"	"1"	NA	1	"THSD4"	"HGNC"	25835	"protein_coding"	"YES"	"CCDS10238.2"	"ENSP00000347484"	"Q6ZMP0"	""	"UPI00001A797D"	""	NA	NA	""	"14/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"27"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAAACA"	"751c933e-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3654"	"MYO9A"	4649	"mskcc.org"	"GRCh37"	"15"	72395988	72395989	"+"	"Intron"	"INS"	"-"	"-"	"AGA"	"rs76924700"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-72+14030_-72+14032dupTCT"	""	""	"ENST00000356056"	""	8	"."	5	1	"."	0	"MYO9A,intron_variant,,ENST00000356056,NM_006901.3;MYO9A,intron_variant,,ENST00000424560,;MYO9A,intron_variant,,ENST00000444904,;MYO9A,intron_variant,,ENST00000564571,;MYO9A,intron_variant,,ENST00000566885,;MYO9A,intron_variant,,ENST00000564931,;MYO9A,intron_variant,,ENST00000569314,;MYO9A,intron_variant,,ENST00000567560,;"	"AGA"	"ENSG00000066933"	"ENST00000356056"	"Transcript"	"intron_variant"	"-/12409"	"-/7647"	"-/2548"	""	""	"rs76924700"	"1"	NA	-1	"MYO9A"	"HGNC"	7608	"protein_coding"	"YES"	"CCDS10239.1"	"ENSP00000348349"	"B2RTY4"	"H3BSU8,H3BMS3"	"UPI000013D213"	"NM_006901.3"	NA	NA	""	"1/41"	""	"-:0.1530"	"AGA:0.7595"	"AGA:0.8573"	NA	"AGA:0.9097"	"AGA:0.8827"	"AGA:0.8569"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"87d4d34c-280f-11e6-8e39-0ed4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"3655"	"ARIH1"	25820	"mskcc.org"	"GRCh37"	"15"	72848550	72848551	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs3841570"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.737+302_737+303insA"	""	""	"ENST00000379887"	""	9	"."	6	1	"."	0	"ARIH1,intron_variant,,ENST00000379887,NM_005744.3;ARIH1,intron_variant,,ENST00000564062,;ARIH1,intron_variant,,ENST00000570085,;"	"A"	"ENSG00000166233"	"ENST00000379887"	"Transcript"	"intron_variant"	"-/6047"	"-/1674"	"-/557"	""	""	"rs3841570"	"1"	NA	1	"ARIH1"	"HGNC"	689	"protein_coding"	"YES"	"CCDS10244.1"	"ENSP00000369217"	"Q9Y4X5"	""	"UPI0000033466"	"NM_005744.3"	NA	NA	""	"5/13"	""	"-:0.3165"	"A:0.1664"	"A:0.8026"	NA	"A:0.8343"	"A:0.9185"	"A:0.9008"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"87e6a70c-280f-11e6-8e39-0ed4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3656"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	74023649	74023650	"+"	"IGR"	"INS"	"-"	"-"	"ATGAACCTCCTCC"	"rs146649817"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	5	1	"."	0	""	"ATGAACCTCCTCC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs146649817"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"ATGAACCTCCTCCATGAACCTCCTC:0.1871"	"ATGAACCTCCTCCATGAACCTCCTC:0.1543"	"ATGAACCTCCTCCATGAACCTCCTC:0.2795"	NA	"ATGAACCTCCTCCATGAACCTCCTC:0.0675"	"ATGAACCTCCTCCATGAACCTCCTC:0.3221"	"ATGAACCTCCTCCATGAACCTCCTC:0.1503"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"8840eb9a-280f-11e6-8e39-0ed4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"3657"	"CCDC33"	80125	"mskcc.org"	"GRCh37"	"15"	74595766	74595767	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs72534028"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1290+7478_1290+7479insAA"	""	""	"ENST00000398814"	""	8	"."	4	1	"."	0	"CCDC33,intron_variant,,ENST00000321288,;CCDC33,intron_variant,,ENST00000398814,NM_025055.4;CCDC33,intron_variant,,ENST00000558659,;RP11-60L3.2,intron_variant,,ENST00000562561,;CCDC33,downstream_gene_variant,,ENST00000563951,;"	"AA"	"ENSG00000140481"	"ENST00000398814"	"Transcript"	"intron_variant"	"-/2787"	"-/2268"	"-/755"	""	""	"rs72534028"	"1"	NA	1	"CCDC33"	"HGNC"	26552	"protein_coding"	"YES"	"CCDS42058.1"	"ENSP00000381795"	"Q8N5R6"	""	"UPI0000E671FE"	"NM_025055.4"	NA	NA	""	"11/18"	""	"-:0.1895"	"AA:0.73"	"AA:0.9236"	NA	"AA:0.7411"	"AA:0.9503"	"AA:0.7669"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"88515b6a-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3658"	"CCDC33"	80125	"mskcc.org"	"GRCh37"	"15"	74610483	74610483	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1291-12043delG"	""	""	"ENST00000398814"	""	9	"."	3	5	"."	0	"CCDC33,intron_variant,,ENST00000321288,;CCDC33,intron_variant,,ENST00000398814,NM_025055.4;CCDC33,intron_variant,,ENST00000558659,;CCDC33,upstream_gene_variant,,ENST00000268082,NM_182791.3;CCDC33,upstream_gene_variant,,ENST00000558821,NM_001287181.1;CCDC33,upstream_gene_variant,,ENST00000321374,;CCDC33,upstream_gene_variant,,ENST00000560565,;"	"-"	"ENSG00000140481"	"ENST00000398814"	"Transcript"	"intron_variant"	"-/2787"	"-/2268"	"-/755"	""	""	""	"1"	NA	1	"CCDC33"	"HGNC"	26552	"protein_coding"	"YES"	"CCDS42058.1"	"ENSP00000381795"	"Q8N5R6"	""	"UPI0000E671FE"	"NM_025055.4"	NA	NA	""	"11/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"76119410-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3659"	"CYP11A1"	1583	"mskcc.org"	"GRCh37"	"15"	74659520	74659524	"+"	"Intron"	"DEL"	"AAAAA"	"AAAAA"	"-"	"rs201072266"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAA"	"AAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.269+134_269+138delTTTTT"	""	""	"ENST00000268053"	""	37	"."	3	11	"."	0	"CYP11A1,intron_variant,,ENST00000268053,NM_000781.2;CYP11A1,intron_variant,,ENST00000541301,;CYP11A1,intron_variant,,ENST00000416978,;CYP11A1,upstream_gene_variant,,ENST00000358632,NM_001099773.1;CYP11A1,upstream_gene_variant,,ENST00000419019,;CYP11A1,upstream_gene_variant,,ENST00000450547,;CYP11A1,upstream_gene_variant,,ENST00000569662,;CTD-2311M21.3,downstream_gene_variant,,ENST00000568496,;CYP11A1,intron_variant,,ENST00000467407,;CTD-2311M21.2,downstream_gene_variant,,ENST00000562009,;CYP11A1,intron_variant,,ENST00000435365,;CYP11A1,upstream_gene_variant,,ENST00000466978,;"	"-"	"ENSG00000140459"	"ENST00000268053"	"Transcript"	"intron_variant"	"-/1934"	"-/1566"	"-/521"	""	""	"rs201072266"	"1"	NA	-1	"CYP11A1"	"HGNC"	2590	"protein_coding"	"YES"	"CCDS32291.1"	"ENSP00000268053"	"P05108"	"Q2HZF3,H3BSZ1,H3BS93,C9JPU9"	"UPI00000725F7"	"NM_000781.2"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCAAAAAA"	"7619f88a-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WXS"	FALSE
"3660"	"UBE2Q2"	92912	"mskcc.org"	"GRCh37"	"15"	76170768	76170769	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs112973023"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.734+407dupC"	""	""	"ENST00000267938"	""	9	"."	3	2	"."	0	"UBE2Q2,intron_variant,,ENST00000267938,NM_173469.2;UBE2Q2,intron_variant,,ENST00000569423,NM_001284382.1;UBE2Q2,intron_variant,,ENST00000338677,;UBE2Q2,intron_variant,,ENST00000426727,;UBE2Q2,intron_variant,,ENST00000561851,NM_001145335.1;UBE2Q2,intron_variant,,ENST00000563966,;UBE2Q2,intron_variant,,ENST00000561723,;UBE2Q2,intron_variant,,ENST00000567921,;"	"C"	"ENSG00000140367"	"ENST00000267938"	"Transcript"	"intron_variant"	"-/3130"	"-/1128"	"-/375"	""	""	"rs112973023"	"1"	NA	1	"UBE2Q2"	"HGNC"	19248	"protein_coding"	"YES"	"CCDS10286.1"	"ENSP00000267938"	"Q8WVN8"	"B4DFQ2"	"UPI0000073AF9"	"NM_173469.2"	NA	NA	""	"7/12"	""	"-:0.0509"	"C:0.8336"	"C:0.9798"	NA	"C:1"	"C:0.9841"	"C:0.9949"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"88ac9872-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3661"	"SCAPER"	49855	"mskcc.org"	"GRCh37"	"15"	76913820	76913821	"+"	"Intron"	"INS"	"-"	"TC"	"TC"	"rs148730143"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2711+283_2711+284dupGA"	""	""	"ENST00000563290"	""	36	"."	27	3	"."	1	"SCAPER,intron_variant,,ENST00000538941,NM_001145923.1;SCAPER,intron_variant,,ENST00000563290,;SCAPER,intron_variant,,ENST00000324767,NM_020843.2;SCAPER,intron_variant,,ENST00000303521,;SCAPER,intron_variant,,ENST00000564757,;SCAPER,intron_variant,,ENST00000563688,;"	"TC"	"ENSG00000140386"	"ENST00000563290"	"Transcript"	"intron_variant"	"-/4747"	"-/4203"	"-/1400"	""	""	"rs148730143"	"1"	NA	-1	"SCAPER"	"HGNC"	13081	"protein_coding"	"YES"	"CCDS53962.1"	"ENSP00000454973"	"Q9BY12"	"H3BTY2,H3BR40,H3BPB0"	"UPI0000E59CC3"	""	NA	NA	""	"22/31"	""	"-:0.0643"	"TC:0.8101"	"TC:0.9769"	NA	"TC:0.9891"	"TC:0.9851"	"TC:0.9703"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"88cdab7a-280f-11e6-8e39-0ed4414a729f"	"1680"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"3662"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	78175572	78175575	"+"	"IGR"	"DEL"	"GCAT"	"GCAT"	"-"	"rs200890271"	NA	"JHCCPT5"	"JHCCPN5"	"GCAT"	"GCAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200890271"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GCAT:0.3620"	"-:0.6445"	"-:0.7464"	NA	"-:0.5159"	"-:0.661"	"-:0.6544"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGCATG"	"76f5a362-280f-11e6-8e39-0ed4414a729f"	"81"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3663"	"IREB2"	3658	"mskcc.org"	"GRCh37"	"15"	78776210	78776210	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs35963719"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1413+439delC"	""	""	"ENST00000258886"	""	9	"."	3	1	"."	0	"IREB2,intron_variant,,ENST00000258886,NM_004136.2;RP11-650L12.1,upstream_gene_variant,,ENST00000560094,;IREB2,intron_variant,,ENST00000558570,;IREB2,intron_variant,,ENST00000559676,;"	"-"	"ENSG00000136381"	"ENST00000258886"	"Transcript"	"intron_variant"	"-/6354"	"-/2892"	"-/963"	""	""	"rs35963719"	"1"	NA	1	"IREB2"	"HGNC"	6115	"protein_coding"	"YES"	"CCDS10302.1"	"ENSP00000258886"	"P48200"	"H0YLE0"	"UPI00001C1F8E"	"NM_004136.2"	NA	NA	""	"11/21"	""	"C:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"7771ef3a-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3664"	"CHRNA3"	1136	"mskcc.org"	"GRCh37"	"15"	78889783	78889786	"+"	"Intron"	"DEL"	"AAAT"	"AAAT"	"-"	"rs35211613"	NA	"JHCCPT5"	"JHCCPN5"	"AAAT"	"AAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1390-712_1390-709delATTT"	""	""	"ENST00000326828"	""	7	"."	4	1	"."	0	"CHRNA3,intron_variant,,ENST00000326828,NM_000743.4;CHRNA3,intron_variant,,ENST00000348639,NM_001166694.1;CHRNA5,downstream_gene_variant,,ENST00000299565,NM_000745.3;CHRNA5,downstream_gene_variant,,ENST00000559554,;CHRNA5,downstream_gene_variant,,ENST00000559576,;CHRNA5,downstream_gene_variant,,ENST00000394802,;CHRNA3,downstream_gene_variant,,ENST00000558903,;CHRNA3,upstream_gene_variant,,ENST00000559002,;CHRNA3,intron_variant,,ENST00000559658,;"	"-"	"ENSG00000080644"	"ENST00000326828"	"Transcript"	"intron_variant"	"-/3202"	"-/1518"	"-/505"	""	""	"rs35211613"	"1"	NA	-1	"CHRNA3"	"HGNC"	1957	"protein_coding"	"YES"	"CCDS10305.1"	"ENSP00000315602"	"P32297"	"Q6EWN2,B4DP53"	"UPI000013D783"	"NM_000743.4"	NA	NA	""	"5/5"	""	"-:0.3099"	"-:0.3759"	"-:0.2118"	NA	"-:0.1855"	"-:0.3867"	"-:0.3395"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAAAATA"	"77b99010-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3665"	"RASGRF1"	5923	"mskcc.org"	"GRCh37"	"15"	79291475	79291476	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs112228468"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2795-309dupC"	""	""	"ENST00000419573"	""	15	"."	6	7	"."	0	"RASGRF1,intron_variant,,ENST00000419573,NM_002891.4;RASGRF1,intron_variant,,ENST00000558480,NM_001145648.1;RASGRF1,intron_variant,,ENST00000394745,NM_153815.2;RASGRF1,intron_variant,,ENST00000560334,;RASGRF1,upstream_gene_variant,,ENST00000561112,;RASGRF1,upstream_gene_variant,,ENST00000560943,;"	"G"	"ENSG00000058335"	"ENST00000419573"	"Transcript"	"intron_variant"	"-/6294"	"-/3822"	"-/1273"	""	""	"rs112228468"	"1"	NA	-1	"RASGRF1"	"HGNC"	9875	"protein_coding"	"YES"	"CCDS10309.1"	"ENSP00000405963"	""	"J3KQP9"	"UPI000013D1F1"	"NM_002891.4"	NA	NA	""	"18/27"	""	"G:0.1442"	"G:0.2965"	"G:0.1643"	NA	"G:0"	"G:0.1362"	"G:0.0808"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"895aced8-280f-11e6-8e39-0ed4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3666"	"GOLGA6L17P"	0	"mskcc.org"	"GRCh37"	"15"	82810601	82810602	"+"	"Intron"	"INS"	"-"	"-"	"C"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1643+74dupC"	""	""	"ENST00000506719"	""	24	"."	3	16	"."	0	"GOLGA6L17P,downstream_gene_variant,,ENST00000506975,;GOLGA6L17P,intron_variant,,ENST00000506719,;"	"C"	"ENSG00000186322"	"ENST00000506719"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1776"	""	""	""	""	""	"1"	NA	1	"GOLGA6L17P"	"HGNC"	49414	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"89a64d36-280f-11e6-8e39-0ed4414a729f"	"12"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"3667"	"ADAMTSL3"	57188	"mskcc.org"	"GRCh37"	"15"	84383416	84383419	"+"	"Intron"	"DEL"	"CCTC"	"CCTC"	"-"	"rs552621265"	NA	"JHCCPT5"	"JHCCPN5"	"CCTC"	"CCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.189+10175_189+10178delCCCT"	""	""	"ENST00000286744"	""	13	"."	3	10	"."	0	"ADAMTSL3,intron_variant,,ENST00000286744,NM_207517.2;ADAMTSL3,intron_variant,,ENST00000567476,;RNU6-401P,upstream_gene_variant,,ENST00000391072,;ADAMTSL3,intron_variant,,ENST00000565653,;ADAMTSL3,intron_variant,,ENST00000561483,;ADAMTSL3,intron_variant,,ENST00000569510,;"	"-"	"ENSG00000156218"	"ENST00000286744"	"Transcript"	"intron_variant"	"-/7336"	"-/5076"	"-/1691"	""	""	"rs552621265"	"1"	NA	1	"ADAMTSL3"	"HGNC"	14633	"protein_coding"	"YES"	"CCDS10326.1"	"ENSP00000286744"	"P82987"	""	"UPI00001615A5"	"NM_207517.2"	NA	NA	""	"3/29"	""	"-:0.0020"	"-:0.003"	"-:0.0029"	NA	"-:0.001"	"-:0.003"	"-:0"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"19"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCCTCC"	"796d8ec0-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"3668"	"SLC28A1"	9154	"mskcc.org"	"GRCh37"	"15"	85463934	85463935	"+"	"Intron"	"INS"	"-"	"-"	"GT"	"rs113735505"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.877-266_877-265dupTG"	""	""	"ENST00000394573"	""	24	"."	4	10	"."	0	"SLC28A1,intron_variant,,ENST00000394573,NM_004213.3;SLC28A1,intron_variant,,ENST00000286749,NM_001287762.1;SLC28A1,intron_variant,,ENST00000537624,;SLC28A1,intron_variant,,ENST00000537216,;SLC28A1,intron_variant,,ENST00000538177,NM_001287761.1;SLC28A1,intron_variant,,ENST00000537703,;"	"GT"	"ENSG00000156222"	"ENST00000394573"	"Transcript"	"intron_variant"	"-/2750"	"-/1950"	"-/649"	""	""	"rs113735505"	"1"	NA	1	"SLC28A1"	"HGNC"	11001	"protein_coding"	"YES"	"CCDS10334.1"	"ENSP00000378074"	"O00337"	""	"UPI000013DE67"	"NM_004213.3"	NA	NA	""	"10/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"21"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"89f17a54-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3669"	"RP11-648K4.2"	0	"mskcc.org"	"GRCh37"	"15"	88221316	88221317	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs151250184"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.80+25687dupC"	""	""	"ENST00000560439"	""	9	"."	4	1	"."	0	"RP11-648K4.2,intron_variant,,ENST00000560439,;"	"G"	"ENSG00000259560"	"ENST00000560439"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/448"	""	""	""	""	"rs151250184"	"1"	NA	-1	"RP11-648K4.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"8a55d8be-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3670"	"SEMA4B"	10509	"mskcc.org"	"GRCh37"	"15"	90762788	90762788	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs5814416"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.385-236delG"	""	""	"ENST00000411539"	""	22	"."	7	4	"."	0	"SEMA4B,intron_variant,,ENST00000411539,NM_198925.2;SEMA4B,intron_variant,,ENST00000332496,NM_020210.3;SEMA4B,intron_variant,,ENST00000379122,;SEMA4B,intron_variant,,ENST00000561085,;SEMA4B,intron_variant,,ENST00000558051,;SEMA4B,upstream_gene_variant,,ENST00000559074,;SEMA4B,downstream_gene_variant,,ENST00000559792,;SEMA4B,downstream_gene_variant,,ENST00000559322,;SEMA4B,downstream_gene_variant,,ENST00000558895,;SEMA4B,non_coding_transcript_exon_variant,,ENST00000558065,;SEMA4B,intron_variant,,ENST00000560089,;SEMA4B,intron_variant,,ENST00000558848,;SEMA4B,intron_variant,,ENST00000559300,;SEMA4B,downstream_gene_variant,,ENST00000560003,;SEMA4B,upstream_gene_variant,,ENST00000560993,;SEMA4B,upstream_gene_variant,,ENST00000558975,;"	"-"	"ENSG00000185033"	"ENST00000411539"	"Transcript"	"intron_variant"	"-/3807"	"-/2514"	"-/837"	""	""	"rs5814416"	"1"	NA	1	"SEMA4B"	"HGNC"	10730	"protein_coding"	"YES"	"CCDS45347.1"	"ENSP00000394720"	""	"Q4VBY2,J3KNP4,H0YMR1,H0YMD6,H0YLN3"	"UPI0000197391"	"NM_198925.2"	NA	NA	""	"3/13"	""	"-:0.1805"	"-:0.0703"	"-:0.3242"	NA	"-:0.13"	"-:0.2744"	"-:0.183"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"7b442bbe-280f-11e6-8e39-0ed4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318181818181818	"WXS"	FALSE
"3671"	"ZNF774"	342132	"mskcc.org"	"GRCh37"	"15"	90903063	90903064	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs148247603"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.212-211dupT"	""	""	"ENST00000354377"	""	14	"."	4	5	"."	0	"ZNF774,intron_variant,,ENST00000354377,NM_001004309.2;ZNF774,intron_variant,,ENST00000379090,;ZNF774,intron_variant,,ENST00000558586,;ZNF774,intron_variant,,ENST00000558115,;ZNF774,intron_variant,,ENST00000560038,;"	"T"	"ENSG00000196391"	"ENST00000354377"	"Transcript"	"intron_variant"	"-/3202"	"-/1452"	"-/483"	""	""	"rs148247603"	"1"	NA	1	"ZNF774"	"HGNC"	33108	"protein_coding"	"YES"	"CCDS32330.1"	"ENSP00000346348"	"Q6NX45"	"H0YNW6"	"UPI00001A73D8"	"NM_001004309.2"	NA	NA	""	"3/3"	""	"T:0.0377"	"T:0.0023"	"T:0.0865"	NA	"T:0"	"T:0.0606"	"T:0.0665"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"8ab5dc8c-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3672"	"IQGAP1"	8826	"mskcc.org"	"GRCh37"	"15"	91008904	91008911	"+"	"Intron"	"DEL"	"TGTTTGTT"	"TGTTTGTT"	"-"	"rs143531876"	NA	"JHCCPT5"	"JHCCPN5"	"TGTTTGTT"	"TGTTTGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1777-300_1777-293delGTTTGTTT"	""	""	"ENST00000268182"	""	13	"."	4	2	"."	0	"IQGAP1,intron_variant,,ENST00000268182,NM_003870.3;IQGAP1,intron_variant,,ENST00000560738,;IQGAP1,upstream_gene_variant,,ENST00000560373,;"	"-"	"ENSG00000140575"	"ENST00000268182"	"Transcript"	"intron_variant"	"-/7233"	"-/4974"	"-/1657"	""	""	"rs143531876"	"1"	NA	1	"IQGAP1"	"HGNC"	6110	"protein_coding"	"YES"	"CCDS10362.1"	"ENSP00000268182"	"P46940"	"H0YKA5"	"UPI000012D863"	"NM_003870.3"	NA	NA	""	"15/37"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"29"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATGTTTGTTT"	"7b8ce76e-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3673"	"IQGAP1"	8826	"mskcc.org"	"GRCh37"	"15"	91037534	91037535	"+"	"Intron"	"INS"	"-"	"-"	"TATT"	"rs113071601"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4629-409_4629-406dupATTT"	""	""	"ENST00000268182"	""	8	"."	4	1	"."	0	"IQGAP1,intron_variant,,ENST00000268182,NM_003870.3;IQGAP1,intron_variant,,ENST00000560738,;IQGAP1,non_coding_transcript_exon_variant,,ENST00000558957,;IQGAP1,intron_variant,,ENST00000559674,;IQGAP1,upstream_gene_variant,,ENST00000561086,;IQGAP1,downstream_gene_variant,,ENST00000561461,;IQGAP1,downstream_gene_variant,,ENST00000561132,;IQGAP1,downstream_gene_variant,,ENST00000559031,;"	"TATT"	"ENSG00000140575"	"ENST00000268182"	"Transcript"	"intron_variant"	"-/7233"	"-/4974"	"-/1657"	""	""	"rs113071601"	"1"	NA	1	"IQGAP1"	"HGNC"	6110	"protein_coding"	"YES"	"CCDS10362.1"	"ENSP00000268182"	"P46940"	"H0YKA5"	"UPI000012D863"	"NM_003870.3"	NA	NA	""	"35/37"	""	"-:0.2368"	"TATT:0.9781"	"TATT:0.7464"	NA	"TATT:0.8363"	"TATT:0.5417"	"TATT:0.637"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"8ab7092c-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3674"	"ENSR00001661122"	0	"mskcc.org"	"GRCh37"	"15"	91063571	91063572	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs34442644"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001661122"	""	8	"."	3	2	"."	0	""	"A"	""	"ENSR00001661122"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs34442644"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4748"	"A:0.5401"	"A:0.4582"	NA	"A:0.2242"	"A:0.7008"	"A:0.4243"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"8ab91960-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3675"	"PRC1"	9055	"mskcc.org"	"GRCh37"	"15"	91512994	91513015	"+"	"Intron"	"DEL"	"ATATATATATATATATATATAT"	"ATATATATATATATATATATAT"	"-"	"rs71703424"	NA	"JHCCPT5"	"JHCCPN5"	"ATATATATATATATATATATAT"	"ATATATATATATATATATATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1573-162_1573-141delATATATATATATATATATATAT"	""	""	"ENST00000394249"	""	9	"."	5	1	"."	0	"PRC1,intron_variant,,ENST00000361188,;PRC1,intron_variant,,ENST00000394249,NM_003981.3;PRC1,intron_variant,,ENST00000361919,NM_199413.2;PRC1,intron_variant,,ENST00000442656,NM_001267580.1;PRC1,intron_variant,,ENST00000555455,;PRC1,intron_variant,,ENST00000560423,;PRC1,intron_variant,,ENST00000556972,;PRC1,intron_variant,,ENST00000559828,;PRC1-AS1,intron_variant,,ENST00000554388,;PRC1-AS1,intron_variant,,ENST00000556200,;PRC1,downstream_gene_variant,,ENST00000560914,;PRC1,downstream_gene_variant,,ENST00000559326,;"	"-"	"ENSG00000198901"	"ENST00000394249"	"Transcript"	"intron_variant"	"-/3032"	"-/1863"	"-/620"	""	""	"rs71703424"	"1"	NA	-1	"PRC1"	"HGNC"	9341	"protein_coding"	"YES"	"CCDS32334.1"	"ENSP00000377793"	"O43663"	""	"UPI00001A5ED8"	"NM_003981.3"	NA	NA	""	"12/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATATATATATATATATATATATA"	"7be3caac-280f-11e6-8e39-0ed4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3676"	"PRC1"	9055	"mskcc.org"	"GRCh37"	"15"	91537354	91537355	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs569406604"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.11+282dupA"	""	""	"ENST00000394249"	""	21	"."	6	5	"."	0	"PRC1,intron_variant,,ENST00000361188,;PRC1,intron_variant,,ENST00000394249,NM_003981.3;PRC1,intron_variant,,ENST00000361919,NM_199413.2;PRC1,intron_variant,,ENST00000442656,NM_001267580.1;PRC1,intron_variant,,ENST00000557905,;PRC1,intron_variant,,ENST00000559811,;VPS33B,downstream_gene_variant,,ENST00000333371,NM_018668.3;VPS33B,downstream_gene_variant,,ENST00000535906,;VPS33B,downstream_gene_variant,,ENST00000535843,;PRC1,intron_variant,,ENST00000556129,;PRC1,intron_variant,,ENST00000555745,;PRC1,intron_variant,,ENST00000417173,;PRC1,intron_variant,,ENST00000557763,;PRC1,intron_variant,,ENST00000553494,;PRC1,intron_variant,,ENST00000555791,;PRC1,intron_variant,,ENST00000560605,;VPS33B,downstream_gene_variant,,ENST00000574755,;VPS33B,downstream_gene_variant,,ENST00000557470,;"	"T"	"ENSG00000198901"	"ENST00000394249"	"Transcript"	"intron_variant"	"-/3032"	"-/1863"	"-/620"	""	""	"rs569406604"	"1"	NA	-1	"PRC1"	"HGNC"	9341	"protein_coding"	"YES"	"CCDS32334.1"	"ENSP00000377793"	"O43663"	""	"UPI00001A5ED8"	"NM_003981.3"	NA	NA	""	"1/14"	""	"T:0.0080"	"T:0"	"T:0.013"	NA	"T:0"	"T:0.0209"	"T:0.0102"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"8aee1c46-280f-11e6-8e39-0ed4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3677"	"SV2B"	9899	"mskcc.org"	"GRCh37"	"15"	91789944	91789949	"+"	"Intron"	"DEL"	"CCTCCT"	"CCTCCT"	"-"	"rs146172915"	NA	"JHCCPT5"	"JHCCPN5"	"CCTCCT"	"CCTCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.452-5075_452-5070delCCTCCT"	""	""	"ENST00000394232"	""	17	"."	5	4	"."	0	"SV2B,intron_variant,,ENST00000394232,NM_014848.4;SV2B,intron_variant,,ENST00000330276,;SV2B,intron_variant,,ENST00000545111,NM_001167580.1;SV2B,intron_variant,,ENST00000557291,;SV2B,intron_variant,,ENST00000557410,;"	"-"	"ENSG00000185518"	"ENST00000394232"	"Transcript"	"intron_variant"	"-/11279"	"-/2052"	"-/683"	""	""	"rs146172915"	"1"	NA	1	"SV2B"	"HGNC"	16874	"protein_coding"	"YES"	"CCDS10370.1"	"ENSP00000377779"	"Q7L1I2"	""	"UPI000006FCF1"	"NM_014848.4"	NA	NA	""	"2/12"	""	"-:0.2867"	"-:0.8253"	"-:0.1066"	NA	"-:0.1171"	"-:0.0696"	"-:0.0849"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"30"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACCTCCTC"	"7bf42a32-280f-11e6-8e39-0ed4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"3678"	"FAM174B"	400451	"mskcc.org"	"GRCh37"	"15"	93211190	93211194	"+"	"5'UTR"	"DEL"	"AAAGA"	"AAAGA"	"-"	"rs60004140"	NA	"JHCCPT5"	"JHCCPN5"	"AAAGA"	"AAAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-147_-143delTCTTT"	""	""	"ENST00000557480"	"1/3"	6	"."	3	1	"."	0	"FAM174B,5_prime_UTR_variant,,ENST00000557480,;FAM174B,intron_variant,,ENST00000557398,;"	"-"	"ENSG00000185442"	"ENST00000557480"	"Transcript"	"5_prime_UTR_variant"	"80-84/555"	"-/329"	"-/109"	""	""	"rs60004140"	"1"	NA	-1	"FAM174B"	"HGNC"	34339	"protein_coding"	""	""	"ENSP00000455213"	""	"H3BR69,H3BPY1,H3BP98"	"UPI00024674A2"	""	NA	NA	"1/3"	""	""	"-:0.1522"	"-:0.2156"	"-:0.1369"	NA	"-:0.0109"	"-:0.1581"	"-:0.2168"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAAGAA"	"7c23a9ba-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3679"	"CTD-3049M7.1"	283682	"mskcc.org"	"GRCh37"	"15"	94316963	94316964	"+"	"Intron"	"INS"	"-"	"-"	"AAACAAAACA"	"rs138172293"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.541-12617_541-12608dupTGTTTTGTTT"	""	""	"ENST00000557481"	""	6	"."	4	1	"."	0	"CTD-3049M7.1,intron_variant,,ENST00000557481,;CTD-3049M7.1,intron_variant,,ENST00000553818,;"	"AAACAAAACA"	"ENSG00000258754"	"ENST00000557481"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3480"	""	""	""	""	"rs138172293"	"1"	NA	-1	"CTD-3049M7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/6"	""	"AAACA:0.0998"	"AAACAAAACAAAACA:0.028"	"AAACAAAACAAAACA:0.0202"	NA	"AAACAAAACAAAACA:0.0446"	"AAACAAAACAAAACA:0.007"	"AAACAAAACAAAACA:0.0051"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"8b45dcba-280f-11e6-8e39-0ed4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3680"	"CTD-2643K12.3"	101927112	"mskcc.org"	"GRCh37"	"15"	94494680	94494695	"+"	"Intron"	"DEL"	"TCTATCTATCTATCTA"	"TCTATCTATCTATCTA"	"-"	"rs71469306"	NA	"JHCCPT5"	"JHCCPN5"	"TCTATCTATCTATCTA"	"TCTATCTATCTATCTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2015-2245_2015-2230delTAGATAGATAGATAGA"	""	""	"ENST00000558874"	""	10	"."	5	4	"."	0	"CTD-2643K12.3,intron_variant,,ENST00000558874,;CTD-2643K12.2,intron_variant,,ENST00000555364,;CTD-3049M7.1,intron_variant,,ENST00000556928,;CTD-2643K12.2,intron_variant,,ENST00000555255,;"	"-"	"ENSG00000259724"	"ENST00000558874"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3173"	""	""	""	""	"rs71469306"	"1"	NA	-1	"CTD-2643K12.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTCTATCTATCTATCTAT"	"7c60be68-280f-11e6-8e39-0ed4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3681"	"AC090825.1"	0	"mskcc.org"	"GRCh37"	"15"	100328438	100328439	"+"	"5'Flank"	"INS"	"-"	"-"	"CCTTTTTTTCTTTAC"	"rs55968952"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408584"	""	12	"."	4	2	"."	0	"AC090825.1,upstream_gene_variant,,ENST00000408584,;RN7SL484P,upstream_gene_variant,,ENST00000462651,;DNM1P46,downstream_gene_variant,,ENST00000341853,;DNM1P46,downstream_gene_variant,,ENST00000559110,;DNM1P46,downstream_gene_variant,,ENST00000561042,;CTD-2054N24.1,upstream_gene_variant,,ENST00000557959,;"	"CCTTTTTTTCTTTAC"	"ENSG00000221511"	"ENST00000408584"	"Transcript"	"upstream_gene_variant"	"-/83"	""	""	""	""	"rs55968952"	"1"	"4063"	1	"AC090825.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8bcbd2e8-280f-11e6-8e39-0ed4414a729f"	"184"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3682"	"CERS3"	204219	"mskcc.org"	"GRCh37"	"15"	100944085	100944089	"+"	"Intron"	"DEL"	"ATTTT"	"ATTTT"	"-"	"rs75757958"	NA	"JHCCPT5"	"JHCCPN5"	"ATTTT"	"ATTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1000-1019_1000-1015delAAAAT"	""	""	"ENST00000284382"	""	8	"."	3	1	"."	0	"CERS3,intron_variant,,ENST00000284382,NM_178842.3;CERS3,intron_variant,,ENST00000394113,;CERS3,intron_variant,,ENST00000538112,;RP11-168G16.2,intron_variant,,ENST00000560718,;RP11-168G16.2,intron_variant,,ENST00000560643,;CERS3,intron_variant,,ENST00000560944,;"	"-"	"ENSG00000154227"	"ENST00000284382"	"Transcript"	"intron_variant"	"-/3894"	"-/1152"	"-/383"	""	""	"rs75757958"	"1"	NA	-1	"CERS3"	"HGNC"	23752	"protein_coding"	"YES"	"CCDS10384.1"	"ENSP00000284382"	"Q8IU89"	"H0YN05,H0YMG6"	"UPI00001975AB"	"NM_178842.3"	NA	NA	""	"12/12"	""	"-:0.2632"	"-:0.1195"	"-:0.2017"	NA	"-:0.4167"	"-:0.2724"	"-:0.3333"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCATTTTA"	"7d44d8a0-280f-11e6-8e39-0ed4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3683"	"PCSK6"	5046	"mskcc.org"	"GRCh37"	"15"	101848892	101848918	"+"	"Intron"	"DEL"	"GGGTTGTGCACTTGTGGGAAGCCCCAT"	"-"	"-"	"rs145787525"	NA	"JHCCPT5"	"JHCCPN5"	"GGGTTGTGCACTTGTGGGAAGCCCCAT"	"GGGTTGTGCACTTGTGGGAAGCCCCAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2697-1388_2697-1362delATGGGGCTTCCCACAAGTGCACAACCC"	""	""	"ENST00000348070"	""	7	"."	5	1	"."	0	"PCSK6,intron_variant,,ENST00000348070,NM_138320.1,NM_002570.3;PCSK6,intron_variant,,ENST00000358417,NM_138321.1,NM_138319.2;PCSK6,intron_variant,,ENST00000398185,;PCSK6,intron_variant,,ENST00000558951,;PCSK6,intron_variant,,ENST00000558864,;RP11-299G20.2,downstream_gene_variant,,ENST00000558838,;PCSK6,intron_variant,,ENST00000561177,;PCSK6,intron_variant,,ENST00000560921,;PCSK6,intron_variant,,ENST00000557794,;PCSK6,intron_variant,,ENST00000558433,;PCSK6,intron_variant,,ENST00000559430,;PCSK6,downstream_gene_variant,,ENST00000561109,;PCSK6,downstream_gene_variant,,ENST00000559678,;PCSK6,non_coding_transcript_exon_variant,,ENST00000559499,;PCSK6,intron_variant,,ENST00000560785,;"	"-"	"ENSG00000140479"	"ENST00000348070"	"Transcript"	"intron_variant"	"-/4236"	"-/2907"	"-/968"	""	""	"rs145787525"	"1"	NA	-1	"PCSK6"	"HGNC"	8569	"protein_coding"	"YES"	""	"ENSP00000305056"	"P29122"	"A2RQD9"	"UPI00001AE92B"	"NM_138320.1,NM_002570.3"	NA	NA	""	"21/22"	""	"-:0.1306"	"-:0.2171"	"-:0.0951"	NA	"-:0"	"-:0.1183"	"-:0.1861"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGGGTTGTGCACTTGTGGGAAGCCCCATG"	"7dc4ce34-280f-11e6-8e39-0ed4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3684"	"DDX11L9"	100288486	"mskcc.org"	"GRCh37"	"15"	102517208	102517208	"+"	"RNA"	"DEL"	"G"	"G"	"-"	"rs147707101"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1203delC"	""	""	"ENST00000515173"	"3/3"	9	"."	3	9	"."	0	"DDX11L9,non_coding_transcript_exon_variant,,ENST00000562189,;DDX11L9,non_coding_transcript_exon_variant,,ENST00000559159,;WASH3P,downstream_gene_variant,,ENST00000557932,;WASH3P,downstream_gene_variant,,ENST00000558784,;WASH3P,downstream_gene_variant,,ENST00000354296,;WASH3P,downstream_gene_variant,,ENST00000559163,;WASH3P,downstream_gene_variant,,ENST00000558686,;DDX11L9,non_coding_transcript_exon_variant,,ENST00000515173,;WASH3P,downstream_gene_variant,,ENST00000398121,;WASH3P,downstream_gene_variant,,ENST00000338304,;WASH3P,downstream_gene_variant,,ENST00000560956,;WASH3P,downstream_gene_variant,,ENST00000378819,;DDX11L9,downstream_gene_variant,,ENST00000560040,;DDX11L9,downstream_gene_variant,,ENST00000538648,;"	"-"	"ENSG00000248472"	"ENST00000515173"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1203/1653"	""	""	""	""	"rs147707101"	"1"	NA	-1	"DDX11L9"	"HGNC"	37109	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"3/3"	""	""	"G:0.4203"	"-:0.6505"	"-:0.6153"	NA	"-:0.4028"	"-:0.6342"	"-:0.5849"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"7e1ef468-280f-11e6-8e39-0ed4414a729f"	"53"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3685"	"POLR3K"	51728	"mskcc.org"	"GRCh37"	"16"	101305	101308	"+"	"Intron"	"DEL"	"AAGG"	"AAGG"	"-"	"rs147964160"	NA	"JHCCPT5"	"JHCCPN5"	"AAGG"	"AAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.199+250_199+253delCCTT"	""	""	"ENST00000293860"	""	7	"."	4	4	"."	0	"POLR3K,intron_variant,,ENST00000293860,NM_016310.3;SNRNP25,upstream_gene_variant,,ENST00000293861,;SNRNP25,upstream_gene_variant,,ENST00000383018,NM_024571.3;SNRNP25,upstream_gene_variant,,ENST00000417493,;SNRNP25,upstream_gene_variant,,ENST00000493672,;POLR3K,intron_variant,,ENST00000481810,;SNRNP25,upstream_gene_variant,,ENST00000481947,;SNRNP25,upstream_gene_variant,,ENST00000466183,;SNRNP25,upstream_gene_variant,,ENST00000397876,;"	"-"	"ENSG00000161980"	"ENST00000293860"	"Transcript"	"intron_variant"	"-/1392"	"-/327"	"-/108"	""	""	"rs147964160"	"1"	NA	-1	"POLR3K"	"HGNC"	14121	"protein_coding"	"YES"	"CCDS10395.1"	"ENSP00000293860"	"Q9Y2Y1"	""	"UPI0000071729"	"NM_016310.3"	NA	NA	""	"2/2"	""	"-:0.1288"	"-:0.1157"	"-:0.1945"	NA	"-:0.0298"	"-:0.2177"	"-:0.1104"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAAGGA"	"647ee34c-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3686"	"RP11-161M6.3"	0	"mskcc.org"	"GRCh37"	"16"	1050834	1050834	"+"	"RNA"	"DEL"	"G"	"G"	"-"	"rs113546888"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.89delC"	""	""	"ENST00000599946"	"2/8"	12	"."	3	3	"."	0	"RP11-161M6.3,non_coding_transcript_exon_variant,,ENST00000599946,;RP11-161M6.3,upstream_gene_variant,,ENST00000565401,;"	"-"	"ENSG00000260496"	"ENST00000599946"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"89/984"	""	""	""	""	"rs113546888"	"1"	NA	-1	"RP11-161M6.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	"2/8"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCGG"	"6632ea6c-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3687"	"MEIOB"	64735	"mskcc.org"	"GRCh37"	"16"	1922290	1922291	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs112130827"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000412554"	""	8	"."	4	2	"."	0	"MEIOB,intron_variant,,ENST00000470044,;MEIOB,upstream_gene_variant,,ENST00000412554,NM_001163560.2;MEIOB,upstream_gene_variant,,ENST00000452149,;MEIOB,upstream_gene_variant,,ENST00000397344,NM_152764.2;MEIOB,upstream_gene_variant,,ENST00000325962,;MEIOB,upstream_gene_variant,,ENST00000496541,;AL499628.1,downstream_gene_variant,,ENST00000584905,;MEIOB,upstream_gene_variant,,ENST00000460494,;"	"G"	"ENSG00000162039"	"ENST00000412554"	"Transcript"	"upstream_gene_variant"	"-/1884"	"-/1416"	"-/471"	""	""	"rs112130827"	"1"	"111"	-1	"MEIOB"	"HGNC"	28569	"protein_coding"	"YES"	"CCDS53983.1"	"ENSP00000390778"	"Q8N635"	"H3BU10,H3BSU6"	"UPI000198C771"	"NM_001163560.2"	NA	NA	""	""	""	"-:0.1917"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"92507baa-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3688"	"TRAF7"	84231	"mskcc.org"	"GRCh37"	"16"	2214176	2214177	"+"	"Intron"	"INS"	"-"	"-"	"GCGCGCACGCGT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.81+178_81+189dupCGCACGCGTGCG"	""	""	"ENST00000326181"	""	24	"."	5	8	"."	0	"TRAF7,intron_variant,,ENST00000326181,NM_032271.2;TRAF7,intron_variant,,ENST00000567645,;TRAF7,intron_variant,,ENST00000564067,;TRAF7,intron_variant,,ENST00000565383,;TRAF7,intron_variant,,ENST00000567653,;TRAF7,intron_variant,,ENST00000569686,;"	"GCGCGCACGCGT"	"ENSG00000131653"	"ENST00000326181"	"Transcript"	"intron_variant"	"-/3700"	"-/2013"	"-/670"	""	""	""	"1"	NA	1	"TRAF7"	"HGNC"	20456	"protein_coding"	"YES"	"CCDS10461.1"	"ENSP00000318944"	"Q6Q0C0"	"H3BR17,D3DU86"	"UPI000014186F"	"NM_032271.2"	NA	NA	""	"2/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"9284796e-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WXS"	TRUE
"3689"	"ABCA3"	21	"mskcc.org"	"GRCh37"	"16"	2358198	2358198	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs58682966"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1285+253delC"	""	""	"ENST00000301732"	""	20	"."	5	7	"."	0	"ABCA3,intron_variant,,ENST00000301732,NM_001089.2;ABCA3,intron_variant,,ENST00000382381,;ABCA3,intron_variant,,ENST00000563623,;"	"-"	"ENSG00000167972"	"ENST00000301732"	"Transcript"	"intron_variant"	"-/6609"	"-/5115"	"-/1704"	""	""	"rs58682966"	"1"	NA	-1	"ABCA3"	"HGNC"	33	"protein_coding"	"YES"	"CCDS10466.1"	"ENSP00000301732"	"Q99758"	""	"UPI0000001232"	"NM_001089.2"	NA	NA	""	"11/32"	""	"-:0.0994"	"-:0.1286"	"-:0.1153"	NA	"-:0.0169"	"-:0.1759"	"-:0.0552"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTGG"	"67aa15dc-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"3690"	"PRSS22"	64063	"mskcc.org"	"GRCh37"	"16"	2907672	2907673	"+"	"Intron"	"DEL"	"GT"	"-"	"-"	"rs76381463"	NA	"JHCCPT5"	"JHCCPN5"	"GT"	"GT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.82+351_82+352delAC"	""	""	"ENST00000161006"	""	6	"."	5	1	"."	0	"PRSS22,intron_variant,,ENST00000161006,NM_022119.3;PRSS22,intron_variant,,ENST00000571228,;LA16c-325D7.1,upstream_gene_variant,,ENST00000577140,;PRSS22,intron_variant,,ENST00000574768,;PRSS22,intron_variant,,ENST00000577177,;PRSS22,frameshift_variant,p.Thr86GlnfsTer?,ENST00000576381,;PRSS22,upstream_gene_variant,,ENST00000575164,;PRSS22,upstream_gene_variant,,ENST00000570950,;PRSS22,upstream_gene_variant,,ENST00000572061,;"	"-"	"ENSG00000005001"	"ENST00000161006"	"Transcript"	"intron_variant"	"-/1386"	"-/954"	"-/317"	""	""	"rs76381463"	"1"	NA	-1	"PRSS22"	"HGNC"	14368	"protein_coding"	"YES"	"CCDS10481.1"	"ENSP00000161006"	"Q9GZN4"	""	"UPI0000126AFA"	"NM_022119.3"	NA	NA	""	"1/5"	""	"GT:0.2488"	"-:0.7799"	"-:0.804"	NA	"-:0.627"	"-:0.833"	"-:0.7188"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.6312"	"0.8333"	"0"	"0"	"1"	"0.85"	"0"	"0"	NA	"common_variant"	"TGGTG"	"681339cc-280f-11e6-b86a-fad3414a729f"	"300"	0.8571	"36/42"	"2213/3506"	"15/18"	"0/0"	"0/0"	"4/4"	"17/20"	"0/0"	"0/0"	"PASS"	"FALSE"	0.833333333333333	"WXS"	FALSE
"3691"	"ZNF263"	283876	"mskcc.org"	"GRCh37"	"16"	3319794	3319795	"+"	"Intron"	"INS"	"-"	"-"	"TTTTCT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-171+5915_-171+5916insCTTTTT"	""	""	"ENST00000538765"	""	7	"."	3	1	"."	0	"ZNF263,intron_variant,,ENST00000538765,;ZNF263,downstream_gene_variant,,ENST00000573951,;ZNF263,downstream_gene_variant,,ENST00000572123,;"	"TTTTCT"	"ENSG00000006194"	"ENST00000538765"	"Transcript"	"intron_variant"	"-/1721"	"-/996"	"-/331"	""	""	""	"1"	NA	1	"ZNF263"	"HGNC"	13056	"protein_coding"	""	""	"ENSP00000444497"	""	"B4DI05"	"UPI00017A7155"	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"92cfeed0-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3692"	"SRL"	6345	"mskcc.org"	"GRCh37"	"16"	4277057	4277058	"+"	"Intron"	"INS"	"-"	"-"	"TGGATGGG"	"rs141532012"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.61+14950_61+14951insCCCATCCA"	""	""	"ENST00000399609"	""	10	"."	3	3	"."	0	"SRL,intron_variant,,ENST00000399609,NM_001098814.1;SRL,intron_variant,,ENST00000537996,;SRL,intron_variant,,ENST00000572111,;"	"TGGATGGG"	"ENSG00000185739"	"ENST00000399609"	"Transcript"	"intron_variant"	"-/4214"	"-/1422"	"-/473"	""	""	"rs141532012"	"1"	NA	-1	"SRL"	"HGNC"	11295	"protein_coding"	"YES"	"CCDS42113.1"	"ENSP00000382518"	"Q86TD4"	"B4DYT9"	"UPI00006688CC"	"NM_001098814.1"	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"92f85c62-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3693"	"RP11-420N3.2"	0	"mskcc.org"	"GRCh37"	"16"	5470881	5470882	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs774148022"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.292-46331dupC"	""	""	"ENST00000585867"	""	8	"."	3	8	"."	0	"RP11-420N3.2,intron_variant,,ENST00000569895,;RP11-420N3.2,intron_variant,,ENST00000585867,;"	"C"	"ENSG00000260411"	"ENST00000585867"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1580"	""	""	""	""	"rs774148022"	"1"	NA	1	"RP11-420N3.2"	"Clone_based_vega_gene"	NA	"retained_intron"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"936fab1e-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3694"	"RP11-420N3.2"	0	"mskcc.org"	"GRCh37"	"16"	5975984	5975985	"+"	"Intron"	"DEL"	"TG"	"-"	"-"	"rs139720122"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.436+58649_436+58650delGT"	""	""	"ENST00000569895"	""	7	"."	5	2	"."	0	"RP11-420N3.2,intron_variant,,ENST00000569895,;"	"-"	"ENSG00000260411"	"ENST00000569895"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/829"	""	""	""	""	"rs139720122"	"1"	NA	1	"RP11-420N3.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"4/6"	""	"-:0.0016"	"-:0"	"-:0.0014"	NA	"-:0"	"-:0.007"	"-:0"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"6a411426-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3695"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	6722442	6722443	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs527827643"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.114+17794_114+17795delGA"	""	""	"ENST00000547372"	""	20	"."	4	4	"."	0	"RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RBFOX1,intron_variant,,ENST00000535565,;RBFOX1,intron_variant,,ENST00000552089,;RBFOX1,intron_variant,,ENST00000551752,;RP11-420N3.2,intron_variant,,ENST00000569895,;RBFOX1,intron_variant,,ENST00000547427,;RBFOX1,intron_variant,,ENST00000548749,;"	"-"	"ENSG00000078328"	"ENST00000547372"	"Transcript"	"intron_variant"	"-/3524"	"-/1401"	"-/466"	""	""	"rs527827643"	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	""	""	"ENSP00000446842"	""	"Q8TCM0,Q59HD3,F8VZY7,F8VZG9"	"UPI00020CDFAB"	""	NA	NA	""	"3/16"	""	"-:0.0018"	"-:0.003"	"-:0.0043"	NA	"-:0"	"-:0.001"	"-:0.001"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"6a590e00-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"3696"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	7077774	7077774	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs112914770"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.115-24276delT"	""	""	"ENST00000547372"	""	10	"."	3	1	"."	0	"RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RBFOX1,intron_variant,,ENST00000535565,;RBFOX1,intron_variant,,ENST00000547338,NM_001142334.1;RBFOX1,intron_variant,,ENST00000552089,;RBFOX1,intron_variant,,ENST00000551752,;RBFOX1,intron_variant,,ENST00000547427,;"	"-"	"ENSG00000078328"	"ENST00000547372"	"Transcript"	"intron_variant"	"-/3524"	"-/1401"	"-/466"	""	""	"rs112914770"	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	""	""	"ENSP00000446842"	""	"Q8TCM0,Q59HD3,F8VZY7,F8VZG9"	"UPI00020CDFAB"	""	NA	NA	""	"3/16"	""	"-:0.2188"	"-:0.3684"	"-:0.1282"	NA	"-:0.3075"	"-:0.0547"	"-:0.1585"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATT"	"6a610ace-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3697"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	7322670	7322671	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs71280733"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.156+220571_156+220572insT"	""	""	"ENST00000547372"	""	7	"."	5	1	"."	0	"RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RBFOX1,intron_variant,,ENST00000535565,;RBFOX1,intron_variant,,ENST00000547338,NM_001142334.1;RBFOX1,intron_variant,,ENST00000552089,;RBFOX1,intron_variant,,ENST00000551752,;RBFOX1,intron_variant,,ENST00000547427,;"	"T"	"ENSG00000078328"	"ENST00000547372"	"Transcript"	"intron_variant"	"-/3524"	"-/1401"	"-/466"	""	""	"rs71280733"	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	""	""	"ENSP00000446842"	""	"Q8TCM0,Q59HD3,F8VZY7,F8VZG9"	"UPI00020CDFAB"	""	NA	NA	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"937d1d80-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3698"	"RP11-483K5.2"	0	"mskcc.org"	"GRCh37"	"16"	8559771	8559772	"+"	"3'Flank"	"INS"	"-"	"-"	"TC"	"rs58561777"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000567734"	""	7	"."	3	2	"."	0	"RP11-483K5.2,downstream_gene_variant,,ENST00000567734,;"	"TC"	"ENSG00000260379"	"ENST00000567734"	"Transcript"	"downstream_gene_variant"	"-/456"	""	""	""	""	"rs58561777"	"1"	"1184"	1	"RP11-483K5.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3552"	"TC:0.6611"	"TC:0.6859"	NA	"TC:0.6071"	"TC:0.6034"	"TC:0.6748"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"9397d120-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3699"	"ENSR00000503300"	0	"mskcc.org"	"GRCh37"	"16"	9106829	9106829	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs34250973"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000503300"	""	10	"."	6	1	"."	0	""	"-"	""	"ENSR00000503300"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs34250973"	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2626"	"-:0.0204"	"-:0.4049"	NA	"-:0.4028"	"-:0.2942"	"-:0.3119"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"6afdb3ba-280f-11e6-b86a-fad3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"3700"	"GRIN2A"	2903	"mskcc.org"	"GRCh37"	"16"	9971728	9971729	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs57702157"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1122+13114dupG"	""	""	"ENST00000330684"	""	7	"."	4	3	"."	0	"GRIN2A,intron_variant,,ENST00000396573,NM_000833.3;GRIN2A,intron_variant,,ENST00000330684,NM_001134407.1;GRIN2A,intron_variant,,ENST00000404927,NM_001134408.1;GRIN2A,intron_variant,,ENST00000562109,;GRIN2A,intron_variant,,ENST00000396575,;GRIN2A,intron_variant,,ENST00000535259,;GRIN2A,intron_variant,,ENST00000566683,;"	"C"	"ENSG00000183454"	"ENST00000330684"	"Transcript"	"intron_variant"	"-/5031"	"-/4395"	"-/1464"	""	""	"rs57702157"	"1"	NA	-1	"GRIN2A"	"HGNC"	4585	"protein_coding"	""	"CCDS10539.1"	"ENSP00000332549"	"Q12879"	"Q547U9"	"UPI000000D7AB"	"NM_001134407.1"	NA	NA	""	"4/12"	""	"C:0.3490"	"C:0.6362"	"C:0.2622"	NA	"C:0.131"	"C:0.3211"	"C:0.2761"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"93e0fb16-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	TRUE
"3701"	"BCAR4"	400500	"mskcc.org"	"GRCh37"	"16"	11911165	11911166	"+"	"3'Flank"	"DEL"	"GA"	"GA"	"-"	"rs56913169"	NA	"JHCCPT5"	"JHCCPN5"	"GA"	"GA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000573319"	""	6	"."	3	1	"."	0	"BCAR4,downstream_gene_variant,,ENST00000573319,;BCAR4,downstream_gene_variant,,ENST00000573037,;BCAR4,downstream_gene_variant,,ENST00000571158,;BCAR4,downstream_gene_variant,,ENST00000571259,;BCAR4,downstream_gene_variant,,ENST00000574028,;BCAR4,downstream_gene_variant,,ENST00000577041,;"	"-"	"ENSG00000262117"	"ENST00000573319"	"Transcript"	"downstream_gene_variant"	"-/1273"	""	""	""	""	"rs56913169"	"1"	"2541"	-1	"BCAR4"	"HGNC"	22170	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACGAC"	"6c1c0b34-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3702"	"SHISA9"	729993	"mskcc.org"	"GRCh37"	"16"	13000989	13001011	"+"	"Intron"	"DEL"	"TCTTCCTTTCCCTCCCTCCCTCC"	"TCTTCCTTTCCCTCCCTCCCTCC"	"CTTTCCCTCCCTCCTTCCCTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TCTTCCTTTCCCTCCCTCCCTCC"	"TCTTCCTTTCCCTCCCTCCCTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.563+4505_563+4526delTCTTCCTTTCCCTCCCTCCCTCinsCTTTCCCTCCCTCCTTCCCT"	""	""	"ENST00000424107"	""	18	"."	5	3	"."	0	"SHISA9,intron_variant,,ENST00000558583,NM_001145204.2;SHISA9,intron_variant,,ENST00000558318,NM_001145205.1;SHISA9,intron_variant,,ENST00000423335,;SHISA9,intron_variant,,ENST00000424107,;SHISA9,intron_variant,,ENST00000482916,;"	"CTTTCCCTCCCTCCTTCCCT"	"ENSG00000237515"	"ENST00000424107"	"Transcript"	"intron_variant"	"-/2020"	"-/1275"	"-/424"	""	""	""	"1"	NA	1	"SHISA9"	"HGNC"	37231	"protein_coding"	"YES"	"CCDS45417.2"	"ENSP00000407958"	"B4DS77"	""	"UPI0001CE6F1C"	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCTTCCTTTCCCTCCCTCCCTCCC"	"90b91d10-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"3703"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	13966971	13966973	"+"	"IGR"	"DEL"	"TGG"	"TGG"	"-"	"rs112934298"	NA	"JHCCPT5"	"JHCCPN5"	"TGG"	"TGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112934298"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATGGT"	"6c4a9814-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3704"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	15059742	15059743	"+"	"IGR"	"INS"	"-"	"-"	"TT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	3	2	"."	0	""	"TT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"9446063c-280f-11e6-b86a-fad3414a729f"	"147"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"3705"	"MYH11"	4629	"mskcc.org"	"GRCh37"	"16"	15854207	15854218	"+"	"Intron"	"DEL"	"ATGGATGGATGG"	"ATGGATGGATGG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"ATGGATGGATGG"	"ATGGATGGATGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1269+179_1269+190delCCATCCATCCAT"	""	""	"ENST00000396324"	""	54	"."	10	10	"."	0	"MYH11,intron_variant,,ENST00000452625,NM_001040113.1;MYH11,intron_variant,,ENST00000396324,NM_001040114.1;MYH11,intron_variant,,ENST00000576790,NM_022844.2;MYH11,intron_variant,,ENST00000300036,NM_002474.2;MYH11,intron_variant,,ENST00000570785,;"	"-"	"ENSG00000133392"	"ENST00000396324"	"Transcript"	"intron_variant"	"-/6847"	"-/5940"	"-/1979"	""	""	""	"1"	NA	-1	"MYH11"	"HGNC"	7569	"protein_coding"	"YES"	"CCDS45423.1"	"ENSP00000379616"	"P35749"	"Q68D89,Q66K75"	"UPI00005B7237"	"NM_001040114.1"	NA	NA	""	"12/41"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAATGGATGGATGGA"	"6cb80520-280f-11e6-b86a-fad3414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WXS"	TRUE
"3706"	"ABCC1"	4363	"mskcc.org"	"GRCh37"	"16"	16048426	16048426	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs4148332"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.48+4773delG"	""	""	"ENST00000399410"	""	10	"."	6	1	"."	0	"ABCC1,intron_variant,,ENST00000399408,;ABCC1,intron_variant,,ENST00000399410,NM_004996.3;ABCC1,intron_variant,,ENST00000346370,;ABCC1,intron_variant,,ENST00000351154,;ABCC1,intron_variant,,ENST00000345148,;ABCC1,intron_variant,,ENST00000349029,;"	"-"	"ENSG00000103222"	"ENST00000399410"	"Transcript"	"intron_variant"	"-/6552"	"-/4596"	"-/1531"	""	""	"rs4148332"	"1"	NA	1	"ABCC1"	"HGNC"	51	"protein_coding"	"YES"	"CCDS42122.1"	"ENSP00000382342"	"P33527"	"Q9BV39"	"UPI00001FEEFC"	"NM_004996.3"	NA	NA	""	"1/30"	""	"G:0.2378"	"-:0.7753"	"-:0.7147"	NA	"-:0.6875"	"-:0.8012"	"-:0.8149"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGG"	"6cb9428c-280f-11e6-b86a-fad3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"3707"	"ABCC6"	368	"mskcc.org"	"GRCh37"	"16"	16249269	16249272	"+"	"Intron"	"DEL"	"CCAT"	"CCAT"	"-"	"rs34148011"	NA	"JHCCPT5"	"JHCCPN5"	"CCAT"	"CCAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3883-384_3883-381delATGG"	""	""	"ENST00000205557"	""	55	"."	10	11	"."	0	"ABCC6,intron_variant,,ENST00000205557,NM_001171.5;ABCC6,non_coding_transcript_exon_variant,,ENST00000576204,;ABCC6,intron_variant,,ENST00000456970,;"	"-"	"ENSG00000091262"	"ENST00000205557"	"Transcript"	"intron_variant"	"-/5747"	"-/4512"	"-/1503"	""	""	"rs34148011"	"1"	NA	-1	"ABCC6"	"HGNC"	57	"protein_coding"	"YES"	"CCDS10568.1"	"ENSP00000205557"	"O95255"	""	"UPI00001AE5CA"	"NM_001171.5"	NA	NA	""	"27/30"	""	"-:0.2808"	"-:0.0688"	"-:0.2478"	NA	"-:0.4494"	"-:0.2197"	"-:0.4796"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGCCATC"	"6cd89f10-280f-11e6-b86a-fad3414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"3708"	"XYLT1"	64131	"mskcc.org"	"GRCh37"	"16"	17212142	17212143	"+"	"Intron"	"INS"	"-"	"-"	"GAATGAATGAAT"	"rs146083737"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2224-318_2224-307dupATTCATTCATTC"	""	""	"ENST00000261381"	""	14	"."	4	5	"."	0	"XYLT1,intron_variant,,ENST00000261381,NM_022166.3;"	"GAATGAATGAAT"	"ENSG00000103489"	"ENST00000261381"	"Transcript"	"intron_variant"	"-/9891"	"-/2880"	"-/959"	""	""	"rs146083737"	"1"	NA	-1	"XYLT1"	"HGNC"	15516	"protein_coding"	"YES"	"CCDS10569.1"	"ENSP00000261381"	"Q86Y38"	""	"UPI000000DCCE"	"NM_022166.3"	NA	NA	""	"10/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"94a17486-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3709"	"XYLT1"	64131	"mskcc.org"	"GRCh37"	"16"	17333450	17333451	"+"	"Intron"	"INS"	"-"	"-"	"TCCA"	"rs575639109"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.913+19391_913+19394dupTGGA"	""	""	"ENST00000261381"	""	10	"."	3	3	"."	0	"XYLT1,intron_variant,,ENST00000261381,NM_022166.3;XYLT1,intron_variant,,ENST00000575674,;"	"TCCA"	"ENSG00000103489"	"ENST00000261381"	"Transcript"	"intron_variant"	"-/9891"	"-/2880"	"-/959"	""	""	"rs575639109"	"1"	NA	-1	"XYLT1"	"HGNC"	15516	"protein_coding"	"YES"	"CCDS10569.1"	"ENSP00000261381"	"Q86Y38"	""	"UPI000000DCCE"	"NM_022166.3"	NA	NA	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"94a39dba-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3710"	"CTA-481E9.4"	0	"mskcc.org"	"GRCh37"	"16"	18092830	18092831	"+"	"Intron"	"INS"	"-"	"-"	"AC"	"rs147671388"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.145-27029_145-27028dupGT"	""	""	"ENST00000567304"	""	9	"."	6	1	"."	0	"CTA-481E9.4,intron_variant,,ENST00000567304,;CTA-481E9.3,downstream_gene_variant,,ENST00000563866,;"	"AC"	"ENSG00000259929"	"ENST00000567304"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/547"	""	""	""	""	"rs147671388"	"1"	NA	-1	"CTA-481E9.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"AC:0.0114"	"AC:0.0318"	"AC:0.0043"	NA	"AC:0"	"AC:0.007"	"AC:0.0051"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"94a5f56a-280f-11e6-b86a-fad3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3711"	"SMG1"	552900	"mskcc.org"	"GRCh37"	"16"	18830082	18830083	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs71942435"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9894+741dupA"	""	""	"ENST00000446231"	""	8	"."	4	3	"."	0	"SMG1,intron_variant,,ENST00000446231,;SMG1,intron_variant,,ENST00000389467,NM_015092.4;SMG1,intron_variant,,ENST00000565324,;SMG1,upstream_gene_variant,,ENST00000561940,;"	"T"	"ENSG00000157106"	"ENST00000446231"	"Transcript"	"intron_variant"	"-/16115"	"-/10986"	"-/3661"	""	""	"rs71942435"	"1"	NA	-1	"SMG1"	"HGNC"	30045	"protein_coding"	"YES"	"CCDS45430.1"	"ENSP00000402515"	"Q96Q15"	"H3BPS6"	"UPI00004F8E22"	""	NA	NA	""	"56/62"	""	"T:0.2432"	"T:0.1346"	"T:0.2997"	NA	"T:0.1091"	"T:0.3917"	"T:0.3354"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"94ad7902-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3712"	"SYT17"	51760	"mskcc.org"	"GRCh37"	"16"	19278601	19278601	"+"	"3'UTR"	"DEL"	"T"	"T"	"-"	"rs11286714"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*204delT"	""	""	"ENST00000355377"	"8/8"	13	"."	7	2	"."	0	"SYT17,3_prime_UTR_variant,,ENST00000355377,NM_016524.2;SYT17,downstream_gene_variant,,ENST00000562034,;SYT17,downstream_gene_variant,,ENST00000562711,;SYT17,downstream_gene_variant,,ENST00000568433,;"	"-"	"ENSG00000103528"	"ENST00000355377"	"Transcript"	"3_prime_UTR_variant"	"2026/3077"	"-/1425"	"-/474"	""	""	"rs11286714"	"1"	NA	1	"SYT17"	"HGNC"	24119	"protein_coding"	"YES"	"CCDS10575.1"	"ENSP00000347538"	"Q9BSW7"	"H3BSP0,H3BRH9,H3BMD4"	"UPI000007297F"	"NM_016524.2"	NA	NA	"8/8"	""	""	"T:0.2089"	"-:0.8464"	"-:0.7003"	NA	"-:0.9881"	"-:0.5408"	"-:0.8354"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTT"	"6d2b7b4a-280f-11e6-b86a-fad3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.538461538461538	"WXS"	FALSE
"3713"	"CTA-363E6.2"	0	"mskcc.org"	"GRCh37"	"16"	19413556	19413557	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs57829186"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000563613"	""	6	"."	4	2	"."	0	"CTA-363E6.2,upstream_gene_variant,,ENST00000563613,;"	"A"	"ENSG00000259925"	"ENST00000563613"	"Transcript"	"upstream_gene_variant"	"-/1937"	""	""	""	""	"rs57829186"	"1"	"541"	-1	"CTA-363E6.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4141"	"A:0.444"	"A:0.6643"	NA	"A:0.5645"	"A:0.5895"	"A:0.7403"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"94c81c8a-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3714"	"C16orf62"	57020	"mskcc.org"	"GRCh37"	"16"	19627290	19627291	"+"	"Intron"	"INS"	"-"	"-"	"AAT"	"rs141641213"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1291-118_1291-116dupAAT"	""	""	"ENST00000438132"	""	45	"."	4	8	"."	0	"C16orf62,intron_variant,,ENST00000438132,NM_020314.5;C16orf62,intron_variant,,ENST00000251143,;C16orf62,intron_variant,,ENST00000543152,;C16orf62,intron_variant,,ENST00000542263,;C16orf62,intron_variant,,ENST00000417362,;C16orf62,intron_variant,,ENST00000448695,;C16orf62,intron_variant,,ENST00000513947,;C16orf62,intron_variant,,ENST00000538552,;C16orf62,intron_variant,,ENST00000540101,;C16orf62,intron_variant,,ENST00000535164,;C16orf62,intron_variant,,ENST00000539705,;C16orf62,intron_variant,,ENST00000541153,;"	"AAT"	"ENSG00000103544"	"ENST00000438132"	"Transcript"	"intron_variant"	"-/3855"	"-/3159"	"-/1052"	""	""	"rs141641213"	"1"	NA	1	"C16orf62"	"HGNC"	24641	"protein_coding"	"YES"	"CCDS32397.2"	"ENSP00000400815"	""	"I3L1U5,H3BV68,E7EWW0"	"UPI0001E1129C"	"NM_020314.5"	NA	NA	""	"12/30"	""	"AATAATAAT:0.0565"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"30"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"94d53a96-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WXS"	FALSE
"3715"	"AC004381.6"	81691	"mskcc.org"	"GRCh37"	"16"	20824697	20824698	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs34169933"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.251+74dupG"	""	""	"ENST00000261377"	""	116	"."	3	27	"."	0	"ERI2,intron_variant,,ENST00000564349,;AC004381.6,intron_variant,,ENST00000261377,NM_030941.2,NM_001199053.1;AC004381.6,intron_variant,,ENST00000348433,NM_001144924.1;AC004381.6,intron_variant,,ENST00000564274,;AC004381.6,intron_variant,,ENST00000566276,;AC004381.6,intron_variant,,ENST00000563617,;AC004381.6,intron_variant,,ENST00000565340,;AC004381.6,intron_variant,,ENST00000568501,;AC004381.6,intron_variant,,ENST00000568046,;AC004381.6,intron_variant,,ENST00000568894,;AC004381.6,intron_variant,,ENST00000568647,;AC004381.6,intron_variant,,ENST00000563068,;AC004381.6,intron_variant,,ENST00000567297,;AC004381.6,intron_variant,,ENST00000568476,;AC004381.6,intron_variant,,ENST00000566993,;AC004381.6,intron_variant,,ENST00000566518,;"	"G"	"ENSG00000005189"	"ENST00000261377"	"Transcript"	"intron_variant"	"-/2719"	"-/2325"	"-/774"	""	""	"rs34169933"	"1"	NA	1	"AC004381.6"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	"CCDS10591.1"	"ENSP00000261377"	"Q96IC2"	"H3BV93,H3BUT7,H3BSE4,H3BSC5,H3BR13,H3BQ98,H3BPB2,H3BM72"	"UPI0000073454"	"NM_030941.2,NM_001199053.1"	NA	NA	""	"3/19"	""	"-:0.4517"	"G:0.447"	"G:0.6095"	NA	"G:0.375"	"G:0.7068"	"G:0.6575"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"94fe2190-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0258620689655172	"WXS"	FALSE
"3716"	"UQCRC2"	7385	"mskcc.org"	"GRCh37"	"16"	21976397	21976397	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs34620689"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.515-331delG"	""	""	"ENST00000268379"	""	7	"."	3	1	"."	0	"UQCRC2,intron_variant,,ENST00000268379,NM_003366.2;UQCRC2,intron_variant,,ENST00000561553,;UQCRC2,intron_variant,,ENST00000565331,;UQCRC2,intron_variant,,ENST00000563711,;UQCRC2,intron_variant,,ENST00000563898,;UQCRC2,intron_variant,,ENST00000567597,;UQCRC2,downstream_gene_variant,,ENST00000565464,;UQCRC2,upstream_gene_variant,,ENST00000567810,;UQCRC2,downstream_gene_variant,,ENST00000564095,;UQCRC2,downstream_gene_variant,,ENST00000567757,;"	"-"	"ENSG00000140740"	"ENST00000268379"	"Transcript"	"intron_variant"	"-/2615"	"-/1362"	"-/453"	""	""	"rs34620689"	"1"	NA	1	"UQCRC2"	"HGNC"	12586	"protein_coding"	"YES"	"CCDS10601.1"	"ENSP00000268379"	"P22695"	""	"UPI0000137A45"	"NM_003366.2"	NA	NA	""	"6/13"	""	"-:0.1314"	"-:0.0439"	"-:0.1427"	NA	"-:0.1091"	"-:0.0924"	"-:0.3047"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCGG"	"6e545a32-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3717"	"SCNN1B"	6338	"mskcc.org"	"GRCh37"	"16"	23376927	23376941	"+"	"Intron"	"DEL"	"AAAGAAAGAAAGAAA"	"AAAGAAAGAAAGAAA"	"-"	"rs138549303"	NA	"JHCCPT5"	"JHCCPN5"	"AAAGAAAGAAAGAAA"	"AAAGAAAGAAAGAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.777-2240_777-2226delAGAAAAAAGAAAGAA"	""	""	"ENST00000343070"	""	6	"."	4	4	"."	0	"SCNN1B,intron_variant,,ENST00000343070,NM_000336.2;SCNN1B,intron_variant,,ENST00000307331,;SCNN1B,intron_variant,,ENST00000568923,;SCNN1B,intron_variant,,ENST00000568085,;SCNN1B,intron_variant,,ENST00000564275,;SCNN1B,intron_variant,,ENST00000566441,;"	"-"	"ENSG00000168447"	"ENST00000343070"	"Transcript"	"intron_variant"	"-/2597"	"-/1923"	"-/640"	""	""	"rs138549303"	"1"	NA	1	"SCNN1B"	"HGNC"	10600	"protein_coding"	"YES"	"CCDS10609.1"	"ENSP00000345751"	"P51168"	"B2R812"	"UPI0000135616"	"NM_000336.2"	NA	NA	""	"4/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGAAAGAAAGAAAGAAAA"	"6ed7379a-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3718"	"ERN2"	10595	"mskcc.org"	"GRCh37"	"16"	23713313	23713314	"+"	"Intron"	"INS"	"-"	"-"	"AAA"	"rs67167958"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1347+159_1347+160insTTT"	""	""	"ENST00000256797"	""	14	"."	7	2	"."	0	"ERN2,intron_variant,,ENST00000256797,NM_033266.3;ERN2,intron_variant,,ENST00000457008,;ERN2,intron_variant,,ENST00000562562,;ERN2,downstream_gene_variant,,ENST00000561478,;ERN2,downstream_gene_variant,,ENST00000566565,;"	"AAA"	"ENSG00000134398"	"ENST00000256797"	"Transcript"	"intron_variant"	"-/3549"	"-/2925"	"-/974"	""	""	"rs67167958"	"1"	NA	-1	"ERN2"	"HGNC"	16942	"protein_coding"	"YES"	"CCDS32407.1"	"ENSP00000256797"	"Q76MJ5"	""	"UPI000041A8F8"	"NM_033266.3"	NA	NA	""	"11/21"	""	"-:0.2400"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"9540ad9e-280f-11e6-b86a-fad3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3719"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	24440377	24440377	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs35495211"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35495211"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0689"	"-:0.0061"	"-:0.0677"	NA	"-:0.0198"	"-:0.1491"	"-:0.1227"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"6f2f3cd8-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3720"	"HS3ST4"	9951	"mskcc.org"	"GRCh37"	"16"	26014006	26014007	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs546855374"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.735-132921dupA"	""	""	"ENST00000331351"	""	13	"."	3	9	"."	0	"HS3ST4,intron_variant,,ENST00000331351,NM_006040.2;HS3ST4,intron_variant,,ENST00000475436,;"	"A"	"ENSG00000182601"	"ENST00000331351"	"Transcript"	"intron_variant"	"-/3203"	"-/1371"	"-/456"	""	""	"rs546855374"	"1"	NA	1	"HS3ST4"	"HGNC"	5200	"protein_coding"	"YES"	"CCDS53995.1"	"ENSP00000330606"	"Q9Y661"	"A5H458"	"UPI000040938A"	"NM_006040.2"	NA	NA	""	"1/1"	""	"A:0.1985"	"A:0.2368"	"A:0.2464"	NA	"A:0.0952"	"A:0.1909"	"A:0.227"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"958a5886-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"3721"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	26990205	26990206	"+"	"IGR"	"INS"	"-"	"-"	"TCTC"	"rs112799731"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	5	2	"."	0	""	"TCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112799731"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4539"	"TCTC:0.73"	"TCTC:0.4553"	NA	"TCTC:0.4732"	"TCTC:0.4811"	"TCTC:0.5041"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"958f42e2-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"3722"	"NSMCE1"	197370	"mskcc.org"	"GRCh37"	"16"	27249864	27249865	"+"	"Intron"	"INS"	"-"	"-"	"TTC"	"rs71272473"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.137-3245_137-3244insGAA"	""	""	"ENST00000361439"	""	9	"."	5	3	"."	0	"NSMCE1,intron_variant,,ENST00000361439,NM_145080.3;NSMCE1,intron_variant,,ENST00000563273,;NSMCE1,intron_variant,,ENST00000564342,;NSMCE1,intron_variant,,ENST00000563900,;NSMCE1,intron_variant,,ENST00000567710,;NSMCE1,intron_variant,,ENST00000563512,;NSMCE1,intron_variant,,ENST00000565070,;NSMCE1,intron_variant,,ENST00000569236,;NSMCE1,intron_variant,,ENST00000566087,;NSMCE1,intron_variant,,ENST00000561960,;"	"TTC"	"ENSG00000169189"	"ENST00000361439"	"Transcript"	"intron_variant"	"-/1067"	"-/801"	"-/266"	""	""	"rs71272473"	"1"	NA	-1	"NSMCE1"	"HGNC"	29897	"protein_coding"	"YES"	"CCDS10628.2"	"ENSP00000355077"	"Q8WV22"	"H3BSL0,H3BR73,H3BN81"	"UPI0000035D91"	"NM_145080.3"	NA	NA	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"959bc026-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3723"	"IL4R"	3566	"mskcc.org"	"GRCh37"	"16"	27349848	27349848	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34724561"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-18-1653delT"	""	""	"ENST00000395762"	""	9	"."	5	3	"."	0	"IL4R,intron_variant,,ENST00000395762,NM_000418.3;IL4R,intron_variant,,ENST00000543915,NM_001257997.1,NM_001257406.1;IL4R,intron_variant,,ENST00000380922,NM_001257407.1;IL4R,intron_variant,,ENST00000449195,;IL4R,intron_variant,,ENST00000563002,;IL4R,intron_variant,,ENST00000566117,;IL4R,intron_variant,,ENST00000562142,;IL4R,intron_variant,,ENST00000561742,;IL4R,upstream_gene_variant,,ENST00000170630,;IL4R,intron_variant,,ENST00000568746,;IL4R,intron_variant,,ENST00000563787,;IL4R,intron_variant,,ENST00000566318,;IL4R,intron_variant,,ENST00000561946,;IL4R,intron_variant,,ENST00000563926,;IL4R,upstream_gene_variant,,ENST00000565696,;"	"-"	"ENSG00000077238"	"ENST00000395762"	"Transcript"	"intron_variant"	"-/3685"	"-/2478"	"-/825"	""	""	"rs34724561"	"1"	NA	1	"IL4R"	"HGNC"	6015	"protein_coding"	"YES"	"CCDS10629.1"	"ENSP00000379111"	"P24394"	"J9JII2,H3BTD9,A1Z2K8"	"UPI0000044371"	"NM_000418.3"	NA	NA	""	"2/10"	""	"-:0.4848"	"-:0.612"	"-:0.428"	NA	"-:0.504"	"-:0.4235"	"-:0.3967"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATT"	"6fd949da-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3724"	"SBK1"	388228	"mskcc.org"	"GRCh37"	"16"	28332504	28332521	"+"	"3'UTR"	"DEL"	"ACACACACACACACACAC"	"ACACACACACACACACAC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"ACACACACACACACACAC"	"ACACACACACACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*300_*317delACACACACACACACACAC"	""	""	"ENST00000341901"	"4/4"	9	"."	5	4	"."	0	"SBK1,3_prime_UTR_variant,,ENST00000341901,NM_001024401.2;"	"-"	"ENSG00000188322"	"ENST00000341901"	"Transcript"	"3_prime_UTR_variant"	"2326-2343/4992"	"-/1275"	"-/424"	""	""	""	"1"	NA	1	"SBK1"	"HGNC"	17699	"protein_coding"	"YES"	"CCDS32416.1"	"ENSP00000343248"	"Q52WX2"	""	"UPI0000047D05"	"NM_001024401.2"	NA	NA	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"38"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAACACACACACACACACACA"	"700229d6-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3725"	"PHKG2"	5261	"mskcc.org"	"GRCh37"	"16"	30760602	30760603	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs66820167"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.95+381_95+382delGT"	""	""	"ENST00000563588"	""	21	"."	3	10	"."	0	"PHKG2,intron_variant,,ENST00000563588,NM_000294.2;PHKG2,intron_variant,,ENST00000424889,NM_001172432.1;PHKG2,intron_variant,,ENST00000328273,;PHKG2,intron_variant,,ENST00000565897,;PHKG2,intron_variant,,ENST00000565924,;PHKG2,upstream_gene_variant,,ENST00000561712,;RP11-2C24.4,intron_variant,,ENST00000483578,;PHKG2,intron_variant,,ENST00000563913,;PHKG2,intron_variant,,ENST00000564838,;PHKG2,intron_variant,,ENST00000569762,;PHKG2,intron_variant,,ENST00000563607,;SRCAP,downstream_gene_variant,,ENST00000380361,;PHKG2,upstream_gene_variant,,ENST00000569684,;"	"-"	"ENSG00000156873"	"ENST00000563588"	"Transcript"	"intron_variant"	"-/5532"	"-/1221"	"-/406"	""	""	"rs66820167"	"1"	NA	1	"PHKG2"	"HGNC"	8931	"protein_coding"	"YES"	"CCDS10690.1"	"ENSP00000455607"	"P15735"	"Q59GQ4,H3BTW6,H3BP07"	"UPI000012DF54"	"NM_000294.2"	NA	NA	""	"2/9"	""	"TG:0.0176"	"-:0.9372"	"-:0.9928"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTGT"	"714cdad4-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"3726"	"RP11-2C24.5"	0	"mskcc.org"	"GRCh37"	"16"	30831823	30831824	"+"	"3'Flank"	"INS"	"-"	"-"	"ATATAT"	"rs112386274"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000568660"	""	18	"."	3	4	"."	0	"RP11-2C24.5,downstream_gene_variant,,ENST00000568660,;"	"ATATAT"	"ENSG00000260082"	"ENST00000568660"	"Transcript"	"downstream_gene_variant"	"-/600"	""	""	""	""	"rs112386274"	"1"	"565"	-1	"RP11-2C24.5"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1677"	"ATATAT:0.7027"	"ATATAT:0.8818"	NA	"ATATAT:0.878"	"ATATAT:0.8807"	"ATATAT:0.8753"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"960d74b4-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3727"	"SETD1A"	9739	"mskcc.org"	"GRCh37"	"16"	30973202	30973203	"+"	"Intron"	"DEL"	"CT"	"-"	"-"	"rs34557944"	NA	"JHCCPT5"	"JHCCPN5"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.517+346_517+347delCT"	""	""	"ENST00000262519"	""	7	"."	5	1	"."	0	"SETD1A,intron_variant,,ENST00000262519,NM_014712.1;SETD1A,intron_variant,,ENST00000452917,;"	"-"	"ENSG00000099381"	"ENST00000262519"	"Transcript"	"intron_variant"	"-/6903"	"-/5124"	"-/1707"	""	""	"rs34557944"	"1"	NA	1	"SETD1A"	"HGNC"	29010	"protein_coding"	"YES"	"CCDS32435.1"	"ENSP00000262519"	"O15047"	"C9J2Z9"	"UPI00001C1FA9"	"NM_014712.1"	NA	NA	""	"4/18"	""	"-:0.0306"	"-:0.0038"	"-:0.036"	NA	"-:0"	"-:0.0984"	"-:0.0245"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCTC"	"719a3108-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3728"	"ITGAM"	3684	"mskcc.org"	"GRCh37"	"16"	31342142	31342145	"+"	"Intron"	"DEL"	"AGAT"	"AGAT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AGAT"	"AGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3279+219_3279+222delTAGA"	""	""	"ENST00000544665"	""	56	"."	7	14	"."	0	"ITGAM,intron_variant,,ENST00000544665,NM_001145808.1,NM_000632.3;ITGAM,intron_variant,,ENST00000287497,;ITGAM,intron_variant,,ENST00000565142,;ITGAM,downstream_gene_variant,,ENST00000561838,;ITGAM,downstream_gene_variant,,ENST00000569746,;ITGAM,downstream_gene_variant,,ENST00000567178,;"	"-"	"ENSG00000169896"	"ENST00000544665"	"Transcript"	"intron_variant"	"-/4718"	"-/3462"	"-/1153"	""	""	""	"1"	NA	1	"ITGAM"	"HGNC"	6149	"protein_coding"	"YES"	"CCDS54004.1"	"ENSP00000441691"	"P11215"	"B3KXM6"	"UPI000004B26A"	"NM_001145808.1,NM_000632.3"	NA	NA	""	"28/29"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGAGATA"	"71fa3616-280f-11e6-b86a-fad3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"3729"	"ITGAD"	3681	"mskcc.org"	"GRCh37"	"16"	31409578	31409579	"+"	"Intron"	"INS"	"-"	"-"	"ACAAA"	"rs140167654"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.427+365_427+369dupCAAAA"	""	""	"ENST00000389202"	""	11	"."	3	1	"."	0	"ITGAD,intron_variant,,ENST00000389202,NM_005353.2;RP11-120K18.2,upstream_gene_variant,,ENST00000567545,;ITGAD,intron_variant,,ENST00000444228,;"	"ACAAA"	"ENSG00000156886"	"ENST00000389202"	"Transcript"	"intron_variant"	"-/3912"	"-/3486"	"-/1161"	""	""	"rs140167654"	"1"	NA	1	"ITGAD"	"HGNC"	6146	"protein_coding"	"YES"	"CCDS32438.1"	"ENSP00000373854"	"Q13349"	"Q59H14"	"UPI000004B27A"	"NM_005353.2"	NA	NA	""	"5/29"	""	"ACAAA:0.4295"	"ACAAA:0.3699"	"ACAAA:0.4049"	NA	"ACAAA:0.6181"	"ACAAA:0.3588"	"ACAAA:0.4059"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"21"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"9636af1e-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"3730"	"ITGAD"	3681	"mskcc.org"	"GRCh37"	"16"	31425567	31425568	"+"	"Intron"	"INS"	"-"	"-"	"CCATCCAT"	"rs145399519"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1997-171_1997-164dupCATCCATC"	""	""	"ENST00000389202"	""	75	"."	5	33	"."	0	"ITGAD,intron_variant,,ENST00000389202,NM_005353.2;"	"CCATCCAT"	"ENSG00000156886"	"ENST00000389202"	"Transcript"	"intron_variant"	"-/3912"	"-/3486"	"-/1161"	""	""	"rs145399519"	"1"	NA	1	"ITGAD"	"HGNC"	6146	"protein_coding"	"YES"	"CCDS32438.1"	"ENSP00000373854"	"Q13349"	"Q59H14"	"UPI000004B27A"	"NM_005353.2"	NA	NA	""	"16/29"	""	"CCATCCATCCAT:0.1022"	"CCATCCATCCAT:0.0764"	"CCATCCATCCAT:0.0951"	NA	"CCATCCATCCAT:0.1151"	"CCATCCATCCAT:0.0785"	"CCATCCATCCAT:0.1534"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"41"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"963bb3a6-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WXS"	FALSE
"3731"	"CTD-2358C21.3"	0	"mskcc.org"	"GRCh37"	"16"	31706094	31706095	"+"	"3'Flank"	"INS"	"-"	"-"	"AC"	"rs71156375"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000563338"	""	6	"."	4	1	"."	0	"CTD-2358C21.3,downstream_gene_variant,,ENST00000563338,;CTD-2358C21.2,downstream_gene_variant,,ENST00000563247,;"	"AC"	"ENSG00000260568"	"ENST00000563338"	"Transcript"	"downstream_gene_variant"	"-/538"	""	""	""	""	"rs71156375"	"1"	"4902"	-1	"CTD-2358C21.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4453"	"AC:0.6914"	"AC:0.4294"	NA	"AC:0.4236"	"AC:0.661"	"AC:0.4847"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"9644129e-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3732"	"RP11-293B20.2"	0	"mskcc.org"	"GRCh37"	"16"	33423476	33423479	"+"	"Intron"	"DEL"	"AGGG"	"AGGG"	"-"	"rs111476489"	NA	"JHCCPT5"	"JHCCPN5"	"AGGG"	"AGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1165-1276_1165-1273delGGAG"	""	""	"ENST00000566346"	""	23	"."	8	6	"."	0	"RP11-293B20.2,intron_variant,,ENST00000566346,;"	"-"	"ENSG00000259882"	"ENST00000566346"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1422"	""	""	""	""	"rs111476489"	"1"	NA	1	"RP11-293B20.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"9/9"	""	"-:0.4788"	"-:0.5068"	"-:0.4611"	NA	"-:0.4573"	"-:0.4662"	"-:0.4888"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGGGA"	"7257c7a4-280f-11e6-b86a-fad3414a729f"	"405"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347826086956522	"WXS"	FALSE
"3733"	"RP11-104C4.4"	0	"mskcc.org"	"GRCh37"	"16"	33573506	33573507	"+"	"RNA"	"INS"	"-"	"-"	"GCGGCCTGCATAGA"	"rs149776522"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.10_11insCTGCATAGAGCGGC"	""	""	"ENST00000563187"	"1/1"	38	"."	8	9	"."	0	"RP11-104C4.4,non_coding_transcript_exon_variant,,ENST00000563187,;ENPP7P13,downstream_gene_variant,,ENST00000567922,;"	"GCGGCCTGCATAGA"	"ENSG00000260308"	"ENST00000563187"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"5-6/214"	""	""	""	""	"rs149776522"	"1"	NA	1	"RP11-104C4.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"9673ec1c-280f-11e6-b86a-fad3414a729f"	"478"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"3734"	"PB0134.1"	0	"mskcc.org"	"GRCh37"	"16"	46387602	46393435	"+"	"Targeted_Region"	"DEL"	"ATGATTTCATTCGAGTCCATTGGACACTTCCAATCGATTCCATTTGATGTTTCCATTCGATTCCAATTGATGATTCCATTCAATTCCATTCGATGATGATTCCGTATGATTCCATTCTGTGATGATTCCATGTGATTGCATTCAATGATGATTCCTTTCGATTGCATTCGATTATGATTCATTTCGTGTTCATTCTATGGTTCCACAGGTTTCCATTCGTGTCCATTCCATTATTCCATTCTATTCCATTTGATGATGATTCCATTCGATTCCATTCATTGGTGATTCCACTCAATTCCATTCAATGATTCCATTCCATTTCTTTCAACAATGATTCCATTAGTTTCTATTCGATGATCCACTTGATTCCATTTGTCGATGATTCCATTCGTGTCCATTCGATGATTCCATTTGATTCCATATGATGATGATTCCATTCGATTCCATACGATGATGATTCCATTCGAGTCCATTCAATGGTGATTCCATTCAATTCCATTCGATGATTCCTTCCGATTCCATTCCATGATGATGGCATTCGATTCCTTTCGATCATTCCCTTTGATTCCATTCAAAGGTGATTTCATTCAAGTCCATTCGATAATTGCATTCGATTCCATTCTATGATGATTCCATTCGAGTCCATTTGATGATTCCATTCAATTCAAGTCAATGATGATTCCATTCGATTCCACTCGATGATTCCATTGGATTCCATTCGATGATGATTCCATTCAAATCCATTCGATAATTCAATTCAAGTCCATTCGATGATGATTCCAATCGAATCCATTCAAAGATTCCACTCAATTCCATTCGATGATGATTCCCTTAGATTCCATTCGATGATTCCACTTGATTCCATTTACGATGATTCCATTCGATTCCATGTGATGATTCCATTCAATTCTATTCAATGATGTTTCCACTTGATTCCATTCGAACATGATTGCCTTTGATTCCATTCAATGATTCCATACGGTTCCATTTGATGATGATTCCATTCGAGTGCATTAGATGATTCCATTCGAGTCCATTCGATGATTCCATTCGATTCCATTCGATGTTGATTCTGTTCAAATCCATTCGATGATTCCACTCGATTCCATTCGATGACTCCATTTGATCCCATTCGATGATTTCCTTTGATTCCCTTTGATGATCATTCCATTTGATTCAATTCGGTGATTTCATTTGATTCCATTCAGTGATGTTTCCATTCAACTCCTTTCGATGATGATTCCATTCGACTCCATTCGATTATGATTTCATTCAATTCCATTCGATAATGATTCCCTTCAAGTCCATTCGATGATTCCATTCGATTCCATTCAACGATGATTTGATTCGTGTCCATTCGATGATTCCATTTGATTCCATTTGATGATGATTCCATTCGAGTCCCTTTGATGATTCCATTCAATTCCATTCTCCGATGATTTCTTTTGAGCCCATTCAATGCTTCCACTCGATTCCATATGATGATGACTCCATTTGATGAAATTCCATGATGATTCCATTCGCTTGCATTCGATGATGATTCCACTTGAGTCCGTTAGAAGATTCTATTCAATTACATTCCATGACGATTCTGTTCGAGTCCATTTGATGATTCCATTAGACTCCATTCGACGATGATTCCATTCGATGTTATTCGATGATGATTCCATTCAACTCCATTCGATGTTTCCATTCGAGTTCATTCTATTATTCCATTAGATTCCATTCGATGATGATTCCATTCGATTCCATTTGATGATTGCATTCTATTTCATTTGATGATGATTCCATTCGAGTCCATTCGATGATTCCATTCGAGTCCATTTAATGAATCCATTGGTTTCAATTCTATGATGATTACATTGGATTCCATACGTTGATGATTTCATTCGATTCCATTCAATGATGATTCCATTCAATTCCATTCAATGATTCCATTCAATTCCATACGATGATGATTCCATTTGATTTGATTCGACAGTGAGCCATTCGATTCAATTCCATGATGATTCTATTTGATTCAATTGGTTGACATTTCCATTCGATTCCATTCGATGATGATTCCCTTTGATTCCATTCAAAGATGATTCCATTCTAGCCCATTCAATCATTCCATTCGATTCTATTCAATGATGATTCCATTCATGTCGATTTGGTGATTCCATTTGACTTCATTTGATGATGATTCCTTTCAAGTTCATTAGATGATTCCATTCGATTCCATTTGATGATGATCCCATTCGAGTCCATTCAGTGATTCCACTCGTTTCCATTCCATGATGATTCCATTCCATTCCATTCAATGATTCCATTCGATTCCGTTTGATGATGATTTCATTCGAGTCCATTTGATGATTCCATTTGATTCCATTCGATGATGATTACATTCGAGTCCATACGATGATTCCACTCAATTCCATATGATGATGATTCCATTCGATTCCATTCGATGATTCCATTCTATTCTATTCAATGGTGATTCCATTCGAGTACATTAGATGATTCCATTCGATTCCATTCAATGATGATTCTATTTGTGTCCCTTAGATGGTTCCACATGATTCCATTTCATGATGATACTATTTGAGCCCATCCAATGATTCCCTTCGATTCCATTCGATGAGGATTCCATTCGATTCAATTCATTGGTGATTCTATTCAATTCAATTCTTTGATTCCATTCCATTCCATTCGACAATGATTCCATTCGATTTCTTTCGATGATTCCACTCCATTCCACTTGACATTGATTCCATTCGATTCCATTCAATGATTCCGTTTGATTCCAGTGGATGATGATTGCCATCGATTCCATTCGATCACTCCATTCTATTCCATTTGATGATGATTACATTCGATTCCATTTGATGATTCCATCTGATTCTATTCGAGGATTCCATTTGATTCCATTCGATGATGATTCCATTCGAGTCCATTCGATGATTTCATTCGAGTACATCCAATGATTCCATTCGAGTCCATTTGATGATTGCATTTGATTCCATTTCATTATGATTCTACTAGAGTCCATTCAATGACTCCATTCGAATCCATTCAACAATTCCATTCGAGGCCATTCGATGATTCCATTTCATGATTCCATTCGAGTCCATTTAATCATTACAGTCGAGTCCATTTGGTGATTCCACTGGATTTCTTTTGATAATGATACCATTCAATTACATTTGATGATGATCCCATTCAATTTCATTTGATGGTGATTCCATTAGAGTCCATTCGATGATTTCATTCGAGTCCCTTCATTGATTCCATCCGATTTCATTGGATGATGACTCCATTCGAGTCCATTCGATGATTCCACTCGATTCCATTAGATGATTCCATTGGAGTCCATTTGATTGTTCCATTCGATTCTATTCGATTCCTTTCGAAGATTATTCCATTTGAGTCCATTCGATGATGATTCCATTCCATTCCATTCGATGATTCCGTTTGATTCCATTCGATGATTCCCTTCGATTCCTTTCTTTGATGATTCCATTCCATTCCATTCAATGATTCCGTTCGAATCTATTCCATGATGATTCCTTTCGATTCCATTCGCTGATGTTTCCGTTCAATTCCATTCGATGATGATTCCATTCGATTCCATTCATTGAGGATTCCATTTGATTCCATTCAATGATGATTCCATTCTATTCCATTCAATGATTGCATTCAATTCCATTCAATGATTATCCCCTTAGAGTAAACTCAACGATTCCATTCAATACCATTCGATGATGATTCCTTTTGAGTCCATTCAATGATTTCATTCAAGTCCATTTGATGATTCCTTTCAATTCCATTCTATGATGATTCCATTCGAGTCCATTCGATGATTCCATTCGATTGCATTCGATGATTCCATTATATTCCATTCAACGATGATTCCATTCGAGTCCATTCGATGATTCCATTAGAGTACATTTAATGATTGCTTTGTTTTCAATTCGAAGATGATTACATTGGATTCCATTCTATGATACCATTCGATTCCATTCAATGATGATTCCACTCAAATCCATTGGATGATTCCATTCGTGTCCATTCGGTGATTTCATTAGATTCCATTCGAGGATGATTCCATTCGATTCCATTCGATGATTCCATTCAATTCCATTCGATGATGATTCCATTCCAGTCCATATGATCATTCCATTTGATTCATTTGATGATGATTCCATTCGATTCCATTCGATGATTCCATTCTATTCCATTCGATGATGATTCCACTCGAGTCCATTCGATGATTCCATTCGAGTCCATTTAATGATTCCATTGGGTTCAATTCAATGATGATTACATTGGATTCCGTTCTATGATTCCATTCAATTCCGTTCATTGACAATTTGATTCCATTCGATGATGATTCCATTTGAGTTCATTCGATGATTCTATTCGATTCTCTTCGATGGTGATTCAATTCTATTATATTGGATGATTCCATTCGATTCCATTTGATGTTGATTCAATTCGATTCTATTCGATGATGATTCCATTGGATTTCACTTGATGATTCTATTCGATTCCATTCAATGATGATTCACTTCTCGTCCATTGGATGATTCCATTTCATTCCATTCGATGATGATTCCATTCGATTCCATTCGATGATTCCATTTGATTCCATGCGTCGGTGAGCAATTCGATTCAATTCCATGATGATTCTATTTGATTCAATTAGATGATGTTTCCATTCGAATCCATTCCATGATTATTCCATTGGAATCCATTCGGCGATGATTCCATATGAGTCAATTCAATGATGATTCCATATGGGTCCGTTCGATGATAATTCCATTTGATTTCATTCAATGCTTCTATTCTATTCCAGTCGATGATGATTCCGTTGGAGTCCATACGATGATTCCATTTGATTTCATTTGATGATGATTCCATTCGATGATGATTACATTGGATTCCATTCTATGATTCCATTCAATTCCATTCGTTGATGATTCGATTCCATTCAATGATGATTCCATTTGAGTTCATTCGATGATTCTATTCGATTCCGTTCGATGGTGATTCAATTCTCCTATATTGGATGAATCCACTCGATTCCATTTGATGATTATTCCATTGGAGTCCACTTAGTGAATCCTTCAGATTCTACTCGAAGATGATTCCATTCAAGTCCATTCGATGATACCATTCAATTCCATTCGTTGATGCTTCCATTCAAGTGCATTCGATGATATCATTCGATTCCATTTGATGATAATTCCATTTGATTCCATGCGATGATTCTATTCGATTCCATTCAATGATAATTCCATTCAGTTCAGTGATTACTCTGGACTCCATTTGATGATGATTCCATTCAATGATTCCATTCGATTCTATTCGAAAATGATTCCATTTGAATCCATTTGATGATGATTCCATTAGATTCCATTTGATGATTCCATTCGATTCCATGCGACGATGATTCCATTCGATTCCATGTGATGATTCCATTCTATTCTATTCGATGATGATTCCATTCGATTCCATTCGATGATGATTGGATTCGATTCCATTTGATGATTTCATTTGATTCCATTCGTTAATGATTTCGATCAATTCCATTCGATGATTCCATTCGATTCCATTCGATAATGATTACATCCGAGTCCATTCAGTGATTCCATTTGAGCCTGTTCGATAATTCCATTTGAGTCCAACCAATGATTCCATTCATTTCCATTCAATGATTCCATTCGAGTCCATTTGATCATTCCGGTAGGGTCCATTCGATGTTGATTCCATTGGAGTGCATTCGATGATTCCATTCGAGTCCATTTTAGGATTTGATTCGAGTCCTTTCGATGATTCCATTCGATTCCACT"	"ATGATTTCATTCGAGTCCATTGGACACTTCCAATCGATTCCATTTGATGTTTCCATTCGATTCCAATTGATGATTCCATTCAATTCCATTCGATGATGATTCCGTATGATTCCATTCTGTGATGATTCCATGTGATTGCATTCAATGATGATTCCTTTCGATTGCATTCGATTATGATTCATTTCGTGTTCATTCTATGGTTCCACAGGTTTCCATTCGTGTCCATTCCATTATTCCATTCTATTCCATTTGATGATGATTCCATTCGATTCCATTCATTGGTGATTCCACTCAATTCCATTCAATGATTCCATTCCATTTCTTTCAACAATGATTCCATTAGTTTCTATTCGATGATCCACTTGATTCCATTTGTCGATGATTCCATTCGTGTCCATTCGATGATTCCATTTGATTCCATATGATGATGATTCCATTCGATTCCATACGATGATGATTCCATTCGAGTCCATTCAATGGTGATTCCATTCAATTCCATTCGATGATTCCTTCCGATTCCATTCCATGATGATGGCATTCGATTCCTTTCGATCATTCCCTTTGATTCCATTCAAAGGTGATTTCATTCAAGTCCATTCGATAATTGCATTCGATTCCATTCTATGATGATTCCATTCGAGTCCATTTGATGATTCCATTCAATTCAAGTCAATGATGATTCCATTCGATTCCACTCGATGATTCCATTGGATTCCATTCGATGATGATTCCATTCAAATCCATTCGATAATTCAATTCAAGTCCATTCGATGATGATTCCAATCGAATCCATTCAAAGATTCCACTCAATTCCATTCGATGATGATTCCCTTAGATTCCATTCGATGATTCCACTTGATTCCATTTACGATGATTCCATTCGATTCCATGTGATGATTCCATTCAATTCTATTCAATGATGTTTCCACTTGATTCCATTCGAACATGATTGCCTTTGATTCCATTCAATGATTCCATACGGTTCCATTTGATGATGATTCCATTCGAGTGCATTAGATGATTCCATTCGAGTCCATTCGATGATTCCATTCGATTCCATTCGATGTTGATTCTGTTCAAATCCATTCGATGATTCCACTCGATTCCATTCGATGACTCCATTTGATCCCATTCGATGATTTCCTTTGATTCCCTTTGATGATCATTCCATTTGATTCAATTCGGTGATTTCATTTGATTCCATTCAGTGATGTTTCCATTCAACTCCTTTCGATGATGATTCCATTCGACTCCATTCGATTATGATTTCATTCAATTCCATTCGATAATGATTCCCTTCAAGTCCATTCGATGATTCCATTCGATTCCATTCAACGATGATTTGATTCGTGTCCATTCGATGATTCCATTTGATTCCATTTGATGATGATTCCATTCGAGTCCCTTTGATGATTCCATTCAATTCCATTCTCCGATGATTTCTTTTGAGCCCATTCAATGCTTCCACTCGATTCCATATGATGATGACTCCATTTGATGAAATTCCATGATGATTCCATTCGCTTGCATTCGATGATGATTCCACTTGAGTCCGTTAGAAGATTCTATTCAATTACATTCCATGACGATTCTGTTCGAGTCCATTTGATGATTCCATTAGACTCCATTCGACGATGATTCCATTCGATGTTATTCGATGATGATTCCATTCAACTCCATTCGATGTTTCCATTCGAGTTCATTCTATTATTCCATTAGATTCCATTCGATGATGATTCCATTCGATTCCATTTGATGATTGCATTCTATTTCATTTGATGATGATTCCATTCGAGTCCATTCGATGATTCCATTCGAGTCCATTTAATGAATCCATTGGTTTCAATTCTATGATGATTACATTGGATTCCATACGTTGATGATTTCATTCGATTCCATTCAATGATGATTCCATTCAATTCCATTCAATGATTCCATTCAATTCCATACGATGATGATTCCATTTGATTTGATTCGACAGTGAGCCATTCGATTCAATTCCATGATGATTCTATTTGATTCAATTGGTTGACATTTCCATTCGATTCCATTCGATGATGATTCCCTTTGATTCCATTCAAAGATGATTCCATTCTAGCCCATTCAATCATTCCATTCGATTCTATTCAATGATGATTCCATTCATGTCGATTTGGTGATTCCATTTGACTTCATTTGATGATGATTCCTTTCAAGTTCATTAGATGATTCCATTCGATTCCATTTGATGATGATCCCATTCGAGTCCATTCAGTGATTCCACTCGTTTCCATTCCATGATGATTCCATTCCATTCCATTCAATGATTCCATTCGATTCCGTTTGATGATGATTTCATTCGAGTCCATTTGATGATTCCATTTGATTCCATTCGATGATGATTACATTCGAGTCCATACGATGATTCCACTCAATTCCATATGATGATGATTCCATTCGATTCCATTCGATGATTCCATTCTATTCTATTCAATGGTGATTCCATTCGAGTACATTAGATGATTCCATTCGATTCCATTCAATGATGATTCTATTTGTGTCCCTTAGATGGTTCCACATGATTCCATTTCATGATGATACTATTTGAGCCCATCCAATGATTCCCTTCGATTCCATTCGATGAGGATTCCATTCGATTCAATTCATTGGTGATTCTATTCAATTCAATTCTTTGATTCCATTCCATTCCATTCGACAATGATTCCATTCGATTTCTTTCGATGATTCCACTCCATTCCACTTGACATTGATTCCATTCGATTCCATTCAATGATTCCGTTTGATTCCAGTGGATGATGATTGCCATCGATTCCATTCGATCACTCCATTCTATTCCATTTGATGATGATTACATTCGATTCCATTTGATGATTCCATCTGATTCTATTCGAGGATTCCATTTGATTCCATTCGATGATGATTCCATTCGAGTCCATTCGATGATTTCATTCGAGTACATCCAATGATTCCATTCGAGTCCATTTGATGATTGCATTTGATTCCATTTCATTATGATTCTACTAGAGTCCATTCAATGACTCCATTCGAATCCATTCAACAATTCCATTCGAGGCCATTCGATGATTCCATTTCATGATTCCATTCGAGTCCATTTAATCATTACAGTCGAGTCCATTTGGTGATTCCACTGGATTTCTTTTGATAATGATACCATTCAATTACATTTGATGATGATCCCATTCAATTTCATTTGATGGTGATTCCATTAGAGTCCATTCGATGATTTCATTCGAGTCCCTTCATTGATTCCATCCGATTTCATTGGATGATGACTCCATTCGAGTCCATTCGATGATTCCACTCGATTCCATTAGATGATTCCATTGGAGTCCATTTGATTGTTCCATTCGATTCTATTCGATTCCTTTCGAAGATTATTCCATTTGAGTCCATTCGATGATGATTCCATTCCATTCCATTCGATGATTCCGTTTGATTCCATTCGATGATTCCCTTCGATTCCTTTCTTTGATGATTCCATTCCATTCCATTCAATGATTCCGTTCGAATCTATTCCATGATGATTCCTTTCGATTCCATTCGCTGATGTTTCCGTTCAATTCCATTCGATGATGATTCCATTCGATTCCATTCATTGAGGATTCCATTTGATTCCATTCAATGATGATTCCATTCTATTCCATTCAATGATTGCATTCAATTCCATTCAATGATTATCCCCTTAGAGTAAACTCAACGATTCCATTCAATACCATTCGATGATGATTCCTTTTGAGTCCATTCAATGATTTCATTCAAGTCCATTTGATGATTCCTTTCAATTCCATTCTATGATGATTCCATTCGAGTCCATTCGATGATTCCATTCGATTGCATTCGATGATTCCATTATATTCCATTCAACGATGATTCCATTCGAGTCCATTCGATGATTCCATTAGAGTACATTTAATGATTGCTTTGTTTTCAATTCGAAGATGATTACATTGGATTCCATTCTATGATACCATTCGATTCCATTCAATGATGATTCCACTCAAATCCATTGGATGATTCCATTCGTGTCCATTCGGTGATTTCATTAGATTCCATTCGAGGATGATTCCATTCGATTCCATTCGATGATTCCATTCAATTCCATTCGATGATGATTCCATTCCAGTCCATATGATCATTCCATTTGATTCATTTGATGATGATTCCATTCGATTCCATTCGATGATTCCATTCTATTCCATTCGATGATGATTCCACTCGAGTCCATTCGATGATTCCATTCGAGTCCATTTAATGATTCCATTGGGTTCAATTCAATGATGATTACATTGGATTCCGTTCTATGATTCCATTCAATTCCGTTCATTGACAATTTGATTCCATTCGATGATGATTCCATTTGAGTTCATTCGATGATTCTATTCGATTCTCTTCGATGGTGATTCAATTCTATTATATTGGATGATTCCATTCGATTCCATTTGATGTTGATTCAATTCGATTCTATTCGATGATGATTCCATTGGATTTCACTTGATGATTCTATTCGATTCCATTCAATGATGATTCACTTCTCGTCCATTGGATGATTCCATTTCATTCCATTCGATGATGATTCCATTCGATTCCATTCGATGATTCCATTTGATTCCATGCGTCGGTGAGCAATTCGATTCAATTCCATGATGATTCTATTTGATTCAATTAGATGATGTTTCCATTCGAATCCATTCCATGATTATTCCATTGGAATCCATTCGGCGATGATTCCATATGAGTCAATTCAATGATGATTCCATATGGGTCCGTTCGATGATAATTCCATTTGATTTCATTCAATGCTTCTATTCTATTCCAGTCGATGATGATTCCGTTGGAGTCCATACGATGATTCCATTTGATTTCATTTGATGATGATTCCATTCGATGATGATTACATTGGATTCCATTCTATGATTCCATTCAATTCCATTCGTTGATGATTCGATTCCATTCAATGATGATTCCATTTGAGTTCATTCGATGATTCTATTCGATTCCGTTCGATGGTGATTCAATTCTCCTATATTGGATGAATCCACTCGATTCCATTTGATGATTATTCCATTGGAGTCCACTTAGTGAATCCTTCAGATTCTACTCGAAGATGATTCCATTCAAGTCCATTCGATGATACCATTCAATTCCATTCGTTGATGCTTCCATTCAAGTGCATTCGATGATATCATTCGATTCCATTTGATGATAATTCCATTTGATTCCATGCGATGATTCTATTCGATTCCATTCAATGATAATTCCATTCAGTTCAGTGATTACTCTGGACTCCATTTGATGATGATTCCATTCAATGATTCCATTCGATTCTATTCGAAAATGATTCCATTTGAATCCATTTGATGATGATTCCATTAGATTCCATTTGATGATTCCATTCGATTCCATGCGACGATGATTCCATTCGATTCCATGTGATGATTCCATTCTATTCTATTCGATGATGATTCCATTCGATTCCATTCGATGATGATTGGATTCGATTCCATTTGATGATTTCATTTGATTCCATTCGTTAATGATTTCGATCAATTCCATTCGATGATTCCATTCGATTCCATTCGATAATGATTACATCCGAGTCCATTCAGTGATTCCATTTGAGCCTGTTCGATAATTCCATTTGAGTCCAACCAATGATTCCATTCATTTCCATTCAATGATTCCATTCGAGTCCATTTGATCATTCCGGTAGGGTCCATTCGATGTTGATTCCATTGGAGTGCATTCGATGATTCCATTCGAGTCCATTTTAGGATTTGATTCGAGTCCTTTCGATGATTCCATTCGATTCCACT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"ATGATTTCATTCGAGTCCATTGGACACTTCCAATCGATTCCATTTGATGTTTCCATTCGATTCCAATTGATGATTCCATTCAATTCCATTCGATGATGATTCCGTATGATTCCATTCTGTGATGATTCCATGTGATTGCATTCAATGATGATTCCTTTCGATTGCATTCGATTATGATTCATTTCGTGTTCATTCTATGGTTCCACAGGTTTCCATTCGTGTCCATTCCATTATTCCATTCTATTCCATTTGATGATGATTCCATTCGATTCCATTCATTGGTGATTCCACTCAATTCCATTCAATGATTCCATTCCATTTCTTTCAACAATGATTCCATTAGTTTCTATTCGATGATCCACTTGATTCCATTTGTCGATGATTCCATTCGTGTCCATTCGATGATTCCATTTGATTCCATATGATGATGATTCCATTCGATTCCATACGATGATGATTCCATTCGAGTCCATTCAATGGTGATTCCATTCAATTCCATTCGATGATTCCTTCCGATTCCATTCCATGATGATGGCATTCGATTCCTTTCGATCATTCCCTTTGATTCCATTCAAAGGTGATTTCATTCAAGTCCATTCGATAATTGCATTCGATTCCATTCTATGATGATTCCATTCGAGTCCATTTGATGATTCCATTCAATTCAAGTCAATGATGATTCCATTCGATTCCACTCGATGATTCCATTGGATTCCATTCGATGATGATTCCATTCAAATCCATTCGATAATTCAATTCAAGTCCATTCGATGATGATTCCAATCGAATCCATTCAAAGATTCCACTCAATTCCATTCGATGATGATTCCCTTAGATTCCATTCGATGATTCCACTTGATTCCATTTACGATGATTCCATTCGATTCCATGTGATGATTCCATTCAATTCTATTCAATGATGTTTCCACTTGATTCCATTCGAACATGATTGCCTTTGATTCCATTCAATGATTCCATACGGTTCCATTTGATGATGATTCCATTCGAGTGCATTAGATGATTCCATTCGAGTCCATTCGATGATTCCATTCGATTCCATTCGATGTTGATTCTGTTCAAATCCATTCGATGATTCCACTCGATTCCATTCGATGACTCCATTTGATCCCATTCGATGATTTCCTTTGATTCCCTTTGATGATCATTCCATTTGATTCAATTCGGTGATTTCATTTGATTCCATTCAGTGATGTTTCCATTCAACTCCTTTCGATGATGATTCCATTCGACTCCATTCGATTATGATTTCATTCAATTCCATTCGATAATGATTCCCTTCAAGTCCATTCGATGATTCCATTCGATTCCATTCAACGATGATTTGATTCGTGTCCATTCGATGATTCCATTTGATTCCATTTGATGATGATTCCATTCGAGTCCCTTTGATGATTCCATTCAATTCCATTCTCCGATGATTTCTTTTGAGCCCATTCAATGCTTCCACTCGATTCCATATGATGATGACTCCATTTGATGAAATTCCATGATGATTCCATTCGCTTGCATTCGATGATGATTCCACTTGAGTCCGTTAGAAGATTCTATTCAATTACATTCCATGACGATTCTGTTCGAGTCCATTTGATGATTCCATTAGACTCCATTCGACGATGATTCCATTCGATGTTATTCGATGATGATTCCATTCAACTCCATTCGATGTTTCCATTCGAGTTCATTCTATTATTCCATTAGATTCCATTCGATGATGATTCCATTCGATTCCATTTGATGATTGCATTCTATTTCATTTGATGATGATTCCATTCGAGTCCATTCGATGATTCCATTCGAGTCCATTTAATGAATCCATTGGTTTCAATTCTATGATGATTACATTGGATTCCATACGTTGATGATTTCATTCGATTCCATTCAATGATGATTCCATTCAATTCCATTCAATGATTCCATTCAATTCCATACGATGATGATTCCATTTGATTTGATTCGACAGTGAGCCATTCGATTCAATTCCATGATGATTCTATTTGATTCAATTGGTTGACATTTCCATTCGATTCCATTCGATGATGATTCCCTTTGATTCCATTCAAAGATGATTCCATTCTAGCCCATTCAATCATTCCATTCGATTCTATTCAATGATGATTCCATTCATGTCGATTTGGTGATTCCATTTGACTTCATTTGATGATGATTCCTTTCAAGTTCATTAGATGATTCCATTCGATTCCATTTGATGATGATCCCATTCGAGTCCATTCAGTGATTCCACTCGTTTCCATTCCATGATGATTCCATTCCATTCCATTCAATGATTCCATTCGATTCCGTTTGATGATGATTTCATTCGAGTCCATTTGATGATTCCATTTGATTCCATTCGATGATGATTACATTCGAGTCCATACGATGATTCCACTCAATTCCATATGATGATGATTCCATTCGATTCCATTCGATGATTCCATTCTATTCTATTCAATGGTGATTCCATTCGAGTACATTAGATGATTCCATTCGATTCCATTCAATGATGATTCTATTTGTGTCCCTTAGATGGTTCCACATGATTCCATTTCATGATGATACTATTTGAGCCCATCCAATGATTCCCTTCGATTCCATTCGATGAGGATTCCATTCGATTCAATTCATTGGTGATTCTATTCAATTCAATTCTTTGATTCCATTCCATTCCATTCGACAATGATTCCATTCGATTTCTTTCGATGATTCCACTCCATTCCACTTGACATTGATTCCATTCGATTCCATTCAATGATTCCGTTTGATTCCAGTGGATGATGATTGCCATCGATTCCATTCGATCACTCCATTCTATTCCATTTGATGATGATTACATTCGATTCCATTTGATGATTCCATCTGATTCTATTCGAGGATTCCATTTGATTCCATTCGATGATGATTCCATTCGAGTCCATTCGATGATTTCATTCGAGTACATCCAATGATTCCATTCGAGTCCATTTGATGATTGCATTTGATTCCATTTCATTATGATTCTACTAGAGTCCATTCAATGACTCCATTCGAATCCATTCAACAATTCCATTCGAGGCCATTCGATGATTCCATTTCATGATTCCATTCGAGTCCATTTAATCATTACAGTCGAGTCCATTTGGTGATTCCACTGGATTTCTTTTGATAATGATACCATTCAATTACATTTGATGATGATCCCATTCAATTTCATTTGATGGTGATTCCATTAGAGTCCATTCGATGATTTCATTCGAGTCCCTTCATTGATTCCATCCGATTTCATTGGATGATGACTCCATTCGAGTCCATTCGATGATTCCACTCGATTCCATTAGATGATTCCATTGGAGTCCATTTGATTGTTCCATTCGATTCTATTCGATTCCTTTCGAAGATTATTCCATTTGAGTCCATTCGATGATGATTCCATTCCATTCCATTCGATGATTCCGTTTGATTCCATTCGATGATTCCCTTCGATTCCTTTCTTTGATGATTCCATTCCATTCCATTCAATGATTCCGTTCGAATCTATTCCATGATGATTCCTTTCGATTCCATTCGCTGATGTTTCCGTTCAATTCCATTCGATGATGATTCCATTCGATTCCATTCATTGAGGATTCCATTTGATTCCATTCAATGATGATTCCATTCTATTCCATTCAATGATTGCATTCAATTCCATTCAATGATTATCCCCTTAGAGTAAACTCAACGATTCCATTCAATACCATTCGATGATGATTCCTTTTGAGTCCATTCAATGATTTCATTCAAGTCCATTTGATGATTCCTTTCAATTCCATTCTATGATGATTCCATTCGAGTCCATTCGATGATTCCATTCGATTGCATTCGATGATTCCATTATATTCCATTCAACGATGATTCCATTCGAGTCCATTCGATGATTCCATTAGAGTACATTTAATGATTGCTTTGTTTTCAATTCGAAGATGATTACATTGGATTCCATTCTATGATACCATTCGATTCCATTCAATGATGATTCCACTCAAATCCATTGGATGATTCCATTCGTGTCCATTCGGTGATTTCATTAGATTCCATTCGAGGATGATTCCATTCGATTCCATTCGATGATTCCATTCAATTCCATTCGATGATGATTCCATTCCAGTCCATATGATCATTCCATTTGATTCATTTGATGATGATTCCATTCGATTCCATTCGATGATTCCATTCTATTCCATTCGATGATGATTCCACTCGAGTCCATTCGATGATTCCATTCGAGTCCATTTAATGATTCCATTGGGTTCAATTCAATGATGATTACATTGGATTCCGTTCTATGATTCCATTCAATTCCGTTCATTGACAATTTGATTCCATTCGATGATGATTCCATTTGAGTTCATTCGATGATTCTATTCGATTCTCTTCGATGGTGATTCAATTCTATTATATTGGATGATTCCATTCGATTCCATTTGATGTTGATTCAATTCGATTCTATTCGATGATGATTCCATTGGATTTCACTTGATGATTCTATTCGATTCCATTCAATGATGATTCACTTCTCGTCCATTGGATGATTCCATTTCATTCCATTCGATGATGATTCCATTCGATTCCATTCGATGATTCCATTTGATTCCATGCGTCGGTGAGCAATTCGATTCAATTCCATGATGATTCTATTTGATTCAATTAGATGATGTTTCCATTCGAATCCATTCCATGATTATTCCATTGGAATCCATTCGGCGATGATTCCATATGAGTCAATTCAATGATGATTCCATATGGGTCCGTTCGATGATAATTCCATTTGATTTCATTCAATGCTTCTATTCTATTCCAGTCGATGATGATTCCGTTGGAGTCCATACGATGATTCCATTTGATTTCATTTGATGATGATTCCATTCGATGATGATTACATTGGATTCCATTCTATGATTCCATTCAATTCCATTCGTTGATGATTCGATTCCATTCAATGATGATTCCATTTGAGTTCATTCGATGATTCTATTCGATTCCGTTCGATGGTGATTCAATTCTCCTATATTGGATGAATCCACTCGATTCCATTTGATGATTATTCCATTGGAGTCCACTTAGTGAATCCTTCAGATTCTACTCGAAGATGATTCCATTCAAGTCCATTCGATGATACCATTCAATTCCATTCGTTGATGCTTCCATTCAAGTGCATTCGATGATATCATTCGATTCCATTTGATGATAATTCCATTTGATTCCATGCGATGATTCTATTCGATTCCATTCAATGATAATTCCATTCAGTTCAGTGATTACTCTGGACTCCATTTGATGATGATTCCATTCAATGATTCCATTCGATTCTATTCGAAAATGATTCCATTTGAATCCATTTGATGATGATTCCATTAGATTCCATTTGATGATTCCATTCGATTCCATGCGACGATGATTCCATTCGATTCCATGTGATGATTCCATTCTATTCTATTCGATGATGATTCCATTCGATTCCATTCGATGATGATTGGATTCGATTCCATTTGATGATTTCATTTGATTCCATTCGTTAATGATTTCGATCAATTCCATTCGATGATTCCATTCGATTCCATTCGATAATGATTACATCCGAGTCCATTCAGTGATTCCATTTGAGCCTGTTCGATAATTCCATTTGAGTCCAACCAATGATTCCATTCATTTCCATTCAATGATTCCATTCGAGTCCATTTGATCATTCCGGTAGGGTCCATTCGATGTTGATTCCATTGGAGTGCATTCGATGATTCCATTCGAGTCCATTTTAGGATTTGATTCGAGTCCTTTCGATGATTCCATTCGATTCCACT"	"ATGATTTCATTCGAGTCCATTGGACACTTCCAATCGATTCCATTTGATGTTTCCATTCGATTCCAATTGATGATTCCATTCAATTCCATTCGATGATGATTCCGTATGATTCCATTCTGTGATGATTCCATGTGATTGCATTCAATGATGATTCCTTTCGATTGCATTCGATTATGATTCATTTCGTGTTCATTCTATGGTTCCACAGGTTTCCATTCGTGTCCATTCCATTATTCCATTCTATTCCATTTGATGATGATTCCATTCGATTCCATTCATTGGTGATTCCACTCAATTCCATTCAATGATTCCATTCCATTTCTTTCAACAATGATTCCATTAGTTTCTATTCGATGATCCACTTGATTCCATTTGTCGATGATTCCATTCGTGTCCATTCGATGATTCCATTTGATTCCATATGATGATGATTCCATTCGATTCCATACGATGATGATTCCATTCGAGTCCATTCAATGGTGATTCCATTCAATTCCATTCGATGATTCCTTCCGATTCCATTCCATGATGATGGCATTCGATTCCTTTCGATCATTCCCTTTGATTCCATTCAAAGGTGATTTCATTCAAGTCCATTCGATAATTGCATTCGATTCCATTCTATGATGATTCCATTCGAGTCCATTTGATGATTCCATTCAATTCAAGTCAATGATGATTCCATTCGATTCCACTCGATGATTCCATTGGATTCCATTCGATGATGATTCCATTCAAATCCATTCGATAATTCAATTCAAGTCCATTCGATGATGATTCCAATCGAATCCATTCAAAGATTCCACTCAATTCCATTCGATGATGATTCCCTTAGATTCCATTCGATGATTCCACTTGATTCCATTTACGATGATTCCATTCGATTCCATGTGATGATTCCATTCAATTCTATTCAATGATGTTTCCACTTGATTCCATTCGAACATGATTGCCTTTGATTCCATTCAATGATTCCATACGGTTCCATTTGATGATGATTCCATTCGAGTGCATTAGATGATTCCATTCGAGTCCATTCGATGATTCCATTCGATTCCATTCGATGTTGATTCTGTTCAAATCCATTCGATGATTCCACTCGATTCCATTCGATGACTCCATTTGATCCCATTCGATGATTTCCTTTGATTCCCTTTGATGATCATTCCATTTGATTCAATTCGGTGATTTCATTTGATTCCATTCAGTGATGTTTCCATTCAACTCCTTTCGATGATGATTCCATTCGACTCCATTCGATTATGATTTCATTCAATTCCATTCGATAATGATTCCCTTCAAGTCCATTCGATGATTCCATTCGATTCCATTCAACGATGATTTGATTCGTGTCCATTCGATGATTCCATTTGATTCCATTTGATGATGATTCCATTCGAGTCCCTTTGATGATTCCATTCAATTCCATTCTCCGATGATTTCTTTTGAGCCCATTCAATGCTTCCACTCGATTCCATATGATGATGACTCCATTTGATGAAATTCCATGATGATTCCATTCGCTTGCATTCGATGATGATTCCACTTGAGTCCGTTAGAAGATTCTATTCAATTACATTCCATGACGATTCTGTTCGAGTCCATTTGATGATTCCATTAGACTCCATTCGACGATGATTCCATTCGATGTTATTCGATGATGATTCCATTCAACTCCATTCGATGTTTCCATTCGAGTTCATTCTATTATTCCATTAGATTCCATTCGATGATGATTCCATTCGATTCCATTTGATGATTGCATTCTATTTCATTTGATGATGATTCCATTCGAGTCCATTCGATGATTCCATTCGAGTCCATTTAATGAATCCATTGGTTTCAATTCTATGATGATTACATTGGATTCCATACGTTGATGATTTCATTCGATTCCATTCAATGATGATTCCATTCAATTCCATTCAATGATTCCATTCAATTCCATACGATGATGATTCCATTTGATTTGATTCGACAGTGAGCCATTCGATTCAATTCCATGATGATTCTATTTGATTCAATTGGTTGACATTTCCATTCGATTCCATTCGATGATGATTCCCTTTGATTCCATTCAAAGATGATTCCATTCTAGCCCATTCAATCATTCCATTCGATTCTATTCAATGATGATTCCATTCATGTCGATTTGGTGATTCCATTTGACTTCATTTGATGATGATTCCTTTCAAGTTCATTAGATGATTCCATTCGATTCCATTTGATGATGATCCCATTCGAGTCCATTCAGTGATTCCACTCGTTTCCATTCCATGATGATTCCATTCCATTCCATTCAATGATTCCATTCGATTCCGTTTGATGATGATTTCATTCGAGTCCATTTGATGATTCCATTTGATTCCATTCGATGATGATTACATTCGAGTCCATACGATGATTCCACTCAATTCCATATGATGATGATTCCATTCGATTCCATTCGATGATTCCATTCTATTCTATTCAATGGTGATTCCATTCGAGTACATTAGATGATTCCATTCGATTCCATTCAATGATGATTCTATTTGTGTCCCTTAGATGGTTCCACATGATTCCATTTCATGATGATACTATTTGAGCCCATCCAATGATTCCCTTCGATTCCATTCGATGAGGATTCCATTCGATTCAATTCATTGGTGATTCTATTCAATTCAATTCTTTGATTCCATTCCATTCCATTCGACAATGATTCCATTCGATTTCTTTCGATGATTCCACTCCATTCCACTTGACATTGATTCCATTCGATTCCATTCAATGATTCCGTTTGATTCCAGTGGATGATGATTGCCATCGATTCCATTCGATCACTCCATTCTATTCCATTTGATGATGATTACATTCGATTCCATTTGATGATTCCATCTGATTCTATTCGAGGATTCCATTTGATTCCATTCGATGATGATTCCATTCGAGTCCATTCGATGATTTCATTCGAGTACATCCAATGATTCCATTCGAGTCCATTTGATGATTGCATTTGATTCCATTTCATTATGATTCTACTAGAGTCCATTCAATGACTCCATTCGAATCCATTCAACAATTCCATTCGAGGCCATTCGATGATTCCATTTCATGATTCCATTCGAGTCCATTTAATCATTACAGTCGAGTCCATTTGGTGATTCCACTGGATTTCTTTTGATAATGATACCATTCAATTACATTTGATGATGATCCCATTCAATTTCATTTGATGGTGATTCCATTAGAGTCCATTCGATGATTTCATTCGAGTCCCTTCATTGATTCCATCCGATTTCATTGGATGATGACTCCATTCGAGTCCATTCGATGATTCCACTCGATTCCATTAGATGATTCCATTGGAGTCCATTTGATTGTTCCATTCGATTCTATTCGATTCCTTTCGAAGATTATTCCATTTGAGTCCATTCGATGATGATTCCATTCCATTCCATTCGATGATTCCGTTTGATTCCATTCGATGATTCCCTTCGATTCCTTTCTTTGATGATTCCATTCCATTCCATTCAATGATTCCGTTCGAATCTATTCCATGATGATTCCTTTCGATTCCATTCGCTGATGTTTCCGTTCAATTCCATTCGATGATGATTCCATTCGATTCCATTCATTGAGGATTCCATTTGATTCCATTCAATGATGATTCCATTCTATTCCATTCAATGATTGCATTCAATTCCATTCAATGATTATCCCCTTAGAGTAAACTCAACGATTCCATTCAATACCATTCGATGATGATTCCTTTTGAGTCCATTCAATGATTTCATTCAAGTCCATTTGATGATTCCTTTCAATTCCATTCTATGATGATTCCATTCGAGTCCATTCGATGATTCCATTCGATTGCATTCGATGATTCCATTATATTCCATTCAACGATGATTCCATTCGAGTCCATTCGATGATTCCATTAGAGTACATTTAATGATTGCTTTGTTTTCAATTCGAAGATGATTACATTGGATTCCATTCTATGATACCATTCGATTCCATTCAATGATGATTCCACTCAAATCCATTGGATGATTCCATTCGTGTCCATTCGGTGATTTCATTAGATTCCATTCGAGGATGATTCCATTCGATTCCATTCGATGATTCCATTCAATTCCATTCGATGATGATTCCATTCCAGTCCATATGATCATTCCATTTGATTCATTTGATGATGATTCCATTCGATTCCATTCGATGATTCCATTCTATTCCATTCGATGATGATTCCACTCGAGTCCATTCGATGATTCCATTCGAGTCCATTTAATGATTCCATTGGGTTCAATTCAATGATGATTACATTGGATTCCGTTCTATGATTCCATTCAATTCCGTTCATTGACAATTTGATTCCATTCGATGATGATTCCATTTGAGTTCATTCGATGATTCTATTCGATTCTCTTCGATGGTGATTCAATTCTATTATATTGGATGATTCCATTCGATTCCATTTGATGTTGATTCAATTCGATTCTATTCGATGATGATTCCATTGGATTTCACTTGATGATTCTATTCGATTCCATTCAATGATGATTCACTTCTCGTCCATTGGATGATTCCATTTCATTCCATTCGATGATGATTCCATTCGATTCCATTCGATGATTCCATTTGATTCCATGCGTCGGTGAGCAATTCGATTCAATTCCATGATGATTCTATTTGATTCAATTAGATGATGTTTCCATTCGAATCCATTCCATGATTATTCCATTGGAATCCATTCGGCGATGATTCCATATGAGTCAATTCAATGATGATTCCATATGGGTCCGTTCGATGATAATTCCATTTGATTTCATTCAATGCTTCTATTCTATTCCAGTCGATGATGATTCCGTTGGAGTCCATACGATGATTCCATTTGATTTCATTTGATGATGATTCCATTCGATGATGATTACATTGGATTCCATTCTATGATTCCATTCAATTCCATTCGTTGATGATTCGATTCCATTCAATGATGATTCCATTTGAGTTCATTCGATGATTCTATTCGATTCCGTTCGATGGTGATTCAATTCTCCTATATTGGATGAATCCACTCGATTCCATTTGATGATTATTCCATTGGAGTCCACTTAGTGAATCCTTCAGATTCTACTCGAAGATGATTCCATTCAAGTCCATTCGATGATACCATTCAATTCCATTCGTTGATGCTTCCATTCAAGTGCATTCGATGATATCATTCGATTCCATTTGATGATAATTCCATTTGATTCCATGCGATGATTCTATTCGATTCCATTCAATGATAATTCCATTCAGTTCAGTGATTACTCTGGACTCCATTTGATGATGATTCCATTCAATGATTCCATTCGATTCTATTCGAAAATGATTCCATTTGAATCCATTTGATGATGATTCCATTAGATTCCATTTGATGATTCCATTCGATTCCATGCGACGATGATTCCATTCGATTCCATGTGATGATTCCATTCTATTCTATTCGATGATGATTCCATTCGATTCCATTCGATGATGATTGGATTCGATTCCATTTGATGATTTCATTTGATTCCATTCGTTAATGATTTCGATCAATTCCATTCGATGATTCCATTCGATTCCATTCGATAATGATTACATCCGAGTCCATTCAGTGATTCCATTTGAGCCTGTTCGATAATTCCATTTGAGTCCAACCAATGATTCCATTCATTTCCATTCAATGATTCCATTCGAGTCCATTTGATCATTCCGGTAGGGTCCATTCGATGTTGATTCCATTGGAGTGCATTCGATGATTCCATTCGAGTCCATTTTAGGATTTGATTCGAGTCCTTTCGATGATTCCATTCGATTCCACT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"PB0134.1"	""	97	"."	8	19	"."	0	""	"-"	""	"PB0134.1"	"MotifFeature"	"TFBS_ablation,TF_binding_site_variant"	""	""	""	""	""	""	"1"	NA	1	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	"HNF4A:PB0134.1"	"-3017"	"N"	NA	"MODERATE"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGATGATTTCATTCGAGTCCATTGGACACTTCCAATCGATTCCATTTGATGTTTCCATTCGATTCCAATTGATGATTCCATTCAATTCCATTCGATGATGATTCCGTATGATTCCATTCTGTGATGATTCCATGTGATTGCATTCAATGATGATTCCTTTCGATTGCATTCGATTATGATTCATTTCGTGTTCATTCTATGGTTCCACAGGTTTCCATTCGTGTCCATTCCATTATTCCATTCTATTCCATTTGATGATGATTCCATTCGATTCCATTCATTGGTGATTCCACTCAATTCCATTCAATGATTCCATTCCATTTCTTTCAACAATGATTCCATTAGTTTCTATTCGATGATCCACTTGATTCCATTTGTCGATGATTCCATTCGTGTCCATTCGATGATTCCATTTGATTCCATATGATGATGATTCCATTCGATTCCATACGATGATGATTCCATTCGAGTCCATTCAATGGTGATTCCATTCAATTCCATTCGATGATTCCTTCCGATTCCATTCCATGATGATGGCATTCGATTCCTTTCGATCATTCCCTTTGATTCCATTCAAAGGTGATTTCATTCAAGTCCATTCGATAATTGCATTCGATTCCATTCTATGATGATTCCATTCGAGTCCATTTGATGATTCCATTCAATTCAAGTCAATGATGATTCCATTCGATTCCACTCGATGATTCCATTGGATTCCATTCGATGATGATTCCATTCAAATCCATTCGATAATTCAATTCAAGTCCATTCGATGATGATTCCAATCGAATCCATTCAAAGATTCCACTCAATTCCATTCGATGATGATTCCCTTAGATTCCATTCGATGATTCCACTTGATTCCATTTACGATGATTCCATTCGATTCCATGTGATGATTCCATTCAATTCTATTCAATGATGTTTCCACTTGATTCCATTCGAACATGATTGCCTTTGATTCCATTCAATGATTCCATACGGTTCCATTTGATGATGATTCCATTCGAGTGCATTAGATGATTCCATTCGAGTCCATTCGATGATTCCATTCGATTCCATTCGATGTTGATTCTGTTCAAATCCATTCGATGATTCCACTCGATTCCATTCGATGACTCCATTTGATCCCATTCGATGATTTCCTTTGATTCCCTTTGATGATCATTCCATTTGATTCAATTCGGTGATTTCATTTGATTCCATTCAGTGATGTTTCCATTCAACTCCTTTCGATGATGATTCCATTCGACTCCATTCGATTATGATTTCATTCAATTCCATTCGATAATGATTCCCTTCAAGTCCATTCGATGATTCCATTCGATTCCATTCAACGATGATTTGATTCGTGTCCATTCGATGATTCCATTTGATTCCATTTGATGATGATTCCATTCGAGTCCCTTTGATGATTCCATTCAATTCCATTCTCCGATGATTTCTTTTGAGCCCATTCAATGCTTCCACTCGATTCCATATGATGATGACTCCATTTGATGAAATTCCATGATGATTCCATTCGCTTGCATTCGATGATGATTCCACTTGAGTCCGTTAGAAGATTCTATTCAATTACATTCCATGACGATTCTGTTCGAGTCCATTTGATGATTCCATTAGACTCCATTCGACGATGATTCCATTCGATGTTATTCGATGATGATTCCATTCAACTCCATTCGATGTTTCCATTCGAGTTCATTCTATTATTCCATTAGATTCCATTCGATGATGATTCCATTCGATTCCATTTGATGATTGCATTCTATTTCATTTGATGATGATTCCATTCGAGTCCATTCGATGATTCCATTCGAGTCCATTTAATGAATCCATTGGTTTCAATTCTATGATGATTACATTGGATTCCATACGTTGATGATTTCATTCGATTCCATTCAATGATGATTCCATTCAATTCCATTCAATGATTCCATTCAATTCCATACGATGATGATTCCATTTGATTTGATTCGACAGTGAGCCATTCGATTCAATTCCATGATGATTCTATTTGATTCAATTGGTTGACATTTCCATTCGATTCCATTCGATGATGATTCCCTTTGATTCCATTCAAAGATGATTCCATTCTAGCCCATTCAATCATTCCATTCGATTCTATTCAATGATGATTCCATTCATGTCGATTTGGTGATTCCATTTGACTTCATTTGATGATGATTCCTTTCAAGTTCATTAGATGATTCCATTCGATTCCATTTGATGATGATCCCATTCGAGTCCATTCAGTGATTCCACTCGTTTCCATTCCATGATGATTCCATTCCATTCCATTCAATGATTCCATTCGATTCCGTTTGATGATGATTTCATTCGAGTCCATTTGATGATTCCATTTGATTCCATTCGATGATGATTACATTCGAGTCCATACGATGATTCCACTCAATTCCATATGATGATGATTCCATTCGATTCCATTCGATGATTCCATTCTATTCTATTCAATGGTGATTCCATTCGAGTACATTAGATGATTCCATTCGATTCCATTCAATGATGATTCTATTTGTGTCCCTTAGATGGTTCCACATGATTCCATTTCATGATGATACTATTTGAGCCCATCCAATGATTCCCTTCGATTCCATTCGATGAGGATTCCATTCGATTCAATTCATTGGTGATTCTATTCAATTCAATTCTTTGATTCCATTCCATTCCATTCGACAATGATTCCATTCGATTTCTTTCGATGATTCCACTCCATTCCACTTGACATTGATTCCATTCGATTCCATTCAATGATTCCGTTTGATTCCAGTGGATGATGATTGCCATCGATTCCATTCGATCACTCCATTCTATTCCATTTGATGATGATTACATTCGATTCCATTTGATGATTCCATCTGATTCTATTCGAGGATTCCATTTGATTCCATTCGATGATGATTCCATTCGAGTCCATTCGATGATTTCATTCGAGTACATCCAATGATTCCATTCGAGTCCATTTGATGATTGCATTTGATTCCATTTCATTATGATTCTACTAGAGTCCATTCAATGACTCCATTCGAATCCATTCAACAATTCCATTCGAGGCCATTCGATGATTCCATTTCATGATTCCATTCGAGTCCATTTAATCATTACAGTCGAGTCCATTTGGTGATTCCACTGGATTTCTTTTGATAATGATACCATTCAATTACATTTGATGATGATCCCATTCAATTTCATTTGATGGTGATTCCATTAGAGTCCATTCGATGATTTCATTCGAGTCCCTTCATTGATTCCATCCGATTTCATTGGATGATGACTCCATTCGAGTCCATTCGATGATTCCACTCGATTCCATTAGATGATTCCATTGGAGTCCATTTGATTGTTCCATTCGATTCTATTCGATTCCTTTCGAAGATTATTCCATTTGAGTCCATTCGATGATGATTCCATTCCATTCCATTCGATGATTCCGTTTGATTCCATTCGATGATTCCCTTCGATTCCTTTCTTTGATGATTCCATTCCATTCCATTCAATGATTCCGTTCGAATCTATTCCATGATGATTCCTTTCGATTCCATTCGCTGATGTTTCCGTTCAATTCCATTCGATGATGATTCCATTCGATTCCATTCATTGAGGATTCCATTTGATTCCATTCAATGATGATTCCATTCTATTCCATTCAATGATTGCATTCAATTCCATTCAATGATTATCCCCTTAGAGTAAACTCAACGATTCCATTCAATACCATTCGATGATGATTCCTTTTGAGTCCATTCAATGATTTCATTCAAGTCCATTTGATGATTCCTTTCAATTCCATTCTATGATGATTCCATTCGAGTCCATTCGATGATTCCATTCGATTGCATTCGATGATTCCATTATATTCCATTCAACGATGATTCCATTCGAGTCCATTCGATGATTCCATTAGAGTACATTTAATGATTGCTTTGTTTTCAATTCGAAGATGATTACATTGGATTCCATTCTATGATACCATTCGATTCCATTCAATGATGATTCCACTCAAATCCATTGGATGATTCCATTCGTGTCCATTCGGTGATTTCATTAGATTCCATTCGAGGATGATTCCATTCGATTCCATTCGATGATTCCATTCAATTCCATTCGATGATGATTCCATTCCAGTCCATATGATCATTCCATTTGATTCATTTGATGATGATTCCATTCGATTCCATTCGATGATTCCATTCTATTCCATTCGATGATGATTCCACTCGAGTCCATTCGATGATTCCATTCGAGTCCATTTAATGATTCCATTGGGTTCAATTCAATGATGATTACATTGGATTCCGTTCTATGATTCCATTCAATTCCGTTCATTGACAATTTGATTCCATTCGATGATGATTCCATTTGAGTTCATTCGATGATTCTATTCGATTCTCTTCGATGGTGATTCAATTCTATTATATTGGATGATTCCATTCGATTCCATTTGATGTTGATTCAATTCGATTCTATTCGATGATGATTCCATTGGATTTCACTTGATGATTCTATTCGATTCCATTCAATGATGATTCACTTCTCGTCCATTGGATGATTCCATTTCATTCCATTCGATGATGATTCCATTCGATTCCATTCGATGATTCCATTTGATTCCATGCGTCGGTGAGCAATTCGATTCAATTCCATGATGATTCTATTTGATTCAATTAGATGATGTTTCCATTCGAATCCATTCCATGATTATTCCATTGGAATCCATTCGGCGATGATTCCATATGAGTCAATTCAATGATGATTCCATATGGGTCCGTTCGATGATAATTCCATTTGATTTCATTCAATGCTTCTATTCTATTCCAGTCGATGATGATTCCGTTGGAGTCCATACGATGATTCCATTTGATTTCATTTGATGATGATTCCATTCGATGATGATTACATTGGATTCCATTCTATGATTCCATTCAATTCCATTCGTTGATGATTCGATTCCATTCAATGATGATTCCATTTGAGTTCATTCGATGATTCTATTCGATTCCGTTCGATGGTGATTCAATTCTCCTATATTGGATGAATCCACTCGATTCCATTTGATGATTATTCCATTGGAGTCCACTTAGTGAATCCTTCAGATTCTACTCGAAGATGATTCCATTCAAGTCCATTCGATGATACCATTCAATTCCATTCGTTGATGCTTCCATTCAAGTGCATTCGATGATATCATTCGATTCCATTTGATGATAATTCCATTTGATTCCATGCGATGATTCTATTCGATTCCATTCAATGATAATTCCATTCAGTTCAGTGATTACTCTGGACTCCATTTGATGATGATTCCATTCAATGATTCCATTCGATTCTATTCGAAAATGATTCCATTTGAATCCATTTGATGATGATTCCATTAGATTCCATTTGATGATTCCATTCGATTCCATGCGACGATGATTCCATTCGATTCCATGTGATGATTCCATTCTATTCTATTCGATGATGATTCCATTCGATTCCATTCGATGATGATTGGATTCGATTCCATTTGATGATTTCATTTGATTCCATTCGTTAATGATTTCGATCAATTCCATTCGATGATTCCATTCGATTCCATTCGATAATGATTACATCCGAGTCCATTCAGTGATTCCATTTGAGCCTGTTCGATAATTCCATTTGAGTCCAACCAATGATTCCATTCATTTCCATTCAATGATTCCATTCGAGTCCATTTGATCATTCCGGTAGGGTCCATTCGATGTTGATTCCATTGGAGTGCATTCGATGATTCCATTCGAGTCCATTTTAGGATTTGATTCGAGTCCTTTCGATGATTCCATTCGATTCCACTC"	"75d44736-280f-11e6-b86a-fad3414a729f"	"93"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0824742268041237	"WXS"	FALSE
"3735"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	47086198	47086198	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs71134532"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71134532"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.1366"	"-:0.5877"	"-:0.9352"	NA	"-:0.9802"	"-:0.9443"	"-:0.9816"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"854e0a30-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3736"	"RP11-42I10.1"	0	"mskcc.org"	"GRCh37"	"16"	48741429	48741430	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs5816602"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.169-33763dupT"	""	""	"ENST00000568150"	""	8	"."	4	1	"."	0	"RP11-42I10.1,intron_variant,,ENST00000568150,;"	"T"	"ENSG00000260086"	"ENST00000568150"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/547"	""	""	""	""	"rs5816602"	"1"	NA	1	"RP11-42I10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"-:0.0198"	"T:0.9327"	"T:0.9885"	NA	"T:1"	"T:0.998"	"T:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"973b3d30-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3737"	"BRD7"	29117	"mskcc.org"	"GRCh37"	"16"	50403210	50403213	"+"	"5'Flank"	"DEL"	"CTTT"	"CTTT"	"-"	"rs112358490"	NA	"JHCCPT5"	"JHCCPN5"	"CTTT"	"CTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000394689"	""	11	"."	4	4	"."	0	"BRD7,upstream_gene_variant,,ENST00000394688,;BRD7,upstream_gene_variant,,ENST00000394689,NM_001173984.2,NM_013263.4;RP11-21B23.1,intron_variant,,ENST00000568427,;BRD7,upstream_gene_variant,,ENST00000401491,;BRD7,upstream_gene_variant,,ENST00000567826,;"	"-"	"ENSG00000166164"	"ENST00000394689"	"Transcript"	"upstream_gene_variant"	"-/2145"	"-/1959"	"-/652"	""	""	"rs112358490"	"1"	"520"	-1	"BRD7"	"HGNC"	14310	"protein_coding"	"YES"	"CCDS54007.1"	"ENSP00000378181"	"Q9NPI1"	"I3L4V5,I3L0Y7"	"UPI000013E567"	"NM_001173984.2,NM_013263.4"	NA	NA	""	""	""	"-:0.3984"	"-:0.438"	"-:0.2334"	NA	"-:0.4931"	"-:0.3976"	"-:0.365"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTTC"	"863c0ab4-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3738"	"RP11-883G14.2"	101927334	"mskcc.org"	"GRCh37"	"16"	51047543	51047543	"+"	"5'Flank"	"DEL"	"G"	"-"	"-"	"rs66882973"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000563826"	""	6	"."	5	2	"."	0	"RP11-883G14.2,upstream_gene_variant,,ENST00000563826,;"	"-"	"ENSG00000261637"	"ENST00000563826"	"Transcript"	"upstream_gene_variant"	"-/437"	""	""	""	""	"rs66882973"	"1"	"4126"	1	"RP11-883G14.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.0040"	"-:0.9864"	"-:0.9971"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGG"	"865ac7e2-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3739"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	51988502	51988505	"+"	"IGR"	"DEL"	"CCTT"	"CCTT"	"-"	"rs35359780"	NA	"JHCCPT5"	"JHCCPN5"	"CCTT"	"CCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35359780"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CCTT:0.4740"	"-:0.1974"	"-:0.6081"	NA	"-:0.7083"	"-:0.6402"	"-:0.6063"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCCTTC"	"8692bbc0-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3740"	"RP11-467J12.3"	0	"mskcc.org"	"GRCh37"	"16"	53041192	53041192	"+"	"3'Flank"	"DEL"	"A"	"-"	"-"	"rs34977637"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000564816"	""	6	"."	6	2	"."	0	"RP11-467J12.3,downstream_gene_variant,,ENST00000564816,;"	"-"	"ENSG00000260939"	"ENST00000564816"	"Transcript"	"downstream_gene_variant"	"-/892"	""	""	""	""	"rs34977637"	"1"	"3115"	-1	"RP11-467J12.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3516"	"-:0.3215"	"-:0.7104"	NA	"-:0.9355"	"-:0.7207"	"-:0.6759"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"869e16a0-280f-11e6-b86a-fad3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"3741"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	54593653	54593657	"+"	"IGR"	"DEL"	"TTAAG"	"TTAAG"	"-"	"rs142551138"	NA	"JHCCPT5"	"JHCCPN5"	"TTAAG"	"TTAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142551138"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4922"	"-:0.5779"	"-:0.4251"	NA	"-:0.3968"	"-:0.4811"	"-:0.5337"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTAAGT"	"86c8ec72-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3742"	"RP11-212I21.2"	0	"mskcc.org"	"GRCh37"	"16"	55482301	55482330	"+"	"5'Flank"	"DEL"	"AAAAAGAAAAGAAGAAAAGAAGGGAAAAGA"	"AAAAAGAAAAGAAGAAAAGAAGGGAAAAGA"	"-"	"rs201203060"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAAGAAAAGAAGAAAAGAAGGGAAAAGA"	"AAAAAGAAAAGAAGAAAAGAAGGGAAAAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000565307"	""	7	"."	3	1	"."	0	"MMP2,intron_variant,,ENST00000570308,;RP11-212I21.2,intron_variant,,ENST00000569037,;RP11-212I21.2,upstream_gene_variant,,ENST00000565307,;"	"-"	"ENSG00000260135"	"ENST00000565307"	"Transcript"	"upstream_gene_variant"	"-/593"	""	""	""	""	"rs201203060"	"1"	"3630"	-1	"RP11-212I21.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAAAAGAAAAGAAGAAAAGAAGGGAAAAGAA"	"86dfa750-280f-11e6-b86a-fad3414a729f"	"160"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3743"	"CES1"	1066	"mskcc.org"	"GRCh37"	"16"	55854986	55854987	"+"	"Intron"	"INS"	"-"	"-"	"AGAG"	"rs113127174"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.693+290_693+293dupCTCT"	""	""	"ENST00000360526"	""	38	"."	7	18	"."	0	"CES1,intron_variant,,ENST00000422046,;CES1,intron_variant,,ENST00000360526,NM_001266.4,NM_001025195.1,NM_001025194.1;CES1,intron_variant,,ENST00000361503,;CES1,downstream_gene_variant,,ENST00000566555,;CES1,intron_variant,,ENST00000563005,;CES1,intron_variant,,ENST00000565403,;CES1,upstream_gene_variant,,ENST00000569260,;"	"AGAG"	"ENSG00000198848"	"ENST00000360526"	"Transcript"	"intron_variant"	"-/2006"	"-/1707"	"-/568"	""	""	"rs113127174"	"1"	NA	-1	"CES1"	"HGNC"	1863	"protein_coding"	"YES"	"CCDS32450.1"	"ENSP00000353720"	"P23141"	"B7Z795"	"UPI000054B390"	"NM_001266.4,NM_001025195.1,NM_001025194.1"	NA	NA	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"97e240bc-280f-11e6-b86a-fad3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184210526315789	"WXS"	FALSE
"3744"	"SLC12A3"	6559	"mskcc.org"	"GRCh37"	"16"	56933197	56933198	"+"	"Intron"	"INS"	"-"	"-"	"AGG"	"rs10645308"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2661-243_2661-241dupGGA"	""	""	"ENST00000438926"	""	10	"."	5	5	"."	0	"SLC12A3,intron_variant,,ENST00000438926,NM_001126108.1,NM_000339.2,NM_001126107.1;SLC12A3,intron_variant,,ENST00000262502,;SLC12A3,intron_variant,,ENST00000563236,;SLC12A3,intron_variant,,ENST00000566786,;SLC12A3,upstream_gene_variant,,ENST00000569002,;"	"AGG"	"ENSG00000070915"	"ENST00000438926"	"Transcript"	"intron_variant"	"-/5567"	"-/3093"	"-/1030"	""	""	"rs10645308"	"1"	NA	1	"SLC12A3"	"HGNC"	10912	"protein_coding"	"YES"	"CCDS10770.1"	"ENSP00000402152"	"P55017"	""	"UPI00001FF243"	"NM_001126108.1,NM_000339.2,NM_001126107.1"	NA	NA	""	"22/25"	""	"-:0.3946"	"AGG:0.8268"	"AGG:0.5389"	NA	"AGG:0.6101"	"AGG:0.4354"	"AGG:0.5235"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"981b760c-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3745"	"GPR56"	9289	"mskcc.org"	"GRCh37"	"16"	57665020	57665024	"+"	"Intron"	"DEL"	"TGCTG"	"TGCTG"	"GCCA"	"rs386791136"	NA	"JHCCPT5"	"JHCCPN5"	"TGCTG"	"TGCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-94+2255_-94+2259delTGCTGinsGCCA"	""	""	"ENST00000388812"	""	10	"."	4	1	"."	0	"GPR56,5_prime_UTR_variant,,ENST00000566123,;GPR56,intron_variant,,ENST00000562631,;GPR56,intron_variant,,ENST00000388812,;GPR56,intron_variant,,ENST00000538815,NM_001145772.1,NM_001145771.1,NM_201524.2;GPR56,intron_variant,,ENST00000388813,;GPR56,intron_variant,,ENST00000456916,NM_201525.2,NM_001145773.1;GPR56,intron_variant,,ENST00000562558,;GPR56,intron_variant,,ENST00000568908,NM_005682.5,NM_001145770.1;GPR56,intron_variant,,ENST00000567835,;GPR56,intron_variant,,ENST00000568909,;GPR56,intron_variant,,ENST00000561988,;GPR56,intron_variant,,ENST00000566271,;GPR56,intron_variant,,ENST00000561833,;GPR56,intron_variant,,ENST00000567154,;GPR56,intron_variant,,ENST00000568234,;GPR56,intron_variant,,ENST00000561969,;GPR56,intron_variant,,ENST00000565314,;GPR56,intron_variant,,ENST00000561696,;GPR56,intron_variant,,ENST00000566164,;GPR56,intron_variant,,ENST00000567702,;GPR56,intron_variant,,ENST00000563445,;GPR56,intron_variant,,ENST00000565770,;GPR56,intron_variant,,ENST00000568791,;GPR56,intron_variant,,ENST00000567553,;GPR56,intron_variant,,ENST00000563548,;GPR56,intron_variant,,ENST00000563374,;GPR56,intron_variant,,ENST00000565013,;GPR56,intron_variant,,ENST00000567397,;GPR56,intron_variant,,ENST00000565587,;GPR56,intron_variant,,ENST00000569372,;GPR56,intron_variant,,ENST00000565338,;GPR56,intron_variant,,ENST00000566778,;GPR56,intron_variant,,ENST00000570044,;GPR56,intron_variant,,ENST00000568979,;GPR56,intron_variant,,ENST00000564338,;GPR56,intron_variant,,ENST00000562003,;GPR56,intron_variant,,ENST00000562414,;GPR56,intron_variant,,ENST00000569531,;GPR56,upstream_gene_variant,,ENST00000561782,;GPR56,upstream_gene_variant,,ENST00000562682,;RP11-405F3.5,intron_variant,,ENST00000563251,;GPR56,intron_variant,,ENST00000564912,;GPR56,intron_variant,,ENST00000569992,;GPR56,intron_variant,,ENST00000562673,;GPR56,intron_variant,,ENST00000562608,;GPR56,intron_variant,,ENST00000568487,;GPR56,intron_variant,,ENST00000561872,;GPR56,intron_variant,,ENST00000562101,;GPR56,intron_variant,,ENST00000564907,;GPR56,intron_variant,,ENST00000568645,;GPR56,intron_variant,,ENST00000563007,;"	"GCCA"	"ENSG00000205336"	"ENST00000388812"	"Transcript"	"intron_variant"	"-/3972"	"-/2082"	"-/693"	""	""	"rs386791136"	"1"	NA	1	"GPR56"	"HGNC"	4512	"protein_coding"	"YES"	"CCDS32460.1"	"ENSP00000373464"	"Q9Y653"	"H3BVE9,H3BVD3,H3BV72,H3BV52,H3BUH2,H3BTK9,H3BTH7,H3BTD2,H3BT88,H3BSR1,H3BSN7,H3BSN3,H3BSB8,H3BS94,H3BS14,H3BRZ4,H3BRI7,H3BRH0,H3BRB4,H3BRA1,H3BQZ1,H3BQW4,H3BQ46,H3BNN3,H3BMF8"	"UPI0000047817"	""	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCTGCTGG"	"90f555a0-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3746"	"RP11-332G1.1"	0	"mskcc.org"	"GRCh37"	"16"	58126430	58126431	"+"	"RNA"	"INS"	"-"	"ATCAAGTCGA"	"ATCAAGTCGA"	"rs111529275"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.421_422insTCGACTTGAT"	""	""	"ENST00000570133"	"1/1"	8	"."	7	2	"."	0	"RP11-332G1.1,non_coding_transcript_exon_variant,,ENST00000570133,;"	"ATCAAGTCGA"	"ENSG00000261151"	"ENST00000570133"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"421-422/895"	""	""	""	""	"rs111529275"	"1"	NA	-1	"RP11-332G1.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"ATCAAGTCGA:0.3818"	"ATCAAGTCGA:0.2012"	"ATCAAGTCGA:0.3458"	NA	"ATCAAGTCGA:0.4107"	"ATCAAGTCGA:0.5885"	"ATCAAGTCGA:0.409"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"988fdfe2-280f-11e6-b86a-fad3414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.875	"WXS"	FALSE
"3747"	"RP11-332G1.1"	0	"mskcc.org"	"GRCh37"	"16"	58127612	58127613	"+"	"5'Flank"	"INS"	"-"	"-"	"TCTCTC"	"rs113028808"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000570133"	""	12	"."	6	3	"."	0	"RP11-332G1.1,upstream_gene_variant,,ENST00000570133,;"	"TCTCTC"	"ENSG00000261151"	"ENST00000570133"	"Transcript"	"upstream_gene_variant"	"-/895"	""	""	""	""	"rs113028808"	"1"	"761"	-1	"RP11-332G1.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1294"	"TCTCTC:0.9516"	"TCTCTC:0.853"	NA	"TCTCTC:0.8879"	"TCTCTC:0.8449"	"TCTCTC:0.7822"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"9891134e-280f-11e6-b86a-fad3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3748"	"NDRG4"	65009	"mskcc.org"	"GRCh37"	"16"	58540061	58540062	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"rs72499708"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.529-229_529-228delCT"	""	""	"ENST00000394282"	""	95	"."	4	49	"."	0	"NDRG4,intron_variant,,ENST00000394282,NM_001130487.1;NDRG4,intron_variant,,ENST00000394279,NM_022910.3;NDRG4,intron_variant,,ENST00000258187,NM_020465.3;NDRG4,intron_variant,,ENST00000566192,NM_001242836.1,NM_001242834.1;NDRG4,intron_variant,,ENST00000570248,NM_001242835.1;NDRG4,intron_variant,,ENST00000563799,;NDRG4,intron_variant,,ENST00000562999,;NDRG4,intron_variant,,ENST00000356752,NM_001242833.1;NDRG4,intron_variant,,ENST00000569923,;NDRG4,intron_variant,,ENST00000568640,;NDRG4,intron_variant,,ENST00000564126,;NDRG4,intron_variant,,ENST00000569539,;NDRG4,intron_variant,,ENST00000566618,;NDRG4,intron_variant,,ENST00000561738,;NDRG4,intron_variant,,ENST00000563978,;NDRG4,intron_variant,,ENST00000567063,;NDRG4,downstream_gene_variant,,ENST00000565434,;NDRG4,downstream_gene_variant,,ENST00000564486,;NDRG4,downstream_gene_variant,,ENST00000567454,;NDRG4,downstream_gene_variant,,ENST00000565088,;NDRG4,downstream_gene_variant,,ENST00000567667,;NDRG4,downstream_gene_variant,,ENST00000569404,;NDRG4,downstream_gene_variant,,ENST00000561779,;NDRG4,downstream_gene_variant,,ENST00000561724,;NDRG4,upstream_gene_variant,,ENST00000569026,;NDRG4,downstream_gene_variant,,ENST00000562731,;NDRG4,downstream_gene_variant,,ENST00000565430,;NDRG4,downstream_gene_variant,,ENST00000568424,;NDRG4,downstream_gene_variant,,ENST00000568999,;NDRG4,downstream_gene_variant,,ENST00000564207,;NDRG4,downstream_gene_variant,,ENST00000566656,;NDRG4,downstream_gene_variant,,ENST00000565304,;NDRG4,upstream_gene_variant,,ENST00000569408,;NDRG4,intron_variant,,ENST00000562725,;NDRG4,downstream_gene_variant,,ENST00000563022,;NDRG4,downstream_gene_variant,,ENST00000566065,;NDRG4,non_coding_transcript_exon_variant,,ENST00000565981,;NDRG4,non_coding_transcript_exon_variant,,ENST00000568005,;NDRG4,intron_variant,,ENST00000421602,;NDRG4,intron_variant,,ENST00000561720,;NDRG4,intron_variant,,ENST00000564960,;NDRG4,intron_variant,,ENST00000566061,;NDRG4,upstream_gene_variant,,ENST00000563209,;NDRG4,upstream_gene_variant,,ENST00000566265,;NDRG4,downstream_gene_variant,,ENST00000562764,;NDRG4,downstream_gene_variant,,ENST00000568464,;NDRG4,upstream_gene_variant,,ENST00000561730,;NDRG4,downstream_gene_variant,,ENST00000564867,;NDRG4,upstream_gene_variant,,ENST00000562350,;NDRG4,downstream_gene_variant,,ENST00000562930,;NDRG4,downstream_gene_variant,,ENST00000566585,;NDRG4,upstream_gene_variant,,ENST00000561681,;NDRG4,downstream_gene_variant,,ENST00000563317,;"	"-"	"ENSG00000103034"	"ENST00000394282"	"Transcript"	"intron_variant"	"-/3626"	"-/1176"	"-/391"	""	""	"rs72499708"	"1"	NA	1	"NDRG4"	"HGNC"	14466	"protein_coding"	"YES"	"CCDS45500.1"	"ENSP00000377823"	"Q9ULP0"	"H3BUK1,H3BU25,H3BST8,H3BSC3,H3BRT9,H3BR92,H3BPH8,H3BNQ1,H3BNB4,H3BN97,H3BMR6,H3BM83,B7Z9X4"	"UPI00001C0CB5"	"NM_001130487.1"	NA	NA	""	"7/15"	""	"-:0.4201"	"-:0.4697"	"-:0.389"	NA	"-:0.4841"	"-:0.335"	"-:0.3967"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	"0.08462"	"0.2222"	"0.1053"	"0.3056"	"0.09821"	"0.19"	"0.141"	"0.2386"	NA	"common_variant"	"TGTCT"	"885a82c6-280f-11e6-b86a-fad3414a729f"	"240"	0.2188	"1411/6448"	"2097/24782"	"36/162"	"12/114"	"11/36"	"11/112"	"347/1826"	"11/78"	"983/4120"	"PASS"	"FALSE"	0.0421052631578947	"WXS"	FALSE
"3749"	"CNOT1"	23019	"mskcc.org"	"GRCh37"	"16"	58565609	58565610	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs35595725"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6177+252dupT"	""	""	"ENST00000317147"	""	32	"."	4	14	"."	0	"CNOT1,intron_variant,,ENST00000317147,NM_016284.4,NM_001265612.1;CNOT1,intron_variant,,ENST00000569240,;CNOT1,intron_variant,,ENST00000245138,;CNOT1,downstream_gene_variant,,ENST00000568917,;CNOT1,intron_variant,,ENST00000567188,;CNOT1,intron_variant,,ENST00000563130,;CNOT1,upstream_gene_variant,,ENST00000570139,;"	"A"	"ENSG00000125107"	"ENST00000317147"	"Transcript"	"intron_variant"	"-/8471"	"-/7131"	"-/2376"	""	""	"rs35595725"	"1"	NA	-1	"CNOT1"	"HGNC"	7877	"protein_coding"	"YES"	"CCDS10799.1"	"ENSP00000320949"	"A5YKK6"	"H3BUY8,H3BT18,H3BPF1,B7Z6X2,B3KS60"	"UPI00001FF2F6"	"NM_016284.4,NM_001265612.1"	NA	NA	""	"42/48"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"98b7dcc2-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"3750"	"CNOT1"	23019	"mskcc.org"	"GRCh37"	"16"	58577315	58577315	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4434+196delC"	""	""	"ENST00000317147"	""	147	"."	4	57	"."	0	"CNOT1,frameshift_variant,p.Leu1544CysfsTer11,ENST00000441024,NM_206999.2;CNOT1,intron_variant,,ENST00000317147,NM_016284.4,NM_001265612.1;CNOT1,intron_variant,,ENST00000569240,;CNOT1,intron_variant,,ENST00000245138,;CNOT1,upstream_gene_variant,,ENST00000568917,;CNOT1,downstream_gene_variant,,ENST00000567285,;CNOT1,downstream_gene_variant,,ENST00000567133,;CNOT1,intron_variant,,ENST00000567188,;CNOT1,intron_variant,,ENST00000566240,;CNOT1,upstream_gene_variant,,ENST00000563283,;"	"-"	"ENSG00000125107"	"ENST00000317147"	"Transcript"	"intron_variant"	"-/8471"	"-/7131"	"-/2376"	""	""	""	"1"	NA	-1	"CNOT1"	"HGNC"	7877	"protein_coding"	"YES"	"CCDS10799.1"	"ENSP00000320949"	"A5YKK6"	"H3BUY8,H3BT18,H3BPF1,B7Z6X2,B3KS60"	"UPI00001FF2F6"	"NM_016284.4,NM_001265612.1"	NA	NA	""	"31/48"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGA"	"887671fc-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	"AC_Adj0_Filter"	"FALSE"	0.0272108843537415	"WXS"	FALSE
"3751"	"GOT2"	2806	"mskcc.org"	"GRCh37"	"16"	58743183	58743187	"+"	"Intron"	"DEL"	"AAAAC"	"AAAAC"	"-"	"rs142747599"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAC"	"AAAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1170+134_1170+138delGTTTT"	""	""	"ENST00000245206"	""	33	"."	8	3	"."	0	"GOT2,intron_variant,,ENST00000245206,NM_002080.2;GOT2,intron_variant,,ENST00000434819,NM_001286220.1;GOT2,non_coding_transcript_exon_variant,,ENST00000494627,;"	"-"	"ENSG00000125166"	"ENST00000245206"	"Transcript"	"intron_variant"	"-/2462"	"-/1293"	"-/430"	""	""	"rs142747599"	"1"	NA	-1	"GOT2"	"HGNC"	4433	"protein_coding"	"YES"	"CCDS10801.1"	"ENSP00000245206"	"P00505"	""	"UPI000013CB99"	"NM_002080.2"	NA	NA	""	"9/9"	""	"AAAAC:0.2458"	"-:0.8964"	"-:0.781"	NA	"-:0.6617"	"-:0.7097"	"-:0.684"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAAAAACA"	"88c87aa6-280f-11e6-b86a-fad3414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242424242424242	"WXS"	FALSE
"3752"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	59632063	59632072	"+"	"IGR"	"DEL"	"TTTCTTTCTT"	"TTTCTTTCTT"	"-"	"rs71388610"	NA	"JHCCPT5"	"JHCCPN5"	"TTTCTTTCTT"	"TTTCTTTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71388610"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTCTTTCTTT"	"88debd20-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3753"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	63716816	63716817	"+"	"IGR"	"INS"	"-"	"-"	"AGAGAGAA"	"rs148967713"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	4	4	"."	0	""	"AGAGAGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148967713"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"98dd99a8-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3754"	"LINC00922"	283867	"mskcc.org"	"GRCh37"	"16"	65612004	65612005	"+"	"5'Flank"	"DEL"	"CG"	"CG"	"-"	"rs34168770"	NA	"JHCCPT5"	"JHCCPN5"	"CG"	"CG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000569736"	""	9	"."	4	3	"."	0	"LINC00922,upstream_gene_variant,,ENST00000569736,;RP11-351A20.1,upstream_gene_variant,,ENST00000563811,;"	"-"	"ENSG00000261742"	"ENST00000569736"	"Transcript"	"upstream_gene_variant"	"-/1760"	""	""	""	""	"rs34168770"	"1"	"1801"	-1	"LINC00922"	"HGNC"	27545	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"CG:0.2115"	"-:0.4758"	"-:0.8516"	NA	"-:0.9891"	"-:0.8111"	"-:0.9366"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACGC"	"892e14c4-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3755"	"ENSR00001505916"	0	"mskcc.org"	"GRCh37"	"16"	66164717	66164718	"+"	"IGR"	"INS"	"-"	"-"	"TGTA"	"rs2307773"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001505916"	""	6	"."	4	1	"."	0	""	"TGTA"	""	"ENSR00001505916"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs2307773"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2694"	"TGTA:0.7595"	"TGTA:0.8156"	NA	"TGTA:0.7768"	"TGTA:0.7217"	"TGTA:0.593"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"98ed9c68-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3756"	"ENKD1"	84080	"mskcc.org"	"GRCh37"	"16"	67699272	67699274	"+"	"Intron"	"DEL"	"ATT"	"ATT"	"-"	"rs748706844"	NA	"JHCCPT5"	"JHCCPN5"	"ATT"	"ATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.281-203_281-201delAAT"	""	""	"ENST00000243878"	""	16	"."	3	5	"."	0	"ENKD1,intron_variant,,ENST00000243878,NM_032140.1;ENKD1,intron_variant,,ENST00000602644,;ACD,upstream_gene_variant,,ENST00000219251,NM_001082487.1,NM_022914.2,NM_001082486.1;ACD,upstream_gene_variant,,ENST00000393919,;C16orf86,upstream_gene_variant,,ENST00000403458,NM_001012984.2;PARD6A,downstream_gene_variant,,ENST00000458121,NM_001037281.1,NM_016948.2;PARD6A,downstream_gene_variant,,ENST00000219255,;PARD6A,downstream_gene_variant,,ENST00000602551,;C16orf86,upstream_gene_variant,,ENST00000602365,;ENKD1,intron_variant,,ENST00000602409,;C16orf86,upstream_gene_variant,,ENST00000602974,;ENKD1,intron_variant,,ENST00000602531,;ENKD1,intron_variant,,ENST00000602415,;C16orf86,upstream_gene_variant,,ENST00000459925,;C16orf86,upstream_gene_variant,,ENST00000445068,;PARD6A,downstream_gene_variant,,ENST00000602727,;ENKD1,upstream_gene_variant,,ENST00000602942,;C16orf86,upstream_gene_variant,,ENST00000602987,;ENKD1,upstream_gene_variant,,ENST00000602642,;"	"-"	"ENSG00000124074"	"ENST00000243878"	"Transcript"	"intron_variant"	"-/1579"	"-/1041"	"-/346"	""	""	"rs748706844"	"1"	NA	-1	"ENKD1"	"HGNC"	25246	"protein_coding"	"YES"	"CCDS10844.1"	"ENSP00000243878"	"Q9H0I2"	""	"UPI00000727D7"	"NM_032140.1"	NA	NA	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCATTA"	"8a88a94c-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"3757"	"NFAT5"	10725	"mskcc.org"	"GRCh37"	"16"	69704122	69704123	"+"	"Intron"	"INS"	"-"	"-"	"TG"	"rs72523664"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1505-16_1505-15insGT"	""	""	"ENST00000432919"	""	187	"."	4	56	"."	0	"NFAT5,intron_variant,,ENST00000349945,NM_138714.3;NFAT5,intron_variant,,ENST00000432919,NM_138713.3,NM_001113178.2;NFAT5,intron_variant,,ENST00000354436,NM_006599.3;NFAT5,intron_variant,,ENST00000393742,NM_173214.2;NFAT5,intron_variant,,ENST00000567239,;NFAT5,intron_variant,,ENST00000566899,NM_173215.2;NFAT5,intron_variant,,ENST00000565301,;NFAT5,intron_variant,,ENST00000426654,;NFAT5,intron_variant,,ENST00000567990,;NFAT5,intron_variant,,ENST00000563474,;"	"TG"	"ENSG00000102908"	"ENST00000432919"	"Transcript"	"intron_variant"	"-/14157"	"-/4650"	"-/1549"	""	""	"rs72523664"	"1"	NA	1	"NFAT5"	"HGNC"	7774	"protein_coding"	"YES"	"CCDS45518.1"	"ENSP00000396538"	"O94916"	""	"UPI000049DE1B"	"NM_138713.3,NM_001113178.2"	NA	NA	""	"8/14"	""	"-:0.2314"	"TG:0.9834"	"TG:0.6254"	NA	"TG:0.8641"	"TG:0.5736"	"TG:0.682"	"TG:0.9129"	"TG:0.5921"	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	"0.6519"	"0.9305"	"0.6772"	"0.9084"	"0.5633"	"0.577"	"0.6224"	"0.6633"	NA	"common_variant"	"ACT"	"999011d2-280f-11e6-b86a-fad3414a729f"	"240"	0.6549	"67724/103414"	"69069/105958"	"7961/8556"	"7436/10980"	"7071/7784"	"3657/6492"	"30358/52614"	"422/678"	"10819/16310"	"PASS"	"FALSE"	0.0213903743315508	"WXS"	FALSE
"3758"	"IL34"	146433	"mskcc.org"	"GRCh37"	"16"	70678825	70678831	"+"	"Intron"	"DEL"	"AGGAGGA"	"AGGAGGA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AGGAGGA"	"AGGAGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-400-1617_-400-1611delGAGGAAG"	""	""	"ENST00000429149"	""	21	"."	8	9	"."	0	"IL34,intron_variant,,ENST00000429149,NM_152456.2,NM_001172771.1;IL34,intron_variant,,ENST00000563721,;IL34,upstream_gene_variant,,ENST00000288098,NM_001172772.1;IL34,upstream_gene_variant,,ENST00000569641,;IL34,upstream_gene_variant,,ENST00000574181,;"	"-"	"ENSG00000157368"	"ENST00000429149"	"Transcript"	"intron_variant"	"-/1779"	"-/729"	"-/242"	""	""	""	"1"	NA	1	"IL34"	"HGNC"	28529	"protein_coding"	"YES"	"CCDS10895.1"	"ENSP00000397863"	"Q6ZMJ4"	"J3QQT3,H3BPB7"	"UPI000004C5C6"	"NM_152456.2,NM_001172771.1"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAGGAGGAA"	"8c0ad420-280f-11e6-b86a-fad3414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.380952380952381	"WXS"	FALSE
"3759"	"CALB2"	794	"mskcc.org"	"GRCh37"	"16"	71416058	71416059	"+"	"Intron"	"INS"	"-"	"-"	"AGGAAGGAAGGAAGGAAG"	"rs61050017"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.343-564_343-563insAGGAAGGAAGGAAGGAAG"	""	""	"ENST00000302628"	""	13	"."	3	3	"."	0	"CALB2,intron_variant,,ENST00000302628,NM_001740.4;CALB2,intron_variant,,ENST00000349553,NM_007088.3;CALB2,intron_variant,,ENST00000562305,;CALB2,intron_variant,,ENST00000490520,;CALB2,upstream_gene_variant,,ENST00000467817,;"	"AGGAAGGAAGGAAGGAAG"	"ENSG00000172137"	"ENST00000302628"	"Transcript"	"intron_variant"	"-/1466"	"-/816"	"-/271"	""	""	"rs61050017"	"1"	NA	1	"CALB2"	"HGNC"	1435	"protein_coding"	"YES"	"CCDS10899.1"	"ENSP00000307508"	"P22676"	""	"UPI000013E7FC"	"NM_001740.4"	NA	NA	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"99ca20f2-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"3760"	"IST1"	9798	"mskcc.org"	"GRCh37"	"16"	71951206	71951207	"+"	"Intron"	"INS"	"-"	"-"	"AGAAC"	"rs71391424"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.396+172_396+176dupAACAG"	""	""	"ENST00000535424"	""	76	"."	16	12	"."	0	"IST1,intron_variant,,ENST00000378799,;IST1,intron_variant,,ENST00000329908,NM_001270975.1,NM_014761.3;IST1,intron_variant,,ENST00000378798,NM_001270977.1;IST1,intron_variant,,ENST00000456820,;IST1,intron_variant,,ENST00000541571,NM_001270976.1;IST1,intron_variant,,ENST00000544564,;IST1,intron_variant,,ENST00000535424,;IST1,intron_variant,,ENST00000606369,NM_001270979.1;IST1,intron_variant,,ENST00000538850,NM_001270978.1;IST1,intron_variant,,ENST00000541918,;IST1,intron_variant,,ENST00000537613,;IST1,intron_variant,,ENST00000534994,;IST1,intron_variant,,ENST00000539186,;IST1,intron_variant,,ENST00000424485,;IST1,downstream_gene_variant,,ENST00000538104,;IST1,downstream_gene_variant,,ENST00000568581,;IST1,downstream_gene_variant,,ENST00000540296,;RP11-498D10.5,downstream_gene_variant,,ENST00000567146,;IST1,intron_variant,,ENST00000538565,;IST1,intron_variant,,ENST00000439924,;IST1,intron_variant,,ENST00000545518,;IST1,intron_variant,,ENST00000566536,;IST1,upstream_gene_variant,,ENST00000545388,;IST1,upstream_gene_variant,,ENST00000537571,;IST1,upstream_gene_variant,,ENST00000538709,;"	"AGAAC"	"ENSG00000182149"	"ENST00000535424"	"Transcript"	"intron_variant"	"-/1416"	"-/1140"	"-/379"	""	""	"rs71391424"	"1"	NA	1	"IST1"	"HGNC"	28977	"protein_coding"	"YES"	"CCDS59271.1"	"ENSP00000438399"	"P53990"	"J3QLU7,H3BUI0,H3BRE2,H3BQF7,H3BQ38,H3BPP6,H3BMU1,B4DXC9,B4DLP1"	"UPI00001FF5EB"	""	NA	NA	""	"4/9"	""	"AGAAC:0.0327"	"AGAAC:0.0008"	"AGAAC:0.0476"	NA	"AGAAC:0"	"AGAAC:0.1143"	"AGAAC:0.0153"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"99e4aaf8-280f-11e6-b86a-fad3414a729f"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"3761"	"PKD1L3"	0	"mskcc.org"	"GRCh37"	"16"	72010809	72010809	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35263815"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1759+326delA"	""	""	"ENST00000534738"	""	10	"."	5	1	"."	0	"PKD1L3,intron_variant,,ENST00000534738,;PKD1L3,intron_variant,,ENST00000335106,;"	"-"	"ENSG00000187008"	"ENST00000534738"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/5195"	""	""	""	""	"rs35263815"	"1"	NA	-1	"PKD1L3"	"HGNC"	21716	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"11/29"	""	"-:0.0897"	"-:0.1657"	"-:0.0879"	NA	"-:0.003"	"-:0.1441"	"-:0.0215"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"8c936006-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3762"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	73925638	73925643	"+"	"IGR"	"DEL"	"TCTCTC"	"TCTCTC"	"-"	"rs141873386"	NA	"JHCCPT5"	"JHCCPN5"	"TCTCTC"	"TCTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141873386"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTCTCTCT"	"8d01dd9c-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3763"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	73927749	73927750	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs11418646"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11418646"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4816"	"A:0.1853"	"A:0.5778"	NA	"A:0.5476"	"A:0.6531"	"A:0.5695"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"9a12c2da-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3764"	"CNTNAP4"	85445	"mskcc.org"	"GRCh37"	"16"	76482296	76482297	"+"	"Intron"	"INS"	"-"	"-"	"TTCA"	"rs10624210"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.667+185_667+188dupTTCA"	""	""	"ENST00000478060"	""	23	"."	14	5	"."	0	"CNTNAP4,intron_variant,,ENST00000307431,NM_033401.3;CNTNAP4,intron_variant,,ENST00000377504,;CNTNAP4,intron_variant,,ENST00000476707,;CNTNAP4,intron_variant,,ENST00000478060,NM_138994.3;CNTNAP4,intron_variant,,ENST00000469589,;CNTNAP4,intron_variant,,ENST00000469667,;CNTNAP4,intron_variant,,ENST00000471618,;"	"TTCA"	"ENSG00000152910"	"ENST00000478060"	"Transcript"	"intron_variant"	"-/3708"	"-/3708"	"-/1235"	""	""	"rs10624210"	"1"	NA	1	"CNTNAP4"	"HGNC"	18747	"protein_coding"	"YES"	"CCDS10924.2"	"ENSP00000418741"	"Q9C0A0"	"H3BPC8"	"UPI000059D3C6"	"NM_138994.3"	NA	NA	""	"5/22"	""	"-:0.0144"	"TTCA:0.9501"	"TTCA:0.9971"	NA	"TTCA:0.999"	"TTCA:0.999"	"TTCA:0.998"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"9a6c742e-280f-11e6-b86a-fad3414a729f"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.608695652173913	"WXS"	FALSE
"3765"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	79449240	79449241	"+"	"IGR"	"INS"	"-"	"-"	"CAGG"	"rs137919902"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"."	4	15	"."	0	""	"CAGG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs137919902"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CAGG:0.4718"	"CAGG:0.115"	"CAGG:0.5749"	NA	"CAGG:0.8264"	"CAGG:0.4404"	"CAGG:0.5481"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"9a88e7b2-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WXS"	FALSE
"3766"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	80044099	80044103	"+"	"IGR"	"DEL"	"AGAGA"	"AGAGA"	"-"	"rs144273927"	NA	"JHCCPT5"	"JHCCPN5"	"AGAGA"	"AGAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144273927"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3502"	"-:0.1074"	"-:0.3746"	NA	"-:0.377"	"-:0.507"	"-:0.4724"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGAGAA"	"8db0cab4-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3767"	"PKD1L2"	114780	"mskcc.org"	"GRCh37"	"16"	81204804	81204805	"+"	"3'Flank"	"INS"	"-"	"-"	"TC"	"rs71942827"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000527937"	""	85	"."	3	42	"."	0	"PKD1L2,intron_variant,,ENST00000337114,NM_001076780.1;PKD1L2,intron_variant,,ENST00000526632,;PKD1L2,intron_variant,,ENST00000531391,NM_001278423.1;PKD1L2,downstream_gene_variant,,ENST00000527937,;PKD1L2,downstream_gene_variant,,ENST00000529791,;PKD1L2,intron_variant,,ENST00000299598,;PKD1L2,intron_variant,,ENST00000525539,NM_052892.3;PKD1L2,intron_variant,,ENST00000533478,NM_001278425.1;"	"TC"	"ENSG00000166473"	"ENST00000527937"	"Transcript"	"downstream_gene_variant"	"-/4165"	"-/723"	"-/240"	""	""	"rs71942827"	"1"	"15"	-1	"PKD1L2"	"HGNC"	21715	"protein_coding"	"YES"	""	"ENSP00000432818"	"Q7Z442"	""	"UPI00001C0DE3"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"9aae0092-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0352941176470588	"WXS"	FALSE
"3768"	"PLCG2"	5336	"mskcc.org"	"GRCh37"	"16"	81904375	81904376	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs66525407"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.565-77dupA"	""	""	"ENST00000359376"	""	91	"."	12	16	"."	0	"PLCG2,intron_variant,,ENST00000359376,NM_002661.3;PLCG2,downstream_gene_variant,,ENST00000565400,;PLCG2,downstream_gene_variant,,ENST00000569523,;PLCG2,intron_variant,,ENST00000567980,;PLCG2,intron_variant,,ENST00000569929,;"	"A"	"ENSG00000197943"	"ENST00000359376"	"Transcript"	"intron_variant"	"-/4308"	"-/3798"	"-/1265"	""	""	"rs66525407"	"1"	NA	1	"PLCG2"	"HGNC"	9066	"protein_coding"	"YES"	"CCDS42204.1"	"ENSP00000352336"	"P16885"	"H3BQV5"	"UPI00001411F7"	"NM_002661.3"	NA	NA	""	"6/32"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"9acb101a-280f-11e6-b86a-fad3414a729f"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131868131868132	"WXS"	FALSE
"3769"	"CDH13"	1012	"mskcc.org"	"GRCh37"	"16"	82882187	82882188	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.187-9780_187-9779delTG"	""	""	"ENST00000268613"	""	134	"."	5	54	"."	0	"CDH13,intron_variant,,ENST00000566620,NM_001257.4,NM_001220490.1,NM_001220489.1,NM_001220488.1;CDH13,intron_variant,,ENST00000268613,;CDH13,intron_variant,,ENST00000428848,;CDH13,intron_variant,,ENST00000567445,;CDH13,intron_variant,,ENST00000431540,NM_001220491.1;CDH13,intron_variant,,ENST00000565636,NM_001220492.1;CDH13,intron_variant,,ENST00000446376,;RN7SL134P,downstream_gene_variant,,ENST00000579756,;CDH13,intron_variant,,ENST00000539548,;CDH13,intron_variant,,ENST00000568770,;CDH13,intron_variant,,ENST00000566333,;CDH13,intron_variant,,ENST00000569144,;CDH13,intron_variant,,ENST00000562601,;"	"-"	"ENSG00000140945"	"ENST00000268613"	"Transcript"	"intron_variant"	"-/2722"	"-/2283"	"-/760"	""	""	""	"1"	NA	1	"CDH13"	"HGNC"	1753	"protein_coding"	"YES"	"CCDS58485.1"	"ENSP00000268613"	"P55290"	""	"UPI00020E71A6"	""	NA	NA	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGG"	"8e4f0990-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0373134328358209	"WXS"	FALSE
"3770"	"CDH13"	1012	"mskcc.org"	"GRCh37"	"16"	83541731	83541732	"+"	"Intron"	"INS"	"-"	"-"	"GAGGGAGGAAGGA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1101+21471_1101+21472insGAGGGAGGAAGGA"	""	""	"ENST00000268613"	""	22	"."	4	16	"."	0	"CDH13,intron_variant,,ENST00000566620,NM_001257.4,NM_001220490.1,NM_001220489.1,NM_001220488.1;CDH13,intron_variant,,ENST00000268613,;CDH13,intron_variant,,ENST00000428848,;MIR3182,upstream_gene_variant,,ENST00000580839,;CDH13,intron_variant,,ENST00000539548,;"	"GAGGGAGGAAGGA"	"ENSG00000140945"	"ENST00000268613"	"Transcript"	"intron_variant"	"-/2722"	"-/2283"	"-/760"	""	""	""	"1"	NA	1	"CDH13"	"HGNC"	1753	"protein_coding"	"YES"	"CCDS58485.1"	"ENSP00000268613"	"P55290"	""	"UPI00020E71A6"	""	NA	NA	""	"8/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"9ae214ea-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"3771"	"CDH13"	1012	"mskcc.org"	"GRCh37"	"16"	83775105	83775106	"+"	"Intron"	"INS"	"-"	"-"	"TATATG"	"rs142704908"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1680-6607_1680-6606insATATGT"	""	""	"ENST00000268613"	""	84	"."	10	14	"."	0	"CDH13,intron_variant,,ENST00000566620,NM_001257.4,NM_001220490.1,NM_001220489.1,NM_001220488.1;CDH13,intron_variant,,ENST00000268613,;CDH13,intron_variant,,ENST00000428848,;RP11-298D21.1,intron_variant,,ENST00000563981,;RP11-298D21.1,intron_variant,,ENST00000569165,;RP11-298D21.1,intron_variant,,ENST00000570056,;RP11-298D21.1,upstream_gene_variant,,ENST00000567860,;CDH13,intron_variant,,ENST00000539548,;"	"TATATG"	"ENSG00000140945"	"ENST00000268613"	"Transcript"	"intron_variant"	"-/2722"	"-/2283"	"-/760"	""	""	"rs142704908"	"1"	NA	1	"CDH13"	"HGNC"	1753	"protein_coding"	"YES"	"CCDS58485.1"	"ENSP00000268613"	"P55290"	""	"UPI00020E71A6"	""	NA	NA	""	"11/14"	""	"TATATG:0.2105"	"TATATG:0.1513"	"TATATG:0.2867"	NA	"TATATG:0.126"	"TATATG:0.3062"	"TATATG:0.2249"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"9aec5892-280f-11e6-b86a-fad3414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WXS"	FALSE
"3772"	"DNAAF1"	123872	"mskcc.org"	"GRCh37"	"16"	84199644	84199654	"+"	"Intron"	"DEL"	"TTTTTTTTTTT"	"TTTTTTTTTTT"	"-"	"rs367701523"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTTTTTTTT"	"TTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1030+105_1030+115delTTTTTTTTTTT"	""	""	"ENST00000378553"	""	16	"."	4	9	"."	0	"DNAAF1,intron_variant,,ENST00000378553,NM_178452.4;DNAAF1,intron_variant,,ENST00000334315,;DNAAF1,intron_variant,,ENST00000563818,;DNAAF1,intron_variant,,ENST00000567666,;DNAAF1,intron_variant,,ENST00000570298,;DNAAF1,intron_variant,,ENST00000563093,;"	"-"	"ENSG00000154099"	"ENST00000378553"	"Transcript"	"intron_variant"	"-/2379"	"-/2178"	"-/725"	""	""	"rs367701523"	"1"	NA	1	"DNAAF1"	"HGNC"	30539	"protein_coding"	"YES"	"CCDS10943.2"	"ENSP00000367815"	"Q8NEP3"	"H3BP51"	"UPI000059D3C9"	"NM_178452.4"	NA	NA	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"16"	""	"1"	"0.1458"	"0.08867"	"0.2085"	"0.142"	"0.19"	"0.2082"	"0.2245"	"0.1744"	"1"	"common_variant"	"AATTTTTTTTTTTT"	"8ead6850-280f-11e6-b86a-fad3414a729f"	"240"	0.1882	"11938/63426"	"14794/101458"	"393/4432"	"1230/5900"	"586/4128"	"778/4094"	"6802/32674"	"97/432"	"2052/11766"	"PASS"	"FALSE"	0.25	"WXS"	FALSE
"3773"	"DNAAF1"	123872	"mskcc.org"	"GRCh37"	"16"	84204257	84204258	"+"	"Intron"	"INS"	"-"	"-"	"AG"	"rs145759399"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1528+299_1528+300dupGA"	""	""	"ENST00000378553"	""	11	"."	5	5	"."	0	"DNAAF1,intron_variant,,ENST00000378553,NM_178452.4;DNAAF1,downstream_gene_variant,,ENST00000334315,;DNAAF1,intron_variant,,ENST00000563818,;DNAAF1,downstream_gene_variant,,ENST00000567666,;DNAAF1,intron_variant,,ENST00000570298,;DNAAF1,intron_variant,,ENST00000563093,;"	"AG"	"ENSG00000154099"	"ENST00000378553"	"Transcript"	"intron_variant"	"-/2379"	"-/2178"	"-/725"	""	""	"rs145759399"	"1"	NA	1	"DNAAF1"	"HGNC"	30539	"protein_coding"	"YES"	"CCDS10943.2"	"ENSP00000367815"	"Q8NEP3"	"H3BP51"	"UPI000059D3C9"	"NM_178452.4"	NA	NA	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"9b0ddf80-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"3774"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	84237278	84237279	"+"	"IGR"	"DEL"	"TG"	"TG"	"-"	"rs78817599"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	6	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs78817599"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0593"	"-:0.0635"	"-:0.0187"	NA	"-:0.1349"	"-:0.0318"	"-:0.0327"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTGT"	"8ecd0714-280f-11e6-b86a-fad3414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3775"	"TLDC1"	57707	"mskcc.org"	"GRCh37"	"16"	84520940	84520941	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs34336455"	NA	"JHCCPT5"	"JHCCPN5"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.530-276_530-275delAG"	""	""	"ENST00000343629"	""	14	"."	4	4	"."	0	"TLDC1,intron_variant,,ENST00000343629,NM_020947.3;TLDC1,intron_variant,,ENST00000535580,;TLDC1,downstream_gene_variant,,ENST00000565079,;TLDC1,downstream_gene_variant,,ENST00000561807,;TLDC1,non_coding_transcript_exon_variant,,ENST00000567321,;TLDC1,intron_variant,,ENST00000566995,;TLDC1,intron_variant,,ENST00000570036,;"	"-"	"ENSG00000140950"	"ENST00000343629"	"Transcript"	"intron_variant"	"-/3392"	"-/1371"	"-/456"	""	""	"rs34336455"	"1"	NA	-1	"TLDC1"	"HGNC"	29325	"protein_coding"	"YES"	"CCDS32498.1"	"ENSP00000343635"	"Q6P9B6"	"H3BUB0,H3BTC5,H3BQ13,B4DM09"	"UPI00001BBB2E"	"NM_020947.3"	NA	NA	""	"4/7"	""	"-:0.2242"	"-:0.1006"	"-:0.2781"	NA	"-:0.1022"	"-:0.494"	"-:0.2014"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCTG"	"8ee8ffc8-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3776"	"KLHL36"	79786	"mskcc.org"	"GRCh37"	"16"	84690289	84690290	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs35874869"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.64-178dupA"	""	""	"ENST00000564996"	""	23	"."	4	3	"."	0	"KLHL36,intron_variant,,ENST00000564996,NM_024731.2;KLHL36,intron_variant,,ENST00000258157,;KLHL36,intron_variant,,ENST00000567410,;KLHL36,intron_variant,,ENST00000565743,;KLHL36,intron_variant,,ENST00000569472,;KLHL36,upstream_gene_variant,,ENST00000325279,;KLHL36,upstream_gene_variant,,ENST00000564159,;"	"A"	"ENSG00000135686"	"ENST00000564996"	"Transcript"	"intron_variant"	"-/2173"	"-/1851"	"-/616"	""	""	"rs35874869"	"1"	NA	1	"KLHL36"	"HGNC"	17844	"protein_coding"	"YES"	"CCDS10948.1"	"ENSP00000456743"	"Q8N4N3"	"H3BQW5,H3BQE9,H3BPB9"	"UPI000006F9CF"	"NM_024731.2"	NA	NA	""	"2/4"	""	"A:0.3093"	"A:0.3116"	"A:0.2032"	NA	"A:0.3968"	"A:0.2107"	"A:0.3926"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"9b232bd8-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"3777"	"CRISPLD2"	83716	"mskcc.org"	"GRCh37"	"16"	84883327	84883328	"+"	"Intron"	"INS"	"-"	"-"	"TT"	"rs10627256"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.492+211_492+212dupTT"	""	""	"ENST00000262424"	""	32	"."	4	22	"."	0	"CRISPLD2,intron_variant,,ENST00000262424,NM_031476.3;CRISPLD2,intron_variant,,ENST00000567845,;CRISPLD2,intron_variant,,ENST00000564567,;CRISPLD2,intron_variant,,ENST00000563066,;CRISPLD2,intron_variant,,ENST00000566789,;CRISPLD2,downstream_gene_variant,,ENST00000569090,;AC025280.1,upstream_gene_variant,,ENST00000584136,;CRISPLD2,intron_variant,,ENST00000566431,;CRISPLD2,intron_variant,,ENST00000569262,;"	"TT"	"ENSG00000103196"	"ENST00000262424"	"Transcript"	"intron_variant"	"-/4584"	"-/1494"	"-/497"	""	""	"rs10627256"	"1"	NA	1	"CRISPLD2"	"HGNC"	25248	"protein_coding"	"YES"	"CCDS10949.1"	"ENSP00000262424"	"Q9H0B8"	"H3BTP0,H3BSZ9,H3BS62"	"UPI00000411B0"	"NM_031476.3"	NA	NA	""	"4/14"	""	"-:0.3077"	"TT:0.5651"	"TT:0.6758"	NA	"TT:0.7897"	"TT:0.7336"	"TT:0.7331"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"9b2fab10-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"3778"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	85306263	85306276	"+"	"IGR"	"DEL"	"GTGCTGGGGGCTTG"	"GTGCTGGGGGCTTG"	"-"	"rs139304011"	NA	"JHCCPT5"	"JHCCPN5"	"GTGCTGGGGGCTTG"	"GTGCTGGGGGCTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139304011"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0431"	"-:0.0499"	"-:0.0303"	NA	"-:0.0159"	"-:0.0656"	"-:0.0481"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGTGCTGGGGGCTTGG"	"8f1e43c2-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3779"	"MIR5093"	100847022	"mskcc.org"	"GRCh37"	"16"	85336054	85336055	"+"	"3'Flank"	"INS"	"-"	"-"	"C"	"rs141484739"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000583199"	""	7	"."	4	2	"."	0	"MIR5093,downstream_gene_variant,,ENST00000583199,;"	"C"	"ENSG00000266307"	"ENST00000583199"	"Transcript"	"downstream_gene_variant"	"-/100"	""	""	""	""	"rs141484739"	"1"	"3777"	-1	"MIR5093"	"HGNC"	43474	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"9b377a98-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3780"	"IRF8"	3394	"mskcc.org"	"GRCh37"	"16"	85936389	85936390	"+"	"Intron"	"INS"	"-"	"-"	"GGTGGCTGCA"	"rs144009594"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1-228_-1-219dupGGCTGCAGGT"	""	""	"ENST00000268638"	""	11	"."	4	1	"."	0	"IRF8,5_prime_UTR_variant,,ENST00000563180,;IRF8,intron_variant,,ENST00000268638,NM_002163.2;IRF8,intron_variant,,ENST00000565552,;IRF8,upstream_gene_variant,,ENST00000564803,;IRF8,upstream_gene_variant,,ENST00000564617,;IRF8,intron_variant,,ENST00000570088,;IRF8,upstream_gene_variant,,ENST00000564056,;"	"GGTGGCTGCA"	"ENSG00000140968"	"ENST00000268638"	"Transcript"	"intron_variant"	"-/3030"	"-/1281"	"-/426"	""	""	"rs144009594"	"1"	NA	1	"IRF8"	"HGNC"	5358	"protein_coding"	"YES"	"CCDS10956.1"	"ENSP00000268638"	"Q02556"	"H3BT31,H3BRT4,H3BQK3,H3BQH6,H3BPS5"	"UPI000012D188"	"NM_002163.2"	NA	NA	""	"1/8"	""	"-:0.3488"	"GGTGGCTGCA:0.8608"	"GGTGGCTGCA:0.6527"	NA	"GGTGGCTGCA:0.7411"	"GGTGGCTGCA:0.4374"	"GGTGGCTGCA:0.4939"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"13"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"9b600bc0-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3781"	"ENSR00001670922"	0	"mskcc.org"	"GRCh37"	"16"	86417349	86417350	"+"	"IGR"	"INS"	"-"	"-"	"GAAGGAAGCAAGGAAGGAAAGGAA"	"rs368670909"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001670922"	""	21	"."	4	13	"."	0	""	"GAAGGAAGCAAGGAAGGAAAGGAA"	""	"ENSR00001670922"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs368670909"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"9b669b0c-280f-11e6-b86a-fad3414a729f"	"237"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"3782"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	86911215	86911220	"+"	"IGR"	"DEL"	"TCTGTC"	"TCTGTC"	"-"	"rs67369784"	NA	"JHCCPT5"	"JHCCPN5"	"TCTGTC"	"TCTGTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs67369784"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1314"	"-:0.3033"	"-:0.1081"	NA	"-:0"	"-:0.1272"	"-:0.0552"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATCTGTCT"	"8f48d7e0-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3783"	"ENSR00001671384"	0	"mskcc.org"	"GRCh37"	"16"	88470582	88470583	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs34676872"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001671384"	""	9	"."	4	4	"."	0	""	"C"	""	"ENSR00001671384"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs34676872"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.2700"	"C:0.2602"	"C:0.3112"	NA	"C:0.1637"	"C:0.3757"	"C:0.2546"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"9bac33b0-280f-11e6-b86a-fad3414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3784"	"CBFA2T3"	863	"mskcc.org"	"GRCh37"	"16"	88995688	88995688	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs34114295"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.152-27624delT"	""	""	"ENST00000268679"	""	8	"."	5	1	"."	0	"CBFA2T3,intron_variant,,ENST00000268679,NM_005187.5;CBFA2T3,intron_variant,,ENST00000360302,;CBFA2T3,intron_variant,,ENST00000436887,;CBFA2T3,intron_variant,,ENST00000448839,;CBFA2T3,intron_variant,,ENST00000327483,NM_175931.2;CBFA2T3,intron_variant,,ENST00000569464,;CBFA2T3,intron_variant,,ENST00000563640,;CBFA2T3,intron_variant,,ENST00000569443,;CBFA2T3,intron_variant,,ENST00000564416,;CBFA2T3,intron_variant,,ENST00000570046,;"	"-"	"ENSG00000129993"	"ENST00000268679"	"Transcript"	"intron_variant"	"-/4477"	"-/1962"	"-/653"	""	""	"rs34114295"	"1"	NA	-1	"CBFA2T3"	"HGNC"	1537	"protein_coding"	"YES"	"CCDS10972.1"	"ENSP00000268679"	"O75081"	"H3BSI4,H3BR72,H3BMZ0,B3KR45"	"UPI0000167F93"	"NM_005187.5"	NA	NA	""	"1/11"	""	"-:0.3824"	"-:0.5643"	"-:0.3401"	NA	"-:0.2321"	"-:0.3718"	"-:0.3323"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCAA"	"8ff59ff2-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	TRUE
"3785"	"SPG7"	6687	"mskcc.org"	"GRCh37"	"16"	89603698	89603699	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs3833827"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1324+4654_1324+4655insT"	""	""	"ENST00000268704"	""	8	"."	5	3	"."	0	"SPG7,3_prime_UTR_variant,,ENST00000341316,NM_199367.1;SPG7,intron_variant,,ENST00000268704,NM_003119.2;RNU7-117P,upstream_gene_variant,,ENST00000516770,;SPG7,intron_variant,,ENST00000563218,;SPG7,intron_variant,,ENST00000561945,;SPG7,downstream_gene_variant,,ENST00000564409,;SPG7,downstream_gene_variant,,ENST00000567138,;"	"T"	"ENSG00000197912"	"ENST00000268704"	"Transcript"	"intron_variant"	"-/3076"	"-/2388"	"-/795"	""	""	"rs3833827"	"1"	NA	1	"SPG7"	"HGNC"	11237	"protein_coding"	"YES"	"CCDS10977.1"	"ENSP00000268704"	"Q9UQ90"	""	"UPI0000031FAA"	"NM_003119.2"	NA	NA	""	"9/16"	""	"T:0.4359"	"T:0.4554"	"T:0.5043"	NA	"T:0.3105"	"T:0.5099"	"T:0.4141"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"9c403fd8-280f-11e6-b86a-fad3414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"3786"	"SPG7"	6687	"mskcc.org"	"GRCh37"	"16"	89612992	89612992	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1450-74delA"	""	""	"ENST00000268704"	""	147	"."	3	81	"."	0	"SPG7,intron_variant,,ENST00000268704,NM_003119.2;SPG7,intron_variant,,ENST00000569820,;SPG7,intron_variant,,ENST00000566221,;SPG7,intron_variant,,ENST00000563218,;SPG7,upstream_gene_variant,,ENST00000561702,;SPG7,upstream_gene_variant,,ENST00000561911,;SPG7,upstream_gene_variant,,ENST00000565370,;SPG7,upstream_gene_variant,,ENST00000568205,;SPG7,downstream_gene_variant,,ENST00000561945,;"	"-"	"ENSG00000197912"	"ENST00000268704"	"Transcript"	"intron_variant"	"-/3076"	"-/2388"	"-/795"	""	""	""	"1"	NA	1	"SPG7"	"HGNC"	11237	"protein_coding"	"YES"	"CCDS10977.1"	"ENSP00000268704"	"Q9UQ90"	""	"UPI0000031FAA"	"NM_003119.2"	NA	NA	""	"10/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCAC"	"9029d4d4-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0204081632653061	"WXS"	FALSE
"3787"	"SPG7"	6687	"mskcc.org"	"GRCh37"	"16"	89623990	89623991	"+"	"3'UTR"	"INS"	"-"	"-"	"CACA"	"rs112302524"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*491_*492insCACA"	""	""	"ENST00000268704"	"17/17"	9	"."	3	3	"."	0	"SPG7,3_prime_UTR_variant,,ENST00000268704,NM_003119.2;RPL13,upstream_gene_variant,,ENST00000393099,NM_033251.2;RPL13,upstream_gene_variant,,ENST00000311528,NM_001243130.1,NM_000977.3;RPL13,upstream_gene_variant,,ENST00000452368,NM_001243131.1;SPG7,downstream_gene_variant,,ENST00000566682,;RPL13,upstream_gene_variant,,ENST00000567815,;RPL13,upstream_gene_variant,,ENST00000472354,;RPL13,upstream_gene_variant,,ENST00000563270,;RPL13,upstream_gene_variant,,ENST00000467736,;SNORD68,upstream_gene_variant,,ENST00000363214,;SPG7,downstream_gene_variant,,ENST00000565891,;SPG7,3_prime_UTR_variant,,ENST00000569820,;SPG7,non_coding_transcript_exon_variant,,ENST00000561702,;RPL13,upstream_gene_variant,,ENST00000563749,;SPG7,downstream_gene_variant,,ENST00000561911,;RPL13,upstream_gene_variant,,ENST00000562879,;RPL13,upstream_gene_variant,,ENST00000484610,;SPG7,downstream_gene_variant,,ENST00000569720,;RPL13,upstream_gene_variant,,ENST00000399461,;SPG7,downstream_gene_variant,,ENST00000566221,;RPL13,upstream_gene_variant,,ENST00000491523,;SPG7,downstream_gene_variant,,ENST00000565370,;RPL13,upstream_gene_variant,,ENST00000487034,;RPL13,upstream_gene_variant,,ENST00000565571,;SPG7,downstream_gene_variant,,ENST00000568205,;RPL13,upstream_gene_variant,,ENST00000570149,;"	"CACA"	"ENSG00000197912"	"ENST00000268704"	"Transcript"	"3_prime_UTR_variant"	"2892-2893/3076"	"-/2388"	"-/795"	""	""	"rs112302524"	"1"	NA	1	"SPG7"	"HGNC"	11237	"protein_coding"	"YES"	"CCDS10977.1"	"ENSP00000268704"	"Q9UQ90"	""	"UPI0000031FAA"	"NM_003119.2"	NA	NA	"17/17"	""	""	"CACA:0.2037"	"CACA:0.3419"	"CACA:0.1369"	NA	"CACA:0.1339"	"CACA:0.169"	"CACA:0.1718"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"9c41fd0a-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3788"	"CPNE7"	27132	"mskcc.org"	"GRCh37"	"16"	89645167	89645169	"+"	"Intron"	"DEL"	"CAA"	"CAA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CAA"	"CAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.358-98_358-96delCAA"	""	""	"ENST00000268720"	""	52	"."	3	11	"."	0	"CPNE7,intron_variant,,ENST00000268720,NM_014427.4;CPNE7,intron_variant,,ENST00000319518,NM_153636.2;CPNE7,intron_variant,,ENST00000525982,;"	"-"	"ENSG00000178773"	"ENST00000268720"	"Transcript"	"intron_variant"	"-/2657"	"-/1902"	"-/633"	""	""	""	"1"	NA	1	"CPNE7"	"HGNC"	2320	"protein_coding"	"YES"	"CCDS10980.1"	"ENSP00000268720"	"Q9UBL6"	""	"UPI0000127C17"	"NM_014427.4"	NA	NA	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCAAA"	"9030f9bc-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0576923076923077	"WXS"	FALSE
"3789"	"DPEP1"	1800	"mskcc.org"	"GRCh37"	"16"	89701385	89701433	"+"	"Intron"	"DEL"	"CCCTTCCTTCTCCTTTCCCTTCCTTCTCCTTTCCCTTCCTTCTCCTTTC"	"CCCTTCCTTCTCCTTTCCCTTCCTTCTCCTTTCCCTTCCTTCTCCTTTC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CCCTTCCTTCTCCTTTCCCTTCCTTCTCCTTTCCCTTCCTTCTCCTTTC"	"CCCTTCCTTCTCCTTTCCCTTCCTTCTCCTTTCCCTTCCTTCTCCTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.105-921_105-873delTCCTTTCCCTTCCTTCTCCTTTCCCTTCCTTCTCCTTTCCCCTTCCTTC"	""	""	"ENST00000393092"	""	68	"."	5	30	"."	0	"DPEP1,intron_variant,,ENST00000393092,NM_004413.3;DPEP1,intron_variant,,ENST00000421184,NM_001128141.2;DPEP1,intron_variant,,ENST00000261615,;DPEP1,intron_variant,,ENST00000570029,;DPEP1,intron_variant,,ENST00000568281,;DPEP1,intron_variant,,ENST00000564281,;DPEP1,intron_variant,,ENST00000565249,;DPEP1,intron_variant,,ENST00000561484,;DPEP1,upstream_gene_variant,,ENST00000564645,;"	"-"	"ENSG00000015413"	"ENST00000393092"	"Transcript"	"intron_variant"	"-/1734"	"-/1236"	"-/411"	""	""	""	"1"	NA	1	"DPEP1"	"HGNC"	3002	"protein_coding"	"YES"	"CCDS10982.1"	"ENSP00000376807"	"P16444"	"H3BQS5,H3BP43"	"UPI000006DF95"	"NM_004413.3"	NA	NA	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCCCTTCCTTCTCCTTTCCCTTCCTTCTCCTTTCCCTTCCTTCTCCTTTCC"	"903e42ac-280f-11e6-b86a-fad3414a729f"	"78"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0735294117647059	"WXS"	FALSE
"3790"	"VPS9D1"	9605	"mskcc.org"	"GRCh37"	"16"	89775429	89775430	"+"	"Intron"	"INS"	"-"	"-"	"CCCG"	"rs143353176"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1598-69_1598-66dupCGGG"	""	""	"ENST00000389386"	""	13	"."	3	5	"."	0	"VPS9D1,intron_variant,,ENST00000561976,;VPS9D1,intron_variant,,ENST00000389386,NM_004913.2;VPS9D1,intron_variant,,ENST00000565023,;VPS9D1-AS1,upstream_gene_variant,,ENST00000562866,;VPS9D1,downstream_gene_variant,,ENST00000565452,;VPS9D1,downstream_gene_variant,,ENST00000568691,;VPS9D1,downstream_gene_variant,,ENST00000567379,;VPS9D1,downstream_gene_variant,,ENST00000563798,;"	"CCCG"	"ENSG00000075399"	"ENST00000389386"	"Transcript"	"intron_variant"	"-/2748"	"-/1896"	"-/631"	""	""	"rs143353176"	"1"	NA	-1	"VPS9D1"	"HGNC"	13526	"protein_coding"	"YES"	"CCDS42220.1"	"ENSP00000374037"	"Q9Y2B5"	"H3BM58"	"UPI00001FF749"	"NM_004913.2"	NA	NA	""	"12/14"	""	"-:0.1116"	"CCCG:0.6853"	"CCCG:0.9582"	NA	"CCCG:0.9127"	"CCCG:0.9901"	"CCCG:0.9836"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"9c4bb520-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"3791"	"FANCA"	2175	"mskcc.org"	"GRCh37"	"16"	89874478	89874485	"+"	"Intron"	"DEL"	"GACAAAAA"	"GACAAAAA"	"CAAAAAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GACAAAAA"	"GACAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.596+222_596+224delGTCinsTG"	""	""	"ENST00000389301"	""	25	"."	3	5	"."	0	"FANCA,intron_variant,,ENST00000389301,NM_000135.2;FANCA,intron_variant,,ENST00000568369,NM_001286167.1;FANCA,intron_variant,,ENST00000563673,;FANCA,intron_variant,,ENST00000389302,NM_001018112.1;FANCA,intron_variant,,ENST00000534992,;FANCA,intron_variant,,ENST00000543736,;FANCA,intron_variant,,ENST00000566889,;FANCA,intron_variant,,ENST00000565582,;FANCA,intron_variant,,ENST00000567621,;FANCA,downstream_gene_variant,,ENST00000567943,;FANCA,downstream_gene_variant,,ENST00000567883,;FANCA,downstream_gene_variant,,ENST00000563513,;"	"CA"	"ENSG00000187741"	"ENST00000389301"	"Transcript"	"intron_variant"	"-/5451"	"-/4368"	"-/1455"	""	""	""	"1"	NA	-1	"FANCA"	"HGNC"	3582	"protein_coding"	"YES"	"CCDS32515.1"	"ENSP00000373952"	"O15360"	"H3BT53"	"UPI0000520A1A"	"NM_000135.2"	NA	NA	""	"6/42"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAGACAAAAAG"	"911d8e4e-280f-11e6-b86a-fad3414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WXS"	TRUE
"3792"	"RPH3AL"	9501	"mskcc.org"	"GRCh37"	"17"	185813	185874	"+"	"Intron"	"DEL"	"AGGGCGACAGGGAGGAGATGGGGTTTAGAGGAGGGAAAAGAAGCTGGGACAAACATAAAAGA"	"AGGGCGACAGGGAGGAGATGGGGTTTAGAGGAGGGAAAAGAAGCTGGGACAAACATAAAAGA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AGGGCGACAGGGAGGAGATGGGGTTTAGAGGAGGGAAAAGAAGCTGGGACAAACATAAAAGA"	"AGGGCGACAGGGAGGAGATGGGGTTTAGAGGAGGGAAAAGAAGCTGGGACAAACATAAAAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-212-2149_-212-2088delTCTTTTATGTTTGTCCCAGCTTCTTTTCCCTCCTCTAAACCCCATCTCCTCCCTGTCGCCCT"	""	""	"ENST00000331302"	""	8	"."	4	1	"."	0	"RPH3AL,intron_variant,,ENST00000323434,NM_001190412.1;RPH3AL,intron_variant,,ENST00000331302,NM_006987.3,NM_001190411.1;RPH3AL,intron_variant,,ENST00000536489,NM_001190413.1;RPH3AL,intron_variant,,ENST00000576420,;RPH3AL,intron_variant,,ENST00000577079,;RPH3AL,intron_variant,,ENST00000575130,;RPH3AL,intron_variant,,ENST00000575634,;RPH3AL,intron_variant,,ENST00000575736,;RPH3AL,intron_variant,,ENST00000570638,;RPH3AL,intron_variant,,ENST00000573780,;RPH3AL,intron_variant,,ENST00000573448,;RPH3AL,upstream_gene_variant,,ENST00000573588,;RPH3AL,upstream_gene_variant,,ENST00000574722,;RP11-1260E13.4,downstream_gene_variant,,ENST00000570711,;RP11-1260E13.4,downstream_gene_variant,,ENST00000573601,;RPH3AL,non_coding_transcript_exon_variant,,ENST00000574011,;RP11-1260E13.4,downstream_gene_variant,,ENST00000575743,;RP11-1260E13.4,downstream_gene_variant,,ENST00000575899,;"	"-"	"ENSG00000181031"	"ENST00000331302"	"Transcript"	"intron_variant"	"-/2606"	"-/948"	"-/315"	""	""	""	"1"	NA	-1	"RPH3AL"	"HGNC"	10296	"protein_coding"	"YES"	"CCDS10994.1"	"ENSP00000328977"	"Q9UNE2"	"I3NI49,I3L3M9,I3L349,I3L308,I3L2X0,I3L2W0,I3L2N0,I3L1Q0,I3L181"	"UPI000006FBCB"	"NM_006987.3,NM_001190411.1"	NA	NA	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAGGGCGACAGGGAGGAGATGGGGTTTAGAGGAGGGAAAAGAAGCTGGGACAAACATAAAAGAA"	"64972cfe-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3793"	"RPH3AL"	9501	"mskcc.org"	"GRCh37"	"17"	239796	239796	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"rs34118587"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000575130"	""	7	"."	4	1	"."	0	"RPH3AL,upstream_gene_variant,,ENST00000575130,;RPH3AL,upstream_gene_variant,,ENST00000573780,;"	"-"	"ENSG00000181031"	"ENST00000575130"	"Transcript"	"upstream_gene_variant"	"-/579"	"-/330"	"-/110"	""	""	"rs34118587"	"1"	"3772"	-1	"RPH3AL"	"HGNC"	10296	"protein_coding"	""	""	"ENSP00000460171"	""	"I3NI49,I3L349,I3L2W0,I3L181"	"UPI00025A2D6D"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGG"	"64a2d950-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3794"	"GLOD4"	51031	"mskcc.org"	"GRCh37"	"17"	681631	681631	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34763747"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.140+304delA"	""	""	"ENST00000301329"	""	6	"."	3	3	"."	0	"GLOD4,intron_variant,,ENST00000301329,NM_016080.3;GLOD4,intron_variant,,ENST00000301328,;GLOD4,intron_variant,,ENST00000536578,;GLOD4,intron_variant,,ENST00000576419,;RNMTL1,upstream_gene_variant,,ENST00000304478,NM_018146.2;RNMTL1,upstream_gene_variant,,ENST00000571157,;GLOD4,non_coding_transcript_exon_variant,,ENST00000574354,;GLOD4,intron_variant,,ENST00000576239,;GLOD4,intron_variant,,ENST00000574554,;GLOD4,intron_variant,,ENST00000575851,;GLOD4,intron_variant,,ENST00000575790,;GLOD4,intron_variant,,ENST00000574581,;GLOD4,intron_variant,,ENST00000576670,;GLOD4,intron_variant,,ENST00000572220,;GLOD4,upstream_gene_variant,,ENST00000571073,;RNMTL1,upstream_gene_variant,,ENST00000574916,;RNMTL1,upstream_gene_variant,,ENST00000574509,;GLOD4,downstream_gene_variant,,ENST00000576750,;"	"-"	"ENSG00000167699"	"ENST00000301329"	"Transcript"	"intron_variant"	"-/2059"	"-/897"	"-/298"	""	""	"rs34763747"	"1"	NA	-1	"GLOD4"	"HGNC"	14111	"protein_coding"	"YES"	"CCDS32520.1"	"ENSP00000301329"	"Q9HC38"	"B4DX01,B3KV49"	"UPI000003CA3C"	"NM_016080.3"	NA	NA	""	"2/8"	""	"-:0.2292"	"-:0.0658"	"-:0.2637"	NA	"-:0.0962"	"-:0.4394"	"-:0.3466"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTG"	"64d8b502-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3795"	"ABR"	29	"mskcc.org"	"GRCh37"	"17"	960549	960580	"+"	"Intron"	"DEL"	"TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTG"	"TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTG"	"-"	"rs764443936"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTG"	"TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1382-238_1382-207delCACACACACACACACACACACACACACACACA"	""	""	"ENST00000302538"	""	25	"."	5	7	"."	0	"ABR,intron_variant,,ENST00000544583,NM_001159746.2;ABR,intron_variant,,ENST00000302538,NM_021962.3,NM_001282149.1;ABR,intron_variant,,ENST00000574437,;ABR,intron_variant,,ENST00000291107,NM_001092.4;ABR,intron_variant,,ENST00000536794,;ABR,intron_variant,,ENST00000574544,;ABR,intron_variant,,ENST00000573895,;ABR,intron_variant,,ENST00000575770,;ABR,intron_variant,,ENST00000576964,;"	"-"	"ENSG00000159842"	"ENST00000302538"	"Transcript"	"intron_variant"	"-/5289"	"-/2580"	"-/859"	""	""	"rs764443936"	"1"	NA	-1	"ABR"	"HGNC"	81	"protein_coding"	"YES"	"CCDS10999.1"	"ENSP00000303909"	"Q12979"	"I3L4Y1,I3L2P5,I3L2L3,I3L259,B7Z2X0"	"UPI00001AED3D"	"NM_021962.3,NM_001282149.1"	NA	NA	""	"12/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT"	"64f54082-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"3796"	"RP11-64J4.2"	0	"mskcc.org"	"GRCh37"	"17"	3290211	3290212	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs570794904"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000573491"	""	6	"."	4	3	"."	0	"RP11-64J4.2,upstream_gene_variant,,ENST00000573491,;RP11-64J4.2,upstream_gene_variant,,ENST00000573901,;RP11-64J4.2,upstream_gene_variant,,ENST00000576166,;OR1R1P,downstream_gene_variant,,ENST00000572493,;OR1R1P,downstream_gene_variant,,ENST00000322899,;"	"A"	"ENSG00000262670"	"ENST00000573491"	"Transcript"	"upstream_gene_variant"	"-/586"	""	""	""	""	"rs570794904"	"1"	"624"	-1	"RP11-64J4.2"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4675"	"A:0.3616"	"A:0.6297"	NA	"A:0.4752"	"A:0.4006"	"A:0.5562"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"89d258e0-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3797"	"ATP2A3"	489	"mskcc.org"	"GRCh37"	"17"	3846565	3846565	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1419+120delG"	""	""	"ENST00000359983"	""	94	"."	3	19	"."	0	"ATP2A3,intron_variant,,ENST00000309890,NM_174954.2,NM_174953.2,NM_174955.2,NM_174956.2;ATP2A3,intron_variant,,ENST00000397041,NM_005173.3,NM_174957.2;ATP2A3,intron_variant,,ENST00000397035,NM_174958.2;ATP2A3,intron_variant,,ENST00000397039,;ATP2A3,intron_variant,,ENST00000359983,;ATP2A3,intron_variant,,ENST00000352011,;ATP2A3,intron_variant,,ENST00000397043,;ATP2A3,intron_variant,,ENST00000572694,;"	"-"	"ENSG00000074370"	"ENST00000359983"	"Transcript"	"intron_variant"	"-/3290"	"-/3159"	"-/1052"	""	""	""	"1"	NA	-1	"ATP2A3"	"HGNC"	813	"protein_coding"	"YES"	"CCDS11042.1"	"ENSP00000353072"	"Q93084"	""	"UPI0000161584"	""	NA	NA	""	"11/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCA"	"667d9684-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0319148936170213	"WXS"	FALSE
"3798"	"ZZEF1"	23140	"mskcc.org"	"GRCh37"	"17"	3985123	3985124	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs35979196"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2715-340_2715-339delAT"	""	""	"ENST00000381638"	""	6	"."	4	3	"."	0	"ZZEF1,intron_variant,,ENST00000381638,NM_015113.3;ZZEF1,intron_variant,,ENST00000574474,;"	"-"	"ENSG00000074755"	"ENST00000381638"	"Transcript"	"intron_variant"	"-/11456"	"-/8886"	"-/2961"	""	""	"rs35979196"	"1"	NA	-1	"ZZEF1"	"HGNC"	29027	"protein_coding"	"YES"	"CCDS11043.1"	"ENSP00000371051"	"O43149"	""	"UPI00004569F7"	"NM_015113.3"	NA	NA	""	"17/54"	""	"-:0.1645"	"-:0.1384"	"-:0.1484"	NA	"-:0.1845"	"-:0.1789"	"-:0.1759"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATG"	"66a60754-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3799"	"MINK1"	50488	"mskcc.org"	"GRCh37"	"17"	4794495	4794496	"+"	"Intron"	"INS"	"-"	"-"	"CACACACA"	"rs781594150"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1740+94_1740+101dupACACACAC"	""	""	"ENST00000355280"	""	40	"."	4	21	"."	0	"MINK1,intron_variant,,ENST00000355280,NM_001024937.3,NM_015716.4,NM_153827.4;MINK1,intron_variant,,ENST00000347992,NM_170663.4;MINK1,intron_variant,,ENST00000453408,;MINK1,intron_variant,,ENST00000572330,;MINK1,intron_variant,,ENST00000574453,;MINK1,intron_variant,,ENST00000571207,;MINK1,upstream_gene_variant,,ENST00000574871,;MINK1,upstream_gene_variant,,ENST00000572629,;MINK1,upstream_gene_variant,,ENST00000575511,;MINK1,upstream_gene_variant,,ENST00000572304,;MINK1,upstream_gene_variant,,ENST00000571526,;"	"CACACACA"	"ENSG00000141503"	"ENST00000355280"	"Transcript"	"intron_variant"	"-/4961"	"-/3999"	"-/1332"	""	""	"rs781594150"	"1"	NA	1	"MINK1"	"HGNC"	17565	"protein_coding"	"YES"	"CCDS45588.1"	"ENSP00000347427"	"Q8N4C8"	"Q9HBM9,Q8NG69"	"UPI00001678BB"	"NM_001024937.3,NM_015716.4,NM_153827.4"	NA	NA	""	"15/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"25"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"8a99b624-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WXS"	FALSE
"3800"	"MINK1"	50488	"mskcc.org"	"GRCh37"	"17"	4794495	4794496	"+"	"Intron"	"INS"	"-"	"-"	"CACACACACA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1740+92_1740+101dupACACACACAC"	""	""	"ENST00000355280"	""	40	"."	6	21	"."	0	"MINK1,intron_variant,,ENST00000355280,NM_001024937.3,NM_015716.4,NM_153827.4;MINK1,intron_variant,,ENST00000347992,NM_170663.4;MINK1,intron_variant,,ENST00000453408,;MINK1,intron_variant,,ENST00000572330,;MINK1,intron_variant,,ENST00000574453,;MINK1,intron_variant,,ENST00000571207,;MINK1,upstream_gene_variant,,ENST00000574871,;MINK1,upstream_gene_variant,,ENST00000572629,;MINK1,upstream_gene_variant,,ENST00000575511,;MINK1,upstream_gene_variant,,ENST00000572304,;MINK1,upstream_gene_variant,,ENST00000571526,;"	"CACACACACA"	"ENSG00000141503"	"ENST00000355280"	"Transcript"	"intron_variant"	"-/4961"	"-/3999"	"-/1332"	""	""	""	"1"	NA	1	"MINK1"	"HGNC"	17565	"protein_coding"	"YES"	"CCDS45588.1"	"ENSP00000347427"	"Q8N4C8"	"Q9HBM9,Q8NG69"	"UPI00001678BB"	"NM_001024937.3,NM_015716.4,NM_153827.4"	NA	NA	""	"15/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"25"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"8aac575c-280f-11e6-9a6e-06d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"3801"	"RABEP1"	9135	"mskcc.org"	"GRCh37"	"17"	5192472	5192473	"+"	"Intron"	"INS"	"-"	"-"	"TCT"	"rs140495716"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.34+6660_34+6662dupTTC"	""	""	"ENST00000262477"	""	12	"."	6	3	"."	0	"RABEP1,intron_variant,,ENST00000262477,NM_004703.4;RABEP1,intron_variant,,ENST00000408982,NM_001083585.1;RABEP1,intron_variant,,ENST00000546142,;RABEP1,intron_variant,,ENST00000537505,;RABEP1,intron_variant,,ENST00000341923,;RABEP1,intron_variant,,ENST00000575991,;RABEP1,intron_variant,,ENST00000575475,;"	"TCT"	"ENSG00000029725"	"ENST00000262477"	"Transcript"	"intron_variant"	"-/5387"	"-/2589"	"-/862"	""	""	"rs140495716"	"1"	NA	1	"RABEP1"	"HGNC"	17677	"protein_coding"	"YES"	"CCDS45592.1"	"ENSP00000262477"	"Q15276"	""	"UPI00000745A5"	"NM_004703.4"	NA	NA	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"8acd8c2e-280f-11e6-9a6e-06d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	TRUE
"3802"	"NLRP1"	22861	"mskcc.org"	"GRCh37"	"17"	5415140	5415141	"+"	"3'Flank"	"DEL"	"CT"	"CT"	"-"	"rs58990079"	NA	"JHCCPT5"	"JHCCPN5"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000572272"	""	33	"."	8	13	"."	0	"NLRP1,intron_variant,,ENST00000262467,NM_001033053.2;NLRP1,downstream_gene_variant,,ENST00000345221,NM_033004.3,NM_014922.4,NM_033007.3;NLRP1,downstream_gene_variant,,ENST00000269280,;NLRP1,downstream_gene_variant,,ENST00000572272,;NLRP1,downstream_gene_variant,,ENST00000354411,NM_033006.3;NLRP1,downstream_gene_variant,,ENST00000577119,;RNU7-31P,downstream_gene_variant,,ENST00000517262,;NLRP1,intron_variant,,ENST00000544378,;NLRP1,intron_variant,,ENST00000574512,;NLRP1,downstream_gene_variant,,ENST00000571451,;"	"-"	"ENSG00000091592"	"ENST00000572272"	"Transcript"	"downstream_gene_variant"	"-/4422"	"-/4422"	"-/1473"	""	""	"rs58990079"	"1"	"2933"	-1	"NLRP1"	"HGNC"	14374	"protein_coding"	"YES"	"CCDS42246.1"	"ENSP00000460475"	"Q9C000"	"I3L2G5,I3L0S2"	"UPI0000038309"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCCTC"	"6898657a-280f-11e6-9a6e-06d4414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242424242424242	"WXS"	FALSE
"3803"	"KIAA0753"	9851	"mskcc.org"	"GRCh37"	"17"	6527856	6527857	"+"	"Intron"	"INS"	"-"	"-"	"CACACACACA"	"rs71383417"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.825+209_825+218dupTGTGTGTGTG"	""	""	"ENST00000361413"	""	50	"."	5	21	"."	0	"KIAA0753,intron_variant,,ENST00000361413,NM_014804.2;KIAA0753,intron_variant,,ENST00000542606,;KIAA0753,intron_variant,,ENST00000572370,;KIAA0753,upstream_gene_variant,,ENST00000589033,;KIAA0753,downstream_gene_variant,,ENST00000573033,;KIAA0753,downstream_gene_variant,,ENST00000571642,;KIAA0753,intron_variant,,ENST00000576823,;KIAA0753,intron_variant,,ENST00000570790,;KIAA0753,intron_variant,,ENST00000572235,;KIAA0753,upstream_gene_variant,,ENST00000542826,;"	"CACACACACA"	"ENSG00000198920"	"ENST00000361413"	"Transcript"	"intron_variant"	"-/4859"	"-/2904"	"-/967"	""	""	"rs71383417"	"1"	NA	-1	"KIAA0753"	"HGNC"	29110	"protein_coding"	"YES"	"CCDS42247.1"	"ENSP00000355250"	"Q2KHM9"	"I3L1P2,I3L0P7,B7Z6L6"	"UPI000013D2BF"	"NM_014804.2"	NA	NA	""	"4/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"8af9ccee-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WXS"	FALSE
"3804"	"C17orf100"	388327	"mskcc.org"	"GRCh37"	"17"	6559524	6559525	"+"	"3'Flank"	"DEL"	"AG"	"AG"	"-"	"rs142908561"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000391428"	""	11	"."	4	4	"."	0	"C17orf100,downstream_gene_variant,,ENST00000391428,NM_001105520.1;MED31,upstream_gene_variant,,ENST00000225728,NM_016060.2;MED31,upstream_gene_variant,,ENST00000574128,;MED31,upstream_gene_variant,,ENST00000575197,;MIR4520A,upstream_gene_variant,,ENST00000582609,;CTC-281F24.1,upstream_gene_variant,,ENST00000576138,;MED31,upstream_gene_variant,,ENST00000575519,;AC004706.1,downstream_gene_variant,,ENST00000542475,;"	"-"	"ENSG00000212734"	"ENST00000391428"	"Transcript"	"downstream_gene_variant"	"-/1821"	"-/495"	"-/164"	""	""	"rs142908561"	"1"	"2733"	1	"C17orf100"	"HGNC"	34494	"protein_coding"	"YES"	""	"ENSP00000375247"	"A8MU93"	""	"UPI0000200788"	"NM_001105520.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"68ed7902-280f-11e6-9a6e-06d4414a729f"	"122"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3805"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	6581407	6581407	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs67236016"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	5	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs67236016"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3315"	"-:0.9304"	"-:0.5965"	NA	"-:0.6647"	"-:0.5119"	"-:0.5307"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"68f2e176-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"3806"	"TNK1"	8711	"mskcc.org"	"GRCh37"	"17"	7290922	7290922	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs543532054"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1492+146delA"	""	""	"ENST00000576812"	""	248	"."	3	97	"."	0	"TNK1,intron_variant,,ENST00000570896,;TNK1,intron_variant,,ENST00000576812,NM_001251902.1;TNK1,intron_variant,,ENST00000311668,NM_003985.4;TNK1,intron_variant,,ENST00000576716,;TMEM256-PLSCR3,downstream_gene_variant,,ENST00000535512,;TMEM256-PLSCR3,downstream_gene_variant,,ENST00000574401,NM_020360.3;TMEM256-PLSCR3,downstream_gene_variant,,ENST00000576201,;TMEM256-PLSCR3,downstream_gene_variant,,ENST00000324822,NM_001201576.1;TMEM256-PLSCR3,downstream_gene_variant,,ENST00000576362,;TMEM256-PLSCR3,downstream_gene_variant,,ENST00000575434,;TMEM256-PLSCR3,downstream_gene_variant,,ENST00000571078,;C17orf61-PLSCR3,downstream_gene_variant,,ENST00000573331,;TMEM256-PLSCR3,downstream_gene_variant,,ENST00000571541,;TMEM256-PLSCR3,downstream_gene_variant,,ENST00000573774,;TMEM256-PLSCR3,downstream_gene_variant,,ENST00000573070,;TMEM256-PLSCR3,downstream_gene_variant,,ENST00000575543,;C17orf61-PLSCR3,downstream_gene_variant,,ENST00000570600,;TNK1,downstream_gene_variant,,ENST00000575268,;C17orf61-PLSCR3,downstream_gene_variant,,ENST00000571125,;TNK1,downstream_gene_variant,,ENST00000576136,;TNK1,downstream_gene_variant,,ENST00000576207,;TNK1,downstream_gene_variant,,ENST00000574794,;TNK1,downstream_gene_variant,,ENST00000577009,;"	"-"	"ENSG00000174292"	"ENST00000576812"	"Transcript"	"intron_variant"	"-/3023"	"-/2001"	"-/666"	""	""	"rs543532054"	"1"	NA	1	"TNK1"	"HGNC"	11940	"protein_coding"	"YES"	"CCDS58510.1"	"ENSP00000459799"	"Q13470"	""	"UPI000013F1D0"	"NM_001251902.1"	NA	NA	""	"10/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAT"	"6a2e50a2-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0120967741935484	"WXS"	FALSE
"3807"	"VAMP2"	6844	"mskcc.org"	"GRCh37"	"17"	8064056	8064057	"+"	"3'UTR"	"DEL"	"AC"	"AC"	"-"	"rs377440573"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*116_*117delGT"	""	""	"ENST00000316509"	"5/5"	65	"."	7	21	"."	0	"VAMP2,3_prime_UTR_variant,,ENST00000316509,NM_014232.2;VAMP2,3_prime_UTR_variant,,ENST00000404970,;RP11-599B13.6,intron_variant,,ENST00000498285,;PER1,upstream_gene_variant,,ENST00000354903,;VAMP2,downstream_gene_variant,,ENST00000488857,;PER1,upstream_gene_variant,,ENST00000577253,;PER1,upstream_gene_variant,,ENST00000584202,;VAMP2,downstream_gene_variant,,ENST00000481878,;PER1,upstream_gene_variant,,ENST00000581395,;"	"-"	"ENSG00000220205"	"ENST00000316509"	"Transcript"	"3_prime_UTR_variant"	"563-564/2153"	"-/351"	"-/116"	""	""	"rs377440573"	"1"	NA	-1	"VAMP2"	"HGNC"	12643	"protein_coding"	"YES"	"CCDS32561.1"	"ENSP00000314214"	"P63027"	""	"UPI00000527F8"	"NM_014232.2"	NA	NA	"5/5"	""	""	"-:0.0409"	"-:0.0416"	"-:0.0504"	NA	"-:0.0278"	"-:0.0348"	"-:0.0532"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGACA"	"6baa634e-280f-11e6-9a6e-06d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107692307692308	"WXS"	FALSE
"3808"	"ENSR00001534096"	0	"mskcc.org"	"GRCh37"	"17"	8601990	8601991	"+"	"IGR"	"INS"	"-"	"-"	"CACACA"	"rs71361818"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001534096"	""	7	"."	4	4	"."	0	""	"CACACA"	""	"ENSR00001534096"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs71361818"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"8bde69ee-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3809"	"PIK3R6"	146850	"mskcc.org"	"GRCh37"	"17"	8732723	8732724	"+"	"Intron"	"DEL"	"AC"	"AC"	"-"	"rs199737609"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.889+299_889+300delGT"	""	""	"ENST00000311434"	""	21	"."	5	11	"."	0	"PIK3R6,intron_variant,,ENST00000311434,NM_001010855.2;PIK3R6,intron_variant,,ENST00000434064,;PIK3R6,intron_variant,,ENST00000583984,;PIK3R6,intron_variant,,ENST00000452122,;"	"-"	"ENSG00000174083"	"ENST00000311434"	"Transcript"	"intron_variant"	"-/3038"	"-/2262"	"-/753"	""	""	"rs199737609"	"1"	NA	-1	"PIK3R6"	"HGNC"	27101	"protein_coding"	"YES"	""	"ENSP00000475670"	"Q5UE93"	"U3KQ99"	"UPI00015DFB1F"	"NM_001010855.2"	NA	NA	""	"10/20"	""	"-:0.1098"	"-:0.0121"	"-:0.0303"	NA	"-:0.3264"	"-:0.0119"	"-:0.1759"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATACA"	"6c06e420-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WXS"	FALSE
"3810"	"TMEM220"	388335	"mskcc.org"	"GRCh37"	"17"	10633640	10633641	"+"	"5'Flank"	"INS"	"-"	"-"	"GAAAGAAAGAAAGGGCCGGGCGCAGTGACTCACGC"	"rs370658833"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000341871"	""	9	"."	4	4	"."	0	"TMEM220,upstream_gene_variant,,ENST00000341871,NM_001004313.1;TMEM220,upstream_gene_variant,,ENST00000455996,;TMEM220,upstream_gene_variant,,ENST00000578345,;CTC-297N7.5,intron_variant,,ENST00000583343,;CTC-297N7.5,intron_variant,,ENST00000583012,;CTC-297N7.5,intron_variant,,ENST00000579114,;CTC-297N7.5,intron_variant,,ENST00000581366,;CTC-297N7.5,intron_variant,,ENST00000580899,;CTC-297N7.5,intron_variant,,ENST00000584714,;CTC-297N7.5,intron_variant,,ENST00000583115,;TMEM220,upstream_gene_variant,,ENST00000580186,;"	"GAAAGAAAGAAAGGGCCGGGCGCAGTGACTCACGC"	"ENSG00000187824"	"ENST00000341871"	"Transcript"	"upstream_gene_variant"	"-/3106"	"-/483"	"-/160"	""	""	"rs370658833"	"1"	"7"	-1	"TMEM220"	"HGNC"	33757	"protein_coding"	"YES"	"CCDS32567.1"	"ENSP00000339830"	"Q6QAJ8"	""	"UPI00001D79BC"	"NM_001004313.1"	NA	NA	""	""	""	"-:0.4615"	"GAAA:0.7012"	"GAAA:0.4697"	NA	"GAAA:0.5595"	"GAAA:0.4901"	"GAAA:0.3957"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"8c80d77e-280f-11e6-9a6e-06d4414a729f"	"201"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3811"	"MAP2K4"	6416	"mskcc.org"	"GRCh37"	"17"	12043531	12043532	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs11410887"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1086+330_1086+331insG"	""	""	"ENST00000353533"	""	6	"."	5	5	"."	0	"MAP2K4,intron_variant,,ENST00000415385,NM_001281435.1;MAP2K4,intron_variant,,ENST00000353533,NM_003010.3;MAP2K4,intron_variant,,ENST00000536413,;MAP2K4,intron_variant,,ENST00000602811,;MAP2K4,intron_variant,,ENST00000602375,;MAP2K4,intron_variant,,ENST00000602686,;MAP2K4,intron_variant,,ENST00000602305,;MAP2K4,intron_variant,,ENST00000602537,;MAP2K4,intron_variant,,ENST00000538465,;"	"G"	"ENSG00000065559"	"ENST00000353533"	"Transcript"	"intron_variant"	"-/3826"	"-/1200"	"-/399"	""	""	"rs11410887"	"1"	NA	1	"MAP2K4"	"HGNC"	6844	"protein_coding"	"YES"	"CCDS11162.1"	"ENSP00000262445"	"P45985"	"J3QQR2,J3KTI6"	"UPI000012F48E"	"NM_003010.3"	NA	NA	""	"10/10"	""	"-:0.0891"	"G:0.7231"	"G:0.9813"	NA	"G:1"	"G:0.9602"	"G:0.9724"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"8ca999d4-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	TRUE
"3812"	"ARHGAP44"	9912	"mskcc.org"	"GRCh37"	"17"	12798523	12798523	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11363011"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.93+228delT"	""	""	"ENST00000379672"	""	17	"."	6	5	"."	0	"ARHGAP44,intron_variant,,ENST00000379672,NM_014859.4;ARHGAP44,intron_variant,,ENST00000340825,;ARHGAP44,intron_variant,,ENST00000262444,;ARHGAP44,intron_variant,,ENST00000580768,;ARHGAP44,intron_variant,,ENST00000544416,;ARHGAP44,intron_variant,,ENST00000578442,;"	"-"	"ENSG00000006740"	"ENST00000379672"	"Transcript"	"intron_variant"	"-/4228"	"-/2457"	"-/818"	""	""	"rs11363011"	"1"	NA	1	"ARHGAP44"	"HGNC"	29096	"protein_coding"	"YES"	"CCDS45616.1"	"ENSP00000368994"	"Q17R89"	"J3QQU7"	"UPI0000252116"	"NM_014859.4"	NA	NA	""	"2/20"	""	"-:0.4806"	"-:0.407"	"-:0.513"	NA	"-:0.5179"	"-:0.5765"	"-:0.4202"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTT"	"6dbbfa58-280f-11e6-9a6e-06d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WXS"	FALSE
"3813"	"AC022816.2"	0	"mskcc.org"	"GRCh37"	"17"	14319229	14319230	"+"	"Intron"	"INS"	"-"	"-"	"TTTCTTTCTTTCT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.435-4742_435-4730dupTCTTTCTTTCTTT"	""	""	"ENST00000436469"	""	12	"."	4	5	"."	0	"AC022816.2,intron_variant,,ENST00000436469,;"	"TTTCTTTCTTTCT"	"ENSG00000230647"	"ENST00000436469"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/804"	""	""	""	""	""	"1"	NA	1	"AC022816.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"8cd7e528-280f-11e6-9a6e-06d4414a729f"	"230"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3814"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	14529401	14529402	"+"	"IGR"	"INS"	"-"	"-"	"CCTC"	"rs375053509"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	3	2	"."	0	""	"CCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs375053509"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4371"	"CCTC:0.7179"	"CCTC:0.4697"	NA	"CCTC:0.5635"	"CCTC:0.504"	"CCTC:0.4796"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"8cd97e4c-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"3815"	"ADORA2B"	136	"mskcc.org"	"GRCh37"	"17"	15863569	15863886	"+"	"Intron"	"DEL"	"AAAAAAAGGCACAAATTGGGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTAGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAA"	"AAAAAAAGGCACAAATTGGGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTAGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAAAAGGCACAAATTGGGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTAGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAA"	"AAAAAAAGGCACAAATTGGGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTAGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.336-14405_336-14088delGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTAGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAGGCACAAATTGG"	""	""	"ENST00000304222"	""	6	"."	4	2	"."	0	"ADORA2B,intron_variant,,ENST00000304222,NM_000676.2;"	"-"	"ENSG00000170425"	"ENST00000304222"	"Transcript"	"intron_variant"	"-/1735"	"-/999"	"-/332"	""	""	""	"1"	NA	1	"ADORA2B"	"HGNC"	264	"protein_coding"	"YES"	"CCDS11173.1"	"ENSP00000304501"	"P29275"	"Q2L7J7"	"UPI00000503E3"	"NM_000676.2"	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"19"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAAAAAAAGGCACAAATTGGGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTAGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAA"	"6e75e3c8-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3816"	"NCOR1"	9611	"mskcc.org"	"GRCh37"	"17"	16052606	16052607	"+"	"Intron"	"INS"	"-"	"-"	"ATATAT"	"rs71299857"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.909+153_909+158dupATATAT"	""	""	"ENST00000268712"	""	37	"."	3	14	"."	0	"NCOR1,intron_variant,,ENST00000268712,NM_006311.3;NCOR1,intron_variant,,ENST00000395851,NM_001190440.1;NCOR1,intron_variant,,ENST00000395848,NM_001190438.1;NCOR1,intron_variant,,ENST00000436828,;NCOR1,intron_variant,,ENST00000411510,;NCOR1,intron_variant,,ENST00000582357,;NCOR1,intron_variant,,ENST00000460276,;"	"ATATAT"	"ENSG00000141027"	"ENST00000268712"	"Transcript"	"intron_variant"	"-/10720"	"-/7323"	"-/2440"	""	""	"rs71299857"	"1"	NA	-1	"NCOR1"	"HGNC"	7672	"protein_coding"	"YES"	"CCDS11175.1"	"ENSP00000268712"	"O75376"	"Q9NSZ0,C9JAP0,B4DJ25"	"UPI000013D7D5"	"NM_006311.3"	NA	NA	""	"9/45"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"8d0938e4-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WXS"	TRUE
"3817"	"LRRC48"	83450	"mskcc.org"	"GRCh37"	"17"	17920186	17920187	"+"	"3'Flank"	"DEL"	"AT"	"AT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000313838"	""	39	"."	3	19	"."	0	"LRRC48,3_prime_UTR_variant,,ENST00000399187,NM_031294.3;ATPAF2,intron_variant,,ENST00000585101,;LRRC48,downstream_gene_variant,,ENST00000313838,NM_001130090.1;ATPAF2,downstream_gene_variant,,ENST00000474627,NM_145691.3;ATPAF2,downstream_gene_variant,,ENST00000444058,;ATPAF2,downstream_gene_variant,,ENST00000581698,;LRRC48,non_coding_transcript_exon_variant,,ENST00000583995,;ATPAF2,downstream_gene_variant,,ENST00000469327,;ATPAF2,intron_variant,,ENST00000462733,;ATPAF2,intron_variant,,ENST00000584205,;LRRC48,downstream_gene_variant,,ENST00000490517,;ATPAF2,downstream_gene_variant,,ENST00000496852,;ATPAF2,downstream_gene_variant,,ENST00000465337,;LRRC48,downstream_gene_variant,,ENST00000583171,;ATPAF2,downstream_gene_variant,,ENST00000488753,;LRRC48,downstream_gene_variant,,ENST00000577477,;ATPAF2,downstream_gene_variant,,ENST00000467560,;"	"-"	"ENSG00000171962"	"ENST00000313838"	"Transcript"	"downstream_gene_variant"	"-/2151"	"-/1572"	"-/523"	""	""	""	"1"	"1"	1	"LRRC48"	"HGNC"	25384	"protein_coding"	"YES"	"CCDS45622.1"	"ENSP00000326870"	"Q9H069"	"J3QS14,J3QRH8,J3QRC9,J3KRB8"	"UPI000018CE87"	"NM_001130090.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCATA"	"6fe4111c-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WXS"	FALSE
"3818"	"PRPSAP2"	5636	"mskcc.org"	"GRCh37"	"17"	18812103	18812103	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs35137608"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.585-2307delA"	""	""	"ENST00000268835"	""	22	"."	6	2	"."	0	"PRPSAP2,intron_variant,,ENST00000268835,NM_002767.3;PRPSAP2,intron_variant,,ENST00000536323,NM_001243941.1;PRPSAP2,intron_variant,,ENST00000419071,NM_001243936.1,NM_001243942.1;PRPSAP2,intron_variant,,ENST00000542013,NM_001243940.1;PRPSAP2,intron_variant,,ENST00000422237,;PRPSAP2,intron_variant,,ENST00000574451,;PRPSAP2,intron_variant,,ENST00000432893,;PRPSAP2,intron_variant,,ENST00000412418,;PRPSAP2,upstream_gene_variant,,ENST00000460724,;PRPSAP2,downstream_gene_variant,,ENST00000575337,;PRPSAP2,intron_variant,,ENST00000492129,;PRPSAP2,intron_variant,,ENST00000395656,;PRPSAP2,intron_variant,,ENST00000487101,;PRPSAP2,intron_variant,,ENST00000455992,;AC090286.2,non_coding_transcript_exon_variant,,ENST00000434303,;"	"-"	"ENSG00000141127"	"ENST00000268835"	"Transcript"	"intron_variant"	"-/1910"	"-/1110"	"-/369"	""	""	"rs35137608"	"1"	NA	1	"PRPSAP2"	"HGNC"	9467	"protein_coding"	"YES"	"CCDS11200.1"	"ENSP00000268835"	"O60256"	"I3L331,I3L275,I3L164,E7EPA1,C9K0K7,C9JJS3,C9JDU5,C9JDH0,B4E329"	"UPI000012DFA1"	"NM_002767.3"	NA	NA	""	"8/11"	""	"-:0.4748"	"-:0.6112"	"-:0.513"	NA	"-:0.3294"	"-:0.5567"	"-:0.3292"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAA"	"703e3002-280f-11e6-9a6e-06d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"3819"	"ABHD17AP6"	0	"mskcc.org"	"GRCh37"	"17"	20746999	20746999	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs199810779"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.643-68delG"	""	""	"ENST00000458502"	""	6	"."	4	3	"."	0	"CCDC144NL,intron_variant,,ENST00000539484,;ABHD17AP6,intron_variant,,ENST00000458502,;"	"-"	"ENSG00000226981"	"ENST00000458502"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1044"	""	""	""	""	"rs199810779"	"1"	NA	1	"ABHD17AP6"	"HGNC"	34044	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	"-:0.3403"	"-:0.2943"	"-:0.379"	NA	"-:0.3135"	"-:0.3539"	"-:0.3885"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGG"	"70b6ac62-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3820"	"KCNJ12"	3768	"mskcc.org"	"GRCh37"	"17"	21304520	21304544	"+"	"Intron"	"DEL"	"GACCAAGGAAGGGCATCCCGACTGT"	"GACCAAGGAAGGGCATCCCGACTGT"	"-"	"rs66686754"	NA	"JHCCPT5"	"JHCCPN5"	"GACCAAGGAAGGGCATCCCGACTGT"	"GACCAAGGAAGGGCATCCCGACTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-178-7307_-178-7283delAAGGAAGGGCATCCCGACTGTGACC"	""	""	"ENST00000583088"	""	8	"."	5	3	"."	0	"KCNJ12,intron_variant,,ENST00000583088,NM_021012.4;KCNJ12,upstream_gene_variant,,ENST00000331718,NM_001194958.2;"	"-"	"ENSG00000184185"	"ENST00000583088"	"Transcript"	"intron_variant"	"-/5420"	"-/1302"	"-/433"	""	""	"rs66686754"	"1"	NA	1	"KCNJ12"	"HGNC"	6258	"protein_coding"	"YES"	"CCDS11219.1"	"ENSP00000463778"	"Q14500"	""	"UPI00000725C7"	"NM_021012.4"	NA	NA	""	"1/2"	""	"-:0.5000"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGACCAAGGAAGGGCATCCCGACTGTG"	"70f7bbf8-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"3821"	"KRT18P55"	284085	"mskcc.org"	"GRCh37"	"17"	26633345	26633345	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.408-109delC"	""	""	"ENST00000577198"	""	89	"."	3	15	"."	0	"KRT18P55,intron_variant,,ENST00000577198,;KRT18P55,intron_variant,,ENST00000581956,;KRT18P55,intron_variant,,ENST00000578578,;AC061975.3,downstream_gene_variant,,ENST00000366294,;"	"-"	"ENSG00000265480"	"ENST00000577198"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1950"	""	""	""	""	""	"1"	NA	-1	"KRT18P55"	"HGNC"	26874	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"7159bcf4-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0337078651685393	"WXS"	FALSE
"3822"	"SLC46A1"	113235	"mskcc.org"	"GRCh37"	"17"	26731622	26731623	"+"	"Intron"	"DEL"	"CA"	"CA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1081+11_1081+12delTG"	""	""	"ENST00000440501"	""	369	"."	57	152	"."	0	"SLC46A1,intron_variant,,ENST00000440501,NM_080669.4;SLC46A1,intron_variant,,ENST00000321666,NM_001242366.1;SLC46A1,intron_variant,,ENST00000582735,;SARM1,downstream_gene_variant,,ENST00000457710,NM_015077.3;SLC46A1,downstream_gene_variant,,ENST00000584995,;SLC46A1,downstream_gene_variant,,ENST00000581516,;SLC46A1,downstream_gene_variant,,ENST00000584426,;CTD-2350C19.1,downstream_gene_variant,,ENST00000583956,;CTD-2350C19.2,upstream_gene_variant,,ENST00000580714,;SLC46A1,non_coding_transcript_exon_variant,,ENST00000578217,;SLC46A1,intron_variant,,ENST00000584729,;SLC46A1,intron_variant,,ENST00000583295,;SLC46A1,non_coding_transcript_exon_variant,,ENST00000582590,;SLC46A1,upstream_gene_variant,,ENST00000582345,;"	"-"	"ENSG00000076351"	"ENST00000440501"	"Transcript"	"intron_variant"	"-/6487"	"-/1380"	"-/459"	""	""	""	"1"	NA	-1	"SLC46A1"	"HGNC"	30521	"protein_coding"	"YES"	""	"ENSP00000395653"	"Q96NT5"	"K7EPJ7,J3QRF7,J3KTE6"	"UPI0000050394"	"NM_080669.4"	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCCAC"	"7198acfc-280f-11e6-9a6e-06d4414a729f"	"3420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.154471544715447	"WXS"	FALSE
"3823"	"AC005562.1"	0	"mskcc.org"	"GRCh37"	"17"	28917513	28917514	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs143290278"	NA	"JHCCPT5"	"JHCCPN5"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.155-9408_155-9407delTC"	""	""	"ENST00000398849"	""	6	"."	3	2	"."	0	"AC005562.1,intron_variant,,ENST00000398849,;"	"-"	"ENSG00000214719"	"ENST00000398849"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1411"	""	""	""	""	"rs143290278"	"1"	NA	1	"AC005562.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"1/8"	""	"-:0.0385"	"-:0.1165"	"-:0.0086"	NA	"-:0"	"-:0.0089"	"-:0.0245"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACTC"	"72b6dca8-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3824"	"NF1"	4763	"mskcc.org"	"GRCh37"	"17"	29527250	29527251	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35966725"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.889-182dupT"	""	""	"ENST00000358273"	""	15	"."	4	3	"."	0	"NF1,intron_variant,,ENST00000358273,NM_001042492.2;NF1,intron_variant,,ENST00000356175,NM_000267.3;NF1,intron_variant,,ENST00000431387,NM_001128147.2;NF1,upstream_gene_variant,,ENST00000456735,;NF1,intron_variant,,ENST00000579081,;NF1,intron_variant,,ENST00000495910,;NF1,intron_variant,,ENST00000487476,;"	"T"	"ENSG00000196712"	"ENST00000358273"	"Transcript"	"intron_variant"	"-/12425"	"-/8520"	"-/2839"	""	""	"rs35966725"	"1"	NA	1	"NF1"	"HGNC"	7765	"protein_coding"	"YES"	"CCDS42292.1"	"ENSP00000351015"	"P21359"	"Q9UMU3,Q4W6X4,K7EP94"	"UPI000012FFAE"	"NM_001042492.2"	NA	NA	""	"8/57"	""	"T:0.4866"	"T:0.1354"	"T:0.5274"	NA	"T:0.5516"	"T:0.7147"	"T:0.6309"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"8e943f88-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	TRUE
"3825"	"NF1"	4763	"mskcc.org"	"GRCh37"	"17"	29678243	29678243	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs17880849"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7457+914delA"	""	""	"ENST00000358273"	""	9	"."	5	1	"."	0	"NF1,intron_variant,,ENST00000358273,NM_001042492.2;NF1,intron_variant,,ENST00000356175,NM_000267.3;NF1,intron_variant,,ENST00000456735,;NF1,intron_variant,,ENST00000444181,;NF1,intron_variant,,ENST00000417592,;NF1,intron_variant,,ENST00000579081,;NF1,intron_variant,,ENST00000471572,;NF1,intron_variant,,ENST00000581790,;NF1,upstream_gene_variant,,ENST00000577967,;NF1,downstream_gene_variant,,ENST00000582892,;"	"-"	"ENSG00000196712"	"ENST00000358273"	"Transcript"	"intron_variant"	"-/12425"	"-/8520"	"-/2839"	""	""	"rs17880849"	"1"	NA	1	"NF1"	"HGNC"	7765	"protein_coding"	"YES"	"CCDS42292.1"	"ENSP00000351015"	"P21359"	"Q9UMU3,Q4W6X4,K7EP94"	"UPI000012FFAE"	"NM_001042492.2"	NA	NA	""	"50/57"	""	"-:0.3800"	"-:0.0477"	"-:0.4063"	NA	"-:0.369"	"-:0.6193"	"-:0.5757"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTAA"	"73186090-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	TRUE
"3826"	"RP1-41C23.1"	0	"mskcc.org"	"GRCh37"	"17"	29953774	29953775	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTG"	"rs139931638"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.410-10600_410-10595dupGTGTGT"	""	""	"ENST00000578650"	""	9	"."	3	1	"."	0	"RP1-41C23.1,intron_variant,,ENST00000578650,;"	"TGTGTG"	"ENSG00000266877"	"ENST00000578650"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/568"	""	""	""	""	"rs139931638"	"1"	NA	1	"RP1-41C23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"35"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"8ea8059a-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3827"	"MYO1D"	4642	"mskcc.org"	"GRCh37"	"17"	30866295	30866300	"+"	"Intron"	"DEL"	"ACACAC"	"ACACAC"	"-"	"rs776223364"	NA	"JHCCPT5"	"JHCCPN5"	"ACACAC"	"ACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2865-44367_2865-44362delGTGTGT"	""	""	"ENST00000318217"	""	6	"."	3	1	"."	0	"MYO1D,intron_variant,,ENST00000318217,NM_015194.1;MYO1D,intron_variant,,ENST00000394649,;MYO1D,intron_variant,,ENST00000577352,;"	"-"	"ENSG00000176658"	"ENST00000318217"	"Transcript"	"intron_variant"	"-/5563"	"-/3021"	"-/1006"	""	""	"rs776223364"	"1"	NA	-1	"MYO1D"	"HGNC"	7598	"protein_coding"	"YES"	"CCDS32615.1"	"ENSP00000324527"	"O94832"	"Q8N618,K7EIG7"	"UPI0000186004"	"NM_015194.1"	NA	NA	""	"21/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTACACACA"	"73915068-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3828"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	32722546	32722547	"+"	"IGR"	"DEL"	"AA"	"AA"	"-"	"rs56819537"	NA	"JHCCPT5"	"JHCCPN5"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs56819537"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AA:0.4121"	"-:0.3079"	"-:0.6052"	NA	"-:0.6944"	"-:0.7575"	"-:0.6697"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAA"	"73ae8782-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3829"	"TMEM132E"	124842	"mskcc.org"	"GRCh37"	"17"	32956933	32956934	"+"	"Intron"	"INS"	"-"	"-"	"GG"	"rs537991478"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1069-87_1069-86dupGG"	""	""	"ENST00000321639"	""	30	"."	4	10	"."	0	"TMEM132E,intron_variant,,ENST00000321639,NM_207313.1;"	"GG"	"ENSG00000181291"	"ENST00000321639"	"Transcript"	"intron_variant"	"-/4369"	"-/2955"	"-/984"	""	""	"rs537991478"	"1"	NA	1	"TMEM132E"	"HGNC"	26991	"protein_coding"	"YES"	"CCDS11283.1"	"ENSP00000316532"	"Q6IEE7"	""	"UPI000035960F"	"NM_207313.1"	NA	NA	""	"5/9"	""	"-:0.4359"	"G:0.5174"	"G:0.6153"	NA	"G:0.6181"	"G:0.5199"	"G:0.5808"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"8edb2d6c-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WXS"	FALSE
"3830"	"UNC45B"	146862	"mskcc.org"	"GRCh37"	"17"	33502104	33502105	"+"	"Intron"	"INS"	"-"	"-"	"AG"	"rs370149056"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1964+720_1964+721dupGA"	""	""	"ENST00000268876"	""	18	"."	8	2	"."	0	"UNC45B,intron_variant,,ENST00000268876,NM_173167.2;UNC45B,intron_variant,,ENST00000433649,NM_001033576.1,NM_001267052.1;UNC45B,intron_variant,,ENST00000394570,;UNC45B,intron_variant,,ENST00000378449,;UNC45B,intron_variant,,ENST00000591048,;"	"AG"	"ENSG00000141161"	"ENST00000268876"	"Transcript"	"intron_variant"	"-/5679"	"-/2796"	"-/931"	""	""	"rs370149056"	"1"	NA	1	"UNC45B"	"HGNC"	14304	"protein_coding"	"YES"	"CCDS11292.1"	"ENSP00000268876"	"Q8IWX7"	""	"UPI0000074455"	"NM_173167.2"	NA	NA	""	"14/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"8ef1b0f0-280f-11e6-9a6e-06d4414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3831"	"SLFN14"	342618	"mskcc.org"	"GRCh37"	"17"	33879678	33879679	"+"	"Intron"	"INS"	"-"	"-"	"ATAC"	"rs377526930"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1904+70_1904+71insGTAT"	""	""	"ENST00000415846"	""	62	"."	7	10	"."	0	"SLFN14,intron_variant,,ENST00000415846,NM_001129820.1;RP11-1094M14.12,upstream_gene_variant,,ENST00000588445,;"	"ATAC"	"ENSG00000236320"	"ENST00000415846"	"Transcript"	"intron_variant"	"-/2889"	"-/2739"	"-/912"	""	""	"rs377526930"	"1"	NA	-1	"SLFN14"	"HGNC"	32689	"protein_coding"	"YES"	"CCDS45650.1"	"ENSP00000391101"	"P0C7P3"	""	"UPI000041A9FB"	"NM_001129820.1"	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"8f180674-280f-11e6-9a6e-06d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112903225806452	"WXS"	FALSE
"3832"	"C17orf50"	146853	"mskcc.org"	"GRCh37"	"17"	34090916	34090917	"+"	"Intron"	"INS"	"-"	"-"	"AAAT"	"rs373521587"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.14-72_14-69dupAATA"	""	""	"ENST00000285023"	""	101	"."	7	18	"."	0	"C17orf50,intron_variant,,ENST00000285023,NM_145272.3;C17orf50,intron_variant,,ENST00000588628,;C17orf50,intron_variant,,ENST00000586491,;MMP28,intron_variant,,ENST00000587687,;MMP28,intron_variant,,ENST00000587639,;MMP28,downstream_gene_variant,,ENST00000589103,;MMP28,downstream_gene_variant,,ENST00000590643,;MMP28,downstream_gene_variant,,ENST00000589061,;MMP28,downstream_gene_variant,,ENST00000587923,;"	"AAAT"	"ENSG00000154768"	"ENST00000285023"	"Transcript"	"intron_variant"	"-/1018"	"-/525"	"-/174"	""	""	"rs373521587"	"1"	NA	1	"C17orf50"	"HGNC"	29581	"protein_coding"	"YES"	"CCDS42298.1"	"ENSP00000285023"	"Q8WW18"	""	"UPI00002016EC"	"NM_145272.3"	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"41"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"8f2cad9a-280f-11e6-9a6e-06d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0693069306930693	"WXS"	FALSE
"3833"	"CTB-91J4.1"	0	"mskcc.org"	"GRCh37"	"17"	34445618	34445619	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs140924077"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.41+2015dupC"	""	""	"ENST00000592460"	""	16	"."	9	4	"."	0	"CTB-91J4.1,intron_variant,,ENST00000592460,;"	"C"	"ENSG00000267118"	"ENST00000592460"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/470"	""	""	""	""	"rs140924077"	"1"	NA	1	"CTB-91J4.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"-:0.1629"	"C:0.9244"	"C:0.8934"	NA	"C:0.6736"	"C:0.832"	"C:0.8528"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"8f34b2a6-280f-11e6-9a6e-06d4414a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5625	"WXS"	FALSE
"3834"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	35021575	35021575	"+"	"IGR"	"DEL"	"G"	"-"	"-"	"rs5820171"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	6	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5820171"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	"-:0.5635"	"-:0.7176"	NA	"-:0.7847"	"-:0.7952"	"-:0.726"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"74d597ae-280f-11e6-9a6e-06d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"3835"	"CACNB1"	782	"mskcc.org"	"GRCh37"	"17"	37347463	37347464	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs200921804"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.291+263dupT"	""	""	"ENST00000394303"	""	24	"."	5	4	"."	0	"CACNB1,intron_variant,,ENST00000394303,NM_000723.4;CACNB1,intron_variant,,ENST00000344140,NM_199247.2;CACNB1,intron_variant,,ENST00000394310,NM_199248.2;CACNB1,intron_variant,,ENST00000582877,;CACNB1,intron_variant,,ENST00000492737,;CACNB1,upstream_gene_variant,,ENST00000577582,;CACNB1,downstream_gene_variant,,ENST00000577926,;CACNB1,intron_variant,,ENST00000539338,;CACNB1,intron_variant,,ENST00000536613,;CACNB1,downstream_gene_variant,,ENST00000582414,;"	"A"	"ENSG00000067191"	"ENST00000394303"	"Transcript"	"intron_variant"	"-/3742"	"-/1797"	"-/598"	""	""	"rs200921804"	"1"	NA	-1	"CACNB1"	"HGNC"	1401	"protein_coding"	"YES"	"CCDS42311.1"	"ENSP00000377840"	"Q02641"	""	"UPI0000127290"	"NM_000723.4"	NA	NA	""	"3/13"	""	"A:0.0038"	"A:0.0008"	"A:0.0029"	NA	"A:0"	"A:0.0099"	"A:0.0061"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"8fbdbfba-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WXS"	FALSE
"3836"	"KRT20"	54474	"mskcc.org"	"GRCh37"	"17"	39038941	39038942	"+"	"Intron"	"INS"	"-"	"-"	"TTTATTTA"	"rs149855322"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.391-43_391-36dupTAAATAAA"	""	""	"ENST00000167588"	""	86	"."	7	15	"."	0	"KRT20,intron_variant,,ENST00000167588,NM_019010.2;KRT20,intron_variant,,ENST00000482529,;"	"TTTATTTA"	"ENSG00000171431"	"ENST00000167588"	"Transcript"	"intron_variant"	"-/1737"	"-/1275"	"-/424"	""	""	"rs149855322"	"1"	NA	-1	"KRT20"	"HGNC"	20412	"protein_coding"	"YES"	"CCDS11379.1"	"ENSP00000167588"	"P35900"	""	"UPI000012DAF1"	"NM_019010.2"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	"0.02352"	"0.02259"	"0.003836"	"0.007731"	"0.03631"	"0.00428"	"0.02292"	"0.02832"	NA	"common_variant"	"TTT"	"9050cbb6-280f-11e6-9a6e-06d4414a729f"	"420"	0.01148	"833/72570"	"2441/103780"	"112/4958"	"33/8602"	"37/4786"	"178/4902"	"164/38318"	"11/480"	"298/10524"	"PASS"	"FALSE"	0.0813953488372093	"WXS"	FALSE
"3837"	"KRT40"	125115	"mskcc.org"	"GRCh37"	"17"	39130896	39130898	"+"	"3'Flank"	"DEL"	"TTC"	"TTC"	"-"	"rs201779247"	NA	"JHCCPT5"	"JHCCPN5"	"TTC"	"TTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000377755"	""	14	"."	4	2	"."	0	"KRT40,downstream_gene_variant,,ENST00000377755,;KRT40,downstream_gene_variant,,ENST00000398486,NM_182497.3;AC004231.2,intron_variant,,ENST00000418393,;KRT40,downstream_gene_variant,,ENST00000461923,;"	"-"	"ENSG00000204889"	"ENST00000377755"	"Transcript"	"downstream_gene_variant"	"-/1812"	"-/1296"	"-/431"	""	""	"rs201779247"	"1"	"3070"	-1	"KRT40"	"HGNC"	26707	"protein_coding"	"YES"	"CCDS42320.1"	"ENSP00000366984"	"Q6A162"	""	"UPI00003B288A"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTCT"	"773a2050-280f-11e6-9a6e-06d4414a729f"	"232"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3838"	"KRTAP9-2"	83899	"mskcc.org"	"GRCh37"	"17"	39386546	39386547	"+"	"3'Flank"	"INS"	"-"	"-"	"GAGAGAGAGA"	"rs139456006"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000377721"	""	11	"."	4	1	"."	0	"KRTAP9-2,downstream_gene_variant,,ENST00000377721,NM_031961.2;KRTAP9-3,upstream_gene_variant,,ENST00000411528,NM_031962.2;KRTAP9-2,downstream_gene_variant,,ENST00000455970,;"	"GAGAGAGAGA"	"ENSG00000239886"	"ENST00000377721"	"Transcript"	"downstream_gene_variant"	"-/1005"	"-/525"	"-/174"	""	""	"rs139456006"	"1"	"2642"	1	"KRTAP9-2"	"HGNC"	16926	"protein_coding"	"YES"	"CCDS32651.1"	"ENSP00000366950"	"Q9BYQ4"	"Q6ISF6"	"UPI000013CE13"	"NM_031961.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"9086fa06-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3839"	"KRTAP9-3"	83900	"mskcc.org"	"GRCh37"	"17"	39392096	39392147	"+"	"3'Flank"	"DEL"	"GAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAA"	"GAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAA"	"GAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000411528"	""	11	"."	6	5	"."	0	"KRTAP9-3,downstream_gene_variant,,ENST00000411528,NM_031962.2;KRTAP9-8,upstream_gene_variant,,ENST00000254072,NM_031963.2;"	"-"	"ENSG00000204873"	"ENST00000411528"	"Transcript"	"downstream_gene_variant"	"-/991"	"-/480"	"-/159"	""	""	""	"1"	"2391"	1	"KRTAP9-3"	"HGNC"	16927	"protein_coding"	"YES"	"CCDS11385.1"	"ENSP00000392189"	"Q9BYQ3"	""	"UPI0000071C07"	"NM_031962.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAAG"	"774ebf9c-280f-11e6-9a6e-06d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"3840"	"KRTAP9-8"	83901	"mskcc.org"	"GRCh37"	"17"	39394711	39394725	"+"	"In_Frame_Del"	"DEL"	"GACCACCTGCTGCAG"	"GACCACCTGCTGCAG"	"-"	"rs373648251"	NA	"JHCCPT5"	"JHCCPN5"	"GACCACCTGCTGCAG"	"GACCACCTGCTGCAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.414_428delCTGCTGCAGGACCAC"	"p.Cys140_Cys144del"	"p.C140_C144del"	"ENST00000254072"	"1/1"	56	"."	6	24	"."	0	"KRTAP9-8,inframe_deletion,p.Cys140_Cys144del,ENST00000254072,NM_031963.2;"	"-"	"ENSG00000187272"	"ENST00000254072"	"Transcript"	"inframe_deletion"	"415-429/960"	"408-422/480"	"136-141/159"	"ETTCCR/E"	"gaGACCACCTGCTGCAGg/gag"	"rs373648251,COSM1383118"	"1"	NA	1	"KRTAP9-8"	"HGNC"	17231	"protein_coding"	"YES"	"CCDS42334.1"	"ENSP00000254072"	"Q9BYQ0"	""	"UPI000013CE12"	"NM_031963.2"	NA	NA	"1/1"	""	"Low_complexity_(Seg):seg,hmmpanther:PTHR23262,hmmpanther:PTHR23262:SF36,Pfam_domain:PF13885"	""	""	""	NA	""	""	""	""	""	""	"0,1"	NA	""	NA	""	NA	"MODERATE"	"1"	"deletion"	NA	"6"	"0,1"	"1"	"0.1064"	"0.02273"	"0.123"	"0.1842"	"0.197"	"0.1036"	"0.1486"	"0.08787"	NA	"common_variant"	"GAGACCACCTGCTGCAGG"	"77506612-280f-11e6-9a6e-06d4414a729f"	"174"	0.1093	"10876/99496"	"11222/105432"	"165/7260"	"1295/10528"	"1354/7352"	"1226/6224"	"5328/51416"	"96/646"	"1412/16070"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.107142857142857	"WXS"	FALSE
"3841"	"HDAC5"	10014	"mskcc.org"	"GRCh37"	"17"	42174825	42174826	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs5820523"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.98-3624dupG"	""	""	"ENST00000225983"	""	6	"."	4	1	"."	0	"HDAC5,intron_variant,,ENST00000225983,;HDAC5,intron_variant,,ENST00000393622,NM_001015053.1,NM_005474.4;HDAC5,intron_variant,,ENST00000336057,;HDAC5,intron_variant,,ENST00000586802,;HDAC5,intron_variant,,ENST00000591714,;HDAC5,intron_variant,,ENST00000587135,;HDAC5,intron_variant,,ENST00000588703,;HDAC5,upstream_gene_variant,,ENST00000588261,;HDAC5,upstream_gene_variant,,ENST00000587776,;"	"C"	"ENSG00000108840"	"ENST00000225983"	"Transcript"	"intron_variant"	"-/5326"	"-/3372"	"-/1123"	""	""	"rs5820523"	"1"	NA	-1	"HDAC5"	"HGNC"	14068	"protein_coding"	"YES"	"CCDS32663.1"	"ENSP00000225983"	"Q9UQL6"	"K7EJZ7,K7EJL6"	"UPI0000508BBA"	""	NA	NA	""	"3/26"	""	"-:0.3586"	"C:0.1346"	"C:0.7983"	NA	"C:0.8403"	"C:0.7485"	"C:0.8998"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"9135d440-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3842"	"UBTF"	7343	"mskcc.org"	"GRCh37"	"17"	42296982	42296987	"+"	"Intron"	"DEL"	"GGCGGC"	"GGCGGC"	"-"	"rs376194709"	NA	"JHCCPT5"	"JHCCPN5"	"GGCGGC"	"GGCGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-67-1323_-67-1318delGCCGCC"	""	""	"ENST00000302904"	""	12	"."	5	4	"."	0	"UBTF,5_prime_UTR_variant,,ENST00000393606,NM_001076684.2;UBTF,intron_variant,,ENST00000302904,;UBTF,intron_variant,,ENST00000343638,NM_001076683.1;UBTF,intron_variant,,ENST00000527034,;UBTF,upstream_gene_variant,,ENST00000533177,;UBTF,upstream_gene_variant,,ENST00000436088,NM_014233.3;UBTF,upstream_gene_variant,,ENST00000529383,;UBTF,upstream_gene_variant,,ENST00000526094,;UBTF,upstream_gene_variant,,ENST00000530828,;RP5-882C2.2,upstream_gene_variant,,ENST00000563394,;RP5-882C2.2,upstream_gene_variant,,ENST00000588279,;CTB-175E5.7,downstream_gene_variant,,ENST00000586560,;UBTF,upstream_gene_variant,,ENST00000537550,;"	"-"	"ENSG00000108312"	"ENST00000302904"	"Transcript"	"intron_variant"	"-/4997"	"-/2295"	"-/764"	""	""	"rs376194709"	"1"	NA	-1	"UBTF"	"HGNC"	12511	"protein_coding"	"YES"	"CCDS11480.1"	"ENSP00000302640"	"P17480"	"Q9BQR2,E9PLT2,B4DLB0"	"UPI000013797C"	""	NA	NA	""	"1/20"	""	"GGCGGC:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGGCGGCG"	"7a54fd1e-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"3843"	"DBF4B"	80174	"mskcc.org"	"GRCh37"	"17"	42807051	42807052	"+"	"Intron"	"INS"	"-"	"-"	"ACACAC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.226-183_226-178dupACACAC"	""	""	"ENST00000315005"	""	37	"."	4	15	"."	0	"DBF4B,intron_variant,,ENST00000315005,NM_145663.2;DBF4B,intron_variant,,ENST00000393547,NM_025104.3;DBF4B,intron_variant,,ENST00000398338,;DBF4B,intron_variant,,ENST00000526915,;DBF4B,intron_variant,,ENST00000526924,;DBF4B,intron_variant,,ENST00000528353,;DBF4B,intron_variant,,ENST00000532789,;DBF4B,intron_variant,,ENST00000528766,;DBF4B,intron_variant,,ENST00000525140,;DBF4B,intron_variant,,ENST00000531699,;DBF4B,upstream_gene_variant,,ENST00000527862,;"	"ACACAC"	"ENSG00000161692"	"ENST00000315005"	"Transcript"	"intron_variant"	"-/2997"	"-/1848"	"-/615"	""	""	""	"1"	NA	1	"DBF4B"	"HGNC"	17883	"protein_coding"	"YES"	"CCDS11485.1"	"ENSP00000323663"	"Q8NFT6"	"B3KWT3"	"UPI00000473C7"	"NM_145663.2"	NA	NA	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"44"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"915578ae-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WXS"	FALSE
"3844"	"RP11-707O23.5"	0	"mskcc.org"	"GRCh37"	"17"	43679863	43679873	"+"	"5'Flank"	"DEL"	"TCTTTCTTTCC"	"TCTTTCTTTCC"	"-"	"rs750857329"	NA	"JHCCPT5"	"JHCCPN5"	"TCTTTCTTTCC"	"TCTTTCTTTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000580257"	""	51	"."	4	14	"."	0	"RP11-707O23.5,upstream_gene_variant,,ENST00000580257,;"	"-"	"ENSG00000263503"	"ENST00000580257"	"Transcript"	"upstream_gene_variant"	"-/1472"	""	""	""	""	"rs750857329"	"1"	"157"	-1	"RP11-707O23.5"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCTTTCTTTCCT"	"7b4e3956-280f-11e6-9a6e-06d4414a729f"	"169"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0784313725490196	"WXS"	FALSE
"3845"	"MAPT"	4137	"mskcc.org"	"GRCh37"	"17"	44101775	44101776	"+"	"3'UTR"	"INS"	"-"	"-"	"T"	"rs371054053,rs147091683"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*241dupT"	""	""	"ENST00000344290"	"15/15"	17	"."	3	6	"."	0	"MAPT,3_prime_UTR_variant,,ENST00000344290,NM_001123066.3;MAPT,3_prime_UTR_variant,,ENST00000576518,;MAPT,3_prime_UTR_variant,,ENST00000262410,NM_016835.4;MAPT,3_prime_UTR_variant,,ENST00000351559,NM_005910.5;MAPT,3_prime_UTR_variant,,ENST00000340799,NM_001123067.3,NM_016834.4;MAPT,3_prime_UTR_variant,,ENST00000535772,NM_001203252.1,NM_001203251.1;MAPT,3_prime_UTR_variant,,ENST00000347967,;MAPT,3_prime_UTR_variant,,ENST00000446361,;MAPT,downstream_gene_variant,,ENST00000415613,;MAPT,downstream_gene_variant,,ENST00000571987,;MAPT,downstream_gene_variant,,ENST00000574436,;MAPT,downstream_gene_variant,,ENST00000420682,;MAPT,downstream_gene_variant,,ENST00000431008,;MAPT,downstream_gene_variant,,ENST00000334239,NM_016841.4;"	"T"	"ENSG00000186868"	"ENST00000344290"	"Transcript"	"3_prime_UTR_variant"	"2891-2892/6816"	"-/2331"	"-/776"	""	""	"rs371054053,rs147091683"	"1"	NA	1	"MAPT"	"HGNC"	6893	"protein_coding"	"YES"	"CCDS45715.1"	"ENSP00000340820"	"P10636"	""	"UPI0001AE66E9"	"NM_001123066.3"	NA	NA	"15/15"	""	""	""	"T:0.0129,T:0.0129"	"T:0.1585,T:0.1585"	NA	"T:0.001,T:0.001"	"T:0.2416,T:0.2416"	"T:0.0613,T:0.0613"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"91c8dbf0-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"3846"	"KANSL1"	284058	"mskcc.org"	"GRCh37"	"17"	44172493	44172494	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs146453014"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1290-427dupA"	""	""	"ENST00000262419"	""	8	"."	3	2	"."	0	"KANSL1,intron_variant,,ENST00000262419,NM_001193466.1;KANSL1,intron_variant,,ENST00000393476,;KANSL1,intron_variant,,ENST00000574590,NM_001193465.1;KANSL1,intron_variant,,ENST00000572904,NM_015443.3;KANSL1,intron_variant,,ENST00000432791,;KANSL1,intron_variant,,ENST00000575318,;KANSL1,intron_variant,,ENST00000577114,;"	"T"	"ENSG00000120071"	"ENST00000262419"	"Transcript"	"intron_variant"	"-/5309"	"-/3318"	"-/1105"	""	""	"rs146453014"	"1"	NA	-1	"KANSL1"	"HGNC"	24565	"protein_coding"	"YES"	"CCDS11503.1"	"ENSP00000262419"	"Q7Z3B3"	"I3L243,I3L233"	"UPI0001AE66EA"	"NM_001193466.1"	NA	NA	""	"2/14"	""	"T:0.0861"	"T:0.0151"	"T:0.1571"	NA	"T:0.001"	"T:0.2396"	"T:0.0613"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"91cc2ad0-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3847"	"KANSL1"	284058	"mskcc.org"	"GRCh37"	"17"	44273444	44273445	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs141499662"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000262419"	""	25	"."	4	12	"."	0	"KANSL1,intron_variant,,ENST00000574590,NM_001193465.1;KANSL1,intron_variant,,ENST00000574655,;KANSL1,intron_variant,,ENST00000576739,;KANSL1,upstream_gene_variant,,ENST00000262419,NM_001193466.1;KANSL1,upstream_gene_variant,,ENST00000393476,;KANSL1,upstream_gene_variant,,ENST00000572904,NM_015443.3;KANSL1,upstream_gene_variant,,ENST00000571698,;KANSL1-AS1,non_coding_transcript_exon_variant,,ENST00000572634,;KANSL1-AS1,intron_variant,,ENST00000398275,;KANSL1-AS1,intron_variant,,ENST00000572973,;"	"A"	"ENSG00000120071"	"ENST00000262419"	"Transcript"	"upstream_gene_variant"	"-/5309"	"-/3318"	"-/1105"	""	""	"rs141499662"	"1"	"3278"	-1	"KANSL1"	"HGNC"	24565	"protein_coding"	"YES"	"CCDS11503.1"	"ENSP00000262419"	"Q7Z3B3"	"I3L243,I3L233"	"UPI0001AE66EA"	"NM_001193466.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"91d2b2ba-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WXS"	FALSE
"3848"	"RP11-259G18.2"	0	"mskcc.org"	"GRCh37"	"17"	44325783	44325784	"+"	"3'Flank"	"DEL"	"CT"	"CT"	"-"	"rs201746845"	NA	"JHCCPT5"	"JHCCPN5"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000574657"	""	8	"."	3	2	"."	0	"RP11-259G18.2,downstream_gene_variant,,ENST00000574657,;"	"-"	"ENSG00000262500"	"ENST00000574657"	"Transcript"	"downstream_gene_variant"	"-/1439"	""	""	""	""	"rs201746845"	"1"	"3373"	1	"RP11-259G18.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0791"	"-:0.0166"	"-:0.147"	NA	"-:0.001"	"-:0.2107"	"-:0.0603"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCTG"	"7b9abed4-280f-11e6-9a6e-06d4414a729f"	"136"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3849"	"ENSR00001677825"	0	"mskcc.org"	"GRCh37"	"17"	44328253	44328258	"+"	"IGR"	"DEL"	"CTCTTC"	"CTCTTC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CTCTTC"	"CTCTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001677825"	""	68	"."	3	45	"."	0	""	"-"	""	"ENSR00001677825"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTCTTCC"	"7ba64a88-280f-11e6-9a6e-06d4414a729f"	"110"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0441176470588235	"WXS"	FALSE
"3850"	"ARL17B"	51326	"mskcc.org"	"GRCh37"	"17"	44432307	44432315	"+"	"Intron"	"DEL"	"AAGAAAGAA"	"AAGAAAGAA"	"-"	"rs371122498"	NA	"JHCCPT5"	"JHCCPN5"	"AAGAAAGAA"	"AAGAAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.149-2019_149-2011delTTCTTTCTT"	""	""	"ENST00000450673"	""	14	"."	4	4	"."	0	"ARL17B,intron_variant,,ENST00000570618,;ARL17B,intron_variant,,ENST00000434041,;ARL17B,intron_variant,,ENST00000450673,NM_001039083.3;ARL17B,intron_variant,,ENST00000575960,;ARL17B,intron_variant,,ENST00000575698,;ARL17B,intron_variant,,ENST00000571246,;ARL17B,upstream_gene_variant,,ENST00000572991,;"	"-"	"ENSG00000228696"	"ENST00000450673"	"Transcript"	"intron_variant"	"-/743"	"-/534"	"-/177"	""	""	"rs371122498"	"1"	NA	-1	"ARL17B"	"HGNC"	32387	"protein_coding"	"YES"	"CCDS58557.1"	"ENSP00000404247"	"Q8IVW1"	""	"UPI00001B01D7"	"NM_001039083.3"	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAAGAAAGAAA"	"7bd21a32-280f-11e6-9a6e-06d4414a729f"	"96"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"3851"	"WNT9B"	7484	"mskcc.org"	"GRCh37"	"17"	44925334	44925339	"+"	"5'Flank"	"DEL"	"GTGTGT"	"GTGTGT"	"-"	"rs201827313"	NA	"JHCCPT5"	"JHCCPN5"	"GTGTGT"	"GTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000290015"	""	11	"."	4	4	"."	0	"WNT9B,intron_variant,,ENST00000575372,;WNT9B,upstream_gene_variant,,ENST00000393461,;WNT9B,upstream_gene_variant,,ENST00000290015,NM_003396.1;"	"-"	"ENSG00000158955"	"ENST00000290015"	"Transcript"	"upstream_gene_variant"	"-/1376"	"-/1074"	"-/357"	""	""	"rs201827313"	"1"	"3613"	1	"WNT9B"	"HGNC"	12779	"protein_coding"	"YES"	"CCDS11506.1"	"ENSP00000290015"	"O14905"	""	"UPI000013DFB5"	"NM_003396.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGTGTGTG"	"7beba4b6-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3852"	"GOSR2"	9570	"mskcc.org"	"GRCh37"	"17"	45009023	45009024	"+"	"Intron"	"INS"	"-"	"-"	"CCACCC"	"rs71365016"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.204-406_204-401dupCCCCCA"	""	""	"ENST00000225567"	""	20	"."	3	2	"."	0	"GOSR2,intron_variant,,ENST00000415811,NM_001012511.1;GOSR2,intron_variant,,ENST00000576910,;GOSR2,intron_variant,,ENST00000439730,;GOSR2,intron_variant,,ENST00000225567,NM_054022.2;GOSR2,intron_variant,,ENST00000393456,NM_004287.3;GOSR2,intron_variant,,ENST00000572403,;GOSR2,intron_variant,,ENST00000575949,;GOSR2,intron_variant,,ENST00000570879,;RP11-156P1.2,intron_variant,,ENST00000571841,;GOSR2,intron_variant,,ENST00000571048,;GOSR2,downstream_gene_variant,,ENST00000571658,;"	"CCACCC"	"ENSG00000108433"	"ENST00000225567"	"Transcript"	"intron_variant"	"-/855"	"-/642"	"-/213"	""	""	"rs71365016"	"1"	NA	1	"GOSR2"	"HGNC"	4431	"protein_coding"	"YES"	"CCDS11507.1"	"ENSP00000225567"	"O14653"	""	"UPI000002AACF"	"NM_054022.2"	NA	NA	""	"3/6"	""	"-:0.3828"	"CCACCC:0.5946"	"CCACCC:0.732"	NA	"CCACCC:0.6359"	"CCACCC:0.6272"	"CCACCC:0.5368"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"91e8b9b6-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"3853"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	45316079	45316079	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs61475249"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs61475249"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.0002"	"-:0.9992"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACG"	"7c0afe42-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3854"	"SKAP1"	8631	"mskcc.org"	"GRCh37"	"17"	46261671	46261672	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11399337"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.567+413dupA"	""	""	"ENST00000336915"	""	21	"."	4	3	"."	0	"SKAP1,intron_variant,,ENST00000336915,NM_003726.3,NM_001075099.1;SKAP1,intron_variant,,ENST00000584924,;SKAP1,intron_variant,,ENST00000579336,;RP11-456D7.1,upstream_gene_variant,,ENST00000582246,;SKAP1,intron_variant,,ENST00000584709,;SKAP1,intron_variant,,ENST00000581400,;SKAP1,intron_variant,,ENST00000581419,;"	"T"	"ENSG00000141293"	"ENST00000336915"	"Transcript"	"intron_variant"	"-/1534"	"-/1080"	"-/359"	""	""	"rs11399337"	"1"	NA	-1	"SKAP1"	"HGNC"	15605	"protein_coding"	"YES"	"CCDS32674.1"	"ENSP00000338171"	"Q86WV1"	"J3QS38,J3QRG3"	"UPI0000200EFD"	"NM_003726.3,NM_001075099.1"	NA	NA	""	"7/12"	""	"-:0.3942"	"T:0.357"	"T:0.6484"	NA	"T:0.7808"	"T:0.5885"	"T:0.7495"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"92413320-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"3855"	"RP11-304F15.6"	0	"mskcc.org"	"GRCh37"	"17"	47990436	47990437	"+"	"5'Flank"	"INS"	"-"	"-"	"CAGGCCC"	"rs71352541"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000518420"	""	11	"."	4	2	"."	0	"RP11-304F15.6,upstream_gene_variant,,ENST00000518420,;"	"CAGGCCC"	"ENSG00000254039"	"ENST00000518420"	"Transcript"	"upstream_gene_variant"	"-/395"	""	""	""	""	"rs71352541"	"1"	"1330"	1	"RP11-304F15.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"CAGGCCC:0.3357"	"CAGGCCC:0.4304"	"CAGGCCC:0.3458"	NA	"CAGGCCC:0.3651"	"CAGGCCC:0.3429"	"CAGGCCC:0.1626"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"9281e992-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3856"	"DLX3"	1747	"mskcc.org"	"GRCh37"	"17"	48072735	48072736	"+"	"5'Flank"	"INS"	"-"	"-"	"CTCC"	"rs561223399"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000434704"	""	11	"."	3	4	"."	0	"DLX3,upstream_gene_variant,,ENST00000434704,NM_005220.2;DLX3,upstream_gene_variant,,ENST00000512495,;RP11-1094H24.3,upstream_gene_variant,,ENST00000511867,;"	"CTCC"	"ENSG00000064195"	"ENST00000434704"	"Transcript"	"upstream_gene_variant"	"-/2602"	"-/864"	"-/287"	""	""	"rs561223399"	"1"	"147"	-1	"DLX3"	"HGNC"	2916	"protein_coding"	"YES"	"CCDS11556.1"	"ENSP00000389870"	"O60479"	"F8VXG1"	"UPI00001294B0"	"NM_005220.2"	NA	NA	""	""	""	"CTCC:0.0555"	"CTCC:0.0408"	"CTCC:0.0706"	NA	"CTCC:0"	"CTCC:0.1034"	"CTCC:0.0726"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"928c6002-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"3857"	"SAMD14"	201191	"mskcc.org"	"GRCh37"	"17"	48202135	48202136	"+"	"Intron"	"INS"	"-"	"-"	"CGCGCGCA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.43+145_43+146insTGCGCGCG"	""	""	"ENST00000503131"	""	52	"."	4	18	"."	0	"SAMD14,intron_variant,,ENST00000330175,NM_001257359.1;SAMD14,intron_variant,,ENST00000503131,NM_174920.3;SAMD14,upstream_gene_variant,,ENST00000285206,;SAMD14,downstream_gene_variant,,ENST00000511964,;SAMD14,upstream_gene_variant,,ENST00000503734,;SAMD14,downstream_gene_variant,,ENST00000513474,;SAMD14,intron_variant,,ENST00000507043,;"	"CGCGCGCA"	"ENSG00000167100"	"ENST00000503131"	"Transcript"	"intron_variant"	"-/1938"	"-/1338"	"-/445"	""	""	""	"1"	NA	-1	"SAMD14"	"HGNC"	27312	"protein_coding"	"YES"	"CCDS11560.1"	"ENSP00000424474"	"Q8IZD0"	""	"UPI0000074135"	"NM_174920.3"	NA	NA	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"929f0324-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WXS"	FALSE
"3858"	"ENSR00001348748"	0	"mskcc.org"	"GRCh37"	"17"	48375122	48375122	"+"	"IGR"	"DEL"	"A"	"-"	"-"	"rs11358790"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001348748"	""	7	"."	5	1	"."	0	""	"-"	""	"ENSR00001348748"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs11358790"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.2710"	"-:0.7458"	"-:0.804"	NA	"-:0.3631"	"-:0.9443"	"-:0.8088"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAA"	"7e267760-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3859"	"MYCBPAP"	84073	"mskcc.org"	"GRCh37"	"17"	48596499	48596500	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs556069215"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.897+54dupG"	""	""	"ENST00000323776"	""	62	"."	7	10	"."	0	"MYCBPAP,intron_variant,,ENST00000323776,NM_032133.4;MYCBPAP,intron_variant,,ENST00000436259,;MYCBPAP,downstream_gene_variant,,ENST00000452039,;MYCBPAP,downstream_gene_variant,,ENST00000576179,;MYCBPAP,upstream_gene_variant,,ENST00000488432,;MYCBPAP,upstream_gene_variant,,ENST00000468821,;MYCBPAP,intron_variant,,ENST00000437498,;MYCBPAP,intron_variant,,ENST00000470609,;MYCBPAP,downstream_gene_variant,,ENST00000458692,;MYCBPAP,upstream_gene_variant,,ENST00000459754,;"	"G"	"ENSG00000136449"	"ENST00000323776"	"Transcript"	"intron_variant"	"-/3186"	"-/2955"	"-/984"	""	""	"rs556069215"	"1"	NA	1	"MYCBPAP"	"HGNC"	19677	"protein_coding"	"YES"	"CCDS32680.2"	"ENSP00000323184"	"Q8TBZ2"	""	"UPI0000E5A00B"	"NM_032133.4"	NA	NA	""	"6/18"	""	"G:0.2300"	"G:0.2118"	"G:0.1354"	NA	"G:0.503"	"G:0.1272"	"G:0.1462"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	"0.1238"	"0.1498"	"0.1015"	"0.4734"	"0.09934"	"0.08605"	"0.1284"	"0.1294"	NA	"common_variant"	"GAG"	"92fa1516-280f-11e6-9a6e-06d4414a729f"	"420"	0.1283	"8481/66110"	"12964/104696"	"704/4700"	"625/6158"	"2210/4668"	"362/3644"	"2964/34444"	"56/436"	"1560/12060"	"PASS"	"FALSE"	0.112903225806452	"WXS"	FALSE
"3860"	"ABCC3"	8714	"mskcc.org"	"GRCh37"	"17"	48726947	48726949	"+"	"Intron"	"DEL"	"AAG"	"AAG"	"-"	"rs149008540"	NA	"JHCCPT5"	"JHCCPN5"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.46-6243_46-6241delAAG"	""	""	"ENST00000285238"	""	10	"."	3	5	"."	0	"ABCC3,intron_variant,,ENST00000285238,NM_003786.3;ABCC3,intron_variant,,ENST00000427699,NM_001144070.1;ABCC3,intron_variant,,ENST00000502426,;ABCC3,intron_variant,,ENST00000505699,;ABCC3,intron_variant,,ENST00000513511,;"	"-"	"ENSG00000108846"	"ENST00000285238"	"Transcript"	"intron_variant"	"-/5716"	"-/4584"	"-/1527"	""	""	"rs149008540"	"1"	NA	1	"ABCC3"	"HGNC"	54	"protein_coding"	"YES"	"CCDS32681.1"	"ENSP00000285238"	"O15438"	"Q96QA9,Q2M3C9"	"UPI000004B145"	"NM_003786.3"	NA	NA	""	"1/30"	""	"-:0.3115"	"-:0.2625"	"-:0.2939"	NA	"-:0.3016"	"-:0.3012"	"-:0.411"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAGA"	"7e89b6cc-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3861"	"NME1"	4830	"mskcc.org"	"GRCh37"	"17"	49237066	49237067	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs571079699"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.202-266dupT"	""	""	"ENST00000336097"	""	9	"."	3	2	"."	0	"NME1,intron_variant,,ENST00000511355,;NME2,intron_variant,,ENST00000555572,;NME1-NME2,intron_variant,,ENST00000608447,;NME1-NME2,intron_variant,,ENST00000393198,NM_001018136.2;NME2,intron_variant,,ENST00000393193,;NME1,intron_variant,,ENST00000336097,NM_198175.1;NME1,intron_variant,,ENST00000480143,;NME1,intron_variant,,ENST00000393196,NM_000269.2;NME2,intron_variant,,ENST00000376392,;NME1,intron_variant,,ENST00000013034,;NME1,downstream_gene_variant,,ENST00000456492,;NME1,intron_variant,,ENST00000512768,;NME1,intron_variant,,ENST00000475573,;NME1,downstream_gene_variant,,ENST00000487481,;NME1,downstream_gene_variant,,ENST00000465188,;"	"T"	"ENSG00000239672"	"ENST00000336097"	"Transcript"	"intron_variant"	"-/986"	"-/534"	"-/177"	""	""	"rs571079699"	"1"	NA	1	"NME1"	"HGNC"	7849	"protein_coding"	"YES"	"CCDS11578.1"	"ENSP00000337060"	"P15531"	"E7ERL0,C9K028"	"UPI000017DA4C"	"NM_198175.1"	NA	NA	""	"3/5"	""	"T:0.3564"	"T:0.3608"	"T:0.379"	NA	"T:0.3839"	"T:0.3748"	"T:0.2873"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"9347d9f4-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3862"	"UTP18"	51096	"mskcc.org"	"GRCh37"	"17"	49353502	49353503	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs3217081"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.837+152_837+153delAG"	""	""	"ENST00000225298"	""	31	"."	10	5	"."	0	"UTP18,intron_variant,,ENST00000225298,NM_016001.2;UTP18,upstream_gene_variant,,ENST00000583725,;UTP18,upstream_gene_variant,,ENST00000579261,;UTP18,intron_variant,,ENST00000508506,;UTP18,upstream_gene_variant,,ENST00000583205,;"	"-"	"ENSG00000011260"	"ENST00000225298"	"Transcript"	"intron_variant"	"-/1894"	"-/1671"	"-/556"	""	""	"rs3217081"	"1"	NA	1	"UTP18"	"HGNC"	24274	"protein_coding"	"YES"	"CCDS42362.1"	"ENSP00000225298"	"Q9Y5J1"	""	"UPI000051E38C"	"NM_016001.2"	NA	NA	""	"6/13"	""	"-:0.4253"	"-:0.1218"	"-:0.4424"	NA	"-:0.6071"	"-:0.4791"	"-:0.5808"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGA"	"7f1a46ba-280f-11e6-9a6e-06d4414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32258064516129	"WXS"	FALSE
"3863"	"PCTP"	58488	"mskcc.org"	"GRCh37"	"17"	53855981	53855982	"+"	"3'Flank"	"INS"	"-"	"-"	"GGGCGG"	"rs5821105"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000268896"	""	10	"."	4	1	"."	0	"PCTP,intron_variant,,ENST00000573500,;PCTP,intron_variant,,ENST00000572536,;PCTP,downstream_gene_variant,,ENST00000576183,;PCTP,downstream_gene_variant,,ENST00000268896,NM_021213.3;PCTP,downstream_gene_variant,,ENST00000325214,NM_001102402.2;PCTP,intron_variant,,ENST00000576221,;PCTP,downstream_gene_variant,,ENST00000571489,;PCTP,downstream_gene_variant,,ENST00000417982,;"	"GGGCGG"	"ENSG00000141179"	"ENST00000268896"	"Transcript"	"downstream_gene_variant"	"-/2044"	"-/645"	"-/214"	""	""	"rs5821105"	"1"	"1246"	1	"PCTP"	"HGNC"	8752	"protein_coding"	"YES"	"CCDS11588.1"	"ENSP00000268896"	"Q9UKL6"	"Q549N3"	"UPI0000112490"	"NM_021213.3"	NA	NA	""	""	""	"GGGCGG:0.1983"	"GGGCGG:0.3737"	"GGGCGG:0.1484"	NA	"GGGCGG:0.0744"	"GGGCGG:0.16"	"GGGCGG:0.1636"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"93894b3c-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3864"	"C17orf67"	339210	"mskcc.org"	"GRCh37"	"17"	54869991	54869992	"+"	"Intron"	"INS"	"-"	"-"	"AGTG"	"rs146076353"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*21-279_*21-278insCACT"	""	""	"ENST00000397861"	""	9	"."	4	1	"."	0	"C17orf67,intron_variant,,ENST00000397861,;C17orf67,intron_variant,,ENST00000575658,NM_001085430.2;C17orf67,intron_variant,,ENST00000397862,;C17orf67,intron_variant,,ENST00000570754,;"	"AGTG"	"ENSG00000214226"	"ENST00000397861"	"Transcript"	"intron_variant"	"-/2013"	"-/273"	"-/90"	""	""	"rs146076353"	"1"	NA	-1	"C17orf67"	"HGNC"	27900	"protein_coding"	"YES"	"CCDS42364.2"	"ENSP00000380959"	"Q0P5P2"	""	"UPI000015F12E"	""	NA	NA	""	"7/7"	""	"-:0.2604"	"AGTG:0.6218"	"AGTG:0.7565"	NA	"AGTG:0.8512"	"AGTG:0.8072"	"AGTG:0.7025"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"93912e7e-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3865"	"DGKE"	8526	"mskcc.org"	"GRCh37"	"17"	54925480	54925481	"+"	"Intron"	"INS"	"-"	"-"	"ATAT"	"rs56356802"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.888+67_888+70dupATAT"	""	""	"ENST00000284061"	""	34	"."	6	16	"."	0	"DGKE,intron_variant,,ENST00000284061,NM_003647.2;DGKE,intron_variant,,ENST00000572944,;DGKE,downstream_gene_variant,,ENST00000576869,;DGKE,downstream_gene_variant,,ENST00000571084,;"	"ATAT"	"ENSG00000153933"	"ENST00000284061"	"Transcript"	"intron_variant"	"-/7768"	"-/1704"	"-/567"	""	""	"rs56356802"	"1"	NA	1	"DGKE"	"HGNC"	2852	"protein_coding"	"YES"	"CCDS11590.1"	"ENSP00000284061"	"P52429"	"A1L4Q0"	"UPI000012DD1F"	"NM_003647.2"	NA	NA	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"9394e3ac-280f-11e6-9a6e-06d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"3866"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	54955414	54955415	"+"	"IGR"	"INS"	"-"	"-"	"AAG"	"rs141090056"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"."	4	3	"."	0	""	"AAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141090056"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4958"	"AAG:0.671"	"AAG:0.5836"	NA	"AAG:0.0952"	"AAG:0.6431"	"AAG:0.501"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"93978724-280f-11e6-9a6e-06d4414a729f"	"212"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WXS"	FALSE
"3867"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	56220066	56220066	"+"	"IGR"	"DEL"	"G"	"-"	"-"	"rs375073949"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs375073949"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.2588"	"-:0.3964"	"-:0.7493"	NA	"-:0.9038"	"-:0.8549"	"-:0.9172"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"7fe32382-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3868"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	56220242	56220242	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs369330685"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs369330685"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.1793"	"-:0.6657"	"-:0.7752"	NA	"-:0.9048"	"-:0.8767"	"-:0.9182"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"7ff240b0-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3869"	"TEX14"	56155	"mskcc.org"	"GRCh37"	"17"	56716708	56716710	"+"	"Intron"	"DEL"	"AGT"	"AGT"	"-"	"rs112642524"	NA	"JHCCPT5"	"JHCCPN5"	"AGT"	"AGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.137-8795_137-8793delACT"	""	""	"ENST00000240361"	""	14	"."	6	6	"."	0	"TEX14,intron_variant,,ENST00000389934,NM_198393.3,NM_001201457.1;TEX14,intron_variant,,ENST00000240361,;TEX14,intron_variant,,ENST00000349033,NM_031272.4;TEX14,intron_variant,,ENST00000582740,;"	"-"	"ENSG00000121101"	"ENST00000240361"	"Transcript"	"intron_variant"	"-/4911"	"-/4494"	"-/1497"	""	""	"rs112642524"	"1"	NA	-1	"TEX14"	"HGNC"	11737	"protein_coding"	"YES"	"CCDS56042.1"	"ENSP00000240361"	"Q8IWB6"	""	"UPI0000DAC9CA"	""	NA	NA	""	"2/32"	""	"AGT:0.3926"	"-:0.7489"	"-:0.4337"	NA	"-:0.4812"	"-:0.6332"	"-:0.6431"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAGTA"	"803fd6e0-280f-11e6-9a6e-06d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3870"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	59629143	59629144	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs35384875"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35384875"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.3564"	"T:0.0991"	"T:0.6225"	NA	"T:0.0992"	"T:0.6461"	"T:0.4826"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"94616f9e-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3871"	"MED13"	9969	"mskcc.org"	"GRCh37"	"17"	60070111	60070112	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11375626"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2182-130dupA"	""	""	"ENST00000397786"	""	18	"."	11	2	"."	0	"MED13,intron_variant,,ENST00000397786,NM_005121.2;"	"T"	"ENSG00000108510"	"ENST00000397786"	"Transcript"	"intron_variant"	"-/10465"	"-/6525"	"-/2174"	""	""	"rs11375626"	"1"	NA	-1	"MED13"	"HGNC"	22474	"protein_coding"	"YES"	"CCDS42366.1"	"ENSP00000380888"	"Q9UHV7"	""	"UPI0000D7D6F6"	"NM_005121.2"	NA	NA	""	"10/29"	""	"-:0.0000"	"T:1"	"T:1"	NA	"T:1"	"T:1"	"T:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"946d98fa-280f-11e6-9a6e-06d4414a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.611111111111111	"WXS"	FALSE
"3872"	"MRC2"	9902	"mskcc.org"	"GRCh37"	"17"	60772091	60772098	"+"	"3'Flank"	"DEL"	"TGTGTGTG"	"-"	"-"	"rs149798699"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTGTG"	"TGTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000303375"	""	7	"."	5	4	"."	0	"MRC2,downstream_gene_variant,,ENST00000303375,NM_006039.4;MRC2,downstream_gene_variant,,ENST00000446119,;RP11-156L14.1,upstream_gene_variant,,ENST00000584597,;MRC2,downstream_gene_variant,,ENST00000580916,;MRC2,downstream_gene_variant,,ENST00000583597,;"	"-"	"ENSG00000011028"	"ENST00000303375"	"Transcript"	"downstream_gene_variant"	"-/5988"	"-/4440"	"-/1479"	""	""	"rs149798699"	"1"	"1133"	1	"MRC2"	"HGNC"	16875	"protein_coding"	"YES"	"CCDS11634.1"	"ENSP00000307513"	"Q9UBG0"	"J3QQZ6"	"UPI000013E895"	"NM_006039.4"	NA	NA	""	""	""	"TGTGTGTG:0.1304"	"-:0.6369"	"-:0.9366"	NA	"-:0.9613"	"-:0.9642"	"-:0.9448"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGTGTGTGT"	"8180c1b8-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3873"	"CTC-264K15.6"	0	"mskcc.org"	"GRCh37"	"17"	62062586	62062587	"+"	"Intron"	"INS"	"-"	"-"	"CGCGCG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.55+4136_55+4141dupCGCGCG"	""	""	"ENST00000577329"	""	8	"."	4	1	"."	0	"CTC-264K15.6,intron_variant,,ENST00000577329,;"	"CGCGCG"	"ENSG00000263489"	"ENST00000577329"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/502"	""	""	""	""	""	"1"	NA	-1	"CTC-264K15.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"94c6823a-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3874"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	63064640	63064654	"+"	"IGR"	"DEL"	"CCTTTCCTTTCCTTT"	"-"	"-"	"rs745804368"	NA	"JHCCPT5"	"JHCCPN5"	"CCTTTCCTTTCCTTT"	"CCTTTCCTTTCCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	7	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs745804368"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCCTTTCCTTTCCTTTC"	"82391c90-280f-11e6-9a6e-06d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.875	"WXS"	FALSE
"3875"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	63353419	63353420	"+"	"IGR"	"DEL"	"GA"	"GA"	"-"	"rs11469934"	NA	"JHCCPT5"	"JHCCPN5"	"GA"	"GA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11469934"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GA:0.0687"	"-:0.8071"	"-:0.9798"	NA	"-:0.9524"	"-:0.9781"	"-:0.9949"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGAG"	"823e01ec-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"3876"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	63382824	63382825	"+"	"IGR"	"INS"	"-"	"-"	"TTTCTTTCTTTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	3	4	"."	0	""	"TTTCTTTCTTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"94f6dbc4-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"3877"	"CEP112"	201134	"mskcc.org"	"GRCh37"	"17"	63685554	63685554	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs5821582"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2608-218delT"	""	""	"ENST00000392769"	""	15	"."	5	6	"."	0	"CEP112,intron_variant,,ENST00000392769,NM_145036.3;CEP112,intron_variant,,ENST00000535342,NM_001199165.1;CEP112,intron_variant,,ENST00000537949,;CEP112,intron_variant,,ENST00000541355,;CEP112,intron_variant,,ENST00000317442,NM_001037325.2;CEP112,intron_variant,,ENST00000581739,;CEP112,intron_variant,,ENST00000580482,;CEP112,intron_variant,,ENST00000580694,;CEP112,intron_variant,,ENST00000582795,;CEP112,intron_variant,,ENST00000583466,;CEP112,intron_variant,,ENST00000581734,;"	"-"	"ENSG00000154240"	"ENST00000392769"	"Transcript"	"intron_variant"	"-/3517"	"-/2868"	"-/955"	""	""	"rs5821582"	"1"	NA	-1	"CEP112"	"HGNC"	28514	"protein_coding"	"YES"	"CCDS32710.1"	"ENSP00000376522"	"Q8N8E3"	"J3QQV3"	"UPI0000603C26"	"NM_145036.3"	NA	NA	""	"23/26"	""	"-:0.3113"	"-:0.2262"	"-:0.3429"	NA	"-:0.2946"	"-:0.3549"	"-:0.3763"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"82506c60-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3878"	"CEP112"	201134	"mskcc.org"	"GRCh37"	"17"	64001627	64001628	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs145866371"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1736+180dupT"	""	""	"ENST00000392769"	""	12	"."	6	4	"."	0	"CEP112,intron_variant,,ENST00000392769,NM_145036.3;CEP112,intron_variant,,ENST00000535342,NM_001199165.1;CEP112,intron_variant,,ENST00000537949,;CEP112,intron_variant,,ENST00000541355,;CEP112,downstream_gene_variant,,ENST00000583358,;"	"A"	"ENSG00000154240"	"ENST00000392769"	"Transcript"	"intron_variant"	"-/3517"	"-/2868"	"-/955"	""	""	"rs145866371"	"1"	NA	-1	"CEP112"	"HGNC"	28514	"protein_coding"	"YES"	"CCDS32710.1"	"ENSP00000376522"	"Q8N8E3"	"J3QQV3"	"UPI0000603C26"	"NM_145036.3"	NA	NA	""	"17/26"	""	"-:0.4639"	"A:0.2322"	"A:0.6585"	NA	"A:0.875"	"A:0.4374"	"A:0.6125"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"94f99ca6-280f-11e6-9a6e-06d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3879"	"CEP112"	201134	"mskcc.org"	"GRCh37"	"17"	64002046	64002047	"+"	"Intron"	"INS"	"-"	"-"	"ATACT"	"rs3055984"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1657-164_1657-160dupAGTAT"	""	""	"ENST00000392769"	""	41	"."	12	5	"."	0	"CEP112,intron_variant,,ENST00000392769,NM_145036.3;CEP112,intron_variant,,ENST00000535342,NM_001199165.1;CEP112,intron_variant,,ENST00000537949,;CEP112,intron_variant,,ENST00000541355,;CEP112,intron_variant,,ENST00000583358,;"	"ATACT"	"ENSG00000154240"	"ENST00000392769"	"Transcript"	"intron_variant"	"-/3517"	"-/2868"	"-/955"	""	""	"rs3055984"	"1"	NA	-1	"CEP112"	"HGNC"	28514	"protein_coding"	"YES"	"CCDS32710.1"	"ENSP00000376522"	"Q8N8E3"	"J3QQV3"	"UPI0000603C26"	"NM_145036.3"	NA	NA	""	"16/26"	""	"-:0.4637"	"ATACT:0.2322"	"ATACT:0.6585"	NA	"ATACT:0.875"	"ATACT:0.4374"	"ATACT:0.6135"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"94fa9886-280f-11e6-9a6e-06d4414a729f"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292682926829268	"WXS"	FALSE
"3880"	"CEP112"	201134	"mskcc.org"	"GRCh37"	"17"	64025855	64025870	"+"	"Intron"	"DEL"	"AACAGCAGTATTTAGA"	"AACAGCAGTATTTAGA"	"GCAGTAT"	"rs746916797"	NA	"JHCCPT5"	"JHCCPN5"	"AACAGCAGTATTTAGA"	"AACAGCAGTATTTAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1373+117_1373+132delTCTAAATACTGCTGTTinsATACTGC"	""	""	"ENST00000392769"	""	19	"."	6	5	"."	0	"CEP112,intron_variant,,ENST00000392769,NM_145036.3;CEP112,intron_variant,,ENST00000535342,NM_001199165.1;CEP112,intron_variant,,ENST00000537949,;CEP112,intron_variant,,ENST00000541355,;CEP112,intron_variant,,ENST00000583358,;"	"GCAGTAT"	"ENSG00000154240"	"ENST00000392769"	"Transcript"	"intron_variant"	"-/3517"	"-/2868"	"-/955"	""	""	"rs746916797"	"1"	NA	-1	"CEP112"	"HGNC"	28514	"protein_coding"	"YES"	"CCDS32710.1"	"ENSP00000376522"	"Q8N8E3"	"J3QQV3"	"UPI0000603C26"	"NM_145036.3"	NA	NA	""	"13/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAAACAGCAGTATTTAGAT"	"88d0a668-280f-11e6-9a6e-06d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WXS"	FALSE
"3881"	"CEP112"	201134	"mskcc.org"	"GRCh37"	"17"	64049621	64049623	"+"	"Intron"	"DEL"	"AAT"	"AAT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAT"	"AAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1218+231_1218+233delATT"	""	""	"ENST00000392769"	""	22	"."	5	3	"."	0	"CEP112,intron_variant,,ENST00000392769,NM_145036.3;CEP112,intron_variant,,ENST00000535342,NM_001199165.1;CEP112,intron_variant,,ENST00000537949,;CEP112,intron_variant,,ENST00000541355,;CEP112,intron_variant,,ENST00000583358,;"	"-"	"ENSG00000154240"	"ENST00000392769"	"Transcript"	"intron_variant"	"-/3517"	"-/2868"	"-/955"	""	""	""	"1"	NA	-1	"CEP112"	"HGNC"	28514	"protein_coding"	"YES"	"CCDS32710.1"	"ENSP00000376522"	"Q8N8E3"	"J3QQV3"	"UPI0000603C26"	"NM_145036.3"	NA	NA	""	"12/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAATA"	"82596928-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WXS"	FALSE
"3882"	"CEP112"	201134	"mskcc.org"	"GRCh37"	"17"	64049620	64049621	"+"	"Intron"	"INS"	"-"	"-"	"AAT"	"rs372811803,rs143255919"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1218+231_1218+233dupATT"	""	""	"ENST00000392769"	""	33	"."	6	4	"."	0	"CEP112,intron_variant,,ENST00000392769,NM_145036.3;CEP112,intron_variant,,ENST00000535342,NM_001199165.1;CEP112,intron_variant,,ENST00000537949,;CEP112,intron_variant,,ENST00000541355,;CEP112,intron_variant,,ENST00000583358,;"	"AAT"	"ENSG00000154240"	"ENST00000392769"	"Transcript"	"intron_variant"	"-/3517"	"-/2868"	"-/955"	""	""	"rs372811803,rs143255919"	"1"	NA	-1	"CEP112"	"HGNC"	28514	"protein_coding"	"YES"	"CCDS32710.1"	"ENSP00000376522"	"Q8N8E3"	"J3QQV3"	"UPI0000603C26"	"NM_145036.3"	NA	NA	""	"12/26"	""	"AAT:0.0455"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"950524a4-280f-11e6-9a6e-06d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"3883"	"CEP112"	201134	"mskcc.org"	"GRCh37"	"17"	64161362	64161362	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs36118619"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.470+9800delG"	""	""	"ENST00000392769"	""	6	"."	3	1	"."	0	"CEP112,intron_variant,,ENST00000392769,NM_145036.3;CEP112,intron_variant,,ENST00000535342,NM_001199165.1;CEP112,intron_variant,,ENST00000537949,;CEP112,intron_variant,,ENST00000583358,;"	"-"	"ENSG00000154240"	"ENST00000392769"	"Transcript"	"intron_variant"	"-/3517"	"-/2868"	"-/955"	""	""	"rs36118619"	"1"	NA	-1	"CEP112"	"HGNC"	28514	"protein_coding"	"YES"	"CCDS32710.1"	"ENSP00000376522"	"Q8N8E3"	"J3QQV3"	"UPI0000603C26"	"NM_145036.3"	NA	NA	""	"4/26"	""	"-:0.1183"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCC"	"825d024a-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3884"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	64282150	64282150	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs35706044"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35706044"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.0749"	"-:0.7814"	"-:0.9669"	NA	"-:1"	"-:0.9463"	"-:0.9908"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACC"	"825f186e-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3885"	"PITPNC1"	26207	"mskcc.org"	"GRCh37"	"17"	65416494	65416498	"+"	"Intron"	"DEL"	"CCCTC"	"CCCTC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CCCTC"	"CCCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.48+42183_48+42187delCTCCC"	""	""	"ENST00000581322"	""	8	"."	4	1	"."	0	"PITPNC1,intron_variant,,ENST00000580974,NM_012417.3,NM_181671.2;PITPNC1,intron_variant,,ENST00000299954,;PITPNC1,intron_variant,,ENST00000335257,;PITPNC1,intron_variant,,ENST00000581322,;PITPNC1,intron_variant,,ENST00000584471,;"	"-"	"ENSG00000154217"	"ENST00000581322"	"Transcript"	"intron_variant"	"-/1124"	"-/999"	"-/332"	""	""	""	"1"	NA	1	"PITPNC1"	"HGNC"	21045	"protein_coding"	"YES"	"CCDS58588.1"	"ENSP00000464006"	""	"J3QS95,J3QRS7,J3QR20"	"UPI00001AE46B"	""	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCCCTCC"	"829954b6-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3886"	"BPTF"	2186	"mskcc.org"	"GRCh37"	"17"	65906926	65906927	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs200868858"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2993-56_2993-55delTA"	""	""	"ENST00000306378"	""	51	"."	10	5	"."	0	"BPTF,intron_variant,,ENST00000321892,;BPTF,intron_variant,,ENST00000335221,NM_004459.6;BPTF,intron_variant,,ENST00000306378,NM_182641.3;BPTF,intron_variant,,ENST00000424123,;BPTF,intron_variant,,ENST00000544778,;"	"-"	"ENSG00000171634"	"ENST00000306378"	"Transcript"	"intron_variant"	"-/9688"	"-/8763"	"-/2920"	""	""	"rs200868858"	"1"	NA	1	"BPTF"	"HGNC"	3581	"protein_coding"	"YES"	"CCDS11673.1"	"ENSP00000307208"	"Q12830"	""	"UPI00002263BF"	"NM_182641.3"	NA	NA	""	"10/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"11"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAATA"	"82ae1b76-280f-11e6-9a6e-06d4414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196078431372549	"WXS"	FALSE
"3887"	"PRKAR1A"	5573	"mskcc.org"	"GRCh37"	"17"	66520806	66520807	"+"	"Intron"	"INS"	"-"	"-"	"TG"	"rs34658103"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.503-246_503-245insGT"	""	""	"ENST00000358598"	""	10	"."	5	1	"."	0	"PRKAR1A,intron_variant,,ENST00000589228,NM_001278433.1,NM_002734.4;PRKAR1A,intron_variant,,ENST00000536854,NM_001276289.1;PRKAR1A,intron_variant,,ENST00000392711,NM_212472.2;PRKAR1A,intron_variant,,ENST00000358598,NM_212471.2;PRKAR1A,intron_variant,,ENST00000586397,;PRKAR1A,intron_variant,,ENST00000588188,NM_001276290.1;PRKAR1A,intron_variant,,ENST00000589017,;PRKAR1A,intron_variant,,ENST00000585981,;PRKAR1A,intron_variant,,ENST00000588178,;PRKAR1A,upstream_gene_variant,,ENST00000592800,;PRKAR1A,downstream_gene_variant,,ENST00000588702,;PRKAR1A,downstream_gene_variant,,ENST00000585427,;PRKAR1A,downstream_gene_variant,,ENST00000585815,;PRKAR1A,downstream_gene_variant,,ENST00000589480,;RP11-120M18.2,intron_variant,,ENST00000590353,;PRKAR1A,intron_variant,,ENST00000392710,;PRKAR1A,intron_variant,,ENST00000585608,;PRKAR1A,downstream_gene_variant,,ENST00000585460,;PRKAR1A,upstream_gene_variant,,ENST00000586541,;PRKAR1A,upstream_gene_variant,,ENST00000585907,;"	"TG"	"ENSG00000108946"	"ENST00000358598"	"Transcript"	"intron_variant"	"-/3576"	"-/1146"	"-/381"	""	""	"rs34658103"	"1"	NA	1	"PRKAR1A"	"HGNC"	9388	"protein_coding"	""	"CCDS11678.1"	"ENSP00000351410"	"P10644"	"Q96P62,K7EQK3,K7EPR5,K7EPB2,K7ENR3,K7EMU2,K7EK41,K7EJ40,K7EIE5,K7EID3,B2R5T5"	"UPI0000001C57"	"NM_212471.2"	NA	NA	""	"5/10"	""	"TG:0.2250"	"TG:0.2625"	"TG:0.1657"	NA	"TG:0.1855"	"TG:0.2455"	"TG:0.2362"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"956d89cc-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	TRUE
"3888"	"FAM20A"	54757	"mskcc.org"	"GRCh37"	"17"	66547829	66547830	"+"	"Intron"	"INS"	"-"	"-"	"ATTATT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.719+179_719+184dupAATAAT"	""	""	"ENST00000592554"	""	53	"."	5	7	"."	0	"FAM20A,intron_variant,,ENST00000592554,NM_001243746.1,NM_017565.3;AC079210.1,downstream_gene_variant,,ENST00000600820,;PRKAR1A,downstream_gene_variant,,ENST00000588188,NM_001276290.1;FAM20A,intron_variant,,ENST00000226094,;FAM20A,intron_variant,,ENST00000592847,;FAM20A,intron_variant,,ENST00000590074,;"	"ATTATT"	"ENSG00000108950"	"ENST00000592554"	"Transcript"	"intron_variant"	"-/2955"	"-/1626"	"-/541"	""	""	""	"1"	NA	-1	"FAM20A"	"HGNC"	23015	"protein_coding"	"YES"	"CCDS11679.1"	"ENSP00000468308"	"Q96MK3"	"L8B8N7"	"UPI00001AE65B"	"NM_001243746.1,NM_017565.3"	NA	NA	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"95728260-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0943396226415094	"WXS"	FALSE
"3889"	"ABCA9"	10350	"mskcc.org"	"GRCh37"	"17"	66985397	66985398	"+"	"Intron"	"INS"	"-"	"-"	"CTCTCA"	"rs138281321"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3956-139_3956-138insTGAGAG"	""	""	"ENST00000340001"	""	39	"."	5	12	"."	0	"ABCA9,intron_variant,,ENST00000340001,NM_080283.3;ABCA9,intron_variant,,ENST00000370732,;ABCA9,intron_variant,,ENST00000453985,;ABCA9,upstream_gene_variant,,ENST00000482072,;ABCA9,downstream_gene_variant,,ENST00000460872,;"	"CTCTCA"	"ENSG00000154258"	"ENST00000340001"	"Transcript"	"intron_variant"	"-/6514"	"-/4875"	"-/1624"	""	""	"rs138281321"	"1"	NA	-1	"ABCA9"	"HGNC"	39	"protein_coding"	"YES"	"CCDS11681.1"	"ENSP00000342216"	"Q8IUA7"	"K7EJJ0"	"UPI00000747B1"	"NM_080283.3"	NA	NA	""	"30/38"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"957a5454-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128205128205128	"WXS"	FALSE
"3890"	"ABCA9"	10350	"mskcc.org"	"GRCh37"	"17"	67012261	67012266	"+"	"Intron"	"DEL"	"ATATAC"	"ATATAC"	"-"	"rs201422135"	NA	"JHCCPT5"	"JHCCPN5"	"ATATAC"	"ATATAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3039+128_3039+133delGTATAT"	""	""	"ENST00000340001"	""	27	"."	4	5	"."	0	"ABCA9,intron_variant,,ENST00000340001,NM_080283.3;ABCA9,intron_variant,,ENST00000370732,;ABCA9,intron_variant,,ENST00000453985,;ABCA9-AS1,intron_variant,,ENST00000458677,;ABCA9,intron_variant,,ENST00000492580,;"	"-"	"ENSG00000154258"	"ENST00000340001"	"Transcript"	"intron_variant"	"-/6514"	"-/4875"	"-/1624"	""	""	"rs201422135"	"1"	NA	-1	"ABCA9"	"HGNC"	39	"protein_coding"	"YES"	"CCDS11681.1"	"ENSP00000342216"	"Q8IUA7"	"K7EJJ0"	"UPI00000747B1"	"NM_080283.3"	NA	NA	""	"22/38"	""	"-:0.3261"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATATACA"	"831c2e5e-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WXS"	FALSE
"3891"	"ABCA9"	10350	"mskcc.org"	"GRCh37"	"17"	67012263	67012266	"+"	"Intron"	"DEL"	"ATAC"	"ATAC"	"-"	"rs201716826"	NA	"JHCCPT5"	"JHCCPN5"	"ATAC"	"ATAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3039+128_3039+131delGTAT"	""	""	"ENST00000340001"	""	27	"."	5	5	"."	0	"ABCA9,intron_variant,,ENST00000340001,NM_080283.3;ABCA9,intron_variant,,ENST00000370732,;ABCA9,intron_variant,,ENST00000453985,;ABCA9-AS1,intron_variant,,ENST00000458677,;ABCA9,intron_variant,,ENST00000492580,;"	"-"	"ENSG00000154258"	"ENST00000340001"	"Transcript"	"intron_variant"	"-/6514"	"-/4875"	"-/1624"	""	""	"rs201716826"	"1"	NA	-1	"ABCA9"	"HGNC"	39	"protein_coding"	"YES"	"CCDS11681.1"	"ENSP00000342216"	"Q8IUA7"	"K7EJJ0"	"UPI00000747B1"	"NM_080283.3"	NA	NA	""	"22/38"	""	"-:0.1577"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATACA"	"8321cfe4-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WXS"	FALSE
"3892"	"ABCA10"	10349	"mskcc.org"	"GRCh37"	"17"	67178976	67178976	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs370374257"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2498-27delC"	""	""	"ENST00000269081"	""	118	"."	7	27	"."	0	"ABCA10,intron_variant,,ENST00000269081,NM_080282.3;ABCA10,intron_variant,,ENST00000416101,;ABCA10,intron_variant,,ENST00000522406,;ABCA10,intron_variant,,ENST00000518929,;ABCA10,intron_variant,,ENST00000523419,;"	"-"	"ENSG00000154263"	"ENST00000269081"	"Transcript"	"intron_variant"	"-/6362"	"-/4632"	"-/1543"	""	""	"rs370374257"	"1"	NA	-1	"ABCA10"	"HGNC"	30	"protein_coding"	"YES"	"CCDS11684.1"	"ENSP00000269081"	"Q8WWZ4"	"K7ERP5"	"UPI000013D7F6"	"NM_080282.3"	NA	NA	""	"21/39"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.0002017"	"0.0001476"	"0"	"0.0001364"	"0"	"0.0002967"	"0"	"0"	NA	"common_variant"	"AAGA"	"8345de02-280f-11e6-9a6e-06d4414a729f"	"420"	0.0001836	"16/87152"	"21/104140"	"1/6776"	"0/10092"	"1/7332"	"0/6290"	"14/47182"	"0/544"	"0/8936"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.0593220338983051	"WXS"	FALSE
"3893"	"AC003051.1"	101928122	"mskcc.org"	"GRCh37"	"17"	67638826	67638826	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs34773409"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.316+17936delG"	""	""	"ENST00000591334"	""	12	"."	6	2	"."	0	"AC003051.1,intron_variant,,ENST00000591334,;AC003051.1,intron_variant,,ENST00000588185,;"	"-"	"ENSG00000227517"	"ENST00000591334"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/620"	""	""	""	""	"rs34773409"	"1"	NA	1	"AC003051.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"3/5"	""	"-:0.1933"	"-:0.0658"	"-:0.1974"	NA	"-:0.3542"	"-:0.1243"	"-:0.2679"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACGG"	"8364e450-280f-11e6-9a6e-06d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3894"	"SLC39A11"	201266	"mskcc.org"	"GRCh37"	"17"	70658681	70658692	"+"	"Intron"	"DEL"	"AAAGAAAAGAAA"	"AAAGAAAAGAAA"	"-"	"rs377616678"	NA	"JHCCPT5"	"JHCCPN5"	"AAAGAAAAGAAA"	"AAAGAAAAGAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.693-13285_693-13274delTTTCTTTTCTTT"	""	""	"ENST00000542342"	""	27	"."	4	8	"."	0	"SLC39A11,intron_variant,,ENST00000542342,NM_001159770.1;SLC39A11,intron_variant,,ENST00000255559,NM_139177.3;SLC39A11,intron_variant,,ENST00000582769,;RN7SKP180,downstream_gene_variant,,ENST00000363913,;SLC39A11,intron_variant,,ENST00000579988,;"	"-"	"ENSG00000133195"	"ENST00000542342"	"Transcript"	"intron_variant"	"-/2752"	"-/1029"	"-/342"	""	""	"rs377616678"	"1"	NA	-1	"SLC39A11"	"HGNC"	14463	"protein_coding"	"YES"	"CCDS54160.1"	"ENSP00000445829"	"Q8N1S5"	"J3QLA9,J3KT59,J3KRI1"	"UPI000020017B"	"NM_001159770.1"	NA	NA	""	"7/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAAGAAAAGAAAA"	"838407d6-280f-11e6-9a6e-06d4414a729f"	"239"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WXS"	FALSE
"3895"	"SLC39A11"	201266	"mskcc.org"	"GRCh37"	"17"	70658767	70658768	"+"	"Intron"	"INS"	"-"	"-"	"AAGAAAGAGAGA"	"rs141240125"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.693-13372_693-13361dupTCTCTCTTTCTT"	""	""	"ENST00000542342"	""	36	"."	3	8	"."	0	"SLC39A11,intron_variant,,ENST00000542342,NM_001159770.1;SLC39A11,intron_variant,,ENST00000255559,NM_139177.3;SLC39A11,intron_variant,,ENST00000582769,;RN7SKP180,downstream_gene_variant,,ENST00000363913,;SLC39A11,intron_variant,,ENST00000579988,;"	"AAGAAAGAGAGA"	"ENSG00000133195"	"ENST00000542342"	"Transcript"	"intron_variant"	"-/2752"	"-/1029"	"-/342"	""	""	"rs141240125"	"1"	NA	-1	"SLC39A11"	"HGNC"	14463	"protein_coding"	"YES"	"CCDS54160.1"	"ENSP00000445829"	"Q8N1S5"	"J3QLA9,J3KT59,J3KRI1"	"UPI000020017B"	"NM_001159770.1"	NA	NA	""	"7/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"95b3a13c-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WXS"	FALSE
"3896"	"SLC39A11"	201266	"mskcc.org"	"GRCh37"	"17"	70658767	70658768	"+"	"Intron"	"INS"	"-"	"-"	"AAGAAAGAGAGAAAGA"	"rs141240125"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.693-13376_693-13361dupTCTTTCTCTCTTTCTT"	""	""	"ENST00000542342"	""	36	"."	5	8	"."	0	"SLC39A11,intron_variant,,ENST00000542342,NM_001159770.1;SLC39A11,intron_variant,,ENST00000255559,NM_139177.3;SLC39A11,intron_variant,,ENST00000582769,;RN7SKP180,downstream_gene_variant,,ENST00000363913,;SLC39A11,intron_variant,,ENST00000579988,;"	"AAGAAAGAGAGAAAGA"	"ENSG00000133195"	"ENST00000542342"	"Transcript"	"intron_variant"	"-/2752"	"-/1029"	"-/342"	""	""	"rs141240125"	"1"	NA	-1	"SLC39A11"	"HGNC"	14463	"protein_coding"	"YES"	"CCDS54160.1"	"ENSP00000445829"	"Q8N1S5"	"J3QLA9,J3KT59,J3KRI1"	"UPI000020017B"	"NM_001159770.1"	NA	NA	""	"7/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"95b513be-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138888888888889	"WXS"	FALSE
"3897"	"CDC42EP4"	23580	"mskcc.org"	"GRCh37"	"17"	71295525	71295526	"+"	"Intron"	"INS"	"-"	"-"	"GCAC"	"rs112843367"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-113+12506_-113+12507insGTGC"	""	""	"ENST00000335793"	""	6	"."	4	4	"."	0	"CDC42EP4,intron_variant,,ENST00000335793,;CDC42EP4,intron_variant,,ENST00000439510,NM_012121.4;CDC42EP4,intron_variant,,ENST00000580315,;CDC42EP4,intron_variant,,ENST00000581014,;CDC42EP4,intron_variant,,ENST00000579611,;CDC42EP4,intron_variant,,ENST00000581045,;"	"GCAC"	"ENSG00000179604"	"ENST00000335793"	"Transcript"	"intron_variant"	"-/3272"	"-/1071"	"-/356"	""	""	"rs112843367"	"1"	NA	-1	"CDC42EP4"	"HGNC"	17147	"protein_coding"	"YES"	"CCDS11695.1"	"ENSP00000338258"	"Q9H3Q1"	"J3QQS6,J3KRZ9,B2R6D8"	"UPI000003B4C8"	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"95d4e748-280f-11e6-9a6e-06d4414a729f"	"224"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3898"	"SDK2"	54549	"mskcc.org"	"GRCh37"	"17"	71343919	71343919	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34322674"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6165+819delA"	""	""	"ENST00000392650"	""	10	"."	4	3	"."	0	"SDK2,intron_variant,,ENST00000392650,NM_001144952.1;SDK2,intron_variant,,ENST00000388726,;SDK2,intron_variant,,ENST00000424778,;SDK2,intron_variant,,ENST00000410094,;"	"-"	"ENSG00000069188"	"ENST00000392650"	"Transcript"	"intron_variant"	"-/10723"	"-/6519"	"-/2172"	""	""	"rs34322674"	"1"	NA	-1	"SDK2"	"HGNC"	19308	"protein_coding"	"YES"	"CCDS45769.1"	"ENSP00000376421"	"Q58EX2"	""	"UPI0000E5A088"	"NM_001144952.1"	NA	NA	""	"44/44"	""	"-:0.4151"	"-:0.4856"	"-:0.4914"	NA	"-:0.1905"	"-:0.4702"	"-:0.4407"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTT"	"83c4ba6a-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3899"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	72009117	72009118	"+"	"IGR"	"INS"	"-"	"-"	"GAA"	"rs34282966"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"."	8	2	"."	0	""	"GAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34282966"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GAA:0.2959"	"GAA:0.2723"	"GAA:0.268"	NA	"GAA:0.2371"	"GAA:0.3141"	"GAA:0.3896"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"95e8595e-280f-11e6-9a6e-06d4414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.421052631578947	"WXS"	FALSE
"3900"	"KIF19"	124602	"mskcc.org"	"GRCh37"	"17"	72336695	72336696	"+"	"Intron"	"INS"	"-"	"GCACACACACACAC"	"GCACACACACACAC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.121-1320_121-1319insGCACACACACACAC"	""	""	"ENST00000389916"	""	6	"."	5	3	"."	0	"KIF19,intron_variant,,ENST00000389916,NM_153209.3;KIF19,intron_variant,,ENST00000551294,;KIF19,intron_variant,,ENST00000547389,;KIF19,intron_variant,,ENST00000359939,;"	"GCACACACACACAC"	"ENSG00000196169"	"ENST00000389916"	"Transcript"	"intron_variant"	"-/3643"	"-/2997"	"-/998"	""	""	""	"1"	NA	1	"KIF19"	"HGNC"	26735	"protein_coding"	"YES"	"CCDS32718.2"	"ENSP00000374566"	"Q2TAC6"	""	"UPI0000F0A553"	"NM_153209.3"	NA	NA	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"95f34ea4-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3901"	"CASKIN2"	57513	"mskcc.org"	"GRCh37"	"17"	73504562	73504563	"+"	"Intron"	"INS"	"-"	"-"	"TGC"	"rs141311420"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.95-199_95-197dupGCA"	""	""	"ENST00000321617"	""	25	"."	7	6	"."	0	"CASKIN2,intron_variant,,ENST00000321617,NM_020753.4;CASKIN2,intron_variant,,ENST00000433559,NM_001142643.2;CASKIN2,intron_variant,,ENST00000581870,;CASKIN2,upstream_gene_variant,,ENST00000580021,;CASKIN2,upstream_gene_variant,,ENST00000583258,;CASKIN2,upstream_gene_variant,,ENST00000583246,;"	"TGC"	"ENSG00000177303"	"ENST00000321617"	"Transcript"	"intron_variant"	"-/5015"	"-/3609"	"-/1202"	""	""	"rs141311420"	"1"	NA	-1	"CASKIN2"	"HGNC"	18200	"protein_coding"	"YES"	"CCDS11723.1"	"ENSP00000325355"	"Q8WXE0"	"J3QKS3"	"UPI0000140BCB"	"NM_020753.4"	NA	NA	""	"2/19"	""	"TGC:0.0629"	"TGC:0.0673"	"TGC:0.0605"	NA	"TGC:0"	"TGC:0.0964"	"TGC:0.089"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"96a31762-280f-11e6-9a6e-06d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WXS"	FALSE
"3902"	"MYO15B"	80022	"mskcc.org"	"GRCh37"	"17"	73585405	73585431	"+"	"5'Flank"	"DEL"	"GGGCGGGGCCGCGGGAAAGCGGATGAA"	"GGGCGGGGCCGCGGGAAAGCGGATGAA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GGGCGGGGCCGCGGGAAAGCGGATGAA"	"GGGCGGGGCCGCGGGAAAGCGGATGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000582561"	""	13	"."	5	3	"."	0	"MYO15B,upstream_gene_variant,,ENST00000582561,;MYO15B,non_coding_transcript_exon_variant,,ENST00000578382,;MYO15B,non_coding_transcript_exon_variant,,ENST00000584516,;MYO15B,upstream_gene_variant,,ENST00000578564,;MYO15B,upstream_gene_variant,,ENST00000581612,;MYO15B,upstream_gene_variant,,ENST00000581866,;"	"-"	"ENSG00000266714"	"ENST00000582561"	"Transcript"	"upstream_gene_variant"	"-/608"	"-/502"	"-/167"	""	""	""	"1"	"1427"	1	"MYO15B"	"HGNC"	14083	"protein_coding"	""	""	"ENSP00000463072"	""	"J3KTN4"	"UPI000268B34D"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGGGCGGGGCCGCGGGAAAGCGGATGAAG"	"84d92d32-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"3903"	"RECQL5"	9400	"mskcc.org"	"GRCh37"	"17"	73619953	73619958	"+"	"3'Flank"	"DEL"	"CTTCTG"	"CTTCTG"	"GGT"	"rs386799251"	NA	"JHCCPT5"	"JHCCPN5"	"CTTCTG"	"CTTCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000317905"	""	178	"."	70	97	"."	0	"RECQL5,downstream_gene_variant,,ENST00000317905,NM_004259.6;RECQL5,downstream_gene_variant,,ENST00000423245,;RECQL5,downstream_gene_variant,,ENST00000581825,;RECQL5,downstream_gene_variant,,ENST00000582548,;MYO15B,intron_variant,,ENST00000578382,;MYO15B,intron_variant,,ENST00000580414,;MYO15B,intron_variant,,ENST00000578220,;MYO15B,intron_variant,,ENST00000577948,;MYO15B,intron_variant,,ENST00000580096,;RECQL5,downstream_gene_variant,,ENST00000443199,;MYO15B,upstream_gene_variant,,ENST00000580262,;MYO15B,downstream_gene_variant,,ENST00000577342,;MYO15B,downstream_gene_variant,,ENST00000583140,;MYO15B,intron_variant,,ENST00000577986,;RECQL5,downstream_gene_variant,,ENST00000578865,;MYO15B,downstream_gene_variant,,ENST00000577785,;MYO15B,downstream_gene_variant,,ENST00000582597,;MYO15B,downstream_gene_variant,,ENST00000577613,;MYO15B,downstream_gene_variant,,ENST00000579052,;MYO15B,downstream_gene_variant,,ENST00000578960,;MYO15B,downstream_gene_variant,,ENST00000579048,;MYO15B,downstream_gene_variant,,ENST00000577296,;MYO15B,downstream_gene_variant,,ENST00000578300,;"	"GGT"	"ENSG00000108469"	"ENST00000317905"	"Transcript"	"downstream_gene_variant"	"-/3704"	"-/2976"	"-/991"	""	""	"rs386799251"	"1"	"2976"	-1	"RECQL5"	"HGNC"	9950	"protein_coding"	"YES"	"CCDS42380.1"	"ENSP00000317636"	"O94762"	"Q9BW80,Q9BSD6,J3QLU0,J3KTQ2"	"UPI0000133477"	"NM_004259.6"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCTTCTGG"	"890764e6-280f-11e6-9a6e-06d4414a729f"	"4200"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.393258426966292	"WXS"	FALSE
"3904"	"ENSR00001353627"	0	"mskcc.org"	"GRCh37"	"17"	74252297	74252298	"+"	"IGR"	"INS"	"-"	"A"	"A"	"rs145093524"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001353627"	""	6	"."	5	1	"."	0	""	"A"	""	"ENSR00001353627"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs145093524"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.1024"	"A:0.1604"	"A:0.1974"	NA	"A:0.003"	"A:0.0755"	"A:0.0869"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"970f1ce6-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3905"	"SEPT9"	10801	"mskcc.org"	"GRCh37"	"17"	75292199	75292200	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs78975841"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.20-11023dupC"	""	""	"ENST00000427177"	""	7	"."	3	4	"."	0	"SEPT9,intron_variant,,ENST00000431235,;SEPT9,intron_variant,,ENST00000449803,NM_001113492.1;SEPT9,intron_variant,,ENST00000427177,NM_001113491.1;SEPT9,intron_variant,,ENST00000591198,;SEPT9,intron_variant,,ENST00000589070,;SEPT9,intron_variant,,ENST00000587237,;SEPT9,intron_variant,,ENST00000590576,;SEPT9,intron_variant,,ENST00000591833,;"	"C"	"ENSG00000184640"	"ENST00000427177"	"Transcript"	"intron_variant"	"-/3821"	"-/1761"	"-/586"	""	""	"rs78975841"	"1"	NA	1	"SEPT9"	"HGNC"	7323	"protein_coding"	"YES"	"CCDS45790.1"	"ENSP00000391249"	"Q9UHD8"	"Q96QF2,K7ERG1,K7ER52,K7EQD7,K7ENQ5,K7EN52,K7ELJ9,K7EL40,K7EKN4,K7EK18,K7EJZ2,K7EIR4,K7EIE4"	"UPI00001AF955"	"NM_001113491.1"	NA	NA	""	"1/11"	""	"-:0.0030"	"C:0.9894"	"C:0.9986"	NA	"C:1"	"C:1"	"C:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAC"	"973172f0-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	TRUE
"3906"	"AFMID"	125061	"mskcc.org"	"GRCh37"	"17"	76198339	76198340	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs542326531"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.155-225_155-224dupTA"	""	""	"ENST00000327898"	""	20	"."	3	2	"."	0	"AFMID,intron_variant,,ENST00000409257,NM_001010982.4,NM_001145526.2;AFMID,intron_variant,,ENST00000327898,;AFMID,intron_variant,,ENST00000588800,;AFMID,intron_variant,,ENST00000591256,;AFMID,intron_variant,,ENST00000591952,;AFMID,intron_variant,,ENST00000586542,;AFMID,downstream_gene_variant,,ENST00000589256,;AFMID,downstream_gene_variant,,ENST00000586731,;AFMID,intron_variant,,ENST00000591538,;AFMID,upstream_gene_variant,,ENST00000589664,;AFMID,upstream_gene_variant,,ENST00000587750,;AFMID,upstream_gene_variant,,ENST00000585419,;AFMID,intron_variant,,ENST00000592988,;AFMID,intron_variant,,ENST00000588199,;AFMID,intron_variant,,ENST00000589107,;"	"AT"	"ENSG00000183077"	"ENST00000327898"	"Transcript"	"intron_variant"	"-/1700"	"-/927"	"-/308"	""	""	"rs542326531"	"1"	NA	1	"AFMID"	"HGNC"	20910	"protein_coding"	"YES"	"CCDS45801.1"	"ENSP00000328938"	"Q63HM1"	""	"UPI000041A994"	""	NA	NA	""	"2/10"	""	"AT:0.0401"	"AT:0.0144"	"AT:0.049"	NA	"AT:0.004"	"AT:0.0805"	"AT:0.0644"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"17"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"97506728-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"3907"	"DNAH17"	8632	"mskcc.org"	"GRCh37"	"17"	76536299	76536300	"+"	"Intron"	"INS"	"-"	"TTTGA"	"TTTGA"	"rs113165962"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2533-338_2533-337insTCAAA"	""	""	"ENST00000389840"	""	6	"."	5	2	"."	0	"DNAH17,intron_variant,,ENST00000389840,;DNAH17,intron_variant,,ENST00000585328,NM_173628.3;DNAH17,downstream_gene_variant,,ENST00000589793,;"	"TTTGA"	"ENSG00000187775"	"ENST00000389840"	"Transcript"	"intron_variant"	"-/13792"	"-/13458"	"-/4485"	""	""	"rs113165962"	"1"	NA	-1	"DNAH17"	"HGNC"	2946	"protein_coding"	"YES"	""	"ENSP00000374490"	"Q9UFH2"	""	"UPI0001A5EE11"	""	NA	NA	""	"17/80"	""	"-:0.2632"	"TTTGA:0.7572"	"TTTGA:0.7147"	NA	"TTTGA:0.7381"	"TTTGA:0.7545"	"TTTGA:0.7055"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"9798345e-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3908"	"CCDC40"	55036	"mskcc.org"	"GRCh37"	"17"	78055186	78055187	"+"	"Intron"	"INS"	"-"	"-"	"AAATAAATAAATAAAT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1563-148_1563-133dupATAAATAAATAAATAA"	""	""	"ENST00000397545"	""	26	"."	4	16	"."	0	"CCDC40,intron_variant,,ENST00000397545,NM_017950.3;CCDC40,intron_variant,,ENST00000374877,NM_001243342.1;CCDC40,intron_variant,,ENST00000574799,;CCDC40,upstream_gene_variant,,ENST00000572253,;"	"AAATAAATAAATAAAT"	"ENSG00000141519"	"ENST00000397545"	"Transcript"	"intron_variant"	"-/4294"	"-/3429"	"-/1142"	""	""	""	"1"	NA	1	"CCDC40"	"HGNC"	26090	"protein_coding"	"YES"	"CCDS42395.1"	"ENSP00000380679"	"Q4G0X9"	"I3L2X6,I3L292"	"UPI0000201739"	"NM_017950.3"	NA	NA	""	"10/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"26"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"97cd880c-280f-11e6-9a6e-06d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WXS"	FALSE
"3909"	"RNF213"	57674	"mskcc.org"	"GRCh37"	"17"	78287223	78287271	"+"	"Intron"	"DEL"	"GTGGAGGTGATGGTGATGGTTGGTGGTGGTGGTGGTAGAGGTGATGGTG"	"GTGGAGGTGATGGTGATGGTTGGTGGTGGTGGTGGTAGAGGTGATGGTG"	"-"	"rs777085752"	NA	"JHCCPT5"	"JHCCPN5"	"GTGGAGGTGATGGTGATGGTTGGTGGTGGTGGTGGTAGAGGTGATGGTG"	"GTGGAGGTGATGGTGATGGTTGGTGGTGGTGGTGGTAGAGGTGATGGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2811+308_2811+356delGAGGTGATGGTGATGGTTGGTGGTGGTGGTGGTAGAGGTGATGGTGGTG"	""	""	"ENST00000582970"	""	31	"."	5	9	"."	0	"RNF213,intron_variant,,ENST00000582970,NM_001256071.1;RNF213,intron_variant,,ENST00000508628,;RNF213,intron_variant,,ENST00000319921,NM_020954.3;RNF213,intron_variant,,ENST00000456466,;CTD-2047H16.2,upstream_gene_variant,,ENST00000576808,;RNF213,intron_variant,,ENST00000559070,;"	"-"	"ENSG00000173821"	"ENST00000582970"	"Transcript"	"intron_variant"	"-/21055"	"-/15624"	"-/5207"	""	""	"rs777085752"	"1"	NA	1	"RNF213"	"HGNC"	14539	"protein_coding"	"YES"	"CCDS58606.1"	"ENSP00000464087"	"Q63HN8"	"H3BLU6"	"UPI0001D3BDB1"	"NM_001256071.1"	NA	NA	""	"15/67"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"52"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTGTGGAGGTGATGGTGATGGTTGGTGGTGGTGGTGGTAGAGGTGATGGTGG"	"86d19714-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161290322580645	"WXS"	TRUE
"3910"	"RPTOR"	57521	"mskcc.org"	"GRCh37"	"17"	78883030	78883031	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11395577"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2520+311dupT"	""	""	"ENST00000306801"	""	10	"."	6	3	"."	0	"RPTOR,intron_variant,,ENST00000306801,NM_020761.2;RPTOR,intron_variant,,ENST00000544334,NM_001163034.1;RPTOR,intron_variant,,ENST00000575542,;RPTOR,intron_variant,,ENST00000577161,;"	"T"	"ENSG00000141564"	"ENST00000306801"	"Transcript"	"intron_variant"	"-/6408"	"-/4008"	"-/1335"	""	""	"rs11395577"	"1"	NA	1	"RPTOR"	"HGNC"	30287	"protein_coding"	"YES"	"CCDS11773.1"	"ENSP00000307272"	"Q8N122"	"Q6DKI0"	"UPI000007000F"	"NM_020761.2"	NA	NA	""	"21/33"	""	"-:0.2444"	"T:0.6921"	"T:0.8213"	NA	"T:0.7619"	"T:0.838"	"T:0.7035"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"980016b4-280f-11e6-9a6e-06d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"3911"	"AATK"	9625	"mskcc.org"	"GRCh37"	"17"	79101944	79101945	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs35548893"	NA	"JHCCPT5"	"JHCCPN5"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.415-235_415-234delAG"	""	""	"ENST00000326724"	""	14	"."	5	2	"."	0	"AATK,intron_variant,,ENST00000326724,NM_001080395.2;AATK,intron_variant,,ENST00000417379,NM_004920.2;AATK,intron_variant,,ENST00000575363,;MIR657,upstream_gene_variant,,ENST00000385003,;MIR338,downstream_gene_variant,,ENST00000390137,;AATK,intron_variant,,ENST00000572339,;AATK,upstream_gene_variant,,ENST00000573441,;AATK,intron_variant,,ENST00000374792,;AATK,intron_variant,,ENST00000576053,;AATK,intron_variant,,ENST00000573469,;"	"-"	"ENSG00000181409"	"ENST00000326724"	"Transcript"	"intron_variant"	"-/5257"	"-/4125"	"-/1374"	""	""	"rs35548893"	"1"	NA	-1	"AATK"	"HGNC"	21	"protein_coding"	"YES"	"CCDS45807.1"	"ENSP00000324196"	"Q6ZMQ8"	"H7C175"	"UPI000041EA63"	"NM_001080395.2"	NA	NA	""	"4/13"	""	"-:0.4639"	"-:0.6165"	"-:0.5231"	NA	"-:0.2679"	"-:0.3728"	"-:0.5112"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCTC"	"872d6ab2-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"3912"	"FOXK2"	3607	"mskcc.org"	"GRCh37"	"17"	80525669	80525670	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs150679628"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.615-258_615-257delGT"	""	""	"ENST00000335255"	""	16	"."	3	7	"."	0	"FOXK2,intron_variant,,ENST00000335255,NM_004514.3;FOXK2,intron_variant,,ENST00000531030,;FOXK2,intron_variant,,ENST00000526383,;FOXK2,intron_variant,,ENST00000473637,;FOXK2,intron_variant,,ENST00000527313,;FOXK2,intron_variant,,ENST00000570585,;"	"-"	"ENSG00000141568"	"ENST00000335255"	"Transcript"	"intron_variant"	"-/5265"	"-/1983"	"-/660"	""	""	"rs150679628"	"1"	NA	1	"FOXK2"	"HGNC"	6036	"protein_coding"	"YES"	"CCDS11813.1"	"ENSP00000335677"	"Q01167"	"E9PM37"	"UPI00001A8BEE"	"NM_004514.3"	NA	NA	""	"2/8"	""	"-:0.1783"	"-:0.0174"	"-:0.1398"	NA	"-:0.3105"	"-:0.2008"	"-:0.2638"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTGT"	"882004fc-280f-11e6-9a6e-06d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"3913"	"WDR45B"	56270	"mskcc.org"	"GRCh37"	"17"	80606364	80606365	"+"	"5'UTR"	"INS"	"-"	"-"	"CGTGCGTG"	"rs150551798"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-156_-149dupCACGCACG"	""	""	"ENST00000392325"	"1/10"	36	"."	6	15	"."	0	"WDR45B,5_prime_UTR_variant,,ENST00000392325,NM_019613.3;WDR45B,non_coding_transcript_exon_variant,,ENST00000574828,;FOXK2,downstream_gene_variant,,ENST00000574694,;WDR45B,upstream_gene_variant,,ENST00000572583,;WDR45B,upstream_gene_variant,,ENST00000573616,;WDR45B,upstream_gene_variant,,ENST00000571817,;"	"CGTGCGTG"	"ENSG00000141580"	"ENST00000392325"	"Transcript"	"5_prime_UTR_variant"	"47-48/2587"	"-/1035"	"-/344"	""	""	"rs150551798"	"1"	NA	-1	"WDR45B"	"HGNC"	25072	"protein_coding"	"YES"	"CCDS11815.2"	"ENSP00000376139"	"Q5MNZ6"	"B4DMI6"	"UPI000020051D"	"NM_019613.3"	NA	NA	"1/10"	""	""	"CGTGCGTG:0.2418"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"98c26c50-280f-11e6-9a6e-06d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3914"	"TBCD"	6904	"mskcc.org"	"GRCh37"	"17"	80899774	80899775	"+"	"Intron"	"INS"	"-"	"-"	"TCT"	"rs550151318"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3564+419_3564+421dupTCT"	""	""	"ENST00000355528"	""	8	"."	5	2	"."	0	"TBCD,3_prime_UTR_variant,,ENST00000572794,;TBCD,intron_variant,,ENST00000355528,NM_005993.4;TBCD,intron_variant,,ENST00000539345,;TBCD,intron_variant,,ENST00000577051,;B3GNTL1,downstream_gene_variant,,ENST00000576599,;B3GNTL1,downstream_gene_variant,,ENST00000320865,NM_001009905.1;TBCD,intron_variant,,ENST00000576691,;TBCD,intron_variant,,ENST00000576603,;B3GNTL1,downstream_gene_variant,,ENST00000572267,;B3GNTL1,downstream_gene_variant,,ENST00000570947,;TBCD,intron_variant,,ENST00000576677,;TBCD,intron_variant,,ENST00000572389,;TBCD,intron_variant,,ENST00000576432,;B3GNTL1,downstream_gene_variant,,ENST00000571301,;B3GNTL1,downstream_gene_variant,,ENST00000572977,;B3GNTL1,downstream_gene_variant,,ENST00000571394,;TBCD,downstream_gene_variant,,ENST00000575132,;TBCD,downstream_gene_variant,,ENST00000573364,;B3GNTL1,downstream_gene_variant,,ENST00000573363,;"	"TCT"	"ENSG00000141556"	"ENST00000355528"	"Transcript"	"intron_variant"	"-/4094"	"-/3579"	"-/1192"	""	""	"rs550151318"	"1"	NA	1	"TBCD"	"HGNC"	11581	"protein_coding"	"YES"	"CCDS45818.1"	"ENSP00000347719"	"Q9BTW9"	"I3L4D2,I3L439,I3L3H4,I3L1S3,I3L163,I3L131"	"UPI000020053F"	"NM_005993.4"	NA	NA	""	"38/38"	""	"-:0.4297"	"TCT:0.2511"	"TCT:0.5576"	NA	"TCT:0.6964"	"TCT:0.6938"	"TCT:0.7536"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"98eb217c-280f-11e6-9a6e-06d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"3915"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	2503009	2503010	"+"	"IGR"	"INS"	"-"	"-"	"GAAGAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"."	4	8	"."	0	""	"GAAGAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"77cf18e0-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WXS"	FALSE
"3916"	"SMCHD1"	23347	"mskcc.org"	"GRCh37"	"18"	2695055	2695056	"+"	"Intron"	"INS"	"-"	"TTG"	"TTG"	"rs140642424"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1040+370_1040+372dupGTT"	""	""	"ENST00000320876"	""	8	"."	6	1	"."	0	"SMCHD1,intron_variant,,ENST00000320876,NM_015295.2;SMCHD1,intron_variant,,ENST00000261598,;RP11-703M24.5,intron_variant,,ENST00000583546,;SMCHD1,intron_variant,,ENST00000581226,;"	"TTG"	"ENSG00000101596"	"ENST00000320876"	"Transcript"	"intron_variant"	"-/8821"	"-/6018"	"-/2005"	""	""	"rs140642424"	"1"	NA	1	"SMCHD1"	"HGNC"	29090	"protein_coding"	"YES"	"CCDS45822.1"	"ENSP00000326603"	"A6NHR9"	""	"UPI00001D7AAD"	"NM_015295.2"	NA	NA	""	"8/47"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"77e056aa-280f-11e6-88d3-10d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"3917"	"RP11-703M24.5"	0	"mskcc.org"	"GRCh37"	"18"	2823401	2823404	"+"	"Intron"	"DEL"	"CTTT"	"CTTT"	"-"	"rs139759343"	NA	"JHCCPT5"	"JHCCPN5"	"CTTT"	"CTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.308+9210_308+9213delAAAG"	""	""	"ENST00000583546"	""	13	"."	4	6	"."	0	"RP11-703M24.5,intron_variant,,ENST00000583546,;RP11-703M24.5,intron_variant,,ENST00000581172,;"	"-"	"ENSG00000266049"	"ENST00000583546"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/690"	""	""	""	""	"rs139759343"	"1"	NA	-1	"RP11-703M24.5"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"-:0.2157"	"-:0.1498"	"-:0.1326"	NA	"-:0.4732"	"-:0.0964"	"-:0.2209"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTTC"	"65706a50-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3918"	"ZBTB14"	7541	"mskcc.org"	"GRCh37"	"18"	5290607	5290626	"+"	"3'UTR"	"DEL"	"AGGGAGAGAGGTGCTTACTG"	"AGGGAGAGAGGTGCTTACTG"	"GGGAGAGAGGTGCTTACT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AGGGAGAGAGGTGCTTACTG"	"AGGGAGAGAGGTGCTTACTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*231_*250delCAGTAAGCACCTCTCTCCCTinsAGTAAGCACCTCTCTCCC"	""	""	"ENST00000357006"	"4/4"	69	"."	8	9	"."	0	"ZBTB14,3_prime_UTR_variant,,ENST00000357006,NM_001143823.2,NM_001243704.1;ZBTB14,downstream_gene_variant,,ENST00000400143,NM_003409.4;ZBTB14,downstream_gene_variant,,ENST00000582388,NM_001243702.1;ZBTB14,downstream_gene_variant,,ENST00000582135,;ZBTB14,downstream_gene_variant,,ENST00000578327,;ZBTB14,downstream_gene_variant,,ENST00000585253,;"	"GGGAGAGAGGTGCTTACT"	"ENSG00000198081"	"ENST00000357006"	"Transcript"	"3_prime_UTR_variant"	"1920-1939/3528"	"-/1350"	"-/449"	""	""	""	"1"	NA	-1	"ZBTB14"	"HGNC"	12860	"protein_coding"	"YES"	"CCDS11837.1"	"ENSP00000349503"	"O43829"	"J3QLI2,J3QL74,J3KRQ2"	"UPI0000163BCB"	"NM_001143823.2,NM_001243704.1"	NA	NA	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGGGAGAGAGGTGCTTACTGG"	"7737771a-280f-11e6-88d3-10d4414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115942028985507	"WXS"	FALSE
"3919"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	6669044	6669047	"+"	"IGR"	"DEL"	"GTGA"	"-"	"-"	"rs10560353"	NA	"JHCCPT5"	"JHCCPN5"	"GTGA"	"GTGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10560353"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4801"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGTGAG"	"662de6ac-280f-11e6-88d3-10d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3920"	"ARHGAP28"	79822	"mskcc.org"	"GRCh37"	"18"	6868611	6868611	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs5822928"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.334+382delC"	""	""	"ENST00000419673"	""	9	"."	3	2	"."	0	"ARHGAP28,intron_variant,,ENST00000419673,NM_001010000.2;ARHGAP28,intron_variant,,ENST00000314319,;ARHGAP28,intron_variant,,ENST00000262227,;ARHGAP28,intron_variant,,ENST00000400091,;ARHGAP28,intron_variant,,ENST00000383472,;ARHGAP28,intron_variant,,ENST00000531294,;ARHGAP28,intron_variant,,ENST00000532996,;ARHGAP28,intron_variant,,ENST00000418986,;ARHGAP28,downstream_gene_variant,,ENST00000581099,;ARHGAP28,upstream_gene_variant,,ENST00000579689,;RP11-146G7.2,downstream_gene_variant,,ENST00000583659,;ARHGAP28,intron_variant,,ENST00000577524,;ARHGAP28,intron_variant,,ENST00000584287,;ARHGAP28,upstream_gene_variant,,ENST00000579245,;"	"-"	"ENSG00000088756"	"ENST00000419673"	"Transcript"	"intron_variant"	"-/5492"	"-/1713"	"-/570"	""	""	"rs5822928"	"1"	NA	1	"ARHGAP28"	"HGNC"	25509	"protein_coding"	"YES"	"CCDS32785.1"	"ENSP00000392660"	"Q9P2N2"	"J3KTC0"	"UPI00004CEC5C"	"NM_001010000.2"	NA	NA	""	"5/16"	""	"C:0.2284"	"-:0.7632"	"-:0.8429"	NA	"-:0.7083"	"-:0.9046"	"-:0.6605"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"6632ff34-280f-11e6-88d3-10d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3921"	"PTPRM"	5797	"mskcc.org"	"GRCh37"	"18"	8276091	8276092	"+"	"Intron"	"DEL"	"GT"	"GT"	"-"	"rs34169991"	NA	"JHCCPT5"	"JHCCPN5"	"GT"	"GT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2755-20275_2755-20274delGT"	""	""	"ENST00000580170"	""	12	"."	4	2	"."	0	"PTPRM,intron_variant,,ENST00000332175,NM_002845.3;PTPRM,intron_variant,,ENST00000580170,NM_001105244.1;PTPRM,intron_variant,,ENST00000400053,;PTPRM,intron_variant,,ENST00000444013,;PTPRM,intron_variant,,ENST00000400060,;PTPRM,intron_variant,,ENST00000577468,;PTPRM,intron_variant,,ENST00000577827,;"	"-"	"ENSG00000173482"	"ENST00000580170"	"Transcript"	"intron_variant"	"-/5941"	"-/4398"	"-/1465"	""	""	"rs34169991"	"1"	NA	1	"PTPRM"	"HGNC"	9675	"protein_coding"	"YES"	"CCDS58613.1"	"ENSP00000463325"	"P28827"	"Q49AC9"	"UPI00015CFC03"	"NM_001105244.1"	NA	NA	""	"19/32"	""	"-:0.0535"	"-:0.0091"	"-:0.085"	NA	"-:0"	"-:0.1252"	"-:0.0726"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGTC"	"66996378-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3922"	"SOGA2"	23255	"mskcc.org"	"GRCh37"	"18"	8785010	8785011	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs66769622"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1731+177dupT"	""	""	"ENST00000359865"	""	66	"."	6	41	"."	0	"SOGA2,intron_variant,,ENST00000359865,NM_015210.3;SOGA2,intron_variant,,ENST00000306285,;SOGA2,intron_variant,,ENST00000517570,;SOGA2,intron_variant,,ENST00000400050,;SOGA2,intron_variant,,ENST00000306329,;SOGA2,upstream_gene_variant,,ENST00000518815,;SOGA2,intron_variant,,ENST00000521018,;SOGA2,intron_variant,,ENST00000523811,;SOGA2,intron_variant,,ENST00000520495,;SOGA2,intron_variant,,ENST00000517554,;"	"T"	"ENSG00000168502"	"ENST00000359865"	"Transcript"	"intron_variant"	"-/6093"	"-/4761"	"-/1586"	""	""	"rs66769622"	"1"	NA	1	"SOGA2"	"HGNC"	29121	"protein_coding"	"YES"	"CCDS11841.1"	"ENSP00000352927"	"Q9Y4B5"	"J3QLE1"	"UPI0000456B5B"	"NM_015210.3"	NA	NA	""	"6/16"	""	"T:0.2646"	"T:0.0893"	"T:0.3271"	NA	"T:0.253"	"T:0.3698"	"T:0.3609"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"78e50f46-280f-11e6-88d3-10d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WXS"	FALSE
"3923"	"ENSR00000522053"	0	"mskcc.org"	"GRCh37"	"18"	8949269	8949270	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs34179238"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000522053"	""	19	"."	6	8	"."	0	""	"G"	""	"ENSR00000522053"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs34179238"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.3223"	"G:0.1097"	"G:0.3458"	NA	"G:0.5694"	"G:0.3608"	"G:0.2986"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"78ef2012-280f-11e6-88d3-10d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WXS"	FALSE
"3924"	"TWSG1"	57045	"mskcc.org"	"GRCh37"	"18"	9372368	9372369	"+"	"Intron"	"INS"	"-"	"-"	"AAAAT"	"rs150577923"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.223+12312_223+12316dupAATAA"	""	""	"ENST00000262120"	""	6	"."	4	2	"."	0	"TWSG1,intron_variant,,ENST00000262120,NM_020648.5;TWSG1,intron_variant,,ENST00000581641,;TWSG1,intron_variant,,ENST00000583147,;"	"AAAAT"	"ENSG00000128791"	"ENST00000262120"	"Transcript"	"intron_variant"	"-/3756"	"-/672"	"-/223"	""	""	"rs150577923"	"1"	NA	1	"TWSG1"	"HGNC"	12429	"protein_coding"	"YES"	"CCDS11844.1"	"ENSP00000262120"	"Q9GZX9"	""	"UPI0000071AF6"	"NM_020648.5"	NA	NA	""	"3/4"	""	"-:0.0170"	"AAAAT:0.9402"	"AAAAT:0.9957"	NA	"AAAAT:0.997"	"AAAAT:1"	"AAAAT:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"17"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"790f29d4-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3925"	"PPP4R1"	9989	"mskcc.org"	"GRCh37"	"18"	9548407	9548408	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs34715958"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2690-458dupC"	""	""	"ENST00000400556"	""	14	"."	3	2	"."	0	"PPP4R1,intron_variant,,ENST00000400556,NM_001042388.2;PPP4R1,intron_variant,,ENST00000400555,NM_005134.3;PPP4R1,intron_variant,,ENST00000579609,;PPP4R1,downstream_gene_variant,,ENST00000584754,;PPP4R1,intron_variant,,ENST00000582594,;PPP4R1,intron_variant,,ENST00000285124,;PPP4R1,downstream_gene_variant,,ENST00000578010,;PPP4R1,downstream_gene_variant,,ENST00000578329,;"	"G"	"ENSG00000154845"	"ENST00000400556"	"Transcript"	"intron_variant"	"-/3925"	"-/2853"	"-/950"	""	""	"rs34715958"	"1"	NA	-1	"PPP4R1"	"HGNC"	9320	"protein_coding"	"YES"	"CCDS42412.1"	"ENSP00000383402"	"Q8TF05"	"J3QLA6,J3QL26,J3KSB0,J3KRU1,B4DID3"	"UPI000006D6DE"	"NM_001042388.2"	NA	NA	""	"19/19"	""	"G:0.3776"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"7916a25e-280f-11e6-88d3-10d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"3926"	"VAPA"	9218	"mskcc.org"	"GRCh37"	"18"	9936716	9936717	"+"	"Intron"	"INS"	"-"	"-"	"GAAAAAAA"	"rs112351497"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.337-262_337-255dupAAAAGAAA"	""	""	"ENST00000340541"	""	10	"."	3	4	"."	0	"VAPA,intron_variant,,ENST00000400000,NM_194434.2,NM_003574.5;VAPA,intron_variant,,ENST00000340541,;VAPA,intron_variant,,ENST00000584796,;VAPA,intron_variant,,ENST00000583879,;VAPA,upstream_gene_variant,,ENST00000583475,;VAPA,downstream_gene_variant,,ENST00000577901,;VAPA,downstream_gene_variant,,ENST00000585042,;"	"GAAAAAAA"	"ENSG00000101558"	"ENST00000340541"	"Transcript"	"intron_variant"	"-/1227"	"-/885"	"-/294"	""	""	"rs112351497"	"1"	NA	1	"VAPA"	"HGNC"	12648	"protein_coding"	"YES"	"CCDS11847.2"	"ENSP00000345656"	"Q9P0L0"	""	"UPI000059D45E"	""	NA	NA	""	"3/6"	""	"-:0.0094"	"GAAAAAAA:0.975"	"GAAAAAAA:0.987"	NA	"GAAAAAAA:0.999"	"GAAAAAAA:0.996"	"GAAAAAAA:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"12"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"79538ca0-280f-11e6-88d3-10d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3927"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	10572664	10572665	"+"	"IGR"	"INS"	"-"	"-"	"TTTTA"	"rs113512551"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	2	"."	0	""	"TTTTA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113512551"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3157"	"TTTTA:0.6188"	"TTTTA:0.6729"	NA	"TTTTA:0.6815"	"TTTTA:0.661"	"TTTTA:0.8078"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7969df32-280f-11e6-88d3-10d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3928"	"PIEZO2"	63895	"mskcc.org"	"GRCh37"	"18"	10756957	10756958	"+"	"Intron"	"INS"	"-"	"-"	"GGGAATGAAGATGAGCTATGGAGATGAGAAGG"	"rs146135577"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3848+978_3848+1009dupCCTTCTCATCTCCATAGCTCATCTTCATTCCC"	""	""	"ENST00000503781"	""	12	"."	4	7	"."	0	"PIEZO2,intron_variant,,ENST00000302079,;PIEZO2,intron_variant,,ENST00000580640,;PIEZO2,intron_variant,,ENST00000503781,NM_022068.2;PIEZO2,intron_variant,,ENST00000383408,;PIEZO2,intron_variant,,ENST00000582913,;"	"GGGAATGAAGATGAGCTATGGAGATGAGAAGG"	"ENSG00000154864"	"ENST00000503781"	"Transcript"	"intron_variant"	"-/8259"	"-/8259"	"-/2752"	""	""	"rs146135577"	"1"	NA	-1	"PIEZO2"	"HGNC"	26270	"protein_coding"	"YES"	""	"ENSP00000421377"	"Q9H5I5"	"J3KSM7"	"UPI0001B3CB29"	"NM_022068.2"	NA	NA	""	"25/51"	""	"GGGAATGAAGATGAGCTATGGAGATGAGAAGG:0.4211"	"GGGAATGAAGATGAGCTATGGAGATGAGAAGG:0.7065"	"GGGAATGAAGATGAGCTATGGAGATGAGAAGG:0.2608"	NA	"GGGAATGAAGATGAGCTATGGAGATGAGAAGG:0.496"	"GGGAATGAAGATGAGCTATGGAGATGAGAAGG:0.2753"	"GGGAATGAAGATGAGCTATGGAGATGAGAAGG:0.2219"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"798bbdd2-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"3929"	"PIEZO2"	63895	"mskcc.org"	"GRCh37"	"18"	10759220	10759227	"+"	"Intron"	"DEL"	"TGTGTGTT"	"-"	"-"	"rs142098479"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTGTT"	"TGTGTGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3682+253_3682+260delAACACACA"	""	""	"ENST00000503781"	""	7	"."	5	4	"."	0	"PIEZO2,intron_variant,,ENST00000302079,;PIEZO2,intron_variant,,ENST00000580640,;PIEZO2,intron_variant,,ENST00000503781,NM_022068.2;PIEZO2,intron_variant,,ENST00000383408,;PIEZO2,intron_variant,,ENST00000582913,;"	"-"	"ENSG00000154864"	"ENST00000503781"	"Transcript"	"intron_variant"	"-/8259"	"-/8259"	"-/2752"	""	""	"rs142098479"	"1"	NA	-1	"PIEZO2"	"HGNC"	26270	"protein_coding"	"YES"	""	"ENSP00000421377"	"Q9H5I5"	"J3KSM7"	"UPI0001B3CB29"	"NM_022068.2"	NA	NA	""	"24/51"	""	"TGTGTGTT:0.1831"	"-:0.9024"	"-:0.7147"	NA	"-:0.9157"	"-:0.7694"	"-:0.7209"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTGTGTGTTT"	"6775098c-280f-11e6-88d3-10d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3930"	"GNAL"	2774	"mskcc.org"	"GRCh37"	"18"	11824700	11824701	"+"	"Intron"	"INS"	"-"	"-"	"AAAT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.625-214_625-213insTAAA"	""	""	"ENST00000334049"	""	40	"."	4	4	"."	0	"GNAL,intron_variant,,ENST00000334049,NM_182978.3;GNAL,intron_variant,,ENST00000423027,;GNAL,intron_variant,,ENST00000269162,NM_001142339.2;GNAL,intron_variant,,ENST00000535121,NM_001261443.1;GNAL,intron_variant,,ENST00000585642,;GNAL,intron_variant,,ENST00000590228,;GNAL,intron_variant,,ENST00000590972,;"	"AAAT"	"ENSG00000141404"	"ENST00000334049"	"Transcript"	"intron_variant"	"-/6535"	"-/1377"	"-/458"	""	""	""	"1"	NA	1	"GNAL"	"HGNC"	4388	"protein_coding"	"YES"	"CCDS11851.1"	"ENSP00000334051"	"P38405"	"Q8N2B4,K7EQ80,K7EPE2"	"UPI000017DF81"	"NM_182978.3"	NA	NA	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"799dd738-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WXS"	FALSE
"3931"	"PTPN2"	5771	"mskcc.org"	"GRCh37"	"18"	12897196	12897197	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs201274164"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-229+32301dupA"	""	""	"ENST00000592059"	""	18	"."	5	6	"."	0	"PTPN2,intron_variant,,ENST00000592059,;"	"T"	"ENSG00000175354"	"ENST00000592059"	"Transcript"	"intron_variant"	"-/577"	"-/204"	"-/68"	""	""	"rs201274164"	"1"	NA	-1	"PTPN2"	"HGNC"	9650	"protein_coding"	""	""	"ENSP00000466206"	""	"K7ELS9"	"UPI0002840C7B"	""	NA	NA	""	"1/4"	""	"T:0.0505"	"T:0.0726"	"T:0.0519"	NA	"T:0.004"	"T:0.0954"	"T:0.0215"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"79b190fc-280f-11e6-88d3-10d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"3932"	"CEP192"	55125	"mskcc.org"	"GRCh37"	"18"	13008245	13008246	"+"	"Intron"	"INS"	"-"	"TG"	"TG"	"rs139675031"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.291-208_291-207dupGT"	""	""	"ENST00000506447"	""	11	"."	8	1	"."	0	"CEP192,intron_variant,,ENST00000506447,NM_032142.3;CEP192,intron_variant,,ENST00000325971,;CEP192,intron_variant,,ENST00000589596,;CEP192,intron_variant,,ENST00000507064,;CEP192,upstream_gene_variant,,ENST00000513432,;"	"TG"	"ENSG00000101639"	"ENST00000506447"	"Transcript"	"intron_variant"	"-/7960"	"-/7614"	"-/2537"	""	""	"rs139675031"	"1"	NA	1	"CEP192"	"HGNC"	25515	"protein_coding"	"YES"	"CCDS32792.2"	"ENSP00000427550"	""	"E9PF99"	"UPI0001B09235"	"NM_032142.3"	NA	NA	""	"3/44"	""	"-:0.2230"	"TG:0.9773"	"TG:0.6455"	NA	"TG:0.8085"	"TG:0.6183"	"TG:0.7301"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"79ca8eea-280f-11e6-88d3-10d4414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.727272727272727	"WXS"	FALSE
"3933"	"RNMT"	8731	"mskcc.org"	"GRCh37"	"18"	13753815	13753816	"+"	"Intron"	"INS"	"-"	"-"	"ACACACACAC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1360-272_1360-263dupCACACACACA"	""	""	"ENST00000383314"	""	24	"."	4	4	"."	0	"RNMT,intron_variant,,ENST00000383314,;RNMT,intron_variant,,ENST00000262173,;RNMT,intron_variant,,ENST00000592764,NM_003799.1;RNMT,intron_variant,,ENST00000589866,;RNMT,intron_variant,,ENST00000543302,;RNMT,intron_variant,,ENST00000535051,;RNMT,intron_variant,,ENST00000593007,;RNMT,intron_variant,,ENST00000588457,;"	"ACACACACAC"	"ENSG00000101654"	"ENST00000383314"	"Transcript"	"intron_variant"	"-/6250"	"-/1431"	"-/476"	""	""	""	"1"	NA	1	"RNMT"	"HGNC"	10075	"protein_coding"	"YES"	"CCDS11867.1"	"ENSP00000372804"	"O43148"	"Q9UEB8,K7EPP5,K7EP06,F5H2D9"	"UPI000006F958"	""	NA	NA	""	"10/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"35"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"79ef32fe-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3934"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	13790423	13790424	"+"	"IGR"	"INS"	"-"	"-"	"CT"	"rs76124732"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"CT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs76124732"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1424"	"CT:0.8563"	"CT:0.8732"	NA	"CT:0.8948"	"CT:0.8767"	"CT:0.7904"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"79f2c93c-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3935"	"ENSR00000523049"	0	"mskcc.org"	"GRCh37"	"18"	19922508	19922509	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs544699078"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000523049"	""	7	"."	3	3	"."	0	""	"C"	""	"ENSR00000523049"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs544699078"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2502"	"C:0.3495"	"C:0.8545"	NA	"C:0.9196"	"C:0.8926"	"C:0.8947"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"7a4602b4-280f-11e6-88d3-10d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3936"	"RIOK3"	8780	"mskcc.org"	"GRCh37"	"18"	21056604	21056605	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs72529000"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1174-365dupG"	""	""	"ENST00000339486"	""	11	"."	4	1	"."	0	"RIOK3,intron_variant,,ENST00000339486,NM_003831.3;RIOK3,intron_variant,,ENST00000581585,;RIOK3,intron_variant,,ENST00000577501,;RIOK3,upstream_gene_variant,,ENST00000577250,;RIOK3,intron_variant,,ENST00000581302,;RIOK3,intron_variant,,ENST00000581339,;RIOK3,intron_variant,,ENST00000584130,;RIOK3,upstream_gene_variant,,ENST00000581220,;"	"G"	"ENSG00000101782"	"ENST00000339486"	"Transcript"	"intron_variant"	"-/4038"	"-/1560"	"-/519"	""	""	"rs72529000"	"1"	NA	1	"RIOK3"	"HGNC"	11451	"protein_coding"	"YES"	"CCDS11877.1"	"ENSP00000341874"	"O14730"	"B0YJ89"	"UPI000013C732"	"NM_003831.3"	NA	NA	""	"9/12"	""	"-:0.0805"	"G:0.969"	"G:0.9669"	NA	"G:0.9425"	"G:0.9245"	"G:0.7904"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"7a57550a-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3937"	"TTC39C"	125488	"mskcc.org"	"GRCh37"	"18"	21607854	21607855	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs34961803"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.167+12856dupG"	""	""	"ENST00000317571"	""	8	"."	5	1	"."	0	"TTC39C,intron_variant,,ENST00000317571,NM_001135993.1;TTC39C,intron_variant,,ENST00000304621,NM_153211.3;TTC39C,intron_variant,,ENST00000578150,;"	"G"	"ENSG00000168234"	"ENST00000317571"	"Transcript"	"intron_variant"	"-/2442"	"-/1752"	"-/583"	""	""	"rs34961803"	"1"	NA	1	"TTC39C"	"HGNC"	26595	"protein_coding"	"YES"	"CCDS45839.1"	"ENSP00000323645"	"Q8N584"	"J3QKX7"	"UPI0000EF8875"	"NM_001135993.1"	NA	NA	""	"1/13"	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"7a74f362-280f-11e6-88d3-10d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"3938"	"OSBPL1A"	114876	"mskcc.org"	"GRCh37"	"18"	21893910	21893911	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs5823424"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.969+302dupT"	""	""	"ENST00000319481"	""	13	"."	3	2	"."	0	"OSBPL1A,intron_variant,,ENST00000319481,NM_080597.3;OSBPL1A,upstream_gene_variant,,ENST00000357041,NM_001242508.1;OSBPL1A,upstream_gene_variant,,ENST00000581043,;OSBPL1A,intron_variant,,ENST00000578091,;OSBPL1A,intron_variant,,ENST00000579851,;OSBPL1A,downstream_gene_variant,,ENST00000582645,;OSBPL1A,upstream_gene_variant,,ENST00000584119,;"	"A"	"ENSG00000141447"	"ENST00000319481"	"Transcript"	"intron_variant"	"-/4195"	"-/2853"	"-/950"	""	""	"rs5823424"	"1"	NA	-1	"OSBPL1A"	"HGNC"	16398	"protein_coding"	"YES"	"CCDS11884.1"	"ENSP00000320291"	"Q9BXW6"	"Q96IZ3,Q6GSK5,B0YJ56"	"UPI0000130E95"	"NM_080597.3"	NA	NA	""	"12/27"	""	"A:0.2159"	"A:0.1619"	"A:0.2536"	NA	"A:0.0615"	"A:0.4384"	"A:0.1922"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7a7cf35a-280f-11e6-88d3-10d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"3939"	"RP11-958F21.1"	0	"mskcc.org"	"GRCh37"	"18"	22569548	22569549	"+"	"5'Flank"	"INS"	"-"	"-"	"AAAG"	"rs34796001"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000580984"	""	10	"."	4	1	"."	0	"RP11-958F21.1,upstream_gene_variant,,ENST00000580984,;RP11-958F21.1,upstream_gene_variant,,ENST00000582697,;"	"AAAG"	"ENSG00000264345"	"ENST00000580984"	"Transcript"	"upstream_gene_variant"	"-/487"	""	""	""	""	"rs34796001"	"1"	"1902"	-1	"RP11-958F21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2548"	"AAAG:0.6952"	"AAAG:0.7867"	NA	"AAAG:0.8175"	"AAAG:0.7167"	"AAAG:0.7382"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"7a871402-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3940"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	23489830	23489831	"+"	"IGR"	"INS"	"-"	"-"	"AT"	"rs33998133"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	6	8	"."	0	""	"AT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs33998133"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3594"	"AT:0.4834"	"AT:0.6412"	NA	"AT:0.7381"	"AT:0.6292"	"AT:0.7638"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7a96f322-280f-11e6-88d3-10d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3941"	"AQP4-AS1"	147429	"mskcc.org"	"GRCh37"	"18"	24322599	24322610	"+"	"Intron"	"DEL"	"AAAGAAAGAAAG"	"-"	"-"	"rs200845554"	NA	"JHCCPT5"	"JHCCPN5"	"AAAGAAAGAAAG"	"AAAGAAAGAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.305+32634_305+32645delAGAAAGAAAGAA"	""	""	"ENST00000582605"	""	7	"."	5	1	"."	0	"AQP4-AS1,intron_variant,,ENST00000582605,;AQP4-AS1,intron_variant,,ENST00000579964,;"	"-"	"ENSG00000260372"	"ENST00000582605"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/525"	""	""	""	""	"rs200845554"	"1"	NA	1	"AQP4-AS1"	"HGNC"	26399	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"3/5"	""	"AAAGAAAGAAAG:0.2580"	"-:0.7277"	"-:0.781"	NA	"-:0.8214"	"-:0.7018"	"-:0.6933"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"38"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAGAAAGAAAGA"	"6aa1c9b0-280f-11e6-88d3-10d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"3942"	"CHST9"	83539	"mskcc.org"	"GRCh37"	"18"	24633312	24633312	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs67100119"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.122-4845delC"	""	""	"ENST00000284224"	""	14	"."	6	5	"."	0	"CHST9,intron_variant,,ENST00000284224,NM_031422.5;CHST9,intron_variant,,ENST00000581714,;CHST9,intron_variant,,ENST00000580774,NM_001256316.1;AQP4-AS1,intron_variant,,ENST00000578701,;"	"-"	"ENSG00000154080"	"ENST00000284224"	"Transcript"	"intron_variant"	"-/2238"	"-/1332"	"-/443"	""	""	"rs67100119"	"1"	NA	-1	"CHST9"	"HGNC"	19898	"protein_coding"	"YES"	"CCDS42422.1"	"ENSP00000284224"	"Q7L1S5"	""	"UPI000006EC67"	"NM_031422.5"	NA	NA	""	"2/5"	""	"G:0.2540"	"-:0.8222"	"-:0.7421"	NA	"-:0.6905"	"-:0.7922"	"-:0.6554"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGC"	"6aa8c5f8-280f-11e6-88d3-10d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"3943"	"RP11-739N10.1"	0	"mskcc.org"	"GRCh37"	"18"	25008614	25008614	"+"	"Intron"	"DEL"	"C"	"-"	"-"	"rs36110195"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.447+73029delG"	""	""	"ENST00000584546"	""	6	"."	6	1	"."	0	"RP11-739N10.1,intron_variant,,ENST00000584546,;"	"-"	"ENSG00000264151"	"ENST00000584546"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1352"	""	""	""	""	"rs36110195"	"1"	NA	-1	"RP11-739N10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/4"	""	"C:0.4932"	"-:0.5295"	"-:0.5605"	NA	"-:0.4286"	"-:0.4473"	"-:0.5798"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCC"	"6aafda32-280f-11e6-88d3-10d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"3944"	"RP11-739N10.1"	0	"mskcc.org"	"GRCh37"	"18"	25098799	25098800	"+"	"Intron"	"DEL"	"AA"	"AA"	"-"	"rs140153574"	NA	"JHCCPT5"	"JHCCPN5"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.261-16971_261-16970delTT"	""	""	"ENST00000584546"	""	10	"."	4	1	"."	0	"RP11-739N10.1,intron_variant,,ENST00000584546,;"	"-"	"ENSG00000264151"	"ENST00000584546"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1352"	""	""	""	""	"rs140153574"	"1"	NA	-1	"RP11-739N10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	""	"-:0.2156"	"-:0.098"	NA	"-:0.001"	"-:0.0457"	"-:0.0419"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAAA"	"6ab102ae-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"3945"	"RP11-534N16.1"	101927718	"mskcc.org"	"GRCh37"	"18"	29003243	29003244	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs34496608"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.95+3552dupT"	""	""	"ENST00000581856"	""	19	"."	3	2	"."	0	"RP11-534N16.1,intron_variant,,ENST00000581856,;RP11-534N16.1,intron_variant,,ENST00000578477,;"	"A"	"ENSG00000266729"	"ENST00000581856"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/669"	""	""	""	""	"rs34496608"	"1"	NA	-1	"RP11-534N16.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"-:0.2997"	"A:0.6558"	"A:0.7594"	NA	"A:0.744"	"A:0.6988"	"A:0.6748"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7af611a4-280f-11e6-88d3-10d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WXS"	FALSE
"3946"	"B4GALT6"	9331	"mskcc.org"	"GRCh37"	"18"	29238076	29238076	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs372369000"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.233-24delG"	""	""	"ENST00000306851"	""	77	"."	7	28	"."	0	"B4GALT6,intron_variant,,ENST00000306851,NM_004775.3;B4GALT6,intron_variant,,ENST00000237019,;B4GALT6,intron_variant,,ENST00000383131,;B4GALT6,intron_variant,,ENST00000579372,;B4GALT6,non_coding_transcript_exon_variant,,ENST00000578114,;"	"-"	"ENSG00000118276"	"ENST00000306851"	"Transcript"	"intron_variant"	"-/3891"	"-/1149"	"-/382"	""	""	"rs372369000"	"1"	NA	-1	"B4GALT6"	"HGNC"	929	"protein_coding"	"YES"	"CCDS11900.1"	"ENSP00000306459"	"Q9UBX8"	"Q6NT00,J3QQY9"	"UPI0000126721"	"NM_004775.3"	NA	NA	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.01364"	"0.006486"	"0.03738"	"0.04651"	"0.03083"	"0.01708"	"0.007092"	"0.03885"	NA	"common_variant"	"TACA"	"6b480bf4-280f-11e6-88d3-10d4414a729f"	"420"	0.02187	"899/41110"	"1380/101188"	"33/5088"	"152/4066"	"104/2236"	"100/3244"	"400/23414"	"2/282"	"108/2780"	"VQSRTrancheINDEL97.00to99.00"	"FALSE"	0.0909090909090909	"WXS"	FALSE
"3947"	"CCDC178"	374864	"mskcc.org"	"GRCh37"	"18"	30806984	30806988	"+"	"Intron"	"DEL"	"GTAAA"	"GTAAA"	"-"	"rs140434666"	NA	"JHCCPT5"	"JHCCPN5"	"GTAAA"	"GTAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1594-169_1594-165delTTTAC"	""	""	"ENST00000383096"	""	29	"."	7	8	"."	0	"CCDC178,intron_variant,,ENST00000383096,;CCDC178,intron_variant,,ENST00000403303,NM_001105528.1;CCDC178,intron_variant,,ENST00000583930,;CCDC178,intron_variant,,ENST00000300227,NM_198995.2;CCDC178,intron_variant,,ENST00000406524,;CCDC178,intron_variant,,ENST00000579947,;CCDC178,intron_variant,,ENST00000402325,;CCDC178,intron_variant,,ENST00000581524,;CCDC178,intron_variant,,ENST00000579916,;"	"-"	"ENSG00000166960"	"ENST00000383096"	"Transcript"	"intron_variant"	"-/3391"	"-/2604"	"-/867"	""	""	"rs140434666"	"1"	NA	-1	"CCDC178"	"HGNC"	29588	"protein_coding"	"YES"	"CCDS42424.1"	"ENSP00000372576"	"Q5BJE1"	"J3QKU2"	"UPI000022A700"	""	NA	NA	""	"15/22"	""	"-:0.0781"	"-:0.1952"	"-:0.0562"	NA	"-:0.001"	"-:0.0785"	"-:0.0143"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGTAAAG"	"6bd756b0-280f-11e6-88d3-10d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241379310344828	"WXS"	FALSE
"3948"	"DTNA"	1837	"mskcc.org"	"GRCh37"	"18"	32347664	32347665	"+"	"Intron"	"INS"	"-"	"-"	"CCAG"	"rs6146261"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.148+1661_148+1662insAGCC"	""	""	"ENST00000598334"	""	11	"."	4	2	"."	0	"DTNA,intron_variant,,ENST00000283365,NM_032975.3;DTNA,intron_variant,,ENST00000399121,NM_001198939.1;DTNA,intron_variant,,ENST00000444659,NM_001390.4;DTNA,intron_variant,,ENST00000269190,;DTNA,intron_variant,,ENST00000399097,;DTNA,intron_variant,,ENST00000595022,NM_001198940.1;DTNA,intron_variant,,ENST00000348997,NM_032978.6;DTNA,intron_variant,,ENST00000269191,NM_001391.5;DTNA,intron_variant,,ENST00000598334,NM_001198938.1;DTNA,intron_variant,,ENST00000598142,;DTNA,intron_variant,,ENST00000598774,NM_032979.4;DTNA,intron_variant,,ENST00000399113,;DTNA,intron_variant,,ENST00000597599,NM_001198941.1;DTNA,intron_variant,,ENST00000315456,NM_001392.4;DTNA,intron_variant,,ENST00000554864,NM_001128175.1;DTNA,intron_variant,,ENST00000596745,NM_001198945.1;DTNA,intron_variant,,ENST00000590598,;DTNA,intron_variant,,ENST00000590412,;DTNA,intron_variant,,ENST00000588949,;DTNA,downstream_gene_variant,,ENST00000588125,;DTNA,downstream_gene_variant,,ENST00000591816,;RP11-138H11.1,upstream_gene_variant,,ENST00000596954,;DTNA,intron_variant,,ENST00000585446,;"	"CCAG"	"ENSG00000134769"	"ENST00000598334"	"Transcript"	"intron_variant"	"-/3201"	"-/2175"	"-/724"	""	""	"rs6146261"	"1"	NA	1	"DTNA"	"HGNC"	3057	"protein_coding"	"YES"	"CCDS59312.1"	"ENSP00000470152"	""	"M0QYX6,K7ERZ2,K7ERH7,K7ER73,K7ENJ7,K7EMN1,K7EJ84"	"UPI0001E92A2F"	"NM_001198938.1"	NA	NA	""	"4/19"	""	"-:0.0801"	"CCAG:0.7118"	"CCAG:0.9741"	NA	"CCAG:1"	"CCAG:0.998"	"CCAG:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"7b448e10-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"3949"	"ZNF396"	252884	"mskcc.org"	"GRCh37"	"18"	32948446	32948447	"+"	"Intron"	"INS"	"-"	"-"	"TTTA"	"rs374405615"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.908-41_908-38dupTAAA"	""	""	"ENST00000306346"	""	62	"."	10	6	"."	0	"ZNF396,3_prime_UTR_variant,,ENST00000589332,;ZNF396,intron_variant,,ENST00000306346,NM_145756.2;ZNF396,downstream_gene_variant,,ENST00000586687,;ZNF396,downstream_gene_variant,,ENST00000586585,;"	"TTTA"	"ENSG00000186496"	"ENST00000306346"	"Transcript"	"intron_variant"	"-/2788"	"-/1002"	"-/333"	""	""	"rs374405615"	"1"	NA	-1	"ZNF396"	"HGNC"	18824	"protein_coding"	"YES"	"CCDS11913.1"	"ENSP00000302310"	"Q96N95"	"K7ERR8,K7EK38"	"UPI000013C36B"	"NM_145756.2"	NA	NA	""	"4/4"	""	"-:0.3534"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	"0.03799"	"0.006091"	"0.007108"	"0.01078"	"0.113"	"0.02034"	"0.07692"	"0.05297"	NA	"common_variant"	"TTT"	"7b6dab88-280f-11e6-88d3-10d4414a729f"	"600"	0.0288	"491/17050"	"3123/82198"	"12/1970"	"23/3236"	"11/1020"	"113/1000"	"119/5850"	"8/104"	"205/3870"	"PASS"	"FALSE"	0.161290322580645	"WXS"	FALSE
"3950"	"ZNF396"	252884	"mskcc.org"	"GRCh37"	"18"	32948446	32948447	"+"	"Intron"	"INS"	"-"	"-"	"TTTATTTATTTA"	"rs374405615"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.908-49_908-38dupTAAATAAATAAA"	""	""	"ENST00000306346"	""	62	"."	3	6	"."	0	"ZNF396,3_prime_UTR_variant,,ENST00000589332,;ZNF396,intron_variant,,ENST00000306346,NM_145756.2;ZNF396,downstream_gene_variant,,ENST00000586687,;ZNF396,downstream_gene_variant,,ENST00000586585,;"	"TTTATTTATTTA"	"ENSG00000186496"	"ENST00000306346"	"Transcript"	"intron_variant"	"-/2788"	"-/1002"	"-/333"	""	""	"rs374405615"	"1"	NA	-1	"ZNF396"	"HGNC"	18824	"protein_coding"	"YES"	"CCDS11913.1"	"ENSP00000302310"	"Q96N95"	"K7ERR8,K7EK38"	"UPI000013C36B"	"NM_145756.2"	NA	NA	""	"4/4"	""	"-:0.3534"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	"0.01439"	"0.01624"	"0.004944"	"0.004902"	"0.062"	"0.0106"	"0.02885"	"0.03178"	NA	"common_variant"	"TTT"	"7b6f4e34-280f-11e6-88d3-10d4414a729f"	"180"	0.01777	"303/17050"	"1183/82198"	"32/1970"	"16/3236"	"5/1020"	"62/1000"	"62/5850"	"3/104"	"123/3870"	"PASS"	"FALSE"	0.0483870967741935	"WXS"	FALSE
"3951"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	33103544	33103545	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs11427509"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	2	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11427509"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"7b726c5e-280f-11e6-88d3-10d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3952"	"MOCOS"	55034	"mskcc.org"	"GRCh37"	"18"	33765451	33765452	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs11372493"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000261326"	""	9	"."	5	1	"."	0	"MOCOS,upstream_gene_variant,,ENST00000261326,NM_017947.2;RP11-49I11.1,intron_variant,,ENST00000568654,;"	"C"	"ENSG00000075643"	"ENST00000261326"	"Transcript"	"upstream_gene_variant"	"-/6160"	"-/2667"	"-/888"	""	""	"rs11372493"	"1"	"2030"	1	"MOCOS"	"HGNC"	18234	"protein_coding"	"YES"	"CCDS11919.1"	"ENSP00000261326"	"Q96EN8"	""	"UPI000013D165"	"NM_017947.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"7b95c172-280f-11e6-88d3-10d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3953"	"FHOD3"	80206	"mskcc.org"	"GRCh37"	"18"	33964860	33964861	"+"	"Intron"	"INS"	"-"	"-"	"ACCACCACC"	"rs139300334"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.337+12174_337+12182dupCACCACCAC"	""	""	"ENST00000257209"	""	103	"."	7	11	"."	0	"FHOD3,intron_variant,,ENST00000257209,NM_025135.2;FHOD3,intron_variant,,ENST00000590592,NM_001281740.1;FHOD3,intron_variant,,ENST00000445677,;FHOD3,intron_variant,,ENST00000359247,NM_001281739.1;FHOD3,intron_variant,,ENST00000589114,;"	"ACCACCACC"	"ENSG00000134775"	"ENST00000257209"	"Transcript"	"intron_variant"	"-/4967"	"-/4320"	"-/1439"	""	""	"rs139300334"	"1"	NA	1	"FHOD3"	"HGNC"	26178	"protein_coding"	"YES"	"CCDS32816.1"	"ENSP00000257209"	"Q2V2M9"	""	"UPI0000251DB7"	"NM_025135.2"	NA	NA	""	"3/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"29"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7bb05f6e-280f-11e6-88d3-10d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0679611650485437	"WXS"	FALSE
"3954"	"FHOD3"	80206	"mskcc.org"	"GRCh37"	"18"	34300710	34300728	"+"	"Intron"	"DEL"	"TCTTCTCCTCCTGCTCCTT"	"TCTTCTCCTCCTGCTCCTT"	"CCTCCTTCTTCTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TCTTCTCCTCCTGCTCCTT"	"TCTTCTCCTCCTGCTCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2892+2032_2892+2050delTCTTCTCCTCCTGCTCCTTinsCCTCCTTCTTCTC"	""	""	"ENST00000257209"	""	31	"."	4	5	"."	0	"FHOD3,intron_variant,,ENST00000257209,NM_025135.2;FHOD3,intron_variant,,ENST00000590592,NM_001281740.1;FHOD3,intron_variant,,ENST00000445677,;FHOD3,intron_variant,,ENST00000359247,NM_001281739.1;FHOD3,intron_variant,,ENST00000592930,;FHOD3,intron_variant,,ENST00000591635,;FHOD3,intron_variant,,ENST00000592128,;FHOD3,downstream_gene_variant,,ENST00000587493,;"	"CCTCCTTCTTCTC"	"ENSG00000134775"	"ENST00000257209"	"Transcript"	"intron_variant"	"-/4967"	"-/4320"	"-/1439"	""	""	""	"1"	NA	1	"FHOD3"	"HGNC"	26178	"protein_coding"	"YES"	"CCDS32816.1"	"ENSP00000257209"	"Q2V2M9"	""	"UPI0000251DB7"	"NM_025135.2"	NA	NA	""	"16/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTCTTCTCCTCCTGCTCCTTC"	"775dbd30-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WXS"	FALSE
"3955"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	35570627	35570627	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs34270506"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	6	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34270506"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2003"	"-:0.0129"	"-:0.3833"	NA	"-:0.2292"	"-:0.2018"	"-:0.2924"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGG"	"6d5a2062-280f-11e6-88d3-10d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"3956"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	35764254	35764255	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs33921229"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	5	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs33921229"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.3303"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"7bf6d6f6-280f-11e6-88d3-10d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3957"	"SETBP1"	26040	"mskcc.org"	"GRCh37"	"18"	42316186	42316187	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs34746367"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.486+34396dupA"	""	""	"ENST00000282030"	""	9	"."	5	2	"."	0	"SETBP1,intron_variant,,ENST00000282030,NM_015559.2;SETBP1,intron_variant,,ENST00000426838,NM_001130110.1;"	"A"	"ENSG00000152217"	"ENST00000282030"	"Transcript"	"intron_variant"	"-/9899"	"-/4791"	"-/1596"	""	""	"rs34746367"	"1"	NA	1	"SETBP1"	"HGNC"	15573	"protein_coding"	"YES"	"CCDS11923.2"	"ENSP00000282030"	"Q9Y6X0"	"K7ES17"	"UPI0000201C54"	"NM_015559.2"	NA	NA	""	"2/5"	""	"A:0.1679"	"A:0.1483"	"A:0.1369"	NA	"A:0.1518"	"A:0.2167"	"A:0.183"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"7c3ef24c-280f-11e6-88d3-10d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	TRUE
"3958"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	43874276	43874277	"+"	"IGR"	"INS"	"-"	"-"	"GGGTGAGGAGTGCCGGCGCCGGCGGGGA"	"rs759693461"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	5	3	"."	0	""	"GGGTGAGGAGTGCCGGCGCCGGCGGGGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs759693461"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"7c866352-280f-11e6-88d3-10d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"3959"	"CTD-2130O13.1"	0	"mskcc.org"	"GRCh37"	"18"	44841021	44841022	"+"	"Intron"	"INS"	"-"	"-"	"TCTTTTCCTCTCCCTCTT"	"rs140479733"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.37+28890_37+28891insCTTTTCCTCTCCCTCTTT"	""	""	"ENST00000586905"	""	10	"."	5	1	"."	0	"CTD-2130O13.1,intron_variant,,ENST00000586905,;CTD-2130O13.1,intron_variant,,ENST00000598649,;"	"TCTTTTCCTCTCCCTCTT"	"ENSG00000267761"	"ENST00000586905"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/668"	""	""	""	""	"rs140479733"	"1"	NA	1	"CTD-2130O13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7cb6deec-280f-11e6-88d3-10d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3960"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	46045029	46045034	"+"	"IGR"	"DEL"	"TGTGTG"	"TGTGTG"	"-"	"rs758083118"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTG"	"TGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs758083118"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTGTGTGT"	"7096d8c4-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3961"	"CTIF"	9811	"mskcc.org"	"GRCh37"	"18"	46188741	46188742	"+"	"Intron"	"INS"	"-"	"-"	"CTGCAGG"	"rs11282340"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.253-1378_253-1372dupCAGGCTG"	""	""	"ENST00000382998"	""	9	"."	5	3	"."	0	"CTIF,intron_variant,,ENST00000256413,NM_014772.2;CTIF,intron_variant,,ENST00000382998,NM_001142397.1;CTIF,intron_variant,,ENST00000591387,;CTIF,intron_variant,,ENST00000587752,;CTIF,intron_variant,,ENST00000588345,;CTIF,intron_variant,,ENST00000591412,;CTIF,intron_variant,,ENST00000589585,;"	"CTGCAGG"	"ENSG00000134030"	"ENST00000382998"	"Transcript"	"intron_variant"	"-/4407"	"-/1803"	"-/600"	""	""	"rs11282340"	"1"	NA	1	"CTIF"	"HGNC"	23925	"protein_coding"	"YES"	"CCDS45864.1"	"ENSP00000372459"	"O43310"	"K7EQS5,K7EPK6,K7EK08"	"UPI0000074650"	"NM_001142397.1"	NA	NA	""	"4/12"	""	"-:0.3886"	"CTGCAGG:0.5431"	"CTGCAGG:0.6398"	NA	"CTGCAGG:0.622"	"CTGCAGG:0.6412"	"CTGCAGG:0.6421"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7cd83614-280f-11e6-88d3-10d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"3962"	"SMUG1P1"	0	"mskcc.org"	"GRCh37"	"18"	47176514	47176526	"+"	"5'Flank"	"DEL"	"AGGGGAAGAGGGA"	"AGGGGAAGAGGGA"	"-"	"rs11275304"	NA	"JHCCPT5"	"JHCCPN5"	"AGGGGAAGAGGGA"	"AGGGGAAGAGGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000590640"	""	15	"."	3	3	"."	0	"SMUG1P1,upstream_gene_variant,,ENST00000590640,;"	"-"	"ENSG00000267444"	"ENST00000590640"	"Transcript"	"upstream_gene_variant"	"-/811"	""	""	""	""	"rs11275304"	"1"	"194"	1	"SMUG1P1"	"HGNC"	49401	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2214"	"-:0.1513"	"-:0.33"	NA	"-:0.1429"	"-:0.2326"	"-:0.3088"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAGGGGAAGAGGGAA"	"70d7b66e-280f-11e6-88d3-10d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"3963"	"MYO5B"	4645	"mskcc.org"	"GRCh37"	"18"	47455980	47455980	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs373143496"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2004-12delC"	""	""	"ENST00000285039"	""	168	"."	6	42	"."	0	"MYO5B,intron_variant,,ENST00000285039,NM_001080467.2;"	"-"	"ENSG00000167306"	"ENST00000285039"	"Transcript"	"intron_variant"	"-/9505"	"-/5547"	"-/1848"	""	""	"rs373143496"	"1"	NA	-1	"MYO5B"	"HGNC"	7603	"protein_coding"	"YES"	"CCDS42436.1"	"ENSP00000285039"	"Q9ULV0"	"Q14782,Q0P656,K7EPI3"	"UPI00001D7B21"	"NM_001080467.2"	NA	NA	""	"16/39"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.001161"	"0.007212"	"0.04783"	"0.02459"	"0.05882"	"0.008135"	"0"	"0"	"1"	"common_variant"	"GAGA"	"71064b46-280f-11e6-88d3-10d4414a729f"	"360"	0.004965	"52/10474"	"94/80944"	"3/416"	"11/230"	"6/244"	"6/102"	"26/3196"	"0/90"	"0/6196"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.0357142857142857	"WXS"	FALSE
"3964"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	48377779	48377780	"+"	"IGR"	"INS"	"-"	"-"	"TTG"	"rs148627811"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	5	2	"."	0	""	"TTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148627811"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"7d29e978-280f-11e6-88d3-10d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"3965"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	49400213	49400214	"+"	"IGR"	"DEL"	"GT"	"-"	"-"	"rs75414234"	NA	"JHCCPT5"	"JHCCPN5"	"GT"	"GT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	6	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs75414234"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GT:0.0028"	"-:0.9894"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGTG"	"71af962e-280f-11e6-88d3-10d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"3966"	"DCC"	1630	"mskcc.org"	"GRCh37"	"18"	50916621	50916622	"+"	"Intron"	"INS"	"-"	"-"	"TCTC"	"rs3838902"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2456-1393_2456-1390dupTCTC"	""	""	"ENST00000442544"	""	7	"."	4	1	"."	0	"DCC,intron_variant,,ENST00000442544,NM_005215.3;DCC,intron_variant,,ENST00000581580,;DCC,intron_variant,,ENST00000412726,;DCC,upstream_gene_variant,,ENST00000579941,;DCC,intron_variant,,ENST00000304775,;"	"TCTC"	"ENSG00000187323"	"ENST00000442544"	"Transcript"	"intron_variant"	"-/5721"	"-/4344"	"-/1447"	""	""	"rs3838902"	"1"	NA	1	"DCC"	"HGNC"	2701	"protein_coding"	"YES"	"CCDS11952.1"	"ENSP00000389140"	"P43146"	"J3QQJ6"	"UPI00001AEDC6"	"NM_005215.3"	NA	NA	""	"16/28"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"14"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"7d53fba0-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3967"	"RAB27B"	5874	"mskcc.org"	"GRCh37"	"18"	52445092	52445092	"+"	"Intron"	"DEL"	"C"	"-"	"-"	"rs10707747"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-20+59727delC"	""	""	"ENST00000586570"	""	6	"."	6	1	"."	0	"RAB27B,intron_variant,,ENST00000586570,;"	"-"	"ENSG00000041353"	"ENST00000586570"	"Transcript"	"intron_variant"	"-/432"	"-/262"	"-/87"	""	""	"rs10707747"	"1"	NA	1	"RAB27B"	"HGNC"	9767	"protein_coding"	""	""	"ENSP00000468542"	""	"K7ES41"	"UPI0002840EA4"	""	NA	NA	""	"2/4"	""	"C:0.0343"	"-:0.8782"	"-:0.9856"	NA	"-:0.999"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"720b4a78-280f-11e6-88d3-10d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"3968"	"TCF4"	6925	"mskcc.org"	"GRCh37"	"18"	53131179	53131180	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.513+122_513+127dupCACACA"	""	""	"ENST00000398339"	""	175	"."	7	50	"."	0	"TCF4,intron_variant,,ENST00000354452,NM_001083962.1;TCF4,intron_variant,,ENST00000356073,NM_003199.2;TCF4,intron_variant,,ENST00000537578,NM_001243227.1;TCF4,intron_variant,,ENST00000564403,NM_001243228.1;TCF4,intron_variant,,ENST00000568740,;TCF4,intron_variant,,ENST00000540999,;TCF4,intron_variant,,ENST00000398339,NM_001243226.1;TCF4,intron_variant,,ENST00000565018,;TCF4,intron_variant,,ENST00000568673,;TCF4,intron_variant,,ENST00000564999,;TCF4,intron_variant,,ENST00000543082,NM_001243231.1;TCF4,intron_variant,,ENST00000566279,;TCF4,intron_variant,,ENST00000566286,NM_001243230.1;TCF4,intron_variant,,ENST00000567880,;TCF4,intron_variant,,ENST00000568169,;TCF4,intron_variant,,ENST00000566514,;TCF4,intron_variant,,ENST00000565908,;TCF4,intron_variant,,ENST00000562847,;TCF4,intron_variant,,ENST00000563888,;TCF4,intron_variant,,ENST00000569357,;TCF4,intron_variant,,ENST00000564343,;TCF4,intron_variant,,ENST00000563824,;TCF4,intron_variant,,ENST00000568147,;TCF4,intron_variant,,ENST00000562543,;RP11-619L19.1,intron_variant,,ENST00000587660,;TCF4,intron_variant,,ENST00000565580,;TCF4,intron_variant,,ENST00000563686,;"	"TGTGTG"	"ENSG00000196628"	"ENST00000398339"	"Transcript"	"intron_variant"	"-/2478"	"-/2322"	"-/773"	""	""	""	"1"	NA	-1	"TCF4"	"HGNC"	11634	"protein_coding"	"YES"	"CCDS58631.1"	"ENSP00000381382"	""	"K7ERJ0,H3BUQ3,H3BTM9,H3BTC3,H3BT24,H3BSX3,H3BRF7,H3BPG3,H3BP59,H3BNZ2,H3BNI2,H3BME8,H3BMC8,G0LNT8,G0LNT7,G0LNT4,G0LNT3,E9PH57"	"UPI000059D58C"	"NM_001243226.1"	NA	NA	""	"5/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"7da0a586-280f-11e6-88d3-10d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.04	"WXS"	FALSE
"3969"	"TCF4"	6925	"mskcc.org"	"GRCh37"	"18"	53253385	53253411	"+"	"Intron"	"DEL"	"AGCAGCAGCAGCAGCAGCAGCAGCAGC"	"AGCAGCAGCAGCAGCAGCAGCAGCAGC"	"-"	"rs773603274"	NA	"JHCCPT5"	"JHCCPN5"	"AGCAGCAGCAGCAGCAGCAGCAGCAGC"	"AGCAGCAGCAGCAGCAGCAGCAGCAGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.379-828_379-802delGCTGCTGCTGCTGCTGCTGCTGCTGCT"	""	""	"ENST00000398339"	""	80	"."	3	14	"."	0	"TCF4,intron_variant,,ENST00000354452,NM_001083962.1;TCF4,intron_variant,,ENST00000356073,NM_003199.2;TCF4,intron_variant,,ENST00000537578,NM_001243227.1;TCF4,intron_variant,,ENST00000564403,NM_001243228.1;TCF4,intron_variant,,ENST00000568740,;TCF4,intron_variant,,ENST00000398339,NM_001243226.1;TCF4,intron_variant,,ENST00000565018,;TCF4,intron_variant,,ENST00000564999,;TCF4,intron_variant,,ENST00000566279,;TCF4,intron_variant,,ENST00000566286,NM_001243230.1;TCF4,intron_variant,,ENST00000567880,;TCF4,intron_variant,,ENST00000568169,;TCF4,intron_variant,,ENST00000565908,;TCF4,intron_variant,,ENST00000569357,;TCF4,intron_variant,,ENST00000564343,;TCF4,intron_variant,,ENST00000565124,;TCF4,intron_variant,,ENST00000562543,;TCF4,intron_variant,,ENST00000565393,;TCF4,upstream_gene_variant,,ENST00000540999,;TCF4,upstream_gene_variant,,ENST00000568673,;TCF4,upstream_gene_variant,,ENST00000566514,;TCF4,upstream_gene_variant,,ENST00000562847,;TCF4,upstream_gene_variant,,ENST00000563888,;TCF4,upstream_gene_variant,,ENST00000563824,;TCF4,upstream_gene_variant,,ENST00000568147,;"	"-"	"ENSG00000196628"	"ENST00000398339"	"Transcript"	"intron_variant"	"-/2478"	"-/2322"	"-/773"	""	""	"rs773603274"	"1"	NA	-1	"TCF4"	"HGNC"	11634	"protein_coding"	"YES"	"CCDS58631.1"	"ENSP00000381382"	""	"K7ERJ0,H3BUQ3,H3BTM9,H3BTC3,H3BT24,H3BSX3,H3BRF7,H3BPG3,H3BP59,H3BNZ2,H3BNI2,H3BME8,H3BMC8,G0LNT8,G0LNT7,G0LNT4,G0LNT3,E9PH57"	"UPI000059D58C"	"NM_001243226.1"	NA	NA	""	"3/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGAGCAGCAGCAGCAGCAGCAGCAGCAGCA"	"721e9704-280f-11e6-88d3-10d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0375	"WXS"	FALSE
"3970"	"WDR7"	23335	"mskcc.org"	"GRCh37"	"18"	54361562	54361564	"+"	"Intron"	"DEL"	"TTA"	"TTA"	"-"	"rs141365369"	NA	"JHCCPT5"	"JHCCPN5"	"TTA"	"TTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.967-284_967-282delTAT"	""	""	"ENST00000254442"	""	8	"."	4	1	"."	0	"WDR7,intron_variant,,ENST00000254442,NM_015285.2;WDR7,intron_variant,,ENST00000357574,NM_052834.2;WDR7,intron_variant,,ENST00000589935,;WDR7,upstream_gene_variant,,ENST00000585754,;"	"-"	"ENSG00000091157"	"ENST00000254442"	"Transcript"	"intron_variant"	"-/9074"	"-/4473"	"-/1490"	""	""	"rs141365369"	"1"	NA	1	"WDR7"	"HGNC"	13490	"protein_coding"	"YES"	"CCDS11962.1"	"ENSP00000254442"	"Q9Y4E6"	"K7ERP9,K7EPQ4,K7EMB8,K7ELZ4"	"UPI000013CE33"	"NM_015285.2"	NA	NA	""	"9/27"	""	"-:0.4934"	"-:0.1059"	"-:0.5764"	NA	"-:0.5089"	"-:0.7495"	"-:0.6789"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTTAT"	"723a69a2-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3971"	"WDR7"	23335	"mskcc.org"	"GRCh37"	"18"	54606039	54606040	"+"	"Intron"	"INS"	"-"	"-"	"GTATGT"	"rs71171007"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3981+128_3981+129insATGTGT"	""	""	"ENST00000254442"	""	49	"."	5	15	"."	0	"WDR7,intron_variant,,ENST00000254442,NM_015285.2;WDR7,intron_variant,,ENST00000357574,NM_052834.2;WDR7,intron_variant,,ENST00000589935,;WDR7,downstream_gene_variant,,ENST00000586124,;WDR7,intron_variant,,ENST00000591449,;"	"GTATGT"	"ENSG00000091157"	"ENST00000254442"	"Transcript"	"intron_variant"	"-/9074"	"-/4473"	"-/1490"	""	""	"rs71171007"	"1"	NA	1	"WDR7"	"HGNC"	13490	"protein_coding"	"YES"	"CCDS11962.1"	"ENSP00000254442"	"Q9Y4E6"	"K7ERP9,K7EPQ4,K7EMB8,K7ELZ4"	"UPI000013CE33"	"NM_015285.2"	NA	NA	""	"24/27"	""	"GTGTGT:0.2212"	"GTGTGT:0.1316"	"GTGTGT:0.183"	NA	"GTGTGT:0.1657"	"GTGTGT:0.337"	"GTGTGT:0.3078"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"7dce57d8-280f-11e6-88d3-10d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WXS"	FALSE
"3972"	"LINC-ROR"	100885779	"mskcc.org"	"GRCh37"	"18"	54735316	54735316	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs57128119"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.410+1725delG"	""	""	"ENST00000553704"	""	7	"."	4	1	"."	0	"LINC-ROR,intron_variant,,ENST00000553704,;"	"-"	"ENSG00000258609"	"ENST00000553704"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2580"	""	""	""	""	"rs57128119"	"1"	NA	-1	"LINC-ROR"	"HGNC"	43773	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	"C:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACC"	"723e964e-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"3973"	"ATP8B1"	5205	"mskcc.org"	"GRCh37"	"18"	55398560	55398606	"+"	"Intron"	"DEL"	"TATATATATATATATATATATATATATATATATATATATATATATAT"	"TATATATATATATATATATATATATATATATATATATATATATATAT"	"CACAC"	"rs745482042"	NA	"JHCCPT5"	"JHCCPN5"	"TATATATATATATATATATATATATATATATATATATATATATATAT"	"TATATATATATATATATATATATATATATATATATATATATATATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.181+253_181+299delATATATATATATATATATATATATATATATATATATATATATATATAinsGTGTG"	""	""	"ENST00000536015"	""	11	"."	3	1	"."	0	"ATP8B1,intron_variant,,ENST00000536015,NM_005603.4;ATP8B1,intron_variant,,ENST00000283684,;ATP8B1,downstream_gene_variant,,ENST00000585322,;RP11-35G9.5,intron_variant,,ENST00000588925,;RP11-35G9.3,intron_variant,,ENST00000599199,;RP11-35G9.5,upstream_gene_variant,,ENST00000586729,;ATP8B1,intron_variant,,ENST00000591728,;"	"CACAC"	"ENSG00000081923"	"ENST00000536015"	"Transcript"	"intron_variant"	"-/5935"	"-/3756"	"-/1251"	""	""	"rs745482042"	"1"	NA	-1	"ATP8B1"	"HGNC"	3706	"protein_coding"	"YES"	"CCDS11965.1"	"ENSP00000445359"	"O43520"	"K7ERI0,K7EQC4"	"UPI000013DD54"	"NM_005603.4"	NA	NA	""	"2/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TATATATATATATATATATATATATATATATATATATATATATATATATA"	"7768421e-280f-11e6-88d3-10d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"3974"	"ATP8B1"	5205	"mskcc.org"	"GRCh37"	"18"	55404810	55404810	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs11307178"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-22-5749delG"	""	""	"ENST00000536015"	""	8	"."	3	1	"."	0	"ATP8B1,intron_variant,,ENST00000536015,NM_005603.4;ATP8B1,intron_variant,,ENST00000585322,;RP11-35G9.5,intron_variant,,ENST00000588925,;RP11-35G9.3,intron_variant,,ENST00000599199,;RP11-35G9.5,intron_variant,,ENST00000586729,;ATP8B1,intron_variant,,ENST00000591728,;"	"-"	"ENSG00000081923"	"ENST00000536015"	"Transcript"	"intron_variant"	"-/5935"	"-/3756"	"-/1251"	""	""	"rs11307178"	"1"	NA	-1	"ATP8B1"	"HGNC"	3706	"protein_coding"	"YES"	"CCDS11965.1"	"ENSP00000445359"	"O43520"	"K7ERI0,K7EQC4"	"UPI000013DD54"	"NM_005603.4"	NA	NA	""	"1/27"	""	"C:0.0238"	"-:0.9168"	"-:0.9885"	NA	"-:1"	"-:0.999"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTCT"	"72c76d8e-280f-11e6-88d3-10d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"3975"	"CCBE1"	147372	"mskcc.org"	"GRCh37"	"18"	57159059	57159060	"+"	"Intron"	"INS"	"-"	"-"	"AAACAAACAAACAAAT"	"rs113527622"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.213-11590_213-11589insATTTGTTTGTTTGTTT"	""	""	"ENST00000439986"	""	6	"."	3	2	"."	0	"CCBE1,intron_variant,,ENST00000439986,NM_133459.3;CCBE1,intron_variant,,ENST00000589419,;"	"AAACAAACAAACAAAT"	"ENSG00000183287"	"ENST00000439986"	"Transcript"	"intron_variant"	"-/6227"	"-/1221"	"-/406"	""	""	"rs113527622"	"1"	NA	-1	"CCBE1"	"HGNC"	29426	"protein_coding"	"YES"	"CCDS32838.1"	"ENSP00000404464"	"Q6UXH8"	"K7EQ81"	"UPI000004C616"	"NM_133459.3"	NA	NA	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"7e58cddc-280f-11e6-88d3-10d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"3976"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	57470339	57470339	"+"	"IGR"	"DEL"	"C"	"-"	"-"	"rs139629577"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	6	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139629577"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3638"	"-:0.5976"	"-:0.1744"	NA	"-:0.2708"	"-:0.2147"	"-:0.4315"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"7377b7c0-280f-11e6-88d3-10d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"3977"	"PIGN"	23556	"mskcc.org"	"GRCh37"	"18"	59712910	59712911	"+"	"3'UTR"	"INS"	"-"	"-"	"A"	"rs3833870"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*178dupT"	""	""	"ENST00000357637"	"31/31"	15	"."	4	3	"."	0	"PIGN,3_prime_UTR_variant,,ENST00000357637,NM_176787.4;PIGN,3_prime_UTR_variant,,ENST00000400334,NM_012327.5;PIGN,non_coding_transcript_exon_variant,,ENST00000587942,;"	"A"	"ENSG00000197563"	"ENST00000357637"	"Transcript"	"3_prime_UTR_variant"	"3390-3391/5501"	"-/2796"	"-/931"	""	""	"rs3833870"	"1"	NA	-1	"PIGN"	"HGNC"	8967	"protein_coding"	"YES"	"CCDS45879.1"	"ENSP00000350263"	"O95427"	"K7ESH9,K7ERX5,K7EQG0,K7EPN0,K7ENC3,K7EMD7,K7EM45,K7ELE1,K7EL34,K7EK83"	"UPI0000070A47"	"NM_176787.4"	NA	NA	"31/31"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"7e8a7c06-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"3978"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	60271997	60271998	"+"	"IGR"	"INS"	"-"	"-"	"AG"	"rs71338289"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	2	"."	0	""	"AG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71338289"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7ebc330e-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3979"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	63380452	63380453	"+"	"IGR"	"INS"	"-"	"-"	"CCTT"	"rs148434454"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	33	"."	4	9	"."	0	""	"CCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148434454"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CCTT:0.1619"	"CCTT:0.211"	"CCTT:0.0764"	NA	"CCTT:0.1349"	"CCTT:0.166"	"CCTT:0.18"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7f28332e-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WXS"	FALSE
"3980"	"CDH7"	1005	"mskcc.org"	"GRCh37"	"18"	63497961	63497962	"+"	"Intron"	"INS"	"-"	"-"	"TCTT"	"rs10681636"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.981+5911_981+5914dupTCTT"	""	""	"ENST00000397968"	""	13	"."	4	2	"."	0	"CDH7,intron_variant,,ENST00000536984,;CDH7,intron_variant,,ENST00000397968,NM_004361.2;CDH7,intron_variant,,ENST00000323011,NM_033646.1;"	"TCTT"	"ENSG00000081138"	"ENST00000397968"	"Transcript"	"intron_variant"	"-/3292"	"-/2358"	"-/785"	""	""	"rs10681636"	"1"	NA	1	"CDH7"	"HGNC"	1766	"protein_coding"	"YES"	"CCDS11993.1"	"ENSP00000381058"	"Q9ULB5"	""	"UPI000013D269"	"NM_004361.2"	NA	NA	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7f2f5f64-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"3981"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	64544834	64544835	"+"	"IGR"	"INS"	"-"	"-"	"GAAG"	"rs143098862"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	3	4	"."	0	""	"GAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143098862"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"7f489f4c-280f-11e6-88d3-10d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"3982"	"DSEL"	92126	"mskcc.org"	"GRCh37"	"18"	65178104	65178105	"+"	"3'UTR"	"DEL"	"CA"	"CA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*102_*103delTG"	""	""	"ENST00000310045"	"2/2"	83	"."	4	62	"."	0	"DSEL,3_prime_UTR_variant,,ENST00000310045,NM_032160.2;CTD-2541J13.2,intron_variant,,ENST00000583493,;CTD-2541J13.2,intron_variant,,ENST00000581951,;"	"-"	"ENSG00000171451"	"ENST00000310045"	"Transcript"	"3_prime_UTR_variant"	"5245-5246/9531"	"-/3669"	"-/1222"	""	""	""	"1"	NA	-1	"DSEL"	"HGNC"	18144	"protein_coding"	"YES"	"CCDS11995.1"	"ENSP00000310565"	"Q8IZU8"	""	"UPI00000740A1"	"NM_032160.2"	NA	NA	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCAC"	"74c2564e-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0481927710843374	"WXS"	FALSE
"3983"	"CCDC102B"	79839	"mskcc.org"	"GRCh37"	"18"	66511208	66511208	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs33926572"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.828-2334delA"	""	""	"ENST00000360242"	""	90	"."	27	12	"."	1	"CCDC102B,intron_variant,,ENST00000360242,NM_024781.2;CCDC102B,intron_variant,,ENST00000319445,NM_001093729.1;CCDC102B,intron_variant,,ENST00000584156,;CCDC102B,intron_variant,,ENST00000358653,;CCDC102B,intron_variant,,ENST00000584775,;CCDC102B,intron_variant,,ENST00000577772,;CCDC102B,upstream_gene_variant,,ENST00000577800,;CCDC102B,upstream_gene_variant,,ENST00000581103,;"	"-"	"ENSG00000150636"	"ENST00000360242"	"Transcript"	"intron_variant"	"-/2711"	"-/1542"	"-/513"	""	""	"rs33926572"	"1"	NA	1	"CCDC102B"	"HGNC"	26295	"protein_coding"	"YES"	"CCDS11996.2"	"ENSP00000353377"	"Q68D86"	"J3QLG6,J3QL62,J3KRT2,J3KRG3,A1A4H1"	"UPI0000201E87"	"NM_024781.2"	NA	NA	""	"3/7"	""	"A:0.4621"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAA"	"74f20f88-280f-11e6-88d3-10d4414a729f"	"1680"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"3984"	"DOK6"	220164	"mskcc.org"	"GRCh37"	"18"	67136692	67136692	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.66+68146delG"	""	""	"ENST00000382713"	""	39	"."	3	16	"."	0	"DOK6,intron_variant,,ENST00000382713,NM_152721.5;RP11-465I4.3,upstream_gene_variant,,ENST00000584741,;RP11-465I4.3,upstream_gene_variant,,ENST00000579307,;"	"-"	"ENSG00000206052"	"ENST00000382713"	"Transcript"	"intron_variant"	"-/8890"	"-/996"	"-/331"	""	""	""	"1"	NA	1	"DOK6"	"HGNC"	28301	"protein_coding"	"YES"	"CCDS32841.1"	"ENSP00000372160"	"Q6PKX4"	""	"UPI000035EC7C"	"NM_152721.5"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"750ee702-280f-11e6-88d3-10d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WXS"	FALSE
"3985"	"CD226"	10666	"mskcc.org"	"GRCh37"	"18"	67547440	67547443	"+"	"Intron"	"DEL"	"AGGC"	"AGGC"	"-"	"rs143107126"	NA	"JHCCPT5"	"JHCCPN5"	"AGGC"	"AGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.728-6961_728-6958delGCCT"	""	""	"ENST00000280200"	""	27	"."	8	6	"."	0	"CD226,intron_variant,,ENST00000280200,NM_006566.2;CD226,intron_variant,,ENST00000581982,;CD226,intron_variant,,ENST00000582621,;CD226,intron_variant,,ENST00000579496,;CD226,intron_variant,,ENST00000577287,;CD226,intron_variant,,ENST00000578928,;"	"-"	"ENSG00000150637"	"ENST00000280200"	"Transcript"	"intron_variant"	"-/2638"	"-/1011"	"-/336"	""	""	"rs143107126"	"1"	NA	-1	"CD226"	"HGNC"	16961	"protein_coding"	"YES"	"CCDS11997.1"	"ENSP00000280200"	"Q15762"	"J3QRQ4,J3QR77,J3QQW1,J3QL19,J3QKM7"	"UPI000013DC05"	"NM_006566.2"	NA	NA	""	"4/6"	""	"-:0.4407"	"-:0.5393"	"-:0.3876"	NA	"-:0.3452"	"-:0.4274"	"-:0.4571"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAGGCA"	"7517c9f8-280f-11e6-88d3-10d4414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WXS"	FALSE
"3986"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	71181377	71181380	"+"	"IGR"	"DEL"	"TTCT"	"TTCT"	"-"	"rs200373189"	NA	"JHCCPT5"	"JHCCPN5"	"TTCT"	"TTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	3	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200373189"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3237"	"-:0.388"	"-:0.2637"	NA	"-:0.1677"	"-:0.4036"	"-:0.3579"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTCTT"	"75b0699c-280f-11e6-88d3-10d4414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"3987"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	71181444	71181447	"+"	"IGR"	"DEL"	"TCTT"	"TCTT"	"-"	"rs148941090"	NA	"JHCCPT5"	"JHCCPN5"	"TCTT"	"TCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"."	5	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148941090"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1328"	"-:0.1089"	"-:0.1124"	NA	"-:0.0665"	"-:0.2386"	"-:0.1391"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTTT"	"75b22bec-280f-11e6-88d3-10d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WXS"	FALSE
"3988"	"FAUP1"	0	"mskcc.org"	"GRCh37"	"18"	72057082	72057082	"+"	"3'Flank"	"DEL"	"T"	"T"	"-"	"rs34266692"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000474180"	""	42	"."	6	12	"."	0	"FAUP1,downstream_gene_variant,,ENST00000474180,;"	"-"	"ENSG00000235297"	"ENST00000474180"	"Transcript"	"downstream_gene_variant"	"-/414"	""	""	""	""	"rs34266692"	"1"	"37"	-1	"FAUP1"	"HGNC"	17984	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.2884"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTT"	"75c76692-280f-11e6-88d3-10d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"3989"	"LINC00683"	0	"mskcc.org"	"GRCh37"	"18"	74331980	74331980	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35452577"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.327-2733delT"	""	""	"ENST00000579781"	""	10	"."	6	2	"."	0	"LINC00683,non_coding_transcript_exon_variant,,ENST00000578803,;LINC00683,intron_variant,,ENST00000579781,;RP11-111H3.3,downstream_gene_variant,,ENST00000582231,;"	"-"	"ENSG00000266256"	"ENST00000579781"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3510"	""	""	""	""	"rs35452577"	"1"	NA	1	"LINC00683"	"HGNC"	44467	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"T:0.0108"	"-:0.9637"	"-:0.9928"	NA	"-:1"	"-:0.999"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"764025d2-280f-11e6-88d3-10d4414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"3990"	"ZNF236"	7776	"mskcc.org"	"GRCh37"	"18"	74668458	74668459	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs140173783"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5106+322_5106+323delAG"	""	""	"ENST00000253159"	""	6	"."	4	1	"."	0	"ZNF236,intron_variant,,ENST00000253159,NM_007345.3;ZNF236,intron_variant,,ENST00000320610,;ZNF236,intron_variant,,ENST00000543926,;"	"-"	"ENSG00000130856"	"ENST00000253159"	"Transcript"	"intron_variant"	"-/8124"	"-/5538"	"-/1845"	""	""	"rs140173783"	"1"	NA	1	"ZNF236"	"HGNC"	13028	"protein_coding"	"YES"	"CCDS42447.1"	"ENSP00000253159"	"Q9UL36"	""	"UPI0000F6DCCB"	"NM_007345.3"	NA	NA	""	"28/30"	""	"-:0.0617"	"-:0.0552"	"-:0.0432"	NA	"-:0.0258"	"-:0.0487"	"-:0.1339"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGA"	"7663ce92-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"3991"	"GALR1"	2587	"mskcc.org"	"GRCh37"	"18"	74971649	74971650	"+"	"Intron"	"INS"	"-"	"-"	"GTG"	"rs75475624"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.732+3474_732+3476dupGTG"	""	""	"ENST00000299727"	""	9	"."	4	12	"."	0	"GALR1,intron_variant,,ENST00000299727,NM_001480.3;GALR1,downstream_gene_variant,,ENST00000582943,;"	"GTG"	"ENSG00000166573"	"ENST00000299727"	"Transcript"	"intron_variant"	"-/1050"	"-/1050"	"-/349"	""	""	"rs75475624"	"1"	NA	1	"GALR1"	"HGNC"	4132	"protein_coding"	"YES"	"CCDS12012.1"	"ENSP00000299727"	"P47211"	""	"UPI000013E5DE"	"NM_001480.3"	NA	NA	""	"2/2"	""	"GTG:0.4766"	"GTG:0.4486"	"GTG:0.5317"	NA	"GTG:0.3065"	"GTG:0.5278"	"GTG:0.5982"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"8058a5b2-280f-11e6-88d3-10d4414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3992"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	75359796	75359805	"+"	"IGR"	"DEL"	"GAGAGAGAGA"	"-"	"-"	"rs5826536"	NA	"JHCCPT5"	"JHCCPN5"	"GAGAGAGAGA"	"GAGAGAGAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	8	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5826536"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GAGAGAGAGA:0.0815"	"-:0.9138"	"-:0.9741"	NA	"-:0.9058"	"-:0.9503"	"-:0.8661"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGAGAGAGAGAG"	"767512a6-280f-11e6-88d3-10d4414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.888888888888889	"WXS"	FALSE
"3993"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	75554887	75554892	"+"	"IGR"	"DEL"	"TGTGTG"	"-"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTG"	"TGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATGTGTGT"	"7678a7d6-280f-11e6-88d3-10d4414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"3994"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	76575571	76575575	"+"	"IGR"	"DEL"	"GCCTA"	"-"	"-"	"rs140741691"	NA	"JHCCPT5"	"JHCCPN5"	"GCCTA"	"GCCTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	7	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140741691"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1446"	"-:0.1657"	"-:0.1484"	NA	"-:0.0496"	"-:0.1899"	"-:0.1646"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGCCTAG"	"768ae81a-280f-11e6-88d3-10d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.875	"WXS"	FALSE
"3995"	"ATP9B"	374868	"mskcc.org"	"GRCh37"	"18"	76966623	76966624	"+"	"Intron"	"INS"	"-"	"-"	"ATAA"	"rs147431564"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.955-278_955-275dupAATA"	""	""	"ENST00000426216"	""	42	"."	7	4	"."	0	"ATP9B,intron_variant,,ENST00000426216,NM_198531.3;ATP9B,intron_variant,,ENST00000307671,;ATP9B,intron_variant,,ENST00000490210,;ATP9B,intron_variant,,ENST00000586366,;ATP9B,intron_variant,,ENST00000590271,;ATP9B,upstream_gene_variant,,ENST00000585674,;ATP9B,upstream_gene_variant,,ENST00000587878,;"	"ATAA"	"ENSG00000166377"	"ENST00000426216"	"Transcript"	"intron_variant"	"-/4361"	"-/3444"	"-/1147"	""	""	"rs147431564"	"1"	NA	1	"ATP9B"	"HGNC"	13541	"protein_coding"	"YES"	"CCDS12014.1"	"ENSP00000398076"	"O43861"	""	"UPI00002371AF"	"NM_198531.3"	NA	NA	""	"9/29"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"39"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"808bf3f4-280f-11e6-88d3-10d4414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3996"	"CFD"	1675	"mskcc.org"	"GRCh37"	"19"	860430	860431	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs72025627"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.56-179dupC"	""	""	"ENST00000327726"	""	20	"."	4	8	"."	0	"CFD,intron_variant,,ENST00000327726,NM_001928.2;CFD,intron_variant,,ENST00000592860,;ELANE,downstream_gene_variant,,ENST00000590230,;ELANE,downstream_gene_variant,,ENST00000263621,NM_001972.2;"	"C"	"ENSG00000197766"	"ENST00000327726"	"Transcript"	"intron_variant"	"-/1214"	"-/762"	"-/253"	""	""	"rs72025627"	"1"	NA	1	"CFD"	"HGNC"	2771	"protein_coding"	"YES"	"CCDS12046.1"	"ENSP00000332139"	"P00746"	""	"UPI000006D513"	"NM_001928.2"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"86357b22-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"3997"	"MED16"	10025	"mskcc.org"	"GRCh37"	"19"	864502	864503	"+"	"3'Flank"	"INS"	"-"	"-"	"AG"	"rs78247125"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000325464"	""	9	"."	4	3	"."	0	"MED16,downstream_gene_variant,,ENST00000312090,;MED16,downstream_gene_variant,,ENST00000395808,;MED16,downstream_gene_variant,,ENST00000325464,NM_005481.2;MED16,downstream_gene_variant,,ENST00000269814,;MED16,downstream_gene_variant,,ENST00000589119,;MED16,downstream_gene_variant,,ENST00000607471,;CFD,downstream_gene_variant,,ENST00000327726,NM_001928.2;CFD,downstream_gene_variant,,ENST00000592860,;MED16,downstream_gene_variant,,ENST00000606248,;"	"AG"	"ENSG00000175221"	"ENST00000325464"	"Transcript"	"downstream_gene_variant"	"-/2922"	"-/2634"	"-/877"	""	""	"rs78247125"	"1"	"3461"	-1	"MED16"	"HGNC"	17556	"protein_coding"	"YES"	"CCDS12047.1"	"ENSP00000325612"	"Q9Y2X0"	"K7EKX6,B9TX09"	"UPI0000141671"	"NM_005481.2"	NA	NA	""	""	""	"-:0.3052"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"863874f8-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"3998"	"MA0341.1"	0	"mskcc.org"	"GRCh37"	"19"	1669785	1669786	"+"	"IGR"	"INS"	"-"	"-"	"CT"	"rs149192233"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"MA0341.1"	""	18	"."	3	2	"."	0	""	"CT"	""	"MA0341.1"	"MotifFeature"	"TF_binding_site_variant"	""	""	""	""	""	"rs149192233"	"1"	NA	-1	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2175"	"CT:0.6483"	"CT:0.8329"	NA	"CT:0.8313"	"CT:0.7584"	"CT:0.9029"	""	""	""	""	NA	"Egr1:MA0341.1"	"2"	"N"	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"86aa50b4-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"3999"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	1670033	1670037	"+"	"IGR"	"DEL"	"CTTTC"	"CTTTC"	"-"	"rs375292529"	NA	"JHCCPT5"	"JHCCPN5"	"CTTTC"	"CTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs375292529"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0130"	"-:0.0015"	"-:0.0144"	NA	"-:0.004"	"-:0.0288"	"-:0.0204"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCTTTCT"	"65b995ea-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"4000"	"MKNK2"	2872	"mskcc.org"	"GRCh37"	"19"	2039434	2039435	"+"	"3'UTR"	"INS"	"-"	"-"	"A"	"rs3833279"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*177dupT"	""	""	"ENST00000250896"	"14/14"	26	"."	5	9	"."	0	"MKNK2,3_prime_UTR_variant,,ENST00000250896,NM_199054.2;MKNK2,3_prime_UTR_variant,,ENST00000591601,;MKNK2,3_prime_UTR_variant,,ENST00000541165,;MKNK2,intron_variant,,ENST00000309340,NM_017572.3;MKNK2,intron_variant,,ENST00000591142,;MKNK2,intron_variant,,ENST00000589441,;MKNK2,downstream_gene_variant,,ENST00000591588,;MKNK2,downstream_gene_variant,,ENST00000588014,;BTBD2,upstream_gene_variant,,ENST00000590646,;BTBD2,upstream_gene_variant,,ENST00000587742,;BTBD2,upstream_gene_variant,,ENST00000588395,;MKNK2,3_prime_UTR_variant,,ENST00000586828,;MKNK2,non_coding_transcript_exon_variant,,ENST00000587416,;MKNK2,downstream_gene_variant,,ENST00000585667,;MKNK2,downstream_gene_variant,,ENST00000588346,;MKNK2,downstream_gene_variant,,ENST00000586620,;"	"A"	"ENSG00000099875"	"ENST00000250896"	"Transcript"	"3_prime_UTR_variant"	"1820-1821/3774"	"-/1398"	"-/465"	""	""	"rs3833279"	"1"	NA	-1	"MKNK2"	"HGNC"	7111	"protein_coding"	"YES"	"CCDS12080.1"	"ENSP00000250896"	"Q9HBH9"	"K7EIN7,B4DEQ4,B3KS07,A4CYL7"	"UPI000006E9B4"	"NM_199054.2"	NA	NA	"14/14"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"86d0f886-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WXS"	FALSE
"4001"	"AP3D1"	8943	"mskcc.org"	"GRCh37"	"19"	2103472	2103473	"+"	"Intron"	"INS"	"-"	"-"	"CCAGAG"	"rs113297593"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3553-1211_3553-1206dupCTCTGG"	""	""	"ENST00000355272"	""	10	"."	4	1	"."	0	"AP3D1,intron_variant,,ENST00000355272,NM_001261826.1;AP3D1,intron_variant,,ENST00000345016,NM_003938.6;AP3D1,intron_variant,,ENST00000356926,;AP3D1,intron_variant,,ENST00000350812,;IZUMO4,downstream_gene_variant,,ENST00000395307,NM_001031735.2;IZUMO4,downstream_gene_variant,,ENST00000395301,NM_001039846.1;IZUMO4,downstream_gene_variant,,ENST00000588003,;AP3D1,intron_variant,,ENST00000585652,;AP3D1,intron_variant,,ENST00000589223,;AP3D1,intron_variant,,ENST00000591650,;IZUMO4,downstream_gene_variant,,ENST00000497445,;IZUMO4,downstream_gene_variant,,ENST00000478879,;IZUMO4,downstream_gene_variant,,ENST00000481489,;IZUMO4,downstream_gene_variant,,ENST00000498554,;IZUMO4,downstream_gene_variant,,ENST00000591894,;IZUMO4,downstream_gene_variant,,ENST00000593185,;"	"CCAGAG"	"ENSG00000065000"	"ENST00000355272"	"Transcript"	"intron_variant"	"-/5034"	"-/3648"	"-/1215"	""	""	"rs113297593"	"1"	NA	-1	"AP3D1"	"HGNC"	568	"protein_coding"	"YES"	"CCDS58638.1"	"ENSP00000347416"	"O14617"	"Q9UEB0,Q9UEA9,B3KSV6"	"UPI0000202F99"	"NM_001261826.1"	NA	NA	""	"31/31"	""	"CCAGAG:0.0747"	"CCAGAG:0.0749"	"CCAGAG:0.0677"	NA	"CCAGAG:0"	"CCAGAG:0.1153"	"CCAGAG:0.1145"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"86dd471c-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4002"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	2471077	2471078	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs75781253"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs75781253"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"8710a058-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4003"	"GNG7"	2788	"mskcc.org"	"GRCh37"	"19"	2641462	2641465	"+"	"Intron"	"DEL"	"CAAA"	"CAAA"	"-"	"rs5826776"	NA	"JHCCPT5"	"JHCCPN5"	"CAAA"	"CAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-78+4757_-78+4760delTTTG"	""	""	"ENST00000382159"	""	16	"."	4	4	"."	0	"GNG7,intron_variant,,ENST00000382159,NM_052847.2;CTC-265F19.1,downstream_gene_variant,,ENST00000587894,;GNG7,intron_variant,,ENST00000587867,;"	"-"	"ENSG00000176533"	"ENST00000382159"	"Transcript"	"intron_variant"	"-/4208"	"-/207"	"-/68"	""	""	"rs5826776"	"1"	NA	-1	"GNG7"	"HGNC"	4410	"protein_coding"	"YES"	"CCDS12091.1"	"ENSP00000371594"	"O60262"	""	"UPI000012B22E"	"NM_052847.2"	NA	NA	""	"2/4"	""	"-:0.1334"	"-:0.1596"	"-:0.2089"	NA	"-:0.0506"	"-:0.1948"	"-:0.0665"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTCAAAC"	"668f4712-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4004"	"DIRAS1"	148252	"mskcc.org"	"GRCh37"	"19"	2716650	2716651	"+"	"3'UTR"	"INS"	"-"	"-"	"T"	"rs34088007"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*557dupA"	""	""	"ENST00000323469"	"2/2"	14	"."	7	3	"."	0	"DIRAS1,3_prime_UTR_variant,,ENST00000323469,NM_145173.3;DIRAS1,downstream_gene_variant,,ENST00000585334,;DIRAS1,downstream_gene_variant,,ENST00000588128,;AC006538.4,downstream_gene_variant,,ENST00000586572,;"	"T"	"ENSG00000176490"	"ENST00000323469"	"Transcript"	"3_prime_UTR_variant"	"1338-1339/3424"	"-/597"	"-/198"	""	""	"rs34088007"	"1"	NA	-1	"DIRAS1"	"HGNC"	19127	"protein_coding"	"YES"	"CCDS12092.1"	"ENSP00000325836"	"O95057"	"K7EN06"	"UPI000000D876"	"NM_145173.3"	NA	NA	"2/2"	""	""	"T:0.3642"	"T:0.3487"	"T:0.3444"	NA	"T:0.5833"	"T:0.1988"	"T:0.3436"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"87222fee-280f-11e6-ab45-0e33424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4005"	"CELF5"	60680	"mskcc.org"	"GRCh37"	"19"	3299057	3299058	"+"	"3'Flank"	"DEL"	"AA"	"AA"	"-"	"rs139603291"	NA	"JHCCPT5"	"JHCCPN5"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000292672"	""	17	"."	4	2	"."	0	"CELF5,downstream_gene_variant,,ENST00000541430,NM_001172673.1;CELF5,downstream_gene_variant,,ENST00000292672,NM_021938.3;AC010649.1,intron_variant,,ENST00000592230,;AC010649.1,intron_variant,,ENST00000590698,;AC010649.1,intron_variant,,ENST00000587592,;CELF5,downstream_gene_variant,,ENST00000588350,;CELF5,downstream_gene_variant,,ENST00000334293,;"	"-"	"ENSG00000161082"	"ENST00000292672"	"Transcript"	"downstream_gene_variant"	"-/1854"	"-/1458"	"-/485"	""	""	"rs139603291"	"1"	"1983"	1	"CELF5"	"HGNC"	14058	"protein_coding"	"YES"	"CCDS12106.1"	"ENSP00000292672"	"Q8N6W0"	""	"UPI00000705EC"	"NM_021938.3"	NA	NA	""	""	""	"-:0.1623"	"-:0.3048"	"-:0.2363"	NA	"-:0.0883"	"-:0.0865"	"-:0.0716"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAA"	"66e521dc-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"4006"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	3344919	3344920	"+"	"IGR"	"INS"	"-"	"-"	"TGC"	"rs34770566"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	5	2	"."	0	""	"TGC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34770566"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1803"	"TGC:0.8775"	"TGC:0.9121"	NA	"TGC:0.6399"	"TGC:0.8807"	"TGC:0.7986"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"87738a2e-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4007"	"TMIGD2"	126259	"mskcc.org"	"GRCh37"	"19"	4295095	4295095	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs201970212"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.407-282delT"	""	""	"ENST00000301272"	""	13	"."	5	3	"."	0	"TMIGD2,intron_variant,,ENST00000301272,NM_144615.2,NM_001169126.1;TMIGD2,intron_variant,,ENST00000595645,;TMIGD2,intron_variant,,ENST00000600114,;TMIGD2,intron_variant,,ENST00000600349,;SHD,downstream_gene_variant,,ENST00000543264,NM_020209.3;SHD,downstream_gene_variant,,ENST00000599689,;SHD,downstream_gene_variant,,ENST00000593383,;SHD,downstream_gene_variant,,ENST00000597466,;"	"-"	"ENSG00000167664"	"ENST00000301272"	"Transcript"	"intron_variant"	"-/1262"	"-/849"	"-/282"	""	""	"rs201970212"	"1"	NA	-1	"TMIGD2"	"HGNC"	28324	"protein_coding"	"YES"	"CCDS12126.1"	"ENSP00000301272"	"Q96BF3"	""	"UPI000013E6F4"	"NM_144615.2,NM_001169126.1"	NA	NA	""	"2/4"	""	"-:0.2542"	"-:0.4175"	"-:0.2133"	NA	"-:0.0794"	"-:0.2078"	"-:0.2904"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"67569df8-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"4008"	"LONP1"	9361	"mskcc.org"	"GRCh37"	"19"	5697312	5697315	"+"	"Intron"	"DEL"	"TGTG"	"TGTG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TGTG"	"TGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1686-547_1686-544delCACA"	""	""	"ENST00000360614"	""	8	"."	4	1	"."	0	"LONP1,intron_variant,,ENST00000360614,NM_004793.3;LONP1,intron_variant,,ENST00000540670,NM_001276480.1;LONP1,intron_variant,,ENST00000593119,NM_001276479.1;LONP1,intron_variant,,ENST00000585374,;LONP1,intron_variant,,ENST00000590729,;LONP1,intron_variant,,ENST00000590206,;LONP1,upstream_gene_variant,,ENST00000589473,;LONP1,downstream_gene_variant,,ENST00000587365,;LONP1,intron_variant,,ENST00000590558,;LONP1,intron_variant,,ENST00000587552,;LONP1,downstream_gene_variant,,ENST00000588589,;"	"-"	"ENSG00000196365"	"ENST00000360614"	"Transcript"	"intron_variant"	"-/3236"	"-/2880"	"-/959"	""	""	""	"1"	NA	-1	"LONP1"	"HGNC"	9479	"protein_coding"	"YES"	"CCDS12148.1"	"ENSP00000353826"	"P36776"	"K7EKE6,F5GZ27"	"UPI000012E7EF"	"NM_004793.3"	NA	NA	""	"10/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GATGTGT"	"684fc496-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4009"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	5805422	5805423	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs71172772"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	1	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71172772"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"885bf3e0-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"4010"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	6626902	6626902	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"68d5cb86-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4011"	"C3"	718	"mskcc.org"	"GRCh37"	"19"	6682533	6682534	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11569553"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4173-294dupT"	""	""	"ENST00000245907"	""	8	"."	5	2	"."	0	"C3,intron_variant,,ENST00000245907,NM_000064.2;C3,intron_variant,,ENST00000596548,;C3,intron_variant,,ENST00000601008,;C3,upstream_gene_variant,,ENST00000602229,;C3,upstream_gene_variant,,ENST00000599668,;C3,non_coding_transcript_exon_variant,,ENST00000599899,;C3,downstream_gene_variant,,ENST00000598805,;C3,downstream_gene_variant,,ENST00000596238,;C3,upstream_gene_variant,,ENST00000601475,;C3,downstream_gene_variant,,ENST00000596179,;"	"A"	"ENSG00000125730"	"ENST00000245907"	"Transcript"	"intron_variant"	"-/5263"	"-/4992"	"-/1663"	""	""	"rs11569553"	"1"	NA	-1	"C3"	"HGNC"	1318	"protein_coding"	"YES"	"CCDS32883.1"	"ENSP00000245907"	"P01024"	"Q6LDJ0,M0R1Q1"	"UPI000013EC9B"	"NM_000064.2"	NA	NA	""	"33/40"	""	"-:0.3454"	"A:0.6498"	"A:0.5937"	NA	"A:0.6448"	"A:0.6272"	"A:0.7423"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"88aae8a6-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4012"	"EMR1"	2015	"mskcc.org"	"GRCh37"	"19"	6927316	6927317	"+"	"Intron"	"INS"	"-"	"-"	"TCCCTTCCTCCCTTCCT"	"rs79666426"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2222+717_2222+718insTCCTTCCCTTCCTCCCT"	""	""	"ENST00000312053"	""	16	"."	5	2	"."	0	"EMR1,intron_variant,,ENST00000312053,NM_001974.4;EMR1,intron_variant,,ENST00000381404,NM_001256252.1;EMR1,intron_variant,,ENST00000250572,NM_001256253.1;EMR1,intron_variant,,ENST00000381407,NM_001256254.1;EMR1,intron_variant,,ENST00000450315,NM_001256255.1;"	"TCCCTTCCTCCCTTCCT"	"ENSG00000174837"	"ENST00000312053"	"Transcript"	"intron_variant"	"-/3128"	"-/2661"	"-/886"	""	""	"rs79666426"	"1"	NA	1	"EMR1"	"HGNC"	3336	"protein_coding"	"YES"	"CCDS12175.1"	"ENSP00000311545"	"Q14246"	""	"UPI0000203241"	"NM_001974.4"	NA	NA	""	"16/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"13"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"88f991fe-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"4013"	"EMR4P"	326342	"mskcc.org"	"GRCh37"	"19"	6961413	6961413	"+"	"Intron"	"DEL"	"C"	"-"	"-"	"rs11335206"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1478-361delG"	""	""	"ENST00000600751"	""	7	"."	7	1	"."	0	"EMR4P,intron_variant,,ENST00000600751,;EMR4P,intron_variant,,ENST00000597372,;"	"-"	"ENSG00000268758"	"ENST00000600751"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2732"	""	""	""	""	"rs11335206"	"1"	NA	-1	"EMR4P"	"HGNC"	19240	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"11/15"	""	"C:0.0425"	"-:0.8442"	"-:0.9899"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTCC"	"694634b6-280f-11e6-ab45-0e33424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"4014"	"ZNF557"	79230	"mskcc.org"	"GRCh37"	"19"	7081192	7081213	"+"	"Intron"	"DEL"	"GTGTGTGTGTGTGTGTGTGTGA"	"GTGTGTGTGTGTGTGTGTGTGA"	"-"	"rs199847079"	NA	"JHCCPT5"	"JHCCPN5"	"GTGTGTGTGTGTGTGTGTGTGA"	"GTGTGTGTGTGTGTGTGTGTGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.248-175_248-154delGTGTGTGTGTGTGTGTGAGTGT"	""	""	"ENST00000414706"	""	62	"."	4	26	"."	0	"ZNF557,intron_variant,,ENST00000414706,NM_024341.2,NM_001044388.1,NM_001044387.1;ZNF557,intron_variant,,ENST00000439035,;ZNF557,intron_variant,,ENST00000252840,;"	"-"	"ENSG00000130544"	"ENST00000414706"	"Transcript"	"intron_variant"	"-/5990"	"-/1293"	"-/430"	""	""	"rs199847079"	"1"	NA	1	"ZNF557"	"HGNC"	28632	"protein_coding"	"YES"	"CCDS42485.1"	"ENSP00000404065"	"Q8N988"	"B2RD50"	"UPI000020324B"	"NM_024341.2,NM_001044388.1,NM_001044387.1"	NA	NA	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGTGTGTGTGTGTGTGTGTGTGAG"	"69641a3a-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WXS"	FALSE
"4015"	"INSR"	3643	"mskcc.org"	"GRCh37"	"19"	7116779	7116779	"+"	"3'UTR"	"DEL"	"G"	"G"	"-"	"rs35434645"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*288delC"	""	""	"ENST00000302850"	"22/22"	12	"."	3	3	"."	0	"INSR,3_prime_UTR_variant,,ENST00000341500,NM_001079817.1;INSR,3_prime_UTR_variant,,ENST00000302850,NM_000208.2;INSR,downstream_gene_variant,,ENST00000601099,;"	"-"	"ENSG00000171105"	"ENST00000302850"	"Transcript"	"3_prime_UTR_variant"	"4580/4721"	"-/4149"	"-/1382"	""	""	"rs35434645"	"1"	NA	-1	"INSR"	"HGNC"	6091	"protein_coding"	"YES"	"CCDS12176.1"	"ENSP00000303830"	"P06213"	"Q4U0V1,Q2PJC5,Q2PJC4,Q2PJC3,Q2PJC1,Q2MKP2,B4DTR7,A4ZPI8,A4ZPI7,A4ZPI5,A4ZPI3"	"UPI000020324D"	"NM_000208.2"	NA	NA	"22/22"	""	""	"-:0.4395"	"-:0.2368"	"-:0.6455"	NA	"-:0.4633"	"-:0.5169"	"-:0.4632"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTGG"	"697473f8-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4016"	"INSR"	3643	"mskcc.org"	"GRCh37"	"19"	7153028	7153029	"+"	"Intron"	"INS"	"-"	"-"	"CACACACAC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2030-99_2030-91dupGTGTGTGTG"	""	""	"ENST00000302850"	""	26	"."	4	14	"."	0	"INSR,intron_variant,,ENST00000341500,NM_001079817.1;INSR,intron_variant,,ENST00000302850,NM_000208.2;INSR,intron_variant,,ENST00000598216,;"	"CACACACAC"	"ENSG00000171105"	"ENST00000302850"	"Transcript"	"intron_variant"	"-/4721"	"-/4149"	"-/1382"	""	""	""	"1"	NA	-1	"INSR"	"HGNC"	6091	"protein_coding"	"YES"	"CCDS12176.1"	"ENSP00000303830"	"P06213"	"Q4U0V1,Q2PJC5,Q2PJC4,Q2PJC3,Q2PJC1,Q2MKP2,B4DTR7,A4ZPI8,A4ZPI7,A4ZPI5,A4ZPI3"	"UPI000020324D"	"NM_000208.2"	NA	NA	""	"9/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"891b9858-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WXS"	FALSE
"4017"	"INSR"	3643	"mskcc.org"	"GRCh37"	"19"	7169073	7169073	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs11323545"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1484-968delC"	""	""	"ENST00000302850"	""	9	"."	4	3	"."	0	"INSR,intron_variant,,ENST00000341500,NM_001079817.1;INSR,intron_variant,,ENST00000302850,NM_000208.2;INSR,upstream_gene_variant,,ENST00000600492,;INSR,intron_variant,,ENST00000598216,;"	"-"	"ENSG00000171105"	"ENST00000302850"	"Transcript"	"intron_variant"	"-/4721"	"-/4149"	"-/1382"	""	""	"rs11323545"	"1"	NA	-1	"INSR"	"HGNC"	6091	"protein_coding"	"YES"	"CCDS12176.1"	"ENSP00000303830"	"P06213"	"Q4U0V1,Q2PJC5,Q2PJC4,Q2PJC3,Q2PJC1,Q2MKP2,B4DTR7,A4ZPI8,A4ZPI7,A4ZPI5,A4ZPI3"	"UPI000020324D"	"NM_000208.2"	NA	NA	""	"6/21"	""	"-:0.2480"	"-:0.205"	"-:0.2435"	NA	"-:0.2599"	"-:0.2893"	"-:0.2546"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTGA"	"6990dc3c-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4018"	"INSR"	3643	"mskcc.org"	"GRCh37"	"19"	7191841	7191856	"+"	"Intron"	"DEL"	"AAAAAGAAGAGAGAGA"	"AAAAAGAAGAGAGAGA"	"-"	"rs61713886"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAAGAAGAGAGAGA"	"AAAAAGAAGAGAGAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.653-7208_653-7193delTCTCTCTCTTCTTTTT"	""	""	"ENST00000302850"	""	14	"."	4	2	"."	0	"INSR,intron_variant,,ENST00000341500,NM_001079817.1;INSR,intron_variant,,ENST00000302850,NM_000208.2;INSR,intron_variant,,ENST00000598216,;"	"-"	"ENSG00000171105"	"ENST00000302850"	"Transcript"	"intron_variant"	"-/4721"	"-/4149"	"-/1382"	""	""	"rs61713886"	"1"	NA	-1	"INSR"	"HGNC"	6091	"protein_coding"	"YES"	"CCDS12176.1"	"ENSP00000303830"	"P06213"	"Q4U0V1,Q2PJC5,Q2PJC4,Q2PJC3,Q2PJC1,Q2MKP2,B4DTR7,A4ZPI8,A4ZPI7,A4ZPI5,A4ZPI3"	"UPI000020324D"	"NM_000208.2"	NA	NA	""	"2/21"	""	"AAAAAGAAGAGAGAGA:0.4093"	"-:0.6021"	"-:0.6354"	NA	"-:0.5645"	"-:0.6531"	"-:0.5061"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTAAAAAGAAGAGAGAGAG"	"6994fcea-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"4019"	"INSR"	3643	"mskcc.org"	"GRCh37"	"19"	7229312	7229351	"+"	"Intron"	"DEL"	"GATGGATGGATGGATGGATGGATGGATGGATAGATGGATG"	"GATGGATGGATGGATGGATGGATGGATGGATAGATGGATG"	"-"	"rs773446810"	NA	"JHCCPT5"	"JHCCPN5"	"GATGGATGGATGGATGGATGGATGGATGGATAGATGGATG"	"GATGGATGGATGGATGGATGGATGGATGGATAGATGGATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.652+38005_652+38044delCATCCATCTATCCATCCATCCATCCATCCATCCATCCATC"	""	""	"ENST00000302850"	""	13	"."	4	2	"."	0	"INSR,intron_variant,,ENST00000341500,NM_001079817.1;INSR,intron_variant,,ENST00000302850,NM_000208.2;INSR,intron_variant,,ENST00000598216,;"	"-"	"ENSG00000171105"	"ENST00000302850"	"Transcript"	"intron_variant"	"-/4721"	"-/4149"	"-/1382"	""	""	"rs773446810"	"1"	NA	-1	"INSR"	"HGNC"	6091	"protein_coding"	"YES"	"CCDS12176.1"	"ENSP00000303830"	"P06213"	"Q4U0V1,Q2PJC5,Q2PJC4,Q2PJC3,Q2PJC1,Q2MKP2,B4DTR7,A4ZPI8,A4ZPI7,A4ZPI5,A4ZPI3"	"UPI000020324D"	"NM_000208.2"	NA	NA	""	"2/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATGATGGATGGATGGATGGATGGATGGATGGATAGATGGATGG"	"6997bb60-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"4020"	"INSR"	3643	"mskcc.org"	"GRCh37"	"19"	7259115	7259116	"+"	"Intron"	"INS"	"-"	"-"	"TTCCTTCCTTCT"	"rs138400357"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.652+8240_652+8241insAGAAGGAAGGAA"	""	""	"ENST00000302850"	""	10	"."	4	3	"."	0	"INSR,intron_variant,,ENST00000341500,NM_001079817.1;INSR,intron_variant,,ENST00000302850,NM_000208.2;INSR,intron_variant,,ENST00000598216,;"	"TTCCTTCCTTCT"	"ENSG00000171105"	"ENST00000302850"	"Transcript"	"intron_variant"	"-/4721"	"-/4149"	"-/1382"	""	""	"rs138400357"	"1"	NA	-1	"INSR"	"HGNC"	6091	"protein_coding"	"YES"	"CCDS12176.1"	"ENSP00000303830"	"P06213"	"Q4U0V1,Q2PJC5,Q2PJC4,Q2PJC3,Q2PJC1,Q2MKP2,B4DTR7,A4ZPI8,A4ZPI7,A4ZPI5,A4ZPI3"	"UPI000020324D"	"NM_000208.2"	NA	NA	""	"2/21"	""	"-:0.2778"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"89244926-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4021"	"FBN3"	84467	"mskcc.org"	"GRCh37"	"19"	8188250	8188250	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs200474783"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3082+98delC"	""	""	"ENST00000600128"	""	246	"."	4	74	"."	0	"FBN3,intron_variant,,ENST00000600128,;FBN3,intron_variant,,ENST00000270509,NM_032447.3;FBN3,intron_variant,,ENST00000601739,;"	"-"	"ENSG00000142449"	"ENST00000600128"	"Transcript"	"intron_variant"	"-/9362"	"-/8430"	"-/2809"	""	""	"rs200474783"	"1"	NA	-1	"FBN3"	"HGNC"	18794	"protein_coding"	"YES"	"CCDS12196.1"	"ENSP00000470498"	"Q75N90"	""	"UPI000013D88F"	""	NA	NA	""	"24/63"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGA"	"6a58d75a-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.016260162601626	"WXS"	FALSE
"4022"	"FBN3"	84467	"mskcc.org"	"GRCh37"	"19"	8207794	8207794	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs34567980"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.542-773delT"	""	""	"ENST00000600128"	""	10	"."	4	3	"."	0	"FBN3,intron_variant,,ENST00000600128,;FBN3,intron_variant,,ENST00000270509,NM_032447.3;FBN3,intron_variant,,ENST00000601739,;"	"-"	"ENSG00000142449"	"ENST00000600128"	"Transcript"	"intron_variant"	"-/9362"	"-/8430"	"-/2809"	""	""	"rs34567980"	"1"	NA	-1	"FBN3"	"HGNC"	18794	"protein_coding"	"YES"	"CCDS12196.1"	"ENSP00000470498"	"Q75N90"	""	"UPI000013D88F"	""	NA	NA	""	"6/63"	""	"A:0.1130"	"-:0.9758"	"-:0.866"	NA	"-:0.7073"	"-:0.9036"	"-:0.9499"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"6a5de272-280f-11e6-ab45-0e33424a729f"	"236"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4023"	"CTD-3020H12.3"	0	"mskcc.org"	"GRCh37"	"19"	8239396	8239397	"+"	"Intron"	"INS"	"-"	"-"	"TTTT"	"rs139919151"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.267-170_267-169insTTTT"	""	""	"ENST00000595307"	""	10	"."	5	1	"."	0	"CTD-3020H12.3,intron_variant,,ENST00000595307,;"	"TTTT"	"ENSG00000269651"	"ENST00000595307"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/847"	""	""	""	""	"rs139919151"	"1"	NA	1	"CTD-3020H12.3"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	"TTTT:0.0290"	"TTTT:0.0401"	"TTTT:0.0173"	NA	"TTTT:0.002"	"TTTT:0.0537"	"TTTT:0.0245"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"89afc6c2-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4024"	"ADAMTS10"	81794	"mskcc.org"	"GRCh37"	"19"	8673254	8673255	"+"	"5'Flank"	"INS"	"-"	"CTT"	"CTT"	"rs79370863"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000270328"	""	9	"."	7	3	"."	0	"ADAMTS10,intron_variant,,ENST00000597188,NM_030957.2;ADAMTS10,upstream_gene_variant,,ENST00000270328,;ADAMTS10,intron_variant,,ENST00000596709,;ADAMTS10,intron_variant,,ENST00000596466,;ADAMTS10,intron_variant,,ENST00000596851,;ADAMTS10,intron_variant,,ENST00000593534,;ADAMTS10,upstream_gene_variant,,ENST00000593913,;"	"CTT"	"ENSG00000142303"	"ENST00000270328"	"Transcript"	"upstream_gene_variant"	"-/4230"	"-/3312"	"-/1103"	""	""	"rs79370863"	"1"	"71"	-1	"ADAMTS10"	"HGNC"	13201	"protein_coding"	"YES"	"CCDS12206.1"	"ENSP00000270328"	"Q9H324"	""	"UPI000013D883"	""	NA	NA	""	""	""	"-:0.0010"	"CTT:0.9985"	"CTT:1"	NA	"CTT:1"	"CTT:0.998"	"CTT:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAC"	"89db076a-280f-11e6-ab45-0e33424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	FALSE
"4025"	"CTD-2557P19.4"	0	"mskcc.org"	"GRCh37"	"19"	8880568	8888015	"+"	"3'Flank"	"DEL"	"TTTTTTTTTTTTTGTAGGGACGGGCTTTCACCGTGTTAGCCAGGACGGTCTCGATCTCCTGCCCTCGTGATGCACCCGCCTGAGCCTCCCGAAGTGCTCGGATTACAGGCATGAGCCACCATGCACGGCCCAGAAATGGAGATTTTTGAGCAAACACATTAAAGAAAAGAAACGCAAATAGACGAAACTCATTTTAACATTTTTATTTAACCCAAGGAATACAGATATAATCAACACCAATACAATTGATGTCACAGTGATGACTAAGATACATGCTACAATCCTTCATTCTCAGATGCAAAATCTAGTATGTGTTTTACAGCAAACGTCAGTTGGAAACTGAACGTCGATCACACATGCTTGATGTGCATGTCAATTTCATGAGAGTTACAATCTCAGGAGAAGTCTCACATAGCGTAAGAGTCCAAACATACCTTCAAGTGTTTCGACAAGTTCTTCACTACTCATTCTTAGAACTGAATTTACCAACAACAATCCCAGCCTATTCATTGCTGAACTGCATCCCATTGAAAGAATGGGTCACAGTTCCTCTCTCTAGACACTGTGGAACGACATTGAAGGCCCTTCCATCTTTTGGCGATTGTGAGGACAGGTGCTAGAAGCCTCTGCCCTCAGCCTTGTCCACGTGAGTTCTAATTCCTTTAGAACAACTATCTCAGGGTGGGAAAGATGGTTCCAATGCTAAGTGCCTATTGCATTGATTATGAATCAATGAAACTCTTTCTCCCTGGGGGTTGTCCCAGTTGGATTCCAAGCAGCACTGTCAGAGTGTTCCAGCTTCTCCACATGCTCCGCAGCCCTTGGGATGGTGAGTGATTGTCACGGTGGCTTCTGGGAGAGCTTCTTGGTTGTTGTTGAAGGTGTATTTGACGTGCATTTCCCCAGGGGAGGGACAGTGAACGCTTTTTGAAGTGGTTCTTTACATCCCCTTTGAGGAAATGTCTGCTCAAGTCTCTGGCTGGGTTTTGAACAGAATCATTTGTTTGTCCCATTGGAGTTTTGACAACTCTGTGTATTCTGAGTATGAGCAGTCCTTGCACGTATATGAGATTTGCAAATATTTTGTGCCCCAATCTCAAGGTTGCTCTTTGATACAAATCAAGAGCATCTGAGGCAGAGCAAAGGTTCAGGTGAGAGGACGGAGCATTTCTCCACCTCTCCAGCATGCGCAGCATCTCTCTCCTCCGAGATGCCGAGACATGTGTGCAGGGAGACACCATGAAAAAGCAGGTGTGCTTCATTCTGAATAGAGCGTCTCTGATTCCCGTCTGGTGCCTGAGGGTGCATGGCCCATGAGCCTTAGAAGAGACGTCTTCGGGCCTTGCACGTTGGCCTCCATAGAAACTTGTGGCAAATTCTGGGCTCCGGACTGGGTGATGGAGGTAGAGGTCTGAGGGCAGAGGTGGGCAGGGGCTCCAGGCCGTGGAGATCCAAGTGGAATTCTTCAGGCAGAGCCTGTCTCCAGGGACTAGGCTTGGGCATTTGGGATGAGCCCTGGGGGACGGCCGCTCTGTAGTCAGGTTTGAGGTAGAGGACACGCCAGGAAGAAGGGCTGACTCCATGCACAAGGTTTGCTGGGGGTCCCATCAGGGGCAGGAAGCCTTGGGGAGCCTCACCCTCTTCTACTGAAGGCGCCACACACACATTCTCTGCTCTCTGGGCTCTCACAGATCCATTTTCAATGTCAATCTCCCAGACAGTCTCTGTACTAGTGAGCAGGAGCCAGCGGGCATGGGCAGGGTACAAGAGATCCTTCAGGGACATCAAGAGTTGCTCAGGGACCACCAGGAGCTGCACATTGAGGAGGCTGAGTCGCAGGGCTCCCTGTGGGTCCAGCCCCAGGAACTCCTGCCCCAGGCGCAGGTGCAGGACCATTCCTGGTTCCAAGACCGCGATGATCATCTTCCTCTGGGGAAGCTGTGGGCCCTGGGGGAGAAAAGCCGTGGGTCAGTCATTGTCCTCTGAGGGTGGCTCAAACAGGGAGAGAGCAAGGCGGGGAGCTGCCAGTAACTTCCCCAGGCATAAATGAAACCCCGCAGGGACACCCAGAATTGGCACCTGTATTGACGCCCCTTGGGACGGTGATTTCCTGCAAGTCCCCTAGGGCCTGGAGCTCAGGCAGACCTGTCTCACCCACGCCCACCTAGGTGGTGTGACCTTACCTGGGGCAGCTCCAGGGGCAGCTGTGCAGGGTGGTGGGGAGCTGGCTGTACCGGAGCTGGTTCTGCACCTGTGGAGAGAGCAGAGTGTGCAGGTGAAAGCCCTTGTCATGCAGGATGCCCTTGAGGGTTCAAGGTGCCACCGTGAGAAAGACCAAATACAGAAGAAGCCAGGTACAGGACACCCAGCCACGGAGCTGCAGGAGGAAGCTCCCGACACTCTGGACAGCACAGCTGCTCGCCTCATGACGTGACGGGACACTGGCTTGGTAGCAGGGGACTCAGGATGAAAAAGAGAAGATGCCTCACCTGGATGAGGACCCAGCTCCTCCACTTTCTGGCGTTTTGGGGCATTTGATGGCGTGCCGCTGGAGCTGTAGGACAGAGAGACACAGTCAGATTTCGGGCAGTTCCCTAACGTCCAATTCCCTGAATCCCCACAAATTCACTCCACTTCCCTGCCTTTCATTCAAGGCCACAGACTCGTCATCCACTTCCTGTGAGACCTGCTCCCAATCTGTCCTAACTCCCAGCTGTTCTTGTTCTCACCCCATCTACCTGAGCTTCCCTGGGTGAAGAAAAGGCAGGGAAGGAGGGTCGGTGCCCACAGGGAGCAGTTGACCCTTTCAGGAGCTCATGCAGATGAGAGTTGGAAAACTCTCCTTGGGTGTGAGGAGCTGGAGAAAGATGTTGAGATCCCGGAGAGGTGGCACCTCTGTCTACACAGGTAACAAAGGAATGGGGTCTTAGGATTCGAATCACAGCAGGAGAAGAGGAAGGAATTTGTCGGGCATGACGGCATGCGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGTCGGAGGATTGCTTGAGTCCAGGAGTTTGAGAGCAGCCTGGGCAACATGGTGAAAGCTAGTCTCCACTAAAAATACTAAACATTAGTGGGTCATGGTGGTGCATGCCTGTGGTCTCACCTACTCAGGAGGCTCAGGTGGGAGGATCACCTGCGACTCAGAGGTGGAGCCCGCAGTCAGCTAAAATCACGCCACTGCACTCCAGTGTGGACCATCGGAGTGAGACGCTGTCTCAGTAAAATAAATCAGTAAATAAGACAAATAGAAAAATTAAAAATGAAAAAAGGAGGAAACTGTTTTATTTTTCCTAGTAGATCTTGAAACTCTCACATCATGTCCTACAATCTCCCTTCTTGCAGAACACAGAACCCATTCCCTGTGGAGCTGGTTGGGTGGATTGAAAGTGGGGCTGCCCTGAGATATGTGTGTGGTTGCGATGTAGAAGCCTTCCCAGCACCCTGTGATGACTTACGGGCACCTCACTTCCCTCTGGCCCCAAATTCAAAACATCCAATCTCATGGCAGGTTCATGCACCCTTTTCCCTTCCCCTCTCTCCAACACACACCCACACATCCCACAGGCAGGTCACCCCGCAGGCGTCCCCAGCACATAGCAAAGCTCACCCGCTCTCTCCTGCGTGGTCGCTCTTGGATTCGGTGCAGGAATCACTGGGGCTTCTTGGGCGCCGGGAACCTTTCATGGTGAAAATTTCCAGGGTTCTCCAAGTCAGCCACTGCCAGTGTTTGTCTGTCTCCTGCAAAGATTTCTTCTTGGCTCCCGAATCCTTTAGTTCCTTTGAGAGAGTGGTGTCAGCCCCAAAGCTGCTCCCGAAGGCTTGGGTTGTGTAGCGACGGGGCTGTGGCCAGCGGCAGGTGGACGAGGCTCCGACAACTGAGCTCTTGGGGGAATCTTGTACACTGTCAGCAGGGGGTGGAGCCAGGGGATTTGTCAGCAGGAACTGATGTGATTGGCTGTTCCTGGTATGACAACGGGAGGGGCCCTCATGGAGGATTGGGGCGTAACTCAATCCATAGATGACCGATCAACAGAACCTGCCTAATCCCATCAAGAGCCAACCTGTTTCCTGTCCCCTCCCATCCTCTAGGTCTTGCCTAATAATGATAGACACTTTCTGTCATACCCAATTCATCCATCGCTGAAATAGTTTTTCATGTGTGCCTTTTATATTTTCATGCAATAAAAATATGTTAATTTTCACGGTGGCCATCCTGGGGAATGCTATGTACATGAAATGAAGTGTCAAAGGAGCAGAAGCAGAAGGAAATTCACAAGCTTCTCTGAGCGTCTCTGCTTCAATTCCTGCCATGTTTCCTAAATATGTTGGCTTCTTTCTTCCTACCCAAGTAAGAAGGTGCTTCAGAAGATCAATCTTATGGCATTTGACAAACCCTGCTGAGAATTTCAGGATGACACGAAGGAACCTTTGATTGGATTTGTGGATGTGCCTGTGAAAGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGCCAGGATGAAGTGGCTGTTCCTGGGGTGGAGACCCTTCTTTCTCTTGAGAATGTTCATTGCTGTTGACTCATTGTGGGTTTTGGAGATATTTTCTCTCTTTCTTTCGTTCTTTCAGACATTTTTTGCTTTCTCCCTCCCTGGATCCTAACCCCCCTCCATCCCCCCCCTCACTCCCTCCCTCCTTGTTTCCATCCTTCCTCCCTCCCTTCCCTCTTTCCTTCCTTCCTGCCTTCTTCCCTTCCCCTTCCCCTCTTCCTTCTGTCCTTCCTTCCTGTGTGTAAAAGAAAAATTGGTGAATAGAAGAATAATTGAATAACTGCCTGAGTCACTTATACATTTCTCATCTCACTCTGGGGACACAGAAGACCGTGTTGTACTCATCTCCTCGATTTTAAAAACAGTCATTCTAAAATCAAGGATTCTAGATGTATCACTTCTAGGCGAAATCTTGAAAGAGAATGTGTAAGAGTTTCATGTGCTCTTCATCTCTATGATCACAATTGAAGAAGGCAGGAGGTTGAGATGCTGCATCGCCAAGATCGTGGTGATTCCATTATCATTACCCTTGTAACTTGTGAGCATCCTTACTGCCAGCAATCATTATTAGATATGGAATCTGATATAGGAGTTCATATTTACTGTATGAATATCTTGGTGTGGGAGTGTTGGCTCATGCCTGTAATCCCAGTGCTTTGGGAGGCAGAGGCAGGAGGCTCGCTTGAACCCAGGAGTTCGAGACAAGCCGGAAGAGCATGGCGAGACCCTCGTCTCTACAAAAATGTAAAAATCAGCCAAGTGTGCTGGTAGGTGCCTGTAGTCTCAGCTCCTTAGGAGGCTGAAGTGTTAGGATCGCTTTCGCCCGGGATGTAATGGCTACAGGGAGTCGAGATCTTGCCACTGAACTTCAGCCTGGGCAACAGAGCAAGACTCTCTCTCAAAAATAAAATGCTTTTTCCTTTAGGCTTAAATTCTAACACTCAAACCTCCAAAGCGGAGGTATTAGGAGGTGGGGCCCTTGGGAGATGATGAGATTATGAAAGTGGAACCCTCGTAAATGGGATTAGTGCCCTTCTGAAAGTGACGGAAGAGAGCTCGCCAGCACCTTCCATGTGGGGAGACAGGGAGGATATGACAGTCTCCAACCTGGAAGAGGGTCCTCACCAGACCCCGATCATGCTGGCACTCTCATCGTGGACTTCCGGCCTCCAGAACTCTGATCAACAAATGTGTGTTCTTAAAGAAAAAAAAAGTGTGGAAAGCAATGTTAATGTTCCCAATCACTTTGAGTACATTCTTTCCTTAACTATGTCTTAATGCATAGTTGTGTTGGATGGCCTAGTTTGTAATGTTAGAATATGCATGTTAGTGAATTAATAAATACAGCAGTAAAGAATAGAGTTGTGGTTGGGAATGGAGTCTCACGCCTGTAATCCCAGCACAATGGCATGCCGAGGCGGGTCAATCACCTGTAGTCGGGAGGTGGAGATCACCCTGACCAACATGGAGAAACCCGACTCTACTAAAAATACAAATCAGCCTGTCATAGAGGCACATGCCTTTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCTAGGAGGCAGAGGTTGCGGTGAGCCGAGATCGCGCCATTGCACTCCAGCCTGGGCAACAAAAGCTAAATTCTATATCAAAAAATTAAAAAAAAAAAAAAGAAGGCTGTTTGTTGACCATTTGAGTGGCCAGTCTTGGTGCTTCCTGGTGGGCGAGGAGAGCCCTGCCCCATTCCTACCCATTCCAGTAGTCATGGCATAAGAGTGATTCTCACTTTCTGCTATAGCCTCCTTATCCATTGGCTGAAATGATTCTTTTTTAATGTGTCTTATTAATGCTTCCATAGCAAAAAATATTGAATTGACTTTTATAGGGACTCTTTCGGGGATTGTTACCCATCATTCCATAATTTGTTTGTACTCCTAGAAAAGGGAAGTATGCCGAGCACAGTGGATATTTCGTCTCAAATAATAAATAAATAACCAAATAGAAAAGAAAGAAAAGGAAGTAAAGGGAAATATACAAATATACAAGGTGTTAGGAGAGAGTTGCTAATCGTGATTCCCCCTTAATTGTCCAAACAGACCACCTCTGGGGATCTATTCGTAAAAGACTCGTTAGAAGTGCAGACTCATGCATTTGAGAATCACTCAGGGAAATCTGAAGATGACCTGTGGTGGGGGTGTAAATGGATACTTAAATGTGTCTTGTGATTGTGTGAGAGTGTGACTGTGTGTTTGTGTGTGTGCTGTCATCTGTGGAGTGGGGGATCCTCTTTTGCCTTGAGAAAGCTCATCTCTGTCCACTTACTCTGGGCTCTACCATCTGTGCCTTGTATCCAGTAGAAATAAAACAGTTTGCGGCAGAAATGGAGTTTTATTTTATTTCACTTTACTTTTTATTAGGATTATTTGTAGACCGGGTCTCACTCTGTCACTCAGGCTGGAGTGCAATGGCACGATCTCAGATCACTGCAACCTGTGCCTCCTGCACTGAAGCCATCCTCCCACCTCAGCCTCTGGAGTGGGGAGATCCCACACCTGTGTAATTTTTGCATTTTTTCTAGAGATGGGGTTTCCTCATGCTGCCCGGGCTGGTTTCCAACGCCTGGGCTCAAGTGATCCACCCGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGTGGGAGCTACTGTGCCCGGCCAGAGATGGAGATTTTTGTTCTTCTTTTGATGAGACGGAACCTCGCACCGTGGCCCAGGCTGGAGTGCAGTGGAGTGACCTCGGCTCACTGCAAGCTCTGCCTCCTGGGGTCATGCCATTCTCCTGCCTCAGCCTCCCAAAGAGCTGGGACTACAGGCGCCCGACACCACGCCCAGCTAAGGTTTTTGCA"	"TTTTTTTTTTTTTGTAGGGACGGGCTTTCACCGTGTTAGCCAGGACGGTCTCGATCTCCTGCCCTCGTGATGCACCCGCCTGAGCCTCCCGAAGTGCTCGGATTACAGGCATGAGCCACCATGCACGGCCCAGAAATGGAGATTTTTGAGCAAACACATTAAAGAAAAGAAACGCAAATAGACGAAACTCATTTTAACATTTTTATTTAACCCAAGGAATACAGATATAATCAACACCAATACAATTGATGTCACAGTGATGACTAAGATACATGCTACAATCCTTCATTCTCAGATGCAAAATCTAGTATGTGTTTTACAGCAAACGTCAGTTGGAAACTGAACGTCGATCACACATGCTTGATGTGCATGTCAATTTCATGAGAGTTACAATCTCAGGAGAAGTCTCACATAGCGTAAGAGTCCAAACATACCTTCAAGTGTTTCGACAAGTTCTTCACTACTCATTCTTAGAACTGAATTTACCAACAACAATCCCAGCCTATTCATTGCTGAACTGCATCCCATTGAAAGAATGGGTCACAGTTCCTCTCTCTAGACACTGTGGAACGACATTGAAGGCCCTTCCATCTTTTGGCGATTGTGAGGACAGGTGCTAGAAGCCTCTGCCCTCAGCCTTGTCCACGTGAGTTCTAATTCCTTTAGAACAACTATCTCAGGGTGGGAAAGATGGTTCCAATGCTAAGTGCCTATTGCATTGATTATGAATCAATGAAACTCTTTCTCCCTGGGGGTTGTCCCAGTTGGATTCCAAGCAGCACTGTCAGAGTGTTCCAGCTTCTCCACATGCTCCGCAGCCCTTGGGATGGTGAGTGATTGTCACGGTGGCTTCTGGGAGAGCTTCTTGGTTGTTGTTGAAGGTGTATTTGACGTGCATTTCCCCAGGGGAGGGACAGTGAACGCTTTTTGAAGTGGTTCTTTACATCCCCTTTGAGGAAATGTCTGCTCAAGTCTCTGGCTGGGTTTTGAACAGAATCATTTGTTTGTCCCATTGGAGTTTTGACAACTCTGTGTATTCTGAGTATGAGCAGTCCTTGCACGTATATGAGATTTGCAAATATTTTGTGCCCCAATCTCAAGGTTGCTCTTTGATACAAATCAAGAGCATCTGAGGCAGAGCAAAGGTTCAGGTGAGAGGACGGAGCATTTCTCCACCTCTCCAGCATGCGCAGCATCTCTCTCCTCCGAGATGCCGAGACATGTGTGCAGGGAGACACCATGAAAAAGCAGGTGTGCTTCATTCTGAATAGAGCGTCTCTGATTCCCGTCTGGTGCCTGAGGGTGCATGGCCCATGAGCCTTAGAAGAGACGTCTTCGGGCCTTGCACGTTGGCCTCCATAGAAACTTGTGGCAAATTCTGGGCTCCGGACTGGGTGATGGAGGTAGAGGTCTGAGGGCAGAGGTGGGCAGGGGCTCCAGGCCGTGGAGATCCAAGTGGAATTCTTCAGGCAGAGCCTGTCTCCAGGGACTAGGCTTGGGCATTTGGGATGAGCCCTGGGGGACGGCCGCTCTGTAGTCAGGTTTGAGGTAGAGGACACGCCAGGAAGAAGGGCTGACTCCATGCACAAGGTTTGCTGGGGGTCCCATCAGGGGCAGGAAGCCTTGGGGAGCCTCACCCTCTTCTACTGAAGGCGCCACACACACATTCTCTGCTCTCTGGGCTCTCACAGATCCATTTTCAATGTCAATCTCCCAGACAGTCTCTGTACTAGTGAGCAGGAGCCAGCGGGCATGGGCAGGGTACAAGAGATCCTTCAGGGACATCAAGAGTTGCTCAGGGACCACCAGGAGCTGCACATTGAGGAGGCTGAGTCGCAGGGCTCCCTGTGGGTCCAGCCCCAGGAACTCCTGCCCCAGGCGCAGGTGCAGGACCATTCCTGGTTCCAAGACCGCGATGATCATCTTCCTCTGGGGAAGCTGTGGGCCCTGGGGGAGAAAAGCCGTGGGTCAGTCATTGTCCTCTGAGGGTGGCTCAAACAGGGAGAGAGCAAGGCGGGGAGCTGCCAGTAACTTCCCCAGGCATAAATGAAACCCCGCAGGGACACCCAGAATTGGCACCTGTATTGACGCCCCTTGGGACGGTGATTTCCTGCAAGTCCCCTAGGGCCTGGAGCTCAGGCAGACCTGTCTCACCCACGCCCACCTAGGTGGTGTGACCTTACCTGGGGCAGCTCCAGGGGCAGCTGTGCAGGGTGGTGGGGAGCTGGCTGTACCGGAGCTGGTTCTGCACCTGTGGAGAGAGCAGAGTGTGCAGGTGAAAGCCCTTGTCATGCAGGATGCCCTTGAGGGTTCAAGGTGCCACCGTGAGAAAGACCAAATACAGAAGAAGCCAGGTACAGGACACCCAGCCACGGAGCTGCAGGAGGAAGCTCCCGACACTCTGGACAGCACAGCTGCTCGCCTCATGACGTGACGGGACACTGGCTTGGTAGCAGGGGACTCAGGATGAAAAAGAGAAGATGCCTCACCTGGATGAGGACCCAGCTCCTCCACTTTCTGGCGTTTTGGGGCATTTGATGGCGTGCCGCTGGAGCTGTAGGACAGAGAGACACAGTCAGATTTCGGGCAGTTCCCTAACGTCCAATTCCCTGAATCCCCACAAATTCACTCCACTTCCCTGCCTTTCATTCAAGGCCACAGACTCGTCATCCACTTCCTGTGAGACCTGCTCCCAATCTGTCCTAACTCCCAGCTGTTCTTGTTCTCACCCCATCTACCTGAGCTTCCCTGGGTGAAGAAAAGGCAGGGAAGGAGGGTCGGTGCCCACAGGGAGCAGTTGACCCTTTCAGGAGCTCATGCAGATGAGAGTTGGAAAACTCTCCTTGGGTGTGAGGAGCTGGAGAAAGATGTTGAGATCCCGGAGAGGTGGCACCTCTGTCTACACAGGTAACAAAGGAATGGGGTCTTAGGATTCGAATCACAGCAGGAGAAGAGGAAGGAATTTGTCGGGCATGACGGCATGCGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGTCGGAGGATTGCTTGAGTCCAGGAGTTTGAGAGCAGCCTGGGCAACATGGTGAAAGCTAGTCTCCACTAAAAATACTAAACATTAGTGGGTCATGGTGGTGCATGCCTGTGGTCTCACCTACTCAGGAGGCTCAGGTGGGAGGATCACCTGCGACTCAGAGGTGGAGCCCGCAGTCAGCTAAAATCACGCCACTGCACTCCAGTGTGGACCATCGGAGTGAGACGCTGTCTCAGTAAAATAAATCAGTAAATAAGACAAATAGAAAAATTAAAAATGAAAAAAGGAGGAAACTGTTTTATTTTTCCTAGTAGATCTTGAAACTCTCACATCATGTCCTACAATCTCCCTTCTTGCAGAACACAGAACCCATTCCCTGTGGAGCTGGTTGGGTGGATTGAAAGTGGGGCTGCCCTGAGATATGTGTGTGGTTGCGATGTAGAAGCCTTCCCAGCACCCTGTGATGACTTACGGGCACCTCACTTCCCTCTGGCCCCAAATTCAAAACATCCAATCTCATGGCAGGTTCATGCACCCTTTTCCCTTCCCCTCTCTCCAACACACACCCACACATCCCACAGGCAGGTCACCCCGCAGGCGTCCCCAGCACATAGCAAAGCTCACCCGCTCTCTCCTGCGTGGTCGCTCTTGGATTCGGTGCAGGAATCACTGGGGCTTCTTGGGCGCCGGGAACCTTTCATGGTGAAAATTTCCAGGGTTCTCCAAGTCAGCCACTGCCAGTGTTTGTCTGTCTCCTGCAAAGATTTCTTCTTGGCTCCCGAATCCTTTAGTTCCTTTGAGAGAGTGGTGTCAGCCCCAAAGCTGCTCCCGAAGGCTTGGGTTGTGTAGCGACGGGGCTGTGGCCAGCGGCAGGTGGACGAGGCTCCGACAACTGAGCTCTTGGGGGAATCTTGTACACTGTCAGCAGGGGGTGGAGCCAGGGGATTTGTCAGCAGGAACTGATGTGATTGGCTGTTCCTGGTATGACAACGGGAGGGGCCCTCATGGAGGATTGGGGCGTAACTCAATCCATAGATGACCGATCAACAGAACCTGCCTAATCCCATCAAGAGCCAACCTGTTTCCTGTCCCCTCCCATCCTCTAGGTCTTGCCTAATAATGATAGACACTTTCTGTCATACCCAATTCATCCATCGCTGAAATAGTTTTTCATGTGTGCCTTTTATATTTTCATGCAATAAAAATATGTTAATTTTCACGGTGGCCATCCTGGGGAATGCTATGTACATGAAATGAAGTGTCAAAGGAGCAGAAGCAGAAGGAAATTCACAAGCTTCTCTGAGCGTCTCTGCTTCAATTCCTGCCATGTTTCCTAAATATGTTGGCTTCTTTCTTCCTACCCAAGTAAGAAGGTGCTTCAGAAGATCAATCTTATGGCATTTGACAAACCCTGCTGAGAATTTCAGGATGACACGAAGGAACCTTTGATTGGATTTGTGGATGTGCCTGTGAAAGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGCCAGGATGAAGTGGCTGTTCCTGGGGTGGAGACCCTTCTTTCTCTTGAGAATGTTCATTGCTGTTGACTCATTGTGGGTTTTGGAGATATTTTCTCTCTTTCTTTCGTTCTTTCAGACATTTTTTGCTTTCTCCCTCCCTGGATCCTAACCCCCCTCCATCCCCCCCCTCACTCCCTCCCTCCTTGTTTCCATCCTTCCTCCCTCCCTTCCCTCTTTCCTTCCTTCCTGCCTTCTTCCCTTCCCCTTCCCCTCTTCCTTCTGTCCTTCCTTCCTGTGTGTAAAAGAAAAATTGGTGAATAGAAGAATAATTGAATAACTGCCTGAGTCACTTATACATTTCTCATCTCACTCTGGGGACACAGAAGACCGTGTTGTACTCATCTCCTCGATTTTAAAAACAGTCATTCTAAAATCAAGGATTCTAGATGTATCACTTCTAGGCGAAATCTTGAAAGAGAATGTGTAAGAGTTTCATGTGCTCTTCATCTCTATGATCACAATTGAAGAAGGCAGGAGGTTGAGATGCTGCATCGCCAAGATCGTGGTGATTCCATTATCATTACCCTTGTAACTTGTGAGCATCCTTACTGCCAGCAATCATTATTAGATATGGAATCTGATATAGGAGTTCATATTTACTGTATGAATATCTTGGTGTGGGAGTGTTGGCTCATGCCTGTAATCCCAGTGCTTTGGGAGGCAGAGGCAGGAGGCTCGCTTGAACCCAGGAGTTCGAGACAAGCCGGAAGAGCATGGCGAGACCCTCGTCTCTACAAAAATGTAAAAATCAGCCAAGTGTGCTGGTAGGTGCCTGTAGTCTCAGCTCCTTAGGAGGCTGAAGTGTTAGGATCGCTTTCGCCCGGGATGTAATGGCTACAGGGAGTCGAGATCTTGCCACTGAACTTCAGCCTGGGCAACAGAGCAAGACTCTCTCTCAAAAATAAAATGCTTTTTCCTTTAGGCTTAAATTCTAACACTCAAACCTCCAAAGCGGAGGTATTAGGAGGTGGGGCCCTTGGGAGATGATGAGATTATGAAAGTGGAACCCTCGTAAATGGGATTAGTGCCCTTCTGAAAGTGACGGAAGAGAGCTCGCCAGCACCTTCCATGTGGGGAGACAGGGAGGATATGACAGTCTCCAACCTGGAAGAGGGTCCTCACCAGACCCCGATCATGCTGGCACTCTCATCGTGGACTTCCGGCCTCCAGAACTCTGATCAACAAATGTGTGTTCTTAAAGAAAAAAAAAGTGTGGAAAGCAATGTTAATGTTCCCAATCACTTTGAGTACATTCTTTCCTTAACTATGTCTTAATGCATAGTTGTGTTGGATGGCCTAGTTTGTAATGTTAGAATATGCATGTTAGTGAATTAATAAATACAGCAGTAAAGAATAGAGTTGTGGTTGGGAATGGAGTCTCACGCCTGTAATCCCAGCACAATGGCATGCCGAGGCGGGTCAATCACCTGTAGTCGGGAGGTGGAGATCACCCTGACCAACATGGAGAAACCCGACTCTACTAAAAATACAAATCAGCCTGTCATAGAGGCACATGCCTTTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCTAGGAGGCAGAGGTTGCGGTGAGCCGAGATCGCGCCATTGCACTCCAGCCTGGGCAACAAAAGCTAAATTCTATATCAAAAAATTAAAAAAAAAAAAAAGAAGGCTGTTTGTTGACCATTTGAGTGGCCAGTCTTGGTGCTTCCTGGTGGGCGAGGAGAGCCCTGCCCCATTCCTACCCATTCCAGTAGTCATGGCATAAGAGTGATTCTCACTTTCTGCTATAGCCTCCTTATCCATTGGCTGAAATGATTCTTTTTTAATGTGTCTTATTAATGCTTCCATAGCAAAAAATATTGAATTGACTTTTATAGGGACTCTTTCGGGGATTGTTACCCATCATTCCATAATTTGTTTGTACTCCTAGAAAAGGGAAGTATGCCGAGCACAGTGGATATTTCGTCTCAAATAATAAATAAATAACCAAATAGAAAAGAAAGAAAAGGAAGTAAAGGGAAATATACAAATATACAAGGTGTTAGGAGAGAGTTGCTAATCGTGATTCCCCCTTAATTGTCCAAACAGACCACCTCTGGGGATCTATTCGTAAAAGACTCGTTAGAAGTGCAGACTCATGCATTTGAGAATCACTCAGGGAAATCTGAAGATGACCTGTGGTGGGGGTGTAAATGGATACTTAAATGTGTCTTGTGATTGTGTGAGAGTGTGACTGTGTGTTTGTGTGTGTGCTGTCATCTGTGGAGTGGGGGATCCTCTTTTGCCTTGAGAAAGCTCATCTCTGTCCACTTACTCTGGGCTCTACCATCTGTGCCTTGTATCCAGTAGAAATAAAACAGTTTGCGGCAGAAATGGAGTTTTATTTTATTTCACTTTACTTTTTATTAGGATTATTTGTAGACCGGGTCTCACTCTGTCACTCAGGCTGGAGTGCAATGGCACGATCTCAGATCACTGCAACCTGTGCCTCCTGCACTGAAGCCATCCTCCCACCTCAGCCTCTGGAGTGGGGAGATCCCACACCTGTGTAATTTTTGCATTTTTTCTAGAGATGGGGTTTCCTCATGCTGCCCGGGCTGGTTTCCAACGCCTGGGCTCAAGTGATCCACCCGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGTGGGAGCTACTGTGCCCGGCCAGAGATGGAGATTTTTGTTCTTCTTTTGATGAGACGGAACCTCGCACCGTGGCCCAGGCTGGAGTGCAGTGGAGTGACCTCGGCTCACTGCAAGCTCTGCCTCCTGGGGTCATGCCATTCTCCTGCCTCAGCCTCCCAAAGAGCTGGGACTACAGGCGCCCGACACCACGCCCAGCTAAGGTTTTTGCA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTTTTTTTTTTGTAGGGACGGGCTTTCACCGTGTTAGCCAGGACGGTCTCGATCTCCTGCCCTCGTGATGCACCCGCCTGAGCCTCCCGAAGTGCTCGGATTACAGGCATGAGCCACCATGCACGGCCCAGAAATGGAGATTTTTGAGCAAACACATTAAAGAAAAGAAACGCAAATAGACGAAACTCATTTTAACATTTTTATTTAACCCAAGGAATACAGATATAATCAACACCAATACAATTGATGTCACAGTGATGACTAAGATACATGCTACAATCCTTCATTCTCAGATGCAAAATCTAGTATGTGTTTTACAGCAAACGTCAGTTGGAAACTGAACGTCGATCACACATGCTTGATGTGCATGTCAATTTCATGAGAGTTACAATCTCAGGAGAAGTCTCACATAGCGTAAGAGTCCAAACATACCTTCAAGTGTTTCGACAAGTTCTTCACTACTCATTCTTAGAACTGAATTTACCAACAACAATCCCAGCCTATTCATTGCTGAACTGCATCCCATTGAAAGAATGGGTCACAGTTCCTCTCTCTAGACACTGTGGAACGACATTGAAGGCCCTTCCATCTTTTGGCGATTGTGAGGACAGGTGCTAGAAGCCTCTGCCCTCAGCCTTGTCCACGTGAGTTCTAATTCCTTTAGAACAACTATCTCAGGGTGGGAAAGATGGTTCCAATGCTAAGTGCCTATTGCATTGATTATGAATCAATGAAACTCTTTCTCCCTGGGGGTTGTCCCAGTTGGATTCCAAGCAGCACTGTCAGAGTGTTCCAGCTTCTCCACATGCTCCGCAGCCCTTGGGATGGTGAGTGATTGTCACGGTGGCTTCTGGGAGAGCTTCTTGGTTGTTGTTGAAGGTGTATTTGACGTGCATTTCCCCAGGGGAGGGACAGTGAACGCTTTTTGAAGTGGTTCTTTACATCCCCTTTGAGGAAATGTCTGCTCAAGTCTCTGGCTGGGTTTTGAACAGAATCATTTGTTTGTCCCATTGGAGTTTTGACAACTCTGTGTATTCTGAGTATGAGCAGTCCTTGCACGTATATGAGATTTGCAAATATTTTGTGCCCCAATCTCAAGGTTGCTCTTTGATACAAATCAAGAGCATCTGAGGCAGAGCAAAGGTTCAGGTGAGAGGACGGAGCATTTCTCCACCTCTCCAGCATGCGCAGCATCTCTCTCCTCCGAGATGCCGAGACATGTGTGCAGGGAGACACCATGAAAAAGCAGGTGTGCTTCATTCTGAATAGAGCGTCTCTGATTCCCGTCTGGTGCCTGAGGGTGCATGGCCCATGAGCCTTAGAAGAGACGTCTTCGGGCCTTGCACGTTGGCCTCCATAGAAACTTGTGGCAAATTCTGGGCTCCGGACTGGGTGATGGAGGTAGAGGTCTGAGGGCAGAGGTGGGCAGGGGCTCCAGGCCGTGGAGATCCAAGTGGAATTCTTCAGGCAGAGCCTGTCTCCAGGGACTAGGCTTGGGCATTTGGGATGAGCCCTGGGGGACGGCCGCTCTGTAGTCAGGTTTGAGGTAGAGGACACGCCAGGAAGAAGGGCTGACTCCATGCACAAGGTTTGCTGGGGGTCCCATCAGGGGCAGGAAGCCTTGGGGAGCCTCACCCTCTTCTACTGAAGGCGCCACACACACATTCTCTGCTCTCTGGGCTCTCACAGATCCATTTTCAATGTCAATCTCCCAGACAGTCTCTGTACTAGTGAGCAGGAGCCAGCGGGCATGGGCAGGGTACAAGAGATCCTTCAGGGACATCAAGAGTTGCTCAGGGACCACCAGGAGCTGCACATTGAGGAGGCTGAGTCGCAGGGCTCCCTGTGGGTCCAGCCCCAGGAACTCCTGCCCCAGGCGCAGGTGCAGGACCATTCCTGGTTCCAAGACCGCGATGATCATCTTCCTCTGGGGAAGCTGTGGGCCCTGGGGGAGAAAAGCCGTGGGTCAGTCATTGTCCTCTGAGGGTGGCTCAAACAGGGAGAGAGCAAGGCGGGGAGCTGCCAGTAACTTCCCCAGGCATAAATGAAACCCCGCAGGGACACCCAGAATTGGCACCTGTATTGACGCCCCTTGGGACGGTGATTTCCTGCAAGTCCCCTAGGGCCTGGAGCTCAGGCAGACCTGTCTCACCCACGCCCACCTAGGTGGTGTGACCTTACCTGGGGCAGCTCCAGGGGCAGCTGTGCAGGGTGGTGGGGAGCTGGCTGTACCGGAGCTGGTTCTGCACCTGTGGAGAGAGCAGAGTGTGCAGGTGAAAGCCCTTGTCATGCAGGATGCCCTTGAGGGTTCAAGGTGCCACCGTGAGAAAGACCAAATACAGAAGAAGCCAGGTACAGGACACCCAGCCACGGAGCTGCAGGAGGAAGCTCCCGACACTCTGGACAGCACAGCTGCTCGCCTCATGACGTGACGGGACACTGGCTTGGTAGCAGGGGACTCAGGATGAAAAAGAGAAGATGCCTCACCTGGATGAGGACCCAGCTCCTCCACTTTCTGGCGTTTTGGGGCATTTGATGGCGTGCCGCTGGAGCTGTAGGACAGAGAGACACAGTCAGATTTCGGGCAGTTCCCTAACGTCCAATTCCCTGAATCCCCACAAATTCACTCCACTTCCCTGCCTTTCATTCAAGGCCACAGACTCGTCATCCACTTCCTGTGAGACCTGCTCCCAATCTGTCCTAACTCCCAGCTGTTCTTGTTCTCACCCCATCTACCTGAGCTTCCCTGGGTGAAGAAAAGGCAGGGAAGGAGGGTCGGTGCCCACAGGGAGCAGTTGACCCTTTCAGGAGCTCATGCAGATGAGAGTTGGAAAACTCTCCTTGGGTGTGAGGAGCTGGAGAAAGATGTTGAGATCCCGGAGAGGTGGCACCTCTGTCTACACAGGTAACAAAGGAATGGGGTCTTAGGATTCGAATCACAGCAGGAGAAGAGGAAGGAATTTGTCGGGCATGACGGCATGCGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGTCGGAGGATTGCTTGAGTCCAGGAGTTTGAGAGCAGCCTGGGCAACATGGTGAAAGCTAGTCTCCACTAAAAATACTAAACATTAGTGGGTCATGGTGGTGCATGCCTGTGGTCTCACCTACTCAGGAGGCTCAGGTGGGAGGATCACCTGCGACTCAGAGGTGGAGCCCGCAGTCAGCTAAAATCACGCCACTGCACTCCAGTGTGGACCATCGGAGTGAGACGCTGTCTCAGTAAAATAAATCAGTAAATAAGACAAATAGAAAAATTAAAAATGAAAAAAGGAGGAAACTGTTTTATTTTTCCTAGTAGATCTTGAAACTCTCACATCATGTCCTACAATCTCCCTTCTTGCAGAACACAGAACCCATTCCCTGTGGAGCTGGTTGGGTGGATTGAAAGTGGGGCTGCCCTGAGATATGTGTGTGGTTGCGATGTAGAAGCCTTCCCAGCACCCTGTGATGACTTACGGGCACCTCACTTCCCTCTGGCCCCAAATTCAAAACATCCAATCTCATGGCAGGTTCATGCACCCTTTTCCCTTCCCCTCTCTCCAACACACACCCACACATCCCACAGGCAGGTCACCCCGCAGGCGTCCCCAGCACATAGCAAAGCTCACCCGCTCTCTCCTGCGTGGTCGCTCTTGGATTCGGTGCAGGAATCACTGGGGCTTCTTGGGCGCCGGGAACCTTTCATGGTGAAAATTTCCAGGGTTCTCCAAGTCAGCCACTGCCAGTGTTTGTCTGTCTCCTGCAAAGATTTCTTCTTGGCTCCCGAATCCTTTAGTTCCTTTGAGAGAGTGGTGTCAGCCCCAAAGCTGCTCCCGAAGGCTTGGGTTGTGTAGCGACGGGGCTGTGGCCAGCGGCAGGTGGACGAGGCTCCGACAACTGAGCTCTTGGGGGAATCTTGTACACTGTCAGCAGGGGGTGGAGCCAGGGGATTTGTCAGCAGGAACTGATGTGATTGGCTGTTCCTGGTATGACAACGGGAGGGGCCCTCATGGAGGATTGGGGCGTAACTCAATCCATAGATGACCGATCAACAGAACCTGCCTAATCCCATCAAGAGCCAACCTGTTTCCTGTCCCCTCCCATCCTCTAGGTCTTGCCTAATAATGATAGACACTTTCTGTCATACCCAATTCATCCATCGCTGAAATAGTTTTTCATGTGTGCCTTTTATATTTTCATGCAATAAAAATATGTTAATTTTCACGGTGGCCATCCTGGGGAATGCTATGTACATGAAATGAAGTGTCAAAGGAGCAGAAGCAGAAGGAAATTCACAAGCTTCTCTGAGCGTCTCTGCTTCAATTCCTGCCATGTTTCCTAAATATGTTGGCTTCTTTCTTCCTACCCAAGTAAGAAGGTGCTTCAGAAGATCAATCTTATGGCATTTGACAAACCCTGCTGAGAATTTCAGGATGACACGAAGGAACCTTTGATTGGATTTGTGGATGTGCCTGTGAAAGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGCCAGGATGAAGTGGCTGTTCCTGGGGTGGAGACCCTTCTTTCTCTTGAGAATGTTCATTGCTGTTGACTCATTGTGGGTTTTGGAGATATTTTCTCTCTTTCTTTCGTTCTTTCAGACATTTTTTGCTTTCTCCCTCCCTGGATCCTAACCCCCCTCCATCCCCCCCCTCACTCCCTCCCTCCTTGTTTCCATCCTTCCTCCCTCCCTTCCCTCTTTCCTTCCTTCCTGCCTTCTTCCCTTCCCCTTCCCCTCTTCCTTCTGTCCTTCCTTCCTGTGTGTAAAAGAAAAATTGGTGAATAGAAGAATAATTGAATAACTGCCTGAGTCACTTATACATTTCTCATCTCACTCTGGGGACACAGAAGACCGTGTTGTACTCATCTCCTCGATTTTAAAAACAGTCATTCTAAAATCAAGGATTCTAGATGTATCACTTCTAGGCGAAATCTTGAAAGAGAATGTGTAAGAGTTTCATGTGCTCTTCATCTCTATGATCACAATTGAAGAAGGCAGGAGGTTGAGATGCTGCATCGCCAAGATCGTGGTGATTCCATTATCATTACCCTTGTAACTTGTGAGCATCCTTACTGCCAGCAATCATTATTAGATATGGAATCTGATATAGGAGTTCATATTTACTGTATGAATATCTTGGTGTGGGAGTGTTGGCTCATGCCTGTAATCCCAGTGCTTTGGGAGGCAGAGGCAGGAGGCTCGCTTGAACCCAGGAGTTCGAGACAAGCCGGAAGAGCATGGCGAGACCCTCGTCTCTACAAAAATGTAAAAATCAGCCAAGTGTGCTGGTAGGTGCCTGTAGTCTCAGCTCCTTAGGAGGCTGAAGTGTTAGGATCGCTTTCGCCCGGGATGTAATGGCTACAGGGAGTCGAGATCTTGCCACTGAACTTCAGCCTGGGCAACAGAGCAAGACTCTCTCTCAAAAATAAAATGCTTTTTCCTTTAGGCTTAAATTCTAACACTCAAACCTCCAAAGCGGAGGTATTAGGAGGTGGGGCCCTTGGGAGATGATGAGATTATGAAAGTGGAACCCTCGTAAATGGGATTAGTGCCCTTCTGAAAGTGACGGAAGAGAGCTCGCCAGCACCTTCCATGTGGGGAGACAGGGAGGATATGACAGTCTCCAACCTGGAAGAGGGTCCTCACCAGACCCCGATCATGCTGGCACTCTCATCGTGGACTTCCGGCCTCCAGAACTCTGATCAACAAATGTGTGTTCTTAAAGAAAAAAAAAGTGTGGAAAGCAATGTTAATGTTCCCAATCACTTTGAGTACATTCTTTCCTTAACTATGTCTTAATGCATAGTTGTGTTGGATGGCCTAGTTTGTAATGTTAGAATATGCATGTTAGTGAATTAATAAATACAGCAGTAAAGAATAGAGTTGTGGTTGGGAATGGAGTCTCACGCCTGTAATCCCAGCACAATGGCATGCCGAGGCGGGTCAATCACCTGTAGTCGGGAGGTGGAGATCACCCTGACCAACATGGAGAAACCCGACTCTACTAAAAATACAAATCAGCCTGTCATAGAGGCACATGCCTTTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCTAGGAGGCAGAGGTTGCGGTGAGCCGAGATCGCGCCATTGCACTCCAGCCTGGGCAACAAAAGCTAAATTCTATATCAAAAAATTAAAAAAAAAAAAAAGAAGGCTGTTTGTTGACCATTTGAGTGGCCAGTCTTGGTGCTTCCTGGTGGGCGAGGAGAGCCCTGCCCCATTCCTACCCATTCCAGTAGTCATGGCATAAGAGTGATTCTCACTTTCTGCTATAGCCTCCTTATCCATTGGCTGAAATGATTCTTTTTTAATGTGTCTTATTAATGCTTCCATAGCAAAAAATATTGAATTGACTTTTATAGGGACTCTTTCGGGGATTGTTACCCATCATTCCATAATTTGTTTGTACTCCTAGAAAAGGGAAGTATGCCGAGCACAGTGGATATTTCGTCTCAAATAATAAATAAATAACCAAATAGAAAAGAAAGAAAAGGAAGTAAAGGGAAATATACAAATATACAAGGTGTTAGGAGAGAGTTGCTAATCGTGATTCCCCCTTAATTGTCCAAACAGACCACCTCTGGGGATCTATTCGTAAAAGACTCGTTAGAAGTGCAGACTCATGCATTTGAGAATCACTCAGGGAAATCTGAAGATGACCTGTGGTGGGGGTGTAAATGGATACTTAAATGTGTCTTGTGATTGTGTGAGAGTGTGACTGTGTGTTTGTGTGTGTGCTGTCATCTGTGGAGTGGGGGATCCTCTTTTGCCTTGAGAAAGCTCATCTCTGTCCACTTACTCTGGGCTCTACCATCTGTGCCTTGTATCCAGTAGAAATAAAACAGTTTGCGGCAGAAATGGAGTTTTATTTTATTTCACTTTACTTTTTATTAGGATTATTTGTAGACCGGGTCTCACTCTGTCACTCAGGCTGGAGTGCAATGGCACGATCTCAGATCACTGCAACCTGTGCCTCCTGCACTGAAGCCATCCTCCCACCTCAGCCTCTGGAGTGGGGAGATCCCACACCTGTGTAATTTTTGCATTTTTTCTAGAGATGGGGTTTCCTCATGCTGCCCGGGCTGGTTTCCAACGCCTGGGCTCAAGTGATCCACCCGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGTGGGAGCTACTGTGCCCGGCCAGAGATGGAGATTTTTGTTCTTCTTTTGATGAGACGGAACCTCGCACCGTGGCCCAGGCTGGAGTGCAGTGGAGTGACCTCGGCTCACTGCAAGCTCTGCCTCCTGGGGTCATGCCATTCTCCTGCCTCAGCCTCCCAAAGAGCTGGGACTACAGGCGCCCGACACCACGCCCAGCTAAGGTTTTTGCA"	"TTTTTTTTTTTTTGTAGGGACGGGCTTTCACCGTGTTAGCCAGGACGGTCTCGATCTCCTGCCCTCGTGATGCACCCGCCTGAGCCTCCCGAAGTGCTCGGATTACAGGCATGAGCCACCATGCACGGCCCAGAAATGGAGATTTTTGAGCAAACACATTAAAGAAAAGAAACGCAAATAGACGAAACTCATTTTAACATTTTTATTTAACCCAAGGAATACAGATATAATCAACACCAATACAATTGATGTCACAGTGATGACTAAGATACATGCTACAATCCTTCATTCTCAGATGCAAAATCTAGTATGTGTTTTACAGCAAACGTCAGTTGGAAACTGAACGTCGATCACACATGCTTGATGTGCATGTCAATTTCATGAGAGTTACAATCTCAGGAGAAGTCTCACATAGCGTAAGAGTCCAAACATACCTTCAAGTGTTTCGACAAGTTCTTCACTACTCATTCTTAGAACTGAATTTACCAACAACAATCCCAGCCTATTCATTGCTGAACTGCATCCCATTGAAAGAATGGGTCACAGTTCCTCTCTCTAGACACTGTGGAACGACATTGAAGGCCCTTCCATCTTTTGGCGATTGTGAGGACAGGTGCTAGAAGCCTCTGCCCTCAGCCTTGTCCACGTGAGTTCTAATTCCTTTAGAACAACTATCTCAGGGTGGGAAAGATGGTTCCAATGCTAAGTGCCTATTGCATTGATTATGAATCAATGAAACTCTTTCTCCCTGGGGGTTGTCCCAGTTGGATTCCAAGCAGCACTGTCAGAGTGTTCCAGCTTCTCCACATGCTCCGCAGCCCTTGGGATGGTGAGTGATTGTCACGGTGGCTTCTGGGAGAGCTTCTTGGTTGTTGTTGAAGGTGTATTTGACGTGCATTTCCCCAGGGGAGGGACAGTGAACGCTTTTTGAAGTGGTTCTTTACATCCCCTTTGAGGAAATGTCTGCTCAAGTCTCTGGCTGGGTTTTGAACAGAATCATTTGTTTGTCCCATTGGAGTTTTGACAACTCTGTGTATTCTGAGTATGAGCAGTCCTTGCACGTATATGAGATTTGCAAATATTTTGTGCCCCAATCTCAAGGTTGCTCTTTGATACAAATCAAGAGCATCTGAGGCAGAGCAAAGGTTCAGGTGAGAGGACGGAGCATTTCTCCACCTCTCCAGCATGCGCAGCATCTCTCTCCTCCGAGATGCCGAGACATGTGTGCAGGGAGACACCATGAAAAAGCAGGTGTGCTTCATTCTGAATAGAGCGTCTCTGATTCCCGTCTGGTGCCTGAGGGTGCATGGCCCATGAGCCTTAGAAGAGACGTCTTCGGGCCTTGCACGTTGGCCTCCATAGAAACTTGTGGCAAATTCTGGGCTCCGGACTGGGTGATGGAGGTAGAGGTCTGAGGGCAGAGGTGGGCAGGGGCTCCAGGCCGTGGAGATCCAAGTGGAATTCTTCAGGCAGAGCCTGTCTCCAGGGACTAGGCTTGGGCATTTGGGATGAGCCCTGGGGGACGGCCGCTCTGTAGTCAGGTTTGAGGTAGAGGACACGCCAGGAAGAAGGGCTGACTCCATGCACAAGGTTTGCTGGGGGTCCCATCAGGGGCAGGAAGCCTTGGGGAGCCTCACCCTCTTCTACTGAAGGCGCCACACACACATTCTCTGCTCTCTGGGCTCTCACAGATCCATTTTCAATGTCAATCTCCCAGACAGTCTCTGTACTAGTGAGCAGGAGCCAGCGGGCATGGGCAGGGTACAAGAGATCCTTCAGGGACATCAAGAGTTGCTCAGGGACCACCAGGAGCTGCACATTGAGGAGGCTGAGTCGCAGGGCTCCCTGTGGGTCCAGCCCCAGGAACTCCTGCCCCAGGCGCAGGTGCAGGACCATTCCTGGTTCCAAGACCGCGATGATCATCTTCCTCTGGGGAAGCTGTGGGCCCTGGGGGAGAAAAGCCGTGGGTCAGTCATTGTCCTCTGAGGGTGGCTCAAACAGGGAGAGAGCAAGGCGGGGAGCTGCCAGTAACTTCCCCAGGCATAAATGAAACCCCGCAGGGACACCCAGAATTGGCACCTGTATTGACGCCCCTTGGGACGGTGATTTCCTGCAAGTCCCCTAGGGCCTGGAGCTCAGGCAGACCTGTCTCACCCACGCCCACCTAGGTGGTGTGACCTTACCTGGGGCAGCTCCAGGGGCAGCTGTGCAGGGTGGTGGGGAGCTGGCTGTACCGGAGCTGGTTCTGCACCTGTGGAGAGAGCAGAGTGTGCAGGTGAAAGCCCTTGTCATGCAGGATGCCCTTGAGGGTTCAAGGTGCCACCGTGAGAAAGACCAAATACAGAAGAAGCCAGGTACAGGACACCCAGCCACGGAGCTGCAGGAGGAAGCTCCCGACACTCTGGACAGCACAGCTGCTCGCCTCATGACGTGACGGGACACTGGCTTGGTAGCAGGGGACTCAGGATGAAAAAGAGAAGATGCCTCACCTGGATGAGGACCCAGCTCCTCCACTTTCTGGCGTTTTGGGGCATTTGATGGCGTGCCGCTGGAGCTGTAGGACAGAGAGACACAGTCAGATTTCGGGCAGTTCCCTAACGTCCAATTCCCTGAATCCCCACAAATTCACTCCACTTCCCTGCCTTTCATTCAAGGCCACAGACTCGTCATCCACTTCCTGTGAGACCTGCTCCCAATCTGTCCTAACTCCCAGCTGTTCTTGTTCTCACCCCATCTACCTGAGCTTCCCTGGGTGAAGAAAAGGCAGGGAAGGAGGGTCGGTGCCCACAGGGAGCAGTTGACCCTTTCAGGAGCTCATGCAGATGAGAGTTGGAAAACTCTCCTTGGGTGTGAGGAGCTGGAGAAAGATGTTGAGATCCCGGAGAGGTGGCACCTCTGTCTACACAGGTAACAAAGGAATGGGGTCTTAGGATTCGAATCACAGCAGGAGAAGAGGAAGGAATTTGTCGGGCATGACGGCATGCGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGTCGGAGGATTGCTTGAGTCCAGGAGTTTGAGAGCAGCCTGGGCAACATGGTGAAAGCTAGTCTCCACTAAAAATACTAAACATTAGTGGGTCATGGTGGTGCATGCCTGTGGTCTCACCTACTCAGGAGGCTCAGGTGGGAGGATCACCTGCGACTCAGAGGTGGAGCCCGCAGTCAGCTAAAATCACGCCACTGCACTCCAGTGTGGACCATCGGAGTGAGACGCTGTCTCAGTAAAATAAATCAGTAAATAAGACAAATAGAAAAATTAAAAATGAAAAAAGGAGGAAACTGTTTTATTTTTCCTAGTAGATCTTGAAACTCTCACATCATGTCCTACAATCTCCCTTCTTGCAGAACACAGAACCCATTCCCTGTGGAGCTGGTTGGGTGGATTGAAAGTGGGGCTGCCCTGAGATATGTGTGTGGTTGCGATGTAGAAGCCTTCCCAGCACCCTGTGATGACTTACGGGCACCTCACTTCCCTCTGGCCCCAAATTCAAAACATCCAATCTCATGGCAGGTTCATGCACCCTTTTCCCTTCCCCTCTCTCCAACACACACCCACACATCCCACAGGCAGGTCACCCCGCAGGCGTCCCCAGCACATAGCAAAGCTCACCCGCTCTCTCCTGCGTGGTCGCTCTTGGATTCGGTGCAGGAATCACTGGGGCTTCTTGGGCGCCGGGAACCTTTCATGGTGAAAATTTCCAGGGTTCTCCAAGTCAGCCACTGCCAGTGTTTGTCTGTCTCCTGCAAAGATTTCTTCTTGGCTCCCGAATCCTTTAGTTCCTTTGAGAGAGTGGTGTCAGCCCCAAAGCTGCTCCCGAAGGCTTGGGTTGTGTAGCGACGGGGCTGTGGCCAGCGGCAGGTGGACGAGGCTCCGACAACTGAGCTCTTGGGGGAATCTTGTACACTGTCAGCAGGGGGTGGAGCCAGGGGATTTGTCAGCAGGAACTGATGTGATTGGCTGTTCCTGGTATGACAACGGGAGGGGCCCTCATGGAGGATTGGGGCGTAACTCAATCCATAGATGACCGATCAACAGAACCTGCCTAATCCCATCAAGAGCCAACCTGTTTCCTGTCCCCTCCCATCCTCTAGGTCTTGCCTAATAATGATAGACACTTTCTGTCATACCCAATTCATCCATCGCTGAAATAGTTTTTCATGTGTGCCTTTTATATTTTCATGCAATAAAAATATGTTAATTTTCACGGTGGCCATCCTGGGGAATGCTATGTACATGAAATGAAGTGTCAAAGGAGCAGAAGCAGAAGGAAATTCACAAGCTTCTCTGAGCGTCTCTGCTTCAATTCCTGCCATGTTTCCTAAATATGTTGGCTTCTTTCTTCCTACCCAAGTAAGAAGGTGCTTCAGAAGATCAATCTTATGGCATTTGACAAACCCTGCTGAGAATTTCAGGATGACACGAAGGAACCTTTGATTGGATTTGTGGATGTGCCTGTGAAAGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGCCAGGATGAAGTGGCTGTTCCTGGGGTGGAGACCCTTCTTTCTCTTGAGAATGTTCATTGCTGTTGACTCATTGTGGGTTTTGGAGATATTTTCTCTCTTTCTTTCGTTCTTTCAGACATTTTTTGCTTTCTCCCTCCCTGGATCCTAACCCCCCTCCATCCCCCCCCTCACTCCCTCCCTCCTTGTTTCCATCCTTCCTCCCTCCCTTCCCTCTTTCCTTCCTTCCTGCCTTCTTCCCTTCCCCTTCCCCTCTTCCTTCTGTCCTTCCTTCCTGTGTGTAAAAGAAAAATTGGTGAATAGAAGAATAATTGAATAACTGCCTGAGTCACTTATACATTTCTCATCTCACTCTGGGGACACAGAAGACCGTGTTGTACTCATCTCCTCGATTTTAAAAACAGTCATTCTAAAATCAAGGATTCTAGATGTATCACTTCTAGGCGAAATCTTGAAAGAGAATGTGTAAGAGTTTCATGTGCTCTTCATCTCTATGATCACAATTGAAGAAGGCAGGAGGTTGAGATGCTGCATCGCCAAGATCGTGGTGATTCCATTATCATTACCCTTGTAACTTGTGAGCATCCTTACTGCCAGCAATCATTATTAGATATGGAATCTGATATAGGAGTTCATATTTACTGTATGAATATCTTGGTGTGGGAGTGTTGGCTCATGCCTGTAATCCCAGTGCTTTGGGAGGCAGAGGCAGGAGGCTCGCTTGAACCCAGGAGTTCGAGACAAGCCGGAAGAGCATGGCGAGACCCTCGTCTCTACAAAAATGTAAAAATCAGCCAAGTGTGCTGGTAGGTGCCTGTAGTCTCAGCTCCTTAGGAGGCTGAAGTGTTAGGATCGCTTTCGCCCGGGATGTAATGGCTACAGGGAGTCGAGATCTTGCCACTGAACTTCAGCCTGGGCAACAGAGCAAGACTCTCTCTCAAAAATAAAATGCTTTTTCCTTTAGGCTTAAATTCTAACACTCAAACCTCCAAAGCGGAGGTATTAGGAGGTGGGGCCCTTGGGAGATGATGAGATTATGAAAGTGGAACCCTCGTAAATGGGATTAGTGCCCTTCTGAAAGTGACGGAAGAGAGCTCGCCAGCACCTTCCATGTGGGGAGACAGGGAGGATATGACAGTCTCCAACCTGGAAGAGGGTCCTCACCAGACCCCGATCATGCTGGCACTCTCATCGTGGACTTCCGGCCTCCAGAACTCTGATCAACAAATGTGTGTTCTTAAAGAAAAAAAAAGTGTGGAAAGCAATGTTAATGTTCCCAATCACTTTGAGTACATTCTTTCCTTAACTATGTCTTAATGCATAGTTGTGTTGGATGGCCTAGTTTGTAATGTTAGAATATGCATGTTAGTGAATTAATAAATACAGCAGTAAAGAATAGAGTTGTGGTTGGGAATGGAGTCTCACGCCTGTAATCCCAGCACAATGGCATGCCGAGGCGGGTCAATCACCTGTAGTCGGGAGGTGGAGATCACCCTGACCAACATGGAGAAACCCGACTCTACTAAAAATACAAATCAGCCTGTCATAGAGGCACATGCCTTTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCTAGGAGGCAGAGGTTGCGGTGAGCCGAGATCGCGCCATTGCACTCCAGCCTGGGCAACAAAAGCTAAATTCTATATCAAAAAATTAAAAAAAAAAAAAAGAAGGCTGTTTGTTGACCATTTGAGTGGCCAGTCTTGGTGCTTCCTGGTGGGCGAGGAGAGCCCTGCCCCATTCCTACCCATTCCAGTAGTCATGGCATAAGAGTGATTCTCACTTTCTGCTATAGCCTCCTTATCCATTGGCTGAAATGATTCTTTTTTAATGTGTCTTATTAATGCTTCCATAGCAAAAAATATTGAATTGACTTTTATAGGGACTCTTTCGGGGATTGTTACCCATCATTCCATAATTTGTTTGTACTCCTAGAAAAGGGAAGTATGCCGAGCACAGTGGATATTTCGTCTCAAATAATAAATAAATAACCAAATAGAAAAGAAAGAAAAGGAAGTAAAGGGAAATATACAAATATACAAGGTGTTAGGAGAGAGTTGCTAATCGTGATTCCCCCTTAATTGTCCAAACAGACCACCTCTGGGGATCTATTCGTAAAAGACTCGTTAGAAGTGCAGACTCATGCATTTGAGAATCACTCAGGGAAATCTGAAGATGACCTGTGGTGGGGGTGTAAATGGATACTTAAATGTGTCTTGTGATTGTGTGAGAGTGTGACTGTGTGTTTGTGTGTGTGCTGTCATCTGTGGAGTGGGGGATCCTCTTTTGCCTTGAGAAAGCTCATCTCTGTCCACTTACTCTGGGCTCTACCATCTGTGCCTTGTATCCAGTAGAAATAAAACAGTTTGCGGCAGAAATGGAGTTTTATTTTATTTCACTTTACTTTTTATTAGGATTATTTGTAGACCGGGTCTCACTCTGTCACTCAGGCTGGAGTGCAATGGCACGATCTCAGATCACTGCAACCTGTGCCTCCTGCACTGAAGCCATCCTCCCACCTCAGCCTCTGGAGTGGGGAGATCCCACACCTGTGTAATTTTTGCATTTTTTCTAGAGATGGGGTTTCCTCATGCTGCCCGGGCTGGTTTCCAACGCCTGGGCTCAAGTGATCCACCCGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGTGGGAGCTACTGTGCCCGGCCAGAGATGGAGATTTTTGTTCTTCTTTTGATGAGACGGAACCTCGCACCGTGGCCCAGGCTGGAGTGCAGTGGAGTGACCTCGGCTCACTGCAAGCTCTGCCTCCTGGGGTCATGCCATTCTCCTGCCTCAGCCTCCCAAAGAGCTGGGACTACAGGCGCCCGACACCACGCCCAGCTAAGGTTTTTGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000600294"	""	18	"."	3	2	"."	0	"CTD-2557P19.4,downstream_gene_variant,,ENST00000600294,;"	"-"	"ENSG00000268922"	"ENST00000600294"	"Transcript"	"downstream_gene_variant"	"-/197"	""	""	""	""	""	"1"	"1326"	-1	"CTD-2557P19.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTTTTTTTTTTTTTGTAGGGACGGGCTTTCACCGTGTTAGCCAGGACGGTCTCGATCTCCTGCCCTCGTGATGCACCCGCCTGAGCCTCCCGAAGTGCTCGGATTACAGGCATGAGCCACCATGCACGGCCCAGAAATGGAGATTTTTGAGCAAACACATTAAAGAAAAGAAACGCAAATAGACGAAACTCATTTTAACATTTTTATTTAACCCAAGGAATACAGATATAATCAACACCAATACAATTGATGTCACAGTGATGACTAAGATACATGCTACAATCCTTCATTCTCAGATGCAAAATCTAGTATGTGTTTTACAGCAAACGTCAGTTGGAAACTGAACGTCGATCACACATGCTTGATGTGCATGTCAATTTCATGAGAGTTACAATCTCAGGAGAAGTCTCACATAGCGTAAGAGTCCAAACATACCTTCAAGTGTTTCGACAAGTTCTTCACTACTCATTCTTAGAACTGAATTTACCAACAACAATCCCAGCCTATTCATTGCTGAACTGCATCCCATTGAAAGAATGGGTCACAGTTCCTCTCTCTAGACACTGTGGAACGACATTGAAGGCCCTTCCATCTTTTGGCGATTGTGAGGACAGGTGCTAGAAGCCTCTGCCCTCAGCCTTGTCCACGTGAGTTCTAATTCCTTTAGAACAACTATCTCAGGGTGGGAAAGATGGTTCCAATGCTAAGTGCCTATTGCATTGATTATGAATCAATGAAACTCTTTCTCCCTGGGGGTTGTCCCAGTTGGATTCCAAGCAGCACTGTCAGAGTGTTCCAGCTTCTCCACATGCTCCGCAGCCCTTGGGATGGTGAGTGATTGTCACGGTGGCTTCTGGGAGAGCTTCTTGGTTGTTGTTGAAGGTGTATTTGACGTGCATTTCCCCAGGGGAGGGACAGTGAACGCTTTTTGAAGTGGTTCTTTACATCCCCTTTGAGGAAATGTCTGCTCAAGTCTCTGGCTGGGTTTTGAACAGAATCATTTGTTTGTCCCATTGGAGTTTTGACAACTCTGTGTATTCTGAGTATGAGCAGTCCTTGCACGTATATGAGATTTGCAAATATTTTGTGCCCCAATCTCAAGGTTGCTCTTTGATACAAATCAAGAGCATCTGAGGCAGAGCAAAGGTTCAGGTGAGAGGACGGAGCATTTCTCCACCTCTCCAGCATGCGCAGCATCTCTCTCCTCCGAGATGCCGAGACATGTGTGCAGGGAGACACCATGAAAAAGCAGGTGTGCTTCATTCTGAATAGAGCGTCTCTGATTCCCGTCTGGTGCCTGAGGGTGCATGGCCCATGAGCCTTAGAAGAGACGTCTTCGGGCCTTGCACGTTGGCCTCCATAGAAACTTGTGGCAAATTCTGGGCTCCGGACTGGGTGATGGAGGTAGAGGTCTGAGGGCAGAGGTGGGCAGGGGCTCCAGGCCGTGGAGATCCAAGTGGAATTCTTCAGGCAGAGCCTGTCTCCAGGGACTAGGCTTGGGCATTTGGGATGAGCCCTGGGGGACGGCCGCTCTGTAGTCAGGTTTGAGGTAGAGGACACGCCAGGAAGAAGGGCTGACTCCATGCACAAGGTTTGCTGGGGGTCCCATCAGGGGCAGGAAGCCTTGGGGAGCCTCACCCTCTTCTACTGAAGGCGCCACACACACATTCTCTGCTCTCTGGGCTCTCACAGATCCATTTTCAATGTCAATCTCCCAGACAGTCTCTGTACTAGTGAGCAGGAGCCAGCGGGCATGGGCAGGGTACAAGAGATCCTTCAGGGACATCAAGAGTTGCTCAGGGACCACCAGGAGCTGCACATTGAGGAGGCTGAGTCGCAGGGCTCCCTGTGGGTCCAGCCCCAGGAACTCCTGCCCCAGGCGCAGGTGCAGGACCATTCCTGGTTCCAAGACCGCGATGATCATCTTCCTCTGGGGAAGCTGTGGGCCCTGGGGGAGAAAAGCCGTGGGTCAGTCATTGTCCTCTGAGGGTGGCTCAAACAGGGAGAGAGCAAGGCGGGGAGCTGCCAGTAACTTCCCCAGGCATAAATGAAACCCCGCAGGGACACCCAGAATTGGCACCTGTATTGACGCCCCTTGGGACGGTGATTTCCTGCAAGTCCCCTAGGGCCTGGAGCTCAGGCAGACCTGTCTCACCCACGCCCACCTAGGTGGTGTGACCTTACCTGGGGCAGCTCCAGGGGCAGCTGTGCAGGGTGGTGGGGAGCTGGCTGTACCGGAGCTGGTTCTGCACCTGTGGAGAGAGCAGAGTGTGCAGGTGAAAGCCCTTGTCATGCAGGATGCCCTTGAGGGTTCAAGGTGCCACCGTGAGAAAGACCAAATACAGAAGAAGCCAGGTACAGGACACCCAGCCACGGAGCTGCAGGAGGAAGCTCCCGACACTCTGGACAGCACAGCTGCTCGCCTCATGACGTGACGGGACACTGGCTTGGTAGCAGGGGACTCAGGATGAAAAAGAGAAGATGCCTCACCTGGATGAGGACCCAGCTCCTCCACTTTCTGGCGTTTTGGGGCATTTGATGGCGTGCCGCTGGAGCTGTAGGACAGAGAGACACAGTCAGATTTCGGGCAGTTCCCTAACGTCCAATTCCCTGAATCCCCACAAATTCACTCCACTTCCCTGCCTTTCATTCAAGGCCACAGACTCGTCATCCACTTCCTGTGAGACCTGCTCCCAATCTGTCCTAACTCCCAGCTGTTCTTGTTCTCACCCCATCTACCTGAGCTTCCCTGGGTGAAGAAAAGGCAGGGAAGGAGGGTCGGTGCCCACAGGGAGCAGTTGACCCTTTCAGGAGCTCATGCAGATGAGAGTTGGAAAACTCTCCTTGGGTGTGAGGAGCTGGAGAAAGATGTTGAGATCCCGGAGAGGTGGCACCTCTGTCTACACAGGTAACAAAGGAATGGGGTCTTAGGATTCGAATCACAGCAGGAGAAGAGGAAGGAATTTGTCGGGCATGACGGCATGCGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGTCGGAGGATTGCTTGAGTCCAGGAGTTTGAGAGCAGCCTGGGCAACATGGTGAAAGCTAGTCTCCACTAAAAATACTAAACATTAGTGGGTCATGGTGGTGCATGCCTGTGGTCTCACCTACTCAGGAGGCTCAGGTGGGAGGATCACCTGCGACTCAGAGGTGGAGCCCGCAGTCAGCTAAAATCACGCCACTGCACTCCAGTGTGGACCATCGGAGTGAGACGCTGTCTCAGTAAAATAAATCAGTAAATAAGACAAATAGAAAAATTAAAAATGAAAAAAGGAGGAAACTGTTTTATTTTTCCTAGTAGATCTTGAAACTCTCACATCATGTCCTACAATCTCCCTTCTTGCAGAACACAGAACCCATTCCCTGTGGAGCTGGTTGGGTGGATTGAAAGTGGGGCTGCCCTGAGATATGTGTGTGGTTGCGATGTAGAAGCCTTCCCAGCACCCTGTGATGACTTACGGGCACCTCACTTCCCTCTGGCCCCAAATTCAAAACATCCAATCTCATGGCAGGTTCATGCACCCTTTTCCCTTCCCCTCTCTCCAACACACACCCACACATCCCACAGGCAGGTCACCCCGCAGGCGTCCCCAGCACATAGCAAAGCTCACCCGCTCTCTCCTGCGTGGTCGCTCTTGGATTCGGTGCAGGAATCACTGGGGCTTCTTGGGCGCCGGGAACCTTTCATGGTGAAAATTTCCAGGGTTCTCCAAGTCAGCCACTGCCAGTGTTTGTCTGTCTCCTGCAAAGATTTCTTCTTGGCTCCCGAATCCTTTAGTTCCTTTGAGAGAGTGGTGTCAGCCCCAAAGCTGCTCCCGAAGGCTTGGGTTGTGTAGCGACGGGGCTGTGGCCAGCGGCAGGTGGACGAGGCTCCGACAACTGAGCTCTTGGGGGAATCTTGTACACTGTCAGCAGGGGGTGGAGCCAGGGGATTTGTCAGCAGGAACTGATGTGATTGGCTGTTCCTGGTATGACAACGGGAGGGGCCCTCATGGAGGATTGGGGCGTAACTCAATCCATAGATGACCGATCAACAGAACCTGCCTAATCCCATCAAGAGCCAACCTGTTTCCTGTCCCCTCCCATCCTCTAGGTCTTGCCTAATAATGATAGACACTTTCTGTCATACCCAATTCATCCATCGCTGAAATAGTTTTTCATGTGTGCCTTTTATATTTTCATGCAATAAAAATATGTTAATTTTCACGGTGGCCATCCTGGGGAATGCTATGTACATGAAATGAAGTGTCAAAGGAGCAGAAGCAGAAGGAAATTCACAAGCTTCTCTGAGCGTCTCTGCTTCAATTCCTGCCATGTTTCCTAAATATGTTGGCTTCTTTCTTCCTACCCAAGTAAGAAGGTGCTTCAGAAGATCAATCTTATGGCATTTGACAAACCCTGCTGAGAATTTCAGGATGACACGAAGGAACCTTTGATTGGATTTGTGGATGTGCCTGTGAAAGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGCCAGGATGAAGTGGCTGTTCCTGGGGTGGAGACCCTTCTTTCTCTTGAGAATGTTCATTGCTGTTGACTCATTGTGGGTTTTGGAGATATTTTCTCTCTTTCTTTCGTTCTTTCAGACATTTTTTGCTTTCTCCCTCCCTGGATCCTAACCCCCCTCCATCCCCCCCCTCACTCCCTCCCTCCTTGTTTCCATCCTTCCTCCCTCCCTTCCCTCTTTCCTTCCTTCCTGCCTTCTTCCCTTCCCCTTCCCCTCTTCCTTCTGTCCTTCCTTCCTGTGTGTAAAAGAAAAATTGGTGAATAGAAGAATAATTGAATAACTGCCTGAGTCACTTATACATTTCTCATCTCACTCTGGGGACACAGAAGACCGTGTTGTACTCATCTCCTCGATTTTAAAAACAGTCATTCTAAAATCAAGGATTCTAGATGTATCACTTCTAGGCGAAATCTTGAAAGAGAATGTGTAAGAGTTTCATGTGCTCTTCATCTCTATGATCACAATTGAAGAAGGCAGGAGGTTGAGATGCTGCATCGCCAAGATCGTGGTGATTCCATTATCATTACCCTTGTAACTTGTGAGCATCCTTACTGCCAGCAATCATTATTAGATATGGAATCTGATATAGGAGTTCATATTTACTGTATGAATATCTTGGTGTGGGAGTGTTGGCTCATGCCTGTAATCCCAGTGCTTTGGGAGGCAGAGGCAGGAGGCTCGCTTGAACCCAGGAGTTCGAGACAAGCCGGAAGAGCATGGCGAGACCCTCGTCTCTACAAAAATGTAAAAATCAGCCAAGTGTGCTGGTAGGTGCCTGTAGTCTCAGCTCCTTAGGAGGCTGAAGTGTTAGGATCGCTTTCGCCCGGGATGTAATGGCTACAGGGAGTCGAGATCTTGCCACTGAACTTCAGCCTGGGCAACAGAGCAAGACTCTCTCTCAAAAATAAAATGCTTTTTCCTTTAGGCTTAAATTCTAACACTCAAACCTCCAAAGCGGAGGTATTAGGAGGTGGGGCCCTTGGGAGATGATGAGATTATGAAAGTGGAACCCTCGTAAATGGGATTAGTGCCCTTCTGAAAGTGACGGAAGAGAGCTCGCCAGCACCTTCCATGTGGGGAGACAGGGAGGATATGACAGTCTCCAACCTGGAAGAGGGTCCTCACCAGACCCCGATCATGCTGGCACTCTCATCGTGGACTTCCGGCCTCCAGAACTCTGATCAACAAATGTGTGTTCTTAAAGAAAAAAAAAGTGTGGAAAGCAATGTTAATGTTCCCAATCACTTTGAGTACATTCTTTCCTTAACTATGTCTTAATGCATAGTTGTGTTGGATGGCCTAGTTTGTAATGTTAGAATATGCATGTTAGTGAATTAATAAATACAGCAGTAAAGAATAGAGTTGTGGTTGGGAATGGAGTCTCACGCCTGTAATCCCAGCACAATGGCATGCCGAGGCGGGTCAATCACCTGTAGTCGGGAGGTGGAGATCACCCTGACCAACATGGAGAAACCCGACTCTACTAAAAATACAAATCAGCCTGTCATAGAGGCACATGCCTTTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCTAGGAGGCAGAGGTTGCGGTGAGCCGAGATCGCGCCATTGCACTCCAGCCTGGGCAACAAAAGCTAAATTCTATATCAAAAAATTAAAAAAAAAAAAAAGAAGGCTGTTTGTTGACCATTTGAGTGGCCAGTCTTGGTGCTTCCTGGTGGGCGAGGAGAGCCCTGCCCCATTCCTACCCATTCCAGTAGTCATGGCATAAGAGTGATTCTCACTTTCTGCTATAGCCTCCTTATCCATTGGCTGAAATGATTCTTTTTTAATGTGTCTTATTAATGCTTCCATAGCAAAAAATATTGAATTGACTTTTATAGGGACTCTTTCGGGGATTGTTACCCATCATTCCATAATTTGTTTGTACTCCTAGAAAAGGGAAGTATGCCGAGCACAGTGGATATTTCGTCTCAAATAATAAATAAATAACCAAATAGAAAAGAAAGAAAAGGAAGTAAAGGGAAATATACAAATATACAAGGTGTTAGGAGAGAGTTGCTAATCGTGATTCCCCCTTAATTGTCCAAACAGACCACCTCTGGGGATCTATTCGTAAAAGACTCGTTAGAAGTGCAGACTCATGCATTTGAGAATCACTCAGGGAAATCTGAAGATGACCTGTGGTGGGGGTGTAAATGGATACTTAAATGTGTCTTGTGATTGTGTGAGAGTGTGACTGTGTGTTTGTGTGTGTGCTGTCATCTGTGGAGTGGGGGATCCTCTTTTGCCTTGAGAAAGCTCATCTCTGTCCACTTACTCTGGGCTCTACCATCTGTGCCTTGTATCCAGTAGAAATAAAACAGTTTGCGGCAGAAATGGAGTTTTATTTTATTTCACTTTACTTTTTATTAGGATTATTTGTAGACCGGGTCTCACTCTGTCACTCAGGCTGGAGTGCAATGGCACGATCTCAGATCACTGCAACCTGTGCCTCCTGCACTGAAGCCATCCTCCCACCTCAGCCTCTGGAGTGGGGAGATCCCACACCTGTGTAATTTTTGCATTTTTTCTAGAGATGGGGTTTCCTCATGCTGCCCGGGCTGGTTTCCAACGCCTGGGCTCAAGTGATCCACCCGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGTGGGAGCTACTGTGCCCGGCCAGAGATGGAGATTTTTGTTCTTCTTTTGATGAGACGGAACCTCGCACCGTGGCCCAGGCTGGAGTGCAGTGGAGTGACCTCGGCTCACTGCAAGCTCTGCCTCCTGGGGTCATGCCATTCTCCTGCCTCAGCCTCCCAAAGAGCTGGGACTACAGGCGCCCGACACCACGCCCAGCTAAGGTTTTTGCAT"	"6ac7ee42-280f-11e6-ab45-0e33424a729f"	"71"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"4026"	"MUC16"	94025	"mskcc.org"	"GRCh37"	"19"	9045420	9045421	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs140628319"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.36067+143dupT"	""	""	"ENST00000397910"	""	27	"."	6	7	"."	0	"MUC16,intron_variant,,ENST00000397910,NM_024690.2;"	"A"	"ENSG00000181143"	"ENST00000397910"	"Transcript"	"intron_variant"	"-/43816"	"-/43524"	"-/14507"	""	""	"rs140628319"	"1"	NA	-1	"MUC16"	"HGNC"	15582	"protein_coding"	"YES"	"CCDS54212.1"	"ENSP00000381008"	""	"F8WE81,B5ME49"	"UPI000065CA24"	"NM_024690.2"	NA	NA	""	"5/83"	""	"A:0.2498"	"A:0.1604"	"A:0.2233"	NA	"A:0.2361"	"A:0.335"	"A:0.316"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"8a1bbec2-280f-11e6-ab45-0e33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"4027"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	9555417	9555418	"+"	"IGR"	"INS"	"-"	"-"	"AAG"	"rs35635695"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	27	"."	3	9	"."	0	""	"AAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35635695"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"8a447808-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WXS"	FALSE
"4028"	"ZNF560"	147741	"mskcc.org"	"GRCh37"	"19"	9582093	9582096	"+"	"Intron"	"DEL"	"AAAA"	"AAAA"	"-"	"rs3068759"	NA	"JHCCPT5"	"JHCCPN5"	"AAAA"	"AAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.239-42_239-39delTTTT"	""	""	"ENST00000301480"	""	46	"."	4	14	"."	0	"ZNF560,intron_variant,,ENST00000301480,NM_152476.2;ZNF560,upstream_gene_variant,,ENST00000585974,;"	"-"	"ENSG00000198028"	"ENST00000301480"	"Transcript"	"intron_variant"	"-/2654"	"-/2373"	"-/790"	""	""	"rs3068759"	"1"	NA	-1	"ZNF560"	"HGNC"	26484	"protein_coding"	"YES"	"CCDS12214.1"	"ENSP00000301480"	"Q96MR9"	""	"UPI000013E720"	"NM_152476.2"	NA	NA	""	"5/9"	""	"-:0.4453"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.3798"	"0.1699"	"0.2791"	"0.3626"	"0.3982"	"0.4649"	"0.3839"	"0.414"	NA	"common_variant"	"TTAAAAA"	"6bb65172-280f-11e6-ab45-0e33424a729f"	"240"	0.4001	"32563/81396"	"39986/105294"	"1126/6626"	"2434/8722"	"2250/6206"	"2230/5600"	"19034/40944"	"215/560"	"5274/12738"	"PASS"	"FALSE"	0.0869565217391304	"WXS"	FALSE
"4029"	"ZNF812"	729648	"mskcc.org"	"GRCh37"	"19"	9804823	9804830	"+"	"Intron"	"DEL"	"ATCTATCT"	"ATCTATCT"	"-"	"rs147261668"	NA	"JHCCPT5"	"JHCCPN5"	"ATCTATCT"	"ATCTATCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.115-334_115-327delAGATAGAT"	""	""	"ENST00000457674"	""	23	"."	8	2	"."	0	"ZNF812,intron_variant,,ENST00000457674,NM_001199814.1;ZNF812,intron_variant,,ENST00000590544,;ZNF812,downstream_gene_variant,,ENST00000585964,;ZNF812,intron_variant,,ENST00000536819,;"	"-"	"ENSG00000224689"	"ENST00000457674"	"Transcript"	"intron_variant"	"-/2098"	"-/1365"	"-/454"	""	""	"rs147261668"	"1"	NA	-1	"ZNF812"	"HGNC"	33242	"protein_coding"	"YES"	"CCDS54215.1"	"ENSP00000395629"	"P0C7V5"	"K7EN74,K7EK89"	"UPI0000E5A1A5"	"NM_001199814.1"	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCATCTATCTA"	"6bbe46ca-280f-11e6-ab45-0e33424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347826086956522	"WXS"	FALSE
"4030"	"C19orf66"	55337	"mskcc.org"	"GRCh37"	"19"	10192425	10192426	"+"	"5'Flank"	"INS"	"-"	"-"	"GAA"	"rs112439574"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000253110"	""	40	"."	5	4	"."	0	"C19orf66,upstream_gene_variant,,ENST00000253110,NM_018381.2;C19orf66,upstream_gene_variant,,ENST00000591813,;C19orf66,upstream_gene_variant,,ENST00000585919,;C19orf66,upstream_gene_variant,,ENST00000592551,;C19orf66,upstream_gene_variant,,ENST00000587710,;"	"GAA"	"ENSG00000130813"	"ENST00000253110"	"Transcript"	"upstream_gene_variant"	"-/2117"	"-/876"	"-/291"	""	""	"rs112439574"	"1"	"4380"	1	"C19orf66"	"HGNC"	25649	"protein_coding"	"YES"	"CCDS45957.1"	"ENSP00000253110"	"Q9NUL5"	""	"UPI00002032C7"	"NM_018381.2"	NA	NA	""	""	""	"-:0.3572"	"GAA:0.6346"	"GAA:0.7248"	NA	"GAA:0.4187"	"GAA:0.7644"	"GAA:0.7014"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	"0.375"	"0.7"	"0.8462"	"0.4352"	"0.6364"	"0.6672"	"0.5"	"0.5318"	NA	"common_variant"	"AGG"	"8aade9d2-280f-11e6-ab45-0e33424a729f"	"300"	0.5901	"1022/1732"	"5659/15090"	"91/130"	"22/26"	"47/108"	"14/22"	"391/586"	"5/10"	"452/850"	"PASS"	"FALSE"	0.125	"WXS"	FALSE
"4031"	"FDX1L"	112812	"mskcc.org"	"GRCh37"	"19"	10425995	10425996	"+"	"Intron"	"DEL"	"GT"	"GT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GT"	"GT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.307+66_307+67delAC"	""	""	"ENST00000393708"	""	155	"."	5	60	"."	0	"FDX1L,intron_variant,,ENST00000541276,;FDX1L,intron_variant,,ENST00000393708,NM_001031734.2;FDX1L,intron_variant,,ENST00000494368,;RAVER1,downstream_gene_variant,,ENST00000293677,NM_133452.2;RAVER1,downstream_gene_variant,,ENST00000585935,;FDX1L,intron_variant,,ENST00000492239,;CTD-2369P2.10,intron_variant,,ENST00000452032,;CTD-2369P2.10,intron_variant,,ENST00000493771,;FDX1L,intron_variant,,ENST00000460631,;FDX1L,intron_variant,,ENST00000453681,;FDX1L,intron_variant,,ENST00000343376,;RAVER1,downstream_gene_variant,,ENST00000592208,;CTD-2369P2.12,downstream_gene_variant,,ENST00000586529,;FDX1L,downstream_gene_variant,,ENST00000486454,;RAVER1,downstream_gene_variant,,ENST00000593136,;"	"-"	"ENSG00000267673"	"ENST00000393708"	"Transcript"	"intron_variant"	"-/1012"	"-/552"	"-/183"	""	""	""	"1"	NA	-1	"FDX1L"	"HGNC"	30546	"protein_coding"	"YES"	"CCDS32905.1"	"ENSP00000377311"	"Q6P4F2"	""	"UPI0000227E29"	"NM_001031734.2"	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGTT"	"6c602f4e-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.032258064516129	"WXS"	FALSE
"4032"	"SLC44A2"	57153	"mskcc.org"	"GRCh37"	"19"	10726289	10726294	"+"	"Intron"	"DEL"	"GAGGAA"	"GAGGAA"	"-"	"rs146234405"	NA	"JHCCPT5"	"JHCCPN5"	"GAGGAA"	"GAGGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.32-10627_32-10622delAGGAAG"	""	""	"ENST00000407327"	""	18	"."	4	3	"."	0	"SLC44A2,intron_variant,,ENST00000407327,NM_001145056.1;SLC44A2,intron_variant,,ENST00000590382,;SLC44A2,intron_variant,,ENST00000588465,;"	"-"	"ENSG00000129353"	"ENST00000407327"	"Transcript"	"intron_variant"	"-/3301"	"-/2115"	"-/704"	""	""	"rs146234405"	"1"	NA	1	"SLC44A2"	"HGNC"	17292	"protein_coding"	""	"CCDS54216.1"	"ENSP00000385135"	"Q8IWA5"	"B3KX31"	"UPI0000203351"	"NM_001145056.1"	NA	NA	""	"1/21"	""	"-:0.0823"	"-:0.1354"	"-:0.0677"	NA	"-:0"	"-:0.0964"	"-:0.091"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"13"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAGGAAG"	"6c940ec2-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"4033"	"ELAVL3"	1995	"mskcc.org"	"GRCh37"	"19"	11565285	11565286	"+"	"3'UTR"	"DEL"	"TC"	"TC"	"-"	"rs35334288"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*55_*56delGA"	""	""	"ENST00000359227"	"7/7"	45	"."	3	28	"."	0	"ELAVL3,3_prime_UTR_variant,,ENST00000359227,NM_001420.3,NM_032281.2;ELAVL3,3_prime_UTR_variant,,ENST00000438662,;PRKCSH,downstream_gene_variant,,ENST00000252455,NM_002743.2;PRKCSH,downstream_gene_variant,,ENST00000412601,NM_001001329.1;PRKCSH,downstream_gene_variant,,ENST00000591462,;PRKCSH,downstream_gene_variant,,ENST00000587327,;PRKCSH,downstream_gene_variant,,ENST00000592741,;PRKCSH,downstream_gene_variant,,ENST00000589838,;PRKCSH,downstream_gene_variant,,ENST00000591510,;PRKCSH,downstream_gene_variant,,ENST00000586486,;"	"-"	"ENSG00000196361"	"ENST00000359227"	"Transcript"	"3_prime_UTR_variant"	"1584-1585/4729"	"-/1104"	"-/367"	""	""	"rs35334288"	"1"	NA	-1	"ELAVL3"	"HGNC"	3314	"protein_coding"	"YES"	"CCDS32912.1"	"ENSP00000352162"	"Q14576"	"Q96J71"	"UPI0000129E75"	"NM_001420.3,NM_032281.2"	NA	NA	"7/7"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCT"	"6d55f708-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WXS"	FALSE
"4034"	"CACNA1A"	773	"mskcc.org"	"GRCh37"	"19"	13504306	13504318	"+"	"Intron"	"DEL"	"TTTCCTTCCTTCC"	"TTTCCTTCCTTCC"	"-"	"rs200045216"	NA	"JHCCPT5"	"JHCCPN5"	"TTTCCTTCCTTCC"	"TTTCCTTCCTTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.540-21725_540-21713delGGAAGGAAGGAAA"	""	""	"ENST00000360228"	""	18	"."	7	8	"."	0	"CACNA1A,intron_variant,,ENST00000360228,NM_001127222.1,NM_001174080.1,NM_023035.2,NM_000068.3;CACNA1A,intron_variant,,ENST00000573710,NM_001127221.1;CACNA1A,intron_variant,,ENST00000574974,;"	"-"	"ENSG00000141837"	"ENST00000360228"	"Transcript"	"intron_variant"	"-/8392"	"-/7521"	"-/2506"	""	""	"rs200045216"	"1"	NA	-1	"CACNA1A"	"HGNC"	1388	"protein_coding"	"YES"	"CCDS45998.1"	"ENSP00000353362"	"O00555"	"Q9UN69,Q9UHM9"	"UPI0000141565"	"NM_001127222.1,NM_001174080.1,NM_023035.2,NM_000068.3"	NA	NA	""	"3/46"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTTTTCCTTCCTTCCT"	"6e28e6d6-280f-11e6-ab45-0e33424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388888888888889	"WXS"	FALSE
"4035"	"RFX1"	5989	"mskcc.org"	"GRCh37"	"19"	14121845	14121846	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs112017992"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000254325"	""	6	"."	3	1	"."	0	"RFX1,upstream_gene_variant,,ENST00000254325,NM_002918.4;RFX1,upstream_gene_variant,,ENST00000588885,;RFX1,upstream_gene_variant,,ENST00000586913,;RFX1,upstream_gene_variant,,ENST00000589239,;RFX1,upstream_gene_variant,,ENST00000589760,;RFX1,upstream_gene_variant,,ENST00000589937,;"	"A"	"ENSG00000132005"	"ENST00000254325"	"Transcript"	"upstream_gene_variant"	"-/4332"	"-/2940"	"-/979"	""	""	"rs112017992"	"1"	"4748"	-1	"RFX1"	"HGNC"	9982	"protein_coding"	"YES"	"CCDS12301.1"	"ENSP00000254325"	"P22670"	""	"UPI000013CE29"	"NM_002918.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"8bba291c-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4036"	"CTD-2189E23.1"	0	"mskcc.org"	"GRCh37"	"19"	14405433	14405435	"+"	"5'Flank"	"DEL"	"CTT"	"CTT"	"-"	"rs111709310"	NA	"JHCCPT5"	"JHCCPN5"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000592263"	""	9	"."	4	1	"."	0	"CTD-2189E23.1,upstream_gene_variant,,ENST00000592263,;"	"-"	"ENSG00000267723"	"ENST00000592263"	"Transcript"	"upstream_gene_variant"	"-/627"	""	""	""	""	"rs111709310"	"1"	"1416"	-1	"CTD-2189E23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"CTT:0.2478"	"-:0.5189"	"-:0.8401"	NA	"-:0.87"	"-:0.83"	"-:0.8037"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACTTC"	"6e9c55ee-280f-11e6-ab45-0e33424a729f"	"226"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4037"	"EMR3"	84658	"mskcc.org"	"GRCh37"	"19"	14728032	14728033	"+"	"3'Flank"	"INS"	"-"	"-"	"TCTTTTCTTTTC"	"rs199762076"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000253673"	""	18	"."	3	2	"."	0	"EMR3,downstream_gene_variant,,ENST00000253673,NM_032571.3;EMR3,downstream_gene_variant,,ENST00000344373,;EMR3,downstream_gene_variant,,ENST00000599900,;EMR3,downstream_gene_variant,,ENST00000443157,;ITGB1P1,downstream_gene_variant,,ENST00000596032,;"	"TCTTTTCTTTTC"	"ENSG00000131355"	"ENST00000253673"	"Transcript"	"downstream_gene_variant"	"-/2254"	"-/1959"	"-/652"	""	""	"rs199762076"	"1"	"2018"	-1	"EMR3"	"HGNC"	23647	"protein_coding"	"YES"	"CCDS12315.1"	"ENSP00000253673"	"Q9BY15"	"M0R1G2"	"UPI0000456C29"	"NM_032571.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"8bf4842c-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"4038"	"EMR3"	84658	"mskcc.org"	"GRCh37"	"19"	14741205	14741206	"+"	"Intron"	"INS"	"-"	"-"	"TTATT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1644-191_1644-187dupAATAA"	""	""	"ENST00000253673"	""	41	"."	6	16	"."	0	"EMR3,intron_variant,,ENST00000253673,NM_032571.3;EMR3,intron_variant,,ENST00000344373,;EMR3,intron_variant,,ENST00000599900,;EMR3,intron_variant,,ENST00000443157,;"	"TTATT"	"ENSG00000131355"	"ENST00000253673"	"Transcript"	"intron_variant"	"-/2254"	"-/1959"	"-/652"	""	""	""	"1"	NA	-1	"EMR3"	"HGNC"	23647	"protein_coding"	"YES"	"CCDS12315.1"	"ENSP00000253673"	"Q9BY15"	"M0R1G2"	"UPI0000456C29"	"NM_032571.3"	NA	NA	""	"13/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"8bfdba10-280f-11e6-ab45-0e33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146341463414634	"WXS"	FALSE
"4039"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	15209962	15209966	"+"	"IGR"	"DEL"	"AAGGG"	"AAGGG"	"-"	"rs138039762"	NA	"JHCCPT5"	"JHCCPN5"	"AAGGG"	"AAGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138039762"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAGGGA"	"6f574070-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"4040"	"NOTCH3"	4854	"mskcc.org"	"GRCh37"	"19"	15273577	15273584	"+"	"Intron"	"DEL"	"TGTGTGTT"	"TGTGTGTT"	"-"	"rs139966230"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTGTT"	"TGTGTGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5816-211_5816-204delAACACACA"	""	""	"ENST00000263388"	""	7	"."	4	3	"."	0	"NOTCH3,intron_variant,,ENST00000263388,NM_000435.2;NOTCH3,intron_variant,,ENST00000597756,;NOTCH3,intron_variant,,ENST00000595514,;"	"-"	"ENSG00000074181"	"ENST00000263388"	"Transcript"	"intron_variant"	"-/8071"	"-/6966"	"-/2321"	""	""	"rs139966230"	"1"	NA	-1	"NOTCH3"	"HGNC"	7883	"protein_coding"	"YES"	"CCDS12326.1"	"ENSP00000263388"	"Q9UM47"	""	"UPI000013D3FA"	"NM_000435.2"	NA	NA	""	"31/32"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTGTGTGTTT"	"6f5c0f9c-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4041"	"CPAMD8"	27151	"mskcc.org"	"GRCh37"	"19"	17035751	17035752	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11455534"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3688+254dupT"	""	""	"ENST00000443236"	""	11	"."	4	3	"."	0	"CPAMD8,intron_variant,,ENST00000443236,NM_015692.2;"	"A"	"ENSG00000160111"	"ENST00000443236"	"Transcript"	"intron_variant"	"-/5992"	"-/5799"	"-/1932"	""	""	"rs11455534"	"1"	NA	-1	"CPAMD8"	"HGNC"	23228	"protein_coding"	"YES"	"CCDS42519.1"	"ENSP00000402505"	"Q8IZJ3"	""	"UPI0000E8AC99"	"NM_015692.2"	NA	NA	""	"26/41"	""	"A:0.1024"	"A:0.3124"	"A:0.0648"	NA	"A:0.0456"	"A:0.006"	"A:0.0031"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"8d086810-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4042"	"GTPBP3"	84705	"mskcc.org"	"GRCh37"	"19"	17455658	17455658	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"rs71787177"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000358792"	""	9	"."	5	1	"."	0	"GTPBP3,downstream_gene_variant,,ENST00000324894,NM_133644.3,NM_032620.3;GTPBP3,downstream_gene_variant,,ENST00000600625,NM_001128855.2;GTPBP3,downstream_gene_variant,,ENST00000358792,;GTPBP3,downstream_gene_variant,,ENST00000361619,NM_001195422.1;GTPBP3,downstream_gene_variant,,ENST00000598038,;GTPBP3,downstream_gene_variant,,ENST00000594018,;GTPBP3,downstream_gene_variant,,ENST00000602056,;GTPBP3,downstream_gene_variant,,ENST00000598493,;GTPBP3,downstream_gene_variant,,ENST00000596125,;GTPBP3,downstream_gene_variant,,ENST00000595194,;"	"-"	"ENSG00000130299"	"ENST00000358792"	"Transcript"	"downstream_gene_variant"	"-/1951"	"-/1575"	"-/524"	""	""	"rs71787177"	"1"	"2827"	1	"GTPBP3"	"HGNC"	14880	"protein_coding"	"YES"	"CCDS32950.1"	"ENSP00000351644"	"Q969Y2"	""	"UPI000059D6A7"	""	NA	NA	""	""	""	"G:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTGG"	"70c273ee-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"4043"	"MAST3"	23031	"mskcc.org"	"GRCh37"	"19"	18249507	18249507	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs200798575"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2009-317delC"	""	""	"ENST00000262811"	""	10	"."	5	2	"."	0	"MAST3,intron_variant,,ENST00000262811,NM_015016.1;MAST3,intron_variant,,ENST00000609494,;"	"-"	"ENSG00000099308"	"ENST00000262811"	"Transcript"	"intron_variant"	"-/5896"	"-/3930"	"-/1309"	""	""	"rs200798575"	"1"	NA	1	"MAST3"	"HGNC"	19036	"protein_coding"	"YES"	"CCDS46014.1"	"ENSP00000262811"	"O60307"	""	"UPI00001D8275"	"NM_015016.1"	NA	NA	""	"18/26"	""	"-:0.0841"	"-:0.0121"	"-:0.1182"	NA	"-:0.126"	"-:0.1541"	"-:0.0419"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"7131f99e-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4044"	"PDE4C"	729966	"mskcc.org"	"GRCh37"	"19"	18317157	18317158	"+"	"3'Flank"	"INS"	"-"	"AAATAA"	"AAATAA"	"rs112898857"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000355502"	""	6	"."	5	4	"."	0	"PDE4C,downstream_gene_variant,,ENST00000355502,;PDE4C,downstream_gene_variant,,ENST00000594617,NM_000923.4;PDE4C,downstream_gene_variant,,ENST00000594465,;PDE4C,downstream_gene_variant,,ENST00000447275,NM_001098819.2;PDE4C,downstream_gene_variant,,ENST00000262805,NM_001098818.2;PDE4C,downstream_gene_variant,,ENST00000539010,;PDE4C,downstream_gene_variant,,ENST00000597297,;RAB3A,upstream_gene_variant,,ENST00000222256,NM_002866.4;PDE4C,downstream_gene_variant,,ENST00000598111,;RAB3A,upstream_gene_variant,,ENST00000464076,;RAB3A,upstream_gene_variant,,ENST00000481914,;AC068499.10,intron_variant,,ENST00000594805,;AC068499.10,intron_variant,,ENST00000599416,;AC068499.10,downstream_gene_variant,,ENST00000596473,;PDE4C,downstream_gene_variant,,ENST00000597360,;PDE4C,downstream_gene_variant,,ENST00000599188,;RAB3A,upstream_gene_variant,,ENST00000515410,;"	"AAATAA"	"ENSG00000105650"	"ENST00000355502"	"Transcript"	"downstream_gene_variant"	"-/5979"	"-/2139"	"-/712"	""	""	"rs112898857"	"1"	"1613"	-1	"PDE4C"	"HGNC"	8782	"protein_coding"	"YES"	"CCDS12373.1"	"ENSP00000347689"	"Q08493"	"Q9UPJ5,Q9P1U3,Q32MM7,O76105,M0R1P5,B7Z2S3"	"UPI0000127BF8"	""	NA	NA	""	""	""	"AAATAA:0.2025"	"AAATAA:0.1884"	"AAATAA:0.2464"	NA	"AAATAA:0.0883"	"AAATAA:0.3588"	"AAATAA:0.1472"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"8dc367e6-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4045"	"CRTC1"	23373	"mskcc.org"	"GRCh37"	"19"	18864679	18864680	"+"	"Intron"	"INS"	"-"	"-"	"CAGGC"	"rs559976802"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.672+285_672+289dupCAGGC"	""	""	"ENST00000338797"	""	16	"."	4	3	"."	0	"CRTC1,intron_variant,,ENST00000338797,NM_001098482.1;CRTC1,intron_variant,,ENST00000321949,NM_015321.2;CRTC1,intron_variant,,ENST00000594658,;CRTC1,intron_variant,,ENST00000601916,;"	"CAGGC"	"ENSG00000105662"	"ENST00000338797"	"Transcript"	"intron_variant"	"-/6790"	"-/1953"	"-/650"	""	""	"rs559976802"	"1"	NA	1	"CRTC1"	"HGNC"	16062	"protein_coding"	"YES"	"CCDS42525.1"	"ENSP00000345001"	"Q6UUV9"	""	"UPI00001D9A88"	"NM_001098482.1"	NA	NA	""	"7/14"	""	"CAGGC:0.0056"	"CAGGC:0.0106"	"CAGGC:0"	NA	"CAGGC:0.002"	"CAGGC:0"	"CAGGC:0.0123"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"8df0d0fa-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	TRUE
"4046"	"COMP"	1311	"mskcc.org"	"GRCh37"	"19"	18898673	18898674	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTCTTTTTCTTTT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.976-215_976-214insAAAAGAAAAAGAAAAA"	""	""	"ENST00000222271"	""	42	"."	4	8	"."	0	"COMP,intron_variant,,ENST00000542601,;COMP,intron_variant,,ENST00000222271,NM_000095.2;COMP,intron_variant,,ENST00000425807,;COMP,upstream_gene_variant,,ENST00000546510,;"	"TTTTTCTTTTTCTTTT"	"ENSG00000105664"	"ENST00000222271"	"Transcript"	"intron_variant"	"-/2461"	"-/2274"	"-/757"	""	""	""	"1"	NA	-1	"COMP"	"HGNC"	2227	"protein_coding"	"YES"	"CCDS12385.1"	"ENSP00000222271"	"P49747"	"G3XAP6"	"UPI000013C7F6"	"NM_000095.2"	NA	NA	""	"9/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"8e01d81e-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WXS"	FALSE
"4047"	"ARMC6"	93436	"mskcc.org"	"GRCh37"	"19"	19144839	19144840	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-79-91dupA"	""	""	"ENST00000535612"	""	25	"."	3	10	"."	0	"ARMC6,intron_variant,,ENST00000535612,NM_001199196.1;ARMC6,intron_variant,,ENST00000269932,;ARMC6,intron_variant,,ENST00000392335,NM_033415.3;ARMC6,intron_variant,,ENST00000546344,;ARMC6,intron_variant,,ENST00000537263,;ARMC6,intron_variant,,ENST00000541898,;ARMC6,intron_variant,,ENST00000540792,;ARMC6,intron_variant,,ENST00000535288,;ARMC6,intron_variant,,ENST00000536098,;ARMC6,intron_variant,,ENST00000541725,;ARMC6,intron_variant,,ENST00000540707,;ARMC6,intron_variant,,ENST00000538663,;ARMC6,intron_variant,,ENST00000543877,;SUGP2,upstream_gene_variant,,ENST00000601879,;SUGP2,upstream_gene_variant,,ENST00000600377,;SUGP2,upstream_gene_variant,,ENST00000452918,NM_001017392.3;SUGP2,upstream_gene_variant,,ENST00000337018,NM_014884.3;SUGP2,upstream_gene_variant,,ENST00000456085,;ARMC6,upstream_gene_variant,,ENST00000392336,;SUGP2,upstream_gene_variant,,ENST00000594445,;SUGP2,upstream_gene_variant,,ENST00000598202,;ARMC6,intron_variant,,ENST00000539985,;ARMC6,intron_variant,,ENST00000545091,;SUGP2,upstream_gene_variant,,ENST00000600239,;SUGP2,upstream_gene_variant,,ENST00000594773,;SUGP2,upstream_gene_variant,,ENST00000330854,;SUGP2,upstream_gene_variant,,ENST00000598240,;ARMC6,upstream_gene_variant,,ENST00000535758,;"	"A"	"ENSG00000105676"	"ENST00000535612"	"Transcript"	"intron_variant"	"-/2488"	"-/1506"	"-/501"	""	""	""	"1"	NA	1	"ARMC6"	"HGNC"	25049	"protein_coding"	"YES"	"CCDS56089.1"	"ENSP00000444156"	"Q6NXE6"	"F5H7V0,F5H6J3,F5H4P3,F5H3X1,F5H2X2,F5H2K4,F5H052,F5GWV0,B4E1N1"	"UPI0000D4C04D"	"NM_001199196.1"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"8e08084c-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WXS"	FALSE
"4048"	"ZNF626"	199777	"mskcc.org"	"GRCh37"	"19"	20808652	20808653	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs145265163"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.227-197dupT"	""	""	"ENST00000601440"	""	25	"."	13	2	"."	0	"ZNF626,intron_variant,,ENST00000601440,NM_001076675.2;ZNF626,intron_variant,,ENST00000595405,;CTC-513N18.7,intron_variant,,ENST00000595094,;"	"A"	"ENSG00000188171"	"ENST00000601440"	"Transcript"	"intron_variant"	"-/5963"	"-/1587"	"-/528"	""	""	"rs145265163"	"1"	NA	-1	"ZNF626"	"HGNC"	30461	"protein_coding"	"YES"	"CCDS42535.1"	"ENSP00000469958"	"Q68DY1"	"M0QY39,I0CMK8"	"UPI000035E843"	"NM_001076675.2"	NA	NA	""	"3/3"	""	"-:0.2198"	"A:0.5817"	"A:0.8804"	NA	"A:0.8343"	"A:0.8936"	"A:0.8047"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"8e3cb790-280f-11e6-ab45-0e33424a729f"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.52	"WXS"	FALSE
"4049"	"ZNF100"	163227	"mskcc.org"	"GRCh37"	"19"	21926410	21926411	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs35239023"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.322+408dupG"	""	""	"ENST00000358296"	""	11	"."	5	1	"."	0	"ZNF100,intron_variant,,ENST00000358296,NM_173531.3;ZNF100,intron_variant,,ENST00000305570,;ZNF100,intron_variant,,ENST00000598026,;ZNF100,intron_variant,,ENST00000594401,;"	"C"	"ENSG00000197020"	"ENST00000358296"	"Transcript"	"intron_variant"	"-/5745"	"-/1629"	"-/542"	""	""	"rs35239023"	"1"	NA	-1	"ZNF100"	"HGNC"	12880	"protein_coding"	"YES"	"CCDS42538.1"	"ENSP00000351042"	"Q8IYN0"	"Q6MZN6"	"UPI00001614AC"	"NM_173531.3"	NA	NA	""	"4/4"	""	"C:0.0966"	"C:0.1142"	"C:0.0533"	NA	"C:0.0218"	"C:0.0596"	"C:0.2188"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"8e80eb54-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"4050"	"CTB-31C7.3"	0	"mskcc.org"	"GRCh37"	"19"	22544014	22544015	"+"	"5'Flank"	"INS"	"-"	"-"	"TCTC"	"rs59940131"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000596454"	""	14	"."	4	2	"."	0	"CTB-31C7.3,upstream_gene_variant,,ENST00000596454,;"	"TCTC"	"ENSG00000268685"	"ENST00000596454"	"Transcript"	"upstream_gene_variant"	"-/237"	""	""	""	""	"rs59940131"	"1"	"1376"	1	"CTB-31C7.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8e9a3afa-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"4051"	"ZNF209P"	0	"mskcc.org"	"GRCh37"	"19"	22648774	22648774	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs140210078"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.224+1330delG"	""	""	"ENST00000593450"	""	9	"."	5	2	"."	0	"ZNF98,intron_variant,,ENST00000593802,;ZNF98,intron_variant,,ENST00000599879,;ZNF209P,intron_variant,,ENST00000593450,;"	"-"	"ENSG00000269138"	"ENST00000593450"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2304"	""	""	""	""	"rs140210078"	"1"	NA	1	"ZNF209P"	"HGNC"	13000	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	"-:0.0982"	"-:0.0477"	"-:0.0764"	NA	"-:0.1181"	"-:0.1044"	"-:0.1554"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"72b36546-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"4052"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	23115948	23115950	"+"	"IGR"	"DEL"	"TAC"	"TAC"	"AA"	"rs386808028"	NA	"JHCCPT5"	"JHCCPN5"	"TAC"	"TAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	31	"."	3	6	"."	0	""	"AA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs386808028"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTACA"	"84ed1c98-280f-11e6-ab45-0e33424a729f"	"21"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WXS"	FALSE
"4053"	"RP11-255H23.4"	0	"mskcc.org"	"GRCh37"	"19"	24062140	24062186	"+"	"5'Flank"	"DEL"	"AAAGAGGAGAGATAAAGAAGGAATAGTAGGAGGAGAGAAAAAGGAGG"	"AAAGAGGAGAGATAAAGAAGGAATAGTAGGAGGAGAGAAAAAGGAGG"	"GAAGA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAAGAGGAGAGATAAAGAAGGAATAGTAGGAGGAGAGAAAAAGGAGG"	"AAAGAGGAGAGATAAAGAAGGAATAGTAGGAGGAGAGAAAAAGGAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000599944"	""	19	"."	4	7	"."	0	"RP11-255H23.4,upstream_gene_variant,,ENST00000599944,;"	"GAAGA"	"ENSG00000267924"	"ENST00000599944"	"Transcript"	"upstream_gene_variant"	"-/2291"	""	""	""	""	""	"1"	"4637"	-1	"RP11-255H23.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAAAGAGGAGAGATAAAGAAGGAATAGTAGGAGGAGAGAAAAAGGAGGA"	"84f10182-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"4054"	"AC093074.1"	0	"mskcc.org"	"GRCh37"	"19"	28887004	28887005	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs74181444"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.101+230dupT"	""	""	"ENST00000590280"	""	7	"."	3	1	"."	0	"AC093074.1,intron_variant,,ENST00000590280,;"	"A"	"ENSG00000267238"	"ENST00000590280"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/556"	""	""	""	""	"rs74181444"	"1"	NA	-1	"AC093074.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.3586"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"8ed5e1b8-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4055"	"CTC-478M6.1"	0	"mskcc.org"	"GRCh37"	"19"	29285635	29285636	"+"	"5'Flank"	"INS"	"-"	"-"	"TTTGTTTG"	"rs113851903"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000590286"	""	8	"."	3	2	"."	0	"CTC-478M6.1,upstream_gene_variant,,ENST00000590286,;"	"TTTGTTTG"	"ENSG00000267799"	"ENST00000590286"	"Transcript"	"upstream_gene_variant"	"-/1400"	""	""	""	""	"rs113851903"	"1"	"1857"	-1	"CTC-478M6.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"TTTGTTTG:0.0821"	"TTTGTTTG:0.2012"	"TTTGTTTG:0.0562"	NA	"TTTGTTTG:0.0188"	"TTTGTTTG:0.0616"	"TTTGTTTG:0.0256"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8edceb3e-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4056"	"C19orf12"	83636	"mskcc.org"	"GRCh37"	"19"	30209049	30209049	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"rs66505476"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000392278"	""	7	"."	4	1	"."	0	"C19orf12,upstream_gene_variant,,ENST00000323670,NM_031448.4,NM_001256047.1;C19orf12,upstream_gene_variant,,ENST00000392276,;C19orf12,upstream_gene_variant,,ENST00000592153,NM_001256046.1;C19orf12,upstream_gene_variant,,ENST00000392278,NM_001031726.3;C19orf12,upstream_gene_variant,,ENST00000392275,;C19orf12,upstream_gene_variant,,ENST00000342680,;"	"-"	"ENSG00000131943"	"ENST00000392278"	"Transcript"	"upstream_gene_variant"	"-/895"	"-/459"	"-/152"	""	""	"rs66505476"	"1"	"3086"	-1	"C19orf12"	"HGNC"	25443	"protein_coding"	"YES"	"CCDS42542.1"	"ENSP00000376103"	"Q9NSK7"	"K7EPS8"	"UPI0000DB2738"	"NM_001031726.3"	NA	NA	""	""	""	"-:0.1651"	"-:0.0242"	"-:0.2651"	NA	"-:0.2927"	"-:0.0815"	"-:0.2393"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTGT"	"732b2054-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4057"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	30572240	30572241	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs11432167"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	6	4	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11432167"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2863"	"A:0.528"	"A:0.8401"	NA	"A:0.6915"	"A:0.8429"	"A:0.7648"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"8f152eea-280f-11e6-ab45-0e33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4058"	"ZNF536"	9745	"mskcc.org"	"GRCh37"	"19"	31182327	31182328	"+"	"Intron"	"INS"	"-"	"-"	"AAC"	"rs78202814"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.170-19335_170-19334insCAA"	""	""	"ENST00000592773"	""	9	"."	5	1	"."	0	"ZNF536,intron_variant,,ENST00000592773,;"	"AAC"	"ENSG00000198597"	"ENST00000592773"	"Transcript"	"intron_variant"	"-/2951"	"-/283"	"-/94"	""	""	"rs78202814"	"1"	NA	1	"ZNF536"	"HGNC"	29025	"protein_coding"	""	""	"ENSP00000467909"	""	"K7EQN6"	"UPI0002840975"	""	NA	NA	""	"1/1"	""	"AAC:0.3832"	"AAC:0.2632"	"AAC:0.3242"	NA	"AAC:0.5734"	"AAC:0.3936"	"AAC:0.3804"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"8f1e8918-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"4059"	"CTD-2085J24.5"	0	"mskcc.org"	"GRCh37"	"19"	33312304	33312317	"+"	"3'Flank"	"DEL"	"GTGTGTGTGTGTGC"	"GTGTGTGTGTGTGC"	"-"	"rs199711750"	NA	"JHCCPT5"	"JHCCPN5"	"GTGTGTGTGTGTGC"	"GTGTGTGTGTGTGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000590892"	""	19	"."	4	6	"."	0	"TDRD12,downstream_gene_variant,,ENST00000444215,;TDRD12,intron_variant,,ENST00000564769,;CTD-2085J24.5,downstream_gene_variant,,ENST00000590892,;"	"-"	"ENSG00000267245"	"ENST00000590892"	"Transcript"	"downstream_gene_variant"	"-/364"	""	""	""	""	"rs199711750"	"1"	"2731"	-1	"CTD-2085J24.5"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGTGTGTGTGTGTGCG"	"73a161ce-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"4060"	"SLC7A10"	56301	"mskcc.org"	"GRCh37"	"19"	33714850	33714855	"+"	"Intron"	"DEL"	"CACCAC"	"CACCAC"	"-"	"rs150291548"	NA	"JHCCPT5"	"JHCCPN5"	"CACCAC"	"CACCAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.151+1604_151+1609delGTGGTG"	""	""	"ENST00000253188"	""	11	"."	3	3	"."	0	"SLC7A10,intron_variant,,ENST00000253188,NM_019849.2;CTD-2540B15.6,downstream_gene_variant,,ENST00000590492,;SLC7A10,intron_variant,,ENST00000590036,;SLC7A10,intron_variant,,ENST00000592596,;SLC7A10,intron_variant,,ENST00000587064,;"	"-"	"ENSG00000130876"	"ENST00000253188"	"Transcript"	"intron_variant"	"-/1946"	"-/1572"	"-/523"	""	""	"rs150291548"	"1"	NA	-1	"SLC7A10"	"HGNC"	11058	"protein_coding"	"YES"	"CCDS12431.1"	"ENSP00000253188"	"Q9NS82"	""	"UPI0000001C3E"	"NM_019849.2"	NA	NA	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCACCACC"	"73fb2b00-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4061"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	34738627	34738628	"+"	"IGR"	"INS"	"-"	"-"	"TTCT"	"rs150238988"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	3	2	"."	0	""	"TTCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150238988"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2887"	"TTCT:0.8366"	"TTCT:0.7478"	NA	"TTCT:0.3879"	"TTCT:0.7475"	"TTCT:0.8119"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"8f9667f8-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"4062"	"KIAA0355"	9710	"mskcc.org"	"GRCh37"	"19"	34746087	34746087	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs113246757"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-796+571delG"	""	""	"ENST00000299505"	""	10	"."	5	4	"."	0	"KIAA0355,intron_variant,,ENST00000299505,NM_014686.3;KIAA0355,intron_variant,,ENST00000588470,;KIAA0355,intron_variant,,ENST00000589583,;KIAA0355,intron_variant,,ENST00000588338,;"	"-"	"ENSG00000166398"	"ENST00000299505"	"Transcript"	"intron_variant"	"-/6717"	"-/3213"	"-/1070"	""	""	"rs113246757"	"1"	NA	1	"KIAA0355"	"HGNC"	29016	"protein_coding"	"YES"	"CCDS12436.1"	"ENSP00000299505"	"O15063"	"U3KPV0,K7EPA0"	"UPI000013E5AD"	"NM_014686.3"	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGG"	"74213e62-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4063"	"SCGB2B2"	284402	"mskcc.org"	"GRCh37"	"19"	35125459	35125460	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs66995452"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-2031-37961dupC"	""	""	"ENST00000601241"	""	8	"."	5	3	"."	0	"SCGB2B2,intron_variant,,ENST00000601241,;SNORD111,downstream_gene_variant,,ENST00000516421,;CTD-2553L13.4,downstream_gene_variant,,ENST00000599404,;SCGB2B2,upstream_gene_variant,,ENST00000595326,;CTD-2553L13.7,upstream_gene_variant,,ENST00000603701,;"	"G"	"ENSG00000205209"	"ENST00000601241"	"Transcript"	"intron_variant"	"-/2505"	"-/291"	"-/96"	""	""	"rs66995452"	"1"	NA	-1	"SCGB2B2"	"HGNC"	27616	"protein_coding"	"YES"	"CCDS32989.1"	"ENSP00000469876"	"Q4G0G5"	""	"UPI0000252071"	""	NA	NA	""	"1/3"	""	"-:0.2426"	"GG:0.9236"	"GG:0.6484"	NA	"GG:0.4365"	"GG:0.8509"	"GG:0.8446"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"8fb50424-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4064"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	36757995	36757996	"+"	"IGR"	"INS"	"-"	"-"	"TGTGTGTC"	"rs141043964"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	6	3	"."	0	""	"TGTGTGTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141043964"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"9085fef8-280f-11e6-ab45-0e33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"4065"	"CTD-3162L10.1"	0	"mskcc.org"	"GRCh37"	"19"	36795971	36795974	"+"	"Intron"	"DEL"	"GTCT"	"GTCT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GTCT"	"GTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.233+257_233+260delGTCT"	""	""	"ENST00000586345"	""	51	"."	3	23	"."	0	"CTD-3162L10.1,intron_variant,,ENST00000586345,;CTD-3162L10.1,intron_variant,,ENST00000586488,;CTD-3162L10.1,upstream_gene_variant,,ENST00000590845,;"	"-"	"ENSG00000267053"	"ENST00000586345"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/797"	""	""	""	""	""	"1"	NA	1	"CTD-3162L10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACGTCTC"	"76226f9c-280f-11e6-ab45-0e33424a729f"	"17"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WXS"	FALSE
"4066"	"ZNF568"	374900	"mskcc.org"	"GRCh37"	"19"	37413945	37413946	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs34898479"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.76+197_76+198insG"	""	""	"ENST00000333987"	""	11	"."	3	2	"."	0	"ZNF568,intron_variant,,ENST00000415168,NM_001204837.1;ZNF568,intron_variant,,ENST00000333987,NM_001204835.1,NM_198539.3;ZNF568,intron_variant,,ENST00000455427,NM_001204839.1;ZNF568,intron_variant,,ENST00000444991,NM_001204838.1;ZNF568,intron_variant,,ENST00000587857,NM_001204836.1;ZNF568,intron_variant,,ENST00000427117,;ZNF568,intron_variant,,ENST00000587130,;"	"G"	"ENSG00000198453"	"ENST00000333987"	"Transcript"	"intron_variant"	"-/2441"	"-/1935"	"-/644"	""	""	"rs34898479"	"1"	NA	1	"ZNF568"	"HGNC"	25392	"protein_coding"	"YES"	"CCDS42558.1"	"ENSP00000334685"	"Q3ZCX4"	"A2VDJ6"	"UPI000059D700"	"NM_001204835.1,NM_198539.3"	NA	NA	""	"3/6"	""	"-:0.4684"	"G:0.7035"	"G:0.5893"	NA	"G:0.2758"	"G:0.5328"	"G:0.5204"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"90a42b58-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4067"	"ZNF607"	84775	"mskcc.org"	"GRCh37"	"19"	38205212	38205213	"+"	"Intron"	"INS"	"-"	"-"	"AACAAC"	"rs376072397"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-74-2625_-74-2620dupGTTGTT"	""	""	"ENST00000355202"	""	64	"."	5	11	"."	0	"ZNF607,intron_variant,,ENST00000355202,NM_032689.4;ZNF607,intron_variant,,ENST00000395835,NM_001172677.1;ZNF607,intron_variant,,ENST00000591664,;ZNF607,intron_variant,,ENST00000590670,;ZNF607,intron_variant,,ENST00000586559,;CTD-2528L19.4,intron_variant,,ENST00000586606,;CTD-2528L19.4,intron_variant,,ENST00000585547,;CTD-2528L19.4,intron_variant,,ENST00000591114,;"	"AACAAC"	"ENSG00000198182"	"ENST00000355202"	"Transcript"	"intron_variant"	"-/4364"	"-/2091"	"-/696"	""	""	"rs376072397"	"1"	NA	-1	"ZNF607"	"HGNC"	28192	"protein_coding"	"YES"	"CCDS33006.1"	"ENSP00000347338"	"Q96SK3"	"Q59G67,K7EN48"	"UPI000040BC07"	"NM_032689.4"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"90d271f2-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.078125	"WXS"	FALSE
"4068"	"AC016582.2"	100631378	"mskcc.org"	"GRCh37"	"19"	38316144	38316152	"+"	"Intron"	"DEL"	"CGCCTGTAA"	"CGCCTGTAA"	"TC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CGCCTGTAA"	"CGCCTGTAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.449-172_449-164delTTACAGGCGinsGA"	""	""	"ENST00000592640"	""	9	"."	4	2	"."	0	"AC016582.2,intron_variant,,ENST00000592640,;CTD-2554C21.2,intron_variant,,ENST00000590433,;CTD-2554C21.2,intron_variant,,ENST00000586819,;CTD-2554C21.2,intron_variant,,ENST00000592103,;CTD-2554C21.2,intron_variant,,ENST00000587248,;CTD-2554C21.3,upstream_gene_variant,,ENST00000443870,;"	"TC"	"ENSG00000225868"	"ENST00000592640"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1716"	""	""	""	""	""	"1"	NA	-1	"AC016582.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACGCCTGTAAT"	"850665b8-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4069"	"RYR1"	6261	"mskcc.org"	"GRCh37"	"19"	39077896	39077897	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs72239430"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.15022-55_15022-54delAT"	""	""	"ENST00000359596"	""	29	"."	3	3	"."	0	"RYR1,intron_variant,,ENST00000355481,NM_000540.2,NM_001042723.1;RYR1,intron_variant,,ENST00000360985,;RYR1,intron_variant,,ENST00000359596,;MAP4K1,downstream_gene_variant,,ENST00000591517,NM_007181.4;MAP4K1,downstream_gene_variant,,ENST00000589130,;MAP4K1,downstream_gene_variant,,ENST00000396857,NM_001042600.1;MAP4K1,downstream_gene_variant,,ENST00000591921,;MAP4K1,downstream_gene_variant,,ENST00000586296,;MAP4K1,downstream_gene_variant,,ENST00000593196,;MAP4K1,downstream_gene_variant,,ENST00000591210,;"	"-"	"ENSG00000196218"	"ENST00000359596"	"Transcript"	"intron_variant"	"-/15117"	"-/15117"	"-/5038"	""	""	"rs72239430"	"1"	NA	1	"RYR1"	"HGNC"	10483	"protein_coding"	"YES"	"CCDS33011.1"	"ENSP00000352608"	"P21817"	"O75591,B4DET7"	"UPI0000D7E62F"	""	NA	NA	""	"105/105"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"14"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAATA"	"770dce74-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WXS"	FALSE
"4070"	"HNRNPL"	3191	"mskcc.org"	"GRCh37"	"19"	39335855	39335856	"+"	"Intron"	"INS"	"-"	"CCTGGCCAACAACCTGAAACCAC"	"CCTGGCCAACAACCTGAAACCAC"	"rs56358540"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.710+434_710+435insGTGGTTTCAGGTTGTTGGCCAGG"	""	""	"ENST00000221419"	""	6	"."	5	2	"."	0	"HNRNPL,intron_variant,,ENST00000221419,NM_001533.2;HNRNPL,intron_variant,,ENST00000601449,;HNRNPL,intron_variant,,ENST00000600873,NM_001005335.1;HNRNPL,intron_variant,,ENST00000600233,;HNRNPL,intron_variant,,ENST00000601813,;AC008982.2,non_coding_transcript_exon_variant,,ENST00000600473,;HNRNPL,intron_variant,,ENST00000388749,;HNRNPL,intron_variant,,ENST00000601047,;HNRNPL,intron_variant,,ENST00000598985,;HNRNPL,upstream_gene_variant,,ENST00000597731,;HNRNPL,upstream_gene_variant,,ENST00000595164,;HNRNPL,downstream_gene_variant,,ENST00000600741,;"	"CCTGGCCAACAACCTGAAACCAC"	"ENSG00000104824"	"ENST00000221419"	"Transcript"	"intron_variant"	"-/2471"	"-/1770"	"-/589"	""	""	"rs56358540"	"1"	NA	-1	"HNRNPL"	"HGNC"	5045	"protein_coding"	"YES"	"CCDS33015.1"	"ENSP00000221419"	"P14866"	"Q6NTA2"	"UPI00004432FA"	"NM_001533.2"	NA	NA	""	"4/12"	""	"-:0.4289"	"CCTGGCCAACAACCTGAAACCAC:0.4788"	"CCTGGCCAACAACCTGAAACCAC:0.5447"	NA	"CCTGGCCAACAACCTGAAACCAC:0.377"	"CCTGGCCAACAACCTGAAACCAC:0.7157"	"CCTGGCCAACAACCTGAAACCAC:0.7658"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"91604284-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4071"	"PAPL"	390928	"mskcc.org"	"GRCh37"	"19"	39593355	39593356	"+"	"Intron"	"INS"	"-"	"-"	"TTC"	"rs199915190"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1113+1180_1113+1181insCTT"	""	""	"ENST00000331256"	""	9	"."	3	2	"."	0	"PAPL,intron_variant,,ENST00000331256,NM_001004318.2;PAPL,intron_variant,,ENST00000594229,;PAPL,intron_variant,,ENST00000601531,;PAPL,intron_variant,,ENST00000601575,;"	"TTC"	"ENSG00000183760"	"ENST00000331256"	"Transcript"	"intron_variant"	"-/2966"	"-/1317"	"-/438"	""	""	"rs199915190"	"1"	NA	1	"PAPL"	"Uniprot_gn"	NA	"protein_coding"	"YES"	"CCDS33018.1"	"ENSP00000327557"	"Q6ZNF0"	""	"UPI000041AA68"	"NM_001004318.2"	NA	NA	""	"11/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"9175a9d0-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4072"	"FCGBP"	8857	"mskcc.org"	"GRCh37"	"19"	40401139	40401140	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"rs200018003"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5266-317_5266-316delGA"	""	""	"ENST00000221347"	""	8	"."	5	2	"."	0	"FCGBP,intron_variant,,ENST00000221347,NM_003890.2;FCGBP,intron_variant,,ENST00000601713,;"	"-"	"ENSG00000090920"	"ENST00000221347"	"Transcript"	"intron_variant"	"-/16390"	"-/16218"	"-/5405"	""	""	"rs200018003"	"1"	NA	-1	"FCGBP"	"HGNC"	13572	"protein_coding"	"YES"	"CCDS12546.1"	"ENSP00000221347"	"Q9Y6R7"	""	"UPI00001B0455"	"NM_003890.2"	NA	NA	""	"11/35"	""	"-:0.3429"	"-:0.4917"	"-:0.255"	NA	"-:0.2054"	"-:0.341"	"-:0.3476"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTCT"	"77f47734-280f-11e6-ab45-0e33424a729f"	"135"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4073"	"PSMC4"	5704	"mskcc.org"	"GRCh37"	"19"	40478605	40478606	"+"	"Intron"	"INS"	"-"	"-"	"ATAT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.322+155_322+158dupTATA"	""	""	"ENST00000157812"	""	46	"."	8	23	"."	0	"PSMC4,intron_variant,,ENST00000157812,NM_006503.3,NM_153001.2;PSMC4,intron_variant,,ENST00000455878,;PSMC4,intron_variant,,ENST00000601697,;PSMC4,intron_variant,,ENST00000593455,;PSMC4,intron_variant,,ENST00000596386,;"	"ATAT"	"ENSG00000013275"	"ENST00000157812"	"Transcript"	"intron_variant"	"-/1591"	"-/1257"	"-/418"	""	""	""	"1"	NA	1	"PSMC4"	"HGNC"	9551	"protein_coding"	"YES"	"CCDS12547.1"	"ENSP00000157812"	"P43686"	"A8K2M0"	"UPI0000132373"	"NM_006503.3,NM_153001.2"	NA	NA	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"91ab6e6c-280f-11e6-ab45-0e33424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"4074"	"CTC-490E21.12"	0	"mskcc.org"	"GRCh37"	"19"	41324352	41324353	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs777570518"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.119+17034dupA"	""	""	"ENST00000601627"	""	43	"."	6	21	"."	0	"CTC-490E21.12,intron_variant,,ENST00000601627,;CYP2F2P,downstream_gene_variant,,ENST00000437853,;"	"A"	"ENSG00000268797"	"ENST00000601627"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/575"	"-/201"	"-/66"	""	""	"rs777570518"	"1"	NA	1	"CTC-490E21.12"	"Clone_based_vega_gene"	NA	"nonsense_mediated_decay"	"YES"	""	"ENSP00000469533"	""	""	"UPI0002A475C6"	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"9225f51a-280f-11e6-ab45-0e33424a729f"	"246"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WXS"	FALSE
"4075"	"CEACAM7"	1087	"mskcc.org"	"GRCh37"	"19"	42191261	42191262	"+"	"Intron"	"INS"	"-"	"-"	"GTGT"	"rs113455826"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.65-113_65-110dupACAC"	""	""	"ENST00000006724"	""	23	"."	4	18	"."	0	"CEACAM7,intron_variant,,ENST00000006724,NM_006890.3;CEACAM7,intron_variant,,ENST00000401731,;CEACAM7,intron_variant,,ENST00000338196,;CEACAM7,intron_variant,,ENST00000602225,;CEACAM7,intron_variant,,ENST00000599715,;"	"GTGT"	"ENSG00000007306"	"ENST00000006724"	"Transcript"	"intron_variant"	"-/2489"	"-/798"	"-/265"	""	""	"rs113455826"	"1"	NA	-1	"CEACAM7"	"HGNC"	1819	"protein_coding"	"YES"	"CCDS12583.1"	"ENSP00000006724"	"Q14002"	""	"UPI000012748E"	"NM_006890.3"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"929b0e4a-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"4076"	"CEACAM5"	1048	"mskcc.org"	"GRCh37"	"19"	42213456	42213457	"+"	"Intron"	"INS"	"-"	"-"	"ACACACAC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.65-120_65-113dupACACACAC"	""	""	"ENST00000221992"	""	13	"."	3	12	"."	0	"CEACAM5,intron_variant,,ENST00000221992,NM_004363.2;CEACAM5,intron_variant,,ENST00000398599,;CEACAM5,intron_variant,,ENST00000405816,;CEA,intron_variant,,ENST00000598976,;CEA,intron_variant,,ENST00000435837,;CEACAM5,upstream_gene_variant,,ENST00000595113,;CEACAM5,upstream_gene_variant,,ENST00000595403,;CEACAM7,upstream_gene_variant,,ENST00000599715,;CEACAM5,intron_variant,,ENST00000596606,;CEACAM5,intron_variant,,ENST00000460121,;"	"ACACACAC"	"ENSG00000105388"	"ENST00000221992"	"Transcript"	"intron_variant"	"-/2874"	"-/2109"	"-/702"	""	""	""	"1"	NA	1	"CEACAM5"	"HGNC"	1817	"protein_coding"	"YES"	"CCDS12584.1"	"ENSP00000221992"	"P06731"	"Q7KZ28,M0QXV9"	"UPI000013C7E5"	"NM_004363.2"	NA	NA	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"30"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"92a41e9a-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"4077"	"ARHGEF1"	9138	"mskcc.org"	"GRCh37"	"19"	42439263	42439264	"+"	"3'Flank"	"INS"	"-"	"-"	"CTGACC"	"rs112737242"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000599589"	""	12	"."	4	2	"."	0	"ARHGEF1,downstream_gene_variant,,ENST00000599589,;ARHGEF1,downstream_gene_variant,,ENST00000594417,;ARHGEF1,downstream_gene_variant,,ENST00000595770,;"	"CTGACC"	"ENSG00000076928"	"ENST00000599589"	"Transcript"	"downstream_gene_variant"	"-/2636"	"-/2109"	"-/702"	""	""	"rs112737242"	"1"	"4961"	1	"ARHGEF1"	"HGNC"	681	"protein_coding"	""	""	"ENSP00000469735"	""	""	"UPI0002A472D1"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"92b16424-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4078"	"ATP1A3"	478	"mskcc.org"	"GRCh37"	"19"	42472190	42472193	"+"	"Intron"	"DEL"	"AGAG"	"AGAG"	"-"	"rs10589942"	NA	"JHCCPT5"	"JHCCPN5"	"AGAG"	"AGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2859-278_2859-275delCTCT"	""	""	"ENST00000545399"	""	20	"."	4	4	"."	0	"ATP1A3,intron_variant,,ENST00000545399,NM_001256214.1;ATP1A3,intron_variant,,ENST00000302102,NM_152296.4;ATP1A3,intron_variant,,ENST00000543770,NM_001256213.1;ATP1A3,intron_variant,,ENST00000602133,;ATP1A3,intron_variant,,ENST00000441343,;"	"-"	"ENSG00000105409"	"ENST00000545399"	"Transcript"	"intron_variant"	"-/3588"	"-/3081"	"-/1026"	""	""	"rs10589942"	"1"	NA	-1	"ATP1A3"	"HGNC"	801	"protein_coding"	"YES"	"CCDS58664.1"	"ENSP00000444688"	"P13637"	"Q58I21,M0R116,M0QXF2"	"UPI0001914BDE"	"NM_001256214.1"	NA	NA	""	"20/22"	""	"AGAG:0.2871"	"-:0.8079"	"-:0.6744"	NA	"-:0.8165"	"-:0.6282"	"-:0.592"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAGAGA"	"79646570-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"4079"	"PSG10P"	653492	"mskcc.org"	"GRCh37"	"19"	43359599	43359599	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs151317417"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.64+109delG"	""	""	"ENST00000501199"	""	16	"."	5	2	"."	0	"PSG8,intron_variant,,ENST00000401467,;PSG10P,intron_variant,,ENST00000597171,;PSG10P,intron_variant,,ENST00000501199,;"	"-"	"ENSG00000248257"	"ENST00000501199"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1500"	""	""	""	""	"rs151317417"	"1"	NA	-1	"PSG10P"	"HGNC"	9515	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/5"	""	"-:0.2406"	"-:0.1778"	"-:0.1744"	NA	"-:0.3948"	"-:0.0934"	"-:0.365"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"79cf306c-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"4080"	"PSG1"	5669	"mskcc.org"	"GRCh37"	"19"	43382595	43382600	"+"	"Intron"	"DEL"	"TGATTG"	"TGATTG"	"AT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TGATTG"	"TGATTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.65-170_65-165delCAATCAinsAT"	""	""	"ENST00000244296"	""	7	"."	3	3	"."	0	"PSG1,intron_variant,,ENST00000244296,NM_006905.2;PSG1,intron_variant,,ENST00000436291,NM_001184826.1,NM_001184825.1;PSG1,intron_variant,,ENST00000595356,;PSG1,intron_variant,,ENST00000312439,;PSG1,intron_variant,,ENST00000403380,;PSG1,intron_variant,,ENST00000595124,;PSG1,upstream_gene_variant,,ENST00000595930,;PSG1,upstream_gene_variant,,ENST00000597058,;PSG1,intron_variant,,ENST00000601073,;PSG1,intron_variant,,ENST00000601456,;"	"AT"	"ENSG00000231924"	"ENST00000244296"	"Transcript"	"intron_variant"	"-/2276"	"-/1281"	"-/426"	""	""	""	"1"	NA	-1	"PSG1"	"HGNC"	9514	"protein_coding"	"YES"	"CCDS12612.1"	"ENSP00000244296"	"P11464"	"Q9UMI0,M0QY44"	"UPI0000001071"	"NM_006905.2"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTGATTGT"	"850f4160-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4081"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	44209257	44209258	"+"	"IGR"	"INS"	"-"	"-"	"CTTC"	"rs529917872"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"."	5	3	"."	0	""	"CTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs529917872"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CTTC:0.4818"	"CTTC:0.6551"	"CTTC:0.4597"	NA	"CTTC:0.4276"	"CTTC:0.341"	"CTTC:0.4642"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"92e6fb16-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"4082"	"ZNF224"	7767	"mskcc.org"	"GRCh37"	"19"	44610280	44610282	"+"	"Intron"	"DEL"	"CAG"	"CAG"	"-"	"rs10573362"	NA	"JHCCPT5"	"JHCCPN5"	"CAG"	"CAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.236-263_236-261delCAG"	""	""	"ENST00000336976"	""	12	"."	5	1	"."	0	"ZNF224,intron_variant,,ENST00000336976,NM_013398.2;ZNF224,intron_variant,,ENST00000591511,;ZNF224,downstream_gene_variant,,ENST00000589870,;ZNF224,downstream_gene_variant,,ENST00000589680,;AC084219.4,non_coding_transcript_exon_variant,,ENST00000592946,;ZNF224,non_coding_transcript_exon_variant,,ENST00000591551,;"	"-"	"ENSG00000267680"	"ENST00000336976"	"Transcript"	"intron_variant"	"-/2420"	"-/2124"	"-/707"	""	""	"rs10573362"	"1"	NA	1	"ZNF224"	"HGNC"	13017	"protein_coding"	"YES"	"CCDS33046.1"	"ENSP00000337368"	"Q9NZL3"	"Q9HCA8,K7ENI7,K7EL24,K7EJ30"	"UPI00002025B3"	"NM_013398.2"	NA	NA	""	"5/5"	""	"CAG:0.2031"	"-:0.8858"	"-:0.7522"	NA	"-:0.6161"	"-:0.8797"	"-:0.8098"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACCAGC"	"7a71abf8-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"4083"	"AC138472.6"	0	"mskcc.org"	"GRCh37"	"19"	45039134	45039135	"+"	"3'Flank"	"INS"	"-"	"-"	"T"	"rs145727883"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000588710"	""	7	"."	4	2	"."	0	"AC138472.6,downstream_gene_variant,,ENST00000588710,;CEACAM22P,downstream_gene_variant,,ENST00000446628,;"	"T"	"ENSG00000267614"	"ENST00000588710"	"Transcript"	"downstream_gene_variant"	"-/241"	""	""	""	""	"rs145727883"	"1"	"1116"	-1	"AC138472.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.1420"	"T:0.2239"	"T:0.1628"	NA	"T:0.0069"	"T:0.2097"	"T:0.0859"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"933925ee-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4084"	"BCAM"	4059	"mskcc.org"	"GRCh37"	"19"	45323171	45323187	"+"	"Intron"	"DEL"	"CATCCCCAACTCATCCT"	"CATCCCCAACTCATCCT"	"-"	"rs3842409"	NA	"JHCCPT5"	"JHCCPN5"	"CATCCCCAACTCATCCT"	"CATCCCCAACTCATCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1763+199_1763+215delCATCCTCATCCCCAACT"	""	""	"ENST00000270233"	""	11	"."	4	1	"."	0	"BCAM,3_prime_UTR_variant,,ENST00000589651,;BCAM,intron_variant,,ENST00000270233,NM_005581.4,NM_001013257.2;BCAM,non_coding_transcript_exon_variant,,ENST00000588714,;BCAM,upstream_gene_variant,,ENST00000590624,;BCAM,downstream_gene_variant,,ENST00000589558,;BCAM,downstream_gene_variant,,ENST00000590196,;"	"-"	"ENSG00000187244"	"ENST00000270233"	"Transcript"	"intron_variant"	"-/2402"	"-/1887"	"-/628"	""	""	"rs3842409"	"1"	NA	1	"BCAM"	"HGNC"	6722	"protein_coding"	"YES"	"CCDS12644.1"	"ENSP00000270233"	"P50895"	"A9YWT4"	"UPI0000190806"	"NM_005581.4,NM_001013257.2"	NA	NA	""	"13/14"	""	"CATCCCCAACTCATCCT:0.4297"	"-:0.7859"	"-:0.6023"	NA	"-:0.4683"	"-:0.5547"	"-:0.3773"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"11"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCCATCCCCAACTCATCCTC"	"7af6a632-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4085"	"APOC4"	346	"mskcc.org"	"GRCh37"	"19"	45452858	45452862	"+"	"3'Flank"	"DEL"	"TCTTT"	"TCTTT"	"-"	"rs138693236"	NA	"JHCCPT5"	"JHCCPN5"	"TCTTT"	"TCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000419266"	""	13	"."	5	2	"."	0	"CLPTM1,upstream_gene_variant,,ENST00000541297,;CLPTM1,upstream_gene_variant,,ENST00000546079,;APOC4,downstream_gene_variant,,ENST00000419266,;APOC2,downstream_gene_variant,,ENST00000585786,;APOC2,downstream_gene_variant,,ENST00000590360,;APOC2,downstream_gene_variant,,ENST00000252490,NM_000483.4;APOC4-APOC2,downstream_gene_variant,,ENST00000589057,;APOC4,downstream_gene_variant,,ENST00000592954,NM_001646.2;APOC2,downstream_gene_variant,,ENST00000591597,;APOC2,downstream_gene_variant,,ENST00000592257,;CTB-129P6.11,downstream_gene_variant,,ENST00000591646,;APOC4,downstream_gene_variant,,ENST00000591600,;APOC4-APOC2,downstream_gene_variant,,ENST00000585685,;CLPTM1,upstream_gene_variant,,ENST00000588855,;"	"-"	"ENSG00000267467"	"ENST00000419266"	"Transcript"	"downstream_gene_variant"	"-/1761"	"-/384"	"-/127"	""	""	"rs138693236"	"1"	"38"	1	"APOC4"	"HGNC"	611	"protein_coding"	"YES"	"CCDS12649.1"	"ENSP00000406381"	""	"K7EMC3"	"UPI0000125C2A"	""	NA	NA	""	""	""	"-:0.1240"	"-:0.0552"	"-:0.17"	NA	"-:0.0565"	"-:0.1213"	"-:0.2566"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTTTT"	"7b0d20f6-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"4086"	"CLPTM1"	1209	"mskcc.org"	"GRCh37"	"19"	45478314	45478315	"+"	"Intron"	"INS"	"-"	"AGAC"	"AGAC"	"rs10658290"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.468+463_468+464insCAGA"	""	""	"ENST00000337392"	""	7	"."	5	2	"."	0	"CLPTM1,intron_variant,,ENST00000541297,;CLPTM1,intron_variant,,ENST00000337392,NM_001294.2,NM_001282176.1,NM_001282175.1;CLPTM1,intron_variant,,ENST00000546079,;CLPTM1,intron_variant,,ENST00000591304,;CLPTM1,downstream_gene_variant,,ENST00000585961,;CLPTM1,intron_variant,,ENST00000588855,;CLPTM1,intron_variant,,ENST00000587537,;"	"AGAC"	"ENSG00000104853"	"ENST00000337392"	"Transcript"	"intron_variant"	"-/2604"	"-/2010"	"-/669"	""	""	"rs10658290"	"1"	NA	1	"CLPTM1"	"HGNC"	2087	"protein_coding"	"YES"	"CCDS12651.1"	"ENSP00000336994"	"O96005"	"K7EKQ7,B4DDS3"	"UPI0000072CBA"	"NM_001294.2,NM_001282176.1,NM_001282175.1"	NA	NA	""	"4/13"	""	"-:0.0980"	"AGAC:0.8086"	"AGAC:0.8689"	NA	"AGAC:0.9296"	"AGAC:0.9672"	"AGAC:0.956"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"936486b2-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4087"	"AC074212.3"	0	"mskcc.org"	"GRCh37"	"19"	46263046	46263050	"+"	"Intron"	"DEL"	"TTTAT"	"TTTAT"	"-"	"rs141892717"	NA	"JHCCPT5"	"JHCCPN5"	"TTTAT"	"TTTAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1245+325_1245+329delTATTT"	""	""	"ENST00000457052"	""	36	"."	6	10	"."	0	"AC074212.3,intron_variant,,ENST00000457052,;SIX5,downstream_gene_variant,,ENST00000317578,NM_175875.4;AC074212.5,upstream_gene_variant,,ENST00000559756,;"	"-"	"ENSG00000237452"	"ENST00000457052"	"Transcript"	"intron_variant"	"-/2749"	"-/1917"	"-/638"	""	""	"rs141892717"	"1"	NA	1	"AC074212.3"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000402674"	""	"C9JSJ3"	"UPI0002840CC6"	""	NA	NA	""	"11/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"27"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATTTATT"	"7bbd95da-280f-11e6-ab45-0e33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"4088"	"SYMPK"	8189	"mskcc.org"	"GRCh37"	"19"	46354192	46354193	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs145752515"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.299+1377dupC"	""	""	"ENST00000245934"	""	10	"."	4	6	"."	0	"SYMPK,intron_variant,,ENST00000245934,NM_004819.2;SYMPK,intron_variant,,ENST00000594293,;SYMPK,intron_variant,,ENST00000598059,;SYMPK,intron_variant,,ENST00000602061,;SYMPK,downstream_gene_variant,,ENST00000601600,;SYMPK,intron_variant,,ENST00000599814,;SYMPK,intron_variant,,ENST00000599460,;SYMPK,intron_variant,,ENST00000600237,;SYMPK,intron_variant,,ENST00000593504,;SYMPK,intron_variant,,ENST00000598896,;SYMPK,downstream_gene_variant,,ENST00000593959,;"	"G"	"ENSG00000125755"	"ENST00000245934"	"Transcript"	"intron_variant"	"-/4195"	"-/3825"	"-/1274"	""	""	"rs145752515"	"1"	NA	-1	"SYMPK"	"HGNC"	22935	"protein_coding"	"YES"	"CCDS12676.2"	"ENSP00000245934"	"Q92797"	"M0R1C2,M0R180,M0R039,M0QXP5"	"UPI00002026C0"	"NM_004819.2"	NA	NA	""	"5/26"	""	"G:0.1452"	"G:0.1074"	"G:0.2334"	NA	"G:0.0952"	"G:0.1581"	"G:0.1718"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"93e40ca2-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4089"	"ENSR00000347570"	0	"mskcc.org"	"GRCh37"	"19"	46792102	46792103	"+"	"IGR"	"INS"	"-"	"-"	"AAGGAAGAGA"	"rs113710296"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000347570"	""	12	"."	3	5	"."	0	""	"AAGGAAGAGA"	""	"ENSR00000347570"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs113710296"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4684"	"AAGGAAGAGA:0.6301"	"AAGGAAGAGA:0.4726"	NA	"AAGGAAGAGA:0.4673"	"AAGGAAGAGA:0.6223"	"AAGGAAGAGA:0.4131"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"93ed5bb8-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4090"	"HIF3A"	64344	"mskcc.org"	"GRCh37"	"19"	46808110	46808111	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11393349"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.218-389dupT"	""	""	"ENST00000377670"	""	18	"."	3	8	"."	0	"HIF3A,intron_variant,,ENST00000339613,;HIF3A,intron_variant,,ENST00000377670,NM_152795.3;HIF3A,intron_variant,,ENST00000300862,NM_152794.3;HIF3A,intron_variant,,ENST00000244303,NM_022462.4;HIF3A,intron_variant,,ENST00000420102,;HIF3A,intron_variant,,ENST00000600383,;HIF3A,intron_variant,,ENST00000472815,NM_152796.2;HIF3A,intron_variant,,ENST00000533145,;RNU6-924P,downstream_gene_variant,,ENST00000362926,;HIF3A,upstream_gene_variant,,ENST00000525854,;HIF3A,intron_variant,,ENST00000244302,;HIF3A,intron_variant,,ENST00000291300,;HIF3A,intron_variant,,ENST00000475432,;HIF3A,intron_variant,,ENST00000528563,;HIF3A,intron_variant,,ENST00000600879,;HIF3A,intron_variant,,ENST00000533789,;HIF3A,intron_variant,,ENST00000526506,;HIF3A,upstream_gene_variant,,ENST00000529205,;HIF3A,upstream_gene_variant,,ENST00000531043,;HIF3A,downstream_gene_variant,,ENST00000524533,;"	"T"	"ENSG00000124440"	"ENST00000377670"	"Transcript"	"intron_variant"	"-/5852"	"-/2010"	"-/669"	""	""	"rs11393349"	"1"	NA	1	"HIF3A"	"HGNC"	15825	"protein_coding"	"YES"	"CCDS12681.2"	"ENSP00000366898"	"Q9Y2N7"	"Q9UPH7,O95262,E9PB04"	"UPI00002026E2"	"NM_152795.3"	NA	NA	""	"2/14"	""	"T:0.3297"	"T:0.2731"	"T:0.3256"	NA	"T:0.4554"	"T:0.2555"	"T:0.3558"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"93f08400-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"4091"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	46958188	46958189	"+"	"IGR"	"INS"	"-"	"-"	"CCTT"	"rs112613236"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	7	2	"."	0	""	"CCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112613236"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0132"	"CCTT:0.9985"	"CCTT:0.9957"	NA	"CCTT:0.999"	"CCTT:0.9503"	"CCTT:0.9898"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"940fe796-280f-11e6-ab45-0e33424a729f"	"405"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.538461538461538	"WXS"	FALSE
"4092"	"FKRP"	79147	"mskcc.org"	"GRCh37"	"19"	47268929	47268929	"+"	"Intron"	"DEL"	"G"	"-"	"-"	"rs112995826"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.248-10980delG"	""	""	"ENST00000600646"	""	6	"."	5	2	"."	0	"FKRP,intron_variant,,ENST00000600646,;FKRP,downstream_gene_variant,,ENST00000597339,;"	"-"	"ENSG00000181027"	"ENST00000600646"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/584"	""	""	""	""	"rs112995826"	"1"	NA	1	"FKRP"	"HGNC"	17997	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTGT"	"7c4ddb5e-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4093"	"BCAT2"	587	"mskcc.org"	"GRCh37"	"19"	49315782	49315782	"+"	"5'Flank"	"DEL"	"T"	"T"	"-"	"rs3834629"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000316273"	""	6	"."	4	3	"."	0	"BCAT2,upstream_gene_variant,,ENST00000402551,NM_001284325.1;BCAT2,upstream_gene_variant,,ENST00000597011,;BCAT2,upstream_gene_variant,,ENST00000316273,NM_001190.3;BCAT2,upstream_gene_variant,,ENST00000599246,;BCAT2,upstream_gene_variant,,ENST00000598162,;BCAT2,upstream_gene_variant,,ENST00000545387,NM_001164773.1;HSD17B14,downstream_gene_variant,,ENST00000263278,NM_016246.2;BCAT2,upstream_gene_variant,,ENST00000601681,;HSD17B14,downstream_gene_variant,,ENST00000599157,;HSD17B14,downstream_gene_variant,,ENST00000595764,;HSD17B14,downstream_gene_variant,,ENST00000596349,;BCAT2,upstream_gene_variant,,ENST00000601496,;BCAT2,upstream_gene_variant,,ENST00000596981,;BCAT2,upstream_gene_variant,,ENST00000595376,;"	"-"	"ENSG00000105552"	"ENST00000316273"	"Transcript"	"upstream_gene_variant"	"-/1552"	"-/1179"	"-/392"	""	""	"rs3834629"	"1"	"1505"	-1	"BCAT2"	"HGNC"	977	"protein_coding"	"YES"	"CCDS12735.1"	"ENSP00000322991"	"O15382"	"M0R2K7,B3KSI3"	"UPI00001267CC"	"NM_001190.3"	NA	NA	""	""	""	"T:0.3659"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTG"	"7d56fff8-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4094"	"PPFIA3"	8541	"mskcc.org"	"GRCh37"	"19"	49638289	49638290	"+"	"Intron"	"INS"	"-"	"-"	"TTTT"	"rs145384251"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1520+120_1520+123dupTTTT"	""	""	"ENST00000334186"	""	17	"."	3	9	"."	0	"PPFIA3,intron_variant,,ENST00000334186,NM_003660.3;PPFIA3,intron_variant,,ENST00000602351,;PPFIA3,intron_variant,,ENST00000602655,;PPFIA3,intron_variant,,ENST00000421230,;PPFIA3,intron_variant,,ENST00000602716,;PPFIA3,downstream_gene_variant,,ENST00000602726,;PPFIA3,downstream_gene_variant,,ENST00000602492,;"	"TTTT"	"ENSG00000177380"	"ENST00000334186"	"Transcript"	"intron_variant"	"-/4733"	"-/3585"	"-/1194"	""	""	"rs145384251"	"1"	NA	1	"PPFIA3"	"HGNC"	9247	"protein_coding"	"YES"	"CCDS12758.1"	"ENSP00000335614"	"O75145"	"R4GNF1"	"UPI00001AE464"	"NM_003660.3"	NA	NA	""	"13/29"	""	"TTTT:0.1681"	"TTTT:0.0272"	"TTTT:0.1614"	NA	"TTTT:0.0595"	"TTTT:0.3211"	"TTTT:0.318"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"94d4bbac-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"4095"	"SLC17A7"	57030	"mskcc.org"	"GRCh37"	"19"	49947595	49947596	"+"	"5'Flank"	"INS"	"-"	"-"	"TCCTTCTTTCTTCCTTCTTTCCTTCCTTCCTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000221485"	""	19	"."	3	4	"."	0	"SLC17A7,upstream_gene_variant,,ENST00000221485,NM_020309.3;SLC17A7,upstream_gene_variant,,ENST00000543531,;SLC17A7,upstream_gene_variant,,ENST00000600601,;PIH1D1,downstream_gene_variant,,ENST00000262265,NM_017916.2;PIH1D1,downstream_gene_variant,,ENST00000601807,;PIH1D1,downstream_gene_variant,,ENST00000596049,;PIH1D1,downstream_gene_variant,,ENST00000597415,;PIH1D1,downstream_gene_variant,,ENST00000599366,;PIH1D1,downstream_gene_variant,,ENST00000600875,;PIH1D1,downstream_gene_variant,,ENST00000602226,;PIH1D1,downstream_gene_variant,,ENST00000593629,;PIH1D1,downstream_gene_variant,,ENST00000595074,;PIH1D1,downstream_gene_variant,,ENST00000599791,;PIH1D1,downstream_gene_variant,,ENST00000593900,;PIH1D1,downstream_gene_variant,,ENST00000595516,;PIH1D1,downstream_gene_variant,,ENST00000596916,;PIH1D1,downstream_gene_variant,,ENST00000596651,;PIH1D1,downstream_gene_variant,,ENST00000597577,;PIH1D1,downstream_gene_variant,,ENST00000601053,;PIH1D1,downstream_gene_variant,,ENST00000598889,;PIH1D1,downstream_gene_variant,,ENST00000594845,;PIH1D1,downstream_gene_variant,,ENST00000602076,;PIH1D1,downstream_gene_variant,,ENST00000596895,;PIH1D1,downstream_gene_variant,,ENST00000595633,;PIH1D1,downstream_gene_variant,,ENST00000598175,;"	"TCCTTCTTTCTTCCTTCTTTCCTTCCTTCCTC"	"ENSG00000104888"	"ENST00000221485"	"Transcript"	"upstream_gene_variant"	"-/2973"	"-/1683"	"-/560"	""	""	""	"1"	"2787"	-1	"SLC17A7"	"HGNC"	16704	"protein_coding"	"YES"	"CCDS12764.1"	"ENSP00000221485"	"Q9P2U7"	"B4DFR9,A8K0Q7"	"UPI000006F6B8"	"NM_020309.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"952a85c8-280f-11e6-ab45-0e33424a729f"	"120"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WXS"	FALSE
"4096"	"ALDH16A1"	126133	"mskcc.org"	"GRCh37"	"19"	49966135	49966135	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs58446966"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1098+123delA"	""	""	"ENST00000293350"	""	22	"."	3	11	"."	0	"ALDH16A1,intron_variant,,ENST00000293350,NM_153329.3;ALDH16A1,intron_variant,,ENST00000455361,NM_001145396.1;ALDH16A1,intron_variant,,ENST00000433981,;ALDH16A1,intron_variant,,ENST00000540132,;ALDH16A1,downstream_gene_variant,,ENST00000598015,;ALDH16A1,intron_variant,,ENST00000599652,;ALDH16A1,intron_variant,,ENST00000593417,;CTD-3148I10.9,intron_variant,,ENST00000599536,;ALDH16A1,upstream_gene_variant,,ENST00000600265,;"	"-"	"ENSG00000161618"	"ENST00000293350"	"Transcript"	"intron_variant"	"-/3153"	"-/2409"	"-/802"	""	""	"rs58446966"	"1"	NA	1	"ALDH16A1"	"HGNC"	28114	"protein_coding"	"YES"	"CCDS12766.1"	"ENSP00000293350"	"Q8IZ83"	"F8WBH3"	"UPI000013E0FF"	"NM_153329.3"	NA	NA	""	"8/16"	""	"A:0.3704"	"-:0.7368"	"-:0.6311"	NA	"-:0.4008"	"-:0.7525"	"-:0.593"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAG"	"7e3418b6-280f-11e6-ab45-0e33424a729f"	"148"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"4097"	"MYH14"	79784	"mskcc.org"	"GRCh37"	"19"	50734991	50734992	"+"	"Intron"	"INS"	"-"	"-"	"AGAG"	"rs72258130"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.974-194_974-191dupGAGA"	""	""	"ENST00000601313"	""	12	"."	3	2	"."	0	"MYH14,intron_variant,,ENST00000440075,;MYH14,intron_variant,,ENST00000601313,NM_001145809.1;MYH14,intron_variant,,ENST00000376970,NM_024729.3;MYH14,intron_variant,,ENST00000262269,;MYH14,intron_variant,,ENST00000425460,NM_001077186.1;MYH14,intron_variant,,ENST00000598205,;MYH14,intron_variant,,ENST00000596571,;MYH14,intron_variant,,ENST00000599920,;"	"AGAG"	"ENSG00000105357"	"ENST00000601313"	"Transcript"	"intron_variant"	"-/6896"	"-/6111"	"-/2036"	""	""	"rs72258130"	"1"	NA	1	"MYH14"	"HGNC"	23212	"protein_coding"	"YES"	"CCDS54295.1"	"ENSP00000470298"	"Q7Z406"	"A1L2Z2"	"UPI0001641C2F"	"NM_001145809.1"	NA	NA	""	"9/42"	""	"-:0.0683"	"AGAG:0.8737"	"AGAG:0.951"	NA	"AGAG:0.9524"	"AGAG:0.9523"	"AGAG:0.954"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"95890698-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4098"	"MYH14"	79784	"mskcc.org"	"GRCh37"	"19"	50749190	50749197	"+"	"Intron"	"DEL"	"TCCCTCCC"	"TCCCTCCC"	"-"	"rs146908558"	NA	"JHCCPT5"	"JHCCPN5"	"TCCCTCCC"	"TCCCTCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1211-1048_1211-1041delCTCCCTCC"	""	""	"ENST00000601313"	""	9	"."	3	2	"."	0	"MYH14,intron_variant,,ENST00000440075,;MYH14,intron_variant,,ENST00000601313,NM_001145809.1;MYH14,intron_variant,,ENST00000376970,NM_024729.3;MYH14,intron_variant,,ENST00000262269,;MYH14,intron_variant,,ENST00000425460,NM_001077186.1;MYH14,intron_variant,,ENST00000598205,;MYH14,intron_variant,,ENST00000596571,;MYH14,intron_variant,,ENST00000599920,;"	"-"	"ENSG00000105357"	"ENST00000601313"	"Transcript"	"intron_variant"	"-/6896"	"-/6111"	"-/2036"	""	""	"rs146908558"	"1"	NA	1	"MYH14"	"HGNC"	23212	"protein_coding"	"YES"	"CCDS54295.1"	"ENSP00000470298"	"Q7Z406"	"A1L2Z2"	"UPI0001641C2F"	"NM_001145809.1"	NA	NA	""	"11/42"	""	"TCCCTCCC:0.2378"	"-:0.6233"	"-:0.8631"	NA	"-:0.7897"	"-:0.8479"	"-:0.7618"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"23"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTTCCCTCCCT"	"7ec7df74-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4099"	"MYH14"	79784	"mskcc.org"	"GRCh37"	"19"	50749894	50749895	"+"	"Intron"	"INS"	"-"	"AAACAAAAC"	"AAACAAAAC"	"rs146740474"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1211-360_1211-359insACAAACAAA"	""	""	"ENST00000601313"	""	7	"."	5	2	"."	0	"MYH14,intron_variant,,ENST00000440075,;MYH14,intron_variant,,ENST00000601313,NM_001145809.1;MYH14,intron_variant,,ENST00000376970,NM_024729.3;MYH14,intron_variant,,ENST00000262269,;MYH14,intron_variant,,ENST00000425460,NM_001077186.1;MYH14,intron_variant,,ENST00000598205,;MYH14,intron_variant,,ENST00000596571,;MYH14,intron_variant,,ENST00000599920,;"	"AAACAAAAC"	"ENSG00000105357"	"ENST00000601313"	"Transcript"	"intron_variant"	"-/6896"	"-/6111"	"-/2036"	""	""	"rs146740474"	"1"	NA	1	"MYH14"	"HGNC"	23212	"protein_coding"	"YES"	"CCDS54295.1"	"ENSP00000470298"	"Q7Z406"	"A1L2Z2"	"UPI0001641C2F"	"NM_001145809.1"	NA	NA	""	"11/42"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"9592bd96-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4100"	"NR1H2"	7376	"mskcc.org"	"GRCh37"	"19"	50886190	50886191	"+"	"3'UTR"	"INS"	"-"	"-"	"G"	"rs11398433"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*334dupG"	""	""	"ENST00000253727"	"10/10"	7	"."	4	7	"."	0	"NR1H2,3_prime_UTR_variant,,ENST00000542413,;NR1H2,3_prime_UTR_variant,,ENST00000253727,NM_007121.5;NR1H2,3_prime_UTR_variant,,ENST00000598168,;NR1H2,3_prime_UTR_variant,,ENST00000599105,;NR1H2,3_prime_UTR_variant,,ENST00000593926,;POLD1,upstream_gene_variant,,ENST00000440232,NM_002691.3,NM_001256849.1;POLD1,upstream_gene_variant,,ENST00000599857,;NR1H2,downstream_gene_variant,,ENST00000411902,NM_001256647.1;NR1H2,downstream_gene_variant,,ENST00000597130,;NR1H2,downstream_gene_variant,,ENST00000597157,;POLD1,upstream_gene_variant,,ENST00000601098,;NR1H2,downstream_gene_variant,,ENST00000597790,;POLD1,upstream_gene_variant,,ENST00000593887,;NR1H2,3_prime_UTR_variant,,ENST00000593532,;POLD1,upstream_gene_variant,,ENST00000600859,;POLD1,upstream_gene_variant,,ENST00000600746,;NR1H2,downstream_gene_variant,,ENST00000597085,;NR1H2,downstream_gene_variant,,ENST00000595730,;"	"G"	"ENSG00000131408"	"ENST00000253727"	"Transcript"	"3_prime_UTR_variant"	"1949-1950/1998"	"-/1383"	"-/460"	""	""	"rs11398433"	"1"	NA	1	"NR1H2"	"HGNC"	7965	"protein_coding"	"YES"	"CCDS42593.1"	"ENSP00000253727"	"P55055"	"M0R3A7,M0R1V8,M0QZF5,M0QYE6,F1D8P7"	"UPI000013CDEE"	"NM_007121.5"	NA	NA	"10/10"	""	""	"-:0.0002"	"G:1"	"G:0.9986"	NA	"G:1"	"G:1"	"G:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"95d74baa-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4101"	"MA0528.1"	0	"mskcc.org"	"GRCh37"	"19"	50996206	50996208	"+"	"IGR"	"DEL"	"AGG"	"AGG"	"-"	"rs111506906"	NA	"JHCCPT5"	"JHCCPN5"	"AGG"	"AGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"MA0528.1"	""	14	"."	3	10	"."	0	""	"-"	""	"MA0528.1"	"MotifFeature"	"TF_binding_site_variant"	""	""	""	""	""	"rs111506906"	"1"	NA	1	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AGG:0.2644"	"-:0.8101"	"-:0.7406"	NA	"-:0.7034"	"-:0.6491"	"-:0.7536"	""	""	""	""	NA	"Znf263:MA0528.1"	"10"	"N"	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAGGA"	"7ef54e0a-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"4102"	"GPR32P1"	0	"mskcc.org"	"GRCh37"	"19"	51261581	51261583	"+"	"5'Flank"	"DEL"	"AAT"	"AAT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAT"	"AAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000601788"	""	79	"."	4	21	"."	0	"GPR32P1,upstream_gene_variant,,ENST00000601788,;"	"-"	"ENSG00000269565"	"ENST00000601788"	"Transcript"	"upstream_gene_variant"	"-/811"	""	""	""	""	""	"1"	"56"	1	"GPR32P1"	"HGNC"	4488	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAATA"	"7f2efcb8-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0506329113924051	"WXS"	FALSE
"4103"	"SIGLEC5"	8778	"mskcc.org"	"GRCh37"	"19"	52132524	52132525	"+"	"Intron"	"INS"	"-"	"-"	"ACACAC"	"rs112581861"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.700+81_700+86dupGTGTGT"	""	""	"ENST00000570106"	""	49	"."	4	25	"."	0	"SIGLEC5,intron_variant,,ENST00000222107,;SIGLEC5,intron_variant,,ENST00000570106,NM_003830.3;SIGLEC5,intron_variant,,ENST00000534261,;SIGLEC5,intron_variant,,ENST00000429354,;SIGLEC5,intron_variant,,ENST00000599649,;"	"ACACAC"	"ENSG00000105501"	"ENST00000570106"	"Transcript"	"intron_variant"	"-/2359"	"-/1656"	"-/551"	""	""	"rs112581861"	"1"	NA	-1	"SIGLEC5"	"HGNC"	10874	"protein_coding"	"YES"	"CCDS33088.1"	"ENSP00000455510"	"O15389"	""	"UPI000011B40C"	"NM_003830.3"	NA	NA	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"96b96292-280f-11e6-ab45-0e33424a729f"	"209"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WXS"	FALSE
"4104"	"HAS1"	3036	"mskcc.org"	"GRCh37"	"19"	52227137	52227138	"+"	"Intron"	"INS"	"-"	"-"	"ACACACAC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9+33_9+40dupGTGTGTGT"	""	""	"ENST00000222115"	""	63	"."	4	27	"."	0	"HAS1,intron_variant,,ENST00000540069,;HAS1,intron_variant,,ENST00000222115,NM_001523.2;HAS1,upstream_gene_variant,,ENST00000601714,;HAS1,upstream_gene_variant,,ENST00000594621,;HAS1,upstream_gene_variant,,ENST00000601667,;"	"ACACACAC"	"ENSG00000105509"	"ENST00000222115"	"Transcript"	"intron_variant"	"-/2087"	"-/1737"	"-/578"	""	""	""	"1"	NA	-1	"HAS1"	"HGNC"	4818	"protein_coding"	"YES"	"CCDS12838.1"	"ENSP00000222115"	"Q92839"	"Q4VHE4"	"UPI000006D531"	"NM_001523.2"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"96d2f8f6-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0634920634920635	"WXS"	FALSE
"4105"	"ZNF600"	162966	"mskcc.org"	"GRCh37"	"19"	53294840	53294841	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs10644290"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000338230"	""	11	"."	4	1	"."	0	"ZNF600,upstream_gene_variant,,ENST00000338230,NM_198457.2;ZNF600,upstream_gene_variant,,ENST00000598369,;ZNF600,upstream_gene_variant,,ENST00000599893,;ZNF600,upstream_gene_variant,,ENST00000594028,;ZNF600,upstream_gene_variant,,ENST00000597124,;"	"A"	"ENSG00000189190"	"ENST00000338230"	"Transcript"	"upstream_gene_variant"	"-/3829"	"-/2169"	"-/722"	""	""	"rs10644290"	"1"	"4824"	-1	"ZNF600"	"HGNC"	30951	"protein_coding"	"YES"	"CCDS12856.1"	"ENSP00000344791"	"Q6ZNG1"	""	"UPI0000366E5E"	"NM_198457.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"9735c044-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4106"	"ZNF28"	7576	"mskcc.org"	"GRCh37"	"19"	53313075	53313076	"+"	"Intron"	"INS"	"-"	"-"	"GGCAGCGGC"	"rs202197218"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.16-1690_16-1689insGCCGCTGCC"	""	""	"ENST00000457749"	""	31	"."	9	6	"."	0	"ZNF28,intron_variant,,ENST00000457749,NM_006969.3;ZNF28,intron_variant,,ENST00000414252,;ZNF28,intron_variant,,ENST00000391783,;ZNF28,intron_variant,,ENST00000594602,;ZNF28,intron_variant,,ENST00000339844,;ZNF28,intron_variant,,ENST00000596559,;ZNF28,upstream_gene_variant,,ENST00000438150,;ZNF28,upstream_gene_variant,,ENST00000360272,;ZNF28,intron_variant,,ENST00000464469,;ZNF28,downstream_gene_variant,,ENST00000542421,;CTD-2102P23.1,upstream_gene_variant,,ENST00000536597,;"	"GGCAGCGGC"	"ENSG00000198538"	"ENST00000457749"	"Transcript"	"intron_variant"	"-/4556"	"-/2157"	"-/718"	""	""	"rs202197218"	"1"	NA	-1	"ZNF28"	"HGNC"	13073	"protein_coding"	"YES"	"CCDS33093.2"	"ENSP00000397693"	"P17035"	"C9K0H3"	"UPI00001D8190"	"NM_006969.3"	NA	NA	""	"2/3"	""	"GGCAGCGGC:0.2999"	"GGCAGCGGC:0.1846"	"GGCAGCGGC:0.3948"	NA	"GGCAGCGGC:0.0933"	"GGCAGCGGC:0.6471"	"GGCAGCGGC:0.2444"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"9737af80-280f-11e6-ab45-0e33424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290322580645161	"WXS"	FALSE
"4107"	"ZNF321P"	100529240	"mskcc.org"	"GRCh37"	"19"	53451626	53451627	"+"	"Intron"	"INS"	"-"	"-"	"CTGCAACCTCCGC"	"rs146329650"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.190+4365_190+4377dupGCGGAGGTTGCAG"	""	""	"ENST00000391777"	""	9	"."	4	3	"."	0	"ZNF321P,intron_variant,,ENST00000391777,;ZNF816,intron_variant,,ENST00000434371,;ZNF816,downstream_gene_variant,,ENST00000357666,NM_001031665.2;ZNF816,downstream_gene_variant,,ENST00000444460,NM_001202457.1,NM_001202456.1;ZNF816,downstream_gene_variant,,ENST00000270457,;ZNF816,downstream_gene_variant,,ENST00000391786,;ZNF816,downstream_gene_variant,,ENST00000457013,;ZNF816,downstream_gene_variant,,ENST00000535506,;ZNF816,downstream_gene_variant,,ENST00000438970,;ZNF816,downstream_gene_variant,,ENST00000332302,;"	"CTGCAACCTCCGC"	"ENSG00000221874"	"ENST00000391777"	"Transcript"	"intron_variant"	"-/1252"	"-/702"	"-/233"	""	""	"rs146329650"	"1"	NA	-1	"ZNF321P"	"HGNC"	13827	"protein_coding"	"YES"	"CCDS56101.1"	"ENSP00000375656"	"Q8N8H1"	""	"UPI000041A073"	""	NA	NA	""	"3/3"	""	"CTGCAACCTCCGC:0.1526"	"CTGCAACCTCCGC:0.1899"	"CTGCAACCTCCGC:0.1455"	NA	"CTGCAACCTCCGC:0.002"	"CTGCAACCTCCGC:0.2068"	"CTGCAACCTCCGC:0.2065"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"97445924-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4108"	"ZNF816"	125893	"mskcc.org"	"GRCh37"	"19"	53456490	53456491	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs767566726"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.64-361dupT"	""	""	"ENST00000357666"	""	6	"."	3	3	"."	0	"ZNF816,intron_variant,,ENST00000357666,NM_001031665.2;ZNF816,intron_variant,,ENST00000444460,NM_001202457.1,NM_001202456.1;ZNF321P,intron_variant,,ENST00000391777,;ZNF816,intron_variant,,ENST00000434371,;ZNF816,intron_variant,,ENST00000270457,;ZNF816,intron_variant,,ENST00000391786,;ZNF816,intron_variant,,ENST00000457013,;ZNF816,intron_variant,,ENST00000535506,;ZNF816,intron_variant,,ENST00000438970,;ZNF816,intron_variant,,ENST00000332302,;CTD-2620I22.1,downstream_gene_variant,,ENST00000600068,;"	"A"	"ENSG00000180257"	"ENST00000357666"	"Transcript"	"intron_variant"	"-/2697"	"-/1956"	"-/651"	""	""	"rs767566726"	"1"	NA	-1	"ZNF816"	"HGNC"	26995	"protein_coding"	"YES"	"CCDS33096.1"	"ENSP00000350295"	"Q0VGE8"	"I3L0H5"	"UPI0000251D78"	"NM_001031665.2"	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	"0.2551"	"0.5962"	"0.5"	"0.4306"	"0"	"0.4678"	"0.3214"	"0.475"	NA	"common_variant"	"ACA"	"9747521e-280f-11e6-ab45-0e33424a729f"	"180"	0.4728	"938/1984"	"3178/12460"	"31/52"	"12/24"	"31/72"	"0/0"	"247/528"	"9/28"	"608/1280"	"PASS"	"FALSE"	0.5	"WXS"	FALSE
"4109"	"ERVV-2"	100271846	"mskcc.org"	"GRCh37"	"19"	53559322	53559323	"+"	"3'Flank"	"INS"	"-"	"-"	"ATTCATTCATTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000601417"	""	8	"."	3	2	"."	0	"ERVV-2,downstream_gene_variant,,ENST00000601417,NM_001191055.1;"	"ATTCATTCATTC"	"ENSG00000268964"	"ENST00000601417"	"Transcript"	"downstream_gene_variant"	"-/2431"	"-/1608"	"-/535"	""	""	""	"1"	"4993"	1	"ERVV-2"	"HGNC"	39051	"protein_coding"	"YES"	"CCDS59420.1"	"ENSP00000472919"	"B6SEH9"	"M9QSX5"	"UPI00018258B9"	"NM_001191055.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"974e78b4-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4110"	"ZNF160"	90338	"mskcc.org"	"GRCh37"	"19"	53577035	53577036	"+"	"Intron"	"INS"	"-"	"-"	"TTTA"	"rs149525641"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.271+354_271+357dupTAAA"	""	""	"ENST00000429604"	""	20	"."	5	3	"."	0	"ZNF160,intron_variant,,ENST00000601421,;ZNF160,intron_variant,,ENST00000429604,NM_198893.2,NM_001102603.1;ZNF160,intron_variant,,ENST00000599056,;ZNF160,intron_variant,,ENST00000418871,NM_033288.3;ZNF160,intron_variant,,ENST00000599247,;ZNF160,intron_variant,,ENST00000355147,;ZNF160,intron_variant,,ENST00000601982,;ZNF160,downstream_gene_variant,,ENST00000599637,;ZNF160,downstream_gene_variant,,ENST00000599729,;"	"TTTA"	"ENSG00000170949"	"ENST00000429604"	"Transcript"	"intron_variant"	"-/4336"	"-/2457"	"-/818"	""	""	"rs149525641"	"1"	NA	-1	"ZNF160"	"HGNC"	12948	"protein_coding"	"YES"	"CCDS12859.1"	"ENSP00000406201"	"Q9HCG1"	"M0QZI7,M0QZ49,M0QXU9"	"UPI0000202B37"	"NM_198893.2,NM_001102603.1"	NA	NA	""	"6/6"	""	"TTTA:0.0603"	"TTTA:0.0454"	"TTTA:0.0418"	NA	"TTTA:0.0456"	"TTTA:0.0924"	"TTTA:0.0757"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"974f8010-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4111"	"ZNF677"	342926	"mskcc.org"	"GRCh37"	"19"	53761009	53761010	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"rs11384374"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000333952"	""	39	"."	13	14	"."	0	"ZNF677,upstream_gene_variant,,ENST00000333952,;ZNF677,upstream_gene_variant,,ENST00000598513,NM_182609.2;VN1R2,upstream_gene_variant,,ENST00000341702,NM_173856.2;ZNF677,upstream_gene_variant,,ENST00000594681,;ZNF677,upstream_gene_variant,,ENST00000599012,;ZNF677,upstream_gene_variant,,ENST00000601828,;ZNF677,upstream_gene_variant,,ENST00000601413,;ZNF677,upstream_gene_variant,,ENST00000598806,;ZNF677,upstream_gene_variant,,ENST00000594517,;ZNF677,upstream_gene_variant,,ENST00000595293,;VN1R2,upstream_gene_variant,,ENST00000598458,;"	"T"	"ENSG00000197928"	"ENST00000333952"	"Transcript"	"upstream_gene_variant"	"-/8731"	"-/1755"	"-/584"	""	""	"rs11384374"	"1"	"2883"	-1	"ZNF677"	"HGNC"	28730	"protein_coding"	"YES"	"CCDS12861.1"	"ENSP00000334394"	"Q86XU0"	"M0R297"	"UPI000017DF85"	""	NA	NA	""	""	""	"T:0.3171"	"T:0.3442"	"T:0.2752"	NA	"T:0.3661"	"T:0.2932"	"T:0.2843"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"9763375e-280f-11e6-ab45-0e33424a729f"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4112"	"ZNF813"	126017	"mskcc.org"	"GRCh37"	"19"	53990240	53990241	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs756580019"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.142+229_142+230insAT"	""	""	"ENST00000396403"	""	25	"."	7	4	"."	0	"ZNF813,intron_variant,,ENST00000396403,NM_001004301.3;ZNF813,intron_variant,,ENST00000490956,;ZNF813,intron_variant,,ENST00000468450,;ZNF813,intron_variant,,ENST00000396421,;"	"TA"	"ENSG00000198346"	"ENST00000396403"	"Transcript"	"intron_variant"	"-/6151"	"-/1854"	"-/617"	""	""	"rs756580019"	"1"	NA	1	"ZNF813"	"HGNC"	33257	"protein_coding"	"YES"	"CCDS46172.1"	"ENSP00000379684"	"Q6ZN06"	"C9JZ01"	"UPI000040C511"	"NM_001004301.3"	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"9777601c-280f-11e6-ab45-0e33424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WXS"	FALSE
"4113"	"ZNF813"	126017	"mskcc.org"	"GRCh37"	"19"	53990248	53990249	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.142+237_142+238insAT"	""	""	"ENST00000396403"	""	26	"."	5	4	"."	0	"ZNF813,intron_variant,,ENST00000396403,NM_001004301.3;ZNF813,intron_variant,,ENST00000490956,;ZNF813,intron_variant,,ENST00000468450,;ZNF813,intron_variant,,ENST00000396421,;"	"TA"	"ENSG00000198346"	"ENST00000396403"	"Transcript"	"intron_variant"	"-/6151"	"-/1854"	"-/617"	""	""	""	"1"	NA	1	"ZNF813"	"HGNC"	33257	"protein_coding"	"YES"	"CCDS46172.1"	"ENSP00000379684"	"Q6ZN06"	"C9JZ01"	"UPI000040C511"	"NM_001004301.3"	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"977bdc8c-280f-11e6-ab45-0e33424a729f"	"260"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WXS"	FALSE
"4114"	"RNU6-803P"	0	"mskcc.org"	"GRCh37"	"19"	54224763	54224764	"+"	"5'Flank"	"INS"	"-"	"-"	"TTG"	"rs34600357"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516034"	""	15	"."	3	3	"."	0	"RNU6-803P,upstream_gene_variant,,ENST00000516034,;MIR520G,upstream_gene_variant,,ENST00000385064,;MIR521-2,downstream_gene_variant,,ENST00000384818,;MIR520D,downstream_gene_variant,,ENST00000385002,;MIR516B2,upstream_gene_variant,,ENST00000385190,;MIR517B,downstream_gene_variant,,ENST00000385102,;"	"TTG"	"ENSG00000251843"	"ENST00000516034"	"Transcript"	"upstream_gene_variant"	"-/102"	""	""	""	""	"rs34600357"	"1"	"2344"	-1	"RNU6-803P"	"HGNC"	47766	"snRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"979f7fd4-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"4115"	"NLRP12"	91662	"mskcc.org"	"GRCh37"	"19"	54297773	54297773	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs11340652"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3099-383delG"	""	""	"ENST00000324134"	""	8	"."	3	1	"."	0	"NLRP12,intron_variant,,ENST00000324134,NM_144687.3,NM_001277126.1;NLRP12,intron_variant,,ENST00000391773,;NLRP12,intron_variant,,ENST00000535162,;NLRP12,intron_variant,,ENST00000345770,;NLRP12,intron_variant,,ENST00000351894,;NLRP12,intron_variant,,ENST00000391775,NM_001277129.1;NLRP12,intron_variant,,ENST00000354278,;NLRP12,intron_variant,,ENST00000391772,;NLRP12,intron_variant,,ENST00000492915,;"	"-"	"ENSG00000142405"	"ENST00000324134"	"Transcript"	"intron_variant"	"-/3801"	"-/3186"	"-/1061"	""	""	"rs11340652"	"1"	NA	-1	"NLRP12"	"HGNC"	22938	"protein_coding"	"YES"	"CCDS12864.1"	"ENSP00000319377"	"P59046"	""	"UPI00001412CE"	"NM_144687.3,NM_001277126.1"	NA	NA	""	"9/9"	""	"C:0.4772"	"-:0.6021"	"-:0.4683"	NA	"-:0.3452"	"-:0.5219"	"-:0.638"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CACC"	"810ae628-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4116"	"MBOAT7"	79143	"mskcc.org"	"GRCh37"	"19"	54691899	54691900	"+"	"Intron"	"INS"	"-"	"-"	"AAAGAAAGAAAGAAAGAAAGAAAGAAAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.206+171_206+172insCTTTCTTTCTTTCTTTCTTTCTTTCTTT"	""	""	"ENST00000245615"	""	14	"."	3	8	"."	0	"MBOAT7,intron_variant,,ENST00000245615,NM_024298.3;MBOAT7,intron_variant,,ENST00000431666,NM_001146083.1;MBOAT7,intron_variant,,ENST00000338624,NM_001146056.1;MBOAT7,intron_variant,,ENST00000391754,NM_001146082.1;MBOAT7,intron_variant,,ENST00000414665,;MBOAT7,intron_variant,,ENST00000449249,;MBOAT7,intron_variant,,ENST00000453320,;MBOAT7,upstream_gene_variant,,ENST00000495279,;TSEN34,upstream_gene_variant,,ENST00000396383,;TSEN34,upstream_gene_variant,,ENST00000302937,NM_024075.3;TSEN34,upstream_gene_variant,,ENST00000396388,NM_001077446.2;TSEN34,upstream_gene_variant,,ENST00000429671,;TSEN34,upstream_gene_variant,,ENST00000455798,;TSEN34,upstream_gene_variant,,ENST00000456872,;MBOAT7,intron_variant,,ENST00000474910,;MBOAT7,intron_variant,,ENST00000495968,;MBOAT7,intron_variant,,ENST00000437868,;MBOAT7,intron_variant,,ENST00000491216,;MBOAT7,intron_variant,,ENST00000464098,;TSEN34,upstream_gene_variant,,ENST00000496583,;"	"AAAGAAAGAAAGAAAGAAAGAAAGAAAG"	"ENSG00000125505"	"ENST00000245615"	"Transcript"	"intron_variant"	"-/2529"	"-/1419"	"-/472"	""	""	""	"1"	NA	-1	"MBOAT7"	"HGNC"	15505	"protein_coding"	"YES"	"CCDS12883.1"	"ENSP00000245615"	"Q96N66"	"C9J4E9,A9C4B8"	"UPI000013CBAC"	"NM_024298.3"	NA	NA	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"97effd74-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"4117"	"RDH13"	112724	"mskcc.org"	"GRCh37"	"19"	55567838	55567839	"+"	"Intron"	"INS"	"-"	"-"	"AATA"	"rs3060075"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.340+179_340+182dupTATT"	""	""	"ENST00000415061"	""	14	"."	6	2	"."	0	"RDH13,intron_variant,,ENST00000396247,NM_138412.3;RDH13,intron_variant,,ENST00000415061,NM_001145971.1;RDH13,downstream_gene_variant,,ENST00000587026,;RDH13,downstream_gene_variant,,ENST00000586945,;RDH13,intron_variant,,ENST00000589605,;RDH13,intron_variant,,ENST00000589305,;CTC-550B14.6,upstream_gene_variant,,ENST00000585492,;RDH13,intron_variant,,ENST00000291892,;RDH13,intron_variant,,ENST00000592573,;RDH13,intron_variant,,ENST00000591960,;RDH13,intron_variant,,ENST00000587721,;"	"AATA"	"ENSG00000160439"	"ENST00000415061"	"Transcript"	"intron_variant"	"-/1871"	"-/996"	"-/331"	""	""	"rs3060075"	"1"	NA	-1	"RDH13"	"HGNC"	19978	"protein_coding"	"YES"	"CCDS54320.1"	"ENSP00000391121"	"Q8NBN7"	"K7EQB5,K7EMY5,G8JLA1"	"UPI000003F042"	"NM_001145971.1"	NA	NA	""	"3/6"	""	"-:0.1040"	"AATA:0.9289"	"AATA:0.9121"	NA	"AATA:0.9683"	"AATA:0.8479"	"AATA:0.8149"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"986950ca-280f-11e6-ab45-0e33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4118"	"RDH13"	112724	"mskcc.org"	"GRCh37"	"19"	55577830	55577860	"+"	"5'Flank"	"DEL"	"TTCCTCTCTCTCTTCCTCTGTCCTCTTTTCT"	"TTCCTCTCTCTCTTCCTCTGTCCTCTTTTCT"	"CTTCCTCTGTCCTCTTT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTCCTCTCTCTCTTCCTCTGTCCTCTTTTCT"	"TTCCTCTCTCTCTTCCTCTGTCCTCTTTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000415061"	""	11	"."	4	6	"."	0	"RDH13,intron_variant,,ENST00000396247,NM_138412.3;RDH13,intron_variant,,ENST00000587026,;RDH13,intron_variant,,ENST00000586945,;RDH13,upstream_gene_variant,,ENST00000415061,NM_001145971.1;RDH13,intron_variant,,ENST00000589197,;RDH13,intron_variant,,ENST00000587373,;RDH13,intron_variant,,ENST00000593134,;RDH13,intron_variant,,ENST00000587046,;RDH13,intron_variant,,ENST00000591023,;RDH13,intron_variant,,ENST00000590349,;RDH13,intron_variant,,ENST00000588306,;RDH13,downstream_gene_variant,,ENST00000588941,;RDH13,upstream_gene_variant,,ENST00000589305,;RDH13,upstream_gene_variant,,ENST00000591603,;RDH13,upstream_gene_variant,,ENST00000291892,;RDH13,upstream_gene_variant,,ENST00000592573,;RDH13,upstream_gene_variant,,ENST00000591960,;RDH13,upstream_gene_variant,,ENST00000587721,;"	"CTTCCTCTGTCCTCTT"	"ENSG00000160439"	"ENST00000415061"	"Transcript"	"upstream_gene_variant"	"-/1871"	"-/996"	"-/331"	""	""	""	"1"	"3286"	-1	"RDH13"	"HGNC"	19978	"protein_coding"	"YES"	"CCDS54320.1"	"ENSP00000391121"	"Q8NBN7"	"K7EQB5,K7EMY5,G8JLA1"	"UPI000003F042"	"NM_001145971.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTCCTCTCTCTCTTCCTCTGTCCTCTTTTCTC"	"85b8e544-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4119"	"RDH13"	112724	"mskcc.org"	"GRCh37"	"19"	55577920	55577921	"+"	"5'Flank"	"INS"	"-"	"-"	"CT"	"rs143886847"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000415061"	""	18	"."	5	6	"."	0	"RDH13,intron_variant,,ENST00000396247,NM_138412.3;RDH13,intron_variant,,ENST00000587026,;RDH13,intron_variant,,ENST00000586945,;RDH13,upstream_gene_variant,,ENST00000415061,NM_001145971.1;RDH13,intron_variant,,ENST00000589197,;RDH13,intron_variant,,ENST00000587373,;RDH13,intron_variant,,ENST00000593134,;RDH13,intron_variant,,ENST00000587046,;RDH13,intron_variant,,ENST00000591023,;RDH13,intron_variant,,ENST00000590349,;RDH13,intron_variant,,ENST00000588306,;RDH13,downstream_gene_variant,,ENST00000588941,;RDH13,upstream_gene_variant,,ENST00000589305,;RDH13,upstream_gene_variant,,ENST00000591603,;RDH13,upstream_gene_variant,,ENST00000291892,;RDH13,upstream_gene_variant,,ENST00000592573,;RDH13,upstream_gene_variant,,ENST00000591960,;RDH13,upstream_gene_variant,,ENST00000587721,;"	"CT"	"ENSG00000160439"	"ENST00000415061"	"Transcript"	"upstream_gene_variant"	"-/1871"	"-/996"	"-/331"	""	""	"rs143886847"	"1"	"3376"	-1	"RDH13"	"HGNC"	19978	"protein_coding"	"YES"	"CCDS54320.1"	"ENSP00000391121"	"Q8NBN7"	"K7EQB5,K7EMY5,G8JLA1"	"UPI000003F042"	"NM_001145971.1"	NA	NA	""	""	""	"-:0.3185"	"CT:0.7322"	"CT:0.7017"	NA	"CT:0.6944"	"CT:0.7207"	"CT:0.545"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"98730e08-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"4120"	"PTPRH"	5794	"mskcc.org"	"GRCh37"	"19"	55717861	55717862	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs575318450"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.352+195dupA"	""	""	"ENST00000376350"	""	13	"."	3	3	"."	0	"PTPRH,intron_variant,,ENST00000376350,NM_002842.3;PTPRH,intron_variant,,ENST00000263434,NM_001161440.1;PTPRH,intron_variant,,ENST00000588559,;PTPRH,intron_variant,,ENST00000586852,;PTPRH,intron_variant,,ENST00000586310,;PTPRH,intron_variant,,ENST00000588370,;PTPRH,intron_variant,,ENST00000587662,;"	"T"	"ENSG00000080031"	"ENST00000376350"	"Transcript"	"intron_variant"	"-/3877"	"-/3348"	"-/1115"	""	""	"rs575318450"	"1"	NA	-1	"PTPRH"	"HGNC"	9672	"protein_coding"	"YES"	"CCDS33110.1"	"ENSP00000365528"	"Q9HD43"	""	"UPI000006EDE6"	"NM_002842.3"	NA	NA	""	"3/19"	""	"T:0.1158"	"T:0.1218"	"T:0.1052"	NA	"T:0.1002"	"T:0.0944"	"T:0.1534"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"9895da78-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"4121"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	55934589	55934590	"+"	"IGR"	"INS"	"-"	"-"	"TTG"	"rs149876814"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	5	1	"."	0	""	"TTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs149876814"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TTG:0.4341"	"TTG:0.5877"	"TTG:0.4712"	NA	"TTG:0.1786"	"TTG:0.4553"	"TTG:0.4417"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"98c7b70a-280f-11e6-ab45-0e33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4122"	"U2AF2"	11338	"mskcc.org"	"GRCh37"	"19"	56172866	56172873	"+"	"Intron"	"DEL"	"ACACACAC"	"ACACACAC"	"-"	"rs72475504"	NA	"JHCCPT5"	"JHCCPN5"	"ACACACAC"	"ACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.486+346_486+353delCACACACA"	""	""	"ENST00000308924"	""	13	"."	4	4	"."	0	"U2AF2,intron_variant,,ENST00000450554,NM_007279.2,NM_001012478.1;U2AF2,intron_variant,,ENST00000308924,;U2AF2,upstream_gene_variant,,ENST00000590551,;CTD-2537I9.12,downstream_gene_variant,,ENST00000589456,;CTD-2537I9.12,downstream_gene_variant,,ENST00000585940,;U2AF2,intron_variant,,ENST00000592874,;U2AF2,intron_variant,,ENST00000587196,;U2AF2,downstream_gene_variant,,ENST00000588850,;U2AF2,upstream_gene_variant,,ENST00000587275,;U2AF2,downstream_gene_variant,,ENST00000592867,;"	"-"	"ENSG00000063244"	"ENST00000308924"	"Transcript"	"intron_variant"	"-/1698"	"-/1428"	"-/475"	""	""	"rs72475504"	"1"	NA	1	"U2AF2"	"HGNC"	23156	"protein_coding"	"YES"	"CCDS12933.1"	"ENSP00000307863"	"P26368"	""	"UPI0000137924"	""	NA	NA	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"35"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGACACACACA"	"830e0ca2-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"4123"	"NLRP5"	126206	"mskcc.org"	"GRCh37"	"19"	56564762	56564763	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs34998450"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3129-234dupA"	""	""	"ENST00000390649"	""	11	"."	7	2	"."	0	"NLRP5,intron_variant,,ENST00000390649,NM_153447.4;"	"A"	"ENSG00000171487"	"ENST00000390649"	"Transcript"	"intron_variant"	"-/3888"	"-/3603"	"-/1200"	""	""	"rs34998450"	"1"	NA	1	"NLRP5"	"HGNC"	21269	"protein_coding"	"YES"	"CCDS12938.1"	"ENSP00000375063"	"P59047"	""	"UPI00001AEEBD"	"NM_153447.4"	NA	NA	""	"12/14"	""	"A:0.3566"	"A:0.3185"	"A:0.4467"	NA	"A:0.3899"	"A:0.3042"	"A:0.364"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"9923aae2-280f-11e6-ab45-0e33424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.636363636363636	"WXS"	FALSE
"4124"	"ZNF787"	126208	"mskcc.org"	"GRCh37"	"19"	56622566	56622576	"+"	"Intron"	"DEL"	"CCAGGCCACAG"	"CCAGGCCACAG"	"-"	"rs151229831"	NA	"JHCCPT5"	"JHCCPN5"	"CCAGGCCACAG"	"CCAGGCCACAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10-7980_-10-7970delCTGTGGCCTGG"	""	""	"ENST00000270459"	""	9	"."	4	3	"."	0	"ZNF787,intron_variant,,ENST00000270459,NM_001002836.2;ZNF787,intron_variant,,ENST00000587279,;"	"-"	"ENSG00000142409"	"ENST00000270459"	"Transcript"	"intron_variant"	"-/1928"	"-/1152"	"-/383"	""	""	"rs151229831"	"1"	NA	-1	"ZNF787"	"HGNC"	26998	"protein_coding"	"YES"	"CCDS42634.1"	"ENSP00000270459"	"Q6DD87"	"M0R0X7"	"UPI00001C2014"	"NM_001002836.2"	NA	NA	""	"1/2"	""	"CCAGGCCACAG:0.1408"	"-:0.8638"	"-:0.7133"	NA	"-:0.7054"	"-:0.9821"	"-:0.9888"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCCAGGCCACAGC"	"83371048-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4125"	"ZSCAN5A"	79149	"mskcc.org"	"GRCh37"	"19"	56813886	56813889	"+"	"Intron"	"DEL"	"CCTC"	"CCTC"	"-"	"rs71184347"	NA	"JHCCPT5"	"JHCCPN5"	"CCTC"	"CCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-3+13394_-3+13397delGAGG"	""	""	"ENST00000587340"	""	18	"."	6	7	"."	0	"ZSCAN5A,intron_variant,,ENST00000587340,;ZSCAN5A,intron_variant,,ENST00000254165,;ZSCAN5A,intron_variant,,ENST00000587492,;ZSCAN5A,intron_variant,,ENST00000592679,;ZSCAN5A,intron_variant,,ENST00000593106,;ZSCAN5A,intron_variant,,ENST00000592509,;ZSCAN5A,intron_variant,,ENST00000588442,;ZSCAN5A,intron_variant,,ENST00000588955,;AC006116.20,intron_variant,,ENST00000593151,;AC006116.20,downstream_gene_variant,,ENST00000588026,;ZSCAN5A,intron_variant,,ENST00000589279,;ZSCAN5A,intron_variant,,ENST00000591078,;ZSCAN5A,intron_variant,,ENST00000587075,;ZSCAN5A,intron_variant,,ENST00000587614,;ZSCAN5A,intron_variant,,ENST00000590675,;AC006116.20,intron_variant,,ENST00000591188,;ZSCAN5A,intron_variant,,ENST00000585670,;AC006116.20,downstream_gene_variant,,ENST00000591810,;AC006116.20,intron_variant,,ENST00000587247,;AC006116.20,downstream_gene_variant,,ENST00000588154,;AC006116.20,downstream_gene_variant,,ENST00000593116,;"	"-"	"ENSG00000131848"	"ENST00000587340"	"Transcript"	"intron_variant"	"-/2450"	"-/1491"	"-/496"	""	""	"rs71184347"	"1"	NA	-1	"ZSCAN5A"	"HGNC"	23710	"protein_coding"	"YES"	"CCDS12941.1"	"ENSP00000467631"	"Q9BUG6"	"K7ESN6,K7ESE4,K7EQW6,K7EN85,K7EMC4,K7EIX9"	"UPI0000072024"	""	NA	NA	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCCTCC"	"8342dfa4-280f-11e6-ab45-0e33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4126"	"DUXA"	503835	"mskcc.org"	"GRCh37"	"19"	57667014	57667015	"+"	"Intron"	"INS"	"-"	"-"	"AGATAGATAGATAGATAGATAGAT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.439-298_439-275dupATCTATCTATCTATCTATCTATCT"	""	""	"ENST00000554048"	""	26	"."	3	7	"."	0	"DUXA,intron_variant,,ENST00000554048,NM_001012729.1;CTC-360J11.5,downstream_gene_variant,,ENST00000604851,;CTC-360J11.6,upstream_gene_variant,,ENST00000604182,;"	"AGATAGATAGATAGATAGATAGAT"	"ENSG00000258873"	"ENST00000554048"	"Transcript"	"intron_variant"	"-/1006"	"-/615"	"-/204"	""	""	""	"1"	NA	-1	"DUXA"	"HGNC"	32179	"protein_coding"	"YES"	"CCDS33126.1"	"ENSP00000452398"	"A6NLW8"	""	"UPI0000198B7E"	"NM_001012729.1"	NA	NA	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"994cab0e-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WXS"	FALSE
"4127"	"DUXA"	503835	"mskcc.org"	"GRCh37"	"19"	57667044	57667045	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.439-305dupA"	""	""	"ENST00000554048"	""	16	"."	4	5	"."	0	"DUXA,intron_variant,,ENST00000554048,NM_001012729.1;CTC-360J11.5,downstream_gene_variant,,ENST00000604851,;CTC-360J11.6,upstream_gene_variant,,ENST00000604182,;"	"T"	"ENSG00000258873"	"ENST00000554048"	"Transcript"	"intron_variant"	"-/1006"	"-/615"	"-/204"	""	""	""	"1"	NA	-1	"DUXA"	"HGNC"	32179	"protein_coding"	"YES"	"CCDS33126.1"	"ENSP00000452398"	"A6NLW8"	""	"UPI0000198B7E"	"NM_001012729.1"	NA	NA	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"994f9d14-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4128"	"ZNF587B"	100293516	"mskcc.org"	"GRCh37"	"19"	58342171	58342172	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs35720058"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.36+248dupA"	""	""	"ENST00000442832"	""	26	"."	3	13	"."	0	"ZNF587B,intron_variant,,ENST00000442832,NM_001204818.1;ZNF587B,intron_variant,,ENST00000594901,;ZNF587B,intron_variant,,ENST00000594328,;ZNF587B,intron_variant,,ENST00000316462,;CTD-2583A14.10,intron_variant,,ENST00000596498,;CTD-2583A14.10,intron_variant,,ENST00000598031,;CTD-2583A14.10,intron_variant,,ENST00000603271,;CTD-2583A14.10,intron_variant,,ENST00000593873,;CTD-2583A14.10,intron_variant,,ENST00000597134,;CTD-2583A14.10,intron_variant,,ENST00000604231,;AC010522.1,upstream_gene_variant,,ENST00000594588,;"	"A"	"ENSG00000269343"	"ENST00000442832"	"Transcript"	"intron_variant"	"-/3339"	"-/1209"	"-/402"	""	""	"rs35720058"	"1"	NA	1	"ZNF587B"	"HGNC"	37142	"protein_coding"	"YES"	"CCDS56109.1"	"ENSP00000392410"	"E7ETH6"	""	"UPI0001AE657B"	"NM_001204818.1"	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"998e6eae-280f-11e6-ab45-0e33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WXS"	FALSE
"4129"	"C19orf18"	147685	"mskcc.org"	"GRCh37"	"19"	58472623	58472624	"+"	"Intron"	"INS"	"-"	"-"	"AAGG"	"rs112154725"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.532+132_532+135dupCCTT"	""	""	"ENST00000314391"	""	52	"."	4	13	"."	0	"C19orf18,intron_variant,,ENST00000314391,NM_152474.4;"	"AAGG"	"ENSG00000177025"	"ENST00000314391"	"Transcript"	"intron_variant"	"-/915"	"-/648"	"-/215"	""	""	"rs112154725"	"1"	NA	-1	"C19orf18"	"HGNC"	28642	"protein_coding"	"YES"	"CCDS12967.1"	"ENSP00000321519"	"Q8NEA5"	""	"UPI000006D09E"	"NM_152474.4"	NA	NA	""	"5/5"	""	"AAGG:0.2169"	"AAGG:0.382"	"AAGG:0.2118"	NA	"AAGG:0.0992"	"AAGG:0.2227"	"AAGG:0.1125"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"99941b06-280f-11e6-ab45-0e33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WXS"	FALSE
"4130"	"ACP1"	52	"mskcc.org"	"GRCh37"	"2"	271998	271998	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.117+59delC"	""	""	"ENST00000272067"	""	275	"."	3	126	"."	0	"ACP1,intron_variant,,ENST00000272067,NM_007099.3;ACP1,intron_variant,,ENST00000272065,NM_004300.3;ACP1,intron_variant,,ENST00000405233,;ACP1,intron_variant,,ENST00000407983,NM_001040649.2;ACP1,intron_variant,,ENST00000439645,;ACP1,intron_variant,,ENST00000484464,;ACP1,intron_variant,,ENST00000480874,;ACP1,intron_variant,,ENST00000413140,;ACP1,intron_variant,,ENST00000453390,;ACP1,intron_variant,,ENST00000442386,;ACP1,intron_variant,,ENST00000405364,;ACP1,upstream_gene_variant,,ENST00000463831,;"	"-"	"ENSG00000143727"	"ENST00000272067"	"Transcript"	"intron_variant"	"-/1552"	"-/477"	"-/158"	""	""	""	"1"	NA	1	"ACP1"	"HGNC"	122	"protein_coding"	"YES"	"CCDS1640.1"	"ENSP00000272067"	"P24666"	""	"UPI0000000C82"	"NM_007099.3"	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCA"	"6460aabc-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0109090909090909	"WXS"	FALSE
"4131"	"SNTG2"	54221	"mskcc.org"	"GRCh37"	"2"	1050622	1050623	"+"	"Intron"	"INS"	"-"	"-"	"TTTTGT"	"rs113103411"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.73-28565_73-28560dupGTTTTT"	""	""	"ENST00000308624"	""	9	"."	5	2	"."	0	"SNTG2,intron_variant,,ENST00000308624,NM_018968.3;SNTG2,intron_variant,,ENST00000407292,;AC114808.3,downstream_gene_variant,,ENST00000437132,;SNTG2,intron_variant,,ENST00000452177,;SNTG2,intron_variant,,ENST00000450962,;"	"TTTTGT"	"ENSG00000172554"	"ENST00000308624"	"Transcript"	"intron_variant"	"-/1888"	"-/1620"	"-/539"	""	""	"rs113103411"	"1"	NA	1	"SNTG2"	"HGNC"	13741	"protein_coding"	"YES"	"CCDS46220.1"	"ENSP00000311837"	"Q9NY99"	""	"UPI0000456D73"	"NM_018968.3"	NA	NA	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"22"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"919930da-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"4132"	"DCDC2C"	728597	"mskcc.org"	"GRCh37"	"2"	3754143	3754144	"+"	"Intron"	"INS"	"-"	"-"	"GT"	"rs10640168"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.177-1985_177-1984dupGT"	""	""	"ENST00000423741"	""	6	"."	3	3	"."	0	"DCDC2C,intron_variant,,ENST00000423741,NM_001287444.1;ALLC,downstream_gene_variant,,ENST00000252505,NM_018436.3;AC010907.5,upstream_gene_variant,,ENST00000441632,;ALLC,downstream_gene_variant,,ENST00000471711,;ALLC,downstream_gene_variant,,ENST00000476389,;"	"GT"	"ENSG00000214866"	"ENST00000423741"	"Transcript"	"intron_variant"	"-/895"	"-/895"	"-/298"	""	""	"rs10640168"	"1"	NA	1	"DCDC2C"	"HGNC"	32696	"protein_coding"	"YES"	""	"ENSP00000403984"	""	"H7C242"	"UPI000173A39B"	"NM_001287444.1"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"12"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"91e28258-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4133"	"DCDC2C"	728597	"mskcc.org"	"GRCh37"	"2"	3836381	3836389	"+"	"3'Flank"	"DEL"	"TCCCTTCCT"	"TCCCTTCCT"	"-"	"rs372027767"	NA	"JHCCPT5"	"JHCCPN5"	"TCCCTTCCT"	"TCCCTTCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000537457"	""	6	"."	3	2	"."	0	"DCDC2C,downstream_gene_variant,,ENST00000537457,;"	"-"	"ENSG00000214866"	"ENST00000537457"	"Transcript"	"downstream_gene_variant"	"-/716"	""	""	""	""	"rs372027767"	"1"	"259"	1	"DCDC2C"	"HGNC"	32696	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1208"	"-:0.003"	"-:0.1441"	NA	"-:0.2718"	"-:0.1412"	"-:0.0869"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTCCCTTCCTT"	"64c56876-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4134"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	4499740	4499741	"+"	"IGR"	"INS"	"-"	"-"	"TCC"	"rs150102282"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	44	"."	5	18	"."	0	""	"TCC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150102282"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3998"	"TCC:0.5734"	"TCC:0.7118"	NA	"TCC:0.3889"	"TCC:0.7336"	"TCC:0.638"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"91e82370-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WXS"	FALSE
"4135"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	8538608	8538609	"+"	"IGR"	"INS"	"-"	"-"	"ACATGC"	"rs140901565"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	3	"."	0	""	"ACATGC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140901565"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"9241bbe2-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"4136"	"CPSF3"	51692	"mskcc.org"	"GRCh37"	"2"	9572473	9572474	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs34229646"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.342-157dupA"	""	""	"ENST00000238112"	""	79	"."	35	7	"."	1	"CPSF3,intron_variant,,ENST00000460593,;CPSF3,intron_variant,,ENST00000238112,NM_016207.3;CPSF3,intron_variant,,ENST00000475482,;"	"A"	"ENSG00000119203"	"ENST00000238112"	"Transcript"	"intron_variant"	"-/2345"	"-/2055"	"-/684"	""	""	"rs34229646"	"1"	NA	1	"CPSF3"	"HGNC"	2326	"protein_coding"	"YES"	"CCDS1664.1"	"ENSP00000238112"	"Q9UKF6"	"G5E9W3,C9JZH6"	"UPI00001282F5"	"NM_016207.3"	NA	NA	""	"4/17"	""	"A:0.4499"	"A:0.7269"	"A:0.3847"	NA	"A:0.0575"	"A:0.5616"	"A:0.411"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"926f021e-280f-11e6-b562-0633424a729f"	"2160"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.443037974683544	"WXS"	FALSE
"4137"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	10620679	10620680	"+"	"IGR"	"DEL"	"TT"	"TT"	"-"	"rs144511289"	NA	"JHCCPT5"	"JHCCPN5"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	22	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144511289"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTT"	"65f5243e-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"4138"	"PDIA6"	10130	"mskcc.org"	"GRCh37"	"2"	10953063	10953063	"+"	"5'Flank"	"DEL"	"T"	"T"	"-"	"rs17552858"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000272227"	""	21	"."	7	5	"."	0	"PDIA6,intron_variant,,ENST00000404371,NM_001282704.1;PDIA6,intron_variant,,ENST00000404824,NM_001282705.1;PDIA6,intron_variant,,ENST00000381611,NM_001282706.1;PDIA6,upstream_gene_variant,,ENST00000272227,NM_005742.2;PDIA6,upstream_gene_variant,,ENST00000540494,NM_001282707.1;RNU7-176P,downstream_gene_variant,,ENST00000458792,;PDIA6,upstream_gene_variant,,ENST00000489662,;"	"-"	"ENSG00000143870"	"ENST00000272227"	"Transcript"	"upstream_gene_variant"	"-/2338"	"-/1323"	"-/440"	""	""	"rs17552858"	"1"	"93"	-1	"PDIA6"	"HGNC"	30168	"protein_coding"	"YES"	"CCDS1675.1"	"ENSP00000272227"	"Q15084"	""	"UPI000013148C"	"NM_005742.2"	NA	NA	""	""	""	"-:0.4547"	"-:0.177"	"-:0.5245"	NA	"-:0.4623"	"-:0.5865"	"-:0.637"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTT"	"661fc86a-280f-11e6-b562-0633424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4139"	"PQLC3"	130814	"mskcc.org"	"GRCh37"	"2"	11318191	11318192	"+"	"3'UTR"	"INS"	"-"	"-"	"AGA"	"rs3832138"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*239_*240insAAG"	""	""	"ENST00000295083"	"7/7"	33	"."	7	6	"."	0	"PQLC3,3_prime_UTR_variant,,ENST00000295083,NM_152391.3;PQLC3,3_prime_UTR_variant,,ENST00000441908,NM_001282710.1;PQLC3,3_prime_UTR_variant,,ENST00000428481,;ROCK2,downstream_gene_variant,,ENST00000315872,NM_004850.3;PQLC3,downstream_gene_variant,,ENST00000402361,NM_001282711.1;PQLC3,non_coding_transcript_exon_variant,,ENST00000487471,;PQLC3,downstream_gene_variant,,ENST00000445921,;"	"AGA"	"ENSG00000162976"	"ENST00000295083"	"Transcript"	"3_prime_UTR_variant"	"1021-1022/1830"	"-/609"	"-/202"	""	""	"rs3832138"	"1"	NA	1	"PQLC3"	"HGNC"	28503	"protein_coding"	"YES"	"CCDS1679.1"	"ENSP00000295083"	"Q8N755"	""	"UPI0000070DA0"	"NM_152391.3"	NA	NA	"7/7"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"92e8428c-280f-11e6-b562-0633424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212121212121212	"WXS"	FALSE
"4140"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	12958646	12958647	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs11431051"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	3	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11431051"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3646"	"A:0.6362"	"A:0.5043"	NA	"A:0.8462"	"A:0.5109"	"A:0.638"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"93192db6-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4141"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	15241617	15241618	"+"	"IGR"	"INS"	"-"	"-"	"AATT"	"rs149450608"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"AATT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs149450608"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0198"	"AATT:0.9947"	"AATT:0.9813"	NA	"AATT:1"	"AATT:0.9592"	"AATT:0.9611"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"9325ca8a-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4142"	"NBAS"	51594	"mskcc.org"	"GRCh37"	"2"	15618164	15618165	"+"	"Intron"	"INS"	"-"	"-"	"ATGCTGCATACATACCCTAGGCTCTGACCT"	"rs6146644"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1147+185_1147+186insAGGTCAGAGCCTAGGGTATGTATGCAGCAT"	""	""	"ENST00000281513"	""	21	"."	3	3	"."	0	"NBAS,intron_variant,,ENST00000281513,NM_015909.3;NBAS,intron_variant,,ENST00000441750,;NBAS,downstream_gene_variant,,ENST00000427792,;"	"ATGCTGCATACATACCCTAGGCTCTGACCT"	"ENSG00000151779"	"ENST00000281513"	"Transcript"	"intron_variant"	"-/7281"	"-/7116"	"-/2371"	""	""	"rs6146644"	"1"	NA	-1	"NBAS"	"HGNC"	15625	"protein_coding"	"YES"	"CCDS1685.1"	"ENSP00000281513"	"A2RRP1"	"Q4ZG05,H7C007"	"UPI00001AEA68"	"NM_015909.3"	NA	NA	""	"13/51"	""	"-:0.4684"	"ATGCTGCATACATACCCTAGGCTCTGACCT:0.593"	"ATGCTGCATACATACCCTAGGCTCTGACCT:0.6239"	NA	"ATGCTGCATACATACCCTAGGCTCTGACCT:0.2222"	"ATGCTGCATACATACCCTAGGCTCTGACCT:0.6928"	"ATGCTGCATACATACCCTAGGCTCTGACCT:0.5358"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"934ff90e-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"4143"	"GEN1"	348654	"mskcc.org"	"GRCh37"	"2"	17959405	17959406	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs143973077"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1264+90_1264+91dupTA"	""	""	"ENST00000381254"	""	118	"."	3	43	"."	0	"GEN1,intron_variant,,ENST00000381254,NM_001130009.1;GEN1,intron_variant,,ENST00000317402,NM_182625.3;SMC6,intron_variant,,ENST00000402989,;GEN1,intron_variant,,ENST00000528873,;SMC6,intron_variant,,ENST00000428868,;GEN1,downstream_gene_variant,,ENST00000534451,;"	"TA"	"ENSG00000178295"	"ENST00000381254"	"Transcript"	"intron_variant"	"-/6367"	"-/2727"	"-/908"	""	""	"rs143973077"	"1"	NA	1	"GEN1"	"HGNC"	26881	"protein_coding"	"YES"	"CCDS1691.1"	"ENSP00000370653"	"Q17RS7"	"E9PM30,E9PLG0"	"UPI00004113DA"	"NM_001130009.1"	NA	NA	""	"12/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"937b5a18-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0254237288135593	"WXS"	FALSE
"4144"	"MATN3"	4148	"mskcc.org"	"GRCh37"	"2"	20212474	20212475	"+"	"5'Flank"	"INS"	"-"	"-"	"GCCCCGCCCC"	"rs375765000"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000407540"	""	29	"."	13	7	"."	0	"MATN3,upstream_gene_variant,,ENST00000407540,NM_002381.4;MATN3,upstream_gene_variant,,ENST00000421259,;"	"GCCCCGCCCC"	"ENSG00000132031"	"ENST00000407540"	"Transcript"	"upstream_gene_variant"	"-/2524"	"-/1461"	"-/486"	""	""	"rs375765000"	"1"	"19"	-1	"MATN3"	"HGNC"	6909	"protein_coding"	"YES"	"CCDS46226.1"	"ENSP00000383894"	"O15232"	""	"UPI000012F809"	"NM_002381.4"	NA	NA	""	""	""	"-:0.2560"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"939630d6-280f-11e6-b562-0633424a729f"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.448275862068966	"WXS"	FALSE
"4145"	"MATN3"	4148	"mskcc.org"	"GRCh37"	"2"	20212701	20212701	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"rs113917580"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000407540"	""	8	"."	4	2	"."	0	"MATN3,upstream_gene_variant,,ENST00000407540,NM_002381.4;MATN3,upstream_gene_variant,,ENST00000421259,;"	"-"	"ENSG00000132031"	"ENST00000407540"	"Transcript"	"upstream_gene_variant"	"-/2524"	"-/1461"	"-/486"	""	""	"rs113917580"	"1"	"246"	-1	"MATN3"	"HGNC"	6909	"protein_coding"	"YES"	"CCDS46226.1"	"ENSP00000383894"	"O15232"	""	"UPI000012F809"	"NM_002381.4"	NA	NA	""	""	""	"-:0.3267"	"-:0.3253"	"-:0.2219"	NA	"-:0.4772"	"-:0.1869"	"-:0.3916"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCAG"	"671e025e-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4146"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	21399965	21399965	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs5829775"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5829775"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.1957"	"-:0.6377"	"-:0.8329"	NA	"-:0.9861"	"-:0.7694"	"-:0.8579"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"6778afce-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4147"	"AC016768.1"	0	"mskcc.org"	"GRCh37"	"2"	23346719	23346720	"+"	"Intron"	"INS"	"-"	"-"	"AATG"	"rs150937786"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.249-33004_249-33001dupCATT"	""	""	"ENST00000440785"	""	6	"."	4	4	"."	0	"AC016768.1,intron_variant,,ENST00000440785,;"	"AATG"	"ENSG00000232451"	"ENST00000440785"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/506"	""	""	""	""	"rs150937786"	"1"	NA	-1	"AC016768.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"93c54042-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4148"	"ATAD2B"	54454	"mskcc.org"	"GRCh37"	"2"	23980109	23980110	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs140633899"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4078+178_4078+179delCA"	""	""	"ENST00000238789"	""	63	"."	3	25	"."	0	"ATAD2B,intron_variant,,ENST00000238789,NM_001242338.1,NM_017552.2;ATAD2B,intron_variant,,ENST00000381024,;ATAD2B,intron_variant,,ENST00000474583,;ATAD2B,upstream_gene_variant,,ENST00000486610,;"	"-"	"ENSG00000119778"	"ENST00000238789"	"Transcript"	"intron_variant"	"-/8103"	"-/4377"	"-/1458"	""	""	"rs140633899"	"1"	NA	-1	"ATAD2B"	"HGNC"	29230	"protein_coding"	"YES"	"CCDS46227.1"	"ENSP00000238789"	"Q9ULI0"	"B3KWS5"	"UPI00006C0425"	"NM_001242338.1,NM_017552.2"	NA	NA	""	"25/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"67a66b62-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0476190476190476	"WXS"	FALSE
"4149"	"ATAD2B"	54454	"mskcc.org"	"GRCh37"	"2"	24098387	24098388	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs113477363"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.977+311dupT"	""	""	"ENST00000238789"	""	20	"."	7	2	"."	0	"ATAD2B,intron_variant,,ENST00000238789,NM_001242338.1,NM_017552.2;ATAD2B,intron_variant,,ENST00000439915,;PGAM1P6,upstream_gene_variant,,ENST00000425684,;"	"A"	"ENSG00000119778"	"ENST00000238789"	"Transcript"	"intron_variant"	"-/8103"	"-/4377"	"-/1458"	""	""	"rs113477363"	"1"	NA	-1	"ATAD2B"	"HGNC"	29230	"protein_coding"	"YES"	"CCDS46227.1"	"ENSP00000238789"	"Q9ULI0"	"B3KWS5"	"UPI00006C0425"	"NM_001242338.1,NM_017552.2"	NA	NA	""	"8/27"	""	"-:0.0110"	"A:0.9592"	"A:0.9986"	NA	"A:1"	"A:1"	"A:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"93d4ee8e-280f-11e6-b562-0633424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WXS"	FALSE
"4150"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	24592630	24592631	"+"	"IGR"	"INS"	"-"	"-"	"TTTTTGAGA"	"rs113376372"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	2	"."	0	""	"TTTTTGAGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113376372"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1603"	"TTTTTGAGA:0.8185"	"TTTTTGAGA:0.8329"	NA	"TTTTTGAGA:0.8601"	"TTTTTGAGA:0.8688"	"TTTTTGAGA:0.8221"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"93fb57e0-280f-11e6-b562-0633424a729f"	"208"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4151"	"GAREML"	150946	"mskcc.org"	"GRCh37"	"2"	26401758	26401759	"+"	"Intron"	"INS"	"-"	"-"	"GGAGGCGGAGGAGGAGGC"	"rs577641882"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.253+2416_253+2417insAGGAGGCGGAGGCGGAGG"	""	""	"ENST00000401533"	""	14	"."	4	4	"."	0	"GAREML,intron_variant,,ENST00000401533,NM_001168241.1;GAREML,upstream_gene_variant,,ENST00000407684,NM_001191033.1;"	"GGAGGCGGAGGAGGAGGC"	"ENSG00000157833"	"ENST00000401533"	"Transcript"	"intron_variant"	"-/4161"	"-/2625"	"-/874"	""	""	"rs577641882"	"1"	NA	1	"GAREML"	"HGNC"	27172	"protein_coding"	"YES"	"CCDS54336.1"	"ENSP00000384593"	"Q75VX8"	""	"UPI0000237273"	"NM_001168241.1"	NA	NA	""	"2/5"	""	"GGAGGCGGAGGAGGAGGC:0.4105"	"GGAGGCGGAGGAGGAGGC:0.5008"	"GGAGGCGGAGGAGGAGGC:0.4078"	NA	"GGAGGCGGAGGAGGAGGC:0.0357"	"GGAGGCGGAGGAGGAGGC:0.5716"	"GGAGGCGGAGGAGGAGGC:0.5112"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"11"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"9434d984-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"4152"	"CIB4"	130106	"mskcc.org"	"GRCh37"	"2"	26833829	26833830	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11401771"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.187-15645dupC"	""	""	"ENST00000288861"	""	8	"."	5	1	"."	0	"CIB4,intron_variant,,ENST00000288861,NM_001029881.1;CIB4,intron_variant,,ENST00000405346,;"	"G"	"ENSG00000157884"	"ENST00000288861"	"Transcript"	"intron_variant"	"-/773"	"-/558"	"-/185"	""	""	"rs11401771"	"1"	NA	-1	"CIB4"	"HGNC"	33703	"protein_coding"	"YES"	"CCDS33160.1"	"ENSP00000288861"	"A0PJX0"	""	"UPI0000160176"	"NM_001029881.1"	NA	NA	""	"3/6"	""	"-:0.3357"	"G:0.7973"	"G:0.7464"	NA	"G:0.5357"	"G:0.6471"	"G:0.5767"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"94418c92-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4153"	"CLIP4"	79745	"mskcc.org"	"GRCh37"	"2"	29375255	29375255	"+"	"Intron"	"DEL"	"A"	"-"	"-"	"rs35592808"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1022-289delA"	""	""	"ENST00000320081"	""	6	"."	5	1	"."	0	"CLIP4,intron_variant,,ENST00000320081,NM_024692.4,NM_001287527.1;CLIP4,intron_variant,,ENST00000404424,;CLIP4,intron_variant,,ENST00000401605,NM_001287528.1;CLIP4,intron_variant,,ENST00000401617,;CLIP4,intron_variant,,ENST00000456385,;CLIP4,intron_variant,,ENST00000415891,;"	"-"	"ENSG00000115295"	"ENST00000320081"	"Transcript"	"intron_variant"	"-/4293"	"-/2118"	"-/705"	""	""	"rs35592808"	"1"	NA	1	"CLIP4"	"HGNC"	26108	"protein_coding"	"YES"	"CCDS1770.1"	"ENSP00000327009"	"Q8N3C7"	"Q53QT5,Q4ZFY2,E7EW06,C9IYE4,A8K6D0"	"UPI000006F0E8"	"NM_024692.4,NM_001287527.1"	NA	NA	""	"8/15"	""	"-:0.2704"	"-:0.18"	"-:0.3372"	NA	"-:0.0476"	"-:0.5308"	"-:0.3067"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"6aa497d0-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4154"	"CAPN13"	92291	"mskcc.org"	"GRCh37"	"2"	30981889	30981912	"+"	"Intron"	"DEL"	"CTTCCTTCCCTCCCTCCCTCCTTC"	"CTTCCTTCCCTCCCTCCCTCCTTC"	"-"	"rs763515838"	NA	"JHCCPT5"	"JHCCPN5"	"CTTCCTTCCCTCCCTCCCTCCTTC"	"CTTCCTTCCCTCCCTCCCTCCTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.775-909_775-886delGAAGGAGGGAGGGAGGGAAGGAAG"	""	""	"ENST00000295055"	""	15	"."	3	4	"."	0	"CAPN13,intron_variant,,ENST00000295055,NM_144575.2;CAPN13,intron_variant,,ENST00000534090,;CAPN13,intron_variant,,ENST00000465960,;CAPN13,intron_variant,,ENST00000458085,;"	"-"	"ENSG00000162949"	"ENST00000295055"	"Transcript"	"intron_variant"	"-/2683"	"-/2010"	"-/669"	""	""	"rs763515838"	"1"	NA	-1	"CAPN13"	"HGNC"	16663	"protein_coding"	"YES"	"CCDS46252.1"	"ENSP00000295055"	"Q6MZZ7"	""	"UPI00000463E5"	"NM_144575.2"	NA	NA	""	"7/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTTCCTTCCCTCCCTCCCTCCTTCC"	"6ac3b6ec-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"4155"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	31118212	31118212	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs36087139"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs36087139"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.4972"	"-:0.5038"	"-:0.4712"	NA	"-:0.5407"	"-:0.4732"	"-:0.5153"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTG"	"6ac778b8-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4156"	"AL133247.2"	0	"mskcc.org"	"GRCh37"	"2"	31751166	31751167	"+"	"5'Flank"	"INS"	"-"	"-"	"ATATATACATATATAT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000435713"	""	74	"."	4	23	"."	0	"AL133247.2,upstream_gene_variant,,ENST00000435713,;SRD5A2,non_coding_transcript_exon_variant,,ENST00000405650,;SRD5A2,non_coding_transcript_exon_variant,,ENST00000233139,;"	"ATATATACATATATAT"	"ENSG00000228563"	"ENST00000435713"	"Transcript"	"upstream_gene_variant"	"-/646"	""	""	""	""	""	"1"	"845"	1	"AL133247.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"9564010e-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0540540540540541	"WXS"	FALSE
"4157"	"AL133247.2"	0	"mskcc.org"	"GRCh37"	"2"	31751166	31751167	"+"	"5'Flank"	"INS"	"-"	"-"	"ATATATACATATATATAT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000435713"	""	79	"."	12	23	"."	0	"AL133247.2,upstream_gene_variant,,ENST00000435713,;SRD5A2,non_coding_transcript_exon_variant,,ENST00000405650,;SRD5A2,non_coding_transcript_exon_variant,,ENST00000233139,;"	"ATATATACATATATATAT"	"ENSG00000228563"	"ENST00000435713"	"Transcript"	"upstream_gene_variant"	"-/646"	""	""	""	""	""	"1"	"845"	1	"AL133247.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"9568be74-280f-11e6-b562-0633424a729f"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151898734177215	"WXS"	FALSE
"4158"	"SLC30A6"	55676	"mskcc.org"	"GRCh37"	"2"	32400680	32400684	"+"	"Intron"	"DEL"	"AAAGT"	"AAAGT"	"-"	"rs144922892"	NA	"JHCCPT5"	"JHCCPN5"	"AAAGT"	"AAAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.218+252_218+256delAGTAA"	""	""	"ENST00000379343"	""	18	"."	4	2	"."	0	"SLC30A6,intron_variant,,ENST00000282587,NM_017964.3;SLC30A6,intron_variant,,ENST00000406369,;SLC30A6,intron_variant,,ENST00000435660,NM_001193514.1;SLC30A6,intron_variant,,ENST00000357055,;SLC30A6,intron_variant,,ENST00000379343,NM_001193513.1;SLC30A6,intron_variant,,ENST00000538303,NM_001193515.1;SLC30A6,intron_variant,,ENST00000440718,;SLC30A6,intron_variant,,ENST00000454324,;SLC30A6,intron_variant,,ENST00000449777,;SLC30A6,intron_variant,,ENST00000457724,;"	"-"	"ENSG00000152683"	"ENST00000379343"	"Transcript"	"intron_variant"	"-/2354"	"-/1506"	"-/501"	""	""	"rs144922892"	"1"	NA	1	"SLC30A6"	"HGNC"	19305	"protein_coding"	"YES"	"CCDS54341.1"	"ENSP00000368648"	"Q6NXT4"	"B5MCR8,B3KU87"	"UPI0000D61182"	"NM_001193513.1"	NA	NA	""	"4/14"	""	"-:0.0986"	"-:0.0666"	"-:0.0836"	NA	"-:0.127"	"-:0.1143"	"-:0.1074"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAAAGTA"	"6aee97f4-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"4159"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	35602161	35602162	"+"	"IGR"	"INS"	"-"	"-"	"TCCT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	5	3	"."	0	""	"TCCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"95bb97de-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4160"	"FEZ2"	9637	"mskcc.org"	"GRCh37"	"2"	36806350	36806350	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs61623317"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.635-342delC"	""	""	"ENST00000379245"	""	6	"."	4	1	"."	0	"FEZ2,intron_variant,,ENST00000379245,NM_001042548.1;FEZ2,intron_variant,,ENST00000405912,NM_005102.2;FEZ2,intron_variant,,ENST00000305852,;FEZ2,intron_variant,,ENST00000441005,;FEZ2,intron_variant,,ENST00000357996,;FEZ2,intron_variant,,ENST00000464964,;FEZ2,upstream_gene_variant,,ENST00000487282,;FEZ2,intron_variant,,ENST00000413938,;FEZ2,intron_variant,,ENST00000451623,;FEZ2,upstream_gene_variant,,ENST00000414288,;"	"-"	"ENSG00000171055"	"ENST00000379245"	"Transcript"	"intron_variant"	"-/2097"	"-/1143"	"-/380"	""	""	"rs61623317"	"1"	NA	-1	"FEZ2"	"HGNC"	3660	"protein_coding"	"YES"	"CCDS46258.1"	"ENSP00000368547"	"Q9UHY8"	"Q6P2J5,F8WB37"	"UPI0000DACAC0"	"NM_001042548.1"	NA	NA	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGT"	"6b90b566-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4161"	"FEZ2"	9637	"mskcc.org"	"GRCh37"	"2"	36825330	36825331	"+"	"5'UTR"	"INS"	"-"	"-"	"G"	"rs555617731"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-46dupC"	""	""	"ENST00000379245"	"1/9"	15	"."	4	6	"."	0	"FEZ2,5_prime_UTR_variant,,ENST00000379245,NM_001042548.1;FEZ2,intron_variant,,ENST00000357996,;FEZ2,upstream_gene_variant,,ENST00000405912,NM_005102.2;FEZ2,upstream_gene_variant,,ENST00000413938,;FEZ2,upstream_gene_variant,,ENST00000451623,;"	"G"	"ENSG00000171055"	"ENST00000379245"	"Transcript"	"5_prime_UTR_variant"	"4-5/2097"	"-/1143"	"-/380"	""	""	"rs555617731"	"1"	NA	-1	"FEZ2"	"HGNC"	3660	"protein_coding"	"YES"	"CCDS46258.1"	"ENSP00000368547"	"Q9UHY8"	"Q6P2J5,F8WB37"	"UPI0000DACAC0"	"NM_001042548.1"	NA	NA	"1/9"	""	""	"-:0.0036"	"G:0.9947"	"G:0.9957"	NA	"G:1"	"G:0.997"	"G:0.9949"	"G:0.9667"	"G:0.9874"	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	"0.9426"	"0"	"0"	"0"	"0"	"0"	"0"	"1"	NA	"common_variant"	"CCG"	"95c9750c-280f-11e6-b562-0633424a729f"	"240"	1	"28/28"	"952/1010"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"28/28"	"PASS"	"FALSE"	0.266666666666667	"WXS"	FALSE
"4162"	"CYP1B1-AS1"	285154	"mskcc.org"	"GRCh37"	"2"	38399467	38399468	"+"	"Intron"	"INS"	"-"	"-"	"CTTCTC"	"rs371025294"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.191-7953_191-7948dupTCCTTC"	""	""	"ENST00000413828"	""	7	"."	3	9	"."	0	"CYP1B1-AS1,intron_variant,,ENST00000413828,;"	"CTTCTC"	"ENSG00000232973"	"ENST00000413828"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1757"	""	""	""	""	"rs371025294"	"1"	NA	1	"CYP1B1-AS1"	"HGNC"	28543	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"9614cba6-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4163"	"SLC8A1"	6546	"mskcc.org"	"GRCh37"	"2"	40391301	40391302	"+"	"Intron"	"INS"	"-"	"-"	"GGGACAGA"	"rs113851513"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2169+685_2169+692dupTCTGTCCC"	""	""	"ENST00000403092"	""	8	"."	5	2	"."	0	"SLC8A1,intron_variant,,ENST00000406785,;SLC8A1,intron_variant,,ENST00000542756,;SLC8A1,intron_variant,,ENST00000403092,;SLC8A1,intron_variant,,ENST00000405901,NM_001112800.1;SLC8A1,intron_variant,,ENST00000402441,NM_001112802.1;SLC8A1,intron_variant,,ENST00000405269,;SLC8A1,intron_variant,,ENST00000332839,NM_021097.2;SLC8A1,intron_variant,,ENST00000408028,NM_001252624.1;SLC8A1,intron_variant,,ENST00000406391,;SLC8A1,intron_variant,,ENST00000542024,;SLC8A1-AS1,intron_variant,,ENST00000444629,;SLC8A1-AS1,intron_variant,,ENST00000593848,;SLC8A1-AS1,intron_variant,,ENST00000598247,;SLC8A1-AS1,intron_variant,,ENST00000593878,;SLC8A1-AS1,intron_variant,,ENST00000596532,;SLC8A1-AS1,intron_variant,,ENST00000599268,;SLC8A1-AS1,intron_variant,,ENST00000601679,;SLC8A1-AS1,intron_variant,,ENST00000435515,;SLC8A1-AS1,intron_variant,,ENST00000597385,;SLC8A1-AS1,intron_variant,,ENST00000599956,;SLC8A1-AS1,intron_variant,,ENST00000597170,;SLC8A1-AS1,intron_variant,,ENST00000599740,;SLC8A1,intron_variant,,ENST00000407929,;"	"GGGACAGA"	"ENSG00000183023"	"ENST00000403092"	"Transcript"	"intron_variant"	"-/3178"	"-/2922"	"-/973"	""	""	"rs113851513"	"1"	NA	-1	"SLC8A1"	"HGNC"	11068	"protein_coding"	"YES"	"CCDS1806.1"	"ENSP00000384763"	"P32418"	"Q6LAJ9,Q6LAJ8,Q4QQH3,E9PCL8,E9PB98"	"UPI000012FC46"	""	NA	NA	""	"8/10"	""	"-:0.1703"	"GGGACAGA:0.6278"	"GGGACAGA:0.8746"	NA	"GGGACAGA:0.9831"	"GGGACAGA:0.835"	"GGGACAGA:0.907"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"965086f0-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4164"	"PLEKHH2"	130271	"mskcc.org"	"GRCh37"	"2"	43871588	43871591	"+"	"Intron"	"DEL"	"TCCA"	"TCCA"	"-"	"rs3042473"	NA	"JHCCPT5"	"JHCCPN5"	"TCCA"	"TCCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-3-218_-3-215delTCCA"	""	""	"ENST00000282406"	""	14	"."	7	3	"."	0	"PLEKHH2,intron_variant,,ENST00000282406,NM_172069.3;PLEKHH2,intron_variant,,ENST00000405000,;PLEKHH2,intron_variant,,ENST00000405223,;PLEKHH2,intron_variant,,ENST00000491692,;"	"-"	"ENSG00000152527"	"ENST00000282406"	"Transcript"	"intron_variant"	"-/6981"	"-/4482"	"-/1493"	""	""	"rs3042473"	"1"	NA	1	"PLEKHH2"	"HGNC"	30506	"protein_coding"	"YES"	"CCDS1812.1"	"ENSP00000282406"	"Q8IVE3"	""	"UPI000016021B"	"NM_172069.3"	NA	NA	""	"1/29"	""	"TCCA:0.4413"	"-:0.7995"	"-:0.5101"	NA	"-:0.2073"	"-:0.6252"	"-:0.5613"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTCCAT"	"6d081f56-280f-11e6-b562-0633424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4165"	"ENSR00001700501"	0	"mskcc.org"	"GRCh37"	"2"	45202987	45202988	"+"	"IGR"	"INS"	"-"	"-"	"CA"	"rs148928828"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001700501"	""	10	"."	3	4	"."	0	""	"CA"	""	"ENSR00001700501"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs148928828"	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"CACA:0.0006"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"96abdca8-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"4166"	"PRKCE"	5581	"mskcc.org"	"GRCh37"	"2"	46228391	46228392	"+"	"Intron"	"INS"	"-"	"-"	"ATATAT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.824-137_824-132dupATATAT"	""	""	"ENST00000306156"	""	45	"."	4	11	"."	0	"PRKCE,intron_variant,,ENST00000306156,NM_005400.2;PRKCE,intron_variant,,ENST00000394874,;AC017078.1,downstream_gene_variant,,ENST00000416146,;"	"ATATAT"	"ENSG00000171132"	"ENST00000306156"	"Transcript"	"intron_variant"	"-/5650"	"-/2214"	"-/737"	""	""	""	"1"	NA	1	"PRKCE"	"HGNC"	9401	"protein_coding"	"YES"	"CCDS1824.1"	"ENSP00000306124"	"Q02156"	"Q53RT0,L7RTI5,C9JR22"	"UPI000012DF6B"	"NM_005400.2"	NA	NA	""	"6/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"96b938d0-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WXS"	FALSE
"4167"	"AC079807.4"	0	"mskcc.org"	"GRCh37"	"2"	48177671	48177672	"+"	"Intron"	"INS"	"-"	"-"	"GAAGAAGAAGAAGAAGAGGAAGAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.442-2124_442-2123insCTCTTCCTCTTCTTCTTCTTCTTC"	""	""	"ENST00000447571"	""	20	"."	4	4	"."	0	"AC079807.4,intron_variant,,ENST00000447571,;AC079807.4,intron_variant,,ENST00000587616,;"	"GAAGAAGAAGAAGAAGAGGAAGAG"	"ENSG00000230773"	"ENST00000447571"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1808"	""	""	""	""	""	"1"	NA	-1	"AC079807.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"96f6e5fe-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"4168"	"STON1-GTF2A1L"	286749	"mskcc.org"	"GRCh37"	"2"	48847918	48847919	"+"	"Intron"	"INS"	"-"	"-"	"AATA"	"rs10634616"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2134-33_2134-30dupTAAA"	""	""	"ENST00000394754"	""	66	"."	3	16	"."	0	"STON1-GTF2A1L,intron_variant,,ENST00000394754,NM_172311.2;STON1-GTF2A1L,intron_variant,,ENST00000405008,;STON1-GTF2A1L,intron_variant,,ENST00000402114,NM_001198593.1;STON1-GTF2A1L,intron_variant,,ENST00000309827,;STON1-GTF2A1L,intron_variant,,ENST00000394751,NM_001198594.1;GTF2A1L,intron_variant,,ENST00000403751,NM_006872.3;GTF2A1L,intron_variant,,ENST00000430487,NM_001193487.1;GTF2A1L,intron_variant,,ENST00000437125,;GTF2A1L,intron_variant,,ENST00000448460,;GTF2A1L,intron_variant,,ENST00000468326,;GTF2A1L,intron_variant,,ENST00000423675,;"	"AATA"	"ENSG00000068781"	"ENST00000394754"	"Transcript"	"intron_variant"	"-/3824"	"-/3549"	"-/1182"	""	""	"rs10634616"	"1"	NA	1	"STON1-GTF2A1L"	"HGNC"	30651	"protein_coding"	"YES"	"CCDS1840.1"	"ENSP00000378236"	""	"Q53S48"	"UPI000013C976"	"NM_172311.2"	NA	NA	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"42"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"97048ed4-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0454545454545455	"WXS"	FALSE
"4169"	"ERLEC1"	27248	"mskcc.org"	"GRCh37"	"2"	54045399	54045399	"+"	"3'UTR"	"DEL"	"G"	"G"	"-"	"rs544661940"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*293delG"	""	""	"ENST00000185150"	"14/14"	25	"."	14	6	"."	0	"ERLEC1,3_prime_UTR_variant,,ENST00000185150,NM_015701.4;ERLEC1,3_prime_UTR_variant,,ENST00000378239,NM_001127398.2;ASB3,intron_variant,,ENST00000406625,;GPR75-ASB3,intron_variant,,ENST00000352846,NM_001164165.1;ERLEC1,downstream_gene_variant,,ENST00000405123,NM_001127397.2;ASB3,intron_variant,,ENST00000498475,;ASB3,intron_variant,,ENST00000459916,;"	"-"	"ENSG00000068912"	"ENST00000185150"	"Transcript"	"3_prime_UTR_variant"	"1876/2433"	"-/1452"	"-/483"	""	""	"rs544661940"	"1"	NA	1	"ERLEC1"	"HGNC"	25222	"protein_coding"	"YES"	"CCDS1848.1"	"ENSP00000185150"	"Q96DZ1"	""	"UPI00000373C1"	"NM_015701.4"	NA	NA	"14/14"	""	""	"-:0.0012"	"-:0"	"-:0"	NA	"-:0"	"-:0.005"	"-:0.001"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGC"	"6e36c530-280f-11e6-b562-0633424a729f"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.56	"WXS"	FALSE
"4170"	"EML6"	400954	"mskcc.org"	"GRCh37"	"2"	55071101	55071102	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTGTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.848-52_848-43dupTGTGTGTGTG"	""	""	"ENST00000356458"	""	132	"."	8	40	"."	0	"EML6,intron_variant,,ENST00000356458,NM_001039753.2;"	"TGTGTGTGTG"	"ENSG00000214595"	"ENST00000356458"	"Transcript"	"intron_variant"	"-/8320"	"-/5877"	"-/1958"	""	""	""	"1"	NA	1	"EML6"	"HGNC"	35412	"protein_coding"	"YES"	"CCDS46286.1"	"ENSP00000348842"	"Q6ZMW3"	""	"UPI00006C0432"	"NM_001039753.2"	NA	NA	""	"6/40"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"40"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"973fa23a-280f-11e6-b562-0633424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WXS"	FALSE
"4171"	"CCDC88A"	55704	"mskcc.org"	"GRCh37"	"2"	55584444	55584445	"+"	"Intron"	"INS"	"-"	"-"	"TTCC"	"rs148590824"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.628-1561_628-1558dupGGAA"	""	""	"ENST00000336838"	""	9	"."	5	2	"."	0	"CCDC88A,intron_variant,,ENST00000436346,NM_001135597.1,NM_001254943.1;CCDC88A,intron_variant,,ENST00000263630,NM_018084.4;CCDC88A,intron_variant,,ENST00000336838,;CCDC88A,intron_variant,,ENST00000413716,;CCDC88A,intron_variant,,ENST00000430086,;"	"TTCC"	"ENSG00000115355"	"ENST00000336838"	"Transcript"	"intron_variant"	"-/9505"	"-/5613"	"-/1870"	""	""	"rs148590824"	"1"	NA	-1	"CCDC88A"	"HGNC"	25523	"protein_coding"	"YES"	"CCDS46288.1"	"ENSP00000338728"	"Q3V6T2"	"C9J225,B4DSN0"	"UPI00005B7220"	""	NA	NA	""	"7/32"	""	"TTTC:0.0014"	"TTTC:0.0008"	"TTTC:0.0014"	NA	"TTTC:0"	"TTTC:0"	"TTTC:0.0051"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"975cbeba-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"4172"	"SMEK2"	57223	"mskcc.org"	"GRCh37"	"2"	55806543	55806544	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs5831371"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1468+271dupA"	""	""	"ENST00000345102"	""	16	"."	10	2	"."	0	"SMEK2,intron_variant,,ENST00000272313,NM_020463.2;SMEK2,intron_variant,,ENST00000345102,NM_001122964.1;SMEK2,intron_variant,,ENST00000407823,NM_001282850.1;"	"T"	"ENSG00000138041"	"ENST00000345102"	"Transcript"	"intron_variant"	"-/4384"	"-/2550"	"-/849"	""	""	"rs5831371"	"1"	NA	-1	"SMEK2"	"HGNC"	29267	"protein_coding"	"YES"	"CCDS46289.1"	"ENSP00000339769"	"Q5MIZ7"	""	"UPI00001C1DBA"	"NM_001122964.1"	NA	NA	""	"9/16"	""	"-:0.0012"	"T:0.9985"	"T:0.9986"	NA	"T:1"	"T:0.999"	"T:0.998"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"976044a4-280f-11e6-b562-0633424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4173"	"VRK2"	7444	"mskcc.org"	"GRCh37"	"2"	58373903	58373904	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs71394409"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1182+295_1182+296delGT"	""	""	"ENST00000435505"	""	16	"."	5	4	"."	0	"VRK2,intron_variant,,ENST00000435505,NM_001288837.1;VRK2,intron_variant,,ENST00000417641,NM_001288838.1;VRK2,intron_variant,,ENST00000412104,NM_001130483.2;VRK2,intron_variant,,ENST00000340157,NM_001130481.2,NM_006296.6,NM_001130480.2;VRK2,intron_variant,,ENST00000440705,NM_001130482.2;VRK2,intron_variant,,ENST00000432057,NM_001288836.1;"	"-"	"ENSG00000028116"	"ENST00000435505"	"Transcript"	"intron_variant"	"-/2446"	"-/1527"	"-/508"	""	""	"rs71394409"	"1"	NA	1	"VRK2"	"HGNC"	12719	"protein_coding"	"YES"	"CCDS1859.1"	"ENSP00000408002"	"Q86Y07"	""	"UPI000013D498"	"NM_001288837.1"	NA	NA	""	"15/15"	""	"-:0.1026"	"-:0.0053"	"-:0.0778"	NA	"-:0.1925"	"-:0.0825"	"-:0.18"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATGT"	"6ec43456-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"4174"	"FANCL"	55120	"mskcc.org"	"GRCh37"	"2"	58393298	58393299	"+"	"Intron"	"INS"	"-"	"-"	"TAC"	"rs71394410"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.556-292_556-290dupGTA"	""	""	"ENST00000402135"	""	6	"."	4	2	"."	0	"FANCL,intron_variant,,ENST00000402135,NM_001114636.1;FANCL,intron_variant,,ENST00000233741,NM_018062.3;FANCL,intron_variant,,ENST00000403295,;FANCL,intron_variant,,ENST00000449070,;FANCL,intron_variant,,ENST00000540646,;FANCL,intron_variant,,ENST00000427708,;FANCL,intron_variant,,ENST00000403676,;FANCL,intron_variant,,ENST00000417361,;FANCL,intron_variant,,ENST00000446381,;FANCL,upstream_gene_variant,,ENST00000470506,;"	"TAC"	"ENSG00000115392"	"ENST00000402135"	"Transcript"	"intron_variant"	"-/1698"	"-/1143"	"-/380"	""	""	"rs71394410"	"1"	NA	-1	"FANCL"	"HGNC"	20748	"protein_coding"	"YES"	"CCDS46294.1"	"ENSP00000385021"	"Q9NW38"	""	"UPI0000D4A2D4"	"NM_001114636.1"	NA	NA	""	"7/13"	""	"-:0.2582"	"TAC:0.9433"	"TAC:0.6729"	NA	"TAC:0.6806"	"TAC:0.6402"	"TAC:0.6861"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"97954c9e-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4175"	"KIAA1841"	84542	"mskcc.org"	"GRCh37"	"2"	61325217	61325237	"+"	"Intron"	"DEL"	"TTGGAGGTTTTTGTTTTTTGT"	"TTGGAGGTTTTTGTTTTTTGT"	"GGAGGTTTTTGTTTTTTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTGGAGGTTTTTGTTTTTTGT"	"TTGGAGGTTTTTGTTTTTTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1365+230_1365+250delTTGGAGGTTTTTGTTTTTTGTinsGGAGGTTTTTGTTTTTTG"	""	""	"ENST00000402291"	""	15	"."	3	3	"."	0	"KIAA1841,intron_variant,,ENST00000402291,NM_001129993.1;KIAA1841,intron_variant,,ENST00000453873,;KIAA1841,intron_variant,,ENST00000295031,NM_032506.2;KIAA1841,intron_variant,,ENST00000356719,;KIAA1841,downstream_gene_variant,,ENST00000483509,;KIAA1841,intron_variant,,ENST00000453186,;"	"GGAGGTTTTTGTTTTTTG"	"ENSG00000162929"	"ENST00000402291"	"Transcript"	"intron_variant"	"-/4516"	"-/2157"	"-/718"	""	""	""	"1"	NA	1	"KIAA1841"	"HGNC"	29387	"protein_coding"	"YES"	"CCDS46296.1"	"ENSP00000385579"	"Q6NSI8"	""	"UPI0000197410"	"NM_001129993.1"	NA	NA	""	"12/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTGGAGGTTTTTGTTTTTTGTT"	"90729840-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"4176"	"AC016747.3"	339803	"mskcc.org"	"GRCh37"	"2"	61366095	61366096	"+"	"3'Flank"	"INS"	"-"	"-"	"TTCCTTCC"	"rs148785604"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000420918"	""	18	"."	4	2	"."	0	"KIAA1841,downstream_gene_variant,,ENST00000295031,NM_032506.2;AC016747.3,downstream_gene_variant,,ENST00000420918,;AC016747.3,downstream_gene_variant,,ENST00000422740,;KIAA1841,intron_variant,,ENST00000462959,;AC016747.3,downstream_gene_variant,,ENST00000542553,;AC016747.3,downstream_gene_variant,,ENST00000417691,;"	"TTCCTTCC"	"ENSG00000212978"	"ENST00000420918"	"Transcript"	"downstream_gene_variant"	"-/2527"	""	""	""	""	"rs148785604"	"1"	"2636"	-1	"AC016747.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3542"	"TTCCTTCC:0.7458"	"TTCCTTCC:0.621"	NA	"TTCCTTCC:0.631"	"TTCCTTCC:0.5865"	"TTCCTTCC:0.6043"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"97a586e0-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"4177"	"UGP2"	7360	"mskcc.org"	"GRCh37"	"2"	64069277	64069277	"+"	"5'UTR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-43delG"	""	""	"ENST00000337130"	"1/10"	294	"."	3	94	"."	0	"UGP2,5_prime_UTR_variant,,ENST00000337130,NM_006759.3;UGP2,5_prime_UTR_variant,,ENST00000488245,;UGP2,5_prime_UTR_variant,,ENST00000497883,;UGP2,5_prime_UTR_variant,,ENST00000484142,;UGP2,intron_variant,,ENST00000394417,NM_001001521.1;UGP2,intron_variant,,ENST00000467648,;UGP2,intron_variant,,ENST00000482668,;UGP2,intron_variant,,ENST00000480679,;UGP2,upstream_gene_variant,,ENST00000445915,;UGP2,upstream_gene_variant,,ENST00000491621,;UGP2,upstream_gene_variant,,ENST00000475462,;UGP2,non_coding_transcript_exon_variant,,ENST00000484056,;UGP2,intron_variant,,ENST00000487469,;UGP2,non_coding_transcript_exon_variant,,ENST00000475550,;UGP2,intron_variant,,ENST00000466642,;UGP2,intron_variant,,ENST00000493222,;UGP2,intron_variant,,ENST00000497510,;UGP2,intron_variant,,ENST00000467400,;UGP2,intron_variant,,ENST00000483108,;UGP2,intron_variant,,ENST00000487640,;UGP2,intron_variant,,ENST00000483461,;UGP2,upstream_gene_variant,,ENST00000487042,;UGP2,upstream_gene_variant,,ENST00000467999,;UGP2,upstream_gene_variant,,ENST00000496334,;"	"-"	"ENSG00000169764"	"ENST00000337130"	"Transcript"	"5_prime_UTR_variant"	"434/2338"	"-/1527"	"-/508"	""	""	""	"1"	NA	1	"UGP2"	"HGNC"	12527	"protein_coding"	"YES"	"CCDS1875.1"	"ENSP00000338703"	"Q16851"	"Q53QE9,D6W5E6,C9JWG0,C9JVG3,C9JUW1,C9JTZ5,C9JNZ1,C9J6Q0,C9J3M0"	"UPI000000DB95"	"NM_006759.3"	NA	NA	"1/10"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGA"	"6fa71c58-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.0102040816326531	"WXS"	FALSE
"4178"	"AC007318.5"	0	"mskcc.org"	"GRCh37"	"2"	65432126	65432127	"+"	"5'Flank"	"INS"	"-"	"-"	"GCTGCT"	"rs146631965"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000393177"	""	23	"."	5	4	"."	0	"AC007318.5,upstream_gene_variant,,ENST00000393177,;AC007318.5,upstream_gene_variant,,ENST00000467568,;"	"GCTGCT"	"ENSG00000172974"	"ENST00000393177"	"Transcript"	"upstream_gene_variant"	"-/1260"	""	""	""	""	"rs146631965"	"1"	"10"	1	"AC007318.5"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"GCTGCT:0.0913"	"GCTGCT:0.1271"	"GCTGCT:0.0922"	NA	"GCTGCT:0.004"	"GCTGCT:0.1133"	"GCTGCT:0.1094"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"98133a32-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WXS"	FALSE
"4179"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	67278762	67278763	"+"	"IGR"	"INS"	"-"	"-"	"ATTT"	"rs113574161"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	7	"."	0	""	"ATTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113574161"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"98304d70-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"4180"	"AC010987.6"	0	"mskcc.org"	"GRCh37"	"2"	68034982	68034984	"+"	"Intron"	"DEL"	"CTG"	"CTG"	"-"	"rs138109275"	NA	"JHCCPT5"	"JHCCPN5"	"CTG"	"CTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.181-11254_181-11252delCAG"	""	""	"ENST00000457448"	""	35	"."	4	16	"."	0	"AC010987.6,intron_variant,,ENST00000457448,;"	"-"	"ENSG00000237013"	"ENST00000457448"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/725"	""	""	""	""	"rs138109275"	"1"	NA	-1	"AC010987.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTGC"	"701fe656-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WXS"	FALSE
"4181"	"PPP3R1"	5534	"mskcc.org"	"GRCh37"	"2"	68444171	68444172	"+"	"Intron"	"INS"	"-"	"-"	"ACGCAG"	"rs374427852"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.43+52_43+53insCTGCGT"	""	""	"ENST00000234310"	""	76	"."	10	29	"."	0	"PPP3R1,intron_variant,,ENST00000234310,NM_000945.3;PPP3R1,intron_variant,,ENST00000409752,;PPP3R1,intron_variant,,ENST00000409377,;RP11-474G23.1,intron_variant,,ENST00000406334,;"	"ACGCAG"	"ENSG00000221823"	"ENST00000234310"	"Transcript"	"intron_variant"	"-/3023"	"-/513"	"-/170"	""	""	"rs374427852"	"1"	NA	-1	"PPP3R1"	"HGNC"	9317	"protein_coding"	"YES"	"CCDS46310.1"	"ENSP00000234310"	"P63098"	"F6U1T9"	"UPI00000012AE"	"NM_000945.3"	NA	NA	""	"2/5"	""	"GCAG:0.4505"	"GCAG:0.7708"	"GCAG:0.3545"	NA	"GCAG:0.25"	"GCAG:0.2893"	"GCAG:0.4581"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"9848e20e-280f-11e6-b562-0633424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WXS"	FALSE
"4182"	"PPP3R1"	5534	"mskcc.org"	"GRCh37"	"2"	68479717	68479718	"+"	"5'Flank"	"INS"	"-"	"-"	"GGCGGAGGCGGGGGCGCGCGCGGGCCGGC"	"rs372877363"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000234310"	""	19	"."	4	11	"."	0	"PPP3R1,intron_variant,,ENST00000409752,;PPP3R1,upstream_gene_variant,,ENST00000234310,NM_000945.3;PPP3R1,upstream_gene_variant,,ENST00000409377,;RP11-474G23.3,upstream_gene_variant,,ENST00000608069,;RP11-474G23.1,intron_variant,,ENST00000406334,;"	"GGCGGAGGCGGGGGCGCGCGCGGGCCGGC"	"ENSG00000221823"	"ENST00000234310"	"Transcript"	"upstream_gene_variant"	"-/3023"	"-/513"	"-/170"	""	""	"rs372877363"	"1"	"54"	-1	"PPP3R1"	"HGNC"	9317	"protein_coding"	"YES"	"CCDS46310.1"	"ENSP00000234310"	"P63098"	"F6U1T9"	"UPI00000012AE"	"NM_000945.3"	NA	NA	""	""	""	"-:0.4277"	"GGCGGAGGCGGGGGCGCGCGCGGGCCGGC:0.9032"	"GGCGGAGGCGGGGGCGCGCGCGGGCCGGC:0.4236"	NA	"GGCGGAGGCGGGGGCGCGCGCGGGCCGGC:0.4008"	"GGCGGAGGCGGGGGCGCGCGCGGGCCGGC:0.4493"	"GGCGGAGGCGGGGGCGCGCGCGGGCCGGC:0.5337"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"9849bab2-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"4183"	"PLEK"	5341	"mskcc.org"	"GRCh37"	"2"	68621666	68621667	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs35287888"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.916+368dupA"	""	""	"ENST00000234313"	""	12	"."	3	3	"."	0	"PLEK,intron_variant,,ENST00000234313,NM_002664.2;PLEK,intron_variant,,ENST00000474788,;"	"A"	"ENSG00000115956"	"ENST00000234313"	"Transcript"	"intron_variant"	"-/2869"	"-/1053"	"-/350"	""	""	"rs35287888"	"1"	NA	1	"PLEK"	"HGNC"	9070	"protein_coding"	"YES"	"CCDS1887.1"	"ENSP00000234313"	"P08567"	""	"UPI00002085C1"	"NM_002664.2"	NA	NA	""	"8/8"	""	"A:0.2202"	"A:0.1528"	"A:0.219"	NA	"A:0.1925"	"A:0.3181"	"A:0.2403"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"984c00a6-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4184"	"APLF"	200558	"mskcc.org"	"GRCh37"	"2"	68794666	68794667	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs71395979"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1333+156dupA"	""	""	"ENST00000303795"	""	31	"."	9	7	"."	0	"APLF,intron_variant,,ENST00000303795,NM_173545.2;APLF,intron_variant,,ENST00000471727,;APLF,intron_variant,,ENST00000445692,;APLF,intron_variant,,ENST00000529851,;"	"A"	"ENSG00000169621"	"ENST00000303795"	"Transcript"	"intron_variant"	"-/3847"	"-/1536"	"-/511"	""	""	"rs71395979"	"1"	NA	1	"APLF"	"HGNC"	28724	"protein_coding"	"YES"	"CCDS1888.1"	"ENSP00000307004"	"Q8IW19"	""	"UPI0000074578"	"NM_173545.2"	NA	NA	""	"9/9"	""	"A:0.0701"	"A:0.115"	"A:0.072"	NA	"A:0.0079"	"A:0.0726"	"A:0.0695"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"984ea5c2-280f-11e6-b562-0633424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290322580645161	"WXS"	FALSE
"4185"	"GFPT1"	2673	"mskcc.org"	"GRCh37"	"2"	69553389	69553389	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2056-24delC"	""	""	"ENST00000357308"	""	194	"."	3	55	"."	0	"GFPT1,intron_variant,,ENST00000357308,NM_001244710.1;GFPT1,intron_variant,,ENST00000361060,NM_002056.3;"	"-"	"ENSG00000198380"	"ENST00000357308"	"Transcript"	"intron_variant"	"-/8695"	"-/2100"	"-/699"	""	""	""	"1"	NA	-1	"GFPT1"	"HGNC"	4241	"protein_coding"	"YES"	"CCDS58713.1"	"ENSP00000349860"	"Q06210"	""	"UPI000015C8AD"	"NM_001244710.1"	NA	NA	""	"19/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAGC"	"70b11e46-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.0154639175257732	"WXS"	FALSE
"4186"	"VAX2"	25806	"mskcc.org"	"GRCh37"	"2"	71126004	71126005	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs144970308"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000234392"	""	10	"."	5	3	"."	0	"VAX2,upstream_gene_variant,,ENST00000234392,NM_012476.2;"	"C"	"ENSG00000116035"	"ENST00000234392"	"Transcript"	"upstream_gene_variant"	"-/1147"	"-/873"	"-/290"	""	""	"rs144970308"	"1"	"1715"	1	"VAX2"	"HGNC"	12661	"protein_coding"	"YES"	"CCDS1911.1"	"ENSP00000234392"	"Q9UIW0"	"F1T0K5"	"UPI0000138215"	"NM_012476.2"	NA	NA	""	""	""	"C:0.2077"	"C:0.1831"	"C:0.1081"	NA	"C:0.3105"	"C:0.1302"	"C:0.2853"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"988827d4-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4187"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	71388543	71388544	"+"	"IGR"	"INS"	"-"	"-"	"GAG"	"rs543092301"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	1	"."	0	""	"GAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs543092301"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2602"	"GAG:0.4667"	"GAG:0.7968"	NA	"GAG:0.8919"	"GAG:0.838"	"GAG:0.8108"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"989a8c1c-280f-11e6-b562-0633424a729f"	"157"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4188"	"ACTG2"	72	"mskcc.org"	"GRCh37"	"2"	74142165	74142165	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs35892339"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.805+171delA"	""	""	"ENST00000409624"	""	51	"."	20	14	"."	1	"ACTG2,intron_variant,,ENST00000409624,;ACTG2,intron_variant,,ENST00000345517,NM_001615.3;ACTG2,intron_variant,,ENST00000409731,NM_001199893.1;ACTG2,intron_variant,,ENST00000438902,;ACTG2,downstream_gene_variant,,ENST00000429756,;"	"-"	"ENSG00000163017"	"ENST00000409624"	"Transcript"	"intron_variant"	"-/2064"	"-/1131"	"-/376"	""	""	"rs35892339"	"1"	NA	1	"ACTG2"	"HGNC"	145	"protein_coding"	"YES"	"CCDS1930.1"	"ENSP00000386857"	"P63267"	"Q562S2"	"UPI0000000CCB"	""	NA	NA	""	"8/9"	""	"A:0.3423"	"-:0.8464"	"-:0.6643"	NA	"-:0.4752"	"-:0.675"	"-:0.5685"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGAA"	"71e4a594-280f-11e6-b562-0633424a729f"	"1253"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.392156862745098	"WXS"	FALSE
"4189"	"SLC4A5"	57835	"mskcc.org"	"GRCh37"	"2"	74471608	74471616	"+"	"Intron"	"DEL"	"CTCCTTTCT"	"CTCCTTTCT"	"TCTTCTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CTCCTTTCT"	"CTCCTTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2060-2437_2060-2429delAGAAAGGAGinsGAGAAGA"	""	""	"ENST00000377634"	""	15	"."	6	5	"."	0	"SLC4A5,intron_variant,,ENST00000394019,NM_133478.2;SLC4A5,intron_variant,,ENST00000423644,;SLC4A5,intron_variant,,ENST00000346834,;SLC4A5,intron_variant,,ENST00000359484,;SLC4A5,intron_variant,,ENST00000377634,;SLC4A5,intron_variant,,ENST00000357822,NM_021196.3;SLC4A5,intron_variant,,ENST00000358683,;SLC4A5,intron_variant,,ENST00000377632,;SLC4A5,intron_variant,,ENST00000425249,;SLC4A5,intron_variant,,ENST00000483195,;RP11-287D1.3,intron_variant,,ENST00000451608,;SLC4A5,downstream_gene_variant,,ENST00000479776,;"	"TCTTCTC"	"ENSG00000188687"	"ENST00000377634"	"Transcript"	"intron_variant"	"-/3814"	"-/3414"	"-/1137"	""	""	""	"1"	NA	-1	"SLC4A5"	"HGNC"	18168	"protein_coding"	"YES"	"CCDS1936.1"	"ENSP00000366861"	"Q9BY07"	"Q9UDR3,Q53S35,Q53QY5,C9JW32,C9JU12,C9JNL6"	"UPI000013C97B"	""	NA	NA	""	"19/30"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTCCTTTCTC"	"907b4404-280f-11e6-b562-0633424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4190"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	74998646	74998649	"+"	"IGR"	"DEL"	"AAAC"	"AAAC"	"-"	"rs141982327"	NA	"JHCCPT5"	"JHCCPN5"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141982327"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4119"	"-:0.357"	"-:0.5231"	NA	"-:0.3571"	"-:0.4066"	"-:0.4693"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAAACA"	"729003d0-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4191"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	78507621	78507622	"+"	"IGR"	"INS"	"-"	"-"	"AAGCAAGCAAGT"	"rs147386121"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	6	1	"."	0	""	"AAGCAAGCAAGT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147386121"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"993d7c56-280f-11e6-b562-0633424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"4192"	"CTNNA2"	1496	"mskcc.org"	"GRCh37"	"2"	80349285	80349286	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"rs3067113"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1056+212369_1056+212370delCT"	""	""	"ENST00000466387"	""	8	"."	4	4	"."	0	"CTNNA2,intron_variant,,ENST00000466387,;CTNNA2,intron_variant,,ENST00000496558,NM_001164883.1,NM_004389.3,NM_001282598.1;CTNNA2,intron_variant,,ENST00000402739,NM_001282597.1;CTNNA2,intron_variant,,ENST00000541047,;CTNNA2,intron_variant,,ENST00000361291,;CTNNA2,intron_variant,,ENST00000540488,;"	"-"	"ENSG00000066032"	"ENST00000466387"	"Transcript"	"intron_variant"	"-/4349"	"-/2718"	"-/905"	""	""	"rs3067113"	"1"	NA	1	"CTNNA2"	"HGNC"	2510	"protein_coding"	"YES"	"CCDS42703.2"	"ENSP00000418191"	"P26232"	"F6KRI5,C9J144,C9IZ88"	"UPI00001A3E86"	""	NA	NA	""	"11/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATCT"	"72f3cb5e-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4193"	"AC084193.1"	0	"mskcc.org"	"GRCh37"	"2"	80998470	80998472	"+"	"Intron"	"DEL"	"CTT"	"CTT"	"-"	"rs72275082"	NA	"JHCCPT5"	"JHCCPN5"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.468+5123_468+5125delAAG"	""	""	"ENST00000450290"	""	16	"."	6	7	"."	0	"AC084193.1,intron_variant,,ENST00000450290,;"	"-"	"ENSG00000230975"	"ENST00000450290"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/769"	""	""	""	""	"rs72275082"	"1"	NA	-1	"AC084193.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/4"	""	"-:0.3007"	"-:0.1021"	"-:0.3876"	NA	"-:0.247"	"-:0.5169"	"-:0.3405"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTC"	"72f658b0-280f-11e6-b562-0633424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4194"	"TCF7L1"	83439	"mskcc.org"	"GRCh37"	"2"	85360389	85360390	"+"	"5'Flank"	"DEL"	"TG"	"TG"	"-"	"rs146249452"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000282111"	""	12	"."	4	6	"."	0	"TCF7L1,upstream_gene_variant,,ENST00000282111,NM_031283.2;TCF7L1,upstream_gene_variant,,ENST00000494519,;"	"-"	"ENSG00000152284"	"ENST00000282111"	"Transcript"	"upstream_gene_variant"	"-/2968"	"-/1767"	"-/588"	""	""	"rs146249452"	"1"	"143"	1	"TCF7L1"	"HGNC"	11640	"protein_coding"	"YES"	"CCDS1971.1"	"ENSP00000282111"	"Q9HCS4"	"Q53T87,C9JPE3"	"UPI0000136846"	"NM_031283.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATGT"	"733885dc-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4195"	"TCF7L1"	83439	"mskcc.org"	"GRCh37"	"2"	85539290	85539291	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"rs35316636"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000282111"	""	6	"."	4	1	"."	0	"TCF7L1,downstream_gene_variant,,ENST00000282111,NM_031283.2;AC093162.5,upstream_gene_variant,,ENST00000501107,;"	"A"	"ENSG00000152284"	"ENST00000282111"	"Transcript"	"downstream_gene_variant"	"-/2968"	"-/1767"	"-/588"	""	""	"rs35316636"	"1"	"1779"	1	"TCF7L1"	"HGNC"	11640	"protein_coding"	"YES"	"CCDS1971.1"	"ENSP00000282111"	"Q9HCS4"	"Q53T87,C9JPE3"	"UPI0000136846"	"NM_031283.2"	NA	NA	""	""	""	"-:0.3245"	"A:0.6301"	"A:0.7262"	NA	"A:0.8621"	"A:0.5209"	"A:0.6677"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"99846990-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4196"	"ATOH8"	84913	"mskcc.org"	"GRCh37"	"2"	85983302	85983307	"+"	"Intron"	"DEL"	"GGGGTG"	"GGGGTG"	"-"	"rs148127969"	NA	"JHCCPT5"	"JHCCPN5"	"GGGGTG"	"GGGGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.768+1238_768+1243delTGGGGG"	""	""	"ENST00000306279"	""	6	"."	3	2	"."	0	"ATOH8,intron_variant,,ENST00000306279,NM_032827.6;ATOH8,intron_variant,,ENST00000463422,;ATOH8,intron_variant,,ENST00000469442,;ATOH8,upstream_gene_variant,,ENST00000473116,;"	"-"	"ENSG00000168874"	"ENST00000306279"	"Transcript"	"intron_variant"	"-/2438"	"-/966"	"-/321"	""	""	"rs148127969"	"1"	NA	1	"ATOH8"	"HGNC"	24126	"protein_coding"	"YES"	"CCDS1985.1"	"ENSP00000304676"	"Q96SQ7"	""	"UPI0000456DEB"	"NM_032827.6"	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"16"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGGGGTGG"	"738d1606-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4197"	"ST3GAL5"	8869	"mskcc.org"	"GRCh37"	"2"	86080389	86080390	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs148225035"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.319-5063dupA"	""	""	"ENST00000377332"	""	22	"."	4	8	"."	0	"ST3GAL5,intron_variant,,ENST00000377332,NM_003896.3;ST3GAL5,intron_variant,,ENST00000393805,;ST3GAL5,intron_variant,,ENST00000393808,NM_001042437.1;ST3GAL5,intron_variant,,ENST00000525834,;ST3GAL5,intron_variant,,ENST00000455892,;ST3GAL5,intron_variant,,ENST00000461892,;ST3GAL5,intron_variant,,ENST00000461199,;ST3GAL5,intron_variant,,ENST00000473122,;ST3GAL5,upstream_gene_variant,,ENST00000487896,;ST3GAL5,intron_variant,,ENST00000306262,;ST3GAL5,intron_variant,,ENST00000433665,;ST3GAL5,upstream_gene_variant,,ENST00000461206,;"	"T"	"ENSG00000115525"	"ENST00000377332"	"Transcript"	"intron_variant"	"-/2366"	"-/1257"	"-/418"	""	""	"rs148225035"	"1"	NA	-1	"ST3GAL5"	"HGNC"	10872	"protein_coding"	"YES"	"CCDS1986.2"	"ENSP00000366549"	"Q9UNP4"	"C9JYS9"	"UPI000015F319"	"NM_003896.3"	NA	NA	""	"3/6"	""	"T:0.0485"	"T:0.0038"	"T:0.0461"	NA	"T:0.1409"	"T:0.0457"	"T:0.0184"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"99a925fa-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"4198"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	90469497	90469498	"+"	"IGR"	"INS"	"-"	"-"	"G"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	3	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"9a07e66c-280f-11e6-b562-0633424a729f"	"81"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4199"	"RP11-575H3.1"	101926969	"mskcc.org"	"GRCh37"	"2"	91764888	91764901	"+"	"5'Flank"	"DEL"	"TGTGTGTGTGTGTG"	"TGTGTGTGTGTGTG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTGTGTGTGTG"	"TGTGTGTGTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000567067"	""	6	"."	3	3	"."	0	"RP11-575H3.1,upstream_gene_variant,,ENST00000567067,;AC018696.4,upstream_gene_variant,,ENST00000454518,;"	"-"	"ENSG00000261600"	"ENST00000567067"	"Transcript"	"upstream_gene_variant"	"-/528"	""	""	""	""	""	"1"	"3492"	1	"RP11-575H3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATGTGTGTGTGTGTGT"	"743d8b6c-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4200"	"RP11-575H3.1"	101926969	"mskcc.org"	"GRCh37"	"2"	91769863	91769864	"+"	"3'Flank"	"INS"	"-"	"-"	"TT"	"rs112580626"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000567067"	""	11	"."	3	4	"."	0	"RP11-575H3.1,downstream_gene_variant,,ENST00000567067,;AC018696.4,downstream_gene_variant,,ENST00000454518,;"	"TT"	"ENSG00000261600"	"ENST00000567067"	"Transcript"	"downstream_gene_variant"	"-/528"	""	""	""	""	"rs112580626"	"1"	"943"	1	"RP11-575H3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"9a147198-280f-11e6-b562-0633424a729f"	"153"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4201"	"AC116050.1"	0	"mskcc.org"	"GRCh37"	"2"	91783666	91783666	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs58429137"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.400+5737delG"	""	""	"ENST00000443031"	""	11	"."	4	7	"."	0	"AC116050.1,intron_variant,,ENST00000443031,;"	"-"	"ENSG00000233991"	"ENST00000443031"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1804"	""	""	""	""	"rs58429137"	"1"	NA	1	"AC116050.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	"-:0.4816"	"-:0.4818"	"-:0.4798"	NA	"-:0.4772"	"-:0.4871"	"-:0.4816"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGG"	"746865bc-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4202"	"AC116050.1"	0	"mskcc.org"	"GRCh37"	"2"	91784574	91784579	"+"	"Intron"	"DEL"	"TTAACT"	"TTAACT"	"-"	"rs200306342"	NA	"JHCCPT5"	"JHCCPN5"	"TTAACT"	"TTAACT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.401-6302_401-6297delCTTTAA"	""	""	"ENST00000443031"	""	17	"."	4	4	"."	0	"AC116050.1,intron_variant,,ENST00000443031,;"	"-"	"ENSG00000233991"	"ENST00000443031"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1804"	""	""	""	""	"rs200306342"	"1"	NA	1	"AC116050.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	"-:0.4950"	"-:0.4917"	"-:0.4942"	NA	"-:0.495"	"-:0.497"	"-:0.498"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATTAACTT"	"7469d6ae-280f-11e6-b562-0633424a729f"	"220"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"4203"	"AC116050.1"	0	"mskcc.org"	"GRCh37"	"2"	91785551	91785558	"+"	"Intron"	"DEL"	"TTGTTGTT"	"TTGTTGTT"	"-"	"rs201524071"	NA	"JHCCPT5"	"JHCCPN5"	"TTGTTGTT"	"TTGTTGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.401-5324_401-5317delGTTTTGTT"	""	""	"ENST00000443031"	""	14	"."	4	4	"."	0	"AC116050.1,intron_variant,,ENST00000443031,;"	"-"	"ENSG00000233991"	"ENST00000443031"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1804"	""	""	""	""	"rs201524071"	"1"	NA	1	"AC116050.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTGTTGTTT"	"746af868-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"4204"	"AC116050.1"	0	"mskcc.org"	"GRCh37"	"2"	91807561	91807577	"+"	"Intron"	"DEL"	"ATATATAAAATGGGGTA"	"ATATATAAAATGGGGTA"	"-"	"rs11274823"	NA	"JHCCPT5"	"JHCCPN5"	"ATATATAAAATGGGGTA"	"ATATATAAAATGGGGTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1617-1696_1617-1680delTATAAAATGGGGTAATA"	""	""	"ENST00000443031"	""	12	"."	5	1	"."	0	"AC027612.6,intron_variant,,ENST00000609777,;AC116050.1,intron_variant,,ENST00000443031,;"	"-"	"ENSG00000233991"	"ENST00000443031"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1804"	""	""	""	""	"rs11274823"	"1"	NA	1	"AC116050.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/4"	""	"-:0.4956"	"-:0.4962"	"-:0.4942"	NA	"-:0.498"	"-:0.498"	"-:0.4908"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTATATATAAAATGGGGTAA"	"74a4c430-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"4205"	"AC116050.1"	0	"mskcc.org"	"GRCh37"	"2"	91812282	91812283	"+"	"3'Flank"	"INS"	"-"	"-"	"CGAG"	"rs56305312"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000443031"	""	11	"."	4	3	"."	0	"AC027612.6,intron_variant,,ENST00000609777,;AC027612.6,downstream_gene_variant,,ENST00000608501,;AC116050.1,downstream_gene_variant,,ENST00000443031,;"	"CGAG"	"ENSG00000233991"	"ENST00000443031"	"Transcript"	"downstream_gene_variant"	"-/1804"	""	""	""	""	"rs56305312"	"1"	"2835"	1	"AC116050.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"9a4cd15a-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4206"	"AC027612.6"	654342	"mskcc.org"	"GRCh37"	"2"	91828280	91828281	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs111972313"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.387-4298dupA"	""	""	"ENST00000544283"	""	13	"."	5	2	"."	0	"AC027612.6,intron_variant,,ENST00000609777,;AC027612.6,intron_variant,,ENST00000544283,;AC027612.6,intron_variant,,ENST00000608018,;AC027612.6,intron_variant,,ENST00000608501,;AC027612.6,downstream_gene_variant,,ENST00000608531,;AC027612.6,intron_variant,,ENST00000271699,;"	"T"	"ENSG00000143429"	"ENST00000544283"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1104"	""	""	""	""	"rs111972313"	"1"	NA	-1	"AC027612.6"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"9a519910-280f-11e6-b562-0633424a729f"	"270"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"4207"	"AC027612.1"	0	"mskcc.org"	"GRCh37"	"2"	91937019	91937019	"+"	"RNA"	"DEL"	"A"	"A"	"-"	"rs70962406"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.3delT"	""	""	"ENST00000536556"	"1/1"	28	"."	7	6	"."	0	"AC027612.1,non_coding_transcript_exon_variant,,ENST00000536556,;AC027612.4,intron_variant,,ENST00000445234,;AC027612.1,upstream_gene_variant,,ENST00000413684,;"	"-"	"ENSG00000232531"	"ENST00000536556"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"3/1056"	""	""	""	""	"rs70962406"	"1"	NA	-1	"AC027612.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"-:0.4786"	"-:0.7678"	"-:0.2464"	NA	"-:0.5159"	"-:0.3231"	"-:0.3742"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAA"	"74be3d8e-280f-11e6-b562-0633424a729f"	"369"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4208"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	92057933	92057934	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs79493201"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	3	3	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs79493201"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"9a5843aa-280f-11e6-b562-0633424a729f"	"35"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4209"	"STARD7"	56910	"mskcc.org"	"GRCh37"	"2"	96852855	96852857	"+"	"Intron"	"DEL"	"AAG"	"AAG"	"-"	"rs199821880"	NA	"JHCCPT5"	"JHCCPN5"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.928+98_928+100delCTT"	""	""	"ENST00000337288"	""	50	"."	5	14	"."	0	"STARD7,intron_variant,,ENST00000337288,NM_020151.3;STARD7,intron_variant,,ENST00000462501,;STARD7,intron_variant,,ENST00000479456,;"	"-"	"ENSG00000084090"	"ENST00000337288"	"Transcript"	"intron_variant"	"-/3368"	"-/1113"	"-/370"	""	""	"rs199821880"	"1"	NA	-1	"STARD7"	"HGNC"	18063	"protein_coding"	"YES"	"CCDS2017.2"	"ENSP00000338030"	"Q9NQZ5"	"C9JTD3"	"UPI0000001C0C"	"NM_020151.3"	NA	NA	""	"7/7"	""	"-:0.0096"	"-:0.0015"	"-:0.0173"	NA	"-:0.001"	"-:0.0139"	"-:0.0194"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAGA"	"750b4476-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WXS"	FALSE
"4210"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	97148018	97148030	"+"	"IGR"	"DEL"	"AAAAAGAAAAGAA"	"AAAAAGAAAAGAA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAAGAAAAGAA"	"AAAAAGAAAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAAAAGAAAAGAAA"	"7513d9ba-280f-11e6-b562-0633424a729f"	"192"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"4211"	"VWA3B"	200403	"mskcc.org"	"GRCh37"	"2"	98796347	98796348	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs142226331"	NA	"JHCCPT5"	"JHCCPN5"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1115-1124_1115-1123delCT"	""	""	"ENST00000477737"	""	10	"."	4	5	"."	0	"VWA3B,intron_variant,,ENST00000477737,NM_144992.4;VWA3B,intron_variant,,ENST00000435344,;VWA3B,intron_variant,,ENST00000451075,;VWA3B,intron_variant,,ENST00000432242,;VWA3B,intron_variant,,ENST00000409460,;VWA3B,intron_variant,,ENST00000416277,;VWA3B,intron_variant,,ENST00000433678,;VWA3B,intron_variant,,ENST00000448638,;VWA3B,intron_variant,,ENST00000422503,;"	"-"	"ENSG00000168658"	"ENST00000477737"	"Transcript"	"intron_variant"	"-/4454"	"-/3885"	"-/1294"	""	""	"rs142226331"	"1"	NA	1	"VWA3B"	"HGNC"	28385	"protein_coding"	"YES"	"CCDS42718.1"	"ENSP00000417955"	"Q502W6"	"Q53RD3"	"UPI0000E9B173"	"NM_144992.4"	NA	NA	""	"8/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCTC"	"755689a4-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4212"	"AFF3"	3899	"mskcc.org"	"GRCh37"	"2"	100235355	100235356	"+"	"Intron"	"INS"	"-"	"-"	"ATTCATTC"	"rs112677518"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1260-17280_1260-17273dupGAATGAAT"	""	""	"ENST00000356421"	""	13	"."	3	2	"."	0	"AFF3,intron_variant,,ENST00000409236,;AFF3,intron_variant,,ENST00000317233,NM_002285.2;AFF3,intron_variant,,ENST00000356421,NM_001025108.1;AFF3,intron_variant,,ENST00000409579,;"	"ATTCATTC"	"ENSG00000144218"	"ENST00000356421"	"Transcript"	"intron_variant"	"-/8118"	"-/3756"	"-/1251"	""	""	"rs112677518"	"1"	NA	-1	"AFF3"	"HGNC"	6473	"protein_coding"	"YES"	"CCDS33258.1"	"ENSP00000348793"	"P51826"	""	"UPI000041098C"	"NM_001025108.1"	NA	NA	""	"12/23"	""	"ATTCATTCATTCATTC:0.0052"	"ATTCATTCATTCATTC:0.0106"	"ATTCATTCATTCATTC:0.0043"	NA	"ATTCATTCATTCATTC:0.003"	"ATTCATTCATTCATTC:0.002"	"ATTCATTCATTCATTC:0.0041"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"9ae2979e-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	TRUE
"4213"	"LONRF2"	164832	"mskcc.org"	"GRCh37"	"2"	100916481	100916482	"+"	"Intron"	"INS"	"-"	"-"	"GG"	"rs770492793"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1066-103_1066-102dupCC"	""	""	"ENST00000393437"	""	9	"."	4	3	"."	0	"LONRF2,intron_variant,,ENST00000393437,NM_198461.3;LONRF2,intron_variant,,ENST00000409647,;"	"GG"	"ENSG00000170500"	"ENST00000393437"	"Transcript"	"intron_variant"	"-/13912"	"-/2265"	"-/754"	""	""	"rs770492793"	"1"	NA	-1	"LONRF2"	"HGNC"	24788	"protein_coding"	"YES"	"CCDS2046.2"	"ENSP00000377086"	"Q1L5Z9"	""	"UPI000152B4EF"	"NM_198461.3"	NA	NA	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"9aeb5de8-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4214"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	102244599	102244599	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs35884799"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35884799"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2626"	"-:0.0159"	"-:0.3256"	NA	"-:0.5556"	"-:0.174"	"-:0.3405"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"766295ae-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4215"	"MRPS9"	64965	"mskcc.org"	"GRCh37"	"2"	105665448	105665448	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs35523646"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.136-178delG"	""	""	"ENST00000258455"	""	23	"."	13	7	"."	0	"MRPS9,intron_variant,,ENST00000258455,NM_182640.2;"	"-"	"ENSG00000135972"	"ENST00000258455"	"Transcript"	"intron_variant"	"-/1500"	"-/1191"	"-/396"	""	""	"rs35523646"	"1"	NA	1	"MRPS9"	"HGNC"	14501	"protein_coding"	"YES"	"CCDS2065.1"	"ENSP00000258455"	"P82933"	"Q86WV4"	"UPI00000467F9"	"NM_182640.2"	NA	NA	""	"1/10"	""	"-:0.1761"	"-:0.1664"	"-:0.2824"	NA	"-:0.1091"	"-:0.2247"	"-:0.1329"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGG"	"76ecdbce-280f-11e6-b562-0633424a729f"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.565217391304348	"WXS"	FALSE
"4216"	"AC114755.3"	0	"mskcc.org"	"GRCh37"	"2"	106962482	106962483	"+"	"3'Flank"	"INS"	"-"	"-"	"TGTG"	"rs141209699"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000453101"	""	14	"."	3	4	"."	0	"AC114755.3,downstream_gene_variant,,ENST00000453101,;"	"TGTG"	"ENSG00000227513"	"ENST00000453101"	"Transcript"	"downstream_gene_variant"	"-/868"	""	""	""	""	"rs141209699"	"1"	"593"	1	"AC114755.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4545"	"TGTG:0.2973"	"TGTG:0.6628"	NA	"TGTG:0.5496"	"TGTG:0.6938"	"TGTG:0.6411"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"9b36229c-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"4217"	"AC114755.7"	0	"mskcc.org"	"GRCh37"	"2"	106985499	106985500	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs11438164"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000447760"	""	12	"."	5	1	"."	0	"AC114755.7,upstream_gene_variant,,ENST00000447760,;AC114755.5,upstream_gene_variant,,ENST00000413520,;"	"A"	"ENSG00000235486"	"ENST00000447760"	"Transcript"	"upstream_gene_variant"	"-/831"	""	""	""	""	"rs11438164"	"1"	"680"	1	"AC114755.7"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1382"	"A:0.9002"	"A:0.8156"	NA	"A:0.8621"	"A:0.826"	"A:0.8793"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"9b3a197e-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"4218"	"SH3RF3"	344558	"mskcc.org"	"GRCh37"	"2"	109811665	109811670	"+"	"Intron"	"DEL"	"TAGGAC"	"TAGGAC"	"-"	"rs67222351"	NA	"JHCCPT5"	"JHCCPN5"	"TAGGAC"	"TAGGAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.573+65115_573+65120delAGGACT"	""	""	"ENST00000309415"	""	7	"."	3	1	"."	0	"SH3RF3,intron_variant,,ENST00000309415,NM_001099289.1;SH3RF3,intron_variant,,ENST00000418513,;"	"-"	"ENSG00000172985"	"ENST00000309415"	"Transcript"	"intron_variant"	"-/2649"	"-/2649"	"-/882"	""	""	"rs67222351"	"1"	NA	1	"SH3RF3"	"HGNC"	24699	"protein_coding"	"YES"	""	"ENSP00000309186"	"Q8TEJ3"	"C9JNJ4"	"UPI0000DD7AEA"	"NM_001099289.1"	NA	NA	""	"1/9"	""	"TAGGAC:0.1514"	"-:0.7678"	"-:0.8804"	NA	"-:0.8998"	"-:0.8419"	"-:0.8896"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"19"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATAGGACT"	"776b7c22-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4219"	"ACOXL"	55289	"mskcc.org"	"GRCh37"	"2"	111694956	111694957	"+"	"Intron"	"INS"	"-"	"-"	"TC"	"rs3059310"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1059+3737_1059+3738insTC"	""	""	"ENST00000439055"	""	7	"."	3	4	"."	0	"ACOXL,intron_variant,,ENST00000389811,;ACOXL,intron_variant,,ENST00000439055,NM_001142807.1;ACOXL,intron_variant,,ENST00000417074,;ACOXL,intron_variant,,ENST00000433706,;"	"TC"	"ENSG00000153093"	"ENST00000439055"	"Transcript"	"intron_variant"	"-/2373"	"-/1743"	"-/580"	""	""	"rs3059310"	"1"	NA	1	"ACOXL"	"HGNC"	25621	"protein_coding"	"YES"	"CCDS46389.1"	"ENSP00000407761"	"Q9NUZ1"	"C9JQI3"	"UPI0001884BE2"	"NM_001142807.1"	NA	NA	""	"12/17"	""	"TC:0.4886"	"TC:0.3026"	"TC:0.4942"	NA	"TC:0.6171"	"TC:0.5408"	"TC:0.5501"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"9b65676e-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4220"	"AC093166.3"	0	"mskcc.org"	"GRCh37"	"2"	112501647	112501650	"+"	"RNA"	"DEL"	"CCTG"	"CCTG"	"-"	"rs146455756"	NA	"JHCCPT5"	"JHCCPN5"	"CCTG"	"CCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.440_443delGCCT"	""	""	"ENST00000455969"	"3/3"	21	"."	4	6	"."	0	"AC093166.3,non_coding_transcript_exon_variant,,ENST00000455969,;"	"-"	"ENSG00000228615"	"ENST00000455969"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"425-428/1017"	""	""	""	""	"rs146455756"	"1"	NA	1	"AC093166.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCCTGC"	"77d5852c-280f-11e6-b562-0633424a729f"	"198"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"4221"	"CHCHD5"	84269	"mskcc.org"	"GRCh37"	"2"	113341671	113341671	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"rs3833479"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000324913"	""	7	"."	4	1	"."	0	"CHCHD5,upstream_gene_variant,,ENST00000409719,;CHCHD5,upstream_gene_variant,,ENST00000324913,NM_032309.2;AC012442.5,upstream_gene_variant,,ENST00000414784,;Y_RNA,upstream_gene_variant,,ENST00000384653,;CHCHD5,upstream_gene_variant,,ENST00000489052,;CHCHD5,upstream_gene_variant,,ENST00000469030,;CHCHD5,upstream_gene_variant,,ENST00000454841,;"	"-"	"ENSG00000125611"	"ENST00000324913"	"Transcript"	"upstream_gene_variant"	"-/691"	"-/333"	"-/110"	""	""	"rs3833479"	"1"	"347"	1	"CHCHD5"	"HGNC"	17840	"protein_coding"	"YES"	"CCDS2098.1"	"ENSP00000325655"	"Q9BSY4"	""	"UPI0000034E2C"	"NM_032309.2"	NA	NA	""	""	""	"-:0.2462"	"-:0.0174"	"-:0.2939"	NA	"-:0.2629"	"-:0.3787"	"-:0.3681"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAG"	"7824a2d8-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4222"	"IL1A"	3552	"mskcc.org"	"GRCh37"	"2"	113533263	113533264	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs3783549"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.616-420dupC"	""	""	"ENST00000263339"	""	7	"."	5	2	"."	0	"IL1A,intron_variant,,ENST00000263339,NM_000575.3;"	"G"	"ENSG00000115008"	"ENST00000263339"	"Transcript"	"intron_variant"	"-/2124"	"-/816"	"-/271"	""	""	"rs3783549"	"1"	NA	-1	"IL1A"	"HGNC"	5991	"protein_coding"	"YES"	"CCDS2101.1"	"ENSP00000263339"	"P01583"	""	"UPI0000000CCF"	"NM_000575.3"	NA	NA	""	"6/6"	""	"-:0.3804"	"G:0.8033"	"G:0.5259"	NA	"G:0.2937"	"G:0.6779"	"G:0.7137"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"9b8cab6c-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4223"	"FAM138B"	677784	"mskcc.org"	"GRCh37"	"2"	114340113	114340139	"+"	"3'Flank"	"DEL"	"AGAGAGAGAGAGAAATGAGATAGAGAT"	"AGAGAGAGAGAGAAATGAGATAGAGAT"	"-"	"rs199961199"	NA	"JHCCPT5"	"JHCCPN5"	"AGAGAGAGAGAGAAATGAGATAGAGAT"	"AGAGAGAGAGAGAAATGAGATAGAGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000446648"	""	15	"."	4	9	"."	0	"FAM138B,downstream_gene_variant,,ENST00000432583,;FAM138B,downstream_gene_variant,,ENST00000446648,;MIR1302-3,downstream_gene_variant,,ENST00000408128,;WASH2P,upstream_gene_variant,,ENST00000326632,;"	"-"	"ENSG00000226516"	"ENST00000446648"	"Transcript"	"downstream_gene_variant"	"-/1130"	""	""	""	""	"rs199961199"	"1"	"3684"	1	"FAM138B"	"HGNC"	33582	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGAGAGAGAGAGAAATGAGATAGAGATA"	"785438fe-280f-11e6-b562-0633424a729f"	"124"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"4224"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	115102958	115102958	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs5833540"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5833540"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.0282"	"-:0.8964"	"-:0.9971"	NA	"-:1"	"-:0.999"	"-:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"787951fc-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4225"	"DPP10"	57628	"mskcc.org"	"GRCh37"	"2"	116439370	116439377	"+"	"Intron"	"DEL"	"CTTCCTTC"	"CTTCCTTC"	"-"	"rs72467503"	NA	"JHCCPT5"	"JHCCPN5"	"CTTCCTTC"	"CTTCCTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.454-7873_454-7866delCTTCCTTC"	""	""	"ENST00000393147"	""	10	"."	6	3	"."	0	"DPP10,intron_variant,,ENST00000410059,NM_001178037.1,NM_020868.3;DPP10,intron_variant,,ENST00000409163,NM_001178036.1;DPP10,intron_variant,,ENST00000310323,NM_001004360.3;DPP10,intron_variant,,ENST00000393147,NM_001178034.1;DPP10,intron_variant,,ENST00000393146,;DPP10,intron_variant,,ENST00000488208,;DPP10,intron_variant,,ENST00000429914,;"	"-"	"ENSG00000175497"	"ENST00000393147"	"Transcript"	"intron_variant"	"-/2758"	"-/2403"	"-/800"	""	""	"rs72467503"	"1"	NA	1	"DPP10"	"HGNC"	20823	"protein_coding"	"YES"	"CCDS54388.1"	"ENSP00000376855"	"Q8N608"	"J3KQK8,C9J4M8"	"UPI00015E0A22"	"NM_001178034.1"	NA	NA	""	"5/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTCTTCCTTCC"	"78829424-280f-11e6-b562-0633424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"4226"	"DDX18"	8886	"mskcc.org"	"GRCh37"	"2"	118577154	118577154	"+"	"Intron"	"DEL"	"T"	"-"	"-"	"rs139417430"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.371-71delT"	""	""	"ENST00000263239"	""	7	"."	5	2	"."	0	"DDX18,intron_variant,,ENST00000263239,NM_006773.3;DDX18,upstream_gene_variant,,ENST00000415038,;DDX18,intron_variant,,ENST00000474694,;DDX18,upstream_gene_variant,,ENST00000476149,;DDX18,upstream_gene_variant,,ENST00000489933,;"	"-"	"ENSG00000088205"	"ENST00000263239"	"Transcript"	"intron_variant"	"-/3796"	"-/2013"	"-/670"	""	""	"rs139417430"	"1"	NA	1	"DDX18"	"HGNC"	2741	"protein_coding"	"YES"	"CCDS2120.1"	"ENSP00000263239"	"Q9NVP1"	"Q53TI6,Q4ZG72"	"UPI000012907E"	"NM_006773.3"	NA	NA	""	"2/13"	""	"-:0.0377"	"-:0.0295"	"-:0.0331"	NA	"-:0"	"-:0.0746"	"-:0.0532"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTG"	"78a3d292-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4227"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	119453450	119453579	"+"	"IGR"	"DEL"	"AGAAAGAAAGATGGAAAGAAAGAAAGAAGAGAAGAGAAGAGAAGAGAAAGGGAGGGAGGGAGAGAAAGAAGGAAGGAAGGGAGGGAGGGAAAGAAAGAAGGAAGGAAAGAAGAAAGAAAGAGAAAGAAAG"	"AGAAAGAAAGATGGAAAGAAAGAAAGAAGAGAAGAGAAGAGAAGAGAAAGGGAGGGAGGGAGAGAAAGAAGGAAGGAAGGGAGGGAGGGAAAGAAAGAAGGAAGGAAAGAAGAAAGAAAGAGAAAGAAAG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AGAAAGAAAGATGGAAAGAAAGAAAGAAGAGAAGAGAAGAGAAGAGAAAGGGAGGGAGGGAGAGAAAGAAGGAAGGAAGGGAGGGAGGGAAAGAAAGAAGGAAGGAAAGAAGAAAGAAAGAGAAAGAAAG"	"AGAAAGAAAGATGGAAAGAAAGAAAGAAGAGAAGAGAAGAGAAGAGAAAGGGAGGGAGGGAGAGAAAGAAGGAAGGAAGGGAGGGAGGGAAAGAAAGAAGGAAGGAAAGAAGAAAGAAAGAGAAAGAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"."	3	11	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGAAAGAAAGATGGAAAGAAAGAAAGAAGAGAAGAGAAGAGAAGAGAAAGGGAGGGAGGGAGAGAAAGAAGGAAGGAAGGGAGGGAGGGAAAGAAAGAAGGAAGGAAAGAAGAAAGAAAGAGAAAGAAAGA"	"78ced244-280f-11e6-b562-0633424a729f"	"166"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"4228"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	119453574	119453579	"+"	"IGR"	"DEL"	"AGAAAG"	"AGAAAG"	"-"	"rs140818273"	NA	"JHCCPT5"	"JHCCPN5"	"AGAAAG"	"AGAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	36	"."	3	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140818273"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGAAAGA"	"78d1d7be-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WXS"	FALSE
"4229"	"TMEM185B"	79134	"mskcc.org"	"GRCh37"	"2"	120981090	120981098	"+"	"5'Flank"	"DEL"	"CCGCGCTCG"	"CCGCGCTCG"	"-"	"rs148089883"	NA	"JHCCPT5"	"JHCCPN5"	"CCGCGCTCG"	"CCGCGCTCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000426077"	""	6	"."	4	2	"."	0	"TMEM185B,upstream_gene_variant,,ENST00000426077,NM_024121.2;"	"-"	"ENSG00000226479"	"ENST00000426077"	"Transcript"	"upstream_gene_variant"	"-/2131"	"-/1053"	"-/350"	""	""	"rs148089883"	"1"	"106"	-1	"TMEM185B"	"HGNC"	18896	"protein_coding"	"YES"	"CCDS58722.1"	"ENSP00000453399"	"Q9H7F4"	""	"UPI0000074167"	"NM_024121.2"	NA	NA	""	""	""	"-:0.1528"	"-:0.3835"	"-:0.0807"	NA	"-:0.0397"	"-:0.1083"	"-:0.0542"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCCGCGCTCGC"	"7940d10a-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4230"	"RALB"	5899	"mskcc.org"	"GRCh37"	"2"	120997869	120997869	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs200721096"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.19+168delA"	""	""	"ENST00000474855"	""	19	"."	4	3	"."	0	"RALB,intron_variant,,ENST00000474855,;RALB,intron_variant,,ENST00000447591,;"	"-"	"ENSG00000144118"	"ENST00000474855"	"Transcript"	"intron_variant"	"-/1583"	"-/687"	"-/228"	""	""	"rs200721096"	"1"	NA	1	"RALB"	"HGNC"	9840	"protein_coding"	""	""	"ENSP00000438764"	""	"C9JYR1,C9JQB3,C9J6B1,B4E040"	"UPI00017A8390"	""	NA	NA	""	"1/4"	""	"-:0.3650"	"-:0.4735"	"-:0.3415"	NA	"-:0.3323"	"-:0.3569"	"-:0.2771"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAT"	"7941a832-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"4231"	"ENSR00000677510"	0	"mskcc.org"	"GRCh37"	"2"	121353511	121353512	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs34624760"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000677510"	""	8	"."	3	3	"."	0	""	"G"	""	"ENSR00000677510"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs34624760"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4577"	"G:0.3548"	"G:0.5072"	NA	"G:0.8433"	"G:0.4235"	"G:0.6329"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"9bd9eaa8-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4232"	"GLI2"	2736	"mskcc.org"	"GRCh37"	"2"	121555235	121555236	"+"	"Intron"	"INS"	"-"	"-"	"CCA"	"rs78905384"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.148+194_148+196dupACC"	""	""	"ENST00000452319"	""	12	"."	5	5	"."	0	"GLI2,intron_variant,,ENST00000452319,;GLI2,intron_variant,,ENST00000361492,NM_005270.4;GLI2,intron_variant,,ENST00000314490,;GLI2,intron_variant,,ENST00000360874,;GLI2,intron_variant,,ENST00000418323,;GLI2,intron_variant,,ENST00000435313,;GLI2,intron_variant,,ENST00000482119,;GLI2,intron_variant,,ENST00000445186,;GLI2,intron_variant,,ENST00000341310,;GLI2,intron_variant,,ENST00000438299,;GLI2,intron_variant,,ENST00000452692,;GLI2,intron_variant,,ENST00000437950,;GLI2,intron_variant,,ENST00000433812,;GLI2,intron_variant,,ENST00000472722,;"	"CCA"	"ENSG00000074047"	"ENST00000452319"	"Transcript"	"intron_variant"	"-/6799"	"-/4761"	"-/1586"	""	""	"rs78905384"	"1"	NA	1	"GLI2"	"HGNC"	4318	"protein_coding"	"YES"	"CCDS33283.1"	"ENSP00000390436"	"P10070"	"Q6RSW2,Q59FV5,Q1PSW9"	"UPI000053FCB4"	""	NA	NA	""	"2/13"	""	"CCA:0.4373"	"CCA:0.3563"	"CCA:0.5447"	NA	"CCA:0.4514"	"CCA:0.4732"	"CCA:0.4192"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"9bdc9f6e-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"4233"	"TFCP2L1"	29842	"mskcc.org"	"GRCh37"	"2"	121989684	121989693	"+"	"Intron"	"DEL"	"TTTTGTTTTG"	"TTTTGTTTTG"	"-"	"rs200655030"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTGTTTTG"	"TTTTGTTTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1199-149_1199-140delCAAAACAAAA"	""	""	"ENST00000263707"	""	22	"."	3	6	"."	0	"TFCP2L1,intron_variant,,ENST00000263707,NM_014553.2;TFCP2L1,intron_variant,,ENST00000464621,;"	"-"	"ENSG00000115112"	"ENST00000263707"	"Transcript"	"intron_variant"	"-/9292"	"-/1440"	"-/479"	""	""	"rs200655030"	"1"	NA	-1	"TFCP2L1"	"HGNC"	17925	"protein_coding"	"YES"	"CCDS2134.1"	"ENSP00000263707"	"Q9NZI6"	"Q5JV87,Q53RS7"	"UPI0000072817"	"NM_014553.2"	NA	NA	""	"12/14"	""	"TTTTGTTTTG:0.4305"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTTTGTTTTGT"	"797579e6-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"4234"	"CLASP1"	23332	"mskcc.org"	"GRCh37"	"2"	122215030	122215031	"+"	"Intron"	"INS"	"-"	"-"	"AC"	"rs753105912"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1385+231_1385+232dupGT"	""	""	"ENST00000263710"	""	22	"."	3	3	"."	0	"CLASP1,intron_variant,,ENST00000263710,NM_015282.2;CLASP1,intron_variant,,ENST00000409078,;CLASP1,intron_variant,,ENST00000455322,;CLASP1,intron_variant,,ENST00000397587,NM_001142274.1,NM_001142273.1;CLASP1,intron_variant,,ENST00000541377,NM_001207051.1;CLASP1,intron_variant,,ENST00000541859,;CLASP1,intron_variant,,ENST00000545861,;CLASP1,downstream_gene_variant,,ENST00000418989,;CLASP1,downstream_gene_variant,,ENST00000449975,;CLASP1,downstream_gene_variant,,ENST00000430234,;CLASP1,intron_variant,,ENST00000452274,;CLASP1,downstream_gene_variant,,ENST00000491646,;"	"AC"	"ENSG00000074054"	"ENST00000263710"	"Transcript"	"intron_variant"	"-/8090"	"-/4617"	"-/1538"	""	""	"rs753105912"	"1"	NA	-1	"CLASP1"	"HGNC"	17088	"protein_coding"	"YES"	""	"ENSP00000263710"	"Q7Z460"	"C9JP76,C9J151"	"UPI00001A8BFF"	"NM_015282.2"	NA	NA	""	"14/39"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"9be4e17e-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"4235"	"CNTNAP5"	129684	"mskcc.org"	"GRCh37"	"2"	125470815	125470820	"+"	"Intron"	"DEL"	"TCTTTC"	"TCTTTC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TCTTTC"	"TCTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2075-33984_2075-33979delCTTTCT"	""	""	"ENST00000431078"	""	9	"."	3	3	"."	0	"CNTNAP5,intron_variant,,ENST00000431078,NM_130773.3;"	"-"	"ENSG00000155052"	"ENST00000431078"	"Transcript"	"intron_variant"	"-/5284"	"-/3921"	"-/1306"	""	""	""	"1"	NA	1	"CNTNAP5"	"HGNC"	18748	"protein_coding"	"YES"	"CCDS46401.1"	"ENSP00000399013"	"Q8WYK1"	""	"UPI0000071988"	"NM_130773.3"	NA	NA	""	"13/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCTTTCT"	"79a38f20-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4236"	"ENSR00001708058"	0	"mskcc.org"	"GRCh37"	"2"	127129004	127129005	"+"	"IGR"	"INS"	"-"	"-"	"CA"	"rs35865308"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001708058"	""	8	"."	4	1	"."	0	""	"CA"	""	"ENSR00001708058"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs35865308"	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"CA:0.2426"	"CA:0.0091"	"CA:0.3386"	NA	"CA:0.3988"	"CA:0.2097"	"CA:0.363"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"9bf91072-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4237"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	127695716	127695716	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs3839038"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs3839038"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4531"	"-:0.1596"	"-:0.4856"	NA	"-:0.6597"	"-:0.6392"	"-:0.4223"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTT"	"79b23304-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4238"	"RP11-521O16.2"	0	"mskcc.org"	"GRCh37"	"2"	127784517	127784518	"+"	"RNA"	"INS"	"-"	"-"	"A"	"rs11422384"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1740dupA"	""	""	"ENST00000564121"	"1/1"	6	"."	4	1	"."	0	"RP11-521O16.2,non_coding_transcript_exon_variant,,ENST00000564121,;RP11-521O16.1,upstream_gene_variant,,ENST00000567613,;"	"A"	"ENSG00000260163"	"ENST00000564121"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1731-1732/4476"	""	""	""	""	"rs11422384"	"1"	NA	1	"RP11-521O16.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"-:0.4964"	"A:0.5991"	"A:0.4092"	NA	"A:0.4067"	"A:0.5159"	"A:0.5286"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"9bff50ae-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4239"	"BIN1"	274	"mskcc.org"	"GRCh37"	"2"	127803074	127803075	"+"	"3'Flank"	"INS"	"-"	"-"	"C"	"rs143459271"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000316724"	""	15	"."	5	2	"."	0	"BIN1,downstream_gene_variant,,ENST00000316724,NM_139343.2;BIN1,downstream_gene_variant,,ENST00000357970,NM_139344.2;BIN1,downstream_gene_variant,,ENST00000346226,NM_139347.2;BIN1,downstream_gene_variant,,ENST00000351659,NM_139345.2;BIN1,downstream_gene_variant,,ENST00000259238,NM_139346.2;BIN1,downstream_gene_variant,,ENST00000393040,NM_139348.2;BIN1,downstream_gene_variant,,ENST00000393041,NM_139349.2;BIN1,downstream_gene_variant,,ENST00000352848,NM_004305.3;BIN1,downstream_gene_variant,,ENST00000409400,NM_139350.2;BIN1,downstream_gene_variant,,ENST00000348750,NM_139351.2;BIN1,downstream_gene_variant,,ENST00000376113,;BIN1,downstream_gene_variant,,ENST00000466111,;BIN1,downstream_gene_variant,,ENST00000484253,;BIN1,downstream_gene_variant,,ENST00000462958,;"	"C"	"ENSG00000136717"	"ENST00000316724"	"Transcript"	"downstream_gene_variant"	"-/2693"	"-/1782"	"-/593"	""	""	"rs143459271"	"1"	"2528"	-1	"BIN1"	"HGNC"	1052	"protein_coding"	"YES"	"CCDS2138.1"	"ENSP00000316779"	"O00499"	""	"UPI0000001303"	"NM_139343.2"	NA	NA	""	""	""	"C:0.4087"	"C:0.3041"	"C:0.4251"	NA	"C:0.4623"	"C:0.3807"	"C:0.5123"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"9c000f76-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4240"	"BIN1"	274	"mskcc.org"	"GRCh37"	"2"	127865133	127865139	"+"	"5'Flank"	"DEL"	"GCCCGGT"	"GCCCGGT"	"-"	"rs112997973"	NA	"JHCCPT5"	"JHCCPN5"	"GCCCGGT"	"GCCCGGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000316724"	""	12	"."	6	1	"."	0	"BIN1,upstream_gene_variant,,ENST00000316724,NM_139343.2;BIN1,upstream_gene_variant,,ENST00000357970,NM_139344.2;BIN1,upstream_gene_variant,,ENST00000346226,NM_139347.2;BIN1,upstream_gene_variant,,ENST00000351659,NM_139345.2;BIN1,upstream_gene_variant,,ENST00000259238,NM_139346.2;BIN1,upstream_gene_variant,,ENST00000393040,NM_139348.2;BIN1,upstream_gene_variant,,ENST00000393041,NM_139349.2;BIN1,upstream_gene_variant,,ENST00000352848,NM_004305.3;BIN1,upstream_gene_variant,,ENST00000409400,NM_139350.2;BIN1,upstream_gene_variant,,ENST00000348750,NM_139351.2;BIN1,upstream_gene_variant,,ENST00000376113,;"	"-"	"ENSG00000136717"	"ENST00000316724"	"Transcript"	"upstream_gene_variant"	"-/2693"	"-/1782"	"-/593"	""	""	"rs112997973"	"1"	"202"	-1	"BIN1"	"HGNC"	1052	"protein_coding"	"YES"	"CCDS2138.1"	"ENSP00000316779"	"O00499"	""	"UPI0000001303"	"NM_139343.2"	NA	NA	""	""	""	"GCCCGGT:0.2500"	"-:0.8427"	"-:0.7032"	NA	"-:0.6042"	"-:0.7535"	"-:0.8047"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCGCCCGGTG"	"79c17c1a-280f-11e6-b562-0633424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4241"	"WDR33"	84826	"mskcc.org"	"GRCh37"	"2"	128481645	128481648	"+"	"Intron"	"DEL"	"AAAT"	"AAAT"	"-"	"rs139698649"	NA	"JHCCPT5"	"JHCCPN5"	"AAAT"	"AAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1196+259_1196+262delATTT"	""	""	"ENST00000322313"	""	18	"."	11	2	"."	0	"WDR33,intron_variant,,ENST00000322313,NM_018383.4;WDR33,downstream_gene_variant,,ENST00000436787,;"	"-"	"ENSG00000136709"	"ENST00000322313"	"Transcript"	"intron_variant"	"-/9471"	"-/4011"	"-/1336"	""	""	"rs139698649"	"1"	NA	-1	"WDR33"	"HGNC"	25651	"protein_coding"	"YES"	"CCDS2150.1"	"ENSP00000325377"	"Q9C0J8"	"C9J8B4,B9A053"	"UPI000013D032"	"NM_018383.4"	NA	NA	""	"11/21"	""	"-:0.4287"	"-:0.5998"	"-:0.2997"	NA	"-:0.3046"	"-:0.3022"	"-:0.547"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAATA"	"79ee807a-280f-11e6-b562-0633424a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.611111111111111	"WXS"	FALSE
"4242"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	129438060	129438061	"+"	"IGR"	"INS"	"-"	"-"	"TTC"	"rs146207558"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"TTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs146207558"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"9c47bf1a-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4243"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	134568018	134568019	"+"	"IGR"	"INS"	"-"	"-"	"AAGAAG"	"rs138450373"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	2	"."	0	""	"AAGAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138450373"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"9c854d1c-280f-11e6-b562-0633424a729f"	"220"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4244"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	134569436	134569437	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs11409211"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	3	6	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11409211"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.4998"	"G:0.5484"	"G:0.6081"	NA	"G:0.3879"	"G:0.5696"	"G:0.4008"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"9c85ea38-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"4245"	"THSD7B"	80731	"mskcc.org"	"GRCh37"	"2"	137662382	137662383	"+"	"Intron"	"INS"	"-"	"-"	"AGAG"	"rs5834524"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.139+22501_139+22504dupGAGA"	""	""	"ENST00000272643"	""	6	"."	4	1	"."	0	"THSD7B,intron_variant,,ENST00000409968,;THSD7B,intron_variant,,ENST00000272643,;THSD7B,intron_variant,,ENST00000472720,;"	"AGAG"	"ENSG00000144229"	"ENST00000272643"	"Transcript"	"intron_variant"	"-/5942"	"-/4830"	"-/1609"	""	""	"rs5834524"	"1"	NA	1	"THSD7B"	"HGNC"	29348	"protein_coding"	"YES"	""	"ENSP00000272643"	"Q9C0I4"	""	"UPI00015E0A18"	""	NA	NA	""	"1/27"	""	"-:0.0128"	"AGAG:0.9531"	"AGAG:0.9971"	NA	"AGAG:1"	"AGAG:1"	"AGAG:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"9cb5fbce-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4246"	"GTDC1"	79712	"mskcc.org"	"GRCh37"	"2"	144806387	144806392	"+"	"Intron"	"DEL"	"ACACAC"	"-"	"-"	"rs113496019"	NA	"JHCCPT5"	"JHCCPN5"	"ACACAC"	"ACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.522-41290_522-41285delGTGTGT"	""	""	"ENST00000392869"	""	6	"."	5	1	"."	0	"GTDC1,intron_variant,,ENST00000392869,NM_001284234.1;GTDC1,intron_variant,,ENST00000409214,NM_001006636.3,NM_001284234.1;GTDC1,intron_variant,,ENST00000542155,NM_001164629.2;GTDC1,intron_variant,,ENST00000344850,;GTDC1,intron_variant,,ENST00000392867,NM_024659.4;GTDC1,intron_variant,,ENST00000241391,;GTDC1,intron_variant,,ENST00000409298,;GTDC1,intron_variant,,ENST00000463875,;GTDC1,intron_variant,,ENST00000476958,;GTDC1,intron_variant,,ENST00000415569,NM_001284238.1;GTDC1,intron_variant,,ENST00000491448,;GTDC1,intron_variant,,ENST00000392871,NM_001284233.1;"	"-"	"ENSG00000121964"	"ENST00000392869"	"Transcript"	"intron_variant"	"-/10514"	"-/1377"	"-/458"	""	""	"rs113496019"	"1"	NA	-1	"GTDC1"	"HGNC"	20887	"protein_coding"	"YES"	"CCDS33300.1"	"ENSP00000376608"	"Q4AE62"	"G5EA49,G1UFN1,C9JIH3,C9J2C5"	"UPI000022BC3B"	"NM_001284234.1"	NA	NA	""	"5/10"	""	"-:0.2276"	"-:0.4213"	"-:0.1643"	NA	"-:0.2688"	"-:0.0487"	"-:0.1524"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATACACACA"	"7bca886c-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4247"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	146601695	146601696	"+"	"IGR"	"INS"	"-"	"-"	"TCTC"	"rs10642322"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"TCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10642322"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0194"	"TCTC:0.9448"	"TCTC:0.9885"	NA	"TCTC:0.996"	"TCTC:0.996"	"TCTC:0.9918"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"9cedc554-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4248"	"RIF1"	55183	"mskcc.org"	"GRCh37"	"2"	152318714	152318716	"+"	"Intron"	"DEL"	"ATC"	"ATC"	"-"	"rs59316798"	NA	"JHCCPT5"	"JHCCPN5"	"ATC"	"ATC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3228-39_3228-37delATC"	""	""	"ENST00000243326"	""	72	"."	26	11	"."	1	"RIF1,intron_variant,,ENST00000243326,;RIF1,intron_variant,,ENST00000453091,NM_001177663.1;RIF1,intron_variant,,ENST00000430328,NM_001177665.1;RIF1,intron_variant,,ENST00000444746,NM_018151.4;RIF1,intron_variant,,ENST00000428287,NM_001177664.1;RIF1,upstream_gene_variant,,ENST00000454583,;"	"-"	"ENSG00000080345"	"ENST00000243326"	"Transcript"	"intron_variant"	"-/15003"	"-/7419"	"-/2472"	""	""	"rs59316798"	"1"	NA	1	"RIF1"	"HGNC"	23207	"protein_coding"	"YES"	"CCDS2194.1"	"ENSP00000243326"	"Q5UIP0"	"C9J1D6,B4DRJ4"	"UPI000023729F"	""	NA	NA	""	"26/34"	""	"-:0.2486"	"-:0.093"	"-:0.3631"	NA	"-:0.3224"	"-:0.3211"	"-:0.227"	"-:0.1219"	"-:0.2766"	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	"0.2806"	"0.1325"	"0.4067"	"0.3349"	"0.3149"	"0.2975"	"0.2933"	"0.2322"	NA	"common_variant"	"ATATCA"	"7c986a7a-280f-11e6-b562-0633424a729f"	"1620"	0.2898	"28409/98044"	"29729/105946"	"1057/7980"	"4405/10832"	"2441/7288"	"2028/6440"	"14697/49394"	"193/658"	"3588/15452"	"PASS"	"FALSE"	0.361111111111111	"WXS"	FALSE
"4249"	"NEB"	4703	"mskcc.org"	"GRCh37"	"2"	152355545	152355546	"+"	"Intron"	"INS"	"-"	"-"	"ATAA"	"rs139249092"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.24114+263_24114+266dupTTAT"	""	""	"ENST00000397345"	""	7	"."	3	1	"."	0	"NEB,intron_variant,,ENST00000397345,NM_001164508.1;NEB,intron_variant,,ENST00000427231,NM_001164507.1,NM_001271208.1;NEB,intron_variant,,ENST00000603639,;NEB,intron_variant,,ENST00000604864,;NEB,intron_variant,,ENST00000409198,NM_004543.4;NEB,intron_variant,,ENST00000172853,;NEB,intron_variant,,ENST00000413693,;NEB,intron_variant,,ENST00000397337,;NEB,intron_variant,,ENST00000434685,;NEB,intron_variant,,ENST00000397336,;NEB,intron_variant,,ENST00000509223,;NEB,intron_variant,,ENST00000421461,;NEB,intron_variant,,ENST00000424585,;NEB,intron_variant,,ENST00000498015,;RIF1,downstream_gene_variant,,ENST00000457745,;RIF1,downstream_gene_variant,,ENST00000484077,;RIF1,intron_variant,,ENST00000454583,;"	"ATAA"	"ENSG00000183091"	"ENST00000397345"	"Transcript"	"intron_variant"	"-/26202"	"-/25578"	"-/8525"	""	""	"rs139249092"	"1"	NA	-1	"NEB"	"HGNC"	7720	"protein_coding"	"YES"	"CCDS54407.1"	"ENSP00000380505"	""	"H7C2D0,F8WCL5"	"UPI0002065BA0"	"NM_001164508.1"	NA	NA	""	"169/181"	""	"-:0.4625"	"ATAA:0.5151"	"ATAA:0.67"	NA	"ATAA:0.5595"	"ATAA:0.6233"	"ATAA:0.363"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTA"	"9d1a0ad8-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4250"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	153633472	153633476	"+"	"IGR"	"DEL"	"AAAAC"	"AAAAC"	"-"	"rs143711720"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAC"	"AAAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143711720"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AAAAC:0.0018"	"-:0.9939"	"-:1"	NA	"-:0.999"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAAAAACA"	"7d3488ce-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4251"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	153717071	153717072	"+"	"IGR"	"INS"	"-"	"-"	"CAA"	"rs71396314"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"CAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71396314"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"9d78269a-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4252"	"NR4A2"	4929	"mskcc.org"	"GRCh37"	"2"	157190974	157190975	"+"	"5'Flank"	"INS"	"-"	"-"	"GCC"	"rs199826279"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000339562"	""	27	"."	3	6	"."	0	"NR4A2,intron_variant,,ENST00000409572,;NR4A2,upstream_gene_variant,,ENST00000339562,NM_006186.3;NR4A2,upstream_gene_variant,,ENST00000426264,;NR4A2,upstream_gene_variant,,ENST00000539077,;NR4A2,upstream_gene_variant,,ENST00000409108,;NR4A2,upstream_gene_variant,,ENST00000429376,;NR4A2,upstream_gene_variant,,ENST00000424077,;NR4A2,upstream_gene_variant,,ENST00000421709,;NR4A2,upstream_gene_variant,,ENST00000406048,;NR4A2,upstream_gene_variant,,ENST00000417972,;NR4A2,upstream_gene_variant,,ENST00000417764,;"	"GCC"	"ENSG00000153234"	"ENST00000339562"	"Transcript"	"upstream_gene_variant"	"-/3472"	"-/1797"	"-/598"	""	""	"rs199826279"	"1"	"1746"	-1	"NR4A2"	"HGNC"	7981	"protein_coding"	"YES"	"CCDS2201.1"	"ENSP00000344479"	"P43354"	"Q6NXU0,F1D8N6,C9JWQ1,C9IYM5"	"UPI0000036A18"	"NM_006186.3"	NA	NA	""	""	""	"GCC:0.4491"	"GCC:0.1755"	"GCC:0.4006"	NA	"GCC:0.4692"	"GCC:0.7157"	"GCC:0.5583"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"9d88e188-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WXS"	FALSE
"4253"	"CCDC148"	130940	"mskcc.org"	"GRCh37"	"2"	159282009	159282010	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs143784869"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.25+30917_25+30918insTA"	""	""	"ENST00000283233"	""	14	"."	6	5	"."	0	"CCDC148,intron_variant,,ENST00000283233,NM_138803.3;CCDC148,intron_variant,,ENST00000536771,NM_001171637.1;CCDC148,intron_variant,,ENST00000409889,;CCDC148,intron_variant,,ENST00000491563,;CCDC148,intron_variant,,ENST00000454257,;CCDC148,intron_variant,,ENST00000448656,;CCDC148,intron_variant,,ENST00000451554,;CCDC148,intron_variant,,ENST00000417066,;HNRNPDLP2,downstream_gene_variant,,ENST00000455248,;"	"TA"	"ENSG00000153237"	"ENST00000283233"	"Transcript"	"intron_variant"	"-/3122"	"-/1776"	"-/591"	""	""	"rs143784869"	"1"	NA	-1	"CCDC148"	"HGNC"	25191	"protein_coding"	"YES"	"CCDS33304.1"	"ENSP00000283233"	"Q8NFR7"	""	"UPI0000208F63"	"NM_138803.3"	NA	NA	""	"1/13"	""	"TA:0.1286"	"TA:0.1362"	"TA:0.1268"	NA	"TA:0.0308"	"TA:0.2107"	"TA:0.136"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"9da32b38-280f-11e6-b562-0633424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4254"	"PKP4"	8502	"mskcc.org"	"GRCh37"	"2"	159521458	159521459	"+"	"Intron"	"INS"	"-"	"AA"	"AA"	"rs4027730"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2578-1464_2578-1463dupAA"	""	""	"ENST00000389759"	""	8	"."	6	2	"."	0	"PKP4,intron_variant,,ENST00000389757,NM_001005476.1;PKP4,intron_variant,,ENST00000389759,NM_003628.3;AC005042.4,intron_variant,,ENST00000342892,;PKP4,intron_variant,,ENST00000495123,;PKP4,intron_variant,,ENST00000426248,;PKP4,intron_variant,,ENST00000480171,;PKP4,intron_variant,,ENST00000483881,;PKP4,downstream_gene_variant,,ENST00000421462,;PKP4,downstream_gene_variant,,ENST00000452162,;PKP4,upstream_gene_variant,,ENST00000486254,;PKP4,downstream_gene_variant,,ENST00000492496,;"	"AA"	"ENSG00000144283"	"ENST00000389759"	"Transcript"	"intron_variant"	"-/4443"	"-/3579"	"-/1192"	""	""	"rs4027730"	"1"	NA	1	"PKP4"	"HGNC"	9026	"protein_coding"	"YES"	"CCDS33305.1"	"ENSP00000374409"	"Q99569"	"Q53TM5"	"UPI000044D379"	"NM_003628.3"	NA	NA	""	"15/21"	""	"-:0.0823"	"AA:0.8502"	"AA:0.9337"	NA	"AA:0.9722"	"AA:0.9125"	"AA:0.9468"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"9da9d050-280f-11e6-b562-0633424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"4255"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	159637380	159637381	"+"	"IGR"	"INS"	"-"	"CAAT"	"CAAT"	"rs36023035"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"CAAT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs36023035"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1847"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"9dac80fc-280f-11e6-b562-0633424a729f"	"251"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4256"	"DAPL1"	92196	"mskcc.org"	"GRCh37"	"2"	159660646	159660646	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs11297084"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.59-148delA"	""	""	"ENST00000309950"	""	54	"."	23	5	"."	0	"DAPL1,intron_variant,,ENST00000309950,NM_001017920.2;DAPL1,intron_variant,,ENST00000409042,;DAPL1,upstream_gene_variant,,ENST00000343761,;"	"-"	"ENSG00000163331"	"ENST00000309950"	"Transcript"	"intron_variant"	"-/552"	"-/324"	"-/107"	""	""	"rs11297084"	"1"	NA	1	"DAPL1"	"HGNC"	21490	"protein_coding"	"YES"	"CCDS33307.1"	"ENSP00000309538"	"A0PJW8"	"M1E9T5"	"UPI000016001A"	"NM_001017920.2"	NA	NA	""	"1/3"	""	"A:0.1657"	"-:0.7663"	"-:0.9049"	NA	"-:0.8621"	"-:0.9235"	"-:0.7556"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAT"	"7da62f56-280f-11e6-b562-0633424a729f"	"1380"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.425925925925926	"WXS"	FALSE
"4257"	"TANC1"	85461	"mskcc.org"	"GRCh37"	"2"	159825017	159825018	"+"	"5'Flank"	"INS"	"-"	"-"	"GGGCGCGGGAGGCGCGGCCGGGGC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000263635"	""	11	"."	3	5	"."	0	"TANC1,upstream_gene_variant,,ENST00000263635,NM_033394.2,NM_001145909.1;TANC1,upstream_gene_variant,,ENST00000454300,;"	"GGGCGCGGGAGGCGCGGCCGGGGC"	"ENSG00000115183"	"ENST00000263635"	"Transcript"	"upstream_gene_variant"	"-/7470"	"-/5586"	"-/1861"	""	""	""	"1"	"165"	1	"TANC1"	"HGNC"	29364	"protein_coding"	"YES"	"CCDS42766.1"	"ENSP00000263635"	"Q9C0D5"	""	"UPI0000421D80"	"NM_033394.2,NM_001145909.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"9db05010-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4258"	"SLC4A10"	57282	"mskcc.org"	"GRCh37"	"2"	162789639	162789640	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTCTTTC"	"rs147022506"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1998-9658_1998-9649dupTCTTTCTTTT"	""	""	"ENST00000446997"	""	8	"."	5	2	"."	0	"SLC4A10,intron_variant,,ENST00000375514,NM_001178016.1;SLC4A10,intron_variant,,ENST00000415876,NM_022058.3;SLC4A10,intron_variant,,ENST00000446997,NM_001178015.1;SLC4A10,intron_variant,,ENST00000272716,;SLC4A10,intron_variant,,ENST00000421911,;SLC4A10,intron_variant,,ENST00000446228,;RPEP5,upstream_gene_variant,,ENST00000441137,;"	"TTTTTCTTTC"	"ENSG00000144290"	"ENST00000446997"	"Transcript"	"intron_variant"	"-/5551"	"-/3357"	"-/1118"	""	""	"rs147022506"	"1"	NA	1	"SLC4A10"	"HGNC"	13811	"protein_coding"	"YES"	"CCDS54411.1"	"ENSP00000393066"	"Q6U841"	""	"UPI00001D4707"	"NM_001178015.1"	NA	NA	""	"15/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"14"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"9dd7467a-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4259"	"SCN2A"	6326	"mskcc.org"	"GRCh37"	"2"	166221906	166221949	"+"	"Intron"	"DEL"	"TCTAGTAATCATCTATACCTATCCAACAACTGTACATTTATTTG"	"TCTAGTAATCATCTATACCTATCCAACAACTGTACATTTATTTG"	"GTAATCATCTATACCTATCCAACAACTGTACATTTATTTGTT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TCTAGTAATCATCTATACCTATCCAACAACTGTACATTTATTTG"	"TCTAGTAATCATCTATACCTATCCAACAACTGTACATTTATTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3520+133_3520+176delTCTAGTAATCATCTATACCTATCCAACAACTGTACATTTATTTGinsGTAATCATCTATACCTATCCAACAACTGTACATTTATTTGTT"	""	""	"ENST00000357398"	""	46	"."	4	17	"."	0	"SCN2A,intron_variant,,ENST00000357398,;SCN2A,intron_variant,,ENST00000375437,NM_001040142.1;SCN2A,intron_variant,,ENST00000283256,NM_021007.2;SCN2A,intron_variant,,ENST00000375427,NM_001040143.1;SCN2A,intron_variant,,ENST00000480032,;"	"GTAATCATCTATACCTATCCAACAACTGTACATTTATTTGTT"	"ENSG00000136531"	"ENST00000357398"	"Transcript"	"intron_variant"	"-/8792"	"-/6018"	"-/2005"	""	""	""	"1"	NA	1	"SCN2A"	"HGNC"	10588	"protein_coding"	"YES"	"CCDS33313.1"	"ENSP00000349973"	"Q99250"	"F8T7W7"	"UPI000002A663"	""	NA	NA	""	"18/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TATCTAGTAATCATCTATACCTATCCAACAACTGTACATTTATTTGT"	"90b00e14-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WXS"	FALSE
"4260"	"SCN2A"	6326	"mskcc.org"	"GRCh37"	"2"	166221949	166221950	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs137868272"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3520+185dupT"	""	""	"ENST00000357398"	""	43	"."	5	8	"."	0	"SCN2A,intron_variant,,ENST00000357398,;SCN2A,intron_variant,,ENST00000375437,NM_001040142.1;SCN2A,intron_variant,,ENST00000283256,NM_021007.2;SCN2A,intron_variant,,ENST00000375427,NM_001040143.1;SCN2A,intron_variant,,ENST00000480032,;"	"T"	"ENSG00000136531"	"ENST00000357398"	"Transcript"	"intron_variant"	"-/8792"	"-/6018"	"-/2005"	""	""	"rs137868272"	"1"	NA	1	"SCN2A"	"HGNC"	10588	"protein_coding"	"YES"	"CCDS33313.1"	"ENSP00000349973"	"Q99250"	"F8T7W7"	"UPI000002A663"	""	NA	NA	""	"18/26"	""	"T:0.4221"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"9dfbd684-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116279069767442	"WXS"	FALSE
"4261"	"TTC21B"	79809	"mskcc.org"	"GRCh37"	"2"	166768179	166768180	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs200422083"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2323-205_2323-204insT"	""	""	"ENST00000243344"	""	27	"."	4	4	"."	0	"TTC21B,intron_variant,,ENST00000243344,NM_024753.4;TTC21B,upstream_gene_variant,,ENST00000484129,;"	"A"	"ENSG00000123607"	"ENST00000243344"	"Transcript"	"intron_variant"	"-/5482"	"-/3951"	"-/1316"	""	""	"rs200422083"	"1"	NA	-1	"TTC21B"	"HGNC"	25660	"protein_coding"	"YES"	"CCDS33315.1"	"ENSP00000243344"	"Q7Z4L5"	"B3KU32"	"UPI000020900A"	"NM_024753.4"	NA	NA	""	"17/28"	""	"A:0.2442"	"A:0.3207"	"A:0.098"	NA	"A:0.3194"	"A:0.1501"	"A:0.2638"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"9e00cab8-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WXS"	FALSE
"4262"	"AC010127.3"	0	"mskcc.org"	"GRCh37"	"2"	167038321	167038321	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs141274484"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.431+10255delC"	""	""	"ENST00000447809"	""	6	"."	3	2	"."	0	"AC010127.3,intron_variant,,ENST00000447809,;RN7SKP152,upstream_gene_variant,,ENST00000410444,;"	"-"	"ENSG00000236107"	"ENST00000447809"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2305"	""	""	""	""	"rs141274484"	"1"	NA	1	"AC010127.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/11"	""	"C:0.3950"	"-:0.8366"	"-:0.4035"	NA	"-:0.4772"	"-:0.6004"	"-:0.5716"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"7ecef9da-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4263"	"NOSTRIN"	115677	"mskcc.org"	"GRCh37"	"2"	169655323	169655324	"+"	"Intron"	"INS"	"-"	"-"	"GATA"	"rs142708032"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-405+602_-405+605dupTAGA"	""	""	"ENST00000444448"	""	16	"."	4	7	"."	0	"NOSTRIN,intron_variant,,ENST00000444448,;NOSTRIN,intron_variant,,ENST00000458381,NM_001171631.1;NOSTRIN,upstream_gene_variant,,ENST00000317647,NM_001039724.3;NOSTRIN,upstream_gene_variant,,ENST00000445023,NM_052946.3;NOSTRIN,upstream_gene_variant,,ENST00000397206,;NOSTRIN,upstream_gene_variant,,ENST00000397209,;NOSTRIN,upstream_gene_variant,,ENST00000421711,NM_001171632.1;NOSTRIN,upstream_gene_variant,,ENST00000439509,;NOSTRIN,upstream_gene_variant,,ENST00000471833,;"	"GATA"	"ENSG00000163072"	"ENST00000444448"	"Transcript"	"intron_variant"	"-/2537"	"-/1692"	"-/563"	""	""	"rs142708032"	"1"	NA	1	"NOSTRIN"	"HGNC"	20203	"protein_coding"	"YES"	"CCDS54415.1"	"ENSP00000394051"	"Q8IVI9"	"Q53TH8"	"UPI00001400FD"	""	NA	NA	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"14"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"9e1f92f4-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4264"	"NOSTRIN"	115677	"mskcc.org"	"GRCh37"	"2"	169718895	169718896	"+"	"Intron"	"INS"	"-"	"-"	"ACAAG"	"rs140740513"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1555+338_1555+342dupCAAGA"	""	""	"ENST00000444448"	""	8	"."	5	3	"."	0	"NOSTRIN,intron_variant,,ENST00000444448,;NOSTRIN,intron_variant,,ENST00000458381,NM_001171631.1;NOSTRIN,intron_variant,,ENST00000317647,NM_001039724.3;NOSTRIN,intron_variant,,ENST00000445023,NM_052946.3;NOSTRIN,intron_variant,,ENST00000397206,;NOSTRIN,intron_variant,,ENST00000397209,;NOSTRIN,intron_variant,,ENST00000421711,NM_001171632.1;SPC25,intron_variant,,ENST00000479309,;NOSTRIN,intron_variant,,ENST00000472260,;NOSTRIN,downstream_gene_variant,,ENST00000495202,;NOSTRIN,downstream_gene_variant,,ENST00000427068,;"	"ACAAG"	"ENSG00000163072"	"ENST00000444448"	"Transcript"	"intron_variant"	"-/2537"	"-/1692"	"-/563"	""	""	"rs140740513"	"1"	NA	1	"NOSTRIN"	"HGNC"	20203	"protein_coding"	"YES"	"CCDS54415.1"	"ENSP00000394051"	"Q8IVI9"	"Q53TH8"	"UPI00001400FD"	""	NA	NA	""	"18/18"	""	"ACAAG:0.0467"	"ACAAG:0.0045"	"ACAAG:0.0245"	NA	"ACAAG:0.001"	"ACAAG:0.0825"	"ACAAG:0.1299"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"9e306764-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4265"	"LRP2"	4036	"mskcc.org"	"GRCh37"	"2"	170127267	170127268	"+"	"Intron"	"INS"	"-"	"-"	"ATAA"	"rs3083194"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2320+143_2320+146dupTTAT"	""	""	"ENST00000263816"	""	29	"."	5	5	"."	0	"LRP2,intron_variant,,ENST00000263816,NM_004525.2;LRP2,intron_variant,,ENST00000443831,;LRP2,downstream_gene_variant,,ENST00000493501,;"	"ATAA"	"ENSG00000081479"	"ENST00000263816"	"Transcript"	"intron_variant"	"-/15808"	"-/13968"	"-/4655"	""	""	"rs3083194"	"1"	NA	-1	"LRP2"	"HGNC"	6694	"protein_coding"	"YES"	"CCDS2232.1"	"ENSP00000263816"	"P98164"	"Q9NP34,Q53TL0,Q4ZG84"	"UPI0000141BA5"	"NM_004525.2"	NA	NA	""	"16/78"	""	"-:0.2572"	"ATAA:0.4932"	"ATAA:0.8314"	NA	"ATAA:0.9345"	"ATAA:0.841"	"ATAA:0.7188"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTA"	"9e37e426-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WXS"	FALSE
"4266"	"CCDC173"	129881	"mskcc.org"	"GRCh37"	"2"	170507245	170507254	"+"	"Intron"	"DEL"	"TGTGTGTGTG"	"TGTGTGTGTG"	"-"	"rs141624354"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTGTGTG"	"TGTGTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.960-223_960-214delCACACACACA"	""	""	"ENST00000447353"	""	27	"."	5	6	"."	0	"CCDC173,intron_variant,,ENST00000447353,NM_001085447.1;"	"-"	"ENSG00000154479"	"ENST00000447353"	"Transcript"	"intron_variant"	"-/2181"	"-/1659"	"-/552"	""	""	"rs141624354"	"1"	NA	-1	"CCDC173"	"HGNC"	25064	"protein_coding"	"YES"	"CCDS46445.1"	"ENSP00000391504"	"Q0VFZ6"	"C9J9F8,B4DX81"	"UPI0000160169"	"NM_001085447.1"	NA	NA	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGTGTGTGTGT"	"7f6786f0-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WXS"	FALSE
"4267"	"PHOSPHO2"	493911	"mskcc.org"	"GRCh37"	"2"	170558294	170558298	"+"	"3'Flank"	"DEL"	"AAAAG"	"AAAAG"	"-"	"rs200739872"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAG"	"AAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000359744"	""	45	"."	11	9	"."	0	"KLHL23,intron_variant,,ENST00000272797,NM_001199290.1;KLHL23,intron_variant,,ENST00000498202,;KLHL23,intron_variant,,ENST00000602521,;PHOSPHO2,downstream_gene_variant,,ENST00000359744,NM_001199286.1,NM_001008489.3,NM_001199285.1,NM_001199288.1;PHOSPHO2,downstream_gene_variant,,ENST00000438710,;PHOSPHO2,downstream_gene_variant,,ENST00000449906,NM_001199287.1;PHOSPHO2,downstream_gene_variant,,ENST00000438838,;PHOSPHO2,downstream_gene_variant,,ENST00000476919,;"	"-"	"ENSG00000144362"	"ENST00000359744"	"Transcript"	"downstream_gene_variant"	"-/1125"	"-/726"	"-/241"	""	""	"rs200739872"	"1"	"76"	1	"PHOSPHO2"	"HGNC"	28316	"protein_coding"	"YES"	"CCDS33319.1"	"ENSP00000352782"	"Q8TCD6"	"C9JZQ7,C9JD35,C9J4G2"	"UPI000006D7F5"	"NM_001199286.1,NM_001008489.3,NM_001199285.1,NM_001199288.1"	NA	NA	""	""	""	"-:0.2330"	"-:0.2685"	"-:0.1585"	NA	"-:0.1577"	"-:0.2883"	"-:0.2587"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAGA"	"7f71f068-280f-11e6-b562-0633424a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244444444444444	"WXS"	FALSE
"4268"	"KLHL23"	151230	"mskcc.org"	"GRCh37"	"2"	170606542	170606570	"+"	"3'UTR"	"DEL"	"TGTGTATATATAGTATGTATGTATACATG"	"TGTGTATATATAGTATGTATGTATACATG"	"-"	"rs202118573"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTATATATAGTATGTATGTATACATG"	"TGTGTATATATAGTATGTATGTATACATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*301_*329delGTGTATATATAGTATGTATGTATACATGT"	""	""	"ENST00000392647"	"4/4"	25	"."	3	2	"."	0	"KLHL23,3_prime_UTR_variant,,ENST00000392647,NM_144711.5;KLHL23,intron_variant,,ENST00000437875,;KLHL23,intron_variant,,ENST00000448589,;KLHL23,downstream_gene_variant,,ENST00000272797,NM_001199290.1;KLHL23,downstream_gene_variant,,ENST00000498202,;KLHL23,downstream_gene_variant,,ENST00000602521,;KLHL23,downstream_gene_variant,,ENST00000494387,;"	"-"	"ENSG00000213160"	"ENST00000392647"	"Transcript"	"3_prime_UTR_variant"	"2221-2249/4077"	"-/1677"	"-/558"	""	""	"rs202118573"	"1"	NA	1	"KLHL23"	"HGNC"	27506	"protein_coding"	"YES"	"CCDS2236.1"	"ENSP00000376419"	"Q8NBE8"	"S4R452,S4R3P4"	"UPI000006D999"	"NM_144711.5"	NA	NA	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATGTGTATATATAGTATGTATGTATACATGT"	"7f79af74-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WXS"	FALSE
"4269"	"METTL5"	29081	"mskcc.org"	"GRCh37"	"2"	170678827	170678828	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"rs3217297"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.110-261_110-260delGA"	""	""	"ENST00000260953"	""	18	"."	4	5	"."	0	"METTL5,intron_variant,,ENST00000410097,;METTL5,intron_variant,,ENST00000260953,NM_014168.2;METTL5,intron_variant,,ENST00000409837,;METTL5,intron_variant,,ENST00000409965,;METTL5,intron_variant,,ENST00000392640,;METTL5,intron_variant,,ENST00000308099,;METTL5,intron_variant,,ENST00000409340,;METTL5,intron_variant,,ENST00000538491,;METTL5,upstream_gene_variant,,ENST00000442181,;METTL5,intron_variant,,ENST00000537825,;METTL5,downstream_gene_variant,,ENST00000471560,;"	"-"	"ENSG00000138382"	"ENST00000260953"	"Transcript"	"intron_variant"	"-/1010"	"-/630"	"-/209"	""	""	"rs3217297"	"1"	NA	-1	"METTL5"	"HGNC"	25006	"protein_coding"	"YES"	"CCDS33320.1"	"ENSP00000260953"	"Q9NRN9"	"B8ZZE3"	"UPI0000071529"	"NM_014168.2"	NA	NA	""	"1/6"	""	"TC:0.4726"	"-:0.4032"	"-:0.7061"	NA	"-:0.4464"	"-:0.6769"	"-:0.498"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTCT"	"7f89875a-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"4270"	"MYO3B"	140469	"mskcc.org"	"GRCh37"	"2"	171258328	171258328	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2129+127delG"	""	""	"ENST00000408978"	""	152	"."	3	37	"."	0	"MYO3B,intron_variant,,ENST00000334231,;MYO3B,intron_variant,,ENST00000408978,NM_138995.4;MYO3B,intron_variant,,ENST00000409044,NM_001083615.3;MYO3B,intron_variant,,ENST00000484338,;MYO3B,intron_variant,,ENST00000602629,;MYO3B,intron_variant,,ENST00000438642,;MYO3B,intron_variant,,ENST00000317935,;MYO3B,intron_variant,,ENST00000409940,;"	"-"	"ENSG00000071909"	"ENST00000408978"	"Transcript"	"intron_variant"	"-/5529"	"-/4026"	"-/1341"	""	""	""	"1"	NA	1	"MYO3B"	"HGNC"	15576	"protein_coding"	"YES"	"CCDS42773.1"	"ENSP00000386213"	"Q8WXR4"	""	"UPI000020907B"	"NM_138995.4"	NA	NA	""	"18/34"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"7fae76d2-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0197368421052632	"WXS"	FALSE
"4271"	"SLC25A12"	8604	"mskcc.org"	"GRCh37"	"2"	172693402	172693403	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs143710128"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.612+228dupA"	""	""	"ENST00000422440"	""	13	"."	4	2	"."	0	"SLC25A12,intron_variant,,ENST00000422440,NM_003705.4;SLC25A12,intron_variant,,ENST00000392592,;SLC25A12,intron_variant,,ENST00000263812,;SLC25A12,intron_variant,,ENST00000426896,;SLC25A12,downstream_gene_variant,,ENST00000475360,;SLC25A12,upstream_gene_variant,,ENST00000485880,;"	"T"	"ENSG00000115840"	"ENST00000422440"	"Transcript"	"intron_variant"	"-/2979"	"-/2037"	"-/678"	""	""	"rs143710128"	"1"	NA	-1	"SLC25A12"	"HGNC"	10982	"protein_coding"	"YES"	"CCDS33327.1"	"ENSP00000388658"	"O75746"	""	"UPI0000070D4E"	"NM_003705.4"	NA	NA	""	"6/17"	""	"T:0.2678"	"T:0.0696"	"T:0.1614"	NA	"T:0.5694"	"T:0.2555"	"T:0.3129"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"9e89726e-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"4272"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	173505749	173505751	"+"	"IGR"	"DEL"	"TTC"	"TTC"	"-"	"rs145190450"	NA	"JHCCPT5"	"JHCCPN5"	"TTC"	"TTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145190450"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTCT"	"8038d02a-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"4273"	"OSBPL6"	114880	"mskcc.org"	"GRCh37"	"2"	179133175	179133175	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs34783588"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-350-16479delA"	""	""	"ENST00000392505"	""	6	"."	4	1	"."	0	"OSBPL6,intron_variant,,ENST00000190611,NM_032523.3;OSBPL6,intron_variant,,ENST00000392505,NM_001201480.1;OSBPL6,intron_variant,,ENST00000359685,NM_001201482.1;OSBPL6,intron_variant,,ENST00000409045,NM_001201481.1;OSBPL6,intron_variant,,ENST00000357080,;OSBPL6,intron_variant,,ENST00000477646,;"	"-"	"ENSG00000079156"	"ENST00000392505"	"Transcript"	"intron_variant"	"-/3637"	"-/2880"	"-/959"	""	""	"rs34783588"	"1"	NA	1	"OSBPL6"	"HGNC"	16388	"protein_coding"	"YES"	"CCDS56150.1"	"ENSP00000376293"	"Q9BZF3"	""	"UPI0000E5A29F"	"NM_001201480.1"	NA	NA	""	"1/25"	""	"-:0.3720"	"-:0.0371"	"-:0.5303"	NA	"-:0.619"	"-:0.4404"	"-:0.3875"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAT"	"81409bc4-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4274"	"PRKRA"	8575	"mskcc.org"	"GRCh37"	"2"	179306760	179306762	"+"	"Intron"	"DEL"	"CCA"	"CCA"	"-"	"rs200873103"	NA	"JHCCPT5"	"JHCCPN5"	"CCA"	"CCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.515-331_515-329delTGG"	""	""	"ENST00000325748"	""	13	"."	5	2	"."	0	"PRKRA,intron_variant,,ENST00000325748,NM_003690.4;PRKRA,intron_variant,,ENST00000438687,;PRKRA,intron_variant,,ENST00000432031,NM_001139518.1,NM_001139517.1;PRKRA,intron_variant,,ENST00000487082,;PRKRA,downstream_gene_variant,,ENST00000457633,;AC009948.5,downstream_gene_variant,,ENST00000453026,;PRKRA,downstream_gene_variant,,ENST00000470200,;PRKRA,downstream_gene_variant,,ENST00000460433,;PRKRA,intron_variant,,ENST00000490501,;PRKRA,intron_variant,,ENST00000424699,;PRKRA,intron_variant,,ENST00000474793,;PRKRA,downstream_gene_variant,,ENST00000448279,;"	"-"	"ENSG00000180228"	"ENST00000325748"	"Transcript"	"intron_variant"	"-/1826"	"-/942"	"-/313"	""	""	"rs200873103"	"1"	NA	-1	"PRKRA"	"HGNC"	9438	"protein_coding"	"YES"	"CCDS2279.1"	"ENSP00000318176"	"O75569"	"G5E9Q4,B4DJC7"	"UPI0000073B07"	"NM_003690.4"	NA	NA	""	"5/7"	""	"-:0.0114"	"-:0.0023"	"-:0.0216"	NA	"-:0"	"-:0.0338"	"-:0.0051"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCCCAC"	"81b3b082-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"4275"	"TTN"	7273	"mskcc.org"	"GRCh37"	"2"	179628661	179628662	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35168948"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.10114+242dupA"	""	""	"ENST00000589042"	""	6	"."	3	2	"."	0	"TTN,intron_variant,,ENST00000589042,NM_001267550.1;TTN,intron_variant,,ENST00000591111,;TTN,intron_variant,,ENST00000342992,NM_133378.4,NM_001256850.1;TTN,intron_variant,,ENST00000342175,NM_133437.3;TTN,intron_variant,,ENST00000359218,NM_133432.3;TTN,intron_variant,,ENST00000460472,NM_003319.4;TTN,intron_variant,,ENST00000360870,NM_133379.4;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000610005,;TTN-AS1,intron_variant,,ENST00000578746,;TTN-AS1,downstream_gene_variant,,ENST00000590773,;"	"T"	"ENSG00000155657"	"ENST00000589042"	"Transcript"	"intron_variant"	"-/109224"	"-/107976"	"-/35991"	""	""	"rs35168948"	"1"	NA	-1	"TTN"	"HGNC"	12403	"protein_coding"	"YES"	"CCDS59435.1"	"ENSP00000467141"	"Q8WZ42"	"C9JQJ2,A2TKE6"	"UPI000264F4A1"	"NM_001267550.1"	NA	NA	""	"43/362"	""	"-:0.1450"	"T:0.82"	"T:0.7954"	NA	"T:0.9762"	"T:0.9056"	"T:0.7679"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"9ef7d948-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4276"	"ENSR00001712345"	0	"mskcc.org"	"GRCh37"	"2"	180928313	180928313	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs34388824"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001712345"	""	7	"."	4	1	"."	0	""	"-"	""	"ENSR00001712345"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs34388824"	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3800"	"-:0.469"	"-:0.6282"	NA	"-:0.4911"	"-:0.836"	"-:0.729"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"8375aa56-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4277"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	181096199	181096200	"+"	"IGR"	"INS"	"-"	"-"	"TTTCTC"	"rs143366724"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	6	2	"."	0	""	"TTTCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143366724"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4119"	"TTTCTC:0.5272"	"TTTCTC:0.6052"	NA	"TTTCTC:0.7192"	"TTTCTC:0.5885"	"TTTCTC:0.5225"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"9f05e150-280f-11e6-b562-0633424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"4278"	"PPP1R1C"	151242	"mskcc.org"	"GRCh37"	"2"	182983386	182983387	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs11404127"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*6+1358_*6+1359insG"	""	""	"ENST00000280295"	""	6	"."	5	1	"."	0	"PPP1R1C,intron_variant,,ENST00000409137,NM_001261425.1,NM_001261424.1;PPP1R1C,intron_variant,,ENST00000280295,;PPP1R1C,intron_variant,,ENST00000409702,;PPP1R1C,downstream_gene_variant,,ENST00000452904,NM_001080545.2;PPP1R1C,intron_variant,,ENST00000475249,;PPP1R1C,intron_variant,,ENST00000464264,;PPP1R1C,downstream_gene_variant,,ENST00000494189,;PPP1R1C,downstream_gene_variant,,ENST00000495820,;PPP1R1C,downstream_gene_variant,,ENST00000490645,;PPP1R1C,downstream_gene_variant,,ENST00000486067,;PPP1R1C,downstream_gene_variant,,ENST00000465612,;PPP1R1C,downstream_gene_variant,,ENST00000479855,;"	"G"	"ENSG00000150722"	"ENST00000280295"	"Transcript"	"intron_variant"	"-/1636"	"-/351"	"-/116"	""	""	"rs11404127"	"1"	NA	1	"PPP1R1C"	"HGNC"	14940	"protein_coding"	"YES"	"CCDS58740.1"	"ENSP00000280295"	"Q8WVI7"	"Q53SA3"	"UPI000006D8CA"	""	NA	NA	""	"5/5"	""	"-:0.3934"	"G:0.6785"	"G:0.5432"	NA	"G:0.5169"	"G:0.6372"	"G:0.6155"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"9f2c5f56-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4279"	"NUP35"	129401	"mskcc.org"	"GRCh37"	"2"	184022776	184022777	"+"	"Intron"	"INS"	"-"	"-"	"ATT"	"rs77634269"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.610-233_610-232insTAT"	""	""	"ENST00000295119"	""	8	"."	5	1	"."	0	"NUP35,intron_variant,,ENST00000295119,NM_138285.3,NM_001287584.1;NUP35,intron_variant,,ENST00000541912,NM_001287585.1;NUP35,intron_variant,,ENST00000409798,;NUP35,intron_variant,,ENST00000479162,;NUP35,intron_variant,,ENST00000374930,;"	"ATT"	"ENSG00000163002"	"ENST00000295119"	"Transcript"	"intron_variant"	"-/1633"	"-/981"	"-/326"	""	""	"rs77634269"	"1"	NA	1	"NUP35"	"HGNC"	29797	"protein_coding"	"YES"	"CCDS2290.1"	"ENSP00000295119"	"Q8NFH5"	"C9JWU7,C9JIY9,C9IYQ7,B4DYB4,B4DP57"	"UPI000000DBA2"	"NM_138285.3,NM_001287584.1"	NA	NA	""	"6/8"	""	"-:0.1406"	"ATT:0.6611"	"ATT:0.915"	NA	"ATT:0.9891"	"ATT:0.8559"	"ATT:0.9581"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"9f3ef99a-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4280"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	187421068	187421071	"+"	"IGR"	"DEL"	"CTCT"	"CTCT"	"-"	"rs57295641"	NA	"JHCCPT5"	"JHCCPN5"	"CTCT"	"CTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs57295641"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CTCT:0.2506"	"-:0.649"	"-:0.7147"	NA	"-:0.8889"	"-:0.7515"	"-:0.7638"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCTCTG"	"83ecec92-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4281"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	187811929	187811930	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs56039903"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs56039903"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"9f71e080-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4282"	"ANKAR"	150709	"mskcc.org"	"GRCh37"	"2"	190609716	190609717	"+"	"Intron"	"INS"	"-"	"-"	"CTACTACTACTA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4057+230_4057+241dupCTACTACTACTA"	""	""	"ENST00000520309"	""	15	"."	4	4	"."	0	"ANKAR,intron_variant,,ENST00000520309,NM_144708.3;ANKAR,intron_variant,,ENST00000313581,;ANKAR,intron_variant,,ENST00000431575,;ANKAR,intron_variant,,ENST00000438402,;ANKAR,intron_variant,,ENST00000281412,;OSGEPL1,downstream_gene_variant,,ENST00000519810,;OSGEPL1,downstream_gene_variant,,ENST00000264151,NM_022353.2;ANKAR,intron_variant,,ENST00000474303,;ANKAR,intron_variant,,ENST00000476208,;ANKAR,intron_variant,,ENST00000433782,;ANKAR,intron_variant,,ENST00000441800,;"	"CTACTACTACTA"	"ENSG00000151687"	"ENST00000520309"	"Transcript"	"intron_variant"	"-/4410"	"-/4305"	"-/1434"	""	""	""	"1"	NA	1	"ANKAR"	"HGNC"	26350	"protein_coding"	"YES"	"CCDS33351.2"	"ENSP00000427882"	"Q7Z5J8"	"J3KQB7"	"UPI00001D7E11"	"NM_144708.3"	NA	NA	""	"22/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"39"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"9f9284f2-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"4283"	"AC019178.2"	0	"mskcc.org"	"GRCh37"	"2"	190795910	190795924	"+"	"5'Flank"	"DEL"	"ATGGTGGTTTGTGAA"	"ATGGTGGTTTGTGAA"	"-"	"rs139157394"	NA	"JHCCPT5"	"JHCCPN5"	"ATGGTGGTTTGTGAA"	"ATGGTGGTTTGTGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000392337"	""	33	"."	16	6	"."	0	"C2orf88,intron_variant,,ENST00000478197,;C2orf88,intron_variant,,ENST00000495546,;AC019178.2,upstream_gene_variant,,ENST00000392337,;"	"-"	"ENSG00000213110"	"ENST00000392337"	"Transcript"	"upstream_gene_variant"	"-/440"	""	""	""	""	"rs139157394"	"1"	"174"	-1	"AC019178.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"ATGGTGGTTTGTGAA:0.3363"	"-:0.2156"	"-:0.7997"	NA	"-:0.7798"	"-:0.8996"	"-:0.8108"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTATGGTGGTTTGTGAAA"	"846808be-280f-11e6-b562-0633424a729f"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.484848484848485	"WXS"	FALSE
"4284"	"C2orf88"	84281	"mskcc.org"	"GRCh37"	"2"	191065237	191065240	"+"	"3'UTR"	"DEL"	"TTTG"	"TTTG"	"-"	"rs149132415"	NA	"JHCCPT5"	"JHCCPN5"	"TTTG"	"TTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*370_*373delGTTT"	""	""	"ENST00000340623"	"2/2"	11	"."	6	4	"."	0	"C2orf88,3_prime_UTR_variant,,ENST00000340623,NM_001042519.1,NM_001042521.1,NM_032321.2,NM_001042520.1;HIBCH,intron_variant,,ENST00000399855,;HIBCH,downstream_gene_variant,,ENST00000392332,;HIBCH,downstream_gene_variant,,ENST00000359678,NM_198047.2,NM_014362.3;C2orf88,downstream_gene_variant,,ENST00000409870,;C2orf88,downstream_gene_variant,,ENST00000396974,;HIBCH,downstream_gene_variant,,ENST00000410045,;C2orf88,downstream_gene_variant,,ENST00000443551,;C2orf88,downstream_gene_variant,,ENST00000409545,;C2orf88,downstream_gene_variant,,ENST00000450357,;HIBCH,downstream_gene_variant,,ENST00000486981,;C2orf88,downstream_gene_variant,,ENST00000490033,;"	"-"	"ENSG00000187699"	"ENST00000340623"	"Transcript"	"3_prime_UTR_variant"	"1062-1065/4035"	"-/288"	"-/95"	""	""	"rs149132415"	"1"	NA	1	"C2orf88"	"HGNC"	28191	"protein_coding"	"YES"	"CCDS42792.1"	"ENSP00000345107"	"Q9BSF0"	"H7BZ15,C9JS57"	"UPI000013D122"	"NM_001042519.1,NM_001042521.1,NM_032321.2,NM_001042520.1"	NA	NA	"2/2"	""	""	"-:0.3460"	"-:0.4735"	"-:0.2723"	NA	"-:0.4345"	"-:0.2445"	"-:0.2393"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTGT"	"846d4cd4-280f-11e6-b562-0633424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"4285"	"TMEFF2"	23671	"mskcc.org"	"GRCh37"	"2"	192828996	192828997	"+"	"Intron"	"DEL"	"TT"	"TT"	"-"	"rs66990096"	NA	"JHCCPT5"	"JHCCPN5"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.746-7893_746-7892delAA"	""	""	"ENST00000272771"	""	8	"."	4	1	"."	0	"TMEFF2,intron_variant,,ENST00000392314,;TMEFF2,intron_variant,,ENST00000272771,NM_016192.2;AC098617.1,intron_variant,,ENST00000428980,;AC098617.1,intron_variant,,ENST00000424116,;"	"-"	"ENSG00000144339"	"ENST00000272771"	"Transcript"	"intron_variant"	"-/2604"	"-/1125"	"-/374"	""	""	"rs66990096"	"1"	NA	-1	"TMEFF2"	"HGNC"	11867	"protein_coding"	"YES"	"CCDS2314.1"	"ENSP00000272771"	"Q9UIK5"	""	"UPI0000048F19"	"NM_016192.2"	NA	NA	""	"7/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTT"	"84c6da38-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4286"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	193282618	193282619	"+"	"IGR"	"INS"	"-"	"-"	"CCATCCATCCATCTAT"	"rs142206685"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"CCATCCATCCATCTAT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142206685"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0917"	"CATCCATCCATCCATCCAT:0.7572"	"CATCCATCCATCCATCCAT:0.9467"	NA	"CATCCATCCATCCATCCAT:0.9821"	"CATCCATCCATCCATCCAT:0.9761"	"CATCCATCCATCCATCCAT:0.9397"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"9fcea784-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4287"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	195028163	195028164	"+"	"IGR"	"DEL"	"AG"	"AG"	"-"	"rs4027161"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs4027161"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AG:0.0859"	"-:0.7209"	"-:0.9669"	NA	"-:0.9812"	"-:0.993"	"-:0.9877"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"84cd09bc-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4288"	"RP11-762E8.1"	0	"mskcc.org"	"GRCh37"	"2"	196380352	196380353	"+"	"RNA"	"INS"	"-"	"-"	"G"	"rs144771782"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.71dupC"	""	""	"ENST00000606986"	"1/3"	9	"."	4	1	"."	0	"RP11-762E8.1,non_coding_transcript_exon_variant,,ENST00000606986,;RNU6-169P,downstream_gene_variant,,ENST00000365336,;"	"G"	"ENSG00000271893"	"ENST00000606986"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"71-72/503"	""	""	""	""	"rs144771782"	"1"	NA	-1	"RP11-762E8.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	"1/3"	""	""	"-:0.0002"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"9fd5a386-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4289"	"AHCYP5"	0	"mskcc.org"	"GRCh37"	"2"	196447457	196447457	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"rs11314489"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000331585"	""	18	"."	7	6	"."	0	"SLC39A10,intron_variant,,ENST00000458054,;AHCYP5,downstream_gene_variant,,ENST00000331585,;"	"-"	"ENSG00000213107"	"ENST00000331585"	"Transcript"	"downstream_gene_variant"	"-/1238"	""	""	""	""	"rs11314489"	"1"	"61"	-1	"AHCYP5"	"HGNC"	44997	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3966"	"-:0.3343"	"-:0.5173"	NA	"-:0.504"	"-:0.2793"	"-:0.4049"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGG"	"84da98ac-280f-11e6-b562-0633424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388888888888889	"WXS"	FALSE
"4290"	"CCDC150"	284992	"mskcc.org"	"GRCh37"	"2"	197539383	197539383	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs11367548"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1137+312delC"	""	""	"ENST00000389175"	""	13	"."	8	3	"."	0	"CCDC150,intron_variant,,ENST00000389175,NM_001080539.1;CCDC150,intron_variant,,ENST00000272831,;CCDC150,intron_variant,,ENST00000472405,;CCDC150,intron_variant,,ENST00000423093,;CCDC150,intron_variant,,ENST00000495513,;CCDC150,intron_variant,,ENST00000498512,;CCDC150,upstream_gene_variant,,ENST00000469429,;CCDC150,upstream_gene_variant,,ENST00000497159,;CCDC150,intron_variant,,ENST00000431807,;"	"-"	"ENSG00000144395"	"ENST00000389175"	"Transcript"	"intron_variant"	"-/3685"	"-/3306"	"-/1101"	""	""	"rs11367548"	"1"	NA	1	"CCDC150"	"HGNC"	26834	"protein_coding"	"YES"	"CCDS46478.1"	"ENSP00000373827"	"Q8NCX0"	""	"UPI0000DD7A7C"	"NM_001080539.1"	NA	NA	""	"10/27"	""	"C:0.0956"	"-:0.9607"	"-:0.9452"	NA	"-:0.8512"	"-:0.8827"	"-:0.8763"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"851d0f02-280f-11e6-b562-0633424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.615384615384615	"WXS"	FALSE
"4291"	"SPATS2L"	26010	"mskcc.org"	"GRCh37"	"2"	201249060	201249063	"+"	"Intron"	"DEL"	"TTTA"	"TTTA"	"-"	"rs138361016"	NA	"JHCCPT5"	"JHCCPN5"	"TTTA"	"TTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-22-4855_-22-4852delATTT"	""	""	"ENST00000358677"	""	8	"."	4	2	"."	0	"SPATS2L,intron_variant,,ENST00000358677,NM_015535.2,NM_001282744.1,NM_001282735.1,NM_001282743.1;SPATS2L,intron_variant,,ENST00000409988,NM_001100422.1;SPATS2L,intron_variant,,ENST00000409718,;SPATS2L,intron_variant,,ENST00000409140,NM_001100423.1;SPATS2L,intron_variant,,ENST00000409385,;SPATS2L,intron_variant,,ENST00000451764,;SPATS2L,intron_variant,,ENST00000360760,NM_001100424.1;SPATS2L,intron_variant,,ENST00000409151,;SPATS2L,intron_variant,,ENST00000409755,;SPATS2L,intron_variant,,ENST00000409397,;SPATS2L,intron_variant,,ENST00000457757,;SPATS2L,intron_variant,,ENST00000423749,;SPATS2L,intron_variant,,ENST00000449647,;SPATS2L,intron_variant,,ENST00000453663,;SPATS2L,intron_variant,,ENST00000444012,;SPATS2L,intron_variant,,ENST00000421573,;SPATS2L,intron_variant,,ENST00000439084,;SPATS2L,intron_variant,,ENST00000439395,;SPATS2L,intron_variant,,ENST00000428692,;AC105381.1,upstream_gene_variant,,ENST00000581684,;SPATS2L,intron_variant,,ENST00000459656,;SPATS2L,intron_variant,,ENST00000471601,;"	"-"	"ENSG00000196141"	"ENST00000358677"	"Transcript"	"intron_variant"	"-/6156"	"-/1677"	"-/558"	""	""	"rs138361016"	"1"	NA	1	"SPATS2L"	"HGNC"	24574	"protein_coding"	"YES"	"CCDS46483.1"	"ENSP00000351503"	"Q9NUQ6"	"F8WAV0,F8VT91,F2Z2S1,C9JKE4,C9J8M7,C9IZC3,B8ZZZ7"	"UPI0000D48A8E"	"NM_015535.2,NM_001282744.1,NM_001282735.1,NM_001282743.1"	NA	NA	""	"2/12"	""	"TTTA:0.2151"	"-:0.9039"	"-:0.7695"	NA	"-:0.8929"	"-:0.674"	"-:0.638"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"31"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTTTAT"	"856fbfae-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4292"	"AOX1"	316	"mskcc.org"	"GRCh37"	"2"	201477750	201477751	"+"	"Intron"	"INS"	"-"	"-"	"GAGAGAGA"	"rs112472592"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1448+245_1448+252dupGAGAGAGA"	""	""	"ENST00000374700"	""	15	"."	5	6	"."	0	"AOX1,intron_variant,,ENST00000374700,NM_001159.3;AOX1,intron_variant,,ENST00000485106,;AOX1,intron_variant,,ENST00000465297,;AOX1,intron_variant,,ENST00000485965,;"	"GAGAGAGA"	"ENSG00000138356"	"ENST00000374700"	"Transcript"	"intron_variant"	"-/5070"	"-/4017"	"-/1338"	""	""	"rs112472592"	"1"	NA	1	"AOX1"	"HGNC"	553	"protein_coding"	"YES"	"CCDS33360.1"	"ENSP00000363832"	"Q06278"	"C9J244,B4DNI5"	"UPI0000071863"	"NM_001159.3"	NA	NA	""	"14/34"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"18"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"a01ee80c-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4293"	"CASP10"	843	"mskcc.org"	"GRCh37"	"2"	202073781	202073781	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs367989998"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.923-12delG"	""	""	"ENST00000286186"	""	129	"."	3	44	"."	0	"CASP10,intron_variant,,ENST00000286186,NM_032977.3;CASP10,intron_variant,,ENST00000360132,NM_032976.3,NM_001230.4,NM_001206524.1;CASP10,intron_variant,,ENST00000346817,;CASP10,intron_variant,,ENST00000272879,NM_032974.4;CASP10,intron_variant,,ENST00000448480,NM_001206542.1;CASP10,intron_variant,,ENST00000313728,;CASP10,intron_variant,,ENST00000492363,;CASP10,downstream_gene_variant,,ENST00000460140,;CASP10,downstream_gene_variant,,ENST00000438843,;MTND4P23,downstream_gene_variant,,ENST00000447723,;MTND5P25,downstream_gene_variant,,ENST00000430499,;"	"-"	"ENSG00000003400"	"ENST00000286186"	"Transcript"	"intron_variant"	"-/5928"	"-/1569"	"-/522"	""	""	"rs367989998"	"1"	NA	1	"CASP10"	"HGNC"	1500	"protein_coding"	"YES"	"CCDS2340.1"	"ENSP00000286186"	"Q92851"	""	"UPI0000074732"	"NM_032977.3"	NA	NA	""	"8/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.02108"	"0.01573"	"0.01759"	"0.02975"	"0.02531"	"0.0161"	"0.02606"	"0.02127"	"1"	"common_variant"	"TTGT"	"85ce6432-280f-11e6-b562-0633424a729f"	"180"	0.0186	"1695/91124"	"2219/105276"	"112/7120"	"163/9266"	"184/6184"	"141/5572"	"771/47886"	"16/614"	"308/14482"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.0232558139534884	"WXS"	FALSE
"4294"	"TRAK2"	66008	"mskcc.org"	"GRCh37"	"2"	202263813	202263813	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs34295797"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.480+287delT"	""	""	"ENST00000332624"	""	11	"."	3	3	"."	0	"TRAK2,intron_variant,,ENST00000332624,NM_015049.2;TRAK2,intron_variant,,ENST00000430254,;STRADB,intron_variant,,ENST00000458269,;TRAK2,intron_variant,,ENST00000486291,;"	"-"	"ENSG00000115993"	"ENST00000332624"	"Transcript"	"intron_variant"	"-/6510"	"-/2745"	"-/914"	""	""	"rs34295797"	"1"	NA	-1	"TRAK2"	"HGNC"	13206	"protein_coding"	"YES"	"CCDS2347.1"	"ENSP00000328875"	"O60296"	"Q53TT7,Q53RS6"	"UPI0000125022"	"NM_015049.2"	NA	NA	""	"5/15"	""	"A:0.4607"	"-:0.3495"	"-:0.5634"	NA	"-:0.4911"	"-:0.663"	"-:0.7014"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"85f7fe14-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4295"	"ALS2CR11"	151254	"mskcc.org"	"GRCh37"	"2"	202372461	202372462	"+"	"Intron"	"DEL"	"AA"	"-"	"-"	"rs10616547"	NA	"JHCCPT5"	"JHCCPN5"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1507-11770_1507-11769delTT"	""	""	"ENST00000439140"	""	6	"."	5	1	"."	0	"ALS2CR11,intron_variant,,ENST00000439140,NM_001168221.1;ALS2CR11,intron_variant,,ENST00000286195,NM_152525.5;ALS2CR11,intron_variant,,ENST00000439802,NM_001168216.1;ALS2CR11,intron_variant,,ENST00000482942,;"	"-"	"ENSG00000155754"	"ENST00000439140"	"Transcript"	"intron_variant"	"-/5512"	"-/5463"	"-/1820"	""	""	"rs10616547"	"1"	NA	-1	"ALS2CR11"	"HGNC"	14438	"protein_coding"	"YES"	"CCDS54430.1"	"ENSP00000409937"	"Q53TS8"	"Q96Q36"	"UPI000198C657"	"NM_001168221.1"	NA	NA	""	"13/15"	""	"-:0.0429"	"-:0.0953"	"-:0.0187"	NA	"-:0.006"	"-:0.0258"	"-:0.045"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAA"	"8607c4e8-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4296"	"MPP4"	58538	"mskcc.org"	"GRCh37"	"2"	202509737	202509738	"+"	"3'UTR"	"INS"	"-"	"-"	"A"	"rs11399802"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*195dupT"	""	""	"ENST00000409474"	"22/22"	34	"."	6	7	"."	0	"MPP4,3_prime_UTR_variant,,ENST00000409474,NM_033066.2;MPP4,3_prime_UTR_variant,,ENST00000359962,;MPP4,3_prime_UTR_variant,,ENST00000315506,;MPP4,3_prime_UTR_variant,,ENST00000428900,;MPP4,3_prime_UTR_variant,,ENST00000396886,;TMEM237,upstream_gene_variant,,ENST00000409444,NM_152388.3;TMEM237,upstream_gene_variant,,ENST00000409883,NM_001044385.2;MPP4,downstream_gene_variant,,ENST00000409143,;MPP4,downstream_gene_variant,,ENST00000447335,;RNU6-651P,upstream_gene_variant,,ENST00000411040,;TMEM237,upstream_gene_variant,,ENST00000489550,;TMEM237,upstream_gene_variant,,ENST00000286196,;TMEM237,upstream_gene_variant,,ENST00000432684,;TMEM237,upstream_gene_variant,,ENST00000444047,;TMEM237,upstream_gene_variant,,ENST00000463205,;"	"A"	"ENSG00000082126"	"ENST00000409474"	"Transcript"	"3_prime_UTR_variant"	"2317-2318/2462"	"-/1914"	"-/637"	""	""	"rs11399802"	"1"	NA	-1	"MPP4"	"HGNC"	13680	"protein_coding"	"YES"	"CCDS46491.1"	"ENSP00000387278"	"Q96JB8"	""	"UPI000050A341"	"NM_033066.2"	NA	NA	"22/22"	""	""	"A:0.4487"	"A:0.3835"	"A:0.4568"	NA	"A:0.4921"	"A:0.4871"	"A:0.4468"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"a046081a-280f-11e6-b562-0633424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"4297"	"FAM117B"	150864	"mskcc.org"	"GRCh37"	"2"	203500652	203500652	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs71852817"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.601+145delG"	""	""	"ENST00000392238"	""	8	"."	4	1	"."	0	"FAM117B,intron_variant,,ENST00000303116,NM_173511.3;FAM117B,intron_variant,,ENST00000392238,;FAM117B,intron_variant,,ENST00000481658,;"	"-"	"ENSG00000138439"	"ENST00000392238"	"Transcript"	"intron_variant"	"-/5763"	"-/1770"	"-/589"	""	""	"rs71852817"	"1"	NA	1	"FAM117B"	"HGNC"	14440	"protein_coding"	"YES"	"CCDS33362.2"	"ENSP00000376071"	"Q6P1L5"	""	"UPI00015B3B88"	""	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"86520896-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4298"	"CYP20A1"	57404	"mskcc.org"	"GRCh37"	"2"	204117098	204117099	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs34080677"	NA	"JHCCPT5"	"JHCCPN5"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.432+281_432+282delAT"	""	""	"ENST00000356079"	""	14	"."	6	6	"."	0	"CYP20A1,intron_variant,,ENST00000356079,NM_177538.2;CYP20A1,intron_variant,,ENST00000429815,;CYP20A1,intron_variant,,ENST00000443941,;CYP20A1,intron_variant,,ENST00000461371,;CYP20A1,intron_variant,,ENST00000463131,;CYP20A1,intron_variant,,ENST00000489360,;CYP20A1,intron_variant,,ENST00000431118,;CYP20A1,intron_variant,,ENST00000449301,;CYP20A1,intron_variant,,ENST00000428265,;"	"-"	"ENSG00000119004"	"ENST00000356079"	"Transcript"	"intron_variant"	"-/1949"	"-/1389"	"-/462"	""	""	"rs34080677"	"1"	NA	1	"CYP20A1"	"HGNC"	20576	"protein_coding"	"YES"	"CCDS2357.1"	"ENSP00000348380"	"Q6UW02"	"Q8WZ13,Q53RS5"	"UPI0000048EFF"	"NM_177538.2"	NA	NA	""	"4/12"	""	"TA:0.4880"	"-:0.4576"	"-:0.5144"	NA	"-:0.506"	"-:0.5596"	"-:0.5409"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTAT"	"86b19004-280f-11e6-b562-0633424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4299"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	206528955	206528956	"+"	"IGR"	"INS"	"-"	"-"	"TCTGTG"	"rs368891177"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	5	3	"."	0	""	"TCTGTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs368891177"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TGTG:0.2125"	"TGTG:0.1717"	"TGTG:0.2161"	NA	"TGTG:0.1994"	"TGTG:0.2336"	"TGTG:0.2566"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"a09280e6-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4300"	"NDUFS1"	4719	"mskcc.org"	"GRCh37"	"2"	207014747	207014748	"+"	"Intron"	"INS"	"-"	"-"	"TCTATCTATCTA"	"rs143126435"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.196-110_196-99dupTAGATAGATAGA"	""	""	"ENST00000455934"	""	26	"."	8	7	"."	0	"NDUFS1,intron_variant,,ENST00000233190,NM_005006.6;NDUFS1,intron_variant,,ENST00000423725,NM_001199983.1;NDUFS1,intron_variant,,ENST00000440274,NM_001199981.1;NDUFS1,intron_variant,,ENST00000455934,NM_001199984.1;NDUFS1,intron_variant,,ENST00000449699,;NDUFS1,intron_variant,,ENST00000457011,;NDUFS1,intron_variant,,ENST00000432169,NM_001199982.1;NDUFS1,intron_variant,,ENST00000454195,;NDUFS1,intron_variant,,ENST00000456284,;"	"TCTATCTATCTA"	"ENSG00000023228"	"ENST00000455934"	"Transcript"	"intron_variant"	"-/2373"	"-/2226"	"-/741"	""	""	"rs143126435"	"1"	NA	-1	"NDUFS1"	"HGNC"	7707	"protein_coding"	"YES"	"CCDS56165.1"	"ENSP00000392709"	"P28331"	"E5KRK5,Q9P1A0,C9JPQ5,B4DJ81"	"UPI0000EE3600"	"NM_001199984.1"	NA	NA	""	"3/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"a0a949d4-280f-11e6-b562-0633424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"4301"	"PTH2R"	5746	"mskcc.org"	"GRCh37"	"2"	209302873	209302874	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs56653614"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.411+267_411+268insA"	""	""	"ENST00000272847"	""	8	"."	3	2	"."	0	"PTH2R,intron_variant,,ENST00000272847,NM_005048.3;PTH2R,intron_variant,,ENST00000413482,;"	"A"	"ENSG00000144407"	"ENST00000272847"	"Transcript"	"intron_variant"	"-/2713"	"-/1653"	"-/550"	""	""	"rs56653614"	"1"	NA	1	"PTH2R"	"HGNC"	9609	"protein_coding"	"YES"	"CCDS2383.1"	"ENSP00000272847"	"P49190"	"Q53T35,Q53SF6,B4DFN8"	"UPI000005041E"	"NM_005048.3"	NA	NA	""	"4/12"	""	"-:0.0134"	"A:0.9539"	"A:0.9914"	NA	"A:1"	"A:1"	"A:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"a0eb4e24-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4302"	"CPS1"	1373	"mskcc.org"	"GRCh37"	"2"	211390530	211390531	"+"	"Intron"	"INS"	"-"	"-"	"GA"	"rs112168058"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4-30893_4-30892dupAG"	""	""	"ENST00000430249"	""	13	"."	4	4	"."	0	"CPS1,intron_variant,,ENST00000430249,NM_001122633.2;CPS1,intron_variant,,ENST00000417946,;CPS1,intron_variant,,ENST00000518043,;CPS1,intron_variant,,ENST00000523702,;"	"GA"	"ENSG00000021826"	"ENST00000430249"	"Transcript"	"intron_variant"	"-/5698"	"-/4521"	"-/1506"	""	""	"rs112168058"	"1"	NA	1	"CPS1"	"HGNC"	2323	"protein_coding"	"YES"	"CCDS46505.1"	"ENSP00000402608"	"P31327"	"Q5R207,E7EWJ3,C9JTA4,B7ZAW0"	"UPI000166C19F"	"NM_001122633.2"	NA	NA	""	"1/38"	""	"GAGAGA:0.0082"	"GAGAGA:0.0303"	"GAGAGA:0.0014"	NA	"GAGAGA:0"	"GAGAGA:0"	"GAGAGA:0"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"21"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"a10e444c-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"4303"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	212030409	212030418	"+"	"IGR"	"DEL"	"GTGTGTGTGT"	"GTGTGTGTGT"	"-"	"rs139137544"	NA	"JHCCPT5"	"JHCCPN5"	"GTGTGTGTGT"	"GTGTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139137544"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGTGTGTGTGTG"	"8802c662-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4304"	"ERBB4"	2066	"mskcc.org"	"GRCh37"	"2"	212292969	212292969	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs56321438"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2719+164delA"	""	""	"ENST00000342788"	""	35	"."	5	4	"."	0	"ERBB4,intron_variant,,ENST00000342788,NM_005235.2;ERBB4,intron_variant,,ENST00000436443,NM_001042599.1;ERBB4,intron_variant,,ENST00000402597,;"	"-"	"ENSG00000178568"	"ENST00000342788"	"Transcript"	"intron_variant"	"-/12132"	"-/3927"	"-/1308"	""	""	"rs56321438"	"1"	NA	-1	"ERBB4"	"HGNC"	3432	"protein_coding"	"YES"	"CCDS2394.1"	"ENSP00000342235"	"Q15303"	"Q580Q7,Q53T57,Q53R48,Q53R25,Q53QS8,Q4ZG14,E9PDR1"	"UPI00000499DF"	"NM_005235.2"	NA	NA	""	"22/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TATT"	"8811d76a-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	TRUE
"4305"	"SPAG16"	79582	"mskcc.org"	"GRCh37"	"2"	215013801	215013802	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1594-44_1594-43dupTA"	""	""	"ENST00000331683"	""	71	"."	5	15	"."	0	"SPAG16,intron_variant,,ENST00000331683,NM_024532.4;SPAG16,intron_variant,,ENST00000374309,;SPAG16,intron_variant,,ENST00000451561,;SPAG16,intron_variant,,ENST00000480494,;SPAG16,intron_variant,,ENST00000452556,;SPAG16,intron_variant,,ENST00000406979,;"	"TA"	"ENSG00000144451"	"ENST00000331683"	"Transcript"	"intron_variant"	"-/2177"	"-/1896"	"-/631"	""	""	""	"1"	NA	1	"SPAG16"	"HGNC"	23225	"protein_coding"	"YES"	"CCDS2396.1"	"ENSP00000332592"	"Q8N0X2"	"Q53TL7,Q53TF1,Q53SC3,Q53RV6,Q53RF0,Q53R35,Q53QP6"	"UPI00001AFF12"	"NM_024532.4"	NA	NA	""	"14/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"a1331e48-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0704225352112676	"WXS"	FALSE
"4306"	"AC107218.3"	0	"mskcc.org"	"GRCh37"	"2"	215501217	215501218	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTC"	"rs142579305"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.132+47621_132+47622insGAAAAA"	""	""	"ENST00000437883"	""	6	"."	3	1	"."	0	"AC107218.3,intron_variant,,ENST00000437883,;AC107218.3,intron_variant,,ENST00000412896,;"	"TTTTTC"	"ENSG00000197585"	"ENST00000437883"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/543"	""	""	""	""	"rs142579305"	"1"	NA	-1	"AC107218.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	"-:0.2786"	"TTTTTC:0.4486"	"TTTTTC:0.768"	NA	"TTTTTC:0.7857"	"TTTTTC:0.8519"	"TTTTTC:0.8569"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"a1378884-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4307"	"ABCA12"	26154	"mskcc.org"	"GRCh37"	"2"	215808906	215808907	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs35706758"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7343+818_7343+819insA"	""	""	"ENST00000272895"	""	7	"."	5	2	"."	0	"ABCA12,intron_variant,,ENST00000272895,NM_173076.2;ABCA12,intron_variant,,ENST00000389661,NM_015657.3;AC072062.1,intron_variant,,ENST00000607412,;"	"T"	"ENSG00000144452"	"ENST00000272895"	"Transcript"	"intron_variant"	"-/9100"	"-/7788"	"-/2595"	""	""	"rs35706758"	"1"	NA	-1	"ABCA12"	"HGNC"	14637	"protein_coding"	"YES"	"CCDS33372.1"	"ENSP00000272895"	"Q86UK0"	"A0SYP7"	"UPI000019AB7A"	"NM_173076.2"	NA	NA	""	"49/52"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"a141e306-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4308"	"ABCA12"	26154	"mskcc.org"	"GRCh37"	"2"	215890335	215890354	"+"	"Intron"	"DEL"	"GTTTGTTTTGTCTTTTTGTT"	"GTTTGTTTTGTCTTTTTGTT"	"TGTTTGTTTTGTCTTTTTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GTTTGTTTTGTCTTTTTGTT"	"GTTTGTTTTGTCTTTTTGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1287+43_1287+62delAACAAAAAGACAAAACAAACinsCAAAAAGACAAAACAAACA"	""	""	"ENST00000272895"	""	67	"."	5	30	"."	0	"ABCA12,intron_variant,,ENST00000272895,NM_173076.2;ABCA12,intron_variant,,ENST00000389661,NM_015657.3;AC072062.3,intron_variant,,ENST00000437897,;AC072062.3,downstream_gene_variant,,ENST00000595058,;AC072062.3,downstream_gene_variant,,ENST00000602182,;AC072062.3,downstream_gene_variant,,ENST00000419251,;"	"TGTTTGTTTTGTCTTTTTG"	"ENSG00000144452"	"ENST00000272895"	"Transcript"	"intron_variant"	"-/9100"	"-/7788"	"-/2595"	""	""	""	"1"	NA	-1	"ABCA12"	"HGNC"	14637	"protein_coding"	"YES"	"CCDS33372.1"	"ENSP00000272895"	"Q86UK0"	"A0SYP7"	"UPI000019AB7A"	"NM_173076.2"	NA	NA	""	"11/52"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTGTTTGTTTTGTCTTTTTGTTT"	"914d4e4a-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0746268656716418	"WXS"	FALSE
"4309"	"FN1"	2335	"mskcc.org"	"GRCh37"	"2"	216258150	216258151	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs138259153"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3797-226_3797-225dupAT"	""	""	"ENST00000354785"	""	12	"."	6	1	"."	0	"FN1,intron_variant,,ENST00000354785,;FN1,intron_variant,,ENST00000323926,NM_212482.1;FN1,intron_variant,,ENST00000359671,;FN1,intron_variant,,ENST00000336916,NM_212478.1,NM_002026.2;FN1,intron_variant,,ENST00000421182,;FN1,intron_variant,,ENST00000357009,;FN1,intron_variant,,ENST00000346544,;FN1,intron_variant,,ENST00000446046,;FN1,intron_variant,,ENST00000345488,;FN1,intron_variant,,ENST00000357867,NM_212474.1;FN1,intron_variant,,ENST00000356005,NM_212476.1;FN1,intron_variant,,ENST00000443816,;FN1,intron_variant,,ENST00000432072,;FN1,upstream_gene_variant,,ENST00000456923,;FN1,non_coding_transcript_exon_variant,,ENST00000492816,;"	"AT"	"ENSG00000115414"	"ENST00000354785"	"Transcript"	"intron_variant"	"-/8905"	"-/7434"	"-/2477"	""	""	"rs138259153"	"1"	NA	-1	"FN1"	"HGNC"	3778	"protein_coding"	"YES"	"CCDS42814.1"	"ENSP00000346839"	"P02751"	"Q9H382,Q7L553,Q53S27,A6YID6"	"UPI0000E5A2B5"	""	NA	NA	""	"24/45"	""	"-:0.2113"	"AT:0.6649"	"AT:0.8184"	NA	"AT:0.9891"	"AT:0.7744"	"AT:0.7434"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAA"	"a153d5c0-280f-11e6-b562-0633424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4310"	"FN1"	2335	"mskcc.org"	"GRCh37"	"2"	216269030	216269031	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTG"	"rs56381916"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3253+81_3253+82insCAAAAA"	""	""	"ENST00000354785"	""	28	"."	6	5	"."	0	"FN1,intron_variant,,ENST00000354785,;FN1,intron_variant,,ENST00000323926,NM_212482.1;FN1,intron_variant,,ENST00000359671,;FN1,intron_variant,,ENST00000336916,NM_212478.1,NM_002026.2;FN1,intron_variant,,ENST00000421182,;FN1,intron_variant,,ENST00000357009,;FN1,intron_variant,,ENST00000346544,;FN1,intron_variant,,ENST00000446046,;FN1,intron_variant,,ENST00000345488,;FN1,intron_variant,,ENST00000357867,NM_212474.1;FN1,intron_variant,,ENST00000356005,NM_212476.1;FN1,intron_variant,,ENST00000443816,;FN1,intron_variant,,ENST00000432072,;FN1,downstream_gene_variant,,ENST00000471193,;"	"TTTTTG"	"ENSG00000115414"	"ENST00000354785"	"Transcript"	"intron_variant"	"-/8905"	"-/7434"	"-/2477"	""	""	"rs56381916"	"1"	NA	-1	"FN1"	"HGNC"	3778	"protein_coding"	"YES"	"CCDS42814.1"	"ENSP00000346839"	"P02751"	"Q9H382,Q7L553,Q53S27,A6YID6"	"UPI0000E5A2B5"	""	NA	NA	""	"20/45"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"a1579a7a-280f-11e6-b562-0633424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"4311"	"XRCC5"	7520	"mskcc.org"	"GRCh37"	"2"	217006278	217006290	"+"	"Intron"	"DEL"	"TTTTTTTTTTTTC"	"TTTTTTTTTTTTC"	"-"	"rs201424187"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTTTTTTTTTC"	"TTTTTTTTTTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1476+236_1476+248delTTTTTTTTTTTTC"	""	""	"ENST00000392133"	""	22	"."	4	2	"."	0	"XRCC5,intron_variant,,ENST00000392133,;XRCC5,intron_variant,,ENST00000392132,NM_021141.3;XRCC5,downstream_gene_variant,,ENST00000471649,;XRCC5,intron_variant,,ENST00000460284,;"	"-"	"ENSG00000079246"	"ENST00000392133"	"Transcript"	"intron_variant"	"-/3761"	"-/2199"	"-/732"	""	""	"rs201424187"	"1"	NA	1	"XRCC5"	"HGNC"	12833	"protein_coding"	"YES"	"CCDS2402.1"	"ENSP00000375978"	"P13010"	"Q53TC2,Q53T09,C9JZ81"	"UPI0000034133"	""	NA	NA	""	"15/22"	""	"TTTTTTTTTTTTC:0.0246"	"-:0.9501"	"-:0.9914"	NA	"-:0.9881"	"-:0.9771"	"-:0.9836"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTTTTTTTTTTCC"	"88ea496a-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"4312"	"RESP18"	389075	"mskcc.org"	"GRCh37"	"2"	220197822	220197823	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs5838736"	NA	"JHCCPT5"	"JHCCPN5"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.17+60_17+61delTA"	""	""	"ENST00000333527"	""	89	"."	3	8	"."	0	"RESP18,intron_variant,,ENST00000333527,NM_001007089.3;RESP18,upstream_gene_variant,,ENST00000392083,;RESP18,upstream_gene_variant,,ENST00000470719,;"	"-"	"ENSG00000182698"	"ENST00000333527"	"Transcript"	"intron_variant"	"-/795"	"-/687"	"-/228"	""	""	"rs5838736"	"1"	NA	-1	"RESP18"	"HGNC"	33762	"protein_coding"	"YES"	"CCDS33382.2"	"ENSP00000330269"	"Q5W5W9"	""	"UPI0000F576C0"	"NM_001007089.3"	NA	NA	""	"1/6"	""	"TA:0.4267"	"-:0.8419"	"-:0.5807"	NA	"-:0.62"	"-:0.2724"	"-:0.4663"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTAT"	"8a6173ae-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0337078651685393	"WXS"	FALSE
"4313"	"SGPP2"	130367	"mskcc.org"	"GRCh37"	"2"	223297805	223297807	"+"	"Intron"	"DEL"	"GAG"	"GAG"	"-"	"rs10580839"	NA	"JHCCPT5"	"JHCCPN5"	"GAG"	"GAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.219+8269_219+8271delAGG"	""	""	"ENST00000321276"	""	12	"."	5	3	"."	0	"SGPP2,intron_variant,,ENST00000321276,NM_152386.2;"	"-"	"ENSG00000163082"	"ENST00000321276"	"Transcript"	"intron_variant"	"-/3336"	"-/1200"	"-/399"	""	""	"rs10580839"	"1"	NA	1	"SGPP2"	"HGNC"	19953	"protein_coding"	"YES"	"CCDS2453.1"	"ENSP00000315137"	"Q8IWX5"	"Q53QF5,Q4ZFX2,Q3B870"	"UPI000004A1E3"	"NM_152386.2"	NA	NA	""	"1/4"	""	"GAG:0.2538"	"-:0.7209"	"-:0.8386"	NA	"-:0.7262"	"-:0.7575"	"-:0.7239"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGAGG"	"8b2c552e-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"4314"	"ACSL3"	2181	"mskcc.org"	"GRCh37"	"2"	223795852	223795856	"+"	"Intron"	"DEL"	"TGCCC"	"TGCCC"	"-"	"rs10607565"	NA	"JHCCPT5"	"JHCCPN5"	"TGCCC"	"TGCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1732+327_1732+331delTGCCC"	""	""	"ENST00000357430"	""	7	"."	3	2	"."	0	"ACSL3,intron_variant,,ENST00000357430,NM_004457.3;ACSL3,intron_variant,,ENST00000392066,NM_203372.1;ACSL3,intron_variant,,ENST00000407441,;ACSL3,downstream_gene_variant,,ENST00000421680,;AC013476.1,downstream_gene_variant,,ENST00000582868,;ACSL3,intron_variant,,ENST00000474422,;ACSL3,upstream_gene_variant,,ENST00000495541,;"	"-"	"ENSG00000123983"	"ENST00000357430"	"Transcript"	"intron_variant"	"-/5679"	"-/2163"	"-/720"	""	""	"rs10607565"	"1"	NA	1	"ACSL3"	"HGNC"	3570	"protein_coding"	"YES"	"CCDS2455.1"	"ENSP00000350012"	"O95573"	"Q6PIM8,F5H062,F5GWH2,C9JC11,B3KMA6"	"UPI0000074742"	"NM_004457.3"	NA	NA	""	"14/16"	""	"TGCCC:0.1012"	"-:0.9191"	"-:0.8847"	NA	"-:0.9673"	"-:0.7893"	"-:0.9233"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTGCCCT"	"8b3ed33e-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	TRUE
"4315"	"ACSL3"	2181	"mskcc.org"	"GRCh37"	"2"	223806189	223806190	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs5838973"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2006-22dupT"	""	""	"ENST00000357430"	""	156	"."	3	22	"."	0	"ACSL3,intron_variant,,ENST00000357430,NM_004457.3;ACSL3,intron_variant,,ENST00000392066,NM_203372.1;ACSL3,intron_variant,,ENST00000407441,;ACSL3,intron_variant,,ENST00000495541,;"	"T"	"ENSG00000123983"	"ENST00000357430"	"Transcript"	"intron_variant"	"-/5679"	"-/2163"	"-/720"	""	""	"rs5838973"	"1"	NA	1	"ACSL3"	"HGNC"	3570	"protein_coding"	"YES"	"CCDS2455.1"	"ENSP00000350012"	"O95573"	"Q6PIM8,F5H062,F5GWH2,C9JC11,B3KMA6"	"UPI0000074742"	"NM_004457.3"	NA	NA	""	"16/16"	""	"T:0.3852"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	"0.4667"	"0.4737"	"0.4898"	"0.5843"	"0.4574"	"0.4543"	"0.4932"	"0.5193"	NA	"common_variant"	"TCT"	"a272a49a-280f-11e6-b562-0633424a729f"	"180"	0.4837	"29641/61276"	"34941/74872"	"2361/4984"	"2693/5498"	"3319/5680"	"2190/4788"	"12929/28462"	"217/440"	"5932/11424"	"InbreedingCoeff_Filter"	"FALSE"	0.0192307692307692	"WXS"	TRUE
"4316"	"CUL3"	8452	"mskcc.org"	"GRCh37"	"2"	225344752	225344753	"+"	"Intron"	"INS"	"-"	"-"	"GTT"	"rs36162349"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2030-1693_2030-1691dupAAC"	""	""	"ENST00000264414"	""	35	"."	8	12	"."	0	"CUL3,intron_variant,,ENST00000264414,NM_003590.4;CUL3,intron_variant,,ENST00000344951,NM_001257197.1;CUL3,intron_variant,,ENST00000409777,;CUL3,intron_variant,,ENST00000409096,NM_001257198.1;CUL3,intron_variant,,ENST00000451538,;CUL3,intron_variant,,ENST00000536702,;CUL3,non_coding_transcript_exon_variant,,ENST00000497715,;CUL3,intron_variant,,ENST00000454323,;"	"GTT"	"ENSG00000036257"	"ENST00000264414"	"Transcript"	"intron_variant"	"-/6741"	"-/2307"	"-/768"	""	""	"rs36162349"	"1"	NA	-1	"CUL3"	"HGNC"	2553	"protein_coding"	"YES"	"CCDS2462.1"	"ENSP00000264414"	"Q13618"	"Q53S54,Q53RD1"	"UPI0000001C83"	"NM_003590.4"	NA	NA	""	"14/15"	""	"GTT:0.2384"	"GTT:0.2678"	"GTT:0.2277"	NA	"GTT:0.2421"	"GTT:0.1382"	"GTT:0.3057"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"a295d8d4-280f-11e6-b562-0633424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228571428571429	"WXS"	FALSE
"4317"	"CUL3"	8452	"mskcc.org"	"GRCh37"	"2"	225378383	225378386	"+"	"Intron"	"DEL"	"TAAT"	"TAAT"	"-"	"rs3830376"	NA	"JHCCPT5"	"JHCCPN5"	"TAAT"	"TAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.540-31_540-28delATTA"	""	""	"ENST00000264414"	""	111	"."	40	28	"."	2	"CUL3,intron_variant,,ENST00000264414,NM_003590.4;CUL3,intron_variant,,ENST00000344951,NM_001257197.1;CUL3,intron_variant,,ENST00000409777,;CUL3,intron_variant,,ENST00000409096,NM_001257198.1;CUL3,downstream_gene_variant,,ENST00000436172,;CUL3,intron_variant,,ENST00000432260,;CUL3,intron_variant,,ENST00000541548,;CUL3,upstream_gene_variant,,ENST00000484081,;"	"-"	"ENSG00000036257"	"ENST00000264414"	"Transcript"	"intron_variant"	"-/6741"	"-/2307"	"-/768"	""	""	"rs3830376"	"1"	NA	-1	"CUL3"	"HGNC"	2553	"protein_coding"	"YES"	"CCDS2462.1"	"ENSP00000264414"	"Q13618"	"Q53S54,Q53RD1"	"UPI0000001C83"	"NM_003590.4"	NA	NA	""	"4/15"	""	"-:0.2518"	"-:0.4478"	"-:0.134"	NA	"-:0.1944"	"-:0.1978"	"-:0.1851"	"-:0.4118"	"-:0.2045"	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.2147"	"0.4342"	"0.1443"	"0.2485"	"0.2406"	"0.2197"	"0.2451"	"0.2372"	"1"	"common_variant"	"GATAATT"	"8b66dfaa-280f-11e6-b562-0633424a729f"	"2520"	0.2364	"21014/88874"	"22738/105922"	"3358/7734"	"1415/9806"	"1496/6020"	"1440/5986"	"9714/44212"	"151/616"	"3440/14500"	"PASS"	"FALSE"	0.36036036036036	"WXS"	FALSE
"4318"	"NYAP2"	57624	"mskcc.org"	"GRCh37"	"2"	226377346	226377347	"+"	"Intron"	"INS"	"-"	"-"	"TCCT"	"rs150939276"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.222-728_222-725dupTCCT"	""	""	"ENST00000272907"	""	30	"."	5	7	"."	0	"NYAP2,intron_variant,,ENST00000272907,NM_020864.1;NYAP2,intron_variant,,ENST00000409269,;"	"TCCT"	"ENSG00000144460"	"ENST00000272907"	"Transcript"	"intron_variant"	"-/4828"	"-/1962"	"-/653"	""	""	"rs150939276"	"1"	NA	1	"NYAP2"	"HGNC"	29291	"protein_coding"	"YES"	"CCDS46529.1"	"ENSP00000272907"	"Q9P242"	""	"UPI00001C1DB6"	"NM_020864.1"	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"a2a30da6-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"4319"	"COL4A4"	1286	"mskcc.org"	"GRCh37"	"2"	227906549	227906554	"+"	"Intron"	"DEL"	"AAAGAA"	"AAAGAA"	"-"	"rs757722178"	NA	"JHCCPT5"	"JHCCPN5"	"AAAGAA"	"AAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3505+310_3505+315delTTCTTT"	""	""	"ENST00000396625"	""	31	"."	8	5	"."	0	"COL4A4,intron_variant,,ENST00000396625,NM_000092.4;COL4A4,intron_variant,,ENST00000329662,;"	"-"	"ENSG00000081052"	"ENST00000396625"	"Transcript"	"intron_variant"	"-/9895"	"-/5073"	"-/1690"	""	""	"rs757722178"	"1"	NA	-1	"COL4A4"	"HGNC"	2206	"protein_coding"	"YES"	"CCDS42828.1"	"ENSP00000379866"	"P53420"	""	"UPI000013D987"	"NM_000092.4"	NA	NA	""	"37/47"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGAAAGAAA"	"8bcc002e-280f-11e6-b562-0633424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258064516129032	"WXS"	FALSE
"4320"	"COL4A4"	1286	"mskcc.org"	"GRCh37"	"2"	227906564	227906565	"+"	"Intron"	"INS"	"-"	"-"	"AGAAAGAAAGAGAAAGAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3505+299_3505+300insTTCTTTCTCTTTCTTTCT"	""	""	"ENST00000396625"	""	38	"."	3	6	"."	0	"COL4A4,intron_variant,,ENST00000396625,NM_000092.4;COL4A4,intron_variant,,ENST00000329662,;"	"AGAAAGAAAGAGAAAGAA"	"ENSG00000081052"	"ENST00000396625"	"Transcript"	"intron_variant"	"-/9895"	"-/5073"	"-/1690"	""	""	""	"1"	NA	-1	"COL4A4"	"HGNC"	2206	"protein_coding"	"YES"	"CCDS42828.1"	"ENSP00000379866"	"P53420"	""	"UPI000013D987"	"NM_000092.4"	NA	NA	""	"37/47"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"a2ab9f16-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WXS"	FALSE
"4321"	"COL4A4"	1286	"mskcc.org"	"GRCh37"	"2"	228020779	228020780	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs35507484"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-102+7943dupT"	""	""	"ENST00000396625"	""	6	"."	4	1	"."	0	"COL4A4,intron_variant,,ENST00000396625,NM_000092.4;COL4A4,intron_variant,,ENST00000329662,;"	"A"	"ENSG00000081052"	"ENST00000396625"	"Transcript"	"intron_variant"	"-/9895"	"-/5073"	"-/1690"	""	""	"rs35507484"	"1"	NA	-1	"COL4A4"	"HGNC"	2206	"protein_coding"	"YES"	"CCDS42828.1"	"ENSP00000379866"	"P53420"	""	"UPI000013D987"	"NM_000092.4"	NA	NA	""	"1/47"	""	"A:0.4836"	"A:0.2292"	"A:0.6326"	NA	"A:0.5813"	"A:0.5517"	"A:0.5511"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"a2b09c28-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4322"	"SLC19A3"	80704	"mskcc.org"	"GRCh37"	"2"	228567111	228567111	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-2-75delT"	""	""	"ENST00000258403"	""	132	"."	3	56	"."	0	"SLC19A3,5_prime_UTR_variant,,ENST00000419059,;SLC19A3,5_prime_UTR_variant,,ENST00000409456,;SLC19A3,intron_variant,,ENST00000258403,NM_025243.3;SLC19A3,intron_variant,,ENST00000541617,;SLC19A3,intron_variant,,ENST00000409287,;SLC19A3,intron_variant,,ENST00000456524,;SLC19A3,intron_variant,,ENST00000425817,;SLC19A3,intron_variant,,ENST00000477697,;SLC19A3,intron_variant,,ENST00000431622,;"	"-"	"ENSG00000135917"	"ENST00000258403"	"Transcript"	"intron_variant"	"-/3105"	"-/1491"	"-/496"	""	""	""	"1"	NA	-1	"SLC19A3"	"HGNC"	16266	"protein_coding"	"YES"	"CCDS2468.1"	"ENSP00000258403"	"Q9BZV2"	"C9J4J5,C9IZI1,B8ZZ39"	"UPI000004DAE9"	"NM_025243.3"	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGAT"	"8c1d5758-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0227272727272727	"WXS"	FALSE
"4323"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	229605084	229605093	"+"	"IGR"	"DEL"	"TTTCTTTCTT"	"TTTCTTTCTT"	"-"	"rs201921241"	NA	"JHCCPT5"	"JHCCPN5"	"TTTCTTTCTT"	"TTTCTTTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201921241"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTCTTTCTTT"	"8c4d453a-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4324"	"TRIP12"	9320	"mskcc.org"	"GRCh37"	"2"	230661662	230661663	"+"	"Intron"	"DEL"	"AC"	"AC"	"-"	"rs58071278"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3400-165_3400-164delGT"	""	""	"ENST00000283943"	""	32	"."	10	6	"."	0	"TRIP12,intron_variant,,ENST00000283943,NM_004238.1;TRIP12,intron_variant,,ENST00000389044,NM_001284214.1;TRIP12,intron_variant,,ENST00000389045,NM_001284216.1;TRIP12,intron_variant,,ENST00000543084,;TRIP12,upstream_gene_variant,,ENST00000461189,;TRIP12,upstream_gene_variant,,ENST00000495322,;TRIP12,upstream_gene_variant,,ENST00000470302,;"	"-"	"ENSG00000153827"	"ENST00000283943"	"Transcript"	"intron_variant"	"-/9874"	"-/5979"	"-/1992"	""	""	"rs58071278"	"1"	NA	-1	"TRIP12"	"HGNC"	12306	"protein_coding"	"YES"	"CCDS33391.1"	"ENSP00000283943"	"Q14669"	"Q57Z94,F8W9P3,C9JSX9,C9JLJ5"	"UPI000013739D"	"NM_004238.1"	NA	NA	""	"23/40"	""	"-:0.4762"	"-:0.621"	"-:0.4669"	NA	"-:0.3571"	"-:0.504"	"-:0.3814"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAACA"	"8c810da2-280f-11e6-b562-0633424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"4325"	"SP110"	3431	"mskcc.org"	"GRCh37"	"2"	231033633	231033634	"+"	"3'Flank"	"INS"	"-"	"-"	"TTAAT"	"rs5839361"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000258381"	""	52	"."	4	8	"."	0	"SP110,downstream_gene_variant,,ENST00000258381,NM_080424.2;SP110,downstream_gene_variant,,ENST00000358662,NM_004509.3;AC009950.2,intron_variant,,ENST00000609120,;AC009950.2,upstream_gene_variant,,ENST00000595586,;AC009950.2,upstream_gene_variant,,ENST00000600787,;AC009950.2,upstream_gene_variant,,ENST00000594622,;AC009950.2,downstream_gene_variant,,ENST00000445199,;AC009950.2,upstream_gene_variant,,ENST00000454058,;SP110,downstream_gene_variant,,ENST00000480916,;SP110,non_coding_transcript_exon_variant,,ENST00000477068,;SP110,downstream_gene_variant,,ENST00000483067,;SP110,downstream_gene_variant,,ENST00000463022,;"	"TTAAT"	"ENSG00000135899"	"ENST00000258381"	"Transcript"	"downstream_gene_variant"	"-/2426"	"-/2142"	"-/713"	""	""	"rs5839361"	"1"	NA	-1	"SP110"	"HGNC"	5401	"protein_coding"	"YES"	"CCDS2475.1"	"ENSP00000258381"	"Q9HB58"	"Q2I9M3,Q2I9M2,Q2I9M1,Q2I9M0,Q2I9L9,E9PHK4,E7EM70,C9JZQ4"	"UPI000013CFC9"	"NM_080424.2"	NA	NA	""	""	""	"TTAATT:0.4347"	"TTAATT:0.3888"	"TTAATT:0.4337"	NA	"TTAATT:0.371"	"TTAATT:0.5209"	"TTAATT:0.4744"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"a2e5b386-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WXS"	FALSE
"4326"	"SP110"	3431	"mskcc.org"	"GRCh37"	"2"	231067796	231067796	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs139907286"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.899-352delT"	""	""	"ENST00000258381"	""	10	"."	4	4	"."	0	"SP110,intron_variant,,ENST00000258381,NM_080424.2;SP110,intron_variant,,ENST00000358662,NM_004509.3;SP110,intron_variant,,ENST00000258382,NM_004510.3;SP110,intron_variant,,ENST00000540870,NM_001185015.1;SP110,intron_variant,,ENST00000392048,;SP110,intron_variant,,ENST00000338556,;SP140,upstream_gene_variant,,ENST00000456542,;SP110,non_coding_transcript_exon_variant,,ENST00000486146,;SP140,upstream_gene_variant,,ENST00000441657,;SP110,intron_variant,,ENST00000490880,;"	"-"	"ENSG00000135899"	"ENST00000258381"	"Transcript"	"intron_variant"	"-/2426"	"-/2142"	"-/713"	""	""	"rs139907286"	"1"	NA	-1	"SP110"	"HGNC"	5401	"protein_coding"	"YES"	"CCDS2475.1"	"ENSP00000258381"	"Q9HB58"	"Q2I9M3,Q2I9M2,Q2I9M1,Q2I9M0,Q2I9L9,E9PHK4,E7EM70,C9JZQ4"	"UPI000013CFC9"	"NM_080424.2"	NA	NA	""	"8/18"	""	"-:0.1747"	"-:0.1657"	"-:0.0648"	NA	"-:0.2093"	"-:0.1004"	"-:0.3057"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATAA"	"8c8aeaa2-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4327"	"GPR55"	9290	"mskcc.org"	"GRCh37"	"2"	231797873	231797874	"+"	"Intron"	"INS"	"-"	"-"	"GCTCCCATCTCTCACTGGCTGCCCACTGACTTTTTGGAACCTGGAAGGCCTGCCGCCTTGCAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-134-22063_-134-22062insCTGCAAGGCGGCAGGCCTTCCAGGTTCCAAAAAGTCAGTGGGCAGCCAGTGAGAGATGGGAGC"	""	""	"ENST00000392039"	""	24	"."	4	6	"."	0	"GPR55,intron_variant,,ENST00000392039,;"	"GCTCCCATCTCTCACTGGCTGCCCACTGACTTTTTGGAACCTGGAAGGCCTGCCGCCTTGCAG"	"ENSG00000135898"	"ENST00000392039"	"Transcript"	"intron_variant"	"-/1523"	"-/960"	"-/319"	""	""	""	"1"	NA	-1	"GPR55"	"HGNC"	4511	"protein_coding"	""	"CCDS2480.1"	"ENSP00000375893"	"Q9Y2T6"	"C9J1P7,A8K858"	"UPI000006D64F"	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"a2f7bf9a-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"4328"	"PDE6D"	5147	"mskcc.org"	"GRCh37"	"2"	232626097	232626098	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs35025339"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.50+19677dupC"	""	""	"ENST00000287600"	""	6	"."	5	1	"."	0	"PDE6D,intron_variant,,ENST00000287600,NM_002601.2;PDE6D,intron_variant,,ENST00000409772,;PDE6D,intron_variant,,ENST00000428104,;PDE6D,intron_variant,,ENST00000486044,;"	"G"	"ENSG00000156973"	"ENST00000287600"	"Transcript"	"intron_variant"	"-/1175"	"-/453"	"-/150"	""	""	"rs35025339"	"1"	NA	-1	"PDE6D"	"HGNC"	8788	"protein_coding"	"YES"	"CCDS33398.1"	"ENSP00000287600"	"O43924"	"Q6IB24,C9IZ52"	"UPI0000000C8B"	"NM_002601.2"	NA	NA	""	"1/4"	""	"G:0.2063"	"G:0.1641"	"G:0.2464"	NA	"G:0.1052"	"G:0.3161"	"G:0.226"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"a30f3012-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4329"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	232734781	232734785	"+"	"IGR"	"DEL"	"CTTTT"	"CTTTT"	"-"	"rs145042795"	NA	"JHCCPT5"	"JHCCPN5"	"CTTTT"	"CTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	3	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145042795"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1556"	"-:0.0809"	"-:0.1902"	NA	"-:0.0764"	"-:0.2674"	"-:0.1984"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTTTC"	"8d029eee-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"4330"	"AC068134.10"	0	"mskcc.org"	"GRCh37"	"2"	233211236	233211237	"+"	"3'Flank"	"INS"	"-"	"-"	"CCACCA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000513620"	""	20	"."	6	6	"."	0	"DIS3L2,downstream_gene_variant,,ENST00000273009,NM_001257281.1;AC068134.10,downstream_gene_variant,,ENST00000513620,;ECEL1P3,downstream_gene_variant,,ENST00000427961,;"	"CCACCA"	"ENSG00000251485"	"ENST00000513620"	"Transcript"	"downstream_gene_variant"	"-/788"	""	""	""	""	""	"1"	"2623"	1	"AC068134.10"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"a320a8ec-280f-11e6-b562-0633424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"4331"	"EFHD1"	80303	"mskcc.org"	"GRCh37"	"2"	233483942	233483943	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs139398078"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.14+13060dupT"	""	""	"ENST00000409613"	""	18	"."	5	3	"."	0	"EFHD1,intron_variant,,ENST00000409613,NM_001243252.1;"	"T"	"ENSG00000115468"	"ENST00000409613"	"Transcript"	"intron_variant"	"-/1156"	"-/432"	"-/143"	""	""	"rs139398078"	"1"	NA	1	"EFHD1"	"HGNC"	29556	"protein_coding"	""	"CCDS58755.1"	"ENSP00000386556"	"Q9BUP0"	"Q8WYH2,Q53SA2,C9JTV4"	"UPI0000E07F8D"	"NM_001243252.1"	NA	NA	""	"1/3"	""	"T:0.3870"	"T:0.3359"	"T:0.5807"	NA	"T:0.2738"	"T:0.4692"	"T:0.3507"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"a3303226-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"4332"	"EFHD1"	80303	"mskcc.org"	"GRCh37"	"2"	233499704	233499705	"+"	"Intron"	"INS"	"-"	"-"	"GCGCTGCGTCGCCTGAGCCT"	"rs79859174"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.302+989_302+1008dupGCGCTGCGTCGCCTGAGCCT"	""	""	"ENST00000264059"	""	12	"."	4	1	"."	0	"EFHD1,intron_variant,,ENST00000264059,NM_025202.3;EFHD1,intron_variant,,ENST00000409613,NM_001243252.1;EFHD1,upstream_gene_variant,,ENST00000409708,;EFHD1,intron_variant,,ENST00000442845,;"	"GCGCTGCGTCGCCTGAGCCT"	"ENSG00000115468"	"ENST00000264059"	"Transcript"	"intron_variant"	"-/2259"	"-/720"	"-/239"	""	""	"rs79859174"	"1"	NA	1	"EFHD1"	"HGNC"	29556	"protein_coding"	"YES"	"CCDS2497.1"	"ENSP00000264059"	"Q9BUP0"	"Q8WYH2,Q53SA2,Q53S38,C9JTV4,B4DEE0"	"UPI00001362A7"	"NM_025202.3"	NA	NA	""	"1/3"	""	"GCGCTGCGTCGCCTGAGCCT:0.1452"	"GCGCTGCGTCGCCTGAGCCT:0.0454"	"GCGCTGCGTCGCCTGAGCCT:0.2305"	NA	"GCGCTGCGTCGCCTGAGCCT:0.006"	"GCGCTGCGTCGCCTGAGCCT:0.3529"	"GCGCTGCGTCGCCTGAGCCT:0.1493"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"a3311128-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4333"	"NGEF"	25791	"mskcc.org"	"GRCh37"	"2"	233756672	233756689	"+"	"Intron"	"DEL"	"GCAGGGATGGCAGGGACG"	"GCAGGGATGGCAGGGACG"	"-"	"rs66645273"	NA	"JHCCPT5"	"JHCCPN5"	"GCAGGGATGGCAGGGACG"	"GCAGGGATGGCAGGGACG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1143-492_1143-475delCGTCCCTGCCATCCCTGC"	""	""	"ENST00000264051"	""	16	"."	3	5	"."	0	"NGEF,intron_variant,,ENST00000264051,NM_019850.2;NGEF,intron_variant,,ENST00000373552,NM_001114090.1;NGEF,intron_variant,,ENST00000539537,;NGEF,intron_variant,,ENST00000416114,;NGEF,intron_variant,,ENST00000458735,;NGEF,downstream_gene_variant,,ENST00000409079,;NGEF,upstream_gene_variant,,ENST00000424488,;NGEF,downstream_gene_variant,,ENST00000420650,;NGEF,upstream_gene_variant,,ENST00000461944,;"	"-"	"ENSG00000066248"	"ENST00000264051"	"Transcript"	"intron_variant"	"-/3215"	"-/2133"	"-/710"	""	""	"rs66645273"	"1"	NA	-1	"NGEF"	"HGNC"	7807	"protein_coding"	"YES"	"CCDS2500.1"	"ENSP00000264051"	"Q8N5V2"	"C9JTV7,B4DDI2"	"UPI000013D4AE"	"NM_019850.2"	NA	NA	""	"7/14"	""	"GCAGGGATGGCAGGGACG:0.2919"	"-:0.7179"	"-:0.7478"	NA	"-:0.749"	"-:0.7058"	"-:0.6268"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGCAGGGATGGCAGGGACGG"	"8da95b58-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"4334"	"UGT1A6"	54578	"mskcc.org"	"GRCh37"	"2"	234668879	234668880	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs34983651"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.862-6787_862-6786dupTA"	""	""	"ENST00000305139"	""	24	"."	4	10	"."	0	"UGT1A6,intron_variant,,ENST00000305139,NM_001072.3;UGT1A9,intron_variant,,ENST00000354728,;UGT1A10,intron_variant,,ENST00000344644,NM_019075.2;UGT1A8,intron_variant,,ENST00000373450,NM_019076.4;UGT1A4,intron_variant,,ENST00000373409,NM_007120.2;UGT1A8,intron_variant,,ENST00000609637,NM_021027.2;UGT1A3,intron_variant,,ENST00000482026,;UGT1A8,intron_variant,,ENST00000609767,NM_019093.2;UGT1A5,intron_variant,,ENST00000373414,;UGT1A8,intron_variant,,ENST00000608381,NM_019078.1;UGT1A7,intron_variant,,ENST00000373426,NM_019077.2;UGT1A10,intron_variant,,ENST00000373445,;UGT1A6,intron_variant,,ENST00000373424,NM_205862.1;UGT1A6,intron_variant,,ENST00000406651,;UGT1A8,upstream_gene_variant,,ENST00000360418,;UGT1A1,upstream_gene_variant,,ENST00000305208,NM_000463.2;UGT1A8,upstream_gene_variant,,ENST00000608383,;UGT1A6,downstream_gene_variant,,ENST00000480628,;AC114812.5,upstream_gene_variant,,ENST00000450901,;AC114812.5,upstream_gene_variant,,ENST00000421868,;AC114812.5,upstream_gene_variant,,ENST00000389816,;UGT1A4,intron_variant,,ENST00000450233,;UGT1A6,intron_variant,,ENST00000446481,;UGT1A6,intron_variant,,ENST00000484784,;AC114812.5,upstream_gene_variant,,ENST00000449669,;"	"AT"	"ENSG00000167165"	"ENST00000305139"	"Transcript"	"intron_variant"	"-/2479"	"-/1599"	"-/532"	""	""	"rs34983651"	"1"	NA	1	"UGT1A6"	"HGNC"	12538	"protein_coding"	"YES"	"CCDS2507.1"	"ENSP00000303174"	"P19224"	"Q5DSZ8,H7C5F8,C9JMY5"	"UPI000007021F"	"NM_001072.3"	NA	NA	""	"1/4"	""	"AT:0.3253"	"AT:0.4266"	"AT:0.3617"	NA	"AT:0.129"	"AT:0.2922"	"AT:0.3988"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	"15"	"1"	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"a363b24a-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"4335"	"HJURP"	55355	"mskcc.org"	"GRCh37"	"2"	234751246	234751247	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs34711279"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.575-396_575-395insA"	""	""	"ENST00000411486"	""	6	"."	3	2	"."	0	"HJURP,intron_variant,,ENST00000411486,NM_018410.3;HJURP,intron_variant,,ENST00000432087,NM_001282962.1;HJURP,intron_variant,,ENST00000441687,NM_001282963.1;HJURP,intron_variant,,ENST00000414924,;HJURP,intron_variant,,ENST00000454020,;HJURP,intron_variant,,ENST00000434039,;HJURP,intron_variant,,ENST00000453122,;HJURP,upstream_gene_variant,,ENST00000433484,;HJURP,downstream_gene_variant,,ENST00000373395,;"	"T"	"ENSG00000123485"	"ENST00000411486"	"Transcript"	"intron_variant"	"-/3187"	"-/2247"	"-/748"	""	""	"rs34711279"	"1"	NA	-1	"HJURP"	"HGNC"	25444	"protein_coding"	"YES"	"CCDS33406.1"	"ENSP00000414109"	"Q8NCD3"	""	"UPI000013CB29"	"NM_018410.3"	NA	NA	""	"7/8"	""	"-:0.2612"	"T:0.885"	"T:0.6628"	NA	"T:0.8631"	"T:0.6004"	"T:0.6094"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"a3662624-280f-11e6-b562-0633424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4336"	"AGAP1"	116987	"mskcc.org"	"GRCh37"	"2"	236663989	236663993	"+"	"Intron"	"DEL"	"TTTGT"	"TTTGT"	"-"	"rs71400784"	NA	"JHCCPT5"	"JHCCPN5"	"TTTGT"	"TTTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.673+4858_673+4862delTTGTT"	""	""	"ENST00000304032"	""	6	"."	4	2	"."	0	"AGAP1,intron_variant,,ENST00000304032,NM_001037131.2;AGAP1,intron_variant,,ENST00000409538,;AGAP1,intron_variant,,ENST00000336665,NM_014914.4;AGAP1,intron_variant,,ENST00000428334,;AGAP1,intron_variant,,ENST00000409457,NM_001244888.1;"	"-"	"ENSG00000157985"	"ENST00000304032"	"Transcript"	"intron_variant"	"-/10832"	"-/2574"	"-/857"	""	""	"rs71400784"	"1"	NA	1	"AGAP1"	"HGNC"	16922	"protein_coding"	"YES"	"CCDS33408.1"	"ENSP00000307634"	"Q9UPQ3"	"Q53S93,Q4ZG54,Q4ZG22,F5GXM9"	"UPI00005E1AE1"	"NM_001037131.2"	NA	NA	""	"6/17"	""	"-:0.2897"	"-:0.1634"	"-:0.2378"	NA	"-:0.4861"	"-:0.2356"	"-:0.3507"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATTTGTT"	"8e876bbe-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4337"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	237567153	237567154	"+"	"IGR"	"INS"	"-"	"-"	"TTTCTCTTTCTTTCTTTG"	"rs144388537"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"TTTCTCTTTCTTTCTTTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144388537"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3083"	"TTTCTCTTTCTTTCTTTG:0.646"	"TTTCTCTTTCTTTCTTTG:0.7651"	NA	"TTTCTCTTTCTTTCTTTG:0.7956"	"TTTCTCTTTCTTTCTTTG:0.5895"	"TTTCTCTTTCTTTCTTTG:0.6994"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"a383316a-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4338"	"LRRFIP1"	9208	"mskcc.org"	"GRCh37"	"2"	238575440	238575441	"+"	"Intron"	"INS"	"-"	"-"	"TTTCTCTTTCTCTT"	"rs772099406"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.96+39058_96+39059insTTCTCTTTCTCTTT"	""	""	"ENST00000308482"	""	8	"."	5	3	"."	0	"LRRFIP1,intron_variant,,ENST00000308482,NM_001137550.1;LRRFIP1,intron_variant,,ENST00000465870,;"	"TTTCTCTTTCTCTT"	"ENSG00000124831"	"ENST00000308482"	"Transcript"	"intron_variant"	"-/2775"	"-/1923"	"-/640"	""	""	"rs772099406"	"1"	NA	1	"LRRFIP1"	"HGNC"	6702	"protein_coding"	""	"CCDS46551.1"	"ENSP00000310109"	"Q32MZ4"	"Q9BSL6"	"UPI000155D57C"	"NM_001137550.1"	NA	NA	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"a38d6e5a-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4339"	"LRRFIP1"	9208	"mskcc.org"	"GRCh37"	"2"	238575559	238575570	"+"	"Intron"	"DEL"	"CTTTCTTTCTTT"	"CTTTCTTTCTTT"	"-"	"rs144037636"	NA	"JHCCPT5"	"JHCCPN5"	"CTTTCTTTCTTT"	"CTTTCTTTCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.96+39196_96+39207delCTTTCTTTCTTT"	""	""	"ENST00000308482"	""	6	"."	4	1	"."	0	"LRRFIP1,intron_variant,,ENST00000308482,NM_001137550.1;LRRFIP1,intron_variant,,ENST00000465870,;"	"-"	"ENSG00000124831"	"ENST00000308482"	"Transcript"	"intron_variant"	"-/2775"	"-/1923"	"-/640"	""	""	"rs144037636"	"1"	NA	1	"LRRFIP1"	"HGNC"	6702	"protein_coding"	""	"CCDS46551.1"	"ENSP00000310109"	"Q32MZ4"	"Q9BSL6"	"UPI000155D57C"	"NM_001137550.1"	NA	NA	""	"1/23"	""	"CTTTCTTTCTTT:0.1875"	"-:0.6884"	"-:0.7983"	NA	"-:0.9177"	"-:0.8797"	"-:0.8129"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCTTTCTTTCTTTC"	"8eba8ea4-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4340"	"LINC01107"	151171	"mskcc.org"	"GRCh37"	"2"	239420345	239420346	"+"	"RNA"	"INS"	"-"	"-"	"C"	"rs145495089"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.960_961insG"	""	""	"ENST00000446979"	"3/3"	7	"."	4	2	"."	0	"LINC01107,non_coding_transcript_exon_variant,,ENST00000446979,;"	"C"	"ENSG00000225493"	"ENST00000446979"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"960-961/1975"	""	""	""	""	"rs145495089"	"1"	NA	-1	"LINC01107"	"HGNC"	49229	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	"3/3"	""	""	"C:0.4826"	"C:0.7474"	"C:0.5533"	NA	"C:0.3185"	"C:0.3976"	"C:0.3313"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"a3b7eb76-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4341"	"AC114788.1"	0	"mskcc.org"	"GRCh37"	"2"	239890903	239890904	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"rs34204642"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390140"	""	13	"."	7	3	"."	0	"AC114788.1,downstream_gene_variant,,ENST00000390140,;"	"A"	"ENSG00000211566"	"ENST00000390140"	"Transcript"	"downstream_gene_variant"	"-/83"	""	""	""	""	"rs34204642"	"1"	"3720"	-1	"AC114788.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"a3be632a-280f-11e6-b562-0633424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.538461538461538	"WXS"	FALSE
"4342"	"STK25"	10494	"mskcc.org"	"GRCh37"	"2"	242447628	242447629	"+"	"Intron"	"INS"	"-"	"-"	"G"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-100-79dupC"	""	""	"ENST00000316586"	""	222	"."	31	25	"."	0	"STK25,5_prime_UTR_variant,,ENST00000401869,NM_001271978.1;STK25,5_prime_UTR_variant,,ENST00000424537,;STK25,5_prime_UTR_variant,,ENST00000439101,;STK25,intron_variant,,ENST00000316586,NM_001282308.1;STK25,intron_variant,,ENST00000403346,NM_006374.4,NM_001271977.1;STK25,intron_variant,,ENST00000543554,;STK25,intron_variant,,ENST00000405883,NM_001271979.1;STK25,intron_variant,,ENST00000405585,NM_001271980.1;STK25,intron_variant,,ENST00000535007,;STK25,intron_variant,,ENST00000440109,;STK25,intron_variant,,ENST00000442307,;STK25,intron_variant,,ENST00000413760,;STK25,intron_variant,,ENST00000436402,;STK25,intron_variant,,ENST00000429279,;STK25,intron_variant,,ENST00000426941,;STK25,intron_variant,,ENST00000420551,;STK25,intron_variant,,ENST00000461760,;STK25,intron_variant,,ENST00000452891,;STK25,intron_variant,,ENST00000483603,;STK25,intron_variant,,ENST00000436917,;STK25,intron_variant,,ENST00000495372,;"	"G"	"ENSG00000115694"	"ENST00000316586"	"Transcript"	"intron_variant"	"-/4619"	"-/1281"	"-/426"	""	""	""	"1"	NA	-1	"STK25"	"HGNC"	11404	"protein_coding"	"YES"	"CCDS2549.1"	"ENSP00000325748"	"O00506"	"E7EM58,C9JJV0,C9JDH9,C9JCC0,C9J232,B7Z9K1"	"UPI0000000C8C"	"NM_001282308.1"	NA	NA	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"a41066d4-280f-11e6-b562-0633424a729f"	"1860"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13963963963964	"WXS"	FALSE
"4343"	"D2HGDH"	728294	"mskcc.org"	"GRCh37"	"2"	242673988	242673989	"+"	"5'Flank"	"INS"	"-"	"-"	"GGGGCTTCGGCGGT"	"rs200694925"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000321264"	""	10	"."	5	1	"."	0	"D2HGDH,upstream_gene_variant,,ENST00000321264,NM_152783.3;D2HGDH,upstream_gene_variant,,ENST00000403782,NM_001287249.1;D2HGDH,upstream_gene_variant,,ENST00000537090,;D2HGDH,upstream_gene_variant,,ENST00000342518,;AC114730.8,downstream_gene_variant,,ENST00000400768,;D2HGDH,upstream_gene_variant,,ENST00000463932,;D2HGDH,upstream_gene_variant,,ENST00000436747,;D2HGDH,upstream_gene_variant,,ENST00000400769,;"	"GGGGCTTCGGCGGT"	"ENSG00000180902"	"ENST00000321264"	"Transcript"	"upstream_gene_variant"	"-/2617"	"-/1566"	"-/521"	""	""	"rs200694925"	"1"	"5"	1	"D2HGDH"	"HGNC"	28358	"protein_coding"	"YES"	"CCDS33426.1"	"ENSP00000315351"	"Q8N465"	"B5MCV2,B3KP72"	"UPI0000456F51"	"NM_152783.3"	NA	NA	""	""	""	"-:0.4441"	"GGGGCTTCGGCGGT:0.671"	"GGGGCTTCGGCGGT:0.585"	NA	"GGGGCTTCGGCGGT:0.5595"	"GGGGCTTCGGCGGT:0.5199"	"GGGGCTTCGGCGGT:0.4131"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"a41ad420-280f-11e6-b562-0633424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4344"	"AC131097.3"	101927289	"mskcc.org"	"GRCh37"	"2"	242848137	242848138	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs78337947"	NA	"JHCCPT5"	"JHCCPN5"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.192+23352_192+23353delTC"	""	""	"ENST00000430555"	""	6	"."	4	2	"."	0	"AC131097.4,upstream_gene_variant,,ENST00000401641,;AC131097.3,intron_variant,,ENST00000430555,;AC131097.3,intron_variant,,ENST00000457686,;AC131097.3,intron_variant,,ENST00000415434,;AC131097.3,intron_variant,,ENST00000429947,;"	"-"	"ENSG00000233806"	"ENST00000430555"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/843"	""	""	""	""	"rs78337947"	"1"	NA	1	"AC131097.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	"-:0.1921"	"-:0.4168"	"-:0.1297"	NA	"-:0.1419"	"-:0.1213"	"-:0.0573"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACTC"	"9021021e-280f-11e6-b562-0633424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4345"	"SIRPB1"	10326	"mskcc.org"	"GRCh37"	"20"	1592044	1592048	"+"	"Intron"	"DEL"	"ACGTG"	"ACGTG"	"GT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"ACGTG"	"ACGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.76+8467_76+8471delCACGTinsAC"	""	""	"ENST00000381605"	""	8	"."	4	4	"."	0	"SIRPB1,protein_altering_variant,p.His130_Val131delinsThr,ENST00000279477,NM_001135844.2;SIRPB1,protein_altering_variant,p.His130_Val131delinsThr,ENST00000568365,;RP4-576H24.4,protein_altering_variant,p.His55_Val56delinsThr,ENST00000566961,;SIRPB1,protein_altering_variant,p.His7_Val8delinsThr,ENST00000569629,;SIRPB1,intron_variant,,ENST00000381605,NM_006065.3;SIRPB1,intron_variant,,ENST00000381603,NM_001083910.2;RP4-576H24.4,intron_variant,,ENST00000564763,;SIRPB1,non_coding_transcript_exon_variant,,ENST00000381596,;SIRPB1,intron_variant,,ENST00000565775,;"	"GT"	"ENSG00000101307"	"ENST00000381605"	"Transcript"	"intron_variant"	"-/3241"	"-/1197"	"-/398"	""	""	""	"1"	NA	-1	"SIRPB1"	"HGNC"	15928	"protein_coding"	"YES"	"CCDS13019.1"	"ENSP00000371018"	"O00241"	""	"UPI000036700F"	"NM_006065.3"	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCACGTGG"	"733afb3c-280f-11e6-8904-1133424a729f"	"185"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4346"	"TMC2"	117532	"mskcc.org"	"GRCh37"	"20"	2526468	2526469	"+"	"Intron"	"INS"	"-"	"-"	"AAGAAAGAAAGA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.82+8527_82+8538dupAAGAAAGAAAGA"	""	""	"ENST00000358864"	""	22	"."	6	3	"."	0	"TMC2,intron_variant,,ENST00000358864,NM_080751.2;"	"AAGAAAGAAAGA"	"ENSG00000149488"	"ENST00000358864"	"Transcript"	"intron_variant"	"-/3169"	"-/2721"	"-/906"	""	""	""	"1"	NA	1	"TMC2"	"HGNC"	16527	"protein_coding"	"YES"	"CCDS13029.2"	"ENSP00000351732"	"Q8TDI7"	""	"UPI0000246C98"	"NM_080751.2"	NA	NA	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"32"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"73f846a6-280f-11e6-8904-1133424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4347"	"ATRN"	8455	"mskcc.org"	"GRCh37"	"20"	3627925	3627926	"+"	"3'UTR"	"INS"	"-"	"TTAAC"	"TTAAC"	"rs10626102"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*433_*434insAACTT"	""	""	"ENST00000262919"	"29/29"	9	"."	7	1	"."	0	"ATRN,3_prime_UTR_variant,,ENST00000262919,NM_139321.2;"	"TTAAC"	"ENSG00000088812"	"ENST00000262919"	"Transcript"	"3_prime_UTR_variant"	"4789-4790/8633"	"-/4290"	"-/1429"	""	""	"rs10626102"	"1"	NA	1	"ATRN"	"HGNC"	885	"protein_coding"	"YES"	"CCDS13053.1"	"ENSP00000262919"	"O75882"	""	"UPI000012661C"	"NM_139321.2"	NA	NA	"29/29"	""	""	"-:0.0751"	"TTAAC:0.9637"	"TTAAC:0.8818"	NA	"TTAAC:0.999"	"TTAAC:0.7913"	"TTAAC:0.9642"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7479e878-280f-11e6-8904-1133424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	FALSE
"4348"	"ADAM33"	80332	"mskcc.org"	"GRCh37"	"20"	3660902	3660903	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs4987244"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.98-685dupG"	""	""	"ENST00000356518"	""	8	"."	4	6	"."	0	"ADAM33,intron_variant,,ENST00000356518,NM_025220.2;ADAM33,intron_variant,,ENST00000379861,NM_001282447.1;ADAM33,intron_variant,,ENST00000350009,NM_153202.1;"	"C"	"ENSG00000149451"	"ENST00000356518"	"Transcript"	"intron_variant"	"-/3677"	"-/2442"	"-/813"	""	""	"rs4987244"	"1"	NA	-1	"ADAM33"	"HGNC"	15478	"protein_coding"	"YES"	"CCDS13058.1"	"ENSP00000348912"	"Q9BZ11"	"Q8N6B9"	"UPI0000048F2A"	"NM_025220.2"	NA	NA	""	"1/21"	""	"-:0.4411"	"C:0.6581"	"C:0.6239"	NA	"C:0.4137"	"C:0.496"	"C:0.593"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"74825bf2-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4349"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	4260218	4260219	"+"	"IGR"	"INS"	"-"	"A"	"A"	"rs34869547"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34869547"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.2210"	"A:0.177"	"A:0.2262"	NA	"A:0.252"	"A:0.2435"	"A:0.2219"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"74b920b0-280f-11e6-8904-1133424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4350"	"PLCB1"	23236	"mskcc.org"	"GRCh37"	"20"	8610611	8610630	"+"	"Intron"	"DEL"	"TTCTTTCTTTCTTTCTTTCT"	"TTCTTTCTTTCTTTCTTTCT"	"-"	"rs201039269"	NA	"JHCCPT5"	"JHCCPN5"	"TTCTTTCTTTCTTTCTTTCT"	"TTCTTTCTTTCTTTCTTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.384+1561_384+1580delTTCTTTCTTTCTTTCTTTCT"	""	""	"ENST00000338037"	""	8	"."	3	1	"."	0	"PLCB1,intron_variant,,ENST00000378641,NM_182734.2;PLCB1,intron_variant,,ENST00000338037,NM_015192.3;PLCB1,intron_variant,,ENST00000378637,;PLCB1,intron_variant,,ENST00000404098,;"	"-"	"ENSG00000182621"	"ENST00000338037"	"Transcript"	"intron_variant"	"-/6729"	"-/3651"	"-/1216"	""	""	"rs201039269"	"1"	NA	1	"PLCB1"	"HGNC"	15917	"protein_coding"	"YES"	"CCDS13102.1"	"ENSP00000338185"	"Q9NQ66"	""	"UPI0000131A8F"	"NM_015192.3"	NA	NA	""	"4/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"28"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTTCTTTCTTTCTTTCTTTCTT"	"66859d16-280f-11e6-8904-1133424a729f"	"160"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4351"	"PLCB4"	5332	"mskcc.org"	"GRCh37"	"20"	9319045	9319046	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35273405"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.225+334dupT"	""	""	"ENST00000378501"	""	11	"."	4	4	"."	0	"PLCB4,intron_variant,,ENST00000378501,NM_000933.3;PLCB4,intron_variant,,ENST00000378493,;PLCB4,intron_variant,,ENST00000334005,;PLCB4,intron_variant,,ENST00000378473,NM_001172646.1;PLCB4,intron_variant,,ENST00000278655,NM_182797.2;PLCB4,intron_variant,,ENST00000414679,;PLCB4,intron_variant,,ENST00000407043,;PLCB4,intron_variant,,ENST00000441846,;PLCB4,intron_variant,,ENST00000437503,;PLCB4,downstream_gene_variant,,ENST00000416836,;PLCB4,intron_variant,,ENST00000492632,;"	"T"	"ENSG00000101333"	"ENST00000378501"	"Transcript"	"intron_variant"	"-/5833"	"-/3585"	"-/1194"	""	""	"rs35273405"	"1"	NA	1	"PLCB4"	"HGNC"	9059	"protein_coding"	"YES"	"CCDS13104.1"	"ENSP00000367762"	"Q15147"	"B1AJW4,B1AJW3,B1AJW2,B1AJW1"	"UPI00002069DF"	"NM_000933.3"	NA	NA	""	"3/35"	""	"T:0.0501"	"T:0.0802"	"T:0.0461"	NA	"T:0.001"	"T:0.0626"	"T:0.0501"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"751178fa-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4352"	"PLCB4"	5332	"mskcc.org"	"GRCh37"	"20"	9439998	9439999	"+"	"Intron"	"INS"	"-"	"-"	"AAAC"	"rs11472100"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3037-272_3037-269dupCAAA"	""	""	"ENST00000378501"	""	23	"."	5	7	"."	0	"PLCB4,intron_variant,,ENST00000378501,NM_000933.3;PLCB4,intron_variant,,ENST00000378493,;PLCB4,intron_variant,,ENST00000334005,;PLCB4,intron_variant,,ENST00000378473,NM_001172646.1;PLCB4,intron_variant,,ENST00000278655,NM_182797.2;PLCB4,intron_variant,,ENST00000414679,;PLCB4,intron_variant,,ENST00000492632,;PLCB4,intron_variant,,ENST00000464199,;PLCB4,intron_variant,,ENST00000482123,;PLCB4,intron_variant,,ENST00000473151,;"	"AAAC"	"ENSG00000101333"	"ENST00000378501"	"Transcript"	"intron_variant"	"-/5833"	"-/3585"	"-/1194"	""	""	"rs11472100"	"1"	NA	1	"PLCB4"	"HGNC"	9059	"protein_coding"	"YES"	"CCDS13104.1"	"ENSP00000367762"	"Q15147"	"B1AJW4,B1AJW3,B1AJW2,B1AJW1"	"UPI00002069DF"	"NM_000933.3"	NA	NA	""	"30/35"	""	"C:0.0020"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"75158dc8-280f-11e6-8904-1133424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WXS"	FALSE
"4353"	"SNAP25-AS1"	100131208	"mskcc.org"	"GRCh37"	"20"	10347973	10347978	"+"	"Intron"	"DEL"	"AACTTT"	"AACTTT"	"-"	"rs142470339"	NA	"JHCCPT5"	"JHCCPN5"	"AACTTT"	"AACTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.5+1385_5+1390delAAAGTT"	""	""	"ENST00000421143"	""	9	"."	5	1	"."	0	"SNAP25-AS1,intron_variant,,ENST00000421143,;SNAP25-AS1,intron_variant,,ENST00000453544,;"	"-"	"ENSG00000227906"	"ENST00000421143"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/808"	""	""	""	""	"rs142470339"	"1"	NA	-1	"SNAP25-AS1"	"HGNC"	44312	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"-:0.3490"	"-:0.6278"	"-:0.2637"	NA	"-:0.2202"	"-:0.2525"	"-:0.2648"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAAACTTTA"	"66b8b476-280f-11e6-8904-1133424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"4354"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	11346984	11346985	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs34916671"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34916671"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.3341"	"C:0.2224"	"C:0.2839"	NA	"C:0.4563"	"C:0.2803"	"C:0.4499"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75416542-280f-11e6-8904-1133424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4355"	"SEL1L2"	80343	"mskcc.org"	"GRCh37"	"20"	13828920	13828924	"+"	"3'Flank"	"DEL"	"AGAAG"	"AGAAG"	"-"	"rs10608755"	NA	"JHCCPT5"	"JHCCPN5"	"AGAAG"	"AGAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000378072"	""	25	"."	3	5	"."	0	"SEL1L2,downstream_gene_variant,,ENST00000284951,;SEL1L2,downstream_gene_variant,,ENST00000378072,NM_001271539.1;SEL1L2,downstream_gene_variant,,ENST00000486903,;SEL1L2,downstream_gene_variant,,ENST00000482196,;SEL1L2,downstream_gene_variant,,ENST00000492548,;SEL1L2,downstream_gene_variant,,ENST00000423870,;SEL1L2,downstream_gene_variant,,ENST00000475649,;"	"-"	"ENSG00000101251"	"ENST00000378072"	"Transcript"	"downstream_gene_variant"	"-/1892"	"-/1728"	"-/575"	""	""	"rs10608755"	"1"	"1125"	-1	"SEL1L2"	"HGNC"	15897	"protein_coding"	"YES"	"CCDS59443.1"	"ENSP00000367312"	"Q5TEA6"	"C9JNX3"	"UPI000003BCBF"	"NM_001271539.1"	NA	NA	""	""	""	"-:0.4892"	"-:0.261"	"-:0.5101"	NA	"-:0.6518"	"-:0.5646"	"-:0.5378"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGAAGA"	"673c4a0c-280f-11e6-8904-1133424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WXS"	FALSE
"4356"	"MACROD2"	140733	"mskcc.org"	"GRCh37"	"20"	15658347	15658349	"+"	"Intron"	"DEL"	"ACC"	"ACC"	"-"	"rs140146582"	NA	"JHCCPT5"	"JHCCPN5"	"ACC"	"ACC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.645+177856_645+177858delCCA"	""	""	"ENST00000217246"	""	7	"."	4	1	"."	0	"MACROD2,intron_variant,,ENST00000217246,NM_080676.5;MACROD2,intron_variant,,ENST00000402914,NM_001033087.1;MACROD2,intron_variant,,ENST00000310348,;"	"-"	"ENSG00000172264"	"ENST00000217246"	"Transcript"	"intron_variant"	"-/4994"	"-/1278"	"-/425"	""	""	"rs140146582"	"1"	NA	1	"MACROD2"	"HGNC"	16126	"protein_coding"	"YES"	"CCDS13120.2"	"ENSP00000217246"	"A1Z1Q3"	""	"UPI00005B2E12"	"NM_080676.5"	NA	NA	""	"8/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAACCA"	"674d3f92-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4357"	"BFSP1"	631	"mskcc.org"	"GRCh37"	"20"	17544065	17544066	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs71192393"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-384-326_-384-325delCT"	""	""	"ENST00000536626"	""	7	"."	4	1	"."	0	"BFSP1,intron_variant,,ENST00000536626,NM_001278608.1;BFSP1,upstream_gene_variant,,ENST00000544874,NM_001278606.1;BFSP1,upstream_gene_variant,,ENST00000377868,NM_001278607.1,NM_001161705.1;BFSP1,intron_variant,,ENST00000473415,;"	"-"	"ENSG00000125864"	"ENST00000536626"	"Transcript"	"intron_variant"	"-/2183"	"-/1581"	"-/526"	""	""	"rs71192393"	"1"	NA	-1	"BFSP1"	"HGNC"	1040	"protein_coding"	""	"CCDS63229.1"	"ENSP00000442522"	""	"F5H0G1"	"UPI0000E0649F"	"NM_001278608.1"	NA	NA	""	"1/9"	""	"AG:0.1230"	"-:0.6815"	"-:0.9236"	NA	"-:0.9325"	"-:0.9702"	"-:0.955"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAGA"	"6783c95e-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4358"	"AL035045.1"	0	"mskcc.org"	"GRCh37"	"20"	17819608	17819609	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs73619867"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408293"	""	7	"."	4	2	"."	0	"AL035045.1,upstream_gene_variant,,ENST00000408293,;"	"G"	"ENSG00000221220"	"ENST00000408293"	"Transcript"	"upstream_gene_variant"	"-/146"	""	""	""	""	"rs73619867"	"1"	"3618"	1	"AL035045.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"75dd39ea-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4359"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	18221720	18221721	"+"	"IGR"	"INS"	"-"	"-"	"AAACAAAACAA"	"rs112926737"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"AAACAAAACAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112926737"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0337"	"AAACAAAACAA:0.879"	"AAACAAAACAA:0.9885"	NA	"AAACAAAACAA:1"	"AAACAAAACAA:1"	"AAACAAAACAA:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"75e8a258-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4360"	"RP4-568F9.6"	0	"mskcc.org"	"GRCh37"	"20"	18327649	18327650	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11482393"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.137-1460dupT"	""	""	"ENST00000457009"	""	26	"."	9	11	"."	0	"RP4-568F9.6,intron_variant,,ENST00000457009,;RP4-568F9.6,intron_variant,,ENST00000412241,;"	"A"	"ENSG00000230010"	"ENST00000457009"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2490"	""	""	""	""	"rs11482393"	"1"	NA	-1	"RP4-568F9.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	"-:0.3710"	"A:0.503"	"A:0.6859"	NA	"A:0.755"	"A:0.7018"	"A:0.5542"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"75eb7ab4-280f-11e6-8904-1133424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WXS"	FALSE
"4361"	"POLR3F"	10621	"mskcc.org"	"GRCh37"	"20"	18461237	18461237	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.681+84delG"	""	""	"ENST00000377603"	""	98	"."	3	25	"."	0	"POLR3F,intron_variant,,ENST00000377603,NM_006466.2;POLR3F,intron_variant,,ENST00000462997,;POLR3F,intron_variant,,ENST00000489753,;POLR3F,intron_variant,,ENST00000497333,;RPL21P3,upstream_gene_variant,,ENST00000395517,;"	"-"	"ENSG00000132664"	"ENST00000377603"	"Transcript"	"intron_variant"	"-/2416"	"-/951"	"-/316"	""	""	""	"1"	NA	1	"POLR3F"	"HGNC"	15763	"protein_coding"	"YES"	"CCDS13135.1"	"ENSP00000366828"	"Q9H1D9"	"Q05DB8"	"UPI0000134605"	"NM_006466.2"	NA	NA	""	"7/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"67e4e7fc-280f-11e6-8904-1133424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0306122448979592	"WXS"	FALSE
"4362"	"C20orf26"	26074	"mskcc.org"	"GRCh37"	"20"	20178360	20178360	"+"	"Intron"	"DEL"	"T"	"-"	"-"	"rs11087315"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1797+947delT"	""	""	"ENST00000245957"	""	6	"."	5	4	"."	0	"C20orf26,intron_variant,,ENST00000245957,NM_015585.3;C20orf26,intron_variant,,ENST00000377309,;C20orf26,intron_variant,,ENST00000389656,;C20orf26,intron_variant,,ENST00000431753,;C20orf26,intron_variant,,ENST00000476414,;C20orf26,intron_variant,,ENST00000468719,;C20orf26,downstream_gene_variant,,ENST00000471716,;"	"-"	"ENSG00000089101"	"ENST00000245957"	"Transcript"	"intron_variant"	"-/4082"	"-/3714"	"-/1237"	""	""	"rs11087315"	"1"	NA	1	"C20orf26"	"HGNC"	15872	"protein_coding"	"YES"	"CCDS33447.1"	"ENSP00000245957"	"Q8NHU2"	"C9JMV0,C9JHE8,C9J610"	"UPI0000206AE4"	"NM_015585.3"	NA	NA	""	"16/26"	""	"-:0.4345"	"-:0.4448"	"-:0.3761"	NA	"-:0.5744"	"-:0.336"	"-:0.4192"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTT"	"687d9902-280f-11e6-8904-1133424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4363"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	20927604	20927604	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs5840895"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5840895"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"688d97d0-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4364"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	23315966	23315967	"+"	"IGR"	"INS"	"-"	"-"	"AGC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	31	"."	4	12	"."	0	""	"AGC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"76a27f3e-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WXS"	FALSE
"4365"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	24133466	24133467	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs145931931"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	2	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145931931"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.3628"	"T:0.1717"	"T:0.3674"	NA	"T:0.4077"	"T:0.501"	"T:0.4294"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"76c41388-280f-11e6-8904-1133424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4366"	"NINL"	22981	"mskcc.org"	"GRCh37"	"20"	25443278	25443279	"+"	"Intron"	"INS"	"-"	"-"	"TTTGTTTTGT"	"rs113237945"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3424-111_3424-102dupACAAAACAAA"	""	""	"ENST00000278886"	""	42	"."	10	9	"."	0	"NINL,intron_variant,,ENST00000278886,NM_025176.4;NINL,intron_variant,,ENST00000422516,;NINL,intron_variant,,ENST00000336104,;NINL,non_coding_transcript_exon_variant,,ENST00000496509,;NINL,upstream_gene_variant,,ENST00000464285,;"	"TTTGTTTTGT"	"ENSG00000101004"	"ENST00000278886"	"Transcript"	"intron_variant"	"-/4969"	"-/4149"	"-/1382"	""	""	"rs113237945"	"1"	NA	-1	"NINL"	"HGNC"	29163	"protein_coding"	"YES"	"CCDS33452.1"	"ENSP00000278886"	"Q9Y2I6"	""	"UPI0000206B64"	"NM_025176.4"	NA	NA	""	"19/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"76e9003a-280f-11e6-8904-1133424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WXS"	FALSE
"4367"	"FAM182B"	548321	"mskcc.org"	"GRCh37"	"20"	25744458	25744459	"+"	"Intron"	"INS"	"-"	"-"	"ACAGGAGG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*76-126_*76-119dupCCTCCTGT"	""	""	"ENST00000376404"	""	7	"."	3	6	"."	0	"FAM182B,intron_variant,,ENST00000376404,;FAM182B,intron_variant,,ENST00000478164,;"	"ACAGGAGG"	"ENSG00000175170"	"ENST00000376404"	"Transcript"	"intron_variant"	"-/992"	"-/234"	"-/77"	""	""	""	"1"	NA	-1	"FAM182B"	"HGNC"	34503	"protein_coding"	""	""	"ENSP00000365586"	""	"F6T327"	"UPI000056D473"	""	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"76eccd5a-280f-11e6-8904-1133424a729f"	"83"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4368"	"FRG1B"	100134091	"mskcc.org"	"GRCh37"	"20"	29628884	29628885	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.333+562dupT"	""	""	"ENST00000278882"	""	15	"."	3	6	"."	0	"FRG1B,intron_variant,,ENST00000278882,;FRG1B,intron_variant,,ENST00000358464,;FRG1B,downstream_gene_variant,,ENST00000439954,;FRG1B,intron_variant,,ENST00000479318,;"	"T"	"ENSG00000149531"	"ENST00000278882"	"Transcript"	"intron_variant"	"-/1029"	"-/549"	"-/182"	""	""	""	"1"	NA	1	"FRG1B"	"HGNC"	15792	"protein_coding"	"YES"	""	"ENSP00000278882"	"Q9BZ01"	""	"UPI000012AC05"	""	NA	NA	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"76f32556-280f-11e6-8904-1133424a729f"	"97"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"4369"	"FRG1B"	100134091	"mskcc.org"	"GRCh37"	"20"	29628987	29628988	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs138771657"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.333+656_333+657insC"	""	""	"ENST00000278882"	""	28	"."	7	6	"."	0	"FRG1B,intron_variant,,ENST00000278882,;FRG1B,intron_variant,,ENST00000358464,;FRG1B,downstream_gene_variant,,ENST00000439954,;FRG1B,intron_variant,,ENST00000479318,;"	"C"	"ENSG00000149531"	"ENST00000278882"	"Transcript"	"intron_variant"	"-/1029"	"-/549"	"-/182"	""	""	"rs138771657"	"1"	NA	1	"FRG1B"	"HGNC"	15792	"protein_coding"	"YES"	""	"ENSP00000278882"	"Q9BZ01"	""	"UPI000012AC05"	""	NA	NA	""	"6/8"	""	"C:0.4437"	"C:0.4365"	"C:0.4308"	NA	"C:0.4385"	"C:0.4433"	"C:0.4683"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"76f47c80-280f-11e6-8904-1133424a729f"	"184"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4370"	"FRG1B"	100134091	"mskcc.org"	"GRCh37"	"20"	29634271	29634271	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"rs111240326"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000278882"	""	14	"."	3	15	"."	0	"FRG1B,downstream_gene_variant,,ENST00000278882,;FRG1B,downstream_gene_variant,,ENST00000358464,;AL441988.1,upstream_gene_variant,,ENST00000408392,;FRG1B,downstream_gene_variant,,ENST00000479318,;MLLT10P1,downstream_gene_variant,,ENST00000418346,;"	"-"	"ENSG00000149531"	"ENST00000278882"	"Transcript"	"downstream_gene_variant"	"-/1029"	"-/549"	"-/182"	""	""	"rs111240326"	"1"	"261"	1	"FRG1B"	"HGNC"	15792	"protein_coding"	"YES"	""	"ENSP00000278882"	"Q9BZ01"	""	"UPI000012AC05"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACT"	"698f025e-280f-11e6-8904-1133424a729f"	"52"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"4371"	"ITCH"	83737	"mskcc.org"	"GRCh37"	"20"	33092420	33092420	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs141954217"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2612+212delC"	""	""	"ENST00000262650"	""	28	"."	13	7	"."	0	"ITCH,intron_variant,,ENST00000374864,NM_001257137.1,NM_031483.5,NM_001257138.1;ITCH,intron_variant,,ENST00000262650,;ITCH,intron_variant,,ENST00000535650,;"	"-"	"ENSG00000078747"	"ENST00000262650"	"Transcript"	"intron_variant"	"-/3089"	"-/2712"	"-/903"	""	""	"rs141954217"	"1"	NA	1	"ITCH"	"HGNC"	13890	"protein_coding"	"YES"	"CCDS58768.1"	"ENSP00000262650"	"Q96J02"	""	"UPI00000731C2"	""	NA	NA	""	"25/25"	""	"-:0.4014"	"-:0.3661"	"-:0.3098"	NA	"-:0.4048"	"-:0.504"	"-:0.4049"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTCT"	"6ad25706-280f-11e6-8904-1133424a729f"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.464285714285714	"WXS"	FALSE
"4372"	"PHF20"	51230	"mskcc.org"	"GRCh37"	"20"	34504993	34504994	"+"	"Intron"	"DEL"	"AC"	"AC"	"-"	"rs141918875"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1826-412_1826-411delCA"	""	""	"ENST00000374012"	""	22	"."	7	6	"."	0	"PHF20,intron_variant,,ENST00000374012,;PHF20,intron_variant,,ENST00000439301,NM_016436.4;PHF20,downstream_gene_variant,,ENST00000339089,;PHF20,downstream_gene_variant,,ENST00000374000,;PHF20,upstream_gene_variant,,ENST00000420233,;PHF20,downstream_gene_variant,,ENST00000481202,;"	"-"	"ENSG00000025293"	"ENST00000374012"	"Transcript"	"intron_variant"	"-/5922"	"-/3039"	"-/1012"	""	""	"rs141918875"	"1"	NA	1	"PHF20"	"HGNC"	16098	"protein_coding"	"YES"	"CCDS13268.1"	"ENSP00000363124"	"Q9BVI0"	"Q5JXL1,Q5JWZ0,B3KUL4"	"UPI000006E61B"	""	NA	NA	""	"12/17"	""	"-:0.1058"	"-:0.0726"	"-:0.1167"	NA	"-:0.0853"	"-:0.1034"	"-:0.1667"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTACA"	"6bae98c4-280f-11e6-8904-1133424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318181818181818	"WXS"	FALSE
"4373"	"CNBD2"	140894	"mskcc.org"	"GRCh37"	"20"	34609862	34609862	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11167284"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1270-1674delT"	""	""	"ENST00000349339"	""	12	"."	5	1	"."	0	"CNBD2,intron_variant,,ENST00000373973,;CNBD2,intron_variant,,ENST00000349339,NM_080834.2;CNBD2,intron_variant,,ENST00000538900,NM_001207076.1;CNBD2,intron_variant,,ENST00000463258,;"	"-"	"ENSG00000149646"	"ENST00000349339"	"Transcript"	"intron_variant"	"-/1927"	"-/1719"	"-/572"	""	""	"rs11167284"	"1"	NA	1	"CNBD2"	"HGNC"	16145	"protein_coding"	"YES"	"CCDS13270.1"	"ENSP00000340954"	"Q96M20"	""	"UPI0000367038"	"NM_080834.2"	NA	NA	""	"10/11"	""	"-:0.3906"	"-:0.6838"	"-:0.2147"	NA	"-:0.3145"	"-:0.1889"	"-:0.4049"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTG"	"6bb52efa-280f-11e6-8904-1133424a729f"	"279"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"4374"	"RPN2"	6185	"mskcc.org"	"GRCh37"	"20"	35864496	35864497	"+"	"Intron"	"INS"	"-"	"-"	"TGTGGGTGTGTG"	"rs6147337"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1754-482_1754-471dupGGTGTGTGTGTG"	""	""	"ENST00000237530"	""	6	"."	4	1	"."	0	"RPN2,intron_variant,,ENST00000237530,NM_002951.3;RPN2,intron_variant,,ENST00000373622,NM_001135771.1;RPN2,intron_variant,,ENST00000437329,;RPN2,intron_variant,,ENST00000456400,;RPN2,intron_variant,,ENST00000470352,;"	"TGTGGGTGTGTG"	"ENSG00000118705"	"ENST00000237530"	"Transcript"	"intron_variant"	"-/2511"	"-/1896"	"-/631"	""	""	"rs6147337"	"1"	NA	1	"RPN2"	"HGNC"	10382	"protein_coding"	"YES"	"CCDS13291.1"	"ENSP00000237530"	"P04844"	""	"UPI0000000C52"	"NM_002951.3"	NA	NA	""	"15/16"	""	"-:0.3784"	"TGTGGGTGTGTG:0.674"	"TGTGGGTGTGTG:0.6354"	NA	"TGTGGGTGTGTG:0.4087"	"TGTGGGTGTGTG:0.7217"	"TGTGGGTGTGTG:0.6575"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"785e46be-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4375"	"RP11-101E14.3"	0	"mskcc.org"	"GRCh37"	"20"	38658301	38658302	"+"	"5'Flank"	"INS"	"-"	"-"	"AGGGAGGGAGGGAAGGAGGG"	"rs371289498"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000423153"	""	15	"."	3	10	"."	0	"RP11-101E14.3,upstream_gene_variant,,ENST00000423153,;"	"AGGGAGGGAGGGAAGGAGGG"	"ENSG00000233415"	"ENST00000423153"	"Transcript"	"upstream_gene_variant"	"-/640"	""	""	""	""	"rs371289498"	"1"	"1925"	1	"RP11-101E14.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"78b992da-280f-11e6-8904-1133424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"4376"	"ENSR00000401183"	0	"mskcc.org"	"GRCh37"	"20"	40024625	40024626	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs3092767"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000401183"	""	8	"."	4	1	"."	0	""	"G"	""	"ENSR00000401183"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs3092767"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"78ca7e56-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4377"	"EIF4EBP2P1"	0	"mskcc.org"	"GRCh37"	"20"	42047862	42047863	"+"	"3'Flank"	"INS"	"-"	"-"	"AA"	"rs144030120"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000450009"	""	17	"."	6	3	"."	0	"EIF4EBP2P1,downstream_gene_variant,,ENST00000450009,;"	"AA"	"ENSG00000233711"	"ENST00000450009"	"Transcript"	"downstream_gene_variant"	"-/343"	""	""	""	""	"rs144030120"	"1"	"3973"	-1	"EIF4EBP2P1"	"HGNC"	16596	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1142"	"AA:0.9788"	"AA:0.8963"	NA	"AA:0.874"	"AA:0.8479"	"AA:0.8037"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"78ddabde-280f-11e6-8904-1133424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WXS"	FALSE
"4378"	"TTPAL"	79183	"mskcc.org"	"GRCh37"	"20"	43117536	43117536	"+"	"Intron"	"DEL"	"T"	"-"	"-"	"rs3091563"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.751-367delT"	""	""	"ENST00000372904"	""	7	"."	5	3	"."	0	"TTPAL,intron_variant,,ENST00000372904,NM_024331.4;TTPAL,intron_variant,,ENST00000262605,NM_001039199.2,NM_001261839.1;TTPAL,intron_variant,,ENST00000372906,;TTPAL,intron_variant,,ENST00000456317,;TTPAL,intron_variant,,ENST00000461134,;"	"-"	"ENSG00000124120"	"ENST00000372904"	"Transcript"	"intron_variant"	"-/6234"	"-/1029"	"-/342"	""	""	"rs3091563"	"1"	NA	1	"TTPAL"	"HGNC"	16114	"protein_coding"	"YES"	"CCDS13332.2"	"ENSP00000361995"	"Q9BTX7"	"B2RA57"	"UPI000020657C"	"NM_024331.4"	NA	NA	""	"5/5"	""	"T:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATT"	"6d167cae-280f-11e6-8904-1133424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4379"	"PLTP"	5360	"mskcc.org"	"GRCh37"	"20"	44540827	44540828	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs3092415"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000477313"	""	8	"."	5	3	"."	0	"PLTP,upstream_gene_variant,,ENST00000477313,;PLTP,upstream_gene_variant,,ENST00000542937,;PLTP,upstream_gene_variant,,ENST00000372431,NM_006227.3;PLTP,upstream_gene_variant,,ENST00000354050,NM_182676.2;PLTP,upstream_gene_variant,,ENST00000372420,NM_001242921.1;PLTP,upstream_gene_variant,,ENST00000420868,NM_001242920.1;"	"G"	"ENSG00000100979"	"ENST00000477313"	"Transcript"	"upstream_gene_variant"	"-/2255"	"-/1482"	"-/493"	""	""	"rs3092415"	"1"	"141"	-1	"PLTP"	"HGNC"	9093	"protein_coding"	"YES"	"CCDS13386.1"	"ENSP00000417138"	"P55058"	""	"UPI0000131C7C"	""	NA	NA	""	""	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"795d5be0-280f-11e6-8904-1133424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4380"	"EYA2"	2139	"mskcc.org"	"GRCh37"	"20"	45630438	45630439	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs558619316"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.155+326_155+327insA"	""	""	"ENST00000327619"	""	13	"."	3	3	"."	0	"EYA2,intron_variant,,ENST00000327619,NM_005244.4;EYA2,intron_variant,,ENST00000357410,NM_172110.3;EYA2,intron_variant,,ENST00000317304,;EYA2,intron_variant,,ENST00000458636,;EYA2,intron_variant,,ENST00000497062,;GAPDHP54,downstream_gene_variant,,ENST00000432657,;"	"A"	"ENSG00000064655"	"ENST00000327619"	"Transcript"	"intron_variant"	"-/2702"	"-/1617"	"-/538"	""	""	"rs558619316"	"1"	NA	1	"EYA2"	"HGNC"	3520	"protein_coding"	"YES"	"CCDS13403.1"	"ENSP00000333640"	"O00167"	"O60647"	"UPI000012A3B4"	"NM_005244.4"	NA	NA	""	"3/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"799830bc-280f-11e6-8904-1133424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"4381"	"PREX1"	57580	"mskcc.org"	"GRCh37"	"20"	47277026	47277026	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs55850400"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1739-427delT"	""	""	"ENST00000371941"	""	11	"."	4	1	"."	0	"PREX1,intron_variant,,ENST00000396220,;PREX1,intron_variant,,ENST00000371941,NM_020820.3;PREX1,upstream_gene_variant,,ENST00000482556,;"	"-"	"ENSG00000124126"	"ENST00000371941"	"Transcript"	"intron_variant"	"-/6636"	"-/4980"	"-/1659"	""	""	"rs55850400"	"1"	NA	-1	"PREX1"	"HGNC"	32594	"protein_coding"	"YES"	"CCDS13410.1"	"ENSP00000361009"	"Q8TCU6"	""	"UPI000013D375"	"NM_020820.3"	NA	NA	""	"15/39"	""	"-:0.1514"	"-:0.0204"	"-:0.2133"	NA	"-:0.1538"	"-:0.1849"	"-:0.2474"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"6e609db0-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4382"	"PREX1"	57580	"mskcc.org"	"GRCh37"	"20"	47298216	47298217	"+"	"Intron"	"INS"	"-"	"-"	"GATGGATG"	"rs376886223"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1335-351_1335-344dupCATCCATC"	""	""	"ENST00000371941"	""	18	"."	3	12	"."	0	"PREX1,intron_variant,,ENST00000396220,;PREX1,intron_variant,,ENST00000371941,NM_020820.3;"	"GATGGATG"	"ENSG00000124126"	"ENST00000371941"	"Transcript"	"intron_variant"	"-/6636"	"-/4980"	"-/1659"	""	""	"rs376886223"	"1"	NA	-1	"PREX1"	"HGNC"	32594	"protein_coding"	"YES"	"CCDS13410.1"	"ENSP00000361009"	"Q8TCU6"	""	"UPI000013D375"	"NM_020820.3"	NA	NA	""	"10/39"	""	"GATG:0.0078"	"GATGGATGGATGGATG:0.1838"	"GATGGATGGATGGATG:0.1441"	NA	"GATGGATGGATGGATG:0.1329"	"GATGGATGGATGGATG:0.0974"	"GATGGATGGATGGATG:0.1748"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"79ea342a-280f-11e6-8904-1133424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"4383"	"ARFGEF2"	10564	"mskcc.org"	"GRCh37"	"20"	47633109	47633110	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs11481871"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4315+165dupC"	""	""	"ENST00000371917"	""	23	"."	11	4	"."	0	"ARFGEF2,intron_variant,,ENST00000371917,NM_006420.2;"	"C"	"ENSG00000124198"	"ENST00000371917"	"Transcript"	"intron_variant"	"-/8852"	"-/5358"	"-/1785"	""	""	"rs11481871"	"1"	NA	1	"ARFGEF2"	"HGNC"	15853	"protein_coding"	"YES"	"CCDS13411.1"	"ENSP00000360985"	"Q9Y6D5"	"Q59FR3"	"UPI000013D378"	"NM_006420.2"	NA	NA	""	"31/38"	""	"C:0.0753"	"C:0.0053"	"C:0.0821"	NA	"C:0.0883"	"C:0.1461"	"C:0.0787"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"7a06fccc-280f-11e6-8904-1133424a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.478260869565217	"WXS"	FALSE
"4384"	"KCNB1"	3745	"mskcc.org"	"GRCh37"	"20"	48033885	48033885	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11351217"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.568-42356delA"	""	""	"ENST00000371741"	""	7	"."	4	2	"."	0	"KCNB1,intron_variant,,ENST00000371741,NM_004975.2;"	"-"	"ENSG00000158445"	"ENST00000371741"	"Transcript"	"intron_variant"	"-/11850"	"-/2577"	"-/858"	""	""	"rs11351217"	"1"	NA	-1	"KCNB1"	"HGNC"	6231	"protein_coding"	"YES"	"CCDS13418.1"	"ENSP00000360806"	"Q14721"	""	"UPI000012DC80"	"NM_004975.2"	NA	NA	""	"1/1"	""	"-:0.4916"	"-:0.6899"	"-:0.5043"	NA	"-:0.4534"	"-:0.3569"	"-:0.3926"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTA"	"6ee20b8e-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4385"	"SLC9A8"	23315	"mskcc.org"	"GRCh37"	"20"	48500760	48500761	"+"	"Intron"	"INS"	"-"	"-"	"ACACACACACGCGACACACACACACACG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1539+167_1539+168insGCGACACACACACACACGACACACACAC"	""	""	"ENST00000417961"	""	34	"."	3	14	"."	0	"SLC9A8,intron_variant,,ENST00000417961,NM_015266.2,NM_001260491.1;SLC9A8,intron_variant,,ENST00000361573,;SLC9A8,intron_variant,,ENST00000539601,;SLC9A8,intron_variant,,ENST00000541138,;SLC9A8,upstream_gene_variant,,ENST00000490250,;"	"ACACACACACGCGACACACACACACACG"	"ENSG00000197818"	"ENST00000417961"	"Transcript"	"intron_variant"	"-/6303"	"-/1794"	"-/597"	""	""	""	"1"	NA	1	"SLC9A8"	"HGNC"	20728	"protein_coding"	"YES"	"CCDS58774.1"	"ENSP00000416418"	"Q9Y2E8"	"B7Z3B1,B4DIV9"	"UPI00017A7E08"	"NM_015266.2,NM_001260491.1"	NA	NA	""	"14/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7a2d3e78-280f-11e6-8904-1133424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WXS"	FALSE
"4386"	"TRERNA1"	100887755	"mskcc.org"	"GRCh37"	"20"	48654215	48654216	"+"	"3'Flank"	"INS"	"-"	"CAG"	"CAG"	"rs73625003"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000431460"	""	6	"."	5	2	"."	0	"TRERNA1,downstream_gene_variant,,ENST00000431460,;"	"CAG"	"ENSG00000231265"	"ENST00000431460"	"Transcript"	"downstream_gene_variant"	"-/462"	""	""	""	""	"rs73625003"	"1"	"3037"	-1	"TRERNA1"	"HGNC"	44307	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4752"	"CAG:0.4508"	"CAG:0.4611"	NA	"CAG:0.6081"	"CAG:0.4145"	"CAG:0.6973"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"7a390014-280f-11e6-8904-1133424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4387"	"CEBPB"	1051	"mskcc.org"	"GRCh37"	"20"	48803500	48803501	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs11482047"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000303004"	""	11	"."	4	2	"."	0	"CEBPB,upstream_gene_variant,,ENST00000303004,NM_005194.3,NM_001285879.1,NM_001285878.1;"	"C"	"ENSG00000172216"	"ENST00000303004"	"Transcript"	"upstream_gene_variant"	"-/1837"	"-/1038"	"-/345"	""	""	"rs11482047"	"1"	"3875"	1	"CEBPB"	"HGNC"	1834	"protein_coding"	"YES"	"CCDS13429.1"	"ENSP00000305422"	"P17676"	"Q9BSC0"	"UPI000000D8BA"	"NM_005194.3,NM_001285879.1,NM_001285878.1"	NA	NA	""	""	""	"C:0.3942"	"C:0.3343"	"C:0.3876"	NA	"C:0.4683"	"C:0.4006"	"C:0.3967"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"7a3b9824-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4388"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	49032456	49032459	"+"	"IGR"	"DEL"	"GAGA"	"GAGA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GAGA"	"GAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	6	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGAGAG"	"6f0b55de-280f-11e6-8904-1133424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4389"	"RP4-715N11.2"	0	"mskcc.org"	"GRCh37"	"20"	51306714	51306715	"+"	"Intron"	"INS"	"-"	"-"	"TTCTTCTTCTTCTTCT"	"rs769131047"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.480-346_480-345insTCTTCTTCTTCTTCTT"	""	""	"ENST00000448013"	""	40	"."	4	11	"."	0	"RP4-715N11.2,intron_variant,,ENST00000448013,;RP4-715N11.2,intron_variant,,ENST00000421642,;RP4-715N11.2,intron_variant,,ENST00000422666,;RP4-715N11.2,intron_variant,,ENST00000425279,;RP4-715N11.2,intron_variant,,ENST00000437987,;"	"TTCTTCTTCTTCTTCT"	"ENSG00000232294"	"ENST00000448013"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/538"	""	""	""	""	"rs769131047"	"1"	NA	1	"RP4-715N11.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7aa14228-280f-11e6-8904-1133424a729f"	"181"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WXS"	FALSE
"4390"	"TSHZ2"	128553	"mskcc.org"	"GRCh37"	"20"	51939949	51939950	"+"	"Intron"	"INS"	"-"	"-"	"ATGAATGAATGAATGAATGA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*8+66840_*8+66859dupATGAATGAATGAATGAATGA"	""	""	"ENST00000371497"	""	8	"."	4	2	"."	0	"TSHZ2,intron_variant,,ENST00000371497,NM_173485.5,NM_001193421.1;TSHZ2,intron_variant,,ENST00000603338,;RP4-678D15.1,intron_variant,,ENST00000606932,;TSHZ2,intron_variant,,ENST00000605656,;"	"ATGAATGAATGAATGAATGA"	"ENSG00000182463"	"ENST00000371497"	"Transcript"	"intron_variant"	"-/12187"	"-/3105"	"-/1034"	""	""	""	"1"	NA	1	"TSHZ2"	"HGNC"	13010	"protein_coding"	"YES"	"CCDS33490.1"	"ENSP00000360552"	"Q9NRE2"	"S4R3C8"	"UPI0000206747"	"NM_173485.5,NM_001193421.1"	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7aa3c098-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4391"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	52509262	52509262	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs59254204"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs59254204"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCC"	"6faf6b6a-280f-11e6-8904-1133424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4392"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	55431881	55431881	"+"	"IGR"	"DEL"	"T"	"-"	"-"	"rs10714450"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10714450"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.0641"	"-:0.8487"	"-:0.9712"	NA	"-:0.9891"	"-:0.9642"	"-:0.9448"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"6fe6afc6-280f-11e6-8904-1133424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4393"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	56412342	56412346	"+"	"IGR"	"DEL"	"GATTA"	"-"	"-"	"rs143729289"	NA	"JHCCPT5"	"JHCCPN5"	"GATTA"	"GATTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	6	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143729289"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2921"	"-:0.4039"	"-:0.2954"	NA	"-:0.1766"	"-:0.2575"	"-:0.2935"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGATTAG"	"705467e6-280f-11e6-8904-1133424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"4394"	"GNAS-AS1"	149775	"mskcc.org"	"GRCh37"	"20"	57420090	57420091	"+"	"Intron"	"INS"	"-"	"-"	"GT"	"rs3842443"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.414-2492_414-2491dupAC"	""	""	"ENST00000424094"	""	6	"."	3	2	"."	0	"GNAS,intron_variant,,ENST00000313949,;GNAS,intron_variant,,ENST00000371075,NM_016592.2;GNAS,intron_variant,,ENST00000371098,;GNAS,intron_variant,,ENST00000419558,;GNAS,intron_variant,,ENST00000453292,;GNAS-AS1,intron_variant,,ENST00000424094,;GNAS-AS1,intron_variant,,ENST00000598163,;GNAS-AS1,upstream_gene_variant,,ENST00000443966,;GNAS,intron_variant,,ENST00000491348,;GNAS,intron_variant,,ENST00000472183,;GNAS,intron_variant,,ENST00000493744,;GNAS,intron_variant,,ENST00000482112,;GNAS,intron_variant,,ENST00000490374,;GNAS,intron_variant,,ENST00000467227,;GNAS,intron_variant,,ENST00000462499,;"	"GT"	"ENSG00000235590"	"ENST00000424094"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1156"	""	""	""	""	"rs3842443"	"1"	NA	-1	"GNAS-AS1"	"HGNC"	24872	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	"-:0.4585"	"GT:0.2761"	"GT:0.5677"	NA	"GT:0.7887"	"GT:0.5865"	"GT:0.5808"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7b82a876-280f-11e6-8904-1133424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4395"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	57549105	57549110	"+"	"IGR"	"DEL"	"GAAGAG"	"GAAGAG"	"-"	"rs147458125"	NA	"JHCCPT5"	"JHCCPN5"	"GAAGAG"	"GAAGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	5	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147458125"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGAAGAGG"	"70bb3f70-280f-11e6-8904-1133424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"4396"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	58026217	58026218	"+"	"IGR"	"INS"	"-"	"-"	"TGC"	"rs146144047"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"TGC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs146144047"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TGC:0.0569"	"TGC:0.0862"	"TGC:0.0346"	NA	"TGC:0.0129"	"TGC:0.0268"	"TGC:0.1094"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7b8f3dca-280f-11e6-8904-1133424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4397"	"RP5-1043L13.1"	729296	"mskcc.org"	"GRCh37"	"20"	58831370	58831371	"+"	"Intron"	"INS"	"-"	"-"	"ATG"	"rs73625063"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.333-62604_333-62602dupTGA"	""	""	"ENST00000432910"	""	6	"."	4	2	"."	0	"RP5-1043L13.1,intron_variant,,ENST00000432910,;RP5-1043L13.1,intron_variant,,ENST00000421257,;RP5-1043L13.1,intron_variant,,ENST00000437035,;RP5-1043L13.1,intron_variant,,ENST00000458422,;"	"ATG"	"ENSG00000228340"	"ENST00000432910"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2043"	""	""	""	""	"rs73625063"	"1"	NA	1	"RP5-1043L13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/4"	""	"ATG:0.4008"	"ATG:0.7958"	"ATG:0.3156"	NA	"ATG:0.2133"	"ATG:0.2286"	"ATG:0.2975"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"7ba9d766-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4398"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	59466326	59466327	"+"	"IGR"	"INS"	"-"	"-"	"TT"	"rs60958232"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	3	"."	0	""	"TT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs60958232"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4433"	"TT:0.6293"	"TT:0.5389"	NA	"TT:0.7232"	"TT:0.3807"	"TT:0.4806"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7bb6d6aa-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4399"	"RP5-827L5.1"	100506470	"mskcc.org"	"GRCh37"	"20"	59658263	59658264	"+"	"3'Flank"	"INS"	"-"	"-"	"C"	"rs200169066"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000441660"	""	6	"."	3	4	"."	0	"RP5-827L5.1,downstream_gene_variant,,ENST00000441660,;"	"C"	"ENSG00000229606"	"ENST00000441660"	"Transcript"	"downstream_gene_variant"	"-/391"	""	""	""	""	"rs200169066"	"1"	"3028"	1	"RP5-827L5.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7bba58c0-280f-11e6-8904-1133424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4400"	"CDH4"	1002	"mskcc.org"	"GRCh37"	"20"	60308125	60308132	"+"	"Intron"	"DEL"	"ATGGACAG"	"ATGGACAG"	"-"	"rs33913704"	NA	"JHCCPT5"	"JHCCPN5"	"ATGGACAG"	"ATGGACAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.170-10486_170-10479delATGGACAG"	""	""	"ENST00000360469"	""	9	"."	4	7	"."	0	"CDH4,intron_variant,,ENST00000360469,NM_001794.3;CDH4,intron_variant,,ENST00000543233,NM_001252339.1,NM_001252338.1;"	"-"	"ENSG00000179242"	"ENST00000360469"	"Transcript"	"intron_variant"	"-/6511"	"-/2751"	"-/916"	""	""	"rs33913704"	"1"	NA	1	"CDH4"	"HGNC"	1763	"protein_coding"	"YES"	"CCDS13488.1"	"ENSP00000353656"	"P55283"	"Q8ND09"	"UPI000015FE86"	"NM_001794.3"	NA	NA	""	"2/15"	""	"ATGGACAG:0.2532"	"-:0.9198"	"-:0.6455"	NA	"-:0.7907"	"-:0.6501"	"-:0.6391"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCATGGACAGA"	"714ef472-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4401"	"CDH4"	1002	"mskcc.org"	"GRCh37"	"20"	60413194	60413201	"+"	"Intron"	"DEL"	"CTGCCTGT"	"-"	"-"	"rs150292372"	NA	"JHCCPT5"	"JHCCPN5"	"CTGCCTGT"	"CTGCCTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.577-6504_577-6497delGCCTGTCT"	""	""	"ENST00000360469"	""	6	"."	5	1	"."	0	"CDH4,intron_variant,,ENST00000360469,NM_001794.3;CDH4,intron_variant,,ENST00000543233,NM_001252339.1,NM_001252338.1;"	"-"	"ENSG00000179242"	"ENST00000360469"	"Transcript"	"intron_variant"	"-/6511"	"-/2751"	"-/916"	""	""	"rs150292372"	"1"	NA	1	"CDH4"	"HGNC"	1763	"protein_coding"	"YES"	"CCDS13488.1"	"ENSP00000353656"	"P55283"	"Q8ND09"	"UPI000015FE86"	"NM_001794.3"	NA	NA	""	"4/15"	""	"-:0.3293"	"-:0.1657"	"-:0.415"	NA	"-:0.2321"	"-:0.5885"	"-:0.3231"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"26"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACCTGCCTGTC"	"71542faa-280f-11e6-8904-1133424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4402"	"LAMA5"	3911	"mskcc.org"	"GRCh37"	"20"	60903684	60903686	"+"	"Intron"	"DEL"	"CAT"	"CAT"	"-"	"rs71884793"	NA	"JHCCPT5"	"JHCCPN5"	"CAT"	"CAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4448-185_4448-183delATG"	""	""	"ENST00000252999"	""	11	"."	4	9	"."	0	"LAMA5,intron_variant,,ENST00000252999,NM_005560.4;MIR4758,downstream_gene_variant,,ENST00000577688,;LAMA5,upstream_gene_variant,,ENST00000497363,;LAMA5,upstream_gene_variant,,ENST00000464134,;"	"-"	"ENSG00000130702"	"ENST00000252999"	"Transcript"	"intron_variant"	"-/11426"	"-/11088"	"-/3695"	""	""	"rs71884793"	"1"	NA	-1	"LAMA5"	"HGNC"	6485	"protein_coding"	"YES"	"CCDS33502.1"	"ENSP00000252999"	"O15230"	"O75079"	"UPI0000161FDC"	"NM_005560.4"	NA	NA	""	"34/79"	""	"-:0.1847"	"-:0.2458"	"-:0.1542"	NA	"-:0.1062"	"-:0.2306"	"-:0.1575"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACATC"	"71b29d4c-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4403"	"NTSR1"	4923	"mskcc.org"	"GRCh37"	"20"	61393810	61393810	"+"	"3'UTR"	"DEL"	"T"	"-"	"-"	"rs3833339"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*2194delT"	""	""	"ENST00000370501"	"4/4"	6	"."	5	2	"."	0	"NTSR1,3_prime_UTR_variant,,ENST00000370501,NM_002531.2;NTSR1,non_coding_transcript_exon_variant,,ENST00000482259,;"	"-"	"ENSG00000101188"	"ENST00000370501"	"Transcript"	"3_prime_UTR_variant"	"3819/4132"	"-/1257"	"-/418"	""	""	"rs3833339"	"1"	NA	1	"NTSR1"	"HGNC"	8039	"protein_coding"	"YES"	"CCDS13502.1"	"ENSP00000359532"	"P30989"	""	"UPI000013D6CF"	"NM_002531.2"	NA	NA	"4/4"	""	""	"T:0.3840"	"-:0.1135"	"-:0.7824"	NA	"-:0.7024"	"-:0.8499"	"-:0.8476"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTT"	"72006bbc-280f-11e6-8904-1133424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4404"	"COL20A1"	57642	"mskcc.org"	"GRCh37"	"20"	61965097	61965098	"+"	"3'Flank"	"DEL"	"AG"	"AG"	"-"	"rs10580857"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000358894"	""	8	"."	4	6	"."	0	"COL20A1,3_prime_UTR_variant,,ENST00000422202,;COL20A1,downstream_gene_variant,,ENST00000326996,;COL20A1,downstream_gene_variant,,ENST00000435874,;COL20A1,downstream_gene_variant,,ENST00000358894,NM_020882.2;RNU6-994P,upstream_gene_variant,,ENST00000410507,;COL20A1,downstream_gene_variant,,ENST00000496810,;COL20A1,downstream_gene_variant,,ENST00000479501,;COL20A1,downstream_gene_variant,,ENST00000471582,;COL20A1,downstream_gene_variant,,ENST00000494913,;"	"-"	"ENSG00000101203"	"ENST00000358894"	"Transcript"	"downstream_gene_variant"	"-/4172"	"-/3855"	"-/1284"	""	""	"rs10580857"	"1"	"2812"	1	"COL20A1"	"HGNC"	14670	"protein_coding"	"YES"	"CCDS46628.1"	"ENSP00000351767"	"Q9P218"	""	"UPI000051910D"	"NM_020882.2"	NA	NA	""	""	""	"AG:0.1637"	"-:0.5673"	"-:0.938"	NA	"-:0.9871"	"-:0.9463"	"-:0.8589"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGA"	"72a36830-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4405"	"CHRNA4"	1137	"mskcc.org"	"GRCh37"	"20"	61982523	61982556	"+"	"Intron"	"DEL"	"ACGCCCACATCCATGTCCCACGCCCACATCCACA"	"ACGCCCACATCCATGTCCCACGCCCACATCCACA"	"CACGCCCACATCCACACCCATG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"ACGCCCACATCCATGTCCCACGCCCACATCCACA"	"ACGCCCACATCCATGTCCCACGCCCACATCCACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.384-177_384-144delTGTGGATGTGGGCGTGGGACATGGATGTGGGCGTinsCATGGGTGTGGATGTGGGCGTG"	""	""	"ENST00000370263"	""	13	"."	3	9	"."	0	"CHRNA4,intron_variant,,ENST00000370263,NM_000744.6,NM_001256573.1;CHRNA4,intron_variant,,ENST00000463705,;CHRNA4,intron_variant,,ENST00000467563,;CHRNA4,intron_variant,,ENST00000498043,;"	"CACGCCCACATCCACACCCATG"	"ENSG00000101204"	"ENST00000370263"	"Transcript"	"intron_variant"	"-/4776"	"-/1884"	"-/627"	""	""	""	"1"	NA	-1	"CHRNA4"	"HGNC"	1958	"protein_coding"	"YES"	"CCDS13517.1"	"ENSP00000359285"	"P43681"	"Q5EIV0,Q5EIU9,Q4VAQ3"	"UPI000012523B"	"NM_000744.6,NM_001256573.1"	NA	NA	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCACGCCCACATCCATGTCCCACGCCCACATCCACAC"	"737bbad2-280f-11e6-8904-1133424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"4406"	"KCNQ2"	3785	"mskcc.org"	"GRCh37"	"20"	62067247	62067248	"+"	"Intron"	"INS"	"-"	"GAT"	"GAT"	"rs141860509"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1024-1992_1024-1991insATC"	""	""	"ENST00000359125"	""	6	"."	5	2	"."	0	"KCNQ2,intron_variant,,ENST00000354587,;KCNQ2,intron_variant,,ENST00000359689,;KCNQ2,intron_variant,,ENST00000359125,NM_172107.2;KCNQ2,intron_variant,,ENST00000357249,NM_172106.1,NM_172108.3;KCNQ2,intron_variant,,ENST00000370224,;KCNQ2,intron_variant,,ENST00000360480,NM_004518.4;KCNQ2,intron_variant,,ENST00000344462,;KCNQ2,intron_variant,,ENST00000344425,NM_172109.1;KCNQ2,upstream_gene_variant,,ENST00000482957,;KCNQ2,intron_variant,,ENST00000370221,;"	"GAT"	"ENSG00000075043"	"ENST00000359125"	"Transcript"	"intron_variant"	"-/3249"	"-/2619"	"-/872"	""	""	"rs141860509"	"1"	NA	-1	"KCNQ2"	"HGNC"	6296	"protein_coding"	"YES"	"CCDS13520.1"	"ENSP00000352035"	"O43526"	""	"UPI00001279ED"	"NM_172107.2"	NA	NA	""	"7/16"	""	"-:0.0493"	"GAT:0.9281"	"GAT:0.9207"	NA	"GAT:0.998"	"GAT:0.9095"	"GAT:0.9959"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"7cb5b684-280f-11e6-8904-1133424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4407"	"KCNQ2"	3785	"mskcc.org"	"GRCh37"	"20"	62076981	62076982	"+"	"Intron"	"INS"	"-"	"-"	"TCTATCCGGGCTAGGGGACCCTGTCTGAGCTGTGGGGGGTGGCCCTGTCTGAGCTGGGGGA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.388-265_388-264insTCCCCCAGCTCAGACAGGGCCACCCCCCACAGCTCAGACAGGGTCCCCTAGCCCGGATAGA"	""	""	"ENST00000359125"	""	23	"."	3	10	"."	0	"KCNQ2,intron_variant,,ENST00000354587,;KCNQ2,intron_variant,,ENST00000359689,;KCNQ2,intron_variant,,ENST00000359125,NM_172107.2;KCNQ2,intron_variant,,ENST00000357249,NM_172106.1,NM_172108.3;KCNQ2,intron_variant,,ENST00000370224,;KCNQ2,intron_variant,,ENST00000360480,NM_004518.4;KCNQ2,intron_variant,,ENST00000344462,;KCNQ2,intron_variant,,ENST00000344425,NM_172109.1;RP11-358D14.2,upstream_gene_variant,,ENST00000436263,;KCNQ2,intron_variant,,ENST00000370221,;"	"TCTATCCGGGCTAGGGGACCCTGTCTGAGCTGTGGGGGGTGGCCCTGTCTGAGCTGGGGGA"	"ENSG00000075043"	"ENST00000359125"	"Transcript"	"intron_variant"	"-/3249"	"-/2619"	"-/872"	""	""	""	"1"	NA	-1	"KCNQ2"	"HGNC"	6296	"protein_coding"	"YES"	"CCDS13520.1"	"ENSP00000352035"	"O43526"	""	"UPI00001279ED"	"NM_172107.2"	NA	NA	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"7cc25ef2-280f-11e6-8904-1133424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"4408"	"TPD52L2"	7165	"mskcc.org"	"GRCh37"	"20"	62515185	62515186	"+"	"Intron"	"INS"	"-"	"-"	"CCTGCCTGCCTC"	"rs544242072"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.476+1024_476+1035dupCCCTGCCTGCCT"	""	""	"ENST00000217121"	""	9	"."	4	2	"."	0	"TPD52L2,intron_variant,,ENST00000217121,NM_199360.2;TPD52L2,intron_variant,,ENST00000352482,NM_199362.2;TPD52L2,intron_variant,,ENST00000351424,NM_199361.2;TPD52L2,intron_variant,,ENST00000346249,NM_001243891.1,NM_003288.3;TPD52L2,intron_variant,,ENST00000358548,NM_199363.2;TPD52L2,intron_variant,,ENST00000348257,NM_199359.2;TPD52L2,intron_variant,,ENST00000369927,NM_001243892.1;TPD52L2,upstream_gene_variant,,ENST00000474176,;"	"CCTGCCTGCCTC"	"ENSG00000101150"	"ENST00000217121"	"Transcript"	"intron_variant"	"-/2362"	"-/690"	"-/229"	""	""	"rs544242072"	"1"	NA	1	"TPD52L2"	"HGNC"	12007	"protein_coding"	"YES"	"CCDS13542.1"	"ENSP00000217121"	"O43399"	""	"UPI000023360A"	"NM_199360.2"	NA	NA	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"23"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"7cec87ae-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4409"	"ZNF512B"	57473	"mskcc.org"	"GRCh37"	"20"	62602264	62602294	"+"	"Intron"	"DEL"	"CCTCCCTTCTTCCTTCCTTTCCTTCCTTCTT"	"CCTCCCTTCTTCCTTCCTTTCCTTCCTTCTT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CCTCCCTTCTTCCTTCCTTTCCTTCCTTCTT"	"CCTCCCTTCTTCCTTCCTTTCCTTCCTTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-5-2986_-5-2956delAAGAAGGAAGGAAAGGAAGGAAGAAGGGAGG"	""	""	"ENST00000450537"	""	15	"."	3	15	"."	0	"ZNF512B,intron_variant,,ENST00000450537,;ZNF512B,intron_variant,,ENST00000217130,;ZNF512B,upstream_gene_variant,,ENST00000369888,NM_020713.2;SAMD10,downstream_gene_variant,,ENST00000369886,NM_080621.4;SAMD10,downstream_gene_variant,,ENST00000498830,;SAMD10,downstream_gene_variant,,ENST00000478694,;"	"-"	"ENSG00000196700"	"ENST00000450537"	"Transcript"	"intron_variant"	"-/5926"	"-/2679"	"-/892"	""	""	""	"1"	NA	-1	"ZNF512B"	"HGNC"	29212	"protein_coding"	"YES"	"CCDS13548.1"	"ENSP00000393795"	"Q96KM6"	""	"UPI000013A290"	""	NA	NA	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCCTCCCTTCTTCCTTCCTTTCCTTCCTTCTTC"	"732ab40c-280f-11e6-8904-1133424a729f"	"167"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"4410"	"TCEA2"	6919	"mskcc.org"	"GRCh37"	"20"	62696660	62696660	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs11477195"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.73-1169delT"	""	""	"ENST00000343484"	""	6	"."	4	2	"."	0	"TCEA2,intron_variant,,ENST00000395053,;TCEA2,intron_variant,,ENST00000361317,NM_198723.1;TCEA2,intron_variant,,ENST00000343484,NM_003195.4;TCEA2,intron_variant,,ENST00000440819,;TCEA2,intron_variant,,ENST00000339217,;TCEA2,intron_variant,,ENST00000415602,;TCEA2,upstream_gene_variant,,ENST00000458442,;TCEA2,intron_variant,,ENST00000487164,;TCEA2,intron_variant,,ENST00000470559,;TCEA2,upstream_gene_variant,,ENST00000465111,;TCEA2,upstream_gene_variant,,ENST00000461072,;TCEA2,upstream_gene_variant,,ENST00000495168,;TCEA2,downstream_gene_variant,,ENST00000475792,;TCEA2,upstream_gene_variant,,ENST00000465433,;TCEA2,upstream_gene_variant,,ENST00000477783,;TCEA2,downstream_gene_variant,,ENST00000476113,;"	"-"	"ENSG00000171703"	"ENST00000343484"	"Transcript"	"intron_variant"	"-/1235"	"-/900"	"-/299"	""	""	"rs11477195"	"1"	NA	1	"TCEA2"	"HGNC"	11614	"protein_coding"	"YES"	"CCDS13553.1"	"ENSP00000343515"	"Q15560"	"Q6IB64,Q5JRI8,Q5JRI7"	"UPI0000136AC0"	"NM_003195.4"	NA	NA	""	"1/9"	""	"T:0.1354"	"-:0.621"	"-:0.9323"	NA	"-:1"	"-:0.9115"	"-:0.9581"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTA"	"732f22bc-280f-11e6-8904-1133424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4411"	"TCEA2"	6919	"mskcc.org"	"GRCh37"	"20"	62696882	62696885	"+"	"Intron"	"DEL"	"GGGA"	"GGGA"	"-"	"rs71333732"	NA	"JHCCPT5"	"JHCCPN5"	"GGGA"	"GGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.73-926_73-923delGGAG"	""	""	"ENST00000343484"	""	12	"."	3	1	"."	0	"TCEA2,intron_variant,,ENST00000395053,;TCEA2,intron_variant,,ENST00000361317,NM_198723.1;TCEA2,intron_variant,,ENST00000343484,NM_003195.4;TCEA2,intron_variant,,ENST00000440819,;TCEA2,intron_variant,,ENST00000339217,;TCEA2,intron_variant,,ENST00000415602,;TCEA2,upstream_gene_variant,,ENST00000458442,;TCEA2,intron_variant,,ENST00000487164,;TCEA2,intron_variant,,ENST00000470559,;TCEA2,upstream_gene_variant,,ENST00000465111,;TCEA2,upstream_gene_variant,,ENST00000461072,;TCEA2,upstream_gene_variant,,ENST00000475236,;TCEA2,upstream_gene_variant,,ENST00000495168,;TCEA2,downstream_gene_variant,,ENST00000475792,;TCEA2,upstream_gene_variant,,ENST00000465433,;TCEA2,upstream_gene_variant,,ENST00000477783,;TCEA2,downstream_gene_variant,,ENST00000476113,;"	"-"	"ENSG00000171703"	"ENST00000343484"	"Transcript"	"intron_variant"	"-/1235"	"-/900"	"-/299"	""	""	"rs71333732"	"1"	NA	1	"TCEA2"	"HGNC"	11614	"protein_coding"	"YES"	"CCDS13553.1"	"ENSP00000343515"	"Q15560"	"Q6IB64,Q5JRI8,Q5JRI7"	"UPI0000136AC0"	"NM_003195.4"	NA	NA	""	"1/9"	""	"GGGA:0.0333"	"-:0.8797"	"-:0.9928"	NA	"-:1"	"-:0.999"	"-:0.998"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"21"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGGGAG"	"7330c7f2-280f-11e6-8904-1133424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4412"	"OPRL1"	4987	"mskcc.org"	"GRCh37"	"20"	62723168	62723169	"+"	"Intron"	"INS"	"-"	"-"	"TGTT"	"rs147864657"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-184-148_-184-147insTTGT"	""	""	"ENST00000349451"	""	9	"."	5	2	"."	0	"OPRL1,intron_variant,,ENST00000349451,NM_001200019.1;OPRL1,intron_variant,,ENST00000336866,NM_182647.2;OPRL1,intron_variant,,ENST00000355631,NM_000913.4;"	"TGTT"	"ENSG00000125510"	"ENST00000349451"	"Transcript"	"intron_variant"	"-/3369"	"-/1113"	"-/370"	""	""	"rs147864657"	"1"	NA	1	"OPRL1"	"HGNC"	8155	"protein_coding"	"YES"	"CCDS13556.1"	"ENSP00000336764"	"P41146"	""	"UPI0000001C6D"	"NM_001200019.1"	NA	NA	""	"2/5"	""	"-:0.0545"	"TGTT:0.8979"	"TGTT:0.9669"	NA	"TGTT:0.998"	"TGTT:0.9264"	"TGTT:0.9601"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7cf3291a-280f-11e6-8904-1133424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"4413"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	9834741	9834742	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs370695063"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	3	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs370695063"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4401"	"G:0.4849"	"G:0.5504"	NA	"G:0.6597"	"G:0.5656"	"G:0.5593"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"74dfdbd8-280f-11e6-ac05-1333424a729f"	"194"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4414"	"ENSR00001726114"	0	"mskcc.org"	"GRCh37"	"21"	9857293	9857293	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs71251986"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001726114"	""	13	"."	5	3	"."	0	""	"-"	""	"ENSR00001726114"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs71251986"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4920"	"-:0.3593"	"-:0.5159"	NA	"-:0.5893"	"-:0.5109"	"-:0.5348"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTG"	"68c23e22-280f-11e6-ac05-1333424a729f"	"176"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"4415"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	10085211	10085212	"+"	"IGR"	"INS"	"-"	"-"	"GGAAT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	58	"."	3	19	"."	0	""	"GGAAT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"74e875a4-280f-11e6-ac05-1333424a729f"	"146"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0517241379310345	"WXS"	FALSE
"4416"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	10598275	10598276	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs762586981"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	6	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs762586981"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"74eceada-280f-11e6-ac05-1333424a729f"	"166"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4417"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	10778256	10778257	"+"	"IGR"	"INS"	"-"	"-"	"ATGGAATGGA"	"rs369793344"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	5	1	"."	0	""	"ATGGAATGGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs369793344"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4613"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"74f4a248-280f-11e6-ac05-1333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"4418"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	10793689	10793690	"+"	"IGR"	"INS"	"-"	"-"	"TGGTATGGAATGGAATGGAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	45	"."	5	10	"."	0	""	"TGGTATGGAATGGAATGGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"7504d5b4-280f-11e6-ac05-1333424a729f"	"248"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WXS"	FALSE
"4419"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	10820630	10820630	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs747346361"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	29	"."	5	9	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs747346361"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"68f01ff4-280f-11e6-ac05-1333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WXS"	FALSE
"4420"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	10828742	10828743	"+"	"IGR"	"INS"	"-"	"-"	"GAATGGACTGGAATGGAATGGAATGCAACCGAAAG"	"rs766646854"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	4	2	"."	0	""	"GAATGGACTGGAATGGAATGGAATGCAACCGAAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs766646854"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"7538eb4c-280f-11e6-ac05-1333424a729f"	"187"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"4421"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	10836592	10836596	"+"	"IGR"	"DEL"	"AATGG"	"AATGG"	"-"	"rs146062930"	NA	"JHCCPT5"	"JHCCPN5"	"AATGG"	"AATGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs146062930"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4603"	"-:0.5182"	"-:0.4481"	NA	"-:0.4712"	"-:0.4056"	"-:0.4356"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTAATGGA"	"68f260d4-280f-11e6-ac05-1333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"4422"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	10837675	10837676	"+"	"IGR"	"INS"	"-"	"-"	"TGGAATGGAATGGACTCGAC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	4	7	"."	0	""	"TGGAATGGAATGGACTCGAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"754263c0-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"4423"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	10849422	10850632	"+"	"IGR"	"DEL"	"CATGGAATGGAATGGAATTGAAAGGAATGGAGTGCGCTCAAACAGAATGGAAGGGAATGGAATGGTGTCAAATGGAATACAATGGAATGGAATGGAACCAAAAGGAGTAGAATGGAAGGGACTCGTATGGAATGGAGTGGAATGAAATGGACTAGAATGGAATGGAGTGGAATGGACTTGAATGGAATGGAAAGGAATCTAATGGACTTGATTGGAAAAGAATTGAATGGAATGGAATGGACACAAAAGTAATGGAATGCAATGGAATTGAGTGGAATGGAATGGACATGAATAAAAAAATGGAATAGAATAGACTCGAATGGAATCCAATGGAATTTAATGGAATGGACTCTAATGGAATGGAATGGAATTGAATCGAATGGAATAGAAAGGAAAGGATGTCAATGGAATGGAATGAAATGGAATGAACTCAAATGAAATGGAATGGAATTGAATGGTATCTAAAGGAATGGAATGTAATGCAGTGGAATGGACTCGAATGAAATGGAATGGAATGGACTGGAATGGAATGGAATGGAATGGACTGGAATGAAATGGAAAGGAATGGACTTGAATGGAATAGAATGGAATGGAATGGAATGGAATGGAATGGAATTGAATGGAATGGAATGGAATGGACTCAATGGGAATGGAATGGATTGCATTTGAATGGAATGGAATGGACTCAAAAGGAAAGGAATGGAATTTAATGGAATGGAATTTAAAGGAATGTAATGTAATGGAACGGACTCGAATGGAATAGAATGGAATCGACTTGAATGGAATGGAATGCAATGGAATGGATTCGAATGGAAGAGACCCGAATGGATTAGAATGTAATGTATTCGAATGGAATTTAATGGAATTGAATGGACTCGAAAGGAATGGAATGGAATGCAATGGAATGGACTCGAATGGAATGGAATGCAATGACTCGATGGAATGGAATGCAATGGAATGGACTCGTACCTAATTGAGTGGAATTGACACGAACGGCATTGAATGGAATGGACCCGAATGGAATGGAATGGAATGGAATGATCTCAAATGGAACGGAATGGTATGGAAAGGAGACGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATTGCTTTGAATGAAAGGGACTCTAATGGAATGGAATGGAATGGAATCAAATGGAATAGCATGGAATTCAATGGATTTG"	"CATGGAATGGAATGGAATTGAAAGGAATGGAGTGCGCTCAAACAGAATGGAAGGGAATGGAATGGTGTCAAATGGAATACAATGGAATGGAATGGAACCAAAAGGAGTAGAATGGAAGGGACTCGTATGGAATGGAGTGGAATGAAATGGACTAGAATGGAATGGAGTGGAATGGACTTGAATGGAATGGAAAGGAATCTAATGGACTTGATTGGAAAAGAATTGAATGGAATGGAATGGACACAAAAGTAATGGAATGCAATGGAATTGAGTGGAATGGAATGGACATGAATAAAAAAATGGAATAGAATAGACTCGAATGGAATCCAATGGAATTTAATGGAATGGACTCTAATGGAATGGAATGGAATTGAATCGAATGGAATAGAAAGGAAAGGATGTCAATGGAATGGAATGAAATGGAATGAACTCAAATGAAATGGAATGGAATTGAATGGTATCTAAAGGAATGGAATGTAATGCAGTGGAATGGACTCGAATGAAATGGAATGGAATGGACTGGAATGGAATGGAATGGAATGGACTGGAATGAAATGGAAAGGAATGGACTTGAATGGAATAGAATGGAATGGAATGGAATGGAATGGAATGGAATTGAATGGAATGGAATGGAATGGACTCAATGGGAATGGAATGGATTGCATTTGAATGGAATGGAATGGACTCAAAAGGAAAGGAATGGAATTTAATGGAATGGAATTTAAAGGAATGTAATGTAATGGAACGGACTCGAATGGAATAGAATGGAATCGACTTGAATGGAATGGAATGCAATGGAATGGATTCGAATGGAAGAGACCCGAATGGATTAGAATGTAATGTATTCGAATGGAATTTAATGGAATTGAATGGACTCGAAAGGAATGGAATGGAATGCAATGGAATGGACTCGAATGGAATGGAATGCAATGACTCGATGGAATGGAATGCAATGGAATGGACTCGTACCTAATTGAGTGGAATTGACACGAACGGCATTGAATGGAATGGACCCGAATGGAATGGAATGGAATGGAATGATCTCAAATGGAACGGAATGGTATGGAAAGGAGACGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATTGCTTTGAATGAAAGGGACTCTAATGGAATGGAATGGAATGGAATCAAATGGAATAGCATGGAATTCAATGGATTTG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CATGGAATGGAATGGAATTGAAAGGAATGGAGTGCGCTCAAACAGAATGGAAGGGAATGGAATGGTGTCAAATGGAATACAATGGAATGGAATGGAACCAAAAGGAGTAGAATGGAAGGGACTCGTATGGAATGGAGTGGAATGAAATGGACTAGAATGGAATGGAGTGGAATGGACTTGAATGGAATGGAAAGGAATCTAATGGACTTGATTGGAAAAGAATTGAATGGAATGGAATGGACACAAAAGTAATGGAATGCAATGGAATTGAGTGGAATGGAATGGACATGAATAAAAAAATGGAATAGAATAGACTCGAATGGAATCCAATGGAATTTAATGGAATGGACTCTAATGGAATGGAATGGAATTGAATCGAATGGAATAGAAAGGAAAGGATGTCAATGGAATGGAATGAAATGGAATGAACTCAAATGAAATGGAATGGAATTGAATGGTATCTAAAGGAATGGAATGTAATGCAGTGGAATGGACTCGAATGAAATGGAATGGAATGGACTGGAATGGAATGGAATGGAATGGACTGGAATGAAATGGAAAGGAATGGACTTGAATGGAATAGAATGGAATGGAATGGAATGGAATGGAATGGAATTGAATGGAATGGAATGGAATGGACTCAATGGGAATGGAATGGATTGCATTTGAATGGAATGGAATGGACTCAAAAGGAAAGGAATGGAATTTAATGGAATGGAATTTAAAGGAATGTAATGTAATGGAACGGACTCGAATGGAATAGAATGGAATCGACTTGAATGGAATGGAATGCAATGGAATGGATTCGAATGGAAGAGACCCGAATGGATTAGAATGTAATGTATTCGAATGGAATTTAATGGAATTGAATGGACTCGAAAGGAATGGAATGGAATGCAATGGAATGGACTCGAATGGAATGGAATGCAATGACTCGATGGAATGGAATGCAATGGAATGGACTCGTACCTAATTGAGTGGAATTGACACGAACGGCATTGAATGGAATGGACCCGAATGGAATGGAATGGAATGGAATGATCTCAAATGGAACGGAATGGTATGGAAAGGAGACGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATTGCTTTGAATGAAAGGGACTCTAATGGAATGGAATGGAATGGAATCAAATGGAATAGCATGGAATTCAATGGATTTG"	"CATGGAATGGAATGGAATTGAAAGGAATGGAGTGCGCTCAAACAGAATGGAAGGGAATGGAATGGTGTCAAATGGAATACAATGGAATGGAATGGAACCAAAAGGAGTAGAATGGAAGGGACTCGTATGGAATGGAGTGGAATGAAATGGACTAGAATGGAATGGAGTGGAATGGACTTGAATGGAATGGAAAGGAATCTAATGGACTTGATTGGAAAAGAATTGAATGGAATGGAATGGACACAAAAGTAATGGAATGCAATGGAATTGAGTGGAATGGAATGGACATGAATAAAAAAATGGAATAGAATAGACTCGAATGGAATCCAATGGAATTTAATGGAATGGACTCTAATGGAATGGAATGGAATTGAATCGAATGGAATAGAAAGGAAAGGATGTCAATGGAATGGAATGAAATGGAATGAACTCAAATGAAATGGAATGGAATTGAATGGTATCTAAAGGAATGGAATGTAATGCAGTGGAATGGACTCGAATGAAATGGAATGGAATGGACTGGAATGGAATGGAATGGAATGGACTGGAATGAAATGGAAAGGAATGGACTTGAATGGAATAGAATGGAATGGAATGGAATGGAATGGAATGGAATTGAATGGAATGGAATGGAATGGACTCAATGGGAATGGAATGGATTGCATTTGAATGGAATGGAATGGACTCAAAAGGAAAGGAATGGAATTTAATGGAATGGAATTTAAAGGAATGTAATGTAATGGAACGGACTCGAATGGAATAGAATGGAATCGACTTGAATGGAATGGAATGCAATGGAATGGATTCGAATGGAAGAGACCCGAATGGATTAGAATGTAATGTATTCGAATGGAATTTAATGGAATTGAATGGACTCGAAAGGAATGGAATGGAATGCAATGGAATGGACTCGAATGGAATGGAATGCAATGACTCGATGGAATGGAATGCAATGGAATGGACTCGTACCTAATTGAGTGGAATTGACACGAACGGCATTGAATGGAATGGACCCGAATGGAATGGAATGGAATGGAATGATCTCAAATGGAACGGAATGGTATGGAAAGGAGACGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATTGCTTTGAATGAAAGGGACTCTAATGGAATGGAATGGAATGGAATCAAATGGAATAGCATGGAATTCAATGGATTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	21	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCATGGAATGGAATGGAATTGAAAGGAATGGAGTGCGCTCAAACAGAATGGAAGGGAATGGAATGGTGTCAAATGGAATACAATGGAATGGAATGGAACCAAAAGGAGTAGAATGGAAGGGACTCGTATGGAATGGAGTGGAATGAAATGGACTAGAATGGAATGGAGTGGAATGGACTTGAATGGAATGGAAAGGAATCTAATGGACTTGATTGGAAAAGAATTGAATGGAATGGAATGGACACAAAAGTAATGGAATGCAATGGAATTGAGTGGAATGGAATGGACATGAATAAAAAAATGGAATAGAATAGACTCGAATGGAATCCAATGGAATTTAATGGAATGGACTCTAATGGAATGGAATGGAATTGAATCGAATGGAATAGAAAGGAAAGGATGTCAATGGAATGGAATGAAATGGAATGAACTCAAATGAAATGGAATGGAATTGAATGGTATCTAAAGGAATGGAATGTAATGCAGTGGAATGGACTCGAATGAAATGGAATGGAATGGACTGGAATGGAATGGAATGGAATGGACTGGAATGAAATGGAAAGGAATGGACTTGAATGGAATAGAATGGAATGGAATGGAATGGAATGGAATGGAATTGAATGGAATGGAATGGAATGGACTCAATGGGAATGGAATGGATTGCATTTGAATGGAATGGAATGGACTCAAAAGGAAAGGAATGGAATTTAATGGAATGGAATTTAAAGGAATGTAATGTAATGGAACGGACTCGAATGGAATAGAATGGAATCGACTTGAATGGAATGGAATGCAATGGAATGGATTCGAATGGAAGAGACCCGAATGGATTAGAATGTAATGTATTCGAATGGAATTTAATGGAATTGAATGGACTCGAAAGGAATGGAATGGAATGCAATGGAATGGACTCGAATGGAATGGAATGCAATGACTCGATGGAATGGAATGCAATGGAATGGACTCGTACCTAATTGAGTGGAATTGACACGAACGGCATTGAATGGAATGGACCCGAATGGAATGGAATGGAATGGAATGATCTCAAATGGAACGGAATGGTATGGAAAGGAGACGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATTGCTTTGAATGAAAGGGACTCTAATGGAATGGAATGGAATGGAATCAAATGGAATAGCATGGAATTCAATGGATTTGA"	"6901eefa-280f-11e6-ac05-1333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WXS"	FALSE
"4424"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	10849466	10849467	"+"	"IGR"	"INS"	"-"	"-"	"AATGGAAGGGAATGGAACGGACTCA"	"rs759793725"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	5	4	"."	0	""	"AATGGAAGGGAATGGAACGGACTCA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs759793725"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"754cc63a-280f-11e6-ac05-1333424a729f"	"294"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"4425"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	10854786	10854787	"+"	"IGR"	"INS"	"-"	"-"	"ATGGA"	"rs113871072"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"."	4	6	"."	0	""	"ATGGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113871072"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"ATGGA:0.4836"	"ATGGA:0.4894"	"ATGGA:0.4481"	NA	"ATGGA:0.4891"	"ATGGA:0.4851"	"ATGGA:0.4939"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"755362f6-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"4426"	"AF254982.2"	0	"mskcc.org"	"GRCh37"	"21"	10868548	10868549	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"rs55972421"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000411878"	""	7	"."	3	5	"."	0	"AF254982.2,upstream_gene_variant,,ENST00000411878,;"	"T"	"ENSG00000235476"	"ENST00000411878"	"Transcript"	"upstream_gene_variant"	"-/311"	""	""	""	""	"rs55972421"	"1"	"3570"	1	"AF254982.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"75586058-280f-11e6-ac05-1333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4427"	"AF254982.2"	0	"mskcc.org"	"GRCh37"	"21"	10873042	10873044	"+"	"3'Flank"	"DEL"	"TTG"	"TTG"	"-"	"rs199901514"	NA	"JHCCPT5"	"JHCCPN5"	"TTG"	"TTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000411878"	""	16	"."	7	7	"."	0	"AF254982.2,downstream_gene_variant,,ENST00000411878,;"	"-"	"ENSG00000235476"	"ENST00000411878"	"Transcript"	"downstream_gene_variant"	"-/311"	""	""	""	""	"rs199901514"	"1"	"613"	1	"AF254982.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTTGT"	"690aab1c-280f-11e6-ac05-1333424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4375	"WXS"	FALSE
"4428"	"BAGE2"	0	"mskcc.org"	"GRCh37"	"21"	11043048	11043049	"+"	"Intron"	"INS"	"-"	"-"	"TGTTGC"	"rs372460794"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.775-3620_775-3619insGCAACA"	""	""	"ENST00000470054"	""	11	"."	3	3	"."	0	"BAGE2,intron_variant,,ENST00000470054,;BAGE2,intron_variant,,ENST00000496773,;"	"TGTTGC"	"ENSG00000187172"	"ENST00000470054"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1891"	""	""	""	""	"rs372460794"	"1"	NA	-1	"BAGE2"	"HGNC"	15723	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"7587ada4-280f-11e6-ac05-1333424a729f"	"170"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4429"	"BAGE2"	0	"mskcc.org"	"GRCh37"	"21"	11099703	11099704	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs139261899"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000470054"	""	12	"."	4	5	"."	0	"BAGE2,upstream_gene_variant,,ENST00000470054,;BAGE2,upstream_gene_variant,,ENST00000474011,;"	"A"	"ENSG00000187172"	"ENST00000470054"	"Transcript"	"upstream_gene_variant"	"-/1891"	""	""	""	""	"rs139261899"	"1"	"778"	-1	"BAGE2"	"HGNC"	15723	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3205"	"A:0.2943"	"A:0.2622"	NA	"A:0.3581"	"A:0.3141"	"A:0.365"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"759de8da-280f-11e6-ac05-1333424a729f"	"157"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4430"	"ENSR00001726342"	0	"mskcc.org"	"GRCh37"	"21"	11114320	11114325	"+"	"IGR"	"DEL"	"GTTTTG"	"GTTTTG"	"-"	"rs374208117"	NA	"JHCCPT5"	"JHCCPN5"	"GTTTTG"	"GTTTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001726342"	""	40	"."	7	12	"."	0	""	"-"	""	"ENSR00001726342"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs374208117"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGTTTTGT"	"6968b306-280f-11e6-ac05-1333424a729f"	"227"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175	"WXS"	FALSE
"4431"	"ENSR00001726363"	0	"mskcc.org"	"GRCh37"	"21"	11134639	11134640	"+"	"IGR"	"INS"	"-"	"-"	"ACAA"	"rs10625852"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001726363"	""	7	"."	4	3	"."	0	""	"ACAA"	""	"ENSR00001726363"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs10625852"	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"75eeb06c-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4432"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	11139247	11139248	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs147390963"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	7	1	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147390963"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75f082f2-280f-11e6-ac05-1333424a729f"	"285"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"4433"	"ANKRD30BP1"	0	"mskcc.org"	"GRCh37"	"21"	14771497	14771498	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs531507909"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.643-146dupT"	""	""	"ENST00000451052"	""	14	"."	4	2	"."	0	"ANKRD30BP1,intron_variant,,ENST00000451052,;"	"A"	"ENSG00000175302"	"ENST00000451052"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2186"	""	""	""	""	"rs531507909"	"1"	NA	-1	"ANKRD30BP1"	"HGNC"	19722	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"11/17"	""	"A:0.2322"	"A:0.3858"	"A:0.1239"	NA	"A:0.3185"	"A:0.1024"	"A:0.1462"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7600d1b6-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"4434"	"USP25"	29761	"mskcc.org"	"GRCh37"	"21"	17238522	17238523	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs147076784"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2517-46_2517-45delTA"	""	""	"ENST00000285679"	""	78	"."	4	7	"."	0	"USP25,intron_variant,,ENST00000285681,NM_001283042.1;USP25,intron_variant,,ENST00000400183,NM_001283041.1;USP25,intron_variant,,ENST00000285679,NM_013396.3;USP25,intron_variant,,ENST00000351097,;USP25,intron_variant,,ENST00000449491,;"	"-"	"ENSG00000155313"	"ENST00000285679"	"Transcript"	"intron_variant"	"-/3973"	"-/3168"	"-/1055"	""	""	"rs147076784"	"1"	NA	1	"USP25"	"HGNC"	12624	"protein_coding"	"YES"	"CCDS33515.1"	"ENSP00000285679"	"Q9UHP3"	"Q9HA22"	"UPI000002B680"	"NM_013396.3"	NA	NA	""	"19/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAATA"	"69c021e0-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0512820512820513	"WXS"	FALSE
"4435"	"AL109763.1"	0	"mskcc.org"	"GRCh37"	"21"	19858070	19858070	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs59675119"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.108+740delG"	""	""	"ENST00000455391"	""	41	"."	27	4	"."	1	"TMPRSS15,intron_variant,,ENST00000422787,;AL109763.1,intron_variant,,ENST00000455391,;"	"-"	"ENSG00000228708"	"ENST00000455391"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/461"	""	""	""	""	"rs59675119"	"1"	NA	-1	"AL109763.1"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"C:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.9984"	"0"	"0"	"1"	"0"	"0"	"0"	"0"	NA	"common_variant"	"TACC"	"6a1d2dea-280f-11e6-ac05-1333424a729f"	"1680"	1	"18/18"	"3063/3068"	"0/0"	"0/0"	"18/18"	"0/0"	"0/0"	"0/0"	"0/0"	"PASS"	"FALSE"	0.658536585365854	"WXS"	FALSE
"4436"	"NCAM2"	4685	"mskcc.org"	"GRCh37"	"21"	22679388	22679389	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs34586479"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.619+14833dupT"	""	""	"ENST00000400546"	""	7	"."	5	2	"."	0	"NCAM2,intron_variant,,ENST00000400546,NM_004540.3;NCAM2,intron_variant,,ENST00000284894,;NCAM2,intron_variant,,ENST00000535285,;NCAM2,intron_variant,,ENST00000461281,;"	"T"	"ENSG00000154654"	"ENST00000400546"	"Transcript"	"intron_variant"	"-/8135"	"-/2514"	"-/837"	""	""	"rs34586479"	"1"	NA	1	"NCAM2"	"HGNC"	7657	"protein_coding"	"YES"	"CCDS42910.1"	"ENSP00000383392"	"O15394"	"D3DSC5"	"UPI00001A3703"	"NM_004540.3"	NA	NA	""	"5/17"	""	"-:0.0002"	"T:1"	"T:1"	NA	"T:0.999"	"T:1"	"T:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"76675db4-280f-11e6-ac05-1333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4437"	"NCAM2"	4685	"mskcc.org"	"GRCh37"	"21"	22757715	22757716	"+"	"Intron"	"INS"	"-"	"-"	"ACACACACAT"	"rs141149066"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1195+11386_1195+11387insACACATACAC"	""	""	"ENST00000400546"	""	53	"."	6	19	"."	0	"NCAM2,intron_variant,,ENST00000400546,NM_004540.3;NCAM2,intron_variant,,ENST00000284894,;NCAM2,intron_variant,,ENST00000535285,;"	"ACACACACAT"	"ENSG00000154654"	"ENST00000400546"	"Transcript"	"intron_variant"	"-/8135"	"-/2514"	"-/837"	""	""	"rs141149066"	"1"	NA	1	"NCAM2"	"HGNC"	7657	"protein_coding"	"YES"	"CCDS42910.1"	"ENSP00000383392"	"O15394"	"D3DSC5"	"UPI00001A3703"	"NM_004540.3"	NA	NA	""	"9/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"766f2dbe-280f-11e6-ac05-1333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113207547169811	"WXS"	FALSE
"4438"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	25178810	25178828	"+"	"IGR"	"DEL"	"AAAGAAAGAAAGAAAGAAG"	"AAAGAAAGAAAGAAAGAAG"	"-"	"rs199718474"	NA	"JHCCPT5"	"JHCCPN5"	"AAAGAAAGAAAGAAAGAAG"	"AAAGAAAGAAAGAAAGAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs199718474"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAGAAAGAAAGAAAGAAGA"	"6a5a0ff8-280f-11e6-ac05-1333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4439"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	26184890	26184890	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs5843124"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5843124"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.1422"	"-:0.9607"	"-:0.8487"	NA	"-:0.8889"	"-:0.6909"	"-:0.865"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTT"	"6a606dc6-280f-11e6-ac05-1333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4440"	"AP000235.2"	339622	"mskcc.org"	"GRCh37"	"21"	26376489	26376490	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs370320608"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.331-25608_331-25607insC"	""	""	"ENST00000441009"	""	9	"."	7	1	"."	0	"AP000235.2,intron_variant,,ENST00000441009,;"	"C"	"ENSG00000226983"	"ENST00000441009"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2719"	""	""	""	""	"rs370320608"	"1"	NA	1	"AP000235.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	"-:0.3025"	"C:0.9387"	"C:0.5476"	NA	"C:0.4732"	"C:0.6769"	"C:0.7301"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"767c0d90-280f-11e6-ac05-1333424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	FALSE
"4441"	"APP"	351	"mskcc.org"	"GRCh37"	"21"	27327250	27327270	"+"	"Intron"	"DEL"	"TTTGAGCTCAGGTTTAAGACT"	"TTTGAGCTCAGGTTTAAGACT"	"GAGCTCAGGTTTAAGACTT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTGAGCTCAGGTTTAAGACT"	"TTTGAGCTCAGGTTTAAGACT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1588-266_1588-247delGTCTTAAACCTGAGCTCAAAinsAGTCTTAAACCTGAGCTC"	""	""	"ENST00000346798"	""	8	"."	3	2	"."	0	"APP,intron_variant,,ENST00000358918,NM_001204302.1,NM_001204301.1;APP,intron_variant,,ENST00000357903,NM_201413.2;APP,intron_variant,,ENST00000346798,NM_000484.3;APP,intron_variant,,ENST00000359726,;APP,intron_variant,,ENST00000348990,NM_001204303.1,NM_201414.2;APP,intron_variant,,ENST00000354192,NM_001136129.2;APP,intron_variant,,ENST00000440126,NM_001136016.3;APP,intron_variant,,ENST00000448388,NM_001136131.2;APP,intron_variant,,ENST00000439274,NM_001136130.2;APP,intron_variant,,ENST00000448850,;APP,intron_variant,,ENST00000456209,;"	"GAGCTCAGGTTTAAGACT"	"ENSG00000142192"	"ENST00000346798"	"Transcript"	"intron_variant"	"-/3467"	"-/2313"	"-/770"	""	""	""	"1"	NA	-1	"APP"	"HGNC"	620	"protein_coding"	"YES"	"CCDS13576.1"	"ENSP00000284981"	"P05067"	"L7XE61,L7XCZ9,B7Z313"	"UPI000002DB1C"	"NM_000484.3"	NA	NA	""	"12/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTTTTGAGCTCAGGTTTAAGACTT"	"729541ce-280f-11e6-ac05-1333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4442"	"ADAMTS5"	11096	"mskcc.org"	"GRCh37"	"21"	28305025	28305026	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAC"	"rs144587796"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1873+154_1873+155insGTTTTT"	""	""	"ENST00000284987"	""	11	"."	5	5	"."	0	"ADAMTS5,intron_variant,,ENST00000284987,NM_007038.3;AP001601.2,intron_variant,,ENST00000426771,;"	"AAAAAC"	"ENSG00000154736"	"ENST00000284987"	"Transcript"	"intron_variant"	"-/9056"	"-/2793"	"-/930"	""	""	"rs144587796"	"1"	NA	-1	"ADAMTS5"	"HGNC"	221	"protein_coding"	"YES"	"CCDS13579.1"	"ENSP00000284987"	"Q9UNA0"	""	"UPI00001AEAC2"	"NM_007038.3"	NA	NA	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"76ba5f50-280f-11e6-ac05-1333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"4443"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	28720611	28720612	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs370428272"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	3	3	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs370428272"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1506"	"G:0.9039"	"G:0.8818"	NA	"G:0.7282"	"G:0.8698"	"G:0.8569"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"76c0318c-280f-11e6-ac05-1333424a729f"	"155"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4444"	"AL035610.2"	0	"mskcc.org"	"GRCh37"	"21"	29597467	29597468	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs72310365"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.414+735_414+736delCT"	""	""	"ENST00000453420"	""	11	"."	5	3	"."	0	"AL035610.2,intron_variant,,ENST00000453420,;AL035610.2,intron_variant,,ENST00000437194,;"	"-"	"ENSG00000236532"	"ENST00000453420"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4486"	""	""	""	""	"rs72310365"	"1"	NA	-1	"AL035610.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"6a8ae3b2-280f-11e6-ac05-1333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"4445"	"ENSR00001566040"	0	"mskcc.org"	"GRCh37"	"21"	30127432	30127434	"+"	"IGR"	"DEL"	"AGA"	"AGA"	"-"	"rs139698357"	NA	"JHCCPT5"	"JHCCPN5"	"AGA"	"AGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001566040"	""	7	"."	4	1	"."	0	""	"-"	""	"ENSR00001566040"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs139698357"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1943"	"-:0.3011"	"-:0.1441"	NA	"-:0.246"	"-:0.1382"	"-:0.09"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTAGAA"	"6a90b508-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4446"	"N6AMT1"	29104	"mskcc.org"	"GRCh37"	"21"	30249720	30249721	"+"	"Intron"	"INS"	"-"	"-"	"AAGAAAAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.538+786_538+793dupTTTTTCTT"	""	""	"ENST00000303775"	""	20	"."	4	3	"."	0	"N6AMT1,intron_variant,,ENST00000303775,NM_013240.4;N6AMT1,intron_variant,,ENST00000351429,NM_182749.3;N6AMT1,intron_variant,,ENST00000460212,;"	"AAGAAAAA"	"ENSG00000156239"	"ENST00000303775"	"Transcript"	"intron_variant"	"-/4865"	"-/645"	"-/214"	""	""	""	"1"	NA	-1	"N6AMT1"	"HGNC"	16021	"protein_coding"	"YES"	"CCDS33526.1"	"ENSP00000303584"	"Q9Y5N5"	""	"UPI000013DE68"	"NM_013240.4"	NA	NA	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"76ca89d4-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"4447"	"LTN1"	26046	"mskcc.org"	"GRCh37"	"21"	30341544	30341545	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs569051216"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1449+243dupT"	""	""	"ENST00000389194"	""	35	"."	8	6	"."	0	"LTN1,intron_variant,,ENST00000389194,NM_015565.2;LTN1,intron_variant,,ENST00000361371,;LTN1,intron_variant,,ENST00000389195,;LTN1,intron_variant,,ENST00000483326,;"	"A"	"ENSG00000198862"	"ENST00000389194"	"Transcript"	"intron_variant"	"-/7749"	"-/5439"	"-/1812"	""	""	"rs569051216"	"1"	NA	-1	"LTN1"	"HGNC"	13082	"protein_coding"	"YES"	"CCDS33527.2"	"ENSP00000373846"	"O94822"	"G1UI34"	"UPI000049DF6C"	"NM_015565.2"	NA	NA	""	"9/29"	""	"A:0.1661"	"A:0.028"	"A:0.1614"	NA	"A:0.126"	"A:0.2773"	"A:0.2832"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"76e67342-280f-11e6-ac05-1333424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228571428571429	"WXS"	FALSE
"4448"	"KRTAP19-6"	337973	"mskcc.org"	"GRCh37"	"21"	31909645	31909646	"+"	"3'Flank"	"INS"	"-"	"-"	"C"	"rs11438064"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000334046"	""	40	"."	3	18	"."	0	"KRTAP19-6,downstream_gene_variant,,ENST00000334046,NM_181612.2;KRTAP19-11P,non_coding_transcript_exon_variant,,ENST00000439851,;"	"C"	"ENSG00000186925"	"ENST00000334046"	"Transcript"	"downstream_gene_variant"	"-/330"	"-/177"	"-/58"	""	""	"rs11438064"	"1"	"4208"	-1	"KRTAP19-6"	"HGNC"	18941	"protein_coding"	"YES"	"CCDS13598.1"	"ENSP00000375107"	"Q3LI70"	""	"UPI00001A9E51"	"NM_181612.2"	NA	NA	""	""	""	"-:0.0002"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7708adb8-280f-11e6-ac05-1333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WXS"	FALSE
"4449"	"KRTAP19-6"	337973	"mskcc.org"	"GRCh37"	"21"	31913612	31913613	"+"	"3'Flank"	"INS"	"-"	"-"	"AT"	"rs35756424"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000334046"	""	17	"."	7	2	"."	0	"KRTAP19-6,downstream_gene_variant,,ENST00000334046,NM_181612.2;KRTAP19-11P,upstream_gene_variant,,ENST00000439851,;"	"AT"	"ENSG00000186925"	"ENST00000334046"	"Transcript"	"downstream_gene_variant"	"-/330"	"-/177"	"-/58"	""	""	"rs35756424"	"1"	"241"	-1	"KRTAP19-6"	"HGNC"	18941	"protein_coding"	"YES"	"CCDS13598.1"	"ENSP00000375107"	"Q3LI70"	""	"UPI00001A9E51"	"NM_181612.2"	NA	NA	""	""	""	"-:0.2131"	"AT:0.9266"	"AT:0.7421"	NA	"AT:0.7034"	"AT:0.7127"	"AT:0.7924"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"77136e6a-280f-11e6-ac05-1333424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411764705882353	"WXS"	FALSE
"4450"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	32234932	32234932	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs11299523"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	6	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11299523"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1583"	"-:0.1241"	"-:0.1484"	NA	"-:0.0526"	"-:0.2008"	"-:0.2771"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTT"	"6b44e906-280f-11e6-ac05-1333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"4451"	"UBE3AP2"	0	"mskcc.org"	"GRCh37"	"21"	32432880	32432881	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"rs111729928"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000429033"	""	17	"."	9	2	"."	0	"UBE3AP2,downstream_gene_variant,,ENST00000429033,;"	"A"	"ENSG00000228941"	"ENST00000429033"	"Transcript"	"downstream_gene_variant"	"-/2259"	""	""	""	""	"rs111729928"	"1"	"38"	-1	"UBE3AP2"	"HGNC"	12498	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"771ce8aa-280f-11e6-ac05-1333424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.529411764705882	"WXS"	FALSE
"4452"	"TIAM1"	7074	"mskcc.org"	"GRCh37"	"21"	32835062	32835062	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs57793159"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-369+1234delC"	""	""	"ENST00000286827"	""	8	"."	4	1	"."	0	"TIAM1,intron_variant,,ENST00000286827,NM_003253.2;TIAM1,intron_variant,,ENST00000469412,;"	"-"	"ENSG00000156299"	"ENST00000286827"	"Transcript"	"intron_variant"	"-/7200"	"-/4776"	"-/1591"	""	""	"rs57793159"	"1"	NA	-1	"TIAM1"	"HGNC"	11805	"protein_coding"	"YES"	"CCDS13609.1"	"ENSP00000286827"	"Q13009"	"C9JMB5"	"UPI000013DE6F"	"NM_003253.2"	NA	NA	""	"2/28"	""	"G:0.1567"	"-:0.8759"	"-:0.866"	NA	"-:0.8651"	"-:0.7614"	"-:0.8446"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"6b55de1e-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4453"	"HUNK"	30811	"mskcc.org"	"GRCh37"	"21"	33299687	33299688	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs145340607"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.554+2616dupG"	""	""	"ENST00000270112"	""	8	"."	7	2	"."	0	"HUNK,intron_variant,,ENST00000270112,NM_014586.1;HUNK,intron_variant,,ENST00000430354,;"	"G"	"ENSG00000142149"	"ENST00000270112"	"Transcript"	"intron_variant"	"-/7385"	"-/2145"	"-/714"	""	""	"rs145340607"	"1"	NA	1	"HUNK"	"HGNC"	13326	"protein_coding"	"YES"	"CCDS13610.1"	"ENSP00000270112"	"P57058"	""	"UPI0000035B66"	"NM_014586.1"	NA	NA	""	"2/10"	""	"-:0.0004"	"G:1"	"G:1"	NA	"G:0.999"	"G:0.999"	"G:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"773819c2-280f-11e6-ac05-1333424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.875	"WXS"	FALSE
"4454"	"EVA1C"	59271	"mskcc.org"	"GRCh37"	"21"	33821224	33821225	"+"	"Intron"	"INS"	"-"	"-"	"AAAGAAAGAAAGAAAGAGAGAA"	"rs148344132"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.161-4395_161-4394insAAGAAAGAAAGAAAGAGAGAAA"	""	""	"ENST00000300255"	""	12	"."	3	2	"."	0	"EVA1C,intron_variant,,ENST00000300255,NM_058187.3;EVA1C,intron_variant,,ENST00000382699,NM_001286556.1;EVA1C,intron_variant,,ENST00000401402,;EVA1C,intron_variant,,ENST00000412833,;EVA1C,intron_variant,,ENST00000459833,;EVA1C,intron_variant,,ENST00000437338,;EVA1C,intron_variant,,ENST00000469079,;EVA1C,intron_variant,,ENST00000435323,;EVA1C,intron_variant,,ENST00000457807,;EVA1C,upstream_gene_variant,,ENST00000464037,;"	"AAAGAAAGAAAGAAAGAGAGAA"	"ENSG00000166979"	"ENST00000300255"	"Transcript"	"intron_variant"	"-/1998"	"-/1326"	"-/441"	""	""	"rs148344132"	"1"	NA	1	"EVA1C"	"HGNC"	13239	"protein_coding"	"YES"	"CCDS13614.1"	"ENSP00000300255"	"P58658"	"C9JS02,B3KWG0"	"UPI00000373F4"	"NM_058187.3"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"777467ba-280f-11e6-ac05-1333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4455"	"EVA1C"	59271	"mskcc.org"	"GRCh37"	"21"	33843400	33843400	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs11316263"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.634+3245delA"	""	""	"ENST00000300255"	""	9	"."	4	1	"."	0	"EVA1C,intron_variant,,ENST00000300255,NM_058187.3;EVA1C,intron_variant,,ENST00000382699,NM_001286556.1;EVA1C,intron_variant,,ENST00000401402,;EVA1C,intron_variant,,ENST00000412833,;EVA1C,intron_variant,,ENST00000459833,;EVA1C,intron_variant,,ENST00000464037,;EVA1C,intron_variant,,ENST00000437338,;EVA1C,intron_variant,,ENST00000435323,;EVA1C,intron_variant,,ENST00000457807,;EVA1C,downstream_gene_variant,,ENST00000469079,;"	"-"	"ENSG00000166979"	"ENST00000300255"	"Transcript"	"intron_variant"	"-/1998"	"-/1326"	"-/441"	""	""	"rs11316263"	"1"	NA	1	"EVA1C"	"HGNC"	13239	"protein_coding"	"YES"	"CCDS13614.1"	"ENSP00000300255"	"P58658"	"C9JS02,B3KWG0"	"UPI00000373F4"	"NM_058187.3"	NA	NA	""	"4/7"	""	"A:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAA"	"6b7feee8-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4456"	"IL10RB"	3588	"mskcc.org"	"GRCh37"	"21"	34660685	34660690	"+"	"Intron"	"DEL"	"CGCACA"	"CGCACA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CGCACA"	"CGCACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.804+120_804+125delGCACAC"	""	""	"ENST00000290200"	""	80	"."	5	57	"."	0	"IL10RB,intron_variant,,ENST00000290200,NM_000628.4;IL10RB,intron_variant,,ENST00000493295,;IL10RB,intron_variant,,ENST00000451065,;IL10RB,intron_variant,,ENST00000422891,;IL10RB,downstream_gene_variant,,ENST00000498371,;"	"-"	"ENSG00000243646"	"ENST00000290200"	"Transcript"	"intron_variant"	"-/1963"	"-/978"	"-/325"	""	""	""	"1"	NA	1	"IL10RB"	"HGNC"	5965	"protein_coding"	"YES"	"CCDS13623.1"	"ENSP00000290200"	"Q08334"	""	"UPI0000072ECA"	"NM_000628.4"	NA	NA	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGCGCACAC"	"6bc8ee04-280f-11e6-ac05-1333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WXS"	FALSE
"4457"	"IFNGR2"	3460	"mskcc.org"	"GRCh37"	"21"	34782861	34782862	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs113703853"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.74-4333dupC"	""	""	"ENST00000290219"	""	13	"."	7	2	"."	0	"IFNGR2,intron_variant,,ENST00000290219,NM_005534.3;IFNGR2,intron_variant,,ENST00000381995,;IFNGR2,intron_variant,,ENST00000405436,;IFNGR2,intron_variant,,ENST00000545369,;IFNGR2,intron_variant,,ENST00000439213,;"	"C"	"ENSG00000159128"	"ENST00000290219"	"Transcript"	"intron_variant"	"-/2221"	"-/1014"	"-/337"	""	""	"rs113703853"	"1"	NA	1	"IFNGR2"	"HGNC"	5440	"protein_coding"	"YES"	"CCDS33544.1"	"ENSP00000290219"	"P38484"	"B5MCZ0,A8K881,A1Z2N6"	"UPI00001514B0"	"NM_005534.3"	NA	NA	""	"1/6"	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"77db0a42-280f-11e6-ac05-1333424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.538461538461538	"WXS"	FALSE
"4458"	"GART"	2618	"mskcc.org"	"GRCh37"	"21"	34897693	34897694	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs34735620"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1067-387dupT"	""	""	"ENST00000381831"	""	6	"."	3	1	"."	0	"GART,intron_variant,,ENST00000381831,NM_001136005.1;GART,intron_variant,,ENST00000381839,NM_001136006.1;GART,intron_variant,,ENST00000381815,NM_000819.4;GART,intron_variant,,ENST00000361093,NM_175085.2;GART,upstream_gene_variant,,ENST00000543717,;GART,upstream_gene_variant,,ENST00000460305,;GART,intron_variant,,ENST00000424203,;GART,intron_variant,,ENST00000467575,;GART,downstream_gene_variant,,ENST00000366093,;GART,downstream_gene_variant,,ENST00000466882,;"	"A"	"ENSG00000159131"	"ENST00000381831"	"Transcript"	"intron_variant"	"-/3490"	"-/3033"	"-/1010"	""	""	"rs34735620"	"1"	NA	-1	"GART"	"HGNC"	4163	"protein_coding"	"YES"	"CCDS13627.1"	"ENSP00000371253"	"P22102"	"Q71VH3,C9JZG2,C9JTV6,C9JKQ7,C9JBJ1,B4DJ93"	"UPI0000132A2A"	"NM_001136005.1"	NA	NA	""	"10/21"	""	"-:0.0002"	"A:1"	"A:1"	NA	"A:1"	"A:0.999"	"A:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"77fff942-280f-11e6-ac05-1333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4459"	"SON"	6651	"mskcc.org"	"GRCh37"	"21"	34921489	34921490	"+"	"Intron"	"INS"	"-"	"-"	"TTGT"	"rs10693989"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.245-292_245-291insTGTT"	""	""	"ENST00000356577"	""	13	"."	5	2	"."	0	"SON,intron_variant,,ENST00000356577,NM_138927.2;SON,intron_variant,,ENST00000290239,;SON,intron_variant,,ENST00000381679,;SON,intron_variant,,ENST00000300278,NM_032195.2;SON,intron_variant,,ENST00000381692,;SON,upstream_gene_variant,,ENST00000436227,;SON,downstream_gene_variant,,ENST00000492229,;SON,intron_variant,,ENST00000455528,;SON,downstream_gene_variant,,ENST00000475072,;"	"TTGT"	"ENSG00000159140"	"ENST00000356577"	"Transcript"	"intron_variant"	"-/8813"	"-/7281"	"-/2426"	""	""	"rs10693989"	"1"	NA	1	"SON"	"HGNC"	11183	"protein_coding"	"YES"	"CCDS13629.1"	"ENSP00000348984"	"P18583"	""	"UPI0000140BFD"	"NM_138927.2"	NA	NA	""	"2/11"	""	"-:0.1260"	"TTGT:0.9145"	"TTGT:0.866"	NA	"TTGT:0.9861"	"TTGT:0.7773"	"TTGT:0.8088"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"7817b474-280f-11e6-ac05-1333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"4460"	"CRYZL1"	9946	"mskcc.org"	"GRCh37"	"21"	34968606	34968607	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs150787088"	NA	"JHCCPT5"	"JHCCPN5"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.799-465_799-464delTA"	""	""	"ENST00000381554"	""	14	"."	5	4	"."	0	"CRYZL1,intron_variant,,ENST00000361534,;CRYZL1,intron_variant,,ENST00000290244,;CRYZL1,intron_variant,,ENST00000381554,NM_145858.2;CRYZL1,intron_variant,,ENST00000381540,;CRYZL1,intron_variant,,ENST00000440526,;CRYZL1,intron_variant,,ENST00000445393,;AP000304.12,intron_variant,,ENST00000429238,;CRYZL1,intron_variant,,ENST00000441940,;CRYZL1,intron_variant,,ENST00000414079,;CRYZL1,downstream_gene_variant,,ENST00000426935,;CRYZL1,intron_variant,,ENST00000480893,;CRYZL1,intron_variant,,ENST00000479964,;CRYZL1,intron_variant,,ENST00000420072,;CRYZL1,intron_variant,,ENST00000429827,;CRYZL1,intron_variant,,ENST00000452420,;CRYZL1,intron_variant,,ENST00000437996,;CRYZL1,upstream_gene_variant,,ENST00000468349,;"	"-"	"ENSG00000205758"	"ENST00000381554"	"Transcript"	"intron_variant"	"-/1617"	"-/1050"	"-/349"	""	""	"rs150787088"	"1"	NA	-1	"CRYZL1"	"HGNC"	2420	"protein_coding"	"YES"	"CCDS13633.2"	"ENSP00000370966"	"O95825"	"C9K0F7,C9JQD0,C9JAL0"	"UPI0000038C61"	"NM_145858.2"	NA	NA	""	"10/12"	""	"-:0.1847"	"-:0.0469"	"-:0.2493"	NA	"-:0.1637"	"-:0.3101"	"-:0.2178"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTAT"	"6c070f0e-280f-11e6-ac05-1333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"4461"	"RUNX1"	861	"mskcc.org"	"GRCh37"	"21"	37249797	37249798	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11370073"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-770-13033dupT"	""	""	"ENST00000475045"	""	6	"."	4	1	"."	0	"RUNX1,intron_variant,,ENST00000475045,;"	"A"	"ENSG00000159216"	"ENST00000475045"	"Transcript"	"intron_variant"	"-/1582"	"-/148"	"-/49"	""	""	"rs11370073"	"1"	NA	-1	"RUNX1"	"HGNC"	10471	"protein_coding"	""	""	"ENSP00000477072"	""	""	"UPI0003B92906"	""	NA	NA	""	"5/12"	""	"A:0.2268"	"A:0.5234"	"A:0.1715"	NA	"A:0.0238"	"A:0.1998"	"A:0.1022"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"78af3ede-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	TRUE
"4462"	"RUNX1"	861	"mskcc.org"	"GRCh37"	"21"	37349243	37349246	"+"	"Intron"	"DEL"	"CAAG"	"CAAG"	"-"	"rs577026744"	NA	"JHCCPT5"	"JHCCPN5"	"CAAG"	"CAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-864+4803_-864+4806delCTTG"	""	""	"ENST00000475045"	""	10	"."	4	1	"."	0	"RUNX1,intron_variant,,ENST00000475045,;RUNX1,intron_variant,,ENST00000460207,;"	"-"	"ENSG00000159216"	"ENST00000475045"	"Transcript"	"intron_variant"	"-/1582"	"-/148"	"-/49"	""	""	"rs577026744"	"1"	NA	-1	"RUNX1"	"HGNC"	10471	"protein_coding"	""	""	"ENSP00000477072"	""	""	"UPI0003B92906"	""	NA	NA	""	"4/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CACAAGC"	"6c7b0c24-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	TRUE
"4463"	"CBR1"	873	"mskcc.org"	"GRCh37"	"21"	37443156	37443157	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs113589610"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.290-92_290-91insG"	""	""	"ENST00000290349"	""	98	"."	6	23	"."	0	"CBR1,intron_variant,,ENST00000530908,NM_001286789.1;CBR1,intron_variant,,ENST00000290349,NM_001757.2;SETD4,intron_variant,,ENST00000399201,;CBR1,intron_variant,,ENST00000439427,;CBR1,intron_variant,,ENST00000399191,;RNU6-992P,downstream_gene_variant,,ENST00000363343,;AP000688.14,intron_variant,,ENST00000535199,;AP000688.14,downstream_gene_variant,,ENST00000415147,;CBR1,intron_variant,,ENST00000466328,;"	"G"	"ENSG00000159228"	"ENST00000290349"	"Transcript"	"intron_variant"	"-/1293"	"-/834"	"-/277"	""	""	"rs113589610"	"1"	NA	1	"CBR1"	"HGNC"	1548	"protein_coding"	"YES"	"CCDS13641.1"	"ENSP00000290349"	"P16152"	""	"UPI000004C784"	"NM_001757.2"	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"78c362b0-280f-11e6-ac05-1333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0612244897959184	"WXS"	FALSE
"4464"	"SIM2"	6493	"mskcc.org"	"GRCh37"	"21"	38116768	38116771	"+"	"Intron"	"DEL"	"AGAA"	"AGAA"	"-"	"rs72405909"	NA	"JHCCPT5"	"JHCCPN5"	"AGAA"	"AGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1168-242_1168-239delAAGA"	""	""	"ENST00000290399"	""	16	"."	3	8	"."	0	"SIM2,intron_variant,,ENST00000290399,NM_005069.3;SIM2,intron_variant,,ENST00000430056,NM_009586.2;SIM2,intron_variant,,ENST00000431229,;SIM2,intron_variant,,ENST00000481185,;"	"-"	"ENSG00000159263"	"ENST00000290399"	"Transcript"	"intron_variant"	"-/4442"	"-/2004"	"-/667"	""	""	"rs72405909"	"1"	NA	1	"SIM2"	"HGNC"	10883	"protein_coding"	"YES"	"CCDS13646.1"	"ENSP00000290399"	"Q14190"	""	"UPI000013599A"	"NM_005069.3"	NA	NA	""	"9/10"	""	"AGAA:0.4910"	"-:0.6233"	"-:0.389"	NA	"-:0.2718"	"-:0.5676"	"-:0.6237"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"19"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGAAA"	"6cd9dde4-280f-11e6-ac05-1333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"4465"	"AP001434.2"	0	"mskcc.org"	"GRCh37"	"21"	39609871	39609872	"+"	"Intron"	"INS"	"-"	"-"	"AACAAC"	"rs140962913"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.89+158_89+163dupGTTGTT"	""	""	"ENST00000444977"	""	8	"."	3	3	"."	0	"KCNJ15,intron_variant,,ENST00000549805,;KCNJ15,intron_variant,,ENST00000549158,;KCNJ15,intron_variant,,ENST00000547341,;KCNJ15,intron_variant,,ENST00000549932,;KCNJ15,intron_variant,,ENST00000551422,;KCNJ15,intron_variant,,ENST00000547595,;KCNJ15,intron_variant,,ENST00000548700,;AP001434.2,intron_variant,,ENST00000444977,;SPATA20P1,downstream_gene_variant,,ENST00000423089,;"	"AACAAC"	"ENSG00000226012"	"ENST00000444977"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/287"	""	""	""	""	"rs140962913"	"1"	NA	-1	"AP001434.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.4241"	"AACAAC:0.41"	"AACAAC:0.4986"	NA	"AACAAC:0.8661"	"AACAAC:0.507"	"AACAAC:0.6268"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"79916caa-280f-11e6-ac05-1333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4466"	"BRWD1"	54014	"mskcc.org"	"GRCh37"	"21"	40555792	40555807	"+"	"3'Flank"	"DEL"	"AGAGGGGCAGGGGGCG"	"AGAGGGGCAGGGGGCG"	"-"	"rs111901809"	NA	"JHCCPT5"	"JHCCPN5"	"AGAGGGGCAGGGGGCG"	"AGAGGGGCAGGGGGCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000333229"	""	7	"."	3	2	"."	0	"BRWD1,downstream_gene_variant,,ENST00000333229,NM_018963.4;PSMG1,upstream_gene_variant,,ENST00000331573,NM_003720.3,NM_001261824.1;PSMG1,upstream_gene_variant,,ENST00000380900,NM_203433.2;AF129408.17,upstream_gene_variant,,ENST00000608767,;BRWD1,downstream_gene_variant,,ENST00000446924,;PSMG1,upstream_gene_variant,,ENST00000411828,;PSMG1,upstream_gene_variant,,ENST00000431628,;"	"-"	"ENSG00000185658"	"ENST00000333229"	"Transcript"	"downstream_gene_variant"	"-/10141"	"-/6963"	"-/2320"	""	""	"rs111901809"	"1"	"295"	-1	"BRWD1"	"HGNC"	12760	"protein_coding"	"YES"	"CCDS13662.1"	"ENSP00000330753"	"Q9NSI6"	""	"UPI0000163C12"	"NM_018963.4"	NA	NA	""	""	""	"-:0.4824"	"-:0.4478"	"-:0.562"	NA	"-:0.4385"	"-:0.4811"	"-:0.5194"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAGAGGGGCAGGGGGCGA"	"6d637914-280f-11e6-ac05-1333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4467"	"DSCAM"	1826	"mskcc.org"	"GRCh37"	"21"	41451740	41451740	"+"	"Intron"	"DEL"	"G"	"-"	"-"	"rs3215893"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4420+339delC"	""	""	"ENST00000400454"	""	10	"."	7	2	"."	0	"DSCAM,intron_variant,,ENST00000400454,NM_001271534.1,NM_001389.3;DSCAM,intron_variant,,ENST00000404019,;"	"-"	"ENSG00000171587"	"ENST00000400454"	"Transcript"	"intron_variant"	"-/8552"	"-/6039"	"-/2012"	""	""	"rs3215893"	"1"	NA	-1	"DSCAM"	"HGNC"	3039	"protein_coding"	"YES"	"CCDS42929.1"	"ENSP00000383303"	"O60469"	""	"UPI00000422DF"	"NM_001271534.1,NM_001389.3"	NA	NA	""	"25/32"	""	"-:0.4607"	"-:0.3207"	"-:0.4337"	NA	"-:0.2341"	"-:0.6083"	"-:0.7505"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"6db750ac-280f-11e6-ac05-1333424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"4468"	"DSCAM"	1826	"mskcc.org"	"GRCh37"	"21"	42054547	42054548	"+"	"Intron"	"INS"	"-"	"-"	"AGAA"	"rs148842963"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.508+10185_508+10188dupTTCT"	""	""	"ENST00000400454"	""	8	"."	5	1	"."	0	"DSCAM,intron_variant,,ENST00000400454,NM_001271534.1,NM_001389.3;"	"AGAA"	"ENSG00000171587"	"ENST00000400454"	"Transcript"	"intron_variant"	"-/8552"	"-/6039"	"-/2012"	""	""	"rs148842963"	"1"	NA	-1	"DSCAM"	"HGNC"	3039	"protein_coding"	"YES"	"CCDS42929.1"	"ENSP00000383303"	"O60469"	""	"UPI00000422DF"	"NM_001271534.1,NM_001389.3"	NA	NA	""	"3/32"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7a00f16a-280f-11e6-ac05-1333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4469"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	43146641	43146642	"+"	"IGR"	"INS"	"-"	"-"	"TTG"	"rs150127165"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	28	"."	4	6	"."	0	""	"TTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150127165"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2666"	"TTG:0.77"	"TTG:0.696"	NA	"TTG:0.6895"	"TTG:0.7833"	"TTG:0.7045"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7a43028a-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"4470"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	43753681	43753682	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs11411311"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11411311"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0000"	"A:1"	"A:1"	NA	"A:1"	"A:1"	"A:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7a780fac-280f-11e6-ac05-1333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4471"	"HSF2BP"	11077	"mskcc.org"	"GRCh37"	"21"	45024586	45024587	"+"	"Intron"	"DEL"	"CA"	"CA"	"-"	"rs139438653"	NA	"JHCCPT5"	"JHCCPN5"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.692+9124_692+9125delTG"	""	""	"ENST00000291560"	""	8	"."	3	3	"."	0	"HSF2BP,intron_variant,,ENST00000291560,NM_007031.1;HSF2BP,intron_variant,,ENST00000542962,;"	"-"	"ENSG00000160207"	"ENST00000291560"	"Transcript"	"intron_variant"	"-/1899"	"-/1005"	"-/334"	""	""	"rs139438653"	"1"	NA	-1	"HSF2BP"	"HGNC"	5226	"protein_coding"	"YES"	"CCDS13697.1"	"ENSP00000291560"	"O75031"	"Q6IAT7,B4DX36"	"UPI000012C321"	"NM_007031.1"	NA	NA	""	"7/8"	""	"CA:0.3490"	"-:0.5454"	"-:0.6772"	NA	"-:0.8056"	"-:0.5805"	"-:0.6881"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCAC"	"6eeb833a-280f-11e6-ac05-1333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4472"	"PDXK"	8566	"mskcc.org"	"GRCh37"	"21"	45170617	45170618	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGTGTGTGTGTGCATGTGTGCGTGTGTGCGCGCGTATTGTGTGTGG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.510+204_510+205insTGCATGTGTGCGTGTGTGCGCGCGTATTGTGTGTGGGTGTGTGTGTGTG"	""	""	"ENST00000291565"	""	24	"."	3	6	"."	0	"PDXK,intron_variant,,ENST00000291565,NM_003681.4;PDXK,intron_variant,,ENST00000468090,;PDXK,intron_variant,,ENST00000467908,;PDXK,intron_variant,,ENST00000343528,;PDXK,intron_variant,,ENST00000468392,;PDXK,intron_variant,,ENST00000398078,;PDXK,intron_variant,,ENST00000498040,;PDXK,intron_variant,,ENST00000398085,;PDXK,intron_variant,,ENST00000481512,;PDXK,intron_variant,,ENST00000490666,;PDXK,upstream_gene_variant,,ENST00000461123,;PDXK,downstream_gene_variant,,ENST00000472777,;"	"GTGTGTGTGTGTGTGCATGTGTGCGTGTGTGCGCGCGTATTGTGTGTGG"	"ENSG00000160209"	"ENST00000291565"	"Transcript"	"intron_variant"	"-/7366"	"-/939"	"-/312"	""	""	""	"1"	NA	1	"PDXK"	"HGNC"	8819	"protein_coding"	"YES"	"CCDS13699.1"	"ENSP00000291565"	"O00764"	"G1UI32"	"UPI0000131524"	"NM_003681.4"	NA	NA	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"13"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"7b2abe72-280f-11e6-ac05-1333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"4473"	"PTTG1IP"	754	"mskcc.org"	"GRCh37"	"21"	46280729	46280730	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs61224396"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.277+348dupA"	""	""	"ENST00000330938"	""	15	"."	4	3	"."	0	"PTTG1IP,intron_variant,,ENST00000330938,NM_004339.3;PTTG1IP,intron_variant,,ENST00000397887,;PTTG1IP,intron_variant,,ENST00000445724,NM_001286822.1;PTTG1IP,intron_variant,,ENST00000397886,;PTTG1IP,intron_variant,,ENST00000494690,;PTTG1IP,downstream_gene_variant,,ENST00000480234,;PTTG1IP,intron_variant,,ENST00000474737,;"	"T"	"ENSG00000183255"	"ENST00000330938"	"Transcript"	"intron_variant"	"-/2760"	"-/543"	"-/180"	""	""	"rs61224396"	"1"	NA	-1	"PTTG1IP"	"HGNC"	13524	"protein_coding"	"YES"	"CCDS13715.1"	"ENSP00000328325"	"P53801"	"A8K274"	"UPI00000015F0"	"NM_004339.3"	NA	NA	""	"3/5"	""	"T:0.1907"	"T:0.0174"	"T:0.1354"	NA	"T:0.251"	"T:0.2634"	"T:0.3272"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7b8c12f8-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"4474"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	46780106	46780127	"+"	"IGR"	"DEL"	"CAGCCCCCACCAAAATCTTCCC"	"CAGCCCCCACCAAAATCTTCCC"	"-"	"rs141059351"	NA	"JHCCPT5"	"JHCCPN5"	"CAGCCCCCACCAAAATCTTCCC"	"CAGCCCCCACCAAAATCTTCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141059351"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CAGCCCCCACCAAAATCTTCCC:0.4209"	"-:0.2746"	"-:0.6354"	NA	"-:0.878"	"-:0.5417"	"-:0.681"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCAGCCCCCACCAAAATCTTCCCC"	"6fd98d00-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4475"	"COL18A1"	80781	"mskcc.org"	"GRCh37"	"21"	46880031	46880033	"+"	"Intron"	"DEL"	"AAG"	"AAG"	"-"	"rs10582556"	NA	"JHCCPT5"	"JHCCPN5"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.646+3941_646+3943delAAG"	""	""	"ENST00000355480"	""	13	"."	6	3	"."	0	"COL18A1,intron_variant,,ENST00000359759,;COL18A1,intron_variant,,ENST00000355480,NM_030582.3;COL18A1,intron_variant,,ENST00000400337,NM_130445.2;"	"-"	"ENSG00000182871"	"ENST00000355480"	"Transcript"	"intron_variant"	"-/5924"	"-/4560"	"-/1519"	""	""	"rs10582556"	"1"	NA	1	"COL18A1"	"HGNC"	2195	"protein_coding"	"YES"	"CCDS42972.1"	"ENSP00000347665"	"P39060"	"D3DSM5"	"UPI000016A19D"	"NM_030582.3"	NA	NA	""	"1/40"	""	"-:0.1609"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCAAGG"	"6fdf5474-280f-11e6-ac05-1333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"4476"	"COL6A2"	1292	"mskcc.org"	"GRCh37"	"21"	47518370	47518371	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs562300324"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-28+290dupG"	""	""	"ENST00000300527"	""	7	"."	5	1	"."	0	"COL6A2,intron_variant,,ENST00000300527,NM_001849.3;COL6A2,intron_variant,,ENST00000310645,NM_058175.2;COL6A2,intron_variant,,ENST00000357838,NM_058174.2;COL6A2,upstream_gene_variant,,ENST00000436769,;AP001471.1,upstream_gene_variant,,ENST00000454245,;"	"G"	"ENSG00000142173"	"ENST00000300527"	"Transcript"	"intron_variant"	"-/3461"	"-/3060"	"-/1019"	""	""	"rs562300324"	"1"	NA	1	"COL6A2"	"HGNC"	2212	"protein_coding"	"YES"	"CCDS13728.1"	"ENSP00000300527"	"P12110"	"C9JH44"	"UPI00001AECE0"	"NM_001849.3"	NA	NA	""	"1/27"	""	"-:0.2095"	"G:0.7587"	"G:0.8473"	NA	"G:0.628"	"G:0.8608"	"G:0.8885"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"7bf6f97e-280f-11e6-ac05-1333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4477"	"LSS"	4047	"mskcc.org"	"GRCh37"	"21"	47635302	47635303	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs5844259"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.893-91dupG"	""	""	"ENST00000397728"	""	16	"."	3	7	"."	0	"LSS,intron_variant,,ENST00000397728,NM_002340.5,NM_001145436.1;LSS,intron_variant,,ENST00000457828,NM_001145437.1;LSS,intron_variant,,ENST00000356396,NM_001001438.2;LSS,intron_variant,,ENST00000522411,;LSS,downstream_gene_variant,,ENST00000450351,;AP001469.5,upstream_gene_variant,,ENST00000418029,;LSS,downstream_gene_variant,,ENST00000464357,;"	"C"	"ENSG00000160285"	"ENST00000397728"	"Transcript"	"intron_variant"	"-/4936"	"-/2199"	"-/732"	""	""	"rs5844259"	"1"	NA	-1	"LSS"	"HGNC"	6708	"protein_coding"	"YES"	"CCDS13733.1"	"ENSP00000380837"	"P48449"	""	"UPI000012A14D"	"NM_002340.5,NM_001145436.1"	NA	NA	""	"8/21"	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"7c223ada-280f-11e6-ac05-1333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"4478"	"LSS"	4047	"mskcc.org"	"GRCh37"	"21"	47648730	47648738	"+"	"5'UTR"	"DEL"	"CCCGCCCCT"	"CCCGCCCCT"	"-"	"rs561184613"	NA	"JHCCPT5"	"JHCCPN5"	"CCCGCCCCT"	"CCCGCCCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-79_-71delAGGGGCGGG"	""	""	"ENST00000397728"	"1/22"	41	"."	3	8	"."	0	"LSS,5_prime_UTR_variant,,ENST00000397728,NM_002340.5,NM_001145436.1;LSS,5_prime_UTR_variant,,ENST00000457828,NM_001145437.1;LSS,5_prime_UTR_variant,,ENST00000356396,NM_001001438.2;LSS,upstream_gene_variant,,ENST00000522411,;LSS,upstream_gene_variant,,ENST00000450351,;MCM3AP-AS1,upstream_gene_variant,,ENST00000414659,;MCM3AP-AS1,upstream_gene_variant,,ENST00000455567,;MCM3AP-AS1,upstream_gene_variant,,ENST00000432735,;MCM3AP-AS1,upstream_gene_variant,,ENST00000421927,;MCM3AP-AS1,upstream_gene_variant,,ENST00000444998,;MCM3AP-AS1,upstream_gene_variant,,ENST00000420074,;MCM3AP-AS1,upstream_gene_variant,,ENST00000590829,;MCM3AP-AS1,upstream_gene_variant,,ENST00000588753,;MCM3AP-AS1,upstream_gene_variant,,ENST00000591223,;LSS,upstream_gene_variant,,ENST00000464357,;LSS,upstream_gene_variant,,ENST00000472272,;"	"-"	"ENSG00000160285"	"ENST00000397728"	"Transcript"	"5_prime_UTR_variant"	"1-9/4936"	"-/2199"	"-/732"	""	""	"rs561184613"	"1"	NA	-1	"LSS"	"HGNC"	6708	"protein_coding"	"YES"	"CCDS13733.1"	"ENSP00000380837"	"P48449"	""	"UPI000012A14D"	"NM_002340.5,NM_001145436.1"	NA	NA	"1/22"	""	""	"CCCGCCCCT:0.0521"	"-:0.9047"	"-:0.9553"	NA	"-:0.998"	"-:0.9453"	"-:0.9519"	"-:0.2941"	"-:0.4759"	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCCCGCCCCTC"	"70671058-280f-11e6-ac05-1333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WXS"	FALSE
"4479"	"MCM3AP"	8888	"mskcc.org"	"GRCh37"	"21"	47687812	47687813	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs17182795"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2629-757dupT"	""	""	"ENST00000397708"	""	8	"."	4	1	"."	0	"MCM3AP,intron_variant,,ENST00000397708,;MCM3AP,intron_variant,,ENST00000291688,NM_003906.3;MCM3AP,downstream_gene_variant,,ENST00000479557,;MCM3AP,non_coding_transcript_exon_variant,,ENST00000486937,;MCM3AP,upstream_gene_variant,,ENST00000496607,;"	"A"	"ENSG00000160294"	"ENST00000397708"	"Transcript"	"intron_variant"	"-/6333"	"-/5943"	"-/1980"	""	""	"rs17182795"	"1"	NA	-1	"MCM3AP"	"HGNC"	6946	"protein_coding"	"YES"	"CCDS13734.1"	"ENSP00000380820"	"O60318"	"N0GVG8,B3KWZ4"	"UPI000012ED4A"	""	NA	NA	""	"10/28"	""	"AAAA:0.4103"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"7c35ee68-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4480"	"YBEY"	54059	"mskcc.org"	"GRCh37"	"21"	47707747	47707748	"+"	"Intron"	"DEL"	"AC"	"AC"	"-"	"rs140553103"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.210+713_210+714delCA"	""	""	"ENST00000329319"	""	6	"."	4	1	"."	0	"YBEY,intron_variant,,ENST00000329319,NM_058181.1;YBEY,intron_variant,,ENST00000339195,;YBEY,intron_variant,,ENST00000397691,;YBEY,intron_variant,,ENST00000397701,;YBEY,intron_variant,,ENST00000397694,;YBEY,intron_variant,,ENST00000397692,;MCM3AP,upstream_gene_variant,,ENST00000397708,;MCM3AP,upstream_gene_variant,,ENST00000291688,NM_003906.3;MCM3AP,upstream_gene_variant,,ENST00000426537,;MCM3AP,upstream_gene_variant,,ENST00000495475,;YBEY,intron_variant,,ENST00000492864,;YBEY,intron_variant,,ENST00000468924,;"	"-"	"ENSG00000182362"	"ENST00000329319"	"Transcript"	"intron_variant"	"-/1019"	"-/504"	"-/167"	""	""	"rs140553103"	"1"	NA	1	"YBEY"	"HGNC"	1299	"protein_coding"	"YES"	"CCDS33591.1"	"ENSP00000329614"	"P58557"	""	"UPI00001C2046"	"NM_058181.1"	NA	NA	""	"2/4"	""	"-:0.3622"	"-:0.2678"	"-:0.5043"	NA	"-:0.3264"	"-:0.4274"	"-:0.3589"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAACA"	"707ac1b6-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4481"	"PCNT"	5116	"mskcc.org"	"GRCh37"	"21"	47846014	47846015	"+"	"Intron"	"INS"	"-"	"-"	"CAGAGTCTCGCTGTCTCTACCAGGCTGGAGTGCAGTGGCACAAT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7320+130_7320+131insAGAGTCTCGCTGTCTCTACCAGGCTGGAGTGCAGTGGCACAATC"	""	""	"ENST00000359568"	""	31	"."	4	10	"."	0	"PCNT,intron_variant,,ENST00000359568,NM_006031.5;PCNT,intron_variant,,ENST00000480896,;"	"CAGAGTCTCGCTGTCTCTACCAGGCTGGAGTGCAGTGGCACAAT"	"ENSG00000160299"	"ENST00000359568"	"Transcript"	"intron_variant"	"-/10560"	"-/10011"	"-/3336"	""	""	""	"1"	NA	1	"PCNT"	"HGNC"	16068	"protein_coding"	"YES"	"CCDS33592.1"	"ENSP00000352572"	"O95613"	""	"UPI00001AEB88"	"NM_006031.5"	NA	NA	""	"33/46"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAC"	"7c96cd0a-280f-11e6-ac05-1333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WXS"	FALSE
"4482"	"PCNT"	5116	"mskcc.org"	"GRCh37"	"21"	47864577	47864578	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9840-29_9840-28delCT"	""	""	"ENST00000359568"	""	117	"."	4	41	"."	0	"PCNT,intron_variant,,ENST00000359568,NM_006031.5;PCNT,intron_variant,,ENST00000418394,;PCNT,intron_variant,,ENST00000480896,;PCNT,downstream_gene_variant,,ENST00000465356,;"	"-"	"ENSG00000160299"	"ENST00000359568"	"Transcript"	"intron_variant"	"-/10560"	"-/10011"	"-/3336"	""	""	""	"1"	NA	1	"PCNT"	"HGNC"	16068	"protein_coding"	"YES"	"CCDS33592.1"	"ENSP00000352572"	"O95613"	""	"UPI00001AEB88"	"NM_006031.5"	NA	NA	""	"45/46"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	"0.0004991"	"0.0007284"	"0.0003459"	"0.0003195"	"0.0007719"	"0.0002768"	"0"	"0.0002151"	"1"	"common_variant"	"TTTCT"	"70b6ea1a-280f-11e6-ac05-1333424a729f"	"240"	0.0003418	"29/84848"	"52/104184"	"5/6864"	"3/8672"	"2/6260"	"4/5182"	"12/43360"	"0/560"	"3/13950"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.0341880341880342	"WXS"	FALSE
"4483"	"POTEH"	23784	"mskcc.org"	"GRCh37"	"22"	16266920	16266921	"+"	"Intron"	"INS"	"-"	"-"	"AG"	"rs375488594"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1520+7_1520+8dupCT"	""	""	"ENST00000343518"	""	23	"."	3	3	"."	0	"POTEH,intron_variant,,ENST00000343518,NM_001136213.1;POTEH,intron_variant,,ENST00000452800,;"	"AG"	"ENSG00000198062"	"ENST00000343518"	"Transcript"	"intron_variant"	"-/1928"	"-/1638"	"-/545"	""	""	"rs375488594"	"1"	NA	-1	"POTEH"	"HGNC"	133	"protein_coding"	"YES"	"CCDS46658.1"	"ENSP00000340610"	"Q6S545"	""	"UPI0000E5A425"	"NM_001136213.1"	NA	NA	""	"9/10"	""	"AG:0.0679"	"AG:0.0651"	"AG:0.0764"	NA	"AG:0.003"	"AG:0.1471"	"AG:0.0511"	"AG:0.2643"	"AG:0.3391"	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	"0.349"	"0.486"	"0.3488"	"0.1333"	"0.6055"	"0.6368"	"0.6"	"0.5"	NA	"common_variant"	"ACA"	"705b54de-280f-11e6-ad92-0a33424a729f"	"75"	0.5685	"871/1532"	"6455/18494"	"104/214"	"30/86"	"4/30"	"264/436"	"391/614"	"12/20"	"66/132"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.130434782608696	"WXS"	FALSE
"4484"	"KCNMB3P1"	0	"mskcc.org"	"GRCh37"	"22"	17063122	17063125	"+"	"Intron"	"DEL"	"AAAG"	"AAAG"	"-"	"rs201295474"	NA	"JHCCPT5"	"JHCCPN5"	"AAAG"	"AAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.96+272_96+275delCTTT"	""	""	"ENST00000472972"	""	11	"."	5	3	"."	0	"KCNMB3P1,intron_variant,,ENST00000472972,;KCNMB3P1,intron_variant,,ENST00000493696,;"	"-"	"ENSG00000239435"	"ENST00000472972"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/307"	""	""	""	""	"rs201295474"	"1"	NA	-1	"KCNMB3P1"	"HGNC"	6288	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.1300"	"-:0.003"	"-:0.0836"	NA	"-:0.2103"	"-:0.1352"	"-:0.2464"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAAAAGA"	"64530bd2-280f-11e6-ad92-0a33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"4485"	"AC006548.19"	0	"mskcc.org"	"GRCh37"	"22"	17378403	17378407	"+"	"RNA"	"DEL"	"ATATA"	"ATATA"	"T"	"rs71324546"	NA	"JHCCPT5"	"JHCCPN5"	"ATATA"	"ATATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.69_73delATATAinsT"	""	""	"ENST00000427470"	"1/1"	19	"."	5	11	"."	0	"AC006548.19,non_coding_transcript_exon_variant,,ENST00000427470,;"	"T"	"ENSG00000225480"	"ENST00000427470"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"69-73/102"	""	""	""	""	"rs71324546"	"1"	NA	1	"AC006548.19"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCATATAA"	"6ffebcb0-280f-11e6-ad92-0a33424a729f"	"158"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"4486"	"PRODH"	5625	"mskcc.org"	"GRCh37"	"22"	18909155	18909156	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs35478331"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.930-220_930-219insT"	""	""	"ENST00000357068"	""	7	"."	3	2	"."	0	"PRODH,intron_variant,,ENST00000357068,NM_016335.4;PRODH,intron_variant,,ENST00000420436,;PRODH,intron_variant,,ENST00000334029,NM_001195226.1;PRODH,intron_variant,,ENST00000438924,;PRODH,downstream_gene_variant,,ENST00000450579,;PRODH,downstream_gene_variant,,ENST00000457083,;PRODH,non_coding_transcript_exon_variant,,ENST00000482858,;PRODH,non_coding_transcript_exon_variant,,ENST00000491604,;PRODH,intron_variant,,ENST00000429300,;PRODH,upstream_gene_variant,,ENST00000609229,;PRODH,upstream_gene_variant,,ENST00000313755,;PRODH,downstream_gene_variant,,ENST00000496625,;PRODH,downstream_gene_variant,,ENST00000399694,;PRODH,upstream_gene_variant,,ENST00000446371,;"	"A"	"ENSG00000100033"	"ENST00000357068"	"Transcript"	"intron_variant"	"-/2462"	"-/1803"	"-/600"	""	""	"rs35478331"	"1"	NA	-1	"PRODH"	"HGNC"	9453	"protein_coding"	"YES"	"CCDS13754.1"	"ENSP00000349577"	"O43272"	"E7EQL6,C9JIW4"	"UPI00001AE5E1"	"NM_016335.4"	NA	NA	""	"7/13"	""	"-:0.2809"	"A:0.8616"	"A:0.585"	NA	"A:0.8175"	"A:0.5378"	"A:0.7065"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"70b6f01e-280f-11e6-ad92-0a33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4487"	"MAPK1"	5594	"mskcc.org"	"GRCh37"	"22"	22153011	22153012	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs141027693"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.609+289_609+290insC"	""	""	"ENST00000215832"	""	12	"."	5	2	"."	0	"MAPK1,intron_variant,,ENST00000215832,NM_002745.4;MAPK1,intron_variant,,ENST00000398822,NM_138957.2;MAPK1,intron_variant,,ENST00000544786,;"	"G"	"ENSG00000100030"	"ENST00000215832"	"Transcript"	"intron_variant"	"-/11022"	"-/1083"	"-/360"	""	""	"rs141027693"	"1"	NA	-1	"MAPK1"	"HGNC"	6871	"protein_coding"	"YES"	"CCDS13795.1"	"ENSP00000215832"	"P28482"	"Q1HBJ4,B4DHN0"	"UPI000000104F"	"NM_002745.4"	NA	NA	""	"4/8"	""	"G:0.2196"	"G:0.1634"	"G:0.2853"	NA	"G:0.0962"	"G:0.3996"	"G:0.1912"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"719eb93a-280f-11e6-ad92-0a33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"4488"	"IGLV1-44"	0	"mskcc.org"	"GRCh37"	"22"	22735733	22735736	"+"	"3'Flank"	"DEL"	"AATA"	"AATA"	"TGG"	"rs386819927"	NA	"JHCCPT5"	"JHCCPN5"	"AATA"	"AATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390297"	""	102	"."	18	41	"."	0	"IGLV1-44,downstream_gene_variant,,ENST00000390297,;IGLV5-45,downstream_gene_variant,,ENST00000390296,;"	"TGG"	"ENSG00000211651"	"ENST00000390297"	"Transcript"	"downstream_gene_variant"	"-/466"	"-/352"	"-/117"	""	""	"rs386819927"	"1"	"18"	1	"IGLV1-44"	"HGNC"	5879	"IG_V_gene"	"YES"	""	"ENSP00000374832"	""	""	"UPI0000115F98"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAATAG"	"701379e8-280f-11e6-ad92-0a33424a729f"	"831"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.176470588235294	"WXS"	FALSE
"4489"	"PRAME"	23532	"mskcc.org"	"GRCh37"	"22"	22888662	22888663	"+"	"3'Flank"	"INS"	"-"	"-"	"AC"	"rs200481809"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000543184"	""	10	"."	5	1	"."	0	"PRAME,downstream_gene_variant,,ENST00000543184,NM_206953.1;PRAME,downstream_gene_variant,,ENST00000539862,;PRAME,downstream_gene_variant,,ENST00000398741,NM_206955.1;PRAME,downstream_gene_variant,,ENST00000398743,;PRAME,downstream_gene_variant,,ENST00000405655,NM_206956.1;PRAME,downstream_gene_variant,,ENST00000402697,NM_206954.1,NM_006115.3;PRAME,downstream_gene_variant,,ENST00000424204,;PRAME,downstream_gene_variant,,ENST00000439106,;PRAME,downstream_gene_variant,,ENST00000406503,;PRAME,downstream_gene_variant,,ENST00000420709,;PRAME,downstream_gene_variant,,ENST00000403441,;PRAME,downstream_gene_variant,,ENST00000438888,;PRAME,downstream_gene_variant,,ENST00000485532,;PRAME,downstream_gene_variant,,ENST00000476336,;PRAME,downstream_gene_variant,,ENST00000492657,;PRAME,downstream_gene_variant,,ENST00000442481,;"	"AC"	"ENSG00000185686"	"ENST00000543184"	"Transcript"	"downstream_gene_variant"	"-/2758"	"-/1530"	"-/509"	""	""	"rs200481809"	"1"	"1461"	-1	"PRAME"	"HGNC"	9336	"protein_coding"	"YES"	"CCDS13801.1"	"ENSP00000445675"	"P78395"	"F5H4B1,E7EW99,E7EMH2,B7Z986,B5MD04,B5MCY4"	"UPI0000000DDA"	"NM_206953.1"	NA	NA	""	""	""	"-:0.2202"	"AC:0.795"	"AC:0.8314"	NA	"AC:0.7808"	"AC:0.7425"	"AC:0.7597"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"71d06732-280f-11e6-ad92-0a33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4490"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	23122383	23122385	"+"	"IGR"	"DEL"	"AAG"	"AAG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAGA"	"66a27e2c-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4491"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	23206553	23206554	"+"	"IGR"	"INS"	"-"	"-"	"AGAGAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	3	2	"."	0	""	"AGAGAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"7202d348-280f-11e6-ad92-0a33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"4492"	"IGLC7"	0	"mskcc.org"	"GRCh37"	"22"	23266401	23266401	"+"	"3'Flank"	"DEL"	"T"	"T"	"-"	"rs35754007"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390331"	""	8	"."	4	1	"."	0	"IGLC7,downstream_gene_variant,,ENST00000390331,;IGLJ7,downstream_gene_variant,,ENST00000390330,;IGLC6,downstream_gene_variant,,ENST00000410078,;"	"-"	"ENSG00000211685"	"ENST00000390331"	"Transcript"	"downstream_gene_variant"	"-/438"	"-/321"	"-/106"	""	""	"rs35754007"	"1"	"1198"	1	"IGLC7"	"HGNC"	5861	"IG_C_gene"	"YES"	""	"ENSP00000374859"	""	""	"UPI000059D86A"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTT"	"66f05a16-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4493"	"CES5AP1"	0	"mskcc.org"	"GRCh37"	"22"	23710824	23710824	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35864928"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.662+143delA"	""	""	"ENST00000542510"	""	20	"."	6	5	"."	0	"CES5AP1,intron_variant,,ENST00000422151,;CES5AP1,downstream_gene_variant,,ENST00000415114,;CES5AP1,downstream_gene_variant,,ENST00000431237,;CES5AP1,intron_variant,,ENST00000542510,;CES5AP1,intron_variant,,ENST00000400418,;"	"-"	"ENSG00000215478"	"ENST00000542510"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1016"	""	""	""	""	"rs35864928"	"1"	NA	-1	"CES5AP1"	"HGNC"	38516	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"5/7"	""	"T:0.4407"	"-:0.7443"	"-:0.513"	NA	"-:0.1736"	"-:0.7147"	"-:0.5798"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"6729c238-280f-11e6-ad92-0a33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"4494"	"ZDHHC8P1"	150244	"mskcc.org"	"GRCh37"	"22"	23730594	23730595	"+"	"3'Flank"	"DEL"	"CG"	"CG"	"-"	"rs10583579"	NA	"JHCCPT5"	"JHCCPN5"	"CG"	"CG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000420968"	""	9	"."	5	5	"."	0	"ZDHHC8P1,downstream_gene_variant,,ENST00000255890,;ZDHHC8P1,downstream_gene_variant,,ENST00000433168,;ZDHHC8P1,downstream_gene_variant,,ENST00000420968,;CES5AP1,upstream_gene_variant,,ENST00000415114,;ZDHHC8P1,downstream_gene_variant,,ENST00000456279,;KB-1269D1.8,upstream_gene_variant,,ENST00000512987,;"	"-"	"ENSG00000133519"	"ENST00000420968"	"Transcript"	"downstream_gene_variant"	"-/1736"	""	""	""	""	"rs10583579"	"1"	"2969"	-1	"ZDHHC8P1"	"HGNC"	26461	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"CG:0.3297"	"-:0.6483"	"-:0.7017"	NA	"-:0.9365"	"-:0.5755"	"-:0.501"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCGA"	"6732c388-280f-11e6-ad92-0a33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"4495"	"AP000358.5"	0	"mskcc.org"	"GRCh37"	"22"	25094635	25094636	"+"	"5'Flank"	"INS"	"-"	"-"	"CCTTTTTCCTTTCC"	"rs5844604"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000456260"	""	15	"."	4	5	"."	0	"AP000358.5,upstream_gene_variant,,ENST00000456260,;"	"CCTTTTTCCTTTCC"	"ENSG00000237601"	"ENST00000456260"	"Transcript"	"upstream_gene_variant"	"-/156"	""	""	""	""	"rs5844604"	"1"	"4679"	1	"AP000358.5"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3335"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"72e89cb6-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"4496"	"MYO18B"	84700	"mskcc.org"	"GRCh37"	"22"	26243916	26243921	"+"	"Intron"	"DEL"	"ACACAC"	"-"	"-"	"rs66601907"	NA	"JHCCPT5"	"JHCCPN5"	"ACACAC"	"ACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3775+318_3775+323delCACACA"	""	""	"ENST00000335473"	""	7	"."	5	1	"."	0	"MYO18B,intron_variant,,ENST00000335473,NM_032608.5;MYO18B,intron_variant,,ENST00000407587,;MYO18B,intron_variant,,ENST00000536101,;MYO18B,intron_variant,,ENST00000539302,;MYO18B,intron_variant,,ENST00000418374,;"	"-"	"ENSG00000133454"	"ENST00000335473"	"Transcript"	"intron_variant"	"-/8565"	"-/7704"	"-/2567"	""	""	"rs66601907"	"1"	NA	1	"MYO18B"	"HGNC"	18150	"protein_coding"	"YES"	"CCDS54507.1"	"ENSP00000334563"	""	"Q8N903"	"UPI0000207402"	"NM_032608.5"	NA	NA	""	"20/43"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"21"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATACACACA"	"6828ce9a-280f-11e6-ad92-0a33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4497"	"HPS4"	89781	"mskcc.org"	"GRCh37"	"22"	26847971	26847990	"+"	"3'UTR"	"DEL"	"CACACACACACACACACACA"	"CACACACACACACACACACA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CACACACACACACACACACA"	"CACACACACACACACACACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1209_*1228delTGTGTGTGTGTGTGTGTGTG"	""	""	"ENST00000398145"	"14/14"	18	"."	4	2	"."	0	"HPS4,3_prime_UTR_variant,,ENST00000398145,NM_022081.5;HPS4,3_prime_UTR_variant,,ENST00000398141,;HPS4,downstream_gene_variant,,ENST00000336873,;HPS4,downstream_gene_variant,,ENST00000402105,NM_152841.2;HPS4,intron_variant,,ENST00000493455,;HPS4,intron_variant,,ENST00000491142,;HPS4,intron_variant,,ENST00000519774,;HPS4,downstream_gene_variant,,ENST00000466781,;HPS4,downstream_gene_variant,,ENST00000464362,;HPS4,downstream_gene_variant,,ENST00000439453,;HPS4,downstream_gene_variant,,ENST00000429411,;HPS4,downstream_gene_variant,,ENST00000496385,;HPS4,downstream_gene_variant,,ENST00000485842,;"	"-"	"ENSG00000100099"	"ENST00000398145"	"Transcript"	"3_prime_UTR_variant"	"3953-3972/4497"	"-/2127"	"-/708"	""	""	""	"1"	NA	-1	"HPS4"	"HGNC"	15844	"protein_coding"	"YES"	"CCDS13835.1"	"ENSP00000381213"	"Q9NQG7"	""	"UPI000012CB6F"	"NM_022081.5"	NA	NA	"14/14"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGCACACACACACACACACACAC"	"686e3782-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"4498"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	27414470	27414473	"+"	"IGR"	"DEL"	"CACT"	"CACT"	"-"	"rs134918"	NA	"JHCCPT5"	"JHCCPN5"	"CACT"	"CACT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs134918"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3856"	"-:0.2322"	"-:0.3833"	NA	"-:0.6657"	"-:0.3718"	"-:0.32"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCACTC"	"688f7e24-280f-11e6-ad92-0a33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"4499"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	27638634	27638635	"+"	"IGR"	"INS"	"-"	"-"	"TC"	"rs139915878"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"TC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139915878"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"734cf940-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4500"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	27692851	27692854	"+"	"IGR"	"DEL"	"TCAT"	"TCAT"	"-"	"rs150024730"	NA	"JHCCPT5"	"JHCCPN5"	"TCAT"	"TCAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150024730"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1238"	"-:0.0923"	"-:0.0994"	NA	"-:0.0258"	"-:0.175"	"-:0.2321"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCATT"	"6897b5ee-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4501"	"CTA-929C8.7"	0	"mskcc.org"	"GRCh37"	"22"	27706495	27706496	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs35605295"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.496-2970_496-2969insT"	""	""	"ENST00000454387"	""	6	"."	4	1	"."	0	"CTA-929C8.7,intron_variant,,ENST00000454387,;CTA-929C8.6,upstream_gene_variant,,ENST00000426467,;"	"A"	"ENSG00000223726"	"ENST00000454387"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/578"	""	""	""	""	"rs35605295"	"1"	NA	-1	"CTA-929C8.7"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	"A:0.3760"	"A:0.4924"	"A:0.2882"	NA	"A:0.4177"	"A:0.2793"	"A:0.3374"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"734df69c-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4502"	"MN1"	4330	"mskcc.org"	"GRCh37"	"22"	28202319	28202320	"+"	"5'Flank"	"INS"	"-"	"-"	"ACACACAG"	"rs375786598"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000302326"	""	21	"."	6	7	"."	0	"MN1,upstream_gene_variant,,ENST00000302326,NM_002430.2;"	"ACACACAG"	"ENSG00000169184"	"ENST00000302326"	"Transcript"	"upstream_gene_variant"	"-/7556"	"-/3963"	"-/1320"	""	""	"rs375786598"	"1"	"4833"	-1	"MN1"	"HGNC"	7180	"protein_coding"	"YES"	"CCDS42998.1"	"ENSP00000304956"	"Q10571"	"A5HML1"	"UPI0000207445"	"NM_002430.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"7366fa52-280f-11e6-ad92-0a33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	TRUE
"4503"	"MTMR3"	8897	"mskcc.org"	"GRCh37"	"22"	30366924	30366925	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs34749290"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-84-31dupT"	""	""	"ENST00000401950"	""	111	"."	4	37	"."	0	"MTMR3,intron_variant,,ENST00000333027,NM_153051.2,NM_153050.2;MTMR3,intron_variant,,ENST00000401950,NM_021090.3;MTMR3,intron_variant,,ENST00000323630,;MTMR3,intron_variant,,ENST00000351488,;MTMR3,intron_variant,,ENST00000445401,;MTMR3,upstream_gene_variant,,ENST00000406629,;MTMR3,intron_variant,,ENST00000415511,;MTMR3,intron_variant,,ENST00000495098,;"	"T"	"ENSG00000100330"	"ENST00000401950"	"Transcript"	"intron_variant"	"-/6018"	"-/3597"	"-/1198"	""	""	"rs34749290"	"1"	NA	1	"MTMR3"	"HGNC"	7451	"protein_coding"	"YES"	"CCDS13870.1"	"ENSP00000384651"	"Q13615"	"Q9UPM2,G5E953,C9JLU3"	"UPI0000073EF2"	"NM_021090.3"	NA	NA	""	"2/19"	""	"T:0.1615"	"T:0.3222"	"T:0.1239"	NA	"T:0.0794"	"T:0.0924"	"T:0.1268"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7399dd82-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.036036036036036	"WXS"	FALSE
"4504"	"SEC14L4"	284904	"mskcc.org"	"GRCh37"	"22"	30900035	30900037	"+"	"Intron"	"DEL"	"TAT"	"TAT"	"-"	"rs67048459"	NA	"JHCCPT5"	"JHCCPN5"	"TAT"	"TAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55-298_55-296delATA"	""	""	"ENST00000255858"	""	18	"."	5	2	"."	0	"SEC14L4,intron_variant,,ENST00000392772,;SEC14L4,intron_variant,,ENST00000540456,;SEC14L4,intron_variant,,ENST00000255858,NM_174977.3,NM_001161368.1;SEC14L4,intron_variant,,ENST00000381982,;SEC14L4,intron_variant,,ENST00000320982,;SEC14L4,intron_variant,,ENST00000321205,;"	"-"	"ENSG00000133488"	"ENST00000255858"	"Transcript"	"intron_variant"	"-/2499"	"-/1221"	"-/406"	""	""	"rs67048459"	"1"	NA	-1	"SEC14L4"	"HGNC"	20627	"protein_coding"	"YES"	"CCDS13878.1"	"ENSP00000255858"	"Q9UDX3"	"Q6ICM2,B2RMR2"	"UPI0000135435"	"NM_174977.3,NM_001161368.1"	NA	NA	""	"1/11"	""	"TAT:0.1587"	"-:0.5893"	"-:0.9452"	NA	"-:0.8899"	"-:0.9344"	"-:0.9622"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATATT"	"6974ec52-280f-11e6-ad92-0a33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"4505"	"SELM"	140606	"mskcc.org"	"GRCh37"	"22"	31505060	31505061	"+"	"Intron"	"INS"	"-"	"-"	"TT"	"rs562399300"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-231-1190_-231-1189dupAA"	""	""	"ENST00000402395"	""	8	"."	4	2	"."	0	"SELM,intron_variant,,ENST00000402395,;SMTN,downstream_gene_variant,,ENST00000333137,NM_001207018.1,NM_134269.2;SMTN,downstream_gene_variant,,ENST00000358743,NM_134270.2;SMTN,downstream_gene_variant,,ENST00000347557,NM_001207017.1,NM_006932.4;SMTN,downstream_gene_variant,,ENST00000404574,;SELM,upstream_gene_variant,,ENST00000400299,NM_080430.2;SELM,upstream_gene_variant,,ENST00000465536,;SELM,upstream_gene_variant,,ENST00000491958,;SELM,upstream_gene_variant,,ENST00000460642,;SMTN,downstream_gene_variant,,ENST00000489337,;SMTN,downstream_gene_variant,,ENST00000493335,;SMTN,downstream_gene_variant,,ENST00000504335,;SELM,upstream_gene_variant,,ENST00000490967,;SELM,upstream_gene_variant,,ENST00000465447,;SELM,upstream_gene_variant,,ENST00000495533,;SMTN,downstream_gene_variant,,ENST00000472911,;SELM,upstream_gene_variant,,ENST00000469262,;RP3-412A9.12,upstream_gene_variant,,ENST00000420779,;"	"TT"	"ENSG00000198832"	"ENST00000402395"	"Transcript"	"intron_variant"	"-/1054"	"-/438"	"-/145"	""	""	"rs562399300"	"1"	NA	-1	"SELM"	"Uniprot_gn"	NA	"protein_coding"	"YES"	"CCDS43003.1"	"ENSP00000384564"	"Q8WWX9"	""	"UPI000016788A"	""	NA	NA	""	"1/6"	""	"TT:0.3275"	"TT:0.2602"	"TT:0.4308"	NA	"TT:0.0308"	"TT:0.499"	"TT:0.4744"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"740249e4-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4506"	"YWHAH"	7533	"mskcc.org"	"GRCh37"	"22"	32340566	32340572	"+"	"5'UTR"	"DEL"	"GCCTGCA"	"GCCTGCA"	"-"	"rs71697452"	NA	"JHCCPT5"	"JHCCPN5"	"GCCTGCA"	"GCCTGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-136_-130delGCAGCCT"	""	""	"ENST00000248975"	"1/2"	26	"."	8	10	"."	0	"YWHAH,5_prime_UTR_variant,,ENST00000397492,;YWHAH,5_prime_UTR_variant,,ENST00000248975,NM_003405.3;C22orf24,intron_variant,,ENST00000248984,NM_015372.1;YWHAH,upstream_gene_variant,,ENST00000420430,;C22orf24,intron_variant,,ENST00000486651,;YWHAH,upstream_gene_variant,,ENST00000471374,;YWHAH,upstream_gene_variant,,ENST00000479649,;YWHAH,5_prime_UTR_variant,,ENST00000443669,;"	"-"	"ENSG00000128245"	"ENST00000248975"	"Transcript"	"5_prime_UTR_variant"	"120-126/1825"	"-/741"	"-/246"	""	""	"rs71697452"	"1"	NA	1	"YWHAH"	"HGNC"	12853	"protein_coding"	"YES"	"CCDS13901.1"	"ENSP00000248975"	"Q04917"	"Q9H4N8"	"UPI000013CC64"	"NM_003405.3"	NA	NA	"1/2"	""	""	"-:0.2949"	"-:0.2769"	"-:0.3545"	NA	"-:0.1776"	"-:0.3748"	"-:0.316"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"18"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGCCTGCAG"	"6a27133c-280f-11e6-ad92-0a33424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"4507"	"LARGE"	9215	"mskcc.org"	"GRCh37"	"22"	33780448	33783338	"+"	"Intron"	"DEL"	"TTCTTCCAATGAGGCTCCACAGTATGGGGCACCTGTTTTGGAGACGAATACACCTGGGTTCAAGCCTAGGACCTGCCAGTTACTCGATAGGAGACATGAAACCATCTCTCTGAGACCTCCTTGTTGTATGGAGACTGGTCATACAGGCCTCAAAGGACTGTTGGAAGGAGTAAGTGATGAGGGCAGGGAGAGCCTAGCATTGTATGGAGATGGACAGTGGTGGTGGCCGCACAACAATGTGAATGGACTTCATGCCGCTCAACTGTACGTTTAAACATGGTTAACACGGTAAATTTATGTTATGTATATCTCACCACAATAATGAAAAAAAAGATTCTAGCTCTGCACTGGATACAGAGCACATTCCTTATAGACATTAGGTTCTCTCCTGTGTTTTTCCCCAGAGATATGACCACCTACCTAGGTTGAGCTGATAGGTGGAATTTGTACGATGTATACCATTTATCCGTACACACAAAAGCAGCTCCTCTGTGACTTTATTCTGGGTATGGCTTTGCCAATTTGCTTGATGATTACTGACAAGCCATATGGGCCTGTCTCAGTCTTCCTGATTTCAAGAGGGTCTTTTTGGCCCATCCACGCTGGGTCTTTAAGGTGAGCTCCAGAAGCCTGTGAGCTCATAAGAAACTAATAATAAGAGGTGGTTCCTCTTCCTTGGTATCTTTTCTTGGTTACTTTCTGCGGAAGGGACCTGGGTGAATGGAGGGTTGTTTAGGGAGGGAAACTCCCCTTGTCTATATCCTTTTGTGTTTTTTAAAACGCTAAAACAACAGCCGGGTGTGGTGGTGGTTCATGCCTGTAAACCCAGCACTTTGGGAGGGGAGGTGGGTGGATCACCTGAGGTCAGATTAGCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAAATGCAAAATTAGCTGGGTGTGGTGGTGCATGCCTGTGATCCCAGTTACTTGGGAGGCTGAGGCAGGAGAATCACTCGAACCTGGGAGGTGGAGGTTGCAGTGAGCTGAGATCGTGCCACGGCACTCCAGCCTGGACGACAGCGCAGGACACCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAGCTAAAACAACTAAACATATTATTCAGGCAAAAAATAAATACATCAGTTAAAATCTAAAAAAGAAAAATACACTTAGGCTTAGCTGAATGGCTGAGAAGCAACTATCTACCATCAGGTCAGTTAGAGCAAGCAGAAAAAGCCCTGAGCACGGAACACAAAAAGCCGAGAGAATTTCCCTGCAGGCCACTGCAGTCAATTTGGTGGGTGGAACTGTAGCACCCAGAGGCCCCCAAATCAATCCTCTTCAGGATGCTTAGCTCAGCAGAATGGTCAGTGGGGAAGACTCAAGGCAGTTGAAAAATGATCTTAGTTGAAACCTAGCACCTGCATTTCCAAGACTCTAGGAAAGAAACTGATTTCCCCAAATCACATACAAATGTCAACTCTAAGCCTCTTTACTTATTCCAGTGGCACATATTTGGAGAAAAGATATATTCACCATTTAGTGAAAGGTGTTTGGCCAGGTGGAGTTGGAAAAAAAATAGTATCTATATGGCTATGGGAAGATTGGGTTAATACACAGAGATCTGAACTTGTAAGTCTGAAGGACAAATTAGATCTGCTGCATAGGTCCTTTGTGCTTTGTTAGGGTTTTTGCACATCACGTATCATTTCCCCTAATGCTCCCTGAGATCTCTACAAGATAGATTTTGTTATCCTTATTTTATAGGTGAGGAAACTGAGGGGCTAAATCGGACACTTGTCAATTCACTGTTCAAAAGTAGCTATGTCAGATTCAAACTCAGATCTGCGTGATTCCAAGGCCAGTGCTTCTTCCACTCAACCACATAGACTAGAGCCCCAGCAATGTCACTTTGGAGCCATGGGACTCAGGTCAAGATCTGTCTTTTGTTGACTCTCAGTTTCTATGAGTGTTAAATGAGAAAAATGCTACTTGCCCTGCACAGCTCAGAAAACTGTTGCGCACTCTTGTGGTAGGCTGGTAATGTTTAACCATCAGCTCTCTGGGGGAAAAAAACGGCCGGATTTGTAGCATTTGCCAATTGCCAAGGTGTAAACACTCCCATCATGGCTAATTTCAAGCTAGCAATATCATATCACTGAATATGGAGTTGGGGAGGAAGGTACACAGTGGAAATTGTTCGCCATAAATGTATTATCTGATTGTTTTACTCAGATAAACAATGTTGGGGGGGGTAGAAAGAAAAGAAACATTTACAAAGTTACAAACCAAGAGAATATAGTGATGTAAGTCACTGGTGACTGATTTAAGAAAATATATTCCAGTCAAAAATATGAATGAAGCCGGGCATGGTGGCTCACACCTGTGACCCCAGCACTTTGGGAGGCCAAGGTGGGTGGATCACTTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAAAATTAGCTAGGCATTGTGGTGTGTGCTTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAAGTGCTTGAATCCAGGAGGCGGAGGTTGCAGTGAGCCGAGATTGTGCCACTGTACTCCAGCCTAGGTAACTGAGCAAGACTCCATCTCAAAAAACAAAAAACAAAAAACAAAAAACAAAAAAAGGGCGGGCAGGTGTGGTGGCTCATGCCTGTAATCTCAGCACTTTGGGAGGCCAAGGTGCACAGATCATCTGAAGTCAGGAGTCCAAGACCAGCCCCGCCAACATGGCGAAACCCCACCTCTACTAAAAATACAAAAAAACTAGCCGGGTGTGGTGGTGCACGCCTGTAGTCCCAGCTACTCCTGAGGCTGAGGCACAAGAATAGCTTGAACCCA"	"TTCTTCCAATGAGGCTCCACAGTATGGGGCACCTGTTTTGGAGACGAATACACCTGGGTTCAAGCCTAGGACCTGCCAGTTACTCGATAGGAGACATGAAACCATCTCTCTGAGACCTCCTTGTTGTATGGAGACTGGTCATACAGGCCTCAAAGGACTGTTGGAAGGAGTAAGTGATGAGGGCAGGGAGAGCCTAGCATTGTATGGAGATGGACAGTGGTGGTGGCCGCACAACAATGTGAATGGACTTCATGCCGCTCAACTGTACGTTTAAACATGGTTAACACGGTAAATTTATGTTATGTATATCTCACCACAATAATGAAAAAAAAGATTCTAGCTCTGCACTGGATACAGAGCACATTCCTTATAGACATTAGGTTCTCTCCTGTGTTTTTCCCCAGAGATATGACCACCTACCTAGGTTGAGCTGATAGGTGGAATTTGTACGATGTATACCATTTATCCGTACACACAAAAGCAGCTCCTCTGTGACTTTATTCTGGGTATGGCTTTGCCAATTTGCTTGATGATTACTGACAAGCCATATGGGCCTGTCTCAGTCTTCCTGATTTCAAGAGGGTCTTTTTGGCCCATCCACGCTGGGTCTTTAAGGTGAGCTCCAGAAGCCTGTGAGCTCATAAGAAACTAATAATAAGAGGTGGTTCCTCTTCCTTGGTATCTTTTCTTGGTTACTTTCTGCGGAAGGGACCTGGGTGAATGGAGGGTTGTTTAGGGAGGGAAACTCCCCTTGTCTATATCCTTTTGTGTTTTTTAAAACGCTAAAACAACAGCCGGGTGTGGTGGTGGTTCATGCCTGTAAACCCAGCACTTTGGGAGGGGAGGTGGGTGGATCACCTGAGGTCAGATTAGCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAAATGCAAAATTAGCTGGGTGTGGTGGTGCATGCCTGTGATCCCAGTTACTTGGGAGGCTGAGGCAGGAGAATCACTCGAACCTGGGAGGTGGAGGTTGCAGTGAGCTGAGATCGTGCCACGGCACTCCAGCCTGGACGACAGCGCAGGACACCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAGCTAAAACAACTAAACATATTATTCAGGCAAAAAATAAATACATCAGTTAAAATCTAAAAAAGAAAAATACACTTAGGCTTAGCTGAATGGCTGAGAAGCAACTATCTACCATCAGGTCAGTTAGAGCAAGCAGAAAAAGCCCTGAGCACGGAACACAAAAAGCCGAGAGAATTTCCCTGCAGGCCACTGCAGTCAATTTGGTGGGTGGAACTGTAGCACCCAGAGGCCCCCAAATCAATCCTCTTCAGGATGCTTAGCTCAGCAGAATGGTCAGTGGGGAAGACTCAAGGCAGTTGAAAAATGATCTTAGTTGAAACCTAGCACCTGCATTTCCAAGACTCTAGGAAAGAAACTGATTTCCCCAAATCACATACAAATGTCAACTCTAAGCCTCTTTACTTATTCCAGTGGCACATATTTGGAGAAAAGATATATTCACCATTTAGTGAAAGGTGTTTGGCCAGGTGGAGTTGGAAAAAAAATAGTATCTATATGGCTATGGGAAGATTGGGTTAATACACAGAGATCTGAACTTGTAAGTCTGAAGGACAAATTAGATCTGCTGCATAGGTCCTTTGTGCTTTGTTAGGGTTTTTGCACATCACGTATCATTTCCCCTAATGCTCCCTGAGATCTCTACAAGATAGATTTTGTTATCCTTATTTTATAGGTGAGGAAACTGAGGGGCTAAATCGGACACTTGTCAATTCACTGTTCAAAAGTAGCTATGTCAGATTCAAACTCAGATCTGCGTGATTCCAAGGCCAGTGCTTCTTCCACTCAACCACATAGACTAGAGCCCCAGCAATGTCACTTTGGAGCCATGGGACTCAGGTCAAGATCTGTCTTTTGTTGACTCTCAGTTTCTATGAGTGTTAAATGAGAAAAATGCTACTTGCCCTGCACAGCTCAGAAAACTGTTGCGCACTCTTGTGGTAGGCTGGTAATGTTTAACCATCAGCTCTCTGGGGGAAAAAAACGGCCGGATTTGTAGCATTTGCCAATTGCCAAGGTGTAAACACTCCCATCATGGCTAATTTCAAGCTAGCAATATCATATCACTGAATATGGAGTTGGGGAGGAAGGTACACAGTGGAAATTGTTCGCCATAAATGTATTATCTGATTGTTTTACTCAGATAAACAATGTTGGGGGGGGTAGAAAGAAAAGAAACATTTACAAAGTTACAAACCAAGAGAATATAGTGATGTAAGTCACTGGTGACTGATTTAAGAAAATATATTCCAGTCAAAAATATGAATGAAGCCGGGCATGGTGGCTCACACCTGTGACCCCAGCACTTTGGGAGGCCAAGGTGGGTGGATCACTTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAAAATTAGCTAGGCATTGTGGTGTGTGCTTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAAGTGCTTGAATCCAGGAGGCGGAGGTTGCAGTGAGCCGAGATTGTGCCACTGTACTCCAGCCTAGGTAACTGAGCAAGACTCCATCTCAAAAAACAAAAAACAAAAAACAAAAAACAAAAAAAGGGCGGGCAGGTGTGGTGGCTCATGCCTGTAATCTCAGCACTTTGGGAGGCCAAGGTGCACAGATCATCTGAAGTCAGGAGTCCAAGACCAGCCCCGCCAACATGGCGAAACCCCACCTCTACTAAAAATACAAAAAAACTAGCCGGGTGTGGTGGTGCACGCCTGTAGTCCCAGCTACTCCTGAGGCTGAGGCACAAGAATAGCTTGAACCCA"	"AGAT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTCTTCCAATGAGGCTCCACAGTATGGGGCACCTGTTTTGGAGACGAATACACCTGGGTTCAAGCCTAGGACCTGCCAGTTACTCGATAGGAGACATGAAACCATCTCTCTGAGACCTCCTTGTTGTATGGAGACTGGTCATACAGGCCTCAAAGGACTGTTGGAAGGAGTAAGTGATGAGGGCAGGGAGAGCCTAGCATTGTATGGAGATGGACAGTGGTGGTGGCCGCACAACAATGTGAATGGACTTCATGCCGCTCAACTGTACGTTTAAACATGGTTAACACGGTAAATTTATGTTATGTATATCTCACCACAATAATGAAAAAAAAGATTCTAGCTCTGCACTGGATACAGAGCACATTCCTTATAGACATTAGGTTCTCTCCTGTGTTTTTCCCCAGAGATATGACCACCTACCTAGGTTGAGCTGATAGGTGGAATTTGTACGATGTATACCATTTATCCGTACACACAAAAGCAGCTCCTCTGTGACTTTATTCTGGGTATGGCTTTGCCAATTTGCTTGATGATTACTGACAAGCCATATGGGCCTGTCTCAGTCTTCCTGATTTCAAGAGGGTCTTTTTGGCCCATCCACGCTGGGTCTTTAAGGTGAGCTCCAGAAGCCTGTGAGCTCATAAGAAACTAATAATAAGAGGTGGTTCCTCTTCCTTGGTATCTTTTCTTGGTTACTTTCTGCGGAAGGGACCTGGGTGAATGGAGGGTTGTTTAGGGAGGGAAACTCCCCTTGTCTATATCCTTTTGTGTTTTTTAAAACGCTAAAACAACAGCCGGGTGTGGTGGTGGTTCATGCCTGTAAACCCAGCACTTTGGGAGGGGAGGTGGGTGGATCACCTGAGGTCAGATTAGCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAAATGCAAAATTAGCTGGGTGTGGTGGTGCATGCCTGTGATCCCAGTTACTTGGGAGGCTGAGGCAGGAGAATCACTCGAACCTGGGAGGTGGAGGTTGCAGTGAGCTGAGATCGTGCCACGGCACTCCAGCCTGGACGACAGCGCAGGACACCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAGCTAAAACAACTAAACATATTATTCAGGCAAAAAATAAATACATCAGTTAAAATCTAAAAAAGAAAAATACACTTAGGCTTAGCTGAATGGCTGAGAAGCAACTATCTACCATCAGGTCAGTTAGAGCAAGCAGAAAAAGCCCTGAGCACGGAACACAAAAAGCCGAGAGAATTTCCCTGCAGGCCACTGCAGTCAATTTGGTGGGTGGAACTGTAGCACCCAGAGGCCCCCAAATCAATCCTCTTCAGGATGCTTAGCTCAGCAGAATGGTCAGTGGGGAAGACTCAAGGCAGTTGAAAAATGATCTTAGTTGAAACCTAGCACCTGCATTTCCAAGACTCTAGGAAAGAAACTGATTTCCCCAAATCACATACAAATGTCAACTCTAAGCCTCTTTACTTATTCCAGTGGCACATATTTGGAGAAAAGATATATTCACCATTTAGTGAAAGGTGTTTGGCCAGGTGGAGTTGGAAAAAAAATAGTATCTATATGGCTATGGGAAGATTGGGTTAATACACAGAGATCTGAACTTGTAAGTCTGAAGGACAAATTAGATCTGCTGCATAGGTCCTTTGTGCTTTGTTAGGGTTTTTGCACATCACGTATCATTTCCCCTAATGCTCCCTGAGATCTCTACAAGATAGATTTTGTTATCCTTATTTTATAGGTGAGGAAACTGAGGGGCTAAATCGGACACTTGTCAATTCACTGTTCAAAAGTAGCTATGTCAGATTCAAACTCAGATCTGCGTGATTCCAAGGCCAGTGCTTCTTCCACTCAACCACATAGACTAGAGCCCCAGCAATGTCACTTTGGAGCCATGGGACTCAGGTCAAGATCTGTCTTTTGTTGACTCTCAGTTTCTATGAGTGTTAAATGAGAAAAATGCTACTTGCCCTGCACAGCTCAGAAAACTGTTGCGCACTCTTGTGGTAGGCTGGTAATGTTTAACCATCAGCTCTCTGGGGGAAAAAAACGGCCGGATTTGTAGCATTTGCCAATTGCCAAGGTGTAAACACTCCCATCATGGCTAATTTCAAGCTAGCAATATCATATCACTGAATATGGAGTTGGGGAGGAAGGTACACAGTGGAAATTGTTCGCCATAAATGTATTATCTGATTGTTTTACTCAGATAAACAATGTTGGGGGGGGTAGAAAGAAAAGAAACATTTACAAAGTTACAAACCAAGAGAATATAGTGATGTAAGTCACTGGTGACTGATTTAAGAAAATATATTCCAGTCAAAAATATGAATGAAGCCGGGCATGGTGGCTCACACCTGTGACCCCAGCACTTTGGGAGGCCAAGGTGGGTGGATCACTTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAAAATTAGCTAGGCATTGTGGTGTGTGCTTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAAGTGCTTGAATCCAGGAGGCGGAGGTTGCAGTGAGCCGAGATTGTGCCACTGTACTCCAGCCTAGGTAACTGAGCAAGACTCCATCTCAAAAAACAAAAAACAAAAAACAAAAAACAAAAAAAGGGCGGGCAGGTGTGGTGGCTCATGCCTGTAATCTCAGCACTTTGGGAGGCCAAGGTGCACAGATCATCTGAAGTCAGGAGTCCAAGACCAGCCCCGCCAACATGGCGAAACCCCACCTCTACTAAAAATACAAAAAAACTAGCCGGGTGTGGTGGTGCACGCCTGTAGTCCCAGCTACTCCTGAGGCTGAGGCACAAGAATAGCTTGAACCCA"	"TTCTTCCAATGAGGCTCCACAGTATGGGGCACCTGTTTTGGAGACGAATACACCTGGGTTCAAGCCTAGGACCTGCCAGTTACTCGATAGGAGACATGAAACCATCTCTCTGAGACCTCCTTGTTGTATGGAGACTGGTCATACAGGCCTCAAAGGACTGTTGGAAGGAGTAAGTGATGAGGGCAGGGAGAGCCTAGCATTGTATGGAGATGGACAGTGGTGGTGGCCGCACAACAATGTGAATGGACTTCATGCCGCTCAACTGTACGTTTAAACATGGTTAACACGGTAAATTTATGTTATGTATATCTCACCACAATAATGAAAAAAAAGATTCTAGCTCTGCACTGGATACAGAGCACATTCCTTATAGACATTAGGTTCTCTCCTGTGTTTTTCCCCAGAGATATGACCACCTACCTAGGTTGAGCTGATAGGTGGAATTTGTACGATGTATACCATTTATCCGTACACACAAAAGCAGCTCCTCTGTGACTTTATTCTGGGTATGGCTTTGCCAATTTGCTTGATGATTACTGACAAGCCATATGGGCCTGTCTCAGTCTTCCTGATTTCAAGAGGGTCTTTTTGGCCCATCCACGCTGGGTCTTTAAGGTGAGCTCCAGAAGCCTGTGAGCTCATAAGAAACTAATAATAAGAGGTGGTTCCTCTTCCTTGGTATCTTTTCTTGGTTACTTTCTGCGGAAGGGACCTGGGTGAATGGAGGGTTGTTTAGGGAGGGAAACTCCCCTTGTCTATATCCTTTTGTGTTTTTTAAAACGCTAAAACAACAGCCGGGTGTGGTGGTGGTTCATGCCTGTAAACCCAGCACTTTGGGAGGGGAGGTGGGTGGATCACCTGAGGTCAGATTAGCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAAATGCAAAATTAGCTGGGTGTGGTGGTGCATGCCTGTGATCCCAGTTACTTGGGAGGCTGAGGCAGGAGAATCACTCGAACCTGGGAGGTGGAGGTTGCAGTGAGCTGAGATCGTGCCACGGCACTCCAGCCTGGACGACAGCGCAGGACACCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAGCTAAAACAACTAAACATATTATTCAGGCAAAAAATAAATACATCAGTTAAAATCTAAAAAAGAAAAATACACTTAGGCTTAGCTGAATGGCTGAGAAGCAACTATCTACCATCAGGTCAGTTAGAGCAAGCAGAAAAAGCCCTGAGCACGGAACACAAAAAGCCGAGAGAATTTCCCTGCAGGCCACTGCAGTCAATTTGGTGGGTGGAACTGTAGCACCCAGAGGCCCCCAAATCAATCCTCTTCAGGATGCTTAGCTCAGCAGAATGGTCAGTGGGGAAGACTCAAGGCAGTTGAAAAATGATCTTAGTTGAAACCTAGCACCTGCATTTCCAAGACTCTAGGAAAGAAACTGATTTCCCCAAATCACATACAAATGTCAACTCTAAGCCTCTTTACTTATTCCAGTGGCACATATTTGGAGAAAAGATATATTCACCATTTAGTGAAAGGTGTTTGGCCAGGTGGAGTTGGAAAAAAAATAGTATCTATATGGCTATGGGAAGATTGGGTTAATACACAGAGATCTGAACTTGTAAGTCTGAAGGACAAATTAGATCTGCTGCATAGGTCCTTTGTGCTTTGTTAGGGTTTTTGCACATCACGTATCATTTCCCCTAATGCTCCCTGAGATCTCTACAAGATAGATTTTGTTATCCTTATTTTATAGGTGAGGAAACTGAGGGGCTAAATCGGACACTTGTCAATTCACTGTTCAAAAGTAGCTATGTCAGATTCAAACTCAGATCTGCGTGATTCCAAGGCCAGTGCTTCTTCCACTCAACCACATAGACTAGAGCCCCAGCAATGTCACTTTGGAGCCATGGGACTCAGGTCAAGATCTGTCTTTTGTTGACTCTCAGTTTCTATGAGTGTTAAATGAGAAAAATGCTACTTGCCCTGCACAGCTCAGAAAACTGTTGCGCACTCTTGTGGTAGGCTGGTAATGTTTAACCATCAGCTCTCTGGGGGAAAAAAACGGCCGGATTTGTAGCATTTGCCAATTGCCAAGGTGTAAACACTCCCATCATGGCTAATTTCAAGCTAGCAATATCATATCACTGAATATGGAGTTGGGGAGGAAGGTACACAGTGGAAATTGTTCGCCATAAATGTATTATCTGATTGTTTTACTCAGATAAACAATGTTGGGGGGGGTAGAAAGAAAAGAAACATTTACAAAGTTACAAACCAAGAGAATATAGTGATGTAAGTCACTGGTGACTGATTTAAGAAAATATATTCCAGTCAAAAATATGAATGAAGCCGGGCATGGTGGCTCACACCTGTGACCCCAGCACTTTGGGAGGCCAAGGTGGGTGGATCACTTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAAAATTAGCTAGGCATTGTGGTGTGTGCTTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAAGTGCTTGAATCCAGGAGGCGGAGGTTGCAGTGAGCCGAGATTGTGCCACTGTACTCCAGCCTAGGTAACTGAGCAAGACTCCATCTCAAAAAACAAAAAACAAAAAACAAAAAACAAAAAAAGGGCGGGCAGGTGTGGTGGCTCATGCCTGTAATCTCAGCACTTTGGGAGGCCAAGGTGCACAGATCATCTGAAGTCAGGAGTCCAAGACCAGCCCCGCCAACATGGCGAAACCCCACCTCTACTAAAAATACAAAAAAACTAGCCGGGTGTGGTGGTGCACGCCTGTAGTCCCAGCTACTCCTGAGGCTGAGGCACAAGAATAGCTTGAACCCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.893-3048_893-158delTGGGTTCAAGCTATTCTTGTGCCTCAGCCTCAGGAGTAGCTGGGACTACAGGCGTGCACCACCACACCCGGCTAGTTTTTTTGTATTTTTAGTAGAGGTGGGGTTTCGCCATGTTGGCGGGGCTGGTCTTGGACTCCTGACTTCAGATGATCTGTGCACCTTGGCCTCCCAAAGTGCTGAGATTACAGGCATGAGCCACCACACCTGCCCGCCCTTTTTTTGTTTTTTGTTTTTTGTTTTTTGTTTTTTGAGATGGAGTCTTGCTCAGTTACCTAGGCTGGAGTACAGTGGCACAATCTCGGCTCACTGCAACCTCCGCCTCCTGGATTCAAGCACTTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAAGCACACACCACAATGCCTAGCTAATTTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCAAGTGATCCACCCACCTTGGCCTCCCAAAGTGCTGGGGTCACAGGTGTGAGCCACCATGCCCGGCTTCATTCATATTTTTGACTGGAATATATTTTCTTAAATCAGTCACCAGTGACTTACATCACTATATTCTCTTGGTTTGTAACTTTGTAAATGTTTCTTTTCTTTCTACCCCCCCCAACATTGTTTATCTGAGTAAAACAATCAGATAATACATTTATGGCGAACAATTTCCACTGTGTACCTTCCTCCCCAACTCCATATTCAGTGATATGATATTGCTAGCTTGAAATTAGCCATGATGGGAGTGTTTACACCTTGGCAATTGGCAAATGCTACAAATCCGGCCGTTTTTTTCCCCCAGAGAGCTGATGGTTAAACATTACCAGCCTACCACAAGAGTGCGCAACAGTTTTCTGAGCTGTGCAGGGCAAGTAGCATTTTTCTCATTTAACACTCATAGAAACTGAGAGTCAACAAAAGACAGATCTTGACCTGAGTCCCATGGCTCCAAAGTGACATTGCTGGGGCTCTAGTCTATGTGGTTGAGTGGAAGAAGCACTGGCCTTGGAATCACGCAGATCTGAGTTTGAATCTGACATAGCTACTTTTGAACAGTGAATTGACAAGTGTCCGATTTAGCCCCTCAGTTTCCTCACCTATAAAATAAGGATAACAAAATCTATCTTGTAGAGATCTCAGGGAGCATTAGGGGAAATGATACGTGATGTGCAAAAACCCTAACAAAGCACAAAGGACCTATGCAGCAGATCTAATTTGTCCTTCAGACTTACAAGTTCAGATCTCTGTGTATTAACCCAATCTTCCCATAGCCATATAGATACTATTTTTTTTCCAACTCCACCTGGCCAAACACCTTTCACTAAATGGTGAATATATCTTTTCTCCAAATATGTGCCACTGGAATAAGTAAAGAGGCTTAGAGTTGACATTTGTATGTGATTTGGGGAAATCAGTTTCTTTCCTAGAGTCTTGGAAATGCAGGTGCTAGGTTTCAACTAAGATCATTTTTCAACTGCCTTGAGTCTTCCCCACTGACCATTCTGCTGAGCTAAGCATCCTGAAGAGGATTGATTTGGGGGCCTCTGGGTGCTACAGTTCCACCCACCAAATTGACTGCAGTGGCCTGCAGGGAAATTCTCTCGGCTTTTTGTGTTCCGTGCTCAGGGCTTTTTCTGCTTGCTCTAACTGACCTGATGGTAGATAGTTGCTTCTCAGCCATTCAGCTAAGCCTAAGTGTATTTTTCTTTTTTAGATTTTAACTGATGTATTTATTTTTTGCCTGAATAATATGTTTAGTTGTTTTAGCTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGTGTCCTGCGCTGTCGTCCAGGCTGGAGTGCCGTGGCACGATCTCAGCTCACTGCAACCTCCACCTCCCAGGTTCGAGTGATTCTCCTGCCTCAGCCTCCCAAGTAACTGGGATCACAGGCATGCACCACCACACCCAGCTAATTTTGCATTTTTAGTAGAGATGGGGTTTCACCATGTTGGCCAGGCTAATCTGACCTCAGGTGATCCACCCACCTCCCCTCCCAAAGTGCTGGGTTTACAGGCATGAACCACCACCACACCCGGCTGTTGTTTTAGCGTTTTAAAAAACACAAAAGGATATAGACAAGGGGAGTTTCCCTCCCTAAACAACCCTCCATTCACCCAGGTCCCTTCCGCAGAAAGTAACCAAGAAAAGATACCAAGGAAGAGGAACCACCTCTTATTATTAGTTTCTTATGAGCTCACAGGCTTCTGGAGCTCACCTTAAAGACCCAGCGTGGATGGGCCAAAAAGACCCTCTTGAAATCAGGAAGACTGAGACAGGCCCATATGGCTTGTCAGTAATCATCAAGCAAATTGGCAAAGCCATACCCAGAATAAAGTCACAGAGGAGCTGCTTTTGTGTGTACGGATAAATGGTATACATCGTACAAATTCCACCTATCAGCTCAACCTAGGTAGGTGGTCATATCTCTGGGGAAAAACACAGGAGAGAACCTAATGTCTATAAGGAATGTGCTCTGTATCCAGTGCAGAGCTAGAATCTTTTTTTTCATTATTGTGGTGAGATATACATAACATAAATTTACCGTGTTAACCATGTTTAAACGTACAGTTGAGCGGCATGAAGTCCATTCACATTGTTGTGCGGCCACCACCACTGTCCATCTCCATACAATGCTAGGCTCTCCCTGCCCTCATCACTTACTCCTTCCAACAGTCCTTTGAGGCCTGTATGACCAGTCTCCATACAACAAGGAGGTCTCAGAGAGATGGTTTCATGTCTCCTATCGAGTAACTGGCAGGTCCTAGGCTTGAACCCAGGTGTATTCGTCTCCAAAACAGGTGCCCCATACTGTGGAGCCTCATTGGAAGAAinsATCT"	""	""	"ENST00000354992"	""	43	"."	14	6	"."	0	"LARGE,intron_variant,,ENST00000354992,NM_004737.4;LARGE,intron_variant,,ENST00000337431,;LARGE,intron_variant,,ENST00000397394,NM_133642.3;LARGE,intron_variant,,ENST00000402320,;LARGE,intron_variant,,ENST00000437602,;LARGE,intron_variant,,ENST00000452586,;LARGE,intron_variant,,ENST00000421768,;LARGE,upstream_gene_variant,,ENST00000608642,;LARGE,upstream_gene_variant,,ENST00000610186,;LARGE,upstream_gene_variant,,ENST00000609799,;"	"AGAT"	"ENSG00000133424"	"ENST00000354992"	"Transcript"	"intron_variant"	"-/4409"	"-/2271"	"-/756"	""	""	""	"1"	NA	-1	"LARGE"	"HGNC"	6511	"protein_coding"	"YES"	"CCDS13912.1"	"ENSP00000347088"	"O95461"	"B0QZ02,B0QZ01,B0QZ00,B0QYZ9,B0QYZ8"	"UPI000012E200"	"NM_004737.4"	NA	NA	""	"8/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AATTCTTCCAATGAGGCTCCACAGTATGGGGCACCTGTTTTGGAGACGAATACACCTGGGTTCAAGCCTAGGACCTGCCAGTTACTCGATAGGAGACATGAAACCATCTCTCTGAGACCTCCTTGTTGTATGGAGACTGGTCATACAGGCCTCAAAGGACTGTTGGAAGGAGTAAGTGATGAGGGCAGGGAGAGCCTAGCATTGTATGGAGATGGACAGTGGTGGTGGCCGCACAACAATGTGAATGGACTTCATGCCGCTCAACTGTACGTTTAAACATGGTTAACACGGTAAATTTATGTTATGTATATCTCACCACAATAATGAAAAAAAAGATTCTAGCTCTGCACTGGATACAGAGCACATTCCTTATAGACATTAGGTTCTCTCCTGTGTTTTTCCCCAGAGATATGACCACCTACCTAGGTTGAGCTGATAGGTGGAATTTGTACGATGTATACCATTTATCCGTACACACAAAAGCAGCTCCTCTGTGACTTTATTCTGGGTATGGCTTTGCCAATTTGCTTGATGATTACTGACAAGCCATATGGGCCTGTCTCAGTCTTCCTGATTTCAAGAGGGTCTTTTTGGCCCATCCACGCTGGGTCTTTAAGGTGAGCTCCAGAAGCCTGTGAGCTCATAAGAAACTAATAATAAGAGGTGGTTCCTCTTCCTTGGTATCTTTTCTTGGTTACTTTCTGCGGAAGGGACCTGGGTGAATGGAGGGTTGTTTAGGGAGGGAAACTCCCCTTGTCTATATCCTTTTGTGTTTTTTAAAACGCTAAAACAACAGCCGGGTGTGGTGGTGGTTCATGCCTGTAAACCCAGCACTTTGGGAGGGGAGGTGGGTGGATCACCTGAGGTCAGATTAGCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAAATGCAAAATTAGCTGGGTGTGGTGGTGCATGCCTGTGATCCCAGTTACTTGGGAGGCTGAGGCAGGAGAATCACTCGAACCTGGGAGGTGGAGGTTGCAGTGAGCTGAGATCGTGCCACGGCACTCCAGCCTGGACGACAGCGCAGGACACCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAGCTAAAACAACTAAACATATTATTCAGGCAAAAAATAAATACATCAGTTAAAATCTAAAAAAGAAAAATACACTTAGGCTTAGCTGAATGGCTGAGAAGCAACTATCTACCATCAGGTCAGTTAGAGCAAGCAGAAAAAGCCCTGAGCACGGAACACAAAAAGCCGAGAGAATTTCCCTGCAGGCCACTGCAGTCAATTTGGTGGGTGGAACTGTAGCACCCAGAGGCCCCCAAATCAATCCTCTTCAGGATGCTTAGCTCAGCAGAATGGTCAGTGGGGAAGACTCAAGGCAGTTGAAAAATGATCTTAGTTGAAACCTAGCACCTGCATTTCCAAGACTCTAGGAAAGAAACTGATTTCCCCAAATCACATACAAATGTCAACTCTAAGCCTCTTTACTTATTCCAGTGGCACATATTTGGAGAAAAGATATATTCACCATTTAGTGAAAGGTGTTTGGCCAGGTGGAGTTGGAAAAAAAATAGTATCTATATGGCTATGGGAAGATTGGGTTAATACACAGAGATCTGAACTTGTAAGTCTGAAGGACAAATTAGATCTGCTGCATAGGTCCTTTGTGCTTTGTTAGGGTTTTTGCACATCACGTATCATTTCCCCTAATGCTCCCTGAGATCTCTACAAGATAGATTTTGTTATCCTTATTTTATAGGTGAGGAAACTGAGGGGCTAAATCGGACACTTGTCAATTCACTGTTCAAAAGTAGCTATGTCAGATTCAAACTCAGATCTGCGTGATTCCAAGGCCAGTGCTTCTTCCACTCAACCACATAGACTAGAGCCCCAGCAATGTCACTTTGGAGCCATGGGACTCAGGTCAAGATCTGTCTTTTGTTGACTCTCAGTTTCTATGAGTGTTAAATGAGAAAAATGCTACTTGCCCTGCACAGCTCAGAAAACTGTTGCGCACTCTTGTGGTAGGCTGGTAATGTTTAACCATCAGCTCTCTGGGGGAAAAAAACGGCCGGATTTGTAGCATTTGCCAATTGCCAAGGTGTAAACACTCCCATCATGGCTAATTTCAAGCTAGCAATATCATATCACTGAATATGGAGTTGGGGAGGAAGGTACACAGTGGAAATTGTTCGCCATAAATGTATTATCTGATTGTTTTACTCAGATAAACAATGTTGGGGGGGGTAGAAAGAAAAGAAACATTTACAAAGTTACAAACCAAGAGAATATAGTGATGTAAGTCACTGGTGACTGATTTAAGAAAATATATTCCAGTCAAAAATATGAATGAAGCCGGGCATGGTGGCTCACACCTGTGACCCCAGCACTTTGGGAGGCCAAGGTGGGTGGATCACTTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAAAATTAGCTAGGCATTGTGGTGTGTGCTTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAAGTGCTTGAATCCAGGAGGCGGAGGTTGCAGTGAGCCGAGATTGTGCCACTGTACTCCAGCCTAGGTAACTGAGCAAGACTCCATCTCAAAAAACAAAAAACAAAAAACAAAAAACAAAAAAAGGGCGGGCAGGTGTGGTGGCTCATGCCTGTAATCTCAGCACTTTGGGAGGCCAAGGTGCACAGATCATCTGAAGTCAGGAGTCCAAGACCAGCCCCGCCAACATGGCGAAACCCCACCTCTACTAAAAATACAAAAAAACTAGCCGGGTGTGGTGGTGCACGCCTGTAGTCCCAGCTACTCCTGAGGCTGAGGCACAAGAATAGCTTGAACCCAG"	"701eebd4-280f-11e6-ad92-0a33424a729f"	"832"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325581395348837	"WXS"	FALSE
"4508"	"TOM1"	10043	"mskcc.org"	"GRCh37"	"22"	35727279	35727279	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.899+806delC"	""	""	"ENST00000411850"	""	56	"."	3	17	"."	0	"TOM1,intron_variant,,ENST00000382034,;TOM1,intron_variant,,ENST00000411850,NM_001135732.1;TOM1,intron_variant,,ENST00000449058,NM_005488.2;TOM1,intron_variant,,ENST00000447733,NM_001135729.1;TOM1,intron_variant,,ENST00000425375,NM_001135730.1;TOM1,intron_variant,,ENST00000436462,;TOM1,intron_variant,,ENST00000456128,;MIR3909,upstream_gene_variant,,ENST00000579518,;TOM1,intron_variant,,ENST00000404284,;TOM1,intron_variant,,ENST00000424387,;TOM1,intron_variant,,ENST00000491987,;TOM1,downstream_gene_variant,,ENST00000439512,;"	"-"	"ENSG00000100284"	"ENST00000411850"	"Transcript"	"intron_variant"	"-/2390"	"-/1482"	"-/493"	""	""	""	"1"	NA	1	"TOM1"	"HGNC"	11982	"protein_coding"	"YES"	"CCDS46696.1"	"ENSP00000413697"	"O60784"	"B0QY02"	"UPI000000DB48"	"NM_001135732.1"	NA	NA	""	"8/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCT"	"6abb0524-280f-11e6-ad92-0a33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.0535714285714286	"WXS"	FALSE
"4509"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	35749189	35749191	"+"	"IGR"	"DEL"	"CTT"	"CTT"	"-"	"rs80279855"	NA	"JHCCPT5"	"JHCCPN5"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	5	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs80279855"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1889"	"-:0.1112"	"-:0.2637"	NA	"-:0.3542"	"-:0.161"	"-:0.0992"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCTTC"	"6ac28966-280f-11e6-ad92-0a33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4510"	"APOL4"	80832	"mskcc.org"	"GRCh37"	"22"	36597529	36597530	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs199811246,rs132724"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.44+509_44+510insC"	""	""	"ENST00000352371"	""	23	"."	4	11	"."	0	"APOL4,intron_variant,,ENST00000405511,NM_030643.3;APOL4,intron_variant,,ENST00000404685,NM_145660.1;APOL4,intron_variant,,ENST00000429038,;APOL4,intron_variant,,ENST00000332987,;APOL4,intron_variant,,ENST00000352371,;APOL4,intron_variant,,ENST00000397275,;APOL4,intron_variant,,ENST00000328429,;APOL4,intron_variant,,ENST00000449084,;APOL4,intron_variant,,ENST00000419360,;APOL4,intron_variant,,ENST00000457630,;APOL4,intron_variant,,ENST00000436763,;APOL4,intron_variant,,ENST00000479929,;APOL4,intron_variant,,ENST00000524531,;APOL4,intron_variant,,ENST00000493203,;APOL4,downstream_gene_variant,,ENST00000480236,;"	"G"	"ENSG00000100336"	"ENST00000352371"	"Transcript"	"intron_variant"	"-/1278"	"-/1053"	"-/350"	""	""	"rs199811246,rs132724"	"1"	NA	-1	"APOL4"	"HGNC"	14867	"protein_coding"	"YES"	""	"ENSP00000338260"	""	"J3KNR9"	"UPI000013C6CD"	""	NA	NA	""	"2/5"	""	"-:0.3850"	"G:0.671,G:0.671"	"G:0.4769,G:0.4769"	NA	"G:0.8978,G:0.8978"	"G:0.4135,G:0.4135"	"G:0.5532,G:0.5532"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"74b0336a-280f-11e6-ad92-0a33424a729f"	"220"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"4511"	"IFT27"	11020	"mskcc.org"	"GRCh37"	"22"	37171304	37171305	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs36014359"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.34+413dupT"	""	""	"ENST00000433985"	""	13	"."	4	3	"."	0	"IFT27,intron_variant,,ENST00000340630,NM_006860.4;IFT27,intron_variant,,ENST00000433985,NM_001177701.2;IFT27,intron_variant,,ENST00000417951,;IFT27,intron_variant,,ENST00000430701,;IFT27,intron_variant,,ENST00000476548,;IFT27,intron_variant,,ENST00000471809,;IFT27,intron_variant,,ENST00000465023,;"	"A"	"ENSG00000100360"	"ENST00000433985"	"Transcript"	"intron_variant"	"-/1090"	"-/561"	"-/186"	""	""	"rs36014359"	"1"	NA	-1	"IFT27"	"HGNC"	18626	"protein_coding"	"YES"	"CCDS54523.1"	"ENSP00000393541"	"Q9BW83"	"E9PE51,B1AH56"	"UPI000013314C"	"NM_001177701.2"	NA	NA	""	"1/6"	""	"-:0.2530"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"74d6d790-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"4512"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	37229605	37229606	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs5845304"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	6	2	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5845304"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"74e00ebe-280f-11e6-ad92-0a33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4513"	"TMPRSS6"	164656	"mskcc.org"	"GRCh37"	"22"	37474736	37474750	"+"	"Intron"	"DEL"	"AGAGGAAGAGGAAGG"	"AGAGGAAGAGGAAGG"	"-"	"rs374283372"	NA	"JHCCPT5"	"JHCCPN5"	"AGAGGAAGAGGAAGG"	"AGAGGAAGAGGAAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1224-3430_1224-3416delCCTTCCTCTTCCTCT"	""	""	"ENST00000346753"	""	21	"."	4	4	"."	0	"TMPRSS6,intron_variant,,ENST00000381792,;TMPRSS6,intron_variant,,ENST00000346753,NM_153609.2;TMPRSS6,intron_variant,,ENST00000406856,;TMPRSS6,intron_variant,,ENST00000406725,;TMPRSS6,downstream_gene_variant,,ENST00000429068,;RP5-1170K4.7,upstream_gene_variant,,ENST00000414203,;"	"-"	"ENSG00000187045"	"ENST00000346753"	"Transcript"	"intron_variant"	"-/3194"	"-/2436"	"-/811"	""	""	"rs374283372"	"1"	NA	-1	"TMPRSS6"	"HGNC"	16517	"protein_coding"	"YES"	"CCDS13941.1"	"ENSP00000334962"	"Q8IU80"	"B0QYB6"	"UPI00000747C8"	"NM_153609.2"	NA	NA	""	"10/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAAGAGGAAGAGGAAGGA"	"6b4497a8-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"4514"	"TMPRSS6"	164656	"mskcc.org"	"GRCh37"	"22"	37474907	37474908	"+"	"Intron"	"INS"	"-"	"-"	"GAG"	"rs372598475"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1224-3590_1224-3588dupCTC"	""	""	"ENST00000346753"	""	22	"."	6	4	"."	0	"TMPRSS6,intron_variant,,ENST00000381792,;TMPRSS6,intron_variant,,ENST00000346753,NM_153609.2;TMPRSS6,intron_variant,,ENST00000406856,;TMPRSS6,intron_variant,,ENST00000406725,;TMPRSS6,downstream_gene_variant,,ENST00000429068,;RP5-1170K4.7,upstream_gene_variant,,ENST00000414203,;"	"GAG"	"ENSG00000187045"	"ENST00000346753"	"Transcript"	"intron_variant"	"-/3194"	"-/2436"	"-/811"	""	""	"rs372598475"	"1"	NA	-1	"TMPRSS6"	"HGNC"	16517	"protein_coding"	"YES"	"CCDS13941.1"	"ENSP00000334962"	"Q8IU80"	"B0QYB6"	"UPI00000747C8"	"NM_153609.2"	NA	NA	""	"10/17"	""	"GAG:0.2518"	"GAG:0.4266"	"GAG:0.1513"	NA	"GAG:0.122"	"GAG:0.2117"	"GAG:0.2618"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"74f444ec-280f-11e6-ad92-0a33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4515"	"RP1-151B14.6"	0	"mskcc.org"	"GRCh37"	"22"	37566468	37566469	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs35285339"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.208+3469dupG"	""	""	"ENST00000419128"	""	6	"."	4	2	"."	0	"IL2RB,intron_variant,,ENST00000453962,;IL2RB,intron_variant,,ENST00000445595,;IL2RB,intron_variant,,ENST00000429622,;RP1-151B14.6,intron_variant,,ENST00000419128,;IL2RB,intron_variant,,ENST00000461607,;"	"G"	"ENSG00000235237"	"ENST00000419128"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/630"	""	""	""	""	"rs35285339"	"1"	NA	1	"RP1-151B14.6"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.3928"	"G:0.3767"	"G:0.6599"	NA	"G:0.6359"	"G:0.7823"	"G:0.6718"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"74f55666-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4516"	"CDC42EP1"	11135	"mskcc.org"	"GRCh37"	"22"	37964409	37964429	"+"	"In_Frame_Del"	"DEL"	"CAGCGCCTGCTGCAAACCCCT"	"CAGCGCCTGCTGCAAACCCCT"	"-"	"rs200195385"	NA	"JHCCPT5"	"JHCCPN5"	"CAGCGCCTGCTGCAAACCCCT"	"CAGCGCCTGCTGCAAACCCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.762_782delGCCTGCTGCAAACCCCTCAGC"	"p.Asn258_Ala264del"	"p.N258_A264del"	"ENST00000249014"	"3/3"	97	"."	4	27	"."	0	"CDC42EP1,inframe_deletion,p.Asn258_Ala264del,ENST00000249014,NM_152243.2;CDC42EP1,downstream_gene_variant,,ENST00000430687,;LGALS2,downstream_gene_variant,,ENST00000215886,NM_006498.2;CDC42EP1,downstream_gene_variant,,ENST00000415670,;CDC42EP1,downstream_gene_variant,,ENST00000434728,;LGALS2,downstream_gene_variant,,ENST00000416480,;"	"-"	"ENSG00000128283"	"ENST00000249014"	"Transcript"	"inframe_deletion"	"1178-1198/2181"	"758-778/1176"	"253-260/391"	"PAPAANPS/P"	"cCAGCGCCTGCTGCAAACCCCTca/cca"	"rs200195385,COSM298066"	"1"	NA	1	"CDC42EP1"	"HGNC"	17014	"protein_coding"	"YES"	"CCDS13949.1"	"ENSP00000249014"	"Q00587"	"B0QYC8,B0QYC7,B0QYC6"	"UPI000012F5E7"	"NM_152243.2"	NA	NA	"3/3"	""	"Low_complexity_(Seg):seg,Prints_domain:PR01217,hmmpanther:PTHR15344:SF7,hmmpanther:PTHR15344"	""	""	""	NA	""	""	""	"-:0.2064"	"-:0.5383"	""	"0,1"	NA	""	NA	""	NA	"MODERATE"	"1"	"deletion"	NA	"4"	"0,1"	"1"	"0.4365"	"0.1554"	"0.5126"	"0.215"	"0.547"	"0.5114"	"0.5418"	"0.5328"	NA	"common_variant"	"CCCAGCGCCTGCTGCAAACCCCTC"	"6b77a774-280f-11e6-ad92-0a33424a729f"	"240"	0.462	"36481/78964"	"45047/103204"	"1066/6858"	"4308/8404"	"1383/6432"	"1875/3428"	"20083/39274"	"272/502"	"7494/14066"	"PASS"	"FALSE"	0.0412371134020619	"WXS"	FALSE
"4517"	"TRIOBP"	11078	"mskcc.org"	"GRCh37"	"22"	38120470	38120901	"+"	"In_Frame_Del"	"DEL"	"CCTCCTCTCCCAACAGAACCACCCAACAAGACAGCCCCAGAACATCCTGTGCCCGACGGGACGATCCCAGAGCCTCCTCTCCTAACAGAACCATCCAACAAGAGAACCCCAGAACATCCTGTGCCCTACGGGACAATCCCAGAGCCTCCTCTCCCAGCAGAACCATCCAACAAGAGAACCCCAGAACATCCTGTGCCCAACGGGACGATCCCAGAGCCTCCTCTCCTAACAGAACCACCCAACAAGAGAACCCCAGAACATCCTGTGCCCGACGGGACAATCCCAGAGCCTCCTCTCGCAACAGAACCATCCAGCGAGACAACCCCAGAACATCCTGTGCCCAGCGGGACAATCCCAGAGCCTCCTCTCCTAACAGAACCATCCAACAAGAGAACCTCAGAACATCCTGTACCCGACAGGACAATCCCAGGA"	"CCTCCTCTCCCAACAGAACCACCCAACAAGACAGCCCCAGAACATCCTGTGCCCGACGGGACGATCCCAGAGCCTCCTCTCCTAACAGAACCATCCAACAAGAGAACCCCAGAACATCCTGTGCCCTACGGGACAATCCCAGAGCCTCCTCTCCCAGCAGAACCATCCAACAAGAGAACCCCAGAACATCCTGTGCCCAACGGGACGATCCCAGAGCCTCCTCTCCTAACAGAACCACCCAACAAGAGAACCCCAGAACATCCTGTGCCCGACGGGACAATCCCAGAGCCTCCTCTCGCAACAGAACCATCCAGCGAGACAACCCCAGAACATCCTGTGCCCAGCGGGACAATCCCAGAGCCTCCTCTCCTAACAGAACCATCCAACAAGAGAACCTCAGAACATCCTGTACCCGACAGGACAATCCCAGGA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CCTCCTCTCCCAACAGAACCACCCAACAAGACAGCCCCAGAACATCCTGTGCCCGACGGGACGATCCCAGAGCCTCCTCTCCTAACAGAACCATCCAACAAGAGAACCCCAGAACATCCTGTGCCCTACGGGACAATCCCAGAGCCTCCTCTCCCAGCAGAACCATCCAACAAGAGAACCCCAGAACATCCTGTGCCCAACGGGACGATCCCAGAGCCTCCTCTCCTAACAGAACCACCCAACAAGAGAACCCCAGAACATCCTGTGCCCGACGGGACAATCCCAGAGCCTCCTCTCGCAACAGAACCATCCAGCGAGACAACCCCAGAACATCCTGTGCCCAGCGGGACAATCCCAGAGCCTCCTCTCCTAACAGAACCATCCAACAAGAGAACCTCAGAACATCCTGTACCCGACAGGACAATCCCAGGA"	"CCTCCTCTCCCAACAGAACCACCCAACAAGACAGCCCCAGAACATCCTGTGCCCGACGGGACGATCCCAGAGCCTCCTCTCCTAACAGAACCATCCAACAAGAGAACCCCAGAACATCCTGTGCCCTACGGGACAATCCCAGAGCCTCCTCTCCCAGCAGAACCATCCAACAAGAGAACCCCAGAACATCCTGTGCCCAACGGGACGATCCCAGAGCCTCCTCTCCTAACAGAACCACCCAACAAGAGAACCCCAGAACATCCTGTGCCCGACGGGACAATCCCAGAGCCTCCTCTCGCAACAGAACCATCCAGCGAGACAACCCCAGAACATCCTGTGCCCAGCGGGACAATCCCAGAGCCTCCTCTCCTAACAGAACCATCCAACAAGAGAACCTCAGAACATCCTGTACCCGACAGGACAATCCCAGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1920_2351delCAGAACCACCCAACAAGACAGCCCCAGAACATCCTGTGCCCGACGGGACGATCCCAGAGCCTCCTCTCCTAACAGAACCATCCAACAAGAGAACCCCAGAACATCCTGTGCCCTACGGGACAATCCCAGAGCCTCCTCTCCCAGCAGAACCATCCAACAAGAGAACCCCAGAACATCCTGTGCCCAACGGGACGATCCCAGAGCCTCCTCTCCTAACAGAACCACCCAACAAGAGAACCCCAGAACATCCTGTGCCCGACGGGACAATCCCAGAGCCTCCTCTCGCAACAGAACCATCCAGCGAGACAACCCCAGAACATCCTGTGCCCAGCGGGACAATCCCAGAGCCTCCTCTCCTAACAGAACCATCCAACAAGAGAACCTCAGAACATCCTGTACCCGACAGGACAATCCCAGGACCTCCTCTCCCAA"	"p.Thr642_Arg785del"	"p.T642_R785del"	"ENST00000406386"	"7/24"	202	"."	4	65	"."	0	"TRIOBP,inframe_deletion,p.Thr642_Arg785del,ENST00000406386,NM_001039141.2;NOL12,3_prime_UTR_variant,,ENST00000455236,;TRIOBP,3_prime_UTR_variant,,ENST00000344404,;TRIOBP,non_coding_transcript_exon_variant,,ENST00000492485,;"	"-"	"ENSG00000100106"	"ENST00000406386"	"Transcript"	"inframe_deletion"	"2162-2593/10129"	"1907-2338/7098"	"636-780/2365"	"ASSPNRTTQQDSPRTSCARRDDPRASSPNRTIQQENPRTSCALRDNPRASSPSRTIQQENPRTSCAQRDDPRASSPNRTTQQENPRTSCARRDNPRASSRNRTIQRDNPRTSCAQRDNPRASSPNRTIQQENLRTSCTRQDNPRT/A"	"gCCTCCTCTCCCAACAGAACCACCCAACAAGACAGCCCCAGAACATCCTGTGCCCGACGGGACGATCCCAGAGCCTCCTCTCCTAACAGAACCATCCAACAAGAGAACCCCAGAACATCCTGTGCCCTACGGGACAATCCCAGAGCCTCCTCTCCCAGCAGAACCATCCAACAAGAGAACCCCAGAACATCCTGTGCCCAACGGGACGATCCCAGAGCCTCCTCTCCTAACAGAACCACCCAACAAGAGAACCCCAGAACATCCTGTGCCCGACGGGACAATCCCAGAGCCTCCTCTCGCAACAGAACCATCCAGCGAGACAACCCCAGAACATCCTGTGCCCAGCGGGACAATCCCAGAGCCTCCTCTCCTAACAGAACCATCCAACAAGAGAACCTCAGAACATCCTGTACCCGACAGGACAATCCCAGGAcc/gcc"	""	"1"	NA	1	"TRIOBP"	"HGNC"	17009	"protein_coding"	"YES"	"CCDS43015.1"	"ENSP00000384312"	"Q9H2D6"	"F6WYE2,F6WMF4"	"UPI000067CB88"	"NM_001039141.2"	NA	NA	"7/24"	""	"hmmpanther:PTHR17271,hmmpanther:PTHR17271:SF10"	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODERATE"	"1"	"deletion"	NA	"13"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGCCTCCTCTCCCAACAGAACCACCCAACAAGACAGCCCCAGAACATCCTGTGCCCGACGGGACGATCCCAGAGCCTCCTCTCCTAACAGAACCATCCAACAAGAGAACCCCAGAACATCCTGTGCCCTACGGGACAATCCCAGAGCCTCCTCTCCCAGCAGAACCATCCAACAAGAGAACCCCAGAACATCCTGTGCCCAACGGGACGATCCCAGAGCCTCCTCTCCTAACAGAACCACCCAACAAGAGAACCCCAGAACATCCTGTGCCCGACGGGACAATCCCAGAGCCTCCTCTCGCAACAGAACCATCCAGCGAGACAACCCCAGAACATCCTGTGCCCAGCGGGACAATCCCAGAGCCTCCTCTCCTAACAGAACCATCCAACAAGAGAACCTCAGAACATCCTGTACCCGACAGGACAATCCCAGGAC"	"6bb8989c-280f-11e6-ad92-0a33424a729f"	"134"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0198019801980198	"WXS"	FALSE
"4518"	"SOX10"	6663	"mskcc.org"	"GRCh37"	"22"	38383496	38383497	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs139888"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000396884"	""	26	"."	8	13	"."	0	"POLR2F,intron_variant,,ENST00000427034,;POLR2F,intron_variant,,ENST00000333418,;POLR2F,intron_variant,,ENST00000407936,;POLR2F,intron_variant,,ENST00000405557,;SOX10,upstream_gene_variant,,ENST00000396884,NM_006941.3;SOX10,upstream_gene_variant,,ENST00000360880,;SOX10,upstream_gene_variant,,ENST00000446929,;SOX10,upstream_gene_variant,,ENST00000427770,;MIR4534,upstream_gene_variant,,ENST00000578108,;SOX10,upstream_gene_variant,,ENST00000470555,;POLR2F,3_prime_UTR_variant,,ENST00000443002,;"	"C"	"ENSG00000100146"	"ENST00000396884"	"Transcript"	"upstream_gene_variant"	"-/2879"	"-/1401"	"-/466"	""	""	"rs139888"	"1"	"2952"	-1	"SOX10"	"HGNC"	11190	"protein_coding"	"YES"	"CCDS13964.1"	"ENSP00000380093"	"P56693"	"A6PVD3"	"UPI00001362AA"	"NM_006941.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"752e41ba-280f-11e6-ad92-0a33424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"4519"	"MAFF"	23764	"mskcc.org"	"GRCh37"	"22"	38607534	38607535	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11450220"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-31-2292dupG"	""	""	"ENST00000338483"	""	9	"."	6	5	"."	0	"MAFF,intron_variant,,ENST00000338483,;MAFF,intron_variant,,ENST00000538320,NM_012323.3,NM_001161572.1;MAFF,intron_variant,,ENST00000538999,NM_001161574.1;MAFF,intron_variant,,ENST00000426621,NM_001161573.1;MAFF,intron_variant,,ENST00000417948,;MAFF,intron_variant,,ENST00000441709,;MAFF,upstream_gene_variant,,ENST00000407965,;"	"G"	"ENSG00000185022"	"ENST00000338483"	"Transcript"	"intron_variant"	"-/2490"	"-/495"	"-/164"	""	""	"rs11450220"	"1"	NA	1	"MAFF"	"HGNC"	6780	"protein_coding"	"YES"	"CCDS13968.1"	"ENSP00000345393"	"Q9ULX9"	"B0QY71,B0QY70"	"UPI0000062338"	""	NA	NA	""	"1/2"	""	"-:0.4421"	"G:0.6505"	"G:0.5447"	NA	"G:0.6716"	"G:0.5457"	"G:0.3374"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75531f1c-280f-11e6-ad92-0a33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4520"	"RP3-449O17.1"	0	"mskcc.org"	"GRCh37"	"22"	38793330	38793331	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs138371"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.81+1454dupG"	""	""	"ENST00000457665"	""	11	"."	5	4	"."	0	"CSNK1E,intron_variant,,ENST00000400206,;RP3-449O17.1,non_coding_transcript_exon_variant,,ENST00000381645,;RP3-449O17.1,intron_variant,,ENST00000457665,;RP3-449O17.1,intron_variant,,ENST00000455209,;RP3-449O17.1,intron_variant,,ENST00000428294,;RP3-449O17.1,intron_variant,,ENST00000443658,;RP3-449O17.1,intron_variant,,ENST00000443042,;RP3-449O17.1,intron_variant,,ENST00000407491,;RP3-449O17.1,intron_variant,,ENST00000454577,;"	"C"	"ENSG00000244627"	"ENST00000457665"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/974"	""	""	""	""	"rs138371"	"1"	NA	-1	"RP3-449O17.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"7560c8e2-280f-11e6-ad92-0a33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"4521"	"APOBEC3H"	164668	"mskcc.org"	"GRCh37"	"22"	39493934	39493935	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs139278"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-8+587dupT"	""	""	"ENST00000401756"	""	6	"."	4	1	"."	0	"APOBEC3H,intron_variant,,ENST00000442487,NM_181773.3;APOBEC3H,intron_variant,,ENST00000348946,NM_001166002.1;APOBEC3H,intron_variant,,ENST00000401756,NM_001166003.1;APOBEC3H,intron_variant,,ENST00000421988,NM_001166004.1;APOBEC3H,intron_variant,,ENST00000474235,;"	"T"	"ENSG00000100298"	"ENST00000401756"	"Transcript"	"intron_variant"	"-/1023"	"-/603"	"-/200"	""	""	"rs139278"	"1"	NA	1	"APOBEC3H"	"HGNC"	24100	"protein_coding"	"YES"	"CCDS54530.1"	"ENSP00000385741"	"Q6NTF7"	""	"UPI00002077A2"	"NM_001166003.1"	NA	NA	""	"1/5"	""	"T:0.3918"	"T:0.4735"	"T:0.317"	NA	"T:0.3204"	"T:0.3757"	"T:0.4243"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"757530de-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4522"	"RP3-333H23.8"	0	"mskcc.org"	"GRCh37"	"22"	39693117	39693117	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"rs470077"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000434516"	""	9	"."	5	3	"."	0	"RP3-333H23.8,downstream_gene_variant,,ENST00000434516,;"	"-"	"ENSG00000224794"	"ENST00000434516"	"Transcript"	"downstream_gene_variant"	"-/1778"	""	""	""	""	"rs470077"	"1"	"1549"	1	"RP3-333H23.8"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.1623"	"-:0.7315"	"-:0.8674"	NA	"-:0.997"	"-:0.8211"	"-:0.8129"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCC"	"6c869116-280f-11e6-ad92-0a33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"4523"	"PRR5-ARHGAP8"	553158	"mskcc.org"	"GRCh37"	"22"	45212045	45212046	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs470063"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1016+1407_1016+1408insAT"	""	""	"ENST00000352766"	""	8	"."	5	2	"."	0	"PRR5-ARHGAP8,intron_variant,,ENST00000352766,;ARHGAP8,intron_variant,,ENST00000517296,;PRR5-ARHGAP8,intron_variant,,ENST00000361473,;ARHGAP8,intron_variant,,ENST00000389773,NM_181334.4;ARHGAP8,intron_variant,,ENST00000389774,NM_001017526.1;PRR5-ARHGAP8,intron_variant,,ENST00000515632,;ARHGAP8,intron_variant,,ENST00000356099,NM_181335.2;ARHGAP8,intron_variant,,ENST00000336963,NM_001198726.1;ARHGAP8,downstream_gene_variant,,ENST00000412433,;ARHGAP8,intron_variant,,ENST00000460809,;ARHGAP8,intron_variant,,ENST00000389772,;ARHGAP8,intron_variant,,ENST00000447333,;ARHGAP8,intron_variant,,ENST00000498310,;"	"AT"	"ENSG00000248405"	"ENST00000352766"	"Transcript"	"intron_variant"	"-/2043"	"-/1932"	"-/643"	""	""	"rs470063"	"1"	NA	1	"PRR5-ARHGAP8"	"HGNC"	34512	"protein_coding"	"YES"	""	"ENSP00000262731"	""	"B1AHC4,Q52M44"	"UPI000002B27B"	""	NA	NA	""	"10/16"	""	"-:0.3054"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"76e72206-280f-11e6-ad92-0a33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4524"	"FBLN1"	2192	"mskcc.org"	"GRCh37"	"22"	45981911	45981912	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35911989"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1972+8925dupT"	""	""	"ENST00000327858"	""	7	"."	4	3	"."	0	"FBLN1,intron_variant,,ENST00000348697,;FBLN1,intron_variant,,ENST00000327858,NM_006486.2;"	"T"	"ENSG00000077942"	"ENST00000327858"	"Transcript"	"intron_variant"	"-/2896"	"-/2112"	"-/703"	""	""	"rs35911989"	"1"	NA	1	"FBLN1"	"HGNC"	3600	"protein_coding"	"YES"	"CCDS14067.1"	"ENSP00000331544"	"P23142"	"B1AHM7,B1AHM6,B1AHM5"	"UPI00001AE84C"	"NM_006486.2"	NA	NA	""	"16/16"	""	"-:0.2754"	"T:0.8275"	"T:0.8285"	NA	"T:0.6786"	"T:0.5755"	"T:0.7127"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"771df042-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4525"	"TBC1D22A"	25771	"mskcc.org"	"GRCh37"	"22"	47307828	47307829	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs34153333"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.901-142_901-141insC"	""	""	"ENST00000337137"	""	82	"."	15	10	"."	0	"TBC1D22A,intron_variant,,ENST00000337137,NM_014346.2,NM_001284304.1;TBC1D22A,intron_variant,,ENST00000406733,NM_001284305.1;TBC1D22A,intron_variant,,ENST00000407381,;TBC1D22A,intron_variant,,ENST00000355704,NM_001284303.1;TBC1D22A,intron_variant,,ENST00000380995,;TBC1D22A,intron_variant,,ENST00000441162,;TBC1D22A,intron_variant,,ENST00000394449,;"	"C"	"ENSG00000054611"	"ENST00000337137"	"Transcript"	"intron_variant"	"-/3787"	"-/1554"	"-/517"	""	""	"rs34153333"	"1"	NA	1	"TBC1D22A"	"HGNC"	1309	"protein_coding"	"YES"	"CCDS14078.1"	"ENSP00000336724"	"Q8WUA7"	"B9A6M3,B0QYI3"	"UPI0000128722"	"NM_014346.2,NM_001284304.1"	NA	NA	""	"7/12"	""	"-:0.2401"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7767e72e-280f-11e6-ad92-0a33424a729f"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182926829268293	"WXS"	FALSE
"4526"	"TBC1D22A"	25771	"mskcc.org"	"GRCh37"	"22"	47532217	47532249	"+"	"Intron"	"DEL"	"AGGCTGTGGACCCAGTTCCTTGGAGCCAACCCT"	"AGGCTGTGGACCCAGTTCCTTGGAGCCAACCCT"	"GGACCAGGAGGTGA"	"rs386822126"	NA	"JHCCPT5"	"JHCCPN5"	"AGGCTGTGGACCCAGTTCCTTGGAGCCAACCCT"	"AGGCTGTGGACCCAGTTCCTTGGAGCCAACCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1425+24718_1425+24750delAGGCTGTGGACCCAGTTCCTTGGAGCCAACCCTinsGGACCAGGAGGTGA"	""	""	"ENST00000337137"	""	7	"."	4	1	"."	0	"TBC1D22A,intron_variant,,ENST00000337137,NM_014346.2,NM_001284304.1;TBC1D22A,intron_variant,,ENST00000406733,NM_001284305.1;TBC1D22A,intron_variant,,ENST00000407381,;TBC1D22A,intron_variant,,ENST00000355704,NM_001284303.1;TBC1D22A,intron_variant,,ENST00000441162,;TBC1D22A,intron_variant,,ENST00000394449,;"	"GGACCAGGAGGTGA"	"ENSG00000054611"	"ENST00000337137"	"Transcript"	"intron_variant"	"-/3787"	"-/1554"	"-/517"	""	""	"rs386822126"	"1"	NA	1	"TBC1D22A"	"HGNC"	1309	"protein_coding"	"YES"	"CCDS14078.1"	"ENSP00000336724"	"Q8WUA7"	"B9A6M3,B0QYI3"	"UPI0000128722"	"NM_014346.2,NM_001284304.1"	NA	NA	""	"12/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAGGCTGTGGACCCAGTTCCTTGGAGCCAACCCTG"	"704f8ec4-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4527"	"FAM19A5"	25817	"mskcc.org"	"GRCh37"	"22"	49225933	49225934	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs111671212"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.391-20634dupC"	""	""	"ENST00000336769"	""	9	"."	6	3	"."	0	"FAM19A5,intron_variant,,ENST00000336769,;"	"C"	"ENSG00000219438"	"ENST00000336769"	"Transcript"	"intron_variant"	"-/546"	"-/545"	"-/181"	""	""	"rs111671212"	"1"	NA	1	"FAM19A5"	"HGNC"	21592	"protein_coding"	""	""	"ENSP00000336812"	""	"B1B1J6"	"UPI0001574EC2"	""	NA	NA	""	"3/3"	""	"C:0.2015"	"C:0.2163"	"C:0.1859"	NA	"C:0.13"	"C:0.2207"	"C:0.2464"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"77953ab2-280f-11e6-ad92-0a33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4528"	"FAM19A5"	25817	"mskcc.org"	"GRCh37"	"22"	49233343	49233344	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs35321988"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.391-13227_391-13226delAT"	""	""	"ENST00000336769"	""	7	"."	4	1	"."	0	"FAM19A5,intron_variant,,ENST00000336769,;"	"-"	"ENSG00000219438"	"ENST00000336769"	"Transcript"	"intron_variant"	"-/546"	"-/545"	"-/181"	""	""	"rs35321988"	"1"	NA	1	"FAM19A5"	"HGNC"	21592	"protein_coding"	""	""	"ENSP00000336812"	""	"B1B1J6"	"UPI0001574EC2"	""	NA	NA	""	"3/3"	""	"-:0.4982"	"-:0.2821"	"-:0.5922"	NA	"-:0.7242"	"-:0.4135"	"-:0.5777"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATG"	"6ee7acc4-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4529"	"ENSR00000620031"	0	"mskcc.org"	"GRCh37"	"22"	49548625	49548626	"+"	"IGR"	"INS"	"-"	"TGCACC"	"TGCACC"	"rs144220477"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000620031"	""	6	"."	5	1	"."	0	""	"TGCACC"	""	"ENSR00000620031"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs144220477"	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1625"	"TGCACC:0.7057"	"TGCACC:0.8631"	NA	"TGCACC:0.9276"	"TGCACC:0.8469"	"TGCACC:0.8947"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"779e2f00-280f-11e6-ad92-0a33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4530"	"C22orf34"	0	"mskcc.org"	"GRCh37"	"22"	50022717	50022749	"+"	"Intron"	"DEL"	"CACAGAGCAAGATGATGGGCAGCGGCTGGAGGT"	"CACAGAGCAAGATGATGGGCAGCGGCTGGAGGT"	"-"	"rs545782772"	NA	"JHCCPT5"	"JHCCPN5"	"CACAGAGCAAGATGATGGGCAGCGGCTGGAGGT"	"CACAGAGCAAGATGATGGGCAGCGGCTGGAGGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.56-4165_56-4133delACCTCCAGCCGCTGCCCATCATCTTGCTCTGTG"	""	""	"ENST00000400023"	""	6	"."	4	5	"."	0	"C22orf34,intron_variant,,ENST00000444628,;C22orf34,intron_variant,,ENST00000405854,;C22orf34,intron_variant,,ENST00000400023,;C22orf34,intron_variant,,ENST00000414287,;C22orf34,intron_variant,,ENST00000416411,;C22orf34,upstream_gene_variant,,ENST00000343999,;"	"-"	"ENSG00000188511"	"ENST00000400023"	"Transcript"	"intron_variant"	"-/1469"	"-/552"	"-/183"	""	""	"rs545782772"	"1"	NA	-1	"C22orf34"	"HGNC"	28010	"protein_coding"	"YES"	""	"ENSP00000382900"	"Q6ZV56"	""	"UPI00001984F9"	""	NA	NA	""	"1/3"	""	"-:0.0597"	"-:0.1846"	"-:0.036"	NA	"-:0"	"-:0.0189"	"-:0.0112"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCACAGAGCAAGATGATGGGCAGCGGCTGGAGGTC"	"6efdc1da-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4531"	"MOV10L1"	54456	"mskcc.org"	"GRCh37"	"22"	50552341	50552341	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs374724059"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.884+124delC"	""	""	"ENST00000262794"	""	74	"."	3	37	"."	0	"MOV10L1,intron_variant,,ENST00000262794,NM_018995.2;MOV10L1,intron_variant,,ENST00000540615,NM_001164105.1;MOV10L1,intron_variant,,ENST00000545383,;MOV10L1,intron_variant,,ENST00000395858,NM_001164104.1;MOV10L1,intron_variant,,ENST00000395843,;MOV10L1,upstream_gene_variant,,ENST00000434497,;"	"-"	"ENSG00000073146"	"ENST00000262794"	"Transcript"	"intron_variant"	"-/3960"	"-/3636"	"-/1211"	""	""	"rs374724059"	"1"	NA	1	"MOV10L1"	"HGNC"	7201	"protein_coding"	"YES"	"CCDS14084.1"	"ENSP00000262794"	"Q9BXT6"	""	"UPI00000421FB"	"NM_018995.2"	NA	NA	""	"6/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCT"	"6f286264-280f-11e6-ad92-0a33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0405405405405405	"WXS"	FALSE
"4532"	"SELO"	83642	"mskcc.org"	"GRCh37"	"22"	50645321	50645322	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs58610841"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.758+379dupG"	""	""	"ENST00000380903"	""	7	"."	4	5	"."	0	"SELO,intron_variant,,ENST00000380903,NM_031454.1;RP3-402G11.28,downstream_gene_variant,,ENST00000608016,;RP3-402G11.27,upstream_gene_variant,,ENST00000610050,;SELO,intron_variant,,ENST00000492092,;"	"G"	"ENSG00000073169"	"ENST00000380903"	"Transcript"	"intron_variant"	"-/2315"	"-/2010"	"-/669"	""	""	"rs58610841"	"1"	NA	1	"SELO"	"Uniprot_gn"	NA	"protein_coding"	"YES"	"CCDS43034.1"	"ENSP00000370288"	"Q9BVL4"	""	"UPI00001B2972"	"NM_031454.1"	NA	NA	""	"2/8"	""	"G:0.3814"	"G:0.4319"	"G:0.4078"	NA	"G:0.3095"	"G:0.3956"	"G:0.3538"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"78006e7c-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4533"	"TUBGCP6"	85378	"mskcc.org"	"GRCh37"	"22"	50664017	50664046	"+"	"Intron"	"DEL"	"CACCCACCCTTCATCTCAACTCCCCGTTGA"	"CACCCACCCTTCATCTCAACTCCCCGTTGA"	"-"	"rs149926025"	NA	"JHCCPT5"	"JHCCPN5"	"CACCCACCCTTCATCTCAACTCCCCGTTGA"	"CACCCACCCTTCATCTCAACTCCCCGTTGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1983+177_1983+206delTCAACGGGGAGTTGAGATGAAGGGTGGGTG"	""	""	"ENST00000248846"	""	12	"."	4	6	"."	0	"TUBGCP6,intron_variant,,ENST00000439308,NM_020461.3;TUBGCP6,intron_variant,,ENST00000248846,;TUBGCP6,downstream_gene_variant,,ENST00000434349,;TUBGCP6,intron_variant,,ENST00000491449,;TUBGCP6,intron_variant,,ENST00000473946,;TUBGCP6,upstream_gene_variant,,ENST00000489511,;TUBGCP6,intron_variant,,ENST00000498611,;"	"-"	"ENSG00000128159"	"ENST00000248846"	"Transcript"	"intron_variant"	"-/5612"	"-/5460"	"-/1819"	""	""	"rs149926025"	"1"	NA	-1	"TUBGCP6"	"HGNC"	18127	"protein_coding"	"YES"	"CCDS14087.1"	"ENSP00000248846"	"Q96RT7"	""	"UPI000013CC55"	""	NA	NA	""	"10/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGCACCCACCCTTCATCTCAACTCCCCGTTGAC"	"6f66ec0a-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4534"	"PPP6R2"	9701	"mskcc.org"	"GRCh37"	"22"	50878892	50878895	"+"	"Intron"	"DEL"	"GTGA"	"GTGA"	"-"	"rs56910115"	NA	"JHCCPT5"	"JHCCPN5"	"GTGA"	"GTGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2297-355_2297-352delGTGA"	""	""	"ENST00000395741"	""	6	"."	4	3	"."	0	"PPP6R2,intron_variant,,ENST00000359139,NM_014678.4,NM_001242900.1,NM_001242899.1,NM_001242898.1;PPP6R2,intron_variant,,ENST00000216061,;PPP6R2,intron_variant,,ENST00000395741,;PPP6R2,intron_variant,,ENST00000395744,;PPP6R2,intron_variant,,ENST00000401672,;PPP6R2,intron_variant,,ENST00000427222,;SBF1,downstream_gene_variant,,ENST00000380817,NM_002972.2;PPP6R2,intron_variant,,ENST00000473283,;PPP6R2,upstream_gene_variant,,ENST00000470046,;"	"-"	"ENSG00000100239"	"ENST00000395741"	"Transcript"	"intron_variant"	"-/3304"	"-/2802"	"-/933"	""	""	"rs56910115"	"1"	NA	1	"PPP6R2"	"HGNC"	19253	"protein_coding"	"YES"	"CCDS56235.1"	"ENSP00000379090"	"O75170"	""	"UPI0000453B02"	""	NA	NA	""	"20/22"	""	"-:0.1957"	"-:0.1074"	"-:0.2579"	NA	"-:0.1478"	"-:0.2962"	"-:0.2168"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGTGAG"	"6f80d2dc-280f-11e6-ad92-0a33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4535"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	109358	109366	"+"	"IGR"	"DEL"	"GAAGAAGAA"	"GAAGAAGAA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GAAGAAGAA"	"GAAGAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAGAAGAAG"	"6436c300-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4536"	"AC026188.1"	0	"mskcc.org"	"GRCh37"	"3"	3326506	3326541	"+"	"Intron"	"DEL"	"TTTCCTCCTTCTTCTTCTTTCTTCTTCTTCTTCATC"	"TTTCCTCCTTCTTCTTCTTTCTTCTTCTTCTTCATC"	"CTCCTTCTTCTTCT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTCCTCCTTCTTCTTCTTTCTTCTTCTTCTTCATC"	"TTTCCTCCTTCTTCTTCTTTCTTCTTCTTCTTCATC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.340-18719_340-18684delGATGAAGAAGAAGAAGAAAGAAGAAGAAGGAGGAAAinsAGAAGAAGAAGGAG"	""	""	"ENST00000451031"	""	16	"."	4	10	"."	0	"AC026188.1,intron_variant,,ENST00000451031,;AC026188.1,intron_variant,,ENST00000420000,;"	"CTCCTTCTTCTTCT"	"ENSG00000223727"	"ENST00000451031"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/610"	""	""	""	""	""	"1"	NA	-1	"AC026188.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTCCTCCTTCTTCTTCTTTCTTCTTCTTCTTCATCT"	"81382516-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4537"	"AC026188.1"	0	"mskcc.org"	"GRCh37"	"3"	3326631	3326632	"+"	"Intron"	"INS"	"-"	"-"	"TCCTCTTCCTCC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.340-18810_340-18809insGGAGGAAGAGGA"	""	""	"ENST00000451031"	""	24	"."	5	15	"."	0	"AC026188.1,intron_variant,,ENST00000451031,;AC026188.1,intron_variant,,ENST00000420000,;"	"TCCTCTTCCTCC"	"ENSG00000223727"	"ENST00000451031"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/610"	""	""	""	""	""	"1"	NA	-1	"AC026188.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"81d2c6de-280f-11e6-8b65-0333424a729f"	"266"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WXS"	FALSE
"4538"	"AC026188.1"	0	"mskcc.org"	"GRCh37"	"3"	3326879	3326880	"+"	"Intron"	"INS"	"-"	"GCA"	"GCA"	"rs143752153"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.340-19060_340-19058dupTGC"	""	""	"ENST00000451031"	""	9	"."	7	2	"."	0	"AC026188.1,intron_variant,,ENST00000451031,;AC026188.1,intron_variant,,ENST00000420000,;"	"GCA"	"ENSG00000223727"	"ENST00000451031"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/610"	""	""	""	""	"rs143752153"	"1"	NA	-1	"AC026188.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"3/5"	""	"GCA:0.2378"	"GCA:0.4501"	"GCA:0.1816"	NA	"GCA:0.0079"	"GCA:0.2555"	"GCA:0.2096"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"81d38132-280f-11e6-8b65-0333424a729f"	"400"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	FALSE
"4539"	"SUMF1"	285362	"mskcc.org"	"GRCh37"	"3"	3805342	3805342	"+"	"Intron"	"DEL"	"A"	"-"	"-"	"rs5846287"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.696+14067delT"	""	""	"ENST00000470751"	""	6	"."	5	1	"."	0	"SUMF1,intron_variant,,ENST00000470751,;"	"-"	"ENSG00000144455"	"ENST00000470751"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2344"	""	""	""	""	"rs5846287"	"1"	NA	-1	"SUMF1"	"HGNC"	20376	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"5/5"	""	"A:0.2244"	"-:0.6392"	"-:0.8329"	NA	"-:0.7817"	"-:0.9443"	"-:0.7393"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTAA"	"64b3cb16-280f-11e6-8b65-0333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4540"	"ITPR1"	3708	"mskcc.org"	"GRCh37"	"3"	4681482	4681482	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs11295931"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.366+328delC"	""	""	"ENST00000302640"	""	6	"."	4	3	"."	0	"ITPR1,intron_variant,,ENST00000302640,NM_001168272.1;ITPR1,intron_variant,,ENST00000354582,;ITPR1,intron_variant,,ENST00000423119,NM_001099952.2;ITPR1,intron_variant,,ENST00000357086,;ITPR1,intron_variant,,ENST00000456211,NM_002222.5;ITPR1,intron_variant,,ENST00000443694,;ITPR1,intron_variant,,ENST00000544951,;ITPR1,intron_variant,,ENST00000477577,;ITPR1,downstream_gene_variant,,ENST00000491868,;ITPR1,intron_variant,,ENST00000467056,;"	"-"	"ENSG00000150995"	"ENST00000302640"	"Transcript"	"intron_variant"	"-/10197"	"-/8232"	"-/2743"	""	""	"rs11295931"	"1"	NA	1	"ITPR1"	"HGNC"	6180	"protein_coding"	"YES"	"CCDS54551.1"	"ENSP00000306253"	"Q14643"	""	"UPI0000E5A461"	"NM_001168272.1"	NA	NA	""	"6/60"	""	"C:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TACT"	"64d22818-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4541"	"ITPR1"	3708	"mskcc.org"	"GRCh37"	"3"	4872815	4872816	"+"	"Intron"	"INS"	"-"	"-"	"CACACACACACA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7984-5631_7984-5620dupACACACACACAC"	""	""	"ENST00000302640"	""	18	"."	4	23	"."	0	"ITPR1,intron_variant,,ENST00000302640,NM_001168272.1;ITPR1,intron_variant,,ENST00000354582,;ITPR1,intron_variant,,ENST00000423119,NM_001099952.2;ITPR1,intron_variant,,ENST00000357086,;ITPR1,intron_variant,,ENST00000456211,NM_002222.5;ITPR1,intron_variant,,ENST00000443694,;ITPR1,intron_variant,,ENST00000544951,;AC018816.3,intron_variant,,ENST00000449914,;AC018816.3,intron_variant,,ENST00000441894,;ITPR1,intron_variant,,ENST00000463980,;ITPR1,intron_variant,,ENST00000493491,;AC018816.3,intron_variant,,ENST00000489771,;AC018816.3,intron_variant,,ENST00000496600,;AC018816.3,intron_variant,,ENST00000465436,;ITPR1,intron_variant,,ENST00000478515,;"	"CACACACACACA"	"ENSG00000150995"	"ENST00000302640"	"Transcript"	"intron_variant"	"-/10197"	"-/8232"	"-/2743"	""	""	""	"1"	NA	1	"ITPR1"	"HGNC"	6180	"protein_coding"	"YES"	"CCDS54551.1"	"ENSP00000306253"	"Q14643"	""	"UPI0000E5A461"	"NM_001168272.1"	NA	NA	""	"59/60"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"23"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"81ef40de-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"4542"	"BHLHE40"	8553	"mskcc.org"	"GRCh37"	"3"	5022871	5022882	"+"	"Intron"	"DEL"	"ACACACACACAC"	"ACACACACACAC"	"-"	"rs72056230"	NA	"JHCCPT5"	"JHCCPN5"	"ACACACACACAC"	"ACACACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.259-185_259-174delCACACACACACA"	""	""	"ENST00000256495"	""	10	"."	6	1	"."	0	"BHLHE40,intron_variant,,ENST00000256495,NM_003670.2;BHLHE40-AS1,upstream_gene_variant,,ENST00000420832,;BHLHE40-AS1,upstream_gene_variant,,ENST00000434530,;BHLHE40-AS1,upstream_gene_variant,,ENST00000441386,;BHLHE40,intron_variant,,ENST00000467610,;BHLHE40,intron_variant,,ENST00000460806,;"	"-"	"ENSG00000134107"	"ENST00000256495"	"Transcript"	"intron_variant"	"-/3473"	"-/1239"	"-/412"	""	""	"rs72056230"	"1"	NA	1	"BHLHE40"	"HGNC"	1046	"protein_coding"	"YES"	"CCDS2565.1"	"ENSP00000256495"	"O14503"	"Q6IB83"	"UPI0000126923"	"NM_003670.2"	NA	NA	""	"3/4"	""	"ACACACACACAC:0.0192"	"-:0.9713"	"-:0.9726"	NA	"-:0.9871"	"-:0.9761"	"-:0.998"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"21"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATACACACACACACA"	"64eb0a72-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"4543"	"LMCD1-AS1"	101927394	"mskcc.org"	"GRCh37"	"3"	8299554	8299556	"+"	"Intron"	"DEL"	"AAG"	"AAG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.572-35150_572-35148delCTT"	""	""	"ENST00000420095"	""	24	"."	5	11	"."	0	"LMCD1-AS1,intron_variant,,ENST00000420095,;LMCD1-AS1,intron_variant,,ENST00000452802,;LMCD1-AS1,intron_variant,,ENST00000446281,;"	"-"	"ENSG00000227110"	"ENST00000420095"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2144"	""	""	""	""	""	"1"	NA	-1	"LMCD1-AS1"	"HGNC"	44477	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAGA"	"651f5ea8-280f-11e6-8b65-0333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WXS"	FALSE
"4544"	"IL17RE"	132014	"mskcc.org"	"GRCh37"	"3"	9941290	9941292	"+"	"5'Flank"	"DEL"	"CTT"	"CTT"	"-"	"rs35350107"	NA	"JHCCPT5"	"JHCCPN5"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000295980"	""	10	"."	4	2	"."	0	"IL17RE,upstream_gene_variant,,ENST00000454190,NM_001193380.1;IL17RE,upstream_gene_variant,,ENST00000295980,NM_153483.2;IL17RE,upstream_gene_variant,,ENST00000383814,NM_153480.1;IL17RE,upstream_gene_variant,,ENST00000421412,;IL17RE,upstream_gene_variant,,ENST00000454992,;IL17RE,upstream_gene_variant,,ENST00000383815,;IL17RE,upstream_gene_variant,,ENST00000434065,NM_153481.1;IL17RE,upstream_gene_variant,,ENST00000489181,;IL17RE,upstream_gene_variant,,ENST00000444427,;IL17RE,upstream_gene_variant,,ENST00000461534,;"	"-"	"ENSG00000163701"	"ENST00000295980"	"Transcript"	"upstream_gene_variant"	"-/2709"	"-/2004"	"-/667"	""	""	"rs35350107"	"1"	"3011"	1	"IL17RE"	"HGNC"	18439	"protein_coding"	"YES"	"CCDS2589.1"	"ENSP00000295980"	"Q8NFR9"	""	"UPI000003E87E"	"NM_153483.2"	NA	NA	""	""	""	"-:0.4179"	"-:0.5756"	"-:0.4726"	NA	"-:0.1002"	"-:0.5477"	"-:0.3599"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTT"	"659ea262-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4545"	"FANCD2"	2177	"mskcc.org"	"GRCh37"	"3"	10075901	10075901	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs113663828"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.206-246delG"	""	""	"ENST00000287647"	""	11	"."	3	2	"."	0	"FANCD2,intron_variant,,ENST00000287647,NM_033084.3;FANCD2,intron_variant,,ENST00000419585,;FANCD2,intron_variant,,ENST00000383807,NM_001018115.1;FANCD2,intron_variant,,ENST00000383806,;FANCD2,intron_variant,,ENST00000431693,;RNU6-670P,upstream_gene_variant,,ENST00000364312,;FANCD2,upstream_gene_variant,,ENST00000438741,;FANCD2,intron_variant,,ENST00000435522,;"	"-"	"ENSG00000144554"	"ENST00000287647"	"Transcript"	"intron_variant"	"-/5219"	"-/4416"	"-/1471"	""	""	"rs113663828"	"1"	NA	1	"FANCD2"	"HGNC"	3585	"protein_coding"	"YES"	"CCDS2595.1"	"ENSP00000287647"	"Q9BXW9"	""	"UPI000006F678"	"NM_033084.3"	NA	NA	""	"3/42"	""	"-:0.2113"	"-:0.469"	"-:0.1657"	NA	"-:0.0486"	"-:0.1412"	"-:0.135"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTGG"	"65d2756a-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	TRUE
"4546"	"FANCD2"	2177	"mskcc.org"	"GRCh37"	"3"	10119249	10119249	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs59266334"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2860-508delT"	""	""	"ENST00000287647"	""	19	"."	8	4	"."	0	"FANCD2,intron_variant,,ENST00000287647,NM_033084.3;FANCD2,intron_variant,,ENST00000419585,;FANCD2,intron_variant,,ENST00000383807,NM_001018115.1;FANCD2,intron_variant,,ENST00000383806,;FANCD2OS,downstream_gene_variant,,ENST00000524279,NM_173472.1;FANCD2,downstream_gene_variant,,ENST00000470757,;FANCD2OS,downstream_gene_variant,,ENST00000436517,;FANCD2OS,downstream_gene_variant,,ENST00000431315,;FANCD2OS,downstream_gene_variant,,ENST00000450616,;FANCD2,intron_variant,,ENST00000421731,;FANCD2,downstream_gene_variant,,ENST00000480909,;"	"-"	"ENSG00000144554"	"ENST00000287647"	"Transcript"	"intron_variant"	"-/5219"	"-/4416"	"-/1471"	""	""	"rs59266334"	"1"	NA	1	"FANCD2"	"HGNC"	3585	"protein_coding"	"YES"	"CCDS2595.1"	"ENSP00000287647"	"Q9BXW9"	""	"UPI000006F678"	"NM_033084.3"	NA	NA	""	"29/42"	""	"-:0.1871"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AATT"	"65f6fb2e-280f-11e6-8b65-0333424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.421052631578947	"WXS"	TRUE
"4547"	"FANCD2P2"	0	"mskcc.org"	"GRCh37"	"3"	11933249	11933256	"+"	"3'Flank"	"DEL"	"GTTGACTG"	"GTTGACTG"	"TTGACT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GTTGACTG"	"GTTGACTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000437591"	""	25	"."	14	9	"."	0	"FANCD2P2,downstream_gene_variant,,ENST00000437591,;"	"TTGACT"	"ENSG00000230342"	"ENST00000437591"	"Transcript"	"downstream_gene_variant"	"-/1400"	""	""	""	""	""	"1"	"603"	1	"FANCD2P2"	"HGNC"	44488	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGTTGACTGG"	"8151663e-280f-11e6-8b65-0333424a729f"	"831"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.56	"WXS"	FALSE
"4548"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	12317655	12317658	"+"	"IGR"	"DEL"	"GAAA"	"GAAA"	"-"	"rs34094208"	NA	"JHCCPT5"	"JHCCPN5"	"GAAA"	"GAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	55	"."	5	17	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34094208"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1697"	"-:0.1377"	"-:0.2118"	NA	"-:0.0685"	"-:0.337"	"-:0.1155"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAAG"	"666fd382-280f-11e6-8b65-0333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WXS"	FALSE
"4549"	"RP11-536I6.2"	0	"mskcc.org"	"GRCh37"	"3"	14348737	14348738	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs11429695"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000525575"	""	9	"."	4	3	"."	0	"RP11-536I6.2,upstream_gene_variant,,ENST00000525575,;"	"G"	"ENSG00000255021"	"ENST00000525575"	"Transcript"	"upstream_gene_variant"	"-/613"	""	""	""	""	"rs11429695"	"1"	"3392"	-1	"RP11-536I6.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1879"	"G:0.9713"	"G:0.7089"	NA	"G:0.7173"	"G:0.8131"	"G:0.7669"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"82b4c034-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4550"	"SLC6A6"	6533	"mskcc.org"	"GRCh37"	"3"	14478040	14478080	"+"	"Intron"	"DEL"	"TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT"	"TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT"	"-"	"rs375964296"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT"	"TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-7-7087_-7-7047delTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT"	""	""	"ENST00000454876"	""	13	"."	4	4	"."	0	"SLC6A6,intron_variant,,ENST00000454876,NM_001134367.2,NM_003043.4;SLC6A6,intron_variant,,ENST00000360861,;SLC6A6,intron_variant,,ENST00000416216,NM_001134368.2;SLC6A6,intron_variant,,ENST00000452775,;SLC6A6,intron_variant,,ENST00000484191,;SLC6A6,intron_variant,,ENST00000458124,;SLC6A6,intron_variant,,ENST00000427436,;SLC6A6,intron_variant,,ENST00000435095,;SLC6A6,intron_variant,,ENST00000428884,;"	"-"	"ENSG00000131389"	"ENST00000454876"	"Transcript"	"intron_variant"	"-/6534"	"-/1863"	"-/620"	""	""	"rs375964296"	"1"	NA	1	"SLC6A6"	"HGNC"	11052	"protein_coding"	"YES"	"CCDS33705.1"	"ENSP00000398063"	"P31641"	"C9JPV1"	"UPI000013549A"	"NM_001134367.2,NM_003043.4"	NA	NA	""	"2/14"	""	"TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT:0.0026"	"-:0.9962"	"-:1"	NA	"-:0.995"	"-:0.997"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT"	"66fc9baa-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"4551"	"RNU6-905P"	0	"mskcc.org"	"GRCh37"	"3"	14568754	14568755	"+"	"3'Flank"	"INS"	"-"	"-"	"AAGGG"	"rs145344565"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384434"	""	19	"."	4	10	"."	0	"RNU6-905P,downstream_gene_variant,,ENST00000384434,;GRIP2,intron_variant,,ENST00000273083,;GRIP2,intron_variant,,ENST00000443613,;GRIP2,intron_variant,,ENST00000507975,;GRIP2,intron_variant,,ENST00000383795,;GRIP2,intron_variant,,ENST00000413414,;GRIP2,upstream_gene_variant,,ENST00000422481,;"	"AAGGG"	"ENSG00000207163"	"ENST00000384434"	"Transcript"	"downstream_gene_variant"	"-/107"	""	""	""	""	"rs145344565"	"1"	"3734"	-1	"RNU6-905P"	"HGNC"	47868	"snRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"82cb64ec-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"4552"	"ENSR00001736484"	0	"mskcc.org"	"GRCh37"	"3"	14643819	14643821	"+"	"IGR"	"DEL"	"TGT"	"TGT"	"G"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TGT"	"TGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001736484"	""	11	"."	7	1	"."	0	""	"G"	""	"ENSR00001736484"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTGTG"	"815f4c90-280f-11e6-8b65-0333424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.636363636363636	"WXS"	FALSE
"4553"	"ANKRD28"	23243	"mskcc.org"	"GRCh37"	"3"	15753372	15753373	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35787947"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1183+274dupA"	""	""	"ENST00000399451"	""	9	"."	3	2	"."	0	"ANKRD28,intron_variant,,ENST00000399451,NM_015199.3,NM_001195098.1,NM_001195099.1;ANKRD28,intron_variant,,ENST00000383777,;ANKRD28,intron_variant,,ENST00000497037,;ANKRD28,intron_variant,,ENST00000492895,;ANKRD28,intron_variant,,ENST00000412318,;ANKRD28,intron_variant,,ENST00000498524,;ANKRD28,intron_variant,,ENST00000451422,;"	"T"	"ENSG00000206560"	"ENST00000399451"	"Transcript"	"intron_variant"	"-/6564"	"-/3162"	"-/1053"	""	""	"rs35787947"	"1"	NA	-1	"ANKRD28"	"HGNC"	29024	"protein_coding"	"YES"	"CCDS46769.1"	"ENSP00000382379"	"O15084"	""	"UPI00004120FF"	"NM_015199.3,NM_001195098.1,NM_001195099.1"	NA	NA	""	"11/27"	""	"T:0.3930"	"T:0.1044"	"T:0.6009"	NA	"T:0.3522"	"T:0.5964"	"T:0.4683"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"82ee9066-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4554"	"PLCL2"	23228	"mskcc.org"	"GRCh37"	"3"	16926539	16926559	"+"	"5'UTR"	"DEL"	"CTGGATTGCGTGCGTGGGTGG"	"CTGGATTGCGTGCGTGGGTGG"	"AGTGCGGCCGGGGGGGC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CTGGATTGCGTGCGTGGGTGG"	"CTGGATTGCGTGCGTGGGTGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-378_-358delCTGGATTGCGTGCGTGGGTGGinsAGTGCGGCCGGGGGGGC"	""	""	"ENST00000418129"	"1/6"	25	"."	3	7	"."	0	"PLCL2,5_prime_UTR_variant,,ENST00000418129,NM_001144382.1;PLCL2,5_prime_UTR_variant,,ENST00000396755,;PLCL2,intron_variant,,ENST00000460467,;"	"AGTGCGGCCGGGGGGGC"	"ENSG00000154822"	"ENST00000418129"	"Transcript"	"5_prime_UTR_variant"	"88-108/4153"	"-/3006"	"-/1001"	""	""	""	"1"	NA	1	"PLCL2"	"HGNC"	9064	"protein_coding"	"YES"	"CCDS33713.1"	"ENSP00000409637"	"Q9UPR0"	""	"UPI0000141145"	"NM_001144382.1"	NA	NA	"1/6"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGGCTGGATTGCGTGCGTGGGTGGG"	"8165c480-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WXS"	FALSE
"4555"	"ZNF385D"	79750	"mskcc.org"	"GRCh37"	"3"	21795259	21795261	"+"	"5'Flank"	"DEL"	"GTT"	"GTT"	"-"	"rs35233792"	NA	"JHCCPT5"	"JHCCPN5"	"GTT"	"GTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000281523"	""	10	"."	6	5	"."	0	"ZNF385D,upstream_gene_variant,,ENST00000281523,NM_024697.2;ZNF385D,intron_variant,,ENST00000494118,;ZNF385D,intron_variant,,ENST00000494108,;ZNF385D,intron_variant,,ENST00000478967,;ZNF385D,upstream_gene_variant,,ENST00000446749,;"	"-"	"ENSG00000151789"	"ENST00000281523"	"Transcript"	"upstream_gene_variant"	"-/4498"	"-/1188"	"-/395"	""	""	"rs35233792"	"1"	"2332"	-1	"ZNF385D"	"HGNC"	26191	"protein_coding"	"YES"	"CCDS2636.1"	"ENSP00000281523"	"Q9H6B1"	""	"UPI00000724AC"	"NM_024697.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGTTG"	"6811e3b0-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"4556"	"HMGB1P5"	0	"mskcc.org"	"GRCh37"	"3"	22428953	22428954	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"rs5847177"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000451497"	""	7	"."	3	1	"."	0	"HMGB1P5,downstream_gene_variant,,ENST00000451497,;"	"A"	"ENSG00000132967"	"ENST00000451497"	"Transcript"	"downstream_gene_variant"	"-/985"	""	""	""	""	"rs5847177"	"1"	"4533"	1	"HMGB1P5"	"HGNC"	4997	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2336"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"832cfe46-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4557"	"SLC4A7"	9497	"mskcc.org"	"GRCh37"	"3"	27445065	27445067	"+"	"Intron"	"DEL"	"TAG"	"TAG"	"-"	"rs144451251"	NA	"JHCCPT5"	"JHCCPN5"	"TAG"	"TAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2049-192_2049-190delCTA"	""	""	"ENST00000295736"	""	7	"."	3	1	"."	0	"SLC4A7,intron_variant,,ENST00000295736,NM_003615.4;SLC4A7,intron_variant,,ENST00000428386,NM_001258380.1;SLC4A7,intron_variant,,ENST00000419036,;SLC4A7,intron_variant,,ENST00000454389,;SLC4A7,intron_variant,,ENST00000440156,;SLC4A7,intron_variant,,ENST00000445684,;SLC4A7,intron_variant,,ENST00000388777,;SLC4A7,intron_variant,,ENST00000446700,;SLC4A7,intron_variant,,ENST00000425128,;SLC4A7,intron_variant,,ENST00000435667,;SLC4A7,intron_variant,,ENST00000455077,NM_001258379.1;SLC4A7,intron_variant,,ENST00000437179,;SLC4A7,intron_variant,,ENST00000428179,;SLC4A7,intron_variant,,ENST00000438530,;SLC4A7,intron_variant,,ENST00000457377,;SLC4A7,intron_variant,,ENST00000437266,;SLC4A7,upstream_gene_variant,,ENST00000475120,;"	"-"	"ENSG00000033867"	"ENST00000295736"	"Transcript"	"intron_variant"	"-/7757"	"-/3645"	"-/1214"	""	""	"rs144451251"	"1"	NA	-1	"SLC4A7"	"HGNC"	11033	"protein_coding"	"YES"	"CCDS33721.1"	"ENSP00000295736"	"Q9Y6M7"	""	"UPI0000DBEEB7"	"NM_003615.4"	NA	NA	""	"14/24"	""	"-:0.1558"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTAGT"	"68865ee8-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4558"	"ZCWPW2"	152098	"mskcc.org"	"GRCh37"	"3"	28413461	28413463	"+"	"Intron"	"DEL"	"TCC"	"TCC"	"-"	"rs34265386"	NA	"JHCCPT5"	"JHCCPN5"	"TCC"	"TCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-133-18509_-133-18507delCCT"	""	""	"ENST00000383768"	""	16	"."	7	6	"."	0	"ZCWPW2,intron_variant,,ENST00000383768,;ZCWPW2,intron_variant,,ENST00000420223,;"	"-"	"ENSG00000206559"	"ENST00000383768"	"Transcript"	"intron_variant"	"-/1716"	"-/1071"	"-/356"	""	""	"rs34265386"	"1"	NA	1	"ZCWPW2"	"HGNC"	23574	"protein_coding"	"YES"	"CCDS33723.1"	"ENSP00000373278"	"Q504Y3"	"C9JFK0"	"UPI0000161ABF"	""	NA	NA	""	"1/9"	""	"-:0.1677"	"-:0.1483"	"-:0.2939"	NA	"-:0.0278"	"-:0.2197"	"-:0.1953"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"19"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCCT"	"689f4c50-280f-11e6-8b65-0333424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4375	"WXS"	FALSE
"4559"	"LINC00693"	645206	"mskcc.org"	"GRCh37"	"3"	28761228	28761229	"+"	"Intron"	"INS"	"-"	"-"	"TGC"	"rs10645723"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.810-36994_810-36992dupCTG"	""	""	"ENST00000432518"	""	62	"."	9	8	"."	0	"LINC00693,intron_variant,,ENST00000432518,;LINC00693,intron_variant,,ENST00000443912,;LINC00693,intron_variant,,ENST00000445077,;"	"TGC"	"ENSG00000228214"	"ENST00000432518"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2144"	""	""	""	""	"rs10645723"	"1"	NA	1	"LINC00693"	"HGNC"	44526	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"29"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"8367848a-280f-11e6-8b65-0333424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145161290322581	"WXS"	FALSE
"4560"	"ENSR00001477661"	0	"mskcc.org"	"GRCh37"	"3"	29225004	29225004	"+"	"IGR"	"DEL"	"G"	"-"	"-"	"rs34586151"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001477661"	""	7	"."	5	2	"."	0	""	"-"	""	"ENSR00001477661"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs34586151"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.1412"	"-:0.9221"	"-:0.9568"	NA	"-:0.7123"	"-:0.8887"	"-:0.8241"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCGG"	"68a572ba-280f-11e6-8b65-0333424a729f"	"280"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4561"	"RBMS3"	27303	"mskcc.org"	"GRCh37"	"3"	29756239	29756244	"+"	"Intron"	"DEL"	"ACACAC"	"-"	"-"	"rs111774269"	NA	"JHCCPT5"	"JHCCPN5"	"ACACAC"	"ACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.400-24947_400-24942delCACACA"	""	""	"ENST00000383767"	""	7	"."	5	1	"."	0	"RBMS3,intron_variant,,ENST00000434693,NM_001003793.2;RBMS3,intron_variant,,ENST00000396583,NM_001177711.1;RBMS3,intron_variant,,ENST00000383766,NM_001003792.2;RBMS3,intron_variant,,ENST00000383767,;RBMS3,intron_variant,,ENST00000273139,NM_014483.3;RBMS3,intron_variant,,ENST00000452462,;RBMS3,intron_variant,,ENST00000456853,NM_001177712.1;RBMS3,intron_variant,,ENST00000445033,;RBMS3,intron_variant,,ENST00000478716,;RBMS3,intron_variant,,ENST00000497205,;"	"-"	"ENSG00000144642"	"ENST00000383767"	"Transcript"	"intron_variant"	"-/1864"	"-/1314"	"-/437"	""	""	"rs111774269"	"1"	NA	1	"RBMS3"	"HGNC"	13427	"protein_coding"	"YES"	"CCDS33724.1"	"ENSP00000373277"	"Q6XE24"	"C9J9B2"	"UPI000023FE75"	""	NA	NA	""	"4/14"	""	"ACACAC:0.4770"	"-:0.5749"	"-:0.4308"	NA	"-:0.4931"	"-:0.502"	"-:0.5706"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"25"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTACACACA"	"68a9e930-280f-11e6-8b65-0333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4562"	"DYNC1LI1"	51143	"mskcc.org"	"GRCh37"	"3"	32576345	32576345	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs539898385"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.833-207delT"	""	""	"ENST00000273130"	""	50	"."	13	4	"."	0	"DYNC1LI1,intron_variant,,ENST00000273130,NM_016141.3;DYNC1LI1,intron_variant,,ENST00000432458,;DYNC1LI1,intron_variant,,ENST00000481915,;DYNC1LI1,intron_variant,,ENST00000472985,;"	"-"	"ENSG00000144635"	"ENST00000273130"	"Transcript"	"intron_variant"	"-/2504"	"-/1572"	"-/523"	""	""	"rs539898385"	"1"	NA	-1	"DYNC1LI1"	"HGNC"	18745	"protein_coding"	"YES"	"CCDS2654.1"	"ENSP00000273130"	"Q9Y6G9"	"B3KM42"	"UPI000013D99D"	"NM_016141.3"	NA	NA	""	"6/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"68f70e36-280f-11e6-8b65-0333424a729f"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26	"WXS"	FALSE
"4563"	"TMPPE"	643853	"mskcc.org"	"GRCh37"	"3"	33142698	33142701	"+"	"5'Flank"	"DEL"	"TTTG"	"TTTG"	"-"	"rs201566026"	NA	"JHCCPT5"	"JHCCPN5"	"TTTG"	"TTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000342462"	""	8	"."	3	2	"."	0	"TMPPE,upstream_gene_variant,,ENST00000342462,NM_001039770.2;TMPPE,upstream_gene_variant,,ENST00000416695,NM_001136238.1;GLB1,upstream_gene_variant,,ENST00000307363,NM_000404.2;GLB1,upstream_gene_variant,,ENST00000445488,;GLB1,upstream_gene_variant,,ENST00000399402,NM_001079811.1;GLB1,upstream_gene_variant,,ENST00000307377,NM_001135602.1;GLB1,upstream_gene_variant,,ENST00000440656,;GLB1,upstream_gene_variant,,ENST00000415454,;GLB1,upstream_gene_variant,,ENST00000436768,;GLB1,upstream_gene_variant,,ENST00000450835,;RN7SL296P,upstream_gene_variant,,ENST00000585237,;GLB1,upstream_gene_variant,,ENST00000498537,;GLB1,upstream_gene_variant,,ENST00000464355,;GLB1,upstream_gene_variant,,ENST00000485698,;GLB1,upstream_gene_variant,,ENST00000482097,;GLB1,upstream_gene_variant,,ENST00000438227,;"	"-"	"ENSG00000188167"	"ENST00000342462"	"Transcript"	"upstream_gene_variant"	"-/3962"	"-/1362"	"-/453"	""	""	"rs201566026"	"1"	"4405"	-1	"TMPPE"	"HGNC"	33865	"protein_coding"	"YES"	"CCDS33732.1"	"ENSP00000343398"	"Q6ZT21"	""	"UPI000022BF97"	"NM_001039770.2"	NA	NA	""	""	""	"-:0.0200"	"-:0.0015"	"-:0.0159"	NA	"-:0.001"	"-:0.0457"	"-:0.0409"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTGT"	"69328aec-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4564"	"UBP1"	7342	"mskcc.org"	"GRCh37"	"3"	33454090	33454090	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.448+124delC"	""	""	"ENST00000283629"	""	342	"."	3	89	"."	0	"UBP1,intron_variant,,ENST00000283629,NM_014517.4,NM_001128161.1;UBP1,intron_variant,,ENST00000447368,NM_001128160.1;UBP1,intron_variant,,ENST00000283628,;UBP1,downstream_gene_variant,,ENST00000456378,;RNU7-110P,upstream_gene_variant,,ENST00000516891,;UBP1,intron_variant,,ENST00000467613,;UBP1,intron_variant,,ENST00000481761,;UBP1,upstream_gene_variant,,ENST00000486388,;UBP1,downstream_gene_variant,,ENST00000496310,;UBP1,upstream_gene_variant,,ENST00000411650,;"	"-"	"ENSG00000153560"	"ENST00000283629"	"Transcript"	"intron_variant"	"-/4148"	"-/1623"	"-/540"	""	""	""	"1"	NA	-1	"UBP1"	"HGNC"	12507	"protein_coding"	"YES"	"CCDS2659.1"	"ENSP00000283629"	"Q9NZI7"	"C9JWL3"	"UPI00000701D7"	"NM_014517.4,NM_001128161.1"	NA	NA	""	"4/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGA"	"695c4580-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0087719298245614	"WXS"	FALSE
"4565"	"STAC"	6769	"mskcc.org"	"GRCh37"	"3"	36534977	36534978	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs146293886"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.766+270_766+271dupTA"	""	""	"ENST00000273183"	""	8	"."	3	4	"."	0	"STAC,intron_variant,,ENST00000273183,NM_003149.1;STAC,intron_variant,,ENST00000457375,;STAC,intron_variant,,ENST00000434649,;STAC,intron_variant,,ENST00000476388,;STAC,intron_variant,,ENST00000473452,;STAC,downstream_gene_variant,,ENST00000427486,;"	"AT"	"ENSG00000144681"	"ENST00000273183"	"Transcript"	"intron_variant"	"-/3227"	"-/1209"	"-/402"	""	""	"rs146293886"	"1"	NA	1	"STAC"	"HGNC"	11353	"protein_coding"	"YES"	"CCDS2662.1"	"ENSP00000273183"	"Q99469"	"B4DZ13"	"UPI0000136081"	"NM_003149.1"	NA	NA	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"83b5715e-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4566"	"SLC22A14"	9389	"mskcc.org"	"GRCh37"	"3"	38349729	38349730	"+"	"Intron"	"INS"	"-"	"-"	"GAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.775+531_775+533dupGAG"	""	""	"ENST00000273173"	""	15	"."	3	5	"."	0	"SLC22A14,intron_variant,,ENST00000273173,NM_004803.3;SLC22A14,intron_variant,,ENST00000448498,;SLC22A14,downstream_gene_variant,,ENST00000466887,;RNU6-235P,upstream_gene_variant,,ENST00000362644,;SLC22A14,downstream_gene_variant,,ENST00000496724,;"	"GAG"	"ENSG00000144671"	"ENST00000273173"	"Transcript"	"intron_variant"	"-/2202"	"-/1785"	"-/594"	""	""	""	"1"	NA	1	"SLC22A14"	"HGNC"	8495	"protein_coding"	"YES"	"CCDS2677.1"	"ENSP00000273173"	"Q9Y267"	"F5H7H1"	"UPI00001AE9A8"	"NM_004803.3"	NA	NA	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"83dfd264-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"4567"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	39479943	39479946	"+"	"IGR"	"DEL"	"CTCC"	"CTCC"	"-"	"rs67388515"	NA	"JHCCPT5"	"JHCCPN5"	"CTCC"	"CTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	6	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs67388515"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CTCC:0.1526"	"-:0.6377"	"-:0.9669"	NA	"-:0.9325"	"-:0.995"	"-:0.8067"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCTCCC"	"6a55830c-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WXS"	FALSE
"4568"	"MOBP"	4336	"mskcc.org"	"GRCh37"	"3"	39562029	39562034	"+"	"3'Flank"	"DEL"	"GTGTGT"	"GTGTGT"	"-"	"rs113325581"	NA	"JHCCPT5"	"JHCCPN5"	"GTGTGT"	"GTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000383754"	""	6	"."	4	5	"."	0	"MOBP,intron_variant,,ENST00000396228,;MOBP,downstream_gene_variant,,ENST00000311042,NM_001278322.1;MOBP,downstream_gene_variant,,ENST00000383754,NM_182935.3;MOBP,intron_variant,,ENST00000479860,;MOBP,intron_variant,,ENST00000452959,;MOBP,intron_variant,,ENST00000424090,;MOBP,intron_variant,,ENST00000442631,;"	"-"	"ENSG00000168314"	"ENST00000383754"	"Transcript"	"downstream_gene_variant"	"-/3051"	"-/246"	"-/81"	""	""	"rs113325581"	"1"	"4535"	1	"MOBP"	"HGNC"	7189	"protein_coding"	"YES"	"CCDS2687.1"	"ENSP00000373261"	"Q13875"	"C9JAR7"	"UPI000005410F"	"NM_182935.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGTGTGTG"	"6a56449a-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4569"	"RP11-193I22.2"	0	"mskcc.org"	"GRCh37"	"3"	42089039	42089040	"+"	"3'Flank"	"INS"	"-"	"-"	"TTAT"	"rs113481757"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000434712"	""	6	"."	4	1	"."	0	"TRAK1,intron_variant,,ENST00000487159,;RP11-193I22.2,downstream_gene_variant,,ENST00000434712,;"	"TTAT"	"ENSG00000229339"	"ENST00000434712"	"Transcript"	"downstream_gene_variant"	"-/514"	""	""	""	""	"rs113481757"	"1"	"3633"	-1	"RP11-193I22.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"TTAT:0.3021"	"TTAT:0.3676"	"TTAT:0.3473"	NA	"TTAT:0.0952"	"TTAT:0.3907"	"TTAT:0.3037"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"8426dbd2-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4570"	"HIGD1A"	25994	"mskcc.org"	"GRCh37"	"3"	42842128	42842129	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs140588443"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.20+3535dupA"	""	""	"ENST00000452906"	""	16	"."	4	4	"."	0	"HIGD1A,intron_variant,,ENST00000321331,NM_001099669.1,NM_014056.3;HIGD1A,intron_variant,,ENST00000418900,;HIGD1A,intron_variant,,ENST00000430190,;HIGD1A,intron_variant,,ENST00000452906,NM_001099668.1;RP11-70C1.3,downstream_gene_variant,,ENST00000449063,;HIGD1A,intron_variant,,ENST00000470543,;ACKR2,upstream_gene_variant,,ENST00000565749,;HIGD1A,intron_variant,,ENST00000431549,;"	"T"	"ENSG00000181061"	"ENST00000452906"	"Transcript"	"intron_variant"	"-/585"	"-/324"	"-/107"	""	""	"rs140588443"	"1"	NA	-1	"HIGD1A"	"HGNC"	29527	"protein_coding"	"YES"	"CCDS46806.1"	"ENSP00000398064"	"Q9Y241"	""	"UPI000020A587"	"NM_001099668.1"	NA	NA	""	"1/3"	""	"T:0.4101"	"T:0.5174"	"T:0.3357"	NA	"T:0.2014"	"T:0.5119"	"T:0.4284"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"843ed408-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4571"	"ZNF197"	10168	"mskcc.org"	"GRCh37"	"3"	44674312	44674313	"+"	"Intron"	"DEL"	"GT"	"GT"	"-"	"rs111907137"	NA	"JHCCPT5"	"JHCCPN5"	"GT"	"GT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.769+237_769+238delGT"	""	""	"ENST00000396058"	""	28	"."	3	14	"."	0	"ZNF197,intron_variant,,ENST00000396058,;ZNF197,intron_variant,,ENST00000344387,NM_006991.3;ZNF197,intron_variant,,ENST00000383745,NM_001024855.1;ZNF197,intron_variant,,ENST00000383744,;ZNF197,downstream_gene_variant,,ENST00000412641,;RP11-944L7.4,intron_variant,,ENST00000457331,;ZNF197,intron_variant,,ENST00000334075,;"	"-"	"ENSG00000186448"	"ENST00000396058"	"Transcript"	"intron_variant"	"-/4299"	"-/3090"	"-/1029"	""	""	"rs111907137"	"1"	NA	1	"ZNF197"	"HGNC"	12988	"protein_coding"	"YES"	"CCDS2717.1"	"ENSP00000379370"	"O14709"	"C9JQH5"	"UPI000013C317"	""	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"16"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGTG"	"6b8b0800-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WXS"	FALSE
"4572"	"ZDHHC3"	51304	"mskcc.org"	"GRCh37"	"3"	45017687	45017688	"+"	"5'Flank"	"INS"	"-"	"-"	"GG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000296127"	""	59	"."	3	33	"."	0	"ZDHHC3,upstream_gene_variant,,ENST00000296127,NM_016598.2;ZDHHC3,upstream_gene_variant,,ENST00000424952,NM_001135179.1;ZDHHC3,upstream_gene_variant,,ENST00000342790,;EXOSC7,upstream_gene_variant,,ENST00000265564,NM_015004.3;ZDHHC3,upstream_gene_variant,,ENST00000455235,;EXOSC7,intron_variant,,ENST00000461361,;EXOSC7,intron_variant,,ENST00000482004,;EXOSC7,intron_variant,,ENST00000477865,;EXOSC7,upstream_gene_variant,,ENST00000491476,;EXOSC7,upstream_gene_variant,,ENST00000468667,;EXOSC7,upstream_gene_variant,,ENST00000481405,;EXOSC7,upstream_gene_variant,,ENST00000498168,;EXOSC7,upstream_gene_variant,,ENST00000467846,;"	"GG"	"ENSG00000163812"	"ENST00000296127"	"Transcript"	"upstream_gene_variant"	"-/3101"	"-/984"	"-/327"	""	""	""	"1"	"13"	-1	"ZDHHC3"	"HGNC"	18470	"protein_coding"	"YES"	"CCDS2724.1"	"ENSP00000296127"	"Q9NYG2"	"C9JNU5"	"UPI000013C380"	"NM_016598.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"846612a2-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0508474576271186	"WXS"	FALSE
"4573"	"TDGF1"	6997	"mskcc.org"	"GRCh37"	"3"	46646201	46646201	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs11309981"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.247+8076delG"	""	""	"ENST00000505797"	""	10	"."	5	4	"."	0	"TDGF1,intron_variant,,ENST00000505797,;"	"-"	"ENSG00000241186"	"ENST00000505797"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/291"	""	""	""	""	"rs11309981"	"1"	NA	1	"TDGF1"	"HGNC"	11701	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"3/3"	""	"-:0.1432"	"-:0.1672"	"-:0.183"	NA	"-:0.1071"	"-:0.1392"	"-:0.1237"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTGG"	"6c44caba-280f-11e6-8b65-0333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4574"	"PRSS50"	29122	"mskcc.org"	"GRCh37"	"3"	46783664	46783665	"+"	"Intron"	"INS"	"-"	"-"	"CCAAGG"	"rs112576071"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-543+6445_-543+6450dupCCTTGG"	""	""	"ENST00000460241"	""	13	"."	4	10	"."	0	"PRSS50,intron_variant,,ENST00000460241,;PRSS45,downstream_gene_variant,,ENST00000442359,NM_199183.2;PRSS45,3_prime_UTR_variant,,ENST00000423292,;"	"CCAAGG"	"ENSG00000206549"	"ENST00000460241"	"Transcript"	"intron_variant"	"-/2958"	"-/1158"	"-/385"	""	""	"rs112576071"	"1"	NA	-1	"PRSS50"	"HGNC"	17910	"protein_coding"	"YES"	"CCDS2745.1"	"ENSP00000418875"	"Q9UI38"	"B3KUP4"	"UPI0000037465"	""	NA	NA	""	"4/10"	""	"CCAAGG:0.2634"	"CCAAGG:0.5295"	"CCAAGG:0.1844"	NA	"CCAAGG:0.121"	"CCAAGG:0.1441"	"CCAAGG:0.229"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"8490f21a-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"4575"	"WDR6"	11180	"mskcc.org"	"GRCh37"	"3"	49045243	49045250	"+"	"Intron"	"DEL"	"CGCGGCCG"	"CGCGGCCG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CGCGGCCG"	"CGCGGCCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.190+284_190+291delCCGCGCGG"	""	""	"ENST00000395474"	""	9	"."	4	12	"."	0	"WDR6,intron_variant,,ENST00000395474,NM_018031.3;WDR6,intron_variant,,ENST00000608424,;WDR6,intron_variant,,ENST00000448293,;WDR6,intron_variant,,ENST00000415265,;WDR6,intron_variant,,ENST00000438660,;WDR6,intron_variant,,ENST00000429900,;WDR6,intron_variant,,ENST00000419837,;P4HTM,downstream_gene_variant,,ENST00000343546,NM_177938.2;P4HTM,downstream_gene_variant,,ENST00000383729,NM_177939.2;P4HTM,downstream_gene_variant,,ENST00000491739,;P4HTM,downstream_gene_variant,,ENST00000444213,;P4HTM,downstream_gene_variant,,ENST00000472796,;WDR6,upstream_gene_variant,,ENST00000489427,;WDR6,upstream_gene_variant,,ENST00000491365,;WDR6,intron_variant,,ENST00000489684,;WDR6,intron_variant,,ENST00000472878,;WDR6,intron_variant,,ENST00000461687,;P4HTM,downstream_gene_variant,,ENST00000468374,;WDR6,intron_variant,,ENST00000452875,;WDR6,intron_variant,,ENST00000420783,;WDR6,intron_variant,,ENST00000471162,;WDR6,intron_variant,,ENST00000488572,;WDR6,intron_variant,,ENST00000462064,;WDR6,intron_variant,,ENST00000473238,;P4HTM,downstream_gene_variant,,ENST00000484115,;P4HTM,downstream_gene_variant,,ENST00000472301,;P4HTM,downstream_gene_variant,,ENST00000485210,;"	"-"	"ENSG00000178252"	"ENST00000395474"	"Transcript"	"intron_variant"	"-/4401"	"-/3456"	"-/1151"	""	""	""	"1"	NA	1	"WDR6"	"HGNC"	12758	"protein_coding"	"YES"	"CCDS2782.2"	"ENSP00000378857"	"Q9NNW5"	"Q8NDH0,Q6PKC6,Q6AZD6,E9PDU5"	"UPI0000E5A634"	"NM_018031.3"	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACGCGGCCGC"	"6dd57bcc-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4576"	"USP4"	7375	"mskcc.org"	"GRCh37"	"3"	49315589	49315589	"+"	"3'UTR"	"DEL"	"G"	"G"	"-"	"rs369427178"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*137delC"	""	""	"ENST00000265560"	"22/22"	122	"."	6	46	"."	0	"USP4,3_prime_UTR_variant,,ENST00000351842,NM_199443.2;USP4,3_prime_UTR_variant,,ENST00000265560,NM_003363.3;C3orf62,upstream_gene_variant,,ENST00000343010,NM_198562.2;USP4,downstream_gene_variant,,ENST00000431357,;C3orf62,upstream_gene_variant,,ENST00000436325,;MIR4271,downstream_gene_variant,,ENST00000582451,;USP4,non_coding_transcript_exon_variant,,ENST00000483212,;USP4,downstream_gene_variant,,ENST00000485450,;C3orf62,upstream_gene_variant,,ENST00000479673,;C3orf62,upstream_gene_variant,,ENST00000424960,;"	"-"	"ENSG00000114316"	"ENST00000265560"	"Transcript"	"3_prime_UTR_variant"	"3076/3126"	"-/2892"	"-/963"	""	""	"rs369427178"	"1"	NA	-1	"USP4"	"HGNC"	12627	"protein_coding"	"YES"	"CCDS2793.1"	"ENSP00000265560"	"Q13107"	""	"UPI000013D63C"	"NM_003363.3"	NA	NA	"22/22"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"6e31b806-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0491803278688525	"WXS"	FALSE
"4577"	"IL17RB"	55540	"mskcc.org"	"GRCh37"	"3"	53883547	53883548	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs397692121"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.86-135_86-134insAT"	""	""	"ENST00000288167"	""	27	"."	5	8	"."	0	"IL17RB,intron_variant,,ENST00000288167,NM_018725.3;IL17RB,intron_variant,,ENST00000494338,;CHDH,upstream_gene_variant,,ENST00000315251,NM_018397.4;CHDH,upstream_gene_variant,,ENST00000481668,;CHDH,upstream_gene_variant,,ENST00000467802,;IL17RB,intron_variant,,ENST00000475124,;"	"AT"	"ENSG00000056736"	"ENST00000288167"	"Transcript"	"intron_variant"	"-/2010"	"-/1509"	"-/502"	""	""	"rs397692121"	"1"	NA	1	"IL17RB"	"HGNC"	18015	"protein_coding"	"YES"	"CCDS2874.1"	"ENSP00000288167"	"Q9NRM6"	""	"UPI0000038A0B"	"NM_018725.3"	NA	NA	""	"2/10"	""	"T:0.0371"	"T:0.0136"	"T:0.0216"	NA	"T:0.0665"	"T:0.0119"	"T:0.0757"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"85e8afb8-280f-11e6-8b65-0333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WXS"	FALSE
"4578"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	54013742	54013755	"+"	"IGR"	"DEL"	"CTCTCTCTCTCTCC"	"CTCTCTCTCTCTCC"	"-"	"rs139022970"	NA	"JHCCPT5"	"JHCCPN5"	"CTCTCTCTCTCTCC"	"CTCTCTCTCTCTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	7	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139022970"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3357"	"-:0.5643"	"-:0.3703"	NA	"-:0.1052"	"-:0.3708"	"-:0.2035"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCTCTCTCTCTCTCCC"	"708fbdaa-280f-11e6-8b65-0333424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.636363636363636	"WXS"	FALSE
"4579"	"CACNA2D3"	55799	"mskcc.org"	"GRCh37"	"3"	54184850	54184853	"+"	"Intron"	"DEL"	"GATG"	"GATG"	"-"	"rs10599520"	NA	"JHCCPT5"	"JHCCPN5"	"GATG"	"GATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.204+27257_204+27260delGATG"	""	""	"ENST00000474759"	""	11	"."	4	3	"."	0	"CACNA2D3,intron_variant,,ENST00000474759,NM_018398.2;CACNA2D3,intron_variant,,ENST00000288197,;CACNA2D3,intron_variant,,ENST00000415676,;CACNA2D3,intron_variant,,ENST00000490478,;CACNA2D3,intron_variant,,ENST00000471363,;CACNA2D3,intron_variant,,ENST00000477024,;"	"-"	"ENSG00000157445"	"ENST00000474759"	"Transcript"	"intron_variant"	"-/3675"	"-/3276"	"-/1091"	""	""	"rs10599520"	"1"	NA	1	"CACNA2D3"	"HGNC"	15460	"protein_coding"	"YES"	"CCDS54598.1"	"ENSP00000419101"	"Q8IZS8"	"C9JAV5"	"UPI000004A7BF"	"NM_018398.2"	NA	NA	""	"2/37"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"28"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGATGG"	"709737d8-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4580"	"FAM208A"	23272	"mskcc.org"	"GRCh37"	"3"	56696163	56696164	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs113958357"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1160+249_1160+250insC"	""	""	"ENST00000493960"	""	7	"."	3	1	"."	0	"FAM208A,intron_variant,,ENST00000431842,NM_015224.3;FAM208A,intron_variant,,ENST00000493960,NM_001112736.1;FAM208A,intron_variant,,ENST00000355628,;FAM208A,intron_variant,,ENST00000478052,;"	"G"	"ENSG00000163946"	"ENST00000493960"	"Transcript"	"intron_variant"	"-/5600"	"-/4539"	"-/1512"	""	""	"rs113958357"	"1"	NA	-1	"FAM208A"	"HGNC"	30314	"protein_coding"	"YES"	"CCDS46853.1"	"ENSP00000417509"	"Q9UK61"	""	"UPI0000422561"	"NM_001112736.1"	NA	NA	""	"9/23"	""	"G:0.2752"	"G:0.3011"	"G:0.1772"	NA	"G:0.375"	"G:0.1054"	"G:0.3814"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"863d271e-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4581"	"FAM208A"	23272	"mskcc.org"	"GRCh37"	"3"	56707913	56707913	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs34340445"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.332-160delC"	""	""	"ENST00000493960"	""	18	"."	6	6	"."	0	"FAM208A,intron_variant,,ENST00000493960,NM_001112736.1;FAM208A,intron_variant,,ENST00000355628,;FAM208A,upstream_gene_variant,,ENST00000477406,;"	"-"	"ENSG00000163946"	"ENST00000493960"	"Transcript"	"intron_variant"	"-/5600"	"-/4539"	"-/1512"	""	""	"rs34340445"	"1"	NA	-1	"FAM208A"	"HGNC"	30314	"protein_coding"	"YES"	"CCDS46853.1"	"ENSP00000417509"	"Q9UK61"	""	"UPI0000422561"	"NM_001112736.1"	NA	NA	""	"1/23"	""	"-:0.0389"	"-:0.0287"	"-:0.0187"	NA	"-:0.0337"	"-:0.0398"	"-:0.0716"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"7123a2a4-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4582"	"DNAH12"	201625	"mskcc.org"	"GRCh37"	"3"	57399886	57399887	"+"	"Intron"	"INS"	"-"	"-"	"TTTA"	"rs10682577"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5797-248_5797-247insTAAA"	""	""	"ENST00000351747"	""	11	"."	5	2	"."	0	"DNAH12,intron_variant,,ENST00000351747,NM_178504.4;DNAH12,intron_variant,,ENST00000495027,;"	"TTTA"	"ENSG00000174844"	"ENST00000351747"	"Transcript"	"intron_variant"	"-/9542"	"-/9279"	"-/3092"	""	""	"rs10682577"	"1"	NA	-1	"DNAH12"	"HGNC"	2943	"protein_coding"	""	""	"ENSP00000295937"	"Q6ZR08"	"O15436"	"UPI00017AA3A8"	"NM_178504.4"	NA	NA	""	"38/58"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"8653271c-280f-11e6-8b65-0333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"4583"	"DNAH12"	201625	"mskcc.org"	"GRCh37"	"3"	57431275	57431276	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs569438551"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4111-130dupA"	""	""	"ENST00000351747"	""	58	"."	15	14	"."	0	"DNAH12,intron_variant,,ENST00000351747,NM_178504.4;DNAH12,intron_variant,,ENST00000495027,;"	"T"	"ENSG00000174844"	"ENST00000351747"	"Transcript"	"intron_variant"	"-/9542"	"-/9279"	"-/3092"	""	""	"rs569438551"	"1"	NA	-1	"DNAH12"	"HGNC"	2943	"protein_coding"	""	""	"ENSP00000295937"	"Q6ZR08"	"O15436"	"UPI00017AA3A8"	"NM_178504.4"	NA	NA	""	"27/58"	""	"T:0.4052"	"T:0.143"	"T:0.464"	NA	"T:0.4157"	"T:0.5507"	"T:0.5573"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"86564f6e-280f-11e6-8b65-0333424a729f"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258620689655172	"WXS"	FALSE
"4584"	"DNAH12"	201625	"mskcc.org"	"GRCh37"	"3"	57485885	57485886	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs74525362"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1335+1162dupG"	""	""	"ENST00000311202"	""	7	"."	5	1	"."	0	"DNAH12,intron_variant,,ENST00000351747,NM_178504.4;DNAH12,intron_variant,,ENST00000495027,;DNAH12,intron_variant,,ENST00000389536,;DNAH12,intron_variant,,ENST00000311202,NM_198564.3;"	"C"	"ENSG00000174844"	"ENST00000311202"	"Transcript"	"intron_variant"	"-/2048"	"-/1374"	"-/457"	""	""	"rs74525362"	"1"	NA	-1	"DNAH12"	"HGNC"	2943	"protein_coding"	"YES"	"CCDS33771.1"	"ENSP00000312554"	"Q6ZR08"	""	"UPI000036716B"	"NM_198564.3"	NA	NA	""	"11/11"	""	"-:0.4523"	"C:0.3177"	"C:0.5778"	NA	"C:0.497"	"C:0.7018"	"C:0.7311"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"8669328c-280f-11e6-8b65-0333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4585"	"PXK"	54899	"mskcc.org"	"GRCh37"	"3"	58351676	58351676	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.153+25delG"	""	""	"ENST00000356151"	""	140	"."	3	59	"."	0	"PXK,intron_variant,,ENST00000463280,;PXK,intron_variant,,ENST00000479241,;PXK,intron_variant,,ENST00000356151,NM_017771.3;PXK,intron_variant,,ENST00000484288,;PXK,intron_variant,,ENST00000302779,;PXK,intron_variant,,ENST00000383716,;PXK,intron_variant,,ENST00000383715,;PXK,intron_variant,,ENST00000536660,;PXK,intron_variant,,ENST00000491164,;PXK,intron_variant,,ENST00000468776,;PXK,intron_variant,,ENST00000477308,;"	"-"	"ENSG00000168297"	"ENST00000356151"	"Transcript"	"intron_variant"	"-/2037"	"-/1737"	"-/578"	""	""	""	"1"	NA	1	"PXK"	"HGNC"	23326	"protein_coding"	"YES"	"CCDS2889.1"	"ENSP00000348472"	"Q7Z7A4"	"U3KQS4"	"UPI000004A035"	"NM_017771.3"	NA	NA	""	"2/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"71d83da4-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL99.00to99.50"	"FALSE"	0.0214285714285714	"WXS"	FALSE
"4586"	"PXK"	54899	"mskcc.org"	"GRCh37"	"3"	58411089	58411090	"+"	"3'Flank"	"DEL"	"CT"	"CT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000356151"	""	8	"."	5	1	"."	0	"PXK,3_prime_UTR_variant,,ENST00000463280,;PXK,3_prime_UTR_variant,,ENST00000479241,;PXK,3_prime_UTR_variant,,ENST00000479134,;PXK,downstream_gene_variant,,ENST00000356151,NM_017771.3;PXK,downstream_gene_variant,,ENST00000484288,;PXK,downstream_gene_variant,,ENST00000302779,;PXK,downstream_gene_variant,,ENST00000383716,;PXK,downstream_gene_variant,,ENST00000383715,;PXK,downstream_gene_variant,,ENST00000536660,;PDHB,downstream_gene_variant,,ENST00000302746,NM_000925.3,NM_001173468.1;PDHB,downstream_gene_variant,,ENST00000474765,;PDHB,downstream_gene_variant,,ENST00000383714,;PDHB,downstream_gene_variant,,ENST00000485460,;PXK,downstream_gene_variant,,ENST00000493474,;PXK,downstream_gene_variant,,ENST00000495557,;RP11-802O23.3,upstream_gene_variant,,ENST00000607214,;PDHB,downstream_gene_variant,,ENST00000479945,;PXK,downstream_gene_variant,,ENST00000468776,;PDHB,downstream_gene_variant,,ENST00000469364,;PXK,downstream_gene_variant,,ENST00000477308,;PDHB,downstream_gene_variant,,ENST00000461692,;PDHB,downstream_gene_variant,,ENST00000480626,;"	"-"	"ENSG00000168297"	"ENST00000356151"	"Transcript"	"downstream_gene_variant"	"-/2037"	"-/1737"	"-/578"	""	""	""	"1"	"211"	1	"PXK"	"HGNC"	23326	"protein_coding"	"YES"	"CCDS2889.1"	"ENSP00000348472"	"Q7Z7A4"	"U3KQS4"	"UPI000004A035"	"NM_017771.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTC"	"71ec445c-280f-11e6-8b65-0333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4587"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	58429245	58429246	"+"	"IGR"	"INS"	"-"	"-"	"TTTTGT"	"rs112173668"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"TTTTGT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112173668"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TTTTGT:0.3912"	"TTTTGT:0.6339"	"TTTTGT:0.4078"	NA	"TTTTGT:0.002"	"TTTTGT:0.5308"	"TTTTGT:0.3088"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"86abae78-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4588"	"PTPRG"	5793	"mskcc.org"	"GRCh37"	"3"	61734415	61734415	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs367768110"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.86-137delG"	""	""	"ENST00000474889"	""	24	"."	4	11	"."	0	"PTPRG,intron_variant,,ENST00000474889,NM_002841.3;PTPRG,intron_variant,,ENST00000295874,;PTPRG,intron_variant,,ENST00000495879,;PTPRG,intron_variant,,ENST00000475527,;"	"-"	"ENSG00000144724"	"ENST00000474889"	"Transcript"	"intron_variant"	"-/9021"	"-/4338"	"-/1445"	""	""	"rs367768110"	"1"	NA	1	"PTPRG"	"HGNC"	9671	"protein_coding"	"YES"	"CCDS2895.1"	"ENSP00000418112"	"P23470"	"O60420"	"UPI00001AEBFB"	"NM_002841.3"	NA	NA	""	"1/29"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"722a0710-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"4589"	"MAGI1"	9223	"mskcc.org"	"GRCh37"	"3"	65623231	65623232	"+"	"Intron"	"INS"	"-"	"-"	"AAAGAAAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.314-15476_314-15469dupCTTTCTTT"	""	""	"ENST00000402939"	""	9	"."	3	2	"."	0	"MAGI1,intron_variant,,ENST00000330909,NM_015520.1;MAGI1,intron_variant,,ENST00000483466,NM_004742.2;MAGI1,intron_variant,,ENST00000402939,NM_001033057.1;MAGI1,intron_variant,,ENST00000497477,;MAGI1,intron_variant,,ENST00000470990,;MAGI1,intron_variant,,ENST00000464060,;"	"AAAGAAAG"	"ENSG00000151276"	"ENST00000402939"	"Transcript"	"intron_variant"	"-/4389"	"-/4389"	"-/1462"	""	""	""	"1"	NA	-1	"MAGI1"	"HGNC"	946	"protein_coding"	"YES"	"CCDS33780.1"	"ENSP00000385450"	"Q96QZ7"	""	"UPI0000457132"	"NM_001033057.1"	NA	NA	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"86ec6b66-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4590"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	66652120	66652121	"+"	"IGR"	"INS"	"-"	"-"	"TTCCT"	"rs141452298"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	3	"."	0	""	"TTCCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141452298"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TTCCT:0.4679"	"TTCCT:0.4644"	"TTCCT:0.4121"	NA	"TTCCT:0.5367"	"TTCCT:0.4264"	"TTCCT:0.4836"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"86fea5b0-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"4591"	"SUCLG2"	8801	"mskcc.org"	"GRCh37"	"3"	67451008	67451008	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs113559159"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1183+147delC"	""	""	"ENST00000493112"	""	20	"."	6	3	"."	0	"SUCLG2,intron_variant,,ENST00000307227,NM_003848.3;SUCLG2,intron_variant,,ENST00000460567,;SUCLG2,intron_variant,,ENST00000493112,NM_001177599.1;"	"-"	"ENSG00000172340"	"ENST00000493112"	"Transcript"	"intron_variant"	"-/1516"	"-/1323"	"-/440"	""	""	"rs113559159"	"1"	NA	-1	"SUCLG2"	"HGNC"	11450	"protein_coding"	"YES"	"CCDS54605.1"	"ENSP00000419325"	"Q96I99"	""	"UPI000189265B"	"NM_001177599.1"	NA	NA	""	"10/10"	""	"-:0.0645"	"-:0.0514"	"-:0.1009"	NA	"-:0.0913"	"-:0.0775"	"-:0.0153"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGG"	"72d406ac-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"4592"	"GXYLT2"	727936	"mskcc.org"	"GRCh37"	"3"	72949975	72949976	"+"	"Intron"	"INS"	"-"	"-"	"AAC"	"rs71123999"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.276-7542_276-7540dupAAC"	""	""	"ENST00000389617"	""	6	"."	3	1	"."	0	"GXYLT2,intron_variant,,ENST00000389617,NM_001080393.1;"	"AAC"	"ENSG00000172986"	"ENST00000389617"	"Transcript"	"intron_variant"	"-/3260"	"-/1332"	"-/443"	""	""	"rs71123999"	"1"	NA	1	"GXYLT2"	"HGNC"	33383	"protein_coding"	"YES"	"CCDS46870.1"	"ENSP00000374268"	"A0PJZ3"	"C9J3Q6"	"UPI00001D7E8F"	"NM_001080393.1"	NA	NA	""	"1/6"	""	"AAC:0.1768"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"874938e6-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4593"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	80451378	80451379	"+"	"IGR"	"INS"	"-"	"-"	"GGGGTCA"	"rs142602969"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	6	4	"."	0	""	"GGGGTCA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142602969"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GGGGTCA:0.2129"	"GGGGTCA:0.1172"	"GGGGTCA:0.2118"	NA	"GGGGTCA:0.2619"	"GGGGTCA:0.3072"	"GGGGTCA:0.1953"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"876ccc2a-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4594"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	87543681	87543682	"+"	"IGR"	"INS"	"-"	"-"	"AGAA"	"rs147977077"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"."	6	3	"."	0	""	"AGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147977077"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1697"	"AGAA:0.7398"	"AGAA:0.9366"	NA	"AGAA:0.7143"	"AGAA:0.8887"	"AGAA:0.9366"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"878aa894-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WXS"	FALSE
"4595"	"ST3GAL6"	10402	"mskcc.org"	"GRCh37"	"3"	98501760	98501779	"+"	"Intron"	"DEL"	"TACTCAGCTCAGTCTATTAC"	"TACTCAGCTCAGTCTATTAC"	"AAACTCCTGACCCTA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TACTCAGCTCAGTCTATTAC"	"TACTCAGCTCAGTCTATTAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.336-2029_336-2010delTACTCAGCTCAGTCTATTACinsAAACTCCTGACCCTA"	""	""	"ENST00000394162"	""	48	"."	20	40	"."	0	"ST3GAL6,intron_variant,,ENST00000265261,NM_001271142.1,NM_001271147.1;ST3GAL6,intron_variant,,ENST00000394162,NM_006100.3,NM_001271145.1;ST3GAL6,intron_variant,,ENST00000483910,NM_001271146.1;ST3GAL6,intron_variant,,ENST00000492254,;ST3GAL6,intron_variant,,ENST00000485391,;ST3GAL6,intron_variant,,ENST00000486334,;ST3GAL6,intron_variant,,ENST00000485145,;ST3GAL6,intron_variant,,ENST00000460774,;ST3GAL6,intron_variant,,ENST00000497008,;ST3GAL6,intron_variant,,ENST00000477574,;ST3GAL6,downstream_gene_variant,,ENST00000468553,;ST3GAL6,non_coding_transcript_exon_variant,,ENST00000466482,;ST3GAL6,intron_variant,,ENST00000462152,;ST3GAL6,intron_variant,,ENST00000474595,;ST3GAL6,upstream_gene_variant,,ENST00000477899,;ST3GAL6,upstream_gene_variant,,ENST00000493953,;ST3GAL6,intron_variant,,ENST00000486249,;ST3GAL6,intron_variant,,ENST00000469105,;ST3GAL6,intron_variant,,ENST00000497621,;ST3GAL6,intron_variant,,ENST00000495376,;ST3GAL6,downstream_gene_variant,,ENST00000476833,;PDLIM1P4,non_coding_transcript_exon_variant,,ENST00000504327,;"	"AAACTCCTGACCCTA"	"ENSG00000064225"	"ENST00000394162"	"Transcript"	"intron_variant"	"-/2092"	"-/996"	"-/331"	""	""	""	"1"	NA	1	"ST3GAL6"	"HGNC"	18080	"protein_coding"	"YES"	"CCDS2933.1"	"ENSP00000377717"	"Q9Y274"	"C9JXM2,C9JWJ3,C9J0E2"	"UPI0000073CE3"	"NM_006100.3,NM_001271145.1"	NA	NA	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTACTCAGCTCAGTCTATTACT"	"817b2cbc-280f-11e6-8b65-0333424a729f"	"1186"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"4596"	"DCBLD2"	131566	"mskcc.org"	"GRCh37"	"3"	98531519	98531519	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs34899871"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1213-193delC"	""	""	"ENST00000326840"	""	12	"."	3	2	"."	0	"DCBLD2,intron_variant,,ENST00000326840,NM_080927.3;DCBLD2,intron_variant,,ENST00000326857,;ST3GAL6,intron_variant,,ENST00000491912,;ST3GAL6,intron_variant,,ENST00000495502,;DCBLD2,non_coding_transcript_exon_variant,,ENST00000470393,;DCBLD2,intron_variant,,ENST00000479144,;DCBLD2,intron_variant,,ENST00000460008,;DCBLD2,upstream_gene_variant,,ENST00000494614,;"	"-"	"ENSG00000057019"	"ENST00000326840"	"Transcript"	"intron_variant"	"-/6122"	"-/2328"	"-/775"	""	""	"rs34899871"	"1"	NA	-1	"DCBLD2"	"HGNC"	24627	"protein_coding"	"YES"	"CCDS46878.1"	"ENSP00000321573"	"Q96PD2"	"B7Z7Y3"	"UPI0000072ABB"	"NM_080927.3"	NA	NA	""	"9/15"	""	"-:0.0345"	"-:0.059"	"-:0.0303"	NA	"-:0.001"	"-:0.0646"	"-:0.0082"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGT"	"74f3ca62-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4597"	"DCBLD2"	131566	"mskcc.org"	"GRCh37"	"3"	98544488	98544507	"+"	"Intron"	"DEL"	"TATATATATATATATATATA"	"TATATATATATATATATATA"	"-"	"rs762399403"	NA	"JHCCPT5"	"JHCCPN5"	"TATATATATATATATATATA"	"TATATATATATATATATATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.572-297_572-278delTATATATATATATATATATA"	""	""	"ENST00000326840"	""	14	"."	5	4	"."	0	"DCBLD2,intron_variant,,ENST00000326840,NM_080927.3;DCBLD2,intron_variant,,ENST00000326857,;DCBLD2,intron_variant,,ENST00000469648,;DCBLD2,intron_variant,,ENST00000486004,;ST3GAL6,downstream_gene_variant,,ENST00000491912,;ST3GAL6,downstream_gene_variant,,ENST00000495502,;"	"-"	"ENSG00000057019"	"ENST00000326840"	"Transcript"	"intron_variant"	"-/6122"	"-/2328"	"-/775"	""	""	"rs762399403"	"1"	NA	-1	"DCBLD2"	"HGNC"	24627	"protein_coding"	"YES"	"CCDS46878.1"	"ENSP00000321573"	"Q96PD2"	"B7Z7Y3"	"UPI0000072ABB"	"NM_080927.3"	NA	NA	""	"3/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTATATATATATATATATATAT"	"74f85316-280f-11e6-8b65-0333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"4598"	"COL8A1"	1295	"mskcc.org"	"GRCh37"	"3"	99440275	99440280	"+"	"Intron"	"DEL"	"AAGGGG"	"AAGGGG"	"-"	"rs71821061"	NA	"JHCCPT5"	"JHCCPN5"	"AAGGGG"	"AAGGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-128-23449_-128-23444delGAAGGG"	""	""	"ENST00000261037"	""	13	"."	4	4	"."	0	"COL8A1,intron_variant,,ENST00000261037,NM_001850.4;COL8A1,intron_variant,,ENST00000273342,NM_020351.3;COL8A1,intron_variant,,ENST00000452013,;COL8A1,intron_variant,,ENST00000462604,;"	"-"	"ENSG00000144810"	"ENST00000261037"	"Transcript"	"intron_variant"	"-/5705"	"-/2235"	"-/744"	""	""	"rs71821061"	"1"	NA	1	"COL8A1"	"HGNC"	2215	"protein_coding"	"YES"	"CCDS2934.1"	"ENSP00000261037"	"P27658"	"C9JTN9"	"UPI0000126D21"	"NM_001850.4"	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAGGGGA"	"7505af02-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"4599"	"TBC1D23"	55773	"mskcc.org"	"GRCh37"	"3"	100018361	100018364	"+"	"Intron"	"DEL"	"TTGT"	"TTGT"	"-"	"rs529835990"	NA	"JHCCPT5"	"JHCCPN5"	"TTGT"	"TTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1092+204_1092+207delGTTT"	""	""	"ENST00000394144"	""	33	"."	9	8	"."	0	"TBC1D23,intron_variant,,ENST00000394144,NM_001199198.2;TBC1D23,intron_variant,,ENST00000344949,NM_018309.4;TBC1D23,intron_variant,,ENST00000475134,;TBC1D23,intron_variant,,ENST00000486274,;TBC1D23,upstream_gene_variant,,ENST00000496167,;"	"-"	"ENSG00000036054"	"ENST00000394144"	"Transcript"	"intron_variant"	"-/3677"	"-/2100"	"-/699"	""	""	"rs529835990"	"1"	NA	1	"TBC1D23"	"HGNC"	25622	"protein_coding"	"YES"	"CCDS56265.1"	"ENSP00000377700"	"Q9NUY8"	"B3KS68"	"UPI000013D5E5"	"NM_001199198.2"	NA	NA	""	"10/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"18"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTGTT"	"751bf852-280f-11e6-8b65-0333424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4600"	"TFG"	10342	"mskcc.org"	"GRCh37"	"3"	100464024	100464025	"+"	"Intron"	"DEL"	"TT"	"TT"	"-"	"rs35495062"	NA	"JHCCPT5"	"JHCCPN5"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.820+252_820+253delTT"	""	""	"ENST00000240851"	""	6	"."	3	1	"."	0	"TFG,intron_variant,,ENST00000240851,NM_001195478.1,NM_006070.5,NM_001195479.1;TFG,intron_variant,,ENST00000476228,;TFG,intron_variant,,ENST00000418917,NM_001007565.2;TFG,intron_variant,,ENST00000490574,;ABI3BP,downstream_gene_variant,,ENST00000471714,;ABI3BP,downstream_gene_variant,,ENST00000284322,NM_015429.3;TFG,intron_variant,,ENST00000481203,;ABI3BP,downstream_gene_variant,,ENST00000470336,;"	"-"	"ENSG00000114354"	"ENST00000240851"	"Transcript"	"intron_variant"	"-/1978"	"-/1203"	"-/400"	""	""	"rs35495062"	"1"	NA	1	"TFG"	"HGNC"	11758	"protein_coding"	"YES"	"CCDS2939.1"	"ENSP00000240851"	"Q92734"	"C9JUE0,C9JTY3,C9JJP5"	"UPI0000073CDE"	"NM_001195478.1,NM_006070.5,NM_001195479.1"	NA	NA	""	"7/7"	""	"-:0.3576"	"-:0.3502"	"-:0.4337"	NA	"-:0.12"	"-:0.3767"	"-:0.5389"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGTTT"	"7548c5d0-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	TRUE
"4601"	"ABI3BP"	25890	"mskcc.org"	"GRCh37"	"3"	100603833	100603834	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs5851235"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.717+546dupT"	""	""	"ENST00000284322"	""	6	"."	4	1	"."	0	"ABI3BP,intron_variant,,ENST00000471714,;ABI3BP,intron_variant,,ENST00000284322,NM_015429.3;ABI3BP,intron_variant,,ENST00000495063,;ABI3BP,intron_variant,,ENST00000527258,;ABI3BP,intron_variant,,ENST00000483129,;ABI3BP,downstream_gene_variant,,ENST00000530539,;ABI3BP,intron_variant,,ENST00000475896,;"	"A"	"ENSG00000154175"	"ENST00000284322"	"Transcript"	"intron_variant"	"-/4498"	"-/3228"	"-/1075"	""	""	"rs5851235"	"1"	NA	-1	"ABI3BP"	"HGNC"	17265	"protein_coding"	"YES"	"CCDS46880.1"	"ENSP00000284322"	"Q7Z7G0"	""	"UPI000011C136"	"NM_015429.3"	NA	NA	""	"6/34"	""	"-:0.3277"	"A:0.4697"	"A:0.7752"	NA	"A:0.7738"	"A:0.7873"	"A:0.6503"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"88034f56-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4602"	"CBLB"	868	"mskcc.org"	"GRCh37"	"3"	105553020	105553021	"+"	"Intron"	"INS"	"-"	"AAC"	"AAC"	"rs10654632"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.419+19235_419+19237dupGTT"	""	""	"ENST00000264122"	""	8	"."	6	1	"."	0	"CBLB,intron_variant,,ENST00000264122,NM_170662.3;CBLB,intron_variant,,ENST00000394027,;CBLB,intron_variant,,ENST00000403724,;CBLB,intron_variant,,ENST00000405772,;CBLB,intron_variant,,ENST00000545639,;"	"AAC"	"ENSG00000114423"	"ENST00000264122"	"Transcript"	"intron_variant"	"-/6780"	"-/2949"	"-/982"	""	""	"rs10654632"	"1"	NA	-1	"CBLB"	"HGNC"	1542	"protein_coding"	"YES"	"CCDS2948.1"	"ENSP00000264122"	"Q13191"	"C9JU85,B5MC15"	"UPI00001AE89F"	"NM_170662.3"	NA	NA	""	"3/18"	""	"-:0.1306"	"AAC:0.8139"	"AAC:0.8055"	NA	"AAC:0.872"	"AAC:0.9573"	"AAC:0.8967"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"88335bba-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	TRUE
"4603"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	106154879	106154884	"+"	"IGR"	"DEL"	"AGAAAG"	"AGAAAG"	"-"	"rs137978116"	NA	"JHCCPT5"	"JHCCPN5"	"AGAAAG"	"AGAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	25	"."	6	10	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs137978116"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1673"	"-:0.0371"	"-:0.1556"	NA	"-:0.0923"	"-:0.2694"	"-:0.3241"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGAAAGA"	"7608b020-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WXS"	FALSE
"4604"	"RP11-702L6.4"	401082	"mskcc.org"	"GRCh37"	"3"	109212311	109212311	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34228256"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.465-674delT"	""	""	"ENST00000497996"	""	8	"."	3	1	"."	0	"RP11-702L6.4,intron_variant,,ENST00000497996,;AC092905.1,upstream_gene_variant,,ENST00000516732,;"	"-"	"ENSG00000228980"	"ENST00000497996"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1493"	""	""	""	""	"rs34228256"	"1"	NA	1	"RP11-702L6.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/4"	""	"-:0.2562"	"-:0.2935"	"-:0.3343"	NA	"-:0.0883"	"-:0.3976"	"-:0.1779"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"76d0251a-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4605"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	109648899	109648900	"+"	"IGR"	"INS"	"-"	"-"	"TCTTTCTTTCTTTTTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	2	"."	0	""	"TCTTTCTTTCTTTTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"88816148-280f-11e6-8b65-0333424a729f"	"234"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4606"	"GTPBP8"	29083	"mskcc.org"	"GRCh37"	"3"	112719791	112719791	"+"	"3'UTR"	"DEL"	"C"	"C"	"-"	"rs776496412"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*25delC"	""	""	"ENST00000383678"	"6/6"	219	"."	5	86	"."	0	"GTPBP8,3_prime_UTR_variant,,ENST00000383677,NM_138485.1;GTPBP8,3_prime_UTR_variant,,ENST00000473129,;GTPBP8,3_prime_UTR_variant,,ENST00000383678,NM_014170.2;GTPBP8,3_prime_UTR_variant,,ENST00000467752,;C3orf17,downstream_gene_variant,,ENST00000314400,NM_015412.3;C3orf17,downstream_gene_variant,,ENST00000383675,;C3orf17,downstream_gene_variant,,ENST00000393857,;GTPBP8,3_prime_UTR_variant,,ENST00000485330,;GTPBP8,3_prime_UTR_variant,,ENST00000295864,;C3orf17,downstream_gene_variant,,ENST00000486271,;C3orf17,downstream_gene_variant,,ENST00000472637,;C3orf17,downstream_gene_variant,,ENST00000473284,;C3orf17,downstream_gene_variant,,ENST00000469169,;C3orf17,downstream_gene_variant,,ENST00000474311,;C3orf17,downstream_gene_variant,,ENST00000489848,;C3orf17,downstream_gene_variant,,ENST00000469809,;C3orf17,downstream_gene_variant,,ENST00000462295,;C3orf17,downstream_gene_variant,,ENST00000472705,;C3orf17,downstream_gene_variant,,ENST00000461381,;GTPBP8,downstream_gene_variant,,ENST00000488781,;"	"-"	"ENSG00000163607"	"ENST00000383678"	"Transcript"	"3_prime_UTR_variant"	"962/1360"	"-/855"	"-/284"	""	""	"rs776496412"	"1"	NA	1	"GTPBP8"	"HGNC"	25007	"protein_coding"	"YES"	"CCDS33820.1"	"ENSP00000373176"	"Q8N3Z3"	"C9J0K3"	"UPI00000732BA"	"NM_014170.2"	NA	NA	"6/6"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"9.482e-06"	"0"	"0"	"0"	"0"	"3.027e-05"	"0"	"0"	NA	"PASS"	"TTCA"	"776b887a-280f-11e6-8b65-0333424a729f"	"300"	1.6e-05	"1/62502"	"1/105468"	"0/5774"	"0/6872"	"0/3786"	"0/4540"	"1/33034"	"0/426"	"0/8070"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.0228310502283105	"WXS"	FALSE
"4607"	"DRD3"	1814	"mskcc.org"	"GRCh37"	"3"	113875719	113875724	"+"	"Intron"	"DEL"	"TTTCTT"	"TTTCTT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTCTT"	"TTTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.383+2884_383+2889delAAGAAA"	""	""	"ENST00000383673"	""	7	"."	4	1	"."	0	"DRD3,intron_variant,,ENST00000383673,NM_000796.3;DRD3,intron_variant,,ENST00000460779,NM_001282563.1;DRD3,intron_variant,,ENST00000467632,;DRD3,intron_variant,,ENST00000295881,NM_033663.3;"	"-"	"ENSG00000151577"	"ENST00000383673"	"Transcript"	"intron_variant"	"-/1640"	"-/1203"	"-/400"	""	""	""	"1"	NA	-1	"DRD3"	"HGNC"	3024	"protein_coding"	"YES"	"CCDS2978.1"	"ENSP00000373169"	"P35462"	""	"UPI000013E2C2"	"NM_000796.3"	NA	NA	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"-6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTTTCTTTCTTTTTCTTT"	"818136ca-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4608"	"ZNF80"	7634	"mskcc.org"	"GRCh37"	"3"	113955055	113955055	"+"	"3'UTR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*45delC"	""	""	"ENST00000482457"	"1/1"	166	"."	3	43	"."	0	"ZNF80,3_prime_UTR_variant,,ENST00000482457,NM_007136.3;RP11-553L6.2,downstream_gene_variant,,ENST00000493033,;RP11-553L6.2,downstream_gene_variant,,ENST00000481773,;ZNF80,3_prime_UTR_variant,,ENST00000308095,;RP11-553L6.3,upstream_gene_variant,,ENST00000473625,;"	"-"	"ENSG00000174255"	"ENST00000482457"	"Transcript"	"3_prime_UTR_variant"	"1371/2939"	"-/822"	"-/273"	""	""	""	"1"	NA	-1	"ZNF80"	"HGNC"	13155	"protein_coding"	"YES"	"CCDS2979.1"	"ENSP00000417192"	"P51504"	""	"UPI000013ECC4"	"NM_007136.3"	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGA"	"7812923c-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0180722891566265	"WXS"	FALSE
"4609"	"LSAMP"	4045	"mskcc.org"	"GRCh37"	"3"	117131432	117131437	"+"	"Intron"	"DEL"	"CTCTCT"	"CTCTCT"	"-"	"rs56366454"	NA	"JHCCPT5"	"JHCCPN5"	"CTCTCT"	"CTCTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67+584592_67+584597delAGAGAG"	""	""	"ENST00000539563"	""	19	"."	3	7	"."	0	"LSAMP,intron_variant,,ENST00000539563,;"	"-"	"ENSG00000185565"	"ENST00000539563"	"Transcript"	"intron_variant"	"-/1077"	"-/1077"	"-/358"	""	""	"rs56366454"	"1"	NA	-1	"LSAMP"	"HGNC"	6705	"protein_coding"	""	""	"ENSP00000443429"	""	"F5H5G1"	"UPI0002064E9B"	""	NA	NA	""	"1/9"	""	"-:0.4004"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTCTCTC"	"7837b314-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WXS"	FALSE
"4610"	"LSAMP"	4045	"mskcc.org"	"GRCh37"	"3"	117134437	117134444	"+"	"Intron"	"DEL"	"TCCCTTCC"	"TCCCTTCC"	"-"	"rs151335101"	NA	"JHCCPT5"	"JHCCPN5"	"TCCCTTCC"	"TCCCTTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67+581585_67+581592delGGAAGGGA"	""	""	"ENST00000539563"	""	13	"."	4	3	"."	0	"LSAMP,intron_variant,,ENST00000539563,;"	"-"	"ENSG00000185565"	"ENST00000539563"	"Transcript"	"intron_variant"	"-/1077"	"-/1077"	"-/358"	""	""	"rs151335101"	"1"	NA	-1	"LSAMP"	"HGNC"	6705	"protein_coding"	""	""	"ENSP00000443429"	""	"F5H5G1"	"UPI0002064E9B"	""	NA	NA	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTCCCTTCCT"	"7838337a-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"4611"	"RP11-384F7.1"	0	"mskcc.org"	"GRCh37"	"3"	118078016	118078017	"+"	"Intron"	"INS"	"-"	"-"	"TTG"	"rs112829095"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.232+137451_232+137453dupCAA"	""	""	"ENST00000482142"	""	9	"."	6	1	"."	0	"RP11-384F7.1,intron_variant,,ENST00000482142,;"	"TTG"	"ENSG00000243276"	"ENST00000482142"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/787"	""	""	""	""	"rs112829095"	"1"	NA	-1	"RP11-384F7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/6"	""	"-:0.2302"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"890facb4-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4612"	"RABL3"	285282	"mskcc.org"	"GRCh37"	"3"	120428430	120428431	"+"	"Intron"	"INS"	"-"	"-"	"AGACAAAGCAC"	"rs111603672"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.268+196_268+197insGTGCTTTGTCT"	""	""	"ENST00000273375"	""	13	"."	7	6	"."	0	"RABL3,intron_variant,,ENST00000273375,NM_173825.3;RABL3,intron_variant,,ENST00000483733,;RABL3,intron_variant,,ENST00000491398,;RABL3,intron_variant,,ENST00000468192,;RABL3,intron_variant,,ENST00000473654,;RABL3,intron_variant,,ENST00000485161,;RABL3,intron_variant,,ENST00000465022,;RABL3,intron_variant,,ENST00000481015,;"	"AGACAAAGCAC"	"ENSG00000144840"	"ENST00000273375"	"Transcript"	"intron_variant"	"-/3883"	"-/711"	"-/236"	""	""	"rs111603672"	"1"	NA	-1	"RABL3"	"HGNC"	18072	"protein_coding"	"YES"	"CCDS3001.1"	"ENSP00000273375"	"Q5HYI8"	"F8WF50"	"UPI000004C815"	"NM_173825.3"	NA	NA	""	"3/7"	""	"AGACAAAGCAC:0.2013"	"AGACAAAGCAC:0.1793"	"AGACAAAGCAC:0.2233"	NA	"AGACAAAGCAC:0.127"	"AGACAAAGCAC:0.341"	"AGACAAAGCAC:0.1483"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"89417c94-280f-11e6-8b65-0333424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.538461538461538	"WXS"	FALSE
"4613"	"DIRC2"	84925	"mskcc.org"	"GRCh37"	"3"	122526072	122526073	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs55742114"	NA	"JHCCPT5"	"JHCCPN5"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.437+287_437+288delTA"	""	""	"ENST00000261038"	""	8	"."	3	2	"."	0	"DIRC2,intron_variant,,ENST00000261038,NM_032839.2;DIRC2,intron_variant,,ENST00000477647,;"	"-"	"ENSG00000138463"	"ENST00000261038"	"Transcript"	"intron_variant"	"-/3596"	"-/1437"	"-/478"	""	""	"rs55742114"	"1"	NA	1	"DIRC2"	"HGNC"	16628	"protein_coding"	"YES"	"CCDS3018.1"	"ENSP00000261038"	"Q96SL1"	""	"UPI0000073CC7"	"NM_032839.2"	NA	NA	""	"2/8"	""	"TA:0.3660"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"12"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTAT"	"78e4df76-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4614"	"ADCY5"	111	"mskcc.org"	"GRCh37"	"3"	123022740	123022741	"+"	"Intron"	"INS"	"-"	"-"	"AAGAGAAGAGAAGAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2559+173_2559+174insTTCTTCTCTTCTCTT"	""	""	"ENST00000462833"	""	84	"."	10	37	"."	0	"ADCY5,intron_variant,,ENST00000462833,NM_183357.2;ADCY5,intron_variant,,ENST00000491190,;ADCY5,intron_variant,,ENST00000309879,NM_001199642.1;ADCY5,intron_variant,,ENST00000466617,;ADCY5,intron_variant,,ENST00000468683,;ADCY5,intron_variant,,ENST00000474577,;"	"AAGAGAAGAGAAGAA"	"ENSG00000173175"	"ENST00000462833"	"Transcript"	"intron_variant"	"-/7311"	"-/3786"	"-/1261"	""	""	""	"1"	NA	-1	"ADCY5"	"HGNC"	236	"protein_coding"	"YES"	"CCDS3022.1"	"ENSP00000419361"	"O95622"	"C9JRT8,C9JQ38,B7Z801,B7Z2C7"	"UPI000015E262"	"NM_183357.2"	NA	NA	""	"13/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"89993eac-280f-11e6-8b65-0333424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WXS"	FALSE
"4615"	"PTPLB"	201562	"mskcc.org"	"GRCh37"	"3"	123262268	123262268	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs149188638"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.293-14947delT"	""	""	"ENST00000383657"	""	9	"."	3	1	"."	0	"PTPLB,intron_variant,,ENST00000383657,NM_198402.3;PTPLB,intron_variant,,ENST00000469317,;"	"-"	"ENSG00000206527"	"ENST00000383657"	"Transcript"	"intron_variant"	"-/4257"	"-/765"	"-/254"	""	""	"rs149188638"	"1"	NA	-1	"PTPLB"	"HGNC"	9640	"protein_coding"	"YES"	"CCDS46895.1"	"ENSP00000373153"	"Q6Y1H2"	"C9JWG1"	"UPI0000160B26"	"NM_198402.3"	NA	NA	""	"3/6"	""	"-:0.0853"	"-:0.2118"	"-:0.0692"	NA	"-:0.0238"	"-:0.0586"	"-:0.0164"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"7902920a-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4616"	"MYLK"	4638	"mskcc.org"	"GRCh37"	"3"	123401893	123401897	"+"	"Intron"	"DEL"	"GGCTG"	"-"	"-"	"rs144324897"	NA	"JHCCPT5"	"JHCCPN5"	"GGCTG"	"GGCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3566-740_3566-736delCAGCC"	""	""	"ENST00000360304"	""	12	"."	10	1	"."	0	"MYLK,intron_variant,,ENST00000360772,;MYLK,intron_variant,,ENST00000360304,NM_053025.3;MYLK,intron_variant,,ENST00000359169,NM_053027.3,NM_053028.3;MYLK,intron_variant,,ENST00000346322,NM_053026.3;MYLK,intron_variant,,ENST00000475616,;MYLK,intron_variant,,ENST00000354792,;MYLK,intron_variant,,ENST00000508240,;MYLK,intron_variant,,ENST00000510775,;MYLK,intron_variant,,ENST00000464489,;MYLK,intron_variant,,ENST00000504946,;MYLK,upstream_gene_variant,,ENST00000511058,;"	"-"	"ENSG00000065534"	"ENST00000360304"	"Transcript"	"intron_variant"	"-/7834"	"-/5745"	"-/1914"	""	""	"rs144324897"	"1"	NA	-1	"MYLK"	"HGNC"	7590	"protein_coding"	"YES"	"CCDS46896.1"	"ENSP00000353452"	"Q15746"	"Q06S79,Q05B98,Q05B97,D6R9C2,B4DUE3"	"UPI000020A0AE"	"NM_053025.3"	NA	NA	""	"19/33"	""	"GGCTG:0.0515"	"-:0.8132"	"-:0.9856"	NA	"-:1"	"-:0.999"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTGGCTGG"	"7907cac2-280f-11e6-8b65-0333424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4617"	"MYLK"	4638	"mskcc.org"	"GRCh37"	"3"	123465165	123465167	"+"	"Intron"	"DEL"	"CAA"	"CAA"	"AC"	"rs386665365"	NA	"JHCCPT5"	"JHCCPN5"	"CAA"	"CAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.373+6011_373+6013delTTGinsGT"	""	""	"ENST00000360304"	""	7	"."	3	1	"."	0	"MYLK,intron_variant,,ENST00000360772,;MYLK,intron_variant,,ENST00000360304,NM_053025.3;MYLK,intron_variant,,ENST00000359169,NM_053027.3,NM_053028.3;MYLK,intron_variant,,ENST00000346322,NM_053026.3;MYLK,intron_variant,,ENST00000475616,;MYLK,intron_variant,,ENST00000464489,;MYLK,intron_variant,,ENST00000506361,;MYLK,intron_variant,,ENST00000510571,;"	"AC"	"ENSG00000065534"	"ENST00000360304"	"Transcript"	"intron_variant"	"-/7834"	"-/5745"	"-/1914"	""	""	"rs386665365"	"1"	NA	-1	"MYLK"	"HGNC"	7590	"protein_coding"	"YES"	"CCDS46896.1"	"ENSP00000353452"	"Q15746"	"Q06S79,Q05B98,Q05B97,D6R9C2,B4DUE3"	"UPI000020A0AE"	"NM_053025.3"	NA	NA	""	"5/33"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTCAAT"	"81844cac-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4618"	"MYLK"	4638	"mskcc.org"	"GRCh37"	"3"	123465169	123465169	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.373+6009delT"	""	""	"ENST00000360304"	""	8	"."	3	1	"."	0	"MYLK,intron_variant,,ENST00000360772,;MYLK,intron_variant,,ENST00000360304,NM_053025.3;MYLK,intron_variant,,ENST00000359169,NM_053027.3,NM_053028.3;MYLK,intron_variant,,ENST00000346322,NM_053026.3;MYLK,intron_variant,,ENST00000475616,;MYLK,intron_variant,,ENST00000464489,;MYLK,intron_variant,,ENST00000506361,;MYLK,intron_variant,,ENST00000510571,;"	"-"	"ENSG00000065534"	"ENST00000360304"	"Transcript"	"intron_variant"	"-/7834"	"-/5745"	"-/1914"	""	""	""	"1"	NA	-1	"MYLK"	"HGNC"	7590	"protein_coding"	"YES"	"CCDS46896.1"	"ENSP00000353452"	"Q15746"	"Q06S79,Q05B98,Q05B97,D6R9C2,B4DUE3"	"UPI000020A0AE"	"NM_053025.3"	NA	NA	""	"5/33"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATAA"	"790f2952-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4619"	"SLC41A3"	54946	"mskcc.org"	"GRCh37"	"3"	125740073	125740076	"+"	"Intron"	"DEL"	"CTTT"	"-"	"-"	"rs35147938"	NA	"JHCCPT5"	"JHCCPN5"	"CTTT"	"CTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.745+1553_745+1556delAAAG"	""	""	"ENST00000315891"	""	7	"."	6	2	"."	0	"SLC41A3,intron_variant,,ENST00000383598,NM_001008487.1;SLC41A3,intron_variant,,ENST00000360370,;SLC41A3,intron_variant,,ENST00000315891,NM_017836.3,NM_001008485.1;SLC41A3,intron_variant,,ENST00000346785,NM_001008486.1;SLC41A3,intron_variant,,ENST00000508835,NM_001164475.1;SLC41A3,intron_variant,,ENST00000514677,;SLC41A3,downstream_gene_variant,,ENST00000513723,;SLC41A3,downstream_gene_variant,,ENST00000514023,;SLC41A3,intron_variant,,ENST00000512557,;SLC41A3,intron_variant,,ENST00000506102,;SLC41A3,intron_variant,,ENST00000507008,;"	"-"	"ENSG00000114544"	"ENST00000315891"	"Transcript"	"intron_variant"	"-/1797"	"-/1524"	"-/507"	""	""	"rs35147938"	"1"	NA	-1	"SLC41A3"	"HGNC"	31046	"protein_coding"	"YES"	"CCDS33843.1"	"ENSP00000326070"	"Q96GZ6"	"D6RF72,D6R9S7,D6R925"	"UPI000013D523"	"NM_017836.3,NM_001008485.1"	NA	NA	""	"6/11"	""	"-:0.3365"	"-:0.3918"	"-:0.2594"	NA	"-:0.3185"	"-:0.3419"	"-:0.3292"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCTTTC"	"7969e900-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"4620"	"MGLL"	11343	"mskcc.org"	"GRCh37"	"3"	127445033	127445033	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs71150492"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.263-3624delT"	""	""	"ENST00000265052"	""	8	"."	4	2	"."	0	"MGLL,intron_variant,,ENST00000434178,;MGLL,intron_variant,,ENST00000265052,NM_001256585.1,NM_007283.6;MGLL,intron_variant,,ENST00000398104,NM_001003794.2;MGLL,intron_variant,,ENST00000398101,;MGLL,intron_variant,,ENST00000453507,;MGLL,intron_variant,,ENST00000493611,;MGLL,upstream_gene_variant,,ENST00000484451,;MGLL,upstream_gene_variant,,ENST00000487473,;MGLL,intron_variant,,ENST00000479967,;MGLL,intron_variant,,ENST00000465597,;MGLL,intron_variant,,ENST00000476654,;"	"-"	"ENSG00000074416"	"ENST00000265052"	"Transcript"	"intron_variant"	"-/4612"	"-/942"	"-/313"	""	""	"rs71150492"	"1"	NA	-1	"MGLL"	"HGNC"	17038	"protein_coding"	"YES"	"CCDS46902.1"	"ENSP00000265052"	"Q99685"	"C9JAM4,C9J8Q3"	"UPI000004EC90"	"NM_001256585.1,NM_007283.6"	NA	NA	""	"3/7"	""	"A:0.2332"	"-:0.8623"	"-:0.8069"	NA	"-:0.5377"	"-:0.8897"	"-:0.7188"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"79ca141a-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4621"	"SEC61A1"	29927	"mskcc.org"	"GRCh37"	"3"	127776684	127776685	"+"	"Intron"	"INS"	"-"	"A"	"A"	"rs5852533"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.352+1002dupA"	""	""	"ENST00000243253"	""	6	"."	5	3	"."	0	"SEC61A1,intron_variant,,ENST00000243253,NM_013336.3;SEC61A1,intron_variant,,ENST00000424880,;SEC61A1,intron_variant,,ENST00000464451,;SEC61A1,intron_variant,,ENST00000481210,;SEC61A1,downstream_gene_variant,,ENST00000491668,;"	"A"	"ENSG00000058262"	"ENST00000243253"	"Transcript"	"intron_variant"	"-/3635"	"-/1431"	"-/476"	""	""	"rs5852533"	"1"	NA	1	"SEC61A1"	"HGNC"	18276	"protein_coding"	"YES"	"CCDS3046.1"	"ENSP00000243253"	"P61619"	"B3KNG2,C9JXC6,B3KNF6,B3KME8"	"UPI00000041A9"	"NM_013336.3"	NA	NA	""	"5/11"	""	"-:0.0000"	"A:1"	"A:1"	NA	"A:1"	"A:1"	"A:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"8a14de86-280f-11e6-8b65-0333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4622"	"ENSR00001373544"	0	"mskcc.org"	"GRCh37"	"3"	128950853	128950853	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs11359368"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001373544"	""	10	"."	5	1	"."	0	""	"-"	""	"ENSR00001373544"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs11359368"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.1542"	"-:0.5968"	"-:0.9524"	NA	"-:0.9038"	"-:0.992"	"-:0.8967"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"7a190f52-280f-11e6-8b65-0333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4623"	"RP13-685P2.8"	0	"mskcc.org"	"GRCh37"	"3"	129052965	129052966	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs58532665"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000604126"	""	18	"."	6	4	"."	0	"RP13-685P2.8,upstream_gene_variant,,ENST00000604126,;"	"G"	"ENSG00000270492"	"ENST00000604126"	"Transcript"	"upstream_gene_variant"	"-/489"	""	""	""	""	"rs58532665"	"1"	"463"	1	"RP13-685P2.8"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.1997"	"G:0.5265"	"G:0.147"	NA	"G:0.0258"	"G:0.1004"	"G:0.0767"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"8a3ee640-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4624"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	129768597	129768598	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs201813651"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201813651"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.0068"	"C:0.0068"	"C:0.0043"	NA	"C:0.002"	"C:0.0189"	"C:0.001"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"8a42664e-280f-11e6-8b65-0333424a729f"	"142"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4625"	"ACPP"	55	"mskcc.org"	"GRCh37"	"3"	132061748	132061748	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs61458858"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.648+265delT"	""	""	"ENST00000351273"	""	25	"."	10	8	"."	0	"ACPP,intron_variant,,ENST00000336375,NM_001099.4;ACPP,intron_variant,,ENST00000351273,NM_001134194.1;ACPP,intron_variant,,ENST00000475741,;ACPP,downstream_gene_variant,,ENST00000495911,;ACPP,intron_variant,,ENST00000512463,;"	"-"	"ENSG00000014257"	"ENST00000351273"	"Transcript"	"intron_variant"	"-/1783"	"-/1257"	"-/418"	""	""	"rs61458858"	"1"	NA	1	"ACPP"	"HGNC"	125	"protein_coding"	"YES"	"CCDS46916.1"	"ENSP00000323036"	"P15309"	"Q6LBH1"	"UPI000020A26F"	"NM_001134194.1"	NA	NA	""	"6/10"	""	"-:0.3237"	"-:0.3593"	"-:0.3761"	NA	"-:0.119"	"-:0.3748"	"-:0.3967"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTT"	"7a9e4c1c-280f-11e6-8b65-0333424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4626"	"PPP2R3A"	5523	"mskcc.org"	"GRCh37"	"3"	135687497	135687498	"+"	"Intron"	"INS"	"-"	"CTGTT"	"CTGTT"	"rs11282193"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-441+2806_-441+2807insCTGTT"	""	""	"ENST00000264977"	""	7	"."	6	1	"."	0	"PPP2R3A,intron_variant,,ENST00000264977,NM_001190447.1,NM_002718.4;PPP2R3A,intron_variant,,ENST00000490467,;"	"CTGTT"	"ENSG00000073711"	"ENST00000264977"	"Transcript"	"intron_variant"	"-/6795"	"-/3453"	"-/1150"	""	""	"rs11282193"	"1"	NA	1	"PPP2R3A"	"HGNC"	9307	"protein_coding"	"YES"	"CCDS3087.1"	"ENSP00000264977"	"Q06190"	""	"UPI0000124EAC"	"NM_001190447.1,NM_002718.4"	NA	NA	""	"1/13"	""	"CTGTT:0.2139"	"CTGTT:0.3003"	"CTGTT:0.1556"	NA	"CTGTT:0.0258"	"CTGTT:0.2803"	"CTGTT:0.2638"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"8ab8d9f0-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"4627"	"NCK1"	4690	"mskcc.org"	"GRCh37"	"3"	136665509	136665524	"+"	"Intron"	"DEL"	"TGGATGCAATGTGTAA"	"TGGATGCAATGTGTAA"	"-"	"rs138413549"	NA	"JHCCPT5"	"JHCCPN5"	"TGGATGCAATGTGTAA"	"TGGATGCAATGTGTAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.939+372_939+387delTGGATGCAATGTGTAA"	""	""	"ENST00000481752"	""	11	"."	3	4	"."	0	"NCK1,intron_variant,,ENST00000469404,NM_001190796.1;NCK1,intron_variant,,ENST00000481752,;NCK1,intron_variant,,ENST00000288986,NM_006153.4;NCK1,intron_variant,,ENST00000467911,;NCK1,downstream_gene_variant,,ENST00000491539,;NCK1,downstream_gene_variant,,ENST00000485096,;NCK1,downstream_gene_variant,,ENST00000488930,;NCK1,downstream_gene_variant,,ENST00000496489,;IL20RB,intron_variant,,ENST00000484501,;NCK1,intron_variant,,ENST00000482071,;"	"-"	"ENSG00000158092"	"ENST00000481752"	"Transcript"	"intron_variant"	"-/1971"	"-/1134"	"-/377"	""	""	"rs138413549"	"1"	NA	1	"NCK1"	"HGNC"	7664	"protein_coding"	"YES"	"CCDS3092.1"	"ENSP00000417273"	"P16333"	"C9K098,C9JVV5,C9J0K5"	"UPI000012FE3E"	""	NA	NA	""	"3/3"	""	"TGGATGCAATGTGTAA:0.2947"	"-:0.5696"	"-:0.7666"	NA	"-:0.8502"	"-:0.6581"	"-:0.7444"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTGGATGCAATGTGTAAG"	"7b3d2b3e-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4628"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	141369732	141369733	"+"	"IGR"	"DEL"	"TG"	"-"	"-"	"rs66915578"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	6	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs66915578"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3740"	"-:0.5106"	"-:0.3285"	NA	"-:0.2232"	"-:0.4264"	"-:0.3231"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"7baffefc-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"4629"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	141577793	141577794	"+"	"IGR"	"INS"	"-"	"AAAGAAAG"	"AAAGAAAG"	"rs140985714"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	8	2	"."	0	""	"AAAGAAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140985714"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"8b086c54-280f-11e6-8b65-0333424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.888888888888889	"WXS"	FALSE
"4630"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	142614240	142614241	"+"	"IGR"	"INS"	"-"	"-"	"TATC"	"rs147178331"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	4	"."	0	""	"TATC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147178331"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TATC:0.3934"	"TATC:0.7035"	"TATC:0.3199"	NA	"TATC:0.3502"	"TATC:0.2087"	"TATC:0.2607"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"8b2c2aea-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4631"	"SLC9A9"	285195	"mskcc.org"	"GRCh37"	"3"	143483803	143483808	"+"	"Intron"	"DEL"	"TTTCTC"	"TTTCTC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTCTC"	"TTTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.533+30035_533+30040delGAGAAA"	""	""	"ENST00000316549"	""	12	"."	4	2	"."	0	"SLC9A9,intron_variant,,ENST00000316549,NM_173653.3;SLC9A9,intron_variant,,ENST00000474727,;"	"-"	"ENSG00000181804"	"ENST00000316549"	"Transcript"	"intron_variant"	"-/3627"	"-/1938"	"-/645"	""	""	""	"1"	NA	-1	"SLC9A9"	"HGNC"	20653	"protein_coding"	"YES"	"CCDS33872.1"	"ENSP00000320246"	"Q8IVB4"	""	"UPI0000074664"	"NM_173653.3"	NA	NA	""	"4/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTTTCTCT"	"7c0259ae-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4632"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	144341044	144341045	"+"	"IGR"	"INS"	"-"	"-"	"AGAAAGAA"	"rs757515039"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	5	7	"."	0	""	"AGAAAGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs757515039"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"8b367d9c-280f-11e6-8b65-0333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4633"	"RP11-622L21.1"	0	"mskcc.org"	"GRCh37"	"3"	145241424	145241425	"+"	"RNA"	"INS"	"-"	"-"	"A"	"rs62721261"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.108dupA"	""	""	"ENST00000481075"	"1/1"	33	"."	7	3	"."	0	"RP11-622L21.1,non_coding_transcript_exon_variant,,ENST00000481075,;"	"A"	"ENSG00000244024"	"ENST00000481075"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"100-101/878"	""	""	""	""	"rs62721261"	"1"	NA	1	"RP11-622L21.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"-:0.1444"	"A:0.9592"	"A:0.7781"	NA	"A:0.8036"	"A:0.83"	"A:0.8507"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"8b3bda6c-280f-11e6-8b65-0333424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212121212121212	"WXS"	FALSE
"4634"	"CPA3"	1359	"mskcc.org"	"GRCh37"	"3"	148596816	148596816	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs35739799"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.474+288delA"	""	""	"ENST00000296046"	""	9	"."	6	2	"."	0	"CPA3,intron_variant,,ENST00000296046,NM_001870.2;RP11-680B3.2,intron_variant,,ENST00000488190,;CPA3,upstream_gene_variant,,ENST00000477926,;"	"-"	"ENSG00000163751"	"ENST00000296046"	"Transcript"	"intron_variant"	"-/1795"	"-/1254"	"-/417"	""	""	"rs35739799"	"1"	NA	1	"CPA3"	"HGNC"	2298	"protein_coding"	"YES"	"CCDS3138.1"	"ENSP00000296046"	"P15088"	""	"UPI000013E2F4"	"NM_001870.2"	NA	NA	""	"5/10"	""	"A:0.0308"	"-:0.9977"	"-:0.9611"	NA	"-:0.9494"	"-:0.9592"	"-:0.9673"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"7c46e524-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4635"	"UBQLN4P1"	0	"mskcc.org"	"GRCh37"	"3"	148701961	148701962	"+"	"3'Flank"	"INS"	"-"	"T"	"T"	"rs75680788"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000461599"	""	7	"."	5	1	"."	0	"UBQLN4P1,downstream_gene_variant,,ENST00000461599,;UBQLN4P1,downstream_gene_variant,,ENST00000368308,;"	"T"	"ENSG00000241627"	"ENST00000461599"	"Transcript"	"downstream_gene_variant"	"-/1801"	""	""	""	""	"rs75680788"	"1"	"1693"	-1	"UBQLN4P1"	"HGNC"	31133	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"8b509146-280f-11e6-8b65-0333424a729f"	"280"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4636"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	149228416	149228433	"+"	"IGR"	"DEL"	"CTCTTTCTTTCTTTCCTT"	"CTCTTTCTTTCTTTCCTT"	"-"	"rs148162660"	NA	"JHCCPT5"	"JHCCPN5"	"CTCTTTCTTTCTTTCCTT"	"CTCTTTCTTTCTTTCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148162660"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCTCTTTCTTTCTTTCCTTC"	"7c625dd6-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4637"	"MED12L"	116931	"mskcc.org"	"GRCh37"	"3"	151093758	151093759	"+"	"Intron"	"INS"	"-"	"-"	"ATATATATATATATAT"	"rs148538586"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3760-45_3760-44insTATATATATATATATA"	""	""	"ENST00000474524"	""	23	"."	4	11	"."	0	"MED12L,intron_variant,,ENST00000474524,NM_053002.4;MED12L,intron_variant,,ENST00000273432,;P2RY12,intron_variant,,ENST00000302632,NM_022788.4,NM_176876.2;"	"ATATATATATATATAT"	"ENSG00000144893"	"ENST00000474524"	"Transcript"	"intron_variant"	"-/10744"	"-/6438"	"-/2145"	""	""	"rs148538586"	"1"	NA	1	"MED12L"	"HGNC"	16050	"protein_coding"	"YES"	"CCDS33876.1"	"ENSP00000417235"	"Q86YW9"	""	"UPI000020A46B"	"NM_053002.4"	NA	NA	""	"25/42"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"11"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"8b9d89f6-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"4638"	"IGSF10"	285313	"mskcc.org"	"GRCh37"	"3"	151156612	151156613	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs5853524"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5964-228_5964-227delAT"	""	""	"ENST00000282466"	""	20	"."	3	2	"."	0	"IGSF10,intron_variant,,ENST00000282466,NM_178822.4,NM_001178145.1,NM_001178146.1;IGSF10,intron_variant,,ENST00000489791,;MED12L,downstream_gene_variant,,ENST00000474524,NM_053002.4;IGSF10,intron_variant,,ENST00000495443,;IGSF10,intron_variant,,ENST00000493841,;IGSF10,upstream_gene_variant,,ENST00000497472,;"	"-"	"ENSG00000152580"	"ENST00000282466"	"Transcript"	"intron_variant"	"-/11067"	"-/7872"	"-/2623"	""	""	"rs5853524"	"1"	NA	-1	"IGSF10"	"HGNC"	26384	"protein_coding"	"YES"	"CCDS3160.1"	"ENSP00000282466"	"Q6WRI0"	""	"UPI00001D629A"	"NM_178822.4,NM_001178145.1,NM_001178146.1"	NA	NA	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGATA"	"7cc2c5c2-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"4639"	"MME"	4311	"mskcc.org"	"GRCh37"	"3"	154834379	154834380	"+"	"Intron"	"INS"	"-"	"-"	"TATATATA"	"rs10522735"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.439+41_439+48dupATATATAT"	""	""	"ENST00000460393"	""	178	"."	7	30	"."	0	"MME,intron_variant,,ENST00000460393,NM_007287.2,NM_000902.3;MME,intron_variant,,ENST00000462745,NM_007288.2;MME,intron_variant,,ENST00000492661,;MME,intron_variant,,ENST00000493237,;MME,intron_variant,,ENST00000360490,NM_007289.2;MME,intron_variant,,ENST00000481828,;MME,intron_variant,,ENST00000462837,;MME,downstream_gene_variant,,ENST00000473730,;MME,downstream_gene_variant,,ENST00000491026,;MME,downstream_gene_variant,,ENST00000477669,;"	"TATATATA"	"ENSG00000196549"	"ENST00000460393"	"Transcript"	"intron_variant"	"-/5622"	"-/2253"	"-/750"	""	""	"rs10522735"	"1"	NA	1	"MME"	"HGNC"	7154	"protein_coding"	"YES"	"CCDS3172.1"	"ENSP00000418525"	"P08473"	"C9JR96,C9JDZ3,C9J9X7,C9IYX7"	"UPI0000033C41"	"NM_007287.2,NM_000902.3"	NA	NA	""	"5/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"17"	""	"1"	"0.03482"	"0.01385"	"0.01534"	"0.009596"	"0.03018"	"0.01719"	"0.04772"	"0.1269"	NA	"common_variant"	"AGT"	"8bc18cc0-280f-11e6-8b65-0333424a729f"	"420"	0.03588	"2449/68258"	"3657/105032"	"83/5994"	"93/6062"	"39/4064"	"147/4870"	"607/35304"	"23/482"	"1457/11482"	"PASS"	"FALSE"	0.0393258426966292	"WXS"	FALSE
"4640"	"KCNAB1"	7881	"mskcc.org"	"GRCh37"	"3"	155861359	155861364	"+"	"Intron"	"DEL"	"TTTTTT"	"TTTTTT"	"-"	"rs56216211"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTTT"	"TTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.275+22706_275+22711delTTTTTT"	""	""	"ENST00000490337"	""	74	"."	3	28	"."	0	"KCNAB1,intron_variant,,ENST00000471742,NM_003471.3;KCNAB1,intron_variant,,ENST00000490337,NM_172160.2;KCNAB1,intron_variant,,ENST00000389636,;KCNAB1,intron_variant,,ENST00000472028,;KCNAB1,intron_variant,,ENST00000477912,;KCNAB1,intron_variant,,ENST00000478609,;"	"-"	"ENSG00000169282"	"ENST00000490337"	"Transcript"	"intron_variant"	"-/3122"	"-/1260"	"-/419"	""	""	"rs56216211"	"1"	NA	1	"KCNAB1"	"HGNC"	6228	"protein_coding"	"YES"	"CCDS3174.1"	"ENSP00000419952"	"Q14722"	"B7Z435"	"UPI000012E169"	"NM_172160.2"	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"22"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTTTTTT"	"7d07e486-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0405405405405405	"WXS"	FALSE
"4641"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	156789877	156789878	"+"	"IGR"	"INS"	"-"	"-"	"GAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	22	"."	5	4	"."	0	""	"GAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"8be2b422-280f-11e6-8b65-0333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WXS"	FALSE
"4642"	"MLF1"	4291	"mskcc.org"	"GRCh37"	"3"	158306399	158306400	"+"	"Intron"	"INS"	"-"	"-"	"AC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.96-3823_96-3822insCA"	""	""	"ENST00000392822"	""	24	"."	6	6	"."	0	"MLF1,intron_variant,,ENST00000359117,NM_001130156.2;MLF1,intron_variant,,ENST00000355893,NM_022443.4;MLF1,intron_variant,,ENST00000478894,NM_001195432.1;MLF1,intron_variant,,ENST00000392822,;MLF1,intron_variant,,ENST00000471745,NM_001195434.1;MLF1,intron_variant,,ENST00000484955,NM_001130157.2;MLF1,intron_variant,,ENST00000469452,NM_001195433.1;MLF1,intron_variant,,ENST00000482628,;MLF1,intron_variant,,ENST00000491767,;MLF1,intron_variant,,ENST00000477042,;MLF1,intron_variant,,ENST00000498592,;MLF1,intron_variant,,ENST00000466246,;MLF1,intron_variant,,ENST00000497004,;MLF1,intron_variant,,ENST00000495452,;MLF1,intron_variant,,ENST00000487838,;"	"AC"	"ENSG00000178053"	"ENST00000392822"	"Transcript"	"intron_variant"	"-/1366"	"-/900"	"-/299"	""	""	""	"1"	NA	1	"MLF1"	"HGNC"	7125	"protein_coding"	"YES"	"CCDS56286.1"	"ENSP00000376568"	"P58340"	"C9K0D3,C9JNE5"	"UPI000007134A"	""	NA	NA	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"8bf32870-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	TRUE
"4643"	"NMD3"	51068	"mskcc.org"	"GRCh37"	"3"	160939743	160939763	"+"	"5'UTR"	"DEL"	"TCTCTTTTTTTTTTTTTTTTT"	"TCTCTTTTTTTTTTTTTTTTT"	"CCCAACATTCTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TCTCTTTTTTTTTTTTTTTTT"	"TCTCTTTTTTTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-59_-39delTCTCTTTTTTTTTTTTTTTTTinsCCCAACATTCTC"	""	""	"ENST00000460469"	"1/15"	101	"."	6	45	"."	0	"NMD3,5_prime_UTR_variant,,ENST00000460469,;NMD3,intron_variant,,ENST00000351193,NM_015938.3;NMD3,intron_variant,,ENST00000472947,;NMD3,intron_variant,,ENST00000463518,;NMD3,intron_variant,,ENST00000493066,;NMD3,intron_variant,,ENST00000476237,;NMD3,intron_variant,,ENST00000468606,;NMD3,intron_variant,,ENST00000460503,;NMD3,upstream_gene_variant,,ENST00000478160,;NMD3,intron_variant,,ENST00000473909,;RP11-479I16.2,downstream_gene_variant,,ENST00000603703,;"	"CCCAACATTCTC"	"ENSG00000169251"	"ENST00000460469"	"Transcript"	"5_prime_UTR_variant"	"397-417/3061"	"-/1512"	"-/503"	""	""	""	"1"	NA	1	"NMD3"	"HGNC"	24250	"protein_coding"	"YES"	"CCDS3194.1"	"ENSP00000419004"	"Q96D46"	"C9K0C2,C9J0B9,C9IZW9,C9IY70,B4DKU1"	"UPI0000035FBE"	""	NA	NA	"1/15"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTCTCTTTTTTTTTTTTTTTTTT"	"8197fb3a-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0594059405940594	"WXS"	FALSE
"4644"	"NMD3"	51068	"mskcc.org"	"GRCh37"	"3"	160939743	160939763	"+"	"5'UTR"	"DEL"	"TCTCTTTTTTTTTTTTTTTTT"	"TCTCTTTTTTTTTTTTTTTTT"	"CCCAACATTCTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TCTCTTTTTTTTTTTTTTTTT"	"TCTCTTTTTTTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-59_-39delTCTCTTTTTTTTTTTTTTTTTinsCCCAACATTCTC"	""	""	"ENST00000460469"	"1/15"	99	"."	4	45	"."	0	"NMD3,5_prime_UTR_variant,,ENST00000460469,;NMD3,intron_variant,,ENST00000351193,NM_015938.3;NMD3,intron_variant,,ENST00000472947,;NMD3,intron_variant,,ENST00000463518,;NMD3,intron_variant,,ENST00000493066,;NMD3,intron_variant,,ENST00000476237,;NMD3,intron_variant,,ENST00000468606,;NMD3,intron_variant,,ENST00000460503,;NMD3,upstream_gene_variant,,ENST00000478160,;NMD3,intron_variant,,ENST00000473909,;RP11-479I16.2,downstream_gene_variant,,ENST00000603703,;"	"CCCAACATTCTC"	"ENSG00000169251"	"ENST00000460469"	"Transcript"	"5_prime_UTR_variant"	"397-417/3061"	"-/1512"	"-/503"	""	""	""	"1"	NA	1	"NMD3"	"HGNC"	24250	"protein_coding"	"YES"	"CCDS3194.1"	"ENSP00000419004"	"Q96D46"	"C9K0C2,C9J0B9,C9IZW9,C9IY70,B4DKU1"	"UPI0000035FBE"	""	NA	NA	"1/15"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTCTCTTTTTTTTTTTTTTTTTT"	"81989388-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0404040404040404	"WXS"	FALSE
"4645"	"SI"	6476	"mskcc.org"	"GRCh37"	"3"	164776647	164776648	"+"	"Intron"	"INS"	"-"	"-"	"ACACAC"	"rs138742044"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1398+98_1398+103dupGTGTGT"	""	""	"ENST00000264382"	""	28	"."	4	13	"."	0	"SI,intron_variant,,ENST00000264382,NM_001041.3;"	"ACACAC"	"ENSG00000090402"	"ENST00000264382"	"Transcript"	"intron_variant"	"-/6011"	"-/5484"	"-/1827"	""	""	"rs138742044"	"1"	NA	-1	"SI"	"HGNC"	10856	"protein_coding"	"YES"	"CCDS3196.1"	"ENSP00000264382"	"P14410"	""	"UPI000022C287"	"NM_001041.3"	NA	NA	""	"12/47"	""	"-:0.1440"	"ACACACAC:0.8275"	"ACACACAC:0.7997"	NA	"ACACACAC:0.9345"	"ACACACAC:0.8708"	"ACACACAC:0.8384"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"8c42a508-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"4646"	"SI"	6476	"mskcc.org"	"GRCh37"	"3"	164783253	164783270	"+"	"Intron"	"DEL"	"ATATATATATATATATAT"	"ATATATATATATATATAT"	"-"	"rs10551089,rs778918971"	NA	"JHCCPT5"	"JHCCPN5"	"ATATATATATATATATAT"	"ATATATATATATATATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.636-50_636-33delATATATATATATATATAT"	""	""	"ENST00000264382"	""	37	"."	13	9	"."	0	"SI,intron_variant,,ENST00000264382,NM_001041.3;SI,downstream_gene_variant,,ENST00000476593,;"	"-"	"ENSG00000090402"	"ENST00000264382"	"Transcript"	"intron_variant"	"-/6011"	"-/5484"	"-/1827"	""	""	"rs10551089,rs778918971"	"1"	NA	-1	"SI"	"HGNC"	10856	"protein_coding"	"YES"	"CCDS3196.1"	"ENSP00000264382"	"P14410"	""	"UPI000022C287"	"NM_001041.3"	NA	NA	""	"6/47"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.002946"	"0"	"0"	"0"	"0"	"0.02809"	"0"	"0"	"1"	"common_variant"	"TAATATATATATATATATATA"	"7dbabe76-280f-11e6-8b65-0333424a729f"	"780"	0.00693	"20/2886"	"73/24780"	"0/162"	"0/42"	"0/36"	"0/22"	"20/712"	"0/28"	"0/1884"	"PASS"	"FALSE"	0.351351351351351	"WXS"	FALSE
"4647"	"RP11-85M11.2"	0	"mskcc.org"	"GRCh37"	"3"	165320478	165320481	"+"	"Intron"	"DEL"	"TATA"	"TATA"	"-"	"rs140783003"	NA	"JHCCPT5"	"JHCCPN5"	"TATA"	"TATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.509-13736_509-13733delATAT"	""	""	"ENST00000496693"	""	9	"."	4	5	"."	0	"RP11-85M11.2,intron_variant,,ENST00000496693,;"	"-"	"ENSG00000244128"	"ENST00000496693"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1075"	""	""	""	""	"rs140783003"	"1"	NA	1	"RP11-85M11.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/5"	""	"TATA:0.1864"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"13"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTATAT"	"7dc29376-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4648"	"BCHE"	590	"mskcc.org"	"GRCh37"	"3"	165490876	165490877	"+"	"3'UTR"	"INS"	"-"	"-"	"A"	"rs3836432"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*293dupT"	""	""	"ENST00000264381"	"4/4"	15	"."	7	2	"."	0	"BCHE,3_prime_UTR_variant,,ENST00000264381,NM_000055.2;BCHE,3_prime_UTR_variant,,ENST00000479451,;BCHE,3_prime_UTR_variant,,ENST00000540653,;BCHE,3_prime_UTR_variant,,ENST00000482958,;BCHE,3_prime_UTR_variant,,ENST00000497011,;"	"A"	"ENSG00000114200"	"ENST00000264381"	"Transcript"	"3_prime_UTR_variant"	"2269-2270/2454"	"-/1809"	"-/602"	""	""	"rs3836432"	"1"	NA	-1	"BCHE"	"HGNC"	983	"protein_coding"	"YES"	"CCDS3198.1"	"ENSP00000264381"	"P06276"	"Q96HL2,F8WF14,D3DNN4"	"UPI0000127866"	"NM_000055.2"	NA	NA	"4/4"	""	""	"-:0.1120"	"A:0.7398"	"A:0.9582"	NA	"A:0.9276"	"A:0.9692"	"A:0.9141"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"8c48e968-280f-11e6-8b65-0333424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.466666666666667	"WXS"	FALSE
"4649"	"SERPINI2"	5276	"mskcc.org"	"GRCh37"	"3"	167170406	167170407	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35375470"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.964+317dupA"	""	""	"ENST00000476257"	""	8	"."	4	1	"."	0	"SERPINI2,intron_variant,,ENST00000476257,NM_006217.4;SERPINI2,intron_variant,,ENST00000461846,NM_001012303.2;SERPINI2,intron_variant,,ENST00000264677,;SERPINI2,intron_variant,,ENST00000471111,;"	"T"	"ENSG00000114204"	"ENST00000476257"	"Transcript"	"intron_variant"	"-/1837"	"-/1218"	"-/405"	""	""	"rs35375470"	"1"	NA	-1	"SERPINI2"	"HGNC"	8945	"protein_coding"	"YES"	"CCDS3200.1"	"ENSP00000420621"	"O75830"	"C9J7N5"	"UPI0000135E26"	"NM_006217.4"	NA	NA	""	"7/9"	""	"T:0.0539"	"T:0.0658"	"T:0.0605"	NA	"T:0.002"	"T:0.1083"	"T:0.0307"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"8c5313b6-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4650"	"NLGN1"	22871	"mskcc.org"	"GRCh37"	"3"	173333909	173333910	"+"	"Intron"	"INS"	"-"	"A"	"A"	"rs5854523"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.493+11030dupA"	""	""	"ENST00000457714"	""	6	"."	5	1	"."	0	"NLGN1,intron_variant,,ENST00000457714,NM_014932.3;NLGN1,intron_variant,,ENST00000361589,;NLGN1,intron_variant,,ENST00000545397,;NLGN1,intron_variant,,ENST00000401917,;NLGN1,intron_variant,,ENST00000415045,;"	"A"	"ENSG00000169760"	"ENST00000457714"	"Transcript"	"intron_variant"	"-/8242"	"-/2472"	"-/823"	""	""	"rs5854523"	"1"	NA	1	"NLGN1"	"HGNC"	14291	"protein_coding"	"YES"	"CCDS3222.1"	"ENSP00000392500"	"Q8N2Q7"	""	"UPI0000072F54"	"NM_014932.3"	NA	NA	""	"3/6"	""	"-:0.0032"	"A:1"	"A:0.9899"	NA	"A:1"	"A:0.992"	"A:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"8c9db65a-280f-11e6-8b65-0333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4651"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	175849609	175849610	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs11369154"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	3	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11369154"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3043"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"8ca4893a-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4652"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	176150586	176150587	"+"	"IGR"	"INS"	"-"	"-"	"TCTCTCTCTCTCTCTCTC"	"rs377068098"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	2	"."	0	""	"TCTCTCTCTCTCTCTCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs377068098"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TCTCTCTCTCTCTCTCTCTC:0.1689"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"8ca5a4dc-280f-11e6-8b65-0333424a729f"	"194"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4653"	"RP11-644C3.1"	0	"mskcc.org"	"GRCh37"	"3"	176561906	176561907	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs66679313"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.198+9590dupC"	""	""	"ENST00000428516"	""	25	"."	15	5	"."	0	"RP11-644C3.1,intron_variant,,ENST00000428516,;"	"G"	"ENSG00000232461"	"ENST00000428516"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/678"	""	""	""	""	"rs66679313"	"1"	NA	-1	"RP11-644C3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	"-:0.1014"	"G:0.8608"	"G:0.8718"	NA	"G:0.9345"	"G:0.9443"	"G:0.8845"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"8ca72e9c-280f-11e6-8b65-0333424a729f"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"4654"	"MRPL47"	57129	"mskcc.org"	"GRCh37"	"3"	179316185	179316186	"+"	"Intron"	"INS"	"-"	"-"	"ACACACACACACACACAC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.402+260_402+277dupGTGTGTGTGTGTGTGTGT"	""	""	"ENST00000476781"	""	48	"."	4	4	"."	0	"MRPL47,intron_variant,,ENST00000476781,NM_020409.2;MRPL47,intron_variant,,ENST00000259038,;MRPL47,intron_variant,,ENST00000392659,NM_177988.1;"	"ACACACACACACACACAC"	"ENSG00000136522"	"ENST00000476781"	"Transcript"	"intron_variant"	"-/1370"	"-/753"	"-/250"	""	""	""	"1"	NA	-1	"MRPL47"	"HGNC"	16652	"protein_coding"	"YES"	"CCDS3232.1"	"ENSP00000417602"	"Q9HD33"	""	"UPI000013D022"	"NM_020409.2"	NA	NA	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"8cd0b3b6-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WXS"	FALSE
"4655"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	179899413	179899414	"+"	"IGR"	"INS"	"-"	"-"	"CCTTCC"	"rs140893908"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"CCTTCC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140893908"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4231"	"CCTTCC:0.6952"	"CCTTCC:0.5303"	NA	"CCTTCC:0.4732"	"CCTTCC:0.5815"	"CCTTCC:0.5521"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"8cde61e6-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4656"	"FXR1"	8087	"mskcc.org"	"GRCh37"	"3"	180668926	180668926	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs202151555"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.631-160delG"	""	""	"ENST00000357559"	""	22	"."	6	4	"."	0	"FXR1,intron_variant,,ENST00000357559,NM_001013438.2,NM_005087.3;FXR1,intron_variant,,ENST00000305586,NM_001013439.2;FXR1,intron_variant,,ENST00000445140,;FXR1,intron_variant,,ENST00000480918,;FXR1,intron_variant,,ENST00000468861,;FXR1,intron_variant,,ENST00000491062,;FXR1,downstream_gene_variant,,ENST00000484958,;FXR1,downstream_gene_variant,,ENST00000465551,;FXR1,downstream_gene_variant,,ENST00000484790,;FXR1,downstream_gene_variant,,ENST00000469882,;FXR1,downstream_gene_variant,,ENST00000484042,;FXR1,intron_variant,,ENST00000475315,;FXR1,intron_variant,,ENST00000472339,;FXR1,downstream_gene_variant,,ENST00000479176,;FXR1,upstream_gene_variant,,ENST00000473375,;"	"-"	"ENSG00000114416"	"ENST00000357559"	"Transcript"	"intron_variant"	"-/8711"	"-/1866"	"-/621"	""	""	"rs202151555"	"1"	NA	1	"FXR1"	"HGNC"	4023	"protein_coding"	"YES"	"CCDS3238.1"	"ENSP00000350170"	"P51114"	"C9JZE0,C9JY20,C9J5B4,C9IZ22"	"UPI000013EA6E"	"NM_001013438.2,NM_005087.3"	NA	NA	""	"7/16"	""	"-:0.0134"	"-:0.0023"	"-:0.013"	NA	"-:0"	"-:0.0318"	"-:0.0235"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGC"	"7f05643e-280f-11e6-8b65-0333424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4657"	"ATP11B"	23200	"mskcc.org"	"GRCh37"	"3"	182583725	182583729	"+"	"Intron"	"DEL"	"AAGAA"	"AAGAA"	"-"	"rs146884648"	NA	"JHCCPT5"	"JHCCPN5"	"AAGAA"	"AAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1443+242_1443+246delAAAAG"	""	""	"ENST00000323116"	""	16	"."	7	3	"."	0	"ATP11B,intron_variant,,ENST00000323116,NM_014616.2;ATP11B,intron_variant,,ENST00000498086,;ATP11B,intron_variant,,ENST00000490303,;"	"-"	"ENSG00000058063"	"ENST00000323116"	"Transcript"	"intron_variant"	"-/7325"	"-/3534"	"-/1177"	""	""	"rs146884648"	"1"	NA	1	"ATP11B"	"HGNC"	13553	"protein_coding"	"YES"	"CCDS33896.1"	"ENSP00000321195"	"Q9Y2G3"	"B4E3T1"	"UPI000004124E"	"NM_014616.2"	NA	NA	""	"13/29"	""	"AAGAA:0.4117"	"-:0.4198"	"-:0.6902"	NA	"-:0.4583"	"-:0.7594"	"-:0.7014"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAAGAAA"	"7f1927ee-280f-11e6-8b65-0333424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4375	"WXS"	FALSE
"4658"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	184467058	184467076	"+"	"IGR"	"DEL"	"GAAAGGAATAAAGAAAAAG"	"GAAAGGAATAAAGAAAAAG"	"AGGAATAAAGAAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GAAAGGAATAAAGAAAAAG"	"GAAAGGAATAAAGAAAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	2	"."	0	""	"AGGAATAAAGAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGAAAGGAATAAAGAAAAAGG"	"81a1e4ce-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4659"	"VPS8"	23355	"mskcc.org"	"GRCh37"	"3"	184658058	184658059	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs142586532"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3035+45_3035+46dupAT"	""	""	"ENST00000437079"	""	19	"."	3	16	"."	0	"VPS8,intron_variant,,ENST00000287546,NM_015303.3;VPS8,intron_variant,,ENST00000437079,NM_001009921.2;VPS8,intron_variant,,ENST00000436792,;VPS8,intron_variant,,ENST00000446204,;VPS8,intron_variant,,ENST00000492449,;"	"TA"	"ENSG00000156931"	"ENST00000437079"	"Transcript"	"intron_variant"	"-/5047"	"-/4287"	"-/1428"	""	""	"rs142586532"	"1"	NA	1	"VPS8"	"HGNC"	29122	"protein_coding"	"YES"	"CCDS46971.1"	"ENSP00000397879"	"Q8N3P4"	"C9JPI1,C9JKL0,C9JIA0"	"UPI0000160BDC"	"NM_001009921.2"	NA	NA	""	"36/47"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"19"	""	"1"	"0.03743"	"0.07302"	"0.09649"	"0.1338"	"0.07614"	"0.07527"	"0.09167"	"0.1033"	NA	"common_variant"	"ATT"	"8d6344a6-280f-11e6-8b65-0333424a729f"	"180"	0.09202	"900/9780"	"1174/31362"	"46/630"	"11/114"	"19/142"	"60/788"	"193/2564"	"11/120"	"560/5422"	"PASS"	"FALSE"	0.157894736842105	"WXS"	FALSE
"4660"	"ETV5"	2119	"mskcc.org"	"GRCh37"	"3"	185802251	185802254	"+"	"Intron"	"DEL"	"TTCA"	"TTCA"	"-"	"rs67764705"	NA	"JHCCPT5"	"JHCCPN5"	"TTCA"	"TTCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.233-3290_233-3287delTGAA"	""	""	"ENST00000306376"	""	30	"."	5	4	"."	0	"ETV5,intron_variant,,ENST00000306376,NM_004454.2;ETV5,intron_variant,,ENST00000434744,;ETV5,intron_variant,,ENST00000537818,;ETV5,intron_variant,,ENST00000440773,;ETV5,intron_variant,,ENST00000413301,;ETV5,intron_variant,,ENST00000422039,;ETV5,intron_variant,,ENST00000421809,;ETV5-AS1,downstream_gene_variant,,ENST00000453370,;ETV5,intron_variant,,ENST00000472868,;ETV5,upstream_gene_variant,,ENST00000489830,;"	"-"	"ENSG00000244405"	"ENST00000306376"	"Transcript"	"intron_variant"	"-/4111"	"-/1533"	"-/510"	""	""	"rs67764705"	"1"	NA	-1	"ETV5"	"HGNC"	3494	"protein_coding"	"YES"	"CCDS33906.1"	"ENSP00000306894"	"P41161"	"C9JMF0,C9J5A5,C9J0Z2"	"UPI000012A175"	"NM_004454.2"	NA	NA	""	"5/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTCAT"	"7fb87740-280f-11e6-8b65-0333424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	TRUE
"4661"	"LPP"	4026	"mskcc.org"	"GRCh37"	"3"	188295632	188295633	"+"	"Intron"	"INS"	"-"	"-"	"CTTT"	"rs10663574"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.430-31314_430-31311dupTTCT"	""	""	"ENST00000312675"	""	23	"."	4	5	"."	0	"LPP,intron_variant,,ENST00000312675,NM_005578.3,NM_001167672.1;LPP,intron_variant,,ENST00000543006,NM_001167671.1,NM_001167672.1;LPP,intron_variant,,ENST00000448637,;LPP,intron_variant,,ENST00000416784,;LPP,intron_variant,,ENST00000471917,;LPP,intron_variant,,ENST00000462758,;LPP,intron_variant,,ENST00000494233,;"	"CTTT"	"ENSG00000145012"	"ENST00000312675"	"Transcript"	"intron_variant"	"-/18278"	"-/1839"	"-/612"	""	""	"rs10663574"	"1"	NA	1	"LPP"	"HGNC"	6679	"protein_coding"	"YES"	"CCDS3291.1"	"ENSP00000318089"	"Q93052"	"C9JT42,C9JIY7,C9JE51,C9J5C8,C9J4E3,C9J3U9,C9J2R5,C9J1K7,B7Z871"	"UPI000002E034"	"NM_005578.3,NM_001167672.1"	NA	NA	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"8dbd2c50-280f-11e6-8b65-0333424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	TRUE
"4662"	"LEPREL1"	55214	"mskcc.org"	"GRCh37"	"3"	189712094	189712095	"+"	"Intron"	"INS"	"-"	"-"	"AAAC"	"rs139834656"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.634-26_634-23dupGTTT"	""	""	"ENST00000319332"	""	124	"."	22	42	"."	1	"LEPREL1,intron_variant,,ENST00000319332,NM_018192.3;LEPREL1,intron_variant,,ENST00000427335,NM_001134418.1;LEPREL1,intron_variant,,ENST00000426003,;LEPREL1,intron_variant,,ENST00000444866,;"	"AAAC"	"ENSG00000090530"	"ENST00000319332"	"Transcript"	"intron_variant"	"-/3509"	"-/2127"	"-/708"	""	""	"rs139834656"	"1"	NA	-1	"LEPREL1"	"HGNC"	19317	"protein_coding"	"YES"	"CCDS3294.1"	"ENSP00000316881"	"Q8IVL5"	"D3DNV8,C9JSL4,C9J313"	"UPI000007460B"	"NM_018192.3"	NA	NA	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	"0.49"	"0.2775"	"0.4744"	"0.574"	"0.5533"	"0.5317"	"0.5278"	"0.5118"	"1"	"common_variant"	"AAA"	"8ddfb75c-280f-11e6-8b65-0333424a729f"	"1380"	0.5057	"41311/81686"	"51984/106084"	"1910/6884"	"3811/8034"	"3337/5814"	"3092/5588"	"21769/40940"	"304/576"	"7088/13850"	"PASS"	"FALSE"	0.17741935483871	"WXS"	FALSE
"4663"	"IL1RAP"	3556	"mskcc.org"	"GRCh37"	"3"	190373348	190373367	"+"	"Intron"	"DEL"	"GTGTGTGTGTGTGTGTGTGT"	"GTGTGTGTGTGTGTGTGTGT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GTGTGTGTGTGTGTGTGTGT"	"GTGTGTGTGTGTGTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1346-302_1346-283delGTGTGTGTGTGTGTGTGTGT"	""	""	"ENST00000317757"	""	7	"."	3	3	"."	0	"IL1RAP,intron_variant,,ENST00000317757,NM_001167931.1;IL1RAP,intron_variant,,ENST00000443369,;IL1RAP,downstream_gene_variant,,ENST00000412504,;IL1RAP,downstream_gene_variant,,ENST00000447382,NM_002182.3;IL1RAP,downstream_gene_variant,,ENST00000072516,NM_001167929.1;RP11-268E23.2,upstream_gene_variant,,ENST00000609508,;IL1RAP,downstream_gene_variant,,ENST00000413869,;IL1RAP,downstream_gene_variant,,ENST00000342550,;"	"-"	"ENSG00000196083"	"ENST00000317757"	"Transcript"	"intron_variant"	"-/3717"	"-/2064"	"-/687"	""	""	""	"1"	NA	1	"IL1RAP"	"HGNC"	5995	"protein_coding"	"YES"	"CCDS54696.1"	"ENSP00000314807"	"Q9NPH3"	"Q8N9C1,C9JT28,C9J1D9"	"UPI000020A9C1"	"NM_001167931.1"	NA	NA	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"28"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGTGTGTGTGTGTGTGTGTGTG"	"8041093e-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4664"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	194670148	194670150	"+"	"IGR"	"DEL"	"AAC"	"AAC"	"-"	"rs145203565"	NA	"JHCCPT5"	"JHCCPN5"	"AAC"	"AAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145203565"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4489"	"-:0.444"	"-:0.4395"	NA	"-:0.4554"	"-:0.3917"	"-:0.5143"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAACA"	"80a183b8-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4665"	"MFI2"	4241	"mskcc.org"	"GRCh37"	"3"	196730390	196730391	"+"	"Intron"	"INS"	"-"	"-"	"GGGGTG"	"rs372153753"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2138-74_2138-69dupCACCCC"	""	""	"ENST00000296350"	""	11	"."	3	3	"."	0	"MFI2,intron_variant,,ENST00000296350,NM_005929.5;MFI2-AS1,intron_variant,,ENST00000415244,;MFI2-AS1,intron_variant,,ENST00000424769,;MFI2-AS1,intron_variant,,ENST00000446695,;MFI2-AS1,upstream_gene_variant,,ENST00000414354,;MFI2-AS1,upstream_gene_variant,,ENST00000437064,;MFI2,intron_variant,,ENST00000469783,;"	"GGGGTG"	"ENSG00000163975"	"ENST00000296350"	"Transcript"	"intron_variant"	"-/3963"	"-/2217"	"-/738"	""	""	"rs372153753"	"1"	NA	-1	"MFI2"	"HGNC"	7037	"protein_coding"	"YES"	"CCDS3325.1"	"ENSP00000296350"	"P08582"	""	"UPI000013E329"	"NM_005929.5"	NA	NA	""	"15/15"	""	"-:0.4964"	"GGGGTG:0.2126"	"GGGGTG:0.6081"	NA	"GGGGTG:0.8304"	"GGGGTG:0.6163"	"GGGGTG:0.3701"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"8e91584a-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4666"	"BDH1"	622	"mskcc.org"	"GRCh37"	"3"	197260101	197260102	"+"	"Intron"	"INS"	"-"	"-"	"CC"	"rs574755351"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.156+257_156+258dupGG"	""	""	"ENST00000392379"	""	6	"."	3	3	"."	0	"BDH1,intron_variant,,ENST00000392379,NM_203314.2;BDH1,intron_variant,,ENST00000392378,NM_004051.4;BDH1,intron_variant,,ENST00000358186,NM_203315.2;BDH1,intron_variant,,ENST00000441275,;BDH1,intron_variant,,ENST00000432819,;BDH1,intron_variant,,ENST00000446746,;BDH1,intron_variant,,ENST00000434143,;BDH1,intron_variant,,ENST00000431056,;BDH1,downstream_gene_variant,,ENST00000445160,;BDH1,intron_variant,,ENST00000495285,;BDH1,intron_variant,,ENST00000477015,;"	"CC"	"ENSG00000161267"	"ENST00000392379"	"Transcript"	"intron_variant"	"-/3546"	"-/1032"	"-/343"	""	""	"rs574755351"	"1"	NA	-1	"BDH1"	"HGNC"	1027	"protein_coding"	"YES"	"CCDS3328.1"	"ENSP00000376184"	"Q02338"	"E9PCG9,C9K0G7,C9JQ90,C9JEB9,C9JB83,A1E284"	"UPI0000126875"	"NM_203314.2"	NA	NA	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"8ea07ab4-280f-11e6-8b65-0333424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4667"	"Z95704.4"	0	"mskcc.org"	"GRCh37"	"4"	47525	47526	"+"	"3'Flank"	"INS"	"-"	"-"	"AACAAGAAC"	"rs200667779"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000596885"	""	61	"."	6	18	"."	0	"Z95704.4,downstream_gene_variant,,ENST00000596885,;Z95704.4,downstream_gene_variant,,ENST00000503774,;"	"AACAAGAAC"	"ENSG00000248302"	"ENST00000596885"	"Transcript"	"downstream_gene_variant"	"-/860"	""	""	""	""	"rs200667779"	"1"	"1465"	-1	"Z95704.4"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"820c6a4c-280f-11e6-982f-1233424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0983606557377049	"WXS"	FALSE
"4668"	"Z95704.4"	0	"mskcc.org"	"GRCh37"	"4"	47637	47638	"+"	"3'Flank"	"INS"	"-"	"-"	"GAAGAAGAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000596885"	""	114	"."	7	40	"."	0	"Z95704.4,downstream_gene_variant,,ENST00000596885,;Z95704.4,downstream_gene_variant,,ENST00000503774,;"	"GAAGAAGAA"	"ENSG00000248302"	"ENST00000596885"	"Transcript"	"downstream_gene_variant"	"-/860"	""	""	""	""	""	"1"	"1353"	-1	"Z95704.4"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"82149f64-280f-11e6-982f-1233424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0614035087719298	"WXS"	FALSE
"4669"	"Z95704.2"	0	"mskcc.org"	"GRCh37"	"4"	86101	86102	"+"	"RNA"	"INS"	"-"	"-"	"C"	"rs58319295"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.481-1dupC"	""	""	"ENST00000380882"	""	101	"."	18	23	"."	0	"ZNF595,non_coding_transcript_exon_variant,,ENST00000339368,;ZNF595,non_coding_transcript_exon_variant,,ENST00000512065,;ZNF595,non_coding_transcript_exon_variant,,ENST00000507368,;Z95704.2,non_coding_transcript_variant,,ENST00000380882,;"	"C"	"ENSG00000255436"	"ENST00000380882"	"Transcript"	"non_coding_transcript_variant"	"-/1716"	""	""	""	""	"rs58319295"	"1"	NA	1	"Z95704.2"	"Clone_based_ensembl_gene"	NA	"pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	"C:0.998"	"C:0.9964"	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	"0.9998"	"0.9999"	"1"	"0.9999"	"1"	"0.9998"	"1"	"0.9998"	NA	"common_variant"	"AGC"	"8240203a-280f-11e6-982f-1233424a729f"	"1080"	0.9998	"102575/102592"	"104376/104402"	"7645/7646"	"11060/11060"	"7731/7732"	"6596/6596"	"52621/52632"	"682/682"	"16240/16244"	"VQSRTrancheINDEL96.00to97.00"	"FALSE"	0.178217821782178	"WXS"	FALSE
"4670"	"ABCA11P"	79963	"mskcc.org"	"GRCh37"	"4"	421775	421775	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs112212990"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.277-1013delA"	""	""	"ENST00000451020"	""	16	"."	4	4	"."	0	"ZNF721,intron_variant,,ENST00000506646,;ABCA11P,intron_variant,,ENST00000451020,;ABCA11P,intron_variant,,ENST00000507854,;ABCA11P,intron_variant,,ENST00000514396,;ZNF721,intron_variant,,ENST00000515578,;ABCA11P,upstream_gene_variant,,ENST00000504019,;"	"-"	"ENSG00000251595"	"ENST00000451020"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1815"	""	""	""	""	"rs112212990"	"1"	NA	-1	"ABCA11P"	"HGNC"	31	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	"-:0.3910"	"-:0.562"	"-:0.3084"	NA	"-:0.2867"	"-:0.3688"	"-:0.3487"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATT"	"64835044-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4671"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	548925	548966	"+"	"IGR"	"DEL"	"CACCACCTCCATCCCATCTACACACATCCACACATGTGCATG"	"CACCACCTCCATCCCATCTACACACATCCACACATGTGCATG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CACCACCTCCATCCCATCTACACACATCCACACATGTGCATG"	"CACCACCTCCATCCCATCTACACACATCCACACATGTGCATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"."	4	25	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACACCACCTCCATCCCATCTACACACATCCACACATGTGCATGC"	"64902eea-280f-11e6-982f-1233424a729f"	"95"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WXS"	FALSE
"4672"	"CPLX1"	10815	"mskcc.org"	"GRCh37"	"4"	823009	823010	"+"	"5'Flank"	"INS"	"-"	"-"	"CAGACAG"	"rs111921381"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000304062"	""	12	"."	5	2	"."	0	"CPLX1,upstream_gene_variant,,ENST00000304062,NM_006651.3;CPLX1,upstream_gene_variant,,ENST00000505203,;"	"CAGACAG"	"ENSG00000168993"	"ENST00000304062"	"Transcript"	"upstream_gene_variant"	"-/2181"	"-/405"	"-/134"	""	""	"rs111921381"	"1"	"3023"	-1	"CPLX1"	"HGNC"	2309	"protein_coding"	"YES"	"CCDS46995.1"	"ENSP00000305613"	"O14810"	"F1T0G1,D6RAG3"	"UPI0000127BB3"	"NM_006651.3"	NA	NA	""	""	""	"-:0.4429"	"CAGACAG:0.5703"	"CAGACAG:0.4467"	NA	"CAGACAG:0.5625"	"CAGACAG:0.5298"	"CAGACAG:0.6401"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"82697d7c-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"4673"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	1569615	1569616	"+"	"IGR"	"INS"	"-"	"CC"	"CC"	"rs71168847"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	6	5	"."	0	""	"CC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71168847"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1020"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"82bc0e3e-280f-11e6-982f-1233424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.857142857142857	"WXS"	FALSE
"4674"	"FAM53A"	152877	"mskcc.org"	"GRCh37"	"4"	1622426	1622427	"+"	"Intron"	"INS"	"-"	"-"	"CAC"	"rs148317430"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.432-2591_432-2589dupGTG"	""	""	"ENST00000489029"	""	45	"."	7	11	"."	0	"FAM53A,intron_variant,,ENST00000489029,;"	"CAC"	"ENSG00000174137"	"ENST00000489029"	"Transcript"	"intron_variant"	"-/628"	"-/471"	"-/156"	""	""	"rs148317430"	"1"	NA	-1	"FAM53A"	"HGNC"	31860	"protein_coding"	""	""	"ENSP00000423987"	""	""	"UPI0001D3B098"	""	NA	NA	""	"1/1"	""	"CAC:0.2442"	"CAC:0.3563"	"CAC:0.2882"	NA	"CAC:0.2837"	"CAC:0.161"	"CAC:0.1063"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"82c07aaa-280f-11e6-982f-1233424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155555555555556	"WXS"	FALSE
"4675"	"OR7E43P"	0	"mskcc.org"	"GRCh37"	"4"	4175934	4175934	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"rs34383886"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000503910"	""	7	"."	3	1	"."	0	"OR7E43P,downstream_gene_variant,,ENST00000503910,;"	"-"	"ENSG00000249844"	"ENST00000503910"	"Transcript"	"downstream_gene_variant"	"-/920"	""	""	""	""	"rs34383886"	"1"	"112"	-1	"OR7E43P"	"HGNC"	8417	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3566"	"-:0.1316"	"-:0.3718"	NA	"-:0.4067"	"-:0.4274"	"-:0.5256"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAC"	"663b60f2-280f-11e6-982f-1233424a729f"	"166"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4676"	"TMEM128"	85013	"mskcc.org"	"GRCh37"	"4"	4239375	4239375	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs112030483"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*9+179delG"	""	""	"ENST00000254742"	""	46	"."	3	12	"."	0	"TMEM128,intron_variant,,ENST00000254742,NM_032927.2;TMEM128,intron_variant,,ENST00000382753,;TMEM128,intron_variant,,ENST00000538516,;TMEM128,intron_variant,,ENST00000540397,;"	"-"	"ENSG00000132406"	"ENST00000254742"	"Transcript"	"intron_variant"	"-/1737"	"-/426"	"-/141"	""	""	"rs112030483"	"1"	NA	-1	"TMEM128"	"HGNC"	28201	"protein_coding"	"YES"	"CCDS3373.1"	"ENSP00000254742"	"Q5BJH2"	""	"UPI0000073696"	"NM_032927.2"	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACA"	"6647952a-280f-11e6-982f-1233424a729f"	"111"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WXS"	FALSE
"4677"	"ZBTB49"	166793	"mskcc.org"	"GRCh37"	"4"	4301503	4301504	"+"	"Intron"	"INS"	"-"	"-"	"TTGTGT"	"rs140596553"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-19-151_-19-150insTTGTGT"	""	""	"ENST00000337872"	""	28	"."	8	6	"."	0	"ZBTB49,intron_variant,,ENST00000337872,NM_145291.3;ZBTB49,intron_variant,,ENST00000355834,;ZBTB49,intron_variant,,ENST00000538529,;ZBTB49,intron_variant,,ENST00000502918,;ZBTB49,upstream_gene_variant,,ENST00000504302,;ZBTB49,intron_variant,,ENST00000503703,;ZBTB49,intron_variant,,ENST00000515012,;ZBTB49,upstream_gene_variant,,ENST00000511458,;"	"TTGTGT"	"ENSG00000168826"	"ENST00000337872"	"Transcript"	"intron_variant"	"-/2889"	"-/2298"	"-/765"	""	""	"rs140596553"	"1"	NA	1	"ZBTB49"	"HGNC"	19883	"protein_coding"	"YES"	"CCDS3375.1"	"ENSP00000338807"	"Q6ZSB9"	"Q32MK9,D6RJ00"	"UPI000022C559"	"NM_145291.3"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"83572ebe-280f-11e6-982f-1233424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"4678"	"C4orf50"	389197	"mskcc.org"	"GRCh37"	"4"	5981742	5981742	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs199861877"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1590+159delC"	""	""	"ENST00000531445"	""	14	"."	3	8	"."	0	"C4orf50,intron_variant,,ENST00000531445,;C4orf50,intron_variant,,ENST00000324058,;"	"-"	"ENSG00000181215"	"ENST00000531445"	"Transcript"	"intron_variant"	"-/4557"	"-/2253"	"-/750"	""	""	"rs199861877"	"1"	NA	-1	"C4orf50"	"HGNC"	33766	"protein_coding"	"YES"	""	"ENSP00000437121"	""	"E9PNW5"	"UPI0001F7863C"	""	NA	NA	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"66d36942-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"4679"	"PPP2R2C"	5522	"mskcc.org"	"GRCh37"	"4"	6364621	6364622	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs34589910"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.625+9628_625+9629insC"	""	""	"ENST00000335585"	""	14	"."	6	3	"."	0	"PPP2R2C,intron_variant,,ENST00000335585,NM_181876.2;PPP2R2C,intron_variant,,ENST00000515571,NM_001206996.1;PPP2R2C,intron_variant,,ENST00000382599,;PPP2R2C,intron_variant,,ENST00000506140,NM_001206994.1;PPP2R2C,intron_variant,,ENST00000507294,NM_001206995.1;PPP2R2C,intron_variant,,ENST00000314348,;PPP2R2C,intron_variant,,ENST00000513943,;"	"G"	"ENSG00000074211"	"ENST00000335585"	"Transcript"	"intron_variant"	"-/4092"	"-/1344"	"-/447"	""	""	"rs34589910"	"1"	NA	-1	"PPP2R2C"	"HGNC"	9306	"protein_coding"	"YES"	"CCDS3388.1"	"ENSP00000335083"	"Q9Y2T4"	""	"UPI0000140CE7"	"NM_181876.2"	NA	NA	""	"5/8"	""	"-:0.0709"	"G:0.8018"	"G:0.9481"	NA	"G:1"	"G:0.9583"	"G:0.9847"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"8391e4d2-280f-11e6-982f-1233424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4680"	"ENSR00001429145"	0	"mskcc.org"	"GRCh37"	"4"	7075716	7075716	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs5855941"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001429145"	""	6	"."	4	1	"."	0	""	"-"	""	"ENSR00001429145"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs5855941"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.0363"	"-:0.8956"	"-:0.9798"	NA	"-:1"	"-:0.9702"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"671f7b2a-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4681"	"SORCS2"	57537	"mskcc.org"	"GRCh37"	"4"	7500883	7500884	"+"	"Intron"	"INS"	"-"	"-"	"TG"	"rs10641840"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.549-32371_549-32370dupTG"	""	""	"ENST00000507866"	""	7	"."	4	1	"."	0	"SORCS2,intron_variant,,ENST00000507866,NM_020777.2;SORCS2,intron_variant,,ENST00000329016,;SORCS2,intron_variant,,ENST00000511199,;"	"TG"	"ENSG00000184985"	"ENST00000507866"	"Transcript"	"intron_variant"	"-/6152"	"-/3480"	"-/1159"	""	""	"rs10641840"	"1"	NA	1	"SORCS2"	"HGNC"	16698	"protein_coding"	"YES"	"CCDS47008.1"	"ENSP00000422185"	"Q96PQ0"	""	"UPI0000EE6E4F"	"NM_020777.2"	NA	NA	""	"2/26"	""	"-:0.1947"	"TG:0.7489"	"TG:0.7723"	NA	"TG:0.9931"	"TG:0.663"	"TG:0.8579"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"83ca1924-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4682"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	8550466	8550479	"+"	"IGR"	"DEL"	"CTCTCCTCTCTCCT"	"CTCTCCTCTCTCCT"	"-"	"rs149272654"	NA	"JHCCPT5"	"JHCCPN5"	"CTCTCCTCTCTCCT"	"CTCTCCTCTCTCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs149272654"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CTCTCCTCTCTCCT:0.2107"	"-:0.4289"	"-:0.8559"	NA	"-:0.9593"	"-:0.9006"	"-:0.9397"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTCTCCTCTCTCCTC"	"6781ad86-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4683"	"CPZ"	8532	"mskcc.org"	"GRCh37"	"4"	8603645	8603646	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs562403529"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.496+428dupG"	""	""	"ENST00000360986"	""	9	"."	4	1	"."	0	"CPZ,intron_variant,,ENST00000382480,NM_001014448.2;CPZ,intron_variant,,ENST00000360986,NM_001014447.2;CPZ,intron_variant,,ENST00000315782,NM_003652.3;CPZ,upstream_gene_variant,,ENST00000429646,;CPZ,downstream_gene_variant,,ENST00000506287,;CPZ,downstream_gene_variant,,ENST00000504070,;GPR78,intron_variant,,ENST00000514302,;CPZ,intron_variant,,ENST00000515606,;GPR78,upstream_gene_variant,,ENST00000513120,;CPZ,downstream_gene_variant,,ENST00000514602,;CPZ,downstream_gene_variant,,ENST00000514875,;"	"G"	"ENSG00000109625"	"ENST00000360986"	"Transcript"	"intron_variant"	"-/2267"	"-/1959"	"-/652"	""	""	"rs562403529"	"1"	NA	1	"CPZ"	"HGNC"	2333	"protein_coding"	"YES"	"CCDS33953.1"	"ENSP00000354255"	"Q66K79"	""	"UPI000020BCC5"	"NM_001014447.2"	NA	NA	""	"3/10"	""	"-:0.3742"	"G:0.4312"	"G:0.7378"	NA	"G:0.5694"	"G:0.7167"	"G:0.774"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"840bb92e-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4684"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	8651495	8651501	"+"	"IGR"	"DEL"	"GGGGCCG"	"GGGGCCG"	"-"	"rs144161584"	NA	"JHCCPT5"	"JHCCPN5"	"GGGGCCG"	"GGGGCCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144161584"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGGGGCCGG"	"678c8b8e-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"4685"	"WDR1"	9948	"mskcc.org"	"GRCh37"	"4"	10099542	10099542	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs373991223"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.378-27delG"	""	""	"ENST00000499869"	""	64	"."	3	16	"."	0	"WDR1,intron_variant,,ENST00000382452,NM_017491.3;WDR1,intron_variant,,ENST00000499869,;WDR1,intron_variant,,ENST00000382451,NM_005112.4;WDR1,intron_variant,,ENST00000502702,;WDR1,intron_variant,,ENST00000508079,;WDR1,intron_variant,,ENST00000514319,;WDR1,intron_variant,,ENST00000505851,;WDR1,intron_variant,,ENST00000264785,;WDR1,upstream_gene_variant,,ENST00000515743,;WDR1,upstream_gene_variant,,ENST00000502962,;WDR1,upstream_gene_variant,,ENST00000505543,;WDR1,upstream_gene_variant,,ENST00000506246,;WDR1,upstream_gene_variant,,ENST00000504739,;WDR1,upstream_gene_variant,,ENST00000510848,;WDR1,upstream_gene_variant,,ENST00000508949,;WDR1,upstream_gene_variant,,ENST00000509695,;WDR1,downstream_gene_variant,,ENST00000515018,;"	"-"	"ENSG00000071127"	"ENST00000499869"	"Transcript"	"intron_variant"	"-/3054"	"-/1821"	"-/606"	""	""	"rs373991223"	"1"	NA	-1	"WDR1"	"HGNC"	12754	"protein_coding"	"YES"	"CCDS54740.1"	"ENSP00000427687"	"O75083"	""	"UPI0000138EDA"	""	NA	NA	""	"4/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.001621"	"0.003195"	"0.03509"	"0.02679"	"0.02624"	"0.01684"	"0"	"0.01773"	NA	"common_variant"	"GACA"	"67c41afe-280f-11e6-982f-1233424a729f"	"180"	0.01709	"62/3628"	"102/62932"	"2/626"	"4/114"	"3/112"	"18/686"	"30/1782"	"0/26"	"5/282"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.046875	"WXS"	FALSE
"4686"	"LAP3"	51056	"mskcc.org"	"GRCh37"	"4"	17605951	17605951	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs10719442"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1181-259delT"	""	""	"ENST00000226299"	""	11	"."	4	3	"."	0	"LAP3,intron_variant,,ENST00000226299,NM_015907.2;LAP3,intron_variant,,ENST00000606142,;LAP3,intron_variant,,ENST00000513105,;AC006160.5,intron_variant,,ENST00000511010,;LAP3,intron_variant,,ENST00000503467,;LAP3,intron_variant,,ENST00000504614,;"	"-"	"ENSG00000002549"	"ENST00000226299"	"Transcript"	"intron_variant"	"-/2213"	"-/1560"	"-/519"	""	""	"rs10719442"	"1"	NA	1	"LAP3"	"HGNC"	18449	"protein_coding"	"YES"	"CCDS3422.1"	"ENSP00000226299"	"P28838"	""	"UPI000014F97D"	"NM_015907.2"	NA	NA	""	"10/12"	""	"T:0.3886"	"-:0.4054"	"-:0.7032"	NA	"-:0.8552"	"-:0.6471"	"-:0.5368"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTT"	"68bacd90-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4687"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	18838910	18838919	"+"	"IGR"	"DEL"	"TCTCTCTCTT"	"TCTCTCTCTT"	"-"	"rs200120610"	NA	"JHCCPT5"	"JHCCPN5"	"TCTCTCTCTT"	"TCTCTCTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200120610"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TCTCTCTCTT:0.2450"	"-:0.8585"	"-:0.6888"	NA	"-:0.7381"	"-:0.7167"	"-:0.7188"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTCTCTCTTT"	"68ed68ea-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"4688"	"KCNIP4"	80333	"mskcc.org"	"GRCh37"	"4"	20850110	20850111	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs34837147"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.288+2055dupT"	""	""	"ENST00000382152"	""	16	"."	6	8	"."	0	"KCNIP4,intron_variant,,ENST00000382148,NM_001035003.1;KCNIP4,intron_variant,,ENST00000382152,NM_025221.5;KCNIP4,intron_variant,,ENST00000382150,NM_147183.3;KCNIP4,intron_variant,,ENST00000447367,NM_147182.3,NM_147181.3;KCNIP4,intron_variant,,ENST00000509207,NM_001035004.1;KCNIP4,intron_variant,,ENST00000359001,;KCNIP4,intron_variant,,ENST00000382149,;KCNIP4,intron_variant,,ENST00000515786,;KCNIP4,downstream_gene_variant,,ENST00000515373,;"	"A"	"ENSG00000185774"	"ENST00000382152"	"Transcript"	"intron_variant"	"-/1767"	"-/753"	"-/250"	""	""	"rs34837147"	"1"	NA	-1	"KCNIP4"	"HGNC"	30083	"protein_coding"	"YES"	"CCDS43216.1"	"ENSP00000371587"	"Q6PIL6"	""	"UPI000004A274"	"NM_025221.5"	NA	NA	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"8536715e-280f-11e6-982f-1233424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4689"	"LGI2"	55203	"mskcc.org"	"GRCh37"	"4"	25016106	25016107	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11443287"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.656-1986dupT"	""	""	"ENST00000382114"	""	6	"."	3	2	"."	0	"LGI2,intron_variant,,ENST00000382114,NM_018176.3;LGI2,intron_variant,,ENST00000512108,;"	"A"	"ENSG00000153012"	"ENST00000382114"	"Transcript"	"intron_variant"	"-/6428"	"-/1638"	"-/545"	""	""	"rs11443287"	"1"	NA	-1	"LGI2"	"HGNC"	18710	"protein_coding"	"YES"	"CCDS3431.1"	"ENSP00000371548"	"Q8N0V4"	""	"UPI0000047256"	"NM_018176.3"	NA	NA	""	"6/7"	""	"-:0.1290"	"A:0.9138"	"A:0.8444"	NA	"A:0.9266"	"A:0.7376"	"A:0.9121"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"856d14c0-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4690"	"PI4K2B"	55300	"mskcc.org"	"GRCh37"	"4"	25278429	25278442	"+"	"Intron"	"DEL"	"GTGTGTGTGTGCGC"	"GTGTGTGTGTGCGC"	"-"	"rs762534986"	NA	"JHCCPT5"	"JHCCPN5"	"GTGTGTGTGTGCGC"	"GTGTGTGTGTGCGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1273-183_1273-170delGCGCGTGTGTGTGT"	""	""	"ENST00000264864"	""	18	"."	3	6	"."	0	"PI4K2B,intron_variant,,ENST00000264864,NM_018323.3;PI4K2B,intron_variant,,ENST00000512921,;"	"-"	"ENSG00000038210"	"ENST00000264864"	"Transcript"	"intron_variant"	"-/3540"	"-/1446"	"-/481"	""	""	"rs762534986"	"1"	NA	1	"PI4K2B"	"HGNC"	18215	"protein_coding"	"YES"	"CCDS3433.1"	"ENSP00000264864"	"Q8TCG2"	"G5E9Z4"	"UPI000006DEFC"	"NM_018323.3"	NA	NA	""	"9/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"24"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGTGTGTGTGTGCGCG"	"699874d8-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"4691"	"ENSR00001238332"	0	"mskcc.org"	"GRCh37"	"4"	25459434	25459435	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs111956523"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001238332"	""	13	"."	3	4	"."	0	""	"T"	""	"ENSR00001238332"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs111956523"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"8598c908-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"4692"	"ENSR00001430305"	0	"mskcc.org"	"GRCh37"	"4"	26142248	26142248	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs143036789"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001430305"	""	13	"."	4	3	"."	0	""	"-"	""	"ENSR00001430305"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs143036789"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"69d50fce-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"4693"	"RBPJ"	3516	"mskcc.org"	"GRCh37"	"4"	26216387	26216430	"+"	"Intron"	"DEL"	"AAAAGAGAAAGAAAGAAAGAAAAAGAGAAGGAAGGAAGGGAAAA"	"AAAAGAGAAAGAAAGAAAGAAAAAGAGAAGGAAGGAAGGGAAAA"	"GAAAGAAAGAAAAAGAGAAGGAAGGAAGGGAAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAGAGAAAGAAAGAAAGAAAAAGAGAAGGAAGGAAGGGAAAA"	"AAAAGAGAAAGAAAGAAAGAAAAAGAGAAGGAAGGAAGGGAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-167+51151_-167+51191delAAAAGAGAAAGAAAGAAAGAAAAAGAGAAGGAAGGAAGGGAinsGAAAGAAAGAAAAAGAGAAGGAAGGAAGGG"	""	""	"ENST00000512351"	""	34	"."	3	4	"."	0	"RBPJ,intron_variant,,ENST00000512351,;"	"GAAAGAAAGAAAAAGAGAAGGAAGGAAGGG"	"ENSG00000168214"	"ENST00000512351"	"Transcript"	"intron_variant"	"-/609"	"-/283"	"-/94"	""	""	""	"1"	NA	1	"RBPJ"	"HGNC"	5724	"protein_coding"	""	""	"ENSP00000424789"	""	"D6RF98,D6REP3,D6RE93,D6RAT2"	"UPI0001D3B2C5"	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAAAAAGAGAAAGAAAGAAAGAAAAAGAGAAGGAAGGAAGGGAAAAG"	"81796bd4-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WXS"	FALSE
"4694"	"CCKAR"	886	"mskcc.org"	"GRCh37"	"4"	26494337	26494338	"+"	"5'Flank"	"INS"	"-"	"-"	"TTCCTTCCTTCC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000295589"	""	11	"."	3	4	"."	0	"CCKAR,upstream_gene_variant,,ENST00000295589,NM_000730.2;"	"TTCCTTCCTTCC"	"ENSG00000163394"	"ENST00000295589"	"Transcript"	"upstream_gene_variant"	"-/1720"	"-/1287"	"-/428"	""	""	""	"1"	"2253"	-1	"CCKAR"	"HGNC"	1570	"protein_coding"	"YES"	"CCDS3438.1"	"ENSP00000295589"	"P32238"	""	"UPI00000503F3"	"NM_000730.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"85b78a5a-280f-11e6-982f-1233424a729f"	"74"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4695"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	27033970	27033971	"+"	"IGR"	"INS"	"-"	"-"	"ACTCTTGATATC"	"rs147416330"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"ACTCTTGATATC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147416330"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3824"	"ACTCTTGATATC:0.6505"	"ACTCTTGATATC:0.6196"	NA	"ACTCTTGATATC:0.372"	"ACTCTTGATATC:0.7117"	"ACTCTTGATATC:0.728"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"85c5c322-280f-11e6-982f-1233424a729f"	"238"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4696"	"AC007106.1"	0	"mskcc.org"	"GRCh37"	"4"	27965868	27965869	"+"	"3'Flank"	"INS"	"-"	"-"	"CCTTC"	"rs142197937"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000509666"	""	19	"."	5	8	"."	0	"AC007106.1,downstream_gene_variant,,ENST00000509666,;"	"CCTTC"	"ENSG00000251410"	"ENST00000509666"	"Transcript"	"downstream_gene_variant"	"-/600"	""	""	""	""	"rs142197937"	"1"	"3476"	-1	"AC007106.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2320"	"CCTTC:0.6997"	"CCTTC:0.6902"	NA	"CCTTC:0.88"	"CCTTC:0.6859"	"CCTTC:0.8845"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"85cad61e-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"4697"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	30086164	30086171	"+"	"IGR"	"DEL"	"TGTGTGTC"	"TGTGTGTC"	"-"	"rs138419629"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTGTC"	"TGTGTGTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138419629"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTGTGTGTCT"	"6a3c53aa-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4698"	"RP11-734I18.1"	0	"mskcc.org"	"GRCh37"	"4"	32007417	32007419	"+"	"Intron"	"DEL"	"CTT"	"CTT"	"-"	"rs138579041"	NA	"JHCCPT5"	"JHCCPN5"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.426+7978_426+7980delTCT"	""	""	"ENST00000513211"	""	37	"."	5	14	"."	0	"RP11-734I18.1,intron_variant,,ENST00000513211,;"	"-"	"ENSG00000251129"	"ENST00000513211"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/734"	""	""	""	""	"rs138579041"	"1"	NA	1	"RP11-734I18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"-:0.0485"	"-:0.1089"	"-:0.0245"	NA	"-:0"	"-:0.0467"	"-:0.0358"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTC"	"6a67be82-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135135135135135	"WXS"	FALSE
"4699"	"ARAP2"	116984	"mskcc.org"	"GRCh37"	"4"	36109441	36109445	"+"	"Intron"	"DEL"	"TTATG"	"TTATG"	"-"	"rs146742090"	NA	"JHCCPT5"	"JHCCPN5"	"TTATG"	"TTATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4157-130_4157-126delCATAA"	""	""	"ENST00000303965"	""	21	"."	5	3	"."	0	"ARAP2,intron_variant,,ENST00000303965,NM_015230.3;"	"-"	"ENSG00000047365"	"ENST00000303965"	"Transcript"	"intron_variant"	"-/7514"	"-/5115"	"-/1704"	""	""	"rs146742090"	"1"	NA	-1	"ARAP2"	"HGNC"	16924	"protein_coding"	"YES"	"CCDS3441.1"	"ENSP00000302895"	"Q8WZ64"	"D6RAD6"	"UPI000013E917"	"NM_015230.3"	NA	NA	""	"26/32"	""	"TTATG:0.2768"	"-:0.416"	"-:0.7147"	NA	"-:0.7599"	"-:0.8877"	"-:0.9376"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTATGT"	"6a953dee-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WXS"	FALSE
"4700"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	37027635	37027635	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs11319737"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11319737"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1585"	"-:0.292"	"-:0.1167"	NA	"-:0.0119"	"-:0.1849"	"-:0.1319"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTC"	"6abaea08-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4701"	"WDR19"	57728	"mskcc.org"	"GRCh37"	"4"	39280581	39280582	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs533652900"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*13+307dupT"	""	""	"ENST00000399820"	""	8	"."	4	1	"."	0	"WDR19,intron_variant,,ENST00000399820,NM_025132.3;WDR19,intron_variant,,ENST00000288634,;WDR19,intron_variant,,ENST00000506869,;WDR19,intron_variant,,ENST00000512534,;WDR19,intron_variant,,ENST00000503733,;WDR19,intron_variant,,ENST00000512588,;WDR19,intron_variant,,ENST00000510315,;WDR19,downstream_gene_variant,,ENST00000512095,;"	"T"	"ENSG00000157796"	"ENST00000399820"	"Transcript"	"intron_variant"	"-/4520"	"-/4029"	"-/1342"	""	""	"rs533652900"	"1"	NA	1	"WDR19"	"HGNC"	18340	"protein_coding"	"YES"	"CCDS47042.1"	"ENSP00000382717"	"Q8NEZ3"	"D6RE75,B4DGR6"	"UPI000004CC24"	"NM_025132.3"	NA	NA	""	"36/36"	""	"T:0.2921"	"T:0.388"	"T:0.2594"	NA	"T:0.1746"	"T:0.339"	"T:0.2587"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"86663c26-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4702"	"UBE2K"	3093	"mskcc.org"	"GRCh37"	"4"	39780662	39780663	"+"	"3'UTR"	"INS"	"-"	"-"	"C"	"rs3839130"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*616dupC"	""	""	"ENST00000261427"	"7/7"	7	"."	4	4	"."	0	"UBE2K,3_prime_UTR_variant,,ENST00000261427,NM_005339.4,NM_001111112.1;UBE2K,3_prime_UTR_variant,,ENST00000445950,;UBE2K,downstream_gene_variant,,ENST00000295963,;UBE2K,downstream_gene_variant,,ENST00000503368,NM_001111113.1;UBE2K,downstream_gene_variant,,ENST00000510934,;UBE2K,non_coding_transcript_exon_variant,,ENST00000438068,;UBE2K,downstream_gene_variant,,ENST00000513231,;UBE2K,downstream_gene_variant,,ENST00000510719,;"	"C"	"ENSG00000078140"	"ENST00000261427"	"Transcript"	"3_prime_UTR_variant"	"1495-1496/5245"	"-/603"	"-/200"	""	""	"rs3839130"	"1"	NA	1	"UBE2K"	"HGNC"	4914	"protein_coding"	"YES"	"CCDS33976.1"	"ENSP00000261427"	"P61086"	"B3KSH4"	"UPI0000003FF1"	"NM_005339.4,NM_001111112.1"	NA	NA	"7/7"	""	""	"-:0.2903"	"C:0.4766"	"C:0.8012"	NA	"C:0.869"	"C:0.673"	"C:0.8333"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"868f91f2-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4703"	"PDS5A"	23244	"mskcc.org"	"GRCh37"	"4"	39910410	39910411	"+"	"Intron"	"INS"	"-"	"-"	"AGGC"	"rs71645198"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1088-254_1088-251dupGCCT"	""	""	"ENST00000303538"	""	10	"."	3	3	"."	0	"PDS5A,intron_variant,,ENST00000303538,NM_001100399.1;PDS5A,intron_variant,,ENST00000503396,NM_001100400.1;PDS5A,intron_variant,,ENST00000513798,;PDS5A,non_coding_transcript_exon_variant,,ENST00000503867,;PDS5A,intron_variant,,ENST00000512643,;PDS5A,downstream_gene_variant,,ENST00000508625,;"	"AGGC"	"ENSG00000121892"	"ENST00000303538"	"Transcript"	"intron_variant"	"-/7176"	"-/4014"	"-/1337"	""	""	"rs71645198"	"1"	NA	-1	"PDS5A"	"HGNC"	29088	"protein_coding"	"YES"	"CCDS47045.1"	"ENSP00000303427"	"Q29RF7"	"Q96DB6,G1UI16,B3KMN2"	"UPI00006C6A7E"	"NM_001100399.1"	NA	NA	""	"10/32"	""	"AGGC:0.1486"	"AGGC:0.0182"	"AGGC:0.3055"	NA	"AGGC:0.0407"	"AGGC:0.2873"	"AGGC:0.182"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"86a2eb44-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"4704"	"APBB2"	323	"mskcc.org"	"GRCh37"	"4"	40895049	40895050	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11414663"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1401+232_1401+233insT"	""	""	"ENST00000508593"	""	7	"."	4	5	"."	0	"APBB2,intron_variant,,ENST00000295974,NM_001166050.1,NM_004307.1;APBB2,intron_variant,,ENST00000513140,;APBB2,intron_variant,,ENST00000508593,;APBB2,intron_variant,,ENST00000506352,NM_173075.4;APBB2,intron_variant,,ENST00000513611,;APBB2,intron_variant,,ENST00000513493,;APBB2,upstream_gene_variant,,ENST00000512510,;APBB2,upstream_gene_variant,,ENST00000507831,;APBB2,non_coding_transcript_exon_variant,,ENST00000504484,;APBB2,intron_variant,,ENST00000509475,;APBB2,intron_variant,,ENST00000514094,;APBB2,downstream_gene_variant,,ENST00000511120,;"	"A"	"ENSG00000163697"	"ENST00000508593"	"Transcript"	"intron_variant"	"-/3592"	"-/2280"	"-/759"	""	""	"rs11414663"	"1"	NA	-1	"APBB2"	"HGNC"	582	"protein_coding"	"YES"	"CCDS54762.1"	"ENSP00000427211"	"Q92870"	"Q5I0G1,D6RGD4,D6RDY3,D6RD19,D6RB55,D6RB00,D6RAJ4,D6RAE0,A8K1C3"	"UPI0001B8E1D4"	""	NA	NA	""	"11/17"	""	"-:0.2536"	"A:0.6657"	"A:0.7493"	NA	"A:0.8631"	"A:0.6252"	"A:0.8579"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"86b5ff5e-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4705"	"RP11-63A11.1"	0	"mskcc.org"	"GRCh37"	"4"	42302061	42302062	"+"	"Intron"	"INS"	"-"	"-"	"TTTCT"	"rs112989196"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.60-16658_60-16654dupAGAAA"	""	""	"ENST00000503321"	""	28	"."	8	3	"."	0	"RP11-63A11.1,intron_variant,,ENST00000503321,;RP11-63A11.1,intron_variant,,ENST00000508911,;"	"TTTCT"	"ENSG00000250781"	"ENST00000503321"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/598"	""	""	""	""	"rs112989196"	"1"	NA	-1	"RP11-63A11.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"TTTCT:0.2652"	"TTTCT:0.2784"	"TTTCT:0.2666"	NA	"TTTCT:0.2688"	"TTTCT:0.2584"	"TTTCT:0.2495"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"86fc96c6-280f-11e6-982f-1233424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"4706"	"RP11-63A11.1"	0	"mskcc.org"	"GRCh37"	"4"	42302061	42302062	"+"	"Intron"	"INS"	"-"	"-"	"TTTCTTTTCT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.60-16663_60-16654dupAGAAAAGAAA"	""	""	"ENST00000503321"	""	28	"."	8	3	"."	0	"RP11-63A11.1,intron_variant,,ENST00000503321,;RP11-63A11.1,intron_variant,,ENST00000508911,;"	"TTTCTTTTCT"	"ENSG00000250781"	"ENST00000503321"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/598"	""	""	""	""	""	"1"	NA	-1	"RP11-63A11.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"86fd59da-280f-11e6-982f-1233424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"4707"	"RP11-63A11.1"	0	"mskcc.org"	"GRCh37"	"4"	42328613	42328627	"+"	"Intron"	"DEL"	"AGGAAGGAAGGACAG"	"AGGAAGGAAGGACAG"	"-"	"rs147045820"	NA	"JHCCPT5"	"JHCCPN5"	"AGGAAGGAAGGACAG"	"AGGAAGGAAGGACAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.60-43219_60-43205delCTGTCCTTCCTTCCT"	""	""	"ENST00000503321"	""	11	"."	3	3	"."	0	"RP11-63A11.1,intron_variant,,ENST00000503321,;RP11-63A11.1,intron_variant,,ENST00000508911,;"	"-"	"ENSG00000250781"	"ENST00000503321"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/598"	""	""	""	""	"rs147045820"	"1"	NA	-1	"RP11-63A11.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"AGGAAGGAAGGACAG:0.2378"	"-:0.8147"	"-:0.7867"	NA	"-:0.7103"	"-:0.7584"	"-:0.7311"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAGGAAGGAAGGACAGA"	"6c067d3c-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4708"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	44610711	44610713	"+"	"IGR"	"DEL"	"CTT"	"-"	"-"	"rs35818072"	NA	"JHCCPT5"	"JHCCPN5"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35818072"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3942"	"-:0.2648"	"-:0.4827"	NA	"-:0.4276"	"-:0.508"	"-:0.3548"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTC"	"6c302696-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4709"	"GUF1"	60558	"mskcc.org"	"GRCh37"	"4"	44696814	44696815	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35191289"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1715+291dupT"	""	""	"ENST00000281543"	""	9	"."	6	2	"."	0	"GUF1,intron_variant,,ENST00000281543,NM_021927.2;GNPDA2,intron_variant,,ENST00000608855,;GNPDA2,intron_variant,,ENST00000609092,;RP11-700J17.1,upstream_gene_variant,,ENST00000610260,;GUF1,intron_variant,,ENST00000506793,;GUF1,intron_variant,,ENST00000511493,;"	"T"	"ENSG00000151806"	"ENST00000281543"	"Transcript"	"intron_variant"	"-/4449"	"-/2010"	"-/669"	""	""	"rs35191289"	"1"	NA	1	"GUF1"	"HGNC"	25799	"protein_coding"	"YES"	"CCDS3468.1"	"ENSP00000281543"	"Q8N442"	""	"UPI000006FFEC"	"NM_021927.2"	NA	NA	""	"14/16"	""	"T:0.4477"	"T:0.2882"	"T:0.536"	NA	"T:0.4444"	"T:0.6004"	"T:0.4468"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"872829d0-280f-11e6-982f-1233424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4710"	"GABRA2"	2555	"mskcc.org"	"GRCh37"	"4"	46391056	46391057	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs35410180"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10-324_-10-323insAT"	""	""	"ENST00000510861"	""	10	"."	5	11	"."	0	"GABRA2,5_prime_UTR_variant,,ENST00000356504,NM_001114175.1;GABRA2,intron_variant,,ENST00000507460,;GABRA2,intron_variant,,ENST00000510861,;GABRA2,intron_variant,,ENST00000514090,;GABRA2,intron_variant,,ENST00000381620,NM_000807.2;GABRA2,intron_variant,,ENST00000515082,;GABRA2,intron_variant,,ENST00000540012,NM_001286827.1;GABRA2,intron_variant,,ENST00000503806,;GABRA2,intron_variant,,ENST00000506961,;GABRA2,upstream_gene_variant,,ENST00000507069,;RP11-436F23.1,upstream_gene_variant,,ENST00000502455,;GABRA2,upstream_gene_variant,,ENST00000509716,;GABRA2,intron_variant,,ENST00000514193,;GABRA2,upstream_gene_variant,,ENST00000510233,;GABRA2,upstream_gene_variant,,ENST00000513005,;"	"AT"	"ENSG00000151834"	"ENST00000510861"	"Transcript"	"intron_variant"	"-/3411"	"-/1356"	"-/451"	""	""	"rs35410180"	"1"	NA	-1	"GABRA2"	"HGNC"	4076	"protein_coding"	"YES"	"CCDS3471.1"	"ENSP00000421828"	"P47869"	"Q4W5L8,D6RBL7,D6RBK9,D6RB77"	"UPI000013DC88"	""	NA	NA	""	"1/9"	""	"AT:0.2492"	"AT:0.3759"	"AT:0.2305"	NA	"AT:0.1042"	"AT:0.333"	"AT:0.1544"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"873e6736-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4711"	"TXK"	7294	"mskcc.org"	"GRCh37"	"4"	48109917	48109929	"+"	"Intron"	"DEL"	"AAAAAAAAAAAAA"	"AAAAAAAAAAAAA"	"-"	"rs370997798"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAAAAAAAAAA"	"AAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.446+2626_446+2638delTTTTTTTTTTTTT"	""	""	"ENST00000264316"	""	7	"."	3	2	"."	0	"TXK,intron_variant,,ENST00000264316,NM_003328.2;TXK,downstream_gene_variant,,ENST00000506073,;RNU6-838P,upstream_gene_variant,,ENST00000363399,;RNU6-868P,downstream_gene_variant,,ENST00000517241,;TXK,intron_variant,,ENST00000510457,;"	"-"	"ENSG00000074966"	"ENST00000264316"	"Transcript"	"intron_variant"	"-/2914"	"-/1584"	"-/527"	""	""	"rs370997798"	"1"	NA	-1	"TXK"	"HGNC"	12434	"protein_coding"	"YES"	"CCDS3480.1"	"ENSP00000264316"	"P42681"	"Q6LD14,Q6LD13,D6RA14"	"UPI000013D4F9"	"NM_003328.2"	NA	NA	""	"5/14"	""	"AAAAAAAAAAAAA:0.0665"	"-:0.8154"	"-:0.9712"	NA	"-:0.995"	"-:0.9602"	"-:0.9755"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAAAAAAAAAAAAAA"	"6cc405a0-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4712"	"TEC"	7006	"mskcc.org"	"GRCh37"	"4"	48208170	48208171	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35287107"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.138+22323_138+22324insA"	""	""	"ENST00000381501"	""	20	"."	7	7	"."	0	"TEC,intron_variant,,ENST00000381501,NM_003215.2;TEC,intron_variant,,ENST00000505452,;"	"T"	"ENSG00000135605"	"ENST00000381501"	"Transcript"	"intron_variant"	"-/3687"	"-/1896"	"-/631"	""	""	"rs35287107"	"1"	NA	-1	"TEC"	"HGNC"	11719	"protein_coding"	"YES"	"CCDS3481.1"	"ENSP00000370912"	"P42680"	"Q14219"	"UPI000013CFAE"	"NM_003215.2"	NA	NA	""	"2/17"	""	"-:0.3910"	"T:0.671"	"T:0.6686"	NA	"T:0.5913"	"T:0.5915"	"T:0.5194"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"87613bd0-280f-11e6-982f-1233424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WXS"	FALSE
"4713"	"FRYL"	285527	"mskcc.org"	"GRCh37"	"4"	48625213	48625213	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs199509928"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.121-17delG"	""	""	"ENST00000358350"	""	125	"."	5	30	"."	0	"FRYL,intron_variant,,ENST00000358350,NM_015030.1;FRYL,intron_variant,,ENST00000537810,;FRYL,intron_variant,,ENST00000264319,;FRYL,intron_variant,,ENST00000503238,;FRYL,intron_variant,,ENST00000507711,;FRYL,intron_variant,,ENST00000505759,;FRYL,intron_variant,,ENST00000302806,;"	"-"	"ENSG00000075539"	"ENST00000358350"	"Transcript"	"intron_variant"	"-/11706"	"-/9042"	"-/3013"	""	""	"rs199509928"	"1"	NA	-1	"FRYL"	"HGNC"	29127	"protein_coding"	"YES"	"CCDS43227.1"	"ENSP00000351113"	"O94915"	""	"UPI0000EBC149"	"NM_015030.1"	NA	NA	""	"4/63"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.3265"	"0.3412"	"0.4664"	"0.4428"	"0.4536"	"0.4257"	"0.3649"	"0.3183"	NA	"common_variant"	"AACA"	"6d09d698-280f-11e6-982f-1233424a729f"	"300"	0.3891	"6537/16802"	"9083/27816"	"391/1146"	"971/2082"	"364/822"	"225/496"	"2688/6314"	"54/148"	"1844/5794"	"InbreedingCoeff_Filter"	"FALSE"	0.04	"WXS"	FALSE
"4714"	"FRYL"	285527	"mskcc.org"	"GRCh37"	"4"	48754389	48754390	"+"	"Intron"	"INS"	"-"	"-"	"GCCCCTGGAGCTG"	"rs113837444"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-384+27693_-384+27705dupCAGCTCCAGGGGC"	""	""	"ENST00000358350"	""	9	"."	4	1	"."	0	"FRYL,intron_variant,,ENST00000358350,NM_015030.1;FRYL,intron_variant,,ENST00000537810,;FRYL,intron_variant,,ENST00000264319,;FRYL,intron_variant,,ENST00000507711,;FRYL,intron_variant,,ENST00000514783,;FRYL,intron_variant,,ENST00000509886,;FRYL,intron_variant,,ENST00000515684,;FRYL,intron_variant,,ENST00000505437,;FRYL,intron_variant,,ENST00000502520,;"	"GCCCCTGGAGCTG"	"ENSG00000075539"	"ENST00000358350"	"Transcript"	"intron_variant"	"-/11706"	"-/9042"	"-/3013"	""	""	"rs113837444"	"1"	NA	-1	"FRYL"	"HGNC"	29127	"protein_coding"	"YES"	"CCDS43227.1"	"ENSP00000351113"	"O94915"	""	"UPI0000EBC149"	"NM_015030.1"	NA	NA	""	"1/63"	""	"-:0.0174"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"877c163a-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4715"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	49229887	49229888	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	6	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"87840020-280f-11e6-982f-1233424a729f"	"110"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4716"	"SPATA18"	132671	"mskcc.org"	"GRCh37"	"4"	52936207	52936208	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs201895827"	NA	"JHCCPT5"	"JHCCPN5"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.518+140_518+141delAT"	""	""	"ENST00000295213"	""	23	"."	5	2	"."	0	"SPATA18,intron_variant,,ENST00000295213,NM_145263.2;SPATA18,intron_variant,,ENST00000419395,;SPATA18,intron_variant,,ENST00000506829,;SPATA18,intron_variant,,ENST00000514670,;SPATA18,intron_variant,,ENST00000511028,;SPATA18,intron_variant,,ENST00000505320,;SPATA18,intron_variant,,ENST00000505038,;SPATA18,intron_variant,,ENST00000508915,;"	"-"	"ENSG00000163071"	"ENST00000295213"	"Transcript"	"intron_variant"	"-/4396"	"-/1617"	"-/538"	""	""	"rs201895827"	"1"	NA	1	"SPATA18"	"HGNC"	29579	"protein_coding"	"YES"	"CCDS3489.1"	"ENSP00000295213"	"Q8TC71"	""	"UPI000006FB0D"	"NM_145263.2"	NA	NA	""	"5/12"	""	"-:0.2412"	"-:0.2958"	"-:0.1167"	NA	"-:0.2222"	"-:0.1958"	"-:0.3221"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTAT"	"6d59b550-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WXS"	FALSE
"4717"	"FIP1L1"	81608	"mskcc.org"	"GRCh37"	"4"	54537114	54537114	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34017346"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1017+244990delT"	""	""	"ENST00000507166"	""	15	"."	3	6	"."	0	"FIP1L1,intron_variant,,ENST00000507166,;LNX1,intron_variant,,ENST00000513421,;RP11-317M11.1,intron_variant,,ENST00000508112,;"	"-"	"ENSG00000145216"	"ENST00000507166"	"Transcript"	"intron_variant"	"-/2550"	"-/2550"	"-/849"	""	""	"rs34017346"	"1"	NA	1	"FIP1L1"	"HGNC"	19124	"protein_coding"	""	""	"ENSP00000423325"	"Q6UN15"	""	"UPI00001AA722"	""	NA	NA	""	"12/23"	""	"T:0.4667"	"-:0.4327"	"-:0.3876"	NA	"-:0.6835"	"-:0.4612"	"-:0.6922"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCTT"	"6ddc201c-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	TRUE
"4718"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	56908516	56908517	"+"	"IGR"	"INS"	"-"	"-"	"TTTC"	"rs149700510"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"."	3	3	"."	0	""	"TTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs149700510"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TTTC:0.3750"	"TTTC:0.5507"	"TTTC:0.4193"	NA	"TTTC:0.3452"	"TTTC:0.173"	"TTTC:0.3446"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"87f29c4c-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"4719"	"PPAT"	5471	"mskcc.org"	"GRCh37"	"4"	57269646	57269647	"+"	"Intron"	"INS"	"-"	"-"	"AAAG"	"rs112538106"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.403-80_403-79insCTTT"	""	""	"ENST00000264220"	""	25	"."	13	4	"."	0	"PPAT,intron_variant,,ENST00000264220,NM_002703.4;PPAT,intron_variant,,ENST00000507648,;PPAT,intron_variant,,ENST00000510643,;PPAT,intron_variant,,ENST00000507724,;PPAT,upstream_gene_variant,,ENST00000425339,;"	"AAAG"	"ENSG00000128059"	"ENST00000264220"	"Transcript"	"intron_variant"	"-/3682"	"-/1554"	"-/517"	""	""	"rs112538106"	"1"	NA	-1	"PPAT"	"HGNC"	9238	"protein_coding"	"YES"	"CCDS3505.1"	"ENSP00000264220"	"Q06203"	"A8K4H7"	"UPI0000000C5A"	"NM_002703.4"	NA	NA	""	"3/10"	""	"-:0.2804"	"AAAG:0.7012"	"AAAG:0.7767"	NA	"AAAG:0.7192"	"AAAG:0.672"	"AAAG:0.7536"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"87fd6942-280f-11e6-982f-1233424a729f"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.52	"WXS"	FALSE
"4720"	"REST"	5978	"mskcc.org"	"GRCh37"	"4"	57795662	57795662	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs11330545"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.983-339delA"	""	""	"ENST00000309042"	""	12	"."	4	4	"."	0	"REST,intron_variant,,ENST00000309042,NM_005612.4,NM_001193508.1;REST,intron_variant,,ENST00000514063,;"	"-"	"ENSG00000084093"	"ENST00000309042"	"Transcript"	"intron_variant"	"-/7300"	"-/3294"	"-/1097"	""	""	"rs11330545"	"1"	NA	1	"REST"	"HGNC"	9966	"protein_coding"	"YES"	"CCDS3509.1"	"ENSP00000311816"	"Q13127"	""	"UPI000013FBF6"	"NM_005612.4,NM_001193508.1"	NA	NA	""	"3/3"	""	"-:0.1655"	"-:0.1906"	"-:0.304"	NA	"-:0.2024"	"-:0.0954"	"-:0.0675"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"6ea716f0-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4721"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	58174082	58174089	"+"	"IGR"	"DEL"	"ACTCATCC"	"-"	"-"	"rs113384647"	NA	"JHCCPT5"	"JHCCPN5"	"ACTCATCC"	"ACTCATCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113384647"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"ACTCATCC:0.3824"	"-:0.7602"	"-:0.6513"	NA	"-:0.5952"	"-:0.5139"	"-:0.5307"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAACTCATCCA"	"6ed23434-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4722"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	58859317	58859318	"+"	"IGR"	"INS"	"-"	"-"	"TCTTTCTTTCTTTCTTTCTT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	2	"."	0	""	"TCTTTCTTTCTTTCTTTCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"88379e32-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4723"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	60798884	60798885	"+"	"IGR"	"INS"	"-"	"-"	"TC"	"rs148642702"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	5	"."	0	""	"TC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148642702"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"883d4aee-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4724"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	61045331	61045340	"+"	"IGR"	"DEL"	"GTGTGTGTGT"	"-"	"-"	"rs67662658"	NA	"JHCCPT5"	"JHCCPN5"	"GTGTGTGTGT"	"GTGTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs67662658"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GTGTGTGTGT:0.0669"	"-:0.8313"	"-:0.9914"	NA	"-:0.9534"	"-:0.999"	"-:0.9407"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGTGTGTGTGTG"	"6eec15d4-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4725"	"LPHN3"	23284	"mskcc.org"	"GRCh37"	"4"	62764734	62764735	"+"	"Intron"	"INS"	"-"	"AAC"	"AAC"	"rs76615961"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1683+3183_1683+3184insACA"	""	""	"ENST00000514591"	""	8	"."	7	2	"."	0	"LPHN3,intron_variant,,ENST00000512091,;LPHN3,intron_variant,,ENST00000514591,;LPHN3,intron_variant,,ENST00000545650,NM_015236.4;LPHN3,intron_variant,,ENST00000509896,;LPHN3,intron_variant,,ENST00000511324,;LPHN3,intron_variant,,ENST00000508693,;LPHN3,intron_variant,,ENST00000507164,;LPHN3,intron_variant,,ENST00000506720,;LPHN3,intron_variant,,ENST00000506746,;LPHN3,intron_variant,,ENST00000507625,;LPHN3,intron_variant,,ENST00000506700,;LPHN3,intron_variant,,ENST00000504896,;LPHN3,intron_variant,,ENST00000514157,;LPHN3,intron_variant,,ENST00000508946,;LPHN3,intron_variant,,ENST00000514996,;LPHN3,intron_variant,,ENST00000502815,;"	"AAC"	"ENSG00000150471"	"ENST00000514591"	"Transcript"	"intron_variant"	"-/6297"	"-/4410"	"-/1469"	""	""	"rs76615961"	"1"	NA	1	"LPHN3"	"HGNC"	20974	"protein_coding"	"YES"	"CCDS54768.1"	"ENSP00000422533"	""	"Q4W5J9,E9PE04"	"UPI00016278EF"	""	NA	NA	""	"10/24"	""	"-:0.4962"	"AAC:0.5756"	"AAC:0.5072"	NA	"AAC:0.5258"	"AAC:0.4523"	"AAC:0.4346"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"884d4b24-280f-11e6-982f-1233424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.875	"WXS"	FALSE
"4726"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	64314041	64314043	"+"	"IGR"	"DEL"	"TTC"	"TTC"	"-"	"rs541767249"	NA	"JHCCPT5"	"JHCCPN5"	"TTC"	"TTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs541767249"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTCT"	"6f28cd30-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4727"	"EPHA5"	2044	"mskcc.org"	"GRCh37"	"4"	66218917	66218918	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs139336386"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2237-98_2237-97dupTA"	""	""	"ENST00000273854"	""	39	"."	4	8	"."	0	"EPHA5,intron_variant,,ENST00000273854,NM_004439.5,NM_001281765.1;EPHA5,intron_variant,,ENST00000511294,NM_001281767.1;EPHA5,intron_variant,,ENST00000432638,;EPHA5,intron_variant,,ENST00000354839,NM_182472.2;"	"TA"	"ENSG00000145242"	"ENST00000273854"	"Transcript"	"intron_variant"	"-/8266"	"-/3114"	"-/1037"	""	""	"rs139336386"	"1"	NA	-1	"EPHA5"	"HGNC"	3389	"protein_coding"	"YES"	"CCDS3513.1"	"ENSP00000273854"	"P54756"	""	"UPI000013D9D9"	"NM_004439.5,NM_001281765.1"	NA	NA	""	"12/17"	""	"TA:0.2756"	"TA:0.267"	"TA:0.2493"	NA	"TA:0.3413"	"TA:0.2346"	"TA:0.2802"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"886bce3c-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WXS"	FALSE
"4728"	"RP11-25H12.1"	0	"mskcc.org"	"GRCh37"	"4"	66960407	66960408	"+"	"Intron"	"INS"	"-"	"-"	"AAATAAAT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.464-27639_464-27632dupTAAATAAA"	""	""	"ENST00000508572"	""	50	"."	4	10	"."	0	"RP11-25H12.1,intron_variant,,ENST00000508572,;RP11-396M11.1,downstream_gene_variant,,ENST00000443143,;RP11-396M11.1,downstream_gene_variant,,ENST00000505282,;"	"AAATAAAT"	"ENSG00000249413"	"ENST00000508572"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/754"	""	""	""	""	""	"1"	NA	1	"RP11-25H12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"35"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"886d2c78-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WXS"	FALSE
"4729"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	67975535	67975536	"+"	"IGR"	"INS"	"-"	"-"	"AAGAAAAGA"	"rs144140879"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	4	3	"."	0	""	"AAGAAAAGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144140879"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"88724096-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"4730"	"UBA6"	55236	"mskcc.org"	"GRCh37"	"4"	68531151	68531152	"+"	"Intron"	"INS"	"-"	"-"	"TG"	"rs201604297"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.794-142_794-141insCA"	""	""	"ENST00000322244"	""	74	"."	3	10	"."	0	"UBA6,intron_variant,,ENST00000322244,NM_018227.5;UBA6,intron_variant,,ENST00000420827,;UBA6,intron_variant,,ENST00000429659,;"	"TG"	"ENSG00000033178"	"ENST00000322244"	"Transcript"	"intron_variant"	"-/9564"	"-/3159"	"-/1052"	""	""	"rs201604297"	"1"	NA	-1	"UBA6"	"HGNC"	25581	"protein_coding"	"YES"	"CCDS3516.1"	"ENSP00000313454"	"A0AVT1"	"B3KSS1"	"UPI000004A4F7"	"NM_018227.5"	NA	NA	""	"9/32"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8899eb32-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0405405405405405	"WXS"	FALSE
"4731"	"UBA6"	55236	"mskcc.org"	"GRCh37"	"4"	68531152	68531153	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs60372702"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.794-143_794-142insC"	""	""	"ENST00000322244"	""	73	"."	4	10	"."	0	"UBA6,intron_variant,,ENST00000322244,NM_018227.5;UBA6,intron_variant,,ENST00000420827,;UBA6,intron_variant,,ENST00000429659,;"	"G"	"ENSG00000033178"	"ENST00000322244"	"Transcript"	"intron_variant"	"-/9564"	"-/3159"	"-/1052"	""	""	"rs60372702"	"1"	NA	-1	"UBA6"	"HGNC"	25581	"protein_coding"	"YES"	"CCDS3516.1"	"ENSP00000313454"	"A0AVT1"	"B3KSS1"	"UPI000004A4F7"	"NM_018227.5"	NA	NA	""	"9/32"	""	"G:0.1565"	"G:0.2035"	"G:0.1499"	NA	"G:0.0823"	"G:0.2535"	"G:0.0746"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"889d4d68-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0547945205479452	"WXS"	FALSE
"4732"	"UBA6"	55236	"mskcc.org"	"GRCh37"	"4"	68547157	68547158	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs200361645"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.258+123dupA"	""	""	"ENST00000322244"	""	43	"."	22	5	"."	1	"UBA6,intron_variant,,ENST00000322244,NM_018227.5;UBA6,intron_variant,,ENST00000420827,;UBA6,intron_variant,,ENST00000429659,;UBA6,intron_variant,,ENST00000506571,;"	"T"	"ENSG00000033178"	"ENST00000322244"	"Transcript"	"intron_variant"	"-/9564"	"-/3159"	"-/1052"	""	""	"rs200361645"	"1"	NA	-1	"UBA6"	"HGNC"	25581	"protein_coding"	"YES"	"CCDS3516.1"	"ENSP00000313454"	"A0AVT1"	"B3KSS1"	"UPI000004A4F7"	"NM_018227.5"	NA	NA	""	"4/32"	""	"T:0.1528"	"T:0.1498"	"T:0.1153"	NA	"T:0.1052"	"T:0.165"	"T:0.2198"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"88a5c588-280f-11e6-982f-1233424a729f"	"1380"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.511627906976744	"WXS"	FALSE
"4733"	"TMPRSS11D"	9407	"mskcc.org"	"GRCh37"	"4"	68691166	68691167	"+"	"Intron"	"INS"	"-"	"AA"	"AA"	"rs10641230"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1095+283_1095+284insTT"	""	""	"ENST00000283916"	""	13	"."	10	2	"."	0	"TMPRSS11D,intron_variant,,ENST00000283916,NM_004262.2;TMPRSS11D,intron_variant,,ENST00000545541,;TMPRSS11D,downstream_gene_variant,,ENST00000514868,;UBA6-AS1,intron_variant,,ENST00000500538,;TMPRSS11D,downstream_gene_variant,,ENST00000502573,;TMPRSS11D,intron_variant,,ENST00000505533,;"	"AA"	"ENSG00000153802"	"ENST00000283916"	"Transcript"	"intron_variant"	"-/2817"	"-/1257"	"-/418"	""	""	"rs10641230"	"1"	NA	-1	"TMPRSS11D"	"HGNC"	24059	"protein_coding"	"YES"	"CCDS3518.1"	"ENSP00000283916"	"O60235"	"Q4W5K4,B4DL57"	"UPI000003FE66"	"NM_004262.2"	NA	NA	""	"9/9"	""	"-:0.2466"	"AA:0.6483"	"AA:0.8631"	NA	"AA:0.6538"	"AA:0.8708"	"AA:0.7996"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"88aff774-280f-11e6-982f-1233424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.769230769230769	"WXS"	FALSE
"4734"	"CSN3"	1448	"mskcc.org"	"GRCh37"	"4"	71114686	71114702	"+"	"Intron"	"DEL"	"ATATTCTGTATAATTTA"	"ATATTCTGTATAATTTA"	"TTCTGTATAATTTAT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"ATATTCTGTATAATTTA"	"ATATTCTGTATAATTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.88-29_88-13delATATTCTGTATAATTTAinsTTCTGTATAATTTAT"	""	""	"ENST00000304954"	""	166	"."	24	29	"."	0	"CSN3,intron_variant,,ENST00000304954,NM_005212.2;"	"TTCTGTATAATTTAT"	"ENSG00000171209"	"ENST00000304954"	"Transcript"	"intron_variant"	"-/836"	"-/549"	"-/182"	""	""	""	"1"	NA	1	"CSN3"	"HGNC"	2446	"protein_coding"	"YES"	"CCDS3538.1"	"ENSP00000304822"	"P07498"	""	"UPI000004F262"	"NM_005212.2"	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAATATTCTGTATAATTTAT"	"81af3520-280f-11e6-982f-1233424a729f"	"1440"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.144578313253012	"WXS"	FALSE
"4735"	"AMBN"	258	"mskcc.org"	"GRCh37"	"4"	71458297	71458297	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs33910648"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.15+214delT"	""	""	"ENST00000322937"	""	46	"."	14	6	"."	0	"AMBN,intron_variant,,ENST00000322937,NM_016519.5;AMBN,intron_variant,,ENST00000449493,;"	"-"	"ENSG00000178522"	"ENST00000322937"	"Transcript"	"intron_variant"	"-/2005"	"-/1344"	"-/447"	""	""	"rs33910648"	"1"	NA	1	"AMBN"	"HGNC"	452	"protein_coding"	"YES"	"CCDS3543.1"	"ENSP00000313809"	"Q9NP70"	"Q546D7"	"UPI000000DCCB"	"NM_016519.5"	NA	NA	""	"1/12"	""	"-:0.3956"	"-:0.5416"	"-:0.3357"	NA	"-:0.377"	"-:0.329"	"-:0.3282"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTT"	"704e9a32-280f-11e6-982f-1233424a729f"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WXS"	FALSE
"4736"	"SLC4A4"	8671	"mskcc.org"	"GRCh37"	"4"	72429951	72429954	"+"	"Intron"	"DEL"	"TGTT"	"TGTT"	"-"	"rs3217637"	NA	"JHCCPT5"	"JHCCPN5"	"TGTT"	"TGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3100-2767_3100-2764delTTGT"	""	""	"ENST00000425175"	""	15	"."	6	2	"."	0	"SLC4A4,intron_variant,,ENST00000340595,NM_003759.3;SLC4A4,intron_variant,,ENST00000425175,NM_001134742.1;SLC4A4,intron_variant,,ENST00000264485,NM_001098484.2;SLC4A4,intron_variant,,ENST00000351898,;"	"-"	"ENSG00000080493"	"ENST00000425175"	"Transcript"	"intron_variant"	"-/7596"	"-/3285"	"-/1094"	""	""	"rs3217637"	"1"	NA	1	"SLC4A4"	"HGNC"	11030	"protein_coding"	"YES"	"CCDS47071.1"	"ENSP00000393557"	"Q9Y6R1"	"A5JJ20"	"UPI000152897D"	"NM_001134742.1"	NA	NA	""	"23/24"	""	"TGTT:0.3940"	"-:0.5424"	"-:0.7637"	NA	"-:0.4256"	"-:0.7604"	"-:0.6074"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACTGTTT"	"708b819a-280f-11e6-982f-1233424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4737"	"GC"	2638	"mskcc.org"	"GRCh37"	"4"	72654402	72654403	"+"	"Intron"	"INS"	"-"	"-"	"AG"	"rs143777953"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.22-4633_22-4632dupCT"	""	""	"ENST00000504199"	""	6	"."	4	1	"."	0	"GC,intron_variant,,ENST00000504199,NM_001204307.1;GC,upstream_gene_variant,,ENST00000273951,NM_001204306.1,NM_000583.3;GC,upstream_gene_variant,,ENST00000513476,;GC,upstream_gene_variant,,ENST00000506245,;GC,upstream_gene_variant,,ENST00000509740,;"	"AG"	"ENSG00000145321"	"ENST00000504199"	"Transcript"	"intron_variant"	"-/1777"	"-/1482"	"-/493"	""	""	"rs143777953"	"1"	NA	-1	"GC"	"HGNC"	4187	"protein_coding"	"YES"	"CCDS56332.1"	"ENSP00000421725"	"P02774"	"D6RF20"	"UPI0001D3B4EE"	"NM_001204307.1"	NA	NA	""	"1/13"	""	"-:0.0399"	"AG:0.8707"	"AG:0.9813"	NA	"AG:0.997"	"AG:0.997"	"AG:0.9898"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"89325b38-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4738"	"NPFFR2"	10886	"mskcc.org"	"GRCh37"	"4"	72934578	72934579	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11444220"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.299+36667dupT"	""	""	"ENST00000308744"	""	117	"."	21	12	"."	0	"NPFFR2,intron_variant,,ENST00000308744,NM_004885.2;NPFFR2,intron_variant,,ENST00000395999,NM_001144756.1;NPFFR2,intron_variant,,ENST00000358749,NM_053036.2;NPFFR2,intron_variant,,ENST00000344413,;"	"T"	"ENSG00000056291"	"ENST00000308744"	"Transcript"	"intron_variant"	"-/1922"	"-/1569"	"-/522"	""	""	"rs11444220"	"1"	NA	1	"NPFFR2"	"HGNC"	4525	"protein_coding"	"YES"	"CCDS3551.1"	"ENSP00000307822"	"Q9Y5X5"	"A0PJM9"	"UPI000012FFBD"	"NM_004885.2"	NA	NA	""	"1/3"	""	"-:0.1595"	"T:0.7663"	"T:0.9135"	NA	"T:0.6815"	"T:0.9861"	"T:0.9029"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"8939c666-280f-11e6-982f-1233424a729f"	"1260"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179487179487179	"WXS"	FALSE
"4739"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	73712080	73712081	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs34709320"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	10	2	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34709320"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1983"	"T:0.8374"	"T:0.7839"	NA	"T:0.6518"	"T:0.8698"	"T:0.8507"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"893d42aa-280f-11e6-982f-1233424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.588235294117647	"WXS"	FALSE
"4740"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	76048116	76048117	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs200920917"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	23	"."	4	15	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200920917"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3111"	"A:0.916"	"A:0.536"	NA	"A:0.8839"	"A:0.493"	"A:0.4908"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"895de460-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"4741"	"CCNI"	10983	"mskcc.org"	"GRCh37"	"4"	77980122	77980123	"+"	"Intron"	"DEL"	"AA"	"AA"	"-"	"rs4252866"	NA	"JHCCPT5"	"JHCCPN5"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.115-335_115-334delTT"	""	""	"ENST00000237654"	""	11	"."	5	2	"."	0	"CCNI,intron_variant,,ENST00000237654,NM_006835.2;CCNI,intron_variant,,ENST00000537948,;CCNI,intron_variant,,ENST00000507788,;CCNI,intron_variant,,ENST00000505609,;CCNI,intron_variant,,ENST00000513774,;CCNI,upstream_gene_variant,,ENST00000515468,;CCNI,intron_variant,,ENST00000504697,;CCNI,intron_variant,,ENST00000511943,;CCNI,upstream_gene_variant,,ENST00000506614,;"	"-"	"ENSG00000118816"	"ENST00000237654"	"Transcript"	"intron_variant"	"-/2772"	"-/1134"	"-/377"	""	""	"rs4252866"	"1"	NA	-1	"CCNI"	"HGNC"	1595	"protein_coding"	"YES"	"CCDS3580.1"	"ENSP00000237654"	"Q14094"	"D6RH01,D6RG12"	"UPI000000D8E4"	"NM_006835.2"	NA	NA	""	"2/6"	""	"-:0.2666"	"-:0.1059"	"-:0.3415"	NA	"-:0.4147"	"-:0.2992"	"-:0.2444"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAAG"	"7203b75e-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"4742"	"BMP2K"	55589	"mskcc.org"	"GRCh37"	"4"	79768295	79768296	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs146999088"	NA	"JHCCPT5"	"JHCCPN5"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.669-32_669-31delAT"	""	""	"ENST00000335016"	""	92	"."	5	10	"."	0	"BMP2K,intron_variant,,ENST00000335016,NM_198892.1;BMP2K,intron_variant,,ENST00000502871,NM_017593.3;BMP2K,intron_variant,,ENST00000389010,;BMP2K,upstream_gene_variant,,ENST00000505725,;"	"-"	"ENSG00000138756"	"ENST00000335016"	"Transcript"	"intron_variant"	"-/3804"	"-/3486"	"-/1161"	""	""	"rs146999088"	"1"	NA	1	"BMP2K"	"HGNC"	18041	"protein_coding"	"YES"	"CCDS47083.1"	"ENSP00000334836"	"Q9NSY1"	""	"UPI00001BDC7C"	"NM_198892.1"	NA	NA	""	"5/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	""	"1"	"0.03441"	"0.1693"	"0.262"	"0.2262"	"0.1716"	"0.2177"	"0.1923"	"0.1654"	NA	"common_variant"	"TTTAT"	"724c8524-280f-11e6-982f-1233424a729f"	"300"	0.2084	"2199/10550"	"3204/93104"	"128/756"	"503/1920"	"95/420"	"151/880"	"968/4446"	"15/78"	"339/2050"	"PASS"	"FALSE"	0.0543478260869565	"WXS"	FALSE
"4743"	"PRKG2"	5593	"mskcc.org"	"GRCh37"	"4"	82031918	82031919	"+"	"Intron"	"INS"	"-"	"-"	"AGAC"	"rs10667739"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1777-157_1777-154dupGTCT"	""	""	"ENST00000395578"	""	16	"."	3	11	"."	0	"PRKG2,intron_variant,,ENST00000395578,;PRKG2,intron_variant,,ENST00000264399,NM_006259.1;PRKG2,intron_variant,,ENST00000418486,NM_001282485.1;PRKG2,intron_variant,,ENST00000545647,;PRKG2,intron_variant,,ENST00000509169,;PRKG2,intron_variant,,ENST00000509474,;"	"AGAC"	"ENSG00000138669"	"ENST00000395578"	"Transcript"	"intron_variant"	"-/3431"	"-/2289"	"-/762"	""	""	"rs10667739"	"1"	NA	-1	"PRKG2"	"HGNC"	9416	"protein_coding"	"YES"	"CCDS3589.1"	"ENSP00000378945"	"Q13237"	"B7ZA25"	"UPI000012DDC6"	""	NA	NA	""	"14/18"	""	"-:0.0068"	"AGAC:0.9962"	"AGAC:0.9899"	NA	"AGAC:0.998"	"AGAC:0.9851"	"AGAC:0.9949"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"8a0bb4a0-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"4744"	"HNRNPD"	3184	"mskcc.org"	"GRCh37"	"4"	83276430	83276431	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs562039321"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*30+26dupT"	""	""	"ENST00000313899"	""	23	"."	4	4	"."	0	"HNRNPD,3_prime_UTR_variant,,ENST00000541060,;HNRNPD,intron_variant,,ENST00000313899,NM_031370.2;HNRNPD,intron_variant,,ENST00000352301,NM_031369.2;HNRNPD,intron_variant,,ENST00000353341,NM_002138.3;HNRNPD,intron_variant,,ENST00000543098,;HNRNPD,intron_variant,,ENST00000514671,;HNRNPD,downstream_gene_variant,,ENST00000509263,;HNRNPD,downstream_gene_variant,,ENST00000507010,;HNRNPD,downstream_gene_variant,,ENST00000503822,;HNRNPD,downstream_gene_variant,,ENST00000509107,;HNRNPD,downstream_gene_variant,,ENST00000515432,;HNRNPD,non_coding_transcript_exon_variant,,ENST00000508119,;HNRNPD,3_prime_UTR_variant,,ENST00000513584,;HNRNPD,non_coding_transcript_exon_variant,,ENST00000514325,;"	"A"	"ENSG00000138668"	"ENST00000313899"	"Transcript"	"intron_variant"	"-/3033"	"-/1068"	"-/355"	""	""	"rs562039321"	"1"	NA	-1	"HNRNPD"	"HGNC"	5036	"protein_coding"	"YES"	"CCDS3592.1"	"ENSP00000313199"	"Q14103"	"F5H6R6,D6RF44,D6RAF8"	"UPI0000000C3F"	"NM_031370.2"	NA	NA	""	"8/8"	""	"A:0.2682"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"8a1627e6-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"4745"	"LIN54"	132660	"mskcc.org"	"GRCh37"	"4"	83848977	83848980	"+"	"3'UTR"	"DEL"	"AGAA"	"AGAA"	"-"	"rs112209654"	NA	"JHCCPT5"	"JHCCPN5"	"AGAA"	"AGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*275_*278delTTCT"	""	""	"ENST00000340417"	"13/13"	12	"."	7	1	"."	0	"LIN54,3_prime_UTR_variant,,ENST00000340417,NM_194282.2;LIN54,3_prime_UTR_variant,,ENST00000395282,;LIN54,3_prime_UTR_variant,,ENST00000395283,;LIN54,3_prime_UTR_variant,,ENST00000442461,NM_001115008.1;LIN54,3_prime_UTR_variant,,ENST00000446851,;LIN54,3_prime_UTR_variant,,ENST00000506560,;LIN54,3_prime_UTR_variant,,ENST00000505397,;LIN54,3_prime_UTR_variant,,ENST00000510557,NM_001115007.1;LIN54,intron_variant,,ENST00000505905,;LIN54,3_prime_UTR_variant,,ENST00000510877,;LIN54,3_prime_UTR_variant,,ENST00000508171,;"	"-"	"ENSG00000189308"	"ENST00000340417"	"Transcript"	"3_prime_UTR_variant"	"2903-2906/6127"	"-/2250"	"-/749"	""	""	"rs112209654"	"1"	NA	-1	"LIN54"	"HGNC"	25397	"protein_coding"	"YES"	"CCDS3599.1"	"ENSP00000341947"	"Q6MZP7"	""	"UPI00001D75DE"	"NM_194282.2"	NA	NA	"13/13"	""	""	"-:0.3929"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAGAAA"	"72e5f5ce-280f-11e6-982f-1233424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"4746"	"ARHGAP24"	83478	"mskcc.org"	"GRCh37"	"4"	86511346	86511361	"+"	"Intron"	"DEL"	"CCTTCCTTCCTTCCTT"	"CCTTCCTTCCTTCCTT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CCTTCCTTCCTTCCTT"	"CCTTCCTTCCTTCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.180+19507_180+19522delTCCTTCCTTCCTTCCT"	""	""	"ENST00000395184"	""	8	"."	3	2	"."	0	"ARHGAP24,intron_variant,,ENST00000395184,NM_001025616.2,NM_001287805.1;ARHGAP24,intron_variant,,ENST00000503995,;ARHGAP24,intron_variant,,ENST00000506421,;ARHGAP24,intron_variant,,ENST00000509709,;"	"-"	"ENSG00000138639"	"ENST00000395184"	"Transcript"	"intron_variant"	"-/4661"	"-/2247"	"-/748"	""	""	""	"1"	NA	1	"ARHGAP24"	"HGNC"	25361	"protein_coding"	"YES"	"CCDS34025.1"	"ENSP00000378611"	"Q8N264"	"D6RHH1,B3KUX7"	"UPI00001AF1D9"	"NM_001025616.2,NM_001287805.1"	NA	NA	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"35"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGCCTTCCTTCCTTCCTTC"	"73759238-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4747"	"PTPN13"	5783	"mskcc.org"	"GRCh37"	"4"	87668688	87668702	"+"	"Intron"	"DEL"	"GCAGCAGCAGCAGCG"	"GCAGCAGCAGCAGCG"	"-"	"rs531222411"	NA	"JHCCPT5"	"JHCCPN5"	"GCAGCAGCAGCAGCG"	"GCAGCAGCAGCAGCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2650+2421_2650+2435delGGCAGCAGCAGCAGC"	""	""	"ENST00000436978"	""	48	"."	10	13	"."	0	"PTPN13,intron_variant,,ENST00000436978,NM_080685.2,NM_080683.2;PTPN13,intron_variant,,ENST00000427191,NM_006264.2;PTPN13,intron_variant,,ENST00000411767,;PTPN13,intron_variant,,ENST00000511467,;PTPN13,intron_variant,,ENST00000316707,NM_080684.2;"	"-"	"ENSG00000163629"	"ENST00000436978"	"Transcript"	"intron_variant"	"-/8573"	"-/7473"	"-/2490"	""	""	"rs531222411"	"1"	NA	1	"PTPN13"	"HGNC"	9646	"protein_coding"	"YES"	"CCDS47093.1"	"ENSP00000394794"	"Q12923"	"Q4W5F5,D6R9X4"	"UPI000016075D"	"NM_080685.2,NM_080683.2"	NA	NA	""	"17/47"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"14"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGCAGCAGCAGCAGCGG"	"73994b92-280f-11e6-982f-1233424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WXS"	TRUE
"4748"	"PTPN13"	5783	"mskcc.org"	"GRCh37"	"4"	87720532	87720556	"+"	"Intron"	"DEL"	"TCACTACAACCACCACCTCCCCAGT"	"TCACTACAACCACCACCTCCCCAGT"	"-"	"rs150261397"	NA	"JHCCPT5"	"JHCCPN5"	"TCACTACAACCACCACCTCCCCAGT"	"TCACTACAACCACCACCTCCCCAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6520+195_6520+219delCCAGTTCACTACAACCACCACCTCC"	""	""	"ENST00000436978"	""	37	"."	10	5	"."	0	"PTPN13,intron_variant,,ENST00000436978,NM_080685.2,NM_080683.2;PTPN13,intron_variant,,ENST00000427191,NM_006264.2;PTPN13,intron_variant,,ENST00000411767,;PTPN13,intron_variant,,ENST00000511467,;PTPN13,intron_variant,,ENST00000316707,NM_080684.2;"	"-"	"ENSG00000163629"	"ENST00000436978"	"Transcript"	"intron_variant"	"-/8573"	"-/7473"	"-/2490"	""	""	"rs150261397"	"1"	NA	1	"PTPN13"	"HGNC"	9646	"protein_coding"	"YES"	"CCDS47093.1"	"ENSP00000394794"	"Q12923"	"Q4W5F5,D6R9X4"	"UPI000016075D"	"NM_080685.2,NM_080683.2"	NA	NA	""	"42/47"	""	"-:0.0703"	"-:0.1097"	"-:0.0706"	NA	"-:0.0079"	"-:0.1123"	"-:0.0378"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTCACTACAACCACCACCTCCCCAGTT"	"73a6aa1c-280f-11e6-982f-1233424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27027027027027	"WXS"	TRUE
"4749"	"KLHL8"	57563	"mskcc.org"	"GRCh37"	"4"	88084360	88084361	"+"	"3'UTR"	"INS"	"-"	"-"	"AG"	"rs144004185"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*309_*310dupCT"	""	""	"ENST00000273963"	"10/10"	16	"."	5	4	"."	0	"KLHL8,3_prime_UTR_variant,,ENST00000273963,NM_020803.3;KLHL8,3_prime_UTR_variant,,ENST00000498875,;KLHL8,3_prime_UTR_variant,,ENST00000425278,;KLHL8,3_prime_UTR_variant,,ENST00000512111,;KLHL8,3_prime_UTR_variant,,ENST00000545252,;KLHL8,downstream_gene_variant,,ENST00000505388,;KLHL8,3_prime_UTR_variant,,ENST00000506985,;RP11-476C8.2,upstream_gene_variant,,ENST00000505836,;"	"AG"	"ENSG00000145332"	"ENST00000273963"	"Transcript"	"3_prime_UTR_variant"	"2515-2516/5621"	"-/1863"	"-/620"	""	""	"rs144004185"	"1"	NA	-1	"KLHL8"	"HGNC"	18644	"protein_coding"	"YES"	"CCDS3617.1"	"ENSP00000273963"	"Q9P2G9"	"Q49A95"	"UPI00001AE9B8"	"NM_020803.3"	NA	NA	"10/10"	""	""	"AG:0.2151"	"AG:0.475"	"AG:0.0764"	NA	"AG:0.2133"	"AG:0.0388"	"AG:0.1452"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"8ad3986c-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"4750"	"SPARCL1"	8404	"mskcc.org"	"GRCh37"	"4"	88413104	88413110	"+"	"Intron"	"DEL"	"CCCCAAA"	"CCCCAAA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CCCCAAA"	"CCCCAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1219-268_1219-262delTTTGGGG"	""	""	"ENST00000418378"	""	16	"."	3	7	"."	0	"SPARCL1,intron_variant,,ENST00000418378,NM_001128310.1;SPARCL1,intron_variant,,ENST00000282470,NM_004684.4;SPARCL1,intron_variant,,ENST00000503414,;SPARCL1,downstream_gene_variant,,ENST00000434434,;SPARCL1,downstream_gene_variant,,ENST00000541496,;SPARCL1,downstream_gene_variant,,ENST00000512317,;SPARCL1,downstream_gene_variant,,ENST00000509407,;SPARCL1,downstream_gene_variant,,ENST00000543631,;SPARCL1,downstream_gene_variant,,ENST00000458304,;SPARCL1,downstream_gene_variant,,ENST00000535835,;"	"-"	"ENSG00000152583"	"ENST00000418378"	"Transcript"	"intron_variant"	"-/2994"	"-/1995"	"-/664"	""	""	""	"1"	NA	-1	"SPARCL1"	"HGNC"	11220	"protein_coding"	"YES"	"CCDS3622.1"	"ENSP00000414856"	"Q14515"	"F5H4Y3,F5H331,E9PC64,E7EU82,D6RA29,C9JJR8,B4E2Z0"	"UPI000013DCE3"	"NM_001128310.1"	NA	NA	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCCCCAAAA"	"73e97298-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"4751"	"ABCG2"	9429	"mskcc.org"	"GRCh37"	"4"	89068168	89068169	"+"	"Intron"	"INS"	"-"	"-"	"GAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-19-7034_-19-7003dupTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTC"	""	""	"ENST00000237612"	""	10	"."	4	1	"."	0	"ABCG2,intron_variant,,ENST00000237612,NM_004827.2;ABCG2,intron_variant,,ENST00000515655,NM_001257386.1;ABCG2,intron_variant,,ENST00000505480,;ABCG2,intron_variant,,ENST00000503830,;"	"GAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAA"	"ENSG00000118777"	"ENST00000237612"	"Transcript"	"intron_variant"	"-/4479"	"-/1968"	"-/655"	""	""	""	"1"	NA	-1	"ABCG2"	"HGNC"	74	"protein_coding"	"YES"	"CCDS3628.1"	"ENSP00000237612"	"Q9UNQ0"	"F8S0F2"	"UPI0000001275"	"NM_004827.2"	NA	NA	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"8b3f1222-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4752"	"FAM13A"	10144	"mskcc.org"	"GRCh37"	"4"	89669789	89669789	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs140953189"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2161+314delA"	""	""	"ENST00000264344"	""	8	"."	4	2	"."	0	"FAM13A,intron_variant,,ENST00000264344,NM_014883.3;FAM13A,intron_variant,,ENST00000395002,NM_001265579.1,NM_001015045.2;FAM13A,intron_variant,,ENST00000511976,;FAM13A,intron_variant,,ENST00000503556,NM_001265578.1;FAM13A,intron_variant,,ENST00000508369,;FAM13A,intron_variant,,ENST00000513837,NM_001265580.1;FAM13A,intron_variant,,ENST00000511573,;FAM13A,intron_variant,,ENST00000504836,;FAM13A,intron_variant,,ENST00000508360,;FAM13A,downstream_gene_variant,,ENST00000507352,;FAM13A,downstream_gene_variant,,ENST00000515155,;"	"-"	"ENSG00000138640"	"ENST00000264344"	"Transcript"	"intron_variant"	"-/5858"	"-/3072"	"-/1023"	""	""	"rs140953189"	"1"	NA	-1	"FAM13A"	"HGNC"	19367	"protein_coding"	"YES"	"CCDS34029.1"	"ENSP00000264344"	"O94988"	"B4DPB4"	"UPI0000481AF3"	"NM_014883.3"	NA	NA	""	"17/23"	""	"-:0.0545"	"-:0.003"	"-:0.0591"	NA	"-:0"	"-:0.1441"	"-:0.0849"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCTT"	"749b7de4-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4753"	"FAM13A"	10144	"mskcc.org"	"GRCh37"	"4"	89911840	89911841	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35165763"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.605+283dupA"	""	""	"ENST00000264344"	""	33	"."	8	3	"."	0	"FAM13A,3_prime_UTR_variant,,ENST00000515600,;FAM13A,intron_variant,,ENST00000264344,NM_014883.3;FAM13A,intron_variant,,ENST00000511976,;FAM13A,intron_variant,,ENST00000509094,;FAM13A,intron_variant,,ENST00000502459,;FAM13A,intron_variant,,ENST00000512339,;"	"T"	"ENSG00000138640"	"ENST00000264344"	"Transcript"	"intron_variant"	"-/5858"	"-/3072"	"-/1023"	""	""	"rs35165763"	"1"	NA	-1	"FAM13A"	"HGNC"	19367	"protein_coding"	"YES"	"CCDS34029.1"	"ENSP00000264344"	"O94988"	"B4DPB4"	"UPI0000481AF3"	"NM_014883.3"	NA	NA	""	"4/23"	""	"-:0.3077"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"8b500f64-280f-11e6-982f-1233424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242424242424242	"WXS"	FALSE
"4754"	"CCSER1"	401145	"mskcc.org"	"GRCh37"	"4"	91800663	91800664	"+"	"Intron"	"INS"	"-"	"-"	"GAGGAAGAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2095-43856_2095-43855insGGAAGAGGA"	""	""	"ENST00000509176"	""	19	"."	4	4	"."	0	"CCSER1,intron_variant,,ENST00000509176,NM_001145065.1;CCSER1,intron_variant,,ENST00000333691,;CCSER1,intron_variant,,ENST00000503421,;CCSER1,intron_variant,,ENST00000515693,;CCSER1,intron_variant,,ENST00000505073,;CCSER1,intron_variant,,ENST00000509109,;CCSER1,intron_variant,,ENST00000513522,;"	"GAGGAAGAG"	"ENSG00000184305"	"ENST00000509176"	"Transcript"	"intron_variant"	"-/5847"	"-/2703"	"-/900"	""	""	""	"1"	NA	1	"CCSER1"	"HGNC"	29349	"protein_coding"	"YES"	"CCDS47099.1"	"ENSP00000425040"	"Q9C0I3"	""	"UPI00005A6104"	"NM_001145065.1"	NA	NA	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"8b7000f8-280f-11e6-982f-1233424a729f"	"232"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"4755"	"GRID2"	2895	"mskcc.org"	"GRCh37"	"4"	94411374	94411375	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11464300"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1859-410dupA"	""	""	"ENST00000282020"	""	7	"."	4	1	"."	0	"GRID2,intron_variant,,ENST00000282020,NM_001510.2;GRID2,intron_variant,,ENST00000510992,NM_001286838.1;"	"A"	"ENSG00000152208"	"ENST00000282020"	"Transcript"	"intron_variant"	"-/5340"	"-/3024"	"-/1007"	""	""	"rs11464300"	"1"	NA	1	"GRID2"	"HGNC"	4576	"protein_coding"	"YES"	"CCDS3637.1"	"ENSP00000282020"	"O43424"	"Q4W5S4,Q4W5L9,Q4W5F4,Q4W5B7,D6R976"	"UPI00001AEA78"	"NM_001510.2"	NA	NA	""	"11/15"	""	"A:0.2997"	"A:0.3147"	"A:0.3228"	NA	"A:0.4058"	"A:0.167"	"A:0.2904"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"8b7eb17a-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4756"	"STPG2"	285555	"mskcc.org"	"GRCh37"	"4"	98607401	98607402	"+"	"Intron"	"INS"	"-"	"-"	"TC"	"rs148404861"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1320+26447_1320+26448dupGA"	""	""	"ENST00000295268"	""	6	"."	4	3	"."	0	"STPG2,intron_variant,,ENST00000522676,;STPG2,intron_variant,,ENST00000295268,NM_174952.2;STPG2,intron_variant,,ENST00000506482,;"	"TC"	"ENSG00000163116"	"ENST00000295268"	"Transcript"	"intron_variant"	"-/1652"	"-/1380"	"-/459"	""	""	"rs148404861"	"1"	NA	-1	"STPG2"	"HGNC"	28712	"protein_coding"	"YES"	"CCDS3645.1"	"ENSP00000295268"	"Q8N412"	""	"UPI00000734EC"	"NM_174952.2"	NA	NA	""	"10/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8b9afed4-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4757"	"ADH5"	128	"mskcc.org"	"GRCh37"	"4"	99995944	99995949	"+"	"Intron"	"DEL"	"ATAATG"	"ATAATG"	"-"	"rs556062997"	NA	"JHCCPT5"	"JHCCPN5"	"ATAATG"	"ATAATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.961+116_961+121delCATTAT"	""	""	"ENST00000296412"	""	22	"."	9	2	"."	0	"ADH5,intron_variant,,ENST00000296412,NM_000671.3;ADH5,downstream_gene_variant,,ENST00000503130,;ADH5,downstream_gene_variant,,ENST00000512991,;ADH5,downstream_gene_variant,,ENST00000512604,;ADH5,intron_variant,,ENST00000512621,;ADH5,downstream_gene_variant,,ENST00000508511,;ADH5,downstream_gene_variant,,ENST00000512659,;ADH5,downstream_gene_variant,,ENST00000502590,;ADH5,downstream_gene_variant,,ENST00000505652,;"	"-"	"ENSG00000197894"	"ENST00000296412"	"Transcript"	"intron_variant"	"-/2612"	"-/1125"	"-/374"	""	""	"rs556062997"	"1"	NA	-1	"ADH5"	"HGNC"	253	"protein_coding"	"YES"	"CCDS47111.1"	"ENSP00000296412"	"P11766"	"Q6IRT1,D6RFE4"	"UPI0000000DE6"	"NM_000671.3"	NA	NA	""	"7/8"	""	"-:0.0060"	"-:0.0008"	"-:0.0086"	NA	"-:0"	"-:0.008"	"-:0.0153"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTATAATGA"	"75232b22-280f-11e6-982f-1233424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.409090909090909	"WXS"	FALSE
"4758"	"ADH1C"	126	"mskcc.org"	"GRCh37"	"4"	100261578	100261578	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs55753621"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.964+154delA"	""	""	"ENST00000515683"	""	58	"."	7	17	"."	0	"ADH1C,downstream_gene_variant,,ENST00000510055,;ADH1C,downstream_gene_variant,,ENST00000511397,;ADH1C,downstream_gene_variant,,ENST00000505942,;ADH1C,intron_variant,,ENST00000515683,NM_000669.3;"	"-"	"ENSG00000248144"	"ENST00000515683"	"Transcript"	"intron_variant"	"-/1740"	"-/1128"	"-/375"	""	""	"rs55753621"	"1"	NA	-1	"ADH1C"	"HGNC"	251	"polymorphic_pseudogene"	"YES"	""	"ENSP00000426083"	""	""	""	"NM_000669.3"	NA	NA	""	"7/8"	""	"-:0.2143"	"-:0.0983"	"-:0.2709"	NA	"-:0.0764"	"-:0.4046"	"-:0.2771"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATA"	"7548aece-280f-11e6-982f-1233424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120689655172414	"WXS"	FALSE
"4759"	"MTTP"	4547	"mskcc.org"	"GRCh37"	"4"	100491544	100491547	"+"	"Intron"	"DEL"	"TCTT"	"TCTT"	"-"	"rs138119446"	NA	"JHCCPT5"	"JHCCPN5"	"TCTT"	"TCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-101-4418_-101-4415delTCTT"	""	""	"ENST00000457717"	""	13	"."	6	2	"."	0	"MTTP,intron_variant,,ENST00000457717,NM_000253.2;MTTP,intron_variant,,ENST00000511045,;MTTP,intron_variant,,ENST00000506883,;MTTP,upstream_gene_variant,,ENST00000265517,;MTTP,upstream_gene_variant,,ENST00000422897,;MTTP,intron_variant,,ENST00000515141,;MTTP,intron_variant,,ENST00000513404,;MTTP,intron_variant,,ENST00000504724,;MTTP,intron_variant,,ENST00000505094,;MTTP,intron_variant,,ENST00000511610,;MTTP,intron_variant,,ENST00000505142,;"	"-"	"ENSG00000138823"	"ENST00000457717"	"Transcript"	"intron_variant"	"-/4092"	"-/2685"	"-/894"	""	""	"rs138119446"	"1"	NA	1	"MTTP"	"HGNC"	7467	"protein_coding"	"YES"	"CCDS3651.1"	"ENSP00000400821"	"P55157"	""	"UPI000012F826"	"NM_000253.2"	NA	NA	""	"1/18"	""	"-:0.2071"	"-:0.1581"	"-:0.0994"	NA	"-:0.4464"	"-:0.1233"	"-:0.1892"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTCTTT"	"75512d42-280f-11e6-982f-1233424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"4760"	"EMCN"	51705	"mskcc.org"	"GRCh37"	"4"	101396459	101396460	"+"	"Intron"	"INS"	"-"	"-"	"ACACACAC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.188-201_188-194dupGTGTGTGT"	""	""	"ENST00000296420"	""	22	"."	4	9	"."	0	"EMCN,intron_variant,,ENST00000296420,NM_001159694.1,NM_016242.3;EMCN,intron_variant,,ENST00000305864,;EMCN,intron_variant,,ENST00000511970,;EMCN,intron_variant,,ENST00000502569,;EMCN,upstream_gene_variant,,ENST00000506300,;EMCN,intron_variant,,ENST00000502327,;EMCN,intron_variant,,ENST00000506323,;EMCN,intron_variant,,ENST00000512253,;EMCN,downstream_gene_variant,,ENST00000510657,;"	"ACACACAC"	"ENSG00000164035"	"ENST00000296420"	"Transcript"	"intron_variant"	"-/4037"	"-/786"	"-/261"	""	""	""	"1"	NA	-1	"EMCN"	"HGNC"	16041	"protein_coding"	"YES"	"CCDS3655.1"	"ENSP00000296420"	"Q9ULC0"	"Q53H40,Q4W5J1"	"UPI000003777D"	"NM_001159694.1,NM_016242.3"	NA	NA	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"8c022348-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"4761"	"UBE2D3"	7323	"mskcc.org"	"GRCh37"	"4"	103748875	103748876	"+"	"Intron"	"INS"	"-"	"-"	"CTC"	"rs34654981"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.31-17864_31-17863insGAG"	""	""	"ENST00000357194"	""	7	"."	4	9	"."	0	"UBE2D3,5_prime_UTR_variant,,ENST00000453744,NM_181891.2;UBE2D3,5_prime_UTR_variant,,ENST00000394804,NM_181886.3;UBE2D3,5_prime_UTR_variant,,ENST00000394801,NM_003340.6,NM_181888.3;UBE2D3,5_prime_UTR_variant,,ENST00000502690,;UBE2D3,intron_variant,,ENST00000394803,NM_181889.2;UBE2D3,intron_variant,,ENST00000338145,NM_181890.2;UBE2D3,intron_variant,,ENST00000349311,;UBE2D3,intron_variant,,ENST00000357194,NM_181893.2;UBE2D3,intron_variant,,ENST00000508249,;UBE2D3,intron_variant,,ENST00000508238,;UBE2D3,upstream_gene_variant,,ENST00000343106,NM_181892.3;UBE2D3,upstream_gene_variant,,ENST00000321805,NM_181887.2;UBE2D3,upstream_gene_variant,,ENST00000350435,;UBE2D3,upstream_gene_variant,,ENST00000508476,;UBE2D3,upstream_gene_variant,,ENST00000504211,;UBE2D3,upstream_gene_variant,,ENST00000507845,;UBE2D3,upstream_gene_variant,,ENST00000502404,;UBE2D3,upstream_gene_variant,,ENST00000505207,;RP11-10L12.4,upstream_gene_variant,,ENST00000501133,;UBE2D3,upstream_gene_variant,,ENST00000513098,;UBE2D3,5_prime_UTR_variant,,ENST00000503418,;UBE2D3,intron_variant,,ENST00000514755,;UBE2D3,intron_variant,,ENST00000508818,;UBE2D3,upstream_gene_variant,,ENST00000503742,;UBE2D3,upstream_gene_variant,,ENST00000505307,;UBE2D3,upstream_gene_variant,,ENST00000502563,;UBE2D3,upstream_gene_variant,,ENST00000508635,;UBE2D3,upstream_gene_variant,,ENST00000503282,;UBE2D3,upstream_gene_variant,,ENST00000510129,;UBE2D3,upstream_gene_variant,,ENST00000508974,;"	"CTC"	"ENSG00000109332"	"ENST00000357194"	"Transcript"	"intron_variant"	"-/660"	"-/450"	"-/149"	""	""	"rs34654981"	"1"	NA	-1	"UBE2D3"	"HGNC"	12476	"protein_coding"	"YES"	"CCDS3659.1"	"ENSP00000349722"	"P61077"	"D6RFM0,D6RAW0,D6RAH7"	"UPI00001B31EA"	"NM_181893.2"	NA	NA	""	"1/6"	""	"-:0.4411"	"CTC:0.7716"	"CTC:0.5303"	NA	"CTC:0.4841"	"CTC:0.4652"	"CTC:0.4652"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"8c284b22-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4762"	"BDH2"	56898	"mskcc.org"	"GRCh37"	"4"	104008493	104008494	"+"	"Intron"	"INS"	"-"	"-"	"GAG"	"rs35503948"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.358-799_358-797dupCTC"	""	""	"ENST00000296424"	""	7	"."	3	1	"."	0	"BDH2,intron_variant,,ENST00000296424,NM_020139.3;BDH2,intron_variant,,ENST00000504285,;BDH2,downstream_gene_variant,,ENST00000509245,;BDH2,intron_variant,,ENST00000464039,;BDH2,intron_variant,,ENST00000492366,;BDH2,intron_variant,,ENST00000475058,;BDH2,intron_variant,,ENST00000511354,;BDH2,intron_variant,,ENST00000506521,;SLC9B2,upstream_gene_variant,,ENST00000508136,;"	"GAG"	"ENSG00000164039"	"ENST00000296424"	"Transcript"	"intron_variant"	"-/1126"	"-/738"	"-/245"	""	""	"rs35503948"	"1"	NA	-1	"BDH2"	"HGNC"	32389	"protein_coding"	"YES"	"CCDS3663.1"	"ENSP00000296424"	"Q9BUT1"	"D6RIR6,D6R9U8"	"UPI000003E73A"	"NM_020139.3"	NA	NA	""	"5/9"	""	"GAG:0.2175"	"GAG:0.2307"	"GAG:0.1931"	NA	"GAG:0.1567"	"GAG:0.1789"	"GAG:0.319"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"8c33094a-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4763"	"CENPE"	1062	"mskcc.org"	"GRCh37"	"4"	104056913	104056913	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs34294203"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6522+385delT"	""	""	"ENST00000265148"	""	11	"."	4	2	"."	0	"CENPE,intron_variant,,ENST00000265148,NM_001813.2;CENPE,intron_variant,,ENST00000380026,NM_001286734.1;"	"-"	"ENSG00000138778"	"ENST00000265148"	"Transcript"	"intron_variant"	"-/8612"	"-/8106"	"-/2701"	""	""	"rs34294203"	"1"	NA	-1	"CENPE"	"HGNC"	1856	"protein_coding"	"YES"	"CCDS34042.1"	"ENSP00000265148"	"Q02224"	"D6RBW0"	"UPI000020B28A"	"NM_001813.2"	NA	NA	""	"40/48"	""	"-:0.2107"	"-:0.1823"	"-:0.2176"	NA	"-:0.1548"	"-:0.1799"	"-:0.3333"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAA"	"75e891fa-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4764"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	105006576	105006577	"+"	"IGR"	"DEL"	"AG"	"AG"	"-"	"rs141880159"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141880159"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"7605fd76-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4765"	"PPA2"	27068	"mskcc.org"	"GRCh37"	"4"	106382325	106382326	"+"	"Intron"	"INS"	"-"	"-"	"GAA"	"rs3082927"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.158-4426_158-4424dupTTC"	""	""	"ENST00000341695"	""	6	"."	4	3	"."	0	"PPA2,intron_variant,,ENST00000341695,NM_176869.2;PPA2,intron_variant,,ENST00000348706,NM_006903.4;PPA2,intron_variant,,ENST00000357415,;PPA2,intron_variant,,ENST00000380004,;PPA2,intron_variant,,ENST00000432483,NM_176866.2;PPA2,intron_variant,,ENST00000310267,;PPA2,intron_variant,,ENST00000502596,;PPA2,intron_variant,,ENST00000508518,;PPA2,intron_variant,,ENST00000354147,NM_176867.3;PPA2,intron_variant,,ENST00000504028,;PPA2,intron_variant,,ENST00000510015,;PPA2,intron_variant,,ENST00000509426,;PPA2,intron_variant,,ENST00000502833,;PPA2,intron_variant,,ENST00000457404,;PPA2,intron_variant,,ENST00000509031,;PPA2,intron_variant,,ENST00000351450,;PPA2,intron_variant,,ENST00000506815,;PPA2,intron_variant,,ENST00000502610,;PPA2,intron_variant,,ENST00000499847,;PPA2,intron_variant,,ENST00000513649,;PPA2,intron_variant,,ENST00000514209,;"	"GAA"	"ENSG00000138777"	"ENST00000341695"	"Transcript"	"intron_variant"	"-/1684"	"-/1005"	"-/334"	""	""	"rs3082927"	"1"	NA	-1	"PPA2"	"HGNC"	28883	"protein_coding"	"YES"	"CCDS3667.1"	"ENSP00000343885"	"Q9H2U2"	"D6RGI1"	"UPI000013D9E2"	"NM_176869.2"	NA	NA	""	"1/11"	""	"-:0.1589"	"GAA:0.9894"	"GAA:0.7954"	NA	"GAA:0.5734"	"GAA:0.8887"	"GAA:0.8998"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"8c4b3272-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4766"	"PAPSS1"	9061	"mskcc.org"	"GRCh37"	"4"	108640930	108640931	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs202035886"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.60+345dupT"	""	""	"ENST00000265174"	""	8	"."	3	1	"."	0	"PAPSS1,intron_variant,,ENST00000265174,NM_005443.4;PAPSS1,intron_variant,,ENST00000511304,;PAPSS1,intron_variant,,ENST00000502431,;PAPSS1,intron_variant,,ENST00000514489,;PAPSS1,intron_variant,,ENST00000504987,;PAPSS1,intron_variant,,ENST00000512641,;"	"A"	"ENSG00000138801"	"ENST00000265174"	"Transcript"	"intron_variant"	"-/2731"	"-/1875"	"-/624"	""	""	"rs202035886"	"1"	NA	-1	"PAPSS1"	"HGNC"	8603	"protein_coding"	"YES"	"CCDS3676.1"	"ENSP00000265174"	"O43252"	"Q6IAX6,Q4W5H3,Q4W5F0"	"UPI0000132102"	"NM_005443.4"	NA	NA	""	"1/11"	""	"A:0.0168"	"A:0.0008"	"A:0.013"	NA	"A:0"	"A:0.0239"	"A:0.0511"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"8c5d93cc-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4767"	"COL25A1"	84570	"mskcc.org"	"GRCh37"	"4"	109789704	109789705	"+"	"Intron"	"INS"	"-"	"-"	"AAGAAAGAAAG"	"rs144920389"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1083+529_1083+539dupCTTTCTTTCTT"	""	""	"ENST00000399132"	""	22	"."	13	4	"."	0	"COL25A1,intron_variant,,ENST00000399132,NM_198721.2;COL25A1,intron_variant,,ENST00000399126,NM_032518.2;COL25A1,intron_variant,,ENST00000399127,NM_001256074.1;COL25A1,intron_variant,,ENST00000494183,;"	"AAGAAAGAAAG"	"ENSG00000188517"	"ENST00000399132"	"Transcript"	"intron_variant"	"-/2724"	"-/1965"	"-/654"	""	""	"rs144920389"	"1"	NA	-1	"COL25A1"	"HGNC"	18603	"protein_coding"	"YES"	"CCDS43258.1"	"ENSP00000382083"	"Q9BXS0"	"D6R8Y2"	"UPI0000225CD2"	"NM_198721.2"	NA	NA	""	"20/37"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"8c7acf5a-280f-11e6-982f-1233424a729f"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.590909090909091	"WXS"	FALSE
"4768"	"CFI"	3426	"mskcc.org"	"GRCh37"	"4"	110677544	110677546	"+"	"Intron"	"DEL"	"GAA"	"GAA"	"-"	"rs142505090"	NA	"JHCCPT5"	"JHCCPN5"	"GAA"	"GAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.904+1373_904+1375delTTC"	""	""	"ENST00000394634"	""	21	"."	4	10	"."	0	"CFI,intron_variant,,ENST00000394634,NM_000204.3;CFI,intron_variant,,ENST00000394635,;CFI,intron_variant,,ENST00000512148,;CFI,intron_variant,,ENST00000504853,;"	"-"	"ENSG00000205403"	"ENST00000394634"	"Transcript"	"intron_variant"	"-/2157"	"-/1752"	"-/583"	""	""	"rs142505090"	"1"	NA	-1	"CFI"	"HGNC"	5394	"protein_coding"	"YES"	"CCDS34049.1"	"ENSP00000378130"	"P05156"	"Q6LAM0,D6R9Z8"	"UPI0000D615A9"	"NM_000204.3"	NA	NA	""	"7/12"	""	"GAA:0.4331"	"-:0.351"	"-:0.536"	NA	"-:0.5516"	"-:0.7485"	"-:0.7096"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGGAAG"	"77069a0a-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"4769"	"UGT8"	7368	"mskcc.org"	"GRCh37"	"4"	115519850	115519866	"+"	"5'UTR"	"DEL"	"GGGCGCGGCTGGGGGGC"	"GGGCGCGGCTGGGGGGC"	"-"	"rs148467314"	NA	"JHCCPT5"	"JHCCPN5"	"GGGCGCGGCTGGGGGGC"	"GGGCGCGGCTGGGGGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-280_-264delCGCGGCTGGGGGGCGGG"	""	""	"ENST00000310836"	"1/6"	6	"."	3	2	"."	0	"UGT8,5_prime_UTR_variant,,ENST00000310836,NM_001128174.1;UGT8,upstream_gene_variant,,ENST00000507710,;"	"-"	"ENSG00000174607"	"ENST00000310836"	"Transcript"	"5_prime_UTR_variant"	"240-256/4084"	"-/1626"	"-/541"	""	""	"rs148467314"	"1"	NA	1	"UGT8"	"HGNC"	12555	"protein_coding"	"YES"	"CCDS3705.1"	"ENSP00000311648"	"Q16880"	"D6RFW2"	"UPI000013F094"	"NM_001128174.1"	NA	NA	"1/6"	""	""	"GGGCGCGGCTGGGGGGC:0.2346"	"-:0.5431"	"-:0.8141"	NA	"-:0.8234"	"-:0.838"	"-:0.8967"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGGGGCGCGGCTGGGGGGCG"	"77b8b186-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4770"	"NDST3"	9348	"mskcc.org"	"GRCh37"	"4"	118968077	118968078	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs72524667"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-155-6833dupC"	""	""	"ENST00000296499"	""	6	"."	4	1	"."	0	"NDST3,intron_variant,,ENST00000296499,NM_004784.2;NDST3,intron_variant,,ENST00000433996,;NDST3,intron_variant,,ENST00000394488,;"	"C"	"ENSG00000164100"	"ENST00000296499"	"Transcript"	"intron_variant"	"-/5961"	"-/2622"	"-/873"	""	""	"rs72524667"	"1"	NA	1	"NDST3"	"HGNC"	7682	"protein_coding"	"YES"	"CCDS3708.1"	"ENSP00000296499"	"O95803"	""	"UPI0000071C44"	"NM_004784.2"	NA	NA	""	"1/13"	""	"-:0.2638"	"C:0.4644"	"C:0.8329"	NA	"C:0.7679"	"C:0.8241"	"C:0.9121"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"8d35b8ba-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4771"	"RP11-455G16.1"	101929762	"mskcc.org"	"GRCh37"	"4"	120133061	120133061	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs77054918"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.171+436delT"	""	""	"ENST00000503243"	""	8	"."	4	2	"."	0	"RP11-455G16.1,intron_variant,,ENST00000326780,;RP11-455G16.1,intron_variant,,ENST00000503243,;USP53,upstream_gene_variant,,ENST00000274030,NM_019050.2;RP11-455G16.1,intron_variant,,ENST00000515843,;USP53,upstream_gene_variant,,ENST00000510737,;USP53,upstream_gene_variant,,ENST00000514305,;USP53,upstream_gene_variant,,ENST00000507597,;USP53,upstream_gene_variant,,ENST00000514665,;"	"-"	"ENSG00000178636"	"ENST00000503243"	"Transcript"	"intron_variant"	"-/2097"	"-/459"	"-/152"	""	""	"rs77054918"	"1"	NA	-1	"RP11-455G16.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000421307"	""	"E7EQP2"	"UPI0001D3B789"	""	NA	NA	""	"1/3"	""	"A:0.0389"	"-:0.9402"	"-:0.9568"	NA	"-:0.995"	"-:0.9712"	"-:0.9468"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAT"	"780a2a20-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4772"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	127745517	127745518	"+"	"IGR"	"DEL"	"TC"	"TC"	"-"	"rs5861791"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	7	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5861791"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTCT"	"78ddb778-280f-11e6-982f-1233424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"4773"	"HSPA4L"	22824	"mskcc.org"	"GRCh37"	"4"	128722614	128722627	"+"	"Intron"	"DEL"	"GTGTGTGTGTGTGT"	"GTGTGTGTGTGTGT"	"-"	"rs71992945"	NA	"JHCCPT5"	"JHCCPN5"	"GTGTGTGTGTGTGT"	"GTGTGTGTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.529+252_529+265delGTGTGTGTGTGTGT"	""	""	"ENST00000296464"	""	20	"."	4	2	"."	0	"HSPA4L,intron_variant,,ENST00000296464,NM_014278.2;HSPA4L,intron_variant,,ENST00000439123,;HSPA4L,intron_variant,,ENST00000508776,;HSPA4L,intron_variant,,ENST00000505726,;HSPA4L,intron_variant,,ENST00000508549,;"	"-"	"ENSG00000164070"	"ENST00000296464"	"Transcript"	"intron_variant"	"-/10790"	"-/2520"	"-/839"	""	""	"rs71992945"	"1"	NA	1	"HSPA4L"	"HGNC"	17041	"protein_coding"	"YES"	"CCDS3734.1"	"ENSP00000296464"	"O95757"	""	"UPI000007452A"	"NM_014278.2"	NA	NA	""	"5/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"30"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACGTGTGTGTGTGTGTG"	"78ee6b9a-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"4774"	"RP11-422J15.1"	0	"mskcc.org"	"GRCh37"	"4"	130815061	130815062	"+"	"Intron"	"INS"	"-"	"-"	"CA"	"rs10646093"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1148-6613_1148-6612dupCA"	""	""	"ENST00000513875"	""	8	"."	5	2	"."	0	"RP11-422J15.1,intron_variant,,ENST00000513875,;RP11-422J15.1,intron_variant,,ENST00000507099,;"	"CA"	"ENSG00000249618"	"ENST00000513875"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1777"	""	""	""	""	"rs10646093"	"1"	NA	1	"RP11-422J15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"11/16"	""	"CACA:0.0194"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"8e01264e-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4775"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	130998154	130998155	"+"	"IGR"	"INS"	"-"	"TTCTT"	"TTCTT"	"rs138173234"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"TTCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138173234"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TTCTT:0.3968"	"TTCTT:0.6362"	"TTCTT:0.2795"	NA	"TTCTT:0.2718"	"TTCTT:0.3867"	"TTCTT:0.2955"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"8e024948-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4776"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	132517425	132517426	"+"	"IGR"	"INS"	"-"	"-"	"TCCT"	"rs138264898"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	6	5	"."	0	""	"TCCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138264898"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"8e098988-280f-11e6-982f-1233424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WXS"	FALSE
"4777"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	134687820	134687821	"+"	"IGR"	"INS"	"-"	"-"	"AAAAG"	"rs149475268"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"."	6	4	"."	0	""	"AAAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs149475268"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AAAAG:0.1565"	"AAAAG:0.0318"	"AAAAG:0.3156"	NA	"AAAAG:0.0238"	"AAAAG:0.2525"	"AAAAG:0.2505"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"8e19e918-280f-11e6-982f-1233424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WXS"	FALSE
"4778"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	134707010	134707013	"+"	"IGR"	"DEL"	"AAAG"	"AAAG"	"-"	"rs147720406"	NA	"JHCCPT5"	"JHCCPN5"	"AAAG"	"AAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147720406"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AAAG:0.2542"	"-:0.5772"	"-:0.8458"	NA	"-:0.4792"	"-:0.9881"	"-:0.9284"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAAGA"	"7994af46-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"4779"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	137409885	137409887	"+"	"IGR"	"DEL"	"AGA"	"AGA"	"-"	"rs33947147"	NA	"JHCCPT5"	"JHCCPN5"	"AGA"	"AGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs33947147"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1384"	"-:0.2095"	"-:0.0951"	NA	"-:0.003"	"-:0.1918"	"-:0.1575"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAGAA"	"79a3fc76-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4780"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	138243866	138243867	"+"	"IGR"	"INS"	"-"	"-"	"GAAGAAGAAGAAGAAGAAGAAGAAGAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	3	2	"."	0	""	"GAAGAAGAAGAAGAAGAAGAAGAAGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"8e27af80-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"4781"	"CCRN4L"	25819	"mskcc.org"	"GRCh37"	"4"	139965411	139965414	"+"	"Intron"	"DEL"	"AGTC"	"AGTC"	"-"	"rs3840278"	NA	"JHCCPT5"	"JHCCPN5"	"AGTC"	"AGTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.461-380_461-377delTCAG"	""	""	"ENST00000280614"	""	12	"."	3	1	"."	0	"CCRN4L,intron_variant,,ENST00000280614,NM_012118.3;ELF2,intron_variant,,ENST00000515489,;CCRN4L,intron_variant,,ENST00000515616,;"	"-"	"ENSG00000151014"	"ENST00000280614"	"Transcript"	"intron_variant"	"-/1767"	"-/1296"	"-/431"	""	""	"rs3840278"	"1"	NA	1	"CCRN4L"	"HGNC"	14254	"protein_coding"	"YES"	"CCDS3743.1"	"ENSP00000280614"	"Q9UK39"	""	"UPI000013DC2C"	"NM_012118.3"	NA	NA	""	"2/2"	""	"-:0.2770"	"-:0.3245"	"-:0.1744"	NA	"-:0.2093"	"-:0.2614"	"-:0.3712"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGTCA"	"79bb0614-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4782"	"MGST2"	4258	"mskcc.org"	"GRCh37"	"4"	140591421	140591423	"+"	"Intron"	"DEL"	"GGC"	"GGC"	"-"	"rs150577699"	NA	"JHCCPT5"	"JHCCPN5"	"GGC"	"GGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.58+4192_58+4194delCGG"	""	""	"ENST00000265498"	""	11	"."	3	3	"."	0	"MGST2,intron_variant,,ENST00000265498,NM_002413.4,NM_001204366.1;MGST2,intron_variant,,ENST00000506797,NM_001204368.1;MGST2,intron_variant,,ENST00000515137,;MGST2,intron_variant,,ENST00000515067,;MGST2,intron_variant,,ENST00000503816,;MGST2,intron_variant,,ENST00000502587,;"	"-"	"ENSG00000085871"	"ENST00000265498"	"Transcript"	"intron_variant"	"-/801"	"-/444"	"-/147"	""	""	"rs150577699"	"1"	NA	1	"MGST2"	"HGNC"	7063	"protein_coding"	"YES"	"CCDS3749.1"	"ENSP00000265498"	"Q99735"	""	"UPI000000128A"	"NM_002413.4,NM_001204366.1"	NA	NA	""	"1/4"	""	"GGC:0.3357"	"-:0.8427"	"-:0.4798"	NA	"-:0.8571"	"-:0.4722"	"-:0.5532"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGGCG"	"79f13f22-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4783"	"MAML3"	55534	"mskcc.org"	"GRCh37"	"4"	140686087	140686088	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs77241051"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2080-34267dupG"	""	""	"ENST00000509479"	""	7	"."	4	2	"."	0	"MAML3,intron_variant,,ENST00000509479,NM_018717.4;MAML3,intron_variant,,ENST00000502696,;"	"C"	"ENSG00000196782"	"ENST00000509479"	"Transcript"	"intron_variant"	"-/6844"	"-/3417"	"-/1138"	""	""	"rs77241051"	"1"	NA	-1	"MAML3"	"HGNC"	16272	"protein_coding"	"YES"	"CCDS54805.1"	"ENSP00000421180"	"Q96JK9"	"Q9NPV6,E7EVW8"	"UPI00001C1E1E"	"NM_018717.4"	NA	NA	""	"2/4"	""	"C:0.3077"	"C:0.3457"	"C:0.3516"	NA	"C:0.4593"	"C:0.2366"	"C:0.1421"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"8e407f56-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4784"	"MAML3"	55534	"mskcc.org"	"GRCh37"	"4"	141018052	141018053	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs79698582"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.468+55961dupA"	""	""	"ENST00000509479"	""	7	"."	4	1	"."	0	"MAML3,intron_variant,,ENST00000509479,NM_018717.4;MAML3,intron_variant,,ENST00000502696,;"	"T"	"ENSG00000196782"	"ENST00000509479"	"Transcript"	"intron_variant"	"-/6844"	"-/3417"	"-/1138"	""	""	"rs79698582"	"1"	NA	-1	"MAML3"	"HGNC"	16272	"protein_coding"	"YES"	"CCDS54805.1"	"ENSP00000421180"	"Q96JK9"	"Q9NPV6,E7EVW8"	"UPI00001C1E1E"	"NM_018717.4"	NA	NA	""	"1/4"	""	"-:0.0713"	"T:0.7481"	"T:0.9741"	NA	"T:0.999"	"T:1"	"T:0.9949"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"8e424516-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4785"	"RP11-425I13.3"	100129858	"mskcc.org"	"GRCh37"	"4"	141265102	141265103	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs3086765"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.139+25361_139+25362insAT"	""	""	"ENST00000512692"	""	13	"."	5	3	"."	0	"SCOC,intron_variant,,ENST00000394203,NM_001153585.1;SCOC,intron_variant,,ENST00000394205,NM_032547.2;SCOC,intron_variant,,ENST00000338517,NM_001153446.1,NM_001153635.1;SCOC,intron_variant,,ENST00000506322,;RP11-425I13.3,intron_variant,,ENST00000512692,;"	"AT"	"ENSG00000196951"	"ENST00000512692"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1987"	""	""	""	""	"rs3086765"	"1"	NA	-1	"RP11-425I13.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	"AT:0.4922"	"AT:0.267"	"AT:0.585"	NA	"AT:0.5357"	"AT:0.6938"	"AT:0.4785"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"8e44fb26-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"4786"	"TBC1D9"	23158	"mskcc.org"	"GRCh37"	"4"	141610670	141610671	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs144309893"	NA	"JHCCPT5"	"JHCCPN5"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.242-3055_242-3054delAG"	""	""	"ENST00000442267"	""	15	"."	5	4	"."	0	"TBC1D9,intron_variant,,ENST00000442267,NM_015130.2;"	"-"	"ENSG00000109436"	"ENST00000442267"	"Transcript"	"intron_variant"	"-/5306"	"-/3801"	"-/1266"	""	""	"rs144309893"	"1"	NA	-1	"TBC1D9"	"HGNC"	21710	"protein_coding"	"YES"	"CCDS47136.1"	"ENSP00000411197"	"Q6ZT07"	""	"UPI00001C1E18"	"NM_015130.2"	NA	NA	""	"2/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCTT"	"7a556376-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4787"	"RP13-578N3.3"	0	"mskcc.org"	"GRCh37"	"4"	144687895	144687899	"+"	"Intron"	"DEL"	"CCCTT"	"CCCTT"	"-"	"rs56966558"	NA	"JHCCPT5"	"JHCCPN5"	"CCCTT"	"CCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.178+27645_178+27649delCCCTT"	""	""	"ENST00000499587"	""	6	"."	3	2	"."	0	"RP13-578N3.3,intron_variant,,ENST00000499587,;RP11-780M14.1,upstream_gene_variant,,ENST00000506341,;"	"-"	"ENSG00000246448"	"ENST00000499587"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/566"	""	""	""	""	"rs56966558"	"1"	NA	1	"RP13-578N3.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/6"	""	"CCCTT:0.0451"	"-:0.8396"	"-:0.9813"	NA	"-:1"	"-:0.999"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCCCTTC"	"7ab28894-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4788"	"LRBA"	987	"mskcc.org"	"GRCh37"	"4"	151750073	151750076	"+"	"Intron"	"DEL"	"GGGT"	"GGGT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GGGT"	"GGGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4730-303_4730-300delACCC"	""	""	"ENST00000357115"	""	16	"."	4	4	"."	0	"LRBA,intron_variant,,ENST00000535741,;LRBA,intron_variant,,ENST00000510413,NM_001199282.2;LRBA,intron_variant,,ENST00000357115,NM_006726.4;LRBA,intron_variant,,ENST00000507224,;LRBA,intron_variant,,ENST00000509835,;"	"-"	"ENSG00000198589"	"ENST00000357115"	"Transcript"	"intron_variant"	"-/9899"	"-/8592"	"-/2863"	""	""	""	"1"	NA	-1	"LRBA"	"HGNC"	1742	"protein_coding"	"YES"	"CCDS3773.1"	"ENSP00000349629"	"P50851"	"Q7KZN3"	"UPI000013E35C"	"NM_006726.4"	NA	NA	""	"29/57"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGGGGTG"	"7b8edcae-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4789"	"RPS3A"	8944	"mskcc.org"	"GRCh37"	"4"	152024660	152024661	"+"	"Intron"	"INS"	"-"	"-"	"TG"	"rs79247681"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.563+430_563+431insGT"	""	""	"ENST00000274065"	""	7	"."	3	3	"."	0	"RPS3A,3_prime_UTR_variant,,ENST00000322686,;RPS3A,intron_variant,,ENST00000514682,;RPS3A,intron_variant,,ENST00000274065,NM_001006.4;RPS3A,intron_variant,,ENST00000506126,;RPS3A,intron_variant,,ENST00000512690,;RPS3A,intron_variant,,ENST00000510993,;RPS3A,intron_variant,,ENST00000512797,;RPS3A,intron_variant,,ENST00000507327,;RPS3A,intron_variant,,ENST00000515792,;RPS3A,intron_variant,,ENST00000509736,;RPS3A,downstream_gene_variant,,ENST00000505243,;RPS3A,downstream_gene_variant,,ENST00000508783,;RPS3A,downstream_gene_variant,,ENST00000503002,;SNORD73,downstream_gene_variant,,ENST00000364394,;SNORD73A,upstream_gene_variant,,ENST00000386062,NR_000007.1;SH3D19,intron_variant,,ENST00000604922,;RPS3A,non_coding_transcript_exon_variant,,ENST00000507485,;RPS3A,intron_variant,,ENST00000515818,;"	"TG"	"ENSG00000145425"	"ENST00000274065"	"Transcript"	"intron_variant"	"-/934"	"-/795"	"-/264"	""	""	"rs79247681"	"1"	NA	1	"RPS3A"	"HGNC"	10421	"protein_coding"	"YES"	"CCDS3775.1"	"ENSP00000346050"	"P61247"	"D6RGE0,D6RED7,D6RB09,D6RAT0,D6RAS7,D6R9B6"	"UPI000013D9EC"	"NM_001006.4"	NA	NA	""	"4/5"	""	"-:0.2897"	"TG:0.525"	"TG:0.8213"	NA	"TG:0.7341"	"TG:0.8986"	"TG:0.6636"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"8f340928-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4790"	"PRSS48"	345062	"mskcc.org"	"GRCh37"	"4"	152200392	152200393	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs568054066"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.53-546dupT"	""	""	"ENST00000455694"	""	18	"."	7	2	"."	0	"PRSS48,intron_variant,,ENST00000455694,NM_183375.2;PRSS48,intron_variant,,ENST00000441586,;SH3D19,intron_variant,,ENST00000604030,;RP11-731D1.3,upstream_gene_variant,,ENST00000507181,;"	"T"	"ENSG00000189099"	"ENST00000455694"	"Transcript"	"intron_variant"	"-/989"	"-/987"	"-/328"	""	""	"rs568054066"	"1"	NA	1	"PRSS48"	"HGNC"	24635	"protein_coding"	"YES"	"CCDS47145.1"	"ENSP00000401328"	"Q7RTY5"	""	"UPI0000047B08"	"NM_183375.2"	NA	NA	""	"1/4"	""	"T:0.2452"	"T:0.1483"	"T:0.2723"	NA	"T:0.1806"	"T:0.4354"	"T:0.228"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"8f3e176a-280f-11e6-982f-1233424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388888888888889	"WXS"	FALSE
"4791"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	152910266	152910267	"+"	"IGR"	"INS"	"-"	"GAATGAAT"	"GAATGAAT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	8	2	"."	0	""	"GAATGAAT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"8f644098-280f-11e6-982f-1233424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.8	"WXS"	FALSE
"4792"	"KIAA0922"	23240	"mskcc.org"	"GRCh37"	"4"	154413915	154413915	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs5863051"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.239+18875delG"	""	""	"ENST00000409959"	""	6	"."	3	1	"."	0	"KIAA0922,intron_variant,,ENST00000409663,NM_015196.3;KIAA0922,intron_variant,,ENST00000409959,NM_001131007.1;KIAA0922,intron_variant,,ENST00000440693,;KIAA0922,intron_variant,,ENST00000445960,;"	"-"	"ENSG00000121210"	"ENST00000409959"	"Transcript"	"intron_variant"	"-/5017"	"-/4833"	"-/1610"	""	""	"rs5863051"	"1"	NA	1	"KIAA0922"	"HGNC"	29146	"protein_coding"	"YES"	"CCDS47148.1"	"ENSP00000386787"	"A2VDJ0"	"D3DP10"	"UPI00017BE9AB"	"NM_001131007.1"	NA	NA	""	"3/34"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGT"	"7c182e46-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4793"	"KIAA0922"	23240	"mskcc.org"	"GRCh37"	"4"	154557387	154557406	"+"	"Intron"	"DEL"	"GTATTCACCTTTCTAAGGCT"	"GTATTCACCTTTCTAAGGCT"	"ATTCACCTTTCTAAGGC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GTATTCACCTTTCTAAGGCT"	"GTATTCACCTTTCTAAGGCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4558-66_4558-47delGTATTCACCTTTCTAAGGCTinsATTCACCTTTCTAAGGC"	""	""	"ENST00000409959"	""	143	"."	13	56	"."	0	"KIAA0922,intron_variant,,ENST00000409663,NM_015196.3;KIAA0922,intron_variant,,ENST00000409959,NM_001131007.1;KIAA0922,intron_variant,,ENST00000440693,;KIAA0922,intron_variant,,ENST00000240487,;RP11-153M7.3,upstream_gene_variant,,ENST00000602666,;KIAA0922,downstream_gene_variant,,ENST00000478919,;"	"ATTCACCTTTCTAAGGC"	"ENSG00000121210"	"ENST00000409959"	"Transcript"	"intron_variant"	"-/5017"	"-/4833"	"-/1610"	""	""	""	"1"	NA	1	"KIAA0922"	"HGNC"	29146	"protein_coding"	"YES"	"CCDS47148.1"	"ENSP00000386787"	"A2VDJ0"	"D3DP10"	"UPI00017BE9AB"	"NM_001131007.1"	NA	NA	""	"34/34"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGTATTCACCTTTCTAAGGCTT"	"81df0b24-280f-11e6-982f-1233424a729f"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WXS"	FALSE
"4794"	"KIAA0922"	23240	"mskcc.org"	"GRCh37"	"4"	154557387	154557406	"+"	"Intron"	"DEL"	"GTATTCACCTTTCTAAGGCT"	"GTATTCACCTTTCTAAGGCT"	"ATTCACCTTTCTAAGGC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GTATTCACCTTTCTAAGGCT"	"GTATTCACCTTTCTAAGGCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4558-66_4558-47delGTATTCACCTTTCTAAGGCTinsATTCACCTTTCTAAGGC"	""	""	"ENST00000409959"	""	143	"."	40	56	"."	0	"KIAA0922,intron_variant,,ENST00000409663,NM_015196.3;KIAA0922,intron_variant,,ENST00000409959,NM_001131007.1;KIAA0922,intron_variant,,ENST00000440693,;KIAA0922,intron_variant,,ENST00000240487,;RP11-153M7.3,upstream_gene_variant,,ENST00000602666,;KIAA0922,downstream_gene_variant,,ENST00000478919,;"	"ATTCACCTTTCTAAGGC"	"ENSG00000121210"	"ENST00000409959"	"Transcript"	"intron_variant"	"-/5017"	"-/4833"	"-/1610"	""	""	""	"1"	NA	1	"KIAA0922"	"HGNC"	29146	"protein_coding"	"YES"	"CCDS47148.1"	"ENSP00000386787"	"A2VDJ0"	"D3DP10"	"UPI00017BE9AB"	"NM_001131007.1"	NA	NA	""	"34/34"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGTATTCACCTTTCTAAGGCTT"	"81e72534-280f-11e6-982f-1233424a729f"	"2400"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27972027972028	"WXS"	FALSE
"4795"	"MAP9"	79884	"mskcc.org"	"GRCh37"	"4"	156260870	156260873	"+"	"3'Flank"	"DEL"	"AGAA"	"AGAA"	"-"	"rs34250514"	NA	"JHCCPT5"	"JHCCPN5"	"AGAA"	"AGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000311277"	""	22	"."	3	8	"."	0	"MAP9,downstream_gene_variant,,ENST00000311277,NM_001039580.1;AC097467.2,intron_variant,,ENST00000599555,;AC097467.2,intron_variant,,ENST00000610249,;AC097467.2,intron_variant,,ENST00000593387,;AC097467.2,intron_variant,,ENST00000595229,;AC097467.2,intron_variant,,ENST00000609486,;AC097467.2,intron_variant,,ENST00000598252,;AC097467.2,intron_variant,,ENST00000597939,;AC097467.2,intron_variant,,ENST00000593486,;AC097467.2,intron_variant,,ENST00000601977,;AC097467.2,intron_variant,,ENST00000595760,;AC097467.2,intron_variant,,ENST00000597955,;AC097467.2,intron_variant,,ENST00000512269,;AC097467.2,intron_variant,,ENST00000608762,;AC097467.2,upstream_gene_variant,,ENST00000608463,;AC097467.2,upstream_gene_variant,,ENST00000609716,;AC097467.2,upstream_gene_variant,,ENST00000608544,;AC097467.2,upstream_gene_variant,,ENST00000609254,;AC097467.2,upstream_gene_variant,,ENST00000608092,;AC097467.2,upstream_gene_variant,,ENST00000608406,;"	"-"	"ENSG00000164114"	"ENST00000311277"	"Transcript"	"downstream_gene_variant"	"-/7333"	"-/1944"	"-/647"	""	""	"rs34250514"	"1"	"2937"	-1	"MAP9"	"HGNC"	26118	"protein_coding"	"YES"	"CCDS35493.1"	"ENSP00000310593"	"Q49MG5"	"C9JXH8,A2VCT0"	"UPI000020B618"	"NM_001039580.1"	NA	NA	""	""	""	"-:0.1534"	"-:0.143"	"-:0.1081"	NA	"-:0.1508"	"-:0.1968"	"-:0.1575"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGAAA"	"7ca09894-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"4796"	"GUCY1A3"	2982	"mskcc.org"	"GRCh37"	"4"	156651571	156651571	"+"	"3'UTR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*188delG"	""	""	"ENST00000296518"	"10/10"	71	"."	3	28	"."	0	"GUCY1A3,3_prime_UTR_variant,,ENST00000296518,;GUCY1A3,3_prime_UTR_variant,,ENST00000393832,NM_001130685.2;GUCY1A3,3_prime_UTR_variant,,ENST00000511108,NM_000856.5;GUCY1A3,3_prime_UTR_variant,,ENST00000506455,NM_001130682.2;GUCY1A3,3_prime_UTR_variant,,ENST00000513574,NM_001130684.2;GUCY1A3,downstream_gene_variant,,ENST00000455639,NM_001130683.3,NM_001256449.1;RP11-588K22.2,upstream_gene_variant,,ENST00000569449,;GUCY1A3,3_prime_UTR_variant,,ENST00000443668,;GUCY1A3,3_prime_UTR_variant,,ENST00000515201,;GUCY1A3,3_prime_UTR_variant,,ENST00000509901,;"	"-"	"ENSG00000164116"	"ENST00000296518"	"Transcript"	"3_prime_UTR_variant"	"2470/4400"	"-/2073"	"-/690"	""	""	""	"1"	NA	1	"GUCY1A3"	"HGNC"	4685	"protein_coding"	"YES"	"CCDS34085.1"	"ENSP00000296518"	"Q02108"	"Q9NNW8,J3KPQ8"	"UPI0000033343"	""	NA	NA	"10/10"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAGA"	"7cc14472-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0422535211267606	"WXS"	FALSE
"4797"	"TDO2"	6999	"mskcc.org"	"GRCh37"	"4"	156837600	156837601	"+"	"Intron"	"INS"	"-"	"-"	"TGAGCCACCGCGCCCGGCCTCAAATATCCTTTTTAACTGAAT"	"rs541468774"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.896+537_896+538insGAGCCACCGCGCCCGGCCTCAAATATCCTTTTTAACTGAATT"	""	""	"ENST00000536354"	""	6	"."	4	1	"."	0	"TDO2,intron_variant,,ENST00000536354,NM_005651.3;TDO2,intron_variant,,ENST00000510293,;TDO2,intron_variant,,ENST00000512584,;"	"TGAGCCACCGCGCCCGGCCTCAAATATCCTTTTTAACTGAAT"	"ENSG00000151790"	"ENST00000536354"	"Transcript"	"intron_variant"	"-/1701"	"-/1221"	"-/406"	""	""	"rs541468774"	"1"	NA	1	"TDO2"	"HGNC"	11708	"protein_coding"	"YES"	"CCDS34086.1"	"ENSP00000444788"	"P48775"	"D6RB68,D6RA50"	"UPI00001367B7"	"NM_005651.3"	NA	NA	""	"9/11"	""	"-:0.0583"	"TGAGCCACCGCGCCCGGCCTCAAATATCCTTTTTAACTGAAT:0.8033"	"TGAGCCACCGCGCCCGGCCTCAAATATCCTTTTTAACTGAAT:0.9798"	NA	"TGAGCCACCGCGCCCGGCCTCAAATATCCTTTTTAACTGAAT:1"	"TGAGCCACCGCGCCCGGCCTCAAATATCCTTTTTAACTGAAT:0.9831"	"TGAGCCACCGCGCCCGGCCTCAAATATCCTTTTTAACTGAAT:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"90036dda-280f-11e6-982f-1233424a729f"	"190"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4798"	"ENSR00001436599"	0	"mskcc.org"	"GRCh37"	"4"	156888554	156888557	"+"	"IGR"	"DEL"	"TTAG"	"TTAG"	"-"	"rs147252011"	NA	"JHCCPT5"	"JHCCPN5"	"TTAG"	"TTAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001436599"	""	6	"."	4	1	"."	0	""	"-"	""	"ENSR00001436599"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs147252011"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATTAGT"	"7ce0426e-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4799"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	157011860	157011861	"+"	"IGR"	"INS"	"-"	"A"	"A"	"rs11426434"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	7	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11426434"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0525"	"A:0.8858"	"A:0.9179"	NA	"A:0.997"	"A:0.9811"	"A:0.9663"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"90102584-280f-11e6-982f-1233424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.875	"WXS"	FALSE
"4800"	"FSTL5"	56884	"mskcc.org"	"GRCh37"	"4"	163067814	163067838	"+"	"Intron"	"DEL"	"TCCCTTCCCTTCCCTTCCCTTCCCT"	"TCCCTTCCCTTCCCTTCCCTTCCCT"	"-"	"rs201855660"	NA	"JHCCPT5"	"JHCCPN5"	"TCCCTTCCCTTCCCTTCCCTTCCCT"	"TCCCTTCCCTTCCCTTCCCTTCCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17+16929_-17+16953delAGGGAAGGGAAGGGAAGGGAAGGGA"	""	""	"ENST00000306100"	""	8	"."	4	5	"."	0	"FSTL5,intron_variant,,ENST00000306100,NM_001128427.2,NM_020116.4;FSTL5,intron_variant,,ENST00000379164,;FSTL5,intron_variant,,ENST00000427802,NM_001128428.2;"	"-"	"ENSG00000168843"	"ENST00000306100"	"Transcript"	"intron_variant"	"-/4831"	"-/2544"	"-/847"	""	""	"rs201855660"	"1"	NA	-1	"FSTL5"	"HGNC"	21386	"protein_coding"	"YES"	"CCDS3802.1"	"ENSP00000305334"	"Q8N475"	"Q4W5Q0,Q4W5K3,Q4W5F8"	"UPI000020B66B"	"NM_001128427.2,NM_020116.4"	NA	NA	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTCCCTTCCCTTCCCTTCCCTTCCCTT"	"7d740972-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4801"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	163507939	163507939	"+"	"IGR"	"DEL"	"A"	"-"	"-"	"rs34928099"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	7	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34928099"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.0863"	"-:0.77"	"-:0.9496"	NA	"-:0.9891"	"-:0.9652"	"-:0.9519"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"7d7cc602-280f-11e6-982f-1233424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"4802"	"KLHL2"	11275	"mskcc.org"	"GRCh37"	"4"	166232961	166232962	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1351+274_1351+281dupGTGTGTGT"	""	""	"ENST00000514860"	""	41	"."	4	14	"."	0	"KLHL2,intron_variant,,ENST00000226725,NM_007246.3;KLHL2,intron_variant,,ENST00000538127,NM_001161522.1,NM_001161521.1;KLHL2,intron_variant,,ENST00000421009,;KLHL2,intron_variant,,ENST00000514860,;KLHL2,intron_variant,,ENST00000506761,;KLHL2,intron_variant,,ENST00000509028,;KLHL2,downstream_gene_variant,,ENST00000506541,;KLHL2,intron_variant,,ENST00000506824,;"	"TGTGTGTG"	"ENSG00000109466"	"ENST00000514860"	"Transcript"	"intron_variant"	"-/2442"	"-/1794"	"-/597"	""	""	""	"1"	NA	1	"KLHL2"	"HGNC"	6353	"protein_coding"	"YES"	"CCDS54815.1"	"ENSP00000424198"	"O95198"	"D6RGC3,B4DFZ5"	"UPI0000E20649"	""	NA	NA	""	"11/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"37"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"9078d250-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WXS"	FALSE
"4803"	"KLHL2"	11275	"mskcc.org"	"GRCh37"	"4"	166232961	166232962	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTGTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1351+272_1351+281dupGTGTGTGTGT"	""	""	"ENST00000514860"	""	41	"."	3	14	"."	0	"KLHL2,intron_variant,,ENST00000226725,NM_007246.3;KLHL2,intron_variant,,ENST00000538127,NM_001161522.1,NM_001161521.1;KLHL2,intron_variant,,ENST00000421009,;KLHL2,intron_variant,,ENST00000514860,;KLHL2,intron_variant,,ENST00000506761,;KLHL2,intron_variant,,ENST00000509028,;KLHL2,downstream_gene_variant,,ENST00000506541,;KLHL2,intron_variant,,ENST00000506824,;"	"TGTGTGTGTG"	"ENSG00000109466"	"ENST00000514860"	"Transcript"	"intron_variant"	"-/2442"	"-/1794"	"-/597"	""	""	""	"1"	NA	1	"KLHL2"	"HGNC"	6353	"protein_coding"	"YES"	"CCDS54815.1"	"ENSP00000424198"	"O95198"	"D6RGC3,B4DFZ5"	"UPI0000E20649"	""	NA	NA	""	"11/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"37"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"907994ce-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WXS"	FALSE
"4804"	"TLL1"	7092	"mskcc.org"	"GRCh37"	"4"	166925033	166925033	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs200146542"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.811+312delC"	""	""	"ENST00000061240"	""	9	"."	3	2	"."	0	"TLL1,intron_variant,,ENST00000061240,NM_012464.4;TLL1,intron_variant,,ENST00000507499,;TLL1,intron_variant,,ENST00000513213,NM_001204760.1;TLL1,intron_variant,,ENST00000509505,;"	"-"	"ENSG00000038295"	"ENST00000061240"	"Transcript"	"intron_variant"	"-/6708"	"-/3042"	"-/1013"	""	""	"rs200146542"	"1"	NA	1	"TLL1"	"HGNC"	11843	"protein_coding"	"YES"	"CCDS3811.1"	"ENSP00000061240"	"O43897"	"D6RCE0"	"UPI0000072EED"	"NM_012464.4"	NA	NA	""	"6/20"	""	"-:0.0351"	"-:0.0045"	"-:0.0504"	NA	"-:0.0496"	"-:0.0437"	"-:0.0419"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTCT"	"7da87d6a-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4805"	"SPOCK3"	50859	"mskcc.org"	"GRCh37"	"4"	167702575	167702578	"+"	"Intron"	"DEL"	"AAAC"	"AAAC"	"-"	"rs147023743"	NA	"JHCCPT5"	"JHCCPN5"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.718+10743_718+10746delGTTT"	""	""	"ENST00000357154"	""	9	"."	4	5	"."	0	"SPOCK3,intron_variant,,ENST00000357154,NM_016950.2;SPOCK3,intron_variant,,ENST00000506886,;SPOCK3,intron_variant,,ENST00000357545,NM_001204354.1,NM_001204352.1,NM_001040159.1;SPOCK3,intron_variant,,ENST00000511531,;SPOCK3,intron_variant,,ENST00000504953,;SPOCK3,intron_variant,,ENST00000502330,;SPOCK3,intron_variant,,ENST00000510741,NM_001204356.1;SPOCK3,intron_variant,,ENST00000511269,;SPOCK3,intron_variant,,ENST00000421836,;SPOCK3,intron_variant,,ENST00000541354,NM_001204353.1;SPOCK3,intron_variant,,ENST00000512681,NM_001251967.1;SPOCK3,intron_variant,,ENST00000512648,NM_001204358.1;SPOCK3,intron_variant,,ENST00000535728,;SPOCK3,intron_variant,,ENST00000534949,NM_001204355.1;SPOCK3,intron_variant,,ENST00000541637,;SPOCK3,intron_variant,,ENST00000510403,;SPOCK3,intron_variant,,ENST00000507137,;SPOCK3,intron_variant,,ENST00000502821,;SPOCK3,intron_variant,,ENST00000511905,;SPOCK3,intron_variant,,ENST00000505187,;SPOCK3,intron_variant,,ENST00000507370,;SPOCK3,intron_variant,,ENST00000515143,;"	"-"	"ENSG00000196104"	"ENST00000357154"	"Transcript"	"intron_variant"	"-/2986"	"-/1311"	"-/436"	""	""	"rs147023743"	"1"	NA	-1	"SPOCK3"	"HGNC"	13565	"protein_coding"	"YES"	"CCDS54817.1"	"ENSP00000349677"	"Q9BQ16"	"Q4W5S3,Q4W5E2,E7EMP8"	"UPI000004BA60"	"NM_016950.2"	NA	NA	""	"8/11"	""	"-:0.2159"	"-:0.2163"	"-:0.1599"	NA	"-:0.2748"	"-:0.165"	"-:0.2464"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAAAACA"	"7dc0b4fc-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4806"	"DDX60L"	91351	"mskcc.org"	"GRCh37"	"4"	169296277	169296278	"+"	"Intron"	"DEL"	"TT"	"TT"	"-"	"rs149573941"	NA	"JHCCPT5"	"JHCCPN5"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4633+250_4633+251delAA"	""	""	"ENST00000260184"	""	10	"."	4	2	"."	0	"DDX60L,intron_variant,,ENST00000511577,;DDX60L,intron_variant,,ENST00000260184,NM_001012967.1;DDX60L,intron_variant,,ENST00000510590,;"	"-"	"ENSG00000181381"	"ENST00000260184"	"Transcript"	"intron_variant"	"-/6754"	"-/5121"	"-/1706"	""	""	"rs149573941"	"1"	NA	-1	"DDX60L"	"HGNC"	26429	"protein_coding"	"YES"	"CCDS47161.1"	"ENSP00000260184"	"Q5H9U9"	"D6RIU1,D6RBA2,D6RB62"	"UPI0001553B03"	"NM_001012967.1"	NA	NA	""	"34/37"	""	"-:0.0080"	"-:0.0008"	"-:0.0072"	NA	"-:0"	"-:0.0229"	"-:0.0112"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTT"	"7dec904a-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4807"	"DDX60L"	91351	"mskcc.org"	"GRCh37"	"4"	169311790	169311791	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs34009039"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3915+900dupA"	""	""	"ENST00000260184"	""	23	"."	10	3	"."	0	"DDX60L,intron_variant,,ENST00000511577,;DDX60L,intron_variant,,ENST00000260184,NM_001012967.1;DDX60L,intron_variant,,ENST00000505890,;DDX60L,intron_variant,,ENST00000514580,;"	"T"	"ENSG00000181381"	"ENST00000260184"	"Transcript"	"intron_variant"	"-/6754"	"-/5121"	"-/1706"	""	""	"rs34009039"	"1"	NA	-1	"DDX60L"	"HGNC"	26429	"protein_coding"	"YES"	"CCDS47161.1"	"ENSP00000260184"	"Q5H9U9"	"D6RIU1,D6RBA2,D6RB62"	"UPI0001553B03"	"NM_001012967.1"	NA	NA	""	"29/37"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"90a02134-280f-11e6-982f-1233424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.434782608695652	"WXS"	FALSE
"4808"	"CBR4"	84869	"mskcc.org"	"GRCh37"	"4"	169930210	169930210	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.142+889delG"	""	""	"ENST00000306193"	""	129	"."	3	29	"."	0	"CBR4,intron_variant,,ENST00000306193,NM_032783.4;CBR4,intron_variant,,ENST00000504480,;CBR4,intron_variant,,ENST00000504561,;RP11-483A20.3,upstream_gene_variant,,ENST00000506933,;RNY4P17,downstream_gene_variant,,ENST00000364948,;CBR4,upstream_gene_variant,,ENST00000509108,;CBR4,splice_region_variant,,ENST00000507752,;CBR4,intron_variant,,ENST00000510042,;CBR4,intron_variant,,ENST00000506808,;"	"-"	"ENSG00000145439"	"ENST00000306193"	"Transcript"	"intron_variant"	"-/3443"	"-/714"	"-/237"	""	""	""	"1"	NA	-1	"CBR4"	"HGNC"	25891	"protein_coding"	"YES"	"CCDS3812.1"	"ENSP00000303525"	"Q8N4T8"	""	"UPI000006EEEF"	"NM_032783.4"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCA"	"7e3a72f6-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0232558139534884	"WXS"	FALSE
"4809"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	169947471	169947472	"+"	"IGR"	"DEL"	"AA"	"-"	"-"	"rs10591363"	NA	"JHCCPT5"	"JHCCPN5"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10591363"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAA"	"7e4903ac-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4810"	"GALNT7"	51809	"mskcc.org"	"GRCh37"	"4"	174235080	174235081	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs138768800"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1390-15_1390-14delAT"	""	""	"ENST00000265000"	""	62	"."	3	10	"."	0	"GALNT7,intron_variant,,ENST00000265000,NM_017423.2;GALNT7,intron_variant,,ENST00000505308,;GALNT7,intron_variant,,ENST00000503213,;GALNT7,intron_variant,,ENST00000506317,;GALNT7,upstream_gene_variant,,ENST00000515862,;"	"-"	"ENSG00000109586"	"ENST00000265000"	"Transcript"	"intron_variant"	"-/4307"	"-/1974"	"-/657"	""	""	"rs138768800"	"1"	NA	1	"GALNT7"	"HGNC"	4129	"protein_coding"	"YES"	"CCDS3815.1"	"ENSP00000265000"	"Q86SF2"	"Q4W5F7"	"UPI000000DB3C"	"NM_017423.2"	NA	NA	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"14"	""	"1"	"0.07662"	"0.1708"	"0.3748"	"0.2156"	"0.2947"	"0.2839"	"0.1833"	"0.1169"	NA	"common_variant"	"CGATA"	"7ec18aa2-280f-11e6-982f-1233424a729f"	"180"	0.2363	"5132/21718"	"6971/90978"	"332/1944"	"808/2156"	"144/668"	"415/1408"	"2727/9606"	"33/180"	"673/5756"	"PASS"	"FALSE"	0.0483870967741935	"WXS"	FALSE
"4811"	"SAP30"	8819	"mskcc.org"	"GRCh37"	"4"	174294990	174294991	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs5864192"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.442-96dupT"	""	""	"ENST00000296504"	""	60	"."	33	8	"."	1	"SAP30,intron_variant,,ENST00000296504,NM_003864.3;RP11-798M19.6,upstream_gene_variant,,ENST00000609900,;RP11-798M19.6,upstream_gene_variant,,ENST00000609153,;RP11-798M19.6,upstream_gene_variant,,ENST00000608794,;RP11-798M19.6,upstream_gene_variant,,ENST00000608892,;SAP30,downstream_gene_variant,,ENST00000504618,;"	"T"	"ENSG00000164105"	"ENST00000296504"	"Transcript"	"intron_variant"	"-/1108"	"-/663"	"-/220"	""	""	"rs5864192"	"1"	NA	1	"SAP30"	"HGNC"	10532	"protein_coding"	"YES"	"CCDS3817.1"	"ENSP00000296504"	"O75446"	""	"UPI000006F36D"	"NM_003864.3"	NA	NA	""	"2/3"	""	"-:0.0683"	"T:0.8374"	"T:0.9669"	NA	"T:0.9663"	"T:0.9761"	"T:0.953"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"90e00a56-280f-11e6-982f-1233424a729f"	"2040"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.55	"WXS"	FALSE
"4812"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	174675487	174675490	"+"	"IGR"	"DEL"	"TCTG"	"TCTG"	"-"	"rs139435082"	NA	"JHCCPT5"	"JHCCPN5"	"TCTG"	"TCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139435082"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATCTGT"	"7ed5fe2e-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4813"	"WDR17"	116966	"mskcc.org"	"GRCh37"	"4"	177029079	177029082	"+"	"Intron"	"DEL"	"TTCC"	"TTCC"	"-"	"rs147538001"	NA	"JHCCPT5"	"JHCCPN5"	"TTCC"	"TTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67-3633_67-3630delCCTT"	""	""	"ENST00000280190"	""	9	"."	3	2	"."	0	"WDR17,intron_variant,,ENST00000393643,NM_170710.4;WDR17,intron_variant,,ENST00000280190,;WDR17,intron_variant,,ENST00000508596,NM_181265.3;WDR17,intron_variant,,ENST00000507824,;WDR17,intron_variant,,ENST00000509792,;WDR17,intron_variant,,ENST00000513261,;"	"-"	"ENSG00000150627"	"ENST00000280190"	"Transcript"	"intron_variant"	"-/4705"	"-/3969"	"-/1322"	""	""	"rs147538001"	"1"	NA	1	"WDR17"	"HGNC"	16661	"protein_coding"	"YES"	"CCDS3825.1"	"ENSP00000280190"	"Q8IZU2"	"Q0QD35,E7EP77"	"UPI000019C575"	""	NA	NA	""	"2/30"	""	"-:0.3441"	"-:0.2088"	"-:0.2839"	NA	"-:0.4573"	"-:0.3847"	"-:0.411"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"14"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTCCT"	"7f06ff4c-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4814"	"WDR17"	116966	"mskcc.org"	"GRCh37"	"4"	177097971	177097974	"+"	"Intron"	"DEL"	"TCAT"	"TCAT"	"-"	"rs67471480"	NA	"JHCCPT5"	"JHCCPN5"	"TCAT"	"TCAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3567-237_3567-234delCATT"	""	""	"ENST00000280190"	""	11	"."	5	2	"."	0	"WDR17,intron_variant,,ENST00000393643,NM_170710.4;WDR17,intron_variant,,ENST00000443118,;WDR17,intron_variant,,ENST00000280190,;WDR17,intron_variant,,ENST00000508596,NM_181265.3;WDR17,intron_variant,,ENST00000507824,;WDR17,intron_variant,,ENST00000508773,;"	"-"	"ENSG00000150627"	"ENST00000280190"	"Transcript"	"intron_variant"	"-/4705"	"-/3969"	"-/1322"	""	""	"rs67471480"	"1"	NA	1	"WDR17"	"HGNC"	16661	"protein_coding"	"YES"	"CCDS3825.1"	"ENSP00000280190"	"Q8IZU2"	"Q0QD35,E7EP77"	"UPI000019C575"	""	NA	NA	""	"28/30"	""	"TCAT:0.3474"	"-:0.5129"	"-:0.5403"	NA	"-:0.7401"	"-:0.7028"	"-:0.7791"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTCATT"	"7f126e86-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"4815"	"LINC01098"	0	"mskcc.org"	"GRCh37"	"4"	178911340	178911341	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs34496992"	NA	"JHCCPT5"	"JHCCPN5"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.301-289_301-288delCT"	""	""	"ENST00000507870"	""	6	"."	3	1	"."	0	"LINC01098,intron_variant,,ENST00000507870,;"	"-"	"ENSG00000231171"	"ENST00000507870"	"Transcript"	"intron_variant"	"-/1034"	"-/330"	"-/109"	""	""	"rs34496992"	"1"	NA	1	"LINC01098"	"HGNC"	27731	"protein_coding"	"YES"	""	"ENSP00000421352"	""	"G5E9X9"	"UPI0000160C43"	""	NA	NA	""	"5/5"	""	"-:0.2446"	"-:0.1929"	"-:0.1801"	NA	"-:0.2619"	"-:0.3082"	"-:0.2771"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACTC"	"7f6b1c84-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4816"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	179197411	179197412	"+"	"IGR"	"INS"	"-"	"-"	"TTGT"	"rs113676939"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"TTGT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113676939"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0154"	"TTGT:0.9433"	"TTGT:0.9971"	NA	"TTGT:1"	"TTGT:1"	"TTGT:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"91164f08-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4817"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	179402678	179402679	"+"	"IGR"	"DEL"	"TG"	"TG"	"-"	"rs5864507"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5864507"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3199"	"-:0.3949"	"-:0.2752"	NA	"-:0.0923"	"-:0.5308"	"-:0.2679"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"7f73e6d4-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4818"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	180755521	180755522	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs146926540"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs146926540"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.3127"	"T:0.2466"	"T:0.1527"	NA	"T:0.6151"	"T:0.1282"	"T:0.3937"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"911a4842-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4819"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	182121363	182121364	"+"	"IGR"	"INS"	"-"	"C"	"C"	"rs11393428"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	8	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11393428"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2821"	"C:0.6634"	"C:0.6455"	NA	"C:0.7282"	"C:0.8489"	"C:0.6973"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"91207adc-280f-11e6-982f-1233424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"4820"	"TENM3"	55714	"mskcc.org"	"GRCh37"	"4"	183522021	183522022	"+"	"Intron"	"INS"	"-"	"-"	"AT"	"rs141344153"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.512-42_512-41dupTA"	""	""	"ENST00000511685"	""	63	"."	4	14	"."	0	"TENM3,intron_variant,,ENST00000511685,;TENM3,intron_variant,,ENST00000406950,NM_001080477.1;TENM3,intron_variant,,ENST00000510504,;"	"AT"	"ENSG00000218336"	"ENST00000511685"	"Transcript"	"intron_variant"	"-/10896"	"-/8100"	"-/2699"	""	""	"rs141344153"	"1"	NA	1	"TENM3"	"HGNC"	29944	"protein_coding"	"YES"	"CCDS47165.1"	"ENSP00000424226"	"Q9P273"	"G3CAS9,D6RGC5"	"UPI00006C0820"	""	NA	NA	""	"3/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"9146cd18-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0634920634920635	"WXS"	FALSE
"4821"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	184328881	184328916	"+"	"IGR"	"DEL"	"TTTCTCTTTTTCTTTCTTCCTTCTCTTTCTTGCTTT"	"TTTCTCTTTTTCTTTCTTCCTTCTCTTTCTTGCTTT"	"CTTTTTCTTTCTTCCTTCTCTTTCTTGCTT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTCTCTTTTTCTTTCTTCCTTCTCTTTCTTGCTTT"	"TTTCTCTTTTTCTTTCTTCCTTCTCTTTCTTGCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	23	"."	6	3	"."	0	""	"CTTTTTCTTTCTTCCTTCTCTTTCTTGC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTTTCTCTTTTTCTTTCTTCCTTCTCTTTCTTGCTTTC"	"81f5ead8-280f-11e6-982f-1233424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WXS"	FALSE
"4822"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	184329208	184329213	"+"	"IGR"	"DEL"	"TTTTCT"	"TTTTCT"	"-"	"rs139970243"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTCT"	"TTTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139970243"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2296"	"-:0.1596"	"-:0.2089"	NA	"-:0.3323"	"-:0.2008"	"-:0.2628"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTTCTT"	"7fe24eb2-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"4823"	"TRAPPC11"	60684	"mskcc.org"	"GRCh37"	"4"	184589495	184589496	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11454902"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.560+225_560+226insT"	""	""	"ENST00000334690"	""	20	"."	4	8	"."	0	"TRAPPC11,intron_variant,,ENST00000334690,NM_021942.5;TRAPPC11,intron_variant,,ENST00000357207,NM_199053.2;TRAPPC11,intron_variant,,ENST00000511409,;TRAPPC11,downstream_gene_variant,,ENST00000504526,;TRAPPC11,intron_variant,,ENST00000505676,;TRAPPC11,intron_variant,,ENST00000509857,;TRAPPC11,intron_variant,,ENST00000513600,;"	"T"	"ENSG00000168538"	"ENST00000334690"	"Transcript"	"intron_variant"	"-/4552"	"-/3402"	"-/1133"	""	""	"rs11454902"	"1"	NA	1	"TRAPPC11"	"HGNC"	25751	"protein_coding"	"YES"	"CCDS34112.1"	"ENSP00000335371"	"Q7Z392"	""	"UPI000020B774"	"NM_021942.5"	NA	NA	""	"5/29"	""	"T:0.4888"	"T:0.6452"	"T:0.5173"	NA	"T:0.5317"	"T:0.3926"	"T:0.3119"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"91666fce-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"4824"	"PRIMPOL"	201973	"mskcc.org"	"GRCh37"	"4"	185603038	185603039	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs144011795"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1008-358dupT"	""	""	"ENST00000314970"	""	7	"."	3	6	"."	0	"PRIMPOL,intron_variant,,ENST00000314970,NM_152683.2;PRIMPOL,intron_variant,,ENST00000512834,;PRIMPOL,intron_variant,,ENST00000503752,;PRIMPOL,intron_variant,,ENST00000515774,;PRIMPOL,intron_variant,,ENST00000508001,;PRIMPOL,intron_variant,,ENST00000509002,;PRIMPOL,downstream_gene_variant,,ENST00000506278,;"	"T"	"ENSG00000164306"	"ENST00000314970"	"Transcript"	"intron_variant"	"-/2289"	"-/1683"	"-/560"	""	""	"rs144011795"	"1"	NA	1	"PRIMPOL"	"HGNC"	26575	"protein_coding"	"YES"	"CCDS3837.1"	"ENSP00000313816"	"Q96LW4"	"D6RAH5,D6R971"	"UPI000013E37F"	"NM_152683.2"	NA	NA	""	"8/13"	""	"T:0.0942"	"T:0.1452"	"T:0.1196"	NA	"T:0.001"	"T:0.1243"	"T:0.0726"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"9180b69a-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4825"	"CENPU"	79682	"mskcc.org"	"GRCh37"	"4"	185652225	185652225	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs11362720"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.48-103delG"	""	""	"ENST00000281453"	""	61	"."	9	12	"."	0	"CENPU,intron_variant,,ENST00000281453,NM_024629.3;CENPU,intron_variant,,ENST00000541971,;CENPU,intron_variant,,ENST00000514781,;CENPU,intron_variant,,ENST00000510146,;"	"-"	"ENSG00000151725"	"ENST00000281453"	"Transcript"	"intron_variant"	"-/1998"	"-/1257"	"-/418"	""	""	"rs11362720"	"1"	NA	-1	"CENPU"	"HGNC"	21348	"protein_coding"	"YES"	"CCDS3838.1"	"ENSP00000281453"	"Q71F23"	"D6R9S4"	"UPI00001BFAF6"	"NM_024629.3"	NA	NA	""	"1/12"	""	"C:0.4299"	"-:0.4652"	"-:0.6066"	NA	"-:0.6171"	"-:0.6064"	"-:0.6002"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACA"	"804f2f5a-280f-11e6-982f-1233424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147540983606557	"WXS"	FALSE
"4826"	"SNX25"	83891	"mskcc.org"	"GRCh37"	"4"	186208975	186208976	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs34265529"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.600-191_600-190insG"	""	""	"ENST00000504273"	""	16	"."	4	9	"."	0	"SNX25,intron_variant,,ENST00000504273,;SNX25,intron_variant,,ENST00000264694,NM_031953.2;"	"G"	"ENSG00000109762"	"ENST00000504273"	"Transcript"	"intron_variant"	"-/3323"	"-/2523"	"-/840"	""	""	"rs34265529"	"1"	NA	1	"SNX25"	"HGNC"	21883	"protein_coding"	"YES"	"CCDS34116.1"	"ENSP00000426255"	"Q9H3E2"	"B3KTI8"	"UPI000020B7BB"	""	NA	NA	""	"5/18"	""	"G:0.4575"	"G:0.3979"	"G:0.4568"	NA	"G:0.5218"	"G:0.4225"	"G:0.5082"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"91988a90-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4827"	"PDLIM3"	27295	"mskcc.org"	"GRCh37"	"4"	186425210	186425211	"+"	"Intron"	"INS"	"-"	"-"	"TCA"	"rs10644832"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.905+418_905+419insTGA"	""	""	"ENST00000284770"	""	14	"."	7	2	"."	0	"PDLIM3,intron_variant,,ENST00000284767,;PDLIM3,intron_variant,,ENST00000284770,NM_014476.5;PDLIM3,intron_variant,,ENST00000284771,NM_001114107.4;PDLIM3,intron_variant,,ENST00000514142,;PDLIM3,intron_variant,,ENST00000514308,;PDLIM3,downstream_gene_variant,,ENST00000512293,;PDLIM3,downstream_gene_variant,,ENST00000505886,;"	"TCA"	"ENSG00000154553"	"ENST00000284770"	"Transcript"	"intron_variant"	"-/1766"	"-/1095"	"-/364"	""	""	"rs10644832"	"1"	NA	-1	"PDLIM3"	"HGNC"	20767	"protein_coding"	"YES"	"CCDS3844.1"	"ENSP00000284770"	"Q53GG5"	""	"UPI000013DDB6"	"NM_014476.5"	NA	NA	""	"7/7"	""	"-:0.2406"	"TCA:0.6278"	"TCA:0.8314"	NA	"TCA:0.8085"	"TCA:0.833"	"TCA:0.7597"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"91a54b2c-280f-11e6-982f-1233424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4828"	"SORBS2"	8470	"mskcc.org"	"GRCh37"	"4"	186509741	186509742	"+"	"Intron"	"INS"	"-"	"-"	"CTCCTTCCTCCTC"	"rs138160304"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3542-900_3542-899insGAGGAGGAAGGAG"	""	""	"ENST00000355634"	""	11	"."	4	1	"."	0	"SORBS2,intron_variant,,ENST00000431808,;SORBS2,intron_variant,,ENST00000284776,NM_021069.4;SORBS2,intron_variant,,ENST00000418609,NM_001145674.1,NM_001145675.1;SORBS2,intron_variant,,ENST00000355634,NM_001270771.1;SORBS2,intron_variant,,ENST00000448662,NM_001145672.1;SORBS2,intron_variant,,ENST00000437304,NM_001145673.1;SORBS2,intron_variant,,ENST00000449407,NM_001145670.1;SORBS2,intron_variant,,ENST00000393528,NM_003603.6;SORBS2,intron_variant,,ENST00000319471,NM_001145671.2;RP11-301L8.2,intron_variant,,ENST00000411847,;SORBS2,intron_variant,,ENST00000478461,;"	"CTCCTTCCTCCTC"	"ENSG00000154556"	"ENST00000355634"	"Transcript"	"intron_variant"	"-/4622"	"-/3603"	"-/1200"	""	""	"rs138160304"	"1"	NA	-1	"SORBS2"	"HGNC"	24098	"protein_coding"	"YES"	"CCDS59482.1"	"ENSP00000347852"	"O94875"	"C9JZ60,C9JN77,C9JL62,C9JI79,C9JDX2,C9JBR8,C9JBB0,C9J8E3,C9J7Q5,C9J4Z9,C9J4K2,C9J3W4,C9J372,C9IZT7,C9IZ89"	"UPI000198C7F0"	"NM_001270771.1"	NA	NA	""	"23/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"91a9c328-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4829"	"KLKB1"	3818	"mskcc.org"	"GRCh37"	"4"	187178152	187178155	"+"	"Intron"	"DEL"	"TCTG"	"TCTG"	"-"	"rs138863293"	NA	"JHCCPT5"	"JHCCPN5"	"TCTG"	"TCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1586-227_1586-224delCTGT"	""	""	"ENST00000264690"	""	10	"."	5	1	"."	0	"KLKB1,intron_variant,,ENST00000264690,NM_000892.3;KLKB1,intron_variant,,ENST00000511608,;KLKB1,intron_variant,,ENST00000513864,;KLKB1,intron_variant,,ENST00000511406,;KLKB1,downstream_gene_variant,,ENST00000467271,;"	"-"	"ENSG00000164344"	"ENST00000264690"	"Transcript"	"intron_variant"	"-/2363"	"-/1917"	"-/638"	""	""	"rs138863293"	"1"	NA	1	"KLKB1"	"HGNC"	6371	"protein_coding"	"YES"	"CCDS34120.1"	"ENSP00000264690"	"P03952"	"C9JCT1,C9J075,C9IYG8"	"UPI000050EC06"	"NM_000892.3"	NA	NA	""	"13/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTCTGT"	"80e7c292-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4830"	"KLKB1"	3818	"mskcc.org"	"GRCh37"	"4"	187178783	187178784	"+"	"Intron"	"INS"	"-"	"CTT"	"CTT"	"rs200039428"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1725+266_1725+268dupTTC"	""	""	"ENST00000264690"	""	9	"."	7	2	"."	0	"KLKB1,intron_variant,,ENST00000264690,NM_000892.3;KLKB1,intron_variant,,ENST00000511608,;KLKB1,intron_variant,,ENST00000513864,;KLKB1,intron_variant,,ENST00000511406,;"	"CTT"	"ENSG00000164344"	"ENST00000264690"	"Transcript"	"intron_variant"	"-/2363"	"-/1917"	"-/638"	""	""	"rs200039428"	"1"	NA	1	"KLKB1"	"HGNC"	6371	"protein_coding"	"YES"	"CCDS34120.1"	"ENSP00000264690"	"P03952"	"C9JCT1,C9J075,C9IYG8"	"UPI000050EC06"	"NM_000892.3"	NA	NA	""	"14/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAC"	"91c58e6e-280f-11e6-982f-1233424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	FALSE
"4831"	"FAT1"	2195	"mskcc.org"	"GRCh37"	"4"	187635424	187635425	"+"	"Intron"	"INS"	"-"	"CA"	"CA"	"rs72521200"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-18-4426_-18-4425insTG"	""	""	"ENST00000441802"	""	6	"."	5	2	"."	0	"FAT1,intron_variant,,ENST00000441802,NM_005245.3;FAT1,intron_variant,,ENST00000509647,;"	"CA"	"ENSG00000083857"	"ENST00000441802"	"Transcript"	"intron_variant"	"-/14786"	"-/13767"	"-/4588"	""	""	"rs72521200"	"1"	NA	-1	"FAT1"	"HGNC"	3595	"protein_coding"	"YES"	"CCDS47177.1"	"ENSP00000406229"	"Q14517"	"D6RCE4"	"UPI000051946B"	"NM_005245.3"	NA	NA	""	"1/26"	""	"-:0.3247"	"CA:0.8154"	"CA:0.6455"	NA	"CA:0.4058"	"CA:0.7704"	"CA:0.6871"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"91dbd4a8-280f-11e6-982f-1233424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	TRUE
"4832"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	187767145	187767146	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs5865011"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5865011"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1372"	"T:0.7761"	"T:0.853"	NA	"T:0.9335"	"T:0.8827"	"T:0.8937"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"91de9c2e-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4833"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	187992634	187992635	"+"	"IGR"	"INS"	"-"	"-"	"TCTTCCTTTCTTTCTTCCTCCTC"	"rs750689611"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	6	2	"."	0	""	"TCTTCCTTTCTTTCTTCCTCCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs750689611"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"91e0911e-280f-11e6-982f-1233424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4834"	"TRIML1"	339976	"mskcc.org"	"GRCh37"	"4"	189063914	189063915	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11399915"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.735+287dupT"	""	""	"ENST00000332517"	""	11	"."	3	5	"."	0	"TRIML1,intron_variant,,ENST00000332517,NM_178556.3;RP11-366H4.3,intron_variant,,ENST00000501322,;TRIML1,upstream_gene_variant,,ENST00000507581,;TRIML1,upstream_gene_variant,,ENST00000512233,;"	"T"	"ENSG00000184108"	"ENST00000332517"	"Transcript"	"intron_variant"	"-/1797"	"-/1407"	"-/468"	""	""	"rs11399915"	"1"	NA	1	"TRIML1"	"HGNC"	26698	"protein_coding"	"YES"	"CCDS3851.1"	"ENSP00000327738"	"Q8N9V2"	""	"UPI000006FC8A"	"NM_178556.3"	NA	NA	""	"3/5"	""	"T:0.4537"	"T:0.2988"	"T:0.536"	NA	"T:0.3532"	"T:0.5457"	"T:0.6135"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"92052aa6-280f-11e6-982f-1233424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4835"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	190329166	190329167	"+"	"IGR"	"INS"	"-"	"-"	"CACACACACACA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"."	6	20	"."	0	""	"CACACACACACA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"921e8064-280f-11e6-982f-1233424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WXS"	FALSE
"4836"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	190426648	190426669	"+"	"IGR"	"DEL"	"TAATCACACTCTCACACTGTCA"	"TAATCACACTCTCACACTGTCA"	"ATCACACTCACACTGT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TAATCACACTCTCACACTGTCA"	"TAATCACACTCTCACACTGTCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	33	"."	4	9	"."	0	""	"ATCACACTCACACTGT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATAATCACACTCTCACACTGTCAC"	"82028658-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WXS"	FALSE
"4837"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	190594434	190594437	"+"	"IGR"	"DEL"	"CAGT"	"CAGT"	"-"	"rs371845496"	NA	"JHCCPT5"	"JHCCPN5"	"CAGT"	"CAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs371845496"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3343"	"-:0.3941"	"-:0.3156"	NA	"-:0.2113"	"-:0.4056"	"-:0.32"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACAGTC"	"814b6b80-280f-11e6-982f-1233424a729f"	"229"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4838"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	190657573	190657574	"+"	"IGR"	"INS"	"-"	"-"	"AGCATTTATAT"	"rs80228816"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	2	"."	0	""	"AGCATTTATAT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs80228816"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AGCATTTATAT:0.4978"	"AGCATTTATAT:0.497"	"AGCATTTATAT:0.5"	NA	"AGCATTTATAT:0.4931"	"AGCATTTATAT:0.5"	"AGCATTTATAT:0.5"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"922422e4-280f-11e6-982f-1233424a729f"	"177"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4839"	"ENSR00001256484"	0	"mskcc.org"	"GRCh37"	"4"	190660035	190660035	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs5865298"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001256484"	""	8	"."	4	2	"."	0	""	"-"	""	"ENSR00001256484"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs5865298"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.4798"	"-:0.5129"	"-:0.5216"	NA	"-:0.5149"	"-:0.5388"	"-:0.5153"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"814da288-280f-11e6-982f-1233424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4840"	"EXOC3"	11336	"mskcc.org"	"GRCh37"	"5"	469840	469841	"+"	"3'Flank"	"INS"	"-"	"-"	"TTTG"	"rs3217326"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000512944"	""	8	"."	5	1	"."	0	"EXOC3,downstream_gene_variant,,ENST00000512944,NM_007277.4;EXOC3,downstream_gene_variant,,ENST00000315013,;SLC9A3,downstream_gene_variant,,ENST00000264938,NM_004174.2;SLC9A3,downstream_gene_variant,,ENST00000514375,NM_001284351.1;CTD-2228K2.5,downstream_gene_variant,,ENST00000342584,;CTD-2228K2.5,downstream_gene_variant,,ENST00000510604,;CTD-2228K2.7,upstream_gene_variant,,ENST00000607286,;CTD-2228K2.5,intron_variant,,ENST00000510714,;EXOC3,upstream_gene_variant,,ENST00000509294,;CTD-2228K2.5,downstream_gene_variant,,ENST00000502511,;EXOC3,intron_variant,,ENST00000515601,;EXOC3,intron_variant,,ENST00000503889,;EXOC3,downstream_gene_variant,,ENST00000511015,;EXOC3,downstream_gene_variant,,ENST00000505947,;"	"TTTG"	"ENSG00000180104"	"ENST00000512944"	"Transcript"	"downstream_gene_variant"	"-/2825"	"-/2238"	"-/745"	""	""	"rs3217326"	"1"	"2429"	1	"EXOC3"	"HGNC"	30378	"protein_coding"	"YES"	"CCDS54830.1"	"ENSP00000425587"	"O60645"	"Q69YP2,D6RBR9,B2RE06"	"UPI000004A021"	"NM_007277.4"	NA	NA	""	""	""	"-:0.3011"	"TTTG:0.9244"	"TTTG:0.6124"	NA	"TTTG:0.5665"	"TTTG:0.6491"	"TTTG:0.6431"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"83bab2e0-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4841"	"SLC9A3"	6550	"mskcc.org"	"GRCh37"	"5"	474576	474946	"+"	"Intron"	"DEL"	"GGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGAGAGAGAGAGCGAGCCAGGTTCAGGTCCAGGGAGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAGGGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGGGAGAGAGCCAGGTTCAGGTCCAGGGAGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAGGGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGAGAGAGAGCGAGCCAGGTTCAGGTCCAGGGAGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAGGGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAG"	"GGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGAGAGAGAGAGCGAGCCAGGTTCAGGTCCAGGGAGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAGGGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGGGAGAGAGCCAGGTTCAGGTCCAGGGAGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAGGGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGAGAGAGAGCGAGCCAGGTTCAGGTCCAGGGAGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAGGGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGAGAGAGAGAGCGAGCCAGGTTCAGGTCCAGGGAGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAGGGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGGGAGAGAGCCAGGTTCAGGTCCAGGGAGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAGGGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGAGAGAGAGCGAGCCAGGTTCAGGTCCAGGGAGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAGGGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAG"	"GGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGAGAGAGAGAGCGAGCCAGGTTCAGGTCCAGGGAGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAGGGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGGGAGAGAGCCAGGTTCAGGTCCAGGGAGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAGGGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGAGAGAGAGCGAGCCAGGTTCAGGTCCAGGGAGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAGGGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2501+52_2501+422delCTCCAGGTCTCCGCCTCGCGCGCGCTGTCTCTCTCCCTCCCCGCCTAACCCCTCTCCGCAGCTCCTCTCCCTCCAGGTCTCCGCCTCGCGCGCGCTGTCTCTCTCCTCCCTGGACCTGAACCTGGCTCGCTCTCTCTCTCCCCGCCTAACCCCTCTCCGCAGCTCCTCTCCCTCCAGGTCTCCGCCTCGCGCGCGCTGTCTCTCTCCTCCCTGGACCTGAACCTGGCTCTCTCCCTCCCCGCCTAACCCCTCTCCGCAGCTCCTCTCCCTCCAGGTCTCCGCCTCGCGCGCGCTGTCTCTCTCCTCCCTGGACCTGAACCTGGCTCGCTCTCTCTCTCTCCCCGCCTAACCCCTCTCCGCAGCTCCTCTCC"	""	""	"ENST00000264938"	""	28	"."	5	10	"."	0	"SLC9A3,intron_variant,,ENST00000264938,NM_004174.2;SLC9A3,intron_variant,,ENST00000514375,NM_001284351.1;CTD-2228K2.5,upstream_gene_variant,,ENST00000342584,;CTD-2228K2.5,upstream_gene_variant,,ENST00000510604,;CTD-2228K2.7,intron_variant,,ENST00000607286,;CTD-2228K2.7,upstream_gene_variant,,ENST00000606288,;CTD-2228K2.7,upstream_gene_variant,,ENST00000606319,;CTD-2228K2.7,upstream_gene_variant,,ENST00000607005,;CTD-2228K2.7,upstream_gene_variant,,ENST00000431004,;CTD-2228K2.5,upstream_gene_variant,,ENST00000510714,;EXOC3,downstream_gene_variant,,ENST00000509294,;CTD-2228K2.5,upstream_gene_variant,,ENST00000502511,;EXOC3,downstream_gene_variant,,ENST00000515601,;EXOC3,downstream_gene_variant,,ENST00000503889,;CTD-2228K2.7,upstream_gene_variant,,ENST00000534918,;CTD-2228K2.7,upstream_gene_variant,,ENST00000606074,;CTD-2228K2.7,upstream_gene_variant,,ENST00000606107,;SLC9A3,downstream_gene_variant,,ENST00000507407,;"	"-"	"ENSG00000066230"	"ENST00000264938"	"Transcript"	"intron_variant"	"-/2584"	"-/2505"	"-/834"	""	""	""	"1"	NA	-1	"SLC9A3"	"HGNC"	11073	"protein_coding"	"YES"	"CCDS3855.1"	"ENSP00000264938"	"P48764"	""	"UPI000013D597"	"NM_004174.2"	NA	NA	""	"16/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGAGAGAGAGAGCGAGCCAGGTTCAGGTCCAGGGAGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAGGGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGGGAGAGAGCCAGGTTCAGGTCCAGGGAGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAGGGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGAGAGAGAGCGAGCCAGGTTCAGGTCCAGGGAGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAGGGAGAGGAGCTGCGGAGAGGGGTTAGGCGGGGAGGGAGAGAGACAGCGCGCGCGAGGCGGAGACCTGGAGG"	"646dc83c-280f-11e6-a9ee-1433424a729f"	"191"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WXS"	FALSE
"4842"	"SLC9A3"	6550	"mskcc.org"	"GRCh37"	"5"	517380	517381	"+"	"Intron"	"INS"	"-"	"-"	"CATC"	"rs138868824"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.211+6843_211+6846dupGATG"	""	""	"ENST00000264938"	""	6	"."	4	5	"."	0	"SLC9A3,intron_variant,,ENST00000264938,NM_004174.2;SLC9A3,intron_variant,,ENST00000514375,NM_001284351.1;"	"CATC"	"ENSG00000066230"	"ENST00000264938"	"Transcript"	"intron_variant"	"-/2584"	"-/2505"	"-/834"	""	""	"rs138868824"	"1"	NA	-1	"SLC9A3"	"HGNC"	11073	"protein_coding"	"YES"	"CCDS3855.1"	"ENSP00000264938"	"P48764"	""	"UPI000013D597"	"NM_004174.2"	NA	NA	""	"1/16"	""	"-:0.4485"	"CATC:0.5862"	"CATC:0.5879"	NA	"CATC:0.4851"	"CATC:0.5765"	"CATC:0.5215"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"83c3b6ec-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4843"	"CEP72"	55722	"mskcc.org"	"GRCh37"	"5"	641754	641755	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs770049732"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1539+1035_1539+1036delAT"	""	""	"ENST00000264935"	""	7	"."	4	1	"."	0	"CEP72,intron_variant,,ENST00000264935,NM_018140.3;CEP72,intron_variant,,ENST00000444221,;CEP72,upstream_gene_variant,,ENST00000512038,;"	"-"	"ENSG00000112877"	"ENST00000264935"	"Transcript"	"intron_variant"	"-/2434"	"-/1944"	"-/647"	""	""	"rs770049732"	"1"	NA	1	"CEP72"	"HGNC"	25547	"protein_coding"	"YES"	"CCDS34126.1"	"ENSP00000264935"	"Q9P209"	""	"UPI0000072FB8"	"NM_018140.3"	NA	NA	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATG"	"648c7368-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4844"	"CTD-2589H19.4"	0	"mskcc.org"	"GRCh37"	"5"	772194	772197	"+"	"5'Flank"	"DEL"	"AAAC"	"AAAC"	"-"	"rs145988457"	NA	"JHCCPT5"	"JHCCPN5"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000506203"	""	7	"."	4	5	"."	0	"ZDHHC11,intron_variant,,ENST00000424784,;CTD-2589H19.4,upstream_gene_variant,,ENST00000506203,;"	"-"	"ENSG00000249908"	"ENST00000506203"	"Transcript"	"upstream_gene_variant"	"-/225"	""	""	""	""	"rs145988457"	"1"	"3148"	-1	"CTD-2589H19.4"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAAACA"	"64c3953c-280f-11e6-a9ee-1433424a729f"	"129"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4845"	"SLC12A7"	10723	"mskcc.org"	"GRCh37"	"5"	1062796	1062819	"+"	"Intron"	"DEL"	"CTGGGGGGCTGGGGGACTGAGGGA"	"-"	"-"	"rs67263312"	NA	"JHCCPT5"	"JHCCPN5"	"CTGGGGGGCTGGGGGACTGAGGGA"	"CTGGGGGGCTGGGGGACTGAGGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2739+1140_2739+1163delTCCCTCAGTCCCCCAGCCCCCCAG"	""	""	"ENST00000264930"	""	8	"."	6	1	"."	0	"SLC12A7,intron_variant,,ENST00000264930,NM_006598.2;SLC12A7,intron_variant,,ENST00000513223,;MIR4635,downstream_gene_variant,,ENST00000583759,;SLC12A7,intron_variant,,ENST00000514994,;"	"-"	"ENSG00000113504"	"ENST00000264930"	"Transcript"	"intron_variant"	"-/5272"	"-/3252"	"-/1083"	""	""	"rs67263312"	"1"	NA	-1	"SLC12A7"	"HGNC"	10915	"protein_coding"	"YES"	"CCDS34129.1"	"ENSP00000264930"	"Q9Y666"	""	"UPI0000141815"	"NM_006598.2"	NA	NA	""	"20/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCTGGGGGGCTGGGGGACTGAGGGAC"	"64fd0826-280f-11e6-a9ee-1433424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"4846"	"SLC12A7"	10723	"mskcc.org"	"GRCh37"	"5"	1076520	1076530	"+"	"Intron"	"DEL"	"CAGGTTCCAGC"	"CAGGTTCCAGC"	"-"	"rs111668454"	NA	"JHCCPT5"	"JHCCPN5"	"CAGGTTCCAGC"	"CAGGTTCCAGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1749-179_1749-169delGCTGGAACCTG"	""	""	"ENST00000264930"	""	64	"."	3	28	"."	0	"SLC12A7,intron_variant,,ENST00000264930,NM_006598.2;SLC12A7,upstream_gene_variant,,ENST00000513223,;SLC12A7,intron_variant,,ENST00000504576,;SLC12A7,downstream_gene_variant,,ENST00000510943,;"	"-"	"ENSG00000113504"	"ENST00000264930"	"Transcript"	"intron_variant"	"-/5272"	"-/3252"	"-/1083"	""	""	"rs111668454"	"1"	NA	-1	"SLC12A7"	"HGNC"	10915	"protein_coding"	"YES"	"CCDS34129.1"	"ENSP00000264930"	"Q9Y666"	""	"UPI0000141815"	"NM_006598.2"	NA	NA	""	"13/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCAGGTTCCAGCC"	"651cc558-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.046875	"WXS"	FALSE
"4847"	"SLC12A7"	10723	"mskcc.org"	"GRCh37"	"5"	1081185	1081219	"+"	"Intron"	"DEL"	"AGAGAGACAGACAGAGAGAGAGGGAAAAGGGTAGG"	"AGAGAGACAGACAGAGAGAGAGGGAAAAGGGTAGG"	"GGAAAAGGGTA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AGAGAGACAGACAGAGAGAGAGGGAAAAGGGTAGG"	"AGAGAGACAGACAGAGAGAGAGGGAAAAGGGTAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1297+473_1297+507delCCTACCCTTTTCCCTCTCTCTCTGTCTGTCTCTCTinsTACCCTTTTCC"	""	""	"ENST00000264930"	""	27	"."	5	8	"."	0	"SLC12A7,intron_variant,,ENST00000264930,NM_006598.2;SLC12A7,intron_variant,,ENST00000510943,;SLC12A7,upstream_gene_variant,,ENST00000504576,;"	"GGAAAAGGGTA"	"ENSG00000113504"	"ENST00000264930"	"Transcript"	"intron_variant"	"-/5272"	"-/3252"	"-/1083"	""	""	""	"1"	NA	-1	"SLC12A7"	"HGNC"	10915	"protein_coding"	"YES"	"CCDS34129.1"	"ENSP00000264930"	"Q9Y666"	""	"UPI0000141815"	"NM_006598.2"	NA	NA	""	"9/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGAGAGACAGACAGAGAGAGAGGGAAAAGGGTAGGG"	"822ba8c6-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WXS"	FALSE
"4848"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	1652674	1652694	"+"	"IGR"	"DEL"	"GATCTGGCCGTGTGGCCATGG"	"GATCTGGCCGTGTGGCCATGG"	"-"	"rs11269282"	NA	"JHCCPT5"	"JHCCPN5"	"GATCTGGCCGTGTGGCCATGG"	"GATCTGGCCGTGTGGCCATGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11269282"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3520"	"-:0.3502"	"-:0.389"	NA	"-:0.3194"	"-:0.4026"	"-:0.3098"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGATCTGGCCGTGTGGCCATGGG"	"656febb6-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"4849"	"CTD-2287N17.1"	0	"mskcc.org"	"GRCh37"	"5"	4013574	4013576	"+"	"RNA"	"DEL"	"AAA"	"AAA"	"-"	"rs34713418"	NA	"JHCCPT5"	"JHCCPN5"	"AAA"	"AAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.188_190delTTT"	""	""	"ENST00000513859"	"1/2"	9	"."	3	2	"."	0	"CTD-2287N17.1,non_coding_transcript_exon_variant,,ENST00000513859,;"	"-"	"ENSG00000248962"	"ENST00000513859"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"188-190/559"	""	""	""	""	"rs34713418"	"1"	NA	-1	"CTD-2287N17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	"1/2"	""	""	"AAA:0.4744"	"-:0.3759"	"-:0.5043"	NA	"-:0.756"	"-:0.4622"	"-:0.5706"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAAAA"	"65b1ede0-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4850"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	4886342	4886343	"+"	"IGR"	"DEL"	"TG"	"TG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	163	"."	6	51	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATGT"	"65df3624-280f-11e6-a9ee-1433424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0368098159509202	"WXS"	FALSE
"4851"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	6424962	6424963	"+"	"IGR"	"DEL"	"TC"	"TC"	"-"	"rs143843706"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	5	8	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143843706"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCT"	"6612386c-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4852"	"RP11-122F24.1"	0	"mskcc.org"	"GRCh37"	"5"	7073991	7073991	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs113749966"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.154+37319delC"	""	""	"ENST00000512838"	""	6	"."	4	3	"."	0	"RP11-122F24.1,intron_variant,,ENST00000512838,;"	"-"	"ENSG00000250974"	"ENST00000512838"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/568"	""	""	""	""	"rs113749966"	"1"	NA	1	"RP11-122F24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"6636b41c-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4853"	"ADCY2"	108	"mskcc.org"	"GRCh37"	"5"	7742025	7742026	"+"	"Intron"	"INS"	"-"	"-"	"ATC"	"rs75442379"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1872-1751_1872-1749dupTCA"	""	""	"ENST00000338316"	""	9	"."	5	1	"."	0	"ADCY2,intron_variant,,ENST00000338316,NM_020546.2;ADCY2,intron_variant,,ENST00000537121,;RP11-711G10.1,intron_variant,,ENST00000514105,;"	"ATC"	"ENSG00000078295"	"ENST00000338316"	"Transcript"	"intron_variant"	"-/6575"	"-/3276"	"-/1091"	""	""	"rs75442379"	"1"	NA	1	"ADCY2"	"HGNC"	233	"protein_coding"	"YES"	"CCDS3872.2"	"ENSP00000342952"	"Q08462"	"Q7RTV6,Q71UM8,D6REB8"	"UPI000066D9F2"	"NM_020546.2"	NA	NA	""	"14/24"	""	"-:0.3155"	"ATC:0.6694"	"ATC:0.7133"	NA	"ATC:0.6687"	"ATC:0.7058"	"ATC:0.6789"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"85288170-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"4854"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	8727170	8727171	"+"	"IGR"	"INS"	"-"	"-"	"AGGG"	"rs113849459"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	3	2	"."	0	""	"AGGG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113849459"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2218"	"AGGG:0.6354"	"AGGG:0.8156"	NA	"AGGG:0.8829"	"AGGG:0.7744"	"AGGG:0.8405"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"855f6afa-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"4855"	"RP11-315A16.1"	0	"mskcc.org"	"GRCh37"	"5"	8785057	8785060	"+"	"3'Flank"	"DEL"	"TCTT"	"TCTT"	"-"	"rs146935035"	NA	"JHCCPT5"	"JHCCPN5"	"TCTT"	"TCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000569381"	""	14	"."	7	4	"."	0	"RP11-315A16.1,downstream_gene_variant,,ENST00000569381,;"	"-"	"ENSG00000260981"	"ENST00000569381"	"Transcript"	"downstream_gene_variant"	"-/427"	""	""	""	""	"rs146935035"	"1"	"94"	-1	"RP11-315A16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTCTTT"	"6695e77a-280f-11e6-a9ee-1433424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4856"	"ANKRD33B"	651746	"mskcc.org"	"GRCh37"	"5"	10636569	10636570	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs34572739"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.497-1563dupT"	""	""	"ENST00000296657"	""	9	"."	4	1	"."	0	"ANKRD33B,intron_variant,,ENST00000296657,NM_001164440.1;ANKRD33B,intron_variant,,ENST00000504806,;"	"T"	"ENSG00000164236"	"ENST00000296657"	"Transcript"	"intron_variant"	"-/1568"	"-/1485"	"-/494"	""	""	"rs34572739"	"1"	NA	1	"ANKRD33B"	"HGNC"	35240	"protein_coding"	"YES"	"CCDS47191.1"	"ENSP00000296657"	"A6NCL7"	""	"UPI00001D7EE7"	"NM_001164440.1"	NA	NA	""	"2/3"	""	"T:0.3740"	"T:0.3374"	"T:0.3458"	NA	"T:0.3194"	"T:0.4314"	"T:0.4407"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"858ae694-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4857"	"DAP"	1611	"mskcc.org"	"GRCh37"	"5"	10687643	10687645	"+"	"Intron"	"DEL"	"GTG"	"GTG"	"-"	"rs144284404"	NA	"JHCCPT5"	"JHCCPN5"	"GTG"	"GTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.153-3962_153-3960delCAC"	""	""	"ENST00000230895"	""	6	"."	3	1	"."	0	"DAP,intron_variant,,ENST00000230895,NM_004394.2;DAP,intron_variant,,ENST00000432074,;DAP,intron_variant,,ENST00000508253,;DAP,intron_variant,,ENST00000514882,;"	"-"	"ENSG00000112977"	"ENST00000230895"	"Transcript"	"intron_variant"	"-/2339"	"-/309"	"-/102"	""	""	"rs144284404"	"1"	NA	-1	"DAP"	"HGNC"	2672	"protein_coding"	"YES"	"CCDS3880.1"	"ENSP00000230895"	"P51397"	""	"UPI0000128E2E"	"NM_004394.2"	NA	NA	""	"2/3"	""	"-:0.1376"	"-:0.0696"	"-:0.1441"	NA	"-:0.248"	"-:0.0716"	"-:0.1789"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGTGG"	"66bfe96c-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4858"	"CTNND2"	1501	"mskcc.org"	"GRCh37"	"5"	11301295	11301296	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs554010172"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1628+45188dupA"	""	""	"ENST00000304623"	""	9	"."	4	3	"."	0	"CTNND2,intron_variant,,ENST00000304623,NM_001332.2,NM_001288716.1,NM_001288715.1;CTNND2,intron_variant,,ENST00000359640,;CTNND2,intron_variant,,ENST00000511377,;CTNND2,intron_variant,,ENST00000458100,;CTNND2,intron_variant,,ENST00000503622,;CTNND2,intron_variant,,ENST00000495388,;CTNND2,intron_variant,,ENST00000513588,;CTNND2,intron_variant,,ENST00000504499,;"	"T"	"ENSG00000169862"	"ENST00000304623"	"Transcript"	"intron_variant"	"-/5481"	"-/3678"	"-/1225"	""	""	"rs554010172"	"1"	NA	-1	"CTNND2"	"HGNC"	2516	"protein_coding"	"YES"	"CCDS3881.1"	"ENSP00000307134"	"Q9UQB3"	"E7EPC8,D6RF55,D6RBA8,D6R9A8"	"UPI000013E9AB"	"NM_001332.2,NM_001288716.1,NM_001288715.1"	NA	NA	""	"9/21"	""	"T:0.3670"	"T:0.4448"	"T:0.3818"	NA	"T:0.3383"	"T:0.4066"	"T:0.2403"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"85944a04-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4859"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	13543967	13543968	"+"	"IGR"	"INS"	"-"	"A"	"A"	"rs35538381"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	8	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35538381"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3586"	"A:0.9085"	"A:0.3934"	NA	"A:0.8433"	"A:0.4125"	"A:0.4836"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"85a30076-280f-11e6-a9ee-1433424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.8	"WXS"	FALSE
"4860"	"ANKH"	56172	"mskcc.org"	"GRCh37"	"5"	14871920	14871921	"+"	"5'Flank"	"INS"	"-"	"-"	"CGC"	"rs548424566"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000284268"	""	8	"."	5	1	"."	0	"ANKH,upstream_gene_variant,,ENST00000284268,NM_054027.4;CTB-40H15.4,upstream_gene_variant,,ENST00000607026,;ANKH,upstream_gene_variant,,ENST00000505140,;ANKH,upstream_gene_variant,,ENST00000513115,;UQCRBP3,downstream_gene_variant,,ENST00000509483,;"	"CGC"	"ENSG00000154122"	"ENST00000284268"	"Transcript"	"upstream_gene_variant"	"-/8203"	"-/1479"	"-/492"	""	""	"rs548424566"	"1"	"33"	-1	"ANKH"	"HGNC"	15492	"protein_coding"	"YES"	"CCDS3885.1"	"ENSP00000284268"	"Q9HCJ1"	"B3KMG4"	"UPI000003F535"	"NM_054027.4"	NA	NA	""	""	""	"CGC:0.4956"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"85d794da-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4861"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	14892756	14892757	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs5866124"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	3	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5866124"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.3397"	"C:0.2383"	"C:0.3559"	NA	"C:0.3552"	"C:0.4901"	"C:0.2945"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"85d85cee-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4862"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	16978673	16978674	"+"	"IGR"	"INS"	"-"	"-"	"TT"	"rs70943827"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	6	10	"."	0	""	"TT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs70943827"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1695"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"85f385f0-280f-11e6-a9ee-1433424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"4863"	"RP11-454P21.1"	646241	"mskcc.org"	"GRCh37"	"5"	17712623	17714661	"+"	"Intron"	"DEL"	"AAATAAAGAGGTTGGATATGGAGCATCATTAAAACTAATCTGCAAATTAACACCTGTATCTCTCATGGTGTTCACTGCAAATAATAATTTCCACTCTAGCTGTTTACAGCCTAAAGGGATTTATTATGGGATATAAGGTTGCTTATGTAATTTCCTGGAGTGTCAGATAACCAAGCGTGTATACTGTGCTATGACATGGGACTCTTCCAGTGGAATCCACTGTTGCCGCTGTACCTGCTTCTTGGCAACCAGAAAACTAGGGACTGAACCTTAAGAAAACCTCTTCTGCCACCACCATCACAGGAGACCACAGAAGAGCTTGAAGCCCATGGTGCCGACTTCCATCTTCCAAGTCTCAGCGGCTATATCTGCTTAGTAGATGTTAGTTCACATGCAAAATCCTTGCTTTAGGGGAGACTATGAAATACAGTTTGAAATTTTCTAGGCTCTAATCTTAGAAAGGCATACTGTGTTGGAATGGTGTTGACCTCAGCATGGTTGTTGAATGGTTATACAATACCATGTGCATGCTGTCTGGGAGAGAGTACGGGCCTCAGGAATTGGCTTTTTCATTCTCTATGATATGTTAGTATGGAAAAGTTTATAAGAATGTTAATATTATTTTGGAAAGGGAAGGGGATGAGGAACCAAGAAAATATATTTTGTATAAAATATGTTTTGAATGGTAATAGGAGAAAAATATGCTAAATTCAATTATGTAACTTGTATATTCAGTCAATTCTATTTTAATGCTAGAAGTATTAAGCAAGAGATTAGAATATAGGCAGTTCTTACTTTGCATAGTTCCAATATGCATGAATTTCAGTTACCATAGTCTAGTTAAGTAGCACTCACAGTATGGCTTAAACTTCAGTTACCACAGTATATTAACTATGCATAACCCCATAAAGTACACACTTCACTGCTAGCTCTTTAGTCCATGAATCACTACACAAATAAAAGATGATCAATGACCAATCACATCACTTCTTTTGAAATCTGCTGGTGATTGGTCACCATGCATCAGTTAAAAGGAGTAAGCATGTGGTTGTGTTGCTTCCTTGTCTTCAGTGATAAACCCACATGACATTTCGCAAAACTAGATAATAGGAAGTGGAAACTGACCAACAAAGATCAAAGTCCAGAGGAGAACAGAAAGTGACAAGGTAAAGAGTAAAGTTTGCATGAAAAGTAAATGGAATTTTAGAAGGTATAGATGTGGCCATCTCCACCGTGTATCCACCACGTGGACACTGCAATCAGGGGAACTTAGTGACCGAGAACTTACCGACATGAATGAGGAGAGTGGTTGTGACAAAAAGGATGATGATGTCCCAGAGGAAGTGATGCTGGCAAAAAACTTTACATTAGAGGAACTCTTGGAGATATTTCATGACATTGGAAGCATAAAGAATAGAGTTCAAAGCCCATCCAAACTTCGAAAAGATTATGATAATTCACCAAGACATAGCAAAGATACTCACTCCATGTTGTCAATTATCACATGAGAAGAAGGCAAGCACTGTTTAAACTACTTTTGGTAAGTTTTTATTTTTTCTTTTCTTAATGGTGGGGTGATTATAAGTAGGTTTTTTATTTCCTTTTAAAATTATGTATATTTAAGTGTACAACATAATCTTTTGATTAAATTATGTATATTTAGGTGTACAACATAATGTTTTGATATACATAGCGAAATGGTTACTACAGTCAAGCAAATCAACATATCATCATCTTACATAGTTACCATTTTTTTGTGTGTGTGATAAAAGCACCTAAAATCTATGCTCTTAGGAAATTTCCAGCTTACAATATTATCTTTATCCTCATGCTGGACATGAGGTATCTGGACTTACTCATCCTACATAACTACAAGTTTGTACCCTTTGACCTGCCACCCCCATCACATCTCCACCAACCACCATTCTACTCTCTATTTCTAGGTATTCAACATTTTTTAGATTCCATATATAAGTTAGATCATGTAGTATTTTTCTTTCTGTGTCTGGCTTATGTCACTTAGAATAATGTCCTCCTCT"	"AAATAAAGAGGTTGGATATGGAGCATCATTAAAACTAATCTGCAAATTAACACCTGTATCTCTCATGGTGTTCACTGCAAATAATAATTTCCACTCTAGCTGTTTACAGCCTAAAGGGATTTATTATGGGATATAAGGTTGCTTATGTAATTTCCTGGAGTGTCAGATAACCAAGCGTGTATACTGTGCTATGACATGGGACTCTTCCAGTGGAATCCACTGTTGCCGCTGTACCTGCTTCTTGGCAACCAGAAAACTAGGGACTGAACCTTAAGAAAACCTCTTCTGCCACCACCATCACAGGAGACCACAGAAGAGCTTGAAGCCCATGGTGCCGACTTCCATCTTCCAAGTCTCAGCGGCTATATCTGCTTAGTAGATGTTAGTTCACATGCAAAATCCTTGCTTTAGGGGAGACTATGAAATACAGTTTGAAATTTTCTAGGCTCTAATCTTAGAAAGGCATACTGTGTTGGAATGGTGTTGACCTCAGCATGGTTGTTGAATGGTTATACAATACCATGTGCATGCTGTCTGGGAGAGAGTACGGGCCTCAGGAATTGGCTTTTTCATTCTCTATGATATGTTAGTATGGAAAAGTTTATAAGAATGTTAATATTATTTTGGAAAGGGAAGGGGATGAGGAACCAAGAAAATATATTTTGTATAAAATATGTTTTGAATGGTAATAGGAGAAAAATATGCTAAATTCAATTATGTAACTTGTATATTCAGTCAATTCTATTTTAATGCTAGAAGTATTAAGCAAGAGATTAGAATATAGGCAGTTCTTACTTTGCATAGTTCCAATATGCATGAATTTCAGTTACCATAGTCTAGTTAAGTAGCACTCACAGTATGGCTTAAACTTCAGTTACCACAGTATATTAACTATGCATAACCCCATAAAGTACACACTTCACTGCTAGCTCTTTAGTCCATGAATCACTACACAAATAAAAGATGATCAATGACCAATCACATCACTTCTTTTGAAATCTGCTGGTGATTGGTCACCATGCATCAGTTAAAAGGAGTAAGCATGTGGTTGTGTTGCTTCCTTGTCTTCAGTGATAAACCCACATGACATTTCGCAAAACTAGATAATAGGAAGTGGAAACTGACCAACAAAGATCAAAGTCCAGAGGAGAACAGAAAGTGACAAGGTAAAGAGTAAAGTTTGCATGAAAAGTAAATGGAATTTTAGAAGGTATAGATGTGGCCATCTCCACCGTGTATCCACCACGTGGACACTGCAATCAGGGGAACTTAGTGACCGAGAACTTACCGACATGAATGAGGAGAGTGGTTGTGACAAAAAGGATGATGATGTCCCAGAGGAAGTGATGCTGGCAAAAAACTTTACATTAGAGGAACTCTTGGAGATATTTCATGACATTGGAAGCATAAAGAATAGAGTTCAAAGCCCATCCAAACTTCGAAAAGATTATGATAATTCACCAAGACATAGCAAAGATACTCACTCCATGTTGTCAATTATCACATGAGAAGAAGGCAAGCACTGTTTAAACTACTTTTGGTAAGTTTTTATTTTTTCTTTTCTTAATGGTGGGGTGATTATAAGTAGGTTTTTTATTTCCTTTTAAAATTATGTATATTTAAGTGTACAACATAATCTTTTGATTAAATTATGTATATTTAGGTGTACAACATAATGTTTTGATATACATAGCGAAATGGTTACTACAGTCAAGCAAATCAACATATCATCATCTTACATAGTTACCATTTTTTTGTGTGTGTGATAAAAGCACCTAAAATCTATGCTCTTAGGAAATTTCCAGCTTACAATATTATCTTTATCCTCATGCTGGACATGAGGTATCTGGACTTACTCATCCTACATAACTACAAGTTTGTACCCTTTGACCTGCCACCCCCATCACATCTCCACCAACCACCATTCTACTCTCTATTTCTAGGTATTCAACATTTTTTAGATTCCATATATAAGTTAGATCATGTAGTATTTTTCTTTCTGTGTCTGGCTTATGTCACTTAGAATAATGTCCTCCTCT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAATAAAGAGGTTGGATATGGAGCATCATTAAAACTAATCTGCAAATTAACACCTGTATCTCTCATGGTGTTCACTGCAAATAATAATTTCCACTCTAGCTGTTTACAGCCTAAAGGGATTTATTATGGGATATAAGGTTGCTTATGTAATTTCCTGGAGTGTCAGATAACCAAGCGTGTATACTGTGCTATGACATGGGACTCTTCCAGTGGAATCCACTGTTGCCGCTGTACCTGCTTCTTGGCAACCAGAAAACTAGGGACTGAACCTTAAGAAAACCTCTTCTGCCACCACCATCACAGGAGACCACAGAAGAGCTTGAAGCCCATGGTGCCGACTTCCATCTTCCAAGTCTCAGCGGCTATATCTGCTTAGTAGATGTTAGTTCACATGCAAAATCCTTGCTTTAGGGGAGACTATGAAATACAGTTTGAAATTTTCTAGGCTCTAATCTTAGAAAGGCATACTGTGTTGGAATGGTGTTGACCTCAGCATGGTTGTTGAATGGTTATACAATACCATGTGCATGCTGTCTGGGAGAGAGTACGGGCCTCAGGAATTGGCTTTTTCATTCTCTATGATATGTTAGTATGGAAAAGTTTATAAGAATGTTAATATTATTTTGGAAAGGGAAGGGGATGAGGAACCAAGAAAATATATTTTGTATAAAATATGTTTTGAATGGTAATAGGAGAAAAATATGCTAAATTCAATTATGTAACTTGTATATTCAGTCAATTCTATTTTAATGCTAGAAGTATTAAGCAAGAGATTAGAATATAGGCAGTTCTTACTTTGCATAGTTCCAATATGCATGAATTTCAGTTACCATAGTCTAGTTAAGTAGCACTCACAGTATGGCTTAAACTTCAGTTACCACAGTATATTAACTATGCATAACCCCATAAAGTACACACTTCACTGCTAGCTCTTTAGTCCATGAATCACTACACAAATAAAAGATGATCAATGACCAATCACATCACTTCTTTTGAAATCTGCTGGTGATTGGTCACCATGCATCAGTTAAAAGGAGTAAGCATGTGGTTGTGTTGCTTCCTTGTCTTCAGTGATAAACCCACATGACATTTCGCAAAACTAGATAATAGGAAGTGGAAACTGACCAACAAAGATCAAAGTCCAGAGGAGAACAGAAAGTGACAAGGTAAAGAGTAAAGTTTGCATGAAAAGTAAATGGAATTTTAGAAGGTATAGATGTGGCCATCTCCACCGTGTATCCACCACGTGGACACTGCAATCAGGGGAACTTAGTGACCGAGAACTTACCGACATGAATGAGGAGAGTGGTTGTGACAAAAAGGATGATGATGTCCCAGAGGAAGTGATGCTGGCAAAAAACTTTACATTAGAGGAACTCTTGGAGATATTTCATGACATTGGAAGCATAAAGAATAGAGTTCAAAGCCCATCCAAACTTCGAAAAGATTATGATAATTCACCAAGACATAGCAAAGATACTCACTCCATGTTGTCAATTATCACATGAGAAGAAGGCAAGCACTGTTTAAACTACTTTTGGTAAGTTTTTATTTTTTCTTTTCTTAATGGTGGGGTGATTATAAGTAGGTTTTTTATTTCCTTTTAAAATTATGTATATTTAAGTGTACAACATAATCTTTTGATTAAATTATGTATATTTAGGTGTACAACATAATGTTTTGATATACATAGCGAAATGGTTACTACAGTCAAGCAAATCAACATATCATCATCTTACATAGTTACCATTTTTTTGTGTGTGTGATAAAAGCACCTAAAATCTATGCTCTTAGGAAATTTCCAGCTTACAATATTATCTTTATCCTCATGCTGGACATGAGGTATCTGGACTTACTCATCCTACATAACTACAAGTTTGTACCCTTTGACCTGCCACCCCCATCACATCTCCACCAACCACCATTCTACTCTCTATTTCTAGGTATTCAACATTTTTTAGATTCCATATATAAGTTAGATCATGTAGTATTTTTCTTTCTGTGTCTGGCTTATGTCACTTAGAATAATGTCCTCCTCT"	"AAATAAAGAGGTTGGATATGGAGCATCATTAAAACTAATCTGCAAATTAACACCTGTATCTCTCATGGTGTTCACTGCAAATAATAATTTCCACTCTAGCTGTTTACAGCCTAAAGGGATTTATTATGGGATATAAGGTTGCTTATGTAATTTCCTGGAGTGTCAGATAACCAAGCGTGTATACTGTGCTATGACATGGGACTCTTCCAGTGGAATCCACTGTTGCCGCTGTACCTGCTTCTTGGCAACCAGAAAACTAGGGACTGAACCTTAAGAAAACCTCTTCTGCCACCACCATCACAGGAGACCACAGAAGAGCTTGAAGCCCATGGTGCCGACTTCCATCTTCCAAGTCTCAGCGGCTATATCTGCTTAGTAGATGTTAGTTCACATGCAAAATCCTTGCTTTAGGGGAGACTATGAAATACAGTTTGAAATTTTCTAGGCTCTAATCTTAGAAAGGCATACTGTGTTGGAATGGTGTTGACCTCAGCATGGTTGTTGAATGGTTATACAATACCATGTGCATGCTGTCTGGGAGAGAGTACGGGCCTCAGGAATTGGCTTTTTCATTCTCTATGATATGTTAGTATGGAAAAGTTTATAAGAATGTTAATATTATTTTGGAAAGGGAAGGGGATGAGGAACCAAGAAAATATATTTTGTATAAAATATGTTTTGAATGGTAATAGGAGAAAAATATGCTAAATTCAATTATGTAACTTGTATATTCAGTCAATTCTATTTTAATGCTAGAAGTATTAAGCAAGAGATTAGAATATAGGCAGTTCTTACTTTGCATAGTTCCAATATGCATGAATTTCAGTTACCATAGTCTAGTTAAGTAGCACTCACAGTATGGCTTAAACTTCAGTTACCACAGTATATTAACTATGCATAACCCCATAAAGTACACACTTCACTGCTAGCTCTTTAGTCCATGAATCACTACACAAATAAAAGATGATCAATGACCAATCACATCACTTCTTTTGAAATCTGCTGGTGATTGGTCACCATGCATCAGTTAAAAGGAGTAAGCATGTGGTTGTGTTGCTTCCTTGTCTTCAGTGATAAACCCACATGACATTTCGCAAAACTAGATAATAGGAAGTGGAAACTGACCAACAAAGATCAAAGTCCAGAGGAGAACAGAAAGTGACAAGGTAAAGAGTAAAGTTTGCATGAAAAGTAAATGGAATTTTAGAAGGTATAGATGTGGCCATCTCCACCGTGTATCCACCACGTGGACACTGCAATCAGGGGAACTTAGTGACCGAGAACTTACCGACATGAATGAGGAGAGTGGTTGTGACAAAAAGGATGATGATGTCCCAGAGGAAGTGATGCTGGCAAAAAACTTTACATTAGAGGAACTCTTGGAGATATTTCATGACATTGGAAGCATAAAGAATAGAGTTCAAAGCCCATCCAAACTTCGAAAAGATTATGATAATTCACCAAGACATAGCAAAGATACTCACTCCATGTTGTCAATTATCACATGAGAAGAAGGCAAGCACTGTTTAAACTACTTTTGGTAAGTTTTTATTTTTTCTTTTCTTAATGGTGGGGTGATTATAAGTAGGTTTTTTATTTCCTTTTAAAATTATGTATATTTAAGTGTACAACATAATCTTTTGATTAAATTATGTATATTTAGGTGTACAACATAATGTTTTGATATACATAGCGAAATGGTTACTACAGTCAAGCAAATCAACATATCATCATCTTACATAGTTACCATTTTTTTGTGTGTGTGATAAAAGCACCTAAAATCTATGCTCTTAGGAAATTTCCAGCTTACAATATTATCTTTATCCTCATGCTGGACATGAGGTATCTGGACTTACTCATCCTACATAACTACAAGTTTGTACCCTTTGACCTGCCACCCCCATCACATCTCCACCAACCACCATTCTACTCTCTATTTCTAGGTATTCAACATTTTTTAGATTCCATATATAAGTTAGATCATGTAGTATTTTTCTTTCTGTGTCTGGCTTATGTCACTTAGAATAATGTCCTCCTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.104+27827_104+29865delAAATAAAGAGGTTGGATATGGAGCATCATTAAAACTAATCTGCAAATTAACACCTGTATCTCTCATGGTGTTCACTGCAAATAATAATTTCCACTCTAGCTGTTTACAGCCTAAAGGGATTTATTATGGGATATAAGGTTGCTTATGTAATTTCCTGGAGTGTCAGATAACCAAGCGTGTATACTGTGCTATGACATGGGACTCTTCCAGTGGAATCCACTGTTGCCGCTGTACCTGCTTCTTGGCAACCAGAAAACTAGGGACTGAACCTTAAGAAAACCTCTTCTGCCACCACCATCACAGGAGACCACAGAAGAGCTTGAAGCCCATGGTGCCGACTTCCATCTTCCAAGTCTCAGCGGCTATATCTGCTTAGTAGATGTTAGTTCACATGCAAAATCCTTGCTTTAGGGGAGACTATGAAATACAGTTTGAAATTTTCTAGGCTCTAATCTTAGAAAGGCATACTGTGTTGGAATGGTGTTGACCTCAGCATGGTTGTTGAATGGTTATACAATACCATGTGCATGCTGTCTGGGAGAGAGTACGGGCCTCAGGAATTGGCTTTTTCATTCTCTATGATATGTTAGTATGGAAAAGTTTATAAGAATGTTAATATTATTTTGGAAAGGGAAGGGGATGAGGAACCAAGAAAATATATTTTGTATAAAATATGTTTTGAATGGTAATAGGAGAAAAATATGCTAAATTCAATTATGTAACTTGTATATTCAGTCAATTCTATTTTAATGCTAGAAGTATTAAGCAAGAGATTAGAATATAGGCAGTTCTTACTTTGCATAGTTCCAATATGCATGAATTTCAGTTACCATAGTCTAGTTAAGTAGCACTCACAGTATGGCTTAAACTTCAGTTACCACAGTATATTAACTATGCATAACCCCATAAAGTACACACTTCACTGCTAGCTCTTTAGTCCATGAATCACTACACAAATAAAAGATGATCAATGACCAATCACATCACTTCTTTTGAAATCTGCTGGTGATTGGTCACCATGCATCAGTTAAAAGGAGTAAGCATGTGGTTGTGTTGCTTCCTTGTCTTCAGTGATAAACCCACATGACATTTCGCAAAACTAGATAATAGGAAGTGGAAACTGACCAACAAAGATCAAAGTCCAGAGGAGAACAGAAAGTGACAAGGTAAAGAGTAAAGTTTGCATGAAAAGTAAATGGAATTTTAGAAGGTATAGATGTGGCCATCTCCACCGTGTATCCACCACGTGGACACTGCAATCAGGGGAACTTAGTGACCGAGAACTTACCGACATGAATGAGGAGAGTGGTTGTGACAAAAAGGATGATGATGTCCCAGAGGAAGTGATGCTGGCAAAAAACTTTACATTAGAGGAACTCTTGGAGATATTTCATGACATTGGAAGCATAAAGAATAGAGTTCAAAGCCCATCCAAACTTCGAAAAGATTATGATAATTCACCAAGACATAGCAAAGATACTCACTCCATGTTGTCAATTATCACATGAGAAGAAGGCAAGCACTGTTTAAACTACTTTTGGTAAGTTTTTATTTTTTCTTTTCTTAATGGTGGGGTGATTATAAGTAGGTTTTTTATTTCCTTTTAAAATTATGTATATTTAAGTGTACAACATAATCTTTTGATTAAATTATGTATATTTAGGTGTACAACATAATGTTTTGATATACATAGCGAAATGGTTACTACAGTCAAGCAAATCAACATATCATCATCTTACATAGTTACCATTTTTTTGTGTGTGTGATAAAAGCACCTAAAATCTATGCTCTTAGGAAATTTCCAGCTTACAATATTATCTTTATCCTCATGCTGGACATGAGGTATCTGGACTTACTCATCCTACATAACTACAAGTTTGTACCCTTTGACCTGCCACCCCCATCACATCTCCACCAACCACCATTCTACTCTCTATTTCTAGGTATTCAACATTTTTTAGATTCCATATATAAGTTAGATCATGTAGTATTTTTCTTTCTGTGTCTGGCTTATGTCACTTAGAATAATGTCCTCCTCT"	""	""	"ENST00000511596"	""	7	"."	4	1	"."	0	"RP11-454P21.1,intron_variant,,ENST00000511596,;"	"-"	"ENSG00000249937"	"ENST00000511596"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/578"	""	""	""	""	""	"1"	NA	1	"RP11-454P21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAATAAAGAGGTTGGATATGGAGCATCATTAAAACTAATCTGCAAATTAACACCTGTATCTCTCATGGTGTTCACTGCAAATAATAATTTCCACTCTAGCTGTTTACAGCCTAAAGGGATTTATTATGGGATATAAGGTTGCTTATGTAATTTCCTGGAGTGTCAGATAACCAAGCGTGTATACTGTGCTATGACATGGGACTCTTCCAGTGGAATCCACTGTTGCCGCTGTACCTGCTTCTTGGCAACCAGAAAACTAGGGACTGAACCTTAAGAAAACCTCTTCTGCCACCACCATCACAGGAGACCACAGAAGAGCTTGAAGCCCATGGTGCCGACTTCCATCTTCCAAGTCTCAGCGGCTATATCTGCTTAGTAGATGTTAGTTCACATGCAAAATCCTTGCTTTAGGGGAGACTATGAAATACAGTTTGAAATTTTCTAGGCTCTAATCTTAGAAAGGCATACTGTGTTGGAATGGTGTTGACCTCAGCATGGTTGTTGAATGGTTATACAATACCATGTGCATGCTGTCTGGGAGAGAGTACGGGCCTCAGGAATTGGCTTTTTCATTCTCTATGATATGTTAGTATGGAAAAGTTTATAAGAATGTTAATATTATTTTGGAAAGGGAAGGGGATGAGGAACCAAGAAAATATATTTTGTATAAAATATGTTTTGAATGGTAATAGGAGAAAAATATGCTAAATTCAATTATGTAACTTGTATATTCAGTCAATTCTATTTTAATGCTAGAAGTATTAAGCAAGAGATTAGAATATAGGCAGTTCTTACTTTGCATAGTTCCAATATGCATGAATTTCAGTTACCATAGTCTAGTTAAGTAGCACTCACAGTATGGCTTAAACTTCAGTTACCACAGTATATTAACTATGCATAACCCCATAAAGTACACACTTCACTGCTAGCTCTTTAGTCCATGAATCACTACACAAATAAAAGATGATCAATGACCAATCACATCACTTCTTTTGAAATCTGCTGGTGATTGGTCACCATGCATCAGTTAAAAGGAGTAAGCATGTGGTTGTGTTGCTTCCTTGTCTTCAGTGATAAACCCACATGACATTTCGCAAAACTAGATAATAGGAAGTGGAAACTGACCAACAAAGATCAAAGTCCAGAGGAGAACAGAAAGTGACAAGGTAAAGAGTAAAGTTTGCATGAAAAGTAAATGGAATTTTAGAAGGTATAGATGTGGCCATCTCCACCGTGTATCCACCACGTGGACACTGCAATCAGGGGAACTTAGTGACCGAGAACTTACCGACATGAATGAGGAGAGTGGTTGTGACAAAAAGGATGATGATGTCCCAGAGGAAGTGATGCTGGCAAAAAACTTTACATTAGAGGAACTCTTGGAGATATTTCATGACATTGGAAGCATAAAGAATAGAGTTCAAAGCCCATCCAAACTTCGAAAAGATTATGATAATTCACCAAGACATAGCAAAGATACTCACTCCATGTTGTCAATTATCACATGAGAAGAAGGCAAGCACTGTTTAAACTACTTTTGGTAAGTTTTTATTTTTTCTTTTCTTAATGGTGGGGTGATTATAAGTAGGTTTTTTATTTCCTTTTAAAATTATGTATATTTAAGTGTACAACATAATCTTTTGATTAAATTATGTATATTTAGGTGTACAACATAATGTTTTGATATACATAGCGAAATGGTTACTACAGTCAAGCAAATCAACATATCATCATCTTACATAGTTACCATTTTTTTGTGTGTGTGATAAAAGCACCTAAAATCTATGCTCTTAGGAAATTTCCAGCTTACAATATTATCTTTATCCTCATGCTGGACATGAGGTATCTGGACTTACTCATCCTACATAACTACAAGTTTGTACCCTTTGACCTGCCACCCCCATCACATCTCCACCAACCACCATTCTACTCTCTATTTCTAGGTATTCAACATTTTTTAGATTCCATATATAAGTTAGATCATGTAGTATTTTTCTTTCTGTGTCTGGCTTATGTCACTTAGAATAATGTCCTCCTCTG"	"67a45930-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4864"	"CDH18"	1016	"mskcc.org"	"GRCh37"	"5"	19593816	19593817	"+"	"Intron"	"INS"	"-"	"-"	"CTCCTCCTCCTCCTTCTTCCTCTT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.812-2464_812-2463insAAGAGGAAGAAGGAGGAGGAGGAG"	""	""	"ENST00000507958"	""	12	"."	3	7	"."	0	"CDH18,intron_variant,,ENST00000507958,;CDH18,intron_variant,,ENST00000382275,NM_004934.3,NM_001167667.1;CDH18,intron_variant,,ENST00000274170,;CDH18,intron_variant,,ENST00000506372,;CDH18,intron_variant,,ENST00000502796,;CDH18,intron_variant,,ENST00000511273,;CDH18,intron_variant,,ENST00000515257,;"	"CTCCTCCTCCTCCTTCTTCCTCTT"	"ENSG00000145526"	"ENST00000507958"	"Transcript"	"intron_variant"	"-/3542"	"-/2373"	"-/790"	""	""	""	"1"	NA	-1	"CDH18"	"HGNC"	1757	"protein_coding"	"YES"	"CCDS3889.1"	"ENSP00000425093"	"Q13634"	""	"UPI0000126DBD"	""	NA	NA	""	"8/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"86063358-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4865"	"GUSBP1"	728411	"mskcc.org"	"GRCh37"	"5"	21485064	21485065	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs542665302"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.180-16729dupA"	""	""	"ENST00000607545"	""	35	"."	4	7	"."	0	"GUSBP1,intron_variant,,ENST00000607545,;GUSBP1,intron_variant,,ENST00000508260,;GUSBP1,intron_variant,,ENST00000449061,;GUSBP1,intron_variant,,ENST00000328346,;RP11-823P9.3,upstream_gene_variant,,ENST00000502532,;"	"A"	"ENSG00000183666"	"ENST00000607545"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4157"	""	""	""	""	"rs542665302"	"1"	NA	1	"GUSBP1"	"HGNC"	13670	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"86157822-280f-11e6-a9ee-1433424a729f"	"114"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WXS"	FALSE
"4866"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	30044678	30044679	"+"	"IGR"	"INS"	"-"	"-"	"AAG"	"rs10666175"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	2	"."	0	""	"AAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10666175"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4894"	"AAG:0.3661"	"AAG:0.4914"	NA	"AAG:0.7768"	"AAG:0.3549"	"AAG:0.6053"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"86524e5a-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4867"	"RP11-152K4.2"	0	"mskcc.org"	"GRCh37"	"5"	31174786	31174786	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34980105"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.126-59098delA"	""	""	"ENST00000523584"	""	6	"."	4	1	"."	0	"RP11-152K4.2,intron_variant,,ENST00000523584,;"	"-"	"ENSG00000254138"	"ENST00000523584"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/381"	""	""	""	""	"rs34980105"	"1"	NA	-1	"RP11-152K4.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	"T:0.1757"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"6837c698-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4868"	"DROSHA"	29102	"mskcc.org"	"GRCh37"	"5"	31490005	31490023	"+"	"Intron"	"DEL"	"CGCGGAGTTTCGCTCTTGT"	"CGCGGAGTTTCGCTCTTGT"	"-"	"rs72359625"	NA	"JHCCPT5"	"JHCCPN5"	"CGCGGAGTTTCGCTCTTGT"	"CGCGGAGTTTCGCTCTTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1842+3291_1842+3309delACAAGAGCGAAACTCCGCG"	""	""	"ENST00000344624"	""	6	"."	4	1	"."	0	"DROSHA,intron_variant,,ENST00000511367,NM_013235.4;DROSHA,intron_variant,,ENST00000344624,;DROSHA,intron_variant,,ENST00000442743,;DROSHA,intron_variant,,ENST00000513349,NM_001100412.1;DROSHA,downstream_gene_variant,,ENST00000512076,;DROSHA,upstream_gene_variant,,ENST00000510375,;DROSHA,upstream_gene_variant,,ENST00000512124,;DROSHA,upstream_gene_variant,,ENST00000512885,;"	"-"	"ENSG00000113360"	"ENST00000344624"	"Transcript"	"intron_variant"	"-/5102"	"-/4125"	"-/1374"	""	""	"rs72359625"	"1"	NA	-1	"DROSHA"	"HGNC"	17904	"protein_coding"	""	"CCDS47195.1"	"ENSP00000339845"	"Q9NRR4"	"E5RHD1"	"UPI0000134351"	""	NA	NA	""	"10/32"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACGCGGAGTTTCGCTCTTGTC"	"6849094e-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4869"	"TARS"	6897	"mskcc.org"	"GRCh37"	"5"	33466738	33466739	"+"	"Intron"	"INS"	"-"	"-"	"AAG"	"rs78454230"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2008-235_2008-233dupGAA"	""	""	"ENST00000455217"	""	10	"."	5	1	"."	0	"TARS,intron_variant,,ENST00000265112,NM_152295.4;TARS,intron_variant,,ENST00000502553,NM_001258437.1;TARS,intron_variant,,ENST00000455217,NM_001258438.1;TARS,intron_variant,,ENST00000414361,;TARS,intron_variant,,ENST00000541634,;TARS,downstream_gene_variant,,ENST00000509410,;TARS,intron_variant,,ENST00000508361,;TARS,intron_variant,,ENST00000507716,;TARS,intron_variant,,ENST00000509731,;TARS,upstream_gene_variant,,ENST00000503422,;"	"AAG"	"ENSG00000113407"	"ENST00000455217"	"Transcript"	"intron_variant"	"-/2523"	"-/2271"	"-/756"	""	""	"rs78454230"	"1"	NA	1	"TARS"	"HGNC"	11572	"protein_coding"	"YES"	"CCDS58943.1"	"ENSP00000387710"	"P26639"	"D6RBR8"	"UPI00017A6D60"	"NM_001258438.1"	NA	NA	""	"18/19"	""	"-:0.2179"	"AAG:0.8805"	"AAG:0.6412"	NA	"AAG:0.87"	"AAG:0.6551"	"AAG:0.7894"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"86ad382e-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4870"	"SLC45A2"	51151	"mskcc.org"	"GRCh37"	"5"	33969170	33969171	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.563-5057_563-5050dupCACACACA"	""	""	"ENST00000296589"	""	58	"."	3	36	"."	0	"SLC45A2,intron_variant,,ENST00000382102,NM_001012509.2;SLC45A2,intron_variant,,ENST00000296589,NM_016180.3;SLC45A2,intron_variant,,ENST00000342059,;SLC45A2,intron_variant,,ENST00000509381,;SLC45A2,intron_variant,,ENST00000345083,;SLC45A2,intron_variant,,ENST00000510600,;SLC45A2,intron_variant,,ENST00000505056,;RP11-1084J3.1,upstream_gene_variant,,ENST00000504847,;"	"TGTGTGTG"	"ENSG00000164175"	"ENST00000296589"	"Transcript"	"intron_variant"	"-/1772"	"-/1593"	"-/530"	""	""	""	"1"	NA	-1	"SLC45A2"	"HGNC"	16472	"protein_coding"	"YES"	"CCDS3901.1"	"ENSP00000296589"	"Q9UMX9"	""	"UPI00001AEC19"	"NM_016180.3"	NA	NA	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"86bc7a6e-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0517241379310345	"WXS"	FALSE
"4871"	"RAI14"	26064	"mskcc.org"	"GRCh37"	"5"	34803676	34803676	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs66603667"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.266-141delC"	""	""	"ENST00000515799"	""	55	"."	11	9	"."	0	"RAI14,intron_variant,,ENST00000265109,NM_015577.2,NM_001145522.1;RAI14,intron_variant,,ENST00000428746,NM_001145520.1;RAI14,intron_variant,,ENST00000397449,;RAI14,intron_variant,,ENST00000515799,NM_001145525.1;RAI14,intron_variant,,ENST00000503673,NM_001145521.1;RAI14,intron_variant,,ENST00000506376,NM_001145523.1;RAI14,intron_variant,,ENST00000512629,;RAI14,intron_variant,,ENST00000514527,;RAI14,intron_variant,,ENST00000504052,;RAI14,intron_variant,,ENST00000508315,;RAI14,intron_variant,,ENST00000514036,;RAI14,intron_variant,,ENST00000512625,;RAI14,intron_variant,,ENST00000513974,;RAI14,intron_variant,,ENST00000512305,;RAI14,intron_variant,,ENST00000514873,;RAI14,intron_variant,,ENST00000507276,;RAI14,intron_variant,,ENST00000509247,;RAI14,intron_variant,,ENST00000502736,;RAI14,intron_variant,,ENST00000508777,;RAI14,intron_variant,,ENST00000503222,;RAI14,intron_variant,,ENST00000510319,;"	"-"	"ENSG00000039560"	"ENST00000515799"	"Transcript"	"intron_variant"	"-/3486"	"-/2952"	"-/983"	""	""	"rs66603667"	"1"	NA	1	"RAI14"	"HGNC"	14873	"protein_coding"	"YES"	"CCDS54839.1"	"ENSP00000427123"	"Q9P0K7"	"B3KMZ9"	"UPI00001B296B"	"NM_001145525.1"	NA	NA	""	"6/19"	""	"-:0.4020"	"-:0.2564"	"-:0.5303"	NA	"-:0.379"	"-:0.4602"	"-:0.4714"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACA"	"69456aa4-280f-11e6-a9ee-1433424a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"4872"	"SPEF2"	79925	"mskcc.org"	"GRCh37"	"5"	35722558	35722558	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34105107"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2915-5211delT"	""	""	"ENST00000356031"	""	16	"."	4	3	"."	0	"SPEF2,intron_variant,,ENST00000440995,;SPEF2,intron_variant,,ENST00000356031,NM_024867.3;CTD-2113L7.1,intron_variant,,ENST00000510433,;"	"-"	"ENSG00000152582"	"ENST00000356031"	"Transcript"	"intron_variant"	"-/5681"	"-/5469"	"-/1822"	""	""	"rs34105107"	"1"	NA	1	"SPEF2"	"HGNC"	26293	"protein_coding"	"YES"	"CCDS43309.1"	"ENSP00000348314"	"Q9C093"	""	"UPI0001505B9F"	"NM_024867.3"	NA	NA	""	"20/36"	""	"T:0.2871"	"-:0.5961"	"-:0.7378"	NA	"-:0.8016"	"-:0.8052"	"-:0.6667"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTT"	"696b4fd0-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4873"	"UGT3A1"	133688	"mskcc.org"	"GRCh37"	"5"	35976935	35976936	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs35523827"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.197-8702_197-8701dupTT"	""	""	"ENST00000274278"	""	9	"."	4	2	"."	0	"UGT3A1,intron_variant,,ENST00000274278,NM_152404.3;UGT3A1,intron_variant,,ENST00000333811,NM_001171873.1;UGT3A1,intron_variant,,ENST00000503189,;UGT3A1,intron_variant,,ENST00000507113,;UGT3A1,intron_variant,,ENST00000513233,;UGT3A1,intron_variant,,ENST00000515801,;"	"AA"	"ENSG00000145626"	"ENST00000274278"	"Transcript"	"intron_variant"	"-/5122"	"-/1572"	"-/523"	""	""	"rs35523827"	"1"	NA	-1	"UGT3A1"	"HGNC"	26625	"protein_coding"	"YES"	"CCDS3913.1"	"ENSP00000274278"	"Q6NUS8"	"A8K444"	"UPI000003C38B"	"NM_152404.3"	NA	NA	""	"2/6"	""	"-:0.0270"	"AA:0.9992"	"AA:0.9885"	NA	"AA:0.9087"	"AA:0.9742"	"AA:0.9918"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"8719c8b8-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4874"	"SLC1A3"	6507	"mskcc.org"	"GRCh37"	"5"	36612709	36612709	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs56307521"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.181+4003delT"	""	""	"ENST00000265113"	""	35	"."	4	3	"."	0	"SLC1A3,intron_variant,,ENST00000265113,NM_004172.4;SLC1A3,intron_variant,,ENST00000381918,NM_001166695.1;SLC1A3,intron_variant,,ENST00000513903,;SLC1A3,intron_variant,,ENST00000513646,;SLC1A3,intron_variant,,ENST00000416645,;SLC1A3,intron_variant,,ENST00000505202,;SLC1A3,intron_variant,,ENST00000506725,;SLC1A3,intron_variant,,ENST00000502864,;SLC1A3,upstream_gene_variant,,ENST00000509272,;SLC1A3,upstream_gene_variant,,ENST00000514563,;SLC1A3,downstream_gene_variant,,ENST00000512374,;SLC1A3,downstream_gene_variant,,ENST00000504121,;"	"-"	"ENSG00000079215"	"ENST00000265113"	"Transcript"	"intron_variant"	"-/4170"	"-/1629"	"-/542"	""	""	"rs56307521"	"1"	NA	1	"SLC1A3"	"HGNC"	10941	"protein_coding"	"YES"	"CCDS3919.1"	"ENSP00000265113"	"P43003"	"E7EUV6,E7EUS7"	"UPI0000129B0F"	"NM_004172.4"	NA	NA	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AATA"	"698bc12a-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WXS"	FALSE
"4875"	"C5orf42"	65250	"mskcc.org"	"GRCh37"	"5"	37242908	37242909	"+"	"Intron"	"INS"	"-"	"-"	"GC"	"rs34793055"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.677+205_677+206dupGC"	""	""	"ENST00000425232"	""	37	"."	5	6	"."	0	"C5orf42,intron_variant,,ENST00000274258,;C5orf42,intron_variant,,ENST00000425232,NM_023073.3;C5orf42,intron_variant,,ENST00000508244,;RN7SL37P,downstream_gene_variant,,ENST00000490461,;"	"GC"	"ENSG00000197603"	"ENST00000425232"	"Transcript"	"intron_variant"	"-/11199"	"-/9594"	"-/3197"	""	""	"rs34793055"	"1"	NA	-1	"C5orf42"	"HGNC"	25801	"protein_coding"	"YES"	"CCDS34146.2"	"ENSP00000389014"	"Q9H799"	""	"UPI0001AAB3EA"	"NM_023073.3"	NA	NA	""	"6/51"	""	"GC:0.2049"	"GC:0.034"	"GC:0.1916"	NA	"GC:0.3304"	"GC:0.2326"	"GC:0.2873"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"873ea8d6-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135135135135135	"WXS"	FALSE
"4876"	"OSMR"	9180	"mskcc.org"	"GRCh37"	"5"	38924979	38924980	"+"	"Intron"	"INS"	"-"	"-"	"TTT"	"rs145086382"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2044+290_2044+292dupTTT"	""	""	"ENST00000274276"	""	10	"."	3	3	"."	0	"OSMR,intron_variant,,ENST00000274276,NM_003999.2;"	"TTT"	"ENSG00000145623"	"ENST00000274276"	"Transcript"	"intron_variant"	"-/5539"	"-/2940"	"-/979"	""	""	"rs145086382"	"1"	NA	1	"OSMR"	"HGNC"	8507	"protein_coding"	"YES"	"CCDS3928.1"	"ENSP00000274276"	"Q99650"	""	"UPI000004CAC3"	"NM_003999.2"	NA	NA	""	"14/17"	""	"TTT:0.2754"	"TTT:0.3139"	"TTT:0.1369"	NA	"TTT:0.3036"	"TTT:0.2893"	"TTT:0.2781"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"875dfc5e-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"4877"	"C7"	730	"mskcc.org"	"GRCh37"	"5"	40957875	40957876	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs70988821"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1261-260_1261-259insG"	""	""	"ENST00000313164"	""	25	"."	6	7	"."	0	"C7,intron_variant,,ENST00000313164,NM_000587.2;"	"G"	"ENSG00000112936"	"ENST00000313164"	"Transcript"	"intron_variant"	"-/4257"	"-/2532"	"-/843"	""	""	"rs70988821"	"1"	NA	1	"C7"	"HGNC"	1346	"protein_coding"	"YES"	"CCDS47201.1"	"ENSP00000322061"	"P10643"	""	"UPI000020CA08"	"NM_000587.2"	NA	NA	""	"10/17"	""	"-:0.3916"	"G:0.2375"	"G:0.7334"	NA	"G:0.7262"	"G:0.7594"	"G:0.7444"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"87b33e26-280f-11e6-a9ee-1433424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WXS"	FALSE
"4878"	"MROH2B"	133558	"mskcc.org"	"GRCh37"	"5"	41052372	41052373	"+"	"Intron"	"DEL"	"AA"	"AA"	"-"	"rs5867536"	NA	"JHCCPT5"	"JHCCPN5"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1230+194_1230+195delTT"	""	""	"ENST00000399564"	""	24	"."	7	4	"."	0	"MROH2B,intron_variant,,ENST00000399564,NM_173489.4;MROH2B,intron_variant,,ENST00000506092,;MROH2B,intron_variant,,ENST00000515297,;MROH2B,intron_variant,,ENST00000508575,;MROH2B,upstream_gene_variant,,ENST00000503890,;"	"-"	"ENSG00000171495"	"ENST00000399564"	"Transcript"	"intron_variant"	"-/5239"	"-/4758"	"-/1585"	""	""	"rs5867536"	"1"	NA	-1	"MROH2B"	"HGNC"	26857	"protein_coding"	"YES"	"CCDS47202.1"	"ENSP00000382476"	"Q7Z745"	"F5GZ06"	"UPI000020CA04"	"NM_173489.4"	NA	NA	""	"12/41"	""	"-:0.2360"	"-:0.1611"	"-:0.3329"	NA	"-:0.12"	"-:0.3787"	"-:0.2413"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAAG"	"6a90999c-280f-11e6-a9ee-1433424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WXS"	FALSE
"4879"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	42202799	42202800	"+"	"IGR"	"DEL"	"TT"	"TT"	"-"	"rs139238434"	NA	"JHCCPT5"	"JHCCPN5"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	5	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139238434"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TT:0.3992"	"-:0.2716"	"-:0.536"	NA	"-:0.8581"	"-:0.6332"	"-:0.7935"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATTT"	"6aa391e6-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"4880"	"CCDC152"	100129792	"mskcc.org"	"GRCh37"	"5"	42779686	42779687	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11427149"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.327+71dupA"	""	""	"ENST00000361970"	""	218	"."	43	24	"."	2	"CCDC152,intron_variant,,ENST00000361970,NM_001134848.1;CCDC152,intron_variant,,ENST00000388827,;"	"A"	"ENSG00000198865"	"ENST00000361970"	"Transcript"	"intron_variant"	"-/3431"	"-/765"	"-/254"	""	""	"rs11427149"	"1"	NA	1	"CCDC152"	"HGNC"	34438	"protein_coding"	"YES"	"CCDS47203.1"	"ENSP00000354888"	"Q4G0S7"	""	"UPI0000160C50"	"NM_001134848.1"	NA	NA	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"87df227a-280f-11e6-a9ee-1433424a729f"	"2700"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197247706422018	"WXS"	FALSE
"4881"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	44688589	44688625	"+"	"IGR"	"DEL"	"AGAAAGAAAGAAGAGAAAGAAAGAAAGAAAGAAAGAA"	"AGAAAGAAAGAAGAGAAAGAAAGAAAGAAAGAAAGAA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AGAAAGAAAGAAGAGAAAGAAAGAAAGAAAGAAAGAA"	"AGAAAGAAAGAAGAGAAAGAAAGAAAGAAAGAAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	14	"."	3	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGAAAGAAAGAAGAGAAAGAAAGAAAGAAAGAAAGAAA"	"6ac175a8-280f-11e6-a9ee-1433424a729f"	"54"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"4882"	"HCN1"	348980	"mskcc.org"	"GRCh37"	"5"	45562623	45562624	"+"	"Intron"	"INS"	"-"	"AAACAAACAAA"	"AAACAAACAAA"	"rs11283021"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.849+82663_849+82664insTTTGTTTGTTT"	""	""	"ENST00000303230"	""	7	"."	5	1	"."	0	"HCN1,intron_variant,,ENST00000303230,NM_021072.3;RP11-484L7.1,downstream_gene_variant,,ENST00000512159,;"	"AAACAAACAAA"	"ENSG00000164588"	"ENST00000303230"	"Transcript"	"intron_variant"	"-/5405"	"-/2673"	"-/890"	""	""	"rs11283021"	"1"	NA	-1	"HCN1"	"HGNC"	4845	"protein_coding"	"YES"	"CCDS3952.1"	"ENSP00000307342"	"O60741"	""	"UPI00001AED69"	"NM_021072.3"	NA	NA	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"8808b27a-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4883"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	49647260	49647283	"+"	"IGR"	"DEL"	"AGGAAGGAAGGAAGGAAGGAAGGA"	"AGGAAGGAAGGAAGGAAGGAAGGA"	"-"	"rs141255592"	NA	"JHCCPT5"	"JHCCPN5"	"AGGAAGGAAGGAAGGAAGGAAGGA"	"AGGAAGGAAGGAAGGAAGGAAGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141255592"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4910"	"-:0.6021"	"-:0.402"	NA	"-:0.4831"	"-:0.4324"	"-:0.4724"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGGAAGGAAGGAAGGAAGGAAGGAA"	"6ac9d3d8-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4884"	"EMB"	133418	"mskcc.org"	"GRCh37"	"5"	49707502	49707511	"+"	"Intron"	"DEL"	"ACCCTATAAC"	"-"	"-"	"rs113800612"	NA	"JHCCPT5"	"JHCCPN5"	"ACCCTATAAC"	"ACCCTATAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.197-294_197-285delGTTATAGGGT"	""	""	"ENST00000303221"	""	6	"."	5	4	"."	0	"EMB,intron_variant,,ENST00000303221,NM_198449.2;EMB,intron_variant,,ENST00000508934,;EMB,intron_variant,,ENST00000514111,;EMB,intron_variant,,ENST00000506190,;EMB,non_coding_transcript_exon_variant,,ENST00000505896,;"	"-"	"ENSG00000170571"	"ENST00000303221"	"Transcript"	"intron_variant"	"-/4281"	"-/984"	"-/327"	""	""	"rs113800612"	"1"	NA	-1	"EMB"	"HGNC"	30465	"protein_coding"	"YES"	"CCDS3953.1"	"ENSP00000302289"	"Q6PCB8"	"B7Z902"	"UPI0000160A6D"	"NM_198449.2"	NA	NA	""	"2/8"	""	"-:0.4095"	"-:0.5045"	"-:0.3228"	NA	"-:0.4732"	"-:0.33"	"-:0.3589"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTACCCTATAACA"	"6ad10676-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4885"	"ITGA1"	3672	"mskcc.org"	"GRCh37"	"5"	52161834	52161835	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTC"	"rs143046695"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.624+203_624+209dupTCTTTTT"	""	""	"ENST00000282588"	""	36	"."	7	9	"."	0	"ITGA1,intron_variant,,ENST00000282588,NM_181501.1;ITGA1,intron_variant,,ENST00000513737,;ITGA1,intron_variant,,ENST00000514262,;ITGA1,intron_variant,,ENST00000509049,;"	"TTTTTTC"	"ENSG00000213949"	"ENST00000282588"	"Transcript"	"intron_variant"	"-/10757"	"-/3540"	"-/1179"	""	""	"rs143046695"	"1"	NA	1	"ITGA1"	"HGNC"	6134	"protein_coding"	"YES"	"CCDS3955.1"	"ENSP00000282588"	"P56199"	""	"UPI00001A95E8"	"NM_181501.1"	NA	NA	""	"6/28"	""	"TTTTTTC:0.3007"	"TTTTTTC:0.3616"	"TTTTTTC:0.1902"	NA	"TTTTTTC:0.2341"	"TTTTTTC:0.2485"	"TTTTTTC:0.4192"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"26"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"88317962-280f-11e6-a9ee-1433424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194444444444444	"WXS"	FALSE
"4886"	"MOCS2"	4338	"mskcc.org"	"GRCh37"	"5"	52394019	52394019	"+"	"3'UTR"	"DEL"	"C"	"C"	"-"	"rs3839261"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*413delG"	""	""	"ENST00000396954"	"7/7"	15	"."	6	4	"."	0	"MOCS2,3_prime_UTR_variant,,ENST00000361377,;MOCS2,3_prime_UTR_variant,,ENST00000396954,NM_004531.4;MOCS2,3_prime_UTR_variant,,ENST00000450852,NM_176806.3;MOCS2,3_prime_UTR_variant,,ENST00000510818,;MOCS2,3_prime_UTR_variant,,ENST00000508922,;ITGA2,downstream_gene_variant,,ENST00000296585,NM_002203.3;MOCS2,downstream_gene_variant,,ENST00000582677,;MOCS2,downstream_gene_variant,,ENST00000584946,;MOCS2,downstream_gene_variant,,ENST00000527216,;MOCS2,non_coding_transcript_exon_variant,,ENST00000502402,;MOCS2,downstream_gene_variant,,ENST00000514553,;"	"-"	"ENSG00000164172"	"ENST00000396954"	"Transcript"	"3_prime_UTR_variant"	"1658/1785"	"-/567"	"-/188"	""	""	"rs3839261"	"1"	NA	-1	"MOCS2"	"HGNC"	7193	"protein_coding"	"YES"	"CCDS3958.1"	"ENSP00000380157"	"O96007"	""	"UPI000000DB29"	"NM_004531.4"	NA	NA	"7/7"	""	""	"-:0.1520"	"-:0.2239"	"-:0.1254"	NA	"-:0.124"	"-:0.1312"	"-:0.1237"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGCA"	"6b10a06a-280f-11e6-a9ee-1433424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4887"	"DHX29"	54505	"mskcc.org"	"GRCh37"	"5"	54563776	54563778	"+"	"Intron"	"DEL"	"TTA"	"TTA"	"-"	"rs143912964"	NA	"JHCCPT5"	"JHCCPN5"	"TTA"	"TTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3295-128_3295-126delTAA"	""	""	"ENST00000251636"	""	49	"."	10	13	"."	0	"DHX29,intron_variant,,ENST00000251636,NM_019030.2;RP11-506H20.1,intron_variant,,ENST00000506435,;DHX29,intron_variant,,ENST00000504778,;DHX29,downstream_gene_variant,,ENST00000513447,;"	"-"	"ENSG00000067248"	"ENST00000251636"	"Transcript"	"intron_variant"	"-/4502"	"-/4110"	"-/1369"	""	""	"rs143912964"	"1"	NA	-1	"DHX29"	"HGNC"	15815	"protein_coding"	"YES"	"CCDS34158.1"	"ENSP00000251636"	"Q7Z478"	""	"UPI00001AE72C"	"NM_019030.2"	NA	NA	""	"21/26"	""	"TTA:0.4746"	"-:0.3623"	"-:0.5576"	NA	"-:0.498"	"-:0.6501"	"-:0.6227"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTAT"	"6b5f990e-280f-11e6-a9ee-1433424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204081632653061	"WXS"	FALSE
"4888"	"PPAP2A"	8611	"mskcc.org"	"GRCh37"	"5"	54808553	54808554	"+"	"Intron"	"INS"	"-"	"-"	"ACACACACACAT"	"rs71600886"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.59-21612_59-21611insATGTGTGTGTGT"	""	""	"ENST00000264775"	""	6	"."	3	2	"."	0	"PPAP2A,intron_variant,,ENST00000307259,NM_003711.3;PPAP2A,intron_variant,,ENST00000264775,NM_176895.2;MIR5687,upstream_gene_variant,,ENST00000581367,;PPAP2A,intron_variant,,ENST00000515132,;PPAP2A,intron_variant,,ENST00000509667,;"	"ACACACACACAT"	"ENSG00000067113"	"ENST00000264775"	"Transcript"	"intron_variant"	"-/1550"	"-/858"	"-/285"	""	""	"rs71600886"	"1"	NA	-1	"PPAP2A"	"HGNC"	9228	"protein_coding"	"YES"	"CCDS34160.1"	"ENSP00000264775"	"O14494"	""	"UPI0000150635"	"NM_176895.2"	NA	NA	""	"1/5"	""	"-:0.2602"	"ACACACACACAT:0.5575"	"ACACACACACAT:0.8401"	NA	"ACACACACACAT:0.6687"	"ACACACACACAT:0.8688"	"ACACACACACAT:0.8558"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"887b537a-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4889"	"SLC38A9"	153129	"mskcc.org"	"GRCh37"	"5"	54990317	54990318	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs35456274"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.113+3356_113+3357delCA"	""	""	"ENST00000396865"	""	42	"."	9	5	"."	0	"SLC38A9,intron_variant,,ENST00000539768,;SLC38A9,intron_variant,,ENST00000396865,NM_173514.3;SLC38A9,intron_variant,,ENST00000318672,;SLC38A9,intron_variant,,ENST00000416547,;SLC38A9,intron_variant,,ENST00000511233,;SLC38A9,intron_variant,,ENST00000512208,;SLC38A9,intron_variant,,ENST00000513993,;SLC38A9,intron_variant,,ENST00000503891,;SLC38A9,upstream_gene_variant,,ENST00000515629,NM_001258286.1;SLC38A9,upstream_gene_variant,,ENST00000512595,NM_001258287.1;SLC38A9,upstream_gene_variant,,ENST00000503817,;SLC38A9,upstream_gene_variant,,ENST00000502247,;SLC38A9,downstream_gene_variant,,ENST00000513275,;SLC38A9,downstream_gene_variant,,ENST00000507109,;SLC38A9,downstream_gene_variant,,ENST00000506624,;SLC38A9,downstream_gene_variant,,ENST00000504880,;SLC38A9,downstream_gene_variant,,ENST00000502416,;SLC38A9,intron_variant,,ENST00000508124,NM_001282429.1;SLC38A9,intron_variant,,ENST00000505563,;SLC38A9,intron_variant,,ENST00000514806,;SLC38A9,upstream_gene_variant,,ENST00000505708,;"	"-"	"ENSG00000177058"	"ENST00000396865"	"Transcript"	"intron_variant"	"-/2927"	"-/1686"	"-/561"	""	""	"rs35456274"	"1"	NA	-1	"SLC38A9"	"HGNC"	26907	"protein_coding"	"YES"	"CCDS3968.1"	"ENSP00000380074"	"Q8NBW4"	"E7ESU6,D6RIW7,D6RHW0,D6RG31,D6RER8,D6RDH2,D6R9X0,B3KVK8"	"UPI00001403C2"	"NM_173514.3"	NA	NA	""	"3/15"	""	"TG:0.4375"	"-:0.441"	"-:0.5865"	NA	"-:0.4623"	"-:0.663"	"-:0.7096"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"6b784486-280f-11e6-a9ee-1433424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"4890"	"AC008914.1"	0	"mskcc.org"	"GRCh37"	"5"	55221248	55221249	"+"	"3'Flank"	"INS"	"-"	"-"	"C"	"rs147228006"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000595799"	""	9	"."	4	4	"."	0	"IL31RA,downstream_gene_variant,,ENST00000396834,NM_001242638.1;IL31RA,downstream_gene_variant,,ENST00000359040,NM_001242637.1;IL31RA,downstream_gene_variant,,ENST00000354961,;AC008914.1,downstream_gene_variant,,ENST00000595799,;"	"C"	"ENSG00000268280"	"ENST00000595799"	"Transcript"	"downstream_gene_variant"	"-/72"	"-/72"	"-/24"	""	""	"rs147228006"	"1"	"3219"	-1	"AC008914.1"	"Clone_based_ensembl_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000472366"	""	"M0R272"	"UPI00015E06CF"	""	NA	NA	""	""	""	"C:0.2790"	"C:0.2481"	"C:0.4265"	NA	"C:0.1954"	"C:0.337"	"C:0.2423"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"888bb95e-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4891"	"CTD-2023N9.1"	0	"mskcc.org"	"GRCh37"	"5"	56703348	56703349	"+"	"Intron"	"INS"	"-"	"-"	"GA"	"rs34035021"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.119+12362_119+12363dupGA"	""	""	"ENST00000506106"	""	7	"."	3	2	"."	0	"CTD-2023N9.1,intron_variant,,ENST00000506106,;"	"GA"	"ENSG00000250961"	"ENST00000506106"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/897"	""	""	""	""	"rs34035021"	"1"	NA	1	"CTD-2023N9.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"GA:0.3630"	"GA:0.1725"	"GA:0.4885"	NA	"GA:0.2579"	"GA:0.6133"	"GA:0.3824"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"88bf49e0-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4892"	"PDE4D"	5144	"mskcc.org"	"GRCh37"	"5"	58964745	58964748	"+"	"Intron"	"DEL"	"AAGA"	"AAGA"	"-"	"rs150582699"	NA	"JHCCPT5"	"JHCCPN5"	"AAGA"	"AAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.455+224247_455+224250delTCTT"	""	""	"ENST00000340635"	""	23	"."	8	3	"."	0	"PDE4D,intron_variant,,ENST00000340635,NM_001104631.1;PDE4D,intron_variant,,ENST00000507116,NM_001197218.1;PDE4D,intron_variant,,ENST00000502484,NM_001165899.1;PDE4D,intron_variant,,ENST00000546160,;PDE4D,intron_variant,,ENST00000502575,;PDE4D,intron_variant,,ENST00000512069,;PDE4D,intron_variant,,ENST00000405053,;PDE4D,intron_variant,,ENST00000309641,;PDE4D,intron_variant,,ENST00000514231,;"	"-"	"ENSG00000113448"	"ENST00000340635"	"Transcript"	"intron_variant"	"-/8232"	"-/2430"	"-/809"	""	""	"rs150582699"	"1"	NA	-1	"PDE4D"	"HGNC"	8783	"protein_coding"	"YES"	"CCDS47213.1"	"ENSP00000345502"	"Q08499"	"D6RHE0"	"UPI0000050EB1"	"NM_001104631.1"	NA	NA	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGAAGAA"	"6c482340-280f-11e6-a9ee-1433424a729f"	"471"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347826086956522	"WXS"	FALSE
"4893"	"ELOVL7"	79993	"mskcc.org"	"GRCh37"	"5"	60143482	60143483	"+"	"5'Flank"	"INS"	"-"	"-"	"AG"	"rs137956283"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000508821"	""	8	"."	5	1	"."	0	"ELOVL7,upstream_gene_variant,,ENST00000505959,;ELOVL7,upstream_gene_variant,,ENST00000508821,NM_024930.2;ELOVL7,upstream_gene_variant,,ENST00000438340,;ELOVL7,upstream_gene_variant,,ENST00000425382,NM_001104558.1;ELOVL7,upstream_gene_variant,,ENST00000511799,;ELOVL7,upstream_gene_variant,,ENST00000507047,;ELOVL7,upstream_gene_variant,,ENST00000514809,;"	"AG"	"ENSG00000164181"	"ENST00000508821"	"Transcript"	"upstream_gene_variant"	"-/3994"	"-/846"	"-/281"	""	""	"rs137956283"	"1"	"3266"	-1	"ELOVL7"	"HGNC"	26292	"protein_coding"	"YES"	"CCDS34164.1"	"ENSP00000424123"	"A1L3X0"	"D6RBM2"	"UPI000004CAF4"	"NM_024930.2"	NA	NA	""	""	""	"AG:0.4702"	"AG:0.298"	"AG:0.464"	NA	"AG:0.8105"	"AG:0.4543"	"AG:0.3732"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"88f4674c-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4894"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	62304052	62304053	"+"	"IGR"	"INS"	"-"	"-"	"CCCCTTGGCCTCCGCGT"	"rs139648423"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	1	"."	0	""	"CCCCTTGGCCTCCGCGT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139648423"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CCCCTTGGCCTCCGCGT:0.4521"	"CCCCTTGGCCTCCGCGT:0.6399"	"CCCCTTGGCCTCCGCGT:0.3919"	NA	"CCCCTTGGCCTCCGCGT:0.3036"	"CCCCTTGGCCTCCGCGT:0.496"	"CCCCTTGGCCTCCGCGT:0.3487"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"8919db58-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"4895"	"CENPK"	64105	"mskcc.org"	"GRCh37"	"5"	64850955	64850955	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs11309041"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-39-182delC"	""	""	"ENST00000396679"	""	12	"."	3	3	"."	0	"CENPK,5_prime_UTR_variant,,ENST00000502997,;CENPK,intron_variant,,ENST00000396679,NM_022145.4;CENPK,intron_variant,,ENST00000514814,NM_001267038.1;CENPK,intron_variant,,ENST00000508421,;CENPK,intron_variant,,ENST00000510354,;CENPK,intron_variant,,ENST00000510693,;CENPK,intron_variant,,ENST00000515497,;CENPK,upstream_gene_variant,,ENST00000242872,;CENPK,intron_variant,,ENST00000506282,;CENPK,intron_variant,,ENST00000515873,;CENPK,upstream_gene_variant,,ENST00000511841,;CENPK,intron_variant,,ENST00000505960,;CENPK,intron_variant,,ENST00000510768,;"	"-"	"ENSG00000123219"	"ENST00000396679"	"Transcript"	"intron_variant"	"-/1734"	"-/810"	"-/269"	""	""	"rs11309041"	"1"	NA	-1	"CENPK"	"HGNC"	29479	"protein_coding"	"YES"	"CCDS3984.1"	"ENSP00000379911"	"Q9BS16"	"D6RHD3,D6RAX0"	"UPI000006F749"	"NM_022145.4"	NA	NA	""	"2/10"	""	"G:0.4752"	"-:0.6044"	"-:0.4798"	NA	"-:0.3234"	"-:0.6004"	"-:0.5787"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGT"	"6cfd0daa-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4896"	"CENPK"	64105	"mskcc.org"	"GRCh37"	"5"	64857603	64857607	"+"	"Intron"	"DEL"	"TACTT"	"TACTT"	"-"	"rs60858693"	NA	"JHCCPT5"	"JHCCPN5"	"TACTT"	"TACTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-141-216_-141-212delAAGTA"	""	""	"ENST00000396679"	""	20	"."	9	4	"."	0	"CENPK,intron_variant,,ENST00000396679,NM_022145.4;CENPK,intron_variant,,ENST00000514814,NM_001267038.1;CENPK,intron_variant,,ENST00000508421,;CENPK,intron_variant,,ENST00000510693,;CENPK,intron_variant,,ENST00000515497,;PPWD1,upstream_gene_variant,,ENST00000261308,NM_001278927.1,NM_015342.3;PPWD1,upstream_gene_variant,,ENST00000535264,NM_001278926.1;PPWD1,upstream_gene_variant,,ENST00000538977,NM_001278929.1;CENPK,upstream_gene_variant,,ENST00000510354,;PPWD1,upstream_gene_variant,,ENST00000505380,;PPWD1,upstream_gene_variant,,ENST00000502703,;CENPK,intron_variant,,ENST00000506282,;CENPK,intron_variant,,ENST00000515873,;CENPK,intron_variant,,ENST00000510768,;CENPK,intron_variant,,ENST00000508311,;CENPK,intron_variant,,ENST00000504508,;PPWD1,upstream_gene_variant,,ENST00000510930,;PPWD1,upstream_gene_variant,,ENST00000511908,;PPWD1,upstream_gene_variant,,ENST00000508982,;CENPK,upstream_gene_variant,,ENST00000505960,;PPWD1,upstream_gene_variant,,ENST00000503435,;PPWD1,upstream_gene_variant,,ENST00000515447,;"	"-"	"ENSG00000123219"	"ENST00000396679"	"Transcript"	"intron_variant"	"-/1734"	"-/810"	"-/269"	""	""	"rs60858693"	"1"	NA	-1	"CENPK"	"HGNC"	29479	"protein_coding"	"YES"	"CCDS3984.1"	"ENSP00000379911"	"Q9BS16"	"D6RHD3,D6RAX0"	"UPI000006F749"	"NM_022145.4"	NA	NA	""	"1/10"	""	"TACTT:0.4752"	"-:0.6044"	"-:0.4798"	NA	"-:0.3234"	"-:0.6004"	"-:0.5787"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATACTTA"	"6d040808-280f-11e6-a9ee-1433424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.45	"WXS"	FALSE
"4897"	"RP11-434D9.1"	101928858	"mskcc.org"	"GRCh37"	"5"	66786159	66786160	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs3074825"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.251+110704_251+110705delGA"	""	""	"ENST00000503106"	""	11	"."	4	5	"."	0	"RP11-434D9.1,intron_variant,,ENST00000503106,;"	"-"	"ENSG00000249364"	"ENST00000503106"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/557"	""	""	""	""	"rs3074825"	"1"	NA	1	"RP11-434D9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"-:0.3562"	"-:0.4236"	"-:0.3732"	NA	"-:0.4474"	"-:0.2714"	"-:0.2464"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"6d92cb2e-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"4898"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	68359717	68359724	"+"	"IGR"	"DEL"	"TTTTTTTT"	"TTTTTTTT"	"-"	"rs143463577"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTTTTT"	"TTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143463577"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATTTTTTTTT"	"6dd01128-280f-11e6-a9ee-1433424a729f"	"220"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4899"	"GTF2H2B"	653238	"mskcc.org"	"GRCh37"	"5"	69738375	69738406	"+"	"Intron"	"DEL"	"TTGGGAGACCGAGGCAGGTGGGTCACCTGAGG"	"TTGGGAGACCGAGGCAGGTGGGTCACCTGAGG"	"-"	"rs145211065"	NA	"JHCCPT5"	"JHCCPN5"	"TTGGGAGACCGAGGCAGGTGGGTCACCTGAGG"	"TTGGGAGACCGAGGCAGGTGGGTCACCTGAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1132+1031_1132+1062delTGGGAGACCGAGGCAGGTGGGTCACCTGAGGT"	""	""	"ENST00000513202"	""	6	"."	4	1	"."	0	"GTF2H2B,intron_variant,,ENST00000513202,;GTF2H2B,intron_variant,,ENST00000412385,;GTF2H2B,intron_variant,,ENST00000506804,;GTF2H2B,intron_variant,,ENST00000508065,;"	"-"	"ENSG00000226259"	"ENST00000513202"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1954"	""	""	""	""	"rs145211065"	"1"	NA	1	"GTF2H2B"	"HGNC"	31393	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"13/14"	""	"TTGGGAGACCGAGGCAGGTGGGTCACCTGAGG:0.2163"	"-:0.6861"	"-:0.804"	NA	"-:0.881"	"-:0.7276"	"-:0.8589"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTGGGAGACCGAGGCAGGTGGGTCACCTGAGGT"	"6e39fd86-280f-11e6-a9ee-1433424a729f"	"155"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4900"	"RP11-497H16.2"	0	"mskcc.org"	"GRCh37"	"5"	69790798	69790799	"+"	"3'Flank"	"INS"	"-"	"-"	"T"	"rs568354075"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000506152"	""	107	"."	4	40	"."	0	"RP11-497H16.2,downstream_gene_variant,,ENST00000506152,;RP11-497H16.8,downstream_gene_variant,,ENST00000509969,;"	"T"	"ENSG00000237075"	"ENST00000506152"	"Transcript"	"downstream_gene_variant"	"-/3531"	""	""	""	""	"rs568354075"	"1"	"3839"	1	"RP11-497H16.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.0555"	"T:0.0772"	"T:0.0548"	NA	"T:0.0615"	"T:0.0288"	"T:0.0481"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"89e8e646-280f-11e6-a9ee-1433424a729f"	"92"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0373831775700935	"WXS"	FALSE
"4901"	"BDP1"	55814	"mskcc.org"	"GRCh37"	"5"	70818329	70818329	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5193+12delC"	""	""	"ENST00000358731"	""	123	"."	3	25	"."	0	"BDP1,intron_variant,,ENST00000358731,NM_018429.2;BDP1,intron_variant,,ENST00000380675,;BDP1,intron_variant,,ENST00000508917,;BDP1,upstream_gene_variant,,ENST00000514903,;"	"-"	"ENSG00000145734"	"ENST00000358731"	"Transcript"	"intron_variant"	"-/11073"	"-/7875"	"-/2624"	""	""	""	"1"	NA	1	"BDP1"	"HGNC"	13652	"protein_coding"	"YES"	"CCDS43328.1"	"ENSP00000351575"	"A6H8Y1"	""	"UPI000020CA90"	"NM_018429.2"	NA	NA	""	"23/38"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCA"	"6e7586bc-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.024390243902439	"WXS"	FALSE
"4902"	"MCCC2"	64087	"mskcc.org"	"GRCh37"	"5"	70888682	70888682	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs374272214"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.130-71delG"	""	""	"ENST00000340941"	""	224	"."	4	60	"."	0	"MCCC2,intron_variant,,ENST00000340941,NM_022132.4;MCCC2,intron_variant,,ENST00000323375,;MCCC2,intron_variant,,ENST00000509358,;MCCC2,upstream_gene_variant,,ENST00000507169,;MCCC2,upstream_gene_variant,,ENST00000505787,;MCCC2,intron_variant,,ENST00000512218,;"	"-"	"ENSG00000131844"	"ENST00000340941"	"Transcript"	"intron_variant"	"-/3665"	"-/1692"	"-/563"	""	""	"rs374272214"	"1"	NA	1	"MCCC2"	"HGNC"	6937	"protein_coding"	"YES"	"CCDS34184.1"	"ENSP00000343657"	"Q9HCC0"	""	"UPI000012ED69"	"NM_022132.4"	NA	NA	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTGA"	"6e8e1088-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0178571428571429	"WXS"	FALSE
"4903"	"ENSR00001410551"	0	"mskcc.org"	"GRCh37"	"5"	72608893	72608894	"+"	"IGR"	"INS"	"-"	"-"	"TCCTCCTCTTCTTCCTCCTCCTCCTCTTCT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001410551"	""	24	"."	5	7	"."	0	""	"TCCTCCTCTTCTTCCTCCTCCTCCTCTTCT"	""	"ENSR00001410551"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"8a1b63f0-280f-11e6-a9ee-1433424a729f"	"250"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WXS"	FALSE
"4904"	"UTP15"	84135	"mskcc.org"	"GRCh37"	"5"	72862985	72862989	"+"	"Intron"	"DEL"	"TCTAA"	"TCTAA"	"-"	"rs78097241"	NA	"JHCCPT5"	"JHCCPN5"	"TCTAA"	"TCTAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-83-98_-83-94delATCTA"	""	""	"ENST00000296792"	""	25	"."	6	3	"."	0	"UTP15,intron_variant,,ENST00000296792,NM_032175.2;UTP15,intron_variant,,ENST00000509005,;UTP15,intron_variant,,ENST00000543251,NM_001284431.1;UTP15,intron_variant,,ENST00000508491,NM_001284430.1;UTP15,intron_variant,,ENST00000513824,;UTP15,intron_variant,,ENST00000508686,;ANKRA2,upstream_gene_variant,,ENST00000296785,NM_023039.4;ANKRA2,upstream_gene_variant,,ENST00000504641,;UTP15,intron_variant,,ENST00000510478,;ANKRA2,upstream_gene_variant,,ENST00000515804,;ANKRA2,upstream_gene_variant,,ENST00000509433,;ANKRA2,upstream_gene_variant,,ENST00000506130,;"	"-"	"ENSG00000164338"	"ENST00000296792"	"Transcript"	"intron_variant"	"-/3687"	"-/1557"	"-/518"	""	""	"rs78097241"	"1"	NA	1	"UTP15"	"HGNC"	25758	"protein_coding"	"YES"	"CCDS34186.1"	"ENSP00000296792"	"Q8TED0"	"D6RF65,B4DU75"	"UPI000020CADC"	"NM_032175.2"	NA	NA	""	"1/12"	""	"-:0.1260"	"-:0.084"	"-:0.1571"	NA	"-:0.0575"	"-:0.2187"	"-:0.136"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTAAT"	"6f1028e8-280f-11e6-a9ee-1433424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WXS"	FALSE
"4905"	"ARHGEF28"	64283	"mskcc.org"	"GRCh37"	"5"	73153412	73153413	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1791-68_1791-67delTA"	""	""	"ENST00000545377"	""	99	"."	3	36	"."	0	"ARHGEF28,intron_variant,,ENST00000545377,NM_001080479.2;ARHGEF28,intron_variant,,ENST00000513042,NM_001177693.1;ARHGEF28,intron_variant,,ENST00000287898,;ARHGEF28,intron_variant,,ENST00000426542,;ARHGEF28,intron_variant,,ENST00000437974,;ARHGEF28,intron_variant,,ENST00000296794,;ARHGEF28,intron_variant,,ENST00000296799,NM_001244364.1;"	"-"	"ENSG00000214944"	"ENST00000545377"	"Transcript"	"intron_variant"	"-/6351"	"-/5196"	"-/1731"	""	""	""	"1"	NA	1	"ARHGEF28"	"HGNC"	30322	"protein_coding"	"YES"	"CCDS47231.2"	"ENSP00000441913"	"Q8N1W1"	"D6RAP0"	"UPI00004DF58E"	"NM_001080479.2"	NA	NA	""	"14/36"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATA"	"6f2a77ca-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0303030303030303	"WXS"	FALSE
"4906"	"CTC-419K13.1"	0	"mskcc.org"	"GRCh37"	"5"	73774094	73774095	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs70976110"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.308-1818dupG"	""	""	"ENST00000507781"	""	6	"."	4	3	"."	0	"CTC-419K13.1,intron_variant,,ENST00000507781,;"	"C"	"ENSG00000248673"	"ENST00000507781"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/568"	""	""	""	""	"rs70976110"	"1"	NA	-1	"CTC-419K13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	"C:0.1881"	"C:0.2322"	"C:0.2233"	NA	"C:0.0417"	"C:0.2793"	"C:0.1605"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"8a3b3446-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4907"	"GFM2"	84340	"mskcc.org"	"GRCh37"	"5"	74028753	74028762	"+"	"Intron"	"DEL"	"ACACACACAC"	"ACACACACAC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"ACACACACAC"	"ACACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1587+85_1587+94delGTGTGTGTGT"	""	""	"ENST00000296805"	""	43	"."	6	24	"."	0	"GFM2,intron_variant,,ENST00000296805,NM_032380.4;GFM2,intron_variant,,ENST00000509430,NM_001281302.1;GFM2,intron_variant,,ENST00000345239,NM_170691.2;GFM2,downstream_gene_variant,,ENST00000427854,NM_170681.2;GFM2,intron_variant,,ENST00000515125,;GFM2,intron_variant,,ENST00000514734,;GFM2,intron_variant,,ENST00000506263,;"	"-"	"ENSG00000164347"	"ENST00000296805"	"Transcript"	"intron_variant"	"-/3249"	"-/2340"	"-/779"	""	""	""	"1"	NA	-1	"GFM2"	"HGNC"	29682	"protein_coding"	"YES"	"CCDS4023.1"	"ENSP00000296805"	"Q969S9"	"D6RF75"	"UPI0000129CA7"	"NM_032380.4"	NA	NA	""	"16/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGACACACACACA"	"6f62f1c2-280f-11e6-a9ee-1433424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WXS"	FALSE
"4908"	"SCAMP1"	9522	"mskcc.org"	"GRCh37"	"5"	77730383	77730384	"+"	"Intron"	"INS"	"-"	"-"	"TCC"	"rs10640748"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.632+12607_632+12609dupCCT"	""	""	"ENST00000538629"	""	19	"."	5	3	"."	0	"SCAMP1,intron_variant,,ENST00000538629,NM_004866.4;SCAMP1,intron_variant,,ENST00000339292,;SCAMP1,intron_variant,,ENST00000320280,;SCAMP1,intron_variant,,ENST00000508822,;SCAMP1,intron_variant,,ENST00000509998,;"	"TCC"	"ENSG00000085365"	"ENST00000538629"	"Transcript"	"intron_variant"	"-/6245"	"-/1017"	"-/338"	""	""	"rs10640748"	"1"	NA	1	"SCAMP1"	"HGNC"	10563	"protein_coding"	"YES"	""	"ENSP00000475496"	""	"U3KQ30"	"UPI00001B94D7"	"NM_004866.4"	NA	NA	""	"6/8"	""	"-:0.1649"	"TCC:0.9455"	"TCC:0.562"	NA	"TCC:0.9236"	"TCC:0.7893"	"TCC:0.8354"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8abe421e-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"4909"	"LHFPL2"	10184	"mskcc.org"	"GRCh37"	"5"	78034112	78034113	"+"	"Intron"	"INS"	"-"	"-"	"TTAT"	"rs71001127"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.401+28465_401+28468dupATAA"	""	""	"ENST00000514587"	""	12	"."	5	1	"."	0	"LHFPL2,intron_variant,,ENST00000514587,;"	"TTAT"	"ENSG00000145685"	"ENST00000514587"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/510"	""	""	""	""	"rs71001127"	"1"	NA	-1	"LHFPL2"	"HGNC"	6588	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"3/3"	""	"-:0.1212"	"TTAT:0.8268"	"TTAT:0.8818"	NA	"TTAT:0.9673"	"TTAT:0.8499"	"TTAT:0.8855"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"8ac16f8e-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"4910"	"DMGDH"	29958	"mskcc.org"	"GRCh37"	"5"	78325496	78325496	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs139430239"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1814+231delT"	""	""	"ENST00000255189"	""	23	"."	8	2	"."	0	"DMGDH,intron_variant,,ENST00000255189,NM_013391.3;DMGDH,intron_variant,,ENST00000523732,;DMGDH,intron_variant,,ENST00000380311,;DMGDH,intron_variant,,ENST00000540686,;DMGDH,intron_variant,,ENST00000523201,;DMGDH,intron_variant,,ENST00000518477,;DMGDH,intron_variant,,ENST00000517853,;"	"-"	"ENSG00000132837"	"ENST00000255189"	"Transcript"	"intron_variant"	"-/3097"	"-/2601"	"-/866"	""	""	"rs139430239"	"1"	NA	-1	"DMGDH"	"HGNC"	24475	"protein_coding"	"YES"	"CCDS4044.1"	"ENSP00000255189"	"Q9UI17"	""	"UPI000013CE96"	"NM_013391.3"	NA	NA	""	"11/15"	""	"-:0.1216"	"-:0.0257"	"-:0.1931"	NA	"-:0.0685"	"-:0.2227"	"-:0.1513"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATAA"	"6ffd8b7e-280f-11e6-a9ee-1433424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347826086956522	"WXS"	FALSE
"4911"	"SERINC5"	256987	"mskcc.org"	"GRCh37"	"5"	79492815	79492816	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35369419"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.195+5889dupA"	""	""	"ENST00000512721"	""	8	"."	5	1	"."	0	"SERINC5,intron_variant,,ENST00000507668,NM_178276.5,NM_001174071.1;SERINC5,intron_variant,,ENST00000512972,;SERINC5,intron_variant,,ENST00000512721,NM_001174072.1;SERINC5,intron_variant,,ENST00000509193,;SERINC5,intron_variant,,ENST00000513907,;"	"T"	"ENSG00000164300"	"ENST00000512721"	"Transcript"	"intron_variant"	"-/1583"	"-/1386"	"-/461"	""	""	"rs35369419"	"1"	NA	-1	"SERINC5"	"HGNC"	18825	"protein_coding"	"YES"	"CCDS54874.1"	"ENSP00000420863"	"Q86VE9"	""	"UPI000004E86E"	"NM_001174072.1"	NA	NA	""	"2/11"	""	"T:0.4329"	"T:0.2602"	"T:0.4352"	NA	"T:0.6548"	"T:0.3837"	"T:0.4867"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"8ad9ebd6-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4912"	"SERINC5"	256987	"mskcc.org"	"GRCh37"	"5"	79510379	79510380	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11387754"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.28-11508dupT"	""	""	"ENST00000512721"	""	6	"."	4	1	"."	0	"SERINC5,intron_variant,,ENST00000507668,NM_178276.5,NM_001174071.1;SERINC5,intron_variant,,ENST00000512972,;SERINC5,intron_variant,,ENST00000512721,NM_001174072.1;SERINC5,intron_variant,,ENST00000509193,;SERINC5,intron_variant,,ENST00000513907,;"	"A"	"ENSG00000164300"	"ENST00000512721"	"Transcript"	"intron_variant"	"-/1583"	"-/1386"	"-/461"	""	""	"rs11387754"	"1"	NA	-1	"SERINC5"	"HGNC"	18825	"protein_coding"	"YES"	"CCDS54874.1"	"ENSP00000420863"	"Q86VE9"	""	"UPI000004E86E"	"NM_001174072.1"	NA	NA	""	"1/11"	""	"A:0.4553"	"A:0.2905"	"A:0.6326"	NA	"A:0.5218"	"A:0.5318"	"A:0.4049"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"8ae08b08-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4913"	"ANKRD34B"	340120	"mskcc.org"	"GRCh37"	"5"	79865394	79865419	"+"	"Intron"	"DEL"	"CGGAGACGCGCCCAAGTCAGCCCCTC"	"CGGAGACGCGCCCAAGTCAGCCCCTC"	"-"	"rs72164443"	NA	"JHCCPT5"	"JHCCPN5"	"CGGAGACGCGCCCAAGTCAGCCCCTC"	"CGGAGACGCGCCCAAGTCAGCCCCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-338-493_-338-468delGAGGGGCTGACTTGGGCGCGTCTCCG"	""	""	"ENST00000338682"	""	6	"."	4	3	"."	0	"ANKRD34B,intron_variant,,ENST00000338682,NM_001004441.2;ANKRD34B,intron_variant,,ENST00000508916,;"	"-"	"ENSG00000189127"	"ENST00000338682"	"Transcript"	"intron_variant"	"-/3938"	"-/1545"	"-/514"	""	""	"rs72164443"	"1"	NA	-1	"ANKRD34B"	"HGNC"	33736	"protein_coding"	"YES"	"CCDS34194.1"	"ENSP00000339802"	"A5PLL1"	""	"UPI00003672FA"	"NM_001004441.2"	NA	NA	""	"1/4"	""	"CGGAGACGCGCCCAAGTCAGCCCCTC:0.1935"	"-:0.6589"	"-:0.8588"	NA	"-:0.9435"	"-:0.8171"	"-:0.817"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCGGAGACGCGCCCAAGTCAGCCCCTCC"	"7041a106-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4914"	"MSH3"	4437	"mskcc.org"	"GRCh37"	"5"	80037762	80037763	"+"	"Intron"	"INS"	"-"	"-"	"AAAAC"	"rs10656969"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1653+396_1653+397insAAACA"	""	""	"ENST00000265081"	""	13	"."	6	2	"."	0	"MSH3,intron_variant,,ENST00000265081,NM_002439.4;MSH3,intron_variant,,ENST00000512258,;RP11-241J12.3,downstream_gene_variant,,ENST00000506122,;"	"AAAAC"	"ENSG00000113318"	"ENST00000265081"	"Transcript"	"intron_variant"	"-/4092"	"-/3414"	"-/1137"	""	""	"rs10656969"	"1"	NA	1	"MSH3"	"HGNC"	7326	"protein_coding"	"YES"	"CCDS34195.1"	"ENSP00000265081"	"P20585"	""	"UPI0000DBEE85"	"NM_002439.4"	NA	NA	""	"11/23"	""	"-:0.0020"	"AAAAC:1"	"AAAAC:0.9942"	NA	"AAAAC:1"	"AAAAC:0.995"	"AAAAC:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"8af266fc-280f-11e6-a9ee-1433424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"4915"	"RASGRF2"	5924	"mskcc.org"	"GRCh37"	"5"	80504354	80504372	"+"	"Intron"	"DEL"	"TTTTTTTTTTTTTTTTTTT"	"TTTTTTTTTTTTTTTTTTT"	"-"	"rs559712513"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTTTTTTTTTTTTTTTT"	"TTTTTTTTTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3156+113_3156+131delTTTTTTTTTTTTTTTTTTT"	""	""	"ENST00000265080"	""	76	"."	4	13	"."	0	"RASGRF2,intron_variant,,ENST00000265080,NM_006909.2;CKMT2-AS1,intron_variant,,ENST00000503483,;CKMT2-AS1,downstream_gene_variant,,ENST00000511495,;RASGRF2,intron_variant,,ENST00000503795,;"	"-"	"ENSG00000113319"	"ENST00000265080"	"Transcript"	"intron_variant"	"-/8167"	"-/3714"	"-/1237"	""	""	"rs559712513"	"1"	NA	1	"RASGRF2"	"HGNC"	9876	"protein_coding"	"YES"	"CCDS4052.1"	"ENSP00000265080"	"O14827"	"Q68DX5"	"UPI0000047ABF"	"NM_006909.2"	NA	NA	""	"22/26"	""	"TTTTTTTTTTTTTTTTTTT:0.3133"	"-:0.6982"	"-:0.7363"	NA	"-:0.6825"	"-:0.5984"	"-:0.7311"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"16"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTTTTTTTTTTTTTTTTTTT"	"7090dd7a-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0526315789473684	"WXS"	FALSE
"4916"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	87232904	87232905	"+"	"IGR"	"DEL"	"TC"	"TC"	"-"	"rs68191292"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs68191292"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TC:0.3367"	"-:0.2874"	"-:0.7464"	NA	"-:0.9841"	"-:0.7664"	"-:0.6759"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCT"	"71185c8c-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"4917"	"TMEM161B"	153396	"mskcc.org"	"GRCh37"	"5"	87498255	87498255	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs33987526"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.914+524delT"	""	""	"ENST00000296595"	""	24	"."	4	2	"."	0	"TMEM161B,intron_variant,,ENST00000296595,NM_153354.3;TMEM161B,intron_variant,,ENST00000506536,;TMEM161B,intron_variant,,ENST00000514135,;TMEM161B,intron_variant,,ENST00000512429,;TMEM161B,intron_variant,,ENST00000511218,;TMEM161B,downstream_gene_variant,,ENST00000509387,;TMEM161B,upstream_gene_variant,,ENST00000515293,;TMEM161B,downstream_gene_variant,,ENST00000503755,;TMEM161B,downstream_gene_variant,,ENST00000513487,;TMEM161B,3_prime_UTR_variant,,ENST00000510089,;TMEM161B,intron_variant,,ENST00000511087,;TMEM161B,downstream_gene_variant,,ENST00000507872,;"	"-"	"ENSG00000164180"	"ENST00000296595"	"Transcript"	"intron_variant"	"-/2594"	"-/1464"	"-/487"	""	""	"rs33987526"	"1"	NA	-1	"TMEM161B"	"HGNC"	28483	"protein_coding"	"YES"	"CCDS4065.1"	"ENSP00000296595"	"Q8NDZ6"	"D6RBE8,B7Z6T3"	"UPI000007229D"	"NM_153354.3"	NA	NA	""	"9/11"	""	"-:0.2931"	"-:0.5567"	"-:0.2089"	NA	"-:0.004"	"-:0.2545"	"-:0.3344"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAT"	"71230434-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"4918"	"RP11-116A1.1"	0	"mskcc.org"	"GRCh37"	"5"	88940998	88941002	"+"	"Intron"	"DEL"	"AAAAC"	"-"	"-"	"rs148630872"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAC"	"AAAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.169-32241_169-32237delACAAA"	""	""	"ENST00000503691"	""	6	"."	5	1	"."	0	"RP11-116A1.1,intron_variant,,ENST00000503691,;"	"-"	"ENSG00000250437"	"ENST00000503691"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/420"	""	""	""	""	"rs148630872"	"1"	NA	1	"RP11-116A1.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"28"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAAAACA"	"71420078-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4919"	"GPR98"	84059	"mskcc.org"	"GRCh37"	"5"	89933288	89933289	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"rs77824176"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2017-253_2017-252delGA"	""	""	"ENST00000405460"	""	13	"."	3	2	"."	0	"GPR98,intron_variant,,ENST00000405460,NM_032119.3;GPR98,intron_variant,,ENST00000504142,;GPR98,upstream_gene_variant,,ENST00000512205,;"	"-"	"ENSG00000164199"	"ENST00000405460"	"Transcript"	"intron_variant"	"-/19338"	"-/18921"	"-/6306"	""	""	"rs77824176"	"1"	NA	1	"GPR98"	"HGNC"	17416	"protein_coding"	"YES"	"CCDS47246.1"	"ENSP00000384582"	"Q8WXG9"	""	"UPI00002127A7"	"NM_032119.3"	NA	NA	""	"10/89"	""	"-:0.2724"	"-:0.0318"	"-:0.5101"	NA	"-:0.3462"	"-:0.3211"	"-:0.3027"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTAGA"	"7167dbfe-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"4920"	"GPR98"	84059	"mskcc.org"	"GRCh37"	"5"	89947205	89947208	"+"	"Intron"	"DEL"	"TCTC"	"TCTC"	"-"	"rs5869511"	NA	"JHCCPT5"	"JHCCPN5"	"TCTC"	"TCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3290-209_3290-206delCTCT"	""	""	"ENST00000405460"	""	15	"."	3	5	"."	0	"GPR98,intron_variant,,ENST00000405460,NM_032119.3;GPR98,intron_variant,,ENST00000504142,;"	"-"	"ENSG00000164199"	"ENST00000405460"	"Transcript"	"intron_variant"	"-/19338"	"-/18921"	"-/6306"	""	""	"rs5869511"	"1"	NA	1	"GPR98"	"HGNC"	17416	"protein_coding"	"YES"	"CCDS47246.1"	"ENSP00000384582"	"Q8WXG9"	""	"UPI00002127A7"	"NM_032119.3"	NA	NA	""	"17/89"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTTCTCT"	"716d825c-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"4921"	"GPR98"	84059	"mskcc.org"	"GRCh37"	"5"	90445829	90445830	"+"	"Intron"	"INS"	"-"	"-"	"TC"	"rs35858094"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.18433-17_18433-16insCT"	""	""	"ENST00000405460"	""	98	"."	9	34	"."	0	"GPR98,intron_variant,,ENST00000405460,NM_032119.3;GPR98,intron_variant,,ENST00000425867,;"	"TC"	"ENSG00000164199"	"ENST00000405460"	"Transcript"	"intron_variant"	"-/19338"	"-/18921"	"-/6306"	""	""	"rs35858094"	"1"	NA	1	"GPR98"	"HGNC"	17416	"protein_coding"	"YES"	"CCDS47246.1"	"ENSP00000384582"	"Q8WXG9"	""	"UPI00002127A7"	"NM_032119.3"	NA	NA	""	"87/89"	""	"-:0.3263"	"TC:0.472"	"TC:0.8271"	NA	"TC:0.7202"	"TC:0.7704"	"TC:0.6902"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	"0.4229"	"0.3229"	"0.4706"	"0.4521"	"0.6198"	"0.5049"	"0.5316"	"0.4557"	"1"	"common_variant"	"TTT"	"8b9572ac-280f-11e6-a9ee-1433424a729f"	"540"	0.4803	"6341/13202"	"8285/19590"	"290/898"	"80/170"	"66/146"	"864/1394"	"2064/4088"	"84/158"	"2893/6348"	"InbreedingCoeff_Filter"	"FALSE"	0.0918367346938776	"WXS"	FALSE
"4922"	"MCTP1"	79772	"mskcc.org"	"GRCh37"	"5"	94267974	94267974	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1174-278delT"	""	""	"ENST00000515393"	""	13	"."	4	2	"."	0	"MCTP1,intron_variant,,ENST00000515393,NM_024717.4;MCTP1,intron_variant,,ENST00000429576,;MCTP1,intron_variant,,ENST00000506568,;MCTP1,intron_variant,,ENST00000312216,NM_001002796.2;MCTP1,intron_variant,,ENST00000508509,;MCTP1,intron_variant,,ENST00000505208,;MCTP1,intron_variant,,ENST00000512425,;MCTP1,intron_variant,,ENST00000514780,;MCTP1,intron_variant,,ENST00000503301,;MCTP1,intron_variant,,ENST00000507214,;MCTP1,upstream_gene_variant,,ENST00000505078,;"	"-"	"ENSG00000175471"	"ENST00000515393"	"Transcript"	"intron_variant"	"-/5396"	"-/3000"	"-/999"	""	""	""	"1"	NA	-1	"MCTP1"	"HGNC"	26183	"protein_coding"	"YES"	"CCDS34203.1"	"ENSP00000424126"	"Q6DN14"	"E5RJR1"	"UPI0000D6165C"	"NM_024717.4"	NA	NA	""	"5/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"71bd985a-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"4923"	"MCTP1"	79772	"mskcc.org"	"GRCh37"	"5"	94404660	94404660	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.721-51472delG"	""	""	"ENST00000515393"	""	58	"."	4	15	"."	0	"MCTP1,intron_variant,,ENST00000515393,NM_024717.4;MCTP1,intron_variant,,ENST00000429576,;MCTP1,intron_variant,,ENST00000312216,NM_001002796.2;MCTP1,intron_variant,,ENST00000508509,;MCTP1,intron_variant,,ENST00000505208,;MCTP1,intron_variant,,ENST00000512425,;MCTP1,intron_variant,,ENST00000503301,;MCTP1,intron_variant,,ENST00000510732,;MCTP1,intron_variant,,ENST00000505465,;MCTP1,intron_variant,,ENST00000513857,;MCTP1,intron_variant,,ENST00000513695,;"	"-"	"ENSG00000175471"	"ENST00000515393"	"Transcript"	"intron_variant"	"-/5396"	"-/3000"	"-/999"	""	""	""	"1"	NA	-1	"MCTP1"	"HGNC"	26183	"protein_coding"	"YES"	"CCDS34203.1"	"ENSP00000424126"	"Q6DN14"	"E5RJR1"	"UPI0000D6165C"	"NM_024717.4"	NA	NA	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCT"	"71c5813c-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WXS"	FALSE
"4924"	"TTC37"	9652	"mskcc.org"	"GRCh37"	"5"	94849084	94849085	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11414846"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2778+190_2778+191insC"	""	""	"ENST00000358746"	""	21	"."	9	6	"."	0	"TTC37,intron_variant,,ENST00000358746,NM_014639.3;TTC37,intron_variant,,ENST00000515176,;TTC37,non_coding_transcript_exon_variant,,ENST00000506007,;TTC37,intron_variant,,ENST00000507805,;TTC37,intron_variant,,ENST00000508181,;TTC37,upstream_gene_variant,,ENST00000512026,;"	"G"	"ENSG00000198677"	"ENST00000358746"	"Transcript"	"intron_variant"	"-/5706"	"-/4695"	"-/1564"	""	""	"rs11414846"	"1"	NA	-1	"TTC37"	"HGNC"	23639	"protein_coding"	"YES"	"CCDS4072.1"	"ENSP00000351596"	"Q6PGP7"	"D6RDA0"	"UPI00000709BD"	"NM_014639.3"	NA	NA	""	"27/42"	""	"G:0.1382"	"G:0.3169"	"G:0.111"	NA	"G:0.0109"	"G:0.1093"	"G:0.0767"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"8bdbc5e0-280f-11e6-a9ee-1433424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4925"	"ERAP2"	64167	"mskcc.org"	"GRCh37"	"5"	96236892	96236893	"+"	"Intron"	"INS"	"-"	"-"	"TTTT"	"rs71617149"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1573-318_1573-317insTTTT"	""	""	"ENST00000437043"	""	12	"."	4	4	"."	0	"ERAP2,intron_variant,,ENST00000437043,NM_001130140.1,NM_022350.3;ERAP2,intron_variant,,ENST00000379904,;ERAP2,intron_variant,,ENST00000510373,;ERAP2,downstream_gene_variant,,ENST00000508077,;CTD-2260A17.2,intron_variant,,ENST00000501338,;ERAP2,intron_variant,,ENST00000515095,;ERAP2,intron_variant,,ENST00000513084,;ERAP2,intron_variant,,ENST00000515387,;ERAP2,downstream_gene_variant,,ENST00000513368,;"	"TTTT"	"ENSG00000164308"	"ENST00000437043"	"Transcript"	"intron_variant"	"-/5705"	"-/2883"	"-/960"	""	""	"rs71617149"	"1"	NA	1	"ERAP2"	"HGNC"	29499	"protein_coding"	"YES"	"CCDS4086.1"	"ENSP00000400376"	"Q6P179"	"D6RGW0"	"UPI0000036336"	"NM_001130140.1,NM_022350.3"	NA	NA	""	"10/18"	""	"-:0.4828"	"TTTT:0.5825"	"TTTT:0.5519"	NA	"TTTT:0.5248"	"TTTT:0.4682"	"TTTT:0.4468"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"8c25e6ca-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4926"	"LNPEP"	4012	"mskcc.org"	"GRCh37"	"5"	96341750	96341751	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs3839297"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1786-9_1786-8dupAT"	""	""	"ENST00000231368"	""	36	"."	6	9	"."	0	"LNPEP,intron_variant,,ENST00000231368,NM_005575.2;LNPEP,intron_variant,,ENST00000395770,NM_175920.3;LNPEP,intron_variant,,ENST00000473914,;"	"TA"	"ENSG00000113441"	"ENST00000231368"	"Transcript"	"intron_variant"	"-/12752"	"-/3078"	"-/1025"	""	""	"rs3839297"	"1"	NA	1	"LNPEP"	"HGNC"	6656	"protein_coding"	"YES"	"CCDS4087.1"	"ENSP00000231368"	"Q9UIQ6"	""	"UPI000013C94B"	"NM_005575.2"	NA	NA	""	"9/17"	""	"TA:0.4808"	"TA:0.4818"	"TA:0.5202"	NA	"TA:0.4782"	"TA:0.4254"	"TA:0.5112"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"19"	""	"1"	"0.1685"	"0.3841"	"0.381"	"0.3769"	"0.4182"	"0.3828"	"0.4219"	"0.4144"	NA	"common_variant"	"TTT"	"8c26d800-280f-11e6-a9ee-1433424a729f"	"360"	0.4012	"2261/5636"	"6800/40356"	"169/440"	"80/210"	"49/130"	"92/220"	"614/1604"	"27/64"	"1230/2968"	"PASS"	"FALSE"	0.166666666666667	"WXS"	FALSE
"4927"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	97159098	97159099	"+"	"IGR"	"INS"	"-"	"-"	"CTTTCTTA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	4	3	"."	0	""	"CTTTCTTA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"8c2c1f5e-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"4928"	"CTC-463N11.1"	0	"mskcc.org"	"GRCh37"	"5"	98016252	98016253	"+"	"RNA"	"INS"	"-"	"-"	"G"	"rs35748436"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1147_1148insG"	""	""	"ENST00000511690"	"1/1"	8	"."	4	1	"."	0	"CTC-463N11.1,non_coding_transcript_exon_variant,,ENST00000511690,;"	"G"	"ENSG00000251553"	"ENST00000511690"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1147-1148/1966"	""	""	""	""	"rs35748436"	"1"	NA	1	"CTC-463N11.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"-:0.2913"	"G:0.5764"	"G:0.8646"	NA	"G:0.7192"	"G:0.832"	"G:0.6391"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8c31f442-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4929"	"CHD1"	1105	"mskcc.org"	"GRCh37"	"5"	98193567	98193569	"+"	"Intron"	"DEL"	"TTA"	"TTA"	"-"	"rs576043996"	NA	"JHCCPT5"	"JHCCPN5"	"TTA"	"TTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4787+315_4787+317delTAA"	""	""	"ENST00000284049"	""	9	"."	4	1	"."	0	"CHD1,intron_variant,,ENST00000284049,NM_001270.2;CHD1,intron_variant,,ENST00000514344,;CHD1,intron_variant,,ENST00000512392,;CHD1,intron_variant,,ENST00000512844,;CHD1,intron_variant,,ENST00000513064,;CHD1,intron_variant,,ENST00000505657,;"	"-"	"ENSG00000153922"	"ENST00000284049"	"Transcript"	"intron_variant"	"-/5918"	"-/5133"	"-/1710"	""	""	"rs576043996"	"1"	NA	-1	"CHD1"	"HGNC"	1915	"protein_coding"	"YES"	"CCDS34204.1"	"ENSP00000284049"	"O14646"	""	"UPI000013DD75"	"NM_001270.2"	NA	NA	""	"34/34"	""	"-:0.0024"	"-:0"	"-:0.0029"	NA	"-:0"	"-:0.008"	"-:0.002"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTAT"	"72856376-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4930"	"CTD-2151A2.3"	0	"mskcc.org"	"GRCh37"	"5"	98929895	98929896	"+"	"5'Flank"	"INS"	"-"	"-"	"AG"	"rs10643720"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000513076"	""	12	"."	7	2	"."	0	"CTD-2151A2.3,upstream_gene_variant,,ENST00000513076,;CTD-2151A2.2,downstream_gene_variant,,ENST00000511513,;"	"AG"	"ENSG00000248928"	"ENST00000513076"	"Transcript"	"upstream_gene_variant"	"-/418"	""	""	""	""	"rs10643720"	"1"	"688"	1	"CTD-2151A2.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2482"	"AG:0.9811"	"AG:0.6527"	NA	"AG:0.6667"	"AG:0.6392"	"AG:0.7157"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"8c44e5fc-280f-11e6-a9ee-1433424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"4931"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	100801697	100801698	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs58103181"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs58103181"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2376"	"G:0.7474"	"G:0.8602"	NA	"G:0.7292"	"G:0.7853"	"G:0.7239"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"8c4a2922-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4932"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	101111032	101111033	"+"	"IGR"	"INS"	"-"	"-"	"CT"	"rs3044883"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	6	2	"."	0	""	"CT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs3044883"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1689"	"CT:0.8707"	"CT:0.8646"	NA	"CT:0.751"	"CT:0.838"	"CT:0.8292"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"8c52113c-280f-11e6-a9ee-1433424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4933"	"GIN1"	54826	"mskcc.org"	"GRCh37"	"5"	102443044	102443044	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs3214439"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.140-431delA"	""	""	"ENST00000399004"	""	6	"."	4	3	"."	0	"GIN1,intron_variant,,ENST00000399004,NM_017676.2;GIN1,intron_variant,,ENST00000508629,;GIN1,upstream_gene_variant,,ENST00000511400,;GIN1,intron_variant,,ENST00000512248,;GIN1,intron_variant,,ENST00000513603,;GIN1,intron_variant,,ENST00000513747,;"	"-"	"ENSG00000145723"	"ENST00000399004"	"Transcript"	"intron_variant"	"-/3229"	"-/1569"	"-/522"	""	""	"rs3214439"	"1"	NA	-1	"GIN1"	"HGNC"	25959	"protein_coding"	"YES"	"CCDS43349.1"	"ENSP00000381970"	"Q9NXP7"	""	"UPI000020C3A9"	"NM_017676.2"	NA	NA	""	"2/7"	""	"-:0.2256"	"-:0.093"	"-:0.2233"	NA	"-:0.4484"	"-:0.2714"	"-:0.1299"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"72cb29e2-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4934"	"FER"	2241	"mskcc.org"	"GRCh37"	"5"	108168351	108168351	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs59281987"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.208-115delT"	""	""	"ENST00000281092"	""	34	"."	9	5	"."	0	"FER,intron_variant,,ENST00000281092,NM_005246.2;FER,intron_variant,,ENST00000438717,;FER,intron_variant,,ENST00000536402,;CTD-2197I11.1,upstream_gene_variant,,ENST00000510935,;FER,intron_variant,,ENST00000502752,;FER,intron_variant,,ENST00000509035,;FER,intron_variant,,ENST00000513676,;FER,intron_variant,,ENST00000504143,;"	"-"	"ENSG00000151422"	"ENST00000281092"	"Transcript"	"intron_variant"	"-/12119"	"-/2469"	"-/822"	""	""	"rs59281987"	"1"	NA	1	"FER"	"HGNC"	3655	"protein_coding"	"YES"	"CCDS4098.1"	"ENSP00000281092"	"P16591"	""	"UPI000013DC55"	"NM_005246.2"	NA	NA	""	"3/19"	""	"-:0.1196"	"-:0.2141"	"-:0.0418"	NA	"-:0.1032"	"-:0.0417"	"-:0.1442"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"731b963e-280f-11e6-a9ee-1433424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264705882352941	"WXS"	FALSE
"4935"	"MAN2A1"	4124	"mskcc.org"	"GRCh37"	"5"	109178378	109178378	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35241108"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2700+218delT"	""	""	"ENST00000261483"	""	25	"."	4	2	"."	0	"MAN2A1,intron_variant,,ENST00000261483,NM_002372.2;CTC-287O8.1,upstream_gene_variant,,ENST00000510014,;"	"-"	"ENSG00000112893"	"ENST00000261483"	"Transcript"	"intron_variant"	"-/4667"	"-/3435"	"-/1144"	""	""	"rs35241108"	"1"	NA	1	"MAN2A1"	"HGNC"	6824	"protein_coding"	"YES"	"CCDS34209.1"	"ENSP00000261483"	"Q16706"	"Q49A69"	"UPI000013D193"	"NM_002372.2"	NA	NA	""	"17/21"	""	"-:0.3307"	"-:0.5386"	"-:0.3285"	NA	"-:0.2649"	"-:0.3489"	"-:0.1002"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATT"	"7342db40-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WXS"	FALSE
"4936"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	111945095	111945095	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs145390614"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"."	7	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145390614"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0114"	"-:0.0023"	"-:0.0317"	NA	"-:0"	"-:0.0288"	"-:0.0031"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCA"	"7382587e-280f-11e6-a9ee-1433424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.368421052631579	"WXS"	FALSE
"4937"	"MCC"	4163	"mskcc.org"	"GRCh37"	"5"	112711525	112711526	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11452571"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.415+9139_415+9140insC"	""	""	"ENST00000408903"	""	6	"."	3	4	"."	0	"MCC,intron_variant,,ENST00000408903,NM_001085377.1;CTD-2201G3.1,intron_variant,,ENST00000416046,;"	"G"	"ENSG00000171444"	"ENST00000408903"	"Transcript"	"intron_variant"	"-/3476"	"-/3060"	"-/1019"	""	""	"rs11452571"	"1"	NA	-1	"MCC"	"HGNC"	6935	"protein_coding"	"YES"	"CCDS43351.1"	"ENSP00000386227"	"P23508"	"D6REY2"	"UPI00015E06EA"	"NM_001085377.1"	NA	NA	""	"2/18"	""	"-:0.4277"	"G:0.975"	"G:0.5965"	NA	"G:0.3175"	"G:0.5159"	"G:0.3313"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8d05d55a-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4938"	"YTHDC2"	64848	"mskcc.org"	"GRCh37"	"5"	112862058	112862058	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs33925878"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.476-222delT"	""	""	"ENST00000161863"	""	16	"."	5	4	"."	0	"YTHDC2,intron_variant,,ENST00000161863,NM_022828.3;YTHDC2,intron_variant,,ENST00000515883,;YTHDC2,intron_variant,,ENST00000514720,;YTHDC2,intron_variant,,ENST00000503857,;"	"-"	"ENSG00000047188"	"ENST00000161863"	"Transcript"	"intron_variant"	"-/6316"	"-/4293"	"-/1430"	""	""	"rs33925878"	"1"	NA	1	"YTHDC2"	"HGNC"	24721	"protein_coding"	"YES"	"CCDS4113.1"	"ENSP00000161863"	"Q9H6S0"	"D6RA70"	"UPI0000367311"	"NM_022828.3"	NA	NA	""	"3/29"	""	"T:0.4295"	"-:0.966"	"-:0.5922"	NA	"-:0.3155"	"-:0.497"	"-:0.3589"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"73b28c60-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"4939"	"YTHDC2"	64848	"mskcc.org"	"GRCh37"	"5"	112889937	112889940	"+"	"Intron"	"DEL"	"TAAA"	"TAAA"	"-"	"rs72295461"	NA	"JHCCPT5"	"JHCCPN5"	"TAAA"	"TAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2133+221_2133+224delATAA"	""	""	"ENST00000161863"	""	10	"."	3	3	"."	0	"YTHDC2,intron_variant,,ENST00000161863,NM_022828.3;YTHDC2,intron_variant,,ENST00000515883,;YTHDC2,intron_variant,,ENST00000503857,;"	"-"	"ENSG00000047188"	"ENST00000161863"	"Transcript"	"intron_variant"	"-/6316"	"-/4293"	"-/1430"	""	""	"rs72295461"	"1"	NA	1	"YTHDC2"	"HGNC"	24721	"protein_coding"	"YES"	"CCDS4113.1"	"ENSP00000161863"	"Q9H6S0"	"D6RA70"	"UPI0000367311"	"NM_022828.3"	NA	NA	""	"16/29"	""	"-:0.0464"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTAAAT"	"73bdbd06-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"4940"	"CCDC112"	153733	"mskcc.org"	"GRCh37"	"5"	114634043	114634044	"+"	"5'Flank"	"INS"	"-"	"-"	"AGA"	"rs140402927"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000379611"	""	19	"."	5	8	"."	0	"CCDC112,upstream_gene_variant,,ENST00000379611,NM_001040440.2;CCDC112,upstream_gene_variant,,ENST00000512261,;CCDC112,upstream_gene_variant,,ENST00000506442,;CCDC112,upstream_gene_variant,,ENST00000395557,NM_152549.2;CCDC112,upstream_gene_variant,,ENST00000503027,;"	"AGA"	"ENSG00000164221"	"ENST00000379611"	"Transcript"	"upstream_gene_variant"	"-/2566"	"-/1590"	"-/529"	""	""	"rs140402927"	"1"	"1515"	-1	"CCDC112"	"HGNC"	28599	"protein_coding"	"YES"	"CCDS34213.1"	"ENSP00000368931"	"Q8NEF3"	""	"UPI000020C43F"	"NM_001040440.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"8d337140-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"4941"	"ATG12"	9140	"mskcc.org"	"GRCh37"	"5"	115167574	115167596	"+"	"Intron"	"DEL"	"AGGCAATAAATCAAACTCAATCT"	"AGGCAATAAATCAAACTCAATCT"	"GGCAATAAATCAAACTCAATC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AGGCAATAAATCAAACTCAATCT"	"AGGCAATAAATCAAACTCAATCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.364-36_364-14delAGATTGAGTTTGATTTATTGCCTinsGATTGAGTTTGATTTATTGCC"	""	""	"ENST00000509910"	""	74	"."	4	20	"."	0	"ATG12,intron_variant,,ENST00000509910,;ATG12,intron_variant,,ENST00000274459,NM_004707.3;ATG12,intron_variant,,ENST00000500945,NM_001277783.1;ATG12,intron_variant,,ENST00000509598,;ATG12,intron_variant,,ENST00000513292,;ATG12,intron_variant,,ENST00000505252,;ATG12,intron_variant,,ENST00000513322,;ATG12,intron_variant,,ENST00000508464,;ATG12,intron_variant,,ENST00000379594,;ATG12,intron_variant,,ENST00000507793,;ATG12,intron_variant,,ENST00000505993,;ATG12,intron_variant,,ENST00000513167,;ATG12,intron_variant,,ENST00000511984,;"	"GGCAATAAATCAAACTCAATC"	"ENSG00000145782"	"ENST00000509910"	"Transcript"	"intron_variant"	"-/4333"	"-/423"	"-/140"	""	""	""	"1"	NA	-1	"ATG12"	"HGNC"	588	"protein_coding"	"YES"	"CCDS4122.2"	"ENSP00000425107"	"O94817"	""	"UPI0000125C66"	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGGCAATAAATCAAACTCAATCTT"	"827068ee-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0540540540540541	"WXS"	FALSE
"4942"	"CTD-3179P9.1"	0	"mskcc.org"	"GRCh37"	"5"	117403311	117403311	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs67083143"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.254+71887delG"	""	""	"ENST00000509669"	""	14	"."	3	3	"."	0	"CTD-3179P9.1,intron_variant,,ENST00000509669,;"	"-"	"ENSG00000249797"	"ENST00000509669"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/637"	""	""	""	""	"rs67083143"	"1"	NA	1	"CTD-3179P9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"2/3"	""	"G:0.4113"	"-:0.3192"	"-:0.6657"	NA	"-:0.8423"	"-:0.6074"	"-:0.6176"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGG"	"742e3b08-280f-11e6-a9ee-1433424a729f"	"158"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"4943"	"HSD17B4"	3295	"mskcc.org"	"GRCh37"	"5"	118835399	118835400	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs574481770"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1284+156dupT"	""	""	"ENST00000504811"	""	32	"."	9	14	"."	0	"HSD17B4,intron_variant,,ENST00000504811,NM_001199291.1;HSD17B4,intron_variant,,ENST00000256216,NM_000414.3;HSD17B4,intron_variant,,ENST00000510025,;HSD17B4,intron_variant,,ENST00000414835,;HSD17B4,intron_variant,,ENST00000515320,NM_001199292.1;HSD17B4,intron_variant,,ENST00000509514,;HSD17B4,intron_variant,,ENST00000513628,;HSD17B4,intron_variant,,ENST00000518349,;HSD17B4,intron_variant,,ENST00000520216,;HSD17B4,upstream_gene_variant,,ENST00000520244,;HSD17B4,intron_variant,,ENST00000515235,;HSD17B4,intron_variant,,ENST00000442060,;HSD17B4,downstream_gene_variant,,ENST00000512029,;"	"T"	"ENSG00000133835"	"ENST00000504811"	"Transcript"	"intron_variant"	"-/2740"	"-/2286"	"-/761"	""	""	"rs574481770"	"1"	NA	1	"HSD17B4"	"HGNC"	5213	"protein_coding"	"YES"	"CCDS56379.1"	"ENSP00000420914"	"P51659"	"Q9UBA4,E7EWE5,E7ET17"	"UPI0001AE7403"	"NM_001199291.1"	NA	NA	""	"14/24"	""	"T:0.0018"	"T:0"	"T:0.0014"	NA	"T:0"	"T:0.008"	"T:0"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"8d5b05d4-280f-11e6-a9ee-1433424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28125	"WXS"	FALSE
"4944"	"HSD17B4"	3295	"mskcc.org"	"GRCh37"	"5"	118861979	118861980	"+"	"Intron"	"INS"	"-"	"-"	"TATATATATATG"	"rs6149207"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1755+272_1755+273insGTATATATATAT"	""	""	"ENST00000504811"	""	12	"."	5	5	"."	0	"HSD17B4,intron_variant,,ENST00000504811,NM_001199291.1;HSD17B4,intron_variant,,ENST00000256216,NM_000414.3;HSD17B4,intron_variant,,ENST00000510025,;HSD17B4,intron_variant,,ENST00000414835,;HSD17B4,intron_variant,,ENST00000515320,NM_001199292.1;HSD17B4,intron_variant,,ENST00000509514,;HSD17B4,intron_variant,,ENST00000513628,;HSD17B4,intron_variant,,ENST00000522415,;HSD17B4,intron_variant,,ENST00000509951,;HSD17B4,downstream_gene_variant,,ENST00000518349,;HSD17B4,downstream_gene_variant,,ENST00000520244,;HSD17B4,intron_variant,,ENST00000515235,;HSD17B4,intron_variant,,ENST00000442060,;HSD17B4,intron_variant,,ENST00000507353,;HSD17B4,upstream_gene_variant,,ENST00000509606,;"	"TATATATATATG"	"ENSG00000133835"	"ENST00000504811"	"Transcript"	"intron_variant"	"-/2740"	"-/2286"	"-/761"	""	""	"rs6149207"	"1"	NA	1	"HSD17B4"	"HGNC"	5213	"protein_coding"	"YES"	"CCDS56379.1"	"ENSP00000420914"	"P51659"	"Q9UBA4,E7EWE5,E7ET17"	"UPI0001AE7403"	"NM_001199291.1"	NA	NA	""	"20/24"	""	"-:0.3177"	"TATATATATATG:0.7005"	"TATATATATATG:0.6499"	NA	"TATATATATATG:0.9097"	"TATATATATATG:0.5477"	"TATATATATATG:0.5849"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"11"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"8d5e9eb0-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"4945"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	123424530	123424531	"+"	"IGR"	"INS"	"-"	"-"	"GA"	"rs144902533"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"GA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144902533"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.0066"	"A:0.0219"	"A:0.0029"	NA	"A:0.002"	"A:0"	"A:0"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"8da7e426-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4946"	"GRAMD3"	65983	"mskcc.org"	"GRCh37"	"5"	125835836	125835837	"+"	"3'Flank"	"DEL"	"TC"	"TC"	"-"	"rs139794307"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000503702"	""	8	"."	5	1	"."	0	"GRAMD3,downstream_gene_variant,,ENST00000503702,;"	"-"	"ENSG00000155324"	"ENST00000503702"	"Transcript"	"downstream_gene_variant"	"-/375"	""	""	""	""	"rs139794307"	"1"	"3650"	1	"GRAMD3"	"HGNC"	24911	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3490"	"-:0.593"	"-:0.268"	NA	"-:0.2044"	"-:0.336"	"-:0.2393"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTCT"	"750d8e34-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4947"	"RP11-434D11.4"	0	"mskcc.org"	"GRCh37"	"5"	126094299	126094299	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs5871229"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.280-2895delT"	""	""	"ENST00000509185"	""	8	"."	4	1	"."	0	"RP11-434D11.4,intron_variant,,ENST00000509185,;RNU6-752P,upstream_gene_variant,,ENST00000516376,;"	"-"	"ENSG00000251072"	"ENST00000509185"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/914"	""	""	""	""	"rs5871229"	"1"	NA	-1	"RP11-434D11.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	"A:0.3349"	"-:0.6021"	"-:0.7118"	NA	"-:0.6528"	"-:0.6899"	"-:0.7045"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAA"	"751aada8-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4948"	"ADAMTS19"	171019	"mskcc.org"	"GRCh37"	"5"	129020192	129020193	"+"	"Intron"	"INS"	"-"	"-"	"CATTATATTACATTA"	"rs143668031"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2800+231_2800+232insTATTACATTACATTA"	""	""	"ENST00000274487"	""	16	"."	4	8	"."	0	"ADAMTS19,intron_variant,,ENST00000274487,NM_133638.3;CTC-575N7.1,intron_variant,,ENST00000503616,;ADAMTS19,upstream_gene_variant,,ENST00000509467,;"	"CATTATATTACATTA"	"ENSG00000145808"	"ENST00000274487"	"Transcript"	"intron_variant"	"-/5234"	"-/3624"	"-/1207"	""	""	"rs143668031"	"1"	NA	1	"ADAMTS19"	"HGNC"	17111	"protein_coding"	"YES"	"CCDS4146.1"	"ENSP00000274487"	"Q8TE59"	""	"UPI000013DA0D"	"NM_133638.3"	NA	NA	""	"18/22"	""	"-:0.0463"	"CATTATATTACATTA:0.9902"	"CATTATATTACATTA:0.938"	NA	"CATTATATTACATTA:0.994"	"CATTATATTACATTA:0.9145"	"CATTATATTACATTA:0.9141"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"8e061aa0-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4949"	"RP11-114H7.2"	0	"mskcc.org"	"GRCh37"	"5"	130326161	130326161	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"rs60647586"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000508316"	""	8	"."	5	2	"."	0	"RP11-114H7.2,upstream_gene_variant,,ENST00000508316,;RP11-114H7.1,downstream_gene_variant,,ENST00000498453,;"	"-"	"ENSG00000250405"	"ENST00000508316"	"Transcript"	"upstream_gene_variant"	"-/1912"	""	""	""	""	"rs60647586"	"1"	"3785"	1	"RP11-114H7.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"G:0.2532"	"-:0.7133"	"-:0.7925"	NA	"-:0.7728"	"-:0.7664"	"-:0.7127"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"75a1d792-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"4950"	"PITX1"	5307	"mskcc.org"	"GRCh37"	"5"	134364157	134364158	"+"	"3'UTR"	"INS"	"-"	"-"	"AC"	"rs70976561"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*310_*311dupGT"	""	""	"ENST00000265340"	"3/3"	9	"."	4	2	"."	0	"PITX1,3_prime_UTR_variant,,ENST00000265340,NM_002653.4;C5orf66,upstream_gene_variant,,ENST00000432382,NM_001277348.1;PITX1,downstream_gene_variant,,ENST00000506438,;PITX1,downstream_gene_variant,,ENST00000502676,;PITX1,downstream_gene_variant,,ENST00000503586,;PITX1,downstream_gene_variant,,ENST00000507253,;C5orf66,upstream_gene_variant,,ENST00000505828,;C5orf66,upstream_gene_variant,,ENST00000507641,;PITX1,downstream_gene_variant,,ENST00000504936,;"	"AC"	"ENSG00000069011"	"ENST00000265340"	"Transcript"	"3_prime_UTR_variant"	"1673-1674/2406"	"-/945"	"-/314"	""	""	"rs70976561"	"1"	NA	-1	"PITX1"	"HGNC"	9004	"protein_coding"	"YES"	"CCDS4182.1"	"ENSP00000265340"	"P78337"	"D6R9U1,D6R955"	"UPI0000169650"	"NM_002653.4"	NA	NA	"3/3"	""	""	"-:0.1138"	"AC:0.9644"	"AC:0.8098"	NA	"AC:0.9891"	"AC:0.7356"	"AC:0.8834"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAA"	"8ea13b2a-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4951"	"H2AFY"	9555	"mskcc.org"	"GRCh37"	"5"	134671136	134671137	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs3215115"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.954-306dupA"	""	""	"ENST00000511689"	""	7	"."	4	3	"."	0	"H2AFY,intron_variant,,ENST00000511689,NM_138610.2,NM_001040158.1;C5orf66,intron_variant,,ENST00000432382,NM_001277348.1;H2AFY,intron_variant,,ENST00000304332,NM_004893.2;H2AFY,intron_variant,,ENST00000312469,NM_138609.2;H2AFY,intron_variant,,ENST00000510038,;H2AFY,intron_variant,,ENST00000423969,;C5orf66,upstream_gene_variant,,ENST00000555438,;H2AFY,intron_variant,,ENST00000512507,;H2AFY,intron_variant,,ENST00000360597,;H2AFY,intron_variant,,ENST00000451949,;C5orf66,intron_variant,,ENST00000513931,;H2AFY,intron_variant,,ENST00000505827,;H2AFY,intron_variant,,ENST00000511494,;H2AFY,intron_variant,,ENST00000506671,;"	"T"	"ENSG00000113648"	"ENST00000511689"	"Transcript"	"intron_variant"	"-/2789"	"-/1119"	"-/372"	""	""	"rs3215115"	"1"	NA	-1	"H2AFY"	"HGNC"	4740	"protein_coding"	"YES"	"CCDS4185.1"	"ENSP00000423563"	"O75367"	""	"UPI00000723ED"	"NM_138610.2,NM_001040158.1"	NA	NA	""	"8/8"	""	"T:0.1156"	"T:0.2587"	"T:0.0562"	NA	"T:0.0556"	"T:0.0656"	"T:0.0777"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"8ea87782-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4952"	"KDM3B"	51780	"mskcc.org"	"GRCh37"	"5"	137750647	137750648	"+"	"Intron"	"INS"	"-"	"-"	"AAAT"	"rs148266134"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3200-158_3200-155dupTAAA"	""	""	"ENST00000314358"	""	32	"."	4	5	"."	0	"KDM3B,intron_variant,,ENST00000314358,NM_016604.3;KDM3B,intron_variant,,ENST00000394866,;KDM3B,intron_variant,,ENST00000542866,;KDM3B,upstream_gene_variant,,ENST00000508386,;KDM3B,intron_variant,,ENST00000510866,;KDM3B,intron_variant,,ENST00000507996,;"	"AAAT"	"ENSG00000120733"	"ENST00000314358"	"Transcript"	"intron_variant"	"-/6813"	"-/5286"	"-/1761"	""	""	"rs148266134"	"1"	NA	1	"KDM3B"	"HGNC"	1337	"protein_coding"	"YES"	"CCDS34242.1"	"ENSP00000326563"	"Q7LBC6"	"F5H275"	"UPI000020C6A8"	"NM_016604.3"	NA	NA	""	"11/23"	""	"AAAT:0.1116"	"AAAT:0.0091"	"AAAT:0.1037"	NA	"AAAT:0.0228"	"AAAT:0.171"	"AAAT:0.2863"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"19"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"8f65feb0-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"4953"	"CTNNA1"	1495	"mskcc.org"	"GRCh37"	"5"	138163715	138163716	"+"	"Intron"	"INS"	"-"	"T"	"T"	"rs28363412"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1062+308_1062+309insT"	""	""	"ENST00000302763"	""	6	"."	5	1	"."	0	"CTNNA1,intron_variant,,ENST00000302763,NM_001903.2;CTNNA1,intron_variant,,ENST00000518825,;CTNNA1,intron_variant,,ENST00000355078,;CTNNA1,downstream_gene_variant,,ENST00000520158,;CTNNA1,downstream_gene_variant,,ENST00000518910,;CTNNA1,downstream_gene_variant,,ENST00000518585,;CTNNA1,non_coding_transcript_exon_variant,,ENST00000522730,;CTNNA1,intron_variant,,ENST00000521724,;CTNNA1,intron_variant,,ENST00000523275,;CTNNA1,intron_variant,,ENST00000517534,;CTNNA1,downstream_gene_variant,,ENST00000519309,;CTNNA1,downstream_gene_variant,,ENST00000518919,;"	"T"	"ENSG00000044115"	"ENST00000302763"	"Transcript"	"intron_variant"	"-/3756"	"-/2721"	"-/906"	""	""	"rs28363412"	"1"	NA	1	"CTNNA1"	"HGNC"	2509	"protein_coding"	"YES"	"CCDS34243.1"	"ENSP00000304669"	"P35221"	"F8W845,E5RJP7,E5RJL0,E5RJC9,E5RJ43,E5RJ41,E5RIE0,E5RIB1,E5RHY5,E5RHV7,E5RHR7,E5RHJ5,E5RGY6,E5RGU3,E5RGS1,E5RGG4,E5RGD2,E5RG03,E5RFM5,E5RFM3,E5RFK9,E5RFG3,B4E2G8,B4DKT9"	"UPI000012862C"	"NM_001903.2"	NA	NA	""	"7/17"	""	"-:0.1857"	"T:0.8064"	"T:0.7536"	NA	"T:0.9921"	"T:0.7336"	"T:0.7679"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"8f6ca134-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"4954"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	141132956	141132956	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs11310874"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	5	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11310874"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.4706"	"-:0.6006"	"-:0.4697"	NA	"-:0.4187"	"-:0.5239"	"-:0.5951"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTA"	"794bc2cc-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"4955"	"KIAA0141"	9812	"mskcc.org"	"GRCh37"	"5"	141305414	141305415	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs5871789"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.264+322_264+323insA"	""	""	"ENST00000432126"	""	23	"."	5	8	"."	0	"KIAA0141,intron_variant,,ENST00000432126,NM_014773.3,NM_001142603.1;KIAA0141,intron_variant,,ENST00000194118,;KIAA0141,intron_variant,,ENST00000508751,;KIAA0141,upstream_gene_variant,,ENST00000502729,;"	"A"	"ENSG00000081791"	"ENST00000432126"	"Transcript"	"intron_variant"	"-/4970"	"-/1548"	"-/515"	""	""	"rs5871789"	"1"	NA	1	"KIAA0141"	"HGNC"	28969	"protein_coding"	"YES"	"CCDS4268.1"	"ENSP00000396225"	"Q14154"	""	"UPI0000139350"	"NM_014773.3,NM_001142603.1"	NA	NA	""	"3/11"	""	"-:0.2488"	"A:0.8729"	"A:0.6945"	NA	"A:0.8532"	"A:0.5378"	"A:0.7413"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"903cef06-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WXS"	FALSE
"4956"	"RNF14"	9604	"mskcc.org"	"GRCh37"	"5"	141373269	141373270	"+"	"3'Flank"	"INS"	"-"	"-"	"AAAAAAAAACAAAAAAC"	"rs11274376"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000394520"	""	9	"."	3	2	"."	0	"GNPDA1,intron_variant,,ENST00000513454,;RNF14,downstream_gene_variant,,ENST00000394520,NM_004290.4,NM_001201365.1;RNF14,downstream_gene_variant,,ENST00000394519,NM_183401.2;RNF14,downstream_gene_variant,,ENST00000347642,NM_183400.2;RNF14,downstream_gene_variant,,ENST00000394514,NM_183398.2;RNF14,downstream_gene_variant,,ENST00000356143,NM_183399.2;"	"AAAAAAAAACAAAAAAC"	"ENSG00000013561"	"ENST00000394520"	"Transcript"	"downstream_gene_variant"	"-/4235"	"-/1425"	"-/474"	""	""	"rs11274376"	"1"	"3413"	1	"RNF14"	"HGNC"	10058	"protein_coding"	"YES"	"CCDS4270.1"	"ENSP00000378028"	"Q9UBS8"	"D6RDU6,D6RBU3,D6RAS4,D6RA38,D6R996,D6R988"	"UPI0000134319"	"NM_004290.4,NM_001201365.1"	NA	NA	""	""	""	"-:0.0843"	"AAAAAAAAACAAAAAAC:0.9448"	"AAAAAAAAACAAAAAAC:0.9164"	NA	"AAAAAAAAACAAAAAAC:0.9812"	"AAAAAAAAACAAAAAAC:0.831"	"AAAAAAAAACAAAAAAC:0.8957"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"904cd812-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4957"	"LARS"	51520	"mskcc.org"	"GRCh37"	"5"	145512380	145512380	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2396+81delC"	""	""	"ENST00000394434"	""	199	"."	6	21	"."	0	"LARS,intron_variant,,ENST00000394434,NM_020117.9;LARS,intron_variant,,ENST00000274562,;LARS,intron_variant,,ENST00000545646,;LARS,intron_variant,,ENST00000510191,;LARS,downstream_gene_variant,,ENST00000512412,;LARS,upstream_gene_variant,,ENST00000506231,;LARS,upstream_gene_variant,,ENST00000508709,;LARS,upstream_gene_variant,,ENST00000504611,;RP11-449H3.1,upstream_gene_variant,,ENST00000477363,;"	"-"	"ENSG00000133706"	"ENST00000394434"	"Transcript"	"intron_variant"	"-/4766"	"-/3531"	"-/1176"	""	""	""	"1"	NA	-1	"LARS"	"HGNC"	6512	"protein_coding"	"YES"	"CCDS34265.1"	"ENSP00000377954"	"Q9P2J5"	"Q9NVC0,Q9NPU8,Q9HAM7,Q2TU79,B4DJ10,B3KXA9"	"UPI0000037316"	"NM_020117.9"	NA	NA	""	"23/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAGA"	"79c13e26-280f-11e6-a9ee-1433424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0301507537688442	"WXS"	FALSE
"4958"	"ARHGEF37"	389337	"mskcc.org"	"GRCh37"	"5"	149011244	149011245	"+"	"Intron"	"INS"	"-"	"-"	"CCTTGACTTC"	"rs146780850"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1819-300_1819-291dupCCTTGACTTC"	""	""	"ENST00000333677"	""	17	"."	5	4	"."	0	"ARHGEF37,intron_variant,,ENST00000333677,NM_001001669.2;ARHGEF37,intron_variant,,ENST00000509831,;"	"CCTTGACTTC"	"ENSG00000183111"	"ENST00000333677"	"Transcript"	"intron_variant"	"-/4968"	"-/2028"	"-/675"	""	""	"rs146780850"	"1"	NA	1	"ARHGEF37"	"HGNC"	34430	"protein_coding"	"YES"	"CCDS43385.1"	"ENSP00000328083"	"A1IGU5"	"D6RJH4"	"UPI00001D7F04"	"NM_001001669.2"	NA	NA	""	"12/12"	""	"CCTTGACTTC:0.0569"	"CCTTGACTTC:0.0023"	"CCTTGACTTC:0"	NA	"CCTTGACTTC:0.247"	"CCTTGACTTC:0.004"	"CCTTGACTTC:0.0297"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"91137472-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"4959"	"SLC26A2"	1836	"mskcc.org"	"GRCh37"	"5"	149359554	149359555	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs574356138"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.700-292dupA"	""	""	"ENST00000286298"	""	12	"."	6	2	"."	0	"SLC26A2,intron_variant,,ENST00000286298,NM_000112.3;SLC26A2,intron_variant,,ENST00000503336,;SLC26A2,downstream_gene_variant,,ENST00000433184,;"	"A"	"ENSG00000155850"	"ENST00000286298"	"Transcript"	"intron_variant"	"-/8080"	"-/2220"	"-/739"	""	""	"rs574356138"	"1"	NA	1	"SLC26A2"	"HGNC"	10994	"protein_coding"	"YES"	"CCDS4300.1"	"ENSP00000286298"	"P50443"	"H0YA38,C9JAN6"	"UPI000013DE3D"	"NM_000112.3"	NA	NA	""	"2/2"	""	"A:0.1302"	"A:0.1089"	"A:0.2651"	NA	"A:0.1052"	"A:0.1551"	"A:0.0634"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"9123ab6c-280f-11e6-a9ee-1433424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4960"	"CCDC69"	26112	"mskcc.org"	"GRCh37"	"5"	150567074	150567075	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs36036156"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.320-55dupC"	""	""	"ENST00000355417"	""	187	"."	8	103	"."	0	"CCDC69,intron_variant,,ENST00000355417,NM_015621.2;CCDC69,intron_variant,,ENST00000521308,;CCDC69,intron_variant,,ENST00000518189,;CCDC69,intron_variant,,ENST00000522964,;CCDC69,upstream_gene_variant,,ENST00000519448,;"	"G"	"ENSG00000198624"	"ENST00000355417"	"Transcript"	"intron_variant"	"-/3451"	"-/891"	"-/296"	""	""	"rs36036156"	"1"	NA	-1	"CCDC69"	"HGNC"	24487	"protein_coding"	"YES"	"CCDS4312.1"	"ENSP00000347586"	"A6NI79"	""	"UPI000020CFF2"	"NM_015621.2"	NA	NA	""	"4/8"	""	"-:0.3808"	"G:0.5219"	"G:0.7824"	NA	"G:0.5149"	"G:0.6879"	"G:0.6718"	"G:0.5539"	"G:0.6536"	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"916e6396-280f-11e6-a9ee-1433424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0427807486631016	"WXS"	FALSE
"4961"	"GM2A"	2760	"mskcc.org"	"GRCh37"	"5"	150627729	150627730	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"rs34498061"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000357164"	""	7	"."	4	1	"."	0	"GM2A,intron_variant,,ENST00000523466,;GM2A,upstream_gene_variant,,ENST00000357164,NM_000405.4,NM_001167607.1;"	"C"	"ENSG00000196743"	"ENST00000357164"	"Transcript"	"upstream_gene_variant"	"-/3896"	"-/582"	"-/193"	""	""	"rs34498061"	"1"	"4723"	1	"GM2A"	"HGNC"	4367	"protein_coding"	"YES"	"CCDS4313.1"	"ENSP00000349687"	"P17900"	""	"UPI00001AEC37"	"NM_000405.4,NM_001167607.1"	NA	NA	""	""	""	"-:0.4868"	"C:0.5681"	"C:0.5706"	NA	"C:0.626"	"C:0.3618"	"C:0.4376"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"916f164c-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"4962"	"SLC36A2"	153201	"mskcc.org"	"GRCh37"	"5"	150719738	150719739	"+"	"Intron"	"INS"	"-"	"-"	"GAGGAGGA"	"rs143313685"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.441-1041_441-1034dupTCCTCCTC"	""	""	"ENST00000335244"	""	15	"."	4	6	"."	0	"SLC36A2,intron_variant,,ENST00000335244,NM_181776.2;SLC36A2,intron_variant,,ENST00000521967,;SLC36A2,intron_variant,,ENST00000518617,;SLC36A2,intron_variant,,ENST00000518280,;SLC36A2,intron_variant,,ENST00000522829,;"	"GAGGAGGA"	"ENSG00000186335"	"ENST00000335244"	"Transcript"	"intron_variant"	"-/3421"	"-/1452"	"-/483"	""	""	"rs143313685"	"1"	NA	-1	"SLC36A2"	"HGNC"	18762	"protein_coding"	"YES"	"CCDS4315.1"	"ENSP00000334223"	"Q495M3"	"E5RGH8"	"UPI000020D008"	"NM_181776.2"	NA	NA	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"9174e9aa-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"4963"	"CNOT8"	9337	"mskcc.org"	"GRCh37"	"5"	154237761	154237762	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs558468553"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000517876"	""	7	"."	3	1	"."	0	"FAXDC2,intron_variant,,ENST00000520968,;CNOT8,upstream_gene_variant,,ENST00000517876,;CNOT8,upstream_gene_variant,,ENST00000403027,NM_004779.4;CNOT8,upstream_gene_variant,,ENST00000285896,;CNOT8,upstream_gene_variant,,ENST00000521450,;CNOT8,upstream_gene_variant,,ENST00000521583,;CNOT8,upstream_gene_variant,,ENST00000519404,;CNOT8,upstream_gene_variant,,ENST00000520671,;CNOT8,upstream_gene_variant,,ENST00000518775,;CNOT8,upstream_gene_variant,,ENST00000520472,;CNOT8,upstream_gene_variant,,ENST00000524105,;CNOT8,upstream_gene_variant,,ENST00000523698,;CNOT8,upstream_gene_variant,,ENST00000517568,;CNOT8,upstream_gene_variant,,ENST00000519903,;CNOT8,upstream_gene_variant,,ENST00000522458,;CNOT8,upstream_gene_variant,,ENST00000519211,;CNOT8,upstream_gene_variant,,ENST00000519430,;CNOT8,upstream_gene_variant,,ENST00000518028,;CNOT8,upstream_gene_variant,,ENST00000519394,;CNOT8,intron_variant,,ENST00000521174,;CNOT8,upstream_gene_variant,,ENST00000521402,;CNOT8,upstream_gene_variant,,ENST00000523270,;CNOT8,upstream_gene_variant,,ENST00000518782,;CNOT8,upstream_gene_variant,,ENST00000521729,;CNOT8,upstream_gene_variant,,ENST00000522644,;"	"G"	"ENSG00000155508"	"ENST00000517876"	"Transcript"	"upstream_gene_variant"	"-/2708"	"-/879"	"-/292"	""	""	"rs558468553"	"1"	"50"	1	"CNOT8"	"HGNC"	9207	"protein_coding"	"YES"	"CCDS4329.1"	"ENSP00000430493"	"Q9UFF9"	"E5RK92,E5RJC5,E5RIU0,E5RHG0,E5RGE4,E5RFJ4,B7Z9U0,B7Z5Z0,B0AZS3"	"UPI0000000E08"	""	NA	NA	""	""	""	"-:0.2286"	"G:0.9138"	"G:0.7435"	NA	"G:0.4504"	"G:0.8867"	"G:0.8108"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"91cad63a-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4964"	"GEMIN5"	25929	"mskcc.org"	"GRCh37"	"5"	154315918	154316002	"+"	"Intron"	"DEL"	"AGTGAGCCAAGATCCCGCCATTGCACTCCAGCCTGGGCGACAGAGCCAGACTCCGTCTCAAAAAAAAAAAAAAAAGTAATTAATA"	"AGTGAGCCAAGATCCCGCCATTGCACTCCAGCCTGGGCGACAGAGCCAGACTCCGTCTCAAAAAAAAAAAAAAAAGTAATTAATA"	"-"	"rs10522124"	NA	"JHCCPT5"	"JHCCPN5"	"AGTGAGCCAAGATCCCGCCATTGCACTCCAGCCTGGGCGACAGAGCCAGACTCCGTCTCAAAAAAAAAAAAAAAAGTAATTAATA"	"AGTGAGCCAAGATCCCGCCATTGCACTCCAGCCTGGGCGACAGAGCCAGACTCCGTCTCAAAAAAAAAAAAAAAAGTAATTAATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.328-420_328-336delTATTAATTACTTTTTTTTTTTTTTTTGAGACGGAGTCTGGCTCTGTCGCCCAGGCTGGAGTGCAATGGCGGGATCTTGGCTCACT"	""	""	"ENST00000285873"	""	6	"."	4	2	"."	0	"GEMIN5,intron_variant,,ENST00000285873,NM_001252156.1,NM_015465.4;MRPL22,upstream_gene_variant,,ENST00000523037,NM_014180.3;MRPL22,upstream_gene_variant,,ENST00000522038,;MRPL22,upstream_gene_variant,,ENST00000265229,NM_001014990.2;MRPL22,upstream_gene_variant,,ENST00000439747,;GEMIN5,upstream_gene_variant,,ENST00000523355,;MRPL22,upstream_gene_variant,,ENST00000519059,;"	"-"	"ENSG00000082516"	"ENST00000285873"	"Transcript"	"intron_variant"	"-/5397"	"-/4527"	"-/1508"	""	""	"rs10522124"	"1"	NA	-1	"GEMIN5"	"HGNC"	20043	"protein_coding"	"YES"	"CCDS4330.1"	"ENSP00000285873"	"Q8TEQ6"	"Q58EZ8"	"UPI000020D072"	"NM_001252156.1,NM_015465.4"	NA	NA	""	"2/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAGTGAGCCAAGATCCCGCCATTGCACTCCAGCCTGGGCGACAGAGCCAGACTCCGTCTCAAAAAAAAAAAAAAAAGTAATTAATAC"	"7c03b1be-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4965"	"SGCD"	6444	"mskcc.org"	"GRCh37"	"5"	156015998	156015999	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTGTGTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.295-218_295-207dupTGTGTGTGTGTG"	""	""	"ENST00000337851"	""	17	"."	3	12	"."	0	"SGCD,intron_variant,,ENST00000435422,NM_001128209.1;SGCD,intron_variant,,ENST00000337851,NM_000337.5;SGCD,intron_variant,,ENST00000447401,NM_172244.2;SGCD,intron_variant,,ENST00000517913,;SGCD,intron_variant,,ENST00000524347,;"	"TGTGTGTGTGTG"	"ENSG00000170624"	"ENST00000337851"	"Transcript"	"intron_variant"	"-/1606"	"-/873"	"-/290"	""	""	""	"1"	NA	1	"SGCD"	"HGNC"	10807	"protein_coding"	"YES"	"CCDS47325.1"	"ENSP00000338343"	"Q92629"	""	"UPI00001678CF"	"NM_000337.5"	NA	NA	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"36"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"91d5b4ec-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"4966"	"LSM11"	134353	"mskcc.org"	"GRCh37"	"5"	157180950	157180961	"+"	"Intron"	"DEL"	"AAGCTATACAAA"	"AAGCTATACAAA"	"GCTATACA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAGCTATACAAA"	"AAGCTATACAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.589-62_589-52delAAGCTATACAAinsGCTATAC"	""	""	"ENST00000286307"	""	203	"."	17	44	"."	0	"LSM11,intron_variant,,ENST00000286307,NM_173491.2;"	"GCTATAC"	"ENSG00000155858"	"ENST00000286307"	"Transcript"	"intron_variant"	"-/6584"	"-/1083"	"-/360"	""	""	""	"1"	NA	1	"LSM11"	"HGNC"	30860	"protein_coding"	"YES"	"CCDS4342.1"	"ENSP00000286307"	"P83369"	""	"UPI0000072830"	"NM_173491.2"	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAGCTATACAAAT"	"82c62ba8-280f-11e6-a9ee-1433424a729f"	"1020"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.083743842364532	"WXS"	FALSE
"4967"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	165631342	165631345	"+"	"IGR"	"DEL"	"TTGT"	"TTGT"	"-"	"rs57300664"	NA	"JHCCPT5"	"JHCCPN5"	"TTGT"	"TTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs57300664"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATTGTT"	"7d503682-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4968"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	165830914	165830915	"+"	"IGR"	"INS"	"-"	"-"	"TCTTTTCTTT"	"rs5872980"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	7	4	"."	0	""	"TCTTTTCTTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5872980"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"92549a5a-280f-11e6-a9ee-1433424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4375	"WXS"	FALSE
"4969"	"RARS"	5917	"mskcc.org"	"GRCh37"	"5"	167914925	167914925	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs2307771"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.46-682delC"	""	""	"ENST00000231572"	""	16	"."	4	9	"."	0	"RARS,intron_variant,,ENST00000231572,NM_002887.3;RARS,intron_variant,,ENST00000538719,;RARS,intron_variant,,ENST00000520013,;RARS,intron_variant,,ENST00000524082,;RARS,intron_variant,,ENST00000521939,;RARS,intron_variant,,ENST00000521329,;RARS,intron_variant,,ENST00000522834,;RARS,upstream_gene_variant,,ENST00000519346,;"	"-"	"ENSG00000113643"	"ENST00000231572"	"Transcript"	"intron_variant"	"-/2146"	"-/1983"	"-/660"	""	""	"rs2307771"	"1"	NA	1	"RARS"	"HGNC"	9870	"protein_coding"	"YES"	"CCDS4367.1"	"ENSP00000231572"	"P54136"	"F5H3T8"	"UPI0000136648"	"NM_002887.3"	NA	NA	""	"1/14"	""	"-:0.1120"	"-:0.0454"	"-:0.111"	NA	"-:0.0863"	"-:0.1789"	"-:0.1605"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACA"	"7d9bbf94-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"4970"	"TLX3"	30012	"mskcc.org"	"GRCh37"	"5"	170740357	170740362	"+"	"3'Flank"	"DEL"	"TCTCTC"	"TCTCTC"	"-"	"rs72395371"	NA	"JHCCPT5"	"JHCCPN5"	"TCTCTC"	"TCTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000296921"	""	9	"."	5	4	"."	0	"TLX3,downstream_gene_variant,,ENST00000296921,NM_021025.2;"	"-"	"ENSG00000164438"	"ENST00000296921"	"Transcript"	"downstream_gene_variant"	"-/1493"	"-/876"	"-/291"	""	""	"rs72395371"	"1"	"1219"	1	"TLX3"	"HGNC"	13532	"protein_coding"	"YES"	"CCDS34288.1"	"ENSP00000296921"	"O43711"	""	"UPI000013E3AA"	"NM_021025.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTTCTCTCT"	"7e014134-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	TRUE
"4971"	"SH3PXD2B"	285590	"mskcc.org"	"GRCh37"	"5"	171796217	171796218	"+"	"Intron"	"INS"	"-"	"-"	"TTTTG"	"rs373659178"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.427+4572_427+4576dupCAAAA"	""	""	"ENST00000311601"	""	7	"."	3	1	"."	0	"SH3PXD2B,intron_variant,,ENST00000311601,NM_001017995.2;SH3PXD2B,intron_variant,,ENST00000519643,;"	"TTTTG"	"ENSG00000174705"	"ENST00000311601"	"Transcript"	"intron_variant"	"-/7777"	"-/2736"	"-/911"	""	""	"rs373659178"	"1"	NA	-1	"SH3PXD2B"	"HGNC"	29242	"protein_coding"	"YES"	"CCDS34291.1"	"ENSP00000309714"	"A1X283"	""	"UPI000020C12E"	"NM_001017995.2"	NA	NA	""	"6/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"92a6f80e-280f-11e6-a9ee-1433424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4972"	"CREBRF"	153222	"mskcc.org"	"GRCh37"	"5"	172523458	172523466	"+"	"Intron"	"DEL"	"CCCTCTCCT"	"CCCTCTCCT"	"-"	"rs142235721"	NA	"JHCCPT5"	"JHCCPN5"	"CCCTCTCCT"	"CCCTCTCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1222+5059_1222+5067delTCCTCCCTC"	""	""	"ENST00000296953"	""	10	"."	4	2	"."	0	"CREBRF,intron_variant,,ENST00000540014,;CREBRF,intron_variant,,ENST00000296953,NM_153607.2;CREBRF,downstream_gene_variant,,ENST00000522692,NM_001168393.1,NM_001168394.1;CREBRF,downstream_gene_variant,,ENST00000520420,;CREBRF,intron_variant,,ENST00000520464,;"	"-"	"ENSG00000164463"	"ENST00000296953"	"Transcript"	"intron_variant"	"-/7778"	"-/1920"	"-/639"	""	""	"rs142235721"	"1"	NA	1	"CREBRF"	"HGNC"	24050	"protein_coding"	"YES"	"CCDS34293.1"	"ENSP00000296953"	"Q8IUR6"	"E5RI19,B3KV47"	"UPI000049E01D"	"NM_153607.2"	NA	NA	""	"4/8"	""	"-:0.3153"	"-:0.2693"	"-:0.379"	NA	"-:0.1131"	"-:0.5726"	"-:0.2761"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCCCTCTCCTC"	"7e6994be-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4973"	"CPEB4"	80315	"mskcc.org"	"GRCh37"	"5"	173383297	173383298	"+"	"3'UTR"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*157_*158insA"	""	""	"ENST00000265085"	"10/10"	73	"."	17	57	"."	0	"CPEB4,3_prime_UTR_variant,,ENST00000265085,NM_030627.2;CPEB4,3_prime_UTR_variant,,ENST00000334035,;CPEB4,3_prime_UTR_variant,,ENST00000522336,;CPEB4,3_prime_UTR_variant,,ENST00000517880,;CPEB4,downstream_gene_variant,,ENST00000520867,;CPEB4,downstream_gene_variant,,ENST00000519835,;CPEB4,non_coding_transcript_exon_variant,,ENST00000519467,;"	"A"	"ENSG00000113742"	"ENST00000265085"	"Transcript"	"3_prime_UTR_variant"	"3801-3802/9483"	"-/2190"	"-/729"	""	""	""	"1"	NA	1	"CPEB4"	"HGNC"	21747	"protein_coding"	"YES"	"CCDS4390.1"	"ENSP00000265085"	"Q17RY0"	""	"UPI000020C179"	"NM_030627.2"	NA	NA	"10/10"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"92c152f8-280f-11e6-a9ee-1433424a729f"	"1020"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232876712328767	"WXS"	FALSE
"4974"	"C5orf47"	133491	"mskcc.org"	"GRCh37"	"5"	173401208	173401209	"+"	"Intron"	"INS"	"-"	"-"	"TGG"	"rs72534839"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.112+335_112+337dupGGT"	""	""	"ENST00000522195"	""	18	"."	6	7	"."	0	"C5orf47,intron_variant,,ENST00000522195,;"	"TGG"	"ENSG00000185056"	"ENST00000522195"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1198"	""	""	""	""	"rs72534839"	"1"	NA	1	"C5orf47"	"HGNC"	27026	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"-:0.2364"	"TGG:0.6082"	"TGG:0.7968"	NA	"TGG:0.877"	"TGG:0.7475"	"TGG:0.8497"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"22"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"92c335b4-280f-11e6-a9ee-1433424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"4975"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	173734317	173734318	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs34928091"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	5	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34928091"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3550"	"G:0.6331"	"G:0.696"	NA	"G:0.3819"	"G:0.7445"	"G:0.7935"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"92c53de6-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"4976"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	174598908	174598909	"+"	"IGR"	"INS"	"-"	"TATTG"	"TATTG"	"rs59164312"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	7	1	"."	0	""	"TATTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs59164312"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2654"	"TATTG:0.7958"	"TATTG:0.6009"	NA	"TATTG:0.8462"	"TATTG:0.6243"	"TATTG:0.7454"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"92cbf384-280f-11e6-a9ee-1433424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.777777777777778	"WXS"	FALSE
"4977"	"THOC3"	84321	"mskcc.org"	"GRCh37"	"5"	175394547	175394548	"+"	"Intron"	"INS"	"-"	"-"	"ACCACCAACGTACC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.268-278_268-277insGGTACGTTGGTGGT"	""	""	"ENST00000265097"	""	23	"."	4	3	"."	0	"THOC3,intron_variant,,ENST00000513482,;THOC3,intron_variant,,ENST00000265097,NM_032361.3;THOC3,intron_variant,,ENST00000514861,;THOC3,upstream_gene_variant,,ENST00000510300,;THOC3,intron_variant,,ENST00000514250,;THOC3,intron_variant,,ENST00000511062,;THOC3,intron_variant,,ENST00000513006,;THOC3,upstream_gene_variant,,ENST00000513118,;"	"ACCACCAACGTACC"	"ENSG00000051596"	"ENST00000265097"	"Transcript"	"intron_variant"	"-/1589"	"-/1056"	"-/351"	""	""	""	"1"	NA	-1	"THOC3"	"HGNC"	19072	"protein_coding"	"YES"	"CCDS4397.1"	"ENSP00000265097"	"Q96J01"	""	"UPI000006DDB3"	"NM_032361.3"	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"92d7c790-280f-11e6-a9ee-1433424a729f"	"118"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"4978"	"RP11-826N14.1"	0	"mskcc.org"	"GRCh37"	"5"	175464456	175464456	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"rs113725520"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000509643"	""	10	"."	3	2	"."	0	"THOC3,upstream_gene_variant,,ENST00000514861,;RP11-826N14.1,upstream_gene_variant,,ENST00000509643,;THOC3,upstream_gene_variant,,ENST00000514250,;THOC3,upstream_gene_variant,,ENST00000511062,;"	"-"	"ENSG00000250992"	"ENST00000509643"	"Transcript"	"upstream_gene_variant"	"-/684"	""	""	""	""	"rs113725520"	"1"	"3291"	1	"RP11-826N14.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2851"	"-:0.2617"	"-:0.2882"	NA	"-:0.2173"	"-:0.3718"	"-:0.2955"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAG"	"7ec86c14-280f-11e6-a9ee-1433424a729f"	"101"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"4979"	"CDHR2"	54825	"mskcc.org"	"GRCh37"	"5"	176019518	176019519	"+"	"Intron"	"INS"	"-"	"-"	"GTG"	"rs145575094"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3735-193_3735-191dupGTG"	""	""	"ENST00000510636"	""	52	"."	4	34	"."	0	"CDHR2,intron_variant,,ENST00000510636,NM_001171976.1;CDHR2,intron_variant,,ENST00000261944,NM_017675.4;CDHR2,intron_variant,,ENST00000506348,;GPRIN1,downstream_gene_variant,,ENST00000303991,NM_052899.2;CDHR2,downstream_gene_variant,,ENST00000513031,;CDHR2,downstream_gene_variant,,ENST00000508085,;CDHR2,downstream_gene_variant,,ENST00000416365,;"	"GTG"	"ENSG00000074276"	"ENST00000510636"	"Transcript"	"intron_variant"	"-/4509"	"-/3933"	"-/1310"	""	""	"rs145575094"	"1"	NA	1	"CDHR2"	"HGNC"	18231	"protein_coding"	"YES"	"CCDS34297.1"	"ENSP00000424565"	"Q9BYE9"	""	"UPI0000DBEE8C"	"NM_001171976.1"	NA	NA	""	"30/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"92fe695e-280f-11e6-a9ee-1433424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WXS"	FALSE
"4980"	"N4BP3"	23138	"mskcc.org"	"GRCh37"	"5"	177543184	177543196	"+"	"Intron"	"DEL"	"CAGCTGCCCTGCC"	"-"	"-"	"rs112589766"	NA	"JHCCPT5"	"JHCCPN5"	"CAGCTGCCCTGCC"	"CAGCTGCCCTGCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-31+2426_-31+2438delAGCTGCCCTGCCC"	""	""	"ENST00000274605"	""	7	"."	5	1	"."	0	"N4BP3,intron_variant,,ENST00000274605,NM_015111.1;"	"-"	"ENSG00000145911"	"ENST00000274605"	"Transcript"	"intron_variant"	"-/6080"	"-/1635"	"-/544"	""	""	"rs112589766"	"1"	NA	1	"N4BP3"	"HGNC"	29852	"protein_coding"	"YES"	"CCDS34307.1"	"ENSP00000274605"	"O15049"	""	"UPI00001C1E2A"	"NM_015111.1"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"14"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACAGCTGCCCTGCCC"	"8013b7ae-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"4981"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	178252377	178252378	"+"	"IGR"	"DEL"	"AT"	"AT"	"-"	"rs142573217"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	31	"."	9	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142573217"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"AT:0.4868"	"-:0.4697"	"-:0.4308"	NA	"-:0.5823"	"-:0.5567"	"-:0.5143"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGATT"	"80683f2c-280f-11e6-a9ee-1433424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290322580645161	"WXS"	FALSE
"4982"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	178259437	178259456	"+"	"IGR"	"DEL"	"CAGGCAGGCAGTGCAGCCAC"	"CAGGCAGGCAGTGCAGCCAC"	"AGGCGGGCAGTGCAGCC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CAGGCAGGCAGTGCAGCCAC"	"CAGGCAGGCAGTGCAGCCAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	6	2	"."	0	""	"AGGCGGGCAGTGCAGC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCCAGGCAGGCAGTGCAGCCACA"	"82e4696a-280f-11e6-a9ee-1433424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WXS"	FALSE
"4983"	"ZNF354B"	117608	"mskcc.org"	"GRCh37"	"5"	178288668	178288669	"+"	"Intron"	"INS"	"-"	"AGAG"	"AGAG"	"rs35822895"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.33+590_33+591insGAGA"	""	""	"ENST00000322434"	""	6	"."	6	1	"."	0	"ZNF354B,intron_variant,,ENST00000322434,NM_058230.2;ZNF354B,intron_variant,,ENST00000520377,;"	"AGAG"	"ENSG00000178338"	"ENST00000322434"	"Transcript"	"intron_variant"	"-/2802"	"-/1839"	"-/612"	""	""	"rs35822895"	"1"	NA	1	"ZNF354B"	"HGNC"	17197	"protein_coding"	"YES"	"CCDS4439.1"	"ENSP00000327143"	"Q96LW1"	"E5RH89"	"UPI0000071A24"	"NM_058230.2"	NA	NA	""	"2/4"	""	"AGAG:0.3345"	"AGAG:0.2572"	"AGAG:0.33"	NA	"AGAG:0.2609"	"AGAG:0.5249"	"AGAG:0.3221"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"93452312-280f-11e6-a9ee-1433424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"4984"	"RUFY1"	80230	"mskcc.org"	"GRCh37"	"5"	179028819	179028829	"+"	"Intron"	"DEL"	"AAAAAAAAAAA"	"AAAAAAAAAAA"	"-"	"rs537148767"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAAAAAAAA"	"AAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1762-59_1762-49delAAAAAAAAAAA"	""	""	"ENST00000319449"	""	29	"."	5	5	"."	0	"RUFY1,intron_variant,,ENST00000377001,;RUFY1,intron_variant,,ENST00000319449,NM_025158.4;RUFY1,intron_variant,,ENST00000437570,NM_001040451.2;RUFY1,intron_variant,,ENST00000393438,NM_001040452.2;RUFY1,intron_variant,,ENST00000502434,;RP11-1379J22.2,intron_variant,,ENST00000500262,;RUFY1,intron_variant,,ENST00000393448,;RUFY1,intron_variant,,ENST00000502531,;"	"-"	"ENSG00000176783"	"ENST00000319449"	"Transcript"	"intron_variant"	"-/2646"	"-/2127"	"-/708"	""	""	"rs537148767"	"1"	NA	1	"RUFY1"	"HGNC"	19760	"protein_coding"	"YES"	"CCDS4445.2"	"ENSP00000325594"	"Q96T51"	""	"UPI0000D74C3F"	"NM_025158.4"	NA	NA	""	"14/17"	""	"AAAAAAAAAAA:0.1326"	"-:0.8956"	"-:0.8761"	NA	"-:0.878"	"-:0.8211"	"-:0.8599"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAAAAAAAAAAA"	"80cc91de-280f-11e6-a9ee-1433424a729f"	"262"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WXS"	FALSE
"4985"	"RUFY1"	80230	"mskcc.org"	"GRCh37"	"5"	179029241	179029241	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs140177401"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1856+255delC"	""	""	"ENST00000319449"	""	10	"."	5	1	"."	0	"RUFY1,intron_variant,,ENST00000377001,;RUFY1,intron_variant,,ENST00000319449,NM_025158.4;RUFY1,intron_variant,,ENST00000437570,NM_001040451.2;RUFY1,intron_variant,,ENST00000393438,NM_001040452.2;RUFY1,intron_variant,,ENST00000502434,;RP11-1379J22.2,non_coding_transcript_exon_variant,,ENST00000500262,;RUFY1,3_prime_UTR_variant,,ENST00000393448,;RUFY1,intron_variant,,ENST00000502531,;RUFY1,upstream_gene_variant,,ENST00000503583,;"	"-"	"ENSG00000176783"	"ENST00000319449"	"Transcript"	"intron_variant"	"-/2646"	"-/2127"	"-/708"	""	""	"rs140177401"	"1"	NA	1	"RUFY1"	"HGNC"	19760	"protein_coding"	"YES"	"CCDS4445.2"	"ENSP00000325594"	"Q96T51"	""	"UPI0000D74C3F"	"NM_025158.4"	NA	NA	""	"15/17"	""	"-:0.0729"	"-:0.0393"	"-:0.0778"	NA	"-:0.0863"	"-:0.1064"	"-:0.0665"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"80ce9e84-280f-11e6-a9ee-1433424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4986"	"IRF4"	3662	"mskcc.org"	"GRCh37"	"6"	392691	392691	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs11308001"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-55-404delG"	""	""	"ENST00000380956"	""	11	"."	4	7	"."	0	"IRF4,intron_variant,,ENST00000380956,NM_001195286.1,NM_002460.3;IRF4,intron_variant,,ENST00000495137,;IRF4,intron_variant,,ENST00000468485,;IRF4,upstream_gene_variant,,ENST00000469834,;IRF4,intron_variant,,ENST00000493114,;"	"-"	"ENSG00000137265"	"ENST00000380956"	"Transcript"	"intron_variant"	"-/5331"	"-/1356"	"-/451"	""	""	"rs11308001"	"1"	NA	1	"IRF4"	"HGNC"	6119	"protein_coding"	"YES"	"CCDS4469.1"	"ENSP00000370343"	"Q15306"	""	"UPI000012D88B"	"NM_001195286.1,NM_002460.3"	NA	NA	""	"1/8"	""	"G:0.3910"	"-:0.6172"	"-:0.4597"	NA	"-:0.7758"	"-:0.5139"	"-:0.6299"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCGG"	"648680a2-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	TRUE
"4987"	"RP11-532F6.4"	0	"mskcc.org"	"GRCh37"	"6"	729930	729935	"+"	"Intron"	"DEL"	"GAGAGA"	"GAGAGA"	"-"	"rs9328388"	NA	"JHCCPT5"	"JHCCPN5"	"GAGAGA"	"GAGAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.243+16062_243+16067delGAGAGA"	""	""	"ENST00000607644"	""	9	"."	4	3	"."	0	"RP11-532F6.4,intron_variant,,ENST00000607644,;"	"-"	"ENSG00000271727"	"ENST00000607644"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/423"	""	""	""	""	"rs9328388"	"1"	NA	1	"RP11-532F6.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACGAGAGAG"	"64a838b4-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"4988"	"TUBB2A"	7280	"mskcc.org"	"GRCh37"	"6"	3156767	3156768	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11440666"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.58-382_58-381insT"	""	""	"ENST00000333628"	""	9	"."	5	2	"."	0	"TUBB2A,intron_variant,,ENST00000333628,NM_001069.2;BPHL,downstream_gene_variant,,ENST00000380368,;BPHL,downstream_gene_variant,,ENST00000380375,;BPHL,downstream_gene_variant,,ENST00000380379,NM_004332.2;BPHL,downstream_gene_variant,,ENST00000434640,;BPHL,downstream_gene_variant,,ENST00000423798,;RP1-40E16.11,upstream_gene_variant,,ENST00000447644,;TUBB2A,intron_variant,,ENST00000489942,;BPHL,downstream_gene_variant,,ENST00000464040,;BPHL,downstream_gene_variant,,ENST00000490918,;BPHL,downstream_gene_variant,,ENST00000430655,;BPHL,downstream_gene_variant,,ENST00000424847,;BPHL,downstream_gene_variant,,ENST00000488487,;BPHL,downstream_gene_variant,,ENST00000433912,;"	"A"	"ENSG00000137267"	"ENST00000333628"	"Transcript"	"intron_variant"	"-/1595"	"-/1338"	"-/445"	""	""	"rs11440666"	"1"	NA	-1	"TUBB2A"	"HGNC"	12412	"protein_coding"	"YES"	"CCDS4484.1"	"ENSP00000369703"	"Q13885"	""	"UPI000000DC98"	"NM_001069.2"	NA	NA	""	"1/3"	""	"-:0.0002"	"A:1"	"A:0.9986"	NA	"A:1"	"A:1"	"A:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"895a7cd0-280f-11e6-a9d4-0533424a729f"	"169"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"4989"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	3550576	3550577	"+"	"IGR"	"INS"	"-"	"-"	"TCTTCTTCCTCTTCTTCA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	43	"."	3	9	"."	0	""	"TCTTCTTCCTCTTCTTCA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"896af1e6-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WXS"	FALSE
"4990"	"PRPF4B"	8899	"mskcc.org"	"GRCh37"	"6"	4020557	4020557	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000337659"	""	161	"."	3	52	"."	0	"PRPF4B,upstream_gene_variant,,ENST00000337659,NM_003913.4;PRPF4B,upstream_gene_variant,,ENST00000538861,;RP3-406P24.4,downstream_gene_variant,,ENST00000606564,;RP3-406P24.3,intron_variant,,ENST00000415144,;PRPF4B,upstream_gene_variant,,ENST00000480058,;"	"-"	"ENSG00000112739"	"ENST00000337659"	"Transcript"	"upstream_gene_variant"	"-/4415"	"-/3024"	"-/1007"	""	""	""	"1"	"1003"	1	"PRPF4B"	"HGNC"	17346	"protein_coding"	"YES"	"CCDS4488.1"	"ENSP00000337194"	"Q13523"	"H0YDJ3,F5H2U2"	"UPI000013DD12"	"NM_003913.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"6551cf14-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0186335403726708	"WXS"	FALSE
"4991"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	4961586	4961587	"+"	"IGR"	"INS"	"-"	"-"	"AGG"	"rs370574309"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"."	3	5	"."	0	""	"AGG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs370574309"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"89882f36-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WXS"	FALSE
"4992"	"FARS2"	10667	"mskcc.org"	"GRCh37"	"6"	5432211	5432211	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs10707461"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.904+808delA"	""	""	"ENST00000324331"	""	8	"."	4	1	"."	0	"FARS2,intron_variant,,ENST00000324331,;FARS2,intron_variant,,ENST00000274680,NM_006567.3;FARS2,downstream_gene_variant,,ENST00000445533,;"	"-"	"ENSG00000145982"	"ENST00000324331"	"Transcript"	"intron_variant"	"-/1692"	"-/1356"	"-/451"	""	""	"rs10707461"	"1"	NA	1	"FARS2"	"HGNC"	21062	"protein_coding"	"YES"	"CCDS4494.1"	"ENSP00000316335"	"O95363"	"R4GMX6"	"UPI000006CF04"	""	NA	NA	""	"4/6"	""	"A:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGAA"	"65984926-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"4993"	"RREB1"	6239	"mskcc.org"	"GRCh37"	"6"	7108549	7108550	"+"	"Intron"	"INS"	"-"	"-"	"TCCTCCTCC"	"rs143321297"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-285+272_-285+280dupTCCTCCTCC"	""	""	"ENST00000379938"	""	19	"."	6	6	"."	0	"RREB1,intron_variant,,ENST00000379938,NM_001003700.1,NM_001003699.3;RREB1,intron_variant,,ENST00000349384,NM_001003698.3;RREB1,intron_variant,,ENST00000379933,NM_001168344.1;RREB1,intron_variant,,ENST00000334984,;RREB1,intron_variant,,ENST00000471433,;RREB1,intron_variant,,ENST00000491191,;RREB1,intron_variant,,ENST00000467782,;RREB1,upstream_gene_variant,,ENST00000475946,;"	"TCCTCCTCC"	"ENSG00000124782"	"ENST00000379938"	"Transcript"	"intron_variant"	"-/8778"	"-/5229"	"-/1742"	""	""	"rs143321297"	"1"	NA	1	"RREB1"	"HGNC"	10449	"protein_coding"	"YES"	"CCDS34335.1"	"ENSP00000369270"	"Q92766"	"C9JU34,C9JPJ6,C9JE09"	"UPI000020E496"	"NM_001003700.1,NM_001003699.3"	NA	NA	""	"1/12"	""	"TCCTCCTCC:0.2602"	"TCCTCCTCC:0.0938"	"TCCTCCTCC:0.4769"	NA	"TCCTCCTCC:0.006"	"TCCTCCTCC:0.6153"	"TCCTCCTCC:0.228"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"24"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"89c03fb6-280f-11e6-a9d4-0533424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WXS"	FALSE
"4994"	"CAGE1"	285782	"mskcc.org"	"GRCh37"	"6"	7339150	7339150	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs34165095"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2370-4827delA"	""	""	"ENST00000502583"	""	10	"."	4	5	"."	0	"CAGE1,intron_variant,,ENST00000502583,NM_001170692.1;CAGE1,intron_variant,,ENST00000379918,;CAGE1,intron_variant,,ENST00000296742,NM_205864.2;CAGE1,intron_variant,,ENST00000338150,NM_001170693.1;CAGE1,intron_variant,,ENST00000512086,;SSR1,intron_variant,,ENST00000488834,;CAGE1,intron_variant,,ENST00000458291,;CAGE1,intron_variant,,ENST00000442019,;RP11-69L16.5,non_coding_transcript_exon_variant,,ENST00000407940,;RP11-69L16.6,downstream_gene_variant,,ENST00000419672,;"	"-"	"ENSG00000164304"	"ENST00000502583"	"Transcript"	"intron_variant"	"-/3284"	"-/2520"	"-/839"	""	""	"rs34165095"	"1"	NA	-1	"CAGE1"	"HGNC"	21622	"protein_coding"	"YES"	"CCDS54965.1"	"ENSP00000425493"	"Q8TC20"	""	"UPI0001C0B380"	"NM_001170692.1"	NA	NA	""	"11/13"	""	"T:0.4125"	"-:0.8941"	"-:0.5202"	NA	"-:0.5466"	"-:0.4364"	"-:0.4182"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTT"	"65e3473c-280f-11e6-a9d4-0533424a729f"	"220"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"4995"	"CAGE1"	285782	"mskcc.org"	"GRCh37"	"6"	7385892	7385893	"+"	"Intron"	"DEL"	"TT"	"TT"	"-"	"rs147220799"	NA	"JHCCPT5"	"JHCCPN5"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.283+125_283+126delAA"	""	""	"ENST00000502583"	""	70	"."	25	8	"."	1	"CAGE1,intron_variant,,ENST00000502583,NM_001170692.1;CAGE1,intron_variant,,ENST00000379918,;CAGE1,intron_variant,,ENST00000296742,NM_205864.2;CAGE1,intron_variant,,ENST00000338150,NM_001170693.1;CAGE1,intron_variant,,ENST00000512086,;CAGE1,intron_variant,,ENST00000512691,;RIOK1,upstream_gene_variant,,ENST00000379834,NM_031480.2,NM_153005.1;CAGE1,intron_variant,,ENST00000509324,;CAGE1,intron_variant,,ENST00000458291,;CAGE1,intron_variant,,ENST00000442019,;RIOK1,upstream_gene_variant,,ENST00000475351,;"	"-"	"ENSG00000164304"	"ENST00000502583"	"Transcript"	"intron_variant"	"-/3284"	"-/2520"	"-/839"	""	""	"rs147220799"	"1"	NA	-1	"CAGE1"	"HGNC"	21622	"protein_coding"	"YES"	"CCDS54965.1"	"ENSP00000425493"	"Q8TC20"	""	"UPI0001C0B380"	"NM_001170692.1"	NA	NA	""	"3/13"	""	"-:0.3757"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATTT"	"65ef33ee-280f-11e6-a9d4-0533424a729f"	"1560"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"4996"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	7437818	7437820	"+"	"IGR"	"DEL"	"AAG"	"AAG"	"-"	"rs201315956"	NA	"JHCCPT5"	"JHCCPN5"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201315956"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAGA"	"66035d2e-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"4997"	"RP11-288G3.4"	0	"mskcc.org"	"GRCh37"	"6"	7516674	7516675	"+"	"3'Flank"	"INS"	"-"	"-"	"TATATACATATATATATATATATATG"	"rs776441167"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000440581"	""	32	"."	3	5	"."	0	"RP11-288G3.4,downstream_gene_variant,,ENST00000440581,;"	"TATATACATATATATATATATATATG"	"ENSG00000234115"	"ENST00000440581"	"Transcript"	"downstream_gene_variant"	"-/1241"	""	""	""	""	"rs776441167"	"1"	"158"	-1	"RP11-288G3.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"89ea0ecc-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WXS"	FALSE
"4998"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	7530691	7530691	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs71793343"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71793343"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3932"	"-:0.4455"	"-:0.4712"	NA	"-:0.1667"	"-:0.496"	"-:0.3947"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"660649f8-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"4999"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	8192948	8192953	"+"	"IGR"	"DEL"	"AGAAAG"	"AGAAAG"	"-"	"rs66463009"	NA	"JHCCPT5"	"JHCCPN5"	"AGAAAG"	"AGAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs66463009"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4287"	"-:0.556"	"-:0.4193"	NA	"-:0.1121"	"-:0.5189"	"-:0.4969"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGAAAGA"	"66394e02-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"5000"	"OFCC1"	266553	"mskcc.org"	"GRCh37"	"6"	9795549	9795550	"+"	"Intron"	"INS"	"-"	"-"	"AGAAGAAGAAGAAGA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.481+14246_481+14260dupTCTTCTTCTTCTTCT"	""	""	"ENST00000460363"	""	90	"."	6	23	"."	0	"OFCC1,intron_variant,,ENST00000460363,;OFCC1,intron_variant,,ENST00000492169,;OFCC1,intron_variant,,ENST00000460066,;OFCC1,intron_variant,,ENST00000492094,;OFCC1,intron_variant,,ENST00000487015,;"	"AGAAGAAGAAGAAGA"	"ENSG00000181355"	"ENST00000460363"	"Transcript"	"intron_variant"	"-/919"	"-/900"	"-/300"	""	""	""	"1"	NA	-1	"OFCC1"	"HGNC"	21017	"protein_coding"	"YES"	""	"ENSP00000419718"	""	"Q8IZS0"	"UPI00000740B8"	""	NA	NA	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"8a3702c2-280f-11e6-a9d4-0533424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WXS"	FALSE
"5001"	"OFCC1"	266553	"mskcc.org"	"GRCh37"	"6"	9943578	9943579	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs75350227"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000460363"	""	7	"."	3	1	"."	0	"OFCC1,intron_variant,,ENST00000316020,;OFCC1,intron_variant,,ENST00000491508,;OFCC1,intron_variant,,ENST00000485268,;OFCC1,intron_variant,,ENST00000481704,;OFCC1,upstream_gene_variant,,ENST00000460363,;OFCC1,intron_variant,,ENST00000472329,;OFCC1,upstream_gene_variant,,ENST00000466385,;OFCC1,upstream_gene_variant,,ENST00000460066,;OFCC1,upstream_gene_variant,,ENST00000492094,;"	"A"	"ENSG00000181355"	"ENST00000460363"	"Transcript"	"upstream_gene_variant"	"-/919"	"-/900"	"-/300"	""	""	"rs75350227"	"1"	"4026"	-1	"OFCC1"	"HGNC"	21017	"protein_coding"	"YES"	""	"ENSP00000419718"	""	"Q8IZS0"	"UPI00000740B8"	""	NA	NA	""	""	""	"-:0.0511"	"A:0.8298"	"A:0.9784"	NA	"A:0.999"	"A:0.996"	"A:0.9888"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"8a411c76-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5002"	"SYCP2L"	221711	"mskcc.org"	"GRCh37"	"6"	10891839	10891842	"+"	"Intron"	"DEL"	"TCTC"	"TCTC"	"-"	"rs78570106"	NA	"JHCCPT5"	"JHCCPN5"	"TCTC"	"TCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.78+30_78+33delCTCT"	""	""	"ENST00000283141"	""	42	"."	3	15	"."	0	"SYCP2L,intron_variant,,ENST00000283141,NM_001040274.2;SYCP2L,intron_variant,,ENST00000543878,;SYCP2L,intron_variant,,ENST00000341041,;RP11-637O19.3,intron_variant,,ENST00000480294,;"	"-"	"ENSG00000153157"	"ENST00000283141"	"Transcript"	"intron_variant"	"-/3130"	"-/2439"	"-/812"	""	""	"rs78570106"	"1"	NA	1	"SYCP2L"	"HGNC"	21537	"protein_coding"	"YES"	"CCDS43423.1"	"ENSP00000283141"	"Q5T4T6"	""	"UPI000022CA18"	"NM_001040274.2"	NA	NA	""	"2/29"	""	"-:0.1458"	"-:0.0469"	"-:0.134"	NA	"-:0.1984"	"-:0.167"	"-:0.2117"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	"0.1362"	"0.2039"	"0.3318"	"0.1276"	"0.1426"	"0.1997"	"0.199"	"0.3798"	NA	"common_variant"	"AATCTCT"	"668578b8-280f-11e6-a9d4-0533424a729f"	"180"	0.2275	"7970/35032"	"13046/95808"	"1042/5110"	"1142/3442"	"423/3316"	"302/2118"	"3209/16072"	"41/206"	"1811/4768"	"PASS"	"FALSE"	0.0714285714285714	"WXS"	FALSE
"5003"	"ADTRP"	84830	"mskcc.org"	"GRCh37"	"6"	11731871	11731872	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs61243775"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.560+3929dupA"	""	""	"ENST00000229583"	""	9	"."	5	1	"."	0	"ADTRP,intron_variant,,ENST00000414691,NM_032744.3;ADTRP,intron_variant,,ENST00000379413,;ADTRP,intron_variant,,ENST00000229583,NM_001143948.1;ADTRP,intron_variant,,ENST00000503285,;ADTRP,downstream_gene_variant,,ENST00000379415,;ADTRP,downstream_gene_variant,,ENST00000506810,;ADTRP,intron_variant,,ENST00000514824,;ADTRP,intron_variant,,ENST00000512139,;ADTRP,upstream_gene_variant,,ENST00000513651,;ADTRP,intron_variant,,ENST00000505099,;"	"T"	"ENSG00000111863"	"ENST00000229583"	"Transcript"	"intron_variant"	"-/891"	"-/747"	"-/248"	""	""	"rs61243775"	"1"	NA	-1	"ADTRP"	"HGNC"	21214	"protein_coding"	"YES"	"CCDS47374.1"	"ENSP00000229583"	"Q96IZ2"	""	"UPI00017A7DC7"	"NM_001143948.1"	NA	NA	""	"5/6"	""	"T:0.4321"	"T:0.5961"	"T:0.451"	NA	"T:0.2649"	"T:0.3221"	"T:0.4826"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"8a8888ae-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"5004"	"RP3-420J14.1"	0	"mskcc.org"	"GRCh37"	"6"	11863361	11863362	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"rs33933069"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000299540"	""	9	"."	4	1	"."	0	"RP3-420J14.1,upstream_gene_variant,,ENST00000299540,;"	"T"	"ENSG00000215124"	"ENST00000299540"	"Transcript"	"upstream_gene_variant"	"-/1345"	""	""	""	""	"rs33933069"	"1"	"158"	-1	"RP3-420J14.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"8a8b8928-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"5005"	"RNU1-11P"	0	"mskcc.org"	"GRCh37"	"6"	13219086	13219120	"+"	"3'Flank"	"DEL"	"AAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAG"	"AAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAG"	"AAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000383975"	""	21	"."	10	3	"."	0	"PHACTR1,intron_variant,,ENST00000379350,;PHACTR1,intron_variant,,ENST00000415087,NM_001242648.1,NM_030948.2;PHACTR1,intron_variant,,ENST00000332995,;PHACTR1,intron_variant,,ENST00000457702,;PHACTR1,intron_variant,,ENST00000379345,;PHACTR1,intron_variant,,ENST00000434977,;RNU1-11P,downstream_gene_variant,,ENST00000383975,;"	"-"	"ENSG00000206702"	"ENST00000383975"	"Transcript"	"downstream_gene_variant"	"-/164"	""	""	""	""	""	"1"	"4635"	1	"RNU1-11P"	"HGNC"	10137	"snRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAGA"	"66c65fd6-280f-11e6-a9d4-0533424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.476190476190476	"WXS"	FALSE
"5006"	"GFOD1"	54438	"mskcc.org"	"GRCh37"	"6"	13366111	13366116	"+"	"Intron"	"DEL"	"AATAAT"	"AATAAT"	"-"	"rs147329246"	NA	"JHCCPT5"	"JHCCPN5"	"AATAAT"	"AATAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.254-222_254-217delATTATT"	""	""	"ENST00000379287"	""	15	"."	3	3	"."	0	"GFOD1,intron_variant,,ENST00000379287,NM_018988.3;GFOD1,intron_variant,,ENST00000379284,NM_001242628.1,NM_001242630.1;"	"-"	"ENSG00000145990"	"ENST00000379287"	"Transcript"	"intron_variant"	"-/8751"	"-/1173"	"-/390"	""	""	"rs147329246"	"1"	NA	-1	"GFOD1"	"HGNC"	21096	"protein_coding"	"YES"	"CCDS4524.1"	"ENSP00000368589"	"Q9NXC2"	""	"UPI0000072450"	"NM_018988.3"	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAATAATA"	"66ed3390-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"5007"	"KIF13A"	63971	"mskcc.org"	"GRCh37"	"6"	17779477	17779505	"+"	"Intron"	"DEL"	"TATATATATATATTTTTTTTTTTTTTTTT"	"TATATATATATATTTTTTTTTTTTTTTTT"	"-"	"rs772355224"	NA	"JHCCPT5"	"JHCCPN5"	"TATATATATATATTTTTTTTTTTTTTTTT"	"TATATATATATATTTTTTTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3940-175_3940-147delAAAAAAAAAAAAAAAAATATATATATATA"	""	""	"ENST00000259711"	""	11	"."	4	2	"."	0	"KIF13A,intron_variant,,ENST00000378814,NM_001105568.2;KIF13A,intron_variant,,ENST00000259711,NM_022113.5;KIF13A,intron_variant,,ENST00000378816,;KIF13A,intron_variant,,ENST00000378826,NM_001105566.2;KIF13A,intron_variant,,ENST00000378843,NM_001105567.2;KIF13A,intron_variant,,ENST00000358380,;KIF13A,intron_variant,,ENST00000502297,;KIF13A,downstream_gene_variant,,ENST00000506044,;"	"-"	"ENSG00000137177"	"ENST00000259711"	"Transcript"	"intron_variant"	"-/5941"	"-/5418"	"-/1805"	""	""	"rs772355224"	"1"	NA	-1	"KIF13A"	"HGNC"	14566	"protein_coding"	"YES"	"CCDS47381.1"	"ENSP00000259711"	"Q9H1H9"	""	"UPI0000E20DA3"	"NM_022113.5"	NA	NA	""	"32/38"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATATATATATATATTTTTTTTTTTTTTTTTT"	"679ebfd4-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"5008"	"KIF13A"	63971	"mskcc.org"	"GRCh37"	"6"	17805601	17805602	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2304+99_2304+104dupACACAC"	""	""	"ENST00000259711"	""	103	"."	6	31	"."	0	"KIF13A,intron_variant,,ENST00000378814,NM_001105568.2;KIF13A,intron_variant,,ENST00000259711,NM_022113.5;KIF13A,intron_variant,,ENST00000378816,;KIF13A,intron_variant,,ENST00000378826,NM_001105566.2;KIF13A,intron_variant,,ENST00000378843,NM_001105567.2;KIF13A,intron_variant,,ENST00000358380,;"	"GTGTGT"	"ENSG00000137177"	"ENST00000259711"	"Transcript"	"intron_variant"	"-/5941"	"-/5418"	"-/1805"	""	""	""	"1"	NA	-1	"KIF13A"	"HGNC"	14566	"protein_coding"	"YES"	"CCDS47381.1"	"ENSP00000259711"	"Q9H1H9"	""	"UPI0000E20DA3"	"NM_022113.5"	NA	NA	""	"19/38"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"8b039d0a-280f-11e6-a9d4-0533424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.058252427184466	"WXS"	FALSE
"5009"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	18734491	18734502	"+"	"IGR"	"DEL"	"TTCCTTCCTTCC"	"TTCCTTCCTTCC"	"-"	"rs200838687"	NA	"JHCCPT5"	"JHCCPN5"	"TTCCTTCCTTCC"	"TTCCTTCCTTCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200838687"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TTCCTTCCTTCC:0.0735"	"-:0.8843"	"-:0.9121"	NA	"-:0.9454"	"-:0.9215"	"-:0.9796"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTTCCTTCCTTCCT"	"67c319e2-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"5010"	"MBOAT1"	154141	"mskcc.org"	"GRCh37"	"6"	20213125	20213126	"+"	"5'Flank"	"INS"	"-"	"-"	"GAGAGACCCTGCGCTGCTAGC"	"rs6149464"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000324607"	""	10	"."	6	1	"."	0	"MBOAT1,upstream_gene_variant,,ENST00000541730,;MBOAT1,upstream_gene_variant,,ENST00000324607,NM_001080480.2;MBOAT1,upstream_gene_variant,,ENST00000536798,;RP11-239H6.2,intron_variant,,ENST00000449143,;"	"GAGAGACCCTGCGCTGCTAGC"	"ENSG00000172197"	"ENST00000324607"	"Transcript"	"upstream_gene_variant"	"-/1794"	"-/1488"	"-/495"	""	""	"rs6149464"	"1"	"495"	-1	"MBOAT1"	"HGNC"	21579	"protein_coding"	"YES"	"CCDS34346.1"	"ENSP00000324944"	"Q6ZNC8"	""	"UPI000020D5D0"	"NM_001080480.2"	NA	NA	""	""	""	"-:0.1729"	"GAGAGACCCTGCGCTGCTAGC:0.7625"	"GAGAGACCCTGCGCTGCTAGC:0.7853"	NA	"GAGAGACCCTGCGCTGCTAGC:0.879"	"GAGAGACCCTGCGCTGCTAGC:0.8499"	"GAGAGACCCTGCGCTGCTAGC:0.8671"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"8b2378c8-280f-11e6-a9d4-0533424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"5011"	"CDKAL1"	54901	"mskcc.org"	"GRCh37"	"6"	20609507	20609508	"+"	"Intron"	"INS"	"-"	"-"	"CTCCTTCTCCTTCTT"	"rs373576149"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.287-40005_287-39991dupTCTTCTCCTTCTCCT"	""	""	"ENST00000274695"	""	19	"."	5	15	"."	0	"CDKAL1,intron_variant,,ENST00000274695,NM_017774.3;CDKAL1,intron_variant,,ENST00000378610,;CDKAL1,intron_variant,,ENST00000378624,;"	"CTCCTTCTCCTTCTT"	"ENSG00000145996"	"ENST00000274695"	"Transcript"	"intron_variant"	"-/3272"	"-/1740"	"-/579"	""	""	"rs373576149"	"1"	NA	1	"CDKAL1"	"HGNC"	21050	"protein_coding"	"YES"	"CCDS4546.1"	"ENSP00000274695"	"Q5VV42"	""	"UPI000013DA21"	"NM_017774.3"	NA	NA	""	"4/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"26"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"8b2e38f8-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"5012"	"CDKAL1"	54901	"mskcc.org"	"GRCh37"	"6"	21215105	21215106	"+"	"Intron"	"INS"	"-"	"-"	"ATGA"	"rs375832152"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1548+13635_1548+13638dupGAAT"	""	""	"ENST00000274695"	""	9	"."	3	5	"."	0	"CDKAL1,intron_variant,,ENST00000274695,NM_017774.3;CDKAL1,intron_variant,,ENST00000378610,;CDKAL1,intron_variant,,ENST00000378624,;CDKAL1,intron_variant,,ENST00000476517,;"	"ATGA"	"ENSG00000145996"	"ENST00000274695"	"Transcript"	"intron_variant"	"-/3272"	"-/1740"	"-/579"	""	""	"rs375832152"	"1"	NA	1	"CDKAL1"	"HGNC"	21050	"protein_coding"	"YES"	"CCDS4546.1"	"ENSP00000274695"	"Q5VV42"	""	"UPI000013DA21"	"NM_017774.3"	NA	NA	""	"15/15"	""	"ATGA:0.2119"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"38"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"8b36aa88-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5013"	"ENSR00001213460"	0	"mskcc.org"	"GRCh37"	"6"	22436641	22436644	"+"	"IGR"	"DEL"	"TCTC"	"TCTC"	"-"	"rs71655537"	NA	"JHCCPT5"	"JHCCPN5"	"TCTC"	"TCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001213460"	""	7	"."	4	1	"."	0	""	"-"	""	"ENSR00001213460"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs71655537"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3257"	"-:0.0998"	"-:0.3458"	NA	"-:0.3681"	"-:0.5199"	"-:0.3732"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTCTCT"	"680d12a4-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5014"	"GPLD1"	2822	"mskcc.org"	"GRCh37"	"6"	24480026	24480027	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs5874986"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.232+82_232+83delAT"	""	""	"ENST00000230036"	""	17	"."	4	8	"."	0	"GPLD1,intron_variant,,ENST00000230036,NM_001503.3;GPLD1,intron_variant,,ENST00000474784,;GPLD1,intron_variant,,ENST00000475417,;GPLD1,intron_variant,,ENST00000378243,;GPLD1,intron_variant,,ENST00000486892,;"	"-"	"ENSG00000112293"	"ENST00000230036"	"Transcript"	"intron_variant"	"-/3489"	"-/2523"	"-/840"	""	""	"rs5874986"	"1"	NA	-1	"GPLD1"	"HGNC"	4459	"protein_coding"	"YES"	"CCDS4553.1"	"ENSP00000230036"	"P80108"	""	"UPI000013C91C"	"NM_001503.3"	NA	NA	""	"3/24"	""	"-:0.4595"	"-:0.6263"	"-:0.3501"	NA	"-:0.2649"	"-:0.508"	"-:0.4622"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATA"	"684e30fe-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"5015"	"TDP2"	51567	"mskcc.org"	"GRCh37"	"6"	24652951	24652952	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs17243395"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.807+258_807+259dupTA"	""	""	"ENST00000378198"	""	19	"."	5	6	"."	0	"TDP2,intron_variant,,ENST00000341060,;TDP2,intron_variant,,ENST00000378198,;TDP2,intron_variant,,ENST00000545995,NM_016614.2;TDP2,intron_variant,,ENST00000478507,;TDP2,downstream_gene_variant,,ENST00000478285,;"	"TA"	"ENSG00000111802"	"ENST00000378198"	"Transcript"	"intron_variant"	"-/2071"	"-/1089"	"-/362"	""	""	"rs17243395"	"1"	NA	-1	"TDP2"	"HGNC"	17768	"protein_coding"	"YES"	"CCDS4557.1"	"ENSP00000367440"	"O95551"	""	"UPI0000032018"	""	NA	NA	""	"6/6"	""	"TA:0.1426"	"TA:0.1316"	"TA:0.1412"	NA	"TA:0.0605"	"TA:0.2396"	"TA:0.1431"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"8b83f93c-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"5016"	"FAM65B"	9750	"mskcc.org"	"GRCh37"	"6"	24843927	24843932	"+"	"Intron"	"DEL"	"GTGTGT"	"GTGTGT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GTGTGT"	"GTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1228-150_1228-145delACACAC"	""	""	"ENST00000259698"	""	17	"."	3	2	"."	0	"FAM65B,intron_variant,,ENST00000259698,NM_014722.2;FAM65B,intron_variant,,ENST00000538035,NM_001286445.1;FAM65B,intron_variant,,ENST00000540914,NM_001286447.1;FAM65B,intron_variant,,ENST00000378023,NM_015864.2;FAM65B,intron_variant,,ENST00000510784,;AL512428.1,upstream_gene_variant,,ENST00000583229,;FAM65B,upstream_gene_variant,,ENST00000473070,;"	"-"	"ENSG00000111913"	"ENST00000259698"	"Transcript"	"intron_variant"	"-/5471"	"-/3207"	"-/1068"	""	""	""	"1"	NA	-1	"FAM65B"	"HGNC"	13872	"protein_coding"	"YES"	"CCDS47383.1"	"ENSP00000259698"	"Q9Y4F9"	"H3BP45"	"UPI0000EE554D"	"NM_014722.2"	NA	NA	""	"13/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCGTGTGTG"	"6880386a-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"5017"	"SLC17A2"	10246	"mskcc.org"	"GRCh37"	"6"	25914008	25914009	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTG"	"rs71544286"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1155-330_1155-329insCAAAAA"	""	""	"ENST00000360488"	""	24	"."	5	7	"."	0	"SLC17A2,intron_variant,,ENST00000377850,NM_001286123.1;SLC17A2,intron_variant,,ENST00000360488,NM_005835.2;SLC17A2,intron_variant,,ENST00000265425,;"	"TTTTTG"	"ENSG00000112337"	"ENST00000360488"	"Transcript"	"intron_variant"	"-/2270"	"-/1311"	"-/436"	""	""	"rs71544286"	"1"	NA	-1	"SLC17A2"	"HGNC"	10930	"protein_coding"	"YES"	"CCDS4567.1"	"ENSP00000353677"	"O00624"	""	"UPI0000000DB7"	"NM_005835.2"	NA	NA	""	"10/10"	""	"TTG:0.4213"	"TTG:0.6445"	"TTG:0.3213"	NA	"TTG:0.2639"	"TTG:0.4324"	"TTG:0.3415"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8bbe2a4e-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WXS"	FALSE
"5018"	"ZNF184"	7738	"mskcc.org"	"GRCh37"	"6"	27424044	27424045	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs142263308"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.298+559_298+560dupTT"	""	""	"ENST00000211936"	""	9	"."	5	2	"."	0	"ZNF184,intron_variant,,ENST00000211936,NM_007149.2;ZNF184,intron_variant,,ENST00000377419,;"	"AA"	"ENSG00000096654"	"ENST00000211936"	"Transcript"	"intron_variant"	"-/3101"	"-/2256"	"-/751"	""	""	"rs142263308"	"1"	NA	-1	"ZNF184"	"HGNC"	12975	"protein_coding"	"YES"	"CCDS4624.1"	"ENSP00000211936"	"Q99676"	""	"UPI000013C311"	"NM_007149.2"	NA	NA	""	"5/5"	""	"-:0.3828"	"AA:0.5303"	"AA:0.67"	NA	"AA:0.5764"	"AA:0.6461"	"AA:0.7096"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"8c0c5b56-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"5019"	"ZNF184"	7738	"mskcc.org"	"GRCh37"	"6"	27433921	27433932	"+"	"Intron"	"DEL"	"GAGAGAGAGAGA"	"GAGAGAGAGAGA"	"-"	"rs148760623"	NA	"JHCCPT5"	"JHCCPN5"	"GAGAGAGAGAGA"	"GAGAGAGAGAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.75+1700_75+1711delTCTCTCTCTCTC"	""	""	"ENST00000211936"	""	6	"."	4	4	"."	0	"ZNF184,intron_variant,,ENST00000211936,NM_007149.2;ZNF184,intron_variant,,ENST00000377419,;"	"-"	"ENSG00000096654"	"ENST00000211936"	"Transcript"	"intron_variant"	"-/3101"	"-/2256"	"-/751"	""	""	"rs148760623"	"1"	NA	-1	"ZNF184"	"HGNC"	12975	"protein_coding"	"YES"	"CCDS4624.1"	"ENSP00000211936"	"Q99676"	""	"UPI000013C311"	"NM_007149.2"	NA	NA	""	"3/5"	""	"GAGAGAGAGAGA:0.2648"	"-:0.7307"	"-:0.7997"	NA	"-:0.6875"	"-:0.7207"	"-:0.7597"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGAGAGAGAGAGAG"	"693aecc8-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5020"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	27467946	27467947	"+"	"IGR"	"INS"	"-"	"-"	"AGAGAG"	"rs147607565"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	1	"."	0	""	"AGAGAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147607565"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"8c0e204e-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"5021"	"HLA-T"	0	"mskcc.org"	"GRCh37"	"6"	29865444	29865448	"+"	"Intron"	"DEL"	"CACAG"	"CACAG"	"GTCA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CACAG"	"CACAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.411+69_411+73delCACAGinsGTCA"	""	""	"ENST00000429813"	""	21	"."	3	18	"."	0	"HLA-T,intron_variant,,ENST00000429813,;"	"GTCA"	"ENSG00000231130"	"ENST00000429813"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/450"	""	""	""	""	""	"1"	NA	1	"HLA-T"	"HGNC"	23478	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCACAGC"	"862143dc-280f-11e6-a9d4-0533424a729f"	"166"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"5022"	"HLA-K"	0	"mskcc.org"	"GRCh37"	"6"	29893621	29893626	"+"	"5'Flank"	"DEL"	"AAAAAC"	"AAAAAC"	"-"	"rs201002659"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAAC"	"AAAAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000430151"	""	21	"."	3	8	"."	0	"HLA-K,upstream_gene_variant,,ENST00000430151,;HCG4B,downstream_gene_variant,,ENST00000450128,;"	"-"	"ENSG00000230795"	"ENST00000430151"	"Transcript"	"upstream_gene_variant"	"-/1037"	""	""	""	""	"rs201002659"	"1"	"610"	1	"HLA-K"	"HGNC"	4969	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1078"	"-:0.1989"	"-:0.1052"	NA	"-:0.0119"	"-:0.0835"	"-:0.1104"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAACA"	"69fefb7c-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"5023"	"HLA-U"	0	"mskcc.org"	"GRCh37"	"6"	29902490	29902491	"+"	"3'Flank"	"INS"	"-"	"-"	"G"	"rs11390403"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000418981"	""	8	"."	3	4	"."	0	"HLA-U,downstream_gene_variant,,ENST00000418981,;"	"G"	"ENSG00000228078"	"ENST00000418981"	"Transcript"	"downstream_gene_variant"	"-/186"	""	""	""	""	"rs11390403"	"1"	"427"	1	"HLA-U"	"HGNC"	23477	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0787"	"G:0.9281"	"G:0.9049"	NA	"G:0.9841"	"G:0.8469"	"G:0.9356"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"8ccb7b44-280f-11e6-a9d4-0533424a729f"	"160"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"5024"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	29932600	29932600	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs35174415"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35174415"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1180"	"-:0.121"	"-:0.1354"	NA	"-:0.1379"	"-:0.0706"	"-:0.1299"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTA"	"6ac18480-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5025"	"DDX39BP2"	0	"mskcc.org"	"GRCh37"	"6"	29961059	29961061	"+"	"RNA"	"DEL"	"CTG"	"CTG"	"TT"	"rs386698672"	NA	"JHCCPT5"	"JHCCPN5"	"CTG"	"CTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.74_76delCTGinsTT"	""	""	"ENST00000453923"	"1/2"	7	"."	4	1	"."	0	"DDX39BP2,non_coding_transcript_exon_variant,,ENST00000453923,;MCCD1P2,downstream_gene_variant,,ENST00000423228,;"	"TT"	"ENSG00000238024"	"ENST00000453923"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"74-76/258"	""	""	""	""	"rs386698672"	"1"	NA	1	"DDX39BP2"	"HGNC"	33461	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/2"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACTGC"	"8671ee36-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5026"	"DHX16"	8449	"mskcc.org"	"GRCh37"	"6"	30621393	30621394	"+"	"Intron"	"INS"	"-"	"-"	"CTTGGCCTCCCAAAGTGCTAGGATCCTGC"	"rs140329547"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2998-247_2998-246insGCAGGATCCTAGCACTTTGGGAGGCCAAG"	""	""	"ENST00000376442"	""	18	"."	5	3	"."	0	"DHX16,intron_variant,,ENST00000376442,NM_001164239.1,NM_003587.4;DHX16,intron_variant,,ENST00000376437,;C6orf136,downstream_gene_variant,,ENST00000293604,NM_001161376.1;C6orf136,downstream_gene_variant,,ENST00000446773,;C6orf136,downstream_gene_variant,,ENST00000376473,NM_001109938.2;C6orf136,downstream_gene_variant,,ENST00000528347,;C6orf136,downstream_gene_variant,,ENST00000465699,;C6orf136,downstream_gene_variant,,ENST00000376471,NM_145029.3;C6orf136,downstream_gene_variant,,ENST00000467801,;C6orf136,downstream_gene_variant,,ENST00000468785,;AL662800.2,downstream_gene_variant,,ENST00000583820,;C6orf136,downstream_gene_variant,,ENST00000493705,;C6orf136,downstream_gene_variant,,ENST00000488383,;C6orf136,downstream_gene_variant,,ENST00000484551,;C6orf136,downstream_gene_variant,,ENST00000487873,;C6orf136,downstream_gene_variant,,ENST00000463794,;C6orf136,downstream_gene_variant,,ENST00000460172,;"	"CTTGGCCTCCCAAAGTGCTAGGATCCTGC"	"ENSG00000204560"	"ENST00000376442"	"Transcript"	"intron_variant"	"-/3445"	"-/3126"	"-/1041"	""	""	"rs140329547"	"1"	NA	-1	"DHX16"	"HGNC"	2739	"protein_coding"	"YES"	"CCDS4685.1"	"ENSP00000365625"	"O60231"	"Q5SQH4"	"UPI000000D73D"	"NM_001164239.1,NM_003587.4"	NA	NA	""	"19/19"	""	"-:0.0347"	"CTTGGCCTCCCAAAGTGCTAGGATCCTGC:0.9955"	"CTTGGCCTCCCAAAGTGCTAGGATCCTGC:0.9337"	NA	"CTTGGCCTCCCAAAGTGCTAGGATCCTGC:0.9871"	"CTTGGCCTCCCAAAGTGCTAGGATCCTGC:0.9125"	"CTTGGCCTCCCAAAGTGCTAGGATCCTGC:0.9785"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"8d4ace12-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"5027"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	31072015	31072015	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs576019134,rs9278973"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs576019134,rs9278973"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.4684"	"-:0.5461,-:0.5461"	"-:0.5648,-:0.5648"	NA	"-:0.4871,-:0.4871"	"-:0.5139,-:0.5139"	"-:0.5521,-:0.5521"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"6bd6c40c-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"5028"	"POU5F1"	5460	"mskcc.org"	"GRCh37"	"6"	31133620	31133621	"+"	"Intron"	"INS"	"-"	"-"	"AG"	"rs34631505"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.526+82_526+83dupCT"	""	""	"ENST00000259915"	""	102	"."	5	31	"."	0	"POU5F1,5_prime_UTR_variant,,ENST00000513407,NM_001285986.1;POU5F1,intron_variant,,ENST00000471529,NM_203289.4,NM_001285987.1;POU5F1,intron_variant,,ENST00000259915,NM_002701.4;POU5F1,intron_variant,,ENST00000512818,NM_001173531.1;POU5F1,intron_variant,,ENST00000606567,;POU5F1,intron_variant,,ENST00000441888,;TCF19,intron_variant,,ENST00000542218,;TCF19,downstream_gene_variant,,ENST00000376257,NM_007109.2;TCF19,downstream_gene_variant,,ENST00000376255,NM_001077511.1;TCF19,downstream_gene_variant,,ENST00000496421,;POU5F1,non_coding_transcript_exon_variant,,ENST00000461401,;"	"AG"	"ENSG00000204531"	"ENST00000259915"	"Transcript"	"intron_variant"	"-/1414"	"-/1083"	"-/360"	""	""	"rs34631505"	"1"	NA	-1	"POU5F1"	"HGNC"	9221	"protein_coding"	"YES"	"CCDS34391.1"	"ENSP00000259915"	"Q01860"	"U3KQH6,F2Z381,D2IYK3,B5B8Q4,B5B8Q2,B5B8Q1,B5B8Q0,B5B8P9,B5B8P8,B5B8P7,B5B8P6,B5B8P4,B5B8P3,B5B8P2,B5B8P1,B5B8P0,B5B8N9,B5B8N8,B5B8N7"	"UPI0000049CDE"	"NM_002701.4"	NA	NA	""	"2/4"	""	""	"AG:0.8033"	"AG:0.67"	NA	"AG:0.6419"	"AG:0.668"	"AG:0.5798"	""	""	""	""	"21847120"	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"8dc19a10-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0490196078431373	"WXS"	TRUE
"5029"	"HLA-C"	3107	"mskcc.org"	"GRCh37"	"6"	31237535	31237577	"+"	"Intron"	"DEL"	"AACACCATAATCATCAAGGTGATACATCCGTCCTTCATTGTCA"	"AACACCATAATCATCAAGGTGATACATCCGTCCTTCATTGTCA"	"CAACACCATAATCATCAAGGTGATACATCTGTCCTTCATTGT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AACACCATAATCATCAAGGTGATACATCCGTCCTTCATTGTCA"	"AACACCATAATCATCAAGGTGATACATCCGTCCTTCATTGTCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1015+166_1015+208delTGACAATGAAGGACGGATGTATCACCTTGATGATTATGGTGTTinsACAATGAAGGACAGATGTATCACCTTGATGATTATGGTGTTG"	""	""	"ENST00000376228"	""	33	"."	7	21	"."	0	"HLA-C,intron_variant,,ENST00000383329,;HLA-C,intron_variant,,ENST00000376228,NM_002117.5;HLA-C,downstream_gene_variant,,ENST00000415537,;HLA-C,non_coding_transcript_exon_variant,,ENST00000470363,;HLA-C,intron_variant,,ENST00000487245,;HLA-C,intron_variant,,ENST00000376237,;HLA-C,downstream_gene_variant,,ENST00000495835,;HLA-C,downstream_gene_variant,,ENST00000484378,;HLA-C,upstream_gene_variant,,ENST00000466892,;"	"CAACACCATAATCATCAAGGTGATACATCTGTCCTTCATTGT"	"ENSG00000204525"	"ENST00000376228"	"Transcript"	"intron_variant"	"-/1536"	"-/1101"	"-/366"	""	""	""	"1"	NA	-1	"HLA-C"	"HGNC"	4933	"protein_coding"	"YES"	"CCDS34393.1"	"ENSP00000365402"	"P10321"	"S5DU09,S5DN70,S5DLG2,S5DLF2,S5DI32,S5DI31,S5DHQ8,S5DHQ4,Q6R739,N0A4B4,M9XMB2,M9PAK8,M9PAK7,M9PAG6,M9PAG3,M9PAG2,M9PAF9,M9PAF5,M9PAF4,M9PAF2,M9PAC6,M9PA33,M9P9W6,M9P9W3,M9P9V5,M9P9U9,M9P9U4,M9P9R9,M9P9P5,M9P9N1,M9P9M9,M9P9L6,M9P9L0,M9P9H8,M9P9H2,M9P9F8,M9P9F2,M9P9D8,M9P9A7,M9P971,M9P965,M9P962,M9P961,M9P959,M9P955,M9P944,M9P8M1,M9P8L9,M9P8L8,M9P8L7,M9P8L4,M9P8L2,M9P8L0,M9P8K5,Q9TNT2,Q9MY32,Q95HC2,Q8HWM5,Q8HWG1,Q5C9P9,Q29752,Q0MT77,O19579,K9L8F4,K9L7Z3,K9L7R8,K9L7R5,K9L7E8,J9PVP1,J9PVD3,J9PVC3,J7K040,J7JWN4,J7JHR0,I7APJ0,I7A4F1,I6TRY5,I6TRX6,I6TN19,I6TF01,I6SJ94,I6NXM6,I6NXH6,I6NS49,I6NN86,I6MHJ6,I6M570,I6M569,I2GUK7,H9BQ96,H9BQ94,H6V083,H6A2G1,H2DMK4,H2DMJ8,H2BE96,G9I2P1,G9I2N8,G9I2N5,G9I2N2,G9HWA9,G9HWA8,G9HW96,G9HW51,G3D6H6,G3D6G8,G3D6F7,G3D6F5,G3D6E6,G1EQI7,G1EQI3,G1EQH0,G1EQD5,G1EQ80,G1EQ55,G1ENX7,G1ENX4,G1ENX1,G1ENW1,G1ENW0,G1ENV4,G1ENV3,G1ENV2,G1ENT9,G1ENT7,G1ENT3,G1ENT1,G1ENT0,G1EMU8,G1EMU5,G1EMT8,G1EMT7,G1EMT3,G1EMT2,G1EMS4,G1EMS2,G1EMR7,G1EMR6,G1EMR4,G1EMR0,G1EMQ7,G0ZMM1,G0ZMJ9,G0X8S7,G0WVC4,F8SY67,F8SL02,F8SL01,F8SKZ7,F8SKZ5,F8SKZ4,F8SKY8,F8R8K2,F8R1B3,F6KVT8,F6KS12,F6KS10,F6KS09,F6KS07,F6KRY5,F6KRY2,F6KRY0,F6KRX9,F6KRX3,F6KRW4,F6KRW3,F6IQL8,F6IQL6,F6IQL4,F6IQL2,F6IQK7,F6IQK5,F6IQK4,F6IQK3,F6IQK2,F6IQK1,F6IQJ9,F4YU88,F4YU76,F2VNS0,F2VNR5,F2VNQ5,F2VNQ1,F1CCL2,F1CCK3,F1CCJ3,E3SWK0,E3SGA8,E3SGA7,E3SGA4,E3Q1I6,E2GJI9,E2GJH5,E2DHB8,E1Y7F7,E1U661,E0YTP0,E0YTN9,E0X9L4,E0WBV9,E0WBV8,D9UAZ7,D7RJ45,D7NQZ6,D7NP34,D6MLE9,D6MLD2,D6ML93,D6MKV1,D6MJJ2,D6MJI1,D6MJH9,D6C6F9,D6C6D5,D6C6D4,D6C6C3,D5M8B1,D5FZR1,D5FZM4,D3U749,D3U748,D3U733,D3U3P8,D3U3P6,D2DKH1,C9WEV2,C9WEV1,C9WEU1,C9WES3,C9WER9,C9WER5,C9WER2,C8CHA9,C8CH96,C7FDU3,C7FDU2,C7FDT6,C7EDP3,C7C4Z5,C6K4P2,C6K4N9,C6K4N7,C6K4M5,C6JSX9,C5J031,C5IZU8,C5IZU6,C0KJZ4,B9WPN5,B8Y6A8,B5BLP2,B1PQ27,B0JF23"	"UPI000008AEBB"	"NM_002117.5"	NA	NA	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCAACACCATAATCATCAAGGTGATACATCCGTCCTTCATTGTCAC"	"868440cc-280f-11e6-a9d4-0533424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212121212121212	"WXS"	FALSE
"5030"	"AL671883.1"	0	"mskcc.org"	"GRCh37"	"6"	31345771	31345772	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs71552050"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000578513"	""	11	"."	5	6	"."	0	"AL671883.1,upstream_gene_variant,,ENST00000578513,;FGFR3P1,non_coding_transcript_exon_variant,,ENST00000449999,;ZDHHC20P2,upstream_gene_variant,,ENST00000424108,;HLA-S,downstream_gene_variant,,ENST00000425174,;"	"G"	"ENSG00000265294"	"ENST00000578513"	"Transcript"	"upstream_gene_variant"	"-/86"	""	""	""	""	"rs71552050"	"1"	"3591"	-1	"AL671883.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1208"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"8e2a2f3a-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"5031"	"MICB"	4277	"mskcc.org"	"GRCh37"	"6"	31458059	31458067	"+"	"5'Flank"	"DEL"	"GACCATCAG"	"GACCATCAG"	"-"	"rs35366275,rs77387630"	NA	"JHCCPT5"	"JHCCPN5"	"GACCATCAG"	"GACCATCAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000538442"	""	6	"."	3	2	"."	0	"MICB,upstream_gene_variant,,ENST00000538442,;"	"-"	"ENSG00000204516"	"ENST00000538442"	"Transcript"	"upstream_gene_variant"	"-/1485"	"-/1056"	"-/351"	""	""	"rs35366275,rs77387630"	"1"	"4591"	1	"MICB"	"HGNC"	7091	"protein_coding"	""	""	"ENSP00000442345"	""	"F5H7Q8,D2KNA0"	"UPI000020E55E"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTGACCATCAGA"	"6c82baa0-280f-11e6-a9d4-0533424a729f"	"152"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5032"	"ENSR00000662362"	0	"mskcc.org"	"GRCh37"	"6"	32212705	32212706	"+"	"IGR"	"INS"	"-"	"G"	"G"	"rs35161164"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000662362"	""	7	"."	5	2	"."	0	""	"G"	""	"ENSR00000662362"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs35161164"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	"G:0.2458"	"G:0.5692"	NA	"G:0.4028"	"G:0.4294"	"G:0.4305"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"8e9db1ee-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"5033"	"C6orf10"	10665	"mskcc.org"	"GRCh37"	"6"	32301372	32301375	"+"	"Intron"	"DEL"	"ACCT"	"ACCT"	"CTA"	"rs386699283"	NA	"JHCCPT5"	"JHCCPN5"	"ACCT"	"ACCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.473-1544_473-1541delAGGTinsTAG"	""	""	"ENST00000447241"	""	7	"."	4	1	"."	0	"C6orf10,intron_variant,,ENST00000375015,;C6orf10,intron_variant,,ENST00000533191,NM_001286475.1,NM_001286474.1;C6orf10,intron_variant,,ENST00000447241,NM_006781.3;C6orf10,intron_variant,,ENST00000375007,;C6orf10,intron_variant,,ENST00000527965,;C6orf10,intron_variant,,ENST00000442822,;C6orf10,downstream_gene_variant,,ENST00000532023,;C6orf10,downstream_gene_variant,,ENST00000534588,;"	"CTA"	"ENSG00000204296"	"ENST00000447241"	"Transcript"	"intron_variant"	"-/2148"	"-/1692"	"-/563"	""	""	"rs386699283"	"1"	NA	-1	"C6orf10"	"HGNC"	13922	"protein_coding"	"YES"	"CCDS34422.1"	"ENSP00000415517"	"Q5SRN2"	""	"UPI0000470279"	"NM_006781.3"	NA	NA	""	"14/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACACCTG"	"86d34898-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5034"	"HLA-DRB5"	3127	"mskcc.org"	"GRCh37"	"6"	32485743	32485777	"+"	"Intron"	"DEL"	"CCTGCTATTTCTGTCTCATGCCTTATCACCTCTGC"	"CCTGCTATTTCTGTCTCATGCCTTATCACCTCTGC"	"TATTATTTCTGTCTCATGCCTTATCACCTCCACT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CCTGCTATTTCTGTCTCATGCCTTATCACCTCTGC"	"CCTGCTATTTCTGTCTCATGCCTTATCACCTCTGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.787+54_787+88delGCAGAGGTGATAAGGCATGAGACAGAAATAGCAGGinsAGTGGAGGTGATAAGGCATGAGACAGAAATAATA"	""	""	"ENST00000374975"	""	21	"."	3	8	"."	0	"HLA-DRB5,intron_variant,,ENST00000374975,NM_002125.3;"	"TATTATTTCTGTCTCATGCCTTATCACCTCCACT"	"ENSG00000198502"	"ENST00000374975"	"Transcript"	"intron_variant"	"-/1260"	"-/801"	"-/266"	""	""	""	"1"	NA	-1	"HLA-DRB5"	"HGNC"	4953	"protein_coding"	"YES"	"CCDS4751.1"	"ENSP00000364114"	"Q30154"	"Q95385,Q5TJ21,Q30141,Q30138,Q30009,Q2YHL2,Q06663,Q06654,A1A424"	"UPI000008AF56"	"NM_002125.3"	NA	NA	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCCTGCTATTTCTGTCTCATGCCTTATCACCTCTGCC"	"86d6a506-280f-11e6-a9d4-0533424a729f"	"113"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"5035"	"RNU1-61P"	0	"mskcc.org"	"GRCh37"	"6"	32520388	32520389	"+"	"5'Flank"	"DEL"	"TG"	"TG"	"-"	"rs71780190"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516107"	""	9	"."	4	1	"."	0	"RNU1-61P,upstream_gene_variant,,ENST00000516107,;HLA-DRB6,downstream_gene_variant,,ENST00000411500,;HLA-DRB6,downstream_gene_variant,,ENST00000437183,;HLA-DRB6,downstream_gene_variant,,ENST00000440876,;HLA-DRB6,downstream_gene_variant,,ENST00000437650,;"	"-"	"ENSG00000251916"	"ENST00000516107"	"Transcript"	"upstream_gene_variant"	"-/151"	""	""	""	""	"rs71780190"	"1"	"2521"	-1	"RNU1-61P"	"HGNC"	48403	"snRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATGT"	"6e575cbe-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"5036"	"RNU1-61P"	0	"mskcc.org"	"GRCh37"	"6"	32521620	32521621	"+"	"5'Flank"	"INS"	"-"	"-"	"AGATTCAGCTCCCA"	"rs149799879"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516107"	""	18	"."	5	7	"."	0	"RNU1-61P,upstream_gene_variant,,ENST00000516107,;HLA-DRB6,intron_variant,,ENST00000411500,;HLA-DRB6,intron_variant,,ENST00000437183,;HLA-DRB6,intron_variant,,ENST00000437650,;HLA-DRB6,downstream_gene_variant,,ENST00000440876,;"	"AGATTCAGCTCCCA"	"ENSG00000251916"	"ENST00000516107"	"Transcript"	"upstream_gene_variant"	"-/151"	""	""	""	""	"rs149799879"	"1"	"3753"	-1	"RNU1-61P"	"HGNC"	48403	"snRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"8edee452-280f-11e6-a9d4-0533424a729f"	"189"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"5037"	"HLA-DRB1"	3123	"mskcc.org"	"GRCh37"	"6"	32549811	32549848	"+"	"Intron"	"DEL"	"TTGTGAAAAATTGTGTTTGTTTCTTCATAGTTTTAAAT"	"TTGTGAAAAATTGTGTTTGTTTCTTCATAGTTTTAAAT"	"GAAAAATTGCGTTTGCTTCTTCATAACTTGAAATT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTGTGAAAAATTGTGTTTGTTTCTTCATAGTTTTAAAT"	"TTGTGAAAAATTGTGTTTGTTTCTTCATAGTTTTAAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.371-232_371-196delTTTAAAACTATGAAGAAACAAACACAATTTTTCACAAinsATTTCAAGTTATGAAGAAGCAAACGCAATTTTTC"	""	""	"ENST00000360004"	""	34	"."	3	15	"."	0	"HLA-DRB1,intron_variant,,ENST00000360004,NM_002124.3;"	"GAAAAATTGCGTTTGCTTCTTCATAACTTGAAAT"	"ENSG00000196126"	"ENST00000360004"	"Transcript"	"intron_variant"	"-/1229"	"-/801"	"-/266"	""	""	""	"1"	NA	-1	"HLA-DRB1"	"HGNC"	4948	"protein_coding"	"YES"	"CCDS47409.1"	"ENSP00000353099"	"Q9GIY3,P04229,Q29974,P01911"	"M9PAL6,M9PAH4,M9PAH2,M9PA34,M9P9N9,M9P9N6,M9P978,M9P8M8,M9P8M7,Q9TQ40,Q9MYD9,Q95HN3,Q8WMA1,Q8MGY6,Q8HWN3,Q860S9,Q5Y7C5,Q3LTJ8,Q1G100,Q1G0Z8,Q06653,I6NVX3,I6M556,H8WV95,H6A2E5,H2BDR9,G9I2P4,G9HW13,G1EMX6,G1EMX4,G1CD91,G0ZMM9,G0ZMM8,G0ZDX1,F8R8N1,F8R8N0,F4YZX5,F4YZX4,F4YZX3,F4YZX2,F4YZX1,F4YZW3,F4YUA8,F2X654,F2VNW9,F2VNV6,F2VNV5,F2QL89,F1CCP7,F1CCN5,F1CCN2,F1CCL9,F0V6B9,E7BYD5,E3SWP0,E3SWN9,E3SWN8,E0X9M7,D9IFQ2,D7RIH8,D7NR21,D6MJL2,D6MJC0,D6BPR2,D5M8A0,D5M899,D5G2K8,D5FZP5,D5FZP4,D5FIF2,D5FIE9,D5FIE8,D5FIE7,D5FIE6,D5FIE4,D5FID9,D5FID8,D5FID7,D5FID6,D5FID2,D5FID0,D5FIC9,D5FIC8,D3U4F4,C8CJD1,B7VU65,A1Z0K9,A0N0W0"	"UPI000008A1F7"	"NM_002124.3"	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTTGTGAAAAATTGTGTTTGTTTCTTCATAGTTTTAAATC"	"87ba6908-280f-11e6-a9d4-0533424a729f"	"160"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WXS"	FALSE
"5038"	"HLA-DQA1"	3117	"mskcc.org"	"GRCh37"	"6"	32610581	32610601	"+"	"Intron"	"DEL"	"CAGTTGAAGCGGCAGTATGAA"	"CAGTTGAAGCGGCAGTATGAA"	"GAGCTGAAGCTGC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CAGTTGAAGCGGCAGTATGAA"	"CAGTTGAAGCGGCAGTATGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*20+20_*20+40delCAGTTGAAGCGGCAGTATGAAinsGAGCTGAAGCTGC"	""	""	"ENST00000343139"	""	58	"."	8	18	"."	0	"HLA-DQA1,3_prime_UTR_variant,,ENST00000374949,;HLA-DQA1,intron_variant,,ENST00000343139,NM_002122.3;HLA-DQA1,intron_variant,,ENST00000395363,;HLA-DQA1,intron_variant,,ENST00000496318,;HLA-DQA1,non_coding_transcript_exon_variant,,ENST00000460633,;HLA-DQA1,intron_variant,,ENST00000482745,;"	"GAGCTGAAGCTGC"	"ENSG00000196735"	"ENST00000343139"	"Transcript"	"intron_variant"	"-/1591"	"-/768"	"-/255"	""	""	""	"1"	NA	1	"HLA-DQA1"	"HGNC"	4942	"protein_coding"	"YES"	"CCDS4752.1"	"ENSP00000339398"	"P01909"	"Q67AI2,Q67AI1,Q67AI0,Q67AH9,Q67AH8,Q67AH7,Q67AH6,Q67AC4,Q67AC3,Q67AC2,Q67AC1,Q67AC0,Q67AB9,Q67AB8,Q67AB7,Q67AB6,Q67AB5,Q67AA7,Q67AA6,Q67AA5,Q67A93,Q67A92,Q30066,Q30065,O19703,F6UB03"	"UPI0000140E19"	"NM_002122.3"	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TACAGTTGAAGCGGCAGTATGAAA"	"87e96802-280f-11e6-a9d4-0533424a729f"	"371"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WXS"	FALSE
"5039"	"HLA-DQB1"	3119	"mskcc.org"	"GRCh37"	"6"	32626583	32626584	"+"	"3'Flank"	"DEL"	"AC"	"-"	"-"	"rs66899657"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000374943"	""	13	"."	10	2	"."	0	"HLA-DQB1,downstream_gene_variant,,ENST00000399084,;HLA-DQB1,downstream_gene_variant,,ENST00000374943,NM_001243961.1;HLA-DQB1,downstream_gene_variant,,ENST00000434651,NM_002123.4;HLA-DQB1,downstream_gene_variant,,ENST00000399079,;HLA-DQB1,downstream_gene_variant,,ENST00000399082,;HLA-DQB1-AS1,upstream_gene_variant,,ENST00000419852,;HLA-DQB1,downstream_gene_variant,,ENST00000460185,;XXbac-BPG254F23.6,downstream_gene_variant,,ENST00000443574,;HLA-DQB1,downstream_gene_variant,,ENST00000487676,;HLA-DQB1,downstream_gene_variant,,ENST00000484729,;"	"-"	"ENSG00000179344"	"ENST00000374943"	"Transcript"	"downstream_gene_variant"	"-/1656"	"-/810"	"-/269"	""	""	"rs66899657"	"1"	"660"	-1	"HLA-DQB1"	"HGNC"	4944	"protein_coding"	"YES"	"CCDS59006.1"	"ENSP00000364080"	""	"T1R348,S6CPW3,S6CPW2,R4QU49,N0A4C3,N0A0M1,M4YQH8,Q9BCT8,Q8SNB9,Q8MHQ2,Q67AJ0,Q67AI9,Q5SU54,Q5BLN3,Q5BLN2,Q4VC55,O78224,O19741,L0BX94,L0BX86,L0BW29,I4EPK9,I4EPK4,F8LFZ3,F8LFZ1"	"UPI0000E5AD35"	"NM_001243961.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGACA"	"6eab68ae-280f-11e6-a9d4-0533424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.769230769230769	"WXS"	FALSE
"5040"	"HLA-DQB1"	3119	"mskcc.org"	"GRCh37"	"6"	32629697	32629698	"+"	"Intron"	"INS"	"-"	"-"	"CTGCC"	"rs148411365"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.661+46_661+47insGGCAG"	""	""	"ENST00000374943"	""	220	"."	3	82	"."	0	"HLA-DQB1,intron_variant,,ENST00000399084,;HLA-DQB1,intron_variant,,ENST00000374943,NM_001243961.1;HLA-DQB1,intron_variant,,ENST00000434651,NM_002123.4;HLA-DQB1,intron_variant,,ENST00000399079,;HLA-DQB1,intron_variant,,ENST00000399082,;HLA-DQB1-AS1,downstream_gene_variant,,ENST00000419852,;XXbac-BPG254F23.6,intron_variant,,ENST00000443574,;HLA-DQB1,upstream_gene_variant,,ENST00000460185,;HLA-DQB1,non_coding_transcript_exon_variant,,ENST00000487676,;HLA-DQB1,intron_variant,,ENST00000484729,;"	"CTGCC"	"ENSG00000179344"	"ENST00000374943"	"Transcript"	"intron_variant"	"-/1656"	"-/810"	"-/269"	""	""	"rs148411365"	"1"	NA	-1	"HLA-DQB1"	"HGNC"	4944	"protein_coding"	"YES"	"CCDS59006.1"	"ENSP00000364080"	""	"T1R348,S6CPW3,S6CPW2,R4QU49,N0A4C3,N0A0M1,M4YQH8,Q9BCT8,Q8SNB9,Q8MHQ2,Q67AJ0,Q67AI9,Q5SU54,Q5BLN3,Q5BLN2,Q4VC55,O78224,O19741,L0BX94,L0BX86,L0BW29,I4EPK9,I4EPK4,F8LFZ3,F8LFZ1"	"UPI0000E5AD35"	"NM_001243961.1"	NA	NA	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	"0.3543"	"0.2527"	"0.6159"	"0.4862"	"0.3435"	"0.3428"	"0.351"	"0.2653"	"1"	"common_variant"	"CTC"	"8f3929e4-280f-11e6-a9d4-0533424a729f"	"160"	0.373	"32015/85842"	"33761/95284"	"1702/6734"	"6310/10246"	"3426/7046"	"2083/6064"	"16179/47192"	"179/510"	"2136/8050"	"PASS"	"FALSE"	0.0136363636363636	"WXS"	FALSE
"5041"	"HLA-DQB1"	3119	"mskcc.org"	"GRCh37"	"6"	32634183	32634204	"+"	"Intron"	"DEL"	"CAAGATCATAGAGATCACCATC"	"CAAGATCATAGAGATCACCATC"	"TGAGATAATCGAGATCACCAT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CAAGATCATAGAGATCACCATC"	"CAAGATCATAGAGATCACCATC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.109+72_109+93delGATGGTGATCTCTATGATCTTGinsATGGTGATCTCGATTATCTCA"	""	""	"ENST00000374943"	""	22	"."	3	14	"."	0	"HLA-DQB1,intron_variant,,ENST00000399084,;HLA-DQB1,intron_variant,,ENST00000374943,NM_001243961.1;HLA-DQB1,intron_variant,,ENST00000434651,NM_002123.4;HLA-DQB1,intron_variant,,ENST00000399079,;HLA-DQB1,intron_variant,,ENST00000399082,;XXbac-BPG254F23.6,upstream_gene_variant,,ENST00000443574,;HLA-DQB1,intron_variant,,ENST00000487676,;HLA-DQB1,intron_variant,,ENST00000484729,;"	"TGAGATAATCGAGATCACCAT"	"ENSG00000179344"	"ENST00000374943"	"Transcript"	"intron_variant"	"-/1656"	"-/810"	"-/269"	""	""	""	"1"	NA	-1	"HLA-DQB1"	"HGNC"	4944	"protein_coding"	"YES"	"CCDS59006.1"	"ENSP00000364080"	""	"T1R348,S6CPW3,S6CPW2,R4QU49,N0A4C3,N0A0M1,M4YQH8,Q9BCT8,Q8SNB9,Q8MHQ2,Q67AJ0,Q67AI9,Q5SU54,Q5BLN3,Q5BLN2,Q4VC55,O78224,O19741,L0BX94,L0BX86,L0BW29,I4EPK9,I4EPK4,F8LFZ3,F8LFZ1"	"UPI0000E5AD35"	"NM_001243961.1"	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCCAAGATCATAGAGATCACCATCC"	"8813dcae-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"5042"	"HLA-DQB1"	3119	"mskcc.org"	"GRCh37"	"6"	32634564	32634565	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"rs281860816"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000374943"	""	65	"."	7	24	"."	0	"HLA-DQB1,intron_variant,,ENST00000399084,;HLA-DQB1,upstream_gene_variant,,ENST00000374943,NM_001243961.1;HLA-DQB1,upstream_gene_variant,,ENST00000434651,NM_002123.4;HLA-DQB1,upstream_gene_variant,,ENST00000399079,;HLA-DQB1,upstream_gene_variant,,ENST00000399082,;XXbac-BPG254F23.6,upstream_gene_variant,,ENST00000443574,;HLA-DQB1,upstream_gene_variant,,ENST00000487676,;HLA-DQB1,upstream_gene_variant,,ENST00000484729,;"	"T"	"ENSG00000179344"	"ENST00000374943"	"Transcript"	"upstream_gene_variant"	"-/1656"	"-/810"	"-/269"	""	""	"rs281860816"	"1"	"103"	-1	"HLA-DQB1"	"HGNC"	4944	"protein_coding"	"YES"	"CCDS59006.1"	"ENSP00000364080"	""	"T1R348,S6CPW3,S6CPW2,R4QU49,N0A4C3,N0A0M1,M4YQH8,Q9BCT8,Q8SNB9,Q8MHQ2,Q67AJ0,Q67AI9,Q5SU54,Q5BLN3,Q5BLN2,Q4VC55,O78224,O19741,L0BX94,L0BX86,L0BW29,I4EPK9,I4EPK4,F8LFZ3,F8LFZ1"	"UPI0000E5AD35"	"NM_001243961.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"8f4cbda6-280f-11e6-a9d4-0533424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107692307692308	"WXS"	FALSE
"5043"	"HLA-DQB1"	3119	"mskcc.org"	"GRCh37"	"6"	32634674	32634705	"+"	"5'Flank"	"DEL"	"AACGAATGCCTCGGGGATTTTGAGAGGCAAAA"	"AACGAATGCCTCGGGGATTTTGAGAGGCAAAA"	"CTGAATGCCTAAGGGATTTTAAGAAGCCA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AACGAATGCCTCGGGGATTTTGAGAGGCAAAA"	"AACGAATGCCTCGGGGATTTTGAGAGGCAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000374943"	""	14	"."	3	7	"."	0	"HLA-DQB1,intron_variant,,ENST00000399084,;HLA-DQB1,upstream_gene_variant,,ENST00000374943,NM_001243961.1;HLA-DQB1,upstream_gene_variant,,ENST00000434651,NM_002123.4;HLA-DQB1,upstream_gene_variant,,ENST00000399079,;HLA-DQB1,upstream_gene_variant,,ENST00000399082,;XXbac-BPG254F23.6,upstream_gene_variant,,ENST00000443574,;HLA-DQB1,upstream_gene_variant,,ENST00000487676,;HLA-DQB1,upstream_gene_variant,,ENST00000484729,;"	"CTGAATGCCTAAGGGATTTTAAGAAGCC"	"ENSG00000179344"	"ENST00000374943"	"Transcript"	"upstream_gene_variant"	"-/1656"	"-/810"	"-/269"	""	""	""	"1"	"213"	-1	"HLA-DQB1"	"HGNC"	4944	"protein_coding"	"YES"	"CCDS59006.1"	"ENSP00000364080"	""	"T1R348,S6CPW3,S6CPW2,R4QU49,N0A4C3,N0A0M1,M4YQH8,Q9BCT8,Q8SNB9,Q8MHQ2,Q67AJ0,Q67AI9,Q5SU54,Q5BLN3,Q5BLN2,Q4VC55,O78224,O19741,L0BX94,L0BX86,L0BW29,I4EPK9,I4EPK4,F8LFZ3,F8LFZ1"	"UPI0000E5AD35"	"NM_001243961.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGAACGAATGCCTCGGGGATTTTGAGAGGCAAAAG"	"8814a8a0-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"5044"	"HLA-DPB2"	3116	"mskcc.org"	"GRCh37"	"6"	33084086	33084087	"+"	"Intron"	"INS"	"-"	"-"	"AGGGAGGG"	"rs9282425"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.140-636_140-629dupGAGGGAGG"	""	""	"ENST00000435499"	""	14	"."	3	4	"."	0	"HLA-DPB2,intron_variant,,ENST00000435074,;HLA-DPB2,intron_variant,,ENST00000435499,;HLA-DPB2,intron_variant,,ENST00000470997,;"	"AGGGAGGG"	"ENSG00000224557"	"ENST00000435499"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1617"	""	""	""	""	"rs9282425"	"1"	NA	1	"HLA-DPB2"	"HGNC"	4941	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"19"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"8f85ddde-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"5045"	"VPS52"	6293	"mskcc.org"	"GRCh37"	"6"	33231166	33231167	"+"	"Intron"	"INS"	"-"	"-"	"CACACACACACACACACACACACT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1794+94_1794+95insAGTGTGTGTGTGTGTGTGTGTGTG"	""	""	"ENST00000445902"	""	26	"."	8	14	"."	0	"VPS52,intron_variant,,ENST00000482399,;VPS52,intron_variant,,ENST00000445902,NM_022553.4;VPS52,intron_variant,,ENST00000436044,;VPS52,intron_variant,,ENST00000478934,;VPS52,intron_variant,,ENST00000493674,;VPS52,intron_variant,,ENST00000495981,;VPS52,intron_variant,,ENST00000471309,;VPS52,downstream_gene_variant,,ENST00000464425,;VPS52,downstream_gene_variant,,ENST00000463486,;VPS52,downstream_gene_variant,,ENST00000493379,;VPS52,downstream_gene_variant,,ENST00000461743,;VPS52,downstream_gene_variant,,ENST00000495755,;"	"CACACACACACACACACACACACT"	"ENSG00000223501"	"ENST00000445902"	"Transcript"	"intron_variant"	"-/2960"	"-/2172"	"-/723"	""	""	""	"1"	NA	-1	"VPS52"	"HGNC"	10518	"protein_coding"	"YES"	"CCDS4770.2"	"ENSP00000409952"	"Q8N1B4"	"B4DS44,B4DNI9"	"UPI000006E468"	"NM_022553.4"	NA	NA	""	"17/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"8fcfa9b4-280f-11e6-a9d4-0533424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"5046"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	33530628	33530629	"+"	"IGR"	"INS"	"-"	"-"	"TGTG"	"rs111678491"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	5	2	"."	0	""	"TGTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs111678491"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TGTGTGTG:0.3840"	"TGTGTGTG:0.4297"	"TGTGTGTG:0.3934"	NA	"TGTGTGTG:0.3056"	"TGTGTGTG:0.4066"	"TGTGTGTG:0.3732"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"9002ef2c-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"5047"	"IP6K3"	117283	"mskcc.org"	"GRCh37"	"6"	33716634	33716635	"+"	"5'Flank"	"INS"	"-"	"-"	"GG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000451316"	""	7	"."	3	2	"."	0	"IP6K3,upstream_gene_variant,,ENST00000451316,NM_001142883.1;IP6K3,upstream_gene_variant,,ENST00000293756,NM_054111.4;"	"GG"	"ENSG00000161896"	"ENST00000451316"	"Transcript"	"upstream_gene_variant"	"-/2822"	"-/1233"	"-/410"	""	""	""	"1"	"1872"	-1	"IP6K3"	"HGNC"	17269	"protein_coding"	"YES"	"CCDS34435.1"	"ENSP00000398861"	"Q96PC2"	"Q5TAQ4"	"UPI000013E117"	"NM_001142883.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"900d7406-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5048"	"NUDT3"	11165	"mskcc.org"	"GRCh37"	"6"	34323796	34323796	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs199975795"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.100-14047delT"	""	""	"ENST00000607016"	""	54	"."	28	11	"."	1	"NUDT3,intron_variant,,ENST00000607016,NM_006703.3;RPS10-NUDT3,intron_variant,,ENST00000605528,NM_001202470.2;"	"-"	"ENSG00000272325"	"ENST00000607016"	"Transcript"	"intron_variant"	"-/9905"	"-/519"	"-/172"	""	""	"rs199975795"	"1"	NA	-1	"NUDT3"	"HGNC"	8050	"protein_coding"	"YES"	"CCDS4791.1"	"ENSP00000476119"	"O95989"	""	"UPI00000465B8"	"NM_006703.3"	NA	NA	""	"1/4"	""	"-:0.0148"	"-:0.0325"	"-:0.0029"	NA	"-:0.0119"	"-:0.004"	"-:0.0133"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"70363fd2-280f-11e6-a9d4-0533424a729f"	"1740"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.518518518518518	"WXS"	FALSE
"5049"	"C6orf106"	64771	"mskcc.org"	"GRCh37"	"6"	34605642	34605647	"+"	"Intron"	"DEL"	"TGTTGT"	"TGTTGT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TGTTGT"	"TGTTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.511+8731_511+8736delACAACA"	""	""	"ENST00000374023"	""	37	"."	5	12	"."	0	"C6orf106,intron_variant,,ENST00000374023,NM_024294.2;C6orf106,intron_variant,,ENST00000374026,NM_022758.4;C6orf106,intron_variant,,ENST00000374021,;"	"-"	"ENSG00000196821"	"ENST00000374023"	"Transcript"	"intron_variant"	"-/4418"	"-/897"	"-/298"	""	""	""	"1"	NA	-1	"C6orf106"	"HGNC"	21215	"protein_coding"	"YES"	"CCDS4796.1"	"ENSP00000363135"	"Q9H6K1"	"Q5TH58"	"UPI000006F934"	"NM_024294.2"	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTGTTGTT"	"704cc342-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135135135135135	"WXS"	FALSE
"5050"	"CLPS"	1208	"mskcc.org"	"GRCh37"	"6"	35765260	35765267	"+"	"5'Flank"	"DEL"	"GTGTGTGT"	"GTGTGTGT"	"-"	"rs112558541"	NA	"JHCCPT5"	"JHCCPN5"	"GTGTGTGT"	"GTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000259938"	""	12	"."	3	9	"."	0	"CLPS,upstream_gene_variant,,ENST00000259938,NM_001832.3;CLPSL1,downstream_gene_variant,,ENST00000428710,;"	"-"	"ENSG00000137392"	"ENST00000259938"	"Transcript"	"upstream_gene_variant"	"-/526"	"-/339"	"-/112"	""	""	"rs112558541"	"1"	"172"	-1	"CLPS"	"HGNC"	2085	"protein_coding"	"YES"	"CCDS4811.1"	"ENSP00000259938"	"P04118"	""	"UPI0000127E78"	"NM_001832.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCGTGTGTGTG"	"70d0522a-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"5051"	"RP1-90K10.4"	0	"mskcc.org"	"GRCh37"	"6"	36916496	36916497	"+"	"5'Flank"	"DEL"	"CT"	"CT"	"-"	"rs142273965"	NA	"JHCCPT5"	"JHCCPN5"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000427609"	""	14	"."	5	2	"."	0	"RP1-90K10.4,upstream_gene_variant,,ENST00000427609,;"	"-"	"ENSG00000232598"	"ENST00000427609"	"Transcript"	"upstream_gene_variant"	"-/497"	""	""	""	""	"rs142273965"	"1"	"4045"	-1	"RP1-90K10.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCTC"	"7156cb20-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WXS"	FALSE
"5052"	"RP1-153P14.8"	100505530	"mskcc.org"	"GRCh37"	"6"	37501793	37501794	"+"	"Intron"	"INS"	"-"	"-"	"TGTC"	"rs758094033"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.358-256_358-255insCTGT"	""	""	"ENST00000570443"	""	61	"."	13	25	"."	0	"RP1-153P14.8,intron_variant,,ENST00000570443,;"	"TGTC"	"ENSG00000204110"	"ENST00000570443"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/537"	""	""	""	""	"rs758094033"	"1"	NA	1	"RP1-153P14.8"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"90c960c6-280f-11e6-a9d4-0533424a729f"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213114754098361	"WXS"	FALSE
"5053"	"BTBD9"	114781	"mskcc.org"	"GRCh37"	"6"	38139332	38139351	"+"	"3'UTR"	"DEL"	"GTGTGTGTGTGTGTGTGTGT"	"GTGTGTGTGTGTGTGTGTGT"	"-"	"rs145097686"	NA	"JHCCPT5"	"JHCCPN5"	"GTGTGTGTGTGTGTGTGTGT"	"GTGTGTGTGTGTGTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*3410_*3429delACACACACACACACACACAC"	""	""	"ENST00000481247"	"11/11"	8	"."	4	4	"."	0	"BTBD9,3_prime_UTR_variant,,ENST00000481247,NM_052893.1,NM_001099272.1;BTBD9,3_prime_UTR_variant,,ENST00000314100,NM_001172418.1,NM_152733.2;BTBD9,downstream_gene_variant,,ENST00000419706,;BTBD9,downstream_gene_variant,,ENST00000403056,;BTBD9,downstream_gene_variant,,ENST00000408958,;BTBD9,downstream_gene_variant,,ENST00000328403,;"	"-"	"ENSG00000183826"	"ENST00000481247"	"Transcript"	"3_prime_UTR_variant"	"5401-5420/8525"	"-/1839"	"-/612"	""	""	"rs145097686"	"1"	NA	-1	"BTBD9"	"HGNC"	21228	"protein_coding"	"YES"	"CCDS47418.1"	"ENSP00000418751"	"Q96Q07"	"Q8N299,C9JVC1,C9J8E4"	"UPI00001C040E"	"NM_052893.1,NM_001099272.1"	NA	NA	"11/11"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGGTGTGTGTGTGTGTGTGTGTG"	"71af778e-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5054"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	39137848	39137849	"+"	"IGR"	"DEL"	"AC"	"AC"	"-"	"rs138410610"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138410610"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2524"	"-:0.4856"	"-:0.2349"	NA	"-:0.0526"	"-:0.2803"	"-:0.1268"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAACA"	"71ffc900-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5055"	"FRS3"	10817	"mskcc.org"	"GRCh37"	"6"	41734038	41734041	"+"	"3'Flank"	"DEL"	"GAAA"	"GAAA"	"-"	"rs111511560"	NA	"JHCCPT5"	"JHCCPN5"	"GAAA"	"GAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000373018"	""	20	"."	6	5	"."	0	"FRS3,downstream_gene_variant,,ENST00000373018,NM_006653.4;FRS3,downstream_gene_variant,,ENST00000259748,;RP11-298J23.8,upstream_gene_variant,,ENST00000593368,;"	"-"	"ENSG00000137218"	"ENST00000373018"	"Transcript"	"downstream_gene_variant"	"-/2174"	"-/1479"	"-/492"	""	""	"rs111511560"	"1"	"3873"	-1	"FRS3"	"HGNC"	16970	"protein_coding"	"YES"	"CCDS4860.1"	"ENSP00000362109"	"O43559"	"A6PVU0"	"UPI0000073ACA"	"NM_006653.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAAG"	"7288b774-280f-11e6-a9d4-0533424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"5056"	"MRPS10"	55173	"mskcc.org"	"GRCh37"	"6"	42182330	42182376	"+"	"Intron"	"DEL"	"ACAATTCTCACATTTAAAAAAAGCTATGAATTATGTGGACATCAAGA"	"ACAATTCTCACATTTAAAAAAAGCTATGAATTATGTGGACATCAAGA"	"CAATTCTCACATTTAAAAAAAGCTATGAATTATGTGGACATCAAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"ACAATTCTCACATTTAAAAAAAGCTATGAATTATGTGGACATCAAGA"	"ACAATTCTCACATTTAAAAAAAGCTATGAATTATGTGGACATCAAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.49-294_49-248delTCTTGATGTCCACATAATTCATAGCTTTTTTTAAATGTGAGAATTGTinsCTTGATGTCCACATAATTCATAGCTTTTTTTAAATGTGAGAATTG"	""	""	"ENST00000053468"	""	21	"."	5	3	"."	0	"MRPS10,intron_variant,,ENST00000053468,NM_018141.3;"	"CAATTCTCACATTTAAAAAAAGCTATGAATTATGTGGACATCAAG"	"ENSG00000048544"	"ENST00000053468"	"Transcript"	"intron_variant"	"-/2110"	"-/606"	"-/201"	""	""	""	"1"	NA	-1	"MRPS10"	"HGNC"	14502	"protein_coding"	"YES"	"CCDS4866.1"	"ENSP00000053468"	"P82664"	"B4DP77"	"UPI0000135254"	"NM_018141.3"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAACAATTCTCACATTTAAAAAAAGCTATGAATTATGTGGACATCAAGAA"	"88627b02-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WXS"	FALSE
"5057"	"UBR2"	23304	"mskcc.org"	"GRCh37"	"6"	42582554	42582554	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs35018263"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.986-255delG"	""	""	"ENST00000372899"	""	13	"."	5	2	"."	0	"UBR2,intron_variant,,ENST00000372899,NM_015255.2;UBR2,intron_variant,,ENST00000372901,;UBR2,intron_variant,,ENST00000372903,NM_001184801.1;UBR2,upstream_gene_variant,,ENST00000372883,;"	"-"	"ENSG00000024048"	"ENST00000372899"	"Transcript"	"intron_variant"	"-/7857"	"-/5268"	"-/1755"	""	""	"rs35018263"	"1"	NA	1	"UBR2"	"HGNC"	21289	"protein_coding"	"YES"	"CCDS4870.1"	"ENSP00000361990"	"Q8IWV8"	"B3KXG6"	"UPI0000074466"	"NM_015255.2"	NA	NA	""	"8/46"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGC"	"72ce923a-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"5058"	"UBR2"	23304	"mskcc.org"	"GRCh37"	"6"	42608122	42608133	"+"	"Intron"	"DEL"	"GTGTGTGTGTGT"	"GTGTGTGTGTGT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GTGTGTGTGTGT"	"GTGTGTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1920+154_1920+165delGTGTGTGTGTGT"	""	""	"ENST00000372899"	""	59	"."	4	29	"."	0	"UBR2,intron_variant,,ENST00000372899,NM_015255.2;UBR2,intron_variant,,ENST00000372901,;UBR2,intron_variant,,ENST00000372883,;"	"-"	"ENSG00000024048"	"ENST00000372899"	"Transcript"	"intron_variant"	"-/7857"	"-/5268"	"-/1755"	""	""	""	"1"	NA	1	"UBR2"	"HGNC"	21289	"protein_coding"	"YES"	"CCDS4870.1"	"ENSP00000361990"	"Q8IWV8"	"B3KXG6"	"UPI0000074466"	"NM_015255.2"	NA	NA	""	"16/46"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"40"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGTGTGTGTGTGTG"	"72dba650-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0677966101694915	"WXS"	FALSE
"5059"	"TMEM63B"	55362	"mskcc.org"	"GRCh37"	"6"	44122772	44122773	"+"	"3'UTR"	"INS"	"-"	"-"	"C"	"rs74318253"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*157dupC"	""	""	"ENST00000259746"	"24/24"	38	"."	8	12	"."	0	"TMEM63B,3_prime_UTR_variant,,ENST00000259746,;TMEM63B,3_prime_UTR_variant,,ENST00000323267,NM_018426.1;TMEM63B,3_prime_UTR_variant,,ENST00000371893,;CAPN11,upstream_gene_variant,,ENST00000398776,NM_007058.3;CAPN11,upstream_gene_variant,,ENST00000542245,;CAPN11,upstream_gene_variant,,ENST00000532171,;TMEM63B,3_prime_UTR_variant,,ENST00000533121,;CAPN11,upstream_gene_variant,,ENST00000526118,;"	"C"	"ENSG00000137216"	"ENST00000259746"	"Transcript"	"3_prime_UTR_variant"	"2834-2835/3318"	"-/2499"	"-/832"	""	""	"rs74318253"	"1"	NA	1	"TMEM63B"	"HGNC"	17735	"protein_coding"	"YES"	"CCDS34461.1"	"ENSP00000259746"	"Q5T3F8"	"E9PNG1"	"UPI000020DDEE"	""	NA	NA	"24/24"	""	""	"C:0.3536"	"C:0.3132"	"C:0.4467"	NA	"C:0.502"	"C:0.2614"	"C:0.2843"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"920fea2c-280f-11e6-a9d4-0533424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"5060"	"RP1-8B1.4"	0	"mskcc.org"	"GRCh37"	"6"	46069697	46069698	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs546257982"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.208+579dupT"	""	""	"ENST00000444038"	""	7	"."	4	1	"."	0	"RP1-8B1.4,intron_variant,,ENST00000444038,;RP1-8B1.4,downstream_gene_variant,,ENST00000437249,;"	"A"	"ENSG00000231769"	"ENST00000444038"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/462"	""	""	""	""	"rs546257982"	"1"	NA	-1	"RP1-8B1.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	"A:0.1813"	"A:0.0174"	"A:0.1182"	NA	"A:0.2827"	"A:0.174"	"A:0.3507"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"9257f3d0-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5061"	"CYP39A1"	51302	"mskcc.org"	"GRCh37"	"6"	46607082	46607082	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs3085602"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.488+149delA"	""	""	"ENST00000275016"	""	44	"."	28	6	"."	0	"CYP39A1,intron_variant,,ENST00000275016,NM_001278739.1,NM_001278738.1,NM_016593.4;CYP39A1,upstream_gene_variant,,ENST00000480804,;"	"-"	"ENSG00000146233"	"ENST00000275016"	"Transcript"	"intron_variant"	"-/2176"	"-/1410"	"-/469"	""	""	"rs3085602"	"1"	NA	-1	"CYP39A1"	"HGNC"	17449	"protein_coding"	"YES"	"CCDS4916.1"	"ENSP00000275016"	"Q9NYL5"	""	"UPI000013DA3D"	"NM_001278739.1,NM_001278738.1,NM_016593.4"	NA	NA	""	"3/11"	""	"T:0.4305"	"-:0.4917"	"-:0.7161"	NA	"-:0.6657"	"-:0.6342"	"-:0.4049"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATA"	"74009e8c-280f-11e6-a9d4-0533424a729f"	"1680"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.636363636363636	"WXS"	FALSE
"5062"	"PLA2G7"	7941	"mskcc.org"	"GRCh37"	"6"	46672208	46672219	"+"	"3'UTR"	"DEL"	"CTCTCTCTCACA"	"CTCTCTCTCACA"	"-"	"rs201623547"	NA	"JHCCPT5"	"JHCCPN5"	"CTCTCTCTCACA"	"CTCTCTCTCACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*78_*89delTGTGAGAGAGAG"	""	""	"ENST00000274793"	"12/12"	60	"."	4	13	"."	0	"PLA2G7,3_prime_UTR_variant,,ENST00000274793,NM_005084.3;PLA2G7,3_prime_UTR_variant,,ENST00000537365,NM_001168357.1;TDRD6,downstream_gene_variant,,ENST00000544460,NM_001168359.1;TDRD6,downstream_gene_variant,,ENST00000316081,NM_001010870.2;TDRD6,downstream_gene_variant,,ENST00000450697,;"	"-"	"ENSG00000146070"	"ENST00000274793"	"Transcript"	"3_prime_UTR_variant"	"1601-1612/1882"	"-/1326"	"-/441"	""	""	"rs201623547"	"1"	NA	-1	"PLA2G7"	"HGNC"	9040	"protein_coding"	"YES"	"CCDS4917.1"	"ENSP00000274793"	"Q13093"	""	"UPI000002FED1"	"NM_005084.3"	NA	NA	"12/12"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTCTCTCTCTCACAC"	"742d427a-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WXS"	FALSE
"5063"	"MUT"	4594	"mskcc.org"	"GRCh37"	"6"	49412748	49412749	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs57922774"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1561-282_1561-281delAT"	""	""	"ENST00000274813"	""	14	"."	3	5	"."	0	"MUT,intron_variant,,ENST00000274813,NM_000255.3;"	"-"	"ENSG00000146085"	"ENST00000274813"	"Transcript"	"intron_variant"	"-/3749"	"-/2253"	"-/750"	""	""	"rs57922774"	"1"	NA	-1	"MUT"	"HGNC"	7526	"protein_coding"	"YES"	"CCDS4924.1"	"ENSP00000274813"	"P22033"	"S4UML7,T1WHH0"	"UPI000013DA28"	"NM_000255.3"	NA	NA	""	"8/12"	""	"-:0.0956"	"-:0.1195"	"-:0.0764"	NA	"-:0.0675"	"-:0.1123"	"-:0.089"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACATG"	"7489b7d0-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"5064"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	49650287	49650316	"+"	"IGR"	"DEL"	"TTTCTTTCTTTCTTTTTCTTTCTTTCTTTC"	"TTTCTTTCTTTCTTTTTCTTTCTTTCTTTC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTCTTTCTTTCTTTTTCTTTCTTTCTTTC"	"TTTCTTTCTTTCTTTTTCTTTCTTTCTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTCTTTCTTTCTTTTTCTTTCTTTCTTTCT"	"7493dd14-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5065"	"TFAP2D"	83741	"mskcc.org"	"GRCh37"	"6"	50740745	50740746	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"rs553299864"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000008391"	""	118	"."	7	33	"."	0	"TFAP2D,downstream_gene_variant,,ENST00000008391,NM_172238.3;"	"A"	"ENSG00000008197"	"ENST00000008391"	"Transcript"	"downstream_gene_variant"	"-/1711"	"-/1359"	"-/452"	""	""	"rs553299864"	"1"	"44"	1	"TFAP2D"	"HGNC"	15581	"protein_coding"	"YES"	"CCDS4933.1"	"ENSP00000008391"	"Q7Z6R9"	""	"UPI00001A3A89"	"NM_172238.3"	NA	NA	""	""	""	"A:0.2744"	"A:0.0885"	"A:0.2651"	NA	"A:0.3978"	"A:0.3807"	"A:0.2955"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"92c105aa-280f-11e6-a9d4-0533424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0593220338983051	"WXS"	FALSE
"5066"	"MCM3"	4172	"mskcc.org"	"GRCh37"	"6"	52127326	52127327	"+"	"3'Flank"	"INS"	"-"	"-"	"T"	"rs5876267"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000596288"	""	6	"."	4	1	"."	0	"MCM3,downstream_gene_variant,,ENST00000596288,NM_002388.4;MCM3,downstream_gene_variant,,ENST00000229854,;MCM3,downstream_gene_variant,,ENST00000419835,NM_001270472.1;MCM3,downstream_gene_variant,,ENST00000421471,;"	"T"	"ENSG00000112118"	"ENST00000596288"	"Transcript"	"downstream_gene_variant"	"-/3169"	"-/2562"	"-/853"	""	""	"rs5876267"	"1"	"1480"	-1	"MCM3"	"HGNC"	6945	"protein_coding"	"YES"	"CCDS4940.2"	"ENSP00000472940"	""	"Q8NHX6,B4DWW4"	"UPI0000EE4F08"	"NM_002388.4"	NA	NA	""	""	""	"-:0.2586"	"T:0.7685"	"T:0.5548"	NA	"T:0.8294"	"T:0.7087"	"T:0.7802"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"92e5104e-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5067"	"MLIP"	90523	"mskcc.org"	"GRCh37"	"6"	54074944	54074945	"+"	"Intron"	"INS"	"-"	"-"	"GCACT"	"rs372116766"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1113+7917_1113+7918insTGCAC"	""	""	"ENST00000274897"	""	23	"."	6	6	"."	0	"MLIP,intron_variant,,ENST00000514921,NM_001281746.1;MLIP,intron_variant,,ENST00000502396,NM_001281747.1;MLIP,intron_variant,,ENST00000274897,NM_138569.2;MLIP,intron_variant,,ENST00000370877,;MLIP,intron_variant,,ENST00000370876,;MLIP,intron_variant,,ENST00000358276,;MLIP,intron_variant,,ENST00000509997,;MLIP,intron_variant,,ENST00000514433,;"	"GCACT"	"ENSG00000146147"	"ENST00000274897"	"Transcript"	"intron_variant"	"-/1815"	"-/1377"	"-/458"	""	""	"rs372116766"	"1"	NA	1	"MLIP"	"HGNC"	21355	"protein_coding"	"YES"	"CCDS4954.1"	"ENSP00000274897"	"Q5VWP3"	""	"UPI000013DA33"	"NM_138569.2"	NA	NA	""	"10/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"9307e452-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WXS"	FALSE
"5068"	"TINAG"	27283	"mskcc.org"	"GRCh37"	"6"	54175705	54175706	"+"	"Intron"	"INS"	"-"	"-"	"TTTCTT"	"rs148816365"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.355+2007_355+2008insTTTTCT"	""	""	"ENST00000259782"	""	25	"."	5	4	"."	0	"TINAG,intron_variant,,ENST00000259782,NM_014464.3;TINAG,intron_variant,,ENST00000370869,;TINAG,intron_variant,,ENST00000370864,;TINAG,intron_variant,,ENST00000486436,;"	"TTTCTT"	"ENSG00000137251"	"ENST00000259782"	"Transcript"	"intron_variant"	"-/1754"	"-/1431"	"-/476"	""	""	"rs148816365"	"1"	NA	1	"TINAG"	"HGNC"	14599	"protein_coding"	"YES"	"CCDS4955.1"	"ENSP00000259782"	"Q9UJW2"	"B1AQ11"	"UPI000013D078"	"NM_014464.3"	NA	NA	""	"1/10"	""	"-:0.2039"	"TTTCTT:0.8865"	"TTTCTT:0.6729"	NA	"TTTCTT:0.8661"	"TTTCTT:0.8121"	"TTTCTT:0.6728"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"930b8e0e-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"5069"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	54576875	54576876	"+"	"IGR"	"INS"	"-"	"-"	"GTGTGT"	"rs143428005"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"GTGTGT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143428005"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GTGTGT:0.2724"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"9313191c-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5070"	"HCRTR2"	3062	"mskcc.org"	"GRCh37"	"6"	55057211	55057212	"+"	"Intron"	"INS"	"-"	"-"	"CGCACA"	"rs139180472"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.223+17604_223+17605insGCACAC"	""	""	"ENST00000370862"	""	13	"."	6	3	"."	0	"HCRTR2,intron_variant,,ENST00000370862,NM_001526.3;"	"CGCACA"	"ENSG00000137252"	"ENST00000370862"	"Transcript"	"intron_variant"	"-/1837"	"-/1335"	"-/444"	""	""	"rs139180472"	"1"	NA	1	"HCRTR2"	"HGNC"	4849	"protein_coding"	"YES"	"CCDS4956.1"	"ENSP00000359899"	"O43614"	"S4X0W3,A6N9G8"	"UPI000013D07A"	"NM_001526.3"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"93181a52-280f-11e6-a9d4-0533424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"5071"	"PRIM2"	5558	"mskcc.org"	"GRCh37"	"6"	57419300	57419301	"+"	"Intron"	"INS"	"-"	"-"	"GTGATACA"	"rs113964844"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1020+20984_1020+20985insTGATACAG"	""	""	"ENST00000607273"	""	6	"."	3	3	"."	0	"PRIM2,intron_variant,,ENST00000607273,NM_000947.3;PRIM2,intron_variant,,ENST00000389488,;PRIM2,intron_variant,,ENST00000550475,;"	"GTGATACA"	"ENSG00000146143"	"ENST00000607273"	"Transcript"	"intron_variant"	"-/2290"	"-/1041"	"-/346"	""	""	"rs113964844"	"1"	NA	1	"PRIM2"	"HGNC"	9370	"protein_coding"	"YES"	""	"ENSP00000475738"	""	"U3KQB9,I0CMK6,I0CMJ8,H9XFA6"	"UPI00004588DE"	"NM_000947.3"	NA	NA	""	"10/13"	""	"GTGATACA:0.4363"	"GTGATACA:0.4236"	"GTGATACA:0.4496"	NA	"GTGATACA:0.4157"	"GTGATACA:0.4553"	"GTGATACA:0.4458"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"93535996-280f-11e6-a9d4-0533424a729f"	"27"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5072"	"PRIM2"	5558	"mskcc.org"	"GRCh37"	"6"	57511895	57511896	"+"	"Intron"	"DEL"	"AC"	"AC"	"-"	"rs200329255"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*259-560_*259-559delCA"	""	""	"ENST00000607273"	""	6	"."	4	3	"."	0	"PRIM2,intron_variant,,ENST00000607273,NM_000947.3;PRIM2,intron_variant,,ENST00000389488,;"	"-"	"ENSG00000146143"	"ENST00000607273"	"Transcript"	"intron_variant"	"-/2290"	"-/1041"	"-/346"	""	""	"rs200329255"	"1"	NA	1	"PRIM2"	"HGNC"	9370	"protein_coding"	"YES"	""	"ENSP00000475738"	""	"U3KQB9,I0CMK6,I0CMJ8,H9XFA6"	"UPI00004588DE"	"NM_000947.3"	NA	NA	""	"13/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATACA"	"75f73ec6-280f-11e6-a9d4-0533424a729f"	"218"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5073"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	62034474	62034475	"+"	"IGR"	"INS"	"-"	"-"	"TTTTTCTTTCTTTCTT"	"rs200732053"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"."	6	3	"."	0	""	"TTTTTCTTTCTTTCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200732053"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"935d2b42-280f-11e6-a9d4-0533424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"5074"	"EYS"	346007	"mskcc.org"	"GRCh37"	"6"	66336799	66336799	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs149937025"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-333+12872delG"	""	""	"ENST00000503581"	""	6	"."	4	1	"."	0	"EYS,intron_variant,,ENST00000503581,NM_001142800.1;EYS,intron_variant,,ENST00000370621,;EYS,intron_variant,,ENST00000393380,NM_001142801.1;EYS,intron_variant,,ENST00000370618,;EYS,intron_variant,,ENST00000489873,;"	"-"	"ENSG00000188107"	"ENST00000503581"	"Transcript"	"intron_variant"	"-/10589"	"-/9435"	"-/3144"	""	""	"rs149937025"	"1"	NA	-1	"EYS"	"HGNC"	21555	"protein_coding"	"YES"	"CCDS47445.1"	"ENSP00000424243"	"Q5T1H1"	""	"UPI000188F466"	"NM_001142800.1"	NA	NA	""	"2/42"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AACA"	"76793232-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5075"	"BAI3"	577	"mskcc.org"	"GRCh37"	"6"	70071696	70071697	"+"	"Intron"	"INS"	"-"	"-"	"AGTT"	"rs112144856"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4239+294_4239+295insTTAG"	""	""	"ENST00000370598"	""	12	"."	4	2	"."	0	"BAI3,intron_variant,,ENST00000370598,NM_001704.2;BAI3,intron_variant,,ENST00000238918,;BAI3,intron_variant,,ENST00000546190,;"	"AGTT"	"ENSG00000135298"	"ENST00000370598"	"Transcript"	"intron_variant"	"-/6010"	"-/4569"	"-/1522"	""	""	"rs112144856"	"1"	NA	1	"BAI3"	"HGNC"	945	"protein_coding"	"YES"	"CCDS4968.1"	"ENSP00000359630"	"O60242"	"S4R3D0,B7Z1K0"	"UPI00001AE6A9"	"NM_001704.2"	NA	NA	""	"29/31"	""	"-:0.0064"	"AGTT:0.9977"	"AGTT:0.9986"	NA	"AGTT:1"	"AGTT:0.9732"	"AGTT:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"93a13d32-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5076"	"RP1-288M22.2"	0	"mskcc.org"	"GRCh37"	"6"	72163990	72163992	"+"	"Intron"	"DEL"	"CCT"	"AG"	"AG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CCT"	"CCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.164+1193_164+1195delCCTinsAG"	""	""	"ENST00000431997"	""	10	"."	10	1	"."	0	"RP1-288M22.2,intron_variant,,ENST00000431997,;"	"AG"	"ENSG00000223765"	"ENST00000431997"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/452"	""	""	""	""	""	"1"	NA	1	"RP1-288M22.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCCTT"	"886f7fdc-280f-11e6-a9d4-0533424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"5077"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	72455568	72455568	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs34822559"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34822559"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4561"	"-:0.2769"	"-:0.4942"	NA	"-:0.4256"	"-:0.506"	"-:0.6513"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAT"	"76f472da-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5078"	"CD109"	135228	"mskcc.org"	"GRCh37"	"6"	74490620	74490621	"+"	"Intron"	"INS"	"-"	"-"	"GT"	"rs10629004"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1903-351_1903-350dupGT"	""	""	"ENST00000287097"	""	10	"."	3	1	"."	0	"CD109,intron_variant,,ENST00000437994,NM_133493.3,NM_001159587.1;CD109,intron_variant,,ENST00000422508,NM_001159588.1;CD109,intron_variant,,ENST00000287097,;"	"GT"	"ENSG00000156535"	"ENST00000287097"	"Transcript"	"intron_variant"	"-/9130"	"-/4338"	"-/1445"	""	""	"rs10629004"	"1"	NA	1	"CD109"	"HGNC"	21685	"protein_coding"	"YES"	"CCDS4982.1"	"ENSP00000287097"	"Q6YHK3"	"Q5XUN1,Q5XUM8,Q5XUM6,F1C639"	"UPI000013DE92"	""	NA	NA	""	"16/32"	""	"GT:0.3708"	"GT:0.466"	"GT:0.4049"	NA	"GT:0.4028"	"GT:0.34"	"GT:0.2168"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"12"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"94054ae8-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"5079"	"COL12A1"	1303	"mskcc.org"	"GRCh37"	"6"	75798722	75798722	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs200070500"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9010+100delG"	""	""	"ENST00000322507"	""	77	"."	6	54	"."	0	"COL12A1,intron_variant,,ENST00000322507,NM_004370.5;COL12A1,intron_variant,,ENST00000483888,;COL12A1,intron_variant,,ENST00000416123,;COL12A1,intron_variant,,ENST00000345356,NM_080645.2;COL12A1,intron_variant,,ENST00000425443,;COL12A1,downstream_gene_variant,,ENST00000511023,;"	"-"	"ENSG00000111799"	"ENST00000322507"	"Transcript"	"intron_variant"	"-/11723"	"-/9192"	"-/3063"	""	""	"rs200070500"	"1"	NA	-1	"COL12A1"	"HGNC"	2188	"protein_coding"	"YES"	"CCDS43482.1"	"ENSP00000325146"	"Q99715"	""	"UPI000045890B"	"NM_004370.5"	NA	NA	""	"64/65"	""	"-:0.4237"	"-:0.469"	"-:0.4308"	NA	"-:0.3819"	"-:0.3976"	"-:0.4274"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AACA"	"775afcee-280f-11e6-a9d4-0533424a729f"	"340"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WXS"	FALSE
"5080"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	78691458	78691463	"+"	"IGR"	"DEL"	"TCTCTC"	"TCTCTC"	"-"	"rs71546089"	NA	"JHCCPT5"	"JHCCPN5"	"TCTCTC"	"TCTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71546089"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATCTCTCT"	"77a0e628-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5081"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	79283106	79283107	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs5877617"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5877617"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"CCCCCCC:0.4365"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"9441e638-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5082"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	80307034	80307035	"+"	"IGR"	"INS"	"-"	"-"	"AGAAA"	"rs141983798"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	3	"."	0	""	"AGAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141983798"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"946576ac-280f-11e6-a9d4-0533424a729f"	"220"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"5083"	"IBTK"	25998	"mskcc.org"	"GRCh37"	"6"	82930654	82930655	"+"	"Intron"	"INS"	"-"	"-"	"ACACACAC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1125-232_1125-225dupGTGTGTGT"	""	""	"ENST00000306270"	""	23	"."	3	8	"."	0	"IBTK,intron_variant,,ENST00000306270,NM_015525.2;IBTK,intron_variant,,ENST00000510291,;IBTK,intron_variant,,ENST00000503631,;IBTK,intron_variant,,ENST00000505222,;IBTK,intron_variant,,ENST00000503400,;IBTK,intron_variant,,ENST00000369751,;"	"ACACACAC"	"ENSG00000005700"	"ENST00000306270"	"Transcript"	"intron_variant"	"-/6054"	"-/4062"	"-/1353"	""	""	""	"1"	NA	-1	"IBTK"	"HGNC"	17853	"protein_coding"	"YES"	"CCDS34490.1"	"ENSP00000305721"	"Q9P2D0"	""	"UPI000041929F"	"NM_015525.2"	NA	NA	""	"8/28"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"9496e3b8-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"5084"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	83535155	83535166	"+"	"IGR"	"DEL"	"TGTGTGTGTGTG"	"TGTGTGTGTGTG"	"-"	"rs142990450"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTGTGTGTG"	"TGTGTGTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs142990450"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGTGTGTGTGTGT"	"783c42f8-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5085"	"DOPEY1"	23033	"mskcc.org"	"GRCh37"	"6"	83842102	83842105	"+"	"Intron"	"DEL"	"ACAA"	"ACAA"	"-"	"rs71820880"	NA	"JHCCPT5"	"JHCCPN5"	"ACAA"	"ACAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2769+56_2769+59delCAAA"	""	""	"ENST00000349129"	""	44	"."	4	24	"."	0	"DOPEY1,intron_variant,,ENST00000349129,NM_015018.3;DOPEY1,intron_variant,,ENST00000369739,NM_001199942.1;DOPEY1,intron_variant,,ENST00000237163,;DOPEY1,downstream_gene_variant,,ENST00000604380,;DOPEY1,intron_variant,,ENST00000493541,;"	"-"	"ENSG00000083097"	"ENST00000349129"	"Transcript"	"intron_variant"	"-/8210"	"-/7398"	"-/2465"	""	""	"rs71820880"	"1"	NA	1	"DOPEY1"	"HGNC"	21194	"protein_coding"	"YES"	"CCDS4996.1"	"ENSP00000195654"	"Q5JWR5"	""	"UPI00001C1574"	"NM_015018.3"	NA	NA	""	"18/38"	""	"-:0.2131"	"-:0.2216"	"-:0.2003"	NA	"-:0.1895"	"-:0.2813"	"-:0.1646"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACACAAA"	"784824b0-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WXS"	FALSE
"5086"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	84246763	84246766	"+"	"IGR"	"DEL"	"CTTT"	"CTTT"	"-"	"rs149463805"	NA	"JHCCPT5"	"JHCCPN5"	"CTTT"	"CTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs149463805"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1613"	"-:0.112"	"-:0.0951"	NA	"-:0.2351"	"-:0.1292"	"-:0.2321"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACTTTC"	"7864f7ac-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"5087"	"SNAP91"	9892	"mskcc.org"	"GRCh37"	"6"	84285035	84285036	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs3215619"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2331-196dupT"	""	""	"ENST00000439399"	""	46	"."	13	11	"."	0	"SNAP91,intron_variant,,ENST00000428679,;SNAP91,intron_variant,,ENST00000521485,;SNAP91,intron_variant,,ENST00000439399,NM_014841.2;SNAP91,intron_variant,,ENST00000369694,NM_001242792.1;SNAP91,intron_variant,,ENST00000195649,NM_001256718.1;SNAP91,intron_variant,,ENST00000521743,;SNAP91,intron_variant,,ENST00000520302,NM_001256717.1,NM_001242793.1;SNAP91,intron_variant,,ENST00000437520,NM_001242794.1;SNAP91,intron_variant,,ENST00000520213,;SNAP91,intron_variant,,ENST00000523448,;SNAP91,downstream_gene_variant,,ENST00000521931,;SNAP91,non_coding_transcript_exon_variant,,ENST00000519133,;SNAP91,intron_variant,,ENST00000518312,;SNAP91,intron_variant,,ENST00000521616,;"	"A"	"ENSG00000065609"	"ENST00000439399"	"Transcript"	"intron_variant"	"-/4452"	"-/2724"	"-/907"	""	""	"rs3215619"	"1"	NA	-1	"SNAP91"	"HGNC"	14986	"protein_coding"	"YES"	"CCDS47455.1"	"ENSP00000400459"	"O60641"	"E5RK53,E5RK51,E5RJY3,E5RIJ5,E5RFU0,E5RFC6,B7Z2C2"	"UPI0000124FB3"	"NM_014841.2"	NA	NA	""	"25/29"	""	"A:0.1661"	"A:0.0113"	"A:0.1354"	NA	"A:0.2312"	"A:0.2296"	"A:0.2648"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"94ba2fee-280f-11e6-a9d4-0533424a729f"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282608695652174	"WXS"	FALSE
"5088"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	87752250	87752251	"+"	"IGR"	"INS"	"-"	"-"	"AGAGAGAAAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	2	"."	0	""	"AGAGAGAAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"94fa77f2-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5089"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	89266571	89266572	"+"	"IGR"	"INS"	"-"	"-"	"AGGAG"	"rs71554784"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	4	3	"."	0	""	"AGGAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71554784"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"952a79de-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5090"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	91087446	91087448	"+"	"IGR"	"DEL"	"TTT"	"TTT"	"-"	"rs72329237"	NA	"JHCCPT5"	"JHCCPN5"	"TTT"	"TTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	22	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs72329237"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTT"	"79c56d66-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"5091"	"MAP3K7"	6885	"mskcc.org"	"GRCh37"	"6"	91269103	91269103	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs35236391"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.482+692delC"	""	""	"ENST00000369329"	""	23	"."	5	5	"."	0	"MAP3K7,intron_variant,,ENST00000369329,NM_145331.2;MAP3K7,intron_variant,,ENST00000369332,NM_003188.3;MAP3K7,intron_variant,,ENST00000369325,NM_145332.2;MAP3K7,intron_variant,,ENST00000369327,NM_145333.2;"	"-"	"ENSG00000135341"	"ENST00000369329"	"Transcript"	"intron_variant"	"-/4911"	"-/1821"	"-/606"	""	""	"rs35236391"	"1"	NA	-1	"MAP3K7"	"HGNC"	6859	"protein_coding"	"YES"	"CCDS5028.1"	"ENSP00000358335"	"O43318"	""	"UPI000012EAD6"	"NM_145331.2"	NA	NA	""	"5/16"	""	"G:0.3421"	"-:0.7262"	"-:0.5922"	NA	"-:0.495"	"-:0.7356"	"-:0.7004"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGG"	"79cbaae6-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WXS"	FALSE
"5092"	"RP3-453D15.1"	0	"mskcc.org"	"GRCh37"	"6"	99008310	99008311	"+"	"3'Flank"	"INS"	"-"	"-"	"AGCCTGGGGAC"	"rs113825120"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000424521"	""	9	"."	4	1	"."	0	"RP3-453D15.1,downstream_gene_variant,,ENST00000424521,;"	"AGCCTGGGGAC"	"ENSG00000235504"	"ENST00000424521"	"Transcript"	"downstream_gene_variant"	"-/138"	""	""	""	""	"rs113825120"	"1"	"1863"	1	"RP3-453D15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0078"	"AGCCTGGGGAC:0.9728"	"AGCCTGGGGAC:0.9986"	NA	"AGCCTGGGGAC:0.999"	"AGCCTGGGGAC:1"	"AGCCTGGGGAC:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"9590330a-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"5093"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	100556249	100556250	"+"	"IGR"	"INS"	"-"	"T"	"T"	"rs5878621"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5878621"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.4229"	"T:0.4047"	"T:0.379"	NA	"T:0.4058"	"T:0.4553"	"T:0.4632"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"95bbbdea-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"5094"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	104532241	104532243	"+"	"IGR"	"DEL"	"ACA"	"ACA"	"-"	"rs148783148"	NA	"JHCCPT5"	"JHCCPN5"	"ACA"	"ACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148783148"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0980"	"-:0.1755"	"-:0.0461"	NA	"-:0.0456"	"-:0.1024"	"-:0.0798"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACACAA"	"7acd4ac6-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"5095"	"SCML4"	256380	"mskcc.org"	"GRCh37"	"6"	108028579	108028580	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs57892324"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1119+490dupT"	""	""	"ENST00000369020"	""	9	"."	6	3	"."	0	"SCML4,intron_variant,,ENST00000369022,NM_001286408.1;SCML4,intron_variant,,ENST00000369025,;SCML4,intron_variant,,ENST00000369020,NM_198081.3;"	"A"	"ENSG00000146285"	"ENST00000369020"	"Transcript"	"intron_variant"	"-/1491"	"-/1245"	"-/414"	""	""	"rs57892324"	"1"	NA	-1	"SCML4"	"HGNC"	21397	"protein_coding"	"YES"	"CCDS5060.2"	"ENSP00000358016"	"Q8N228"	""	"UPI0000EE1E57"	"NM_198081.3"	NA	NA	""	"7/7"	""	"-:0.3442"	"A:0.6407"	"A:0.7522"	NA	"A:0.5278"	"A:0.6869"	"A:0.7076"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"96090faa-280f-11e6-a9d4-0533424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5096"	"LACE1"	246269	"mskcc.org"	"GRCh37"	"6"	108678405	108678406	"+"	"Intron"	"INS"	"-"	"CTTC"	"CTTC"	"rs112863979"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.648+383_648+384insTCCT"	""	""	"ENST00000368977"	""	10	"."	7	2	"."	0	"LACE1,intron_variant,,ENST00000368977,NM_145315.3;LACE1,intron_variant,,ENST00000421954,;LACE1,downstream_gene_variant,,ENST00000437715,;LACE1,intron_variant,,ENST00000431865,;"	"CTTC"	"ENSG00000135537"	"ENST00000368977"	"Transcript"	"intron_variant"	"-/5208"	"-/1446"	"-/481"	""	""	"rs112863979"	"1"	NA	1	"LACE1"	"HGNC"	16411	"protein_coding"	"YES"	"CCDS5067.1"	"ENSP00000357973"	"Q8WV93"	""	"UPI0000072226"	"NM_145315.3"	NA	NA	""	"5/12"	""	"-:0.0096"	"CTTC:0.9667"	"CTTC:0.9957"	NA	"CTTC:1"	"CTTC:0.999"	"CTTC:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"961c6438-280f-11e6-a9d4-0533424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"5097"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	109120668	109120679	"+"	"IGR"	"DEL"	"TGTGTGTTTGAT"	"TGTGTGTTTGAT"	"-"	"rs11273915"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTGTTTGAT"	"TGTGTGTTTGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11273915"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1911"	"-:0.2345"	"-:0.0778"	NA	"-:0.3363"	"-:0.0398"	"-:0.2188"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTGTGTGTTTGATT"	"7ba28434-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5098"	"AK9"	221264	"mskcc.org"	"GRCh37"	"6"	109850201	109850201	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs577355457"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3633+13delG"	""	""	"ENST00000424296"	""	185	"."	4	30	"."	0	"AK9,frameshift_variant,p.Val295PhefsTer72,ENST00000355283,;AK9,intron_variant,,ENST00000424296,NM_001145128.2;AK9,intron_variant,,ENST00000341338,;AK9,intron_variant,,ENST00000470564,;AK9,intron_variant,,ENST00000491875,;"	"-"	"ENSG00000155085"	"ENST00000424296"	"Transcript"	"intron_variant"	"-/6326"	"-/5736"	"-/1911"	""	""	"rs577355457"	"1"	NA	-1	"AK9"	"HGNC"	33814	"protein_coding"	"YES"	"CCDS55048.1"	"ENSP00000410186"	"Q5TCS8"	"E9PPU7,E9PPM3"	"UPI0001A48FC8"	"NM_001145128.2"	NA	NA	""	"29/40"	""	"-:0.1324"	"-:0.0333"	"-:0.1167"	NA	"-:0.1974"	"-:0.0964"	"-:0.2474"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.243"	"0.05771"	"0.3011"	"0.3303"	"0.1674"	"0.2132"	"0.2519"	"0.3833"	NA	"common_variant"	"AACA"	"7beeb2f0-280f-11e6-a9d4-0533424a729f"	"240"	0.2414	"11319/46886"	"14492/59636"	"292/5060"	"1683/5590"	"1234/3736"	"471/2814"	"4644/21780"	"68/270"	"2927/7636"	"InbreedingCoeff_Filter"	"FALSE"	0.0216216216216216	"WXS"	FALSE
"5099"	"SLC22A16"	85413	"mskcc.org"	"GRCh37"	"6"	110797415	110797428	"+"	"Intron"	"DEL"	"CTCCAGCCAGATGC"	"CTCCAGCCAGATGC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CTCCAGCCAGATGC"	"CTCCAGCCAGATGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.53+297_53+310delGCATCTGGCTGGAG"	""	""	"ENST00000368919"	""	13	"."	4	3	"."	0	"SLC22A16,intron_variant,,ENST00000368919,NM_033125.3;SLC22A16,intron_variant,,ENST00000439654,;SLC22A16,intron_variant,,ENST00000456137,;SLC22A16,intron_variant,,ENST00000437378,;SLC22A16,intron_variant,,ENST00000434949,;SLC22A16,intron_variant,,ENST00000424139,;SLC22A16,upstream_gene_variant,,ENST00000330550,;CTA-331P3.1,upstream_gene_variant,,ENST00000569685,;SLC22A16,intron_variant,,ENST00000461487,;"	"-"	"ENSG00000004809"	"ENST00000368919"	"Transcript"	"intron_variant"	"-/1987"	"-/1734"	"-/577"	""	""	""	"1"	NA	-1	"SLC22A16"	"HGNC"	20302	"protein_coding"	"YES"	"CCDS5084.1"	"ENSP00000357915"	"Q86VW1"	"Q96ER0,C9JU94,C9JGT0"	"UPI000000DC13"	"NM_033125.3"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCTCCAGCCAGATGCC"	"7c174bac-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"5100"	"KPNA5"	3841	"mskcc.org"	"GRCh37"	"6"	117010116	117010117	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs552860860"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5-358dupT"	""	""	"ENST00000368564"	""	16	"."	6	3	"."	0	"KPNA5,intron_variant,,ENST00000368564,;KPNA5,intron_variant,,ENST00000356348,NM_002269.2;KPNA5,intron_variant,,ENST00000413340,;"	"T"	"ENSG00000196911"	"ENST00000368564"	"Transcript"	"intron_variant"	"-/5089"	"-/1620"	"-/539"	""	""	"rs552860860"	"1"	NA	1	"KPNA5"	"HGNC"	6398	"protein_coding"	"YES"	"CCDS5111.1"	"ENSP00000357552"	"O15131"	"Q5TD90"	"UPI000000DBE6"	""	NA	NA	""	"1/13"	""	"T:0.3275"	"T:0.4365"	"T:0.2896"	NA	"T:0.2976"	"T:0.2127"	"T:0.3558"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"96e41ae6-280f-11e6-a9d4-0533424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"5101"	"KPNA5"	3841	"mskcc.org"	"GRCh37"	"6"	117045743	117045746	"+"	"Intron"	"DEL"	"TTTA"	"TTTA"	"-"	"rs146498207"	NA	"JHCCPT5"	"JHCCPN5"	"TTTA"	"TTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.999+213_999+216delTTTA"	""	""	"ENST00000368564"	""	20	"."	4	2	"."	0	"KPNA5,intron_variant,,ENST00000368564,;KPNA5,intron_variant,,ENST00000356348,NM_002269.2;KPNA5,upstream_gene_variant,,ENST00000392517,;"	"-"	"ENSG00000196911"	"ENST00000368564"	"Transcript"	"intron_variant"	"-/5089"	"-/1620"	"-/539"	""	""	"rs146498207"	"1"	NA	1	"KPNA5"	"HGNC"	6398	"protein_coding"	"YES"	"CCDS5111.1"	"ENSP00000357552"	"O15131"	"Q5TD90"	"UPI000000DBE6"	""	NA	NA	""	"10/13"	""	"-:0.2085"	"-:0.1104"	"-:0.2089"	NA	"-:0.2937"	"-:0.2137"	"-:0.2474"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTAT"	"7d03bc44-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"5102"	"MCM9"	254394	"mskcc.org"	"GRCh37"	"6"	119259661	119259662	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs79069475"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000316316"	""	8	"."	3	1	"."	0	"MCM9,upstream_gene_variant,,ENST00000316316,NM_017696.2;MCM9,upstream_gene_variant,,ENST00000316068,NM_153255.4;MCM9,upstream_gene_variant,,ENST00000425154,;MCM9,upstream_gene_variant,,ENST00000505446,;RP11-351A11.1,intron_variant,,ENST00000518570,;"	"G"	"ENSG00000111877"	"ENST00000316316"	"Transcript"	"upstream_gene_variant"	"-/5101"	"-/3432"	"-/1143"	""	""	"rs79069475"	"1"	"3334"	-1	"MCM9"	"HGNC"	21484	"protein_coding"	"YES"	"CCDS56447.1"	"ENSP00000314505"	"Q9NXL9"	"D6RHY8,D6RE85"	"UPI0001AE7302"	"NM_017696.2"	NA	NA	""	""	""	"-:0.3980"	"G:0.4357"	"G:0.6801"	NA	"G:0.6865"	"G:0.6461"	"G:0.6391"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"96ff7d4a-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"5103"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	120925348	120925353	"+"	"IGR"	"DEL"	"TAGACT"	"TAGACT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TAGACT"	"TAGACT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTAGACTT"	"7d784262-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5104"	"TRDN"	10345	"mskcc.org"	"GRCh37"	"6"	123851472	123851498	"+"	"Intron"	"DEL"	"TATACATTTATAACTGAAATTAACTGA"	"TATACATTTATAACTGAAATTAACTGA"	"-"	"rs6149788"	NA	"JHCCPT5"	"JHCCPN5"	"TATACATTTATAACTGAAATTAACTGA"	"TATACATTTATAACTGAAATTAACTGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.484+153_484+179delTCAGTTAATTTCAGTTATAAATGTATA"	""	""	"ENST00000398178"	""	14	"."	6	2	"."	0	"TRDN,intron_variant,,ENST00000334268,;TRDN,intron_variant,,ENST00000398178,NM_006073.3;TRDN,intron_variant,,ENST00000546248,NM_001256020.1;TRDN,intron_variant,,ENST00000542443,NM_001256022.1;TRDN,intron_variant,,ENST00000422596,;TRDN,intron_variant,,ENST00000359698,;"	"-"	"ENSG00000186439"	"ENST00000398178"	"Transcript"	"intron_variant"	"-/4475"	"-/2190"	"-/729"	""	""	"rs6149788"	"1"	NA	-1	"TRDN"	"HGNC"	12261	"protein_coding"	"YES"	"CCDS55053.1"	"ENSP00000381240"	"Q13061"	""	"UPI0000D820CC"	"NM_006073.3"	NA	NA	""	"5/40"	""	"-:0.4752"	"-:0.3775"	"-:0.6614"	NA	"-:0.2688"	"-:0.6541"	"-:0.5041"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTTATACATTTATAACTGAAATTAACTGAT"	"7db47b88-280f-11e6-a9d4-0533424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5105"	"NKAIN2"	154215	"mskcc.org"	"GRCh37"	"6"	124259133	124259134	"+"	"Intron"	"INS"	"-"	"-"	"GAATCTGATGCACACAGCTTCATGAGAAAACAAGC"	"rs6149792"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.54+133734_54+133735insGAATCTGATGCACACAGCTTCATGAGAAAACAAGC"	""	""	"ENST00000368417"	""	10	"."	4	2	"."	0	"NKAIN2,intron_variant,,ENST00000368417,NM_001040214.1;NKAIN2,intron_variant,,ENST00000368416,;NKAIN2,intron_variant,,ENST00000546092,;NKAIN2,intron_variant,,ENST00000476571,;"	"GAATCTGATGCACACAGCTTCATGAGAAAACAAGC"	"ENSG00000188580"	"ENST00000368417"	"Transcript"	"intron_variant"	"-/3115"	"-/627"	"-/208"	""	""	"rs6149792"	"1"	NA	1	"NKAIN2"	"HGNC"	16443	"protein_coding"	"YES"	"CCDS34526.1"	"ENSP00000357402"	"Q5VXU1"	"B3KNZ0,B0AZU5"	"UPI0000458919"	"NM_001040214.1"	NA	NA	""	"1/6"	""	"-:0.2240"	"GAATCTGATGCACACAGCTTCATGAGAAAACAAGC:0.7776"	"GAATCTGATGCACACAGCTTCATGAGAAAACAAGC:0.6988"	NA	"GAATCTGATGCACACAGCTTCATGAGAAAACAAGC:0.9157"	"GAATCTGATGCACACAGCTTCATGAGAAAACAAGC:0.6531"	"GAATCTGATGCACACAGCTTCATGAGAAAACAAGC:0.8108"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"97340ea2-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"5106"	"NCOA7"	135112	"mskcc.org"	"GRCh37"	"6"	126192428	126192440	"+"	"Intron"	"DEL"	"AGCACCATTCTAA"	"AGCACCATTCTAA"	"-"	"rs113370037"	NA	"JHCCPT5"	"JHCCPN5"	"AGCACCATTCTAA"	"AGCACCATTCTAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.272-3602_272-3590delCATTCTAAAGCAC"	""	""	"ENST00000368357"	""	7	"."	4	1	"."	0	"NCOA7,intron_variant,,ENST00000368357,NM_001199619.1,NM_001199620.1;NCOA7,intron_variant,,ENST00000392477,NM_001122842.2,NM_181782.4;NCOA7,intron_variant,,ENST00000229634,NM_001199621.1;NCOA7,intron_variant,,ENST00000417494,;NCOA7,intron_variant,,ENST00000419660,;RN7SKP56,upstream_gene_variant,,ENST00000410513,;"	"-"	"ENSG00000111912"	"ENST00000368357"	"Transcript"	"intron_variant"	"-/5521"	"-/2829"	"-/942"	""	""	"rs113370037"	"1"	NA	1	"NCOA7"	"HGNC"	21081	"protein_coding"	"YES"	"CCDS5132.1"	"ENSP00000357341"	"Q8NI08"	"Q8N3C8,Q5TF98,Q5TF97,Q5TF96,Q3ZTS4"	"UPI00001AE66D"	"NM_001199619.1,NM_001199620.1"	NA	NA	""	"4/16"	""	"-:0.3528"	"-:0.7103"	"-:0.196"	NA	"-:0.247"	"-:0.2922"	"-:0.1524"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAGCACCATTCTAAA"	"7deb7732-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5107"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	127920438	127920442	"+"	"IGR"	"DEL"	"AAATT"	"AAATT"	"-"	"rs139091105"	NA	"JHCCPT5"	"JHCCPN5"	"AAATT"	"AAATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139091105"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4635"	"-:0.4107"	"-:0.4813"	NA	"-:0.6806"	"-:0.3897"	"-:0.3742"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAATTA"	"7df81424-280f-11e6-a9d4-0533424a729f"	"220"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"5108"	"THEMIS"	387357	"mskcc.org"	"GRCh37"	"6"	128128331	128128331	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs34558396"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1875+30delG"	""	""	"ENST00000543064"	""	22	"."	6	2	"."	0	"THEMIS,intron_variant,,ENST00000368250,;THEMIS,intron_variant,,ENST00000543064,NM_001164685.1;THEMIS,intron_variant,,ENST00000368248,NM_001010923.2;THEMIS,intron_variant,,ENST00000537166,NM_001164687.1;"	"-"	"ENSG00000172673"	"ENST00000543064"	"Transcript"	"intron_variant"	"-/3983"	"-/2043"	"-/680"	""	""	"rs34558396"	"1"	NA	-1	"THEMIS"	"HGNC"	21569	"protein_coding"	"YES"	"CCDS55056.1"	"ENSP00000439594"	""	"F5H1J9"	"UPI0001B3CB2F"	"NM_001164685.1"	NA	NA	""	"5/6"	""	"-:0.1641"	"-:0.1233"	"-:0.1945"	NA	"-:0.001"	"-:0.3877"	"-:0.136"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"0.04091"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	NA	"PASS"	"AACC"	"7dfd969c-280f-11e6-a9d4-0533424a729f"	"360"	0	"0/0"	"231/5646"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"AC_Adj0_Filter"	"FALSE"	0.272727272727273	"WXS"	FALSE
"5109"	"LAMA2"	3908	"mskcc.org"	"GRCh37"	"6"	129591412	129591427	"+"	"Intron"	"DEL"	"ACACACACACACACAC"	"ACACACACACACACAC"	"-"	"rs777777761"	NA	"JHCCPT5"	"JHCCPN5"	"ACACACACACACACAC"	"ACACACACACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2323-323_2323-308delACACACACACACACAC"	""	""	"ENST00000421865"	""	9	"."	3	2	"."	0	"LAMA2,intron_variant,,ENST00000421865,NM_001079823.1,NM_000426.3;"	"-"	"ENSG00000196569"	"ENST00000421865"	"Transcript"	"intron_variant"	"-/9640"	"-/9369"	"-/3122"	""	""	"rs777777761"	"1"	NA	1	"LAMA2"	"HGNC"	6482	"protein_coding"	"YES"	"CCDS5138.1"	"ENSP00000400365"	"P24043"	"Q59H37"	"UPI00003673E0"	"NM_001079823.1,NM_000426.3"	NA	NA	""	"16/64"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"34"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTACACACACACACACACA"	"7e314492-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5110"	"SGK1"	6446	"mskcc.org"	"GRCh37"	"6"	134535796	134535797	"+"	"Intron"	"INS"	"-"	"-"	"TGAG"	"rs10667146"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.286-7228_286-7227insCTCA"	""	""	"ENST00000367858"	""	16	"."	4	2	"."	0	"SGK1,intron_variant,,ENST00000367858,NM_001143676.1;SGK1,intron_variant,,ENST00000461976,;SGK1,downstream_gene_variant,,ENST00000460769,;SGK1,intron_variant,,ENST00000524387,;SGK1,intron_variant,,ENST00000531575,;SGK1,intron_variant,,ENST00000484353,;SGK1,downstream_gene_variant,,ENST00000485771,;"	"TGAG"	"ENSG00000118515"	"ENST00000367858"	"Transcript"	"intron_variant"	"-/3201"	"-/1581"	"-/526"	""	""	"rs10667146"	"1"	NA	-1	"SGK1"	"HGNC"	10810	"protein_coding"	"YES"	"CCDS47476.1"	"ENSP00000356832"	"O00141"	"E9PP33,E9PJN2,B7Z1G1"	"UPI000013CA0E"	"NM_001143676.1"	NA	NA	""	"2/13"	""	"-:0.0859"	"TGAG:0.761"	"TGAG:0.9207"	NA	"TGAG:0.999"	"TGAG:0.9453"	"TGAG:0.9969"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"97a7ed40-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"5111"	"SGK1"	6446	"mskcc.org"	"GRCh37"	"6"	134619922	134619923	"+"	"Intron"	"INS"	"-"	"-"	"TTATTTAT"	"rs373302929"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.69+18600_69+18607dupATAAATAA"	""	""	"ENST00000367858"	""	25	"."	3	3	"."	0	"SGK1,intron_variant,,ENST00000367858,NM_001143676.1;SGK1,intron_variant,,ENST00000524929,;SGK1,intron_variant,,ENST00000533224,;SGK1,intron_variant,,ENST00000461976,;KRT8P42,upstream_gene_variant,,ENST00000405771,;"	"TTATTTAT"	"ENSG00000118515"	"ENST00000367858"	"Transcript"	"intron_variant"	"-/3201"	"-/1581"	"-/526"	""	""	"rs373302929"	"1"	NA	-1	"SGK1"	"HGNC"	10810	"protein_coding"	"YES"	"CCDS47476.1"	"ENSP00000356832"	"O00141"	"E9PP33,E9PJN2,B7Z1G1"	"UPI000013CA0E"	"NM_001143676.1"	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"97a9a1bc-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WXS"	FALSE
"5112"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	135213260	135213272	"+"	"IGR"	"DEL"	"CCTGCAATGTGTC"	"CCTGCAATGTGTC"	"-"	"rs545559935"	NA	"JHCCPT5"	"JHCCPN5"	"CCTGCAATGTGTC"	"CCTGCAATGTGTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs545559935"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0014"	"-:0"	"-:0.0029"	NA	"-:0.001"	"-:0.001"	"-:0.0031"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCCTGCAATGTGTCC"	"7f247ffe-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5113"	"HBS1L"	10767	"mskcc.org"	"GRCh37"	"6"	135359508	135359509	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs61459569"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.430+1202dupT"	""	""	"ENST00000367837"	""	22	"."	5	2	"."	0	"HBS1L,intron_variant,,ENST00000367837,NM_006620.3,NM_001145158.1;HBS1L,intron_variant,,ENST00000367822,NM_001145207.1;HBS1L,intron_variant,,ENST00000367826,;HBS1L,intron_variant,,ENST00000415177,;HBS1L,intron_variant,,ENST00000367824,;HBS1L,intron_variant,,ENST00000533274,;HBS1L,intron_variant,,ENST00000445176,;HBS1L,intron_variant,,ENST00000314674,;HBS1L,intron_variant,,ENST00000367820,;HBS1L,intron_variant,,ENST00000525067,;HBS1L,intron_variant,,ENST00000524715,;HBS1L,intron_variant,,ENST00000529882,;HBS1L,intron_variant,,ENST00000526100,;"	"A"	"ENSG00000112339"	"ENST00000367837"	"Transcript"	"intron_variant"	"-/7163"	"-/2055"	"-/684"	""	""	"rs61459569"	"1"	NA	-1	"HBS1L"	"HGNC"	4834	"protein_coding"	"YES"	"CCDS5173.1"	"ENSP00000356811"	"Q9Y450"	"E9PS53,E9PHZ9,D9YZV0,B7Z524,B7Z1K2"	"UPI00000372EA"	"NM_006620.3,NM_001145158.1"	NA	NA	""	"4/17"	""	"A:0.4593"	"A:0.3374"	"A:0.4841"	NA	"A:0.5228"	"A:0.4791"	"A:0.5204"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"97ad41b4-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WXS"	FALSE
"5114"	"BCLAF1"	9774	"mskcc.org"	"GRCh37"	"6"	136600132	136600133	"+"	"Intron"	"INS"	"-"	"-"	"ACACAC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.105-224_105-219dupGTGTGT"	""	""	"ENST00000531224"	""	27	"."	3	4	"."	0	"BCLAF1,intron_variant,,ENST00000531224,NM_001077441.1,NM_014739.2;BCLAF1,intron_variant,,ENST00000353331,NM_001077440.1;BCLAF1,intron_variant,,ENST00000527536,;BCLAF1,intron_variant,,ENST00000527759,;BCLAF1,intron_variant,,ENST00000530767,;BCLAF1,intron_variant,,ENST00000392348,;BCLAF1,intron_variant,,ENST00000529826,;BCLAF1,intron_variant,,ENST00000527613,;BCLAF1,intron_variant,,ENST00000534269,;BCLAF1,intron_variant,,ENST00000532384,;BCLAF1,intron_variant,,ENST00000530429,;BCLAF1,upstream_gene_variant,,ENST00000533621,;BCLAF1,downstream_gene_variant,,ENST00000528229,;"	"ACACAC"	"ENSG00000029363"	"ENST00000531224"	"Transcript"	"intron_variant"	"-/7263"	"-/2763"	"-/920"	""	""	""	"1"	NA	-1	"BCLAF1"	"HGNC"	16863	"protein_coding"	"YES"	"CCDS5177.1"	"ENSP00000435210"	"Q9NYF8"	"B0AZU3"	"UPI000006FCE7"	"NM_001077441.1,NM_014739.2"	NA	NA	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"97bbad26-280f-11e6-a9d4-0533424a729f"	"160"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WXS"	FALSE
"5115"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	139063301	139063302	"+"	"IGR"	"INS"	"-"	"-"	"ATGAATGAATGAATGA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	5	1	"."	0	""	"ATGAATGAATGAATGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"97ec6cea-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"5116"	"ABRACL"	58527	"mskcc.org"	"GRCh37"	"6"	139354990	139354991	"+"	"Intron"	"INS"	"-"	"-"	"TAGTGAATCGTGGGTGCAAGGAGAATGGCTG"	"rs758851509"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-6-268_-6-238dupGTGAATCGTGGGTGCAAGGAGAATGGCTGTA"	""	""	"ENST00000367660"	""	47	"."	8	18	"."	0	"ABRACL,intron_variant,,ENST00000367660,NM_021243.2;ABRACL,intron_variant,,ENST00000461027,;"	"TAGTGAATCGTGGGTGCAAGGAGAATGGCTG"	"ENSG00000146386"	"ENST00000367660"	"Transcript"	"intron_variant"	"-/845"	"-/246"	"-/81"	""	""	"rs758851509"	"1"	NA	1	"ABRACL"	"HGNC"	21230	"protein_coding"	"YES"	"CCDS43509.1"	"ENSP00000356632"	"Q9P1F3"	""	"UPI000004BBBC"	"NM_021243.2"	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"64"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"97ee6568-280f-11e6-a9d4-0533424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170212765957447	"WXS"	FALSE
"5117"	"TXLNB"	167838	"mskcc.org"	"GRCh37"	"6"	139563188	139563190	"+"	"3'UTR"	"DEL"	"ATA"	"ATA"	"-"	"rs139983637"	NA	"JHCCPT5"	"JHCCPN5"	"ATA"	"ATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*473_*475delTAT"	""	""	"ENST00000358430"	"10/10"	7	"."	4	1	"."	0	"TXLNB,3_prime_UTR_variant,,ENST00000358430,NM_153235.3;RP1-225E12.2,upstream_gene_variant,,ENST00000588529,;RP1-225E12.2,upstream_gene_variant,,ENST00000587814,;RP1-225E12.2,upstream_gene_variant,,ENST00000587577,;RP1-225E12.2,upstream_gene_variant,,ENST00000589192,;RP1-225E12.2,upstream_gene_variant,,ENST00000588638,;RP1-225E12.2,upstream_gene_variant,,ENST00000585447,;RP1-225E12.2,upstream_gene_variant,,ENST00000591102,;RP1-225E12.2,upstream_gene_variant,,ENST00000590679,;RP1-225E12.2,upstream_gene_variant,,ENST00000586229,;RP1-225E12.2,upstream_gene_variant,,ENST00000586266,;RP1-225E12.2,upstream_gene_variant,,ENST00000415194,;RP1-225E12.2,upstream_gene_variant,,ENST00000587333,;RP1-225E12.2,upstream_gene_variant,,ENST00000592557,;RP1-225E12.2,upstream_gene_variant,,ENST00000590219,;RP1-225E12.3,intron_variant,,ENST00000585874,;"	"-"	"ENSG00000164440"	"ENST00000358430"	"Transcript"	"3_prime_UTR_variant"	"2761-2763/4753"	"-/2055"	"-/684"	""	""	"rs139983637"	"1"	NA	-1	"TXLNB"	"HGNC"	21617	"protein_coding"	"YES"	"CCDS34545.1"	"ENSP00000351206"	"Q8N3L3"	"H0UI60"	"UPI0000072983"	"NM_153235.3"	NA	NA	"10/10"	""	""	"-:0.4169"	"-:0.8169"	"-:0.304"	NA	"-:0.1944"	"-:0.2634"	"-:0.3436"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATAA"	"7ff57438-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5118"	"UTRN"	7402	"mskcc.org"	"GRCh37"	"6"	144803547	144803548	"+"	"Intron"	"INS"	"-"	"-"	"TTATTA"	"rs780469923"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3687+50_3687+55dupATTATT"	""	""	"ENST00000367545"	""	54	"."	4	18	"."	0	"UTRN,intron_variant,,ENST00000367545,NM_007124.2;"	"TTATTA"	"ENSG00000152818"	"ENST00000367545"	"Transcript"	"intron_variant"	"-/12339"	"-/10302"	"-/3433"	""	""	"rs780469923"	"1"	NA	1	"UTRN"	"HGNC"	12635	"protein_coding"	"YES"	"CCDS34547.1"	"ENSP00000356515"	"P46939"	"Q6LBS5,Q5SYY2,Q5JT45"	"UPI00003673F1"	"NM_007124.2"	NA	NA	""	"26/73"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"32"	""	"1"	"0.0009242"	"0.01024"	"0.0001976"	"0"	"0.0003294"	"0"	"0"	"0.003297"	NA	"common_variant"	"TGT"	"980860ee-280f-11e6-a9d4-0533424a729f"	"240"	0.001146	"46/40140"	"81/87648"	"20/1954"	"1/5060"	"0/2706"	"1/3036"	"0/19796"	"0/308"	"24/7280"	"PASS"	"FALSE"	0.0740740740740741	"WXS"	FALSE
"5119"	"UTRN"	7402	"mskcc.org"	"GRCh37"	"6"	144901365	144901366	"+"	"Intron"	"INS"	"-"	"-"	"TGGTGGTGC"	"rs139890122"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7479+2951_7479+2959dupTGGTGGTGC"	""	""	"ENST00000367545"	""	34	"."	3	7	"."	0	"UTRN,intron_variant,,ENST00000367545,NM_007124.2;UTRN,upstream_gene_variant,,ENST00000367526,;"	"TGGTGGTGC"	"ENSG00000152818"	"ENST00000367545"	"Transcript"	"intron_variant"	"-/12339"	"-/10302"	"-/3433"	""	""	"rs139890122"	"1"	NA	1	"UTRN"	"HGNC"	12635	"protein_coding"	"YES"	"CCDS34547.1"	"ENSP00000356515"	"P46939"	"Q6LBS5,Q5SYY2,Q5JT45"	"UPI00003673F1"	"NM_007124.2"	NA	NA	""	"50/73"	""	"-:0.4103"	"TGGTGGTGC:0.6929"	"TGGTGGTGC:0.4294"	NA	"TGGTGGTGC:0.7857"	"TGGTGGTGC:0.3489"	"TGGTGGTGC:0.6094"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"18"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"98128254-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WXS"	FALSE
"5120"	"STXBP5"	134957	"mskcc.org"	"GRCh37"	"6"	147631666	147631669	"+"	"Intron"	"DEL"	"TGAT"	"TGAT"	"-"	"rs71757285"	NA	"JHCCPT5"	"JHCCPN5"	"TGAT"	"TGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1072+325_1072+328delGATT"	""	""	"ENST00000321680"	""	11	"."	7	9	"."	0	"STXBP5,intron_variant,,ENST00000367481,NM_139244.4;STXBP5,intron_variant,,ENST00000179882,;STXBP5,intron_variant,,ENST00000321680,NM_001127715.2;STXBP5,intron_variant,,ENST00000367480,;"	"-"	"ENSG00000164506"	"ENST00000321680"	"Transcript"	"intron_variant"	"-/3456"	"-/3456"	"-/1151"	""	""	"rs71757285"	"1"	NA	1	"STXBP5"	"HGNC"	19665	"protein_coding"	"YES"	"CCDS47499.1"	"ENSP00000321826"	"Q5T5C0"	""	"UPI0000199FE0"	"NM_001127715.2"	NA	NA	""	"10/27"	""	"TGAT:0.3387"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"33"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTGATT"	"80cd2c98-280f-11e6-a9d4-0533424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.636363636363636	"WXS"	FALSE
"5121"	"TAB2"	23118	"mskcc.org"	"GRCh37"	"6"	149575281	149575282	"+"	"Intron"	"INS"	"-"	"-"	"AAAGGAAAGGAAAGA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6+35373_6+35374insGAAAGGAAAGAAAAG"	""	""	"ENST00000536230"	""	10	"."	3	3	"."	0	"TAB2,intron_variant,,ENST00000536230,;TAB2,intron_variant,,ENST00000606202,;"	"AAAGGAAAGGAAAGA"	"ENSG00000055208"	"ENST00000536230"	"Transcript"	"intron_variant"	"-/2336"	"-/1986"	"-/661"	""	""	""	"1"	NA	1	"TAB2"	"HGNC"	17075	"protein_coding"	""	""	"ENSP00000443206"	""	"U3KQR0,B4DIR9"	"UPI00017A71F8"	""	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"9846dcc0-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"5122"	"GINM1"	116254	"mskcc.org"	"GRCh37"	"6"	149900652	149900653	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"rs67319920"	NA	"JHCCPT5"	"JHCCPN5"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.430-317_430-316delTC"	""	""	"ENST00000367419"	""	7	"."	4	2	"."	0	"GINM1,intron_variant,,ENST00000367419,NM_138785.3;GINM1,intron_variant,,ENST00000433539,;RP1-12G14.6,upstream_gene_variant,,ENST00000435273,;"	"-"	"ENSG00000055211"	"ENST00000367419"	"Transcript"	"intron_variant"	"-/2024"	"-/993"	"-/330"	""	""	"rs67319920"	"1"	NA	1	"GINM1"	"HGNC"	21074	"protein_coding"	"YES"	"CCDS5216.1"	"ENSP00000356389"	"Q9NU53"	""	"UPI0000049E0C"	"NM_138785.3"	NA	NA	""	"4/7"	""	"CT:0.4483"	"-:0.5976"	"-:0.6311"	NA	"-:0.8234"	"-:0.338"	"-:0.3732"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACTC"	"810f7648-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5123"	"PCMT1"	5110	"mskcc.org"	"GRCh37"	"6"	150111284	150111287	"+"	"Intron"	"DEL"	"TTTG"	"TTTG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTG"	"TTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.471+96_471+99delTGTT"	""	""	"ENST00000367384"	""	132	"."	28	35	"."	0	"PCMT1,intron_variant,,ENST00000464889,;PCMT1,intron_variant,,ENST00000367384,;PCMT1,intron_variant,,ENST00000367380,NM_001252049.1,NM_005389.2,NM_001252050.1,NM_001252051.1,NM_001252052.1;PCMT1,intron_variant,,ENST00000367378,NM_001252053.1;PCMT1,intron_variant,,ENST00000544496,;PCMT1,intron_variant,,ENST00000495487,;PCMT1,intron_variant,,ENST00000484601,;PCMT1,intron_variant,,ENST00000486585,;PCMT1,downstream_gene_variant,,ENST00000494411,;RP11-350J20.4,upstream_gene_variant,,ENST00000404779,;"	"-"	"ENSG00000120265"	"ENST00000367384"	"Transcript"	"intron_variant"	"-/1938"	"-/861"	"-/286"	""	""	""	"1"	NA	1	"PCMT1"	"HGNC"	8728	"protein_coding"	"YES"	"CCDS59041.1"	"ENSP00000356354"	""	"H7BY58,C9J0F2"	"UPI0001B7942B"	""	NA	NA	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATTTGT"	"81249122-280f-11e6-a9d4-0533424a729f"	"1680"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212121212121212	"WXS"	FALSE
"5124"	"RP11-291C6.1"	0	"mskcc.org"	"GRCh37"	"6"	150828092	150828097	"+"	"Intron"	"DEL"	"CCCCTC"	"CCCCTC"	"-"	"rs199542490"	NA	"JHCCPT5"	"JHCCPN5"	"CCCCTC"	"CCCCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.753+1666_753+1671delGAGGGG"	""	""	"ENST00000407887"	""	11	"."	4	2	"."	0	"RP11-291C6.1,intron_variant,,ENST00000407887,;"	"-"	"ENSG00000219622"	"ENST00000407887"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/862"	""	""	""	""	"rs199542490"	"1"	NA	-1	"RP11-291C6.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCCCCTCC"	"816d8d82-280f-11e6-a9d4-0533424a729f"	"229"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"5125"	"AKAP12"	9590	"mskcc.org"	"GRCh37"	"6"	151665524	151665524	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs34465906"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.320-4317delA"	""	""	"ENST00000402676"	""	6	"."	4	1	"."	0	"AKAP12,intron_variant,,ENST00000402676,NM_005100.3;AKAP12,intron_variant,,ENST00000253332,;AKAP12,intron_variant,,ENST00000354675,NM_144497.2;AKAP12,intron_variant,,ENST00000359755,;snoU13,downstream_gene_variant,,ENST00000458767,;AKAP12,intron_variant,,ENST00000490177,;"	"-"	"ENSG00000131016"	"ENST00000402676"	"Transcript"	"intron_variant"	"-/8432"	"-/5349"	"-/1782"	""	""	"rs34465906"	"1"	NA	1	"AKAP12"	"HGNC"	370	"protein_coding"	"YES"	"CCDS5229.1"	"ENSP00000384537"	"Q02952"	""	"UPI000013CDC7"	"NM_005100.3"	NA	NA	""	"3/4"	""	"A:0.4161"	"-:0.6067"	"-:0.634"	NA	"-:0.4306"	"-:0.7396"	"-:0.5153"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAA"	"81809076-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5126"	"SYNE1"	23345	"mskcc.org"	"GRCh37"	"6"	152552919	152552920	"+"	"Intron"	"INS"	"-"	"-"	"TGTG"	"rs369191135"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.20863-221_20863-218dupCACA"	""	""	"ENST00000367255"	""	21	"."	9	3	"."	0	"SYNE1,intron_variant,,ENST00000367255,NM_182961.3;SYNE1,intron_variant,,ENST00000265368,;SYNE1,intron_variant,,ENST00000448038,;SYNE1,intron_variant,,ENST00000423061,NM_033071.3;SYNE1,intron_variant,,ENST00000341594,;SYNE1,intron_variant,,ENST00000356820,;SYNE1,intron_variant,,ENST00000367256,;SYNE1,intron_variant,,ENST00000409694,;"	"TGTG"	"ENSG00000131018"	"ENST00000367255"	"Transcript"	"intron_variant"	"-/27748"	"-/26394"	"-/8797"	""	""	"rs369191135"	"1"	NA	-1	"SYNE1"	"HGNC"	17089	"protein_coding"	"YES"	"CCDS5236.2"	"ENSP00000356224"	"Q8NF91"	""	"UPI000204AF58"	"NM_182961.3"	NA	NA	""	"113/145"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"989f2e02-280f-11e6-a9d4-0533424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5127"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	157621871	157621872	"+"	"IGR"	"INS"	"-"	"-"	"TGTGTGTG"	"rs71268511"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"TGTGTGTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71268511"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"98d79a9e-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5128"	"ZDHHC14"	79683	"mskcc.org"	"GRCh37"	"6"	158052080	158052081	"+"	"Intron"	"INS"	"-"	"-"	"CA"	"rs74631229"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.704-1780_704-1779dupAC"	""	""	"ENST00000359775"	""	6	"."	4	2	"."	0	"ZDHHC14,intron_variant,,ENST00000359775,;ZDHHC14,intron_variant,,ENST00000414563,NM_153746.1,NM_024630.2;ZDHHC14,intron_variant,,ENST00000340347,;ZDHHC14,intron_variant,,ENST00000341375,;ZDHHC14,non_coding_transcript_exon_variant,,ENST00000523706,;ZDHHC14,non_coding_transcript_exon_variant,,ENST00000517432,;ZDHHC14,intron_variant,,ENST00000518214,;ZDHHC14,upstream_gene_variant,,ENST00000422910,;ZDHHC14,downstream_gene_variant,,ENST00000523468,;"	"CA"	"ENSG00000175048"	"ENST00000359775"	"Transcript"	"intron_variant"	"-/7380"	"-/1467"	"-/488"	""	""	"rs74631229"	"1"	NA	1	"ZDHHC14"	"HGNC"	20341	"protein_coding"	"YES"	"CCDS5252.1"	"ENSP00000352821"	"Q8IZN3"	"B3KRY1"	"UPI00000740DB"	""	NA	NA	""	"4/8"	""	"-:0.4471"	"CA:0.5008"	"CA:0.3415"	NA	"CA:0.8661"	"CA:0.4284"	"CA:0.5787"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"98daeb22-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5129"	"TMEM181"	57583	"mskcc.org"	"GRCh37"	"6"	159047961	159047966	"+"	"Intron"	"DEL"	"CTCATT"	"CTCATT"	"-"	"rs371526187"	NA	"JHCCPT5"	"JHCCPN5"	"CTCATT"	"CTCATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1520+1179_1520+1184delTTCTCA"	""	""	"ENST00000367090"	""	18	"."	3	5	"."	0	"TMEM181,intron_variant,,ENST00000367090,NM_020823.1;AL591025.1,intron_variant,,ENST00000397897,;"	"-"	"ENSG00000146433"	"ENST00000367090"	"Transcript"	"intron_variant"	"-/5390"	"-/1839"	"-/612"	""	""	"rs371526187"	"1"	NA	1	"TMEM181"	"HGNC"	20958	"protein_coding"	"YES"	"CCDS43520.1"	"ENSP00000356057"	"Q9P2C4"	""	"UPI00001C1E40"	"NM_020823.1"	NA	NA	""	"13/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCTCATTC"	"82e3732a-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"5130"	"FNDC1"	84624	"mskcc.org"	"GRCh37"	"6"	159686982	159686985	"+"	"Intron"	"DEL"	"ACAA"	"ACAA"	"-"	"rs71880513"	NA	"JHCCPT5"	"JHCCPN5"	"ACAA"	"ACAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5285-117_5285-114delCAAA"	""	""	"ENST00000297267"	""	20	"."	3	4	"."	0	"FNDC1,intron_variant,,ENST00000297267,NM_032532.2;FNDC1,intron_variant,,ENST00000340366,;FNDC1,intron_variant,,ENST00000329629,;"	"-"	"ENSG00000164694"	"ENST00000297267"	"Transcript"	"intron_variant"	"-/6552"	"-/5685"	"-/1894"	""	""	"rs71880513"	"1"	NA	1	"FNDC1"	"HGNC"	21184	"protein_coding"	"YES"	"CCDS47512.1"	"ENSP00000297267"	"Q4ZHG4"	""	"UPI0000579B80"	"NM_032532.2"	NA	NA	""	"20/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACACAAA"	"8316cd6a-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"5131"	"RP11-317M22.1"	0	"mskcc.org"	"GRCh37"	"6"	160584775	160584775	"+"	"RNA"	"DEL"	"G"	"G"	"-"	"rs11296559"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.13delC"	""	""	"ENST00000402250"	"1/1"	19	"."	5	5	"."	0	"RP11-317M22.1,non_coding_transcript_exon_variant,,ENST00000402250,;"	"-"	"ENSG00000216516"	"ENST00000402250"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"13/217"	""	""	""	""	"rs11296559"	"1"	NA	-1	"RP11-317M22.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"G:0.3928"	"-:0.7829"	"-:0.4712"	NA	"-:0.6161"	"-:0.6153"	"-:0.4489"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGG"	"83cd6ff2-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WXS"	FALSE
"5132"	"MAP3K4"	4216	"mskcc.org"	"GRCh37"	"6"	161455604	161455605	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs3214734"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.343+132dupT"	""	""	"ENST00000392142"	""	35	"."	9	12	"."	0	"MAP3K4,intron_variant,,ENST00000392142,NM_005922.2;MAP3K4,intron_variant,,ENST00000366920,;MAP3K4,intron_variant,,ENST00000366919,NM_006724.2;MAP3K4,intron_variant,,ENST00000348824,;MAP3K4,downstream_gene_variant,,ENST00000448119,;MAP3K4,intron_variant,,ENST00000446500,;MAP3K4,intron_variant,,ENST00000490904,;MAP3K4,intron_variant,,ENST00000544041,;MAP3K4,intron_variant,,ENST00000542952,;"	"T"	"ENSG00000085511"	"ENST00000392142"	"Transcript"	"intron_variant"	"-/5490"	"-/4827"	"-/1608"	""	""	"rs3214734"	"1"	NA	1	"MAP3K4"	"HGNC"	6856	"protein_coding"	"YES"	"CCDS34565.1"	"ENSP00000375986"	"Q9Y6R4"	"F5H534"	"UPI00004574E1"	"NM_005922.2"	NA	NA	""	"2/26"	""	"-:0.0597"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"992da97a-280f-11e6-a9d4-0533424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257142857142857	"WXS"	FALSE
"5133"	"PARK2"	5071	"mskcc.org"	"GRCh37"	"6"	161771036	161771037	"+"	"3'UTR"	"DEL"	"GT"	"GT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GT"	"GT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*94_*95delAC"	""	""	"ENST00000366898"	"12/12"	221	"."	6	138	"."	0	"PARK2,3_prime_UTR_variant,,ENST00000366898,NM_004562.2;PARK2,3_prime_UTR_variant,,ENST00000366897,NM_013987.2;PARK2,3_prime_UTR_variant,,ENST00000366896,NM_013988.2;PARK2,downstream_gene_variant,,ENST00000338468,;PARK2,downstream_gene_variant,,ENST00000366894,;PARK2,downstream_gene_variant,,ENST00000479615,;"	"-"	"ENSG00000185345"	"ENST00000366898"	"Transcript"	"3_prime_UTR_variant"	"1595-1596/4180"	"-/1398"	"-/465"	""	""	""	"1"	NA	-1	"PARK2"	"HGNC"	8607	"protein_coding"	"YES"	"CCDS5281.1"	"ENSP00000355865"	"O60260"	"M4T2U2,Q6S8G7,Q6Q2I8,Q5XNR7"	"UPI00003673FE"	"NM_004562.2"	NA	NA	"12/12"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCGTG"	"841fde5e-280f-11e6-a9d4-0533424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0271493212669683	"WXS"	FALSE
"5134"	"PACRG"	135138	"mskcc.org"	"GRCh37"	"6"	163596776	163596777	"+"	"Intron"	"INS"	"-"	"-"	"AGGAGG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.613+86369_613+86374dupGAGGAG"	""	""	"ENST00000337019"	""	18	"."	5	9	"."	0	"PACRG,intron_variant,,ENST00000337019,NM_152410.2;PACRG,intron_variant,,ENST00000366889,NM_001080378.1;PACRG,intron_variant,,ENST00000366888,NM_001080379.1;AL078585.1,intron_variant,,ENST00000419182,;PACRG,intron_variant,,ENST00000534958,;PACRG,intron_variant,,ENST00000542936,;PACRG,intron_variant,,ENST00000541974,;"	"AGGAGG"	"ENSG00000112530"	"ENST00000337019"	"Transcript"	"intron_variant"	"-/1619"	"-/891"	"-/296"	""	""	""	"1"	NA	1	"PACRG"	"HGNC"	19152	"protein_coding"	"YES"	"CCDS5284.1"	"ENSP00000337946"	"Q96M98"	""	"UPI00001AE671"	"NM_152410.2"	NA	NA	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"38"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"99357218-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"5135"	"RP5-826L7.1"	0	"mskcc.org"	"GRCh37"	"6"	164006817	164006817	"+"	"3'Flank"	"DEL"	"C"	"-"	"-"	"rs67071724"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000446476"	""	7	"."	5	3	"."	0	"RP5-826L7.1,downstream_gene_variant,,ENST00000446476,;"	"-"	"ENSG00000228692"	"ENST00000446476"	"Transcript"	"downstream_gene_variant"	"-/602"	""	""	""	""	"rs67071724"	"1"	"798"	-1	"RP5-826L7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.1454"	"-:0.888"	"-:0.8228"	NA	"-:0.9921"	"-:0.7107"	"-:0.8384"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"845bd7d8-280f-11e6-a9d4-0533424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"5136"	"PDE10A"	10846	"mskcc.org"	"GRCh37"	"6"	165826899	165826899	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs5881647"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1278+90delC"	""	""	"ENST00000539869"	""	88	"."	16	14	"."	0	"PDE10A,intron_variant,,ENST00000366882,;PDE10A,intron_variant,,ENST00000354448,;PDE10A,intron_variant,,ENST00000539869,NM_001130690.2;RNA5SP226,downstream_gene_variant,,ENST00000362653,;"	"-"	"ENSG00000112541"	"ENST00000539869"	"Transcript"	"intron_variant"	"-/4401"	"-/2370"	"-/789"	""	""	"rs5881647"	"1"	NA	-1	"PDE10A"	"HGNC"	8772	"protein_coding"	"YES"	"CCDS47513.1"	"ENSP00000438284"	"Q9Y233"	""	"UPI000006F80E"	"NM_001130690.2"	NA	NA	""	"13/21"	""	"-:0.3257"	"-:0.2746"	"-:0.4669"	NA	"-:0.254"	"-:0.4483"	"-:0.2423"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGA"	"84755776-280f-11e6-a9d4-0533424a729f"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"5137"	"RP11-252P19.1"	0	"mskcc.org"	"GRCh37"	"6"	166171975	166171981	"+"	"Intron"	"DEL"	"AGAAAGA"	"AGAAAGA"	"-"	"rs201748235"	NA	"JHCCPT5"	"JHCCPN5"	"AGAAAGA"	"AGAAAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.194+4130_194+4136delAGAAGAA"	""	""	"ENST00000435810"	""	28	"."	3	10	"."	0	"RP11-252P19.1,intron_variant,,ENST00000435810,;PDE10A,intron_variant,,ENST00000580695,;"	"-"	"ENSG00000236627"	"ENST00000435810"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1122"	""	""	""	""	"rs201748235"	"1"	NA	1	"RP11-252P19.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"25"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAGAAAGAA"	"8482af02-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WXS"	FALSE
"5138"	"RPS6KA2"	6196	"mskcc.org"	"GRCh37"	"6"	167238264	167238265	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGTGTCTAT"	"rs752083085"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.123+33423_123+33424insATAGACACACAC"	""	""	"ENST00000503859"	""	50	"."	3	19	"."	0	"RPS6KA2,intron_variant,,ENST00000510118,;RPS6KA2,intron_variant,,ENST00000503859,NM_001006932.1;RPS6KA2,intron_variant,,ENST00000506565,;RPS6KA2,intron_variant,,ENST00000512860,;"	"GTGTGTGTCTAT"	"ENSG00000071242"	"ENST00000503859"	"Transcript"	"intron_variant"	"-/4137"	"-/2226"	"-/741"	""	""	"rs752083085"	"1"	NA	-1	"RPS6KA2"	"HGNC"	10431	"protein_coding"	"YES"	"CCDS34570.1"	"ENSP00000427015"	"Q15349"	"D6RHW7,D6RD75,D6R910,B7Z3B5"	"UPI000020D48C"	"NM_001006932.1"	NA	NA	""	"2/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"9956b860-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.06	"WXS"	FALSE
"5139"	"FGFR1OP"	11116	"mskcc.org"	"GRCh37"	"6"	167408572	167408573	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"rs35401781"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366847"	""	10	"."	4	6	"."	0	"FGFR1OP,upstream_gene_variant,,ENST00000366847,NM_007045.3;FGFR1OP,upstream_gene_variant,,ENST00000349556,NM_194429.2;MIR3939,downstream_gene_variant,,ENST00000582614,;RP1-167A14.2,intron_variant,,ENST00000444102,;FGFR1OP,upstream_gene_variant,,ENST00000476078,;FGFR1OP,upstream_gene_variant,,ENST00000494781,;RP11-517H2.6,upstream_gene_variant,,ENST00000609590,;"	"T"	"ENSG00000213066"	"ENST00000366847"	"Transcript"	"upstream_gene_variant"	"-/14166"	"-/1200"	"-/399"	""	""	"rs35401781"	"1"	"4097"	1	"FGFR1OP"	"HGNC"	17012	"protein_coding"	"YES"	"CCDS5296.1"	"ENSP00000355812"	"O95684"	""	"UPI0000071446"	"NM_007045.3"	NA	NA	""	""	""	"T:0.3452"	"T:0.2247"	"T:0.3833"	NA	"T:0.372"	"T:0.506"	"T:0.2883"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"995b0438-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	TRUE
"5140"	"DACT2"	168002	"mskcc.org"	"GRCh37"	"6"	168722474	168722476	"+"	"5'Flank"	"DEL"	"TTT"	"TTT"	"-"	"rs779089615"	NA	"JHCCPT5"	"JHCCPN5"	"TTT"	"TTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366795"	""	27	"."	3	11	"."	0	"DACT2,upstream_gene_variant,,ENST00000366795,NM_214462.3,NM_001286350.1;DACT2,upstream_gene_variant,,ENST00000610183,;DACT2,upstream_gene_variant,,ENST00000366796,NM_001286351.1;DACT2,upstream_gene_variant,,ENST00000607983,;"	"-"	"ENSG00000164488"	"ENST00000366795"	"Transcript"	"upstream_gene_variant"	"-/2942"	"-/2325"	"-/774"	""	""	"rs779089615"	"1"	"2072"	-1	"DACT2"	"HGNC"	21231	"protein_coding"	"YES"	"CCDS47519.1"	"ENSP00000355760"	"Q5SW24"	""	"UPI00001D8145"	"NM_214462.3,NM_001286350.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTT"	"8521edf6-280f-11e6-a9d4-0533424a729f"	"141"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WXS"	FALSE
"5141"	"SMOC2"	64094	"mskcc.org"	"GRCh37"	"6"	168999780	168999781	"+"	"Intron"	"DEL"	"AC"	"AC"	"-"	"rs754020488"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.857+101_857+102delCA"	""	""	"ENST00000354536"	""	17	"."	3	8	"."	0	"SMOC2,intron_variant,,ENST00000354536,NM_022138.2;SMOC2,intron_variant,,ENST00000356284,NM_001166412.1;"	"-"	"ENSG00000112562"	"ENST00000354536"	"Transcript"	"intron_variant"	"-/3150"	"-/1374"	"-/457"	""	""	"rs754020488"	"1"	NA	1	"SMOC2"	"HGNC"	20323	"protein_coding"	"YES"	"CCDS5307.1"	"ENSP00000346537"	"Q9H3U7"	"B4DNB1"	"UPI0000072A56"	"NM_022138.2"	NA	NA	""	"8/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGACA"	"852f9f8c-280f-11e6-a9d4-0533424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"5142"	"RP1-137D17.1"	0	"mskcc.org"	"GRCh37"	"6"	169766628	169766629	"+"	"3'Flank"	"DEL"	"AG"	"-"	"-"	"rs3067556"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000433388"	""	7	"."	7	3	"."	0	"RP1-137D17.1,downstream_gene_variant,,ENST00000433388,;"	"-"	"ENSG00000226194"	"ENST00000433388"	"Transcript"	"downstream_gene_variant"	"-/588"	""	""	""	""	"rs3067556"	"1"	"3464"	-1	"RP1-137D17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	""	""	"AG:0.0649"	"-:0.9584"	"-:0.9135"	NA	"-:0.998"	"-:0.834"	"-:0.9581"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGA"	"85563584-280f-11e6-a9d4-0533424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"5143"	"WDR27"	253769	"mskcc.org"	"GRCh37"	"6"	169933365	169933365	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs11293073"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2645+39150delC"	""	""	"ENST00000448612"	""	8	"."	4	1	"."	0	"WDR27,intron_variant,,ENST00000333572,;WDR27,intron_variant,,ENST00000448612,NM_182552.4;WDR27,intron_variant,,ENST00000423258,NM_001202550.1;WDR27,intron_variant,,ENST00000479310,;"	"-"	"ENSG00000184465"	"ENST00000448612"	"Transcript"	"intron_variant"	"-/3178"	"-/2688"	"-/895"	""	""	"rs11293073"	"1"	NA	-1	"WDR27"	"HGNC"	21248	"protein_coding"	"YES"	"CCDS47520.2"	"ENSP00000416289"	"A2RRH5"	"F8VUY7"	"UPI00015E06AF"	"NM_182552.4"	NA	NA	""	"25/25"	""	"G:0.4539"	"-:0.2579"	"-:0.6124"	NA	"-:0.7113"	"-:0.7266"	"-:0.5327"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"85581c78-280f-11e6-a9d4-0533424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5144"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	395604	395605	"+"	"IGR"	"INS"	"-"	"-"	"CACCACCAG"	"rs772708411"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	25	"."	7	2	"."	0	""	"CACCACCAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs772708411"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"83e660e8-280f-11e6-bf94-0b33424a729f"	"393"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WXS"	FALSE
"5145"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	438497	438497	"+"	"IGR"	"DEL"	"T"	"-"	"-"	"rs370917486"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs370917486"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"64542788-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"5146"	"PRKAR1B"	5575	"mskcc.org"	"GRCh37"	"7"	606027	606028	"+"	"Intron"	"INS"	"-"	"-"	"CAT"	"rs139171418"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.891+12863_891+12865dupATG"	""	""	"ENST00000406797"	""	13	"."	5	3	"."	0	"PRKAR1B,intron_variant,,ENST00000406797,NM_001164761.1;PRKAR1B,intron_variant,,ENST00000537384,NM_001164760.1;PRKAR1B,intron_variant,,ENST00000544935,NM_001164759.1,NM_001164762.1;PRKAR1B,intron_variant,,ENST00000360274,NM_002735.2;PRKAR1B,intron_variant,,ENST00000403562,NM_001164758.1;PRKAR1B,intron_variant,,ENST00000400758,;AC147651.5,downstream_gene_variant,,ENST00000453149,;"	"CAT"	"ENSG00000188191"	"ENST00000406797"	"Transcript"	"intron_variant"	"-/2553"	"-/1146"	"-/381"	""	""	"rs139171418"	"1"	NA	-1	"PRKAR1B"	"HGNC"	9390	"protein_coding"	"YES"	"CCDS34579.1"	"ENSP00000385749"	"P31321"	"C9JSK5,C9J4C2,C9IZL8"	"UPI000021C478"	"NM_001164761.1"	NA	NA	""	"9/10"	""	"-:0.1901"	"CAT:0.7965"	"CAT:0.8401"	NA	"CAT:0.8244"	"CAT:0.7724"	"CAT:0.8303"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"83f584e2-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"5147"	"ADAP1"	11033	"mskcc.org"	"GRCh37"	"7"	944997	945306	"+"	"Intron"	"DEL"	"GAAAGGGAAAGGGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGGAGAAAGAGAAAGGAGAAAGGAGAAAGGGAGAAAGGGAGAAAGGGAAAGGAGAAAGGAGAAAGGGAAAGGAGAAAGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGGAAAGGAGAAAGGGAAAGGAGAAAGGGAAAGGAGAAAGGAGAAAGGA"	"GAAAGGGAAAGGGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGGAGAAAGAGAAAGGAGAAAGGAGAAAGGGAGAAAGGGAGAAAGGGAAAGGAGAAAGGAGAAAGGGAAAGGAGAAAGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGGAAAGGAGAAAGGGAAAGGAGAAAGGGAAAGGAGAAAGGAGAAAGGA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GAAAGGGAAAGGGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGGAGAAAGAGAAAGGAGAAAGGAGAAAGGGAGAAAGGGAGAAAGGGAAAGGAGAAAGGAGAAAGGGAAAGGAGAAAGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGGAAAGGAGAAAGGGAAAGGAGAAAGGGAAAGGAGAAAGGAGAAAGGA"	"GAAAGGGAAAGGGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGGAGAAAGAGAAAGGAGAAAGGAGAAAGGGAGAAAGGGAGAAAGGGAAAGGAGAAAGGAGAAAGGGAAAGGAGAAAGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGGAAAGGAGAAAGGGAAAGGAGAAAGGGAAAGGAGAAAGGAGAAAGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.389-497_389-188delTCCTTTCTCCTTTCTCCTTTCCCTTTCTCCTTTCCCTTTCTCCTTTCCCTTTCTCCTTTCTCCTTTCTCCTTTCTCCTTTCTCCTTTCTCCTTTCTCCTTTCTCCTTTCTCCTTTCTCCCTTCTCCCTTCTCCCTTCTCCCTTCTCCCTTCTCCCTTCTCCCTTCTCCCTTCTCCCTTCTCCTTTCTCCTTTCCCTTTCTCCTTTCTCCTTTCCCTTTCTCCCTTTCTCCCTTTCTCCTTTCTCCTTTCTCTTTCTCCCTTTCTCCTTTCTCCTTTCTCCTTTCTCCTTTCTCCTTTCCCTTTCCCTTTC"	""	""	"ENST00000265846"	""	33	"."	3	10	"."	0	"ADAP1,intron_variant,,ENST00000265846,NM_006869.2,NM_001284311.1;ADAP1,intron_variant,,ENST00000446141,;ADAP1,intron_variant,,ENST00000449296,NM_001284309.1,NM_001284310.1;ADAP1,intron_variant,,ENST00000539900,NM_001284308.1;ADAP1,intron_variant,,ENST00000437486,;ADAP1,intron_variant,,ENST00000454383,;ADAP1,intron_variant,,ENST00000453823,;ADAP1,intron_variant,,ENST00000435943,;ADAP1,upstream_gene_variant,,ENST00000453175,;ADAP1,intron_variant,,ENST00000463358,;ADAP1,intron_variant,,ENST00000488527,;ADAP1,intron_variant,,ENST00000477906,;ADAP1,non_coding_transcript_exon_variant,,ENST00000478000,;COX19,intron_variant,,ENST00000457254,;ADAP1,upstream_gene_variant,,ENST00000495809,;ADAP1,upstream_gene_variant,,ENST00000481406,;"	"-"	"ENSG00000105963"	"ENST00000265846"	"Transcript"	"intron_variant"	"-/2363"	"-/1125"	"-/374"	""	""	""	"1"	NA	-1	"ADAP1"	"HGNC"	16486	"protein_coding"	"YES"	"CCDS5318.1"	"ENSP00000265846"	"O75689"	"H7C2Q4"	"UPI000013D694"	"NM_006869.2,NM_001284311.1"	NA	NA	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGAAAGGGAAAGGGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGGAGAAAGAGAAAGGAGAAAGGAGAAAGGGAGAAAGGGAGAAAGGGAAAGGAGAAAGGAGAAAGGGAAAGGAGAAAGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAGGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGAGAAAGGGAAAGGAGAAAGGGAAAGGAGAAAGGGAAAGGAGAAAGGAGAAAGGAG"	"64b99690-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WXS"	FALSE
"5148"	"ADAP1"	11033	"mskcc.org"	"GRCh37"	"7"	972003	972005	"+"	"Intron"	"DEL"	"CAA"	"CAA"	"-"	"rs34494554"	NA	"JHCCPT5"	"JHCCPN5"	"CAA"	"CAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.213+3006_213+3008delTTG"	""	""	"ENST00000265846"	""	7	"."	4	5	"."	0	"ADAP1,intron_variant,,ENST00000265846,NM_006869.2,NM_001284311.1;ADAP1,intron_variant,,ENST00000539900,NM_001284308.1;ADAP1,intron_variant,,ENST00000454383,;ADAP1,intron_variant,,ENST00000435943,;ADAP1,upstream_gene_variant,,ENST00000453823,;ADAP1,intron_variant,,ENST00000463358,;ADAP1,intron_variant,,ENST00000477906,;COX19,intron_variant,,ENST00000457254,;"	"-"	"ENSG00000105963"	"ENST00000265846"	"Transcript"	"intron_variant"	"-/2363"	"-/1125"	"-/374"	""	""	"rs34494554"	"1"	NA	-1	"ADAP1"	"HGNC"	16486	"protein_coding"	"YES"	"CCDS5318.1"	"ENSP00000265846"	"O75689"	"H7C2Q4"	"UPI000013D694"	"NM_006869.2,NM_001284311.1"	NA	NA	""	"2/10"	""	"-:0.1428"	"-:0.1301"	"-:0.1585"	NA	"-:0.0585"	"-:0.164"	"-:0.2137"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCAAC"	"64bf53c8-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5149"	"CYP2W1"	54905	"mskcc.org"	"GRCh37"	"7"	1027638	1027639	"+"	"Intron"	"INS"	"-"	"-"	"GGGGGTCCCCTCTGTGTGTCCT"	"rs539565924"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1144-248_1144-227dupGTCCCCTCTGTGTGTCCTGGGG"	""	""	"ENST00000308919"	""	35	"."	3	16	"."	0	"CYP2W1,intron_variant,,ENST00000340150,;CYP2W1,intron_variant,,ENST00000308919,NM_017781.2;CYP2W1,intron_variant,,ENST00000415893,;CYP2W1,downstream_gene_variant,,ENST00000462453,;CYP2W1,downstream_gene_variant,,ENST00000468456,;"	"GGGGGTCCCCTCTGTGTGTCCT"	"ENSG00000073067"	"ENST00000308919"	"Transcript"	"intron_variant"	"-/2304"	"-/1473"	"-/490"	""	""	"rs539565924"	"1"	NA	1	"CYP2W1"	"HGNC"	20243	"protein_coding"	"YES"	"CCDS5319.2"	"ENSP00000310149"	"Q8TAV3"	""	"UPI000013C59A"	"NM_017781.2"	NA	NA	""	"7/8"	""	"G:0.1520"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"48"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"843e2058-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WXS"	FALSE
"5150"	"MICALL2"	79778	"mskcc.org"	"GRCh37"	"7"	1489592	1489592	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs55776155"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.192+284delA"	""	""	"ENST00000297508"	""	7	"."	4	1	"."	0	"MICALL2,intron_variant,,ENST00000297508,NM_182924.3;MICALL2,intron_variant,,ENST00000405088,;MICALL2,intron_variant,,ENST00000472100,;MICALL2,intron_variant,,ENST00000413446,;MICALL2,upstream_gene_variant,,ENST00000482839,;MICALL2,upstream_gene_variant,,ENST00000490608,;"	"-"	"ENSG00000164877"	"ENST00000297508"	"Transcript"	"intron_variant"	"-/3121"	"-/2715"	"-/904"	""	""	"rs55776155"	"1"	NA	-1	"MICALL2"	"HGNC"	29672	"protein_coding"	"YES"	"CCDS5324.1"	"ENSP00000297508"	"Q8IY33"	""	"UPI00000742E0"	"NM_182924.3"	NA	NA	""	"2/16"	""	"T:0.0016"	"-:1"	"-:1"	NA	"-:1"	"-:0.992"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTT"	"64ef5762-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5151"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	1670465	1670476	"+"	"IGR"	"DEL"	"CATCCATCTCTC"	"-"	"-"	"rs111326563"	NA	"JHCCPT5"	"JHCCPN5"	"CATCCATCTCTC"	"CATCCATCTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	6	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs111326563"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCATCCATCTCTCC"	"6513bce2-280f-11e6-bf94-0b33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"5152"	"EIF3B"	8662	"mskcc.org"	"GRCh37"	"7"	2406736	2406736	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1403+57delC"	""	""	"ENST00000360876"	""	114	"."	3	55	"."	0	"EIF3B,intron_variant,,ENST00000360876,NM_001037283.1;EIF3B,intron_variant,,ENST00000397011,NM_003751.3;EIF3B,downstream_gene_variant,,ENST00000431643,;EIF3B,downstream_gene_variant,,ENST00000413917,;EIF3B,non_coding_transcript_exon_variant,,ENST00000468250,;EIF3B,intron_variant,,ENST00000466199,;EIF3B,downstream_gene_variant,,ENST00000463026,;EIF3B,downstream_gene_variant,,ENST00000463229,;"	"-"	"ENSG00000106263"	"ENST00000360876"	"Transcript"	"intron_variant"	"-/3055"	"-/2445"	"-/814"	""	""	""	"1"	NA	1	"EIF3B"	"HGNC"	3280	"protein_coding"	"YES"	"CCDS5332.1"	"ENSP00000354125"	"P55884"	"Q86UM1,C9JQN7"	"UPI000013F934"	"NM_001037283.1"	NA	NA	""	"9/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACC"	"656dffea-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0263157894736842	"WXS"	FALSE
"5153"	"CARD11"	84433	"mskcc.org"	"GRCh37"	"7"	3012292	3012292	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs33987868"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-125-14027delA"	""	""	"ENST00000396946"	""	9	"."	6	1	"."	0	"CARD11,intron_variant,,ENST00000396946,NM_032415.4;CARD11,intron_variant,,ENST00000356408,;"	"-"	"ENSG00000198286"	"ENST00000396946"	"Transcript"	"intron_variant"	"-/4366"	"-/3465"	"-/1154"	""	""	"rs33987868"	"1"	NA	-1	"CARD11"	"HGNC"	16393	"protein_coding"	"YES"	"CCDS5336.2"	"ENSP00000380150"	"Q9BXL7"	"Q8TES3,E2QRC0"	"UPI00003FED38"	"NM_032415.4"	NA	NA	""	"1/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTT"	"65d1df60-280f-11e6-bf94-0b33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	TRUE
"5154"	"SDK1"	221935	"mskcc.org"	"GRCh37"	"7"	4197106	4197107	"+"	"Intron"	"INS"	"-"	"-"	"AGAGAAGGAAGGAAGGA"	"rs770221031"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4626-972_4626-971insAGAAGGAAGGAAGGAAG"	""	""	"ENST00000404826"	""	20	"."	3	6	"."	0	"SDK1,intron_variant,,ENST00000404826,NM_152744.3;SDK1,intron_variant,,ENST00000389531,;SDK1,intron_variant,,ENST00000476701,;"	"AGAGAAGGAAGGAAGGA"	"ENSG00000146555"	"ENST00000404826"	"Transcript"	"intron_variant"	"-/10397"	"-/6642"	"-/2213"	""	""	"rs770221031"	"1"	NA	1	"SDK1"	"HGNC"	19307	"protein_coding"	"YES"	"CCDS34590.1"	"ENSP00000385899"	"Q7Z5N4"	""	"UPI0000DBEEC4"	"NM_152744.3"	NA	NA	""	"30/44"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"8556f2ee-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"5155"	"SDK1"	221935	"mskcc.org"	"GRCh37"	"7"	4202024	4202031	"+"	"Intron"	"DEL"	"TATTATTA"	"TATTATTA"	"-"	"rs536307208"	NA	"JHCCPT5"	"JHCCPN5"	"TATTATTA"	"TATTATTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4800+537_4800+544delATTATTAT"	""	""	"ENST00000404826"	""	17	"."	6	3	"."	0	"SDK1,intron_variant,,ENST00000404826,NM_152744.3;SDK1,intron_variant,,ENST00000389531,;SDK1,intron_variant,,ENST00000476701,;"	"-"	"ENSG00000146555"	"ENST00000404826"	"Transcript"	"intron_variant"	"-/10397"	"-/6642"	"-/2213"	""	""	"rs536307208"	"1"	NA	1	"SDK1"	"HGNC"	19307	"protein_coding"	"YES"	"CCDS34590.1"	"ENSP00000385899"	"Q7Z5N4"	""	"UPI0000DBEEC4"	"NM_152744.3"	NA	NA	""	"32/44"	""	"-:0.0609"	"-:0.0076"	"-:0.1095"	NA	"-:0.005"	"-:0.175"	"-:0.0389"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTATTATTAT"	"65f3dc96-280f-11e6-bf94-0b33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WXS"	FALSE
"5156"	"SDK1"	221935	"mskcc.org"	"GRCh37"	"7"	4288083	4288084	"+"	"Intron"	"INS"	"-"	"-"	"CA"	"rs35934805"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6381+2651_6381+2652dupCA"	""	""	"ENST00000404826"	""	8	"."	5	2	"."	0	"SDK1,intron_variant,,ENST00000404826,NM_152744.3;SDK1,intron_variant,,ENST00000389531,;SDK1,intron_variant,,ENST00000466611,;SDK1,intron_variant,,ENST00000476701,;"	"CA"	"ENSG00000146555"	"ENST00000404826"	"Transcript"	"intron_variant"	"-/10397"	"-/6642"	"-/2213"	""	""	"rs35934805"	"1"	NA	1	"SDK1"	"HGNC"	19307	"protein_coding"	"YES"	"CCDS34590.1"	"ENSP00000385899"	"Q7Z5N4"	""	"UPI0000DBEEC4"	"NM_152744.3"	NA	NA	""	"44/44"	""	"CACACA:0.1731"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"855b792c-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"5157"	"RADIL"	55698	"mskcc.org"	"GRCh37"	"7"	4845039	4845040	"+"	"Intron"	"DEL"	"GC"	"GC"	"-"	"rs201404915"	NA	"JHCCPT5"	"JHCCPN5"	"GC"	"GC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2290+157_2290+158delGC"	""	""	"ENST00000399583"	""	12	"."	4	5	"."	0	"RADIL,intron_variant,,ENST00000399583,NM_018059.4;RADIL,intron_variant,,ENST00000536091,;RADIL,intron_variant,,ENST00000538469,;RADIL,non_coding_transcript_exon_variant,,ENST00000469399,;RADIL,intron_variant,,ENST00000445392,;RADIL,intron_variant,,ENST00000473130,;RADIL,upstream_gene_variant,,ENST00000472999,;"	"-"	"ENSG00000157927"	"ENST00000399583"	"Transcript"	"intron_variant"	"-/3689"	"-/3228"	"-/1075"	""	""	"rs201404915"	"1"	NA	-1	"RADIL"	"HGNC"	22226	"protein_coding"	"YES"	"CCDS43544.1"	"ENSP00000382492"	"Q96JH8"	"F5H6X3,C9J7G0"	"UPI0000E0A787"	"NM_018059.4"	NA	NA	""	"10/14"	""	"-:0.1739"	"-:0.4818"	"-:0.0951"	NA	"-:0.001"	"-:0.0934"	"-:0.0746"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGCG"	"66045526-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5158"	"MMD2"	221938	"mskcc.org"	"GRCh37"	"7"	4984816	4984817	"+"	"Intron"	"INS"	"-"	"-"	"TTCTTCTTCTTCTTCTTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.47+13768_47+13785dupGAAGAAGAAGAAGAAGAA"	""	""	"ENST00000404774"	""	37	"."	5	11	"."	0	"MMD2,intron_variant,,ENST00000404774,NM_001100600.1;MMD2,intron_variant,,ENST00000406755,NM_001270375.1;MMD2,intron_variant,,ENST00000401401,NM_198403.3;"	"TTCTTCTTCTTCTTCTTC"	"ENSG00000136297"	"ENST00000404774"	"Transcript"	"intron_variant"	"-/2415"	"-/813"	"-/270"	""	""	""	"1"	NA	-1	"MMD2"	"HGNC"	30133	"protein_coding"	"YES"	"CCDS47529.1"	"ENSP00000384690"	"Q8IY49"	""	"UPI000016199F"	"NM_001100600.1"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"856483aa-280f-11e6-bf94-0b33424a729f"	"271"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135135135135135	"WXS"	FALSE
"5159"	"MMD2"	221938	"mskcc.org"	"GRCh37"	"7"	4984816	4984817	"+"	"Intron"	"INS"	"-"	"-"	"TTCTTCTTCTTCTTCTTCTTCTTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.47+13762_47+13785dupGAAGAAGAAGAAGAAGAAGAAGAA"	""	""	"ENST00000404774"	""	37	"."	3	11	"."	0	"MMD2,intron_variant,,ENST00000404774,NM_001100600.1;MMD2,intron_variant,,ENST00000406755,NM_001270375.1;MMD2,intron_variant,,ENST00000401401,NM_198403.3;"	"TTCTTCTTCTTCTTCTTCTTCTTC"	"ENSG00000136297"	"ENST00000404774"	"Transcript"	"intron_variant"	"-/2415"	"-/813"	"-/270"	""	""	""	"1"	NA	-1	"MMD2"	"HGNC"	30133	"protein_coding"	"YES"	"CCDS47529.1"	"ENSP00000384690"	"Q8IY49"	""	"UPI000016199F"	"NM_001100600.1"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"8567a5f8-280f-11e6-bf94-0b33424a729f"	"160"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WXS"	FALSE
"5160"	"ENSR00000621494"	0	"mskcc.org"	"GRCh37"	"7"	5835638	5835639	"+"	"IGR"	"INS"	"-"	"GACTCCCCCC"	"GACTCCCCCC"	"rs11283140"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000621494"	""	7	"."	5	2	"."	0	""	"GACTCCCCCC"	""	"ENSR00000621494"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs11283140"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0593"	"GACTCCCCCC:0.9183"	"GACTCCCCCC:0.9654"	NA	"GACTCCCCCC:0.9325"	"GACTCCCCCC:0.9761"	"GACTCCCCCC:0.9254"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"858aa382-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"5161"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	6929389	6929389	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs35844406"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35844406"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"66d00298-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5162"	"RPA3"	6119	"mskcc.org"	"GRCh37"	"7"	7677896	7677897	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs28916307"	NA	"JHCCPT5"	"JHCCPN5"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.175-294_175-293delTA"	""	""	"ENST00000223129"	""	20	"."	6	4	"."	0	"RPA3,intron_variant,,ENST00000223129,NM_002947.3;RPA3,intron_variant,,ENST00000396682,;RPA3,intron_variant,,ENST00000406109,;RPA3,intron_variant,,ENST00000401447,;RPA3-AS1,upstream_gene_variant,,ENST00000469183,;RPA3-AS1,upstream_gene_variant,,ENST00000493246,;RPA3-AS1,upstream_gene_variant,,ENST00000482067,;RPA3-AS1,upstream_gene_variant,,ENST00000463725,;RPA3-AS1,upstream_gene_variant,,ENST00000471760,;RPA3-AS1,upstream_gene_variant,,ENST00000468567,;RPA3,non_coding_transcript_exon_variant,,ENST00000483031,;RPA3,downstream_gene_variant,,ENST00000462723,;RPA3,downstream_gene_variant,,ENST00000463632,;"	"-"	"ENSG00000106399"	"ENST00000223129"	"Transcript"	"intron_variant"	"-/2020"	"-/366"	"-/121"	""	""	"rs28916307"	"1"	NA	-1	"RPA3"	"HGNC"	10291	"protein_coding"	"YES"	"CCDS5356.1"	"ENSP00000223129"	"P35244"	"B5MC59,A4D105"	"UPI00001122E6"	"NM_002947.3"	NA	NA	""	"6/7"	""	"-:0.0603"	"-:0.0045"	"-:0.0879"	NA	"-:0.0685"	"-:0.1223"	"-:0.044"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTAT"	"66f88c40-280f-11e6-bf94-0b33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"5163"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	9096473	9096475	"+"	"IGR"	"DEL"	"TTA"	"TTA"	"-"	"rs34780961"	NA	"JHCCPT5"	"JHCCPN5"	"TTA"	"TTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	7	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34780961"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3822"	"-:0.0961"	"-:0.5216"	NA	"-:0.3819"	"-:0.5119"	"-:0.5368"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTAT"	"6729850c-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5164"	"THSD7A"	221981	"mskcc.org"	"GRCh37"	"7"	11581570	11581571	"+"	"Intron"	"INS"	"-"	"-"	"AG"	"rs138725308"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1610-314_1610-313dupCT"	""	""	"ENST00000423059"	""	7	"."	3	1	"."	0	"THSD7A,intron_variant,,ENST00000423059,NM_015204.2;THSD7A,intron_variant,,ENST00000497575,;"	"AG"	"ENSG00000005108"	"ENST00000423059"	"Transcript"	"intron_variant"	"-/10663"	"-/4974"	"-/1657"	""	""	"rs138725308"	"1"	NA	-1	"THSD7A"	"HGNC"	22207	"protein_coding"	"YES"	"CCDS47543.1"	"ENSP00000406482"	"Q9UPZ6"	""	"UPI00006C0B74"	"NM_015204.2"	NA	NA	""	"5/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"86126cfe-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5165"	"ETV1"	2115	"mskcc.org"	"GRCh37"	"7"	14028245	14028246	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11460974"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.45+387dupT"	""	""	"ENST00000405192"	""	151	"."	4	38	"."	0	"ETV1,intron_variant,,ENST00000343495,;ETV1,intron_variant,,ENST00000430479,NM_004956.4;ETV1,intron_variant,,ENST00000242066,NM_001163148.1;ETV1,intron_variant,,ENST00000405192,NM_001163147.1;ETV1,intron_variant,,ENST00000405358,;ETV1,intron_variant,,ENST00000405218,;ETV1,intron_variant,,ENST00000403685,NM_001163149.1;ETV1,intron_variant,,ENST00000431887,;ETV1,intron_variant,,ENST00000421381,;ETV1,intron_variant,,ENST00000433547,;ETV1,upstream_gene_variant,,ENST00000420159,NM_001163151.1;ETV1,upstream_gene_variant,,ENST00000399357,NM_001163152.1;ETV1,upstream_gene_variant,,ENST00000403527,NM_001163150.1;ETV1,upstream_gene_variant,,ENST00000438956,;ETV1,upstream_gene_variant,,ENST00000443608,;ETV1,intron_variant,,ENST00000483075,;ETV1,upstream_gene_variant,,ENST00000476720,;ETV1,upstream_gene_variant,,ENST00000497115,;ETV1,downstream_gene_variant,,ENST00000485475,;ETV1,intron_variant,,ENST00000443137,;ETV1,intron_variant,,ENST00000460438,;ETV1,upstream_gene_variant,,ENST00000472931,;ETV1,upstream_gene_variant,,ENST00000476355,;"	"A"	"ENSG00000006468"	"ENST00000405192"	"Transcript"	"intron_variant"	"-/4402"	"-/1365"	"-/454"	""	""	"rs11460974"	"1"	NA	-1	"ETV1"	"HGNC"	3490	"protein_coding"	""	"CCDS55087.1"	"ENSP00000385381"	"P50549"	"C9J9L1,C9J4P4,C9J0B7"	"UPI00001695A0"	"NM_001163147.1"	NA	NA	""	"2/11"	""	"-:0.4063"	"A:0.8313"	"A:0.6484"	NA	"A:0.4573"	"A:0.5557"	"A:0.4131"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"8647f284-280f-11e6-bf94-0b33424a729f"	"185"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0264900662251656	"WXS"	TRUE
"5166"	"DGKB"	1607	"mskcc.org"	"GRCh37"	"7"	14687255	14687256	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs150724117"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1135-17360dupC"	""	""	"ENST00000403951"	""	7	"."	4	3	"."	0	"DGKB,intron_variant,,ENST00000403951,;DGKB,intron_variant,,ENST00000258767,;DGKB,intron_variant,,ENST00000399322,NM_004080.2;DGKB,intron_variant,,ENST00000402815,;DGKB,intron_variant,,ENST00000407950,;DGKB,intron_variant,,ENST00000444700,;DGKB,intron_variant,,ENST00000406247,NM_145695.2;DGKB,intron_variant,,ENST00000403963,;DGKB,intron_variant,,ENST00000471732,;DGKB,intron_variant,,ENST00000477401,;"	"G"	"ENSG00000136267"	"ENST00000403951"	"Transcript"	"intron_variant"	"-/6917"	"-/2415"	"-/804"	""	""	"rs150724117"	"1"	NA	-1	"DGKB"	"HGNC"	2850	"protein_coding"	"YES"	"CCDS47547.1"	"ENSP00000385780"	"Q9Y6T7"	"C9JA18,B7Z3B3"	"UPI0000033B9B"	""	NA	NA	""	"13/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"865063b0-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5167"	"AGMO"	392636	"mskcc.org"	"GRCh37"	"7"	15470543	15470544	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTT"	"rs563057102"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.513+81_513+86dupAAAAAA"	""	""	"ENST00000342526"	""	101	"."	4	18	"."	0	"AGMO,intron_variant,,ENST00000342526,NM_001004320.1;"	"TTTTTT"	"ENSG00000187546"	"ENST00000342526"	"Transcript"	"intron_variant"	"-/2475"	"-/1338"	"-/445"	""	""	"rs563057102"	"1"	NA	-1	"AGMO"	"HGNC"	33784	"protein_coding"	"YES"	"CCDS34604.1"	"ENSP00000341662"	"Q6ZNB7"	""	"UPI0000050343"	"NM_001004320.1"	NA	NA	""	"4/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"866e6b12-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0396039603960396	"WXS"	FALSE
"5168"	"GS1-166A23.2"	0	"mskcc.org"	"GRCh37"	"7"	16629251	16629252	"+"	"3'Flank"	"DEL"	"TC"	"TC"	"-"	"rs34050909"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000607795"	""	10	"."	4	3	"."	0	"GS1-166A23.2,downstream_gene_variant,,ENST00000607795,;AC005014.5,upstream_gene_variant,,ENST00000432006,;"	"-"	"ENSG00000272361"	"ENST00000607795"	"Transcript"	"downstream_gene_variant"	"-/597"	""	""	""	""	"rs34050909"	"1"	"4001"	-1	"GS1-166A23.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTCT"	"67f535ee-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"5169"	"HDAC9"	9734	"mskcc.org"	"GRCh37"	"7"	18668959	18668959	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs777741050"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.665-14delG"	""	""	"ENST00000441542"	""	57	"."	4	21	"."	0	"HDAC9,intron_variant,,ENST00000406451,NM_178423.1;HDAC9,intron_variant,,ENST00000405010,NM_014707.1;HDAC9,intron_variant,,ENST00000406072,;HDAC9,intron_variant,,ENST00000401921,;HDAC9,intron_variant,,ENST00000441542,NM_178425.2;HDAC9,intron_variant,,ENST00000432645,NM_058176.2;HDAC9,intron_variant,,ENST00000417496,NM_001204144.1;HDAC9,intron_variant,,ENST00000428307,NM_001204145.1,NM_001204146.1;HDAC9,intron_variant,,ENST00000456174,NM_001204148.1;HDAC9,intron_variant,,ENST00000524023,NM_001204147.1;HDAC9,intron_variant,,ENST00000523867,;HDAC9,intron_variant,,ENST00000461159,;"	"-"	"ENSG00000048052"	"ENST00000441542"	"Transcript"	"intron_variant"	"-/3210"	"-/3210"	"-/1069"	""	""	"rs777741050"	"1"	NA	1	"HDAC9"	"HGNC"	14065	"protein_coding"	"YES"	"CCDS47553.1"	"ENSP00000408617"	"Q9UKV0"	"Q8N926,Q75N15,Q75N14,Q75N10,C9JLX1,C9J835,C9J1W4,C9IZS0"	"UPI000019AB75"	"NM_178425.2"	NA	NA	""	"5/24"	""	""	""	""	NA	""	""	""	"-:0.0276"	"-:0.0206"	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"9.852e-06"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	"1"	"PASS"	"TTGT"	"68434d92-280f-11e6-bf94-0b33424a729f"	"240"	0	"0/20480"	"1/101498"	"0/1732"	"0/594"	"0/496"	"0/1262"	"0/7968"	"0/200"	"0/8228"	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.0701754385964912	"WXS"	FALSE
"5170"	"ABCB5"	340273	"mskcc.org"	"GRCh37"	"7"	20817739	20817740	"+"	"3'Flank"	"INS"	"-"	"-"	"C"	"rs5882769"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000441315"	""	9	"."	4	3	"."	0	"ABCB5,downstream_gene_variant,,ENST00000441315,;"	"C"	"ENSG00000004846"	"ENST00000441315"	"Transcript"	"downstream_gene_variant"	"-/2204"	"-/945"	"-/314"	""	""	"rs5882769"	"1"	"1081"	1	"ABCB5"	"HGNC"	46	"nonsense_mediated_decay"	""	""	"ENSP00000398692"	""	"H7C165"	"UPI000188145B"	""	NA	NA	""	""	""	"-:0.0094"	"C:0.9902"	"C:0.9971"	NA	"C:0.996"	"C:0.9831"	"C:0.9888"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"86facefe-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"5171"	"RNU1-15P"	0	"mskcc.org"	"GRCh37"	"7"	21417212	21417214	"+"	"5'Flank"	"DEL"	"AAG"	"AAG"	"-"	"rs145008348"	NA	"JHCCPT5"	"JHCCPN5"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000353977"	""	11	"."	5	6	"."	0	"RNU1-15P,upstream_gene_variant,,ENST00000353977,;"	"-"	"ENSG00000195024"	"ENST00000353977"	"Transcript"	"upstream_gene_variant"	"-/144"	""	""	""	""	"rs145008348"	"1"	"3767"	1	"RNU1-15P"	"HGNC"	10140	"snRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAGA"	"68866398-280f-11e6-bf94-0b33424a729f"	"253"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"5172"	"AC005094.2"	0	"mskcc.org"	"GRCh37"	"7"	21444343	21444344	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"rs11393929"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000440420"	""	8	"."	5	1	"."	0	"AC005094.2,upstream_gene_variant,,ENST00000440420,;"	"T"	"ENSG00000229949"	"ENST00000440420"	"Transcript"	"upstream_gene_variant"	"-/368"	""	""	""	""	"rs11393929"	"1"	"3112"	-1	"AC005094.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.4401"	"T:0.2383"	"T:0.4683"	NA	"T:0.6022"	"T:0.5696"	"T:0.3926"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"8703c72a-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"5173"	"DNAH11"	8701	"mskcc.org"	"GRCh37"	"7"	21646254	21646254	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3766-11delG"	""	""	"ENST00000328843"	""	375	"."	3	71	"."	0	"DNAH11,intron_variant,,ENST00000328843,;DNAH11,intron_variant,,ENST00000409508,NM_001277115.1;"	"-"	"ENSG00000105877"	"ENST00000328843"	"Transcript"	"intron_variant"	"-/14188"	"-/13572"	"-/4523"	""	""	""	"1"	NA	1	"DNAH11"	"HGNC"	2942	"protein_coding"	"YES"	""	"ENSP00000330671"	"Q96DT5"	"Q75MY1,Q75KM7,O95705,O43352,O15433"	"UPI000041AC4D"	""	NA	NA	""	"19/82"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTGC"	"68b3e00c-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.008	"WXS"	FALSE
"5174"	"RAPGEF5"	9771	"mskcc.org"	"GRCh37"	"7"	22200659	22200663	"+"	"Intron"	"DEL"	"AAAAA"	"AAAAA"	"-"	"rs201061466"	NA	"JHCCPT5"	"JHCCPN5"	"AAAAA"	"AAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.970-430_970-426delTTTTT"	""	""	"ENST00000344041"	""	8	"."	4	2	"."	0	"RAPGEF5,intron_variant,,ENST00000344041,NM_012294.3;RAPGEF5,intron_variant,,ENST00000401957,;RAPGEF5,intron_variant,,ENST00000458533,;RAPGEF5,intron_variant,,ENST00000451559,;"	"-"	"ENSG00000136237"	"ENST00000344041"	"Transcript"	"intron_variant"	"-/6621"	"-/2193"	"-/730"	""	""	"rs201061466"	"1"	NA	-1	"RAPGEF5"	"HGNC"	16862	"protein_coding"	"YES"	"CCDS55093.1"	"ENSP00000343656"	""	"C9JBS6,A8MQ07"	"UPI0000EA87E4"	"NM_012294.3"	NA	NA	""	"13/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAAAAAA"	"68f9a9de-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5175"	"ENSR00000623072"	0	"mskcc.org"	"GRCh37"	"7"	22711804	22711805	"+"	"IGR"	"INS"	"-"	"TTGCACATTTAAATGTACCCC"	"TTGCACATTTAAATGTACCCC"	"rs148724326"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000623072"	""	6	"."	5	2	"."	0	""	"TTGCACATTTAAATGTACCCC"	""	"ENSR00000623072"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs148724326"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3319"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"87473898-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"5176"	"FAM126A"	84668	"mskcc.org"	"GRCh37"	"7"	23000783	23000784	"+"	"Intron"	"INS"	"-"	"-"	"CTCT"	"rs35493358"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.831+67_831+70dupAGAG"	""	""	"ENST00000432176"	""	69	"."	22	15	"."	1	"FAM126A,intron_variant,,ENST00000440481,;FAM126A,intron_variant,,ENST00000432176,NM_032581.3;FAM126A,intron_variant,,ENST00000409923,;FAM126A,intron_variant,,ENST00000498833,;"	"CTCT"	"ENSG00000122591"	"ENST00000432176"	"Transcript"	"intron_variant"	"-/6129"	"-/1566"	"-/521"	""	""	"rs35493358"	"1"	NA	-1	"FAM126A"	"HGNC"	24587	"protein_coding"	"YES"	"CCDS5377.1"	"ENSP00000403396"	"Q9BYI3"	""	"UPI000006FF45"	"NM_032581.3"	NA	NA	""	"9/10"	""	"-:0.3127"	"CTCT:0.7035"	"CTCT:0.6844"	NA	"CTCT:0.6151"	"CTCT:0.7187"	"CTCT:0.7096"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"87488e8c-280f-11e6-bf94-0b33424a729f"	"1380"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318840579710145	"WXS"	FALSE
"5177"	"KLHL7"	55975	"mskcc.org"	"GRCh37"	"7"	23144372	23144373	"+"	"5'Flank"	"INS"	"-"	"-"	"CAC"	"rs146498411"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000339077"	""	48	"."	5	7	"."	0	"KLHL7,upstream_gene_variant,,ENST00000339077,NM_001031710.2;KLHL7,upstream_gene_variant,,ENST00000322231,;KLHL7,upstream_gene_variant,,ENST00000409689,NM_018846.4;KLHL7,upstream_gene_variant,,ENST00000542558,;KLHL7,upstream_gene_variant,,ENST00000539124,;KLHL7,upstream_gene_variant,,ENST00000410047,;KLHL7,upstream_gene_variant,,ENST00000545771,;KLHL7,upstream_gene_variant,,ENST00000322275,NM_001172428.1;KLHL7-AS1,intron_variant,,ENST00000419813,;KLHL7,upstream_gene_variant,,ENST00000479288,;KLHL7,upstream_gene_variant,,ENST00000459661,;KLHL7,upstream_gene_variant,,ENST00000479700,;KLHL7,upstream_gene_variant,,ENST00000521082,;KLHL7,upstream_gene_variant,,ENST00000491352,;"	"CAC"	"ENSG00000122550"	"ENST00000339077"	"Transcript"	"upstream_gene_variant"	"-/5620"	"-/1761"	"-/586"	""	""	"rs146498411"	"1"	"1030"	1	"KLHL7"	"HGNC"	15646	"protein_coding"	"YES"	"CCDS34609.1"	"ENSP00000343273"	"Q8IXQ5"	"E5RFN1,B7Z4N7,B7Z3P9"	"UPI0000037B12"	"NM_001031710.2"	NA	NA	""	""	""	"CAC:0.3692"	"CAC:0.68"	"CAC:0.2997"	NA	"CAC:0.1815"	"CAC:0.33"	"CAC:0.2321"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTC"	"874c259c-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104166666666667	"WXS"	FALSE
"5178"	"KLHL7"	55975	"mskcc.org"	"GRCh37"	"7"	23180197	23180198	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs5882887"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.443-181dupA"	""	""	"ENST00000339077"	""	33	"."	3	11	"."	0	"KLHL7,intron_variant,,ENST00000339077,NM_001031710.2;KLHL7,intron_variant,,ENST00000322231,;KLHL7,intron_variant,,ENST00000409689,NM_018846.4;KLHL7,intron_variant,,ENST00000545443,;KLHL7,intron_variant,,ENST00000542558,;KLHL7,intron_variant,,ENST00000539124,;KLHL7,upstream_gene_variant,,ENST00000414163,;KLHL7,intron_variant,,ENST00000479288,;KLHL7,intron_variant,,ENST00000459661,;KLHL7,intron_variant,,ENST00000521082,;"	"A"	"ENSG00000122550"	"ENST00000339077"	"Transcript"	"intron_variant"	"-/5620"	"-/1761"	"-/586"	""	""	"rs5882887"	"1"	NA	1	"KLHL7"	"HGNC"	15646	"protein_coding"	"YES"	"CCDS34609.1"	"ENSP00000343273"	"Q8IXQ5"	"E5RFN1,B7Z4N7,B7Z3P9"	"UPI0000037B12"	"NM_001031710.2"	NA	NA	""	"4/10"	""	"A:0.4193"	"A:0.7307"	"A:0.3012"	NA	"A:0.3393"	"A:0.331"	"A:0.2556"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"874e13fc-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WXS"	FALSE
"5179"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	23915309	23915313	"+"	"IGR"	"DEL"	"GAAAA"	"GAAAA"	"-"	"rs68095156"	NA	"JHCCPT5"	"JHCCPN5"	"GAAAA"	"GAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs68095156"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGAAAAG"	"697cd610-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5180"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	30528487	30528488	"+"	"IGR"	"INS"	"-"	"-"	"TTTG"	"rs148728157"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"TTTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148728157"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"881f1e70-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5181"	"GHRHR"	2692	"mskcc.org"	"GRCh37"	"7"	31032309	31032311	"+"	"Intron"	"DEL"	"GCT"	"GCT"	"-"	"rs72214821"	NA	"JHCCPT5"	"JHCCPN5"	"GCT"	"GCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.280-459_280-457delTGC"	""	""	"ENST00000473133"	""	48	"."	7	9	"."	0	"GHRHR,intron_variant,,ENST00000473133,;"	"-"	"ENSG00000106128"	"ENST00000473133"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/361"	""	""	""	""	"rs72214821"	"1"	NA	1	"GHRHR"	"HGNC"	4266	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"1/1"	""	"-:0.3964"	"-:0.8631"	"-:0.1873"	NA	"-:0.1349"	"-:0.2455"	"-:0.3384"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGGCTG"	"6ae39e94-280f-11e6-bf94-0b33424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145833333333333	"WXS"	FALSE
"5182"	"KIAA0895"	23366	"mskcc.org"	"GRCh37"	"7"	36383259	36383260	"+"	"Intron"	"DEL"	"AG"	"-"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.868-8473_868-8472delCT"	""	""	"ENST00000297063"	""	7	"."	5	2	"."	0	"KIAA0895,intron_variant,,ENST00000317020,NM_015314.2;KIAA0895,intron_variant,,ENST00000297063,NM_001100425.1;KIAA0895,intron_variant,,ENST00000338533,NM_001199707.1;KIAA0895,intron_variant,,ENST00000440378,NM_001199706.1;KIAA0895,intron_variant,,ENST00000436884,NM_001199708.1;KIAA0895,intron_variant,,ENST00000453212,;KIAA0895,intron_variant,,ENST00000431396,;KIAA0895,intron_variant,,ENST00000480192,;KIAA0895,intron_variant,,ENST00000483526,;KIAA0895,intron_variant,,ENST00000483360,;"	"-"	"ENSG00000164542"	"ENST00000297063"	"Transcript"	"intron_variant"	"-/4153"	"-/1563"	"-/520"	""	""	""	"1"	NA	-1	"KIAA0895"	"HGNC"	22206	"protein_coding"	"YES"	"CCDS43570.1"	"ENSP00000297063"	"Q8NCT3"	""	"UPI000013E3C0"	"NM_001100425.1"	NA	NA	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"6bc0a91a-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"5183"	"ELMO1"	9844	"mskcc.org"	"GRCh37"	"7"	37223166	37223167	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11448067"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1086+27824dupC"	""	""	"ENST00000310758"	""	6	"."	4	1	"."	0	"ELMO1,intron_variant,,ENST00000310758,NM_014800.10,NM_001206480.1;ELMO1,intron_variant,,ENST00000442504,NM_001206482.1;ELMO1,intron_variant,,ENST00000448602,;ELMO1,intron_variant,,ENST00000341056,;ELMO1,intron_variant,,ENST00000433246,;ELMO1,intron_variant,,ENST00000472359,;ELMO1,intron_variant,,ENST00000420636,;ELMO1,intron_variant,,ENST00000487336,;"	"G"	"ENSG00000155849"	"ENST00000310758"	"Transcript"	"intron_variant"	"-/4022"	"-/2184"	"-/727"	""	""	"rs11448067"	"1"	NA	-1	"ELMO1"	"HGNC"	16286	"protein_coding"	"YES"	"CCDS5449.1"	"ENSP00000312185"	"Q92556"	"C9JIW2,C9JB20,C9J5X3,B4DJV6,A4D1X5"	"UPI000006F687"	"NM_014800.10,NM_001206480.1"	NA	NA	""	"13/21"	""	"-:0.1985"	"G:0.7829"	"G:0.7983"	NA	"G:0.7748"	"G:0.7873"	"G:0.8712"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"88d49dc2-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5184"	"VPS41"	27072	"mskcc.org"	"GRCh37"	"7"	38805005	38805006	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs35429019"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1329+174_1329+175insC"	""	""	"ENST00000310301"	""	23	"."	18	4	"."	0	"VPS41,intron_variant,,ENST00000310301,NM_014396.3;VPS41,intron_variant,,ENST00000395969,NM_080631.3;VPS41,intron_variant,,ENST00000462429,;"	"G"	"ENSG00000006715"	"ENST00000310301"	"Transcript"	"intron_variant"	"-/5903"	"-/2565"	"-/854"	""	""	"rs35429019"	"1"	NA	-1	"VPS41"	"HGNC"	12713	"protein_coding"	"YES"	"CCDS5457.1"	"ENSP00000309457"	"P49754"	"Q75MS2,C9J2U9"	"UPI000000DAB7"	"NM_014396.3"	NA	NA	""	"16/28"	""	"-:0.0643"	"G:0.9924"	"G:0.9438"	NA	"G:0.996"	"G:0.9046"	"G:0.8231"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"890aeb66-280f-11e6-bf94-0b33424a729f"	"1080"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.782608695652174	"WXS"	FALSE
"5185"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	41223067	41223068	"+"	"IGR"	"INS"	"-"	"TTCCTTCT"	"TTCCTTCT"	"rs149692509"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	2	"."	0	""	"TTCCTTCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs149692509"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"891c717e-280f-11e6-bf94-0b33424a729f"	"271"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"5186"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	42301824	42301825	"+"	"IGR"	"INS"	"-"	"-"	"TTCCTTCCTTCCTTCCTTCC"	"rs767583120"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	2	"."	0	""	"TTCCTTCCTTCCTTCCTTCC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs767583120"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"8937c6c2-280f-11e6-bf94-0b33424a729f"	"169"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"5187"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	42857880	42857880	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs71008865"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71008865"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.1737"	"-:0.4773"	"-:0.9222"	NA	"-:0.9117"	"-:0.9742"	"-:0.9898"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTA"	"6cb43ed6-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"5188"	"BLVRA"	644	"mskcc.org"	"GRCh37"	"7"	43807444	43807445	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs34361520"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-21-3283dupA"	""	""	"ENST00000402924"	""	16	"."	3	3	"."	0	"BLVRA,intron_variant,,ENST00000402924,NM_001253823.1;BLVRA,intron_variant,,ENST00000265523,NM_000712.3;BLVRA,intron_variant,,ENST00000424330,;BLVRA,upstream_gene_variant,,ENST00000453612,;AC005189.6,downstream_gene_variant,,ENST00000431286,;"	"A"	"ENSG00000106605"	"ENST00000402924"	"Transcript"	"intron_variant"	"-/1159"	"-/891"	"-/296"	""	""	"rs34361520"	"1"	NA	1	"BLVRA"	"HGNC"	1062	"protein_coding"	"YES"	"CCDS5472.1"	"ENSP00000385757"	"P53004"	"C9J1E1"	"UPI0000126937"	"NM_001253823.1"	NA	NA	""	"2/8"	""	"A:0.4151"	"A:0.4085"	"A:0.3444"	NA	"A:0.4117"	"A:0.3519"	"A:0.5429"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"895dbdbe-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"5189"	"CAMK2B"	816	"mskcc.org"	"GRCh37"	"7"	44295604	44295605	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs67113021"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.276-1399dupC"	""	""	"ENST00000395749"	""	9	"."	4	2	"."	0	"CAMK2B,intron_variant,,ENST00000395749,NM_001220.4;CAMK2B,intron_variant,,ENST00000457475,NM_172080.2,NM_172079.2;CAMK2B,intron_variant,,ENST00000350811,;CAMK2B,intron_variant,,ENST00000440254,NM_172078.2;CAMK2B,intron_variant,,ENST00000358707,NM_172081.2;CAMK2B,intron_variant,,ENST00000502837,;CAMK2B,intron_variant,,ENST00000258682,;CAMK2B,intron_variant,,ENST00000353625,NM_172083.2;CAMK2B,intron_variant,,ENST00000347193,NM_172082.2;CAMK2B,intron_variant,,ENST00000395747,;CAMK2B,intron_variant,,ENST00000346990,NM_172084.2;CAMK2B,intron_variant,,ENST00000421607,;CAMK2B,intron_variant,,ENST00000415369,;CAMK2B,intron_variant,,ENST00000424197,;CAMK2B,intron_variant,,ENST00000497584,;CAMK2B,intron_variant,,ENST00000495819,;CAMK2B,intron_variant,,ENST00000497127,;CAMK2B,intron_variant,,ENST00000470984,;CAMK2B,intron_variant,,ENST00000462128,;CAMK2B,intron_variant,,ENST00000484972,;CAMK2B,intron_variant,,ENST00000523845,;CAMK2B,intron_variant,,ENST00000353185,;"	"G"	"ENSG00000058404"	"ENST00000395749"	"Transcript"	"intron_variant"	"-/4447"	"-/2001"	"-/666"	""	""	"rs67113021"	"1"	NA	-1	"CAMK2B"	"HGNC"	1461	"protein_coding"	"YES"	"CCDS5483.1"	"ENSP00000379098"	"Q13554"	"Q75LA8,Q75KE9,D3DVK8,A4D2J9"	"UPI0000164A3E"	"NM_001220.4"	NA	NA	""	"4/23"	""	"G:0.2061"	"G:0.1271"	"G:0.2392"	NA	"G:0.0397"	"G:0.3946"	"G:0.2669"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"89d19db0-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"5190"	"CAMK2B"	816	"mskcc.org"	"GRCh37"	"7"	44364012	44364012	"+"	"Intron"	"DEL"	"A"	"-"	"-"	"rs76285380"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.65+944delT"	""	""	"ENST00000395749"	""	7	"."	5	4	"."	0	"CAMK2B,intron_variant,,ENST00000395749,NM_001220.4;CAMK2B,intron_variant,,ENST00000457475,NM_172080.2,NM_172079.2;CAMK2B,intron_variant,,ENST00000350811,;CAMK2B,intron_variant,,ENST00000440254,NM_172078.2;CAMK2B,intron_variant,,ENST00000358707,NM_172081.2;CAMK2B,intron_variant,,ENST00000502837,;CAMK2B,intron_variant,,ENST00000258682,;CAMK2B,intron_variant,,ENST00000353625,NM_172083.2;CAMK2B,intron_variant,,ENST00000347193,NM_172082.2;CAMK2B,intron_variant,,ENST00000395747,;CAMK2B,intron_variant,,ENST00000346990,NM_172084.2;CAMK2B,intron_variant,,ENST00000421607,;CAMK2B,intron_variant,,ENST00000424197,;CAMK2B,upstream_gene_variant,,ENST00000415369,;CAMK2B,intron_variant,,ENST00000497584,;CAMK2B,intron_variant,,ENST00000495819,;CAMK2B,intron_variant,,ENST00000470984,;CAMK2B,intron_variant,,ENST00000427209,;CAMK2B,intron_variant,,ENST00000523845,;CAMK2B,intron_variant,,ENST00000353185,;"	"-"	"ENSG00000058404"	"ENST00000395749"	"Transcript"	"intron_variant"	"-/4447"	"-/2001"	"-/666"	""	""	"rs76285380"	"1"	NA	-1	"CAMK2B"	"HGNC"	1461	"protein_coding"	"YES"	"CCDS5483.1"	"ENSP00000379098"	"Q13554"	"Q75LA8,Q75KE9,D3DVK8,A4D2J9"	"UPI0000164A3E"	"NM_001220.4"	NA	NA	""	"1/23"	""	"A:0.4499"	"-:0.6906"	"-:0.562"	NA	"-:0.2887"	"-:0.5805"	"-:0.59"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"6d629396-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"5191"	"SEPT7P2"	641977	"mskcc.org"	"GRCh37"	"7"	45808506	45808506	"+"	"RNA"	"DEL"	"A"	"A"	"-"	"rs199499979"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.48delT"	""	""	"ENST00000429741"	"1/14"	10	"."	3	3	"."	0	"SEPT7P2,non_coding_transcript_exon_variant,,ENST00000429741,;SEPT7P2,non_coding_transcript_exon_variant,,ENST00000428414,;SEPT7P2,non_coding_transcript_exon_variant,,ENST00000450436,;SEPT7P2,non_coding_transcript_exon_variant,,ENST00000443269,;SEPT7P2,non_coding_transcript_exon_variant,,ENST00000417129,;SEPT7P2,upstream_gene_variant,,ENST00000398921,;AC096582.7,upstream_gene_variant,,ENST00000438487,;"	"-"	"ENSG00000214765"	"ENST00000429741"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"48/3006"	""	""	""	""	"rs199499979"	"1"	NA	-1	"SEPT7P2"	"HGNC"	32339	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	"1/14"	""	""	"-:0.1767"	"-:0.354"	"-:0.1182"	NA	"-:0.1181"	"-:0.1769"	"-:0.0389"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAG"	"6da3467a-280f-11e6-bf94-0b33424a729f"	"169"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"5192"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	46482819	46482820	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs5883965"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	6	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5883965"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0000"	"A:1"	"A:1"	NA	"A:1"	"A:1"	"A:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"89fcd660-280f-11e6-bf94-0b33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"5193"	"GRB10"	2887	"mskcc.org"	"GRCh37"	"7"	50771895	50771895	"+"	"Intron"	"DEL"	"A"	"-"	"-"	"rs11312125"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.52-290delT"	""	""	"ENST00000398812"	""	6	"."	5	3	"."	0	"GRB10,intron_variant,,ENST00000403097,;GRB10,intron_variant,,ENST00000335866,NM_001001555.2;GRB10,intron_variant,,ENST00000398810,NM_001001550.2;GRB10,intron_variant,,ENST00000402578,;GRB10,intron_variant,,ENST00000398812,NM_005311.4;GRB10,intron_variant,,ENST00000439599,;GRB10,intron_variant,,ENST00000406641,;GRB10,intron_variant,,ENST00000401949,;GRB10,intron_variant,,ENST00000402497,;GRB10,intron_variant,,ENST00000407526,;GRB10,intron_variant,,ENST00000357271,NM_001001549.2;GRB10,intron_variant,,ENST00000439044,;"	"-"	"ENSG00000106070"	"ENST00000398812"	"Transcript"	"intron_variant"	"-/4705"	"-/1785"	"-/594"	""	""	"rs11312125"	"1"	NA	-1	"GRB10"	"HGNC"	4564	"protein_coding"	"YES"	"CCDS43582.1"	"ENSP00000381793"	"Q13322"	"Q75MT1,Q75M93"	"UPI000012BA84"	"NM_005311.4"	NA	NA	""	"1/15"	""	"A:0.2117"	"-:0.7186"	"-:0.7839"	NA	"-:0.7946"	"-:0.8529"	"-:0.8129"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAA"	"6e6cbc1c-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"5194"	"ENSR00001795785"	0	"mskcc.org"	"GRCh37"	"7"	50875217	50875218	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs35593629"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001795785"	""	16	"."	5	2	"."	0	""	"T"	""	"ENSR00001795785"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs35593629"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2656"	"T:0.5787"	"T:0.7925"	NA	"T:0.7659"	"T:0.828"	"T:0.7751"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"8a64dc24-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"5195"	"RP11-775L16.1"	0	"mskcc.org"	"GRCh37"	"7"	55417289	55417290	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"rs71031833"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000421633"	""	8	"."	4	1	"."	0	"RP11-775L16.1,downstream_gene_variant,,ENST00000421633,;"	"A"	"ENSG00000230936"	"ENST00000421633"	"Transcript"	"downstream_gene_variant"	"-/2643"	""	""	""	""	"rs71031833"	"1"	"4638"	1	"RP11-775L16.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.2644"	"A:0.3185"	"A:0.2046"	NA	"A:0.1339"	"A:0.3658"	"A:0.2638"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"8ab442c8-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5196"	"CCT6A"	908	"mskcc.org"	"GRCh37"	"7"	56120482	56120490	"+"	"Intron"	"DEL"	"TTTTCTTTT"	"TTTTCTTTT"	"-"	"rs199794359"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTCTTTT"	"TTTTCTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.201+308_201+316delCTTTTTTTT"	""	""	"ENST00000275603"	""	9	"."	5	2	"."	0	"CCT6A,intron_variant,,ENST00000275603,NM_001762.3;CCT6A,intron_variant,,ENST00000335503,NM_001009186.1;CCT6A,intron_variant,,ENST00000540286,;PSPH,upstream_gene_variant,,ENST00000395471,;PSPH,upstream_gene_variant,,ENST00000275605,NM_004577.3;PSPH,upstream_gene_variant,,ENST00000419984,;PSPH,upstream_gene_variant,,ENST00000416592,;PSPH,upstream_gene_variant,,ENST00000421312,;PSPH,upstream_gene_variant,,ENST00000424596,;PSPH,upstream_gene_variant,,ENST00000413218,;SNORA22,upstream_gene_variant,,ENST00000383876,;PSPH,upstream_gene_variant,,ENST00000437355,;CCT6A,upstream_gene_variant,,ENST00000482776,;CCT6A,upstream_gene_variant,,ENST00000493855,;"	"-"	"ENSG00000146731"	"ENST00000275603"	"Transcript"	"intron_variant"	"-/2719"	"-/1596"	"-/531"	""	""	"rs199794359"	"1"	NA	1	"CCT6A"	"HGNC"	1620	"protein_coding"	"YES"	"CCDS5523.1"	"ENSP00000275603"	"P40227"	""	"UPI0000136B11"	"NM_001762.3"	NA	NA	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTTCTTTTT"	"6eec46bc-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"5197"	"SUMF2"	25870	"mskcc.org"	"GRCh37"	"7"	56140433	56140436	"+"	"Intron"	"DEL"	"AAAC"	"AAAC"	"-"	"rs148444659"	NA	"JHCCPT5"	"JHCCPN5"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.282-250_282-247delCAAA"	""	""	"ENST00000342190"	""	23	"."	4	2	"."	0	"SUMF2,intron_variant,,ENST00000434526,NM_015411.2,NM_001042469.1;SUMF2,intron_variant,,ENST00000275607,NM_001146333.1;SUMF2,intron_variant,,ENST00000342190,NM_001130069.2;SUMF2,intron_variant,,ENST00000395436,;SUMF2,intron_variant,,ENST00000395435,NM_001042470.1;SUMF2,intron_variant,,ENST00000413756,;SUMF2,intron_variant,,ENST00000437307,;SUMF2,intron_variant,,ENST00000451338,;SUMF2,intron_variant,,ENST00000413952,;SUMF2,intron_variant,,ENST00000423763,;SUMF2,intron_variant,,ENST00000438133,;SUMF2,intron_variant,,ENST00000436782,;SUMF2,intron_variant,,ENST00000447501,;SUMF2,intron_variant,,ENST00000483327,;SUMF2,intron_variant,,ENST00000452216,;SUMF2,intron_variant,,ENST00000498777,;SUMF2,intron_variant,,ENST00000529457,;SUMF2,upstream_gene_variant,,ENST00000531229,;SUMF2,upstream_gene_variant,,ENST00000461912,;"	"-"	"ENSG00000129103"	"ENST00000342190"	"Transcript"	"intron_variant"	"-/1876"	"-/1077"	"-/358"	""	""	"rs148444659"	"1"	NA	1	"SUMF2"	"HGNC"	20415	"protein_coding"	"YES"	"CCDS47589.1"	"ENSP00000341938"	""	"Q75LP3,F8WA42"	"UPI0001AE7021"	"NM_001130069.2"	NA	NA	""	"2/7"	""	"-:0.1258"	"-:0.1974"	"-:0.1527"	NA	"-:0.0159"	"-:0.1551"	"-:0.093"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAAACA"	"6ef16d5e-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"5198"	"ZNF479"	90827	"mskcc.org"	"GRCh37"	"7"	57193370	57193371	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs564637463"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.262+354dupT"	""	""	"ENST00000331162"	""	8	"."	3	4	"."	0	"ZNF479,intron_variant,,ENST00000331162,NM_033273.1;"	"A"	"ENSG00000185177"	"ENST00000331162"	"Transcript"	"intron_variant"	"-/2072"	"-/1575"	"-/524"	""	""	"rs564637463"	"1"	NA	-1	"ZNF479"	"HGNC"	23258	"protein_coding"	"YES"	"CCDS43590.1"	"ENSP00000333776"	"Q96JC4"	"I0EZ75"	"UPI000006E615"	"NM_033273.1"	NA	NA	""	"4/4"	""	"AA:0.3031"	"AA:0.2307"	"AA:0.2507"	NA	"AA:0.6409"	"AA:0.1759"	"AA:0.2209"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"8ad6ebca-280f-11e6-bf94-0b33424a729f"	"169"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"5199"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	57938869	57938869	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"rs66509610"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	8	5	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs66509610"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3500"	"-:0.1596"	"-:0.5346"	NA	"-:0.2679"	"-:0.4712"	"-:0.4366"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGC"	"6f3f902e-280f-11e6-bf94-0b33424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.470588235294118	"WXS"	FALSE
"5200"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	61763590	61763591	"+"	"IGR"	"INS"	"-"	"-"	"TTCTTTCTTTCTTTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"."	4	3	"."	0	""	"TTCTTTCTTTCTTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"8add005a-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"5201"	"ZNF736"	728927	"mskcc.org"	"GRCh37"	"7"	63767595	63767602	"+"	"5'Flank"	"DEL"	"CGCCCTGC"	"CGCCCTGC"	"-"	"rs11270444"	NA	"JHCCPT5"	"JHCCPN5"	"CGCCCTGC"	"CGCCCTGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000438373"	""	10	"."	5	1	"."	0	"ZNF736,upstream_gene_variant,,ENST00000438373,;ZNF736,upstream_gene_variant,,ENST00000465343,;ZNF736,upstream_gene_variant,,ENST00000493036,;ZNF736,upstream_gene_variant,,ENST00000606716,;ZNF736,upstream_gene_variant,,ENST00000492322,;"	"-"	"ENSG00000234444"	"ENST00000438373"	"Transcript"	"upstream_gene_variant"	"-/562"	"-/30"	"-/10"	""	""	"rs11270444"	"1"	"3604"	1	"ZNF736"	"HGNC"	32467	"protein_coding"	""	""	"ENSP00000391083"	""	""	"UPI000198CD3C"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCGCCCTGCC"	"6f7b84e4-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5202"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	64304785	64304786	"+"	"IGR"	"INS"	"-"	"-"	"TTC"	"rs112103908"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	1	"."	0	""	"TTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112103908"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1971"	"TTC:0.6778"	"TTC:0.8473"	NA	"TTC:0.8234"	"TTC:0.8827"	"TTC:0.8374"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"8b0e5e02-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"5203"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	65047594	65047624	"+"	"IGR"	"DEL"	"TTTTTCTTTTCCTCTTTCTTTTCTTTTCCTT"	"TTTTTCTTTTCCTCTTTCTTTTCTTTTCCTT"	"CTTTTCTTTTCCTTTTTCTTTTCCTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTTCTTTTCCTCTTTCTTTTCTTTTCCTT"	"TTTTTCTTTTCCTCTTTCTTTTCTTTTCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	29	"."	3	10	"."	0	""	"CTTTTCTTTTCCTTTTTCTTTTCCTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTTTTCTTTTCCTCTTTCTTTTCTTTTCCTTT"	"82d8024c-280f-11e6-bf94-0b33424a729f"	"23"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WXS"	FALSE
"5204"	"ENSR00000627389"	0	"mskcc.org"	"GRCh37"	"7"	65285505	65285507	"+"	"IGR"	"DEL"	"AGG"	"AGG"	"-"	"rs138674525"	NA	"JHCCPT5"	"JHCCPN5"	"AGG"	"AGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000627389"	""	10	"."	4	4	"."	0	""	"-"	""	"ENSR00000627389"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs138674525"	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAGGA"	"6fa83a2a-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"5205"	"VKORC1L1"	154807	"mskcc.org"	"GRCh37"	"7"	65419354	65419356	"+"	"3'UTR"	"DEL"	"TTA"	"TTA"	"-"	"rs772832119"	NA	"JHCCPT5"	"JHCCPN5"	"TTA"	"TTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*90_*92delATT"	""	""	"ENST00000360768"	"3/3"	201	"."	8	49	"."	0	"VKORC1L1,inframe_deletion,p.Ile171del,ENST00000434382,NM_001284342.1;VKORC1L1,3_prime_UTR_variant,,ENST00000360768,NM_173517.4;"	"-"	"ENSG00000196715"	"ENST00000360768"	"Transcript"	"3_prime_UTR_variant"	"703-705/5899"	"-/531"	"-/176"	""	""	"rs772832119,COSM1091310"	"1"	NA	1	"VKORC1L1"	"HGNC"	21492	"protein_coding"	"YES"	"CCDS5529.1"	"ENSP00000353998"	"Q8N0U8"	""	"UPI000020E7D2"	"NM_173517.4"	NA	NA	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	""	"0,1"	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"23"	"0,1"	"1"	"0.003342"	"0.005396"	"0.003521"	"0"	"0.003518"	"0.005927"	"0.005319"	"0.01612"	NA	"common_variant"	"TTTTAT"	"6fae7d7c-280f-11e6-bf94-0b33424a729f"	"480"	0.009324	"178/19090"	"295/88258"	"6/1112"	"3/852"	"0/478"	"7/1990"	"42/7086"	"1/188"	"119/7384"	"PASS"	"FALSE"	0.0398009950248756	"WXS"	FALSE
"5206"	"RP5-1132H15.3"	0	"mskcc.org"	"GRCh37"	"7"	65496880	65496881	"+"	"5'Flank"	"INS"	"-"	"-"	"TAA"	"rs112946833"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000411872"	""	9	"."	4	1	"."	0	"RP5-1132H15.3,upstream_gene_variant,,ENST00000411872,;"	"TAA"	"ENSG00000229886"	"ENST00000411872"	"Transcript"	"upstream_gene_variant"	"-/306"	""	""	""	""	"rs112946833"	"1"	"349"	-1	"RP5-1132H15.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"TAA:0.4349"	"TAA:0.6634"	"TAA:0.4452"	NA	"TAA:0.2123"	"TAA:0.4334"	"TAA:0.3497"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"8b2ed68c-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"5207"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	65658627	65658633	"+"	"IGR"	"DEL"	"CTCCTTT"	"CTCCTTT"	"TCTT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CTCCTTT"	"CTCCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"."	3	4	"."	0	""	"TC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTCTCCTTTC"	"82d8ff6c-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"5208"	"TPST1"	8460	"mskcc.org"	"GRCh37"	"7"	65751810	65751811	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTTTG"	"rs55756764"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1044+122_1044+123insTTGTTTTTTTT"	""	""	"ENST00000304842"	""	48	"."	5	10	"."	0	"TPST1,intron_variant,,ENST00000304842,NM_003596.3;TPST1,intron_variant,,ENST00000480281,;"	"TTTTTTTTTTG"	"ENSG00000169902"	"ENST00000304842"	"Transcript"	"intron_variant"	"-/2116"	"-/1113"	"-/370"	""	""	"rs55756764"	"1"	NA	1	"TPST1"	"HGNC"	12020	"protein_coding"	"YES"	"CCDS5533.1"	"ENSP00000302413"	"O60507"	"Q75ML6,Q75M96,C9K0F3,C9J3I4"	"UPI0000000CD1"	"NM_003596.3"	NA	NA	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8b44a174-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104166666666667	"WXS"	FALSE
"5209"	"GS1-124K5.9"	0	"mskcc.org"	"GRCh37"	"7"	65973649	65973651	"+"	"5'Flank"	"DEL"	"TTC"	"TTC"	"-"	"rs139765805"	NA	"JHCCPT5"	"JHCCPN5"	"TTC"	"TTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000474858"	""	18	"."	7	3	"."	0	"GS1-124K5.9,upstream_gene_variant,,ENST00000474858,;GS1-124K5.10,upstream_gene_variant,,ENST00000448776,;GS1-124K5.9,upstream_gene_variant,,ENST00000324712,;"	"-"	"ENSG00000179342"	"ENST00000474858"	"Transcript"	"upstream_gene_variant"	"-/1069"	""	""	""	""	"rs139765805"	"1"	"2439"	-1	"GS1-124K5.9"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4012"	"-:0.2352"	"-:0.3991"	NA	"-:0.498"	"-:0.3926"	"-:0.5358"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTCT"	"6fdd6d4e-280f-11e6-bf94-0b33424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388888888888889	"WXS"	FALSE
"5210"	"PMS2P4"	5382	"mskcc.org"	"GRCh37"	"7"	66756725	66756728	"+"	"3'Flank"	"DEL"	"TTTT"	"-"	"-"	"rs374360100"	NA	"JHCCPT5"	"JHCCPN5"	"TTTT"	"TTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000412466"	""	7	"."	5	1	"."	0	"PMS2P4,downstream_gene_variant,,ENST00000414507,;PMS2P4,intron_variant,,ENST00000275546,;PMS2P4,downstream_gene_variant,,ENST00000412466,;"	"-"	"ENSG00000067601"	"ENST00000412466"	"Transcript"	"downstream_gene_variant"	"-/1052"	""	""	""	""	"rs374360100"	"1"	"3867"	-1	"PMS2P4"	"HGNC"	9129	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTTTT"	"6ff976ba-280f-11e6-bf94-0b33424a729f"	"183"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"5211"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	67348143	67348144	"+"	"IGR"	"INS"	"-"	"-"	"TTTCTTTCTTTCTTTCTTTCTTTCTTTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	3	2	"."	0	""	"TTTCTTTCTTTCTTTCTTTCTTTCTTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"8b83f96e-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WXS"	FALSE
"5212"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	68435446	68435446	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs34428457"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34428457"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3958"	"-:0.413"	"-:0.6816"	NA	"-:0.6508"	"-:0.6471"	"-:0.7157"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"702216ba-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"5213"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	68485521	68485522	"+"	"IGR"	"INS"	"-"	"-"	"GGT"	"rs35889181"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	23	"."	4	8	"."	0	""	"GGT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35889181"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2668"	"GGT:0.4834"	"GGT:0.745"	NA	"GGT:0.8581"	"GGT:0.8539"	"GGT:0.8098"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"8b953030-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"5214"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	68611347	68611348	"+"	"IGR"	"INS"	"-"	"-"	"TTTTC"	"rs71086428"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	4	"."	0	""	"TTTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71086428"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2744"	"TC:0.8964"	"TC:0.634"	NA	"TC:0.9167"	"TC:0.4026"	"TC:0.6953"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8b9971cc-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5215"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	70353384	70353387	"+"	"IGR"	"DEL"	"AGAA"	"AGAA"	"-"	"rs113576477"	NA	"JHCCPT5"	"JHCCPN5"	"AGAA"	"AGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	8	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113576477"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4038"	"-:0.5681"	"-:0.3804"	NA	"-:0.3393"	"-:0.3847"	"-:0.2843"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAGAAA"	"70486eaa-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"5216"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	70478544	70478545	"+"	"IGR"	"INS"	"-"	"-"	"AAGAAAGA"	"rs71080410"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	3	"."	0	""	"AAGAAAGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71080410"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"8ba6c1ba-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"5217"	"WBSCR17"	64409	"mskcc.org"	"GRCh37"	"7"	71127303	71127304	"+"	"Intron"	"INS"	"-"	"-"	"TATC"	"rs142883000"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1081-3079_1081-3076dupATCT"	""	""	"ENST00000333538"	""	9	"."	5	1	"."	0	"WBSCR17,intron_variant,,ENST00000333538,NM_022479.2;WBSCR17,intron_variant,,ENST00000498380,;WBSCR17,intron_variant,,ENST00000467723,;"	"TATC"	"ENSG00000185274"	"ENST00000333538"	"Transcript"	"intron_variant"	"-/3884"	"-/1797"	"-/598"	""	""	"rs142883000"	"1"	NA	1	"WBSCR17"	"HGNC"	16347	"protein_coding"	"YES"	"CCDS5540.1"	"ENSP00000329654"	"Q6IS24"	"Q68CW8,Q2L4S5,B3KRD2"	"UPI00000502D5"	"NM_022479.2"	NA	NA	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"17"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8bbd9750-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"5218"	"CALN1"	83698	"mskcc.org"	"GRCh37"	"7"	71810398	71810399	"+"	"Intron"	"INS"	"-"	"-"	"AGAA"	"rs71069059"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.119+57834_119+57837dupTTCT"	""	""	"ENST00000395275"	""	22	"."	5	5	"."	0	"CALN1,intron_variant,,ENST00000395275,NM_031468.3;CALN1,intron_variant,,ENST00000395276,;CALN1,intron_variant,,ENST00000412588,;CALN1,intron_variant,,ENST00000431984,;"	"AGAA"	"ENSG00000183166"	"ENST00000395275"	"Transcript"	"intron_variant"	"-/9459"	"-/786"	"-/261"	""	""	"rs71069059"	"1"	NA	-1	"CALN1"	"HGNC"	13248	"protein_coding"	"YES"	"CCDS47603.1"	"ENSP00000378690"	"Q9BXU9"	"Q86UM7,Q86UL5,Q75MW5,Q75MP5,Q75MI2,E9PFU3,A4D1Z1"	"UPI0000D4B903"	"NM_031468.3"	NA	NA	""	"2/6"	""	"-:0.1783"	"AGAA:0.823"	"AGAA:0.7795"	NA	"AGAA:0.8393"	"AGAA:0.8161"	"AGAA:0.8374"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"8bc71b9a-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WXS"	FALSE
"5219"	"LIMK1"	3984	"mskcc.org"	"GRCh37"	"7"	73513063	73513063	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs3216779"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.402-299delA"	""	""	"ENST00000336180"	""	15	"."	4	5	"."	0	"LIMK1,intron_variant,,ENST00000418310,;LIMK1,intron_variant,,ENST00000336180,NM_002314.3;LIMK1,intron_variant,,ENST00000538333,NM_001204426.1;LIMK1,intron_variant,,ENST00000491052,;LIMK1,downstream_gene_variant,,ENST00000486361,;LIMK1,intron_variant,,ENST00000483414,;LIMK1,intron_variant,,ENST00000435201,;"	"-"	"ENSG00000106683"	"ENST00000336180"	"Transcript"	"intron_variant"	"-/3219"	"-/1944"	"-/647"	""	""	"rs3216779"	"1"	NA	1	"LIMK1"	"HGNC"	6613	"protein_coding"	"YES"	"CCDS5563.1"	"ENSP00000336740"	"P53667"	"Q75MU4"	"UPI000013D678"	"NM_002314.3"	NA	NA	""	"4/15"	""	"A:0.2883"	"-:0.4448"	"-:0.8184"	NA	"-:0.8165"	"-:0.8171"	"-:0.7802"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTAC"	"70c69c6c-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"5220"	"CLIP2"	7461	"mskcc.org"	"GRCh37"	"7"	73765336	73765337	"+"	"Intron"	"INS"	"-"	"-"	"AGAAAG"	"rs150657072"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.679-2872_679-2867dupGAAAGA"	""	""	"ENST00000223398"	""	13	"."	5	4	"."	0	"CLIP2,intron_variant,,ENST00000223398,NM_003388.4;CLIP2,intron_variant,,ENST00000361545,NM_032421.2;CLIP2,intron_variant,,ENST00000395060,;"	"AGAAAG"	"ENSG00000106665"	"ENST00000223398"	"Transcript"	"intron_variant"	"-/5563"	"-/3141"	"-/1046"	""	""	"rs150657072"	"1"	NA	1	"CLIP2"	"HGNC"	2586	"protein_coding"	"YES"	"CCDS5569.1"	"ENSP00000223398"	"Q9UDT6"	"Q7Z5B7"	"UPI000007061E"	"NM_003388.4"	NA	NA	""	"3/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"8bf9982c-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WXS"	FALSE
"5221"	"HIP1"	3092	"mskcc.org"	"GRCh37"	"7"	75178431	75178432	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs3214799"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2296-133dupC"	""	""	"ENST00000336926"	""	16	"."	4	10	"."	0	"HIP1,intron_variant,,ENST00000336926,NM_005338.6;HIP1,intron_variant,,ENST00000434438,NM_001243198.2;"	"G"	"ENSG00000127946"	"ENST00000336926"	"Transcript"	"intron_variant"	"-/8013"	"-/3114"	"-/1037"	""	""	"rs3214799"	"1"	NA	-1	"HIP1"	"HGNC"	4913	"protein_coding"	"YES"	"CCDS34669.1"	"ENSP00000336747"	"O00291"	"Q8TDA4,B4DYD7,B4DK46"	"UPI000013D65F"	"NM_005338.6"	NA	NA	""	"22/30"	""	"-:0.4483"	"G:0.6467"	"G:0.5965"	NA	"G:0.6567"	"G:0.4374"	"G:0.4008"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"8c0f4e42-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	TRUE
"5222"	"SRRM3"	222183	"mskcc.org"	"GRCh37"	"7"	75912537	75912537	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs3839766"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1733+126delG"	""	""	"ENST00000326382"	""	37	"."	17	5	"."	0	"SRRM3,intron_variant,,ENST00000388802,;SRRM3,intron_variant,,ENST00000326382,NM_001110199.1;SRRM3,intron_variant,,ENST00000413003,;SRRM3,downstream_gene_variant,,ENST00000479284,;"	"-"	"ENSG00000177679"	"ENST00000326382"	"Transcript"	"intron_variant"	"-/3611"	"-/1794"	"-/597"	""	""	"rs3839766"	"1"	NA	1	"SRRM3"	"HGNC"	26729	"protein_coding"	"YES"	""	"ENSP00000325298"	"A6NNA2"	""	"UPI0000E5ADAA"	"NM_001110199.1"	NA	NA	""	"14/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"7181776c-280f-11e6-bf94-0b33424a729f"	"1020"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.459459459459459	"WXS"	FALSE
"5223"	"DTX2"	113878	"mskcc.org"	"GRCh37"	"7"	76116201	76116202	"+"	"Intron"	"INS"	"-"	"-"	"TGCTGCTGCTGCTGCTGCTGCTGCTTT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.908+3740_908+3741insTGCTGCTGCTGCTGCTGCTGCTTTTGC"	""	""	"ENST00000324432"	""	99	"."	5	18	"."	0	"DTX2,intron_variant,,ENST00000324432,NM_020892.2;DTX2,intron_variant,,ENST00000307569,;DTX2,intron_variant,,ENST00000430490,NM_001102594.1;DTX2,intron_variant,,ENST00000413936,NM_001102595.1;DTX2,intron_variant,,ENST00000446600,;DTX2,intron_variant,,ENST00000446820,NM_001102596.1;DTX2,downstream_gene_variant,,ENST00000423646,;DTX2,downstream_gene_variant,,ENST00000429179,;DTX2,downstream_gene_variant,,ENST00000472426,;"	"TGCTGCTGCTGCTGCTGCTGCTGCTTT"	"ENSG00000091073"	"ENST00000324432"	"Transcript"	"intron_variant"	"-/2769"	"-/1869"	"-/622"	""	""	""	"1"	NA	1	"DTX2"	"HGNC"	15973	"protein_coding"	"YES"	"CCDS5587.1"	"ENSP00000322885"	"Q86UW9"	"Q75MM6,Q4FEB2,E7ET89,C9JY61,C9JVC8,C9JS11,C9JLU8,C9JII1,C9JF39,C9JEH4"	"UPI00001413A2"	"NM_020892.2"	NA	NA	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"8c3dd8de-280f-11e6-bf94-0b33424a729f"	"121"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0505050505050505	"WXS"	FALSE
"5224"	"DTX2"	113878	"mskcc.org"	"GRCh37"	"7"	76135366	76135367	"+"	"3'Flank"	"INS"	"-"	"-"	"CC"	"rs144733078"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000324432"	""	38	"."	3	17	"."	0	"DTX2,downstream_gene_variant,,ENST00000324432,NM_020892.2;DTX2,downstream_gene_variant,,ENST00000307569,;DTX2,downstream_gene_variant,,ENST00000430490,NM_001102594.1;DTX2,downstream_gene_variant,,ENST00000413936,NM_001102595.1;DTX2,downstream_gene_variant,,ENST00000446600,;DTX2,downstream_gene_variant,,ENST00000446820,NM_001102596.1;UPK3B,upstream_gene_variant,,ENST00000419923,;UPK3B,upstream_gene_variant,,ENST00000448265,NM_182683.1,NM_030570.2;UPK3B,upstream_gene_variant,,ENST00000443097,;UPK3B,upstream_gene_variant,,ENST00000334348,NM_182684.1;UPK3B,upstream_gene_variant,,ENST00000257632,;UPK3B,upstream_gene_variant,,ENST00000394849,;DTX2,downstream_gene_variant,,ENST00000479915,;DTX2,downstream_gene_variant,,ENST00000468546,;DTX2,downstream_gene_variant,,ENST00000465488,;DTX2,downstream_gene_variant,,ENST00000435251,;UPK3B,upstream_gene_variant,,ENST00000490360,;DTX2,downstream_gene_variant,,ENST00000467729,;"	"CC"	"ENSG00000091073"	"ENST00000324432"	"Transcript"	"downstream_gene_variant"	"-/2769"	"-/1869"	"-/622"	""	""	"rs144733078"	"1"	"58"	1	"DTX2"	"HGNC"	15973	"protein_coding"	"YES"	"CCDS5587.1"	"ENSP00000322885"	"Q86UW9"	"Q75MM6,Q4FEB2,E7ET89,C9JY61,C9JVC8,C9JS11,C9JLU8,C9JII1,C9JF39,C9JEH4"	"UPI00001413A2"	"NM_020892.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"8c436506-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WXS"	FALSE
"5225"	"UPK3B"	80761	"mskcc.org"	"GRCh37"	"7"	76630607	76630608	"+"	"Intron"	"INS"	"-"	"-"	"CCGTTTCAC"	"rs201572107"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*221-17531_*221-17523dupGTTTCACCC"	""	""	"ENST00000419923"	""	34	"."	5	10	"."	0	"UPK3B,intron_variant,,ENST00000419923,;UPK3B,intron_variant,,ENST00000443097,;DTX2P1-UPK3BP1-PMS2P11,intron_variant,,ENST00000584900,;DTX2P1-UPK3BP1-PMS2P11,intron_variant,,ENST00000579700,;DTX2P1,intron_variant,,ENST00000425797,;DTX2P1,intron_variant,,ENST00000440837,;DTX2P1,intron_variant,,ENST00000162863,;UPK3BP1,upstream_gene_variant,,ENST00000428678,;"	"CCGTTTCAC"	"ENSG00000243566"	"ENST00000419923"	"Transcript"	"intron_variant"	"-/1608"	"-/963"	"-/320"	""	""	"rs201572107"	"1"	NA	1	"UPK3B"	"HGNC"	21444	"protein_coding"	"YES"	"CCDS5588.1"	"ENSP00000441602"	"Q9BT76"	""	"UPI00001AE7A4"	""	NA	NA	""	"5/5"	""	"-:0.3796"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"11"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"8c4d0bd8-280f-11e6-bf94-0b33424a729f"	"156"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WXS"	FALSE
"5226"	"CCDC146"	57639	"mskcc.org"	"GRCh37"	"7"	76902824	76902827	"+"	"Intron"	"DEL"	"TTTA"	"TTTA"	"-"	"rs150662330"	NA	"JHCCPT5"	"JHCCPN5"	"TTTA"	"TTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1174-160_1174-157delATTT"	""	""	"ENST00000285871"	""	12	"."	5	2	"."	0	"CCDC146,intron_variant,,ENST00000285871,NM_020879.2;CCDC146,intron_variant,,ENST00000431197,;CCDC146,intron_variant,,ENST00000415740,;"	"-"	"ENSG00000135205"	"ENST00000285871"	"Transcript"	"intron_variant"	"-/3333"	"-/2868"	"-/955"	""	""	"rs150662330"	"1"	NA	1	"CCDC146"	"HGNC"	29296	"protein_coding"	"YES"	"CCDS34671.1"	"ENSP00000285871"	"Q8IYE0"	"Q7Z4Q3"	"UPI000020F44F"	"NM_020879.2"	NA	NA	""	"9/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"27"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTTTAT"	"71a8777c-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"5227"	"RSBN1L"	222194	"mskcc.org"	"GRCh37"	"7"	77378214	77378217	"+"	"Intron"	"DEL"	"GTCT"	"GTCT"	"-"	"rs77607499"	NA	"JHCCPT5"	"JHCCPN5"	"GTCT"	"GTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.704-511_704-508delGTCT"	""	""	"ENST00000334955"	""	8	"."	3	2	"."	0	"RSBN1L,intron_variant,,ENST00000334955,NM_198467.2;RSBN1L,intron_variant,,ENST00000445288,;"	"-"	"ENSG00000187257"	"ENST00000334955"	"Transcript"	"intron_variant"	"-/6422"	"-/2541"	"-/846"	""	""	"rs77607499"	"1"	NA	1	"RSBN1L"	"HGNC"	24765	"protein_coding"	"YES"	"CCDS43607.1"	"ENSP00000334040"	"Q6PCB5"	"C9JM20"	"UPI000020F469"	"NM_198467.2"	NA	NA	""	"2/7"	""	"GTCT:0.4353"	"-:0.8684"	"-:0.4352"	NA	"-:0.3095"	"-:0.5119"	"-:0.5634"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"16"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGTCTG"	"71d33c50-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"5228"	"HGF"	3082	"mskcc.org"	"GRCh37"	"7"	81366210	81366211	"+"	"Intron"	"INS"	"-"	"-"	"GTGTGTGTGT"	"rs368271908"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.865+6449_865+6458dupACACACACAC"	""	""	"ENST00000222390"	""	56	"."	7	21	"."	0	"HGF,intron_variant,,ENST00000222390,NM_000601.4;HGF,intron_variant,,ENST00000457544,NM_001010932.1;"	"GTGTGTGTGT"	"ENSG00000019991"	"ENST00000222390"	"Transcript"	"intron_variant"	"-/5989"	"-/2187"	"-/728"	""	""	"rs368271908"	"1"	NA	-1	"HGF"	"HGNC"	4893	"protein_coding"	"YES"	"CCDS5597.1"	"ENSP00000222390"	"P14210"	"C9JS80,C9JDP4"	"UPI000000D92B"	"NM_000601.4"	NA	NA	""	"7/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"8c921494-280f-11e6-bf94-0b33424a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"5229"	"SEMA3E"	9723	"mskcc.org"	"GRCh37"	"7"	83016663	83016665	"+"	"Intron"	"DEL"	"TCT"	"TCT"	"-"	"rs76917252"	NA	"JHCCPT5"	"JHCCPN5"	"TCT"	"TCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1668-299_1668-297delAGA"	""	""	"ENST00000307792"	""	11	"."	5	2	"."	0	"SEMA3E,intron_variant,,ENST00000307792,NM_012431.2;SEMA3E,intron_variant,,ENST00000427262,NM_001178129.1;"	"-"	"ENSG00000170381"	"ENST00000307792"	"Transcript"	"intron_variant"	"-/6476"	"-/2328"	"-/775"	""	""	"rs76917252"	"1"	NA	-1	"SEMA3E"	"HGNC"	10727	"protein_coding"	"YES"	"CCDS34674.1"	"ENSP00000303212"	"O15041"	"F8WCZ5,C9JVH5"	"UPI0000135A68"	"NM_012431.2"	NA	NA	""	"14/16"	""	"-:0.0859"	"-:0.087"	"-:0.1023"	NA	"-:0.004"	"-:0.1491"	"-:0.092"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AATCTT"	"724bc54e-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"5230"	"SEMA3E"	9723	"mskcc.org"	"GRCh37"	"7"	83054538	83054539	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs144944302"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.457-6740dupT"	""	""	"ENST00000307792"	""	10	"."	3	2	"."	0	"SEMA3E,intron_variant,,ENST00000307792,NM_012431.2;SEMA3E,intron_variant,,ENST00000427262,NM_001178129.1;SEMA3E,intron_variant,,ENST00000442159,;AC079987.2,downstream_gene_variant,,ENST00000420181,;"	"A"	"ENSG00000170381"	"ENST00000307792"	"Transcript"	"intron_variant"	"-/6476"	"-/2328"	"-/775"	""	""	"rs144944302"	"1"	NA	-1	"SEMA3E"	"HGNC"	10727	"protein_coding"	"YES"	"CCDS34674.1"	"ENSP00000303212"	"O15041"	"F8WCZ5,C9JVH5"	"UPI0000135A68"	"NM_012431.2"	NA	NA	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"8cc7c062-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"5231"	"SEMA3E"	9723	"mskcc.org"	"GRCh37"	"7"	83119063	83119063	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs35079129"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.276+367delT"	""	""	"ENST00000307792"	""	9	"."	6	1	"."	0	"SEMA3E,intron_variant,,ENST00000307792,NM_012431.2;SEMA3E,intron_variant,,ENST00000427262,NM_001178129.1;SEMA3E,intron_variant,,ENST00000442159,;SEMA3E,downstream_gene_variant,,ENST00000453333,;"	"-"	"ENSG00000170381"	"ENST00000307792"	"Transcript"	"intron_variant"	"-/6476"	"-/2328"	"-/775"	""	""	"rs35079129"	"1"	NA	-1	"SEMA3E"	"HGNC"	10727	"protein_coding"	"YES"	"CCDS34674.1"	"ENSP00000303212"	"O15041"	"F8WCZ5,C9JVH5"	"UPI0000135A68"	"NM_012431.2"	NA	NA	""	"2/16"	""	"A:0.0679"	"-:0.8033"	"-:0.9712"	NA	"-:0.999"	"-:0.9751"	"-:0.9652"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTAA"	"725c754c-280f-11e6-bf94-0b33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5232"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	85989050	85989051	"+"	"IGR"	"INS"	"-"	"-"	"GCAGGGGGCAGCGGT"	"rs145368698"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"."	10	2	"."	0	""	"GCAGGGGGCAGCGGT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145368698"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"GCAGGGGGCAGCGGT:0.4237"	"GCAGGGGGCAGCGGT:0.4297"	"GCAGGGGGCAGCGGT:0.4798"	NA	"GCAGGGGGCAGCGGT:0.2956"	"GCAGGGGGCAGCGGT:0.5427"	"GCAGGGGGCAGCGGT:0.3855"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"8cda20a4-280f-11e6-bf94-0b33424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5233"	"GRM3"	2913	"mskcc.org"	"GRCh37"	"7"	86416872	86416873	"+"	"Intron"	"INS"	"-"	"-"	"AGAGAG"	"rs140970752"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1324+456_1324+461dupGAGAGA"	""	""	"ENST00000361669"	""	9	"."	4	3	"."	0	"GRM3,intron_variant,,ENST00000361669,NM_000840.2;GRM3,intron_variant,,ENST00000536043,;GRM3,intron_variant,,ENST00000546348,;GRM3,intron_variant,,ENST00000394720,;GRM3,intron_variant,,ENST00000439827,;GRM3,downstream_gene_variant,,ENST00000454217,;AC005009.2,upstream_gene_variant,,ENST00000452471,;AC005009.2,upstream_gene_variant,,ENST00000418031,;"	"AGAGAG"	"ENSG00000198822"	"ENST00000361669"	"Transcript"	"intron_variant"	"-/4268"	"-/2640"	"-/879"	""	""	"rs140970752"	"1"	NA	1	"GRM3"	"HGNC"	4595	"protein_coding"	"YES"	"CCDS5600.1"	"ENSP00000355316"	"Q14832"	"C9JUH9,C9JIT1,A4D1D0"	"UPI0000153EFC"	"NM_000840.2"	NA	NA	""	"3/5"	""	"AGAGAG:0.1849"	"AGAGAG:0.1021"	"AGAGAG:0.1787"	NA	"AGAGAG:0.1984"	"AGAGAG:0.2227"	"AGAGAG:0.2485"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"21"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"8cdbb888-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"5234"	"ABCB4"	5244	"mskcc.org"	"GRCh37"	"7"	87049112	87049113	"+"	"Intron"	"DEL"	"AC"	"AC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2394+201_2394+202delGT"	""	""	"ENST00000265723"	""	45	"."	3	8	"."	0	"ABCB4,intron_variant,,ENST00000265723,NM_000443.3,NM_018849.2;ABCB4,intron_variant,,ENST00000359206,;ABCB4,intron_variant,,ENST00000545634,;ABCB4,intron_variant,,ENST00000358400,NM_018850.2;ABCB4,intron_variant,,ENST00000453593,;ABCB4,downstream_gene_variant,,ENST00000469770,;"	"-"	"ENSG00000005471"	"ENST00000265723"	"Transcript"	"intron_variant"	"-/4020"	"-/3861"	"-/1286"	""	""	""	"1"	NA	-1	"ABCB4"	"HGNC"	45	"protein_coding"	"YES"	"CCDS5606.1"	"ENSP00000265723"	"P21439"	"Q75MQ5,I7D7J8,I7CY13,I7CAJ8,E7EQI1,A8HT68,A7J1S3,A7J1S1,A7J1Q4"	"UPI000013D66B"	"NM_000443.3,NM_018849.2"	NA	NA	""	"19/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAACA"	"72a7fb02-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WXS"	FALSE
"5235"	"ADAM22"	53616	"mskcc.org"	"GRCh37"	"7"	87759447	87759447	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35644138"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.754-251delT"	""	""	"ENST00000265727"	""	28	"."	6	7	"."	0	"ADAM22,intron_variant,,ENST00000398204,NM_021723.3,NM_016351.4;ADAM22,intron_variant,,ENST00000398209,NM_021722.4;ADAM22,intron_variant,,ENST00000315984,;ADAM22,intron_variant,,ENST00000265727,;ADAM22,intron_variant,,ENST00000398201,NM_004194.3,NM_021721.3;ADAM22,intron_variant,,ENST00000398203,;ADAM22,intron_variant,,ENST00000439864,;ADAM22,intron_variant,,ENST00000478920,;"	"-"	"ENSG00000008277"	"ENST00000265727"	"Transcript"	"intron_variant"	"-/2891"	"-/2721"	"-/906"	""	""	"rs35644138"	"1"	NA	1	"ADAM22"	"HGNC"	201	"protein_coding"	"YES"	"CCDS47637.1"	"ENSP00000265727"	"Q9P0K1"	"Q9UKK0,Q86UM2,Q75MS7,F8WAD8,D6W5P7"	"UPI00001254DC"	""	NA	NA	""	"9/30"	""	"T:0.4856"	"-:0.1831"	"-:0.5259"	NA	"-:0.871"	"-:0.4195"	"-:0.684"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"72cad00a-280f-11e6-bf94-0b33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WXS"	FALSE
"5236"	"STEAP1"	26872	"mskcc.org"	"GRCh37"	"7"	89783699	89783711	"+"	"5'UTR"	"DEL"	"GGCGCCAGCAGGT"	"GGCGCCAGCAGGT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GGCGCCAGCAGGT"	"GGCGCCAGCAGGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-185_-173delCAGCAGGTGGCGC"	""	""	"ENST00000297205"	"1/5"	142	"."	35	67	"."	0	"STEAP1,5_prime_UTR_variant,,ENST00000297205,NM_012449.2;STEAP2-AS1,intron_variant,,ENST00000478318,;STEAP1,upstream_gene_variant,,ENST00000475789,;"	"-"	"ENSG00000164647"	"ENST00000297205"	"Transcript"	"5_prime_UTR_variant"	"11-23/1313"	"-/1020"	"-/339"	""	""	""	"1"	NA	1	"STEAP1"	"HGNC"	11378	"protein_coding"	"YES"	"CCDS5614.1"	"ENSP00000297205"	"Q9UHE8"	""	"UPI000003C398"	"NM_012449.2"	NA	NA	"1/5"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGGCGCCAGCAGGTG"	"72e5379c-280f-11e6-bf94-0b33424a729f"	"2085"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246478873239437	"WXS"	FALSE
"5237"	"STEAP1"	26872	"mskcc.org"	"GRCh37"	"7"	89783702	89783717	"+"	"5'UTR"	"DEL"	"GCCAGCAGGTGGCGCT"	"GCCAGCAGGTGGCGCT"	"TGG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GCCAGCAGGTGGCGCT"	"GCCAGCAGGTGGCGCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-187_-172delGCCAGCAGGTGGCGCTinsTGG"	""	""	"ENST00000297205"	"1/5"	144	"."	11	68	"."	0	"STEAP1,5_prime_UTR_variant,,ENST00000297205,NM_012449.2;STEAP2-AS1,intron_variant,,ENST00000478318,;STEAP1,upstream_gene_variant,,ENST00000475789,;"	"TGG"	"ENSG00000164647"	"ENST00000297205"	"Transcript"	"5_prime_UTR_variant"	"14-29/1313"	"-/1020"	"-/339"	""	""	""	"1"	NA	1	"STEAP1"	"HGNC"	11378	"protein_coding"	"YES"	"CCDS5614.1"	"ENSP00000297205"	"Q9UHE8"	""	"UPI000003C398"	"NM_012449.2"	NA	NA	"1/5"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCGCCAGCAGGTGGCGCTG"	"82f0bc2e-280f-11e6-bf94-0b33424a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0763888888888889	"WXS"	FALSE
"5238"	"CDK14"	5218	"mskcc.org"	"GRCh37"	"7"	90456282	90456283	"+"	"Intron"	"INS"	"-"	"-"	"TATC"	"rs113019549"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.491-36206_491-36205insTCTA"	""	""	"ENST00000265741"	""	6	"."	4	2	"."	0	"CDK14,intron_variant,,ENST00000406263,NM_001287136.1;CDK14,intron_variant,,ENST00000380050,NM_001287137.1,NM_001287135.1;CDK14,intron_variant,,ENST00000265741,NM_012395.2;CDK14,intron_variant,,ENST00000436577,;CDK14,intron_variant,,ENST00000487145,;CDK14,intron_variant,,ENST00000431029,;"	"TATC"	"ENSG00000058091"	"ENST00000265741"	"Transcript"	"intron_variant"	"-/4953"	"-/1356"	"-/451"	""	""	"rs113019549"	"1"	NA	1	"CDK14"	"HGNC"	8883	"protein_coding"	"YES"	"CCDS5619.1"	"ENSP00000265741"	"O94921"	"C9JWL6,C9IYJ9"	"UPI0000161B93"	"NM_012395.2"	NA	NA	""	"4/13"	""	"-:0.0459"	"TATC:0.9917"	"TATC:0.9337"	NA	"TATC:0.999"	"TATC:0.8887"	"TATC:0.9387"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8d1badb2-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5239"	"AKAP9"	10142	"mskcc.org"	"GRCh37"	"7"	91569885	91569886	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs5885795"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000356239"	""	12	"."	4	2	"."	0	"AKAP9,upstream_gene_variant,,ENST00000359028,;AKAP9,upstream_gene_variant,,ENST00000356239,NM_147185.2,NM_005751.4;AKAP9,upstream_gene_variant,,ENST00000358100,;AKAP9,upstream_gene_variant,,ENST00000394564,;AKAP9,upstream_gene_variant,,ENST00000493453,;"	"A"	"ENSG00000127914"	"ENST00000356239"	"Transcript"	"upstream_gene_variant"	"-/12471"	"-/11724"	"-/3907"	""	""	"rs5885795"	"1"	"295"	1	"AKAP9"	"HGNC"	379	"protein_coding"	"YES"	"CCDS5622.1"	"ENSP00000348573"	"Q99996"	"Q8IW64"	"UPI000002A38D"	"NM_147185.2,NM_005751.4"	NA	NA	""	""	""	"-:0.4295"	"A:0.3419"	"A:0.6225"	NA	"A:0.8056"	"A:0.6014"	"A:0.5685"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"8d25b168-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	TRUE
"5240"	"AKAP9"	10142	"mskcc.org"	"GRCh37"	"7"	91699716	91699725	"+"	"Intron"	"DEL"	"TTGTTTTGTT"	"TTGTTTTGTT"	"-"	"rs200298912"	NA	"JHCCPT5"	"JHCCPN5"	"TTGTTTTGTT"	"TTGTTTTGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6507+233_6507+242delGTTTTGTTTT"	""	""	"ENST00000356239"	""	23	"."	3	11	"."	0	"AKAP9,intron_variant,,ENST00000359028,;AKAP9,intron_variant,,ENST00000356239,NM_147185.2,NM_005751.4;AKAP9,intron_variant,,ENST00000358100,;AKAP9,intron_variant,,ENST00000394534,;AKAP9,downstream_gene_variant,,ENST00000491695,;"	"-"	"ENSG00000127914"	"ENST00000356239"	"Transcript"	"intron_variant"	"-/12471"	"-/11724"	"-/3907"	""	""	"rs200298912"	"1"	NA	1	"AKAP9"	"HGNC"	379	"protein_coding"	"YES"	"CCDS5622.1"	"ENSP00000348573"	"Q99996"	"Q8IW64"	"UPI000002A38D"	"NM_147185.2,NM_005751.4"	NA	NA	""	"27/49"	""	"TTGTTTTGTT:0.4382"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"37"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTTGTTTTGTTT"	"731c7072-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	TRUE
"5241"	"AKAP9"	10142	"mskcc.org"	"GRCh37"	"7"	91700642	91700643	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs61225847"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6612+323_6612+324delAT"	""	""	"ENST00000356239"	""	12	"."	4	8	"."	0	"AKAP9,intron_variant,,ENST00000359028,;AKAP9,intron_variant,,ENST00000356239,NM_147185.2,NM_005751.4;AKAP9,intron_variant,,ENST00000358100,;AKAP9,intron_variant,,ENST00000394534,;"	"-"	"ENSG00000127914"	"ENST00000356239"	"Transcript"	"intron_variant"	"-/12471"	"-/11724"	"-/3907"	""	""	"rs61225847"	"1"	NA	1	"AKAP9"	"HGNC"	379	"protein_coding"	"YES"	"CCDS5622.1"	"ENSP00000348573"	"Q99996"	"Q8IW64"	"UPI000002A38D"	"NM_147185.2,NM_005751.4"	NA	NA	""	"28/49"	""	"-:0.4241"	"-:0.6634"	"-:0.3689"	NA	"-:0.1825"	"-:0.3867"	"-:0.4274"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAATA"	"732779c2-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	TRUE
"5242"	"AKAP9"	10142	"mskcc.org"	"GRCh37"	"7"	91738363	91738363	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs750151253"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.11686+416delG"	""	""	"ENST00000356239"	""	27	"."	3	4	"."	0	"AKAP9,3_prime_UTR_variant,,ENST00000394534,;AKAP9,intron_variant,,ENST00000359028,;AKAP9,intron_variant,,ENST00000356239,NM_147185.2,NM_005751.4;AKAP9,intron_variant,,ENST00000358100,;CYP51A1,downstream_gene_variant,,ENST00000003100,NM_000786.3;CYP51A1,downstream_gene_variant,,ENST00000450723,NM_001146152.1;CYP51A1,downstream_gene_variant,,ENST00000422867,;AKAP9,intron_variant,,ENST00000486313,;LRRD1,downstream_gene_variant,,ENST00000422722,;AKAP9,intron_variant,,ENST00000487258,;AKAP9,downstream_gene_variant,,ENST00000463118,;AKAP9,downstream_gene_variant,,ENST00000493976,;CYP51A1,downstream_gene_variant,,ENST00000482924,;"	"-"	"ENSG00000127914"	"ENST00000356239"	"Transcript"	"intron_variant"	"-/12471"	"-/11724"	"-/3907"	""	""	"rs750151253"	"1"	NA	1	"AKAP9"	"HGNC"	379	"protein_coding"	"YES"	"CCDS5622.1"	"ENSP00000348573"	"Q99996"	"Q8IW64"	"UPI000002A38D"	"NM_147185.2,NM_005751.4"	NA	NA	""	"49/49"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAGA"	"733327f4-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WXS"	TRUE
"5243"	"LRRD1"	401387	"mskcc.org"	"GRCh37"	"7"	91778364	91778365	"+"	"Intron"	"INS"	"-"	"G"	"G"	"rs11458077"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2278+1483_2278+1484insC"	""	""	"ENST00000458448"	""	7	"."	5	1	"."	0	"LRRD1,intron_variant,,ENST00000458448,;LRRD1,intron_variant,,ENST00000430130,NM_001161528.1;LRRD1,intron_variant,,ENST00000343318,;LRRD1,downstream_gene_variant,,ENST00000454089,;CTB-161K23.1,intron_variant,,ENST00000453068,;LRRD1,intron_variant,,ENST00000422722,;"	"G"	"ENSG00000240720"	"ENST00000458448"	"Transcript"	"intron_variant"	"-/2830"	"-/2583"	"-/860"	""	""	"rs11458077"	"1"	NA	-1	"LRRD1"	"HGNC"	34300	"protein_coding"	"YES"	"CCDS55124.1"	"ENSP00000405987"	"A4D1F6"	"C9K0I1"	"UPI0001662314"	""	NA	NA	""	"4/5"	""	"-:0.4036"	"G:0.8298"	"G:0.4942"	NA	"G:0.5288"	"G:0.4751"	"G:0.5481"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"8d4c7e4c-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"5244"	"CASD1"	64921	"mskcc.org"	"GRCh37"	"7"	94157599	94157599	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.459+37delA"	""	""	"ENST00000297273"	""	143	"."	4	28	"."	0	"CASD1,intron_variant,,ENST00000297273,NM_022900.4;CASD1,intron_variant,,ENST00000447923,;CASD1,intron_variant,,ENST00000443644,;CASD1,downstream_gene_variant,,ENST00000417387,;"	"-"	"ENSG00000127995"	"ENST00000297273"	"Transcript"	"intron_variant"	"-/3942"	"-/2394"	"-/797"	""	""	""	"1"	NA	1	"CASD1"	"HGNC"	16014	"protein_coding"	"YES"	"CCDS5636.1"	"ENSP00000297273"	"Q96PB1"	"C9JDR3"	"UPI0000070404"	"NM_022900.4"	NA	NA	""	"5/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAT"	"73c9f292-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.027972027972028	"WXS"	FALSE
"5245"	"PDK4"	5166	"mskcc.org"	"GRCh37"	"7"	95214609	95214609	"+"	"3'UTR"	"DEL"	"T"	"T"	"-"	"rs3214118"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*344delA"	""	""	"ENST00000005178"	"11/11"	15	"."	3	5	"."	0	"PDK4,3_prime_UTR_variant,,ENST00000005178,NM_002612.3;PDK4,non_coding_transcript_exon_variant,,ENST00000473796,;PDK4,downstream_gene_variant,,ENST00000468445,;PDK4,downstream_gene_variant,,ENST00000498190,;"	"-"	"ENSG00000004799"	"ENST00000005178"	"Transcript"	"3_prime_UTR_variant"	"1778/3576"	"-/1236"	"-/411"	""	""	"rs3214118"	"1"	NA	-1	"PDK4"	"HGNC"	8812	"protein_coding"	"YES"	"CCDS5643.1"	"ENSP00000005178"	"Q16654"	"B3KUX1,B3KU25,A4D1H4"	"UPI000000D984"	"NM_002612.3"	NA	NA	"11/11"	""	""	"T:0.4445"	"-:0.5923"	"-:0.3343"	NA	"-:0.8631"	"-:0.4483"	"-:0.456"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"73fa8cb8-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"5246"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	97684880	97684889	"+"	"IGR"	"DEL"	"AGAAAGAAAG"	"AGAAAGAAAG"	"-"	"rs143505894"	NA	"JHCCPT5"	"JHCCPN5"	"AGAAAGAAAG"	"AGAAAGAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	4	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143505894"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGAAAGAAAGA"	"7424beb6-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WXS"	FALSE
"5247"	"BAIAP2L1"	55971	"mskcc.org"	"GRCh37"	"7"	97939998	97939999	"+"	"Intron"	"INS"	"-"	"-"	"TATTTATT"	"rs139666268"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.808-102_808-95dupAATAAATA"	""	""	"ENST00000005260"	""	40	"."	5	18	"."	0	"BAIAP2L1,intron_variant,,ENST00000005260,NM_018842.4;RP4-607J23.2,downstream_gene_variant,,ENST00000608882,;RP4-607J23.2,downstream_gene_variant,,ENST00000609873,;BAIAP2L1,intron_variant,,ENST00000462558,;BRI3,downstream_gene_variant,,ENST00000485422,;BAIAP2L1,upstream_gene_variant,,ENST00000480580,;BRI3,downstream_gene_variant,,ENST00000491463,;"	"TATTTATT"	"ENSG00000006453"	"ENST00000005260"	"Transcript"	"intron_variant"	"-/3622"	"-/1536"	"-/511"	""	""	"rs139666268"	"1"	NA	-1	"BAIAP2L1"	"HGNC"	21649	"protein_coding"	"YES"	"CCDS34687.1"	"ENSP00000005260"	"Q9UHR4"	""	"UPI0000035DA9"	"NM_018842.4"	NA	NA	""	"8/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"8da77176-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WXS"	FALSE
"5248"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	98432989	98432990	"+"	"IGR"	"INS"	"-"	"T"	"T"	"rs35900931"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35900931"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0202"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"8db83b14-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"5249"	"TMEM130"	222865	"mskcc.org"	"GRCh37"	"7"	98468195	98468196	"+"	"5'Flank"	"INS"	"-"	"-"	"TGCTGC"	"rs139424382"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000416379"	""	37	"."	4	9	"."	0	"TMEM130,5_prime_UTR_variant,,ENST00000445790,;TMEM130,upstream_gene_variant,,ENST00000450876,;TMEM130,upstream_gene_variant,,ENST00000339375,NM_001134450.1,NM_152913.2;TMEM130,upstream_gene_variant,,ENST00000416379,;TMEM130,upstream_gene_variant,,ENST00000345589,NM_001134451.1;TMEM130,upstream_gene_variant,,ENST00000546258,;TMEM130,upstream_gene_variant,,ENST00000461092,;TMEM130,upstream_gene_variant,,ENST00000486839,;"	"TGCTGC"	"ENSG00000166448"	"ENST00000416379"	"Transcript"	"upstream_gene_variant"	"-/2881"	"-/1308"	"-/435"	""	""	"rs139424382"	"1"	"706"	-1	"TMEM130"	"HGNC"	25429	"protein_coding"	"YES"	"CCDS47650.1"	"ENSP00000413163"	"Q8N3G9"	"C9JQV5"	"UPI000006EF2E"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"8dbfe210-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WXS"	FALSE
"5250"	"ZAN"	7455	"mskcc.org"	"GRCh37"	"7"	100366706	100366707	"+"	"Intron"	"INS"	"-"	"-"	"TTTTG"	"rs148527571"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5153+380_5153+384dupTTGTT"	""	""	"ENST00000546292"	""	10	"."	4	5	"."	0	"ZAN,intron_variant,,ENST00000542585,NM_003386.1;ZAN,intron_variant,,ENST00000538115,;ZAN,intron_variant,,ENST00000546292,NM_173059.1;ZAN,intron_variant,,ENST00000546213,;ZAN,intron_variant,,ENST00000427578,;ZAN,intron_variant,,ENST00000449052,;ZAN,intron_variant,,ENST00000349350,;ZAN,intron_variant,,ENST00000443370,;ZAN,intron_variant,,ENST00000421100,;ZAN,intron_variant,,ENST00000348028,;"	"TTTTG"	"ENSG00000146839"	"ENST00000546292"	"Transcript"	"intron_variant"	"-/8375"	"-/8163"	"-/2720"	""	""	"rs148527571"	"1"	NA	1	"ZAN"	"HGNC"	12857	"protein_coding"	"YES"	""	"ENSP00000445943"	""	"F5H0T8"	"UPI00004575C6"	"NM_173059.1"	NA	NA	""	"26/45"	""	"TTTTG:0.1993"	"TTTTG:0.0946"	"TTTTG:0.2003"	NA	"TTTTG:0.2669"	"TTTTG:0.2386"	"TTTTG:0.2301"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"22"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"8e6ad0bc-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"5251"	"EPHB4"	2050	"mskcc.org"	"GRCh37"	"7"	100416921	100416922	"+"	"Intron"	"INS"	"-"	"-"	"AGA"	"rs553187163"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1297+255_1297+257dupTCT"	""	""	"ENST00000358173"	""	14	"."	4	9	"."	0	"EPHB4,intron_variant,,ENST00000358173,NM_004444.4;EPHB4,intron_variant,,ENST00000360620,;RN7SL750P,downstream_gene_variant,,ENST00000582814,;EPHB4,intron_variant,,ENST00000477446,;EPHB4,intron_variant,,ENST00000489808,;EPHB4,intron_variant,,ENST00000487222,;EPHB4,intron_variant,,ENST00000492878,;"	"AGA"	"ENSG00000196411"	"ENST00000358173"	"Transcript"	"intron_variant"	"-/4329"	"-/2964"	"-/987"	""	""	"rs553187163"	"1"	NA	-1	"EPHB4"	"HGNC"	3395	"protein_coding"	"YES"	"CCDS5706.1"	"ENSP00000350896"	"P54760"	"Q541P7"	"UPI0000000DBB"	"NM_004444.4"	NA	NA	""	"6/16"	""	"-:0.4363"	"AGA:0.407"	"AGA:0.6671"	NA	"AGA:0.6389"	"AGA:0.6282"	"AGA:0.5583"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"8e72e07c-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"5252"	"SLC12A9"	56996	"mskcc.org"	"GRCh37"	"7"	100452921	100452922	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11376733"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.317-404dupT"	""	""	"ENST00000354161"	""	15	"."	8	4	"."	0	"SLC12A9,intron_variant,,ENST00000354161,NM_020246.3;SLC12A9,intron_variant,,ENST00000540482,NM_001267812.1;SLC12A9,intron_variant,,ENST00000428758,;SLC12A9,intron_variant,,ENST00000415287,NM_001267814.1;SLC12A9,intron_variant,,ENST00000275729,;SLC12A9,intron_variant,,ENST00000418037,;SLC12A9,intron_variant,,ENST00000416675,;SLC12A9,intron_variant,,ENST00000434158,;RP11-126L15.4,upstream_gene_variant,,ENST00000412754,;SLC12A9,intron_variant,,ENST00000461016,;SLC12A9,upstream_gene_variant,,ENST00000475623,;SLC12A9,intron_variant,,ENST00000448342,;SLC12A9,intron_variant,,ENST00000462106,;SLC12A9,upstream_gene_variant,,ENST00000487651,;SLC12A9,upstream_gene_variant,,ENST00000467972,;SLC12A9,upstream_gene_variant,,ENST00000475687,;SLC12A9,upstream_gene_variant,,ENST00000497958,;"	"T"	"ENSG00000146828"	"ENST00000354161"	"Transcript"	"intron_variant"	"-/3273"	"-/2745"	"-/914"	""	""	"rs11376733"	"1"	NA	1	"SLC12A9"	"HGNC"	17435	"protein_coding"	"YES"	"CCDS5707.1"	"ENSP00000275730"	"Q9BXP2"	"D6W5X5,D6W5X3,C9JMQ7,C9J0I5"	"UPI000006CD28"	"NM_020246.3"	NA	NA	""	"3/13"	""	"-:0.0000"	"T:1"	"T:1"	NA	"T:1"	"T:1"	"T:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"8e7abacc-280f-11e6-bf94-0b33424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.533333333333333	"WXS"	FALSE
"5253"	"MUC3A"	57876	"mskcc.org"	"GRCh37"	"7"	100607331	100607332	"+"	"Intron"	"INS"	"-"	"-"	"TAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1893-393_1893-391dupTAA"	""	""	"ENST00000319509"	""	11	"."	4	3	"."	0	"MUC3A,intron_variant,,ENST00000319509,;MUC3A,intron_variant,,ENST00000422757,;RP11-395B7.2,intron_variant,,ENST00000420080,;RP11-395B7.2,intron_variant,,ENST00000434775,;MUC3A,intron_variant,,ENST00000483133,;RP11-395B7.2,intron_variant,,ENST00000438198,;MUC3A,intron_variant,,ENST00000414964,;MUC3A,upstream_gene_variant,,ENST00000480291,;"	"TAA"	"ENSG00000169894"	"ENST00000319509"	"Transcript"	"intron_variant"	"-/3338"	"-/2631"	"-/876"	""	""	""	"1"	NA	1	"MUC3A"	"HGNC"	7513	"protein_coding"	"YES"	""	"ENSP00000324834"	""	"J3QST7,I0CMK2,H9XFA8"	"UPI000198CE7F"	""	NA	NA	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"24"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"8eb67f94-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"5254"	"COL26A1"	136227	"mskcc.org"	"GRCh37"	"7"	101106950	101106976	"+"	"Intron"	"DEL"	"TCCTCCCTCCCGTCCCCTTTCTTTCTT"	"TCCTCCCTCCCGTCCCCTTTCTTTCTT"	"CCCATCCCCTTTCTTTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TCCTCCCTCCCGTCCCCTTTCTTTCTT"	"TCCTCCCTCCCGTCCCCTTTCTTTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.385+15882_385+15908delTCCTCCCTCCCGTCCCCTTTCTTTCTTinsCCCATCCCCTTTCTTTC"	""	""	"ENST00000313669"	""	11	"."	3	1	"."	0	"COL26A1,intron_variant,,ENST00000313669,NM_001278563.1,NM_133457.3;COL26A1,intron_variant,,ENST00000397927,;COL26A1,intron_variant,,ENST00000528707,;"	"CCCATCCCCTTTCTTTC"	"ENSG00000160963"	"ENST00000313669"	"Transcript"	"intron_variant"	"-/3007"	"-/1323"	"-/440"	""	""	""	"1"	NA	1	"COL26A1"	"HGNC"	18038	"protein_coding"	"YES"	""	"ENSP00000318234"	""	"C9JPW4"	"UPI00004575C9"	"NM_001278563.1,NM_133457.3"	NA	NA	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTCCTCCCTCCCGTCCCCTTTCTTTCTTT"	"8302baf0-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"5255"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	101279616	101279617	"+"	"IGR"	"INS"	"-"	"-"	"GGAAGGAAGGAAGGAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	6	4	"."	0	""	"GGAAGGAAGGAAGGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"8f0dda3c-280f-11e6-bf94-0b33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"5256"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	101413874	101413875	"+"	"IGR"	"INS"	"-"	"-"	"TTTG"	"rs35921158"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	30	"."	6	9	"."	0	""	"TTTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35921158"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TTTG:0.4631"	"TTTG:0.6982"	"TTTG:0.3703"	NA	"TTTG:0.2341"	"TTTG:0.4612"	"TTTG:0.4489"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"8f127cf4-280f-11e6-bf94-0b33424a729f"	"345"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"5257"	"PRKRIP1"	79706	"mskcc.org"	"GRCh37"	"7"	102018898	102018899	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs376802709"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-436+2130dupC"	""	""	"ENST00000496391"	""	8	"."	6	2	"."	0	"PRKRIP1,intron_variant,,ENST00000496391,;PRKRIP1,intron_variant,,ENST00000462601,;PRKRIP1,intron_variant,,ENST00000482465,;PRKRIP1,intron_variant,,ENST00000469763,;PRKRIP1,intron_variant,,ENST00000482549,;PRKRIP1,intron_variant,,ENST00000477886,;RP11-163E9.2,intron_variant,,ENST00000492837,;RP11-163E9.2,intron_variant,,ENST00000484974,;RP11-163E9.2,downstream_gene_variant,,ENST00000476426,;RP11-163E9.1,downstream_gene_variant,,ENST00000426478,;"	"C"	"ENSG00000128563"	"ENST00000496391"	"Transcript"	"intron_variant"	"-/3430"	"-/555"	"-/184"	""	""	"rs376802709"	"1"	NA	1	"PRKRIP1"	"HGNC"	21894	"protein_coding"	"YES"	"CCDS34714.1"	"ENSP00000419270"	"Q9H875"	""	"UPI000003587A"	""	NA	NA	""	"4/9"	""	"-:0.0000"	"C:1"	"C:1"	NA	"C:1"	"C:1"	"C:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"8f49128c-280f-11e6-bf94-0b33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WXS"	FALSE
"5258"	"POLR2J2"	246721	"mskcc.org"	"GRCh37"	"7"	102276621	102276622	"+"	"3'Flank"	"DEL"	"AC"	"AC"	"-"	"rs201487844"	NA	"JHCCPT5"	"JHCCPN5"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000591000"	""	9	"."	3	2	"."	0	"POLR2J2,downstream_gene_variant,,ENST00000591000,NM_032959.5;UPK3BL,downstream_gene_variant,,ENST00000340457,NM_001114403.2;POLR2J2,downstream_gene_variant,,ENST00000333432,;RP11-514P8.6,intron_variant,,ENST00000519541,;POLR2J2,downstream_gene_variant,,ENST00000476151,;"	"-"	"ENSG00000228049"	"ENST00000591000"	"Transcript"	"downstream_gene_variant"	"-/1600"	"-/348"	"-/115"	""	""	"rs201487844"	"1"	"852"	-1	"POLR2J2"	"Clone_based_vega_gene"	23208	"protein_coding"	"YES"	"CCDS43627.1"	"ENSP00000466522"	""	"F6W009"	"UPI000020F7F2"	"NM_032959.5"	NA	NA	""	""	""	"-:0.4375"	"-:0.5106"	"-:0.4366"	NA	"-:0.381"	"-:0.4105"	"-:0.4254"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAACA"	"7718fc68-280f-11e6-bf94-0b33424a729f"	"67"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5259"	"FBXL13"	222235	"mskcc.org"	"GRCh37"	"7"	102522023	102522023	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs138064866"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1388+1729delC"	""	""	"ENST00000313221"	""	10	"."	6	2	"."	0	"FBXL13,intron_variant,,ENST00000393772,NM_001287150.1;FBXL13,intron_variant,,ENST00000379308,;FBXL13,intron_variant,,ENST00000313221,NM_145032.3;FBXL13,intron_variant,,ENST00000436908,;FBXL13,intron_variant,,ENST00000379305,;FBXL13,intron_variant,,ENST00000455112,NM_001111038.1;FBXL13,intron_variant,,ENST00000379306,;FBXL13,intron_variant,,ENST00000456695,;FBXL13,downstream_gene_variant,,ENST00000477915,;FBXL13,intron_variant,,ENST00000448002,;"	"-"	"ENSG00000161040"	"ENST00000313221"	"Transcript"	"intron_variant"	"-/2744"	"-/2208"	"-/735"	""	""	"rs138064866"	"1"	NA	-1	"FBXL13"	"HGNC"	21658	"protein_coding"	"YES"	"CCDS5726.1"	"ENSP00000321927"	"Q8NEE6"	""	"UPI000020F830"	"NM_145032.3"	NA	NA	""	"14/19"	""	"-:0.2181"	"-:0.4955"	"-:0.1859"	NA	"-:0.0099"	"-:0.1978"	"-:0.1012"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"77349e5a-280f-11e6-bf94-0b33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"5260"	"RINT1"	60561	"mskcc.org"	"GRCh37"	"7"	105170513	105170516	"+"	"5'Flank"	"DEL"	"TAAC"	"TAAC"	"-"	"rs141888395"	NA	"JHCCPT5"	"JHCCPN5"	"TAAC"	"TAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000257700"	""	22	"."	10	6	"."	0	"RINT1,upstream_gene_variant,,ENST00000257700,NM_021930.4;RINT1,upstream_gene_variant,,ENST00000493041,;RINT1,upstream_gene_variant,,ENST00000497979,;RINT1,upstream_gene_variant,,ENST00000467392,;RINT1,upstream_gene_variant,,ENST00000482041,;RP11-251G23.2,upstream_gene_variant,,ENST00000493920,;"	"-"	"ENSG00000135249"	"ENST00000257700"	"Transcript"	"upstream_gene_variant"	"-/2976"	"-/2379"	"-/792"	""	""	"rs141888395"	"1"	"2016"	1	"RINT1"	"HGNC"	21876	"protein_coding"	"YES"	"CCDS34726.1"	"ENSP00000257700"	"Q6NUQ1"	""	"UPI000020F898"	"NM_021930.4"	NA	NA	""	""	""	"-:0.1212"	"-:0.0189"	"-:0.1513"	NA	"-:0.0228"	"-:0.1909"	"-:0.2679"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATAACT"	"7831b77a-280f-11e6-bf94-0b33424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.454545454545455	"WXS"	FALSE
"5261"	"RINT1"	60561	"mskcc.org"	"GRCh37"	"7"	105206372	105206373	"+"	"Intron"	"INS"	"-"	"-"	"AATA"	"rs148318361"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2186+282_2186+285dupAATA"	""	""	"ENST00000257700"	""	12	"."	3	1	"."	0	"RINT1,intron_variant,,ENST00000257700,NM_021930.4;EFCAB10,intron_variant,,ENST00000485614,;EFCAB10,intron_variant,,ENST00000480514,;EFCAB10,downstream_gene_variant,,ENST00000486180,;EFCAB10,downstream_gene_variant,,ENST00000460135,;EFCAB10,intron_variant,,ENST00000469099,;EFCAB10,downstream_gene_variant,,ENST00000490493,;RINT1,intron_variant,,ENST00000497979,;"	"AATA"	"ENSG00000135249"	"ENST00000257700"	"Transcript"	"intron_variant"	"-/2976"	"-/2379"	"-/792"	""	""	"rs148318361"	"1"	NA	1	"RINT1"	"HGNC"	21876	"protein_coding"	"YES"	"CCDS34726.1"	"ENSP00000257700"	"Q6NUQ1"	""	"UPI000020F898"	"NM_021930.4"	NA	NA	""	"14/14"	""	"AATA:0.1134"	"AATA:0.1135"	"AATA:0.1153"	NA	"AATA:0.1468"	"AATA:0.1163"	"AATA:0.0746"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"8fbf1996-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"5262"	"BCAP29"	55973	"mskcc.org"	"GRCh37"	"7"	107234935	107234942	"+"	"Intron"	"DEL"	"TTTGTTTG"	"TTTGTTTG"	"-"	"rs571670807"	NA	"JHCCPT5"	"JHCCPN5"	"TTTGTTTG"	"TTTGTTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.344+404_344+411delGTTTGTTT"	""	""	"ENST00000379119"	""	6	"."	4	1	"."	0	"BCAP29,intron_variant,,ENST00000379119,NM_001008405.2;BCAP29,intron_variant,,ENST00000005259,NM_018844.3;BCAP29,intron_variant,,ENST00000379117,;BCAP29,intron_variant,,ENST00000445771,;BCAP29,intron_variant,,ENST00000379121,;BCAP29,intron_variant,,ENST00000436699,;BCAP29,intron_variant,,ENST00000457837,;BCAP29,intron_variant,,ENST00000465919,;BCAP29,intron_variant,,ENST00000491150,;BCAP29,intron_variant,,ENST00000479917,;BCAP29,intron_variant,,ENST00000421217,;BCAP29,intron_variant,,ENST00000494086,;BCAP29,intron_variant,,ENST00000482371,;BCAP29,intron_variant,,ENST00000442065,;BCAP29,downstream_gene_variant,,ENST00000486326,;BCAP29,upstream_gene_variant,,ENST00000490060,;"	"-"	"ENSG00000075790"	"ENST00000379119"	"Transcript"	"intron_variant"	"-/5773"	"-/1047"	"-/348"	""	""	"rs571670807"	"1"	NA	1	"BCAP29"	"HGNC"	24131	"protein_coding"	"YES"	"CCDS34730.1"	"ENSP00000368414"	"Q9UHQ4"	"C9JTE9,C9JP06,C9JGJ9,C9IYK6"	"UPI000049A621"	"NM_001008405.2"	NA	NA	""	"3/7"	""	"-:0.0242"	"-:0.025"	"-:0.0202"	NA	"-:0.001"	"-:0.0537"	"-:0.0194"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"19"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTTTGTTTGT"	"788726e2-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5263"	"CBLL1"	79872	"mskcc.org"	"GRCh37"	"7"	107392892	107392893	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.182-947_182-946delGT"	""	""	"ENST00000440859"	""	72	"."	3	53	"."	0	"CBLL1,intron_variant,,ENST00000440859,NM_024814.2;CBLL1,intron_variant,,ENST00000222597,NM_001284291.1;CBLL1,intron_variant,,ENST00000420796,;CBLL1,intron_variant,,ENST00000415884,;CBLL1,intron_variant,,ENST00000493361,;CBLL1,intron_variant,,ENST00000432748,;CBLL1,intron_variant,,ENST00000487517,;CBLL1,downstream_gene_variant,,ENST00000479443,;"	"-"	"ENSG00000105879"	"ENST00000440859"	"Transcript"	"intron_variant"	"-/4432"	"-/1476"	"-/491"	""	""	""	"1"	NA	1	"CBLL1"	"HGNC"	21225	"protein_coding"	"YES"	"CCDS5747.1"	"ENSP00000401277"	"Q75N03"	"C9J2P9,B4DDV7"	"UPI000006E5AC"	"NM_024814.2"	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGT"	"78a19a9a-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0416666666666667	"WXS"	FALSE
"5264"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	109420309	109420310	"+"	"IGR"	"INS"	"-"	"TC"	"TC"	"rs141747805"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	5	1	"."	0	""	"TC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs141747805"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0633"	"TC:0.7708"	"TC:0.9827"	NA	"TC:1"	"TC:1"	"TC:0.998"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"901e9db2-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"5265"	"AC002463.3"	101928012	"mskcc.org"	"GRCh37"	"7"	112262383	112262384	"+"	"5'Flank"	"INS"	"-"	"A"	"A"	"rs35102001"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000453459"	""	8	"."	8	2	"."	0	"AC002463.3,upstream_gene_variant,,ENST00000453459,;"	"A"	"ENSG00000223646"	"ENST00000453459"	"Transcript"	"upstream_gene_variant"	"-/1188"	""	""	""	""	"rs35102001"	"1"	"49"	1	"AC002463.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4954"	"A:0.3101"	"A:0.5144"	NA	"A:0.8274"	"A:0.3946"	"A:0.5409"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"9033d290-280f-11e6-bf94-0b33424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"5266"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	114961450	114961451	"+"	"IGR"	"INS"	"-"	"-"	"TCCC"	"rs138103125"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	2	"."	0	""	"TCCC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138103125"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"90468584-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"5267"	"ING3"	54556	"mskcc.org"	"GRCh37"	"7"	120590786	120590787	"+"	"5'Flank"	"INS"	"-"	"-"	"G"	"rs11408222"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000315870"	""	14	"."	4	9	"."	0	"ING3,upstream_gene_variant,,ENST00000315870,NM_019071.2;ING3,upstream_gene_variant,,ENST00000445699,;ING3,upstream_gene_variant,,ENST00000431467,;ING3,upstream_gene_variant,,ENST00000339121,NM_198267.1;ING3,upstream_gene_variant,,ENST00000427726,;"	"G"	"ENSG00000071243"	"ENST00000315870"	"Transcript"	"upstream_gene_variant"	"-/3777"	"-/1257"	"-/418"	""	""	"rs11408222"	"1"	"16"	1	"ING3"	"HGNC"	14587	"protein_coding"	"YES"	"CCDS5778.1"	"ENSP00000320566"	"Q9NXR8"	"E7ET07"	"UPI00000373B3"	"NM_019071.2"	NA	NA	""	""	""	"-:0.0000"	"G:1"	"G:1"	NA	"G:1"	"G:1"	"G:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"9083ae96-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"5268"	"WNT16"	51384	"mskcc.org"	"GRCh37"	"7"	120965718	120965719	"+"	"5'Flank"	"INS"	"-"	"-"	"AA"	"rs10629350"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000222462"	""	50	"."	10	6	"."	0	"WNT16,intron_variant,,ENST00000361301,NM_016087.2;WNT16,upstream_gene_variant,,ENST00000222462,NM_057168.1;"	"AA"	"ENSG00000002745"	"ENST00000222462"	"Transcript"	"upstream_gene_variant"	"-/3147"	"-/1098"	"-/365"	""	""	"rs10629350"	"1"	"3338"	1	"WNT16"	"HGNC"	16267	"protein_coding"	"YES"	"CCDS5781.1"	"ENSP00000222462"	"Q9UBV4"	""	"UPI000005104C"	"NM_057168.1"	NA	NA	""	""	""	"AA:0.1050"	"AA:0.1634"	"AA:0.0418"	NA	"AA:0.0556"	"AA:0.0477"	"AA:0.181"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"908d6b5c-280f-11e6-bf94-0b33424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"5269"	"WNT16"	51384	"mskcc.org"	"GRCh37"	"7"	120972291	120972292	"+"	"Intron"	"INS"	"-"	"-"	"GT"	"rs56219125"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.633+288_633+289dupGT"	""	""	"ENST00000222462"	""	18	"."	9	2	"."	0	"WNT16,intron_variant,,ENST00000222462,NM_057168.1;WNT16,intron_variant,,ENST00000361301,NM_016087.2;"	"GT"	"ENSG00000002745"	"ENST00000222462"	"Transcript"	"intron_variant"	"-/3147"	"-/1098"	"-/365"	""	""	"rs56219125"	"1"	NA	1	"WNT16"	"HGNC"	16267	"protein_coding"	"YES"	"CCDS5781.1"	"ENSP00000222462"	"Q9UBV4"	""	"UPI000005104C"	"NM_057168.1"	NA	NA	""	"3/3"	""	"-:0.4339"	"GT:0.4849"	"GT:0.5951"	NA	"GT:0.6329"	"GT:0.5288"	"GT:0.6247"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"9092fd42-280f-11e6-bf94-0b33424a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5270"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	121116400	121116401	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs11394071"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	3	3	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11394071"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0962"	"T:0.789"	"T:0.9294"	NA	"T:0.9524"	"T:0.9473"	"T:0.9458"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"909bfc76-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5271"	"SLC13A1"	6561	"mskcc.org"	"GRCh37"	"7"	122786912	122786917	"+"	"Intron"	"DEL"	"TACCAT"	"TACCAT"	"-"	"rs72118680"	NA	"JHCCPT5"	"JHCCPN5"	"TACCAT"	"TACCAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.812+296_812+301delATGGTA"	""	""	"ENST00000194130"	""	6	"."	4	4	"."	0	"SLC13A1,intron_variant,,ENST00000194130,NM_022444.3;SLC13A1,intron_variant,,ENST00000539873,;SLC13A1,intron_variant,,ENST00000427975,;SLC13A1,intron_variant,,ENST00000439260,;"	"-"	"ENSG00000081800"	"ENST00000194130"	"Transcript"	"intron_variant"	"-/3815"	"-/1788"	"-/595"	""	""	"rs72118680"	"1"	NA	-1	"SLC13A1"	"HGNC"	10916	"protein_coding"	"YES"	"CCDS5786.1"	"ENSP00000194130"	"Q9BZW2"	"Q75MH3,Q75LT0,A4D0X1"	"UPI0000049F9D"	"NM_022444.3"	NA	NA	""	"7/14"	""	"-:0.3173"	"-:0.4228"	"-:0.2795"	NA	"-:0.2808"	"-:0.2863"	"-:0.271"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTACCATT"	"7a6d3226-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5272"	"WASL"	8976	"mskcc.org"	"GRCh37"	"7"	123360398	123360398	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.118-11121delG"	""	""	"ENST00000223023"	""	185	"."	3	65	"."	0	"WASL,intron_variant,,ENST00000223023,NM_003941.3;"	"-"	"ENSG00000106299"	"ENST00000223023"	"Transcript"	"intron_variant"	"-/4435"	"-/1518"	"-/505"	""	""	""	"1"	NA	-1	"WASL"	"HGNC"	12735	"protein_coding"	"YES"	"CCDS34743.1"	"ENSP00000223023"	"O00401"	""	"UPI000013C821"	"NM_003941.3"	NA	NA	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCA"	"7a93dcb4-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0162162162162162	"WXS"	FALSE
"5273"	"GRM8"	2918	"mskcc.org"	"GRCh37"	"7"	126540716	126540717	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs71177575"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1156+1879dupG"	""	""	"ENST00000339582"	""	9	"."	8	1	"."	0	"GRM8,intron_variant,,ENST00000339582,;GRM8,intron_variant,,ENST00000358373,NM_001127323.1;GRM8,intron_variant,,ENST00000444921,NM_000845.2;GRM8,intron_variant,,ENST00000405249,;GRM8,downstream_gene_variant,,ENST00000457830,;GRM8,intron_variant,,ENST00000480995,;GRM8,intron_variant,,ENST00000448250,;GRM8,intron_variant,,ENST00000472701,;GRM8,intron_variant,,ENST00000341617,;"	"C"	"ENSG00000179603"	"ENST00000339582"	"Transcript"	"intron_variant"	"-/4057"	"-/2727"	"-/908"	""	""	"rs71177575"	"1"	NA	-1	"GRM8"	"HGNC"	4600	"protein_coding"	"YES"	"CCDS5794.1"	"ENSP00000344173"	"O00222"	"E7ETK3,C9J7I1"	"UPI000012F085"	""	NA	NA	""	"6/10"	""	"-:0.1815"	"C:0.8775"	"C:0.7104"	NA	"C:0.9692"	"C:0.6958"	"C:0.7863"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"90feb8d4-280f-11e6-bf94-0b33424a729f"	"471"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.888888888888889	"WXS"	FALSE
"5274"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	128007286	128007287	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs67674430"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs67674430"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0000"	"T:1"	"T:1"	NA	"T:1"	"T:1"	"T:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"9116dc98-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5275"	"FAM71F1"	84691	"mskcc.org"	"GRCh37"	"7"	128355995	128355996	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11431293"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.249+252dupT"	""	""	"ENST00000315184"	""	13	"."	4	9	"."	0	"FAM71F1,intron_variant,,ENST00000315184,NM_032599.2,NM_001282788.1;FAM71F1,intron_variant,,ENST00000485070,NM_001282789.1;FAM71F1,upstream_gene_variant,,ENST00000466842,;FAM71F1,intron_variant,,ENST00000469348,;FAM71F1,intron_variant,,ENST00000483459,;FAM71F1,intron_variant,,ENST00000484425,;FAM71F1,intron_variant,,ENST00000471558,;FAM71F1,intron_variant,,ENST00000493738,;"	"T"	"ENSG00000135248"	"ENST00000315184"	"Transcript"	"intron_variant"	"-/1718"	"-/1035"	"-/344"	""	""	"rs11431293"	"1"	NA	1	"FAM71F1"	"HGNC"	30704	"protein_coding"	"YES"	"CCDS5804.1"	"ENSP00000326652"	"Q96KD3"	"H7C4R1"	"UPI000006D961"	"NM_032599.2,NM_001282788.1"	NA	NA	""	"1/6"	""	"-:0.2494"	"T:0.7927"	"T:0.7507"	NA	"T:0.7758"	"T:0.6819"	"T:0.7382"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"913cf48c-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"5276"	"AHCYL2"	23382	"mskcc.org"	"GRCh37"	"7"	129049693	129049694	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs71162602"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1366+316dupT"	""	""	"ENST00000325006"	""	20	"."	6	2	"."	0	"AHCYL2,intron_variant,,ENST00000325006,NM_001130720.2,NM_015328.3;AHCYL2,intron_variant,,ENST00000446212,NM_001130723.2;AHCYL2,intron_variant,,ENST00000446544,;AHCYL2,intron_variant,,ENST00000531335,;AHCYL2,intron_variant,,ENST00000474594,;AHCYL2,intron_variant,,ENST00000490911,NM_001130722.2;AHCYL2,intron_variant,,ENST00000466924,;RNU7-16P,downstream_gene_variant,,ENST00000516471,;AHCYL2,downstream_gene_variant,,ENST00000492628,;RP11-305M3.2,downstream_gene_variant,,ENST00000450566,;"	"T"	"ENSG00000158467"	"ENST00000325006"	"Transcript"	"intron_variant"	"-/5056"	"-/1836"	"-/611"	""	""	"rs71162602"	"1"	NA	1	"AHCYL2"	"HGNC"	22204	"protein_coding"	"YES"	"CCDS5812.1"	"ENSP00000315931"	"Q96HN2"	""	"UPI00001354E4"	"NM_001130720.2,NM_015328.3"	NA	NA	""	"11/16"	""	"-:0.1771"	"T:0.6921"	"T:0.8977"	NA	"T:0.8958"	"T:0.8767"	"T:0.816"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"915c1d26-280f-11e6-bf94-0b33424a729f"	"320"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"5277"	"CEP41"	95681	"mskcc.org"	"GRCh37"	"7"	130066821	130066821	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs111701222"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.97+975delC"	""	""	"ENST00000223208"	""	33	"."	8	7	"."	0	"CEP41,intron_variant,,ENST00000223208,NM_018718.2,NM_001257158.1;CEP41,intron_variant,,ENST00000489512,NM_001257160.1;CEP41,intron_variant,,ENST00000541543,NM_001257159.1;CEP41,intron_variant,,ENST00000343969,;CEP41,intron_variant,,ENST00000477003,;CEP41,intron_variant,,ENST00000469826,;CEP41,upstream_gene_variant,,ENST00000472739,;CEP41,upstream_gene_variant,,ENST00000492389,;CEP41,intron_variant,,ENST00000495702,;CEP41,intron_variant,,ENST00000334451,;CEP41,intron_variant,,ENST00000484549,;CEP41,intron_variant,,ENST00000471201,;CEP41,intron_variant,,ENST00000498527,;CEP41,upstream_gene_variant,,ENST00000482730,;"	"-"	"ENSG00000106477"	"ENST00000223208"	"Transcript"	"intron_variant"	"-/6513"	"-/1122"	"-/373"	""	""	"rs111701222"	"1"	NA	-1	"CEP41"	"HGNC"	12370	"protein_coding"	"YES"	"CCDS5821.1"	"ENSP00000223208"	"Q9BYV8"	"C9JXA0,C9J9X8,C9J6R3,C9IZ34"	"UPI000006D546"	"NM_018718.2,NM_001257158.1"	NA	NA	""	"2/10"	""	"-:0.1951"	"-:0.2088"	"-:0.1671"	NA	"-:0.1776"	"-:0.2068"	"-:0.2025"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACGG"	"7be9204c-280f-11e6-bf94-0b33424a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242424242424242	"WXS"	FALSE
"5278"	"MEST"	4232	"mskcc.org"	"GRCh37"	"7"	130149833	130149833	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000223215"	""	302	"."	59	138	"."	0	"MEST,downstream_gene_variant,,ENST00000223215,NM_001253900.1,NM_002402.3;MEST,downstream_gene_variant,,ENST00000341441,NM_177524.2;MEST,downstream_gene_variant,,ENST00000393187,NM_177525.2;MEST,downstream_gene_variant,,ENST00000378576,;MEST,downstream_gene_variant,,ENST00000416162,NM_001253902.1,NM_001253901.1;MEST,downstream_gene_variant,,ENST00000437945,;COPG2,upstream_gene_variant,,ENST00000425248,;MEST,downstream_gene_variant,,ENST00000463263,;RP11-2E11.9,downstream_gene_variant,,ENST00000604965,;COPG2,upstream_gene_variant,,ENST00000490070,;"	"-"	"ENSG00000106484"	"ENST00000223215"	"Transcript"	"downstream_gene_variant"	"-/2465"	"-/1008"	"-/335"	""	""	""	"1"	"3700"	1	"MEST"	"HGNC"	7028	"protein_coding"	"YES"	"CCDS5822.1"	"ENSP00000223215"	"Q5EB52"	"C9JCM6,C9JWU9,C9JUD2,C9JRA9,C9JG66,A4D1L9"	"UPI000006DE62"	"NM_001253900.1,NM_002402.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGT"	"7c16e84c-280f-11e6-bf94-0b33424a729f"	"3540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195364238410596	"WXS"	FALSE
"5279"	"KLF14"	136259	"mskcc.org"	"GRCh37"	"7"	130417497	130417498	"+"	"3'UTR"	"INS"	"-"	"C"	"C"	"rs67228699"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*391dupG"	""	""	"ENST00000310992"	"1/1"	7	"."	5	2	"."	0	"KLF14,3_prime_UTR_variant,,ENST00000310992,NM_138693.3;"	"C"	"ENSG00000174595"	"ENST00000310992"	"Transcript"	"3_prime_UTR_variant"	"1391-1392/1488"	"-/972"	"-/323"	""	""	"rs67228699"	"1"	NA	-1	"KLF14"	"HGNC"	23025	"protein_coding"	"YES"	"CCDS5825.1"	"ENSP00000310878"	"Q8TD94"	"A4D1N0"	"UPI00000738B1"	"NM_138693.3"	NA	NA	"1/1"	""	""	"-:0.0002"	"C:1"	"C:1"	NA	"C:1"	"C:0.999"	"C:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"91a567d8-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"5280"	"KLF14"	136259	"mskcc.org"	"GRCh37"	"7"	130418883	130418884	"+"	"5'UTR"	"INS"	"-"	"-"	"GAGCGCCGTCCGAACGCGGCCGGCCGCGGGCGACGGAGTTCCCGGGAGCGTCCGTCCCGCAGCCTCG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-24_-23insCGAGGCTGCGGGACGGACGCTCCCGGGAACTCCGTCGCCCGCGGCCGGCCGCGTTCGGACGGCGCTC"	""	""	"ENST00000310992"	"1/1"	98	"."	14	11	"."	0	"KLF14,5_prime_UTR_variant,,ENST00000310992,NM_138693.3;"	"GAGCGCCGTCCGAACGCGGCCGGCCGCGGGCGACGGAGTTCCCGGGAGCGTCCGTCCCGCAGCCTCG"	"ENSG00000174595"	"ENST00000310992"	"Transcript"	"5_prime_UTR_variant"	"5-6/1488"	"-/972"	"-/323"	""	""	""	"1"	NA	-1	"KLF14"	"HGNC"	23025	"protein_coding"	"YES"	"CCDS5825.1"	"ENSP00000310878"	"Q8TD94"	"A4D1N0"	"UPI00000738B1"	"NM_138693.3"	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	"0.3777"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	NA	"PASS"	"GCG"	"91a9c83c-280f-11e6-bf94-0b33424a729f"	"840"	0	"0/2"	"105/278"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/0"	"0/2"	"PASS"	"FALSE"	0.142857142857143	"WXS"	FALSE
"5281"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	131553271	131553272	"+"	"IGR"	"INS"	"-"	"-"	"TCTGTCTGTCTATCTATCTA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"."	4	2	"."	0	""	"TCTGTCTGTCTATCTATCTA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"91bffb70-280f-11e6-bf94-0b33424a729f"	"220"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WXS"	FALSE
"5282"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	131553415	131553422	"+"	"IGR"	"DEL"	"TATCTATC"	"TATCTATC"	"-"	"rs200120950"	NA	"JHCCPT5"	"JHCCPN5"	"TATCTATC"	"TATCTATC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200120950"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTATCTATCT"	"7c497096-280f-11e6-bf94-0b33424a729f"	"160"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"5283"	"AC009518.4"	101928782	"mskcc.org"	"GRCh37"	"7"	131618255	131618256	"+"	"Intron"	"INS"	"-"	"-"	"GAAGAAGAAGAAAGAAGAGGAAGAAGAAGAAAGAAGAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1006+1224_1006+1225insGGAAGAAGAAGAAAGAAGAGGAAGAAGAAGAAAGAAGA"	""	""	"ENST00000415393"	""	46	"."	4	13	"."	0	"AC009518.4,intron_variant,,ENST00000415393,;AC009518.4,downstream_gene_variant,,ENST00000452219,;"	"GAAGAAGAAGAAAGAAGAGGAAGAAGAAGAAAGAAGAG"	"ENSG00000224865"	"ENST00000415393"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1229"	""	""	""	""	""	"1"	NA	1	"AC009518.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"37"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"91c46c14-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WXS"	FALSE
"5284"	"PLXNA4"	91584	"mskcc.org"	"GRCh37"	"7"	132247215	132247217	"+"	"Intron"	"DEL"	"CTC"	"CTC"	"-"	"rs142567425"	NA	"JHCCPT5"	"JHCCPN5"	"CTC"	"CTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-84+13964_-84+13966delGAG"	""	""	"ENST00000359827"	""	13	"."	3	7	"."	0	"PLXNA4,intron_variant,,ENST00000359827,;PLXNA4,intron_variant,,ENST00000321063,NM_020911.1;PLXNA4,intron_variant,,ENST00000423507,NM_001105543.1;PLXNA4,intron_variant,,ENST00000378539,NM_181775.3;"	"-"	"ENSG00000221866"	"ENST00000359827"	"Transcript"	"intron_variant"	"-/13786"	"-/5685"	"-/1894"	""	""	"rs142567425"	"1"	NA	-1	"PLXNA4"	"HGNC"	9102	"protein_coding"	"YES"	"CCDS43646.1"	"ENSP00000352882"	"Q9HCM2"	""	"UPI000004E55B"	""	NA	NA	""	"1/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTCC"	"7c581c0e-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"5285"	"AC009365.3"	286023	"mskcc.org"	"GRCh37"	"7"	132382934	132382935	"+"	"Intron"	"INS"	"-"	"-"	"AGAGAAAGAAAGAGAGATGCAGACTGTTGAAAGAAAGAAGGAAGGAAGGGAGAGAGAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-211-26577_-211-26576insGTTGAAAGAAAGAAGGAAGGAAGGGAGAGAGAGAGAGAAAGAAAGAGAGATGCAGACT"	""	""	"ENST00000332558"	""	15	"."	4	4	"."	0	"AC009365.3,intron_variant,,ENST00000332558,;"	"AGAGAAAGAAAGAGAGATGCAGACTGTTGAAAGAAAGAAGGAAGGAAGGGAGAGAGAG"	"ENSG00000183470"	"ENST00000332558"	"Transcript"	"intron_variant"	"-/1998"	"-/453"	"-/150"	""	""	""	"1"	NA	1	"AC009365.3"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000331939"	"A4D1N5"	""	"UPI0000140A0D"	""	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"25"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"91d5ab1e-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"5286"	"EXOC4"	60412	"mskcc.org"	"GRCh37"	"7"	133306706	133306709	"+"	"Intron"	"DEL"	"TGTC"	"TGTC"	"-"	"rs5887639"	NA	"JHCCPT5"	"JHCCPN5"	"TGTC"	"TGTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1418-8068_1418-8065delTGTC"	""	""	"ENST00000253861"	""	13	"."	6	3	"."	0	"EXOC4,intron_variant,,ENST00000253861,NM_021807.3;EXOC4,intron_variant,,ENST00000545148,;EXOC4,intron_variant,,ENST00000539845,;EXOC4,intron_variant,,ENST00000460346,;EXOC4,intron_variant,,ENST00000469115,;EXOC4,intron_variant,,ENST00000482089,;EXOC4,intron_variant,,ENST00000486409,;EXOC4,intron_variant,,ENST00000489931,;EXOC4,intron_variant,,ENST00000483800,;EXOC4,intron_variant,,ENST00000479839,;EXOC4,intron_variant,,ENST00000486013,;"	"-"	"ENSG00000131558"	"ENST00000253861"	"Transcript"	"intron_variant"	"-/4185"	"-/2925"	"-/974"	""	""	"rs5887639"	"1"	NA	1	"EXOC4"	"HGNC"	30389	"protein_coding"	"YES"	"CCDS5829.1"	"ENSP00000253861"	"Q96A65"	"B7Z4J9,B7Z321"	"UPI0000135758"	"NM_021807.3"	NA	NA	""	"9/17"	""	"TGTC:0.0232"	"-:0.9183"	"-:0.9942"	NA	"-:0.999"	"-:0.998"	"-:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"24"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGTCT"	"7c7fc01a-280f-11e6-bf94-0b33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"5287"	"EXOC4"	60412	"mskcc.org"	"GRCh37"	"7"	133672108	133672108	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs56141492"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2207-10135delG"	""	""	"ENST00000253861"	""	10	"."	6	3	"."	0	"EXOC4,intron_variant,,ENST00000253861,NM_021807.3;EXOC4,intron_variant,,ENST00000545148,;EXOC4,intron_variant,,ENST00000539845,;EXOC4,intron_variant,,ENST00000541309,;EXOC4,intron_variant,,ENST00000478265,;"	"-"	"ENSG00000131558"	"ENST00000253861"	"Transcript"	"intron_variant"	"-/4185"	"-/2925"	"-/974"	""	""	"rs56141492"	"1"	NA	1	"EXOC4"	"HGNC"	30389	"protein_coding"	"YES"	"CCDS5829.1"	"ENSP00000253861"	"Q96A65"	"B7Z4J9,B7Z321"	"UPI0000135758"	"NM_021807.3"	NA	NA	""	"14/17"	""	"G:0.2165"	"-:0.7579"	"-:0.8055"	NA	"-:0.9087"	"-:0.666"	"-:0.7945"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGG"	"7c825ec4-280f-11e6-bf94-0b33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WXS"	FALSE
"5288"	"CHRM2"	1129	"mskcc.org"	"GRCh37"	"7"	136559297	136559298	"+"	"Intron"	"INS"	"-"	"-"	"CC"	"rs59842228"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-47+5134_-47+5135dupCC"	""	""	"ENST00000445907"	""	12	"."	3	4	"."	0	"CHRM2,intron_variant,,ENST00000445907,NM_001006627.1,NM_001006629.1;CHRM2,intron_variant,,ENST00000401861,NM_001006626.1;CHRM2,intron_variant,,ENST00000397608,NM_000739.2,NM_001006628.1,NM_001006630.1;CHRM2,intron_variant,,ENST00000402486,NM_001006631.1,NM_001006628.1,NM_001006630.1;CHRM2,intron_variant,,ENST00000453373,;CHRM2,intron_variant,,ENST00000320658,NM_001006632.1;hsa-mir-490,intron_variant,,ENST00000439694,;hsa-mir-490,intron_variant,,ENST00000586239,;hsa-mir-490,intron_variant,,ENST00000597642,;hsa-mir-490,intron_variant,,ENST00000598184,;hsa-mir-490,intron_variant,,ENST00000593789,;hsa-mir-490,intron_variant,,ENST00000592183,;CHRM2,downstream_gene_variant,,ENST00000480591,;CHRM2,downstream_gene_variant,,ENST00000481598,;CHRM2,downstream_gene_variant,,ENST00000471195,;"	"CC"	"ENSG00000181072"	"ENST00000445907"	"Transcript"	"intron_variant"	"-/5918"	"-/1401"	"-/466"	""	""	"rs59842228"	"1"	NA	1	"CHRM2"	"HGNC"	1951	"protein_coding"	"YES"	"CCDS5843.1"	"ENSP00000399745"	"P08172"	"Q96RH0,Q86SJ1,Q6SL56,A4D1Q0"	"UPI0000050410"	"NM_001006627.1,NM_001006629.1"	NA	NA	""	"2/2"	""	"-:0.0002"	"CC:1"	"CC:0.9986"	NA	"CC:1"	"CC:1"	"CC:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"9270bc3a-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"5289"	"TBXAS1"	6916	"mskcc.org"	"GRCh37"	"7"	139522064	139522065	"+"	"Intron"	"INS"	"-"	"-"	"TC"	"rs138999510"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-76-7031_-76-7030dupCT"	""	""	"ENST00000263552"	""	15	"."	6	2	"."	0	"TBXAS1,intron_variant,,ENST00000263552,NM_001130966.2;TBXAS1,intron_variant,,ENST00000336425,;TBXAS1,intron_variant,,ENST00000425687,NM_001166254.1;TBXAS1,intron_variant,,ENST00000438104,;"	"TC"	"ENSG00000059377"	"ENST00000263552"	"Transcript"	"intron_variant"	"-/2367"	"-/1605"	"-/534"	""	""	"rs138999510"	"1"	NA	1	"TBXAS1"	"HGNC"	11609	"protein_coding"	""	"CCDS5855.1"	"ENSP00000263552"	"P24557"	"Q9UDV3,Q86UL7,F8WD37,C9JS68"	"UPI000013D421"	"NM_001130966.2"	NA	NA	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"17"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"92e30a1a-280f-11e6-bf94-0b33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"5290"	"TBXAS1"	6916	"mskcc.org"	"GRCh37"	"7"	139684439	139684440	"+"	"Intron"	"INS"	"-"	"-"	"AAAGAAAGAAAGAAAGAAAGAAAGAAACAAAGAAAGAAAGAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1275+22408_1275+22409insAAGAAAGAAAGAAAGAAAGAAAGAAACAAAGAAAGAAAGAAA"	""	""	"ENST00000416849"	""	10	"."	4	1	"."	0	"TBXAS1,intron_variant,,ENST00000263552,NM_001130966.2;TBXAS1,intron_variant,,ENST00000416849,NM_001166253.1;TBXAS1,intron_variant,,ENST00000336425,;TBXAS1,intron_variant,,ENST00000425687,NM_001166254.1;TBXAS1,intron_variant,,ENST00000436047,NM_001061.4;TBXAS1,intron_variant,,ENST00000458722,;TBXAS1,intron_variant,,ENST00000448866,;TBXAS1,intron_variant,,ENST00000414508,NM_030984.3;TBXAS1,intron_variant,,ENST00000411653,;TBXAS1,intron_variant,,ENST00000462275,;TBXAS1,intron_variant,,ENST00000422328,;"	"AAAGAAAGAAAGAAAGAAAGAAAGAAACAAAGAAAGAAAGAA"	"ENSG00000059377"	"ENST00000416849"	"Transcript"	"intron_variant"	"-/2202"	"-/1743"	"-/580"	""	""	""	"1"	NA	1	"TBXAS1"	"HGNC"	11609	"protein_coding"	"YES"	"CCDS55174.1"	"ENSP00000389414"	""	"F8WD37,E7EP08,C9JS68,C9J8N6"	"UPI0001AE7134"	"NM_001166253.1"	NA	NA	""	"10/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"92e52796-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"5291"	"TMEM178B"	100507421	"mskcc.org"	"GRCh37"	"7"	141110222	141110223	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs5888003"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.497-27178dupT"	""	""	"ENST00000565468"	""	11	"."	4	1	"."	0	"TMEM178B,intron_variant,,ENST00000565468,NM_001195278.1;RP5-842K16.1,downstream_gene_variant,,ENST00000461145,;"	"T"	"ENSG00000261115"	"ENST00000565468"	"Transcript"	"intron_variant"	"-/10558"	"-/885"	"-/294"	""	""	"rs5888003"	"1"	NA	1	"TMEM178B"	"HGNC"	44112	"protein_coding"	"YES"	"CCDS59086.1"	"ENSP00000456594"	"H3BS89"	""	"UPI0000E217DE"	"NM_001195278.1"	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"930ae0d0-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"5292"	"TRBV7-6"	0	"mskcc.org"	"GRCh37"	"7"	142139624	142139625	"+"	"Intron"	"INS"	"-"	"-"	"CACACA"	"rs59112965"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.50-55_50-50dupTGTGTG"	""	""	"ENST00000390374"	""	87	"."	6	44	"."	0	"TRBV7-6,intron_variant,,ENST00000390374,;TRBV6-7,downstream_gene_variant,,ENST00000390373,;"	"CACACA"	"ENSG00000211727"	"ENST00000390374"	"Transcript"	"intron_variant"	"-/392"	"-/347"	"-/115"	""	""	"rs59112965"	"1"	NA	-1	"TRBV7-6"	"HGNC"	12240	"TR_V_gene"	"YES"	""	"ENSP00000374897"	""	""	"UPI0001AE7158"	""	NA	NA	""	"1/1"	""	"CA:0.4661"	"CA:0.4584"	"CA:0.4827"	NA	"CA:0.3919"	"CA:0.5239"	"CA:0.4816"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"93656d48-280f-11e6-bf94-0b33424a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WXS"	FALSE
"5293"	"CLCN1"	1180	"mskcc.org"	"GRCh37"	"7"	143017646	143017647	"+"	"Intron"	"INS"	"-"	"-"	"TCTCTCTCTCTCTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.302-91_302-78dupCTCTCTCTCTCTCT"	""	""	"ENST00000343257"	""	56	"."	3	17	"."	0	"CLCN1,intron_variant,,ENST00000343257,NM_000083.2;CLCN1,upstream_gene_variant,,ENST00000495612,;CLCN1,upstream_gene_variant,,ENST00000455478,;CLCN1,upstream_gene_variant,,ENST00000432192,;"	"TCTCTCTCTCTCTC"	"ENSG00000188037"	"ENST00000343257"	"Transcript"	"intron_variant"	"-/3172"	"-/2967"	"-/988"	""	""	""	"1"	NA	1	"CLCN1"	"HGNC"	2019	"protein_coding"	"YES"	"CCDS5881.1"	"ENSP00000339867"	"P35523"	"Q75L28"	"UPI000020F1EC"	"NM_000083.2"	NA	NA	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"33"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"93a1559c-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0535714285714286	"WXS"	FALSE
"5294"	"OR2A3P"	0	"mskcc.org"	"GRCh37"	"7"	143854580	143854580	"+"	"RNA"	"DEL"	"A"	"A"	"-"	"rs11324135"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.269delA"	""	""	"ENST00000493774"	"1/1"	27	"."	11	7	"."	0	"OR2A3P,non_coding_transcript_exon_variant,,ENST00000493774,;"	"-"	"ENSG00000183122"	"ENST00000493774"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"262/953"	""	""	""	""	"rs11324135"	"1"	NA	1	"OR2A3P"	"HGNC"	8231	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"A:0.4189"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"7f406a70-280f-11e6-bf94-0b33424a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.407407407407407	"WXS"	FALSE
"5295"	"OR2A1-AS1"	101928605	"mskcc.org"	"GRCh37"	"7"	144042157	144042158	"+"	"Intron"	"INS"	"-"	"-"	"GATT"	"rs370565207"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.300-1770_300-1767dupAATC"	""	""	"ENST00000463561"	""	10	"."	3	2	"."	0	"OR2A1-AS1,intron_variant,,ENST00000463561,;OR2A1-AS1,intron_variant,,ENST00000486094,;OR2A1-AS1,intron_variant,,ENST00000462305,;OR2A1-AS1,intron_variant,,ENST00000476560,;OR2A1-AS1,intron_variant,,ENST00000487102,;OR2A1-AS1,intron_variant,,ENST00000470435,;OR2A1-AS1,intron_variant,,ENST00000475089,;OR2A1-AS1,intron_variant,,ENST00000478806,;OR2A1-AS1,intron_variant,,ENST00000468575,;OR2A1-AS1,intron_variant,,ENST00000488041,;OR2A1-AS1,intron_variant,,ENST00000478925,;OR2A1-AS1,intron_variant,,ENST00000496968,;OR2A1-AS1,intron_variant,,ENST00000489488,;OR2A1-AS1,upstream_gene_variant,,ENST00000467944,;OR2A1-AS1,upstream_gene_variant,,ENST00000461843,;OR2A1-AS1,upstream_gene_variant,,ENST00000493539,;"	"GATT"	"ENSG00000244479"	"ENST00000463561"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/864"	""	""	""	""	"rs370565207"	"1"	NA	-1	"OR2A1-AS1"	"HGNC"	49168	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"2/5"	""	"GATT:0.4899"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"93b9b542-280f-11e6-bf94-0b33424a729f"	"120"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"5296"	"CNTNAP2"	26047	"mskcc.org"	"GRCh37"	"7"	147876728	147876731	"+"	"Intron"	"DEL"	"AGAG"	"AGAG"	"-"	"rs141902334"	NA	"JHCCPT5"	"JHCCPN5"	"AGAG"	"AGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3010+7161_3010+7164delGAGA"	""	""	"ENST00000361727"	""	15	"."	4	2	"."	0	"CNTNAP2,intron_variant,,ENST00000361727,NM_014141.5;CNTNAP2,intron_variant,,ENST00000538075,;"	"-"	"ENSG00000174469"	"ENST00000361727"	"Transcript"	"intron_variant"	"-/9894"	"-/3996"	"-/1331"	""	""	"rs141902334"	"1"	NA	1	"CNTNAP2"	"HGNC"	13830	"protein_coding"	"YES"	"CCDS5889.1"	"ENSP00000354778"	"Q9UHC6"	"Q9UDV4,Q96T77,Q86UL9,Q86UL6,Q86UL4,Q86UJ1,Q86UI8,Q75MQ9,Q75MF8,Q75MF6,Q75MD4,Q75MA1,Q75M92,Q75LG9,O75852,B7Z1Y6"	"UPI00001285FA"	"NM_014141.5"	NA	NA	""	"18/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAAGAGA"	"7f84eefc-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"5297"	"KRBA1"	84626	"mskcc.org"	"GRCh37"	"7"	149435639	149435642	"+"	"3'Flank"	"DEL"	"TAAG"	"TAAG"	"-"	"rs71922388"	NA	"JHCCPT5"	"JHCCPN5"	"TAAG"	"TAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000255992"	""	11	"."	4	1	"."	0	"KRBA1,downstream_gene_variant,,ENST00000255992,NM_032534.2;KRBA1,downstream_gene_variant,,ENST00000319551,;KRBA1,downstream_gene_variant,,ENST00000485033,;KRBA1,downstream_gene_variant,,ENST00000479560,;KRBA1,downstream_gene_variant,,ENST00000466546,;KRBA1,downstream_gene_variant,,ENST00000496259,;"	"-"	"ENSG00000133619"	"ENST00000255992"	"Transcript"	"downstream_gene_variant"	"-/4017"	"-/3090"	"-/1029"	""	""	"rs71922388"	"1"	"3975"	1	"KRBA1"	"HGNC"	22228	"protein_coding"	"YES"	""	"ENSP00000255992"	""	"C9J5U6,C4P1W5"	"UPI000049E0A4"	"NM_032534.2"	NA	NA	""	""	""	"-:0.3578"	"-:0.348"	"-:0.3602"	NA	"-:0.3244"	"-:0.4046"	"-:0.3558"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATAAGT"	"7fdcec60-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"5298"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	150119020	150119020	"+"	"IGR"	"DEL"	"A"	"-"	"-"	"rs5888410"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	5	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5888410"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.3704"	"-:0.562"	"-:0.6455"	NA	"-:0.5992"	"-:0.7535"	"-:0.6135"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAG"	"802370c2-280f-11e6-bf94-0b33424a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"5299"	"GIMAP7"	168537	"mskcc.org"	"GRCh37"	"7"	150218101	150218102	"+"	"3'UTR"	"INS"	"-"	"-"	"ATATATAT"	"rs142032527"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*146_*153dupTATATATA"	""	""	"ENST00000313543"	"2/2"	49	"."	3	4	"."	0	"GIMAP7,3_prime_UTR_variant,,ENST00000313543,NM_153236.3;"	"ATATATAT"	"ENSG00000179144"	"ENST00000313543"	"Transcript"	"3_prime_UTR_variant"	"1196-1197/1256"	"-/903"	"-/300"	""	""	"rs142032527"	"1"	NA	1	"GIMAP7"	"HGNC"	22404	"protein_coding"	"YES"	"CCDS5903.1"	"ENSP00000315474"	"Q8NHV1"	""	"UPI0000036B86"	"NM_153236.3"	NA	NA	"2/2"	""	""	"AT:0.2418"	"AT:0.1997"	"AT:0.3501"	NA	"AT:0.1746"	"AT:0.2376"	"AT:0.2955"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"17"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"94a0a34e-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0612244897959184	"WXS"	FALSE
"5300"	"TMEM176A"	55365	"mskcc.org"	"GRCh37"	"7"	150497534	150497535	"+"	"5'UTR"	"INS"	"-"	"-"	"G"	"rs17173776"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-533dupG"	""	""	"ENST00000484928"	"1/7"	8	"."	4	1	"."	0	"TMEM176A,5_prime_UTR_variant,,ENST00000484928,;TMEM176B,5_prime_UTR_variant,,ENST00000434545,NM_001101311.1,NM_001101312.1;TMEM176B,intron_variant,,ENST00000447204,NM_014020.3;TMEM176B,upstream_gene_variant,,ENST00000492607,;TMEM176A,upstream_gene_variant,,ENST00000004103,NM_018487.2;TMEM176B,upstream_gene_variant,,ENST00000429904,;TMEM176B,upstream_gene_variant,,ENST00000326442,;TMEM176B,upstream_gene_variant,,ENST00000450753,NM_001101314.1;TMEM176A,upstream_gene_variant,,ENST00000475536,;TMEM176A,upstream_gene_variant,,ENST00000461345,;TMEM176A,upstream_gene_variant,,ENST00000468689,;TMEM176A,upstream_gene_variant,,ENST00000462826,;TMEM176A,upstream_gene_variant,,ENST00000494349,;TMEM176A,upstream_gene_variant,,ENST00000475710,;TMEM176A,upstream_gene_variant,,ENST00000475007,;TMEM176A,upstream_gene_variant,,ENST00000481305,;TMEM176A,upstream_gene_variant,,ENST00000474166,;"	"G"	"ENSG00000002933"	"ENST00000484928"	"Transcript"	"5_prime_UTR_variant"	"44-45/1530"	"-/708"	"-/235"	""	""	"rs17173776"	"1"	NA	1	"TMEM176A"	"HGNC"	24930	"protein_coding"	"YES"	"CCDS5909.1"	"ENSP00000417626"	"Q96HP8"	"C9JRT9,C9JJ63"	"UPI000006E9AA"	""	NA	NA	"1/7"	""	""	"G:0.3938"	"G:0.525"	"G:0.3545"	NA	"G:0.127"	"G:0.5179"	"G:0.3916"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"94b65036-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5301"	"GALNTL5"	168391	"mskcc.org"	"GRCh37"	"7"	151668222	151668225	"+"	"Intron"	"DEL"	"AGAA"	"AGAA"	"-"	"rs752153937"	NA	"JHCCPT5"	"JHCCPN5"	"AGAA"	"AGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.368+77_368+80delGAAA"	""	""	"ENST00000392800"	""	93	"."	15	12	"."	0	"GALNTL5,intron_variant,,ENST00000392800,NM_145292.3;GALNTL5,intron_variant,,ENST00000431418,;GALNTL5,intron_variant,,ENST00000468278,;GALNTL5,intron_variant,,ENST00000416269,;GALNTL5,intron_variant,,ENST00000414073,;GALNTL5,intron_variant,,ENST00000426341,;GALNTL5,intron_variant,,ENST00000448366,;GALNTL5,intron_variant,,ENST00000416062,;"	"-"	"ENSG00000106648"	"ENST00000392800"	"Transcript"	"intron_variant"	"-/1719"	"-/1332"	"-/443"	""	""	"rs752153937"	"1"	NA	1	"GALNTL5"	"HGNC"	21725	"protein_coding"	"YES"	"CCDS5929.1"	"ENSP00000376548"	"Q7Z4T8"	""	"UPI000013C82E"	"NM_145292.3"	NA	NA	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGAAA"	"80e135c6-280f-11e6-bf94-0b33424a729f"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161290322580645	"WXS"	FALSE
"5302"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	152417573	152417574	"+"	"IGR"	"INS"	"-"	"-"	"AAACAAAACAAAACA"	"rs146898756"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	1	"."	0	""	"AAACAAAACAAAACA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs146898756"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"956483c2-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5303"	"DPP6"	1804	"mskcc.org"	"GRCh37"	"7"	153948889	153948890	"+"	"Intron"	"INS"	"-"	"-"	"GTA"	"rs144704460"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.244-194409_244-194408insTAG"	""	""	"ENST00000377770"	""	7	"."	4	1	"."	0	"DPP6,intron_variant,,ENST00000404039,NM_130797.2,NM_001936.3,NM_001039350.1;DPP6,intron_variant,,ENST00000377770,;DPP6,intron_variant,,ENST00000406326,;"	"GTA"	"ENSG00000130226"	"ENST00000377770"	"Transcript"	"intron_variant"	"-/3710"	"-/2598"	"-/865"	""	""	"rs144704460"	"1"	NA	1	"DPP6"	"HGNC"	3010	"protein_coding"	"YES"	""	"ENSP00000367001"	"P42658"	"Q75MI8,Q75MI7,Q75MF0"	"UPI00001AE746"	""	NA	NA	""	"1/25"	""	"-:0.3269"	"GTA:0.9735"	"GTA:0.6037"	NA	"GTA:0.4117"	"GTA:0.6759"	"GTA:0.5828"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"9572179e-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5304"	"DPP6"	1804	"mskcc.org"	"GRCh37"	"7"	154666819	154666819	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs75749242"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1884-789delA"	""	""	"ENST00000377770"	""	13	"."	3	3	"."	0	"DPP6,intron_variant,,ENST00000404039,NM_130797.2,NM_001936.3,NM_001039350.1;DPP6,intron_variant,,ENST00000332007,;DPP6,intron_variant,,ENST00000377770,;DPP6,intron_variant,,ENST00000427557,;DPP6,intron_variant,,ENST00000479637,;DPP6,intron_variant,,ENST00000488512,;DPP6,intron_variant,,ENST00000484789,;"	"-"	"ENSG00000130226"	"ENST00000377770"	"Transcript"	"intron_variant"	"-/3710"	"-/2598"	"-/865"	""	""	"rs75749242"	"1"	NA	1	"DPP6"	"HGNC"	3010	"protein_coding"	"YES"	""	"ENSP00000367001"	"P42658"	"Q75MI8,Q75MI7,Q75MF0"	"UPI00001AE746"	""	NA	NA	""	"19/25"	""	"-:0.2400"	"-:0.1641"	"-:0.1398"	NA	"-:0.5357"	"-:0.1531"	"-:0.1984"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGAA"	"8167bc4a-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"5305"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	156889819	156889819	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs78244067"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs78244067"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCC"	"81dc5ff0-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5306"	"UBE3C"	9690	"mskcc.org"	"GRCh37"	"7"	157016270	157016270	"+"	"Intron"	"DEL"	"A"	"-"	"-"	"rs11350696"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2100+227delA"	""	""	"ENST00000348165"	""	13	"."	10	2	"."	0	"UBE3C,intron_variant,,ENST00000348165,NM_014671.2;UBE3C,intron_variant,,ENST00000470408,;UBE3C,upstream_gene_variant,,ENST00000497368,;UBE3C,upstream_gene_variant,,ENST00000494532,;"	"-"	"ENSG00000009335"	"ENST00000348165"	"Transcript"	"intron_variant"	"-/5229"	"-/3252"	"-/1083"	""	""	"rs11350696"	"1"	NA	1	"UBE3C"	"HGNC"	16803	"protein_coding"	"YES"	"CCDS34789.1"	"ENSP00000309198"	"Q15386"	""	"UPI000020E72A"	"NM_014671.2"	NA	NA	""	"16/22"	""	"A:0.0262"	"-:0.9962"	"-:0.9496"	NA	"-:0.9931"	"-:0.9394"	"-:0.9765"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTAA"	"81eca6b2-280f-11e6-bf94-0b33424a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.769230769230769	"WXS"	FALSE
"5307"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	158055797	158055807	"+"	"Intron"	"DEL"	"CACACACACTG"	"CACACACACTG"	"-"	"rs201239557"	NA	"JHCCPT5"	"JHCCPN5"	"CACACACACTG"	"CACACACACTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.277+53704_277+53714delCAGTGTGTGTG"	""	""	"ENST00000389418"	""	26	"."	4	3	"."	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"-"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	"rs201239557"	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	NA	NA	""	"3/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACACACACACTGC"	"82247060-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WXS"	FALSE
"5308"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	158055843	158055844	"+"	"Intron"	"DEL"	"CA"	"CA"	"-"	"rs201693718"	NA	"JHCCPT5"	"JHCCPN5"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.277+53667_277+53668delTG"	""	""	"ENST00000389418"	""	22	"."	3	2	"."	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"-"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	"rs201693718"	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	NA	NA	""	"3/22"	""	"-:0.0188"	"-:0.0189"	"-:0.0245"	NA	"-:0"	"-:0.0358"	"-:0.0164"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCAC"	"8225acd2-280f-11e6-bf94-0b33424a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WXS"	FALSE
"5309"	"NCAPG2"	54892	"mskcc.org"	"GRCh37"	"7"	158448369	158448370	"+"	"Intron"	"INS"	"-"	"-"	"TGCCCTGCACGCAGCACCACCCGTCCCCTCCCTGCCTCATGACCAGGCCCCGTCCTCCCCATC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2389-285_2389-223dupGATGGGGAGGACGGGGCCTGGTCATGAGGCAGGGAGGGGACGGGTGGTGCTGCGTGCAGGGCA"	""	""	"ENST00000409423"	""	22	"."	4	16	"."	0	"NCAPG2,intron_variant,,ENST00000409339,NM_001281933.1;NCAPG2,intron_variant,,ENST00000409423,NM_001281932.1;NCAPG2,intron_variant,,ENST00000356309,NM_017760.5;NCAPG2,intron_variant,,ENST00000449727,;NCAPG2,intron_variant,,ENST00000441982,;NCAPG2,intron_variant,,ENST00000275830,;NCAPG2,intron_variant,,ENST00000541468,;NCAPG2,downstream_gene_variant,,ENST00000474940,;NCAPG2,downstream_gene_variant,,ENST00000475918,;NCAPG2,intron_variant,,ENST00000432615,;NCAPG2,intron_variant,,ENST00000467785,;"	"TGCCCTGCACGCAGCACCACCCGTCCCCTCCCTGCCTCATGACCAGGCCCCGTCCTCCCCATC"	"ENSG00000146918"	"ENST00000409423"	"Transcript"	"intron_variant"	"-/3957"	"-/3432"	"-/1143"	""	""	""	"1"	NA	-1	"NCAPG2"	"HGNC"	21904	"protein_coding"	"YES"	"CCDS43686.1"	"ENSP00000386569"	"Q86XI2"	""	"UPI000000DA46"	"NM_001281932.1"	NA	NA	""	"20/28"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"964c4734-280f-11e6-bf94-0b33424a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WXS"	FALSE
"5310"	"ARHGEF10"	9639	"mskcc.org"	"GRCh37"	"8"	1805888	1805889	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11379451"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.38-235dupT"	""	""	"ENST00000349830"	""	9	"."	5	1	"."	0	"ARHGEF10,intron_variant,,ENST00000518288,;ARHGEF10,intron_variant,,ENST00000349830,NM_014629.2;ARHGEF10,intron_variant,,ENST00000398564,;ARHGEF10,intron_variant,,ENST00000520359,;ARHGEF10,intron_variant,,ENST00000262112,;ARHGEF10,intron_variant,,ENST00000398560,;ARHGEF10,upstream_gene_variant,,ENST00000382795,;ARHGEF10,upstream_gene_variant,,ENST00000522969,;ARHGEF10,upstream_gene_variant,,ENST00000520972,;"	"T"	"ENSG00000104728"	"ENST00000349830"	"Transcript"	"intron_variant"	"-/5590"	"-/4035"	"-/1344"	""	""	"rs11379451"	"1"	NA	1	"ARHGEF10"	"HGNC"	14103	"protein_coding"	"YES"	"CCDS34794.1"	"ENSP00000340297"	"O15013"	""	"UPI00005054FE"	"NM_014629.2"	NA	NA	""	"2/28"	""	"-:0.2422"	"T:0.8828"	"T:0.6383"	NA	"T:0.7143"	"T:0.6928"	"T:0.7853"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"7332aed2-280f-11e6-949c-cfda414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"5311"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	2910315	2910326	"+"	"Intron"	"DEL"	"TTTCTGGAGACA"	"TTTCTGGAGACA"	"CCGGAGAC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTTCTGGAGACA"	"TTTCTGGAGACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7475-157_7475-146delTGTCTCCAGAAAinsGTCTCCGG"	""	""	"ENST00000537824"	""	27	"."	3	12	"."	0	"CSMD1,intron_variant,,ENST00000335551,;CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;"	"CCGGAGAC"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	""	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	NA	NA	""	"49/69"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTCTGGAGACAA"	"7282a6b8-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WXS"	FALSE
"5312"	"AGPAT5"	55326	"mskcc.org"	"GRCh37"	"8"	6582189	6582195	"+"	"Intron"	"DEL"	"ACCGTTA"	"-"	"-"	"rs66771516"	NA	"JHCCPT5"	"JHCCPN5"	"ACCGTTA"	"ACCGTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.220-199_220-193delGTTAACC"	""	""	"ENST00000285518"	""	9	"."	9	3	"."	0	"AGPAT5,intron_variant,,ENST00000285518,NM_018361.3;AGPAT5,intron_variant,,ENST00000518327,;AGPAT5,intron_variant,,ENST00000523234,;AGPAT5,intron_variant,,ENST00000523586,;"	"-"	"ENSG00000155189"	"ENST00000285518"	"Transcript"	"intron_variant"	"-/3682"	"-/1095"	"-/364"	""	""	"rs66771516"	"1"	NA	1	"AGPAT5"	"HGNC"	20886	"protein_coding"	"YES"	"CCDS34796.1"	"ENSP00000285518"	"Q9NUQ2"	"Q6NUM7"	"UPI000003B4CB"	"NM_018361.3"	NA	NA	""	"1/7"	""	"ACCGTTA:0.2618"	"-:0.8351"	"-:0.7997"	NA	"-:0.7857"	"-:0.671"	"-:0.5838"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTACCGTTAA"	"6564c1fa-280f-11e6-949c-cfda414a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"5313"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	9890511	9890511	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs111786890"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"."	6	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs111786890"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.2812"	"-:0.4629"	"-:0.1527"	NA	"-:0.3056"	"-:0.1958"	"-:0.1892"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCC"	"65b9ef2c-280f-11e6-949c-cfda414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WXS"	FALSE
"5314"	"SGCZ"	137868	"mskcc.org"	"GRCh37"	"8"	15047843	15047844	"+"	"Intron"	"INS"	"-"	"-"	"TTCATTCA"	"rs150222549"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.39+47243_39+47250dupTGAATGAA"	""	""	"ENST00000382080"	""	6	"."	4	2	"."	0	"SGCZ,intron_variant,,ENST00000382080,NM_139167.2;"	"TTCATTCA"	"ENSG00000185053"	"ENST00000382080"	"Transcript"	"intron_variant"	"-/2234"	"-/939"	"-/312"	""	""	"rs150222549"	"1"	NA	-1	"SGCZ"	"HGNC"	14075	"protein_coding"	"YES"	"CCDS5992.2"	"ENSP00000371512"	"Q96LD1"	""	"UPI00002339F6"	"NM_139167.2"	NA	NA	""	"1/7"	""	"TTCATTCA:0.1452"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"73eea2b8-280f-11e6-949c-cfda414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5315"	"ZDHHC2"	51201	"mskcc.org"	"GRCh37"	"8"	17057018	17057019	"+"	"Intron"	"INS"	"-"	"-"	"TCGTCTTCGTCTTCGTCTTCG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.476+1098_476+1099insGTCTTCGTCTTCGTCTTCGTC"	""	""	"ENST00000262096"	""	32	"."	5	5	"."	0	"ZDHHC2,intron_variant,,ENST00000262096,NM_016353.4;ZDHHC2,intron_variant,,ENST00000522184,;"	"TCGTCTTCGTCTTCGTCTTCG"	"ENSG00000104219"	"ENST00000262096"	"Transcript"	"intron_variant"	"-/6377"	"-/1104"	"-/367"	""	""	""	"1"	NA	1	"ZDHHC2"	"HGNC"	18469	"protein_coding"	"YES"	"CCDS47810.1"	"ENSP00000262096"	"Q9UIJ5"	"E5RFZ7,B3KMD6"	"UPI000004A02F"	"NM_016353.4"	NA	NA	""	"6/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"740c7ed2-280f-11e6-949c-cfda414a729f"	"294"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WXS"	FALSE
"5316"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	19723333	19723346	"+"	"IGR"	"DEL"	"AAAGAAAGAAAGAA"	"AAAGAAAGAAAGAA"	"-"	"rs140799035"	NA	"JHCCPT5"	"JHCCPN5"	"AAAGAAAGAAAGAA"	"AAAGAAAGAAAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140799035"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0419"	"-:0.1513"	"-:0.0115"	NA	"-:0"	"-:0.002"	"-:0"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAAGAAAGAAAGAAA"	"66d31f32-280f-11e6-949c-cfda414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5317"	"FGF17"	8822	"mskcc.org"	"GRCh37"	"8"	21906580	21906585	"+"	"3'Flank"	"DEL"	"GGGGCC"	"GGGGCC"	"-"	"rs200363538"	NA	"JHCCPT5"	"JHCCPN5"	"GGGGCC"	"GGGGCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000359441"	""	9	"."	3	2	"."	0	"DMTN,5_prime_UTR_variant,,ENST00000522148,;DMTN,upstream_gene_variant,,ENST00000381470,NM_001114137.1;FGF17,downstream_gene_variant,,ENST00000359441,NM_003867.2;FGF17,downstream_gene_variant,,ENST00000518533,;DMTN,upstream_gene_variant,,ENST00000523300,;DMTN,upstream_gene_variant,,ENST00000519850,;FGF17,downstream_gene_variant,,ENST00000521709,;FGF17,downstream_gene_variant,,ENST00000524314,;DMTN,upstream_gene_variant,,ENST00000519959,;"	"-"	"ENSG00000158815"	"ENST00000359441"	"Transcript"	"downstream_gene_variant"	"-/1714"	"-/651"	"-/216"	""	""	"rs200363538"	"1"	"260"	1	"FGF17"	"HGNC"	3673	"protein_coding"	"YES"	"CCDS6019.1"	"ENSP00000352414"	"O60258"	""	"UPI000012A71F"	"NM_003867.2"	NA	NA	""	""	""	"-:0.2097"	"-:0.323"	"-:0.2061"	NA	"-:0.123"	"-:0.1918"	"-:0.1667"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAGGGGCCG"	"6712a9e0-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5318"	"DOCK5"	80005	"mskcc.org"	"GRCh37"	"8"	25154317	25154318	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.606+166_606+167delAT"	""	""	"ENST00000276440"	""	51	"."	3	31	"."	0	"DOCK5,intron_variant,,ENST00000276440,NM_024940.6;DOCK5,intron_variant,,ENST00000481100,;DOCK5,upstream_gene_variant,,ENST00000444569,;DOCK5,intron_variant,,ENST00000495236,;"	"-"	"ENSG00000147459"	"ENST00000276440"	"Transcript"	"intron_variant"	"-/10075"	"-/5613"	"-/1870"	""	""	""	"1"	NA	1	"DOCK5"	"HGNC"	23476	"protein_coding"	"YES"	"CCDS6047.1"	"ENSP00000276440"	"Q9H7D0"	""	"UPI000022D4F3"	"NM_024940.6"	NA	NA	""	"7/51"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"13"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTAT"	"67cc8ebe-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WXS"	FALSE
"5319"	"EBF2"	64641	"mskcc.org"	"GRCh37"	"8"	25720582	25720585	"+"	"Intron"	"DEL"	"AATT"	"AATT"	"-"	"rs148853542"	NA	"JHCCPT5"	"JHCCPN5"	"AATT"	"AATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1010-272_1010-269delAATT"	""	""	"ENST00000520164"	""	11	"."	3	6	"."	0	"EBF2,intron_variant,,ENST00000520164,NM_022659.3;EBF2,intron_variant,,ENST00000408929,;EBF2,intron_variant,,ENST00000535548,;"	"-"	"ENSG00000221818"	"ENST00000520164"	"Transcript"	"intron_variant"	"-/5145"	"-/1728"	"-/575"	""	""	"rs148853542"	"1"	NA	-1	"EBF2"	"HGNC"	19090	"protein_coding"	"YES"	"CCDS43726.1"	"ENSP00000430241"	"Q9HAK2"	"B7Z934,B2RNT0"	"UPI0000DD7EC9"	"NM_022659.3"	NA	NA	""	"10/15"	""	"-:0.2796"	"-:0.3169"	"-:0.1873"	NA	"-:0.1706"	"-:0.3082"	"-:0.3773"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAATTA"	"67e37b92-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"5320"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	37089097	37089101	"+"	"IGR"	"DEL"	"AGGAG"	"AGGAG"	"-"	"rs36215666"	NA	"JHCCPT5"	"JHCCPN5"	"AGGAG"	"AGGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	4	11	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs36215666"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3644"	"-:0.4493"	"-:0.4063"	NA	"-:0.2123"	"-:0.4642"	"-:0.274"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGGAGA"	"690fac84-280f-11e6-949c-cfda414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"5321"	"IDO2"	169355	"mskcc.org"	"GRCh37"	"8"	39792365	39792365	"+"	"5'Flank"	"DEL"	"T"	"T"	"-"	"rs67170328"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000502986"	""	13	"."	4	6	"."	0	"IDO2,upstream_gene_variant,,ENST00000502986,NM_194294.2;RP11-44K6.3,intron_variant,,ENST00000517623,;IDO2,non_coding_transcript_exon_variant,,ENST00000343295,;"	"-"	"ENSG00000188676"	"ENST00000502986"	"Transcript"	"upstream_gene_variant"	"-/2294"	"-/1263"	"-/420"	""	""	"rs67170328"	"1"	"109"	1	"IDO2"	"HGNC"	27269	"protein_coding"	"YES"	""	"ENSP00000443432"	""	"F5H5G0"	"UPI000152B4F4"	"NM_194294.2"	NA	NA	""	""	""	"-:0.4353"	"-:0.3896"	"-:0.3444"	NA	"-:0.5208"	"-:0.3926"	"-:0.5174"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTT"	"699bc520-280f-11e6-949c-cfda414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WXS"	FALSE
"5322"	"AGPAT6"	137964	"mskcc.org"	"GRCh37"	"8"	41468570	41468571	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs11389883"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.611+243dupC"	""	""	"ENST00000396987"	""	12	"."	5	1	"."	0	"AGPAT6,intron_variant,,ENST00000396987,NM_178819.3;AGPAT6,downstream_gene_variant,,ENST00000519853,;RP11-360L9.8,intron_variant,,ENST00000581909,;AGPAT6,intron_variant,,ENST00000519921,;AGPAT6,intron_variant,,ENST00000521806,;AGPAT6,intron_variant,,ENST00000523906,;"	"C"	"ENSG00000158669"	"ENST00000396987"	"Transcript"	"intron_variant"	"-/6298"	"-/1371"	"-/456"	""	""	"rs11389883"	"1"	NA	1	"AGPAT6"	"HGNC"	20880	"protein_coding"	"YES"	"CCDS6117.1"	"ENSP00000380184"	"Q86UL3"	"Q8NDD3,Q2TU73,E5RIA1,E5RHA6,E5RGW3"	"UPI0000047FDD"	"NM_178819.3"	NA	NA	""	"5/12"	""	"C:0.4651"	"C:0.5908"	"C:0.3689"	NA	"C:0.4673"	"C:0.4423"	"C:0.3845"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"7665d688-280f-11e6-949c-cfda414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"5323"	"RP11-359P18.2"	0	"mskcc.org"	"GRCh37"	"8"	43106891	43106892	"+"	"RNA"	"DEL"	"AT"	"AT"	"-"	"rs34996482"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.38_39delAT"	""	""	"ENST00000523940"	"1/1"	12	"."	8	1	"."	0	"RP11-359P18.2,non_coding_transcript_exon_variant,,ENST00000523940,;RP11-726G23.3,upstream_gene_variant,,ENST00000523185,;RP11-726G23.11,downstream_gene_variant,,ENST00000525383,;RP11-726G23.2,upstream_gene_variant,,ENST00000518796,;"	"-"	"ENSG00000253312"	"ENST00000523940"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"38-39/148"	""	""	""	""	"rs34996482"	"1"	NA	1	"RP11-359P18.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	"AT:0.3077"	"-:0.3858"	"-:0.7363"	NA	"-:0.7986"	"-:0.8887"	"-:0.7638"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATG"	"69fa1da0-280f-11e6-949c-cfda414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5324"	"EFCAB1"	79645	"mskcc.org"	"GRCh37"	"8"	49644275	49644275	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs5891282"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.59-213delT"	""	""	"ENST00000262103"	""	9	"."	6	1	"."	0	"EFCAB1,intron_variant,,ENST00000433756,NM_001142857.1;EFCAB1,intron_variant,,ENST00000262103,NM_024593.3;EFCAB1,intron_variant,,ENST00000523092,;EFCAB1,upstream_gene_variant,,ENST00000522254,;EFCAB1,upstream_gene_variant,,ENST00000523008,;EFCAB1,intron_variant,,ENST00000521002,;EFCAB1,intron_variant,,ENST00000521721,;EFCAB1,intron_variant,,ENST00000521701,;EFCAB1,upstream_gene_variant,,ENST00000519425,;"	"-"	"ENSG00000034239"	"ENST00000262103"	"Transcript"	"intron_variant"	"-/2051"	"-/636"	"-/211"	""	""	"rs5891282"	"1"	NA	-1	"EFCAB1"	"HGNC"	25678	"protein_coding"	"YES"	"CCDS6145.1"	"ENSP00000262103"	"Q9HAE3"	""	"UPI000006E520"	"NM_024593.3"	NA	NA	""	"1/5"	""	"A:0.0036"	"-:1"	"-:0.9914"	NA	"-:1"	"-:0.9891"	"-:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"6a27ae14-280f-11e6-949c-cfda414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5325"	"SNTG1"	54212	"mskcc.org"	"GRCh37"	"8"	51415654	51415654	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs59085637"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.466+215delC"	""	""	"ENST00000522124"	""	9	"."	4	2	"."	0	"SNTG1,intron_variant,,ENST00000522124,NM_018967.2,NM_001287813.1;SNTG1,intron_variant,,ENST00000518864,;SNTG1,intron_variant,,ENST00000517473,NM_001287814.1;SNTG1,intron_variant,,ENST00000276467,;SNTG1,intron_variant,,ENST00000520825,;"	"-"	"ENSG00000147481"	"ENST00000522124"	"Transcript"	"intron_variant"	"-/3504"	"-/1554"	"-/517"	""	""	"rs59085637"	"1"	NA	1	"SNTG1"	"HGNC"	13740	"protein_coding"	"YES"	"CCDS6147.1"	"ENSP00000429842"	"Q9NSN8"	"E5RIN0"	"UPI000004A0DD"	"NM_018967.2,NM_001287813.1"	NA	NA	""	"9/18"	""	"-:0.1436"	"-:0.3729"	"-:0.0461"	NA	"-:0.0317"	"-:0.0596"	"-:0.1043"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACC"	"6a2c0892-280f-11e6-949c-cfda414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"5326"	"SNTG1"	54212	"mskcc.org"	"GRCh37"	"8"	51448896	51448896	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs143890516"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.550-341delA"	""	""	"ENST00000522124"	""	10	"."	5	5	"."	0	"SNTG1,intron_variant,,ENST00000522124,NM_018967.2,NM_001287813.1;SNTG1,intron_variant,,ENST00000518864,;SNTG1,intron_variant,,ENST00000517473,NM_001287814.1;SNTG1,intron_variant,,ENST00000276467,;SNTG1,intron_variant,,ENST00000520825,;"	"-"	"ENSG00000147481"	"ENST00000522124"	"Transcript"	"intron_variant"	"-/3504"	"-/1554"	"-/517"	""	""	"rs143890516"	"1"	NA	1	"SNTG1"	"HGNC"	13740	"protein_coding"	"YES"	"CCDS6147.1"	"ENSP00000429842"	"Q9NSN8"	"E5RIN0"	"UPI000004A0DD"	"NM_018967.2,NM_001287813.1"	NA	NA	""	"10/18"	""	"-:0.0449"	"-:0.0885"	"-:0.0231"	NA	"-:0"	"-:0.0358"	"-:0.0573"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"6a2cdba0-280f-11e6-949c-cfda414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5327"	"SNTG1"	54212	"mskcc.org"	"GRCh37"	"8"	51573103	51573103	"+"	"Intron"	"DEL"	"G"	"-"	"-"	"rs11306079"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1038+1880delG"	""	""	"ENST00000522124"	""	10	"."	7	1	"."	0	"SNTG1,intron_variant,,ENST00000522124,NM_018967.2,NM_001287813.1;SNTG1,intron_variant,,ENST00000518864,;SNTG1,intron_variant,,ENST00000517473,NM_001287814.1;SNTG1,intron_variant,,ENST00000276467,;SNTG1,intron_variant,,ENST00000520825,;SNTG1,intron_variant,,ENST00000524004,;"	"-"	"ENSG00000147481"	"ENST00000522124"	"Transcript"	"intron_variant"	"-/3504"	"-/1554"	"-/517"	""	""	"rs11306079"	"1"	NA	1	"SNTG1"	"HGNC"	13740	"protein_coding"	"YES"	"CCDS6147.1"	"ENSP00000429842"	"Q9NSN8"	"E5RIN0"	"UPI000004A0DD"	"NM_018967.2,NM_001287813.1"	NA	NA	""	"15/18"	""	"-:0.3968"	"-:0.7133"	"-:0.2305"	NA	"-:0.2917"	"-:0.1978"	"-:0.3998"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGA"	"6a31d7b8-280f-11e6-949c-cfda414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"5328"	"PXDNL"	137902	"mskcc.org"	"GRCh37"	"8"	52657297	52657328	"+"	"Intron"	"DEL"	"AAAGAGAAAAGAAAAGAGAGAGAAAGAAGGAA"	"AAAGAGAAAAGAAAAGAGAGAGAAAGAAGGAA"	"GAAAAGAAAAGAGAGAGAAAGAAGGAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAAGAGAAAAGAAAAGAGAGAGAAAGAAGGAA"	"AAAGAGAAAAGAAAAGAGAGAGAAAGAAGGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.164+64440_164+64444delTCTTT"	""	""	"ENST00000356297"	""	11	"."	3	3	"."	0	"PXDNL,intron_variant,,ENST00000356297,NM_144651.4;PXDNL,intron_variant,,ENST00000543296,;"	"-"	"ENSG00000147485"	"ENST00000356297"	"Transcript"	"intron_variant"	"-/4805"	"-/4392"	"-/1463"	""	""	""	"1"	NA	-1	"PXDNL"	"HGNC"	26359	"protein_coding"	"YES"	"CCDS47855.1"	"ENSP00000348645"	"A1KZ92"	""	"UPI0001AE6ED6"	"NM_144651.4"	NA	NA	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAAGAGAAAAGAAAAGAGAGAGAAAGAAGGAAG"	"72a99430-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"5329"	"RP11-162D9.3"	0	"mskcc.org"	"GRCh37"	"8"	54130464	54130464	"+"	"Intron"	"DEL"	"G"	"-"	"-"	"rs60809798"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.670+1407delG"	""	""	"ENST00000524425"	""	10	"."	7	2	"."	0	"RP11-162D9.3,intron_variant,,ENST00000524425,;RP11-162D9.3,downstream_gene_variant,,ENST00000529837,;"	"-"	"ENSG00000254687"	"ENST00000524425"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/826"	""	""	""	""	"rs60809798"	"1"	NA	1	"RP11-162D9.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"6a511de4-280f-11e6-949c-cfda414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.7	"WXS"	FALSE
"5330"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	54260132	54260132	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs140377207"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140377207"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1749"	"-:0.1838"	"-:0.2536"	NA	"-:0.1181"	"-:0.1123"	"-:0.2301"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTT"	"6a51f37c-280f-11e6-949c-cfda414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5331"	"CLVS1"	157807	"mskcc.org"	"GRCh37"	"8"	62244383	62244385	"+"	"Intron"	"DEL"	"TCC"	"TCC"	"-"	"rs756776294"	NA	"JHCCPT5"	"JHCCPN5"	"TCC"	"TCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.455+31567_455+31569delCCT"	""	""	"ENST00000519846"	""	15	"."	3	5	"."	0	"CLVS1,intron_variant,,ENST00000519846,;CLVS1,intron_variant,,ENST00000325897,NM_173519.2;CLVS1,intron_variant,,ENST00000518592,;CLVS1,intron_variant,,ENST00000521189,;"	"-"	"ENSG00000177182"	"ENST00000519846"	"Transcript"	"intron_variant"	"-/3622"	"-/1065"	"-/354"	""	""	"rs756776294"	"1"	NA	1	"CLVS1"	"HGNC"	23139	"protein_coding"	"YES"	"CCDS6176.1"	"ENSP00000428402"	"Q8IUQ0"	"G3V122,E5RK22,E5RI68"	"UPI000007472D"	""	NA	NA	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"25"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTCCT"	"6adf0398-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"5332"	"CYP7B1"	9420	"mskcc.org"	"GRCh37"	"8"	65581885	65581886	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs72488769"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.123-44790dupT"	""	""	"ENST00000310193"	""	8	"."	5	1	"."	0	"CYP7B1,intron_variant,,ENST00000310193,NM_004820.3;"	"A"	"ENSG00000172817"	"ENST00000310193"	"Transcript"	"intron_variant"	"-/2202"	"-/1521"	"-/506"	""	""	"rs72488769"	"1"	NA	-1	"CYP7B1"	"HGNC"	2652	"protein_coding"	"YES"	"CCDS6180.1"	"ENSP00000310721"	"O75881"	""	"UPI0000128218"	"NM_004820.3"	NA	NA	""	"1/5"	""	"A:0.1118"	"A:0.0651"	"A:0.0836"	NA	"A:0.1637"	"A:0.0517"	"A:0.2035"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"7777bd48-280f-11e6-949c-cfda414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"5333"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	65923300	65923304	"+"	"IGR"	"DEL"	"TTTTC"	"TTTTC"	"-"	"rs562059662"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTC"	"TTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"."	3	3	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs562059662"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTTTCC"	"6b13038c-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"5334"	"RNU1-101P"	0	"mskcc.org"	"GRCh37"	"8"	70990047	70990048	"+"	"3'Flank"	"INS"	"-"	"-"	"TTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000391171"	""	24	"."	7	6	"."	0	"RNU1-101P,downstream_gene_variant,,ENST00000391171,;"	"TTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTC"	"ENSG00000212473"	"ENST00000391171"	"Transcript"	"downstream_gene_variant"	"-/127"	""	""	""	""	""	"1"	"93"	-1	"RNU1-101P"	"HGNC"	48443	"snRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"77b1800a-280f-11e6-949c-cfda414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WXS"	FALSE
"5335"	"LACTB2"	51110	"mskcc.org"	"GRCh37"	"8"	71580992	71580993	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs141269253"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.122+241_122+242insC"	""	""	"ENST00000276590"	""	16	"."	3	6	"."	0	"LACTB2,intron_variant,,ENST00000276590,NM_016027.2;LACTB2,intron_variant,,ENST00000522447,;XKR9,upstream_gene_variant,,ENST00000408926,NM_001011720.1,NM_001287260.1,NM_001287259.1;XKR9,upstream_gene_variant,,ENST00000520030,;XKR9,upstream_gene_variant,,ENST00000519350,;XKR9,upstream_gene_variant,,ENST00000520273,;XKR9,upstream_gene_variant,,ENST00000520092,;"	"G"	"ENSG00000147592"	"ENST00000276590"	"Transcript"	"intron_variant"	"-/1508"	"-/867"	"-/288"	""	""	"rs141269253"	"1"	NA	-1	"LACTB2"	"HGNC"	18512	"protein_coding"	"YES"	"CCDS6208.1"	"ENSP00000276590"	"Q53H82"	""	"UPI00000382DA"	"NM_016027.2"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"77bdf218-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WXS"	FALSE
"5336"	"RP11-6I2.3"	0	"mskcc.org"	"GRCh37"	"8"	74966775	74966798	"+"	"Intron"	"DEL"	"CTTCCTTCCTTCCTTCCTTCCTTT"	"CTTCCTTCCTTCCTTCCTTCCTTT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CTTCCTTCCTTCCTTCCTTCCTTT"	"CTTCCTTCCTTCCTTCCTTCCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.303+1903_303+1926delTTCCTTCCTTCCTTCCTTTCTTCC"	""	""	"ENST00000519323"	""	7	"."	3	1	"."	0	"RP11-6I2.3,intron_variant,,ENST00000519323,;RPS3AP32,upstream_gene_variant,,ENST00000479876,;"	"-"	"ENSG00000254288"	"ENST00000519323"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/738"	""	""	""	""	""	"1"	NA	1	"RP11-6I2.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTCCTTCCTTCCTTCCTTCCTTTC"	"6bc01d74-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5337"	"ZC2HC1A"	51101	"mskcc.org"	"GRCh37"	"8"	79629738	79629738	"+"	"3'UTR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*10delC"	""	""	"ENST00000263849"	"9/9"	159	"."	3	76	"."	0	"ZC2HC1A,3_prime_UTR_variant,,ENST00000263849,NM_016010.2;ZC2HC1A,downstream_gene_variant,,ENST00000519307,;IL7,intron_variant,,ENST00000523959,;IL7,downstream_gene_variant,,ENST00000519833,;"	"-"	"ENSG00000104427"	"ENST00000263849"	"Transcript"	"3_prime_UTR_variant"	"1090/3352"	"-/978"	"-/325"	""	""	""	"1"	NA	1	"ZC2HC1A"	"HGNC"	24277	"protein_coding"	"YES"	"CCDS6223.1"	"ENSP00000263849"	"Q96GY0"	""	"UPI000013D475"	"NM_016010.2"	NA	NA	"9/9"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCA"	"6bf39492-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL99.50to99.90"	"FALSE"	0.0188679245283019	"WXS"	FALSE
"5338"	"HEY1"	23462	"mskcc.org"	"GRCh37"	"8"	80678498	80678533	"+"	"Intron"	"DEL"	"TGTGGCAGCACCTTTTTTTTAAAATCCCGTATACCA"	"TGTGGCAGCACCTTTTTTTTAAAATCCCGTATACCA"	"GCACCTTTTTTTTAAAATCCCGTATACC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGGCAGCACCTTTTTTTTAAAATCCCGTATACCA"	"TGTGGCAGCACCTTTTTTTTAAAATCCCGTATACCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.343+353_343+388delTGGTATACGGGATTTTAAAAAAAAGGTGCTGCCACAinsGGTATACGGGATTTTAAAAAAAAGGTGC"	""	""	"ENST00000337919"	""	159	"."	20	63	"."	0	"HEY1,coding_sequence_variant,,ENST00000523976,NM_001282851.1;HEY1,intron_variant,,ENST00000337919,NM_001040708.1;HEY1,intron_variant,,ENST00000354724,NM_012258.3;HEY1,intron_variant,,ENST00000518733,;RP11-26J3.1,downstream_gene_variant,,ENST00000502766,;RP11-27N21.3,upstream_gene_variant,,ENST00000607172,;HEY1,intron_variant,,ENST00000435063,;HEY1,downstream_gene_variant,,ENST00000519075,;HEY1,downstream_gene_variant,,ENST00000521111,;HEY1,downstream_gene_variant,,ENST00000523531,;"	"GCACCTTTTTTTTAAAATCCCGTATACC"	"ENSG00000164683"	"ENST00000337919"	"Transcript"	"intron_variant"	"-/2296"	"-/927"	"-/308"	""	""	""	"1"	NA	-1	"HEY1"	"HGNC"	4880	"protein_coding"	"YES"	"CCDS43749.1"	"ENSP00000338272"	"Q9Y5J3"	""	"UPI000014195F"	"NM_001040708.1"	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATGTGGCAGCACCTTTTTTTTAAAATCCCGTATACCAA"	"72c71816-280f-11e6-949c-cfda414a729f"	"1200"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125786163522013	"WXS"	TRUE
"5339"	"HEY1"	23462	"mskcc.org"	"GRCh37"	"8"	80678498	80678533	"+"	"Intron"	"DEL"	"TGTGGCAGCACCTTTTTTTTAAAATCCCGTATACCA"	"TGTGGCAGCACCTTTTTTTTAAAATCCCGTATACCA"	"GCACCTTTTTTTTAAAATCCCGTATACC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGGCAGCACCTTTTTTTTAAAATCCCGTATACCA"	"TGTGGCAGCACCTTTTTTTTAAAATCCCGTATACCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.343+353_343+388delTGGTATACGGGATTTTAAAAAAAAGGTGCTGCCACAinsGGTATACGGGATTTTAAAAAAAAGGTGC"	""	""	"ENST00000337919"	""	159	"."	18	63	"."	0	"HEY1,coding_sequence_variant,,ENST00000523976,NM_001282851.1;HEY1,intron_variant,,ENST00000337919,NM_001040708.1;HEY1,intron_variant,,ENST00000354724,NM_012258.3;HEY1,intron_variant,,ENST00000518733,;RP11-26J3.1,downstream_gene_variant,,ENST00000502766,;RP11-27N21.3,upstream_gene_variant,,ENST00000607172,;HEY1,intron_variant,,ENST00000435063,;HEY1,downstream_gene_variant,,ENST00000519075,;HEY1,downstream_gene_variant,,ENST00000521111,;HEY1,downstream_gene_variant,,ENST00000523531,;"	"GCACCTTTTTTTTAAAATCCCGTATACC"	"ENSG00000164683"	"ENST00000337919"	"Transcript"	"intron_variant"	"-/2296"	"-/927"	"-/308"	""	""	""	"1"	NA	-1	"HEY1"	"HGNC"	4880	"protein_coding"	"YES"	"CCDS43749.1"	"ENSP00000338272"	"Q9Y5J3"	""	"UPI000014195F"	"NM_001040708.1"	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATGTGGCAGCACCTTTTTTTTAAAATCCCGTATACCAA"	"72ce2322-280f-11e6-949c-cfda414a729f"	"1080"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113207547169811	"WXS"	TRUE
"5340"	"HEY1"	23462	"mskcc.org"	"GRCh37"	"8"	80678498	80678533	"+"	"Intron"	"DEL"	"TGTGGCAGCACCTTTTTTTTAAAATCCCGTATACCA"	"TGTGGCAGCACCTTTTTTTTAAAATCCCGTATACCA"	"GCACCTTTTTTTTAAAATCCCGTATACC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGGCAGCACCTTTTTTTTAAAATCCCGTATACCA"	"TGTGGCAGCACCTTTTTTTTAAAATCCCGTATACCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.343+353_343+388delTGGTATACGGGATTTTAAAAAAAAGGTGCTGCCACAinsGGTATACGGGATTTTAAAAAAAAGGTGC"	""	""	"ENST00000337919"	""	158	"."	41	63	"."	0	"HEY1,coding_sequence_variant,,ENST00000523976,NM_001282851.1;HEY1,intron_variant,,ENST00000337919,NM_001040708.1;HEY1,intron_variant,,ENST00000354724,NM_012258.3;HEY1,intron_variant,,ENST00000518733,;RP11-26J3.1,downstream_gene_variant,,ENST00000502766,;RP11-27N21.3,upstream_gene_variant,,ENST00000607172,;HEY1,intron_variant,,ENST00000435063,;HEY1,downstream_gene_variant,,ENST00000519075,;HEY1,downstream_gene_variant,,ENST00000521111,;HEY1,downstream_gene_variant,,ENST00000523531,;"	"GCACCTTTTTTTTAAAATCCCGTATACC"	"ENSG00000164683"	"ENST00000337919"	"Transcript"	"intron_variant"	"-/2296"	"-/927"	"-/308"	""	""	""	"1"	NA	-1	"HEY1"	"HGNC"	4880	"protein_coding"	"YES"	"CCDS43749.1"	"ENSP00000338272"	"Q9Y5J3"	""	"UPI000014195F"	"NM_001040708.1"	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATGTGGCAGCACCTTTTTTTTAAAATCCCGTATACCAA"	"72cfdd52-280f-11e6-949c-cfda414a729f"	"2460"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259493670886076	"WXS"	TRUE
"5341"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	84171308	84171309	"+"	"IGR"	"INS"	"-"	"-"	"TGATCCACCTGCCTCGG"	"rs147841560"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	1	"."	0	""	"TGATCCACCTGCCTCGG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147841560"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0819"	"TGATCCACCTGCCTCGG:0.9592"	"TGATCCACCTGCCTCGG:0.8689"	NA	"TGATCCACCTGCCTCGG:0.869"	"TGATCCACCTGCCTCGG:0.9583"	"TGATCCACCTGCCTCGG:0.907"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"783aeb74-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5342"	"CA2"	760	"mskcc.org"	"GRCh37"	"8"	86375998	86375999	"+"	"5'Flank"	"INS"	"-"	"-"	"GGAGCCCC"	"rs77895131"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000285379"	""	23	"."	3	11	"."	0	"CA2,upstream_gene_variant,,ENST00000285379,NM_000067.2;RP11-317J10.2,intron_variant,,ENST00000521761,;RP11-317J10.2,intron_variant,,ENST00000517697,;RP11-317J10.2,upstream_gene_variant,,ENST00000524052,;CA2,upstream_gene_variant,,ENST00000520127,;CA2,upstream_gene_variant,,ENST00000522742,;CA2,upstream_gene_variant,,ENST00000520996,;CA2,upstream_gene_variant,,ENST00000518231,;"	"GGAGCCCC"	"ENSG00000104267"	"ENST00000285379"	"Transcript"	"upstream_gene_variant"	"-/1717"	"-/783"	"-/260"	""	""	"rs77895131"	"1"	"82"	1	"CA2"	"HGNC"	1373	"protein_coding"	"YES"	"CCDS6239.1"	"ENSP00000285379"	"P00918"	""	"UPI0000110BA2"	"NM_000067.2"	NA	NA	""	""	""	"GGAGCCCC:0.4820"	"GGAGCCCC:0.5651"	"GGAGCCCC:0.5058"	NA	"GGAGCCCC:0.4187"	"GGAGCCCC:0.5477"	"GGAGCCCC:0.3507"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"78533b84-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"5343"	"INTS8"	55656	"mskcc.org"	"GRCh37"	"8"	95849073	95849074	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"rs149765435"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.861+219_861+220delCT"	""	""	"ENST00000523731"	""	15	"."	8	5	"."	0	"INTS8,intron_variant,,ENST00000523731,NM_017864.3;INTS8,intron_variant,,ENST00000447247,;INTS8,intron_variant,,ENST00000520526,;INTS8,downstream_gene_variant,,ENST00000522171,;INTS8,downstream_gene_variant,,ENST00000519457,;INTS8,downstream_gene_variant,,ENST00000519053,;INTS8,downstream_gene_variant,,ENST00000521860,;INTS8,intron_variant,,ENST00000343161,;INTS8,intron_variant,,ENST00000523206,;INTS8,intron_variant,,ENST00000524333,;INTS8,intron_variant,,ENST00000523321,;"	"-"	"ENSG00000164941"	"ENST00000523731"	"Transcript"	"intron_variant"	"-/4633"	"-/2988"	"-/995"	""	""	"rs149765435"	"1"	NA	1	"INTS8"	"HGNC"	26048	"protein_coding"	"YES"	"CCDS34925.1"	"ENSP00000430338"	"Q75QN2"	"E5RJL5,B3KRB0"	"UPI000023B7D0"	"NM_017864.3"	NA	NA	""	"7/26"	""	"-:0.1148"	"-:0.1309"	"-:0.0793"	NA	"-:0.0486"	"-:0.17"	"-:0.1299"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCT"	"6d20a684-280f-11e6-949c-cfda414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.533333333333333	"WXS"	FALSE
"5344"	"ENSR00001396788"	0	"mskcc.org"	"GRCh37"	"8"	97116093	97116094	"+"	"IGR"	"INS"	"-"	"-"	"AAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001396788"	""	6	"."	3	3	"."	0	""	"AAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAG"	""	"ENSR00001396788"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"78cbce64-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5345"	"GDF6"	392255	"mskcc.org"	"GRCh37"	"8"	97166757	97166757	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.406+5758delC"	""	""	"ENST00000287020"	""	6	"."	4	1	"."	0	"GDF6,intron_variant,,ENST00000287020,NM_001001557.2;"	"-"	"ENSG00000156466"	"ENST00000287020"	"Transcript"	"intron_variant"	"-/3697"	"-/1368"	"-/455"	""	""	""	"1"	NA	-1	"GDF6"	"HGNC"	4221	"protein_coding"	"YES"	"CCDS34926.1"	"ENSP00000287020"	"Q6KF10"	"M1L5L6,M1L0V3"	"UPI0000047253"	"NM_001001557.2"	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAGG"	"6d451fb4-280f-11e6-949c-cfda414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5346"	"CPQ"	10404	"mskcc.org"	"GRCh37"	"8"	98047926	98047930	"+"	"Intron"	"DEL"	"TTGTA"	"TTGTA"	"-"	"rs145789314"	NA	"JHCCPT5"	"JHCCPN5"	"TTGTA"	"TTGTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1053+6208_1053+6212delATTGT"	""	""	"ENST00000220763"	""	7	"."	3	2	"."	0	"CPQ,intron_variant,,ENST00000220763,NM_016134.3;CPQ,intron_variant,,ENST00000522617,;"	"-"	"ENSG00000104324"	"ENST00000220763"	"Transcript"	"intron_variant"	"-/1947"	"-/1419"	"-/472"	""	""	"rs145789314"	"1"	NA	1	"CPQ"	"HGNC"	16910	"protein_coding"	"YES"	"CCDS6273.1"	"ENSP00000220763"	"Q9Y646"	"E5RJZ7,E5RJP8,E5RJA8,E5RH35"	"UPI00000706B8"	"NM_016134.3"	NA	NA	""	"6/7"	""	"TTGTA:0.3119"	"-:0.7799"	"-:0.6556"	NA	"-:0.6885"	"-:0.6968"	"-:0.5777"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTTGTAT"	"6d534e18-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5347"	"POP1"	10940	"mskcc.org"	"GRCh37"	"8"	99148627	99148627	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs113307100"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1012-81delT"	""	""	"ENST00000401707"	""	34	"."	3	13	"."	0	"POP1,intron_variant,,ENST00000401707,NM_001145860.1,NM_001145861.1;POP1,intron_variant,,ENST00000349693,NM_015029.2;"	"-"	"ENSG00000104356"	"ENST00000401707"	"Transcript"	"intron_variant"	"-/4719"	"-/3075"	"-/1024"	""	""	"rs113307100"	"1"	NA	1	"POP1"	"HGNC"	30129	"protein_coding"	"YES"	"CCDS6277.1"	"ENSP00000385787"	"Q99575"	"E5RK39"	"UPI0000131F33"	"NM_001145860.1,NM_001145861.1"	NA	NA	""	"7/15"	""	"-:0.0803"	"-:0.1717"	"-:0.049"	NA	"-:0.0198"	"-:0.0537"	"-:0.0685"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GATT"	"6d6b1fa2-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WXS"	FALSE
"5348"	"SPAG1"	6674	"mskcc.org"	"GRCh37"	"8"	101189035	101189036	"+"	"Intron"	"INS"	"-"	"-"	"CCTCT"	"rs140625738"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.301-978_301-974dupCCTCT"	""	""	"ENST00000388798"	""	9	"."	3	9	"."	0	"SPAG1,intron_variant,,ENST00000388798,NM_003114.4;SPAG1,intron_variant,,ENST00000251809,NM_172218.2;SPAG1,intron_variant,,ENST00000520508,;SPAG1,intron_variant,,ENST00000520643,;"	"CCTCT"	"ENSG00000104450"	"ENST00000388798"	"Transcript"	"intron_variant"	"-/3852"	"-/2781"	"-/926"	""	""	"rs140625738"	"1"	NA	1	"SPAG1"	"HGNC"	11212	"protein_coding"	"YES"	"CCDS34930.1"	"ENSP00000373450"	"Q07617"	""	"UPI000016783D"	"NM_003114.4"	NA	NA	""	"3/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"35"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"79109ecc-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5349"	"AZIN1"	51582	"mskcc.org"	"GRCh37"	"8"	103845700	103845701	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs3214632"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.742-255dupA"	""	""	"ENST00000337198"	""	24	"."	6	6	"."	0	"AZIN1,intron_variant,,ENST00000337198,NM_148174.2;AZIN1,intron_variant,,ENST00000347770,NM_015878.4;AZIN1,downstream_gene_variant,,ENST00000521536,;AZIN1,downstream_gene_variant,,ENST00000522311,;AZIN1,upstream_gene_variant,,ENST00000518697,;AZIN1,downstream_gene_variant,,ENST00000523071,;"	"T"	"ENSG00000155096"	"ENST00000337198"	"Transcript"	"intron_variant"	"-/4721"	"-/1347"	"-/448"	""	""	"rs3214632"	"1"	NA	-1	"AZIN1"	"HGNC"	16432	"protein_coding"	"YES"	"CCDS6295.1"	"ENSP00000337180"	"O14977"	"E5RJ16,E5RIB7"	"UPI00000722AD"	"NM_148174.2"	NA	NA	""	"8/11"	""	"T:0.2774"	"T:0.3328"	"T:0.1888"	NA	"T:0.1488"	"T:0.2624"	"T:0.4131"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"794c8ba8-280f-11e6-949c-cfda414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WXS"	FALSE
"5350"	"RP11-127H5.1"	0	"mskcc.org"	"GRCh37"	"8"	106087280	106087281	"+"	"Intron"	"INS"	"-"	"-"	"TCCTCC"	"rs141914796"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.52+83396_52+83401dupTCCTCC"	""	""	"ENST00000518180"	""	26	"."	3	7	"."	0	"RP11-127H5.1,intron_variant,,ENST00000518180,;"	"TCCTCC"	"ENSG00000253350"	"ENST00000518180"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/596"	"-/120"	"-/39"	""	""	"rs141914796"	"1"	NA	1	"RP11-127H5.1"	"Clone_based_vega_gene"	NA	"nonsense_mediated_decay"	""	""	"ENSP00000429987"	""	"E5RGM9"	"UPI0001E8F5B5"	""	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"18"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"79945fa0-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WXS"	FALSE
"5351"	"ZFPM2"	23414	"mskcc.org"	"GRCh37"	"8"	106816109	106816110	"+"	"3'UTR"	"INS"	"-"	"-"	"ACAA"	"rs577681486"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*344_*347dupACAA"	""	""	"ENST00000407775"	"8/8"	8	"."	3	2	"."	0	"ZFPM2,3_prime_UTR_variant,,ENST00000407775,NM_012082.3;ZFPM2,downstream_gene_variant,,ENST00000520492,;ZFPM2,downstream_gene_variant,,ENST00000517361,;ZFPM2,downstream_gene_variant,,ENST00000378472,;RP11-152P17.2,intron_variant,,ENST00000524045,;RP11-152P17.2,intron_variant,,ENST00000520433,;RP11-152P17.2,intron_variant,,ENST00000518932,;RP11-152P17.2,intron_variant,,ENST00000520594,;RP11-152P17.2,intron_variant,,ENST00000509144,;RP11-152P17.2,intron_variant,,ENST00000521622,;ZFPM2,downstream_gene_variant,,ENST00000522296,;RP11-152P17.2,intron_variant,,ENST00000520078,;"	"ACAA"	"ENSG00000169946"	"ENST00000407775"	"Transcript"	"3_prime_UTR_variant"	"4049-4050/4700"	"-/3456"	"-/1151"	""	""	"rs577681486"	"1"	NA	1	"ZFPM2"	"HGNC"	16700	"protein_coding"	"YES"	"CCDS47908.1"	"ENSP00000384179"	"Q8WW38"	"Q9NPQ0,F5H542,E7ET52,E5RJX0"	"UPI000057A0B4"	"NM_012082.3"	NA	NA	"8/8"	""	""	"ACAA:0.1250"	"ACAA:0.385"	"ACAA:0.0533"	NA	"ACAA:0.0069"	"ACAA:0.0288"	"ACAA:0.045"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"799dfa1a-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"5352"	"PKHD1L1"	93035	"mskcc.org"	"GRCh37"	"8"	110401729	110401742	"+"	"Intron"	"DEL"	"GTGTGTGTGTGTGT"	"GTGTGTGTGTGTGT"	"-"	"rs113537478"	NA	"JHCCPT5"	"JHCCPN5"	"GTGTGTGTGTGTGT"	"GTGTGTGTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.697+382_697+395delGTGTGTGTGTGTGT"	""	""	"ENST00000378402"	""	23	"."	3	4	"."	0	"PKHD1L1,intron_variant,,ENST00000378402,NM_177531.4;"	"-"	"ENSG00000205038"	"ENST00000378402"	"Transcript"	"intron_variant"	"-/13076"	"-/12732"	"-/4243"	""	""	"rs113537478"	"1"	NA	1	"PKHD1L1"	"HGNC"	20313	"protein_coding"	"YES"	"CCDS47911.1"	"ENSP00000367655"	"Q86WI1"	""	"UPI0000E5B020"	"NM_177531.4"	NA	NA	""	"8/77"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"34"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGTGTGTGTGTGTGTG"	"6e9e8e86-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"5353"	"CSMD3"	114788	"mskcc.org"	"GRCh37"	"8"	113842115	113842122	"+"	"Intron"	"DEL"	"CACACACA"	"CACACACA"	"-"	"rs140103189"	NA	"JHCCPT5"	"JHCCPN5"	"CACACACA"	"CACACACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1756-104_1756-97delTGTGTGTG"	""	""	"ENST00000297405"	""	34	"."	8	10	"."	0	"CSMD3,intron_variant,,ENST00000297405,NM_198123.1;CSMD3,intron_variant,,ENST00000343508,NM_198124.1;CSMD3,intron_variant,,ENST00000352409,;CSMD3,intron_variant,,ENST00000455883,NM_052900.2;"	"-"	"ENSG00000164796"	"ENST00000297405"	"Transcript"	"intron_variant"	"-/13212"	"-/11124"	"-/3707"	""	""	"rs140103189"	"1"	NA	-1	"CSMD3"	"HGNC"	19291	"protein_coding"	"YES"	"CCDS6315.1"	"ENSP00000297405"	"Q7Z407"	""	"UPI00001E0584"	"NM_198123.1"	NA	NA	""	"11/70"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCACACACAC"	"6eeff370-280f-11e6-949c-cfda414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"5354"	"TRPS1"	7227	"mskcc.org"	"GRCh37"	"8"	116747313	116747314	"+"	"Intron"	"INS"	"-"	"TCTC"	"TCTC"	"rs149197697"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-355-34018_-355-34015dupGAGA"	""	""	"ENST00000422939"	""	6	"."	5	6	"."	0	"TRPS1,intron_variant,,ENST00000422939,;"	"TCTC"	"ENSG00000104447"	"ENST00000422939"	"Transcript"	"intron_variant"	"-/581"	"-/185"	"-/61"	""	""	"rs149197697"	"1"	NA	-1	"TRPS1"	"HGNC"	12340	"protein_coding"	""	""	"ENSP00000405028"	""	"C9J6L7"	"UPI000155D69C"	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"79f45f2c-280f-11e6-949c-cfda414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"5355"	"EIF3H"	8667	"mskcc.org"	"GRCh37"	"8"	117700971	117700972	"+"	"Intron"	"INS"	"-"	"-"	"ATTA"	"rs111318625"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.290-29756_290-29753dupTAAT"	""	""	"ENST00000521861"	""	10	"."	3	2	"."	0	"EIF3H,intron_variant,,ENST00000521861,NM_003756.2;EIF3H,intron_variant,,ENST00000276682,;EIF3H,intron_variant,,ENST00000518949,;EIF3H,intron_variant,,ENST00000518995,;EIF3H,intron_variant,,ENST00000522453,;EIF3H,intron_variant,,ENST00000518034,;EIF3H,intron_variant,,ENST00000522800,;EIF3H,intron_variant,,ENST00000517974,;EIF3H,intron_variant,,ENST00000519046,;"	"ATTA"	"ENSG00000147677"	"ENST00000521861"	"Transcript"	"intron_variant"	"-/3959"	"-/1059"	"-/352"	""	""	"rs111318625"	"1"	NA	-1	"EIF3H"	"HGNC"	3273	"protein_coding"	"YES"	"CCDS6319.1"	"ENSP00000429931"	"O15372"	"Q6IB98"	"UPI00000477E8"	"NM_003756.2"	NA	NA	""	"2/7"	""	"-:0.1538"	"ATTA:0.9652"	"ATTA:0.8026"	NA	"ATTA:0.6687"	"ATTA:0.8926"	"ATTA:0.8517"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"79f8821e-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WXS"	FALSE
"5356"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	120370632	120370633	"+"	"IGR"	"INS"	"-"	"-"	"TTC"	"rs138218587"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"TTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138218587"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1254"	"TTC:0.7874"	"TTC:0.8732"	NA	"TTC:0.998"	"TTC:0.8529"	"TTC:0.8885"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7a0392f8-280f-11e6-949c-cfda414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5357"	"WDYHV1"	55093	"mskcc.org"	"GRCh37"	"8"	124435553	124435554	"+"	"Intron"	"INS"	"-"	"-"	"TC"	"rs111796159"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.84-4609_84-4608dupCT"	""	""	"ENST00000287387"	""	23	"."	4	4	"."	0	"WDYHV1,intron_variant,,ENST00000523984,NM_001283024.1;WDYHV1,intron_variant,,ENST00000287387,NM_018024.1;WDYHV1,intron_variant,,ENST00000523356,;WDYHV1,intron_variant,,ENST00000522194,;WDYHV1,intron_variant,,ENST00000517609,;WDYHV1,intron_variant,,ENST00000523551,;WDYHV1,intron_variant,,ENST00000524254,;WDYHV1,intron_variant,,ENST00000519199,;"	"TC"	"ENSG00000156795"	"ENST00000287387"	"Transcript"	"intron_variant"	"-/1349"	"-/618"	"-/205"	""	""	"rs111796159"	"1"	NA	1	"WDYHV1"	"HGNC"	25490	"protein_coding"	"YES"	"CCDS6344.1"	"ENSP00000287387"	"Q96HA8"	"E5RIY9,B4DE68"	"UPI0000073310"	"NM_018024.1"	NA	NA	""	"1/5"	""	"-:0.1066"	"TC:0.8147"	"TC:0.9179"	NA	"TC:0.9851"	"TC:0.8698"	"TC:0.9121"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7a32c19a-280f-11e6-949c-cfda414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"5358"	"SQLE"	6713	"mskcc.org"	"GRCh37"	"8"	126033783	126033784	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs34490505"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1533-206dupG"	""	""	"ENST00000265896"	""	23	"."	3	8	"."	0	"SQLE,intron_variant,,ENST00000265896,NM_003129.3;SQLE,intron_variant,,ENST00000523430,;KIAA0196,downstream_gene_variant,,ENST00000318410,NM_014846.3;KIAA0196,downstream_gene_variant,,ENST00000517845,;SQLE,downstream_gene_variant,,ENST00000518931,;KIAA0196,downstream_gene_variant,,ENST00000519042,;SQLE,downstream_gene_variant,,ENST00000518604,;SQLE,downstream_gene_variant,,ENST00000520493,;"	"G"	"ENSG00000104549"	"ENST00000265896"	"Transcript"	"intron_variant"	"-/2961"	"-/1725"	"-/574"	""	""	"rs34490505"	"1"	NA	1	"SQLE"	"HGNC"	11279	"protein_coding"	"YES"	"CCDS47918.1"	"ENSP00000265896"	"Q14534"	"Q9UNR6,H0YBN7,B4DHX0"	"UPI0000073EEE"	"NM_003129.3"	NA	NA	""	"10/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"7a5a97f6-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WXS"	FALSE
"5359"	"KCNQ3"	3786	"mskcc.org"	"GRCh37"	"8"	133493789	133493795	"+"	"5'Flank"	"DEL"	"TCCCTCT"	"TCCCTCT"	"-"	"rs3840713"	NA	"JHCCPT5"	"JHCCPN5"	"TCCCTCT"	"TCCCTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000388996"	""	7	"."	4	6	"."	0	"KCNQ3,upstream_gene_variant,,ENST00000388996,NM_004519.3;KCNQ3,upstream_gene_variant,,ENST00000519445,;KCNQ3,upstream_gene_variant,,ENST00000519589,;"	"-"	"ENSG00000184156"	"ENST00000388996"	"Transcript"	"upstream_gene_variant"	"-/11441"	"-/2619"	"-/872"	""	""	"rs3840713"	"1"	"589"	-1	"KCNQ3"	"HGNC"	6297	"protein_coding"	"YES"	"CCDS34943.1"	"ENSP00000373648"	"O43525"	""	"UPI00001279F0"	"NM_004519.3"	NA	NA	""	""	""	""	"-:0.8714"	"-:0.621"	NA	"-:0.5417"	"-:0.7276"	"-:0.7157"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACTCCCTCTT"	"706738bc-280f-11e6-949c-cfda414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5360"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	134727338	134727379	"+"	"IGR"	"DEL"	"TCCTTCCTCCCTCCCTTCCTTCCTCCCTTCCTTCCTTCCTTC"	"TCCTTCCTCCCTCCCTTCCTTCCTCCCTTCCTTCCTTCCTTC"	"-"	"rs144867336"	NA	"JHCCPT5"	"JHCCPN5"	"TCCTTCCTCCCTCCCTTCCTTCCTCCCTTCCTTCCTTCCTTC"	"TCCTTCCTCCCTCCCTTCCTTCCTCCCTTCCTTCCTTCCTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144867336"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTCCTTCCTCCCTCCCTTCCTTCCTCCCTTCCTTCCTTCCTTCT"	"70a3f95a-280f-11e6-949c-cfda414a729f"	"239"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5361"	"ZFAT"	57623	"mskcc.org"	"GRCh37"	"8"	135523164	135523164	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs144759112"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3362-1172delT"	""	""	"ENST00000377838"	""	9	"."	4	2	"."	0	"ZFAT,intron_variant,,ENST00000520727,NM_001029939.3;ZFAT,intron_variant,,ENST00000377838,NM_020863.3,NM_001174157.1;ZFAT,intron_variant,,ENST00000429442,;ZFAT,intron_variant,,ENST00000520214,NM_001167583.2;ZFAT,intron_variant,,ENST00000520356,NM_001174158.1;ZFAT,intron_variant,,ENST00000523399,;ZFAT,upstream_gene_variant,,ENST00000521673,;ZFAT,non_coding_transcript_exon_variant,,ENST00000522723,;ZFAT,downstream_gene_variant,,ENST00000517307,;ZFAT,intron_variant,,ENST00000523243,;ZFAT,intron_variant,,ENST00000523924,;ZFAT,intron_variant,,ENST00000518408,;"	"-"	"ENSG00000066827"	"ENST00000377838"	"Transcript"	"intron_variant"	"-/4597"	"-/3732"	"-/1243"	""	""	"rs144759112"	"1"	NA	-1	"ZFAT"	"HGNC"	19899	"protein_coding"	"YES"	"CCDS47924.1"	"ENSP00000367069"	"Q9P243"	""	"UPI0000210061"	"NM_020863.3,NM_001174157.1"	NA	NA	""	"14/15"	""	"-:0.0146"	"-:0.0023"	"-:0.0288"	NA	"-:0"	"-:0.0427"	"-:0.0072"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAG"	"70ad2be2-280f-11e6-949c-cfda414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"5362"	"TRAPPC9"	83696	"mskcc.org"	"GRCh37"	"8"	140868589	140868590	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs58717941"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3349+29533dupA"	""	""	"ENST00000389328"	""	8	"."	4	1	"."	0	"TRAPPC9,intron_variant,,ENST00000389328,NM_031466.5;TRAPPC9,intron_variant,,ENST00000438773,NM_001160372.1;TRAPPC9,intron_variant,,ENST00000389327,;TRAPPC9,intron_variant,,ENST00000520857,;TRAPPC9,intron_variant,,ENST00000522504,;TRAPPC9,intron_variant,,ENST00000521667,;TRAPPC9,intron_variant,,ENST00000523777,;TRAPPC9,intron_variant,,ENST00000524162,;TRAPPC9,intron_variant,,ENST00000519482,;"	"T"	"ENSG00000167632"	"ENST00000389328"	"Transcript"	"intron_variant"	"-/4474"	"-/3741"	"-/1246"	""	""	"rs58717941"	"1"	NA	-1	"TRAPPC9"	"HGNC"	30832	"protein_coding"	"YES"	"CCDS34946.1"	"ENSP00000373979"	"Q96Q05"	""	"UPI0000DBEF2B"	"NM_031466.5"	NA	NA	""	"21/22"	""	"T:0.1354"	"T:0.1687"	"T:0.0634"	NA	"T:0.0853"	"T:0.0865"	"T:0.2434"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"7b26ff9e-280f-11e6-949c-cfda414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5363"	"TRAPPC9"	83696	"mskcc.org"	"GRCh37"	"8"	140997755	140997756	"+"	"Intron"	"INS"	"-"	"-"	"AG"	"rs112188058"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3104+1177_3104+1178dupCT"	""	""	"ENST00000389328"	""	9	"."	4	3	"."	0	"TRAPPC9,intron_variant,,ENST00000389328,NM_031466.5;TRAPPC9,intron_variant,,ENST00000438773,NM_001160372.1;TRAPPC9,intron_variant,,ENST00000389327,;TRAPPC9,intron_variant,,ENST00000520857,;TRAPPC9,intron_variant,,ENST00000521667,;TRAPPC9,intron_variant,,ENST00000523777,;TRAPPC9,intron_variant,,ENST00000524162,;TRAPPC9,downstream_gene_variant,,ENST00000520532,;TRAPPC9,downstream_gene_variant,,ENST00000517667,;"	"AG"	"ENSG00000167632"	"ENST00000389328"	"Transcript"	"intron_variant"	"-/4474"	"-/3741"	"-/1246"	""	""	"rs112188058"	"1"	NA	-1	"TRAPPC9"	"HGNC"	30832	"protein_coding"	"YES"	"CCDS34946.1"	"ENSP00000373979"	"Q96Q05"	""	"UPI0000DBEF2B"	"NM_031466.5"	NA	NA	""	"19/22"	""	"AG:0.2584"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"7b2a7020-280f-11e6-949c-cfda414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"5364"	"TRAPPC9"	83696	"mskcc.org"	"GRCh37"	"8"	141046583	141046583	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs59494950"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2851-12407delT"	""	""	"ENST00000389328"	""	8	"."	3	2	"."	0	"TRAPPC9,intron_variant,,ENST00000389328,NM_031466.5;TRAPPC9,intron_variant,,ENST00000438773,NM_001160372.1;TRAPPC9,intron_variant,,ENST00000389327,;TRAPPC9,intron_variant,,ENST00000520857,;TRAPPC9,intron_variant,,ENST00000521667,;TRAPPC9,intron_variant,,ENST00000523777,;TRAPPC9,intron_variant,,ENST00000520532,;TRAPPC9,intron_variant,,ENST00000517667,;"	"-"	"ENSG00000167632"	"ENST00000389328"	"Transcript"	"intron_variant"	"-/4474"	"-/3741"	"-/1246"	""	""	"rs59494950"	"1"	NA	-1	"TRAPPC9"	"HGNC"	30832	"protein_coding"	"YES"	"CCDS34946.1"	"ENSP00000373979"	"Q96Q05"	""	"UPI0000DBEF2B"	"NM_031466.5"	NA	NA	""	"17/22"	""	"-:0.2642"	"-:0.6309"	"-:0.17"	NA	"-:0.1012"	"-:0.168"	"-:0.1022"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGAA"	"711262a0-280f-11e6-949c-cfda414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"5365"	"RP11-909N17.2"	0	"mskcc.org"	"GRCh37"	"8"	144493605	144493606	"+"	"5'Flank"	"INS"	"-"	"-"	"AAGGA"	"rs10665245"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000523002"	""	7	"."	4	1	"."	0	"RP11-909N17.2,upstream_gene_variant,,ENST00000523002,;"	"AAGGA"	"ENSG00000253931"	"ENST00000523002"	"Transcript"	"upstream_gene_variant"	"-/544"	""	""	""	""	"rs10665245"	"1"	"1313"	1	"RP11-909N17.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0082"	"AAGGA:0.9735"	"AAGGA:0.9942"	NA	"AAGGA:1"	"AAGGA:0.999"	"AAGGA:0.999"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"7ba7e726-280f-11e6-949c-cfda414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5366"	"PLEC"	5339	"mskcc.org"	"GRCh37"	"8"	145015863	145015863	"+"	"Intron"	"DEL"	"A"	"-"	"-"	"rs61586730"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.524-3003delT"	""	""	"ENST00000322810"	""	7	"."	5	1	"."	0	"PLEC,intron_variant,,ENST00000322810,NM_201380.2;PLEC,intron_variant,,ENST00000436759,NM_000445.3;PLEC,intron_variant,,ENST00000354958,NM_201379.1;PLEC,intron_variant,,ENST00000354589,NM_201382.2;PLEC,intron_variant,,ENST00000357649,NM_201383.1;PLEC,intron_variant,,ENST00000356346,NM_201378.2;PLEC,intron_variant,,ENST00000398774,NM_201381.1;PLEC,intron_variant,,ENST00000527096,;PLEC,intron_variant,,ENST00000528025,;PLEC,intron_variant,,ENST00000526416,;PLEC,intron_variant,,ENST00000527816,;PLEC,intron_variant,,ENST00000528131,;PLEC,upstream_gene_variant,,ENST00000345136,NM_201384.1;MIR661,downstream_gene_variant,,ENST00000384842,;PLEC,intron_variant,,ENST00000532346,;"	"-"	"ENSG00000178209"	"ENST00000322810"	"Transcript"	"intron_variant"	"-/15249"	"-/14055"	"-/4684"	""	""	"rs61586730"	"1"	NA	-1	"PLEC"	"HGNC"	9069	"protein_coding"	"YES"	"CCDS43772.1"	"ENSP00000323856"	"Q15149"	"Q96IE3,E9PQ28"	"UPI0000233FCD"	"NM_201380.2"	NA	NA	""	"1/31"	""	"A:0.0000"	"-:1"	"-:1"	NA	"-:1"	"-:1"	"-:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCAA"	"71fa10e6-280f-11e6-949c-cfda414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"5367"	"DOCK8"	81704	"mskcc.org"	"GRCh37"	"9"	261997	261998	"+"	"Intron"	"INS"	"-"	"-"	"AGAAAGAA"	"rs149792134"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.54-9598_54-9591dupAAGAAAGA"	""	""	"ENST00000453981"	""	11	"."	3	2	"."	0	"DOCK8,intron_variant,,ENST00000432829,NM_203447.3;DOCK8,intron_variant,,ENST00000453981,;DOCK8,intron_variant,,ENST00000479404,;DOCK8,intron_variant,,ENST00000524396,;DOCK8,intron_variant,,ENST00000454469,;DOCK8,intron_variant,,ENST00000469197,;"	"AGAAAGAA"	"ENSG00000107099"	"ENST00000453981"	"Transcript"	"intron_variant"	"-/7448"	"-/6300"	"-/2099"	""	""	"rs149792134"	"1"	NA	1	"DOCK8"	"HGNC"	19191	"protein_coding"	"YES"	"CCDS6440.2"	"ENSP00000408464"	"Q8NF50"	"E2J6M5,C9J7A3,C9J613"	"UPI0000E0B9E5"	""	NA	NA	""	"1/47"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"39"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"7a7569c8-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"5368"	"KANK1"	23189	"mskcc.org"	"GRCh37"	"9"	504779	504780	"+"	"Intron"	"INS"	"-"	"GCGCCCCGTGCCGCGCT"	"GCGCCCCGTGCCGCGCT"	"rs146273779"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-362+31521_-362+31522insCTGCGCCCCGTGCCGCG"	""	""	"ENST00000382303"	""	6	"."	5	5	"."	0	"KANK1,intron_variant,,ENST00000382303,NM_001256876.1;KANK1,intron_variant,,ENST00000382297,NM_001256877.1,NM_015158.3;RN7SL412P,downstream_gene_variant,,ENST00000578371,;KANK1,intron_variant,,ENST00000489369,;KANK1,intron_variant,,ENST00000354485,;"	"GCGCCCCGTGCCGCGCT"	"ENSG00000107104"	"ENST00000382303"	"Transcript"	"intron_variant"	"-/5581"	"-/4059"	"-/1352"	""	""	"rs146273779"	"1"	NA	1	"KANK1"	"HGNC"	19309	"protein_coding"	"YES"	"CCDS34976.1"	"ENSP00000371740"	"Q14678"	"Q8WUM7,Q53U93"	"UPI00001AF26E"	"NM_001256876.1"	NA	NA	""	"3/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"15"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"7a8afc0c-280f-11e6-9fb8-d0da414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"5369"	"KIAA0020"	9933	"mskcc.org"	"GRCh37"	"9"	2833693	2833693	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs3830413"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.441-261delA"	""	""	"ENST00000397885"	""	42	"."	8	5	"."	0	"KIAA0020,intron_variant,,ENST00000397885,NM_014878.4;KIAA0020,upstream_gene_variant,,ENST00000469168,;"	"-"	"ENSG00000080608"	"ENST00000397885"	"Transcript"	"intron_variant"	"-/2321"	"-/1947"	"-/648"	""	""	"rs3830413"	"1"	NA	-1	"KIAA0020"	"HGNC"	29676	"protein_coding"	"YES"	"CCDS6448.2"	"ENSP00000380982"	"Q15397"	"S4R3K8"	"UPI000013D67E"	"NM_014878.4"	NA	NA	""	"4/17"	""	"-:0.4439"	"-:0.3268"	"-:0.3761"	NA	"-:0.494"	"-:0.4573"	"-:0.5849"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATA"	"65608252-280f-11e6-9fb8-d0da414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"5370"	"UHRF2"	115426	"mskcc.org"	"GRCh37"	"9"	6451773	6451774	"+"	"Intron"	"INS"	"-"	"-"	"TTGTTGTTGTTG"	"rs150220371"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.645-8785_645-8774dupGTTGTTGTTGTT"	""	""	"ENST00000276893"	""	9	"."	5	2	"."	0	"UHRF2,intron_variant,,ENST00000276893,NM_152896.2;UHRF2,intron_variant,,ENST00000450508,;RP11-307L3.4,upstream_gene_variant,,ENST00000411561,;UHRF2,intron_variant,,ENST00000481049,;UHRF2,intron_variant,,ENST00000468435,;UHRF2,intron_variant,,ENST00000484159,;"	"TTGTTGTTGTTG"	"ENSG00000147854"	"ENST00000276893"	"Transcript"	"intron_variant"	"-/3452"	"-/2409"	"-/802"	""	""	"rs150220371"	"1"	NA	1	"UHRF2"	"HGNC"	12557	"protein_coding"	"YES"	"CCDS6469.1"	"ENSP00000276893"	"Q96PU4"	""	"UPI000006E524"	"NM_152896.2"	NA	NA	""	"3/15"	""	"-:0.2396"	"TTGTTGTTGTTG:0.6687"	"TTGTTGTTGTTG:0.732"	NA	"TTGTTGTTGTTG:0.7748"	"TTGTTGTTGTTG:0.8469"	"TTGTTGTTGTTG:0.8006"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"26"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"7b0c6c56-280f-11e6-9fb8-d0da414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"5371"	"PTPRD"	5789	"mskcc.org"	"GRCh37"	"9"	8421370	8421371	"+"	"Intron"	"INS"	"-"	"-"	"TCTC"	"rs141962478"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4086+15218_4086+15221dupGAGA"	""	""	"ENST00000356435"	""	10	"."	4	3	"."	0	"PTPRD,intron_variant,,ENST00000381196,NM_002839.3;PTPRD,intron_variant,,ENST00000356435,;PTPRD,intron_variant,,ENST00000360074,;PTPRD,intron_variant,,ENST00000358503,;PTPRD,intron_variant,,ENST00000355233,NM_130393.3,NM_130392.3,NM_130391.3;PTPRD,intron_variant,,ENST00000397617,;PTPRD,intron_variant,,ENST00000397611,NM_001040712.2;PTPRD,intron_variant,,ENST00000537002,;PTPRD,intron_variant,,ENST00000540109,;PTPRD,intron_variant,,ENST00000486161,;PTPRD,intron_variant,,ENST00000397606,NM_001171025.1;"	"TCTC"	"ENSG00000153707"	"ENST00000356435"	"Transcript"	"intron_variant"	"-/9472"	"-/5739"	"-/1912"	""	""	"rs141962478"	"1"	NA	-1	"PTPRD"	"HGNC"	9668	"protein_coding"	""	"CCDS43786.1"	"ENSP00000348812"	"P23468"	"C9J6E4,B4DK48"	"UPI0000132990"	""	NA	NA	""	"24/34"	""	"TCTC:0.0907"	"TCTC:0.0658"	"TCTC:0.0778"	NA	"TCTC:0.0546"	"TCTC:0.1819"	"TCTC:0.0767"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7b2e2e4a-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"5372"	"PTPRD"	5789	"mskcc.org"	"GRCh37"	"9"	8436344	8436345	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs111280210"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4086+247dupT"	""	""	"ENST00000356435"	""	23	"."	6	3	"."	0	"PTPRD,intron_variant,,ENST00000381196,NM_002839.3;PTPRD,intron_variant,,ENST00000356435,;PTPRD,intron_variant,,ENST00000360074,;PTPRD,intron_variant,,ENST00000358503,;PTPRD,intron_variant,,ENST00000355233,NM_130393.3,NM_130392.3,NM_130391.3;PTPRD,intron_variant,,ENST00000397617,;PTPRD,intron_variant,,ENST00000397611,NM_001040712.2;PTPRD,intron_variant,,ENST00000537002,;PTPRD,intron_variant,,ENST00000540109,;PTPRD,intron_variant,,ENST00000486161,;PTPRD,intron_variant,,ENST00000397606,NM_001171025.1;"	"A"	"ENSG00000153707"	"ENST00000356435"	"Transcript"	"intron_variant"	"-/9472"	"-/5739"	"-/1912"	""	""	"rs111280210"	"1"	NA	-1	"PTPRD"	"HGNC"	9668	"protein_coding"	""	"CCDS43786.1"	"ENSP00000348812"	"P23468"	"C9J6E4,B4DK48"	"UPI0000132990"	""	NA	NA	""	"24/34"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7b2ee31c-280f-11e6-9fb8-d0da414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WXS"	FALSE
"5373"	"PTPRD"	5789	"mskcc.org"	"GRCh37"	"9"	8486994	8486995	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs143445268"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2468-646dupT"	""	""	"ENST00000356435"	""	6	"."	4	1	"."	0	"PTPRD,intron_variant,,ENST00000381196,NM_002839.3;PTPRD,intron_variant,,ENST00000356435,;PTPRD,intron_variant,,ENST00000360074,;PTPRD,intron_variant,,ENST00000358503,;PTPRD,intron_variant,,ENST00000355233,NM_130393.3,NM_130392.3,NM_130391.3;PTPRD,intron_variant,,ENST00000397617,;PTPRD,intron_variant,,ENST00000397611,NM_001040712.2;PTPRD,intron_variant,,ENST00000537002,;PTPRD,intron_variant,,ENST00000540109,;PTPRD,intron_variant,,ENST00000486161,;PTPRD,intron_variant,,ENST00000397606,NM_001171025.1;PTPRD,intron_variant,,ENST00000471274,;PTPRD,upstream_gene_variant,,ENST00000477552,;"	"A"	"ENSG00000153707"	"ENST00000356435"	"Transcript"	"intron_variant"	"-/9472"	"-/5739"	"-/1912"	""	""	"rs143445268"	"1"	NA	-1	"PTPRD"	"HGNC"	9668	"protein_coding"	""	"CCDS43786.1"	"ENSP00000348812"	"P23468"	"C9J6E4,B4DK48"	"UPI0000132990"	""	NA	NA	""	"16/34"	""	"A:0.1560"	"A:0.0151"	"A:0.2003"	NA	"A:0.2738"	"A:0.2247"	"A:0.1227"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"7b322cd4-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5374"	"NFIB"	4781	"mskcc.org"	"GRCh37"	"9"	14388367	14388406	"+"	"Intron"	"DEL"	"GAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAG"	"GAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAG"	"-"	"rs142923326"	NA	"JHCCPT5"	"JHCCPN5"	"GAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAG"	"GAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.108+10117_108+10156delCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTC"	""	""	"ENST00000380934"	""	7	"."	3	4	"."	0	"NFIB,intron_variant,,ENST00000380934,NM_001190738.1;"	"-"	"ENSG00000147862"	"ENST00000380934"	"Transcript"	"intron_variant"	"-/8159"	"-/1341"	"-/446"	""	""	"rs142923326"	"1"	NA	-1	"NFIB"	"HGNC"	7785	"protein_coding"	""	"CCDS55292.1"	"ENSP00000370321"	""	"Q5VW31"	"UPI0000424FF7"	"NM_001190738.1"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGG"	"6661230a-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	TRUE
"5375"	"FREM1"	158326	"mskcc.org"	"GRCh37"	"9"	14803330	14803331	"+"	"Intron"	"INS"	"-"	"-"	"CCCTCCCCTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3472-1459_3472-1458insGAGGGGAGGG"	""	""	"ENST00000422223"	""	6	"."	3	1	"."	0	"FREM1,intron_variant,,ENST00000380881,;FREM1,intron_variant,,ENST00000422223,NM_144966.5;FREM1,intron_variant,,ENST00000380880,;FREM1,intron_variant,,ENST00000380875,;"	"CCCTCCCCTC"	"ENSG00000164946"	"ENST00000422223"	"Transcript"	"intron_variant"	"-/10086"	"-/6540"	"-/2179"	""	""	""	"1"	NA	-1	"FREM1"	"HGNC"	23399	"protein_coding"	"YES"	"CCDS47952.1"	"ENSP00000412940"	"Q5H8C1"	""	"UPI000057A218"	"NM_144966.5"	NA	NA	""	"20/37"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"7b8faa76-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5376"	"CCDC171"	203238	"mskcc.org"	"GRCh37"	"9"	15623473	15623474	"+"	"Intron"	"INS"	"-"	"-"	"CGCGCGCGCGCGCGCACA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.822+63_822+64insGCGCGCGCGCGCGCACAC"	""	""	"ENST00000380701"	""	114	"."	10	23	"."	0	"CCDC171,intron_variant,,ENST00000380701,NM_173550.2;CCDC171,intron_variant,,ENST00000297641,;CCDC171,intron_variant,,ENST00000535968,;"	"CGCGCGCGCGCGCGCACA"	"ENSG00000164989"	"ENST00000380701"	"Transcript"	"intron_variant"	"-/6512"	"-/3981"	"-/1326"	""	""	""	"1"	NA	1	"CCDC171"	"HGNC"	29828	"protein_coding"	"YES"	"CCDS6481.1"	"ENSP00000370077"	"Q6TFL3"	"Q8NCV3"	"UPI000021C44B"	"NM_173550.2"	NA	NA	""	"7/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"7bc08fce-280f-11e6-9fb8-d0da414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087719298245614	"WXS"	FALSE
"5377"	"CNTLN"	54875	"mskcc.org"	"GRCh37"	"9"	17308969	17308970	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs143654666"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1147-86_1147-85delGT"	""	""	"ENST00000380647"	""	19	"."	6	2	"."	0	"CNTLN,intron_variant,,ENST00000380647,;CNTLN,intron_variant,,ENST00000425824,NM_017738.2;CNTLN,intron_variant,,ENST00000262360,;"	"-"	"ENSG00000044459"	"ENST00000380647"	"Transcript"	"intron_variant"	"-/5576"	"-/4221"	"-/1406"	""	""	"rs143654666"	"1"	NA	1	"CNTLN"	"HGNC"	23432	"protein_coding"	"YES"	"CCDS43789.1"	"ENSP00000370021"	"Q9NXG0"	""	"UPI0000458809"	""	NA	NA	""	"7/25"	""	"TG:0.2432"	"-:0.6112"	"-:0.8098"	NA	"-:0.8284"	"-:0.8688"	"-:0.727"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATGT"	"66ce0862-280f-11e6-9fb8-d0da414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WXS"	FALSE
"5378"	"DENND4C"	55667	"mskcc.org"	"GRCh37"	"9"	19280016	19280017	"+"	"Intron"	"INS"	"-"	"-"	"AG"	"rs113597695"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.305+3541_305+3542dupGA"	""	""	"ENST00000602925"	""	9	"."	5	2	"."	0	"DENND4C,intron_variant,,ENST00000602925,NM_017925.5;DENND4C,intron_variant,,ENST00000434457,;DENND4C,downstream_gene_variant,,ENST00000602708,;"	"AG"	"ENSG00000137145"	"ENST00000602925"	"Transcript"	"intron_variant"	"-/6831"	"-/5730"	"-/1909"	""	""	"rs113597695"	"1"	NA	1	"DENND4C"	"HGNC"	26079	"protein_coding"	"YES"	"CCDS6491.3"	"ENSP00000473565"	""	"R4GNB2"	"UPI0000EE421F"	"NM_017925.5"	NA	NA	""	"2/31"	""	"-:0.4277"	"AG:0.5159"	"AG:0.5389"	NA	"AG:0.5476"	"AG:0.5477"	"AG:0.7229"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7c062e6c-280f-11e6-9fb8-d0da414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WXS"	FALSE
"5379"	"MLLT3"	4300	"mskcc.org"	"GRCh37"	"9"	20622064	20622065	"+"	"Intron"	"INS"	"-"	"-"	"G"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.12+179dupC"	""	""	"ENST00000380338"	""	44	"."	3	21	"."	0	"MLLT3,intron_variant,,ENST00000380338,NM_004529.2;MLLT3,intron_variant,,ENST00000355930,;MLLT3,upstream_gene_variant,,ENST00000429426,NM_001286691.1;MLLT3,intron_variant,,ENST00000475957,;"	"G"	"ENSG00000171843"	"ENST00000380338"	"Transcript"	"intron_variant"	"-/6772"	"-/1707"	"-/568"	""	""	""	"1"	NA	-1	"MLLT3"	"HGNC"	7136	"protein_coding"	"YES"	"CCDS6494.1"	"ENSP00000369695"	"P42568"	"Q6LEQ8,B1APT5"	"UPI00002111CB"	"NM_004529.2"	NA	NA	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"7c1065f8-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WXS"	TRUE
"5380"	"PTPLAD2"	401494	"mskcc.org"	"GRCh37"	"9"	20995373	20995374	"+"	"3'Flank"	"INS"	"-"	"-"	"AC"	"rs150489586"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000495827"	""	61	"."	4	23	"."	0	"PTPLAD2,3_prime_UTR_variant,,ENST00000513293,;FOCAD,intron_variant,,ENST00000380249,NM_017794.3;FOCAD,intron_variant,,ENST00000338382,;FOCAD,intron_variant,,ENST00000605086,;PTPLAD2,downstream_gene_variant,,ENST00000495827,NM_001010915.3;"	"AC"	"ENSG00000188921"	"ENST00000495827"	"Transcript"	"downstream_gene_variant"	"-/8267"	"-/699"	"-/232"	""	""	"rs150489586"	"1"	"4140"	-1	"PTPLAD2"	"HGNC"	20920	"protein_coding"	"YES"	"CCDS43791.1"	"ENSP00000419503"	"Q5VWC8"	""	"UPI0000251F91"	"NM_001010915.3"	NA	NA	""	""	""	"-:0.2426"	"AC:0.7678"	"AC:0.7089"	NA	"AC:0.9335"	"AC:0.7117"	"AC:0.6431"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7c1e0e24-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0655737704918033	"WXS"	FALSE
"5381"	"ENSR00001817837"	0	"mskcc.org"	"GRCh37"	"9"	25684760	25684760	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs60333060"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001817837"	""	15	"."	4	3	"."	0	""	"-"	""	"ENSR00001817837"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs60333060"	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4828"	"-:0.3669"	"-:0.3674"	NA	"-:0.7004"	"-:0.4205"	"-:0.5613"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"6779dce6-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"5382"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	29708962	29708981	"+"	"IGR"	"DEL"	"GAAAGAAAGAAAGAAAGAAA"	"GAAAGAAAGAAAGAAAGAAA"	"-"	"rs67519707"	NA	"JHCCPT5"	"JHCCPN5"	"GAAAGAAAGAAAGAAAGAAA"	"GAAAGAAAGAAAGAAAGAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	5	7	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs67519707"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAAGAAAGAAAGAAAGAAAG"	"67da5792-280f-11e6-9fb8-d0da414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WXS"	FALSE
"5383"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	31016781	31016784	"+"	"IGR"	"DEL"	"AACA"	"AACA"	"-"	"rs145139279"	NA	"JHCCPT5"	"JHCCPN5"	"AACA"	"AACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145139279"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAACAA"	"67e6bcb2-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5384"	"DDX58"	23586	"mskcc.org"	"GRCh37"	"9"	32493521	32493522	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11402427"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.423+237_423+238insA"	""	""	"ENST00000379883"	""	7	"."	4	2	"."	0	"DDX58,intron_variant,,ENST00000379882,;DDX58,intron_variant,,ENST00000379883,NM_014314.3;DDX58,intron_variant,,ENST00000379868,;DDX58,intron_variant,,ENST00000542096,;DDX58,intron_variant,,ENST00000545044,;"	"T"	"ENSG00000107201"	"ENST00000379883"	"Transcript"	"intron_variant"	"-/4353"	"-/2778"	"-/925"	""	""	"rs11402427"	"1"	NA	-1	"DDX58"	"HGNC"	19102	"protein_coding"	"YES"	"CCDS6526.1"	"ENSP00000369213"	"O95786"	"A2A376"	"UPI000013C841"	"NM_014314.3"	NA	NA	""	"3/17"	""	"-:0.4331"	"T:0.6399"	"T:0.536"	NA	"T:0.3829"	"T:0.6243"	"T:0.6207"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"7c5a2882-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5385"	"RP11-54K16.2"	0	"mskcc.org"	"GRCh37"	"9"	33017934	33017935	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"rs57517314"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000425356"	""	8	"."	3	1	"."	0	"APTX,intron_variant,,ENST00000473270,;APTX,intron_variant,,ENST00000460945,;APTX,downstream_gene_variant,,ENST00000489583,;APTX,intron_variant,,ENST00000495360,;RP11-54K16.2,downstream_gene_variant,,ENST00000425356,;"	"A"	"ENSG00000225693"	"ENST00000425356"	"Transcript"	"downstream_gene_variant"	"-/484"	""	""	""	""	"rs57517314"	"1"	"1745"	-1	"RP11-54K16.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4135"	"A:0.8245"	"A:0.6499"	NA	"A:0.4315"	"A:0.5785"	"A:0.3875"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7c6003f6-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"5386"	"DCAF12"	25853	"mskcc.org"	"GRCh37"	"9"	34088022	34088023	"+"	"3'UTR"	"INS"	"-"	"-"	"AAAGA"	"rs56140730"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*325_*326insTCTTT"	""	""	"ENST00000361264"	"9/9"	15	"."	8	3	"."	0	"DCAF12,3_prime_UTR_variant,,ENST00000361264,NM_015397.3;RP11-537H15.3,intron_variant,,ENST00000448245,;DCAF12,downstream_gene_variant,,ENST00000466402,;"	"AAAGA"	"ENSG00000198876"	"ENST00000361264"	"Transcript"	"3_prime_UTR_variant"	"2029-2030/3667"	"-/1362"	"-/453"	""	""	"rs56140730"	"1"	NA	-1	"DCAF12"	"HGNC"	19911	"protein_coding"	"YES"	"CCDS6549.1"	"ENSP00000355114"	"Q5T6F0"	""	"UPI00000372E8"	"NM_015397.3"	NA	NA	"9/9"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"7c867a5e-280f-11e6-9fb8-d0da414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.533333333333333	"WXS"	FALSE
"5387"	"UBAP1"	51271	"mskcc.org"	"GRCh37"	"9"	34240868	34240868	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs34549569"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.352-314delG"	""	""	"ENST00000545103"	""	7	"."	3	4	"."	0	"UBAP1,intron_variant,,ENST00000536252,NM_001171203.2;UBAP1,intron_variant,,ENST00000540348,NM_001171204.2;UBAP1,intron_variant,,ENST00000297661,NM_016525.4;UBAP1,intron_variant,,ENST00000545103,NM_001171201.1;UBAP1,intron_variant,,ENST00000543944,NM_001171202.1;UBAP1,intron_variant,,ENST00000359544,;UBAP1,intron_variant,,ENST00000379186,;"	"-"	"ENSG00000165006"	"ENST00000545103"	"Transcript"	"intron_variant"	"-/2702"	"-/1701"	"-/566"	""	""	"rs34549569"	"1"	NA	1	"UBAP1"	"HGNC"	12461	"protein_coding"	"YES"	"CCDS55303.1"	"ENSP00000441024"	"Q9NZ09"	""	"UPI0001C2BF9D"	"NM_001171201.1"	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGG"	"6875ad00-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5388"	"SHB"	6461	"mskcc.org"	"GRCh37"	"9"	37920273	37920287	"+"	"Intron"	"DEL"	"AAAACAAAACAAAAC"	"AAAACAAAACAAAAC"	"-"	"rs60630259"	NA	"JHCCPT5"	"JHCCPN5"	"AAAACAAAACAAAAC"	"AAAACAAAACAAAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1347-286_1347-272delGTTTTGTTTTGTTTT"	""	""	"ENST00000377707"	""	6	"."	3	6	"."	0	"SHB,intron_variant,,ENST00000377707,NM_003028.2;RP11-613M10.9,intron_variant,,ENST00000540557,;"	"-"	"ENSG00000107338"	"ENST00000377707"	"Transcript"	"intron_variant"	"-/2783"	"-/1530"	"-/509"	""	""	"rs60630259"	"1"	NA	-1	"SHB"	"HGNC"	10838	"protein_coding"	"YES"	"CCDS43806.1"	"ENSP00000366936"	"Q15464"	""	"UPI000021143B"	"NM_003028.2"	NA	NA	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAAACAAAACAAAACA"	"69e4124e-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5389"	"SNX18P4"	0	"mskcc.org"	"GRCh37"	"9"	43058228	43058230	"+"	"3'Flank"	"DEL"	"CTA"	"CTA"	"-"	"rs372912971"	NA	"JHCCPT5"	"JHCCPN5"	"CTA"	"CTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000422895"	""	8	"."	3	3	"."	0	"SNX18P4,downstream_gene_variant,,ENST00000422895,;"	"-"	"ENSG00000234416"	"ENST00000422895"	"Transcript"	"downstream_gene_variant"	"-/829"	""	""	""	""	"rs372912971"	"1"	"4699"	-1	"SNX18P4"	"HGNC"	39612	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCTAC"	"6a26df84-280f-11e6-9fb8-d0da414a729f"	"85"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"5390"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	44890105	44890105	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs78386507"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"."	8	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs78386507"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.3908"	"-:0.4387"	"-:0.3847"	NA	"-:0.3423"	"-:0.3648"	"-:0.407"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATC"	"6a316b02-280f-11e6-9fb8-d0da414a729f"	"299"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195121951219512	"WXS"	FALSE
"5391"	"RP11-236F9.2"	100996643	"mskcc.org"	"GRCh37"	"9"	67291107	67291108	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs201046725"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.241-10_241-9delGT"	""	""	"ENST00000432011"	""	30	"."	6	8	"."	0	"RP11-236F9.2,intron_variant,,ENST00000432011,;RP11-236F9.2,splice_region_variant,,ENST00000444603,;AQP7P1,upstream_gene_variant,,ENST00000334576,;AQP7P1,upstream_gene_variant,,ENST00000412626,;"	"-"	"ENSG00000228522"	"ENST00000432011"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/786"	""	""	""	""	"rs201046725"	"1"	NA	1	"RP11-236F9.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	"-:0.1925"	"-:0.056"	"-:0.2795"	NA	"-:0.2063"	"-:0.2644"	"-:0.227"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGT"	"6a6dd8a8-280f-11e6-9fb8-d0da414a729f"	"147"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	FALSE
"5392"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	67691472	67691473	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs201294008"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	2	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201294008"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.4710"	"A:0.4175"	"A:0.5144"	NA	"A:0.4762"	"A:0.505"	"A:0.4724"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7d476c50-280f-11e6-9fb8-d0da414a729f"	"75"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"5393"	"RP11-764K9.4"	0	"mskcc.org"	"GRCh37"	"9"	68427396	68427396	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"rs144410943"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000376334"	""	7	"."	3	5	"."	0	"RP11-764K9.4,downstream_gene_variant,,ENST00000376334,;"	"-"	"ENSG00000215548"	"ENST00000376334"	"Transcript"	"downstream_gene_variant"	"-/931"	""	""	""	""	"rs144410943"	"1"	"465"	-1	"RP11-764K9.4"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCC"	"6aa0cfa6-280f-11e6-9fb8-d0da414a729f"	"31"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5394"	"APBA1"	320	"mskcc.org"	"GRCh37"	"9"	72273176	72273177	"+"	"Intron"	"INS"	"-"	"-"	"TTTCTTTCTTTCTT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-70+13879_-70+13892dupAAGAAAGAAAGAAA"	""	""	"ENST00000265381"	""	11	"."	3	6	"."	0	"APBA1,intron_variant,,ENST00000265381,NM_001163.3;"	"TTTCTTTCTTTCTT"	"ENSG00000107282"	"ENST00000265381"	"Transcript"	"intron_variant"	"-/6534"	"-/2514"	"-/837"	""	""	""	"1"	NA	-1	"APBA1"	"HGNC"	578	"protein_coding"	"YES"	"CCDS6630.1"	"ENSP00000265381"	"Q02410"	""	"UPI000013D611"	"NM_001163.3"	NA	NA	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7d7da7de-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WXS"	FALSE
"5395"	"TRPM6"	140803	"mskcc.org"	"GRCh37"	"9"	77473305	77473306	"+"	"Intron"	"INS"	"-"	"-"	"AAAAACAAAAAAAC"	"rs142488578"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.113+279_113+280insGTTTTTTTGTTTTT"	""	""	"ENST00000360774"	""	9	"."	4	3	"."	0	"TRPM6,intron_variant,,ENST00000451710,;TRPM6,intron_variant,,ENST00000360774,NM_017662.4;TRPM6,intron_variant,,ENST00000361255,NM_001177311.1;TRPM6,intron_variant,,ENST00000449912,NM_001177310.1;TRPM6,intron_variant,,ENST00000376864,;TRPM6,intron_variant,,ENST00000376872,;TRPM6,intron_variant,,ENST00000376871,;TRPM6,intron_variant,,ENST00000359047,;RNU6-445P,downstream_gene_variant,,ENST00000516949,;"	"AAAAACAAAAAAAC"	"ENSG00000119121"	"ENST00000360774"	"Transcript"	"intron_variant"	"-/8425"	"-/6069"	"-/2022"	""	""	"rs142488578"	"1"	NA	-1	"TRPM6"	"HGNC"	17995	"protein_coding"	"YES"	"CCDS6647.1"	"ENSP00000354006"	"Q9BX84"	""	"UPI000006E041"	"NM_017662.4"	NA	NA	""	"2/38"	""	"-:0.1090"	"AAAAACAAAAAAAC:0.9864"	"AAAAACAAAAAAAC:0.8674"	NA	"AAAAACAAAAAAAC:0.8095"	"AAAAACAAAAAAAC:0.9115"	"AAAAACAAAAAAAC:0.8415"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"7dada6c8-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"5396"	"PCSK5"	5125	"mskcc.org"	"GRCh37"	"9"	78577051	78577052	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs58509977"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.298-23997_298-23996insA"	""	""	"ENST00000545128"	""	6	"."	4	5	"."	0	"PCSK5,intron_variant,,ENST00000545128,NM_001190482.1;PCSK5,intron_variant,,ENST00000376752,NM_006200.3;PCSK5,intron_variant,,ENST00000376767,;"	"A"	"ENSG00000099139"	"ENST00000545128"	"Transcript"	"intron_variant"	"-/9538"	"-/5583"	"-/1860"	""	""	"rs58509977"	"1"	NA	1	"PCSK5"	"HGNC"	8747	"protein_coding"	"YES"	"CCDS55320.1"	"ENSP00000446280"	"Q92824"	"I0EZ71"	"UPI0001DAD817"	"NM_001190482.1"	NA	NA	""	"2/36"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7db610ce-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5397"	"PCSK5"	5125	"mskcc.org"	"GRCh37"	"9"	78808329	78808330	"+"	"Intron"	"INS"	"-"	"-"	"AAAA"	"rs3077117"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2626+3670_2626+3673dupAAAA"	""	""	"ENST00000545128"	""	209	"."	10	28	"."	0	"PCSK5,3_prime_UTR_variant,,ENST00000376752,NM_006200.3;PCSK5,intron_variant,,ENST00000545128,NM_001190482.1;PCSK5,intron_variant,,ENST00000424854,;PCSK5,intron_variant,,ENST00000455778,;"	"AAAA"	"ENSG00000099139"	"ENST00000545128"	"Transcript"	"intron_variant"	"-/9538"	"-/5583"	"-/1860"	""	""	"rs3077117"	"1"	NA	1	"PCSK5"	"HGNC"	8747	"protein_coding"	"YES"	"CCDS55320.1"	"ENSP00000446280"	"Q92824"	"I0EZ71"	"UPI0001DAD817"	"NM_001190482.1"	NA	NA	""	"20/36"	""	"-:0.0377"	"AAAA:0.9939"	"AAAA:0.9092"	NA	"AAAA:0.999"	"AAAA:0.9314"	"AAAA:0.9509"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7dbe818c-280f-11e6-9fb8-d0da414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0478468899521531	"WXS"	FALSE
"5398"	"PCSK5"	5125	"mskcc.org"	"GRCh37"	"9"	78916760	78916761	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs11451258"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3523+4989dupA"	""	""	"ENST00000545128"	""	35	"."	8	4	"."	0	"PCSK5,intron_variant,,ENST00000545128,NM_001190482.1;PCSK5,intron_variant,,ENST00000424854,;"	"A"	"ENSG00000099139"	"ENST00000545128"	"Transcript"	"intron_variant"	"-/9538"	"-/5583"	"-/1860"	""	""	"rs11451258"	"1"	NA	1	"PCSK5"	"HGNC"	8747	"protein_coding"	"YES"	"CCDS55320.1"	"ENSP00000446280"	"Q92824"	"I0EZ71"	"UPI0001DAD817"	"NM_001190482.1"	NA	NA	""	"27/36"	""	"A:0.1999"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"7dc9ffee-280f-11e6-9fb8-d0da414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228571428571429	"WXS"	FALSE
"5399"	"PRUNE2"	158471	"mskcc.org"	"GRCh37"	"9"	79319129	79319133	"+"	"Intron"	"DEL"	"TATTT"	"TATTT"	"-"	"rs144378754"	NA	"JHCCPT5"	"JHCCPN5"	"TATTT"	"TATTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7514-118_7514-114delAAATA"	""	""	"ENST00000376718"	""	18	"."	8	2	"."	0	"PRUNE2,intron_variant,,ENST00000428286,;PRUNE2,intron_variant,,ENST00000376718,NM_015225.2;PRUNE2,intron_variant,,ENST00000426088,;PRUNE2,upstream_gene_variant,,ENST00000480674,;"	"-"	"ENSG00000106772"	"ENST00000376718"	"Transcript"	"intron_variant"	"-/12584"	"-/9267"	"-/3088"	""	""	"rs144378754"	"1"	NA	-1	"PRUNE2"	"HGNC"	25209	"protein_coding"	"YES"	"CCDS47982.1"	"ENSP00000365908"	"Q8WUY3"	""	"UPI0001612CC0"	"NM_015225.2"	NA	NA	""	"8/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATATTTT"	"6c055858-280f-11e6-9fb8-d0da414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"5400"	"GNA14"	9630	"mskcc.org"	"GRCh37"	"9"	80129525	80129535	"+"	"Intron"	"DEL"	"TTTTTTTTTTT"	"-"	"-"	"rs34158312"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTTTTTTTT"	"TTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.309+14450_309+14460delAAAAAAAAAAA"	""	""	"ENST00000341700"	""	6	"."	5	1	"."	0	"GNA14,intron_variant,,ENST00000341700,NM_004297.3;RP11-466A17.1,intron_variant,,ENST00000439145,;"	"-"	"ENSG00000156049"	"ENST00000341700"	"Transcript"	"intron_variant"	"-/2482"	"-/1068"	"-/355"	""	""	"rs34158312"	"1"	NA	-1	"GNA14"	"HGNC"	4382	"protein_coding"	"YES"	"CCDS6657.1"	"ENSP00000365807"	"O95837"	"B1ALW3"	"UPI000004D20C"	"NM_004297.3"	NA	NA	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATTTTTTTTTTTT"	"6c217286-280f-11e6-9fb8-d0da414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"5401"	"NPAP1P6"	0	"mskcc.org"	"GRCh37"	"9"	82478641	82478642	"+"	"RNA"	"INS"	"-"	"-"	"GGCCCC"	"rs560309151"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.729_734dupCCCCGG"	""	""	"ENST00000440671"	"1/2"	14	"."	4	10	"."	0	"NPAP1P6,non_coding_transcript_exon_variant,,ENST00000440671,;"	"GGCCCC"	"ENSG00000238002"	"ENST00000440671"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"708-709/3484"	""	""	""	""	"rs560309151"	"1"	NA	1	"NPAP1P6"	"HGNC"	45023	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/2"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"26"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7e00cb14-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WXS"	FALSE
"5402"	"RN7SKP242"	0	"mskcc.org"	"GRCh37"	"9"	85817037	85817038	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"rs59769299"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000515967"	""	14	"."	7	3	"."	0	"RN7SKP242,upstream_gene_variant,,ENST00000515967,;"	"A"	"ENSG00000251776"	"ENST00000515967"	"Transcript"	"upstream_gene_variant"	"-/289"	""	""	""	""	"rs59769299"	"1"	"894"	-1	"RN7SKP242"	"HGNC"	45966	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4369"	"A:0.3427"	"A:0.4813"	NA	"A:0.7431"	"A:0.6083"	"A:0.6871"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"7e207ba8-280f-11e6-9fb8-d0da414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5403"	"FRMD3"	257019	"mskcc.org"	"GRCh37"	"9"	86123998	86123999	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs35119061"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.147+29001dupA"	""	""	"ENST00000304195"	""	12	"."	7	2	"."	0	"FRMD3,intron_variant,,ENST00000304195,NM_001244960.1,NM_174938.5;FRMD3,intron_variant,,ENST00000376438,NM_001244959.1;"	"T"	"ENSG00000172159"	"ENST00000304195"	"Transcript"	"intron_variant"	"-/5297"	"-/1794"	"-/597"	""	""	"rs35119061"	"1"	NA	-1	"FRMD3"	"HGNC"	24125	"protein_coding"	"YES"	"CCDS43840.1"	"ENSP00000303508"	"A2A2Y4"	""	"UPI000066DA57"	"NM_001244960.1,NM_174938.5"	NA	NA	""	"1/13"	""	"-:0.2474"	"T:0.9062"	"T:0.7363"	NA	"T:0.6409"	"T:0.7416"	"T:0.683"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7e22db28-280f-11e6-9fb8-d0da414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"5404"	"GKAP1"	80318	"mskcc.org"	"GRCh37"	"9"	86354679	86354679	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs771764362"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1054-20delA"	""	""	"ENST00000376371"	""	290	"."	4	49	"."	0	"GKAP1,intron_variant,,ENST00000376371,NM_025211.3;GKAP1,intron_variant,,ENST00000376365,NM_001135953.1;GKAP1,intron_variant,,ENST00000376362,;"	"-"	"ENSG00000165113"	"ENST00000376371"	"Transcript"	"intron_variant"	"-/1778"	"-/1101"	"-/366"	""	""	"rs771764362"	"1"	NA	-1	"GKAP1"	"HGNC"	17496	"protein_coding"	"YES"	"CCDS35049.1"	"ENSP00000365550"	"Q5VSY0"	"C9J9D2"	"UPI000007224D"	"NM_025211.3"	NA	NA	""	"12/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	"1.885e-05"	"0"	"0"	"0"	"0"	"2.178e-05"	"0"	"6.497e-05"	NA	"PASS"	"AATA"	"6c9a958a-280f-11e6-9fb8-d0da414a729f"	"240"	2.149e-05	"2/93046"	"2/106100"	"0/7964"	"0/9954"	"0/6978"	"0/6216"	"1/45916"	"0/626"	"1/15392"	"PASS"	"FALSE"	0.0137931034482759	"WXS"	FALSE
"5405"	"ZCCHC6"	79670	"mskcc.org"	"GRCh37"	"9"	88926504	88926505	"+"	"Intron"	"INS"	"-"	"-"	"CCCTCTC"	"rs140319974"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3275-787_3275-781dupGAGAGGG"	""	""	"ENST00000375963"	""	8	"."	5	2	"."	0	"ZCCHC6,intron_variant,,ENST00000277141,;ZCCHC6,intron_variant,,ENST00000375961,;ZCCHC6,intron_variant,,ENST00000375963,NM_001185059.1,NM_024617.3;ZCCHC6,intron_variant,,ENST00000375960,NM_001185074.1;ZCCHC6,intron_variant,,ENST00000375957,;"	"CCCTCTC"	"ENSG00000083223"	"ENST00000375963"	"Transcript"	"intron_variant"	"-/5379"	"-/4488"	"-/1495"	""	""	"rs140319974"	"1"	NA	-1	"ZCCHC6"	"HGNC"	25817	"protein_coding"	"YES"	"CCDS35057.1"	"ENSP00000365130"	"Q5VYS8"	""	"UPI00004588F6"	"NM_001185059.1,NM_024617.3"	NA	NA	""	"17/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"7e456030-280f-11e6-9fb8-d0da414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"5406"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	89168426	89168427	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs5898937"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	4	2	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs5898937"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1044"	"T:0.9085"	"T:0.8833"	NA	"T:0.997"	"T:0.7495"	"T:0.9325"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"7e461e3a-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5407"	"DAPK1"	1612	"mskcc.org"	"GRCh37"	"9"	90148579	90148580	"+"	"Intron"	"INS"	"-"	"-"	"CTGCC"	"rs5899002"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.62+34533_62+34537dupGCCCT"	""	""	"ENST00000408954"	""	9	"."	4	1	"."	0	"DAPK1,intron_variant,,ENST00000469640,;DAPK1,intron_variant,,ENST00000408954,NM_004938.2;DAPK1,intron_variant,,ENST00000472284,NM_001288729.1,NM_001288730.1;DAPK1,intron_variant,,ENST00000358077,NM_001288731.1;DAPK1,intron_variant,,ENST00000491893,;DAPK1,intron_variant,,ENST00000496522,;DAPK1,intron_variant,,ENST00000472344,;DAPK1,intron_variant,,ENST00000489291,;DAPK1,intron_variant,,ENST00000469067,;"	"CTGCC"	"ENSG00000196730"	"ENST00000408954"	"Transcript"	"intron_variant"	"-/5892"	"-/4293"	"-/1430"	""	""	"rs5899002"	"1"	NA	1	"DAPK1"	"HGNC"	2674	"protein_coding"	"YES"	"CCDS43842.1"	"ENSP00000386135"	"P53355"	""	"UPI0000210C2F"	"NM_004938.2"	NA	NA	""	"2/25"	""	"-:0.0739"	"CTGCC:0.9841"	"CTGCC:0.8991"	NA	"CTGCC:0.9454"	"CTGCC:0.8678"	"CTGCC:0.907"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"12"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"7e4a958c-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"5408"	"ENSR00001472355"	0	"mskcc.org"	"GRCh37"	"9"	90851862	90851863	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs138567735"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001472355"	""	7	"."	4	1	"."	0	""	"T"	""	"ENSR00001472355"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs138567735"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.0717"	"T:0.0507"	"T:0.0519"	NA	"T:0.0784"	"T:0.1213"	"T:0.0562"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7e59417c-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5409"	"ENSR00001308239"	0	"mskcc.org"	"GRCh37"	"9"	94266187	94266187	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs74416249"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001308239"	""	9	"."	6	1	"."	0	""	"-"	""	"ENSR00001308239"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs74416249"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0777"	"-:0.1248"	"-:0.0202"	NA	"-:0.1379"	"-:0.0209"	"-:0.0511"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAG"	"6d762118-280f-11e6-9fb8-d0da414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5410"	"NOL8"	55035	"mskcc.org"	"GRCh37"	"9"	95069664	95069665	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs138896822"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2687-359_2687-358delAT"	""	""	"ENST00000545558"	""	9	"."	4	2	"."	0	"NOL8,intron_variant,,ENST00000545558,;NOL8,intron_variant,,ENST00000442668,NM_017948.5;NOL8,intron_variant,,ENST00000358855,NM_001256394.1;NOL8,intron_variant,,ENST00000542053,;NOL8,intron_variant,,ENST00000535387,;NOL8,intron_variant,,ENST00000432670,;NOL8,intron_variant,,ENST00000477862,;NOL8,intron_variant,,ENST00000544867,;NOL8,intron_variant,,ENST00000360868,;NOL8,intron_variant,,ENST00000536593,;NOL8,intron_variant,,ENST00000434228,;NOL8,intron_variant,,ENST00000545444,;NOL8,intron_variant,,ENST00000538802,;"	"-"	"ENSG00000198000"	"ENST00000545558"	"Transcript"	"intron_variant"	"-/4343"	"-/3504"	"-/1167"	""	""	"rs138896822"	"1"	NA	-1	"NOL8"	"HGNC"	23387	"protein_coding"	"YES"	"CCDS47993.1"	"ENSP00000441140"	"Q76FK4"	"F8WE42,F5H8B8,F5H7D5,F5H797,F5H692,F5H540,F5GWN9"	"UPI0000211A3D"	""	NA	NA	""	"10/16"	""	"-:0.0375"	"-:0.0023"	"-:0.036"	NA	"-:0.0446"	"-:0.0239"	"-:0.093"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATA"	"6da74a68-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"5411"	"NOL8"	55035	"mskcc.org"	"GRCh37"	"9"	95083833	95083834	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs373091877"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.281+116dupA"	""	""	"ENST00000545558"	""	15	"."	7	2	"."	0	"NOL8,intron_variant,,ENST00000545558,;NOL8,intron_variant,,ENST00000442668,NM_017948.5;NOL8,intron_variant,,ENST00000358855,NM_001256394.1;NOL8,intron_variant,,ENST00000542053,;NOL8,intron_variant,,ENST00000535387,;NOL8,intron_variant,,ENST00000432670,;NOL8,intron_variant,,ENST00000433029,;NOL8,intron_variant,,ENST00000421075,;NOL8,intron_variant,,ENST00000535807,;NOL8,intron_variant,,ENST00000411621,;NOL8,intron_variant,,ENST00000536624,;NOL8,intron_variant,,ENST00000542613,;CENPP,upstream_gene_variant,,ENST00000375587,NM_001012267.1;NOL8,intron_variant,,ENST00000543985,;NOL8,intron_variant,,ENST00000538215,;NOL8,intron_variant,,ENST00000544867,;NOL8,intron_variant,,ENST00000360868,;NOL8,intron_variant,,ENST00000536593,;NOL8,intron_variant,,ENST00000434228,;NOL8,intron_variant,,ENST00000545444,;NOL8,intron_variant,,ENST00000445919,;NOL8,intron_variant,,ENST00000544321,;NOL8,intron_variant,,ENST00000543260,;NOL8,intron_variant,,ENST00000542573,;NOL8,downstream_gene_variant,,ENST00000482475,;NOL8,upstream_gene_variant,,ENST00000467230,;NOL8,downstream_gene_variant,,ENST00000535649,;"	"T"	"ENSG00000198000"	"ENST00000545558"	"Transcript"	"intron_variant"	"-/4343"	"-/3504"	"-/1167"	""	""	"rs373091877"	"1"	NA	-1	"NOL8"	"HGNC"	23387	"protein_coding"	"YES"	"CCDS47993.1"	"ENSP00000441140"	"Q76FK4"	"F8WE42,F5H8B8,F5H7D5,F5H797,F5H692,F5H540,F5GWN9"	"UPI0000211A3D"	""	NA	NA	""	"4/16"	""	"T:0.0389"	"T:0.0023"	"T:0.0375"	NA	"T:0.0456"	"T:0.0249"	"T:0.0971"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7e9858f8-280f-11e6-9fb8-d0da414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.466666666666667	"WXS"	FALSE
"5412"	"NOL8"	55035	"mskcc.org"	"GRCh37"	"9"	95083834	95083835	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs3831246"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.281+115dupT"	""	""	"ENST00000545558"	""	15	"."	5	2	"."	0	"NOL8,intron_variant,,ENST00000545558,;NOL8,intron_variant,,ENST00000442668,NM_017948.5;NOL8,intron_variant,,ENST00000358855,NM_001256394.1;NOL8,intron_variant,,ENST00000542053,;NOL8,intron_variant,,ENST00000535387,;NOL8,intron_variant,,ENST00000432670,;NOL8,intron_variant,,ENST00000433029,;NOL8,intron_variant,,ENST00000421075,;NOL8,intron_variant,,ENST00000535807,;NOL8,intron_variant,,ENST00000411621,;NOL8,intron_variant,,ENST00000536624,;NOL8,intron_variant,,ENST00000542613,;CENPP,upstream_gene_variant,,ENST00000375587,NM_001012267.1;NOL8,intron_variant,,ENST00000543985,;NOL8,intron_variant,,ENST00000538215,;NOL8,intron_variant,,ENST00000544867,;NOL8,intron_variant,,ENST00000360868,;NOL8,intron_variant,,ENST00000536593,;NOL8,intron_variant,,ENST00000434228,;NOL8,intron_variant,,ENST00000545444,;NOL8,intron_variant,,ENST00000445919,;NOL8,intron_variant,,ENST00000544321,;NOL8,intron_variant,,ENST00000543260,;NOL8,intron_variant,,ENST00000542573,;NOL8,downstream_gene_variant,,ENST00000482475,;NOL8,upstream_gene_variant,,ENST00000467230,;NOL8,downstream_gene_variant,,ENST00000535649,;"	"A"	"ENSG00000198000"	"ENST00000545558"	"Transcript"	"intron_variant"	"-/4343"	"-/3504"	"-/1167"	""	""	"rs3831246"	"1"	NA	-1	"NOL8"	"HGNC"	23387	"protein_coding"	"YES"	"CCDS47993.1"	"ENSP00000441140"	"Q76FK4"	"F8WE42,F5H8B8,F5H7D5,F5H797,F5H692,F5H540,F5GWN9"	"UPI0000211A3D"	""	NA	NA	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7e9cce2e-280f-11e6-9fb8-d0da414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5413"	"HIATL1"	84641	"mskcc.org"	"GRCh37"	"9"	97218894	97218896	"+"	"Intron"	"DEL"	"TTC"	"TTC"	"-"	"rs141009059"	NA	"JHCCPT5"	"JHCCPN5"	"TTC"	"TTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1126+280_1126+282delCTT"	""	""	"ENST00000375344"	""	11	"."	4	1	"."	0	"HIATL1,intron_variant,,ENST00000375344,NM_032558.2;HIATL1,intron_variant,,ENST00000428393,;"	"-"	"ENSG00000148110"	"ENST00000375344"	"Transcript"	"intron_variant"	"-/3420"	"-/1521"	"-/506"	""	""	"rs141009059"	"1"	NA	1	"HIATL1"	"HGNC"	23376	"protein_coding"	"YES"	"CCDS6710.2"	"ENSP00000364493"	"Q5SR56"	""	"UPI000046FF5D"	"NM_032558.2"	NA	NA	""	"10/11"	""	"-:0.3321"	"-:0.2837"	"-:0.5072"	NA	"-:0.3413"	"-:0.3191"	"-:0.2771"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTCT"	"6e43dcd4-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"5414"	"FBP2"	8789	"mskcc.org"	"GRCh37"	"9"	97352738	97352739	"+"	"Intron"	"INS"	"-"	"-"	"GGT"	"rs148895885"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.171-2990_171-2988dupACC"	""	""	"ENST00000375337"	""	8	"."	4	1	"."	0	"FBP2,intron_variant,,ENST00000375337,NM_003837.2;"	"GGT"	"ENSG00000130957"	"ENST00000375337"	"Transcript"	"intron_variant"	"-/1305"	"-/1020"	"-/339"	""	""	"rs148895885"	"1"	NA	-1	"FBP2"	"HGNC"	3607	"protein_coding"	"YES"	"CCDS6711.1"	"ENSP00000364486"	"O00757"	""	"UPI000013CDC2"	"NM_003837.2"	NA	NA	""	"1/6"	""	"-:0.1929"	"GGT:0.8812"	"GGT:0.7651"	NA	"GGT:0.7609"	"GGT:0.8191"	"GGT:0.772"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7ee3d026-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5415"	"HEMGN"	55363	"mskcc.org"	"GRCh37"	"9"	100689451	100689458	"+"	"3'UTR"	"DEL"	"ACACACAC"	"ACACACAC"	"-"	"rs72109422"	NA	"JHCCPT5"	"JHCCPN5"	"ACACACAC"	"ACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*208_*215delGTGTGTGT"	""	""	"ENST00000259456"	"5/5"	31	"."	4	4	"."	0	"HEMGN,3_prime_UTR_variant,,ENST00000259456,NM_018437.4,NM_197978.2;C9orf156,upstream_gene_variant,,ENST00000375119,NM_016481.3;C9orf156,upstream_gene_variant,,ENST00000375117,;C9orf156,upstream_gene_variant,,ENST00000455506,;C9orf156,upstream_gene_variant,,ENST00000478126,;C9orf156,upstream_gene_variant,,ENST00000471580,;"	"-"	"ENSG00000136929"	"ENST00000259456"	"Transcript"	"3_prime_UTR_variant"	"1807-1814/2192"	"-/1455"	"-/484"	""	""	"rs72109422"	"1"	NA	-1	"HEMGN"	"HGNC"	17509	"protein_coding"	"YES"	"CCDS6731.1"	"ENSP00000259456"	"Q9BXL5"	""	"UPI000004D311"	"NM_018437.4,NM_197978.2"	NA	NA	"5/5"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATACACACACA"	"6ebf286c-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WXS"	FALSE
"5416"	"STX17"	55014	"mskcc.org"	"GRCh37"	"9"	102678709	102678716	"+"	"Intron"	"DEL"	"ATTTATTC"	"ATTTATTC"	"-"	"rs143579554"	NA	"JHCCPT5"	"JHCCPN5"	"ATTTATTC"	"ATTTATTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.123+1068_123+1075delTATTCATT"	""	""	"ENST00000259400"	""	9	"."	3	1	"."	0	"STX17,intron_variant,,ENST00000259400,NM_017919.2;STX17,intron_variant,,ENST00000525640,;STX17,intron_variant,,ENST00000534052,;STX17,intron_variant,,ENST00000531035,;STX17,downstream_gene_variant,,ENST00000526607,;RP11-60I3.4,intron_variant,,ENST00000524512,;STX17,intron_variant,,ENST00000524405,;STX17,intron_variant,,ENST00000529340,;STX17,intron_variant,,ENST00000525342,;STX17,intron_variant,,ENST00000533696,;"	"-"	"ENSG00000136874"	"ENST00000259400"	"Transcript"	"intron_variant"	"-/2708"	"-/909"	"-/302"	""	""	"rs143579554"	"1"	NA	1	"STX17"	"HGNC"	11432	"protein_coding"	"YES"	"CCDS6745.1"	"ENSP00000259400"	"P56962"	"E9PJW1"	"UPI000013D04E"	"NM_017919.2"	NA	NA	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTATTTATTCA"	"6ef84e3a-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5417"	"EPB41L4B"	54566	"mskcc.org"	"GRCh37"	"9"	112068888	112068891	"+"	"Intron"	"DEL"	"AAAC"	"AAAC"	"-"	"rs139011604"	NA	"JHCCPT5"	"JHCCPN5"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.306+13530_306+13533delGTTT"	""	""	"ENST00000374566"	""	7	"."	3	4	"."	0	"EPB41L4B,intron_variant,,ENST00000374566,NM_019114.3;EPB41L4B,intron_variant,,ENST00000374557,NM_018424.2;"	"-"	"ENSG00000095203"	"ENST00000374566"	"Transcript"	"intron_variant"	"-/5800"	"-/2703"	"-/900"	""	""	"rs139011604"	"1"	NA	-1	"EPB41L4B"	"HGNC"	19818	"protein_coding"	"YES"	"CCDS43859.1"	"ENSP00000363694"	"Q9H329"	""	"UPI0000458994"	"NM_019114.3"	NA	NA	""	"1/25"	""	"AAAC:0.0517"	"-:0.947"	"-:0.9438"	NA	"-:0.995"	"-:0.8996"	"-:0.955"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAACA"	"700ee4c8-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5418"	"RP11-406O23.2"	0	"mskcc.org"	"GRCh37"	"9"	112530242	112530243	"+"	"Intron"	"INS"	"-"	"-"	"AAGGAAGGAGAAAGGAAGGAAGGAAGGAAGGAGGGAAGGTGGGATGGAAGGAAAAGAGGGAGAGAGGGAGAA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.70-2403_70-2402insTTCTCCCTCTCTCCCTCTTTTCCTTCCATCCCACCTTCCCTCCTTCCTTCCTTCCTTCCTTTCTCCTTCCTT"	""	""	"ENST00000449258"	""	21	"."	4	5	"."	0	"PALM2,intron_variant,,ENST00000448454,;PALM2,intron_variant,,ENST00000374531,NM_001037293.2;RP11-406O23.2,intron_variant,,ENST00000449258,;"	"AAGGAAGGAGAAAGGAAGGAAGGAAGGAAGGAGGGAAGGTGGGATGGAAGGAAAAGAGGGAGAGAGGGAGAA"	"ENSG00000232939"	"ENST00000449258"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/478"	""	""	""	""	""	"1"	NA	-1	"RP11-406O23.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7f898a52-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WXS"	FALSE
"5419"	"SVEP1"	79987	"mskcc.org"	"GRCh37"	"9"	113137239	113137240	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs11428970"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.10600+408dupA"	""	""	"ENST00000401783"	""	6	"."	3	1	"."	0	"SVEP1,intron_variant,,ENST00000401783,NM_153366.3;SVEP1,intron_variant,,ENST00000374469,;SVEP1,intron_variant,,ENST00000297826,;SVEP1,downstream_gene_variant,,ENST00000476205,;"	"T"	"ENSG00000165124"	"ENST00000401783"	"Transcript"	"intron_variant"	"-/12341"	"-/10716"	"-/3571"	""	""	"rs11428970"	"1"	NA	-1	"SVEP1"	"HGNC"	15985	"protein_coding"	"YES"	"CCDS48004.1"	"ENSP00000384917"	"Q4LDE5"	""	"UPI000153DA74"	"NM_153366.3"	NA	NA	""	"46/47"	""	"-:0.4265"	"T:0.7958"	"T:0.5504"	NA	"T:0.2202"	"T:0.674"	"T:0.5501"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7f92480e-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5420"	"SVEP1"	79987	"mskcc.org"	"GRCh37"	"9"	113151508	113151509	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs3215846"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9886+295dupG"	""	""	"ENST00000401783"	""	18	"."	5	2	"."	0	"SVEP1,intron_variant,,ENST00000401783,NM_153366.3;SVEP1,intron_variant,,ENST00000374469,;SVEP1,intron_variant,,ENST00000297826,;"	"C"	"ENSG00000165124"	"ENST00000401783"	"Transcript"	"intron_variant"	"-/12341"	"-/10716"	"-/3571"	""	""	"rs3215846"	"1"	NA	-1	"SVEP1"	"HGNC"	15985	"protein_coding"	"YES"	"CCDS48004.1"	"ENSP00000384917"	"Q4LDE5"	""	"UPI000153DA74"	"NM_153366.3"	NA	NA	""	"41/47"	""	"C:0.1609"	"C:0.1324"	"C:0.1585"	NA	"C:0.1339"	"C:0.2406"	"C:0.1472"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"7f95f328-280f-11e6-9fb8-d0da414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WXS"	FALSE
"5421"	"SVEP1"	79987	"mskcc.org"	"GRCh37"	"9"	113191054	113191054	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"rs142049768"	NA	"JHCCPT5"	"JHCCPN5"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5807+369delG"	""	""	"ENST00000401783"	""	6	"."	4	4	"."	0	"SVEP1,intron_variant,,ENST00000401783,NM_153366.3;SVEP1,intron_variant,,ENST00000374469,;SVEP1,upstream_gene_variant,,ENST00000297826,;"	"-"	"ENSG00000165124"	"ENST00000401783"	"Transcript"	"intron_variant"	"-/12341"	"-/10716"	"-/3571"	""	""	"rs142049768"	"1"	NA	-1	"SVEP1"	"HGNC"	15985	"protein_coding"	"YES"	"CCDS48004.1"	"ENSP00000384917"	"Q4LDE5"	""	"UPI000153DA74"	"NM_153366.3"	NA	NA	""	"35/47"	""	"-:0.3598"	"-:0.1793"	"-:0.3804"	NA	"-:0.4881"	"-:0.3827"	"-:0.4335"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACC"	"703b2f42-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5422"	"SVEP1"	79987	"mskcc.org"	"GRCh37"	"9"	113249226	113249227	"+"	"Intron"	"INS"	"-"	"-"	"TC"	"rs142014340"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1930+2702_1930+2703dupGA"	""	""	"ENST00000401783"	""	6	"."	4	3	"."	0	"SVEP1,intron_variant,,ENST00000401783,NM_153366.3;SVEP1,intron_variant,,ENST00000374469,;SVEP1,intron_variant,,ENST00000302728,;SVEP1,intron_variant,,ENST00000374461,;SVEP1,intron_variant,,ENST00000467821,;"	"TC"	"ENSG00000165124"	"ENST00000401783"	"Transcript"	"intron_variant"	"-/12341"	"-/10716"	"-/3571"	""	""	"rs142014340"	"1"	NA	-1	"SVEP1"	"HGNC"	15985	"protein_coding"	"YES"	"CCDS48004.1"	"ENSP00000384917"	"Q4LDE5"	""	"UPI000153DA74"	"NM_153366.3"	NA	NA	""	"9/47"	""	"TC:0.2382"	"TC:0.2088"	"TC:0.1657"	NA	"TC:0.4405"	"TC:0.1173"	"TC:0.2454"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7f9938d0-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5423"	"MUSK"	4593	"mskcc.org"	"GRCh37"	"9"	113548112	113548113	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"rs60715454"	NA	"JHCCPT5"	"JHCCPN5"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1778+128_1778+129delAT"	""	""	"ENST00000374448"	""	35	"."	12	6	"."	0	"MUSK,intron_variant,,ENST00000416899,;MUSK,intron_variant,,ENST00000189978,;MUSK,intron_variant,,ENST00000374448,NM_005592.3,NM_001166281.1;MUSK,intron_variant,,ENST00000374438,;"	"-"	"ENSG00000030304"	"ENST00000374448"	"Transcript"	"intron_variant"	"-/2754"	"-/2610"	"-/869"	""	""	"rs60715454"	"1"	NA	1	"MUSK"	"HGNC"	7525	"protein_coding"	"YES"	"CCDS48005.1"	"ENSP00000363571"	"O15146"	""	"UPI000006D2F7"	"NM_005592.3,NM_001166281.1"	NA	NA	""	"13/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"14"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACATA"	"705f7ad2-280f-11e6-9fb8-d0da414a729f"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342857142857143	"WXS"	FALSE
"5424"	"MUSK"	4593	"mskcc.org"	"GRCh37"	"9"	113548169	113548170	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs72478397"	NA	"JHCCPT5"	"JHCCPN5"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1778+181_1778+182delTA"	""	""	"ENST00000374448"	""	28	"."	4	5	"."	0	"MUSK,intron_variant,,ENST00000416899,;MUSK,intron_variant,,ENST00000189978,;MUSK,intron_variant,,ENST00000374448,NM_005592.3,NM_001166281.1;MUSK,intron_variant,,ENST00000374438,;"	"-"	"ENSG00000030304"	"ENST00000374448"	"Transcript"	"intron_variant"	"-/2754"	"-/2610"	"-/869"	""	""	"rs72478397"	"1"	NA	1	"MUSK"	"HGNC"	7525	"protein_coding"	"YES"	"CCDS48005.1"	"ENSP00000363571"	"O15146"	""	"UPI000006D2F7"	"NM_005592.3,NM_001166281.1"	NA	NA	""	"13/14"	""	"-:0.0782"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTAT"	"7061974a-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WXS"	FALSE
"5425"	"HSDL2"	84263	"mskcc.org"	"GRCh37"	"9"	115223018	115223019	"+"	"Intron"	"INS"	"-"	"-"	"CT"	"rs58832923"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1144+1161_1144+1162insCT"	""	""	"ENST00000398805"	""	7	"."	4	1	"."	0	"HSDL2,intron_variant,,ENST00000398805,NM_032303.4;HSDL2,intron_variant,,ENST00000398803,NM_001195822.1;HSDL2,intron_variant,,ENST00000262542,;HSDL2,intron_variant,,ENST00000539114,;HSDL2,downstream_gene_variant,,ENST00000467434,;C9orf147,intron_variant,,ENST00000412934,;"	"CT"	"ENSG00000119471"	"ENST00000398805"	"Transcript"	"intron_variant"	"-/3350"	"-/1257"	"-/418"	""	""	"rs58832923"	"1"	NA	1	"HSDL2"	"HGNC"	18572	"protein_coding"	"YES"	"CCDS43864.1"	"ENSP00000381785"	"Q6YN16"	"B4E136,B4DWC7"	"UPI0000039E52"	"NM_032303.4"	NA	NA	""	"10/10"	""	"-:0.0489"	"CT:0.9909"	"CT:0.9568"	NA	"CT:0.879"	"CT:0.9394"	"CT:0.9796"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7fbd4c2a-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5426"	"FKBP15"	23307	"mskcc.org"	"GRCh37"	"9"	115968524	115968524	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"rs5900042"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.324+265delT"	""	""	"ENST00000238256"	""	24	"."	4	6	"."	0	"FKBP15,intron_variant,,ENST00000446284,;FKBP15,intron_variant,,ENST00000238256,NM_015258.1;FKBP15,intron_variant,,ENST00000414250,;FKBP15,non_coding_transcript_exon_variant,,ENST00000493847,;FKBP15,downstream_gene_variant,,ENST00000462889,;"	"-"	"ENSG00000119321"	"ENST00000238256"	"Transcript"	"intron_variant"	"-/4336"	"-/3660"	"-/1219"	""	""	"rs5900042"	"1"	NA	-1	"FKBP15"	"HGNC"	23397	"protein_coding"	"YES"	"CCDS48007.1"	"ENSP00000238256"	"Q5T1M5"	"B4DZS8"	"UPI000022D996"	"NM_015258.1"	NA	NA	""	"4/27"	""	"-:0.2063"	"-:0.3858"	"-:0.2233"	NA	"-:0.0228"	"-:0.2097"	"-:0.137"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"70f19cdc-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"5427"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	116881251	116881252	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs11449411"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	7	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11449411"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.1595"	"A:0.1838"	"A:0.1772"	NA	"A:0.0565"	"A:0.1342"	"A:0.2464"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7fec548e-280f-11e6-9fb8-d0da414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WXS"	FALSE
"5428"	"ASTN2"	23245	"mskcc.org"	"GRCh37"	"9"	119265044	119265045	"+"	"Intron"	"INS"	"-"	"-"	"GGAAGGAAGGAAGAAAGATGGAAGGAAAGAAAAAAGGAAGGAGGTAGAAAAGAAGAAGAGAAGGAAGGAGGGAGGGAGAGAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3203-15266_3203-15265insCTCTCTCCCTCCCTCCTTCCTTCTCTTCTTCTTTTCTACCTCCTTCCTTTTTTCTTTCCTTCCATCTTTCTTCCTTCCTTCC"	""	""	"ENST00000361209"	""	20	"."	3	5	"."	0	"ASTN2,intron_variant,,ENST00000313400,;ASTN2,intron_variant,,ENST00000373996,;ASTN2,intron_variant,,ENST00000361209,NM_014010.4;ASTN2,intron_variant,,ENST00000361477,;ASTN2,intron_variant,,ENST00000373986,;ASTN2,intron_variant,,ENST00000288520,NM_198186.3;ASTN2,intron_variant,,ENST00000341734,NM_198187.3,NM_198188.2,NM_001184734.1;RP11-264C15.2,upstream_gene_variant,,ENST00000418250,;"	"GGAAGGAAGGAAGAAAGATGGAAGGAAAGAAAAAAGGAAGGAGGTAGAAAAGAAGAAGAGAAGGAAGGAGGGAGGGAGAGAG"	"ENSG00000148219"	"ENST00000361209"	"Transcript"	"intron_variant"	"-/4622"	"-/3867"	"-/1288"	""	""	""	"1"	NA	-1	"ASTN2"	"HGNC"	17021	"protein_coding"	"YES"	"CCDS6815.1"	"ENSP00000354504"	"O75129"	"B7ZKP3,B2RCB6"	"UPI00002116D7"	"NM_014010.4"	NA	NA	""	"18/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"80159bf0-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"5429"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	120535866	120535876	"+"	"IGR"	"DEL"	"TTCTTTCTTTC"	"TTCTTTCTTTC"	"-"	"rs767045063"	NA	"JHCCPT5"	"JHCCPN5"	"TTCTTTCTTTC"	"TTCTTTCTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	3	1	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs767045063"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTCTTTCTTTCT"	"71c66228-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"5430"	"RP11-281A20.2"	0	"mskcc.org"	"GRCh37"	"9"	120562942	120562943	"+"	"Intron"	"INS"	"-"	"-"	"CT"	"rs61087190"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.121+17113_121+17114dupCT"	""	""	"ENST00000421509"	""	8	"."	5	3	"."	0	"RP11-281A20.2,intron_variant,,ENST00000421509,;"	"CT"	"ENSG00000228512"	"ENST00000421509"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/521"	""	""	""	""	"rs61087190"	"1"	NA	1	"RP11-281A20.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"18"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"801e8e9a-280f-11e6-9fb8-d0da414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"5431"	"BRINP1"	1620	"mskcc.org"	"GRCh37"	"9"	122000689	122000692	"+"	"Intron"	"DEL"	"CTTA"	"CTTA"	"-"	"rs138049969"	NA	"JHCCPT5"	"JHCCPN5"	"CTTA"	"CTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.685+241_685+244delTAAG"	""	""	"ENST00000265922"	""	48	"."	15	9	"."	0	"BRINP1,intron_variant,,ENST00000265922,NM_014618.2;BRINP1,intron_variant,,ENST00000373964,;"	"-"	"ENSG00000078725"	"ENST00000265922"	"Transcript"	"intron_variant"	"-/3202"	"-/2286"	"-/761"	""	""	"rs138049969"	"1"	NA	-1	"BRINP1"	"HGNC"	2687	"protein_coding"	"YES"	"CCDS6822.1"	"ENSP00000265922"	"O60477"	"B4DE75"	"UPI000013D6A7"	"NM_014618.2"	NA	NA	""	"5/7"	""	"-:0.4443"	"-:0.1664"	"-:0.4726"	NA	"-:0.6845"	"-:0.4513"	"-:0.545"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTAC"	"71d441d6-280f-11e6-9fb8-d0da414a729f"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"5432"	"CNTRL"	11064	"mskcc.org"	"GRCh37"	"9"	123939210	123939211	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs3838266"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6955-222dupT"	""	""	"ENST00000373855"	""	15	"."	3	6	"."	0	"CNTRL,intron_variant,,ENST00000373855,;CNTRL,intron_variant,,ENST00000238341,NM_007018.4;CNTRL,intron_variant,,ENST00000373850,;RAB14,downstream_gene_variant,,ENST00000373840,NM_016322.3;RAB14,downstream_gene_variant,,ENST00000451303,;CNTRL,intron_variant,,ENST00000373845,;"	"T"	"ENSG00000119397"	"ENST00000373855"	"Transcript"	"intron_variant"	"-/7660"	"-/6978"	"-/2325"	""	""	"rs3838266"	"1"	NA	1	"CNTRL"	"HGNC"	1858	"protein_coding"	"YES"	"CCDS35118.1"	"ENSP00000362962"	"Q7Z7A1"	"Q5JVD3,Q5JVD6,Q5JVD1"	"UPI0000211718"	""	NA	NA	""	"43/43"	""	"-:0.3548"	"T:0.2595"	"T:0.7406"	NA	"T:0.7768"	"T:0.6938"	"T:0.9131"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"8041e390-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WXS"	TRUE
"5433"	"DAB2IP"	153090	"mskcc.org"	"GRCh37"	"9"	124350889	124350890	"+"	"Intron"	"INS"	"-"	"-"	"AGGGAAGGGA"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.40+21406_40+21415dupGAAGGGAAGG"	""	""	"ENST00000259371"	""	13	"."	3	7	"."	0	"DAB2IP,intron_variant,,ENST00000259371,NM_032552.2;DAB2IP,intron_variant,,ENST00000394340,;DAB2IP,intron_variant,,ENST00000436835,;"	"AGGGAAGGGA"	"ENSG00000136848"	"ENST00000259371"	"Transcript"	"intron_variant"	"-/5451"	"-/3399"	"-/1132"	""	""	""	"1"	NA	1	"DAB2IP"	"HGNC"	17294	"protein_coding"	"YES"	"CCDS6833.2"	"ENSP00000259371"	"Q5VWQ8"	"H0Y3A3,F8WA47,F6R503,B3KW96"	"UPI0000D77E70"	"NM_032552.2"	NA	NA	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"33"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"804cf9d8-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WXS"	FALSE
"5434"	"DAB2IP"	153090	"mskcc.org"	"GRCh37"	"9"	124382214	124382215	"+"	"Intron"	"INS"	"-"	"TGGAAGTGGAAA"	"TGGAAGTGGAAA"	"rs113698635"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.40+52711_40+52712insAGTGGAAATGGA"	""	""	"ENST00000259371"	""	6	"."	5	1	"."	0	"DAB2IP,intron_variant,,ENST00000259371,NM_032552.2;DAB2IP,intron_variant,,ENST00000394340,;DAB2IP,intron_variant,,ENST00000436835,;DAB2IP,intron_variant,,ENST00000489314,;"	"TGGAAGTGGAAA"	"ENSG00000136848"	"ENST00000259371"	"Transcript"	"intron_variant"	"-/5451"	"-/3399"	"-/1132"	""	""	"rs113698635"	"1"	NA	1	"DAB2IP"	"HGNC"	17294	"protein_coding"	"YES"	"CCDS6833.2"	"ENSP00000259371"	"Q5VWQ8"	"H0Y3A3,F8WA47,F6R503,B3KW96"	"UPI0000D77E70"	"NM_032552.2"	NA	NA	""	"1/16"	""	"-:0.0639"	"TGGAAGTGGAAA:0.7723"	"TGGAAGTGGAAA:0.9726"	NA	"TGGAAGTGGAAA:1"	"TGGAAGTGGAAA:1"	"TGGAAGTGGAAA:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"804d8196-280f-11e6-9fb8-d0da414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"5435"	"RC3H2"	54542	"mskcc.org"	"GRCh37"	"9"	125653003	125653003	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs35932213"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.350-179delA"	""	""	"ENST00000373670"	""	30	"."	10	10	"."	0	"RC3H2,intron_variant,,ENST00000373670,;RC3H2,intron_variant,,ENST00000357244,NM_001100588.1;RC3H2,intron_variant,,ENST00000423239,NM_018835.2;RC3H2,intron_variant,,ENST00000335387,;RC3H2,intron_variant,,ENST00000373665,;RC3H2,intron_variant,,ENST00000471874,;RC3H2,intron_variant,,ENST00000478216,;RC3H2,intron_variant,,ENST00000498479,;"	"-"	"ENSG00000056586"	"ENST00000373670"	"Transcript"	"intron_variant"	"-/9248"	"-/3576"	"-/1191"	""	""	"rs35932213"	"1"	NA	-1	"RC3H2"	"HGNC"	21461	"protein_coding"	"YES"	"CCDS43874.1"	"ENSP00000362774"	"Q9HBD1"	""	"UPI0000048D91"	""	NA	NA	""	"2/19"	""	"-:0.3255"	"-:0.3903"	"-:0.3617"	NA	"-:0.6419"	"-:0.1233"	"-:0.0941"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTA"	"7283ed34-280f-11e6-9fb8-d0da414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5436"	"RABGAP1"	23637	"mskcc.org"	"GRCh37"	"9"	125839305	125839306	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs11408062"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2424+265dupG"	""	""	"ENST00000373647"	""	7	"."	3	1	"."	0	"RABGAP1,intron_variant,,ENST00000373647,NM_012197.3;RABGAP1,intron_variant,,ENST00000373643,;RABGAP1,downstream_gene_variant,,ENST00000493854,;RABGAP1,downstream_gene_variant,,ENST00000475607,;RABGAP1,intron_variant,,ENST00000456584,;RABGAP1,downstream_gene_variant,,ENST00000474707,;"	"G"	"ENSG00000011454"	"ENST00000373647"	"Transcript"	"intron_variant"	"-/4997"	"-/3210"	"-/1069"	""	""	"rs11408062"	"1"	NA	1	"RABGAP1"	"HGNC"	17155	"protein_coding"	"YES"	"CCDS6848.2"	"ENSP00000362751"	"Q9Y3P9"	"B7Z2B4,B5MCD9"	"UPI00000373F8"	"NM_012197.3"	NA	NA	""	"19/25"	""	"-:0.0262"	"G:0.9039"	"G:0.9942"	NA	"G:1"	"G:1"	"G:1"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"806e158c-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5437"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	127591210	127591211	"+"	"IGR"	"INS"	"-"	"-"	"TT"	"rs35081894"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	4	1	"."	0	""	"TT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35081894"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"8083997a-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WXS"	FALSE
"5438"	"MAPKAP1"	79109	"mskcc.org"	"GRCh37"	"9"	128305943	128305944	"+"	"Intron"	"INS"	"-"	"-"	"G"	"rs570362142"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.849-497dupC"	""	""	"ENST00000265960"	""	11	"."	4	2	"."	0	"MAPKAP1,intron_variant,,ENST00000265960,NM_001006617.1;MAPKAP1,intron_variant,,ENST00000350766,NM_024117.3;MAPKAP1,intron_variant,,ENST00000373511,NM_001006619.1;MAPKAP1,intron_variant,,ENST00000373498,;MAPKAP1,intron_variant,,ENST00000373503,NM_001006620.1;MAPKAP1,intron_variant,,ENST00000394063,NM_001006621.1;MAPKAP1,intron_variant,,ENST00000394060,NM_001006618.1;MAPKAP1,intron_variant,,ENST00000373497,;MAPKAP1,intron_variant,,ENST00000420643,;MAPKAP1,intron_variant,,ENST00000427078,;MAPKAP1,intron_variant,,ENST00000497932,;MAPKAP1,intron_variant,,ENST00000473837,;"	"G"	"ENSG00000119487"	"ENST00000265960"	"Transcript"	"intron_variant"	"-/3395"	"-/1569"	"-/522"	""	""	"rs570362142"	"1"	NA	-1	"MAPKAP1"	"HGNC"	18752	"protein_coding"	"YES"	"CCDS35140.1"	"ENSP00000265960"	"Q9BPZ7"	"B1AMB1,B1AMA6"	"UPI00000372F6"	"NM_001006617.1"	NA	NA	""	"6/11"	""	"G:0.0036"	"G:0.0076"	"G:0.0043"	NA	"G:0"	"G:0.003"	"G:0.002"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"808d5c3a-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"5439"	"LRSAM1"	90678	"mskcc.org"	"GRCh37"	"9"	130252526	130252529	"+"	"Intron"	"DEL"	"TTTC"	"TTTC"	"-"	"rs146824383"	NA	"JHCCPT5"	"JHCCPN5"	"TTTC"	"TTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1422+756_1422+759delCTTT"	""	""	"ENST00000323301"	""	14	"."	6	2	"."	0	"LRSAM1,intron_variant,,ENST00000323301,NM_138361.5;LRSAM1,intron_variant,,ENST00000300417,NM_001005373.3;LRSAM1,intron_variant,,ENST00000373324,NM_001190723.2;LRSAM1,intron_variant,,ENST00000373322,NM_001005374.3;LRSAM1,intron_variant,,ENST00000483302,;LRSAM1,intron_variant,,ENST00000472068,;LRSAM1,downstream_gene_variant,,ENST00000498513,;"	"-"	"ENSG00000148356"	"ENST00000323301"	"Transcript"	"intron_variant"	"-/3376"	"-/2172"	"-/723"	""	""	"rs146824383"	"1"	NA	1	"LRSAM1"	"HGNC"	25135	"protein_coding"	"YES"	"CCDS6873.1"	"ENSP00000322937"	"Q6UWE0"	""	"UPI000013DB12"	"NM_138361.5"	NA	NA	""	"18/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"27"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTTTTCT"	"736785e4-280f-11e6-9fb8-d0da414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5440"	"CIZ1"	25792	"mskcc.org"	"GRCh37"	"9"	130931688	130931689	"+"	"Frame_Shift_Ins"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2141dupA"	"p.Glu715GlyfsTer6"	"p.E715Gfs*6"	"ENST00000393608"	"13/17"	328	"."	49	165	"."	0	"CIZ1,frameshift_variant,p.Glu741GlyfsTer6,ENST00000538431,NM_001257975.1;CIZ1,frameshift_variant,p.Glu715GlyfsTer6,ENST00000393608,NM_012127.2;CIZ1,frameshift_variant,p.Glu715GlyfsTer6,ENST00000372938,NM_001131016.1;CIZ1,frameshift_variant,p.Glu687GlyfsTer6,ENST00000357558,NM_001131017.1;CIZ1,frameshift_variant,p.Glu686GlyfsTer6,ENST00000325721,;CIZ1,frameshift_variant,p.Glu659GlyfsTer6,ENST00000372948,NM_001131015.1;CIZ1,frameshift_variant,p.Glu614GlyfsTer6,ENST00000541172,NM_001257976.1;CIZ1,frameshift_variant,p.Glu687GlyfsTer6,ENST00000277465,;CIZ1,frameshift_variant,p.Glu635GlyfsTer6,ENST00000372954,NM_001131018.1;CIZ1,frameshift_variant,p.Glu637GlyfsTer6,ENST00000415526,;CIZ1,non_coding_transcript_exon_variant,,ENST00000476727,;CIZ1,non_coding_transcript_exon_variant,,ENST00000471839,;CIZ1,non_coding_transcript_exon_variant,,ENST00000471773,;CIZ1,upstream_gene_variant,,ENST00000485862,;CIZ1,upstream_gene_variant,,ENST00000461765,;CIZ1,upstream_gene_variant,,ENST00000485001,;CIZ1,upstream_gene_variant,,ENST00000491487,;CIZ1,non_coding_transcript_exon_variant,,ENST00000476541,;"	"T"	"ENSG00000148337"	"ENST00000393608"	"Transcript"	"frameshift_variant"	"2344-2345/3032"	"2141-2142/2697"	"714/898"	"K/KX"	"aag/aaAg"	""	"1"	NA	-1	"CIZ1"	"HGNC"	16744	"protein_coding"	"YES"	"CCDS6894.1"	"ENSP00000377232"	"Q9ULV3"	"Q9Y3F8,F6WSM2,F6VD24,B0EXJ7"	"UPI0000141722"	"NM_012127.2"	NA	NA	"13/17"	""	"Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR15491:SF9,hmmpanther:PTHR15491,SMART_domains:SM00451,Superfamily_domains:SSF57667"	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"HIGH"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"80ce5b40-280f-11e6-9fb8-d0da414a729f"	"2940"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.149390243902439	"WXS"	FALSE
"5441"	"SLC27A4"	10999	"mskcc.org"	"GRCh37"	"9"	131118321	131118321	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs61299753"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1774+249delT"	""	""	"ENST00000300456"	""	15	"."	4	2	"."	0	"SLC27A4,intron_variant,,ENST00000300456,NM_005094.3;SLC27A4,intron_variant,,ENST00000372870,;"	"-"	"ENSG00000167114"	"ENST00000300456"	"Transcript"	"intron_variant"	"-/3028"	"-/1932"	"-/643"	""	""	"rs61299753"	"1"	NA	1	"SLC27A4"	"HGNC"	10998	"protein_coding"	"YES"	"CCDS6899.1"	"ENSP00000300456"	"Q6P1M0"	""	"UPI0000038E80"	"NM_005094.3"	NA	NA	""	"12/12"	""	"-:0.2985"	"-:0.6906"	"-:0.1383"	NA	"-:0.1964"	"-:0.1153"	"-:0.1759"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTT"	"73dc0e00-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"5442"	"URM1"	81605	"mskcc.org"	"GRCh37"	"9"	131133498	131133499	"+"	"5'Flank"	"INS"	"-"	"-"	"CCCTC"	"rs144716535"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000452446"	""	26	"."	4	15	"."	0	"URM1,upstream_gene_variant,,ENST00000372850,;URM1,upstream_gene_variant,,ENST00000452446,NM_001135947.2;URM1,upstream_gene_variant,,ENST00000372853,NM_001265582.1,NM_030914.3;URM1,upstream_gene_variant,,ENST00000372847,;URM1,upstream_gene_variant,,ENST00000470840,;"	"CCCTC"	"ENSG00000167118"	"ENST00000452446"	"Transcript"	"upstream_gene_variant"	"-/1726"	"-/441"	"-/146"	""	""	"rs144716535"	"1"	"99"	1	"URM1"	"HGNC"	28378	"protein_coding"	"YES"	"CCDS48035.1"	"ENSP00000412922"	"Q9BTM9"	""	"UPI00017A7D83"	"NM_001135947.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"80d9c73c-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WXS"	FALSE
"5443"	"SET"	646817	"mskcc.org"	"GRCh37"	"9"	131456385	131456386	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs10637043"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.849+79_849+80dupTA"	""	""	"ENST00000372692"	""	129	"."	42	11	"."	2	"SET,intron_variant,,ENST00000322030,NM_003011.3;SET,intron_variant,,ENST00000372692,NM_001122821.1,NM_001287737.1;SET,intron_variant,,ENST00000372688,NM_001248001.1;SET,intron_variant,,ENST00000372686,;SET,intron_variant,,ENST00000409104,NM_001248000.1;SET,downstream_gene_variant,,ENST00000477806,;SET,downstream_gene_variant,,ENST00000466009,;SET,downstream_gene_variant,,ENST00000480217,;SET,downstream_gene_variant,,ENST00000485056,;SET,downstream_gene_variant,,ENST00000480536,;"	"TA"	"ENSG00000119335"	"ENST00000372692"	"Transcript"	"intron_variant"	"-/2850"	"-/873"	"-/290"	""	""	"rs10637043"	"1"	NA	1	"SET"	"HGNC"	10760	"protein_coding"	"YES"	"CCDS48037.1"	"ENSP00000361777"	"Q01105"	"Q5VXV3,B2REB7"	"UPI000006D7FF"	"NM_001122821.1,NM_001287737.1"	NA	NA	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"80e94d60-280f-11e6-9fb8-d0da414a729f"	"2615"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325581395348837	"WXS"	TRUE
"5444"	"CCBL1"	883	"mskcc.org"	"GRCh37"	"9"	131602554	131602556	"+"	"Intron"	"DEL"	"TTG"	"TTG"	"-"	"rs68165024"	NA	"JHCCPT5"	"JHCCPN5"	"TTG"	"TTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.202-1910_202-1908delCAA"	""	""	"ENST00000302586"	""	13	"."	9	2	"."	0	"CCBL1,intron_variant,,ENST00000436267,NM_001287390.1;CCBL1,intron_variant,,ENST00000302586,NM_004059.4,NM_001122671.1;CCBL1,intron_variant,,ENST00000320665,NM_001122672.1;CCBL1,intron_variant,,ENST00000451800,;CCBL1,intron_variant,,ENST00000416084,;CCBL1,intron_variant,,ENST00000427720,;CCBL1,intron_variant,,ENST00000483599,;CCBL1,intron_variant,,ENST00000462722,;CCBL1,intron_variant,,ENST00000474824,;CCBL1,upstream_gene_variant,,ENST00000466418,;"	"-"	"ENSG00000171097"	"ENST00000302586"	"Transcript"	"intron_variant"	"-/1903"	"-/1269"	"-/422"	""	""	"rs68165024"	"1"	NA	-1	"CCBL1"	"HGNC"	1564	"protein_coding"	"YES"	"CCDS43884.1"	"ENSP00000302227"	"Q16773"	"Q9UQN7,Q9UQN6,Q5T278,Q5T276,A8K563"	"UPI0000073E31"	"NM_004059.4,NM_001122671.1"	NA	NA	""	"3/12"	""	"TTG:0.0026"	"-:0.9924"	"-:0.9986"	NA	"-:1"	"-:1"	"-:0.998"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTGT"	"742ea11a-280f-11e6-9fb8-d0da414a729f"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.692307692307692	"WXS"	FALSE
"5445"	"PRRX2"	51450	"mskcc.org"	"GRCh37"	"9"	132459094	132459097	"+"	"Intron"	"DEL"	"AGAG"	"-"	"-"	"rs61100428"	NA	"JHCCPT5"	"JHCCPN5"	"AGAG"	"AGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.260-22416_260-22413delAGAG"	""	""	"ENST00000372469"	""	7	"."	5	5	"."	0	"PRRX2,intron_variant,,ENST00000372469,NM_016307.3;"	"-"	"ENSG00000167157"	"ENST00000372469"	"Transcript"	"intron_variant"	"-/1233"	"-/762"	"-/253"	""	""	"rs61100428"	"1"	NA	1	"PRRX2"	"HGNC"	21338	"protein_coding"	"YES"	"CCDS6926.1"	"ENSP00000361547"	"Q99811"	""	"UPI0000131D13"	"NM_016307.3"	NA	NA	""	"1/3"	""	"-:0.1510"	"-:0.0545"	"-:0.2176"	NA	"-:0.1984"	"-:0.1461"	"-:0.1902"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGAGG"	"74782cd6-280f-11e6-9fb8-d0da414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WXS"	FALSE
"5446"	"LAMC3"	10319	"mskcc.org"	"GRCh37"	"9"	133907944	133907945	"+"	"Intron"	"INS"	"-"	"-"	"CT"	"rs573441455"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.809+391_809+392dupCT"	""	""	"ENST00000361069"	""	8	"."	3	1	"."	0	"LAMC3,intron_variant,,ENST00000361069,NM_006059.3;LAMC3,intron_variant,,ENST00000480883,;"	"CT"	"ENSG00000050555"	"ENST00000361069"	"Transcript"	"intron_variant"	"-/6133"	"-/4728"	"-/1575"	""	""	"rs573441455"	"1"	NA	1	"LAMC3"	"HGNC"	6494	"protein_coding"	"YES"	"CCDS6938.1"	"ENSP00000354360"	"Q9Y6N6"	"Q5JTC4"	"UPI000013D6D3"	"NM_006059.3"	NA	NA	""	"3/27"	""	"CT:0.3149"	"CT:0.6203"	"CT:0.2651"	NA	"CT:0.1498"	"CT:0.1412"	"CT:0.2863"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"10"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"8156c12e-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"5447"	"MED22"	6837	"mskcc.org"	"GRCh37"	"9"	136212497	136212497	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs72209613"	NA	"JHCCPT5"	"JHCCPN5"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.124-390delA"	""	""	"ENST00000491289"	""	7	"."	3	2	"."	0	"MED22,intron_variant,,ENST00000491289,;MED22,intron_variant,,ENST00000476080,;MED22,intron_variant,,ENST00000344469,NM_181491.2;MED22,intron_variant,,ENST00000343730,NM_133640.4;MED22,intron_variant,,ENST00000371999,;MED22,intron_variant,,ENST00000457204,;MED22,intron_variant,,ENST00000446777,;MED22,intron_variant,,ENST00000494177,;RPL7A,upstream_gene_variant,,ENST00000426651,;RPL7A,upstream_gene_variant,,ENST00000323345,NM_000972.2;RPL7A,upstream_gene_variant,,ENST00000315731,;SNORD24,upstream_gene_variant,,ENST00000383884,NR_002447.1;SNORD36B,upstream_gene_variant,,ENST00000363961,NR_000017.1;SNORD36A,upstream_gene_variant,,ENST00000362874,NR_002448.1;MED22,intron_variant,,ENST00000471524,;RPL7A,upstream_gene_variant,,ENST00000463740,;RPL7A,upstream_gene_variant,,ENST00000489392,;RPL7A,upstream_gene_variant,,ENST00000496554,;RPL7A,upstream_gene_variant,,ENST00000468019,;RPL7A,upstream_gene_variant,,ENST00000485706,;MED22,downstream_gene_variant,,ENST00000482295,;"	"-"	"ENSG00000148297"	"ENST00000491289"	"Transcript"	"intron_variant"	"-/4380"	"-/603"	"-/200"	""	""	"rs72209613"	"1"	NA	-1	"MED22"	"HGNC"	11477	"protein_coding"	"YES"	"CCDS6963.1"	"ENSP00000420393"	"Q15528"	"Q5T8T8,Q5T8T6,E9PGW7,E7EN96"	"UPI000013623C"	""	NA	NA	""	"2/4"	""	"-:0.0204"	"-:0.003"	"-:0.0274"	NA	"-:0.001"	"-:0.0596"	"-:0.0184"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTT"	"764dddd0-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5448"	"REXO4"	57109	"mskcc.org"	"GRCh37"	"9"	136274056	136274057	"+"	"Intron"	"INS"	"-"	"-"	"TT"	"rs587775919"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1000-91_1000-90insAA"	""	""	"ENST00000371942"	""	52	"."	3	13	"."	0	"REXO4,intron_variant,,ENST00000371942,NM_001279350.1,NM_020385.3;REXO4,intron_variant,,ENST00000371935,NM_001279349.1;REXO4,intron_variant,,ENST00000454825,;C9orf96,downstream_gene_variant,,ENST00000371957,NM_153710.4;C9orf96,downstream_gene_variant,,ENST00000371955,;REXO4,downstream_gene_variant,,ENST00000445916,;REXO4,downstream_gene_variant,,ENST00000478037,;REXO4,downstream_gene_variant,,ENST00000494045,;"	"TT"	"ENSG00000148300"	"ENST00000371942"	"Transcript"	"intron_variant"	"-/2360"	"-/1269"	"-/422"	""	""	"rs587775919"	"1"	NA	-1	"REXO4"	"HGNC"	12820	"protein_coding"	"YES"	"CCDS6969.1"	"ENSP00000361010"	"Q9GZR2"	"B4E331,B4DJ95"	"UPI00000373DC"	"NM_001279350.1,NM_020385.3"	NA	NA	""	"5/7"	""	"GTGTGTGTGTGTG:0.0008"	"GTGTGTGTGTGTG:0.0015"	"GTGTGTGTGTGTG:0.0014"	NA	"GTGTGTGTGTGTG:0"	"GTGTGTGTGTGTG:0.001"	"GTGTGTGTGTGTG:0"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"81b1b566-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0576923076923077	"WXS"	FALSE
"5449"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	136363124	136363125	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs112685261"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	1	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112685261"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.1472"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"81ba4988-280f-11e6-9fb8-d0da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5450"	"VAV2"	7410	"mskcc.org"	"GRCh37"	"9"	136641513	136641514	"+"	"Intron"	"INS"	"-"	"-"	"C"	"rs11451660"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1966-312_1966-311insG"	""	""	"ENST00000371850"	""	24	"."	7	11	"."	0	"VAV2,intron_variant,,ENST00000371851,;VAV2,intron_variant,,ENST00000371850,NM_001134398.1;VAV2,intron_variant,,ENST00000406606,NM_003371.3;"	"C"	"ENSG00000160293"	"ENST00000371850"	"Transcript"	"intron_variant"	"-/4837"	"-/2637"	"-/878"	""	""	"rs11451660"	"1"	NA	-1	"VAV2"	"HGNC"	12658	"protein_coding"	"YES"	"CCDS48053.1"	"ENSP00000360916"	"P52735"	""	"UPI000013E06E"	"NM_001134398.1"	NA	NA	""	"23/29"	""	"C:0.4024"	"C:0.6369"	"C:0.3631"	NA	"C:0.0417"	"C:0.4751"	"C:0.41"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"81cf065c-280f-11e6-9fb8-d0da414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WXS"	FALSE
"5451"	"KCNT1"	57582	"mskcc.org"	"GRCh37"	"9"	138593872	138593873	"+"	"5'Flank"	"INS"	"-"	"-"	"TCCCTGGACCC"	"rs112971337"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371757"	""	21	"."	8	8	"."	0	"KCNT1,upstream_gene_variant,,ENST00000298480,;KCNT1,upstream_gene_variant,,ENST00000371757,NM_020822.2;KCNT1,upstream_gene_variant,,ENST00000487664,NM_001272003.1;SOHLH1,upstream_gene_variant,,ENST00000298466,NM_001012415.2;SOHLH1,upstream_gene_variant,,ENST00000425225,NM_001101677.1;KCNT1,upstream_gene_variant,,ENST00000460750,;"	"TCCCTGGACCC"	"ENSG00000107147"	"ENST00000371757"	"Transcript"	"upstream_gene_variant"	"-/4717"	"-/3708"	"-/1235"	""	""	"rs112971337"	"1"	"165"	1	"KCNT1"	"HGNC"	18865	"protein_coding"	"YES"	"CCDS35175.2"	"ENSP00000360822"	"Q5JUK3"	"C9JBV2"	"UPI000192C42B"	"NM_020822.2"	NA	NA	""	""	""	"-:0.4744"	"TCCCTGGACCC:0.5129"	"TCCCTGGACCC:0.464"	NA	"TCCCTGGACCC:0.6696"	"TCCCTGGACCC:0.4284"	"TCCCTGGACCC:0.5378"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"820c189e-280f-11e6-9fb8-d0da414a729f"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.380952380952381	"WXS"	FALSE
"5452"	"GRIN1"	2902	"mskcc.org"	"GRCh37"	"9"	140056144	140056159	"+"	"Intron"	"DEL"	"TGGAGTGGGCGGGACG"	"TGGAGTGGGCGGGACG"	"-"	"rs36070681"	NA	"JHCCPT5"	"JHCCPN5"	"TGGAGTGGGCGGGACG"	"TGGAGTGGGCGGGACG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1531-219_1531-204delACGTGGAGTGGGCGGG"	""	""	"ENST00000371553"	""	8	"."	4	1	"."	0	"GRIN1,intron_variant,,ENST00000371561,NM_007327.3;GRIN1,intron_variant,,ENST00000315048,;GRIN1,intron_variant,,ENST00000350902,;GRIN1,intron_variant,,ENST00000371546,;GRIN1,intron_variant,,ENST00000371555,;GRIN1,intron_variant,,ENST00000371550,NM_021569.3;GRIN1,intron_variant,,ENST00000371553,NM_001185090.1;GRIN1,intron_variant,,ENST00000371560,NM_001185091.1;GRIN1,intron_variant,,ENST00000371559,NM_000832.6;GRIN1,intron_variant,,ENST00000471122,;GRIN1,upstream_gene_variant,,ENST00000460273,;GRIN1,downstream_gene_variant,,ENST00000485413,;GRIN1,upstream_gene_variant,,ENST00000473811,;"	"-"	"ENSG00000176884"	"ENST00000371553"	"Transcript"	"intron_variant"	"-/3751"	"-/2832"	"-/943"	""	""	"rs36070681"	"1"	NA	1	"GRIN1"	"HGNC"	4584	"protein_coding"	"YES"	"CCDS55354.1"	"ENSP00000360608"	"Q05586"	""	"UPI000014AF8E"	"NM_001185090.1"	NA	NA	""	"11/20"	""	"TGGAGTGGGCGGGACG:0.0667"	"-:0.9766"	"-:0.9424"	NA	"-:0.9841"	"-:0.9443"	"-:0.8047"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"13"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTGGAGTGGGCGGGACGT"	"79383a9a-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5453"	"EHMT1"	79813	"mskcc.org"	"GRCh37"	"9"	140560997	140560997	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs35217440"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.22-44420delG"	""	""	"ENST00000460843"	""	7	"."	4	2	"."	0	"EHMT1,intron_variant,,ENST00000460843,NM_024757.4;EHMT1,intron_variant,,ENST00000462484,NM_001145527.1;EHMT1,intron_variant,,ENST00000334856,;EHMT1,intron_variant,,ENST00000371394,;EHMT1,upstream_gene_variant,,ENST00000460486,;EHMT1,upstream_gene_variant,,ENST00000492232,;"	"-"	"ENSG00000181090"	"ENST00000460843"	"Transcript"	"intron_variant"	"-/5095"	"-/3897"	"-/1298"	""	""	"rs35217440"	"1"	NA	1	"EHMT1"	"HGNC"	24650	"protein_coding"	"YES"	"CCDS7050.2"	"ENSP00000417980"	"Q9H9B1"	"Q71M33,A0PJE0"	"UPI000194EC2D"	"NM_024757.4"	NA	NA	""	"1/26"	""	"-:0.1749"	"-:0.1293"	"-:0.389"	NA	"-:0.0605"	"-:0.1471"	"-:0.2311"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAGG"	"797cc1d8-280f-11e6-9fb8-d0da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WXS"	FALSE
"5454"	"EHMT1"	79813	"mskcc.org"	"GRCh37"	"9"	140693540	140693541	"+"	"Intron"	"INS"	"-"	"-"	"GCGTCCCCTCCCACACAGAGCCAGCTCGGGCCCTCCACG"	"rs750004538"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2607+181_2607+182insCTCCCACACAGAGCCAGCTCGGGCCCTCCACGGCGTCCC"	""	""	"ENST00000460843"	""	45	"."	6	30	"."	0	"EHMT1,intron_variant,,ENST00000460843,NM_024757.4;EHMT1,intron_variant,,ENST00000486164,;EHMT1,intron_variant,,ENST00000493484,;EHMT1,intron_variant,,ENST00000482340,;EHMT1,upstream_gene_variant,,ENST00000488242,;EHMT1,intron_variant,,ENST00000462942,;"	"GCGTCCCCTCCCACACAGAGCCAGCTCGGGCCCTCCACG"	"ENSG00000181090"	"ENST00000460843"	"Transcript"	"intron_variant"	"-/5095"	"-/3897"	"-/1298"	""	""	"rs750004538"	"1"	NA	1	"EHMT1"	"HGNC"	24650	"protein_coding"	"YES"	"CCDS7050.2"	"ENSP00000417980"	"Q9H9B1"	"Q71M33,A0PJE0"	"UPI000194EC2D"	"NM_024757.4"	NA	NA	""	"17/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"829b0acc-280f-11e6-9fb8-d0da414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WXS"	FALSE
"5455"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	442288	442778	"+"	"IGR"	"DEL"	"GAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGAAGGAGACAGGGAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAGACGGAGGAAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGAAGGAAAGAAGGAAGGAGACAGGGAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGAAGGAAGGAGATGGAGGAAGGAAGGAGAGGGAGGAAGGAAGGAGGGAAGG"	"GAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGAAGGAGACAGGGAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAGACGGAGGAAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGAAGGAAAGAAGGAAGGAGACAGGGAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGAAGGAAGGAGATGGAGGAAGGAAGGAGAGGGAGGAAGGAAGGAGGGAAGG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"GAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGAAGGAGACAGGGAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAGACGGAGGAAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGAAGGAAAGAAGGAAGGAGACAGGGAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGAAGGAAGGAGATGGAGGAAGGAAGGAGAGGGAGGAAGGAAGGAGGGAAGG"	"GAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGAAGGAGACAGGGAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAGACGGAGGAAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGAAGGAAAGAAGGAAGGAGACAGGGAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGAAGGAAGGAGATGGAGGAAGGAAGGAGAGGGAGGAAGGAAGGAGGGAAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	32	"."	3	22	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGAAGGAGACAGGGAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAGACGGAGGAAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGAAGGAAAGAAGGAAGGAGACAGGGAGGAAGGAGAGGGAGGAAGGAAGGAGAGGGAGGGAGGAAGGAAGGAAGGAGACGGAGGAAGGAGAGGGAGGAAGGAGAGGGAGGGAGGAAGGAGAGGAAGGAAGGAGATGGAGGAAGGAAGGAGAGGGAGGAAGGAAGGAGGGAAGGG"	"64e32abe-280f-11e6-af85-d2da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WXS"	FALSE
"5456"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	476952	476953	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs200388378"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"."	4	6	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200388378"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"T:0.0082"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"6c262b64-280f-11e6-af85-d2da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WXS"	FALSE
"5457"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	722086	722100	"+"	"IGR"	"DEL"	"CTCCTTCTCCTCCTC"	"CTCCTTCTCCTCCTC"	"-"	"rs774725987"	NA	"JHCCPT5"	"JHCCPN5"	"CTCCTTCTCCTCCTC"	"CTCCTTCTCCTCCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	6	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs774725987"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTCCTTCTCCTCCTCC"	"64eb99ba-280f-11e6-af85-d2da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5458"	"IL3RA"	3563	"mskcc.org"	"GRCh37"	"X"	1478925	1478926	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"rs201570368"	NA	"JHCCPT5"	"JHCCPN5"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.759+1156_759+1157delCT"	""	""	"ENST00000331035"	""	12	"."	4	5	"."	0	"IL3RA,intron_variant,,ENST00000331035,NM_002183.3,NM_001267713.1;IL3RA,intron_variant,,ENST00000381469,;IL3RA,downstream_gene_variant,,ENST00000432757,;"	"-"	"ENSG00000185291"	"ENST00000331035"	"Transcript"	"intron_variant"	"-/1706"	"-/1137"	"-/378"	""	""	"rs201570368"	"1"	NA	1	"IL3RA"	"HGNC"	6012	"protein_coding"	"YES"	"CCDS14113.1"	"ENSP00000327890"	"P26951"	"Q9UEH7"	"UPI0000001C31"	"NM_002183.3,NM_001267713.1"	NA	NA	""	"8/11"	""	"TC:0.4716"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"11"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATCT"	"64fd581c-280f-11e6-af85-d2da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5459"	"AKAP17A"	8227	"mskcc.org"	"GRCh37"	"X"	1714124	1714151	"+"	"Intron"	"DEL"	"GGGTCTGCACCGGACATGAGTGGTGAGC"	"-"	"-"	"rs769649102"	NA	"JHCCPT5"	"JHCCPN5"	"GGGTCTGCACCGGACATGAGTGGTGAGC"	"GGGTCTGCACCGGACATGAGTGGTGAGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.763-151_763-124delGTCTGCACCGGACATGAGTGGTGAGCGG"	""	""	"ENST00000313871"	""	7	"."	7	2	"."	0	"AKAP17A,intron_variant,,ENST00000313871,NM_005088.2;AKAP17A,intron_variant,,ENST00000381261,;AKAP17A,intron_variant,,ENST00000474361,;"	"-"	"ENSG00000197976"	"ENST00000313871"	"Transcript"	"intron_variant"	"-/3204"	"-/2088"	"-/695"	""	""	"rs769649102"	"1"	NA	1	"AKAP17A"	"HGNC"	18783	"protein_coding"	"YES"	"CCDS14116.1"	"ENSP00000324827"	"Q02040"	""	"UPI00001AF072"	"NM_005088.2"	NA	NA	""	"2/4"	""	"GGGTCTGCACCGGACATGAGTGGTGAGC:0.3389"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGGGTCTGCACCGGACATGAGTGGTGAGCG"	"6502b744-280f-11e6-af85-d2da414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	1	"WXS"	FALSE
"5460"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1830901	1830902	"+"	"IGR"	"INS"	"-"	"-"	"TC"	"rs766477416"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	23	"."	4	10	"."	0	""	"TC"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs766477416"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"TC:0.4131"	"TC:0.4228"	"TC:0.3746"	NA	"TC:0.381"	"TC:0.4851"	"TC:0.3865"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"6c49568e-280f-11e6-af85-d2da414a729f"	"222"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WXS"	FALSE
"5461"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1830981	1830982	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs201631608"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	25	"."	6	5	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201631608"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"C:0.1911"	"C:0.3268"	"C:0.1383"	NA	"C:0.2361"	"C:0.0964"	"C:0.0961"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"6c4a375c-280f-11e6-af85-d2da414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WXS"	FALSE
"5462"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1972733	1972744	"+"	"IGR"	"DEL"	"AAGGAAGGAAGG"	"AAGGAAGGAAGG"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AAGGAAGGAAGG"	"AAGGAAGGAAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"."	3	2	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAAGGAAGGAAGGA"	"650cb244-280f-11e6-af85-d2da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5463"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	2030311	2030334	"+"	"IGR"	"DEL"	"CCTTATTCTCTTTCTTTCTCCTTC"	"CCTTATTCTCTTTCTTTCTCCTTC"	"TATTCTCTTTCTTTCTCCT"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CCTTATTCTCTTTCTTTCTCCTTC"	"CCTTATTCTCTTTCTTTCTCCTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"."	5	5	"."	0	""	"TATTCTCTTTCTTTCTCCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCCTTATTCTCTTTCTTTCTCCTTCT"	"6be0ef4a-280f-11e6-af85-d2da414a729f"	"251"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WXS"	FALSE
"5464"	"DHRSX"	207063	"mskcc.org"	"GRCh37"	"X"	2143208	2143209	"+"	"Intron"	"DEL"	"CA"	"CA"	"-"	"rs779957775"	NA	"JHCCPT5"	"JHCCPN5"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.805-3939_805-3938delTG"	""	""	"ENST00000334651"	""	8	"."	5	2	"."	0	"DHRSX,intron_variant,,ENST00000334651,NM_145177.2;"	"-"	"ENSG00000169084"	"ENST00000334651"	"Transcript"	"intron_variant"	"-/2571"	"-/993"	"-/330"	""	""	"rs779957775"	"1"	NA	-1	"DHRSX"	"HGNC"	18399	"protein_coding"	"YES"	"CCDS35195.1"	"ENSP00000334113"	"Q8N5I4"	"C9JRH1"	"UPI0000D61D1C"	"NM_145177.2"	NA	NA	""	"6/6"	""	"-:0.4989"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCAC"	"6515b470-280f-11e6-af85-d2da414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WXS"	FALSE
"5465"	"LINC00102"	100359394	"mskcc.org"	"GRCh37"	"X"	2527450	2527461	"+"	"3'Flank"	"DEL"	"GCGCGCCGTGGC"	"GCGCGCCGTGGC"	"-"	"rs202122448"	NA	"JHCCPT5"	"JHCCPN5"	"GCGCGCCGTGGC"	"GCGCGCCGTGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000445785"	""	8	"."	3	3	"."	0	"LINC00102,downstream_gene_variant,,ENST00000445785,;CD99P1,non_coding_transcript_exon_variant,,ENST00000435581,;CD99P1,non_coding_transcript_exon_variant,,ENST00000430562,;CD99P1,non_coding_transcript_exon_variant,,ENST00000431582,;CD99P1,non_coding_transcript_exon_variant,,ENST00000527459,;"	"-"	"ENSG00000230542"	"ENST00000445785"	"Transcript"	"downstream_gene_variant"	"-/1340"	""	""	""	""	"rs202122448"	"1"	"3568"	-1	"LINC00102"	"HGNC"	30470	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.4856"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGCGCGCCGTGGCG"	"6522589c-280f-11e6-af85-d2da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WXS"	FALSE
"5466"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	5040489	5040490	"+"	"IGR"	"INS"	"-"	"-"	"T"	"rs35736997"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	6	"."	4	1	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs35736997"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0448"	"T:0.6778"	"T:0.7406"	NA	"T:0.7401"	"T:0.7366"	"T:0.7249"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"6c779fbc-280f-11e6-af85-d2da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5467"	"NLGN4X"	57502	"mskcc.org"	"GRCh37"	"X"	5927107	5927108	"+"	"Intron"	"INS"	"-"	"GT"	"GT"	"rs80266407"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.625+20212_625+20213dupAC"	""	""	"ENST00000381095"	""	15	"."	11	2	"."	0	"NLGN4X,intron_variant,,ENST00000381095,NM_181332.1,NM_001282146.1,NM_001282145.1;NLGN4X,intron_variant,,ENST00000381093,;NLGN4X,intron_variant,,ENST00000275857,NM_020742.2;NLGN4X,intron_variant,,ENST00000381092,;NLGN4X,intron_variant,,ENST00000538097,;"	"GT"	"ENSG00000146938"	"ENST00000381095"	"Transcript"	"intron_variant"	"-/5870"	"-/2451"	"-/816"	""	""	"rs80266407"	"1"	NA	-1	"NLGN4X"	"HGNC"	14287	"protein_coding"	"YES"	"CCDS14126.1"	"ENSP00000370485"	"Q8N0W4"	"B3KMT6"	"UPI0000072EC5"	"NM_181332.1,NM_001282146.1,NM_001282145.1"	NA	NA	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"6c7c8a86-280f-11e6-af85-d2da414a729f"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.733333333333333	"WXS"	FALSE
"5468"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	8270518	8270519	"+"	"IGR"	"DEL"	"AA"	"AA"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"."	3	4	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAA"	"656a0d22-280f-11e6-af85-d2da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WXS"	FALSE
"5469"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	8270571	8270572	"+"	"IGR"	"INS"	"-"	"-"	"AGAAAG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"."	3	5	"."	0	""	"AGAAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"6c85b098-280f-11e6-af85-d2da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0483870967741935	"WXS"	FALSE
"5470"	"VCX3B"	425054	"mskcc.org"	"GRCh37"	"X"	8433271	8433272	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs200887951"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-146-75_-146-74insT"	""	""	"ENST00000381032"	""	9	"."	3	3	"."	0	"VCX3B,intron_variant,,ENST00000381032,NM_001001888.3;VCX3B,intron_variant,,ENST00000453306,;VCX3B,intron_variant,,ENST00000444481,;VCX3B,upstream_gene_variant,,ENST00000440654,;VCX3B,upstream_gene_variant,,ENST00000381029,;"	"T"	"ENSG00000205642"	"ENST00000381032"	"Transcript"	"intron_variant"	"-/1171"	"-/741"	"-/246"	""	""	"rs200887951"	"1"	NA	1	"VCX3B"	"HGNC"	31838	"protein_coding"	"YES"	"CCDS48077.2"	"ENSP00000370420"	""	"C9JS46"	"UPI000057A469"	"NM_001001888.3"	NA	NA	""	"1/2"	""	"-:0.3589"	"T:0.4985"	"T:0.4755"	NA	"T:0.5942"	"T:0.3986"	"T:0.4407"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"6c8d4b28-280f-11e6-af85-d2da414a729f"	"109"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5471"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	8467278	8467281	"+"	"IGR"	"DEL"	"AAGA"	"AAGA"	"-"	"rs200326511"	NA	"JHCCPT5"	"JHCCPN5"	"AAGA"	"AAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"."	3	25	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200326511"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAGAA"	"657017bc-280f-11e6-af85-d2da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.032967032967033	"WXS"	FALSE
"5472"	"ARHGAP6"	395	"mskcc.org"	"GRCh37"	"X"	11234837	11234838	"+"	"Intron"	"INS"	"-"	"-"	"TTC"	"rs112426353"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.749-19724_749-19722dupGAA"	""	""	"ENST00000337414"	""	26	"."	14	4	"."	0	"ARHGAP6,intron_variant,,ENST00000337414,NM_013427.2;ARHGAP6,intron_variant,,ENST00000303025,NM_013423.2;ARHGAP6,intron_variant,,ENST00000380736,NM_001287242.1;ARHGAP6,intron_variant,,ENST00000380718,NM_006125.2;ARHGAP6,intron_variant,,ENST00000380717,;ARHGAP6,intron_variant,,ENST00000534860,;ARHGAP6,intron_variant,,ENST00000380732,;ARHGAP6,intron_variant,,ENST00000413512,;ARHGAP6,intron_variant,,ENST00000489330,;ARHGAP6,intron_variant,,ENST00000495242,;"	"TTC"	"ENSG00000047648"	"ENST00000337414"	"Transcript"	"intron_variant"	"-/5117"	"-/2925"	"-/974"	""	""	"rs112426353"	"1"	NA	-1	"ARHGAP6"	"HGNC"	676	"protein_coding"	"YES"	"CCDS14140.1"	"ENSP00000338967"	"O43182"	"B4DN35"	"UPI00001AED54"	"NM_013427.2"	NA	NA	""	"2/12"	""	"TTC:0.2188"	"TTC:0.3101"	"TTC:0.1153"	NA	"TTC:0.0516"	"TTC:0.1561"	"TTC:0.1299"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"6c9d1f9e-280f-11e6-af85-d2da414a729f"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.538461538461538	"WXS"	FALSE
"5473"	"BMX"	660	"mskcc.org"	"GRCh37"	"X"	15552573	15552574	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs34879154"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1147+117dupA"	""	""	"ENST00000357607"	""	67	"."	40	6	"."	2	"BMX,intron_variant,,ENST00000357607,;BMX,intron_variant,,ENST00000348343,NM_203281.2;BMX,intron_variant,,ENST00000342014,NM_001721.6;BMX,intron_variant,,ENST00000489983,;"	"A"	"ENSG00000102010"	"ENST00000357607"	"Transcript"	"intron_variant"	"-/2598"	"-/2028"	"-/675"	""	""	"rs34879154"	"1"	NA	1	"BMX"	"HGNC"	1079	"protein_coding"	"YES"	"CCDS14168.1"	"ENSP00000350224"	"P51813"	""	"UPI0000000DFF"	""	NA	NA	""	"12/18"	""	"-:0.3174"	"A:0.3434"	"A:0.5389"	NA	"A:0.744"	"A:0.4851"	"A:0.5225"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"6cc91edc-280f-11e6-af85-d2da414a729f"	"2520"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.597014925373134	"WXS"	FALSE
"5474"	"CA5BP1"	340591	"mskcc.org"	"GRCh37"	"X"	15720681	15720682	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"rs35373086"	NA	"JHCCPT5"	"JHCCPN5"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.322-224_322-223delTG"	""	""	"ENST00000380334"	""	6	"."	4	2	"."	0	"CA5B,intron_variant,,ENST00000498004,;CA5BP1,intron_variant,,ENST00000380334,;CA5BP1,intron_variant,,ENST00000380333,;CA5BP1,downstream_gene_variant,,ENST00000380336,;CA5BP1,downstream_gene_variant,,ENST00000435806,;"	"-"	"ENSG00000186312"	"ENST00000380334"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1264"	""	""	""	""	"rs35373086"	"1"	NA	1	"CA5BP1"	"HGNC"	29544	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	"TG:0.2789"	"-:0.5651"	"-:0.5245"	NA	"-:0.7054"	"-:0.4026"	"-:0.5061"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTGA"	"65d647da-280f-11e6-af85-d2da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WXS"	FALSE
"5475"	"RPS6KA3"	6197	"mskcc.org"	"GRCh37"	"X"	20284863	20284868	"+"	"5'UTR"	"DEL"	"GCGGCA"	"GCGGCA"	"-"	"rs781064398"	NA	"JHCCPT5"	"JHCCPN5"	"GCGGCA"	"GCGGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-118_-113delTGCCGC"	""	""	"ENST00000379565"	"1/22"	18	"."	3	9	"."	0	"RPS6KA3,5_prime_UTR_variant,,ENST00000379565,NM_004586.2;RPS6KA3,intron_variant,,ENST00000544447,;RPS6KA3,upstream_gene_variant,,ENST00000438357,;RPS6KA3,intron_variant,,ENST00000492128,;"	"-"	"ENSG00000177189"	"ENST00000379565"	"Transcript"	"5_prime_UTR_variant"	"91-96/7918"	"-/2223"	"-/740"	""	""	"rs781064398"	"1"	NA	-1	"RPS6KA3"	"HGNC"	10432	"protein_coding"	"YES"	"CCDS14197.1"	"ENSP00000368884"	"P51812"	"Q7Z2J4,Q7Z2J3,B7ZB17,B1AXG2"	"UPI000012DB2E"	"NM_004586.2"	NA	NA	"1/22"	""	""	"GCGGCA:0.0421"	"-:0.73"	"-:0.7248"	NA	"-:0.7569"	"-:0.675"	"-:0.7219"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGGCGGCAG"	"66309cbc-280f-11e6-af85-d2da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WXS"	FALSE
"5476"	"DMD"	1756	"mskcc.org"	"GRCh37"	"X"	31302674	31302675	"+"	"Intron"	"INS"	"-"	"-"	"TTCTTCTTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9225-23550_9225-23542dupGAAGAAGAA"	""	""	"ENST00000357033"	""	9	"."	3	1	"."	0	"DMD,intron_variant,,ENST00000357033,NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000378677,NM_004009.3,NM_004010.3,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000378707,NM_004013.2,NM_004014.2;DMD,intron_variant,,ENST00000359836,NM_004022.2;DMD,intron_variant,,ENST00000541735,NM_004020.3;DMD,intron_variant,,ENST00000343523,NM_004023.2;DMD,intron_variant,,ENST00000358062,;DMD,intron_variant,,ENST00000474231,NM_004021.2;DMD,intron_variant,,ENST00000469142,;"	"TTCTTCTTC"	"ENSG00000198947"	"ENST00000357033"	"Transcript"	"intron_variant"	"-/13956"	"-/11058"	"-/3685"	""	""	""	"1"	NA	-1	"DMD"	"HGNC"	2928	"protein_coding"	"YES"	"CCDS14233.1"	"ENSP00000354923"	""	"Q9UPB5,Q9UPB4,Q9UMK8,Q9UMK7,Q9UMG1,Q9UME2,Q9UEH4,Q8WYF6,Q8WYF5,Q8WYF4,Q8WYF3,Q8WYF2,Q8WYF1,Q8WYF0,Q8WYE9,Q8WYE8,Q8WYE7,Q8WYE6,Q8WYE5,Q8WYE4,Q8WYE3,Q8WYE2,Q8WYE1,Q8WYD9,Q8WYD8,Q8WYD7,Q8WYD6,Q8WYD5,Q8WYD4,Q8WYD3,Q8WYD2,Q8WYD1,Q8WYD0,Q8WYC9,Q8WYC8,Q8WYC7,Q8WYC6,Q8WYC5,Q8WYC4,Q8WYC3,Q8WYC2,Q8WYC1,Q8WYC0,Q8WYB9,Q8WYB8,Q8WTQ2,Q7KZ40,Q7KYP7,Q548X2,Q14205,F2WSI7,E7EQS5"	"UPI000049E111"	"NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3"	NA	NA	""	"62/78"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTT"	"6d295d24-280f-11e6-af85-d2da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5477"	"RP1-192P9.1"	0	"mskcc.org"	"GRCh37"	"X"	45241506	45241517	"+"	"5'Flank"	"DEL"	"TGTGTGTGTGTG"	"TGTGTGTGTGTG"	"-"	"rs745765939"	NA	"JHCCPT5"	"JHCCPN5"	"TGTGTGTGTGTG"	"TGTGTGTGTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000534915"	""	19	"."	6	6	"."	0	"RP1-192P9.1,upstream_gene_variant,,ENST00000534915,;RP1-192P9.1,upstream_gene_variant,,ENST00000422979,;"	"-"	"ENSG00000237782"	"ENST00000534915"	"Transcript"	"upstream_gene_variant"	"-/513"	""	""	""	""	"rs745765939"	"1"	"181"	-1	"RP1-192P9.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTGTGTGTGTGTGT"	"6728cc0c-280f-11e6-af85-d2da414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WXS"	FALSE
"5478"	"OTUD5"	55593	"mskcc.org"	"GRCh37"	"X"	48791611	48791611	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs372909038"	NA	"JHCCPT5"	"JHCCPN5"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1074+126delC"	""	""	"ENST00000156084"	""	70	"."	3	30	"."	0	"OTUD5,intron_variant,,ENST00000156084,NM_017602.3;OTUD5,intron_variant,,ENST00000376488,;OTUD5,intron_variant,,ENST00000396743,NM_001136157.1,NM_001136158.1;OTUD5,intron_variant,,ENST00000455452,;OTUD5,intron_variant,,ENST00000428668,NM_001136159.1;OTUD5,intron_variant,,ENST00000484499,;OTUD5,downstream_gene_variant,,ENST00000481142,;"	"-"	"ENSG00000068308"	"ENST00000156084"	"Transcript"	"intron_variant"	"-/2740"	"-/1716"	"-/571"	""	""	"rs372909038"	"1"	NA	-1	"OTUD5"	"HGNC"	25402	"protein_coding"	"YES"	"CCDS14313.1"	"ENSP00000156084"	"Q96G74"	"H7BZQ3"	"UPI000006ED2A"	"NM_017602.3"	NA	NA	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"67891dfa-280f-11e6-af85-d2da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0428571428571429	"WXS"	FALSE
"5479"	"EFNB1"	1947	"mskcc.org"	"GRCh37"	"X"	68056713	68056714	"+"	"Intron"	"INS"	"-"	"C"	"C"	"rs34346627"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.129-1746dupC"	""	""	"ENST00000204961"	""	6	"."	5	2	"."	0	"EFNB1,intron_variant,,ENST00000204961,NM_004429.4;"	"C"	"ENSG00000090776"	"ENST00000204961"	"Transcript"	"intron_variant"	"-/3314"	"-/1041"	"-/346"	""	""	"rs34346627"	"1"	NA	1	"EFNB1"	"HGNC"	3226	"protein_coding"	"YES"	"CCDS14391.1"	"ENSP00000204961"	"P98172"	""	"UPI000006222D"	"NM_004429.4"	NA	NA	""	"1/4"	""	"-:0.4374"	"C:0.5703"	"C:0.4164"	NA	"C:0.2877"	"C:0.4712"	"C:0.3241"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTC"	"6dfe0ef2-280f-11e6-af85-d2da414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.833333333333333	"WXS"	FALSE
"5480"	"MAGT1"	84061	"mskcc.org"	"GRCh37"	"X"	77086468	77086487	"+"	"Intron"	"DEL"	"TTTTATTTTATTTTATTTTA"	"TTTTATTTTATTTTATTTTA"	"-"	"rs201564456"	NA	"JHCCPT5"	"JHCCPN5"	"TTTTATTTTATTTTATTTTA"	"TTTTATTTTATTTTATTTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.998-95_998-76delTAAAATAAAATAAAATAAAA"	""	""	"ENST00000358075"	""	52	"."	5	9	"."	0	"MAGT1,intron_variant,,ENST00000358075,NM_032121.5;"	"-"	"ENSG00000102158"	"ENST00000358075"	"Transcript"	"intron_variant"	"-/4047"	"-/1104"	"-/367"	""	""	"rs201564456"	"1"	NA	-1	"MAGT1"	"HGNC"	28880	"protein_coding"	"YES"	"CCDS14436.2"	"ENSP00000354649"	"Q9H0U3"	"Q96SP2"	"UPI0001881372"	"NM_032121.5"	NA	NA	""	"8/9"	""	"TTTTATTTTATTTTATTTTA:0.4514"	"-:0.1157"	"-:0.5173"	NA	"-:0.4623"	"-:0.6312"	"-:0.4683"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTTTTTATTTTATTTTATTTTAT"	"68d6ce00-280f-11e6-af85-d2da414a729f"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0961538461538462	"WXS"	FALSE
"5481"	"PCDH11X"	27328	"mskcc.org"	"GRCh37"	"X"	91586371	91586372	"+"	"Intron"	"INS"	"-"	"-"	"TCCTCCTCCTCC"	"rs778767931"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3145-56354_3145-56343dupCTCCTCCTCCTC"	""	""	"ENST00000373094"	""	12	"."	4	1	"."	0	"PCDH11X,intron_variant,,ENST00000373094,NM_032968.3;PCDH11X,intron_variant,,ENST00000373097,NM_032969.3;PCDH11X,intron_variant,,ENST00000373088,NM_001168362.1;PCDH11X,intron_variant,,ENST00000406881,NM_001168360.1;PCDH11X,intron_variant,,ENST00000504220,NM_001168361.1;PCDH11X,intron_variant,,ENST00000361655,NM_001168363.1;PCDH11X,intron_variant,,ENST00000298274,;"	"TCCTCCTCCTCC"	"ENSG00000102290"	"ENST00000373094"	"Transcript"	"intron_variant"	"-/9176"	"-/4044"	"-/1347"	""	""	"rs778767931"	"1"	NA	1	"PCDH11X"	"HGNC"	8656	"protein_coding"	"YES"	"CCDS14461.1"	"ENSP00000362186"	"Q9BZA7"	"Q70LT5,Q70LT4"	"UPI0000070BD8"	"NM_032968.3"	NA	NA	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"6e5b03fa-280f-11e6-af85-d2da414a729f"	"240"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5482"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	119911930	119911946	"+"	"IGR"	"DEL"	"TTCTTCTTTTCCTTCCT"	"TTCTTCTTTTCCTTCCT"	"CTTC"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TTCTTCTTTTCCTTCCT"	"TTCTTCTTTTCCTTCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"."	3	2	"."	0	""	"CTTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTCTTCTTTTCCTTCCTT"	"6c1913de-280f-11e6-af85-d2da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WXS"	FALSE
"5483"	"FRMD7"	90167	"mskcc.org"	"GRCh37"	"X"	131265493	131265494	"+"	"5'Flank"	"INS"	"-"	"-"	"AT"	"rs756842097"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000298542"	""	17	"."	7	4	"."	0	"FRMD7,upstream_gene_variant,,ENST00000298542,NM_194277.2;FRMD7,upstream_gene_variant,,ENST00000464296,;RP1-305B16.3,upstream_gene_variant,,ENST00000424708,;"	"AT"	"ENSG00000165694"	"ENST00000298542"	"Transcript"	"upstream_gene_variant"	"-/3198"	"-/2145"	"-/714"	""	""	"rs756842097"	"1"	"3445"	-1	"FRMD7"	"HGNC"	8079	"protein_coding"	"YES"	"CCDS35397.1"	"ENSP00000298542"	"Q6ZUT3"	""	"UPI00001C0AED"	"NM_194277.2"	NA	NA	""	""	""	"AT:0.1298"	"AT:0.1407"	"AT:0.0648"	NA	"AT:0.0129"	"AT:0.175"	"AT:0.0716"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"6f543772-280f-11e6-af85-d2da414a729f"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411764705882353	"WXS"	FALSE
"5484"	"HPRT1"	3251	"mskcc.org"	"GRCh37"	"X"	133624532	133624533	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"rs67231548"	NA	"JHCCPT5"	"JHCCPN5"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.402+310_402+311delAT"	""	""	"ENST00000298556"	""	7	"."	3	1	"."	0	"HPRT1,intron_variant,,ENST00000298556,NM_000194.2;HPRT1,intron_variant,,ENST00000462974,;HPRT1,intron_variant,,ENST00000475720,;"	"-"	"ENSG00000165704"	"ENST00000298556"	"Transcript"	"intron_variant"	"-/1407"	"-/657"	"-/218"	""	""	"rs67231548"	"1"	NA	1	"HPRT1"	"HGNC"	5157	"protein_coding"	"YES"	"CCDS14641.1"	"ENSP00000298556"	"P00492"	""	"UPI00000004D7"	"NM_000194.2"	NA	NA	""	"5/8"	""	"TA:0.3072"	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"13"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTAT"	"6ad18100-280f-11e6-af85-d2da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WXS"	FALSE
"5485"	"RP11-308D16.4"	0	"mskcc.org"	"GRCh37"	"X"	135999032	135999033	"+"	"Intron"	"INS"	"-"	"-"	"TTCCTC"	"rs201018299"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.387-4364_387-4359dupTTCCTC"	""	""	"ENST00000424306"	""	15	"."	6	4	"."	0	"RP11-308D16.4,intron_variant,,ENST00000424306,;RP11-308D16.4,intron_variant,,ENST00000431464,;"	"TTCCTC"	"ENSG00000234062"	"ENST00000424306"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2222"	""	""	""	""	"rs201018299"	"1"	NA	1	"RP11-308D16.4"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	"-:0.0003"	"TTCCTC:0.7587"	"TTCCTC:0.755"	NA	"TTCCTC:0.7569"	"TTCCTC:0.7614"	"TTCCTC:0.7342"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"12"	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"6f7a358a-280f-11e6-af85-d2da414a729f"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WXS"	FALSE
"5486"	"FGF13"	2258	"mskcc.org"	"GRCh37"	"X"	138066976	138066977	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTG"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.50-127141_50-127136dupCACACA"	""	""	"ENST00000370603"	""	32	"."	3	4	"."	0	"FGF13,intron_variant,,ENST00000436198,NM_001139500.1;FGF13,intron_variant,,ENST00000370603,;FGF13,intron_variant,,ENST00000455663,;FGF13,intron_variant,,ENST00000448673,;FGF13,intron_variant,,ENST00000541469,NM_001139498.1;FGF13,intron_variant,,ENST00000421460,;"	"TGTGTG"	"ENSG00000129682"	"ENST00000370603"	"Transcript"	"intron_variant"	"-/768"	"-/768"	"-/255"	""	""	""	"1"	NA	-1	"FGF13"	"HGNC"	3670	"protein_coding"	"YES"	"CCDS55513.1"	"ENSP00000359635"	"Q92913"	"Q9Y643,B1B1H9,B1AK17"	"UPI00001484B4"	""	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"6f81091e-280f-11e6-af85-d2da414a729f"	"180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WXS"	FALSE
"5487"	"FGF13"	2258	"mskcc.org"	"GRCh37"	"X"	138066976	138066977	"+"	"Intron"	"INS"	"-"	"-"	"TGTGTGTG"	"rs764182632"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.50-127143_50-127136dupCACACACA"	""	""	"ENST00000370603"	""	32	"."	10	4	"."	0	"FGF13,intron_variant,,ENST00000436198,NM_001139500.1;FGF13,intron_variant,,ENST00000370603,;FGF13,intron_variant,,ENST00000455663,;FGF13,intron_variant,,ENST00000448673,;FGF13,intron_variant,,ENST00000541469,NM_001139498.1;FGF13,intron_variant,,ENST00000421460,;"	"TGTGTGTG"	"ENSG00000129682"	"ENST00000370603"	"Transcript"	"intron_variant"	"-/768"	"-/768"	"-/255"	""	""	"rs764182632"	"1"	NA	-1	"FGF13"	"HGNC"	3670	"protein_coding"	"YES"	"CCDS55513.1"	"ENSP00000359635"	"Q92913"	"Q9Y643,B1B1H9,B1AK17"	"UPI00001484B4"	""	NA	NA	""	"1/5"	""	"TGTGTGTG:0.4861"	"TGTGTGTG:0.2065"	"TGTGTGTG:0.3285"	NA	"TGTGTGTG:0.4167"	"TGTGTGTG:0.5656"	"TGTGTGTG:0.3528"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"6f83fb24-280f-11e6-af85-d2da414a729f"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WXS"	FALSE
"5488"	"MCF2"	4168	"mskcc.org"	"GRCh37"	"X"	138714381	138714382	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"rs4007712"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.351+112_351+113insTT"	""	""	"ENST00000519895"	""	37	"."	21	4	"."	0	"MCF2,intron_variant,,ENST00000520602,;MCF2,intron_variant,,ENST00000370578,;MCF2,intron_variant,,ENST00000414978,NM_001099855.1;MCF2,intron_variant,,ENST00000370576,NM_005369.4,NM_001171879.1;MCF2,intron_variant,,ENST00000536274,NM_001171877.1,NM_001171878.1;MCF2,intron_variant,,ENST00000519895,NM_001171876.1;MCF2,intron_variant,,ENST00000338585,;MCF2,intron_variant,,ENST00000370573,;"	"AA"	"ENSG00000101977"	"ENST00000519895"	"Transcript"	"intron_variant"	"-/3346"	"-/3006"	"-/1001"	""	""	"rs4007712"	"1"	NA	-1	"MCF2"	"HGNC"	6940	"protein_coding"	"YES"	"CCDS55517.1"	"ENSP00000430276"	"P10911"	""	"UPI0001C33995"	"NM_001171876.1"	NA	NA	""	"5/28"	""	"AA:0.4347"	"AA:0.4418"	"AA:0.3963"	NA	"AA:0.1022"	"AA:0.4911"	"AA:0.1892"	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"6f8bec12-280f-11e6-af85-d2da414a729f"	"1260"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.567567567567568	"WXS"	FALSE
"5489"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	13691798	13691799	"+"	"IGR"	"INS"	"-"	"-"	"ATGGA"	"rs368624519"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"."	4	11	"."	0	""	"ATGGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs368624519"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"65eb6da4-280f-11e6-b790-ceda414a729f"	"150"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0487804878048781	"WXS"	FALSE
"5490"	"ENSR00001834427"	0	"mskcc.org"	"GRCh37"	"Y"	13691804	13697389	"+"	"Targeted_Region"	"DEL"	"ATGGAATGGAGGCGAAAGGAAAAGAATGGATTGGAATGTCACCGAATGGAAAGATACGGAATGGAAAGGAATGGATACGAATGGAATGGAATAGAAAGGAACGGAAAGGTAAAGAATGGAATGGAATCGGATAGAATGGAATGCAATGTAATGGAGTCGAAGGGAAAGTAAACGAGTAGAATGATATCGAATGGAATGGAATTTAATGGAATGGAATGGAATGGAATGGACTCGAATGGAATGTACTCAAATGGATTAGAATAGAATGGAATGGAACTAAACGTAATGAACTCGAATGGAATGGACACAAATAGAATGGAAGAGAAAGGAATGGTATTGAATGGAATTTATTCGAATAGAGTGGAATTCAATGGAATGCAAGAGTGTGGCATGGAATCAAATGGAATGGAATCGAATGGAATGGACCTGAGTGGAATGGACTCACATAGAACAGCCTCGAATGTAATGGATTACAATATATTAGATTCGAAAGGACTGAAATCGAATGGAATGTAATCAAGTAGAACGGAATTGAATGCATGGAATGGCATAGAAAGTAATGCAATGGAATGGAATAGACTGGAATCGAATGGAATCGGATGGAATGTAATGAAATATAATGGAAGGAATGCCATGGAATGGAATGGAATGGAATGCAATGGGACGGTGTATAATGGAGTGCAATGGATTTCAGTGGAATGTAGTCAAAAGGAAAGAAATAGAATGGAATTCAATATAATGGAATGGCATCCAAAGGCAAGGAATGGAGCGGACTCCAATGGAAACGACATGAAAGGAATATAATATAACGGAATGGCATTGAAGGAAATGGAATGCAATGGAGTTAAAAGGTAAAATATCGAAAGGAAAAGAATTGAATGGACTCGAATGGAATATAATGGAATGGAATGGACTCGAATGGAATGTACTAGAGTTGAATGGAATCGCATGGAATGGAAAACAATGGAAAGGAAAGGAAAGGAATTGAAAGGAAAGGAATAGAATGGAATGGAATCGGATGGAACGGAATTGAATGGAATGGAAACTAAAGGAATAGAATAGAAAGGAATGGCATTGAATGGAATGGAATGGAATGGAATCAGATGGAATAGAAAGTAAAGGAATAGAATCGAATGGAATGGCATCGAAAGGATTGGAATGGAATGTAATGGAATGGAATAGAAAGGAATGGAATGGACTCGAATGGAATGTAGTCAAATAGAATACAATAGAATGGAATAGAAGTAAATATAATGGACTCGAATGGAATGCATTGGAATAAATTGGAATTGAGTGTATTGGATTCGAATGGAAAGGAATGGAATGGAATAGAATGGAATGGATACGAATGGAATGGAATCGAATGGAATGGAACGAATTGGAATGTAATTGAATGGAGTCAAAAACAGTAGAAAGAAATGAAGTTTAATCGAATGATATCGAATGGAATTGAGTGGAATGTACGCGAATGGAATGGACTCGAATGGAATGCAGTGAAATGTAACGGAATCGAAAGGAATGGAATCCAATGAAATGGAATTGAATGGAATAGAAAGGAATACAATGGAATGGAGTTTAATGGAAAGATATTAAAATAATGGAATGGAATTGAGTGGACACGAAAGGAATGCACTGGAATGGAAAGGACTCGAATGAAATGGAGCGCATTAGAATGGACTCGAATGGAATGGATTGGAGTGGAATGGTCTCGAATGGATTGGAAACGAATGGAATGGAAAGGTATAGAATGGAATGTAATCAAATGGAACGAAATGGAATGGAATGGATTCGACTGGAACAGAATTGAATGTAGTGGAATTGAATGGAATGGAATGCAATCAAATGGAATGGACACGAATCGAATAGAATGAAATGAAATAGCCTAGAATGGAATGAAATGGAATGGAATGGAATGGAACGGAATGGAATGGAATGGAATGGCATAGAATGGAATGGCATGGCATGTAATGGAATGGAATGGAATGAAATGGATTGGAAGGGGATGGGCTCAAAGAAATAGACTCAAATAAAAGGGACTCAAATAGAATGAAGTGGAAAGAAACGGTCTCCAATGTAATTTATTCGAATAGAATGATATTGAATGGAATGCAATAGTATGGAATGCTATCGAATAGTATGGAATAGAATGGAATGGAATGGAACGGAATGTAGTGCAATTGAACAGACTCAAATGCAATAAATTGCAATATAATTGATTCAAATGGAATGGAATCGAATAGAATGTAAACAAATGGAATGGAAGGCAATGCAATGGAAAGGAATCGAATGAAATGGAATAAATGGAATGGAATGGAATGGAAAGGACGCGAATATATTGGACTGTTAAGGAAAGGTGTCGAATCGAATTTATTCCAATAGAATGGAATCGAATGGATTGCAATACTATTGAATCGAATCGAATGGAATGGAATTGAATGGAATGGACAGGAATGGAATGAACTGGAAATGACTGGACAAGAACGTAATATATTGCAATGTAATTTATTCAAATGGAATGGAATGCAATCGAATGGAATTGACTCGATTGGAATGGACTGGAGTGGAATGGATTTAAATGGAATGGAAAGGAATGTAATGTAAAGGAAGTGAAAGCAAAGGAATCTACTGGAATAGAATCGAACGGAACAGAAAGGAATGGAAAGGAATGGAGTGGAATGGACTCGAATGGAATGTATTCGAATGTAATGGACCTGAAAGGAATGGAATCCAATGGAATGGAATTGAATGGAATCAAAAGGAATAGAAAGGAATAGAGTGTAATTGAACGATATCGAATGGAAGGGAATGGAATGAACTCGAATGGAATGCACTGGAATGGAATGGACTCGATCAGAACGGACTGTAGAGGAATGTACACAAATGGAATGGAAACGAATGGAATGCAATGAAATGGAATGGAATGAAATGGAATTGAAAGGAACGGAACCAAATGGAATGGAATGGAATGGAATGGATTGGAATAGAATGGATTCAAATAAAATAGAATCAATGGGAATGGTATTGAATGGAAGGGACTTGAATGGAATGGAAAGCAATGGAAGATATTGGAATCGAATGGCATCGAATGAAATGGAGTGGAACGGAATGGAACGGAACCGAATGGAGTGGAATGGACTCAAATGTAATGGACTCGAATGGAATCGACTGAAATATAATAGTCTCGAAAGGAATGGCCTCGAGCGGAATTTATTTGAATAGAATGGAATCAAATGGAATACAATAGTATTGAATGGAATCGAATGGAATGGAATCGAATGGAATGTAATCAAATGGAATGGAACGGAATTCAATATAATGGAGTAGAATGGAATGCATTGGAAAGGAGCAGAGTGGAATCGAGTGGAATGGAATCAAAGGGAACGAAATCGAATTGAATGGAGTTGTATGGAATTGACTCGAAAGGAATTGACGCGAAAGGAATTGAATCGAAAGGAATGGATTGGAACAAAAAGGAATCAAATGGACAGGAATGGGATGGAATGGACACGAATGGAATGGAGTCAAATGCAAACGTATCAAATGGAAAGGATTCAAATGGAATGCAATTGAATGGAATAGAAAGGAAGAGAATGGAATTGAGAGTAATGGAAAGATATCGATTGGAATGAAATGGAATGGAAAGGAATTGAATGGAAAGGAATGGAGTGGAAAGAAATGGATTGGAATGGAATGGTCTCCAATGGAATGGACTGGAGTGGAATGGAATCGAATGGAATGAAAAGAATGGACCGGAATGGTACGGAAAGGAATAGAATGTTATGGAATCCGATTGGACAGAATGGAATGGAATGGAGTTTCATGAAATGGAGTCGAATAGAGTGGCATTAAAAGGAATGGAATGGAATGGAGAGGACTCAAAAGGAATGGACTCGAAAGGAATGGAGTCGAACTAAATTGAATCAAATGGATTGGAGTCGAACAGAATGGAATGGAATGGAATGAACTCGACTGGAGTAGAGAGGAATGTAAAGGAATAGAATGGAATGTAATCAAATGGATTGCAAGTGAATGGAATCAAAAATAATAGAAAGGAATGAAGTGTAACGGGATGATATTGACTGTAATGGAATGGAATGGAATTTAATGGAATGGAGACGAAGGAATGGACAGGAATGTAATGGACTCCAATGGAATGGAATGGATCAAAGTGGATTTGAACAGATTGGAATCGAACGGAATGGAATGCAATGGAATGGAATGGACTCGAATGGAGAAGAGAGAAAAGGAATGGAAACGAATTCAATGGAATTGAAAAGAATAGGATGGAATGGCGTGTAATGGTAAGATACTAAATGGAATGGAATTGAATGGAATGGAATGGACCCAAATGTAATGCACTCGAAAGGAATATACTCAAATAGAATGGAATCGAAAGGAAAGGTCTCAAATGGAATTTATTCAATACAATGGAATCGAATGGAATGCAATAGAATGGAATGGAATCGAATGTAATGGAATGAAATAGAATGGACCAGAATGGAATGGACTGCCATAGAACGGACTGCAGTGTAATGGATTGAATTCTAATTCATTCAAATGGAATGGAATTGAATGGAATGGAATCCATTGGAATGGATAGGATTGTACTGGAATGGAATAGCATGGAATGCAACGGAGTGGAATGGAGTTGAATGAAGTGGAATGGAATCGATTGGAATGGAATCAAATGGAATGGACGGGAATGGAATGGACTGGAAGAGAACAGACTCAAATATAATGGATTGCAAAGTAATTGATTCAAATGGAATGGAATCGAATGGAATGTAATAAAATTGAAGGGATTTGAGTTCAATACAATGGAATAAAATGGAATGCAAAGGAAAGGAAAGGTACGGAGTGAAATCGAGTGTAATGGAATCGAATGGAATGAAATCGAATGGAATGGACTCAAAAGAAATGGACGAGGGACAAAACGGAATCGAACTGATTGGAATCGAACGGAACGGAATGGAATGGAATGGTCTCCATTGGATCTGAGTAGAACGGACTGGAATGGAATGGAATGAAATGGAATGGAAAGGAATAGAATGGAATGGAATGGAATGGAATGGAATGGAAGGTAATGGAAAGATATCGAACGGATTGGAAAGGAATGGAATGGACCCTAATGGAATGGAATGGAATTCAACAGAAACGAATGGAATGGACTGGAGTGAAATGGAGTCGAATGTAATTGACTGGAGTGGAATGGACTCGAAAGGAATGGACTCGAATAGAATGGACTGGAATGGATTGTACTCGAATGGAGTTGAAAGGAATAAAATGGATTCCACCAGATTGGAATGGAACAGAATGTAATGGAATGGAATGGAATGCAATGGAATAGCTCCAATGGAATGGAGTCGAATGCAATGGAACAGAAAGGAAAGGAATTGAATGGAATTGAAAGTAATAGAACAAAATGGAGTGCAAAGGAAAGATATTGAATGGAATGGATCGAAAAGAAATCGAATGGAATGGTCAGGAATGGAATGGAATAGAATGGAATAGACTGGCGTGCAATGAAAACGAATGGAATGGAAACGAATGGAATGCAATGGAAAGGAATGGAGTAGAATAAATACT"	"ATGGAATGGAGGCGAAAGGAAAAGAATGGATTGGAATGTCACCGAATGGAAAGATACGGAATGGAAAGGAATGGATACGAATGGAATGGAATAGAAAGGAACGGAAAGGTAAAGAATGGAATGGAATCGGATAGAATGGAATGCAATGTAATGGAGTCGAAGGGAAAGTAAACGAGTAGAATGATATCGAATGGAATGGAATTTAATGGAATGGAATGGAATGGAATGGACTCGAATGGAATGTACTCAAATGGATTAGAATAGAATGGAATGGAACTAAACGTAATGAACTCGAATGGAATGGACACAAATAGAATGGAAGAGAAAGGAATGGTATTGAATGGAATTTATTCGAATAGAGTGGAATTCAATGGAATGCAAGAGTGTGGCATGGAATCAAATGGAATGGAATCGAATGGAATGGACCTGAGTGGAATGGACTCACATAGAACAGCCTCGAATGTAATGGATTACAATATATTAGATTCGAAAGGACTGAAATCGAATGGAATGTAATCAAGTAGAACGGAATTGAATGCATGGAATGGCATAGAAAGTAATGCAATGGAATGGAATAGACTGGAATCGAATGGAATCGGATGGAATGTAATGAAATATAATGGAAGGAATGCCATGGAATGGAATGGAATGGAATGCAATGGGACGGTGTATAATGGAGTGCAATGGATTTCAGTGGAATGTAGTCAAAAGGAAAGAAATAGAATGGAATTCAATATAATGGAATGGCATCCAAAGGCAAGGAATGGAGCGGACTCCAATGGAAACGACATGAAAGGAATATAATATAACGGAATGGCATTGAAGGAAATGGAATGCAATGGAGTTAAAAGGTAAAATATCGAAAGGAAAAGAATTGAATGGACTCGAATGGAATATAATGGAATGGAATGGACTCGAATGGAATGTACTAGAGTTGAATGGAATCGCATGGAATGGAAAACAATGGAAAGGAAAGGAAAGGAATTGAAAGGAAAGGAATAGAATGGAATGGAATCGGATGGAACGGAATTGAATGGAATGGAAACTAAAGGAATAGAATAGAAAGGAATGGCATTGAATGGAATGGAATGGAATGGAATCAGATGGAATAGAAAGTAAAGGAATAGAATCGAATGGAATGGCATCGAAAGGATTGGAATGGAATGTAATGGAATGGAATAGAAAGGAATGGAATGGACTCGAATGGAATGTAGTCAAATAGAATACAATAGAATGGAATAGAAGTAAATATAATGGACTCGAATGGAATGCATTGGAATAAATTGGAATTGAGTGTATTGGATTCGAATGGAAAGGAATGGAATGGAATAGAATGGAATGGATACGAATGGAATGGAATCGAATGGAATGGAACGAATTGGAATGTAATTGAATGGAGTCAAAAACAGTAGAAAGAAATGAAGTTTAATCGAATGATATCGAATGGAATTGAGTGGAATGTACGCGAATGGAATGGACTCGAATGGAATGCAGTGAAATGTAACGGAATCGAAAGGAATGGAATCCAATGAAATGGAATTGAATGGAATAGAAAGGAATACAATGGAATGGAGTTTAATGGAAAGATATTAAAATAATGGAATGGAATTGAGTGGACACGAAAGGAATGCACTGGAATGGAAAGGACTCGAATGAAATGGAGCGCATTAGAATGGACTCGAATGGAATGGATTGGAGTGGAATGGTCTCGAATGGATTGGAAACGAATGGAATGGAAAGGTATAGAATGGAATGTAATCAAATGGAACGAAATGGAATGGAATGGATTCGACTGGAACAGAATTGAATGTAGTGGAATTGAATGGAATGGAATGCAATCAAATGGAATGGACACGAATCGAATAGAATGAAATGAAATAGCCTAGAATGGAATGAAATGGAATGGAATGGAATGGAACGGAATGGAATGGAATGGAATGGCATAGAATGGAATGGCATGGCATGTAATGGAATGGAATGGAATGAAATGGATTGGAAGGGGATGGGCTCAAAGAAATAGACTCAAATAAAAGGGACTCAAATAGAATGAAGTGGAAAGAAACGGTCTCCAATGTAATTTATTCGAATAGAATGATATTGAATGGAATGCAATAGTATGGAATGCTATCGAATAGTATGGAATAGAATGGAATGGAATGGAACGGAATGTAGTGCAATTGAACAGACTCAAATGCAATAAATTGCAATATAATTGATTCAAATGGAATGGAATCGAATAGAATGTAAACAAATGGAATGGAAGGCAATGCAATGGAAAGGAATCGAATGAAATGGAATAAATGGAATGGAATGGAATGGAAAGGACGCGAATATATTGGACTGTTAAGGAAAGGTGTCGAATCGAATTTATTCCAATAGAATGGAATCGAATGGATTGCAATACTATTGAATCGAATCGAATGGAATGGAATTGAATGGAATGGACAGGAATGGAATGAACTGGAAATGACTGGACAAGAACGTAATATATTGCAATGTAATTTATTCAAATGGAATGGAATGCAATCGAATGGAATTGACTCGATTGGAATGGACTGGAGTGGAATGGATTTAAATGGAATGGAAAGGAATGTAATGTAAAGGAAGTGAAAGCAAAGGAATCTACTGGAATAGAATCGAACGGAACAGAAAGGAATGGAAAGGAATGGAGTGGAATGGACTCGAATGGAATGTATTCGAATGTAATGGACCTGAAAGGAATGGAATCCAATGGAATGGAATTGAATGGAATCAAAAGGAATAGAAAGGAATAGAGTGTAATTGAACGATATCGAATGGAAGGGAATGGAATGAACTCGAATGGAATGCACTGGAATGGAATGGACTCGATCAGAACGGACTGTAGAGGAATGTACACAAATGGAATGGAAACGAATGGAATGCAATGAAATGGAATGGAATGAAATGGAATTGAAAGGAACGGAACCAAATGGAATGGAATGGAATGGAATGGATTGGAATAGAATGGATTCAAATAAAATAGAATCAATGGGAATGGTATTGAATGGAAGGGACTTGAATGGAATGGAAAGCAATGGAAGATATTGGAATCGAATGGCATCGAATGAAATGGAGTGGAACGGAATGGAACGGAACCGAATGGAGTGGAATGGACTCAAATGTAATGGACTCGAATGGAATCGACTGAAATATAATAGTCTCGAAAGGAATGGCCTCGAGCGGAATTTATTTGAATAGAATGGAATCAAATGGAATACAATAGTATTGAATGGAATCGAATGGAATGGAATCGAATGGAATGTAATCAAATGGAATGGAACGGAATTCAATATAATGGAGTAGAATGGAATGCATTGGAAAGGAGCAGAGTGGAATCGAGTGGAATGGAATCAAAGGGAACGAAATCGAATTGAATGGAGTTGTATGGAATTGACTCGAAAGGAATTGACGCGAAAGGAATTGAATCGAAAGGAATGGATTGGAACAAAAAGGAATCAAATGGACAGGAATGGGATGGAATGGACACGAATGGAATGGAGTCAAATGCAAACGTATCAAATGGAAAGGATTCAAATGGAATGCAATTGAATGGAATAGAAAGGAAGAGAATGGAATTGAGAGTAATGGAAAGATATCGATTGGAATGAAATGGAATGGAAAGGAATTGAATGGAAAGGAATGGAGTGGAAAGAAATGGATTGGAATGGAATGGTCTCCAATGGAATGGACTGGAGTGGAATGGAATCGAATGGAATGAAAAGAATGGACCGGAATGGTACGGAAAGGAATAGAATGTTATGGAATCCGATTGGACAGAATGGAATGGAATGGAGTTTCATGAAATGGAGTCGAATAGAGTGGCATTAAAAGGAATGGAATGGAATGGAGAGGACTCAAAAGGAATGGACTCGAAAGGAATGGAGTCGAACTAAATTGAATCAAATGGATTGGAGTCGAACAGAATGGAATGGAATGGAATGAACTCGACTGGAGTAGAGAGGAATGTAAAGGAATAGAATGGAATGTAATCAAATGGATTGCAAGTGAATGGAATCAAAAATAATAGAAAGGAATGAAGTGTAACGGGATGATATTGACTGTAATGGAATGGAATGGAATTTAATGGAATGGAGACGAAGGAATGGACAGGAATGTAATGGACTCCAATGGAATGGAATGGATCAAAGTGGATTTGAACAGATTGGAATCGAACGGAATGGAATGCAATGGAATGGAATGGACTCGAATGGAGAAGAGAGAAAAGGAATGGAAACGAATTCAATGGAATTGAAAAGAATAGGATGGAATGGCGTGTAATGGTAAGATACTAAATGGAATGGAATTGAATGGAATGGAATGGACCCAAATGTAATGCACTCGAAAGGAATATACTCAAATAGAATGGAATCGAAAGGAAAGGTCTCAAATGGAATTTATTCAATACAATGGAATCGAATGGAATGCAATAGAATGGAATGGAATCGAATGTAATGGAATGAAATAGAATGGACCAGAATGGAATGGACTGCCATAGAACGGACTGCAGTGTAATGGATTGAATTCTAATTCATTCAAATGGAATGGAATTGAATGGAATGGAATCCATTGGAATGGATAGGATTGTACTGGAATGGAATAGCATGGAATGCAACGGAGTGGAATGGAGTTGAATGAAGTGGAATGGAATCGATTGGAATGGAATCAAATGGAATGGACGGGAATGGAATGGACTGGAAGAGAACAGACTCAAATATAATGGATTGCAAAGTAATTGATTCAAATGGAATGGAATCGAATGGAATGTAATAAAATTGAAGGGATTTGAGTTCAATACAATGGAATAAAATGGAATGCAAAGGAAAGGAAAGGTACGGAGTGAAATCGAGTGTAATGGAATCGAATGGAATGAAATCGAATGGAATGGACTCAAAAGAAATGGACGAGGGACAAAACGGAATCGAACTGATTGGAATCGAACGGAACGGAATGGAATGGAATGGTCTCCATTGGATCTGAGTAGAACGGACTGGAATGGAATGGAATGAAATGGAATGGAAAGGAATAGAATGGAATGGAATGGAATGGAATGGAATGGAAGGTAATGGAAAGATATCGAACGGATTGGAAAGGAATGGAATGGACCCTAATGGAATGGAATGGAATTCAACAGAAACGAATGGAATGGACTGGAGTGAAATGGAGTCGAATGTAATTGACTGGAGTGGAATGGACTCGAAAGGAATGGACTCGAATAGAATGGACTGGAATGGATTGTACTCGAATGGAGTTGAAAGGAATAAAATGGATTCCACCAGATTGGAATGGAACAGAATGTAATGGAATGGAATGGAATGCAATGGAATAGCTCCAATGGAATGGAGTCGAATGCAATGGAACAGAAAGGAAAGGAATTGAATGGAATTGAAAGTAATAGAACAAAATGGAGTGCAAAGGAAAGATATTGAATGGAATGGATCGAAAAGAAATCGAATGGAATGGTCAGGAATGGAATGGAATAGAATGGAATAGACTGGCGTGCAATGAAAACGAATGGAATGGAAACGAATGGAATGCAATGGAAAGGAATGGAGTAGAATAAATACT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"ATGGAATGGAGGCGAAAGGAAAAGAATGGATTGGAATGTCACCGAATGGAAAGATACGGAATGGAAAGGAATGGATACGAATGGAATGGAATAGAAAGGAACGGAAAGGTAAAGAATGGAATGGAATCGGATAGAATGGAATGCAATGTAATGGAGTCGAAGGGAAAGTAAACGAGTAGAATGATATCGAATGGAATGGAATTTAATGGAATGGAATGGAATGGAATGGACTCGAATGGAATGTACTCAAATGGATTAGAATAGAATGGAATGGAACTAAACGTAATGAACTCGAATGGAATGGACACAAATAGAATGGAAGAGAAAGGAATGGTATTGAATGGAATTTATTCGAATAGAGTGGAATTCAATGGAATGCAAGAGTGTGGCATGGAATCAAATGGAATGGAATCGAATGGAATGGACCTGAGTGGAATGGACTCACATAGAACAGCCTCGAATGTAATGGATTACAATATATTAGATTCGAAAGGACTGAAATCGAATGGAATGTAATCAAGTAGAACGGAATTGAATGCATGGAATGGCATAGAAAGTAATGCAATGGAATGGAATAGACTGGAATCGAATGGAATCGGATGGAATGTAATGAAATATAATGGAAGGAATGCCATGGAATGGAATGGAATGGAATGCAATGGGACGGTGTATAATGGAGTGCAATGGATTTCAGTGGAATGTAGTCAAAAGGAAAGAAATAGAATGGAATTCAATATAATGGAATGGCATCCAAAGGCAAGGAATGGAGCGGACTCCAATGGAAACGACATGAAAGGAATATAATATAACGGAATGGCATTGAAGGAAATGGAATGCAATGGAGTTAAAAGGTAAAATATCGAAAGGAAAAGAATTGAATGGACTCGAATGGAATATAATGGAATGGAATGGACTCGAATGGAATGTACTAGAGTTGAATGGAATCGCATGGAATGGAAAACAATGGAAAGGAAAGGAAAGGAATTGAAAGGAAAGGAATAGAATGGAATGGAATCGGATGGAACGGAATTGAATGGAATGGAAACTAAAGGAATAGAATAGAAAGGAATGGCATTGAATGGAATGGAATGGAATGGAATCAGATGGAATAGAAAGTAAAGGAATAGAATCGAATGGAATGGCATCGAAAGGATTGGAATGGAATGTAATGGAATGGAATAGAAAGGAATGGAATGGACTCGAATGGAATGTAGTCAAATAGAATACAATAGAATGGAATAGAAGTAAATATAATGGACTCGAATGGAATGCATTGGAATAAATTGGAATTGAGTGTATTGGATTCGAATGGAAAGGAATGGAATGGAATAGAATGGAATGGATACGAATGGAATGGAATCGAATGGAATGGAACGAATTGGAATGTAATTGAATGGAGTCAAAAACAGTAGAAAGAAATGAAGTTTAATCGAATGATATCGAATGGAATTGAGTGGAATGTACGCGAATGGAATGGACTCGAATGGAATGCAGTGAAATGTAACGGAATCGAAAGGAATGGAATCCAATGAAATGGAATTGAATGGAATAGAAAGGAATACAATGGAATGGAGTTTAATGGAAAGATATTAAAATAATGGAATGGAATTGAGTGGACACGAAAGGAATGCACTGGAATGGAAAGGACTCGAATGAAATGGAGCGCATTAGAATGGACTCGAATGGAATGGATTGGAGTGGAATGGTCTCGAATGGATTGGAAACGAATGGAATGGAAAGGTATAGAATGGAATGTAATCAAATGGAACGAAATGGAATGGAATGGATTCGACTGGAACAGAATTGAATGTAGTGGAATTGAATGGAATGGAATGCAATCAAATGGAATGGACACGAATCGAATAGAATGAAATGAAATAGCCTAGAATGGAATGAAATGGAATGGAATGGAATGGAACGGAATGGAATGGAATGGAATGGCATAGAATGGAATGGCATGGCATGTAATGGAATGGAATGGAATGAAATGGATTGGAAGGGGATGGGCTCAAAGAAATAGACTCAAATAAAAGGGACTCAAATAGAATGAAGTGGAAAGAAACGGTCTCCAATGTAATTTATTCGAATAGAATGATATTGAATGGAATGCAATAGTATGGAATGCTATCGAATAGTATGGAATAGAATGGAATGGAATGGAACGGAATGTAGTGCAATTGAACAGACTCAAATGCAATAAATTGCAATATAATTGATTCAAATGGAATGGAATCGAATAGAATGTAAACAAATGGAATGGAAGGCAATGCAATGGAAAGGAATCGAATGAAATGGAATAAATGGAATGGAATGGAATGGAAAGGACGCGAATATATTGGACTGTTAAGGAAAGGTGTCGAATCGAATTTATTCCAATAGAATGGAATCGAATGGATTGCAATACTATTGAATCGAATCGAATGGAATGGAATTGAATGGAATGGACAGGAATGGAATGAACTGGAAATGACTGGACAAGAACGTAATATATTGCAATGTAATTTATTCAAATGGAATGGAATGCAATCGAATGGAATTGACTCGATTGGAATGGACTGGAGTGGAATGGATTTAAATGGAATGGAAAGGAATGTAATGTAAAGGAAGTGAAAGCAAAGGAATCTACTGGAATAGAATCGAACGGAACAGAAAGGAATGGAAAGGAATGGAGTGGAATGGACTCGAATGGAATGTATTCGAATGTAATGGACCTGAAAGGAATGGAATCCAATGGAATGGAATTGAATGGAATCAAAAGGAATAGAAAGGAATAGAGTGTAATTGAACGATATCGAATGGAAGGGAATGGAATGAACTCGAATGGAATGCACTGGAATGGAATGGACTCGATCAGAACGGACTGTAGAGGAATGTACACAAATGGAATGGAAACGAATGGAATGCAATGAAATGGAATGGAATGAAATGGAATTGAAAGGAACGGAACCAAATGGAATGGAATGGAATGGAATGGATTGGAATAGAATGGATTCAAATAAAATAGAATCAATGGGAATGGTATTGAATGGAAGGGACTTGAATGGAATGGAAAGCAATGGAAGATATTGGAATCGAATGGCATCGAATGAAATGGAGTGGAACGGAATGGAACGGAACCGAATGGAGTGGAATGGACTCAAATGTAATGGACTCGAATGGAATCGACTGAAATATAATAGTCTCGAAAGGAATGGCCTCGAGCGGAATTTATTTGAATAGAATGGAATCAAATGGAATACAATAGTATTGAATGGAATCGAATGGAATGGAATCGAATGGAATGTAATCAAATGGAATGGAACGGAATTCAATATAATGGAGTAGAATGGAATGCATTGGAAAGGAGCAGAGTGGAATCGAGTGGAATGGAATCAAAGGGAACGAAATCGAATTGAATGGAGTTGTATGGAATTGACTCGAAAGGAATTGACGCGAAAGGAATTGAATCGAAAGGAATGGATTGGAACAAAAAGGAATCAAATGGACAGGAATGGGATGGAATGGACACGAATGGAATGGAGTCAAATGCAAACGTATCAAATGGAAAGGATTCAAATGGAATGCAATTGAATGGAATAGAAAGGAAGAGAATGGAATTGAGAGTAATGGAAAGATATCGATTGGAATGAAATGGAATGGAAAGGAATTGAATGGAAAGGAATGGAGTGGAAAGAAATGGATTGGAATGGAATGGTCTCCAATGGAATGGACTGGAGTGGAATGGAATCGAATGGAATGAAAAGAATGGACCGGAATGGTACGGAAAGGAATAGAATGTTATGGAATCCGATTGGACAGAATGGAATGGAATGGAGTTTCATGAAATGGAGTCGAATAGAGTGGCATTAAAAGGAATGGAATGGAATGGAGAGGACTCAAAAGGAATGGACTCGAAAGGAATGGAGTCGAACTAAATTGAATCAAATGGATTGGAGTCGAACAGAATGGAATGGAATGGAATGAACTCGACTGGAGTAGAGAGGAATGTAAAGGAATAGAATGGAATGTAATCAAATGGATTGCAAGTGAATGGAATCAAAAATAATAGAAAGGAATGAAGTGTAACGGGATGATATTGACTGTAATGGAATGGAATGGAATTTAATGGAATGGAGACGAAGGAATGGACAGGAATGTAATGGACTCCAATGGAATGGAATGGATCAAAGTGGATTTGAACAGATTGGAATCGAACGGAATGGAATGCAATGGAATGGAATGGACTCGAATGGAGAAGAGAGAAAAGGAATGGAAACGAATTCAATGGAATTGAAAAGAATAGGATGGAATGGCGTGTAATGGTAAGATACTAAATGGAATGGAATTGAATGGAATGGAATGGACCCAAATGTAATGCACTCGAAAGGAATATACTCAAATAGAATGGAATCGAAAGGAAAGGTCTCAAATGGAATTTATTCAATACAATGGAATCGAATGGAATGCAATAGAATGGAATGGAATCGAATGTAATGGAATGAAATAGAATGGACCAGAATGGAATGGACTGCCATAGAACGGACTGCAGTGTAATGGATTGAATTCTAATTCATTCAAATGGAATGGAATTGAATGGAATGGAATCCATTGGAATGGATAGGATTGTACTGGAATGGAATAGCATGGAATGCAACGGAGTGGAATGGAGTTGAATGAAGTGGAATGGAATCGATTGGAATGGAATCAAATGGAATGGACGGGAATGGAATGGACTGGAAGAGAACAGACTCAAATATAATGGATTGCAAAGTAATTGATTCAAATGGAATGGAATCGAATGGAATGTAATAAAATTGAAGGGATTTGAGTTCAATACAATGGAATAAAATGGAATGCAAAGGAAAGGAAAGGTACGGAGTGAAATCGAGTGTAATGGAATCGAATGGAATGAAATCGAATGGAATGGACTCAAAAGAAATGGACGAGGGACAAAACGGAATCGAACTGATTGGAATCGAACGGAACGGAATGGAATGGAATGGTCTCCATTGGATCTGAGTAGAACGGACTGGAATGGAATGGAATGAAATGGAATGGAAAGGAATAGAATGGAATGGAATGGAATGGAATGGAATGGAAGGTAATGGAAAGATATCGAACGGATTGGAAAGGAATGGAATGGACCCTAATGGAATGGAATGGAATTCAACAGAAACGAATGGAATGGACTGGAGTGAAATGGAGTCGAATGTAATTGACTGGAGTGGAATGGACTCGAAAGGAATGGACTCGAATAGAATGGACTGGAATGGATTGTACTCGAATGGAGTTGAAAGGAATAAAATGGATTCCACCAGATTGGAATGGAACAGAATGTAATGGAATGGAATGGAATGCAATGGAATAGCTCCAATGGAATGGAGTCGAATGCAATGGAACAGAAAGGAAAGGAATTGAATGGAATTGAAAGTAATAGAACAAAATGGAGTGCAAAGGAAAGATATTGAATGGAATGGATCGAAAAGAAATCGAATGGAATGGTCAGGAATGGAATGGAATAGAATGGAATAGACTGGCGTGCAATGAAAACGAATGGAATGGAAACGAATGGAATGCAATGGAAAGGAATGGAGTAGAATAAATACT"	"ATGGAATGGAGGCGAAAGGAAAAGAATGGATTGGAATGTCACCGAATGGAAAGATACGGAATGGAAAGGAATGGATACGAATGGAATGGAATAGAAAGGAACGGAAAGGTAAAGAATGGAATGGAATCGGATAGAATGGAATGCAATGTAATGGAGTCGAAGGGAAAGTAAACGAGTAGAATGATATCGAATGGAATGGAATTTAATGGAATGGAATGGAATGGAATGGACTCGAATGGAATGTACTCAAATGGATTAGAATAGAATGGAATGGAACTAAACGTAATGAACTCGAATGGAATGGACACAAATAGAATGGAAGAGAAAGGAATGGTATTGAATGGAATTTATTCGAATAGAGTGGAATTCAATGGAATGCAAGAGTGTGGCATGGAATCAAATGGAATGGAATCGAATGGAATGGACCTGAGTGGAATGGACTCACATAGAACAGCCTCGAATGTAATGGATTACAATATATTAGATTCGAAAGGACTGAAATCGAATGGAATGTAATCAAGTAGAACGGAATTGAATGCATGGAATGGCATAGAAAGTAATGCAATGGAATGGAATAGACTGGAATCGAATGGAATCGGATGGAATGTAATGAAATATAATGGAAGGAATGCCATGGAATGGAATGGAATGGAATGCAATGGGACGGTGTATAATGGAGTGCAATGGATTTCAGTGGAATGTAGTCAAAAGGAAAGAAATAGAATGGAATTCAATATAATGGAATGGCATCCAAAGGCAAGGAATGGAGCGGACTCCAATGGAAACGACATGAAAGGAATATAATATAACGGAATGGCATTGAAGGAAATGGAATGCAATGGAGTTAAAAGGTAAAATATCGAAAGGAAAAGAATTGAATGGACTCGAATGGAATATAATGGAATGGAATGGACTCGAATGGAATGTACTAGAGTTGAATGGAATCGCATGGAATGGAAAACAATGGAAAGGAAAGGAAAGGAATTGAAAGGAAAGGAATAGAATGGAATGGAATCGGATGGAACGGAATTGAATGGAATGGAAACTAAAGGAATAGAATAGAAAGGAATGGCATTGAATGGAATGGAATGGAATGGAATCAGATGGAATAGAAAGTAAAGGAATAGAATCGAATGGAATGGCATCGAAAGGATTGGAATGGAATGTAATGGAATGGAATAGAAAGGAATGGAATGGACTCGAATGGAATGTAGTCAAATAGAATACAATAGAATGGAATAGAAGTAAATATAATGGACTCGAATGGAATGCATTGGAATAAATTGGAATTGAGTGTATTGGATTCGAATGGAAAGGAATGGAATGGAATAGAATGGAATGGATACGAATGGAATGGAATCGAATGGAATGGAACGAATTGGAATGTAATTGAATGGAGTCAAAAACAGTAGAAAGAAATGAAGTTTAATCGAATGATATCGAATGGAATTGAGTGGAATGTACGCGAATGGAATGGACTCGAATGGAATGCAGTGAAATGTAACGGAATCGAAAGGAATGGAATCCAATGAAATGGAATTGAATGGAATAGAAAGGAATACAATGGAATGGAGTTTAATGGAAAGATATTAAAATAATGGAATGGAATTGAGTGGACACGAAAGGAATGCACTGGAATGGAAAGGACTCGAATGAAATGGAGCGCATTAGAATGGACTCGAATGGAATGGATTGGAGTGGAATGGTCTCGAATGGATTGGAAACGAATGGAATGGAAAGGTATAGAATGGAATGTAATCAAATGGAACGAAATGGAATGGAATGGATTCGACTGGAACAGAATTGAATGTAGTGGAATTGAATGGAATGGAATGCAATCAAATGGAATGGACACGAATCGAATAGAATGAAATGAAATAGCCTAGAATGGAATGAAATGGAATGGAATGGAATGGAACGGAATGGAATGGAATGGAATGGCATAGAATGGAATGGCATGGCATGTAATGGAATGGAATGGAATGAAATGGATTGGAAGGGGATGGGCTCAAAGAAATAGACTCAAATAAAAGGGACTCAAATAGAATGAAGTGGAAAGAAACGGTCTCCAATGTAATTTATTCGAATAGAATGATATTGAATGGAATGCAATAGTATGGAATGCTATCGAATAGTATGGAATAGAATGGAATGGAATGGAACGGAATGTAGTGCAATTGAACAGACTCAAATGCAATAAATTGCAATATAATTGATTCAAATGGAATGGAATCGAATAGAATGTAAACAAATGGAATGGAAGGCAATGCAATGGAAAGGAATCGAATGAAATGGAATAAATGGAATGGAATGGAATGGAAAGGACGCGAATATATTGGACTGTTAAGGAAAGGTGTCGAATCGAATTTATTCCAATAGAATGGAATCGAATGGATTGCAATACTATTGAATCGAATCGAATGGAATGGAATTGAATGGAATGGACAGGAATGGAATGAACTGGAAATGACTGGACAAGAACGTAATATATTGCAATGTAATTTATTCAAATGGAATGGAATGCAATCGAATGGAATTGACTCGATTGGAATGGACTGGAGTGGAATGGATTTAAATGGAATGGAAAGGAATGTAATGTAAAGGAAGTGAAAGCAAAGGAATCTACTGGAATAGAATCGAACGGAACAGAAAGGAATGGAAAGGAATGGAGTGGAATGGACTCGAATGGAATGTATTCGAATGTAATGGACCTGAAAGGAATGGAATCCAATGGAATGGAATTGAATGGAATCAAAAGGAATAGAAAGGAATAGAGTGTAATTGAACGATATCGAATGGAAGGGAATGGAATGAACTCGAATGGAATGCACTGGAATGGAATGGACTCGATCAGAACGGACTGTAGAGGAATGTACACAAATGGAATGGAAACGAATGGAATGCAATGAAATGGAATGGAATGAAATGGAATTGAAAGGAACGGAACCAAATGGAATGGAATGGAATGGAATGGATTGGAATAGAATGGATTCAAATAAAATAGAATCAATGGGAATGGTATTGAATGGAAGGGACTTGAATGGAATGGAAAGCAATGGAAGATATTGGAATCGAATGGCATCGAATGAAATGGAGTGGAACGGAATGGAACGGAACCGAATGGAGTGGAATGGACTCAAATGTAATGGACTCGAATGGAATCGACTGAAATATAATAGTCTCGAAAGGAATGGCCTCGAGCGGAATTTATTTGAATAGAATGGAATCAAATGGAATACAATAGTATTGAATGGAATCGAATGGAATGGAATCGAATGGAATGTAATCAAATGGAATGGAACGGAATTCAATATAATGGAGTAGAATGGAATGCATTGGAAAGGAGCAGAGTGGAATCGAGTGGAATGGAATCAAAGGGAACGAAATCGAATTGAATGGAGTTGTATGGAATTGACTCGAAAGGAATTGACGCGAAAGGAATTGAATCGAAAGGAATGGATTGGAACAAAAAGGAATCAAATGGACAGGAATGGGATGGAATGGACACGAATGGAATGGAGTCAAATGCAAACGTATCAAATGGAAAGGATTCAAATGGAATGCAATTGAATGGAATAGAAAGGAAGAGAATGGAATTGAGAGTAATGGAAAGATATCGATTGGAATGAAATGGAATGGAAAGGAATTGAATGGAAAGGAATGGAGTGGAAAGAAATGGATTGGAATGGAATGGTCTCCAATGGAATGGACTGGAGTGGAATGGAATCGAATGGAATGAAAAGAATGGACCGGAATGGTACGGAAAGGAATAGAATGTTATGGAATCCGATTGGACAGAATGGAATGGAATGGAGTTTCATGAAATGGAGTCGAATAGAGTGGCATTAAAAGGAATGGAATGGAATGGAGAGGACTCAAAAGGAATGGACTCGAAAGGAATGGAGTCGAACTAAATTGAATCAAATGGATTGGAGTCGAACAGAATGGAATGGAATGGAATGAACTCGACTGGAGTAGAGAGGAATGTAAAGGAATAGAATGGAATGTAATCAAATGGATTGCAAGTGAATGGAATCAAAAATAATAGAAAGGAATGAAGTGTAACGGGATGATATTGACTGTAATGGAATGGAATGGAATTTAATGGAATGGAGACGAAGGAATGGACAGGAATGTAATGGACTCCAATGGAATGGAATGGATCAAAGTGGATTTGAACAGATTGGAATCGAACGGAATGGAATGCAATGGAATGGAATGGACTCGAATGGAGAAGAGAGAAAAGGAATGGAAACGAATTCAATGGAATTGAAAAGAATAGGATGGAATGGCGTGTAATGGTAAGATACTAAATGGAATGGAATTGAATGGAATGGAATGGACCCAAATGTAATGCACTCGAAAGGAATATACTCAAATAGAATGGAATCGAAAGGAAAGGTCTCAAATGGAATTTATTCAATACAATGGAATCGAATGGAATGCAATAGAATGGAATGGAATCGAATGTAATGGAATGAAATAGAATGGACCAGAATGGAATGGACTGCCATAGAACGGACTGCAGTGTAATGGATTGAATTCTAATTCATTCAAATGGAATGGAATTGAATGGAATGGAATCCATTGGAATGGATAGGATTGTACTGGAATGGAATAGCATGGAATGCAACGGAGTGGAATGGAGTTGAATGAAGTGGAATGGAATCGATTGGAATGGAATCAAATGGAATGGACGGGAATGGAATGGACTGGAAGAGAACAGACTCAAATATAATGGATTGCAAAGTAATTGATTCAAATGGAATGGAATCGAATGGAATGTAATAAAATTGAAGGGATTTGAGTTCAATACAATGGAATAAAATGGAATGCAAAGGAAAGGAAAGGTACGGAGTGAAATCGAGTGTAATGGAATCGAATGGAATGAAATCGAATGGAATGGACTCAAAAGAAATGGACGAGGGACAAAACGGAATCGAACTGATTGGAATCGAACGGAACGGAATGGAATGGAATGGTCTCCATTGGATCTGAGTAGAACGGACTGGAATGGAATGGAATGAAATGGAATGGAAAGGAATAGAATGGAATGGAATGGAATGGAATGGAATGGAAGGTAATGGAAAGATATCGAACGGATTGGAAAGGAATGGAATGGACCCTAATGGAATGGAATGGAATTCAACAGAAACGAATGGAATGGACTGGAGTGAAATGGAGTCGAATGTAATTGACTGGAGTGGAATGGACTCGAAAGGAATGGACTCGAATAGAATGGACTGGAATGGATTGTACTCGAATGGAGTTGAAAGGAATAAAATGGATTCCACCAGATTGGAATGGAACAGAATGTAATGGAATGGAATGGAATGCAATGGAATAGCTCCAATGGAATGGAGTCGAATGCAATGGAACAGAAAGGAAAGGAATTGAATGGAATTGAAAGTAATAGAACAAAATGGAGTGCAAAGGAAAGATATTGAATGGAATGGATCGAAAAGAAATCGAATGGAATGGTCAGGAATGGAATGGAATAGAATGGAATAGACTGGCGTGCAATGAAAACGAATGGAATGGAAACGAATGGAATGCAATGGAAAGGAATGGAGTAGAATAAATACT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001834427"	""	76	"."	5	8	"."	0	""	"-"	""	"ENSR00001834427"	"RegulatoryFeature"	"regulatory_region_ablation,regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODERATE"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAATGGAATGGAGGCGAAAGGAAAAGAATGGATTGGAATGTCACCGAATGGAAAGATACGGAATGGAAAGGAATGGATACGAATGGAATGGAATAGAAAGGAACGGAAAGGTAAAGAATGGAATGGAATCGGATAGAATGGAATGCAATGTAATGGAGTCGAAGGGAAAGTAAACGAGTAGAATGATATCGAATGGAATGGAATTTAATGGAATGGAATGGAATGGAATGGACTCGAATGGAATGTACTCAAATGGATTAGAATAGAATGGAATGGAACTAAACGTAATGAACTCGAATGGAATGGACACAAATAGAATGGAAGAGAAAGGAATGGTATTGAATGGAATTTATTCGAATAGAGTGGAATTCAATGGAATGCAAGAGTGTGGCATGGAATCAAATGGAATGGAATCGAATGGAATGGACCTGAGTGGAATGGACTCACATAGAACAGCCTCGAATGTAATGGATTACAATATATTAGATTCGAAAGGACTGAAATCGAATGGAATGTAATCAAGTAGAACGGAATTGAATGCATGGAATGGCATAGAAAGTAATGCAATGGAATGGAATAGACTGGAATCGAATGGAATCGGATGGAATGTAATGAAATATAATGGAAGGAATGCCATGGAATGGAATGGAATGGAATGCAATGGGACGGTGTATAATGGAGTGCAATGGATTTCAGTGGAATGTAGTCAAAAGGAAAGAAATAGAATGGAATTCAATATAATGGAATGGCATCCAAAGGCAAGGAATGGAGCGGACTCCAATGGAAACGACATGAAAGGAATATAATATAACGGAATGGCATTGAAGGAAATGGAATGCAATGGAGTTAAAAGGTAAAATATCGAAAGGAAAAGAATTGAATGGACTCGAATGGAATATAATGGAATGGAATGGACTCGAATGGAATGTACTAGAGTTGAATGGAATCGCATGGAATGGAAAACAATGGAAAGGAAAGGAAAGGAATTGAAAGGAAAGGAATAGAATGGAATGGAATCGGATGGAACGGAATTGAATGGAATGGAAACTAAAGGAATAGAATAGAAAGGAATGGCATTGAATGGAATGGAATGGAATGGAATCAGATGGAATAGAAAGTAAAGGAATAGAATCGAATGGAATGGCATCGAAAGGATTGGAATGGAATGTAATGGAATGGAATAGAAAGGAATGGAATGGACTCGAATGGAATGTAGTCAAATAGAATACAATAGAATGGAATAGAAGTAAATATAATGGACTCGAATGGAATGCATTGGAATAAATTGGAATTGAGTGTATTGGATTCGAATGGAAAGGAATGGAATGGAATAGAATGGAATGGATACGAATGGAATGGAATCGAATGGAATGGAACGAATTGGAATGTAATTGAATGGAGTCAAAAACAGTAGAAAGAAATGAAGTTTAATCGAATGATATCGAATGGAATTGAGTGGAATGTACGCGAATGGAATGGACTCGAATGGAATGCAGTGAAATGTAACGGAATCGAAAGGAATGGAATCCAATGAAATGGAATTGAATGGAATAGAAAGGAATACAATGGAATGGAGTTTAATGGAAAGATATTAAAATAATGGAATGGAATTGAGTGGACACGAAAGGAATGCACTGGAATGGAAAGGACTCGAATGAAATGGAGCGCATTAGAATGGACTCGAATGGAATGGATTGGAGTGGAATGGTCTCGAATGGATTGGAAACGAATGGAATGGAAAGGTATAGAATGGAATGTAATCAAATGGAACGAAATGGAATGGAATGGATTCGACTGGAACAGAATTGAATGTAGTGGAATTGAATGGAATGGAATGCAATCAAATGGAATGGACACGAATCGAATAGAATGAAATGAAATAGCCTAGAATGGAATGAAATGGAATGGAATGGAATGGAACGGAATGGAATGGAATGGAATGGCATAGAATGGAATGGCATGGCATGTAATGGAATGGAATGGAATGAAATGGATTGGAAGGGGATGGGCTCAAAGAAATAGACTCAAATAAAAGGGACTCAAATAGAATGAAGTGGAAAGAAACGGTCTCCAATGTAATTTATTCGAATAGAATGATATTGAATGGAATGCAATAGTATGGAATGCTATCGAATAGTATGGAATAGAATGGAATGGAATGGAACGGAATGTAGTGCAATTGAACAGACTCAAATGCAATAAATTGCAATATAATTGATTCAAATGGAATGGAATCGAATAGAATGTAAACAAATGGAATGGAAGGCAATGCAATGGAAAGGAATCGAATGAAATGGAATAAATGGAATGGAATGGAATGGAAAGGACGCGAATATATTGGACTGTTAAGGAAAGGTGTCGAATCGAATTTATTCCAATAGAATGGAATCGAATGGATTGCAATACTATTGAATCGAATCGAATGGAATGGAATTGAATGGAATGGACAGGAATGGAATGAACTGGAAATGACTGGACAAGAACGTAATATATTGCAATGTAATTTATTCAAATGGAATGGAATGCAATCGAATGGAATTGACTCGATTGGAATGGACTGGAGTGGAATGGATTTAAATGGAATGGAAAGGAATGTAATGTAAAGGAAGTGAAAGCAAAGGAATCTACTGGAATAGAATCGAACGGAACAGAAAGGAATGGAAAGGAATGGAGTGGAATGGACTCGAATGGAATGTATTCGAATGTAATGGACCTGAAAGGAATGGAATCCAATGGAATGGAATTGAATGGAATCAAAAGGAATAGAAAGGAATAGAGTGTAATTGAACGATATCGAATGGAAGGGAATGGAATGAACTCGAATGGAATGCACTGGAATGGAATGGACTCGATCAGAACGGACTGTAGAGGAATGTACACAAATGGAATGGAAACGAATGGAATGCAATGAAATGGAATGGAATGAAATGGAATTGAAAGGAACGGAACCAAATGGAATGGAATGGAATGGAATGGATTGGAATAGAATGGATTCAAATAAAATAGAATCAATGGGAATGGTATTGAATGGAAGGGACTTGAATGGAATGGAAAGCAATGGAAGATATTGGAATCGAATGGCATCGAATGAAATGGAGTGGAACGGAATGGAACGGAACCGAATGGAGTGGAATGGACTCAAATGTAATGGACTCGAATGGAATCGACTGAAATATAATAGTCTCGAAAGGAATGGCCTCGAGCGGAATTTATTTGAATAGAATGGAATCAAATGGAATACAATAGTATTGAATGGAATCGAATGGAATGGAATCGAATGGAATGTAATCAAATGGAATGGAACGGAATTCAATATAATGGAGTAGAATGGAATGCATTGGAAAGGAGCAGAGTGGAATCGAGTGGAATGGAATCAAAGGGAACGAAATCGAATTGAATGGAGTTGTATGGAATTGACTCGAAAGGAATTGACGCGAAAGGAATTGAATCGAAAGGAATGGATTGGAACAAAAAGGAATCAAATGGACAGGAATGGGATGGAATGGACACGAATGGAATGGAGTCAAATGCAAACGTATCAAATGGAAAGGATTCAAATGGAATGCAATTGAATGGAATAGAAAGGAAGAGAATGGAATTGAGAGTAATGGAAAGATATCGATTGGAATGAAATGGAATGGAAAGGAATTGAATGGAAAGGAATGGAGTGGAAAGAAATGGATTGGAATGGAATGGTCTCCAATGGAATGGACTGGAGTGGAATGGAATCGAATGGAATGAAAAGAATGGACCGGAATGGTACGGAAAGGAATAGAATGTTATGGAATCCGATTGGACAGAATGGAATGGAATGGAGTTTCATGAAATGGAGTCGAATAGAGTGGCATTAAAAGGAATGGAATGGAATGGAGAGGACTCAAAAGGAATGGACTCGAAAGGAATGGAGTCGAACTAAATTGAATCAAATGGATTGGAGTCGAACAGAATGGAATGGAATGGAATGAACTCGACTGGAGTAGAGAGGAATGTAAAGGAATAGAATGGAATGTAATCAAATGGATTGCAAGTGAATGGAATCAAAAATAATAGAAAGGAATGAAGTGTAACGGGATGATATTGACTGTAATGGAATGGAATGGAATTTAATGGAATGGAGACGAAGGAATGGACAGGAATGTAATGGACTCCAATGGAATGGAATGGATCAAAGTGGATTTGAACAGATTGGAATCGAACGGAATGGAATGCAATGGAATGGAATGGACTCGAATGGAGAAGAGAGAAAAGGAATGGAAACGAATTCAATGGAATTGAAAAGAATAGGATGGAATGGCGTGTAATGGTAAGATACTAAATGGAATGGAATTGAATGGAATGGAATGGACCCAAATGTAATGCACTCGAAAGGAATATACTCAAATAGAATGGAATCGAAAGGAAAGGTCTCAAATGGAATTTATTCAATACAATGGAATCGAATGGAATGCAATAGAATGGAATGGAATCGAATGTAATGGAATGAAATAGAATGGACCAGAATGGAATGGACTGCCATAGAACGGACTGCAGTGTAATGGATTGAATTCTAATTCATTCAAATGGAATGGAATTGAATGGAATGGAATCCATTGGAATGGATAGGATTGTACTGGAATGGAATAGCATGGAATGCAACGGAGTGGAATGGAGTTGAATGAAGTGGAATGGAATCGATTGGAATGGAATCAAATGGAATGGACGGGAATGGAATGGACTGGAAGAGAACAGACTCAAATATAATGGATTGCAAAGTAATTGATTCAAATGGAATGGAATCGAATGGAATGTAATAAAATTGAAGGGATTTGAGTTCAATACAATGGAATAAAATGGAATGCAAAGGAAAGGAAAGGTACGGAGTGAAATCGAGTGTAATGGAATCGAATGGAATGAAATCGAATGGAATGGACTCAAAAGAAATGGACGAGGGACAAAACGGAATCGAACTGATTGGAATCGAACGGAACGGAATGGAATGGAATGGTCTCCATTGGATCTGAGTAGAACGGACTGGAATGGAATGGAATGAAATGGAATGGAAAGGAATAGAATGGAATGGAATGGAATGGAATGGAATGGAAGGTAATGGAAAGATATCGAACGGATTGGAAAGGAATGGAATGGACCCTAATGGAATGGAATGGAATTCAACAGAAACGAATGGAATGGACTGGAGTGAAATGGAGTCGAATGTAATTGACTGGAGTGGAATGGACTCGAAAGGAATGGACTCGAATAGAATGGACTGGAATGGATTGTACTCGAATGGAGTTGAAAGGAATAAAATGGATTCCACCAGATTGGAATGGAACAGAATGTAATGGAATGGAATGGAATGCAATGGAATAGCTCCAATGGAATGGAGTCGAATGCAATGGAACAGAAAGGAAAGGAATTGAATGGAATTGAAAGTAATAGAACAAAATGGAGTGCAAAGGAAAGATATTGAATGGAATGGATCGAAAAGAAATCGAATGGAATGGTCAGGAATGGAATGGAATAGAATGGAATAGACTGGCGTGCAATGAAAACGAATGGAATGGAAACGAATGGAATGCAATGGAAAGGAATGGAGTAGAATAAATACTA"	"64c2a3ac-280f-11e6-b790-ceda414a729f"	"102"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0657894736842105	"WXS"	FALSE
"5491"	"ENSR00001834429"	0	"mskcc.org"	"GRCh37"	"Y"	13695154	13695155	"+"	"IGR"	"INS"	"-"	"-"	"TGGAATCGAGTGGAA"	"rs371287846"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001834429"	""	44	"."	3	18	"."	0	""	"TGGAATCGAGTGGAA"	""	"ENSR00001834429"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs371287846"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"65f121ea-280f-11e6-b790-ceda414a729f"	"87"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WXS"	FALSE
"5492"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	13705803	13705804	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs369204888"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"."	4	1	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs369204888"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"65f6037c-280f-11e6-b790-ceda414a729f"	"142"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WXS"	FALSE
"5493"	"ENSR00001834437"	0	"mskcc.org"	"GRCh37"	"Y"	13712568	13712568	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001834437"	""	11	"."	4	2	"."	0	""	"-"	""	"ENSR00001834437"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAA"	"64f6608e-280f-11e6-b790-ceda414a729f"	"52"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WXS"	FALSE
"5494"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	13719617	13723835	"+"	"IGR"	"DEL"	"TGGAATGGAATGGACTCGAATGGAGAAGAGACAAATGGAATGGAAACGAATTCAATGGAATTGAAAAGAATAGGATGGAATGGCGTGTAATGGTAAGATACTAAATGGAATGGAATTGAATGGAATGGAATGGACCCAAATGTAATGCACTCGAAAGGAATATACTCAAATAGAATGGAATCGAAAGGAAAGGTCTCAAATGGAATTTATTCAATACAATGGAATCGAATGGAATGCAATAGAATGGAATGGAATCGAATGTAATGGAATCAAATAGAATGGACCAGAATGGAATGGACTGCCATAGAACGGACTGCAGTGTAATGGATTGAATTCTAATTCATTCAAATGGAATGGAATTGAATGGAATGGAATCCAATGGAATGGATAGGATTGTACTGGAATGGAATAGCATGGAATGCAACGGAGTGGAATGGAGTTGAATGAAGTGGAATGGAATCGATTGGAATGGAATCAAATGGAATGGACGGGAATGGAATGGACTGGAAGAGAACAGACTCGAATTTAATGGATTGCAATGTAATTGATTCAAATGGAATGGAATCGAATGGAATGTAATAAAATTGAAGGGATTTGAGTTCAATGCAATGGAATAGAATGGAATGCAAAGGACAGGAAAGGTACGGAGTGAAATCGAGTGTAATGGAATCGAATGGAATGAAATGGAATGGAATAGACTCGAAAGAAATGGACGAGGCACAAAACGGAATCGAACTGATTGGAATCGAACGGAACGGAGTGGAATGGAATGGTCTCCATTGGATCGGAGGAGAACGGACTGGAATGGAATGGAATGAAATGGAATGGAACAGAATAGAATGGAATGGAATGGAATGGAATGGAATGGAAGGTAATGGAAAGATATCGAACGGATTGGAAAGGAATGGAATGGACCCTAATGGAATGGAATGGAATTCAACAGAAACTAATGGAATGGACTGGAGTGAAATGGAGTCGAATGTAATTGACTGGAGTGGAATGGACTCGAAAGGAATGGACTCGAATAGAATGGACTGGAATGGATTGTACTCGAATGGAGTGGAAAGGAATACAATGGATTCCACCAGATTGGAATGGAACAGAATGTAATGGAATGGAATGGAATGCAATGGAATAGCTCCAATGGAATGGAGTCGAATGCAGTGGAACAGAAAGGAAAGGAATTGAATGGAATTGAAAGTAATAGAACAAAATGGAGTGCAAAGGAAAGATATTGAATGGAATGGATCGAAAAGAAATCGAATGGAATGGACAGGAATGGAATGGAATAGAATGGAATAGACTGGCGTGCAATGAAAACGAATGGAATGGAAACGAATTTAATGCAATGGAAAGGAATGGAGTAGAATAAATACTATGGAATGGAATGGAGGCGAAAGGAAAAGAATGGATTGGAATGTCACCGAATGGAAAGATATGGAATGGAAAGGAATGGATACGAATGGAATGGAATAGAAAGGAACGGAAAGGTAAAGAATGGAATGGAATCGGATAGAATGGAATGCAATGTAATGGAGTCGAATGGAAAATAATCGTGTAGAATGATATCGAATGGAATGGAATGGAATGGAATGGACTCGAATGGAATGTACTCAAATGGATTAGAATAGAATGGAATGGAACTAAACGTAATGAACTCGAATGGAATGGACACAAATAGAATGGAAGAGAAAGGAATGGTATTGAATGGAATTTATTCGAATAGAGTGGAATTCAATAGAATGCAACAGTGTGGCATGGAATCAAATGGAATGGAATCGAATGGAATGGACCCGAGTGGAATGGACTCACATAGAACAGCCTCGAATGTAATGGATGACAATGTATTAGATTCGAAAGGACTGAAATCGAATGGAATGTAATCAAGTAGAACGGAATTGAATGCATGGAATGGCATAGAAAGTAACGCAATGGAATGGAATAGACTGGAATGGAATGGAATCGGATGGAATGTAATGAAATGTAATGGAAGGAATGCCATGGAATGGAATGGAATGGAATGCAATGGGACGGTGTATAATGGAGTGCAATGGATTTCAGTGGAATGTAGTCAAAAGGAAAGAAATAGAATGGAATTCAATATAATGGAATGGCATCCAATGGCAAGGAATGGAGCAGACTCCAATGGAAACGACATGAAAGGAATATAATAAAATGGAATGGCATTGAACGAAATGGAATGTAATGGAGTTAAAAGGTAAAATATCGAATGGAAAAGAATTGAATGGACTCGAAAGGAATATAATGGAATGGAATGGACTCGAATGGAATGTACTAGAGTTGAATGGAATCGAATGGAATGGAAAACAATGGAAAGGAAAGGAAGGGAATTGAAAGGAAAGGAATAGAATGGAATGGAATCGGATGGAACGGAATTGAATGGAATGGAAACTAAAGGAATAGAATAGAAAGGAATCGCATTGAATGGAATGGAATAGAATGGAATCAGATGGAACAGAAAGGAATGGAATAGAATCGAATGGAATGGCATCGAATGGATGGAATGAAATGTAATGGAATGGAATAGAAAGGAATGGAATGGACTCGAATGGAATGTCCTCAAATGGAATAGAATAGAATGGAATGGAAGTAAATATAATGGACTCGAATGGAATGCATTGGAATAAATTGGAATTGAGTGTATTGGATTCGAATGGAAAGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGATTCGAATGGAATGGAATCGAATGGAATGGAACGAATTGGAATGTAATTGAATGGAGTCAAAAACAGTAGAAAGAAATAAAGTTTCATCGAAAGATATCGAATGGAATTGAATGGAATGTACGCGAATGGAATGGACTGTAATGGAATGGAGTGACATGTAACGGAATCGAAAGGAATGGAATCCAATGAAATGGAATTGAATGGAATAGAAATGAATAGAATGGAATGGAGATTAACGGAAAGATATTAAAATAATGGAATGGAATTGAGTGGACACGAATGGAATGGACTGGAATGGAAAGGACTCAAATGAAAACGAGCGCATTAGAATGGACTCGAATGGAATGGATTGGAGTGGAATGGTCTCGAATGGATTGGAAAGGAATGGAATGGAAAGGAATAGAATGGAATGTAATCAAATGGAACGAAATGGAATGGAATGGATTCGACTGGAGCAGAATTGAATGGAGTGGATTTGAATGGAATGGAATGCAATCGAATGGAATGGACACGAATCGAATAGAATGAAATGAAATGGCATAGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAACGGAATTGAATGTCATGGAATGGAATGGCATGGCATGGAATGGAATGGAATGGAATGGAATGAAATGGATTGGAATGGGATGGGCCCAAAAGTAATAGACTCAAATAAAAGGGACTCAAAGAGAATGAAGTGGAAAGAAACGGTCTCGAATGTAATTTATTCGAATAGAATGATATTGAATGGAATGCAATAGTATGGAATGGTATCGAATAGAATGGAATAGAATGGAATGGAACGGAATGGAGTGCAATTGAACGGACTCAAATGCAATAAATTGCAATATAATTGATTCAAATGGAATGGAATCGAATAGAATGTAAACAAATGGAATGGAAGGCAATGCAATGGAAAGGAATCGAATGAAATGGAATAAATGGAATGGAATGGAATGGAAAGGAGGCGAATATATTGGACTGTTAAGGAAAGGTGTCAAATCGAATTTATTCCAATAGAATGGAATCGAATGGAATGCAATACTATTGAATCGAATCGAATGGAATGGAATTGAATGGAATGGACAGGAATGGAATGAACTGGAAGTGAATGGACAGGAACGTAATATATTGCAATGTAATTTATTCAAATGGAATGGAATGCAATCGAATGGAATGGACTCGATTGGAATGGACTGGAGTGGAATGGATTCAAATGGAATGGCAAGGAATGGAATGGAATGGAATGGAAAGCAAAGGAATCTACTGGAATAGAATCGAACGGAACAGAAAGGAATGGAATGGAATGGAGTGGAATGGACTCGAATGGAATGTATTCGAATGTAATGGACCTAAAAAGGAATGGAATCCAATGGAATGGAATTGAATGGAATCAAAAGGAATAGAAAGGCATCGAGTGTAATTGAATGATATCGAAAGGAAGGGAATGGAATGAACTCGAATGGAATGCAC"	"TGGAATGGAATGGACTCGAATGGAGAAGAGACAAATGGAATGGAAACGAATTCAATGGAATTGAAAAGAATAGGATGGAATGGCGTGTAATGGTAAGATACTAAATGGAATGGAATTGAATGGAATGGAATGGACCCAAATGTAATGCACTCGAAAGGAATATACTCAAATAGAATGGAATCGAAAGGAAAGGTCTCAAATGGAATTTATTCAATACAATGGAATCGAATGGAATGCAATAGAATGGAATGGAATCGAATGTAATGGAATCAAATAGAATGGACCAGAATGGAATGGACTGCCATAGAACGGACTGCAGTGTAATGGATTGAATTCTAATTCATTCAAATGGAATGGAATTGAATGGAATGGAATCCAATGGAATGGATAGGATTGTACTGGAATGGAATAGCATGGAATGCAACGGAGTGGAATGGAGTTGAATGAAGTGGAATGGAATCGATTGGAATGGAATCAAATGGAATGGACGGGAATGGAATGGACTGGAAGAGAACAGACTCGAATTTAATGGATTGCAATGTAATTGATTCAAATGGAATGGAATCGAATGGAATGTAATAAAATTGAAGGGATTTGAGTTCAATGCAATGGAATAGAATGGAATGCAAAGGACAGGAAAGGTACGGAGTGAAATCGAGTGTAATGGAATCGAATGGAATGAAATGGAATGGAATAGACTCGAAAGAAATGGACGAGGCACAAAACGGAATCGAACTGATTGGAATCGAACGGAACGGAGTGGAATGGAATGGTCTCCATTGGATCGGAGGAGAACGGACTGGAATGGAATGGAATGAAATGGAATGGAACAGAATAGAATGGAATGGAATGGAATGGAATGGAATGGAAGGTAATGGAAAGATATCGAACGGATTGGAAAGGAATGGAATGGACCCTAATGGAATGGAATGGAATTCAACAGAAACTAATGGAATGGACTGGAGTGAAATGGAGTCGAATGTAATTGACTGGAGTGGAATGGACTCGAAAGGAATGGACTCGAATAGAATGGACTGGAATGGATTGTACTCGAATGGAGTGGAAAGGAATACAATGGATTCCACCAGATTGGAATGGAACAGAATGTAATGGAATGGAATGGAATGCAATGGAATAGCTCCAATGGAATGGAGTCGAATGCAGTGGAACAGAAAGGAAAGGAATTGAATGGAATTGAAAGTAATAGAACAAAATGGAGTGCAAAGGAAAGATATTGAATGGAATGGATCGAAAAGAAATCGAATGGAATGGACAGGAATGGAATGGAATAGAATGGAATAGACTGGCGTGCAATGAAAACGAATGGAATGGAAACGAATTTAATGCAATGGAAAGGAATGGAGTAGAATAAATACTATGGAATGGAATGGAGGCGAAAGGAAAAGAATGGATTGGAATGTCACCGAATGGAAAGATATGGAATGGAAAGGAATGGATACGAATGGAATGGAATAGAAAGGAACGGAAAGGTAAAGAATGGAATGGAATCGGATAGAATGGAATGCAATGTAATGGAGTCGAATGGAAAATAATCGTGTAGAATGATATCGAATGGAATGGAATGGAATGGAATGGACTCGAATGGAATGTACTCAAATGGATTAGAATAGAATGGAATGGAACTAAACGTAATGAACTCGAATGGAATGGACACAAATAGAATGGAAGAGAAAGGAATGGTATTGAATGGAATTTATTCGAATAGAGTGGAATTCAATAGAATGCAACAGTGTGGCATGGAATCAAATGGAATGGAATCGAATGGAATGGACCCGAGTGGAATGGACTCACATAGAACAGCCTCGAATGTAATGGATGACAATGTATTAGATTCGAAAGGACTGAAATCGAATGGAATGTAATCAAGTAGAACGGAATTGAATGCATGGAATGGCATAGAAAGTAACGCAATGGAATGGAATAGACTGGAATGGAATGGAATCGGATGGAATGTAATGAAATGTAATGGAAGGAATGCCATGGAATGGAATGGAATGGAATGCAATGGGACGGTGTATAATGGAGTGCAATGGATTTCAGTGGAATGTAGTCAAAAGGAAAGAAATAGAATGGAATTCAATATAATGGAATGGCATCCAATGGCAAGGAATGGAGCAGACTCCAATGGAAACGACATGAAAGGAATATAATAAAATGGAATGGCATTGAACGAAATGGAATGTAATGGAGTTAAAAGGTAAAATATCGAATGGAAAAGAATTGAATGGACTCGAAAGGAATATAATGGAATGGAATGGACTCGAATGGAATGTACTAGAGTTGAATGGAATCGAATGGAATGGAAAACAATGGAAAGGAAAGGAAGGGAATTGAAAGGAAAGGAATAGAATGGAATGGAATCGGATGGAACGGAATTGAATGGAATGGAAACTAAAGGAATAGAATAGAAAGGAATCGCATTGAATGGAATGGAATAGAATGGAATCAGATGGAACAGAAAGGAATGGAATAGAATCGAATGGAATGGCATCGAATGGATGGAATGAAATGTAATGGAATGGAATAGAAAGGAATGGAATGGACTCGAATGGAATGTCCTCAAATGGAATAGAATAGAATGGAATGGAAGTAAATATAATGGACTCGAATGGAATGCATTGGAATAAATTGGAATTGAGTGTATTGGATTCGAATGGAAAGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGATTCGAATGGAATGGAATCGAATGGAATGGAACGAATTGGAATGTAATTGAATGGAGTCAAAAACAGTAGAAAGAAATAAAGTTTCATCGAAAGATATCGAATGGAATTGAATGGAATGTACGCGAATGGAATGGACTGTAATGGAATGGAGTGACATGTAACGGAATCGAAAGGAATGGAATCCAATGAAATGGAATTGAATGGAATAGAAATGAATAGAATGGAATGGAGATTAACGGAAAGATATTAAAATAATGGAATGGAATTGAGTGGACACGAATGGAATGGACTGGAATGGAAAGGACTCAAATGAAAACGAGCGCATTAGAATGGACTCGAATGGAATGGATTGGAGTGGAATGGTCTCGAATGGATTGGAAAGGAATGGAATGGAAAGGAATAGAATGGAATGTAATCAAATGGAACGAAATGGAATGGAATGGATTCGACTGGAGCAGAATTGAATGGAGTGGATTTGAATGGAATGGAATGCAATCGAATGGAATGGACACGAATCGAATAGAATGAAATGAAATGGCATAGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAACGGAATTGAATGTCATGGAATGGAATGGCATGGCATGGAATGGAATGGAATGGAATGGAATGAAATGGATTGGAATGGGATGGGCCCAAAAGTAATAGACTCAAATAAAAGGGACTCAAAGAGAATGAAGTGGAAAGAAACGGTCTCGAATGTAATTTATTCGAATAGAATGATATTGAATGGAATGCAATAGTATGGAATGGTATCGAATAGAATGGAATAGAATGGAATGGAACGGAATGGAGTGCAATTGAACGGACTCAAATGCAATAAATTGCAATATAATTGATTCAAATGGAATGGAATCGAATAGAATGTAAACAAATGGAATGGAAGGCAATGCAATGGAAAGGAATCGAATGAAATGGAATAAATGGAATGGAATGGAATGGAAAGGAGGCGAATATATTGGACTGTTAAGGAAAGGTGTCAAATCGAATTTATTCCAATAGAATGGAATCGAATGGAATGCAATACTATTGAATCGAATCGAATGGAATGGAATTGAATGGAATGGACAGGAATGGAATGAACTGGAAGTGAATGGACAGGAACGTAATATATTGCAATGTAATTTATTCAAATGGAATGGAATGCAATCGAATGGAATGGACTCGATTGGAATGGACTGGAGTGGAATGGATTCAAATGGAATGGCAAGGAATGGAATGGAATGGAATGGAAAGCAAAGGAATCTACTGGAATAGAATCGAACGGAACAGAAAGGAATGGAATGGAATGGAGTGGAATGGACTCGAATGGAATGTATTCGAATGTAATGGACCTAAAAAGGAATGGAATCCAATGGAATGGAATTGAATGGAATCAAAAGGAATAGAAAGGCATCGAGTGTAATTGAATGATATCGAAAGGAAGGGAATGGAATGAACTCGAATGGAATGCAC"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"TGGAATGGAATGGACTCGAATGGAGAAGAGACAAATGGAATGGAAACGAATTCAATGGAATTGAAAAGAATAGGATGGAATGGCGTGTAATGGTAAGATACTAAATGGAATGGAATTGAATGGAATGGAATGGACCCAAATGTAATGCACTCGAAAGGAATATACTCAAATAGAATGGAATCGAAAGGAAAGGTCTCAAATGGAATTTATTCAATACAATGGAATCGAATGGAATGCAATAGAATGGAATGGAATCGAATGTAATGGAATCAAATAGAATGGACCAGAATGGAATGGACTGCCATAGAACGGACTGCAGTGTAATGGATTGAATTCTAATTCATTCAAATGGAATGGAATTGAATGGAATGGAATCCAATGGAATGGATAGGATTGTACTGGAATGGAATAGCATGGAATGCAACGGAGTGGAATGGAGTTGAATGAAGTGGAATGGAATCGATTGGAATGGAATCAAATGGAATGGACGGGAATGGAATGGACTGGAAGAGAACAGACTCGAATTTAATGGATTGCAATGTAATTGATTCAAATGGAATGGAATCGAATGGAATGTAATAAAATTGAAGGGATTTGAGTTCAATGCAATGGAATAGAATGGAATGCAAAGGACAGGAAAGGTACGGAGTGAAATCGAGTGTAATGGAATCGAATGGAATGAAATGGAATGGAATAGACTCGAAAGAAATGGACGAGGCACAAAACGGAATCGAACTGATTGGAATCGAACGGAACGGAGTGGAATGGAATGGTCTCCATTGGATCGGAGGAGAACGGACTGGAATGGAATGGAATGAAATGGAATGGAACAGAATAGAATGGAATGGAATGGAATGGAATGGAATGGAAGGTAATGGAAAGATATCGAACGGATTGGAAAGGAATGGAATGGACCCTAATGGAATGGAATGGAATTCAACAGAAACTAATGGAATGGACTGGAGTGAAATGGAGTCGAATGTAATTGACTGGAGTGGAATGGACTCGAAAGGAATGGACTCGAATAGAATGGACTGGAATGGATTGTACTCGAATGGAGTGGAAAGGAATACAATGGATTCCACCAGATTGGAATGGAACAGAATGTAATGGAATGGAATGGAATGCAATGGAATAGCTCCAATGGAATGGAGTCGAATGCAGTGGAACAGAAAGGAAAGGAATTGAATGGAATTGAAAGTAATAGAACAAAATGGAGTGCAAAGGAAAGATATTGAATGGAATGGATCGAAAAGAAATCGAATGGAATGGACAGGAATGGAATGGAATAGAATGGAATAGACTGGCGTGCAATGAAAACGAATGGAATGGAAACGAATTTAATGCAATGGAAAGGAATGGAGTAGAATAAATACTATGGAATGGAATGGAGGCGAAAGGAAAAGAATGGATTGGAATGTCACCGAATGGAAAGATATGGAATGGAAAGGAATGGATACGAATGGAATGGAATAGAAAGGAACGGAAAGGTAAAGAATGGAATGGAATCGGATAGAATGGAATGCAATGTAATGGAGTCGAATGGAAAATAATCGTGTAGAATGATATCGAATGGAATGGAATGGAATGGAATGGACTCGAATGGAATGTACTCAAATGGATTAGAATAGAATGGAATGGAACTAAACGTAATGAACTCGAATGGAATGGACACAAATAGAATGGAAGAGAAAGGAATGGTATTGAATGGAATTTATTCGAATAGAGTGGAATTCAATAGAATGCAACAGTGTGGCATGGAATCAAATGGAATGGAATCGAATGGAATGGACCCGAGTGGAATGGACTCACATAGAACAGCCTCGAATGTAATGGATGACAATGTATTAGATTCGAAAGGACTGAAATCGAATGGAATGTAATCAAGTAGAACGGAATTGAATGCATGGAATGGCATAGAAAGTAACGCAATGGAATGGAATAGACTGGAATGGAATGGAATCGGATGGAATGTAATGAAATGTAATGGAAGGAATGCCATGGAATGGAATGGAATGGAATGCAATGGGACGGTGTATAATGGAGTGCAATGGATTTCAGTGGAATGTAGTCAAAAGGAAAGAAATAGAATGGAATTCAATATAATGGAATGGCATCCAATGGCAAGGAATGGAGCAGACTCCAATGGAAACGACATGAAAGGAATATAATAAAATGGAATGGCATTGAACGAAATGGAATGTAATGGAGTTAAAAGGTAAAATATCGAATGGAAAAGAATTGAATGGACTCGAAAGGAATATAATGGAATGGAATGGACTCGAATGGAATGTACTAGAGTTGAATGGAATCGAATGGAATGGAAAACAATGGAAAGGAAAGGAAGGGAATTGAAAGGAAAGGAATAGAATGGAATGGAATCGGATGGAACGGAATTGAATGGAATGGAAACTAAAGGAATAGAATAGAAAGGAATCGCATTGAATGGAATGGAATAGAATGGAATCAGATGGAACAGAAAGGAATGGAATAGAATCGAATGGAATGGCATCGAATGGATGGAATGAAATGTAATGGAATGGAATAGAAAGGAATGGAATGGACTCGAATGGAATGTCCTCAAATGGAATAGAATAGAATGGAATGGAAGTAAATATAATGGACTCGAATGGAATGCATTGGAATAAATTGGAATTGAGTGTATTGGATTCGAATGGAAAGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGATTCGAATGGAATGGAATCGAATGGAATGGAACGAATTGGAATGTAATTGAATGGAGTCAAAAACAGTAGAAAGAAATAAAGTTTCATCGAAAGATATCGAATGGAATTGAATGGAATGTACGCGAATGGAATGGACTGTAATGGAATGGAGTGACATGTAACGGAATCGAAAGGAATGGAATCCAATGAAATGGAATTGAATGGAATAGAAATGAATAGAATGGAATGGAGATTAACGGAAAGATATTAAAATAATGGAATGGAATTGAGTGGACACGAATGGAATGGACTGGAATGGAAAGGACTCAAATGAAAACGAGCGCATTAGAATGGACTCGAATGGAATGGATTGGAGTGGAATGGTCTCGAATGGATTGGAAAGGAATGGAATGGAAAGGAATAGAATGGAATGTAATCAAATGGAACGAAATGGAATGGAATGGATTCGACTGGAGCAGAATTGAATGGAGTGGATTTGAATGGAATGGAATGCAATCGAATGGAATGGACACGAATCGAATAGAATGAAATGAAATGGCATAGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAACGGAATTGAATGTCATGGAATGGAATGGCATGGCATGGAATGGAATGGAATGGAATGGAATGAAATGGATTGGAATGGGATGGGCCCAAAAGTAATAGACTCAAATAAAAGGGACTCAAAGAGAATGAAGTGGAAAGAAACGGTCTCGAATGTAATTTATTCGAATAGAATGATATTGAATGGAATGCAATAGTATGGAATGGTATCGAATAGAATGGAATAGAATGGAATGGAACGGAATGGAGTGCAATTGAACGGACTCAAATGCAATAAATTGCAATATAATTGATTCAAATGGAATGGAATCGAATAGAATGTAAACAAATGGAATGGAAGGCAATGCAATGGAAAGGAATCGAATGAAATGGAATAAATGGAATGGAATGGAATGGAAAGGAGGCGAATATATTGGACTGTTAAGGAAAGGTGTCAAATCGAATTTATTCCAATAGAATGGAATCGAATGGAATGCAATACTATTGAATCGAATCGAATGGAATGGAATTGAATGGAATGGACAGGAATGGAATGAACTGGAAGTGAATGGACAGGAACGTAATATATTGCAATGTAATTTATTCAAATGGAATGGAATGCAATCGAATGGAATGGACTCGATTGGAATGGACTGGAGTGGAATGGATTCAAATGGAATGGCAAGGAATGGAATGGAATGGAATGGAAAGCAAAGGAATCTACTGGAATAGAATCGAACGGAACAGAAAGGAATGGAATGGAATGGAGTGGAATGGACTCGAATGGAATGTATTCGAATGTAATGGACCTAAAAAGGAATGGAATCCAATGGAATGGAATTGAATGGAATCAAAAGGAATAGAAAGGCATCGAGTGTAATTGAATGATATCGAAAGGAAGGGAATGGAATGAACTCGAATGGAATGCAC"	"TGGAATGGAATGGACTCGAATGGAGAAGAGACAAATGGAATGGAAACGAATTCAATGGAATTGAAAAGAATAGGATGGAATGGCGTGTAATGGTAAGATACTAAATGGAATGGAATTGAATGGAATGGAATGGACCCAAATGTAATGCACTCGAAAGGAATATACTCAAATAGAATGGAATCGAAAGGAAAGGTCTCAAATGGAATTTATTCAATACAATGGAATCGAATGGAATGCAATAGAATGGAATGGAATCGAATGTAATGGAATCAAATAGAATGGACCAGAATGGAATGGACTGCCATAGAACGGACTGCAGTGTAATGGATTGAATTCTAATTCATTCAAATGGAATGGAATTGAATGGAATGGAATCCAATGGAATGGATAGGATTGTACTGGAATGGAATAGCATGGAATGCAACGGAGTGGAATGGAGTTGAATGAAGTGGAATGGAATCGATTGGAATGGAATCAAATGGAATGGACGGGAATGGAATGGACTGGAAGAGAACAGACTCGAATTTAATGGATTGCAATGTAATTGATTCAAATGGAATGGAATCGAATGGAATGTAATAAAATTGAAGGGATTTGAGTTCAATGCAATGGAATAGAATGGAATGCAAAGGACAGGAAAGGTACGGAGTGAAATCGAGTGTAATGGAATCGAATGGAATGAAATGGAATGGAATAGACTCGAAAGAAATGGACGAGGCACAAAACGGAATCGAACTGATTGGAATCGAACGGAACGGAGTGGAATGGAATGGTCTCCATTGGATCGGAGGAGAACGGACTGGAATGGAATGGAATGAAATGGAATGGAACAGAATAGAATGGAATGGAATGGAATGGAATGGAATGGAAGGTAATGGAAAGATATCGAACGGATTGGAAAGGAATGGAATGGACCCTAATGGAATGGAATGGAATTCAACAGAAACTAATGGAATGGACTGGAGTGAAATGGAGTCGAATGTAATTGACTGGAGTGGAATGGACTCGAAAGGAATGGACTCGAATAGAATGGACTGGAATGGATTGTACTCGAATGGAGTGGAAAGGAATACAATGGATTCCACCAGATTGGAATGGAACAGAATGTAATGGAATGGAATGGAATGCAATGGAATAGCTCCAATGGAATGGAGTCGAATGCAGTGGAACAGAAAGGAAAGGAATTGAATGGAATTGAAAGTAATAGAACAAAATGGAGTGCAAAGGAAAGATATTGAATGGAATGGATCGAAAAGAAATCGAATGGAATGGACAGGAATGGAATGGAATAGAATGGAATAGACTGGCGTGCAATGAAAACGAATGGAATGGAAACGAATTTAATGCAATGGAAAGGAATGGAGTAGAATAAATACTATGGAATGGAATGGAGGCGAAAGGAAAAGAATGGATTGGAATGTCACCGAATGGAAAGATATGGAATGGAAAGGAATGGATACGAATGGAATGGAATAGAAAGGAACGGAAAGGTAAAGAATGGAATGGAATCGGATAGAATGGAATGCAATGTAATGGAGTCGAATGGAAAATAATCGTGTAGAATGATATCGAATGGAATGGAATGGAATGGAATGGACTCGAATGGAATGTACTCAAATGGATTAGAATAGAATGGAATGGAACTAAACGTAATGAACTCGAATGGAATGGACACAAATAGAATGGAAGAGAAAGGAATGGTATTGAATGGAATTTATTCGAATAGAGTGGAATTCAATAGAATGCAACAGTGTGGCATGGAATCAAATGGAATGGAATCGAATGGAATGGACCCGAGTGGAATGGACTCACATAGAACAGCCTCGAATGTAATGGATGACAATGTATTAGATTCGAAAGGACTGAAATCGAATGGAATGTAATCAAGTAGAACGGAATTGAATGCATGGAATGGCATAGAAAGTAACGCAATGGAATGGAATAGACTGGAATGGAATGGAATCGGATGGAATGTAATGAAATGTAATGGAAGGAATGCCATGGAATGGAATGGAATGGAATGCAATGGGACGGTGTATAATGGAGTGCAATGGATTTCAGTGGAATGTAGTCAAAAGGAAAGAAATAGAATGGAATTCAATATAATGGAATGGCATCCAATGGCAAGGAATGGAGCAGACTCCAATGGAAACGACATGAAAGGAATATAATAAAATGGAATGGCATTGAACGAAATGGAATGTAATGGAGTTAAAAGGTAAAATATCGAATGGAAAAGAATTGAATGGACTCGAAAGGAATATAATGGAATGGAATGGACTCGAATGGAATGTACTAGAGTTGAATGGAATCGAATGGAATGGAAAACAATGGAAAGGAAAGGAAGGGAATTGAAAGGAAAGGAATAGAATGGAATGGAATCGGATGGAACGGAATTGAATGGAATGGAAACTAAAGGAATAGAATAGAAAGGAATCGCATTGAATGGAATGGAATAGAATGGAATCAGATGGAACAGAAAGGAATGGAATAGAATCGAATGGAATGGCATCGAATGGATGGAATGAAATGTAATGGAATGGAATAGAAAGGAATGGAATGGACTCGAATGGAATGTCCTCAAATGGAATAGAATAGAATGGAATGGAAGTAAATATAATGGACTCGAATGGAATGCATTGGAATAAATTGGAATTGAGTGTATTGGATTCGAATGGAAAGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGATTCGAATGGAATGGAATCGAATGGAATGGAACGAATTGGAATGTAATTGAATGGAGTCAAAAACAGTAGAAAGAAATAAAGTTTCATCGAAAGATATCGAATGGAATTGAATGGAATGTACGCGAATGGAATGGACTGTAATGGAATGGAGTGACATGTAACGGAATCGAAAGGAATGGAATCCAATGAAATGGAATTGAATGGAATAGAAATGAATAGAATGGAATGGAGATTAACGGAAAGATATTAAAATAATGGAATGGAATTGAGTGGACACGAATGGAATGGACTGGAATGGAAAGGACTCAAATGAAAACGAGCGCATTAGAATGGACTCGAATGGAATGGATTGGAGTGGAATGGTCTCGAATGGATTGGAAAGGAATGGAATGGAAAGGAATAGAATGGAATGTAATCAAATGGAACGAAATGGAATGGAATGGATTCGACTGGAGCAGAATTGAATGGAGTGGATTTGAATGGAATGGAATGCAATCGAATGGAATGGACACGAATCGAATAGAATGAAATGAAATGGCATAGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAACGGAATTGAATGTCATGGAATGGAATGGCATGGCATGGAATGGAATGGAATGGAATGGAATGAAATGGATTGGAATGGGATGGGCCCAAAAGTAATAGACTCAAATAAAAGGGACTCAAAGAGAATGAAGTGGAAAGAAACGGTCTCGAATGTAATTTATTCGAATAGAATGATATTGAATGGAATGCAATAGTATGGAATGGTATCGAATAGAATGGAATAGAATGGAATGGAACGGAATGGAGTGCAATTGAACGGACTCAAATGCAATAAATTGCAATATAATTGATTCAAATGGAATGGAATCGAATAGAATGTAAACAAATGGAATGGAAGGCAATGCAATGGAAAGGAATCGAATGAAATGGAATAAATGGAATGGAATGGAATGGAAAGGAGGCGAATATATTGGACTGTTAAGGAAAGGTGTCAAATCGAATTTATTCCAATAGAATGGAATCGAATGGAATGCAATACTATTGAATCGAATCGAATGGAATGGAATTGAATGGAATGGACAGGAATGGAATGAACTGGAAGTGAATGGACAGGAACGTAATATATTGCAATGTAATTTATTCAAATGGAATGGAATGCAATCGAATGGAATGGACTCGATTGGAATGGACTGGAGTGGAATGGATTCAAATGGAATGGCAAGGAATGGAATGGAATGGAATGGAAAGCAAAGGAATCTACTGGAATAGAATCGAACGGAACAGAAAGGAATGGAATGGAATGGAGTGGAATGGACTCGAATGGAATGTATTCGAATGTAATGGACCTAAAAAGGAATGGAATCCAATGGAATGGAATTGAATGGAATCAAAAGGAATAGAAAGGCATCGAGTGTAATTGAATGATATCGAAAGGAAGGGAATGGAATGAACTCGAATGGAATGCAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"."	4	23	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATGGAATGGAATGGACTCGAATGGAGAAGAGACAAATGGAATGGAAACGAATTCAATGGAATTGAAAAGAATAGGATGGAATGGCGTGTAATGGTAAGATACTAAATGGAATGGAATTGAATGGAATGGAATGGACCCAAATGTAATGCACTCGAAAGGAATATACTCAAATAGAATGGAATCGAAAGGAAAGGTCTCAAATGGAATTTATTCAATACAATGGAATCGAATGGAATGCAATAGAATGGAATGGAATCGAATGTAATGGAATCAAATAGAATGGACCAGAATGGAATGGACTGCCATAGAACGGACTGCAGTGTAATGGATTGAATTCTAATTCATTCAAATGGAATGGAATTGAATGGAATGGAATCCAATGGAATGGATAGGATTGTACTGGAATGGAATAGCATGGAATGCAACGGAGTGGAATGGAGTTGAATGAAGTGGAATGGAATCGATTGGAATGGAATCAAATGGAATGGACGGGAATGGAATGGACTGGAAGAGAACAGACTCGAATTTAATGGATTGCAATGTAATTGATTCAAATGGAATGGAATCGAATGGAATGTAATAAAATTGAAGGGATTTGAGTTCAATGCAATGGAATAGAATGGAATGCAAAGGACAGGAAAGGTACGGAGTGAAATCGAGTGTAATGGAATCGAATGGAATGAAATGGAATGGAATAGACTCGAAAGAAATGGACGAGGCACAAAACGGAATCGAACTGATTGGAATCGAACGGAACGGAGTGGAATGGAATGGTCTCCATTGGATCGGAGGAGAACGGACTGGAATGGAATGGAATGAAATGGAATGGAACAGAATAGAATGGAATGGAATGGAATGGAATGGAATGGAAGGTAATGGAAAGATATCGAACGGATTGGAAAGGAATGGAATGGACCCTAATGGAATGGAATGGAATTCAACAGAAACTAATGGAATGGACTGGAGTGAAATGGAGTCGAATGTAATTGACTGGAGTGGAATGGACTCGAAAGGAATGGACTCGAATAGAATGGACTGGAATGGATTGTACTCGAATGGAGTGGAAAGGAATACAATGGATTCCACCAGATTGGAATGGAACAGAATGTAATGGAATGGAATGGAATGCAATGGAATAGCTCCAATGGAATGGAGTCGAATGCAGTGGAACAGAAAGGAAAGGAATTGAATGGAATTGAAAGTAATAGAACAAAATGGAGTGCAAAGGAAAGATATTGAATGGAATGGATCGAAAAGAAATCGAATGGAATGGACAGGAATGGAATGGAATAGAATGGAATAGACTGGCGTGCAATGAAAACGAATGGAATGGAAACGAATTTAATGCAATGGAAAGGAATGGAGTAGAATAAATACTATGGAATGGAATGGAGGCGAAAGGAAAAGAATGGATTGGAATGTCACCGAATGGAAAGATATGGAATGGAAAGGAATGGATACGAATGGAATGGAATAGAAAGGAACGGAAAGGTAAAGAATGGAATGGAATCGGATAGAATGGAATGCAATGTAATGGAGTCGAATGGAAAATAATCGTGTAGAATGATATCGAATGGAATGGAATGGAATGGAATGGACTCGAATGGAATGTACTCAAATGGATTAGAATAGAATGGAATGGAACTAAACGTAATGAACTCGAATGGAATGGACACAAATAGAATGGAAGAGAAAGGAATGGTATTGAATGGAATTTATTCGAATAGAGTGGAATTCAATAGAATGCAACAGTGTGGCATGGAATCAAATGGAATGGAATCGAATGGAATGGACCCGAGTGGAATGGACTCACATAGAACAGCCTCGAATGTAATGGATGACAATGTATTAGATTCGAAAGGACTGAAATCGAATGGAATGTAATCAAGTAGAACGGAATTGAATGCATGGAATGGCATAGAAAGTAACGCAATGGAATGGAATAGACTGGAATGGAATGGAATCGGATGGAATGTAATGAAATGTAATGGAAGGAATGCCATGGAATGGAATGGAATGGAATGCAATGGGACGGTGTATAATGGAGTGCAATGGATTTCAGTGGAATGTAGTCAAAAGGAAAGAAATAGAATGGAATTCAATATAATGGAATGGCATCCAATGGCAAGGAATGGAGCAGACTCCAATGGAAACGACATGAAAGGAATATAATAAAATGGAATGGCATTGAACGAAATGGAATGTAATGGAGTTAAAAGGTAAAATATCGAATGGAAAAGAATTGAATGGACTCGAAAGGAATATAATGGAATGGAATGGACTCGAATGGAATGTACTAGAGTTGAATGGAATCGAATGGAATGGAAAACAATGGAAAGGAAAGGAAGGGAATTGAAAGGAAAGGAATAGAATGGAATGGAATCGGATGGAACGGAATTGAATGGAATGGAAACTAAAGGAATAGAATAGAAAGGAATCGCATTGAATGGAATGGAATAGAATGGAATCAGATGGAACAGAAAGGAATGGAATAGAATCGAATGGAATGGCATCGAATGGATGGAATGAAATGTAATGGAATGGAATAGAAAGGAATGGAATGGACTCGAATGGAATGTCCTCAAATGGAATAGAATAGAATGGAATGGAAGTAAATATAATGGACTCGAATGGAATGCATTGGAATAAATTGGAATTGAGTGTATTGGATTCGAATGGAAAGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGATTCGAATGGAATGGAATCGAATGGAATGGAACGAATTGGAATGTAATTGAATGGAGTCAAAAACAGTAGAAAGAAATAAAGTTTCATCGAAAGATATCGAATGGAATTGAATGGAATGTACGCGAATGGAATGGACTGTAATGGAATGGAGTGACATGTAACGGAATCGAAAGGAATGGAATCCAATGAAATGGAATTGAATGGAATAGAAATGAATAGAATGGAATGGAGATTAACGGAAAGATATTAAAATAATGGAATGGAATTGAGTGGACACGAATGGAATGGACTGGAATGGAAAGGACTCAAATGAAAACGAGCGCATTAGAATGGACTCGAATGGAATGGATTGGAGTGGAATGGTCTCGAATGGATTGGAAAGGAATGGAATGGAAAGGAATAGAATGGAATGTAATCAAATGGAACGAAATGGAATGGAATGGATTCGACTGGAGCAGAATTGAATGGAGTGGATTTGAATGGAATGGAATGCAATCGAATGGAATGGACACGAATCGAATAGAATGAAATGAAATGGCATAGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAACGGAATTGAATGTCATGGAATGGAATGGCATGGCATGGAATGGAATGGAATGGAATGGAATGAAATGGATTGGAATGGGATGGGCCCAAAAGTAATAGACTCAAATAAAAGGGACTCAAAGAGAATGAAGTGGAAAGAAACGGTCTCGAATGTAATTTATTCGAATAGAATGATATTGAATGGAATGCAATAGTATGGAATGGTATCGAATAGAATGGAATAGAATGGAATGGAACGGAATGGAGTGCAATTGAACGGACTCAAATGCAATAAATTGCAATATAATTGATTCAAATGGAATGGAATCGAATAGAATGTAAACAAATGGAATGGAAGGCAATGCAATGGAAAGGAATCGAATGAAATGGAATAAATGGAATGGAATGGAATGGAAAGGAGGCGAATATATTGGACTGTTAAGGAAAGGTGTCAAATCGAATTTATTCCAATAGAATGGAATCGAATGGAATGCAATACTATTGAATCGAATCGAATGGAATGGAATTGAATGGAATGGACAGGAATGGAATGAACTGGAAGTGAATGGACAGGAACGTAATATATTGCAATGTAATTTATTCAAATGGAATGGAATGCAATCGAATGGAATGGACTCGATTGGAATGGACTGGAGTGGAATGGATTCAAATGGAATGGCAAGGAATGGAATGGAATGGAATGGAAAGCAAAGGAATCTACTGGAATAGAATCGAACGGAACAGAAAGGAATGGAATGGAATGGAGTGGAATGGACTCGAATGGAATGTATTCGAATGTAATGGACCTAAAAAGGAATGGAATCCAATGGAATGGAATTGAATGGAATCAAAAGGAATAGAAAGGCATCGAGTGTAATTGAATGATATCGAAAGGAAGGGAATGGAATGAACTCGAATGGAATGCACT"	"6503ef4c-280f-11e6-b790-ceda414a729f"	"12"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0634920634920635	"WXS"	FALSE
"5495"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	58883862	58883866	"+"	"IGR"	"DEL"	"CCATT"	"CCATT"	"-"	"novel"	NA	"JHCCPT5"	"JHCCPN5"	"CCATT"	"CCATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	147	"."	4	43	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCCATTC"	"65cbd8c2-280f-11e6-b790-ceda414a729f"	"86"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0272108843537415	"WXS"	FALSE
"5496"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	59029846	59029847	"+"	"IGR"	"INS"	"-"	"-"	"CAG"	"rs371794872"	NA	"JHCCPT5"	"JHCCPN5"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"."	4	7	"."	0	""	"CAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs371794872"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"6616bd74-280f-11e6-b790-ceda414a729f"	"135"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WXS"	FALSE
"5497"	"CELSR2"	1952	"mskcc.org"	"GRCh37"	"1"	109811870	109811870	"+"	"Missense_Mutation"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6770G>T"	"p.Gly2257Val"	"p.G2257V"	"ENST00000271332"	"20/34"	83	"60"	23	36	"36"	0	"CELSR2,missense_variant,p.Gly2257Val,ENST00000271332,NM_001408.2;CELSR2,upstream_gene_variant,,ENST00000498157,;CELSR2,upstream_gene_variant,,ENST00000489018,;CELSR2,downstream_gene_variant,,ENST00000459940,;"	"T"	"ENSG00000143126"	"ENST00000271332"	"Transcript"	"missense_variant"	"6831/10534"	"6770/8772"	"2257/2923"	"G/V"	"gGg/gTg"	""	"1"	NA	1	"CELSR2"	"HGNC"	3231	"protein_coding"	"YES"	"CCDS796.1"	"ENSP00000271332"	"Q9HCU4"	""	"UPI00000015B6"	"NM_001408.2"	"tolerated(0.08)"	"benign(0.326)"	"20/34"	""	"Pfam_domain:PF12003,hmmpanther:PTHR24026,hmmpanther:PTHR24026:SF32"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7352b67a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.27710843373494	"WGS"	FALSE
"5498"	"CCDC88C"	440193	"mskcc.org"	"GRCh37"	"14"	91804352	91804352	"+"	"Missense_Mutation"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1047G>T"	"p.Met349Ile"	"p.M349I"	"ENST00000389857"	"10/30"	95	"66"	29	46	"46"	0	"CCDC88C,missense_variant,p.Met349Ile,ENST00000389857,NM_001080414.3;AL133153.1,downstream_gene_variant,,ENST00000581346,;CCDC88C,downstream_gene_variant,,ENST00000554872,;CCDC88C,downstream_gene_variant,,ENST00000553437,;CCDC88C,downstream_gene_variant,,ENST00000554051,;"	"A"	"ENSG00000015133"	"ENST00000389857"	"Transcript"	"missense_variant"	"1134/7474"	"1047/6087"	"349/2028"	"M/I"	"atG/atT"	""	"1"	NA	-1	"CCDC88C"	"HGNC"	19967	"protein_coding"	"YES"	"CCDS45151.1"	"ENSP00000374507"	"Q9P219"	"B4DZB8"	"UPI00006C1440"	"NM_001080414.3"	"tolerated(0.08)"	"possibly_damaging(0.803)"	"10/30"	""	"Coiled-coils_(Ncoils):Coil,Pfam_domain:PF05622,hmmpanther:PTHR18947,hmmpanther:PTHR18947:SF31"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"74b679d4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.305263157894737	"WGS"	FALSE
"5501"	"SLC5A2"	6524	"mskcc.org"	"GRCh37"	"16"	31499754	31499754	"+"	"Missense_Mutation"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1072G>A"	"p.Glu358Lys"	"p.E358K"	"ENST00000330498"	"9/14"	78	"54"	24	44	"44"	0	"SLC5A2,missense_variant,p.Glu358Lys,ENST00000330498,NM_003041.3;C16orf58,downstream_gene_variant,,ENST00000327237,NM_022744.3;C16orf58,downstream_gene_variant,,ENST00000570164,;C16orf58,downstream_gene_variant,,ENST00000567994,;SLC5A2,downstream_gene_variant,,ENST00000569576,;AC026471.6,non_coding_transcript_exon_variant,,ENST00000565137,;SLC5A2,upstream_gene_variant,,ENST00000564197,;SLC5A2,upstream_gene_variant,,ENST00000567051,;SLC5A2,missense_variant,p.Glu358Lys,ENST00000419665,;SLC5A2,non_coding_transcript_exon_variant,,ENST00000568188,;SLC5A2,non_coding_transcript_exon_variant,,ENST00000568891,;C16orf58,downstream_gene_variant,,ENST00000568491,;SLC5A2,downstream_gene_variant,,ENST00000562006,;C16orf58,downstream_gene_variant,,ENST00000567673,;SLC5A2,downstream_gene_variant,,ENST00000565446,;"	"A"	"ENSG00000140675"	"ENST00000330498"	"Transcript"	"missense_variant"	"1091/2271"	"1072/2019"	"358/672"	"E/K"	"Gag/Aag"	""	"1"	NA	1	"SLC5A2"	"HGNC"	11037	"protein_coding"	"YES"	"CCDS10714.1"	"ENSP00000327943"	"P31639"	"H3BP44"	"UPI000004D0A0"	"NM_003041.3"	"tolerated(0.49)"	"benign(0.099)"	"9/14"	""	"PROSITE_profiles:PS50283,hmmpanther:PTHR11819:SF95,hmmpanther:PTHR11819,TIGRFAM_domain:TIGR00813,Pfam_domain:PF00474"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"75047332-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.307692307692308	"WGS"	FALSE
"5502"	"TLCD2"	727910	"mskcc.org"	"GRCh37"	"17"	1611358	1611358	"+"	"Missense_Mutation"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.501G>C"	"p.Trp167Cys"	"p.W167C"	"ENST00000330676"	"4/4"	91	"62"	29	50	"50"	0	"TLCD2,missense_variant,p.Trp167Cys,ENST00000330676,NM_001164407.1;MIR22HG,downstream_gene_variant,,ENST00000574306,;MIR22HG,downstream_gene_variant,,ENST00000334146,;MIR22HG,downstream_gene_variant,,ENST00000573127,;MIR22HG,downstream_gene_variant,,ENST00000571595,;MIR22HG,downstream_gene_variant,,ENST00000576749,;MIR22HG,downstream_gene_variant,,ENST00000576489,;MIR22HG,downstream_gene_variant,,ENST00000575626,;MIR22HG,downstream_gene_variant,,ENST00000609990,;MIR22HG,downstream_gene_variant,,ENST00000609398,;MIR22HG,downstream_gene_variant,,ENST00000608198,;MIR22HG,downstream_gene_variant,,ENST00000608913,;MIR22HG,downstream_gene_variant,,ENST00000574016,;MIR22HG,downstream_gene_variant,,ENST00000573075,;MIR22HG,downstream_gene_variant,,ENST00000609442,;MIR22HG,downstream_gene_variant,,ENST00000570416,;MIR22HG,downstream_gene_variant,,ENST00000571091,;MIR22HG,downstream_gene_variant,,ENST00000608245,;MIR22HG,downstream_gene_variant,,ENST00000610106,;"	"G"	"ENSG00000185561"	"ENST00000330676"	"Transcript"	"missense_variant"	"697/991"	"501/795"	"167/264"	"W/C"	"tgG/tgC"	""	"1"	NA	-1	"TLCD2"	"HGNC"	33522	"protein_coding"	"YES"	"CCDS45567.1"	"ENSP00000331965"	"A6NGC4"	""	"UPI00001D79C7"	"NM_001164407.1"	"deleterious(0.01)"	"probably_damaging(0.969)"	"4/4"	""	"SMART_domains:SM00724,Pfam_domain:PF03798,PROSITE_profiles:PS50922,hmmpanther:PTHR13439,hmmpanther:PTHR13439:SF2,Transmembrane_helices:TMhelix"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"752ebb2e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.318681318681319	"WGS"	FALSE
"5503"	"MYH8"	4626	"mskcc.org"	"GRCh37"	"17"	10300008	10300008	"+"	"Missense_Mutation"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4390G>C"	"p.Glu1464Gln"	"p.E1464Q"	"ENST00000403437"	"32/40"	96	"70"	26	58	"58"	0	"MYH8,missense_variant,p.Glu1464Gln,ENST00000403437,NM_002472.2;CTC-297N7.11,intron_variant,,ENST00000587182,;RP11-799N11.1,intron_variant,,ENST00000399342,;RP11-799N11.1,intron_variant,,ENST00000581304,;"	"G"	"ENSG00000133020"	"ENST00000403437"	"Transcript"	"missense_variant"	"4485/6041"	"4390/5814"	"1464/1937"	"E/Q"	"Gag/Cag"	""	"1"	NA	-1	"MYH8"	"HGNC"	7578	"protein_coding"	"YES"	"CCDS11153.1"	"ENSP00000384330"	"P13535"	""	"UPI000012FB7D"	"NM_002472.2"	"deleterious(0.03)"	"possibly_damaging(0.483)"	"32/40"	""	"Coiled-coils_(Ncoils):Coil,Pfam_domain:PF01576,hmmpanther:PTHR13140,hmmpanther:PTHR13140:SF340,Superfamily_domains:SSF90257"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"75353b20-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.270833333333333	"WGS"	FALSE
"5504"	"ZNF440"	126070	"mskcc.org"	"GRCh37"	"19"	11943705	11943705	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1714C>A"	"p.His572Asn"	"p.H572N"	"ENST00000304060"	"4/4"	102	"94"	8	57	"57"	0	"ZNF440,missense_variant,p.His572Asn,ENST00000304060,NM_152357.2;ZNF440,downstream_gene_variant,,ENST00000427505,;ZNF440,downstream_gene_variant,,ENST00000414255,;ZNF440,downstream_gene_variant,,ENST00000457526,;ZNF440,downstream_gene_variant,,ENST00000588954,;"	"A"	"ENSG00000171295"	"ENST00000304060"	"Transcript"	"missense_variant"	"1878/4189"	"1714/1788"	"572/595"	"H/N"	"Cat/Aat"	""	"1"	NA	1	"ZNF440"	"HGNC"	20874	"protein_coding"	"YES"	"CCDS42503.1"	"ENSP00000305373"	"Q8IYI8"	"K7EJ55,C9JG89"	"UPI0000074249"	"NM_152357.2"	"tolerated(0.53)"	"benign(0)"	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"759693a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0784313725490196	"WGS"	FALSE
"5505"	"ZNF543"	125919	"mskcc.org"	"GRCh37"	"19"	57839887	57839887	"+"	"Missense_Mutation"	"SNP"	"T"	"T"	"C"	"rs781128124"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1057T>C"	"p.Tyr353His"	"p.Y353H"	"ENST00000321545"	"4/4"	84	"74"	10	42	"42"	0	"ZNF543,missense_variant,p.Tyr353His,ENST00000321545,NM_213598.3;"	"C"	"ENSG00000178229"	"ENST00000321545"	"Transcript"	"missense_variant"	"1402/3659"	"1057/1803"	"353/600"	"Y/H"	"Tac/Cac"	"rs781128124"	"1"	NA	1	"ZNF543"	"HGNC"	25281	"protein_coding"	"YES"	"CCDS33130.1"	"ENSP00000322545"	"Q08ER8"	""	"UPI00001D8197"	"NM_213598.3"	"tolerated(0.43)"	"benign(0.072)"	"4/4"	""	"Superfamily_domains:SSF57667,SMART_domains:SM00355,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24384:SF99,hmmpanther:PTHR24384,PROSITE_profiles:PS50157"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"75ba2218-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.119047619047619	"WGS"	FALSE
"5506"	"SLC4A3"	6508	"mskcc.org"	"GRCh37"	"2"	220493283	220493283	"+"	"Missense_Mutation"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.208G>T"	"p.Asp70Tyr"	"p.D70Y"	"ENST00000373762"	"3/23"	80	"55"	25	54	"54"	0	"SLC4A3,missense_variant,p.Asp70Tyr,ENST00000358055,;SLC4A3,missense_variant,p.Asp70Tyr,ENST00000373762,NM_005070.3;SLC4A3,missense_variant,p.Asp70Tyr,ENST00000273063,NM_201574.2;SLC4A3,missense_variant,p.Asp70Tyr,ENST00000373760,;SLC4A3,missense_variant,p.Asp70Tyr,ENST00000317151,;SLC4A3,upstream_gene_variant,,ENST00000413743,;AC009955.8,upstream_gene_variant,,ENST00000455896,;SLC4A3,non_coding_transcript_exon_variant,,ENST00000497589,;SLC4A3,missense_variant,p.Asp70Tyr,ENST00000425141,;SLC4A3,upstream_gene_variant,,ENST00000416910,;SLC4A3,upstream_gene_variant,,ENST00000444906,;"	"T"	"ENSG00000114923"	"ENST00000373762"	"Transcript"	"missense_variant"	"477/4300"	"208/3780"	"70/1259"	"D/Y"	"Gac/Tac"	""	"1"	NA	1	"SLC4A3"	"HGNC"	11029	"protein_coding"	"YES"	"CCDS2446.1"	"ENSP00000362867"	"P48751"	""	"UPI000022BE50"	"NM_005070.3"	"deleterious_low_confidence(0)"	"probably_damaging(0.91)"	"3/23"	""	"hmmpanther:PTHR11453,hmmpanther:PTHR11453:SF15"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"761f90da-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.3125	"WGS"	FALSE
"5507"	"KBTBD8"	84541	"mskcc.org"	"GRCh37"	"3"	67058703	67058703	"+"	"Missense_Mutation"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1700A>T"	"p.Gln567Leu"	"p.Q567L"	"ENST00000417314"	"4/4"	93	"61"	32	60	"60"	0	"KBTBD8,missense_variant,p.Gln541Leu,ENST00000295568,NM_032505.2;KBTBD8,missense_variant,p.Gln567Leu,ENST00000417314,;KBTBD8,missense_variant,p.Gln125Leu,ENST00000460576,;KBTBD8,downstream_gene_variant,,ENST00000484414,;KBTBD8,downstream_gene_variant,,ENST00000460784,;KBTBD8,downstream_gene_variant,,ENST00000469661,;"	"T"	"ENSG00000163376"	"ENST00000417314"	"Transcript"	"missense_variant"	"1749/4680"	"1700/1806"	"567/601"	"Q/L"	"cAg/cTg"	""	"1"	NA	1	"KBTBD8"	"HGNC"	30691	"protein_coding"	"YES"	"CCDS2906.2"	"ENSP00000401878"	"Q8NFY9"	"C9JAA6,C9J331"	"UPI0000209974"	""	"tolerated(0.07)"	"benign(0.001)"	"4/4"	""	"hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF24,Gene3D:1zgkA00,PIRSF_domain:PIRSF037037,Superfamily_domains:0052715"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"76beaa94-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.344086021505376	"WGS"	FALSE
"5508"	"IMPG1"	3617	"mskcc.org"	"GRCh37"	"6"	76640867	76640867	"+"	"Splice_Region"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2046T>C"	"p.="	"p.A682A"	"ENST00000369950"	"15/17"	89	"60"	29	71	"71"	0	"IMPG1,splice_region_variant,,ENST00000369963,;IMPG1,splice_region_variant,p.=,ENST00000369950,NM_001563.2,NM_001282368.1;IMPG1,splice_region_variant,p.=,ENST00000369952,;Y_RNA,downstream_gene_variant,,ENST00000363170,;"	"G"	"ENSG00000112706"	"ENST00000369950"	"Transcript"	"splice_region_variant,synonymous_variant"	"2236/3558"	"2046/2394"	"682/797"	"A"	"gcT/gcC"	""	"1"	NA	-1	"IMPG1"	"HGNC"	6055	"protein_coding"	"YES"	"CCDS4985.1"	"ENSP00000358966"	"Q17R60"	"H0UI08"	"UPI0000073F12"	"NM_001563.2,NM_001282368.1"	""	""	"15/17"	""	"PROSITE_profiles:PS50024,hmmpanther:PTHR12199,SMART_domains:SM00200,Superfamily_domains:0047452"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"77c3ea76-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.325842696629214	"WGS"	FALSE
"5509"	"CPA1"	1357	"mskcc.org"	"GRCh37"	"7"	130023289	130023289	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"rs782248213"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.541C>T"	"p.Arg181Trp"	"p.R181W"	"ENST00000011292"	"5/10"	115	"105"	10	48	"48"	0	"CPA1,missense_variant,p.Arg181Trp,ENST00000011292,NM_001868.2;CPA1,missense_variant,p.Arg93Trp,ENST00000484324,;CPA1,missense_variant,p.Arg93Trp,ENST00000476062,;CPA1,missense_variant,p.Arg93Trp,ENST00000481342,;CPA1,intron_variant,,ENST00000604896,;CPA1,non_coding_transcript_exon_variant,,ENST00000491460,;CPA1,upstream_gene_variant,,ENST00000479106,;CPA1,upstream_gene_variant,,ENST00000478096,;CPA1,upstream_gene_variant,,ENST00000470838,;"	"T"	"ENSG00000091704"	"ENST00000011292"	"Transcript"	"missense_variant"	"691/1487"	"541/1260"	"181/419"	"R/W"	"Cgg/Tgg"	"rs782248213"	"1"	NA	1	"CPA1"	"HGNC"	2296	"protein_coding"	"YES"	"CCDS5820.1"	"ENSP00000011292"	"P15085"	"C9JUZ4,C9JUF9,C9JQ63"	"UPI000004D332"	"NM_001868.2"	"deleterious(0.02)"	"probably_damaging(1)"	"5/10"	""	"Prints_domain:PR00765,Superfamily_domains:SSF53187,SMART_domains:SM00631,Gene3D:3.40.630.10,Pfam_domain:PF00246,PROSITE_patterns:PS00132,hmmpanther:PTHR11705:SF15,hmmpanther:PTHR11705"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	"9.415e-06"	"0"	"0"	"0"	"0"	"1.851e-05"	"0"	"0"	"1"	"PASS"	"CCG"	"782e7940-ffcc-11e5-9bf8-a690c673b430"	"."	9.516e-06	"1/105086"	"1/106210"	"0/8962"	"0/11132"	"0/7848"	"0/6262"	"1/54020"	"0/674"	"0/16188"	"PASS"	"TRUE"	0.0869565217391304	"WGS"	FALSE
"5510"	"SYP"	6855	"mskcc.org"	"GRCh37"	"X"	49050718	49050718	"+"	"Missense_Mutation"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.328G>A"	"p.Val110Met"	"p.V110M"	"ENST00000263233"	"4/7"	98	"71"	27	68	"68"	0	"SYP,missense_variant,p.Val110Met,ENST00000263233,NM_003179.2;SYP,missense_variant,p.Val110Met,ENST00000479808,;SYP,5_prime_UTR_variant,,ENST00000538567,;SYP,intron_variant,,ENST00000472598,;SYP-AS1,upstream_gene_variant,,ENST00000433499,;SYP,3_prime_UTR_variant,,ENST00000376303,;SYP,3_prime_UTR_variant,,ENST00000469389,;SYP,downstream_gene_variant,,ENST00000494396,;SYP,downstream_gene_variant,,ENST00000472737,;SYP,downstream_gene_variant,,ENST00000466635,;"	"T"	"ENSG00000102003"	"ENST00000263233"	"Transcript"	"missense_variant"	"401/2486"	"328/942"	"110/313"	"V/M"	"Gtg/Atg"	""	"1"	NA	-1	"SYP"	"HGNC"	11506	"protein_coding"	"YES"	"CCDS14321.1"	"ENSP00000263233"	"P08247"	"B7Z359"	"UPI0000117AEC"	"NM_003179.2"	"deleterious(0)"	"probably_damaging(0.954)"	"4/7"	""	"Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix,PROSITE_profiles:PS51225,hmmpanther:PTHR10306,hmmpanther:PTHR10306:SF10,Pfam_domain:PF01284,Prints_domain:PR00220"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"78f7a04a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.275510204081633	"WGS"	FALSE
"5511"	"AVPR2"	554	"mskcc.org"	"GRCh37"	"X"	153171182	153171182	"+"	"Missense_Mutation"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.222A>G"	"p.Ile74Met"	"p.I74M"	"ENST00000358927"	"3/4"	86	"63"	23	42	"42"	0	"AVPR2,missense_variant,p.Ile74Met,ENST00000358927,;AVPR2,missense_variant,p.Ile74Met,ENST00000337474,NM_001146151.1,NM_000054.4;AVPR2,missense_variant,p.Ile74Met,ENST00000370049,;AVPR2,missense_variant,p.Ile74Met,ENST00000430697,;ARHGAP4,downstream_gene_variant,,ENST00000370028,NM_001164741.1;ARHGAP4,downstream_gene_variant,,ENST00000350060,NM_001666.4;ARHGAP4,downstream_gene_variant,,ENST00000370016,;ARHGAP4,downstream_gene_variant,,ENST00000537206,;ARHGAP4,downstream_gene_variant,,ENST00000393721,;ARHGAP4,downstream_gene_variant,,ENST00000442172,;ARHGAP4,downstream_gene_variant,,ENST00000454164,;ARHGAP4,downstream_gene_variant,,ENST00000467421,;AVPR2,intron_variant,,ENST00000434679,;L1CAM,intron_variant,,ENST00000464967,;ARHGAP4,downstream_gene_variant,,ENST00000404127,;ARHGAP4,downstream_gene_variant,,ENST00000470209,;ARHGAP4,downstream_gene_variant,,ENST00000420383,;ARHGAP4,downstream_gene_variant,,ENST00000494302,;ARHGAP4,downstream_gene_variant,,ENST00000494397,;ARHGAP4,downstream_gene_variant,,ENST00000466928,;ARHGAP4,downstream_gene_variant,,ENST00000461739,;"	"G"	"ENSG00000126895"	"ENST00000358927"	"Transcript"	"missense_variant"	"431/1763"	"222/1116"	"74/371"	"I/M"	"atA/atG"	""	"1"	NA	1	"AVPR2"	"HGNC"	897	"protein_coding"	"YES"	"CCDS14735.1"	"ENSP00000351805"	"P30518"	""	"UPI000005043B"	""	"tolerated(1)"	"benign(0.002)"	"3/4"	""	"Gene3D:1.20.1070.10,Pfam_domain:PF00001,Prints_domain:PR00237,Prints_domain:PR00896,Prints_domain:PR00898,PROSITE_profiles:PS50262,hmmpanther:PTHR24241,hmmpanther:PTHR24241:SF20,Superfamily_domains:SSF81321"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"791f11c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.267441860465116	"WGS"	FALSE
"5512"	"EIF5AL1"	143244	"mskcc.org"	"GRCh37"	"10"	81272773	81272780	"+"	"Frame_Shift_Del"	"DEL"	"TTGAGCAG"	"TTGAGCAG"	"CCTTGGC"	"novel"	NA	"284"	"W0006060F"	"TTGAGCAG"	"TTGAGCAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.368_375delTTGAGCAGinsCCTTGGC"	"p.Ile123ThrfsTer12"	"p.I123Tfs*12"	"ENST00000520547"	"1/1"	94	"."	7	61	"."	0	"EIF5AL1,frameshift_variant,p.Ile123ThrfsTer12,ENST00000520547,NM_001099692.1;AL133481.1,upstream_gene_variant,,ENST00000538322,;RP11-342M3.2,upstream_gene_variant,,ENST00000607558,;"	"CCTTGGC"	"ENSG00000253626"	"ENST00000520547"	"Transcript"	"frameshift_variant"	"417-424/3832"	"368-375/465"	"123-125/154"	"IEQ/TLX"	"aTTGAGCAG/aCCTTGGC"	""	"1"	NA	1	"EIF5AL1"	"HGNC"	17419	"protein_coding"	"YES"	"CCDS53546.1"	"ENSP00000430706"	"Q6IS14"	""	"UPI00001972AD"	"NM_001099692.1"	NA	NA	"1/1"	""	"hmmpanther:PTHR11673:SF7,hmmpanther:PTHR11673,Pfam_domain:PF01287,Gene3D:2.40.50.140,TIGRFAM_domain:TIGR00037,PIRSF_domain:PIRSF003025,Superfamily_domains:SSF50249"	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"HIGH"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATTGAGCAGA"	"a0da1968-fdd7-11e5-a4d0-203e424a729f"	"251"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"TRUE"	0.074468085106383	"WGS"	FALSE
"5513"	"STON2"	85439	"mskcc.org"	"GRCh37"	"14"	81744603	81744603	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	"rs371297916"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1052C>T"	"p.Thr351Met"	"p.T351M"	"ENST00000555447"	"6/8"	83	"70"	13	51	"51"	0	"STON2,missense_variant,p.Thr351Met,ENST00000555447,NM_001256430.1;STON2,missense_variant,p.Thr351Met,ENST00000267540,NM_033104.3;STON2,upstream_gene_variant,,ENST00000553821,;STON2,downstream_gene_variant,,ENST00000556280,;STON2,non_coding_transcript_exon_variant,,ENST00000555284,;"	"A"	"ENSG00000140022"	"ENST00000555447"	"Transcript"	"missense_variant"	"1465/4302"	"1052/2763"	"351/920"	"T/M"	"aCg/aTg"	"rs371297916"	"1"	NA	-1	"STON2"	"HGNC"	30652	"protein_coding"	"YES"	"CCDS58332.1"	"ENSP00000450857"	"Q8WXE9"	"G3V322"	"UPI00001FD96B"	"NM_001256430.1"	"deleterious(0.05)"	"benign(0.031)"	"6/8"	""	"PIRSF_domain:PIRSF037099,hmmpanther:PTHR11998,hmmpanther:PTHR11998:SF19"	""	""	""	NA	""	""	""	"A:0"	"A:0.0001"	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	"3.766e-05"	"0"	"8.916e-05"	"0.0001271"	"0"	"1.84e-05"	"0"	"6.095e-05"	NA	"PASS"	"CGT"	"0fecd3fa-deaf-11e6-a4db-9a8e424a729f"	"."	3.766e-05	"4/106208"	"4/106210"	"0/9064"	"1/11216"	"1/7866"	"0/6614"	"1/54346"	"0/694"	"1/16408"	"PASS"	"TRUE"	0.156626506024096	"WGS"	FALSE
"5515"	"KIF7"	374654	"mskcc.org"	"GRCh37"	"15"	90189248	90189248	"+"	"Missense_Mutation"	"SNP"	"T"	"T"	"C"	"rs765678770"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1798A>G"	"p.Asn600Asp"	"p.N600D"	"ENST00000394412"	"8/19"	88	"73"	15	37	"37"	0	"KIF7,missense_variant,p.Asn600Asp,ENST00000394412,NM_198525.2;KIF7,downstream_gene_variant,,ENST00000445906,;"	"C"	"ENSG00000166813"	"ENST00000394412"	"Transcript"	"missense_variant"	"1875/4551"	"1798/4032"	"600/1343"	"N/D"	"Aat/Gat"	"rs765678770"	"1"	NA	-1	"KIF7"	"HGNC"	30497	"protein_coding"	"YES"	"CCDS32325.2"	"ENSP00000377934"	"Q2M1P5"	"B7ZKY4"	"UPI00015F81C7"	"NM_198525.2"	"tolerated(0.68)"	"benign(0.002)"	"8/19"	""	"hmmpanther:PTHR24115,hmmpanther:PTHR24115:SF342"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"1006ae2e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.170454545454545	"WGS"	FALSE
"5516"	"NEURL4"	84461	"mskcc.org"	"GRCh37"	"17"	7221467	7221467	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3977G>A"	"p.Gly1326Asp"	"p.G1326D"	"ENST00000399464"	"25/29"	97	"82"	15	62	"62"	0	"NEURL4,missense_variant,p.Gly1326Asp,ENST00000399464,NM_032442.2;NEURL4,missense_variant,p.Gly1324Asp,ENST00000315614,NM_001005408.1;NEURL4,missense_variant,p.Gly1302Asp,ENST00000570460,;NEURL4,missense_variant,p.Gly1289Asp,ENST00000571887,;GPS2,upstream_gene_variant,,ENST00000380728,;GPS2,upstream_gene_variant,,ENST00000389167,NM_004489.4;GPS2,upstream_gene_variant,,ENST00000391950,;GPS2,upstream_gene_variant,,ENST00000570780,;GPS2,upstream_gene_variant,,ENST00000577040,;GPS2,upstream_gene_variant,,ENST00000573684,;GPS2,upstream_gene_variant,,ENST00000574458,;NEURL4,non_coding_transcript_exon_variant,,ENST00000574120,;RP11-542C16.2,missense_variant,p.Gly140Asp,ENST00000575474,;RP11-542C16.2,missense_variant,p.Gly107Asp,ENST00000315601,;NEURL4,3_prime_UTR_variant,,ENST00000573186,;NEURL4,non_coding_transcript_exon_variant,,ENST00000576794,;GPS2,upstream_gene_variant,,ENST00000571697,;NEURL4,downstream_gene_variant,,ENST00000573651,;GPS2,upstream_gene_variant,,ENST00000571569,;GPS2,upstream_gene_variant,,ENST00000572172,;GPS2,upstream_gene_variant,,ENST00000572363,;GPS2,upstream_gene_variant,,ENST00000571098,;GPS2,upstream_gene_variant,,ENST00000572707,;GPS2,upstream_gene_variant,,ENST00000573059,;GPS2,upstream_gene_variant,,ENST00000573807,;NEURL4,upstream_gene_variant,,ENST00000572680,;NEURL4,downstream_gene_variant,,ENST00000576485,;NEURL4,downstream_gene_variant,,ENST00000571508,;NEURL4,downstream_gene_variant,,ENST00000572029,;GPS2,upstream_gene_variant,,ENST00000571695,;GPS2,upstream_gene_variant,,ENST00000574201,;"	"T"	"ENSG00000215041"	"ENST00000399464"	"Transcript"	"missense_variant"	"3993/5200"	"3977/4689"	"1326/1562"	"G/D"	"gGt/gAt"	""	"1"	NA	-1	"NEURL4"	"HGNC"	34410	"protein_coding"	"YES"	"CCDS42251.1"	"ENSP00000382390"	"Q96JN8"	""	"UPI000020081C"	"NM_032442.2"	"tolerated(0.44)"	"benign(0.002)"	"25/29"	""	"hmmpanther:PTHR12429,hmmpanther:PTHR12429:SF2"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"102d1866-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.154639175257732	"WGS"	FALSE
"5517"	"KIAA0195"	9772	"mskcc.org"	"GRCh37"	"17"	73492522	73492522	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3213G>T"	"p.Glu1071Asp"	"p.E1071D"	"ENST00000314256"	"24/32"	112	"92"	20	50	"50"	0	"KIAA0195,missense_variant,p.Glu1071Asp,ENST00000314256,NM_014738.4;KIAA0195,missense_variant,p.Glu1081Asp,ENST00000375248,;KIAA0195,missense_variant,p.Glu722Asp,ENST00000579208,;KIAA0195,missense_variant,p.Glu36Asp,ENST00000577247,;CASKIN2,downstream_gene_variant,,ENST00000321617,NM_020753.4;CASKIN2,downstream_gene_variant,,ENST00000433559,NM_001142643.2;KIAA0195,downstream_gene_variant,,ENST00000578853,;KIAA0195,downstream_gene_variant,,ENST00000580918,;KIAA0195,upstream_gene_variant,,ENST00000584694,;KIAA0195,upstream_gene_variant,,ENST00000577245,;AC100787.1,upstream_gene_variant,,ENST00000579379,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000585105,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000581085,;KIAA0195,non_coding_transcript_exon_variant,,ENST00000579898,;KIAA0195,downstream_gene_variant,,ENST00000579241,;KIAA0195,upstream_gene_variant,,ENST00000581453,;KIAA0195,downstream_gene_variant,,ENST00000581867,;KIAA0195,downstream_gene_variant,,ENST00000578624,;KIAA0195,downstream_gene_variant,,ENST00000581723,;KIAA0195,downstream_gene_variant,,ENST00000583071,;KIAA0195,downstream_gene_variant,,ENST00000582843,;KIAA0195,downstream_gene_variant,,ENST00000583296,;KIAA0195,upstream_gene_variant,,ENST00000577194,;"	"T"	"ENSG00000177728"	"ENST00000314256"	"Transcript"	"missense_variant"	"3607/5213"	"3213/4071"	"1071/1356"	"E/D"	"gaG/gaT"	""	"1"	NA	1	"KIAA0195"	"HGNC"	28983	"protein_coding"	"YES"	"CCDS32732.1"	"ENSP00000313885"	"Q12767"	"J3QS17,J3QRT3,J3QLM7,J3KT63,J3KRU7"	"UPI0000139439"	"NM_014738.4"	"tolerated(0.81)"	"benign(0.029)"	"24/32"	""	"hmmpanther:PTHR13219:SF6,hmmpanther:PTHR13219"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"10424b28-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.178571428571429	"WGS"	FALSE
"5518"	"ENOSF1"	55556	"mskcc.org"	"GRCh37"	"18"	712359	712359	"+"	"Splice_Site"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.147+1G>T"	""	"p.X49_splice"	"ENST00000340116"	""	55	"49"	6	42	"42"	0	"ENOSF1,splice_donor_variant,,ENST00000340116,NM_202758.3;ENOSF1,intron_variant,,ENST00000383578,NM_001126123.3;ENOSF1,intron_variant,,ENST00000251101,NM_017512.5;ENOSF1,intron_variant,,ENST00000580982,;ENOSF1,intron_variant,,ENST00000539164,;ENOSF1,intron_variant,,ENST00000583771,;RP11-806L2.6,downstream_gene_variant,,ENST00000580007,;ENOSF1,intron_variant,,ENST00000580605,;ENOSF1,intron_variant,,ENST00000581332,;ENOSF1,intron_variant,,ENST00000581475,;ENOSF1,intron_variant,,ENST00000585004,;ENOSF1,intron_variant,,ENST00000585128,;ENOSF1,intron_variant,,ENST00000584453,;ENOSF1,intron_variant,,ENST00000578651,;"	"A"	"ENSG00000132199"	"ENST00000340116"	"Transcript"	"splice_donor_variant"	"-/1658"	"147/1353"	"49/450"	""	""	""	"1"	NA	-1	"ENOSF1"	"HGNC"	30365	"protein_coding"	"YES"	"CCDS11823.1"	"ENSP00000345974"	"Q7L5Y1"	"Q6ZS08"	"UPI0000252153"	"NM_202758.3"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"HIGH"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"10475de8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.109090909090909	"WGS"	FALSE
"5519"	"EEF2"	1938	"mskcc.org"	"GRCh37"	"19"	3982843	3982843	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.574T>G"	"p.Tyr192Asp"	"p.Y192D"	"ENST00000309311"	"4/15"	110	"104"	6	65	"65"	0	"EEF2,missense_variant,p.Tyr192Asp,ENST00000309311,NM_001961.3;EEF2,upstream_gene_variant,,ENST00000600794,;SNORD37,upstream_gene_variant,,ENST00000384048,NR_002602.1;EEF2,downstream_gene_variant,,ENST00000600720,;EEF2,upstream_gene_variant,,ENST00000598182,;EEF2,downstream_gene_variant,,ENST00000594885,;EEF2,upstream_gene_variant,,ENST00000598436,;EEF2,upstream_gene_variant,,ENST00000596417,;"	"C"	"ENSG00000167658"	"ENST00000309311"	"Transcript"	"missense_variant"	"663/3164"	"574/2577"	"192/858"	"Y/D"	"Tac/Gac"	""	"1"	NA	-1	"EEF2"	"HGNC"	3214	"protein_coding"	"YES"	"CCDS12117.1"	"ENSP00000307940"	"P13639"	"Q8TA90,B4DMC6"	"UPI00001649F3"	"NM_001961.3"	"deleterious(0)"	"probably_damaging(0.999)"	"4/15"	""	"hmmpanther:PTHR23115:SF103,hmmpanther:PTHR23115,Gene3D:3.40.50.300,Pfam_domain:PF00009,Superfamily_domains:SSF52540"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAG"	"105b23d2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0545454545454545	"WGS"	FALSE
"5520"	"DNMT1"	1786	"mskcc.org"	"GRCh37"	"19"	10250743	10250743	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	""	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3737C>T"	"p.Ser1246Phe"	"p.S1246F"	"ENST00000340748"	"32/40"	93	"80"	13	71	"71"	0	"DNMT1,missense_variant,p.Ser1246Phe,ENST00000340748,;DNMT1,missense_variant,p.Ser1246Phe,ENST00000540357,NM_001379.2;DNMT1,missense_variant,p.Ser1262Phe,ENST00000359526,NM_001130823.1;DNMT1,intron_variant,,ENST00000589538,;DNMT1,downstream_gene_variant,,ENST00000593049,;DNMT1,upstream_gene_variant,,ENST00000591798,;DNMT1,missense_variant,p.Ser22Phe,ENST00000588913,;DNMT1,3_prime_UTR_variant,,ENST00000592705,;DNMT1,non_coding_transcript_exon_variant,,ENST00000586588,;DNMT1,non_coding_transcript_exon_variant,,ENST00000587197,;DNMT1,downstream_gene_variant,,ENST00000589351,;DNMT1,upstream_gene_variant,,ENST00000589294,;DNMT1,downstream_gene_variant,,ENST00000589091,;DNMT1,downstream_gene_variant,,ENST00000591239,;DNMT1,downstream_gene_variant,,ENST00000587604,;"	"A"	"ENSG00000130816"	"ENST00000340748"	"Transcript"	"missense_variant"	"3973/5408"	"3737/4851"	"1246/1616"	"S/F"	"tCt/tTt"	"COSM3528097"	"1"	NA	-1	"DNMT1"	"HGNC"	2976	"protein_coding"	""	"CCDS12228.1"	"ENSP00000345739"	"P26358"	"K7ERQ1,K7ENQ6,K7EKC3,B3KVA0"	"UPI0000129694"	""	"deleterious(0)"	"probably_damaging(1)"	"32/40"	""	"Superfamily_domains:SSF53335,PIRSF_domain:PIRSF037404,Pfam_domain:PF00145,Gene3D:3.40.50.150,hmmpanther:PTHR10629,hmmpanther:PTHR10629:SF11,PROSITE_profiles:PS51679"	""	""	""	NA	""	""	""	""	""	NA	"1"	NA	NA	NA	NA	NA	"MODERATE"	NA	"SNV"	NA	NA	"1"	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"105ec212-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.139784946236559	"WGS"	FALSE
"5521"	"PRKCG"	5582	"mskcc.org"	"GRCh37"	"19"	54401306	54401306	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	""	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1033C>T"	"p.Arg345Cys"	"p.R345C"	"ENST00000263431"	"10/18"	100	"78"	22	50	"50"	0	"PRKCG,missense_variant,p.Arg345Cys,ENST00000263431,NM_002739.3;PRKCG,missense_variant,p.Arg345Cys,ENST00000540413,;PRKCG,missense_variant,p.Arg232Cys,ENST00000542049,;PRKCG,synonymous_variant,p.=,ENST00000536044,;"	"T"	"ENSG00000126583"	"ENST00000263431"	"Transcript"	"missense_variant"	"1315/3133"	"1033/2094"	"345/697"	"R/C"	"Cgc/Tgc"	"COSM4081128,COSM4081129"	"1"	NA	1	"PRKCG"	"HGNC"	9402	"protein_coding"	"YES"	"CCDS12867.1"	"ENSP00000263431"	"P05129"	"M0R0Z4,M0R0I9,H7BZ60"	"UPI000000DC69"	"NM_002739.3"	"deleterious(0.01)"	"possibly_damaging(0.772)"	"10/18"	""	"PIRSF_domain:PIRSF000550,hmmpanther:PTHR24357,hmmpanther:PTHR24357:SF64"	""	""	""	NA	""	""	""	""	""	NA	"1,1"	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	"1,1"	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"10714dd8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.22	"WGS"	FALSE
"5522"	"NYAP2"	57624	"mskcc.org"	"GRCh37"	"2"	226447157	226447157	"+"	"Missense_Mutation"	"SNP"	"G"	"A"	"A"	""	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1024G>A"	"p.Ala342Thr"	"p.A342T"	"ENST00000272907"	"4/6"	39	"29"	10	31	"31"	0	"NYAP2,missense_variant,p.Ala342Thr,ENST00000272907,NM_020864.1;NYAP2,intron_variant,,ENST00000409269,;"	"A"	"ENSG00000144460"	"ENST00000272907"	"Transcript"	"missense_variant"	"1437/4828"	"1024/1962"	"342/653"	"A/T"	"Gcc/Acc"	"COSM3578340"	"1"	NA	1	"NYAP2"	"HGNC"	29291	"protein_coding"	"YES"	"CCDS46529.1"	"ENSP00000272907"	"Q9P242"	""	"UPI00001C1DB6"	"NM_020864.1"	"tolerated(0.47)"	"benign(0.316)"	"4/6"	""	"Pfam_domain:PF15439,hmmpanther:PTHR22633"	""	""	""	NA	""	""	""	""	""	NA	"1"	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	"1"	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"10b095ec-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheSNP99.90to99.95"	"TRUE"	0.256410256410256	"WGS"	FALSE
"5523"	"OTOR"	56914	"mskcc.org"	"GRCh37"	"20"	16729560	16729560	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.164G>T"	"p.Cys55Phe"	"p.C55F"	"ENST00000246081"	"2/4"	85	"75"	10	48	"48"	0	"OTOR,missense_variant,p.Cys55Phe,ENST00000246081,NM_020157.3;OTOR,upstream_gene_variant,,ENST00000486129,;OTOR,upstream_gene_variant,,ENST00000490148,;"	"T"	"ENSG00000125879"	"ENST00000246081"	"Transcript"	"missense_variant"	"208/1477"	"164/387"	"55/128"	"C/F"	"tGt/tTt"	""	"1"	NA	1	"OTOR"	"HGNC"	8517	"protein_coding"	"YES"	"CCDS13124.1"	"ENSP00000246081"	"Q9NRC9"	""	"UPI0000047809"	"NM_020157.3"	"deleterious(0)"	"probably_damaging(0.995)"	"2/4"	""	"hmmpanther:PTHR23158,Gene3D:2.30.30.40,Pfam_domain:PF07653,SMART_domains:SM00326,Superfamily_domains:SSF50044"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"10b9ac72-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.117647058823529	"WGS"	FALSE
"5524"	"SMARCB1"	6598	"mskcc.org"	"GRCh37"	"22"	24129455	24129455	"+"	"Splice_Region"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.93+6C>T"	""	""	"ENST00000263121"	""	100	"85"	15	60	"60"	0	"SMARCB1,splice_region_variant,,ENST00000344921,;SMARCB1,splice_region_variant,,ENST00000263121,NM_003073.3;SMARCB1,splice_region_variant,,ENST00000407422,NM_001007468.1;SMARCB1,splice_region_variant,,ENST00000407082,;SMARCB1,splice_region_variant,,ENST00000417137,;MMP11,downstream_gene_variant,,ENST00000215743,NM_005940.3;AP000349.1,upstream_gene_variant,,ENST00000598975,;MMP11,downstream_gene_variant,,ENST00000488363,;MMP11,downstream_gene_variant,,ENST00000480185,;MMP11,downstream_gene_variant,,ENST00000465385,;MMP11,downstream_gene_variant,,ENST00000437086,;MMP11,downstream_gene_variant,,ENST00000434318,;MMP11,downstream_gene_variant,,ENST00000493132,;"	"T"	"ENSG00000099956"	"ENST00000263121"	"Transcript"	"splice_region_variant,intron_variant"	"-/1690"	"-/1158"	"-/385"	""	""	""	"1"	NA	1	"SMARCB1"	"HGNC"	11103	"protein_coding"	"YES"	"CCDS13817.1"	"ENSP00000263121"	"Q12824"	""	"UPI00000019FA"	"NM_003073.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"10f3d730-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.15	"WGS"	TRUE
"5525"	"MUC4"	4585	"mskcc.org"	"GRCh37"	"3"	195507713	195507713	"+"	"Missense_Mutation"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.10738G>A"	"p.Gly3580Ser"	"p.G3580S"	"ENST00000463781"	"2/25"	17	"12"	5	7	"7"	0	"MUC4,missense_variant,p.Gly3580Ser,ENST00000463781,NM_018406.6;MUC4,missense_variant,p.Gly3580Ser,ENST00000475231,;MUC4,intron_variant,,ENST00000346145,NM_004532.5;MUC4,intron_variant,,ENST00000349607,NM_138297.4;MUC4,missense_variant,p.Gly3580Ser,ENST00000478156,;MUC4,missense_variant,p.Gly3580Ser,ENST00000466475,;MUC4,missense_variant,p.Gly3580Ser,ENST00000477756,;MUC4,missense_variant,p.Gly3580Ser,ENST00000477086,;MUC4,missense_variant,p.Gly3580Ser,ENST00000480843,;MUC4,missense_variant,p.Gly3580Ser,ENST00000462323,;MUC4,missense_variant,p.Gly3580Ser,ENST00000470451,;MUC4,missense_variant,p.Gly3580Ser,ENST00000479406,;MUC4,upstream_gene_variant,,ENST00000448861,;MUC4,upstream_gene_variant,,ENST00000308466,;MUC4,upstream_gene_variant,,ENST00000339251,;MUC4,upstream_gene_variant,,ENST00000415455,;MUC4,upstream_gene_variant,,ENST00000392407,;"	"T"	"ENSG00000145113"	"ENST00000463781"	"Transcript"	"missense_variant"	"11198/17110"	"10738/16239"	"3580/5412"	"G/S"	"Ggt/Agt"	""	"1"	NA	-1	"MUC4"	"HGNC"	7514	"protein_coding"	"YES"	"CCDS54700.1"	"ENSP00000417498"	""	"O75456,E9PDY6"	"UPI0001B3CB30"	"NM_018406.6"	""	"possibly_damaging(0.889)"	"2/25"	""	"hmmpanther:PTHR13802,hmmpanther:PTHR13802:SF41"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"11332476-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.294117647058824	"WGS"	FALSE
"5526"	"MUC4"	4585	"mskcc.org"	"GRCh37"	"3"	195515065	195515065	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	"rs74695299"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3386C>T"	"p.Ala1129Val"	"p.A1129V"	"ENST00000463781"	"2/25"	19	"14"	5	8	"8"	0	"MUC4,missense_variant,p.Ala1129Val,ENST00000463781,NM_018406.6;MUC4,missense_variant,p.Ala1129Val,ENST00000475231,;MUC4,intron_variant,,ENST00000346145,NM_004532.5;MUC4,intron_variant,,ENST00000349607,NM_138297.4;MUC4,missense_variant,p.Ala1129Val,ENST00000478156,;MUC4,missense_variant,p.Ala1129Val,ENST00000466475,;MUC4,missense_variant,p.Ala1129Val,ENST00000477756,;MUC4,missense_variant,p.Ala1129Val,ENST00000477086,;MUC4,missense_variant,p.Ala1129Val,ENST00000480843,;MUC4,missense_variant,p.Ala1129Val,ENST00000462323,;MUC4,missense_variant,p.Ala1129Val,ENST00000470451,;MUC4,missense_variant,p.Ala1129Val,ENST00000479406,;"	"A"	"ENSG00000145113"	"ENST00000463781"	"Transcript"	"missense_variant"	"3846/17110"	"3386/16239"	"1129/5412"	"A/V"	"gCa/gTa"	"rs74695299,COSM226541,COSM226542"	"1"	NA	-1	"MUC4"	"HGNC"	7514	"protein_coding"	"YES"	"CCDS54700.1"	"ENSP00000417498"	""	"O75456,E9PDY6"	"UPI0001B3CB30"	"NM_018406.6"	""	"unknown(0)"	"2/25"	""	"hmmpanther:PTHR13802,hmmpanther:PTHR13802:SF41"	""	""	""	NA	""	""	""	""	""	NA	"0,1,1"	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	"0,1,1"	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"11334d3e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL99.00to99.50"	"TRUE"	0.263157894736842	"WGS"	FALSE
"5527"	"KIAA0825"	285600	"mskcc.org"	"GRCh37"	"5"	93800717	93800717	"+"	"Nonsense_Mutation"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1920G>A"	"p.Trp640Ter"	"p.W640*"	"ENST00000513200"	"10/20"	85	"71"	14	48	"48"	0	"KIAA0825,stop_gained,p.Trp640Ter,ENST00000513200,NM_001145678.1;KIAA0825,stop_gained,p.Trp640Ter,ENST00000427991,;KIAA0825,stop_gained,p.Trp640Ter,ENST00000312498,;KIAA0825,non_coding_transcript_exon_variant,,ENST00000504117,;"	"T"	"ENSG00000185261"	"ENST00000513200"	"Transcript"	"stop_gained"	"1993/4942"	"1920/3828"	"640/1275"	"W/*"	"tgG/tgA"	""	"1"	NA	-1	"KIAA0825"	"HGNC"	28532	"protein_coding"	""	""	"ENSP00000424618"	""	"C9J0Q2"	"UPI0001D3B505"	"NM_001145678.1"	""	""	"10/20"	""	"Pfam_domain:PF14906"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"HIGH"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"118d3be6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.164705882352941	"WGS"	FALSE
"5528"	"CCDC136"	64753	"mskcc.org"	"GRCh37"	"7"	128441354	128441354	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	"rs760764743"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.461G>A"	"p.Arg154Gln"	"p.R154Q"	"ENST00000297788"	"4/18"	95	"69"	26	45	"45"	0	"CCDC136,missense_variant,p.Arg154Gln,ENST00000297788,NM_022742.4;CCDC136,missense_variant,p.Arg31Gln,ENST00000494552,;CCDC136,missense_variant,p.Arg154Gln,ENST00000487361,;CCDC136,missense_variant,p.Arg204Gln,ENST00000464832,;CCDC136,missense_variant,p.Arg204Gln,ENST00000378685,NM_001201372.1;CCDC136,downstream_gene_variant,,ENST00000485998,;CCDC136,non_coding_transcript_exon_variant,,ENST00000480137,;CCDC136,upstream_gene_variant,,ENST00000528772,;"	"A"	"ENSG00000128596"	"ENST00000297788"	"Transcript"	"missense_variant"	"828/4169"	"461/3465"	"154/1154"	"R/Q"	"cGg/cAg"	"rs760764743"	"1"	NA	1	"CCDC136"	"HGNC"	22225	"protein_coding"	"YES"	"CCDS47704.1"	"ENSP00000297788"	"Q96JN2"	"C9JAD8,C9J884,C9IYI5"	"UPI0000E445DE"	"NM_022742.4"	"tolerated(0.14)"	"probably_damaging(1)"	"4/18"	""	"Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR18889:SF9,hmmpanther:PTHR18889"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	"1.891e-05"	"0"	"0"	"0"	"0"	"3.727e-05"	"0"	"0"	NA	"PASS"	"CGG"	"11e30e22-deaf-11e6-a4db-9a8e424a729f"	"."	1.922e-05	"2/104042"	"2/105792"	"0/8352"	"0/10996"	"0/7778"	"0/6580"	"2/53660"	"0/678"	"0/15998"	"PASS"	"TRUE"	0.273684210526316	"WGS"	FALSE
"5529"	"AKAP17A"	8227	"mskcc.org"	"GRCh37"	"X"	1718152	1718152	"+"	"Nonsense_Mutation"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.979C>T"	"p.Gln327Ter"	"p.Q327*"	"ENST00000313871"	"4/5"	126	"110"	16	54	"54"	0	"AKAP17A,stop_gained,p.Gln327Ter,ENST00000313871,NM_005088.2;AKAP17A,stop_gained,p.Gln327Ter,ENST00000381261,;AKAP17A,stop_gained,p.Gln327Ter,ENST00000474361,;"	"T"	"ENSG00000197976"	"ENST00000313871"	"Transcript"	"stop_gained"	"1175/3204"	"979/2088"	"327/695"	"Q/*"	"Cag/Tag"	""	"1"	NA	1	"AKAP17A"	"HGNC"	18783	"protein_coding"	"YES"	"CCDS14116.1"	"ENSP00000324827"	"Q02040"	""	"UPI00001AF072"	"NM_005088.2"	""	""	"4/5"	""	"Low_complexity_(Seg):seg,Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR12484:SF2,hmmpanther:PTHR12484"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"HIGH"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"123aecd2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.126984126984127	"WGS"	FALSE
"5530"	"RP11-432N13.3"	0	"mskcc.org"	"GRCh37"	"X"	134742838	134742838	"+"	"Splice_Region"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1001+4T>A"	""	""	"ENST00000442271"	""	88	"82"	6	52	"52"	0	"RP11-432N13.3,splice_region_variant,,ENST00000442271,;"	"A"	"ENSG00000224539"	"ENST00000442271"	"Transcript"	"splice_region_variant,intron_variant,non_coding_transcript_variant"	"-/3381"	""	""	""	""	""	"1"	NA	1	"RP11-432N13.3"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"8/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"1254505a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0681818181818182	"WGS"	FALSE
"5531"	"U82695.9"	100509091	"mskcc.org"	"GRCh37"	"X"	152752239	152752239	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"rs782251199"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349C>T"	"p.Pro117Ser"	"p.P117S"	"ENST00000428676"	"2/2"	103	"95"	8	55	"55"	0	"U82695.9,missense_variant,p.Pro117Ser,ENST00000428676,;HAUS7,intron_variant,,ENST00000421080,;HAUS7,intron_variant,,ENST00000370210,;"	"T"	"ENSG00000224963"	"ENST00000428676"	"Transcript"	"missense_variant"	"393/700"	"349/378"	"117/125"	"P/S"	"Ccc/Tcc"	"rs782251199"	"1"	NA	1	"U82695.9"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000398003"	""	"H7C119"	"UPI0000161ADB"	""	"deleterious(0)"	"probably_damaging(0.998)"	"2/2"	""	"hmmpanther:PTHR24371,hmmpanther:PTHR24371:SF53"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	"5.948e-05"	"0"	"0"	"0"	"0"	"0.0004454"	"0"	"0"	NA	"PASS"	"GCC"	"1257aeb2-deaf-11e6-a4db-9a8e424a729f"	"."	0.000123	"1/8131"	"1/16812"	"0/313"	"0/157"	"0/251"	"0/582"	"1/2245"	"0/83"	"0/4500"	"PASS"	"TRUE"	0.0776699029126214	"WGS"	FALSE
"5532"	"HCFC1"	3054	"mskcc.org"	"GRCh37"	"X"	153217971	153217971	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	""	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4936G>A"	"p.Val1646Ile"	"p.V1646I"	"ENST00000310441"	"19/26"	121	"93"	28	69	"69"	0	"HCFC1,missense_variant,p.Val1646Ile,ENST00000310441,NM_005334.2;HCFC1,missense_variant,p.Val1690Ile,ENST00000369984,;HCFC1,missense_variant,p.Val1577Ile,ENST00000354233,;HCFC1,missense_variant,p.Val221Ile,ENST00000444191,;"	"T"	"ENSG00000172534"	"ENST00000310441"	"Transcript"	"missense_variant"	"5903/8869"	"4936/6108"	"1646/2035"	"V/I"	"Gtc/Atc"	"COSM3694439,COSM3694438"	"1"	NA	-1	"HCFC1"	"HGNC"	4839	"protein_coding"	"YES"	"CCDS44020.1"	"ENSP00000309555"	"P51610"	"Q05C05"	"UPI0000142F1F"	"NM_005334.2"	"deleterious_low_confidence(0.01)"	"possibly_damaging(0.854)"	"19/26"	""	"hmmpanther:PTHR23244,hmmpanther:PTHR23244:SF266,Low_complexity_(Seg):seg"	""	""	""	NA	""	""	""	""	""	NA	"1,1"	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	"1,1"	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"1257de46-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.231404958677686	"WGS"	FALSE
"5533"	"KIAA2026"	158358	"mskcc.org"	"GRCh37"	"9"	5922117	5922117	"+"	"Frame_Shift_Del"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3879delA"	"p.Val1294TyrfsTer43"	"p.V1294Yfs*43"	"ENST00000399933"	"8/8"	95	"."	11	50	"."	0	"KIAA2026,frameshift_variant,p.Val1294TyrfsTer43,ENST00000399933,NM_001017969.2;KIAA2026,frameshift_variant,p.Val1264TyrfsTer43,ENST00000381461,;KIAA2026,3_prime_UTR_variant,,ENST00000540714,;KIAA2026,upstream_gene_variant,,ENST00000436015,;"	"-"	"ENSG00000183354"	"ENST00000399933"	"Transcript"	"frameshift_variant"	"3879/6988"	"3879/6312"	"1293/2103"	"K/X"	"aaA/aa"	""	"1"	NA	-1	"KIAA2026"	"HGNC"	23378	"protein_coding"	"YES"	""	"ENSP00000382815"	"Q5HYC2"	""	"UPI0001533DB0"	"NM_001017969.2"	NA	NA	"8/8"	""	"hmmpanther:PTHR31095:SF2,hmmpanther:PTHR31095"	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"HIGH"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTT"	"56ed0934-a99c-11e6-ba7f-e02bfcec48f2"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"TRUE"	0.115789473684211	"WGS"	FALSE
"5534"	"RP11-617O8.1"	0	"mskcc.org"	"GRCh37"	"X"	26363159	26366299	"+"	"Splice_Site"	"DEL"	"CCAGGCACTGTTTTTGGTAGGGGACTACAGTATTGAAGAAAACCAACAAAAGGACTAACTTAATGAACTATATAGATTCTTTGGAGCACTCTGAAAAATGCAAATAAAAATATTTTTAAAATCTATTATGTTAGTAATGGAGCAATAGAAGTACCAGCACATTTGAGAGCTTGCAAAAACAGTTGGCAAGGAAAATAAAGTCCCCTGATTTTGTAATAGGTACATTTACAATGAAAACATTCTGTGAGAATCCTGATTCTATGTGATTCCTAGACAATGAATTGGATAAAAACATGTATCAAAAAACATAAGGGAAATGGACCTTTCTGAAACTACTCTTATTATAAAACTGCACCCAACAGACAGCTTTCCACAAAATTCCTGCTTTGAAAAAGGAAGGCTGCTTTGAAAGAGGTTTATGATGACAAGCAGAATCACTCTCTGAGGCCACACTACACTGACTTCTGCAGGTGTGCTATTTCATGAAATAAACATTGTGATTCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTAGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAACATTGTGATTAACACACTAATCTTTGTCAGTCTGAGGGAGAACCTCGACTTGTTTCTGTTCCAGCCATCCCTAGGTGACACAAAGGTCCAGGACATTGATCCTTGGGTAGACACTCAAATGTTCCTTATCAGACTCAGTGATACTTACAAAAAGACATTTCTCAAATCCTGAAAGTAAACATGTGGAATCTGCTGCAAGTAGAAAACAAAGAGGGAATGTGTTTATTTTACCTCTTAAAGGAGGACCTGTTTGGCAAACTGAAGGCTTTGTGGCTGTAGAATTGTTACATGATTTGCATATACTTTTCCTAACAATGGAGAAGAAAAAACAATACTTGCCCTTCAGTGCACTTGTCAAGAAGGAAGACTGGATATTTTACCAAGTTATGCCATAATTGTTTGGAATTAGGATTTGTGCTTCTATTGTCTAGAGAGAACTTTCATTCTCTGAAGGTGGTTGGGTTGAGATTCTGCTACAGTTAATGGCTAAATGCTCTCAACATTAAAAATAAAAATAAGGGGATACCTTTAGTAAACATGCACTGCATTTACTTAATCTTTACATTGCACATGGAAAAATGAAGGTATGGTAATGAATTCAAACTAATTACCTAATGGTGTTTTGGCTATAATTTTGAGTATATTAAAAATGTAAGTAGTCAGCAACAAAAATAAAATTGTTCCTTTTTTGATTGTGACTACCTATCAGAGAATGAGAAATATGTTCATGAGTATATCATGGTATATTAGCAGCCATTAGAAGGATCTGATAGAAAATGTGGAAATCTAGAAATTATTTCATGATATAGTAAGAAACAGAAGTAGAATATAAAGTGTAATCAGCATTGGGTTACAACTTTATATGAACTCATATGCACAGGGACAGGGCATGAAGATTGAAAAGTGAGAGTTGATATTTTAGAGAAGTCTTTCCTTTACAGTTATATCCATGTACAATAACTAACCATCAGAACAAAACCCATACAATTAAAAAAATAGAGTGAGTGTATTTGGCTACTTCCTGTGGTAGTAACATTAAACATTAAATTAATGTGAGTTCTTTATCCTTTTCCTGGTATGTGGCAAGAGTGAAAACTTACCATGAGTGTCTTGTGGGTCTTAGTTAATGAAATGGACTTTAATACACTAAAAAAGGAATATGTCCAAAAAACATATTTAATATGTGGTTCTGTCTGTTTCTAGCTTTACAATCTTTTGGCCCTAAATACTTATCTTAAGCTTTTTCATACTTAGCTAATACTCAGAAAATGCAGAGGATATCAATGTCTGGCCTATTAAACAGGCACATTTGTGGTGATGACTAGATGACAAAATAATGCACTTGTAAACTGTGCAATTTCAAAATGATATTTTCTATTTTACAATCTGGACAAAATCTCTTGCCAGGATCCTTGTGCCACAGCACACCTGATCAACATGTTTTCATGCGCAATTTGTTTTGGCTTCTCGTCAGTAGGAAAAAGCTAGGTTCTAGATTGTGTGCAATTTCCAATACTAACTTGAGTTCAGCTGTTCTCTTTCACATATCTAGCGATCACTAACTCTGTTACTGAGAACAGCTGCCCTAGACCAGTATTTTCCCACCAGATGAATTCAGCTGCTTCTTTGAACACACTCAGTTCCCCTTTTCTCTCTTTCTTGCTTGTTTTCCAATAGTTACGCACACTCCTGTAATGTTAACTTAAAATGTCCTTAACTGCTACCATCAGGGTAAAAAAGCATATAATGGAGGCCATACCCTTTGACACACATTATATCTACATATTTTGTTAAACATTTATTTAACAAAAATTTTCTGCCACATCCTTCTTTGAATCCCGGGCCAGGTTTTGGAGCAGCTCTGTGGTGAAGGGGCCTAGCTGGTCCTACAGCCACTCATATAATTAAAAATGGAGCTGATGAGAGACAAACACACATTCTAGTTTGTCTTCATTTCTTCCAAATTGTCCTCACAGGTTTCAGTTTTTCCTTGTGAATTGTAGTTTTTCTTATAAGTTCCGGTTTGCCTTTGTTCCCTCCCATTTCAAGCCCATCTTTCCTTCTTGACTATTGGTCTTGCTAACTTTAGGCACATCACCAGAAGCAGGAGTCTTACACAGACTGTTTAACCAGCTTCCACACTTGCAGAACACATAAGACCAGAATAGATCCCTTGTGCCACAACACTCCTAGGGGTTCTGCTTGTCTGATTAAGCTTTGACTCATACATTATGTGTGGTCACTAGCTTCTAAGATGGTCCCCAATGGCACTCACCTCTTGGTAGTCACACCCTATGTATTCCCCTTCCATGTTGCTTCAGAATCAATTTGTCTACCATA"	"CCAGGCACTGTTTTTGGTAGGGGACTACAGTATTGAAGAAAACCAACAAAAGGACTAACTTAATGAACTATATAGATTCTTTGGAGCACTCTGAAAAATGCAAATAAAAATATTTTTAAAATCTATTATGTTAGTAATGGAGCAATAGAAGTACCAGCACATTTGAGAGCTTGCAAAAACAGTTGGCAAGGAAAATAAAGTCCCCTGATTTTGTAATAGGTACATTTACAATGAAAACATTCTGTGAGAATCCTGATTCTATGTGATTCCTAGACAATGAATTGGATAAAAACATGTATCAAAAAACATAAGGGAAATGGACCTTTCTGAAACTACTCTTATTATAAAACTGCACCCAACAGACAGCTTTCCACAAAATTCCTGCTTTGAAAAAGGAAGGCTGCTTTGAAAGAGGTTTATGATGACAAGCAGAATCACTCTCTGAGGCCACACTACACTGACTTCTGCAGGTGTGCTATTTCATGAAATAAACATTGTGATTCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTAGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAACATTGTGATTAACACACTAATCTTTGTCAGTCTGAGGGAGAACCTCGACTTGTTTCTGTTCCAGCCATCCCTAGGTGACACAAAGGTCCAGGACATTGATCCTTGGGTAGACACTCAAATGTTCCTTATCAGACTCAGTGATACTTACAAAAAGACATTTCTCAAATCCTGAAAGTAAACATGTGGAATCTGCTGCAAGTAGAAAACAAAGAGGGAATGTGTTTATTTTACCTCTTAAAGGAGGACCTGTTTGGCAAACTGAAGGCTTTGTGGCTGTAGAATTGTTACATGATTTGCATATACTTTTCCTAACAATGGAGAAGAAAAAACAATACTTGCCCTTCAGTGCACTTGTCAAGAAGGAAGACTGGATATTTTACCAAGTTATGCCATAATTGTTTGGAATTAGGATTTGTGCTTCTATTGTCTAGAGAGAACTTTCATTCTCTGAAGGTGGTTGGGTTGAGATTCTGCTACAGTTAATGGCTAAATGCTCTCAACATTAAAAATAAAAATAAGGGGATACCTTTAGTAAACATGCACTGCATTTACTTAATCTTTACATTGCACATGGAAAAATGAAGGTATGGTAATGAATTCAAACTAATTACCTAATGGTGTTTTGGCTATAATTTTGAGTATATTAAAAATGTAAGTAGTCAGCAACAAAAATAAAATTGTTCCTTTTTTGATTGTGACTACCTATCAGAGAATGAGAAATATGTTCATGAGTATATCATGGTATATTAGCAGCCATTAGAAGGATCTGATAGAAAATGTGGAAATCTAGAAATTATTTCATGATATAGTAAGAAACAGAAGTAGAATATAAAGTGTAATCAGCATTGGGTTACAACTTTATATGAACTCATATGCACAGGGACAGGGCATGAAGATTGAAAAGTGAGAGTTGATATTTTAGAGAAGTCTTTCCTTTACAGTTATATCCATGTACAATAACTAACCATCAGAACAAAACCCATACAATTAAAAAAATAGAGTGAGTGTATTTGGCTACTTCCTGTGGTAGTAACATTAAACATTAAATTAATGTGAGTTCTTTATCCTTTTCCTGGTATGTGGCAAGAGTGAAAACTTACCATGAGTGTCTTGTGGGTCTTAGTTAATGAAATGGACTTTAATACACTAAAAAAGGAATATGTCCAAAAAACATATTTAATATGTGGTTCTGTCTGTTTCTAGCTTTACAATCTTTTGGCCCTAAATACTTATCTTAAGCTTTTTCATACTTAGCTAATACTCAGAAAATGCAGAGGATATCAATGTCTGGCCTATTAAACAGGCACATTTGTGGTGATGACTAGATGACAAAATAATGCACTTGTAAACTGTGCAATTTCAAAATGATATTTTCTATTTTACAATCTGGACAAAATCTCTTGCCAGGATCCTTGTGCCACAGCACACCTGATCAACATGTTTTCATGCGCAATTTGTTTTGGCTTCTCGTCAGTAGGAAAAAGCTAGGTTCTAGATTGTGTGCAATTTCCAATACTAACTTGAGTTCAGCTGTTCTCTTTCACATATCTAGCGATCACTAACTCTGTTACTGAGAACAGCTGCCCTAGACCAGTATTTTCCCACCAGATGAATTCAGCTGCTTCTTTGAACACACTCAGTTCCCCTTTTCTCTCTTTCTTGCTTGTTTTCCAATAGTTACGCACACTCCTGTAATGTTAACTTAAAATGTCCTTAACTGCTACCATCAGGGTAAAAAAGCATATAATGGAGGCCATACCCTTTGACACACATTATATCTACATATTTTGTTAAACATTTATTTAACAAAAATTTTCTGCCACATCCTTCTTTGAATCCCGGGCCAGGTTTTGGAGCAGCTCTGTGGTGAAGGGGCCTAGCTGGTCCTACAGCCACTCATATAATTAAAAATGGAGCTGATGAGAGACAAACACACATTCTAGTTTGTCTTCATTTCTTCCAAATTGTCCTCACAGGTTTCAGTTTTTCCTTGTGAATTGTAGTTTTTCTTATAAGTTCCGGTTTGCCTTTGTTCCCTCCCATTTCAAGCCCATCTTTCCTTCTTGACTATTGGTCTTGCTAACTTTAGGCACATCACCAGAAGCAGGAGTCTTACACAGACTGTTTAACCAGCTTCCACACTTGCAGAACACATAAGACCAGAATAGATCCCTTGTGCCACAACACTCCTAGGGGTTCTGCTTGTCTGATTAAGCTTTGACTCATACATTATGTGTGGTCACTAGCTTCTAAGATGGTCCCCAATGGCACTCACCTCTTGGTAGTCACACCCTATGTATTCCCCTTCCATGTTGCTTCAGAATCAATTTGTCTACCATA"	"TTGCTTT"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CCAGGCACTGTTTTTGGTAGGGGACTACAGTATTGAAGAAAACCAACAAAAGGACTAACTTAATGAACTATATAGATTCTTTGGAGCACTCTGAAAAATGCAAATAAAAATATTTTTAAAATCTATTATGTTAGTAATGGAGCAATAGAAGTACCAGCACATTTGAGAGCTTGCAAAAACAGTTGGCAAGGAAAATAAAGTCCCCTGATTTTGTAATAGGTACATTTACAATGAAAACATTCTGTGAGAATCCTGATTCTATGTGATTCCTAGACAATGAATTGGATAAAAACATGTATCAAAAAACATAAGGGAAATGGACCTTTCTGAAACTACTCTTATTATAAAACTGCACCCAACAGACAGCTTTCCACAAAATTCCTGCTTTGAAAAAGGAAGGCTGCTTTGAAAGAGGTTTATGATGACAAGCAGAATCACTCTCTGAGGCCACACTACACTGACTTCTGCAGGTGTGCTATTTCATGAAATAAACATTGTGATTCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTAGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAACATTGTGATTAACACACTAATCTTTGTCAGTCTGAGGGAGAACCTCGACTTGTTTCTGTTCCAGCCATCCCTAGGTGACACAAAGGTCCAGGACATTGATCCTTGGGTAGACACTCAAATGTTCCTTATCAGACTCAGTGATACTTACAAAAAGACATTTCTCAAATCCTGAAAGTAAACATGTGGAATCTGCTGCAAGTAGAAAACAAAGAGGGAATGTGTTTATTTTACCTCTTAAAGGAGGACCTGTTTGGCAAACTGAAGGCTTTGTGGCTGTAGAATTGTTACATGATTTGCATATACTTTTCCTAACAATGGAGAAGAAAAAACAATACTTGCCCTTCAGTGCACTTGTCAAGAAGGAAGACTGGATATTTTACCAAGTTATGCCATAATTGTTTGGAATTAGGATTTGTGCTTCTATTGTCTAGAGAGAACTTTCATTCTCTGAAGGTGGTTGGGTTGAGATTCTGCTACAGTTAATGGCTAAATGCTCTCAACATTAAAAATAAAAATAAGGGGATACCTTTAGTAAACATGCACTGCATTTACTTAATCTTTACATTGCACATGGAAAAATGAAGGTATGGTAATGAATTCAAACTAATTACCTAATGGTGTTTTGGCTATAATTTTGAGTATATTAAAAATGTAAGTAGTCAGCAACAAAAATAAAATTGTTCCTTTTTTGATTGTGACTACCTATCAGAGAATGAGAAATATGTTCATGAGTATATCATGGTATATTAGCAGCCATTAGAAGGATCTGATAGAAAATGTGGAAATCTAGAAATTATTTCATGATATAGTAAGAAACAGAAGTAGAATATAAAGTGTAATCAGCATTGGGTTACAACTTTATATGAACTCATATGCACAGGGACAGGGCATGAAGATTGAAAAGTGAGAGTTGATATTTTAGAGAAGTCTTTCCTTTACAGTTATATCCATGTACAATAACTAACCATCAGAACAAAACCCATACAATTAAAAAAATAGAGTGAGTGTATTTGGCTACTTCCTGTGGTAGTAACATTAAACATTAAATTAATGTGAGTTCTTTATCCTTTTCCTGGTATGTGGCAAGAGTGAAAACTTACCATGAGTGTCTTGTGGGTCTTAGTTAATGAAATGGACTTTAATACACTAAAAAAGGAATATGTCCAAAAAACATATTTAATATGTGGTTCTGTCTGTTTCTAGCTTTACAATCTTTTGGCCCTAAATACTTATCTTAAGCTTTTTCATACTTAGCTAATACTCAGAAAATGCAGAGGATATCAATGTCTGGCCTATTAAACAGGCACATTTGTGGTGATGACTAGATGACAAAATAATGCACTTGTAAACTGTGCAATTTCAAAATGATATTTTCTATTTTACAATCTGGACAAAATCTCTTGCCAGGATCCTTGTGCCACAGCACACCTGATCAACATGTTTTCATGCGCAATTTGTTTTGGCTTCTCGTCAGTAGGAAAAAGCTAGGTTCTAGATTGTGTGCAATTTCCAATACTAACTTGAGTTCAGCTGTTCTCTTTCACATATCTAGCGATCACTAACTCTGTTACTGAGAACAGCTGCCCTAGACCAGTATTTTCCCACCAGATGAATTCAGCTGCTTCTTTGAACACACTCAGTTCCCCTTTTCTCTCTTTCTTGCTTGTTTTCCAATAGTTACGCACACTCCTGTAATGTTAACTTAAAATGTCCTTAACTGCTACCATCAGGGTAAAAAAGCATATAATGGAGGCCATACCCTTTGACACACATTATATCTACATATTTTGTTAAACATTTATTTAACAAAAATTTTCTGCCACATCCTTCTTTGAATCCCGGGCCAGGTTTTGGAGCAGCTCTGTGGTGAAGGGGCCTAGCTGGTCCTACAGCCACTCATATAATTAAAAATGGAGCTGATGAGAGACAAACACACATTCTAGTTTGTCTTCATTTCTTCCAAATTGTCCTCACAGGTTTCAGTTTTTCCTTGTGAATTGTAGTTTTTCTTATAAGTTCCGGTTTGCCTTTGTTCCCTCCCATTTCAAGCCCATCTTTCCTTCTTGACTATTGGTCTTGCTAACTTTAGGCACATCACCAGAAGCAGGAGTCTTACACAGACTGTTTAACCAGCTTCCACACTTGCAGAACACATAAGACCAGAATAGATCCCTTGTGCCACAACACTCCTAGGGGTTCTGCTTGTCTGATTAAGCTTTGACTCATACATTATGTGTGGTCACTAGCTTCTAAGATGGTCCCCAATGGCACTCACCTCTTGGTAGTCACACCCTATGTATTCCCCTTCCATGTTGCTTCAGAATCAATTTGTCTACCATA"	"CCAGGCACTGTTTTTGGTAGGGGACTACAGTATTGAAGAAAACCAACAAAAGGACTAACTTAATGAACTATATAGATTCTTTGGAGCACTCTGAAAAATGCAAATAAAAATATTTTTAAAATCTATTATGTTAGTAATGGAGCAATAGAAGTACCAGCACATTTGAGAGCTTGCAAAAACAGTTGGCAAGGAAAATAAAGTCCCCTGATTTTGTAATAGGTACATTTACAATGAAAACATTCTGTGAGAATCCTGATTCTATGTGATTCCTAGACAATGAATTGGATAAAAACATGTATCAAAAAACATAAGGGAAATGGACCTTTCTGAAACTACTCTTATTATAAAACTGCACCCAACAGACAGCTTTCCACAAAATTCCTGCTTTGAAAAAGGAAGGCTGCTTTGAAAGAGGTTTATGATGACAAGCAGAATCACTCTCTGAGGCCACACTACACTGACTTCTGCAGGTGTGCTATTTCATGAAATAAACATTGTGATTCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTAGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAACATTGTGATTAACACACTAATCTTTGTCAGTCTGAGGGAGAACCTCGACTTGTTTCTGTTCCAGCCATCCCTAGGTGACACAAAGGTCCAGGACATTGATCCTTGGGTAGACACTCAAATGTTCCTTATCAGACTCAGTGATACTTACAAAAAGACATTTCTCAAATCCTGAAAGTAAACATGTGGAATCTGCTGCAAGTAGAAAACAAAGAGGGAATGTGTTTATTTTACCTCTTAAAGGAGGACCTGTTTGGCAAACTGAAGGCTTTGTGGCTGTAGAATTGTTACATGATTTGCATATACTTTTCCTAACAATGGAGAAGAAAAAACAATACTTGCCCTTCAGTGCACTTGTCAAGAAGGAAGACTGGATATTTTACCAAGTTATGCCATAATTGTTTGGAATTAGGATTTGTGCTTCTATTGTCTAGAGAGAACTTTCATTCTCTGAAGGTGGTTGGGTTGAGATTCTGCTACAGTTAATGGCTAAATGCTCTCAACATTAAAAATAAAAATAAGGGGATACCTTTAGTAAACATGCACTGCATTTACTTAATCTTTACATTGCACATGGAAAAATGAAGGTATGGTAATGAATTCAAACTAATTACCTAATGGTGTTTTGGCTATAATTTTGAGTATATTAAAAATGTAAGTAGTCAGCAACAAAAATAAAATTGTTCCTTTTTTGATTGTGACTACCTATCAGAGAATGAGAAATATGTTCATGAGTATATCATGGTATATTAGCAGCCATTAGAAGGATCTGATAGAAAATGTGGAAATCTAGAAATTATTTCATGATATAGTAAGAAACAGAAGTAGAATATAAAGTGTAATCAGCATTGGGTTACAACTTTATATGAACTCATATGCACAGGGACAGGGCATGAAGATTGAAAAGTGAGAGTTGATATTTTAGAGAAGTCTTTCCTTTACAGTTATATCCATGTACAATAACTAACCATCAGAACAAAACCCATACAATTAAAAAAATAGAGTGAGTGTATTTGGCTACTTCCTGTGGTAGTAACATTAAACATTAAATTAATGTGAGTTCTTTATCCTTTTCCTGGTATGTGGCAAGAGTGAAAACTTACCATGAGTGTCTTGTGGGTCTTAGTTAATGAAATGGACTTTAATACACTAAAAAAGGAATATGTCCAAAAAACATATTTAATATGTGGTTCTGTCTGTTTCTAGCTTTACAATCTTTTGGCCCTAAATACTTATCTTAAGCTTTTTCATACTTAGCTAATACTCAGAAAATGCAGAGGATATCAATGTCTGGCCTATTAAACAGGCACATTTGTGGTGATGACTAGATGACAAAATAATGCACTTGTAAACTGTGCAATTTCAAAATGATATTTTCTATTTTACAATCTGGACAAAATCTCTTGCCAGGATCCTTGTGCCACAGCACACCTGATCAACATGTTTTCATGCGCAATTTGTTTTGGCTTCTCGTCAGTAGGAAAAAGCTAGGTTCTAGATTGTGTGCAATTTCCAATACTAACTTGAGTTCAGCTGTTCTCTTTCACATATCTAGCGATCACTAACTCTGTTACTGAGAACAGCTGCCCTAGACCAGTATTTTCCCACCAGATGAATTCAGCTGCTTCTTTGAACACACTCAGTTCCCCTTTTCTCTCTTTCTTGCTTGTTTTCCAATAGTTACGCACACTCCTGTAATGTTAACTTAAAATGTCCTTAACTGCTACCATCAGGGTAAAAAAGCATATAATGGAGGCCATACCCTTTGACACACATTATATCTACATATTTTGTTAAACATTTATTTAACAAAAATTTTCTGCCACATCCTTCTTTGAATCCCGGGCCAGGTTTTGGAGCAGCTCTGTGGTGAAGGGGCCTAGCTGGTCCTACAGCCACTCATATAATTAAAAATGGAGCTGATGAGAGACAAACACACATTCTAGTTTGTCTTCATTTCTTCCAAATTGTCCTCACAGGTTTCAGTTTTTCCTTGTGAATTGTAGTTTTTCTTATAAGTTCCGGTTTGCCTTTGTTCCCTCCCATTTCAAGCCCATCTTTCCTTCTTGACTATTGGTCTTGCTAACTTTAGGCACATCACCAGAAGCAGGAGTCTTACACAGACTGTTTAACCAGCTTCCACACTTGCAGAACACATAAGACCAGAATAGATCCCTTGTGCCACAACACTCCTAGGGGTTCTGCTTGTCTGATTAAGCTTTGACTCATACATTATGTGTGGTCACTAGCTTCTAAGATGGTCCCCAATGGCACTCACCTCTTGGTAGTCACACCCTATGTATTCCCCTTCCATGTTGCTTCAGAATCAATTTGTCTACCATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000438690"	"1-2/2"	85	"."	25	45	"."	0	"RP11-617O8.1,transcript_ablation,,ENST00000438690,;"	"TTGCTTT"	"ENSG00000228464"	"ENST00000438690"	"Transcript"	"transcript_ablation"	"-/650"	""	""	""	""	""	"1"	NA	1	"RP11-617O8.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1-2/2"	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"HIGH"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCCAGGCACTGTTTTTGGTAGGGGACTACAGTATTGAAGAAAACCAACAAAAGGACTAACTTAATGAACTATATAGATTCTTTGGAGCACTCTGAAAAATGCAAATAAAAATATTTTTAAAATCTATTATGTTAGTAATGGAGCAATAGAAGTACCAGCACATTTGAGAGCTTGCAAAAACAGTTGGCAAGGAAAATAAAGTCCCCTGATTTTGTAATAGGTACATTTACAATGAAAACATTCTGTGAGAATCCTGATTCTATGTGATTCCTAGACAATGAATTGGATAAAAACATGTATCAAAAAACATAAGGGAAATGGACCTTTCTGAAACTACTCTTATTATAAAACTGCACCCAACAGACAGCTTTCCACAAAATTCCTGCTTTGAAAAAGGAAGGCTGCTTTGAAAGAGGTTTATGATGACAAGCAGAATCACTCTCTGAGGCCACACTACACTGACTTCTGCAGGTGTGCTATTTCATGAAATAAACATTGTGATTCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTAGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAACATTGTGATTAACACACTAATCTTTGTCAGTCTGAGGGAGAACCTCGACTTGTTTCTGTTCCAGCCATCCCTAGGTGACACAAAGGTCCAGGACATTGATCCTTGGGTAGACACTCAAATGTTCCTTATCAGACTCAGTGATACTTACAAAAAGACATTTCTCAAATCCTGAAAGTAAACATGTGGAATCTGCTGCAAGTAGAAAACAAAGAGGGAATGTGTTTATTTTACCTCTTAAAGGAGGACCTGTTTGGCAAACTGAAGGCTTTGTGGCTGTAGAATTGTTACATGATTTGCATATACTTTTCCTAACAATGGAGAAGAAAAAACAATACTTGCCCTTCAGTGCACTTGTCAAGAAGGAAGACTGGATATTTTACCAAGTTATGCCATAATTGTTTGGAATTAGGATTTGTGCTTCTATTGTCTAGAGAGAACTTTCATTCTCTGAAGGTGGTTGGGTTGAGATTCTGCTACAGTTAATGGCTAAATGCTCTCAACATTAAAAATAAAAATAAGGGGATACCTTTAGTAAACATGCACTGCATTTACTTAATCTTTACATTGCACATGGAAAAATGAAGGTATGGTAATGAATTCAAACTAATTACCTAATGGTGTTTTGGCTATAATTTTGAGTATATTAAAAATGTAAGTAGTCAGCAACAAAAATAAAATTGTTCCTTTTTTGATTGTGACTACCTATCAGAGAATGAGAAATATGTTCATGAGTATATCATGGTATATTAGCAGCCATTAGAAGGATCTGATAGAAAATGTGGAAATCTAGAAATTATTTCATGATATAGTAAGAAACAGAAGTAGAATATAAAGTGTAATCAGCATTGGGTTACAACTTTATATGAACTCATATGCACAGGGACAGGGCATGAAGATTGAAAAGTGAGAGTTGATATTTTAGAGAAGTCTTTCCTTTACAGTTATATCCATGTACAATAACTAACCATCAGAACAAAACCCATACAATTAAAAAAATAGAGTGAGTGTATTTGGCTACTTCCTGTGGTAGTAACATTAAACATTAAATTAATGTGAGTTCTTTATCCTTTTCCTGGTATGTGGCAAGAGTGAAAACTTACCATGAGTGTCTTGTGGGTCTTAGTTAATGAAATGGACTTTAATACACTAAAAAAGGAATATGTCCAAAAAACATATTTAATATGTGGTTCTGTCTGTTTCTAGCTTTACAATCTTTTGGCCCTAAATACTTATCTTAAGCTTTTTCATACTTAGCTAATACTCAGAAAATGCAGAGGATATCAATGTCTGGCCTATTAAACAGGCACATTTGTGGTGATGACTAGATGACAAAATAATGCACTTGTAAACTGTGCAATTTCAAAATGATATTTTCTATTTTACAATCTGGACAAAATCTCTTGCCAGGATCCTTGTGCCACAGCACACCTGATCAACATGTTTTCATGCGCAATTTGTTTTGGCTTCTCGTCAGTAGGAAAAAGCTAGGTTCTAGATTGTGTGCAATTTCCAATACTAACTTGAGTTCAGCTGTTCTCTTTCACATATCTAGCGATCACTAACTCTGTTACTGAGAACAGCTGCCCTAGACCAGTATTTTCCCACCAGATGAATTCAGCTGCTTCTTTGAACACACTCAGTTCCCCTTTTCTCTCTTTCTTGCTTGTTTTCCAATAGTTACGCACACTCCTGTAATGTTAACTTAAAATGTCCTTAACTGCTACCATCAGGGTAAAAAAGCATATAATGGAGGCCATACCCTTTGACACACATTATATCTACATATTTTGTTAAACATTTATTTAACAAAAATTTTCTGCCACATCCTTCTTTGAATCCCGGGCCAGGTTTTGGAGCAGCTCTGTGGTGAAGGGGCCTAGCTGGTCCTACAGCCACTCATATAATTAAAAATGGAGCTGATGAGAGACAAACACACATTCTAGTTTGTCTTCATTTCTTCCAAATTGTCCTCACAGGTTTCAGTTTTTCCTTGTGAATTGTAGTTTTTCTTATAAGTTCCGGTTTGCCTTTGTTCCCTCCCATTTCAAGCCCATCTTTCCTTCTTGACTATTGGTCTTGCTAACTTTAGGCACATCACCAGAAGCAGGAGTCTTACACAGACTGTTTAACCAGCTTCCACACTTGCAGAACACATAAGACCAGAATAGATCCCTTGTGCCACAACACTCCTAGGGGTTCTGCTTGTCTGATTAAGCTTTGACTCATACATTATGTGTGGTCACTAGCTTCTAAGATGGTCCCCAATGGCACTCACCTCTTGGTAGTCACACCCTATGTATTCCCCTTCCATGTTGCTTCAGAATCAATTTGTCTACCATAC"	"1731fd50-a9a0-11e6-9bbb-82109c5ef6fb"	"1500"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"TRUE"	0.294117647058824	"WGS"	FALSE
"5535"	"TCHH"	7062	"mskcc.org"	"GRCh37"	"1"	152082440	152082440	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3253G>C"	"p.Glu1085Gln"	"p.E1085Q"	"ENST00000368804"	"2/2"	92	"83"	9	32	"32"	0	"TCHH,missense_variant,p.Glu1085Gln,ENST00000368804,NM_007113.3;"	"G"	"ENSG00000159450"	"ENST00000368804"	"Transcript"	"missense_variant"	"3253/6900"	"3253/5832"	"1085/1943"	"E/Q"	"Gag/Cag"	""	"1"	NA	-1	"TCHH"	"HGNC"	11791	"protein_coding"	"YES"	"CCDS41396.1"	"ENSP00000357794"	"Q07283"	"Q5D861,A2RRS3"	"UPI0000458A5E"	"NM_007113.3"	""	"unknown(0)"	"2/2"	""	"Coiled-coils_(Ncoils):Coil,Low_complexity_(Seg):seg"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c15bf7c4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0978260869565217	"WGS"	FALSE
"5536"	"IL15RA"	3601	"mskcc.org"	"GRCh37"	"10"	5998378	5998378	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.656G>C"	"p.Ser219Thr"	"p.S219T"	"ENST00000379977"	"6/7"	97	"88"	9	54	"54"	0	"IL15RA,missense_variant,p.Ser183Thr,ENST00000525219,NM_001243539.1;IL15RA,missense_variant,p.Ser183Thr,ENST00000397248,NM_002189.3,NM_172200.2,NM_001256765.1;IL15RA,missense_variant,p.Ser219Thr,ENST00000379977,;IL15RA,missense_variant,p.Ser154Thr,ENST00000397251,;IL15RA,missense_variant,p.Ser186Thr,ENST00000528354,;IL15RA,missense_variant,p.Ser122Thr,ENST00000447291,;IL15RA,missense_variant,p.Ser150Thr,ENST00000397246,;IL15RA,missense_variant,p.Ser219Thr,ENST00000397255,;IL15RA,missense_variant,p.Ser161Thr,ENST00000532039,;IL15RA,missense_variant,p.Ser186Thr,ENST00000530685,;IL15RA,missense_variant,p.Ser92Thr,ENST00000435171,;IL15RA,missense_variant,p.Ser121Thr,ENST00000379971,;IL15RA,missense_variant,p.Ser121Thr,ENST00000397250,;IL15RA,downstream_gene_variant,,ENST00000453922,;IL15RA,downstream_gene_variant,,ENST00000429135,;IL15RA,non_coding_transcript_exon_variant,,ENST00000534292,;IL15RA,non_coding_transcript_exon_variant,,ENST00000379972,;IL15RA,non_coding_transcript_exon_variant,,ENST00000532948,;IL15RA,non_coding_transcript_exon_variant,,ENST00000379974,;"	"G"	"ENSG00000134470"	"ENST00000379977"	"Transcript"	"missense_variant"	"754/1626"	"656/804"	"219/267"	"S/T"	"aGc/aCc"	""	"1"	NA	-1	"IL15RA"	"HGNC"	5978	"protein_coding"	"YES"	"CCDS7074.1"	"ENSP00000369312"	"Q13261"	""	"UPI0000073D71"	""	"tolerated(0.62)"	"benign(0.007)"	"6/7"	""	"hmmpanther:PTHR15060,hmmpanther:PTHR15060:SF0"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c178c746-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0927835051546392	"WGS"	FALSE
"5537"	"ARHGAP21"	57584	"mskcc.org"	"GRCh37"	"10"	24910148	24910148	"+"	"Missense_Mutation"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.676T>C"	"p.Ser226Pro"	"p.S226P"	"ENST00000396432"	"9/26"	102	"69"	33	55	"55"	0	"ARHGAP21,missense_variant,p.Ser226Pro,ENST00000396432,NM_020824.3;ARHGAP21,missense_variant,p.Ser13Pro,ENST00000320481,;ARHGAP21,missense_variant,p.Ser226Pro,ENST00000446003,;ARHGAP21,missense_variant,p.Ser216Pro,ENST00000376410,;ARHGAP21,non_coding_transcript_exon_variant,,ENST00000486374,;ARHGAP21,non_coding_transcript_exon_variant,,ENST00000483114,;"	"G"	"ENSG00000107863"	"ENST00000396432"	"Transcript"	"missense_variant"	"1163/7167"	"676/5877"	"226/1958"	"S/P"	"Tca/Cca"	""	"1"	NA	-1	"ARHGAP21"	"HGNC"	23725	"protein_coding"	"YES"	"CCDS7144.2"	"ENSP00000379709"	"Q5T5U3"	"E7ESW5"	"UPI0001639C78"	"NM_020824.3"	"tolerated(0.19)"	"benign(0.007)"	"9/26"	""	"hmmpanther:PTHR23175:SF16,hmmpanther:PTHR23175"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c17e1aa2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.323529411764706	"WGS"	FALSE
"5538"	"RP11-399K21.14"	101929234	"mskcc.org"	"GRCh37"	"10"	77169198	77169198	"+"	"Splice_Region"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.284G>T"	""	""	"ENST00000609200"	"1/3"	114	"87"	27	48	"48"	0	"RP11-399K21.14,splice_region_variant,,ENST00000609200,;RP11-399K21.13,upstream_gene_variant,,ENST00000609182,;ZNF503-AS2,downstream_gene_variant,,ENST00000425916,;ZNF503-AS2,downstream_gene_variant,,ENST00000466942,;ZNF503-AS2,downstream_gene_variant,,ENST00000486015,;ZNF503-AS2,downstream_gene_variant,,ENST00000484411,;ZNF503-AS2,downstream_gene_variant,,ENST00000491557,;ZNF503-AS2,downstream_gene_variant,,ENST00000527641,;"	"T"	"ENSG00000272692"	"ENST00000609200"	"Transcript"	"splice_region_variant,non_coding_transcript_exon_variant,non_coding_transcript_variant"	"284/1890"	""	""	""	""	""	"1"	NA	1	"RP11-399K21.14"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c18d84b0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.236842105263158	"WGS"	FALSE
"5539"	"NXF1"	10482	"mskcc.org"	"GRCh37"	"11"	62562477	62562477	"+"	"Missense_Mutation"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1507G>A"	"p.Asp503Asn"	"p.D503N"	"ENST00000532297"	"19/22"	112	"79"	33	70	"70"	0	"NXF1,missense_variant,p.Asp503Asn,ENST00000532297,;NXF1,missense_variant,p.Asp503Asn,ENST00000294172,NM_006362.4;NXF1,missense_variant,p.Asp546Asn,ENST00000530875,;NXF1,missense_variant,p.Asp22Asn,ENST00000527902,;NXF1,splice_region_variant,,ENST00000531709,NM_001081491.1;TMEM223,upstream_gene_variant,,ENST00000307366,NM_001080501.2;TMEM179B,downstream_gene_variant,,ENST00000333449,NM_199337.2;TMEM223,upstream_gene_variant,,ENST00000528367,;TMEM179B,downstream_gene_variant,,ENST00000533861,;TMEM223,upstream_gene_variant,,ENST00000525631,;NXF1,splice_region_variant,,ENST00000533048,;NXF1,downstream_gene_variant,,ENST00000531579,;NXF1,downstream_gene_variant,,ENST00000526163,;TMEM223,upstream_gene_variant,,ENST00000527073,;NXF1,splice_region_variant,,ENST00000533440,;NXF1,non_coding_transcript_exon_variant,,ENST00000533499,;TMEM179B,downstream_gene_variant,,ENST00000532345,;TMEM179B,downstream_gene_variant,,ENST00000532586,;NXF1,upstream_gene_variant,,ENST00000527497,;NXF1,downstream_gene_variant,,ENST00000531872,;"	"T"	"ENSG00000162231"	"ENST00000532297"	"Transcript"	"missense_variant,splice_region_variant"	"2137/2795"	"1507/1860"	"503/619"	"D/N"	"Gac/Aac"	""	"1"	NA	-1	"NXF1"	"HGNC"	8071	"protein_coding"	"YES"	"CCDS8037.1"	"ENSP00000436679"	"Q9UBU9"	"Q68CW9,E9PMV7,E9PLA7"	"UPI00000012B9"	""	"deleterious(0.02)"	"benign(0.083)"	"19/22"	""	"Superfamily_domains:SSF54427,Gene3D:3.10.450.50,Pfam_domain:PF02136,hmmpanther:PTHR10662:SF27,hmmpanther:PTHR10662,PROSITE_profiles:PS50177"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c1af9adc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.294642857142857	"WGS"	FALSE
"5540"	"PPP6R3"	55291	"mskcc.org"	"GRCh37"	"11"	68334505	68334505	"+"	"Nonsense_Mutation"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.999G>A"	"p.Trp333Ter"	"p.W333*"	"ENST00000393801"	"10/25"	97	"61"	36	55	"55"	0	"PPP6R3,stop_gained,p.Trp333Ter,ENST00000393799,;PPP6R3,stop_gained,p.Trp333Ter,ENST00000393800,NM_001164161.1,NM_001164163.1,NM_001164162.1;PPP6R3,stop_gained,p.Trp333Ter,ENST00000393801,NM_001164160.1;PPP6R3,stop_gained,p.Trp333Ter,ENST00000527403,;PPP6R3,stop_gained,p.Trp333Ter,ENST00000265637,;PPP6R3,stop_gained,p.Trp333Ter,ENST00000524904,;PPP6R3,stop_gained,p.Trp101Ter,ENST00000534534,;PPP6R3,stop_gained,p.Trp333Ter,ENST00000524845,;PPP6R3,stop_gained,p.Trp69Ter,ENST00000534190,;PPP6R3,intron_variant,,ENST00000265636,NM_018312.4;PPP6R3,intron_variant,,ENST00000529710,NM_001164164.1;PPP6R3,non_coding_transcript_exon_variant,,ENST00000526574,;PPP6R3,upstream_gene_variant,,ENST00000525421,;PPP6R3,downstream_gene_variant,,ENST00000531432,;"	"A"	"ENSG00000110075"	"ENST00000393801"	"Transcript"	"stop_gained"	"1214/5069"	"999/2640"	"333/879"	"W/*"	"tgG/tgA"	""	"1"	NA	1	"PPP6R3"	"HGNC"	1173	"protein_coding"	"YES"	"CCDS53671.1"	"ENSP00000377390"	"Q5H9R7"	"E9PNN8,E9PKG4,E9PK08,E9PJD8"	"UPI0000688150"	"NM_001164160.1"	""	""	"10/25"	""	"hmmpanther:PTHR12634:SF12,hmmpanther:PTHR12634,Pfam_domain:PF04499,Superfamily_domains:SSF48371"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"HIGH"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c1b275a4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.371134020618557	"WGS"	FALSE
"5541"	"RAD51B"	5890	"mskcc.org"	"GRCh37"	"14"	68352598	68352598	"+"	"Missense_Mutation"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.465A>G"	"p.Ile155Met"	"p.I155M"	"ENST00000487270"	"6/11"	99	"70"	29	60	"60"	0	"RAD51B,missense_variant,p.Ile155Met,ENST00000487270,NM_133509.3;RAD51B,missense_variant,p.Ile155Met,ENST00000487861,NM_002877.5;RAD51B,missense_variant,p.Ile155Met,ENST00000488612,;RAD51B,missense_variant,p.Ile155Met,ENST00000471583,NM_133510.3;RAD51B,missense_variant,p.Ile155Met,ENST00000390683,;RAD51B,non_coding_transcript_exon_variant,,ENST00000553595,;RAD51B,non_coding_transcript_exon_variant,,ENST00000555907,;RAD51B,non_coding_transcript_exon_variant,,ENST00000553734,;RAD51B,upstream_gene_variant,,ENST00000469165,;RAD51B,upstream_gene_variant,,ENST00000460526,;RAD51B,upstream_gene_variant,,ENST00000554244,;RAD51B,upstream_gene_variant,,ENST00000478014,;RAD51B,upstream_gene_variant,,ENST00000497460,;RAD51B,upstream_gene_variant,,ENST00000492236,;RAD51B,3_prime_UTR_variant,,ENST00000479335,;RAD51B,non_coding_transcript_exon_variant,,ENST00000474051,;"	"G"	"ENSG00000182185"	"ENST00000487270"	"Transcript"	"missense_variant"	"513/2596"	"465/1155"	"155/384"	"I/M"	"atA/atG"	""	"1"	NA	1	"RAD51B"	"HGNC"	9822	"protein_coding"	"YES"	"CCDS9789.1"	"ENSP00000419471"	"O15315"	"G3V4W9,C9J5S9"	"UPI0000073AB0"	"NM_133509.3"	"tolerated(0.25)"	"benign(0.264)"	"6/11"	""	"PROSITE_profiles:PS50162,hmmpanther:PTHR22942,hmmpanther:PTHR22942:SF15,Gene3D:3.40.50.300,Pfam_domain:PF08423,PIRSF_domain:PIRSF005856,SMART_domains:SM00382,Superfamily_domains:SSF52540"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAG"	"c20bc398-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.292929292929293	"WGS"	TRUE
"5543"	"SCAPER"	49855	"mskcc.org"	"GRCh37"	"15"	76998264	76998264	"+"	"Nonsense_Mutation"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2227C>T"	"p.Gln743Ter"	"p.Q743*"	"ENST00000563290"	"18/32"	71	"45"	26	67	"67"	0	"SCAPER,stop_gained,p.Gln497Ter,ENST00000538941,NM_001145923.1;SCAPER,stop_gained,p.Gln743Ter,ENST00000563290,;SCAPER,stop_gained,p.Gln743Ter,ENST00000324767,NM_020843.2;SCAPER,stop_gained,p.Gln749Ter,ENST00000564590,;SCAPER,downstream_gene_variant,,ENST00000565970,;SCAPER,3_prime_UTR_variant,,ENST00000565507,;SCAPER,non_coding_transcript_exon_variant,,ENST00000303521,;"	"A"	"ENSG00000140386"	"ENST00000563290"	"Transcript"	"stop_gained"	"2323/4747"	"2227/4203"	"743/1400"	"Q/*"	"Cag/Tag"	""	"1"	NA	-1	"SCAPER"	"HGNC"	13081	"protein_coding"	"YES"	"CCDS53962.1"	"ENSP00000454973"	"Q9BY12"	"H3BTY2,H3BR40,H3BPB0"	"UPI0000E59CC3"	""	""	""	"18/32"	""	"hmmpanther:PTHR31434,hmmpanther:PTHR31434:SF2,Low_complexity_(Seg):seg"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"HIGH"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c22c53a6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.366197183098592	"WGS"	FALSE
"5544"	"GOLGA6L4"	0	"mskcc.org"	"GRCh37"	"15"	84909033	84909033	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.927G>T"	"p.Gln309His"	"p.Q309H"	"ENST00000510439"	"6/9"	31	"25"	6	12	"12"	0	"GOLGA6L4,missense_variant,p.Gln309His,ENST00000510439,NM_001267536.1;GOLGA6L4,missense_variant,p.Gln44His,ENST00000422563,;GOLGA6L4,intron_variant,,ENST00000512109,;GOLGA6L4,intron_variant,,ENST00000424966,;GOLGA6L4,non_coding_transcript_exon_variant,,ENST00000515814,;GOLGA6L4,upstream_gene_variant,,ENST00000379674,;"	"T"	"ENSG00000184206"	"ENST00000510439"	"Transcript"	"missense_variant"	"989/4563"	"927/1725"	"309/574"	"Q/H"	"caG/caT"	""	"1"	NA	1	"GOLGA6L4"	"HGNC"	27256	"protein_coding"	"YES"	""	"ENSP00000421586"	"A6NEF3"	""	"UPI00006C155D"	"NM_001267536.1"	"deleterious(0.01)"	"unknown(0)"	"6/9"	""	"Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23143,hmmpanther:PTHR23143:SF8,Low_complexity_(Seg):seg"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c22dee50-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.193548387096774	"WGS"	FALSE
"5545"	"TSC2"	7249	"mskcc.org"	"GRCh37"	"16"	2135023	2135023	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"G"	"rs144062721"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4565A>G"	"p.Asn1522Ser"	"p.N1522S"	"ENST00000219476"	"35/42"	115	"107"	8	49	"49"	0	"TSC2,missense_variant,p.Asn1522Ser,ENST00000219476,NM_000548.3;TSC2,missense_variant,p.Asn1499Ser,ENST00000350773,NM_001114382.1;TSC2,missense_variant,p.Asn1479Ser,ENST00000353929,;TSC2,missense_variant,p.Asn1466Ser,ENST00000568454,;TSC2,missense_variant,p.Asn1455Ser,ENST00000401874,NM_001077183.1;TSC2,missense_variant,p.Asn1419Ser,ENST00000439673,;TSC2,missense_variant,p.Asn1407Ser,ENST00000382538,;TSC2,missense_variant,p.Asn250Ser,ENST00000569110,;PKD1,downstream_gene_variant,,ENST00000262304,NM_001009944.2;PKD1,downstream_gene_variant,,ENST00000423118,NM_000296.3;TSC2,downstream_gene_variant,,ENST00000568366,;TSC2,3_prime_UTR_variant,,ENST00000439117,;TSC2,non_coding_transcript_exon_variant,,ENST00000497886,;TSC2,non_coding_transcript_exon_variant,,ENST00000569930,;PKD1,downstream_gene_variant,,ENST00000472577,;"	"G"	"ENSG00000103197"	"ENST00000219476"	"Transcript"	"missense_variant"	"5195/6156"	"4565/5424"	"1522/1807"	"N/S"	"aAt/aGt"	"rs144062721"	"1"	NA	1	"TSC2"	"HGNC"	12363	"protein_coding"	"YES"	"CCDS10458.1"	"ENSP00000219476"	"P49815"	""	"UPI000013C781"	"NM_000548.3"	"tolerated(0.39)"	"benign(0.002)"	"35/42"	""	"hmmpanther:PTHR10063,hmmpanther:PTHR10063:SF1,Superfamily_domains:0043732"	""	""	""	NA	""	""	""	"G:0.0005"	"G:0"	"not_provided"	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	"1"	"1"	"7.532e-05"	"0.0002219"	"8.924e-05"	"0.0005085"	"0"	"0"	"0"	"6.096e-05"	"1"	"PASS"	"AAT"	"c23601c6-0958-11e6-b1a0-c2d8dff80e40"	"."	7.538e-05	"8/106134"	"8/106208"	"2/9014"	"1/11206"	"4/7866"	"0/6612"	"0/54338"	"0/694"	"1/16404"	"PASS"	"TRUE"	0.0695652173913043	"WGS"	TRUE
"5546"	"SHCBP1"	79801	"mskcc.org"	"GRCh37"	"16"	46655258	46655258	"+"	"Missense_Mutation"	"SNP"	"G"	"A"	"A"	"rs774802723"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.14C>T"	"p.Ser5Leu"	"p.S5L"	"ENST00000303383"	"1/13"	101	"70"	31	46	"46"	0	"SHCBP1,missense_variant,p.Ser5Leu,ENST00000303383,NM_024745.4;RP11-46D6.1,downstream_gene_variant,,ENST00000574180,;RP11-46D6.1,downstream_gene_variant,,ENST00000562549,;SHCBP1,non_coding_transcript_exon_variant,,ENST00000564272,;SHCBP1,non_coding_transcript_exon_variant,,ENST00000566016,;"	"A"	"ENSG00000171241"	"ENST00000303383"	"Transcript"	"missense_variant"	"281/3461"	"14/2019"	"5/672"	"S/L"	"tCg/tTg"	"rs774802723"	"1"	NA	-1	"SHCBP1"	"HGNC"	29547	"protein_coding"	"YES"	"CCDS10720.1"	"ENSP00000306473"	"Q8NEM2"	""	"UPI000013E898"	"NM_024745.4"	"tolerated_low_confidence(0.4)"	"benign(0)"	"1/13"	""	"hmmpanther:PTHR14695,hmmpanther:PTHR14695:SF6"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	"9.447e-06"	"0"	"0"	"0"	"0"	"0"	"0"	"6.221e-05"	NA	"PASS"	"CGA"	"c24995ec-0958-11e6-b1a0-c2d8dff80e40"	"."	9.88e-06	"1/101210"	"1/105856"	"0/7398"	"0/11002"	"0/7748"	"0/6390"	"0/51930"	"0/668"	"1/16074"	"PASS"	"TRUE"	0.306930693069307	"WGS"	FALSE
"5547"	"SPATA2L"	124044	"mskcc.org"	"GRCh37"	"16"	89764217	89764217	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.800G>A"	"p.Ser267Asn"	"p.S267N"	"ENST00000289805"	"3/3"	101	"73"	28	46	"46"	0	"SPATA2L,missense_variant,p.Ser267Asn,ENST00000289805,NM_152339.3;SPATA2L,intron_variant,,ENST00000335360,;CDK10,downstream_gene_variant,,ENST00000331006,;CDK10,downstream_gene_variant,,ENST00000353379,NM_052988.4,NM_001098533.2,NM_001160367.1;CDK10,downstream_gene_variant,,ENST00000505473,NM_052987.3;CDK10,downstream_gene_variant,,ENST00000564192,;SPATA2L,downstream_gene_variant,,ENST00000569918,;CDK10,downstream_gene_variant,,ENST00000472018,;CDK10,downstream_gene_variant,,ENST00000505733,;CDK10,downstream_gene_variant,,ENST00000510811,;CDK10,downstream_gene_variant,,ENST00000507205,;CDK10,downstream_gene_variant,,ENST00000504473,;CDK10,downstream_gene_variant,,ENST00000567932,;CDK10,downstream_gene_variant,,ENST00000565470,;CDK10,downstream_gene_variant,,ENST00000511415,;CDK10,downstream_gene_variant,,ENST00000561477,;"	"T"	"ENSG00000158792"	"ENST00000289805"	"Transcript"	"missense_variant"	"869/2335"	"800/1275"	"267/424"	"S/N"	"aGt/aAt"	""	"1"	NA	-1	"SPATA2L"	"HGNC"	28393	"protein_coding"	"YES"	"CCDS10985.1"	"ENSP00000289805"	"Q8IUW3"	"H3BVE5,B3KXI5"	"UPI00000746EF"	"NM_152339.3"	"tolerated(0.14)"	"benign(0.058)"	"3/3"	""	"hmmpanther:PTHR15326:SF3,hmmpanther:PTHR15326"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c258de44-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.277227722772277	"WGS"	FALSE
"5548"	"ZNF486"	90649	"mskcc.org"	"GRCh37"	"19"	20308219	20308219	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"G"	""	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.700A>G"	"p.Arg234Gly"	"p.R234G"	"ENST00000335117"	"4/4"	87	"80"	7	66	"66"	0	"ZNF486,missense_variant,p.Arg234Gly,ENST00000335117,NM_052852.3;CTC-260E6.6,intron_variant,,ENST00000585498,;CTC-260E6.6,intron_variant,,ENST00000593655,;CTC-260E6.6,intron_variant,,ENST00000586657,;"	"G"	"ENSG00000256229"	"ENST00000335117"	"Transcript"	"missense_variant"	"757/3837"	"700/1392"	"234/463"	"R/G"	"Aga/Gga"	"COSM148545"	"1"	NA	1	"ZNF486"	"HGNC"	20807	"protein_coding"	"YES"	"CCDS46029.1"	"ENSP00000335042"	"Q96H40"	"Q59FB0"	"UPI00002376E8"	"NM_052852.3"	"tolerated(1)"	"benign(0)"	"4/4"	""	"Superfamily_domains:SSF57667,Pfam_domain:PF13465,Gene3D:3.30.160.60,hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF95,PROSITE_profiles:PS50157"	""	""	""	NA	""	""	""	""	""	""	"1"	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	"1"	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c2a33e94-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"TRUE"	0.0804597701149425	"WGS"	FALSE
"5549"	"ZNF714"	148206	"mskcc.org"	"GRCh37"	"19"	21300537	21300537	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1067C>G"	"p.Thr356Ser"	"p.T356S"	"ENST00000596143"	"5/5"	92	"68"	24	72	"72"	0	"ZNF714,missense_variant,p.Thr356Ser,ENST00000596143,NM_182515.3;ZNF714,3_prime_UTR_variant,,ENST00000601416,;ZNF714,3_prime_UTR_variant,,ENST00000291770,;ZNF714,intron_variant,,ENST00000596053,;ZNF714,downstream_gene_variant,,ENST00000597086,;ZNF714,downstream_gene_variant,,ENST00000596367,;ZNF714,downstream_gene_variant,,ENST00000597424,;RNA5SP469,upstream_gene_variant,,ENST00000364165,;ZNF714,missense_variant,p.Thr356Ser,ENST00000600435,;ZNF714,3_prime_UTR_variant,,ENST00000600770,;AC010620.1,upstream_gene_variant,,ENST00000456283,;"	"G"	"ENSG00000160352"	"ENST00000596143"	"Transcript"	"missense_variant"	"1392/6809"	"1067/1665"	"356/554"	"T/S"	"aCt/aGt"	""	"1"	NA	1	"ZNF714"	"HGNC"	27124	"protein_coding"	"YES"	"CCDS54239.1"	"ENSP00000472368"	"Q96N38"	"M0R2G4,M0QYV9"	"UPI000059D6C5"	"NM_182515.3"	"tolerated(0.13)"	"benign(0.004)"	"5/5"	""	"Gene3D:3.30.160.60,Pfam_domain:PF13465,PROSITE_patterns:PS00028,PROSITE_profiles:PS50157,hmmpanther:PTHR24384,hmmpanther:PTHR24384:SF104,SMART_domains:SM00355,Superfamily_domains:SSF57667"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c2a3a6d6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.260869565217391	"WGS"	FALSE
"5550"	"MAP4K1"	11184	"mskcc.org"	"GRCh37"	"19"	39096258	39096258	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"rs761081944"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1313G>A"	"p.Arg438His"	"p.R438H"	"ENST00000591517"	"18/32"	95	"72"	23	50	"50"	0	"MAP4K1,missense_variant,p.Arg438His,ENST00000591517,NM_007181.4;MAP4K1,missense_variant,p.Arg434His,ENST00000589130,;MAP4K1,missense_variant,p.Arg438His,ENST00000396857,NM_001042600.1;MAP4K1,missense_variant,p.Arg142His,ENST00000591921,;MAP4K1,missense_variant,p.Arg100His,ENST00000423454,;MAP4K1,intron_variant,,ENST00000586296,;CTB-186G2.1,downstream_gene_variant,,ENST00000589557,;MAP4K1,downstream_gene_variant,,ENST00000589002,;MAP4K1,3_prime_UTR_variant,,ENST00000585583,;"	"T"	"ENSG00000104814"	"ENST00000591517"	"Transcript"	"missense_variant"	"1342/2700"	"1313/2502"	"438/833"	"R/H"	"cGt/cAt"	"rs761081944,COSM711573,COSM711572"	"1"	NA	-1	"MAP4K1"	"HGNC"	6863	"protein_coding"	"YES"	"CCDS59385.1"	"ENSP00000465039"	"Q92918"	""	"UPI00000747ED"	"NM_007181.4"	"tolerated(0.29)"	"benign(0.002)"	"18/32"	""	"Low_complexity_(Seg):seg,hmmpanther:PTHR24361:SF88,hmmpanther:PTHR24361,PIRSF_domain:PIRSF038172,Superfamily_domains:SSF56112"	""	""	""	NA	""	""	""	""	""	""	"0,1,1"	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	"0,1,1"	"1"	"5.735e-05"	"0"	"0.0006906"	"0"	"0"	"0.0004222"	"0"	"0"	NA	"PASS"	"ACG"	"c2aaeda6-0958-11e6-b1a0-c2d8dff80e40"	"."	0.0002088	"5/23952"	"6/104616"	"0/1608"	"1/1448"	"0/1900"	"0/724"	"4/9474"	"0/168"	"0/8630"	"PASS"	"TRUE"	0.242105263157895	"WGS"	FALSE
"5551"	"LIPI"	149998	"mskcc.org"	"GRCh37"	"21"	15517076	15517076	"+"	"Missense_Mutation"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1226C>T"	"p.Ala409Val"	"p.A409V"	"ENST00000344577"	"9/10"	102	"66"	36	50	"50"	0	"LIPI,missense_variant,p.Ala409Val,ENST00000344577,NM_198996.2;LIPI,missense_variant,p.Ala388Val,ENST00000536861,;AP001347.6,downstream_gene_variant,,ENST00000428809,;AP001347.6,downstream_gene_variant,,ENST00000432621,;ERLEC1P1,downstream_gene_variant,,ENST00000433806,;"	"A"	"ENSG00000188992"	"ENST00000344577"	"Transcript"	"missense_variant"	"1252/1652"	"1226/1446"	"409/481"	"A/V"	"gCt/gTt"	""	"1"	NA	-1	"LIPI"	"HGNC"	18821	"protein_coding"	"YES"	"CCDS13564.1"	"ENSP00000343331"	"Q6XZB0"	""	"UPI000015F82D"	"NM_198996.2"	"tolerated(0.1)"	"benign(0.125)"	"9/10"	""	"hmmpanther:PTHR11610:SF84,hmmpanther:PTHR11610,PIRSF_domain:PIRSF000865"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"c317c23c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.352941176470588	"WGS"	FALSE
"5552"	"MYH9"	4627	"mskcc.org"	"GRCh37"	"22"	36684321	36684321	"+"	"Missense_Mutation"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4909A>G"	"p.Ile1637Val"	"p.I1637V"	"ENST00000216181"	"34/41"	97	"79"	18	49	"49"	0	"MYH9,missense_variant,p.Ile1637Val,ENST00000216181,NM_002473.4;MYH9,upstream_gene_variant,,ENST00000475726,;MYH9,upstream_gene_variant,,ENST00000486218,;"	"C"	"ENSG00000100345"	"ENST00000216181"	"Transcript"	"missense_variant"	"5140/7501"	"4909/5883"	"1637/1960"	"I/V"	"Atc/Gtc"	""	"1"	NA	-1	"MYH9"	"HGNC"	7579	"protein_coding"	"YES"	"CCDS13927.1"	"ENSP00000216181"	"P35579"	"Q9UMJ0,B1AH99"	"UPI000012FB80"	"NM_002473.4"	""	"benign(0.002)"	"34/41"	""	"Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR13140:SF317,hmmpanther:PTHR13140,Pfam_domain:PF01576"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"c32e8d1e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.185567010309278	"WGS"	TRUE
"5553"	"ANKRD17"	26057	"mskcc.org"	"GRCh37"	"4"	73941976	73941976	"+"	"Missense_Mutation"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7784A>T"	"p.Asn2595Ile"	"p.N2595I"	"ENST00000358602"	"34/34"	85	"67"	18	69	"69"	0	"ANKRD17,missense_variant,p.Asn2595Ile,ENST00000358602,NM_032217.3;ANKRD17,missense_variant,p.Asn2479Ile,ENST00000558247,;ANKRD17,missense_variant,p.Asn2482Ile,ENST00000509867,NM_001286771.1;ANKRD17,missense_variant,p.Asn2344Ile,ENST00000330838,NM_198889.1;ANKRD17,downstream_gene_variant,,ENST00000510127,;"	"A"	"ENSG00000132466"	"ENST00000358602"	"Transcript"	"missense_variant"	"7901/10784"	"7784/7812"	"2595/2603"	"N/I"	"aAc/aTc"	""	"1"	NA	-1	"ANKRD17"	"HGNC"	23575	"protein_coding"	"YES"	"CCDS34004.1"	"ENSP00000351416"	"O75179"	""	"UPI00002263B0"	"NM_032217.3"	""	"benign(0.114)"	"34/34"	""	"hmmpanther:PTHR23206:SF1,hmmpanther:PTHR23206"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"c37d4724-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.211764705882353	"WGS"	FALSE
"5554"	"TCP11"	6954	"mskcc.org"	"GRCh37"	"6"	35090048	35090048	"+"	"Missense_Mutation"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.463A>G"	"p.Met155Val"	"p.M155V"	"ENST00000311875"	"5/10"	100	"72"	28	59	"59"	0	"TCP11,start_lost,p.Met1?,ENST00000486638,;TCP11,missense_variant,p.Met155Val,ENST00000311875,;TCP11,missense_variant,p.Met80Val,ENST00000244645,NM_018679.5,NM_001261821.1,NM_001261820.1;TCP11,missense_variant,p.Met80Val,ENST00000373979,;TCP11,missense_variant,p.Met150Val,ENST00000444780,NM_001093728.2,NM_001261817.1;TCP11,missense_variant,p.Met104Val,ENST00000412155,NM_001261819.1;TCP11,missense_variant,p.Met109Val,ENST00000373974,NM_001261818.1;TCP11,missense_variant,p.Met142Val,ENST00000512012,;TCP11,missense_variant,p.Met79Val,ENST00000418521,;TCP11,missense_variant,p.Met79Val,ENST00000507706,;TCP11,missense_variant,p.Met80Val,ENST00000492680,;TCP11,upstream_gene_variant,,ENST00000502480,;TCP11,downstream_gene_variant,,ENST00000505400,;TCP11,3_prime_UTR_variant,,ENST00000504758,;TCP11,3_prime_UTR_variant,,ENST00000505911,;TCP11,3_prime_UTR_variant,,ENST00000455706,;TCP11,3_prime_UTR_variant,,ENST00000427376,;TCP11,3_prime_UTR_variant,,ENST00000469514,;TCP11,downstream_gene_variant,,ENST00000479418,;TCP11,downstream_gene_variant,,ENST00000509988,;TCP11,downstream_gene_variant,,ENST00000505335,;"	"C"	"ENSG00000124678"	"ENST00000311875"	"Transcript"	"missense_variant"	"881/2166"	"463/1551"	"155/516"	"M/V"	"Atg/Gtg"	""	"1"	NA	-1	"TCP11"	"HGNC"	11658	"protein_coding"	"YES"	"CCDS47413.1"	"ENSP00000308708"	"Q8WWU5"	"D6RGY5,D6RGC0,D6RG02,D6R9R9,D6R989,B7Z7Q2"	"UPI0000EE4D7F"	""	"tolerated(0.15)"	"benign(0.029)"	"5/10"	""	"Pfam_domain:PF05794,hmmpanther:PTHR12832,hmmpanther:PTHR12832:SF16"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c3d0435c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.28	"WGS"	FALSE
"5555"	"SOBP"	55084	"mskcc.org"	"GRCh37"	"6"	107956150	107956150	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2102C>A"	"p.Pro701His"	"p.P701H"	"ENST00000317357"	"6/7"	69	"55"	14	45	"45"	0	"SOBP,missense_variant,p.Pro701His,ENST00000317357,NM_018013.3;SOBP,upstream_gene_variant,,ENST00000494935,;"	"A"	"ENSG00000112320"	"ENST00000317357"	"Transcript"	"missense_variant"	"2761/5231"	"2102/2622"	"701/873"	"P/H"	"cCc/cAc"	""	"1"	NA	1	"SOBP"	"HGNC"	29256	"protein_coding"	"YES"	"CCDS43488.1"	"ENSP00000318900"	"A7XYQ1"	""	"UPI0000E6A8ED"	"NM_018013.3"	"deleterious_low_confidence(0.01)"	"benign(0.247)"	"6/7"	""	"Low_complexity_(Seg):seg,hmmpanther:PTHR23186,hmmpanther:PTHR23186:SF2"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"c3ddeec6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.202898550724638	"WGS"	FALSE
"5556"	"PLEKHA2"	59339	"mskcc.org"	"GRCh37"	"8"	38803648	38803648	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"G"	"rs752150198"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.254A>G"	"p.Asn85Ser"	"p.N85S"	"ENST00000420274"	"5/13"	107	"82"	25	58	"58"	0	"PLEKHA2,missense_variant,p.Asn85Ser,ENST00000420274,NM_021623.1;PLEKHA2,missense_variant,p.Asn85Ser,ENST00000521746,;PLEKHA2,missense_variant,p.Asn85Ser,ENST00000519640,;PLEKHA2,non_coding_transcript_exon_variant,,ENST00000388745,;PLEKHA2,non_coding_transcript_exon_variant,,ENST00000518571,;PLEKHA2,intron_variant,,ENST00000521784,;PLEKHA2,upstream_gene_variant,,ENST00000518070,;"	"G"	"ENSG00000169499"	"ENST00000420274"	"Transcript"	"missense_variant"	"488/5638"	"254/1278"	"85/425"	"N/S"	"aAt/aGt"	"rs752150198"	"1"	NA	1	"PLEKHA2"	"HGNC"	14336	"protein_coding"	"YES"	""	"ENSP00000393860"	"Q9HB19"	"E5RGP3,A8K727"	"UPI0001596C50"	"NM_021623.1"	"deleterious(0.01)"	"benign(0.391)"	"5/13"	""	"Superfamily_domains:SSF50729,SMART_domains:SM00233,Gene3D:2.30.29.30,Pfam_domain:PF00169,hmmpanther:PTHR14336:SF5,hmmpanther:PTHR14336,PROSITE_profiles:PS50003"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	"9.468e-06"	"0"	"0"	"0.0002782"	"0"	"0"	"0"	"0"	NA	"PASS"	"AAT"	"c42d6e88-0958-11e6-b1a0-c2d8dff80e40"	"."	2.165e-05	"1/46196"	"1/105616"	"0/4498"	"0/2720"	"1/3594"	"0/3410"	"0/21842"	"0/330"	"0/9802"	"PASS"	"TRUE"	0.233644859813084	"WGS"	FALSE
"5557"	"UCK1"	83549	"mskcc.org"	"GRCh37"	"9"	134404628	134404628	"+"	"Missense_Mutation"	"SNP"	"G"	"A"	"A"	"rs764787713"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.410C>T"	"p.Ala137Val"	"p.A137V"	"ENST00000372211"	"4/7"	105	"73"	32	49	"49"	0	"UCK1,missense_variant,p.Ala132Val,ENST00000372215,NM_031432.2,NM_001261450.1,NM_001261451.1;UCK1,missense_variant,p.Ala137Val,ENST00000372211,;UCK1,missense_variant,p.Ala132Val,ENST00000372208,NM_001135954.1;UCK1,missense_variant,p.Ala123Val,ENST00000372210,;UCK1,non_coding_transcript_exon_variant,,ENST00000459858,;UCK1,non_coding_transcript_exon_variant,,ENST00000494584,;UCK1,upstream_gene_variant,,ENST00000484876,;UCK1,upstream_gene_variant,,ENST00000482398,;UCK1,missense_variant,p.Ala146Val,ENST00000491309,;"	"A"	"ENSG00000130717"	"ENST00000372211"	"Transcript"	"missense_variant"	"436/2114"	"410/849"	"137/282"	"A/V"	"gCg/gTg"	"rs764787713"	"1"	NA	-1	"UCK1"	"HGNC"	14859	"protein_coding"	"YES"	"CCDS59152.1"	"ENSP00000361285"	""	"Q5JT09"	"UPI00004A2DB7"	""	"deleterious(0.04)"	"possibly_damaging(0.547)"	"4/7"	""	"Gene3D:3.40.50.300,Pfam_domain:PF00485,hmmpanther:PTHR10285,hmmpanther:PTHR10285:SF66,Superfamily_domains:SSF52540"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	""	"1"	"1.883e-05"	"0.0002226"	"0"	"0"	"0"	"0"	"0"	"0"	NA	"PASS"	"CGC"	"c46e8f3a-0958-11e6-b1a0-c2d8dff80e40"	"."	1.891e-05	"2/105790"	"2/106210"	"2/8986"	"0/11182"	"0/7862"	"0/6564"	"0/54108"	"0/692"	"0/16396"	"PASS"	"TRUE"	0.304761904761905	"WGS"	FALSE
"5558"	"TUFT1"	7286	"mskcc.org"	"GRCh37"	"1"	151552195	151552218	"+"	"Splice_Site"	"DEL"	"ATCTGGAGGCAGAGGTGTGTGTGC"	"ATCTGGAGGCAGAGGTGTGTGTGC"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"ATCTGGAGGCAGAGGTGTGTGTGC"	"ATCTGGAGGCAGAGGTGTGTGTGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.995_1008+10delATCTGGAGGCAGAGGTGTGTGTGC"	""	"p.X332_splice"	"ENST00000368849"	"11/13"	78	"."	14	48	"."	0	"TUFT1,splice_donor_variant,,ENST00000368849,NM_020127.2;TUFT1,splice_donor_variant,,ENST00000368848,NM_001126337.1;TUFT1,splice_donor_variant,,ENST00000392712,;TUFT1,splice_donor_variant,,ENST00000353024,;TUFT1,splice_donor_variant,,ENST00000538902,;TUFT1,downstream_gene_variant,,ENST00000490156,;"	"-"	"ENSG00000143367"	"ENST00000368849"	"Transcript"	"splice_donor_variant,coding_sequence_variant,intron_variant"	"1057-?/3111"	"995-?/1173"	"332-?/390"	""	""	""	"1"	NA	1	"TUFT1"	"HGNC"	12422	"protein_coding"	"YES"	"CCDS1000.1"	"ENSP00000357842"	"Q9NNX1"	""	"UPI0000037BFA"	"NM_020127.2"	NA	NA	"11/13"	"11/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"HIGH"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTATCTGGAGGCAGAGGTGTGTGTGCT"	"23332db0-0700-11e6-8f73-e5193d393f3a"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.179487179487179	"WGS"	FALSE
"5559"	"POU3F2"	5454	"mskcc.org"	"GRCh37"	"6"	99282971	99282972	"+"	"In_Frame_Ins"	"INS"	"-"	"-"	"GGC"	"rs781662211"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.231_233dupCGG"	"p.Gly88dup"	"p.G88dup"	"ENST00000328345"	"1/1"	172	"."	9	100	"."	0	"POU3F2,inframe_insertion,p.Gly88dup,ENST00000328345,NM_005604.3;"	"GGC"	"ENSG00000184486"	"ENST00000328345"	"Transcript"	"inframe_insertion"	"392-393/4081"	"222-223/1332"	"74-75/443"	"-/G"	"-/GGC"	"rs781662211"	"1"	NA	1	"POU3F2"	"HGNC"	9215	"protein_coding"	"YES"	"CCDS5040.1"	"ENSP00000329170"	"P20265"	""	"UPI000016A1E7"	"NM_005604.3"	NA	NA	"1/1"	""	"Low_complexity_(Seg):seg,hmmpanther:PTHR11636:SF79,hmmpanther:PTHR11636,PIRSF_domain:PIRSF002629"	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"insertion"	NA	"11"	NA	"1"	"4.005e-05"	"0.07143"	"0"	"0"	"0"	"0"	"0"	"0"	NA	"PASS"	"GTG"	"03cd4bf2-070c-11e6-8fd6-8ff9279ab66c"	"540"	0.0119	"1/84"	"1/24966"	"1/14"	"0/6"	"0/20"	"0/2"	"0/30"	"0/0"	"0/12"	"PASS"	"TRUE"	0.0523255813953488	"WGS"	FALSE
"5560"	"MMP20"	9313	"mskcc.org"	"GRCh37"	"11"	102482578	102482578	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"G"	"rs766532112"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.431T>C"	"p.Met144Thr"	"p.M144T"	"ENST00000260228"	"3/10"	87	"76"	11	59	"59"	0	"MMP20,missense_variant,p.Met144Thr,ENST00000260228,NM_004771.3;RP11-817J15.2,intron_variant,,ENST00000542119,;RP11-817J15.2,downstream_gene_variant,,ENST00000544115,;MMP20,upstream_gene_variant,,ENST00000544938,;"	"G"	"ENSG00000137674"	"ENST00000260228"	"Transcript"	"missense_variant"	"444/1956"	"431/1452"	"144/483"	"M/T"	"aTg/aCg"	"rs766532112"	"1"	NA	-1	"MMP20"	"HGNC"	7167	"protein_coding"	"YES"	"CCDS8318.1"	"ENSP00000260228"	"O60882"	""	"UPI000013D0B3"	"NM_004771.3"	"deleterious(0.01)"	"benign(0.085)"	"3/10"	""	"Gene3D:3.40.390.10,Pfam_domain:PF00413,PIRSF_domain:PIRSF001191,Prints_domain:PR00138,hmmpanther:PTHR10201,hmmpanther:PTHR10201:SF125,SMART_domains:SM00235,Superfamily_domains:SSF55486"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	"9.415e-06"	"0"	"0"	"0"	"0"	"1.841e-05"	"0"	"0"	"1"	"PASS"	"CAT"	"22a696e6-0964-11e6-882a-cdd9646fc502"	"."	9.422e-06	"1/106138"	"1/106210"	"0/9064"	"0/11204"	"0/7858"	"0/6610"	"1/54308"	"0/694"	"0/16400"	"PASS"	"TRUE"	0.126436781609195	"WGS"	FALSE
"5561"	"YEATS4"	8089	"mskcc.org"	"GRCh37"	"12"	69764759	69764759	"+"	"Splice_Region"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.514+4A>T"	""	""	"ENST00000247843"	""	98	"60"	38	44	"44"	0	"YEATS4,splice_region_variant,,ENST00000247843,NM_006530.2;YEATS4,splice_region_variant,,ENST00000548020,;YEATS4,downstream_gene_variant,,ENST00000549685,;YEATS4,downstream_gene_variant,,ENST00000552955,;"	"T"	"ENSG00000127337"	"ENST00000247843"	"Transcript"	"splice_region_variant,intron_variant"	"-/1434"	"-/684"	"-/227"	""	""	""	"1"	NA	1	"YEATS4"	"HGNC"	24859	"protein_coding"	"YES"	"CCDS8990.1"	"ENSP00000247843"	"O95619"	"F8VTR4"	"UPI0000043800"	"NM_006530.2"	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"22bdbd08-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.387755102040816	"WGS"	FALSE
"5564"	"CSPG4"	1464	"mskcc.org"	"GRCh37"	"15"	75981650	75981650	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1756G>C"	"p.Ala586Pro"	"p.A586P"	"ENST00000308508"	"3/10"	95	"73"	22	51	"51"	0	"CSPG4,missense_variant,p.Ala586Pro,ENST00000308508,NM_001897.4;"	"G"	"ENSG00000173546"	"ENST00000308508"	"Transcript"	"missense_variant"	"1849/8290"	"1756/6969"	"586/2322"	"A/P"	"Gcc/Ccc"	""	"1"	NA	-1	"CSPG4"	"HGNC"	2466	"protein_coding"	"YES"	"CCDS10284.1"	"ENSP00000312506"	"Q6UVK1"	""	"UPI00001AEEB6"	"NM_001897.4"	"tolerated(0.47)"	"benign(0.001)"	"3/10"	""	"hmmpanther:PTHR15036,hmmpanther:PTHR15036:SF11"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"23070a76-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.231578947368421	"WGS"	FALSE
"5565"	"UBALD1"	124402	"mskcc.org"	"GRCh37"	"16"	4660505	4660505	"+"	"Missense_Mutation"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.172C>T"	"p.His58Tyr"	"p.H58Y"	"ENST00000283474"	"2/3"	86	"52"	34	36	"36"	0	"UBALD1,missense_variant,p.His58Tyr,ENST00000283474,NM_145253.2;UBALD1,missense_variant,p.His58Tyr,ENST00000587615,;UBALD1,synonymous_variant,p.=,ENST00000590965,;UBALD1,synonymous_variant,p.=,ENST00000587649,;UBALD1,5_prime_UTR_variant,,ENST00000590891,;UBALD1,5_prime_UTR_variant,,ENST00000591897,;UBALD1,5_prime_UTR_variant,,ENST00000591113,;UBALD1,intron_variant,,ENST00000591401,;UBALD1,intron_variant,,ENST00000588691,;"	"A"	"ENSG00000153443"	"ENST00000283474"	"Transcript"	"missense_variant"	"301/1413"	"172/534"	"58/177"	"H/Y"	"Cac/Tac"	""	"1"	NA	-1	"UBALD1"	"HGNC"	29576	"protein_coding"	"YES"	"CCDS10518.1"	"ENSP00000283474"	"Q8TB05"	"K7EKZ4,D3DUE0"	"UPI000006CD48"	"NM_145253.2"	"tolerated(0.12)"	"benign(0.041)"	"2/3"	""	"hmmpanther:PTHR31993"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"23101864-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.395348837209302	"WGS"	FALSE
"5566"	"DDX42"	11325	"mskcc.org"	"GRCh37"	"17"	61895353	61895353	"+"	"Missense_Mutation"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2412C>A"	"p.Asn804Lys"	"p.N804K"	"ENST00000578681"	"19/19"	96	"67"	29	50	"50"	0	"DDX42,missense_variant,p.Asn804Lys,ENST00000578681,NM_007372.3;DDX42,missense_variant,p.Asn804Lys,ENST00000583590,;DDX42,missense_variant,p.Asn804Lys,ENST00000389924,NM_203499.2;DDX42,missense_variant,p.Asn804Lys,ENST00000457800,;DDX42,missense_variant,p.Asn685Lys,ENST00000359353,;FTSJ3,downstream_gene_variant,,ENST00000427159,NM_017647.3;DDX42,intron_variant,,ENST00000582985,;DDX42,non_coding_transcript_exon_variant,,ENST00000584010,;DDX42,non_coding_transcript_exon_variant,,ENST00000578593,;DDX42,non_coding_transcript_exon_variant,,ENST00000581767,;DDX42,downstream_gene_variant,,ENST00000577940,;FTSJ3,downstream_gene_variant,,ENST00000583202,;FTSJ3,downstream_gene_variant,,ENST00000583901,;DDX42,downstream_gene_variant,,ENST00000584951,;DDX42,downstream_gene_variant,,ENST00000579539,;FTSJ3,downstream_gene_variant,,ENST00000579831,;"	"A"	"ENSG00000198231"	"ENST00000578681"	"Transcript"	"missense_variant"	"3013/4337"	"2412/2817"	"804/938"	"N/K"	"aaC/aaA"	""	"1"	NA	1	"DDX42"	"HGNC"	18676	"protein_coding"	"YES"	"CCDS32704.1"	"ENSP00000464050"	"Q86XP3"	"J3QRI2,B3KMI4"	"UPI000017DA3D"	"NM_007372.3"	"tolerated_low_confidence(0.17)"	"benign(0.02)"	"19/19"	""	"hmmpanther:PTHR24031,hmmpanther:PTHR24031:SF125"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"2342d2ea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"TRUE"	0.302083333333333	"WGS"	FALSE
"5567"	"ZNF99"	7652	"mskcc.org"	"GRCh37"	"19"	22940902	22940902	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"C"	"rs75814495"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1809C>G"	"p.Asn603Lys"	"p.N603K"	"ENST00000596209"	"4/4"	113	"103"	10	47	"47"	0	"ZNF99,missense_variant,p.Asn512Lys,ENST00000397104,;ZNF99,missense_variant,p.Asn603Lys,ENST00000596209,NM_001080409.2;CTC-451A6.4,upstream_gene_variant,,ENST00000442497,;"	"C"	"ENSG00000213973"	"ENST00000596209"	"Transcript"	"missense_variant"	"1900/2686"	"1809/2595"	"603/864"	"N/K"	"aaC/aaG"	"rs75814495"	"1"	NA	-1	"ZNF99"	"HGNC"	13175	"protein_coding"	"YES"	"CCDS59369.1"	"ENSP00000472969"	""	"M0R335"	"UPI0000426011"	"NM_001080409.2"	"tolerated(0.69)"	"benign(0.004)"	"4/4"	""	"Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF13465,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24375:SF102,hmmpanther:PTHR24375,PROSITE_profiles:PS50157"	""	""	""	NA	""	""	""	"C:0.0002"	"C:0"	NA	NA	NA	""	NA	""	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	"4.727e-05"	"0.0003644"	"8.938e-05"	"0"	"0"	"1.856e-05"	"0"	"0"	NA	"PASS"	"GGT"	"2369e4fc-0964-11e6-882a-cdd9646fc502"	"."	4.772e-05	"5/104784"	"5/105782"	"3/8232"	"1/11188"	"0/7818"	"0/6606"	"1/53870"	"0/686"	"0/16384"	"PASS"	"TRUE"	0.0884955752212389	"WGS"	FALSE
"5568"	"THADA"	63892	"mskcc.org"	"GRCh37"	"2"	43393849	43393849	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3245C>G"	"p.Thr1082Ser"	"p.T1082S"	"ENST00000330266"	"20/20"	66	"58"	8	29	"29"	0	"THADA,missense_variant,p.Thr1082Ser,ENST00000330266,;"	"C"	"ENSG00000115970"	"ENST00000330266"	"Transcript"	"missense_variant"	"3245/3294"	"3245/3294"	"1082/1097"	"T/S"	"aCc/aGc"	""	"1"	NA	-1	"THADA"	"HGNC"	19217	"protein_coding"	""	""	"ENSP00000331105"	""	"Q6YHU4,C9JER1"	"UPI00020651FD"	""	"tolerated_low_confidence(0.33)"	"unknown(0)"	"20/20"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"2385575a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.121212121212121	"WGS"	FALSE
"5569"	"GPAT2"	150763	"mskcc.org"	"GRCh37"	"2"	96690207	96690207	"+"	"Missense_Mutation"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1637T>C"	"p.Leu546Pro"	"p.L546P"	"ENST00000434632"	"16/23"	72	"49"	23	56	"55"	1	"GPAT2,missense_variant,p.Leu546Pro,ENST00000434632,;GPAT2,missense_variant,p.Leu546Pro,ENST00000359548,NM_207328.2;GPAT2,missense_variant,p.Leu546Pro,ENST00000377137,;GPAT2,missense_variant,p.Leu475Pro,ENST00000453542,;FAHD2CP,downstream_gene_variant,,ENST00000607780,;FAHD2CP,downstream_gene_variant,,ENST00000467292,;FAHD2CP,downstream_gene_variant,,ENST00000443258,;FAHD2CP,downstream_gene_variant,,ENST00000483000,;GPAT2,non_coding_transcript_exon_variant,,ENST00000482704,;GPAT2,non_coding_transcript_exon_variant,,ENST00000471757,;GPAT2,non_coding_transcript_exon_variant,,ENST00000486463,;GPAT2,non_coding_transcript_exon_variant,,ENST00000484440,;FAHD2CP,downstream_gene_variant,,ENST00000427863,;"	"G"	"ENSG00000186281"	"ENST00000434632"	"Transcript"	"missense_variant"	"2097/3061"	"1637/2388"	"546/795"	"L/P"	"cTg/cCg"	""	"1"	NA	-1	"GPAT2"	"HGNC"	27168	"protein_coding"	"YES"	"CCDS42714.1"	"ENSP00000389395"	"Q6NUI2"	"C9JYV5"	"UPI0000E5E123"	""	"deleterious(0)"	"possibly_damaging(0.883)"	"16/23"	""	"hmmpanther:PTHR12563:SF7,hmmpanther:PTHR12563"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"23925f9a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.319444444444444	"WGS"	FALSE
"5570"	"NPHP1"	4867	"mskcc.org"	"GRCh37"	"2"	110905542	110905542	"+"	"Missense_Mutation"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1388C>G"	"p.Ser463Cys"	"p.S463C"	"ENST00000316534"	"13/20"	89	"53"	36	48	"48"	0	"NPHP1,missense_variant,p.Ser463Cys,ENST00000316534,;NPHP1,missense_variant,p.Ser462Cys,ENST00000393272,NM_207181.2,NM_000272.3;NPHP1,missense_variant,p.Ser407Cys,ENST00000445609,NM_001128178.1;NPHP1,missense_variant,p.Ser406Cys,ENST00000417665,;NPHP1,missense_variant,p.Ser344Cys,ENST00000355301,NM_001128179.1;NPHP1,non_coding_transcript_exon_variant,,ENST00000496524,;NPHP1,non_coding_transcript_exon_variant,,ENST00000461707,;NPHP1,upstream_gene_variant,,ENST00000493051,;"	"C"	"ENSG00000144061"	"ENST00000316534"	"Transcript"	"missense_variant"	"1462/3756"	"1388/2202"	"463/733"	"S/C"	"tCt/tGt"	""	"1"	NA	-1	"NPHP1"	"HGNC"	7905	"protein_coding"	"YES"	"CCDS2086.1"	"ENSP00000313169"	"O15259"	""	"UPI0000358960"	""	"deleterious(0)"	"benign(0.335)"	"13/20"	""	"hmmpanther:PTHR15176:SF1,hmmpanther:PTHR15176"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"23957af4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.404494382022472	"WGS"	FALSE
"5571"	"FAM230A"	101927859	"mskcc.org"	"GRCh37"	"22"	20710196	20710196	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1928G>T"	"p.Arg643Met"	"p.R643M"	"ENST00000434783"	"8/8"	58	"53"	5	32	"32"	0	"FAM230A,missense_variant,p.Arg643Met,ENST00000434783,;USP41,intron_variant,,ENST00000454608,;FAM230A,downstream_gene_variant,,ENST00000583722,;USP41,intron_variant,,ENST00000486536,;"	"T"	"ENSG00000188280"	"ENST00000434783"	"Transcript"	"missense_variant"	"2112/8854"	"1928/2718"	"643/905"	"R/M"	"aGg/aTg"	""	"1"	NA	1	"FAM230A"	"HGNC"	45045	"protein_coding"	"YES"	""	"ENSP00000463576"	""	"J3QLJ4"	"UPI000268B488"	""	""	"possibly_damaging(0.515)"	"8/8"	""	"hmmpanther:PTHR22534"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"23d8ad7e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0862068965517241	"WGS"	FALSE
"5572"	"NCKIPSD"	51517	"mskcc.org"	"GRCh37"	"3"	48716355	48716355	"+"	"Missense_Mutation"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1747G>A"	"p.Val583Ile"	"p.V583I"	"ENST00000294129"	"11/13"	85	"58"	27	46	"46"	0	"NCKIPSD,missense_variant,p.Val583Ile,ENST00000294129,NM_016453.3;NCKIPSD,missense_variant,p.Val576Ile,ENST00000416649,NM_184231.2;NCKIPSD,missense_variant,p.Val583Ile,ENST00000341520,;NCKIPSD,missense_variant,p.Val39Ile,ENST00000413374,;NCKIPSD,downstream_gene_variant,,ENST00000439518,;NCKIPSD,downstream_gene_variant,,ENST00000426678,;NCKIPSD,downstream_gene_variant,,ENST00000453349,;NCKIPSD,downstream_gene_variant,,ENST00000415281,;NCKIPSD,non_coding_transcript_exon_variant,,ENST00000470006,;NCKIPSD,downstream_gene_variant,,ENST00000454134,;"	"T"	"ENSG00000213672"	"ENST00000294129"	"Transcript"	"missense_variant"	"1867/2989"	"1747/2169"	"583/722"	"V/I"	"Gtc/Atc"	""	"1"	NA	-1	"NCKIPSD"	"HGNC"	15486	"protein_coding"	"YES"	"CCDS2776.1"	"ENSP00000294129"	"Q9NZQ3"	"C9JMQ4,C9JC20"	"UPI0000135D86"	"NM_016453.3"	"tolerated(0.08)"	"benign(0.014)"	"11/13"	""	"Pfam_domain:PF09431,hmmpanther:PTHR13357"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"23ee0a34-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.317647058823529	"WGS"	TRUE
"5573"	"CACNA1D"	776	"mskcc.org"	"GRCh37"	"3"	53766035	53766035	"+"	"Splice_Region"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2467-8C>A"	""	""	"ENST00000288139"	""	91	"61"	30	49	"49"	0	"CACNA1D,splice_region_variant,,ENST00000288139,NM_000720.3;CACNA1D,splice_region_variant,,ENST00000350061,NM_001128840.2;CACNA1D,splice_region_variant,,ENST00000422281,NM_001128839.2;CACNA1D,splice_region_variant,,ENST00000481478,;"	"A"	"ENSG00000157388"	"ENST00000288139"	"Transcript"	"splice_region_variant,intron_variant"	"-/8991"	"-/6546"	"-/2181"	""	""	""	"1"	NA	1	"CACNA1D"	"HGNC"	1391	"protein_coding"	"YES"	"CCDS2872.1"	"ENSP00000288139"	"Q01668"	""	"UPI000005031A"	"NM_000720.3"	""	""	""	"18/48"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"23efc9fa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.32967032967033	"WGS"	TRUE
"5574"	"ZNF732"	654254	"mskcc.org"	"GRCh37"	"4"	289302	289302	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.151G>T"	"p.Asp51Tyr"	"p.D51Y"	"ENST00000419098"	"3/4"	84	"60"	24	34	"34"	0	"ZNF732,missense_variant,p.Asp51Tyr,ENST00000419098,NM_001137608.1;"	"A"	"ENSG00000186777"	"ENST00000419098"	"Transcript"	"missense_variant"	"162/2193"	"151/1758"	"51/585"	"D/Y"	"Gac/Tac"	""	"1"	NA	-1	"ZNF732"	"HGNC"	37138	"protein_coding"	"YES"	"CCDS46990.1"	"ENSP00000415774"	"B4DXR9"	""	"UPI00017A8291"	"NM_001137608.1"	"deleterious(0.04)"	"probably_damaging(0.99)"	"3/4"	""	"PROSITE_profiles:PS50805,hmmpanther:PTHR24384:SF81,hmmpanther:PTHR24384,SMART_domains:SM00349,Superfamily_domains:0044637"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"240ab530-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.285714285714286	"WGS"	FALSE
"5575"	"ADCY2"	108	"mskcc.org"	"GRCh37"	"5"	7773119	7773119	"+"	"Missense_Mutation"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2289G>T"	"p.Met763Ile"	"p.M763I"	"ENST00000338316"	"18/25"	78	"46"	32	55	"55"	0	"ADCY2,missense_variant,p.Met763Ile,ENST00000338316,NM_020546.2;ADCY2,missense_variant,p.Met583Ile,ENST00000537121,;ADCY2,upstream_gene_variant,,ENST00000493243,;"	"T"	"ENSG00000078295"	"ENST00000338316"	"Transcript"	"missense_variant"	"2378/6575"	"2289/3276"	"763/1091"	"M/I"	"atG/atT"	""	"1"	NA	1	"ADCY2"	"HGNC"	233	"protein_coding"	"YES"	"CCDS3872.2"	"ENSP00000342952"	"Q08462"	"Q7RTV6,Q71UM8,D6REB8"	"UPI000066D9F2"	"NM_020546.2"	"tolerated(0.13)"	"benign(0.008)"	"18/25"	""	"hmmpanther:PTHR11920,hmmpanther:PTHR11920:SF253,Transmembrane_helices:TMhelix"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"2439db80-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.41025641025641	"WGS"	FALSE
"5576"	"ZAN"	7455	"mskcc.org"	"GRCh37"	"7"	100365568	100365568	"+"	"Missense_Mutation"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4975G>C"	"p.Asp1659His"	"p.D1659H"	"ENST00000546292"	"25/46"	93	"58"	35	32	"32"	0	"ZAN,missense_variant,p.Asp1659His,ENST00000542585,NM_003386.1;ZAN,missense_variant,p.Asp1659His,ENST00000538115,;ZAN,missense_variant,p.Asp1659His,ENST00000546292,NM_173059.1;ZAN,missense_variant,p.Asp236His,ENST00000546213,;ZAN,missense_variant,p.Asp1659His,ENST00000427578,;ZAN,missense_variant,p.Asp1659His,ENST00000449052,;ZAN,missense_variant,p.Asp1659His,ENST00000349350,;ZAN,missense_variant,p.Asp1659His,ENST00000443370,;ZAN,missense_variant,p.Asp1659His,ENST00000421100,;ZAN,missense_variant,p.Asp1659His,ENST00000348028,;"	"C"	"ENSG00000146839"	"ENST00000546292"	"Transcript"	"missense_variant"	"5123/8375"	"4975/8163"	"1659/2720"	"D/H"	"Gac/Cac"	""	"1"	NA	1	"ZAN"	"HGNC"	12857	"protein_coding"	"YES"	""	"ENSP00000445943"	""	"F5H0T8"	"UPI00004575C6"	"NM_173059.1"	""	"unknown(0)"	"25/46"	""	"SMART_domains:SM00216,Pfam_domain:PF00094,hmmpanther:PTHR11339:SF221,hmmpanther:PTHR11339,PROSITE_profiles:PS51233"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"249901aa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"TRUE"	0.376344086021505	"WGS"	FALSE
"5577"	"MYOM2"	9172	"mskcc.org"	"GRCh37"	"8"	2017593	2017593	"+"	"Missense_Mutation"	"SNP"	"G"	"A"	"A"	"rs141286372"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.770G>A"	"p.Arg257His"	"p.R257H"	"ENST00000262113"	"8/37"	83	"52"	31	65	"65"	0	"MYOM2,missense_variant,p.Arg257His,ENST00000262113,NM_003970.2;MYOM2,intron_variant,,ENST00000523438,;"	"A"	"ENSG00000036448"	"ENST00000262113"	"Transcript"	"missense_variant"	"911/5014"	"770/4398"	"257/1465"	"R/H"	"cGt/cAt"	"rs141286372"	"1"	NA	1	"MYOM2"	"HGNC"	7614	"protein_coding"	"YES"	"CCDS5957.1"	"ENSP00000262113"	"P54296"	"E7EWH9"	"UPI000013D260"	"NM_003970.2"	"tolerated(0.73)"	"benign(0)"	"8/37"	""	"hmmpanther:PTHR19900,hmmpanther:PTHR19900:SF48"	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	"T:0.0002"	"T:0"	NA	NA	NA	""	NA	""	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	"4.708e-05"	"0"	"0"	"0"	"0"	"3.68e-05"	"0"	"0.0001828"	NA	"PASS"	"CGT"	"24ab173c-0964-11e6-882a-cdd9646fc502"	"."	4.708e-05	"5/106210"	"5/106210"	"0/9066"	"0/11216"	"0/7866"	"0/6614"	"2/54346"	"0/694"	"3/16408"	"PASS"	"TRUE"	0.373493975903614	"WGS"	FALSE
"5578"	"USP9X"	8239	"mskcc.org"	"GRCh37"	"X"	41073880	41073880	"+"	"Missense_Mutation"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5249T>A"	"p.Leu1750His"	"p.L1750H"	"ENST00000324545"	"34/45"	50	"15"	35	27	"27"	0	"USP9X,missense_variant,p.Leu1750His,ENST00000324545,NM_001039590.2,NM_001039591.2;USP9X,missense_variant,p.Leu1750His,ENST00000378308,;USP9X,downstream_gene_variant,,ENST00000487625,;"	"A"	"ENSG00000124486"	"ENST00000324545"	"Transcript"	"missense_variant"	"5882/12401"	"5249/7713"	"1750/2570"	"L/H"	"cTt/cAt"	""	"1"	NA	1	"USP9X"	"HGNC"	12632	"protein_coding"	"YES"	"CCDS43930.1"	"ENSP00000316357"	"Q93008"	""	"UPI00001AF419"	"NM_001039590.2,NM_001039591.2"	"deleterious(0)"	"probably_damaging(0.999)"	"34/45"	""	"Superfamily_domains:SSF54001,Pfam_domain:PF00443,hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF359,PROSITE_profiles:PS50235"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"24f59ece-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.7	"WGS"	FALSE
"5579"	"RBMXL3"	139804	"mskcc.org"	"GRCh37"	"X"	114425868	114425868	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1864C>G"	"p.His622Asp"	"p.H622D"	"ENST00000424776"	"1/1"	29	"23"	6	20	"20"	0	"RBMXL3,missense_variant,p.His622Asp,ENST00000424776,NM_001145346.1;LRCH2,intron_variant,,ENST00000317135,NM_020871.3;LRCH2,intron_variant,,ENST00000538422,NM_001243963.1;"	"G"	"ENSG00000175718"	"ENST00000424776"	"Transcript"	"missense_variant"	"1906/3469"	"1864/3204"	"622/1067"	"H/D"	"Cac/Gac"	""	"1"	NA	1	"RBMXL3"	"HGNC"	26859	"protein_coding"	"YES"	"CCDS55478.1"	"ENSP00000417451"	"Q8N7X1"	""	"UPI0001932819"	"NM_001145346.1"	"tolerated_low_confidence(1)"	"benign(0.001)"	"1/1"	""	"hmmpanther:PTHR24012,hmmpanther:PTHR24012:SF325"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"24fc813a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.206896551724138	"WGS"	FALSE
"5580"	"IL18BP"	10068	"mskcc.org"	"GRCh37"	"11"	71712843	71712858	"+"	"Frame_Shift_Del"	"DEL"	"CAACCTTGCCCCCCAC"	"CAACCTTGCCCCCCAC"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"CAACCTTGCCCCCCAC"	"CAACCTTGCCCCCCAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.522_537delAACCTTGCCCCCCACC"	"p.Thr175LysfsTer39"	"p.T175Kfs*39"	"ENST00000404792"	"5/5"	86	"."	20	43	"."	0	"IL18BP,frameshift_variant,p.Thr175LysfsTer39,ENST00000404792,NM_173042.2,NM_005699.3;IL18BP,frameshift_variant,p.Thr175LysfsTer39,ENST00000393703,NM_001039660.1;IL18BP,frameshift_variant,p.Thr175LysfsTer39,ENST00000337131,;IL18BP,frameshift_variant,p.Thr175LysfsTer39,ENST00000393705,NM_001039659.1;IL18BP,frameshift_variant,p.Thr175LysfsTer39,ENST00000260049,NM_001145057.1;IL18BP,frameshift_variant,p.Asn84GlnfsTer16,ENST00000393707,NM_001145055.1;IL18BP,3_prime_UTR_variant,,ENST00000497194,;NUMA1,downstream_gene_variant,,ENST00000393695,NM_006185.2;NUMA1,downstream_gene_variant,,ENST00000358965,NM_001286561.1;NUMA1,downstream_gene_variant,,ENST00000351960,;NUMA1,downstream_gene_variant,,ENST00000541584,;RNF121,downstream_gene_variant,,ENST00000361756,NM_018320.4;RNF121,downstream_gene_variant,,ENST00000545854,;RNF121,downstream_gene_variant,,ENST00000530137,;RNF121,downstream_gene_variant,,ENST00000393713,;IL18BP,downstream_gene_variant,,ENST00000531053,;NUMA1,downstream_gene_variant,,ENST00000541262,;IL18BP,downstream_gene_variant,,ENST00000525932,;IL18BP,downstream_gene_variant,,ENST00000531777,;IL18BP,downstream_gene_variant,,ENST00000414358,;IL18BP,frameshift_variant,p.Asn132GlnfsTer16,ENST00000343898,NM_173044.2;IL18BP,frameshift_variant,p.Thr175LysfsTer39,ENST00000534583,;NUMA1,downstream_gene_variant,,ENST00000545721,;RNF121,downstream_gene_variant,,ENST00000526549,;NUMA1,downstream_gene_variant,,ENST00000540626,;"	"-"	"ENSG00000137496"	"ENST00000404792"	"Transcript"	"frameshift_variant"	"1443-1458/2172"	"521-536/585"	"174-179/194"	"ATLPPT/X"	"gCAACCTTGCCCCCCACc/gc"	""	"1"	NA	1	"IL18BP"	"HGNC"	5987	"protein_coding"	"YES"	"CCDS8206.2"	"ENSP00000384212"	"O95998"	"Q9UNH2"	"UPI000000DA78"	"NM_173042.2,NM_005699.3"	NA	NA	"5/5"	""	"hmmpanther:PTHR14292"	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"HIGH"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCAACCTTGCCCCCCACC"	"08ff1e54-06e7-11e6-b3b3-eb2eb0f6b27b"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"TRUE"	0.232558139534884	"WGS"	FALSE
"5581"	"ANKRD62"	342850	"mskcc.org"	"GRCh37"	"18"	12125958	12125990	"+"	"Nonsense_Mutation"	"DEL"	"CCAGTGGCCTGGAAACTGAGCTCCATTATGAAA"	"CCAGTGGCCTGGAAACTGAGCTCCATTATGAAA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"CCAGTGGCCTGGAAACTGAGCTCCATTATGAAA"	"CCAGTGGCCTGGAAACTGAGCTCCATTATGAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2138_2170delCCAGTGGCCTGGAAACTGAGCTCCATTATGAAA"	"p.Ser713_Arg724delinsTer"	"p.S713_R724delins*"	"ENST00000587848"	"13/14"	94	"."	26	57	"."	0	"ANKRD62,stop_gained,p.Ser699_Arg710delinsTer,ENST00000314074,NM_001277333.1;ANKRD62,stop_gained,p.Ser713_Arg724delinsTer,ENST00000587848,;ANKRD62,non_coding_transcript_exon_variant,,ENST00000418274,;"	"-"	"ENSG00000181626"	"ENST00000587848"	"Transcript"	"stop_gained,inframe_deletion"	"2303-2335/2919"	"2138-2170/2754"	"713-724/917"	"SSGLETELHYER/*"	"tCCAGTGGCCTGGAAACTGAGCTCCATTATGAAAga/tga"	""	"1"	NA	1	"ANKRD62"	"HGNC"	35241	"protein_coding"	"YES"	"CCDS67439.1"	"ENSP00000467740"	"A6NC57"	"K7EQA3,J3QTZ2"	"UPI0000DD848C"	""	NA	NA	"13/14"	""	"Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR24147,Pfam_domain:PF14915"	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"HIGH"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCCAGTGGCCTGGAAACTGAGCTCCATTATGAAAG"	"978ac3a0-06e5-11e6-aa06-d8e65716bf98"	"1331"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"TRUE"	0.276595744680851	"WGS"	FALSE
"5582"	"KMT2C"	58508	"mskcc.org"	"GRCh37"	"7"	151873938	151873938	"+"	"Frame_Shift_Del"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8600delA"	"p.Lys2867ArgfsTer39"	"p.K2867Rfs*39"	"ENST00000262189"	"38/59"	92	"."	22	43	"."	0	"KMT2C,frameshift_variant,p.Lys2867ArgfsTer39,ENST00000355193,;KMT2C,frameshift_variant,p.Lys2867ArgfsTer39,ENST00000262189,NM_170606.2;KMT2C,frameshift_variant,p.Lys373ArgfsTer39,ENST00000360104,;KMT2C,downstream_gene_variant,,ENST00000558665,;KMT2C,3_prime_UTR_variant,,ENST00000558084,;KMT2C,non_coding_transcript_exon_variant,,ENST00000473186,;"	"-"	"ENSG00000055609"	"ENST00000262189"	"Transcript"	"frameshift_variant"	"8819/16862"	"8600/14736"	"2867/4911"	"K/X"	"aAg/ag"	""	"1"	NA	-1	"KMT2C"	"HGNC"	13726	"protein_coding"	"YES"	"CCDS5931.1"	"ENSP00000262189"	"Q8NEZ4"	"Q6N019,Q75MN6,H0YMU7"	"UPI0000141B9F"	"NM_170606.2"	NA	NA	"38/59"	""	"hmmpanther:PTHR22884,hmmpanther:PTHR22884:SF305"	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"HIGH"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"536cdcc2-06e9-11e6-982c-ec0940ad6167"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"TRUE"	0.239130434782609	"WGS"	TRUE
"5583"	"RPRD2"	23248	"mskcc.org"	"GRCh37"	"1"	150445056	150445056	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3632G>T"	"p.Gly1211Val"	"p.G1211V"	"ENST00000369068"	"11/11"	60	"48"	12	40	"40"	0	"RPRD2,missense_variant,p.Gly1185Val,ENST00000401000,;RPRD2,missense_variant,p.Gly1211Val,ENST00000369068,NM_015203.3;RPRD2,downstream_gene_variant,,ENST00000539519,;RPRD2,non_coding_transcript_exon_variant,,ENST00000492220,;"	"T"	"ENSG00000163125"	"ENST00000369068"	"Transcript"	"missense_variant"	"3636/4612"	"3632/4386"	"1211/1461"	"G/V"	"gGg/gTg"	""	"1"	NA	1	"RPRD2"	"HGNC"	29039	"protein_coding"	"YES"	"CCDS44216.1"	"ENSP00000358064"	"Q5VT52"	""	"UPI00001D7CA8"	"NM_015203.3"	"deleterious_low_confidence(0.01)"	"probably_damaging(0.999)"	"11/11"	""	"Low_complexity_(Seg):seg,hmmpanther:PTHR12460,hmmpanther:PTHR12460:SF0"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"758bead8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.2	"WGS"	FALSE
"5584"	"SLC39A12"	221074	"mskcc.org"	"GRCh37"	"10"	18250778	18250778	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.530C>A"	"p.Thr177Asn"	"p.T177N"	"ENST00000377369"	"3/13"	86	"74"	12	69	"69"	0	"SLC39A12,missense_variant,p.Thr177Asn,ENST00000377369,NM_001145195.1;SLC39A12,missense_variant,p.Thr177Asn,ENST00000377371,NM_001282733.1;SLC39A12,missense_variant,p.Thr177Asn,ENST00000377374,NM_152725.3;SLC39A12,missense_variant,p.Thr43Asn,ENST00000539911,NM_001282734.1;"	"A"	"ENSG00000148482"	"ENST00000377369"	"Transcript"	"missense_variant"	"803/2808"	"530/2076"	"177/691"	"T/N"	"aCt/aAt"	""	"1"	NA	1	"SLC39A12"	"HGNC"	20860	"protein_coding"	"YES"	"CCDS44362.1"	"ENSP00000366586"	"Q504Y0"	"F5GX72"	"UPI00004044FC"	"NM_001145195.1"	"deleterious(0.03)"	"possibly_damaging(0.836)"	"3/13"	""	"hmmpanther:PTHR12191,hmmpanther:PTHR12191:SF4"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"759fdc50-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.13953488372093	"WGS"	FALSE
"5585"	"BCKDK"	10295	"mskcc.org"	"GRCh37"	"16"	31123462	31123462	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"rs780549207"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1115C>T"	"p.Thr372Met"	"p.T372M"	"ENST00000394951"	"13/13"	54	"44"	10	39	"39"	0	"BCKDK,missense_variant,p.Thr372Met,ENST00000394951,;BCKDK,missense_variant,p.Thr372Met,ENST00000219794,NM_005881.3,NM_001122957.2;BCKDK,3_prime_UTR_variant,,ENST00000394950,;BCKDK,3_prime_UTR_variant,,ENST00000287507,NM_001271926.1;BCKDK,intron_variant,,ENST00000567682,;KAT8,upstream_gene_variant,,ENST00000543774,;BCKDK,downstream_gene_variant,,ENST00000484226,;BCKDK,downstream_gene_variant,,ENST00000561755,;BCKDK,downstream_gene_variant,,ENST00000567676,;AC135050.1,downstream_gene_variant,,ENST00000517000,;BCKDK,3_prime_UTR_variant,,ENST00000567530,;BCKDK,non_coding_transcript_exon_variant,,ENST00000566568,;"	"T"	"ENSG00000103507"	"ENST00000394951"	"Transcript"	"missense_variant"	"1738/2164"	"1115/1239"	"372/412"	"T/M"	"aCg/aTg"	"rs780549207"	"1"	NA	1	"BCKDK"	"HGNC"	16902	"protein_coding"	"YES"	"CCDS10705.1"	"ENSP00000378405"	"O14874"	"H3BQP2,H3BNP3,A8MY43"	"UPI0000126825"	""	"tolerated(0.12)"	"probably_damaging(0.951)"	"13/13"	""	"Gene3D:3.30.565.10,Pfam_domain:PF02518,Prints_domain:PR00344,PROSITE_profiles:PS50109,hmmpanther:PTHR11947,hmmpanther:PTHR11947:SF20,SMART_domains:SM00387,Superfamily_domains:SSF55874"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	"2.825e-05"	"0"	"0"	"0"	"0"	"1.856e-05"	"0"	"0.0001294"	"1"	"PASS"	"ACG"	"76006bba-0003-11e6-8a0f-c369372d9a03"	"."	2.865e-05	"3/104710"	"3/106204"	"0/9038"	"0/11204"	"0/7852"	"0/6604"	"1/53878"	"0/682"	"2/15452"	"PASS"	"TRUE"	0.185185185185185	"WGS"	FALSE
"5586"	"RP11-467L24.1"	0	"mskcc.org"	"GRCh37"	"16"	64568892	64568892	"+"	"Splice_Region"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.355-3C>G"	""	""	"ENST00000564046"	""	103	"73"	30	66	"66"	0	"RP11-467L24.1,splice_region_variant,,ENST00000564046,;"	"G"	"ENSG00000259846"	"ENST00000564046"	"Transcript"	"splice_region_variant,intron_variant,non_coding_transcript_variant"	"-/548"	""	""	""	""	""	"1"	NA	1	"RP11-467L24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"760580fa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.29126213592233	"WGS"	FALSE
"5587"	"ZNF14"	7561	"mskcc.org"	"GRCh37"	"19"	19822297	19822297	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1793T>G"	"p.Phe598Cys"	"p.F598C"	"ENST00000344099"	"4/4"	72	"66"	6	43	"43"	0	"ZNF14,missense_variant,p.Phe598Cys,ENST00000344099,NM_021030.2;CTC-412M14.5,downstream_gene_variant,,ENST00000604034,;"	"C"	"ENSG00000105708"	"ENST00000344099"	"Transcript"	"missense_variant"	"1932/2949"	"1793/1929"	"598/642"	"F/C"	"tTt/tGt"	""	"1"	NA	-1	"ZNF14"	"HGNC"	12924	"protein_coding"	"YES"	"CCDS12409.1"	"ENSP00000340514"	"P17017"	""	"UPI00001E058E"	"NM_021030.2"	"tolerated(0.18)"	"benign(0)"	"4/4"	""	"Gene3D:3.30.160.60,PROSITE_patterns:PS00028,PROSITE_profiles:PS50157,hmmpanther:PTHR24379,hmmpanther:PTHR24379:SF21,SMART_domains:SM00355,Superfamily_domains:SSF57667"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7624a71e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0833333333333333	"WGS"	FALSE
"5588"	"NCKAP5"	344148	"mskcc.org"	"GRCh37"	"2"	133539621	133539621	"+"	"Missense_Mutation"	"SNP"	"C"	"T"	"T"	"rs7607544"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4763G>A"	"p.Arg1588Gln"	"p.R1588Q"	"ENST00000409261"	"14/20"	117	"88"	29	55	"55"	0	"NCKAP5,missense_variant,p.Arg1588Gln,ENST00000409261,NM_207363.2;NCKAP5,missense_variant,p.Arg1588Gln,ENST00000317721,;NCKAP5,intron_variant,,ENST00000409213,NM_207481.3;NCKAP5,intron_variant,,ENST00000405974,;NCKAP5,upstream_gene_variant,,ENST00000473859,;"	"T"	"ENSG00000176771"	"ENST00000409261"	"Transcript"	"missense_variant"	"5137/7592"	"4763/5730"	"1588/1909"	"R/Q"	"cGg/cAg"	"rs7607544"	"1"	NA	-1	"NCKAP5"	"HGNC"	29847	"protein_coding"	"YES"	"CCDS46418.1"	"ENSP00000387128"	"O14513"	"C9JYL7"	"UPI0000E07A3F"	"NM_207363.2"	"tolerated(0.6)"	"benign(0.091)"	"14/20"	""	"Pfam_domain:PF15246,hmmpanther:PTHR21740,hmmpanther:PTHR21740:SF0"	"T:0.0008"	"T:0.003"	"T:0"	NA	"T:0"	"T:0"	"T:0"	"T:0.0052"	"T:0"	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	"0.0004543"	"0.00508"	"8.917e-05"	"0.0002549"	"0"	"3.681e-05"	"0"	"0"	NA	"common_variant"	"CCG"	"76405f90-0003-11e6-8a0f-c369372d9a03"	"."	0.0004547	"48/105570"	"48/105662"	"43/8464"	"1/11214"	"2/7846"	"0/6614"	"2/54336"	"0/690"	"0/16406"	"PASS"	"TRUE"	0.247863247863248	"WGS"	FALSE
"5589"	"ZEB2"	9839	"mskcc.org"	"GRCh37"	"2"	145274917	145274917	"+"	"Translation_Start_Site"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1A>G"	"p.Met1?"	"p.M1?"	"ENST00000558170"	"2/10"	71	"59"	12	59	"59"	0	"ZEB2,start_lost,p.Met1?,ENST00000558170,NM_014795.3;ZEB2,start_lost,p.Met1?,ENST00000409487,;ZEB2,start_lost,p.Met1?,ENST00000539609,NM_001171653.1;ZEB2,start_lost,p.Met1?,ENST00000303660,;ZEB2,start_lost,p.Met1?,ENST00000465070,;ZEB2,start_lost,p.Met1?,ENST00000470879,;ZEB2,start_lost,p.Met1?,ENST00000427902,;ZEB2,start_lost,p.Met1?,ENST00000392861,;ZEB2,start_lost,p.Met1?,ENST00000409211,;ZEB2,start_lost,p.Met1?,ENST00000431672,;ZEB2,start_lost,p.Met1?,ENST00000444559,;ZEB2,start_lost,p.Met1?,ENST00000462355,;ZEB2,start_lost,p.Met1?,ENST00000435831,;ZEB2-AS1,upstream_gene_variant,,ENST00000427278,;ZEB2-AS1,upstream_gene_variant,,ENST00000608361,;ZEB2-AS1,upstream_gene_variant,,ENST00000610265,;ZEB2-AS1,upstream_gene_variant,,ENST00000595109,;ZEB2-AS1,upstream_gene_variant,,ENST00000609842,;ZEB2-AS1,upstream_gene_variant,,ENST00000609376,;ZEB2-AS1,upstream_gene_variant,,ENST00000595449,;ZEB2-AS1,upstream_gene_variant,,ENST00000602006,;ZEB2-AS1,upstream_gene_variant,,ENST00000421083,;ZEB2-AS1,upstream_gene_variant,,ENST00000609819,;ZEB2-AS1,upstream_gene_variant,,ENST00000428623,;ZEB2,non_coding_transcript_exon_variant,,ENST00000493689,;ZEB2,non_coding_transcript_exon_variant,,ENST00000453352,;ZEB2,non_coding_transcript_exon_variant,,ENST00000434448,;ZEB2,non_coding_transcript_exon_variant,,ENST00000484313,;ZEB2,upstream_gene_variant,,ENST00000479735,;ZEB2,downstream_gene_variant,,ENST00000475115,;ZEB2,downstream_gene_variant,,ENST00000464380,;ZEB2,non_coding_transcript_exon_variant,,ENST00000472146,;ZEB2,non_coding_transcript_exon_variant,,ENST00000465308,;ZEB2,non_coding_transcript_exon_variant,,ENST00000560384,;ZEB2,non_coding_transcript_exon_variant,,ENST00000461784,;ZEB2,non_coding_transcript_exon_variant,,ENST00000476394,;"	"C"	"ENSG00000169554"	"ENST00000558170"	"Transcript"	"start_lost"	"1186/10200"	"1/3645"	"1/1214"	"M/V"	"Atg/Gtg"	""	"1"	NA	-1	"ZEB2"	"HGNC"	14881	"protein_coding"	"YES"	"CCDS2186.1"	"ENSP00000454157"	"O60315"	"U3KPV5,Q53TG0,Q53TD9,E7EUW9,E7ESP8,C9JUQ1,C9JU62,A0JP08"	"UPI00001359A2"	"NM_014795.3"	"deleterious_low_confidence(0)"	"benign(0.012)"	"2/10"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"HIGH"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"7641a7f6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.169014084507042	"WGS"	FALSE
"5590"	"RFTN2"	130132	"mskcc.org"	"GRCh37"	"2"	198511219	198511219	"+"	"Missense_Mutation"	"SNP"	"C"	"T"	"T"	"rs765379863"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.311G>A"	"p.Arg104His"	"p.R104H"	"ENST00000295049"	"2/9"	83	"61"	22	46	"46"	0	"RFTN2,missense_variant,p.Arg104His,ENST00000295049,NM_144629.2;RFTN2,missense_variant,p.Arg104His,ENST00000429081,;"	"T"	"ENSG00000162944"	"ENST00000295049"	"Transcript"	"missense_variant"	"848/5827"	"311/1506"	"104/501"	"R/H"	"cGc/cAc"	"rs765379863"	"1"	NA	-1	"RFTN2"	"HGNC"	26402	"protein_coding"	"YES"	"CCDS2323.1"	"ENSP00000295049"	"Q52LD8"	"C9J6C2"	"UPI000013E1F9"	"NM_144629.2"	"deleterious(0)"	"probably_damaging(0.972)"	"2/9"	""	"Low_complexity_(Seg):seg,hmmpanther:PTHR17601,hmmpanther:PTHR17601:SF1,Pfam_domain:PF15250"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	"9.415e-06"	"0"	"0"	"0"	"0"	"1.843e-05"	"0"	"0"	NA	"PASS"	"GCG"	"764768a8-0003-11e6-8a0f-c369372d9a03"	"."	9.426e-06	"1/106084"	"1/106210"	"0/9062"	"0/11206"	"0/7866"	"0/6614"	"1/54274"	"0/692"	"0/16370"	"PASS"	"TRUE"	0.265060240963855	"WGS"	FALSE
"5591"	"RUFY4"	285180	"mskcc.org"	"GRCh37"	"2"	218940054	218940054	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.899G>A"	"p.Arg300Lys"	"p.R300K"	"ENST00000374155"	"8/12"	69	"58"	11	67	"67"	0	"RUFY4,missense_variant,p.Arg300Lys,ENST00000374155,;RUFY4,missense_variant,p.Arg280Lys,ENST00000344321,NM_198483.3;RUFY4,3_prime_UTR_variant,,ENST00000441828,;RUFY4,non_coding_transcript_exon_variant,,ENST00000463872,;RUFY4,downstream_gene_variant,,ENST00000465568,;RUFY4,downstream_gene_variant,,ENST00000480164,;RUFY4,downstream_gene_variant,,ENST00000463618,;RUFY4,downstream_gene_variant,,ENST00000472496,;RUFY4,3_prime_UTR_variant,,ENST00000457754,;RUFY4,downstream_gene_variant,,ENST00000495721,;"	"A"	"ENSG00000188282"	"ENST00000374155"	"Transcript"	"missense_variant"	"1309/2977"	"899/1824"	"300/607"	"R/K"	"aGa/aAa"	""	"1"	NA	1	"RUFY4"	"HGNC"	24804	"protein_coding"	"YES"	""	"ENSP00000363270"	""	"C9J235"	"UPI000035E73D"	""	"tolerated(0.56)"	"benign(0.023)"	"8/12"	""	"hmmpanther:PTHR18851,hmmpanther:PTHR18851:SF13"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76499ba0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"TRUE"	0.159420289855072	"WGS"	FALSE
"5592"	"FTCD"	10841	"mskcc.org"	"GRCh37"	"21"	47565733	47565733	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1097T>G"	"p.Met366Arg"	"p.M366R"	"ENST00000291670"	"9/15"	19	"15"	4	31	"31"	0	"FTCD,missense_variant,p.Met366Arg,ENST00000397748,;FTCD,missense_variant,p.Met366Arg,ENST00000359679,;FTCD,missense_variant,p.Met366Arg,ENST00000291670,NM_006657.2;FTCD,missense_variant,p.Met366Arg,ENST00000397746,NM_206965.1;FTCD,missense_variant,p.Met366Arg,ENST00000355384,;FTCD,missense_variant,p.Met366Arg,ENST00000397743,;FTCD,splice_region_variant,,ENST00000498355,;FTCD,upstream_gene_variant,,ENST00000460011,;FTCD,upstream_gene_variant,,ENST00000494498,;FTCD,upstream_gene_variant,,ENST00000488577,;FTCD,downstream_gene_variant,,ENST00000480950,;FTCD,downstream_gene_variant,,ENST00000469240,;"	"C"	"ENSG00000160282"	"ENST00000291670"	"Transcript"	"missense_variant,splice_region_variant"	"1141/1905"	"1097/1626"	"366/541"	"M/R"	"aTg/aGg"	""	"1"	NA	-1	"FTCD"	"HGNC"	3974	"protein_coding"	"YES"	"CCDS13731.1"	"ENSP00000291670"	"O95954"	"Q49AR5,D3DSM8"	"UPI000012AC75"	"NM_006657.2"	"deleterious(0.04)"	"benign(0.049)"	"9/15"	""	"Low_complexity_(Seg):seg,hmmpanther:PTHR12234:SF0,hmmpanther:PTHR12234,Pfam_domain:PF04961,Superfamily_domains:0041691"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"76620302-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"TRUE"	0.210526315789474	"WGS"	FALSE
"5593"	"PPP2R3A"	5523	"mskcc.org"	"GRCh37"	"3"	135822202	135822202	"+"	"Missense_Mutation"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3206C>T"	"p.Pro1069Leu"	"p.P1069L"	"ENST00000264977"	"12/14"	68	"49"	19	50	"50"	0	"PPP2R3A,missense_variant,p.Pro1069Leu,ENST00000264977,NM_001190447.1,NM_002718.4;PPP2R3A,missense_variant,p.Pro448Leu,ENST00000334546,NM_181897.2;PPP2R3A,missense_variant,p.Pro333Leu,ENST00000490467,;PPP2R3A,non_coding_transcript_exon_variant,,ENST00000469270,;"	"T"	"ENSG00000073711"	"ENST00000264977"	"Transcript"	"missense_variant"	"3823/6795"	"3206/3453"	"1069/1150"	"P/L"	"cCc/cTc"	""	"1"	NA	1	"PPP2R3A"	"HGNC"	9307	"protein_coding"	"YES"	"CCDS3087.1"	"ENSP00000264977"	"Q06190"	""	"UPI0000124EAC"	"NM_001190447.1,NM_002718.4"	"deleterious(0.01)"	"probably_damaging(0.998)"	"12/14"	""	"hmmpanther:PTHR14095,hmmpanther:PTHR14095:SF3"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"767b5262-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.279411764705882	"WGS"	FALSE
"5594"	"EPHA5"	2044	"mskcc.org"	"GRCh37"	"4"	66213909	66213909	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2521C>A"	"p.Pro841Thr"	"p.P841T"	"ENST00000273854"	"15/18"	123	"115"	8	61	"61"	0	"EPHA5,missense_variant,p.Pro841Thr,ENST00000273854,NM_004439.5,NM_001281765.1;EPHA5,missense_variant,p.Pro842Thr,ENST00000511294,NM_001281767.1;EPHA5,missense_variant,p.Pro678Thr,ENST00000432638,;EPHA5,missense_variant,p.Pro819Thr,ENST00000354839,NM_182472.2;"	"T"	"ENSG00000145242"	"ENST00000273854"	"Transcript"	"missense_variant"	"3122/8266"	"2521/3114"	"841/1037"	"P/T"	"Cca/Aca"	""	"1"	NA	-1	"EPHA5"	"HGNC"	3389	"protein_coding"	"YES"	"CCDS3513.1"	"ENSP00000273854"	"P54756"	""	"UPI000013D9D9"	"NM_004439.5,NM_001281765.1"	"deleterious(0.01)"	"probably_damaging(0.996)"	"15/18"	""	"PROSITE_profiles:PS50011,hmmpanther:PTHR24416:SF17,hmmpanther:PTHR24416,Pfam_domain:PF07714,Gene3D:1.10.510.10,PIRSF_domain:PIRSF000666,SMART_domains:SM00219,Superfamily_domains:SSF56112,Prints_domain:PR00109"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"76906a4e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0650406504065041	"WGS"	FALSE
"5595"	"GYPA"	2993	"mskcc.org"	"GRCh37"	"4"	145040931	145040931	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	"rs144802902"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.140C>T"	"p.Thr47Met"	"p.T47M"	"ENST00000360771"	"3/7"	115	"94"	21	62	"62"	0	"GYPA,missense_variant,p.Thr47Met,ENST00000360771,NM_002099.6;GYPA,missense_variant,p.Thr14Met,ENST00000324022,;GYPA,missense_variant,p.Thr21Met,ENST00000535709,;GYPA,missense_variant,p.Thr47Met,ENST00000512064,;GYPB,intron_variant,,ENST00000283126,;GYPA,intron_variant,,ENST00000504786,;GYPA,intron_variant,,ENST00000503627,;GYPA,intron_variant,,ENST00000512789,;RP11-673E1.4,intron_variant,,ENST00000506982,;GYPA,3_prime_UTR_variant,,ENST00000508337,;GYPA,non_coding_transcript_exon_variant,,ENST00000514603,;GYPA,intron_variant,,ENST00000509346,;GYPA,upstream_gene_variant,,ENST00000510771,;"	"A"	"ENSG00000170180"	"ENST00000360771"	"Transcript"	"missense_variant"	"256/2659"	"140/453"	"47/150"	"T/M"	"aCg/aTg"	"rs144802902"	"1"	NA	-1	"GYPA"	"HGNC"	4702	"protein_coding"	"YES"	"CCDS34069.1"	"ENSP00000354003"	"P02724"	"Q9UE44,Q14438"	"UPI000016A9B9"	"NM_002099.6"	"deleterious(0.04)"	"possibly_damaging(0.785)"	"3/7"	""	"Pfam_domain:PF01102,PIRSF_domain:PIRSF002466,hmmpanther:PTHR13813,hmmpanther:PTHR13813:SF0"	""	""	""	NA	""	""	""	"T:0.0009"	"T:0.0002"	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	"0.0001224"	"0.0001107"	"9.029e-05"	"0.0002598"	"0"	"0.0001662"	"0"	"0"	"1"	"PASS"	"CGT"	"769d8dd2-0003-11e6-8a0f-c369372d9a03"	"."	0.0001231	"13/105632"	"13/106172"	"1/9036"	"1/11076"	"2/7698"	"0/6580"	"9/54164"	"0/694"	"0/16384"	"PASS"	"TRUE"	0.182608695652174	"WGS"	FALSE
"5596"	"DPCR1"	135656	"mskcc.org"	"GRCh37"	"6"	30919531	30919531	"+"	"Missense_Mutation"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3290T>C"	"p.Ile1097Thr"	"p.I1097T"	"ENST00000462446"	"2/3"	84	"76"	8	48	"48"	0	"DPCR1,missense_variant,p.Ile1097Thr,ENST00000462446,;DPCR1,5_prime_UTR_variant,,ENST00000304311,NM_080870.3;HCG21,intron_variant,,ENST00000419481,;"	"C"	"ENSG00000168631"	"ENST00000462446"	"Transcript"	"missense_variant"	"3318/5314"	"3290/4182"	"1097/1393"	"I/T"	"aTc/aCc"	""	"1"	NA	1	"DPCR1"	"HGNC"	21666	"protein_coding"	"YES"	"CCDS4692.2"	"ENSP00000417182"	""	"E9PEI6"	"UPI0000596C17"	""	"tolerated(1)"	"benign(0.078)"	"2/3"	""	"hmmpanther:PTHR22094,hmmpanther:PTHR22094:SF0"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"76de8d6e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.0952380952380952	"WGS"	FALSE
"5597"	"PON3"	5446	"mskcc.org"	"GRCh37"	"7"	94992130	94992130	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.719C>G"	"p.Ala240Gly"	"p.A240G"	"ENST00000265627"	"7/9"	123	"100"	23	67	"67"	0	"PON3,missense_variant,p.Ala240Gly,ENST00000265627,NM_000940.2;PON3,missense_variant,p.Ala240Gly,ENST00000451904,;PON1,intron_variant,,ENST00000542556,;PON3,intron_variant,,ENST00000427422,;PON3,3_prime_UTR_variant,,ENST00000442770,;PON3,3_prime_UTR_variant,,ENST00000456855,;PON3,3_prime_UTR_variant,,ENST00000418617,;PON3,non_coding_transcript_exon_variant,,ENST00000492800,;PON3,downstream_gene_variant,,ENST00000482624,;PON3,upstream_gene_variant,,ENST00000460248,;"	"C"	"ENSG00000105852"	"ENST00000265627"	"Transcript"	"missense_variant"	"730/1105"	"719/1065"	"240/354"	"A/G"	"gCa/gGa"	""	"1"	NA	-1	"PON3"	"HGNC"	9206	"protein_coding"	"YES"	"CCDS5639.1"	"ENSP00000265627"	"Q15166"	""	"UPI00000743F1"	"NM_000940.2"	"tolerated(0.16)"	"benign(0.079)"	"7/9"	""	"hmmpanther:PTHR11799,hmmpanther:PTHR11799:SF6,Pfam_domain:PF01731,Gene3D:2.120.10.30,Superfamily_domains:SSF63829,Prints_domain:PR01785"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"771b3980-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.186991869918699	"WGS"	FALSE
"5598"	"RP11-38H17.1"	0	"mskcc.org"	"GRCh37"	"8"	78420839	78420839	"+"	"Splice_Region"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.471+6G>C"	""	""	"ENST00000518706"	""	153	"128"	25	68	"68"	0	"RP11-38H17.1,splice_region_variant,,ENST00000518706,;"	"C"	"ENSG00000254366"	"ENST00000518706"	"Transcript"	"splice_region_variant,intron_variant,non_coding_transcript_variant"	"-/686"	""	""	""	""	""	"1"	NA	1	"RP11-38H17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7745466c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.163398692810458	"WGS"	FALSE
"5599"	"CNTNAP3"	79937	"mskcc.org"	"GRCh37"	"9"	39178276	39178276	"+"	"Missense_Mutation"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.620T>A"	"p.Val207Asp"	"p.V207D"	"ENST00000297668"	"5/24"	116	"86"	30	75	"75"	0	"CNTNAP3,missense_variant,p.Val207Asp,ENST00000297668,NM_033655.3;CNTNAP3,missense_variant,p.Val119Asp,ENST00000358144,;CNTNAP3,missense_variant,p.Val207Asp,ENST00000377656,;CNTNAP3,missense_variant,p.Val207Asp,ENST00000377659,;CNTNAP3,missense_variant,p.Val207Asp,ENST00000323947,;CNTNAP3,non_coding_transcript_exon_variant,,ENST00000377653,;CNTNAP3,missense_variant,p.Val207Asp,ENST00000443583,;RP11-290L7.3,upstream_gene_variant,,ENST00000425044,;"	"T"	"ENSG00000106714"	"ENST00000297668"	"Transcript"	"missense_variant"	"694/5064"	"620/3867"	"207/1288"	"V/D"	"gTt/gAt"	""	"1"	NA	-1	"CNTNAP3"	"HGNC"	13834	"protein_coding"	"YES"	"CCDS6616.1"	"ENSP00000297668"	"Q9BZ76"	""	"UPI000013E43B"	"NM_033655.3"	"deleterious(0)"	"possibly_damaging(0.602)"	"5/24"	""	"PROSITE_profiles:PS50025,hmmpanther:PTHR10127:SF612,hmmpanther:PTHR10127,Gene3D:2.60.120.200,SMART_domains:SM00282,Superfamily_domains:SSF49899"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"775ffc1e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.258620689655172	"WGS"	FALSE
"5600"	"KLHL34"	257240	"mskcc.org"	"GRCh37"	"X"	21675540	21675540	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.367G>A"	"p.Glu123Lys"	"p.E123K"	"ENST00000379499"	"1/1"	43	"35"	8	35	"35"	0	"KLHL34,missense_variant,p.Glu123Lys,ENST00000379499,NM_153270.1;CNKSR2,downstream_gene_variant,,ENST00000425654,NM_001168647.1;CNKSR2,downstream_gene_variant,,ENST00000379510,NM_014927.3;"	"T"	"ENSG00000185915"	"ENST00000379499"	"Transcript"	"missense_variant"	"909/2840"	"367/1935"	"123/644"	"E/K"	"Gag/Aag"	""	"1"	NA	-1	"KLHL34"	"HGNC"	26634	"protein_coding"	"YES"	"CCDS14199.1"	"ENSP00000368813"	"Q8N239"	""	"UPI0000072CC4"	"NM_153270.1"	"tolerated(0.09)"	"possibly_damaging(0.794)"	"1/1"	""	"Gene3D:3.30.710.10,Pfam_domain:PF00651,PIRSF_domain:PIRSF037037,hmmpanther:PTHR24412,hmmpanther:PTHR24412:SF66,SMART_domains:SM00225,Superfamily_domains:SSF54695"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7788842c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"TRUE"	0.186046511627907	"WGS"	FALSE
"5601"	"CYSLTR1"	10800	"mskcc.org"	"GRCh37"	"X"	77529009	77529009	"+"	"Missense_Mutation"	"SNP"	"G"	"A"	"A"	"rs772170849"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.235C>T"	"p.Arg79Cys"	"p.R79C"	"ENST00000373304"	"3/3"	59	"33"	26	19	"19"	0	"CYSLTR1,missense_variant,p.Arg79Cys,ENST00000373304,NM_001282188.1,NM_001282187.1,NM_006639.3,NM_001282186.1;"	"A"	"ENSG00000173198"	"ENST00000373304"	"Transcript"	"missense_variant"	"528/2576"	"235/1014"	"79/337"	"R/C"	"Cgt/Tgt"	"rs772170849"	"1"	NA	-1	"CYSLTR1"	"HGNC"	17451	"protein_coding"	"YES"	"CCDS14439.1"	"ENSP00000362401"	"Q9Y271"	"Q38Q91,Q38Q88"	"UPI000003ACDF"	"NM_001282188.1,NM_001282187.1,NM_006639.3,NM_001282186.1"	"deleterious(0)"	"probably_damaging(1)"	"3/3"	""	"Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24230:SF12,hmmpanther:PTHR24230,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR01533,Prints_domain:PR00237"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODERATE"	"1"	"SNV"	NA	NA	NA	"1"	"9.418e-06"	"0"	"0"	"0"	"0"	"0"	"0"	"0.0001013"	NA	"PASS"	"CGG"	"778d2414-0003-11e6-8a0f-c369372d9a03"	"."	1.337e-05	"1/74771"	"1/106176"	"0/7378"	"0/8843"	"0/5963"	"0/4496"	"0/37761"	"0/463"	"1/9867"	"PASS"	"TRUE"	0.440677966101695	"WGS"	FALSE
"5602"	"DDX11L1"	100287596	"mskcc.org"	"GRCh37"	"1"	10774	10774	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000456328"	""	33	"28"	5	21	"21"	0	"DDX11L1,upstream_gene_variant,,ENST00000456328,;WASH7P,downstream_gene_variant,,ENST00000438504,;WASH7P,downstream_gene_variant,,ENST00000423562,;DDX11L1,upstream_gene_variant,,ENST00000515242,;WASH7P,downstream_gene_variant,,ENST00000538476,;DDX11L1,upstream_gene_variant,,ENST00000518655,;WASH7P,downstream_gene_variant,,ENST00000541675,;WASH7P,downstream_gene_variant,,ENST00000488147,;DDX11L1,upstream_gene_variant,,ENST00000450305,;"	"C"	"ENSG00000223972"	"ENST00000456328"	"Transcript"	"upstream_gene_variant"	"-/1657"	""	""	""	""	""	"1"	"1095"	1	"DDX11L1"	"HGNC"	37102	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"731593c6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151515151515152	"WGS"	FALSE
"5603"	"ACAP3"	116983	"mskcc.org"	"GRCh37"	"1"	1239909	1239909	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.48-386G>A"	""	""	"ENST00000354700"	""	70	"48"	22	57	"57"	0	"ACAP3,intron_variant,,ENST00000354700,NM_030649.2;ACAP3,intron_variant,,ENST00000353662,;PUSL1,upstream_gene_variant,,ENST00000379031,NM_153339.1;PUSL1,upstream_gene_variant,,ENST00000467712,;ACAP3,intron_variant,,ENST00000438966,;PUSL1,upstream_gene_variant,,ENST00000470520,;ACAP3,non_coding_transcript_exon_variant,,ENST00000492936,;ACAP3,non_coding_transcript_exon_variant,,ENST00000478065,;ACAP3,intron_variant,,ENST00000472541,;ACAP3,intron_variant,,ENST00000354980,;ACAP3,intron_variant,,ENST00000479108,;PUSL1,upstream_gene_variant,,ENST00000493657,;PUSL1,upstream_gene_variant,,ENST00000463758,;ACAP3,upstream_gene_variant,,ENST00000476572,;"	"T"	"ENSG00000131584"	"ENST00000354700"	"Transcript"	"intron_variant"	"-/3896"	"-/2505"	"-/834"	""	""	""	"1"	NA	-1	"ACAP3"	"HGNC"	16754	"protein_coding"	"YES"	"CCDS19.2"	"ENSP00000346733"	"Q96P50"	"Q8WTZ1,Q8N2W2"	"UPI0000050F41"	"NM_030649.2"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7318b89e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314285714285714	"WGS"	FALSE
"5604"	"C1orf222"	85452	"mskcc.org"	"GRCh37"	"1"	1889746	1889746	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000493964"	""	87	"64"	23	49	"49"	0	"C1orf222,intron_variant,,ENST00000493316,;C1orf222,intron_variant,,ENST00000461752,;C1orf222,upstream_gene_variant,,ENST00000493964,;C1orf222,downstream_gene_variant,,ENST00000604159,NM_001080484.1;C1orf222,intron_variant,,ENST00000270720,;C1orf222,intron_variant,,ENST00000468610,;"	"T"	"ENSG00000142609"	"ENST00000493964"	"Transcript"	"upstream_gene_variant"	"-/2604"	"-/2604"	"-/867"	""	""	""	"1"	"2592"	-1	"C1orf222"	"HGNC"	27917	"protein_coding"	"YES"	""	"ENSP00000417061"	""	"H7C4E1"	"UPI0001B798B8"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7319ac36-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264367816091954	"WGS"	FALSE
"5605"	"C1orf222"	85452	"mskcc.org"	"GRCh37"	"1"	1936308	1936308	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000434971"	""	81	"74"	7	46	"46"	0	"C1orf222,upstream_gene_variant,,ENST00000434971,;C1orf222,upstream_gene_variant,,ENST00000270720,;C1orf222,upstream_gene_variant,,ENST00000468610,;C1orf222,upstream_gene_variant,,ENST00000378592,;"	"C"	"ENSG00000142609"	"ENST00000434971"	"Transcript"	"upstream_gene_variant"	"-/339"	"-/306"	"-/101"	""	""	""	"1"	"1155"	-1	"C1orf222"	"HGNC"	27917	"protein_coding"	""	""	"ENSP00000408078"	""	"Q5T2D8,F8W7V6"	"UPI000022DAE4"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"7319deea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"5606"	"PLCH2"	9651	"mskcc.org"	"GRCh37"	"1"	2406734	2406734	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.44-3181G>C"	""	""	"ENST00000449969"	""	109	"82"	27	51	"51"	0	"PLCH2,intron_variant,,ENST00000449969,;PLCH2,intron_variant,,ENST00000609981,;PLCH2,upstream_gene_variant,,ENST00000378486,NM_014638.2;PLCH2,upstream_gene_variant,,ENST00000419816,;PLCH2,upstream_gene_variant,,ENST00000378488,;PLCH2,upstream_gene_variant,,ENST00000278878,;PLCH2,upstream_gene_variant,,ENST00000288766,;PLCH2,upstream_gene_variant,,ENST00000343889,;"	"C"	"ENSG00000149527"	"ENST00000449969"	"Transcript"	"intron_variant"	"-/5450"	"-/3390"	"-/1129"	""	""	""	"1"	NA	1	"PLCH2"	"HGNC"	29037	"protein_coding"	"YES"	""	"ENSP00000397289"	"O75038"	""	"UPI00006C0134"	""	""	""	""	"1/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"731a47d6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247706422018349	"WGS"	FALSE
"5607"	"TP73"	7161	"mskcc.org"	"GRCh37"	"1"	3639283	3639283	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.616+512A>T"	""	""	"ENST00000378295"	""	82	"77"	5	51	"51"	0	"TP73,intron_variant,,ENST00000378295,NM_005427.3,NM_001204185.1;TP73,intron_variant,,ENST00000378288,NM_001126240.2;TP73,intron_variant,,ENST00000604074,NM_001204186.1,NM_001204189.1;TP73,intron_variant,,ENST00000357733,NM_001204187.1;TP73,intron_variant,,ENST00000346387,NM_001204188.1;TP73,intron_variant,,ENST00000354437,NM_001204184.1;TP73,intron_variant,,ENST00000378285,NM_001126241.2;TP73,intron_variant,,ENST00000378280,NM_001204190.1,NM_001204191.1,NM_001126242.2;TP73,intron_variant,,ENST00000378290,NM_001204192.1;TP73,intron_variant,,ENST00000603362,;TP73,intron_variant,,ENST00000604479,;TP73,intron_variant,,ENST00000603364,;TP73,upstream_gene_variant,,ENST00000604566,;"	"T"	"ENSG00000078900"	"ENST00000378295"	"Transcript"	"intron_variant"	"-/5188"	"-/1911"	"-/636"	""	""	""	"1"	NA	1	"TP73"	"HGNC"	12003	"protein_coding"	"YES"	"CCDS49.1"	"ENSP00000367545"	"O15350"	"B7Z3B4"	"UPI000002E988"	"NM_005427.3,NM_001204185.1"	""	""	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"731e64e2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0609756097560976	"WGS"	FALSE
"5608"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	4210352	4210352	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"81"	26	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"731f2148-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242990654205607	"WGS"	FALSE
"5609"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	4510281	4510281	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"68"	34	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"731f4df8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"5610"	"CAMTA1"	23261	"mskcc.org"	"GRCh37"	"1"	7346426	7346426	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.438+36740G>T"	""	""	"ENST00000303635"	""	100	"69"	31	51	"51"	0	"CAMTA1,intron_variant,,ENST00000303635,NM_015215.2;CAMTA1,intron_variant,,ENST00000439411,;"	"T"	"ENSG00000171735"	"ENST00000303635"	"Transcript"	"intron_variant"	"-/8444"	"-/5022"	"-/1673"	""	""	""	"1"	NA	1	"CAMTA1"	"HGNC"	18806	"protein_coding"	"YES"	"CCDS30576.1"	"ENSP00000306522"	"Q9Y6Y1"	""	"UPI00001C1D72"	"NM_015215.2"	""	""	""	"5/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"732216f0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.31	"WGS"	TRUE
"5611"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	8902456	8902456	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"71"	9	34	"34"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"73235326-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1125	"WGS"	FALSE
"5612"	"UBE4B"	10277	"mskcc.org"	"GRCh37"	"1"	10095142	10095142	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.24+1390C>T"	""	""	"ENST00000343090"	""	98	"89"	9	39	"39"	0	"UBE4B,intron_variant,,ENST00000377157,NM_006048.4;UBE4B,intron_variant,,ENST00000343090,NM_001105562.2;UBE4B,intron_variant,,ENST00000253251,;UBE4B,intron_variant,,ENST00000377153,;"	"T"	"ENSG00000130939"	"ENST00000343090"	"Transcript"	"intron_variant"	"-/5267"	"-/3909"	"-/1302"	""	""	""	"1"	NA	1	"UBE4B"	"HGNC"	12500	"protein_coding"	"YES"	"CCDS41245.1"	"ENSP00000343001"	"O95155"	""	"UPI0000137944"	"NM_001105562.2"	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"73243840-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0918367346938776	"WGS"	FALSE
"5613"	"UBE4B"	10277	"mskcc.org"	"GRCh37"	"1"	10128150	10128150	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.25-3936A>G"	""	""	"ENST00000343090"	""	68	"59"	9	37	"37"	0	"UBE4B,intron_variant,,ENST00000377157,NM_006048.4;UBE4B,intron_variant,,ENST00000343090,NM_001105562.2;UBE4B,intron_variant,,ENST00000253251,;UBE4B,intron_variant,,ENST00000377153,;"	"G"	"ENSG00000130939"	"ENST00000343090"	"Transcript"	"intron_variant"	"-/5267"	"-/3909"	"-/1302"	""	""	""	"1"	NA	1	"UBE4B"	"HGNC"	12500	"protein_coding"	"YES"	"CCDS41245.1"	"ENSP00000343001"	"O95155"	""	"UPI0000137944"	"NM_001105562.2"	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"73243c46-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.132352941176471	"WGS"	FALSE
"5614"	"MFN2"	9927	"mskcc.org"	"GRCh37"	"1"	12051700	12051700	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.176-912G>A"	""	""	"ENST00000235329"	""	68	"53"	15	38	"38"	0	"MFN2,intron_variant,,ENST00000235329,NM_014874.3;MFN2,intron_variant,,ENST00000444836,NM_001127660.1;MFN2,intron_variant,,ENST00000412236,;MFN2,intron_variant,,ENST00000497302,;MFN2,downstream_gene_variant,,ENST00000490079,;MFN2,downstream_gene_variant,,ENST00000484391,;"	"A"	"ENSG00000116688"	"ENST00000235329"	"Transcript"	"intron_variant"	"-/4539"	"-/2274"	"-/757"	""	""	""	"1"	NA	1	"MFN2"	"HGNC"	16877	"protein_coding"	"YES"	"CCDS30587.1"	"ENSP00000235329"	"O95140"	"Q5JXC5"	"UPI0000039854"	"NM_014874.3"	""	""	""	"3/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"73258efc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220588235294118	"WGS"	FALSE
"5615"	"VPS13D"	55187	"mskcc.org"	"GRCh37"	"1"	12516466	12516466	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.12466+280G>T"	""	""	"ENST00000358136"	""	63	"42"	21	54	"54"	0	"VPS13D,intron_variant,,ENST00000358136,NM_015378.2;VPS13D,intron_variant,,ENST00000356315,NM_018156.2;VPS13D,intron_variant,,ENST00000011700,;VPS13D,intron_variant,,ENST00000543766,;VPS13D,intron_variant,,ENST00000496628,;"	"T"	"ENSG00000048707"	"ENST00000358136"	"Transcript"	"intron_variant"	"-/16318"	"-/13167"	"-/4388"	""	""	""	"1"	NA	1	"VPS13D"	"HGNC"	23595	"protein_coding"	"YES"	"CCDS30588.1"	"ENSP00000350854"	""	"M0QXS2,J3KP14"	"UPI0000451CA9"	"NM_015378.2"	""	""	""	"66/69"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7325d75e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"5616"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	16427435	16427435	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"82"	7	53	"53"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"7327fbba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	FALSE
"5617"	"MST1L"	0	"mskcc.org"	"GRCh37"	"1"	17089238	17089238	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000389184"	""	189	"172"	17	113	"113"	0	"CROCC,intron_variant,,ENST00000466256,;MST1L,intron_variant,,ENST00000545160,;MST1L,upstream_gene_variant,,ENST00000455405,;MST1L,upstream_gene_variant,,ENST00000544155,;MST1L,intron_variant,,ENST00000442552,;MST1L,upstream_gene_variant,,ENST00000389184,;"	"T"	"ENSG00000186715"	"ENST00000389184"	"Transcript"	"upstream_gene_variant"	"-/4377"	""	""	""	""	""	"1"	"1659"	-1	"MST1L"	"HGNC"	7390	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"732bbebc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0899470899470899	"WGS"	FALSE
"5618"	"ARHGEF10L"	55160	"mskcc.org"	"GRCh37"	"1"	17937268	17937268	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.610-2285C>T"	""	""	"ENST00000361221"	""	107	"81"	26	71	"71"	0	"ARHGEF10L,intron_variant,,ENST00000361221,NM_018125.3;ARHGEF10L,intron_variant,,ENST00000452522,;ARHGEF10L,intron_variant,,ENST00000375415,NM_001011722.2;ARHGEF10L,intron_variant,,ENST00000434513,;ARHGEF10L,intron_variant,,ENST00000375420,;ARHGEF10L,upstream_gene_variant,,ENST00000469726,;"	"T"	"ENSG00000074964"	"ENST00000361221"	"Transcript"	"intron_variant"	"-/4488"	"-/3840"	"-/1279"	""	""	""	"1"	NA	1	"ARHGEF10L"	"HGNC"	25540	"protein_coding"	"YES"	"CCDS182.1"	"ENSP00000355060"	"Q9HCE6"	""	"UPI00003664EA"	"NM_018125.3"	""	""	""	"7/28"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"732d0e98-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242990654205607	"WGS"	FALSE
"5619"	"EIF4G3"	8672	"mskcc.org"	"GRCh37"	"1"	21335301	21335301	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-66-6000A>T"	""	""	"ENST00000602326"	""	102	"70"	32	57	"57"	0	"EIF4G3,intron_variant,,ENST00000602326,NM_001198802.1;EIF4G3,intron_variant,,ENST00000400422,NM_001198801.1;EIF4G3,intron_variant,,ENST00000264211,NM_003760.4;EIF4G3,intron_variant,,ENST00000374937,;EIF4G3,intron_variant,,ENST00000374935,;EIF4G3,intron_variant,,ENST00000356916,NM_001198803.1;EIF4G3,intron_variant,,ENST00000374927,;EIF4G3,intron_variant,,ENST00000438975,;EIF4G3,intron_variant,,ENST00000411888,;RPS15AP6,upstream_gene_variant,,ENST00000420703,;"	"A"	"ENSG00000075151"	"ENST00000602326"	"Transcript"	"intron_variant"	"-/6196"	"-/4776"	"-/1591"	""	""	""	"1"	NA	-1	"EIF4G3"	"HGNC"	3298	"protein_coding"	"YES"	"CCDS55580.1"	"ENSP00000473510"	"O43432"	"Q59GJ0,F5H564"	"UPI0001639589"	"NM_001198802.1"	""	""	""	"4/34"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"732ed868-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313725490196078	"WGS"	FALSE
"5620"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	23259783	23259783	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"65"	22	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"733016f6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252873563218391	"WGS"	FALSE
"5621"	"HNRNPR"	10236	"mskcc.org"	"GRCh37"	"1"	23662424	23662424	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.384+1823T>G"	""	""	"ENST00000374616"	""	73	"68"	5	26	"26"	0	"HNRNPR,intron_variant,,ENST00000478691,NM_001102399.1,NM_001102397.1;HNRNPR,intron_variant,,ENST00000374612,NM_005826.3,NM_001102398.1;HNRNPR,intron_variant,,ENST00000374616,;HNRNPR,intron_variant,,ENST00000302271,;HNRNPR,intron_variant,,ENST00000427764,;HNRNPR,intron_variant,,ENST00000606561,;HNRNPR,intron_variant,,ENST00000426846,;HNRNPR,intron_variant,,ENST00000463552,;HNRNPR,intron_variant,,ENST00000476451,;HNRNPR,downstream_gene_variant,,ENST00000490652,;HNRNPR,upstream_gene_variant,,ENST00000470941,;"	"C"	"ENSG00000125944"	"ENST00000374616"	"Transcript"	"intron_variant"	"-/2691"	"-/1911"	"-/636"	""	""	""	"1"	NA	-1	"HNRNPR"	"HGNC"	5047	"protein_coding"	"YES"	"CCDS44085.1"	"ENSP00000363745"	"O43390"	"S4R3J4,Q7Z334"	"UPI000006F30B"	""	""	""	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"73305238-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0684931506849315	"WGS"	FALSE
"5622"	"NCMAP"	400746	"mskcc.org"	"GRCh37"	"1"	24898179	24898179	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-8+15519A>C"	""	""	"ENST00000374392"	""	70	"66"	4	36	"36"	0	"NCMAP,intron_variant,,ENST00000374392,NM_001010980.4;"	"C"	"ENSG00000184454"	"ENST00000374392"	"Transcript"	"intron_variant"	"-/3953"	"-/309"	"-/102"	""	""	""	"1"	NA	1	"NCMAP"	"HGNC"	29332	"protein_coding"	"YES"	"CCDS30632.1"	"ENSP00000363513"	"Q5T1S8"	""	"UPI00001991A6"	"NM_001010980.4"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"733133ec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0571428571428571	"WGS"	FALSE
"5623"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	25011233	25011233	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"81"	6	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"7331429c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"5624"	"MAN1C1"	57134	"mskcc.org"	"GRCh37"	"1"	26105732	26105732	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1477+917A>G"	""	""	"ENST00000374332"	""	104	"97"	7	53	"53"	0	"MAN1C1,intron_variant,,ENST00000374332,NM_020379.2;MAN1C1,intron_variant,,ENST00000263979,;MAN1C1,intron_variant,,ENST00000374329,;MAN1C1,intron_variant,,ENST00000475314,;MAN1C1,intron_variant,,ENST00000496532,;MAN1C1,upstream_gene_variant,,ENST00000487493,;"	"G"	"ENSG00000117643"	"ENST00000374332"	"Transcript"	"intron_variant"	"-/4641"	"-/1893"	"-/630"	""	""	""	"1"	NA	1	"MAN1C1"	"HGNC"	19080	"protein_coding"	"YES"	"CCDS265.1"	"ENSP00000363452"	"Q9NR34"	"B1AJZ5,A6NGN6"	"UPI000012EABD"	"NM_020379.2"	""	""	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"7331de96-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0673076923076923	"WGS"	FALSE
"5625"	"DHDDS"	79947	"mskcc.org"	"GRCh37"	"1"	26762356	26762356	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.64-2303C>G"	""	""	"ENST00000360009"	""	77	"72"	5	55	"55"	0	"DHDDS,intron_variant,,ENST00000360009,NM_024887.3,NM_205861.2;DHDDS,intron_variant,,ENST00000236342,;DHDDS,intron_variant,,ENST00000525682,NM_001243564.1;DHDDS,intron_variant,,ENST00000374185,;DHDDS,intron_variant,,ENST00000526219,NM_001243565.1;DHDDS,intron_variant,,ENST00000427245,;DHDDS,intron_variant,,ENST00000436153,;DHDDS,intron_variant,,ENST00000430232,;DHDDS,intron_variant,,ENST00000533087,;DHDDS,intron_variant,,ENST00000525546,;DHDDS,intron_variant,,ENST00000525165,;DHDDS,intron_variant,,ENST00000530781,;DHDDS,intron_variant,,ENST00000531312,;DHDDS,intron_variant,,ENST00000525326,;DHDDS,intron_variant,,ENST00000531955,;DHDDS,intron_variant,,ENST00000528557,;DHDDS,intron_variant,,ENST00000434391,;DHDDS,intron_variant,,ENST00000487944,;DHDDS,intron_variant,,ENST00000374186,;DHDDS,intron_variant,,ENST00000525410,;DHDDS,intron_variant,,ENST00000529688,;DHDDS,intron_variant,,ENST00000526278,;DHDDS,downstream_gene_variant,,ENST00000527611,;"	"G"	"ENSG00000117682"	"ENST00000360009"	"Transcript"	"intron_variant"	"-/3245"	"-/1005"	"-/334"	""	""	""	"1"	NA	1	"DHDDS"	"HGNC"	20603	"protein_coding"	"YES"	"CCDS281.1"	"ENSP00000353104"	"Q86SQ9"	"Q5T0A2,E9PSH7,E9PRS7,E9PR24,E9PL99,E9PKJ5,E9PI64"	"UPI000003587D"	"NM_024887.3,NM_205861.2"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"733249d0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0649350649350649	"WGS"	FALSE
"5626"	"ARID1A"	8289	"mskcc.org"	"GRCh37"	"1"	27022010	27022010	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000324856"	""	74	"55"	19	44	"44"	0	"ARID1A,upstream_gene_variant,,ENST00000324856,NM_006015.4;ARID1A,upstream_gene_variant,,ENST00000457599,NM_139135.2;RP5-968P14.2,upstream_gene_variant,,ENST00000569378,;"	"T"	"ENSG00000117713"	"ENST00000324856"	"Transcript"	"upstream_gene_variant"	"-/8577"	"-/6858"	"-/2285"	""	""	""	"1"	"514"	1	"ARID1A"	"HGNC"	11110	"protein_coding"	"YES"	"CCDS285.1"	"ENSP00000320485"	"O14497"	"Q96T01,Q96SY8,Q96SM7,E9PQW6,C1KEN7,A4FU79"	"UPI0000167B91"	"NM_006015.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"73326d20-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256756756756757	"WGS"	TRUE
"5627"	"CHMP1AP1"	0	"mskcc.org"	"GRCh37"	"1"	28011089	28011089	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000445563"	""	95	"61"	34	59	"59"	0	"CHMP1AP1,downstream_gene_variant,,ENST00000445563,;"	"T"	"ENSG00000226662"	"ENST00000445563"	"Transcript"	"downstream_gene_variant"	"-/662"	""	""	""	""	""	"1"	"2232"	-1	"CHMP1AP1"	"HGNC"	39514	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"73332ac6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357894736842105	"WGS"	FALSE
"5628"	"PHACTR4"	65979	"mskcc.org"	"GRCh37"	"1"	28793685	28793685	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.853+406A>G"	""	""	"ENST00000373836"	""	102	"71"	31	40	"39"	1	"PHACTR4,intron_variant,,ENST00000373839,NM_001048183.1;PHACTR4,intron_variant,,ENST00000373836,NM_023923.3;PHACTR4,non_coding_transcript_exon_variant,,ENST00000463428,;PHACTR4,intron_variant,,ENST00000493669,;"	"G"	"ENSG00000204138"	"ENST00000373836"	"Transcript"	"intron_variant"	"-/6112"	"-/2139"	"-/712"	""	""	""	"1"	NA	1	"PHACTR4"	"HGNC"	25793	"protein_coding"	"YES"	"CCDS41294.1"	"ENSP00000362942"	"Q8IZ21"	""	"UPI0000374EB3"	"NM_023923.3"	""	""	""	"5/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7333a424-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303921568627451	"WGS"	FALSE
"5629"	"OPRD1"	4985	"mskcc.org"	"GRCh37"	"1"	29180524	29180524	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.228-4942A>T"	""	""	"ENST00000234961"	""	100	"71"	29	54	"54"	0	"OPRD1,intron_variant,,ENST00000234961,NM_000911.3;"	"T"	"ENSG00000116329"	"ENST00000234961"	"Transcript"	"intron_variant"	"-/1774"	"-/1119"	"-/372"	""	""	""	"1"	NA	1	"OPRD1"	"HGNC"	8153	"protein_coding"	"YES"	"CCDS329.1"	"ENSP00000234961"	"P41143"	""	"UPI0000130D94"	"NM_000911.3"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"7333f01e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29	"WGS"	FALSE
"5630"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	30029667	30029667	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"59"	34	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"7334692c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.365591397849462	"WGS"	FALSE
"5631"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	31052483	31052483	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"67"	25	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"7334da2e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"5632"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	31100211	31100211	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"90"	5	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"7334dc18-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0526315789473684	"WGS"	FALSE
"5633"	"ENSR00001581134"	0	"mskcc.org"	"GRCh37"	"1"	31174041	31174041	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001581134"	""	88	"61"	27	40	"40"	0	""	"T"	""	"ENSR00001581134"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"73350648-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306818181818182	"WGS"	FALSE
"5634"	"ENSR00000281068"	0	"mskcc.org"	"GRCh37"	"1"	31558195	31558195	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000281068"	""	74	"57"	17	37	"37"	0	""	"C"	""	"ENSR00000281068"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"73354388-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22972972972973	"WGS"	FALSE
"5635"	"RN7SL136P"	0	"mskcc.org"	"GRCh37"	"1"	35727221	35727221	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"rs112102587"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000583196"	""	84	"77"	7	46	"46"	0	"RN7SL136P,downstream_gene_variant,,ENST00000583196,;"	"C"	"ENSG00000263591"	"ENST00000583196"	"Transcript"	"downstream_gene_variant"	"-/261"	""	""	""	""	"rs112102587"	"1"	"2602"	-1	"RN7SL136P"	"HGNC"	46152	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"C:0.0156"	"C:0.0514"	"C:0.0014"	NA	"C:0.0069"	"C:0"	"C:0.002"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7337b3ca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"5636"	"OSCP1"	127700	"mskcc.org"	"GRCh37"	"1"	36901947	36901947	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.267+2410T>C"	""	""	"ENST00000235532"	""	75	"69"	6	32	"32"	0	"OSCP1,intron_variant,,ENST00000356637,;OSCP1,intron_variant,,ENST00000235532,NM_145047.4;OSCP1,intron_variant,,ENST00000433045,;OSCP1,intron_variant,,ENST00000315643,;OSCP1,intron_variant,,ENST00000445843,;OSCP1,intron_variant,,ENST00000354267,NM_206837.2;OSCP1,intron_variant,,ENST00000528112,;OSCP1,intron_variant,,ENST00000524789,;"	"G"	"ENSG00000116885"	"ENST00000235532"	"Transcript"	"intron_variant"	"-/1455"	"-/1140"	"-/379"	""	""	""	"1"	NA	-1	"OSCP1"	"HGNC"	29971	"protein_coding"	"YES"	"CCDS409.2"	"ENSP00000235532"	"Q8WVF1"	"C9JF58"	"UPI000059CFA3"	"NM_145047.4"	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"73385910-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"5637"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	37120576	37120576	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"69"	25	53	"52"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"73387fda-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265957446808511	"WGS"	FALSE
"5638"	"GRIK3"	2899	"mskcc.org"	"GRCh37"	"1"	37428289	37428289	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.115+71306T>A"	""	""	"ENST00000373091"	""	91	"57"	34	35	"35"	0	"GRIK3,intron_variant,,ENST00000373091,NM_000831.3;GRIK3,intron_variant,,ENST00000373093,;"	"T"	"ENSG00000163873"	"ENST00000373091"	"Transcript"	"intron_variant"	"-/9101"	"-/2760"	"-/919"	""	""	""	"1"	NA	-1	"GRIK3"	"HGNC"	4581	"protein_coding"	"YES"	"CCDS416.1"	"ENSP00000362183"	"Q13003"	"Q96SC0"	"UPI000013E311"	"NM_000831.3"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"7338ad66-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373626373626374	"WGS"	FALSE
"5639"	"CDCA8"	55143	"mskcc.org"	"GRCh37"	"1"	38158887	38158887	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.223+182T>G"	""	""	"ENST00000373055"	""	65	"56"	9	28	"28"	0	"CDCA8,intron_variant,,ENST00000373055,NM_001256875.1,NM_018101.3;CDCA8,intron_variant,,ENST00000327331,;C1orf109,upstream_gene_variant,,ENST00000358011,NM_017850.1;C1orf109,upstream_gene_variant,,ENST00000464085,;C1orf109,upstream_gene_variant,,ENST00000486637,;C1orf109,upstream_gene_variant,,ENST00000461359,;C1orf109,upstream_gene_variant,,ENST00000488137,;C1orf109,upstream_gene_variant,,ENST00000491981,;C1orf109,upstream_gene_variant,,ENST00000477060,;C1orf109,upstream_gene_variant,,ENST00000464178,;C1orf109,upstream_gene_variant,,ENST00000498448,;C1orf109,upstream_gene_variant,,ENST00000472584,;C1orf109,upstream_gene_variant,,ENST00000491797,;C1orf109,upstream_gene_variant,,ENST00000494120,;"	"G"	"ENSG00000134690"	"ENST00000373055"	"Transcript"	"intron_variant"	"-/2469"	"-/843"	"-/280"	""	""	""	"1"	NA	1	"CDCA8"	"HGNC"	14629	"protein_coding"	"YES"	"CCDS424.1"	"ENSP00000362146"	"Q53HL2"	""	"UPI000007033D"	"NM_001256875.1,NM_018101.3"	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"7339019e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138461538461538	"WGS"	FALSE
"5640"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	38594722	38594722	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"59"	25	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"73392ca0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297619047619048	"WGS"	FALSE
"5641"	"RRAGC"	64121	"mskcc.org"	"GRCh37"	"1"	39317544	39317544	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.757-115T>G"	""	""	"ENST00000373001"	""	98	"72"	26	57	"57"	0	"RRAGC,intron_variant,,ENST00000373001,NM_022157.3,NM_001271851.1;RRAGC,intron_variant,,ENST00000493015,;RRAGC,intron_variant,,ENST00000496778,;RRAGC,upstream_gene_variant,,ENST00000474456,;"	"C"	"ENSG00000116954"	"ENST00000373001"	"Transcript"	"intron_variant"	"-/2732"	"-/1200"	"-/399"	""	""	""	"1"	NA	-1	"RRAGC"	"HGNC"	19902	"protein_coding"	"YES"	"CCDS430.1"	"ENSP00000362092"	"Q9HB90"	"D3DPT8"	"UPI00000372EF"	"NM_022157.3,NM_001271851.1"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"7339649a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26530612244898	"WGS"	FALSE
"5642"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	39540161	39540161	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"47"	29	33	"33"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7339886c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.381578947368421	"WGS"	FALSE
"5643"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	40476605	40476605	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"rs781567511"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"54"	28	54	"54"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs781567511"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"733a01a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341463414634146	"WGS"	FALSE
"5644"	"RIMKLA"	284716	"mskcc.org"	"GRCh37"	"1"	42852817	42852817	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.163+6049C>T"	""	""	"ENST00000431473"	""	88	"81"	7	60	"60"	0	"RIMKLA,intron_variant,,ENST00000431473,NM_173642.3;RIMKLA,intron_variant,,ENST00000410070,;"	"T"	"ENSG00000177181"	"ENST00000431473"	"Transcript"	"intron_variant"	"-/8909"	"-/1176"	"-/391"	""	""	""	"1"	NA	1	"RIMKLA"	"HGNC"	28725	"protein_coding"	"YES"	"CCDS466.2"	"ENSP00000414330"	"Q8IXN7"	""	"UPI0000160ABF"	"NM_173642.3"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"733b1dc6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0795454545454545	"WGS"	FALSE
"5645"	"LEPRE1"	64175	"mskcc.org"	"GRCh37"	"1"	43229690	43229690	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.466-1544T>A"	""	""	"ENST00000236040"	""	86	"80"	6	46	"46"	0	"LEPRE1,intron_variant,,ENST00000236040,NM_001243246.1;LEPRE1,intron_variant,,ENST00000397054,NM_022356.3,NM_001146289.1;LEPRE1,intron_variant,,ENST00000296388,;LEPRE1,intron_variant,,ENST00000372526,;C1orf50,upstream_gene_variant,,ENST00000536543,;C1orf50,upstream_gene_variant,,ENST00000372525,NM_024097.3;LEPRE1,intron_variant,,ENST00000492956,;LEPRE1,intron_variant,,ENST00000495874,;LEPRE1,intron_variant,,ENST00000460031,;C1orf50,upstream_gene_variant,,ENST00000603943,;LEPRE1,upstream_gene_variant,,ENST00000463465,;C1orf50,upstream_gene_variant,,ENST00000464081,;"	"T"	"ENSG00000117385"	"ENST00000236040"	"Transcript"	"intron_variant"	"-/2993"	"-/2415"	"-/804"	""	""	""	"1"	NA	-1	"LEPRE1"	"HGNC"	19316	"protein_coding"	"YES"	"CCDS57986.1"	"ENSP00000236040"	"Q32P28"	"B4DTG8"	"UPI000013E32E"	"NM_001243246.1"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"733b5480-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"5646"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	43384724	43384724	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs531789275"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"37"	5	27	"27"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs531789275"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"G:0.0138"	"G:0.0499"	"G:0.0043"	NA	"G:0"	"G:0"	"G:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"733b63d0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"5647"	"RNF220"	55182	"mskcc.org"	"GRCh37"	"1"	44973545	44973545	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"rs374363150"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.625+95151C>G"	""	""	"ENST00000355387"	""	76	"71"	5	43	"43"	0	"RNF220,intron_variant,,ENST00000355387,;RNF220,intron_variant,,ENST00000361799,NM_018150.2;RNF220,intron_variant,,ENST00000372247,;RNF220,intron_variant,,ENST00000443020,;"	"G"	"ENSG00000187147"	"ENST00000355387"	"Transcript"	"intron_variant"	"-/3099"	"-/1701"	"-/566"	""	""	"rs374363150"	"1"	NA	1	"RNF220"	"HGNC"	25552	"protein_coding"	"YES"	"CCDS510.1"	"ENSP00000347548"	"Q5VTB9"	"D3DPZ1"	"UPI000035895E"	""	""	""	""	"2/14"	""	"A:0.0004"	"A:0"	"A:0"	NA	"A:0.002"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"733c5966-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0657894736842105	"WGS"	FALSE
"5648"	"PTCH2"	8643	"mskcc.org"	"GRCh37"	"1"	45300732	45300732	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.266-2719G>A"	""	""	"ENST00000372192"	""	83	"62"	21	58	"58"	0	"PTCH2,intron_variant,,ENST00000447098,NM_001166292.1;PTCH2,intron_variant,,ENST00000372192,NM_003738.4;"	"T"	"ENSG00000117425"	"ENST00000372192"	"Transcript"	"intron_variant"	"-/4225"	"-/3612"	"-/1203"	""	""	""	"1"	NA	-1	"PTCH2"	"HGNC"	9586	"protein_coding"	"YES"	"CCDS516.1"	"ENSP00000361266"	"Q9Y6C5"	""	"UPI00001328B8"	"NM_003738.4"	""	""	""	"2/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"733c88d2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253012048192771	"WGS"	FALSE
"5649"	"ZSWIM5"	57643	"mskcc.org"	"GRCh37"	"1"	45572007	45572007	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.596-18098A>G"	""	""	"ENST00000359600"	""	42	"38"	4	20	"20"	0	"ZSWIM5,intron_variant,,ENST00000359600,NM_020883.1;ZSWIM5,intron_variant,,ENST00000464588,;"	"C"	"ENSG00000162415"	"ENST00000359600"	"Transcript"	"intron_variant"	"-/5819"	"-/3558"	"-/1185"	""	""	""	"1"	NA	-1	"ZSWIM5"	"HGNC"	29299	"protein_coding"	"YES"	"CCDS41319.1"	"ENSP00000352614"	"Q9P217"	""	"UPI00001C1D76"	"NM_020883.1"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"733cb3ca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"5650"	"MKNK1-AS1"	100507423	"mskcc.org"	"GRCh37"	"1"	47002375	47002375	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000602433"	""	75	"51"	24	60	"60"	0	"MKNK1-AS1,upstream_gene_variant,,ENST00000602433,;"	"T"	"ENSG00000269956"	"ENST00000602433"	"Transcript"	"upstream_gene_variant"	"-/2445"	""	""	""	""	""	"1"	"1993"	1	"MKNK1-AS1"	"HGNC"	44129	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"733dadde-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32	"WGS"	FALSE
"5651"	"CYP4X1"	260293	"mskcc.org"	"GRCh37"	"1"	47474985	47474985	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"rs558616452"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.175-20677T>G"	""	""	"ENST00000538609"	""	57	"51"	6	28	"28"	0	"CYP4X1,intron_variant,,ENST00000538609,;"	"G"	"ENSG00000186377"	"ENST00000538609"	"Transcript"	"intron_variant"	"-/2322"	"-/1527"	"-/508"	""	""	"rs558616452"	"1"	NA	1	"CYP4X1"	"HGNC"	20244	"protein_coding"	""	""	"ENSP00000445965"	"Q8N118"	""	"UPI0000EE2FB6"	""	""	""	""	"1/11"	""	"G:0.0002"	"G:0.0008"	"G:0"	NA	"G:0"	"G:0"	"G:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"733dd200-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"5652"	"CYP4X1"	260293	"mskcc.org"	"GRCh37"	"1"	47474987	47474987	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.175-20675G>C"	""	""	"ENST00000538609"	""	58	"52"	6	27	"27"	0	"CYP4X1,intron_variant,,ENST00000538609,;"	"C"	"ENSG00000186377"	"ENST00000538609"	"Transcript"	"intron_variant"	"-/2322"	"-/1527"	"-/508"	""	""	""	"1"	NA	1	"CYP4X1"	"HGNC"	20244	"protein_coding"	""	""	"ENSP00000445965"	"Q8N118"	""	"UPI0000EE2FB6"	""	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"733dd2fa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"5653"	"CYP4X1"	260293	"mskcc.org"	"GRCh37"	"1"	47474995	47474995	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"rs12061995"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.175-20667A>C"	""	""	"ENST00000538609"	""	62	"54"	8	27	"27"	0	"CYP4X1,intron_variant,,ENST00000538609,;"	"C"	"ENSG00000186377"	"ENST00000538609"	"Transcript"	"intron_variant"	"-/2322"	"-/1527"	"-/508"	""	""	"rs12061995"	"1"	NA	1	"CYP4X1"	"HGNC"	20244	"protein_coding"	""	""	"ENSP00000445965"	"Q8N118"	""	"UPI0000EE2FB6"	""	""	""	""	"1/11"	""	"C:0.0172"	"C:0.062"	"C:0.0043"	NA	"C:0"	"C:0.001"	"C:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"733dd3fe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"5654"	"CYP4X1"	260293	"mskcc.org"	"GRCh37"	"1"	47474996	47474996	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs12066798"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.175-20666G>A"	""	""	"ENST00000538609"	""	62	"52"	10	27	"27"	0	"CYP4X1,intron_variant,,ENST00000538609,;"	"A"	"ENSG00000186377"	"ENST00000538609"	"Transcript"	"intron_variant"	"-/2322"	"-/1527"	"-/508"	""	""	"rs12066798"	"1"	NA	1	"CYP4X1"	"HGNC"	20244	"protein_coding"	""	""	"ENSP00000445965"	"Q8N118"	""	"UPI0000EE2FB6"	""	""	""	""	"1/11"	""	"A:0.0170"	"A:0.0613"	"A:0.0043"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"733dd4f8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161290322580645	"WGS"	FALSE
"5655"	"TAL1"	6886	"mskcc.org"	"GRCh37"	"1"	47699578	47699578	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000294339"	""	101	"73"	28	60	"60"	0	"TAL1,upstream_gene_variant,,ENST00000371883,;TAL1,upstream_gene_variant,,ENST00000294339,NM_003189.2;TAL1,upstream_gene_variant,,ENST00000371884,NM_001287347.1;RP1-18D14.7,downstream_gene_variant,,ENST00000422216,;TAL1,upstream_gene_variant,,ENST00000481091,;TAL1,upstream_gene_variant,,ENST00000465912,;TAL1,upstream_gene_variant,,ENST00000464796,;"	"A"	"ENSG00000162367"	"ENST00000294339"	"Transcript"	"upstream_gene_variant"	"-/5001"	"-/996"	"-/331"	""	""	""	"1"	"4135"	-1	"TAL1"	"HGNC"	11556	"protein_coding"	"YES"	"CCDS547.1"	"ENSP00000294339"	"P17542"	"Q9UE36"	"UPI00001368B2"	"NM_003189.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"733dff14-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277227722772277	"WGS"	TRUE
"5656"	"RP11-191G24.1"	0	"mskcc.org"	"GRCh37"	"1"	52013436	52013436	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.65-13121T>C"	""	""	"ENST00000426017"	""	110	"80"	30	48	"48"	0	"RP11-191G24.1,intron_variant,,ENST00000426017,;RP11-191G24.1,intron_variant,,ENST00000415031,;"	"C"	"ENSG00000227070"	"ENST00000426017"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/362"	""	""	""	""	""	"1"	NA	1	"RP11-191G24.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"733f8910-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"5657"	"NRD1"	4898	"mskcc.org"	"GRCh37"	"1"	52262943	52262943	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2808+978C>G"	""	""	"ENST00000354831"	""	85	"62"	23	54	"54"	0	"NRD1,intron_variant,,ENST00000354831,NM_002525.2;NRD1,intron_variant,,ENST00000352171,NM_001101662.1;NRD1,intron_variant,,ENST00000539524,NM_001242361.1;NRD1,intron_variant,,ENST00000544028,;NRD1,intron_variant,,ENST00000440943,;RP4-657D16.3,intron_variant,,ENST00000586761,;RP4-657D16.3,intron_variant,,ENST00000591675,;RP4-657D16.3,intron_variant,,ENST00000588291,;RP4-657D16.6,upstream_gene_variant,,ENST00000607338,;NRD1,intron_variant,,ENST00000485608,;NRD1,intron_variant,,ENST00000497358,;NRD1,upstream_gene_variant,,ENST00000475310,;"	"C"	"ENSG00000078618"	"ENST00000354831"	"Transcript"	"intron_variant"	"-/3895"	"-/3660"	"-/1219"	""	""	""	"1"	NA	-1	"NRD1"	"HGNC"	7995	"protein_coding"	"YES"	"CCDS559.1"	"ENSP00000346890"	""	"G3V1R5,B1AKJ5"	"UPI0000458A53"	"NM_002525.2"	""	""	""	"24/32"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"733fa2e2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270588235294118	"WGS"	FALSE
"5658"	"BTF3L4"	91408	"mskcc.org"	"GRCh37"	"1"	52546351	52546351	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.169-2661G>T"	""	""	"ENST00000313334"	""	69	"52"	17	40	"40"	0	"BTF3L4,intron_variant,,ENST00000313334,NM_152265.4;BTF3L4,intron_variant,,ENST00000472944,NM_001136497.2;BTF3L4,intron_variant,,ENST00000484036,;BTF3L4,intron_variant,,ENST00000489308,NM_001243767.1;BTF3L4,intron_variant,,ENST00000533836,;BTF3L4,intron_variant,,ENST00000526132,;BTF3L4,intron_variant,,ENST00000477828,;"	"T"	"ENSG00000134717"	"ENST00000313334"	"Transcript"	"intron_variant"	"-/4703"	"-/477"	"-/158"	""	""	""	"1"	NA	1	"BTF3L4"	"HGNC"	30547	"protein_coding"	"YES"	"CCDS30713.1"	"ENSP00000360664"	"Q96K17"	""	"UPI00000299AB"	"NM_152265.4"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"733fce70-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246376811594203	"WGS"	FALSE
"5659"	"ZFYVE9"	9372	"mskcc.org"	"GRCh37"	"1"	52718178	52718178	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2179-11267T>A"	""	""	"ENST00000287727"	""	92	"87"	5	52	"52"	0	"ZFYVE9,intron_variant,,ENST00000287727,NM_004799.3;ZFYVE9,intron_variant,,ENST00000371591,;ZFYVE9,intron_variant,,ENST00000357206,NM_007324.3;ZFYVE9,intron_variant,,ENST00000361625,;DNAJC19P7,intron_variant,,ENST00000428811,;ANAPC10P1,upstream_gene_variant,,ENST00000395991,;"	"A"	"ENSG00000157077"	"ENST00000287727"	"Transcript"	"intron_variant"	"-/4914"	"-/4278"	"-/1425"	""	""	""	"1"	NA	1	"ZFYVE9"	"HGNC"	6775	"protein_coding"	"YES"	"CCDS563.1"	"ENSP00000287727"	"O95405"	""	"UPI0000001620"	"NM_004799.3"	""	""	""	"4/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"733fe162-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0543478260869565	"WGS"	FALSE
"5660"	"ZYG11B"	79699	"mskcc.org"	"GRCh37"	"1"	53228652	53228652	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"rs79094208"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.196+6357G>C"	""	""	"ENST00000294353"	""	69	"63"	6	54	"54"	0	"ZYG11B,intron_variant,,ENST00000294353,NM_024646.2;ZYG11B,intron_variant,,ENST00000443756,;ZYG11B,intron_variant,,ENST00000545132,;"	"C"	"ENSG00000162378"	"ENST00000294353"	"Transcript"	"intron_variant"	"-/8093"	"-/2235"	"-/744"	""	""	"rs79094208"	"1"	NA	1	"ZYG11B"	"HGNC"	25820	"protein_coding"	"YES"	"CCDS30717.1"	"ENSP00000294353"	"Q9C0D3"	""	"UPI00001C1D70"	"NM_024646.2"	""	""	""	"2/13"	""	"C:0.0012"	"C:0.0023"	"C:0"	NA	"C:0.003"	"C:0"	"C:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"734026d6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"5661"	"INADL"	10207	"mskcc.org"	"GRCh37"	"1"	62603069	62603069	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5271+8452T>C"	""	""	"ENST00000371158"	""	30	"24"	6	19	"19"	0	"INADL,intron_variant,,ENST00000371158,NM_176877.2;INADL,intron_variant,,ENST00000484937,;"	"C"	"ENSG00000132849"	"ENST00000371158"	"Transcript"	"intron_variant"	"-/8505"	"-/5406"	"-/1801"	""	""	""	"1"	NA	1	"INADL"	"HGNC"	28881	"protein_coding"	"YES"	"CCDS617.2"	"ENSP00000360200"	"Q8NI35"	""	"UPI0000204487"	"NM_176877.2"	""	""	""	"41/42"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7343aaae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"5662"	"INADL"	10207	"mskcc.org"	"GRCh37"	"1"	62603073	62603073	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5271+8456A>G"	""	""	"ENST00000371158"	""	32	"25"	7	18	"18"	0	"INADL,intron_variant,,ENST00000371158,NM_176877.2;INADL,intron_variant,,ENST00000484937,;"	"G"	"ENSG00000132849"	"ENST00000371158"	"Transcript"	"intron_variant"	"-/8505"	"-/5406"	"-/1801"	""	""	""	"1"	NA	1	"INADL"	"HGNC"	28881	"protein_coding"	"YES"	"CCDS617.2"	"ENSP00000360200"	"Q8NI35"	""	"UPI0000204487"	"NM_176877.2"	""	""	""	"41/42"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7343abb2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WGS"	FALSE
"5663"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	62687957	62687957	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"65"	28	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7343bc2e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301075268817204	"WGS"	FALSE
"5664"	"PDE4B"	5142	"mskcc.org"	"GRCh37"	"1"	66595113	66595113	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.282-118030G>A"	""	""	"ENST00000329654"	""	92	"64"	28	48	"48"	0	"PDE4B,intron_variant,,ENST00000423207,NM_001037340.1;PDE4B,intron_variant,,ENST00000329654,NM_001037341.1;PDE4B,intron_variant,,ENST00000341517,NM_002600.3;PDE4B,intron_variant,,ENST00000371049,;PDE4B,intron_variant,,ENST00000532040,;PDE4B,intron_variant,,ENST00000526666,;"	"A"	"ENSG00000184588"	"ENST00000329654"	"Transcript"	"intron_variant"	"-/3998"	"-/2211"	"-/736"	""	""	""	"1"	NA	1	"PDE4B"	"HGNC"	8781	"protein_coding"	"YES"	"CCDS632.1"	"ENSP00000332116"	"Q07343"	"E9PR34,E9PNB0,E9PJ03"	"UPI0000127BF6"	"NM_001037341.1"	""	""	""	"3/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7345783e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WGS"	FALSE
"5665"	"WDR78"	79819	"mskcc.org"	"GRCh37"	"1"	67343628	67343628	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.644-3008A>C"	""	""	"ENST00000371026"	""	118	"79"	39	61	"61"	0	"WDR78,intron_variant,,ENST00000371026,NM_024763.4;WDR78,intron_variant,,ENST00000431318,;WDR78,intron_variant,,ENST00000371023,NM_207014.2;WDR78,intron_variant,,ENST00000371022,;WDR78,upstream_gene_variant,,ENST00000464352,;WDR78,intron_variant,,ENST00000491297,;WDR78,intron_variant,,ENST00000531980,;"	"G"	"ENSG00000152763"	"ENST00000371026"	"Transcript"	"intron_variant"	"-/3848"	"-/2547"	"-/848"	""	""	""	"1"	NA	-1	"WDR78"	"HGNC"	26252	"protein_coding"	"YES"	"CCDS635.1"	"ENSP00000360065"	"Q5VTH9"	""	"UPI00004561EF"	"NM_024763.4"	""	""	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"7345a5a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330508474576271	"WGS"	FALSE
"5666"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	69487783	69487783	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"79"	30	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"73465f06-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275229357798165	"WGS"	FALSE
"5667"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	73401118	73401118	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"106"	12	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"73478462-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101694915254237	"WGS"	FALSE
"5668"	"RP4-788P17.1"	0	"mskcc.org"	"GRCh37"	"1"	74176702	74176702	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000424953"	""	103	"79"	24	66	"66"	0	"RP4-788P17.1,intron_variant,,ENST00000436262,;RP4-788P17.1,downstream_gene_variant,,ENST00000424953,;"	"A"	"ENSG00000223479"	"ENST00000424953"	"Transcript"	"downstream_gene_variant"	"-/557"	""	""	""	""	""	"1"	"1438"	1	"RP4-788P17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7347a9b0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233009708737864	"WGS"	FALSE
"5669"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	75526277	75526277	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"59"	28	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7347f1e0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32183908045977	"WGS"	FALSE
"5670"	"FAM73A"	374986	"mskcc.org"	"GRCh37"	"1"	78300043	78300043	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.896-8949T>G"	""	""	"ENST00000370791"	""	106	"82"	24	40	"40"	0	"FAM73A,intron_variant,,ENST00000370791,NM_001270384.1,NM_198549.3;FAM73A,intron_variant,,ENST00000443751,;FAM73A,intron_variant,,ENST00000476203,;"	"G"	"ENSG00000180488"	"ENST00000370791"	"Transcript"	"intron_variant"	"-/5288"	"-/1899"	"-/632"	""	""	""	"1"	NA	1	"FAM73A"	"HGNC"	24741	"protein_coding"	"YES"	"CCDS681.1"	"ENSP00000359827"	"Q8NAN2"	"R4GMP2,B7ZLZ8"	"UPI00000722C6"	"NM_001270384.1,NM_198549.3"	""	""	""	"7/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7348f018-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226415094339623	"WGS"	FALSE
"5671"	"FAM73A"	374986	"mskcc.org"	"GRCh37"	"1"	78300049	78300049	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.896-8943T>A"	""	""	"ENST00000370791"	""	102	"80"	22	44	"44"	0	"FAM73A,intron_variant,,ENST00000370791,NM_001270384.1,NM_198549.3;FAM73A,intron_variant,,ENST00000443751,;FAM73A,intron_variant,,ENST00000476203,;"	"A"	"ENSG00000180488"	"ENST00000370791"	"Transcript"	"intron_variant"	"-/5288"	"-/1899"	"-/632"	""	""	""	"1"	NA	1	"FAM73A"	"HGNC"	24741	"protein_coding"	"YES"	"CCDS681.1"	"ENSP00000359827"	"Q8NAN2"	"R4GMP2,B7ZLZ8"	"UPI00000722C6"	"NM_001270384.1,NM_198549.3"	""	""	""	"7/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"7348f11c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215686274509804	"WGS"	FALSE
"5672"	"FAM73A"	374986	"mskcc.org"	"GRCh37"	"1"	78300050	78300050	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.896-8942G>T"	""	""	"ENST00000370791"	""	102	"79"	23	45	"45"	0	"FAM73A,intron_variant,,ENST00000370791,NM_001270384.1,NM_198549.3;FAM73A,intron_variant,,ENST00000443751,;FAM73A,intron_variant,,ENST00000476203,;"	"T"	"ENSG00000180488"	"ENST00000370791"	"Transcript"	"intron_variant"	"-/5288"	"-/1899"	"-/632"	""	""	""	"1"	NA	1	"FAM73A"	"HGNC"	24741	"protein_coding"	"YES"	"CCDS681.1"	"ENSP00000359827"	"Q8NAN2"	"R4GMP2,B7ZLZ8"	"UPI00000722C6"	"NM_001270384.1,NM_198549.3"	""	""	""	"7/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7348f22a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225490196078431	"WGS"	FALSE
"5673"	"PTGFR"	5737	"mskcc.org"	"GRCh37"	"1"	78860268	78860268	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-147-4368G>A"	""	""	"ENST00000370758"	""	106	"63"	43	64	"64"	0	"PTGFR,intron_variant,,ENST00000370758,;"	"A"	"ENSG00000122420"	"ENST00000370758"	"Transcript"	"intron_variant"	"-/4337"	"-/1080"	"-/359"	""	""	""	"1"	NA	1	"PTGFR"	"HGNC"	9600	"protein_coding"	""	"CCDS686.1"	"ENSP00000359794"	"P43088"	""	"UPI0000001C40"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"73493bb8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.405660377358491	"WGS"	FALSE
"5674"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	80401454	80401454	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"68"	27	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"7349a42c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284210526315789	"WGS"	FALSE
"5675"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	80784383	80784383	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"70"	32	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7349bba6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313725490196078	"WGS"	FALSE
"5676"	"RP11-115A15.4"	0	"mskcc.org"	"GRCh37"	"1"	80929828	80929828	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000434465"	""	90	"80"	10	47	"47"	0	"RP11-115A15.4,downstream_gene_variant,,ENST00000434465,;"	"T"	"ENSG00000227062"	"ENST00000434465"	"Transcript"	"downstream_gene_variant"	"-/418"	""	""	""	""	""	"1"	"158"	-1	"RP11-115A15.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7349d924-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"5677"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	83794617	83794617	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"83"	6	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"734ac802-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"5678"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	83838976	83838976	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"61"	25	63	"63"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"734ad8f6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290697674418605	"WGS"	FALSE
"5679"	"RP11-475O6.1"	101927587	"mskcc.org"	"GRCh37"	"1"	84210293	84210293	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.280+5588A>T"	""	""	"ENST00000417975"	""	92	"59"	33	73	"73"	0	"RP11-475O6.1,intron_variant,,ENST00000417975,;"	"A"	"ENSG00000233008"	"ENST00000417975"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3177"	""	""	""	""	""	"1"	NA	-1	"RP11-475O6.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"734b081c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358695652173913	"WGS"	FALSE
"5680"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	85222473	85222473	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs11802967"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	27	"16"	11	9	"9"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11802967"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"734b63de-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.407407407407407	"WGS"	FALSE
"5681"	"ZNHIT6"	54680	"mskcc.org"	"GRCh37"	"1"	86174559	86174559	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000370574"	""	92	"87"	5	47	"47"	0	"ZNHIT6,upstream_gene_variant,,ENST00000431532,NM_001170670.1,NM_017953.3;ZNHIT6,upstream_gene_variant,,ENST00000370574,;"	"A"	"ENSG00000117174"	"ENST00000370574"	"Transcript"	"upstream_gene_variant"	"-/2797"	"-/1413"	"-/470"	""	""	""	"1"	"458"	-1	"ZNHIT6"	"HGNC"	26089	"protein_coding"	"YES"	"CCDS707.1"	"ENSP00000359606"	"Q9NWK9"	""	"UPI000006D8D2"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"734bb6cc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0543478260869565	"WGS"	FALSE
"5682"	"SEP15"	9403	"mskcc.org"	"GRCh37"	"1"	87361410	87361410	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.243+7554C>A"	""	""	"ENST00000331835"	""	87	"69"	18	53	"53"	0	"SEP15,intron_variant,,ENST00000331835,NM_004261.3;SEP15,intron_variant,,ENST00000370554,NM_203341.1;SEP15,intron_variant,,ENST00000401030,;SEP15,intron_variant,,ENST00000469566,;SEP15,intron_variant,,ENST00000467557,;SEP15,intron_variant,,ENST00000497861,;"	"T"	"ENSG00000183291"	"ENST00000331835"	"Transcript"	"intron_variant"	"-/1777"	"-/489"	"-/162"	""	""	""	"1"	NA	-1	"SEP15"	"Uniprot_gn"	NA	"protein_coding"	"YES"	""	"ENSP00000328729"	"O60613"	""	"UPI0000161F5A"	"NM_004261.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"734c0604-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206896551724138	"WGS"	FALSE
"5683"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	88564249	88564249	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"107"	7	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"734c4b3c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0614035087719298	"WGS"	FALSE
"5684"	"RP11-302M6.4"	0	"mskcc.org"	"GRCh37"	"1"	90263362	90263362	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.139-45835C>T"	""	""	"ENST00000370453"	""	26	"18"	8	20	"20"	0	"RP11-302M6.4,intron_variant,,ENST00000370453,;"	"T"	"ENSG00000271949"	"ENST00000370453"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/654"	"-/159"	"-/52"	""	""	""	"1"	NA	1	"RP11-302M6.4"	"Clone_based_vega_gene"	NA	"nonsense_mediated_decay"	"YES"	""	"ENSP00000359482"	""	"A6NED7"	"UPI0001F78081"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"734cbd10-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"5685"	"RP11-302M6.4"	0	"mskcc.org"	"GRCh37"	"1"	90263368	90263368	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.139-45829C>T"	""	""	"ENST00000370453"	""	26	"17"	9	20	"20"	0	"RP11-302M6.4,intron_variant,,ENST00000370453,;"	"T"	"ENSG00000271949"	"ENST00000370453"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/654"	"-/159"	"-/52"	""	""	""	"1"	NA	1	"RP11-302M6.4"	"Clone_based_vega_gene"	NA	"nonsense_mediated_decay"	"YES"	""	"ENSP00000359482"	""	"A6NED7"	"UPI0001F78081"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"734cbe1e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"5686"	"ZNF644"	84146	"mskcc.org"	"GRCh37"	"1"	91447817	91447817	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.44+50A>T"	""	""	"ENST00000370440"	""	92	"70"	22	65	"65"	0	"ZNF644,intron_variant,,ENST00000370440,;ZNF644,intron_variant,,ENST00000337393,NM_201269.2;ZNF644,intron_variant,,ENST00000347275,NM_016620.3;ZNF644,intron_variant,,ENST00000361321,NM_032186.4;ZNF644,intron_variant,,ENST00000467231,;ZNF644,intron_variant,,ENST00000474405,;ZNF644,intron_variant,,ENST00000498303,;"	"A"	"ENSG00000122482"	"ENST00000370440"	"Transcript"	"intron_variant"	"-/5698"	"-/3984"	"-/1327"	""	""	""	"1"	NA	-1	"ZNF644"	"HGNC"	29222	"protein_coding"	"YES"	"CCDS731.1"	"ENSP00000359469"	"Q9H582"	"Q9NVH8,Q9H8J8,Q8NEI6"	"UPI000004A010"	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTA"	"734d133c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239130434782609	"WGS"	FALSE
"5687"	"RN7SL824P"	0	"mskcc.org"	"GRCh37"	"1"	92872941	92872941	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000470692"	""	89	"81"	8	46	"46"	0	"RN7SL824P,upstream_gene_variant,,ENST00000470692,;"	"G"	"ENSG00000242764"	"ENST00000470692"	"Transcript"	"upstream_gene_variant"	"-/295"	""	""	""	""	""	"1"	"4699"	-1	"RN7SL824P"	"HGNC"	46840	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"734da482-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"5688"	"BCAR3"	8412	"mskcc.org"	"GRCh37"	"1"	94234741	94234741	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-62-63043T>C"	""	""	"ENST00000370244"	""	101	"68"	33	57	"57"	0	"BCAR3,intron_variant,,ENST00000370244,NM_001261408.1;RP11-488P3.1,intron_variant,,ENST00000433544,;BCAR3,intron_variant,,ENST00000469315,;"	"G"	"ENSG00000137936"	"ENST00000370244"	"Transcript"	"intron_variant"	"-/3217"	"-/2478"	"-/825"	""	""	""	"1"	NA	-1	"BCAR3"	"HGNC"	973	"protein_coding"	"YES"	"CCDS745.1"	"ENSP00000359264"	"O75815"	"B3KNL6"	"UPI000000D971"	"NM_001261408.1"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"734e1e4e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326732673267327	"WGS"	FALSE
"5689"	"ABCA4"	24	"mskcc.org"	"GRCh37"	"1"	94464461	94464461	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6480-795T>A"	""	""	"ENST00000370225"	""	58	"51"	7	48	"48"	0	"ABCA4,intron_variant,,ENST00000370225,NM_000350.2;ABCA4,intron_variant,,ENST00000536513,;ABCA4,intron_variant,,ENST00000535881,;ABCA4,downstream_gene_variant,,ENST00000465352,;"	"T"	"ENSG00000198691"	"ENST00000370225"	"Transcript"	"intron_variant"	"-/7309"	"-/6822"	"-/2273"	""	""	""	"1"	NA	-1	"ABCA4"	"HGNC"	34	"protein_coding"	"YES"	"CCDS747.1"	"ENSP00000359245"	"P78363"	"Q86V62,Q0QD48,F5H5R2"	"UPI000012511C"	"NM_000350.2"	""	""	""	"47/49"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"734e350a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120689655172414	"WGS"	FALSE
"5690"	"CNN3"	1266	"mskcc.org"	"GRCh37"	"1"	95374396	95374396	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.58-5316T>A"	""	""	"ENST00000370206"	""	96	"88"	8	48	"48"	0	"CNN3,intron_variant,,ENST00000370206,NM_001839.3;CNN3,intron_variant,,ENST00000538964,;CNN3,intron_variant,,ENST00000394202,NM_001286055.1;CNN3,intron_variant,,ENST00000545882,NM_001286056.1;CNN3,intron_variant,,ENST00000415017,;CNN3,intron_variant,,ENST00000474409,;"	"T"	"ENSG00000117519"	"ENST00000370206"	"Transcript"	"intron_variant"	"-/2165"	"-/990"	"-/329"	""	""	""	"1"	NA	-1	"CNN3"	"HGNC"	2157	"protein_coding"	"YES"	"CCDS30775.1"	"ENSP00000359225"	"Q15417"	"Q9BWY6,E9PDU6,B4DFK6"	"UPI0000127B01"	"NM_001839.3"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"734e6c14-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"5691"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	96935825	96935825	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"46"	20	39	"39"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"734ee590-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303030303030303	"WGS"	FALSE
"5692"	"SLC35A3"	23443	"mskcc.org"	"GRCh37"	"1"	100460920	100460920	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.187+1623G>T"	""	""	"ENST00000370155"	""	89	"71"	18	59	"59"	0	"SLC35A3,intron_variant,,ENST00000465289,NM_001271684.1;SLC35A3,intron_variant,,ENST00000370155,NM_012243.2;SLC35A3,intron_variant,,ENST00000370153,NM_001271685.1;SLC35A3,intron_variant,,ENST00000427993,;SLC35A3,intron_variant,,ENST00000422078,;SLC35A3,intron_variant,,ENST00000532693,;SLC35A3,intron_variant,,ENST00000370156,;SLC35A3,intron_variant,,ENST00000533028,;"	"T"	"ENSG00000117620"	"ENST00000370155"	"Transcript"	"intron_variant"	"-/2347"	"-/978"	"-/325"	""	""	""	"1"	NA	1	"SLC35A3"	"HGNC"	11023	"protein_coding"	"YES"	"CCDS762.1"	"ENSP00000359174"	"Q9Y2D2"	"E9PPQ9,C9JW63"	"UPI0000137AF2"	"NM_012243.2"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"734fdc2a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202247191011236	"WGS"	FALSE
"5693"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	101924277	101924277	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"79"	26	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"73504ee4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247619047619048	"WGS"	FALSE
"5694"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	102479888	102479888	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"71"	18	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"73506a64-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202247191011236	"WGS"	FALSE
"5695"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	103076165	103076165	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"61"	25	47	"47"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"735090c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290697674418605	"WGS"	FALSE
"5696"	"ENSR00001523098"	0	"mskcc.org"	"GRCh37"	"1"	103731189	103731189	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001523098"	""	98	"76"	22	69	"69"	0	""	"A"	""	"ENSR00001523098"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7350b6d6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224489795918367	"WGS"	FALSE
"5697"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	106964144	106964144	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"77"	33	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"7351bc7a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"5698"	"RP11-356N1.2"	0	"mskcc.org"	"GRCh37"	"1"	108611459	108611459	"+"	"5'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000419428"	""	88	"62"	26	35	"35"	0	"RP11-356N1.2,upstream_gene_variant,,ENST00000419428,;RP11-356N1.2,upstream_gene_variant,,ENST00000451023,;"	"T"	"ENSG00000226822"	"ENST00000419428"	"Transcript"	"upstream_gene_variant"	"-/432"	""	""	""	""	""	"1"	"2645"	1	"RP11-356N1.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"73522fd4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295454545454545	"WGS"	FALSE
"5699"	"SARS"	6301	"mskcc.org"	"GRCh37"	"1"	109768720	109768720	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.207+2050C>T"	""	""	"ENST00000234677"	""	79	"73"	6	47	"47"	0	"SARS,intron_variant,,ENST00000369923,;SARS,intron_variant,,ENST00000234677,NM_006513.3;SARS,intron_variant,,ENST00000477544,;"	"T"	"ENSG00000031698"	"ENST00000234677"	"Transcript"	"intron_variant"	"-/1852"	"-/1545"	"-/514"	""	""	""	"1"	NA	1	"SARS"	"HGNC"	10537	"protein_coding"	"YES"	"CCDS795.1"	"ENSP00000234677"	"P49591"	"Q0VGA5"	"UPI000013C9B6"	"NM_006513.3"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7352b1c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"5700"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	112598527	112598527	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"71"	31	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"735379fc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303921568627451	"WGS"	FALSE
"5701"	"DENND2C"	163259	"mskcc.org"	"GRCh37"	"1"	115164558	115164558	"+"	"Silent"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1185A>G"	"p.="	"p.R395R"	"ENST00000393274"	"7/21"	104	"79"	25	34	"34"	0	"DENND2C,synonymous_variant,p.=,ENST00000393274,NM_001256404.1;DENND2C,synonymous_variant,p.=,ENST00000393277,;DENND2C,intron_variant,,ENST00000393276,NM_198459.3;DENND2C,non_coding_transcript_exon_variant,,ENST00000481894,;DENND2C,downstream_gene_variant,,ENST00000493549,;"	"C"	"ENSG00000175984"	"ENST00000393274"	"Transcript"	"synonymous_variant"	"1811/6163"	"1185/2787"	"395/928"	"R"	"cgA/cgG"	""	"1"	NA	-1	"DENND2C"	"HGNC"	24748	"protein_coding"	"YES"	"CCDS58018.1"	"ENSP00000376955"	"Q68D51"	""	"UPI000048AF71"	"NM_001256404.1"	""	""	"7/21"	""	"hmmpanther:PTHR15288,hmmpanther:PTHR15288:SF6"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"73549f4e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240384615384615	"WGS"	FALSE
"5702"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119600950	119600950	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12665A>G"	""	""	"ENST00000235521"	""	75	"69"	6	46	"46"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"C"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7355d8d2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"5703"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119600961	119600961	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12676C>T"	""	""	"ENST00000235521"	""	67	"61"	6	42	"42"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"A"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7355dca6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0895522388059701	"WGS"	FALSE
"5704"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119600968	119600968	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12683A>T"	""	""	"ENST00000235521"	""	63	"56"	7	39	"39"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"A"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"7355e17e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"5705"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119600972	119600972	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12687G>C"	""	""	"ENST00000235521"	""	65	"58"	7	39	"39"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"G"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"7355e78c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107692307692308	"WGS"	FALSE
"5706"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119600977	119600977	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12692A>T"	""	""	"ENST00000235521"	""	65	"59"	6	34	"34"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"A"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"7355eb9c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"5707"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119600983	119600983	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12698C>T"	""	""	"ENST00000235521"	""	65	"59"	6	33	"33"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"A"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7355f25e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"5708"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119600988	119600988	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12703C>T"	""	""	"ENST00000235521"	""	60	"54"	6	31	"31"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"A"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"7355f614-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"5709"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119600989	119600989	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12704A>C"	""	""	"ENST00000235521"	""	63	"56"	7	32	"32"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"G"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"7355f718-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"5710"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119600994	119600994	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12709A>T"	""	""	"ENST00000235521"	""	60	"54"	6	32	"32"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"A"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7355fb28-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"5711"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119600996	119600996	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12711A>T"	""	""	"ENST00000235521"	""	56	"50"	6	33	"33"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"A"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"7355fd44-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"5712"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119601000	119601000	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12715A>T"	""	""	"ENST00000235521"	""	59	"53"	6	33	"33"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"A"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"73560136-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101694915254237	"WGS"	FALSE
"5713"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119601002	119601002	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12717G>T"	""	""	"ENST00000235521"	""	59	"52"	7	32	"32"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"A"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"73560320-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.11864406779661	"WGS"	FALSE
"5714"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119601004	119601004	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12719A>T"	""	""	"ENST00000235521"	""	57	"51"	6	31	"31"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"A"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"73560514-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"5715"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119601006	119601006	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12721A>C"	""	""	"ENST00000235521"	""	53	"47"	6	31	"31"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"G"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"735606fe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113207547169811	"WGS"	FALSE
"5716"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119601008	119601008	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12723G>C"	""	""	"ENST00000235521"	""	55	"49"	6	30	"30"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"G"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"73560910-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109090909090909	"WGS"	FALSE
"5717"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119601011	119601011	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12726A>T"	""	""	"ENST00000235521"	""	55	"49"	6	29	"29"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"A"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"73560b86-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109090909090909	"WGS"	FALSE
"5718"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119601013	119601013	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12728G>C"	""	""	"ENST00000235521"	""	53	"47"	6	28	"28"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"G"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"73560f0a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113207547169811	"WGS"	FALSE
"5719"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119601014	119601014	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12729A>G"	""	""	"ENST00000235521"	""	55	"49"	6	29	"29"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"C"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"73561018-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109090909090909	"WGS"	FALSE
"5720"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119601021	119601021	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12736G>T"	""	""	"ENST00000235521"	""	48	"42"	6	26	"26"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"A"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"73561522-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"5721"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119601022	119601022	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12737A>G"	""	""	"ENST00000235521"	""	47	"41"	6	26	"26"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"C"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"73561644-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127659574468085	"WGS"	FALSE
"5722"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119601024	119601024	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12739G>C"	""	""	"ENST00000235521"	""	48	"42"	6	26	"26"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"G"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"7356182e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"5723"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119601026	119601026	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12741G>T"	""	""	"ENST00000235521"	""	47	"41"	6	25	"25"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"A"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"73561af4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127659574468085	"WGS"	FALSE
"5724"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119601030	119601030	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-12745G>T"	""	""	"ENST00000235521"	""	46	"40"	6	24	"24"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2-IT1,intron_variant,,ENST00000423984,;WARS2,intron_variant,,ENST00000497402,;WARS2,intron_variant,,ENST00000495746,;"	"A"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"73561d1a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"5725"	"RP11-423O2.1"	0	"mskcc.org"	"GRCh37"	"1"	142795381	142795381	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000458414"	""	494	"472"	22	278	"278"	0	"RP11-423O2.1,downstream_gene_variant,,ENST00000458414,;RP11-423O2.2,upstream_gene_variant,,ENST00000433591,;RP11-423O2.3,upstream_gene_variant,,ENST00000444462,;ASNSP5,upstream_gene_variant,,ENST00000433327,;"	"A"	"ENSG00000230255"	"ENST00000458414"	"Transcript"	"downstream_gene_variant"	"-/1069"	""	""	""	""	""	"1"	"2825"	1	"RP11-423O2.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7360bfa4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0445344129554656	"WGS"	FALSE
"5726"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	143258615	143258615	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs571141528"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"106"	7	70	"70"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs571141528"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"7368f16a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0619469026548673	"WGS"	FALSE
"5727"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	144553554	144553554	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"69"	28	58	"58"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"737072dc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288659793814433	"WGS"	FALSE
"5728"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	146822181	146822181	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"69"	34	67	"67"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"737573cc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330097087378641	"WGS"	FALSE
"5729"	"RNVU1-15"	101954267	"mskcc.org"	"GRCh37"	"1"	148604930	148604930	"+"	"RNA"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.143G>A"	""	""	"ENST00000384476"	"1/1"	51	"45"	6	19	"19"	0	"RNVU1-15,non_coding_transcript_exon_variant,,ENST00000384476,;"	"T"	"ENSG00000207205"	"ENST00000384476"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"143/165"	""	""	""	""	""	"1"	NA	-1	"RNVU1-15"	"HGNC"	48320	"snRNA"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7377b29a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"5730"	"AL732363.1"	0	"mskcc.org"	"GRCh37"	"1"	149032071	149032071	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000581702"	""	154	"128"	26	81	"81"	0	"AL732363.1,downstream_gene_variant,,ENST00000581702,;RP11-744H18.1,upstream_gene_variant,,ENST00000449715,;"	"G"	"ENSG00000264022"	"ENST00000581702"	"Transcript"	"downstream_gene_variant"	"-/66"	""	""	""	""	""	"1"	"4241"	-1	"AL732363.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"737aa716-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168831168831169	"WGS"	FALSE
"5731"	"RNVU1-19"	101954277	"mskcc.org"	"GRCh37"	"1"	149510108	149510108	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000391242"	""	34	"30"	4	11	"11"	0	"RNVU1-19,downstream_gene_variant,,ENST00000391242,;"	"C"	"ENSG00000212544"	"ENST00000391242"	"Transcript"	"downstream_gene_variant"	"-/167"	""	""	""	""	""	"1"	"3982"	-1	"RNVU1-19"	"HGNC"	48324	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"737c1934-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"5732"	"RPRD2"	23248	"mskcc.org"	"GRCh37"	"1"	150349453	150349453	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.205+12058A>G"	""	""	"ENST00000369068"	""	49	"43"	6	37	"37"	0	"RPRD2,intron_variant,,ENST00000401000,;RPRD2,intron_variant,,ENST00000369068,NM_015203.3;RPRD2,intron_variant,,ENST00000539519,;RPRD2,intron_variant,,ENST00000369067,;RPRD2,intron_variant,,ENST00000492220,;"	"G"	"ENSG00000163125"	"ENST00000369068"	"Transcript"	"intron_variant"	"-/4612"	"-/4386"	"-/1461"	""	""	""	"1"	NA	1	"RPRD2"	"HGNC"	29039	"protein_coding"	"YES"	"CCDS44216.1"	"ENSP00000358064"	"Q5VT52"	""	"UPI00001D7CA8"	"NM_015203.3"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"737cfdc2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122448979591837	"WGS"	FALSE
"5733"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	154651829	154651829	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"82"	30	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"737fa8ce-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267857142857143	"WGS"	FALSE
"5734"	"MUC1"	4582	"mskcc.org"	"GRCh37"	"1"	155162649	155162649	"+"	"5'UTR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-15C>A"	""	""	"ENST00000368395"	"1/8"	91	"62"	29	53	"53"	0	"MUC1,5_prime_UTR_variant,,ENST00000368395,NM_001204285.1,NM_001204286.1;MUC1,5_prime_UTR_variant,,ENST00000457295,;MUC1,5_prime_UTR_variant,,ENST00000338684,;MUC1,5_prime_UTR_variant,,ENST00000368392,NM_001018017.2,NM_001018016.2,NM_001204288.1,NM_001204287.1;MUC1,5_prime_UTR_variant,,ENST00000368393,NM_001204293.1;MUC1,5_prime_UTR_variant,,ENST00000438413,NM_001204289.1,NM_001204291.1,NM_001204290.1;MUC1,5_prime_UTR_variant,,ENST00000337604,NM_002456.5;MUC1,5_prime_UTR_variant,,ENST00000368390,;MUC1,5_prime_UTR_variant,,ENST00000368398,NM_001204292.1,NM_001204294.1;MUC1,5_prime_UTR_variant,,ENST00000343256,NM_001044390.2,NM_001204296.1;MUC1,5_prime_UTR_variant,,ENST00000368389,;MUC1,5_prime_UTR_variant,,ENST00000342482,;MUC1,5_prime_UTR_variant,,ENST00000368396,NM_001044392.2;THBS3,downstream_gene_variant,,ENST00000368378,NM_007112.4,NM_001252607.1;THBS3,downstream_gene_variant,,ENST00000541990,;THBS3,downstream_gene_variant,,ENST00000457183,NM_001252608.1;THBS3,downstream_gene_variant,,ENST00000541576,;RP11-201K10.3,upstream_gene_variant,,ENST00000473363,;MIR92B,upstream_gene_variant,,ENST00000607575,;RP11-263K19.4,upstream_gene_variant,,ENST00000447623,;MUC1,non_coding_transcript_exon_variant,,ENST00000462215,;MUC1,non_coding_transcript_exon_variant,,ENST00000498431,;MUC1,non_coding_transcript_exon_variant,,ENST00000471283,;MUC1,non_coding_transcript_exon_variant,,ENST00000467134,;MUC1,non_coding_transcript_exon_variant,,ENST00000494844,;MUC1,non_coding_transcript_exon_variant,,ENST00000466913,;MUC1,upstream_gene_variant,,ENST00000462317,;MUC1,upstream_gene_variant,,ENST00000468978,;MUC1,upstream_gene_variant,,ENST00000485118,;THBS3,downstream_gene_variant,,ENST00000469769,;THBS3,downstream_gene_variant,,ENST00000498500,;"	"T"	"ENSG00000185499"	"ENST00000368395"	"Transcript"	"5_prime_UTR_variant"	"58/1811"	"-/1428"	"-/475"	""	""	""	"1"	NA	-1	"MUC1"	"HGNC"	7508	"protein_coding"	"YES"	"CCDS55640.1"	"ENSP00000357380"	""	"Q9UMI8,Q7Z545,Q14877,B1AVQ5"	"UPI0000038A9F"	"NM_001204285.1,NM_001204286.1"	""	""	"1/8"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"737febb8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318681318681319	"WGS"	TRUE
"5735"	"MEX3A"	92312	"mskcc.org"	"GRCh37"	"1"	156045870	156045870	"+"	"3'UTR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*495C>T"	""	""	"ENST00000532414"	"2/2"	78	"58"	20	48	"48"	0	"MEX3A,3_prime_UTR_variant,,ENST00000532414,NM_001093725.1;AL355388.1,upstream_gene_variant,,ENST00000410679,;MEX3A,downstream_gene_variant,,ENST00000442784,;"	"A"	"ENSG00000254726"	"ENST00000532414"	"Transcript"	"3_prime_UTR_variant"	"2058/6124"	"-/1563"	"-/520"	""	""	""	"1"	NA	-1	"MEX3A"	"HGNC"	33482	"protein_coding"	"YES"	"CCDS53377.1"	"ENSP00000432845"	"A1L020"	""	"UPI0000ECD9C5"	"NM_001093725.1"	""	""	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"73807074-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256410256410256	"WGS"	FALSE
"5736"	"MEF2D"	4209	"mskcc.org"	"GRCh37"	"1"	156430004	156430004	"+"	"3'Flank"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000348159"	""	89	"64"	25	52	"52"	0	"MEF2D,downstream_gene_variant,,ENST00000348159,NM_005920.3;MEF2D,downstream_gene_variant,,ENST00000340875,;MEF2D,downstream_gene_variant,,ENST00000368240,;MEF2D,downstream_gene_variant,,ENST00000353795,;MEF2D,downstream_gene_variant,,ENST00000464356,;RP11-98G7.1,upstream_gene_variant,,ENST00000452465,;RP11-98G7.1,upstream_gene_variant,,ENST00000441085,;"	"G"	"ENSG00000116604"	"ENST00000348159"	"Transcript"	"downstream_gene_variant"	"-/5965"	"-/1566"	"-/521"	""	""	""	"1"	"3515"	-1	"MEF2D"	"HGNC"	6997	"protein_coding"	"YES"	"CCDS1143.1"	"ENSP00000271555"	"Q14814"	""	"UPI000012EEB6"	"NM_005920.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7380a85a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280898876404494	"WGS"	FALSE
"5737"	"HDGF"	3068	"mskcc.org"	"GRCh37"	"1"	156716720	156716720	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.136-1555A>T"	""	""	"ENST00000368206"	""	88	"59"	29	48	"48"	0	"HDGF,intron_variant,,ENST00000357325,NM_004494.2;HDGF,intron_variant,,ENST00000368209,NM_001126051.1;HDGF,intron_variant,,ENST00000537739,;HDGF,intron_variant,,ENST00000416666,;HDGF,intron_variant,,ENST00000368206,NM_001126050.1;HDGF,intron_variant,,ENST00000465180,;HDGF,intron_variant,,ENST00000482651,;HDGF,intron_variant,,ENST00000469145,;HDGF,intron_variant,,ENST00000495212,;HDGF,intron_variant,,ENST00000471377,;PRCC,upstream_gene_variant,,ENST00000491853,;HDGF,upstream_gene_variant,,ENST00000477306,;"	"A"	"ENSG00000143321"	"ENST00000368206"	"Transcript"	"intron_variant"	"-/960"	"-/771"	"-/256"	""	""	""	"1"	NA	-1	"HDGF"	"HGNC"	4856	"protein_coding"	"YES"	"CCDS44247.1"	"ENSP00000357189"	"P51858"	"A8K8G0"	"UPI00004701A4"	"NM_001126050.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7380d2da-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329545454545455	"WGS"	FALSE
"5738"	"FCER1A"	2205	"mskcc.org"	"GRCh37"	"1"	159254645	159254645	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"rs769845638"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000368115"	""	90	"58"	32	66	"66"	0	"FCER1A,upstream_gene_variant,,ENST00000368115,NM_002001.3;OR10J2P,upstream_gene_variant,,ENST00000514684,;"	"T"	"ENSG00000179639"	"ENST00000368115"	"Transcript"	"upstream_gene_variant"	"-/1165"	"-/774"	"-/257"	""	""	"rs769845638"	"1"	"4859"	1	"FCER1A"	"HGNC"	3609	"protein_coding"	"YES"	"CCDS1184.1"	"ENSP00000357097"	"P12319"	"Q8WYP6"	"UPI000002CFDB"	"NM_002001.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"7381b772-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355555555555556	"WGS"	FALSE
"5739"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	159620636	159620636	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs758317270"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"79"	31	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs758317270"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7381cadc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.281818181818182	"WGS"	FALSE
"5740"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	159622331	159622331	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"84"	19	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7381cbd6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184466019417476	"WGS"	FALSE
"5741"	"RP11-25K21.6"	0	"mskcc.org"	"GRCh37"	"1"	161539806	161539806	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.272-31224T>G"	""	""	"ENST00000537821"	""	48	"42"	6	23	"23"	0	"FCGR3A,intron_variant,,ENST00000540048,;RP11-25K21.6,intron_variant,,ENST00000537821,;"	"G"	"ENSG00000273112"	"ENST00000537821"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/553"	""	""	""	""	""	"1"	NA	1	"RP11-25K21.6"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"73831d56-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"5742"	"RP11-25K21.6"	0	"mskcc.org"	"GRCh37"	"1"	161539809	161539809	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.272-31221T>A"	""	""	"ENST00000537821"	""	49	"45"	4	21	"21"	0	"FCGR3A,intron_variant,,ENST00000540048,;RP11-25K21.6,intron_variant,,ENST00000537821,;"	"A"	"ENSG00000273112"	"ENST00000537821"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/553"	""	""	""	""	""	"1"	NA	1	"RP11-25K21.6"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"73831e96-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WGS"	FALSE
"5743"	"PBX1"	5087	"mskcc.org"	"GRCh37"	"1"	164724500	164724500	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.266-37231G>T"	""	""	"ENST00000420696"	""	91	"69"	22	52	"52"	0	"PBX1,intron_variant,,ENST00000420696,NM_002585.3,NM_001204963.1,NM_001204961.1;PBX1,intron_variant,,ENST00000560641,;PBX1,intron_variant,,ENST00000367897,;PBX1,intron_variant,,ENST00000540236,;PBX1,intron_variant,,ENST00000401534,;PBX1,intron_variant,,ENST00000559240,;PBX1,intron_variant,,ENST00000340699,;PBX1,intron_variant,,ENST00000559578,;PBX1,intron_variant,,ENST00000482110,;PBX1,intron_variant,,ENST00000468104,;PBX1,intron_variant,,ENST00000560469,;PBX1,intron_variant,,ENST00000496120,;PBX1,intron_variant,,ENST00000558796,;"	"T"	"ENSG00000185630"	"ENST00000420696"	"Transcript"	"intron_variant"	"-/6636"	"-/1293"	"-/430"	""	""	""	"1"	NA	1	"PBX1"	"HGNC"	8632	"protein_coding"	"YES"	"CCDS1246.1"	"ENSP00000405890"	"P40424"	"Q68DD6,H0YLT4,H0YLM3,H0YLD4,H0YLB0,H0YKH1,F8WA05"	"UPI00000213E1"	"NM_002585.3,NM_001204963.1,NM_001204961.1"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"73845158-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241758241758242	"WGS"	TRUE
"5744"	"NME7"	29922	"mskcc.org"	"GRCh37"	"1"	169213543	169213543	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.755-6618A>G"	""	""	"ENST00000367811"	""	106	"78"	28	55	"55"	0	"NME7,intron_variant,,ENST00000367811,NM_013330.3;NME7,intron_variant,,ENST00000472647,NM_197972.1;NME7,intron_variant,,ENST00000480478,;NME7,intron_variant,,ENST00000483228,;NME7,intron_variant,,ENST00000525440,;NME7,intron_variant,,ENST00000528517,;"	"C"	"ENSG00000143156"	"ENST00000367811"	"Transcript"	"intron_variant"	"-/1642"	"-/1131"	"-/376"	""	""	""	"1"	NA	-1	"NME7"	"HGNC"	20461	"protein_coding"	"YES"	"CCDS1277.1"	"ENSP00000356785"	"Q9Y5B8"	""	"UPI000012FE8C"	"NM_013330.3"	""	""	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"7385c312-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264150943396226	"WGS"	FALSE
"5745"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	170284320	170284320	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"65"	22	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"73862514-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252873563218391	"WGS"	FALSE
"5746"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	170422977	170422977	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"75"	35	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"73862e60-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318181818181818	"WGS"	FALSE
"5747"	"MROH9"	80133	"mskcc.org"	"GRCh37"	"1"	170901376	170901376	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000367759"	""	106	"72"	34	55	"55"	0	"MROH9,upstream_gene_variant,,ENST00000367759,NM_001163629.1;MROH9,upstream_gene_variant,,ENST00000367758,NM_025063.2;"	"T"	"ENSG00000117501"	"ENST00000367759"	"Transcript"	"upstream_gene_variant"	"-/3165"	"-/2586"	"-/861"	""	""	""	"1"	"3236"	1	"MROH9"	"HGNC"	26287	"protein_coding"	"YES"	"CCDS53429.1"	"ENSP00000356733"	"Q5TGP6"	""	"UPI0001B09232"	"NM_001163629.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"73864fa8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.320754716981132	"WGS"	FALSE
"5748"	"ENSR00001525936"	0	"mskcc.org"	"GRCh37"	"1"	171097830	171097830	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001525936"	""	94	"67"	27	51	"51"	0	""	"A"	""	"ENSR00001525936"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"73866326-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287234042553192	"WGS"	FALSE
"5749"	"RABGAP1L"	9910	"mskcc.org"	"GRCh37"	"1"	174280785	174280785	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1465+6520C>T"	""	""	"ENST00000251507"	""	100	"90"	10	56	"56"	0	"RABGAP1L,intron_variant,,ENST00000251507,NM_014857.4;RABGAP1L,intron_variant,,ENST00000357444,;RABGAP1L,intron_variant,,ENST00000367689,;RABGAP1L,intron_variant,,ENST00000457696,;RABGAP1L,intron_variant,,ENST00000367690,;"	"T"	"ENSG00000152061"	"ENST00000251507"	"Transcript"	"intron_variant"	"-/2899"	"-/2448"	"-/815"	""	""	""	"1"	NA	1	"RABGAP1L"	"HGNC"	24663	"protein_coding"	"YES"	"CCDS1314.1"	"ENSP00000251507"	"Q5R372"	"F1LJ00"	"UPI0000458A9F"	"NM_014857.4"	""	""	""	"11/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"73877202-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"5750"	"TNR"	7143	"mskcc.org"	"GRCh37"	"1"	175473857	175473857	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-64+23548G>A"	""	""	"ENST00000367674"	""	87	"67"	20	49	"49"	0	"TNR,intron_variant,,ENST00000367674,;TNR,intron_variant,,ENST00000263525,NM_003285.2;"	"T"	"ENSG00000116147"	"ENST00000367674"	"Transcript"	"intron_variant"	"-/12949"	"-/4077"	"-/1358"	""	""	""	"1"	NA	-1	"TNR"	"HGNC"	11953	"protein_coding"	"YES"	"CCDS1318.1"	"ENSP00000356646"	"Q92752"	"A1L306"	"UPI000013D41C"	""	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"7387f600-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229885057471264	"WGS"	FALSE
"5751"	"ENSR00000548082"	0	"mskcc.org"	"GRCh37"	"1"	175766965	175766965	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000548082"	""	122	"89"	33	55	"55"	0	""	"T"	""	"ENSR00000548082"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"73880ae6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270491803278689	"WGS"	FALSE
"5752"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	176318150	176318150	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"95"	6	54	"54"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"73883732-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0594059405940594	"WGS"	FALSE
"5753"	"RP1-35C21.2"	0	"mskcc.org"	"GRCh37"	"1"	177371429	177371429	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.297-8505G>C"	""	""	"ENST00000438575"	""	86	"64"	22	44	"44"	0	"RP1-35C21.2,intron_variant,,ENST00000438575,;RP1-35C21.2,intron_variant,,ENST00000458070,;"	"G"	"ENSG00000227579"	"ENST00000438575"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/798"	""	""	""	""	""	"1"	NA	-1	"RP1-35C21.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"73887a58-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255813953488372	"WGS"	FALSE
"5754"	"RP1-35C21.2"	0	"mskcc.org"	"GRCh37"	"1"	177414800	177414800	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.297-51876A>C"	""	""	"ENST00000438575"	""	121	"86"	35	71	"71"	0	"RP1-35C21.2,intron_variant,,ENST00000438575,;RP1-35C21.2,intron_variant,,ENST00000458070,;"	"G"	"ENSG00000227579"	"ENST00000438575"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/798"	""	""	""	""	""	"1"	NA	-1	"RP1-35C21.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"738884da-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289256198347107	"WGS"	FALSE
"5755"	"RGL1"	23179	"mskcc.org"	"GRCh37"	"1"	183667059	183667059	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-32-44202G>A"	""	""	"ENST00000304685"	""	102	"69"	33	52	"52"	0	"RGL1,intron_variant,,ENST00000304685,NM_015149.3;RGL1,intron_variant,,ENST00000536277,;"	"A"	"ENSG00000143344"	"ENST00000304685"	"Transcript"	"intron_variant"	"-/5100"	"-/2412"	"-/803"	""	""	""	"1"	NA	1	"RGL1"	"HGNC"	30281	"protein_coding"	"YES"	"CCDS1359.1"	"ENSP00000303192"	"Q9NZL6"	""	"UPI000002B24C"	"NM_015149.3"	""	""	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"738ac538-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323529411764706	"WGS"	FALSE
"5756"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	187465606	187465606	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	32	"15"	17	28	"28"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"738c2522-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.53125	"WGS"	FALSE
"5757"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	189078535	189078535	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"78"	38	71	"71"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"738cd184-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.327586206896552	"WGS"	FALSE
"5758"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	195370203	195370203	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"73"	33	52	"52"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"738e6f30-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311320754716981	"WGS"	FALSE
"5759"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	195411768	195411768	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"85"	29	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"738e7034-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254385964912281	"WGS"	FALSE
"5760"	"KCNT2"	343450	"mskcc.org"	"GRCh37"	"1"	196322406	196322406	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1404-11048T>C"	""	""	"ENST00000294725"	""	95	"71"	24	47	"47"	0	"KCNT2,intron_variant,,ENST00000367433,NM_198503.2,NM_001287819.1;KCNT2,intron_variant,,ENST00000367431,;KCNT2,intron_variant,,ENST00000294725,;KCNT2,intron_variant,,ENST00000609185,;KCNT2,intron_variant,,ENST00000451324,;KCNT2,intron_variant,,ENST00000498426,;KCNT2,intron_variant,,ENST00000610076,;KCNT2,intron_variant,,ENST00000466914,;"	"G"	"ENSG00000162687"	"ENST00000294725"	"Transcript"	"intron_variant"	"-/4409"	"-/3408"	"-/1135"	""	""	""	"1"	NA	-1	"KCNT2"	"HGNC"	18866	"protein_coding"	"YES"	"CCDS1384.1"	"ENSP00000294725"	"Q6UVM3"	"A9LNM6"	"UPI00001E0966"	""	""	""	""	"14/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"738eb0e4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"5761"	"CFH"	3075	"mskcc.org"	"GRCh37"	"1"	196621761	196621761	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.58+456T>A"	""	""	"ENST00000367429"	""	106	"75"	31	70	"70"	0	"CFH,intron_variant,,ENST00000367429,NM_000186.3;CFH,intron_variant,,ENST00000439155,NM_001014975.2;CFH,intron_variant,,ENST00000359637,;CFH,intron_variant,,ENST00000496761,;"	"A"	"ENSG00000000971"	"ENST00000367429"	"Transcript"	"intron_variant"	"-/4127"	"-/3696"	"-/1231"	""	""	""	"1"	NA	1	"CFH"	"HGNC"	4883	"protein_coding"	"YES"	"CCDS1385.1"	"ENSP00000356399"	"P08603"	""	"UPI000013C4D1"	"NM_000186.3"	""	""	""	"1/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"738ec912-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292452830188679	"WGS"	FALSE
"5762"	"ENSR00000550408"	0	"mskcc.org"	"GRCh37"	"1"	199052841	199052841	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000550408"	""	92	"76"	16	71	"71"	0	""	"T"	""	"ENSR00000550408"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"738fc830-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"5763"	"KIF14"	9928	"mskcc.org"	"GRCh37"	"1"	200518000	200518000	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000367350"	""	62	"55"	7	32	"32"	0	"KIF14,downstream_gene_variant,,ENST00000367350,NM_014875.2;"	"C"	"ENSG00000118193"	"ENST00000367350"	"Transcript"	"downstream_gene_variant"	"-/7274"	"-/4947"	"-/1648"	""	""	""	"1"	"2628"	-1	"KIF14"	"HGNC"	19181	"protein_coding"	"YES"	"CCDS30963.1"	"ENSP00000356319"	"Q15058"	""	"UPI000012DDA3"	"NM_014875.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"73905d9a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112903225806452	"WGS"	FALSE
"5764"	"PPP1R12B"	4660	"mskcc.org"	"GRCh37"	"1"	202474463	202474463	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2490+8513G>T"	""	""	"ENST00000608999"	""	103	"71"	32	50	"50"	0	"PPP1R12B,intron_variant,,ENST00000608999,NM_002481.3,NM_001197131.1;PPP1R12B,intron_variant,,ENST00000336894,;PPP1R12B,intron_variant,,ENST00000367270,NM_032104.2;PPP1R12B,intron_variant,,ENST00000391959,NM_032103.2,NM_001197131.1;PPP1R12B,intron_variant,,ENST00000290419,;PPP1R12B,intron_variant,,ENST00000491336,;PPP1R12B,intron_variant,,ENST00000466273,;PPP1R12B,downstream_gene_variant,,ENST00000498070,;"	"T"	"ENSG00000077157"	"ENST00000608999"	"Transcript"	"intron_variant"	"-/15248"	"-/2949"	"-/982"	""	""	""	"1"	NA	1	"PPP1R12B"	"HGNC"	7619	"protein_coding"	"YES"	"CCDS1426.1"	"ENSP00000476755"	""	""	"UPI0000458A57"	"NM_002481.3,NM_001197131.1"	""	""	""	"18/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"73919d7c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310679611650485	"WGS"	FALSE
"5765"	"RP11-480I12.5"	0	"mskcc.org"	"GRCh37"	"1"	202820717	202820717	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000443294"	""	51	"43"	8	24	"24"	0	"RP11-480I12.5,downstream_gene_variant,,ENST00000443294,;RP11-480I12.5,downstream_gene_variant,,ENST00000449915,;RP11-480I12.5,downstream_gene_variant,,ENST00000442868,;"	"C"	"ENSG00000214796"	"ENST00000443294"	"Transcript"	"downstream_gene_variant"	"-/1835"	""	""	""	""	""	"1"	"239"	-1	"RP11-480I12.5"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7391deae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.156862745098039	"WGS"	FALSE
"5766"	"ENSR00000551227"	0	"mskcc.org"	"GRCh37"	"1"	203896023	203896023	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000551227"	""	41	"37"	4	17	"17"	0	""	"A"	""	"ENSR00000551227"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"73927a3a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WGS"	FALSE
"5767"	"LEMD1"	93273	"mskcc.org"	"GRCh37"	"1"	205397491	205397491	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-38-7789A>C"	""	""	"ENST00000367154"	""	97	"74"	23	64	"64"	0	"LEMD1,intron_variant,,ENST00000367154,;LEMD1,intron_variant,,ENST00000495594,;"	"G"	"ENSG00000186007"	"ENST00000367154"	"Transcript"	"intron_variant"	"-/786"	"-/327"	"-/108"	""	""	""	"1"	NA	-1	"LEMD1"	"HGNC"	18725	"protein_coding"	""	"CCDS30986.1"	"ENSP00000356122"	"Q68G75"	""	"UPI000015FC68"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"73932930-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.237113402061856	"WGS"	FALSE
"5768"	"ENSR00000551573"	0	"mskcc.org"	"GRCh37"	"1"	205857698	205857698	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000551573"	""	105	"71"	34	52	"52"	0	""	"A"	""	"ENSR00000551573"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"73936030-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323809523809524	"WGS"	FALSE
"5769"	"RASSF5"	83593	"mskcc.org"	"GRCh37"	"1"	206731201	206731201	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.579+19579G>T"	""	""	"ENST00000355294"	""	89	"60"	29	45	"45"	0	"RASSF5,intron_variant,,ENST00000304534,NM_182665.2;RASSF5,intron_variant,,ENST00000355294,NM_182663.2;RASSF5,intron_variant,,ENST00000367117,NM_182664.2;"	"T"	"ENSG00000136653"	"ENST00000355294"	"Transcript"	"intron_variant"	"-/2048"	"-/1257"	"-/418"	""	""	""	"1"	NA	1	"RASSF5"	"HGNC"	17609	"protein_coding"	"YES"	"CCDS30998.1"	"ENSP00000347443"	"Q8WWW0"	""	"UPI0000072CF5"	"NM_182663.2"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"739420ec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325842696629214	"WGS"	FALSE
"5770"	"SPATA17"	128153	"mskcc.org"	"GRCh37"	"1"	217879272	217879272	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.395+22569A>C"	""	""	"ENST00000366933"	""	96	"65"	31	49	"49"	0	"SPATA17,intron_variant,,ENST00000366933,NM_138796.2;SPATA17,intron_variant,,ENST00000470448,;"	"C"	"ENSG00000162814"	"ENST00000366933"	"Transcript"	"intron_variant"	"-/5818"	"-/1086"	"-/361"	""	""	""	"1"	NA	1	"SPATA17"	"HGNC"	25184	"protein_coding"	"YES"	"CCDS1519.1"	"ENSP00000355900"	"Q96L03"	"R4GN71"	"UPI00000717C2"	"NM_138796.2"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"73981f3a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322916666666667	"WGS"	FALSE
"5771"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	218751678	218751678	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"115"	6	67	"67"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7398613e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0495867768595041	"WGS"	FALSE
"5772"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	218805543	218805543	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"65"	35	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"73986da0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WGS"	FALSE
"5773"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	220553978	220553978	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"66"	25	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"7398ea50-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274725274725275	"WGS"	FALSE
"5774"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	221071705	221071705	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"58"	26	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"73991840-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30952380952381	"WGS"	FALSE
"5775"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	221195511	221195511	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"59"	30	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"7399236c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337078651685393	"WGS"	FALSE
"5776"	"RP11-400N13.1"	0	"mskcc.org"	"GRCh37"	"1"	222531424	222531424	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.167+27559C>T"	""	""	"ENST00000416510"	""	102	"70"	32	65	"65"	0	"RP11-400N13.1,intron_variant,,ENST00000416510,;"	"A"	"ENSG00000236230"	"ENST00000416510"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/675"	""	""	""	""	""	"1"	NA	-1	"RP11-400N13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7399902c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313725490196078	"WGS"	FALSE
"5777"	"WNT3A"	89780	"mskcc.org"	"GRCh37"	"1"	228212948	228212948	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.313+2339G>T"	""	""	"ENST00000284523"	""	111	"72"	39	54	"54"	0	"WNT3A,intron_variant,,ENST00000284523,NM_033131.3;WNT3A,intron_variant,,ENST00000366753,;"	"T"	"ENSG00000154342"	"ENST00000284523"	"Transcript"	"intron_variant"	"-/2932"	"-/1059"	"-/352"	""	""	""	"1"	NA	1	"WNT3A"	"HGNC"	15983	"protein_coding"	"YES"	"CCDS1564.1"	"ENSP00000284523"	"P56704"	""	"UPI000004F0E2"	"NM_033131.3"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"739cb2ac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351351351351351	"WGS"	FALSE
"5778"	"BTNL10"	0	"mskcc.org"	"GRCh37"	"1"	228695562	228695562	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000400948"	""	82	"61"	21	64	"64"	0	"BTNL10,downstream_gene_variant,,ENST00000400948,;BTNL10,downstream_gene_variant,,ENST00000413130,;BTNL10,downstream_gene_variant,,ENST00000595971,;"	"A"	"ENSG00000215811"	"ENST00000400948"	"Transcript"	"downstream_gene_variant"	"-/693"	""	""	""	""	""	"1"	"2564"	-1	"BTNL10"	"HGNC"	42540	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"739cecc2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25609756097561	"WGS"	FALSE
"5779"	"CCSAP"	126731	"mskcc.org"	"GRCh37"	"1"	229466313	229466313	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.368-3560C>T"	""	""	"ENST00000284617"	""	74	"45"	29	46	"46"	0	"CCSAP,intron_variant,,ENST00000284617,NM_145257.3;CCSAP,intron_variant,,ENST00000366687,;CCSAP,intron_variant,,ENST00000366686,;CCSAP,intron_variant,,ENST00000452552,;CCSAP,intron_variant,,ENST00000483092,;"	"A"	"ENSG00000154429"	"ENST00000284617"	"Transcript"	"intron_variant"	"-/5157"	"-/813"	"-/270"	""	""	""	"1"	NA	-1	"CCSAP"	"HGNC"	29578	"protein_coding"	"YES"	"CCDS1577.1"	"ENSP00000284617"	"Q6IQ19"	""	"UPI0000071365"	"NM_145257.3"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"739d83a8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.391891891891892	"WGS"	FALSE
"5780"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	229553833	229553833	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"88"	6	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"739d9000-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"5781"	"SNRPD2P2"	645339	"mskcc.org"	"GRCh37"	"1"	231613605	231613605	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000473818"	""	83	"76"	7	49	"49"	0	"SNRPD2P2,upstream_gene_variant,,ENST00000473818,;"	"C"	"ENSG00000223982"	"ENST00000473818"	"Transcript"	"upstream_gene_variant"	"-/333"	""	""	""	""	""	"1"	"1571"	-1	"SNRPD2P2"	"HGNC"	38598	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"739e8852-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"5782"	"TARBP1"	6894	"mskcc.org"	"GRCh37"	"1"	234599557	234599557	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"rs778417878"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1399+26A>T"	""	""	"ENST00000040877"	""	135	"128"	7	60	"60"	0	"TARBP1,intron_variant,,ENST00000040877,NM_005646.3;"	"A"	"ENSG00000059588"	"ENST00000040877"	"Transcript"	"intron_variant"	"-/5130"	"-/4866"	"-/1621"	""	""	"rs778417878"	"1"	NA	-1	"TARBP1"	"HGNC"	11568	"protein_coding"	"YES"	"CCDS1601.1"	"ENSP00000040877"	"Q13395"	""	"UPI000006DB0F"	"NM_005646.3"	""	""	""	"6/29"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	"9.479e-06"	"0"	"0.0004634"	"0"	"0"	"0"	"0"	"0"	NA	"PASS"	"TTA"	"73a00678-ffcc-11e5-9bf8-a690c673b430"	"."	3.431e-05	"1/29146"	"1/105498"	"0/3288"	"1/2158"	"0/2496"	"0/2670"	"0/10584"	"0/246"	"0/7704"	"PASS"	"FALSE"	0.0518518518518519	"WGS"	FALSE
"5783"	"LYST"	1130	"mskcc.org"	"GRCh37"	"1"	235935180	235935180	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5785-1583A>T"	""	""	"ENST00000389794"	""	93	"70"	23	63	"63"	0	"LYST,intron_variant,,ENST00000389794,;LYST,intron_variant,,ENST00000389793,NM_000081.3;LYST,intron_variant,,ENST00000536965,;LYST,intron_variant,,ENST00000489585,;"	"A"	"ENSG00000143669"	"ENST00000389794"	"Transcript"	"intron_variant"	"-/13480"	"-/11406"	"-/3801"	""	""	""	"1"	NA	-1	"LYST"	"HGNC"	1968	"protein_coding"	"YES"	"CCDS31062.1"	"ENSP00000374444"	"Q99698"	""	"UPI000020509E"	""	""	""	""	"19/52"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"73a0fd9e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247311827956989	"WGS"	FALSE
"5784"	"HEATR1"	55127	"mskcc.org"	"GRCh37"	"1"	236750139	236750139	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1716-387G>A"	""	""	"ENST00000366582"	""	96	"66"	30	72	"72"	0	"HEATR1,intron_variant,,ENST00000366582,NM_018072.5;HEATR1,intron_variant,,ENST00000366581,;"	"T"	"ENSG00000119285"	"ENST00000366582"	"Transcript"	"intron_variant"	"-/8447"	"-/6435"	"-/2144"	""	""	""	"1"	NA	-1	"HEATR1"	"HGNC"	25517	"protein_coding"	"YES"	"CCDS31066.1"	"ENSP00000355541"	"Q9H583"	"Q6P664"	"UPI000013D4D4"	"NM_018072.5"	""	""	""	"14/44"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"73a17814-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"5785"	"ACTN2"	88	"mskcc.org"	"GRCh37"	"1"	236924068	236924068	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2368-247G>A"	""	""	"ENST00000366578"	""	98	"74"	24	51	"51"	0	"ACTN2,intron_variant,,ENST00000366578,NM_001278344.1,NM_001103.3;ACTN2,intron_variant,,ENST00000542672,NM_001278343.1;ACTN2,intron_variant,,ENST00000546208,;ACTN2,intron_variant,,ENST00000461367,;"	"A"	"ENSG00000077522"	"ENST00000366578"	"Transcript"	"intron_variant"	"-/4863"	"-/2685"	"-/894"	""	""	""	"1"	NA	1	"ACTN2"	"HGNC"	164	"protein_coding"	"YES"	"CCDS1613.1"	"ENSP00000355537"	"P35609"	"B7Z4P8"	"UPI0000125088"	"NM_001278344.1,NM_001103.3"	""	""	""	"19/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"73a19920-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244897959183673	"WGS"	FALSE
"5786"	"MTR"	4548	"mskcc.org"	"GRCh37"	"1"	237007198	237007198	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1515+5299G>A"	""	""	"ENST00000366577"	""	105	"72"	33	61	"61"	0	"MTR,intron_variant,,ENST00000366577,NM_000254.2;MTR,intron_variant,,ENST00000366576,;MTR,intron_variant,,ENST00000535889,;MTR,intron_variant,,ENST00000463959,;"	"A"	"ENSG00000116984"	"ENST00000366577"	"Transcript"	"intron_variant"	"-/10529"	"-/3798"	"-/1265"	""	""	""	"1"	NA	1	"MTR"	"HGNC"	7468	"protein_coding"	"YES"	"CCDS1614.1"	"ENSP00000355536"	"Q99707"	""	"UPI0000036BC4"	"NM_000254.2"	""	""	""	"15/32"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"73a19ce0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314285714285714	"WGS"	FALSE
"5787"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	238977783	238977783	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"71"	26	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"73a27836-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268041237113402	"WGS"	FALSE
"5788"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	240096341	240096341	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"85"	26	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"73a2d74a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234234234234234	"WGS"	FALSE
"5789"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	241544962	241544962	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"78"	20	70	"70"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"73a3832a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204081632653061	"WGS"	FALSE
"5790"	"PLD5"	200150	"mskcc.org"	"GRCh37"	"1"	242418351	242418351	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.607+10288T>A"	""	""	"ENST00000536534"	""	80	"73"	7	44	"44"	0	"PLD5,intron_variant,,ENST00000536534,;PLD5,intron_variant,,ENST00000442594,NM_152666.2;PLD5,intron_variant,,ENST00000427495,NM_001195811.1,NM_001195812.1;PLD5,intron_variant,,ENST00000474177,;PLD5,intron_variant,,ENST00000314833,;PLD5,intron_variant,,ENST00000366545,;PLD5,intron_variant,,ENST00000467561,;"	"T"	"ENSG00000180287"	"ENST00000536534"	"Transcript"	"intron_variant"	"-/8721"	"-/1611"	"-/536"	""	""	""	"1"	NA	-1	"PLD5"	"HGNC"	26879	"protein_coding"	"YES"	"CCDS1621.2"	"ENSP00000440896"	"Q8N7P1"	"J3KP61"	"UPI000040E1A4"	""	""	""	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"73a3e478-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0875	"WGS"	FALSE
"5791"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	244304814	244304814	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"54"	24	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"73a4f7fa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"5792"	"AHCTF1"	25909	"mskcc.org"	"GRCh37"	"1"	247002775	247002775	"+"	"3'UTR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1333C>T"	""	""	"ENST00000326225"	"36/36"	102	"82"	20	57	"57"	0	"AHCTF1,3_prime_UTR_variant,,ENST00000366508,;AHCTF1,3_prime_UTR_variant,,ENST00000326225,NM_015446.4;AHCTF1,3_prime_UTR_variant,,ENST00000391829,;AHCTF1,non_coding_transcript_exon_variant,,ENST00000470300,;AHCTF1,downstream_gene_variant,,ENST00000498601,;"	"A"	"ENSG00000153207"	"ENST00000326225"	"Transcript"	"3_prime_UTR_variant"	"8258/8633"	"-/6828"	"-/2275"	""	""	""	"1"	NA	-1	"AHCTF1"	"HGNC"	24618	"protein_coding"	"YES"	"CCDS1629.2"	"ENSP00000355465"	"Q8WYP5"	"C9J5C5"	"UPI0000204034"	"NM_015446.4"	""	""	"36/36"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"73a71076-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196078431372549	"WGS"	FALSE
"5793"	"ENSR00001530993"	0	"mskcc.org"	"GRCh37"	"1"	247501653	247501653	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001530993"	""	94	"66"	28	45	"45"	0	""	"A"	""	"ENSR00001530993"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"73a75964-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297872340425532	"WGS"	FALSE
"5794"	"DIP2C"	22982	"mskcc.org"	"GRCh37"	"10"	513299	513299	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.268+5080A>G"	""	""	"ENST00000280886"	""	46	"40"	6	23	"23"	0	"DIP2C,intron_variant,,ENST00000280886,NM_014974.2;DIP2C,intron_variant,,ENST00000381496,;DIP2C,intron_variant,,ENST00000423550,;"	"C"	"ENSG00000151240"	"ENST00000280886"	"Transcript"	"intron_variant"	"-/7894"	"-/4671"	"-/1556"	""	""	""	"1"	NA	-1	"DIP2C"	"HGNC"	29150	"protein_coding"	"YES"	"CCDS7054.1"	"ENSP00000280886"	"Q9Y2E4"	""	"UPI00001833B9"	"NM_014974.2"	""	""	""	"3/36"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"73aa30b2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"5795"	"ADARB2"	105	"mskcc.org"	"GRCh37"	"10"	1454660	1454660	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.101-33305T>C"	""	""	"ENST00000381312"	""	91	"83"	8	57	"57"	0	"ADARB2,intron_variant,,ENST00000381312,NM_018702.3;"	"G"	"ENSG00000185736"	"ENST00000381312"	"Transcript"	"intron_variant"	"-/3606"	"-/2220"	"-/739"	""	""	""	"1"	NA	-1	"ADARB2"	"HGNC"	227	"protein_coding"	"YES"	"CCDS7058.1"	"ENSP00000370713"	"Q9NS39"	"Q5VW43"	"UPI0000071776"	"NM_018702.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"73abf8f2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0879120879120879	"WGS"	FALSE
"5796"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	2872510	2872510	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"82"	8	40	"40"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"73ad939c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"5797"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	2921253	2921253	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"64"	35	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"73ad9dce-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.353535353535354	"WGS"	FALSE
"5798"	"RP11-298E9.6"	0	"mskcc.org"	"GRCh37"	"10"	3280553	3280553	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"rs114678354"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000417149"	""	93	"70"	23	43	"43"	0	"RP11-298E9.6,downstream_gene_variant,,ENST00000417149,;"	"A"	"ENSG00000226762"	"ENST00000417149"	"Transcript"	"downstream_gene_variant"	"-/390"	""	""	""	""	"rs114678354"	"1"	"2010"	-1	"RP11-298E9.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"A:0.0064"	"A:0.0242"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"73adeac2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247311827956989	"WGS"	FALSE
"5799"	"ENSR00000349828"	0	"mskcc.org"	"GRCh37"	"10"	3966972	3966972	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000349828"	""	112	"75"	37	58	"58"	0	""	"A"	""	"ENSR00000349828"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"73aec8a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330357142857143	"WGS"	FALSE
"5800"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	6688983	6688983	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"32"	6	13	"13"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"73b049a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"5801"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	10789235	10789235	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"81"	25	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"73b29c52-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235849056603774	"WGS"	FALSE
"5802"	"FRMD4A"	55691	"mskcc.org"	"GRCh37"	"10"	14197642	14197642	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs61246898"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.45+174415G>A"	""	""	"ENST00000357447"	""	102	"78"	24	51	"51"	0	"FRMD4A,intron_variant,,ENST00000357447,NM_018027.3;FRMD4A,intron_variant,,ENST00000378503,;FRMD4A,intron_variant,,ENST00000493380,;"	"T"	"ENSG00000151474"	"ENST00000357447"	"Transcript"	"intron_variant"	"-/6815"	"-/3120"	"-/1039"	""	""	"rs61246898"	"1"	NA	-1	"FRMD4A"	"HGNC"	25491	"protein_coding"	"YES"	"CCDS7101.1"	"ENSP00000350032"	"Q9P2Q2"	"F8WAN4"	"UPI0000366665"	"NM_018027.3"	""	""	""	"2/24"	""	"T:0.0365"	"T:0.1316"	"T:0.0115"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"73b47c3e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"5803"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	14823578	14823578	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"85"	25	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"73b4c84c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"5804"	"PTER"	9317	"mskcc.org"	"GRCh37"	"10"	16525143	16525143	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-48-1193G>T"	""	""	"ENST00000378000"	""	82	"54"	28	51	"51"	0	"PTER,intron_variant,,ENST00000378000,NM_001001484.2,NM_001261838.1,NM_030664.4;PTER,intron_variant,,ENST00000423462,NM_001261837.1;PTER,intron_variant,,ENST00000535784,NM_001261836.1;PTER,upstream_gene_variant,,ENST00000298942,NM_001261838.1;PTER,upstream_gene_variant,,ENST00000485788,;"	"T"	"ENSG00000165983"	"ENST00000378000"	"Transcript"	"intron_variant"	"-/3777"	"-/1050"	"-/349"	""	""	""	"1"	NA	1	"PTER"	"HGNC"	9590	"protein_coding"	"YES"	"CCDS7111.1"	"ENSP00000367239"	"Q96BW5"	""	"UPI00000492E9"	"NM_001001484.2,NM_001261838.1,NM_030664.4"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"73b5c49a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341463414634146	"WGS"	FALSE
"5805"	"C1QL3"	389941	"mskcc.org"	"GRCh37"	"10"	16561762	16561762	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.588+715G>A"	""	""	"ENST00000298943"	""	80	"55"	25	52	"52"	0	"C1QL3,intron_variant,,ENST00000298943,NM_001010908.1;"	"T"	"ENSG00000165985"	"ENST00000298943"	"Transcript"	"intron_variant"	"-/2493"	"-/768"	"-/255"	""	""	""	"1"	NA	-1	"C1QL3"	"HGNC"	19359	"protein_coding"	"YES"	"CCDS31156.1"	"ENSP00000298943"	"Q5VWW1"	""	"UPI000013E53F"	"NM_001010908.1"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"73b5c76a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"5806"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	19069446	19069446	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs112810695"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"65"	32	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112810695"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"73b6aedc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329896907216495	"WGS"	FALSE
"5807"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	20802280	20802280	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"76"	29	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"73b74e78-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276190476190476	"WGS"	FALSE
"5808"	"MYO3A"	53904	"mskcc.org"	"GRCh37"	"10"	26264447	26264447	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.303+20510C>A"	""	""	"ENST00000265944"	""	115	"108"	7	64	"64"	0	"MYO3A,intron_variant,,ENST00000265944,NM_017433.4;MYO3A,intron_variant,,ENST00000376302,;MYO3A,intron_variant,,ENST00000543632,;MYO3A,intron_variant,,ENST00000376301,;"	"A"	"ENSG00000095777"	"ENST00000265944"	"Transcript"	"intron_variant"	"-/5581"	"-/4851"	"-/1616"	""	""	""	"1"	NA	1	"MYO3A"	"HGNC"	7601	"protein_coding"	"YES"	"CCDS7148.1"	"ENSP00000265944"	"Q8NEV4"	""	"UPI000014140A"	"NM_017433.4"	""	""	""	"4/34"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"73b9a1a0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0608695652173913	"WGS"	FALSE
"5809"	"MYO3A"	53904	"mskcc.org"	"GRCh37"	"10"	26495095	26495095	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4730+3059G>T"	""	""	"ENST00000265944"	""	72	"66"	6	46	"46"	0	"MYO3A,intron_variant,,ENST00000265944,NM_017433.4;MYO3A,intron_variant,,ENST00000543632,;MYO3A,downstream_gene_variant,,ENST00000478093,;"	"T"	"ENSG00000095777"	"ENST00000265944"	"Transcript"	"intron_variant"	"-/5581"	"-/4851"	"-/1616"	""	""	""	"1"	NA	1	"MYO3A"	"HGNC"	7601	"protein_coding"	"YES"	"CCDS7148.1"	"ENSP00000265944"	"Q8NEV4"	""	"UPI000014140A"	"NM_017433.4"	""	""	""	"34/34"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"73b9a89e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"5810"	"RP13-16H11.2"	0	"mskcc.org"	"GRCh37"	"10"	26953175	26953175	"+"	"RNA"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.279T>G"	""	""	"ENST00000446557"	"3/3"	47	"42"	5	25	"25"	0	"RP13-16H11.2,non_coding_transcript_exon_variant,,ENST00000446557,;"	"C"	"ENSG00000227932"	"ENST00000446557"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"279/319"	""	""	""	""	""	"1"	NA	-1	"RP13-16H11.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"73b9d8f0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106382978723404	"WGS"	FALSE
"5811"	"RP11-218D6.4"	0	"mskcc.org"	"GRCh37"	"10"	28316925	28316925	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.212+5465C>T"	""	""	"ENST00000425137"	""	96	"67"	29	61	"61"	0	"RP11-218D6.4,intron_variant,,ENST00000425137,;"	"T"	"ENSG00000233472"	"ENST00000425137"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/469"	""	""	""	""	""	"1"	NA	1	"RP11-218D6.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"73ba6d1a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302083333333333	"WGS"	FALSE
"5812"	"SVIL"	6840	"mskcc.org"	"GRCh37"	"10"	29754943	29754943	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5978-264A>G"	""	""	"ENST00000375398"	""	102	"74"	28	48	"48"	0	"SVIL,intron_variant,,ENST00000375398,;SVIL,intron_variant,,ENST00000355867,NM_021738.2;SVIL,intron_variant,,ENST00000375400,NM_003174.3;SVIL,intron_variant,,ENST00000535393,;PTCHD3P1,intron_variant,,ENST00000414457,;PTCHD3P1,intron_variant,,ENST00000446807,;PTCHD3P1,intron_variant,,ENST00000413405,;PTCHD3P1,intron_variant,,ENST00000423223,;PTCHD3P1,intron_variant,,ENST00000455774,;PTCHD3P1,intron_variant,,ENST00000445521,;"	"C"	"ENSG00000197321"	"ENST00000375398"	"Transcript"	"intron_variant"	"-/7994"	"-/6645"	"-/2214"	""	""	""	"1"	NA	-1	"SVIL"	"HGNC"	11480	"protein_coding"	"YES"	"CCDS7164.1"	"ENSP00000364547"	"O95425"	"Q569J5"	"UPI0000366678"	""	""	""	""	"35/39"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"73bb18f0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274509803921569	"WGS"	FALSE
"5813"	"KIAA1462"	57608	"mskcc.org"	"GRCh37"	"10"	30399098	30399098	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.128+5198T>C"	""	""	"ENST00000465712"	""	72	"66"	6	48	"48"	0	"KIAA1462,intron_variant,,ENST00000465712,;"	"G"	"ENSG00000165757"	"ENST00000465712"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/590"	""	""	""	""	""	"1"	NA	-1	"KIAA1462"	"HGNC"	29283	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"73bb6346-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"5814"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	30550524	30550524	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"rs117777397"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"98"	7	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs117777397"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"73bb79bc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"5815"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	30763180	30763180	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"86"	30	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"73bb9456-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258620689655172	"WGS"	FALSE
"5816"	"RPL23P11"	0	"mskcc.org"	"GRCh37"	"10"	34157162	34157162	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000418077"	""	99	"68"	31	65	"65"	0	"RPL23P11,downstream_gene_variant,,ENST00000418077,;"	"A"	"ENSG00000226407"	"ENST00000418077"	"Transcript"	"downstream_gene_variant"	"-/411"	""	""	""	""	""	"1"	"3511"	1	"RPL23P11"	"HGNC"	36457	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"73bd27e4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313131313131313	"WGS"	FALSE
"5817"	"PARD3"	56288	"mskcc.org"	"GRCh37"	"10"	34846933	34846933	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.223-40846A>C"	""	""	"ENST00000374789"	""	105	"73"	32	55	"55"	0	"PARD3,intron_variant,,ENST00000374789,NM_019619.3;PARD3,intron_variant,,ENST00000374788,NM_001184785.1;PARD3,intron_variant,,ENST00000545693,NM_001184786.1;PARD3,intron_variant,,ENST00000346874,NM_001184787.1;PARD3,intron_variant,,ENST00000350537,NM_001184788.1,NM_001184789.1;PARD3,intron_variant,,ENST00000374790,;PARD3,intron_variant,,ENST00000545260,NM_001184790.1;PARD3,intron_variant,,ENST00000374794,NM_001184791.1;PARD3,intron_variant,,ENST00000340077,NM_001184792.1;PARD3,intron_variant,,ENST00000374773,NM_001184793.1;PARD3,intron_variant,,ENST00000374776,NM_001184794.1;"	"G"	"ENSG00000148498"	"ENST00000374789"	"Transcript"	"intron_variant"	"-/6005"	"-/4071"	"-/1356"	""	""	""	"1"	NA	-1	"PARD3"	"HGNC"	16051	"protein_coding"	"YES"	"CCDS7178.1"	"ENSP00000363921"	"Q8TEW0"	""	"UPI0000073A9F"	"NM_019619.3"	""	""	""	"2/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"73bd6204-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304761904761905	"WGS"	FALSE
"5818"	"CREM"	1390	"mskcc.org"	"GRCh37"	"10"	35443185	35443185	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.168+5766C>A"	""	""	"ENST00000345491"	""	108	"76"	32	43	"43"	0	"CREM,3_prime_UTR_variant,,ENST00000469949,;CREM,intron_variant,,ENST00000333809,NM_183011.1;CREM,intron_variant,,ENST00000439705,NM_183012.1;CREM,intron_variant,,ENST00000395895,;CREM,intron_variant,,ENST00000345491,NM_181571.2,NM_001267562.1;CREM,intron_variant,,ENST00000374721,;CREM,intron_variant,,ENST00000374728,NM_183060.2;CREM,intron_variant,,ENST00000348787,NM_182770.2,NM_001267563.1;CREM,intron_variant,,ENST00000354759,NM_183013.2;CREM,intron_variant,,ENST00000429130,;CREM,intron_variant,,ENST00000460270,;CREM,intron_variant,,ENST00000374726,NM_001881.3;CREM,intron_variant,,ENST00000474362,;CREM,intron_variant,,ENST00000479070,;CREM,intron_variant,,ENST00000337656,;CREM,intron_variant,,ENST00000489321,;CREM,intron_variant,,ENST00000374734,;CREM,intron_variant,,ENST00000487132,;CREM,intron_variant,,ENST00000427847,;CREM,intron_variant,,ENST00000489388,;CREM,intron_variant,,ENST00000461968,;CREM,intron_variant,,ENST00000496019,;CREM,intron_variant,,ENST00000466251,;CREM,downstream_gene_variant,,ENST00000496626,;CREM,intron_variant,,ENST00000490460,;CREM,intron_variant,,ENST00000495960,;CREM,intron_variant,,ENST00000464475,;CREM,intron_variant,,ENST00000482633,;ATP6V1G1P4,upstream_gene_variant,,ENST00000438388,;"	"A"	"ENSG00000095794"	"ENST00000345491"	"Transcript"	"intron_variant"	"-/2220"	"-/903"	"-/300"	""	""	""	"1"	NA	1	"CREM"	"HGNC"	2352	"protein_coding"	"YES"	"CCDS7180.1"	"ENSP00000265372"	"Q03060"	"E9PBM5,E9PB41,C9J5A7,C9J2J0"	"UPI00001BDF4F"	"NM_181571.2,NM_001267562.1"	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"73bda6a6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"5819"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	36453596	36453596	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"55"	30	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"73be2414-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WGS"	FALSE
"5820"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	37770762	37770762	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"rs59378405"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"73"	6	32	"32"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs59378405"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"73beb38e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"5821"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	42618168	42618168	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs574788051"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"57"	26	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs574788051"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0004"	"T:0.0015"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"73c3886e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313253012048193	"WGS"	FALSE
"5822"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	42887485	42887485	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"59"	13	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"73c568e6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180555555555556	"WGS"	FALSE
"5823"	"FXYD4"	53828	"mskcc.org"	"GRCh37"	"10"	43863015	43863015	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000476166"	""	63	"57"	6	32	"32"	0	"FXYD4,upstream_gene_variant,,ENST00000476166,NM_173160.2;FXYD4,upstream_gene_variant,,ENST00000480834,;"	"G"	"ENSG00000150201"	"ENST00000476166"	"Transcript"	"upstream_gene_variant"	"-/770"	"-/270"	"-/89"	""	""	""	"1"	"4075"	1	"FXYD4"	"HGNC"	4028	"protein_coding"	"YES"	"CCDS7203.1"	"ENSP00000473361"	"P59646"	""	"UPI0000160F0C"	"NM_173160.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"73c5ebe0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"5824"	"FXYD4"	53828	"mskcc.org"	"GRCh37"	"10"	43863027	43863027	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000476166"	""	69	"62"	7	33	"33"	0	"FXYD4,upstream_gene_variant,,ENST00000476166,NM_173160.2;FXYD4,upstream_gene_variant,,ENST00000480834,;"	"G"	"ENSG00000150201"	"ENST00000476166"	"Transcript"	"upstream_gene_variant"	"-/770"	"-/270"	"-/89"	""	""	""	"1"	"4063"	1	"FXYD4"	"HGNC"	4028	"protein_coding"	"YES"	"CCDS7203.1"	"ENSP00000473361"	"P59646"	""	"UPI0000160F0C"	"NM_173160.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"73c5eed8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101449275362319	"WGS"	FALSE
"5825"	"LINC00619"	414260	"mskcc.org"	"GRCh37"	"10"	44336327	44336327	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000374432"	""	101	"73"	28	59	"59"	0	"LINC00619,upstream_gene_variant,,ENST00000374432,;"	"T"	"ENSG00000204187"	"ENST00000374432"	"Transcript"	"upstream_gene_variant"	"-/1121"	""	""	""	""	""	"1"	"4427"	1	"LINC00619"	"HGNC"	31657	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"73c622ae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277227722772277	"WGS"	FALSE
"5826"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	45859832	45859832	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"72"	24	62	"62"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"73c69f0e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"5827"	"SYT15"	83849	"mskcc.org"	"GRCh37"	"10"	46972355	46972355	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000374321"	""	195	"169"	26	103	"103"	0	"SYT15,upstream_gene_variant,,ENST00000374323,;SYT15,upstream_gene_variant,,ENST00000374325,NM_181519.2;SYT15,upstream_gene_variant,,ENST00000374321,NM_031912.4;SYT15,upstream_gene_variant,,ENST00000503753,;SYT15,upstream_gene_variant,,ENST00000374328,;SYT15,upstream_gene_variant,,ENST00000512997,;"	"C"	"ENSG00000204176"	"ENST00000374321"	"Transcript"	"upstream_gene_variant"	"-/1369"	"-/1266"	"-/421"	""	""	""	"1"	"1840"	-1	"SYT15"	"HGNC"	17167	"protein_coding"	"YES"	"CCDS44376.1"	"ENSP00000363441"	"Q9BQS2"	""	"UPI00001AA161"	"NM_031912.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"73c6fbac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"5828"	"AGAP10"	728127	"mskcc.org"	"GRCh37"	"10"	47244686	47244686	"+"	"5'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000413193"	""	9	"5"	4	8	"8"	0	"AGAP10,upstream_gene_variant,,ENST00000413193,;BMS1P2,upstream_gene_variant,,ENST00000532854,;RP11-144G6.12,upstream_gene_variant,,ENST00000605970,;RP11-144G6.12,upstream_gene_variant,,ENST00000431840,;BMS1P2,upstream_gene_variant,,ENST00000450360,;"	"G"	"ENSG00000204172"	"ENST00000413193"	"Transcript"	"upstream_gene_variant"	"-/2410"	"-/2112"	"-/703"	""	""	""	"1"	"4948"	-1	"AGAP10"	"HGNC"	23462	"protein_coding"	"YES"	""	"ENSP00000407436"	""	"C9JUY9"	"UPI0001AE6CED"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"73c7247e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WGS"	FALSE
"5829"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	55294944	55294944	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"78"	27	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"73ca17f6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257142857142857	"WGS"	FALSE
"5830"	"PCDH15"	65217	"mskcc.org"	"GRCh37"	"10"	55804429	55804429	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2221-21472G>A"	""	""	"ENST00000361849"	""	92	"70"	22	62	"62"	0	"PCDH15,intron_variant,,ENST00000373965,NM_001142772.1,NM_001142771.1;PCDH15,intron_variant,,ENST00000414778,;PCDH15,intron_variant,,ENST00000361849,NM_001142768.1,NM_001142765.1,NM_001142764.1,NM_001142763.1;PCDH15,intron_variant,,ENST00000395432,NM_001142767.1;PCDH15,intron_variant,,ENST00000395433,NM_001142773.1;PCDH15,intron_variant,,ENST00000320301,NM_033056.3;PCDH15,intron_variant,,ENST00000395430,NM_001142766.1;PCDH15,intron_variant,,ENST00000437009,;PCDH15,intron_variant,,ENST00000395438,NM_001142770.1;PCDH15,intron_variant,,ENST00000395445,NM_001142769.1;PCDH15,intron_variant,,ENST00000409834,;PCDH15,intron_variant,,ENST00000373955,;PCDH15,intron_variant,,ENST00000373957,;PCDH15,intron_variant,,ENST00000395446,;PCDH15,intron_variant,,ENST00000395440,;PCDH15,intron_variant,,ENST00000395442,;PCDH15,intron_variant,,ENST00000495484,;PCDH15,intron_variant,,ENST00000448885,;PCDH15,intron_variant,,ENST00000373956,;PCDH15,intron_variant,,ENST00000414367,;"	"T"	"ENSG00000150275"	"ENST00000361849"	"Transcript"	"intron_variant"	"-/6957"	"-/5874"	"-/1957"	""	""	""	"1"	NA	-1	"PCDH15"	"HGNC"	14674	"protein_coding"	"YES"	"CCDS44404.1"	"ENSP00000354950"	""	"A2A3E7,A2A3D9"	"UPI0000EE048B"	"NM_001142768.1,NM_001142765.1,NM_001142764.1,NM_001142763.1"	""	""	""	"18/33"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"73ca456e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239130434782609	"WGS"	FALSE
"5831"	"PCDH15"	65217	"mskcc.org"	"GRCh37"	"10"	56384779	56384779	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.91+39153T>G"	""	""	"ENST00000361849"	""	100	"93"	7	67	"67"	0	"PCDH15,intron_variant,,ENST00000373965,NM_001142772.1,NM_001142771.1;PCDH15,intron_variant,,ENST00000414778,;PCDH15,intron_variant,,ENST00000361849,NM_001142768.1,NM_001142765.1,NM_001142764.1,NM_001142763.1;PCDH15,intron_variant,,ENST00000395432,NM_001142767.1;PCDH15,intron_variant,,ENST00000395433,NM_001142773.1;PCDH15,intron_variant,,ENST00000320301,NM_033056.3;PCDH15,intron_variant,,ENST00000395430,NM_001142766.1;PCDH15,intron_variant,,ENST00000437009,;PCDH15,intron_variant,,ENST00000395438,NM_001142770.1;PCDH15,intron_variant,,ENST00000395445,NM_001142769.1;PCDH15,intron_variant,,ENST00000409834,;PCDH15,intron_variant,,ENST00000373955,;PCDH15,intron_variant,,ENST00000373957,;PCDH15,intron_variant,,ENST00000395446,;PCDH15,intron_variant,,ENST00000395440,;PCDH15,intron_variant,,ENST00000395442,;PCDH15,intron_variant,,ENST00000458638,;RP11-257I14.1,intron_variant,,ENST00000422842,;PCDH15,intron_variant,,ENST00000495484,;PCDH15,intron_variant,,ENST00000448885,;PCDH15,intron_variant,,ENST00000373956,;PCDH15,intron_variant,,ENST00000414367,;"	"C"	"ENSG00000150275"	"ENST00000361849"	"Transcript"	"intron_variant"	"-/6957"	"-/5874"	"-/1957"	""	""	""	"1"	NA	-1	"PCDH15"	"HGNC"	14674	"protein_coding"	"YES"	"CCDS44404.1"	"ENSP00000354950"	""	"A2A3E7,A2A3D9"	"UPI0000EE048B"	"NM_001142768.1,NM_001142765.1,NM_001142764.1,NM_001142763.1"	""	""	""	"2/33"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"73ca83c6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.07	"WGS"	FALSE
"5832"	"PCDH15"	65217	"mskcc.org"	"GRCh37"	"10"	56958414	56958414	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-155-32003T>A"	""	""	"ENST00000373957"	""	92	"87"	5	46	"46"	0	"PCDH15,intron_variant,,ENST00000373957,;PCDH15,intron_variant,,ENST00000458638,;"	"T"	"ENSG00000150275"	"ENST00000373957"	"Transcript"	"intron_variant"	"-/3471"	"-/2430"	"-/809"	""	""	""	"1"	NA	-1	"PCDH15"	"HGNC"	14674	"protein_coding"	""	""	"ENSP00000363068"	""	"A2A3D8"	"UPI00002288B6"	""	""	""	""	"2/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"73cac372-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0543478260869565	"WGS"	FALSE
"5833"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	57541717	57541717	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"rs546207308"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"84"	5	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs546207308"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"73caff2c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0561797752808989	"WGS"	FALSE
"5834"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	58719605	58719605	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"rs370776503"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"72"	28	60	"60"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs370776503"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"G:0.0004"	"G:0"	"G:0"	NA	"G:0"	"G:0"	"G:0.002"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"73cb6188-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"5835"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	59930268	59930268	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"76"	31	59	"59"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"73cbd172-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289719626168224	"WGS"	FALSE
"5836"	"IPMK"	253430	"mskcc.org"	"GRCh37"	"10"	59970954	59970954	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.546+4952A>C"	""	""	"ENST00000373935"	""	82	"77"	5	43	"43"	0	"IPMK,intron_variant,,ENST00000373935,NM_152230.4;TPT1P10,downstream_gene_variant,,ENST00000312966,;"	"G"	"ENSG00000151151"	"ENST00000373935"	"Transcript"	"intron_variant"	"-/6133"	"-/1251"	"-/416"	""	""	""	"1"	NA	-1	"IPMK"	"HGNC"	20739	"protein_coding"	"YES"	"CCDS7250.1"	"ENSP00000363046"	"Q8NFU5"	""	"UPI000006FB8E"	"NM_152230.4"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"73cbd7bc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0609756097560976	"WGS"	FALSE
"5837"	"FAM13C"	220965	"mskcc.org"	"GRCh37"	"10"	61083690	61083690	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.443+58T>C"	""	""	"ENST00000373868"	""	94	"88"	6	70	"70"	0	"FAM13C,intron_variant,,ENST00000373867,NM_001166698.1;FAM13C,intron_variant,,ENST00000277705,;FAM13C,intron_variant,,ENST00000442566,;FAM13C,intron_variant,,ENST00000373868,NM_198215.3;FAM13C,intron_variant,,ENST00000419214,NM_001001971.2;FAM13C,intron_variant,,ENST00000468840,NM_001143773.1;FAM13C,intron_variant,,ENST00000435852,;FAM13C,intron_variant,,ENST00000422313,;FAM13C,intron_variant,,ENST00000510215,;FAM13C,intron_variant,,ENST00000470220,;FAM13C,intron_variant,,ENST00000507862,;FAM13C,intron_variant,,ENST00000513059,;FAM13C,downstream_gene_variant,,ENST00000504410,;"	"G"	"ENSG00000148541"	"ENST00000373868"	"Transcript"	"intron_variant"	"-/3327"	"-/1758"	"-/585"	""	""	""	"1"	NA	-1	"FAM13C"	"HGNC"	19371	"protein_coding"	"YES"	"CCDS7255.1"	"ENSP00000362975"	"Q8NE31"	"D6RIX4"	"UPI00001AEA18"	"NM_198215.3"	""	""	""	"4/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"73cc2514-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"5838"	"ANK3"	288	"mskcc.org"	"GRCh37"	"10"	62001637	62001637	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.799-7093T>G"	""	""	"ENST00000280772"	""	114	"79"	35	46	"46"	0	"ANK3,intron_variant,,ENST00000280772,NM_020987.3;ANK3,intron_variant,,ENST00000373827,NM_001204403.1;ANK3,intron_variant,,ENST00000503366,NM_001204404.1;ANK3,intron_variant,,ENST00000503925,;"	"C"	"ENSG00000151150"	"ENST00000280772"	"Transcript"	"intron_variant"	"-/16874"	"-/13134"	"-/4377"	""	""	""	"1"	NA	-1	"ANK3"	"HGNC"	494	"protein_coding"	"YES"	"CCDS7258.1"	"ENSP00000280772"	"Q12955"	"D6RFK6,D6RBY7,B1AQT1"	"UPI0000141BA9"	"NM_020987.3"	""	""	""	"7/43"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"73ccbfc4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307017543859649	"WGS"	FALSE
"5839"	"CTNNA3"	29119	"mskcc.org"	"GRCh37"	"10"	68782738	68782738	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1047+157337G>T"	""	""	"ENST00000433211"	""	110	"71"	39	63	"63"	0	"CTNNA3,intron_variant,,ENST00000433211,NM_013266.2;LRRTM3,intron_variant,,ENST00000361320,NM_178011.3;CTNNA3,intron_variant,,ENST00000373744,NM_001127384.1;CTNNA3,intron_variant,,ENST00000494580,;LRRTM3,intron_variant,,ENST00000485868,;"	"A"	"ENSG00000183230"	"ENST00000433211"	"Transcript"	"intron_variant"	"-/10675"	"-/2688"	"-/895"	""	""	""	"1"	NA	-1	"CTNNA3"	"HGNC"	2511	"protein_coding"	"YES"	"CCDS7269.1"	"ENSP00000389714"	"Q9UI47"	"Q5SW23,A6NKP0"	"UPI000004A0E6"	"NM_013266.2"	""	""	""	"7/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"73ceb130-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354545454545455	"WGS"	FALSE
"5840"	"DDX50"	79009	"mskcc.org"	"GRCh37"	"10"	70674951	70674951	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1089+991T>C"	""	""	"ENST00000373585"	""	91	"84"	7	55	"55"	0	"DDX50,intron_variant,,ENST00000373585,NM_024045.1;RNU6-571P,upstream_gene_variant,,ENST00000384128,;DDX50,intron_variant,,ENST00000460470,;DDX50,upstream_gene_variant,,ENST00000466265,;DDX50,downstream_gene_variant,,ENST00000483593,;DDX50,downstream_gene_variant,,ENST00000471475,;"	"C"	"ENSG00000107625"	"ENST00000373585"	"Transcript"	"intron_variant"	"-/2538"	"-/2214"	"-/737"	""	""	""	"1"	NA	1	"DDX50"	"HGNC"	17906	"protein_coding"	"YES"	"CCDS7283.1"	"ENSP00000362687"	"Q9BQ39"	"Q9NTA9,B4DED6"	"UPI000006FBBF"	"NM_024045.1"	""	""	""	"7/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"73cf96e0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"5841"	"LRRC20"	55222	"mskcc.org"	"GRCh37"	"10"	72079860	72079860	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs571766641"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.400+3759C>T"	""	""	"ENST00000355790"	""	85	"61"	24	56	"56"	0	"LRRC20,intron_variant,,ENST00000355790,NM_207119.2,NM_001278214.1,NM_001278212.1;LRRC20,intron_variant,,ENST00000373224,NM_001278211.1,NM_001278214.1,NM_001278212.1;LRRC20,intron_variant,,ENST00000395011,NM_001278213.1;LRRC20,intron_variant,,ENST00000395010,;LRRC20,intron_variant,,ENST00000358141,NM_018239.3;LRRC20,intron_variant,,ENST00000357631,NM_018205.3;LRRC20,intron_variant,,ENST00000446961,;"	"A"	"ENSG00000172731"	"ENST00000355790"	"Transcript"	"intron_variant"	"-/3414"	"-/555"	"-/184"	""	""	"rs571766641"	"1"	NA	-1	"LRRC20"	"HGNC"	23421	"protein_coding"	"YES"	"CCDS7302.1"	"ENSP00000348043"	"Q8TCA0"	""	"UPI000004C613"	"NM_207119.2,NM_001278214.1,NM_001278212.1"	""	""	""	"4/4"	""	"A:0.0006"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.0031"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"73d015b6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282352941176471	"WGS"	FALSE
"5842"	"C10orf11"	83938	"mskcc.org"	"GRCh37"	"10"	78027520	78027520	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.433-56639G>A"	""	""	"ENST00000372499"	""	119	"106"	13	69	"69"	0	"C10orf11,intron_variant,,ENST00000372499,NM_032024.3;C10orf11,intron_variant,,ENST00000593699,;"	"A"	"ENSG00000148655"	"ENST00000372499"	"Transcript"	"intron_variant"	"-/899"	"-/597"	"-/198"	""	""	""	"1"	NA	1	"C10orf11"	"HGNC"	23405	"protein_coding"	"YES"	"CCDS7351.1"	"ENSP00000361577"	"Q9H2I8"	""	"UPI000006D28F"	"NM_032024.3"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"73d2f0ce-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109243697478992	"WGS"	FALSE
"5843"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	78406716	78406716	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"80"	15	38	"38"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"73d3094c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"5844"	"LINC00856"	100132987	"mskcc.org"	"GRCh37"	"10"	80379936	80379936	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.65-54510C>T"	""	""	"ENST00000421324"	""	103	"69"	34	52	"52"	0	"LINC00856,intron_variant,,ENST00000421324,;"	"T"	"ENSG00000230417"	"ENST00000421324"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/343"	""	""	""	""	""	"1"	NA	1	"LINC00856"	"HGNC"	45111	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"73d3d570-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330097087378641	"WGS"	FALSE
"5845"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	85814302	85814302	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"90"	14	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"73d5fd64-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134615384615385	"WGS"	FALSE
"5846"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	86933489	86933489	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"71"	27	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"73d65d0e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275510204081633	"WGS"	FALSE
"5847"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	92920023	92920023	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs759711342"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"71"	32	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs759711342"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"73d86284-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310679611650485	"WGS"	FALSE
"5848"	"MARCH5"	54708	"mskcc.org"	"GRCh37"	"10"	94107760	94107760	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.370-1346A>T"	""	""	"ENST00000358935"	""	87	"80"	7	52	"52"	0	"MARCH5,intron_variant,,ENST00000358935,NM_017824.4;MARCH5,intron_variant,,ENST00000467521,;MARCH5,intron_variant,,ENST00000462465,;MARCH5,upstream_gene_variant,,ENST00000492319,;"	"T"	"ENSG00000198060"	"ENST00000358935"	"Transcript"	"intron_variant"	"-/3926"	"-/837"	"-/278"	""	""	""	"1"	NA	1	"MARCH5"	"HGNC"	26025	"protein_coding"	"YES"	"CCDS7420.1"	"ENSP00000351813"	"Q9NX47"	"B4DGV8"	"UPI000006D0BC"	"NM_017824.4"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"73d909fa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"5849"	"RPL13AP5"	728658	"mskcc.org"	"GRCh37"	"10"	98509288	98509288	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000439189"	""	85	"79"	6	32	"32"	0	"RPL13AP5,upstream_gene_variant,,ENST00000439189,;RPL13AP5,upstream_gene_variant,,ENST00000270634,;"	"T"	"ENSG00000236552"	"ENST00000439189"	"Transcript"	"upstream_gene_variant"	"-/612"	""	""	""	""	""	"1"	"757"	1	"RPL13AP5"	"HGNC"	23736	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"73da95e0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0705882352941176	"WGS"	FALSE
"5850"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	98526785	98526785	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	43	"38"	5	20	"20"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"73da9af4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116279069767442	"WGS"	FALSE
"5851"	"DNMBP"	23268	"mskcc.org"	"GRCh37"	"10"	101738740	101738740	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10-6849G>T"	""	""	"ENST00000324109"	""	112	"80"	32	64	"64"	0	"DNMBP,intron_variant,,ENST00000342239,;DNMBP,intron_variant,,ENST00000324109,NM_015221.2;"	"A"	"ENSG00000107554"	"ENST00000324109"	"Transcript"	"intron_variant"	"-/6400"	"-/4734"	"-/1577"	""	""	""	"1"	NA	-1	"DNMBP"	"HGNC"	30373	"protein_coding"	"YES"	"CCDS7485.1"	"ENSP00000315659"	"Q6XZF7"	"B4E0Q3"	"UPI000013D6C9"	"NM_015221.2"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"73dc4c96-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"5852"	"C10orf76"	79591	"mskcc.org"	"GRCh37"	"10"	103727519	103727519	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1495+7450G>A"	""	""	"ENST00000370033"	""	77	"54"	23	45	"45"	0	"C10orf76,intron_variant,,ENST00000370033,NM_024541.2;"	"T"	"ENSG00000120029"	"ENST00000370033"	"Transcript"	"intron_variant"	"-/4119"	"-/2070"	"-/689"	""	""	""	"1"	NA	-1	"C10orf76"	"HGNC"	25788	"protein_coding"	"YES"	"CCDS41563.1"	"ENSP00000359050"	"Q5T2E6"	""	"UPI000047005B"	"NM_024541.2"	""	""	""	"20/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"73dd465a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298701298701299	"WGS"	FALSE
"5853"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	106288833	106288833	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"68"	21	41	"41"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"73debfb2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235955056179775	"WGS"	FALSE
"5854"	"SORCS3"	22986	"mskcc.org"	"GRCh37"	"10"	106441180	106441180	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.627+39468T>A"	""	""	"ENST00000369701"	""	76	"54"	22	72	"72"	0	"SORCS3,intron_variant,,ENST00000369701,NM_014978.1;"	"A"	"ENSG00000156395"	"ENST00000369701"	"Transcript"	"intron_variant"	"-/5757"	"-/3669"	"-/1222"	""	""	""	"1"	NA	1	"SORCS3"	"HGNC"	16699	"protein_coding"	"YES"	"CCDS7558.1"	"ENSP00000358715"	"Q9UPU3"	"B7Z891"	"UPI0000135CE1"	"NM_014978.1"	""	""	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"73dec50c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289473684210526	"WGS"	FALSE
"5855"	"SORCS3"	22986	"mskcc.org"	"GRCh37"	"10"	106900253	106900253	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1302+1009G>T"	""	""	"ENST00000369701"	""	102	"78"	24	57	"57"	0	"SORCS3,intron_variant,,ENST00000369701,NM_014978.1;"	"T"	"ENSG00000156395"	"ENST00000369701"	"Transcript"	"intron_variant"	"-/5757"	"-/3669"	"-/1222"	""	""	""	"1"	NA	1	"SORCS3"	"HGNC"	16699	"protein_coding"	"YES"	"CCDS7558.1"	"ENSP00000358715"	"Q9UPU3"	"B7Z891"	"UPI0000135CE1"	"NM_014978.1"	""	""	""	"8/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"73deee7e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"5856"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	107675157	107675157	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"63"	29	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"73df290c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315217391304348	"WGS"	FALSE
"5857"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	107818486	107818486	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"92"	15	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"73df31fe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.14018691588785	"WGS"	FALSE
"5858"	"RBM20"	282996	"mskcc.org"	"GRCh37"	"10"	112482037	112482037	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.192-58522T>C"	""	""	"ENST00000369519"	""	108	"71"	37	60	"60"	0	"RBM20,intron_variant,,ENST00000369519,NM_001134363.1;"	"C"	"ENSG00000203867"	"ENST00000369519"	"Transcript"	"intron_variant"	"-/7233"	"-/3684"	"-/1227"	""	""	""	"1"	NA	1	"RBM20"	"HGNC"	27424	"protein_coding"	"YES"	"CCDS44477.1"	"ENSP00000358532"	"Q5T481"	""	"UPI00016624E1"	"NM_001134363.1"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"73e09e04-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342592592592593	"WGS"	FALSE
"5859"	"GUCY2GP"	390003	"mskcc.org"	"GRCh37"	"10"	114090291	114090291	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1923-3178C>T"	""	""	"ENST00000479705"	""	119	"82"	37	56	"56"	0	"GUCY2GP,intron_variant,,ENST00000490269,;GUCY2GP,intron_variant,,ENST00000479705,;"	"A"	"ENSG00000243316"	"ENST00000479705"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3222"	""	""	""	""	""	"1"	NA	-1	"GUCY2GP"	"HGNC"	31863	"unitary_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"12/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"73e12932-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310924369747899	"WGS"	FALSE
"5860"	"BAG3"	9531	"mskcc.org"	"GRCh37"	"10"	121424215	121424215	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.181-5148T>A"	""	""	"ENST00000369085"	""	89	"59"	30	64	"64"	0	"BAG3,intron_variant,,ENST00000369085,NM_004281.3;BAG3,intron_variant,,ENST00000450186,;"	"A"	"ENSG00000151929"	"ENST00000369085"	"Transcript"	"intron_variant"	"-/2571"	"-/1728"	"-/575"	""	""	""	"1"	NA	1	"BAG3"	"HGNC"	939	"protein_coding"	"YES"	"CCDS7615.1"	"ENSP00000358081"	"O95817"	""	"UPI0000000C7A"	"NM_004281.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"73e46480-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337078651685393	"WGS"	FALSE
"5861"	"ENSR00000363026"	0	"mskcc.org"	"GRCh37"	"10"	123128144	123128144	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000363026"	""	87	"82"	5	49	"49"	0	""	"G"	""	"ENSR00000363026"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"73e4fe4a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0574712643678161	"WGS"	FALSE
"5862"	"PSTK"	118672	"mskcc.org"	"GRCh37"	"10"	124737408	124737408	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000368887"	""	92	"66"	26	53	"53"	0	"PSTK,upstream_gene_variant,,ENST00000405485,;PSTK,upstream_gene_variant,,ENST00000368887,NM_153336.2;PSTK,upstream_gene_variant,,ENST00000406217,;PSTK,intron_variant,,ENST00000465232,;PSTK,upstream_gene_variant,,ENST00000497219,;PSTK,upstream_gene_variant,,ENST00000483455,;PSTK,upstream_gene_variant,,ENST00000493461,;"	"T"	"ENSG00000179988"	"ENST00000368887"	"Transcript"	"upstream_gene_variant"	"-/1705"	"-/1047"	"-/348"	""	""	""	"1"	"2148"	1	"PSTK"	"HGNC"	28578	"protein_coding"	"YES"	"CCDS7633.1"	"ENSP00000357882"	"Q8IV42"	""	"UPI000013F992"	"NM_153336.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"73e5c230-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282608695652174	"WGS"	FALSE
"5863"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	125041637	125041637	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"68"	36	45	"45"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"73e61cf8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"5864"	"CPXM2"	119587	"mskcc.org"	"GRCh37"	"10"	125618103	125618103	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.513+4027G>T"	""	""	"ENST00000241305"	""	100	"68"	32	57	"57"	0	"CPXM2,intron_variant,,ENST00000241305,NM_198148.2;CPXM2,intron_variant,,ENST00000368854,;"	"A"	"ENSG00000121898"	"ENST00000241305"	"Transcript"	"intron_variant"	"-/3554"	"-/2271"	"-/756"	""	""	""	"1"	NA	-1	"CPXM2"	"HGNC"	26977	"protein_coding"	"YES"	"CCDS7637.1"	"ENSP00000241305"	"Q8N436"	""	"UPI00001AE6BE"	"NM_198148.2"	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"73e63e04-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32	"WGS"	FALSE
"5865"	"ADAM12"	8038	"mskcc.org"	"GRCh37"	"10"	127925148	127925148	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.260+42336A>T"	""	""	"ENST00000368679"	""	96	"81"	15	51	"51"	0	"ADAM12,intron_variant,,ENST00000368679,NM_003474.4;ADAM12,intron_variant,,ENST00000368676,NM_021641.3;ADAM12,intron_variant,,ENST00000448723,;"	"A"	"ENSG00000148848"	"ENST00000368679"	"Transcript"	"intron_variant"	"-/7938"	"-/2730"	"-/909"	""	""	""	"1"	NA	-1	"ADAM12"	"HGNC"	190	"protein_coding"	"YES"	"CCDS7653.1"	"ENSP00000357668"	"O43184"	""	"UPI000036672C"	"NM_003474.4"	""	""	""	"3/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"73e7ae2e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WGS"	FALSE
"5866"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	128486123	128486123	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"77"	24	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"73e7e75e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.237623762376238	"WGS"	FALSE
"5867"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	130789854	130789854	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"63"	26	40	"40"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"73e91098-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292134831460674	"WGS"	FALSE
"5868"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	132872224	132872224	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"68"	26	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"73ea818a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276595744680851	"WGS"	FALSE
"5869"	"TCERG1L"	256536	"mskcc.org"	"GRCh37"	"10"	132887049	132887049	"+"	"3'Flank"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000368642"	""	100	"68"	32	57	"57"	0	"TCERG1L,downstream_gene_variant,,ENST00000368642,NM_174937.3;TCERG1L,downstream_gene_variant,,ENST00000483040,;"	"G"	"ENSG00000176769"	"ENST00000368642"	"Transcript"	"downstream_gene_variant"	"-/2618"	"-/1761"	"-/586"	""	""	""	"1"	"3605"	-1	"TCERG1L"	"HGNC"	23533	"protein_coding"	"YES"	"CCDS7662.2"	"ENSP00000357631"	"Q5VWI1"	""	"UPI00004589C8"	"NM_174937.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"73ea8748-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32	"WGS"	FALSE
"5870"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	133222100	133222100	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"80"	29	38	"38"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"73eac3a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26605504587156	"WGS"	FALSE
"5871"	"JAKMIP3"	282973	"mskcc.org"	"GRCh37"	"10"	133916956	133916956	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000298622"	""	17	"14"	3	7	"7"	0	"JAKMIP3,upstream_gene_variant,,ENST00000298622,NM_001105521.2;"	"C"	"ENSG00000188385"	"ENST00000298622"	"Transcript"	"upstream_gene_variant"	"-/6626"	"-/2535"	"-/844"	""	""	""	"1"	"1219"	1	"JAKMIP3"	"HGNC"	23523	"protein_coding"	"YES"	"CCDS44494.1"	"ENSP00000298622"	"Q5VZ66"	""	"UPI000157482F"	"NM_001105521.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"73ebb6ea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"5872"	"TTC40"	54777	"mskcc.org"	"GRCh37"	"10"	134677139	134677139	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4890+2390A>G"	""	""	"ENST00000368586"	""	78	"70"	8	34	"34"	0	"TTC40,intron_variant,,ENST00000368586,NM_001200049.2;"	"C"	"ENSG00000171811"	"ENST00000368586"	"Transcript"	"intron_variant"	"-/8278"	"-/8148"	"-/2715"	""	""	""	"1"	NA	-1	"TTC40"	"HGNC"	25247	"protein_coding"	"YES"	"CCDS58101.1"	"ENSP00000357575"	"Q8IYW2"	""	"UPI0001B79116"	"NM_001200049.2"	""	""	""	"35/57"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"73edc62e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"5873"	"TTC40"	54777	"mskcc.org"	"GRCh37"	"10"	134744893	134744893	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.867-1585C>T"	""	""	"ENST00000368586"	""	54	"47"	7	35	"35"	0	"TTC40,intron_variant,,ENST00000368586,NM_001200049.2;TTC40,intron_variant,,ENST00000368582,;TTC40,intron_variant,,ENST00000368585,;"	"A"	"ENSG00000171811"	"ENST00000368586"	"Transcript"	"intron_variant"	"-/8278"	"-/8148"	"-/2715"	""	""	""	"1"	NA	-1	"TTC40"	"HGNC"	25247	"protein_coding"	"YES"	"CCDS58101.1"	"ENSP00000357575"	"Q8IYW2"	""	"UPI0001B79116"	"NM_001200049.2"	""	""	""	"8/57"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"73edef28-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12962962962963	"WGS"	FALSE
"5874"	"GPR123"	84435	"mskcc.org"	"GRCh37"	"10"	134948947	134948947	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000392607"	""	30	"26"	4	15	"15"	0	"GPR123,downstream_gene_variant,,ENST00000607359,;GPR123,downstream_gene_variant,,ENST00000392607,NM_001083909.1;GPR123,downstream_gene_variant,,ENST00000392606,;"	"C"	"ENSG00000197177"	"ENST00000392607"	"Transcript"	"downstream_gene_variant"	"-/4283"	"-/1683"	"-/560"	""	""	""	"1"	"3768"	1	"GPR123"	"HGNC"	13838	"protein_coding"	"YES"	"CCDS41580.1"	"ENSP00000376384"	"Q86SQ6"	""	"UPI00003D41AD"	"NM_001083909.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"73eeac92-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"5875"	"ECHS1"	1892	"mskcc.org"	"GRCh37"	"10"	135177034	135177034	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.808-597A>G"	""	""	"ENST00000368547"	""	107	"89"	18	59	"59"	0	"ECHS1,intron_variant,,ENST00000368547,NM_004092.3;"	"C"	"ENSG00000127884"	"ENST00000368547"	"Transcript"	"intron_variant"	"-/1617"	"-/873"	"-/290"	""	""	""	"1"	NA	-1	"ECHS1"	"HGNC"	3151	"protein_coding"	"YES"	"CCDS7681.1"	"ENSP00000357535"	"P30084"	""	"UPI000013CC49"	"NM_004092.3"	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"73ef15f6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168224299065421	"WGS"	FALSE
"5876"	"BET1L"	51272	"mskcc.org"	"GRCh37"	"11"	203189	203189	"+"	"3'UTR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*2113G>T"	""	""	"ENST00000382762"	"4/4"	96	"62"	34	57	"57"	0	"BET1L,3_prime_UTR_variant,,ENST00000325147,;BET1L,3_prime_UTR_variant,,ENST00000382762,NM_016526.4,NM_001098787.1;BET1L,intron_variant,,ENST00000410108,;RIC8A,upstream_gene_variant,,ENST00000526104,NM_001286134.1;ODF3,downstream_gene_variant,,ENST00000325113,NM_053280.3;ODF3,downstream_gene_variant,,ENST00000525282,NM_001286136.1;BET1L,downstream_gene_variant,,ENST00000486280,;BET1L,downstream_gene_variant,,ENST00000529614,;BET1L,downstream_gene_variant,,ENST00000332865,;RP11-304M2.5,upstream_gene_variant,,ENST00000526963,;ODF3,downstream_gene_variant,,ENST00000531679,;BET1L,downstream_gene_variant,,ENST00000479463,;AC069287.1,downstream_gene_variant,,ENST00000433234,;"	"A"	"ENSG00000177951"	"ENST00000382762"	"Transcript"	"3_prime_UTR_variant"	"2556/2819"	"-/336"	"-/111"	""	""	""	"1"	NA	-1	"BET1L"	"HGNC"	19348	"protein_coding"	"YES"	"CCDS41582.1"	"ENSP00000372210"	"Q9NYM9"	"E9PQJ6"	"UPI000006DA0B"	"NM_016526.4,NM_001098787.1"	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"73f24744-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354166666666667	"WGS"	FALSE
"5877"	"EPS8L2"	64787	"mskcc.org"	"GRCh37"	"11"	729594	729594	"+"	"3'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000533256"	""	71	"48"	23	40	"40"	0	"EPS8L2,downstream_gene_variant,,ENST00000533256,;EPS8L2,downstream_gene_variant,,ENST00000318562,NM_022772.3;EPS8L2,downstream_gene_variant,,ENST00000530636,;EPS8L2,downstream_gene_variant,,ENST00000526198,;AP006621.9,upstream_gene_variant,,ENST00000527021,;EPS8L2,downstream_gene_variant,,ENST00000534449,;EPS8L2,downstream_gene_variant,,ENST00000524973,;EPS8L2,downstream_gene_variant,,ENST00000526909,;EPS8L2,downstream_gene_variant,,ENST00000531393,;EPS8L2,downstream_gene_variant,,ENST00000528770,;EPS8L2,downstream_gene_variant,,ENST00000527832,;EPS8L2,downstream_gene_variant,,ENST00000534679,;EPS8L2,downstream_gene_variant,,ENST00000534027,;"	"C"	"ENSG00000177106"	"ENST00000533256"	"Transcript"	"downstream_gene_variant"	"-/3266"	"-/2148"	"-/715"	""	""	""	"1"	"1870"	1	"EPS8L2"	"HGNC"	21296	"protein_coding"	"YES"	"CCDS31328.1"	"ENSP00000435585"	"Q9H6S3"	"E9PNY4,E9PNT0,E9PN68,E9PLN2,E9PLH1"	"UPI000006226C"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"73f33280-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323943661971831	"WGS"	FALSE
"5878"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	739167	739167	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"57"	18	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"73f3349c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WGS"	FALSE
"5879"	"OSBPL5"	114879	"mskcc.org"	"GRCh37"	"11"	3125109	3125109	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1244+314A>G"	""	""	"ENST00000263650"	""	23	"19"	4	9	"9"	0	"OSBPL5,intron_variant,,ENST00000263650,NM_020896.3;OSBPL5,intron_variant,,ENST00000389989,NM_145638.2,NM_001144063.1;OSBPL5,intron_variant,,ENST00000348039,;OSBPL5,intron_variant,,ENST00000525498,;OSBPL5,intron_variant,,ENST00000542243,;OSBPL5,upstream_gene_variant,,ENST00000534454,;OSBPL5,intron_variant,,ENST00000534491,;OSBPL5,intron_variant,,ENST00000471998,;OSBPL5,downstream_gene_variant,,ENST00000532951,;"	"C"	"ENSG00000021762"	"ENST00000263650"	"Transcript"	"intron_variant"	"-/3889"	"-/2640"	"-/879"	""	""	""	"1"	NA	-1	"OSBPL5"	"HGNC"	16392	"protein_coding"	"YES"	"CCDS31344.1"	"ENSP00000263650"	"Q9H0X9"	"H0YCD7,E9PQB4,E9PPQ2,E9PNH0,E9PLN3,E9PJE6,E9PIJ6"	"UPI000000D722"	"NM_020896.3"	""	""	""	"10/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"73f66e8c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"5880"	"TSSC2"	650368	"mskcc.org"	"GRCh37"	"11"	3416105	3416105	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.288-2242T>C"	""	""	"ENST00000529482"	""	117	"108"	9	55	"55"	0	"TSSC2,intron_variant,,ENST00000529482,;TSSC2,intron_variant,,ENST00000526284,;TSSC2,intron_variant,,ENST00000533775,;TSSC2,intron_variant,,ENST00000526488,;OR7E12P,upstream_gene_variant,,ENST00000344740,;"	"C"	"ENSG00000223756"	"ENST00000529482"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2337"	""	""	""	""	""	"1"	NA	1	"TSSC2"	"HGNC"	12384	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"73f6b3ba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"5881"	"TRPC2"	7221	"mskcc.org"	"GRCh37"	"11"	3626472	3626472	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000451043"	""	129	"92"	37	47	"47"	0	"TRPC2,upstream_gene_variant,,ENST00000451043,;OR7E117P,upstream_gene_variant,,ENST00000422682,;"	"T"	"ENSG00000182048"	"ENST00000451043"	"Transcript"	"upstream_gene_variant"	"-/3173"	""	""	""	""	""	"1"	"4659"	1	"TRPC2"	"HGNC"	12334	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"73f711b6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.286821705426357	"WGS"	FALSE
"5882"	"AC104389.16"	0	"mskcc.org"	"GRCh37"	"11"	5228696	5228696	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000418080"	""	88	"57"	31	58	"58"	0	"AC104389.16,downstream_gene_variant,,ENST00000418080,;"	"T"	"ENSG00000224091"	"ENST00000418080"	"Transcript"	"downstream_gene_variant"	"-/522"	""	""	""	""	""	"1"	"158"	1	"AC104389.16"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"73f8206a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352272727272727	"WGS"	FALSE
"5883"	"DNHD1"	144132	"mskcc.org"	"GRCh37"	"11"	6541382	6541382	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1785+50C>T"	""	""	"ENST00000254579"	""	102	"73"	29	41	"41"	0	"DNHD1,3_prime_UTR_variant,,ENST00000354685,NM_173589.3;DNHD1,intron_variant,,ENST00000254579,NM_144666.2;DNHD1,intron_variant,,ENST00000527990,;DNHD1,non_coding_transcript_exon_variant,,ENST00000472080,;"	"T"	"ENSG00000179532"	"ENST00000254579"	"Transcript"	"intron_variant"	"-/14862"	"-/14262"	"-/4753"	""	""	""	"1"	NA	1	"DNHD1"	"HGNC"	26532	"protein_coding"	"YES"	"CCDS44532.1"	"ENSP00000254579"	"Q96M86"	""	"UPI0001929529"	"NM_144666.2"	""	""	""	"9/42"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"73f8a0e4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.284313725490196	"WGS"	FALSE
"5884"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	9346844	9346844	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"69"	7	49	"49"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"73f9a020-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"5885"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	13549889	13549889	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"67"	19	70	"70"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"73fb9218-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22093023255814	"WGS"	FALSE
"5886"	"INSC"	387755	"mskcc.org"	"GRCh37"	"11"	15143982	15143982	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.96+9871G>A"	""	""	"ENST00000379554"	""	119	"91"	28	59	"59"	0	"INSC,intron_variant,,ENST00000379554,NM_001031853.4;INSC,intron_variant,,ENST00000379556,NM_001042536.2;INSC,intron_variant,,ENST00000424273,;"	"A"	"ENSG00000188487"	"ENST00000379554"	"Transcript"	"intron_variant"	"-/2954"	"-/1740"	"-/579"	""	""	""	"1"	NA	1	"INSC"	"HGNC"	33116	"protein_coding"	"YES"	"CCDS41621.1"	"ENSP00000368872"	"Q1MX18"	""	"UPI0000D63F1D"	"NM_001031853.4"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"73fc091e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"5887"	"SOX6"	55553	"mskcc.org"	"GRCh37"	"11"	16093325	16093325	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1102-15878T>A"	""	""	"ENST00000396356"	""	105	"70"	35	45	"45"	0	"SOX6,intron_variant,,ENST00000352083,;SOX6,intron_variant,,ENST00000396356,NM_033326.3;SOX6,intron_variant,,ENST00000316399,;SOX6,intron_variant,,ENST00000528252,NM_001145811.1;SOX6,intron_variant,,ENST00000527619,NM_017508.2;SOX6,intron_variant,,ENST00000528429,NM_001145819.1;SOX6,intron_variant,,ENST00000524650,;"	"T"	"ENSG00000110693"	"ENST00000396356"	"Transcript"	"intron_variant"	"-/8865"	"-/2427"	"-/808"	""	""	""	"1"	NA	-1	"SOX6"	"HGNC"	16421	"protein_coding"	"YES"	"CCDS7821.1"	"ENSP00000379644"	"P35712"	"E9PQL4,E9PQ67,E9PN02"	"UPI00001F9DE4"	"NM_033326.3"	""	""	""	"9/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"73fc3cc2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"5888"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	18922271	18922271	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs180715745"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"79"	24	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs180715745"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0058"	"A:0.0204"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"73fd7ef2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233009708737864	"WGS"	FALSE
"5889"	"SLC6A5"	9152	"mskcc.org"	"GRCh37"	"11"	20648982	20648982	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1396-544G>T"	""	""	"ENST00000525748"	""	87	"64"	23	55	"55"	0	"SLC6A5,intron_variant,,ENST00000525748,NM_004211.3;SLC6A5,upstream_gene_variant,,ENST00000528440,;SLC6A5,intron_variant,,ENST00000298923,;"	"T"	"ENSG00000165970"	"ENST00000525748"	"Transcript"	"intron_variant"	"-/7084"	"-/2394"	"-/797"	""	""	""	"1"	NA	1	"SLC6A5"	"HGNC"	11051	"protein_coding"	"YES"	"CCDS7854.1"	"ENSP00000434364"	"Q9Y345"	""	"UPI00004564A5"	"NM_004211.3"	""	""	""	"8/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"73fe1448-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264367816091954	"WGS"	FALSE
"5890"	"NELL1"	4745	"mskcc.org"	"GRCh37"	"11"	21023421	21023421	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1300+41315T>C"	""	""	"ENST00000357134"	""	86	"77"	9	63	"63"	0	"NELL1,intron_variant,,ENST00000298925,NM_001288713.1;NELL1,intron_variant,,ENST00000357134,NM_201551.1,NM_006157.3;NELL1,intron_variant,,ENST00000325319,NM_001288714.1;NELL1,intron_variant,,ENST00000532434,;RNA5SP336,upstream_gene_variant,,ENST00000364189,;NELL1,intron_variant,,ENST00000530672,;"	"C"	"ENSG00000165973"	"ENST00000357134"	"Transcript"	"intron_variant"	"-/3022"	"-/2433"	"-/810"	""	""	""	"1"	NA	1	"NELL1"	"HGNC"	7750	"protein_coding"	"YES"	"CCDS7855.1"	"ENSP00000349654"	"Q92832"	"K9UUD5"	"UPI000013E53D"	"NM_201551.1,NM_006157.3"	""	""	""	"12/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"73fe35a4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104651162790698	"WGS"	FALSE
"5891"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	22172792	22172792	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	123	"89"	34	64	"64"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"73fe97c4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276422764227642	"WGS"	FALSE
"5892"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	23235436	23235436	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"64"	22	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"73ff06fa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255813953488372	"WGS"	FALSE
"5893"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	24445964	24445964	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	135	"98"	37	73	"73"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"73ff72a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274074074074074	"WGS"	FALSE
"5894"	"METTL15"	196074	"mskcc.org"	"GRCh37"	"11"	28314032	28314032	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.599+2088T>A"	""	""	"ENST00000407364"	""	110	"88"	22	58	"58"	0	"METTL15,intron_variant,,ENST00000342303,NM_152636.2;METTL15,intron_variant,,ENST00000406787,NM_001113528.1;METTL15,intron_variant,,ENST00000407364,;METTL15,intron_variant,,ENST00000303459,;METTL15,intron_variant,,ENST00000451385,;AC104978.1,upstream_gene_variant,,ENST00000449387,;"	"A"	"ENSG00000169519"	"ENST00000407364"	"Transcript"	"intron_variant"	"-/4242"	"-/1224"	"-/407"	""	""	""	"1"	NA	1	"METTL15"	"HGNC"	26606	"protein_coding"	"YES"	"CCDS44559.1"	"ENSP00000384369"	"A6NJ78"	""	"UPI0000DBEF34"	""	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"7400e934-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"5895"	"CTD-3012A18.1"	0	"mskcc.org"	"GRCh37"	"11"	29563877	29563877	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs144600406"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.284-10030C>T"	""	""	"ENST00000530389"	""	91	"62"	29	50	"50"	0	"CTD-3012A18.1,intron_variant,,ENST00000530389,;RP11-460B17.3,intron_variant,,ENST00000525097,;"	"T"	"ENSG00000255029"	"ENST00000530389"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/563"	""	""	""	""	"rs144600406"	"1"	NA	1	"CTD-3012A18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	"T:0.0016"	"T:0"	"T:0"	NA	"T:0.0069"	"T:0.001"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"74012390-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318681318681319	"WGS"	FALSE
"5896"	"RCN1"	5954	"mskcc.org"	"GRCh37"	"11"	31993131	31993131	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.102-125559C>G"	""	""	"ENST00000532942"	""	110	"102"	8	64	"64"	0	"RCN1,intron_variant,,ENST00000532942,;RCN1,intron_variant,,ENST00000530348,;"	"G"	"ENSG00000049449"	"ENST00000532942"	"Transcript"	"intron_variant"	"-/1191"	"-/843"	"-/280"	""	""	""	"1"	NA	1	"RCN1"	"HGNC"	9934	"protein_coding"	""	""	"ENSP00000436422"	""	"Q5J7V8,H0YDA4,E9PP27,E9PLM2,B7Z1M1"	"UPI0001914AB9"	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7401bc88-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0727272727272727	"WGS"	FALSE
"5897"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	32525720	32525720	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"82"	8	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7401f176-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"5898"	"EHF"	26298	"mskcc.org"	"GRCh37"	"11"	34637664	34637664	"+"	"5'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000257831"	""	91	"62"	29	56	"56"	0	"EHF,upstream_gene_variant,,ENST00000257831,NM_012153.5;EHF,upstream_gene_variant,,ENST00000527001,;"	"C"	"ENSG00000135373"	"ENST00000257831"	"Transcript"	"upstream_gene_variant"	"-/3150"	"-/903"	"-/300"	""	""	""	"1"	"4994"	1	"EHF"	"HGNC"	3246	"protein_coding"	""	"CCDS7894.1"	"ENSP00000257831"	"Q9NZC4"	"E9PQX0,E9PQR6"	"UPI0000073C87"	"NM_012153.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7402da5a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318681318681319	"WGS"	FALSE
"5899"	"RP11-64I17.1"	101928536	"mskcc.org"	"GRCh37"	"11"	38699993	38699993	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"rs569135357"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000533575"	""	109	"74"	35	70	"70"	0	"RP11-64I17.1,downstream_gene_variant,,ENST00000533575,;"	"T"	"ENSG00000254562"	"ENST00000533575"	"Transcript"	"downstream_gene_variant"	"-/581"	""	""	""	""	"rs569135357"	"1"	"4202"	1	"RP11-64I17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"74042e32-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.321100917431193	"WGS"	FALSE
"5900"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	38840804	38840804	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"73"	28	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"7404397c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277227722772277	"WGS"	FALSE
"5901"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	39109180	39109180	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"63"	21	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"740445a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"5902"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	39933402	39933402	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	136	"93"	43	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"740492f0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316176470588235	"WGS"	FALSE
"5903"	"PHF21A"	51317	"mskcc.org"	"GRCh37"	"11"	46038442	46038442	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.154-36925T>C"	""	""	"ENST00000418153"	""	105	"76"	29	52	"52"	0	"PHF21A,intron_variant,,ENST00000257821,NM_001101802.1;PHF21A,intron_variant,,ENST00000323180,NM_016621.3;PHF21A,intron_variant,,ENST00000418153,;PHF21A,intron_variant,,ENST00000529782,;PHF21A,intron_variant,,ENST00000529734,;PHF21A,intron_variant,,ENST00000524497,;PHF21A,intron_variant,,ENST00000531959,;PHF21A,intron_variant,,ENST00000525679,;PHF21A,intron_variant,,ENST00000532883,;"	"G"	"ENSG00000135365"	"ENST00000418153"	"Transcript"	"intron_variant"	"-/2730"	"-/2043"	"-/680"	""	""	""	"1"	NA	-1	"PHF21A"	"HGNC"	24156	"protein_coding"	"YES"	"CCDS44578.1"	"ENSP00000398824"	"Q96BD5"	"E9PR02,E9PQM3,E9PNW9,E9PLV4"	"UPI000006E1CB"	""	""	""	""	"5/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"74067bec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276190476190476	"WGS"	FALSE
"5904"	"OR5D17P"	0	"mskcc.org"	"GRCh37"	"11"	55525460	55525460	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"rs550809029"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000531492"	""	97	"91"	6	57	"57"	0	"OR5D17P,downstream_gene_variant,,ENST00000531492,;OR5D17P,downstream_gene_variant,,ENST00000328673,;"	"T"	"ENSG00000181837"	"ENST00000531492"	"Transcript"	"downstream_gene_variant"	"-/978"	""	""	""	""	"rs550809029"	"1"	"2031"	1	"OR5D17P"	"HGNC"	15284	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"740a4196-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0618556701030928	"WGS"	FALSE
"5905"	"OR5M4P"	0	"mskcc.org"	"GRCh37"	"11"	56218565	56218565	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000529436"	""	67	"47"	20	42	"42"	0	"OR5M4P,downstream_gene_variant,,ENST00000529436,;"	"A"	"ENSG00000230416"	"ENST00000529436"	"Transcript"	"downstream_gene_variant"	"-/925"	""	""	""	""	""	"1"	"1497"	1	"OR5M4P"	"HGNC"	14808	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"740a7544-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298507462686567	"WGS"	FALSE
"5906"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	56550552	56550552	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"59"	30	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"740a88ae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337078651685393	"WGS"	FALSE
"5907"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	56595252	56595252	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"75"	27	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"740a91dc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264705882352941	"WGS"	FALSE
"5908"	"SLC43A1"	8501	"mskcc.org"	"GRCh37"	"11"	57259856	57259856	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.872-521A>C"	""	""	"ENST00000278426"	""	73	"66"	7	36	"36"	0	"SLC43A1,intron_variant,,ENST00000278426,NM_003627.5;SLC43A1,intron_variant,,ENST00000528450,NM_001198810.1;SLC43A1,intron_variant,,ENST00000525764,;SLC43A1,downstream_gene_variant,,ENST00000533066,;SLC43A1,intron_variant,,ENST00000533515,;SLC43A1,intron_variant,,ENST00000534298,;SLC43A1,intron_variant,,ENST00000529452,;SLC43A1,intron_variant,,ENST00000530159,;"	"G"	"ENSG00000149150"	"ENST00000278426"	"Transcript"	"intron_variant"	"-/2598"	"-/1680"	"-/559"	""	""	""	"1"	NA	-1	"SLC43A1"	"HGNC"	9225	"protein_coding"	"YES"	"CCDS7958.1"	"ENSP00000278426"	"O75387"	"E9PJT8,B3KNL1"	"UPI0000071F2B"	"NM_003627.5"	""	""	""	"8/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"740ac08a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"5909"	"MS4A1"	931	"mskcc.org"	"GRCh37"	"11"	60219214	60219214	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000534668"	""	31	"26"	5	15	"15"	0	"MS4A1,upstream_gene_variant,,ENST00000534668,NM_152866.2;MS4A1,upstream_gene_variant,,ENST00000345732,NM_021950.3;MS4A1,upstream_gene_variant,,ENST00000532073,;MS4A1,upstream_gene_variant,,ENST00000528313,;MS4A5,downstream_gene_variant,,ENST00000300190,NM_023945.2;MS4A1,upstream_gene_variant,,ENST00000533306,;MS4A1,upstream_gene_variant,,ENST00000532491,;MS4A1,upstream_gene_variant,,ENST00000524807,;MS4A5,downstream_gene_variant,,ENST00000528905,;MS4A5,downstream_gene_variant,,ENST00000528093,;MS4A1,upstream_gene_variant,,ENST00000534503,;MS4A1,upstream_gene_variant,,ENST00000527101,;MS4A5,intron_variant,,ENST00000533885,;MS4A5,downstream_gene_variant,,ENST00000531403,;"	"G"	"ENSG00000156738"	"ENST00000534668"	"Transcript"	"upstream_gene_variant"	"-/3475"	"-/894"	"-/297"	""	""	""	"1"	"4106"	1	"MS4A1"	"HGNC"	7315	"protein_coding"	"YES"	"CCDS31570.1"	"ENSP00000433277"	"P11836"	""	"UPI000012733B"	"NM_152866.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"740bce4e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161290322580645	"WGS"	FALSE
"5910"	"MS4A1"	931	"mskcc.org"	"GRCh37"	"11"	60219218	60219218	"+"	"5'Flank"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000534668"	""	26	"20"	6	13	"13"	0	"MS4A1,upstream_gene_variant,,ENST00000534668,NM_152866.2;MS4A1,upstream_gene_variant,,ENST00000345732,NM_021950.3;MS4A1,upstream_gene_variant,,ENST00000532073,;MS4A1,upstream_gene_variant,,ENST00000528313,;MS4A5,downstream_gene_variant,,ENST00000300190,NM_023945.2;MS4A1,upstream_gene_variant,,ENST00000533306,;MS4A1,upstream_gene_variant,,ENST00000532491,;MS4A1,upstream_gene_variant,,ENST00000524807,;MS4A5,downstream_gene_variant,,ENST00000528905,;MS4A5,downstream_gene_variant,,ENST00000528093,;MS4A1,upstream_gene_variant,,ENST00000534503,;MS4A1,upstream_gene_variant,,ENST00000527101,;MS4A5,intron_variant,,ENST00000533885,;MS4A5,downstream_gene_variant,,ENST00000531403,;"	"C"	"ENSG00000156738"	"ENST00000534668"	"Transcript"	"upstream_gene_variant"	"-/3475"	"-/894"	"-/297"	""	""	""	"1"	"4102"	1	"MS4A1"	"HGNC"	7315	"protein_coding"	"YES"	"CCDS31570.1"	"ENSP00000433277"	"P11836"	""	"UPI000012733B"	"NM_152866.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"740bcf48-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"5911"	"LINC00301"	283197	"mskcc.org"	"GRCh37"	"11"	60392841	60392841	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.201-2921A>G"	""	""	"ENST00000320202"	""	108	"78"	30	64	"64"	0	"LINC00301,intron_variant,,ENST00000320202,;LINC00301,intron_variant,,ENST00000412599,;"	"G"	"ENSG00000181995"	"ENST00000320202"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/852"	""	""	""	""	""	"1"	NA	1	"LINC00301"	"HGNC"	28603	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"740be7bc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"5912"	"PGA4"	643847	"mskcc.org"	"GRCh37"	"11"	60989108	60989108	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000378149"	""	37	"33"	4	17	"17"	0	"PGA4,upstream_gene_variant,,ENST00000378149,NM_001079808.1;PGA4,upstream_gene_variant,,ENST00000422676,;PGA4,upstream_gene_variant,,ENST00000545726,;PGA4,upstream_gene_variant,,ENST00000543193,;PGA4,upstream_gene_variant,,ENST00000541743,;"	"A"	"ENSG00000229183"	"ENST00000378149"	"Transcript"	"upstream_gene_variant"	"-/1748"	"-/1167"	"-/388"	""	""	""	"1"	"580"	1	"PGA4"	"HGNC"	8886	"protein_coding"	"YES"	"CCDS31575.1"	"ENSP00000367391"	"P0DJD7"	"F5H842,F5H7H3,F5H0H6"	"UPI00001315BD"	"NM_001079808.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"740c3e38-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"5913"	"LRRN4CL"	221091	"mskcc.org"	"GRCh37"	"11"	62453153	62453153	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000317449"	""	72	"52"	20	33	"33"	0	"LRRN4CL,downstream_gene_variant,,ENST00000317449,NM_203422.3;BSCL2,downstream_gene_variant,,ENST00000433053,;BSCL2,downstream_gene_variant,,ENST00000405837,;BSCL2,downstream_gene_variant,,ENST00000403550,;BSCL2,downstream_gene_variant,,ENST00000360796,NM_001122955.3;BSCL2,downstream_gene_variant,,ENST00000407022,NM_032667.6;BSCL2,downstream_gene_variant,,ENST00000421906,;BSCL2,downstream_gene_variant,,ENST00000278893,NM_001130702.2;BSCL2,downstream_gene_variant,,ENST00000449636,;BSCL2,downstream_gene_variant,,ENST00000403098,;HNRNPUL2-BSCL2,downstream_gene_variant,,ENST00000403734,;BSCL2,downstream_gene_variant,,ENST00000301781,;BSCL2,downstream_gene_variant,,ENST00000463679,;BSCL2,downstream_gene_variant,,ENST00000470529,;"	"A"	"ENSG00000177363"	"ENST00000317449"	"Transcript"	"downstream_gene_variant"	"-/2585"	"-/717"	"-/238"	""	""	""	"1"	"721"	-1	"LRRN4CL"	"HGNC"	33724	"protein_coding"	"YES"	"CCDS8030.1"	"ENSP00000325808"	"Q8ND94"	""	"UPI00000359F7"	"NM_203422.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"740d4a1c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"5914"	"MALAT1"	378938	"mskcc.org"	"GRCh37"	"11"	65268719	65268719	"+"	"RNA"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.3487A>T"	""	""	"ENST00000534336"	"1/1"	67	"47"	20	46	"46"	0	"MALAT1,non_coding_transcript_exon_variant,,ENST00000534336,;MALAT1,non_coding_transcript_exon_variant,,ENST00000544868,;MALAT1,upstream_gene_variant,,ENST00000508832,;AP000769.7,upstream_gene_variant,,ENST00000602344,;"	"T"	"ENSG00000251562"	"ENST00000534336"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"3487/8708"	""	""	""	""	""	"1"	NA	1	"MALAT1"	"HGNC"	29665	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"740f367e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298507462686567	"WGS"	TRUE
"5915"	"CCDC87"	55231	"mskcc.org"	"GRCh37"	"11"	66355311	66355311	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000333861"	""	59	"55"	4	38	"38"	0	"CCDC87,downstream_gene_variant,,ENST00000333861,NM_018219.2;CCS,upstream_gene_variant,,ENST00000533244,NM_005125.1;"	"T"	"ENSG00000182791"	"ENST00000333861"	"Transcript"	"downstream_gene_variant"	"-/2915"	"-/2550"	"-/849"	""	""	""	"1"	"2329"	-1	"CCDC87"	"HGNC"	25579	"protein_coding"	"YES"	"CCDS8145.1"	"ENSP00000328487"	"Q9NVE4"	""	"UPI000013EFC2"	"NM_018219.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"740fd5a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0677966101694915	"WGS"	FALSE
"5916"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	68058571	68058571	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"62"	4	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"741176be-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"5917"	"MRPL21"	219927	"mskcc.org"	"GRCh37"	"11"	68662567	68662567	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.396+1416A>T"	""	""	"ENST00000362034"	""	81	"76"	5	51	"51"	0	"MRPL21,intron_variant,,ENST00000567045,;MRPL21,intron_variant,,ENST00000362034,NM_181515.1,NM_181514.1;MRPL21,intron_variant,,ENST00000450904,;MRPL21,intron_variant,,ENST00000565125,;MRPL21,intron_variant,,ENST00000541279,;MRPL21,intron_variant,,ENST00000544567,;MRPL21,intron_variant,,ENST00000541265,;MRPL21,downstream_gene_variant,,ENST00000536637,;"	"A"	"ENSG00000197345"	"ENST00000362034"	"Transcript"	"intron_variant"	"-/683"	"-/618"	"-/205"	""	""	""	"1"	NA	-1	"MRPL21"	"HGNC"	14479	"protein_coding"	"YES"	"CCDS8186.1"	"ENSP00000354580"	"Q7Z2W9"	"F5H7V8,F5H4R5"	"UPI00001A95D2"	"NM_181515.1,NM_181514.1"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"7411c592-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"5918"	"ANO1"	55107	"mskcc.org"	"GRCh37"	"11"	69971197	69971197	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.962+677G>C"	""	""	"ENST00000355303"	""	85	"80"	5	34	"34"	0	"ANO1,intron_variant,,ENST00000355303,NM_018043.5;ANO1,intron_variant,,ENST00000538023,;ANO1,intron_variant,,ENST00000398543,;ANO1,intron_variant,,ENST00000531349,;ANO1,intron_variant,,ENST00000530676,;ANO1,intron_variant,,ENST00000316296,;ANO1,intron_variant,,ENST00000530480,;RP11-805J14.3,upstream_gene_variant,,ENST00000530525,;"	"C"	"ENSG00000131620"	"ENST00000355303"	"Transcript"	"intron_variant"	"-/4790"	"-/2961"	"-/986"	""	""	""	"1"	NA	1	"ANO1"	"HGNC"	21625	"protein_coding"	"YES"	"CCDS44663.1"	"ENSP00000347454"	"Q5XXA6"	""	"UPI000013CE03"	"NM_018043.5"	""	""	""	"9/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"74133ef4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"5919"	"SHANK2"	22941	"mskcc.org"	"GRCh37"	"11"	70330981	70330981	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4982+438G>C"	""	""	"ENST00000338508"	""	85	"56"	29	53	"53"	0	"SHANK2,intron_variant,,ENST00000338508,;SHANK2,intron_variant,,ENST00000449833,NM_133266.3;SHANK2,intron_variant,,ENST00000423696,;SHANK2,intron_variant,,ENST00000409161,;SHANK2,intron_variant,,ENST00000424924,;SHANK2,intron_variant,,ENST00000294018,;SHANK2,intron_variant,,ENST00000412252,;SHANK2,downstream_gene_variant,,ENST00000409530,;"	"G"	"ENSG00000162105"	"ENST00000338508"	"Transcript"	"intron_variant"	"-/8987"	"-/5553"	"-/1850"	""	""	""	"1"	NA	-1	"SHANK2"	"HGNC"	14295	"protein_coding"	"YES"	""	"ENSP00000345193"	""	"C9JFP8,A6NHU9"	"UPI00020653A9"	""	""	""	""	"32/32"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"74137f86-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341176470588235	"WGS"	FALSE
"5920"	"ENPP7P8"	0	"mskcc.org"	"GRCh37"	"11"	71448639	71448639	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"rs189194628"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.358+6074A>T"	""	""	"ENST00000527856"	""	89	"84"	5	47	"47"	0	"ENPP7P8,intron_variant,,ENST00000527856,;"	"T"	"ENSG00000255319"	"ENST00000527856"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1345"	""	""	""	""	"rs189194628"	"1"	NA	1	"ENPP7P8"	"HGNC"	48691	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	"T:0.0038"	"T:0.0144"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"7414b086-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0561797752808989	"WGS"	FALSE
"5921"	"ENSR00000565033"	0	"mskcc.org"	"GRCh37"	"11"	72261037	72261037	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000565033"	""	89	"50"	39	46	"46"	0	""	"A"	""	"ENSR00000565033"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"741535ba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.438202247191011	"WGS"	FALSE
"5922"	"C2CD3"	26005	"mskcc.org"	"GRCh37"	"11"	73729937	73729937	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6922-5367G>T"	""	""	"ENST00000334126"	""	87	"57"	30	44	"44"	0	"C2CD3,intron_variant,,ENST00000334126,NM_001286577.1;C2CD3,intron_variant,,ENST00000542452,;C2CD3,intron_variant,,ENST00000442398,;"	"A"	"ENSG00000168014"	"ENST00000334126"	"Transcript"	"intron_variant"	"-/7289"	"-/7062"	"-/2353"	""	""	""	"1"	NA	-1	"C2CD3"	"HGNC"	24564	"protein_coding"	""	"CCDS66167.1"	"ENSP00000334379"	"Q4AC94"	""	"UPI0001AE6C29"	"NM_001286577.1"	""	""	""	"32/32"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"7415fbda-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344827586206897	"WGS"	FALSE
"5923"	"KCNE3"	10008	"mskcc.org"	"GRCh37"	"11"	74178633	74178633	"+"	"5'UTR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-380C>T"	""	""	"ENST00000310128"	"1/3"	71	"43"	28	35	"35"	0	"KCNE3,5_prime_UTR_variant,,ENST00000310128,NM_005472.4;KCNE3,intron_variant,,ENST00000532569,;KCNE3,upstream_gene_variant,,ENST00000531854,;KCNE3,upstream_gene_variant,,ENST00000529425,;KCNE3,upstream_gene_variant,,ENST00000526855,;RP11-702H23.4,intron_variant,,ENST00000533008,;"	"A"	"ENSG00000175538"	"ENST00000310128"	"Transcript"	"5_prime_UTR_variant"	"41/3143"	"-/312"	"-/103"	""	""	""	"1"	NA	-1	"KCNE3"	"HGNC"	6243	"protein_coding"	"YES"	"CCDS8232.1"	"ENSP00000310557"	"Q9Y6H6"	"Q6IAE6,Q2N1I1,E9PN03,E9PJV9"	"UPI000012F15C"	"NM_005472.4"	""	""	"1/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGG"	"74161d86-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.394366197183099	"WGS"	FALSE
"5924"	"TENM4"	26011	"mskcc.org"	"GRCh37"	"11"	78635102	78635102	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.494-20534T>C"	""	""	"ENST00000278550"	""	90	"83"	7	48	"48"	0	"TENM4,intron_variant,,ENST00000278550,NM_001098816.2;TENM4,intron_variant,,ENST00000533013,;TENM4,downstream_gene_variant,,ENST00000529798,;"	"G"	"ENSG00000149256"	"ENST00000278550"	"Transcript"	"intron_variant"	"-/14000"	"-/8310"	"-/2769"	""	""	""	"1"	NA	-1	"TENM4"	"HGNC"	29945	"protein_coding"	"YES"	"CCDS44688.1"	"ENSP00000278550"	"Q6N022"	"G3CAT1"	"UPI0000DD8112"	"NM_001098816.2"	""	""	""	"6/33"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7417ed3c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0777777777777778	"WGS"	FALSE
"5925"	"ENSR00001571848"	0	"mskcc.org"	"GRCh37"	"11"	79172002	79172002	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"rs566264881"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001571848"	""	96	"73"	23	61	"61"	0	""	"G"	""	"ENSR00001571848"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs566264881"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"74180eca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239583333333333	"WGS"	FALSE
"5926"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	80743041	80743041	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"69"	27	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"741875fe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28125	"WGS"	FALSE
"5927"	"RP11-179A16.1"	101928989	"mskcc.org"	"GRCh37"	"11"	82300295	82300295	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.440+83839C>A"	""	""	"ENST00000532217"	""	109	"76"	33	41	"41"	0	"RP11-179A16.1,intron_variant,,ENST00000532217,;"	"T"	"ENSG00000245832"	"ENST00000532217"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/572"	""	""	""	""	""	"1"	NA	-1	"RP11-179A16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"7418ecbe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302752293577982	"WGS"	FALSE
"5928"	"RP11-718B12.2"	0	"mskcc.org"	"GRCh37"	"11"	82529732	82529732	"+"	"3'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000526305"	""	110	"67"	43	55	"55"	0	"PRCP,downstream_gene_variant,,ENST00000313010,NM_005040.2;RP11-718B12.2,downstream_gene_variant,,ENST00000526305,;"	"A"	"ENSG00000255382"	"ENST00000526305"	"Transcript"	"downstream_gene_variant"	"-/446"	""	""	""	""	""	"1"	"1544"	1	"RP11-718B12.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"74190b54-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.390909090909091	"WGS"	FALSE
"5929"	"DLG2"	1740	"mskcc.org"	"GRCh37"	"11"	84097367	84097367	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.520-135033G>C"	""	""	"ENST00000376104"	""	116	"82"	34	59	"59"	0	"DLG2,intron_variant,,ENST00000398309,NM_001364.3;DLG2,intron_variant,,ENST00000376104,NM_001142699.1;DLG2,intron_variant,,ENST00000543673,;DLG2,intron_variant,,ENST00000532653,;DLG2,intron_variant,,ENST00000524982,;DLG2,intron_variant,,ENST00000527466,;DLG2,intron_variant,,ENST00000529111,;"	"G"	"ENSG00000150672"	"ENST00000376104"	"Transcript"	"intron_variant"	"-/5139"	"-/2928"	"-/975"	""	""	""	"1"	NA	-1	"DLG2"	"HGNC"	2901	"protein_coding"	"YES"	"CCDS44690.1"	"ENSP00000365272"	"Q15700"	"F8W750,E9PQT9"	"UPI0000E59399"	"NM_001142699.1"	""	""	""	"7/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"741983d6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293103448275862	"WGS"	FALSE
"5930"	"TMEM135"	65084	"mskcc.org"	"GRCh37"	"11"	86944141	86944141	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs748824835"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.463-3539C>T"	""	""	"ENST00000305494"	""	97	"72"	25	50	"50"	0	"TMEM135,intron_variant,,ENST00000340353,NM_001168724.1;TMEM135,intron_variant,,ENST00000305494,NM_022918.3;TMEM135,intron_variant,,ENST00000535167,;TMEM135,intron_variant,,ENST00000532959,;TMEM135,intron_variant,,ENST00000525018,;"	"T"	"ENSG00000166575"	"ENST00000305494"	"Transcript"	"intron_variant"	"-/2433"	"-/1377"	"-/458"	""	""	"rs748824835"	"1"	NA	1	"TMEM135"	"HGNC"	26167	"protein_coding"	"YES"	"CCDS8280.1"	"ENSP00000306344"	"Q86UB9"	"Q7Z760,F5H254,B4DKZ1"	"UPI00001FB0C7"	"NM_022918.3"	""	""	""	"5/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"741a99b0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257731958762887	"WGS"	FALSE
"5931"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	91072958	91072958	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"59"	17	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"741c2cd0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223684210526316	"WGS"	FALSE
"5932"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	91327831	91327831	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"66"	24	66	"66"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"741c4648-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"5933"	"FAT3"	120114	"mskcc.org"	"GRCh37"	"11"	92470606	92470606	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3670-24416A>C"	""	""	"ENST00000298047"	""	102	"72"	30	62	"62"	0	"FAT3,intron_variant,,ENST00000298047,;FAT3,intron_variant,,ENST00000409404,NM_001008781.2;FAT3,intron_variant,,ENST00000525166,;"	"C"	"ENSG00000165323"	"ENST00000298047"	"Transcript"	"intron_variant"	"-/19126"	"-/13770"	"-/4589"	""	""	""	"1"	NA	1	"FAT3"	"HGNC"	23112	"protein_coding"	"YES"	""	"ENSP00000298047"	"Q8TDW7"	"E9PQ73"	"UPI000050B6C6"	""	""	""	""	"3/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"741c9256-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"5934"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	98150068	98150068	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"77"	23	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"741e33ea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23	"WGS"	FALSE
"5935"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	98329634	98329634	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"65"	23	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"741e4bd2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261363636363636	"WGS"	FALSE
"5936"	"CNTN5"	53942	"mskcc.org"	"GRCh37"	"11"	98901471	98901471	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-210+9471C>G"	""	""	"ENST00000524871"	""	103	"66"	37	73	"73"	0	"CNTN5,intron_variant,,ENST00000524871,NM_014361.3;CNTN5,intron_variant,,ENST00000527185,NM_001243271.1;CNTN5,intron_variant,,ENST00000528682,NM_001243270.1;CNTN5,intron_variant,,ENST00000525047,;CNTN5,intron_variant,,ENST00000528727,;"	"G"	"ENSG00000149972"	"ENST00000524871"	"Transcript"	"intron_variant"	"-/6258"	"-/3303"	"-/1100"	""	""	""	"1"	NA	1	"CNTN5"	"HGNC"	2175	"protein_coding"	"YES"	"CCDS53696.1"	"ENSP00000435637"	"O94779"	"B4DGP0"	"UPI000006DAB0"	"NM_014361.3"	""	""	""	"1/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"741e79ea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.359223300970874	"WGS"	FALSE
"5937"	"RP11-315O6.2"	0	"mskcc.org"	"GRCh37"	"11"	102361368	102361368	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-95-3143G>T"	""	""	"ENST00000529278"	""	106	"78"	28	68	"68"	0	"RP11-315O6.2,intron_variant,,ENST00000529278,;"	"T"	"ENSG00000255482"	"ENST00000529278"	"Transcript"	"intron_variant"	"-/494"	"-/231"	"-/76"	""	""	""	"1"	NA	1	"RP11-315O6.2"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000434948"	""	"G3V1C9"	"UPI0000EE39C1"	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"741fb512-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264150943396226	"WGS"	FALSE
"5938"	"GUCY1A2"	2977	"mskcc.org"	"GRCh37"	"11"	106648443	106648443	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"rs374953348"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1693-1135T>A"	""	""	"ENST00000282249"	""	76	"70"	6	56	"56"	0	"GUCY1A2,intron_variant,,ENST00000526355,NM_000855.2;GUCY1A2,intron_variant,,ENST00000282249,NM_001256424.1;GUCY1A2,intron_variant,,ENST00000347596,;"	"T"	"ENSG00000152402"	"ENST00000282249"	"Transcript"	"intron_variant"	"-/3047"	"-/2292"	"-/763"	""	""	"rs374953348"	"1"	NA	-1	"GUCY1A2"	"HGNC"	4684	"protein_coding"	"YES"	"CCDS58170.1"	"ENSP00000282249"	"P33402"	""	"UPI000002A79C"	"NM_001256424.1"	""	""	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7420ecfc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"5939"	"ELMOD1"	643923	"mskcc.org"	"GRCh37"	"11"	107513196	107513196	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.421-4998T>G"	""	""	"ENST00000265840"	""	87	"82"	5	53	"53"	0	"ELMOD1,intron_variant,,ENST00000265840,NM_018712.3;ELMOD1,intron_variant,,ENST00000443271,NM_001130037.1;ELMOD1,intron_variant,,ENST00000531234,;AP000889.1,downstream_gene_variant,,ENST00000530968,;"	"G"	"ENSG00000110675"	"ENST00000265840"	"Transcript"	"intron_variant"	"-/2852"	"-/1005"	"-/334"	""	""	""	"1"	NA	1	"ELMOD1"	"HGNC"	25334	"protein_coding"	"YES"	"CCDS44723.1"	"ENSP00000265840"	"Q8N336"	"E9PLM8"	"UPI000006DF30"	"NM_018712.3"	""	""	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"74214616-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0574712643678161	"WGS"	FALSE
"5940"	"CUL5"	8065	"mskcc.org"	"GRCh37"	"11"	107902090	107902090	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.25-2438C>A"	""	""	"ENST00000393094"	""	94	"88"	6	45	"45"	0	"CUL5,intron_variant,,ENST00000393094,NM_003478.3;CUL5,intron_variant,,ENST00000531427,;CUL5,intron_variant,,ENST00000532064,;CUL5,intron_variant,,ENST00000526303,;"	"A"	"ENSG00000166266"	"ENST00000393094"	"Transcript"	"intron_variant"	"-/6351"	"-/2343"	"-/780"	""	""	""	"1"	NA	1	"CUL5"	"HGNC"	2556	"protein_coding"	"YES"	"CCDS31668.1"	"ENSP00000376808"	"Q93034"	"L0L6D8,L0L6C1"	"UPI00001380B0"	"NM_003478.3"	""	""	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"74218c66-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"5941"	"RP11-262A12.1"	0	"mskcc.org"	"GRCh37"	"11"	109650052	109650052	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.542+1656G>A"	""	""	"ENST00000534252"	""	94	"64"	30	61	"61"	0	"RP11-262A12.1,intron_variant,,ENST00000534252,;"	"T"	"ENSG00000254659"	"ENST00000534252"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/620"	""	""	""	""	""	"1"	NA	-1	"RP11-262A12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"74224534-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319148936170213	"WGS"	FALSE
"5942"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	110754063	110754063	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"78"	41	56	"56"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"7422b14a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34453781512605	"WGS"	FALSE
"5943"	"C11orf52"	91894	"mskcc.org"	"GRCh37"	"11"	111797712	111797712	"+"	"3'Flank"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000278601"	""	98	"67"	31	57	"57"	0	"DIXDC1,upstream_gene_variant,,ENST00000529225,NM_001278542.1;C11orf52,downstream_gene_variant,,ENST00000278601,NM_080659.2;CRYAB,upstream_gene_variant,,ENST00000527950,NM_001885.1;C11orf52,downstream_gene_variant,,ENST00000529342,;RNA5SP351,upstream_gene_variant,,ENST00000459480,;C11orf52,downstream_gene_variant,,ENST00000527286,;HSPB2-C11orf52,downstream_gene_variant,,ENST00000534100,;C11orf52,downstream_gene_variant,,ENST00000529012,;"	"G"	"ENSG00000149300"	"ENST00000278601"	"Transcript"	"downstream_gene_variant"	"-/1141"	"-/372"	"-/123"	""	""	""	"1"	"116"	1	"C11orf52"	"HGNC"	30531	"protein_coding"	"YES"	"CCDS8353.1"	"ENSP00000278601"	"Q96A22"	"E9PPX5"	"UPI000013DB82"	"NM_080659.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"742303b6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316326530612245	"WGS"	FALSE
"5944"	"RP11-64D24.4"	101928940	"mskcc.org"	"GRCh37"	"11"	114244421	114244421	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.304+5041G>C"	""	""	"ENST00000534904"	""	109	"76"	33	46	"46"	0	"RP11-64D24.4,intron_variant,,ENST00000534904,;"	"G"	"ENSG00000256195"	"ENST00000534904"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3837"	""	""	""	""	""	"1"	NA	-1	"RP11-64D24.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"74240c52-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302752293577982	"WGS"	FALSE
"5945"	"RBM7"	10179	"mskcc.org"	"GRCh37"	"11"	114277852	114277852	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.439-315A>T"	""	""	"ENST00000540163"	""	107	"79"	28	53	"53"	0	"RBM7,3_prime_UTR_variant,,ENST00000541475,;RBM7,intron_variant,,ENST00000540163,NM_001286048.1,NM_001286047.1,NM_001286046.1;RBM7,intron_variant,,ENST00000375490,NM_016090.2,NM_001286045.1;RBM7,intron_variant,,ENST00000545678,;RBM7,intron_variant,,ENST00000544582,;RBM7,intron_variant,,ENST00000542140,;RP11-212D19.4,intron_variant,,ENST00000544347,;RBM7,intron_variant,,ENST00000544313,;RBM7,downstream_gene_variant,,ENST00000538134,;"	"T"	"ENSG00000076053"	"ENST00000540163"	"Transcript"	"intron_variant"	"-/4243"	"-/801"	"-/266"	""	""	""	"1"	NA	1	"RBM7"	"HGNC"	9904	"protein_coding"	"YES"	"CCDS8370.1"	"ENSP00000439918"	"Q9Y580"	"G3V1T9"	"UPI000013337E"	"NM_001286048.1,NM_001286047.1,NM_001286046.1"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"74240e82-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261682242990654	"WGS"	FALSE
"5946"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	114491907	114491907	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"105"	6	59	"59"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"74244992-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0540540540540541	"WGS"	FALSE
"5947"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	118201766	118201766	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	35	"29"	6	17	"17"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"7425bcb4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171428571428571	"WGS"	FALSE
"5948"	"AP002954.4"	0	"mskcc.org"	"GRCh37"	"11"	118599976	118599976	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.374+20744T>A"	""	""	"ENST00000526274"	""	120	"113"	7	54	"54"	0	"AP002954.4,intron_variant,,ENST00000526274,;"	"A"	"ENSG00000255422"	"ENST00000526274"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/425"	""	""	""	""	""	"1"	NA	1	"AP002954.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7426282a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0583333333333333	"WGS"	FALSE
"5949"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	119013367	119013367	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"74"	19	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"7426737a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204301075268817	"WGS"	FALSE
"5950"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	122350208	122350208	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs139591947"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"62"	26	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139591947"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0012"	"A:0"	"A:0"	NA	"A:0.003"	"A:0.003"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"74284290-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295454545454545	"WGS"	FALSE
"5951"	"CTD-2216M2.1"	0	"mskcc.org"	"GRCh37"	"11"	123087047	123087047	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.411+3857C>T"	""	""	"ENST00000531681"	""	92	"62"	30	50	"50"	0	"CTD-2216M2.1,intron_variant,,ENST00000531681,;"	"T"	"ENSG00000254710"	"ENST00000531681"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/701"	""	""	""	""	""	"1"	NA	1	"CTD-2216M2.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7428adf2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326086956521739	"WGS"	FALSE
"5952"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	124380069	124380069	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"70"	7	38	"38"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"742963b4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"5953"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	125626767	125626767	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"74"	22	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"7429dfec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229166666666667	"WGS"	FALSE
"5954"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	127017127	127017127	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"80"	31	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"742a9446-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279279279279279	"WGS"	FALSE
"5955"	"ARHGAP32"	9743	"mskcc.org"	"GRCh37"	"11"	129141315	129141315	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-5+7726T>G"	""	""	"ENST00000525234"	""	98	"91"	7	56	"56"	0	"ARHGAP32,intron_variant,,ENST00000525234,;"	"C"	"ENSG00000134909"	"ENST00000525234"	"Transcript"	"intron_variant"	"-/719"	"-/536"	"-/178"	""	""	""	"1"	NA	-1	"ARHGAP32"	"HGNC"	17399	"protein_coding"	""	""	"ENSP00000432303"	""	"E9PRH3"	"UPI0001F77C04"	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"742b45da-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"5956"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	131016114	131016114	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"60"	28	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"742c1b18-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318181818181818	"WGS"	FALSE
"5957"	"CCDC77"	84318	"mskcc.org"	"GRCh37"	"12"	507674	507674	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000239830"	""	86	"80"	6	46	"46"	0	"CCDC77,intron_variant,,ENST00000422000,NM_001130147.1;CCDC77,intron_variant,,ENST00000540180,NM_001130148.1;CCDC77,intron_variant,,ENST00000543504,;CCDC77,intron_variant,,ENST00000535052,;CCDC77,upstream_gene_variant,,ENST00000239830,NM_032358.3;CCDC77,upstream_gene_variant,,ENST00000412006,NM_001130146.1;CCDC77,intron_variant,,ENST00000540344,;CCDC77,upstream_gene_variant,,ENST00000538160,;CCDC77,upstream_gene_variant,,ENST00000535959,;"	"C"	"ENSG00000120647"	"ENST00000239830"	"Transcript"	"upstream_gene_variant"	"-/2371"	"-/1467"	"-/488"	""	""	""	"1"	"3068"	1	"CCDC77"	"HGNC"	28203	"protein_coding"	"YES"	"CCDS8503.1"	"ENSP00000239830"	"Q9BR77"	"F5H5Q8,F5H0W5"	"UPI0000070D97"	"NM_032358.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"74300f02-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"5958"	"CACNA1C"	775	"mskcc.org"	"GRCh37"	"12"	2215698	2215698	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.50-8692C>A"	""	""	"ENST00000347598"	""	38	"33"	5	31	"31"	0	"CACNA1C,intron_variant,,ENST00000399655,NM_001129834.1,NM_001129829.1,NM_000719.6;CACNA1C,intron_variant,,ENST00000399634,NM_001167625.1;CACNA1C,intron_variant,,ENST00000406454,;CACNA1C,intron_variant,,ENST00000399617,NM_001167624.1;CACNA1C,intron_variant,,ENST00000399603,NM_001167623.1;CACNA1C,intron_variant,,ENST00000335762,;CACNA1C,intron_variant,,ENST00000480911,;CACNA1C,intron_variant,,ENST00000347598,NM_199460.2,NM_001129827.1;CACNA1C,intron_variant,,ENST00000344100,;CACNA1C,intron_variant,,ENST00000327702,NM_001129830.1;CACNA1C,intron_variant,,ENST00000399638,NM_001129831.1;CACNA1C,intron_variant,,ENST00000399606,NM_001129832.1;CACNA1C,intron_variant,,ENST00000399621,;CACNA1C,intron_variant,,ENST00000399637,NM_001129835.1;CACNA1C,intron_variant,,ENST00000402845,NM_001129833.1;CACNA1C,intron_variant,,ENST00000399629,NM_001129836.1;CACNA1C,intron_variant,,ENST00000399591,NM_001129838.1,NM_001129846.1;CACNA1C,intron_variant,,ENST00000399595,NM_001129837.1;CACNA1C,intron_variant,,ENST00000399649,NM_001129839.1;CACNA1C,intron_variant,,ENST00000399597,NM_001129844.1,NM_001129842.1;CACNA1C,intron_variant,,ENST00000399601,NM_001129843.1;CACNA1C,intron_variant,,ENST00000399641,NM_001129840.1;CACNA1C,intron_variant,,ENST00000399644,NM_001129841.1;CACNA1C,intron_variant,,ENST00000543114,;"	"A"	"ENSG00000151067"	"ENST00000347598"	"Transcript"	"intron_variant"	"-/6655"	"-/6561"	"-/2186"	""	""	""	"1"	NA	1	"CACNA1C"	"HGNC"	1390	"protein_coding"	"YES"	"CCDS44788.1"	"ENSP00000266376"	"Q13936"	"Q86XX0,O95234"	"UPI0000E593E5"	"NM_199460.2,NM_001129827.1"	""	""	""	"1/48"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"7431449e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WGS"	FALSE
"5959"	"TULP3"	7289	"mskcc.org"	"GRCh37"	"12"	3027391	3027391	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.94-2538T>C"	""	""	"ENST00000397132"	""	90	"83"	7	35	"35"	0	"TULP3,intron_variant,,ENST00000448120,NM_003324.4;TULP3,intron_variant,,ENST00000397132,NM_001160408.1;TULP3,intron_variant,,ENST00000544943,;TULP3,intron_variant,,ENST00000545331,;TULP3,intron_variant,,ENST00000538354,;TULP3,intron_variant,,ENST00000540184,;"	"C"	"ENSG00000078246"	"ENST00000397132"	"Transcript"	"intron_variant"	"-/1951"	"-/1506"	"-/501"	""	""	""	"1"	NA	1	"TULP3"	"HGNC"	12425	"protein_coding"	"YES"	"CCDS53737.1"	"ENSP00000380321"	""	"F8WBZ9,F5H7B9"	"UPI00001FBDC0"	"NM_001160408.1"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7431d580-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0777777777777778	"WGS"	FALSE
"5960"	"RNU6-1315P"	0	"mskcc.org"	"GRCh37"	"12"	3063083	3063083	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000517187"	""	72	"53"	19	29	"29"	0	"RNU6-1315P,downstream_gene_variant,,ENST00000517187,;"	"T"	"ENSG00000252996"	"ENST00000517187"	"Transcript"	"downstream_gene_variant"	"-/99"	""	""	""	""	""	"1"	"323"	-1	"RNU6-1315P"	"HGNC"	48278	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7431daf8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263888888888889	"WGS"	FALSE
"5961"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	4081880	4081880	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"65"	23	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"743240d8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261363636363636	"WGS"	FALSE
"5962"	"CD4"	920	"mskcc.org"	"GRCh37"	"12"	6925880	6925880	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.955+311C>A"	""	""	"ENST00000011653"	""	96	"70"	26	48	"48"	0	"CD4,intron_variant,,ENST00000011653,NM_000616.4,NM_001195017.2,NM_001195016.2,NM_001195015.2;GPR162,upstream_gene_variant,,ENST00000311268,NM_019858.1;GPR162,upstream_gene_variant,,ENST00000428545,NM_014449.1;CD4,downstream_gene_variant,,ENST00000541982,;CD4,downstream_gene_variant,,ENST00000538827,;CD4,downstream_gene_variant,,ENST00000536610,;CD4,downstream_gene_variant,,ENST00000536563,;CD4,downstream_gene_variant,,ENST00000536590,;CD4,intron_variant,,ENST00000437800,;GPR162,upstream_gene_variant,,ENST00000535220,;CD4,downstream_gene_variant,,ENST00000544344,;CD4,downstream_gene_variant,,ENST00000543755,;"	"A"	"ENSG00000010610"	"ENST00000011653"	"Transcript"	"intron_variant"	"-/3114"	"-/1377"	"-/458"	""	""	""	"1"	NA	1	"CD4"	"HGNC"	1678	"protein_coding"	"YES"	"CCDS8562.1"	"ENSP00000011653"	"P01730"	"Q6LCP8,Q13969,F5GYA9,B4DT49"	"UPI0000001294"	"NM_000616.4,NM_001195017.2,NM_001195016.2,NM_001195015.2"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"7433e262-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270833333333333	"WGS"	FALSE
"5963"	"NANOGNB"	360030	"mskcc.org"	"GRCh37"	"12"	7913829	7913829	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000382119"	""	74	"69"	5	35	"35"	0	"NANOGNB,upstream_gene_variant,,ENST00000382119,NM_001145465.1;"	"G"	"ENSG00000205857"	"ENST00000382119"	"Transcript"	"upstream_gene_variant"	"-/907"	"-/567"	"-/188"	""	""	""	"1"	"3983"	1	"NANOGNB"	"HGNC"	24958	"protein_coding"	"YES"	"CCDS44826.1"	"ENSP00000371553"	"Q7Z5D8"	""	"UPI00001B3DAD"	"NM_001145465.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"74345c92-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0675675675675676	"WGS"	FALSE
"5964"	"NANOGNB"	360030	"mskcc.org"	"GRCh37"	"12"	7913848	7913848	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000382119"	""	77	"72"	5	33	"33"	0	"NANOGNB,upstream_gene_variant,,ENST00000382119,NM_001145465.1;"	"C"	"ENSG00000205857"	"ENST00000382119"	"Transcript"	"upstream_gene_variant"	"-/907"	"-/567"	"-/188"	""	""	""	"1"	"3964"	1	"NANOGNB"	"HGNC"	24958	"protein_coding"	"YES"	"CCDS44826.1"	"ENSP00000371553"	"Q7Z5D8"	""	"UPI00001B3DAD"	"NM_001145465.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"74345da0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0649350649350649	"WGS"	FALSE
"5965"	"RP11-599J14.2"	0	"mskcc.org"	"GRCh37"	"12"	9557290	9557290	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs377310494"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.50-2138C>T"	""	""	"ENST00000540982"	""	54	"48"	6	41	"41"	0	"RP11-599J14.2,intron_variant,,ENST00000540982,;"	"A"	"ENSG00000256673"	"ENST00000540982"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/400"	""	""	""	""	"rs377310494"	"1"	NA	-1	"RP11-599J14.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"7435fade-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"5966"	"RP11-599J14.2"	0	"mskcc.org"	"GRCh37"	"12"	9557295	9557295	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.50-2143C>G"	""	""	"ENST00000540982"	""	58	"52"	6	42	"42"	0	"RP11-599J14.2,intron_variant,,ENST00000540982,;"	"C"	"ENSG00000256673"	"ENST00000540982"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/400"	""	""	""	""	""	"1"	NA	-1	"RP11-599J14.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7435fdb8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"5967"	"RP11-599J14.2"	0	"mskcc.org"	"GRCh37"	"12"	9559822	9559822	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"rs762332138"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.50-4670C>G"	""	""	"ENST00000540982"	""	96	"91"	5	37	"37"	0	"RP11-599J14.2,intron_variant,,ENST00000540982,;"	"C"	"ENSG00000256673"	"ENST00000540982"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/400"	""	""	""	""	"rs762332138"	"1"	NA	-1	"RP11-599J14.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	"C:0"	"C:0"	NA	"C:0"	"C:0"	"C:0.002"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"74360b96-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0520833333333333	"WGS"	FALSE
"5968"	"RP11-72J9.1"	0	"mskcc.org"	"GRCh37"	"12"	14326614	14326614	"+"	"3'Flank"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000546187"	""	90	"56"	34	55	"55"	0	"RP11-72J9.1,downstream_gene_variant,,ENST00000546187,;"	"G"	"ENSG00000256346"	"ENST00000546187"	"Transcript"	"downstream_gene_variant"	"-/132"	""	""	""	""	""	"1"	"3803"	1	"RP11-72J9.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"74385072-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.377777777777778	"WGS"	FALSE
"5969"	"RP11-174G6.1"	0	"mskcc.org"	"GRCh37"	"12"	14861905	14861905	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.248-9064T>A"	""	""	"ENST00000501178"	""	76	"68"	8	64	"64"	0	"RP11-174G6.1,intron_variant,,ENST00000501178,;"	"A"	"ENSG00000214772"	"ENST00000501178"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/657"	""	""	""	""	""	"1"	NA	1	"RP11-174G6.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"7438aacc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"5970"	"RP11-174G6.1"	0	"mskcc.org"	"GRCh37"	"12"	14895433	14895433	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.289-15096T>C"	""	""	"ENST00000501178"	""	93	"85"	8	49	"49"	0	"RP11-174G6.1,intron_variant,,ENST00000501178,;"	"C"	"ENSG00000214772"	"ENST00000501178"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/657"	""	""	""	""	""	"1"	NA	1	"RP11-174G6.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7438aee6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0860215053763441	"WGS"	FALSE
"5971"	"RP11-174G6.1"	0	"mskcc.org"	"GRCh37"	"12"	14895441	14895441	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.289-15088C>T"	""	""	"ENST00000501178"	""	91	"82"	9	51	"51"	0	"RP11-174G6.1,intron_variant,,ENST00000501178,;"	"T"	"ENSG00000214772"	"ENST00000501178"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/657"	""	""	""	""	""	"1"	NA	1	"RP11-174G6.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7438afe0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0989010989010989	"WGS"	FALSE
"5972"	"RP11-174G6.1"	0	"mskcc.org"	"GRCh37"	"12"	14895446	14895446	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.289-15083A>T"	""	""	"ENST00000501178"	""	87	"78"	9	50	"50"	0	"RP11-174G6.1,intron_variant,,ENST00000501178,;"	"T"	"ENSG00000214772"	"ENST00000501178"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/657"	""	""	""	""	""	"1"	NA	1	"RP11-174G6.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"7438b15c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"5973"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	15252726	15252726	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"101"	5	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7438ce8a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0471698113207547	"WGS"	FALSE
"5974"	"PTPRO"	5800	"mskcc.org"	"GRCh37"	"12"	15567093	15567093	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.76-69815C>T"	""	""	"ENST00000281171"	""	103	"71"	32	68	"68"	0	"PTPRO,intron_variant,,ENST00000281171,NM_030667.2;PTPRO,intron_variant,,ENST00000348962,NM_002848.3;PTPRO,intron_variant,,ENST00000543886,;PTPRO,downstream_gene_variant,,ENST00000545023,;"	"T"	"ENSG00000151490"	"ENST00000281171"	"Transcript"	"intron_variant"	"-/5301"	"-/3651"	"-/1216"	""	""	""	"1"	NA	1	"PTPRO"	"HGNC"	9678	"protein_coding"	"YES"	"CCDS8675.1"	"ENSP00000281171"	"Q16827"	"B4DS16"	"UPI000013DC62"	"NM_030667.2"	""	""	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"7438e546-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310679611650485	"WGS"	FALSE
"5975"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	17890593	17890593	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	34	"30"	4	30	"30"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"743985aa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"5976"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	19251617	19251617	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"70"	25	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"7439eb44-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"5977"	"SLCO1A2"	6579	"mskcc.org"	"GRCh37"	"12"	21427060	21427060	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs552193982"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1793+343C>T"	""	""	"ENST00000307378"	""	95	"70"	25	46	"46"	0	"SLCO1A2,intron_variant,,ENST00000307378,NM_134431.3;SLCO1A2,intron_variant,,ENST00000452078,NM_021094.3;SLCO1A2,intron_variant,,ENST00000537524,;SLCO1A2,intron_variant,,ENST00000458504,;SLCO1A2,downstream_gene_variant,,ENST00000390670,;SLCO1A2,non_coding_transcript_exon_variant,,ENST00000480394,;SLCO1A2,intron_variant,,ENST00000544290,;SLCO1A2,intron_variant,,ENST00000544020,;SLCO1A2,downstream_gene_variant,,ENST00000463718,;"	"A"	"ENSG00000084453"	"ENST00000307378"	"Transcript"	"intron_variant"	"-/7682"	"-/2013"	"-/670"	""	""	"rs552193982"	"1"	NA	-1	"SLCO1A2"	"HGNC"	10956	"protein_coding"	"YES"	"CCDS8686.1"	"ENSP00000305974"	"P46721"	"C9K059,C9JUW6,C9JTF6,C9JHU9,C9JGK7,C9JG34,C9JCA7,B4DJE6"	"UPI0000037575"	"NM_134431.3"	""	""	""	"15/15"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"743ac96a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"5978"	"SLCO1A2"	6579	"mskcc.org"	"GRCh37"	"12"	21428085	21428085	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1675+209C>T"	""	""	"ENST00000307378"	""	77	"48"	29	49	"48"	1	"SLCO1A2,intron_variant,,ENST00000307378,NM_134431.3;SLCO1A2,intron_variant,,ENST00000452078,NM_021094.3;SLCO1A2,intron_variant,,ENST00000537524,;SLCO1A2,intron_variant,,ENST00000458504,;SLCO1A2,downstream_gene_variant,,ENST00000390670,;SLCO1A2,non_coding_transcript_exon_variant,,ENST00000463718,;SLCO1A2,intron_variant,,ENST00000480394,;SLCO1A2,intron_variant,,ENST00000544290,;SLCO1A2,intron_variant,,ENST00000544020,;"	"A"	"ENSG00000084453"	"ENST00000307378"	"Transcript"	"intron_variant"	"-/7682"	"-/2013"	"-/670"	""	""	""	"1"	NA	-1	"SLCO1A2"	"HGNC"	10956	"protein_coding"	"YES"	"CCDS8686.1"	"ENSP00000305974"	"P46721"	"C9K059,C9JUW6,C9JTF6,C9JHU9,C9JGK7,C9JG34,C9JCA7,B4DJE6"	"UPI0000037575"	"NM_134431.3"	""	""	""	"14/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"743aca6e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.376623376623377	"WGS"	FALSE
"5979"	"ABCC9"	10060	"mskcc.org"	"GRCh37"	"12"	22054929	22054929	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1618+4131T>A"	""	""	"ENST00000261200"	""	93	"65"	28	68	"68"	0	"ABCC9,intron_variant,,ENST00000261200,NM_020297.2;ABCC9,intron_variant,,ENST00000261201,NM_005691.2;ABCC9,intron_variant,,ENST00000345162,;ABCC9,intron_variant,,ENST00000544039,;"	"T"	"ENSG00000069431"	"ENST00000261200"	"Transcript"	"intron_variant"	"-/8293"	"-/4650"	"-/1549"	""	""	""	"1"	NA	-1	"ABCC9"	"HGNC"	60	"protein_coding"	"YES"	"CCDS8693.1"	"ENSP00000261200"	"O60706"	"Q8N9N1"	"UPI000013D13F"	"NM_020297.2"	""	""	""	"10/37"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"743b0c90-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301075268817204	"WGS"	FALSE
"5980"	"RP11-114G22.1"	0	"mskcc.org"	"GRCh37"	"12"	22964471	22964471	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.683+23812T>C"	""	""	"ENST00000590328"	""	111	"75"	36	61	"61"	0	"RP11-114G22.1,intron_variant,,ENST00000590328,;RP11-114G22.1,intron_variant,,ENST00000536744,;RP11-114G22.1,intron_variant,,ENST00000413794,;"	"C"	"ENSG00000256995"	"ENST00000590328"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/897"	""	""	""	""	""	"1"	NA	1	"RP11-114G22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"743b5e98-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324324324324324	"WGS"	FALSE
"5981"	"RP11-153K16.2"	0	"mskcc.org"	"GRCh37"	"12"	23396913	23396913	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.39+7482G>C"	""	""	"ENST00000538297"	""	116	"110"	6	55	"55"	0	"RP11-153K16.2,intron_variant,,ENST00000538297,;"	"G"	"ENSG00000115934"	"ENST00000538297"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1329"	""	""	""	""	""	"1"	NA	-1	"RP11-153K16.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"743b83f0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0517241379310345	"WGS"	FALSE
"5982"	"RP11-625L16.1"	0	"mskcc.org"	"GRCh37"	"12"	24907243	24907243	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.193-5821T>A"	""	""	"ENST00000536131"	""	60	"55"	5	38	"38"	0	"RP11-625L16.1,intron_variant,,ENST00000536131,;"	"A"	"ENSG00000255745"	"ENST00000536131"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/670"	""	""	""	""	""	"1"	NA	1	"RP11-625L16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"743be25a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"5983"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	30977976	30977976	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs544910046"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"67"	25	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs544910046"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"743dc642-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"5984"	"RP11-551L14.1"	144203	"mskcc.org"	"GRCh37"	"12"	31273969	31273969	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.3719-3819G>A"	""	""	"ENST00000518559"	""	27	"23"	4	22	"22"	0	"RP11-551L14.1,upstream_gene_variant,,ENST00000542490,;RP11-551L14.1,upstream_gene_variant,,ENST00000391394,;RP11-551L14.1,upstream_gene_variant,,ENST00000542925,;RP11-551L14.1,intron_variant,,ENST00000518559,;RP11-551L14.1,intron_variant,,ENST00000398963,;RP11-551L14.1,upstream_gene_variant,,ENST00000535072,;"	"T"	"ENSG00000177359"	"ENST00000518559"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4427"	""	""	""	""	""	"1"	NA	-1	"RP11-551L14.1"	"Clone_based_vega_gene"	NA	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"27/33"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"743dec62-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"5985"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	33810796	33810796	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"rs113381511"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"102"	8	63	"63"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113381511"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"743f1c9a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0727272727272727	"WGS"	FALSE
"5986"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	33853434	33853434	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"64"	25	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"743f1d9e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280898876404494	"WGS"	FALSE
"5987"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	34491819	34491819	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs532632390"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"53"	22	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs532632390"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0004"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"743f70aa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293333333333333	"WGS"	FALSE
"5988"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	41021904	41021904	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"74"	41	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"74416dce-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.356521739130435	"WGS"	FALSE
"5989"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	42133584	42133584	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"85"	5	58	"58"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7441c33c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"5990"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	43239512	43239512	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"55"	7	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"74422c00-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112903225806452	"WGS"	FALSE
"5991"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	43297617	43297617	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"75"	29	50	"49"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"7442315a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278846153846154	"WGS"	FALSE
"5992"	"RP11-438E8.2"	0	"mskcc.org"	"GRCh37"	"12"	45834683	45834683	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000546680"	""	80	"75"	5	41	"41"	0	"ANO6,downstream_gene_variant,,ENST00000425752,NM_001142679.1;ANO6,downstream_gene_variant,,ENST00000435642,;RP11-438E8.2,upstream_gene_variant,,ENST00000546680,;"	"T"	"ENSG00000257368"	"ENST00000546680"	"Transcript"	"upstream_gene_variant"	"-/673"	""	""	""	""	""	"1"	"3866"	1	"RP11-438E8.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7442f680-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"5993"	"PCED1B"	91523	"mskcc.org"	"GRCh37"	"12"	47624074	47624074	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-57-4716T>A"	""	""	"ENST00000546455"	""	81	"76"	5	41	"41"	0	"PCED1B,intron_variant,,ENST00000546455,NM_138371.2;PCED1B,intron_variant,,ENST00000432328,;PCED1B,intron_variant,,ENST00000549500,;PCED1B,intron_variant,,ENST00000549630,;PCED1B,intron_variant,,ENST00000548348,;PCED1B,intron_variant,,ENST00000551777,;"	"A"	"ENSG00000179715"	"ENST00000546455"	"Transcript"	"intron_variant"	"-/2328"	"-/1299"	"-/432"	""	""	""	"1"	NA	1	"PCED1B"	"HGNC"	28255	"protein_coding"	"YES"	"CCDS8752.1"	"ENSP00000446688"	"Q96HM7"	"F8VYL8,F8VUZ9,F8VUD2,F8VRF7"	"UPI000006E8D2"	"NM_138371.2"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"74437c36-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"5994"	"RND1"	27289	"mskcc.org"	"GRCh37"	"12"	49259262	49259262	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.120+169T>C"	""	""	"ENST00000309739"	""	84	"59"	25	40	"40"	0	"RND1,intron_variant,,ENST00000309739,NM_014470.3;RND1,upstream_gene_variant,,ENST00000550607,;RND1,stop_lost,p.Ter97GlnextTer?,ENST00000551243,;RND1,upstream_gene_variant,,ENST00000553260,;"	"G"	"ENSG00000172602"	"ENST00000309739"	"Transcript"	"intron_variant"	"-/1681"	"-/699"	"-/232"	""	""	""	"1"	NA	-1	"RND1"	"HGNC"	18314	"protein_coding"	"YES"	"CCDS8771.1"	"ENSP00000308461"	"Q92730"	"H0YHG7"	"UPI000013388D"	"NM_014470.3"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"74445f5c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297619047619048	"WGS"	FALSE
"5995"	"PRPF40B"	25766	"mskcc.org"	"GRCh37"	"12"	50004555	50004555	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-161-11865A>T"	""	""	"ENST00000551063"	""	84	"79"	5	49	"49"	0	"PRPF40B,intron_variant,,ENST00000551063,;"	"T"	"ENSG00000110844"	"ENST00000551063"	"Transcript"	"intron_variant"	"-/531"	"-/18"	"-/6"	""	""	""	"1"	NA	1	"PRPF40B"	"HGNC"	25031	"protein_coding"	""	""	"ENSP00000449569"	""	""	"UPI00020CE01F"	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"7444fa52-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0595238095238095	"WGS"	FALSE
"5996"	"FAM186A"	121006	"mskcc.org"	"GRCh37"	"12"	50755071	50755071	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.413-362A>T"	""	""	"ENST00000327337"	""	99	"68"	31	63	"63"	0	"FAM186A,intron_variant,,ENST00000543111,;FAM186A,intron_variant,,ENST00000327337,NM_001145475.1;RP11-112N23.1,upstream_gene_variant,,ENST00000498788,;"	"A"	"ENSG00000185958"	"ENST00000327337"	"Transcript"	"intron_variant"	"-/7127"	"-/7056"	"-/2351"	""	""	""	"1"	NA	-1	"FAM186A"	"HGNC"	26980	"protein_coding"	"YES"	"CCDS44878.1"	"ENSP00000329995"	"A6NE01"	""	"UPI00001D7978"	"NM_001145475.1"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"74459214-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313131313131313	"WGS"	FALSE
"5997"	"OR7E47P"	0	"mskcc.org"	"GRCh37"	"12"	52492523	52492523	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.562-8640G>A"	""	""	"ENST00000546390"	""	75	"69"	6	37	"37"	0	"OR7E47P,intron_variant,,ENST00000546390,;OR7E47P,intron_variant,,ENST00000546981,;RP1-288H2.2,intron_variant,,ENST00000547538,;"	"A"	"ENSG00000257542"	"ENST00000546390"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1422"	""	""	""	""	""	"1"	NA	1	"OR7E47P"	"HGNC"	8421	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7446a0d2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"5998"	"KRT6A"	3853	"mskcc.org"	"GRCh37"	"12"	52877300	52877300	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"rs535080126"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000330722"	""	107	"101"	6	52	"52"	0	"KRT6A,downstream_gene_variant,,ENST00000330722,NM_005554.3;"	"T"	"ENSG00000205420"	"ENST00000330722"	"Transcript"	"downstream_gene_variant"	"-/2310"	"-/1695"	"-/564"	""	""	"rs535080126"	"1"	"3658"	-1	"KRT6A"	"HGNC"	6443	"protein_coding"	"YES"	"CCDS41786.1"	"ENSP00000369317"	"P02538"	""	"UPI000013CD4C"	"NM_005554.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"744758ec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0560747663551402	"WGS"	FALSE
"5999"	"EIF4B"	1975	"mskcc.org"	"GRCh37"	"12"	53400181	53400181	"+"	"5'UTR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-87A>C"	""	""	"ENST00000262056"	"1/15"	76	"68"	8	43	"43"	0	"EIF4B,5_prime_UTR_variant,,ENST00000262056,NM_001417.4;EIF4B,upstream_gene_variant,,ENST00000416762,;EIF4B,upstream_gene_variant,,ENST00000420463,;EIF4B,upstream_gene_variant,,ENST00000549481,;EIF4B,upstream_gene_variant,,ENST00000552490,;EIF4B,upstream_gene_variant,,ENST00000551002,;EIF4B,non_coding_transcript_exon_variant,,ENST00000551527,;EIF4B,upstream_gene_variant,,ENST00000549645,;EIF4B,upstream_gene_variant,,ENST00000550704,;EIF4B,upstream_gene_variant,,ENST00000549077,;EIF4B,upstream_gene_variant,,ENST00000550390,;"	"C"	"ENSG00000063046"	"ENST00000262056"	"Transcript"	"5_prime_UTR_variant"	"240/4148"	"-/1836"	"-/611"	""	""	""	"1"	NA	1	"EIF4B"	"HGNC"	3285	"protein_coding"	"YES"	"CCDS41788.1"	"ENSP00000262056"	"P23588"	""	"UPI000006F988"	"NM_001417.4"	""	""	"1/15"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"7447b990-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"6000"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	55628099	55628099	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"100"	8	71	"71"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7449223a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"6001"	"DNAJC14"	85406	"mskcc.org"	"GRCh37"	"12"	56220726	56220726	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1407+310G>T"	""	""	"ENST00000357606"	""	82	"63"	19	57	"57"	0	"DNAJC14,intron_variant,,ENST00000357606,;DNAJC14,intron_variant,,ENST00000317269,NM_032364.5;DNAJC14,intron_variant,,ENST00000317287,;RP11-762I7.5,intron_variant,,ENST00000546837,;DNAJC14,downstream_gene_variant,,ENST00000546957,;DNAJC14,downstream_gene_variant,,ENST00000547445,;TMEM198B,upstream_gene_variant,,ENST00000478241,;TMEM198B,upstream_gene_variant,,ENST00000508246,;TMEM198B,upstream_gene_variant,,ENST00000482378,;TMEM198B,upstream_gene_variant,,ENST00000471276,;RP11-762I7.5,upstream_gene_variant,,ENST00000552719,;RP11-762I7.5,upstream_gene_variant,,ENST00000550124,;RP11-762I7.5,upstream_gene_variant,,ENST00000548593,;RP11-762I7.5,upstream_gene_variant,,ENST00000546813,;"	"A"	"ENSG00000135392"	"ENST00000357606"	"Transcript"	"intron_variant"	"-/3416"	"-/2109"	"-/702"	""	""	""	"1"	NA	-1	"DNAJC14"	"HGNC"	24581	"protein_coding"	"YES"	"CCDS8894.1"	"ENSP00000350223"	"Q6Y2X3"	"F8VYY5,F8VNT6"	"UPI000018CE63"	""	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"744957fa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231707317073171	"WGS"	FALSE
"6002"	"CS"	1431	"mskcc.org"	"GRCh37"	"12"	56689219	56689219	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.42+4725T>C"	""	""	"ENST00000351328"	""	69	"63"	6	42	"42"	0	"CS,intron_variant,,ENST00000548567,;CS,intron_variant,,ENST00000351328,NM_004077.2;CS,intron_variant,,ENST00000542324,;RP11-977G19.10,intron_variant,,ENST00000549318,;CS,intron_variant,,ENST00000551137,;CS,intron_variant,,ENST00000551473,;CS,intron_variant,,ENST00000551430,;CS,intron_variant,,ENST00000550734,;CS,intron_variant,,ENST00000551936,;CS,intron_variant,,ENST00000551253,;CS,intron_variant,,ENST00000547298,;CS,intron_variant,,ENST00000550159,;CS,intron_variant,,ENST00000550655,;CS,intron_variant,,ENST00000552688,;CS,intron_variant,,ENST00000546930,;RP11-977G19.10,intron_variant,,ENST00000547423,;CS,intron_variant,,ENST00000548041,;CS,intron_variant,,ENST00000549221,;CS,intron_variant,,ENST00000551968,;RP11-977G19.10,downstream_gene_variant,,ENST00000548360,;RP11-977G19.11,upstream_gene_variant,,ENST00000549565,;CS,intron_variant,,ENST00000549143,;CS,intron_variant,,ENST00000548849,;CS,intron_variant,,ENST00000550996,;CS,intron_variant,,ENST00000551441,;CS,intron_variant,,ENST00000550700,;CS,intron_variant,,ENST00000547283,;CS,intron_variant,,ENST00000552222,;CS,intron_variant,,ENST00000550044,;CS,upstream_gene_variant,,ENST00000551155,;"	"G"	"ENSG00000062485"	"ENST00000351328"	"Transcript"	"intron_variant"	"-/2975"	"-/1401"	"-/466"	""	""	""	"1"	NA	-1	"CS"	"HGNC"	2422	"protein_coding"	"YES"	"CCDS8913.1"	"ENSP00000342056"	"O75390"	"Q0QEL2,F8W642,F8W4S1,F8VZK9,F8VX68,F8VX07,F8VRP1,F8VPF9,F8VPA1"	"UPI00000700D6"	"NM_004077.2"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"7449ab92-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"6003"	"PRIM1"	5557	"mskcc.org"	"GRCh37"	"12"	57131773	57131773	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1144+445T>A"	""	""	"ENST00000338193"	""	87	"81"	6	56	"56"	0	"PRIM1,intron_variant,,ENST00000338193,NM_000946.2;PRIM1,downstream_gene_variant,,ENST00000550770,;PRIM1,downstream_gene_variant,,ENST00000549549,;PRIM1,intron_variant,,ENST00000552590,;"	"T"	"ENSG00000198056"	"ENST00000338193"	"Transcript"	"intron_variant"	"-/1393"	"-/1263"	"-/420"	""	""	""	"1"	NA	-1	"PRIM1"	"HGNC"	9369	"protein_coding"	"YES"	"CCDS44926.1"	"ENSP00000350491"	"P49642"	""	"UPI00001321AF"	"NM_000946.2"	""	""	""	"11/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"744a1c3a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"6004"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	61660198	61660198	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"75"	31	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"744c0400-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292452830188679	"WGS"	FALSE
"6005"	"FAM19A2"	338811	"mskcc.org"	"GRCh37"	"12"	62124914	62124914	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs546801264"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.385-20716C>T"	""	""	"ENST00000416284"	""	97	"71"	26	48	"48"	0	"FAM19A2,intron_variant,,ENST00000416284,NM_178539.4;FAM19A2,intron_variant,,ENST00000551619,;FAM19A2,intron_variant,,ENST00000550003,;FAM19A2,intron_variant,,ENST00000551449,;FAM19A2,intron_variant,,ENST00000549379,;"	"A"	"ENSG00000198673"	"ENST00000416284"	"Transcript"	"intron_variant"	"-/4128"	"-/396"	"-/131"	""	""	"rs546801264"	"1"	NA	-1	"FAM19A2"	"HGNC"	21589	"protein_coding"	"YES"	"CCDS8962.1"	"ENSP00000393987"	"Q8N3H0"	""	"UPI000006F642"	"NM_178539.4"	""	""	""	"4/4"	""	"A:0.0006"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0.002"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"744c2af2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268041237113402	"WGS"	FALSE
"6006"	"MON2"	23041	"mskcc.org"	"GRCh37"	"12"	62953891	62953891	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3410-380T>A"	""	""	"ENST00000393632"	""	91	"86"	5	53	"53"	0	"MON2,intron_variant,,ENST00000393630,;MON2,intron_variant,,ENST00000393632,NM_001278472.1,NM_015026.2;MON2,intron_variant,,ENST00000546600,NM_001278469.1;MON2,intron_variant,,ENST00000393629,NM_001278470.1;MON2,intron_variant,,ENST00000552738,NM_001278471.1;MON2,intron_variant,,ENST00000280379,;MON2,non_coding_transcript_exon_variant,,ENST00000551307,;MON2,intron_variant,,ENST00000547095,;MON2,upstream_gene_variant,,ENST00000547287,;"	"A"	"ENSG00000061987"	"ENST00000393632"	"Transcript"	"intron_variant"	"-/8406"	"-/5154"	"-/1717"	""	""	""	"1"	NA	1	"MON2"	"HGNC"	29177	"protein_coding"	"YES"	"CCDS31849.1"	"ENSP00000377252"	"Q7Z3U7"	"F8VZV1"	"UPI00001AEA4C"	"NM_001278472.1,NM_015026.2"	""	""	""	"25/34"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"744c57f2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0549450549450549	"WGS"	FALSE
"6007"	"PPM1H"	57460	"mskcc.org"	"GRCh37"	"12"	63158443	63158443	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.869+23563A>T"	""	""	"ENST00000228705"	""	82	"54"	28	44	"44"	0	"PPM1H,intron_variant,,ENST00000228705,NM_020700.1;PPM1H,intron_variant,,ENST00000551519,;"	"A"	"ENSG00000111110"	"ENST00000228705"	"Transcript"	"intron_variant"	"-/6353"	"-/1545"	"-/514"	""	""	""	"1"	NA	-1	"PPM1H"	"HGNC"	18583	"protein_coding"	"YES"	"CCDS44934.1"	"ENSP00000228705"	"Q9ULR3"	""	"UPI00000557DD"	"NM_020700.1"	""	""	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"744c6b8e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341463414634146	"WGS"	FALSE
"6008"	"TBC1D30"	23329	"mskcc.org"	"GRCh37"	"12"	65270814	65270814	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"rs573671491"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000539867"	""	97	"61"	36	50	"50"	0	"TBC1D30,3_prime_UTR_variant,,ENST00000542120,;TBC1D30,3_prime_UTR_variant,,ENST00000229088,;TBC1D30,downstream_gene_variant,,ENST00000539867,NM_015279.1;"	"A"	"ENSG00000111490"	"ENST00000539867"	"Transcript"	"downstream_gene_variant"	"-/2594"	"-/2286"	"-/761"	""	""	"rs573671491"	"1"	"1246"	1	"TBC1D30"	"HGNC"	29164	"protein_coding"	"YES"	"CCDS53813.1"	"ENSP00000440207"	"Q9Y2I9"	"F8VZ81,F5H7L7"	"UPI000013F308"	"NM_015279.1"	""	""	""	""	""	"A:0.0004"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"744d87e4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.371134020618557	"WGS"	FALSE
"6009"	"RP11-123O10.4"	0	"mskcc.org"	"GRCh37"	"12"	67333865	67333865	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.114-48131C>A"	""	""	"ENST00000535721"	""	118	"110"	8	54	"54"	0	"RP11-123O10.4,intron_variant,,ENST00000535721,;"	"T"	"ENSG00000256248"	"ENST00000535721"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/192"	""	""	""	""	""	"1"	NA	-1	"RP11-123O10.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"744e2212-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0677966101694915	"WGS"	FALSE
"6010"	"IL26"	55801	"mskcc.org"	"GRCh37"	"12"	68606223	68606223	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.364-10360C>A"	""	""	"ENST00000229134"	""	88	"57"	31	66	"66"	0	"IL26,intron_variant,,ENST00000229134,NM_018402.1;IFNG-AS1,intron_variant,,ENST00000536914,;"	"T"	"ENSG00000111536"	"ENST00000229134"	"Transcript"	"intron_variant"	"-/1075"	"-/516"	"-/171"	""	""	""	"1"	NA	-1	"IL26"	"HGNC"	17119	"protein_coding"	"YES"	"CCDS8981.1"	"ENSP00000229134"	"Q9NPH9"	""	"UPI0000035828"	"NM_018402.1"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"744e8856-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352272727272727	"WGS"	FALSE
"6011"	"RP11-295G12.1"	0	"mskcc.org"	"GRCh37"	"12"	74180602	74180602	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.347-9276G>A"	""	""	"ENST00000551387"	""	106	"70"	36	66	"66"	0	"RP11-295G12.1,intron_variant,,ENST00000551387,;"	"A"	"ENSG00000257750"	"ENST00000551387"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/459"	""	""	""	""	""	"1"	NA	1	"RP11-295G12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"74507ada-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.339622641509434	"WGS"	FALSE
"6012"	"RP11-274M17.1"	0	"mskcc.org"	"GRCh37"	"12"	74568742	74568742	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000551714"	""	102	"70"	32	44	"44"	0	"RP11-81H3.2,intron_variant,,ENST00000549905,;RP11-274M17.1,downstream_gene_variant,,ENST00000551714,;"	"T"	"ENSG00000258320"	"ENST00000551714"	"Transcript"	"downstream_gene_variant"	"-/1386"	""	""	""	""	""	"1"	"3132"	1	"RP11-274M17.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"74509e66-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313725490196078	"WGS"	FALSE
"6013"	"RP11-81K13.1"	0	"mskcc.org"	"GRCh37"	"12"	75426367	75426367	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.218+6383G>T"	""	""	"ENST00000547040"	""	92	"64"	28	50	"50"	0	"RP11-81K13.1,intron_variant,,ENST00000547040,;RP11-81K13.1,intron_variant,,ENST00000550049,;RP11-81K13.1,intron_variant,,ENST00000549762,;"	"T"	"ENSG00000257434"	"ENST00000547040"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2631"	""	""	""	""	""	"1"	NA	1	"RP11-81K13.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"74510cc0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WGS"	FALSE
"6014"	"GLIPR1L1"	256710	"mskcc.org"	"GRCh37"	"12"	75762099	75762099	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.611-1766A>C"	""	""	"ENST00000312442"	""	97	"87"	10	45	"45"	0	"CAPS2,intron_variant,,ENST00000442339,NM_001286549.1;GLIPR1L1,intron_variant,,ENST00000312442,NM_152779.2;GLIPR1L1,intron_variant,,ENST00000378695,;CAPS2,intron_variant,,ENST00000436898,;CAPS2,intron_variant,,ENST00000552497,;CAPS2,intron_variant,,ENST00000551829,;GLIPR1L1,intron_variant,,ENST00000547144,;CAPS2,intron_variant,,ENST00000548958,;CAPS2,intron_variant,,ENST00000486196,;CAPS2,intron_variant,,ENST00000547320,;GLIPR1L1,intron_variant,,ENST00000548623,;CAPS2,intron_variant,,ENST00000328705,NM_001286548.1;CAPS2,intron_variant,,ENST00000336815,NM_001286549.1;"	"C"	"ENSG00000173401"	"ENST00000312442"	"Transcript"	"intron_variant"	"-/1132"	"-/702"	"-/233"	""	""	""	"1"	NA	1	"GLIPR1L1"	"HGNC"	28392	"protein_coding"	"YES"	"CCDS9009.1"	"ENSP00000310770"	"Q6UWM5"	""	"UPI00000721B3"	"NM_152779.2"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"74511f76-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103092783505155	"WGS"	FALSE
"6015"	"GLIPR1L2"	144321	"mskcc.org"	"GRCh37"	"12"	75810910	75810910	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.584+3429C>A"	""	""	"ENST00000550916"	""	106	"77"	29	74	"74"	0	"GLIPR1L2,intron_variant,,ENST00000550916,NM_001270396.1;GLIPR1L2,intron_variant,,ENST00000378692,;GLIPR1L2,intron_variant,,ENST00000320460,NM_152436.2;GLIPR1L2,intron_variant,,ENST00000435775,;GLIPR1L2,intron_variant,,ENST00000441218,;GLIPR1L2,intron_variant,,ENST00000547164,;"	"A"	"ENSG00000180481"	"ENST00000550916"	"Transcript"	"intron_variant"	"-/2609"	"-/1035"	"-/344"	""	""	""	"1"	NA	1	"GLIPR1L2"	"HGNC"	28592	"protein_coding"	"YES"	"CCDS58258.1"	"ENSP00000448248"	"Q4G1C9"	""	"UPI00001408B2"	"NM_001270396.1"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"745126ec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273584905660377	"WGS"	FALSE
"6016"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	80354958	80354958	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"84"	6	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7452a594-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"6017"	"PPFIA2"	8499	"mskcc.org"	"GRCh37"	"12"	81696353	81696353	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2643-3192A>T"	""	""	"ENST00000549396"	""	138	"99"	39	62	"62"	0	"PPFIA2,intron_variant,,ENST00000550584,NM_001220473.1;PPFIA2,intron_variant,,ENST00000549396,NM_003625.3,NM_001220476.1,NM_001282536.1;PPFIA2,intron_variant,,ENST00000549325,NM_001220474.1;PPFIA2,intron_variant,,ENST00000548586,;PPFIA2,intron_variant,,ENST00000552948,NM_001220475.1;PPFIA2,intron_variant,,ENST00000407050,NM_001220477.1;PPFIA2,intron_variant,,ENST00000550359,;PPFIA2,intron_variant,,ENST00000443686,NM_001220478.1;PPFIA2,intron_variant,,ENST00000333447,;PPFIA2,intron_variant,,ENST00000541570,NM_001220479.1;PPFIA2,intron_variant,,ENST00000541017,NM_001220480.1;PPFIA2,intron_variant,,ENST00000551147,;PPFIA2,intron_variant,,ENST00000550018,;RP11-121G22.3,intron_variant,,ENST00000549161,;RP11-121G22.3,intron_variant,,ENST00000552534,;RP11-121G22.3,intron_variant,,ENST00000553197,;RP11-121G22.3,intron_variant,,ENST00000551401,;RP11-121G22.3,intron_variant,,ENST00000550302,;RP11-121G22.3,intron_variant,,ENST00000547762,;RP11-121G22.3,downstream_gene_variant,,ENST00000550938,;RP11-121G22.3,downstream_gene_variant,,ENST00000550999,;RP11-121G22.3,downstream_gene_variant,,ENST00000550138,;PPFIA2,intron_variant,,ENST00000545296,;PPFIA2,intron_variant,,ENST00000551461,;PPFIA2,upstream_gene_variant,,ENST00000547180,;"	"A"	"ENSG00000139220"	"ENST00000549396"	"Transcript"	"intron_variant"	"-/5363"	"-/3774"	"-/1257"	""	""	""	"1"	NA	-1	"PPFIA2"	"HGNC"	9246	"protein_coding"	"YES"	"CCDS55857.1"	"ENSP00000450337"	"O75334"	"H0YHK3,F8W1Y8,F8VU88"	"UPI0000168655"	"NM_003625.3,NM_001220476.1,NM_001282536.1"	""	""	""	"22/32"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"74532370-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282608695652174	"WGS"	FALSE
"6018"	"CCDC59"	29080	"mskcc.org"	"GRCh37"	"12"	82692551	82692551	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.529+9479A>G"	""	""	"ENST00000552377"	""	99	"70"	29	61	"61"	0	"CCDC59,intron_variant,,ENST00000552377,;"	"C"	"ENSG00000133773"	"ENST00000552377"	"Transcript"	"intron_variant"	"-/563"	"-/543"	"-/181"	""	""	""	"1"	NA	-1	"CCDC59"	"HGNC"	25005	"protein_coding"	""	""	"ENSP00000450183"	""	"F8VNY5"	"UPI00020CE415"	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"74534cf6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292929292929293	"WGS"	FALSE
"6019"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	83635372	83635372	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"64"	29	66	"66"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"74539e72-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311827956989247	"WGS"	FALSE
"6020"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	84431151	84431151	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"88"	33	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7453d374-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"6021"	"LRRIQ1"	84125	"mskcc.org"	"GRCh37"	"12"	85636469	85636469	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5017-2098T>G"	""	""	"ENST00000393217"	""	116	"75"	41	60	"60"	0	"LRRIQ1,intron_variant,,ENST00000393217,NM_001079910.1;LRRIQ1,intron_variant,,ENST00000528777,;"	"G"	"ENSG00000133640"	"ENST00000393217"	"Transcript"	"intron_variant"	"-/5394"	"-/5169"	"-/1722"	""	""	""	"1"	NA	1	"LRRIQ1"	"HGNC"	25708	"protein_coding"	"YES"	"CCDS41816.1"	"ENSP00000376910"	"Q96JM4"	"A8MY60"	"UPI0000ED4E82"	"NM_001079910.1"	""	""	""	"26/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"74541f64-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.353448275862069	"WGS"	FALSE
"6022"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	87330168	87330168	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"78"	18	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"7454734c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"6023"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	87457908	87457908	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"55"	33	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"74547b12-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WGS"	FALSE
"6024"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	88781303	88781303	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"79"	39	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"7454c392-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330508474576271	"WGS"	FALSE
"6025"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	90911871	90911871	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"63"	30	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"74559e7a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32258064516129	"WGS"	FALSE
"6026"	"C12orf79"	256021	"mskcc.org"	"GRCh37"	"12"	92473266	92473266	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-127+63117G>T"	""	""	"ENST00000549802"	""	90	"66"	24	57	"57"	0	"C12orf79,intron_variant,,ENST00000549802,NM_001256373.1;C12orf79,intron_variant,,ENST00000551563,NM_001256375.1;C12orf79,intron_variant,,ENST00000546975,NM_001256374.1;C12orf79,intron_variant,,ENST00000552277,;C12orf79,intron_variant,,ENST00000551843,;C12orf79,intron_variant,,ENST00000552106,;C12orf79,intron_variant,,ENST00000553207,;"	"A"	"ENSG00000257242"	"ENST00000549802"	"Transcript"	"intron_variant"	"-/2169"	"-/348"	"-/115"	""	""	""	"1"	NA	-1	"C12orf79"	"HGNC"	27409	"protein_coding"	"YES"	"CCDS58262.1"	"ENSP00000450062"	"G3V211"	""	"UPI00001608FA"	"NM_001256373.1"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7456039c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"6027"	"CRADD"	8738	"mskcc.org"	"GRCh37"	"12"	94278847	94278847	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.299-8979T>A"	""	""	"ENST00000548483"	""	85	"66"	19	46	"46"	0	"CRADD,intron_variant,,ENST00000548483,;CRADD,intron_variant,,ENST00000541813,;CRADD,intron_variant,,ENST00000551065,;"	"A"	"ENSG00000169372"	"ENST00000548483"	"Transcript"	"intron_variant"	"-/1056"	"-/366"	"-/121"	""	""	""	"1"	NA	1	"CRADD"	"HGNC"	2340	"protein_coding"	""	""	"ENSP00000448685"	""	"F5H7C2"	"UPI00020655DE"	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"7456bdc8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223529411764706	"WGS"	FALSE
"6028"	"ANKS1B"	56899	"mskcc.org"	"GRCh37"	"12"	99642840	99642840	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1757-2198T>A"	""	""	"ENST00000547776"	""	109	"76"	33	59	"59"	0	"ANKS1B,intron_variant,,ENST00000547776,NM_152788.4;ANKS1B,intron_variant,,ENST00000329257,;ANKS1B,intron_variant,,ENST00000547010,;ANKS1B,intron_variant,,ENST00000549866,;ANKS1B,upstream_gene_variant,,ENST00000550778,;ANKS1B,intron_variant,,ENST00000550833,;ANKS1B,intron_variant,,ENST00000546631,;ANKS1B,intron_variant,,ENST00000550157,;"	"T"	"ENSG00000185046"	"ENST00000547776"	"Transcript"	"intron_variant"	"-/3885"	"-/3747"	"-/1248"	""	""	""	"1"	NA	-1	"ANKS1B"	"HGNC"	24600	"protein_coding"	"YES"	"CCDS55872.1"	"ENSP00000449629"	"Q7Z6G8"	"R4GN73,R4GN70,R4GN07"	"UPI00003FE521"	"NM_152788.4"	""	""	""	"12/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"7458e422-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302752293577982	"WGS"	FALSE
"6029"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	100832577	100832577	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"43"	4	40	"40"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"74594ba6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"6030"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	103408687	103408687	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"84"	24	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"745a4e34-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"6031"	"STAB2"	55576	"mskcc.org"	"GRCh37"	"12"	104045341	104045341	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1257+985C>G"	""	""	"ENST00000388887"	""	103	"60"	43	57	"57"	0	"STAB2,intron_variant,,ENST00000388887,NM_017564.9;RP11-341G23.2,downstream_gene_variant,,ENST00000551905,;"	"G"	"ENSG00000136011"	"ENST00000388887"	"Transcript"	"intron_variant"	"-/8251"	"-/7656"	"-/2551"	""	""	""	"1"	NA	1	"STAB2"	"HGNC"	18629	"protein_coding"	"YES"	"CCDS31888.1"	"ENSP00000373539"	"Q8WWQ8"	"H0YIF3"	"UPI00001ADDF4"	"NM_017564.9"	""	""	""	"11/68"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"745a73be-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.41747572815534	"WGS"	FALSE
"6032"	"CHST11"	50515	"mskcc.org"	"GRCh37"	"12"	104966779	104966779	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.119-28905G>C"	""	""	"ENST00000303694"	""	100	"80"	20	58	"58"	0	"CHST11,intron_variant,,ENST00000303694,NM_018413.5;CHST11,intron_variant,,ENST00000549260,NM_001173982.1;CHST11,intron_variant,,ENST00000547956,;CHST11,intron_variant,,ENST00000546689,;"	"C"	"ENSG00000171310"	"ENST00000303694"	"Transcript"	"intron_variant"	"-/5709"	"-/1059"	"-/352"	""	""	""	"1"	NA	1	"CHST11"	"HGNC"	17422	"protein_coding"	"YES"	"CCDS9099.1"	"ENSP00000305725"	"Q9NPF2"	"F8VXK3"	"UPI000004A091"	"NM_018413.5"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"745ad192-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"6033"	"SLC41A2"	84102	"mskcc.org"	"GRCh37"	"12"	105276699	105276699	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1027+3372G>T"	""	""	"ENST00000258538"	""	94	"68"	26	61	"61"	0	"SLC41A2,intron_variant,,ENST00000258538,NM_032148.3;"	"A"	"ENSG00000136052"	"ENST00000258538"	"Transcript"	"intron_variant"	"-/4449"	"-/1722"	"-/573"	""	""	""	"1"	NA	-1	"SLC41A2"	"HGNC"	31045	"protein_coding"	"YES"	"CCDS9100.2"	"ENSP00000258538"	"Q96JW4"	"C9JYJ7,C9JKF2,C9JIL4,C9JDQ2,C9JCR2,C9JA64"	"UPI00001FB431"	"NM_032148.3"	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"745ae042-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276595744680851	"WGS"	FALSE
"6034"	"CRY1"	1407	"mskcc.org"	"GRCh37"	"12"	107381512	107381512	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000008527"	""	104	"74"	30	62	"62"	0	"CRY1,downstream_gene_variant,,ENST00000008527,NM_004075.4;MTERFD3,upstream_gene_variant,,ENST00000552029,;MTERFD3,upstream_gene_variant,,ENST00000240050,NM_001033050.2;MTERFD3,upstream_gene_variant,,ENST00000392830,NM_025198.4;MTERFD3,upstream_gene_variant,,ENST00000548101,;CRY1,downstream_gene_variant,,ENST00000549356,;MTERFD3,upstream_gene_variant,,ENST00000550736,;MTERFD3,upstream_gene_variant,,ENST00000550496,;MTERFD3,upstream_gene_variant,,ENST00000547115,;CRY1,downstream_gene_variant,,ENST00000552790,;"	"T"	"ENSG00000008405"	"ENST00000008527"	"Transcript"	"downstream_gene_variant"	"-/3267"	"-/1761"	"-/586"	""	""	""	"1"	"3630"	-1	"CRY1"	"HGNC"	2384	"protein_coding"	"YES"	"CCDS9112.1"	"ENSP00000008527"	"Q16526"	"H0YHT0,A2I2P0"	"UPI0000073E80"	"NM_004075.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"745b78f4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288461538461538	"WGS"	FALSE
"6035"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"12"	109133207	109133207	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000363190"	""	95	"71"	24	45	"45"	0	"Y_RNA,downstream_gene_variant,,ENST00000363190,;"	"A"	"ENSG00000200060"	"ENST00000363190"	"Transcript"	"downstream_gene_variant"	"-/121"	""	""	""	""	""	"1"	"827"	1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"745c1c32-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"6036"	"ACACB"	32	"mskcc.org"	"GRCh37"	"12"	109588271	109588271	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.653+10408A>T"	""	""	"ENST00000338432"	""	96	"68"	28	59	"59"	0	"ACACB,intron_variant,,ENST00000338432,;ACACB,intron_variant,,ENST00000377848,NM_001093.3;ACACB,intron_variant,,ENST00000377854,;ACACB,upstream_gene_variant,,ENST00000544726,;ACACB,intron_variant,,ENST00000546328,;"	"T"	"ENSG00000076555"	"ENST00000338432"	"Transcript"	"intron_variant"	"-/9360"	"-/7377"	"-/2458"	""	""	""	"1"	NA	1	"ACACB"	"HGNC"	85	"protein_coding"	"YES"	"CCDS31898.1"	"ENSP00000341044"	"O00763"	"F5H5C3,E9PEW7"	"UPI0000DBEEFB"	""	""	""	""	"2/52"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"745c5512-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WGS"	FALSE
"6037"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	110055057	110055057	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"51"	38	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"745c7f4c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.426966292134831	"WGS"	FALSE
"6038"	"GLTP"	51228	"mskcc.org"	"GRCh37"	"12"	110310241	110310241	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103+7836G>A"	""	""	"ENST00000318348"	""	90	"69"	21	56	"56"	0	"GLTP,intron_variant,,ENST00000318348,NM_016433.3;GLTP,intron_variant,,ENST00000544393,;GLTP,intron_variant,,ENST00000540772,;GLTP,intron_variant,,ENST00000537066,;GLTP,intron_variant,,ENST00000536390,;"	"T"	"ENSG00000139433"	"ENST00000318348"	"Transcript"	"intron_variant"	"-/2356"	"-/630"	"-/209"	""	""	""	"1"	NA	-1	"GLTP"	"HGNC"	24867	"protein_coding"	"YES"	"CCDS9136.1"	"ENSP00000315263"	"Q9NZD2"	"E7CEM8"	"UPI00001402D4"	"NM_016433.3"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"745cdde8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WGS"	FALSE
"6039"	"IQCD"	115811	"mskcc.org"	"GRCh37"	"12"	113642946	113642946	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.729+2297A>G"	""	""	"ENST00000299732"	""	82	"67"	15	41	"41"	0	"IQCD,intron_variant,,ENST00000546692,;IQCD,intron_variant,,ENST00000416617,;IQCD,intron_variant,,ENST00000299732,NM_138451.1;"	"C"	"ENSG00000166578"	"ENST00000299732"	"Transcript"	"intron_variant"	"-/1369"	"-/1044"	"-/347"	""	""	""	"1"	NA	-1	"IQCD"	"HGNC"	25168	"protein_coding"	"YES"	"CCDS9167.1"	"ENSP00000299732"	"Q96DY2"	""	"UPI00000713D8"	"NM_138451.1"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"745eba5a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182926829268293	"WGS"	FALSE
"6040"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	114934552	114934552	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"66"	36	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"745f4100-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WGS"	FALSE
"6041"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	115053657	115053657	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"70"	8	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"745f5262-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"6042"	"RP11-116D17.2"	0	"mskcc.org"	"GRCh37"	"12"	115696659	115696659	"+"	"5'Flank"	"SNP"	"T"	"C"	"C"	"rs377248346"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000546696"	""	92	"68"	24	49	"49"	0	"RP11-116D17.2,upstream_gene_variant,,ENST00000546696,;"	"C"	"ENSG00000257519"	"ENST00000546696"	"Transcript"	"upstream_gene_variant"	"-/553"	""	""	""	""	"rs377248346"	"1"	"4316"	1	"RP11-116D17.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"C:0.0004"	"C:0.0008"	"C:0.0014"	NA	"C:0"	"C:0"	"C:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"745fa58c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"6043"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	116180512	116180512	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"66"	25	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"745fd02a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274725274725275	"WGS"	FALSE
"6044"	"KSR2"	283455	"mskcc.org"	"GRCh37"	"12"	118169151	118169151	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.986+29665C>A"	""	""	"ENST00000339824"	""	45	"40"	5	13	"13"	0	"KSR2,intron_variant,,ENST00000425217,NM_173598.4;KSR2,intron_variant,,ENST00000339824,;"	"T"	"ENSG00000171435"	"ENST00000339824"	"Transcript"	"intron_variant"	"-/4429"	"-/2853"	"-/950"	""	""	""	"1"	NA	-1	"KSR2"	"HGNC"	18610	"protein_coding"	"YES"	""	"ENSP00000339952"	"Q6VAB6"	"E9PB13"	"UPI000152636C"	""	""	""	""	"4/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"7460c53e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"6045"	"RP1-166H1.2"	0	"mskcc.org"	"GRCh37"	"12"	120833431	120833431	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.226-227A>T"	""	""	"ENST00000536933"	""	85	"61"	24	47	"47"	0	"RP1-166H1.2,intron_variant,,ENST00000536933,;"	"T"	"ENSG00000256695"	"ENST00000536933"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/365"	""	""	""	""	""	"1"	NA	1	"RP1-166H1.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"7462453a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282352941176471	"WGS"	FALSE
"6046"	"KDM2B"	84678	"mskcc.org"	"GRCh37"	"12"	121880885	121880885	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2566-52A>C"	""	""	"ENST00000377071"	""	69	"63"	6	36	"36"	0	"KDM2B,intron_variant,,ENST00000377069,NM_001005366.1;KDM2B,intron_variant,,ENST00000377071,NM_032590.4;KDM2B,intron_variant,,ENST00000542973,;KDM2B,intron_variant,,ENST00000536437,;KDM2B,non_coding_transcript_exon_variant,,ENST00000538503,;KDM2B,intron_variant,,ENST00000543025,;KDM2B,downstream_gene_variant,,ENST00000538243,;KDM2B,upstream_gene_variant,,ENST00000536036,;"	"G"	"ENSG00000089094"	"ENST00000377071"	"Transcript"	"intron_variant"	"-/4595"	"-/4011"	"-/1336"	""	""	""	"1"	NA	-1	"KDM2B"	"HGNC"	13610	"protein_coding"	"YES"	"CCDS41850.1"	"ENSP00000366271"	"Q8NHM5"	"F5H7T7,F5H6N6,F5H4A7,F5GXC2"	"UPI000006F36E"	"NM_032590.4"	""	""	""	"17/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"7462e530-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.0869565217391304	"WGS"	FALSE
"6047"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	122925720	122925720	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"80"	6	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"74638ae4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"6048"	"ABCB9"	23457	"mskcc.org"	"GRCh37"	"12"	123443508	123443508	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.601+674G>A"	""	""	"ENST00000542678"	""	59	"38"	21	45	"45"	0	"ABCB9,intron_variant,,ENST00000542678,;ABCB9,intron_variant,,ENST00000442028,;ABCB9,intron_variant,,ENST00000392439,;ABCB9,intron_variant,,ENST00000280560,NM_019625.3;ABCB9,intron_variant,,ENST00000346530,NM_019624.3;ABCB9,intron_variant,,ENST00000540285,NM_001243013.1;ABCB9,intron_variant,,ENST00000442833,NM_203444.3;ABCB9,intron_variant,,ENST00000344275,NM_001243014.1;ABCB9,downstream_gene_variant,,ENST00000543935,;ABCB9,intron_variant,,ENST00000537276,;ABCB9,intron_variant,,ENST00000538895,;ABCB9,intron_variant,,ENST00000426173,;"	"T"	"ENSG00000150967"	"ENST00000542678"	"Transcript"	"intron_variant"	"-/6051"	"-/2301"	"-/766"	""	""	""	"1"	NA	-1	"ABCB9"	"HGNC"	50	"protein_coding"	"YES"	"CCDS9241.1"	"ENSP00000440288"	"Q9NP78"	"Q8NCH1,F5H5I5,F5GYI2,F5GXZ5,F5GX86"	"UPI00000433FE"	""	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7463c5ae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355932203389831	"WGS"	FALSE
"6049"	"RP4-800O15.3"	0	"mskcc.org"	"GRCh37"	"12"	126383282	126383282	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"rs755793763"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000604518"	""	94	"67"	27	57	"57"	0	"RP4-800O15.3,downstream_gene_variant,,ENST00000604518,;"	"T"	"ENSG00000271184"	"ENST00000604518"	"Transcript"	"downstream_gene_variant"	"-/1063"	""	""	""	""	"rs755793763"	"1"	"1685"	-1	"RP4-800O15.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"7465f43c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287234042553192	"WGS"	FALSE
"6050"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	126531424	126531424	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"105"	7	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"74660044-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"6051"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	126737612	126737612	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"70"	26	61	"61"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"74661ba6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270833333333333	"WGS"	FALSE
"6052"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	127017366	127017366	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"57"	28	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"746639e2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329411764705882	"WGS"	FALSE
"6053"	"RP11-749H20.1"	0	"mskcc.org"	"GRCh37"	"12"	128306391	128306391	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000541797"	""	110	"77"	33	47	"47"	0	"RP11-749H20.1,upstream_gene_variant,,ENST00000541797,;"	"A"	"ENSG00000256922"	"ENST00000541797"	"Transcript"	"upstream_gene_variant"	"-/462"	""	""	""	""	""	"1"	"663"	-1	"RP11-749H20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7466da64-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"6054"	"LINC00507"	100862680	"mskcc.org"	"GRCh37"	"12"	128416592	128416592	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.242-12671A>C"	""	""	"ENST00000540882"	""	92	"68"	24	63	"63"	0	"LINC00507,intron_variant,,ENST00000540882,;LINC00507,intron_variant,,ENST00000542089,;LINC00507,intron_variant,,ENST00000544645,;"	"C"	"ENSG00000256193"	"ENST00000540882"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1935"	""	""	""	""	""	"1"	NA	1	"LINC00507"	"HGNC"	43558	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"7466f940-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"6055"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	128456446	128456446	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"71"	33	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"7466fd6e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317307692307692	"WGS"	FALSE
"6056"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	128643704	128643704	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"84"	22	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"74671c0e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207547169811321	"WGS"	FALSE
"6057"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	130540736	130540736	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"40"	17	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"7468f8ee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298245614035088	"WGS"	FALSE
"6058"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"12"	131387015	131387015	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384123"	""	67	"44"	23	49	"49"	0	"Y_RNA,upstream_gene_variant,,ENST00000384123,;"	"T"	"ENSG00000206850"	"ENST00000384123"	"Transcript"	"upstream_gene_variant"	"-/112"	""	""	""	""	""	"1"	"4368"	1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7469a91a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.343283582089552	"WGS"	FALSE
"6059"	"RP13-507P19.2"	338797	"mskcc.org"	"GRCh37"	"12"	131840571	131840571	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.409+6482C>G"	""	""	"ENST00000428272"	""	86	"60"	26	56	"56"	0	"RP13-507P19.2,intron_variant,,ENST00000428272,;"	"G"	"ENSG00000230294"	"ENST00000428272"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2009"	""	""	""	""	""	"1"	NA	1	"RP13-507P19.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"746a68be-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302325581395349	"WGS"	FALSE
"6060"	"GALNT9"	50614	"mskcc.org"	"GRCh37"	"12"	132813586	132813586	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1077+10877G>C"	""	""	"ENST00000328957"	""	43	"37"	6	19	"19"	0	"GALNT9,intron_variant,,ENST00000328957,NM_001122636.1;GALNT9,intron_variant,,ENST00000411988,;GALNT9,intron_variant,,ENST00000535228,;"	"G"	"ENSG00000182870"	"ENST00000328957"	"Transcript"	"intron_variant"	"-/2410"	"-/1812"	"-/603"	""	""	""	"1"	NA	-1	"GALNT9"	"HGNC"	4131	"protein_coding"	""	""	"ENSP00000329846"	""	"J3KNN1,F5H557,F5H317,B3KP58"	"UPI00004566BE"	"NM_001122636.1"	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"746c35c2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"6061"	"CHFR"	55743	"mskcc.org"	"GRCh37"	"12"	133456015	133456015	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.134-1775C>G"	""	""	"ENST00000432561"	""	71	"66"	5	35	"35"	0	"CHFR,intron_variant,,ENST00000266880,;CHFR,intron_variant,,ENST00000450056,NM_001161345.1,NM_001161346.1,NM_001161344.1;CHFR,intron_variant,,ENST00000315585,NM_018223.2;CHFR,intron_variant,,ENST00000443047,NM_001161347.1;CHFR,intron_variant,,ENST00000432561,;CHFR,intron_variant,,ENST00000540537,;CHFR,intron_variant,,ENST00000540963,;CHFR,intron_variant,,ENST00000541817,;CHFR,intron_variant,,ENST00000536932,;CHFR,intron_variant,,ENST00000542714,;CHFR,intron_variant,,ENST00000541837,;CHFR,intron_variant,,ENST00000536196,;CHFR,intron_variant,,ENST00000537551,;CHFR,intron_variant,,ENST00000499045,;CHFR,intron_variant,,ENST00000535181,;"	"C"	"ENSG00000072609"	"ENST00000432561"	"Transcript"	"intron_variant"	"-/2648"	"-/1995"	"-/664"	""	""	""	"1"	NA	-1	"CHFR"	"HGNC"	20455	"protein_coding"	"YES"	"CCDS53849.1"	"ENSP00000392395"	"Q96EP1"	"U3KQ08,F5H829,F5H7R8"	"UPI000006FA02"	""	""	""	""	"2/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"746e6e0a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0704225352112676	"WGS"	FALSE
"6062"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	20152423	20152423	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"78"	27	58	"57"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"746fe118-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257142857142857	"WGS"	FALSE
"6063"	"ZMYM2"	7750	"mskcc.org"	"GRCh37"	"13"	20666013	20666013	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000382869"	""	92	"76"	16	60	"60"	0	"ZMYM2,downstream_gene_variant,,ENST00000382869,NM_001190965.1,NM_003453.3,NM_197968.2;ZMYM2,downstream_gene_variant,,ENST00000382874,NM_001190964.1;"	"A"	"ENSG00000121741"	"ENST00000382869"	"Transcript"	"downstream_gene_variant"	"-/10199"	"-/4134"	"-/1377"	""	""	""	"1"	"45"	1	"ZMYM2"	"HGNC"	12989	"protein_coding"	"YES"	"CCDS45016.1"	"ENSP00000372322"	"Q9UBW7"	""	"UPI000013C318"	"NM_001190965.1,NM_003453.3,NM_197968.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"74703eb0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"6064"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	23131563	23131563	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"94"	6	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7471546c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.06	"WGS"	FALSE
"6065"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	25196136	25196136	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"71"	11	39	"39"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"74722a22-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134146341463415	"WGS"	FALSE
"6066"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	28386218	28386218	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"70"	23	53	"53"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"74739ca4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247311827956989	"WGS"	FALSE
"6067"	"CCDC169-SOHLH2"	100526761	"mskcc.org"	"GRCh37"	"13"	36817385	36817385	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.245+5358A>G"	""	""	"ENST00000511166"	""	82	"75"	7	53	"53"	0	"CCDC169-SOHLH2,intron_variant,,ENST00000511166,NM_001198910.1;SOHLH2,intron_variant,,ENST00000554962,;CCDC169,intron_variant,,ENST00000510088,NM_001144981.2,NM_001144985.2,NM_001144986.2;CCDC169,intron_variant,,ENST00000503173,NM_001198908.1;CCDC169,intron_variant,,ENST00000379864,NM_001144982.2,NM_001144983.2;CCDC169,intron_variant,,ENST00000491049,;CCDC169,intron_variant,,ENST00000239860,NM_001144984.2;CCDC169,intron_variant,,ENST00000239859,;CCDC169,intron_variant,,ENST00000379862,;CCDC169,intron_variant,,ENST00000479850,;CCDC169,intron_variant,,ENST00000506800,;"	"C"	"ENSG00000250709"	"ENST00000511166"	"Transcript"	"intron_variant"	"-/2051"	"-/1509"	"-/502"	""	""	""	"1"	NA	-1	"CCDC169-SOHLH2"	"HGNC"	38866	"protein_coding"	"YES"	"CCDS55896.1"	"ENSP00000421868"	""	""	"UPI00017A803A"	"NM_001198910.1"	""	""	""	"5/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"7476b600-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"6068"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	37409295	37409295	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"58"	38	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"7476df9a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.395833333333333	"WGS"	FALSE
"6069"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	37973842	37973842	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"77"	27	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"747704a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259615384615385	"WGS"	FALSE
"6070"	"LHFP"	10186	"mskcc.org"	"GRCh37"	"13"	40076568	40076568	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.385+98401T>G"	""	""	"ENST00000379589"	""	96	"91"	5	49	"49"	0	"LHFP,intron_variant,,ENST00000379589,NM_005780.2;"	"C"	"ENSG00000183722"	"ENST00000379589"	"Transcript"	"intron_variant"	"-/2110"	"-/603"	"-/200"	""	""	""	"1"	NA	-1	"LHFP"	"HGNC"	6586	"protein_coding"	"YES"	"CCDS9369.1"	"ENSP00000368908"	"Q9Y693"	""	"UPI000006D140"	"NM_005780.2"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"7477903e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0520833333333333	"WGS"	TRUE
"6071"	"DGKH"	160851	"mskcc.org"	"GRCh37"	"13"	42757044	42757044	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1539-4141T>A"	""	""	"ENST00000337343"	""	93	"87"	6	67	"67"	0	"DGKH,intron_variant,,ENST00000261491,NM_152910.4;DGKH,intron_variant,,ENST00000379274,;DGKH,intron_variant,,ENST00000337343,NM_178009.3;DGKH,intron_variant,,ENST00000540693,NM_001204504.1;DGKH,intron_variant,,ENST00000536612,NM_001204506.1,NM_001204505.1;DGKH,intron_variant,,ENST00000538674,;DGKH,intron_variant,,ENST00000498255,;CHCHD2P11,upstream_gene_variant,,ENST00000604283,;"	"A"	"ENSG00000102780"	"ENST00000337343"	"Transcript"	"intron_variant"	"-/4246"	"-/3663"	"-/1220"	""	""	""	"1"	NA	1	"DGKH"	"HGNC"	2854	"protein_coding"	"YES"	"CCDS9381.1"	"ENSP00000337572"	"Q86XP1"	""	"UPI000017DA47"	"NM_178009.3"	""	""	""	"13/29"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"7478ddd6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"6072"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	43699244	43699244	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"rs547342707"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"85"	21	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs547342707"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0024"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.0123"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"74793e0c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19811320754717	"WGS"	FALSE
"6073"	"ENOX1"	55068	"mskcc.org"	"GRCh37"	"13"	43911058	43911058	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1036+7616G>T"	""	""	"ENST00000261488"	""	104	"98"	6	55	"55"	0	"ENOX1,intron_variant,,ENST00000261488,NM_017993.3,NM_001242863.1;ENOX1,intron_variant,,ENST00000412891,NM_001127615.1;ENOX1,intron_variant,,ENST00000540032,;"	"A"	"ENSG00000120658"	"ENST00000261488"	"Transcript"	"intron_variant"	"-/2982"	"-/1932"	"-/643"	""	""	""	"1"	NA	-1	"ENOX1"	"HGNC"	25474	"protein_coding"	"YES"	"CCDS9389.1"	"ENSP00000261488"	"Q8TC92"	""	"UPI0000071D6F"	"NM_017993.3,NM_001242863.1"	""	""	""	"9/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"7479458c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0576923076923077	"WGS"	FALSE
"6074"	"LINC00407"	0	"mskcc.org"	"GRCh37"	"13"	45229562	45229562	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.57+3558T>C"	""	""	"ENST00000426509"	""	98	"92"	6	50	"50"	0	"LINC00407,intron_variant,,ENST00000426509,;"	"C"	"ENSG00000237585"	"ENST00000426509"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/295"	""	""	""	""	""	"1"	NA	1	"LINC00407"	"HGNC"	42739	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"7479b92c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0612244897959184	"WGS"	FALSE
"6075"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	45468936	45468936	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"93"	7	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"7479cdcc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.07	"WGS"	FALSE
"6076"	"RP11-189B4.6"	0	"mskcc.org"	"GRCh37"	"13"	47055520	47055520	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.184+4938G>T"	""	""	"ENST00000598084"	""	115	"71"	44	61	"61"	0	"RP11-189B4.6,intron_variant,,ENST00000598084,;"	"A"	"ENSG00000231817"	"ENST00000598084"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/881"	""	""	""	""	""	"1"	NA	-1	"RP11-189B4.6"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"747a9874-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.382608695652174	"WGS"	FALSE
"6077"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	47845907	47845907	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"81"	30	69	"69"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"747ade7e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27027027027027	"WGS"	FALSE
"6078"	"SUCLA2"	8803	"mskcc.org"	"GRCh37"	"13"	48593512	48593512	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-162-4128C>T"	""	""	"ENST00000543413"	""	92	"85"	7	39	"39"	0	"SUCLA2,intron_variant,,ENST00000543413,;"	"A"	"ENSG00000136143"	"ENST00000543413"	"Transcript"	"intron_variant"	"-/1801"	"-/1218"	"-/405"	""	""	""	"1"	NA	-1	"SUCLA2"	"HGNC"	11448	"protein_coding"	""	""	"ENSP00000441056"	""	"Q9Y4T0,F5H5G8,F5GXC8"	"UPI00001FCD86"	""	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"747b0e12-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"6079"	"RB1"	5925	"mskcc.org"	"GRCh37"	"13"	48940497	48940497	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.940-1133A>T"	""	""	"ENST00000267163"	""	93	"66"	27	59	"59"	0	"RB1,intron_variant,,ENST00000267163,NM_000321.2;RB1,downstream_gene_variant,,ENST00000467505,;"	"T"	"ENSG00000139687"	"ENST00000267163"	"Transcript"	"intron_variant"	"-/4840"	"-/2787"	"-/928"	""	""	""	"1"	NA	1	"RB1"	"HGNC"	9884	"protein_coding"	"YES"	"CCDS31973.1"	"ENSP00000267163"	"P06400"	"Q7KZ61,Q7KZ60,Q6LE82,Q6LE81,Q6LE80,Q6LE79,Q6LE77,Q6LE65,Q6DUF0,P78495,B4DRB3"	"UPI0000001C79"	"NM_000321.2"	""	""	""	"9/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAG"	"747b26cc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290322580645161	"WGS"	TRUE
"6080"	"DLEU7"	220107	"mskcc.org"	"GRCh37"	"13"	51287564	51287564	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.460-188C>T"	""	""	"ENST00000400393"	""	112	"77"	35	44	"44"	0	"DLEU7,intron_variant,,ENST00000400393,NM_198989.2;DLEU7,intron_variant,,ENST00000443723,;DLEU1,intron_variant,,ENST00000470726,;"	"A"	"ENSG00000186047"	"ENST00000400393"	"Transcript"	"intron_variant"	"-/2092"	"-/483"	"-/160"	""	""	""	"1"	NA	-1	"DLEU7"	"HGNC"	17567	"protein_coding"	"YES"	"CCDS53869.1"	"ENSP00000420976"	"Q6UYE1"	""	"UPI0000684279"	"NM_198989.2"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"747c10dc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"6081"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	53732295	53732295	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"78"	37	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"747ccef0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.321739130434783	"WGS"	FALSE
"6082"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	53865816	53865816	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"71"	29	60	"60"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"747cdb98-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29	"WGS"	FALSE
"6083"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	57933444	57933444	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"rs181988495"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"74"	32	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs181988495"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0008"	"A:0"	"A:0.0043"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"747df988-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30188679245283	"WGS"	FALSE
"6084"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	59888371	59888371	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"101"	7	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"747e7fc0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0648148148148148	"WGS"	FALSE
"6085"	"EIF4A1P6"	0	"mskcc.org"	"GRCh37"	"13"	61217100	61217100	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000448133"	""	121	"82"	39	57	"57"	0	"EIF4A1P6,upstream_gene_variant,,ENST00000448133,;"	"A"	"ENSG00000236608"	"ENST00000448133"	"Transcript"	"upstream_gene_variant"	"-/1210"	""	""	""	""	""	"1"	"4869"	-1	"EIF4A1P6"	"HGNC"	37925	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"747eea5a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322314049586777	"WGS"	FALSE
"6086"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	61321123	61321123	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"63"	33	56	"54"	2	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"747ef572-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34375	"WGS"	FALSE
"6087"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	62856460	62856460	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"77"	33	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"747f6278-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"6088"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	63342859	63342859	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"72"	26	57	"56"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"747f7d4e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26530612244898	"WGS"	FALSE
"6089"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	63422802	63422802	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs188910142"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"75"	27	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs188910142"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"747f8384-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264705882352941	"WGS"	FALSE
"6090"	"LINC00376"	0	"mskcc.org"	"GRCh37"	"13"	63782481	63782481	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.79-13817C>T"	""	""	"ENST00000439454"	""	86	"62"	24	66	"66"	0	"LINC00376,intron_variant,,ENST00000439454,;"	"A"	"ENSG00000227564"	"ENST00000439454"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/348"	""	""	""	""	""	"1"	NA	-1	"LINC00376"	"HGNC"	42701	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"747faa4e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27906976744186	"WGS"	FALSE
"6091"	"LINC00395"	100874157	"mskcc.org"	"GRCh37"	"13"	64258129	64258129	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.264-16163C>T"	""	""	"ENST00000451570"	""	92	"64"	28	56	"56"	0	"LINC00395,intron_variant,,ENST00000451570,;LINC00395,intron_variant,,ENST00000444536,;"	"A"	"ENSG00000231061"	"ENST00000451570"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/415"	""	""	""	""	""	"1"	NA	-1	"LINC00395"	"HGNC"	42723	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"747fd370-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WGS"	FALSE
"6092"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	64878382	64878382	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"72"	26	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"74803662-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26530612244898	"WGS"	FALSE
"6093"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	65956650	65956650	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"77"	35	61	"61"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"74809440-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"6094"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	66827817	66827817	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"108"	5	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"7480d39c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0442477876106195	"WGS"	FALSE
"6095"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	68055240	68055240	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	133	"87"	46	71	"71"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"748114f6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.345864661654135	"WGS"	FALSE
"6096"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	70045306	70045306	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"84"	37	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7481a524-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305785123966942	"WGS"	FALSE
"6097"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	70797412	70797412	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"73"	22	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7481dac6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231578947368421	"WGS"	FALSE
"6098"	"LINC00348"	100885781	"mskcc.org"	"GRCh37"	"13"	71712140	71712140	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.109-5178T>C"	""	""	"ENST00000428761"	""	129	"89"	40	61	"61"	0	"LINC00348,intron_variant,,ENST00000428761,;"	"C"	"ENSG00000226846"	"ENST00000428761"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/948"	""	""	""	""	""	"1"	NA	1	"LINC00348"	"HGNC"	42658	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"74822a44-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310077519379845	"WGS"	FALSE
"6099"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	71810441	71810441	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"74"	37	64	"64"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"74823318-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"6100"	"UCHL3"	7347	"mskcc.org"	"GRCh37"	"13"	76143962	76143962	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.474+319T>C"	""	""	"ENST00000377595"	""	100	"69"	31	63	"63"	0	"UCHL3,intron_variant,,ENST00000377595,NM_006002.4,NM_001270952.1;UCHL3,intron_variant,,ENST00000419068,;RP11-29G8.3,intron_variant,,ENST00000563635,;UCHL3,intron_variant,,ENST00000606347,;UCHL3,intron_variant,,ENST00000471792,;RP11-29G8.3,intron_variant,,ENST00000570285,;"	"C"	"ENSG00000118939"	"ENST00000377595"	"Transcript"	"intron_variant"	"-/844"	"-/693"	"-/230"	""	""	""	"1"	NA	1	"UCHL3"	"HGNC"	12515	"protein_coding"	"YES"	"CCDS9453.1"	"ENSP00000366819"	"P15374"	""	"UPI000004D00E"	"NM_006002.4,NM_001270952.1"	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"74842060-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.31	"WGS"	FALSE
"6101"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	76984164	76984164	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"55"	29	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"74847984-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.345238095238095	"WGS"	FALSE
"6102"	"RNF219-AS1"	100874222	"mskcc.org"	"GRCh37"	"13"	79027185	79027185	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.316-125427G>C"	""	""	"ENST00000607862"	""	103	"70"	33	52	"52"	0	"RNF219-AS1,intron_variant,,ENST00000607862,;RNF219-AS1,intron_variant,,ENST00000606429,;RNF219-AS1,intron_variant,,ENST00000605996,;RNF219-AS1,intron_variant,,ENST00000444769,;RNF219-AS1,intron_variant,,ENST00000560209,;RNF219-AS1,intron_variant,,ENST00000607860,;RNF219-AS1,intron_variant,,ENST00000607205,;RNF219-AS1,intron_variant,,ENST00000606124,;RNF219-AS1,intron_variant,,ENST00000606376,;RNF219-AS1,intron_variant,,ENST00000606803,;RNF219-AS1,intron_variant,,ENST00000607220,;RNF219-AS1,intron_variant,,ENST00000430549,;"	"C"	"ENSG00000234377"	"ENST00000607862"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/6001"	""	""	""	""	""	"1"	NA	1	"RNF219-AS1"	"HGNC"	42700	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"748513f8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.320388349514563	"WGS"	FALSE
"6103"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	83097733	83097733	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"69"	41	61	"61"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"74865556-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.372727272727273	"WGS"	FALSE
"6104"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	84982506	84982506	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"78"	39	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7486dddc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"6105"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	85129183	85129183	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs540402361"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"67"	23	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs540402361"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"7486e96c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255555555555556	"WGS"	FALSE
"6106"	"LINC00375"	0	"mskcc.org"	"GRCh37"	"13"	85642062	85642062	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.469+73G>T"	""	""	"ENST00000433074"	""	88	"58"	30	52	"52"	0	"LINC00375,intron_variant,,ENST00000433074,;"	"A"	"ENSG00000226370"	"ENST00000433074"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/601"	""	""	""	""	""	"1"	NA	-1	"LINC00375"	"HGNC"	42699	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"74871022-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340909090909091	"WGS"	FALSE
"6107"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	85864593	85864593	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"72"	17	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"74872198-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191011235955056	"WGS"	FALSE
"6108"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	87284701	87284701	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"69"	27	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"74877f62-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28125	"WGS"	FALSE
"6109"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	88688833	88688833	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"87"	7	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"74882f34-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"6110"	"RP11-545P6.2"	0	"mskcc.org"	"GRCh37"	"13"	88791016	88791016	"+"	"5'Flank"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000430214"	""	103	"66"	37	55	"55"	0	"RP11-545P6.2,upstream_gene_variant,,ENST00000430214,;"	"G"	"ENSG00000231019"	"ENST00000430214"	"Transcript"	"upstream_gene_variant"	"-/561"	""	""	""	""	""	"1"	"4106"	1	"RP11-545P6.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7488381c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.359223300970874	"WGS"	FALSE
"6111"	"ENSR00001642493"	0	"mskcc.org"	"GRCh37"	"13"	91284692	91284692	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001642493"	""	97	"67"	30	61	"61"	0	""	"T"	""	"ENSR00001642493"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"74890fee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309278350515464	"WGS"	FALSE
"6112"	"CLDN10"	9071	"mskcc.org"	"GRCh37"	"13"	96092920	96092920	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.214+6619A>G"	""	""	"ENST00000376873"	""	120	"92"	28	50	"50"	0	"CLDN10,intron_variant,,ENST00000376873,NM_182848.3,NM_001160100.1;"	"G"	"ENSG00000134873"	"ENST00000376873"	"Transcript"	"intron_variant"	"-/2656"	"-/681"	"-/226"	""	""	""	"1"	NA	1	"CLDN10"	"HGNC"	2033	"protein_coding"	""	"CCDS9475.1"	"ENSP00000366069"	"P78369"	"Q5W075"	"UPI0000037786"	"NM_182848.3,NM_001160100.1"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"748aa476-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WGS"	FALSE
"6113"	"HS6ST3"	266722	"mskcc.org"	"GRCh37"	"13"	97223696	97223696	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.708-261048A>G"	""	""	"ENST00000376705"	""	105	"71"	34	64	"64"	0	"HS6ST3,intron_variant,,ENST00000376705,NM_153456.3;AMMECR1LP1,upstream_gene_variant,,ENST00000415152,;"	"G"	"ENSG00000185352"	"ENST00000376705"	"Transcript"	"intron_variant"	"-/1659"	"-/1416"	"-/471"	""	""	""	"1"	NA	1	"HS6ST3"	"HGNC"	19134	"protein_coding"	"YES"	"CCDS9481.1"	"ENSP00000365895"	"Q8IZP7"	"B3KX95"	"UPI00001AF933"	"NM_153456.3"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"748b0132-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323809523809524	"WGS"	FALSE
"6114"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	97584082	97584082	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"61"	19	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"748b179e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2375	"WGS"	FALSE
"6115"	"RP11-295B17.6"	0	"mskcc.org"	"GRCh37"	"13"	99205206	99205206	"+"	"5'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000604953"	""	97	"65"	32	39	"38"	1	"STK24,intron_variant,,ENST00000397517,NM_001032296.2;STK24,intron_variant,,ENST00000539966,NM_001286649.1;STK24,intron_variant,,ENST00000481288,;STK24,intron_variant,,ENST00000491878,;RP11-295B17.6,upstream_gene_variant,,ENST00000604953,;"	"G"	"ENSG00000271437"	"ENST00000604953"	"Transcript"	"upstream_gene_variant"	"-/538"	""	""	""	""	""	"1"	"291"	1	"RP11-295B17.6"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"748b9bec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329896907216495	"WGS"	FALSE
"6116"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	103195882	103195882	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"76"	25	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"748d3c04-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247524752475248	"WGS"	FALSE
"6117"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	103365340	103365340	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"48"	6	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"748d4528-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"6118"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	106002243	106002243	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"69"	31	56	"56"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"748e19c6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.31	"WGS"	FALSE
"6119"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	106764706	106764706	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"59"	21	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"748e517a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2625	"WGS"	FALSE
"6120"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	107725247	107725247	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"65"	34	34	"34"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"748ea774-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.343434343434343	"WGS"	FALSE
"6121"	"FAM155A"	728215	"mskcc.org"	"GRCh37"	"13"	107940895	107940895	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.916-77792A>G"	""	""	"ENST00000375915"	""	50	"45"	5	39	"39"	0	"FAM155A,intron_variant,,ENST00000375915,NM_001080396.2;"	"C"	"ENSG00000204442"	"ENST00000375915"	"Transcript"	"intron_variant"	"-/3478"	"-/1377"	"-/458"	""	""	""	"1"	NA	-1	"FAM155A"	"HGNC"	33877	"protein_coding"	"YES"	"CCDS32006.1"	"ENSP00000365080"	"B1AL88"	""	"UPI000045882C"	"NM_001080396.2"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"748eb6e2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"6122"	"FAM155A"	728215	"mskcc.org"	"GRCh37"	"13"	108438950	108438950	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.915+79080C>G"	""	""	"ENST00000375915"	""	79	"72"	7	37	"37"	0	"FAM155A,intron_variant,,ENST00000375915,NM_001080396.2;FAM155A-IT1,downstream_gene_variant,,ENST00000449551,;"	"C"	"ENSG00000204442"	"ENST00000375915"	"Transcript"	"intron_variant"	"-/3478"	"-/1377"	"-/458"	""	""	""	"1"	NA	-1	"FAM155A"	"HGNC"	33877	"protein_coding"	"YES"	"CCDS32006.1"	"ENSP00000365080"	"B1AL88"	""	"UPI000045882C"	"NM_001080396.2"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"748edd2a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"6123"	"PARP1P1"	0	"mskcc.org"	"GRCh37"	"13"	111584867	111584867	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000413631"	""	117	"110"	7	56	"56"	0	"PARP1P1,upstream_gene_variant,,ENST00000413631,;"	"T"	"ENSG00000227105"	"ENST00000413631"	"Transcript"	"upstream_gene_variant"	"-/3026"	""	""	""	""	""	"1"	"4239"	1	"PARP1P1"	"HGNC"	275	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"74902540-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0598290598290598	"WGS"	FALSE
"6124"	"RP11-65D24.2"	0	"mskcc.org"	"GRCh37"	"13"	112258830	112258830	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10+18139C>T"	""	""	"ENST00000375713"	""	76	"53"	23	64	"64"	0	"RP11-65D24.2,intron_variant,,ENST00000375713,;RP11-65D24.1,intron_variant,,ENST00000401043,;"	"T"	"ENSG00000204398"	"ENST00000375713"	"Transcript"	"intron_variant"	"-/443"	"-/198"	"-/65"	""	""	""	"1"	NA	1	"RP11-65D24.2"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000364865"	""	"Q5T400"	"UPI000046FFA7"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7490c130-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302631578947368	"WGS"	FALSE
"6125"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	112752418	112752418	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"62"	29	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"749116bc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318681318681319	"WGS"	FALSE
"6126"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	112961597	112961597	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"20"	6	8	"8"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"749253a6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"6127"	"OR4K5"	79317	"mskcc.org"	"GRCh37"	"14"	20385509	20385509	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000315915"	""	128	"102"	26	69	"69"	0	"OR4K5,upstream_gene_variant,,ENST00000315915,NM_001005483.1;"	"T"	"ENSG00000176281"	"ENST00000315915"	"Transcript"	"upstream_gene_variant"	"-/1078"	"-/972"	"-/323"	""	""	""	"1"	"3232"	1	"OR4K5"	"HGNC"	14745	"protein_coding"	"YES"	"CCDS32024.1"	"ENSP00000319511"	"Q8NGD3"	""	"UPI0000061E9E"	"NM_001005483.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"749c40b4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203125	"WGS"	FALSE
"6128"	"RP11-219E7.4"	0	"mskcc.org"	"GRCh37"	"14"	21377480	21377480	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.155-11140C>T"	""	""	"ENST00000553534"	""	75	"54"	21	55	"55"	0	"RP11-219E7.4,intron_variant,,ENST00000553534,;"	"A"	"ENSG00000258918"	"ENST00000553534"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/351"	""	""	""	""	""	"1"	NA	-1	"RP11-219E7.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"749c9f32-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"6129"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	21750496	21750496	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"57"	5	42	"42"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"749ccb4c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WGS"	FALSE
"6130"	"OR10G2"	26534	"mskcc.org"	"GRCh37"	"14"	22105321	22105321	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000542433"	""	55	"49"	6	28	"28"	0	"OR10G2,upstream_gene_variant,,ENST00000542433,NM_001005466.1;"	"G"	"ENSG00000255582"	"ENST00000542433"	"Transcript"	"upstream_gene_variant"	"-/1105"	"-/933"	"-/310"	""	""	""	"1"	"2225"	-1	"OR10G2"	"HGNC"	8170	"protein_coding"	"YES"	"CCDS32047.1"	"ENSP00000445383"	"Q8NGC3"	""	"UPI0000041E5C"	"NM_001005466.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"749cf69e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109090909090909	"WGS"	FALSE
"6131"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	22724550	22724550	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"64"	5	52	"52"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"749d2966-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072463768115942	"WGS"	FALSE
"6132"	"NOVA1-AS1"	0	"mskcc.org"	"GRCh37"	"14"	27177933	27177933	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.94-22337C>T"	""	""	"ENST00000552826"	""	112	"73"	39	58	"58"	0	"NOVA1-AS1,intron_variant,,ENST00000552826,;"	"T"	"ENSG00000257842"	"ENST00000552826"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/449"	""	""	""	""	""	"1"	NA	1	"NOVA1-AS1"	"HGNC"	19827	"antisense"	""	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"749ec974-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.348214285714286	"WGS"	FALSE
"6133"	"PRKD1"	5587	"mskcc.org"	"GRCh37"	"14"	30318145	30318145	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.264+78310G>A"	""	""	"ENST00000331968"	""	106	"72"	34	56	"56"	0	"PRKD1,intron_variant,,ENST00000331968,NM_002742.2;PRKD1,intron_variant,,ENST00000415220,;PRKD1,intron_variant,,ENST00000549503,;"	"T"	"ENSG00000184304"	"ENST00000331968"	"Transcript"	"intron_variant"	"-/3726"	"-/2739"	"-/912"	""	""	""	"1"	NA	-1	"PRKD1"	"HGNC"	9407	"protein_coding"	"YES"	"CCDS9637.1"	"ENSP00000333568"	"Q15139"	"Q1KKQ2"	"UPI0000456761"	"NM_002742.2"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"749fd42c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.320754716981132	"WGS"	FALSE
"6134"	"AP4S1"	11154	"mskcc.org"	"GRCh37"	"14"	31508660	31508660	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-72+13667A>G"	""	""	"ENST00000216366"	""	90	"83"	7	37	"37"	0	"AP4S1,intron_variant,,ENST00000216366,NM_007077.4;AP4S1,intron_variant,,ENST00000554345,NM_001254726.1;AP4S1,intron_variant,,ENST00000542754,NM_001128126.2,NM_001254728.1;AP4S1,intron_variant,,ENST00000334725,NM_001254727.1;AP4S1,intron_variant,,ENST00000554609,;AP4S1,intron_variant,,ENST00000313566,;AP4S1,intron_variant,,ENST00000555417,;AP4S1,intron_variant,,ENST00000557346,NM_001254729.1;AP4S1,intron_variant,,ENST00000556232,;"	"G"	"ENSG00000100478"	"ENST00000216366"	"Transcript"	"intron_variant"	"-/2256"	"-/480"	"-/159"	""	""	""	"1"	NA	1	"AP4S1"	"HGNC"	575	"protein_coding"	"YES"	"CCDS9642.1"	"ENSP00000216366"	"Q9Y587"	"G3V4P7"	"UPI000007194F"	"NM_007077.4"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"74a02de6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0777777777777778	"WGS"	FALSE
"6135"	"NUBPL"	80224	"mskcc.org"	"GRCh37"	"14"	32306201	32306201	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.694-9476A>C"	""	""	"ENST00000281081"	""	96	"62"	34	59	"59"	0	"NUBPL,intron_variant,,ENST00000281081,NM_025152.2,NM_001201574.1,NM_001201573.1;NUBPL,intron_variant,,ENST00000536705,;NUBPL,intron_variant,,ENST00000550649,;NUBPL,intron_variant,,ENST00000418681,;NUBPL,intron_variant,,ENST00000551015,;NUBPL,intron_variant,,ENST00000547839,;"	"C"	"ENSG00000151413"	"ENST00000281081"	"Transcript"	"intron_variant"	"-/3049"	"-/960"	"-/319"	""	""	""	"1"	NA	1	"NUBPL"	"HGNC"	20278	"protein_coding"	"YES"	"CCDS41940.1"	"ENSP00000281081"	"Q8TB37"	"F8W061,B3KSK2"	"UPI00003669AB"	"NM_025152.2,NM_001201574.1,NM_001201573.1"	""	""	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAA"	"74a0959c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354166666666667	"WGS"	FALSE
"6136"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	38957331	38957331	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"96"	5	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"74a321e0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0495049504950495	"WGS"	FALSE
"6137"	"RP11-129M6.1"	0	"mskcc.org"	"GRCh37"	"14"	41441273	41441273	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.109-2272G>C"	""	""	"ENST00000515218"	""	120	"84"	36	65	"65"	0	"RP11-129M6.1,intron_variant,,ENST00000515218,;"	"C"	"ENSG00000251363"	"ENST00000515218"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/696"	""	""	""	""	""	"1"	NA	1	"RP11-129M6.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"74a3e346-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"6138"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	41697828	41697828	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"74"	6	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"74a3f732-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"6139"	"RP11-214N1.1"	0	"mskcc.org"	"GRCh37"	"14"	42881900	42881900	"+"	"RNA"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.125G>C"	""	""	"ENST00000554042"	"1/2"	91	"77"	14	75	"75"	0	"RP11-214N1.1,non_coding_transcript_exon_variant,,ENST00000554042,;CTD-2307P3.1,intron_variant,,ENST00000557251,;"	"C"	"ENSG00000258850"	"ENST00000554042"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"125/854"	""	""	""	""	""	"1"	NA	1	"RP11-214N1.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"74a44598-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"6140"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	43289929	43289929	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs557495771"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"52"	22	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs557495771"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"74a45c72-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297297297297297	"WGS"	FALSE
"6141"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	44151153	44151153	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"74"	23	63	"63"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"74a490ca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.237113402061856	"WGS"	FALSE
"6142"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	44170887	44170887	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"68"	37	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"74a4939a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352380952380952	"WGS"	FALSE
"6143"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	44171062	44171062	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"78"	27	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"74a494c6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257142857142857	"WGS"	FALSE
"6144"	"RP11-305B6.3"	0	"mskcc.org"	"GRCh37"	"14"	44823394	44823394	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.69+30286A>G"	""	""	"ENST00000553827"	""	130	"90"	40	48	"48"	0	"RP11-305B6.3,intron_variant,,ENST00000553827,;"	"C"	"ENSG00000258969"	"ENST00000553827"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/257"	""	""	""	""	""	"1"	NA	-1	"RP11-305B6.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"74a4c748-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"6145"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	46199487	46199487	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"76"	25	49	"48"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"74a52d32-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247524752475248	"WGS"	FALSE
"6146"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	47194153	47194153	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"80"	36	62	"62"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"74a576c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"6147"	"MDGA2"	161357	"mskcc.org"	"GRCh37"	"14"	47316713	47316713	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1990-1639G>A"	""	""	"ENST00000426342"	""	94	"68"	26	64	"64"	0	"MDGA2,intron_variant,,ENST00000426342,NM_182830.4;MDGA2,intron_variant,,ENST00000399232,NM_001113498.2;MDGA2,intron_variant,,ENST00000439988,;MDGA2,intron_variant,,ENST00000357362,;MDGA2,intron_variant,,ENST00000399222,;"	"T"	"ENSG00000139915"	"ENST00000426342"	"Transcript"	"intron_variant"	"-/5239"	"-/2184"	"-/727"	""	""	""	"1"	NA	-1	"MDGA2"	"HGNC"	19835	"protein_coding"	"YES"	"CCDS41948.1"	"ENSP00000405456"	"Q7Z553"	"F8WE89"	"UPI0000213DB6"	"NM_182830.4"	""	""	""	"15/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"74a58368-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276595744680851	"WGS"	FALSE
"6148"	"MDGA2"	161357	"mskcc.org"	"GRCh37"	"14"	47921231	47921231	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.281-150478A>T"	""	""	"ENST00000439988"	""	97	"67"	30	60	"60"	0	"MDGA2,intron_variant,,ENST00000399232,NM_001113498.2;MDGA2,intron_variant,,ENST00000439988,;MDGA2,intron_variant,,ENST00000557238,;"	"A"	"ENSG00000272781"	"ENST00000439988"	"Transcript"	"intron_variant"	"-/3078"	"-/3078"	"-/1025"	""	""	""	"1"	NA	-1	"MDGA2"	"Uniprot_gn"	19835	"protein_coding"	"YES"	""	"ENSP00000400011"	"Q7Z553"	"F8WE89"	"UPI0001DD21C1"	""	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"74a5ad34-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309278350515464	"WGS"	FALSE
"6149"	"POLE2"	5427	"mskcc.org"	"GRCh37"	"14"	50116061	50116061	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"rs370004347"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1497+922C>A"	""	""	"ENST00000216367"	""	71	"66"	5	51	"51"	0	"POLE2,intron_variant,,ENST00000539565,NM_001197330.1;POLE2,intron_variant,,ENST00000216367,NM_002692.3;POLE2,downstream_gene_variant,,ENST00000554396,NM_001197331.1;POLE2,intron_variant,,ENST00000556584,;POLE2,intron_variant,,ENST00000556937,;POLE2,upstream_gene_variant,,ENST00000554671,;POLE2,upstream_gene_variant,,ENST00000555724,;POLE2,intron_variant,,ENST00000554851,;POLE2,downstream_gene_variant,,ENST00000554377,;POLE2,downstream_gene_variant,,ENST00000553850,;"	"T"	"ENSG00000100479"	"ENST00000216367"	"Transcript"	"intron_variant"	"-/1776"	"-/1584"	"-/527"	""	""	"rs370004347"	"1"	NA	-1	"POLE2"	"HGNC"	9178	"protein_coding"	"YES"	"CCDS32073.1"	"ENSP00000216367"	"P56282"	""	"UPI0000129744"	"NM_002692.3"	""	""	""	"17/18"	""	"T:0.0006"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.0031"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"74a64ed8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0704225352112676	"WGS"	FALSE
"6150"	"POLE2"	5427	"mskcc.org"	"GRCh37"	"14"	50116078	50116078	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1497+905T>G"	""	""	"ENST00000216367"	""	67	"59"	8	47	"47"	0	"POLE2,intron_variant,,ENST00000539565,NM_001197330.1;POLE2,intron_variant,,ENST00000216367,NM_002692.3;POLE2,downstream_gene_variant,,ENST00000554396,NM_001197331.1;POLE2,intron_variant,,ENST00000556584,;POLE2,intron_variant,,ENST00000556937,;POLE2,upstream_gene_variant,,ENST00000554671,;POLE2,upstream_gene_variant,,ENST00000555724,;POLE2,intron_variant,,ENST00000554851,;POLE2,downstream_gene_variant,,ENST00000554377,;POLE2,downstream_gene_variant,,ENST00000553850,;"	"C"	"ENSG00000100479"	"ENST00000216367"	"Transcript"	"intron_variant"	"-/1776"	"-/1584"	"-/527"	""	""	""	"1"	NA	-1	"POLE2"	"HGNC"	9178	"protein_coding"	"YES"	"CCDS32073.1"	"ENSP00000216367"	"P56282"	""	"UPI0000129744"	"NM_002692.3"	""	""	""	"17/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"74a650b8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119402985074627	"WGS"	FALSE
"6151"	"POLE2"	5427	"mskcc.org"	"GRCh37"	"14"	50116088	50116088	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1497+895A>T"	""	""	"ENST00000216367"	""	65	"60"	5	42	"42"	0	"POLE2,intron_variant,,ENST00000539565,NM_001197330.1;POLE2,intron_variant,,ENST00000216367,NM_002692.3;POLE2,downstream_gene_variant,,ENST00000554396,NM_001197331.1;POLE2,intron_variant,,ENST00000556584,;POLE2,intron_variant,,ENST00000556937,;POLE2,upstream_gene_variant,,ENST00000554671,;POLE2,upstream_gene_variant,,ENST00000555724,;POLE2,intron_variant,,ENST00000554851,;POLE2,downstream_gene_variant,,ENST00000554377,;POLE2,downstream_gene_variant,,ENST00000553850,;"	"A"	"ENSG00000100479"	"ENST00000216367"	"Transcript"	"intron_variant"	"-/1776"	"-/1584"	"-/527"	""	""	""	"1"	NA	-1	"POLE2"	"HGNC"	9178	"protein_coding"	"YES"	"CCDS32073.1"	"ENSP00000216367"	"P56282"	""	"UPI0000129744"	"NM_002692.3"	""	""	""	"17/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"74a651bc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"6152"	"RP11-280K24.1"	0	"mskcc.org"	"GRCh37"	"14"	52224253	52224253	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.216-3572T>C"	""	""	"ENST00000557308"	""	105	"96"	9	47	"47"	0	"RP11-280K24.1,intron_variant,,ENST00000557308,;OR7E105P,non_coding_transcript_exon_variant,,ENST00000555893,;"	"C"	"ENSG00000259111"	"ENST00000557308"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/448"	""	""	""	""	""	"1"	NA	1	"RP11-280K24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"74a73ab4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"6153"	"RP11-280K24.1"	0	"mskcc.org"	"GRCh37"	"14"	52224283	52224283	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.216-3542C>G"	""	""	"ENST00000557308"	""	106	"97"	9	51	"51"	0	"RP11-280K24.1,intron_variant,,ENST00000557308,;OR7E105P,non_coding_transcript_exon_variant,,ENST00000555893,;"	"G"	"ENSG00000259111"	"ENST00000557308"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/448"	""	""	""	""	""	"1"	NA	1	"RP11-280K24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"74a73e2e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0849056603773585	"WGS"	FALSE
"6154"	"RP11-280K24.1"	0	"mskcc.org"	"GRCh37"	"14"	52224298	52224298	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.216-3527A>C"	""	""	"ENST00000557308"	""	104	"99"	5	51	"51"	0	"RP11-280K24.1,intron_variant,,ENST00000557308,;OR7E105P,non_coding_transcript_exon_variant,,ENST00000555893,;"	"C"	"ENSG00000259111"	"ENST00000557308"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/448"	""	""	""	""	""	"1"	NA	1	"RP11-280K24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"74a73f32-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0480769230769231	"WGS"	FALSE
"6155"	"WDHD1"	11169	"mskcc.org"	"GRCh37"	"14"	55463449	55463449	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.943-918A>T"	""	""	"ENST00000360586"	""	93	"87"	6	49	"49"	0	"WDHD1,intron_variant,,ENST00000360586,NM_007086.3;WDHD1,intron_variant,,ENST00000420358,NM_001008396.2;WDHD1,intron_variant,,ENST00000421192,;"	"A"	"ENSG00000198554"	"ENST00000360586"	"Transcript"	"intron_variant"	"-/5996"	"-/3390"	"-/1129"	""	""	""	"1"	NA	-1	"WDHD1"	"HGNC"	23170	"protein_coding"	"YES"	"CCDS9721.1"	"ENSP00000353793"	"O75717"	"C9JYB3,C9JW18"	"UPI0000125AC6"	"NM_007086.3"	""	""	""	"10/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"74a84ba2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"6156"	"RPL3P3"	0	"mskcc.org"	"GRCh37"	"14"	57440207	57440207	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000467870"	""	117	"84"	33	50	"50"	0	"OTX2-AS1,intron_variant,,ENST00000554725,;RPL3P3,upstream_gene_variant,,ENST00000467870,;"	"A"	"ENSG00000243388"	"ENST00000467870"	"Transcript"	"upstream_gene_variant"	"-/1213"	""	""	""	""	""	"1"	"4920"	1	"RPL3P3"	"HGNC"	23550	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"74a9089e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282051282051282	"WGS"	FALSE
"6157"	"RP11-108M12.3"	0	"mskcc.org"	"GRCh37"	"14"	57581629	57581629	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000551408"	""	58	"52"	6	26	"26"	0	"RP11-108M12.3,upstream_gene_variant,,ENST00000551408,;OTX2-AS1,intron_variant,,ENST00000554725,;"	"A"	"ENSG00000258592"	"ENST00000551408"	"Transcript"	"upstream_gene_variant"	"-/624"	""	""	""	""	""	"1"	"2251"	-1	"RP11-108M12.3"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"74a91bae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"6158"	"RP11-112J1.2"	0	"mskcc.org"	"GRCh37"	"14"	59320122	59320122	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.322+24849C>G"	""	""	"ENST00000553762"	""	91	"60"	31	63	"63"	0	"RP11-112J1.2,intron_variant,,ENST00000553762,;RP11-112J1.2,intron_variant,,ENST00000556815,;RP11-112J1.2,intron_variant,,ENST00000555378,;"	"G"	"ENSG00000258583"	"ENST00000553762"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/786"	""	""	""	""	""	"1"	NA	1	"RP11-112J1.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"74a9ab00-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340659340659341	"WGS"	FALSE
"6159"	"PRKCH"	5583	"mskcc.org"	"GRCh37"	"14"	61854961	61854961	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.364-2982T>C"	""	""	"ENST00000332981"	""	98	"86"	12	64	"64"	0	"PRKCH,intron_variant,,ENST00000332981,NM_006255.3;PRKCH,intron_variant,,ENST00000555082,;PRKCH,intron_variant,,ENST00000555185,;PRKCH,intron_variant,,ENST00000553265,;PRKCH,intron_variant,,ENST00000553726,;PRKCH,intron_variant,,ENST00000553831,;PRKCH,intron_variant,,ENST00000556778,;PRKCH,intron_variant,,ENST00000555542,;PRKCH,intron_variant,,ENST00000553830,;PRKCH,intron_variant,,ENST00000555906,;PRKCH,intron_variant,,ENST00000556164,;PRKCH,upstream_gene_variant,,ENST00000557585,;"	"C"	"ENSG00000027075"	"ENST00000332981"	"Transcript"	"intron_variant"	"-/3582"	"-/2052"	"-/683"	""	""	""	"1"	NA	1	"PRKCH"	"HGNC"	9403	"protein_coding"	"YES"	"CCDS9752.1"	"ENSP00000329127"	"P24723"	"G3V5U5,G3V5F8,G3V520,G3V4X4,G3V4Q9,G3V4Q6,G3V4L3,G3V4H0,G3V3E7,G3V304,B4DV01,B4DJN5"	"UPI0000073BBF"	"NM_006255.3"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTA"	"74aa6f18-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122448979591837	"WGS"	FALSE
"6160"	"RDH12"	145226	"mskcc.org"	"GRCh37"	"14"	68188364	68188364	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-220+745C>G"	""	""	"ENST00000551171"	""	98	"76"	22	47	"47"	0	"RDH12,intron_variant,,ENST00000551171,NM_152443.2;RDH12,intron_variant,,ENST00000267502,;RDH12,upstream_gene_variant,,ENST00000539142,;RDH12,downstream_gene_variant,,ENST00000547463,;"	"G"	"ENSG00000139988"	"ENST00000551171"	"Transcript"	"intron_variant"	"-/1879"	"-/951"	"-/316"	""	""	""	"1"	NA	1	"RDH12"	"HGNC"	19977	"protein_coding"	"YES"	"CCDS9787.1"	"ENSP00000449079"	"Q96NR8"	""	"UPI0000071827"	"NM_152443.2"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"74acf562-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224489795918367	"WGS"	FALSE
"6161"	"PLEKHD1"	400224	"mskcc.org"	"GRCh37"	"14"	69980896	69980896	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.556-8104C>A"	""	""	"ENST00000322564"	""	102	"71"	31	53	"53"	0	"PLEKHD1,intron_variant,,ENST00000322564,NM_001161498.1;"	"A"	"ENSG00000175985"	"ENST00000322564"	"Transcript"	"intron_variant"	"-/1812"	"-/1521"	"-/506"	""	""	""	"1"	NA	1	"PLEKHD1"	"HGNC"	20148	"protein_coding"	"YES"	"CCDS53903.1"	"ENSP00000317175"	"A6NEE1"	""	"UPI0000EE334F"	"NM_001161498.1"	""	""	""	"6/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"74ad7dd4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303921568627451	"WGS"	FALSE
"6162"	"SYNJ2BP"	55333	"mskcc.org"	"GRCh37"	"14"	70881326	70881326	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.64+2291A>G"	""	""	"ENST00000256366"	""	102	"67"	35	54	"54"	0	"SYNJ2BP,intron_variant,,ENST00000256366,NM_018373.2;SYNJ2BP,intron_variant,,ENST00000554216,;SYNJ2BP-COX16,intron_variant,,ENST00000555276,;"	"C"	"ENSG00000213463"	"ENST00000256366"	"Transcript"	"intron_variant"	"-/2080"	"-/438"	"-/145"	""	""	""	"1"	NA	-1	"SYNJ2BP"	"HGNC"	18955	"protein_coding"	"YES"	"CCDS9803.1"	"ENSP00000256366"	"P57105"	""	"UPI00000373B1"	"NM_018373.2"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"74adce92-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.343137254901961	"WGS"	FALSE
"6163"	"MAP3K9"	4293	"mskcc.org"	"GRCh37"	"14"	71272711	71272711	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.406+2772T>C"	""	""	"ENST00000555993"	""	115	"85"	30	71	"71"	0	"MAP3K9,intron_variant,,ENST00000554752,NM_001284230.1;MAP3K9,intron_variant,,ENST00000555993,NM_033141.2;MAP3K9,intron_variant,,ENST00000381250,;RP6-65G23.3,upstream_gene_variant,,ENST00000557691,;RP6-65G23.3,upstream_gene_variant,,ENST00000554032,;"	"G"	"ENSG00000006432"	"ENST00000555993"	"Transcript"	"intron_variant"	"-/4449"	"-/3357"	"-/1118"	""	""	""	"1"	NA	-1	"MAP3K9"	"HGNC"	6861	"protein_coding"	"YES"	"CCDS32112.1"	"ENSP00000451263"	"P80192"	"Q8NEB1,B4DSG3,B4DGF4,B3KRI5"	"UPI00001D7B5C"	"NM_033141.2"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"74adf782-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"6164"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	72280455	72280455	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"69"	22	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"74ae5da8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241758241758242	"WGS"	FALSE
"6165"	"RP3-449M8.6"	0	"mskcc.org"	"GRCh37"	"14"	74941368	74941368	"+"	"RNA"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.200G>T"	""	""	"ENST00000556370"	"1/2"	84	"56"	28	62	"62"	0	"NPC2,downstream_gene_variant,,ENST00000541064,;NPC2,downstream_gene_variant,,ENST00000434013,;RP3-449M8.6,non_coding_transcript_exon_variant,,ENST00000556370,;RP3-449M8.9,upstream_gene_variant,,ENST00000602790,;"	"A"	"ENSG00000259005"	"ENST00000556370"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"200/589"	""	""	""	""	""	"1"	NA	-1	"RP3-449M8.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"74afb8d8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"6166"	"TTLL5"	23093	"mskcc.org"	"GRCh37"	"14"	76391531	76391531	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3823+22964G>A"	""	""	"ENST00000298832"	""	40	"29"	11	29	"29"	0	"TTLL5,intron_variant,,ENST00000298832,NM_015072.4;TTLL5,intron_variant,,ENST00000554972,;TTLL5,intron_variant,,ENST00000554487,;IFT43,intron_variant,,ENST00000555677,;"	"A"	"ENSG00000119685"	"ENST00000298832"	"Transcript"	"intron_variant"	"-/4683"	"-/3846"	"-/1281"	""	""	""	"1"	NA	1	"TTLL5"	"HGNC"	19963	"protein_coding"	"YES"	"CCDS32124.1"	"ENSP00000298832"	"Q6EMB2"	"Q2TAY9,O95419"	"UPI00003FF22B"	"NM_015072.4"	""	""	""	"31/31"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"74b0804c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275	"WGS"	FALSE
"6167"	"POMT2"	29954	"mskcc.org"	"GRCh37"	"14"	77774379	77774379	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.334-1595T>A"	""	""	"ENST00000261534"	""	96	"91"	5	46	"46"	0	"POMT2,intron_variant,,ENST00000261534,NM_013382.5;POMT2,intron_variant,,ENST00000554948,;POMT2,intron_variant,,ENST00000555788,;POMT2,upstream_gene_variant,,ENST00000556880,;POMT2,upstream_gene_variant,,ENST00000553863,;POMT2,intron_variant,,ENST00000452340,;POMT2,intron_variant,,ENST00000556326,;POMT2,intron_variant,,ENST00000557525,;POMT2,upstream_gene_variant,,ENST00000555675,;POMT2,upstream_gene_variant,,ENST00000557289,;"	"T"	"ENSG00000009830"	"ENST00000261534"	"Transcript"	"intron_variant"	"-/4876"	"-/2253"	"-/750"	""	""	""	"1"	NA	-1	"POMT2"	"HGNC"	19743	"protein_coding"	"YES"	"CCDS9857.1"	"ENSP00000261534"	"Q9UKY4"	"G3V4X9"	"UPI0000070587"	"NM_013382.5"	""	""	""	"2/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"74b13ae6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0520833333333333	"WGS"	FALSE
"6168"	"NRXN3"	9369	"mskcc.org"	"GRCh37"	"14"	80023805	80023805	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2325+90060T>C"	""	""	"ENST00000554719"	""	96	"73"	23	59	"59"	0	"NRXN3,intron_variant,,ENST00000281127,NM_138970.4,NM_001272020.1;NRXN3,intron_variant,,ENST00000428277,NM_001105250.2;NRXN3,intron_variant,,ENST00000554719,NM_004796.5;NRXN3,intron_variant,,ENST00000335750,;NRXN3,intron_variant,,ENST00000557594,;NRXN3,intron_variant,,ENST00000556003,;NRXN3,intron_variant,,ENST00000553803,;NRXN3,intron_variant,,ENST00000555073,;NRXN3,intron_variant,,ENST00000554738,;NRXN3,intron_variant,,ENST00000555387,;"	"C"	"ENSG00000021645"	"ENST00000554719"	"Transcript"	"intron_variant"	"-/4156"	"-/3186"	"-/1061"	""	""	""	"1"	NA	1	"NRXN3"	"HGNC"	8010	"protein_coding"	"YES"	"CCDS9870.1"	"ENSP00000451648"	"Q9Y4C0"	"G3V4R9,G3V247"	"UPI0000167BBA"	"NM_004796.5"	""	""	""	"13/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"74b23734-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239583333333333	"WGS"	FALSE
"6169"	"NRXN3"	9369	"mskcc.org"	"GRCh37"	"14"	80125865	80125865	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2326-4256C>T"	""	""	"ENST00000554719"	""	97	"65"	32	53	"53"	0	"NRXN3,intron_variant,,ENST00000281127,NM_138970.4,NM_001272020.1;NRXN3,intron_variant,,ENST00000428277,NM_001105250.2;NRXN3,intron_variant,,ENST00000554719,NM_004796.5;NRXN3,intron_variant,,ENST00000335750,;NRXN3,intron_variant,,ENST00000557594,;RP11-242P2.1,downstream_gene_variant,,ENST00000553322,;NRXN3,intron_variant,,ENST00000556003,;NRXN3,intron_variant,,ENST00000555073,;NRXN3,intron_variant,,ENST00000554738,;NRXN3,intron_variant,,ENST00000555387,;"	"T"	"ENSG00000021645"	"ENST00000554719"	"Transcript"	"intron_variant"	"-/4156"	"-/3186"	"-/1061"	""	""	""	"1"	NA	1	"NRXN3"	"HGNC"	8010	"protein_coding"	"YES"	"CCDS9870.1"	"ENSP00000451648"	"Q9Y4C0"	"G3V4R9,G3V247"	"UPI0000167BBA"	"NM_004796.5"	""	""	""	"13/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"74b241a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329896907216495	"WGS"	FALSE
"6170"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	84824223	84824223	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"84"	32	62	"62"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"74b40528-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275862068965517	"WGS"	FALSE
"6171"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	85000082	85000082	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"75"	15	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"74b41450-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"6172"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	87258736	87258736	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"61"	21	69	"69"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"74b4a884-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25609756097561	"WGS"	FALSE
"6173"	"LINC01146"	283587	"mskcc.org"	"GRCh37"	"14"	88542169	88542169	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.196-8212G>A"	""	""	"ENST00000556033"	""	106	"76"	30	57	"57"	0	"LINC01146,intron_variant,,ENST00000556033,;LINC01146,intron_variant,,ENST00000556673,;LINC01146,intron_variant,,ENST00000555996,;LINC01146,intron_variant,,ENST00000553496,;LINC01146,intron_variant,,ENST00000553929,;LINC01146,intron_variant,,ENST00000557339,;"	"A"	"ENSG00000258867"	"ENST00000556033"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/833"	""	""	""	""	""	"1"	NA	1	"LINC01146"	"HGNC"	49467	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"74b4eda8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283018867924528	"WGS"	FALSE
"6174"	"RP11-33N16.3"	0	"mskcc.org"	"GRCh37"	"14"	90163888	90163888	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.171-210873G>A"	""	""	"ENST00000555070"	""	83	"54"	29	56	"56"	0	"RP11-33N16.3,intron_variant,,ENST00000555070,;"	"T"	"ENSG00000259053"	"ENST00000555070"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/452"	""	""	""	""	""	"1"	NA	-1	"RP11-33N16.3"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"74b5a0b8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349397590361446	"WGS"	FALSE
"6175"	"EFCAB11"	90141	"mskcc.org"	"GRCh37"	"14"	90280145	90280145	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.411-16477G>T"	""	""	"ENST00000316738"	""	100	"69"	31	54	"54"	0	"EFCAB11,intron_variant,,ENST00000316738,NM_145231.3;EFCAB11,intron_variant,,ENST00000555872,NM_001284269.1;EFCAB11,intron_variant,,ENST00000556609,NM_001284267.1;EFCAB11,intron_variant,,ENST00000553871,;RP11-33N16.3,intron_variant,,ENST00000555070,;EFCAB11,intron_variant,,ENST00000556078,;EFCAB11,intron_variant,,ENST00000557685,;"	"A"	"ENSG00000140025"	"ENST00000316738"	"Transcript"	"intron_variant"	"-/3095"	"-/492"	"-/163"	""	""	""	"1"	NA	-1	"EFCAB11"	"HGNC"	20357	"protein_coding"	"YES"	"CCDS9887.1"	"ENSP00000326267"	"Q9BUY7"	"G3V5G1"	"UPI0000035D9C"	"NM_145231.3"	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"74b5b38c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.31	"WGS"	FALSE
"6176"	"TTC7B"	145567	"mskcc.org"	"GRCh37"	"14"	91137707	91137707	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1152+5160C>G"	""	""	"ENST00000328459"	""	95	"69"	26	55	"55"	0	"TTC7B,intron_variant,,ENST00000357056,;TTC7B,intron_variant,,ENST00000328459,NM_001010854.1;TTC7B,intron_variant,,ENST00000554462,;RP11-661G16.1,upstream_gene_variant,,ENST00000554967,;TTC7B,intron_variant,,ENST00000555005,;TTC7B,intron_variant,,ENST00000555239,;"	"C"	"ENSG00000165914"	"ENST00000328459"	"Transcript"	"intron_variant"	"-/3433"	"-/2532"	"-/843"	""	""	""	"1"	NA	-1	"TTC7B"	"HGNC"	19858	"protein_coding"	"YES"	"CCDS32140.1"	"ENSP00000336127"	"Q86TV6"	"G3V3E4,B3KX34"	"UPI00001FD9F0"	"NM_001010854.1"	""	""	""	"9/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"74b6111a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"6177"	"RPS6KA5"	9252	"mskcc.org"	"GRCh37"	"14"	91421509	91421509	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.395-7615C>T"	""	""	"ENST00000261991"	""	110	"77"	33	60	"60"	0	"RPS6KA5,intron_variant,,ENST00000261991,NM_004755.2;RPS6KA5,intron_variant,,ENST00000536315,;RPS6KA5,intron_variant,,ENST00000418736,NM_182398.1;RPS6KA5,intron_variant,,ENST00000556178,;RPS6KA5,intron_variant,,ENST00000554206,;"	"A"	"ENSG00000100784"	"ENST00000261991"	"Transcript"	"intron_variant"	"-/4202"	"-/2409"	"-/802"	""	""	""	"1"	NA	-1	"RPS6KA5"	"HGNC"	10434	"protein_coding"	"YES"	"CCDS9893.1"	"ENSP00000261991"	"O75582"	"Q9UG98,B7Z2Y5"	"UPI0000031C30"	"NM_004755.2"	""	""	""	"3/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"74b63118-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"6178"	"TC2N"	123036	"mskcc.org"	"GRCh37"	"14"	92258565	92258565	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1047+146A>T"	""	""	"ENST00000435962"	""	106	"101"	5	54	"54"	0	"TC2N,intron_variant,,ENST00000435962,NM_001128596.1;TC2N,intron_variant,,ENST00000340892,NM_152332.4;TC2N,intron_variant,,ENST00000360594,NM_001128595.1;TC2N,intron_variant,,ENST00000556018,;TC2N,intron_variant,,ENST00000556590,;"	"A"	"ENSG00000165929"	"ENST00000435962"	"Transcript"	"intron_variant"	"-/5146"	"-/1473"	"-/490"	""	""	""	"1"	NA	-1	"TC2N"	"HGNC"	19859	"protein_coding"	"YES"	"CCDS9897.1"	"ENSP00000387882"	"Q8N9U0"	""	"UPI000013E531"	"NM_001128596.1"	""	""	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"74b6a486-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0471698113207547	"WGS"	FALSE
"6179"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	95421046	95421046	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"71"	31	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"74b80f1a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303921568627451	"WGS"	FALSE
"6180"	"RP11-1070N10.3"	0	"mskcc.org"	"GRCh37"	"14"	95985465	95985465	"+"	"3'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000554161"	""	126	"83"	43	55	"55"	0	"RP11-1070N10.3,downstream_gene_variant,,ENST00000554161,;"	"G"	"ENSG00000258572"	"ENST00000554161"	"Transcript"	"downstream_gene_variant"	"-/993"	"-/291"	"-/96"	""	""	""	"1"	"1217"	1	"RP11-1070N10.3"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000451424"	""	"G3V3U0"	"UPI0000160234"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"74b853ee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341269841269841	"WGS"	FALSE
"6181"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	96425143	96425143	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"58"	27	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"74b8895e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317647058823529	"WGS"	FALSE
"6182"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	97118783	97118783	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"57"	29	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"74b8b38e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337209302325581	"WGS"	FALSE
"6183"	"RP11-61O1.1"	0	"mskcc.org"	"GRCh37"	"14"	98633834	98633834	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.121+37526G>A"	""	""	"ENST00000555776"	""	84	"62"	22	47	"47"	0	"RP11-61O1.1,intron_variant,,ENST00000555776,;"	"T"	"ENSG00000259097"	"ENST00000555776"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/542"	""	""	""	""	""	"1"	NA	-1	"RP11-61O1.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"74b97a08-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261904761904762	"WGS"	FALSE
"6184"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	99028072	99028072	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"80"	24	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"74b99d76-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"6185"	"CCDC85C"	317762	"mskcc.org"	"GRCh37"	"14"	100044133	100044133	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.793+25371T>A"	""	""	"ENST00000380243"	""	69	"65"	4	38	"38"	0	"CCDC85C,intron_variant,,ENST00000380243,NM_001144995.1;CCDC85C,intron_variant,,ENST00000554996,;CCDC85C,upstream_gene_variant,,ENST00000556348,;CCDC85C,upstream_gene_variant,,ENST00000554877,;"	"T"	"ENSG00000205476"	"ENST00000380243"	"Transcript"	"intron_variant"	"-/5307"	"-/1260"	"-/419"	""	""	""	"1"	NA	-1	"CCDC85C"	"HGNC"	35459	"protein_coding"	"YES"	"CCDS45161.1"	"ENSP00000369592"	"A6NKD9"	"G3V5D5,G3V2D7"	"UPI0000D62448"	"NM_001144995.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"74b9ff50-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0579710144927536	"WGS"	FALSE
"6186"	"MOK"	5891	"mskcc.org"	"GRCh37"	"14"	102752622	102752622	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8-2693G>C"	""	""	"ENST00000361847"	""	56	"50"	6	23	"23"	0	"MOK,intron_variant,,ENST00000361847,NM_014226.2;MOK,intron_variant,,ENST00000522874,;MOK,intron_variant,,ENST00000524214,NM_001272011.1;MOK,intron_variant,,ENST00000193029,;MOK,intron_variant,,ENST00000524019,;MOK,intron_variant,,ENST00000521493,;MOK,intron_variant,,ENST00000521966,;MOK,intron_variant,,ENST00000523169,;MOK,intron_variant,,ENST00000518686,;MOK,intron_variant,,ENST00000521766,;MOK,intron_variant,,ENST00000519569,;MOK,intron_variant,,ENST00000517537,;MOK,intron_variant,,ENST00000521388,;MOK,intron_variant,,ENST00000562292,;MOK,intron_variant,,ENST00000518045,;MOK,intron_variant,,ENST00000520238,;MOK,intron_variant,,ENST00000518399,;MOK,intron_variant,,ENST00000518482,;MOK,intron_variant,,ENST00000524207,;MOK,intron_variant,,ENST00000519877,;MOK,intron_variant,,ENST00000522093,;"	"G"	"ENSG00000080823"	"ENST00000361847"	"Transcript"	"intron_variant"	"-/1940"	"-/1260"	"-/419"	""	""	""	"1"	NA	-1	"MOK"	"HGNC"	9833	"protein_coding"	"YES"	"CCDS9971.1"	"ENSP00000355304"	"Q9UQ07"	"Q49A77"	"UPI0000035B77"	"NM_014226.2"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"74bbfc6a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"6187"	"TDRD9"	122402	"mskcc.org"	"GRCh37"	"14"	104418813	104418813	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.216-3188C>T"	""	""	"ENST00000409874"	""	74	"67"	7	32	"32"	0	"TDRD9,intron_variant,,ENST00000409874,NM_153046.2;TDRD9,intron_variant,,ENST00000339063,;TDRD9,intron_variant,,ENST00000554571,;TDRD9,intron_variant,,ENST00000496087,;"	"T"	"ENSG00000156414"	"ENST00000409874"	"Transcript"	"intron_variant"	"-/4782"	"-/4149"	"-/1382"	""	""	""	"1"	NA	1	"TDRD9"	"HGNC"	20122	"protein_coding"	"YES"	"CCDS9987.2"	"ENSP00000387303"	"Q8NDG6"	""	"UPI0001642306"	"NM_153046.2"	""	""	""	"1/35"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"74bd2fa4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	FALSE
"6189"	"BRF1"	2972	"mskcc.org"	"GRCh37"	"14"	105685921	105685921	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1378-352C>G"	""	""	"ENST00000546474"	""	76	"60"	16	43	"43"	0	"BRF1,intron_variant,,ENST00000546474,NM_001519.3,NM_001242787.1;BRF1,intron_variant,,ENST00000392557,NM_145685.2;BRF1,intron_variant,,ENST00000379937,NM_001242788.1;BRF1,intron_variant,,ENST00000547530,;BRF1,intron_variant,,ENST00000446501,NM_001242789.1;BRF1,intron_variant,,ENST00000547562,;BRF1,intron_variant,,ENST00000440513,NM_001242786.1;BRF1,intron_variant,,ENST00000327359,;BRF1,intron_variant,,ENST00000551787,;BRF1,intron_variant,,ENST00000379932,;BRF1,downstream_gene_variant,,ENST00000549655,;BRF1,downstream_gene_variant,,ENST00000552127,;BRF1,intron_variant,,ENST00000549044,;BRF1,non_coding_transcript_exon_variant,,ENST00000547374,;BRF1,intron_variant,,ENST00000547052,;"	"C"	"ENSG00000185024"	"ENST00000546474"	"Transcript"	"intron_variant"	"-/18259"	"-/2034"	"-/677"	""	""	""	"1"	NA	-1	"BRF1"	"HGNC"	11551	"protein_coding"	"YES"	"CCDS10001.1"	"ENSP00000448323"	"Q92994"	"F8VXJ4,F8VWY1,F8VWT8,F8VQ19,B3KWA2"	"UPI0000136C55"	"NM_001519.3,NM_001242787.1"	""	""	""	"12/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"74bf0752-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"6190"	"PACS2"	23241	"mskcc.org"	"GRCh37"	"14"	105785579	105785579	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.119+4205A>T"	""	""	"ENST00000458164"	""	94	"89"	5	62	"62"	0	"PACS2,intron_variant,,ENST00000447393,NM_015197.3;PACS2,intron_variant,,ENST00000325438,;PACS2,intron_variant,,ENST00000458164,NM_001100913.2;PACS2,intron_variant,,ENST00000430725,NM_001243127.1;PACS2,intron_variant,,ENST00000547217,;BRF1,upstream_gene_variant,,ENST00000546474,NM_001519.3,NM_001242787.1;BRF1,upstream_gene_variant,,ENST00000440513,NM_001242786.1;BRF1,upstream_gene_variant,,ENST00000327359,;BRF1,upstream_gene_variant,,ENST00000550692,;PACS2,intron_variant,,ENST00000548265,;"	"T"	"ENSG00000179364"	"ENST00000458164"	"Transcript"	"intron_variant"	"-/3473"	"-/2715"	"-/904"	""	""	""	"1"	NA	1	"PACS2"	"HGNC"	23794	"protein_coding"	"YES"	"CCDS45178.2"	"ENSP00000399732"	"Q86VP3"	"F8W0V0,F8W0B1"	"UPI0000E56F01"	"NM_001100913.2"	""	""	""	"1/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"74bf23ae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0531914893617021	"WGS"	FALSE
"6191"	"PACS2"	23241	"mskcc.org"	"GRCh37"	"14"	105819683	105819683	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.297+879G>A"	""	""	"ENST00000458164"	""	30	"26"	4	22	"22"	0	"PACS2,intron_variant,,ENST00000447393,NM_015197.3;PACS2,intron_variant,,ENST00000325438,;PACS2,intron_variant,,ENST00000458164,NM_001100913.2;PACS2,intron_variant,,ENST00000430725,NM_001243127.1;PACS2,intron_variant,,ENST00000547217,;PACS2,intron_variant,,ENST00000546915,;PACS2,upstream_gene_variant,,ENST00000552138,;PACS2,downstream_gene_variant,,ENST00000548265,;"	"A"	"ENSG00000179364"	"ENST00000458164"	"Transcript"	"intron_variant"	"-/3473"	"-/2715"	"-/904"	""	""	""	"1"	NA	1	"PACS2"	"HGNC"	23794	"protein_coding"	"YES"	"CCDS45178.2"	"ENSP00000399732"	"Q86VP3"	"F8W0V0,F8W0B1"	"UPI0000E56F01"	"NM_001100913.2"	""	""	""	"3/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"74bf339e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"6192"	"HERC2P3"	283755	"mskcc.org"	"GRCh37"	"15"	20697474	20697474	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.158-8704G>A"	""	""	"ENST00000428453"	""	153	"126"	27	71	"71"	0	"HERC2P3,intron_variant,,ENST00000428453,;HERC2P3,intron_variant,,ENST00000430598,;HERC2P3,intron_variant,,ENST00000437318,;HERC2P3,intron_variant,,ENST00000414804,;HERC2P3,intron_variant,,ENST00000429257,;"	"T"	"ENSG00000180229"	"ENST00000428453"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4383"	""	""	""	""	""	"1"	NA	-1	"HERC2P3"	"HGNC"	4871	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"74c58fdc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"6193"	"RP11-32B5.1"	646214	"mskcc.org"	"GRCh37"	"15"	21932128	21932128	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000556425"	""	306	"282"	24	180	"180"	0	"RP11-32B5.1,downstream_gene_variant,,ENST00000556425,;RP11-32B5.1,downstream_gene_variant,,ENST00000431494,;"	"G"	"ENSG00000237161"	"ENST00000556425"	"Transcript"	"downstream_gene_variant"	"-/1549"	""	""	""	""	""	"1"	"4435"	-1	"RP11-32B5.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"74c7745a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0784313725490196	"WGS"	FALSE
"6194"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	22879466	22879466	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"49"	5	22	"22"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"74c9598c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0925925925925926	"WGS"	FALSE
"6195"	"GABRG3"	2567	"mskcc.org"	"GRCh37"	"15"	27433430	27433430	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.271-138526G>A"	""	""	"ENST00000333743"	""	73	"50"	23	54	"54"	0	"GABRG3,intron_variant,,ENST00000333743,NM_033223.4;GABRG3,intron_variant,,ENST00000555083,NM_001270873.1;"	"A"	"ENSG00000182256"	"ENST00000333743"	"Transcript"	"intron_variant"	"-/2004"	"-/1404"	"-/467"	""	""	""	"1"	NA	1	"GABRG3"	"HGNC"	4088	"protein_coding"	"YES"	"CCDS45195.1"	"ENSP00000331912"	"Q99928"	""	"UPI000012AFCB"	"NM_033223.4"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"74cc351c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315068493150685	"WGS"	FALSE
"6196"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	27987913	27987913	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"64"	25	65	"64"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"74cc7e46-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280898876404494	"WGS"	FALSE
"6197"	"OCA2"	4948	"mskcc.org"	"GRCh37"	"15"	28054084	28054084	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2432+36021G>T"	""	""	"ENST00000354638"	""	94	"71"	23	54	"54"	0	"OCA2,intron_variant,,ENST00000354638,NM_000275.2;OCA2,intron_variant,,ENST00000353809,;"	"A"	"ENSG00000104044"	"ENST00000354638"	"Transcript"	"intron_variant"	"-/3186"	"-/2517"	"-/838"	""	""	""	"1"	NA	-1	"OCA2"	"HGNC"	8101	"protein_coding"	"YES"	"CCDS10020.1"	"ENSP00000346659"	"Q04671"	"C9JDV3"	"UPI000013D158"	"NM_000275.2"	""	""	""	"23/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"74cc845e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24468085106383	"WGS"	FALSE
"6198"	"FAN1"	22909	"mskcc.org"	"GRCh37"	"15"	31221845	31221845	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2787+245C>T"	""	""	"ENST00000362065"	""	35	"29"	6	18	"18"	0	"FAN1,intron_variant,,ENST00000362065,NM_014967.4;RP11-540B6.6,downstream_gene_variant,,ENST00000602886,;FAN1,intron_variant,,ENST00000568145,;FAN1,intron_variant,,ENST00000565280,;FAN1,intron_variant,,ENST00000562881,;"	"T"	"ENSG00000198690"	"ENST00000362065"	"Transcript"	"intron_variant"	"-/4891"	"-/3054"	"-/1017"	""	""	""	"1"	NA	1	"FAN1"	"HGNC"	29170	"protein_coding"	"YES"	"CCDS32186.1"	"ENSP00000354497"	"Q9Y2M0"	""	"UPI000006D713"	"NM_014967.4"	""	""	""	"12/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"74cfc434-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171428571428571	"WGS"	FALSE
"6199"	"OTUD7A"	161725	"mskcc.org"	"GRCh37"	"15"	32039334	32039334	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-222-57650A>C"	""	""	"ENST00000560598"	""	107	"75"	32	60	"59"	1	"OTUD7A,intron_variant,,ENST00000560598,;OTUD7A,intron_variant,,ENST00000560536,;OTUD7A,intron_variant,,ENST00000558371,;"	"G"	"ENSG00000169918"	"ENST00000560598"	"Transcript"	"intron_variant"	"-/724"	"-/331"	"-/110"	""	""	""	"1"	NA	-1	"OTUD7A"	"HGNC"	20718	"protein_coding"	""	""	"ENSP00000453883"	""	"H0YN66"	"UPI00022F8582"	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"74d02262-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.299065420560748	"WGS"	FALSE
"6200"	"AVEN"	57099	"mskcc.org"	"GRCh37"	"15"	34186997	34186997	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.446-18801A>G"	""	""	"ENST00000306730"	""	35	"31"	4	17	"17"	0	"AVEN,intron_variant,,ENST00000306730,NM_020371.2;"	"C"	"ENSG00000169857"	"ENST00000306730"	"Transcript"	"intron_variant"	"-/1605"	"-/1089"	"-/362"	""	""	""	"1"	NA	-1	"AVEN"	"HGNC"	13509	"protein_coding"	"YES"	"CCDS10030.1"	"ENSP00000306822"	"Q9NQS1"	""	"UPI000012666A"	"NM_020371.2"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"74d13076-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"6201"	"NUTM1"	256646	"mskcc.org"	"GRCh37"	"15"	34644184	34644184	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.854+1151A>G"	""	""	"ENST00000333756"	""	79	"50"	29	61	"61"	0	"NUTM1,intron_variant,,ENST00000537011,NM_001284292.1;NUTM1,intron_variant,,ENST00000438749,NM_001284293.1;NUTM1,intron_variant,,ENST00000333756,NM_175741.1;"	"G"	"ENSG00000184507"	"ENST00000333756"	"Transcript"	"intron_variant"	"-/3795"	"-/3399"	"-/1132"	""	""	""	"1"	NA	1	"NUTM1"	"HGNC"	29919	"protein_coding"	"YES"	"CCDS32190.1"	"ENSP00000329448"	"Q86Y26"	""	"UPI000016159A"	"NM_175741.1"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"74d16dca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.367088607594937	"WGS"	TRUE
"6202"	"GOLGA8B"	440270	"mskcc.org"	"GRCh37"	"15"	34866426	34866426	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1123+7241T>G"	""	""	"ENST00000267731"	""	85	"80"	5	48	"48"	0	"GOLGA8A,intron_variant,,ENST00000543376,;GOLGA8B,intron_variant,,ENST00000267731,;GOLGA8B,intron_variant,,ENST00000569811,;GOLGA8B,intron_variant,,ENST00000564575,;GOLGA8B,intron_variant,,ENST00000566258,;GOLGA8B,intron_variant,,ENST00000567956,;GOLGA8B,intron_variant,,ENST00000566091,;GOLGA8B,intron_variant,,ENST00000569100,;GOLGA8B,intron_variant,,ENST00000484716,;"	"C"	"ENSG00000215252"	"ENST00000267731"	"Transcript"	"intron_variant"	"-/5428"	"-/1812"	"-/603"	""	""	""	"1"	NA	-1	"GOLGA8B"	"HGNC"	31973	"protein_coding"	"YES"	"CCDS45211.1"	"ENSP00000267731"	"A8MQT2"	""	"UPI00001995F1"	""	""	""	""	"2/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"74d1b924-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"6203"	"AQR"	9716	"mskcc.org"	"GRCh37"	"15"	35256890	35256890	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.76-399G>T"	""	""	"ENST00000156471"	""	93	"61"	32	50	"50"	0	"AQR,intron_variant,,ENST00000156471,NM_014691.2;AQR,upstream_gene_variant,,ENST00000560117,;AQR,intron_variant,,ENST00000543879,;AQR,upstream_gene_variant,,ENST00000558202,;"	"A"	"ENSG00000021776"	"ENST00000156471"	"Transcript"	"intron_variant"	"-/5945"	"-/4458"	"-/1485"	""	""	""	"1"	NA	-1	"AQR"	"HGNC"	29513	"protein_coding"	"YES"	"CCDS42013.1"	"ENSP00000156471"	"O60306"	""	"UPI00001C1F85"	"NM_014691.2"	""	""	""	"1/34"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"74d1e11a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344086021505376	"WGS"	FALSE
"6204"	"RP11-122D10.1"	0	"mskcc.org"	"GRCh37"	"15"	37170495	37170495	"+"	"3'Flank"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000561259"	""	102	"70"	32	53	"52"	1	"RP11-122D10.1,intron_variant,,ENST00000558089,;RP11-122D10.1,downstream_gene_variant,,ENST00000560602,;RP11-122D10.1,downstream_gene_variant,,ENST00000561259,;"	"C"	"ENSG00000259280"	"ENST00000561259"	"Transcript"	"downstream_gene_variant"	"-/750"	""	""	""	""	""	"1"	"2724"	-1	"RP11-122D10.1"	"Clone_based_vega_gene"	NA	"retained_intron"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"74d2690a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313725490196078	"WGS"	FALSE
"6205"	"MEIS2"	4212	"mskcc.org"	"GRCh37"	"15"	37386315	37386315	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.490-384C>T"	""	""	"ENST00000561208"	""	92	"62"	30	67	"67"	0	"MEIS2,intron_variant,,ENST00000338564,NM_001220482.1;MEIS2,intron_variant,,ENST00000561208,;MEIS2,intron_variant,,ENST00000444725,NM_170677.4,NM_170674.4;MEIS2,intron_variant,,ENST00000382766,NM_170676.4,NM_170675.4;MEIS2,intron_variant,,ENST00000340545,NM_002399.3;MEIS2,intron_variant,,ENST00000424352,;MEIS2,intron_variant,,ENST00000397624,;MEIS2,intron_variant,,ENST00000557796,;MEIS2,intron_variant,,ENST00000559085,NM_172315.2;MEIS2,intron_variant,,ENST00000219869,;MEIS2,intron_variant,,ENST00000397620,NM_172316.2;MEIS2,intron_variant,,ENST00000559561,;MEIS2,intron_variant,,ENST00000607277,;MEIS2,intron_variant,,ENST00000560617,;MEIS2,intron_variant,,ENST00000560697,;MEIS2,intron_variant,,ENST00000606653,;MEIS2,downstream_gene_variant,,ENST00000558313,;MEIS2,intron_variant,,ENST00000314177,;MEIS2,intron_variant,,ENST00000560570,;MEIS2,intron_variant,,ENST00000561163,;MEIS2,upstream_gene_variant,,ENST00000561422,;MEIS2,downstream_gene_variant,,ENST00000559129,;"	"A"	"ENSG00000134138"	"ENST00000561208"	"Transcript"	"intron_variant"	"-/4818"	"-/1434"	"-/477"	""	""	""	"1"	NA	-1	"MEIS2"	"HGNC"	7001	"protein_coding"	"YES"	"CCDS10044.1"	"ENSP00000453793"	"O14770"	"H0YKN2,H0YKE5"	"UPI000012EEBC"	""	""	""	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"74d27e7c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326086956521739	"WGS"	FALSE
"6206"	"ENSR00001451315"	0	"mskcc.org"	"GRCh37"	"15"	38065794	38065794	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001451315"	""	82	"77"	5	49	"49"	0	""	"T"	""	"ENSR00001451315"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"74d2af32-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0609756097560976	"WGS"	FALSE
"6207"	"RP11-624L4.1"	0	"mskcc.org"	"GRCh37"	"15"	39210222	39210222	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.252-31092C>T"	""	""	"ENST00000560197"	""	100	"73"	27	51	"51"	0	"RP11-624L4.1,intron_variant,,ENST00000560197,;RP11-624L4.1,intron_variant,,ENST00000561058,;RP11-624L4.1,intron_variant,,ENST00000560484,;"	"A"	"ENSG00000259345"	"ENST00000560197"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1378"	""	""	""	""	""	"1"	NA	-1	"RP11-624L4.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"74d2f5a0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27	"WGS"	FALSE
"6208"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	39756347	39756347	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"64"	25	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"74d32278-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280898876404494	"WGS"	FALSE
"6209"	"BUB1B"	701	"mskcc.org"	"GRCh37"	"15"	40486312	40486312	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"rs113446659"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1059-2434A>T"	""	""	"ENST00000287598"	""	97	"91"	6	54	"54"	0	"BUB1B,intron_variant,,ENST00000287598,NM_001211.5;BUB1B,intron_variant,,ENST00000412359,;BUB1B,intron_variant,,ENST00000559733,;BUB1B,intron_variant,,ENST00000557848,;BUB1B,intron_variant,,ENST00000559772,;"	"T"	"ENSG00000156970"	"ENST00000287598"	"Transcript"	"intron_variant"	"-/3725"	"-/3153"	"-/1050"	""	""	"rs113446659"	"1"	NA	1	"BUB1B"	"HGNC"	1149	"protein_coding"	"YES"	"CCDS10053.1"	"ENSP00000287598"	"O60566"	""	"UPI000006E699"	"NM_001211.5"	""	""	""	"8/22"	""	"T:0.0365"	"T:0.1354"	"T:0.0058"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"74d365f8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0618556701030928	"WGS"	TRUE
"6210"	"FRMD5"	84978	"mskcc.org"	"GRCh37"	"15"	44240271	44240271	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103-23764C>T"	""	""	"ENST00000417257"	""	107	"77"	30	46	"46"	0	"FRMD5,intron_variant,,ENST00000417257,NM_032892.3;FRMD5,intron_variant,,ENST00000402883,;FRMD5,intron_variant,,ENST00000484674,;FRMD5,intron_variant,,ENST00000421674,;FRMD5,intron_variant,,ENST00000458630,;FRMD5,intron_variant,,ENST00000451277,;"	"A"	"ENSG00000171877"	"ENST00000417257"	"Transcript"	"intron_variant"	"-/5011"	"-/1713"	"-/570"	""	""	""	"1"	NA	-1	"FRMD5"	"HGNC"	28214	"protein_coding"	"YES"	"CCDS10107.2"	"ENSP00000403067"	"Q7Z6J6"	"A8K1U8"	"UPI00001A9475"	"NM_032892.3"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"74d5341e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280373831775701	"WGS"	FALSE
"6211"	"FRMD5"	84978	"mskcc.org"	"GRCh37"	"15"	44475448	44475448	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.102+11703T>C"	""	""	"ENST00000417257"	""	86	"80"	6	54	"54"	0	"FRMD5,intron_variant,,ENST00000417257,NM_032892.3;FRMD5,intron_variant,,ENST00000402883,;FRMD5,intron_variant,,ENST00000484674,;FRMD5,intron_variant,,ENST00000421674,;FRMD5,intron_variant,,ENST00000458630,;FRMD5,intron_variant,,ENST00000451277,;"	"G"	"ENSG00000171877"	"ENST00000417257"	"Transcript"	"intron_variant"	"-/5011"	"-/1713"	"-/570"	""	""	""	"1"	NA	-1	"FRMD5"	"HGNC"	28214	"protein_coding"	"YES"	"CCDS10107.2"	"ENSP00000403067"	"Q7Z6J6"	"A8K1U8"	"UPI00001A9475"	"NM_032892.3"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"74d54e04-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"6212"	"CASC4"	113201	"mskcc.org"	"GRCh37"	"15"	44611742	44611742	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.328-3421A>G"	""	""	"ENST00000299957"	""	71	"52"	19	46	"46"	0	"CASC4,intron_variant,,ENST00000299957,NM_138423.3;CASC4,intron_variant,,ENST00000345795,NM_177974.2;CASC4,intron_variant,,ENST00000360824,;CASC4,intron_variant,,ENST00000559222,;CASC4,intron_variant,,ENST00000557945,;CASC4,intron_variant,,ENST00000558735,;AC090519.3,downstream_gene_variant,,ENST00000366383,;"	"G"	"ENSG00000166734"	"ENST00000299957"	"Transcript"	"intron_variant"	"-/3962"	"-/1311"	"-/436"	""	""	""	"1"	NA	1	"CASC4"	"HGNC"	24892	"protein_coding"	"YES"	"CCDS10108.1"	"ENSP00000299957"	"Q6P4E1"	"H0YMR0,H0YKJ7"	"UPI0000140255"	"NM_138423.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"74d56934-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267605633802817	"WGS"	FALSE
"6213"	"CTDSPL2"	51496	"mskcc.org"	"GRCh37"	"15"	44812524	44812524	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1240-985A>T"	""	""	"ENST00000260327"	""	78	"71"	7	45	"45"	0	"CTDSPL2,intron_variant,,ENST00000260327,NM_016396.2;CTDSPL2,intron_variant,,ENST00000396780,;CTDSPL2,intron_variant,,ENST00000558373,;CTDSPL2,intron_variant,,ENST00000558966,;CTD-2329K10.1,upstream_gene_variant,,ENST00000561324,;CTDSPL2,intron_variant,,ENST00000559738,;CTDSPL2,non_coding_transcript_exon_variant,,ENST00000559175,;CTDSPL2,intron_variant,,ENST00000560620,;"	"T"	"ENSG00000137770"	"ENST00000260327"	"Transcript"	"intron_variant"	"-/6828"	"-/1401"	"-/466"	""	""	""	"1"	NA	1	"CTDSPL2"	"HGNC"	26936	"protein_coding"	"YES"	"CCDS10110.1"	"ENSP00000260327"	"Q05D32"	"H0YNW9,H0YNU2,H0YMH7"	"UPI000004A0B3"	"NM_016396.2"	""	""	""	"11/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"74d58c84-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"6214"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	46690233	46690233	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"76"	29	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"74d66c80-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276190476190476	"WGS"	FALSE
"6215"	"MYO5A"	4644	"mskcc.org"	"GRCh37"	"15"	52607732	52607732	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5335-1332A>G"	""	""	"ENST00000399231"	""	96	"89"	7	44	"44"	0	"MYO5A,intron_variant,,ENST00000399231,NM_000259.3;MYO5A,intron_variant,,ENST00000399233,;MYO5A,intron_variant,,ENST00000358212,;MYO5A,intron_variant,,ENST00000356338,NM_001142495.1;MYO5A,intron_variant,,ENST00000553916,;MYO5A,intron_variant,,ENST00000399229,;"	"C"	"ENSG00000197535"	"ENST00000399231"	"Transcript"	"intron_variant"	"-/12225"	"-/5568"	"-/1855"	""	""	""	"1"	NA	-1	"MYO5A"	"HGNC"	7602	"protein_coding"	"YES"	"CCDS42037.1"	"ENSP00000382177"	"Q9Y4I1"	"Q9UES4"	"UPI0000E445E1"	"NM_000259.3"	""	""	""	"39/40"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"74d84848-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0729166666666667	"WGS"	TRUE
"6216"	"MYO5A"	4644	"mskcc.org"	"GRCh37"	"15"	52741679	52741679	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.28-16197T>A"	""	""	"ENST00000399231"	""	95	"63"	32	64	"64"	0	"MYO5A,intron_variant,,ENST00000399231,NM_000259.3;MYO5A,intron_variant,,ENST00000399233,;MYO5A,intron_variant,,ENST00000356338,NM_001142495.1;MYO5A,intron_variant,,ENST00000553916,;MYO5A,intron_variant,,ENST00000556196,;"	"T"	"ENSG00000197535"	"ENST00000399231"	"Transcript"	"intron_variant"	"-/12225"	"-/5568"	"-/1855"	""	""	""	"1"	NA	-1	"MYO5A"	"HGNC"	7602	"protein_coding"	"YES"	"CCDS42037.1"	"ENSP00000382177"	"Q9Y4I1"	"Q9UES4"	"UPI0000E445E1"	"NM_000259.3"	""	""	""	"1/40"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"74d852e8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336842105263158	"WGS"	TRUE
"6217"	"PYGO1"	26108	"mskcc.org"	"GRCh37"	"15"	55850833	55850833	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.50-9640C>A"	""	""	"ENST00000302000"	""	100	"73"	27	58	"58"	0	"PYGO1,intron_variant,,ENST00000302000,NM_015617.2;PYGO1,intron_variant,,ENST00000563719,;"	"T"	"ENSG00000171016"	"ENST00000302000"	"Transcript"	"intron_variant"	"-/8488"	"-/1260"	"-/419"	""	""	""	"1"	NA	-1	"PYGO1"	"HGNC"	30256	"protein_coding"	"YES"	"CCDS10155.1"	"ENSP00000302327"	"Q9Y3Y4"	""	"UPI00000510D0"	"NM_015617.2"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"74d9579c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27	"WGS"	FALSE
"6218"	"TCF12"	6938	"mskcc.org"	"GRCh37"	"15"	57397289	57397289	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.325+13200T>C"	""	""	"ENST00000438423"	""	76	"69"	7	49	"49"	0	"TCF12,intron_variant,,ENST00000267811,NM_003205.3,NM_207038.1;TCF12,intron_variant,,ENST00000438423,NM_207037.1,NM_207036.1;TCF12,intron_variant,,ENST00000452095,;TCF12,intron_variant,,ENST00000333725,;TCF12,intron_variant,,ENST00000557843,;TCF12,intron_variant,,ENST00000559609,;TCF12,intron_variant,,ENST00000557947,;TCF12,intron_variant,,ENST00000560190,;TCF12,upstream_gene_variant,,ENST00000561346,;TCF12,intron_variant,,ENST00000561152,;"	"C"	"ENSG00000140262"	"ENST00000438423"	"Transcript"	"intron_variant"	"-/4786"	"-/2121"	"-/706"	""	""	""	"1"	NA	1	"TCF12"	"HGNC"	11623	"protein_coding"	"YES"	"CCDS10160.1"	"ENSP00000388940"	"Q99081"	"Q9NQY9,Q9NQY7,Q9NQY6,Q9NQY5,Q9NQY4,Q9NQY3,Q9NQY2,Q9NQY1,H0YNQ5"	"UPI000018CEA6"	"NM_207037.1,NM_207036.1"	""	""	""	"5/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"74d9f378-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	TRUE
"6219"	"TCF12"	6938	"mskcc.org"	"GRCh37"	"15"	57397291	57397291	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.325+13202T>C"	""	""	"ENST00000438423"	""	76	"71"	5	49	"49"	0	"TCF12,intron_variant,,ENST00000267811,NM_003205.3,NM_207038.1;TCF12,intron_variant,,ENST00000438423,NM_207037.1,NM_207036.1;TCF12,intron_variant,,ENST00000452095,;TCF12,intron_variant,,ENST00000333725,;TCF12,intron_variant,,ENST00000557843,;TCF12,intron_variant,,ENST00000559609,;TCF12,intron_variant,,ENST00000557947,;TCF12,intron_variant,,ENST00000560190,;TCF12,upstream_gene_variant,,ENST00000561346,;TCF12,intron_variant,,ENST00000561152,;"	"C"	"ENSG00000140262"	"ENST00000438423"	"Transcript"	"intron_variant"	"-/4786"	"-/2121"	"-/706"	""	""	""	"1"	NA	1	"TCF12"	"HGNC"	11623	"protein_coding"	"YES"	"CCDS10160.1"	"ENSP00000388940"	"Q99081"	"Q9NQY9,Q9NQY7,Q9NQY6,Q9NQY5,Q9NQY4,Q9NQY3,Q9NQY2,Q9NQY1,H0YNQ5"	"UPI000018CEA6"	"NM_207037.1,NM_207036.1"	""	""	""	"5/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"74d9f490-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0657894736842105	"WGS"	TRUE
"6220"	"RP11-925D8.1"	0	"mskcc.org"	"GRCh37"	"15"	58489931	58489931	"+"	"5'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000486795"	""	87	"61"	26	64	"64"	0	"ALDH1A2,intron_variant,,ENST00000558231,;ALDH1A2,intron_variant,,ENST00000558239,;ALDH1A2,intron_variant,,ENST00000560863,;ALDH1A2,intron_variant,,ENST00000558073,;ALDH1A2,intron_variant,,ENST00000560122,;ALDH1A2,intron_variant,,ENST00000559297,;ALDH1A2,intron_variant,,ENST00000558504,;RP11-925D8.1,upstream_gene_variant,,ENST00000486795,;"	"T"	"ENSG00000240934"	"ENST00000486795"	"Transcript"	"upstream_gene_variant"	"-/413"	""	""	""	""	""	"1"	"2874"	1	"RP11-925D8.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"74da50c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298850574712644	"WGS"	FALSE
"6221"	"ALDH1A2"	8854	"mskcc.org"	"GRCh37"	"15"	58665043	58665043	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-172+47127T>A"	""	""	"ENST00000558239"	""	101	"96"	5	60	"60"	0	"ALDH1A2,intron_variant,,ENST00000558239,;ALDH1A2,intron_variant,,ENST00000560863,;"	"T"	"ENSG00000128918"	"ENST00000558239"	"Transcript"	"intron_variant"	"-/664"	"-/75"	"-/25"	""	""	""	"1"	NA	-1	"ALDH1A2"	"HGNC"	15472	"protein_coding"	""	""	"ENSP00000453292"	""	"Q9UED3"	"UPI000006FB12"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"74da6218-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0495049504950495	"WGS"	FALSE
"6222"	"RP11-313H3.1"	0	"mskcc.org"	"GRCh37"	"15"	59261994	59261994	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000558683"	""	83	"77"	6	38	"38"	0	"RNF111,intron_variant,,ENST00000559757,;RP11-313H3.1,upstream_gene_variant,,ENST00000558683,;"	"A"	"ENSG00000259393"	"ENST00000558683"	"Transcript"	"upstream_gene_variant"	"-/763"	""	""	""	""	""	"1"	"1987"	-1	"RP11-313H3.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"74daa50c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"6223"	"AC126323.1"	0	"mskcc.org"	"GRCh37"	"15"	62533110	62533110	"+"	"3'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408214"	""	114	"78"	36	58	"58"	0	"AC126323.1,downstream_gene_variant,,ENST00000408214,;hsa-mir-7162,intron_variant,,ENST00000563606,;hsa-mir-7162,intron_variant,,ENST00000561706,;hsa-mir-7162,downstream_gene_variant,,ENST00000570077,;hsa-mir-7162,downstream_gene_variant,,ENST00000429274,;hsa-mir-7162,downstream_gene_variant,,ENST00000562306,;"	"T"	"ENSG00000221141"	"ENST00000408214"	"Transcript"	"downstream_gene_variant"	"-/83"	""	""	""	""	""	"1"	"2455"	-1	"AC126323.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"74dbb60e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WGS"	FALSE
"6224"	"ZNF609"	23060	"mskcc.org"	"GRCh37"	"15"	64919502	64919502	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.973+4251T>C"	""	""	"ENST00000326648"	""	94	"69"	25	55	"55"	0	"ZNF609,intron_variant,,ENST00000326648,NM_015042.1;ZNF609,intron_variant,,ENST00000558680,;RP11-330L19.2,downstream_gene_variant,,ENST00000492168,;"	"C"	"ENSG00000180357"	"ENST00000326648"	"Transcript"	"intron_variant"	"-/8743"	"-/4236"	"-/1411"	""	""	""	"1"	NA	1	"ZNF609"	"HGNC"	29003	"protein_coding"	"YES"	"CCDS32270.1"	"ENSP00000316527"	"O15014"	""	"UPI00001D7783"	"NM_015042.1"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"74dca92e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265957446808511	"WGS"	FALSE
"6225"	"AC069368.3"	0	"mskcc.org"	"GRCh37"	"15"	65194912	65194912	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.484-19208T>A"	""	""	"ENST00000437723"	""	79	"75"	4	48	"48"	0	"AC069368.3,intron_variant,,ENST00000437723,;RN7SL348P,upstream_gene_variant,,ENST00000578164,;AC069368.3,intron_variant,,ENST00000502574,;"	"A"	"ENSG00000249240"	"ENST00000437723"	"Transcript"	"intron_variant"	"-/750"	"-/681"	"-/227"	""	""	""	"1"	NA	1	"AC069368.3"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000397942"	""	"C9J4A7"	"UPI0000E59C72"	""	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"74dcf032-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0506329113924051	"WGS"	FALSE
"6226"	"SMAD3"	4088	"mskcc.org"	"GRCh37"	"15"	67435652	67435652	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.207-21581G>A"	""	""	"ENST00000327367"	""	104	"81"	23	66	"66"	0	"SMAD3,intron_variant,,ENST00000327367,NM_005902.3;SMAD3,intron_variant,,ENST00000540846,NM_001145102.1;SMAD3,intron_variant,,ENST00000439724,NM_001145103.1;SMAD3,intron_variant,,ENST00000558894,;SMAD3,intron_variant,,ENST00000558739,;SMAD3,intron_variant,,ENST00000559092,;SMAD3,intron_variant,,ENST00000559460,;SMAD3,intron_variant,,ENST00000560175,;RP11-342M21.2,intron_variant,,ENST00000558463,;SMAD3,intron_variant,,ENST00000559937,;"	"A"	"ENSG00000166949"	"ENST00000327367"	"Transcript"	"intron_variant"	"-/6247"	"-/1278"	"-/425"	""	""	""	"1"	NA	1	"SMAD3"	"HGNC"	6769	"protein_coding"	"YES"	"CCDS10222.1"	"ENSP00000332973"	"P84022"	"Q68DS8,H3BP09,H0YNV1,H0YMP2,H0YL71,H0YKE2"	"UPI0000023A91"	"NM_005902.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"74de39e2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221153846153846	"WGS"	TRUE
"6227"	"SPESP1"	246777	"mskcc.org"	"GRCh37"	"15"	69147717	69147717	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.97+37061C>T"	""	""	"ENST00000560188"	""	105	"70"	35	44	"44"	0	"SPESP1,intron_variant,,ENST00000560188,;"	"T"	"ENSG00000258484"	"ENST00000560188"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/621"	""	""	""	""	""	"1"	NA	1	"SPESP1"	"HGNC"	15570	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"74dee2e8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"6228"	"SPESP1"	246777	"mskcc.org"	"GRCh37"	"15"	69152910	69152910	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.97+42254G>A"	""	""	"ENST00000560188"	""	90	"84"	6	42	"42"	0	"SPESP1,intron_variant,,ENST00000560188,;"	"A"	"ENSG00000258484"	"ENST00000560188"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/621"	""	""	""	""	""	"1"	NA	1	"SPESP1"	"HGNC"	15570	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"74deeb58-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"6229"	"THSD4"	79875	"mskcc.org"	"GRCh37"	"15"	71799042	71799042	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1152+94880T>A"	""	""	"ENST00000355327"	""	97	"92"	5	59	"59"	0	"THSD4,intron_variant,,ENST00000355327,;THSD4,intron_variant,,ENST00000261862,NM_024817.2;"	"A"	"ENSG00000187720"	"ENST00000355327"	"Transcript"	"intron_variant"	"-/9200"	"-/3057"	"-/1018"	""	""	""	"1"	NA	1	"THSD4"	"HGNC"	25835	"protein_coding"	"YES"	"CCDS10238.2"	"ENSP00000347484"	"Q6ZMP0"	""	"UPI00001A797D"	""	""	""	""	"7/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"74e005ec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0515463917525773	"WGS"	FALSE
"6230"	"NRG4"	145957	"mskcc.org"	"GRCh37"	"15"	76270380	76270380	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.105-16065T>C"	""	""	"ENST00000394907"	""	94	"65"	29	41	"40"	1	"NRG4,intron_variant,,ENST00000394907,NM_138573.3;NRG4,intron_variant,,ENST00000563910,;NRG4,intron_variant,,ENST00000535975,;NRG4,intron_variant,,ENST00000461391,;NRG4,intron_variant,,ENST00000472094,;NRG4,intron_variant,,ENST00000565661,;NRG4,intron_variant,,ENST00000562114,;NRG4,intron_variant,,ENST00000568073,;NRG4,intron_variant,,ENST00000567126,;NRG4,intron_variant,,ENST00000563204,;NRG4,intron_variant,,ENST00000566417,;NRG4,intron_variant,,ENST00000567936,;NRG4,intron_variant,,ENST00000498750,;"	"G"	"ENSG00000169752"	"ENST00000394907"	"Transcript"	"intron_variant"	"-/1159"	"-/348"	"-/115"	""	""	""	"1"	NA	-1	"NRG4"	"HGNC"	29862	"protein_coding"	"YES"	"CCDS10288.1"	"ENSP00000378367"	"Q8WWG1"	"Q68D87,H3BP63"	"UPI0000038134"	"NM_138573.3"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"74e2642c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308510638297872	"WGS"	FALSE
"6231"	"SCAPER"	49855	"mskcc.org"	"GRCh37"	"15"	76858326	76858326	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2838+8173C>T"	""	""	"ENST00000563290"	""	103	"61"	42	60	"60"	0	"SCAPER,intron_variant,,ENST00000538941,NM_001145923.1;SCAPER,intron_variant,,ENST00000563290,;SCAPER,intron_variant,,ENST00000324767,NM_020843.2;SCAPER,intron_variant,,ENST00000568428,;SCAPER,intron_variant,,ENST00000569784,;SCAPER,intron_variant,,ENST00000303521,;SCAPER,intron_variant,,ENST00000564757,;SCAPER,intron_variant,,ENST00000563688,;"	"A"	"ENSG00000140386"	"ENST00000563290"	"Transcript"	"intron_variant"	"-/4747"	"-/4203"	"-/1400"	""	""	""	"1"	NA	-1	"SCAPER"	"HGNC"	13081	"protein_coding"	"YES"	"CCDS53962.1"	"ENSP00000454973"	"Q9BY12"	"H3BTY2,H3BR40,H3BPB0"	"UPI0000E59CC3"	""	""	""	""	"23/31"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"74e29a6e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.407766990291262	"WGS"	FALSE
"6232"	"LINC00927"	283688	"mskcc.org"	"GRCh37"	"15"	80556511	80556511	"+"	"RNA"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1777C>G"	""	""	"ENST00000558913"	"3/3"	102	"76"	26	60	"60"	0	"LINC00927,non_coding_transcript_exon_variant,,ENST00000558913,;"	"C"	"ENSG00000259361"	"ENST00000558913"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1777/2878"	""	""	""	""	""	"1"	NA	-1	"LINC00927"	"HGNC"	27522	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"74e43c52-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254901960784314	"WGS"	FALSE
"6233"	"LINC00927"	283688	"mskcc.org"	"GRCh37"	"15"	80614267	80614267	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.213+19631T>C"	""	""	"ENST00000558913"	""	95	"88"	7	66	"66"	0	"LINC00927,intron_variant,,ENST00000558913,;LINC00927,intron_variant,,ENST00000561432,;LINC00927,intron_variant,,ENST00000558244,;"	"G"	"ENSG00000259361"	"ENST00000558913"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2878"	""	""	""	""	""	"1"	NA	-1	"LINC00927"	"HGNC"	27522	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"74e4417a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"6234"	"ABHD17C"	58489	"mskcc.org"	"GRCh37"	"15"	80970303	80970303	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000560609"	""	99	"93"	6	45	"45"	0	"ABHD17C,upstream_gene_variant,,ENST00000560609,;"	"C"	"ENSG00000136379"	"ENST00000560609"	"Transcript"	"upstream_gene_variant"	"-/627"	"-/285"	"-/94"	""	""	""	"1"	"1722"	1	"ABHD17C"	"HGNC"	26925	"protein_coding"	""	""	"ENSP00000453923"	""	"H0YN98"	"UPI0000489323"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"74e458e0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"6235"	"ADAMTSL3"	57188	"mskcc.org"	"GRCh37"	"15"	84500132	84500132	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.601-6709T>A"	""	""	"ENST00000286744"	""	77	"55"	22	44	"44"	0	"ADAMTSL3,intron_variant,,ENST00000286744,NM_207517.2;ADAMTSL3,intron_variant,,ENST00000567476,;ADAMTSL3,intron_variant,,ENST00000561483,;ADAMTSL3,intron_variant,,ENST00000569510,;"	"A"	"ENSG00000156218"	"ENST00000286744"	"Transcript"	"intron_variant"	"-/7336"	"-/5076"	"-/1691"	""	""	""	"1"	NA	1	"ADAMTSL3"	"HGNC"	14633	"protein_coding"	"YES"	"CCDS10326.1"	"ENSP00000286744"	"P82987"	""	"UPI00001615A5"	"NM_207517.2"	""	""	""	"6/29"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"74e5b618-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"6236"	"ADAMTSL3"	57188	"mskcc.org"	"GRCh37"	"15"	84634135	84634135	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2491-5101C>T"	""	""	"ENST00000286744"	""	83	"63"	20	61	"61"	0	"ADAMTSL3,intron_variant,,ENST00000286744,NM_207517.2;ADAMTSL3,intron_variant,,ENST00000567476,;ADAMTSL3,intron_variant,,ENST00000567716,;ADAMTSL3,intron_variant,,ENST00000562296,;ADAMTSL3,intron_variant,,ENST00000561483,;"	"T"	"ENSG00000156218"	"ENST00000286744"	"Transcript"	"intron_variant"	"-/7336"	"-/5076"	"-/1691"	""	""	""	"1"	NA	1	"ADAMTSL3"	"HGNC"	14633	"protein_coding"	"YES"	"CCDS10326.1"	"ENSP00000286744"	"P82987"	""	"UPI00001615A5"	"NM_207517.2"	""	""	""	"19/29"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"74e5b924-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240963855421687	"WGS"	FALSE
"6237"	"KLHL25"	64410	"mskcc.org"	"GRCh37"	"15"	86322730	86322730	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10-9679A>T"	""	""	"ENST00000337975"	""	112	"83"	29	62	"62"	0	"KLHL25,intron_variant,,ENST00000337975,NM_022480.3;KLHL25,intron_variant,,ENST00000536947,;KLHL25,intron_variant,,ENST00000559131,;"	"A"	"ENSG00000183655"	"ENST00000337975"	"Transcript"	"intron_variant"	"-/3758"	"-/1770"	"-/589"	""	""	""	"1"	NA	-1	"KLHL25"	"HGNC"	25732	"protein_coding"	"YES"	"CCDS10339.1"	"ENSP00000336800"	"Q9H0H3"	""	"UPI0000037CB1"	"NM_022480.3"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"74e69a4c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258928571428571	"WGS"	FALSE
"6238"	"AGBL1"	123624	"mskcc.org"	"GRCh37"	"15"	87070483	87070483	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs150341560"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2547+4313C>T"	""	""	"ENST00000441037"	""	103	"75"	28	58	"58"	0	"AGBL1,intron_variant,,ENST00000441037,NM_152336.2;AGBL1,intron_variant,,ENST00000421325,;AGBL1,intron_variant,,ENST00000389298,;"	"T"	"ENSG00000166748"	"ENST00000441037"	"Transcript"	"intron_variant"	"-/3508"	"-/3201"	"-/1066"	""	""	"rs150341560"	"1"	NA	1	"AGBL1"	"HGNC"	26504	"protein_coding"	"YES"	"CCDS58398.1"	"ENSP00000413001"	"Q96MI9"	"J3KQF5"	"UPI0000EC9CE0"	"NM_152336.2"	""	""	""	"18/23"	""	"T:0.0012"	"T:0"	"T:0.0058"	NA	"T:0"	"T:0.002"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"74e71fa8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271844660194175	"WGS"	FALSE
"6239"	"RP11-138H10.2"	0	"mskcc.org"	"GRCh37"	"15"	87583311	87583311	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000560803"	""	107	"82"	25	68	"68"	0	"RP11-138H10.2,upstream_gene_variant,,ENST00000560803,;"	"T"	"ENSG00000259761"	"ENST00000560803"	"Transcript"	"upstream_gene_variant"	"-/509"	""	""	""	""	""	"1"	"1974"	1	"RP11-138H10.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"74e75fb8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233644859813084	"WGS"	FALSE
"6240"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	87604545	87604545	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	130	"91"	39	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"74e762ba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"6241"	"NTRK3"	4916	"mskcc.org"	"GRCh37"	"15"	88515605	88515605	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1586-31621C>A"	""	""	"ENST00000360948"	""	88	"64"	24	51	"51"	0	"NTRK3,intron_variant,,ENST00000394480,NM_002530.3,NM_001243101.1;NTRK3,intron_variant,,ENST00000360948,NM_001012338.2;NTRK3,intron_variant,,ENST00000357724,;NTRK3,intron_variant,,ENST00000355254,;NTRK3,intron_variant,,ENST00000557856,;NTRK3,intron_variant,,ENST00000558676,;NTRK3,intron_variant,,ENST00000542733,;NTRK3,downstream_gene_variant,,ENST00000317501,NM_001007156.2;NTRK3,downstream_gene_variant,,ENST00000560201,;"	"T"	"ENSG00000140538"	"ENST00000360948"	"Transcript"	"intron_variant"	"-/2826"	"-/2520"	"-/839"	""	""	""	"1"	NA	-1	"NTRK3"	"HGNC"	8033	"protein_coding"	"YES"	"CCDS32322.1"	"ENSP00000354207"	"Q16288"	"R4GNH5"	"UPI000006DC82"	"NM_001012338.2"	""	""	""	"13/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"74e7a554-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	TRUE
"6242"	"LINC00925"	254559	"mskcc.org"	"GRCh37"	"15"	89932893	89932893	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1505+180G>A"	""	""	"ENST00000546186"	""	80	"64"	16	60	"60"	0	"LINC00925,intron_variant,,ENST00000546186,;LINC00925,intron_variant,,ENST00000538734,;LINC00925,intron_variant,,ENST00000536780,;LINC00925,intron_variant,,ENST00000561327,;LINC00925,intron_variant,,ENST00000561037,;LINC00925,intron_variant,,ENST00000560596,;LINC00925,intron_variant,,ENST00000558982,;LINC00925,intron_variant,,ENST00000559235,;LINC00925,intron_variant,,ENST00000558692,;LINC00925,downstream_gene_variant,,ENST00000558754,;LINC00925,downstream_gene_variant,,ENST00000560663,;"	"A"	"ENSG00000255571"	"ENST00000546186"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2718"	""	""	""	""	""	"1"	NA	1	"LINC00925"	"HGNC"	27388	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"74e83ac8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"6243"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	89980898	89980898	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"62"	31	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"74e83ce4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"6244"	"CRTC3"	64784	"mskcc.org"	"GRCh37"	"15"	91169451	91169451	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.967+226C>T"	""	""	"ENST00000268184"	""	117	"75"	42	49	"49"	0	"CRTC3,intron_variant,,ENST00000420329,NM_022769.4,NM_001042574.2;CRTC3,intron_variant,,ENST00000268184,;CRTC3,downstream_gene_variant,,ENST00000558005,;RP11-387D10.2,intron_variant,,ENST00000559531,;CRTC3,intron_variant,,ENST00000560320,;CRTC3,downstream_gene_variant,,ENST00000561255,;"	"T"	"ENSG00000140577"	"ENST00000268184"	"Transcript"	"intron_variant"	"-/2537"	"-/1860"	"-/619"	""	""	""	"1"	NA	1	"CRTC3"	"HGNC"	26148	"protein_coding"	"YES"	"CCDS32331.1"	"ENSP00000268184"	"Q6UUV7"	""	"UPI00001FEB98"	""	""	""	""	"10/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"74e905fc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358974358974359	"WGS"	TRUE
"6245"	"RP11-152L20.3"	0	"mskcc.org"	"GRCh37"	"15"	92786266	92786266	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.185+70005C>A"	""	""	"ENST00000561674"	""	92	"68"	24	45	"45"	0	"RP11-152L20.3,intron_variant,,ENST00000561674,;"	"T"	"ENSG00000260661"	"ENST00000561674"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1304"	""	""	""	""	""	"1"	NA	-1	"RP11-152L20.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"74e9ec92-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"6246"	"RP11-739G5.1"	0	"mskcc.org"	"GRCh37"	"15"	94168311	94168311	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.324+31723A>T"	""	""	"ENST00000554318"	""	93	"68"	25	49	"49"	0	"RP11-739G5.1,intron_variant,,ENST00000554318,;"	"T"	"ENSG00000258631"	"ENST00000554318"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/457"	""	""	""	""	""	"1"	NA	1	"RP11-739G5.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"74ea7720-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"6247"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	97735091	97735091	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"60"	32	47	"47"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"74eba7d0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347826086956522	"WGS"	FALSE
"6248"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	98128072	98128072	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"62"	32	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"74ebd14c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340425531914894	"WGS"	FALSE
"6249"	"MEF2A"	4205	"mskcc.org"	"GRCh37"	"15"	100230708	100230708	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.864+75G>T"	""	""	"ENST00000354410"	""	95	"85"	10	55	"55"	0	"MEF2A,intron_variant,,ENST00000354410,NM_005587.2;MEF2A,intron_variant,,ENST00000338042,;MEF2A,intron_variant,,ENST00000557942,;MEF2A,intron_variant,,ENST00000453228,;MEF2A,intron_variant,,ENST00000449277,NM_001130928.1,NM_001130926.1;MEF2A,intron_variant,,ENST00000557785,NM_001171894.1;MEF2A,intron_variant,,ENST00000558812,NM_001130927.1;"	"T"	"ENSG00000068305"	"ENST00000354410"	"Transcript"	"intron_variant"	"-/5824"	"-/1500"	"-/499"	""	""	""	"1"	NA	1	"MEF2A"	"HGNC"	6993	"protein_coding"	"YES"	"CCDS45362.1"	"ENSP00000346389"	"Q02078"	"H0YNI2,H0YM62,H0YKY6,D6RJ95"	"UPI0000073025"	"NM_005587.2"	""	""	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"74ec9aaa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"6250"	"CERS3"	204219	"mskcc.org"	"GRCh37"	"15"	100993591	100993591	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.999+2507A>G"	""	""	"ENST00000284382"	""	119	"83"	36	64	"64"	0	"CERS3,intron_variant,,ENST00000284382,NM_178842.3;CERS3,intron_variant,,ENST00000394113,;CERS3,intron_variant,,ENST00000538112,;CERS3,intron_variant,,ENST00000560944,;"	"C"	"ENSG00000154227"	"ENST00000284382"	"Transcript"	"intron_variant"	"-/3894"	"-/1152"	"-/383"	""	""	""	"1"	NA	-1	"CERS3"	"HGNC"	23752	"protein_coding"	"YES"	"CCDS10384.1"	"ENSP00000284382"	"Q8IU89"	"H0YN05,H0YMG6"	"UPI00001975AB"	"NM_178842.3"	""	""	""	"12/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"74ecea1e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302521008403361	"WGS"	FALSE
"6251"	"LINS"	55180	"mskcc.org"	"GRCh37"	"15"	101119860	101119860	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.489+608C>T"	""	""	"ENST00000314742"	""	97	"70"	27	44	"44"	0	"LINS,intron_variant,,ENST00000314742,NM_001040616.2;LINS,intron_variant,,ENST00000561308,;LINS,intron_variant,,ENST00000560133,;LINS,intron_variant,,ENST00000559736,;LINS,intron_variant,,ENST00000559577,;LINS,intron_variant,,ENST00000560941,;LINS,downstream_gene_variant,,ENST00000560934,;LINS,downstream_gene_variant,,ENST00000560272,;LINS,intron_variant,,ENST00000559149,;LINS,intron_variant,,ENST00000561073,;LINS,downstream_gene_variant,,ENST00000559827,;"	"A"	"ENSG00000140471"	"ENST00000314742"	"Transcript"	"intron_variant"	"-/4821"	"-/2274"	"-/757"	""	""	""	"1"	NA	-1	"LINS"	"HGNC"	30922	"protein_coding"	"YES"	"CCDS10385.1"	"ENSP00000318423"	"Q8NG48"	"H3BNS6,H0YMQ0,H0YMK4,H0YM78,H0YKU3"	"UPI000013D795"	"NM_001040616.2"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"74ed1264-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278350515463918	"WGS"	FALSE
"6252"	"NARFL"	64428	"mskcc.org"	"GRCh37"	"16"	793202	793202	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000251588"	""	65	"58"	7	44	"44"	0	"NARFL,upstream_gene_variant,,ENST00000540986,;NARFL,upstream_gene_variant,,ENST00000251588,NM_022493.1;NARFL,upstream_gene_variant,,ENST00000301694,;NARFL,upstream_gene_variant,,ENST00000566614,;NARFL,upstream_gene_variant,,ENST00000565693,;NARFL,upstream_gene_variant,,ENST00000567455,;NARFL,upstream_gene_variant,,ENST00000567172,;NARFL,upstream_gene_variant,,ENST00000565425,;NARFL,upstream_gene_variant,,ENST00000565341,;NARFL,upstream_gene_variant,,ENST00000562752,;NARFL,upstream_gene_variant,,ENST00000565065,;NARFL,upstream_gene_variant,,ENST00000570066,;NARFL,upstream_gene_variant,,ENST00000570289,;"	"G"	"ENSG00000103245"	"ENST00000251588"	"Transcript"	"upstream_gene_variant"	"-/2112"	"-/1431"	"-/476"	""	""	""	"1"	"2200"	-1	"NARFL"	"HGNC"	14179	"protein_coding"	"YES"	"CCDS10425.1"	"ENSP00000251588"	"Q9H6Q4"	"I3L2A3,H3BSJ7,H3BSH2"	"UPI0000070186"	"NM_022493.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"74f03cdc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107692307692308	"WGS"	FALSE
"6253"	"RAB26"	25837	"mskcc.org"	"GRCh37"	"16"	2193255	2193255	"+"	"5'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000541451"	""	84	"62"	22	60	"59"	1	"RAB26,upstream_gene_variant,,ENST00000541451,;RAB26,intron_variant,,ENST00000565592,;"	"A"	"ENSG00000167964"	"ENST00000541451"	"Transcript"	"upstream_gene_variant"	"-/944"	"-/573"	"-/190"	""	""	""	"1"	"4890"	1	"RAB26"	"HGNC"	14259	"protein_coding"	""	""	"ENSP00000441580"	""	"B2RAA6"	"UPI0000001266"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"74f28c58-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261904761904762	"WGS"	FALSE
"6254"	"NLRC3"	197358	"mskcc.org"	"GRCh37"	"16"	3598482	3598482	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2825+188C>T"	""	""	"ENST00000448023"	""	85	"55"	30	51	"51"	0	"NLRC3,intron_variant,,ENST00000301749,NM_178844.2;NLRC3,intron_variant,,ENST00000359128,;NLRC3,intron_variant,,ENST00000448023,;LA16c-390H2.4,downstream_gene_variant,,ENST00000573820,;NLRC3,intron_variant,,ENST00000419350,;NLRC3,intron_variant,,ENST00000603128,;NLRC3,intron_variant,,ENST00000604347,;NLRC3,intron_variant,,ENST00000603507,;"	"A"	"ENSG00000167984"	"ENST00000448023"	"Transcript"	"intron_variant"	"-/6310"	"-/3336"	"-/1111"	""	""	""	"1"	NA	-1	"NLRC3"	"HGNC"	29889	"protein_coding"	"YES"	""	"ENSP00000414415"	""	"C9JLH9"	"UPI0000246E58"	""	""	""	""	"13/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"74f3773a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WGS"	FALSE
"6255"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	7785103	7785103	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"81"	25	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"74f5d390-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235849056603774	"WGS"	FALSE
"6256"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	7862140	7862140	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"93"	7	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"74f5dc28-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.07	"WGS"	FALSE
"6257"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	8158564	8158564	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"53"	24	39	"39"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"74f6108a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311688311688312	"WGS"	FALSE
"6258"	"RP11-483K5.3"	0	"mskcc.org"	"GRCh37"	"16"	8576222	8576222	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000562516"	""	90	"83"	7	53	"53"	0	"RP11-483K5.3,downstream_gene_variant,,ENST00000562516,;"	"G"	"ENSG00000261066"	"ENST00000562516"	"Transcript"	"downstream_gene_variant"	"-/214"	""	""	""	""	""	"1"	"329"	-1	"RP11-483K5.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"74f6398e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0777777777777778	"WGS"	FALSE
"6259"	"RP11-418I22.2"	0	"mskcc.org"	"GRCh37"	"16"	9569528	9569528	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.356+8661G>A"	""	""	"ENST00000570038"	""	101	"73"	28	45	"45"	0	"RP11-418I22.2,intron_variant,,ENST00000570038,;"	"A"	"ENSG00000260071"	"ENST00000570038"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/796"	""	""	""	""	""	"1"	NA	1	"RP11-418I22.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"74f72c18-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277227722772277	"WGS"	FALSE
"6260"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	9816330	9816330	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"67"	28	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"74f747d4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294736842105263	"WGS"	FALSE
"6261"	"RP11-27M24.3"	0	"mskcc.org"	"GRCh37"	"16"	10613177	10613177	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"rs549761492"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.112-4088G>T"	""	""	"ENST00000566787"	""	21	"17"	4	10	"10"	0	"RP11-27M24.3,intron_variant,,ENST00000566787,;"	"A"	"ENSG00000260468"	"ENST00000566787"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/502"	""	""	""	""	"rs549761492"	"1"	NA	-1	"RP11-27M24.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	"A:0.0357"	"A:0.1309"	"A:0.0086"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"74f7adc8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"6262"	"RP11-27M24.3"	0	"mskcc.org"	"GRCh37"	"16"	10613179	10613179	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs563679140"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.112-4090G>A"	""	""	"ENST00000566787"	""	22	"17"	5	10	"10"	0	"RP11-27M24.3,intron_variant,,ENST00000566787,;"	"T"	"ENSG00000260468"	"ENST00000566787"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/502"	""	""	""	""	"rs563679140"	"1"	NA	-1	"RP11-27M24.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	"T:0.0365"	"T:0.1331"	"T:0.0086"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"74f7aecc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"6263"	"RP11-27M24.3"	0	"mskcc.org"	"GRCh37"	"16"	10613188	10613188	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.112-4099G>A"	""	""	"ENST00000566787"	""	21	"16"	5	10	"10"	0	"RP11-27M24.3,intron_variant,,ENST00000566787,;"	"T"	"ENSG00000260468"	"ENST00000566787"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/502"	""	""	""	""	""	"1"	NA	-1	"RP11-27M24.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"74f7afbc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WGS"	FALSE
"6264"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	11632893	11632893	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"63"	23	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"74f8328e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267441860465116	"WGS"	FALSE
"6265"	"PARN"	5073	"mskcc.org"	"GRCh37"	"16"	14606394	14606394	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1481-29710C>A"	""	""	"ENST00000437198"	""	96	"70"	26	42	"42"	0	"PARN,intron_variant,,ENST00000437198,NM_002582.3,NM_001134477.2;PARN,intron_variant,,ENST00000420015,NM_001242992.1;PARN,intron_variant,,ENST00000341484,;PARN,intron_variant,,ENST00000539279,;PARN,intron_variant,,ENST00000564904,;"	"T"	"ENSG00000140694"	"ENST00000437198"	"Transcript"	"intron_variant"	"-/3078"	"-/1920"	"-/639"	""	""	""	"1"	NA	-1	"PARN"	"HGNC"	8609	"protein_coding"	"YES"	"CCDS45419.1"	"ENSP00000387911"	"O95453"	"B3KN69"	"UPI0000031F7A"	"NM_002582.3,NM_001134477.2"	""	""	""	"21/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"74f9c284-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270833333333333	"WGS"	FALSE
"6266"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	16669350	16669350	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"55"	24	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"74fb7048-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30379746835443	"WGS"	FALSE
"6267"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	17599522	17599522	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	35	"27"	8	26	"26"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"74fbf77a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228571428571429	"WGS"	FALSE
"6268"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	18731342	18731342	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"rs3111580"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	46	"34"	12	33	"32"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs3111580"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.1266"	"C:0.3956"	"C:0.049"	NA	"C:0.001"	"C:0.0427"	"C:0.0337"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"74fc94aa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"6269"	"CTD-2349B8.1"	0	"mskcc.org"	"GRCh37"	"16"	19170253	19170253	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*329-13829C>A"	""	""	"ENST00000564808"	""	89	"59"	30	55	"55"	0	"CTD-2349B8.1,intron_variant,,ENST00000564808,;CTD-2349B8.1,intron_variant,,ENST00000568526,;"	"A"	"ENSG00000261427"	"ENST00000564808"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/809"	"-/315"	"-/104"	""	""	""	"1"	NA	1	"CTD-2349B8.1"	"Clone_based_vega_gene"	NA	"nonsense_mediated_decay"	"YES"	""	"ENSP00000459737"	""	""	"UPI00025A2EF3"	""	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"74fcd956-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337078651685393	"WGS"	FALSE
"6270"	"ACSM2B"	348158	"mskcc.org"	"GRCh37"	"16"	20550721	20550721	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1629+1255T>A"	""	""	"ENST00000329697"	""	54	"50"	4	27	"27"	0	"ACSM2B,intron_variant,,ENST00000329697,NM_001105069.1;ACSM2B,intron_variant,,ENST00000565232,;ACSM2B,intron_variant,,ENST00000567001,NM_182617.3;ACSM2B,intron_variant,,ENST00000565322,;ACSM2B,intron_variant,,ENST00000568098,;ACSM2B,intron_variant,,ENST00000566998,;ACSM2B,intron_variant,,ENST00000564849,;ACSM2B,downstream_gene_variant,,ENST00000569131,;ACSM2B,downstream_gene_variant,,ENST00000569364,;ACSM2B,downstream_gene_variant,,ENST00000563943,;"	"T"	"ENSG00000066813"	"ENST00000329697"	"Transcript"	"intron_variant"	"-/2935"	"-/1734"	"-/577"	""	""	""	"1"	NA	-1	"ACSM2B"	"HGNC"	30931	"protein_coding"	"YES"	"CCDS10586.1"	"ENSP00000327453"	"Q68CK6"	"H3BTX9,H3BQ84,H3BP79,H3BM61"	"UPI00001AFAA7"	"NM_001105069.1"	""	""	""	"13/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"74fd654c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"6271"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	22211083	22211083	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"81"	26	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"74fe5fc4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242990654205607	"WGS"	FALSE
"6272"	"CACNG3"	10368	"mskcc.org"	"GRCh37"	"16"	24376921	24376921	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000005284"	""	87	"62"	25	44	"44"	0	"CACNG3,downstream_gene_variant,,ENST00000005284,NM_006539.3;"	"A"	"ENSG00000006116"	"ENST00000005284"	"Transcript"	"downstream_gene_variant"	"-/3088"	"-/948"	"-/315"	""	""	""	"1"	"2799"	1	"CACNG3"	"HGNC"	1407	"protein_coding"	"YES"	"CCDS10620.1"	"ENSP00000005284"	"O60359"	""	"UPI000000D979"	"NM_006539.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"74ffbb8a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28735632183908	"WGS"	FALSE
"6273"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	24708053	24708053	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"77"	6	52	"52"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"74ffe34e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"6274"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	26318385	26318385	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"86"	7	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"750096b8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"6275"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	26439015	26439015	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"112"	7	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"7500a752-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"6276"	"RABEP2"	79874	"mskcc.org"	"GRCh37"	"16"	28924535	28924535	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.894+1022C>T"	""	""	"ENST00000358201"	""	82	"76"	6	37	"37"	0	"RABEP2,intron_variant,,ENST00000358201,NM_024816.2;RABEP2,intron_variant,,ENST00000357573,;RABEP2,intron_variant,,ENST00000544477,;RABEP2,downstream_gene_variant,,ENST00000568703,;RABEP2,downstream_gene_variant,,ENST00000567483,;RABEP2,downstream_gene_variant,,ENST00000566762,;RABEP2,downstream_gene_variant,,ENST00000561501,;RABEP2,downstream_gene_variant,,ENST00000561803,;RABEP2,downstream_gene_variant,,ENST00000562475,;RABEP2,downstream_gene_variant,,ENST00000564473,;RABEP2,intron_variant,,ENST00000562590,;"	"A"	"ENSG00000177548"	"ENST00000358201"	"Transcript"	"intron_variant"	"-/2821"	"-/1710"	"-/569"	""	""	""	"1"	NA	-1	"RABEP2"	"HGNC"	24817	"protein_coding"	"YES"	"CCDS42140.1"	"ENSP00000350934"	"Q9H5N1"	"H3BU67,H3BNR8,H3BNR2"	"UPI0000367822"	"NM_024816.2"	""	""	""	"5/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"7502601a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"6277"	"QPRT"	23475	"mskcc.org"	"GRCh37"	"16"	29704113	29704113	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.14-1872A>G"	""	""	"ENST00000395384"	""	76	"70"	6	44	"44"	0	"QPRT,intron_variant,,ENST00000395384,NM_014298.3;QPRT,intron_variant,,ENST00000449759,;QPRT,intron_variant,,ENST00000562473,;QPRT,intron_variant,,ENST00000219771,;QPRT,upstream_gene_variant,,ENST00000564967,;"	"G"	"ENSG00000103485"	"ENST00000395384"	"Transcript"	"intron_variant"	"-/2343"	"-/894"	"-/297"	""	""	""	"1"	NA	1	"QPRT"	"HGNC"	9755	"protein_coding"	"YES"	"CCDS10651.1"	"ENSP00000378782"	"Q15274"	""	"UPI000013C78C"	"NM_014298.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"75031bea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"6278"	"MAPK3"	5595	"mskcc.org"	"GRCh37"	"16"	30135584	30135584	"+"	"5'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000263025"	""	73	"56"	17	27	"27"	0	"MAPK3,upstream_gene_variant,,ENST00000484663,;MAPK3,upstream_gene_variant,,ENST00000403394,;MAPK3,upstream_gene_variant,,ENST00000263025,NM_002746.2;MAPK3,upstream_gene_variant,,ENST00000322266,NM_001109891.1;MAPK3,upstream_gene_variant,,ENST00000395199,NM_001040056.2;MAPK3,upstream_gene_variant,,ENST00000395202,;MAPK3,upstream_gene_variant,,ENST00000395200,;MAPK3,upstream_gene_variant,,ENST00000478356,;MAPK3,upstream_gene_variant,,ENST00000481230,;MAPK3,upstream_gene_variant,,ENST00000466521,;MAPK3,upstream_gene_variant,,ENST00000490298,;MAPK3,upstream_gene_variant,,ENST00000483869,;"	"T"	"ENSG00000102882"	"ENST00000263025"	"Transcript"	"upstream_gene_variant"	"-/1861"	"-/1140"	"-/379"	""	""	""	"1"	"969"	-1	"MAPK3"	"HGNC"	6877	"protein_coding"	"YES"	"CCDS10672.1"	"ENSP00000263025"	"P27361"	"Q9BWJ1,Q7Z3H5,L7RXH5,H0YEX6,H0YDH9,E9PRH7,B3KR49"	"UPI0000000DD7"	"NM_002746.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"7503630c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232876712328767	"WGS"	FALSE
"6279"	"ZNF785"	146540	"mskcc.org"	"GRCh37"	"16"	30591273	30591273	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000395216"	""	74	"67"	7	29	"29"	0	"ZNF785,intron_variant,,ENST00000470110,;ZNF785,downstream_gene_variant,,ENST00000395216,NM_152458.6;ZNF785,downstream_gene_variant,,ENST00000567773,;AC002310.7,intron_variant,,ENST00000492040,;AC002310.7,intron_variant,,ENST00000486926,;ZNF785,intron_variant,,ENST00000562128,;"	"G"	"ENSG00000197162"	"ENST00000395216"	"Transcript"	"downstream_gene_variant"	"-/3282"	"-/1218"	"-/405"	""	""	""	"1"	"704"	-1	"ZNF785"	"HGNC"	26496	"protein_coding"	"YES"	"CCDS10685.1"	"ENSP00000378642"	"A8K8V0"	""	"UPI0000074535"	"NM_152458.6"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"7503c4a0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	FALSE
"6280"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	31839189	31839189	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"66"	39	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"75048926-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.371428571428571	"WGS"	FALSE
"6281"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	32356269	32356269	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	293	"268"	25	154	"154"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75065c38-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853242320819113	"WGS"	FALSE
"6282"	"RP11-586K12.7"	0	"mskcc.org"	"GRCh37"	"16"	32725208	32725208	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000568401"	""	156	"131"	25	84	"84"	0	"RP11-586K12.7,upstream_gene_variant,,ENST00000568401,;"	"C"	"ENSG00000261391"	"ENST00000568401"	"Transcript"	"upstream_gene_variant"	"-/126"	""	""	""	""	""	"1"	"2044"	1	"RP11-586K12.7"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75089e3a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16025641025641	"WGS"	FALSE
"6283"	"RNU6-257P"	0	"mskcc.org"	"GRCh37"	"16"	48762477	48762477	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000410238"	""	94	"89"	5	55	"55"	0	"RP11-42I10.1,intron_variant,,ENST00000568150,;RNU6-257P,downstream_gene_variant,,ENST00000410238,;"	"A"	"ENSG00000222170"	"ENST00000410238"	"Transcript"	"downstream_gene_variant"	"-/98"	""	""	""	""	""	"1"	"3138"	-1	"RNU6-257P"	"HGNC"	47220	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"75126b5e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0531914893617021	"WGS"	FALSE
"6284"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	49111029	49111029	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"79"	37	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75129ffc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318965517241379	"WGS"	FALSE
"6285"	"CHD9"	80205	"mskcc.org"	"GRCh37"	"16"	53188672	53188672	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-164-1166C>T"	""	""	"ENST00000566029"	""	85	"63"	22	58	"58"	0	"CHD9,intron_variant,,ENST00000566029,;CHD9,intron_variant,,ENST00000564845,;CHD9,intron_variant,,ENST00000447540,NM_025134.4;CHD9,intron_variant,,ENST00000565832,;CHD9,intron_variant,,ENST00000563410,;CHD9,upstream_gene_variant,,ENST00000398510,;CHD9,upstream_gene_variant,,ENST00000562785,;CHD9,upstream_gene_variant,,ENST00000564255,;"	"T"	"ENSG00000177200"	"ENST00000566029"	"Transcript"	"intron_variant"	"-/13110"	"-/8646"	"-/2881"	""	""	""	"1"	NA	1	"CHD9"	"HGNC"	25701	"protein_coding"	"YES"	"CCDS45485.1"	"ENSP00000457466"	"Q3L8U1"	"H3BV31,H3BSP3,H3BRU9"	"UPI00001FF1A0"	""	""	""	""	"1/38"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"751465c6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258823529411765	"WGS"	FALSE
"6286"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	55212647	55212647	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"69"	26	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"75151188-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"6287"	"SLC12A3"	6559	"mskcc.org"	"GRCh37"	"16"	56921643	56921643	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2179-194C>A"	""	""	"ENST00000438926"	""	89	"67"	22	32	"32"	0	"SLC12A3,intron_variant,,ENST00000438926,NM_001126108.1,NM_000339.2,NM_001126107.1;SLC12A3,intron_variant,,ENST00000262502,;SLC12A3,intron_variant,,ENST00000563236,;SLC12A3,intron_variant,,ENST00000566786,;"	"A"	"ENSG00000070915"	"ENST00000438926"	"Transcript"	"intron_variant"	"-/5567"	"-/3093"	"-/1030"	""	""	""	"1"	NA	1	"SLC12A3"	"HGNC"	10912	"protein_coding"	"YES"	"CCDS10770.1"	"ENSP00000402152"	"P55017"	""	"UPI00001FF243"	"NM_001126108.1,NM_000339.2,NM_001126107.1"	""	""	""	"17/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"75160034-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247191011235955	"WGS"	FALSE
"6288"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	57325486	57325486	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"51"	5	33	"33"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75163a4a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0892857142857143	"WGS"	FALSE
"6289"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	57325493	57325493	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"51"	5	31	"31"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"75163b58-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0892857142857143	"WGS"	FALSE
"6290"	"DOK4"	55715	"mskcc.org"	"GRCh37"	"16"	57516514	57516514	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-181-2914A>G"	""	""	"ENST00000340099"	""	77	"71"	6	44	"44"	0	"DOK4,intron_variant,,ENST00000340099,NM_018110.3;DOK4,intron_variant,,ENST00000569010,;DOK4,intron_variant,,ENST00000566705,;DOK4,intron_variant,,ENST00000566588,;DOK4,intron_variant,,ENST00000569538,;DOK4,intron_variant,,ENST00000567175,;DOK4,upstream_gene_variant,,ENST00000566936,;DOK4,upstream_gene_variant,,ENST00000569548,;DOK4,upstream_gene_variant,,ENST00000562737,;DOK4,upstream_gene_variant,,ENST00000569250,;DOK4,upstream_gene_variant,,ENST00000564378,;DOK4,upstream_gene_variant,,ENST00000567214,;DOK4,upstream_gene_variant,,ENST00000568617,;DOK4,upstream_gene_variant,,ENST00000567276,;DOK4,upstream_gene_variant,,ENST00000562008,;DOK4,upstream_gene_variant,,ENST00000561918,;DOK4,upstream_gene_variant,,ENST00000561659,;"	"C"	"ENSG00000125170"	"ENST00000340099"	"Transcript"	"intron_variant"	"-/2772"	"-/981"	"-/326"	""	""	""	"1"	NA	-1	"DOK4"	"HGNC"	19868	"protein_coding"	"YES"	"CCDS10783.1"	"ENSP00000344277"	"Q8TEW6"	"H3BVB4,H3BV67,H3BTK2,H3BTI7,H3BTI4,H3BSK0,H3BS85,H3BPY9,H3BN90"	"UPI0000070AA4"	"NM_018110.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"751658b8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"6291"	"CCDC113"	29070	"mskcc.org"	"GRCh37"	"16"	58280796	58280796	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000219299"	""	69	"63"	6	46	"46"	0	"CCDC113,intron_variant,,ENST00000569374,;CCDC113,upstream_gene_variant,,ENST00000219299,NM_014157.3;CCDC113,upstream_gene_variant,,ENST00000443128,NM_001142302.1;CCDC113,upstream_gene_variant,,ENST00000566498,;CCDC113,upstream_gene_variant,,ENST00000561517,;"	"G"	"ENSG00000103021"	"ENST00000219299"	"Transcript"	"upstream_gene_variant"	"-/5272"	"-/1134"	"-/377"	""	""	""	"1"	"3044"	1	"CCDC113"	"HGNC"	25002	"protein_coding"	"YES"	"CCDS10795.1"	"ENSP00000219299"	"Q9H0I3"	"H3BQS9"	"UPI000007254E"	"NM_014157.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"7516f9a8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"6292"	"RP11-410D17.2"	0	"mskcc.org"	"GRCh37"	"16"	58859004	58859004	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.679+68922C>T"	""	""	"ENST00000500117"	""	103	"78"	25	62	"62"	0	"RP11-410D17.2,intron_variant,,ENST00000500117,;RP11-410D17.2,intron_variant,,ENST00000568134,;RP11-410D17.2,intron_variant,,ENST00000565722,;RP11-451N19.1,upstream_gene_variant,,ENST00000470623,;"	"T"	"ENSG00000245768"	"ENST00000500117"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2296"	""	""	""	""	""	"1"	NA	1	"RP11-410D17.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"75174264-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242718446601942	"WGS"	FALSE
"6293"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	60380417	60380417	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"71"	40	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7517d918-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36036036036036	"WGS"	FALSE
"6294"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	61058261	61058261	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"66"	28	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"75181e96-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297872340425532	"WGS"	FALSE
"6295"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	61135717	61135717	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"68"	27	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"751826c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284210526315789	"WGS"	FALSE
"6296"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	61671262	61671262	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"74"	35	68	"68"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75184ab0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.321100917431193	"WGS"	FALSE
"6297"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	63000180	63000180	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"72"	34	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7518b2ac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.320754716981132	"WGS"	FALSE
"6298"	"RP11-21L1.1"	0	"mskcc.org"	"GRCh37"	"16"	63970563	63970563	"+"	"RNA"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.882G>T"	""	""	"ENST00000568699"	"1/1"	108	"100"	8	47	"47"	0	"RP11-21L1.1,non_coding_transcript_exon_variant,,ENST00000568699,;"	"T"	"ENSG00000261653"	"ENST00000568699"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"882/1129"	""	""	""	""	""	"1"	NA	1	"RP11-21L1.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75190eaa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"6299"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	64856337	64856337	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"74"	26	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"75194492-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26	"WGS"	FALSE
"6300"	"RP11-95H3.1"	0	"mskcc.org"	"GRCh37"	"16"	65196486	65196486	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.406+12583C>A"	""	""	"ENST00000563754"	""	93	"63"	30	52	"52"	0	"RP11-95H3.1,intron_variant,,ENST00000563754,;"	"T"	"ENSG00000259847"	"ENST00000563754"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/750"	""	""	""	""	""	"1"	NA	-1	"RP11-95H3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"75196e7c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32258064516129	"WGS"	FALSE
"6301"	"RP11-256I9.3"	0	"mskcc.org"	"GRCh37"	"16"	65270072	65270072	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.125+2989G>A"	""	""	"ENST00000562656"	""	106	"77"	29	48	"48"	0	"RP11-256I9.3,intron_variant,,ENST00000562656,;RP11-256I9.2,upstream_gene_variant,,ENST00000567058,;RP11-256I9.2,upstream_gene_variant,,ENST00000565901,;"	"A"	"ENSG00000260364"	"ENST00000562656"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/781"	""	""	""	""	""	"1"	NA	1	"RP11-256I9.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7519717e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273584905660377	"WGS"	FALSE
"6302"	"LINC00922"	283867	"mskcc.org"	"GRCh37"	"16"	65414428	65414428	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.218-16717G>C"	""	""	"ENST00000569736"	""	90	"65"	25	55	"55"	0	"LINC00922,intron_variant,,ENST00000569736,;LINC00922,intron_variant,,ENST00000564041,;LINC00922,intron_variant,,ENST00000568492,;RP11-256I9.3,intron_variant,,ENST00000562656,;"	"G"	"ENSG00000261742"	"ENST00000569736"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1760"	""	""	""	""	""	"1"	NA	-1	"LINC00922"	"HGNC"	27545	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"75197f3e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"6303"	"ENSR00001668566"	0	"mskcc.org"	"GRCh37"	"16"	67537404	67537404	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001668566"	""	77	"71"	6	37	"37"	0	""	"C"	""	"ENSR00001668566"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"751a795c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"6304"	"CDH3"	1001	"mskcc.org"	"GRCh37"	"16"	68694851	68694851	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.160+15198C>T"	""	""	"ENST00000264012"	""	68	"48"	20	46	"46"	0	"CDH3,intron_variant,,ENST00000264012,NM_001793.4;CDH3,intron_variant,,ENST00000429102,;CDH3,intron_variant,,ENST00000581171,;CDH3,intron_variant,,ENST00000542274,;CDH3,intron_variant,,ENST00000566808,;"	"T"	"ENSG00000062038"	"ENST00000264012"	"Transcript"	"intron_variant"	"-/3702"	"-/2490"	"-/829"	""	""	""	"1"	NA	1	"CDH3"	"HGNC"	1762	"protein_coding"	"YES"	"CCDS10868.1"	"ENSP00000264012"	"P22223"	"J3KTE9"	"UPI0000161BFF"	"NM_001793.4"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"751b174a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"6305"	"TANGO6"	79613	"mskcc.org"	"GRCh37"	"16"	69027967	69027967	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2842+19896A>C"	""	""	"ENST00000261778"	""	101	"72"	29	61	"61"	0	"TANGO6,intron_variant,,ENST00000261778,NM_024562.1;TANGO6,intron_variant,,ENST00000562000,;TANGO6,intron_variant,,ENST00000568361,;"	"C"	"ENSG00000103047"	"ENST00000261778"	"Transcript"	"intron_variant"	"-/4816"	"-/3285"	"-/1094"	""	""	""	"1"	NA	1	"TANGO6"	"HGNC"	25749	"protein_coding"	"YES"	"CCDS45516.1"	"ENSP00000261778"	"Q9C0B7"	"B3KTB6"	"UPI00001FF4A8"	"NM_024562.1"	""	""	""	"15/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"751b4e72-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287128712871287	"WGS"	FALSE
"6306"	"WWP2"	11060	"mskcc.org"	"GRCh37"	"16"	69888996	69888996	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.575+12973A>T"	""	""	"ENST00000359154"	""	96	"91"	5	54	"54"	0	"WWP2,intron_variant,,ENST00000359154,NM_001270454.1,NM_007014.4;WWP2,intron_variant,,ENST00000448661,;WWP2,intron_variant,,ENST00000356003,;WWP2,intron_variant,,ENST00000542271,NM_001270453.1;WWP2,intron_variant,,ENST00000569174,NM_001270455.1;WWP2,intron_variant,,ENST00000544162,;WWP2,intron_variant,,ENST00000563618,;WWP2,intron_variant,,ENST00000567986,;"	"T"	"ENSG00000198373"	"ENST00000359154"	"Transcript"	"intron_variant"	"-/4515"	"-/2613"	"-/870"	""	""	""	"1"	NA	1	"WWP2"	"HGNC"	16804	"protein_coding"	"YES"	"CCDS10885.1"	"ENSP00000352069"	"O00308"	"H3BRX8,H3BPJ8,B4DHF6"	"UPI000006CD16"	"NM_001270454.1,NM_007014.4"	""	""	""	"6/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"751be54e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0520833333333333	"WGS"	FALSE
"6307"	"RP11-510M2.5"	0	"mskcc.org"	"GRCh37"	"16"	71578862	71578862	"+"	"5'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000568523"	""	95	"64"	31	52	"51"	1	"ZNF19,intron_variant,,ENST00000566202,;ZNF19,intron_variant,,ENST00000564225,;RP11-510M2.5,upstream_gene_variant,,ENST00000568523,;ZNF19,intron_variant,,ENST00000568446,;"	"G"	"ENSG00000260015"	"ENST00000568523"	"Transcript"	"upstream_gene_variant"	"-/409"	""	""	""	""	""	"1"	"3134"	-1	"RP11-510M2.5"	"Clone_based_vega_gene"	NA	"sense_intronic"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"751d4f2e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326315789473684	"WGS"	FALSE
"6308"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	73711732	73711732	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"75"	33	59	"59"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"751e46ae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305555555555556	"WGS"	FALSE
"6309"	"AC009120.4"	101928035	"mskcc.org"	"GRCh37"	"16"	74247220	74247220	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs780936823"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.170+2031C>T"	""	""	"ENST00000568137"	""	90	"66"	24	44	"44"	0	"AC009120.4,intron_variant,,ENST00000568137,;AC009120.4,intron_variant,,ENST00000569389,;AC009120.4,intron_variant,,ENST00000562888,;"	"A"	"ENSG00000261404"	"ENST00000568137"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/966"	""	""	""	""	"rs780936823"	"1"	NA	-1	"AC009120.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"751e8376-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"6310"	"GLG1"	2734	"mskcc.org"	"GRCh37"	"16"	74580573	74580573	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.439-14522A>T"	""	""	"ENST00000205061"	""	90	"85"	5	37	"37"	0	"GLG1,intron_variant,,ENST00000422840,NM_001145667.1;GLG1,intron_variant,,ENST00000205061,NM_012201.5;GLG1,intron_variant,,ENST00000447066,NM_001145666.1;GLG1,intron_variant,,ENST00000565474,;GLG1,intron_variant,,ENST00000565260,;GLG1,intron_variant,,ENST00000562090,;GLG1,intron_variant,,ENST00000567951,;"	"A"	"ENSG00000090863"	"ENST00000205061"	"Transcript"	"intron_variant"	"-/3730"	"-/3612"	"-/1203"	""	""	""	"1"	NA	-1	"GLG1"	"HGNC"	4316	"protein_coding"	"YES"	"CCDS32485.1"	"ENSP00000205061"	"Q92896"	"Q6ZMF1,H3BQT1"	"UPI00001FFBD9"	"NM_012201.5"	""	""	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"751f18a4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"6311"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	77519958	77519958	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"83"	44	56	"56"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"75202974-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346456692913386	"WGS"	FALSE
"6312"	"WWOX"	51741	"mskcc.org"	"GRCh37"	"16"	79246742	79246742	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000566780"	""	106	"95"	11	74	"74"	0	"WWOX,downstream_gene_variant,,ENST00000566780,NM_016373.2;WWOX,downstream_gene_variant,,ENST00000406884,;WWOX,downstream_gene_variant,,ENST00000539474,;WWOX,downstream_gene_variant,,ENST00000402655,;RP11-679B19.2,non_coding_transcript_exon_variant,,ENST00000569677,;WWOX,downstream_gene_variant,,ENST00000566103,;WWOX,downstream_gene_variant,,ENST00000569332,;"	"T"	"ENSG00000186153"	"ENST00000566780"	"Transcript"	"downstream_gene_variant"	"-/2482"	"-/1245"	"-/414"	""	""	""	"1"	"178"	1	"WWOX"	"HGNC"	12799	"protein_coding"	"YES"	"CCDS42196.1"	"ENSP00000457230"	"Q9NZC7"	""	"UPI000004C797"	"NM_016373.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"7520fbce-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10377358490566	"WGS"	FALSE
"6313"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	79672980	79672980	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"rs139074244"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"68"	30	66	"66"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139074244"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0032"	"C:0.0121"	"C:0"	NA	"C:0"	"C:0"	"C:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"752111fe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306122448979592	"WGS"	FALSE
"6314"	"BCMO1"	53630	"mskcc.org"	"GRCh37"	"16"	81324362	81324362	"+"	"3'UTR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*180A>C"	""	""	"ENST00000258168"	"11/11"	86	"63"	23	75	"75"	0	"BCMO1,3_prime_UTR_variant,,ENST00000258168,NM_017429.2;BCMO1,downstream_gene_variant,,ENST00000425577,;BCMO1,downstream_gene_variant,,ENST00000563804,;"	"C"	"ENSG00000135697"	"ENST00000258168"	"Transcript"	"3_prime_UTR_variant"	"2285/2670"	"-/1644"	"-/547"	""	""	""	"1"	NA	1	"BCMO1"	"HGNC"	13815	"protein_coding"	"YES"	"CCDS10934.1"	"ENSP00000258168"	"Q9HAY6"	""	"UPI0000049CF7"	"NM_017429.2"	""	""	"11/11"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"7521aa4c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267441860465116	"WGS"	FALSE
"6315"	"CMIP"	80790	"mskcc.org"	"GRCh37"	"16"	81510717	81510717	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.300+31571A>C"	""	""	"ENST00000537098"	""	94	"64"	30	55	"54"	1	"CMIP,intron_variant,,ENST00000537098,NM_198390.2;RP11-391L3.5,upstream_gene_variant,,ENST00000567149,;"	"C"	"ENSG00000153815"	"ENST00000537098"	"Transcript"	"intron_variant"	"-/4357"	"-/2322"	"-/773"	""	""	""	"1"	NA	1	"CMIP"	"HGNC"	24319	"protein_coding"	"YES"	"CCDS54044.1"	"ENSP00000446100"	"Q8IY22"	""	"UPI00001FFCBD"	"NM_198390.2"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7521c68a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319148936170213	"WGS"	FALSE
"6316"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	82397327	82397327	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"52"	31	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"752236d8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373493975903614	"WGS"	FALSE
"6317"	"KCNG4"	93107	"mskcc.org"	"GRCh37"	"16"	84252022	84252022	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000308251"	""	93	"68"	25	54	"54"	0	"KCNG4,downstream_gene_variant,,ENST00000308251,NM_172347.2;"	"A"	"ENSG00000168418"	"ENST00000308251"	"Transcript"	"downstream_gene_variant"	"-/1629"	"-/1560"	"-/519"	""	""	""	"1"	"3801"	-1	"KCNG4"	"HGNC"	19697	"protein_coding"	"YES"	"CCDS10945.1"	"ENSP00000312129"	"Q8TDN1"	"Q547S7"	"UPI00000557D8"	"NM_172347.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"75230e00-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"6318"	"TLDC1"	57707	"mskcc.org"	"GRCh37"	"16"	84567018	84567018	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-26+20534C>T"	""	""	"ENST00000565079"	""	109	"81"	28	49	"49"	0	"TLDC1,intron_variant,,ENST00000565079,;"	"A"	"ENSG00000140950"	"ENST00000565079"	"Transcript"	"intron_variant"	"-/557"	"-/444"	"-/148"	""	""	""	"1"	NA	-1	"TLDC1"	"HGNC"	29325	"protein_coding"	""	""	"ENSP00000457557"	""	"H3BUB0,H3BTC5,H3BQ13"	"UPI000246713A"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"75233466-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256880733944954	"WGS"	FALSE
"6319"	"CRISPLD2"	83716	"mskcc.org"	"GRCh37"	"16"	84858897	84858897	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-75+5158C>G"	""	""	"ENST00000262424"	""	93	"87"	6	38	"38"	0	"CRISPLD2,intron_variant,,ENST00000262424,NM_031476.3;CRISPLD2,intron_variant,,ENST00000567845,;CRISPLD2,intron_variant,,ENST00000564567,;CRISPLD2,intron_variant,,ENST00000569090,;CRISPLD2,intron_variant,,ENST00000566151,;RP11-254F19.2,upstream_gene_variant,,ENST00000562393,;CRISPLD2,intron_variant,,ENST00000566431,;CRISPLD2,intron_variant,,ENST00000565561,;CRISPLD2,intron_variant,,ENST00000569262,;"	"G"	"ENSG00000103196"	"ENST00000262424"	"Transcript"	"intron_variant"	"-/4584"	"-/1494"	"-/497"	""	""	""	"1"	NA	1	"CRISPLD2"	"HGNC"	25248	"protein_coding"	"YES"	"CCDS10949.1"	"ENSP00000262424"	"Q9H0B8"	"H3BTP0,H3BSZ9,H3BS62"	"UPI00000411B0"	"NM_031476.3"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"75235810-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"6320"	"CRISPLD2"	83716	"mskcc.org"	"GRCh37"	"16"	84924519	84924519	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1439+1550T>A"	""	""	"ENST00000262424"	""	100	"77"	23	62	"62"	0	"CRISPLD2,intron_variant,,ENST00000262424,NM_031476.3;CRISPLD2,intron_variant,,ENST00000567845,;CRISPLD2,intron_variant,,ENST00000566165,;"	"A"	"ENSG00000103196"	"ENST00000262424"	"Transcript"	"intron_variant"	"-/4584"	"-/1494"	"-/497"	""	""	""	"1"	NA	1	"CRISPLD2"	"HGNC"	25248	"protein_coding"	"YES"	"CCDS10949.1"	"ENSP00000262424"	"Q9H0B8"	"H3BTP0,H3BSZ9,H3BS62"	"UPI00000411B0"	"NM_031476.3"	""	""	""	"14/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75235d06-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23	"WGS"	FALSE
"6321"	"RP11-254F19.3"	0	"mskcc.org"	"GRCh37"	"16"	84970269	84970269	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.254-1272T>C"	""	""	"ENST00000569104"	""	67	"61"	6	42	"42"	0	"RP11-254F19.3,intron_variant,,ENST00000569104,;"	"C"	"ENSG00000260340"	"ENST00000569104"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/598"	""	""	""	""	""	"1"	NA	1	"RP11-254F19.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"75237548-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0895522388059701	"WGS"	FALSE
"6322"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	85373532	85373532	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"67"	20	50	"50"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"7523c6ba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229885057471264	"WGS"	FALSE
"6323"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	86898740	86898740	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"86"	31	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"7525a9bc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264957264957265	"WGS"	FALSE
"6324"	"C16orf95"	100506581	"mskcc.org"	"GRCh37"	"16"	87281518	87281518	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.110+54741G>T"	""	""	"ENST00000562840"	""	87	"82"	5	47	"47"	0	"C16orf95,intron_variant,,ENST00000562840,;"	"A"	"ENSG00000260456"	"ENST00000562840"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1650"	""	""	""	""	""	"1"	NA	-1	"C16orf95"	"HGNC"	40033	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"75261078-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0574712643678161	"WGS"	FALSE
"6325"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	87848010	87848010	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"53"	4	26	"26"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75268d6e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0701754385964912	"WGS"	FALSE
"6326"	"CBFA2T3"	863	"mskcc.org"	"GRCh37"	"16"	88954795	88954795	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.712-2245G>A"	""	""	"ENST00000268679"	""	36	"25"	11	23	"23"	0	"CBFA2T3,intron_variant,,ENST00000268679,NM_005187.5;CBFA2T3,intron_variant,,ENST00000360302,;CBFA2T3,intron_variant,,ENST00000436887,;CBFA2T3,intron_variant,,ENST00000448839,;CBFA2T3,intron_variant,,ENST00000327483,NM_175931.2;CBFA2T3,intron_variant,,ENST00000569464,;CBFA2T3,downstream_gene_variant,,ENST00000563640,;CBFA2T3,downstream_gene_variant,,ENST00000562719,;CBFA2T3,downstream_gene_variant,,ENST00000569443,;RP11-830F9.5,downstream_gene_variant,,ENST00000565053,;RP11-830F9.5,downstream_gene_variant,,ENST00000569249,;RP11-830F9.5,downstream_gene_variant,,ENST00000562574,;RP11-830F9.5,downstream_gene_variant,,ENST00000562405,;"	"T"	"ENSG00000129993"	"ENST00000268679"	"Transcript"	"intron_variant"	"-/4477"	"-/1962"	"-/653"	""	""	""	"1"	NA	-1	"CBFA2T3"	"HGNC"	1537	"protein_coding"	"YES"	"CCDS10972.1"	"ENSP00000268679"	"O75081"	"H3BSI4,H3BR72,H3BMZ0,B3KR45"	"UPI0000167F93"	"NM_005187.5"	""	""	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"75286f6c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305555555555556	"WGS"	TRUE
"6327"	"ANKRD11"	29123	"mskcc.org"	"GRCh37"	"16"	89560645	89560645	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000301030"	""	94	"68"	26	58	"58"	0	"ANKRD11,upstream_gene_variant,,ENST00000301030,NM_001256183.1,NM_013275.5;ANKRD11,upstream_gene_variant,,ENST00000378330,NM_001256182.1;RP11-104N10.1,intron_variant,,ENST00000565623,;RP11-104N10.1,upstream_gene_variant,,ENST00000565310,;SPG7,intron_variant,,ENST00000563783,;SPG7,intron_variant,,ENST00000568509,;ANKRD11,upstream_gene_variant,,ENST00000566973,;ANKRD11,upstream_gene_variant,,ENST00000568512,;ANKRD11,upstream_gene_variant,,ENST00000378332,;"	"T"	"ENSG00000167522"	"ENST00000301030"	"Transcript"	"upstream_gene_variant"	"-/9301"	"-/7992"	"-/2663"	""	""	""	"1"	"3676"	-1	"ANKRD11"	"HGNC"	21316	"protein_coding"	"YES"	"CCDS32513.1"	"ENSP00000301030"	"Q6UB99"	""	"UPI00004569E1"	"NM_001256183.1,NM_013275.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"7529bdea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276595744680851	"WGS"	FALSE
"6328"	"AC108004.2"	100506371	"mskcc.org"	"GRCh37"	"17"	42505	42505	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000576171"	""	39	"35"	4	17	"17"	0	"AC108004.2,upstream_gene_variant,,ENST00000576171,;"	"C"	"ENSG00000273172"	"ENST00000576171"	"Transcript"	"upstream_gene_variant"	"-/1185"	""	""	""	""	""	"1"	"1127"	-1	"AC108004.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"752b2e8c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"6329"	"VPS53"	55275	"mskcc.org"	"GRCh37"	"17"	479845	479845	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1313+9665A>G"	""	""	"ENST00000437048"	""	89	"82"	7	37	"37"	0	"VPS53,intron_variant,,ENST00000437048,NM_001128159.2;VPS53,intron_variant,,ENST00000446250,;VPS53,intron_variant,,ENST00000291074,NM_018289.3;VPS53,intron_variant,,ENST00000571805,;VPS53,intron_variant,,ENST00000401468,;VPS53,intron_variant,,ENST00000574029,;VPS53,intron_variant,,ENST00000576149,;VPS53,intron_variant,,ENST00000573028,;VPS53,intron_variant,,ENST00000389040,;"	"C"	"ENSG00000141252"	"ENST00000437048"	"Transcript"	"intron_variant"	"-/13106"	"-/2499"	"-/832"	""	""	""	"1"	NA	-1	"VPS53"	"HGNC"	25608	"protein_coding"	"YES"	"CCDS45558.1"	"ENSP00000401435"	"Q5VIR6"	"Q8NCR1,I3L4P9"	"UPI0000DBEF01"	"NM_001128159.2"	""	""	""	"13/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"752c7954-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	FALSE
"6330"	"AC144836.1"	0	"mskcc.org"	"GRCh37"	"17"	1147836	1147836	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.88-2351T>A"	""	""	"ENST00000575911"	""	50	"46"	4	28	"28"	0	"AC144836.1,intron_variant,,ENST00000575911,;"	"T"	"ENSG00000262213"	"ENST00000575911"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/340"	""	""	""	""	""	"1"	NA	-1	"AC144836.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"752e3cbc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"6331"	"RP11-64J4.2"	0	"mskcc.org"	"GRCh37"	"17"	3274906	3274906	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.265+12192T>C"	""	""	"ENST00000573491"	""	17	"13"	4	13	"13"	0	"RP11-64J4.2,intron_variant,,ENST00000573491,;RP11-64J4.2,intron_variant,,ENST00000573901,;RP11-64J4.2,intron_variant,,ENST00000576166,;"	"G"	"ENSG00000262670"	"ENST00000573491"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/586"	""	""	""	""	""	"1"	NA	-1	"RP11-64J4.2"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"75301d16-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"6332"	"NLRP1"	22861	"mskcc.org"	"GRCh37"	"17"	5501520	5501520	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-354-13700A>G"	""	""	"ENST00000576905"	""	118	"80"	38	49	"49"	0	"NLRP1,intron_variant,,ENST00000576905,;NLRP1,intron_variant,,ENST00000572143,;"	"C"	"ENSG00000091592"	"ENST00000576905"	"Transcript"	"intron_variant"	"-/555"	"-/107"	"-/35"	""	""	""	"1"	NA	-1	"NLRP1"	"HGNC"	14374	"protein_coding"	""	""	"ENSP00000458303"	""	"I3L0S2"	"UPI00025A2D79"	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"753248a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322033898305085	"WGS"	FALSE
"6333"	"CLEC10A"	10462	"mskcc.org"	"GRCh37"	"17"	6980829	6980829	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.184+487A>T"	""	""	"ENST00000254868"	""	43	"37"	6	15	"15"	0	"CLEC10A,intron_variant,,ENST00000576617,;CLEC10A,intron_variant,,ENST00000254868,NM_182906.2;CLEC10A,intron_variant,,ENST00000416562,NM_006344.2;CLEC10A,intron_variant,,ENST00000571664,;CLEC10A,upstream_gene_variant,,ENST00000576549,;CLEC10A,downstream_gene_variant,,ENST00000571624,;"	"A"	"ENSG00000132514"	"ENST00000254868"	"Transcript"	"intron_variant"	"-/1797"	"-/951"	"-/316"	""	""	""	"1"	NA	-1	"CLEC10A"	"HGNC"	16916	"protein_coding"	"YES"	"CCDS11087.1"	"ENSP00000254868"	"Q8IUN9"	""	"UPI0000074738"	"NM_182906.2"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"75331ba6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"6334"	"ASGR2"	433	"mskcc.org"	"GRCh37"	"17"	7023902	7023902	"+"	"5'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000574868"	""	83	"59"	24	29	"29"	0	"ASGR2,upstream_gene_variant,,ENST00000574868,;"	"C"	"ENSG00000161944"	"ENST00000574868"	"Transcript"	"upstream_gene_variant"	"-/1202"	"-/406"	"-/135"	""	""	""	"1"	"4883"	-1	"ASGR2"	"HGNC"	743	"protein_coding"	""	""	"ENSP00000458835"	""	"I3L1H2"	"UPI00025A2C46"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7533265a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289156626506024	"WGS"	FALSE
"6335"	"CHD3"	1107	"mskcc.org"	"GRCh37"	"17"	7817382	7817382	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000380358"	""	69	"63"	6	49	"49"	0	"CHD3,downstream_gene_variant,,ENST00000380358,NM_001005271.2;CHD3,downstream_gene_variant,,ENST00000330494,NM_001005273.2;CHD3,downstream_gene_variant,,ENST00000358181,NM_005852.3;CHD3,downstream_gene_variant,,ENST00000439235,;CHD3,downstream_gene_variant,,ENST00000449744,;CHD3,downstream_gene_variant,,ENST00000573936,;AC025335.1,non_coding_transcript_exon_variant,,ENST00000324348,;CHD3,downstream_gene_variant,,ENST00000470531,;CHD3,downstream_gene_variant,,ENST00000481999,;"	"C"	"ENSG00000170004"	"ENST00000380358"	"Transcript"	"downstream_gene_variant"	"-/7356"	"-/6180"	"-/2059"	""	""	""	"1"	"1304"	1	"CHD3"	"HGNC"	1918	"protein_coding"	"YES"	"CCDS32553.2"	"ENSP00000369716"	"Q12873"	"Q2TAZ1"	"UPI00004DDA7C"	"NM_001005271.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"7533b458-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"6336"	"C17orf59"	54785	"mskcc.org"	"GRCh37"	"17"	8097221	8097221	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000389017"	""	75	"46"	29	51	"51"	0	"C17orf59,upstream_gene_variant,,ENST00000389017,NM_017622.2;"	"A"	"ENSG00000196544"	"ENST00000389017"	"Transcript"	"upstream_gene_variant"	"-/1913"	"-/1074"	"-/357"	""	""	""	"1"	"3657"	-1	"C17orf59"	"HGNC"	25939	"protein_coding"	"YES"	"CCDS11133.2"	"ENSP00000373669"	"Q96GS4"	""	"UPI000022A2C3"	"NM_017622.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"7533dffa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.386666666666667	"WGS"	FALSE
"6337"	"AURKB"	9212	"mskcc.org"	"GRCh37"	"17"	8106177	8106177	"+"	"3'Flank"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000585124"	""	92	"63"	29	41	"40"	1	"AURKB,downstream_gene_variant,,ENST00000316199,NM_001284526.1;AURKB,downstream_gene_variant,,ENST00000585124,NM_004217.3;AURKB,downstream_gene_variant,,ENST00000534871,NM_001256834.1;AURKB,downstream_gene_variant,,ENST00000578549,;AURKB,downstream_gene_variant,,ENST00000535053,;AURKB,downstream_gene_variant,,ENST00000577833,;AURKB,downstream_gene_variant,,ENST00000582368,;AURKB,downstream_gene_variant,,ENST00000581511,;AURKB,downstream_gene_variant,,ENST00000584972,;AURKB,downstream_gene_variant,,ENST00000583915,;AURKB,downstream_gene_variant,,ENST00000584561,;AURKB,downstream_gene_variant,,ENST00000580998,;AURKB,downstream_gene_variant,,ENST00000580390,;AURKB,downstream_gene_variant,,ENST00000578753,;RP11-599B13.8,upstream_gene_variant,,ENST00000603489,;"	"C"	"ENSG00000178999"	"ENST00000585124"	"Transcript"	"downstream_gene_variant"	"-/1227"	"-/1035"	"-/344"	""	""	""	"1"	"1914"	-1	"AURKB"	"HGNC"	11390	"protein_coding"	"YES"	"CCDS11134.1"	"ENSP00000463999"	"Q96GD4"	"J3QR41,J3KTD6,J3KRJ2"	"UPI000013FD00"	"NM_004217.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"7533e6da-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315217391304348	"WGS"	FALSE
"6338"	"NTN1"	9423	"mskcc.org"	"GRCh37"	"17"	9037639	9037639	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1019-28491A>T"	""	""	"ENST00000173229"	""	88	"81"	7	53	"53"	0	"NTN1,intron_variant,,ENST00000173229,NM_004822.2;NTN1,intron_variant,,ENST00000538852,;NTN1,intron_variant,,ENST00000546090,;"	"T"	"ENSG00000065320"	"ENST00000173229"	"Transcript"	"intron_variant"	"-/5954"	"-/1815"	"-/604"	""	""	""	"1"	NA	1	"NTN1"	"HGNC"	8029	"protein_coding"	"YES"	"CCDS11148.1"	"ENSP00000173229"	"O95631"	""	"UPI000013C5C7"	"NM_004822.2"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"75346362-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0795454545454545	"WGS"	FALSE
"6339"	"MYH13"	8735	"mskcc.org"	"GRCh37"	"17"	10210753	10210753	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs187599009"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5170-372G>A"	""	""	"ENST00000418404"	""	87	"61"	26	56	"56"	0	"MYH13,intron_variant,,ENST00000418404,;MYH13,intron_variant,,ENST00000252172,NM_003802.2;RP11-401O9.4,intron_variant,,ENST00000609088,;"	"T"	"ENSG00000006788"	"ENST00000418404"	"Transcript"	"intron_variant"	"-/6296"	"-/5817"	"-/1938"	""	""	"rs187599009"	"1"	NA	-1	"MYH13"	"HGNC"	7571	"protein_coding"	"YES"	"CCDS45613.1"	"ENSP00000404570"	"Q9UKX3"	""	"UPI0000DB39EA"	""	""	""	""	"34/40"	""	"T:0.0004"	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75352f18-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298850574712644	"WGS"	FALSE
"6340"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	11015463	11015463	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"86"	5	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"753599ee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0549450549450549	"WGS"	FALSE
"6341"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	14162162	14162162	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"63"	27	49	"49"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7536e326-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"6342"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	14366710	14366710	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"93"	6	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7536f438-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"6343"	"TVP23C"	201158	"mskcc.org"	"GRCh37"	"17"	15464404	15464404	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.12+2347T>G"	""	""	"ENST00000225576"	""	99	"92"	7	45	"45"	0	"TVP23C,intron_variant,,ENST00000584811,;TVP23C-CDRT4,intron_variant,,ENST00000522212,NM_001204478.1;TVP23C,intron_variant,,ENST00000428082,NM_001135036.1;TVP23C,intron_variant,,ENST00000438826,;TVP23C,intron_variant,,ENST00000225576,NM_145301.2;TVP23C,intron_variant,,ENST00000518321,;TVP23C,intron_variant,,ENST00000519970,;TVP23C,intron_variant,,ENST00000419890,;CDRT1,downstream_gene_variant,,ENST00000472534,;CDRT1,downstream_gene_variant,,ENST00000312127,;TVP23C-CDRT4,intron_variant,,ENST00000557349,;TVP23C,intron_variant,,ENST00000523573,;TVP23C,intron_variant,,ENST00000521179,;TVP23C-CDRT4,intron_variant,,ENST00000481756,;TVP23C-CDRT4,intron_variant,,ENST00000518506,;"	"C"	"ENSG00000175106"	"ENST00000225576"	"Transcript"	"intron_variant"	"-/1527"	"-/831"	"-/276"	""	""	""	"1"	NA	-1	"TVP23C"	"HGNC"	30453	"protein_coding"	"YES"	"CCDS11170.1"	"ENSP00000225576"	"Q96ET8"	"E5RGC5"	"UPI000013C872"	"NM_145301.2"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"753752e8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0707070707070707	"WGS"	FALSE
"6344"	"NCOR1"	9611	"mskcc.org"	"GRCh37"	"17"	16015242	16015242	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2056-3016C>T"	""	""	"ENST00000268712"	""	93	"72"	21	62	"62"	0	"NCOR1,intron_variant,,ENST00000268712,NM_006311.3;NCOR1,intron_variant,,ENST00000395851,NM_001190440.1;NCOR1,intron_variant,,ENST00000395848,NM_001190438.1;NCOR1,intron_variant,,ENST00000583226,;"	"A"	"ENSG00000141027"	"ENST00000268712"	"Transcript"	"intron_variant"	"-/10720"	"-/7323"	"-/2440"	""	""	""	"1"	NA	-1	"NCOR1"	"HGNC"	7672	"protein_coding"	"YES"	"CCDS11175.1"	"ENSP00000268712"	"O75376"	"Q9NSZ0,C9JAP0,B4DJ25"	"UPI000013D7D5"	"NM_006311.3"	""	""	""	"18/45"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7537ed8e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225806451612903	"WGS"	TRUE
"6345"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	17980906	17980906	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"72"	6	34	"34"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"75395a20-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"6346"	"ENSR00001674334"	0	"mskcc.org"	"GRCh37"	"17"	18721140	18721140	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001674334"	""	85	"61"	24	62	"62"	0	""	"C"	""	"ENSR00001674334"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"753a8404-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282352941176471	"WGS"	FALSE
"6347"	"AKAP10"	11216	"mskcc.org"	"GRCh37"	"17"	19885384	19885384	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000225737"	""	103	"95"	8	52	"52"	0	"AKAP10,upstream_gene_variant,,ENST00000225737,NM_007202.3;AKAP10,upstream_gene_variant,,ENST00000395536,;AKAP10,upstream_gene_variant,,ENST00000576896,;AKAP10,upstream_gene_variant,,ENST00000572155,;AKAP10,upstream_gene_variant,,ENST00000582611,;AKAP10,upstream_gene_variant,,ENST00000571858,;AKAP10,upstream_gene_variant,,ENST00000572341,;"	"G"	"ENSG00000108599"	"ENST00000225737"	"Transcript"	"upstream_gene_variant"	"-/4072"	"-/1989"	"-/662"	""	""	""	"1"	"4234"	-1	"AKAP10"	"HGNC"	368	"protein_coding"	"YES"	"CCDS11214.1"	"ENSP00000225737"	"O43572"	""	"UPI000006E08E"	"NM_007202.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"753b3ba6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0776699029126214	"WGS"	FALSE
"6348"	"AC087499.7"	0	"mskcc.org"	"GRCh37"	"17"	20545667	20545667	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000411576"	""	91	"62"	29	45	"45"	0	"AC087499.7,upstream_gene_variant,,ENST00000411576,;"	"A"	"ENSG00000236504"	"ENST00000411576"	"Transcript"	"upstream_gene_variant"	"-/835"	""	""	""	""	""	"1"	"4933"	1	"AC087499.7"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"753bebf0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318681318681319	"WGS"	FALSE
"6349"	"RP11-344E13.3"	440416	"mskcc.org"	"GRCh37"	"17"	20811981	20811981	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000577537"	""	82	"76"	6	35	"35"	0	"RP11-344E13.3,intron_variant,,ENST00000577860,;RP11-344E13.3,intron_variant,,ENST00000417232,;RP11-344E13.3,intron_variant,,ENST00000439794,;RP11-344E13.3,downstream_gene_variant,,ENST00000577537,;RP11-344E13.3,downstream_gene_variant,,ENST00000583962,;"	"G"	"ENSG00000233098"	"ENST00000577537"	"Transcript"	"downstream_gene_variant"	"-/3727"	""	""	""	""	""	"1"	"3438"	1	"RP11-344E13.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"753c266a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"6350"	"AC087393.1"	101060544	"mskcc.org"	"GRCh37"	"17"	20995951	20995951	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000456235"	""	83	"78"	5	53	"53"	0	"AC087393.1,downstream_gene_variant,,ENST00000456235,;"	"T"	"ENSG00000236819"	"ENST00000456235"	"Transcript"	"downstream_gene_variant"	"-/750"	""	""	""	""	""	"1"	"2023"	1	"AC087393.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"753c3bfa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0602409638554217	"WGS"	FALSE
"6351"	"NCOR1P2"	0	"mskcc.org"	"GRCh37"	"17"	21543343	21543343	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.105-1071T>C"	""	""	"ENST00000584728"	""	104	"75"	29	58	"58"	0	"NCOR1P2,intron_variant,,ENST00000584728,;"	"C"	"ENSG00000265019"	"ENST00000584728"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/294"	""	""	""	""	""	"1"	NA	1	"NCOR1P2"	"HGNC"	42997	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"753d031e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278846153846154	"WGS"	FALSE
"6352"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	21969069	21969069	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"60"	31	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"753ddfd2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340659340659341	"WGS"	FALSE
"6353"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	25767970	25767970	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"69"	6	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"754120ca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"6354"	"RPL23A"	6147	"mskcc.org"	"GRCh37"	"17"	27049027	27049027	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.210-714G>T"	""	""	"ENST00000422514"	""	90	"65"	25	56	"56"	0	"RPL23A,intron_variant,,ENST00000422514,NM_000984.5;RPL23A,intron_variant,,ENST00000394938,;RPL23A,intron_variant,,ENST00000472628,;RPL23A,intron_variant,,ENST00000496182,;RPL23A,intron_variant,,ENST00000578181,;RPL23A,intron_variant,,ENST00000355731,;RPL23A,intron_variant,,ENST00000394935,;RAB34,upstream_gene_variant,,ENST00000395245,NM_031934.5,NM_001256281.1;RAB34,upstream_gene_variant,,ENST00000395242,;RAB34,upstream_gene_variant,,ENST00000395243,NM_001144942.1;RAB34,upstream_gene_variant,,ENST00000301043,NM_001256277.1;RAB34,upstream_gene_variant,,ENST00000447716,NM_001144943.1,NM_001142624.2;RAB34,upstream_gene_variant,,ENST00000415040,NM_001256276.1;RAB34,upstream_gene_variant,,ENST00000450529,;RAB34,upstream_gene_variant,,ENST00000453384,NM_001142625.2;RAB34,upstream_gene_variant,,ENST00000353676,;TLCD1,downstream_gene_variant,,ENST00000292090,NM_138463.3;RAB34,upstream_gene_variant,,ENST00000430132,NM_001256278.1;RAB34,upstream_gene_variant,,ENST00000436730,;TLCD1,downstream_gene_variant,,ENST00000394933,NM_001160407.1;RAB34,upstream_gene_variant,,ENST00000412625,;NEK8,upstream_gene_variant,,ENST00000579060,;NEK8,upstream_gene_variant,,ENST00000579671,;RAB34,upstream_gene_variant,,ENST00000419712,;RAB34,upstream_gene_variant,,ENST00000580843,;TLCD1,downstream_gene_variant,,ENST00000580518,;RAB34,upstream_gene_variant,,ENST00000582934,;RAB34,upstream_gene_variant,,ENST00000583538,;TLCD1,downstream_gene_variant,,ENST00000581236,;SNORD4B,upstream_gene_variant,,ENST00000459083,NR_000009.1;SNORD4A,upstream_gene_variant,,ENST00000459174,NR_000010.1;SNORD42B,downstream_gene_variant,,ENST00000458893,NR_000013.1;SNORD42A,upstream_gene_variant,,ENST00000459584,NR_000014.1;AC010761.8,intron_variant,,ENST00000582718,;RAB34,upstream_gene_variant,,ENST00000483554,;RAB34,upstream_gene_variant,,ENST00000422279,;NEK8,upstream_gene_variant,,ENST00000584342,;RPL23A,downstream_gene_variant,,ENST00000582736,;RAB34,upstream_gene_variant,,ENST00000482688,;RPL23A,upstream_gene_variant,,ENST00000580755,;"	"T"	"ENSG00000198242"	"ENST00000422514"	"Transcript"	"intron_variant"	"-/1562"	"-/471"	"-/156"	""	""	""	"1"	NA	1	"RPL23A"	"HGNC"	10317	"protein_coding"	"YES"	"CCDS11241.1"	"ENSP00000389103"	"P62750"	"K7EMA7"	"UPI0000028D48"	"NM_000984.5"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7541cf16-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"6355"	"TAOK1"	57551	"mskcc.org"	"GRCh37"	"17"	27879350	27879350	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"rs144937107"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000261716"	""	64	"38"	26	47	"46"	1	"TAOK1,downstream_gene_variant,,ENST00000261716,NM_020791.2;"	"A"	"ENSG00000160551"	"ENST00000261716"	"Transcript"	"downstream_gene_variant"	"-/12407"	"-/3006"	"-/1001"	""	""	"rs144937107"	"1"	"428"	1	"TAOK1"	"HGNC"	29259	"protein_coding"	"YES"	"CCDS32601.1"	"ENSP00000261716"	"Q7L7X3"	"J3QS76"	"UPI000004A033"	"NM_020791.2"	""	""	""	""	""	"A:0.0090"	"A:0.0333"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"75425f80-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.40625	"WGS"	FALSE
"6356"	"RP11-640N20.9"	0	"mskcc.org"	"GRCh37"	"17"	30439935	30439935	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.46+1164C>T"	""	""	"ENST00000583895"	""	99	"67"	32	58	"58"	0	"RP11-640N20.9,intron_variant,,ENST00000580412,;RP11-640N20.9,intron_variant,,ENST00000583895,;CTD-2095E4.1,upstream_gene_variant,,ENST00000583470,;"	"A"	"ENSG00000263369"	"ENST00000583895"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/447"	""	""	""	""	""	"1"	NA	-1	"RP11-640N20.9"	"Clone_based_vega_gene"	NA	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"7543c8c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323232323232323	"WGS"	FALSE
"6357"	"ASIC2"	40	"mskcc.org"	"GRCh37"	"17"	31818932	31818932	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.556-379847G>A"	""	""	"ENST00000359872"	""	107	"70"	37	60	"60"	0	"ASIC2,intron_variant,,ENST00000359872,NM_001094.4;"	"T"	"ENSG00000108684"	"ENST00000359872"	"Transcript"	"intron_variant"	"-/3179"	"-/1539"	"-/512"	""	""	""	"1"	NA	-1	"ASIC2"	"HGNC"	99	"protein_coding"	""	"CCDS42296.1"	"ENSP00000352934"	"Q16515"	""	"UPI00000441F0"	"NM_001094.4"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"75448274-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.345794392523364	"WGS"	FALSE
"6358"	"SYNRG"	11276	"mskcc.org"	"GRCh37"	"17"	35880632	35880632	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs75492696"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3777+9C>T"	""	""	"ENST00000339208"	""	94	"74"	20	48	"48"	0	"SYNRG,intron_variant,,ENST00000339208,NM_001163544.1,NM_001163545.1,NM_007247.4;SYNRG,intron_variant,,ENST00000346661,;SYNRG,intron_variant,,ENST00000345615,NM_080550.3,NM_001163546.1;SYNRG,intron_variant,,ENST00000502449,;SYNRG,intron_variant,,ENST00000394378,NM_198882.1;SYNRG,intron_variant,,ENST00000585472,;SYNRG,intron_variant,,ENST00000591288,NM_001163547.1;SYNRG,upstream_gene_variant,,ENST00000590102,;SYNRG,intron_variant,,ENST00000508220,;"	"A"	"ENSG00000006114"	"ENST00000339208"	"Transcript"	"intron_variant"	"-/8229"	"-/3945"	"-/1314"	""	""	"rs75492696"	"1"	NA	-1	"SYNRG"	"HGNC"	557	"protein_coding"	"YES"	"CCDS11321.1"	"ENSP00000343610"	"Q9UMZ2"	""	"UPI000013C4EA"	"NM_001163544.1,NM_001163545.1,NM_007247.4"	""	""	""	"20/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	"1.883e-05"	"0"	"0"	"0"	"0"	"3.685e-05"	"0"	"0"	NA	"PASS"	"CGT"	"75468d1c-ffcc-11e5-9bf8-a690c673b430"	"."	1.885e-05	"2/106088"	"2/106210"	"0/9054"	"0/11192"	"0/7866"	"0/6614"	"2/54274"	"0/694"	"0/16394"	"PASS"	"FALSE"	0.212765957446809	"WGS"	FALSE
"6359"	"FBXL20"	84961	"mskcc.org"	"GRCh37"	"17"	37474742	37474742	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.105-14850G>A"	""	""	"ENST00000264658"	""	77	"70"	7	68	"68"	0	"FBXL20,intron_variant,,ENST00000264658,NM_032875.2;FBXL20,intron_variant,,ENST00000394294,NM_001184906.1;FBXL20,intron_variant,,ENST00000583610,;FBXL20,intron_variant,,ENST00000577399,;"	"T"	"ENSG00000108306"	"ENST00000264658"	"Transcript"	"intron_variant"	"-/2445"	"-/1311"	"-/436"	""	""	""	"1"	NA	-1	"FBXL20"	"HGNC"	24679	"protein_coding"	"YES"	"CCDS32640.1"	"ENSP00000264658"	"Q96IG2"	""	"UPI000000D932"	"NM_032875.2"	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75482604-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"6360"	"WIPF2"	147179	"mskcc.org"	"GRCh37"	"17"	38409565	38409565	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-69-3078T>C"	""	""	"ENST00000323571"	""	75	"70"	5	48	"48"	0	"WIPF2,intron_variant,,ENST00000323571,NM_133264.4;WIPF2,intron_variant,,ENST00000585043,;WIPF2,intron_variant,,ENST00000536600,;WIPF2,intron_variant,,ENST00000394103,;WIPF2,intron_variant,,ENST00000583130,;WIPF2,intron_variant,,ENST00000583268,;WIPF2,intron_variant,,ENST00000584296,;WIPF2,intron_variant,,ENST00000494757,;WIPF2,intron_variant,,ENST00000582781,;WIPF2,upstream_gene_variant,,ENST00000578304,;"	"C"	"ENSG00000171475"	"ENST00000323571"	"Transcript"	"intron_variant"	"-/7474"	"-/1323"	"-/440"	""	""	""	"1"	NA	1	"WIPF2"	"HGNC"	30923	"protein_coding"	"YES"	"CCDS11364.1"	"ENSP00000320924"	"Q8TF74"	"J3QKM5,J3KSA3"	"UPI000004D250"	"NM_133264.4"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"7548d46e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"6361"	"TOP2A"	7153	"mskcc.org"	"GRCh37"	"17"	38578688	38578688	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000423485"	""	79	"74"	5	40	"40"	0	"TOP2A,upstream_gene_variant,,ENST00000423485,NM_001067.3;TOP2A,upstream_gene_variant,,ENST00000581055,;"	"T"	"ENSG00000131747"	"ENST00000423485"	"Transcript"	"upstream_gene_variant"	"-/5758"	"-/4596"	"-/1531"	""	""	""	"1"	"4486"	-1	"TOP2A"	"HGNC"	11989	"protein_coding"	"YES"	"CCDS45672.1"	"ENSP00000411532"	"P11388"	"J3QR57,J3KTB7"	"UPI0000137195"	"NM_001067.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"7548f548-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0632911392405063	"WGS"	FALSE
"6362"	"RP5-1110E20.1"	0	"mskcc.org"	"GRCh37"	"17"	39002686	39002686	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000579136"	""	103	"97"	6	53	"53"	0	"RP5-1110E20.1,upstream_gene_variant,,ENST00000579136,;"	"G"	"ENSG00000265359"	"ENST00000579136"	"Transcript"	"upstream_gene_variant"	"-/258"	""	""	""	""	""	"1"	"4366"	1	"RP5-1110E20.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"754904c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.058252427184466	"WGS"	FALSE
"6363"	"RUNDC1"	146923	"mskcc.org"	"GRCh37"	"17"	41145043	41145043	"+"	"3'UTR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1310G>C"	""	""	"ENST00000361677"	"5/5"	108	"86"	22	39	"39"	0	"RUNDC1,3_prime_UTR_variant,,ENST00000361677,NM_173079.2;RUNDC1,downstream_gene_variant,,ENST00000589705,;Y_RNA,downstream_gene_variant,,ENST00000363257,;"	"C"	"ENSG00000198863"	"ENST00000361677"	"Transcript"	"3_prime_UTR_variant"	"3164/3828"	"-/1842"	"-/613"	""	""	""	"1"	NA	1	"RUNDC1"	"HGNC"	25418	"protein_coding"	"YES"	"CCDS11448.1"	"ENSP00000354622"	"Q96C34"	""	"UPI00001AED0E"	"NM_173079.2"	""	""	"5/5"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"754a8cdc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203703703703704	"WGS"	FALSE
"6364"	"RUNDC1"	146923	"mskcc.org"	"GRCh37"	"17"	41145044	41145044	"+"	"3'UTR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1311G>T"	""	""	"ENST00000361677"	"5/5"	108	"85"	23	39	"39"	0	"RUNDC1,3_prime_UTR_variant,,ENST00000361677,NM_173079.2;RUNDC1,downstream_gene_variant,,ENST00000589705,;Y_RNA,downstream_gene_variant,,ENST00000363257,;"	"T"	"ENSG00000198863"	"ENST00000361677"	"Transcript"	"3_prime_UTR_variant"	"3165/3828"	"-/1842"	"-/613"	""	""	""	"1"	NA	1	"RUNDC1"	"HGNC"	25418	"protein_coding"	"YES"	"CCDS11448.1"	"ENSP00000354622"	"Q96C34"	""	"UPI00001AED0E"	"NM_173079.2"	""	""	"5/5"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"754a8e12-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212962962962963	"WGS"	FALSE
"6365"	"RP11-392O1.4"	0	"mskcc.org"	"GRCh37"	"17"	41680398	41680398	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.110-6857T>C"	""	""	"ENST00000588996"	""	67	"62"	5	36	"36"	0	"RP11-392O1.4,intron_variant,,ENST00000588996,;"	"C"	"ENSG00000267747"	"ENST00000588996"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/561"	""	""	""	""	""	"1"	NA	1	"RP11-392O1.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"754ad5ac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0746268656716418	"WGS"	FALSE
"6366"	"GJC1"	10052	"mskcc.org"	"GRCh37"	"17"	42880989	42880989	"+"	"3'UTR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1006T>G"	""	""	"ENST00000426548"	"3/3"	96	"61"	35	53	"53"	0	"GJC1,3_prime_UTR_variant,,ENST00000426548,NM_001080383.1,NM_005497.3;GJC1,3_prime_UTR_variant,,ENST00000330514,;GJC1,intron_variant,,ENST00000587113,;GJC1,downstream_gene_variant,,ENST00000592524,;GJC1,downstream_gene_variant,,ENST00000590758,;GJC1,downstream_gene_variant,,ENST00000591424,;GJC1,downstream_gene_variant,,ENST00000587239,;GJC1,downstream_gene_variant,,ENST00000586347,;GJC1,downstream_gene_variant,,ENST00000586267,;"	"C"	"ENSG00000182963"	"ENST00000426548"	"Transcript"	"3_prime_UTR_variant"	"2467/7640"	"-/1191"	"-/396"	""	""	""	"1"	NA	-1	"GJC1"	"HGNC"	4280	"protein_coding"	"YES"	"CCDS11487.1"	"ENSP00000411528"	"P36383"	"Q5H9P2,K7EQ14,K7ENT9,K7EM78"	"UPI000013C62A"	"NM_001080383.1,NM_005497.3"	""	""	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"754ba324-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364583333333333	"WGS"	FALSE
"6367"	"KANSL1"	284058	"mskcc.org"	"GRCh37"	"17"	44282515	44282515	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-90+18522C>T"	""	""	"ENST00000574590"	""	115	"96"	19	80	"80"	0	"KANSL1,intron_variant,,ENST00000574590,NM_001193465.1;KANSL1,intron_variant,,ENST00000574655,;KANSL1,intron_variant,,ENST00000576739,;"	"A"	"ENSG00000120071"	"ENST00000574590"	"Transcript"	"intron_variant"	"-/5105"	"-/3318"	"-/1105"	""	""	""	"1"	NA	-1	"KANSL1"	"HGNC"	24565	"protein_coding"	""	"CCDS11503.1"	"ENSP00000461812"	"Q7Z3B3"	"I3L243,I3L233"	"UPI0001AE66EA"	"NM_001193465.1"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"754c8ea6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.165217391304348	"WGS"	FALSE
"6368"	"WNT9B"	7484	"mskcc.org"	"GRCh37"	"17"	44940003	44940003	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.78-9880C>T"	""	""	"ENST00000290015"	""	78	"52"	26	49	"49"	0	"WNT9B,intron_variant,,ENST00000393461,;WNT9B,intron_variant,,ENST00000290015,NM_003396.1;WNT9B,intron_variant,,ENST00000575372,;"	"T"	"ENSG00000158955"	"ENST00000290015"	"Transcript"	"intron_variant"	"-/1376"	"-/1074"	"-/357"	""	""	""	"1"	NA	1	"WNT9B"	"HGNC"	12779	"protein_coding"	"YES"	"CCDS11506.1"	"ENSP00000290015"	"O14905"	""	"UPI000013DFB5"	"NM_003396.1"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"754cfc7e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"6369"	"B4GALNT2"	124872	"mskcc.org"	"GRCh37"	"17"	47206980	47206980	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000300404"	""	91	"86"	5	46	"46"	0	"B4GALNT2,upstream_gene_variant,,ENST00000300404,NM_153446.2;B4GALNT2,upstream_gene_variant,,ENST00000504681,NM_001159388.1;B4GALNT2,upstream_gene_variant,,ENST00000393354,NM_001159387.1;"	"T"	"ENSG00000167080"	"ENST00000300404"	"Transcript"	"upstream_gene_variant"	"-/1906"	"-/1701"	"-/566"	""	""	""	"1"	"3349"	1	"B4GALNT2"	"HGNC"	24136	"protein_coding"	"YES"	"CCDS11544.1"	"ENSP00000300404"	"Q8NHY0"	"Q8IVI2"	"UPI000013E655"	"NM_153446.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"754e6afa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0549450549450549	"WGS"	FALSE
"6370"	"NGFR"	4804	"mskcc.org"	"GRCh37"	"17"	47595558	47595558	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000172229"	""	98	"72"	26	58	"57"	1	"NGFR,downstream_gene_variant,,ENST00000172229,NM_002507.3;NGFR,downstream_gene_variant,,ENST00000504201,;RP5-1029K10.2,intron_variant,,ENST00000514506,;"	"T"	"ENSG00000064300"	"ENST00000172229"	"Transcript"	"downstream_gene_variant"	"-/3417"	"-/1284"	"-/427"	""	""	""	"1"	"3179"	1	"NGFR"	"HGNC"	7809	"protein_coding"	"YES"	"CCDS11549.1"	"ENSP00000172229"	"P08138"	"B4E096"	"UPI0000049854"	"NM_002507.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"754eb924-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26530612244898	"WGS"	FALSE
"6371"	"ACSF2"	80221	"mskcc.org"	"GRCh37"	"17"	48506035	48506035	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.128+2285T>A"	""	""	"ENST00000300441"	""	99	"91"	8	54	"54"	0	"ACSF2,intron_variant,,ENST00000427954,;ACSF2,intron_variant,,ENST00000300441,NM_025149.4;ACSF2,intron_variant,,ENST00000502667,;ACSF2,intron_variant,,ENST00000504392,;ACSF2,intron_variant,,ENST00000541920,;ACSF2,intron_variant,,ENST00000506582,;ACSF2,intron_variant,,ENST00000510410,;ACSF2,intron_variant,,ENST00000503408,;ACSF2,intron_variant,,ENST00000504945,;"	"A"	"ENSG00000167107"	"ENST00000300441"	"Transcript"	"intron_variant"	"-/2235"	"-/1848"	"-/615"	""	""	""	"1"	NA	1	"ACSF2"	"HGNC"	26101	"protein_coding"	"YES"	"CCDS11567.1"	"ENSP00000300441"	"Q96CM8"	"B4DUF5"	"UPI0000049DEF"	"NM_025149.4"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"754f429a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0808080808080808	"WGS"	FALSE
"6372"	"UTP18"	51096	"mskcc.org"	"GRCh37"	"17"	49349150	49349150	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.623-1573A>T"	""	""	"ENST00000225298"	""	98	"89"	9	46	"46"	0	"UTP18,intron_variant,,ENST00000225298,NM_016001.2;UTP18,upstream_gene_variant,,ENST00000508506,;"	"T"	"ENSG00000011260"	"ENST00000225298"	"Transcript"	"intron_variant"	"-/1894"	"-/1671"	"-/556"	""	""	""	"1"	NA	1	"UTP18"	"HGNC"	24274	"protein_coding"	"YES"	"CCDS42362.1"	"ENSP00000225298"	"Q9Y5J1"	""	"UPI000051E38C"	"NM_016001.2"	""	""	""	"4/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"754fc76a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0918367346938776	"WGS"	FALSE
"6373"	"RP11-429O1.1"	0	"mskcc.org"	"GRCh37"	"17"	50475757	50475757	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.76+7807A>G"	""	""	"ENST00000572848"	""	87	"61"	26	61	"61"	0	"RP11-429O1.1,intron_variant,,ENST00000572848,;"	"G"	"ENSG00000263317"	"ENST00000572848"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/308"	""	""	""	""	""	"1"	NA	1	"RP11-429O1.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75500f7c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298850574712644	"WGS"	FALSE
"6374"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	50795818	50795818	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"77"	25	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"75502976-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245098039215686	"WGS"	FALSE
"6375"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	51219650	51219650	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"102"	7	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"75504686-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0642201834862385	"WGS"	FALSE
"6376"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	51632763	51632763	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"rs75392330"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"112"	6	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs75392330"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75506b0c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0508474576271186	"WGS"	FALSE
"6377"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	52142465	52142465	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"61"	26	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"755091c2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298850574712644	"WGS"	FALSE
"6378"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	56819576	56819576	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"69"	6	42	"42"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"755288c4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"6379"	"RNU4-13P"	0	"mskcc.org"	"GRCh37"	"17"	57614191	57614191	"+"	"3'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000364019"	""	104	"73"	31	56	"56"	0	"RNU4-13P,downstream_gene_variant,,ENST00000364019,;"	"C"	"ENSG00000200889"	"ENST00000364019"	"Transcript"	"downstream_gene_variant"	"-/141"	""	""	""	""	""	"1"	"529"	-1	"RNU4-13P"	"HGNC"	46949	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7552f4c6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298076923076923	"WGS"	FALSE
"6380"	"MED13"	9969	"mskcc.org"	"GRCh37"	"17"	60064251	60064251	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2385+117A>T"	""	""	"ENST00000397786"	""	105	"74"	31	51	"51"	0	"MED13,intron_variant,,ENST00000397786,NM_005121.2;"	"A"	"ENSG00000108510"	"ENST00000397786"	"Transcript"	"intron_variant"	"-/10465"	"-/6525"	"-/2174"	""	""	""	"1"	NA	-1	"MED13"	"HGNC"	22474	"protein_coding"	"YES"	"CCDS42366.1"	"ENSP00000380888"	"Q9UHV7"	""	"UPI0000D7D6F6"	"NM_005121.2"	""	""	""	"12/29"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75543098-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295238095238095	"WGS"	FALSE
"6381"	"POLRMTP1"	0	"mskcc.org"	"GRCh37"	"17"	60218921	60218921	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000578759"	""	81	"75"	6	42	"42"	0	"POLRMTP1,upstream_gene_variant,,ENST00000578759,;"	"A"	"ENSG00000266066"	"ENST00000578759"	"Transcript"	"upstream_gene_variant"	"-/3668"	""	""	""	""	""	"1"	"921"	-1	"POLRMTP1"	"HGNC"	28865	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"755445b0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"6382"	"CTC-264K15.6"	0	"mskcc.org"	"GRCh37"	"17"	62062339	62062339	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.55+4389C>A"	""	""	"ENST00000577329"	""	95	"72"	23	53	"53"	0	"CTC-264K15.6,intron_variant,,ENST00000577329,;"	"T"	"ENSG00000263489"	"ENST00000577329"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/502"	""	""	""	""	""	"1"	NA	-1	"CTC-264K15.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"75554f78-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242105263157895	"WGS"	FALSE
"6383"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	66017432	66017432	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"59"	8	39	"39"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"75587aae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119402985074627	"WGS"	FALSE
"6384"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	68905995	68905995	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"80"	33	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7559be00-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292035398230089	"WGS"	FALSE
"6385"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	69521684	69521684	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"101"	12	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7559f1ae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106194690265487	"WGS"	FALSE
"6386"	"TEN1"	100134934	"mskcc.org"	"GRCh37"	"17"	73985701	73985701	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.93-1846G>A"	""	""	"ENST00000397640"	""	81	"74"	7	44	"44"	0	"TEN1,intron_variant,,ENST00000397640,NM_001113324.2;TEN1,intron_variant,,ENST00000416485,;TEN1,intron_variant,,ENST00000588202,;TEN1,intron_variant,,ENST00000586891,;TEN1,intron_variant,,ENST00000590676,;TEN1-CDK3,intron_variant,,ENST00000567351,;TEN1-CDK3,intron_variant,,ENST00000569284,;TEN1,intron_variant,,ENST00000585710,;"	"A"	"ENSG00000257949"	"ENST00000397640"	"Transcript"	"intron_variant"	"-/994"	"-/372"	"-/123"	""	""	""	"1"	NA	1	"TEN1"	"HGNC"	37242	"protein_coding"	"YES"	"CCDS45780.2"	"ENSP00000380762"	"Q86WV5"	"K7EJS2,D3U720"	"UPI00005A8BEF"	"NM_001113324.2"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"755ceaf8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"6387"	"RP11-285E9.6"	0	"mskcc.org"	"GRCh37"	"17"	75270922	75270922	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000581657"	""	89	"83"	6	34	"34"	0	"RP11-285E9.6,intron_variant,,ENST00000581153,;RP11-285E9.6,upstream_gene_variant,,ENST00000581657,;"	"C"	"ENSG00000263718"	"ENST00000581657"	"Transcript"	"upstream_gene_variant"	"-/749"	""	""	""	""	""	"1"	"514"	-1	"RP11-285E9.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"755ddfa8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"6388"	"RBFOX3"	146713	"mskcc.org"	"GRCh37"	"17"	77424579	77424579	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs551242004"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-175+53957G>A"	""	""	"ENST00000415831"	""	95	"71"	24	50	"50"	0	"RBFOX3,intron_variant,,ENST00000583458,;RBFOX3,intron_variant,,ENST00000415831,;RBFOX3,intron_variant,,ENST00000584778,;RBFOX3,intron_variant,,ENST00000453134,;RBFOX3,intron_variant,,ENST00000580155,NM_001082575.2;RBFOX3,upstream_gene_variant,,ENST00000578887,;"	"T"	"ENSG00000167281"	"ENST00000415831"	"Transcript"	"intron_variant"	"-/2678"	"-/939"	"-/312"	""	""	"rs551242004"	"1"	NA	-1	"RBFOX3"	"HGNC"	27097	"protein_coding"	"YES"	"CCDS45805.1"	"ENSP00000408395"	"A6NFN3"	""	"UPI000020041C"	""	""	""	""	"1/13"	""	"T:0.0004"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.002"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"755f74e4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"6389"	"RP11-353N14.3"	0	"mskcc.org"	"GRCh37"	"17"	77827429	77827429	"+"	"5'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000570408"	""	88	"52"	36	50	"50"	0	"RP11-353N14.3,upstream_gene_variant,,ENST00000570408,;"	"G"	"ENSG00000262343"	"ENST00000570408"	"Transcript"	"upstream_gene_variant"	"-/324"	""	""	""	""	""	"1"	"3520"	-1	"RP11-353N14.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"755fb88c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.409090909090909	"WGS"	FALSE
"6390"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	77839571	77839571	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"54"	23	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"755fbba2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298701298701299	"WGS"	FALSE
"6391"	"RPTOR"	57521	"mskcc.org"	"GRCh37"	"17"	78531536	78531536	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.162+11945C>G"	""	""	"ENST00000306801"	""	80	"75"	5	56	"56"	0	"RPTOR,intron_variant,,ENST00000306801,NM_020761.2;RPTOR,intron_variant,,ENST00000544334,NM_001163034.1;RPTOR,intron_variant,,ENST00000537330,;RPTOR,intron_variant,,ENST00000570891,;RPTOR,intron_variant,,ENST00000577161,;RPTOR,intron_variant,,ENST00000573746,;RPTOR,intron_variant,,ENST00000574767,;"	"G"	"ENSG00000141564"	"ENST00000306801"	"Transcript"	"intron_variant"	"-/6408"	"-/4008"	"-/1335"	""	""	""	"1"	NA	1	"RPTOR"	"HGNC"	30287	"protein_coding"	"YES"	"CCDS11773.1"	"ENSP00000307272"	"Q8N122"	"Q6DKI0"	"UPI000007000F"	"NM_020761.2"	""	""	""	"1/33"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"756090d6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"6392"	"PDE6G"	5148	"mskcc.org"	"GRCh37"	"17"	79621679	79621679	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-59-1285T>A"	""	""	"ENST00000331056"	""	80	"71"	9	48	"48"	0	"PDE6G,intron_variant,,ENST00000573076,;PDE6G,intron_variant,,ENST00000331056,NM_002602.3;PDE6G,intron_variant,,ENST00000574024,;PDE6G,intron_variant,,ENST00000571224,;PDE6G,upstream_gene_variant,,ENST00000571004,;PDE6G,intron_variant,,ENST00000574777,;"	"T"	"ENSG00000185527"	"ENST00000331056"	"Transcript"	"intron_variant"	"-/1023"	"-/264"	"-/87"	""	""	""	"1"	NA	-1	"PDE6G"	"HGNC"	8789	"protein_coding"	"YES"	"CCDS11783.1"	"ENSP00000328412"	"P18545"	""	"UPI0000127C39"	"NM_002602.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"756259f2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1125	"WGS"	FALSE
"6393"	"SLC25A10"	1468	"mskcc.org"	"GRCh37"	"17"	79685840	79685840	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.732+949C>G"	""	""	"ENST00000331531"	""	49	"43"	6	28	"28"	0	"SLC25A10,intron_variant,,ENST00000331531,NM_001270888.1;SLC25A10,intron_variant,,ENST00000571730,;SLC25A10,intron_variant,,ENST00000541223,;SLC25A10,intron_variant,,ENST00000350690,NM_012140.4,NM_001270953.1;SLC25A10,intron_variant,,ENST00000545862,;SLC25A10,intron_variant,,ENST00000574129,;SLC25A10,intron_variant,,ENST00000573246,;SLC25A10,intron_variant,,ENST00000570310,;SLC25A10,downstream_gene_variant,,ENST00000574884,;SLC25A10,downstream_gene_variant,,ENST00000571876,;"	"G"	"ENSG00000183048"	"ENST00000331531"	"Transcript"	"intron_variant"	"-/1946"	"-/891"	"-/296"	""	""	""	"1"	NA	1	"SLC25A10"	"HGNC"	10980	"protein_coding"	"YES"	"CCDS59301.1"	"ENSP00000328403"	"Q9UBX3"	""	"UPI000002A7E9"	"NM_001270888.1"	""	""	""	"9/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"75626852-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122448979591837	"WGS"	FALSE
"6394"	"MYADML2"	255275	"mskcc.org"	"GRCh37"	"17"	79903018	79903018	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-181+1917A>G"	""	""	"ENST00000409745"	""	76	"53"	23	36	"35"	1	"MYADML2,intron_variant,,ENST00000409745,NM_001145113.2;MYADML2,upstream_gene_variant,,ENST00000330655,;PYCR1,upstream_gene_variant,,ENST00000582198,;PYCR1,upstream_gene_variant,,ENST00000579366,;AC137723.5,intron_variant,,ENST00000415556,;"	"C"	"ENSG00000185105"	"ENST00000409745"	"Transcript"	"intron_variant"	"-/2452"	"-/924"	"-/307"	""	""	""	"1"	NA	-1	"MYADML2"	"HGNC"	34548	"protein_coding"	"YES"	"CCDS45815.1"	"ENSP00000386702"	"A6NDP7"	""	"UPI0000EE5F22"	"NM_001145113.2"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75629890-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302631578947368	"WGS"	FALSE
"6395"	"ROCK1P1"	727758	"mskcc.org"	"GRCh37"	"18"	116303	116303	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.390-539T>C"	""	""	"ENST00000608049"	""	77	"51"	26	50	"50"	0	"ROCK1P1,intron_variant,,ENST00000608049,;ROCK1P1,intron_variant,,ENST00000576266,;ROCK1P1,upstream_gene_variant,,ENST00000573767,;"	"C"	"ENSG00000263006"	"ENST00000608049"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2457"	""	""	""	""	""	"1"	NA	1	"ROCK1P1"	"HGNC"	37832	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"7565d4a6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337662337662338	"WGS"	FALSE
"6396"	"COLEC12"	81035	"mskcc.org"	"GRCh37"	"18"	388833	388833	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.59-31311C>T"	""	""	"ENST00000400256"	""	111	"87"	24	55	"55"	0	"COLEC12,intron_variant,,ENST00000400256,NM_130386.2;COLEC12,intron_variant,,ENST00000582147,;"	"A"	"ENSG00000158270"	"ENST00000400256"	"Transcript"	"intron_variant"	"-/3121"	"-/2229"	"-/742"	""	""	""	"1"	NA	-1	"COLEC12"	"HGNC"	16016	"protein_coding"	"YES"	"CCDS32782.1"	"ENSP00000383115"	"Q5KU26"	""	"UPI00002018EC"	"NM_130386.2"	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"7565f0ee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216216216216216	"WGS"	FALSE
"6397"	"RP11-161I6.2"	0	"mskcc.org"	"GRCh37"	"18"	1880488	1880488	"+"	"3'Flank"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000584867"	""	110	"78"	32	41	"41"	0	"RP11-161I6.2,downstream_gene_variant,,ENST00000584867,;RP11-161I6.2,downstream_gene_variant,,ENST00000585072,;"	"G"	"ENSG00000263745"	"ENST00000584867"	"Transcript"	"downstream_gene_variant"	"-/758"	""	""	""	""	""	"1"	"3217"	-1	"RP11-161I6.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"75668e28-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290909090909091	"WGS"	FALSE
"6398"	"ENSR00000667490"	0	"mskcc.org"	"GRCh37"	"18"	2471568	2471568	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000667490"	""	94	"62"	32	55	"55"	0	""	"T"	""	"ENSR00000667490"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7566c0fa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340425531914894	"WGS"	FALSE
"6399"	"DLGAP1"	9229	"mskcc.org"	"GRCh37"	"18"	3641526	3641526	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1592-59280T>A"	""	""	"ENST00000315677"	""	63	"39"	24	57	"57"	0	"DLGAP1,intron_variant,,ENST00000315677,NM_004746.3;DLGAP1,intron_variant,,ENST00000400150,NM_001242763.1;DLGAP1,intron_variant,,ENST00000400147,NM_001003809.2;DLGAP1,intron_variant,,ENST00000400155,NM_001242764.1;DLGAP1,intron_variant,,ENST00000400149,;DLGAP1,intron_variant,,ENST00000581527,NM_001242761.1;DLGAP1,intron_variant,,ENST00000584874,;DLGAP1,intron_variant,,ENST00000515196,;DLGAP1,intron_variant,,ENST00000539435,NM_001242766.1;DLGAP1,intron_variant,,ENST00000534970,NM_001242762.1;DLGAP1,intron_variant,,ENST00000581699,;DLGAP1,intron_variant,,ENST00000400145,NM_001242765.1;"	"T"	"ENSG00000170579"	"ENST00000315677"	"Transcript"	"intron_variant"	"-/6683"	"-/2934"	"-/977"	""	""	""	"1"	NA	-1	"DLGAP1"	"HGNC"	2905	"protein_coding"	"YES"	"CCDS11836.1"	"ENSP00000316377"	"O14490"	""	"UPI0000129490"	"NM_004746.3"	""	""	""	"7/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"75675d4e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.380952380952381	"WGS"	FALSE
"6400"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	5018502	5018502	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"82"	20	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7567c824-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196078431372549	"WGS"	FALSE
"6401"	"ENSR00000522041"	0	"mskcc.org"	"GRCh37"	"18"	8870863	8870863	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000522041"	""	93	"66"	27	50	"50"	0	""	"A"	""	"ENSR00000522041"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"7569485c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290322580645161	"WGS"	FALSE
"6402"	"PIEZO2"	63895	"mskcc.org"	"GRCh37"	"18"	10681503	10681503	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7440+155C>T"	""	""	"ENST00000503781"	""	92	"64"	28	58	"58"	0	"PIEZO2,intron_variant,,ENST00000302079,;PIEZO2,intron_variant,,ENST00000580640,;PIEZO2,intron_variant,,ENST00000503781,NM_022068.2;PIEZO2,intron_variant,,ENST00000538948,;PIEZO2,intron_variant,,ENST00000285141,;PIEZO2,upstream_gene_variant,,ENST00000581680,;PIEZO2,intron_variant,,ENST00000582913,;PIEZO2,intron_variant,,ENST00000579151,;"	"A"	"ENSG00000154864"	"ENST00000503781"	"Transcript"	"intron_variant"	"-/8259"	"-/8259"	"-/2752"	""	""	""	"1"	NA	-1	"PIEZO2"	"HGNC"	26270	"protein_coding"	"YES"	""	"ENSP00000421377"	"Q9H5I5"	"J3KSM7"	"UPI0001B3CB29"	"NM_022068.2"	""	""	""	"47/51"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"756a3c94-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WGS"	FALSE
"6403"	"PIEZO2"	63895	"mskcc.org"	"GRCh37"	"18"	10734902	10734902	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4740+1700G>T"	""	""	"ENST00000503781"	""	92	"62"	30	56	"56"	0	"PIEZO2,intron_variant,,ENST00000302079,;PIEZO2,intron_variant,,ENST00000580640,;PIEZO2,intron_variant,,ENST00000503781,NM_022068.2;PIEZO2,intron_variant,,ENST00000383408,;PIEZO2,downstream_gene_variant,,ENST00000579949,;PIEZO2,intron_variant,,ENST00000582913,;"	"A"	"ENSG00000154864"	"ENST00000503781"	"Transcript"	"intron_variant"	"-/8259"	"-/8259"	"-/2752"	""	""	""	"1"	NA	-1	"PIEZO2"	"HGNC"	26270	"protein_coding"	"YES"	""	"ENSP00000421377"	"Q9H5I5"	"J3KSM7"	"UPI0001B3CB29"	"NM_022068.2"	""	""	""	"32/51"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"756a40cc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326086956521739	"WGS"	FALSE
"6404"	"PIEZO2"	63895	"mskcc.org"	"GRCh37"	"18"	10756746	10756746	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3848+1221T>A"	""	""	"ENST00000503781"	""	89	"83"	6	50	"50"	0	"PIEZO2,intron_variant,,ENST00000302079,;PIEZO2,intron_variant,,ENST00000580640,;PIEZO2,intron_variant,,ENST00000503781,NM_022068.2;PIEZO2,intron_variant,,ENST00000383408,;PIEZO2,intron_variant,,ENST00000582913,;"	"T"	"ENSG00000154864"	"ENST00000503781"	"Transcript"	"intron_variant"	"-/8259"	"-/8259"	"-/2752"	""	""	""	"1"	NA	-1	"PIEZO2"	"HGNC"	26270	"protein_coding"	"YES"	""	"ENSP00000421377"	"Q9H5I5"	"J3KSM7"	"UPI0001B3CB29"	"NM_022068.2"	""	""	""	"25/51"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"756a42b6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"6405"	"PIEZO2"	63895	"mskcc.org"	"GRCh37"	"18"	10961238	10961238	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.286+18295T>C"	""	""	"ENST00000503781"	""	120	"85"	35	59	"59"	0	"PIEZO2,intron_variant,,ENST00000302079,;PIEZO2,intron_variant,,ENST00000580640,;PIEZO2,intron_variant,,ENST00000503781,NM_022068.2;PIEZO2,intron_variant,,ENST00000582913,;"	"G"	"ENSG00000154864"	"ENST00000503781"	"Transcript"	"intron_variant"	"-/8259"	"-/8259"	"-/2752"	""	""	""	"1"	NA	-1	"PIEZO2"	"HGNC"	26270	"protein_coding"	"YES"	""	"ENSP00000421377"	"Q9H5I5"	"J3KSM7"	"UPI0001B3CB29"	"NM_022068.2"	""	""	""	"3/51"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"756a54fe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WGS"	FALSE
"6406"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	11965639	11965639	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"75"	11	44	"44"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"756ac128-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127906976744186	"WGS"	FALSE
"6407"	"RP11-973H7.4"	100996324	"mskcc.org"	"GRCh37"	"18"	12742580	12742580	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.129-2651A>T"	""	""	"ENST00000589930"	""	101	"95"	6	53	"53"	0	"RP11-973H7.4,intron_variant,,ENST00000589930,;RP11-973H7.5,intron_variant,,ENST00000587889,;"	"A"	"ENSG00000267654"	"ENST00000589930"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/569"	""	""	""	""	""	"1"	NA	-1	"RP11-973H7.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"756b6b00-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0594059405940594	"WGS"	FALSE
"6408"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	14439596	14439596	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"63"	25	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"756cc54a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284090909090909	"WGS"	FALSE
"6409"	"ABHD3"	171586	"mskcc.org"	"GRCh37"	"18"	19245503	19245503	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs71366797"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.556-1312G>A"	""	""	"ENST00000289119"	""	91	"78"	13	46	"46"	0	"ABHD3,intron_variant,,ENST00000578270,;ABHD3,intron_variant,,ENST00000289119,NM_138340.4;ABHD3,intron_variant,,ENST00000580981,;RP11-13N13.5,upstream_gene_variant,,ENST00000584148,;ABHD3,intron_variant,,ENST00000579875,;ABHD3,intron_variant,,ENST00000577891,;ABHD3,upstream_gene_variant,,ENST00000577564,;"	"T"	"ENSG00000158201"	"ENST00000289119"	"Transcript"	"intron_variant"	"-/2064"	"-/1230"	"-/409"	""	""	"rs71366797"	"1"	NA	-1	"ABHD3"	"HGNC"	18718	"protein_coding"	"YES"	"CCDS32802.1"	"ENSP00000289119"	"Q8WU67"	""	"UPI0000163938"	"NM_138340.4"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"756ed894-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"6410"	"RP11-595B24.1"	0	"mskcc.org"	"GRCh37"	"18"	19562397	19562397	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.39+1277C>G"	""	""	"ENST00000584898"	""	76	"70"	6	57	"57"	0	"RP11-595B24.1,intron_variant,,ENST00000584898,;"	"G"	"ENSG00000265758"	"ENST00000584898"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/603"	""	""	""	""	""	"1"	NA	1	"RP11-595B24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"756ef266-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"6411"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	20094766	20094766	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"67"	5	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"756f3ffa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0694444444444444	"WGS"	FALSE
"6412"	"RP11-449D8.5"	0	"mskcc.org"	"GRCh37"	"18"	22313237	22313237	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.235+6516G>T"	""	""	"ENST00000582650"	""	95	"71"	24	50	"50"	0	"RP11-449D8.5,intron_variant,,ENST00000582650,;RP11-449D8.5,intron_variant,,ENST00000577354,;RP11-449D8.5,intron_variant,,ENST00000583794,;"	"T"	"ENSG00000266573"	"ENST00000582650"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/592"	""	""	""	""	""	"1"	NA	1	"RP11-449D8.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75701d6c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"6413"	"SS18"	6760	"mskcc.org"	"GRCh37"	"18"	23629242	23629242	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.607+3346C>A"	""	""	"ENST00000415083"	""	98	"92"	6	49	"49"	0	"SS18,intron_variant,,ENST00000415083,NM_001007559.1,NM_005637.2;SS18,intron_variant,,ENST00000542420,;SS18,intron_variant,,ENST00000269137,;SS18,intron_variant,,ENST00000542743,;SS18,intron_variant,,ENST00000539849,;SS18,intron_variant,,ENST00000545952,;SS18,downstream_gene_variant,,ENST00000584083,;SS18,downstream_gene_variant,,ENST00000579061,;SS18,intron_variant,,ENST00000585241,;SS18,intron_variant,,ENST00000579640,;SS18,intron_variant,,ENST00000269138,;SS18,intron_variant,,ENST00000585121,;SS18,intron_variant,,ENST00000539244,;SS18,downstream_gene_variant,,ENST00000578954,;SS18,downstream_gene_variant,,ENST00000577636,;SS18,downstream_gene_variant,,ENST00000578700,;"	"T"	"ENSG00000141380"	"ENST00000415083"	"Transcript"	"intron_variant"	"-/3053"	"-/1257"	"-/418"	""	""	""	"1"	NA	-1	"SS18"	"HGNC"	11340	"protein_coding"	"YES"	"CCDS32807.1"	"ENSP00000414516"	"Q15532"	"J3QQX5,J3QLJ7,J3KT22,B4DR34,B4DLD3"	"UPI0000136056"	"NM_001007559.1,NM_005637.2"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"75708824-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0612244897959184	"WGS"	TRUE
"6414"	"CHST9"	83539	"mskcc.org"	"GRCh37"	"18"	24644732	24644732	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.122-16265C>T"	""	""	"ENST00000284224"	""	110	"68"	42	45	"45"	0	"CHST9,intron_variant,,ENST00000284224,NM_031422.5;CHST9,intron_variant,,ENST00000581714,;CHST9,intron_variant,,ENST00000580774,NM_001256316.1;AQP4-AS1,intron_variant,,ENST00000578701,;"	"A"	"ENSG00000154080"	"ENST00000284224"	"Transcript"	"intron_variant"	"-/2238"	"-/1332"	"-/443"	""	""	""	"1"	NA	-1	"CHST9"	"HGNC"	19898	"protein_coding"	"YES"	"CCDS42422.1"	"ENSP00000284224"	"Q7L1S5"	""	"UPI000006EC67"	"NM_031422.5"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"757108d0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.381818181818182	"WGS"	FALSE
"6415"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	25520227	25520227	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"61"	29	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75714c14-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322222222222222	"WGS"	FALSE
"6416"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	26762910	26762910	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"85"	28	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7571b83e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247787610619469	"WGS"	FALSE
"6417"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	27203788	27203788	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"69"	32	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7571dcb0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316831683168317	"WGS"	FALSE
"6418"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	27548745	27548745	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"88"	25	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"7571f56a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221238938053097	"WGS"	FALSE
"6419"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	27839751	27839751	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"65"	36	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75720cb2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.356435643564356	"WGS"	FALSE
"6420"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	28049666	28049666	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"89"	27	39	"39"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75721cac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232758620689655	"WGS"	FALSE
"6421"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	31361477	31361477	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"65"	30	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"757321e2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WGS"	FALSE
"6422"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	36085036	36085036	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"80"	36	47	"47"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"7574a576-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"6423"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	36735914	36735914	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs749189666"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"75"	20	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs749189666"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7574d55a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"6424"	"LINC00669"	647946	"mskcc.org"	"GRCh37"	"18"	37105867	37105867	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.440+9555A>G"	""	""	"ENST00000591629"	""	103	"77"	26	67	"67"	0	"LINC00669,intron_variant,,ENST00000591629,;"	"C"	"ENSG00000267374"	"ENST00000591629"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2306"	""	""	""	""	""	"1"	NA	-1	"LINC00669"	"HGNC"	44332	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"75750886-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252427184466019	"WGS"	FALSE
"6425"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	41764126	41764126	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"rs140570086"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"105"	7	53	"53"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140570086"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0058"	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"75765768-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"6426"	"CTD-2130O13.1"	0	"mskcc.org"	"GRCh37"	"18"	44877062	44877062	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.37+64930T>C"	""	""	"ENST00000586905"	""	63	"41"	22	24	"24"	0	"CTD-2130O13.1,intron_variant,,ENST00000586905,;CTD-2130O13.1,intron_variant,,ENST00000598649,;"	"C"	"ENSG00000267761"	"ENST00000586905"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/668"	""	""	""	""	""	"1"	NA	1	"CTD-2130O13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75774f9c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349206349206349	"WGS"	FALSE
"6427"	"ZBTB7C"	201501	"mskcc.org"	"GRCh37"	"18"	45867965	45867965	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-303-3196A>T"	""	""	"ENST00000590800"	""	80	"76"	4	61	"61"	0	"ZBTB7C,intron_variant,,ENST00000590800,;ZBTB7C,intron_variant,,ENST00000589170,;ZBTB7C,intron_variant,,ENST00000589194,;ZBTB7C,intron_variant,,ENST00000587107,;ZBTB7C,intron_variant,,ENST00000590374,;ZBTB7C,intron_variant,,ENST00000588970,;ZBTB7C,intron_variant,,ENST00000588053,;ZBTB7C,intron_variant,,ENST00000590178,;ZBTB7C,intron_variant,,ENST00000590855,;ZBTB7C,intron_variant,,ENST00000593159,;ZBTB7C,intron_variant,,ENST00000588028,;ZBTB7C,intron_variant,,ENST00000588149,;ZBTB7C,intron_variant,,ENST00000591526,;ZBTB7C,intron_variant,,ENST00000591279,;ZBTB7C,intron_variant,,ENST00000588566,;ZBTB7C,intron_variant,,ENST00000591405,;ZBTB7C,intron_variant,,ENST00000592387,;ZBTB7C,intron_variant,,ENST00000586525,;ZBTB7C,upstream_gene_variant,,ENST00000592656,;ZBTB7C,upstream_gene_variant,,ENST00000585404,;ZBTB7C,upstream_gene_variant,,ENST00000589619,;ZBTB7C,upstream_gene_variant,,ENST00000586743,;ZBTB7C,upstream_gene_variant,,ENST00000589077,;"	"A"	"ENSG00000184828"	"ENST00000590800"	"Transcript"	"intron_variant"	"-/4947"	"-/1860"	"-/619"	""	""	""	"1"	NA	-1	"ZBTB7C"	"HGNC"	31700	"protein_coding"	""	"CCDS32830.1"	"ENSP00000467877"	"A1YPR0"	"B2RGG0,B2RG63,B2RG49"	"UPI0000073FE3"	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7577a51e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.05	"WGS"	FALSE
"6428"	"MYO5B"	4645	"mskcc.org"	"GRCh37"	"18"	47703306	47703306	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs767423841"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.27+17831G>A"	""	""	"ENST00000285039"	""	92	"78"	14	53	"53"	0	"MYO5B,intron_variant,,ENST00000285039,NM_001080467.2;"	"T"	"ENSG00000167306"	"ENST00000285039"	"Transcript"	"intron_variant"	"-/9505"	"-/5547"	"-/1848"	""	""	"rs767423841"	"1"	NA	-1	"MYO5B"	"HGNC"	7603	"protein_coding"	"YES"	"CCDS42436.1"	"ENSP00000285039"	"Q9ULV0"	"Q14782,Q0P656,K7EPI3"	"UPI00001D7B21"	"NM_001080467.2"	""	""	""	"1/39"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"757871a6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152173913043478	"WGS"	FALSE
"6429"	"ELAC1"	55520	"mskcc.org"	"GRCh37"	"18"	48493890	48493890	"+"	"5'Flank"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000269466"	""	81	"57"	24	37	"37"	0	"ELAC1,upstream_gene_variant,,ENST00000269466,NM_018696.2;SMAD4,upstream_gene_variant,,ENST00000452201,;ELAC1,upstream_gene_variant,,ENST00000591429,;ELAC1,upstream_gene_variant,,ENST00000588577,;ELAC1,upstream_gene_variant,,ENST00000586966,;RP11-729L2.2,upstream_gene_variant,,ENST00000588256,;RP11-729L2.2,upstream_gene_variant,,ENST00000590722,;"	"C"	"ENSG00000141642"	"ENST00000269466"	"Transcript"	"upstream_gene_variant"	"-/2235"	"-/1092"	"-/363"	""	""	""	"1"	"496"	1	"ELAC1"	"HGNC"	14197	"protein_coding"	"YES"	"CCDS11949.1"	"ENSP00000269466"	"Q9H777"	""	"UPI000006F39C"	"NM_018696.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"7578d060-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"6430"	"ELAC1"	55520	"mskcc.org"	"GRCh37"	"18"	48493891	48493891	"+"	"5'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000269466"	""	79	"56"	23	38	"38"	0	"ELAC1,upstream_gene_variant,,ENST00000269466,NM_018696.2;SMAD4,upstream_gene_variant,,ENST00000452201,;ELAC1,upstream_gene_variant,,ENST00000591429,;ELAC1,upstream_gene_variant,,ENST00000588577,;ELAC1,upstream_gene_variant,,ENST00000586966,;RP11-729L2.2,upstream_gene_variant,,ENST00000588256,;RP11-729L2.2,upstream_gene_variant,,ENST00000590722,;"	"C"	"ENSG00000141642"	"ENST00000269466"	"Transcript"	"upstream_gene_variant"	"-/2235"	"-/1092"	"-/363"	""	""	""	"1"	"495"	1	"ELAC1"	"HGNC"	14197	"protein_coding"	"YES"	"CCDS11949.1"	"ENSP00000269466"	"Q9H777"	""	"UPI000006F39C"	"NM_018696.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"7578d164-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291139240506329	"WGS"	FALSE
"6431"	"SMAD4"	4089	"mskcc.org"	"GRCh37"	"18"	48578678	48578678	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.455-2473T>C"	""	""	"ENST00000342988"	""	91	"75"	16	45	"45"	0	"SMAD4,intron_variant,,ENST00000342988,NM_005359.5;SMAD4,intron_variant,,ENST00000398417,;SMAD4,intron_variant,,ENST00000588745,;SMAD4,intron_variant,,ENST00000452201,;SMAD4,downstream_gene_variant,,ENST00000591914,;SMAD4,downstream_gene_variant,,ENST00000588860,;SMAD4,downstream_gene_variant,,ENST00000589941,;SMAD4,downstream_gene_variant,,ENST00000589076,;SMAD4,downstream_gene_variant,,ENST00000590061,;SMAD4,intron_variant,,ENST00000592911,;SMAD4,intron_variant,,ENST00000592186,;RP11-729L2.2,intron_variant,,ENST00000590722,;SMAD4,intron_variant,,ENST00000585448,;SMAD4,upstream_gene_variant,,ENST00000591126,;SMAD4,downstream_gene_variant,,ENST00000589706,;"	"C"	"ENSG00000141646"	"ENST00000342988"	"Transcript"	"intron_variant"	"-/8769"	"-/1659"	"-/552"	""	""	""	"1"	NA	1	"SMAD4"	"HGNC"	6770	"protein_coding"	"YES"	"CCDS11950.1"	"ENSP00000341551"	"Q13485"	"Q9BYG6,K7ENG8,K7ENG1,K7EL18,K7EL15,K7EIJ2"	"UPI0000053431"	"NM_005359.5"	""	""	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"7578da2e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175824175824176	"WGS"	TRUE
"6432"	"RP11-267C16.1"	100287225	"mskcc.org"	"GRCh37"	"18"	48872951	48872951	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.130+203G>A"	""	""	"ENST00000582689"	""	88	"60"	28	48	"48"	0	"RP11-267C16.1,intron_variant,,ENST00000582689,;"	"A"	"ENSG00000227115"	"ENST00000582689"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/539"	""	""	""	""	""	"1"	NA	1	"RP11-267C16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"75790e04-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318181818181818	"WGS"	FALSE
"6433"	"TCF4"	6925	"mskcc.org"	"GRCh37"	"18"	52982175	52982175	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.856-35288T>A"	""	""	"ENST00000398339"	""	107	"79"	28	71	"71"	0	"TCF4,intron_variant,,ENST00000354452,NM_001083962.1;TCF4,intron_variant,,ENST00000356073,NM_003199.2;TCF4,intron_variant,,ENST00000537578,NM_001243227.1;TCF4,intron_variant,,ENST00000564403,NM_001243228.1;TCF4,intron_variant,,ENST00000568740,;TCF4,intron_variant,,ENST00000540999,;TCF4,intron_variant,,ENST00000398339,NM_001243226.1;TCF4,intron_variant,,ENST00000457482,;TCF4,intron_variant,,ENST00000565018,;TCF4,intron_variant,,ENST00000568673,;TCF4,intron_variant,,ENST00000564999,;TCF4,intron_variant,,ENST00000543082,NM_001243231.1;TCF4,intron_variant,,ENST00000544241,NM_001243232.1;TCF4,intron_variant,,ENST00000561992,NM_001243233.1;TCF4,intron_variant,,ENST00000566279,;TCF4,intron_variant,,ENST00000566286,NM_001243230.1;TCF4,intron_variant,,ENST00000567880,;TCF4,intron_variant,,ENST00000537856,;TCF4,intron_variant,,ENST00000564228,;TCF4,intron_variant,,ENST00000570287,NM_001243235.1,NM_001243234.1;TCF4,intron_variant,,ENST00000570177,;TCF4,intron_variant,,ENST00000568169,;TCF4,intron_variant,,ENST00000566514,;TCF4,intron_variant,,ENST00000565908,;TCF4,intron_variant,,ENST00000568186,;TCF4,intron_variant,,ENST00000562607,;TCF4,intron_variant,,ENST00000566777,;TCF4,intron_variant,,ENST00000569012,;TCF4,intron_variant,,ENST00000562638,;TCF4,intron_variant,,ENST00000563760,;TCF4,intron_variant,,ENST00000563686,;TCF4,intron_variant,,ENST00000562680,;"	"T"	"ENSG00000196628"	"ENST00000398339"	"Transcript"	"intron_variant"	"-/2478"	"-/2322"	"-/773"	""	""	""	"1"	NA	-1	"TCF4"	"HGNC"	11634	"protein_coding"	"YES"	"CCDS58631.1"	"ENSP00000381382"	""	"K7ERJ0,H3BUQ3,H3BTM9,H3BTC3,H3BT24,H3BSX3,H3BRF7,H3BPG3,H3BP59,H3BNZ2,H3BNI2,H3BME8,H3BMC8,G0LNT8,G0LNT7,G0LNT4,G0LNT3,E9PH57"	"UPI000059D58C"	"NM_001243226.1"	""	""	""	"9/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"757a4756-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261682242990654	"WGS"	FALSE
"6434"	"RP11-146N18.1"	284294	"mskcc.org"	"GRCh37"	"18"	62018576	62018576	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.581-55780G>A"	""	""	"ENST00000589376"	""	99	"77"	22	57	"57"	0	"RP11-146N18.1,intron_variant,,ENST00000589376,;"	"A"	"ENSG00000267134"	"ENST00000589376"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1722"	""	""	""	""	""	"1"	NA	1	"RP11-146N18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"757df2fc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"6435"	"RP11-146N18.1"	284294	"mskcc.org"	"GRCh37"	"18"	62051229	62051229	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"rs145148580"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.581-23127A>G"	""	""	"ENST00000589376"	""	103	"80"	23	58	"58"	0	"RP11-146N18.1,intron_variant,,ENST00000589376,;"	"G"	"ENSG00000267134"	"ENST00000589376"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1722"	""	""	""	""	"rs145148580"	"1"	NA	1	"RP11-146N18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/9"	""	"G:0.0020"	"G:0"	"G:0"	NA	"G:0.0099"	"G:0"	"G:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"757df90a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223300970873786	"WGS"	FALSE
"6436"	"RP11-775G23.1"	0	"mskcc.org"	"GRCh37"	"18"	63291786	63291786	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.571+17783C>T"	""	""	"ENST00000579862"	""	105	"76"	29	61	"61"	0	"RP11-775G23.1,intron_variant,,ENST00000579862,;"	"T"	"ENSG00000265217"	"ENST00000579862"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/852"	""	""	""	""	""	"1"	NA	1	"RP11-775G23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"757e535a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276190476190476	"WGS"	FALSE
"6437"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	63388195	63388195	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"78"	29	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"757e5c88-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271028037383178	"WGS"	FALSE
"6438"	"CDH7"	1005	"mskcc.org"	"GRCh37"	"18"	63509856	63509856	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.982-1192G>T"	""	""	"ENST00000397968"	""	119	"86"	33	66	"65"	1	"CDH7,intron_variant,,ENST00000536984,;CDH7,intron_variant,,ENST00000397968,NM_004361.2;CDH7,intron_variant,,ENST00000323011,NM_033646.1;"	"T"	"ENSG00000081138"	"ENST00000397968"	"Transcript"	"intron_variant"	"-/3292"	"-/2358"	"-/785"	""	""	""	"1"	NA	1	"CDH7"	"HGNC"	1766	"protein_coding"	"YES"	"CCDS11993.1"	"ENSP00000381058"	"Q9ULB5"	""	"UPI000013D269"	"NM_004361.2"	""	""	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"757e64ee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277310924369748	"WGS"	FALSE
"6439"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	63602206	63602206	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"72"	37	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"757e6f5c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.339449541284404	"WGS"	FALSE
"6440"	"CDH19"	28513	"mskcc.org"	"GRCh37"	"18"	64232951	64232951	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.490+2702C>A"	""	""	"ENST00000262150"	""	101	"82"	19	57	"57"	0	"CDH19,intron_variant,,ENST00000262150,NM_021153.3;CDH19,intron_variant,,ENST00000540086,NM_001271028.1;CDH19,intron_variant,,ENST00000454642,;CDH19,downstream_gene_variant,,ENST00000580157,;CDH19,intron_variant,,ENST00000579658,;"	"T"	"ENSG00000071991"	"ENST00000262150"	"Transcript"	"intron_variant"	"-/6341"	"-/2319"	"-/772"	""	""	""	"1"	NA	-1	"CDH19"	"HGNC"	1758	"protein_coding"	"YES"	"CCDS11994.1"	"ENSP00000262150"	"Q9H159"	"Q96KY9,J3QS15,F8VVI9"	"UPI0000048ECF"	"NM_021153.3"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"757e9d2e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188118811881188	"WGS"	FALSE
"6441"	"CTD-2541J13.1"	0	"mskcc.org"	"GRCh37"	"18"	65148512	65148512	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000562669"	""	103	"80"	23	60	"60"	0	"CTD-2541J13.1,downstream_gene_variant,,ENST00000562669,;"	"A"	"ENSG00000260578"	"ENST00000562669"	"Transcript"	"downstream_gene_variant"	"-/3176"	""	""	""	""	""	"1"	"516"	-1	"CTD-2541J13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"757ef198-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223300970873786	"WGS"	FALSE
"6442"	"RP11-638L3.1"	643542	"mskcc.org"	"GRCh37"	"18"	65237167	65237167	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.204+53181A>G"	""	""	"ENST00000583687"	""	110	"74"	36	66	"66"	0	"RP11-638L3.1,intron_variant,,ENST00000583687,;"	"G"	"ENSG00000265533"	"ENST00000583687"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2991"	""	""	""	""	""	"1"	NA	1	"RP11-638L3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"757efb5c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.327272727272727	"WGS"	FALSE
"6443"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	66274586	66274586	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"47"	34	30	"30"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"757f601a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.419753086419753	"WGS"	FALSE
"6444"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	68794203	68794203	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"61"	26	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"75802892-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298850574712644	"WGS"	FALSE
"6445"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	69832519	69832519	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"63"	31	66	"65"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"75808814-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329787234042553	"WGS"	FALSE
"6446"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	70107736	70107736	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"65"	23	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"758097dc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261363636363636	"WGS"	FALSE
"6447"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	70107737	70107737	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"65"	23	67	"67"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"758098ea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261363636363636	"WGS"	FALSE
"6448"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	75085431	75085431	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	31	"27"	4	22	"22"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"75831bce-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"6449"	"ATP9B"	374868	"mskcc.org"	"GRCh37"	"18"	76877365	76877365	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.558+4011T>A"	""	""	"ENST00000426216"	""	98	"66"	32	62	"62"	0	"ATP9B,intron_variant,,ENST00000426216,NM_198531.3;ATP9B,intron_variant,,ENST00000307671,;ATP9B,intron_variant,,ENST00000586672,;ATP9B,downstream_gene_variant,,ENST00000586722,;ATP9B,downstream_gene_variant,,ENST00000458297,;CTD-2286N8.2,non_coding_transcript_exon_variant,,ENST00000586389,;ATP9B,intron_variant,,ENST00000591464,;ATP9B,intron_variant,,ENST00000490210,;ATP9B,intron_variant,,ENST00000586366,;ATP9B,intron_variant,,ENST00000590271,;"	"A"	"ENSG00000166377"	"ENST00000426216"	"Transcript"	"intron_variant"	"-/4361"	"-/3444"	"-/1147"	""	""	""	"1"	NA	1	"ATP9B"	"HGNC"	13541	"protein_coding"	"YES"	"CCDS12014.1"	"ENSP00000398076"	"O43861"	""	"UPI00002371AF"	"NM_198531.3"	""	""	""	"4/29"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7585ac4a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326530612244898	"WGS"	FALSE
"6450"	"HCN2"	610	"mskcc.org"	"GRCh37"	"19"	609171	609171	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1437+989C>A"	""	""	"ENST00000251287"	""	75	"53"	22	39	"39"	0	"HCN2,intron_variant,,ENST00000251287,NM_001194.3;"	"A"	"ENSG00000099822"	"ENST00000251287"	"Transcript"	"intron_variant"	"-/3408"	"-/2670"	"-/889"	""	""	""	"1"	NA	1	"HCN2"	"HGNC"	4846	"protein_coding"	"YES"	"CCDS12035.1"	"ENSP00000251287"	"Q9UL51"	"Q09ND3"	"UPI000013CCF6"	"NM_001194.3"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"75898a7c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293333333333333	"WGS"	FALSE
"6451"	"CSNK1G2"	1455	"mskcc.org"	"GRCh37"	"19"	1950348	1950348	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-266+8931C>G"	""	""	"ENST00000255641"	""	58	"53"	5	24	"24"	0	"CSNK1G2,intron_variant,,ENST00000255641,NM_001319.6;CSNK1G2,intron_variant,,ENST00000591752,;CSNK1G2,upstream_gene_variant,,ENST00000589350,;CSNK1G2-AS1,downstream_gene_variant,,ENST00000586395,;CSNK1G2-AS1,downstream_gene_variant,,ENST00000314315,;CSNK1G2,downstream_gene_variant,,ENST00000587123,;"	"G"	"ENSG00000133275"	"ENST00000255641"	"Transcript"	"intron_variant"	"-/2878"	"-/1248"	"-/415"	""	""	""	"1"	NA	1	"CSNK1G2"	"HGNC"	2455	"protein_coding"	"YES"	"CCDS12077.1"	"ENSP00000255641"	"P78368"	""	"UPI00000015E2"	"NM_001319.6"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"758b3bd8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0862068965517241	"WGS"	FALSE
"6452"	"LMNB2"	84823	"mskcc.org"	"GRCh37"	"19"	2440463	2440463	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.402-1934G>T"	""	""	"ENST00000325327"	""	92	"62"	30	48	"48"	0	"LMNB2,intron_variant,,ENST00000325327,;LMNB2,intron_variant,,ENST00000582871,NM_032737.3;LMNB2,upstream_gene_variant,,ENST00000527409,;LMNB2,upstream_gene_variant,,ENST00000534495,;"	"A"	"ENSG00000176619"	"ENST00000325327"	"Transcript"	"intron_variant"	"-/4671"	"-/1863"	"-/620"	""	""	""	"1"	NA	-1	"LMNB2"	"HGNC"	6638	"protein_coding"	"YES"	"CCDS12090.2"	"ENSP00000327054"	""	"J9JID7"	"UPI000059D625"	""	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"758bdcfa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326086956521739	"WGS"	FALSE
"6453"	"DPP9"	91039	"mskcc.org"	"GRCh37"	"19"	4724091	4724091	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000262960"	""	71	"55"	16	35	"35"	0	"DPP9,intron_variant,,ENST00000598041,;DPP9,upstream_gene_variant,,ENST00000262960,NM_139159.4;DPP9,upstream_gene_variant,,ENST00000598800,;DPP9,upstream_gene_variant,,ENST00000597849,;DPP9,upstream_gene_variant,,ENST00000598360,;DPP9,upstream_gene_variant,,ENST00000600621,;DPP9,upstream_gene_variant,,ENST00000601130,;DPP9,upstream_gene_variant,,ENST00000597726,;DPP9,upstream_gene_variant,,ENST00000602161,;AC005783.1,downstream_gene_variant,,ENST00000579411,;DPP9,upstream_gene_variant,,ENST00000600497,;DPP9,upstream_gene_variant,,ENST00000595940,;DPP9,upstream_gene_variant,,ENST00000597024,;DPP9,upstream_gene_variant,,ENST00000601764,;DPP9,upstream_gene_variant,,ENST00000600556,;"	"T"	"ENSG00000142002"	"ENST00000262960"	"Transcript"	"upstream_gene_variant"	"-/4295"	"-/2679"	"-/892"	""	""	""	"1"	"216"	-1	"DPP9"	"HGNC"	18648	"protein_coding"	"YES"	"CCDS45928.1"	"ENSP00000262960"	"Q86TI2"	"M0R3E8,M0R3C4,M0R2G6,M0R145,M0R0I1,M0QXN4,M0QXG6"	"UPI000004DB00"	"NM_139159.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"758ec280-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225352112676056	"WGS"	FALSE
"6454"	"PTPRS"	5802	"mskcc.org"	"GRCh37"	"19"	5322821	5322821	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-95+17854A>G"	""	""	"ENST00000357368"	""	68	"62"	6	43	"43"	0	"PTPRS,intron_variant,,ENST00000372412,;PTPRS,intron_variant,,ENST00000357368,NM_002850.3;PTPRS,intron_variant,,ENST00000262963,;PTPRS,intron_variant,,ENST00000348075,NM_130854.2;PTPRS,intron_variant,,ENST00000353284,NM_130853.2,NM_130855.2;PTPRS,intron_variant,,ENST00000588552,;"	"C"	"ENSG00000105426"	"ENST00000357368"	"Transcript"	"intron_variant"	"-/7347"	"-/5847"	"-/1948"	""	""	""	"1"	NA	-1	"PTPRS"	"HGNC"	9681	"protein_coding"	"YES"	"CCDS45930.1"	"ENSP00000349932"	"Q13332"	"K7ESP0,K7ERX4"	"UPI000059D63E"	"NM_002850.3"	""	""	""	"1/37"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"758f8846-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"6455"	"ENSR00001417574"	0	"mskcc.org"	"GRCh37"	"19"	5467736	5467736	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001417574"	""	90	"83"	7	36	"36"	0	""	"T"	""	"ENSR00001417574"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"758fa34e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0777777777777778	"WGS"	FALSE
"6456"	"SNRPEP4"	0	"mskcc.org"	"GRCh37"	"19"	5574583	5574583	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000435815"	""	63	"58"	5	46	"46"	0	"SNRPEP4,downstream_gene_variant,,ENST00000435815,;"	"T"	"ENSG00000233270"	"ENST00000435815"	"Transcript"	"downstream_gene_variant"	"-/279"	""	""	""	""	""	"1"	"2088"	-1	"SNRPEP4"	"HGNC"	43446	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"758fb2da-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0793650793650794	"WGS"	FALSE
"6457"	"NDUFA11"	126328	"mskcc.org"	"GRCh37"	"19"	5904692	5904692	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000418389"	""	79	"55"	24	47	"47"	0	"NDUFA11,upstream_gene_variant,,ENST00000418389,NM_001193375.1;VMAC,upstream_gene_variant,,ENST00000339485,NM_001017921.3;NDUFA11,upstream_gene_variant,,ENST00000592634,;FUT5,upstream_gene_variant,,ENST00000252675,;NDUFA11,upstream_gene_variant,,ENST00000308961,NM_175614.4;AC024592.12,upstream_gene_variant,,ENST00000586349,;AC024592.12,upstream_gene_variant,,ENST00000585661,;AC104532.3,downstream_gene_variant,,ENST00000590441,;AC104532.3,downstream_gene_variant,,ENST00000589277,;NDUFA11,upstream_gene_variant,,ENST00000591160,;AC024592.12,upstream_gene_variant,,ENST00000592091,;NDUFA11,upstream_gene_variant,,ENST00000593233,;AC104532.2,upstream_gene_variant,,ENST00000588891,;"	"T"	"ENSG00000174886"	"ENST00000418389"	"Transcript"	"upstream_gene_variant"	"-/2406"	"-/687"	"-/228"	""	""	""	"1"	"895"	-1	"NDUFA11"	"HGNC"	20371	"protein_coding"	"YES"	"CCDS54203.1"	"ENSP00000389160"	"Q86Y39"	""	"UPI0001AE63D7"	"NM_001193375.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"75900212-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30379746835443	"WGS"	FALSE
"6458"	"ACER1"	125981	"mskcc.org"	"GRCh37"	"19"	6302192	6302192	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000301452"	""	63	"57"	6	49	"49"	0	"ACER1,downstream_gene_variant,,ENST00000301452,NM_133492.2;"	"G"	"ENSG00000167769"	"ENST00000301452"	"Transcript"	"downstream_gene_variant"	"-/1445"	"-/795"	"-/264"	""	""	""	"1"	"3961"	-1	"ACER1"	"HGNC"	18356	"protein_coding"	"YES"	"CCDS12161.1"	"ENSP00000301452"	"Q8TDN7"	""	"UPI000003FD52"	"NM_133492.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"759064dc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"6459"	"SH2D3A"	10045	"mskcc.org"	"GRCh37"	"19"	6766634	6766634	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-69+764C>T"	""	""	"ENST00000245908"	""	95	"58"	37	47	"47"	0	"SH2D3A,intron_variant,,ENST00000245908,NM_005490.2;SH2D3A,intron_variant,,ENST00000437152,;SH2D3A,intron_variant,,ENST00000597687,;SH2D3A,intron_variant,,ENST00000597254,;SH2D3A,intron_variant,,ENST00000595681,;SH2D3A,upstream_gene_variant,,ENST00000595369,;"	"A"	"ENSG00000125731"	"ENST00000245908"	"Transcript"	"intron_variant"	"-/2296"	"-/1731"	"-/576"	""	""	""	"1"	NA	-1	"SH2D3A"	"HGNC"	16885	"protein_coding"	"YES"	"CCDS12173.1"	"ENSP00000245908"	"Q9BRG2"	""	"UPI000006FD60"	"NM_005490.2"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"7590e218-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.389473684210526	"WGS"	FALSE
"6460"	"ELAVL1"	1994	"mskcc.org"	"GRCh37"	"19"	8054538	8054538	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.172+1990A>G"	""	""	"ENST00000407627"	""	88	"64"	24	53	"53"	0	"ELAVL1,intron_variant,,ENST00000407627,NM_001419.2;ELAVL1,intron_variant,,ENST00000351593,;ELAVL1,intron_variant,,ENST00000596459,;ELAVL1,intron_variant,,ENST00000593807,;"	"C"	"ENSG00000066044"	"ENST00000407627"	"Transcript"	"intron_variant"	"-/6015"	"-/981"	"-/326"	""	""	""	"1"	NA	-1	"ELAVL1"	"HGNC"	3312	"protein_coding"	"YES"	"CCDS12193.1"	"ENSP00000385269"	"Q15717"	""	"UPI0000129E74"	"NM_001419.2"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"7592556c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"6461"	"MARCH2"	51257	"mskcc.org"	"GRCh37"	"19"	8497867	8497867	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.582+2116T>C"	""	""	"ENST00000602117"	""	77	"69"	8	39	"39"	0	"MARCH2,intron_variant,,ENST00000602117,;MARCH2,intron_variant,,ENST00000393944,NM_016496.4;MARCH2,intron_variant,,ENST00000215555,NM_001005415.1;MARCH2,intron_variant,,ENST00000381035,NM_001005416.1;MARCH2,intron_variant,,ENST00000601283,;MARCH2,downstream_gene_variant,,ENST00000594796,;"	"C"	"ENSG00000099785"	"ENST00000602117"	"Transcript"	"intron_variant"	"-/1667"	"-/741"	"-/246"	""	""	""	"1"	NA	1	"MARCH2"	"HGNC"	28038	"protein_coding"	"YES"	"CCDS12202.1"	"ENSP00000471536"	"Q9P0N8"	"M0R1P2,M0R138,M0R0S4"	"UPI0000070149"	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"7592c90c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103896103896104	"WGS"	FALSE
"6462"	"PRAM1"	84106	"mskcc.org"	"GRCh37"	"19"	8568242	8568242	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000423345"	""	64	"58"	6	52	"52"	0	"PRAM1,upstream_gene_variant,,ENST00000423345,;PRAM1,upstream_gene_variant,,ENST00000255612,NM_032152.4;PRAM1,upstream_gene_variant,,ENST00000600262,;"	"A"	"ENSG00000133246"	"ENST00000423345"	"Transcript"	"upstream_gene_variant"	"-/2667"	"-/2013"	"-/670"	""	""	""	"1"	"246"	-1	"PRAM1"	"HGNC"	30091	"protein_coding"	"YES"	"CCDS45954.2"	"ENSP00000408342"	"Q96QH2"	""	"UPI00001AE786"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7592d366-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"6463"	"ADAMTS10"	81794	"mskcc.org"	"GRCh37"	"19"	8656331	8656331	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"rs539412125"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1797+353A>C"	""	""	"ENST00000270328"	""	81	"73"	8	41	"41"	0	"ADAMTS10,intron_variant,,ENST00000270328,;ADAMTS10,intron_variant,,ENST00000597188,NM_030957.2;ADAMTS10,intron_variant,,ENST00000595838,NM_001282352.1;ADAMTS10,intron_variant,,ENST00000596851,;ADAMTS10,intron_variant,,ENST00000593913,;ADAMTS10,intron_variant,,ENST00000603221,;ADAMTS10,intron_variant,,ENST00000593826,;ADAMTS10,intron_variant,,ENST00000596236,;ADAMTS10,downstream_gene_variant,,ENST00000601163,;ADAMTS10,downstream_gene_variant,,ENST00000601872,;ADAMTS10,upstream_gene_variant,,ENST00000596911,;"	"G"	"ENSG00000142303"	"ENST00000270328"	"Transcript"	"intron_variant"	"-/4230"	"-/3312"	"-/1103"	""	""	"rs539412125"	"1"	NA	-1	"ADAMTS10"	"HGNC"	13201	"protein_coding"	"YES"	"CCDS12206.1"	"ENSP00000270328"	"Q9H324"	""	"UPI000013D883"	""	""	""	""	"14/24"	""	"G:0.0004"	"G:0"	"G:0"	NA	"G:0"	"G:0.002"	"G:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"7592eb26-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0987654320987654	"WGS"	FALSE
"6464"	"CTD-2623N2.5"	0	"mskcc.org"	"GRCh37"	"19"	9902555	9902555	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000590046"	""	34	"30"	4	18	"18"	0	"ZNF846,intron_variant,,ENST00000592587,;CTD-2623N2.5,upstream_gene_variant,,ENST00000590046,;ZNF846,intron_variant,,ENST00000589038,;"	"T"	"ENSG00000266950"	"ENST00000590046"	"Transcript"	"upstream_gene_variant"	"-/408"	""	""	""	""	""	"1"	"1742"	1	"CTD-2623N2.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"75949b74-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"6465"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	11060204	11060204	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	53	"48"	5	20	"20"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"7595ac8a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0943396226415094	"WGS"	FALSE
"6466"	"SMARCA4"	6597	"mskcc.org"	"GRCh37"	"19"	11103390	11103390	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1419+1391A>T"	""	""	"ENST00000344626"	""	81	"75"	6	52	"52"	0	"SMARCA4,intron_variant,,ENST00000358026,NM_001128849.1;SMARCA4,intron_variant,,ENST00000429416,NM_001128844.1;SMARCA4,intron_variant,,ENST00000344626,NM_003072.3;SMARCA4,intron_variant,,ENST00000413806,NM_001128845.1,NM_001128847.1;SMARCA4,intron_variant,,ENST00000450717,NM_001128846.1,NM_001128848.1;SMARCA4,intron_variant,,ENST00000590574,;SMARCA4,intron_variant,,ENST00000589677,;SMARCA4,intron_variant,,ENST00000541122,;SMARCA4,intron_variant,,ENST00000444061,;SMARCA4,intron_variant,,ENST00000591545,;"	"T"	"ENSG00000127616"	"ENST00000344626"	"Transcript"	"intron_variant"	"-/5392"	"-/4944"	"-/1647"	""	""	""	"1"	NA	1	"SMARCA4"	"HGNC"	11100	"protein_coding"	""	"CCDS12253.1"	"ENSP00000343896"	"P51532"	"B4DSI8,A7E2E1"	"UPI000006F973"	"NM_003072.3"	""	""	""	"8/34"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"7595b6e4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	TRUE
"6467"	"KANK2"	25959	"mskcc.org"	"GRCh37"	"19"	11278266	11278266	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2527-979G>A"	""	""	"ENST00000432929"	""	62	"57"	5	47	"47"	0	"KANK2,intron_variant,,ENST00000432929,NM_001136191.2;KANK2,intron_variant,,ENST00000586659,;KANK2,intron_variant,,ENST00000355150,NM_015493.6;KANK2,intron_variant,,ENST00000589359,;KANK2,intron_variant,,ENST00000588787,;KANK2,downstream_gene_variant,,ENST00000589894,;KANK2,intron_variant,,ENST00000587317,;"	"T"	"ENSG00000197256"	"ENST00000432929"	"Transcript"	"intron_variant"	"-/5231"	"-/2580"	"-/859"	""	""	""	"1"	NA	-1	"KANK2"	"HGNC"	29300	"protein_coding"	"YES"	"CCDS54219.1"	"ENSP00000395650"	"Q63ZY3"	"Q9NXX5,K7ES05,K7ERU2,K7EL48"	"UPI00003B5C5D"	"NM_001136191.2"	""	""	""	"12/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"7595d8e0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WGS"	FALSE
"6468"	"ZNF791"	163049	"mskcc.org"	"GRCh37"	"19"	12736143	12736143	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.191+619A>C"	""	""	"ENST00000343325"	""	52	"48"	4	27	"27"	0	"ZNF791,intron_variant,,ENST00000343325,NM_153358.2;ZNF791,intron_variant,,ENST00000458122,;ZNF791,intron_variant,,ENST00000446165,;ZNF791,intron_variant,,ENST00000540038,;ZNF791,intron_variant,,ENST00000600752,;AC010422.1,upstream_gene_variant,,ENST00000408416,;ZNF490,intron_variant,,ENST00000465656,;ZNF791,intron_variant,,ENST00000598225,;ZNF791,intron_variant,,ENST00000597691,;"	"C"	"ENSG00000173875"	"ENST00000343325"	"Transcript"	"intron_variant"	"-/4554"	"-/1731"	"-/576"	""	""	""	"1"	NA	1	"ZNF791"	"HGNC"	26895	"protein_coding"	"YES"	"CCDS12273.1"	"ENSP00000342974"	"Q3KP31"	"M0R0E8,F5GXD7,B7Z586"	"UPI0000203455"	"NM_153358.2"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"759720ba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"6469"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	13288863	13288863	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"83"	8	44	"44"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"759785c8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0879120879120879	"WGS"	FALSE
"6470"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	13288866	13288866	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"82"	7	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"759786b8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	FALSE
"6471"	"LPHN1"	22859	"mskcc.org"	"GRCh37"	"19"	14304189	14304189	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-95-9680A>T"	""	""	"ENST00000340736"	""	80	"76"	4	31	"31"	0	"LPHN1,intron_variant,,ENST00000340736,NM_001008701.2;LPHN1,intron_variant,,ENST00000361434,NM_014921.4;"	"A"	"ENSG00000072071"	"ENST00000340736"	"Transcript"	"intron_variant"	"-/5658"	"-/4425"	"-/1474"	""	""	""	"1"	NA	-1	"LPHN1"	"HGNC"	20973	"protein_coding"	"YES"	"CCDS32928.1"	"ENSP00000340688"	"O94910"	""	"UPI000005046A"	"NM_001008701.2"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75987b4a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.05	"WGS"	FALSE
"6472"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	14357548	14357548	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"65"	7	41	"41"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7598854a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"6473"	"CTD-2189E23.1"	0	"mskcc.org"	"GRCh37"	"19"	14391880	14391880	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.293-1173T>C"	""	""	"ENST00000592263"	""	79	"73"	6	47	"47"	0	"CTD-2189E23.1,intron_variant,,ENST00000592263,;"	"G"	"ENSG00000267723"	"ENST00000592263"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/627"	""	""	""	""	""	"1"	NA	-1	"CTD-2189E23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"75989918-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"6474"	"BRD4"	23476	"mskcc.org"	"GRCh37"	"19"	15431588	15431588	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-35+11513A>T"	""	""	"ENST00000360016"	""	101	"70"	31	54	"54"	0	"BRD4,intron_variant,,ENST00000360016,;BRD4,intron_variant,,ENST00000594841,;BRD4,intron_variant,,ENST00000601941,;BRD4,intron_variant,,ENST00000597315,;"	"A"	"ENSG00000141867"	"ENST00000360016"	"Transcript"	"intron_variant"	"-/3240"	"-/2385"	"-/794"	""	""	""	"1"	NA	-1	"BRD4"	"HGNC"	13575	"protein_coding"	""	""	"ENSP00000353112"	"O60885"	"M0R0H4,M0QZD9"	"UPI00001AFFBD"	""	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"75998198-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306930693069307	"WGS"	TRUE
"6475"	"PGLYRP2"	114770	"mskcc.org"	"GRCh37"	"19"	15613529	15613529	"+"	"5'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000601792"	""	96	"68"	28	51	"51"	0	"PGLYRP2,upstream_gene_variant,,ENST00000601792,;"	"A"	"ENSG00000161031"	"ENST00000601792"	"Transcript"	"upstream_gene_variant"	"-/578"	"-/543"	"-/181"	""	""	""	"1"	"3762"	-1	"PGLYRP2"	"HGNC"	30013	"protein_coding"	""	""	"ENSP00000472856"	""	"M0R2W8,M0QYW3"	"UPI0003B928E2"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7599a0ec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WGS"	FALSE
"6476"	"ENSR00000344253"	0	"mskcc.org"	"GRCh37"	"19"	16355361	16355361	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000344253"	""	96	"69"	27	40	"40"	0	""	"A"	""	"ENSR00000344253"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"759a3994-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28125	"WGS"	FALSE
"6477"	"KXD1"	79036	"mskcc.org"	"GRCh37"	"19"	18676766	18676766	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.254+935G>A"	""	""	"ENST00000602094"	""	77	"51"	26	47	"47"	0	"KXD1,intron_variant,,ENST00000602094,;KXD1,intron_variant,,ENST00000540691,NM_001171948.1;KXD1,intron_variant,,ENST00000539106,NM_001171949.1;KXD1,intron_variant,,ENST00000222307,NM_024069.3;KXD1,intron_variant,,ENST00000601630,;KXD1,intron_variant,,ENST00000595073,;KXD1,intron_variant,,ENST00000598830,;KXD1,intron_variant,,ENST00000599319,;KXD1,intron_variant,,ENST00000595870,;KXD1,intron_variant,,ENST00000600372,;KXD1,intron_variant,,ENST00000597438,;KXD1,intron_variant,,ENST00000600099,;KXD1,intron_variant,,ENST00000599000,;KXD1,downstream_gene_variant,,ENST00000596785,;KXD1,downstream_gene_variant,,ENST00000596244,;AC005253.2,upstream_gene_variant,,ENST00000597411,;AC005253.4,downstream_gene_variant,,ENST00000593791,;KXD1,intron_variant,,ENST00000600654,;"	"A"	"ENSG00000105700"	"ENST00000602094"	"Transcript"	"intron_variant"	"-/2738"	"-/531"	"-/176"	""	""	""	"1"	NA	1	"KXD1"	"HGNC"	28420	"protein_coding"	"YES"	"CCDS12381.1"	"ENSP00000472836"	"Q9BQD3"	"M0R228,M0QXP3,M0QXN9,M0QX74"	"UPI000013C7F8"	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"759c5206-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337662337662338	"WGS"	FALSE
"6478"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	19667235	19667235	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	58	"54"	4	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"759d1b96-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"6479"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	23886758	23886758	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"61"	27	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"75a04f78-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306818181818182	"WGS"	FALSE
"6480"	"ENSR00000216004"	0	"mskcc.org"	"GRCh37"	"19"	29584041	29584041	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000216004"	""	106	"100"	6	47	"47"	0	""	"C"	""	"ENSR00000216004"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75a2b272-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0566037735849057	"WGS"	FALSE
"6481"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	30129594	30129594	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"47"	4	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"75a326bc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0784313725490196	"WGS"	FALSE
"6482"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	30136587	30136587	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"74"	9	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75a32996-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108433734939759	"WGS"	FALSE
"6483"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	30233638	30233638	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"78"	5	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"75a33fbc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0602409638554217	"WGS"	FALSE
"6484"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	31374956	31374956	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"65"	6	35	"35"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"75a40262-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"6485"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	31430484	31430484	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"rs201998858"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"98"	7	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201998858"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75a4049c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"6486"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	31559472	31559472	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"63"	27	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"75a41374-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"6487"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	32354992	32354992	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"67"	25	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75a44c72-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"6488"	"C19orf55"	148137	"mskcc.org"	"GRCh37"	"19"	36254206	36254206	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.543+949A>C"	""	""	"ENST00000544099"	""	56	"49"	7	36	"36"	0	"C19orf55,intron_variant,,ENST00000544099,;C19orf55,intron_variant,,ENST00000396908,NM_001039887.2;C19orf55,intron_variant,,ENST00000301165,;C19orf55,downstream_gene_variant,,ENST00000536950,;C19orf55,downstream_gene_variant,,ENST00000537459,;C19orf55,downstream_gene_variant,,ENST00000421853,;C19orf55,downstream_gene_variant,,ENST00000545674,;C19orf55,downstream_gene_variant,,ENST00000444637,;C19orf55,downstream_gene_variant,,ENST00000542134,;C19orf55,intron_variant,,ENST00000544876,;C19orf55,upstream_gene_variant,,ENST00000542591,;C19orf55,intron_variant,,ENST00000535581,;C19orf55,intron_variant,,ENST00000601095,;C19orf55,downstream_gene_variant,,ENST00000600988,;C19orf55,upstream_gene_variant,,ENST00000544158,;C19orf55,downstream_gene_variant,,ENST00000539771,;"	"C"	"ENSG00000167595"	"ENST00000544099"	"Transcript"	"intron_variant"	"-/2150"	"-/1278"	"-/425"	""	""	""	"1"	NA	1	"C19orf55"	"HGNC"	25204	"protein_coding"	"YES"	""	"ENSP00000467267"	""	"K7EP81"	"UPI00006CA356"	""	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"75a69b30-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"6489"	"WDR62"	284403	"mskcc.org"	"GRCh37"	"19"	36559704	36559704	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.882+792A>G"	""	""	"ENST00000401500"	""	101	"93"	8	53	"53"	0	"WDR62,intron_variant,,ENST00000401500,NM_001083961.1,NM_173636.4;WDR62,intron_variant,,ENST00000270301,;WDR62,intron_variant,,ENST00000388999,;WDR62,intron_variant,,ENST00000427823,;WDR62,intron_variant,,ENST00000378860,;WDR62,upstream_gene_variant,,ENST00000589953,;WDR62,intron_variant,,ENST00000587391,;"	"G"	"ENSG00000075702"	"ENST00000401500"	"Transcript"	"intron_variant"	"-/4682"	"-/4572"	"-/1523"	""	""	""	"1"	NA	1	"WDR62"	"HGNC"	24502	"protein_coding"	"YES"	"CCDS46059.1"	"ENSP00000384792"	"O43379"	""	"UPI000022A7E9"	"NM_001083961.1,NM_173636.4"	""	""	""	"7/31"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"75a6cfb0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0792079207920792	"WGS"	FALSE
"6490"	"ZNF566"	84924	"mskcc.org"	"GRCh37"	"19"	36982324	36982324	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000454319"	""	43	"35"	8	20	"20"	0	"ZNF566,upstream_gene_variant,,ENST00000454319,NM_001145343.1,NM_001145345.1,NM_001145344.1;ZNF566,upstream_gene_variant,,ENST00000434377,NM_032838.4;ZNF566,upstream_gene_variant,,ENST00000493391,;ZNF566,upstream_gene_variant,,ENST00000392170,;ZNF566,upstream_gene_variant,,ENST00000424129,;ZNF566,upstream_gene_variant,,ENST00000452939,;ZNF566,upstream_gene_variant,,ENST00000427002,;CTD-2630F21.1,downstream_gene_variant,,ENST00000592087,;ZNF566,upstream_gene_variant,,ENST00000472909,;ZNF566,upstream_gene_variant,,ENST00000494354,;ZNF566,upstream_gene_variant,,ENST00000460937,;ZNF566,upstream_gene_variant,,ENST00000480361,;"	"T"	"ENSG00000186017"	"ENST00000454319"	"Transcript"	"upstream_gene_variant"	"-/5253"	"-/1260"	"-/419"	""	""	""	"1"	"1861"	-1	"ZNF566"	"HGNC"	25919	"protein_coding"	"YES"	"CCDS46061.1"	"ENSP00000394207"	"Q969W8"	"C9J2D3,B4DRR6"	"UPI0000E046D6"	"NM_001145343.1,NM_001145345.1,NM_001145344.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75a747ec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186046511627907	"WGS"	FALSE
"6491"	"AC092295.7"	101927599	"mskcc.org"	"GRCh37"	"19"	37087632	37087632	"+"	"3'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000475219"	""	81	"76"	5	38	"38"	0	"ZNF529,intron_variant,,ENST00000586115,;ZNF529,intron_variant,,ENST00000585983,NM_001145649.1;ZNF529,intron_variant,,ENST00000585960,;AC092295.7,downstream_gene_variant,,ENST00000475219,;AC092295.7,downstream_gene_variant,,ENST00000494214,;AC092295.7,downstream_gene_variant,,ENST00000592880,;ZNF529,intron_variant,,ENST00000586458,;ZNF529,intron_variant,,ENST00000587286,;"	"G"	"ENSG00000233527"	"ENST00000475219"	"Transcript"	"downstream_gene_variant"	"-/1033"	""	""	""	""	""	"1"	"2022"	1	"AC092295.7"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75a75412-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"6492"	"AC016582.2"	100631378	"mskcc.org"	"GRCh37"	"19"	38348641	38348641	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000592640"	""	96	"77"	19	47	"47"	0	"AC016582.2,upstream_gene_variant,,ENST00000592640,;AC016582.2,upstream_gene_variant,,ENST00000592714,;AC016582.2,upstream_gene_variant,,ENST00000587395,;AC016582.2,upstream_gene_variant,,ENST00000433142,;"	"A"	"ENSG00000225868"	"ENST00000592640"	"Transcript"	"upstream_gene_variant"	"-/1716"	""	""	""	""	""	"1"	"2805"	-1	"AC016582.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"75a84106-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197916666666667	"WGS"	FALSE
"6493"	"ACTN4"	81	"mskcc.org"	"GRCh37"	"19"	39140451	39140451	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.162+1904T>G"	""	""	"ENST00000252699"	""	64	"44"	20	50	"49"	1	"ACTN4,intron_variant,,ENST00000252699,NM_004924.4;ACTN4,intron_variant,,ENST00000390009,;ACTN4,intron_variant,,ENST00000424234,;ACTN4,intron_variant,,ENST00000589528,;ACTN4,intron_variant,,ENST00000495553,;ACTN4,intron_variant,,ENST00000588618,;"	"G"	"ENSG00000130402"	"ENST00000252699"	"Transcript"	"intron_variant"	"-/4963"	"-/2736"	"-/911"	""	""	""	"1"	NA	1	"ACTN4"	"HGNC"	166	"protein_coding"	"YES"	"CCDS12518.1"	"ENSP00000252699"	"O43707"	"Q96BG6"	"UPI0000125093"	"NM_004924.4"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTC"	"75a8f33a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"6494"	"SUPT5H"	6829	"mskcc.org"	"GRCh37"	"19"	39934689	39934689	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-284-1392A>C"	""	""	"ENST00000599117"	""	77	"71"	6	32	"32"	0	"SUPT5H,intron_variant,,ENST00000599117,;SUPT5H,intron_variant,,ENST00000594990,;SUPT5H,upstream_gene_variant,,ENST00000359191,;SUPT5H,upstream_gene_variant,,ENST00000598725,NM_003169.3;SUPT5H,upstream_gene_variant,,ENST00000432763,NM_001111020.2,NM_001130824.1;SUPT5H,upstream_gene_variant,,ENST00000402194,NM_001130825.1;AC011500.1,downstream_gene_variant,,ENST00000396843,;SUPT5H,upstream_gene_variant,,ENST00000601515,;SUPT5H,upstream_gene_variant,,ENST00000594729,;SUPT5H,upstream_gene_variant,,ENST00000595368,;SUPT5H,upstream_gene_variant,,ENST00000601978,;"	"C"	"ENSG00000196235"	"ENST00000599117"	"Transcript"	"intron_variant"	"-/3902"	"-/3264"	"-/1087"	""	""	""	"1"	NA	1	"SUPT5H"	"HGNC"	11469	"protein_coding"	"YES"	"CCDS12536.1"	"ENSP00000470252"	"O00267"	"M0R2M5,M0R105,B4E0Q4,B4DZJ7"	"UPI000006D81A"	""	""	""	""	"1/30"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"75a98e9e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"6495"	"AC011526.1"	100505495	"mskcc.org"	"GRCh37"	"19"	41972861	41972861	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1154-10469T>C"	""	""	"ENST00000588495"	""	84	"62"	22	70	"70"	0	"AC011526.1,intron_variant,,ENST00000588495,;AC011526.1,intron_variant,,ENST00000595837,;AC011526.1,intron_variant,,ENST00000594315,;AC011526.1,intron_variant,,ENST00000597702,;AC011526.1,intron_variant,,ENST00000599801,;AC011526.1,intron_variant,,ENST00000595063,;AC011526.1,intron_variant,,ENST00000598215,;"	"G"	"ENSG00000267107"	"ENST00000588495"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3472"	""	""	""	""	""	"1"	NA	-1	"AC011526.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75ab4338-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261904761904762	"WGS"	FALSE
"6496"	"RABAC1"	10567	"mskcc.org"	"GRCh37"	"19"	42456354	42456354	"+"	"3'Flank"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000222008"	""	41	"31"	10	30	"29"	1	"RABAC1,downstream_gene_variant,,ENST00000222008,NM_006423.2;RABAC1,downstream_gene_variant,,ENST00000601078,;RABAC1,downstream_gene_variant,,ENST00000600292,;RABAC1,downstream_gene_variant,,ENST00000601891,;RABAC1,downstream_gene_variant,,ENST00000601028,;RABAC1,downstream_gene_variant,,ENST00000596171,;RABAC1,downstream_gene_variant,,ENST00000595226,;RABAC1,downstream_gene_variant,,ENST00000598057,;"	"C"	"ENSG00000105404"	"ENST00000222008"	"Transcript"	"downstream_gene_variant"	"-/821"	"-/558"	"-/185"	""	""	""	"1"	"4479"	-1	"RABAC1"	"HGNC"	9794	"protein_coding"	"YES"	"CCDS12593.1"	"ENSP00000222008"	"Q9UI14"	"M0QXU8"	"UPI000006F3F6"	"NM_006423.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75ab7cae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24390243902439	"WGS"	FALSE
"6497"	"CEACAM16"	388551	"mskcc.org"	"GRCh37"	"19"	45212749	45212749	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"rs113288956"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1268-1019T>C"	""	""	"ENST00000587331"	""	42	"34"	8	18	"18"	0	"CEACAM16,intron_variant,,ENST00000587331,NM_001039213.2;CEACAM16,intron_variant,,ENST00000405314,;CTB-171A8.1,intron_variant,,ENST00000590796,;"	"C"	"ENSG00000213892"	"ENST00000587331"	"Transcript"	"intron_variant"	"-/1701"	"-/1278"	"-/425"	""	""	"rs113288956"	"1"	NA	1	"CEACAM16"	"HGNC"	31948	"protein_coding"	"YES"	"CCDS54278.1"	"ENSP00000466561"	"Q2WEN9"	""	"UPI00001D8176"	"NM_001039213.2"	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"75ad4890-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"6498"	"CEACAM16"	388551	"mskcc.org"	"GRCh37"	"19"	45212784	45212784	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1268-984G>T"	""	""	"ENST00000587331"	""	20	"13"	7	12	"12"	0	"CEACAM16,intron_variant,,ENST00000587331,NM_001039213.2;CEACAM16,intron_variant,,ENST00000405314,;CTB-171A8.1,intron_variant,,ENST00000590796,;"	"T"	"ENSG00000213892"	"ENST00000587331"	"Transcript"	"intron_variant"	"-/1701"	"-/1278"	"-/425"	""	""	""	"1"	NA	1	"CEACAM16"	"HGNC"	31948	"protein_coding"	"YES"	"CCDS54278.1"	"ENSP00000466561"	"Q2WEN9"	""	"UPI00001D8176"	"NM_001039213.2"	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"75ad499e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WGS"	FALSE
"6499"	"MYPOP"	339344	"mskcc.org"	"GRCh37"	"19"	46401402	46401402	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.499+3131A>G"	""	""	"ENST00000322217"	""	64	"59"	5	48	"48"	0	"MYPOP,intron_variant,,ENST00000322217,NM_001012643.2;"	"C"	"ENSG00000176182"	"ENST00000322217"	"Transcript"	"intron_variant"	"-/1890"	"-/1200"	"-/399"	""	""	""	"1"	NA	-1	"MYPOP"	"HGNC"	20178	"protein_coding"	"YES"	"CCDS33055.1"	"ENSP00000325402"	"Q86VE0"	""	"UPI00001984F8"	"NM_001012643.2"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"75ae56d6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.078125	"WGS"	FALSE
"6500"	"PPP5C"	5536	"mskcc.org"	"GRCh37"	"19"	46900217	46900217	"+"	"3'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000478046"	""	67	"59"	8	30	"30"	0	"PPP5C,downstream_gene_variant,,ENST00000478046,;"	"G"	"ENSG00000011485"	"ENST00000478046"	"Transcript"	"downstream_gene_variant"	"-/1886"	"-/1458"	"-/485"	""	""	""	"1"	"3979"	1	"PPP5C"	"HGNC"	9322	"nonsense_mediated_decay"	""	""	"ENSP00000434329"	""	"Q9BPW0"	"UPI0001F77CD8"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75ae9a1a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119402985074627	"WGS"	FALSE
"6501"	"PPP5D1"	100506012	"mskcc.org"	"GRCh37"	"19"	47012283	47012283	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"rs10402942"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.320+16637A>T"	""	""	"ENST00000602017"	""	62	"57"	5	37	"37"	0	"PPP5D1,intron_variant,,ENST00000602017,NM_001205281.1;"	"A"	"ENSG00000230510"	"ENST00000602017"	"Transcript"	"intron_variant"	"-/965"	"-/378"	"-/125"	""	""	"rs10402942"	"1"	NA	-1	"PPP5D1"	"HGNC"	44209	"protein_coding"	""	""	"ENSP00000471730"	""	""	"UPI0002A471E1"	"NM_001205281.1"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75aeaa32-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WGS"	FALSE
"6502"	"PPP5D1"	100506012	"mskcc.org"	"GRCh37"	"19"	47035938	47035938	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.88-5609T>C"	""	""	"ENST00000414155"	""	76	"68"	8	43	"43"	0	"PPP5D1,intron_variant,,ENST00000414155,;PPP5D1,intron_variant,,ENST00000602017,NM_001205281.1;PPP5D1,intron_variant,,ENST00000593359,;"	"G"	"ENSG00000230510"	"ENST00000414155"	"Transcript"	"intron_variant"	"-/1882"	"-/516"	"-/171"	""	""	""	"1"	NA	-1	"PPP5D1"	"HGNC"	44209	"protein_coding"	"YES"	""	"ENSP00000392262"	"E7EU14"	""	"UPI00001D817D"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"75aeafbe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"6503"	"PRKD2"	25865	"mskcc.org"	"GRCh37"	"19"	47184211	47184211	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2070+696A>T"	""	""	"ENST00000433867"	""	25	"17"	8	7	"7"	0	"PRKD2,intron_variant,,ENST00000433867,NM_001079881.1,NM_016457.4,NM_001079880.1;PRKD2,intron_variant,,ENST00000291281,;PRKD2,intron_variant,,ENST00000595515,;PRKD2,intron_variant,,ENST00000600194,NM_001079882.1;PRKD2,intron_variant,,ENST00000601806,;DACT3-AS1,downstream_gene_variant,,ENST00000525008,;PRKD2,intron_variant,,ENST00000593492,;PRKD2,intron_variant,,ENST00000599019,;PRKD2,intron_variant,,ENST00000597589,;PRKD2,intron_variant,,ENST00000597390,;PRKD2,intron_variant,,ENST00000602155,;PRKD2,downstream_gene_variant,,ENST00000599464,;"	"A"	"ENSG00000105287"	"ENST00000433867"	"Transcript"	"intron_variant"	"-/3321"	"-/2637"	"-/878"	""	""	""	"1"	NA	-1	"PRKD2"	"HGNC"	17293	"protein_coding"	"YES"	"CCDS12689.1"	"ENSP00000393978"	"Q9BZL6"	"M0R346,M0R2R2,M0R012"	"UPI000013E03A"	"NM_001079881.1,NM_016457.4,NM_001079880.1"	""	""	""	"16/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75aec904-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32	"WGS"	FALSE
"6504"	"CTB-147N14.4"	0	"mskcc.org"	"GRCh37"	"19"	47331535	47331535	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.64+99C>T"	""	""	"ENST00000597106"	""	88	"79"	9	53	"53"	0	"CTB-147N14.4,intron_variant,,ENST00000597106,;"	"A"	"ENSG00000269014"	"ENST00000597106"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/284"	""	""	""	""	""	"1"	NA	-1	"CTB-147N14.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"75aeee0c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102272727272727	"WGS"	FALSE
"6505"	"SAE1"	10055	"mskcc.org"	"GRCh37"	"19"	47639499	47639499	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.98+5214G>A"	""	""	"ENST00000270225"	""	77	"71"	6	39	"39"	0	"SAE1,intron_variant,,ENST00000413379,NM_001145713.1;SAE1,intron_variant,,ENST00000270225,NM_005500.2;SAE1,intron_variant,,ENST00000392776,NM_001145714.1;SAE1,intron_variant,,ENST00000598840,;SAE1,intron_variant,,ENST00000540850,;SAE1,intron_variant,,ENST00000600706,;SAE1,intron_variant,,ENST00000594144,;SAE1,intron_variant,,ENST00000594526,;SAE1,intron_variant,,ENST00000597808,;SAE1,intron_variant,,ENST00000600753,;SAE1,intron_variant,,ENST00000414294,;SAE1,intron_variant,,ENST00000596995,;"	"A"	"ENSG00000142230"	"ENST00000270225"	"Transcript"	"intron_variant"	"-/2049"	"-/1041"	"-/346"	""	""	""	"1"	NA	1	"SAE1"	"HGNC"	30660	"protein_coding"	"YES"	"CCDS12696.1"	"ENSP00000270225"	"Q9UBE0"	"M0R286,M0R054,M0QYP2,M0QYM8"	"UPI0000037725"	"NM_005500.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"75af3fce-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"6506"	"SAE1"	10055	"mskcc.org"	"GRCh37"	"19"	47639505	47639505	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.98+5220C>T"	""	""	"ENST00000270225"	""	77	"71"	6	40	"40"	0	"SAE1,intron_variant,,ENST00000413379,NM_001145713.1;SAE1,intron_variant,,ENST00000270225,NM_005500.2;SAE1,intron_variant,,ENST00000392776,NM_001145714.1;SAE1,intron_variant,,ENST00000598840,;SAE1,intron_variant,,ENST00000540850,;SAE1,intron_variant,,ENST00000600706,;SAE1,intron_variant,,ENST00000594144,;SAE1,intron_variant,,ENST00000594526,;SAE1,intron_variant,,ENST00000597808,;SAE1,intron_variant,,ENST00000600753,;SAE1,intron_variant,,ENST00000414294,;SAE1,intron_variant,,ENST00000596995,;"	"T"	"ENSG00000142230"	"ENST00000270225"	"Transcript"	"intron_variant"	"-/2049"	"-/1041"	"-/346"	""	""	""	"1"	NA	1	"SAE1"	"HGNC"	30660	"protein_coding"	"YES"	"CCDS12696.1"	"ENSP00000270225"	"Q9UBE0"	"M0R286,M0R054,M0QYP2,M0QYM8"	"UPI0000037725"	"NM_005500.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"75af40c8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"6507"	"SAE1"	10055	"mskcc.org"	"GRCh37"	"19"	47639509	47639509	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.98+5224C>G"	""	""	"ENST00000270225"	""	79	"73"	6	40	"40"	0	"SAE1,intron_variant,,ENST00000413379,NM_001145713.1;SAE1,intron_variant,,ENST00000270225,NM_005500.2;SAE1,intron_variant,,ENST00000392776,NM_001145714.1;SAE1,intron_variant,,ENST00000598840,;SAE1,intron_variant,,ENST00000540850,;SAE1,intron_variant,,ENST00000600706,;SAE1,intron_variant,,ENST00000594144,;SAE1,intron_variant,,ENST00000594526,;SAE1,intron_variant,,ENST00000597808,;SAE1,intron_variant,,ENST00000600753,;SAE1,intron_variant,,ENST00000414294,;SAE1,intron_variant,,ENST00000596995,;"	"G"	"ENSG00000142230"	"ENST00000270225"	"Transcript"	"intron_variant"	"-/2049"	"-/1041"	"-/346"	""	""	""	"1"	NA	1	"SAE1"	"HGNC"	30660	"protein_coding"	"YES"	"CCDS12696.1"	"ENSP00000270225"	"Q9UBE0"	"M0R286,M0R054,M0QYP2,M0QYM8"	"UPI0000037725"	"NM_005500.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"75af41c2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"6508"	"TPRX1"	284355	"mskcc.org"	"GRCh37"	"19"	48318519	48318519	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.151+3206C>G"	""	""	"ENST00000535759"	""	62	"58"	4	34	"34"	0	"TPRX1,intron_variant,,ENST00000535759,;CRX,upstream_gene_variant,,ENST00000566686,;"	"C"	"ENSG00000178928"	"ENST00000535759"	"Transcript"	"intron_variant"	"-/2059"	"-/1527"	"-/508"	""	""	""	"1"	NA	-1	"TPRX1"	"HGNC"	32174	"protein_coding"	""	""	"ENSP00000438832"	""	"D2CFI5"	"UPI0001C0780F"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75afe42e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"6509"	"CRX"	1406	"mskcc.org"	"GRCh37"	"19"	48335963	48335963	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-35-1703A>G"	""	""	"ENST00000221996"	""	80	"74"	6	46	"46"	0	"CRX,intron_variant,,ENST00000221996,NM_000554.4;CRX,intron_variant,,ENST00000539067,;CRX,intron_variant,,ENST00000566686,;TPRX2P,upstream_gene_variant,,ENST00000535362,;CRX,intron_variant,,ENST00000556527,;"	"G"	"ENSG00000105392"	"ENST00000221996"	"Transcript"	"intron_variant"	"-/4469"	"-/900"	"-/299"	""	""	""	"1"	NA	1	"CRX"	"HGNC"	2383	"protein_coding"	"YES"	"CCDS12706.1"	"ENSP00000221996"	"O43186"	"Q0QD45,H3BUU7,A4GUB7"	"UPI00001284E0"	"NM_000554.4"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"75afe9ce-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"6510"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	48461888	48461888	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"36"	5	19	"19"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75b03294-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WGS"	FALSE
"6511"	"SYNGR4"	23546	"mskcc.org"	"GRCh37"	"19"	48868569	48868569	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"rs545159786"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-107-424A>T"	""	""	"ENST00000344846"	""	32	"29"	3	10	"10"	0	"SYNGR4,intron_variant,,ENST00000344846,NM_012451.3;TMEM143,upstream_gene_variant,,ENST00000293261,NM_018273.2;TMEM143,upstream_gene_variant,,ENST00000435956,;TMEM143,upstream_gene_variant,,ENST00000377431,;TMEM143,upstream_gene_variant,,ENST00000436660,;TMEM143,upstream_gene_variant,,ENST00000541566,;TMEM143,upstream_gene_variant,,ENST00000601522,;TMEM143,upstream_gene_variant,,ENST00000598926,;TMEM143,upstream_gene_variant,,ENST00000598012,;TMEM143,upstream_gene_variant,,ENST00000598258,;TMEM143,upstream_gene_variant,,ENST00000595720,;TMEM143,upstream_gene_variant,,ENST00000601332,;TMEM143,upstream_gene_variant,,ENST00000597370,;TMEM143,upstream_gene_variant,,ENST00000593914,;TMEM143,upstream_gene_variant,,ENST00000599220,;"	"T"	"ENSG00000105467"	"ENST00000344846"	"Transcript"	"intron_variant"	"-/1000"	"-/705"	"-/234"	""	""	"rs545159786"	"1"	NA	1	"SYNGR4"	"HGNC"	11502	"protein_coding"	"YES"	"CCDS12717.1"	"ENSP00000344041"	"O95473"	"M0QYL0"	"UPI000013C7EB"	"NM_012451.3"	""	""	""	"1/4"	""	"T:0.0096"	"T:0.0333"	"T:0.0043"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"75b087a8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"6512"	"SULT2B1"	6820	"mskcc.org"	"GRCh37"	"19"	49058895	49058895	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.71+3315A>G"	""	""	"ENST00000201586"	""	77	"70"	7	42	"42"	0	"SULT2B1,intron_variant,,ENST00000201586,NM_177973.1;"	"G"	"ENSG00000088002"	"ENST00000201586"	"Transcript"	"intron_variant"	"-/1295"	"-/1098"	"-/365"	""	""	""	"1"	NA	1	"SULT2B1"	"HGNC"	11459	"protein_coding"	"YES"	"CCDS12723.1"	"ENSP00000201586"	"O00204"	""	"UPI0000073F98"	"NM_177973.1"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"75b0cd94-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"6513"	"SULT2B1"	6820	"mskcc.org"	"GRCh37"	"19"	49100468	49100468	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.826+292C>T"	""	""	"ENST00000201586"	""	95	"71"	24	65	"65"	0	"SULT2B1,intron_variant,,ENST00000323090,NM_004605.2;SULT2B1,intron_variant,,ENST00000201586,NM_177973.1;FAM83E,downstream_gene_variant,,ENST00000263266,NM_017708.3;SULT2B1,intron_variant,,ENST00000594274,;SULT2B1,intron_variant,,ENST00000597923,;"	"T"	"ENSG00000088002"	"ENST00000201586"	"Transcript"	"intron_variant"	"-/1295"	"-/1098"	"-/365"	""	""	""	"1"	NA	1	"SULT2B1"	"HGNC"	11459	"protein_coding"	"YES"	"CCDS12723.1"	"ENSP00000201586"	"O00204"	""	"UPI0000073F98"	"NM_177973.1"	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"75b0dd02-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"6514"	"CCDC155"	147872	"mskcc.org"	"GRCh37"	"19"	49887988	49887988	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000447857"	""	78	"73"	5	34	"34"	0	"CCDC155,upstream_gene_variant,,ENST00000447857,NM_144688.4;CCDC155,upstream_gene_variant,,ENST00000594043,;CCDC155,upstream_gene_variant,,ENST00000595828,;CCDC155,upstream_gene_variant,,ENST00000598730,;CCDC155,upstream_gene_variant,,ENST00000594905,;AC010524.2,intron_variant,,ENST00000599433,;CCDC155,upstream_gene_variant,,ENST00000593725,;CCDC155,upstream_gene_variant,,ENST00000596771,;CCDC155,upstream_gene_variant,,ENST00000596862,;CCDC155,upstream_gene_variant,,ENST00000600895,;CCDC155,upstream_gene_variant,,ENST00000597993,;"	"G"	"ENSG00000161609"	"ENST00000447857"	"Transcript"	"upstream_gene_variant"	"-/2378"	"-/1689"	"-/562"	""	""	""	"1"	"3487"	1	"CCDC155"	"HGNC"	26520	"protein_coding"	"YES"	"CCDS46140.1"	"ENSP00000404220"	"Q8N6L0"	"M0R1C7,M0QXW9,M0QXT3,M0QX09"	"UPI000006F690"	"NM_144688.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"75b209ac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0641025641025641	"WGS"	FALSE
"6515"	"CTD-3187F8.14"	101928517	"mskcc.org"	"GRCh37"	"19"	51685062	51685062	"+"	"RNA"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.161G>A"	""	""	"ENST00000600074"	"1/5"	83	"62"	21	54	"54"	0	"CTD-3187F8.14,non_coding_transcript_exon_variant,,ENST00000600074,;SIGLEC20P,upstream_gene_variant,,ENST00000595243,;"	"T"	"ENSG00000269072"	"ENST00000600074"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"161/1763"	""	""	""	""	""	"1"	NA	-1	"CTD-3187F8.14"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75b3d6a6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253012048192771	"WGS"	FALSE
"6516"	"RNU6-751P"	0	"mskcc.org"	"GRCh37"	"19"	54256028	54256028	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516382"	""	69	"64"	5	37	"37"	0	"RNU6-751P,upstream_gene_variant,,ENST00000516382,;MIR516A1,upstream_gene_variant,,ENST00000385033,;MIR521-1,downstream_gene_variant,,ENST00000384902,;MIR522,downstream_gene_variant,,ENST00000385071,;MIR527,upstream_gene_variant,,ENST00000385244,;MIR519A1,downstream_gene_variant,,ENST00000385257,;"	"C"	"ENSG00000252191"	"ENST00000516382"	"Transcript"	"upstream_gene_variant"	"-/101"	""	""	""	""	""	"1"	"2823"	-1	"RNU6-751P"	"HGNC"	47714	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75b5a968-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072463768115942	"WGS"	FALSE
"6517"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	57420729	57420729	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"64"	5	60	"60"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"75b9a3a6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072463768115942	"WGS"	FALSE
"6518"	"ZNF419"	79744	"mskcc.org"	"GRCh37"	"19"	57998925	57998925	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"rs537220608"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000424930"	""	97	"88"	9	56	"56"	0	"ZNF419,upstream_gene_variant,,ENST00000424930,NM_024691.3,NM_001098491.1;ZNF419,upstream_gene_variant,,ENST00000426954,NM_001098492.1,NM_001098493.1;ZNF419,upstream_gene_variant,,ENST00000221735,;ZNF419,upstream_gene_variant,,ENST00000347466,NM_001098494.1;ZNF419,upstream_gene_variant,,ENST00000415379,NM_001098496.1,NM_001098495.1;ZNF419,upstream_gene_variant,,ENST00000442920,;ZNF419,upstream_gene_variant,,ENST00000354197,;ZNF419,upstream_gene_variant,,ENST00000518999,;ZNF419,upstream_gene_variant,,ENST00000521137,;ZNF419,upstream_gene_variant,,ENST00000523882,;ZNF419,upstream_gene_variant,,ENST00000523312,;ZNF419,upstream_gene_variant,,ENST00000520540,;ZNF419,upstream_gene_variant,,ENST00000519310,;ZNF419,upstream_gene_variant,,ENST00000521754,;ZNF419,upstream_gene_variant,,ENST00000523138,;AC003005.2,downstream_gene_variant,,ENST00000595422,;ZNF419,upstream_gene_variant,,ENST00000522346,;ZNF419,upstream_gene_variant,,ENST00000523439,;AC003005.4,upstream_gene_variant,,ENST00000601674,;AC003005.4,upstream_gene_variant,,ENST00000599674,;"	"A"	"ENSG00000105136"	"ENST00000424930"	"Transcript"	"upstream_gene_variant"	"-/2323"	"-/1536"	"-/511"	""	""	"rs537220608"	"1"	"165"	1	"ZNF419"	"HGNC"	20648	"protein_coding"	"YES"	"CCDS54325.1"	"ENSP00000388864"	"Q96HQ0"	""	"UPI0000E04CBA"	"NM_024691.3,NM_001098491.1"	""	""	""	""	""	"A:0.0124"	"A:0.0408"	"A:0.0072"	NA	"A:0"	"A:0.003"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"75ba3cda-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0927835051546392	"WGS"	FALSE
"6519"	"ZNF135"	7694	"mskcc.org"	"GRCh37"	"19"	58579403	58579403	"+"	"Silent"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1623T>A"	"p.="	"p.T541T"	"ENST00000401053"	"4/4"	91	"83"	8	49	"49"	0	"ZNF135,synonymous_variant,p.=,ENST00000506786,;ZNF135,synonymous_variant,p.=,ENST00000401053,NM_001164529.1,NM_007134.1;ZNF135,synonymous_variant,p.=,ENST00000313434,NM_003436.3;ZNF135,synonymous_variant,p.=,ENST00000511556,;ZNF135,synonymous_variant,p.=,ENST00000439855,;ZNF135,intron_variant,,ENST00000359978,NM_001164530.1;RN7SL526P,upstream_gene_variant,,ENST00000469492,;ZNF135,intron_variant,,ENST00000515535,;"	"A"	"ENSG00000176293"	"ENST00000401053"	"Transcript"	"synonymous_variant"	"1626/3346"	"1623/2049"	"541/682"	"T"	"acT/acA"	""	"1"	NA	1	"ZNF135"	"HGNC"	12919	"protein_coding"	"YES"	"CCDS54329.1"	"ENSP00000441410"	"P52742"	""	"UPI0001B3CB2A"	"NM_001164529.1,NM_007134.1"	""	""	"4/4"	""	"PROSITE_profiles:PS50157,hmmpanther:PTHR24377,hmmpanther:PTHR24377:SF245,Pfam_domain:PF13465,Gene3D:3.30.160.60,Superfamily_domains:SSF57667"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75ba6b4c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0879120879120879	"WGS"	FALSE
"6520"	"SNTG2"	54221	"mskcc.org"	"GRCh37"	"2"	961273	961273	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.72+14519C>T"	""	""	"ENST00000308624"	""	76	"68"	8	51	"51"	0	"SNTG2,intron_variant,,ENST00000308624,NM_018968.3;SNTG2,intron_variant,,ENST00000407292,;SNTG2,intron_variant,,ENST00000452177,;SNTG2,intron_variant,,ENST00000450962,;"	"T"	"ENSG00000172554"	"ENST00000308624"	"Transcript"	"intron_variant"	"-/1888"	"-/1620"	"-/539"	""	""	""	"1"	NA	1	"SNTG2"	"HGNC"	13741	"protein_coding"	"YES"	"CCDS46220.1"	"ENSP00000311837"	"Q9NY99"	""	"UPI0000456D73"	"NM_018968.3"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"75bc5a56-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"6521"	"TPO"	7173	"mskcc.org"	"GRCh37"	"2"	1395008	1395008	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.180+16834C>G"	""	""	"ENST00000497517"	""	96	"71"	25	43	"43"	0	"TPO,intron_variant,,ENST00000497517,;"	"G"	"ENSG00000115705"	"ENST00000497517"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1311"	""	""	""	""	""	"1"	NA	1	"TPO"	"HGNC"	12015	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"75bd579e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260416666666667	"WGS"	FALSE
"6522"	"TPO"	7173	"mskcc.org"	"GRCh37"	"2"	1538369	1538369	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs75642717"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2619-5997G>A"	""	""	"ENST00000345913"	""	37	"18"	19	17	"17"	0	"TPO,intron_variant,,ENST00000422464,;TPO,intron_variant,,ENST00000345913,NM_000547.5;TPO,intron_variant,,ENST00000329066,NM_001206744.1;TPO,intron_variant,,ENST00000337415,;TPO,intron_variant,,ENST00000346956,NM_175721.3;TPO,intron_variant,,ENST00000382201,NM_001206745.1,NM_175719.3;TPO,intron_variant,,ENST00000349624,;TPO,intron_variant,,ENST00000382198,NM_175722.3;TPO,intron_variant,,ENST00000446278,;TPO,intron_variant,,ENST00000469607,;TPO,intron_variant,,ENST00000425083,;TPO,intron_variant,,ENST00000497517,;TPO,intron_variant,,ENST00000479902,;"	"A"	"ENSG00000115705"	"ENST00000345913"	"Transcript"	"intron_variant"	"-/3145"	"-/2802"	"-/933"	""	""	"rs75642717"	"1"	NA	1	"TPO"	"HGNC"	12015	"protein_coding"	"YES"	"CCDS1643.1"	"ENSP00000318820"	"P07202"	"Q53QT2,C9J511"	"UPI000013D480"	"NM_000547.5"	""	""	""	"15/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"75bdf262-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.513513513513513	"WGS"	FALSE
"6523"	"TPO"	7173	"mskcc.org"	"GRCh37"	"2"	1539362	1539362	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2619-5004A>T"	""	""	"ENST00000345913"	""	9	"6"	3	7	"7"	0	"TPO,intron_variant,,ENST00000422464,;TPO,intron_variant,,ENST00000345913,NM_000547.5;TPO,intron_variant,,ENST00000329066,NM_001206744.1;TPO,intron_variant,,ENST00000337415,;TPO,intron_variant,,ENST00000346956,NM_175721.3;TPO,intron_variant,,ENST00000382201,NM_001206745.1,NM_175719.3;TPO,intron_variant,,ENST00000349624,;TPO,intron_variant,,ENST00000382198,NM_175722.3;TPO,intron_variant,,ENST00000446278,;TPO,intron_variant,,ENST00000469607,;TPO,intron_variant,,ENST00000425083,;TPO,intron_variant,,ENST00000497517,;TPO,intron_variant,,ENST00000479902,;"	"T"	"ENSG00000115705"	"ENST00000345913"	"Transcript"	"intron_variant"	"-/3145"	"-/2802"	"-/933"	""	""	""	"1"	NA	1	"TPO"	"HGNC"	12015	"protein_coding"	"YES"	"CCDS1643.1"	"ENSP00000318820"	"P07202"	"Q53QT2,C9J511"	"UPI000013D480"	"NM_000547.5"	""	""	""	"15/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"75bdf474-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"6524"	"AC141930.2"	0	"mskcc.org"	"GRCh37"	"2"	1585560	1585560	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000419028"	""	79	"72"	7	30	"30"	0	"AC141930.2,upstream_gene_variant,,ENST00000419028,;AC144450.1,intron_variant,,ENST00000438247,;"	"C"	"ENSG00000231482"	"ENST00000419028"	"Transcript"	"upstream_gene_variant"	"-/555"	""	""	""	""	""	"1"	"1477"	-1	"AC141930.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75be2444-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"6525"	"MYT1L"	23040	"mskcc.org"	"GRCh37"	"2"	1866548	1866548	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2706-11073G>A"	""	""	"ENST00000428368"	""	105	"71"	34	59	"59"	0	"MYT1L,intron_variant,,ENST00000399161,NM_015025.2;MYT1L,intron_variant,,ENST00000428368,;"	"T"	"ENSG00000186487"	"ENST00000428368"	"Transcript"	"intron_variant"	"-/4850"	"-/3555"	"-/1184"	""	""	""	"1"	NA	-1	"MYT1L"	"HGNC"	7623	"protein_coding"	"YES"	"CCDS46222.1"	"ENSP00000396103"	"Q9UL68"	""	"UPI00004E55EA"	""	""	""	""	"18/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"75bee19a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323809523809524	"WGS"	FALSE
"6526"	"MYT1L"	23040	"mskcc.org"	"GRCh37"	"2"	1910435	1910435	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1812-3369C>T"	""	""	"ENST00000428368"	""	105	"69"	36	59	"59"	0	"MYT1L,intron_variant,,ENST00000399161,NM_015025.2;MYT1L,intron_variant,,ENST00000428368,;MYT1L,intron_variant,,ENST00000602387,;MYT1L,intron_variant,,ENST00000485547,;MYT1L,upstream_gene_variant,,ENST00000490585,;"	"A"	"ENSG00000186487"	"ENST00000428368"	"Transcript"	"intron_variant"	"-/4850"	"-/3555"	"-/1184"	""	""	""	"1"	NA	-1	"MYT1L"	"HGNC"	7623	"protein_coding"	"YES"	"CCDS46222.1"	"ENSP00000396103"	"Q9UL68"	""	"UPI00004E55EA"	""	""	""	""	"13/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"75bee6a4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342857142857143	"WGS"	FALSE
"6527"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	4511125	4511125	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"75"	21	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75c1d3d2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WGS"	FALSE
"6528"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	4588269	4588269	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"70"	35	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75c1dc4c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"6529"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	5543052	5543052	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"57"	37	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"75c258d4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.393617021276596	"WGS"	FALSE
"6530"	"AC011747.4"	0	"mskcc.org"	"GRCh37"	"2"	8715444	8715444	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.586+1597T>C"	""	""	"ENST00000454224"	""	93	"66"	27	41	"41"	0	"AC011747.4,intron_variant,,ENST00000454224,;AC011747.3,intron_variant,,ENST00000418358,;AC011747.4,intron_variant,,ENST00000436187,;"	"G"	"ENSG00000236008"	"ENST00000454224"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/8839"	""	""	""	""	""	"1"	NA	-1	"AC011747.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"75c378ae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290322580645161	"WGS"	FALSE
"6531"	"ASAP2"	8853	"mskcc.org"	"GRCh37"	"2"	9380921	9380921	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.126+33562T>C"	""	""	"ENST00000281419"	""	111	"82"	29	55	"55"	0	"ASAP2,intron_variant,,ENST00000281419,NM_003887.2;ASAP2,intron_variant,,ENST00000315273,NM_001135191.1;"	"C"	"ENSG00000151693"	"ENST00000281419"	"Transcript"	"intron_variant"	"-/5712"	"-/3021"	"-/1006"	""	""	""	"1"	NA	1	"ASAP2"	"HGNC"	2721	"protein_coding"	"YES"	"CCDS1661.1"	"ENSP00000281419"	"O43150"	"Q53RT9,Q53RS3,Q53R39"	"UPI0000073459"	"NM_003887.2"	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"75c3c2d2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261261261261261	"WGS"	FALSE
"6532"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	13609270	13609270	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"86"	19	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"75c67644-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180952380952381	"WGS"	FALSE
"6533"	"LINC00276"	100499171	"mskcc.org"	"GRCh37"	"2"	13963484	13963484	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.307+18205G>A"	""	""	"ENST00000417751"	""	114	"89"	25	56	"56"	0	"LINC00276,intron_variant,,ENST00000417751,;"	"T"	"ENSG00000230448"	"ENST00000417751"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/596"	""	""	""	""	""	"1"	NA	-1	"LINC00276"	"HGNC"	38663	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"75c69822-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219298245614035	"WGS"	FALSE
"6534"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	14807131	14807131	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"77"	33	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"75c6dc2e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"6535"	"NBAS"	51594	"mskcc.org"	"GRCh37"	"2"	15344891	15344891	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6432+14006G>A"	""	""	"ENST00000281513"	""	99	"69"	30	51	"51"	0	"NBAS,intron_variant,,ENST00000281513,NM_015909.3;NBAS,intron_variant,,ENST00000441750,;NBAS,intron_variant,,ENST00000442506,;NBAS,intron_variant,,ENST00000417461,;"	"T"	"ENSG00000151779"	"ENST00000281513"	"Transcript"	"intron_variant"	"-/7281"	"-/7116"	"-/2371"	""	""	""	"1"	NA	-1	"NBAS"	"HGNC"	15625	"protein_coding"	"YES"	"CCDS1685.1"	"ENSP00000281513"	"A2RRP1"	"Q4ZG05,H7C007"	"UPI00001AEA68"	"NM_015909.3"	""	""	""	"48/51"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"75c714be-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303030303030303	"WGS"	FALSE
"6536"	"APOB"	338	"mskcc.org"	"GRCh37"	"2"	21223834	21223834	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000233242"	""	62	"51"	11	33	"33"	0	"APOB,downstream_gene_variant,,ENST00000233242,NM_000384.2;RP11-116D2.1,upstream_gene_variant,,ENST00000567376,;"	"T"	"ENSG00000084674"	"ENST00000233242"	"Transcript"	"downstream_gene_variant"	"-/14121"	"-/13692"	"-/4563"	""	""	""	"1"	"467"	-1	"APOB"	"HGNC"	603	"protein_coding"	"YES"	"CCDS1703.1"	"ENSP00000233242"	"P04114"	"S5FVK9,Q9UE53,Q9UE52,Q13828"	"UPI0000141B94"	"NM_000384.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"75c8fab8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.17741935483871	"WGS"	FALSE
"6537"	"AC068490.2"	0	"mskcc.org"	"GRCh37"	"2"	22623306	22623306	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.70+130602C>A"	""	""	"ENST00000450551"	""	86	"81"	5	66	"66"	0	"AC068490.2,intron_variant,,ENST00000450551,;AC096570.2,intron_variant,,ENST00000419013,;"	"T"	"ENSG00000231200"	"ENST00000450551"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/636"	""	""	""	""	""	"1"	NA	-1	"AC068490.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"75c95f4e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0581395348837209	"WGS"	FALSE
"6538"	"DTNB"	1838	"mskcc.org"	"GRCh37"	"2"	25822818	25822818	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"rs561868639"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.449-3709A>T"	""	""	"ENST00000406818"	""	91	"85"	6	51	"51"	0	"DTNB,intron_variant,,ENST00000406818,NM_001256303.1,NM_021907.4;DTNB,intron_variant,,ENST00000407661,NM_183360.2,NM_001256304.1;DTNB,intron_variant,,ENST00000404103,NM_033147.3;DTNB,intron_variant,,ENST00000288642,;DTNB,intron_variant,,ENST00000496972,NM_001256308.1;DTNB,intron_variant,,ENST00000407038,NM_033148.3;DTNB,intron_variant,,ENST00000407186,;DTNB,intron_variant,,ENST00000405222,NM_183361.2;DTNB,intron_variant,,ENST00000545439,;DTNB,intron_variant,,ENST00000303659,;DTNB,intron_variant,,ENST00000472690,;DTNB,intron_variant,,ENST00000473113,;DTNB,upstream_gene_variant,,ENST00000474987,;DTNB,intron_variant,,ENST00000398951,;DTNB,intron_variant,,ENST00000485845,;DTNB,intron_variant,,ENST00000356599,;DTNB,intron_variant,,ENST00000493538,;DTNB,upstream_gene_variant,,ENST00000493386,;"	"A"	"ENSG00000138101"	"ENST00000406818"	"Transcript"	"intron_variant"	"-/2474"	"-/1884"	"-/627"	""	""	"rs561868639"	"1"	NA	-1	"DTNB"	"HGNC"	3058	"protein_coding"	"YES"	"CCDS46237.1"	"ENSP00000384084"	"O60941"	"Q53TC8,Q53T51,Q53SF9,Q53QV1,F8W9U0,E9PE76,E7ES64"	"UPI0000129949"	"NM_001256303.1,NM_021907.4"	""	""	""	"5/20"	""	"A:0.0006"	"A:0.0023"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75ca9c92-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"6539"	"RAB10"	10890	"mskcc.org"	"GRCh37"	"2"	26326940	26326940	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.188+5349G>T"	""	""	"ENST00000264710"	""	112	"70"	42	67	"66"	1	"RAB10,intron_variant,,ENST00000264710,NM_016131.4;RAB10,intron_variant,,ENST00000462003,;RAB10,intron_variant,,ENST00000473035,;RAB10,intron_variant,,ENST00000495146,;RP11-214J9.1,upstream_gene_variant,,ENST00000439053,;"	"T"	"ENSG00000084733"	"ENST00000264710"	"Transcript"	"intron_variant"	"-/3535"	"-/603"	"-/200"	""	""	""	"1"	NA	1	"RAB10"	"HGNC"	9759	"protein_coding"	"YES"	"CCDS1720.1"	"ENSP00000264710"	"P61026"	"Q9UL28,Q53T70,Q53SX4"	"UPI0000001263"	"NM_016131.4"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"75caf39a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WGS"	FALSE
"6540"	"EPT1"	85465	"mskcc.org"	"GRCh37"	"2"	26593441	26593441	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.311-2794C>T"	""	""	"ENST00000260585"	""	32	"20"	12	9	"9"	0	"EPT1,intron_variant,,ENST00000260585,NM_033505.2;EPT1,intron_variant,,ENST00000447170,;EPT1,intron_variant,,ENST00000442141,;"	"T"	"ENSG00000138018"	"ENST00000260585"	"Transcript"	"intron_variant"	"-/8101"	"-/1194"	"-/397"	""	""	""	"1"	NA	1	"EPT1"	"HGNC"	29361	"protein_coding"	"YES"	"CCDS46240.1"	"ENSP00000260585"	"Q9C0D9"	"G1UI38,C9JEZ2,C9J9I1"	"UPI00003CE422"	"NM_033505.2"	""	""	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"75cb2266-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WGS"	FALSE
"6541"	"BRE"	9577	"mskcc.org"	"GRCh37"	"2"	28335010	28335010	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.571-17128T>C"	""	""	"ENST00000344773"	""	32	"26"	6	15	"15"	0	"BRE,intron_variant,,ENST00000344773,NM_004899.4;BRE,intron_variant,,ENST00000379632,NM_199193.2;BRE,intron_variant,,ENST00000361704,NM_199192.2;BRE,intron_variant,,ENST00000342045,NM_199194.2;BRE,intron_variant,,ENST00000379624,NM_001261840.1,NM_199191.2;BRE,intron_variant,,ENST00000379629,;"	"C"	"ENSG00000158019"	"ENST00000344773"	"Transcript"	"intron_variant"	"-/1852"	"-/1248"	"-/415"	""	""	""	"1"	NA	1	"BRE"	"HGNC"	1106	"protein_coding"	"YES"	"CCDS1764.1"	"ENSP00000343412"	"Q9NXR7"	"C9J2G0"	"UPI0000072A9C"	"NM_004899.4"	""	""	""	"6/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75cbe020-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"6542"	"ALK"	238	"mskcc.org"	"GRCh37"	"2"	29582266	29582266	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1282+24332C>G"	""	""	"ENST00000389048"	""	86	"81"	5	59	"59"	0	"ALK,intron_variant,,ENST00000389048,NM_004304.4;ALK,intron_variant,,ENST00000431873,;"	"C"	"ENSG00000171094"	"ENST00000389048"	"Transcript"	"intron_variant"	"-/6220"	"-/4863"	"-/1620"	""	""	""	"1"	NA	-1	"ALK"	"HGNC"	427	"protein_coding"	"YES"	"CCDS33172.1"	"ENSP00000373700"	"Q9UM73"	"Q580I3"	"UPI00001684DA"	"NM_004304.4"	""	""	""	"5/28"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"75cc5604-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0581395348837209	"WGS"	TRUE
"6543"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	30188441	30188441	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"62"	34	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"75cc86ba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354166666666667	"WGS"	FALSE
"6544"	"ENSR00001699206"	0	"mskcc.org"	"GRCh37"	"2"	31989791	31989791	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001699206"	""	108	"77"	31	50	"50"	0	""	"T"	""	"ENSR00001699206"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75ccfdde-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287037037037037	"WGS"	FALSE
"6545"	"TTC27"	55622	"mskcc.org"	"GRCh37"	"2"	32854315	32854315	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.88+868A>G"	""	""	"ENST00000317907"	""	87	"80"	7	46	"46"	0	"TTC27,intron_variant,,ENST00000317907,NM_017735.4,NM_001193509.1;TTC27,intron_variant,,ENST00000448773,;TTC27,intron_variant,,ENST00000454690,;"	"G"	"ENSG00000018699"	"ENST00000317907"	"Transcript"	"intron_variant"	"-/2876"	"-/2532"	"-/843"	""	""	""	"1"	NA	1	"TTC27"	"HGNC"	25986	"protein_coding"	"YES"	"CCDS33176.1"	"ENSP00000313953"	"Q6P3X3"	"C9JVS4,B4DRC7"	"UPI0000208226"	"NM_017735.4,NM_001193509.1"	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"75cd8b3c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"6546"	"AC012593.1"	0	"mskcc.org"	"GRCh37"	"2"	35380806	35380806	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.116-3344C>A"	""	""	"ENST00000588944"	""	115	"87"	28	49	"49"	0	"AC012593.1,intron_variant,,ENST00000588944,;AC012593.1,intron_variant,,ENST00000592523,;AC012593.1,intron_variant,,ENST00000586769,;AC012593.1,intron_variant,,ENST00000588650,;AC012593.1,intron_variant,,ENST00000587791,;AC012593.1,intron_variant,,ENST00000585391,;AC012593.1,intron_variant,,ENST00000453451,;AC012593.1,intron_variant,,ENST00000591221,;AC012593.1,upstream_gene_variant,,ENST00000587255,;"	"A"	"ENSG00000226994"	"ENST00000588944"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/919"	""	""	""	""	""	"1"	NA	1	"AC012593.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"75ce7bdc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.243478260869565	"WGS"	FALSE
"6547"	"STRN"	6801	"mskcc.org"	"GRCh37"	"2"	37116527	37116527	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.932-2558G>A"	""	""	"ENST00000263918"	""	84	"64"	20	60	"60"	0	"STRN,intron_variant,,ENST00000263918,NM_003162.3;STRN,intron_variant,,ENST00000379213,;STRN,intron_variant,,ENST00000495595,;"	"T"	"ENSG00000115808"	"ENST00000263918"	"Transcript"	"intron_variant"	"-/8168"	"-/2343"	"-/780"	""	""	""	"1"	NA	-1	"STRN"	"HGNC"	11424	"protein_coding"	"YES"	"CCDS1784.1"	"ENSP00000263918"	"O43815"	""	"UPI000013D48A"	"NM_003162.3"	""	""	""	"7/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75cf1498-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WGS"	TRUE
"6548"	"SLC8A1-AS1"	100128590	"mskcc.org"	"GRCh37"	"2"	40042575	40042575	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.73+28910T>C"	""	""	"ENST00000599740"	""	87	"68"	19	43	"43"	0	"SLC8A1-AS1,intron_variant,,ENST00000599740,;"	"C"	"ENSG00000227028"	"ENST00000599740"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/137"	""	""	""	""	""	"1"	NA	1	"SLC8A1-AS1"	"HGNC"	44102	"antisense"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75d07e28-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218390804597701	"WGS"	FALSE
"6549"	"EML4"	27436	"mskcc.org"	"GRCh37"	"2"	42545791	42545791	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2154+1127A>T"	""	""	"ENST00000318522"	""	81	"55"	26	67	"67"	0	"EML4,intron_variant,,ENST00000318522,NM_019063.3;EML4,intron_variant,,ENST00000401738,;EML4,intron_variant,,ENST00000402711,NM_001145076.1;EML4,intron_variant,,ENST00000453191,;EML4,intron_variant,,ENST00000472632,;EML4,intron_variant,,ENST00000406175,;"	"T"	"ENSG00000143924"	"ENST00000318522"	"Transcript"	"intron_variant"	"-/5549"	"-/2946"	"-/981"	""	""	""	"1"	NA	1	"EML4"	"HGNC"	1316	"protein_coding"	"YES"	"CCDS1807.1"	"ENSP00000320663"	"Q9HC35"	"F2Z2B5"	"UPI0000140350"	"NM_019063.3"	""	""	""	"19/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"75d13bc4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.320987654320988	"WGS"	TRUE
"6550"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	43292425	43292425	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"88"	5	35	"35"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"75d1af8c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0537634408602151	"WGS"	FALSE
"6551"	"CRIPT"	9419	"mskcc.org"	"GRCh37"	"2"	46849275	46849275	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.138-1628G>A"	""	""	"ENST00000238892"	""	96	"88"	8	46	"46"	0	"CRIPT,intron_variant,,ENST00000238892,NM_014171.4;CRIPT,intron_variant,,ENST00000486447,;"	"A"	"ENSG00000119878"	"ENST00000238892"	"Transcript"	"intron_variant"	"-/1953"	"-/306"	"-/101"	""	""	""	"1"	NA	1	"CRIPT"	"HGNC"	14312	"protein_coding"	"YES"	"CCDS1829.1"	"ENSP00000238892"	"Q9P021"	""	"UPI000006F4D2"	"NM_014171.4"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"75d3b7be-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"6552"	"TTC7A"	57217	"mskcc.org"	"GRCh37"	"2"	47204037	47204037	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.648+1795C>G"	""	""	"ENST00000319190"	""	92	"65"	27	42	"42"	0	"TTC7A,intron_variant,,ENST00000319190,NM_020458.2;TTC7A,intron_variant,,ENST00000394850,;TTC7A,intron_variant,,ENST00000409245,;TTC7A,intron_variant,,ENST00000263737,;TTC7A,intron_variant,,ENST00000461601,;TTC7A,upstream_gene_variant,,ENST00000474321,;TTC7A,intron_variant,,ENST00000409825,;TTC7A,intron_variant,,ENST00000441914,;TTC7A,upstream_gene_variant,,ENST00000491786,;"	"G"	"ENSG00000068724"	"ENST00000319190"	"Transcript"	"intron_variant"	"-/5157"	"-/2577"	"-/858"	""	""	""	"1"	NA	1	"TTC7A"	"HGNC"	19750	"protein_coding"	"YES"	"CCDS33193.1"	"ENSP00000316699"	"Q9ULT0"	"F5H4E1"	"UPI00001BDC89"	"NM_020458.2"	""	""	""	"4/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"75d3db86-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293478260869565	"WGS"	FALSE
"6553"	"FBXO11"	80204	"mskcc.org"	"GRCh37"	"2"	48069002	48069002	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.233-2094T>A"	""	""	"ENST00000403359"	""	89	"83"	6	65	"65"	0	"FBXO11,intron_variant,,ENST00000403359,NM_001190274.1;FBXO11,intron_variant,,ENST00000316377,;FBXO11,intron_variant,,ENST00000402508,NM_025133.4;FBXO11,intron_variant,,ENST00000378314,;FBXO11,intron_variant,,ENST00000424163,;FBXO11,intron_variant,,ENST00000480038,;FBXO11,intron_variant,,ENST00000492225,;"	"T"	"ENSG00000138081"	"ENST00000403359"	"Transcript"	"intron_variant"	"-/4055"	"-/2784"	"-/927"	""	""	""	"1"	NA	-1	"FBXO11"	"HGNC"	13590	"protein_coding"	"YES"	"CCDS54357.1"	"ENSP00000384823"	"Q86XK2"	"E7EP88,C9IYF0,B5MCV6"	"UPI00005793B7"	"NM_001190274.1"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"75d44db4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	TRUE
"6554"	"AC079807.4"	0	"mskcc.org"	"GRCh37"	"2"	48310262	48310262	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs559781353"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.241-79698G>A"	""	""	"ENST00000447571"	""	113	"72"	41	59	"59"	0	"AC079807.4,intron_variant,,ENST00000447571,;AC079807.4,intron_variant,,ENST00000587616,;"	"T"	"ENSG00000230773"	"ENST00000447571"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1808"	""	""	""	""	"rs559781353"	"1"	NA	-1	"AC079807.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/8"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"75d4654c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36283185840708	"WGS"	FALSE
"6555"	"STON1-GTF2A1L"	286749	"mskcc.org"	"GRCh37"	"2"	48864025	48864025	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2360-5516G>T"	""	""	"ENST00000394754"	""	98	"67"	31	59	"59"	0	"STON1-GTF2A1L,intron_variant,,ENST00000394754,NM_172311.2;STON1-GTF2A1L,intron_variant,,ENST00000405008,;STON1-GTF2A1L,intron_variant,,ENST00000402114,NM_001198593.1;STON1-GTF2A1L,intron_variant,,ENST00000309827,;STON1-GTF2A1L,intron_variant,,ENST00000394751,NM_001198594.1;GTF2A1L,intron_variant,,ENST00000403751,NM_006872.3;GTF2A1L,intron_variant,,ENST00000430487,NM_001193487.1;GTF2A1L,intron_variant,,ENST00000437125,;GTF2A1L,intron_variant,,ENST00000448460,;LHCGR,intron_variant,,ENST00000420913,;GTF2A1L,intron_variant,,ENST00000468326,;GTF2A1L,intron_variant,,ENST00000423675,;TPT1P11,upstream_gene_variant,,ENST00000458482,;"	"T"	"ENSG00000068781"	"ENST00000394754"	"Transcript"	"intron_variant"	"-/3824"	"-/3549"	"-/1182"	""	""	""	"1"	NA	1	"STON1-GTF2A1L"	"HGNC"	30651	"protein_coding"	"YES"	"CCDS1840.1"	"ENSP00000378236"	""	"Q53S48"	"UPI000013C976"	"NM_172311.2"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75d49cf6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316326530612245	"WGS"	FALSE
"6556"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	49387909	49387909	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"73"	38	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"75d4d158-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342342342342342	"WGS"	FALSE
"6557"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	49718795	49718795	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"72"	39	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"75d4e954-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351351351351351	"WGS"	FALSE
"6558"	"AC007682.1"	730100	"mskcc.org"	"GRCh37"	"2"	51639893	51639893	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.694+34582A>G"	""	""	"ENST00000440698"	""	99	"73"	26	54	"54"	0	"AC007682.1,intron_variant,,ENST00000440698,;"	"G"	"ENSG00000231918"	"ENST00000440698"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3939"	""	""	""	""	""	"1"	NA	1	"AC007682.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"75d55c4a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.262626262626263	"WGS"	FALSE
"6559"	"AC007682.1"	730100	"mskcc.org"	"GRCh37"	"2"	52038693	52038693	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.839+49381G>T"	""	""	"ENST00000440698"	""	104	"74"	30	53	"53"	0	"AC007682.1,intron_variant,,ENST00000440698,;"	"T"	"ENSG00000231918"	"ENST00000440698"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3939"	""	""	""	""	""	"1"	NA	1	"AC007682.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"75d57e1e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288461538461538	"WGS"	FALSE
"6560"	"AC007682.1"	730100	"mskcc.org"	"GRCh37"	"2"	52315119	52315119	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.879+226493A>T"	""	""	"ENST00000440698"	""	121	"86"	35	67	"67"	0	"AC007682.1,intron_variant,,ENST00000440698,;"	"T"	"ENSG00000231918"	"ENST00000440698"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3939"	""	""	""	""	""	"1"	NA	1	"AC007682.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"75d59318-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289256198347107	"WGS"	FALSE
"6561"	"ENSR00000590307"	0	"mskcc.org"	"GRCh37"	"2"	52785419	52785419	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000590307"	""	96	"85"	11	57	"57"	0	""	"T"	""	"ENSR00000590307"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"75d5b230-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114583333333333	"WGS"	FALSE
"6562"	"SMEK2"	57223	"mskcc.org"	"GRCh37"	"2"	55780991	55780991	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2455-3849T>G"	""	""	"ENST00000345102"	""	96	"89"	7	58	"58"	0	"SMEK2,intron_variant,,ENST00000272313,NM_020463.2;SMEK2,intron_variant,,ENST00000345102,NM_001122964.1;SMEK2,intron_variant,,ENST00000407823,NM_001282850.1;"	"C"	"ENSG00000138041"	"ENST00000345102"	"Transcript"	"intron_variant"	"-/4384"	"-/2550"	"-/849"	""	""	""	"1"	NA	-1	"SMEK2"	"HGNC"	29267	"protein_coding"	"YES"	"CCDS46289.1"	"ENSP00000339769"	"Q5MIZ7"	""	"UPI00001C1DBA"	"NM_001122964.1"	""	""	""	"16/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"75d6a64a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0729166666666667	"WGS"	FALSE
"6563"	"LINC01122"	0	"mskcc.org"	"GRCh37"	"2"	59189122	59189122	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.815+36078A>T"	""	""	"ENST00000452840"	""	92	"68"	24	52	"52"	0	"LINC01122,intron_variant,,ENST00000452840,;LINC01122,intron_variant,,ENST00000427421,;LINC01122,intron_variant,,ENST00000449448,;"	"T"	"ENSG00000233723"	"ENST00000452840"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4077"	""	""	""	""	""	"1"	NA	1	"LINC01122"	"HGNC"	49267	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"75d7a6bc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"6564"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	61823531	61823531	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"67"	7	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"75d8c600-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	FALSE
"6565"	"B3GNT2"	10678	"mskcc.org"	"GRCh37"	"2"	62444946	62444946	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-9-4401A>G"	""	""	"ENST00000301998"	""	102	"72"	30	41	"40"	1	"B3GNT2,intron_variant,,ENST00000301998,NM_006577.5;B3GNT2,intron_variant,,ENST00000405767,;"	"G"	"ENSG00000170340"	"ENST00000301998"	"Transcript"	"intron_variant"	"-/2763"	"-/1194"	"-/397"	""	""	""	"1"	NA	1	"B3GNT2"	"HGNC"	15629	"protein_coding"	"YES"	"CCDS1870.1"	"ENSP00000305595"	"Q9NY97"	""	"UPI00000009FB"	"NM_006577.5"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"75d928b6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"6566"	"EHBP1"	23301	"mskcc.org"	"GRCh37"	"2"	63089523	63089523	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.863-2343C>G"	""	""	"ENST00000263991"	""	94	"60"	34	61	"61"	0	"EHBP1,intron_variant,,ENST00000263991,NM_015252.3;EHBP1,intron_variant,,ENST00000431489,NM_001142616.1;EHBP1,intron_variant,,ENST00000354487,NM_001142614.1;EHBP1,intron_variant,,ENST00000405015,NM_001142615.2;EHBP1,intron_variant,,ENST00000405289,;EHBP1,intron_variant,,ENST00000405482,;EHBP1,downstream_gene_variant,,ENST00000449820,;AC007098.1,upstream_gene_variant,,ENST00000452397,;"	"G"	"ENSG00000115504"	"ENST00000263991"	"Transcript"	"intron_variant"	"-/5165"	"-/3696"	"-/1231"	""	""	""	"1"	NA	1	"EHBP1"	"HGNC"	29144	"protein_coding"	"YES"	"CCDS1872.1"	"ENSP00000263991"	"Q8NDI1"	"C9K0H9,C9JEP1,C9J268,B3KM32"	"UPI000013D49A"	"NM_015252.3"	""	""	""	"9/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"75d96b50-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.361702127659574	"WGS"	FALSE
"6567"	"AC078941.1"	644838	"mskcc.org"	"GRCh37"	"2"	67413638	67413638	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.205+16610C>A"	""	""	"ENST00000433133"	""	93	"87"	6	55	"55"	0	"AC078941.1,intron_variant,,ENST00000433133,;AC023115.2,intron_variant,,ENST00000452716,;AC023115.1,intron_variant,,ENST00000594329,;AC078941.1,intron_variant,,ENST00000414404,;"	"T"	"ENSG00000236780"	"ENST00000433133"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2100"	""	""	""	""	""	"1"	NA	-1	"AC078941.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75db09c4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"6568"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	70176219	70176219	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"60"	30	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"75dc1b16-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"6569"	"ADD2"	119	"mskcc.org"	"GRCh37"	"2"	70944716	70944716	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-153-4400G>T"	""	""	"ENST00000264436"	""	99	"94"	5	39	"39"	0	"ADD2,intron_variant,,ENST00000264436,NM_001617.3;ADD2,intron_variant,,ENST00000413157,NM_017482.3;ADD2,intron_variant,,ENST00000407644,NM_001185054.1;ADD2,intron_variant,,ENST00000355733,NM_017488.3;ADD2,intron_variant,,ENST00000430656,NM_001185055.1;ADD2,intron_variant,,ENST00000415348,;ADD2,intron_variant,,ENST00000425976,;ADD2,intron_variant,,ENST00000447731,;ADD2,intron_variant,,ENST00000473232,;ADD2,intron_variant,,ENST00000496178,;ADD2,intron_variant,,ENST00000403045,;"	"A"	"ENSG00000075340"	"ENST00000264436"	"Transcript"	"intron_variant"	"-/9267"	"-/2181"	"-/726"	""	""	""	"1"	NA	-1	"ADD2"	"HGNC"	244	"protein_coding"	"YES"	"CCDS1906.1"	"ENSP00000264436"	"P35612"	"Q96HD4,C9J299,C9J080"	"UPI0000125503"	"NM_001617.3"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"75dc8e52-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0505050505050505	"WGS"	FALSE
"6570"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	71382484	71382484	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"75"	18	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"75dd3190-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193548387096774	"WGS"	FALSE
"6571"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	72250598	72250598	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"62"	26	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75dd9a2c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295454545454545	"WGS"	FALSE
"6572"	"EXOC6B"	23233	"mskcc.org"	"GRCh37"	"2"	72887490	72887490	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.669+57742T>A"	""	""	"ENST00000272427"	""	114	"83"	31	79	"79"	0	"EXOC6B,intron_variant,,ENST00000272427,NM_015189.1;EXOC6B,intron_variant,,ENST00000410104,;EXOC6B,intron_variant,,ENST00000410112,;"	"T"	"ENSG00000144036"	"ENST00000272427"	"Transcript"	"intron_variant"	"-/5918"	"-/2436"	"-/811"	""	""	""	"1"	NA	-1	"EXOC6B"	"HGNC"	17085	"protein_coding"	"YES"	"CCDS46333.1"	"ENSP00000272427"	"Q9Y2D4"	"Q9H8D6"	"UPI000046995C"	"NM_015189.1"	""	""	""	"6/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"75ddec70-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271929824561404	"WGS"	FALSE
"6573"	"MRPL19"	9801	"mskcc.org"	"GRCh37"	"2"	75885966	75885966	"+"	"3'Flank"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000393909"	""	107	"74"	33	71	"71"	0	"MRPL19,intron_variant,,ENST00000409374,;MRPL19,intron_variant,,ENST00000358788,;MRPL19,intron_variant,,ENST00000453233,;MRPL19,intron_variant,,ENST00000492255,;GCFC2,downstream_gene_variant,,ENST00000321027,NM_003203.4,NM_001201334.1;GCFC2,downstream_gene_variant,,ENST00000541687,;MRPL19,downstream_gene_variant,,ENST00000393909,NM_014763.3;MRPL19,downstream_gene_variant,,ENST00000476622,;RP11-342K6.1,upstream_gene_variant,,ENST00000604845,;GCFC2,intron_variant,,ENST00000470285,;GCFC2,downstream_gene_variant,,ENST00000470197,;"	"G"	"ENSG00000115364"	"ENST00000393909"	"Transcript"	"downstream_gene_variant"	"-/3479"	"-/879"	"-/292"	""	""	""	"1"	"980"	1	"MRPL19"	"HGNC"	14052	"protein_coding"	"YES"	"CCDS1960.2"	"ENSP00000377486"	"P49406"	"S4R3W9,H7C2J0,B4DIG4,A8K5D5"	"UPI00002087A4"	"NM_014763.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"75df3094-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308411214953271	"WGS"	FALSE
"6574"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	76077036	76077036	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"69"	33	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75df3382-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323529411764706	"WGS"	FALSE
"6575"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	76161893	76161893	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"111"	6	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75df3846-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0512820512820513	"WGS"	FALSE
"6576"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	76592855	76592855	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"68"	26	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75df5eac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276595744680851	"WGS"	FALSE
"6577"	"LRRTM4"	80059	"mskcc.org"	"GRCh37"	"2"	77551528	77551528	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs542731296"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1551+193916C>T"	""	""	"ENST00000409093"	""	99	"70"	29	48	"48"	0	"LRRTM4,intron_variant,,ENST00000409911,NM_001282924.1,NM_001134745.1;LRRTM4,intron_variant,,ENST00000409093,;LRRTM4,intron_variant,,ENST00000409884,;"	"A"	"ENSG00000176204"	"ENST00000409093"	"Transcript"	"intron_variant"	"-/2247"	"-/1773"	"-/590"	""	""	"rs542731296"	"1"	NA	-1	"LRRTM4"	"HGNC"	19411	"protein_coding"	"YES"	"CCDS46346.1"	"ENSP00000386357"	"Q86VH4"	"C9JM64"	"UPI0000047808"	""	""	""	""	"3/3"	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"75dfcd2e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292929292929293	"WGS"	FALSE
"6578"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	77855613	77855613	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"77"	31	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"75dfe1b0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287037037037037	"WGS"	FALSE
"6579"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	78418078	78418078	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"55"	27	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"75e01842-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329268292682927	"WGS"	FALSE
"6580"	"CTNNA2"	1496	"mskcc.org"	"GRCh37"	"2"	79751454	79751454	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs546759255"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-6+19146G>A"	""	""	"ENST00000466387"	""	102	"70"	32	63	"63"	0	"CTNNA2,intron_variant,,ENST00000466387,;CTNNA2,intron_variant,,ENST00000496558,NM_001164883.1,NM_004389.3,NM_001282598.1;CTNNA2,intron_variant,,ENST00000361291,;CTNNA2,intron_variant,,ENST00000409971,;CTNNA2,intron_variant,,ENST00000451966,;"	"A"	"ENSG00000066032"	"ENST00000466387"	"Transcript"	"intron_variant"	"-/4349"	"-/2718"	"-/905"	""	""	"rs546759255"	"1"	NA	1	"CTNNA2"	"HGNC"	2510	"protein_coding"	"YES"	"CCDS42703.2"	"ENSP00000418191"	"P26232"	"F6KRI5,C9J144,C9IZ88"	"UPI00001A3E86"	""	""	""	""	"5/21"	""	"A:0.0006"	"A:0.0023"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"75e07742-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313725490196078	"WGS"	FALSE
"6581"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	81225519	81225519	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"71"	33	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75e0dd54-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317307692307692	"WGS"	FALSE
"6582"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	82431891	82431891	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"67"	24	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"75e13312-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263736263736264	"WGS"	FALSE
"6583"	"KCMF1"	56888	"mskcc.org"	"GRCh37"	"2"	85246066	85246066	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.17-8946A>G"	""	""	"ENST00000409785"	""	89	"83"	6	47	"47"	0	"KCMF1,intron_variant,,ENST00000409785,NM_020122.4;KCMF1,intron_variant,,ENST00000456682,;KCMF1,intron_variant,,ENST00000453448,;KCMF1,intron_variant,,ENST00000428691,;"	"G"	"ENSG00000176407"	"ENST00000409785"	"Transcript"	"intron_variant"	"-/7568"	"-/1146"	"-/381"	""	""	""	"1"	NA	1	"KCMF1"	"HGNC"	20589	"protein_coding"	"YES"	"CCDS46350.1"	"ENSP00000386738"	"Q9P0J7"	"C9JSW5,C9J3I2"	"UPI000003615C"	"NM_020122.4"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"75e207c4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"6584"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	86196782	86196782	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"65"	17	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"75e28f8c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207317073170732	"WGS"	FALSE
"6585"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	86196783	86196783	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"66"	18	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"75e29130-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"6586"	"AC083899.3"	0	"mskcc.org"	"GRCh37"	"2"	87428276	87428276	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000454465"	""	32	"27"	5	18	"18"	0	"AC083899.3,downstream_gene_variant,,ENST00000454465,;"	"G"	"ENSG00000204745"	"ENST00000454465"	"Transcript"	"downstream_gene_variant"	"-/3819"	""	""	""	""	""	"1"	"4506"	1	"AC083899.3"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"75e3492c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WGS"	FALSE
"6587"	"AC093616.4"	101930107	"mskcc.org"	"GRCh37"	"2"	88003124	88003124	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.71-728C>T"	""	""	"ENST00000427434"	""	74	"48"	26	57	"57"	0	"AC093616.4,intron_variant,,ENST00000427434,;"	"T"	"ENSG00000234231"	"ENST00000427434"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2095"	""	""	""	""	""	"1"	NA	1	"AC093616.4"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"75e52c4c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351351351351351	"WGS"	FALSE
"6588"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	89409371	89409371	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"77"	32	67	"66"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75e5d3f4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293577981651376	"WGS"	FALSE
"6589"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	91701077	91701077	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"42"	5	29	"29"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75e8f57a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106382978723404	"WGS"	FALSE
"6590"	"SLC9B1P2"	0	"mskcc.org"	"GRCh37"	"2"	92080964	92080964	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.556-399G>A"	""	""	"ENST00000398120"	""	180	"147"	33	93	"93"	0	"SLC9B1P2,intron_variant,,ENST00000606405,;SLC9B1P2,intron_variant,,ENST00000398120,;"	"T"	"ENSG00000214329"	"ENST00000398120"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1184"	""	""	""	""	""	"1"	NA	-1	"SLC9B1P2"	"HGNC"	37493	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"75ebdd12-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.183333333333333	"WGS"	FALSE
"6591"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	106091341	106091341	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"71"	21	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75f2521e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228260869565217	"WGS"	FALSE
"6592"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	106914767	106914767	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"69"	18	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"75f2c014-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206896551724138	"WGS"	FALSE
"6593"	"SULT1C2"	6819	"mskcc.org"	"GRCh37"	"2"	108908284	108908284	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-21-1819C>T"	""	""	"ENST00000326853"	""	94	"57"	37	66	"66"	0	"SULT1C2,intron_variant,,ENST00000326853,NM_176825.2;SULT1C2,intron_variant,,ENST00000251481,NM_001056.3;SULT1C2,intron_variant,,ENST00000437390,;SULT1C2,intron_variant,,ENST00000409880,;SULT1C2,intron_variant,,ENST00000438339,;SULT1C2,upstream_gene_variant,,ENST00000409067,;SULT1C2,upstream_gene_variant,,ENST00000492554,;SULT1C2,upstream_gene_variant,,ENST00000442801,;"	"T"	"ENSG00000198203"	"ENST00000326853"	"Transcript"	"intron_variant"	"-/2828"	"-/924"	"-/307"	""	""	""	"1"	NA	1	"SULT1C2"	"HGNC"	11456	"protein_coding"	"YES"	"CCDS2076.1"	"ENSP00000319622"	"O00338"	""	"UPI000002B313"	"NM_176825.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"75f38fbc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.393617021276596	"WGS"	FALSE
"6594"	"SH3RF3"	344558	"mskcc.org"	"GRCh37"	"2"	109951455	109951455	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs542977454"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.574-12675C>T"	""	""	"ENST00000309415"	""	97	"61"	36	57	"57"	0	"SH3RF3,intron_variant,,ENST00000309415,NM_001099289.1;SH3RF3,intron_variant,,ENST00000418513,;"	"T"	"ENSG00000172985"	"ENST00000309415"	"Transcript"	"intron_variant"	"-/2649"	"-/2649"	"-/882"	""	""	"rs542977454"	"1"	NA	1	"SH3RF3"	"HGNC"	24699	"protein_coding"	"YES"	""	"ENSP00000309186"	"Q8TEJ3"	"C9JNJ4"	"UPI0000DD7AEA"	"NM_001099289.1"	""	""	""	"1/9"	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"75f40eba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.371134020618557	"WGS"	FALSE
"6595"	"DPP10"	57628	"mskcc.org"	"GRCh37"	"2"	115654124	115654124	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.61-412691G>A"	""	""	"ENST00000410059"	""	113	"88"	25	54	"54"	0	"DPP10,intron_variant,,ENST00000410059,NM_001178037.1,NM_020868.3;DPP10,intron_variant,,ENST00000409163,NM_001178036.1;DPP10,intron_variant,,ENST00000436732,;DPP10,intron_variant,,ENST00000461250,;"	"A"	"ENSG00000175497"	"ENST00000410059"	"Transcript"	"intron_variant"	"-/6278"	"-/2391"	"-/796"	""	""	""	"1"	NA	1	"DPP10"	"HGNC"	20823	"protein_coding"	""	"CCDS46400.1"	"ENSP00000386565"	"Q8N608"	"Q53TB1,J3KQK8,C9J4M8"	"UPI00001AEF55"	"NM_001178037.1,NM_020868.3"	""	""	""	"1/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"75f8ce14-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221238938053097	"WGS"	FALSE
"6596"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	116949507	116949507	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"66"	35	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"75f93a52-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346534653465347	"WGS"	FALSE
"6597"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	119039822	119039822	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"80"	29	64	"64"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75fa10c6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26605504587156	"WGS"	FALSE
"6598"	"C1QL2"	165257	"mskcc.org"	"GRCh37"	"2"	119912634	119912634	"+"	"3'Flank"	"SNP"	"T"	"C"	"C"	"rs768999051"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000272520"	""	111	"71"	40	52	"52"	0	"C1QL2,downstream_gene_variant,,ENST00000272520,NM_182528.3;"	"C"	"ENSG00000144119"	"ENST00000272520"	"Transcript"	"downstream_gene_variant"	"-/2043"	"-/864"	"-/287"	""	""	"rs768999051"	"1"	"1185"	-1	"C1QL2"	"HGNC"	24181	"protein_coding"	"YES"	"CCDS42737.1"	"ENSP00000272520"	"Q7Z5L3"	""	"UPI000013D95E"	"NM_182528.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"75fa6b16-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36036036036036	"WGS"	FALSE
"6599"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	121773735	121773735	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"59"	26	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"75fb4540-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305882352941176	"WGS"	FALSE
"6600"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	122844279	122844279	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"91"	6	62	"62"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"75fc1254-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0618556701030928	"WGS"	FALSE
"6601"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	126007355	126007355	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"96"	6	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75fd188e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"6602"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	127019420	127019420	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"53"	24	58	"58"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75fd7932-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311688311688312	"WGS"	FALSE
"6603"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	129895321	129895321	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"65"	29	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75fef6a4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308510638297872	"WGS"	FALSE
"6604"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	130420644	130420644	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"rs576887767"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"62"	25	43	"43"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs576887767"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0002"	"C:0"	"C:0"	NA	"C:0"	"C:0"	"C:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75ff3b8c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28735632183908	"WGS"	FALSE
"6605"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	130820052	130820052	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	35	"31"	4	16	"16"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"75ff960e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"6606"	"PLEKHB2"	55041	"mskcc.org"	"GRCh37"	"2"	131885589	131885589	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.293+1230T>C"	""	""	"ENST00000409158"	""	74	"50"	24	40	"40"	0	"PLEKHB2,intron_variant,,ENST00000403716,NM_001100623.1,NM_017958.2,NM_001267063.1,NM_001267064.1,NM_001267066.1,NM_001267065.1,NM_001267062.1;PLEKHB2,intron_variant,,ENST00000234115,;PLEKHB2,intron_variant,,ENST00000409279,;PLEKHB2,intron_variant,,ENST00000409158,;PLEKHB2,intron_variant,,ENST00000409612,;PLEKHB2,intron_variant,,ENST00000438882,;PLEKHB2,intron_variant,,ENST00000439822,NM_001267068.1;PLEKHB2,intron_variant,,ENST00000404460,;PLEKHB2,intron_variant,,ENST00000538982,;PLEKHB2,intron_variant,,ENST00000303908,;PLEKHB2,downstream_gene_variant,,ENST00000482225,;"	"C"	"ENSG00000115762"	"ENST00000409158"	"Transcript"	"intron_variant"	"-/2277"	"-/693"	"-/230"	""	""	""	"1"	NA	1	"PLEKHB2"	"HGNC"	19236	"protein_coding"	"YES"	"CCDS58730.1"	"ENSP00000386410"	"Q96CS7"	""	"UPI0000EE817E"	""	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"7600a0d0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324324324324324	"WGS"	FALSE
"6607"	"AJ239322.1"	0	"mskcc.org"	"GRCh37"	"2"	132741502	132741502	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000419362"	""	86	"57"	29	37	"37"	0	"AJ239322.1,upstream_gene_variant,,ENST00000419362,;RP1-156L9.1,downstream_gene_variant,,ENST00000419784,;"	"A"	"ENSG00000235615"	"ENST00000419362"	"Transcript"	"upstream_gene_variant"	"-/2209"	""	""	""	""	""	"1"	"4056"	-1	"AJ239322.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"76019602-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337209302325581	"WGS"	FALSE
"6608"	"AC097532.2"	0	"mskcc.org"	"GRCh37"	"2"	133053941	133053941	"+"	"5'Flank"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000440802"	""	94	"64"	30	53	"52"	1	"AC097532.2,upstream_gene_variant,,ENST00000440802,;"	"C"	"ENSG00000230803"	"ENST00000440802"	"Transcript"	"upstream_gene_variant"	"-/322"	""	""	""	""	""	"1"	"1991"	-1	"AC097532.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"7602679e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319148936170213	"WGS"	FALSE
"6609"	"NCKAP5"	344148	"mskcc.org"	"GRCh37"	"2"	133950156	133950156	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.207+21132C>T"	""	""	"ENST00000409261"	""	95	"73"	22	60	"60"	0	"NCKAP5,intron_variant,,ENST00000409261,NM_207363.2;NCKAP5,intron_variant,,ENST00000317721,;NCKAP5,intron_variant,,ENST00000409213,NM_207481.3;NCKAP5,intron_variant,,ENST00000427594,;NCKAP5,intron_variant,,ENST00000405974,;"	"A"	"ENSG00000176771"	"ENST00000409261"	"Transcript"	"intron_variant"	"-/7592"	"-/5730"	"-/1909"	""	""	""	"1"	NA	-1	"NCKAP5"	"HGNC"	29847	"protein_coding"	"YES"	"CCDS46418.1"	"ENSP00000387128"	"O14513"	"C9JYL7"	"UPI0000E07A3F"	"NM_207363.2"	""	""	""	"5/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"7602d67a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231578947368421	"WGS"	FALSE
"6610"	"CCNT2"	905	"mskcc.org"	"GRCh37"	"2"	135675734	135675734	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000264157"	""	91	"85"	6	43	"43"	0	"CCNT2,upstream_gene_variant,,ENST00000264157,NM_058241.2,NM_001241.3;CCNT2,upstream_gene_variant,,ENST00000295238,;CCNT2,upstream_gene_variant,,ENST00000537343,;CCNT2,upstream_gene_variant,,ENST00000446247,;CCNT2-AS1,intron_variant,,ENST00000537615,;CCNT2-AS1,intron_variant,,ENST00000428857,;CCNT2-AS1,intron_variant,,ENST00000413962,;CCNT2-AS1,intron_variant,,ENST00000392929,;CCNT2,upstream_gene_variant,,ENST00000419781,;CCNT2,upstream_gene_variant,,ENST00000452839,;CCNT2,upstream_gene_variant,,ENST00000417175,;CCNT2,upstream_gene_variant,,ENST00000464932,;CCNT2,upstream_gene_variant,,ENST00000475094,;"	"T"	"ENSG00000082258"	"ENST00000264157"	"Transcript"	"upstream_gene_variant"	"-/6917"	"-/2193"	"-/730"	""	""	""	"1"	"661"	1	"CCNT2"	"HGNC"	1600	"protein_coding"	"YES"	"CCDS2174.1"	"ENSP00000264157"	"O60583"	""	"UPI000013E228"	"NM_058241.2,NM_001241.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"760381ba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"6611"	"MAP3K19"	80122	"mskcc.org"	"GRCh37"	"2"	135783740	135783740	"+"	"5'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000375845"	""	103	"78"	25	52	"52"	0	"MAP3K19,intron_variant,,ENST00000414343,;MAP3K19,upstream_gene_variant,,ENST00000375845,NM_025052.3;MAP3K19,upstream_gene_variant,,ENST00000392915,;MAP3K19,upstream_gene_variant,,ENST00000315513,;MAP3K19,upstream_gene_variant,,ENST00000358371,NM_001018044.2;MAP3K19,upstream_gene_variant,,ENST00000375844,NM_001018046.1;MAP3K19,upstream_gene_variant,,ENST00000392918,NM_001018047.2;MAP3K19,upstream_gene_variant,,ENST00000392917,NM_001282883.1;MAP3K19,upstream_gene_variant,,ENST00000425952,;MAP3K19,downstream_gene_variant,,ENST00000486077,;MAP3K19,intron_variant,,ENST00000468155,;"	"C"	"ENSG00000176601"	"ENST00000375845"	"Transcript"	"upstream_gene_variant"	"-/4377"	"-/3987"	"-/1328"	""	""	""	"1"	"1492"	-1	"MAP3K19"	"HGNC"	26249	"protein_coding"	"YES"	"CCDS2176.2"	"ENSP00000365005"	"Q56UN5"	"H7C041,C9JGQ2,C9JEJ9"	"UPI00004F77F2"	"NM_025052.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76038f8e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242718446601942	"WGS"	FALSE
"6612"	"THSD7B"	80731	"mskcc.org"	"GRCh37"	"2"	138132685	138132685	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2501-30498A>G"	""	""	"ENST00000272643"	""	87	"70"	17	42	"42"	0	"THSD7B,intron_variant,,ENST00000409968,;THSD7B,intron_variant,,ENST00000272643,;THSD7B,intron_variant,,ENST00000413152,NM_001080427.1;THSD7B,intron_variant,,ENST00000543459,;"	"G"	"ENSG00000144229"	"ENST00000272643"	"Transcript"	"intron_variant"	"-/5942"	"-/4830"	"-/1609"	""	""	""	"1"	NA	1	"THSD7B"	"HGNC"	29348	"protein_coding"	"YES"	""	"ENSP00000272643"	"Q9C0I4"	""	"UPI00015E0A18"	""	""	""	""	"11/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"7604b756-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195402298850575	"WGS"	FALSE
"6613"	"HNMT"	3176	"mskcc.org"	"GRCh37"	"2"	138752054	138752054	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.191-6434T>C"	""	""	"ENST00000280097"	""	103	"80"	23	53	"53"	0	"HNMT,intron_variant,,ENST00000280097,NM_006895.2;HNMT,intron_variant,,ENST00000410115,;HNMT,intron_variant,,ENST00000485653,;HNMT,intron_variant,,ENST00000467390,;HNMT,downstream_gene_variant,,ENST00000475675,;"	"C"	"ENSG00000150540"	"ENST00000280097"	"Transcript"	"intron_variant"	"-/3291"	"-/879"	"-/292"	""	""	""	"1"	NA	1	"HNMT"	"HGNC"	5028	"protein_coding"	"YES"	"CCDS2181.1"	"ENSP00000280097"	"P50135"	""	"UPI0000001BD1"	"NM_006895.2"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7604ec1c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223300970873786	"WGS"	FALSE
"6614"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	140637077	140637077	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"71"	32	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7605531e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310679611650485	"WGS"	FALSE
"6615"	"LRP1B"	53353	"mskcc.org"	"GRCh37"	"2"	141669740	141669740	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"rs544627403"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3320-4094G>T"	""	""	"ENST00000389484"	""	112	"67"	45	57	"57"	0	"LRP1B,intron_variant,,ENST00000389484,NM_018557.2;LRP1B,intron_variant,,ENST00000434794,;"	"A"	"ENSG00000168702"	"ENST00000389484"	"Transcript"	"intron_variant"	"-/16535"	"-/13800"	"-/4599"	""	""	"rs544627403"	"1"	NA	-1	"LRP1B"	"HGNC"	6693	"protein_coding"	"YES"	"CCDS2182.1"	"ENSP00000374135"	"Q9NZR2"	"Q8WY27,Q8WY26,Q580W7,Q53TB8,Q53S76,Q53S73,Q53S26,Q53RL0,Q53RG4,Q53RA0,Q53QP5,Q53QM8,Q4ZG53,Q4ZFV5"	"UPI00001B045B"	"NM_018557.2"	""	""	""	"21/90"	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"7605b1b0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.401785714285714	"WGS"	FALSE
"6616"	"KYNU"	8942	"mskcc.org"	"GRCh37"	"2"	143759362	143759362	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.902+15772A>G"	""	""	"ENST00000264170"	""	100	"61"	39	66	"66"	0	"KYNU,intron_variant,,ENST00000264170,NM_003937.2;KYNU,intron_variant,,ENST00000409512,NM_001199241.1;AC013444.2,downstream_gene_variant,,ENST00000408242,;"	"G"	"ENSG00000115919"	"ENST00000264170"	"Transcript"	"intron_variant"	"-/1805"	"-/1398"	"-/465"	""	""	""	"1"	NA	1	"KYNU"	"HGNC"	6469	"protein_coding"	"YES"	"CCDS2183.1"	"ENSP00000264170"	"Q16719"	"Q53SY0,Q53SX6"	"UPI000012E176"	"NM_003937.2"	""	""	""	"10/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAG"	"760641c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.39	"WGS"	FALSE
"6617"	"AC016682.1"	0	"mskcc.org"	"GRCh37"	"2"	151047772	151047772	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.181+19655A>T"	""	""	"ENST00000437118"	""	95	"68"	27	48	"48"	0	"AC016682.1,intron_variant,,ENST00000437118,;"	"T"	"ENSG00000230645"	"ENST00000437118"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/368"	""	""	""	""	""	"1"	NA	1	"AC016682.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"7608588e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284210526315789	"WGS"	FALSE
"6618"	"CACNB4"	785	"mskcc.org"	"GRCh37"	"2"	152768985	152768985	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.148-29101C>T"	""	""	"ENST00000539935"	""	117	"110"	7	63	"63"	0	"CACNB4,intron_variant,,ENST00000360283,;CACNB4,intron_variant,,ENST00000539935,NM_001145798.1,NM_000726.3;CACNB4,intron_variant,,ENST00000397327,;CACNB4,intron_variant,,ENST00000534999,NM_001005747.2;CACNB4,intron_variant,,ENST00000439467,;CACNB4,intron_variant,,ENST00000427385,NM_001005746.2;CACNB4,intron_variant,,ENST00000201943,;CACNB4,intron_variant,,ENST00000434468,;CACNB4,intron_variant,,ENST00000475848,;CACNB4,intron_variant,,ENST00000470066,;"	"A"	"ENSG00000182389"	"ENST00000539935"	"Transcript"	"intron_variant"	"-/7974"	"-/1563"	"-/520"	""	""	""	"1"	NA	-1	"CACNB4"	"HGNC"	1404	"protein_coding"	"YES"	"CCDS46426.1"	"ENSP00000438949"	"O00305"	"Q9NZA2,Q580I4,Q53S65"	"UPI0000208F1E"	"NM_001145798.1,NM_000726.3"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"7608de62-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0598290598290598	"WGS"	FALSE
"6619"	"CACNB4"	785	"mskcc.org"	"GRCh37"	"2"	152769013	152769013	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.148-29129T>A"	""	""	"ENST00000539935"	""	121	"114"	7	67	"67"	0	"CACNB4,intron_variant,,ENST00000360283,;CACNB4,intron_variant,,ENST00000539935,NM_001145798.1,NM_000726.3;CACNB4,intron_variant,,ENST00000397327,;CACNB4,intron_variant,,ENST00000534999,NM_001005747.2;CACNB4,intron_variant,,ENST00000439467,;CACNB4,intron_variant,,ENST00000427385,NM_001005746.2;CACNB4,intron_variant,,ENST00000201943,;CACNB4,intron_variant,,ENST00000434468,;CACNB4,intron_variant,,ENST00000475848,;CACNB4,intron_variant,,ENST00000470066,;"	"T"	"ENSG00000182389"	"ENST00000539935"	"Transcript"	"intron_variant"	"-/7974"	"-/1563"	"-/520"	""	""	""	"1"	NA	-1	"CACNB4"	"HGNC"	1404	"protein_coding"	"YES"	"CCDS46426.1"	"ENSP00000438949"	"O00305"	"Q9NZA2,Q580I4,Q53S65"	"UPI0000208F1E"	"NM_001145798.1,NM_000726.3"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"7608e088-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0578512396694215	"WGS"	FALSE
"6620"	"CACNB4"	785	"mskcc.org"	"GRCh37"	"2"	152769272	152769272	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.148-29388C>A"	""	""	"ENST00000539935"	""	100	"94"	6	56	"56"	0	"CACNB4,intron_variant,,ENST00000360283,;CACNB4,intron_variant,,ENST00000539935,NM_001145798.1,NM_000726.3;CACNB4,intron_variant,,ENST00000397327,;CACNB4,intron_variant,,ENST00000534999,NM_001005747.2;CACNB4,intron_variant,,ENST00000439467,;CACNB4,intron_variant,,ENST00000427385,NM_001005746.2;CACNB4,intron_variant,,ENST00000201943,;CACNB4,intron_variant,,ENST00000434468,;CACNB4,intron_variant,,ENST00000475848,;CACNB4,intron_variant,,ENST00000470066,;"	"T"	"ENSG00000182389"	"ENST00000539935"	"Transcript"	"intron_variant"	"-/7974"	"-/1563"	"-/520"	""	""	""	"1"	NA	-1	"CACNB4"	"HGNC"	1404	"protein_coding"	"YES"	"CCDS46426.1"	"ENSP00000438949"	"O00305"	"Q9NZA2,Q580I4,Q53S65"	"UPI0000208F1E"	"NM_001145798.1,NM_000726.3"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"7608e38a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.06	"WGS"	FALSE
"6621"	"CACNB4"	785	"mskcc.org"	"GRCh37"	"2"	152769279	152769279	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.148-29395C>T"	""	""	"ENST00000539935"	""	104	"95"	9	55	"55"	0	"CACNB4,intron_variant,,ENST00000360283,;CACNB4,intron_variant,,ENST00000539935,NM_001145798.1,NM_000726.3;CACNB4,intron_variant,,ENST00000397327,;CACNB4,intron_variant,,ENST00000534999,NM_001005747.2;CACNB4,intron_variant,,ENST00000439467,;CACNB4,intron_variant,,ENST00000427385,NM_001005746.2;CACNB4,intron_variant,,ENST00000201943,;CACNB4,intron_variant,,ENST00000434468,;CACNB4,intron_variant,,ENST00000475848,;CACNB4,intron_variant,,ENST00000470066,;"	"A"	"ENSG00000182389"	"ENST00000539935"	"Transcript"	"intron_variant"	"-/7974"	"-/1563"	"-/520"	""	""	""	"1"	NA	-1	"CACNB4"	"HGNC"	1404	"protein_coding"	"YES"	"CCDS46426.1"	"ENSP00000438949"	"O00305"	"Q9NZA2,Q580I4,Q53S65"	"UPI0000208F1E"	"NM_001145798.1,NM_000726.3"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"7608e4a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0865384615384615	"WGS"	FALSE
"6622"	"CACNB4"	785	"mskcc.org"	"GRCh37"	"2"	152769284	152769284	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.148-29400A>C"	""	""	"ENST00000539935"	""	105	"97"	8	55	"55"	0	"CACNB4,intron_variant,,ENST00000360283,;CACNB4,intron_variant,,ENST00000539935,NM_001145798.1,NM_000726.3;CACNB4,intron_variant,,ENST00000397327,;CACNB4,intron_variant,,ENST00000534999,NM_001005747.2;CACNB4,intron_variant,,ENST00000439467,;CACNB4,intron_variant,,ENST00000427385,NM_001005746.2;CACNB4,intron_variant,,ENST00000201943,;CACNB4,intron_variant,,ENST00000434468,;CACNB4,intron_variant,,ENST00000475848,;CACNB4,intron_variant,,ENST00000470066,;"	"G"	"ENSG00000182389"	"ENST00000539935"	"Transcript"	"intron_variant"	"-/7974"	"-/1563"	"-/520"	""	""	""	"1"	NA	-1	"CACNB4"	"HGNC"	1404	"protein_coding"	"YES"	"CCDS46426.1"	"ENSP00000438949"	"O00305"	"Q9NZA2,Q580I4,Q53S65"	"UPI0000208F1E"	"NM_001145798.1,NM_000726.3"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTT"	"7608e5a6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0761904761904762	"WGS"	FALSE
"6623"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	154233535	154233535	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"87"	15	68	"68"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7609714c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"6624"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	155900670	155900670	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"69"	40	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7609f3d8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36697247706422	"WGS"	FALSE
"6625"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	155968104	155968104	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"101"	7	52	"52"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"7609fb12-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0648148148148148	"WGS"	FALSE
"6626"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	156024423	156024423	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"78"	31	52	"52"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"760a0102-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284403669724771	"WGS"	FALSE
"6627"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	157774193	157774193	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"80"	31	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"760a649e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279279279279279	"WGS"	FALSE
"6628"	"ACVR1C"	130399	"mskcc.org"	"GRCh37"	"2"	158446903	158446903	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"rs544290632"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.74-2974A>G"	""	""	"ENST00000243349"	""	85	"61"	24	48	"48"	0	"ACVR1C,intron_variant,,ENST00000243349,NM_001111032.1,NM_145259.2;ACVR1C,intron_variant,,ENST00000409680,NM_001111031.1;ACVR1C,intron_variant,,ENST00000335450,;ACVR1C,intron_variant,,ENST00000348328,NM_001111033.1;"	"C"	"ENSG00000123612"	"ENST00000243349"	"Transcript"	"intron_variant"	"-/8994"	"-/1482"	"-/493"	""	""	"rs544290632"	"1"	NA	-1	"ACVR1C"	"HGNC"	18123	"protein_coding"	"YES"	"CCDS2205.1"	"ENSP00000243349"	"Q8NER5"	"Q53SF5"	"UPI000006CFAE"	"NM_001111032.1,NM_145259.2"	""	""	""	"1/8"	""	"C:0.0002"	"C:0.0008"	"C:0"	NA	"C:0"	"C:0"	"C:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"760a9f54-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282352941176471	"WGS"	FALSE
"6629"	"ACVR1C"	130399	"mskcc.org"	"GRCh37"	"2"	158446912	158446912	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.74-2983A>T"	""	""	"ENST00000243349"	""	94	"69"	25	51	"51"	0	"ACVR1C,intron_variant,,ENST00000243349,NM_001111032.1,NM_145259.2;ACVR1C,intron_variant,,ENST00000409680,NM_001111031.1;ACVR1C,intron_variant,,ENST00000335450,;ACVR1C,intron_variant,,ENST00000348328,NM_001111033.1;"	"A"	"ENSG00000123612"	"ENST00000243349"	"Transcript"	"intron_variant"	"-/8994"	"-/1482"	"-/493"	""	""	""	"1"	NA	-1	"ACVR1C"	"HGNC"	18123	"protein_coding"	"YES"	"CCDS2205.1"	"ENSP00000243349"	"Q8NER5"	"Q53SF5"	"UPI000006CFAE"	"NM_001111032.1,NM_145259.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"760aa03a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265957446808511	"WGS"	FALSE
"6630"	"DAPL1"	92196	"mskcc.org"	"GRCh37"	"2"	159660691	159660691	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.59-103A>T"	""	""	"ENST00000309950"	""	101	"95"	6	62	"62"	0	"DAPL1,intron_variant,,ENST00000309950,NM_001017920.2;DAPL1,intron_variant,,ENST00000409042,;DAPL1,upstream_gene_variant,,ENST00000343761,;"	"T"	"ENSG00000163331"	"ENST00000309950"	"Transcript"	"intron_variant"	"-/552"	"-/324"	"-/107"	""	""	""	"1"	NA	1	"DAPL1"	"HGNC"	21490	"protein_coding"	"YES"	"CCDS33307.1"	"ENSP00000309538"	"A0PJW8"	"M1E9T5"	"UPI000016001A"	"NM_001017920.2"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"760afb48-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0594059405940594	"WGS"	FALSE
"6631"	"TANC1"	85461	"mskcc.org"	"GRCh37"	"2"	160067180	160067180	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3245-6828T>C"	""	""	"ENST00000263635"	""	92	"84"	8	55	"55"	0	"TANC1,intron_variant,,ENST00000263635,NM_033394.2,NM_001145909.1;TANC1,intron_variant,,ENST00000454300,;TANC1,intron_variant,,ENST00000470074,;"	"C"	"ENSG00000115183"	"ENST00000263635"	"Transcript"	"intron_variant"	"-/7470"	"-/5586"	"-/1861"	""	""	""	"1"	NA	1	"TANC1"	"HGNC"	29364	"protein_coding"	"YES"	"CCDS42766.1"	"ENSP00000263635"	"Q9C0D5"	""	"UPI0000421D80"	"NM_033394.2,NM_001145909.1"	""	""	""	"19/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"760b4896-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"6632"	"AC092684.1"	0	"mskcc.org"	"GRCh37"	"2"	165000623	165000623	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.196+106607C>T"	""	""	"ENST00000429636"	""	87	"68"	19	59	"59"	0	"AC092684.1,intron_variant,,ENST00000429636,;"	"A"	"ENSG00000237844"	"ENST00000429636"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/714"	""	""	""	""	""	"1"	NA	-1	"AC092684.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"760cbabe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218390804597701	"WGS"	FALSE
"6633"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	165224087	165224087	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"85"	5	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"760ccbc6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"6634"	"SCN1A"	6323	"mskcc.org"	"GRCh37"	"2"	166857837	166857837	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4284+1145A>T"	""	""	"ENST00000303395"	""	94	"67"	27	80	"80"	0	"SCN1A,intron_variant,,ENST00000423058,NM_001165963.1,NM_001202435.1;SCN1A,intron_variant,,ENST00000303395,;SCN1A,intron_variant,,ENST00000375405,NM_001165964.1,NM_006920.4;SCN1A,intron_variant,,ENST00000409050,;AC010127.3,intron_variant,,ENST00000595647,;AC010127.3,intron_variant,,ENST00000597623,;SCN1A,intron_variant,,ENST00000491429,;SCN1A,upstream_gene_variant,,ENST00000473295,;"	"A"	"ENSG00000144285"	"ENST00000303395"	"Transcript"	"intron_variant"	"-/8112"	"-/6030"	"-/2009"	""	""	""	"1"	NA	-1	"SCN1A"	"HGNC"	10585	"protein_coding"	"YES"	"CCDS54413.1"	"ENSP00000303540"	"P35498"	"F8T7W7"	"UPI000003C71D"	""	""	""	""	"21/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"760d460a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287234042553192	"WGS"	FALSE
"6635"	"SCN9A"	6335	"mskcc.org"	"GRCh37"	"2"	167226926	167226926	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-51+5281G>A"	""	""	"ENST00000409672"	""	109	"92"	17	48	"48"	0	"SCN9A,intron_variant,,ENST00000303354,;SCN9A,intron_variant,,ENST00000375387,;SCN9A,intron_variant,,ENST00000409672,NM_002977.3;"	"T"	"ENSG00000169432"	"ENST00000409672"	"Transcript"	"intron_variant"	"-/9768"	"-/5934"	"-/1977"	""	""	""	"1"	NA	-1	"SCN9A"	"HGNC"	10597	"protein_coding"	"YES"	"CCDS46441.1"	"ENSP00000386306"	"Q15858"	"Q53QP0"	"UPI0000140AC7"	"NM_002977.3"	""	""	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"760d77ba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155963302752294	"WGS"	FALSE
"6636"	"MYO3B"	140469	"mskcc.org"	"GRCh37"	"2"	171212695	171212695	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.816-13037T>A"	""	""	"ENST00000408978"	""	83	"76"	7	42	"42"	0	"MYO3B,intron_variant,,ENST00000334231,;MYO3B,intron_variant,,ENST00000408978,NM_138995.4;MYO3B,intron_variant,,ENST00000409044,NM_001083615.3;MYO3B,intron_variant,,ENST00000484338,;MYO3B,intron_variant,,ENST00000442690,;MYO3B,intron_variant,,ENST00000602629,;MYO3B,intron_variant,,ENST00000438642,;MYO3B,intron_variant,,ENST00000317935,;MYO3B,intron_variant,,ENST00000409940,;"	"A"	"ENSG00000071909"	"ENST00000408978"	"Transcript"	"intron_variant"	"-/5529"	"-/4026"	"-/1341"	""	""	""	"1"	NA	1	"MYO3B"	"HGNC"	15576	"protein_coding"	"YES"	"CCDS42773.1"	"ENSP00000386213"	"Q8WXR4"	""	"UPI000020907B"	"NM_138995.4"	""	""	""	"8/34"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"760eab3a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"6637"	"TLK1"	9874	"mskcc.org"	"GRCh37"	"2"	172048042	172048042	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-6+39613G>C"	""	""	"ENST00000521943"	""	112	"81"	31	49	"49"	0	"TLK1,intron_variant,,ENST00000521943,NM_001136554.1;"	"G"	"ENSG00000198586"	"ENST00000521943"	"Transcript"	"intron_variant"	"-/2605"	"-/2157"	"-/718"	""	""	""	"1"	NA	-1	"TLK1"	"HGNC"	11841	"protein_coding"	""	"CCDS46447.1"	"ENSP00000428113"	"Q9UKI8"	"Q53TE4"	"UPI0000209093"	"NM_001136554.1"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"760f03aa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276785714285714	"WGS"	FALSE
"6638"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	174564556	174564556	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	27	"22"	5	10	"10"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76101376-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WGS"	FALSE
"6639"	"ZNF385B"	151126	"mskcc.org"	"GRCh37"	"2"	180661981	180661981	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-199-26582T>C"	""	""	"ENST00000410066"	""	97	"73"	24	55	"55"	0	"ZNF385B,intron_variant,,ENST00000410066,NM_152520.4;ZNF385B,intron_variant,,ENST00000451732,;ZNF385B,upstream_gene_variant,,ENST00000438871,;"	"G"	"ENSG00000144331"	"ENST00000410066"	"Transcript"	"intron_variant"	"-/3288"	"-/1416"	"-/471"	""	""	""	"1"	NA	-1	"ZNF385B"	"HGNC"	26332	"protein_coding"	"YES"	"CCDS33339.1"	"ENSP00000386845"	"Q569K4"	"Q53S82,Q53R81,C9JPH4,C9JKK0,C9J0U3"	"UPI00004F9C24"	"NM_152520.4"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"7612074e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247422680412371	"WGS"	FALSE
"6640"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	180979971	180979971	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"69"	28	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"76121202-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288659793814433	"WGS"	FALSE
"6641"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	184922020	184922020	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"88"	7	41	"41"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"76132d7c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"6642"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	185148052	185148052	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"67"	20	52	"52"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"76133bb4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229885057471264	"WGS"	FALSE
"6643"	"MIR548AE1"	100616305	"mskcc.org"	"GRCh37"	"2"	185241796	185241796	"+"	"5'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000583292"	""	115	"81"	34	58	"58"	0	"MIR548AE1,upstream_gene_variant,,ENST00000583292,;"	"A"	"ENSG00000266808"	"ENST00000583292"	"Transcript"	"upstream_gene_variant"	"-/70"	""	""	""	""	""	"1"	"1906"	1	"MIR548AE1"	"HGNC"	41742	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"76134762-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295652173913043	"WGS"	FALSE
"6644"	"ENSR00000603890"	0	"mskcc.org"	"GRCh37"	"2"	187759777	187759777	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000603890"	""	102	"74"	28	51	"51"	0	""	"G"	""	"ENSR00000603890"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"7613dd58-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274509803921569	"WGS"	FALSE
"6645"	"NAB1"	4664	"mskcc.org"	"GRCh37"	"2"	191546794	191546794	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1006-1670G>A"	""	""	"ENST00000337386"	""	91	"61"	30	52	"52"	0	"NAB1,intron_variant,,ENST00000337386,NM_005966.3;NAB1,intron_variant,,ENST00000409641,;NAB1,intron_variant,,ENST00000409581,;NAB1,intron_variant,,ENST00000357215,;NAB1,intron_variant,,ENST00000434473,;NAB1,intron_variant,,ENST00000545490,;AC006460.2,intron_variant,,ENST00000421437,;AC006460.2,intron_variant,,ENST00000411949,;AC006460.2,intron_variant,,ENST00000428032,;NAB1,intron_variant,,ENST00000484774,;"	"A"	"ENSG00000138386"	"ENST00000337386"	"Transcript"	"intron_variant"	"-/4358"	"-/1464"	"-/487"	""	""	""	"1"	NA	1	"NAB1"	"HGNC"	7626	"protein_coding"	"YES"	"CCDS2307.1"	"ENSP00000336894"	"Q13506"	"C9JL92,C9JJ42,C9JID4,C9JFF6,C9J3V0"	"UPI0000001C43"	"NM_005966.3"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7614f6ca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32967032967033	"WGS"	FALSE
"6646"	"GLS"	2744	"mskcc.org"	"GRCh37"	"2"	191798202	191798202	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1650+1839G>A"	""	""	"ENST00000320717"	""	112	"94"	18	68	"68"	0	"GLS,3_prime_UTR_variant,,ENST00000338435,NM_001256310.1;GLS,intron_variant,,ENST00000320717,NM_014905.4;GLS,intron_variant,,ENST00000457316,;GLS,intron_variant,,ENST00000409428,;GLS,intron_variant,,ENST00000412247,;GLS,downstream_gene_variant,,ENST00000409626,;GLS,downstream_gene_variant,,ENST00000409215,;GLS,downstream_gene_variant,,ENST00000471443,;"	"A"	"ENSG00000115419"	"ENST00000320717"	"Transcript"	"intron_variant"	"-/4834"	"-/2010"	"-/669"	""	""	""	"1"	NA	1	"GLS"	"HGNC"	4331	"protein_coding"	"YES"	"CCDS2308.1"	"ENSP00000317379"	"O94925"	"Q53TX0,Q53S89,Q53RX0,C9JIJ6,B7Z509"	"UPI000012B7F6"	"NM_014905.4"	""	""	""	"14/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7615091c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.160714285714286	"WGS"	FALSE
"6647"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	193920336	193920336	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"101"	7	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"761597c4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0648148148148148	"WGS"	FALSE
"6648"	"ENSR00001713196"	0	"mskcc.org"	"GRCh37"	"2"	194035596	194035596	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001713196"	""	69	"55"	14	34	"34"	0	""	"A"	""	"ENSR00001713196"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76159c10-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202898550724638	"WGS"	FALSE
"6649"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	194359717	194359717	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	134	"88"	46	51	"50"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"7615b79a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.343283582089552	"WGS"	FALSE
"6650"	"AC018799.1"	101927406	"mskcc.org"	"GRCh37"	"2"	195205189	195205189	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"rs535991321"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000419786"	""	99	"73"	26	67	"66"	1	"AC018799.1,upstream_gene_variant,,ENST00000419786,;AC018799.1,upstream_gene_variant,,ENST00000438505,;AC018799.1,upstream_gene_variant,,ENST00000450848,;"	"A"	"ENSG00000225539"	"ENST00000419786"	"Transcript"	"upstream_gene_variant"	"-/1084"	""	""	""	""	"rs535991321"	"1"	"3817"	1	"AC018799.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"A:0.0014"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0.0061"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"7615f91c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.262626262626263	"WGS"	FALSE
"6651"	"DNAH7"	56171	"mskcc.org"	"GRCh37"	"2"	196702610	196702610	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8946-3526A>G"	""	""	"ENST00000312428"	""	102	"76"	26	57	"57"	0	"DNAH7,intron_variant,,ENST00000312428,NM_018897.2;DNAH7,upstream_gene_variant,,ENST00000493844,;"	"C"	"ENSG00000118997"	"ENST00000312428"	"Transcript"	"intron_variant"	"-/12394"	"-/12075"	"-/4024"	""	""	""	"1"	NA	-1	"DNAH7"	"HGNC"	18661	"protein_coding"	"YES"	"CCDS42794.1"	"ENSP00000311273"	"Q8WXX0"	"C9JUY3"	"UPI0000141B95"	"NM_018897.2"	""	""	""	"47/64"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"76167a4a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254901960784314	"WGS"	FALSE
"6652"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	198208245	198208245	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"78"	5	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7616ea3e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0602409638554217	"WGS"	FALSE
"6653"	"PLCL1"	5334	"mskcc.org"	"GRCh37"	"2"	199289510	199289510	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.345+36781C>G"	""	""	"ENST00000472193"	""	107	"68"	39	49	"49"	0	"PLCL1,intron_variant,,ENST00000472193,;"	"G"	"ENSG00000115896"	"ENST00000472193"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1195"	""	""	""	""	""	"1"	NA	1	"PLCL1"	"HGNC"	9063	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"761756ae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364485981308411	"WGS"	FALSE
"6654"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	200028773	200028773	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"72"	29	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"76179894-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287128712871287	"WGS"	FALSE
"6655"	"AOX2P"	344454	"mskcc.org"	"GRCh37"	"2"	201629047	201629047	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2084-394C>T"	""	""	"ENST00000487742"	""	102	"76"	26	57	"57"	0	"AOX2P,intron_variant,,ENST00000467645,;AOX2P,downstream_gene_variant,,ENST00000470911,;AOX2P,intron_variant,,ENST00000487742,;"	"T"	"ENSG00000243478"	"ENST00000487742"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3179"	""	""	""	""	""	"1"	NA	1	"AOX2P"	"HGNC"	18450	"unitary_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"14/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"761832ea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254901960784314	"WGS"	FALSE
"6656"	"BMPR2"	659	"mskcc.org"	"GRCh37"	"2"	203334882	203334882	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.418+2470T>A"	""	""	"ENST00000374580"	""	78	"72"	6	49	"49"	0	"BMPR2,intron_variant,,ENST00000374580,NM_001204.6;BMPR2,intron_variant,,ENST00000374574,;BMPR2,intron_variant,,ENST00000479069,;"	"A"	"ENSG00000204217"	"ENST00000374580"	"Transcript"	"intron_variant"	"-/11461"	"-/3117"	"-/1038"	""	""	""	"1"	NA	1	"BMPR2"	"HGNC"	1078	"protein_coding"	"YES"	"CCDS33361.1"	"ENSP00000363708"	"Q13873"	""	"UPI0000126A3B"	"NM_001204.6"	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"7618f414-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"6657"	"WDR12"	55759	"mskcc.org"	"GRCh37"	"2"	203744705	203744705	"+"	"3'UTR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*878A>C"	""	""	"ENST00000261015"	"13/13"	73	"67"	6	54	"54"	0	"WDR12,3_prime_UTR_variant,,ENST00000261015,NM_018256.3;WDR12,downstream_gene_variant,,ENST00000463824,;WDR12,downstream_gene_variant,,ENST00000467777,;WDR12,downstream_gene_variant,,ENST00000475611,;WDR12,downstream_gene_variant,,ENST00000477727,;WDR12,downstream_gene_variant,,ENST00000464820,;"	"G"	"ENSG00000138442"	"ENST00000261015"	"Transcript"	"3_prime_UTR_variant"	"2900/8100"	"-/1272"	"-/423"	""	""	""	"1"	NA	-1	"WDR12"	"HGNC"	14098	"protein_coding"	"YES"	"CCDS2356.1"	"ENSP00000261015"	"Q9GZL7"	"Q53T99"	"UPI0000138ED2"	"NM_018256.3"	""	""	"13/13"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"7619562a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"6658"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	205206956	205206956	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"93"	6	70	"70"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7619d9e2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"6659"	"ADAM23"	8745	"mskcc.org"	"GRCh37"	"2"	207490433	207490433	"+"	"3'Flank"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000264377"	""	93	"62"	31	49	"49"	0	"ADAM23,downstream_gene_variant,,ENST00000264377,NM_003812.3;"	"C"	"ENSG00000114948"	"ENST00000264377"	"Transcript"	"downstream_gene_variant"	"-/6327"	"-/2499"	"-/832"	""	""	""	"1"	"4582"	1	"ADAM23"	"HGNC"	202	"protein_coding"	"YES"	"CCDS2369.1"	"ENSP00000264377"	"O75077"	"Q53TK5,Q53TC0,Q53RX4"	"UPI0000044543"	"NM_003812.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"761a9a3a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"6660"	"DYTN"	391475	"mskcc.org"	"GRCh37"	"2"	207587192	207587192	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000452335"	""	113	"107"	6	55	"55"	0	"DYTN,upstream_gene_variant,,ENST00000452335,NM_001093730.1;"	"T"	"ENSG00000232125"	"ENST00000452335"	"Transcript"	"upstream_gene_variant"	"-/2051"	"-/1737"	"-/578"	""	""	""	"1"	"4072"	-1	"DYTN"	"HGNC"	23279	"protein_coding"	"YES"	"CCDS46502.1"	"ENSP00000396593"	"A2CJ06"	""	"UPI0000EE0AB9"	"NM_001093730.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"761a9d6e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0530973451327434	"WGS"	FALSE
"6661"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	208659991	208659991	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"80"	8	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"761af2e6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"6662"	"PLEKHM3"	389072	"mskcc.org"	"GRCh37"	"2"	208822062	208822062	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1547-10826C>A"	""	""	"ENST00000427836"	""	101	"74"	27	45	"45"	0	"PLEKHM3,intron_variant,,ENST00000457206,;PLEKHM3,intron_variant,,ENST00000427836,NM_001080475.2;PLEKHM3,intron_variant,,ENST00000389247,;PLEKHM3,intron_variant,,ENST00000447645,;"	"T"	"ENSG00000178385"	"ENST00000427836"	"Transcript"	"intron_variant"	"-/2792"	"-/2286"	"-/761"	""	""	""	"1"	NA	-1	"PLEKHM3"	"HGNC"	34006	"protein_coding"	"YES"	"CCDS42808.1"	"ENSP00000417003"	"Q6ZWE6"	""	"UPI0000DBEE58"	"NM_001080475.2"	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"761b04ac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267326732673267	"WGS"	FALSE
"6663"	"AC007970.1"	0	"mskcc.org"	"GRCh37"	"2"	211249242	211249242	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.77-43231C>T"	""	""	"ENST00000433296"	""	75	"53"	22	52	"52"	0	"AC007970.1,intron_variant,,ENST00000433296,;AC007970.1,intron_variant,,ENST00000420418,;"	"T"	"ENSG00000234281"	"ENST00000433296"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/864"	""	""	""	""	""	"1"	NA	1	"AC007970.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"761bfbc8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293333333333333	"WGS"	FALSE
"6664"	"ERBB4"	2066	"mskcc.org"	"GRCh37"	"2"	212683873	212683873	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.422-30989A>C"	""	""	"ENST00000342788"	""	111	"69"	42	44	"44"	0	"ERBB4,intron_variant,,ENST00000342788,NM_005235.2;ERBB4,intron_variant,,ENST00000436443,NM_001042599.1;ERBB4,intron_variant,,ENST00000402597,;ERBB4,intron_variant,,ENST00000260943,;ERBB4,intron_variant,,ENST00000435846,;ERBB4,intron_variant,,ENST00000484474,;ERBB4,intron_variant,,ENST00000484594,;"	"G"	"ENSG00000178568"	"ENST00000342788"	"Transcript"	"intron_variant"	"-/12132"	"-/3927"	"-/1308"	""	""	""	"1"	NA	-1	"ERBB4"	"HGNC"	3432	"protein_coding"	"YES"	"CCDS2394.1"	"ENSP00000342235"	"Q15303"	"Q580Q7,Q53T57,Q53R48,Q53R25,Q53QS8,Q4ZG14,E9PDR1"	"UPI00000499DF"	"NM_005235.2"	""	""	""	"3/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"761c9a92-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.378378378378378	"WGS"	TRUE
"6665"	"ERBB4"	2066	"mskcc.org"	"GRCh37"	"2"	213282002	213282002	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.82+121171T>C"	""	""	"ENST00000342788"	""	120	"80"	40	41	"41"	0	"ERBB4,intron_variant,,ENST00000342788,NM_005235.2;ERBB4,intron_variant,,ENST00000436443,NM_001042599.1;ERBB4,intron_variant,,ENST00000402597,;ERBB4,intron_variant,,ENST00000260943,;ERBB4,intron_variant,,ENST00000435846,;ERBB4,intron_variant,,ENST00000484594,;"	"G"	"ENSG00000178568"	"ENST00000342788"	"Transcript"	"intron_variant"	"-/12132"	"-/3927"	"-/1308"	""	""	""	"1"	NA	-1	"ERBB4"	"HGNC"	3432	"protein_coding"	"YES"	"CCDS2394.1"	"ENSP00000342235"	"Q15303"	"Q580Q7,Q53T57,Q53R48,Q53R25,Q53QS8,Q4ZG14,E9PDR1"	"UPI00000499DF"	"NM_005235.2"	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAA"	"761cc238-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	TRUE
"6666"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	217488856	217488856	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"74"	21	50	"50"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"761e3be0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221052631578947	"WGS"	FALSE
"6667"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	218054302	218054302	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	131	"89"	42	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"761e8140-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.320610687022901	"WGS"	FALSE
"6668"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	220445722	220445722	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"65"	5	37	"37"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"761f8bd0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"6669"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	220697824	220697824	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"65"	31	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"761fa2fa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322916666666667	"WGS"	FALSE
"6670"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	221687976	221687976	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"55"	4	35	"35"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"761feda0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0677966101694915	"WGS"	FALSE
"6671"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	224174988	224174988	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"68"	22	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"7620f0a6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244444444444444	"WGS"	FALSE
"6672"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	226635157	226635157	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"82"	38	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"7621e808-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316666666666667	"WGS"	FALSE
"6673"	"ENSR00001552467"	0	"mskcc.org"	"GRCh37"	"2"	226943503	226943503	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001552467"	""	102	"70"	32	57	"57"	0	""	"T"	""	"ENSR00001552467"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7621fd02-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313725490196078	"WGS"	FALSE
"6674"	"RHBDD1"	84236	"mskcc.org"	"GRCh37"	"2"	227696231	227696231	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000392062"	""	105	"69"	36	60	"60"	0	"RHBDD1,upstream_gene_variant,,ENST00000392062,NM_001167608.1;RHBDD1,upstream_gene_variant,,ENST00000341329,NM_032276.3;RHBDD1,upstream_gene_variant,,ENST00000437454,;RHBDD1,upstream_gene_variant,,ENST00000424132,;RHBDD1,upstream_gene_variant,,ENST00000448992,;RHBDD1,upstream_gene_variant,,ENST00000423616,;RHBDD1,upstream_gene_variant,,ENST00000443477,;RHBDD1,upstream_gene_variant,,ENST00000539613,;"	"A"	"ENSG00000144468"	"ENST00000392062"	"Transcript"	"upstream_gene_variant"	"-/5151"	"-/948"	"-/315"	""	""	""	"1"	"4440"	1	"RHBDD1"	"HGNC"	23081	"protein_coding"	"YES"	"CCDS2464.1"	"ENSP00000375914"	"Q8TEB9"	"C9K011,C9JQK8,C9JAS2,C9J4C7,C9J1R4"	"UPI0000047AE4"	"NM_001167608.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"76223d30-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342857142857143	"WGS"	FALSE
"6675"	"COL4A4"	1286	"mskcc.org"	"GRCh37"	"2"	228001873	228001873	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.192+3004C>G"	""	""	"ENST00000396625"	""	102	"74"	28	47	"47"	0	"COL4A4,intron_variant,,ENST00000396625,NM_000092.4;COL4A4,intron_variant,,ENST00000329662,;"	"C"	"ENSG00000081052"	"ENST00000396625"	"Transcript"	"intron_variant"	"-/9895"	"-/5073"	"-/1690"	""	""	""	"1"	NA	-1	"COL4A4"	"HGNC"	2206	"protein_coding"	"YES"	"CCDS42828.1"	"ENSP00000379866"	"P53420"	""	"UPI000013D987"	"NM_000092.4"	""	""	""	"4/47"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"76225702-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274509803921569	"WGS"	FALSE
"6676"	"COL4A4"	1286	"mskcc.org"	"GRCh37"	"2"	228025426	228025426	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-102+3297T>A"	""	""	"ENST00000396625"	""	106	"71"	35	49	"49"	0	"COL4A4,intron_variant,,ENST00000396625,NM_000092.4;COL4A4,intron_variant,,ENST00000329662,;COL4A3,upstream_gene_variant,,ENST00000396578,NM_000091.4;"	"T"	"ENSG00000081052"	"ENST00000396625"	"Transcript"	"intron_variant"	"-/9895"	"-/5073"	"-/1690"	""	""	""	"1"	NA	-1	"COL4A4"	"HGNC"	2206	"protein_coding"	"YES"	"CCDS42828.1"	"ENSP00000379866"	"P53420"	""	"UPI000013D987"	"NM_000092.4"	""	""	""	"1/47"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"76225ab8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330188679245283	"WGS"	FALSE
"6677"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	231691844	231691844	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"63"	28	50	"50"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7623ee0a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"6678"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	232694243	232694243	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	34	"29"	5	13	"13"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7624c834-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"6679"	"DGKD"	8527	"mskcc.org"	"GRCh37"	"2"	234305954	234305954	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.348+6825G>A"	""	""	"ENST00000264057"	""	36	"31"	5	23	"23"	0	"DGKD,intron_variant,,ENST00000264057,NM_152879.2;DGKD,intron_variant,,ENST00000409813,NM_003648.2;DGKD,intron_variant,,ENST00000447484,;DGKD,intron_variant,,ENST00000427930,;AC019221.4,downstream_gene_variant,,ENST00000442524,;"	"A"	"ENSG00000077044"	"ENST00000264057"	"Transcript"	"intron_variant"	"-/6297"	"-/3645"	"-/1214"	""	""	""	"1"	NA	1	"DGKD"	"HGNC"	2851	"protein_coding"	"YES"	"CCDS2504.1"	"ENSP00000264057"	"Q16760"	"Q53SV4,Q53SE4"	"UPI000013D4AF"	"NM_152879.2"	""	""	""	"3/29"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"762620bc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138888888888889	"WGS"	FALSE
"6680"	"MLPH"	79083	"mskcc.org"	"GRCh37"	"2"	238452103	238452103	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1539+801G>C"	""	""	"ENST00000264605"	""	11	"8"	3	9	"9"	0	"MLPH,intron_variant,,ENST00000264605,NM_024101.6;MLPH,intron_variant,,ENST00000338530,NM_001042467.2;MLPH,intron_variant,,ENST00000445024,;MLPH,intron_variant,,ENST00000410032,NM_001281474.1;MLPH,intron_variant,,ENST00000409373,NM_001281473.1;MLPH,intron_variant,,ENST00000437893,;MLPH,intron_variant,,ENST00000415753,;MLPH,intron_variant,,ENST00000434770,;MLPH,downstream_gene_variant,,ENST00000436965,;MLPH,intron_variant,,ENST00000468178,;MLPH,intron_variant,,ENST00000495439,;MLPH,intron_variant,,ENST00000464123,;MLPH,intron_variant,,ENST00000478712,;MLPH,intron_variant,,ENST00000432475,;MLPH,downstream_gene_variant,,ENST00000494110,;MLPH,upstream_gene_variant,,ENST00000477457,;"	"C"	"ENSG00000115648"	"ENST00000264605"	"Transcript"	"intron_variant"	"-/3823"	"-/1803"	"-/600"	""	""	""	"1"	NA	1	"MLPH"	"HGNC"	29643	"protein_coding"	"YES"	"CCDS2518.1"	"ENSP00000264605"	"Q9BV36"	"Q53QV8,Q53QF3,C9JKV5,C9JI01"	"UPI00000730BF"	"NM_024101.6"	""	""	""	"12/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"7628aaee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"6681"	"SCLY"	51540	"mskcc.org"	"GRCh37"	"2"	239006653	239006653	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1209-190G>A"	""	""	"ENST00000254663"	""	80	"56"	24	41	"41"	0	"SCLY,intron_variant,,ENST00000254663,NM_016510.5;SCLY,intron_variant,,ENST00000555827,;SCLY,intron_variant,,ENST00000450965,;SCLY,intron_variant,,ENST00000429612,;SCLY,intron_variant,,ENST00000422984,;SCLY,intron_variant,,ENST00000437134,;SCLY,intron_variant,,ENST00000412508,;ESPNL,upstream_gene_variant,,ENST00000343063,NM_194312.2;ESPNL,upstream_gene_variant,,ENST00000409169,;SCLY,downstream_gene_variant,,ENST00000433750,;SCLY,intron_variant,,ENST00000480357,;UBE2F-SCLY,intron_variant,,ENST00000449891,;SCLY,downstream_gene_variant,,ENST00000463433,;"	"A"	"ENSG00000132330"	"ENST00000254663"	"Transcript"	"intron_variant"	"-/2562"	"-/1362"	"-/453"	""	""	""	"1"	NA	1	"SCLY"	"HGNC"	18161	"protein_coding"	"YES"	"CCDS2524.2"	"ENSP00000254663"	"Q96I15"	"B4DDP9"	"UPI0000EE3842"	"NM_016510.5"	""	""	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"7628fe90-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"6682"	"ILKAP"	80895	"mskcc.org"	"GRCh37"	"2"	239093385	239093385	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"rs571479385"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.532+437A>T"	""	""	"ENST00000254654"	""	87	"81"	6	44	"44"	0	"ILKAP,intron_variant,,ENST00000254654,NM_030768.2;ILKAP,intron_variant,,ENST00000457149,;ILKAP,upstream_gene_variant,,ENST00000450411,;ILKAP,intron_variant,,ENST00000466468,;ILKAP,intron_variant,,ENST00000463129,;ILKAP,intron_variant,,ENST00000479400,;ILKAP,downstream_gene_variant,,ENST00000467133,;ILKAP,downstream_gene_variant,,ENST00000498727,;"	"A"	"ENSG00000132323"	"ENST00000254654"	"Transcript"	"intron_variant"	"-/1490"	"-/1179"	"-/392"	""	""	"rs571479385"	"1"	NA	-1	"ILKAP"	"HGNC"	15566	"protein_coding"	"YES"	"CCDS2526.1"	"ENSP00000254654"	"Q9H0C8"	""	"UPI000007307E"	"NM_030768.2"	""	""	""	"6/11"	""	"A:0.0106"	"A:0.0356"	"A:0.0072"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"762926b8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"6683"	"KIF1A"	547	"mskcc.org"	"GRCh37"	"2"	241657381	241657381	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5333+86C>T"	""	""	"ENST00000498729"	""	98	"75"	23	66	"66"	0	"KIF1A,intron_variant,,ENST00000498729,NM_001244008.1;KIF1A,intron_variant,,ENST00000320389,NM_004321.6;KIF1A,downstream_gene_variant,,ENST00000431776,;KIF1A,intron_variant,,ENST00000460788,;KIF1A,intron_variant,,ENST00000492812,;KIF1A,downstream_gene_variant,,ENST00000465813,;KIF1A,downstream_gene_variant,,ENST00000488776,;"	"A"	"ENSG00000130294"	"ENST00000498729"	"Transcript"	"intron_variant"	"-/9162"	"-/5376"	"-/1791"	""	""	""	"1"	NA	-1	"KIF1A"	"HGNC"	888	"protein_coding"	"YES"	"CCDS58757.1"	"ENSP00000438388"	"Q12756"	"G1UI30,C9JBH1"	"UPI0002065B81"	"NM_001244008.1"	""	""	""	"48/49"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"762c278c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23469387755102	"WGS"	FALSE
"6684"	"C20orf96"	140680	"mskcc.org"	"GRCh37"	"20"	259770	259770	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"rs374290294"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.465+43A>T"	""	""	"ENST00000360321"	""	17	"13"	4	8	"8"	0	"C20orf96,intron_variant,,ENST00000360321,NM_153269.2,NM_080571.1;C20orf96,intron_variant,,ENST00000382369,;C20orf96,intron_variant,,ENST00000400269,;"	"A"	"ENSG00000196476"	"ENST00000360321"	"Transcript"	"intron_variant"	"-/1575"	"-/1092"	"-/363"	""	""	"rs374290294"	"1"	NA	-1	"C20orf96"	"HGNC"	16227	"protein_coding"	"YES"	"CCDS12994.1"	"ENSP00000353470"	"Q9NUD7"	""	"UPI00001285F1"	"NM_153269.2,NM_080571.1"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	"A:0.0057"	"A:0.0001"	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"762edc66-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheINDEL99.00to99.50"	"FALSE"	0.235294117647059	"WGS"	FALSE
"6685"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	566251	566251	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs117770850"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"99"	7	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs117770850"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"G:0.0431"	"G:0.053"	"G:0.0115"	NA	"G:0.0942"	"G:0.006"	"G:0.0378"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"762efa98-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0660377358490566	"WGS"	FALSE
"6686"	"RSPO4"	343637	"mskcc.org"	"GRCh37"	"20"	939780	939780	"+"	"3'UTR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1220C>T"	""	""	"ENST00000217260"	"5/5"	60	"55"	5	40	"40"	0	"RSPO4,3_prime_UTR_variant,,ENST00000217260,NM_001029871.3;RSPO4,downstream_gene_variant,,ENST00000400634,NM_001040007.2;"	"A"	"ENSG00000101282"	"ENST00000217260"	"Transcript"	"3_prime_UTR_variant"	"2022/2707"	"-/705"	"-/234"	""	""	""	"1"	NA	-1	"RSPO4"	"HGNC"	16175	"protein_coding"	"YES"	"CCDS42846.1"	"ENSP00000217260"	"Q2I0M5"	""	"UPI00001D8320"	"NM_001029871.3"	""	""	"5/5"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"762f248c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"6687"	"TGM3"	7053	"mskcc.org"	"GRCh37"	"20"	2276629	2276629	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000381458"	""	88	"69"	19	51	"51"	0	"TGM3,upstream_gene_variant,,ENST00000381458,NM_003245.3;"	"T"	"ENSG00000125780"	"ENST00000381458"	"Transcript"	"upstream_gene_variant"	"-/2642"	"-/2082"	"-/693"	""	""	""	"1"	"18"	1	"TGM3"	"HGNC"	11779	"protein_coding"	"YES"	"CCDS33435.1"	"ENSP00000370867"	"Q08188"	""	"UPI0000136CCC"	"NM_003245.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"762faf7e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215909090909091	"WGS"	FALSE
"6688"	"PANK2"	80025	"mskcc.org"	"GRCh37"	"20"	3865816	3865816	"+"	"5'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000316562"	""	75	"50"	25	43	"43"	0	"PANK2,upstream_gene_variant,,ENST00000497424,NM_024960.4,NM_153640.2;PANK2,upstream_gene_variant,,ENST00000316562,NM_153638.2;PANK2,upstream_gene_variant,,ENST00000610179,;PANK2,upstream_gene_variant,,ENST00000495692,;RP11-119B16.2,downstream_gene_variant,,ENST00000451507,;PANK2,upstream_gene_variant,,ENST00000336066,;"	"A"	"ENSG00000125779"	"ENST00000316562"	"Transcript"	"upstream_gene_variant"	"-/2280"	"-/1713"	"-/570"	""	""	""	"1"	"3926"	1	"PANK2"	"HGNC"	15894	"protein_coding"	"YES"	"CCDS13071.2"	"ENSP00000313377"	"Q9BZ23"	"Q52M85,D3DVZ1,A4FU43"	"UPI000036701A"	"NM_153638.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"7630c832-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"6689"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	4261858	4261858	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"74"	22	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"7630f78a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229166666666667	"WGS"	FALSE
"6690"	"SLC23A2"	9962	"mskcc.org"	"GRCh37"	"20"	4956604	4956604	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-281-5039A>T"	""	""	"ENST00000379333"	""	83	"76"	7	53	"53"	0	"SLC23A2,intron_variant,,ENST00000379333,NM_203327.1;SLC23A2,intron_variant,,ENST00000338244,NM_005116.5;SLC23A2,intron_variant,,ENST00000424750,;SLC23A2,intron_variant,,ENST00000468355,;"	"A"	"ENSG00000089057"	"ENST00000379333"	"Transcript"	"intron_variant"	"-/6962"	"-/1953"	"-/650"	""	""	""	"1"	NA	-1	"SLC23A2"	"HGNC"	10973	"protein_coding"	"YES"	"CCDS13085.1"	"ENSP00000368637"	"Q9UGH3"	"Q4ZGM1"	"UPI0000136292"	"NM_203327.1"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"76313010-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"6691"	"LINC00654"	149837	"mskcc.org"	"GRCh37"	"20"	5479562	5479562	"+"	"RNA"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.3264C>A"	""	""	"ENST00000379053"	"2/2"	73	"48"	25	55	"55"	0	"LINC00654,non_coding_transcript_exon_variant,,ENST00000379053,;LINC00654,downstream_gene_variant,,ENST00000589201,;RP5-1022P6.7,upstream_gene_variant,,ENST00000587737,;"	"T"	"ENSG00000205181"	"ENST00000379053"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"3264/6113"	""	""	""	""	""	"1"	NA	-1	"LINC00654"	"HGNC"	27154	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"76318772-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342465753424658	"WGS"	FALSE
"6692"	"GPCPD1"	56261	"mskcc.org"	"GRCh37"	"20"	5572802	5572802	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.231+1171T>A"	""	""	"ENST00000379019"	""	91	"86"	5	61	"61"	0	"GPCPD1,intron_variant,,ENST00000379019,NM_019593.3;GPCPD1,intron_variant,,ENST00000481690,;"	"T"	"ENSG00000125772"	"ENST00000379019"	"Transcript"	"intron_variant"	"-/5454"	"-/2019"	"-/672"	""	""	""	"1"	NA	-1	"GPCPD1"	"HGNC"	26957	"protein_coding"	"YES"	"CCDS13090.1"	"ENSP00000368305"	"Q9NPB8"	"D3DW07"	"UPI0000062241"	"NM_019593.3"	""	""	""	"4/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7631985c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0549450549450549	"WGS"	FALSE
"6693"	"ENSR00000648888"	0	"mskcc.org"	"GRCh37"	"20"	6121925	6121925	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000648888"	""	94	"69"	25	48	"48"	0	""	"T"	""	"ENSR00000648888"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7631eb9a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265957446808511	"WGS"	FALSE
"6694"	"HAO1"	54363	"mskcc.org"	"GRCh37"	"20"	7891570	7891570	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"rs543150734"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.545+3241T>C"	""	""	"ENST00000378789"	""	97	"71"	26	50	"50"	0	"HAO1,intron_variant,,ENST00000378789,NM_017545.2;"	"G"	"ENSG00000101323"	"ENST00000378789"	"Transcript"	"intron_variant"	"-/1777"	"-/1113"	"-/370"	""	""	"rs543150734"	"1"	NA	-1	"HAO1"	"HGNC"	4809	"protein_coding"	"YES"	"CCDS13100.1"	"ENSP00000368066"	"Q9UJM8"	"A8K058"	"UPI000012C08B"	"NM_017545.2"	""	""	""	"3/7"	""	"G:0.0002"	"G:0.0008"	"G:0"	NA	"G:0"	"G:0"	"G:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"76326f0c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268041237113402	"WGS"	FALSE
"6695"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	19072283	19072283	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"51"	20	50	"50"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"76360c0c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28169014084507	"WGS"	FALSE
"6696"	"XRN2"	22803	"mskcc.org"	"GRCh37"	"20"	21292820	21292820	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.75+8709A>T"	""	""	"ENST00000377191"	""	88	"82"	6	40	"40"	0	"XRN2,intron_variant,,ENST00000377191,NM_012255.3;XRN2,intron_variant,,ENST00000539513,;XRN2,intron_variant,,ENST00000430571,;"	"T"	"ENSG00000088930"	"ENST00000377191"	"Transcript"	"intron_variant"	"-/3435"	"-/2853"	"-/950"	""	""	""	"1"	NA	1	"XRN2"	"HGNC"	12836	"protein_coding"	"YES"	"CCDS13144.1"	"ENSP00000366396"	"Q9H0D6"	"B4DZC3"	"UPI0000037D02"	"NM_012255.3"	""	""	""	"1/29"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"7636fbd0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"6697"	"XRN2"	22803	"mskcc.org"	"GRCh37"	"20"	21292832	21292832	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.75+8721G>C"	""	""	"ENST00000377191"	""	89	"83"	6	41	"41"	0	"XRN2,intron_variant,,ENST00000377191,NM_012255.3;XRN2,intron_variant,,ENST00000539513,;XRN2,intron_variant,,ENST00000430571,;"	"C"	"ENSG00000088930"	"ENST00000377191"	"Transcript"	"intron_variant"	"-/3435"	"-/2853"	"-/950"	""	""	""	"1"	NA	1	"XRN2"	"HGNC"	12836	"protein_coding"	"YES"	"CCDS13144.1"	"ENSP00000366396"	"Q9H0D6"	"B4DZC3"	"UPI0000037D02"	"NM_012255.3"	""	""	""	"1/29"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"7636fcca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"6698"	"XRN2"	22803	"mskcc.org"	"GRCh37"	"20"	21332632	21332632	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1936+2533G>T"	""	""	"ENST00000377191"	""	89	"62"	27	52	"52"	0	"XRN2,intron_variant,,ENST00000377191,NM_012255.3;XRN2,intron_variant,,ENST00000539513,;XRN2,intron_variant,,ENST00000430571,;"	"T"	"ENSG00000088930"	"ENST00000377191"	"Transcript"	"intron_variant"	"-/3435"	"-/2853"	"-/950"	""	""	""	"1"	NA	1	"XRN2"	"HGNC"	12836	"protein_coding"	"YES"	"CCDS13144.1"	"ENSP00000366396"	"Q9H0D6"	"B4DZC3"	"UPI0000037D02"	"NM_012255.3"	""	""	""	"20/29"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7636fdd8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303370786516854	"WGS"	FALSE
"6699"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	21873706	21873706	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"88"	22	39	"39"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"7637321c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"6700"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	21990408	21990408	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs748657125"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"72"	12	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs748657125"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76373c30-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"6701"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	22475189	22475189	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"83"	24	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"76376426-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224299065420561	"WGS"	FALSE
"6702"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	22814186	22814186	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"112"	8	70	"70"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"76378d48-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"6703"	"CST4"	1472	"mskcc.org"	"GRCh37"	"20"	23674117	23674117	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000217423"	""	90	"65"	25	46	"46"	0	"CST4,upstream_gene_variant,,ENST00000217423,NM_001899.2;"	"T"	"ENSG00000101441"	"ENST00000217423"	"Transcript"	"upstream_gene_variant"	"-/751"	"-/426"	"-/141"	""	""	""	"1"	"4440"	-1	"CST4"	"HGNC"	2476	"protein_coding"	"YES"	"CCDS13159.1"	"ENSP00000217423"	"P01036"	""	"UPI0000049812"	"NM_001899.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7637e7fc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"6704"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	25382922	25382922	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"62"	23	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7638ced8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270588235294118	"WGS"	FALSE
"6705"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	30764780	30764780	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"17"	3	9	"9"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"763cdb4a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WGS"	FALSE
"6706"	"KIF3B"	9371	"mskcc.org"	"GRCh37"	"20"	30907640	30907640	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1748+2963T>C"	""	""	"ENST00000375712"	""	97	"90"	7	39	"39"	0	"KIF3B,intron_variant,,ENST00000375712,NM_004798.3;KIF3B,intron_variant,,ENST00000418717,;"	"C"	"ENSG00000101350"	"ENST00000375712"	"Transcript"	"intron_variant"	"-/6103"	"-/2244"	"-/747"	""	""	""	"1"	NA	1	"KIF3B"	"HGNC"	6320	"protein_coding"	"YES"	"CCDS13200.1"	"ENSP00000364864"	"O15066"	""	"UPI000012DDB1"	"NM_004798.3"	""	""	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"763cec3e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0721649484536082	"WGS"	FALSE
"6707"	"ENSR00000649234"	0	"mskcc.org"	"GRCh37"	"20"	31707926	31707926	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000649234"	""	107	"102"	5	61	"61"	0	""	"A"	""	"ENSR00000649234"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"763d65ba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0467289719626168	"WGS"	FALSE
"6708"	"DYNLRB1"	83658	"mskcc.org"	"GRCh37"	"20"	33128182	33128182	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.248-203C>T"	""	""	"ENST00000357156"	""	105	"72"	33	54	"54"	0	"DYNLRB1,intron_variant,,ENST00000374846,;DYNLRB1,intron_variant,,ENST00000357156,NM_014183.2,NM_001281728.1,NM_001281727.1,NM_177953.2;DYNLRB1,downstream_gene_variant,,ENST00000417166,;DYNLRB1,intron_variant,,ENST00000480759,;"	"T"	"ENSG00000125971"	"ENST00000357156"	"Transcript"	"intron_variant"	"-/675"	"-/291"	"-/96"	""	""	""	"1"	NA	1	"DYNLRB1"	"HGNC"	15468	"protein_coding"	"YES"	"CCDS13235.1"	"ENSP00000349679"	"Q9NP97"	""	"UPI0000040BFB"	"NM_014183.2,NM_001281728.1,NM_001281727.1,NM_177953.2"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"763dfe8a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314285714285714	"WGS"	FALSE
"6709"	"CNBD2"	140894	"mskcc.org"	"GRCh37"	"20"	34589671	34589671	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.971-6548A>T"	""	""	"ENST00000349339"	""	43	"38"	5	27	"27"	0	"CNBD2,intron_variant,,ENST00000373973,;CNBD2,intron_variant,,ENST00000349339,NM_080834.2;CNBD2,intron_variant,,ENST00000538900,NM_001207076.1;CNBD2,intron_variant,,ENST00000463258,;"	"T"	"ENSG00000149646"	"ENST00000349339"	"Transcript"	"intron_variant"	"-/1927"	"-/1719"	"-/572"	""	""	""	"1"	NA	1	"CNBD2"	"HGNC"	16145	"protein_coding"	"YES"	"CCDS13270.1"	"ENSP00000340954"	"Q96M20"	""	"UPI0000367038"	"NM_080834.2"	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"763ed1c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116279069767442	"WGS"	FALSE
"6710"	"SLA2"	84174	"mskcc.org"	"GRCh37"	"20"	35254623	35254623	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.382+6375A>G"	""	""	"ENST00000262866"	""	78	"73"	5	49	"49"	0	"SLA2,intron_variant,,ENST00000262866,NM_175077.2,NM_032214.3;SLA2,intron_variant,,ENST00000360672,;HNRNPA3P2,downstream_gene_variant,,ENST00000451198,;"	"C"	"ENSG00000101082"	"ENST00000262866"	"Transcript"	"intron_variant"	"-/2757"	"-/786"	"-/261"	""	""	""	"1"	NA	-1	"SLA2"	"HGNC"	17329	"protein_coding"	"YES"	"CCDS13282.1"	"ENSP00000262866"	"Q9H6Q3"	""	"UPI000004B142"	"NM_175077.2,NM_032214.3"	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"763f2238-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0641025641025641	"WGS"	FALSE
"6711"	"DSN1"	79980	"mskcc.org"	"GRCh37"	"20"	35394133	35394133	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs192454453"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.502+1039C>T"	""	""	"ENST00000426836"	""	63	"56"	7	43	"43"	0	"DSN1,intron_variant,,ENST00000426836,NM_001145316.1;DSN1,intron_variant,,ENST00000373745,NM_024918.3;DSN1,intron_variant,,ENST00000373750,NM_001145315.1;DSN1,intron_variant,,ENST00000448110,NM_001145318.1;DSN1,intron_variant,,ENST00000373740,;DSN1,intron_variant,,ENST00000373734,NM_001145317.1;DSN1,intron_variant,,ENST00000447406,;DSN1,intron_variant,,ENST00000438549,;DSN1,intron_variant,,ENST00000473615,;DSN1,intron_variant,,ENST00000492703,;DSN1,intron_variant,,ENST00000480153,;"	"A"	"ENSG00000149636"	"ENST00000426836"	"Transcript"	"intron_variant"	"-/2441"	"-/1071"	"-/356"	""	""	"rs192454453"	"1"	NA	-1	"DSN1"	"HGNC"	16165	"protein_coding"	"YES"	"CCDS13286.1"	"ENSP00000389810"	"Q9H410"	"Q5JW58,Q5JW57,Q5JW53"	"UPI0000128621"	"NM_001145316.1"	""	""	""	"5/10"	""	"A:0.0022"	"A:0.0083"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"763f3e58-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"6712"	"TLDC2"	140711	"mskcc.org"	"GRCh37"	"20"	35502555	35502555	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000217320"	""	113	"108"	5	53	"53"	0	"TLDC2,upstream_gene_variant,,ENST00000217320,NM_080628.1;TLDC2,upstream_gene_variant,,ENST00000602922,;RN7SL156P,downstream_gene_variant,,ENST00000480334,;"	"T"	"ENSG00000101342"	"ENST00000217320"	"Transcript"	"upstream_gene_variant"	"-/2083"	"-/648"	"-/215"	""	""	""	"1"	"1979"	1	"TLDC2"	"HGNC"	16112	"protein_coding"	"YES"	"CCDS33465.1"	"ENSP00000217320"	"A0PJX2"	""	"UPI000049DF51"	"NM_080628.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"763f48da-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0442477876106195	"WGS"	FALSE
"6713"	"TGM2"	7052	"mskcc.org"	"GRCh37"	"20"	36784942	36784942	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.191-451A>C"	""	""	"ENST00000361475"	""	79	"56"	23	41	"41"	0	"TGM2,intron_variant,,ENST00000361475,NM_004613.2,NM_198951.1;TGM2,intron_variant,,ENST00000536701,;TGM2,intron_variant,,ENST00000536724,;TGM2,intron_variant,,ENST00000373403,;TGM2,intron_variant,,ENST00000453095,;TGM2,intron_variant,,ENST00000474777,;TGM2,intron_variant,,ENST00000468262,;"	"G"	"ENSG00000198959"	"ENST00000361475"	"Transcript"	"intron_variant"	"-/3996"	"-/2064"	"-/687"	""	""	""	"1"	NA	-1	"TGM2"	"HGNC"	11778	"protein_coding"	"YES"	"CCDS13302.1"	"ENSP00000355330"	"P21980"	"Q6DKH2,A2A2A0,A2A299"	"UPI0000136CCB"	"NM_004613.2,NM_198951.1"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"763ff9a6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291139240506329	"WGS"	FALSE
"6714"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	37092607	37092607	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs779369543"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"8"	5	8	"8"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs779369543"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"76401cd8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WGS"	FALSE
"6715"	"CDH22"	64405	"mskcc.org"	"GRCh37"	"20"	44810397	44810397	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1664-3561A>G"	""	""	"ENST00000372262"	""	55	"49"	6	34	"34"	0	"CDH22,intron_variant,,ENST00000372262,;CDH22,intron_variant,,ENST00000537909,NM_021248.2;"	"C"	"ENSG00000149654"	"ENST00000372262"	"Transcript"	"intron_variant"	"-/3661"	"-/2487"	"-/828"	""	""	""	"1"	NA	-1	"CDH22"	"HGNC"	13251	"protein_coding"	"YES"	"CCDS13395.1"	"ENSP00000361336"	"Q9UJ99"	"Q49AS4"	"UPI0000126DC0"	""	""	""	""	"9/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"7642f03e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109090909090909	"WGS"	FALSE
"6716"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	46976262	46976262	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"70"	38	48	"47"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76442a44-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351851851851852	"WGS"	FALSE
"6717"	"NFATC2"	4773	"mskcc.org"	"GRCh37"	"20"	50176512	50176512	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.70+2587G>T"	""	""	"ENST00000609943"	""	102	"77"	25	62	"62"	0	"NFATC2,intron_variant,,ENST00000609943,NM_001258295.1,NM_001258292.1,NM_001136021.2;NFATC2,intron_variant,,ENST00000414705,;NFATC2,intron_variant,,ENST00000609507,NM_001258294.1;"	"A"	"ENSG00000101096"	"ENST00000609943"	"Transcript"	"intron_variant"	"-/5690"	"-/2718"	"-/905"	""	""	""	"1"	NA	-1	"NFATC2"	"HGNC"	7776	"protein_coding"	""	"CCDS68157.1"	"ENSP00000477370"	""	"B5B2P4,B5B2P2"	"UPI0001639A83"	"NM_001258295.1,NM_001258292.1,NM_001136021.2"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7646335c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245098039215686	"WGS"	TRUE
"6718"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	51325946	51325946	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs534768858"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"78"	31	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs534768858"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0020"	"T:0.0068"	"T:0.0014"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7646f454-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284403669724771	"WGS"	FALSE
"6719"	"TSHZ2"	128553	"mskcc.org"	"GRCh37"	"20"	51874119	51874119	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*8+1009G>A"	""	""	"ENST00000371497"	""	103	"69"	34	55	"55"	0	"TSHZ2,intron_variant,,ENST00000371497,NM_173485.5,NM_001193421.1;TSHZ2,intron_variant,,ENST00000603338,;TSHZ2,downstream_gene_variant,,ENST00000329613,;RP4-678D15.1,intron_variant,,ENST00000606932,;TSHZ2,intron_variant,,ENST00000605656,;"	"A"	"ENSG00000182463"	"ENST00000371497"	"Transcript"	"intron_variant"	"-/12187"	"-/3105"	"-/1034"	""	""	""	"1"	NA	1	"TSHZ2"	"HGNC"	13010	"protein_coding"	"YES"	"CCDS33490.1"	"ENSP00000360552"	"Q9NRE2"	"S4R3C8"	"UPI0000206747"	"NM_173485.5,NM_001193421.1"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"76472b90-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330097087378641	"WGS"	FALSE
"6720"	"RPL12P4"	0	"mskcc.org"	"GRCh37"	"20"	53691545	53691545	"+"	"RNA"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.389G>A"	""	""	"ENST00000393148"	"2/2"	85	"72"	13	52	"52"	0	"RPL12P4,non_coding_transcript_exon_variant,,ENST00000393148,;RPL12P4,non_coding_transcript_exon_variant,,ENST00000432629,;"	"A"	"ENSG00000185834"	"ENST00000393148"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"389/529"	""	""	""	""	""	"1"	NA	1	"RPL12P4"	"HGNC"	16587	"pseudogene"	"YES"	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"764843e0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152941176470588	"WGS"	FALSE
"6721"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	53906929	53906929	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"70"	12	40	"40"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"76485bb4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146341463414634	"WGS"	FALSE
"6722"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	54120080	54120080	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"74"	31	60	"60"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76486604-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295238095238095	"WGS"	FALSE
"6723"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	54465683	54465683	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	122	"88"	34	59	"58"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"76487b80-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278688524590164	"WGS"	FALSE
"6724"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	54589547	54589547	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"64"	30	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"764890de-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319148936170213	"WGS"	FALSE
"6725"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	55520085	55520085	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"76"	25	42	"42"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"7649017c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247524752475248	"WGS"	FALSE
"6726"	"MIR4325"	100422883	"mskcc.org"	"GRCh37"	"20"	55892914	55892914	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000583049"	""	105	"77"	28	41	"41"	0	"MIR4325,downstream_gene_variant,,ENST00000583049,;"	"A"	"ENSG00000266666"	"ENST00000583049"	"Transcript"	"downstream_gene_variant"	"-/90"	""	""	""	""	""	"1"	"3644"	-1	"MIR4325"	"HGNC"	38304	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7649308e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"6727"	"PMEPA1"	56937	"mskcc.org"	"GRCh37"	"20"	56284471	56284471	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.109+59G>T"	""	""	"ENST00000341744"	""	63	"43"	20	44	"44"	0	"PMEPA1,intron_variant,,ENST00000341744,NM_020182.4;PMEPA1,intron_variant,,ENST00000265626,NM_199171.2;PMEPA1,intron_variant,,ENST00000347215,NM_199170.2,NM_199169.2;PMEPA1,intron_variant,,ENST00000395816,NM_001255976.1;PMEPA1,intron_variant,,ENST00000395819,;PMEPA1,intron_variant,,ENST00000472841,;"	"A"	"ENSG00000124225"	"ENST00000341744"	"Transcript"	"intron_variant"	"-/4845"	"-/864"	"-/287"	""	""	""	"1"	NA	-1	"PMEPA1"	"HGNC"	14107	"protein_coding"	"YES"	"CCDS13463.1"	"ENSP00000345826"	"Q969W9"	""	"UPI000004970A"	"NM_020182.4"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"764955fa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317460317460317	"WGS"	FALSE
"6728"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	56504354	56504354	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"80"	33	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"7649735a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292035398230089	"WGS"	FALSE
"6729"	"RP5-1043L13.1"	729296	"mskcc.org"	"GRCh37"	"20"	58921523	58921523	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.427+25607G>C"	""	""	"ENST00000437035"	""	90	"61"	29	41	"41"	0	"RP5-1043L13.1,intron_variant,,ENST00000437035,;"	"C"	"ENSG00000228340"	"ENST00000437035"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/499"	""	""	""	""	""	"1"	NA	1	"RP5-1043L13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"764aac8e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322222222222222	"WGS"	FALSE
"6730"	"TAF4"	6874	"mskcc.org"	"GRCh37"	"20"	60557169	60557169	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3091-5778C>T"	""	""	"ENST00000252996"	""	17	"9"	8	13	"12"	1	"TAF4,intron_variant,,ENST00000252996,NM_003185.3;TAF4,intron_variant,,ENST00000474089,;TAF4,intron_variant,,ENST00000436129,;TAF4,upstream_gene_variant,,ENST00000608458,;"	"A"	"ENSG00000130699"	"ENST00000252996"	"Transcript"	"intron_variant"	"-/4628"	"-/3258"	"-/1085"	""	""	""	"1"	NA	-1	"TAF4"	"HGNC"	11537	"protein_coding"	"YES"	"CCDS33500.1"	"ENSP00000252996"	"O00268"	""	"UPI000020630A"	"NM_003185.3"	""	""	""	"14/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"764d2cd4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.470588235294118	"WGS"	FALSE
"6731"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	10490327	10490327	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	287	"255"	32	138	"138"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"765c97dc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111498257839721	"WGS"	FALSE
"6732"	"TPTE"	7179	"mskcc.org"	"GRCh37"	"21"	10906106	10906106	"+"	"3'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000361285"	""	253	"240"	13	144	"144"	0	"TPTE,downstream_gene_variant,,ENST00000298232,NM_199259.2;TPTE,downstream_gene_variant,,ENST00000361285,NM_199261.2;TPTE,downstream_gene_variant,,ENST00000342420,NM_199260.2;TPTE,downstream_gene_variant,,ENST00000415664,;TPTE,downstream_gene_variant,,ENST00000447568,;"	"G"	"ENSG00000166157"	"ENST00000361285"	"Transcript"	"downstream_gene_variant"	"-/2150"	"-/1656"	"-/551"	""	""	""	"1"	"635"	-1	"TPTE"	"HGNC"	12023	"protein_coding"	"YES"	"CCDS13560.2"	"ENSP00000355208"	"P56180"	""	"UPI000016A18A"	"NM_199261.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"76615678-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0513833992094862	"WGS"	FALSE
"6733"	"TPTE"	7179	"mskcc.org"	"GRCh37"	"21"	10940547	10940547	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.795+1361C>T"	""	""	"ENST00000361285"	""	221	"195"	26	115	"115"	0	"TPTE,intron_variant,,ENST00000298232,NM_199259.2;TPTE,intron_variant,,ENST00000361285,NM_199261.2;TPTE,intron_variant,,ENST00000342420,NM_199260.2;TPTE,intron_variant,,ENST00000415664,;TPTE,intron_variant,,ENST00000447568,;CYCSP41,upstream_gene_variant,,ENST00000451532,;"	"A"	"ENSG00000166157"	"ENST00000361285"	"Transcript"	"intron_variant"	"-/2150"	"-/1656"	"-/551"	""	""	""	"1"	NA	-1	"TPTE"	"HGNC"	12023	"protein_coding"	"YES"	"CCDS13560.2"	"ENSP00000355208"	"P56180"	""	"UPI000016A18A"	"NM_199261.2"	""	""	""	"14/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"76616dfc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"6734"	"TMPRSS15"	5651	"mskcc.org"	"GRCh37"	"21"	19685668	19685668	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2033-274T>C"	""	""	"ENST00000284885"	""	95	"88"	7	48	"48"	0	"TMPRSS15,intron_variant,,ENST00000284885,NM_002772.2;"	"G"	"ENSG00000154646"	"ENST00000284885"	"Transcript"	"intron_variant"	"-/3947"	"-/3060"	"-/1019"	""	""	""	"1"	NA	-1	"TMPRSS15"	"HGNC"	9490	"protein_coding"	"YES"	"CCDS13571.1"	"ENSP00000284885"	"P98073"	"Q9NR95"	"UPI000013DDBE"	"NM_002772.2"	""	""	""	"17/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"766e892e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"6735"	"TMPRSS15"	5651	"mskcc.org"	"GRCh37"	"21"	19726642	19726642	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs561567995"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.881-462G>A"	""	""	"ENST00000284885"	""	82	"55"	27	62	"62"	0	"TMPRSS15,intron_variant,,ENST00000284885,NM_002772.2;"	"T"	"ENSG00000154646"	"ENST00000284885"	"Transcript"	"intron_variant"	"-/3947"	"-/3060"	"-/1019"	""	""	"rs561567995"	"1"	NA	-1	"TMPRSS15"	"HGNC"	9490	"protein_coding"	"YES"	"CCDS13571.1"	"ENSP00000284885"	"P98073"	"Q9NR95"	"UPI000013DDBE"	"NM_002772.2"	""	""	""	"8/24"	""	"T:0.0010"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.0051"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"766e8d2a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329268292682927	"WGS"	FALSE
"6736"	"TMPRSS15"	5651	"mskcc.org"	"GRCh37"	"21"	19837757	19837757	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.10+20360C>A"	""	""	"ENST00000422787"	""	101	"69"	32	59	"59"	0	"TMPRSS15,intron_variant,,ENST00000422787,;TMPRSS15,upstream_gene_variant,,ENST00000474775,;"	"T"	"ENSG00000154646"	"ENST00000422787"	"Transcript"	"intron_variant"	"-/754"	"-/683"	"-/227"	""	""	""	"1"	NA	-1	"TMPRSS15"	"HGNC"	9490	"protein_coding"	""	""	"ENSP00000398253"	""	"Q9NR95,E9PG70"	"UPI0000E5A385"	""	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"766e984c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316831683168317	"WGS"	FALSE
"6737"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	22066666	22066666	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs537857215"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"56"	22	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs537857215"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"766f760e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282051282051282	"WGS"	FALSE
"6738"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	24983586	24983586	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"88"	7	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"76706d7a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"6739"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	25159487	25159487	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"65"	27	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"76708c92-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293478260869565	"WGS"	FALSE
"6740"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	25300400	25300400	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	40	"29"	11	27	"27"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7670a916-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275	"WGS"	FALSE
"6741"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	25465728	25465728	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"62"	36	60	"59"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"7670b94c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36734693877551	"WGS"	FALSE
"6742"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	26013229	26013229	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"104"	8	42	"42"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7670dad0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"6743"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	26096528	26096528	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs558492187"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"74"	37	67	"67"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs558492187"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0004"	"A:0.0015"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7670e138-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"6744"	"CYYR1"	116159	"mskcc.org"	"GRCh37"	"21"	27844168	27844168	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.335-3218A>C"	""	""	"ENST00000299340"	""	107	"68"	39	64	"64"	0	"CYYR1,intron_variant,,ENST00000299340,NM_052954.2;CYYR1,intron_variant,,ENST00000435845,;AP001597.1,intron_variant,,ENST00000357401,;AP001597.1,intron_variant,,ENST00000414486,;AP001596.6,downstream_gene_variant,,ENST00000421771,;AP001596.6,downstream_gene_variant,,ENST00000429340,;AP001596.6,downstream_gene_variant,,ENST00000444306,;"	"G"	"ENSG00000166265"	"ENST00000299340"	"Transcript"	"intron_variant"	"-/3101"	"-/465"	"-/154"	""	""	""	"1"	NA	-1	"CYYR1"	"HGNC"	16274	"protein_coding"	"YES"	"CCDS13578.1"	"ENSP00000299340"	"Q96J86"	""	"UPI0000128D80"	"NM_052954.2"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"76716cf2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364485981308411	"WGS"	FALSE
"6745"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	28841225	28841225	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"87"	5	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7671c4a4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0543478260869565	"WGS"	FALSE
"6746"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	29045090	29045090	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"65"	24	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7671dce6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269662921348315	"WGS"	FALSE
"6747"	"ENSR00001565982"	0	"mskcc.org"	"GRCh37"	"21"	29065303	29065303	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001565982"	""	101	"74"	27	52	"52"	0	""	"T"	""	"ENSR00001565982"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7671ddf4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267326732673267	"WGS"	FALSE
"6748"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	29193149	29193149	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"73"	30	52	"51"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7671f096-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29126213592233	"WGS"	FALSE
"6749"	"KRTAP13-3"	337960	"mskcc.org"	"GRCh37"	"21"	31794115	31794115	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390690"	""	76	"59"	17	50	"50"	0	"KRTAP13-3,downstream_gene_variant,,ENST00000390690,NM_181622.1;"	"A"	"ENSG00000240432"	"ENST00000390690"	"Transcript"	"downstream_gene_variant"	"-/704"	"-/519"	"-/172"	""	""	""	"1"	"3468"	-1	"KRTAP13-3"	"HGNC"	18925	"protein_coding"	"YES"	"CCDS13591.1"	"ENSP00000375109"	"Q3SY46"	""	"UPI000003B46C"	"NM_181622.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"7672b616-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223684210526316	"WGS"	FALSE
"6750"	"TIAM1"	7074	"mskcc.org"	"GRCh37"	"21"	32719132	32719132	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-368-7395C>T"	""	""	"ENST00000286827"	""	87	"60"	27	50	"50"	0	"TIAM1,intron_variant,,ENST00000286827,NM_003253.2;TIAM1,upstream_gene_variant,,ENST00000455508,;TIAM1,intron_variant,,ENST00000469412,;"	"A"	"ENSG00000156299"	"ENST00000286827"	"Transcript"	"intron_variant"	"-/7200"	"-/4776"	"-/1591"	""	""	""	"1"	NA	-1	"TIAM1"	"HGNC"	11805	"protein_coding"	"YES"	"CCDS13609.1"	"ENSP00000286827"	"Q13009"	"C9JMB5"	"UPI000013DE6F"	"NM_003253.2"	""	""	""	"2/28"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"76732128-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"6751"	"CLIC6"	54102	"mskcc.org"	"GRCh37"	"21"	36053833	36053833	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1374+10772G>T"	""	""	"ENST00000349499"	""	98	"73"	25	50	"50"	0	"CLIC6,intron_variant,,ENST00000360731,;CLIC6,intron_variant,,ENST00000349499,NM_053277.1;"	"T"	"ENSG00000159212"	"ENST00000349499"	"Transcript"	"intron_variant"	"-/3806"	"-/2061"	"-/686"	""	""	""	"1"	NA	1	"CLIC6"	"HGNC"	2065	"protein_coding"	"YES"	"CCDS13638.1"	"ENSP00000290332"	"Q96NY7"	""	"UPI000000D7AC"	"NM_053277.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"76758cb0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255102040816327	"WGS"	FALSE
"6752"	"RUNX1"	861	"mskcc.org"	"GRCh37"	"21"	36753419	36753419	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-197+80840T>A"	""	""	"ENST00000475045"	""	78	"61"	17	31	"31"	0	"RUNX1,intron_variant,,ENST00000475045,;RUNX1,intron_variant,,ENST00000467692,;"	"T"	"ENSG00000159216"	"ENST00000475045"	"Transcript"	"intron_variant"	"-/1582"	"-/148"	"-/49"	""	""	""	"1"	NA	-1	"RUNX1"	"HGNC"	10471	"protein_coding"	""	""	"ENSP00000477072"	""	""	"UPI0003B92906"	""	""	""	""	"9/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"7675d04e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217948717948718	"WGS"	TRUE
"6753"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	41229943	41229943	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"71"	22	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"7677aa72-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236559139784946	"WGS"	FALSE
"6754"	"DSCAM"	1826	"mskcc.org"	"GRCh37"	"21"	42067830	42067830	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.362-2948A>T"	""	""	"ENST00000400454"	""	102	"72"	30	49	"49"	0	"DSCAM,intron_variant,,ENST00000400454,NM_001271534.1,NM_001389.3;"	"A"	"ENSG00000171587"	"ENST00000400454"	"Transcript"	"intron_variant"	"-/8552"	"-/6039"	"-/2012"	""	""	""	"1"	NA	-1	"DSCAM"	"HGNC"	3039	"protein_coding"	"YES"	"CCDS42929.1"	"ENSP00000383303"	"O60469"	""	"UPI00000422DF"	"NM_001271534.1,NM_001389.3"	""	""	""	"2/32"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"767855da-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"6755"	"YRDCP3"	0	"mskcc.org"	"GRCh37"	"21"	42237729	42237729	"+"	"3'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000456507"	""	106	"75"	31	47	"46"	1	"YRDCP3,downstream_gene_variant,,ENST00000456507,;"	"A"	"ENSG00000230859"	"ENST00000456507"	"Transcript"	"downstream_gene_variant"	"-/480"	""	""	""	""	""	"1"	"1330"	1	"YRDCP3"	"HGNC"	39921	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"76786a98-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292452830188679	"WGS"	FALSE
"6756"	"ENSR00001728524"	0	"mskcc.org"	"GRCh37"	"21"	43198954	43198954	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001728524"	""	84	"74"	10	51	"51"	0	""	"G"	""	"ENSR00001728524"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7678d668-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"6757"	"C2CD2"	25966	"mskcc.org"	"GRCh37"	"21"	43313785	43313785	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1871-4332A>T"	""	""	"ENST00000380486"	""	87	"56"	31	50	"50"	0	"C2CD2,intron_variant,,ENST00000380486,NM_015500.1;C2CD2,intron_variant,,ENST00000329623,NM_199050.2;C2CD2,intron_variant,,ENST00000449165,;C2CD2,intron_variant,,ENST00000482186,;C2CD2,intron_variant,,ENST00000482084,;"	"A"	"ENSG00000157617"	"ENST00000380486"	"Transcript"	"intron_variant"	"-/6345"	"-/2091"	"-/696"	""	""	""	"1"	NA	-1	"C2CD2"	"HGNC"	1266	"protein_coding"	"YES"	"CCDS42933.1"	"ENSP00000369853"	"Q9Y426"	""	"UPI0000206BBE"	"NM_015500.1"	""	""	""	"13/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"76793aea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35632183908046	"WGS"	FALSE
"6758"	"CBS"	875	"mskcc.org"	"GRCh37"	"21"	44471717	44471717	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000398165"	""	43	"33"	10	27	"27"	0	"CBS,downstream_gene_variant,,ENST00000398165,NM_000071.2;CBS,downstream_gene_variant,,ENST00000352178,NM_001178008.1;CBS,downstream_gene_variant,,ENST00000398168,;CBS,downstream_gene_variant,,ENST00000398158,;CBS,downstream_gene_variant,,ENST00000359624,NM_001178009.1;CBS,downstream_gene_variant,,ENST00000544202,;CBS,downstream_gene_variant,,ENST00000430013,;CBS,downstream_gene_variant,,ENST00000458223,;CBS,downstream_gene_variant,,ENST00000451248,;CBS,downstream_gene_variant,,ENST00000461686,;CBS,downstream_gene_variant,,ENST00000491776,;CBS,downstream_gene_variant,,ENST00000462349,;"	"T"	"ENSG00000160200"	"ENST00000398165"	"Transcript"	"downstream_gene_variant"	"-/2605"	"-/1656"	"-/551"	""	""	""	"1"	"1584"	-1	"CBS"	"HGNC"	1550	"protein_coding"	"YES"	"CCDS13693.1"	"ENSP00000381231"	"P35520"	"Q96EH7,Q3LR94,F5H2U1,C9JMA6"	"UPI0000036BC5"	"NM_000071.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"767a5c72-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232558139534884	"WGS"	FALSE
"6759"	"PDXK"	8566	"mskcc.org"	"GRCh37"	"21"	45163465	45163465	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs570988798"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.248-140G>A"	""	""	"ENST00000291565"	""	57	"51"	6	36	"36"	0	"PDXK,intron_variant,,ENST00000291565,NM_003681.4;PDXK,intron_variant,,ENST00000468090,;PDXK,intron_variant,,ENST00000467908,;PDXK,downstream_gene_variant,,ENST00000327574,;PDXK,downstream_gene_variant,,ENST00000398081,;PDXK,intron_variant,,ENST00000343528,;PDXK,intron_variant,,ENST00000398078,;PDXK,intron_variant,,ENST00000498040,;PDXK,intron_variant,,ENST00000398085,;PDXK,intron_variant,,ENST00000470029,;PDXK,intron_variant,,ENST00000481512,;PDXK,intron_variant,,ENST00000490666,;PDXK,intron_variant,,ENST00000472777,;PDXK,downstream_gene_variant,,ENST00000476313,;PDXK,upstream_gene_variant,,ENST00000468392,;"	"A"	"ENSG00000160209"	"ENST00000291565"	"Transcript"	"intron_variant"	"-/7366"	"-/939"	"-/312"	""	""	"rs570988798"	"1"	NA	1	"PDXK"	"HGNC"	8819	"protein_coding"	"YES"	"CCDS13699.1"	"ENSP00000291565"	"O00764"	"G1UI32"	"UPI0000131524"	"NM_003681.4"	""	""	""	"3/10"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"767b1a4a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"6760"	"TSPEAR"	54084	"mskcc.org"	"GRCh37"	"21"	45923529	45923529	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1856+1134C>A"	""	""	"ENST00000323084"	""	47	"42"	5	30	"30"	0	"TSPEAR,intron_variant,,ENST00000323084,NM_001272037.1,NM_144991.2;TSPEAR,downstream_gene_variant,,ENST00000397916,;TSPEAR-AS1,upstream_gene_variant,,ENST00000451035,;"	"T"	"ENSG00000175894"	"ENST00000323084"	"Transcript"	"intron_variant"	"-/3967"	"-/2010"	"-/669"	""	""	""	"1"	NA	-1	"TSPEAR"	"HGNC"	1268	"protein_coding"	"YES"	"CCDS13712.1"	"ENSP00000321987"	"Q8WU66"	""	"UPI0000137746"	"NM_001272037.1,NM_144991.2"	""	""	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"767c1b2a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106382978723404	"WGS"	FALSE
"6761"	"LINC00334"	0	"mskcc.org"	"GRCh37"	"21"	46659992	46659992	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.156-3455C>T"	""	""	"ENST00000328344"	""	91	"62"	29	51	"51"	0	"LINC00334,intron_variant,,ENST00000584169,;LINC00334,intron_variant,,ENST00000328344,;"	"T"	"ENSG00000182586"	"ENST00000328344"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/530"	""	""	""	""	""	"1"	NA	1	"LINC00334"	"HGNC"	16425	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"767ce53c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318681318681319	"WGS"	FALSE
"6762"	"LSS"	4047	"mskcc.org"	"GRCh37"	"21"	47649043	47649043	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000397728"	""	22	"19"	3	8	"8"	0	"LSS,upstream_gene_variant,,ENST00000397728,NM_002340.5,NM_001145436.1;LSS,upstream_gene_variant,,ENST00000457828,NM_001145437.1;LSS,upstream_gene_variant,,ENST00000356396,NM_001001438.2;LSS,upstream_gene_variant,,ENST00000522411,;LSS,upstream_gene_variant,,ENST00000450351,;MCM3AP-AS1,upstream_gene_variant,,ENST00000414659,;MCM3AP-AS1,upstream_gene_variant,,ENST00000455567,;MCM3AP-AS1,upstream_gene_variant,,ENST00000432735,;MCM3AP-AS1,upstream_gene_variant,,ENST00000421927,;MCM3AP-AS1,upstream_gene_variant,,ENST00000444998,;MCM3AP-AS1,upstream_gene_variant,,ENST00000420074,;MCM3AP-AS1,upstream_gene_variant,,ENST00000590829,;MCM3AP-AS1,upstream_gene_variant,,ENST00000588753,;MCM3AP-AS1,upstream_gene_variant,,ENST00000591223,;LSS,upstream_gene_variant,,ENST00000464357,;LSS,upstream_gene_variant,,ENST00000472272,;"	"C"	"ENSG00000160285"	"ENST00000397728"	"Transcript"	"upstream_gene_variant"	"-/4936"	"-/2199"	"-/732"	""	""	""	"1"	"305"	-1	"LSS"	"HGNC"	6708	"protein_coding"	"YES"	"CCDS13733.1"	"ENSP00000380837"	"P48449"	""	"UPI000012A14D"	"NM_002340.5,NM_001145436.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"767f8bd4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"6763"	"LA16c-3G11.7"	0	"mskcc.org"	"GRCh37"	"22"	16250731	16250731	"+"	"3'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000417657"	""	86	"55"	31	49	"49"	0	"LA16c-3G11.7,downstream_gene_variant,,ENST00000417657,;"	"A"	"ENSG00000241838"	"ENST00000417657"	"Transcript"	"downstream_gene_variant"	"-/1123"	""	""	""	""	""	"1"	"4624"	-1	"LA16c-3G11.7"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"76817d68-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36046511627907	"WGS"	FALSE
"6764"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	16601802	16601802	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	145	"136"	9	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"7682e04a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0620689655172414	"WGS"	FALSE
"6765"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	18714598	18714598	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	45	"41"	4	26	"26"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7686e726-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"6766"	"DGCR2"	9993	"mskcc.org"	"GRCh37"	"22"	19018927	19018927	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000263196"	""	90	"68"	22	53	"53"	0	"DGCR2,downstream_gene_variant,,ENST00000545799,;DGCR2,downstream_gene_variant,,ENST00000263196,NM_001184781.1,NM_005137.2;DGCR2,downstream_gene_variant,,ENST00000537045,NM_001173533.1,NM_001173534.1;DGCR5,downstream_gene_variant,,ENST00000440005,;DGCR2,downstream_gene_variant,,ENST00000389262,;CA15P1,downstream_gene_variant,,ENST00000481698,;"	"A"	"ENSG00000070413"	"ENST00000263196"	"Transcript"	"downstream_gene_variant"	"-/4480"	"-/1653"	"-/550"	""	""	""	"1"	"4872"	-1	"DGCR2"	"HGNC"	2845	"protein_coding"	"YES"	"CCDS33598.1"	"ENSP00000263196"	"P98153"	"B7Z8B7,B7Z3C4"	"UPI0000001613"	"NM_001184781.1,NM_005137.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"76888388-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244444444444444	"WGS"	FALSE
"6767"	"KLHL22"	84861	"mskcc.org"	"GRCh37"	"22"	20826362	20826362	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs189660130"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.228-560G>A"	""	""	"ENST00000328879"	""	81	"71"	10	41	"41"	0	"KLHL22,intron_variant,,ENST00000328879,NM_032775.3;KLHL22,intron_variant,,ENST00000440659,;KLHL22,intron_variant,,ENST00000444967,;KLHL22,intron_variant,,ENST00000443285,;KLHL22,intron_variant,,ENST00000458248,;KLHL22,intron_variant,,ENST00000451553,;KLHL22,intron_variant,,ENST00000431430,;KLHL22-IT1,downstream_gene_variant,,ENST00000532431,;KLHL22,intron_variant,,ENST00000494929,;KLHL22,intron_variant,,ENST00000479601,;"	"T"	"ENSG00000099910"	"ENST00000328879"	"Transcript"	"intron_variant"	"-/2616"	"-/1905"	"-/634"	""	""	"rs189660130"	"1"	NA	-1	"KLHL22"	"HGNC"	25888	"protein_coding"	"YES"	"CCDS13780.1"	"ENSP00000331682"	"Q53GT1"	"C9J2T1,C9J191,B7Z2G1"	"UPI0000072F37"	"NM_032775.3"	""	""	""	"2/6"	""	"T:0.0004"	"T:0"	"T:0.0029"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"768a166c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123456790123457	"WGS"	FALSE
"6768"	"BCR"	613	"mskcc.org"	"GRCh37"	"22"	23621533	23621533	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2116-4631G>T"	""	""	"ENST00000305877"	""	103	"74"	29	49	"49"	0	"BCR,intron_variant,,ENST00000305877,NM_004327.3;BCR,intron_variant,,ENST00000359540,NM_021574.2;BCR,intron_variant,,ENST00000427791,;BCR,upstream_gene_variant,,ENST00000487968,;BCR,upstream_gene_variant,,ENST00000466076,;"	"T"	"ENSG00000186716"	"ENST00000305877"	"Transcript"	"intron_variant"	"-/7082"	"-/3816"	"-/1271"	""	""	""	"1"	NA	1	"BCR"	"HGNC"	1014	"protein_coding"	"YES"	"CCDS13806.1"	"ENSP00000303507"	"P11274"	""	"UPI000016A088"	"NM_004327.3"	""	""	""	"8/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"768e4566-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.281553398058252	"WGS"	TRUE
"6769"	"CABIN1"	23523	"mskcc.org"	"GRCh37"	"22"	24521073	24521073	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4632+5408T>G"	""	""	"ENST00000398319"	""	101	"66"	35	55	"55"	0	"CABIN1,intron_variant,,ENST00000398319,NM_001199281.1;CABIN1,intron_variant,,ENST00000263119,NM_012295.3,NM_001201429.1;CABIN1,intron_variant,,ENST00000405822,;"	"G"	"ENSG00000099991"	"ENST00000398319"	"Transcript"	"intron_variant"	"-/7480"	"-/6663"	"-/2220"	""	""	""	"1"	NA	1	"CABIN1"	"HGNC"	24187	"protein_coding"	"YES"	"CCDS13823.1"	"ENSP00000381364"	"Q9Y6J0"	""	"UPI0000126D6C"	"NM_001199281.1"	""	""	""	"28/36"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"768efe0c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346534653465347	"WGS"	FALSE
"6770"	"SPECC1L"	23384	"mskcc.org"	"GRCh37"	"22"	24774844	24774844	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3087+9556G>C"	""	""	"ENST00000314328"	""	79	"59"	20	44	"44"	0	"SPECC1L,intron_variant,,ENST00000314328,NM_015330.4,NM_001254733.1;SPECC1L,intron_variant,,ENST00000437398,NM_001145468.3,NM_001254732.2;SPECC1L,intron_variant,,ENST00000541492,;SPECC1L-ADORA2A,intron_variant,,ENST00000358654,;"	"C"	"ENSG00000100014"	"ENST00000314328"	"Transcript"	"intron_variant"	"-/6756"	"-/3354"	"-/1117"	""	""	""	"1"	NA	1	"SPECC1L"	"HGNC"	29022	"protein_coding"	"YES"	"CCDS33619.1"	"ENSP00000325785"	"Q69YQ0"	"C9JLY8,C9J8U1"	"UPI00001B64E9"	"NM_015330.4,NM_001254733.1"	""	""	""	"14/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"768f5d48-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253164556962025	"WGS"	FALSE
"6771"	"KIAA1671"	85379	"mskcc.org"	"GRCh37"	"22"	25569289	25569289	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4650-918G>T"	""	""	"ENST00000358431"	""	110	"87"	23	61	"61"	0	"KIAA1671,intron_variant,,ENST00000358431,NM_001145206.1;KIAA1671,intron_variant,,ENST00000406486,;KIAA1671,intron_variant,,ENST00000401395,;KIAA1671,intron_variant,,ENST00000494730,;"	"T"	"ENSG00000197077"	"ENST00000358431"	"Transcript"	"intron_variant"	"-/10490"	"-/5421"	"-/1806"	""	""	""	"1"	NA	1	"KIAA1671"	"HGNC"	29345	"protein_coding"	"YES"	"CCDS46676.1"	"ENSP00000351207"	"Q9BY89"	""	"UPI00002073DC"	"NM_001145206.1"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"7690384e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209090909090909	"WGS"	FALSE
"6772"	"ZNRF3"	84133	"mskcc.org"	"GRCh37"	"22"	29354033	29354033	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.301-29031G>T"	""	""	"ENST00000544604"	""	63	"41"	22	40	"40"	0	"ZNRF3,intron_variant,,ENST00000544604,NM_001206998.1;ZNRF3,intron_variant,,ENST00000332811,;ZNRF3,intron_variant,,ENST00000402174,NM_032173.3;"	"T"	"ENSG00000183579"	"ENST00000544604"	"Transcript"	"intron_variant"	"-/6851"	"-/2811"	"-/936"	""	""	""	"1"	NA	1	"ZNRF3"	"HGNC"	18126	"protein_coding"	"YES"	"CCDS56225.1"	"ENSP00000443824"	"Q9ULT6"	""	"UPI0000EE5944"	"NM_001206998.1"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"7692230c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349206349206349	"WGS"	FALSE
"6773"	"AC000041.8"	0	"mskcc.org"	"GRCh37"	"22"	29821853	29821853	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000439655"	""	77	"71"	6	44	"44"	0	"AP1B1,upstream_gene_variant,,ENST00000415447,;AC000041.8,upstream_gene_variant,,ENST00000439655,;"	"G"	"ENSG00000242156"	"ENST00000439655"	"Transcript"	"upstream_gene_variant"	"-/175"	""	""	""	""	""	"1"	"2671"	-1	"AC000041.8"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"769283d8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"6774"	"THOC5"	8563	"mskcc.org"	"GRCh37"	"22"	29948230	29948230	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-12+1430A>G"	""	""	"ENST00000490103"	""	73	"68"	5	42	"42"	0	"THOC5,intron_variant,,ENST00000490103,NM_003678.4;THOC5,intron_variant,,ENST00000397872,NM_001002878.1;THOC5,intron_variant,,ENST00000397871,NM_001002879.1;THOC5,intron_variant,,ENST00000397873,NM_001002877.1;THOC5,intron_variant,,ENST00000440771,;THOC5,intron_variant,,ENST00000418021,;THOC5,intron_variant,,ENST00000428374,;NIPSNAP1,downstream_gene_variant,,ENST00000216121,NM_001202502.1,NM_003634.3;THOC5,intron_variant,,ENST00000442555,;THOC5,intron_variant,,ENST00000414902,;THOC5,upstream_gene_variant,,ENST00000358079,;THOC5,upstream_gene_variant,,ENST00000475187,;"	"C"	"ENSG00000100296"	"ENST00000490103"	"Transcript"	"intron_variant"	"-/4753"	"-/2052"	"-/683"	""	""	""	"1"	NA	-1	"THOC5"	"HGNC"	19074	"protein_coding"	"YES"	"CCDS13859.1"	"ENSP00000420306"	"Q13769"	"C9JXU6,C9JXG5,C9JCL9"	"UPI000013FD77"	"NM_003678.4"	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"76929cec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0684931506849315	"WGS"	FALSE
"6775"	"MTMR3"	8897	"mskcc.org"	"GRCh37"	"22"	30425238	30425238	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000401950"	""	104	"73"	31	42	"42"	0	"MTMR3,3_prime_UTR_variant,,ENST00000333027,NM_153051.2,NM_153050.2;MTMR3,downstream_gene_variant,,ENST00000401950,NM_021090.3;MTMR3,downstream_gene_variant,,ENST00000323630,;MTMR3,downstream_gene_variant,,ENST00000351488,;MTMR3,downstream_gene_variant,,ENST00000406629,;CTA-85E5.10,intron_variant,,ENST00000429350,;CTA-85E5.10,intron_variant,,ENST00000453743,;MTMR3,downstream_gene_variant,,ENST00000491251,;"	"T"	"ENSG00000100330"	"ENST00000401950"	"Transcript"	"downstream_gene_variant"	"-/6018"	"-/3597"	"-/1198"	""	""	""	"1"	"1369"	1	"MTMR3"	"HGNC"	7451	"protein_coding"	"YES"	"CCDS13870.1"	"ENSP00000384651"	"Q13615"	"Q9UPM2,G5E953,C9JLU3"	"UPI0000073EF2"	"NM_021090.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7692d356-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298076923076923	"WGS"	FALSE
"6776"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	31764399	31764399	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"72"	8	36	"36"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"769380da-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"6777"	"SFI1"	9814	"mskcc.org"	"GRCh37"	"22"	31909594	31909594	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.92+5232T>C"	""	""	"ENST00000400288"	""	75	"69"	6	43	"43"	0	"SFI1,intron_variant,,ENST00000432498,NM_014775.3;SFI1,intron_variant,,ENST00000540643,NM_001258325.1;SFI1,intron_variant,,ENST00000443326,NM_001258326.1,NM_001258327.1;SFI1,intron_variant,,ENST00000400288,NM_001007467.2;SFI1,intron_variant,,ENST00000414585,;SFI1,intron_variant,,ENST00000400289,;SFI1,intron_variant,,ENST00000443011,;SFI1,intron_variant,,ENST00000444859,;SFI1,intron_variant,,ENST00000465646,;SFI1,intron_variant,,ENST00000465437,;SFI1,intron_variant,,ENST00000382162,;SFI1,intron_variant,,ENST00000524296,;SFI1,intron_variant,,ENST00000411518,;DRG1,intron_variant,,ENST00000548143,;"	"C"	"ENSG00000198089"	"ENST00000400288"	"Transcript"	"intron_variant"	"-/4002"	"-/3729"	"-/1242"	""	""	""	"1"	NA	1	"SFI1"	"HGNC"	29064	"protein_coding"	"YES"	"CCDS43004.1"	"ENSP00000383145"	"A8K8P3"	""	"UPI00004703B1"	"NM_001007467.2"	""	""	""	"2/32"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"7693a15a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"6778"	"PRR14L"	253143	"mskcc.org"	"GRCh37"	"22"	32122314	32122314	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.475-718G>T"	""	""	"ENST00000327423"	""	85	"79"	6	50	"50"	0	"PRR14L,intron_variant,,ENST00000327423,NM_173566.2;PRR14L,intron_variant,,ENST00000434485,;PRR14L,intron_variant,,ENST00000397493,;PRR14L,intron_variant,,ENST00000412743,;PRR14L,intron_variant,,ENST00000461722,;"	"A"	"ENSG00000183530"	"ENST00000327423"	"Transcript"	"intron_variant"	"-/10826"	"-/6456"	"-/2151"	""	""	""	"1"	NA	-1	"PRR14L"	"HGNC"	28738	"protein_coding"	"YES"	"CCDS13900.2"	"ENSP00000331845"	"Q5THK1"	"C9J9V0"	"UPI0000207582"	"NM_173566.2"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7693d508-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0705882352941176	"WGS"	FALSE
"6779"	"RP1-272J12.1"	101926957	"mskcc.org"	"GRCh37"	"22"	35435714	35435714	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.687-16588C>A"	""	""	"ENST00000448318"	""	95	"61"	34	48	"48"	0	"RP1-272J12.1,intron_variant,,ENST00000448318,;"	"T"	"ENSG00000227895"	"ENST00000448318"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2129"	""	""	""	""	""	"1"	NA	-1	"RP1-272J12.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"7695405a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357894736842105	"WGS"	FALSE
"6780"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	36505408	36505408	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"72"	6	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"769619da-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"6781"	"MYH9"	4627	"mskcc.org"	"GRCh37"	"22"	36756332	36756332	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-19-11032C>T"	""	""	"ENST00000216181"	""	88	"58"	30	57	"57"	0	"MYH9,intron_variant,,ENST00000216181,NM_002473.4;MYH9,intron_variant,,ENST00000401701,;MYH9,intron_variant,,ENST00000456729,;"	"A"	"ENSG00000100345"	"ENST00000216181"	"Transcript"	"intron_variant"	"-/7501"	"-/5883"	"-/1960"	""	""	""	"1"	NA	-1	"MYH9"	"HGNC"	7579	"protein_coding"	"YES"	"CCDS13927.1"	"ENSP00000216181"	"P35579"	"Q9UMJ0,B1AH99"	"UPI000012FB80"	"NM_002473.4"	""	""	""	"1/40"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"76964478-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340909090909091	"WGS"	TRUE
"6782"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	36828857	36828857	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"55"	25	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"76965526-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"6783"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	39249567	39249567	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"72"	30	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"7698009c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"6784"	"CACNA1I"	8911	"mskcc.org"	"GRCh37"	"22"	40041837	40041837	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1150-737C>T"	""	""	"ENST00000402142"	""	106	"78"	28	45	"45"	0	"CACNA1I,intron_variant,,ENST00000336649,;CACNA1I,intron_variant,,ENST00000402142,NM_021096.3;CACNA1I,intron_variant,,ENST00000400164,;CACNA1I,intron_variant,,ENST00000404898,NM_001003406.1;CACNA1I,intron_variant,,ENST00000401624,;CACNA1I,intron_variant,,ENST00000407673,;CACNA1I,downstream_gene_variant,,ENST00000471970,;"	"T"	"ENSG00000100346"	"ENST00000402142"	"Transcript"	"intron_variant"	"-/10004"	"-/6672"	"-/2223"	""	""	""	"1"	NA	1	"CACNA1I"	"HGNC"	1396	"protein_coding"	"YES"	"CCDS46710.1"	"ENSP00000385019"	"Q9P0X4"	""	"UPI000012727D"	"NM_021096.3"	""	""	""	"7/36"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7698a43e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264150943396226	"WGS"	FALSE
"6785"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	41375406	41375406	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"47"	20	47	"46"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"76994ca4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298507462686567	"WGS"	FALSE
"6786"	"AL035681.1"	0	"mskcc.org"	"GRCh37"	"22"	41689157	41689157	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000598651"	""	68	"63"	5	38	"38"	0	"AL035681.1,upstream_gene_variant,,ENST00000598651,;"	"A"	"ENSG00000269104"	"ENST00000598651"	"Transcript"	"upstream_gene_variant"	"-/39"	"-/39"	"-/13"	""	""	""	"1"	"3471"	-1	"AL035681.1"	"Clone_based_ensembl_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000473112"	""	""	"UPI0001AE630A"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"76998f98-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0735294117647059	"WGS"	FALSE
"6787"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	41805184	41805184	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"65"	4	33	"33"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"7699a38e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0579710144927536	"WGS"	FALSE
"6788"	"SEPT3"	55964	"mskcc.org"	"GRCh37"	"22"	42378333	42378333	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.202+493A>T"	""	""	"ENST00000396426"	""	82	"76"	6	56	"56"	0	"SEPT3,intron_variant,,ENST00000396425,NM_019106.5;SEPT3,intron_variant,,ENST00000396426,NM_145733.2;SEPT3,intron_variant,,ENST00000328414,;SEPT3,intron_variant,,ENST00000406029,;SEPT3,intron_variant,,ENST00000291236,;SEPT3,intron_variant,,ENST00000449288,;CTA-250D10.19,upstream_gene_variant,,ENST00000424613,;SEPT3,intron_variant,,ENST00000396417,;SEPT3,upstream_gene_variant,,ENST00000460267,;"	"T"	"ENSG00000100167"	"ENST00000396426"	"Transcript"	"intron_variant"	"-/2586"	"-/1077"	"-/358"	""	""	""	"1"	NA	1	"SEPT3"	"HGNC"	10750	"protein_coding"	"YES"	"CCDS14026.2"	"ENSP00000379704"	"Q9UH03"	"B1AHR2"	"UPI000067DA91"	"NM_145733.2"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"769a0c2a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"6789"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	42886431	42886431	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"65"	23	40	"39"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"769a61f2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261363636363636	"WGS"	FALSE
"6790"	"SCUBE1"	80274	"mskcc.org"	"GRCh37"	"22"	43620018	43620018	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1208-796C>T"	""	""	"ENST00000360835"	""	77	"56"	21	50	"50"	0	"SCUBE1,intron_variant,,ENST00000360835,NM_173050.3;"	"A"	"ENSG00000159307"	"ENST00000360835"	"Transcript"	"intron_variant"	"-/9808"	"-/2967"	"-/988"	""	""	""	"1"	NA	-1	"SCUBE1"	"HGNC"	13441	"protein_coding"	"YES"	"CCDS14048.1"	"ENSP00000354080"	"Q8IWY4"	""	"UPI000020790F"	"NM_173050.3"	""	""	""	"10/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"769b0f3a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"6791"	"MPPED1"	758	"mskcc.org"	"GRCh37"	"22"	43888392	43888392	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.633-5723G>A"	""	""	"ENST00000417669"	""	107	"76"	31	59	"59"	0	"MPPED1,intron_variant,,ENST00000417669,;MPPED1,intron_variant,,ENST00000443721,NM_001044370.1;MPPED1,intron_variant,,ENST00000538182,;MPPED1,intron_variant,,ENST00000542779,;MPPED1,intron_variant,,ENST00000439548,;MPPED1,intron_variant,,ENST00000414469,;"	"A"	"ENSG00000186732"	"ENST00000417669"	"Transcript"	"intron_variant"	"-/3657"	"-/981"	"-/326"	""	""	""	"1"	NA	1	"MPPED1"	"HGNC"	1306	"protein_coding"	"YES"	"CCDS46723.1"	"ENSP00000388137"	"O15442"	"Q20WK9,F5H6C9,B4DS06,B1AH63,B1AH62"	"UPI000006DF41"	""	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"769b4f90-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289719626168224	"WGS"	FALSE
"6792"	"KIAA1644"	85352	"mskcc.org"	"GRCh37"	"22"	44702586	44702586	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-32-5729C>T"	""	""	"ENST00000381176"	""	32	"22"	10	31	"30"	1	"KIAA1644,intron_variant,,ENST00000381176,NM_001099294.1;"	"A"	"ENSG00000138944"	"ENST00000381176"	"Transcript"	"intron_variant"	"-/6751"	"-/600"	"-/199"	""	""	""	"1"	NA	-1	"KIAA1644"	"HGNC"	29335	"protein_coding"	"YES"	"CCDS43025.1"	"ENSP00000370568"	"Q3SXP7"	""	"UPI0000251ED8"	"NM_001099294.1"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"769c2456-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"6793"	"KIAA0930"	23313	"mskcc.org"	"GRCh37"	"22"	45625007	45625007	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"rs371421031"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.64+11514G>C"	""	""	"ENST00000336156"	""	34	"24"	10	22	"21"	1	"KIAA0930,intron_variant,,ENST00000336156,NM_001009880.1;KIAA0930,intron_variant,,ENST00000414854,;KIAA0930,upstream_gene_variant,,ENST00000391627,;KIAA0930,intron_variant,,ENST00000486640,;KIAA0930,intron_variant,,ENST00000417906,;"	"G"	"ENSG00000100364"	"ENST00000336156"	"Transcript"	"intron_variant"	"-/8119"	"-/1215"	"-/404"	""	""	"rs371421031"	"1"	NA	-1	"KIAA0930"	"HGNC"	1314	"protein_coding"	""	"CCDS33665.1"	"ENSP00000336720"	"Q6ICG6"	"B0QY18"	"UPI00001D8391"	"NM_001009880.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"769d6f78-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"6794"	"WNT7B"	7477	"mskcc.org"	"GRCh37"	"22"	46363690	46363690	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs770451474"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.71+8874G>A"	""	""	"ENST00000339464"	""	104	"70"	34	50	"50"	0	"WNT7B,intron_variant,,ENST00000339464,NM_058238.2;WNT7B,intron_variant,,ENST00000409496,;WNT7B,intron_variant,,ENST00000410089,;WNT7B,intron_variant,,ENST00000410058,;WNT7B,intron_variant,,ENST00000428540,;"	"T"	"ENSG00000188064"	"ENST00000339464"	"Transcript"	"intron_variant"	"-/3919"	"-/1050"	"-/349"	""	""	"rs770451474"	"1"	NA	-1	"WNT7B"	"HGNC"	12787	"protein_coding"	"YES"	"CCDS33667.1"	"ENSP00000341032"	"P56706"	"B8A598"	"UPI0000001BC6"	"NM_058238.2"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"769dc95a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326923076923077	"WGS"	FALSE
"6795"	"RP11-191L9.4"	284930	"mskcc.org"	"GRCh37"	"22"	48176443	48176443	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1125+42118C>T"	""	""	"ENST00000423737"	""	95	"71"	24	55	"55"	0	"RP11-191L9.4,intron_variant,,ENST00000423737,;"	"T"	"ENSG00000224271"	"ENST00000423737"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1815"	""	""	""	""	""	"1"	NA	1	"RP11-191L9.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"769f77f0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"6796"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	48857237	48857237	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"63"	27	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"76a00eea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"6797"	"FAM19A5"	25817	"mskcc.org"	"GRCh37"	"22"	48925324	48925324	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.112+39808G>A"	""	""	"ENST00000402357"	""	16	"11"	5	12	"12"	0	"FAM19A5,intron_variant,,ENST00000402357,NM_001082967.1;FAM19A5,intron_variant,,ENST00000336769,;"	"A"	"ENSG00000219438"	"ENST00000402357"	"Transcript"	"intron_variant"	"-/1508"	"-/399"	"-/132"	""	""	""	"1"	NA	1	"FAM19A5"	"HGNC"	21592	"protein_coding"	"YES"	"CCDS46728.1"	"ENSP00000383933"	"Q7Z5A7"	""	"UPI0000074351"	"NM_001082967.1"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76a01aac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"6798"	"MOV10L1"	54456	"mskcc.org"	"GRCh37"	"22"	50568633	50568633	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1910+1697G>T"	""	""	"ENST00000262794"	""	83	"57"	26	55	"55"	0	"MOV10L1,intron_variant,,ENST00000262794,NM_018995.2;MOV10L1,intron_variant,,ENST00000540615,NM_001164105.1;MOV10L1,intron_variant,,ENST00000545383,;MOV10L1,intron_variant,,ENST00000395858,NM_001164104.1;MOV10L1,intron_variant,,ENST00000395843,;MOV10L1,intron_variant,,ENST00000434497,;"	"T"	"ENSG00000073146"	"ENST00000262794"	"Transcript"	"intron_variant"	"-/3960"	"-/3636"	"-/1211"	""	""	""	"1"	NA	1	"MOV10L1"	"HGNC"	7201	"protein_coding"	"YES"	"CCDS14084.1"	"ENSP00000262794"	"Q9BXT6"	""	"UPI00000421FB"	"NM_018995.2"	""	""	""	"13/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76a2a68c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313253012048193	"WGS"	FALSE
"6799"	"PPP6R2"	9701	"mskcc.org"	"GRCh37"	"22"	50782113	50782113	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-148+134C>T"	""	""	"ENST00000395741"	""	39	"33"	6	22	"22"	0	"PPP6R2,intron_variant,,ENST00000359139,NM_014678.4,NM_001242900.1,NM_001242899.1,NM_001242898.1;PPP6R2,intron_variant,,ENST00000395741,;PPP6R2,intron_variant,,ENST00000395744,;"	"T"	"ENSG00000100239"	"ENST00000395741"	"Transcript"	"intron_variant"	"-/3304"	"-/2802"	"-/933"	""	""	""	"1"	NA	1	"PPP6R2"	"HGNC"	19253	"protein_coding"	"YES"	"CCDS56235.1"	"ENSP00000379090"	"O75170"	""	"UPI0000453B02"	""	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"76a34b1e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"6800"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	932890	932890	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"70"	42	78	"78"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"76a4e21c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WGS"	FALSE
"6801"	"CRBN"	51185	"mskcc.org"	"GRCh37"	"3"	3196966	3196966	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.751-451A>T"	""	""	"ENST00000231948"	""	105	"74"	31	55	"55"	0	"CRBN,intron_variant,,ENST00000231948,NM_016302.3;CRBN,intron_variant,,ENST00000432408,NM_001173482.1;CRBN,intron_variant,,ENST00000424814,;RP11-97C16.1,downstream_gene_variant,,ENST00000607052,;CRBN,non_coding_transcript_exon_variant,,ENST00000491834,;CRBN,non_coding_transcript_exon_variant,,ENST00000488263,;CRBN,intron_variant,,ENST00000482844,;TRNT1,downstream_gene_variant,,ENST00000434583,;CRBN,upstream_gene_variant,,ENST00000459840,;CRBN,downstream_gene_variant,,ENST00000480249,;CRBN,upstream_gene_variant,,ENST00000498442,;"	"A"	"ENSG00000113851"	"ENST00000231948"	"Transcript"	"intron_variant"	"-/2206"	"-/1329"	"-/442"	""	""	""	"1"	NA	-1	"CRBN"	"HGNC"	30185	"protein_coding"	"YES"	"CCDS2562.1"	"ENSP00000231948"	"Q96SW2"	""	"UPI000006E62A"	"NM_016302.3"	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"76a5cb64-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295238095238095	"WGS"	FALSE
"6802"	"AC026188.1"	0	"mskcc.org"	"GRCh37"	"3"	3601100	3601100	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.200+67328G>T"	""	""	"ENST00000420000"	""	103	"83"	20	40	"40"	0	"AC026188.1,intron_variant,,ENST00000420000,;"	"A"	"ENSG00000223727"	"ENST00000420000"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/559"	""	""	""	""	""	"1"	NA	-1	"AC026188.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"76a5e982-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194174757281553	"WGS"	FALSE
"6803"	"SUMF1"	285362	"mskcc.org"	"GRCh37"	"3"	3932598	3932598	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1192-63405T>C"	""	""	"ENST00000534863"	""	99	"65"	34	51	"51"	0	"SUMF1,intron_variant,,ENST00000534863,;SUMF1,intron_variant,,ENST00000448413,;"	"G"	"ENSG00000144455"	"ENST00000534863"	"Transcript"	"intron_variant"	"-/1281"	"-/1281"	"-/426"	""	""	""	"1"	NA	-1	"SUMF1"	"HGNC"	20376	"protein_coding"	""	""	"ENSP00000440421"	""	"F5GXA0"	"UPI0000D61AB6"	""	""	""	""	"9/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"76a614f2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.343434343434343	"WGS"	FALSE
"6804"	"ITPR1"	3708	"mskcc.org"	"GRCh37"	"3"	4864408	4864408	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7983+4482T>A"	""	""	"ENST00000302640"	""	83	"66"	17	49	"49"	0	"ITPR1,intron_variant,,ENST00000302640,NM_001168272.1;ITPR1,intron_variant,,ENST00000354582,;ITPR1,intron_variant,,ENST00000423119,NM_001099952.2;ITPR1,intron_variant,,ENST00000357086,;ITPR1,intron_variant,,ENST00000456211,NM_002222.5;ITPR1,intron_variant,,ENST00000443694,;ITPR1,intron_variant,,ENST00000544951,;AC018816.3,intron_variant,,ENST00000449914,;AC018816.3,intron_variant,,ENST00000441894,;ITPR1,intron_variant,,ENST00000463980,;ITPR1,intron_variant,,ENST00000493491,;AC018816.3,intron_variant,,ENST00000489771,;AC018816.3,intron_variant,,ENST00000496600,;AC018816.3,intron_variant,,ENST00000465436,;ITPR1,intron_variant,,ENST00000478515,;ITPR1,downstream_gene_variant,,ENST00000472205,;"	"A"	"ENSG00000150995"	"ENST00000302640"	"Transcript"	"intron_variant"	"-/10197"	"-/8232"	"-/2743"	""	""	""	"1"	NA	1	"ITPR1"	"HGNC"	6180	"protein_coding"	"YES"	"CCDS54551.1"	"ENSP00000306253"	"Q14643"	""	"UPI0000E5A461"	"NM_001168272.1"	""	""	""	"59/60"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTA"	"76a67262-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204819277108434	"WGS"	FALSE
"6805"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	5075120	5075120	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"84"	7	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"76a6887e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"6806"	"LMCD1-AS1"	101927394	"mskcc.org"	"GRCh37"	"3"	8460069	8460069	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.571+76298G>A"	""	""	"ENST00000420095"	""	92	"70"	22	47	"47"	0	"LMCD1-AS1,intron_variant,,ENST00000420095,;LMCD1-AS1,intron_variant,,ENST00000452802,;LMCD1-AS1,intron_variant,,ENST00000446281,;"	"T"	"ENSG00000227110"	"ENST00000420095"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2144"	""	""	""	""	""	"1"	NA	-1	"LMCD1-AS1"	"HGNC"	44477	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76a7e0ca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239130434782609	"WGS"	FALSE
"6807"	"ARPC4"	10093	"mskcc.org"	"GRCh37"	"3"	9846831	9846831	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.559-1063C>G"	""	""	"ENST00000433034"	""	110	"81"	29	63	"63"	0	"ARPC4,intron_variant,,ENST00000397261,NM_005718.4;ARPC4-TTLL3,intron_variant,,ENST00000397256,NM_001198793.1;ARPC4,intron_variant,,ENST00000287613,NM_001024960.2;ARPC4,intron_variant,,ENST00000498623,NM_001024959.2;ARPC4,intron_variant,,ENST00000433034,NM_001198780.1;ARPC4-TTLL3,intron_variant,,ENST00000453882,;TTLL3,upstream_gene_variant,,ENST00000426895,;TTLL3,upstream_gene_variant,,ENST00000452597,;TTLL3,upstream_gene_variant,,ENST00000419081,;ARPC4,downstream_gene_variant,,ENST00000485273,;TTLL3,upstream_gene_variant,,ENST00000417065,;TTLL3,upstream_gene_variant,,ENST00000414814,;TTLL3,upstream_gene_variant,,ENST00000418745,;TTLL3,upstream_gene_variant,,ENST00000438596,;TTLL3,upstream_gene_variant,,ENST00000430718,;TTLL3,upstream_gene_variant,,ENST00000439814,;ARPC4,intron_variant,,ENST00000417500,;ARPC4,intron_variant,,ENST00000440787,;ARPC4-TTLL3,intron_variant,,ENST00000424442,;ARPC4-TTLL3,intron_variant,,ENST00000418163,;TTLL3,upstream_gene_variant,,ENST00000427220,;ARPC4,downstream_gene_variant,,ENST00000467289,;TTLL3,upstream_gene_variant,,ENST00000459758,;"	"G"	"ENSG00000241553"	"ENST00000433034"	"Transcript"	"intron_variant"	"-/926"	"-/564"	"-/187"	""	""	""	"1"	NA	1	"ARPC4"	"HGNC"	707	"protein_coding"	"YES"	"CCDS56238.1"	"ENSP00000388169"	"P59998"	"R4GN08"	"UPI000198C8E8"	"NM_001198780.1"	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"76a8f30c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263636363636364	"WGS"	FALSE
"6808"	"IRAK2"	3656	"mskcc.org"	"GRCh37"	"3"	10213848	10213848	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.95-5674A>T"	""	""	"ENST00000256458"	""	75	"68"	7	43	"43"	0	"IRAK2,intron_variant,,ENST00000256458,NM_001570.3;"	"T"	"ENSG00000134070"	"ENST00000256458"	"Transcript"	"intron_variant"	"-/3483"	"-/1878"	"-/625"	""	""	""	"1"	NA	1	"IRAK2"	"HGNC"	6113	"protein_coding"	"YES"	"CCDS33697.1"	"ENSP00000256458"	"O43187"	""	"UPI000020AB17"	"NM_001570.3"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"76a93e02-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0933333333333333	"WGS"	FALSE
"6809"	"AC018495.3"	0	"mskcc.org"	"GRCh37"	"3"	10812074	10812074	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.113-990G>T"	""	""	"ENST00000440266"	""	118	"96"	22	59	"59"	0	"AC018495.3,intron_variant,,ENST00000440266,;"	"T"	"ENSG00000230599"	"ENST00000440266"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/452"	""	""	""	""	""	"1"	NA	1	"AC018495.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"76a9827c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186440677966102	"WGS"	FALSE
"6810"	"COL6A4P1"	344875	"mskcc.org"	"GRCh37"	"3"	15204068	15204068	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000446690"	""	45	"40"	5	29	"29"	0	"COL6A4P1,downstream_gene_variant,,ENST00000446690,;COL6A4P1,intron_variant,,ENST00000487147,;"	"C"	"ENSG00000230524"	"ENST00000446690"	"Transcript"	"downstream_gene_variant"	"-/2336"	""	""	""	""	""	"1"	"2714"	-1	"COL6A4P1"	"HGNC"	33484	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"76abbeac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"6811"	"ANKRD28"	23243	"mskcc.org"	"GRCh37"	"3"	15784020	15784020	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.262-5280T>G"	""	""	"ENST00000399451"	""	43	"36"	7	20	"20"	0	"ANKRD28,intron_variant,,ENST00000399451,NM_015199.3,NM_001195098.1,NM_001195099.1;ANKRD28,intron_variant,,ENST00000383777,;RN7SL4P,downstream_gene_variant,,ENST00000584058,;ANKRD28,intron_variant,,ENST00000497037,;ANKRD28,intron_variant,,ENST00000476472,;ANKRD28,intron_variant,,ENST00000460278,;ANKRD28,intron_variant,,ENST00000412318,;ANKRD28,intron_variant,,ENST00000498524,;ANKRD28,intron_variant,,ENST00000451422,;ANKRD28,intron_variant,,ENST00000439830,;"	"C"	"ENSG00000206560"	"ENST00000399451"	"Transcript"	"intron_variant"	"-/6564"	"-/3162"	"-/1053"	""	""	""	"1"	NA	-1	"ANKRD28"	"HGNC"	29024	"protein_coding"	"YES"	"CCDS46769.1"	"ENSP00000382379"	"O15084"	""	"UPI00004120FF"	"NM_015199.3,NM_001195098.1,NM_001195099.1"	""	""	""	"4/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76ac17e4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162790697674419	"WGS"	FALSE
"6812"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	16744631	16744631	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"68"	31	52	"52"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"76ac623a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313131313131313	"WGS"	FALSE
"6813"	"SATB1"	6304	"mskcc.org"	"GRCh37"	"3"	18466506	18466506	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000417717"	""	80	"62"	18	55	"55"	0	"SATB1,5_prime_UTR_variant,,ENST00000338745,NM_002971.4;SATB1,intron_variant,,ENST00000454909,NM_001131010.2;SATB1,intron_variant,,ENST00000440737,;SATB1,intron_variant,,ENST00000493952,;SATB1,intron_variant,,ENST00000415069,;SATB1,intron_variant,,ENST00000414509,;SATB1,intron_variant,,ENST00000444341,;SATB1,intron_variant,,ENST00000450898,;SATB1,upstream_gene_variant,,ENST00000417717,NM_001195470.1;SATB1,upstream_gene_variant,,ENST00000452260,;SATB1,upstream_gene_variant,,ENST00000457005,;TBC1D5,intron_variant,,ENST00000414318,;SATB1,intron_variant,,ENST00000487699,;"	"A"	"ENSG00000182568"	"ENST00000417717"	"Transcript"	"upstream_gene_variant"	"-/4589"	"-/2388"	"-/795"	""	""	""	"1"	"441"	-1	"SATB1"	"HGNC"	10541	"protein_coding"	"YES"	"CCDS56242.1"	"ENSP00000399518"	"Q01826"	"C9JP21,C9JLL5,C9JGL9,C9J7F3,C9J3I0"	"UPI0000E1FB67"	"NM_001195470.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"76acf178-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225	"WGS"	FALSE
"6814"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	21155420	21155420	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"74"	21	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76add188-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221052631578947	"WGS"	FALSE
"6815"	"UBE2E2"	7325	"mskcc.org"	"GRCh37"	"3"	23594139	23594139	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.508+19947C>T"	""	""	"ENST00000396703"	""	108	"71"	37	51	"51"	0	"UBE2E2,intron_variant,,ENST00000396703,NM_152653.3;UBE2E2,intron_variant,,ENST00000425792,;UBE2E2,intron_variant,,ENST00000335798,;"	"T"	"ENSG00000182247"	"ENST00000396703"	"Transcript"	"intron_variant"	"-/2748"	"-/606"	"-/201"	""	""	""	"1"	NA	1	"UBE2E2"	"HGNC"	12478	"protein_coding"	"YES"	"CCDS2637.1"	"ENSP00000379931"	"Q96LR5"	""	"UPI0000071DA3"	"NM_152653.3"	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"76ae8aba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342592592592593	"WGS"	FALSE
"6816"	"RARB"	5915	"mskcc.org"	"GRCh37"	"3"	25351826	25351826	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.178+135760C>A"	""	""	"ENST00000404969"	""	106	"74"	32	59	"59"	0	"RARB,intron_variant,,ENST00000404969,;RARB,intron_variant,,ENST00000383772,;"	"A"	"ENSG00000077092"	"ENST00000404969"	"Transcript"	"intron_variant"	"-/1368"	"-/1368"	"-/455"	""	""	""	"1"	NA	1	"RARB"	"HGNC"	9865	"protein_coding"	""	""	"ENSP00000385865"	"P10826"	"Q5QHG3,D6RBI3,B4DSI3"	"UPI0000134A16"	""	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"76aef8f6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30188679245283	"WGS"	FALSE
"6817"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	26975391	26975391	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"53"	31	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"76af5df0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.369047619047619	"WGS"	FALSE
"6818"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	26975392	26975392	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"56"	31	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"76af5efe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35632183908046	"WGS"	FALSE
"6819"	"ZCWPW2"	152098	"mskcc.org"	"GRCh37"	"3"	28473989	28473989	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.333-2612A>C"	""	""	"ENST00000383768"	""	122	"88"	34	52	"51"	1	"ZCWPW2,intron_variant,,ENST00000383768,;ZCWPW2,intron_variant,,ENST00000421010,NM_001040432.1;ZCWPW2,intron_variant,,ENST00000420223,;ZCWPW2,intron_variant,,ENST00000428875,;ZCWPW2,upstream_gene_variant,,ENST00000419130,;FAM96AP1,upstream_gene_variant,,ENST00000430879,;"	"C"	"ENSG00000206559"	"ENST00000383768"	"Transcript"	"intron_variant"	"-/1716"	"-/1071"	"-/356"	""	""	""	"1"	NA	1	"ZCWPW2"	"HGNC"	23574	"protein_coding"	"YES"	"CCDS33723.1"	"ENSP00000373278"	"Q504Y3"	"C9JFK0"	"UPI0000161ABF"	""	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"76afefcc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278688524590164	"WGS"	FALSE
"6820"	"ZCWPW2"	152098	"mskcc.org"	"GRCh37"	"3"	28514850	28514850	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.493-5455C>G"	""	""	"ENST00000383768"	""	90	"60"	30	44	"44"	0	"ZCWPW2,intron_variant,,ENST00000383768,;ZCWPW2,intron_variant,,ENST00000421010,NM_001040432.1;ZCWPW2,intron_variant,,ENST00000419130,;"	"G"	"ENSG00000206559"	"ENST00000383768"	"Transcript"	"intron_variant"	"-/1716"	"-/1071"	"-/356"	""	""	""	"1"	NA	1	"ZCWPW2"	"HGNC"	23574	"protein_coding"	"YES"	"CCDS33723.1"	"ENSP00000373278"	"Q504Y3"	"C9JFK0"	"UPI0000161ABF"	""	""	""	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"76aff490-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"6821"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	30355717	30355717	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"67"	27	60	"59"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"76b06cea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287234042553192	"WGS"	FALSE
"6822"	"TGFBR2"	7048	"mskcc.org"	"GRCh37"	"3"	30645278	30645278	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000359013"	""	69	"57"	12	49	"49"	0	"TGFBR2,upstream_gene_variant,,ENST00000295754,NM_003242.5;TGFBR2,upstream_gene_variant,,ENST00000359013,NM_001024847.2;"	"T"	"ENSG00000163513"	"ENST00000359013"	"Transcript"	"upstream_gene_variant"	"-/4605"	"-/1779"	"-/592"	""	""	""	"1"	"2815"	1	"TGFBR2"	"HGNC"	11773	"protein_coding"	"YES"	"CCDS33727.1"	"ENSP00000351905"	"P37173"	"D2JYI1"	"UPI000053030E"	"NM_001024847.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"76b0881a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	TRUE
"6823"	"GADL1"	339896	"mskcc.org"	"GRCh37"	"3"	30860898	30860898	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1050+14447T>G"	""	""	"ENST00000282538"	""	79	"48"	31	42	"42"	0	"GADL1,intron_variant,,ENST00000454381,;GADL1,intron_variant,,ENST00000282538,NM_207359.2;"	"C"	"ENSG00000144644"	"ENST00000282538"	"Transcript"	"intron_variant"	"-/3759"	"-/1566"	"-/521"	""	""	""	"1"	NA	-1	"GADL1"	"HGNC"	27949	"protein_coding"	"YES"	"CCDS2649.2"	"ENSP00000282538"	"Q6ZQY3"	""	"UPI000022BF90"	"NM_207359.2"	""	""	""	"11/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76b09c24-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.392405063291139	"WGS"	FALSE
"6824"	"OSBPL10"	114884	"mskcc.org"	"GRCh37"	"3"	31765896	31765896	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1095+8853A>G"	""	""	"ENST00000396556"	""	94	"73"	21	47	"47"	0	"OSBPL10,intron_variant,,ENST00000429492,;OSBPL10,intron_variant,,ENST00000396556,NM_017784.4;OSBPL10,intron_variant,,ENST00000438237,NM_001174060.1;OSBPL10-AS1,downstream_gene_variant,,ENST00000428872,;OSBPL10-AS1,downstream_gene_variant,,ENST00000444503,;OSBPL10-AS1,downstream_gene_variant,,ENST00000436598,;OSBPL10-AS1,downstream_gene_variant,,ENST00000417313,;OSBPL10-AS1,downstream_gene_variant,,ENST00000418728,;"	"C"	"ENSG00000144645"	"ENST00000396556"	"Transcript"	"intron_variant"	"-/6600"	"-/2295"	"-/764"	""	""	""	"1"	NA	-1	"OSBPL10"	"HGNC"	16395	"protein_coding"	"YES"	"CCDS2651.1"	"ENSP00000379804"	"Q9BXB5"	""	"UPI0000130E9B"	"NM_017784.4"	""	""	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"76b0d4e6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223404255319149	"WGS"	FALSE
"6825"	"CMTM8"	152189	"mskcc.org"	"GRCh37"	"3"	32377389	32377389	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.148-21476T>C"	""	""	"ENST00000307526"	""	71	"55"	16	52	"52"	0	"CMTM8,intron_variant,,ENST00000307526,NM_178868.3;CMTM8,intron_variant,,ENST00000458535,;"	"C"	"ENSG00000170293"	"ENST00000307526"	"Transcript"	"intron_variant"	"-/1174"	"-/522"	"-/173"	""	""	""	"1"	NA	1	"CMTM8"	"HGNC"	19179	"protein_coding"	"YES"	"CCDS2652.1"	"ENSP00000307741"	"Q8IZV2"	""	"UPI000019745A"	"NM_178868.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"76b0fad4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225352112676056	"WGS"	FALSE
"6826"	"CRTAP"	10491	"mskcc.org"	"GRCh37"	"3"	33156037	33156037	"+"	"Silent"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.468C>T"	"p.="	"p.F156F"	"ENST00000320954"	"1/7"	70	"44"	26	44	"44"	0	"CRTAP,synonymous_variant,p.=,ENST00000320954,NM_006371.4;CRTAP,synonymous_variant,p.=,ENST00000449224,;CRTAP,upstream_gene_variant,,ENST00000485310,;"	"T"	"ENSG00000170275"	"ENST00000320954"	"Transcript"	"synonymous_variant"	"567/6630"	"468/1206"	"156/401"	"F"	"ttC/ttT"	""	"1"	NA	1	"CRTAP"	"HGNC"	2379	"protein_coding"	"YES"	"CCDS2657.1"	"ENSP00000323696"	"O75718"	"Q8NB01,B4DPA3"	"UPI000012700A"	"NM_006371.4"	""	""	"1/7"	""	"Gene3D:1.25.40.10,hmmpanther:PTHR13986,hmmpanther:PTHR13986:SF3"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"76b15b5a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.371428571428571	"WGS"	FALSE
"6827"	"RN7SKP227"	0	"mskcc.org"	"GRCh37"	"3"	36728355	36728355	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000364445"	""	113	"78"	35	52	"52"	0	"RN7SKP227,downstream_gene_variant,,ENST00000364445,;"	"T"	"ENSG00000201315"	"ENST00000364445"	"Transcript"	"downstream_gene_variant"	"-/330"	""	""	""	""	""	"1"	"1495"	1	"RN7SKP227"	"HGNC"	45951	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76b2783c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309734513274336	"WGS"	FALSE
"6828"	"ENSR00001361365"	0	"mskcc.org"	"GRCh37"	"3"	38198601	38198601	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001361365"	""	100	"64"	36	65	"65"	0	""	"C"	""	"ENSR00001361365"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"76b31f94-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36	"WGS"	FALSE
"6829"	"XYLB"	9942	"mskcc.org"	"GRCh37"	"3"	38384219	38384219	"+"	"5'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000207870"	""	27	"19"	8	19	"18"	1	"XYLB,upstream_gene_variant,,ENST00000207870,NM_005108.3;XYLB,upstream_gene_variant,,ENST00000542835,;XYLB,upstream_gene_variant,,ENST00000427323,;XYLB,upstream_gene_variant,,ENST00000424034,;"	"G"	"ENSG00000093217"	"ENST00000207870"	"Transcript"	"upstream_gene_variant"	"-/3664"	"-/1611"	"-/536"	""	""	""	"1"	"4051"	1	"XYLB"	"HGNC"	12839	"protein_coding"	"YES"	"CCDS2678.1"	"ENSP00000207870"	"O75191"	"B4DDT2,B3KM56"	"UPI0000160544"	"NM_005108.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76b32f20-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"6830"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	39479538	39479538	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"75"	25	49	"48"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76b38b28-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"6831"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	39591233	39591233	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"63"	33	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"76b39654-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34375	"WGS"	FALSE
"6832"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	39728445	39728445	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"75"	27	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76b39d3e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264705882352941	"WGS"	FALSE
"6833"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	40909842	40909842	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"68"	33	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76b3f16c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326732673267327	"WGS"	FALSE
"6834"	"ULK4"	54986	"mskcc.org"	"GRCh37"	"3"	41845297	41845297	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1849-3512C>T"	""	""	"ENST00000301831"	""	95	"63"	32	58	"58"	0	"ULK4,intron_variant,,ENST00000301831,NM_017886.2;ULK4,intron_variant,,ENST00000460406,;"	"A"	"ENSG00000168038"	"ENST00000301831"	"Transcript"	"intron_variant"	"-/4613"	"-/3828"	"-/1275"	""	""	""	"1"	NA	-1	"ULK4"	"HGNC"	15784	"protein_coding"	"YES"	"CCDS43071.1"	"ENSP00000301831"	"Q96C45"	"B3KSE5"	"UPI0000E8267C"	"NM_017886.2"	""	""	""	"19/36"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76b44248-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336842105263158	"WGS"	FALSE
"6835"	"ULK4"	54986	"mskcc.org"	"GRCh37"	"3"	41845300	41845300	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1849-3515G>T"	""	""	"ENST00000301831"	""	94	"61"	33	58	"58"	0	"ULK4,intron_variant,,ENST00000301831,NM_017886.2;ULK4,intron_variant,,ENST00000460406,;"	"A"	"ENSG00000168038"	"ENST00000301831"	"Transcript"	"intron_variant"	"-/4613"	"-/3828"	"-/1275"	""	""	""	"1"	NA	-1	"ULK4"	"HGNC"	15784	"protein_coding"	"YES"	"CCDS43071.1"	"ENSP00000301831"	"Q96C45"	"B3KSE5"	"UPI0000E8267C"	"NM_017886.2"	""	""	""	"19/36"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"76b4434c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351063829787234	"WGS"	FALSE
"6836"	"ANO10"	55129	"mskcc.org"	"GRCh37"	"3"	43647469	43647469	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-11-114G>A"	""	""	"ENST00000292246"	""	91	"59"	32	59	"59"	0	"ANO10,intron_variant,,ENST00000292246,NM_018075.3;ANO10,intron_variant,,ENST00000414522,NM_001204831.1;ANO10,intron_variant,,ENST00000396091,NM_001204832.1;ANO10,intron_variant,,ENST00000350459,NM_001204834.1;ANO10,intron_variant,,ENST00000451430,NM_001204833.1;ANO10,intron_variant,,ENST00000427171,;ANO10,intron_variant,,ENST00000428831,;ANO10,intron_variant,,ENST00000428472,;ANO10,intron_variant,,ENST00000444344,;ANO10,intron_variant,,ENST00000439141,;ANO10,intron_variant,,ENST00000456438,;ANO10,intron_variant,,ENST00000413397,;ANO10,intron_variant,,ENST00000436073,;"	"T"	"ENSG00000160746"	"ENST00000292246"	"Transcript"	"intron_variant"	"-/3212"	"-/1983"	"-/660"	""	""	""	"1"	NA	-1	"ANO10"	"HGNC"	25519	"protein_coding"	"YES"	"CCDS2710.2"	"ENSP00000292246"	"Q9NW15"	"C9JQC9,C9JPY2,C9JJS5,C9JA49,C9IZD0,C9IYD3"	"UPI000020A59A"	"NM_018075.3"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"76b523a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351648351648352	"WGS"	FALSE
"6837"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	46886360	46886360	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"35"	16	31	"31"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"76b61f6e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313725490196078	"WGS"	FALSE
"6838"	"RHOA"	387	"mskcc.org"	"GRCh37"	"3"	49412951	49412951	"+"	"Silent"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.72C>G"	"p.="	"p.V24V"	"ENST00000418115"	"2/5"	94	"61"	33	41	"41"	0	"RHOA,synonymous_variant,p.=,ENST00000418115,NM_001664.2;RHOA,synonymous_variant,p.=,ENST00000422781,;RHOA,synonymous_variant,p.=,ENST00000454011,;RHOA,synonymous_variant,p.=,ENST00000445425,;RHOA,synonymous_variant,p.=,ENST00000431929,;"	"C"	"ENSG00000067560"	"ENST00000418115"	"Transcript"	"synonymous_variant"	"457/2031"	"72/582"	"24/193"	"V"	"gtC/gtG"	""	"1"	NA	-1	"RHOA"	"HGNC"	667	"protein_coding"	"YES"	"CCDS2795.1"	"ENSP00000400175"	"P61586"	"Q9BVT0,C9JNR4,B4DKN9"	"UPI0000046824"	"NM_001664.2"	""	""	"2/5"	""	"Gene3D:3.40.50.300,Pfam_domain:PF00071,Prints_domain:PR00449,PROSITE_profiles:PS51420,hmmpanther:PTHR24072,hmmpanther:PTHR24072:SF100,SMART_domains:SM00173,SMART_domains:SM00174,SMART_domains:SM00175,Superfamily_domains:SSF52540,TIGRFAM_domain:TIGR00231"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76b7c314-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351063829787234	"WGS"	TRUE
"6839"	"RBM5"	10181	"mskcc.org"	"GRCh37"	"3"	50122238	50122238	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000347869"	""	65	"60"	5	29	"29"	0	"RBM5,upstream_gene_variant,,ENST00000347869,NM_005778.3;RBM5,upstream_gene_variant,,ENST00000469838,;RBM5,upstream_gene_variant,,ENST00000404526,;RBM5,upstream_gene_variant,,ENST00000441305,;RBM6,intron_variant,,ENST00000434592,;RBM5,upstream_gene_variant,,ENST00000464087,;RBM5,upstream_gene_variant,,ENST00000492472,;RBM5,upstream_gene_variant,,ENST00000433556,;RBM5,upstream_gene_variant,,ENST00000438369,;"	"T"	"ENSG00000003756"	"ENST00000347869"	"Transcript"	"upstream_gene_variant"	"-/3188"	"-/2448"	"-/815"	""	""	""	"1"	"4103"	1	"RBM5"	"HGNC"	9902	"protein_coding"	"YES"	"CCDS2810.1"	"ENSP00000343054"	"P52756"	"C9JR02,C9JFQ5,C9J9P7"	"UPI000013337C"	"NM_005778.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"76b866b6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"6840"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	53413100	53413100	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"68"	24	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"76ba08ea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"6841"	"ERC2"	26059	"mskcc.org"	"GRCh37"	"3"	55943610	55943610	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2404-21033T>C"	""	""	"ENST00000288221"	""	65	"50"	15	49	"49"	0	"ERC2,intron_variant,,ENST00000288221,NM_015576.1;ERC2,intron_variant,,ENST00000492584,;ERC2,intron_variant,,ENST00000460849,;"	"G"	"ENSG00000187672"	"ENST00000288221"	"Transcript"	"intron_variant"	"-/6138"	"-/2874"	"-/957"	""	""	""	"1"	NA	-1	"ERC2"	"HGNC"	31922	"protein_coding"	"YES"	"CCDS46851.1"	"ENSP00000288221"	"O15083"	""	"UPI00001C1572"	"NM_015576.1"	""	""	""	"13/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"76badf4a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"6842"	"DNAH12"	201625	"mskcc.org"	"GRCh37"	"3"	57461917	57461917	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1651-3519A>C"	""	""	"ENST00000351747"	""	89	"68"	21	53	"53"	0	"DNAH12,intron_variant,,ENST00000351747,NM_178504.4;DNAH12,intron_variant,,ENST00000495027,;DNAH12,intron_variant,,ENST00000389536,;"	"G"	"ENSG00000174844"	"ENST00000351747"	"Transcript"	"intron_variant"	"-/9542"	"-/9279"	"-/3092"	""	""	""	"1"	NA	-1	"DNAH12"	"HGNC"	2943	"protein_coding"	""	""	"ENSP00000295937"	"Q6ZR08"	"O15436"	"UPI00017AA3A8"	"NM_178504.4"	""	""	""	"13/58"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"76bb7cc0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235955056179775	"WGS"	FALSE
"6843"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	58469303	58469303	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"64"	18	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"76bc0172-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219512195121951	"WGS"	FALSE
"6844"	"FHIT"	2272	"mskcc.org"	"GRCh37"	"3"	60552814	60552814	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17-30102T>G"	""	""	"ENST00000468189"	""	98	"92"	6	39	"39"	0	"FHIT,intron_variant,,ENST00000468189,;FHIT,intron_variant,,ENST00000492590,NM_002012.2,NM_001166243.1;FHIT,intron_variant,,ENST00000476844,;FHIT,intron_variant,,ENST00000488467,;FHIT,intron_variant,,ENST00000490952,;"	"C"	"ENSG00000189283"	"ENST00000468189"	"Transcript"	"intron_variant"	"-/1634"	"-/444"	"-/147"	""	""	""	"1"	NA	-1	"FHIT"	"HGNC"	3701	"protein_coding"	"YES"	"CCDS2894.1"	"ENSP00000417480"	"P49789"	"Q71VB2,Q45QG9,Q1WAB3,Q194U8,E9PBZ0,A2IAT6,A2IAS9"	"UPI000000160B"	""	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAC"	"76bc9e98-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0612244897959184	"WGS"	TRUE
"6845"	"SYNPR"	132204	"mskcc.org"	"GRCh37"	"3"	63311548	63311548	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.84+47130C>A"	""	""	"ENST00000478300"	""	85	"55"	30	55	"55"	0	"SYNPR,intron_variant,,ENST00000478300,NM_001130003.1;SYNPR,intron_variant,,ENST00000478456,;SYNPR,intron_variant,,ENST00000496889,;SYNPR,intron_variant,,ENST00000460142,;SYNPR,intron_variant,,ENST00000468110,;SYNPR,intron_variant,,ENST00000450542,;"	"A"	"ENSG00000163630"	"ENST00000478300"	"Transcript"	"intron_variant"	"-/2709"	"-/858"	"-/285"	""	""	""	"1"	NA	1	"SYNPR"	"HGNC"	16507	"protein_coding"	"YES"	"CCDS46859.1"	"ENSP00000418994"	"Q8TBG9"	"B7Z9J3"	"UPI00005796D8"	"NM_001130003.1"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"76bd90e6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WGS"	FALSE
"6846"	"MAGI1"	9223	"mskcc.org"	"GRCh37"	"3"	65497124	65497124	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.431-17818C>T"	""	""	"ENST00000402939"	""	54	"39"	15	31	"31"	0	"MAGI1,intron_variant,,ENST00000330909,NM_015520.1;MAGI1,intron_variant,,ENST00000483466,NM_004742.2;MAGI1,intron_variant,,ENST00000402939,NM_001033057.1;MAGI1,intron_variant,,ENST00000463103,;MAGI1,intron_variant,,ENST00000460329,;MAGI1,intron_variant,,ENST00000497477,;MAGI1,intron_variant,,ENST00000470990,;MAGI1,intron_variant,,ENST00000476403,;MAGI1,intron_variant,,ENST00000496734,;MAGI1,intron_variant,,ENST00000464060,;"	"A"	"ENSG00000151276"	"ENST00000402939"	"Transcript"	"intron_variant"	"-/4389"	"-/4389"	"-/1462"	""	""	""	"1"	NA	-1	"MAGI1"	"HGNC"	946	"protein_coding"	"YES"	"CCDS33780.1"	"ENSP00000385450"	"Q96QZ7"	""	"UPI0000457132"	"NM_001033057.1"	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"76be24ca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"6847"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	66091181	66091181	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"58"	4	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"76be6782-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"6848"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	68769237	68769237	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"53"	22	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"76bf1182-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293333333333333	"WGS"	FALSE
"6849"	"FAM19A4"	151647	"mskcc.org"	"GRCh37"	"3"	68950037	68950037	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-122-15576T>C"	""	""	"ENST00000295569"	""	105	"80"	25	52	"52"	0	"FAM19A4,intron_variant,,ENST00000295569,NM_182522.4,NM_001005527.2;FAM19A4,intron_variant,,ENST00000495737,;"	"G"	"ENSG00000163377"	"ENST00000295569"	"Transcript"	"intron_variant"	"-/2292"	"-/423"	"-/140"	""	""	""	"1"	NA	-1	"FAM19A4"	"HGNC"	21591	"protein_coding"	"YES"	"CCDS2907.1"	"ENSP00000295569"	"Q96LR4"	"C9JUW7"	"UPI0000071129"	"NM_182522.4,NM_001005527.2"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"76bf205a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WGS"	FALSE
"6850"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	70954817	70954817	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"85"	9	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"76bfc302-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0957446808510638	"WGS"	FALSE
"6851"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	73346668	73346668	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"58"	20	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76c0d3aa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256410256410256	"WGS"	FALSE
"6852"	"ROBO2"	6092	"mskcc.org"	"GRCh37"	"3"	77543847	77543847	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.854+1314C>A"	""	""	"ENST00000487694"	""	101	"75"	26	64	"64"	0	"ROBO2,intron_variant,,ENST00000461745,NM_002942.4;ROBO2,intron_variant,,ENST00000487694,NM_001128929.2;ROBO2,intron_variant,,ENST00000332191,;ROBO2,intron_variant,,ENST00000602589,;ROBO2,intron_variant,,ENST00000473767,;"	"A"	"ENSG00000185008"	"ENST00000487694"	"Transcript"	"intron_variant"	"-/5919"	"-/4185"	"-/1394"	""	""	""	"1"	NA	1	"ROBO2"	"HGNC"	10250	"protein_coding"	"YES"	"CCDS54609.1"	"ENSP00000417335"	"Q9HCK4"	"H9XFA4"	"UPI0000D891EC"	"NM_001128929.2"	""	""	""	"6/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"76c2da9c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257425742574257	"WGS"	FALSE
"6853"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	77854051	77854051	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"75"	19	66	"66"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76c2f40a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202127659574468	"WGS"	FALSE
"6854"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	78431812	78431812	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"71"	31	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"76c317e6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303921568627451	"WGS"	FALSE
"6855"	"ROBO1"	6091	"mskcc.org"	"GRCh37"	"3"	79233593	79233593	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.89-58904A>G"	""	""	"ENST00000464233"	""	90	"63"	27	56	"56"	0	"ROBO1,intron_variant,,ENST00000464233,NM_002941.3;"	"C"	"ENSG00000169855"	"ENST00000464233"	"Transcript"	"intron_variant"	"-/6742"	"-/4956"	"-/1651"	""	""	""	"1"	NA	-1	"ROBO1"	"HGNC"	10249	"protein_coding"	"YES"	"CCDS54611.1"	"ENSP00000420321"	"Q9Y6N7"	""	"UPI00000713D9"	"NM_002941.3"	""	""	""	"2/30"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"76c3590e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"6856"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	80158969	80158969	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"68"	33	73	"73"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"76c392ac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326732673267327	"WGS"	FALSE
"6857"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	80164458	80164458	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"78"	32	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"76c393b0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290909090909091	"WGS"	FALSE
"6858"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	80359025	80359025	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"95"	7	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"76c3a3a0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0686274509803922	"WGS"	FALSE
"6859"	"RP11-359D24.1"	0	"mskcc.org"	"GRCh37"	"3"	81922091	81922091	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.363+32031T>C"	""	""	"ENST00000471614"	""	119	"83"	36	69	"69"	0	"RP11-359D24.1,intron_variant,,ENST00000471614,;"	"C"	"ENSG00000242009"	"ENST00000471614"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/591"	""	""	""	""	""	"1"	NA	1	"RP11-359D24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"76c4195c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302521008403361	"WGS"	FALSE
"6860"	"RP11-260O18.1"	0	"mskcc.org"	"GRCh37"	"3"	82187434	82187434	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.245-47069C>A"	""	""	"ENST00000470263"	""	113	"81"	32	62	"62"	0	"RP11-260O18.1,intron_variant,,ENST00000470263,;RP11-260O18.1,intron_variant,,ENST00000494340,;"	"A"	"ENSG00000239440"	"ENST00000470263"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1951"	""	""	""	""	""	"1"	NA	1	"RP11-260O18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76c425e6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283185840707965	"WGS"	FALSE
"6861"	"RP11-260O18.1"	0	"mskcc.org"	"GRCh37"	"3"	82253742	82253742	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.472+2137C>A"	""	""	"ENST00000470263"	""	104	"74"	30	54	"54"	0	"RP11-260O18.1,intron_variant,,ENST00000470263,;RP11-260O18.1,downstream_gene_variant,,ENST00000494340,;"	"A"	"ENSG00000239440"	"ENST00000470263"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1951"	""	""	""	""	""	"1"	NA	1	"RP11-260O18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76c427da-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288461538461538	"WGS"	FALSE
"6862"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	82624712	82624712	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"68"	9	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"76c43b6c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116883116883117	"WGS"	FALSE
"6863"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	82831845	82831845	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"105"	6	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"76c44bb6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0540540540540541	"WGS"	FALSE
"6864"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	83142240	83142240	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	124	"93"	31	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"76c4741a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"6865"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	83369033	83369033	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"71"	36	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"76c48658-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336448598130841	"WGS"	FALSE
"6866"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	84259519	84259519	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"66"	32	43	"43"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76c4c1cc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326530612244898	"WGS"	FALSE
"6867"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	84587484	84587484	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"73"	36	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"76c4d144-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330275229357798	"WGS"	FALSE
"6868"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	88339049	88339049	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"64"	24	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"76c60c1c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"6869"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	88548047	88548047	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs770007106"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"68"	28	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs770007106"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"76c61a9a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WGS"	FALSE
"6870"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	95163690	95163690	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"rs545289219"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"76"	19	62	"62"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs545289219"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0004"	"C:0.0015"	"C:0"	NA	"C:0"	"C:0"	"C:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"76c79384-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"6871"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	95634225	95634225	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"88"	20	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"76c7ac7a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WGS"	FALSE
"6872"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	95636483	95636483	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"75"	22	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"76c7ad88-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22680412371134	"WGS"	FALSE
"6873"	"EPHA6"	285220	"mskcc.org"	"GRCh37"	"3"	96926521	96926521	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1115-18587T>C"	""	""	"ENST00000389672"	""	95	"71"	24	67	"67"	0	"EPHA6,intron_variant,,ENST00000389672,NM_001080448.2;EPHA6,intron_variant,,ENST00000470610,;"	"C"	"ENSG00000080224"	"ENST00000389672"	"Transcript"	"intron_variant"	"-/3971"	"-/3393"	"-/1130"	""	""	""	"1"	NA	1	"EPHA6"	"HGNC"	19296	"protein_coding"	"YES"	"CCDS46876.1"	"ENSP00000374323"	""	"H0Y8K5"	"UPI000004BB12"	"NM_001080448.2"	""	""	""	"3/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"76c80274-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"6874"	"EPHA6"	285220	"mskcc.org"	"GRCh37"	"3"	97196621	97196621	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2004-1517T>G"	""	""	"ENST00000389672"	""	117	"83"	34	59	"58"	1	"EPHA6,intron_variant,,ENST00000389672,NM_001080448.2;EPHA6,intron_variant,,ENST00000514100,NM_001278300.1;EPHA6,intron_variant,,ENST00000502694,NM_173655.3;EPHA6,intron_variant,,ENST00000442602,;EPHA6,intron_variant,,ENST00000477384,;EPHA6,intron_variant,,ENST00000503760,;EPHA6,intron_variant,,ENST00000508345,;RP11-529P9.1,downstream_gene_variant,,ENST00000381974,;"	"G"	"ENSG00000080224"	"ENST00000389672"	"Transcript"	"intron_variant"	"-/3971"	"-/3393"	"-/1130"	""	""	""	"1"	NA	1	"EPHA6"	"HGNC"	19296	"protein_coding"	"YES"	"CCDS46876.1"	"ENSP00000374323"	""	"H0Y8K5"	"UPI000004BB12"	"NM_001080448.2"	""	""	""	"8/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"76c812d2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290598290598291	"WGS"	FALSE
"6875"	"ST3GAL6-AS1"	100874207	"mskcc.org"	"GRCh37"	"3"	98428899	98428899	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000488132"	""	102	"76"	26	66	"66"	0	"ST3GAL6-AS1,downstream_gene_variant,,ENST00000488132,;ST3GAL6-AS1,downstream_gene_variant,,ENST00000475816,;"	"A"	"ENSG00000239445"	"ENST00000488132"	"Transcript"	"downstream_gene_variant"	"-/769"	""	""	""	""	""	"1"	"4275"	-1	"ST3GAL6-AS1"	"HGNC"	40828	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"76c86f20-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254901960784314	"WGS"	FALSE
"6876"	"RP11-779P15.1"	0	"mskcc.org"	"GRCh37"	"3"	99218675	99218675	"+"	"5'Flank"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000471993"	""	117	"84"	33	47	"46"	1	"RP11-779P15.1,upstream_gene_variant,,ENST00000471993,;"	"G"	"ENSG00000243296"	"ENST00000471993"	"Transcript"	"upstream_gene_variant"	"-/458"	""	""	""	""	""	"1"	"516"	1	"RP11-779P15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"76c8a530-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282051282051282	"WGS"	FALSE
"6877"	"COL8A1"	1295	"mskcc.org"	"GRCh37"	"3"	99358990	99358990	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-191+1482A>G"	""	""	"ENST00000261037"	""	107	"70"	37	66	"66"	0	"COL8A1,intron_variant,,ENST00000261037,NM_001850.4;COL8A1,intron_variant,,ENST00000273342,NM_020351.3;COL8A1,intron_variant,,ENST00000452013,;COL8A1,intron_variant,,ENST00000463753,;COL8A1,intron_variant,,ENST00000474648,;COL8A1,intron_variant,,ENST00000483969,;"	"G"	"ENSG00000144810"	"ENST00000261037"	"Transcript"	"intron_variant"	"-/5705"	"-/2235"	"-/744"	""	""	""	"1"	NA	1	"COL8A1"	"HGNC"	2215	"protein_coding"	"YES"	"CCDS2934.1"	"ENSP00000261037"	"P27658"	"C9JTN9"	"UPI0000126D21"	"NM_001850.4"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"76c8b37c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.345794392523364	"WGS"	FALSE
"6878"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	102972003	102972003	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs545715488"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"69"	34	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs545715488"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"76c9c226-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330097087378641	"WGS"	FALSE
"6879"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	104745332	104745332	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"64"	19	41	"41"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"76ca3cce-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228915662650602	"WGS"	FALSE
"6880"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	104872102	104872102	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"89"	32	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76ca45ac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264462809917355	"WGS"	FALSE
"6881"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	105793107	105793107	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	12	"9"	3	8	"8"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"76ca9cf0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"6882"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	107873295	107873295	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"64"	30	58	"57"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"76cb3ec6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319148936170213	"WGS"	FALSE
"6883"	"HHLA2"	11148	"mskcc.org"	"GRCh37"	"3"	108088025	108088025	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1109-6572G>A"	""	""	"ENST00000357759"	""	100	"70"	30	62	"62"	0	"HHLA2,intron_variant,,ENST00000357759,NM_007072.2;HHLA2,intron_variant,,ENST00000482099,;HHLA2,intron_variant,,ENST00000489514,NM_001282557.1;HHLA2,intron_variant,,ENST00000467761,NM_001282556.1;HHLA2,intron_variant,,ENST00000467562,NM_001282559.1;HHLA2,intron_variant,,ENST00000491820,NM_001282558.1;"	"A"	"ENSG00000114455"	"ENST00000357759"	"Transcript"	"intron_variant"	"-/2666"	"-/1245"	"-/414"	""	""	""	"1"	NA	1	"HHLA2"	"HGNC"	4905	"protein_coding"	"YES"	"CCDS46883.1"	"ENSP00000350402"	"Q9UM44"	"C9JY43,C9JY13,C9JD07,C9J8J7"	"UPI0000073CD9"	"NM_007072.2"	""	""	""	"7/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76cb515e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"6884"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	108482957	108482957	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"66"	29	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"76cb7486-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305263157894737	"WGS"	FALSE
"6885"	"MORC1"	27136	"mskcc.org"	"GRCh37"	"3"	108763653	108763653	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1331-9338C>T"	""	""	"ENST00000232603"	""	89	"81"	8	38	"38"	0	"MORC1,intron_variant,,ENST00000232603,NM_014429.3;MORC1,intron_variant,,ENST00000483760,;"	"A"	"ENSG00000114487"	"ENST00000232603"	"Transcript"	"intron_variant"	"-/3764"	"-/2955"	"-/984"	""	""	""	"1"	NA	-1	"MORC1"	"HGNC"	7198	"protein_coding"	"YES"	"CCDS2955.1"	"ENSP00000232603"	"Q86VD1"	""	"UPI000013C964"	"NM_014429.3"	""	""	""	"14/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"76cb8458-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"6886"	"MORC1"	27136	"mskcc.org"	"GRCh37"	"3"	108763693	108763693	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1331-9378A>C"	""	""	"ENST00000232603"	""	89	"79"	10	39	"39"	0	"MORC1,intron_variant,,ENST00000232603,NM_014429.3;MORC1,intron_variant,,ENST00000483760,;"	"G"	"ENSG00000114487"	"ENST00000232603"	"Transcript"	"intron_variant"	"-/3764"	"-/2955"	"-/984"	""	""	""	"1"	NA	-1	"MORC1"	"HGNC"	7198	"protein_coding"	"YES"	"CCDS2955.1"	"ENSP00000232603"	"Q86VD1"	""	"UPI000013C964"	"NM_014429.3"	""	""	""	"14/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"76cb875a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112359550561798	"WGS"	FALSE
"6887"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	115178167	115178167	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"68"	25	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"76cde1c6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"6888"	"LSAMP"	4045	"mskcc.org"	"GRCh37"	"3"	116045377	116045377	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.155+118347C>T"	""	""	"ENST00000490035"	""	90	"78"	12	67	"67"	0	"LSAMP,intron_variant,,ENST00000490035,NM_002338.3;LSAMP,intron_variant,,ENST00000333617,;LSAMP,intron_variant,,ENST00000539563,;LSAMP,intron_variant,,ENST00000474851,;"	"A"	"ENSG00000185565"	"ENST00000490035"	"Transcript"	"intron_variant"	"-/9446"	"-/1017"	"-/338"	""	""	""	"1"	NA	-1	"LSAMP"	"HGNC"	6705	"protein_coding"	"YES"	"CCDS2982.1"	"ENSP00000419000"	"Q13449"	""	"UPI00000746A0"	"NM_002338.3"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"76ce147a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"6889"	"LSAMP"	4045	"mskcc.org"	"GRCh37"	"3"	117024067	117024067	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67+691962G>A"	""	""	"ENST00000539563"	""	119	"86"	33	72	"72"	0	"LSAMP,intron_variant,,ENST00000539563,;"	"T"	"ENSG00000185565"	"ENST00000539563"	"Transcript"	"intron_variant"	"-/1077"	"-/1077"	"-/358"	""	""	""	"1"	NA	-1	"LSAMP"	"HGNC"	6705	"protein_coding"	""	""	"ENSP00000443429"	""	"F5H5G1"	"UPI0002064E9B"	""	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"76ce5eee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277310924369748	"WGS"	FALSE
"6890"	"RP11-384F7.1"	0	"mskcc.org"	"GRCh37"	"3"	117840406	117840406	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.233-34059T>G"	""	""	"ENST00000482142"	""	121	"81"	40	59	"59"	0	"RP11-384F7.1,intron_variant,,ENST00000482142,;"	"C"	"ENSG00000243276"	"ENST00000482142"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/787"	""	""	""	""	""	"1"	NA	-1	"RP11-384F7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"76ce863a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330578512396694	"WGS"	FALSE
"6891"	"RP11-384F7.1"	0	"mskcc.org"	"GRCh37"	"3"	117920342	117920342	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.233-113995A>T"	""	""	"ENST00000482142"	""	76	"48"	28	48	"48"	0	"RP11-384F7.1,intron_variant,,ENST00000482142,;"	"A"	"ENSG00000243276"	"ENST00000482142"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/787"	""	""	""	""	""	"1"	NA	-1	"RP11-384F7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"76ce9b0c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.368421052631579	"WGS"	FALSE
"6892"	"IGSF11"	152404	"mskcc.org"	"GRCh37"	"3"	118837111	118837111	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-142-5486G>A"	""	""	"ENST00000354673"	""	115	"72"	43	48	"48"	0	"IGSF11,intron_variant,,ENST00000354673,NM_152538.2;IGSF11,intron_variant,,ENST00000425327,;IGSF11,intron_variant,,ENST00000441144,;IGSF11,intron_variant,,ENST00000494802,;"	"T"	"ENSG00000144847"	"ENST00000354673"	"Transcript"	"intron_variant"	"-/3558"	"-/1293"	"-/430"	""	""	""	"1"	NA	-1	"IGSF11"	"HGNC"	16669	"protein_coding"	""	"CCDS2983.1"	"ENSP00000346700"	"Q5DX21"	"C9JAD3,C9IZX3"	"UPI0000140923"	"NM_152538.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"76cee1de-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373913043478261	"WGS"	FALSE
"6893"	"ARHGAP31"	57514	"mskcc.org"	"GRCh37"	"3"	119117536	119117536	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1007-510G>C"	""	""	"ENST00000264245"	""	99	"62"	37	65	"65"	0	"ARHGAP31,intron_variant,,ENST00000264245,NM_020754.2;"	"C"	"ENSG00000031081"	"ENST00000264245"	"Transcript"	"intron_variant"	"-/9317"	"-/4335"	"-/1444"	""	""	""	"1"	NA	1	"ARHGAP31"	"HGNC"	29216	"protein_coding"	"YES"	"CCDS43135.1"	"ENSP00000264245"	"Q2M1Z3"	""	"UPI00001C1DFD"	"NM_020754.2"	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"76cefeb2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373737373737374	"WGS"	FALSE
"6894"	"LRRC58"	116064	"mskcc.org"	"GRCh37"	"3"	120042378	120042378	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000295628"	""	69	"61"	8	49	"49"	0	"LRRC58,downstream_gene_variant,,ENST00000295628,NM_001099678.1;"	"T"	"ENSG00000163428"	"ENST00000295628"	"Transcript"	"downstream_gene_variant"	"-/7903"	"-/1116"	"-/371"	""	""	""	"1"	"978"	-1	"LRRC58"	"HGNC"	26968	"protein_coding"	"YES"	"CCDS46892.1"	"ENSP00000295628"	"Q96CX6"	""	"UPI00001C1DEE"	"NM_001099678.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"76cf4c14-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115942028985507	"WGS"	FALSE
"6895"	"SNX4"	8723	"mskcc.org"	"GRCh37"	"3"	125179901	125179901	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.855-197G>T"	""	""	"ENST00000251775"	""	88	"60"	28	41	"41"	0	"SNX4,intron_variant,,ENST00000251775,NM_003794.3;SNX4,intron_variant,,ENST00000536067,;SNX4,upstream_gene_variant,,ENST00000482965,;SNX4,intron_variant,,ENST00000471751,;"	"A"	"ENSG00000114520"	"ENST00000251775"	"Transcript"	"intron_variant"	"-/2506"	"-/1353"	"-/450"	""	""	""	"1"	NA	-1	"SNX4"	"HGNC"	11175	"protein_coding"	"YES"	"CCDS3032.1"	"ENSP00000251775"	"O95219"	"Q9H398,B4DQV4"	"UPI000003586D"	"NM_003794.3"	""	""	""	"9/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"76d12eda-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318181818181818	"WGS"	FALSE
"6896"	"RPL32P3"	132241	"mskcc.org"	"GRCh37"	"3"	129109304	129109304	"+"	"3'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000514355"	""	88	"67"	21	53	"53"	0	"RPL32P3,intron_variant,,ENST00000510078,;RPL32P3,intron_variant,,ENST00000507287,;RPL32P3,downstream_gene_variant,,ENST00000514355,;RPL32P3,downstream_gene_variant,,ENST00000515866,;RPL32P3,downstream_gene_variant,,ENST00000499631,;RPL32P3,downstream_gene_variant,,ENST00000507238,;RPL32P3,intron_variant,,ENST00000394491,;RP11-529F4.1,intron_variant,,ENST00000499853,;"	"C"	"ENSG00000251474"	"ENST00000514355"	"Transcript"	"downstream_gene_variant"	"-/2816"	""	""	""	""	""	"1"	"694"	-1	"RPL32P3"	"HGNC"	27024	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76d35c3c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238636363636364	"WGS"	FALSE
"6897"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	129357849	129357849	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"81"	8	34	"34"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"76d383c4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"6898"	"TMCC1-AS1"	100507032	"mskcc.org"	"GRCh37"	"3"	129619645	129619645	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.58-905G>A"	""	""	"ENST00000605830"	""	59	"53"	6	23	"23"	0	"TMCC1-AS1,intron_variant,,ENST00000605830,;TMCC1-AS1,intron_variant,,ENST00000605698,;TMCC1-AS1,intron_variant,,ENST00000603884,;TMCC1-AS1,upstream_gene_variant,,ENST00000604747,;"	"A"	"ENSG00000271270"	"ENST00000605830"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3496"	""	""	""	""	""	"1"	NA	1	"TMCC1-AS1"	"HGNC"	49060	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"76d39ee0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101694915254237	"WGS"	FALSE
"6899"	"GSTO3P"	0	"mskcc.org"	"GRCh37"	"3"	130551162	130551162	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000504733"	""	84	"55"	29	64	"64"	0	"GSTO3P,downstream_gene_variant,,ENST00000504733,;"	"T"	"ENSG00000232829"	"ENST00000504733"	"Transcript"	"downstream_gene_variant"	"-/718"	""	""	""	""	""	"1"	"3942"	1	"GSTO3P"	"HGNC"	23065	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"76d44d86-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.345238095238095	"WGS"	FALSE
"6900"	"TMEM108"	66000	"mskcc.org"	"GRCh37"	"3"	132953011	132953011	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.40+4816G>C"	""	""	"ENST00000321871"	""	95	"59"	36	46	"46"	0	"TMEM108,intron_variant,,ENST00000515826,;TMEM108,intron_variant,,ENST00000321871,NM_001136469.1,NM_023943.2;TMEM108,intron_variant,,ENST00000508711,NM_001282865.1;TMEM108,intron_variant,,ENST00000393130,;TMEM108,intron_variant,,ENST00000512662,;TMEM108,intron_variant,,ENST00000514894,;TMEM108,intron_variant,,ENST00000512137,;TMEM108,intron_variant,,ENST00000510183,;TMEM108,intron_variant,,ENST00000511555,;"	"C"	"ENSG00000144868"	"ENST00000321871"	"Transcript"	"intron_variant"	"-/3744"	"-/1728"	"-/575"	""	""	""	"1"	NA	1	"TMEM108"	"HGNC"	28451	"protein_coding"	"YES"	"CCDS33858.1"	"ENSP00000324651"	"Q6UXF1"	"D6RIE1,D6RGJ9,D6RFH6,D6R9I6,D6R911"	"UPI000004EE8B"	"NM_001136469.1,NM_023943.2"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"76d50d5c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.378947368421053	"WGS"	FALSE
"6901"	"BFSP2"	8419	"mskcc.org"	"GRCh37"	"3"	133159454	133159454	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.490-6707G>A"	""	""	"ENST00000302334"	""	75	"58"	17	51	"51"	0	"BFSP2,intron_variant,,ENST00000302334,NM_003571.2;BFSP2-AS1,intron_variant,,ENST00000515542,;"	"A"	"ENSG00000170819"	"ENST00000302334"	"Transcript"	"intron_variant"	"-/1558"	"-/1248"	"-/415"	""	""	""	"1"	NA	1	"BFSP2"	"HGNC"	1041	"protein_coding"	"YES"	"CCDS33859.1"	"ENSP00000304987"	"Q13515"	""	"UPI00001268CA"	"NM_003571.2"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"76d5215c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226666666666667	"WGS"	FALSE
"6902"	"TFP1"	0	"mskcc.org"	"GRCh37"	"3"	133399875	133399875	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.37-7161G>A"	""	""	"ENST00000460564"	""	96	"68"	28	41	"41"	0	"TFP1,intron_variant,,ENST00000460564,;TFP1,intron_variant,,ENST00000490470,;TFP1,intron_variant,,ENST00000497521,;"	"A"	"ENSG00000242337"	"ENST00000460564"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/572"	""	""	""	""	""	"1"	NA	1	"TFP1"	"HGNC"	11759	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76d536ba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WGS"	FALSE
"6903"	"SLCO2A1"	6578	"mskcc.org"	"GRCh37"	"3"	133725933	133725933	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.96+22618A>T"	""	""	"ENST00000310926"	""	89	"63"	26	67	"67"	0	"SLCO2A1,intron_variant,,ENST00000310926,NM_005630.2;SLCO2A1,intron_variant,,ENST00000493729,;SLCO2A1,intron_variant,,ENST00000478651,;SLCO2A1,intron_variant,,ENST00000478662,;SLCO2A1,intron_variant,,ENST00000481359,;SLCO2A1,intron_variant,,ENST00000462770,;SLCO2A1,intron_variant,,ENST00000464676,;"	"A"	"ENSG00000174640"	"ENST00000310926"	"Transcript"	"intron_variant"	"-/4223"	"-/1932"	"-/643"	""	""	""	"1"	NA	-1	"SLCO2A1"	"HGNC"	10955	"protein_coding"	"YES"	"CCDS3084.1"	"ENSP00000311291"	"Q92959"	"Q4LEJ9"	"UPI000013F0AD"	"NM_005630.2"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"76d54588-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292134831460674	"WGS"	FALSE
"6904"	"STAG1"	10274	"mskcc.org"	"GRCh37"	"3"	136308729	136308729	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.297+14422T>A"	""	""	"ENST00000383202"	""	95	"88"	7	50	"50"	0	"STAG1,intron_variant,,ENST00000383202,NM_005862.2;STAG1,intron_variant,,ENST00000236698,;STAG1,intron_variant,,ENST00000434713,;STAG1,intron_variant,,ENST00000480733,;RNY4P4,downstream_gene_variant,,ENST00000363973,;STAG1,intron_variant,,ENST00000483235,;STAG1,intron_variant,,ENST00000487065,;STAG1,intron_variant,,ENST00000462818,;"	"T"	"ENSG00000118007"	"ENST00000383202"	"Transcript"	"intron_variant"	"-/6053"	"-/3777"	"-/1258"	""	""	""	"1"	NA	-1	"STAG1"	"HGNC"	11354	"protein_coding"	"YES"	"CCDS3090.1"	"ENSP00000372689"	"Q8WVM7"	"Q4LE48"	"UPI000020A2DE"	"NM_005862.2"	""	""	""	"4/33"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"76d63f88-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"6905"	"STAG1"	10274	"mskcc.org"	"GRCh37"	"3"	136463656	136463656	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-84+7381A>T"	""	""	"ENST00000383202"	""	69	"65"	4	49	"49"	0	"STAG1,intron_variant,,ENST00000383202,NM_005862.2;STAG1,intron_variant,,ENST00000236698,;STAG1,intron_variant,,ENST00000434713,;STAG1,intron_variant,,ENST00000480733,;STAG1,intron_variant,,ENST00000483235,;STAG1,intron_variant,,ENST00000487065,;"	"A"	"ENSG00000118007"	"ENST00000383202"	"Transcript"	"intron_variant"	"-/6053"	"-/3777"	"-/1258"	""	""	""	"1"	NA	-1	"STAG1"	"HGNC"	11354	"protein_coding"	"YES"	"CCDS3090.1"	"ENSP00000372689"	"Q8WVM7"	"Q4LE48"	"UPI000020A2DE"	"NM_005862.2"	""	""	""	"1/33"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"76d668f0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0579710144927536	"WGS"	FALSE
"6906"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	141353984	141353984	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"65"	17	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"76d823de-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207317073170732	"WGS"	FALSE
"6907"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	141983217	141983217	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"71"	7	29	"29"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76d88dec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"6908"	"U2SURP"	23350	"mskcc.org"	"GRCh37"	"3"	142766068	142766068	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2545-3713A>T"	""	""	"ENST00000473835"	""	10	"7"	3	9	"9"	0	"U2SURP,intron_variant,,ENST00000397933,;U2SURP,intron_variant,,ENST00000473835,NM_001080415.1;U2SURP,intron_variant,,ENST00000493598,;U2SURP,intron_variant,,ENST00000480029,;U2SURP,intron_variant,,ENST00000467348,;U2SURP,intron_variant,,ENST00000463563,;U2SURP,intron_variant,,ENST00000488497,;"	"T"	"ENSG00000163714"	"ENST00000473835"	"Transcript"	"intron_variant"	"-/7276"	"-/3090"	"-/1029"	""	""	""	"1"	NA	1	"U2SURP"	"HGNC"	30855	"protein_coding"	"YES"	"CCDS46928.1"	"ENSP00000418563"	"O15042"	"C9JDJ7,C9JB80,C9J5L1"	"UPI0000160746"	"NM_001080415.1"	""	""	""	"24/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"76d8ef94-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"6909"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	145450474	145450474	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"74"	28	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"76d99534-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274509803921569	"WGS"	FALSE
"6910"	"ZIC1"	7545	"mskcc.org"	"GRCh37"	"3"	147214025	147214025	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.234-11703T>A"	""	""	"ENST00000474034"	""	101	"77"	24	66	"66"	0	"ZIC1,intron_variant,,ENST00000474034,;ZIC1,intron_variant,,ENST00000472523,;"	"A"	"ENSG00000152977"	"ENST00000474034"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1044"	""	""	""	""	""	"1"	NA	1	"ZIC1"	"HGNC"	12872	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"76da1518-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.237623762376238	"WGS"	FALSE
"6911"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	148225259	148225259	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"71"	23	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76da5546-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24468085106383	"WGS"	FALSE
"6912"	"HLTF"	6596	"mskcc.org"	"GRCh37"	"3"	148806132	148806132	"+"	"5'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000310053"	""	96	"69"	27	44	"44"	0	"HLTF,upstream_gene_variant,,ENST00000310053,NM_003071.3,NM_139048.2;HLTF,upstream_gene_variant,,ENST00000465259,;HLTF,upstream_gene_variant,,ENST00000392912,;HLTF,upstream_gene_variant,,ENST00000494055,;HLTF-AS1,intron_variant,,ENST00000492461,;HLTF,upstream_gene_variant,,ENST00000481663,;"	"T"	"ENSG00000071794"	"ENST00000310053"	"Transcript"	"upstream_gene_variant"	"-/5317"	"-/3030"	"-/1009"	""	""	""	"1"	"1815"	-1	"HLTF"	"HGNC"	11099	"protein_coding"	"YES"	"CCDS33875.1"	"ENSP00000308944"	"Q14527"	""	"UPI0000161FA7"	"NM_003071.3,NM_139048.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"76da82be-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28125	"WGS"	FALSE
"6913"	"RP11-651P23.2"	0	"mskcc.org"	"GRCh37"	"3"	149702412	149702412	"+"	"RNA"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.231C>A"	""	""	"ENST00000487390"	"1/1"	108	"80"	28	61	"61"	0	"PFN2,intron_variant,,ENST00000494827,;PFN2,intron_variant,,ENST00000497148,;RP11-651P23.2,non_coding_transcript_exon_variant,,ENST00000487390,;RP11-651P23.4,upstream_gene_variant,,ENST00000438359,;RP11-651P23.4,upstream_gene_variant,,ENST00000463122,;"	"A"	"ENSG00000182000"	"ENST00000487390"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"231/403"	""	""	""	""	""	"1"	NA	1	"RP11-651P23.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"76dacae4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259259259259259	"WGS"	FALSE
"6914"	"CLRN1-AS1"	116933	"mskcc.org"	"GRCh37"	"3"	150576162	150576162	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.123+5769C>T"	""	""	"ENST00000476886"	""	93	"64"	29	58	"58"	0	"CLRN1-AS1,intron_variant,,ENST00000476886,;"	"T"	"ENSG00000239265"	"ENST00000476886"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2223"	""	""	""	""	""	"1"	NA	1	"CLRN1-AS1"	"HGNC"	30895	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"76db115c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311827956989247	"WGS"	FALSE
"6915"	"RP11-312P21.2"	0	"mskcc.org"	"GRCh37"	"3"	151215405	151215405	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000491120"	""	99	"93"	6	49	"49"	0	"RP11-312P21.2,upstream_gene_variant,,ENST00000491120,;"	"A"	"ENSG00000242119"	"ENST00000491120"	"Transcript"	"upstream_gene_variant"	"-/168"	""	""	""	""	""	"1"	"2022"	1	"RP11-312P21.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"76db4b40-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"6916"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	152475153	152475153	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"91"	36	68	"67"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"76dbc03e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283464566929134	"WGS"	FALSE
"6917"	"RP11-23D24.2"	0	"mskcc.org"	"GRCh37"	"3"	153229658	153229658	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.381+22674G>A"	""	""	"ENST00000493214"	""	71	"54"	17	46	"46"	0	"RP11-23D24.2,intron_variant,,ENST00000493214,;"	"T"	"ENSG00000238755"	"ENST00000493214"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/812"	""	""	""	""	""	"1"	NA	-1	"RP11-23D24.2"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"76dc2556-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23943661971831	"WGS"	FALSE
"6918"	"VEPH1"	79674	"mskcc.org"	"GRCh37"	"3"	157218371	157218371	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-158+2695T>G"	""	""	"ENST00000362010"	""	105	"78"	27	65	"65"	0	"VEPH1,intron_variant,,ENST00000362010,NM_001167912.1;VEPH1,intron_variant,,ENST00000392833,NM_001167911.1;VEPH1,intron_variant,,ENST00000494677,NM_001167915.1;VEPH1,intron_variant,,ENST00000468233,NM_001167916.1;VEPH1,intron_variant,,ENST00000487753,;VEPH1,intron_variant,,ENST00000461299,;VEPH1,intron_variant,,ENST00000479987,;VEPH1,intron_variant,,ENST00000489602,;VEPH1,upstream_gene_variant,,ENST00000543418,NM_024621.2;VEPH1,upstream_gene_variant,,ENST00000392832,;VEPH1,upstream_gene_variant,,ENST00000483440,;VEPH1,intron_variant,,ENST00000473907,;VEPH1,intron_variant,,ENST00000475050,;"	"C"	"ENSG00000197415"	"ENST00000362010"	"Transcript"	"intron_variant"	"-/4202"	"-/2502"	"-/833"	""	""	""	"1"	NA	-1	"VEPH1"	"HGNC"	25735	"protein_coding"	"YES"	"CCDS3179.1"	"ENSP00000354919"	"Q14D04"	"C9JRT0,C9J4U8,C9J379,C9IZY4"	"UPI000013F6EE"	"NM_001167912.1"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"76dd6c9a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257142857142857	"WGS"	FALSE
"6919"	"RSRC1"	51319	"mskcc.org"	"GRCh37"	"3"	157889900	157889900	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.321-30961C>T"	""	""	"ENST00000295930"	""	119	"87"	32	58	"58"	0	"RSRC1,intron_variant,,ENST00000464171,;RSRC1,intron_variant,,ENST00000295930,NM_016625.3,NM_001271838.1;RSRC1,intron_variant,,ENST00000312179,NM_001271834.1;RSRC1,intron_variant,,ENST00000480820,;RSRC1,intron_variant,,ENST00000475278,;RSRC1,intron_variant,,ENST00000476899,;RSRC1,intron_variant,,ENST00000471994,;RSRC1,intron_variant,,ENST00000494002,;RSRC1,intron_variant,,ENST00000471911,;RSRC1,intron_variant,,ENST00000480119,;RSRC1,intron_variant,,ENST00000477788,;"	"T"	"ENSG00000174891"	"ENST00000295930"	"Transcript"	"intron_variant"	"-/1727"	"-/1005"	"-/334"	""	""	""	"1"	NA	1	"RSRC1"	"HGNC"	24152	"protein_coding"	"YES"	"CCDS3181.1"	"ENSP00000295930"	"Q96IZ7"	"C9JVB3,C9J8Q2,C9J367"	"UPI000006EB23"	"NM_016625.3,NM_001271838.1"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"76dda804-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26890756302521	"WGS"	FALSE
"6920"	"IFT80"	57560	"mskcc.org"	"GRCh37"	"3"	160082735	160082735	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.549+1096G>T"	""	""	"ENST00000326448"	""	91	"64"	27	51	"51"	0	"IFT80,intron_variant,,ENST00000326448,NM_020800.2;IFT80,intron_variant,,ENST00000483465,NM_001190242.1;IFT80,intron_variant,,ENST00000496589,NM_001190241.1;IFT80,intron_variant,,ENST00000465537,;IFT80,intron_variant,,ENST00000475677,;IFT80,downstream_gene_variant,,ENST00000498409,;IFT80,downstream_gene_variant,,ENST00000478370,;IFT80,downstream_gene_variant,,ENST00000468218,;IFT80,downstream_gene_variant,,ENST00000486856,;IFT80,intron_variant,,ENST00000472773,;IFT80,intron_variant,,ENST00000478460,;IFT80,intron_variant,,ENST00000487943,;RP11-432B6.3,intron_variant,,ENST00000483754,;IFT80,intron_variant,,ENST00000484963,;"	"A"	"ENSG00000068885"	"ENST00000326448"	"Transcript"	"intron_variant"	"-/4306"	"-/2334"	"-/777"	""	""	""	"1"	NA	-1	"IFT80"	"HGNC"	29262	"protein_coding"	"YES"	"CCDS3188.1"	"ENSP00000312778"	"Q9P2H3"	"C9JUJ1,C9JUI1,C9JSB1,C9J6I5,C9J6G8,C9J627,C9IZR2"	"UPI0000160F16"	"NM_020800.2"	""	""	""	"6/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"76de6cb2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296703296703297	"WGS"	FALSE
"6921"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	163155861	163155861	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"82"	9	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"76df465a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0989010989010989	"WGS"	FALSE
"6922"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	164253704	164253704	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"86"	6	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"76df9baa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"6923"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	164383630	164383630	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"72"	30	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"76dfafb4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"6924"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	165591541	165591541	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"69"	36	56	"56"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"76e0057c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342857142857143	"WGS"	FALSE
"6925"	"WDR49"	151790	"mskcc.org"	"GRCh37"	"3"	167251982	167251982	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.899-1217G>C"	""	""	"ENST00000308378"	""	86	"60"	26	47	"47"	0	"WDR49,intron_variant,,ENST00000308378,NM_178824.3;WDR49,intron_variant,,ENST00000453925,;WDR49,intron_variant,,ENST00000472600,;WDR49,intron_variant,,ENST00000479765,;WDR49,intron_variant,,ENST00000476376,;WDR49,upstream_gene_variant,,ENST00000493061,;WDR49,intron_variant,,ENST00000460448,;"	"G"	"ENSG00000174776"	"ENST00000308378"	"Transcript"	"intron_variant"	"-/2594"	"-/2094"	"-/697"	""	""	""	"1"	NA	-1	"WDR49"	"HGNC"	26587	"protein_coding"	"YES"	"CCDS3201.1"	"ENSP00000311343"	"Q8IV35"	""	"UPI00000746AD"	"NM_178824.3"	""	""	""	"7/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"76e07bb0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302325581395349	"WGS"	FALSE
"6926"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	170043427	170043427	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"68"	27	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"76e178c6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284210526315789	"WGS"	FALSE
"6927"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	170689383	170689383	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"59"	21	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76e1c48e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2625	"WGS"	FALSE
"6928"	"TNIK"	23043	"mskcc.org"	"GRCh37"	"3"	171156947	171156947	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.57+20849G>T"	""	""	"ENST00000436636"	""	52	"47"	5	30	"30"	0	"TNIK,intron_variant,,ENST00000436636,NM_015028.2;TNIK,intron_variant,,ENST00000369326,NM_001161560.1,NM_001161566.1,NM_001161562.1,NM_001161561.1;TNIK,intron_variant,,ENST00000538048,NM_001161564.1,NM_001161563.1;TNIK,intron_variant,,ENST00000341852,NM_001161565.1;TNIK,intron_variant,,ENST00000284483,;TNIK,intron_variant,,ENST00000357327,;TNIK,intron_variant,,ENST00000470834,;TNIK,intron_variant,,ENST00000488470,;TNIK,intron_variant,,ENST00000460047,;TNIK,intron_variant,,ENST00000475336,;TNIK,intron_variant,,ENST00000465393,;Y_RNA,upstream_gene_variant,,ENST00000410574,;"	"A"	"ENSG00000154310"	"ENST00000436636"	"Transcript"	"intron_variant"	"-/6970"	"-/4083"	"-/1360"	""	""	""	"1"	NA	-1	"TNIK"	"HGNC"	30765	"protein_coding"	"YES"	"CCDS46956.1"	"ENSP00000399511"	"Q9UKE5"	""	"UPI000003ABDF"	"NM_015028.2"	""	""	""	"1/32"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"76e1de60-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0961538461538462	"WGS"	FALSE
"6929"	"NAALADL2"	254827	"mskcc.org"	"GRCh37"	"3"	174225719	174225719	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-183-42640T>G"	""	""	"ENST00000434257"	""	91	"70"	21	48	"48"	0	"NAALADL2,intron_variant,,ENST00000434257,;NAALADL2,intron_variant,,ENST00000481679,;NAALADL2,intron_variant,,ENST00000491329,;NAALADL2,intron_variant,,ENST00000489729,;NAALADL2,intron_variant,,ENST00000482228,;NAALADL2,intron_variant,,ENST00000495900,;"	"G"	"ENSG00000177694"	"ENST00000434257"	"Transcript"	"intron_variant"	"-/574"	"-/345"	"-/115"	""	""	""	"1"	NA	1	"NAALADL2"	"HGNC"	23219	"protein_coding"	""	""	"ENSP00000409858"	""	"C9JQ86"	"UPI000198CBC8"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"76e2d522-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"6930"	"NAALADL2"	254827	"mskcc.org"	"GRCh37"	"3"	174268170	174268170	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-183-189A>G"	""	""	"ENST00000434257"	""	114	"82"	32	51	"51"	0	"NAALADL2,intron_variant,,ENST00000434257,;NAALADL2,intron_variant,,ENST00000491329,;NAALADL2,intron_variant,,ENST00000489729,;NAALADL2,intron_variant,,ENST00000495900,;"	"G"	"ENSG00000177694"	"ENST00000434257"	"Transcript"	"intron_variant"	"-/574"	"-/345"	"-/115"	""	""	""	"1"	NA	1	"NAALADL2"	"HGNC"	23219	"protein_coding"	""	""	"ENSP00000409858"	""	"C9JQ86"	"UPI000198CBC8"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"76e2d82e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280701754385965	"WGS"	FALSE
"6931"	"NAALADL2"	254827	"mskcc.org"	"GRCh37"	"3"	174603307	174603307	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.43+26067C>G"	""	""	"ENST00000454872"	""	101	"65"	36	53	"53"	0	"NAALADL2,intron_variant,,ENST00000454872,NM_207015.2;NAALADL2,intron_variant,,ENST00000434257,;NAALADL2,intron_variant,,ENST00000473253,;NAALADL2,intron_variant,,ENST00000485853,;"	"G"	"ENSG00000177694"	"ENST00000454872"	"Transcript"	"intron_variant"	"-/4953"	"-/2388"	"-/795"	""	""	""	"1"	NA	1	"NAALADL2"	"HGNC"	23219	"protein_coding"	"YES"	"CCDS46960.1"	"ENSP00000404705"	"Q58DX5"	"C9JQ86"	"UPI0000161608"	"NM_207015.2"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"76e30132-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.356435643564356	"WGS"	FALSE
"6932"	"NAALADL2"	254827	"mskcc.org"	"GRCh37"	"3"	174849475	174849475	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.545+34394G>A"	""	""	"ENST00000454872"	""	70	"56"	14	50	"50"	0	"NAALADL2,intron_variant,,ENST00000454872,NM_207015.2;NAALADL2,intron_variant,,ENST00000473253,;NAALADL2,intron_variant,,ENST00000489299,;NAALADL2,intron_variant,,ENST00000485853,;"	"A"	"ENSG00000177694"	"ENST00000454872"	"Transcript"	"intron_variant"	"-/4953"	"-/2388"	"-/795"	""	""	""	"1"	NA	1	"NAALADL2"	"HGNC"	23219	"protein_coding"	"YES"	"CCDS46960.1"	"ENSP00000404705"	"Q58DX5"	"C9JQ86"	"UPI0000161608"	"NM_207015.2"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"76e31b0e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"6933"	"NAALADL2"	254827	"mskcc.org"	"GRCh37"	"3"	175069256	175069256	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"rs199761689"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1090+27142A>T"	""	""	"ENST00000454872"	""	106	"101"	5	67	"67"	0	"NAALADL2,intron_variant,,ENST00000454872,NM_207015.2;NAALADL2,intron_variant,,ENST00000473253,;NAALADL2,intron_variant,,ENST00000489299,;NAALADL2,intron_variant,,ENST00000414826,;"	"T"	"ENSG00000177694"	"ENST00000454872"	"Transcript"	"intron_variant"	"-/4953"	"-/2388"	"-/795"	""	""	"rs199761689"	"1"	NA	1	"NAALADL2"	"HGNC"	23219	"protein_coding"	"YES"	"CCDS46960.1"	"ENSP00000404705"	"Q58DX5"	"C9JQ86"	"UPI0000161608"	"NM_207015.2"	""	""	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76e32b8a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0471698113207547	"WGS"	FALSE
"6934"	"NAALADL2"	254827	"mskcc.org"	"GRCh37"	"3"	175171525	175171525	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1234+6365G>A"	""	""	"ENST00000454872"	""	107	"76"	31	60	"60"	0	"NAALADL2,intron_variant,,ENST00000454872,NM_207015.2;NAALADL2,intron_variant,,ENST00000473253,;NAALADL2,intron_variant,,ENST00000489299,;NAALADL2,intron_variant,,ENST00000414826,;"	"A"	"ENSG00000177694"	"ENST00000454872"	"Transcript"	"intron_variant"	"-/4953"	"-/2388"	"-/795"	""	""	""	"1"	NA	1	"NAALADL2"	"HGNC"	23219	"protein_coding"	"YES"	"CCDS46960.1"	"ENSP00000404705"	"Q58DX5"	"C9JQ86"	"UPI0000161608"	"NM_207015.2"	""	""	""	"6/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76e336c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289719626168224	"WGS"	FALSE
"6935"	"NAALADL2"	254827	"mskcc.org"	"GRCh37"	"3"	175295158	175295158	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1800+1183T>C"	""	""	"ENST00000454872"	""	109	"76"	33	58	"58"	0	"NAALADL2,intron_variant,,ENST00000454872,NM_207015.2;NAALADL2,intron_variant,,ENST00000473253,;NAALADL2,intron_variant,,ENST00000489299,;"	"C"	"ENSG00000177694"	"ENST00000454872"	"Transcript"	"intron_variant"	"-/4953"	"-/2388"	"-/795"	""	""	""	"1"	NA	1	"NAALADL2"	"HGNC"	23219	"protein_coding"	"YES"	"CCDS46960.1"	"ENSP00000404705"	"Q58DX5"	"C9JQ86"	"UPI0000161608"	"NM_207015.2"	""	""	""	"10/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"76e33de6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302752293577982	"WGS"	FALSE
"6936"	"NAALADL2"	254827	"mskcc.org"	"GRCh37"	"3"	175490917	175490917	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2189+17711A>G"	""	""	"ENST00000454872"	""	92	"70"	22	58	"58"	0	"NAALADL2,intron_variant,,ENST00000454872,NM_207015.2;NAALADL2-AS1,downstream_gene_variant,,ENST00000426315,;"	"G"	"ENSG00000177694"	"ENST00000454872"	"Transcript"	"intron_variant"	"-/4953"	"-/2388"	"-/795"	""	""	""	"1"	NA	1	"NAALADL2"	"HGNC"	23219	"protein_coding"	"YES"	"CCDS46960.1"	"ENSP00000404705"	"Q58DX5"	"C9JQ86"	"UPI0000161608"	"NM_207015.2"	""	""	""	"13/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"76e35308-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239130434782609	"WGS"	FALSE
"6937"	"ZNF639"	51193	"mskcc.org"	"GRCh37"	"3"	179055607	179055607	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000326361"	""	87	"80"	7	36	"36"	0	"ZNF639,downstream_gene_variant,,ENST00000326361,NM_016331.1;ZNF639,downstream_gene_variant,,ENST00000496856,;ZNF639,downstream_gene_variant,,ENST00000484866,;ZNF639,downstream_gene_variant,,ENST00000491818,;ZNF639,downstream_gene_variant,,ENST00000466264,;ZNF639,downstream_gene_variant,,ENST00000481587,;ZNF639,downstream_gene_variant,,ENST00000494234,;RP11-255C15.3,upstream_gene_variant,,ENST00000569932,;RP11-255C15.4,upstream_gene_variant,,ENST00000610130,;ZNF639,downstream_gene_variant,,ENST00000466663,;ZNF639,downstream_gene_variant,,ENST00000483460,;"	"G"	"ENSG00000121864"	"ENST00000326361"	"Transcript"	"downstream_gene_variant"	"-/3016"	"-/1458"	"-/485"	""	""	""	"1"	"2284"	1	"ZNF639"	"HGNC"	30950	"protein_coding"	"YES"	"CCDS3227.1"	"ENSP00000325634"	"Q9UID6"	"J3KR68,J3KR59,C9J3R1,C9IZP0"	"UPI000003EA4C"	"NM_016331.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76e47cce-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"6938"	"PEX5L"	51555	"mskcc.org"	"GRCh37"	"3"	179723454	179723454	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.21+30913A>G"	""	""	"ENST00000467460"	""	111	"84"	27	50	"49"	1	"PEX5L,intron_variant,,ENST00000467460,NM_001256751.1,NM_016559.2;PEX5L,intron_variant,,ENST00000485199,NM_001256752.1;PEX5L,intron_variant,,ENST00000263962,NM_001256750.1;PEX5L,intron_variant,,ENST00000472994,NM_001256753.1;PEX5L,intron_variant,,ENST00000465751,;PEX5L,intron_variant,,ENST00000474909,;"	"C"	"ENSG00000114757"	"ENST00000467460"	"Transcript"	"intron_variant"	"-/9082"	"-/1881"	"-/626"	""	""	""	"1"	NA	-1	"PEX5L"	"HGNC"	30024	"protein_coding"	"YES"	"CCDS3236.1"	"ENSP00000419975"	"Q8IYB4"	"C9JZE2,C9IZ09"	"UPI0000049CE2"	"NM_001256751.1,NM_016559.2"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"76e4c8fa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.243243243243243	"WGS"	FALSE
"6939"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	181640010	181640010	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"61"	37	66	"66"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"76e5683c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.377551020408163	"WGS"	FALSE
"6940"	"DCUN1D1"	54165	"mskcc.org"	"GRCh37"	"3"	182676635	182676635	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.520+2379T>C"	""	""	"ENST00000292782"	""	104	"72"	32	56	"56"	0	"DCUN1D1,intron_variant,,ENST00000292782,NM_020640.2;DCUN1D1,intron_variant,,ENST00000469954,;DCUN1D1,downstream_gene_variant,,ENST00000497606,;DCUN1D1,intron_variant,,ENST00000492563,;RP11-531F16.3,upstream_gene_variant,,ENST00000460975,;"	"G"	"ENSG00000043093"	"ENST00000292782"	"Transcript"	"intron_variant"	"-/7954"	"-/780"	"-/259"	""	""	""	"1"	NA	-1	"DCUN1D1"	"HGNC"	18184	"protein_coding"	"YES"	"CCDS3240.1"	"ENSP00000292782"	"Q96GG9"	"C9JVE2,C9JUW4,C9JRU6,C9J8R4,C9J0B2"	"UPI0000073D68"	"NM_020640.2"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"76e5b10c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"6941"	"CYP2AB1P"	0	"mskcc.org"	"GRCh37"	"3"	183623192	183623192	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.911+56C>T"	""	""	"ENST00000454440"	""	86	"61"	25	48	"48"	0	"CYP2AB1P,upstream_gene_variant,,ENST00000439115,;CYP2AB1P,intron_variant,,ENST00000454440,;"	"A"	"ENSG00000233441"	"ENST00000454440"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1456"	""	""	""	""	""	"1"	NA	-1	"CYP2AB1P"	"HGNC"	39975	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"76e645ae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290697674418605	"WGS"	FALSE
"6942"	"DGKG"	1608	"mskcc.org"	"GRCh37"	"3"	185959117	185959117	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1826+1176C>T"	""	""	"ENST00000265022"	""	99	"65"	34	45	"45"	0	"DGKG,intron_variant,,ENST00000265022,NM_001080744.1,NM_001346.2,NM_001080745.1;DGKG,intron_variant,,ENST00000344484,;DGKG,intron_variant,,ENST00000544847,;DGKG,intron_variant,,ENST00000382164,;DGKG,intron_variant,,ENST00000480809,;DGKG,intron_variant,,ENST00000490452,;"	"A"	"ENSG00000058866"	"ENST00000265022"	"Transcript"	"intron_variant"	"-/5805"	"-/2376"	"-/791"	""	""	""	"1"	NA	-1	"DGKG"	"HGNC"	2853	"protein_coding"	"YES"	"CCDS3274.1"	"ENSP00000265022"	"P49619"	""	"UPI000013D5AB"	"NM_001080744.1,NM_001346.2,NM_001080745.1"	""	""	""	"20/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"76e7fe62-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.343434343434343	"WGS"	FALSE
"6943"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	187060002	187060002	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"86"	29	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"76e86ae6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252173913043478	"WGS"	FALSE
"6944"	"TMEM207"	131920	"mskcc.org"	"GRCh37"	"3"	190145852	190145852	"+"	"3'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000354905"	""	117	"74"	43	52	"52"	0	"TMEM207,downstream_gene_variant,,ENST00000354905,NM_207316.1;"	"C"	"ENSG00000198398"	"ENST00000354905"	"Transcript"	"downstream_gene_variant"	"-/1448"	"-/441"	"-/146"	""	""	""	"1"	"592"	-1	"TMEM207"	"HGNC"	33705	"protein_coding"	"YES"	"CCDS3297.1"	"ENSP00000346981"	"Q6UWW9"	""	"UPI0000048F12"	"NM_207316.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76e9940c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.367521367521368	"WGS"	FALSE
"6945"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	191549264	191549264	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"76"	8	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"76ea06c6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"6946"	"FGF12"	2257	"mskcc.org"	"GRCh37"	"3"	192024882	192024882	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs576513120"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.414+28268G>A"	""	""	"ENST00000454309"	""	110	"66"	44	61	"61"	0	"FGF12,intron_variant,,ENST00000445105,NM_004113.5;FGF12,intron_variant,,ENST00000454309,NM_021032.4;FGF12,intron_variant,,ENST00000264730,;FGF12,intron_variant,,ENST00000450716,;FGF12,intron_variant,,ENST00000418610,;FGF12,intron_variant,,ENST00000430714,;FGF12,intron_variant,,ENST00000448795,;"	"T"	"ENSG00000114279"	"ENST00000454309"	"Transcript"	"intron_variant"	"-/3058"	"-/732"	"-/243"	""	""	"rs576513120"	"1"	NA	-1	"FGF12"	"HGNC"	3668	"protein_coding"	"YES"	"CCDS3301.1"	"ENSP00000413496"	"P61328"	"C9JUK8"	"UPI0000003FDD"	"NM_021032.4"	""	""	""	"3/4"	""	"T:0.0008"	"T:0.003"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"76ea2412-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WGS"	FALSE
"6947"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	192499714	192499714	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"75"	34	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"76ea4726-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311926605504587	"WGS"	FALSE
"6948"	"ATP13A5"	344905	"mskcc.org"	"GRCh37"	"3"	193028725	193028725	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2446-219C>T"	""	""	"ENST00000342358"	""	126	"92"	34	56	"56"	0	"ATP13A5,intron_variant,,ENST00000342358,NM_198505.2;ATP13A5-AS1,intron_variant,,ENST00000414634,;ATP13A5,intron_variant,,ENST00000495496,;ATP13A5,downstream_gene_variant,,ENST00000488957,;"	"A"	"ENSG00000187527"	"ENST00000342358"	"Transcript"	"intron_variant"	"-/4027"	"-/3657"	"-/1218"	""	""	""	"1"	NA	-1	"ATP13A5"	"HGNC"	31789	"protein_coding"	"YES"	"CCDS33914.1"	"ENSP00000341942"	"Q4VNC0"	""	"UPI000050EC1D"	"NM_198505.2"	""	""	""	"20/29"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76ea6a3a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26984126984127	"WGS"	FALSE
"6949"	"ATP13A4"	84239	"mskcc.org"	"GRCh37"	"3"	193146025	193146025	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs576252294"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2842+5609C>T"	""	""	"ENST00000342695"	""	59	"45"	14	29	"28"	1	"ATP13A4,intron_variant,,ENST00000342695,NM_032279.2;ATP13A4,intron_variant,,ENST00000392443,;ATP13A4,intron_variant,,ENST00000450950,;ATP13A4,intron_variant,,ENST00000428352,;"	"A"	"ENSG00000127249"	"ENST00000342695"	"Transcript"	"intron_variant"	"-/4208"	"-/3591"	"-/1196"	""	""	"rs576252294"	"1"	NA	-1	"ATP13A4"	"HGNC"	25422	"protein_coding"	"YES"	"CCDS3304.2"	"ENSP00000339182"	"Q4VNC1"	""	"UPI0000520D50"	"NM_032279.2"	""	""	""	"25/29"	""	"A:0.0168"	"A:0.0567"	"A:0.013"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"76ea758e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23728813559322	"WGS"	FALSE
"6950"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	195211836	195211836	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"37"	5	19	"19"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"76ebab52-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"6951"	"IQCG"	84223	"mskcc.org"	"GRCh37"	"3"	197619994	197619994	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.964-364A>G"	""	""	"ENST00000265239"	""	70	"64"	6	41	"41"	0	"IQCG,intron_variant,,ENST00000265239,NM_032263.3;IQCG,intron_variant,,ENST00000455191,NM_001134435.2;LRCH3,downstream_gene_variant,,ENST00000438796,;RNU6-858P,upstream_gene_variant,,ENST00000362436,;IQCG,intron_variant,,ENST00000485787,;IQCG,intron_variant,,ENST00000490748,;IQCG,intron_variant,,ENST00000478903,;"	"C"	"ENSG00000114473"	"ENST00000265239"	"Transcript"	"intron_variant"	"-/2262"	"-/1332"	"-/443"	""	""	""	"1"	NA	-1	"IQCG"	"HGNC"	25251	"protein_coding"	"YES"	"CCDS3331.1"	"ENSP00000265239"	"Q9H095"	"C9JUC1,C9J6M9"	"UPI0000037D68"	"NM_032263.3"	""	""	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"76f2e1a6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"6952"	"IQCG"	84223	"mskcc.org"	"GRCh37"	"3"	197619997	197619997	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.964-367T>C"	""	""	"ENST00000265239"	""	72	"65"	7	42	"42"	0	"IQCG,intron_variant,,ENST00000265239,NM_032263.3;IQCG,intron_variant,,ENST00000455191,NM_001134435.2;LRCH3,downstream_gene_variant,,ENST00000438796,;RNU6-858P,upstream_gene_variant,,ENST00000362436,;IQCG,intron_variant,,ENST00000485787,;IQCG,intron_variant,,ENST00000490748,;IQCG,intron_variant,,ENST00000478903,;"	"G"	"ENSG00000114473"	"ENST00000265239"	"Transcript"	"intron_variant"	"-/2262"	"-/1332"	"-/443"	""	""	""	"1"	NA	-1	"IQCG"	"HGNC"	25251	"protein_coding"	"YES"	"CCDS3331.1"	"ENSP00000265239"	"Q9H095"	"C9JUC1,C9J6M9"	"UPI0000037D68"	"NM_032263.3"	""	""	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"76f2e430-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"6953"	"CTBP1-AS2"	92070	"mskcc.org"	"GRCh37"	"4"	1266561	1266561	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2373-14832A>G"	""	""	"ENST00000578730"	""	27	"17"	10	12	"12"	0	"CTBP1-AS2,intron_variant,,ENST00000578730,;"	"G"	"ENSG00000196810"	"ENST00000578730"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2757"	""	""	""	""	""	"1"	NA	1	"CTBP1-AS2"	"HGNC"	28307	"antisense"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76f7160e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.37037037037037	"WGS"	FALSE
"6954"	"ZFYVE28"	57732	"mskcc.org"	"GRCh37"	"4"	2322485	2322485	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.702-487G>C"	""	""	"ENST00000290974"	""	88	"59"	29	46	"46"	0	"ZFYVE28,intron_variant,,ENST00000290974,NM_020972.2;ZFYVE28,intron_variant,,ENST00000511071,NM_001172656.1;ZFYVE28,intron_variant,,ENST00000515312,NM_001172659.1;RP11-478C1.7,downstream_gene_variant,,ENST00000510632,;RN7SL589P,upstream_gene_variant,,ENST00000481268,;RP11-478C1.8,upstream_gene_variant,,ENST00000506116,;"	"G"	"ENSG00000159733"	"ENST00000290974"	"Transcript"	"intron_variant"	"-/4131"	"-/2664"	"-/887"	""	""	""	"1"	NA	-1	"ZFYVE28"	"HGNC"	29334	"protein_coding"	"YES"	"CCDS33942.1"	"ENSP00000290974"	"Q9HCC9"	"Q49AA1,D6RID3"	"UPI00001C1E08"	"NM_020972.2"	""	""	""	"6/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"76f86e0a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329545454545455	"WGS"	FALSE
"6955"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	4071019	4071019	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"86"	6	54	"54"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"76fa7e8e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"6956"	"MSX1"	4487	"mskcc.org"	"GRCh37"	"4"	4856860	4856860	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000382723"	""	69	"62"	7	49	"49"	0	"MSX1,upstream_gene_variant,,ENST00000382723,NM_002448.3;RP11-326I19.3,downstream_gene_variant,,ENST00000609099,;"	"C"	"ENSG00000163132"	"ENST00000382723"	"Transcript"	"upstream_gene_variant"	"-/1939"	"-/912"	"-/303"	""	""	""	"1"	"4533"	1	"MSX1"	"HGNC"	7391	"protein_coding"	"YES"	"CCDS3378.2"	"ENSP00000372170"	"P28360"	"E9KY19,E9KY18,E9KY17,E9KY16,E9KY15,E9KY14,E9KY13,E9KY12,E9KY11,E9KY10,E9KY09,E9KY08,E9KY07,E9KY06,E9KY05,E9KY04,E9KY03,E9KY02,E9KY01,E9KY00,E9KXZ9,E9KXZ8,E9KXZ7,E9KXZ6,E9KXZ5,E9KXZ4,E9KXZ3,E9KXZ2,E9KXZ1,E9KXZ0,E9KXY9,E9KXY8,E9KXY7,E9KXY6,E9KXY5,E9KXY4,E9KXY3,E9KXY2,E9KXY1,E9KXY0,E9KXX9,E9KXX8,E9KXX7,E9KXX6,E9KXX5,E9KXX4,E9KXX3,E9KXX2,E9KXX1,E9KXX0,E9KXW9,E9KXW8,E9KXW7,E9KXW6,E9KXW5,E9KXW4,E9KXW3,E9KXW2,E9KXW1,E9KXW0,E9KXV9,E9KXV8,E9KXV7,E9KXV6,E9KXV5,E9KXV4,E9KXV3,E9KXV2,E9KXV1,E9KXV0,E9KXU9,E9KXU8,E9KXU7,E9KXU6,E9KXU5,E9KXU4,E9KXU3,E9KXU2,E9KXU1,E9KXU0,E9KXT9,E9KXT8,E9KXT7,E9KXT6,E9KXT5,E9KXT4,E9KXT3,E9KXT2,E9KXT1,E9KXT0,E9KXS9,E9KXS8,E9KXS7,E9KXS6,A0SZU5"	"UPI0000D474F4"	"NM_002448.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"76fae2de-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101449275362319	"WGS"	FALSE
"6957"	"SORCS2"	57537	"mskcc.org"	"GRCh37"	"4"	7726912	7726912	"+"	"Silent"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2643T>A"	"p.="	"p.V881V"	"ENST00000507866"	"20/27"	116	"82"	34	55	"55"	0	"SORCS2,synonymous_variant,p.=,ENST00000507866,NM_020777.2;SORCS2,synonymous_variant,p.=,ENST00000329016,;"	"A"	"ENSG00000184985"	"ENST00000507866"	"Transcript"	"synonymous_variant"	"2752/6152"	"2643/3480"	"881/1159"	"V"	"gtT/gtA"	""	"1"	NA	1	"SORCS2"	"HGNC"	16698	"protein_coding"	"YES"	"CCDS47008.1"	"ENSP00000422185"	"Q96PQ0"	""	"UPI0000EE6E4F"	"NM_020777.2"	""	""	"20/27"	""	"hmmpanther:PTHR12106,hmmpanther:PTHR12106:SF9"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"76fd6248-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293103448275862	"WGS"	FALSE
"6958"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	8921549	8921549	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"58"	28	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"76fe81f0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325581395348837	"WGS"	FALSE
"6959"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	10929508	10929508	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"62"	29	64	"64"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"77004bc0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318681318681319	"WGS"	FALSE
"6960"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	13274206	13274206	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"64"	35	52	"52"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"77012360-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.353535353535354	"WGS"	FALSE
"6961"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	15881958	15881958	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"70"	31	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7701e94e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306930693069307	"WGS"	FALSE
"6962"	"QDPR"	5860	"mskcc.org"	"GRCh37"	"4"	17483807	17483807	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"rs200457186"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000281243"	""	104	"98"	6	50	"50"	0	"QDPR,intron_variant,,ENST00000513615,;QDPR,downstream_gene_variant,,ENST00000281243,NM_000320.2;QDPR,downstream_gene_variant,,ENST00000428702,;QDPR,downstream_gene_variant,,ENST00000508623,;QDPR,downstream_gene_variant,,ENST00000507439,;QDPR,downstream_gene_variant,,ENST00000501943,;QDPR,downstream_gene_variant,,ENST00000514300,;"	"T"	"ENSG00000151552"	"ENST00000281243"	"Transcript"	"downstream_gene_variant"	"-/1648"	"-/735"	"-/244"	""	""	"rs200457186"	"1"	"4214"	-1	"QDPR"	"HGNC"	9752	"protein_coding"	"YES"	"CCDS3421.1"	"ENSP00000281243"	"P09417"	""	"UPI0000111B0A"	"NM_000320.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"77026f18-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0576923076923077	"WGS"	FALSE
"6963"	"RP11-608O21.1"	0	"mskcc.org"	"GRCh37"	"4"	19515573	19515573	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.218-19598A>G"	""	""	"ENST00000511431"	""	90	"65"	25	52	"52"	0	"RP11-608O21.1,intron_variant,,ENST00000511431,;"	"G"	"ENSG00000248515"	"ENST00000511431"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/889"	""	""	""	""	""	"1"	NA	1	"RP11-608O21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"770309a0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"6964"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	20140839	20140839	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"70"	29	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"77032cbe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292929292929293	"WGS"	FALSE
"6965"	"KCNIP4"	80333	"mskcc.org"	"GRCh37"	"4"	21150830	21150830	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.62-266498A>G"	""	""	"ENST00000382152"	""	113	"83"	30	62	"62"	0	"KCNIP4,intron_variant,,ENST00000382148,NM_001035003.1;KCNIP4,intron_variant,,ENST00000382152,NM_025221.5;KCNIP4,intron_variant,,ENST00000382150,NM_147183.3;KCNIP4,intron_variant,,ENST00000447367,NM_147182.3,NM_147181.3;KCNIP4,intron_variant,,ENST00000509207,NM_001035004.1;KCNIP4,intron_variant,,ENST00000515786,;"	"C"	"ENSG00000185774"	"ENST00000382152"	"Transcript"	"intron_variant"	"-/1767"	"-/753"	"-/250"	""	""	""	"1"	NA	-1	"KCNIP4"	"HGNC"	30083	"protein_coding"	"YES"	"CCDS43216.1"	"ENSP00000371587"	"Q6PIL6"	""	"UPI000004A274"	"NM_025221.5"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"770379ee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265486725663717	"WGS"	FALSE
"6966"	"RP11-17E2.2"	0	"mskcc.org"	"GRCh37"	"4"	21975734	21975734	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.445+24652G>T"	""	""	"ENST00000510705"	""	111	"78"	33	57	"57"	0	"RP11-17E2.2,intron_variant,,ENST00000510705,;"	"T"	"ENSG00000250039"	"ENST00000510705"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1874"	""	""	""	""	""	"1"	NA	1	"RP11-17E2.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7703bd6e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297297297297297	"WGS"	FALSE
"6967"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	24227161	24227161	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"rs202162933"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"87"	9	37	"37"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs202162933"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0038"	"C:0.0113"	"C:0.0029"	NA	"C:0.001"	"C:0"	"C:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"77045170-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"6968"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	24698993	24698993	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"56"	31	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"770499be-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35632183908046	"WGS"	FALSE
"6969"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	25104584	25104584	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	45	"38"	7	26	"26"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"7704c542-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155555555555556	"WGS"	FALSE
"6970"	"SEL1L3"	23231	"mskcc.org"	"GRCh37"	"4"	25777460	25777460	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2669+439A>T"	""	""	"ENST00000399878"	""	98	"93"	5	63	"63"	0	"SEL1L3,intron_variant,,ENST00000399878,NM_015187.3;SEL1L3,intron_variant,,ENST00000264868,;SEL1L3,intron_variant,,ENST00000502949,;SEL1L3,downstream_gene_variant,,ENST00000514321,;RP11-302F12.10,downstream_gene_variant,,ENST00000510905,;SEL1L3,intron_variant,,ENST00000509290,;"	"A"	"ENSG00000091490"	"ENST00000399878"	"Transcript"	"intron_variant"	"-/4514"	"-/3399"	"-/1132"	""	""	""	"1"	NA	-1	"SEL1L3"	"HGNC"	29108	"protein_coding"	"YES"	"CCDS47037.1"	"ENSP00000382767"	"Q68CR1"	"D6RF11,D6RDH1,D6RCE1,B4DTH5"	"UPI00001D7736"	"NM_015187.3"	""	""	""	"17/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"77051a24-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0510204081632653	"WGS"	FALSE
"6971"	"TBC1D19"	55296	"mskcc.org"	"GRCh37"	"4"	26599219	26599219	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.99+13305C>T"	""	""	"ENST00000264866"	""	98	"64"	34	66	"66"	0	"TBC1D19,intron_variant,,ENST00000264866,NM_018317.2;TBC1D19,intron_variant,,ENST00000511789,;TBC1D19,intron_variant,,ENST00000512840,;TBC1D19,intron_variant,,ENST00000505206,;TBC1D19,intron_variant,,ENST00000513596,;TBC1D19,intron_variant,,ENST00000513455,;TBC1D19,intron_variant,,ENST00000515568,;TBC1D19,intron_variant,,ENST00000504442,;TBC1D19,intron_variant,,ENST00000502873,;"	"T"	"ENSG00000109680"	"ENST00000264866"	"Transcript"	"intron_variant"	"-/2263"	"-/1581"	"-/526"	""	""	""	"1"	NA	1	"TBC1D19"	"HGNC"	25624	"protein_coding"	"YES"	"CCDS3439.1"	"ENSP00000264866"	"Q8N5T2"	""	"UPI000004A0E3"	"NM_018317.2"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"7705d07c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346938775510204	"WGS"	FALSE
"6972"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	27546624	27546624	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"72"	31	55	"54"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"77061da2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.300970873786408	"WGS"	FALSE
"6973"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	28107817	28107817	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"85"	8	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7706408e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0860215053763441	"WGS"	FALSE
"6974"	"RP11-180C1.1"	0	"mskcc.org"	"GRCh37"	"4"	28407308	28407308	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000507759"	""	114	"83"	31	66	"66"	0	"RP11-180C1.1,upstream_gene_variant,,ENST00000515720,;RP11-180C1.1,upstream_gene_variant,,ENST00000507759,;"	"A"	"ENSG00000250038"	"ENST00000507759"	"Transcript"	"upstream_gene_variant"	"-/726"	"-/309"	"-/102"	""	""	""	"1"	"2985"	-1	"RP11-180C1.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000426781"	""	"D6REK9"	"UPI0000161302"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7706568c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271929824561404	"WGS"	FALSE
"6975"	"RP11-472K22.2"	0	"mskcc.org"	"GRCh37"	"4"	29224218	29224218	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000512268"	""	94	"89"	5	67	"67"	0	"RP11-472K22.2,downstream_gene_variant,,ENST00000512268,;"	"A"	"ENSG00000248338"	"ENST00000512268"	"Transcript"	"downstream_gene_variant"	"-/575"	""	""	""	""	""	"1"	"1434"	1	"RP11-472K22.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"770699a8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0531914893617021	"WGS"	FALSE
"6976"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	30150445	30150445	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"67"	43	65	"65"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"7706db34-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.390909090909091	"WGS"	FALSE
"6977"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	30212663	30212663	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"88"	32	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7706de04-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"6978"	"RP11-617I14.1"	0	"mskcc.org"	"GRCh37"	"4"	31205007	31205007	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.382+6924G>A"	""	""	"ENST00000515292"	""	77	"52"	25	39	"39"	0	"RP11-617I14.1,intron_variant,,ENST00000515292,;"	"A"	"ENSG00000251182"	"ENST00000515292"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/507"	""	""	""	""	""	"1"	NA	1	"RP11-617I14.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"770737f0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324675324675325	"WGS"	FALSE
"6979"	"RP11-734I18.1"	0	"mskcc.org"	"GRCh37"	"4"	32050575	32050575	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.426+51131A>T"	""	""	"ENST00000513211"	""	103	"75"	28	52	"52"	0	"RP11-734I18.1,intron_variant,,ENST00000513211,;"	"T"	"ENSG00000251129"	"ENST00000513211"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/734"	""	""	""	""	""	"1"	NA	1	"RP11-734I18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"77077922-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271844660194175	"WGS"	FALSE
"6980"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	32327698	32327698	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"73"	8	35	"35"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"770793ee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0987654320987654	"WGS"	FALSE
"6981"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	32568811	32568811	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"104"	6	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"7707ac62-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0545454545454545	"WGS"	FALSE
"6982"	"RP11-79E3.2"	0	"mskcc.org"	"GRCh37"	"4"	33894156	33894156	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.181+3461C>T"	""	""	"ENST00000506650"	""	118	"76"	42	53	"53"	0	"RP11-79E3.2,intron_variant,,ENST00000506650,;RP11-79E3.2,intron_variant,,ENST00000505326,;RP11-79E3.3,intron_variant,,ENST00000512581,;RP11-79E3.2,intron_variant,,ENST00000515733,;RP11-79E3.3,downstream_gene_variant,,ENST00000505018,;RP11-79E3.2,downstream_gene_variant,,ENST00000504795,;"	"T"	"ENSG00000250723"	"ENST00000506650"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/578"	""	""	""	""	""	"1"	NA	1	"RP11-79E3.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"770813c8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355932203389831	"WGS"	FALSE
"6983"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	34437210	34437210	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"79"	34	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"77082c82-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.300884955752212	"WGS"	FALSE
"6984"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	35563689	35563689	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"77"	41	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"77087a0c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347457627118644	"WGS"	FALSE
"6985"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	36892997	36892997	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"71"	27	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7708d146-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275510204081633	"WGS"	FALSE
"6986"	"KIAA1239"	57495	"mskcc.org"	"GRCh37"	"4"	37273850	37273850	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.151+27010G>A"	""	""	"ENST00000309447"	""	112	"82"	30	56	"56"	0	"KIAA1239,intron_variant,,ENST00000309447,NM_001144990.1;"	"A"	"ENSG00000174145"	"ENST00000309447"	"Transcript"	"intron_variant"	"-/8325"	"-/5229"	"-/1742"	""	""	""	"1"	NA	1	"KIAA1239"	"HGNC"	29229	"protein_coding"	"YES"	"CCDS47040.1"	"ENSP00000309501"	"Q9ULI1"	""	"UPI00006C0875"	"NM_001144990.1"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7708eeb0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267857142857143	"WGS"	FALSE
"6987"	"TLR6"	10333	"mskcc.org"	"GRCh37"	"4"	38854215	38854215	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-65+4167T>C"	""	""	"ENST00000436693"	""	101	"81"	20	60	"60"	0	"TLR6,intron_variant,,ENST00000436693,NM_006068.4;TLR6,intron_variant,,ENST00000508254,;TLR1,intron_variant,,ENST00000506146,;TLR6,intron_variant,,ENST00000514655,;"	"G"	"ENSG00000174130"	"ENST00000436693"	"Transcript"	"intron_variant"	"-/5879"	"-/2391"	"-/796"	""	""	""	"1"	NA	-1	"TLR6"	"HGNC"	16711	"protein_coding"	"YES"	"CCDS3446.1"	"ENSP00000389600"	"Q9Y2C9"	"D6RAV7,D6R979"	"UPI000013EE02"	"NM_006068.4"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"7709b28c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.198019801980198	"WGS"	FALSE
"6988"	"KLHL5"	51088	"mskcc.org"	"GRCh37"	"4"	39081200	39081200	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs186257791"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.705-1523C>T"	""	""	"ENST00000504108"	""	96	"90"	6	50	"50"	0	"KLHL5,intron_variant,,ENST00000261425,NM_001007075.2;KLHL5,intron_variant,,ENST00000261426,NM_199039.3;KLHL5,intron_variant,,ENST00000381930,;KLHL5,intron_variant,,ENST00000508137,NM_001171654.1;KLHL5,intron_variant,,ENST00000504108,NM_015990.4;KLHL5,intron_variant,,ENST00000359687,;KLHL5,intron_variant,,ENST00000514399,;"	"T"	"ENSG00000109790"	"ENST00000504108"	"Transcript"	"intron_variant"	"-/2690"	"-/2268"	"-/755"	""	""	"rs186257791"	"1"	NA	1	"KLHL5"	"HGNC"	6356	"protein_coding"	"YES"	"CCDS33974.1"	"ENSP00000423897"	"Q96PQ7"	"Q642I3"	"UPI000013D185"	"NM_015990.4"	""	""	""	"2/10"	""	"T:0.0008"	"T:0"	"T:0"	NA	"T:0.004"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7709ca92-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"6989"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	40673139	40673139	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs561146309"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"51"	18	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs561146309"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"770aeff8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"6990"	"ENSR00001430841"	0	"mskcc.org"	"GRCh37"	"4"	40685407	40685407	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001430841"	""	98	"90"	8	36	"36"	0	""	"G"	""	"ENSR00001430841"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"770af1ec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WGS"	FALSE
"6991"	"LIMCH1"	22998	"mskcc.org"	"GRCh37"	"4"	41693714	41693714	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3124-585A>C"	""	""	"ENST00000313860"	""	103	"64"	39	52	"52"	0	"LIMCH1,intron_variant,,ENST00000313860,NM_014988.2;LIMCH1,intron_variant,,ENST00000396595,NM_001112719.1;LIMCH1,intron_variant,,ENST00000381753,NM_001112720.1;LIMCH1,intron_variant,,ENST00000503057,;LIMCH1,intron_variant,,ENST00000513024,;LIMCH1,intron_variant,,ENST00000512820,;LIMCH1,intron_variant,,ENST00000512946,NM_001112717.1;LIMCH1,intron_variant,,ENST00000508501,NM_001112718.1;LIMCH1,intron_variant,,ENST00000512632,;LIMCH1,intron_variant,,ENST00000514096,;LIMCH1,intron_variant,,ENST00000509277,;LIMCH1,intron_variant,,ENST00000511496,;LIMCH1,intron_variant,,ENST00000508466,;RP11-227F19.5,intron_variant,,ENST00000506475,;LIMCH1,upstream_gene_variant,,ENST00000515785,;LIMCH1,upstream_gene_variant,,ENST00000505705,;"	"C"	"ENSG00000064042"	"ENST00000313860"	"Transcript"	"intron_variant"	"-/6165"	"-/3252"	"-/1083"	""	""	""	"1"	NA	1	"LIMCH1"	"HGNC"	29191	"protein_coding"	"YES"	"CCDS33977.1"	"ENSP00000316891"	"Q9UPQ0"	"D6RJ93,D6RGH8,D6R8Y0"	"UPI0000D61554"	"NM_014988.2"	""	""	""	"25/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"770b69b0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.378640776699029	"WGS"	FALSE
"6992"	"GRXCR1"	389207	"mskcc.org"	"GRCh37"	"4"	42909580	42909580	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.384+13913G>A"	""	""	"ENST00000399770"	""	109	"101"	8	56	"56"	0	"GRXCR1,intron_variant,,ENST00000399770,NM_001080476.2;"	"A"	"ENSG00000215203"	"ENST00000399770"	"Transcript"	"intron_variant"	"-/991"	"-/873"	"-/290"	""	""	""	"1"	NA	1	"GRXCR1"	"HGNC"	31673	"protein_coding"	"YES"	"CCDS43225.1"	"ENSP00000382670"	"A8MXD5"	""	"UPI00004191A5"	"NM_001080476.2"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"770bd1f2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.073394495412844	"WGS"	FALSE
"6993"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	44169593	44169593	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs144141434"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"72"	36	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144141434"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0108"	"A:0.0038"	"A:0"	NA	"A:0.0466"	"A:0"	"A:0.002"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"770c2cf6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"6994"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	44976812	44976812	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"78"	39	56	"56"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"770c4f7e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"6995"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	45724855	45724855	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"50"	25	39	"39"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"770c8ba6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"6996"	"GABRB1"	2560	"mskcc.org"	"GRCh37"	"4"	47011127	47011127	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-20+15184C>G"	""	""	"ENST00000513567"	""	76	"69"	7	60	"60"	0	"GABRB1,intron_variant,,ENST00000513567,;"	"G"	"ENSG00000163288"	"ENST00000513567"	"Transcript"	"intron_variant"	"-/576"	"-/353"	"-/117"	""	""	""	"1"	NA	1	"GABRB1"	"HGNC"	4081	"protein_coding"	""	""	"ENSP00000426753"	""	"D6REM0"	"UPI0001D3B38A"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"770ce1f0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"6997"	"GABRB1"	2560	"mskcc.org"	"GRCh37"	"4"	47011140	47011140	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-20+15197C>G"	""	""	"ENST00000513567"	""	82	"76"	6	66	"66"	0	"GABRB1,intron_variant,,ENST00000513567,;"	"G"	"ENSG00000163288"	"ENST00000513567"	"Transcript"	"intron_variant"	"-/576"	"-/353"	"-/117"	""	""	""	"1"	NA	1	"GABRB1"	"HGNC"	4081	"protein_coding"	""	""	"ENSP00000426753"	""	"D6REM0"	"UPI0001D3B38A"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"770ce31c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"6998"	"CORIN"	10699	"mskcc.org"	"GRCh37"	"4"	47844073	47844073	"+"	"5'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000273857"	""	83	"61"	22	52	"52"	0	"CORIN,upstream_gene_variant,,ENST00000273857,NM_006587.3;CORIN,upstream_gene_variant,,ENST00000502252,NM_001278585.1;CORIN,upstream_gene_variant,,ENST00000505909,;CORIN,upstream_gene_variant,,ENST00000504584,NM_001278586.1;RP11-121C2.2,non_coding_transcript_exon_variant,,ENST00000563286,;CORIN,upstream_gene_variant,,ENST00000510974,;CORIN,upstream_gene_variant,,ENST00000502726,;CORIN,upstream_gene_variant,,ENST00000503821,;"	"C"	"ENSG00000145244"	"ENST00000273857"	"Transcript"	"upstream_gene_variant"	"-/4852"	"-/3129"	"-/1042"	""	""	""	"1"	"4107"	-1	"CORIN"	"HGNC"	19012	"protein_coding"	"YES"	"CCDS3477.1"	"ENSP00000273857"	"Q9Y5Q5"	"Q8IZR7,E7EQE7"	"UPI0000168657"	"NM_006587.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"770d4064-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265060240963855	"WGS"	FALSE
"6999"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	48312723	48312723	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"86"	26	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"770d77be-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232142857142857	"WGS"	FALSE
"7000"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	49134877	49134877	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"35"	3	16	"16"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"77111c34-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"7001"	"PDGFRA"	5156	"mskcc.org"	"GRCh37"	"4"	55104394	55104394	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-13+8812T>C"	""	""	"ENST00000257290"	""	105	"78"	27	55	"55"	0	"PDGFRA,intron_variant,,ENST00000257290,NM_006206.4;FIP1L1,intron_variant,,ENST00000507166,;PDGFRA,intron_variant,,ENST00000508170,;PDGFRA,intron_variant,,ENST00000504461,;PDGFRA,intron_variant,,ENST00000503856,;PDGFRA,intron_variant,,ENST00000512143,;PDGFRA,intron_variant,,ENST00000509490,;PDGFRA,intron_variant,,ENST00000509092,;"	"C"	"ENSG00000134853"	"ENST00000257290"	"Transcript"	"intron_variant"	"-/6576"	"-/3270"	"-/1089"	""	""	""	"1"	NA	1	"PDGFRA"	"HGNC"	8803	"protein_coding"	"YES"	"CCDS3495.1"	"ENSP00000257290"	"P16234"	"D6RIG5,D6RG11,D6RDX0"	"UPI0000131793"	"NM_006206.4"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"771eb6aa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257142857142857	"WGS"	TRUE
"7002"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	55913256	55913256	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"89"	6	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"771ef264-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0631578947368421	"WGS"	FALSE
"7003"	"KIAA1211"	57482	"mskcc.org"	"GRCh37"	"4"	57054435	57054435	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-189+8839T>C"	""	""	"ENST00000264229"	""	102	"92"	10	42	"42"	0	"KIAA1211,intron_variant,,ENST00000264229,NM_020722.1;"	"C"	"ENSG00000109265"	"ENST00000264229"	"Transcript"	"intron_variant"	"-/4109"	"-/3702"	"-/1233"	""	""	""	"1"	NA	1	"KIAA1211"	"HGNC"	29219	"protein_coding"	""	"CCDS43230.1"	"ENSP00000264229"	"Q6ZU35"	""	"UPI0000237309"	"NM_020722.1"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"771f542a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0980392156862745	"WGS"	FALSE
"7004"	"HOPX"	84525	"mskcc.org"	"GRCh37"	"4"	57510537	57510537	"+"	"3'Flank"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000554144"	""	81	"61"	20	51	"50"	1	"HOPX,downstream_gene_variant,,ENST00000554144,NM_001145460.1;HOPX,downstream_gene_variant,,ENST00000337881,NM_139212.3;HOPX,downstream_gene_variant,,ENST00000420433,NM_032495.5;HOPX,downstream_gene_variant,,ENST00000503639,;HOPX,downstream_gene_variant,,ENST00000381255,NM_001145459.1;HOPX,downstream_gene_variant,,ENST00000555760,;HOPX,downstream_gene_variant,,ENST00000381260,;HOPX,downstream_gene_variant,,ENST00000556614,NM_139211.4;HOPX,downstream_gene_variant,,ENST00000317745,;HOPX,downstream_gene_variant,,ENST00000508121,;HOPX,downstream_gene_variant,,ENST00000556376,;HOPX,downstream_gene_variant,,ENST00000553379,;HOPX,downstream_gene_variant,,ENST00000503864,;"	"C"	"ENSG00000171476"	"ENST00000554144"	"Transcript"	"downstream_gene_variant"	"-/1672"	"-/339"	"-/112"	""	""	""	"1"	"3618"	-1	"HOPX"	"HGNC"	24961	"protein_coding"	"YES"	"CCDS54767.1"	"ENSP00000450527"	"Q9BPY8"	"G3V469"	"UPI000194EC25"	"NM_001145460.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"771f7932-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246913580246914	"WGS"	FALSE
"7005"	"RP11-340A13.3"	0	"mskcc.org"	"GRCh37"	"4"	59942372	59942372	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000502668"	""	101	"94"	7	51	"51"	0	"RP11-340A13.3,upstream_gene_variant,,ENST00000502668,;"	"A"	"ENSG00000250375"	"ENST00000502668"	"Transcript"	"upstream_gene_variant"	"-/305"	""	""	""	""	""	"1"	"1398"	-1	"RP11-340A13.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"77203e9e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0693069306930693	"WGS"	FALSE
"7006"	"RPL21P47"	0	"mskcc.org"	"GRCh37"	"4"	63113267	63113267	"+"	"5'Flank"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000483696"	""	101	"70"	31	54	"54"	0	"RPL21P47,upstream_gene_variant,,ENST00000483696,;"	"G"	"ENSG00000241344"	"ENST00000483696"	"Transcript"	"upstream_gene_variant"	"-/477"	""	""	""	""	""	"1"	"745"	1	"RPL21P47"	"HGNC"	36711	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"77213f9c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306930693069307	"WGS"	FALSE
"7007"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	63826601	63826601	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"72"	23	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"77217462-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242105263157895	"WGS"	FALSE
"7008"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	63847011	63847011	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"76"	33	44	"44"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"77217570-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302752293577982	"WGS"	FALSE
"7009"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	64015640	64015640	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"97"	7	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"77218376-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0673076923076923	"WGS"	FALSE
"7010"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	64719555	64719555	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"62"	25	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7721af0e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28735632183908	"WGS"	FALSE
"7011"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	67032174	67032174	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"64"	37	67	"67"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"77226d22-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.366336633663366	"WGS"	FALSE
"7012"	"UBA6-AS1"	550112	"mskcc.org"	"GRCh37"	"4"	68641597	68641597	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1905+20624T>C"	""	""	"ENST00000500538"	""	90	"55"	35	57	"57"	0	"UBA6-AS1,intron_variant,,ENST00000500538,;UBA6-AS1,intron_variant,,ENST00000502758,;TMPRSS11CP,upstream_gene_variant,,ENST00000453277,;"	"C"	"ENSG00000248049"	"ENST00000500538"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3352"	""	""	""	""	""	"1"	NA	1	"UBA6-AS1"	"HGNC"	49083	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7722e7c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388888888888889	"WGS"	FALSE
"7013"	"CSN1S2AP"	286828	"mskcc.org"	"GRCh37"	"4"	70942057	70942057	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.284+2072G>T"	""	""	"ENST00000451783"	""	93	"88"	5	48	"48"	0	"CSN1S2AP,intron_variant,,ENST00000451783,;CSN1S2AP,intron_variant,,ENST00000512167,;CSN1S2AP,intron_variant,,ENST00000503711,;"	"T"	"ENSG00000234124"	"ENST00000451783"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/779"	""	""	""	""	""	"1"	NA	1	"CSN1S2AP"	"HGNC"	20230	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"8/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"77239a6c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0537634408602151	"WGS"	FALSE
"7014"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	71922644	71922644	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"52"	5	30	"30"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7723f5ca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087719298245614	"WGS"	FALSE
"7015"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	72045281	72045281	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"93"	9	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7724075e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"7016"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	72593534	72593534	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"76"	27	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"77242a2c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.262135922330097	"WGS"	FALSE
"7017"	"MTHFD2L"	441024	"mskcc.org"	"GRCh37"	"4"	75001561	75001561	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs575363114"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-297+10327C>T"	""	""	"ENST00000433372"	""	99	"74"	25	60	"60"	0	"MTHFD2L,intron_variant,,ENST00000433372,;MTHFD2L,intron_variant,,ENST00000429519,;MTHFD2L,intron_variant,,ENST00000475291,;MTHFD2L,intron_variant,,ENST00000429335,;MTHFD2L,intron_variant,,ENST00000490698,;"	"T"	"ENSG00000163738"	"ENST00000433372"	"Transcript"	"intron_variant"	"-/1407"	"-/441"	"-/146"	""	""	"rs575363114"	"1"	NA	1	"MTHFD2L"	"HGNC"	31865	"protein_coding"	""	""	"ENSP00000405692"	"Q9H903"	"Q4W5I6"	"UPI000006CE27"	""	""	""	""	"1/7"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7724ed4a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252525252525253	"WGS"	FALSE
"7018"	"PARM1"	25849	"mskcc.org"	"GRCh37"	"4"	75886856	75886856	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.43+28276A>C"	""	""	"ENST00000307428"	""	115	"70"	45	55	"54"	1	"PARM1,intron_variant,,ENST00000307428,NM_015393.3;PARM1,intron_variant,,ENST00000513238,;RP11-44F21.3,intron_variant,,ENST00000508031,;RP11-44F21.3,downstream_gene_variant,,ENST00000507517,;"	"C"	"ENSG00000169116"	"ENST00000307428"	"Transcript"	"intron_variant"	"-/5011"	"-/933"	"-/310"	""	""	""	"1"	NA	1	"PARM1"	"HGNC"	24536	"protein_coding"	"YES"	"CCDS47077.1"	"ENSP00000370224"	"Q6UWI2"	""	"UPI000004457B"	"NM_015393.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"77252b0c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.391304347826087	"WGS"	FALSE
"7019"	"USO1"	8615	"mskcc.org"	"GRCh37"	"4"	76709467	76709467	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1002+1112C>A"	""	""	"ENST00000538159"	""	84	"77"	7	32	"32"	0	"USO1,intron_variant,,ENST00000264904,NM_003715.2;USO1,intron_variant,,ENST00000538159,;USO1,intron_variant,,ENST00000514213,;USO1,upstream_gene_variant,,ENST00000441296,;"	"A"	"ENSG00000138768"	"ENST00000538159"	"Transcript"	"intron_variant"	"-/2916"	"-/2916"	"-/971"	""	""	""	"1"	NA	1	"USO1"	"HGNC"	30904	"protein_coding"	"YES"	""	"ENSP00000440586"	""	"S4R3X6,F5GYR8"	"UPI0000D6157A"	""	""	""	""	"10/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7725875a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"7020"	"USO1"	8615	"mskcc.org"	"GRCh37"	"4"	76709469	76709469	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1002+1114C>T"	""	""	"ENST00000538159"	""	83	"76"	7	33	"33"	0	"USO1,intron_variant,,ENST00000264904,NM_003715.2;USO1,intron_variant,,ENST00000538159,;USO1,intron_variant,,ENST00000514213,;USO1,upstream_gene_variant,,ENST00000441296,;"	"T"	"ENSG00000138768"	"ENST00000538159"	"Transcript"	"intron_variant"	"-/2916"	"-/2916"	"-/971"	""	""	""	"1"	NA	1	"USO1"	"HGNC"	30904	"protein_coding"	"YES"	""	"ENSP00000440586"	""	"S4R3X6,F5GYR8"	"UPI0000D6157A"	""	""	""	""	"10/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7725885e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"7021"	"ANTXR2"	118429	"mskcc.org"	"GRCh37"	"4"	80900976	80900976	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1180-1648A>T"	""	""	"ENST00000307333"	""	115	"83"	32	56	"56"	0	"ANTXR2,intron_variant,,ENST00000403729,NM_058172.5;ANTXR2,intron_variant,,ENST00000307333,NM_001145794.1;ANTXR2,intron_variant,,ENST00000404191,NM_001286780.1,NM_001286781.1;ANTXR2,intron_variant,,ENST00000346652,;ANTXR2,intron_variant,,ENST00000449651,;"	"A"	"ENSG00000163297"	"ENST00000307333"	"Transcript"	"intron_variant"	"-/1473"	"-/1470"	"-/489"	""	""	""	"1"	NA	-1	"ANTXR2"	"HGNC"	21732	"protein_coding"	"YES"	"CCDS47086.1"	"ENSP00000306185"	"P58335"	""	"UPI000036725D"	"NM_001145794.1"	""	""	""	"14/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"7726e564-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278260869565217	"WGS"	FALSE
"7022"	"C4orf22"	255119	"mskcc.org"	"GRCh37"	"4"	81644767	81644767	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.384+115230A>T"	""	""	"ENST00000508675"	""	99	"65"	34	54	"54"	0	"C4orf22,intron_variant,,ENST00000358105,NM_152770.2;C4orf22,intron_variant,,ENST00000508675,NM_001206997.1;C4orf22,intron_variant,,ENST00000502497,;C4orf22,intron_variant,,ENST00000513920,;"	"T"	"ENSG00000197826"	"ENST00000508675"	"Transcript"	"intron_variant"	"-/753"	"-/753"	"-/250"	""	""	""	"1"	NA	1	"C4orf22"	"HGNC"	28554	"protein_coding"	"YES"	"CCDS56336.1"	"ENSP00000425786"	"Q6V702"	""	"UPI0000D61589"	"NM_001206997.1"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"77271d54-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.343434343434343	"WGS"	FALSE
"7023"	"PRKG2"	5593	"mskcc.org"	"GRCh37"	"4"	82102865	82102865	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"rs200348690"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.462-6752A>T"	""	""	"ENST00000395578"	""	109	"104"	5	69	"69"	0	"PRKG2,intron_variant,,ENST00000395578,;PRKG2,intron_variant,,ENST00000264399,NM_006259.1;PRKG2,intron_variant,,ENST00000418486,NM_001282485.1;RP11-100N20.1,intron_variant,,ENST00000512502,;RP11-100N20.1,intron_variant,,ENST00000505175,;"	"A"	"ENSG00000138669"	"ENST00000395578"	"Transcript"	"intron_variant"	"-/3431"	"-/2289"	"-/762"	""	""	"rs200348690"	"1"	NA	-1	"PRKG2"	"HGNC"	9416	"protein_coding"	"YES"	"CCDS3589.1"	"ENSP00000378945"	"Q13237"	"B7ZA25"	"UPI000012DDC6"	""	""	""	""	"2/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"77274400-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0458715596330275	"WGS"	FALSE
"7024"	"RP11-8L2.1"	101928978	"mskcc.org"	"GRCh37"	"4"	85010740	85010740	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"rs186027366"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.701+58460G>T"	""	""	"ENST00000508406"	""	119	"80"	39	60	"60"	0	"RP11-8L2.1,intron_variant,,ENST00000508406,;RP11-8L2.1,intron_variant,,ENST00000513489,;"	"A"	"ENSG00000250546"	"ENST00000508406"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2795"	""	""	""	""	"rs186027366"	"1"	NA	-1	"RP11-8L2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"6/7"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"77288cac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.327731092436975	"WGS"	FALSE
"7025"	"ARHGAP24"	83478	"mskcc.org"	"GRCh37"	"4"	86604264	86604264	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.181-38774G>T"	""	""	"ENST00000395184"	""	80	"72"	8	46	"46"	0	"ARHGAP24,intron_variant,,ENST00000395184,NM_001025616.2,NM_001287805.1;ARHGAP24,intron_variant,,ENST00000503995,;ARHGAP24,intron_variant,,ENST00000512201,;ARHGAP24,intron_variant,,ENST00000506421,;ARHGAP24,intron_variant,,ENST00000509709,;"	"T"	"ENSG00000138639"	"ENST00000395184"	"Transcript"	"intron_variant"	"-/4661"	"-/2247"	"-/748"	""	""	""	"1"	NA	1	"ARHGAP24"	"HGNC"	25361	"protein_coding"	"YES"	"CCDS34025.1"	"ENSP00000378611"	"Q8N264"	"D6RHH1,B3KUX7"	"UPI00001AF1D9"	"NM_001025616.2,NM_001287805.1"	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"7729240a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"7026"	"PKD2"	5311	"mskcc.org"	"GRCh37"	"4"	88980181	88980181	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2019+926A>G"	""	""	"ENST00000237596"	""	101	"75"	26	56	"56"	0	"PKD2,intron_variant,,ENST00000237596,NM_000297.3;PKD2,intron_variant,,ENST00000508588,;PKD2,intron_variant,,ENST00000502363,;PKD2,intron_variant,,ENST00000511337,;PKD2,intron_variant,,ENST00000512858,;"	"G"	"ENSG00000118762"	"ENST00000237596"	"Transcript"	"intron_variant"	"-/5056"	"-/2907"	"-/968"	""	""	""	"1"	NA	1	"PKD2"	"HGNC"	9009	"protein_coding"	"YES"	"CCDS3627.1"	"ENSP00000237596"	"Q13563"	"Q9UEU6,B7Z2D4,B4DFN3,B4DE45"	"UPI000013CA1D"	"NM_000297.3"	""	""	""	"9/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"772a1874-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257425742574257	"WGS"	FALSE
"7027"	"RP11-10L7.1"	101929118	"mskcc.org"	"GRCh37"	"4"	89234704	89234704	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.196+1681G>A"	""	""	"ENST00000500009"	""	62	"45"	17	53	"53"	0	"RP11-10L7.1,intron_variant,,ENST00000500009,;"	"A"	"ENSG00000246375"	"ENST00000500009"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1654"	""	""	""	""	""	"1"	NA	1	"RP11-10L7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"772a3890-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274193548387097	"WGS"	FALSE
"7028"	"SNCA"	6622	"mskcc.org"	"GRCh37"	"4"	90647463	90647463	"+"	"3'UTR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*316T>G"	""	""	"ENST00000394986"	"6/6"	103	"72"	31	45	"45"	0	"SNCA,3_prime_UTR_variant,,ENST00000394989,;SNCA,3_prime_UTR_variant,,ENST00000420646,NM_007308.2,NM_001146054.1;SNCA,3_prime_UTR_variant,,ENST00000394986,;SNCA,3_prime_UTR_variant,,ENST00000394991,NM_000345.3;SNCA,3_prime_UTR_variant,,ENST00000345009,;SNCA,3_prime_UTR_variant,,ENST00000336904,NM_001146055.1;SNCA,3_prime_UTR_variant,,ENST00000508895,;SNCA,downstream_gene_variant,,ENST00000506244,;SNCA,downstream_gene_variant,,ENST00000505199,;RP11-115D19.1,intron_variant,,ENST00000508021,;"	"C"	"ENSG00000145335"	"ENST00000394986"	"Transcript"	"3_prime_UTR_variant"	"1161/1420"	"-/423"	"-/140"	""	""	""	"1"	NA	-1	"SNCA"	"HGNC"	11138	"protein_coding"	"YES"	"CCDS3634.1"	"ENSP00000378437"	"P37840"	"Q4W5L2,F6L6N6,D6RA31"	"UPI000003173B"	""	""	""	"6/6"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAC"	"772aa6e0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.300970873786408	"WGS"	FALSE
"7029"	"CCSER1"	401145	"mskcc.org"	"GRCh37"	"4"	91546963	91546963	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1725-2213A>T"	""	""	"ENST00000509176"	""	61	"57"	4	24	"24"	0	"CCSER1,intron_variant,,ENST00000509176,NM_001145065.1;CCSER1,intron_variant,,ENST00000432775,NM_207491.2;CCSER1,intron_variant,,ENST00000333691,;CCSER1,intron_variant,,ENST00000505073,;CCSER1,upstream_gene_variant,,ENST00000502478,;CCSER1,upstream_gene_variant,,ENST00000513522,;"	"T"	"ENSG00000184305"	"ENST00000509176"	"Transcript"	"intron_variant"	"-/5847"	"-/2703"	"-/900"	""	""	""	"1"	NA	1	"CCSER1"	"HGNC"	29349	"protein_coding"	"YES"	"CCDS47099.1"	"ENSP00000425040"	"Q9C0I3"	""	"UPI00005A6104"	"NM_001145065.1"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"772af726-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0655737704918033	"WGS"	FALSE
"7030"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	92576425	92576425	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"80"	5	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"772b3dee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"7031"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	92689859	92689859	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"58"	30	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"772b4870-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340909090909091	"WGS"	FALSE
"7032"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	92763493	92763493	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs540136508"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"80"	33	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs540136508"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"772b4f8c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292035398230089	"WGS"	FALSE
"7033"	"RP11-354O24.1"	0	"mskcc.org"	"GRCh37"	"4"	92822103	92822103	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.488-3294C>T"	""	""	"ENST00000505511"	""	106	"81"	25	50	"50"	0	"RP11-354O24.1,intron_variant,,ENST00000505511,;"	"T"	"ENSG00000249052"	"ENST00000505511"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/577"	""	""	""	""	""	"1"	NA	1	"RP11-354O24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"772b5270-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235849056603774	"WGS"	FALSE
"7034"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	95658187	95658187	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"83"	7	43	"43"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"772c32e4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0777777777777778	"WGS"	FALSE
"7035"	"BMPR1B"	658	"mskcc.org"	"GRCh37"	"4"	96031577	96031577	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.234-4294G>T"	""	""	"ENST00000440890"	""	93	"66"	27	63	"63"	0	"BMPR1B,intron_variant,,ENST00000515059,NM_001203.2;BMPR1B,intron_variant,,ENST00000394931,;BMPR1B,intron_variant,,ENST00000264568,NM_001256794.1;BMPR1B,intron_variant,,ENST00000440890,;BMPR1B,intron_variant,,ENST00000509540,NM_001256793.1;BMPR1B,intron_variant,,ENST00000512312,NM_001256792.1;BMPR1B,intron_variant,,ENST00000506363,;BMPR1B,intron_variant,,ENST00000502683,;"	"T"	"ENSG00000138696"	"ENST00000440890"	"Transcript"	"intron_variant"	"-/1764"	"-/1599"	"-/532"	""	""	""	"1"	NA	1	"BMPR1B"	"HGNC"	1077	"protein_coding"	"YES"	"CCDS58919.1"	"ENSP00000401907"	"O00238"	"D6RGW8"	"UPI00017A7CB9"	""	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"772c4efa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290322580645161	"WGS"	FALSE
"7036"	"RP11-145G20.1"	0	"mskcc.org"	"GRCh37"	"4"	97647380	97647380	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.200-92036T>A"	""	""	"ENST00000522173"	""	68	"64"	4	52	"52"	0	"RP11-145G20.1,intron_variant,,ENST00000522173,;"	"A"	"ENSG00000248510"	"ENST00000522173"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/799"	""	""	""	""	""	"1"	NA	1	"RP11-145G20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"772cbbf6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"7037"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	97954495	97954495	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"73"	29	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"772ccd26-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284313725490196	"WGS"	FALSE
"7038"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	98016813	98016813	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"78"	34	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"772cd3e8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303571428571429	"WGS"	FALSE
"7039"	"STPG2"	285555	"mskcc.org"	"GRCh37"	"4"	98262336	98262336	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.463-153352C>G"	""	""	"ENST00000522676"	""	90	"85"	5	50	"50"	0	"STPG2,intron_variant,,ENST00000522676,;RP11-681L8.1,intron_variant,,ENST00000521680,;STPG2,intron_variant,,ENST00000506482,;"	"C"	"ENSG00000163116"	"ENST00000522676"	"Transcript"	"intron_variant"	"-/4203"	"-/561"	"-/186"	""	""	""	"1"	NA	-1	"STPG2"	"HGNC"	28712	"protein_coding"	""	""	"ENSP00000428346"	""	"H0YAZ7"	"UPI00005A935C"	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"772cdf82-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"7040"	"TSPAN5"	10098	"mskcc.org"	"GRCh37"	"4"	99501416	99501416	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.82-72537A>G"	""	""	"ENST00000305798"	""	106	"75"	31	66	"66"	0	"TSPAN5,intron_variant,,ENST00000305798,NM_005723.3;TSPAN5,intron_variant,,ENST00000505184,;TSPAN5,intron_variant,,ENST00000511651,;TSPAN5,intron_variant,,ENST00000515287,;TSPAN5,intron_variant,,ENST00000508798,;TSPAN5,intron_variant,,ENST00000515440,;TSPAN5,intron_variant,,ENST00000511800,;TSPAN5,intron_variant,,ENST00000507167,;"	"C"	"ENSG00000168785"	"ENST00000305798"	"Transcript"	"intron_variant"	"-/3365"	"-/807"	"-/268"	""	""	""	"1"	NA	-1	"TSPAN5"	"HGNC"	17753	"protein_coding"	"YES"	"CCDS3646.1"	"ENSP00000307701"	"P62079"	"D6RGZ7,D6R9N6,B7Z317"	"UPI0000022DE0"	"NM_005723.3"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"772d2d84-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292452830188679	"WGS"	FALSE
"7041"	"RP11-15B17.1"	0	"mskcc.org"	"GRCh37"	"4"	100995221	100995221	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.729+36244A>T"	""	""	"ENST00000515026"	""	104	"97"	7	47	"47"	0	"RP11-15B17.1,intron_variant,,ENST00000515026,;"	"T"	"ENSG00000245322"	"ENST00000515026"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/764"	""	""	""	""	""	"1"	NA	1	"RP11-15B17.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"772dafde-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0673076923076923	"WGS"	FALSE
"7042"	"UBE2D3"	7323	"mskcc.org"	"GRCh37"	"4"	103718272	103718272	"+"	"3'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000357194"	""	95	"69"	26	65	"65"	0	"UBE2D3,3_prime_UTR_variant,,ENST00000453744,NM_181891.2;UBE2D3,3_prime_UTR_variant,,ENST00000394804,NM_181886.3;UBE2D3,3_prime_UTR_variant,,ENST00000343106,NM_181892.3;UBE2D3,3_prime_UTR_variant,,ENST00000394801,NM_003340.6,NM_181888.3;UBE2D3,3_prime_UTR_variant,,ENST00000394803,NM_181889.2;UBE2D3,downstream_gene_variant,,ENST00000321805,NM_181887.2;UBE2D3,downstream_gene_variant,,ENST00000338145,NM_181890.2;UBE2D3,downstream_gene_variant,,ENST00000349311,;UBE2D3,downstream_gene_variant,,ENST00000350435,;UBE2D3,downstream_gene_variant,,ENST00000357194,NM_181893.2;UBE2D3,downstream_gene_variant,,ENST00000508476,;UBE2D3,downstream_gene_variant,,ENST00000502690,;UBE2D3,downstream_gene_variant,,ENST00000504211,;UBE2D3,downstream_gene_variant,,ENST00000507845,;UBE2D3,downstream_gene_variant,,ENST00000502404,;UBE2D3,downstream_gene_variant,,ENST00000508238,;UBE2D3,downstream_gene_variant,,ENST00000505207,;UBE2D3,non_coding_transcript_exon_variant,,ENST00000508474,;UBE2D3,downstream_gene_variant,,ENST00000503742,;UBE2D3,downstream_gene_variant,,ENST00000505307,;UBE2D3,downstream_gene_variant,,ENST00000502563,;UBE2D3,downstream_gene_variant,,ENST00000514755,;UBE2D3,downstream_gene_variant,,ENST00000508635,;UBE2D3,downstream_gene_variant,,ENST00000510129,;UBE2D3,downstream_gene_variant,,ENST00000508974,;UBE2D3,downstream_gene_variant,,ENST00000505009,;"	"C"	"ENSG00000109332"	"ENST00000357194"	"Transcript"	"downstream_gene_variant"	"-/660"	"-/450"	"-/149"	""	""	""	"1"	"242"	-1	"UBE2D3"	"HGNC"	12476	"protein_coding"	"YES"	"CCDS3659.1"	"ENSP00000349722"	"P61077"	"D6RFM0,D6RAW0,D6RAH7"	"UPI00001B31EA"	"NM_181893.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"772e56be-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"7043"	"RP11-328K4.1"	101929448	"mskcc.org"	"GRCh37"	"4"	104299943	104299943	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.173+1611C>T"	""	""	"ENST00000508099"	""	108	"82"	26	46	"46"	0	"RP11-328K4.1,intron_variant,,ENST00000508099,;RP11-328K4.1,intron_variant,,ENST00000513793,;"	"T"	"ENSG00000248740"	"ENST00000508099"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/527"	""	""	""	""	""	"1"	NA	1	"RP11-328K4.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"772ec09a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240740740740741	"WGS"	FALSE
"7044"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	104408649	104408649	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"64"	28	37	"37"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"772eca40-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WGS"	FALSE
"7045"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	106261657	106261657	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"80"	26	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"772f7422-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245283018867925	"WGS"	FALSE
"7046"	"COL25A1"	84570	"mskcc.org"	"GRCh37"	"4"	109743199	109743199	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1845+2131T>A"	""	""	"ENST00000399132"	""	77	"72"	5	42	"42"	0	"COL25A1,intron_variant,,ENST00000399132,NM_198721.2;COL25A1,intron_variant,,ENST00000512961,;COL25A1,downstream_gene_variant,,ENST00000399126,NM_032518.2;COL25A1,downstream_gene_variant,,ENST00000399127,NM_001256074.1;COL25A1,intron_variant,,ENST00000494183,;COL25A1,downstream_gene_variant,,ENST00000505377,;"	"T"	"ENSG00000188517"	"ENST00000399132"	"Transcript"	"intron_variant"	"-/2724"	"-/1965"	"-/654"	""	""	""	"1"	NA	-1	"COL25A1"	"HGNC"	18603	"protein_coding"	"YES"	"CCDS43258.1"	"ENSP00000382083"	"Q9BXS0"	"D6R8Y2"	"UPI0000225CD2"	"NM_198721.2"	""	""	""	"35/37"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"7730633c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0649350649350649	"WGS"	FALSE
"7047"	"COL25A1"	84570	"mskcc.org"	"GRCh37"	"4"	109782319	109782319	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1198-192A>T"	""	""	"ENST00000399132"	""	109	"91"	18	48	"48"	0	"COL25A1,intron_variant,,ENST00000399132,NM_198721.2;COL25A1,intron_variant,,ENST00000399126,NM_032518.2;COL25A1,intron_variant,,ENST00000399127,NM_001256074.1;COL25A1,intron_variant,,ENST00000494183,;"	"A"	"ENSG00000188517"	"ENST00000399132"	"Transcript"	"intron_variant"	"-/2724"	"-/1965"	"-/654"	""	""	""	"1"	NA	-1	"COL25A1"	"HGNC"	18603	"protein_coding"	"YES"	"CCDS43258.1"	"ENSP00000382083"	"Q9BXS0"	"D6R8Y2"	"UPI0000225CD2"	"NM_198721.2"	""	""	""	"22/37"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"77306ba2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.165137614678899	"WGS"	FALSE
"7048"	"ENSR00001247394"	0	"mskcc.org"	"GRCh37"	"4"	111789728	111789728	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs147813531"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001247394"	""	107	"82"	25	51	"51"	0	""	"T"	""	"ENSR00001247394"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs147813531"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"77313906-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233644859813084	"WGS"	FALSE
"7049"	"NDST4"	64579	"mskcc.org"	"GRCh37"	"4"	116002967	116002967	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-246-4529G>T"	""	""	"ENST00000264363"	""	97	"88"	9	71	"71"	0	"NDST4,intron_variant,,ENST00000264363,NM_022569.1;NDST4,intron_variant,,ENST00000504854,;NDST4,intron_variant,,ENST00000514570,;"	"A"	"ENSG00000138653"	"ENST00000264363"	"Transcript"	"intron_variant"	"-/3351"	"-/2619"	"-/872"	""	""	""	"1"	NA	-1	"NDST4"	"HGNC"	20779	"protein_coding"	"YES"	"CCDS3706.1"	"ENSP00000264363"	"Q9H3R1"	""	"UPI000006CED7"	"NM_022569.1"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"77327f28-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0927835051546392	"WGS"	FALSE
"7050"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	116131601	116131601	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"58"	30	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7732855e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340909090909091	"WGS"	FALSE
"7051"	"RP11-659O3.1"	0	"mskcc.org"	"GRCh37"	"4"	116920290	116920290	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.337-76999A>C"	""	""	"ENST00000508414"	""	82	"54"	28	61	"61"	0	"RP11-659O3.1,intron_variant,,ENST00000508414,;"	"G"	"ENSG00000248173"	"ENST00000508414"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/457"	""	""	""	""	""	"1"	NA	-1	"RP11-659O3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"7732b36c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341463414634146	"WGS"	FALSE
"7052"	"PRSS12"	8492	"mskcc.org"	"GRCh37"	"4"	119225199	119225199	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1631+4392A>T"	""	""	"ENST00000296498"	""	103	"77"	26	55	"55"	0	"PRSS12,intron_variant,,ENST00000296498,NM_003619.3;PRSS12,intron_variant,,ENST00000515089,;"	"A"	"ENSG00000164099"	"ENST00000296498"	"Transcript"	"intron_variant"	"-/4809"	"-/2628"	"-/875"	""	""	""	"1"	NA	-1	"PRSS12"	"HGNC"	9477	"protein_coding"	"YES"	"CCDS3709.1"	"ENSP00000296498"	"P56730"	""	"UPI000013E34B"	"NM_003619.3"	""	""	""	"8/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"773354ac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252427184466019	"WGS"	FALSE
"7053"	"PRSS12"	8492	"mskcc.org"	"GRCh37"	"4"	119254687	119254687	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.821-1666T>C"	""	""	"ENST00000296498"	""	107	"76"	31	59	"59"	0	"PRSS12,intron_variant,,ENST00000296498,NM_003619.3;"	"G"	"ENSG00000164099"	"ENST00000296498"	"Transcript"	"intron_variant"	"-/4809"	"-/2628"	"-/875"	""	""	""	"1"	NA	-1	"PRSS12"	"HGNC"	9477	"protein_coding"	"YES"	"CCDS3709.1"	"ENSP00000296498"	"P56730"	""	"UPI000013E34B"	"NM_003619.3"	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"77335952-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289719626168224	"WGS"	FALSE
"7054"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	119351509	119351509	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"64"	5	44	"44"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"77336c44-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072463768115942	"WGS"	FALSE
"7055"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	121535764	121535764	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"73"	28	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"7734de44-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277227722772277	"WGS"	FALSE
"7056"	"PRDM5"	11107	"mskcc.org"	"GRCh37"	"4"	121814517	121814517	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.177+14112T>A"	""	""	"ENST00000264808"	""	84	"58"	26	58	"58"	0	"PRDM5,intron_variant,,ENST00000264808,NM_018699.2;PRDM5,intron_variant,,ENST00000394435,;PRDM5,intron_variant,,ENST00000428209,;PRDM5,intron_variant,,ENST00000515109,;PRDM5,intron_variant,,ENST00000505033,;PRDM5,intron_variant,,ENST00000505484,;PRDM5,intron_variant,,ENST00000512845,;SETP12,downstream_gene_variant,,ENST00000514068,;"	"T"	"ENSG00000138738"	"ENST00000264808"	"Transcript"	"intron_variant"	"-/5330"	"-/1893"	"-/630"	""	""	""	"1"	NA	-1	"PRDM5"	"HGNC"	9349	"protein_coding"	"YES"	"CCDS3716.1"	"ENSP00000264808"	"Q9NQX1"	""	"UPI000013D572"	"NM_018699.2"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"7734ea1a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30952380952381	"WGS"	FALSE
"7057"	"ADAD1"	132612	"mskcc.org"	"GRCh37"	"4"	123345366	123345366	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1617+2821A>T"	""	""	"ENST00000296513"	""	102	"97"	5	68	"68"	0	"ADAD1,intron_variant,,ENST00000296513,NM_139243.3;ADAD1,intron_variant,,ENST00000388725,NM_001159295.1;ADAD1,intron_variant,,ENST00000388724,NM_001159285.1;"	"T"	"ENSG00000164113"	"ENST00000296513"	"Transcript"	"intron_variant"	"-/1961"	"-/1731"	"-/576"	""	""	""	"1"	NA	1	"ADAD1"	"HGNC"	30713	"protein_coding"	"YES"	"CCDS34058.1"	"ENSP00000296513"	"Q96M93"	"C9JGM6,C9JAT9"	"UPI000006DF76"	"NM_139243.3"	""	""	""	"12/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"77354668-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0490196078431373	"WGS"	FALSE
"7058"	"RP11-125O18.1"	0	"mskcc.org"	"GRCh37"	"4"	128049885	128049885	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.484-31471C>G"	""	""	"ENST00000504050"	""	110	"103"	7	44	"44"	0	"RP11-125O18.1,intron_variant,,ENST00000504050,;"	"C"	"ENSG00000248491"	"ENST00000504050"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/645"	""	""	""	""	""	"1"	NA	-1	"RP11-125O18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7736ad14-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0636363636363636	"WGS"	FALSE
"7059"	"SCLT1"	132320	"mskcc.org"	"GRCh37"	"4"	129947401	129947401	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.290+12795G>A"	""	""	"ENST00000281142"	""	92	"68"	24	44	"44"	0	"SCLT1,intron_variant,,ENST00000281142,NM_144643.2;SCLT1,intron_variant,,ENST00000434680,;SCLT1,intron_variant,,ENST00000503215,;SCLT1,intron_variant,,ENST00000439369,;"	"T"	"ENSG00000151466"	"ENST00000281142"	"Transcript"	"intron_variant"	"-/3055"	"-/2067"	"-/688"	""	""	""	"1"	NA	-1	"SCLT1"	"HGNC"	26406	"protein_coding"	"YES"	"CCDS3740.1"	"ENSP00000281142"	"Q96NL6"	""	"UPI000013DC5F"	"NM_144643.2"	""	""	""	"5/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"77378b6c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"7060"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	130470759	130470759	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"87"	18	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7737a89a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171428571428571	"WGS"	FALSE
"7061"	"RP11-422J15.1"	0	"mskcc.org"	"GRCh37"	"4"	130793324	130793324	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1147+9401G>A"	""	""	"ENST00000513875"	""	104	"80"	24	41	"41"	0	"RP11-422J15.1,intron_variant,,ENST00000513875,;RP11-422J15.1,intron_variant,,ENST00000507099,;"	"A"	"ENSG00000249618"	"ENST00000513875"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1777"	""	""	""	""	""	"1"	NA	1	"RP11-422J15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"11/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7737bbe6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"7062"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	131454281	131454281	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"86"	32	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7737f3d6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271186440677966	"WGS"	FALSE
"7063"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	131461858	131461858	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"68"	39	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"7737f4e4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364485981308411	"WGS"	FALSE
"7064"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	132177990	132177990	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"77"	40	75	"74"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"77381956-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341880341880342	"WGS"	FALSE
"7065"	"RP11-9G1.3"	101927359	"mskcc.org"	"GRCh37"	"4"	134034627	134034627	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.582-16589G>T"	""	""	"ENST00000505289"	""	123	"87"	36	67	"67"	0	"RP11-9G1.3,intron_variant,,ENST00000505289,;"	"A"	"ENSG00000250241"	"ENST00000505289"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2820"	""	""	""	""	""	"1"	NA	-1	"RP11-9G1.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"7/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"773988e0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292682926829268	"WGS"	FALSE
"7066"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	134319062	134319062	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"102"	8	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"77399132-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0727272727272727	"WGS"	FALSE
"7067"	"AC105252.1"	0	"mskcc.org"	"GRCh37"	"4"	134477522	134477522	"+"	"3'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408710"	""	88	"63"	25	57	"57"	0	"AC105252.1,downstream_gene_variant,,ENST00000408710,;"	"T"	"ENSG00000221637"	"ENST00000408710"	"Transcript"	"downstream_gene_variant"	"-/79"	""	""	""	""	""	"1"	"4489"	-1	"AC105252.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"77399a42-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284090909090909	"WGS"	FALSE
"7068"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	135642756	135642756	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"106"	5	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"7739e7ae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.045045045045045	"WGS"	FALSE
"7069"	"RP11-553P9.2"	0	"mskcc.org"	"GRCh37"	"4"	135992049	135992049	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.268+3394A>C"	""	""	"ENST00000514526"	""	103	"80"	23	52	"52"	0	"RP11-553P9.2,intron_variant,,ENST00000514526,;RP11-553P9.2,intron_variant,,ENST00000508605,;"	"C"	"ENSG00000248434"	"ENST00000514526"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/689"	""	""	""	""	""	"1"	NA	1	"RP11-553P9.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"7739fbae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223300970873786	"WGS"	FALSE
"7070"	"RP11-775H9.2"	0	"mskcc.org"	"GRCh37"	"4"	137164958	137164958	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs199828345"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.279+17606G>A"	""	""	"ENST00000513332"	""	100	"72"	28	66	"66"	0	"RP11-775H9.2,intron_variant,,ENST00000513332,;RP11-775H9.2,intron_variant,,ENST00000500324,;"	"T"	"ENSG00000251567"	"ENST00000513332"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/875"	""	""	""	""	"rs199828345"	"1"	NA	-1	"RP11-775H9.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"773a5892-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"7071"	"SETD7"	80854	"mskcc.org"	"GRCh37"	"4"	140485363	140485363	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.17-17160T>A"	""	""	"ENST00000608795"	""	88	"66"	22	46	"46"	0	"SETD7,intron_variant,,ENST00000608795,;"	"T"	"ENSG00000145391"	"ENST00000608795"	"Transcript"	"intron_variant"	"-/492"	"-/282"	"-/94"	""	""	""	"1"	NA	-1	"SETD7"	"HGNC"	30412	"protein_coding"	""	""	"ENSP00000476712"	""	""	"UPI0003B927BC"	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"773b8262-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"7072"	"INPP4B"	8821	"mskcc.org"	"GRCh37"	"4"	143193527	143193527	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.504-1600A>T"	""	""	"ENST00000262992"	""	119	"83"	36	61	"61"	0	"INPP4B,intron_variant,,ENST00000513000,NM_003866.2;INPP4B,intron_variant,,ENST00000509777,;INPP4B,intron_variant,,ENST00000262992,NM_001101669.1;INPP4B,intron_variant,,ENST00000508116,;INPP4B,intron_variant,,ENST00000308502,;INPP4B,intron_variant,,ENST00000510812,;INPP4B,intron_variant,,ENST00000511838,;INPP4B,intron_variant,,ENST00000514525,;INPP4B,intron_variant,,ENST00000512630,;INPP4B,intron_variant,,ENST00000506297,;INPP4B,intron_variant,,ENST00000507462,;"	"A"	"ENSG00000109452"	"ENST00000262992"	"Transcript"	"intron_variant"	"-/3741"	"-/2775"	"-/924"	""	""	""	"1"	NA	-1	"INPP4B"	"HGNC"	6075	"protein_coding"	""	"CCDS3757.1"	"ENSP00000262992"	"O15327"	"E9PCZ3,D6RJC3,D6RE59,D6R9J5"	"UPI000013D37A"	"NM_001101669.1"	""	""	""	"7/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"773c642a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302521008403361	"WGS"	FALSE
"7073"	"RP11-364L4.3"	0	"mskcc.org"	"GRCh37"	"4"	144234616	144234616	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.45-15816C>A"	""	""	"ENST00000512715"	""	90	"84"	6	47	"47"	0	"RP11-364L4.3,intron_variant,,ENST00000512715,;Y_RNA,downstream_gene_variant,,ENST00000363179,;"	"A"	"ENSG00000250969"	"ENST00000512715"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/624"	""	""	""	""	""	"1"	NA	1	"RP11-364L4.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"773cbd08-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"7074"	"HHIP"	64399	"mskcc.org"	"GRCh37"	"4"	145650114	145650114	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1761-5779C>A"	""	""	"ENST00000296575"	""	104	"72"	32	64	"64"	0	"HHIP,intron_variant,,ENST00000296575,NM_022475.2;"	"A"	"ENSG00000164161"	"ENST00000296575"	"Transcript"	"intron_variant"	"-/10072"	"-/2103"	"-/700"	""	""	""	"1"	NA	1	"HHIP"	"HGNC"	14866	"protein_coding"	"YES"	"CCDS3762.1"	"ENSP00000296575"	"Q96QV1"	""	"UPI0000071302"	"NM_022475.2"	""	""	""	"11/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"773d7946-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"7075"	"LRBA"	987	"mskcc.org"	"GRCh37"	"4"	151679818	151679818	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5645+3117A>C"	""	""	"ENST00000357115"	""	92	"63"	29	39	"39"	0	"LRBA,intron_variant,,ENST00000535741,;LRBA,intron_variant,,ENST00000510413,NM_001199282.2;LRBA,intron_variant,,ENST00000357115,NM_006726.4;LRBA,intron_variant,,ENST00000507224,;LRBA,intron_variant,,ENST00000509835,;"	"G"	"ENSG00000198589"	"ENST00000357115"	"Transcript"	"intron_variant"	"-/9899"	"-/8592"	"-/2863"	""	""	""	"1"	NA	-1	"LRBA"	"HGNC"	1742	"protein_coding"	"YES"	"CCDS3773.1"	"ENSP00000349629"	"P50851"	"Q7KZN3"	"UPI000013E35C"	"NM_006726.4"	""	""	""	"35/57"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"773f93ac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315217391304348	"WGS"	FALSE
"7076"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	152312373	152312373	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"52"	4	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"773fe640-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"7077"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	152792759	152792759	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"61"	22	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"774010b6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265060240963855	"WGS"	FALSE
"7078"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	156025753	156025753	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"62"	25	66	"66"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"7741179a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28735632183908	"WGS"	FALSE
"7079"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	156737834	156737834	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"83"	29	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"77414242-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258928571428571	"WGS"	FALSE
"7080"	"ENSR00001436659"	0	"mskcc.org"	"GRCh37"	"4"	157527668	157527668	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001436659"	""	99	"69"	30	68	"68"	0	""	"C"	""	"ENSR00001436659"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"77419bc0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303030303030303	"WGS"	FALSE
"7081"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	160013718	160013718	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs556794316"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"71"	34	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs556794316"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"77426dca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323809523809524	"WGS"	FALSE
"7082"	"FSTL5"	56884	"mskcc.org"	"GRCh37"	"4"	162977290	162977290	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.127-22480A>G"	""	""	"ENST00000306100"	""	103	"74"	29	43	"43"	0	"FSTL5,intron_variant,,ENST00000306100,NM_001128427.2,NM_020116.4;FSTL5,intron_variant,,ENST00000379164,;FSTL5,intron_variant,,ENST00000427802,NM_001128428.2;FSTL5,intron_variant,,ENST00000536695,;"	"C"	"ENSG00000168843"	"ENST00000306100"	"Transcript"	"intron_variant"	"-/4831"	"-/2544"	"-/847"	""	""	""	"1"	NA	-1	"FSTL5"	"HGNC"	21386	"protein_coding"	"YES"	"CCDS3802.1"	"ENSP00000305334"	"Q8N475"	"Q4W5Q0,Q4W5K3,Q4W5F8"	"UPI000020B66B"	"NM_001128427.2,NM_020116.4"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"7743894e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.281553398058252	"WGS"	FALSE
"7083"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	163286100	163286100	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"74"	29	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"77439e7a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.281553398058252	"WGS"	FALSE
"7084"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	165555113	165555113	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"85"	9	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"774477d2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0957446808510638	"WGS"	FALSE
"7085"	"CPE"	1363	"mskcc.org"	"GRCh37"	"4"	166400417	166400417	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.673-2977G>A"	""	""	"ENST00000402744"	""	124	"85"	39	63	"63"	0	"CPE,intron_variant,,ENST00000402744,NM_001873.2;CPE,intron_variant,,ENST00000431967,;CPE,intron_variant,,ENST00000513982,;CPE,intron_variant,,ENST00000511992,;"	"A"	"ENSG00000109472"	"ENST00000402744"	"Transcript"	"intron_variant"	"-/2421"	"-/1431"	"-/476"	""	""	""	"1"	NA	1	"CPE"	"HGNC"	2303	"protein_coding"	"YES"	"CCDS3810.1"	"ENSP00000386104"	"P16870"	"D6RF88,D6R930,C9JE88"	"UPI000000163E"	"NM_001873.2"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7745040e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314516129032258	"WGS"	FALSE
"7086"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	166431949	166431949	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"70"	32	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"77450512-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313725490196078	"WGS"	FALSE
"7087"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	166709968	166709968	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"77"	31	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"77451ba6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287037037037037	"WGS"	FALSE
"7088"	"SPOCK3"	50859	"mskcc.org"	"GRCh37"	"4"	167715892	167715892	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.599-2452G>A"	""	""	"ENST00000357154"	""	98	"72"	26	42	"42"	0	"SPOCK3,intron_variant,,ENST00000357154,NM_016950.2;SPOCK3,intron_variant,,ENST00000506886,;SPOCK3,intron_variant,,ENST00000357545,NM_001204354.1,NM_001204352.1,NM_001040159.1;SPOCK3,intron_variant,,ENST00000511531,;SPOCK3,intron_variant,,ENST00000504953,;SPOCK3,intron_variant,,ENST00000502330,;SPOCK3,intron_variant,,ENST00000510741,NM_001204356.1;SPOCK3,intron_variant,,ENST00000511269,;SPOCK3,intron_variant,,ENST00000421836,;SPOCK3,intron_variant,,ENST00000541354,NM_001204353.1;SPOCK3,intron_variant,,ENST00000512681,NM_001251967.1;SPOCK3,intron_variant,,ENST00000512648,NM_001204358.1;SPOCK3,intron_variant,,ENST00000535728,;SPOCK3,intron_variant,,ENST00000534949,NM_001204355.1;SPOCK3,intron_variant,,ENST00000541637,;SPOCK3,intron_variant,,ENST00000510403,;SPOCK3,intron_variant,,ENST00000507137,;SPOCK3,intron_variant,,ENST00000502821,;SPOCK3,intron_variant,,ENST00000511905,;SPOCK3,intron_variant,,ENST00000505187,;SPOCK3,intron_variant,,ENST00000507370,;SPOCK3,intron_variant,,ENST00000511226,;SPOCK3,intron_variant,,ENST00000515143,;"	"T"	"ENSG00000196104"	"ENST00000357154"	"Transcript"	"intron_variant"	"-/2986"	"-/1311"	"-/436"	""	""	""	"1"	NA	-1	"SPOCK3"	"HGNC"	13565	"protein_coding"	"YES"	"CCDS54817.1"	"ENSP00000349677"	"Q9BQ16"	"Q4W5S3,Q4W5E2,E7EMP8"	"UPI000004BA60"	"NM_016950.2"	""	""	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"77456750-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26530612244898	"WGS"	FALSE
"7089"	"SPOCK3"	50859	"mskcc.org"	"GRCh37"	"4"	168086048	168086048	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.189+69088G>T"	""	""	"ENST00000357154"	""	99	"68"	31	67	"67"	0	"SPOCK3,intron_variant,,ENST00000357154,NM_016950.2;SPOCK3,intron_variant,,ENST00000506886,;SPOCK3,intron_variant,,ENST00000357545,NM_001204354.1,NM_001204352.1,NM_001040159.1;SPOCK3,intron_variant,,ENST00000511531,;SPOCK3,intron_variant,,ENST00000504953,;SPOCK3,intron_variant,,ENST00000502330,;SPOCK3,intron_variant,,ENST00000510741,NM_001204356.1;SPOCK3,intron_variant,,ENST00000511269,;SPOCK3,intron_variant,,ENST00000421836,;SPOCK3,intron_variant,,ENST00000541354,NM_001204353.1;SPOCK3,intron_variant,,ENST00000512681,NM_001251967.1;SPOCK3,intron_variant,,ENST00000512648,NM_001204358.1;SPOCK3,intron_variant,,ENST00000535728,;SPOCK3,intron_variant,,ENST00000534949,NM_001204355.1;SPOCK3,intron_variant,,ENST00000541637,;SPOCK3,intron_variant,,ENST00000510403,;SPOCK3,intron_variant,,ENST00000509854,;SPOCK3,intron_variant,,ENST00000506697,;SPOCK3,intron_variant,,ENST00000512042,;SPOCK3,intron_variant,,ENST00000502821,;SPOCK3,intron_variant,,ENST00000511905,;SPOCK3,intron_variant,,ENST00000505187,;SPOCK3,intron_variant,,ENST00000507370,;SPOCK3,intron_variant,,ENST00000502741,;SPOCK3,intron_variant,,ENST00000507086,;SPOCK3,intron_variant,,ENST00000511226,;SPOCK3,intron_variant,,ENST00000515143,;SPOCK3,intron_variant,,ENST00000515316,;"	"A"	"ENSG00000196104"	"ENST00000357154"	"Transcript"	"intron_variant"	"-/2986"	"-/1311"	"-/436"	""	""	""	"1"	NA	-1	"SPOCK3"	"HGNC"	13565	"protein_coding"	"YES"	"CCDS54817.1"	"ENSP00000349677"	"Q9BQ16"	"Q4W5S3,Q4W5E2,E7EMP8"	"UPI000004BA60"	"NM_016950.2"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7745806e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313131313131313	"WGS"	FALSE
"7090"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	168327797	168327797	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	22	"18"	4	6	"6"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"77459f18-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"7091"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	168327798	168327798	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"rs369994323"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	22	"19"	3	6	"6"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs369994323"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"7745a01c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"7092"	"RP11-310I9.1"	0	"mskcc.org"	"GRCh37"	"4"	168978453	168978453	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.103+55927C>A"	""	""	"ENST00000506926"	""	95	"74"	21	58	"58"	0	"RP11-310I9.1,intron_variant,,ENST00000506926,;"	"T"	"ENSG00000248601"	"ENST00000506926"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/447"	""	""	""	""	""	"1"	NA	-1	"RP11-310I9.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7745f418-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221052631578947	"WGS"	FALSE
"7093"	"RP11-205M3.1"	0	"mskcc.org"	"GRCh37"	"4"	170749687	170749687	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"rs60185765"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000503181"	""	36	"32"	4	17	"17"	0	"RP11-205M3.1,upstream_gene_variant,,ENST00000503181,;"	"C"	"ENSG00000248625"	"ENST00000503181"	"Transcript"	"upstream_gene_variant"	"-/711"	""	""	""	""	"rs60185765"	"1"	"4117"	1	"RP11-205M3.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7746af2a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"7094"	"GLRA3"	8001	"mskcc.org"	"GRCh37"	"4"	175605708	175605708	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.575-1618A>T"	""	""	"ENST00000274093"	""	97	"65"	32	65	"65"	0	"GLRA3,intron_variant,,ENST00000274093,NM_006529.2;GLRA3,intron_variant,,ENST00000340217,NM_001042543.1;"	"A"	"ENSG00000145451"	"ENST00000274093"	"Transcript"	"intron_variant"	"-/8770"	"-/1395"	"-/464"	""	""	""	"1"	NA	-1	"GLRA3"	"HGNC"	4328	"protein_coding"	"YES"	"CCDS3822.1"	"ENSP00000274093"	"O75311"	"Q9UPF3,Q4W595"	"UPI0000001C50"	"NM_006529.2"	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"77480ec4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329896907216495	"WGS"	FALSE
"7095"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	176163301	176163301	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"65"	37	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"774842e0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.362745098039216	"WGS"	FALSE
"7096"	"GPM6A"	2823	"mskcc.org"	"GRCh37"	"4"	176912482	176912482	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-23+10978G>A"	""	""	"ENST00000280187"	""	92	"72"	20	44	"44"	0	"GPM6A,intron_variant,,ENST00000280187,NM_005277.4;GPM6A,intron_variant,,ENST00000506894,NM_201592.2;GPM6A,intron_variant,,ENST00000512509,;"	"T"	"ENSG00000150625"	"ENST00000280187"	"Transcript"	"intron_variant"	"-/2854"	"-/837"	"-/278"	""	""	""	"1"	NA	-1	"GPM6A"	"HGNC"	4460	"protein_coding"	"YES"	"CCDS3824.1"	"ENSP00000280187"	"P51674"	"Q49AH3,D6RIF4,D6RFZ3,D6RFY0,D6REJ8,D6RD95,D6RBM6,D6RBH3,D6RAE4,D6R9T7"	"UPI000012EAE1"	"NM_005277.4"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"774879a4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"7097"	"ENSR00001254805"	0	"mskcc.org"	"GRCh37"	"4"	177365285	177365285	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001254805"	""	103	"73"	30	58	"58"	0	""	"C"	""	"ENSR00001254805"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"7748add4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29126213592233	"WGS"	FALSE
"7098"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	177466622	177466622	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"69"	33	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7748b73e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323529411764706	"WGS"	FALSE
"7099"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	180953109	180953109	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"rs115556608"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"74"	30	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs115556608"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0024"	"C:0.0091"	"C:0"	NA	"C:0"	"C:0"	"C:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"7749b670-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288461538461538	"WGS"	FALSE
"7100"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	181728076	181728076	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"68"	32	40	"40"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"774a024c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32	"WGS"	FALSE
"7101"	"LINC00290"	728081	"mskcc.org"	"GRCh37"	"4"	181998973	181998973	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.202-13340T>G"	""	""	"ENST00000512487"	""	93	"72"	21	57	"57"	0	"LINC00290,intron_variant,,ENST00000512487,;"	"C"	"ENSG00000248197"	"ENST00000512487"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/593"	""	""	""	""	""	"1"	NA	-1	"LINC00290"	"HGNC"	38515	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"774a1aac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225806451612903	"WGS"	FALSE
"7102"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	182322414	182322414	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"71"	7	41	"41"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"774a3bd6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"7103"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	182715438	182715438	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"93"	7	62	"62"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"774a6778-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.07	"WGS"	FALSE
"7104"	"WWC2"	80014	"mskcc.org"	"GRCh37"	"4"	184240190	184240190	"+"	"3'UTR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*3308C>A"	""	""	"ENST00000403733"	"23/23"	96	"63"	33	57	"57"	0	"WWC2,3_prime_UTR_variant,,ENST00000403733,NM_024949.5;CLDN22,3_prime_UTR_variant,,ENST00000323319,NM_001111319.1;WWC2,downstream_gene_variant,,ENST00000448232,;WWC2,downstream_gene_variant,,ENST00000504005,;WWC2,downstream_gene_variant,,ENST00000513834,;WWC2,downstream_gene_variant,,ENST00000508747,;CLDN24,downstream_gene_variant,,ENST00000541814,NM_001185149.1;CLDN24,downstream_gene_variant,,ENST00000514470,;WWC2,downstream_gene_variant,,ENST00000427431,;WWC2,downstream_gene_variant,,ENST00000438543,;"	"A"	"ENSG00000151718"	"ENST00000403733"	"Transcript"	"3_prime_UTR_variant"	"7086/8826"	"-/3579"	"-/1192"	""	""	""	"1"	NA	1	"WWC2"	"HGNC"	24148	"protein_coding"	"YES"	"CCDS34109.2"	"ENSP00000384222"	"Q6AWC2"	""	"UPI000022C4C2"	"NM_024949.5"	""	""	"23/23"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"774b23ac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34375	"WGS"	FALSE
"7105"	"TRAPPC11"	60684	"mskcc.org"	"GRCh37"	"4"	184582726	184582726	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs543712901"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-22+2126A>G"	""	""	"ENST00000334690"	""	72	"66"	6	38	"38"	0	"TRAPPC11,intron_variant,,ENST00000334690,NM_021942.5;TRAPPC11,intron_variant,,ENST00000357207,NM_199053.2;RWDD4,upstream_gene_variant,,ENST00000326397,NM_152682.2;RWDD4,upstream_gene_variant,,ENST00000327570,;RWDD4,upstream_gene_variant,,ENST00000510968,;RWDD4,upstream_gene_variant,,ENST00000512740,;TRAPPC11,intron_variant,,ENST00000504526,;TRAPPC11,intron_variant,,ENST00000505676,;RWDD4,upstream_gene_variant,,ENST00000510702,;RWDD4,upstream_gene_variant,,ENST00000514322,;TRAPPC11,upstream_gene_variant,,ENST00000509857,;"	"G"	"ENSG00000168538"	"ENST00000334690"	"Transcript"	"intron_variant"	"-/4552"	"-/3402"	"-/1133"	""	""	"rs543712901"	"1"	NA	1	"TRAPPC11"	"HGNC"	25751	"protein_coding"	"YES"	"CCDS34112.1"	"ENSP00000335371"	"Q7Z392"	""	"UPI000020B774"	"NM_021942.5"	""	""	""	"1/29"	""	"G:0.0044"	"G:0.0136"	"G:0.0029"	NA	"G:0.001"	"G:0.001"	"G:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"774b67a4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"7106"	"TRAPPC11"	60684	"mskcc.org"	"GRCh37"	"4"	184582745	184582745	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-22+2145C>T"	""	""	"ENST00000334690"	""	69	"62"	7	44	"44"	0	"TRAPPC11,intron_variant,,ENST00000334690,NM_021942.5;TRAPPC11,intron_variant,,ENST00000357207,NM_199053.2;RWDD4,upstream_gene_variant,,ENST00000326397,NM_152682.2;RWDD4,upstream_gene_variant,,ENST00000327570,;RWDD4,upstream_gene_variant,,ENST00000510968,;RWDD4,upstream_gene_variant,,ENST00000512740,;TRAPPC11,intron_variant,,ENST00000504526,;TRAPPC11,intron_variant,,ENST00000505676,;RWDD4,upstream_gene_variant,,ENST00000510702,;RWDD4,upstream_gene_variant,,ENST00000514322,;TRAPPC11,upstream_gene_variant,,ENST00000509857,;"	"T"	"ENSG00000168538"	"ENST00000334690"	"Transcript"	"intron_variant"	"-/4552"	"-/3402"	"-/1133"	""	""	""	"1"	NA	1	"TRAPPC11"	"HGNC"	25751	"protein_coding"	"YES"	"CCDS34112.1"	"ENSP00000335371"	"Q7Z392"	""	"UPI000020B774"	"NM_021942.5"	""	""	""	"1/29"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"774b68c6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101449275362319	"WGS"	FALSE
"7107"	"RP11-386B13.4"	0	"mskcc.org"	"GRCh37"	"4"	185927799	185927799	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000505053"	""	92	"86"	6	45	"45"	0	"RP11-386B13.4,downstream_gene_variant,,ENST00000505053,;"	"G"	"ENSG00000248517"	"ENST00000505053"	"Transcript"	"downstream_gene_variant"	"-/911"	""	""	""	""	""	"1"	"1459"	1	"RP11-386B13.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"774bf070-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"7108"	"RP11-386B13.4"	0	"mskcc.org"	"GRCh37"	"4"	185927800	185927800	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000505053"	""	95	"87"	8	45	"45"	0	"RP11-386B13.4,downstream_gene_variant,,ENST00000505053,;"	"C"	"ENSG00000248517"	"ENST00000505053"	"Transcript"	"downstream_gene_variant"	"-/911"	""	""	""	""	""	"1"	"1460"	1	"RP11-386B13.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"774bf174-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0842105263157895	"WGS"	FALSE
"7109"	"SNX25"	83891	"mskcc.org"	"GRCh37"	"4"	186235824	186235824	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.852+3854C>T"	""	""	"ENST00000504273"	""	79	"71"	8	43	"43"	0	"SNX25,intron_variant,,ENST00000504273,;SNX25,intron_variant,,ENST00000264694,NM_031953.2;SNX25,intron_variant,,ENST00000512853,;"	"T"	"ENSG00000109762"	"ENST00000504273"	"Transcript"	"intron_variant"	"-/3323"	"-/2523"	"-/840"	""	""	""	"1"	NA	1	"SNX25"	"HGNC"	21883	"protein_coding"	"YES"	"CCDS34116.1"	"ENSP00000426255"	"Q9H3E2"	"B3KTI8"	"UPI000020B7BB"	""	""	""	""	"7/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"774c1a0a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10126582278481	"WGS"	FALSE
"7110"	"SNX25"	83891	"mskcc.org"	"GRCh37"	"4"	186235828	186235828	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.852+3858T>A"	""	""	"ENST00000504273"	""	77	"71"	6	42	"42"	0	"SNX25,intron_variant,,ENST00000504273,;SNX25,intron_variant,,ENST00000264694,NM_031953.2;SNX25,intron_variant,,ENST00000512853,;"	"A"	"ENSG00000109762"	"ENST00000504273"	"Transcript"	"intron_variant"	"-/3323"	"-/2523"	"-/840"	""	""	""	"1"	NA	1	"SNX25"	"HGNC"	21883	"protein_coding"	"YES"	"CCDS34116.1"	"ENSP00000426255"	"Q9H3E2"	"B3KTI8"	"UPI000020B7BB"	""	""	""	""	"7/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"774c1b04-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"7111"	"PLEKHG4B"	153478	"mskcc.org"	"GRCh37"	"5"	141003	141003	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.409+172C>T"	""	""	"ENST00000283426"	""	25	"19"	6	11	"11"	0	"PLEKHG4B,intron_variant,,ENST00000283426,NM_052909.3;PLEKHG4B,intron_variant,,ENST00000502646,;CTD-2231H16.1,downstream_gene_variant,,ENST00000512035,;Y_RNA,downstream_gene_variant,,ENST00000362670,;"	"T"	"ENSG00000153404"	"ENST00000283426"	"Transcript"	"intron_variant"	"-/11513"	"-/3816"	"-/1271"	""	""	""	"1"	NA	1	"PLEKHG4B"	"HGNC"	29399	"protein_coding"	"YES"	"CCDS34124.1"	"ENSP00000283426"	"Q96PX9"	""	"UPI0000D615EE"	"NM_052909.3"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7752ebb4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WGS"	FALSE
"7112"	"CCDC127"	133957	"mskcc.org"	"GRCh37"	"5"	213784	213784	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.121+3060C>G"	""	""	"ENST00000296824"	""	125	"116"	9	48	"48"	0	"CCDC127,intron_variant,,ENST00000296824,NM_145265.2;CCDC127,intron_variant,,ENST00000441693,;SDHA,upstream_gene_variant,,ENST00000264932,NM_004168.2;SDHA,upstream_gene_variant,,ENST00000510361,;SDHA,upstream_gene_variant,,ENST00000504309,;CTD-2083E4.4,downstream_gene_variant,,ENST00000565521,;SDHA,upstream_gene_variant,,ENST00000505555,;SDHA,upstream_gene_variant,,ENST00000504824,;SDHA,upstream_gene_variant,,ENST00000502379,;SDHA,upstream_gene_variant,,ENST00000509632,;"	"C"	"ENSG00000164366"	"ENST00000296824"	"Transcript"	"intron_variant"	"-/9342"	"-/783"	"-/260"	""	""	""	"1"	NA	-1	"CCDC127"	"HGNC"	30520	"protein_coding"	"YES"	"CCDS3852.1"	"ENSP00000296824"	"Q96BQ5"	"D6R9R2"	"UPI0000071C29"	"NM_145265.2"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"77530af4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072	"WGS"	FALSE
"7113"	"SLC6A3"	6531	"mskcc.org"	"GRCh37"	"5"	1423459	1423459	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs368273"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.654-1330T>C"	""	""	"ENST00000270349"	""	75	"69"	6	41	"41"	0	"SLC6A3,intron_variant,,ENST00000270349,NM_001044.4;SLC6A3,intron_variant,,ENST00000453492,;SLC6A3,intron_variant,,ENST00000513308,;"	"G"	"ENSG00000142319"	"ENST00000270349"	"Transcript"	"intron_variant"	"-/3932"	"-/1863"	"-/620"	""	""	"rs368273"	"1"	NA	-1	"SLC6A3"	"HGNC"	11049	"protein_coding"	"YES"	"CCDS3863.1"	"ENSP00000270349"	"Q01959"	"Q6LC27,H0YBA7"	"UPI000013548F"	"NM_001044.4"	""	""	""	"4/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"7756c43c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"7114"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	1668894	1668894	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"70"	28	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7757ab54-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"7115"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	2465095	2465095	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"74"	25	51	"50"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"7758bbde-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252525252525253	"WGS"	FALSE
"7116"	"ENSR00001407037"	0	"mskcc.org"	"GRCh37"	"5"	2656298	2656298	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001407037"	""	109	"62"	47	51	"51"	0	""	"G"	""	"ENSR00001407037"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"775917fa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.431192660550459	"WGS"	FALSE
"7117"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	2669930	2669930	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"70"	27	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"77591caa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278350515463918	"WGS"	FALSE
"7118"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	2919482	2919482	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"72"	19	73	"73"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"77595d3c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208791208791209	"WGS"	FALSE
"7119"	"LINC01019"	285577	"mskcc.org"	"GRCh37"	"5"	3527579	3527579	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.459+4288A>T"	""	""	"ENST00000505443"	""	92	"75"	17	58	"58"	0	"LINC01019,intron_variant,,ENST00000505443,;"	"A"	"ENSG00000248118"	"ENST00000505443"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3199"	""	""	""	""	""	"1"	NA	-1	"LINC01019"	"HGNC"	27742	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7759f31e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184782608695652	"WGS"	FALSE
"7120"	"ADCY2"	108	"mskcc.org"	"GRCh37"	"5"	7436615	7436615	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.408+21732G>A"	""	""	"ENST00000338316"	""	99	"90"	9	51	"51"	0	"ADCY2,intron_variant,,ENST00000338316,NM_020546.2;ADCY2,intron_variant,,ENST00000498598,;ADCY2,intron_variant,,ENST00000484965,;"	"A"	"ENSG00000078295"	"ENST00000338316"	"Transcript"	"intron_variant"	"-/6575"	"-/3276"	"-/1091"	""	""	""	"1"	NA	1	"ADCY2"	"HGNC"	233	"protein_coding"	"YES"	"CCDS3872.2"	"ENSP00000342952"	"Q08462"	"Q7RTV6,Q71UM8,D6REB8"	"UPI000066D9F2"	"NM_020546.2"	""	""	""	"2/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"775c681a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"7121"	"ENSR00001407296"	0	"mskcc.org"	"GRCh37"	"5"	8634185	8634185	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001407296"	""	85	"61"	24	52	"51"	1	""	"C"	""	"ENSR00001407296"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"775cee8e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282352941176471	"WGS"	FALSE
"7122"	"DAP"	1611	"mskcc.org"	"GRCh37"	"5"	10754382	10754382	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.56-5999G>T"	""	""	"ENST00000230895"	""	96	"66"	30	74	"74"	0	"DAP,intron_variant,,ENST00000230895,NM_004394.2;DAP,intron_variant,,ENST00000432074,;DAP,intron_variant,,ENST00000510546,;DAP,intron_variant,,ENST00000508253,;DAP,intron_variant,,ENST00000514882,;DAP,intron_variant,,ENST00000508646,;"	"A"	"ENSG00000112977"	"ENST00000230895"	"Transcript"	"intron_variant"	"-/2339"	"-/309"	"-/102"	""	""	""	"1"	NA	-1	"DAP"	"HGNC"	2672	"protein_coding"	"YES"	"CCDS3880.1"	"ENSP00000230895"	"P51397"	""	"UPI0000128E2E"	"NM_004394.2"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"775dc3e0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"7123"	"ENSR00001407455"	0	"mskcc.org"	"GRCh37"	"5"	10831871	10831871	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs73049909"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001407455"	""	111	"73"	38	62	"62"	0	""	"T"	""	"ENSR00001407455"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs73049909"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0076"	"T:0.025"	"T:0.0043"	NA	"T:0.001"	"T:0.001"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"775dcebc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342342342342342	"WGS"	FALSE
"7124"	"CTNND2"	1501	"mskcc.org"	"GRCh37"	"5"	10986673	10986673	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3343+1550A>T"	""	""	"ENST00000304623"	""	101	"71"	30	60	"60"	0	"CTNND2,intron_variant,,ENST00000304623,NM_001332.2,NM_001288716.1,NM_001288715.1;CTNND2,intron_variant,,ENST00000359640,;CTNND2,intron_variant,,ENST00000511377,;CTNND2,intron_variant,,ENST00000458100,;CTNND2,intron_variant,,ENST00000503622,;CTNND2,intron_variant,,ENST00000495388,;CTNND2,intron_variant,,ENST00000506324,;CTNND2,intron_variant,,ENST00000513588,;CTNND2,intron_variant,,ENST00000504499,;"	"A"	"ENSG00000169862"	"ENST00000304623"	"Transcript"	"intron_variant"	"-/5481"	"-/3678"	"-/1225"	""	""	""	"1"	NA	-1	"CTNND2"	"HGNC"	2516	"protein_coding"	"YES"	"CCDS3881.1"	"ENSP00000307134"	"Q9UQB3"	"E7EPC8,D6RF55,D6RBA8,D6R9A8"	"UPI000013E9AB"	"NM_001332.2,NM_001288716.1,NM_001288715.1"	""	""	""	"20/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTC"	"775dd97a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297029702970297	"WGS"	FALSE
"7125"	"CTNND2"	1501	"mskcc.org"	"GRCh37"	"5"	11359691	11359691	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1372+5117A>C"	""	""	"ENST00000304623"	""	98	"74"	24	65	"65"	0	"CTNND2,intron_variant,,ENST00000304623,NM_001332.2,NM_001288716.1,NM_001288715.1;CTNND2,intron_variant,,ENST00000359640,;CTNND2,intron_variant,,ENST00000511377,;CTNND2,intron_variant,,ENST00000458100,;CTNND2,intron_variant,,ENST00000503622,;CTNND2,intron_variant,,ENST00000502551,;CTNND2,intron_variant,,ENST00000495388,;CTNND2,intron_variant,,ENST00000504354,;CTNND2,intron_variant,,ENST00000506735,;CTNND2,intron_variant,,ENST00000513588,;CTNND2,intron_variant,,ENST00000504499,;"	"G"	"ENSG00000169862"	"ENST00000304623"	"Transcript"	"intron_variant"	"-/5481"	"-/3678"	"-/1225"	""	""	""	"1"	NA	-1	"CTNND2"	"HGNC"	2516	"protein_coding"	"YES"	"CCDS3881.1"	"ENSP00000307134"	"Q9UQB3"	"E7EPC8,D6RF55,D6RBA8,D6R9A8"	"UPI000013E9AB"	"NM_001332.2,NM_001288716.1,NM_001288715.1"	""	""	""	"8/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"775e1002-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244897959183673	"WGS"	FALSE
"7126"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	12175861	12175861	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"69"	9	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"775e5c10-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"7127"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	12311257	12311257	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"63"	42	68	"68"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"775e67e6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WGS"	FALSE
"7128"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	12546103	12546103	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"69"	25	48	"48"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"775e7a4c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265957446808511	"WGS"	FALSE
"7129"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	13213750	13213750	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"72"	23	63	"63"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"775eb674-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242105263157895	"WGS"	FALSE
"7130"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	14921256	14921256	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"69"	19	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"775f5e08-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215909090909091	"WGS"	FALSE
"7131"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	18514322	18514322	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"76"	24	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"77611a40-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WGS"	FALSE
"7132"	"CDH18"	1016	"mskcc.org"	"GRCh37"	"5"	19481641	19481641	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1882+1769T>G"	""	""	"ENST00000507958"	""	118	"80"	38	56	"55"	1	"CDH18,intron_variant,,ENST00000507958,;CDH18,intron_variant,,ENST00000382275,NM_004934.3,NM_001167667.1;CDH18,intron_variant,,ENST00000274170,;CDH18,intron_variant,,ENST00000506372,;CDH18,intron_variant,,ENST00000502796,;CDH18,intron_variant,,ENST00000515257,;CDH18,upstream_gene_variant,,ENST00000510297,;"	"C"	"ENSG00000145526"	"ENST00000507958"	"Transcript"	"intron_variant"	"-/3542"	"-/2373"	"-/790"	""	""	""	"1"	NA	-1	"CDH18"	"HGNC"	1757	"protein_coding"	"YES"	"CCDS3889.1"	"ENSP00000425093"	"Q13634"	""	"UPI0000126DBD"	""	""	""	""	"14/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"77615e4c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322033898305085	"WGS"	FALSE
"7133"	"CDH18"	1016	"mskcc.org"	"GRCh37"	"5"	19482836	19482836	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1882+574G>A"	""	""	"ENST00000507958"	""	120	"77"	43	55	"55"	0	"CDH18,intron_variant,,ENST00000507958,;CDH18,intron_variant,,ENST00000382275,NM_004934.3,NM_001167667.1;CDH18,intron_variant,,ENST00000274170,;CDH18,intron_variant,,ENST00000506372,;CDH18,intron_variant,,ENST00000502796,;CDH18,intron_variant,,ENST00000515257,;CDH18,upstream_gene_variant,,ENST00000510297,;"	"T"	"ENSG00000145526"	"ENST00000507958"	"Transcript"	"intron_variant"	"-/3542"	"-/2373"	"-/790"	""	""	""	"1"	NA	-1	"CDH18"	"HGNC"	1757	"protein_coding"	"YES"	"CCDS3889.1"	"ENSP00000425093"	"Q13634"	""	"UPI0000126DBD"	""	""	""	""	"14/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"77615f50-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358333333333333	"WGS"	FALSE
"7134"	"CDH18"	1016	"mskcc.org"	"GRCh37"	"5"	19625334	19625334	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.644-12624G>A"	""	""	"ENST00000507958"	""	119	"104"	15	67	"67"	0	"CDH18,intron_variant,,ENST00000507958,;CDH18,intron_variant,,ENST00000382275,NM_004934.3,NM_001167667.1;CDH18,intron_variant,,ENST00000274170,;CDH18,intron_variant,,ENST00000506372,;CDH18,intron_variant,,ENST00000502796,;CDH18,intron_variant,,ENST00000511273,;CDH18,intron_variant,,ENST00000515257,;"	"T"	"ENSG00000145526"	"ENST00000507958"	"Transcript"	"intron_variant"	"-/3542"	"-/2373"	"-/790"	""	""	""	"1"	NA	-1	"CDH18"	"HGNC"	1757	"protein_coding"	"YES"	"CCDS3889.1"	"ENSP00000425093"	"Q13634"	""	"UPI0000126DBD"	""	""	""	""	"7/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7761701c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126050420168067	"WGS"	FALSE
"7135"	"CDH18"	1016	"mskcc.org"	"GRCh37"	"5"	20523331	20523331	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-580+52240T>A"	""	""	"ENST00000507958"	""	101	"67"	34	71	"71"	0	"CDH18,intron_variant,,ENST00000507958,;CDH18,intron_variant,,ENST00000507632,;"	"T"	"ENSG00000145526"	"ENST00000507958"	"Transcript"	"intron_variant"	"-/3542"	"-/2373"	"-/790"	""	""	""	"1"	NA	-1	"CDH18"	"HGNC"	1757	"protein_coding"	"YES"	"CCDS3889.1"	"ENSP00000425093"	"Q13634"	""	"UPI0000126DBD"	""	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"7761bc0c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336633663366337	"WGS"	FALSE
"7136"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	23251583	23251583	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	122	"91"	31	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"77637f7e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254098360655738	"WGS"	FALSE
"7137"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	24759246	24759246	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"81"	30	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7763f9cc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27027027027027	"WGS"	FALSE
"7138"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	26431840	26431840	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"92"	28	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"77648662-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WGS"	FALSE
"7139"	"CDH9"	1007	"mskcc.org"	"GRCh37"	"5"	26934322	26934322	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.229-18290G>A"	""	""	"ENST00000231021"	""	97	"65"	32	54	"54"	0	"CDH9,intron_variant,,ENST00000231021,NM_016279.3;CDH9,intron_variant,,ENST00000513289,;CDH9,intron_variant,,ENST00000511822,;CDH9,intron_variant,,ENST00000505045,;"	"T"	"ENSG00000113100"	"ENST00000231021"	"Transcript"	"intron_variant"	"-/3079"	"-/2370"	"-/789"	""	""	""	"1"	NA	-1	"CDH9"	"HGNC"	1768	"protein_coding"	"YES"	"CCDS3893.1"	"ENSP00000231021"	"Q9ULB4"	"E7EPN0,D6RBT9"	"UPI000013C945"	"NM_016279.3"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7764af3e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329896907216495	"WGS"	FALSE
"7140"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	27950162	27950162	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs10055728"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"60"	30	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10055728"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0373"	"A:0.1354"	"A:0.0101"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"7764fb06-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"7141"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	28915173	28915173	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"62"	36	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"77654cfa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36734693877551	"WGS"	FALSE
"7142"	"UBL5P1"	0	"mskcc.org"	"GRCh37"	"5"	29598043	29598043	"+"	"5'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000507979"	""	123	"88"	35	58	"58"	0	"UBL5P1,upstream_gene_variant,,ENST00000507979,;"	"T"	"ENSG00000248418"	"ENST00000507979"	"Transcript"	"upstream_gene_variant"	"-/193"	""	""	""	""	""	"1"	"2740"	1	"UBL5P1"	"HGNC"	44639	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"7765a150-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284552845528455	"WGS"	FALSE
"7143"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	30636310	30636310	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"60"	22	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"77660e06-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268292682926829	"WGS"	FALSE
"7144"	"PDZD2"	23037	"mskcc.org"	"GRCh37"	"5"	31919163	31919163	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.477-64098G>T"	""	""	"ENST00000438447"	""	86	"72"	14	54	"54"	0	"PDZD2,intron_variant,,ENST00000438447,;PDZD2,intron_variant,,ENST00000282493,NM_178140.2;PDZD2,intron_variant,,ENST00000502489,;CTD-2206G10.2,upstream_gene_variant,,ENST00000506046,;"	"T"	"ENSG00000133401"	"ENST00000438447"	"Transcript"	"intron_variant"	"-/11704"	"-/8520"	"-/2839"	""	""	""	"1"	NA	1	"PDZD2"	"HGNC"	18486	"protein_coding"	"YES"	"CCDS34137.1"	"ENSP00000402033"	"O15018"	"B4DGS3"	"UPI000069648B"	""	""	""	""	"2/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7766aca8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162790697674419	"WGS"	FALSE
"7145"	"CTD-2186M15.1"	0	"mskcc.org"	"GRCh37"	"5"	32220601	32220601	"+"	"5'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000477507"	""	91	"64"	27	52	"52"	0	"CTD-2186M15.1,upstream_gene_variant,,ENST00000477507,;"	"T"	"ENSG00000230829"	"ENST00000477507"	"Transcript"	"upstream_gene_variant"	"-/416"	""	""	""	""	""	"1"	"1437"	1	"CTD-2186M15.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"7766ef92-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296703296703297	"WGS"	FALSE
"7146"	"CTD-2066L21.3"	0	"mskcc.org"	"GRCh37"	"5"	33139892	33139892	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.347-116459C>T"	""	""	"ENST00000510327"	""	105	"83"	22	59	"59"	0	"CTD-2066L21.3,intron_variant,,ENST00000510327,;"	"A"	"ENSG00000250697"	"ENST00000510327"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/619"	""	""	""	""	""	"1"	NA	-1	"CTD-2066L21.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"77674a46-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.20952380952381	"WGS"	FALSE
"7147"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	33350640	33350640	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"76"	28	54	"53"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"77675fea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269230769230769	"WGS"	FALSE
"7148"	"IL7R"	3575	"mskcc.org"	"GRCh37"	"5"	35883326	35883326	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000303115"	""	109	"73"	36	67	"67"	0	"IL7R,downstream_gene_variant,,ENST00000303115,NM_002185.3;"	"T"	"ENSG00000168685"	"ENST00000303115"	"Transcript"	"downstream_gene_variant"	"-/4626"	"-/1380"	"-/459"	""	""	""	"1"	"3621"	1	"IL7R"	"HGNC"	6024	"protein_coding"	"YES"	"CCDS3911.1"	"ENSP00000306157"	"P16871"	"D6RG28,D6RCR9"	"UPI000013E861"	"NM_002185.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"7768b75a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330275229357798	"WGS"	TRUE
"7149"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	36559097	36559097	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"82"	24	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"7768efcc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226415094339623	"WGS"	FALSE
"7150"	"GDNF-AS1"	100861519	"mskcc.org"	"GRCh37"	"5"	37852449	37852449	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.136+11774G>T"	""	""	"ENST00000503382"	""	86	"61"	25	57	"57"	0	"GDNF-AS1,intron_variant,,ENST00000503382,;"	"T"	"ENSG00000248587"	"ENST00000503382"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/604"	""	""	""	""	""	"1"	NA	1	"GDNF-AS1"	"HGNC"	43592	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7769693e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290697674418605	"WGS"	FALSE
"7151"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	38222276	38222276	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs527344003"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"74"	25	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs527344003"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"77697f50-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252525252525253	"WGS"	FALSE
"7152"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	38704766	38704766	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"68"	25	49	"48"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"7769aa02-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"7153"	"ENSR00001278832"	0	"mskcc.org"	"GRCh37"	"5"	40384512	40384512	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001278832"	""	125	"86"	39	69	"69"	0	""	"C"	""	"ENSR00001278832"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"776a2946-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.312	"WGS"	FALSE
"7154"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	42261128	42261128	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"71"	27	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"776acca2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275510204081633	"WGS"	FALSE
"7155"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	44160006	44160006	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"rs199769905"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"80"	5	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs199769905"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0008"	"T:0.0008"	"T:0.0014"	NA	"T:0.001"	"T:0.001"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"776b80fc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"7156"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	45177267	45177267	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"88"	31	53	"52"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"776bb40a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260504201680672	"WGS"	FALSE
"7157"	"HCN1"	348980	"mskcc.org"	"GRCh37"	"5"	45671930	45671930	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.425+23841A>G"	""	""	"ENST00000303230"	""	118	"89"	29	56	"56"	0	"HCN1,intron_variant,,ENST00000303230,NM_021072.3;"	"C"	"ENSG00000164588"	"ENST00000303230"	"Transcript"	"intron_variant"	"-/5405"	"-/2673"	"-/890"	""	""	""	"1"	NA	-1	"HCN1"	"HGNC"	4845	"protein_coding"	"YES"	"CCDS3952.1"	"ENSP00000307342"	"O60741"	""	"UPI00001AED69"	"NM_021072.3"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTC"	"776bcfc6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245762711864407	"WGS"	FALSE
"7158"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	50342940	50342940	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"68"	36	55	"54"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"776f298c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"7159"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	50414833	50414833	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	124	"89"	35	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"776f3008-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282258064516129	"WGS"	FALSE
"7160"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	50992118	50992118	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"68"	30	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"776f6ce4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306122448979592	"WGS"	FALSE
"7161"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	51799610	51799610	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"74"	27	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"776f9804-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267326732673267	"WGS"	FALSE
"7162"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	52566238	52566238	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"77"	25	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"776fdb70-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245098039215686	"WGS"	FALSE
"7163"	"RNA5SP185"	0	"mskcc.org"	"GRCh37"	"5"	55557480	55557480	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390963"	""	115	"82"	33	57	"57"	0	"RNA5SP185,upstream_gene_variant,,ENST00000390963,;"	"T"	"ENSG00000212265"	"ENST00000390963"	"Transcript"	"upstream_gene_variant"	"-/114"	""	""	""	""	""	"1"	"1207"	-1	"RNA5SP185"	"HGNC"	43085	"rRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7770e10a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28695652173913	"WGS"	FALSE
"7164"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	56301820	56301820	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"45"	6	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7771064e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"7165"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	67228935	67228935	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"62"	42	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"77749160-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.403846153846154	"WGS"	FALSE
"7166"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	68060109	68060109	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"56"	28	52	"52"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7774df58-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"7167"	"MARVELD2"	153562	"mskcc.org"	"GRCh37"	"5"	68729387	68729387	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1503+467T>A"	""	""	"ENST00000325631"	""	79	"74"	5	49	"49"	0	"MARVELD2,intron_variant,,ENST00000454295,;MARVELD2,intron_variant,,ENST00000325631,NM_001038603.2,NM_001244734.1;MARVELD2,intron_variant,,ENST00000512803,;MARVELD2,intron_variant,,ENST00000413223,;MARVELD2,intron_variant,,ENST00000436532,;"	"A"	"ENSG00000152939"	"ENST00000325631"	"Transcript"	"intron_variant"	"-/2153"	"-/1677"	"-/558"	""	""	""	"1"	NA	1	"MARVELD2"	"HGNC"	26401	"protein_coding"	"YES"	"CCDS34175.1"	"ENSP00000323264"	"Q8N4S9"	"D6RAH8,D6RA09"	"UPI00001416EB"	"NM_001038603.2,NM_001244734.1"	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"777535c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0632911392405063	"WGS"	FALSE
"7168"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	71144017	71144017	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"68"	25	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"777641b8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"7169"	"FAM169A"	26049	"mskcc.org"	"GRCh37"	"5"	74126684	74126684	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.490+3567T>C"	""	""	"ENST00000389156"	""	111	"71"	40	58	"58"	0	"FAM169A,intron_variant,,ENST00000389156,NM_015566.2;FAM169A,intron_variant,,ENST00000510496,;FAM169A,intron_variant,,ENST00000380515,;FAM169A,intron_variant,,ENST00000513277,;FAM169A,intron_variant,,ENST00000514200,;FAM169A,intron_variant,,ENST00000514215,;FAM169A,intron_variant,,ENST00000510609,;"	"G"	"ENSG00000198780"	"ENST00000389156"	"Transcript"	"intron_variant"	"-/5990"	"-/2013"	"-/670"	""	""	""	"1"	NA	-1	"FAM169A"	"HGNC"	29138	"protein_coding"	"YES"	"CCDS43330.1"	"ENSP00000373808"	"Q9Y6X4"	"D6RFI5,D6RC41,D6R953"	"UPI000013E38E"	"NM_015566.2"	""	""	""	"5/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"77772ede-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36036036036036	"WGS"	FALSE
"7170"	"IQGAP2"	10788	"mskcc.org"	"GRCh37"	"5"	75952306	75952306	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2320+1478G>A"	""	""	"ENST00000274364"	""	90	"68"	22	61	"61"	0	"IQGAP2,intron_variant,,ENST00000274364,NM_006633.2,NM_001285460.1;IQGAP2,intron_variant,,ENST00000379730,;IQGAP2,intron_variant,,ENST00000505766,;IQGAP2,intron_variant,,ENST00000502745,NM_001285462.1;IQGAP2,intron_variant,,ENST00000396234,NM_001285461.1;IQGAP2,intron_variant,,ENST00000514350,;IQGAP2,intron_variant,,ENST00000514001,;IQGAP2,intron_variant,,ENST00000514579,;"	"A"	"ENSG00000145703"	"ENST00000274364"	"Transcript"	"intron_variant"	"-/5844"	"-/4728"	"-/1575"	""	""	""	"1"	NA	1	"IQGAP2"	"HGNC"	6111	"protein_coding"	"YES"	"CCDS34188.1"	"ENSP00000274364"	"Q13576"	"E7EWC2,D6R939"	"UPI000020CB2C"	"NM_006633.2,NM_001285460.1"	""	""	""	"20/35"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7777ffbc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244444444444444	"WGS"	FALSE
"7171"	"CTD-2037K23.1"	0	"mskcc.org"	"GRCh37"	"5"	77604645	77604645	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000509930"	""	107	"81"	26	59	"59"	0	"CTD-2037K23.1,downstream_gene_variant,,ENST00000509930,;"	"A"	"ENSG00000251605"	"ENST00000509930"	"Transcript"	"downstream_gene_variant"	"-/412"	""	""	""	""	""	"1"	"907"	1	"CTD-2037K23.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7778b1b4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242990654205607	"WGS"	FALSE
"7172"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"5"	78835368	78835368	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384661"	""	94	"87"	7	37	"37"	0	"Y_RNA,downstream_gene_variant,,ENST00000384661,;"	"T"	"ENSG00000207391"	"ENST00000384661"	"Transcript"	"downstream_gene_variant"	"-/102"	""	""	""	""	""	"1"	"4591"	1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"77793efe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"7173"	"MSH3"	4437	"mskcc.org"	"GRCh37"	"5"	80025233	80025233	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1568+449A>C"	""	""	"ENST00000265081"	""	51	"46"	5	37	"37"	0	"MSH3,intron_variant,,ENST00000265081,NM_002439.4;MSH3,intron_variant,,ENST00000512258,;"	"C"	"ENSG00000113318"	"ENST00000265081"	"Transcript"	"intron_variant"	"-/4092"	"-/3414"	"-/1137"	""	""	""	"1"	NA	1	"MSH3"	"HGNC"	7326	"protein_coding"	"YES"	"CCDS34195.1"	"ENSP00000265081"	"P20585"	""	"UPI0000DBEE85"	"NM_002439.4"	""	""	""	"10/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"7779cdd8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0980392156862745	"WGS"	FALSE
"7174"	"XRCC4"	7518	"mskcc.org"	"GRCh37"	"5"	82600885	82600885	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.893+46389G>T"	""	""	"ENST00000511817"	""	107	"72"	35	51	"51"	0	"XRCC4,intron_variant,,ENST00000282268,NM_003401.3,NM_022406.2,NM_022550.2;XRCC4,intron_variant,,ENST00000511817,;XRCC4,intron_variant,,ENST00000338635,;XRCC4,intron_variant,,ENST00000396027,;XRCC4,intron_variant,,ENST00000542685,;"	"T"	"ENSG00000152422"	"ENST00000511817"	"Transcript"	"intron_variant"	"-/1636"	"-/1011"	"-/336"	""	""	""	"1"	NA	1	"XRCC4"	"HGNC"	12831	"protein_coding"	"YES"	"CCDS4059.1"	"ENSP00000421491"	"Q13426"	""	"UPI000006DF4E"	""	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"777aca94-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.327102803738318	"WGS"	FALSE
"7175"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	82905561	82905561	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"55"	23	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"777add40-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294871794871795	"WGS"	FALSE
"7176"	"EDIL3"	10085	"mskcc.org"	"GRCh37"	"5"	83439210	83439210	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.356-6038G>T"	""	""	"ENST00000296591"	""	113	"77"	36	63	"62"	1	"EDIL3,intron_variant,,ENST00000296591,NM_005711.4;EDIL3,intron_variant,,ENST00000380138,NM_001278642.1;EDIL3,intron_variant,,ENST00000507663,;"	"A"	"ENSG00000164176"	"ENST00000296591"	"Transcript"	"intron_variant"	"-/4727"	"-/1443"	"-/480"	""	""	""	"1"	NA	-1	"EDIL3"	"HGNC"	3173	"protein_coding"	"YES"	"CCDS4062.1"	"ENSP00000296591"	"O43854"	""	"UPI000004D126"	"NM_005711.4"	""	""	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"777b05e0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.31858407079646	"WGS"	FALSE
"7177"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	84541737	84541737	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"102"	6	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"777b6418-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"7178"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	84592208	84592208	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"74"	36	56	"56"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"777b6c38-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.327272727272727	"WGS"	FALSE
"7179"	"RPS2P25"	0	"mskcc.org"	"GRCh37"	"5"	85061933	85061933	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000467247"	""	99	"75"	24	59	"59"	0	"RPS2P25,downstream_gene_variant,,ENST00000467247,;"	"A"	"ENSG00000241965"	"ENST00000467247"	"Transcript"	"downstream_gene_variant"	"-/580"	""	""	""	""	""	"1"	"2977"	1	"RPS2P25"	"HGNC"	36410	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"777b90fa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242424242424242	"WGS"	FALSE
"7180"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	87173515	87173515	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"78"	21	43	"43"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"777c59b8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212121212121212	"WGS"	FALSE
"7181"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	87321008	87321008	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"59"	28	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"777c5da0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32183908045977	"WGS"	FALSE
"7182"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	89267062	89267062	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"74"	28	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"777ced6a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274509803921569	"WGS"	FALSE
"7183"	"RP11-133F8.2"	0	"mskcc.org"	"GRCh37"	"5"	91803405	91803405	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs79418744"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.405+39650G>A"	""	""	"ENST00000512210"	""	104	"71"	33	59	"59"	0	"RP11-348J24.2,intron_variant,,ENST00000507217,;RP11-133F8.2,intron_variant,,ENST00000512210,;RP11-133F8.2,intron_variant,,ENST00000513779,;"	"T"	"ENSG00000249776"	"ENST00000512210"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/511"	""	""	""	""	"rs79418744"	"1"	NA	-1	"RP11-133F8.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	"T:0.0006"	"T:0"	"T:0"	NA	"T:0.003"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"777da1ba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317307692307692	"WGS"	FALSE
"7184"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	97023155	97023155	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"66"	34	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"777f154a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34	"WGS"	FALSE
"7185"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	97048447	97048447	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"62"	29	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"777f1888-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318681318681319	"WGS"	FALSE
"7186"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	97609651	97609651	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"79"	25	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"777f373c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240384615384615	"WGS"	FALSE
"7187"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	98183705	98183705	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"78"	36	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"777f6752-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WGS"	FALSE
"7188"	"RP11-93O17.2"	0	"mskcc.org"	"GRCh37"	"5"	98860764	98860764	"+"	"RNA"	"SNP"	"G"	"A"	"A"	"rs529311652"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.403C>T"	""	""	"ENST00000504077"	"1/1"	43	"26"	17	21	"20"	1	"RP11-93O17.2,non_coding_transcript_exon_variant,,ENST00000504077,;"	"A"	"ENSG00000206356"	"ENST00000504077"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"403/3152"	""	""	""	""	"rs529311652"	"1"	NA	-1	"RP11-93O17.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	"A:0.0038"	"A:0.0136"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"777fbb62-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.395348837209302	"WGS"	FALSE
"7189"	"ST8SIA4"	7903	"mskcc.org"	"GRCh37"	"5"	100149728	100149728	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.798-1895A>T"	""	""	"ENST00000231461"	""	87	"66"	21	59	"59"	0	"ST8SIA4,intron_variant,,ENST00000231461,NM_005668.5;MIR548P,downstream_gene_variant,,ENST00000408336,;"	"A"	"ENSG00000113532"	"ENST00000231461"	"Transcript"	"intron_variant"	"-/6303"	"-/1080"	"-/359"	""	""	""	"1"	NA	-1	"ST8SIA4"	"HGNC"	10871	"protein_coding"	"YES"	"CCDS4091.1"	"ENSP00000231461"	"Q92187"	""	"UPI0000135973"	"NM_005668.5"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"77806f3a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241379310344828	"WGS"	FALSE
"7190"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	100310156	100310156	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"90"	31	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"778077a0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256198347107438	"WGS"	FALSE
"7191"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	100625256	100625256	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"94"	7	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"77809802-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0693069306930693	"WGS"	FALSE
"7192"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	103690097	103690097	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"71"	31	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"77816f02-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303921568627451	"WGS"	FALSE
"7193"	"RP11-6N13.1"	0	"mskcc.org"	"GRCh37"	"5"	104208622	104208622	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.328+13937G>A"	""	""	"ENST00000503650"	""	107	"81"	26	58	"58"	0	"RP11-6N13.1,intron_variant,,ENST00000503650,;RP11-6N13.1,intron_variant,,ENST00000524336,;"	"T"	"ENSG00000251574"	"ENST00000503650"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/777"	""	""	""	""	""	"1"	NA	-1	"RP11-6N13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7781b552-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242990654205607	"WGS"	FALSE
"7194"	"RP11-6N13.1"	0	"mskcc.org"	"GRCh37"	"5"	104665557	104665557	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.210+62905T>A"	""	""	"ENST00000503650"	""	111	"84"	27	51	"51"	0	"RP11-6N13.1,intron_variant,,ENST00000503650,;"	"T"	"ENSG00000251574"	"ENST00000503650"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/777"	""	""	""	""	""	"1"	NA	-1	"RP11-6N13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7781d456-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.243243243243243	"WGS"	FALSE
"7195"	"EFNA5"	1946	"mskcc.org"	"GRCh37"	"5"	107005209	107005209	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.125+981C>T"	""	""	"ENST00000333274"	""	66	"48"	18	48	"48"	0	"EFNA5,intron_variant,,ENST00000333274,NM_001962.2;EFNA5,intron_variant,,ENST00000509503,;EFNA5,intron_variant,,ENST00000504941,;"	"A"	"ENSG00000184349"	"ENST00000333274"	"Transcript"	"intron_variant"	"-/5335"	"-/687"	"-/228"	""	""	""	"1"	NA	-1	"EFNA5"	"HGNC"	3225	"protein_coding"	"YES"	"CCDS4097.1"	"ENSP00000328777"	"P52803"	""	"UPI0000129C93"	"NM_001962.2"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"77828784-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"7196"	"FBXL17"	64839	"mskcc.org"	"GRCh37"	"5"	107251110	107251110	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1823-34230G>A"	""	""	"ENST00000542267"	""	95	"69"	26	63	"63"	0	"FBXL17,intron_variant,,ENST00000542267,NM_001163315.2;FBXL17,intron_variant,,ENST00000359660,;FBXL17,intron_variant,,ENST00000496714,;"	"T"	"ENSG00000145743"	"ENST00000542267"	"Transcript"	"intron_variant"	"-/5188"	"-/2106"	"-/701"	""	""	""	"1"	NA	-1	"FBXL17"	"HGNC"	13615	"protein_coding"	"YES"	"CCDS54886.1"	"ENSP00000437464"	"Q9UF56"	""	"UPI00019B21FB"	"NM_001163315.2"	""	""	""	"7/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"77829d14-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"7197"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	109619489	109619489	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"57"	31	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"778348cc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352272727272727	"WGS"	FALSE
"7198"	"MCC"	4163	"mskcc.org"	"GRCh37"	"5"	112409089	112409089	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1785-2158G>A"	""	""	"ENST00000408903"	""	97	"70"	27	51	"51"	0	"MCC,intron_variant,,ENST00000302475,NM_002387.2;MCC,intron_variant,,ENST00000515367,;MCC,intron_variant,,ENST00000408903,NM_001085377.1;MCC,intron_variant,,ENST00000514701,;"	"T"	"ENSG00000171444"	"ENST00000408903"	"Transcript"	"intron_variant"	"-/3476"	"-/3060"	"-/1019"	""	""	""	"1"	NA	-1	"MCC"	"HGNC"	6935	"protein_coding"	"YES"	"CCDS43351.1"	"ENSP00000386227"	"P23508"	"D6REY2"	"UPI00015E06EA"	"NM_001085377.1"	""	""	""	"11/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"77840ca8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278350515463918	"WGS"	FALSE
"7199"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	115129324	115129324	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"66"	31	67	"67"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7784c800-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319587628865979	"WGS"	FALSE
"7200"	"CTD-3179P9.1"	0	"mskcc.org"	"GRCh37"	"5"	117548576	117548576	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.125+25290C>G"	""	""	"ENST00000509367"	""	92	"58"	34	53	"53"	0	"CTD-3179P9.1,intron_variant,,ENST00000509367,;"	"G"	"ENSG00000249797"	"ENST00000509367"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/807"	""	""	""	""	""	"1"	NA	1	"CTD-3179P9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"778592b2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.369565217391304	"WGS"	FALSE
"7201"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	119110966	119110966	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"54"	24	45	"45"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"77863f00-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"7202"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	126179893	126179893	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	53	"46"	7	23	"23"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7788d9ae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.132075471698113	"WGS"	FALSE
"7203"	"MEGF10"	84466	"mskcc.org"	"GRCh37"	"5"	126679303	126679303	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.319+2981A>C"	""	""	"ENST00000274473"	""	89	"61"	28	59	"59"	0	"MEGF10,intron_variant,,ENST00000274473,NM_032446.2;MEGF10,intron_variant,,ENST00000503335,NM_001256545.1;MEGF10,intron_variant,,ENST00000508365,;MEGF10,intron_variant,,ENST00000418761,;"	"C"	"ENSG00000145794"	"ENST00000274473"	"Transcript"	"intron_variant"	"-/7594"	"-/3423"	"-/1140"	""	""	""	"1"	NA	1	"MEGF10"	"HGNC"	29634	"protein_coding"	"YES"	"CCDS4142.1"	"ENSP00000274473"	"Q96KG7"	""	"UPI000006F868"	"NM_032446.2"	""	""	""	"5/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"7788f8a8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314606741573034	"WGS"	FALSE
"7204"	"CHSY3"	337876	"mskcc.org"	"GRCh37"	"5"	129502407	129502407	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1087-17515C>T"	""	""	"ENST00000305031"	""	102	"69"	33	54	"54"	0	"CHSY3,intron_variant,,ENST00000305031,NM_175856.4;CHSY3,intron_variant,,ENST00000507545,;"	"T"	"ENSG00000198108"	"ENST00000305031"	"Transcript"	"intron_variant"	"-/3850"	"-/2649"	"-/882"	""	""	""	"1"	NA	1	"CHSY3"	"HGNC"	24293	"protein_coding"	"YES"	"CCDS34223.1"	"ENSP00000302629"	"Q70JA7"	"Q1JTV1"	"UPI0000251E08"	"NM_175856.4"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"77899e0c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323529411764706	"WGS"	FALSE
"7205"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	130019221	130019221	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"81"	34	64	"64"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"7789c3aa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295652173913043	"WGS"	FALSE
"7206"	"SLC22A5"	6584	"mskcc.org"	"GRCh37"	"5"	131705020	131705020	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000245407"	""	84	"60"	24	57	"57"	0	"SLC22A5,upstream_gene_variant,,ENST00000245407,NM_003060.3;SLC22A5,upstream_gene_variant,,ENST00000435065,;SLC22A5,upstream_gene_variant,,ENST00000415928,;MIR3936,upstream_gene_variant,,ENST00000584304,;AC034220.3,intron_variant,,ENST00000417795,;AC034220.3,intron_variant,,ENST00000457998,;SLC22A5,upstream_gene_variant,,ENST00000437841,;"	"T"	"ENSG00000197375"	"ENST00000245407"	"Transcript"	"upstream_gene_variant"	"-/3237"	"-/1674"	"-/557"	""	""	""	"1"	"424"	1	"SLC22A5"	"HGNC"	10969	"protein_coding"	"YES"	"CCDS4154.1"	"ENSP00000245407"	"O76082"	""	"UPI0000130BB6"	"NM_003060.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"778a5ce8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"7207"	"PITX1"	5307	"mskcc.org"	"GRCh37"	"5"	134363298	134363298	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000265340"	""	92	"73"	19	53	"53"	0	"PITX1,downstream_gene_variant,,ENST00000265340,NM_002653.4;PITX1,downstream_gene_variant,,ENST00000506438,;PITX1,downstream_gene_variant,,ENST00000502676,;PITX1,downstream_gene_variant,,ENST00000503586,;PITX1,downstream_gene_variant,,ENST00000507253,;PITX1,downstream_gene_variant,,ENST00000504936,;"	"A"	"ENSG00000069011"	"ENST00000265340"	"Transcript"	"downstream_gene_variant"	"-/2406"	"-/945"	"-/314"	""	""	""	"1"	"127"	-1	"PITX1"	"HGNC"	9004	"protein_coding"	"YES"	"CCDS4182.1"	"ENSP00000265340"	"P78337"	"D6R9U1,D6R955"	"UPI0000169650"	"NM_002653.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"778b8636-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206521739130435	"WGS"	FALSE
"7208"	"PITX1"	5307	"mskcc.org"	"GRCh37"	"5"	134363299	134363299	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000265340"	""	94	"75"	19	53	"53"	0	"PITX1,downstream_gene_variant,,ENST00000265340,NM_002653.4;PITX1,downstream_gene_variant,,ENST00000506438,;PITX1,downstream_gene_variant,,ENST00000502676,;PITX1,downstream_gene_variant,,ENST00000503586,;PITX1,downstream_gene_variant,,ENST00000507253,;PITX1,downstream_gene_variant,,ENST00000504936,;"	"T"	"ENSG00000069011"	"ENST00000265340"	"Transcript"	"downstream_gene_variant"	"-/2406"	"-/945"	"-/314"	""	""	""	"1"	"126"	-1	"PITX1"	"HGNC"	9004	"protein_coding"	"YES"	"CCDS4182.1"	"ENSP00000265340"	"P78337"	"D6R9U1,D6R955"	"UPI0000169650"	"NM_002653.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"778b8744-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202127659574468	"WGS"	FALSE
"7209"	"PITX1"	5307	"mskcc.org"	"GRCh37"	"5"	134363306	134363306	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000265340"	""	97	"76"	21	57	"57"	0	"PITX1,downstream_gene_variant,,ENST00000265340,NM_002653.4;PITX1,downstream_gene_variant,,ENST00000506438,;PITX1,downstream_gene_variant,,ENST00000502676,;PITX1,downstream_gene_variant,,ENST00000503586,;PITX1,downstream_gene_variant,,ENST00000507253,;PITX1,downstream_gene_variant,,ENST00000504936,;"	"G"	"ENSG00000069011"	"ENST00000265340"	"Transcript"	"downstream_gene_variant"	"-/2406"	"-/945"	"-/314"	""	""	""	"1"	"119"	-1	"PITX1"	"HGNC"	9004	"protein_coding"	"YES"	"CCDS4182.1"	"ENSP00000265340"	"P78337"	"D6R9U1,D6R955"	"UPI0000169650"	"NM_002653.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"778b883e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216494845360825	"WGS"	FALSE
"7210"	"MYOT"	9499	"mskcc.org"	"GRCh37"	"5"	137202480	137202480	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000239926"	""	102	"66"	36	50	"50"	0	"MYOT,upstream_gene_variant,,ENST00000239926,NM_006790.2;MYOT,upstream_gene_variant,,ENST00000515645,;MYOT,upstream_gene_variant,,ENST00000421631,NM_001135940.1;RP11-381K20.2,intron_variant,,ENST00000514616,;MYOT,upstream_gene_variant,,ENST00000509812,;MYOT,upstream_gene_variant,,ENST00000511625,;"	"A"	"ENSG00000120729"	"ENST00000239926"	"Transcript"	"upstream_gene_variant"	"-/2337"	"-/1497"	"-/498"	""	""	""	"1"	"1000"	1	"MYOT"	"HGNC"	12399	"protein_coding"	"YES"	"CCDS4194.1"	"ENSP00000239926"	"Q9UBF9"	"B4DT68"	"UPI000013CA96"	"NM_006790.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"778c5be2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WGS"	FALSE
"7211"	"CTNNA1"	1495	"mskcc.org"	"GRCh37"	"5"	138007938	138007938	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-162+19127A>T"	""	""	"ENST00000517980"	""	81	"75"	6	40	"40"	0	"CTNNA1,intron_variant,,ENST00000517980,;CTNNA1,intron_variant,,ENST00000522227,;CTNNA1,intron_variant,,ENST00000524127,;"	"T"	"ENSG00000044115"	"ENST00000517980"	"Transcript"	"intron_variant"	"-/696"	"-/353"	"-/117"	""	""	""	"1"	NA	1	"CTNNA1"	"HGNC"	2509	"protein_coding"	""	""	"ENSP00000428439"	""	"E5RJL0,E5RIE0,E5RFM3"	"UPI0001E8F604"	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"778cd1da-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"7212"	"CTNNA1"	1495	"mskcc.org"	"GRCh37"	"5"	138146943	138146943	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.469-929A>C"	""	""	"ENST00000302763"	""	27	"24"	3	18	"18"	0	"CTNNA1,intron_variant,,ENST00000302763,NM_001903.2;CTNNA1,intron_variant,,ENST00000518825,;CTNNA1,intron_variant,,ENST00000355078,;CTNNA1,intron_variant,,ENST00000520158,;CTNNA1,intron_variant,,ENST00000518910,;CTNNA1,downstream_gene_variant,,ENST00000519113,;CTNNA1,downstream_gene_variant,,ENST00000517980,;CTNNA1,downstream_gene_variant,,ENST00000522227,;CTNNA1,downstream_gene_variant,,ENST00000523912,;CTNNA1,intron_variant,,ENST00000518585,;CTNNA1,intron_variant,,ENST00000521724,;CTNNA1,intron_variant,,ENST00000519309,;CTNNA1,upstream_gene_variant,,ENST00000518919,;"	"C"	"ENSG00000044115"	"ENST00000302763"	"Transcript"	"intron_variant"	"-/3756"	"-/2721"	"-/906"	""	""	""	"1"	NA	1	"CTNNA1"	"HGNC"	2509	"protein_coding"	"YES"	"CCDS34243.1"	"ENSP00000304669"	"P35221"	"F8W845,E5RJP7,E5RJL0,E5RJC9,E5RJ43,E5RJ41,E5RIE0,E5RIB1,E5RHY5,E5RHV7,E5RHR7,E5RHJ5,E5RGY6,E5RGU3,E5RGS1,E5RGG4,E5RGD2,E5RG03,E5RFM5,E5RFM3,E5RFK9,E5RFG3,B4E2G8,B4DKT9"	"UPI000012862C"	"NM_001903.2"	""	""	""	"4/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"778d0b14-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"7213"	"SLC23A1"	9963	"mskcc.org"	"GRCh37"	"5"	138706355	138706355	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*19+1321T>A"	""	""	"ENST00000353963"	""	88	"82"	6	44	"44"	0	"SLC23A1,intron_variant,,ENST00000353963,NM_152685.3;SLC23A1,intron_variant,,ENST00000348729,NM_005847.4;PAIP2,downstream_gene_variant,,ENST00000394795,;PAIP2,downstream_gene_variant,,ENST00000265192,NM_016480.3;PAIP2,downstream_gene_variant,,ENST00000510080,NM_001033112.1;PAIP2,downstream_gene_variant,,ENST00000511706,;CTB-43P18.1,upstream_gene_variant,,ENST00000503553,;PAIP2,downstream_gene_variant,,ENST00000511381,;"	"T"	"ENSG00000170482"	"ENST00000353963"	"Transcript"	"intron_variant"	"-/2303"	"-/1809"	"-/602"	""	""	""	"1"	NA	-1	"SLC23A1"	"HGNC"	10974	"protein_coding"	"YES"	"CCDS4213.1"	"ENSP00000302851"	"Q9UHI7"	""	"UPI000020C6FE"	"NM_152685.3"	""	""	""	"14/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"778d4908-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"7214"	"PCDHA3"	56146	"mskcc.org"	"GRCh37"	"5"	140182972	140182972	"+"	"Silent"	"SNP"	"C"	"T"	"T"	""	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2190C>T"	"p.="	"p.G730G"	"ENST00000522353"	"1/4"	96	"67"	29	54	"54"	0	"PCDHA3,synonymous_variant,p.=,ENST00000522353,NM_018906.2;PCDHA3,synonymous_variant,p.=,ENST00000532566,NM_031497.1;PCDHA1,intron_variant,,ENST00000504120,NM_018900.2;PCDHA2,intron_variant,,ENST00000526136,NM_018905.2;PCDHA1,intron_variant,,ENST00000394633,NM_031411.1;PCDHA2,intron_variant,,ENST00000520672,NM_031496.1;PCDHA4,upstream_gene_variant,,ENST00000530339,NM_018907.2;PCDHA4,upstream_gene_variant,,ENST00000512229,;PCDHA4,upstream_gene_variant,,ENST00000356878,NM_031500.1;"	"T"	"ENSG00000255408"	"ENST00000522353"	"Transcript"	"synonymous_variant"	"2190/5260"	"2190/2853"	"730/950"	"G"	"ggC/ggT"	"COSM1061907,COSM1061906"	"1"	NA	1	"PCDHA3"	"HGNC"	8669	"protein_coding"	"YES"	"CCDS54915.1"	"ENSP00000429808"	"Q9Y5H8"	""	"UPI00001273CB"	"NM_018906.2"	""	""	"1/4"	""	"hmmpanther:PTHR24028,hmmpanther:PTHR24028:SF93"	""	""	""	NA	""	""	""	""	""	NA	"1,1"	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	"1,1"	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"778de91c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302083333333333	"WGS"	FALSE
"7215"	"PCDHA9"	9752	"mskcc.org"	"GRCh37"	"5"	140315185	140315185	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2395-43349T>G"	""	""	"ENST00000532602"	""	110	"103"	7	58	"58"	0	"PCDHA9,intron_variant,,ENST00000532602,NM_031857.1;PCDHA6,intron_variant,,ENST00000529310,NM_018909.2,NM_031849.1,NM_031848.2;PCDHAC1,intron_variant,,ENST00000253807,NM_018898.3;PCDHA13,intron_variant,,ENST00000289272,NM_018904.2,NM_031865.1;PCDHA1,intron_variant,,ENST00000504120,NM_018900.2;PCDHA3,intron_variant,,ENST00000522353,NM_018906.2;PCDHA8,intron_variant,,ENST00000531613,NM_018911.2;PCDHA11,intron_variant,,ENST00000398640,NM_018902.3;PCDHA10,intron_variant,,ENST00000307360,NM_018901.2;PCDHA2,intron_variant,,ENST00000526136,NM_018905.2;PCDHA4,intron_variant,,ENST00000530339,NM_018907.2;PCDHA12,intron_variant,,ENST00000398631,NM_018903.2,NM_031864.2;PCDHA7,intron_variant,,ENST00000525929,NM_018910.2;PCDHA5,intron_variant,,ENST00000529859,NM_018908.2;PCDHA13,intron_variant,,ENST00000409494,NM_031865.1;PCDHA1,intron_variant,,ENST00000394633,NM_031411.1;PCDHA4,intron_variant,,ENST00000512229,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA10,intron_variant,,ENST00000506939,NM_031860.1;PCDHA6,intron_variant,,ENST00000527624,;"	"G"	"ENSG00000204961"	"ENST00000532602"	"Transcript"	"intron_variant"	"-/6293"	"-/2853"	"-/950"	""	""	""	"1"	NA	1	"PCDHA9"	"HGNC"	8675	"protein_coding"	"YES"	"CCDS54920.1"	"ENSP00000436042"	"Q9Y5H5"	""	"UPI00001273D1"	"NM_031857.1"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"778dedae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0636363636363636	"WGS"	FALSE
"7216"	"PCDHA9"	9752	"mskcc.org"	"GRCh37"	"5"	140330738	140330738	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2395-27796G>T"	""	""	"ENST00000532602"	""	32	"28"	4	20	"20"	0	"PCDHA9,intron_variant,,ENST00000532602,NM_031857.1;PCDHA6,intron_variant,,ENST00000529310,NM_018909.2,NM_031849.1,NM_031848.2;PCDHAC1,intron_variant,,ENST00000253807,NM_018898.3;PCDHA13,intron_variant,,ENST00000289272,NM_018904.2,NM_031865.1;PCDHA1,intron_variant,,ENST00000504120,NM_018900.2;PCDHA3,intron_variant,,ENST00000522353,NM_018906.2;PCDHA8,intron_variant,,ENST00000531613,NM_018911.2;PCDHA11,intron_variant,,ENST00000398640,NM_018902.3;PCDHA10,intron_variant,,ENST00000307360,NM_018901.2;PCDHA2,intron_variant,,ENST00000526136,NM_018905.2;PCDHA4,intron_variant,,ENST00000530339,NM_018907.2;PCDHA12,intron_variant,,ENST00000398631,NM_018903.2,NM_031864.2;PCDHA7,intron_variant,,ENST00000525929,NM_018910.2;PCDHA5,intron_variant,,ENST00000529859,NM_018908.2;PCDHA13,intron_variant,,ENST00000409494,NM_031865.1;PCDHA1,intron_variant,,ENST00000394633,NM_031411.1;PCDHA4,intron_variant,,ENST00000512229,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA10,intron_variant,,ENST00000506939,NM_031860.1;PCDHA6,intron_variant,,ENST00000527624,;"	"T"	"ENSG00000204961"	"ENST00000532602"	"Transcript"	"intron_variant"	"-/6293"	"-/2853"	"-/950"	""	""	""	"1"	NA	1	"PCDHA9"	"HGNC"	8675	"protein_coding"	"YES"	"CCDS54920.1"	"ENSP00000436042"	"Q9Y5H5"	""	"UPI00001273D1"	"NM_031857.1"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"778df0ec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"7217"	"ARHGAP26"	23092	"mskcc.org"	"GRCh37"	"5"	142432788	142432788	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1286-1216G>A"	""	""	"ENST00000274498"	""	98	"62"	36	61	"61"	0	"ARHGAP26,intron_variant,,ENST00000378004,NM_001135608.1;ARHGAP26,intron_variant,,ENST00000274498,NM_015071.4;ARHGAP26,intron_variant,,ENST00000443674,;ARHGAP26,upstream_gene_variant,,ENST00000418236,;ARHGAP26,upstream_gene_variant,,ENST00000443045,;ARHGAP26,intron_variant,,ENST00000469131,;"	"A"	"ENSG00000145819"	"ENST00000274498"	"Transcript"	"intron_variant"	"-/6862"	"-/2445"	"-/814"	""	""	""	"1"	NA	1	"ARHGAP26"	"HGNC"	17073	"protein_coding"	"YES"	"CCDS4277.1"	"ENSP00000274498"	"Q9UNA1"	"Q9HBW4,Q8NFJ1,C9J6V4"	"UPI0000130D6B"	"NM_015071.4"	""	""	""	"14/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"778eba0e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36734693877551	"WGS"	TRUE
"7218"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	143956508	143956508	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"52"	37	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"778f405a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.415730337078652	"WGS"	FALSE
"7219"	"LARS"	51520	"mskcc.org"	"GRCh37"	"5"	145516222	145516222	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2149-995C>A"	""	""	"ENST00000394434"	""	86	"80"	6	40	"40"	0	"LARS,intron_variant,,ENST00000394434,NM_020117.9;LARS,intron_variant,,ENST00000274562,;LARS,intron_variant,,ENST00000545646,;LARS,intron_variant,,ENST00000510191,;LARS,intron_variant,,ENST00000512412,;LARS,upstream_gene_variant,,ENST00000506231,;RP11-449H3.1,upstream_gene_variant,,ENST00000477363,;RP11-449H3.2,upstream_gene_variant,,ENST00000495857,;"	"T"	"ENSG00000133706"	"ENST00000394434"	"Transcript"	"intron_variant"	"-/4766"	"-/3531"	"-/1176"	""	""	""	"1"	NA	-1	"LARS"	"HGNC"	6512	"protein_coding"	"YES"	"CCDS34265.1"	"ENSP00000377954"	"Q9P2J5"	"Q9NVC0,Q9NPU8,Q9HAM7,Q2TU79,B4DJ10,B3KXA9"	"UPI0000037316"	"NM_020117.9"	""	""	""	"21/31"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"778fb6a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"7220"	"STK32A"	202374	"mskcc.org"	"GRCh37"	"5"	146763266	146763266	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1098-187C>T"	""	""	"ENST00000397936"	""	107	"82"	25	69	"69"	0	"STK32A,intron_variant,,ENST00000397936,NM_001112724.1;STK32A,intron_variant,,ENST00000398523,;STK32A,intron_variant,,ENST00000515832,;STK32A,intron_variant,,ENST00000506091,;STK32A,intron_variant,,ENST00000510953,;"	"T"	"ENSG00000169302"	"ENST00000397936"	"Transcript"	"intron_variant"	"-/5393"	"-/1191"	"-/396"	""	""	""	"1"	NA	1	"STK32A"	"HGNC"	28317	"protein_coding"	"YES"	"CCDS47299.1"	"ENSP00000381030"	"Q8WU08"	""	"UPI000003FDBE"	"NM_001112724.1"	""	""	""	"12/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"77902394-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233644859813084	"WGS"	FALSE
"7221"	"SH3TC2"	79628	"mskcc.org"	"GRCh37"	"5"	148338437	148338437	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.232-3989G>T"	""	""	"ENST00000510350"	""	87	"62"	25	50	"50"	0	"SH3TC2,intron_variant,,ENST00000510350,;SH3TC2,intron_variant,,ENST00000504690,;"	"A"	"ENSG00000169247"	"ENST00000510350"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/316"	""	""	""	""	""	"1"	NA	-1	"SH3TC2"	"HGNC"	29427	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"7790a2ce-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28735632183908	"WGS"	FALSE
"7222"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	148863637	148863637	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"76"	7	43	"43"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7790c6be-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"7223"	"AC091969.1"	101927134	"mskcc.org"	"GRCh37"	"5"	152168176	152168176	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.234+31629G>T"	""	""	"ENST00000522300"	""	95	"69"	26	55	"55"	0	"AC091969.1,intron_variant,,ENST00000522300,;AC091969.1,intron_variant,,ENST00000503048,;"	"A"	"ENSG00000249484"	"ENST00000522300"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2108"	""	""	""	""	""	"1"	NA	-1	"AC091969.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"779252f4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"7224"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	152797306	152797306	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"69"	24	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"77929e26-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258064516129032	"WGS"	FALSE
"7225"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	154695040	154695040	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"87"	31	51	"51"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"7793456a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26271186440678	"WGS"	FALSE
"7226"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	155215387	155215387	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"101"	5	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"77935f50-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0471698113207547	"WGS"	FALSE
"7227"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	155242606	155242606	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"60"	31	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"779368a6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340659340659341	"WGS"	FALSE
"7228"	"SGCD"	6444	"mskcc.org"	"GRCh37"	"5"	155440058	155440058	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-281-104830T>G"	""	""	"ENST00000517913"	""	73	"64"	9	59	"59"	0	"SGCD,intron_variant,,ENST00000517913,;"	"G"	"ENSG00000170624"	"ENST00000517913"	"Transcript"	"intron_variant"	"-/1412"	"-/771"	"-/256"	""	""	""	"1"	NA	1	"SGCD"	"HGNC"	10807	"protein_coding"	""	"CCDS47326.1"	"ENSP00000429378"	"Q92629"	""	"UPI000014A6BA"	""	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"77936fc2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123287671232877	"WGS"	FALSE
"7229"	"ENSR00001774248"	0	"mskcc.org"	"GRCh37"	"5"	157441712	157441712	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001774248"	""	86	"60"	26	54	"54"	0	""	"G"	""	"ENSR00001774248"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"779424a8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302325581395349	"WGS"	FALSE
"7230"	"RP11-541P9.3"	0	"mskcc.org"	"GRCh37"	"5"	162523410	162523410	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.118-7058G>A"	""	""	"ENST00000509211"	""	108	"75"	33	59	"59"	0	"RP11-541P9.3,intron_variant,,ENST00000509211,;RP11-541P9.3,intron_variant,,ENST00000458002,;"	"T"	"ENSG00000250061"	"ENST00000509211"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/630"	""	""	""	""	""	"1"	NA	-1	"RP11-541P9.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7795f3fa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305555555555556	"WGS"	FALSE
"7231"	"RP11-541P9.3"	0	"mskcc.org"	"GRCh37"	"5"	162781514	162781514	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs756824791"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.355+71295C>T"	""	""	"ENST00000503504"	""	89	"60"	29	67	"67"	0	"RP11-541P9.3,intron_variant,,ENST00000503504,;RP11-541P9.3,intron_variant,,ENST00000458002,;"	"A"	"ENSG00000250061"	"ENST00000503504"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/492"	""	""	""	""	"rs756824791"	"1"	NA	-1	"RP11-541P9.3"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"77960926-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325842696629214	"WGS"	FALSE
"7232"	"CTC-535M15.2"	0	"mskcc.org"	"GRCh37"	"5"	165095602	165095602	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.22-109380T>C"	""	""	"ENST00000522189"	""	100	"68"	32	51	"51"	0	"CTC-535M15.2,intron_variant,,ENST00000522189,;"	"C"	"ENSG00000253693"	"ENST00000522189"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/734"	""	""	""	""	""	"1"	NA	1	"CTC-535M15.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"7796e4fe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32	"WGS"	FALSE
"7233"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	165461709	165461709	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"91"	6	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"77970920-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0618556701030928	"WGS"	FALSE
"7234"	"AC122720.1"	0	"mskcc.org"	"GRCh37"	"5"	165587566	165587566	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000583869"	""	113	"74"	39	50	"50"	0	"AC122720.1,upstream_gene_variant,,ENST00000583869,;"	"T"	"ENSG00000264903"	"ENST00000583869"	"Transcript"	"upstream_gene_variant"	"-/88"	""	""	""	""	""	"1"	"1041"	-1	"AC122720.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"77971780-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.345132743362832	"WGS"	FALSE
"7235"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	166230081	166230081	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"69"	19	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"77973f9e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215909090909091	"WGS"	FALSE
"7236"	"TENM2"	57451	"mskcc.org"	"GRCh37"	"5"	167581151	167581151	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"rs201696529"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2423-8465T>A"	""	""	"ENST00000518659"	""	69	"64"	5	29	"29"	0	"TENM2,intron_variant,,ENST00000519204,;TENM2,intron_variant,,ENST00000403607,;TENM2,intron_variant,,ENST00000518659,NM_001122679.1;TENM2,intron_variant,,ENST00000545108,;TENM2,intron_variant,,ENST00000520394,;CTB-178M22.1,intron_variant,,ENST00000517408,;"	"A"	"ENSG00000145934"	"ENST00000518659"	"Transcript"	"intron_variant"	"-/8550"	"-/8325"	"-/2774"	""	""	"rs201696529"	"1"	NA	1	"TENM2"	"HGNC"	29943	"protein_coding"	"YES"	""	"ENSP00000429430"	"Q9NT68"	"G8BLJ6,G3CAS7"	"UPI0001C48FC2"	"NM_001122679.1"	""	""	""	"12/28"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7797c84c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072463768115942	"WGS"	FALSE
"7237"	"SLIT3"	6586	"mskcc.org"	"GRCh37"	"5"	168306494	168306494	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.485+3776G>T"	""	""	"ENST00000519560"	""	103	"72"	31	65	"65"	0	"SLIT3,intron_variant,,ENST00000519560,NM_003062.3,NM_001271946.1;SLIT3,intron_variant,,ENST00000332966,;SLIT3,intron_variant,,ENST00000404867,;SLIT3,intron_variant,,ENST00000518140,;"	"A"	"ENSG00000184347"	"ENST00000519560"	"Transcript"	"intron_variant"	"-/9706"	"-/4572"	"-/1523"	""	""	""	"1"	NA	-1	"SLIT3"	"HGNC"	11087	"protein_coding"	"YES"	"CCDS4369.1"	"ENSP00000430333"	"O75094"	""	"UPI00001B0229"	"NM_003062.3,NM_001271946.1"	""	""	""	"5/35"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"7798226a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.300970873786408	"WGS"	FALSE
"7238"	"FGF18"	8817	"mskcc.org"	"GRCh37"	"5"	170857255	170857255	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.70-5842C>G"	""	""	"ENST00000274625"	""	82	"76"	6	42	"42"	0	"FGF18,intron_variant,,ENST00000274625,NM_003862.2;"	"G"	"ENSG00000156427"	"ENST00000274625"	"Transcript"	"intron_variant"	"-/1986"	"-/624"	"-/207"	""	""	""	"1"	NA	1	"FGF18"	"HGNC"	3674	"protein_coding"	"YES"	"CCDS4378.1"	"ENSP00000274625"	"O76093"	""	"UPI000003C116"	"NM_003862.2"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"77992dfe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"7239"	"FBXW11"	23291	"mskcc.org"	"GRCh37"	"5"	171316518	171316518	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.789+1953A>G"	""	""	"ENST00000265094"	""	60	"55"	5	38	"38"	0	"FBXW11,intron_variant,,ENST00000296933,NM_033645.2,NM_033644.2;FBXW11,intron_variant,,ENST00000265094,NM_012300.2;FBXW11,intron_variant,,ENST00000393802,;FBXW11,intron_variant,,ENST00000425623,;FBXW11,intron_variant,,ENST00000522891,;FBXW11,intron_variant,,ENST00000523843,;"	"C"	"ENSG00000072803"	"ENST00000265094"	"Transcript"	"intron_variant"	"-/4342"	"-/1629"	"-/542"	""	""	""	"1"	NA	-1	"FBXW11"	"HGNC"	13607	"protein_coding"	"YES"	"CCDS34289.1"	"ENSP00000265094"	"Q9UKB1"	""	"UPI000012ADB8"	"NM_012300.2"	""	""	""	"6/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"779955fe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"7240"	"BOD1"	91272	"mskcc.org"	"GRCh37"	"5"	173045556	173045556	"+"	"5'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000311086"	""	107	"73"	34	54	"54"	0	"BOD1,upstream_gene_variant,,ENST00000311086,NM_138369.2;BOD1,upstream_gene_variant,,ENST00000285908,NM_001159651.1;BOD1,upstream_gene_variant,,ENST00000477985,;BOD1,upstream_gene_variant,,ENST00000480951,;BOD1,upstream_gene_variant,,ENST00000462674,;BOD1,upstream_gene_variant,,ENST00000471339,;"	"T"	"ENSG00000145919"	"ENST00000311086"	"Transcript"	"upstream_gene_variant"	"-/1562"	"-/558"	"-/185"	""	""	""	"1"	"1893"	-1	"BOD1"	"HGNC"	25114	"protein_coding"	"YES"	"CCDS4389.1"	"ENSP00000309644"	"Q96IK1"	"C9J8U9"	"UPI00001A92E5"	"NM_138369.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"779a5a9e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317757009345794	"WGS"	FALSE
"7241"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	174585714	174585714	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"75"	26	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"779b4fa8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257425742574257	"WGS"	FALSE
"7242"	"RN7SKP148"	0	"mskcc.org"	"GRCh37"	"5"	175053474	175053474	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000410179"	""	59	"46"	13	43	"43"	0	"RN7SKP148,upstream_gene_variant,,ENST00000410179,;"	"T"	"ENSG00000222111"	"ENST00000410179"	"Transcript"	"upstream_gene_variant"	"-/275"	""	""	""	""	""	"1"	"1717"	1	"RN7SKP148"	"HGNC"	45872	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"779b8e0a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220338983050847	"WGS"	FALSE
"7243"	"SIMC1"	375484	"mskcc.org"	"GRCh37"	"5"	175703955	175703955	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.130-18078G>C"	""	""	"ENST00000341199"	""	67	"49"	18	49	"49"	0	"SIMC1,intron_variant,,ENST00000443967,;SIMC1,intron_variant,,ENST00000341199,NM_198567.4;SIMC1,intron_variant,,ENST00000429602,;SIMC1,intron_variant,,ENST00000430704,;SIMC1,intron_variant,,ENST00000503595,;SIMC1,intron_variant,,ENST00000514128,;SIMC1,intron_variant,,ENST00000508769,;SIMC1,intron_variant,,ENST00000467472,;SIMC1,intron_variant,,ENST00000495423,;"	"C"	"ENSG00000170085"	"ENST00000341199"	"Transcript"	"intron_variant"	"-/2061"	"-/1374"	"-/457"	""	""	""	"1"	NA	1	"SIMC1"	"HGNC"	24779	"protein_coding"	"YES"	"CCDS4398.2"	"ENSP00000342075"	"Q8NDZ2"	""	"UPI00000742BB"	"NM_198567.4"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"779c6aaa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26865671641791	"WGS"	FALSE
"7244"	"ENSR00001416886"	0	"mskcc.org"	"GRCh37"	"5"	176211170	176211170	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001416886"	""	80	"61"	19	42	"42"	0	""	"A"	""	"ENSR00001416886"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"779cf3ee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2375	"WGS"	FALSE
"7245"	"UNC5A"	90249	"mskcc.org"	"GRCh37"	"5"	176232746	176232746	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000329542"	""	69	"64"	5	44	"44"	0	"UNC5A,upstream_gene_variant,,ENST00000329542,NM_133369.2;"	"A"	"ENSG00000113763"	"ENST00000329542"	"Transcript"	"upstream_gene_variant"	"-/3812"	"-/2529"	"-/842"	""	""	""	"1"	"4732"	1	"UNC5A"	"HGNC"	12567	"protein_coding"	"YES"	"CCDS34299.1"	"ENSP00000332737"	"Q6ZN44"	""	"UPI0000047F37"	"NM_133369.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"779d0280-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072463768115942	"WGS"	FALSE
"7246"	"ENSR00001776135"	0	"mskcc.org"	"GRCh37"	"5"	177522646	177522646	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001776135"	""	22	"18"	4	15	"15"	0	""	"A"	""	"ENSR00001776135"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"779e113e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"7247"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	177529318	177529318	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"65"	6	36	"36"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"779e1666-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"7248"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	178122008	178122008	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"71"	23	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"779e8c9a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24468085106383	"WGS"	FALSE
"7249"	"ZNF454"	285676	"mskcc.org"	"GRCh37"	"5"	178383487	178383487	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.251-8169G>T"	""	""	"ENST00000320129"	""	75	"54"	21	48	"48"	0	"ZNF454,intron_variant,,ENST00000320129,NM_182594.2,NM_001178090.1;ZNF454,intron_variant,,ENST00000519564,NM_001178089.1;"	"T"	"ENSG00000178187"	"ENST00000320129"	"Transcript"	"intron_variant"	"-/2332"	"-/1569"	"-/522"	""	""	""	"1"	NA	1	"ZNF454"	"HGNC"	21200	"protein_coding"	"YES"	"CCDS4441.1"	"ENSP00000326249"	"Q8N9F8"	""	"UPI00001407C7"	"NM_182594.2,NM_001178090.1"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"779eab9e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"7250"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	178794457	178794457	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs560616473"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"57"	17	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs560616473"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0008"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.0041"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"779efacc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22972972972973	"WGS"	FALSE
"7251"	"BTNL8"	79908	"mskcc.org"	"GRCh37"	"5"	180323643	180323643	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000340184"	""	44	"34"	10	21	"21"	0	"BTNL8,upstream_gene_variant,,ENST00000231229,NM_024850.2,NM_001159708.1;BTNL8,upstream_gene_variant,,ENST00000340184,NM_001040462.2;BTNL8,upstream_gene_variant,,ENST00000508408,;BTNL8,upstream_gene_variant,,ENST00000400707,NM_001159709.1;BTNL8,upstream_gene_variant,,ENST00000511704,NM_001159707.1;"	"T"	"ENSG00000113303"	"ENST00000340184"	"Transcript"	"upstream_gene_variant"	"-/2071"	"-/1503"	"-/500"	""	""	""	"1"	"2462"	1	"BTNL8"	"HGNC"	26131	"protein_coding"	"YES"	"CCDS43413.1"	"ENSP00000342197"	"Q6UX41"	"D6RIR7"	"UPI00000389ED"	"NM_001040462.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"77a07348-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"7252"	"EXOC2"	55770	"mskcc.org"	"GRCh37"	"6"	520885	520885	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2380+11584C>G"	""	""	"ENST00000230449"	""	18	"15"	3	9	"9"	0	"EXOC2,intron_variant,,ENST00000230449,NM_018303.5;EXOC2,intron_variant,,ENST00000448181,;RP1-20B11.2,upstream_gene_variant,,ENST00000430842,;"	"C"	"ENSG00000112685"	"ENST00000230449"	"Transcript"	"intron_variant"	"-/4449"	"-/2775"	"-/924"	""	""	""	"1"	NA	-1	"EXOC2"	"HGNC"	24968	"protein_coding"	"YES"	"CCDS34327.1"	"ENSP00000230449"	"Q96KP1"	"Q2MDF5,G8JLK9"	"UPI000003E7E3"	"NM_018303.5"	""	""	""	"23/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"77a194da-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"7253"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	1244385	1244385	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"65"	12	21	"21"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"77a20654-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155844155844156	"WGS"	FALSE
"7254"	"RP1-90J20.12"	401233	"mskcc.org"	"GRCh37"	"6"	3025502	3025502	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000603222"	""	71	"49"	22	35	"35"	0	"RP1-90J20.12,downstream_gene_variant,,ENST00000603222,;RP1-90J20.11,non_coding_transcript_exon_variant,,ENST00000563388,;HTATSF1P2,upstream_gene_variant,,ENST00000604204,;"	"A"	"ENSG00000270346"	"ENST00000603222"	"Transcript"	"downstream_gene_variant"	"-/2597"	""	""	""	""	""	"1"	"2518"	1	"RP1-90J20.12"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"77a31648-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309859154929577	"WGS"	FALSE
"7255"	"PRPF4B"	8899	"mskcc.org"	"GRCh37"	"6"	4034545	4034545	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1238+1556T>G"	""	""	"ENST00000337659"	""	101	"78"	23	54	"54"	0	"PRPF4B,intron_variant,,ENST00000337659,NM_003913.4;PRPF4B,intron_variant,,ENST00000538861,;PRPF4B,intron_variant,,ENST00000480058,;PRPF4B,upstream_gene_variant,,ENST00000481109,;"	"G"	"ENSG00000112739"	"ENST00000337659"	"Transcript"	"intron_variant"	"-/4415"	"-/3024"	"-/1007"	""	""	""	"1"	NA	1	"PRPF4B"	"HGNC"	17346	"protein_coding"	"YES"	"CCDS4488.1"	"ENSP00000337194"	"Q13523"	"H0YDJ3,F5H2U2"	"UPI000013DD12"	"NM_003913.4"	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"77a383e4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227722772277228	"WGS"	FALSE
"7256"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	4252750	4252750	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"80"	26	64	"64"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"77a39ad2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245283018867925	"WGS"	FALSE
"7257"	"CAGE1"	285782	"mskcc.org"	"GRCh37"	"6"	7360295	7360295	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2194-3933G>A"	""	""	"ENST00000502583"	""	90	"59"	31	49	"49"	0	"CAGE1,intron_variant,,ENST00000502583,NM_001170692.1;CAGE1,intron_variant,,ENST00000379918,;CAGE1,intron_variant,,ENST00000296742,NM_205864.2;CAGE1,intron_variant,,ENST00000338150,NM_001170693.1;CAGE1,intron_variant,,ENST00000512086,;CAGE1,intron_variant,,ENST00000458291,;CAGE1,intron_variant,,ENST00000442019,;"	"T"	"ENSG00000164304"	"ENST00000502583"	"Transcript"	"intron_variant"	"-/3284"	"-/2520"	"-/839"	""	""	""	"1"	NA	-1	"CAGE1"	"HGNC"	21622	"protein_coding"	"YES"	"CCDS54965.1"	"ENSP00000425493"	"Q8TC20"	""	"UPI0001C0B380"	"NM_001170692.1"	""	""	""	"9/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"77a501ec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344444444444444	"WGS"	FALSE
"7258"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	10266728	10266728	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs369752909"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"44"	5	32	"32"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs369752909"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"77a61514-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WGS"	FALSE
"7259"	"GCNT2"	2651	"mskcc.org"	"GRCh37"	"6"	10607361	10607361	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.926-14223A>T"	""	""	"ENST00000379597"	""	72	"68"	4	39	"39"	0	"GCNT2,intron_variant,,ENST00000379597,;GCNT2,intron_variant,,ENST00000316170,NM_001491.2;GCNT2,intron_variant,,ENST00000265012,NM_145655.3;GCNT2,intron_variant,,ENST00000495262,NM_145649.4;GCNT2,intron_variant,,ENST00000410107,;GCNT2,intron_variant,,ENST00000397423,;GCNT2,intron_variant,,ENST00000489225,;GCNT2,intron_variant,,ENST00000459872,;GCNT2,intron_variant,,ENST00000485764,;GCNT2,intron_variant,,ENST00000474518,;GCNT2,intron_variant,,ENST00000475577,;GCNT2,intron_variant,,ENST00000489819,;GCNT2,intron_variant,,ENST00000461400,;"	"T"	"ENSG00000111846"	"ENST00000379597"	"Transcript"	"intron_variant"	"-/4525"	"-/1209"	"-/402"	""	""	""	"1"	NA	1	"GCNT2"	"HGNC"	4204	"protein_coding"	"YES"	"CCDS34338.1"	"ENSP00000368917"	"Q8N0V5"	"Q8N7N7,Q08M29"	"UPI000006E705"	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAG"	"77a67004-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"7260"	"PAK1IP1"	55003	"mskcc.org"	"GRCh37"	"6"	10699240	10699240	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.247+1521T>C"	""	""	"ENST00000379568"	""	96	"90"	6	40	"40"	0	"PAK1IP1,intron_variant,,ENST00000379568,NM_017906.2;C6orf52,upstream_gene_variant,,ENST00000503680,;C6orf52,upstream_gene_variant,,ENST00000259983,NM_001145020.1;C6orf52,upstream_gene_variant,,ENST00000460742,;C6orf52,upstream_gene_variant,,ENST00000379586,;C6orf52,upstream_gene_variant,,ENST00000467832,;"	"C"	"ENSG00000111845"	"ENST00000379568"	"Transcript"	"intron_variant"	"-/1800"	"-/1179"	"-/392"	""	""	""	"1"	NA	1	"PAK1IP1"	"HGNC"	20882	"protein_coding"	"YES"	"CCDS34339.1"	"ENSP00000368887"	"Q9NWT1"	""	"UPI000013CB73"	"NM_017906.2"	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"77a67b30-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"7261"	"ELOVL2"	54898	"mskcc.org"	"GRCh37"	"6"	10997123	10997123	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.334-1712T>C"	""	""	"ENST00000354666"	""	84	"76"	8	52	"52"	0	"ELOVL2,intron_variant,,ENST00000354666,NM_017770.3;"	"G"	"ENSG00000197977"	"ENST00000354666"	"Transcript"	"intron_variant"	"-/3997"	"-/891"	"-/296"	""	""	""	"1"	NA	-1	"ELOVL2"	"HGNC"	14416	"protein_coding"	"YES"	"CCDS4518.1"	"ENSP00000346693"	"Q9NXB9"	""	"UPI0000051C66"	"NM_017770.3"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"77a6aaec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"7262"	"RANBP9"	10048	"mskcc.org"	"GRCh37"	"6"	13686350	13686350	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.683+10667G>C"	""	""	"ENST00000011619"	""	30	"21"	9	10	"10"	0	"RANBP9,intron_variant,,ENST00000011619,NM_005493.2;RANBP9,intron_variant,,ENST00000539980,;"	"G"	"ENSG00000010017"	"ENST00000011619"	"Transcript"	"intron_variant"	"-/3113"	"-/2190"	"-/729"	""	""	""	"1"	NA	-1	"RANBP9"	"HGNC"	13727	"protein_coding"	"YES"	"CCDS4529.1"	"ENSP00000011619"	"Q96S59"	"B2R8E1"	"UPI000006ED83"	"NM_005493.2"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"77a79448-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"7263"	"RANBP9"	10048	"mskcc.org"	"GRCh37"	"6"	13692849	13692849	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.683+4168T>G"	""	""	"ENST00000011619"	""	90	"84"	6	57	"57"	0	"RANBP9,intron_variant,,ENST00000011619,NM_005493.2;"	"C"	"ENSG00000010017"	"ENST00000011619"	"Transcript"	"intron_variant"	"-/3113"	"-/2190"	"-/729"	""	""	""	"1"	NA	-1	"RANBP9"	"HGNC"	13727	"protein_coding"	"YES"	"CCDS4529.1"	"ENSP00000011619"	"Q96S59"	"B2R8E1"	"UPI000006ED83"	"NM_005493.2"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"77a79786-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"7264"	"RANBP9"	10048	"mskcc.org"	"GRCh37"	"6"	13692855	13692855	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.683+4162T>C"	""	""	"ENST00000011619"	""	92	"86"	6	61	"61"	0	"RANBP9,intron_variant,,ENST00000011619,NM_005493.2;"	"G"	"ENSG00000010017"	"ENST00000011619"	"Transcript"	"intron_variant"	"-/3113"	"-/2190"	"-/729"	""	""	""	"1"	NA	-1	"RANBP9"	"HGNC"	13727	"protein_coding"	"YES"	"CCDS4529.1"	"ENSP00000011619"	"Q96S59"	"B2R8E1"	"UPI000006ED83"	"NM_005493.2"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"77a79c0e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"7265"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	14032964	14032964	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"63"	5	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"77a7c012-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0735294117647059	"WGS"	FALSE
"7266"	"DEK"	7913	"mskcc.org"	"GRCh37"	"6"	18260994	18260994	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.146-2358C>T"	""	""	"ENST00000397239"	""	85	"60"	25	45	"45"	0	"DEK,intron_variant,,ENST00000397239,NM_003472.3;DEK,intron_variant,,ENST00000244776,NM_001134709.1;DEK,intron_variant,,ENST00000515742,;DEK,intron_variant,,ENST00000503715,;DEK,intron_variant,,ENST00000505224,;DEK,upstream_gene_variant,,ENST00000512145,;DEK,upstream_gene_variant,,ENST00000515770,;"	"A"	"ENSG00000124795"	"ENST00000397239"	"Transcript"	"intron_variant"	"-/3427"	"-/1128"	"-/375"	""	""	""	"1"	NA	-1	"DEK"	"HGNC"	2768	"protein_coding"	"YES"	"CCDS34344.1"	"ENSP00000380414"	"P35659"	"D6RDA2"	"UPI0000001C2C"	"NM_003472.3"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"77a97380-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	TRUE
"7267"	"RP11-239H6.2"	0	"mskcc.org"	"GRCh37"	"6"	20244354	20244354	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.91+31946A>G"	""	""	"ENST00000449143"	""	85	"64"	21	58	"58"	0	"RP11-239H6.2,intron_variant,,ENST00000449143,;"	"G"	"ENSG00000227803"	"ENST00000449143"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/380"	""	""	""	""	""	"1"	NA	1	"RP11-239H6.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"77aa2460-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247058823529412	"WGS"	FALSE
"7268"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	22376584	22376584	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"77"	27	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"77ab1ee2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259615384615385	"WGS"	FALSE
"7269"	"KIAA0319"	9856	"mskcc.org"	"GRCh37"	"6"	24595426	24595426	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.801+675G>T"	""	""	"ENST00000378214"	""	81	"62"	19	52	"52"	0	"KIAA0319,intron_variant,,ENST00000535378,NM_001168374.1;KIAA0319,intron_variant,,ENST00000378214,NM_014809.3,NM_001168375.1;KIAA0319,intron_variant,,ENST00000537886,NM_001168377.1;KIAA0319,intron_variant,,ENST00000430948,NM_001168376.1;KIAA0319,intron_variant,,ENST00000543707,;KRT8P43,upstream_gene_variant,,ENST00000406052,;"	"A"	"ENSG00000137261"	"ENST00000378214"	"Transcript"	"intron_variant"	"-/6802"	"-/3219"	"-/1072"	""	""	""	"1"	NA	-1	"KIAA0319"	"HGNC"	21580	"protein_coding"	"YES"	"CCDS34348.1"	"ENSP00000367459"	"Q5VV43"	""	"UPI000020D61A"	"NM_014809.3,NM_001168375.1"	""	""	""	"3/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"77abfe98-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234567901234568	"WGS"	FALSE
"7270"	"HLA-DRB1"	3123	"mskcc.org"	"GRCh37"	"6"	32558703	32558703	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"rs9270438"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000360004"	""	55	"49"	6	20	"20"	0	"HLA-DRB1,upstream_gene_variant,,ENST00000360004,NM_002124.3;"	"A"	"ENSG00000196126"	"ENST00000360004"	"Transcript"	"upstream_gene_variant"	"-/1229"	"-/801"	"-/266"	""	""	"rs9270438"	"1"	"1078"	-1	"HLA-DRB1"	"HGNC"	4948	"protein_coding"	"YES"	"CCDS47409.1"	"ENSP00000353099"	"Q9GIY3,P04229,Q29974,P01911"	"M9PAL6,M9PAH4,M9PAH2,M9PA34,M9P9N9,M9P9N6,M9P978,M9P8M8,M9P8M7,Q9TQ40,Q9MYD9,Q95HN3,Q8WMA1,Q8MGY6,Q8HWN3,Q860S9,Q5Y7C5,Q3LTJ8,Q1G100,Q1G0Z8,Q06653,I6NVX3,I6M556,H8WV95,H6A2E5,H2BDR9,G9I2P4,G9HW13,G1EMX6,G1EMX4,G1CD91,G0ZMM9,G0ZMM8,G0ZDX1,F8R8N1,F8R8N0,F4YZX5,F4YZX4,F4YZX3,F4YZX2,F4YZX1,F4YZW3,F4YUA8,F2X654,F2VNW9,F2VNV6,F2VNV5,F2QL89,F1CCP7,F1CCN5,F1CCN2,F1CCL9,F0V6B9,E7BYD5,E3SWP0,E3SWN9,E3SWN8,E0X9M7,D9IFQ2,D7RIH8,D7NR21,D6MJL2,D6MJC0,D6BPR2,D5M8A0,D5M899,D5G2K8,D5FZP5,D5FZP4,D5FIF2,D5FIE9,D5FIE8,D5FIE7,D5FIE6,D5FIE4,D5FID9,D5FID8,D5FID7,D5FID6,D5FID2,D5FID0,D5FIC9,D5FIC8,D3U4F4,C8CJD1,B7VU65,A1Z0K9,A0N0W0"	"UPI000008A1F7"	"NM_002124.3"	""	""	""	""	""	"G:0.4501"	"A:0.6346"	"A:0.5173"	NA	"A:0.5675"	"A:0.4791"	"A:0.5133"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGG"	"77b2faf4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109090909090909	"WGS"	FALSE
"7271"	"HLA-DRB1"	3123	"mskcc.org"	"GRCh37"	"6"	32558724	32558724	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"rs9270439"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000360004"	""	55	"50"	5	18	"18"	0	"HLA-DRB1,upstream_gene_variant,,ENST00000360004,NM_002124.3;"	"T"	"ENSG00000196126"	"ENST00000360004"	"Transcript"	"upstream_gene_variant"	"-/1229"	"-/801"	"-/266"	""	""	"rs9270439"	"1"	"1099"	-1	"HLA-DRB1"	"HGNC"	4948	"protein_coding"	"YES"	"CCDS47409.1"	"ENSP00000353099"	"Q9GIY3,P04229,Q29974,P01911"	"M9PAL6,M9PAH4,M9PAH2,M9PA34,M9P9N9,M9P9N6,M9P978,M9P8M8,M9P8M7,Q9TQ40,Q9MYD9,Q95HN3,Q8WMA1,Q8MGY6,Q8HWN3,Q860S9,Q5Y7C5,Q3LTJ8,Q1G100,Q1G0Z8,Q06653,I6NVX3,I6M556,H8WV95,H6A2E5,H2BDR9,G9I2P4,G9HW13,G1EMX6,G1EMX4,G1CD91,G0ZMM9,G0ZMM8,G0ZDX1,F8R8N1,F8R8N0,F4YZX5,F4YZX4,F4YZX3,F4YZX2,F4YZX1,F4YZW3,F4YUA8,F2X654,F2VNW9,F2VNV6,F2VNV5,F2QL89,F1CCP7,F1CCN5,F1CCN2,F1CCL9,F0V6B9,E7BYD5,E3SWP0,E3SWN9,E3SWN8,E0X9M7,D9IFQ2,D7RIH8,D7NR21,D6MJL2,D6MJC0,D6BPR2,D5M8A0,D5M899,D5G2K8,D5FZP5,D5FZP4,D5FIF2,D5FIE9,D5FIE8,D5FIE7,D5FIE6,D5FIE4,D5FID9,D5FID8,D5FID7,D5FID6,D5FID2,D5FID0,D5FIC9,D5FIC8,D3U4F4,C8CJD1,B7VU65,A1Z0K9,A0N0W0"	"UPI000008A1F7"	"NM_002124.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"77b2fbee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"7272"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	34224696	34224696	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"72"	10	48	"48"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"77b4276c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WGS"	FALSE
"7273"	"PPARD"	5467	"mskcc.org"	"GRCh37"	"6"	35313884	35313884	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-281-960C>T"	""	""	"ENST00000311565"	""	71	"51"	20	51	"51"	0	"PPARD,intron_variant,,ENST00000311565,NM_001171818.1;PPARD,intron_variant,,ENST00000360694,NM_006238.4;PPARD,intron_variant,,ENST00000448077,NM_001171819.1;PPARD,intron_variant,,ENST00000418635,NM_001171820.1;PPARD,intron_variant,,ENST00000337400,;PPARD,intron_variant,,ENST00000444397,NM_177435.2;PPARD,intron_variant,,ENST00000540939,;"	"T"	"ENSG00000112033"	"ENST00000311565"	"Transcript"	"intron_variant"	"-/3774"	"-/1326"	"-/441"	""	""	""	"1"	NA	1	"PPARD"	"HGNC"	9235	"protein_coding"	"YES"	"CCDS4803.1"	"ENSP00000310928"	"Q03181"	"F5H830"	"UPI000004EF98"	"NM_001171818.1"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"77b4c456-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28169014084507	"WGS"	FALSE
"7274"	"PPARD"	5467	"mskcc.org"	"GRCh37"	"6"	35333132	35333132	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-198+18205A>T"	""	""	"ENST00000311565"	""	69	"65"	4	52	"52"	0	"PPARD,intron_variant,,ENST00000311565,NM_001171818.1;PPARD,intron_variant,,ENST00000360694,NM_006238.4;PPARD,intron_variant,,ENST00000448077,NM_001171819.1;PPARD,intron_variant,,ENST00000418635,NM_001171820.1;PPARD,intron_variant,,ENST00000337400,;PPARD,intron_variant,,ENST00000444397,NM_177435.2;PPARD,intron_variant,,ENST00000540939,;"	"T"	"ENSG00000112033"	"ENST00000311565"	"Transcript"	"intron_variant"	"-/3774"	"-/1326"	"-/441"	""	""	""	"1"	NA	1	"PPARD"	"HGNC"	9235	"protein_coding"	"YES"	"CCDS4803.1"	"ENSP00000310928"	"Q03181"	"F5H830"	"UPI000004EF98"	"NM_001171818.1"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"77b4c870-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0579710144927536	"WGS"	FALSE
"7275"	"CPNE5"	57699	"mskcc.org"	"GRCh37"	"6"	36725486	36725486	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs6906856"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.856-1411C>T"	""	""	"ENST00000244751"	""	81	"58"	23	51	"51"	0	"CPNE5,intron_variant,,ENST00000244751,NM_020939.1;CPNE5,upstream_gene_variant,,ENST00000393189,;CPNE5,upstream_gene_variant,,ENST00000459703,;CPNE5,upstream_gene_variant,,ENST00000493411,;"	"A"	"ENSG00000124772"	"ENST00000244751"	"Transcript"	"intron_variant"	"-/3897"	"-/1782"	"-/593"	""	""	"rs6906856"	"1"	NA	-1	"CPNE5"	"HGNC"	2318	"protein_coding"	"YES"	"CCDS4825.1"	"ENSP00000244751"	"Q9HCH3"	"Q7Z6C8,Q658T3"	"UPI0000127C15"	"NM_020939.1"	""	""	""	"12/20"	""	"A:0.0371"	"A:0.1278"	"A:0.0231"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"77b57c98-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283950617283951	"WGS"	FALSE
"7276"	"FGD2"	221472	"mskcc.org"	"GRCh37"	"6"	36984411	36984411	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1122+775G>A"	""	""	"ENST00000274963"	""	71	"55"	16	40	"40"	0	"FGD2,intron_variant,,ENST00000274963,NM_173558.3;FGD2,intron_variant,,ENST00000493635,;FGD2,intron_variant,,ENST00000494343,;FGD2,intron_variant,,ENST00000464083,;FGD2,intron_variant,,ENST00000373535,;FGD2,intron_variant,,ENST00000470273,;FGD2,upstream_gene_variant,,ENST00000487920,;FGD2,downstream_gene_variant,,ENST00000459781,;"	"A"	"ENSG00000146192"	"ENST00000274963"	"Transcript"	"intron_variant"	"-/3046"	"-/1968"	"-/655"	""	""	""	"1"	NA	1	"FGD2"	"HGNC"	3664	"protein_coding"	"YES"	"CCDS4829.1"	"ENSP00000274963"	"Q7Z6J4"	""	"UPI00001A9477"	"NM_173558.3"	""	""	""	"9/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"77b5a61e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225352112676056	"WGS"	FALSE
"7277"	"GLO1"	2739	"mskcc.org"	"GRCh37"	"6"	38661547	38661547	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.85-6797T>G"	""	""	"ENST00000373365"	""	74	"67"	7	50	"50"	0	"GLO1,intron_variant,,ENST00000373365,NM_006708.2;"	"C"	"ENSG00000124767"	"ENST00000373365"	"Transcript"	"intron_variant"	"-/2012"	"-/555"	"-/184"	""	""	""	"1"	NA	-1	"GLO1"	"HGNC"	4323	"protein_coding"	"YES"	"CCDS4837.1"	"ENSP00000362463"	"Q04760"	""	"UPI0000169DF9"	"NM_006708.2"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"77b66e46-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	FALSE
"7278"	"MED20"	9477	"mskcc.org"	"GRCh37"	"6"	41873476	41873476	"+"	"3'UTR"	"SNP"	"T"	"C"	"C"	"rs762622416"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1334A>G"	""	""	"ENST00000265350"	"4/4"	99	"66"	33	44	"44"	0	"MED20,3_prime_UTR_variant,,ENST00000265350,NM_004275.3;MED20,downstream_gene_variant,,ENST00000409312,;MED20,downstream_gene_variant,,ENST00000409060,;MED20,downstream_gene_variant,,ENST00000394251,;MED20,non_coding_transcript_exon_variant,,ENST00000467535,;MED20,downstream_gene_variant,,ENST00000482361,;"	"C"	"ENSG00000124641"	"ENST00000265350"	"Transcript"	"3_prime_UTR_variant"	"2054/2438"	"-/639"	"-/212"	""	""	"rs762622416"	"1"	NA	-1	"MED20"	"HGNC"	16840	"protein_coding"	"YES"	"CCDS4862.1"	"ENSP00000265350"	"Q9H944"	"B3KUJ9,A6PVP4"	"UPI0000073C85"	"NM_004275.3"	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"77b7bdf0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"7279"	"TAF8"	129685	"mskcc.org"	"GRCh37"	"6"	42031604	42031604	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.490-2446C>T"	""	""	"ENST00000372977"	""	90	"70"	20	57	"57"	0	"TAF8,intron_variant,,ENST00000372977,NM_138572.2;TAF8,intron_variant,,ENST00000494547,;TAF8,intron_variant,,ENST00000372982,;TAF8,intron_variant,,ENST00000456846,;TAF8,intron_variant,,ENST00000465926,;TAF8,downstream_gene_variant,,ENST00000482926,;"	"T"	"ENSG00000137413"	"ENST00000372977"	"Transcript"	"intron_variant"	"-/6680"	"-/933"	"-/310"	""	""	""	"1"	NA	1	"TAF8"	"HGNC"	17300	"protein_coding"	"YES"	"CCDS43462.1"	"ENSP00000362068"	"Q7Z7C8"	""	"UPI00001A36D2"	"NM_138572.2"	""	""	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"77b7d0e2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"7280"	"PEX6"	5190	"mskcc.org"	"GRCh37"	"6"	42950959	42950959	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000304611"	""	82	"76"	6	38	"38"	0	"PEX6,upstream_gene_variant,,ENST00000304611,NM_000287.3;PPP2R5D,upstream_gene_variant,,ENST00000485511,NM_001270476.1,NM_006245.3;PPP2R5D,upstream_gene_variant,,ENST00000472118,;PPP2R5D,upstream_gene_variant,,ENST00000394110,NM_180976.2;PEX6,upstream_gene_variant,,ENST00000244546,;PPP2R5D,upstream_gene_variant,,ENST00000461010,NM_180977.2;PPP2R5D,upstream_gene_variant,,ENST00000230402,;"	"C"	"ENSG00000124587"	"ENST00000304611"	"Transcript"	"upstream_gene_variant"	"-/3478"	"-/2943"	"-/980"	""	""	""	"1"	"4001"	-1	"PEX6"	"HGNC"	8859	"protein_coding"	"YES"	"CCDS4877.1"	"ENSP00000303511"	"Q13608"	""	"UPI00001316EC"	"NM_000287.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"77b86318-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"7281"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	44177739	44177739	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"58"	5	30	"30"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"77b9567e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0793650793650794	"WGS"	FALSE
"7282"	"SUPT3H"	8464	"mskcc.org"	"GRCh37"	"6"	44868145	44868145	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.945+32245G>A"	""	""	"ENST00000371460"	""	86	"61"	25	54	"54"	0	"SUPT3H,intron_variant,,ENST00000371460,NM_181356.2;SUPT3H,intron_variant,,ENST00000371459,NM_003599.3,NM_001261823.1;SUPT3H,intron_variant,,ENST00000371461,;SUPT3H,intron_variant,,ENST00000306867,;SUPT3H,intron_variant,,ENST00000371458,;SUPT3H,intron_variant,,ENST00000475057,;NUDT19P4,downstream_gene_variant,,ENST00000605501,;"	"T"	"ENSG00000196284"	"ENST00000371460"	"Transcript"	"intron_variant"	"-/2389"	"-/987"	"-/328"	""	""	""	"1"	NA	-1	"SUPT3H"	"HGNC"	11466	"protein_coding"	"YES"	"CCDS34466.1"	"ENSP00000360515"	"O75486"	"B4E1H0"	"UPI000018CE7C"	"NM_181356.2"	""	""	""	"12/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"77b99c06-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290697674418605	"WGS"	FALSE
"7283"	"RUNX2"	860	"mskcc.org"	"GRCh37"	"6"	45303909	45303909	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"rs533295416"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.58+7388T>C"	""	""	"ENST00000371438"	""	106	"78"	28	53	"53"	0	"RUNX2,intron_variant,,ENST00000371438,NM_001024630.3;SUPT3H,intron_variant,,ENST00000371460,NM_181356.2;RUNX2,intron_variant,,ENST00000576263,;SUPT3H,intron_variant,,ENST00000371459,NM_003599.3,NM_001261823.1;RUNX2,intron_variant,,ENST00000352853,;RUNX2,intron_variant,,ENST00000465038,;RUNX2,intron_variant,,ENST00000541979,NM_001015051.3;RUNX2,intron_variant,,ENST00000371436,;SUPT3H,intron_variant,,ENST00000306867,;RUNX2,intron_variant,,ENST00000483243,;SUPT3H,intron_variant,,ENST00000459689,;RUNX2,intron_variant,,ENST00000483377,;SUPT3H,intron_variant,,ENST00000475057,;"	"C"	"ENSG00000124813"	"ENST00000371438"	"Transcript"	"intron_variant"	"-/5698"	"-/1566"	"-/521"	""	""	"rs533295416"	"1"	NA	1	"RUNX2"	"HGNC"	10472	"protein_coding"	"YES"	"CCDS43467.2"	"ENSP00000360493"	"Q13950"	"U3RG86"	"UPI000013532F"	"NM_001024630.3"	""	""	""	"1/7"	""	"C:0.0016"	"C:0"	"C:0"	NA	"C:0"	"C:0"	"C:0.0082"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"77b9b7d6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264150943396226	"WGS"	FALSE
"7284"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	48448259	48448259	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"71"	34	70	"70"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"77bab0c8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323809523809524	"WGS"	FALSE
"7285"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	48850643	48850643	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"76"	31	54	"54"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"77bae7e6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289719626168224	"WGS"	FALSE
"7286"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	49299948	49299948	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"58"	19	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"77bb0596-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246753246753247	"WGS"	FALSE
"7287"	"CYP2AC1P"	0	"mskcc.org"	"GRCh37"	"6"	49536021	49536021	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.959-2170C>T"	""	""	"ENST00000407830"	""	82	"60"	22	35	"35"	0	"CYP2AC1P,intron_variant,,ENST00000407830,;"	"A"	"ENSG00000216998"	"ENST00000407830"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1173"	""	""	""	""	""	"1"	NA	-1	"CYP2AC1P"	"HGNC"	39976	"unitary_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"77bb17a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268292682926829	"WGS"	FALSE
"7288"	"CRISP1"	167	"mskcc.org"	"GRCh37"	"6"	49824902	49824902	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.66+146G>A"	""	""	"ENST00000335847"	""	107	"70"	37	69	"69"	0	"CRISP1,intron_variant,,ENST00000335847,NM_001131.2;CRISP1,intron_variant,,ENST00000355791,;CRISP1,intron_variant,,ENST00000507853,NM_170609.1;CRISP1,intron_variant,,ENST00000329411,;CRISP1,intron_variant,,ENST00000505118,NM_001205220.1;CRISP1,intron_variant,,ENST00000536021,;"	"T"	"ENSG00000124812"	"ENST00000335847"	"Transcript"	"intron_variant"	"-/1911"	"-/750"	"-/249"	""	""	""	"1"	NA	-1	"CRISP1"	"HGNC"	304	"protein_coding"	"YES"	"CCDS4931.1"	"ENSP00000338276"	"P54107"	""	"UPI0000128482"	"NM_001131.2"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"77bb34c6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.345794392523364	"WGS"	FALSE
"7289"	"ELOVL5"	60481	"mskcc.org"	"GRCh37"	"6"	53169983	53169983	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-8-9478C>T"	""	""	"ENST00000541407"	""	40	"32"	8	29	"29"	0	"ELOVL5,intron_variant,,ENST00000542638,;ELOVL5,intron_variant,,ENST00000370918,NM_001242830.1,NM_021814.4,NM_001242828.1;ELOVL5,intron_variant,,ENST00000304434,;ELOVL5,intron_variant,,ENST00000541407,;ELOVL5,intron_variant,,ENST00000370913,NM_001242831.1;ELOVL5,intron_variant,,ENST00000486973,;ELOVL5,intron_variant,,ENST00000485336,;ELOVL5,intron_variant,,ENST00000465983,;"	"A"	"ENSG00000012660"	"ENST00000541407"	"Transcript"	"intron_variant"	"-/1491"	"-/981"	"-/326"	""	""	""	"1"	NA	-1	"ELOVL5"	"HGNC"	21308	"protein_coding"	"YES"	"CCDS56433.1"	"ENSP00000438095"	"Q9NYP7"	""	"UPI0001AE72A0"	""	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGG"	"77bc23ea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"7290"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	53355431	53355431	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"53"	27	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"77bc3768-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3375	"WGS"	FALSE
"7291"	"COL21A1"	81578	"mskcc.org"	"GRCh37"	"6"	56135380	56135380	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-38-87926G>C"	""	""	"ENST00000370819"	""	79	"54"	25	64	"64"	0	"COL21A1,intron_variant,,ENST00000370819,;"	"G"	"ENSG00000124749"	"ENST00000370819"	"Transcript"	"intron_variant"	"-/4094"	"-/2865"	"-/954"	""	""	""	"1"	NA	-1	"COL21A1"	"HGNC"	17025	"protein_coding"	""	""	"ENSP00000359855"	"Q96P44"	"A6PVD9"	"UPI000006F153"	""	""	""	""	"1/28"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"77bd022e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316455696202532	"WGS"	FALSE
"7292"	"DST"	667	"mskcc.org"	"GRCh37"	"6"	56371629	56371629	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.11371-42G>C"	""	""	"ENST00000244364"	""	93	"73"	20	72	"72"	0	"DST,intron_variant,,ENST00000370754,;DST,intron_variant,,ENST00000370769,;DST,intron_variant,,ENST00000312431,;DST,intron_variant,,ENST00000446842,;DST,intron_variant,,ENST00000361203,;DST,intron_variant,,ENST00000370788,NM_001144769.2,NM_183380.3,NM_001144770.1;DST,intron_variant,,ENST00000421834,;DST,intron_variant,,ENST00000244364,NM_015548.4;DST,intron_variant,,ENST00000340834,;"	"G"	"ENSG00000151914"	"ENST00000244364"	"Transcript"	"intron_variant"	"-/16742"	"-/15516"	"-/5171"	""	""	""	"1"	NA	-1	"DST"	"HGNC"	1090	"protein_coding"	"YES"	"CCDS47443.1"	"ENSP00000244364"	"Q03001"	"Q86T18"	"UPI00001C1577"	"NM_015548.4"	""	""	""	"56/83"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"77bd13ae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21505376344086	"WGS"	FALSE
"7293"	"PRIM2"	5558	"mskcc.org"	"GRCh37"	"6"	57352509	57352509	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs536218483"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.694-19779C>T"	""	""	"ENST00000607273"	""	107	"74"	33	57	"57"	0	"PRIM2,intron_variant,,ENST00000607273,NM_000947.3;PRIM2,intron_variant,,ENST00000389488,;"	"T"	"ENSG00000146143"	"ENST00000607273"	"Transcript"	"intron_variant"	"-/2290"	"-/1041"	"-/346"	""	""	"rs536218483"	"1"	NA	1	"PRIM2"	"HGNC"	9370	"protein_coding"	"YES"	""	"ENSP00000475738"	""	"U3KQB9,I0CMK6,I0CMJ8,H9XFA6"	"UPI00004588DE"	"NM_000947.3"	""	""	""	"7/13"	""	"T:0.0004"	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"77bd6fde-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308411214953271	"WGS"	FALSE
"7294"	"EYS"	346007	"mskcc.org"	"GRCh37"	"6"	65594596	65594596	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2992+1994T>A"	""	""	"ENST00000503581"	""	103	"97"	6	59	"59"	0	"EYS,intron_variant,,ENST00000503581,NM_001142800.1;EYS,intron_variant,,ENST00000370621,;EYS,intron_variant,,ENST00000370616,;"	"T"	"ENSG00000188107"	"ENST00000503581"	"Transcript"	"intron_variant"	"-/10589"	"-/9435"	"-/3144"	""	""	""	"1"	NA	-1	"EYS"	"HGNC"	21555	"protein_coding"	"YES"	"CCDS47445.1"	"ENSP00000424243"	"Q5T1H1"	""	"UPI000188F466"	"NM_001142800.1"	""	""	""	"19/42"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"77c04844-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.058252427184466	"WGS"	FALSE
"7295"	"EYS"	346007	"mskcc.org"	"GRCh37"	"6"	65616179	65616179	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2642-3786C>T"	""	""	"ENST00000503581"	""	91	"76"	15	52	"52"	0	"EYS,intron_variant,,ENST00000503581,NM_001142800.1;EYS,intron_variant,,ENST00000370621,;EYS,intron_variant,,ENST00000370616,;"	"A"	"ENSG00000188107"	"ENST00000503581"	"Transcript"	"intron_variant"	"-/10589"	"-/9435"	"-/3144"	""	""	""	"1"	NA	-1	"EYS"	"HGNC"	21555	"protein_coding"	"YES"	"CCDS47445.1"	"ENSP00000424243"	"Q5T1H1"	""	"UPI000188F466"	"NM_001142800.1"	""	""	""	"16/42"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"77c04dc6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164835164835165	"WGS"	FALSE
"7296"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	66586558	66586558	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"106"	7	69	"69"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"77c07b0c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0619469026548673	"WGS"	FALSE
"7297"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	66587104	66587104	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"88"	7	75	"75"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"77c07d8c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"7298"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	66836036	66836036	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"87"	30	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"77c096a0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256410256410256	"WGS"	FALSE
"7299"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	67092840	67092840	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"75"	19	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"77c0a488-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202127659574468	"WGS"	FALSE
"7300"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	67233162	67233162	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs538908498"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"58"	28	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs538908498"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"77c0ac6c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325581395348837	"WGS"	FALSE
"7301"	"COL19A1"	1310	"mskcc.org"	"GRCh37"	"6"	70894835	70894835	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2856+28T>A"	""	""	"ENST00000322773"	""	112	"84"	28	43	"43"	0	"COL19A1,intron_variant,,ENST00000322773,NM_001858.4;COL19A1,intron_variant,,ENST00000393344,;"	"A"	"ENSG00000082293"	"ENST00000322773"	"Transcript"	"intron_variant"	"-/6232"	"-/3429"	"-/1142"	""	""	""	"1"	NA	1	"COL19A1"	"HGNC"	2196	"protein_coding"	"YES"	"CCDS4970.1"	"ENSP00000316030"	"Q14993"	""	"UPI000004F1E3"	"NM_001858.4"	""	""	""	"46/50"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"77c1fc16-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"7302"	"RIMS1"	22999	"mskcc.org"	"GRCh37"	"6"	72830357	72830357	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.471+20668T>A"	""	""	"ENST00000521978"	""	105	"99"	6	57	"57"	0	"RIMS1,intron_variant,,ENST00000264839,;RIMS1,intron_variant,,ENST00000348717,;RIMS1,intron_variant,,ENST00000521978,NM_014989.5;RIMS1,intron_variant,,ENST00000491071,;RIMS1,intron_variant,,ENST00000520567,;RIMS1,intron_variant,,ENST00000517960,;RIMS1,intron_variant,,ENST00000518273,;RIMS1,intron_variant,,ENST00000522291,;RIMS1,intron_variant,,ENST00000370419,;"	"A"	"ENSG00000079841"	"ENST00000521978"	"Transcript"	"intron_variant"	"-/5079"	"-/5079"	"-/1692"	""	""	""	"1"	NA	1	"RIMS1"	"HGNC"	17282	"protein_coding"	"YES"	"CCDS47449.1"	"ENSP00000428417"	"Q86UR5"	""	"UPI00001908FB"	"NM_014989.5"	""	""	""	"4/33"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"77c2792a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0571428571428571	"WGS"	FALSE
"7303"	"KCNQ5"	56479	"mskcc.org"	"GRCh37"	"6"	73458505	73458505	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.398+126190C>A"	""	""	"ENST00000342056"	""	115	"76"	39	48	"48"	0	"KCNQ5,intron_variant,,ENST00000342056,NM_001160132.1,NM_001160133.1;KCNQ5,intron_variant,,ENST00000355194,;KCNQ5,intron_variant,,ENST00000370398,NM_019842.3;KCNQ5,intron_variant,,ENST00000402622,;KCNQ5,intron_variant,,ENST00000355635,;KCNQ5,intron_variant,,ENST00000403813,NM_001160130.1;KCNQ5,intron_variant,,ENST00000414165,NM_001160134.1;KCNQ5,intron_variant,,ENST00000370392,;"	"A"	"ENSG00000185760"	"ENST00000342056"	"Transcript"	"intron_variant"	"-/6688"	"-/2856"	"-/951"	""	""	""	"1"	NA	1	"KCNQ5"	"HGNC"	6299	"protein_coding"	"YES"	"CCDS55034.1"	"ENSP00000345055"	""	"A6PVT6"	"UPI000155D644"	"NM_001160132.1,NM_001160133.1"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"77c29d9c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.339130434782609	"WGS"	FALSE
"7304"	"KCNQ5"	56479	"mskcc.org"	"GRCh37"	"6"	73458513	73458513	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.398+126198G>T"	""	""	"ENST00000342056"	""	109	"71"	38	47	"47"	0	"KCNQ5,intron_variant,,ENST00000342056,NM_001160132.1,NM_001160133.1;KCNQ5,intron_variant,,ENST00000355194,;KCNQ5,intron_variant,,ENST00000370398,NM_019842.3;KCNQ5,intron_variant,,ENST00000402622,;KCNQ5,intron_variant,,ENST00000355635,;KCNQ5,intron_variant,,ENST00000403813,NM_001160130.1;KCNQ5,intron_variant,,ENST00000414165,NM_001160134.1;KCNQ5,intron_variant,,ENST00000370392,;"	"T"	"ENSG00000185760"	"ENST00000342056"	"Transcript"	"intron_variant"	"-/6688"	"-/2856"	"-/951"	""	""	""	"1"	NA	1	"KCNQ5"	"HGNC"	6299	"protein_coding"	"YES"	"CCDS55034.1"	"ENSP00000345055"	""	"A6PVT6"	"UPI000155D644"	"NM_001160132.1,NM_001160133.1"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"77c29ebe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.348623853211009	"WGS"	FALSE
"7305"	"KHDC1L"	100129128	"mskcc.org"	"GRCh37"	"6"	73932482	73932482	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000370388"	""	93	"69"	24	52	"52"	0	"KHDC1L,downstream_gene_variant,,ENST00000370388,NM_001126063.2;KHDC1L,downstream_gene_variant,,ENST00000471312,;RP11-257K9.8,intron_variant,,ENST00000423730,;"	"T"	"ENSG00000256980"	"ENST00000370388"	"Transcript"	"downstream_gene_variant"	"-/635"	"-/387"	"-/128"	""	""	""	"1"	"785"	-1	"KHDC1L"	"HGNC"	37274	"protein_coding"	"YES"	"CCDS47450.1"	"ENSP00000359415"	"Q5JSQ8"	""	"UPI0000070CED"	"NM_001126063.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"77c2c600-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258064516129032	"WGS"	FALSE
"7306"	"IMPG1"	3617	"mskcc.org"	"GRCh37"	"6"	76723428	76723428	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.808-2487C>T"	""	""	"ENST00000369950"	""	115	"82"	33	60	"60"	0	"IMPG1,intron_variant,,ENST00000369963,;IMPG1,intron_variant,,ENST00000369950,NM_001563.2,NM_001282368.1;"	"A"	"ENSG00000112706"	"ENST00000369950"	"Transcript"	"intron_variant"	"-/3558"	"-/2394"	"-/797"	""	""	""	"1"	NA	-1	"IMPG1"	"HGNC"	6055	"protein_coding"	"YES"	"CCDS4985.1"	"ENSP00000358966"	"Q17R60"	"H0UI08"	"UPI0000073F12"	"NM_001563.2,NM_001282368.1"	""	""	""	"7/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"77c3f3f4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28695652173913	"WGS"	FALSE
"7307"	"RP3-508D13.1"	0	"mskcc.org"	"GRCh37"	"6"	80040202	80040202	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000405542"	""	89	"70"	19	69	"69"	0	"RP3-508D13.1,upstream_gene_variant,,ENST00000405542,;"	"T"	"ENSG00000217786"	"ENST00000405542"	"Transcript"	"upstream_gene_variant"	"-/640"	""	""	""	""	""	"1"	"3278"	-1	"RP3-508D13.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"77c4c810-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213483146067416	"WGS"	FALSE
"7308"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	81474015	81474015	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"60"	34	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"77c52e0e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.361702127659574	"WGS"	FALSE
"7309"	"ME1"	4199	"mskcc.org"	"GRCh37"	"6"	84082312	84082312	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.363-20454C>T"	""	""	"ENST00000369705"	""	98	"69"	29	66	"66"	0	"ME1,intron_variant,,ENST00000369705,NM_002395.4;ME1,intron_variant,,ENST00000543031,;ME1,intron_variant,,ENST00000541327,;AL391416.1,downstream_gene_variant,,ENST00000516500,;"	"A"	"ENSG00000065833"	"ENST00000369705"	"Transcript"	"intron_variant"	"-/3371"	"-/1719"	"-/572"	""	""	""	"1"	NA	-1	"ME1"	"HGNC"	6983	"protein_coding"	"YES"	"CCDS34492.1"	"ENSP00000358719"	"P48163"	"F5H4W0,B4DZ70"	"UPI000000127E"	"NM_002395.4"	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"77c61b5c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295918367346939	"WGS"	FALSE
"7310"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	87560428	87560428	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"73"	37	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"77c732c6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336363636363636	"WGS"	FALSE
"7311"	"C6orf163"	206412	"mskcc.org"	"GRCh37"	"6"	88073170	88073170	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.555-1509C>T"	""	""	"ENST00000388923"	""	102	"67"	35	62	"61"	1	"C6orf163,intron_variant,,ENST00000608326,;C6orf163,intron_variant,,ENST00000388923,NM_001010868.2;C6orf163,intron_variant,,ENST00000608891,;RP1-102H19.8,intron_variant,,ENST00000448282,;C6orf163,intron_variant,,ENST00000369574,;"	"T"	"ENSG00000203872"	"ENST00000388923"	"Transcript"	"intron_variant"	"-/1308"	"-/990"	"-/329"	""	""	""	"1"	NA	1	"C6orf163"	"HGNC"	21403	"protein_coding"	"YES"	"CCDS55042.1"	"ENSP00000373575"	"Q5TEZ5"	"E1P506"	"UPI0000DBEE6F"	"NM_001010868.2"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"77c766e2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.343137254901961	"WGS"	FALSE
"7312"	"RNU2-61P"	0	"mskcc.org"	"GRCh37"	"6"	89769537	89769537	"+"	"3'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000411069"	""	87	"67"	20	59	"59"	0	"RNU2-61P,downstream_gene_variant,,ENST00000411069,;RP1-72A23.1,non_coding_transcript_exon_variant,,ENST00000403367,;"	"G"	"ENSG00000223001"	"ENST00000411069"	"Transcript"	"downstream_gene_variant"	"-/191"	""	""	""	""	""	"1"	"3682"	-1	"RNU2-61P"	"HGNC"	48554	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"77c81ca4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229885057471264	"WGS"	FALSE
"7313"	"MAP3K7"	6885	"mskcc.org"	"GRCh37"	"6"	91241458	91241458	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1356+4598C>G"	""	""	"ENST00000369329"	""	109	"102"	7	52	"52"	0	"MAP3K7,intron_variant,,ENST00000369329,NM_145331.2;MAP3K7,intron_variant,,ENST00000369332,NM_003188.3;MAP3K7,intron_variant,,ENST00000369325,NM_145332.2;MAP3K7,intron_variant,,ENST00000369327,NM_145333.2;MAP3K7,intron_variant,,ENST00000369320,;MAP3K7,intron_variant,,ENST00000479630,;"	"C"	"ENSG00000135341"	"ENST00000369329"	"Transcript"	"intron_variant"	"-/4911"	"-/1821"	"-/606"	""	""	""	"1"	NA	-1	"MAP3K7"	"HGNC"	6859	"protein_coding"	"YES"	"CCDS5028.1"	"ENSP00000358335"	"O43318"	""	"UPI000012EAD6"	"NM_145331.2"	""	""	""	"13/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"77c8b100-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0642201834862385	"WGS"	FALSE
"7314"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	92870007	92870007	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	43	"39"	4	27	"27"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"77c90844-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"7315"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	93076891	93076891	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"116"	5	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"77c91e7e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0413223140495868	"WGS"	FALSE
"7316"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	93110682	93110682	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"75"	26	45	"45"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"77c922ca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257425742574257	"WGS"	FALSE
"7317"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	93324376	93324376	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"61"	33	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"77c937e2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351063829787234	"WGS"	FALSE
"7318"	"EPHA7"	2045	"mskcc.org"	"GRCh37"	"6"	93956807	93956807	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2533-104G>T"	""	""	"ENST00000369303"	""	113	"77"	36	77	"77"	0	"EPHA7,intron_variant,,ENST00000369303,NM_004440.3,NM_001288629.1;"	"A"	"ENSG00000135333"	"ENST00000369303"	"Transcript"	"intron_variant"	"-/6588"	"-/2997"	"-/998"	""	""	""	"1"	NA	-1	"EPHA7"	"HGNC"	3390	"protein_coding"	"YES"	"CCDS5031.1"	"ENSP00000358309"	"Q15375"	""	"UPI0000044771"	"NM_004440.3,NM_001288629.1"	""	""	""	"14/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"77c95f60-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.31858407079646	"WGS"	FALSE
"7319"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	94200244	94200244	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"71"	30	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"77c96e7e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297029702970297	"WGS"	FALSE
"7320"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	94458496	94458496	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"107"	6	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"77c9842c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0530973451327434	"WGS"	FALSE
"7321"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	95561602	95561602	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"rs191066839"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"37"	4	31	"31"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs191066839"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0076"	"C:0.0197"	"C:0"	NA	"C:0"	"C:0.005"	"C:0.0072"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"77c9e354-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WGS"	FALSE
"7322"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	95589893	95589893	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"72"	29	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"77c9e728-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287128712871287	"WGS"	FALSE
"7323"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	95963960	95963960	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"74"	35	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"77c9fcfe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.321100917431193	"WGS"	FALSE
"7324"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	96197740	96197740	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"84"	35	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"77ca1568-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"7325"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	96400477	96400477	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"87"	34	76	"76"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"77ca1f04-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28099173553719	"WGS"	FALSE
"7326"	"FUT9"	10690	"mskcc.org"	"GRCh37"	"6"	96656760	96656760	"+"	"3'UTR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*4649C>G"	""	""	"ENST00000302103"	"3/3"	90	"85"	5	58	"58"	0	"FUT9,3_prime_UTR_variant,,ENST00000302103,NM_006581.3;"	"G"	"ENSG00000172461"	"ENST00000302103"	"Transcript"	"3_prime_UTR_variant"	"6055/12783"	"-/1080"	"-/359"	""	""	""	"1"	NA	1	"FUT9"	"HGNC"	4020	"protein_coding"	"YES"	"CCDS5033.1"	"ENSP00000302599"	"Q9Y231"	""	"UPI000013E792"	"NM_006581.3"	""	""	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"77ca2af8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"7327"	"GRIK2"	2898	"mskcc.org"	"GRCh37"	"6"	102158587	102158587	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs767907578"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.951+24359G>A"	""	""	"ENST00000421544"	""	103	"73"	30	49	"49"	0	"GRIK2,intron_variant,,ENST00000369138,NM_001166247.1;GRIK2,intron_variant,,ENST00000413795,NM_175768.3;GRIK2,intron_variant,,ENST00000421544,NM_021956.4;GRIK2,intron_variant,,ENST00000369134,;GRIK2,intron_variant,,ENST00000318991,;GRIK2,intron_variant,,ENST00000369137,;GRIK2,intron_variant,,ENST00000358361,;GRIK2,intron_variant,,ENST00000455610,;"	"A"	"ENSG00000164418"	"ENST00000421544"	"Transcript"	"intron_variant"	"-/4789"	"-/2727"	"-/908"	""	""	"rs767907578"	"1"	NA	1	"GRIK2"	"HGNC"	4580	"protein_coding"	"YES"	"CCDS5048.1"	"ENSP00000397026"	"Q13002"	"Q9BZ15,Q6P3V6,H7C2P5,F8WEZ8,D7RWZ8"	"UPI000012B617"	"NM_021956.4"	""	""	""	"6/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"77cba66c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29126213592233	"WGS"	FALSE
"7328"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	103612924	103612924	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"80"	32	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"77cc05d0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"7329"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	103896689	103896689	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"75"	38	67	"67"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"77cc20f6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336283185840708	"WGS"	FALSE
"7330"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	103973079	103973079	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"75"	31	50	"50"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"77cc23e4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292452830188679	"WGS"	FALSE
"7331"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	104792626	104792626	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"75"	21	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"77cc66ba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WGS"	FALSE
"7332"	"PREP"	5550	"mskcc.org"	"GRCh37"	"6"	105751955	105751955	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1318-15186A>G"	""	""	"ENST00000369110"	""	111	"84"	27	60	"60"	0	"PREP,intron_variant,,ENST00000369110,NM_002726.4;RPL35P3,upstream_gene_variant,,ENST00000403133,;"	"C"	"ENSG00000085377"	"ENST00000369110"	"Transcript"	"intron_variant"	"-/2905"	"-/2133"	"-/710"	""	""	""	"1"	NA	-1	"PREP"	"HGNC"	9358	"protein_coding"	"YES"	"CCDS5053.1"	"ENSP00000358106"	"P48147"	""	"UPI000006E28E"	"NM_002726.4"	""	""	""	"10/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"77ccb6c4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.243243243243243	"WGS"	FALSE
"7333"	"RP3-359N14.2"	0	"mskcc.org"	"GRCh37"	"6"	106061594	106061594	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.464-927T>A"	""	""	"ENST00000423489"	""	88	"58"	30	63	"63"	0	"RP3-359N14.2,intron_variant,,ENST00000423489,;"	"T"	"ENSG00000237567"	"ENST00000423489"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/589"	""	""	""	""	""	"1"	NA	-1	"RP3-359N14.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"77ccc75e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340909090909091	"WGS"	FALSE
"7334"	"QRSL1"	55278	"mskcc.org"	"GRCh37"	"6"	107085431	107085431	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.25-2793G>C"	""	""	"ENST00000369046"	""	80	"53"	27	51	"51"	0	"QRSL1,intron_variant,,ENST00000369046,NM_018292.4;QRSL1,intron_variant,,ENST00000369044,;QRSL1,intron_variant,,ENST00000467262,;RPL21P65,upstream_gene_variant,,ENST00000406094,;"	"C"	"ENSG00000130348"	"ENST00000369046"	"Transcript"	"intron_variant"	"-/4106"	"-/1587"	"-/528"	""	""	""	"1"	NA	1	"QRSL1"	"HGNC"	21020	"protein_coding"	"YES"	"CCDS5057.1"	"ENSP00000358042"	"Q9H0R6"	""	"UPI0000047463"	"NM_018292.4"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"77cd3fe0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3375	"WGS"	FALSE
"7335"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	113411160	113411160	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"109"	10	48	"48"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"77cffd52-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0840336134453782	"WGS"	FALSE
"7336"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	116037462	116037462	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"62"	36	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"77d0f054-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36734693877551	"WGS"	FALSE
"7337"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	119038680	119038680	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"80"	6	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"77d1f2b0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"7338"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	119997123	119997123	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"76"	31	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"77d23f90-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289719626168224	"WGS"	FALSE
"7339"	"TBC1D32"	221322	"mskcc.org"	"GRCh37"	"6"	121556138	121556138	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2364+4078G>T"	""	""	"ENST00000398212"	""	110	"101"	9	51	"51"	0	"TBC1D32,intron_variant,,ENST00000275159,;TBC1D32,intron_variant,,ENST00000398212,NM_152730.4;TBC1D32,intron_variant,,ENST00000398197,;TBC1D32,intron_variant,,ENST00000464622,;"	"A"	"ENSG00000146350"	"ENST00000398212"	"Transcript"	"intron_variant"	"-/3824"	"-/3774"	"-/1257"	""	""	""	"1"	NA	-1	"TBC1D32"	"HGNC"	21485	"protein_coding"	"YES"	"CCDS43501.1"	"ENSP00000381270"	"Q96NH3"	"A2A304"	"UPI0000E67203"	"NM_152730.4"	""	""	""	"20/31"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"77d2aa3e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0818181818181818	"WGS"	FALSE
"7340"	"RP1-172I22.1"	0	"mskcc.org"	"GRCh37"	"6"	121797937	121797937	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000406666"	""	77	"71"	6	46	"46"	0	"RP1-172I22.1,downstream_gene_variant,,ENST00000406666,;"	"T"	"ENSG00000219784"	"ENST00000406666"	"Transcript"	"downstream_gene_variant"	"-/664"	""	""	""	""	""	"1"	"1482"	-1	"RP1-172I22.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"77d2be52-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"7341"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	122261413	122261413	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"71"	37	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"77d2fbec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342592592592593	"WGS"	FALSE
"7342"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	122513877	122513877	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"65"	22	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"77d30894-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252873563218391	"WGS"	FALSE
"7343"	"NKAIN2"	154215	"mskcc.org"	"GRCh37"	"6"	124620074	124620074	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.192+15786C>A"	""	""	"ENST00000368417"	""	106	"73"	33	51	"51"	0	"NKAIN2,intron_variant,,ENST00000368417,NM_001040214.1;NKAIN2,intron_variant,,ENST00000368416,;NKAIN2,intron_variant,,ENST00000545433,;NKAIN2,intron_variant,,ENST00000546092,;NKAIN2,intron_variant,,ENST00000476571,;"	"A"	"ENSG00000188580"	"ENST00000368417"	"Transcript"	"intron_variant"	"-/3115"	"-/627"	"-/208"	""	""	""	"1"	NA	1	"NKAIN2"	"HGNC"	16443	"protein_coding"	"YES"	"CCDS34526.1"	"ENSP00000357402"	"Q5VXU1"	"B3KNZ0,B0AZU5"	"UPI0000458919"	"NM_001040214.1"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"77d38f3a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311320754716981	"WGS"	FALSE
"7344"	"NKAIN2"	154215	"mskcc.org"	"GRCh37"	"6"	124719121	124719121	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.273+42628C>A"	""	""	"ENST00000368417"	""	80	"75"	5	62	"62"	0	"NKAIN2,intron_variant,,ENST00000368417,NM_001040214.1;NKAIN2,intron_variant,,ENST00000368416,;NKAIN2,intron_variant,,ENST00000545433,;NKAIN2,intron_variant,,ENST00000546092,;"	"A"	"ENSG00000188580"	"ENST00000368417"	"Transcript"	"intron_variant"	"-/3115"	"-/627"	"-/208"	""	""	""	"1"	NA	1	"NKAIN2"	"HGNC"	16443	"protein_coding"	"YES"	"CCDS34526.1"	"ENSP00000357402"	"Q5VXU1"	"B3KNZ0,B0AZU5"	"UPI0000458919"	"NM_001040214.1"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"77d392f0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"7345"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	129139686	129139686	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"78"	31	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"77d4ae06-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284403669724771	"WGS"	FALSE
"7346"	"LAMA2"	3908	"mskcc.org"	"GRCh37"	"6"	129209435	129209435	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.112+4933T>A"	""	""	"ENST00000421865"	""	95	"68"	27	70	"70"	0	"LAMA2,intron_variant,,ENST00000421865,NM_001079823.1,NM_000426.3;LAMA2,intron_variant,,ENST00000466230,;"	"A"	"ENSG00000196569"	"ENST00000421865"	"Transcript"	"intron_variant"	"-/9640"	"-/9369"	"-/3122"	""	""	""	"1"	NA	1	"LAMA2"	"HGNC"	6482	"protein_coding"	"YES"	"CCDS5138.1"	"ENSP00000400365"	"P24043"	"Q59H37"	"UPI00003673E0"	"NM_001079823.1,NM_000426.3"	""	""	""	"1/64"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"77d4b48c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284210526315789	"WGS"	FALSE
"7347"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	130281472	130281472	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"81"	28	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"77d4fa28-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256880733944954	"WGS"	FALSE
"7348"	"AKAP7"	9465	"mskcc.org"	"GRCh37"	"6"	131473935	131473935	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.152-7264G>C"	""	""	"ENST00000431975"	""	60	"53"	7	36	"36"	0	"AKAP7,intron_variant,,ENST00000431975,NM_016377.3;AKAP7,intron_variant,,ENST00000368123,;AKAP7,intron_variant,,ENST00000541650,;AKAP7,intron_variant,,ENST00000366358,;"	"C"	"ENSG00000118507"	"ENST00000431975"	"Transcript"	"intron_variant"	"-/2954"	"-/1047"	"-/348"	""	""	""	"1"	NA	1	"AKAP7"	"HGNC"	377	"protein_coding"	"YES"	"CCDS5142.2"	"ENSP00000405252"	"Q9P0M2"	"J3KN37"	"UPI0000470B1E"	"NM_016377.3"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"77d55004-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116666666666667	"WGS"	FALSE
"7349"	"AKAP7"	9465	"mskcc.org"	"GRCh37"	"6"	131546057	131546057	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.850+5109A>T"	""	""	"ENST00000431975"	""	77	"73"	4	46	"46"	0	"AKAP7,intron_variant,,ENST00000431975,NM_016377.3;AKAP7,intron_variant,,ENST00000368123,;AKAP7,intron_variant,,ENST00000263050,;AKAP7,intron_variant,,ENST00000541650,;AKAP7,intron_variant,,ENST00000537868,;AKAP7,intron_variant,,ENST00000535150,;"	"T"	"ENSG00000118507"	"ENST00000431975"	"Transcript"	"intron_variant"	"-/2954"	"-/1047"	"-/348"	""	""	""	"1"	NA	1	"AKAP7"	"HGNC"	377	"protein_coding"	"YES"	"CCDS5142.2"	"ENSP00000405252"	"Q9P0M2"	"J3KN37"	"UPI0000470B1E"	"NM_016377.3"	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"77d55a04-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.051948051948052	"WGS"	FALSE
"7350"	"VNN1"	8876	"mskcc.org"	"GRCh37"	"6"	133004643	133004643	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1360-182G>A"	""	""	"ENST00000367928"	""	88	"69"	19	66	"66"	0	"VNN1,intron_variant,,ENST00000367928,NM_004666.2;"	"T"	"ENSG00000112299"	"ENST00000367928"	"Transcript"	"intron_variant"	"-/3106"	"-/1542"	"-/513"	""	""	""	"1"	NA	-1	"VNN1"	"HGNC"	12705	"protein_coding"	"YES"	"CCDS5159.1"	"ENSP00000356905"	"O95497"	""	"UPI000013C91E"	"NM_004666.2"	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"77d5fa86-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215909090909091	"WGS"	FALSE
"7351"	"PDE7B"	27115	"mskcc.org"	"GRCh37"	"6"	136397371	136397371	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.83-32498G>A"	""	""	"ENST00000308191"	""	85	"56"	29	48	"48"	0	"PDE7B,intron_variant,,ENST00000308191,NM_018945.3;RP13-143G15.3,upstream_gene_variant,,ENST00000419926,;"	"A"	"ENSG00000171408"	"ENST00000308191"	"Transcript"	"intron_variant"	"-/5390"	"-/1353"	"-/450"	""	""	""	"1"	NA	1	"PDE7B"	"HGNC"	8792	"protein_coding"	"YES"	"CCDS5175.1"	"ENSP00000310661"	"Q9NP56"	""	"UPI00000339FF"	"NM_018945.3"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"77d739be-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341176470588235	"WGS"	FALSE
"7352"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	136645635	136645635	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"83"	26	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"77d757b4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238532110091743	"WGS"	FALSE
"7353"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	140112771	140112771	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"68"	27	69	"69"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"77d8a984-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284210526315789	"WGS"	FALSE
"7354"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	141148366	141148366	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"82"	36	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"77d8f556-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305084745762712	"WGS"	FALSE
"7355"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	142982374	142982374	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"93"	11	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"77d999a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105769230769231	"WGS"	FALSE
"7356"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	144446515	144446515	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"69"	23	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"77da1026-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"7357"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	145195908	145195908	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"70"	24	40	"40"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"77da5cd4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25531914893617	"WGS"	FALSE
"7358"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	145369266	145369266	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"87"	22	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"77da734a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.201834862385321	"WGS"	FALSE
"7359"	"STXBP5-AS1"	729178	"mskcc.org"	"GRCh37"	"6"	147336968	147336968	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.567-14289C>G"	""	""	"ENST00000367477"	""	88	"83"	5	56	"56"	0	"STXBP5-AS1,intron_variant,,ENST00000367477,;STXBP5-AS1,intron_variant,,ENST00000427394,;STXBP5-AS1,intron_variant,,ENST00000431143,;STXBP5-AS1,intron_variant,,ENST00000458125,;STXBP5-AS1,intron_variant,,ENST00000447072,;"	"C"	"ENSG00000233452"	"ENST00000367477"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2927"	""	""	""	""	""	"1"	NA	-1	"STXBP5-AS1"	"HGNC"	44183	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"77daee88-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0568181818181818	"WGS"	FALSE
"7360"	"STXBP5-AS1"	729178	"mskcc.org"	"GRCh37"	"6"	147378791	147378791	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.566+17150T>A"	""	""	"ENST00000367477"	""	122	"112"	10	53	"53"	0	"STXBP5-AS1,intron_variant,,ENST00000367477,;STXBP5-AS1,intron_variant,,ENST00000427394,;STXBP5-AS1,intron_variant,,ENST00000431143,;STXBP5-AS1,intron_variant,,ENST00000458125,;STXBP5-AS1,intron_variant,,ENST00000447072,;"	"T"	"ENSG00000233452"	"ENST00000367477"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2927"	""	""	""	""	""	"1"	NA	-1	"STXBP5-AS1"	"HGNC"	44183	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"77daf31a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0819672131147541	"WGS"	FALSE
"7361"	"UST"	10090	"mskcc.org"	"GRCh37"	"6"	149080493	149080493	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.247+11680C>G"	""	""	"ENST00000367463"	""	87	"79"	8	46	"46"	0	"UST,intron_variant,,ENST00000367463,NM_005715.2;"	"G"	"ENSG00000111962"	"ENST00000367463"	"Transcript"	"intron_variant"	"-/4198"	"-/1221"	"-/406"	""	""	""	"1"	NA	1	"UST"	"HGNC"	17223	"protein_coding"	"YES"	"CCDS5213.1"	"ENSP00000356433"	"Q9Y2C2"	""	"UPI000006EF6A"	"NM_005715.2"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"77db860e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"7362"	"ENSR00001501717"	0	"mskcc.org"	"GRCh37"	"6"	153531640	153531640	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001501717"	""	90	"67"	23	50	"50"	0	""	"A"	""	"ENSR00001501717"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"77dd8e54-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255555555555556	"WGS"	FALSE
"7363"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	153677389	153677389	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"63"	25	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"77dd9f02-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284090909090909	"WGS"	FALSE
"7364"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	154317266	154317266	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"57"	25	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"77dde0b6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304878048780488	"WGS"	FALSE
"7365"	"OPRM1"	4988	"mskcc.org"	"GRCh37"	"6"	154417385	154417385	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1443+4778G>T"	""	""	"ENST00000434900"	""	95	"65"	30	47	"47"	0	"OPRM1,intron_variant,,ENST00000414028,NM_001145284.2;OPRM1,intron_variant,,ENST00000522236,NM_001145287.1;OPRM1,intron_variant,,ENST00000522555,NM_001285526.1;OPRM1,intron_variant,,ENST00000435918,NM_001145283.1;OPRM1,intron_variant,,ENST00000330432,NM_000914.3,NM_001285524.1;OPRM1,intron_variant,,ENST00000434900,NM_001145279.2;OPRM1,intron_variant,,ENST00000520708,;OPRM1,intron_variant,,ENST00000419506,NM_001145286.1;OPRM1,intron_variant,,ENST00000337049,NM_001008503.1;OPRM1,intron_variant,,ENST00000452687,NM_001145282.1;OPRM1,intron_variant,,ENST00000524163,NM_001145285.1;OPRM1,intron_variant,,ENST00000518759,NM_001145281.2;OPRM1,downstream_gene_variant,,ENST00000428397,NM_001008504.2;OPRM1,downstream_gene_variant,,ENST00000229768,NM_001008505.1;OPRM1,downstream_gene_variant,,ENST00000360422,NM_001285523.1;OPRM1,intron_variant,,ENST00000519613,;OPRM1,downstream_gene_variant,,ENST00000522382,;OPRM1,downstream_gene_variant,,ENST00000521106,;OPRM1,intron_variant,,ENST00000519083,;OPRM1,intron_variant,,ENST00000522739,;OPRM1,intron_variant,,ENST00000524150,;"	"T"	"ENSG00000112038"	"ENST00000434900"	"Transcript"	"intron_variant"	"-/2033"	"-/1482"	"-/493"	""	""	""	"1"	NA	1	"OPRM1"	"HGNC"	8156	"protein_coding"	"YES"	"CCDS47503.1"	"ENSP00000394624"	"P35372"	"Q7Z6A5,Q71V90,C9EA00,C9E9Z9,C7E9I8,B8K2Q5"	"UPI0001899627"	"NM_001145279.2"	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"77dde4d0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WGS"	FALSE
"7366"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	156230523	156230523	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"61"	27	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"77deb5b8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306818181818182	"WGS"	FALSE
"7367"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	159924947	159924947	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"65"	5	34	"34"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"77e13ed2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"7368"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	160370574	160370574	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"57"	27	38	"38"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"77e1b182-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.321428571428571	"WGS"	FALSE
"7369"	"SLC22A3"	6581	"mskcc.org"	"GRCh37"	"6"	160788578	160788578	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.429+18698A>G"	""	""	"ENST00000275300"	""	99	"68"	31	61	"61"	0	"SLC22A3,intron_variant,,ENST00000392145,;SLC22A3,intron_variant,,ENST00000275300,NM_021977.3;"	"G"	"ENSG00000146477"	"ENST00000275300"	"Transcript"	"intron_variant"	"-/3348"	"-/1671"	"-/556"	""	""	""	"1"	NA	1	"SLC22A3"	"HGNC"	10967	"protein_coding"	"YES"	"CCDS5277.1"	"ENSP00000275300"	"O75751"	"Q9NQC0"	"UPI0000130BB7"	"NM_021977.3"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"77e1e058-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313131313131313	"WGS"	FALSE
"7370"	"PARK2"	5071	"mskcc.org"	"GRCh37"	"6"	162289428	162289428	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.735-82488A>G"	""	""	"ENST00000366898"	""	73	"58"	15	39	"39"	0	"PARK2,intron_variant,,ENST00000366898,NM_004562.2;PARK2,intron_variant,,ENST00000366897,NM_013987.2;PARK2,intron_variant,,ENST00000366896,NM_013988.2;PARK2,intron_variant,,ENST00000366892,;PARK2,intron_variant,,ENST00000338468,;PARK2,intron_variant,,ENST00000366894,;PARK2,intron_variant,,ENST00000479615,;"	"C"	"ENSG00000185345"	"ENST00000366898"	"Transcript"	"intron_variant"	"-/4180"	"-/1398"	"-/465"	""	""	""	"1"	NA	-1	"PARK2"	"HGNC"	8607	"protein_coding"	"YES"	"CCDS5281.1"	"ENSP00000355865"	"O60260"	"M4T2U2,Q6S8G7,Q6Q2I8,Q5XNR7"	"UPI00003673FE"	"NM_004562.2"	""	""	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"77e2cd74-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205479452054795	"WGS"	FALSE
"7371"	"QKI"	9444	"mskcc.org"	"GRCh37"	"6"	163890449	163890449	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.286-9363A>T"	""	""	"ENST00000361752"	""	98	"67"	31	52	"52"	0	"QKI,intron_variant,,ENST00000361752,NM_006775.2,NM_206855.2,NM_206854.2,NM_206853.2;QKI,intron_variant,,ENST00000392127,;QKI,intron_variant,,ENST00000275262,;QKI,intron_variant,,ENST00000453779,;QKI,intron_variant,,ENST00000537883,;QKI,intron_variant,,ENST00000361195,;QKI,intron_variant,,ENST00000424802,;QKI,intron_variant,,ENST00000544823,;QKI,intron_variant,,ENST00000537041,;QKI,intron_variant,,ENST00000537124,;QKI,intron_variant,,ENST00000544436,;QKI,intron_variant,,ENST00000361758,;QKI,intron_variant,,ENST00000545607,;QKI,intron_variant,,ENST00000545346,;"	"T"	"ENSG00000112531"	"ENST00000361752"	"Transcript"	"intron_variant"	"-/9463"	"-/1026"	"-/341"	""	""	""	"1"	NA	1	"QKI"	"HGNC"	21100	"protein_coding"	"YES"	"CCDS5285.1"	"ENSP00000355094"	"Q96PU8"	"F5H8C8,F5H5U6,F5GYM3"	"UPI0000029EBD"	"NM_006775.2,NM_206855.2,NM_206854.2,NM_206853.2"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"77e38e12-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316326530612245	"WGS"	FALSE
"7372"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	165318573	165318573	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"72"	39	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"77e40c52-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351351351351351	"WGS"	FALSE
"7373"	"RPS6KA2"	6196	"mskcc.org"	"GRCh37"	"6"	166888409	166888409	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs541768833"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.932-5016C>T"	""	""	"ENST00000503859"	""	86	"67"	19	56	"56"	0	"RPS6KA2,intron_variant,,ENST00000510118,;RPS6KA2,intron_variant,,ENST00000265678,NM_021135.4;RPS6KA2,intron_variant,,ENST00000503859,NM_001006932.1;RPS6KA2,intron_variant,,ENST00000481261,;RPS6KA2,intron_variant,,ENST00000405189,;RPS6KA2,downstream_gene_variant,,ENST00000366863,;RPS6KA2,downstream_gene_variant,,ENST00000366865,;"	"A"	"ENSG00000071242"	"ENST00000503859"	"Transcript"	"intron_variant"	"-/4137"	"-/2226"	"-/741"	""	""	"rs541768833"	"1"	NA	-1	"RPS6KA2"	"HGNC"	10431	"protein_coding"	"YES"	"CCDS34570.1"	"ENSP00000427015"	"Q15349"	"D6RHW7,D6RD75,D6R910,B7Z3B5"	"UPI000020D48C"	"NM_001006932.1"	""	""	""	"11/21"	""	"A:0.0004"	"A:0.0008"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"77e5472a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22093023255814	"WGS"	FALSE
"7374"	"RP11-417E7.2"	101929504	"mskcc.org"	"GRCh37"	"6"	169571400	169571400	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000564830"	""	101	"66"	35	45	"45"	0	"RP11-417E7.2,downstream_gene_variant,,ENST00000564830,;"	"T"	"ENSG00000261039"	"ENST00000564830"	"Transcript"	"downstream_gene_variant"	"-/542"	""	""	""	""	""	"1"	"4001"	-1	"RP11-417E7.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"77e95fcc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346534653465347	"WGS"	FALSE
"7375"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	170487364	170487364	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	23	"18"	5	12	"12"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"77eb2988-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"7376"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	170811451	170811451	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	131	"124"	7	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"77ebe5bc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0534351145038168	"WGS"	FALSE
"7377"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	170828986	170828986	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"77"	25	72	"72"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"77ec167c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245098039215686	"WGS"	FALSE
"7378"	"FAM20C"	56975	"mskcc.org"	"GRCh37"	"7"	297964	297964	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"rs372691304"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1446-648T>C"	""	""	"ENST00000313766"	""	34	"29"	5	19	"19"	0	"FAM20C,intron_variant,,ENST00000313766,NM_020223.3;AC187652.1,upstream_gene_variant,,ENST00000599994,;FAM20C,intron_variant,,ENST00000515795,;FAM20C,downstream_gene_variant,,ENST00000512382,;"	"C"	"ENSG00000177706"	"ENST00000313766"	"Transcript"	"intron_variant"	"-/2751"	"-/1755"	"-/584"	""	""	"rs372691304"	"1"	NA	1	"FAM20C"	"HGNC"	22140	"protein_coding"	"YES"	"CCDS47522.1"	"ENSP00000322323"	"Q8IXL6"	""	"UPI00001B5C04"	"NM_020223.3"	""	""	""	"8/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"77ed1090-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"7379"	"FAM20C"	56975	"mskcc.org"	"GRCh37"	"7"	297968	297968	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1446-644G>A"	""	""	"ENST00000313766"	""	35	"30"	5	20	"20"	0	"FAM20C,intron_variant,,ENST00000313766,NM_020223.3;AC187652.1,upstream_gene_variant,,ENST00000599994,;FAM20C,intron_variant,,ENST00000515795,;FAM20C,downstream_gene_variant,,ENST00000512382,;"	"A"	"ENSG00000177706"	"ENST00000313766"	"Transcript"	"intron_variant"	"-/2751"	"-/1755"	"-/584"	""	""	""	"1"	NA	1	"FAM20C"	"HGNC"	22140	"protein_coding"	"YES"	"CCDS47522.1"	"ENSP00000322323"	"Q8IXL6"	""	"UPI00001B5C04"	"NM_020223.3"	""	""	""	"8/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"77ed119e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"7380"	"PSMG3-AS1"	114796	"mskcc.org"	"GRCh37"	"7"	1622417	1622417	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.459-1603G>A"	""	""	"ENST00000437621"	""	105	"97"	8	52	"52"	0	"PSMG3-AS1,intron_variant,,ENST00000437621,;PSMG3-AS1,intron_variant,,ENST00000457484,;PSMG3-AS1,intron_variant,,ENST00000437964,;PSMG3-AS1,intron_variant,,ENST00000532358,;PSMG3-AS1,intron_variant,,ENST00000533935,;"	"A"	"ENSG00000230487"	"ENST00000437621"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/5701"	""	""	""	""	""	"1"	NA	1	"PSMG3-AS1"	"HGNC"	22230	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"77f0710e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0761904761904762	"WGS"	FALSE
"7381"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	1677380	1677380	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"77"	5	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"77f07f28-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0609756097560976	"WGS"	FALSE
"7382"	"MAD1L1"	8379	"mskcc.org"	"GRCh37"	"7"	2231382	2231382	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.986+21465T>G"	""	""	"ENST00000406869"	""	68	"60"	8	43	"43"	0	"MAD1L1,intron_variant,,ENST00000406869,;MAD1L1,intron_variant,,ENST00000399654,NM_001013837.1,NM_003550.2,NM_001013836.1;MAD1L1,intron_variant,,ENST00000265854,;MAD1L1,intron_variant,,ENST00000402746,;MAD1L1,intron_variant,,ENST00000464742,;MAD1L1,intron_variant,,ENST00000459731,;"	"C"	"ENSG00000002822"	"ENST00000406869"	"Transcript"	"intron_variant"	"-/2991"	"-/2157"	"-/718"	""	""	""	"1"	NA	-1	"MAD1L1"	"HGNC"	6762	"protein_coding"	"YES"	"CCDS43539.1"	"ENSP00000385334"	"Q9Y6D9"	"C9K086,C9JX80,C9JTA2,C9JKI7,C9JJ38,C9J9H5"	"UPI0000072C4D"	""	""	""	""	"10/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"77f13df0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"7383"	"TNRC18"	84629	"mskcc.org"	"GRCh37"	"7"	5465258	5465258	"+"	"5'Flank"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000430969"	""	89	"60"	29	47	"47"	0	"TNRC18,upstream_gene_variant,,ENST00000399537,;TNRC18,upstream_gene_variant,,ENST00000430969,NM_001080495.2;TNRC18,upstream_gene_variant,,ENST00000399434,;RP11-1275H24.1,downstream_gene_variant,,ENST00000610122,;RP11-1275H24.1,downstream_gene_variant,,ENST00000382426,;RP11-1275H24.3,upstream_gene_variant,,ENST00000608012,;RP11-1275H24.2,upstream_gene_variant,,ENST00000609130,;AC092171.2,downstream_gene_variant,,ENST00000455866,;AC093620.5,downstream_gene_variant,,ENST00000342963,;"	"G"	"ENSG00000182095"	"ENST00000430969"	"Transcript"	"upstream_gene_variant"	"-/10562"	"-/8907"	"-/2968"	""	""	""	"1"	"2081"	-1	"TNRC18"	"HGNC"	11962	"protein_coding"	"YES"	"CCDS47534.1"	"ENSP00000395538"	"O15417"	"H7C3U5,C9J9K1"	"UPI00016632FD"	"NM_001080495.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"77f3a220-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325842696629214	"WGS"	FALSE
"7384"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	5831436	5831436	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"rs370993939"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	43	"39"	4	14	"14"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs370993939"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"77f3e2a8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"7385"	"CYTH3"	9265	"mskcc.org"	"GRCh37"	"7"	6267483	6267483	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.35-37321G>C"	""	""	"ENST00000350796"	""	97	"73"	24	52	"52"	0	"CYTH3,intron_variant,,ENST00000350796,NM_004227.3;CYTH3,intron_variant,,ENST00000482460,;"	"G"	"ENSG00000008256"	"ENST00000350796"	"Transcript"	"intron_variant"	"-/4505"	"-/1200"	"-/399"	""	""	""	"1"	NA	-1	"CYTH3"	"HGNC"	9504	"protein_coding"	"YES"	"CCDS5346.1"	"ENSP00000297044"	"O43739"	"Q96HS5"	"UPI000002A7A1"	"NM_004227.3"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"77f440e0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247422680412371	"WGS"	FALSE
"7386"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	9199296	9199296	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"79"	22	69	"69"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"77f5b394-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217821782178218	"WGS"	FALSE
"7387"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	9280391	9280391	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"92"	6	50	"50"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"77f5ba7e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0612244897959184	"WGS"	FALSE
"7388"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	9741129	9741129	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs542386124"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"55"	33	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs542386124"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"77f5d0b8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WGS"	FALSE
"7389"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	10504864	10504864	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	24	"20"	4	25	"25"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"77f61c80-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"7390"	"AC009945.4"	0	"mskcc.org"	"GRCh37"	"7"	10516218	10516218	"+"	"RNA"	"SNP"	"G"	"A"	"A"	"rs116243737"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.11G>A"	""	""	"ENST00000453188"	"1/1"	97	"67"	30	63	"63"	0	"AC009945.4,non_coding_transcript_exon_variant,,ENST00000453188,;"	"A"	"ENSG00000234356"	"ENST00000453188"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"11/298"	""	""	""	""	"rs116243737"	"1"	NA	1	"AC009945.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	"A:0.0094"	"A:0.0333"	"A:0.0043"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"77f61fbe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309278350515464	"WGS"	FALSE
"7391"	"AC009945.4"	0	"mskcc.org"	"GRCh37"	"7"	10519841	10519841	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000453188"	""	101	"65"	36	65	"65"	0	"AC009945.4,downstream_gene_variant,,ENST00000453188,;"	"A"	"ENSG00000234356"	"ENST00000453188"	"Transcript"	"downstream_gene_variant"	"-/298"	""	""	""	""	""	"1"	"3336"	1	"AC009945.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"77f620c2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.356435643564356	"WGS"	FALSE
"7392"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	10527922	10527922	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"rs191926112"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"66"	36	67	"67"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs191926112"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0018"	"T:0.0053"	"T:0"	NA	"T:0.001"	"T:0"	"T:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"77f621d0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WGS"	FALSE
"7393"	"AC005281.1"	0	"mskcc.org"	"GRCh37"	"7"	12534987	12534987	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000418428"	""	102	"86"	16	54	"54"	0	"AC005281.1,upstream_gene_variant,,ENST00000418428,;TAS2R2P,downstream_gene_variant,,ENST00000421146,;"	"T"	"ENSG00000226690"	"ENST00000418428"	"Transcript"	"upstream_gene_variant"	"-/1094"	""	""	""	""	""	"1"	"1068"	1	"AC005281.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"77f6cf5e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.156862745098039	"WGS"	FALSE
"7394"	"RBMX2P4"	0	"mskcc.org"	"GRCh37"	"7"	12960096	12960096	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000441256"	""	95	"89"	6	52	"52"	0	"RBMX2P4,downstream_gene_variant,,ENST00000441256,;"	"C"	"ENSG00000230879"	"ENST00000441256"	"Transcript"	"downstream_gene_variant"	"-/376"	""	""	""	""	""	"1"	"2074"	-1	"RBMX2P4"	"HGNC"	39926	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"77f70e42-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0631578947368421	"WGS"	FALSE
"7395"	"ETV1"	2115	"mskcc.org"	"GRCh37"	"7"	13988040	13988040	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.236-9169A>C"	""	""	"ENST00000405192"	""	114	"73"	41	52	"52"	0	"ETV1,intron_variant,,ENST00000343495,;ETV1,intron_variant,,ENST00000430479,NM_004956.4;ETV1,intron_variant,,ENST00000242066,NM_001163148.1;ETV1,intron_variant,,ENST00000420159,NM_001163151.1;ETV1,intron_variant,,ENST00000399357,NM_001163152.1;ETV1,intron_variant,,ENST00000405192,NM_001163147.1;ETV1,intron_variant,,ENST00000405358,;ETV1,intron_variant,,ENST00000405218,;ETV1,intron_variant,,ENST00000403527,NM_001163150.1;ETV1,intron_variant,,ENST00000403685,NM_001163149.1;ETV1,intron_variant,,ENST00000438956,;ETV1,intron_variant,,ENST00000443608,;ETV1,intron_variant,,ENST00000431887,;ETV1,intron_variant,,ENST00000421381,;ETV1,intron_variant,,ENST00000476720,;ETV1,intron_variant,,ENST00000497115,;ETV1,intron_variant,,ENST00000443137,;ETV1,intron_variant,,ENST00000472931,;ETV1,intron_variant,,ENST00000476355,;"	"G"	"ENSG00000006468"	"ENST00000405192"	"Transcript"	"intron_variant"	"-/4402"	"-/1365"	"-/454"	""	""	""	"1"	NA	-1	"ETV1"	"HGNC"	3490	"protein_coding"	""	"CCDS55087.1"	"ENSP00000385381"	"P50549"	"C9J9L1,C9J4P4,C9J0B7"	"UPI00001695A0"	"NM_001163147.1"	""	""	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"77f76e28-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.359649122807018	"WGS"	TRUE
"7396"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	14138031	14138031	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	125	"85"	40	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"77f778c8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32	"WGS"	FALSE
"7397"	"DGKB"	1607	"mskcc.org"	"GRCh37"	"7"	14653284	14653284	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1288-246C>A"	""	""	"ENST00000403951"	""	95	"62"	33	48	"48"	0	"DGKB,intron_variant,,ENST00000403951,;DGKB,intron_variant,,ENST00000258767,;DGKB,intron_variant,,ENST00000399322,NM_004080.2;DGKB,intron_variant,,ENST00000402815,;DGKB,intron_variant,,ENST00000407950,;DGKB,intron_variant,,ENST00000444700,;DGKB,intron_variant,,ENST00000406247,NM_145695.2;DGKB,intron_variant,,ENST00000403963,;DGKB,intron_variant,,ENST00000471732,;"	"T"	"ENSG00000136267"	"ENST00000403951"	"Transcript"	"intron_variant"	"-/6917"	"-/2415"	"-/804"	""	""	""	"1"	NA	-1	"DGKB"	"HGNC"	2850	"protein_coding"	"YES"	"CCDS47547.1"	"ENSP00000385780"	"Q9Y6T7"	"C9JA18,B7Z3B3"	"UPI0000033B9B"	""	""	""	""	"15/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"77f7a8a2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347368421052632	"WGS"	FALSE
"7398"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	19696885	19696885	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"77"	31	49	"49"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"77f92966-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287037037037037	"WGS"	FALSE
"7399"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	23130833	23130833	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"68"	26	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"77fa5af2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276595744680851	"WGS"	FALSE
"7400"	"TRA2A"	29896	"mskcc.org"	"GRCh37"	"7"	23556891	23556891	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.171-744C>T"	""	""	"ENST00000297071"	""	63	"56"	7	37	"37"	0	"TRA2A,intron_variant,,ENST00000297071,NM_013293.3;TRA2A,intron_variant,,ENST00000392502,NM_001282759.1;TRA2A,intron_variant,,ENST00000538367,NM_001282757.1;TRA2A,intron_variant,,ENST00000474586,;TRA2A,intron_variant,,ENST00000490942,;TRA2A,intron_variant,,ENST00000494255,;TRA2A,intron_variant,,ENST00000448549,;"	"A"	"ENSG00000164548"	"ENST00000297071"	"Transcript"	"intron_variant"	"-/1845"	"-/849"	"-/282"	""	""	""	"1"	NA	-1	"TRA2A"	"HGNC"	16645	"protein_coding"	"YES"	"CCDS5383.1"	"ENSP00000297071"	"Q13595"	"Q549U1,B4DUA9"	"UPI00001372AB"	"NM_013293.3"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"77fa8d74-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"7401"	"TRA2A"	29896	"mskcc.org"	"GRCh37"	"7"	23575376	23575376	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000297071"	""	74	"69"	5	42	"42"	0	"TRA2A,upstream_gene_variant,,ENST00000297071,NM_013293.3;TRA2A,upstream_gene_variant,,ENST00000392502,NM_001282759.1;TRA2A,upstream_gene_variant,,ENST00000538367,NM_001282757.1;TRA2A,upstream_gene_variant,,ENST00000474586,;TRA2A,upstream_gene_variant,,ENST00000490942,;TRA2A,upstream_gene_variant,,ENST00000494255,;TRA2A,upstream_gene_variant,,ENST00000448549,;"	"C"	"ENSG00000164548"	"ENST00000297071"	"Transcript"	"upstream_gene_variant"	"-/1845"	"-/849"	"-/282"	""	""	""	"1"	"3716"	-1	"TRA2A"	"HGNC"	16645	"protein_coding"	"YES"	"CCDS5383.1"	"ENSP00000297071"	"Q13595"	"Q549U1,B4DUA9"	"UPI00001372AB"	"NM_013293.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"77fa91ac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0675675675675676	"WGS"	FALSE
"7402"	"TRA2A"	29896	"mskcc.org"	"GRCh37"	"7"	23575383	23575383	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000297071"	""	78	"72"	6	41	"41"	0	"TRA2A,upstream_gene_variant,,ENST00000297071,NM_013293.3;TRA2A,upstream_gene_variant,,ENST00000392502,NM_001282759.1;TRA2A,upstream_gene_variant,,ENST00000538367,NM_001282757.1;TRA2A,upstream_gene_variant,,ENST00000474586,;TRA2A,upstream_gene_variant,,ENST00000490942,;TRA2A,upstream_gene_variant,,ENST00000494255,;TRA2A,upstream_gene_variant,,ENST00000448549,;"	"T"	"ENSG00000164548"	"ENST00000297071"	"Transcript"	"upstream_gene_variant"	"-/1845"	"-/849"	"-/282"	""	""	""	"1"	"3723"	-1	"TRA2A"	"HGNC"	16645	"protein_coding"	"YES"	"CCDS5383.1"	"ENSP00000297071"	"Q13595"	"Q549U1,B4DUA9"	"UPI00001372AB"	"NM_013293.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"77fa92ce-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"7403"	"TRA2A"	29896	"mskcc.org"	"GRCh37"	"7"	23575392	23575392	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000297071"	""	80	"73"	7	41	"41"	0	"TRA2A,upstream_gene_variant,,ENST00000297071,NM_013293.3;TRA2A,upstream_gene_variant,,ENST00000392502,NM_001282759.1;TRA2A,upstream_gene_variant,,ENST00000538367,NM_001282757.1;TRA2A,upstream_gene_variant,,ENST00000474586,;TRA2A,upstream_gene_variant,,ENST00000490942,;TRA2A,upstream_gene_variant,,ENST00000494255,;TRA2A,upstream_gene_variant,,ENST00000448549,;"	"G"	"ENSG00000164548"	"ENST00000297071"	"Transcript"	"upstream_gene_variant"	"-/1845"	"-/849"	"-/282"	""	""	""	"1"	"3732"	-1	"TRA2A"	"HGNC"	16645	"protein_coding"	"YES"	"CCDS5383.1"	"ENSP00000297071"	"Q13595"	"Q549U1,B4DUA9"	"UPI00001372AB"	"NM_013293.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"77fa94f4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0875	"WGS"	FALSE
"7404"	"STK31"	56164	"mskcc.org"	"GRCh37"	"7"	23858238	23858238	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2829+3407T>A"	""	""	"ENST00000355870"	""	102	"97"	5	54	"54"	0	"STK31,intron_variant,,ENST00000354639,NM_032944.3,NM_001260504.1;STK31,intron_variant,,ENST00000428484,;STK31,intron_variant,,ENST00000355870,NM_031414.4;STK31,intron_variant,,ENST00000433467,NM_001260505.1;STK31,intron_variant,,ENST00000405627,;"	"A"	"ENSG00000196335"	"ENST00000355870"	"Transcript"	"intron_variant"	"-/3326"	"-/3060"	"-/1019"	""	""	""	"1"	NA	1	"STK31"	"HGNC"	11407	"protein_coding"	"YES"	"CCDS5386.1"	"ENSP00000348132"	"Q9BXU1"	"Q75MZ9,F8W6E7,E9PRQ0,C9JQW5,B3KY91"	"UPI0000167B73"	"NM_031414.4"	""	""	""	"23/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"77fab970-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0490196078431373	"WGS"	FALSE
"7405"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	28940773	28940773	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"55"	4	34	"34"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"77fc916e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0677966101694915	"WGS"	FALSE
"7406"	"CPVL"	54504	"mskcc.org"	"GRCh37"	"7"	29066722	29066722	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1320+3471C>G"	""	""	"ENST00000409850"	""	97	"78"	19	45	"45"	0	"CPVL,intron_variant,,ENST00000409850,;CPVL,intron_variant,,ENST00000265394,NM_031311.3;CPVL,intron_variant,,ENST00000396276,NM_019029.2;CPVL,intron_variant,,ENST00000432534,;CPVL,intron_variant,,ENST00000455893,;"	"C"	"ENSG00000106066"	"ENST00000409850"	"Transcript"	"intron_variant"	"-/2213"	"-/1431"	"-/476"	""	""	""	"1"	NA	-1	"CPVL"	"HGNC"	14399	"protein_coding"	"YES"	"CCDS5419.1"	"ENSP00000387164"	"Q9H3G5"	"Q75MM4,O75225,C9JZ94,C9JVI2,C9JLV0,C9JI22,C9J6L4"	"UPI0000048F1B"	""	""	""	""	"16/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"77fca5c8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195876288659794	"WGS"	FALSE
"7407"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	35349270	35349270	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"68"	27	51	"51"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"77ff9076-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284210526315789	"WGS"	FALSE
"7408"	"ELMO1"	9844	"mskcc.org"	"GRCh37"	"7"	36921977	36921977	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1715-4255T>A"	""	""	"ENST00000310758"	""	89	"63"	26	53	"53"	0	"ELMO1,intron_variant,,ENST00000310758,NM_014800.10,NM_001206480.1;ELMO1,intron_variant,,ENST00000442504,NM_001206482.1;ELMO1,intron_variant,,ENST00000448602,;ELMO1,intron_variant,,ENST00000396045,NM_130442.3;ELMO1,intron_variant,,ENST00000341056,;ELMO1,intron_variant,,ENST00000396040,NM_001039459.2;ELMO1,intron_variant,,ENST00000487843,;ELMO1,intron_variant,,ENST00000464262,;"	"T"	"ENSG00000155849"	"ENST00000310758"	"Transcript"	"intron_variant"	"-/4022"	"-/2184"	"-/727"	""	""	""	"1"	NA	-1	"ELMO1"	"HGNC"	16286	"protein_coding"	"YES"	"CCDS5449.1"	"ENSP00000312185"	"Q92556"	"C9JIW2,C9JB20,C9J5X3,B4DJV6,A4D1X5"	"UPI000006F687"	"NM_014800.10,NM_001206480.1"	""	""	""	"18/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"78001474-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292134831460674	"WGS"	FALSE
"7409"	"ELMO1"	9844	"mskcc.org"	"GRCh37"	"7"	37255838	37255838	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.831+412G>A"	""	""	"ENST00000310758"	""	94	"62"	32	49	"49"	0	"ELMO1,intron_variant,,ENST00000310758,NM_014800.10,NM_001206480.1;ELMO1,intron_variant,,ENST00000442504,NM_001206482.1;ELMO1,intron_variant,,ENST00000448602,;ELMO1,intron_variant,,ENST00000424212,;ELMO1,intron_variant,,ENST00000433246,;ELMO1,intron_variant,,ENST00000420636,;ELMO1,intron_variant,,ENST00000487336,;"	"T"	"ENSG00000155849"	"ENST00000310758"	"Transcript"	"intron_variant"	"-/4022"	"-/2184"	"-/727"	""	""	""	"1"	NA	-1	"ELMO1"	"HGNC"	16286	"protein_coding"	"YES"	"CCDS5449.1"	"ENSP00000312185"	"Q92556"	"C9JIW2,C9JB20,C9J5X3,B4DJV6,A4D1X5"	"UPI000006F687"	"NM_014800.10,NM_001206480.1"	""	""	""	"11/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"780029a0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340425531914894	"WGS"	FALSE
"7410"	"POU6F2"	11281	"mskcc.org"	"GRCh37"	"7"	39354887	39354887	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.512-24354C>T"	""	""	"ENST00000403058"	""	118	"83"	35	70	"70"	0	"POU6F2,intron_variant,,ENST00000518318,;POU6F2,intron_variant,,ENST00000559001,;POU6F2,intron_variant,,ENST00000403058,NM_001166018.1,NM_007252.3;POU6F2,intron_variant,,ENST00000524147,;POU6F2,intron_variant,,ENST00000520104,;POU6F2,intron_variant,,ENST00000517348,;"	"T"	"ENSG00000106536"	"ENST00000403058"	"Transcript"	"intron_variant"	"-/2335"	"-/2076"	"-/691"	""	""	""	"1"	NA	1	"POU6F2"	"HGNC"	21694	"protein_coding"	"YES"	"CCDS34620.2"	"ENSP00000384004"	"P78424"	"H0YL15"	"UPI0000480E81"	"NM_001166018.1,NM_007252.3"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"7800fbbe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296610169491525	"WGS"	FALSE
"7411"	"YAE1D1"	57002	"mskcc.org"	"GRCh37"	"7"	39626245	39626245	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.251+16019A>T"	""	""	"ENST00000432096"	""	54	"48"	6	38	"38"	0	"YAE1D1,intron_variant,,ENST00000432096,NM_001282446.1;"	"T"	"ENSG00000241127"	"ENST00000432096"	"Transcript"	"intron_variant"	"-/968"	"-/621"	"-/206"	""	""	""	"1"	NA	1	"YAE1D1"	"HGNC"	24857	"protein_coding"	""	"CCDS64630.1"	"ENSP00000395777"	""	"B4DE83"	"UPI00017A6CC5"	"NM_001282446.1"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"78010e38-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"7412"	"YAE1D1"	57002	"mskcc.org"	"GRCh37"	"7"	39626263	39626263	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.251+16037T>A"	""	""	"ENST00000432096"	""	57	"52"	5	40	"40"	0	"YAE1D1,intron_variant,,ENST00000432096,NM_001282446.1;"	"A"	"ENSG00000241127"	"ENST00000432096"	"Transcript"	"intron_variant"	"-/968"	"-/621"	"-/206"	""	""	""	"1"	NA	1	"YAE1D1"	"HGNC"	24857	"protein_coding"	""	"CCDS64630.1"	"ENSP00000395777"	""	"B4DE83"	"UPI00017A6CC5"	"NM_001282446.1"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"7801102c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087719298245614	"WGS"	FALSE
"7413"	"AC005537.2"	0	"mskcc.org"	"GRCh37"	"7"	43017961	43017961	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.589-5514G>T"	""	""	"ENST00000609382"	""	109	"75"	34	55	"55"	0	"AC005537.2,intron_variant,,ENST00000609382,;AC005537.2,intron_variant,,ENST00000585996,;"	"A"	"ENSG00000232006"	"ENST00000609382"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/813"	""	""	""	""	""	"1"	NA	-1	"AC005537.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7802606c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311926605504587	"WGS"	FALSE
"7414"	"ABCA13"	154664	"mskcc.org"	"GRCh37"	"7"	48266934	48266934	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.544C>T"	"p.="	"p.L182L"	"ENST00000435803"	"6/62"	98	"90"	8	59	"59"	0	"ABCA13,synonymous_variant,p.=,ENST00000435803,NM_152701.3;ABCA13,synonymous_variant,p.=,ENST00000417403,;"	"T"	"ENSG00000179869"	"ENST00000435803"	"Transcript"	"synonymous_variant"	"568/17184"	"544/15177"	"182/5058"	"L"	"Cta/Tta"	""	"1"	NA	1	"ABCA13"	"HGNC"	14638	"protein_coding"	"YES"	"CCDS47584.1"	"ENSP00000411096"	"Q86UQ4"	""	"UPI00001A95EA"	"NM_152701.3"	""	""	"6/62"	""	"hmmpanther:PTHR19229,hmmpanther:PTHR19229:SF113"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7805038a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WGS"	FALSE
"7415"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	51440885	51440885	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"83"	6	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"7805f54c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"7416"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	52870780	52870780	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"63"	30	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"78066b44-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32258064516129	"WGS"	FALSE
"7417"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	52998083	52998083	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"61"	32	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"780673dc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344086021505376	"WGS"	FALSE
"7418"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	53193110	53193110	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	123	"87"	36	62	"62"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"7806869c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292682926829268	"WGS"	FALSE
"7419"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	53460413	53460413	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"99"	5	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7806a38e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0480769230769231	"WGS"	FALSE
"7420"	"GBAS"	2631	"mskcc.org"	"GRCh37"	"7"	56054581	56054581	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.617+2010C>T"	""	""	"ENST00000322090"	""	80	"72"	8	39	"39"	0	"GBAS,intron_variant,,ENST00000322090,NM_001483.2;GBAS,intron_variant,,ENST00000446778,NM_001202469.1;GBAS,intron_variant,,ENST00000437587,;GBAS,downstream_gene_variant,,ENST00000446692,;GBAS,intron_variant,,ENST00000497279,;GBAS,intron_variant,,ENST00000415967,;GBAS,downstream_gene_variant,,ENST00000456204,;GBAS,downstream_gene_variant,,ENST00000464772,;"	"T"	"ENSG00000146729"	"ENST00000322090"	"Transcript"	"intron_variant"	"-/1999"	"-/861"	"-/286"	""	""	""	"1"	NA	1	"GBAS"	"HGNC"	4179	"protein_coding"	"YES"	"CCDS5521.1"	"ENSP00000313050"	"O75323"	"C9K068,C9J7B1"	"UPI00000015EB"	"NM_001483.2"	""	""	""	"7/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"780787a4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"7421"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	56218440	56218440	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	34	"28"	6	11	"11"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7807c55c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"7422"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	56218446	56218446	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	33	"28"	5	12	"12"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7807c674-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151515151515152	"WGS"	FALSE
"7423"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	61656963	61656963	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"23"	19	26	"26"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"780cb526-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.452380952380952	"WGS"	FALSE
"7424"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	61656991	61656991	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"32"	22	34	"34"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"780cb620-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.407407407407407	"WGS"	FALSE
"7425"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	61774260	61774260	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs12531687"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"63"	27	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs12531687"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0042"	"T:0"	"T:0.0288"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"780cd22c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"7426"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	62681612	62681612	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"69"	34	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"780dcc54-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330097087378641	"WGS"	FALSE
"7427"	"CCT6P1"	0	"mskcc.org"	"GRCh37"	"7"	65211914	65211914	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000442266"	""	62	"58"	4	30	"30"	0	"CCT6P1,upstream_gene_variant,,ENST00000442266,;CCT6P1,upstream_gene_variant,,ENST00000443108,;CCT6P1,upstream_gene_variant,,ENST00000434500,;"	"A"	"ENSG00000228409"	"ENST00000442266"	"Transcript"	"upstream_gene_variant"	"-/1315"	""	""	""	""	""	"1"	"4217"	1	"CCT6P1"	"HGNC"	33094	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"7810b5cc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"7428"	"RNU6-973P"	0	"mskcc.org"	"GRCh37"	"7"	65327562	65327562	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000364690"	""	54	"48"	6	23	"23"	0	"RNU6-973P,upstream_gene_variant,,ENST00000364690,;"	"A"	"ENSG00000201560"	"ENST00000364690"	"Transcript"	"upstream_gene_variant"	"-/107"	""	""	""	""	""	"1"	"2809"	-1	"RNU6-973P"	"HGNC"	47936	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"78111698-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"7429"	"GS1-124K5.4"	100289098	"mskcc.org"	"GRCh37"	"7"	65958714	65958714	"+"	"RNA"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.22A>T"	""	""	"ENST00000445681"	"1/2"	101	"71"	30	36	"36"	0	"GS1-124K5.4,non_coding_transcript_exon_variant,,ENST00000445681,;GS1-124K5.3,upstream_gene_variant,,ENST00000450353,;GS1-124K5.3,upstream_gene_variant,,ENST00000412091,;GS1-124K5.4,upstream_gene_variant,,ENST00000452565,;GS1-124K5.2,upstream_gene_variant,,ENST00000429320,;GS1-124K5.7,upstream_gene_variant,,ENST00000424928,;"	"T"	"ENSG00000237310"	"ENST00000445681"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"22/540"	""	""	""	""	""	"1"	NA	1	"GS1-124K5.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"78118c7c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297029702970297	"WGS"	FALSE
"7430"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	66713873	66713873	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"52"	24	35	"35"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7811fcac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WGS"	FALSE
"7431"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	67918300	67918300	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"62"	29	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7812ec2a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318681318681319	"WGS"	FALSE
"7432"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	68420075	68420075	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"rs182979882"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"30"	19	20	"17"	3	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs182979882"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0052"	"T:0.0197"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"78133c8e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.387755102040816	"WGS"	FALSE
"7433"	"WBSCR17"	64409	"mskcc.org"	"GRCh37"	"7"	70930551	70930551	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.962+44460G>A"	""	""	"ENST00000333538"	""	93	"70"	23	53	"53"	0	"WBSCR17,intron_variant,,ENST00000333538,NM_022479.2;WBSCR17,intron_variant,,ENST00000498380,;WBSCR17,intron_variant,,ENST00000467723,;"	"A"	"ENSG00000185274"	"ENST00000333538"	"Transcript"	"intron_variant"	"-/3884"	"-/1797"	"-/598"	""	""	""	"1"	NA	1	"WBSCR17"	"HGNC"	16347	"protein_coding"	"YES"	"CCDS5540.1"	"ENSP00000329654"	"Q6IS24"	"Q68CW8,Q2L4S5,B3KRD2"	"UPI00000502D5"	"NM_022479.2"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"78146604-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247311827956989	"WGS"	FALSE
"7434"	"TYW1B"	0	"mskcc.org"	"GRCh37"	"7"	72144989	72144989	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.384+14688G>T"	""	""	"ENST00000343721"	""	92	"68"	24	52	"52"	0	"TYW1B,intron_variant,,ENST00000343721,;TYW1B,intron_variant,,ENST00000438125,;TYW1B,intron_variant,,ENST00000435769,NM_001145440.1;"	"A"	"ENSG00000254184"	"ENST00000343721"	"Transcript"	"intron_variant"	"-/1302"	"-/885"	"-/294"	""	""	""	"1"	NA	-1	"TYW1B"	"HGNC"	33908	"protein_coding"	""	""	"ENSP00000476766"	""	"B4DG43,B4DFY2"	"UPI00001980B4"	""	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"78158890-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"7435"	"STX1A"	6804	"mskcc.org"	"GRCh37"	"7"	73124292	73124292	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.31-840G>C"	""	""	"ENST00000222812"	""	97	"92"	5	49	"49"	0	"STX1A,intron_variant,,ENST00000222812,NM_004603.3;STX1A,intron_variant,,ENST00000395156,NM_001165903.1;STX1A,intron_variant,,ENST00000395154,;STX1A,intron_variant,,ENST00000395155,;WBSCR22,downstream_gene_variant,,ENST00000423166,;MIR4284,upstream_gene_variant,,ENST00000578924,;STX1A,intron_variant,,ENST00000470878,;STX1A,upstream_gene_variant,,ENST00000496216,;STX1A,intron_variant,,ENST00000462135,;WBSCR22,downstream_gene_variant,,ENST00000436944,;STX1A,upstream_gene_variant,,ENST00000494245,;"	"G"	"ENSG00000106089"	"ENST00000222812"	"Transcript"	"intron_variant"	"-/2095"	"-/867"	"-/288"	""	""	""	"1"	NA	-1	"STX1A"	"HGNC"	11433	"protein_coding"	"YES"	"CCDS34655.1"	"ENSP00000222812"	"Q16623"	"Q75ME0"	"UPI0000136065"	"NM_004603.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"78164f00-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0515463917525773	"WGS"	FALSE
"7436"	"ELN"	2006	"mskcc.org"	"GRCh37"	"7"	73451331	73451331	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.163+417T>A"	""	""	"ENST00000252034"	""	88	"82"	6	50	"50"	0	"ELN,intron_variant,,ENST00000252034,NM_000501.3,NM_001081755.2,NM_001278915.1;ELN,intron_variant,,ENST00000358929,NM_001278939.1;ELN,intron_variant,,ENST00000357036,NM_001081754.2;ELN,intron_variant,,ENST00000429192,NM_001081753.2;ELN,intron_variant,,ENST00000380584,NM_001278916.1;ELN,intron_variant,,ENST00000458204,NM_001278917.1;ELN,intron_variant,,ENST00000414324,NM_001278914.1;ELN,intron_variant,,ENST00000380576,;ELN,intron_variant,,ENST00000380575,NM_001278918.1,NM_001081752.2;ELN,intron_variant,,ENST00000320492,NM_001278913.1;ELN,intron_variant,,ENST00000380553,;ELN,intron_variant,,ENST00000445912,NM_001278912.1;ELN,intron_variant,,ENST00000320399,;ELN,intron_variant,,ENST00000380562,;ELN,intron_variant,,ENST00000438906,;ELN,intron_variant,,ENST00000417091,;ELN,intron_variant,,ENST00000438880,;ELN,intron_variant,,ENST00000431562,;ELN,intron_variant,,ENST00000442310,;ELN,intron_variant,,ENST00000428787,;ELN,intron_variant,,ENST00000416107,;ELN,intron_variant,,ENST00000468517,;ELN,intron_variant,,ENST00000494160,;ELN,intron_variant,,ENST00000462506,;ELN,intron_variant,,ENST00000480728,;ELN,intron_variant,,ENST00000479432,;ELN,intron_variant,,ENST00000492003,;ELN,intron_variant,,ENST00000473323,;"	"A"	"ENSG00000049540"	"ENST00000252034"	"Transcript"	"intron_variant"	"-/3781"	"-/2175"	"-/724"	""	""	""	"1"	NA	1	"ELN"	"HGNC"	3327	"protein_coding"	"YES"	"CCDS5562.2"	"ENSP00000252034"	"P15502"	"Q9UMK5"	"UPI0000D4A0DC"	"NM_000501.3,NM_001081755.2,NM_001278915.1"	""	""	""	"3/32"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTC"	"7816924e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	TRUE
"7437"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"7"	74315419	74315419	"+"	"3'Flank"	"SNP"	"A"	"G"	"G"	"rs587695237"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000459002"	""	34	"24"	10	15	"15"	0	"Y_RNA,downstream_gene_variant,,ENST00000459002,;PMS2P5,intron_variant,,ENST00000318568,;PMS2P5,intron_variant,,ENST00000394959,;PMS2P5,intron_variant,,ENST00000337023,;PMS2P5,intron_variant,,ENST00000380410,;AC004166.6,downstream_gene_variant,,ENST00000333385,;PMS2P5,downstream_gene_variant,,ENST00000398065,;"	"G"	"ENSG00000239069"	"ENST00000459002"	"Transcript"	"downstream_gene_variant"	"-/102"	""	""	""	""	"rs587695237"	"1"	"3382"	1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"G:0.1164"	"G:0.4251"	"G:0.0303"	NA	"G:0"	"G:0"	"G:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"781765e8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"7438"	"UPK3B"	80761	"mskcc.org"	"GRCh37"	"7"	76531134	76531134	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*221-117007A>C"	""	""	"ENST00000419923"	""	108	"102"	6	53	"53"	0	"UPK3B,intron_variant,,ENST00000419923,;UPK3B,intron_variant,,ENST00000443097,;AC007003.1,upstream_gene_variant,,ENST00000472463,;"	"C"	"ENSG00000243566"	"ENST00000419923"	"Transcript"	"intron_variant"	"-/1608"	"-/963"	"-/320"	""	""	""	"1"	NA	1	"UPK3B"	"HGNC"	21444	"protein_coding"	"YES"	"CCDS5588.1"	"ENSP00000441602"	"Q9BT76"	""	"UPI00001AE7A4"	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"781913d4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"7439"	"UPK3B"	80761	"mskcc.org"	"GRCh37"	"7"	76622878	76622878	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"rs575586026"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*221-25263A>T"	""	""	"ENST00000419923"	""	118	"112"	6	65	"65"	0	"UPK3B,intron_variant,,ENST00000419923,;UPK3B,intron_variant,,ENST00000443097,;DTX2P1-UPK3BP1-PMS2P11,intron_variant,,ENST00000584900,;DTX2P1-UPK3BP1-PMS2P11,intron_variant,,ENST00000579700,;DTX2P1,intron_variant,,ENST00000425797,;DTX2P1,intron_variant,,ENST00000162863,;DTX2P1,upstream_gene_variant,,ENST00000440837,;"	"T"	"ENSG00000243566"	"ENST00000419923"	"Transcript"	"intron_variant"	"-/1608"	"-/963"	"-/320"	""	""	"rs575586026"	"1"	NA	1	"UPK3B"	"HGNC"	21444	"protein_coding"	"YES"	"CCDS5588.1"	"ENSP00000441602"	"Q9BT76"	""	"UPI00001AE7A4"	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"7819392c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0508474576271186	"WGS"	FALSE
"7440"	"CCDC146"	57639	"mskcc.org"	"GRCh37"	"7"	76816760	76816760	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.156+19619C>T"	""	""	"ENST00000285871"	""	103	"73"	30	53	"53"	0	"CCDC146,intron_variant,,ENST00000285871,NM_020879.2;CCDC146,intron_variant,,ENST00000431197,;CCDC146,intron_variant,,ENST00000415750,;RP11-467H10.2,intron_variant,,ENST00000459742,;"	"T"	"ENSG00000135205"	"ENST00000285871"	"Transcript"	"intron_variant"	"-/3333"	"-/2868"	"-/955"	""	""	""	"1"	NA	1	"CCDC146"	"HGNC"	29296	"protein_coding"	"YES"	"CCDS34671.1"	"ENSP00000285871"	"Q8IYE0"	"Q7Z4Q3"	"UPI000020F44F"	"NM_020879.2"	""	""	""	"2/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"781994a8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29126213592233	"WGS"	FALSE
"7441"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	79310158	79310158	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"102"	5	60	"60"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"781a7a94-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0467289719626168	"WGS"	FALSE
"7442"	"SEMA3A"	10371	"mskcc.org"	"GRCh37"	"7"	83789182	83789182	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.113-24915T>G"	""	""	"ENST00000265362"	""	96	"87"	9	64	"64"	0	"SEMA3A,intron_variant,,ENST00000265362,NM_006080.2;SEMA3A,intron_variant,,ENST00000436949,;SEMA3A,intron_variant,,ENST00000420047,;"	"C"	"ENSG00000075213"	"ENST00000265362"	"Transcript"	"intron_variant"	"-/8225"	"-/2316"	"-/771"	""	""	""	"1"	NA	-1	"SEMA3A"	"HGNC"	10723	"protein_coding"	"YES"	"CCDS5599.1"	"ENSP00000265362"	"Q14563"	"Q86UJ2,Q75MQ2,C9JD25,C9J9C4"	"UPI0000135A60"	"NM_006080.2"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAA"	"781bc17e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"7443"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	86190726	86190726	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"74"	30	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"781c93e2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288461538461538	"WGS"	FALSE
"7444"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	86246882	86246882	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"68"	27	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"781c94fa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284210526315789	"WGS"	FALSE
"7445"	"ADAM22"	53616	"mskcc.org"	"GRCh37"	"7"	87648615	87648615	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.323+40888T>C"	""	""	"ENST00000265727"	""	84	"77"	7	56	"56"	0	"ADAM22,intron_variant,,ENST00000398204,NM_021723.3,NM_016351.4;ADAM22,intron_variant,,ENST00000398209,NM_021722.4;ADAM22,intron_variant,,ENST00000315984,;ADAM22,intron_variant,,ENST00000265727,;ADAM22,intron_variant,,ENST00000398201,NM_004194.3,NM_021721.3;ADAM22,intron_variant,,ENST00000398203,;ADAM22,intron_variant,,ENST00000439864,;ADAM22,intron_variant,,ENST00000412441,;"	"C"	"ENSG00000008277"	"ENST00000265727"	"Transcript"	"intron_variant"	"-/2891"	"-/2721"	"-/906"	""	""	""	"1"	NA	1	"ADAM22"	"HGNC"	201	"protein_coding"	"YES"	"CCDS47637.1"	"ENSP00000265727"	"Q9P0K1"	"Q9UKK0,Q86UM2,Q75MS7,F8WAD8,D6W5P7"	"UPI00001254DC"	""	""	""	""	"3/30"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"781cffb2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"7446"	"ZNF804B"	219578	"mskcc.org"	"GRCh37"	"7"	88756399	88756399	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.109-91070G>A"	""	""	"ENST00000333190"	""	117	"89"	28	68	"68"	0	"ZNF804B,intron_variant,,ENST00000333190,NM_181646.2;"	"A"	"ENSG00000182348"	"ENST00000333190"	"Transcript"	"intron_variant"	"-/4659"	"-/4050"	"-/1349"	""	""	""	"1"	NA	1	"ZNF804B"	"HGNC"	21958	"protein_coding"	"YES"	"CCDS5613.1"	"ENSP00000329638"	"A4D1E1"	""	"UPI00001A92D2"	"NM_181646.2"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"781d5048-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239316239316239	"WGS"	FALSE
"7447"	"STEAP2-AS1"	100874100	"mskcc.org"	"GRCh37"	"7"	89510708	89510708	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000478318"	""	91	"85"	6	53	"53"	0	"STEAP2-AS1,downstream_gene_variant,,ENST00000478318,;"	"C"	"ENSG00000227646"	"ENST00000478318"	"Transcript"	"downstream_gene_variant"	"-/627"	""	""	""	""	""	"1"	"959"	-1	"STEAP2-AS1"	"HGNC"	40820	"antisense"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"781dc10e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"7448"	"CDK6"	1021	"mskcc.org"	"GRCh37"	"7"	92317139	92317139	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.538-16290G>A"	""	""	"ENST00000265734"	""	130	"85"	45	67	"67"	0	"CDK6,intron_variant,,ENST00000265734,NM_001259.6;CDK6,intron_variant,,ENST00000424848,NM_001145306.1;CDK6,intron_variant,,ENST00000473078,;"	"T"	"ENSG00000105810"	"ENST00000265734"	"Transcript"	"intron_variant"	"-/11612"	"-/981"	"-/326"	""	""	""	"1"	NA	-1	"CDK6"	"HGNC"	1777	"protein_coding"	"YES"	"CCDS5628.1"	"ENSP00000265734"	"Q00534"	"A4D1G0"	"UPI00001108FA"	"NM_001259.6"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"781eb078-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	TRUE
"7449"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	92712442	92712442	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"73"	39	63	"62"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"781ec752-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.348214285714286	"WGS"	FALSE
"7450"	"GNGT1"	2792	"mskcc.org"	"GRCh37"	"7"	93541329	93541329	"+"	"3'Flank"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000248572"	""	88	"60"	28	47	"47"	0	"GNGT1,downstream_gene_variant,,ENST00000455502,;GNGT1,downstream_gene_variant,,ENST00000428834,;GNGT1,downstream_gene_variant,,ENST00000248572,NM_021955.3;GNGT1,downstream_gene_variant,,ENST00000430875,;GNGT1,downstream_gene_variant,,ENST00000429473,;"	"C"	"ENSG00000127928"	"ENST00000248572"	"Transcript"	"downstream_gene_variant"	"-/720"	"-/225"	"-/74"	""	""	""	"1"	"752"	1	"GNGT1"	"HGNC"	4411	"protein_coding"	"YES"	"CCDS5633.1"	"ENSP00000248572"	"P63211"	"Q6LCP6"	"UPI0000001316"	"NM_021955.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"781eee3a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318181818181818	"WGS"	FALSE
"7451"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	94086607	94086607	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"62"	31	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"781f25b2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"7452"	"RPS3AP25"	0	"mskcc.org"	"GRCh37"	"7"	94327908	94327908	"+"	"5'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000411660"	""	99	"66"	33	60	"60"	0	"RPS3AP25,upstream_gene_variant,,ENST00000411660,;"	"G"	"ENSG00000232385"	"ENST00000411660"	"Transcript"	"upstream_gene_variant"	"-/793"	""	""	""	""	""	"1"	"2777"	-1	"RPS3AP25"	"HGNC"	36801	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"781f3e80-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"7453"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	95193993	95193993	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"rs148991181"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"79"	7	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148991181"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"781f8d18-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0813953488372093	"WGS"	FALSE
"7454"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	97047060	97047060	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"61"	23	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"78201c4c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273809523809524	"WGS"	FALSE
"7455"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	97047061	97047061	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"61"	24	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"78201d50-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282352941176471	"WGS"	FALSE
"7456"	"MYH16"	84176	"mskcc.org"	"GRCh37"	"7"	98831891	98831891	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000439784"	""	89	"82"	7	41	"41"	0	"MYH16,upstream_gene_variant,,ENST00000453194,;MYH16,upstream_gene_variant,,ENST00000439784,;"	"A"	"ENSG00000002079"	"ENST00000439784"	"Transcript"	"upstream_gene_variant"	"-/6294"	""	""	""	""	""	"1"	"4526"	1	"MYH16"	"HGNC"	31038	"unitary_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"782155bc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	FALSE
"7457"	"AZGP1"	563	"mskcc.org"	"GRCh37"	"7"	99570188	99570188	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.77-559C>G"	""	""	"ENST00000292401"	""	94	"88"	6	57	"57"	0	"AZGP1,intron_variant,,ENST00000411734,;AZGP1,intron_variant,,ENST00000292401,NM_001185.3;AZGP1,upstream_gene_variant,,ENST00000419575,;AZGP1,upstream_gene_variant,,ENST00000483612,;AZGP1,intron_variant,,ENST00000495765,;AZGP1,upstream_gene_variant,,ENST00000477251,;"	"C"	"ENSG00000160862"	"ENST00000292401"	"Transcript"	"intron_variant"	"-/1307"	"-/897"	"-/298"	""	""	""	"1"	NA	-1	"AZGP1"	"HGNC"	910	"protein_coding"	"YES"	"CCDS5680.1"	"ENSP00000292401"	"P25311"	""	"UPI00000720DE"	"NM_001185.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"7821b00c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"7458"	"AP1S1"	1174	"mskcc.org"	"GRCh37"	"7"	100793202	100793202	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000337619"	""	109	"102"	7	52	"52"	0	"AP1S1,upstream_gene_variant,,ENST00000337619,NM_001283.3;AP1S1,upstream_gene_variant,,ENST00000429457,;AP1S1,upstream_gene_variant,,ENST00000443943,;"	"T"	"ENSG00000106367"	"ENST00000337619"	"Transcript"	"upstream_gene_variant"	"-/1306"	"-/477"	"-/158"	""	""	""	"1"	"4476"	1	"AP1S1"	"HGNC"	559	"protein_coding"	"YES"	"CCDS47669.1"	"ENSP00000336666"	"P61966"	""	"UPI0000027F3C"	"NM_001283.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"78235b1e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0642201834862385	"WGS"	FALSE
"7459"	"ORAI2"	80228	"mskcc.org"	"GRCh37"	"7"	102086181	102086181	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs564370836"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.226-779A>G"	""	""	"ENST00000356387"	""	84	"76"	8	52	"52"	0	"ORAI2,intron_variant,,ENST00000356387,NM_001271818.1,NM_001126340.2,NM_001271819.1,NM_032831.3;ORAI2,intron_variant,,ENST00000478730,;ORAI2,intron_variant,,ENST00000403646,;ORAI2,intron_variant,,ENST00000473939,;ORAI2,intron_variant,,ENST00000495936,;ORAI2,intron_variant,,ENST00000468241,;ORAI2,intron_variant,,ENST00000498661,;ORAI2,intron_variant,,ENST00000488996,;"	"G"	"ENSG00000160991"	"ENST00000356387"	"Transcript"	"intron_variant"	"-/10769"	"-/765"	"-/254"	""	""	"rs564370836"	"1"	NA	1	"ORAI2"	"HGNC"	21667	"protein_coding"	"YES"	"CCDS5722.1"	"ENSP00000348752"	"Q96SN7"	"C9JUY6,C9JQR7,C9J5L2,C9J2H9,B4DUB4"	"UPI0000070E55"	"NM_001271818.1,NM_001126340.2,NM_001271819.1,NM_032831.3"	""	""	""	"3/3"	""	"G:0.0002"	"G:0"	"G:0"	NA	"G:0"	"G:0"	"G:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"78244e52-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"7460"	"PSMC2"	5701	"mskcc.org"	"GRCh37"	"7"	103001478	103001478	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.291-926T>A"	""	""	"ENST00000435765"	""	94	"87"	7	56	"56"	0	"PSMC2,intron_variant,,ENST00000435765,NM_002803.3;SLC26A5,intron_variant,,ENST00000339444,NM_206883.2;SLC26A5,intron_variant,,ENST00000393735,NM_206884.2;PSMC2,intron_variant,,ENST00000292644,;PSMC2,intron_variant,,ENST00000544811,;SLC26A5,intron_variant,,ENST00000356767,NM_206885.2;PSMC2,intron_variant,,ENST00000457587,;PSMC2,intron_variant,,ENST00000425206,;PSMC2,intron_variant,,ENST00000460021,;"	"A"	"ENSG00000161057"	"ENST00000435765"	"Transcript"	"intron_variant"	"-/3054"	"-/1302"	"-/433"	""	""	""	"1"	NA	1	"PSMC2"	"HGNC"	9548	"protein_coding"	"YES"	"CCDS5731.1"	"ENSP00000391211"	"P35998"	"Q75L23,C9JLS9,B7Z5E2"	"UPI000013237A"	"NM_002803.3"	""	""	""	"5/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"78255748-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"7461"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	106594633	106594633	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"90"	7	33	"33"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"7826ffd0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0721649484536082	"WGS"	FALSE
"7462"	"AC004014.3"	0	"mskcc.org"	"GRCh37"	"7"	108561457	108561457	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.75+11873T>A"	""	""	"ENST00000413406"	""	118	"68"	50	48	"47"	1	"AC004014.3,intron_variant,,ENST00000413406,;"	"A"	"ENSG00000229603"	"ENST00000413406"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/538"	""	""	""	""	""	"1"	NA	1	"AC004014.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"7827954e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.423728813559322	"WGS"	FALSE
"7463"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	108760368	108760368	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"72"	8	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7827a02a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"7464"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	109477006	109477006	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"70"	35	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7827d1b2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"7465"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	110025749	110025749	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"65"	31	72	"72"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7827ff98-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322916666666667	"WGS"	FALSE
"7466"	"IMMP2L"	83943	"mskcc.org"	"GRCh37"	"7"	110992145	110992145	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.239+135149G>T"	""	""	"ENST00000405709"	""	130	"97"	33	59	"59"	0	"IMMP2L,intron_variant,,ENST00000405709,NM_032549.3;IMMP2L,intron_variant,,ENST00000331762,NM_001244606.1;IMMP2L,intron_variant,,ENST00000447215,;IMMP2L,intron_variant,,ENST00000452895,;IMMP2L,intron_variant,,ENST00000450877,;IMMP2L,intron_variant,,ENST00000415362,;IMMP2L,intron_variant,,ENST00000437687,;IMMP2L,intron_variant,,ENST00000489381,;"	"A"	"ENSG00000184903"	"ENST00000405709"	"Transcript"	"intron_variant"	"-/1519"	"-/528"	"-/175"	""	""	""	"1"	NA	-1	"IMMP2L"	"HGNC"	14598	"protein_coding"	"YES"	"CCDS5753.1"	"ENSP00000384966"	"Q96T52"	"C9JVB0,A4D0S9"	"UPI000006D162"	"NM_032549.3"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"782851dc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253846153846154	"WGS"	FALSE
"7467"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	111261762	111261762	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"71"	33	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"78286028-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317307692307692	"WGS"	FALSE
"7468"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	112848163	112848163	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"64"	29	56	"55"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"7828f600-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311827956989247	"WGS"	FALSE
"7469"	"RP11-222O23.1"	0	"mskcc.org"	"GRCh37"	"7"	115148162	115148162	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000462471"	""	136	"105"	31	55	"55"	0	"RP11-222O23.1,downstream_gene_variant,,ENST00000462471,;"	"A"	"ENSG00000244565"	"ENST00000462471"	"Transcript"	"downstream_gene_variant"	"-/408"	""	""	""	""	""	"1"	"4027"	1	"RP11-222O23.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7829ac9e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227941176470588	"WGS"	FALSE
"7470"	"CAV1"	857	"mskcc.org"	"GRCh37"	"7"	116196427	116196427	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.196-2573C>T"	""	""	"ENST00000341049"	""	107	"75"	32	56	"56"	0	"CAV1,intron_variant,,ENST00000341049,NM_001753.4;CAV1,intron_variant,,ENST00000393467,NM_001172896.1;CAV1,intron_variant,,ENST00000405348,NM_001172897.1,NM_001172895.1;CAV1,intron_variant,,ENST00000393468,;CAV1,intron_variant,,ENST00000393470,;CAV1,intron_variant,,ENST00000456473,;AC006159.5,upstream_gene_variant,,ENST00000452009,;CAV1,intron_variant,,ENST00000451122,;"	"T"	"ENSG00000105974"	"ENST00000341049"	"Transcript"	"intron_variant"	"-/2704"	"-/537"	"-/178"	""	""	""	"1"	NA	1	"CAV1"	"HGNC"	1527	"protein_coding"	"YES"	"CCDS5767.1"	"ENSP00000339191"	"Q03135"	"Q2TNI1,C9JKI3"	"UPI00001270ED"	"NM_001753.4"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"7829e43e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.299065420560748	"WGS"	FALSE
"7471"	"ST7"	93655	"mskcc.org"	"GRCh37"	"7"	116692616	116692616	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.152-47200C>T"	""	""	"ENST00000265437"	""	78	"69"	9	47	"47"	0	"ST7,intron_variant,,ENST00000265437,NM_021908.2;ST7,intron_variant,,ENST00000393443,;ST7,intron_variant,,ENST00000393447,;ST7,intron_variant,,ENST00000465133,;ST7,intron_variant,,ENST00000323984,;ST7,intron_variant,,ENST00000393449,;ST7,intron_variant,,ENST00000393446,;ST7,intron_variant,,ENST00000393444,;ST7,intron_variant,,ENST00000393451,NM_018412.3;ST7,intron_variant,,ENST00000432298,;ST7,intron_variant,,ENST00000422922,;ST7,intron_variant,,ENST00000446490,;ST7,intron_variant,,ENST00000477742,;ST7,intron_variant,,ENST00000434836,;ST7,intron_variant,,ENST00000417919,;ST7,intron_variant,,ENST00000449366,;ST7,intron_variant,,ENST00000421345,;ST7,intron_variant,,ENST00000487459,;ST7-OT4,intron_variant,,ENST00000471110,;ST7,intron_variant,,ENST00000467538,;ST7,intron_variant,,ENST00000462544,;ST7,intron_variant,,ENST00000438863,;ST7,intron_variant,,ENST00000443979,;"	"T"	"ENSG00000004866"	"ENST00000265437"	"Transcript"	"intron_variant"	"-/2899"	"-/1758"	"-/585"	""	""	""	"1"	NA	1	"ST7"	"HGNC"	11351	"protein_coding"	"YES"	"CCDS5770.1"	"ENSP00000265437"	"Q9NRC1"	"Q9NRC0,C9JZV9,C9JX79,C9JRQ0,C9JCI7"	"UPI00000702A3"	"NM_021908.2"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"782a18d2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"7472"	"CFTR"	1080	"mskcc.org"	"GRCh37"	"7"	117133365	117133365	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.54-10942C>A"	""	""	"ENST00000003084"	""	107	"73"	34	48	"48"	0	"CFTR,intron_variant,,ENST00000003084,NM_000492.3;CFTR,intron_variant,,ENST00000454343,;CFTR,intron_variant,,ENST00000426809,;CFTR,intron_variant,,ENST00000446805,;CFTR,intron_variant,,ENST00000546407,;"	"A"	"ENSG00000001626"	"ENST00000003084"	"Transcript"	"intron_variant"	"-/6128"	"-/4443"	"-/1480"	""	""	""	"1"	NA	1	"CFTR"	"HGNC"	1884	"protein_coding"	"YES"	"CCDS5773.1"	"ENSP00000003084"	"P13569"	"Q9UML7,Q9UJ19,Q99989,Q6KEJ7,Q6KEJ4,Q6KEJ1,Q6KEI8,Q6KEI7,Q6KEI2,Q6KEH8,Q6KEH6,Q6KEH3,Q6KEG9,Q6KEG6,Q6KEG3,Q6KEF9,Q6KEF5,Q6KEE7,Q6KEE3,Q6KED8,Q6KED3,Q6KEC8,Q6KEC3,Q6KEB8,Q6KEB2,Q6KEA5,Q6KEA0,Q6KE95,Q5I6N7,Q5I6N6,Q5I6N5,Q5I6N4,Q5I6F9,C9J6L5,A4L9V0"	"UPI000013C4D4"	"NM_000492.3"	""	""	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"782a2cb4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317757009345794	"WGS"	FALSE
"7473"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	118356790	118356790	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs539838176"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"63"	30	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs539838176"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0006"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.0031"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"782a7c8c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32258064516129	"WGS"	FALSE
"7474"	"RP11-328J2.1"	0	"mskcc.org"	"GRCh37"	"7"	119460109	119460109	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs374804454"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.84-19181C>T"	""	""	"ENST00000426413"	""	67	"49"	18	48	"48"	0	"RP11-328J2.1,intron_variant,,ENST00000426413,;RP11-328J2.1,intron_variant,,ENST00000431071,;"	"A"	"ENSG00000225546"	"ENST00000426413"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1577"	""	""	""	""	"rs374804454"	"1"	NA	-1	"RP11-328J2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"782ac55c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26865671641791	"WGS"	FALSE
"7475"	"ENSR00001563432"	0	"mskcc.org"	"GRCh37"	"7"	121384444	121384444	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001563432"	""	93	"59"	34	54	"54"	0	""	"G"	""	"ENSR00001563432"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"782b4450-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.365591397849462	"WGS"	FALSE
"7476"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	122609896	122609896	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"68"	30	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"782ba6de-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306122448979592	"WGS"	FALSE
"7477"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	125116704	125116704	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"71"	27	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"782c611e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275510204081633	"WGS"	FALSE
"7478"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	125510012	125510012	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs771385444"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"69"	27	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs771385444"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"782c771c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28125	"WGS"	FALSE
"7479"	"TSPAN33"	340348	"mskcc.org"	"GRCh37"	"7"	128799026	128799026	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103-2494C>T"	""	""	"ENST00000289407"	""	86	"79"	7	40	"40"	0	"TSPAN33,intron_variant,,ENST00000289407,NM_178562.3;TSPAN33,upstream_gene_variant,,ENST00000496963,;"	"T"	"ENSG00000158457"	"ENST00000289407"	"Transcript"	"intron_variant"	"-/1883"	"-/852"	"-/283"	""	""	""	"1"	NA	1	"TSPAN33"	"HGNC"	28743	"protein_coding"	"YES"	"CCDS5810.1"	"ENSP00000289407"	"Q86UF1"	""	"UPI000000DA83"	"NM_178562.3"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"782decbe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0813953488372093	"WGS"	FALSE
"7480"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	131487000	131487000	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"74"	24	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"782f1918-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244897959183673	"WGS"	FALSE
"7481"	"EXOC4"	60412	"mskcc.org"	"GRCh37"	"7"	133706655	133706655	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2687+14067A>T"	""	""	"ENST00000253861"	""	98	"93"	5	53	"53"	0	"EXOC4,intron_variant,,ENST00000253861,NM_021807.3;EXOC4,intron_variant,,ENST00000545148,;EXOC4,intron_variant,,ENST00000539845,;EXOC4,intron_variant,,ENST00000541309,;EXOC4,intron_variant,,ENST00000459626,;EXOC4,intron_variant,,ENST00000466000,;"	"T"	"ENSG00000131558"	"ENST00000253861"	"Transcript"	"intron_variant"	"-/4185"	"-/2925"	"-/974"	""	""	""	"1"	NA	1	"EXOC4"	"HGNC"	30389	"protein_coding"	"YES"	"CCDS5829.1"	"ENSP00000253861"	"Q96A65"	"B7Z4J9,B7Z321"	"UPI0000135758"	"NM_021807.3"	""	""	""	"17/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"78301160-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0510204081632653	"WGS"	FALSE
"7482"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	133788528	133788528	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"6"	3	8	"8"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"78301a70-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"7483"	"RP11-38M8.1"	0	"mskcc.org"	"GRCh37"	"7"	134120996	134120996	"+"	"5'Flank"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000609209"	""	95	"69"	26	66	"66"	0	"RP11-38M8.1,upstream_gene_variant,,ENST00000609209,;RP11-38M8.1,upstream_gene_variant,,ENST00000609619,;RP11-38M8.1,upstream_gene_variant,,ENST00000607945,;"	"G"	"ENSG00000273297"	"ENST00000609209"	"Transcript"	"upstream_gene_variant"	"-/889"	""	""	""	""	""	"1"	"3828"	-1	"RP11-38M8.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"78303230-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"7484"	"CALD1"	800	"mskcc.org"	"GRCh37"	"7"	134439496	134439496	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-130+10382T>A"	""	""	"ENST00000417172"	""	118	"111"	7	51	"51"	0	"CALD1,intron_variant,,ENST00000417172,;CALD1,intron_variant,,ENST00000436461,;"	"A"	"ENSG00000122786"	"ENST00000417172"	"Transcript"	"intron_variant"	"-/1915"	"-/1617"	"-/538"	""	""	""	"1"	NA	1	"CALD1"	"HGNC"	1441	"protein_coding"	""	"CCDS5834.1"	"ENSP00000398826"	"Q05682"	"Q7Z2Y9,C9JE79,C9J813,B4E3I0"	"UPI000000D988"	""	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"78304946-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0593220338983051	"WGS"	FALSE
"7485"	"hsa-mir-490"	574443	"mskcc.org"	"GRCh37"	"7"	136755303	136755303	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.165-37643T>C"	""	""	"ENST00000439694"	""	101	"73"	28	49	"49"	0	"hsa-mir-490,intron_variant,,ENST00000439694,;hsa-mir-490,intron_variant,,ENST00000425981,;hsa-mir-490,intron_variant,,ENST00000586239,;hsa-mir-490,intron_variant,,ENST00000597642,;hsa-mir-490,intron_variant,,ENST00000598184,;hsa-mir-490,intron_variant,,ENST00000593789,;hsa-mir-490,intron_variant,,ENST00000592183,;"	"G"	"ENSG00000234352"	"ENST00000439694"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2160"	""	""	""	""	""	"1"	NA	-1	"hsa-mir-490"	"miRBase"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"78315052-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277227722772277	"WGS"	FALSE
"7486"	"DGKI"	9162	"mskcc.org"	"GRCh37"	"7"	137377938	137377938	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.402-3190C>G"	""	""	"ENST00000288490"	""	90	"59"	31	60	"60"	0	"DGKI,intron_variant,,ENST00000453654,;DGKI,intron_variant,,ENST00000424189,;DGKI,intron_variant,,ENST00000446122,;DGKI,intron_variant,,ENST00000288490,NM_004717.2;DGKI,intron_variant,,ENST00000470895,;DGKI,intron_variant,,ENST00000483619,;"	"C"	"ENSG00000157680"	"ENST00000288490"	"Transcript"	"intron_variant"	"-/3895"	"-/3198"	"-/1065"	""	""	""	"1"	NA	-1	"DGKI"	"HGNC"	2855	"protein_coding"	"YES"	"CCDS5845.1"	"ENSP00000288490"	"O75912"	"B3KR69"	"UPI000012DD23"	"NM_004717.2"	""	""	""	"1/33"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7831999a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344444444444444	"WGS"	FALSE
"7487"	"AKR1D1"	6718	"mskcc.org"	"GRCh37"	"7"	137776423	137776423	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.262-91A>G"	""	""	"ENST00000242375"	""	93	"86"	7	50	"50"	0	"AKR1D1,intron_variant,,ENST00000242375,NM_005989.3;AKR1D1,intron_variant,,ENST00000411726,NM_001190906.1;AKR1D1,intron_variant,,ENST00000432161,NM_001190907.1;AKR1D1,intron_variant,,ENST00000438242,;RN7SKP223,downstream_gene_variant,,ENST00000410582,;AKR1D1,intron_variant,,ENST00000468877,;AKR1D1,upstream_gene_variant,,ENST00000470851,;"	"G"	"ENSG00000122787"	"ENST00000242375"	"Transcript"	"intron_variant"	"-/2347"	"-/981"	"-/326"	""	""	""	"1"	NA	1	"AKR1D1"	"HGNC"	388	"protein_coding"	"YES"	"CCDS5846.1"	"ENSP00000242375"	"P51857"	"C4PL35"	"UPI0000125764"	"NM_005989.3"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"7831b83a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"7488"	"SLC37A3"	84255	"mskcc.org"	"GRCh37"	"7"	140038619	140038619	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1327-1470T>C"	""	""	"ENST00000326232"	""	105	"98"	7	44	"44"	0	"SLC37A3,intron_variant,,ENST00000326232,NM_207113.1;SLC37A3,intron_variant,,ENST00000447932,NM_001287498.1;SLC37A3,intron_variant,,ENST00000340308,NM_032295.2;SLC37A3,intron_variant,,ENST00000469636,;SLC37A3,intron_variant,,ENST00000498469,;SLC37A3,intron_variant,,ENST00000491357,;SLC37A3,intron_variant,,ENST00000485734,;SLC37A3,intron_variant,,ENST00000485538,;SLC37A3,intron_variant,,ENST00000492027,;SLC37A3,intron_variant,,ENST00000477006,;SLC37A3,intron_variant,,ENST00000477571,;SLC37A3,intron_variant,,ENST00000473060,;SLC37A3,intron_variant,,ENST00000460560,;SLC37A3,upstream_gene_variant,,ENST00000485139,;"	"G"	"ENSG00000157800"	"ENST00000326232"	"Transcript"	"intron_variant"	"-/3349"	"-/1485"	"-/494"	""	""	""	"1"	NA	-1	"SLC37A3"	"HGNC"	20651	"protein_coding"	"YES"	"CCDS5859.1"	"ENSP00000321498"	"Q8NCC5"	"F8WF28"	"UPI0000141890"	"NM_207113.1"	""	""	""	"13/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"783329cc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"7489"	"MGAM"	8972	"mskcc.org"	"GRCh37"	"7"	141682486	141682486	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-2-22843T>C"	""	""	"ENST00000465654"	""	112	"105"	7	50	"50"	0	"MGAM,intron_variant,,ENST00000465654,;"	"C"	"ENSG00000257335"	"ENST00000465654"	"Transcript"	"intron_variant"	"-/790"	"-/555"	"-/185"	""	""	""	"1"	NA	1	"MGAM"	"HGNC"	7043	"protein_coding"	""	""	"ENSP00000419372"	""	"Q8TE25,E9PEQ5,E7EW87"	"UPI0001B7928A"	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"7833cb02-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"7490"	"TRBV7-3"	0	"mskcc.org"	"GRCh37"	"7"	142245019	142245019	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390361"	""	95	"70"	25	59	"59"	0	"TRBV7-3,downstream_gene_variant,,ENST00000390361,;TRBV9,upstream_gene_variant,,ENST00000390363,;TRBV5-3,upstream_gene_variant,,ENST00000390362,;TRBV8-2,downstream_gene_variant,,ENST00000475637,;"	"T"	"ENSG00000211714"	"ENST00000390361"	"Transcript"	"downstream_gene_variant"	"-/397"	"-/347"	"-/115"	""	""	""	"1"	"2090"	-1	"TRBV7-3"	"HGNC"	12237	"TR_V_gene"	"YES"	""	"ENSP00000374884"	""	""	"UPI0001AE7167"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"7833f0dc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"7491"	"EPHB6"	2051	"mskcc.org"	"GRCh37"	"7"	142559693	142559693	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-296-82G>T"	""	""	"ENST00000392957"	""	124	"117"	7	60	"60"	0	"EPHB6,intron_variant,,ENST00000392957,NM_004445.4,NM_001280794.1;EPHB6,intron_variant,,ENST00000442129,;EPHB6,upstream_gene_variant,,ENST00000411471,NM_001280795.1;EPHB6,intron_variant,,ENST00000497095,;EPHB6,intron_variant,,ENST00000466783,;EPHB6,intron_variant,,ENST00000425995,;EPHB6,upstream_gene_variant,,ENST00000422643,;"	"T"	"ENSG00000106123"	"ENST00000392957"	"Transcript"	"intron_variant"	"-/4043"	"-/3066"	"-/1021"	""	""	""	"1"	NA	1	"EPHB6"	"HGNC"	3396	"protein_coding"	"YES"	"CCDS5873.2"	"ENSP00000376684"	"O15197"	""	"UPI00006635A8"	"NM_004445.4,NM_001280794.1"	""	""	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"78340b1c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0564516129032258	"WGS"	FALSE
"7492"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	145748919	145748919	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"74"	25	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"783524b6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252525252525253	"WGS"	FALSE
"7493"	"CNTNAP2"	26047	"mskcc.org"	"GRCh37"	"7"	146105774	146105774	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.97+291709T>C"	""	""	"ENST00000361727"	""	67	"40"	27	43	"43"	0	"CNTNAP2,intron_variant,,ENST00000361727,NM_014141.5;"	"C"	"ENSG00000174469"	"ENST00000361727"	"Transcript"	"intron_variant"	"-/9894"	"-/3996"	"-/1331"	""	""	""	"1"	NA	1	"CNTNAP2"	"HGNC"	13830	"protein_coding"	"YES"	"CCDS5889.1"	"ENSP00000354778"	"Q9UHC6"	"Q9UDV4,Q96T77,Q86UL9,Q86UL6,Q86UL4,Q86UJ1,Q86UI8,Q75MQ9,Q75MF8,Q75MF6,Q75MD4,Q75MA1,Q75M92,Q75LG9,O75852,B7Z1Y6"	"UPI00001285FA"	"NM_014141.5"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTT"	"78354b6c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.402985074626866	"WGS"	FALSE
"7494"	"CNTNAP2"	26047	"mskcc.org"	"GRCh37"	"7"	146520460	146520460	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.209-16343T>A"	""	""	"ENST00000361727"	""	92	"87"	5	44	"44"	0	"CNTNAP2,intron_variant,,ENST00000361727,NM_014141.5;"	"A"	"ENSG00000174469"	"ENST00000361727"	"Transcript"	"intron_variant"	"-/9894"	"-/3996"	"-/1331"	""	""	""	"1"	NA	1	"CNTNAP2"	"HGNC"	13830	"protein_coding"	"YES"	"CCDS5889.1"	"ENSP00000354778"	"Q9UHC6"	"Q9UDV4,Q96T77,Q86UL9,Q86UL6,Q86UL4,Q86UJ1,Q86UI8,Q75MQ9,Q75MF8,Q75MF6,Q75MD4,Q75MA1,Q75M92,Q75LG9,O75852,B7Z1Y6"	"UPI00001285FA"	"NM_014141.5"	""	""	""	"2/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"78357556-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0543478260869565	"WGS"	FALSE
"7495"	"CNTNAP2"	26047	"mskcc.org"	"GRCh37"	"7"	146920590	146920590	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1349-76643C>T"	""	""	"ENST00000361727"	""	100	"71"	29	58	"58"	0	"CNTNAP2,intron_variant,,ENST00000361727,NM_014141.5;"	"T"	"ENSG00000174469"	"ENST00000361727"	"Transcript"	"intron_variant"	"-/9894"	"-/3996"	"-/1331"	""	""	""	"1"	NA	1	"CNTNAP2"	"HGNC"	13830	"protein_coding"	"YES"	"CCDS5889.1"	"ENSP00000354778"	"Q9UHC6"	"Q9UDV4,Q96T77,Q86UL9,Q86UL6,Q86UL4,Q86UJ1,Q86UI8,Q75MQ9,Q75MF8,Q75MF6,Q75MD4,Q75MA1,Q75M92,Q75LG9,O75852,B7Z1Y6"	"UPI00001285FA"	"NM_014141.5"	""	""	""	"8/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"7835a04e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29	"WGS"	FALSE
"7496"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	149073203	149073203	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"69"	26	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"78368bee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"7497"	"ZNF767"	79970	"mskcc.org"	"GRCh37"	"7"	149272088	149272088	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.601-16158C>G"	""	""	"ENST00000463567"	""	98	"75"	23	37	"37"	0	"ZNF767,intron_variant,,ENST00000463567,;ZNF767,intron_variant,,ENST00000472212,;ZNF767,intron_variant,,ENST00000486492,;ZNF767,intron_variant,,ENST00000481762,;"	"C"	"ENSG00000133624"	"ENST00000463567"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3520"	""	""	""	""	""	"1"	NA	-1	"ZNF767"	"HGNC"	21884	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"78369b20-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23469387755102	"WGS"	FALSE
"7498"	"ENSR00001803413"	0	"mskcc.org"	"GRCh37"	"7"	150201517	150201517	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"rs74862960"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001803413"	""	100	"71"	29	32	"32"	0	""	"T"	""	"ENSR00001803413"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs74862960"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"78379b42-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29	"WGS"	FALSE
"7499"	"DPP6"	1804	"mskcc.org"	"GRCh37"	"7"	154457443	154457443	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.681-3627C>A"	""	""	"ENST00000377770"	""	86	"62"	24	62	"62"	0	"DPP6,intron_variant,,ENST00000404039,NM_130797.2,NM_001936.3,NM_001039350.1;DPP6,intron_variant,,ENST00000332007,;DPP6,intron_variant,,ENST00000377770,;DPP6,intron_variant,,ENST00000427557,;"	"A"	"ENSG00000130226"	"ENST00000377770"	"Transcript"	"intron_variant"	"-/3710"	"-/2598"	"-/865"	""	""	""	"1"	NA	1	"DPP6"	"HGNC"	3010	"protein_coding"	"YES"	""	"ENSP00000367001"	"P42658"	"Q75MI8,Q75MI7,Q75MF0"	"UPI00001AE746"	""	""	""	""	"6/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"783b5dc2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27906976744186	"WGS"	FALSE
"7500"	"NOM1"	64434	"mskcc.org"	"GRCh37"	"7"	156756176	156756176	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1911+307C>T"	""	""	"ENST00000275820"	""	82	"74"	8	59	"59"	0	"NOM1,intron_variant,,ENST00000275820,NM_138400.1;NOM1,downstream_gene_variant,,ENST00000460332,;NOM1,non_coding_transcript_exon_variant,,ENST00000469271,;NOM1,intron_variant,,ENST00000472491,;NOM1,downstream_gene_variant,,ENST00000475176,;NOM1,downstream_gene_variant,,ENST00000489850,;NOM1,upstream_gene_variant,,ENST00000485661,;"	"T"	"ENSG00000146909"	"ENST00000275820"	"Transcript"	"intron_variant"	"-/6077"	"-/2583"	"-/860"	""	""	""	"1"	NA	1	"NOM1"	"HGNC"	13244	"protein_coding"	"YES"	"CCDS34787.1"	"ENSP00000275820"	"Q5C9Z4"	""	"UPI000020E71F"	"NM_138400.1"	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"783d71ca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WGS"	FALSE
"7501"	"RN7SL142P"	0	"mskcc.org"	"GRCh37"	"7"	157102953	157102953	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000585137"	""	79	"51"	28	63	"63"	0	"RN7SL142P,downstream_gene_variant,,ENST00000585137,;"	"A"	"ENSG00000266453"	"ENST00000585137"	"Transcript"	"downstream_gene_variant"	"-/279"	""	""	""	""	""	"1"	"4188"	1	"RN7SL142P"	"HGNC"	46158	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"783d9e70-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354430379746835	"WGS"	FALSE
"7502"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	157786539	157786539	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1723+87451A>T"	""	""	"ENST00000389418"	""	89	"65"	24	42	"42"	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"A"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	""	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	""	""	""	"11/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"783fcd4e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269662921348315	"WGS"	FALSE
"7503"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	158124019	158124019	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.164-14395G>A"	""	""	"ENST00000389418"	""	59	"53"	6	27	"27"	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"T"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	""	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"78415a10-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101694915254237	"WGS"	FALSE
"7504"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	158126773	158126773	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.164-17149G>C"	""	""	"ENST00000389418"	""	40	"35"	5	17	"17"	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"G"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	""	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"78416abe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"7505"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	158249062	158249062	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.163+33365G>A"	""	""	"ENST00000389418"	""	62	"56"	6	31	"31"	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"T"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	""	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7842bd60-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"7506"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	158249092	158249092	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.163+33335G>A"	""	""	"ENST00000389418"	""	68	"62"	6	44	"44"	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"T"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	""	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7842bf7c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"7507"	"WDR60"	55112	"mskcc.org"	"GRCh37"	"7"	158670972	158670972	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.574-1403C>A"	""	""	"ENST00000407559"	""	60	"56"	4	25	"25"	0	"WDR60,intron_variant,,ENST00000407559,NM_018051.4;WDR60,upstream_gene_variant,,ENST00000444851,;"	"A"	"ENSG00000126870"	"ENST00000407559"	"Transcript"	"intron_variant"	"-/3769"	"-/3201"	"-/1066"	""	""	""	"1"	NA	1	"WDR60"	"HGNC"	21862	"protein_coding"	"YES"	"CCDS47757.1"	"ENSP00000384290"	"Q8WVS4"	"H7C1E8,A4D230"	"UPI000020E761"	"NM_018051.4"	""	""	""	"4/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"78437944-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"7508"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	158972689	158972689	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"83"	26	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"7844583c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238532110091743	"WGS"	FALSE
"7509"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	240871	240871	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"rs550054157"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"66"	4	40	"40"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs550054157"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0136"	"T:0.0499"	"T:0.0014"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"784561be-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0571428571428571	"WGS"	FALSE
"7510"	"ERICH1-AS1"	619343	"mskcc.org"	"GRCh37"	"8"	1028152	1028152	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.333-59147G>A"	""	""	"ENST00000522092"	""	107	"73"	34	63	"62"	1	"ERICH1-AS1,intron_variant,,ENST00000522092,;ERICH1-AS1,intron_variant,,ENST00000578889,;"	"A"	"ENSG00000237647"	"ENST00000522092"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/811"	""	""	""	""	""	"1"	NA	1	"ERICH1-AS1"	"HGNC"	32290	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"78474182-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317757009345794	"WGS"	FALSE
"7511"	"ARHGEF10"	9639	"mskcc.org"	"GRCh37"	"8"	1788526	1788526	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-47-2993A>G"	""	""	"ENST00000349830"	""	44	"38"	6	17	"17"	0	"ARHGEF10,intron_variant,,ENST00000518288,;ARHGEF10,intron_variant,,ENST00000349830,NM_014629.2;ARHGEF10,intron_variant,,ENST00000398564,;ARHGEF10,intron_variant,,ENST00000520359,;ARHGEF10,intron_variant,,ENST00000262112,;ARHGEF10,intron_variant,,ENST00000398560,;"	"G"	"ENSG00000104728"	"ENST00000349830"	"Transcript"	"intron_variant"	"-/5590"	"-/4035"	"-/1344"	""	""	""	"1"	NA	1	"ARHGEF10"	"HGNC"	14103	"protein_coding"	"YES"	"CCDS34794.1"	"ENSP00000340297"	"O15013"	""	"UPI00005054FE"	"NM_014629.2"	""	""	""	"1/28"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"7849ec52-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"7512"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	3206416	3206416	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3305-733G>C"	""	""	"ENST00000537824"	""	99	"71"	28	60	"60"	0	"CSMD1,intron_variant,,ENST00000335551,;CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;CSMD1,intron_variant,,ENST00000523488,;"	"G"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	""	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	""	""	""	"21/69"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"784bbafa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282828282828283	"WGS"	FALSE
"7513"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	3307768	3307768	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1561+18466C>T"	""	""	"ENST00000537824"	""	92	"67"	25	52	"52"	0	"CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;"	"A"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	""	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	""	""	""	"12/69"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"784bcd42-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"7514"	"TNKS"	8658	"mskcc.org"	"GRCh37"	"8"	9628813	9628813	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3897+1041G>A"	""	""	"ENST00000310430"	""	40	"34"	6	19	"19"	0	"TNKS,intron_variant,,ENST00000310430,NM_003747.2;TNKS,intron_variant,,ENST00000518281,;TNKS,intron_variant,,ENST00000517770,;"	"A"	"ENSG00000173273"	"ENST00000310430"	"Transcript"	"intron_variant"	"-/9620"	"-/3984"	"-/1327"	""	""	""	"1"	NA	1	"TNKS"	"HGNC"	11941	"protein_coding"	"YES"	"CCDS5974.1"	"ENSP00000311579"	"O95271"	"Q59FX0,E7EQ52"	"UPI000013F00D"	"NM_003747.2"	""	""	""	"26/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"78518b60-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WGS"	FALSE
"7515"	"XKR6"	286046	"mskcc.org"	"GRCh37"	"8"	10997105	10997105	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.764+60980G>C"	""	""	"ENST00000416569"	""	97	"69"	28	46	"46"	0	"XKR6,intron_variant,,ENST00000416569,NM_173683.3;AF131215.4,upstream_gene_variant,,ENST00000531549,;XKR6,intron_variant,,ENST00000529336,;"	"G"	"ENSG00000171044"	"ENST00000416569"	"Transcript"	"intron_variant"	"-/3382"	"-/1926"	"-/641"	""	""	""	"1"	NA	-1	"XKR6"	"HGNC"	27806	"protein_coding"	"YES"	"CCDS5978.2"	"ENSP00000416707"	"Q5GH73"	""	"UPI00004C7A9D"	"NM_173683.3"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"78522afc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288659793814433	"WGS"	FALSE
"7516"	"XKR6"	286046	"mskcc.org"	"GRCh37"	"8"	11006914	11006914	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs572792842"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.764+51171C>T"	""	""	"ENST00000416569"	""	123	"115"	8	58	"58"	0	"XKR6,intron_variant,,ENST00000416569,NM_173683.3;XKR6,intron_variant,,ENST00000529336,;"	"A"	"ENSG00000171044"	"ENST00000416569"	"Transcript"	"intron_variant"	"-/3382"	"-/1926"	"-/641"	""	""	"rs572792842"	"1"	NA	-1	"XKR6"	"HGNC"	27806	"protein_coding"	"YES"	"CCDS5978.2"	"ENSP00000416707"	"Q5GH73"	""	"UPI00004C7A9D"	"NM_173683.3"	""	""	""	"1/2"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"78522d18-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0650406504065041	"WGS"	FALSE
"7517"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	12909530	12909530	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"70"	24	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"78549c06-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25531914893617	"WGS"	FALSE
"7518"	"DLC1"	10395	"mskcc.org"	"GRCh37"	"8"	13082242	13082242	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1348+80536G>T"	""	""	"ENST00000276297"	""	102	"65"	37	58	"58"	0	"DLC1,intron_variant,,ENST00000276297,NM_182643.2;DLC1,intron_variant,,ENST00000512044,;DLC1,intron_variant,,ENST00000316609,;DLC1,intron_variant,,ENST00000503161,;DLC1,intron_variant,,ENST00000506171,;DLC1,intron_variant,,ENST00000509922,;"	"A"	"ENSG00000164741"	"ENST00000276297"	"Transcript"	"intron_variant"	"-/7447"	"-/4587"	"-/1528"	""	""	""	"1"	NA	-1	"DLC1"	"HGNC"	2897	"protein_coding"	"YES"	"CCDS5989.1"	"ENSP00000276297"	"Q96QB1"	""	"UPI0000210275"	"NM_182643.2"	""	""	""	"5/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7854b42a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.362745098039216	"WGS"	FALSE
"7519"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	13630323	13630323	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"71"	31	59	"58"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7854eaf8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303921568627451	"WGS"	FALSE
"7520"	"SGCZ"	137868	"mskcc.org"	"GRCh37"	"8"	14744497	14744497	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs116340465"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.40-332062G>A"	""	""	"ENST00000382080"	""	108	"76"	32	53	"53"	0	"SGCZ,intron_variant,,ENST00000382080,NM_139167.2;"	"T"	"ENSG00000185053"	"ENST00000382080"	"Transcript"	"intron_variant"	"-/2234"	"-/939"	"-/312"	""	""	"rs116340465"	"1"	NA	-1	"SGCZ"	"HGNC"	14075	"protein_coding"	"YES"	"CCDS5992.2"	"ENSP00000371512"	"Q96LD1"	""	"UPI00002339F6"	"NM_139167.2"	""	""	""	"1/7"	""	"A:0.0130"	"A:0.031"	"A:0.0029"	NA	"A:0"	"A:0.005"	"A:0.0174"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"78554282-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"7521"	"PSD3"	23362	"mskcc.org"	"GRCh37"	"8"	18686158	18686158	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"rs186472937"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1635-23750T>C"	""	""	"ENST00000327040"	""	97	"63"	34	52	"52"	0	"PSD3,intron_variant,,ENST00000440756,;PSD3,intron_variant,,ENST00000327040,NM_015310.3;PSD3,intron_variant,,ENST00000523619,;PSD3,intron_variant,,ENST00000519851,;PSD3,intron_variant,,ENST00000518303,;"	"G"	"ENSG00000156011"	"ENST00000327040"	"Transcript"	"intron_variant"	"-/11689"	"-/3144"	"-/1047"	""	""	"rs186472937"	"1"	NA	-1	"PSD3"	"HGNC"	19093	"protein_coding"	"YES"	"CCDS43720.1"	"ENSP00000324127"	"Q9NYI0"	"E5RJE4,E5RJ29"	"UPI0000210A46"	"NM_015310.3"	""	""	""	"4/15"	""	"G:0.0002"	"G:0"	"G:0"	NA	"G:0.001"	"G:0"	"G:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"78568962-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.350515463917526	"WGS"	FALSE
"7522"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	21311009	21311009	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"74"	29	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7857b166-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.281553398058252	"WGS"	FALSE
"7523"	"XPO7"	23039	"mskcc.org"	"GRCh37"	"8"	21861715	21861715	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3170+174T>C"	""	""	"ENST00000252512"	""	95	"61"	34	52	"52"	0	"XPO7,intron_variant,,ENST00000434536,;XPO7,intron_variant,,ENST00000252512,NM_015024.4;XPO7,intron_variant,,ENST00000433566,;XPO7,downstream_gene_variant,,ENST00000517551,;XPO7,downstream_gene_variant,,ENST00000522015,;"	"C"	"ENSG00000130227"	"ENST00000252512"	"Transcript"	"intron_variant"	"-/4861"	"-/3264"	"-/1087"	""	""	""	"1"	NA	1	"XPO7"	"HGNC"	14108	"protein_coding"	"YES"	"CCDS47818.1"	"ENSP00000252512"	"Q9UIA9"	"E5RIW1,B4DSP8"	"UPI0000134559"	"NM_015024.4"	""	""	""	"27/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"7857ef14-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357894736842105	"WGS"	FALSE
"7524"	"PIWIL2"	55124	"mskcc.org"	"GRCh37"	"8"	22149906	22149906	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1181+2047C>A"	""	""	"ENST00000356766"	""	99	"64"	35	51	"51"	0	"PIWIL2,intron_variant,,ENST00000356766,NM_018068.3;PIWIL2,intron_variant,,ENST00000521356,;PIWIL2,intron_variant,,ENST00000454009,NM_001135721.1;"	"A"	"ENSG00000197181"	"ENST00000356766"	"Transcript"	"intron_variant"	"-/5128"	"-/2922"	"-/973"	""	""	""	"1"	NA	1	"PIWIL2"	"HGNC"	17644	"protein_coding"	"YES"	"CCDS6029.1"	"ENSP00000349208"	"Q8TC59"	""	"UPI000006E98E"	"NM_018068.3"	""	""	""	"10/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"78581b56-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.353535353535354	"WGS"	FALSE
"7525"	"CTC-756D1.2"	0	"mskcc.org"	"GRCh37"	"8"	23342841	23342841	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000521021"	""	87	"79"	8	52	"52"	0	"CTC-756D1.2,downstream_gene_variant,,ENST00000521021,;CTC-756D1.1,upstream_gene_variant,,ENST00000523257,;"	"G"	"ENSG00000253390"	"ENST00000521021"	"Transcript"	"downstream_gene_variant"	"-/630"	""	""	""	""	""	"1"	"357"	1	"CTC-756D1.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"7858bdcc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"7526"	"PBK"	55872	"mskcc.org"	"GRCh37"	"8"	27698275	27698275	"+"	"5'Flank"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000301905"	""	115	"77"	38	43	"43"	0	"PBK,upstream_gene_variant,,ENST00000301905,NM_001278945.1,NM_018492.3;PBK,upstream_gene_variant,,ENST00000522944,;PBK,upstream_gene_variant,,ENST00000524266,;PBK,upstream_gene_variant,,ENST00000521226,;RP11-1149M3.2,downstream_gene_variant,,ENST00000519761,;"	"C"	"ENSG00000168078"	"ENST00000301905"	"Transcript"	"upstream_gene_variant"	"-/2118"	"-/969"	"-/322"	""	""	""	"1"	"2663"	-1	"PBK"	"HGNC"	18282	"protein_coding"	"YES"	"CCDS6063.1"	"ENSP00000301905"	"Q96KB5"	""	"UPI0000035B8B"	"NM_001278945.1,NM_018492.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"785a65e6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330434782608696	"WGS"	FALSE
"7527"	"KIF13B"	23303	"mskcc.org"	"GRCh37"	"8"	28991470	28991470	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2784+87G>T"	""	""	"ENST00000524189"	""	103	"74"	29	66	"66"	0	"KIF13B,intron_variant,,ENST00000524189,NM_015254.3;CTD-2647L4.1,intron_variant,,ENST00000523661,;"	"A"	"ENSG00000197892"	"ENST00000524189"	"Transcript"	"intron_variant"	"-/8745"	"-/5481"	"-/1826"	""	""	""	"1"	NA	-1	"KIF13B"	"HGNC"	14405	"protein_coding"	"YES"	"CCDS55217.1"	"ENSP00000427900"	"Q9NQT8"	""	"UPI000035B257"	"NM_015254.3"	""	""	""	"22/39"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"785b02da-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.281553398058252	"WGS"	FALSE
"7528"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	29395368	29395368	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"63"	34	52	"52"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"785b3a3e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.350515463917526	"WGS"	FALSE
"7529"	"RP11-317N12.1"	0	"mskcc.org"	"GRCh37"	"8"	33737140	33737140	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.504+83186G>T"	""	""	"ENST00000523063"	""	82	"60"	22	59	"59"	0	"RP11-317N12.1,intron_variant,,ENST00000523063,;"	"T"	"ENSG00000253642"	"ENST00000523063"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/766"	""	""	""	""	""	"1"	NA	1	"RP11-317N12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"785cf644-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268292682926829	"WGS"	FALSE
"7530"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	34386042	34386042	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	60	"56"	4	32	"32"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"785d234e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"7531"	"ENSR00001807744"	0	"mskcc.org"	"GRCh37"	"8"	34911491	34911491	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001807744"	""	95	"64"	31	53	"52"	1	""	"T"	""	"ENSR00001807744"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"785d5e2c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326315789473684	"WGS"	FALSE
"7532"	"UNC5D"	137970	"mskcc.org"	"GRCh37"	"8"	35240973	35240973	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103+147568C>A"	""	""	"ENST00000404895"	""	103	"75"	28	76	"76"	0	"UNC5D,intron_variant,,ENST00000287272,;UNC5D,intron_variant,,ENST00000416672,;UNC5D,intron_variant,,ENST00000404895,NM_080872.2;UNC5D,intron_variant,,ENST00000420357,;"	"A"	"ENSG00000156687"	"ENST00000404895"	"Transcript"	"intron_variant"	"-/3252"	"-/2862"	"-/953"	""	""	""	"1"	NA	1	"UNC5D"	"HGNC"	18634	"protein_coding"	"YES"	"CCDS6093.2"	"ENSP00000385143"	"Q6UXZ4"	""	"UPI00001D6915"	"NM_080872.2"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"785d78b2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271844660194175	"WGS"	FALSE
"7533"	"UNC5D"	137970	"mskcc.org"	"GRCh37"	"8"	35444098	35444098	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.467-8974C>T"	""	""	"ENST00000404895"	""	88	"58"	30	69	"69"	0	"UNC5D,intron_variant,,ENST00000287272,;UNC5D,intron_variant,,ENST00000453357,;UNC5D,intron_variant,,ENST00000416672,;UNC5D,intron_variant,,ENST00000404895,NM_080872.2;UNC5D,intron_variant,,ENST00000420357,;"	"T"	"ENSG00000156687"	"ENST00000404895"	"Transcript"	"intron_variant"	"-/3252"	"-/2862"	"-/953"	""	""	""	"1"	NA	1	"UNC5D"	"HGNC"	18634	"protein_coding"	"YES"	"CCDS6093.2"	"ENSP00000385143"	"Q6UXZ4"	""	"UPI00001D6915"	"NM_080872.2"	""	""	""	"3/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"785d8a14-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340909090909091	"WGS"	FALSE
"7534"	"RP11-473J6.1"	0	"mskcc.org"	"GRCh37"	"8"	35717001	35717001	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"rs777678988"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000523748"	""	98	"70"	28	67	"67"	0	"RP11-473J6.1,upstream_gene_variant,,ENST00000523748,;RP11-473J6.1,upstream_gene_variant,,ENST00000524167,;"	"A"	"ENSG00000253452"	"ENST00000523748"	"Transcript"	"upstream_gene_variant"	"-/578"	""	""	""	""	"rs777678988"	"1"	"3024"	1	"RP11-473J6.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"785da0f8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"7535"	"LETM2"	137994	"mskcc.org"	"GRCh37"	"8"	38246999	38246999	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-24+1451C>G"	""	""	"ENST00000523983"	""	77	"72"	5	41	"41"	0	"LETM2,intron_variant,,ENST00000519476,NM_001286821.1;LETM2,intron_variant,,ENST00000379957,NM_001199659.1,NM_001286819.1;LETM2,intron_variant,,ENST00000523983,;LETM2,intron_variant,,ENST00000297720,NM_144652.2;LETM2,intron_variant,,ENST00000524874,;LETM2,intron_variant,,ENST00000527334,;LETM2,intron_variant,,ENST00000526356,;LETM2,intron_variant,,ENST00000523268,NM_001286787.1,NM_001199660.2;LETM2,intron_variant,,ENST00000518883,;LETM2,intron_variant,,ENST00000518121,;"	"G"	"ENSG00000165046"	"ENST00000523983"	"Transcript"	"intron_variant"	"-/1776"	"-/1335"	"-/444"	""	""	""	"1"	NA	1	"LETM2"	"HGNC"	14648	"protein_coding"	"YES"	"CCDS56534.1"	"ENSP00000428765"	"Q2VYF4"	""	"UPI000021093A"	""	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"785ea106-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0649350649350649	"WGS"	FALSE
"7536"	"ADAM18"	8749	"mskcc.org"	"GRCh37"	"8"	39448263	39448263	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.132+5392A>G"	""	""	"ENST00000265707"	""	115	"78"	37	70	"70"	0	"ADAM18,intron_variant,,ENST00000265707,NM_014237.2;ADAM18,intron_variant,,ENST00000379866,;ADAM18,intron_variant,,ENST00000541111,;ADAM18,intron_variant,,ENST00000520772,NM_001190956.1;ADAM18,intron_variant,,ENST00000520087,;ADAM18,intron_variant,,ENST00000520001,;"	"G"	"ENSG00000168619"	"ENST00000265707"	"Transcript"	"intron_variant"	"-/2388"	"-/2220"	"-/739"	""	""	""	"1"	NA	1	"ADAM18"	"HGNC"	196	"protein_coding"	"YES"	"CCDS6113.1"	"ENSP00000265707"	"Q9Y3Q7"	"Q0VAI3,E5RK96"	"UPI00001254D7"	"NM_014237.2"	""	""	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"785f34c2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.321739130434783	"WGS"	FALSE
"7537"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	40268134	40268134	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"84"	6	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"785f8ab2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"7538"	"AGPAT6"	137964	"mskcc.org"	"GRCh37"	"8"	41483870	41483870	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000396987"	""	55	"51"	4	34	"34"	0	"AGPAT6,downstream_gene_variant,,ENST00000396987,NM_178819.3;RP11-360L9.8,upstream_gene_variant,,ENST00000581909,;AGPAT6,downstream_gene_variant,,ENST00000518628,;AGPAT6,downstream_gene_variant,,ENST00000521349,;"	"T"	"ENSG00000158669"	"ENST00000396987"	"Transcript"	"downstream_gene_variant"	"-/6298"	"-/1371"	"-/456"	""	""	""	"1"	"1350"	1	"AGPAT6"	"HGNC"	20880	"protein_coding"	"YES"	"CCDS6117.1"	"ENSP00000380184"	"Q86UL3"	"Q8NDD3,Q2TU73,E5RIA1,E5RHA6,E5RGW3"	"UPI0000047FDD"	"NM_178819.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"78600b7c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0727272727272727	"WGS"	FALSE
"7539"	"AGPAT6"	137964	"mskcc.org"	"GRCh37"	"8"	41483903	41483903	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000396987"	""	66	"60"	6	49	"49"	0	"AGPAT6,downstream_gene_variant,,ENST00000396987,NM_178819.3;RP11-360L9.8,upstream_gene_variant,,ENST00000581909,;AGPAT6,downstream_gene_variant,,ENST00000518628,;"	"A"	"ENSG00000158669"	"ENST00000396987"	"Transcript"	"downstream_gene_variant"	"-/6298"	"-/1371"	"-/456"	""	""	""	"1"	"1383"	1	"AGPAT6"	"HGNC"	20880	"protein_coding"	"YES"	"CCDS6117.1"	"ENSP00000380184"	"Q86UL3"	"Q8NDD3,Q2TU73,E5RIA1,E5RHA6,E5RGW3"	"UPI0000047FDD"	"NM_178819.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"78600c80-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"7540"	"ANK1"	286	"mskcc.org"	"GRCh37"	"8"	41606940	41606940	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.228+8614G>C"	""	""	"ENST00000265709"	""	58	"40"	18	45	"45"	0	"ANK1,intron_variant,,ENST00000396942,;ANK1,intron_variant,,ENST00000289734,NM_000037.3;ANK1,intron_variant,,ENST00000347528,NM_020477.2,NM_020476.2,NM_020475.2;ANK1,intron_variant,,ENST00000352337,;ANK1,intron_variant,,ENST00000379758,;ANK1,intron_variant,,ENST00000396945,;ANK1,intron_variant,,ENST00000265709,NM_001142446.1;"	"G"	"ENSG00000029534"	"ENST00000265709"	"Transcript"	"intron_variant"	"-/6379"	"-/5694"	"-/1897"	""	""	""	"1"	NA	-1	"ANK1"	"HGNC"	492	"protein_coding"	"YES"	"CCDS47849.1"	"ENSP00000265709"	"P16157"	"Q9UMG4"	"UPI0000E4453A"	"NM_001142446.1"	""	""	""	"2/42"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"78601b44-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"7541"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	50172989	50172989	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"77"	39	59	"59"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7867441e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336206896551724	"WGS"	FALSE
"7542"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	51744080	51744080	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"72"	26	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"7867ab34-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26530612244898	"WGS"	FALSE
"7543"	"PXDNL"	137902	"mskcc.org"	"GRCh37"	"8"	52557628	52557628	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"rs374082892"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.236+9621G>T"	""	""	"ENST00000356297"	""	90	"68"	22	56	"56"	0	"PXDNL,intron_variant,,ENST00000356297,NM_144651.4;PXDNL,intron_variant,,ENST00000543296,;"	"A"	"ENSG00000147485"	"ENST00000356297"	"Transcript"	"intron_variant"	"-/4805"	"-/4392"	"-/1463"	""	""	"rs374082892"	"1"	NA	-1	"PXDNL"	"HGNC"	26359	"protein_coding"	"YES"	"CCDS47855.1"	"ENSP00000348645"	"A1KZ92"	""	"UPI0001AE6ED6"	"NM_144651.4"	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7867f03a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244444444444444	"WGS"	FALSE
"7544"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	53693665	53693665	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"67"	25	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"78685886-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"7545"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	57179150	57179150	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"62"	32	62	"62"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"78699930-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340425531914894	"WGS"	FALSE
"7546"	"RP11-388G22.1"	0	"mskcc.org"	"GRCh37"	"8"	58505405	58505405	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000520426"	""	96	"75"	21	56	"56"	0	"RP11-388G22.1,downstream_gene_variant,,ENST00000520426,;RP11-246K15.1,downstream_gene_variant,,ENST00000520881,;"	"A"	"ENSG00000253322"	"ENST00000520426"	"Transcript"	"downstream_gene_variant"	"-/570"	""	""	""	""	""	"1"	"1320"	-1	"RP11-388G22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"786a191e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WGS"	FALSE
"7547"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	60153255	60153255	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"67"	36	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"786a7b84-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349514563106796	"WGS"	FALSE
"7548"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	61909489	61909489	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"76"	30	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"786b07fc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283018867924528	"WGS"	FALSE
"7549"	"CTD-2571E19.1"	0	"mskcc.org"	"GRCh37"	"8"	63018566	63018566	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"rs145894125"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000518524"	""	109	"101"	8	60	"60"	0	"CTD-2571E19.1,upstream_gene_variant,,ENST00000518524,;"	"T"	"ENSG00000253789"	"ENST00000518524"	"Transcript"	"upstream_gene_variant"	"-/679"	""	""	""	""	"rs145894125"	"1"	"4517"	1	"CTD-2571E19.1"	"Clone_based_vega_gene"	NA	"transcribed_processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"T:0.0012"	"T:0.0045"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"786b4546-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.073394495412844	"WGS"	FALSE
"7550"	"CTD-2571E19.3"	0	"mskcc.org"	"GRCh37"	"8"	63052046	63052046	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000518921"	""	94	"89"	5	63	"63"	0	"CTD-2571E19.3,downstream_gene_variant,,ENST00000518921,;"	"T"	"ENSG00000237810"	"ENST00000518921"	"Transcript"	"downstream_gene_variant"	"-/1459"	""	""	""	""	""	"1"	"3824"	-1	"CTD-2571E19.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"786b4a46-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0531914893617021	"WGS"	FALSE
"7551"	"NKAIN3"	286183	"mskcc.org"	"GRCh37"	"8"	63725717	63725717	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.471+66029A>G"	""	""	"ENST00000523211"	""	111	"74"	37	63	"62"	1	"NKAIN3,intron_variant,,ENST00000523211,NM_173688.2;NKAIN3,intron_variant,,ENST00000328472,;NKAIN3,intron_variant,,ENST00000519049,;NKAIN3,intron_variant,,ENST00000523367,;"	"G"	"ENSG00000185942"	"ENST00000523211"	"Transcript"	"intron_variant"	"-/1988"	"-/594"	"-/197"	""	""	""	"1"	NA	1	"NKAIN3"	"HGNC"	26829	"protein_coding"	"YES"	"CCDS55239.1"	"ENSP00000429073"	"Q8N8D7"	""	"UPI000006F596"	"NM_173688.2"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"786b7f20-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"7552"	"RP11-32K4.1"	0	"mskcc.org"	"GRCh37"	"8"	65014230	65014230	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.195+31775G>A"	""	""	"ENST00000524360"	""	117	"92"	25	67	"67"	0	"RP11-32K4.1,intron_variant,,ENST00000524360,;RP11-32K4.1,intron_variant,,ENST00000521958,;RP11-32K4.1,intron_variant,,ENST00000523191,;"	"T"	"ENSG00000253554"	"ENST00000524360"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/581"	""	""	""	""	""	"1"	NA	-1	"RP11-32K4.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"786bf874-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213675213675214	"WGS"	FALSE
"7553"	"CPA6"	57094	"mskcc.org"	"GRCh37"	"8"	68497647	68497647	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.192+38764C>A"	""	""	"ENST00000297770"	""	118	"76"	42	54	"53"	1	"CPA6,intron_variant,,ENST00000297770,NM_020361.4;CPA6,intron_variant,,ENST00000297769,;CPA6,intron_variant,,ENST00000518549,;CPA6,intron_variant,,ENST00000479862,;"	"T"	"ENSG00000165078"	"ENST00000297770"	"Transcript"	"intron_variant"	"-/1861"	"-/1314"	"-/437"	""	""	""	"1"	NA	-1	"CPA6"	"HGNC"	17245	"protein_coding"	"YES"	"CCDS6200.1"	"ENSP00000297770"	"Q8N4T0"	""	"UPI000003984E"	"NM_020361.4"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"786d3ae0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355932203389831	"WGS"	FALSE
"7554"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	69163893	69163893	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs376717087"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"68"	28	78	"78"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs376717087"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"786d6af6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WGS"	FALSE
"7555"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	69802850	69802850	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"67"	34	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"786db114-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336633663366337	"WGS"	FALSE
"7556"	"RP11-600K15.1"	100505718	"mskcc.org"	"GRCh37"	"8"	69853601	69853601	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.520+12692G>A"	""	""	"ENST00000518540"	""	77	"58"	19	35	"35"	0	"RP11-600K15.1,intron_variant,,ENST00000518540,;RP11-600K15.1,intron_variant,,ENST00000519062,;RP11-600K15.1,intron_variant,,ENST00000524286,;RP11-600K15.1,intron_variant,,ENST00000517925,;"	"T"	"ENSG00000253658"	"ENST00000518540"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2367"	""	""	""	""	""	"1"	NA	-1	"RP11-600K15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"786dc94c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246753246753247	"WGS"	FALSE
"7557"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	70220935	70220935	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"76"	23	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"786ddf72-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232323232323232	"WGS"	FALSE
"7558"	"STAU2"	27067	"mskcc.org"	"GRCh37"	"8"	74396217	74396217	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1531-61280T>A"	""	""	"ENST00000524300"	""	111	"85"	26	70	"70"	0	"STAU2,intron_variant,,ENST00000524300,NM_001164381.1,NM_001164380.1;STAU2,intron_variant,,ENST00000522695,;STAU2,intron_variant,,ENST00000521210,NM_001164382.1;STAU2,intron_variant,,ENST00000523558,NM_001164383.1;"	"T"	"ENSG00000040341"	"ENST00000524300"	"Transcript"	"intron_variant"	"-/3065"	"-/1713"	"-/570"	""	""	""	"1"	NA	-1	"STAU2"	"HGNC"	11371	"protein_coding"	"YES"	"CCDS55247.1"	"ENSP00000428756"	""	"E5RJN7"	"UPI000013D271"	"NM_001164381.1,NM_001164380.1"	""	""	""	"13/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"786f549c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234234234234234	"WGS"	FALSE
"7559"	"STAU2"	27067	"mskcc.org"	"GRCh37"	"8"	74549699	74549699	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.411-20013T>A"	""	""	"ENST00000524300"	""	48	"44"	4	20	"20"	0	"STAU2,intron_variant,,ENST00000355780,NM_014393.2;STAU2,intron_variant,,ENST00000521727,;STAU2,intron_variant,,ENST00000519961,;STAU2,intron_variant,,ENST00000524300,NM_001164381.1,NM_001164380.1;STAU2,intron_variant,,ENST00000521451,;STAU2,intron_variant,,ENST00000522695,;STAU2,intron_variant,,ENST00000522509,NM_001164384.1;STAU2,intron_variant,,ENST00000521210,NM_001164382.1;STAU2,intron_variant,,ENST00000517542,NM_001164385.1;STAU2,intron_variant,,ENST00000523558,NM_001164383.1;STAU2,intron_variant,,ENST00000518767,;STAU2,intron_variant,,ENST00000521447,;STAU2,intron_variant,,ENST00000518502,;STAU2,intron_variant,,ENST00000521293,;STAU2,intron_variant,,ENST00000518981,;"	"T"	"ENSG00000040341"	"ENST00000524300"	"Transcript"	"intron_variant"	"-/3065"	"-/1713"	"-/570"	""	""	""	"1"	NA	-1	"STAU2"	"HGNC"	11371	"protein_coding"	"YES"	"CCDS55247.1"	"ENSP00000428756"	""	"E5RJN7"	"UPI000013D271"	"NM_001164381.1,NM_001164380.1"	""	""	""	"6/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"786f59c4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"7560"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	79160197	79160197	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"70"	25	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"787104ae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"7561"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	84268827	84268827	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"102"	6	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7872782a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"7562"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	84715156	84715156	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	123	"88"	35	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"7872aebc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284552845528455	"WGS"	FALSE
"7563"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	86485465	86485465	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"79"	6	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"78734c64-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0705882352941176	"WGS"	FALSE
"7564"	"WWP1"	11059	"mskcc.org"	"GRCh37"	"8"	87362286	87362286	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-115+7127C>A"	""	""	"ENST00000517970"	""	91	"57"	34	43	"43"	0	"WWP1,intron_variant,,ENST00000517970,NM_007013.3;WWP1,intron_variant,,ENST00000523863,;"	"A"	"ENSG00000123124"	"ENST00000517970"	"Transcript"	"intron_variant"	"-/4686"	"-/2769"	"-/922"	""	""	""	"1"	NA	1	"WWP1"	"HGNC"	17004	"protein_coding"	"YES"	"CCDS6242.1"	"ENSP00000427793"	"Q9H0M0"	"H0YBS9"	"UPI0000035537"	"NM_007013.3"	""	""	""	"1/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"78749ee8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373626373626374	"WGS"	FALSE
"7565"	"CNBD1"	168975	"mskcc.org"	"GRCh37"	"8"	88434383	88434383	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.379-6391A>T"	""	""	"ENST00000523299"	""	79	"60"	19	52	"51"	1	"CNBD1,intron_variant,,ENST00000523299,;CNBD1,intron_variant,,ENST00000521593,;"	"T"	"ENSG00000176571"	"ENST00000523299"	"Transcript"	"intron_variant"	"-/659"	"-/624"	"-/207"	""	""	""	"1"	NA	1	"CNBD1"	"HGNC"	26663	"protein_coding"	""	""	"ENSP00000430986"	""	""	"UPI0001E8F66E"	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"7874eab0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240506329113924	"WGS"	FALSE
"7566"	"TMEM64"	169200	"mskcc.org"	"GRCh37"	"8"	91719397	91719397	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-118+2267C>G"	""	""	"ENST00000519519"	""	110	"73"	37	51	"51"	0	"TMEM64,intron_variant,,ENST00000519519,;TMEM64,intron_variant,,ENST00000521852,;TMEM64,intron_variant,,ENST00000523902,;TMEM64,intron_variant,,ENST00000521211,;"	"C"	"ENSG00000180694"	"ENST00000519519"	"Transcript"	"intron_variant"	"-/873"	"-/360"	"-/119"	""	""	""	"1"	NA	-1	"TMEM64"	"HGNC"	25441	"protein_coding"	""	""	"ENSP00000429832"	"Q6YI46"	"E5RIS8"	"UPI00006A8634"	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7875c854-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336363636363636	"WGS"	FALSE
"7567"	"LRRC69"	100130742	"mskcc.org"	"GRCh37"	"8"	92141971	92141971	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.383+2583T>G"	""	""	"ENST00000448384"	""	98	"68"	30	47	"47"	0	"LRRC69,intron_variant,,ENST00000448384,NM_001129890.1;LRRC69,intron_variant,,ENST00000343709,;LRRC69,downstream_gene_variant,,ENST00000522144,;LRRC69,intron_variant,,ENST00000520099,;LRRC69,upstream_gene_variant,,ENST00000518487,;"	"G"	"ENSG00000214954"	"ENST00000448384"	"Transcript"	"intron_variant"	"-/1044"	"-/1044"	"-/347"	""	""	""	"1"	NA	1	"LRRC69"	"HGNC"	34303	"protein_coding"	"YES"	""	"ENSP00000400803"	"Q6ZNQ3"	"E5RJ66"	"UPI00006C0DD3"	"NM_001129890.1"	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"7875e33e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306122448979592	"WGS"	FALSE
"7568"	"RP11-122C21.1"	0	"mskcc.org"	"GRCh37"	"8"	92761637	92761637	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.415+23661C>T"	""	""	"ENST00000518416"	""	109	"80"	29	52	"52"	0	"RP11-122C21.1,intron_variant,,ENST00000518416,;RP11-122C21.1,intron_variant,,ENST00000521199,;"	"A"	"ENSG00000253901"	"ENST00000518416"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/577"	""	""	""	""	""	"1"	NA	-1	"RP11-122C21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"78761106-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26605504587156	"WGS"	FALSE
"7569"	"RP11-122C21.1"	0	"mskcc.org"	"GRCh37"	"8"	92887608	92887608	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.181-13801C>A"	""	""	"ENST00000518416"	""	83	"77"	6	47	"47"	0	"RP11-122C21.1,intron_variant,,ENST00000518416,;RP11-122C21.1,intron_variant,,ENST00000521199,;"	"T"	"ENSG00000253901"	"ENST00000518416"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/577"	""	""	""	""	""	"1"	NA	-1	"RP11-122C21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"78761fac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"7570"	"RP11-122C21.1"	0	"mskcc.org"	"GRCh37"	"8"	92887644	92887644	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.181-13837T>C"	""	""	"ENST00000518416"	""	87	"81"	6	50	"50"	0	"RP11-122C21.1,intron_variant,,ENST00000518416,;RP11-122C21.1,intron_variant,,ENST00000521199,;"	"G"	"ENSG00000253901"	"ENST00000518416"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/577"	""	""	""	""	""	"1"	NA	-1	"RP11-122C21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"787620b0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"7571"	"RP11-122C21.1"	0	"mskcc.org"	"GRCh37"	"8"	92887669	92887669	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.181-13862C>T"	""	""	"ENST00000518416"	""	91	"85"	6	46	"46"	0	"RP11-122C21.1,intron_variant,,ENST00000518416,;RP11-122C21.1,intron_variant,,ENST00000521199,;"	"A"	"ENSG00000253901"	"ENST00000518416"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/577"	""	""	""	""	""	"1"	NA	-1	"RP11-122C21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"787621aa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"7572"	"RP11-122C21.1"	0	"mskcc.org"	"GRCh37"	"8"	92887684	92887684	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.181-13877C>T"	""	""	"ENST00000518416"	""	89	"82"	7	42	"42"	0	"RP11-122C21.1,intron_variant,,ENST00000518416,;RP11-122C21.1,intron_variant,,ENST00000521199,;"	"A"	"ENSG00000253901"	"ENST00000518416"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/577"	""	""	""	""	""	"1"	NA	-1	"RP11-122C21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"787622b8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	FALSE
"7573"	"RP11-100L22.3"	0	"mskcc.org"	"GRCh37"	"8"	93779025	93779025	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.242+854T>G"	""	""	"ENST00000521317"	""	87	"66"	21	43	"43"	0	"RP11-100L22.3,intron_variant,,ENST00000521317,;RP11-100L22.2,intron_variant,,ENST00000504861,;RP11-100L22.2,upstream_gene_variant,,ENST00000521148,;"	"G"	"ENSG00000253577"	"ENST00000521317"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/436"	""	""	""	""	""	"1"	NA	1	"RP11-100L22.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7876607a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241379310344828	"WGS"	FALSE
"7574"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	95340849	95340849	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"66"	34	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"7876e4b4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34	"WGS"	FALSE
"7575"	"ESRP1"	54845	"mskcc.org"	"GRCh37"	"8"	95659490	95659490	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.490+980G>T"	""	""	"ENST00000433389"	""	95	"75"	20	68	"68"	0	"ESRP1,intron_variant,,ENST00000433389,NM_001034915.2,NM_017697.3;ESRP1,intron_variant,,ENST00000358397,;ESRP1,intron_variant,,ENST00000423620,NM_001122826.1;ESRP1,intron_variant,,ENST00000454170,NM_001122825.1,NM_001122827.1;ESRP1,intron_variant,,ENST00000519505,;ESRP1,intron_variant,,ENST00000517610,;ESRP1,intron_variant,,ENST00000520385,;ESRP1,intron_variant,,ENST00000522756,;ESRP1,downstream_gene_variant,,ENST00000522920,;"	"T"	"ENSG00000104413"	"ENST00000433389"	"Transcript"	"intron_variant"	"-/3770"	"-/2046"	"-/681"	""	""	""	"1"	NA	1	"ESRP1"	"HGNC"	25966	"protein_coding"	"YES"	"CCDS47897.1"	"ENSP00000405738"	"Q6NXG1"	"E5RI26,E5RGE9"	"UPI0000210327"	"NM_001034915.2,NM_017697.3"	""	""	""	"4/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"7876ffa8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"7576"	"RP11-320N21.2"	0	"mskcc.org"	"GRCh37"	"8"	96099850	96099850	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.279+24T>C"	""	""	"ENST00000518598"	""	105	"79"	26	46	"46"	0	"RP11-320N21.2,intron_variant,,ENST00000518598,;NDUFAF6,intron_variant,,ENST00000523184,;"	"G"	"ENSG00000254248"	"ENST00000518598"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/794"	""	""	""	""	""	"1"	NA	-1	"RP11-320N21.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"787752dc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247619047619048	"WGS"	FALSE
"7577"	"KB-1047C11.1"	619344	"mskcc.org"	"GRCh37"	"8"	96232680	96232680	"+"	"5'Flank"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000523171"	""	72	"52"	20	44	"44"	0	"KB-1047C11.2,intron_variant,,ENST00000517655,;KB-1047C11.1,upstream_gene_variant,,ENST00000523171,;"	"G"	"ENSG00000253351"	"ENST00000523171"	"Transcript"	"upstream_gene_variant"	"-/519"	""	""	""	""	""	"1"	"4078"	-1	"KB-1047C11.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"78776060-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"7578"	"MATN2"	4147	"mskcc.org"	"GRCh37"	"8"	99019316	99019316	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs183809644"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1328-17C>T"	""	""	"ENST00000520016"	""	101	"79"	22	53	"53"	0	"MATN2,intron_variant,,ENST00000254898,NM_002380.3,NM_030583.2;MATN2,intron_variant,,ENST00000521689,;MATN2,intron_variant,,ENST00000520016,;MATN2,intron_variant,,ENST00000524308,;MATN2,intron_variant,,ENST00000522025,;MATN2,intron_variant,,ENST00000518154,;MATN2,intron_variant,,ENST00000522270,;MATN2,downstream_gene_variant,,ENST00000521041,;MATN2,downstream_gene_variant,,ENST00000523490,;MATN2,upstream_gene_variant,,ENST00000521952,;"	"T"	"ENSG00000132561"	"ENST00000520016"	"Transcript"	"intron_variant"	"-/3495"	"-/2871"	"-/956"	""	""	"rs183809644"	"1"	NA	1	"MATN2"	"HGNC"	6908	"protein_coding"	"YES"	"CCDS55264.1"	"ENSP00000430487"	"O00339"	"E5RJM4"	"UPI000021037B"	""	""	""	""	"7/17"	""	""	""	""	NA	""	""	""	"T:0.0003"	"T:0.0007"	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	"0.0003123"	"0.0003019"	"4e-04"	"0"	"0.002098"	"0.0008857"	"0"	"0.0003103"	NA	"common_variant"	"GCG"	"7878ae0c-ffcc-11e5-9bf8-a690c673b430"	"."	0.000704	"29/41194"	"33/105674"	"1/3312"	"1/2500"	"0/2228"	"6/2860"	"18/20324"	"0/302"	"3/9668"	"PASS"	"FALSE"	0.217821782178218	"WGS"	FALSE
"7579"	"POP1"	10940	"mskcc.org"	"GRCh37"	"8"	99173814	99173814	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000401707"	""	28	"24"	4	16	"16"	0	"POP1,downstream_gene_variant,,ENST00000401707,NM_001145860.1,NM_001145861.1;POP1,downstream_gene_variant,,ENST00000349693,NM_015029.2;POP1,downstream_gene_variant,,ENST00000517435,;"	"A"	"ENSG00000104356"	"ENST00000401707"	"Transcript"	"downstream_gene_variant"	"-/4719"	"-/3075"	"-/1024"	""	""	""	"1"	"1752"	1	"POP1"	"HGNC"	30129	"protein_coding"	"YES"	"CCDS6277.1"	"ENSP00000385787"	"Q99575"	"E5RK39"	"UPI0000131F33"	"NM_001145860.1,NM_001145861.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"7878c7c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"7580"	"RP11-1C8.5"	0	"mskcc.org"	"GRCh37"	"8"	104478394	104478394	"+"	"RNA"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1778A>T"	""	""	"ENST00000562917"	"1/1"	71	"66"	5	39	"39"	0	"RP11-1C8.5,non_coding_transcript_exon_variant,,ENST00000562917,;"	"T"	"ENSG00000261670"	"ENST00000562917"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1778/4597"	""	""	""	""	""	"1"	NA	1	"RP11-1C8.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"787b2e2a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0704225352112676	"WGS"	FALSE
"7581"	"RIMS2"	9699	"mskcc.org"	"GRCh37"	"8"	105187080	105187080	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3335-70064C>T"	""	""	"ENST00000406091"	""	99	"70"	29	59	"58"	1	"RIMS2,intron_variant,,ENST00000507740,NM_014677.4;RIMS2,intron_variant,,ENST00000436393,;RIMS2,intron_variant,,ENST00000406091,NM_001100117.2;RIMS2,intron_variant,,ENST00000408894,;RIMS2,intron_variant,,ENST00000262231,NM_001282881.1;"	"T"	"ENSG00000176406"	"ENST00000406091"	"Transcript"	"intron_variant"	"-/4050"	"-/4050"	"-/1349"	""	""	""	"1"	NA	1	"RIMS2"	"HGNC"	17283	"protein_coding"	"YES"	"CCDS55269.1"	"ENSP00000384892"	"Q9UQ26"	"E9PFB6"	"UPI0001597063"	"NM_001100117.2"	""	""	""	"19/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"787b69ee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292929292929293	"WGS"	FALSE
"7582"	"RP11-127H5.1"	0	"mskcc.org"	"GRCh37"	"8"	106034939	106034939	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs569499826"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.52+31042G>A"	""	""	"ENST00000518180"	""	103	"73"	30	60	"60"	0	"RP11-127H5.1,intron_variant,,ENST00000518180,;"	"A"	"ENSG00000253350"	"ENST00000518180"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/596"	"-/120"	"-/39"	""	""	"rs569499826"	"1"	NA	1	"RP11-127H5.1"	"Clone_based_vega_gene"	NA	"nonsense_mediated_decay"	""	""	"ENSP00000429987"	""	"E5RGM9"	"UPI0001E8F5B5"	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"787ba580-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29126213592233	"WGS"	FALSE
"7583"	"ZFPM2"	23414	"mskcc.org"	"GRCh37"	"8"	106373473	106373473	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"rs111702420"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.40+42264T>C"	""	""	"ENST00000407775"	""	50	"45"	5	27	"27"	0	"ZFPM2,intron_variant,,ENST00000407775,NM_012082.3;ZFPM2,intron_variant,,ENST00000520492,;ZFPM2,intron_variant,,ENST00000520027,;ZFPM2,intron_variant,,ENST00000524235,;RP11-127H5.1,intron_variant,,ENST00000518180,;"	"C"	"ENSG00000169946"	"ENST00000407775"	"Transcript"	"intron_variant"	"-/4700"	"-/3456"	"-/1151"	""	""	"rs111702420"	"1"	NA	1	"ZFPM2"	"HGNC"	16700	"protein_coding"	"YES"	"CCDS47908.1"	"ENSP00000384179"	"Q8WW38"	"Q9NPQ0,F5H542,E7ET52,E5RJX0"	"UPI000057A0B4"	"NM_012082.3"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"787bbe80-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"7584"	"ZFPM2"	23414	"mskcc.org"	"GRCh37"	"8"	106373478	106373478	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.40+42269C>T"	""	""	"ENST00000407775"	""	50	"44"	6	27	"27"	0	"ZFPM2,intron_variant,,ENST00000407775,NM_012082.3;ZFPM2,intron_variant,,ENST00000520492,;ZFPM2,intron_variant,,ENST00000520027,;ZFPM2,intron_variant,,ENST00000524235,;RP11-127H5.1,intron_variant,,ENST00000518180,;"	"T"	"ENSG00000169946"	"ENST00000407775"	"Transcript"	"intron_variant"	"-/4700"	"-/3456"	"-/1151"	""	""	""	"1"	NA	1	"ZFPM2"	"HGNC"	16700	"protein_coding"	"YES"	"CCDS47908.1"	"ENSP00000384179"	"Q8WW38"	"Q9NPQ0,F5H542,E7ET52,E5RJX0"	"UPI000057A0B4"	"NM_012082.3"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"787bbf8e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"7585"	"ENSR00001812637"	0	"mskcc.org"	"GRCh37"	"8"	108882328	108882328	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001812637"	""	95	"66"	29	61	"60"	1	""	"G"	""	"ENSR00001812637"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"787c6e52-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305263157894737	"WGS"	FALSE
"7586"	"RSPO2"	340419	"mskcc.org"	"GRCh37"	"8"	108971905	108971905	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs564868558"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.427+997G>A"	""	""	"ENST00000276659"	""	100	"77"	23	64	"64"	0	"RSPO2,intron_variant,,ENST00000276659,NM_178565.4;RSPO2,intron_variant,,ENST00000378439,;RSPO2,intron_variant,,ENST00000517781,NM_001282863.1;RSPO2,intron_variant,,ENST00000517939,;RSPO2,intron_variant,,ENST00000521502,;RSPO2,intron_variant,,ENST00000521757,;RSPO2,downstream_gene_variant,,ENST00000520026,;RSPO2,downstream_gene_variant,,ENST00000521956,;"	"T"	"ENSG00000147655"	"ENST00000276659"	"Transcript"	"intron_variant"	"-/3111"	"-/732"	"-/243"	""	""	"rs564868558"	"1"	NA	-1	"RSPO2"	"HGNC"	28583	"protein_coding"	"YES"	"CCDS6307.1"	"ENSP00000276659"	"Q6UXX9"	"E5RJU7,E5RHC3,E5RH25,E5RGU9,B3KVP3"	"UPI000021046F"	"NM_178565.4"	""	""	""	"4/5"	""	"T:0.0004"	"T:0.0015"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"787c733e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23	"WGS"	TRUE
"7587"	"RP11-1084E5.1"	0	"mskcc.org"	"GRCh37"	"8"	109985652	109985652	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.265-54777G>T"	""	""	"ENST00000522244"	""	100	"72"	28	54	"54"	0	"RP11-1084E5.1,intron_variant,,ENST00000522244,;"	"A"	"ENSG00000253796"	"ENST00000522244"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/481"	""	""	""	""	""	"1"	NA	-1	"RP11-1084E5.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"787cbc22-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"7588"	"SYBU"	55638	"mskcc.org"	"GRCh37"	"8"	110679287	110679287	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-57-22342C>T"	""	""	"ENST00000422135"	""	90	"60"	30	55	"55"	0	"SYBU,intron_variant,,ENST00000422135,NM_001099744.1;SYBU,intron_variant,,ENST00000419099,NM_001099743.1;SYBU,intron_variant,,ENST00000408889,NM_001099746.1;SYBU,intron_variant,,ENST00000532779,;SYBU,intron_variant,,ENST00000533171,NM_001099745.1;SYBU,intron_variant,,ENST00000529190,;SYBU,intron_variant,,ENST00000534184,;SYBU,intron_variant,,ENST00000533821,;SYBU,intron_variant,,ENST00000532189,;SYBU,intron_variant,,ENST00000528716,;SYBU,intron_variant,,ENST00000527600,;SYBU,intron_variant,,ENST00000534578,;SYBU,intron_variant,,ENST00000531230,;SYBU,intron_variant,,ENST00000527664,;"	"A"	"ENSG00000147642"	"ENST00000422135"	"Transcript"	"intron_variant"	"-/3226"	"-/1992"	"-/663"	""	""	""	"1"	NA	-1	"SYBU"	"HGNC"	26011	"protein_coding"	"YES"	"CCDS47912.1"	"ENSP00000407118"	"Q9NX95"	"E9PRT7,E9PQG2,E9PPS4,E9PPC2,E9PN31,E9PLB9,E9PL50,E9PK96,E9PJ11,E9PI48,B3KRD1"	"UPI00000407AB"	"NM_001099744.1"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"787cf624-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"7589"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	112731420	112731420	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"77"	25	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"787d7a4a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245098039215686	"WGS"	FALSE
"7590"	"CSMD3"	114788	"mskcc.org"	"GRCh37"	"8"	114191566	114191566	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.515-5421C>T"	""	""	"ENST00000297405"	""	118	"74"	44	55	"55"	0	"CSMD3,intron_variant,,ENST00000297405,NM_198123.1;CSMD3,intron_variant,,ENST00000343508,NM_198124.1;CSMD3,intron_variant,,ENST00000352409,;CSMD3,intron_variant,,ENST00000455883,NM_052900.2;CSMD3,intron_variant,,ENST00000497026,;"	"A"	"ENSG00000164796"	"ENST00000297405"	"Transcript"	"intron_variant"	"-/13212"	"-/11124"	"-/3707"	""	""	""	"1"	NA	-1	"CSMD3"	"HGNC"	19291	"protein_coding"	"YES"	"CCDS6315.1"	"ENSP00000297405"	"Q7Z407"	""	"UPI00001E0584"	"NM_198123.1"	""	""	""	"3/70"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"787de25a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.372881355932203	"WGS"	FALSE
"7591"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	114557196	114557196	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"91"	10	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"787df876-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.099009900990099	"WGS"	FALSE
"7592"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	115190306	115190306	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"rs111344277"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"89"	5	36	"36"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs111344277"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"787e1310-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0531914893617021	"WGS"	FALSE
"7593"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	116157500	116157500	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"82"	23	62	"61"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"787e609a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219047619047619	"WGS"	FALSE
"7594"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	116206555	116206555	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"69"	33	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"787e6680-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323529411764706	"WGS"	FALSE
"7595"	"LINC00536"	100859921	"mskcc.org"	"GRCh37"	"8"	117208529	117208529	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1333+63196C>T"	""	""	"ENST00000505156"	""	84	"67"	17	47	"47"	0	"LINC00536,intron_variant,,ENST00000505156,;"	"A"	"ENSG00000249917"	"ENST00000505156"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2692"	""	""	""	""	""	"1"	NA	-1	"LINC00536"	"HGNC"	43645	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"787ebd7e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202380952380952	"WGS"	FALSE
"7596"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	117446566	117446566	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"114"	7	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"787ececc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0578512396694215	"WGS"	FALSE
"7597"	"SLC30A8"	169026	"mskcc.org"	"GRCh37"	"8"	118073499	118073499	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-226+22002C>A"	""	""	"ENST00000427715"	""	100	"63"	37	63	"63"	0	"SLC30A8,intron_variant,,ENST00000427715,NM_001172815.1,NM_001172813.1;SLC30A8,intron_variant,,ENST00000521243,NM_001172811.1;SLC30A8,intron_variant,,ENST00000524274,;SLC30A8,intron_variant,,ENST00000521035,;"	"A"	"ENSG00000164756"	"ENST00000427715"	"Transcript"	"intron_variant"	"-/5430"	"-/963"	"-/320"	""	""	""	"1"	NA	1	"SLC30A8"	"HGNC"	20303	"protein_coding"	""	"CCDS55272.1"	"ENSP00000407505"	"Q8IWU4"	"E5RG87"	"UPI0000036162"	"NM_001172815.1,NM_001172813.1"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"787ef3fc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.37	"WGS"	FALSE
"7598"	"COL14A1"	7373	"mskcc.org"	"GRCh37"	"8"	121098249	121098249	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-135+14845A>T"	""	""	"ENST00000498051"	""	45	"37"	8	11	"11"	0	"COL14A1,intron_variant,,ENST00000498051,;"	"T"	"ENSG00000187955"	"ENST00000498051"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/3244"	"-/1605"	"-/534"	""	""	""	"1"	NA	1	"COL14A1"	"HGNC"	2191	"nonsense_mediated_decay"	""	""	"ENSP00000428851"	""	"Q4G0W3"	"UPI000056D42E"	""	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAA"	"787fe640-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177777777777778	"WGS"	FALSE
"7599"	"COL14A1"	7373	"mskcc.org"	"GRCh37"	"8"	121098254	121098254	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-135+14850T>A"	""	""	"ENST00000498051"	""	48	"41"	7	11	"11"	0	"COL14A1,intron_variant,,ENST00000498051,;"	"A"	"ENSG00000187955"	"ENST00000498051"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/3244"	"-/1605"	"-/534"	""	""	""	"1"	NA	1	"COL14A1"	"HGNC"	2191	"nonsense_mediated_decay"	""	""	"ENSP00000428851"	""	"Q4G0W3"	"UPI000056D42E"	""	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"787fe758-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145833333333333	"WGS"	FALSE
"7600"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	122281846	122281846	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"87"	8	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"78803636-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0842105263157895	"WGS"	FALSE
"7601"	"MTSS1"	9788	"mskcc.org"	"GRCh37"	"8"	125680397	125680397	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.208+31370G>C"	""	""	"ENST00000518547"	""	90	"70"	20	66	"66"	0	"MTSS1,intron_variant,,ENST00000518547,NM_014751.4;MTSS1,intron_variant,,ENST00000354184,;MTSS1,intron_variant,,ENST00000378017,NM_001282974.1;MTSS1,intron_variant,,ENST00000325064,NM_001282971.1;MTSS1,intron_variant,,ENST00000522162,;MTSS1,intron_variant,,ENST00000529463,;"	"G"	"ENSG00000170873"	"ENST00000518547"	"Transcript"	"intron_variant"	"-/4944"	"-/2268"	"-/755"	""	""	""	"1"	NA	-1	"MTSS1"	"HGNC"	20443	"protein_coding"	"YES"	"CCDS6353.1"	"ENSP00000429064"	"O43312"	"E5RJX3"	"UPI000019B3D8"	"NM_014751.4"	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"78817e88-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"7602"	"NSMCE2"	286053	"mskcc.org"	"GRCh37"	"8"	126120690	126120690	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.157+5961C>G"	""	""	"ENST00000287437"	""	99	"76"	23	67	"67"	0	"NSMCE2,intron_variant,,ENST00000287437,NM_173685.2;NSMCE2,intron_variant,,ENST00000522563,;NSMCE2,intron_variant,,ENST00000517532,;NSMCE2,intron_variant,,ENST00000523741,;NSMCE2,intron_variant,,ENST00000519010,;NSMCE2,intron_variant,,ENST00000518146,;NSMCE2,intron_variant,,ENST00000520866,;NSMCE2,intron_variant,,ENST00000519712,;NSMCE2,intron_variant,,ENST00000523824,;NSMCE2,intron_variant,,ENST00000523549,;"	"G"	"ENSG00000156831"	"ENST00000287437"	"Transcript"	"intron_variant"	"-/1195"	"-/744"	"-/247"	""	""	""	"1"	NA	1	"NSMCE2"	"HGNC"	26513	"protein_coding"	"YES"	"CCDS6356.1"	"ENSP00000287437"	"Q96MF7"	"E5RK09,E5RIM1,E5RHW9,E5RFJ1"	"UPI0000039EC8"	"NM_173685.2"	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7881ba38-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232323232323232	"WGS"	FALSE
"7603"	"NSMCE2"	286053	"mskcc.org"	"GRCh37"	"8"	126167311	126167311	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.264+3792A>G"	""	""	"ENST00000287437"	""	109	"74"	35	54	"54"	0	"NSMCE2,intron_variant,,ENST00000287437,NM_173685.2;NSMCE2,intron_variant,,ENST00000522563,;NSMCE2,intron_variant,,ENST00000517315,;NSMCE2,intron_variant,,ENST00000517532,;NSMCE2,intron_variant,,ENST00000523741,;NSMCE2,intron_variant,,ENST00000519010,;NSMCE2,intron_variant,,ENST00000518146,;NSMCE2,intron_variant,,ENST00000520866,;NSMCE2,intron_variant,,ENST00000519712,;NSMCE2,intron_variant,,ENST00000523549,;NSMCE2,downstream_gene_variant,,ENST00000523824,;"	"G"	"ENSG00000156831"	"ENST00000287437"	"Transcript"	"intron_variant"	"-/1195"	"-/744"	"-/247"	""	""	""	"1"	NA	1	"NSMCE2"	"HGNC"	26513	"protein_coding"	"YES"	"CCDS6356.1"	"ENSP00000287437"	"Q96MF7"	"E5RK09,E5RIM1,E5RHW9,E5RFJ1"	"UPI0000039EC8"	"NM_173685.2"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7881be3e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.321100917431193	"WGS"	FALSE
"7604"	"NSMCE2"	286053	"mskcc.org"	"GRCh37"	"8"	126225778	126225778	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.418+31280T>A"	""	""	"ENST00000287437"	""	55	"49"	6	25	"25"	0	"NSMCE2,intron_variant,,ENST00000287437,NM_173685.2;NSMCE2,intron_variant,,ENST00000522563,;NSMCE2,intron_variant,,ENST00000517315,;NSMCE2,intron_variant,,ENST00000517532,;"	"A"	"ENSG00000156831"	"ENST00000287437"	"Transcript"	"intron_variant"	"-/1195"	"-/744"	"-/247"	""	""	""	"1"	NA	1	"NSMCE2"	"HGNC"	26513	"protein_coding"	"YES"	"CCDS6356.1"	"ENSP00000287437"	"Q96MF7"	"E5RK09,E5RIM1,E5RHW9,E5RFJ1"	"UPI0000039EC8"	"NM_173685.2"	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"7881c258-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109090909090909	"WGS"	FALSE
"7605"	"NSMCE2"	286053	"mskcc.org"	"GRCh37"	"8"	126339369	126339369	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"rs188292775"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.419-30092G>T"	""	""	"ENST00000287437"	""	94	"73"	21	45	"45"	0	"NSMCE2,intron_variant,,ENST00000287437,NM_173685.2;NSMCE2,intron_variant,,ENST00000522563,;NSMCE2,intron_variant,,ENST00000517315,;NSMCE2,intron_variant,,ENST00000517532,;"	"T"	"ENSG00000156831"	"ENST00000287437"	"Transcript"	"intron_variant"	"-/1195"	"-/744"	"-/247"	""	""	"rs188292775"	"1"	NA	1	"NSMCE2"	"HGNC"	26513	"protein_coding"	"YES"	"CCDS6356.1"	"ENSP00000287437"	"Q96MF7"	"E5RK09,E5RIM1,E5RHW9,E5RFJ1"	"UPI0000039EC8"	"NM_173685.2"	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7881cad2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223404255319149	"WGS"	FALSE
"7606"	"LINC00861"	100130231	"mskcc.org"	"GRCh37"	"8"	126943329	126943329	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.581+5155C>A"	""	""	"ENST00000517869"	""	111	"85"	26	59	"59"	0	"LINC00861,intron_variant,,ENST00000517869,;LINC00861,intron_variant,,ENST00000518964,;LINC00861,intron_variant,,ENST00000522865,;"	"T"	"ENSG00000245164"	"ENST00000517869"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/606"	""	""	""	""	""	"1"	NA	-1	"LINC00861"	"HGNC"	45133	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"788210f0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234234234234234	"WGS"	FALSE
"7607"	"PVT1"	5820	"mskcc.org"	"GRCh37"	"8"	128901461	128901461	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000513868"	""	83	"60"	23	39	"39"	0	"PVT1,intron_variant,,ENST00000521951,;PVT1,intron_variant,,ENST00000523427,;PVT1,intron_variant,,ENST00000523068,;PVT1,intron_variant,,ENST00000504719,;PVT1,intron_variant,,ENST00000518528,;PVT1,intron_variant,,ENST00000517790,;PVT1,intron_variant,,ENST00000522963,;PVT1,intron_variant,,ENST00000517525,;PVT1,intron_variant,,ENST00000521122,;PVT1,upstream_gene_variant,,ENST00000513868,;PVT1,upstream_gene_variant,,ENST00000520913,;PVT1,upstream_gene_variant,,ENST00000519481,;PVT1,upstream_gene_variant,,ENST00000517838,;"	"T"	"ENSG00000249859"	"ENST00000513868"	"Transcript"	"upstream_gene_variant"	"-/1699"	""	""	""	""	""	"1"	"1413"	1	"PVT1"	"HGNC"	9709	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7882ebd8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27710843373494	"WGS"	FALSE
"7608"	"MIR1208"	100302281	"mskcc.org"	"GRCh37"	"8"	129163903	129163903	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408334"	""	88	"69"	19	63	"63"	0	"MIR1208,downstream_gene_variant,,ENST00000408334,;"	"A"	"ENSG00000221261"	"ENST00000408334"	"Transcript"	"downstream_gene_variant"	"-/73"	""	""	""	""	""	"1"	"1469"	1	"MIR1208"	"HGNC"	35274	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7883164e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215909090909091	"WGS"	FALSE
"7609"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	129605599	129605599	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"76"	22	65	"64"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"78833d5e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224489795918367	"WGS"	FALSE
"7610"	"LINC00977"	728724	"mskcc.org"	"GRCh37"	"8"	130252546	130252546	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.74+877G>T"	""	""	"ENST00000509893"	""	108	"75"	33	58	"58"	0	"LINC00977,intron_variant,,ENST00000509893,;"	"A"	"ENSG00000250400"	"ENST00000509893"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1163"	""	""	""	""	""	"1"	NA	-1	"LINC00977"	"HGNC"	48902	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"788375e4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305555555555556	"WGS"	FALSE
"7611"	"ASAP1"	50807	"mskcc.org"	"GRCh37"	"8"	131430883	131430883	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-27-16667T>A"	""	""	"ENST00000518721"	""	122	"87"	35	55	"55"	0	"ASAP1,intron_variant,,ENST00000518721,NM_001247996.1,NM_018482.3;ASAP1,intron_variant,,ENST00000520927,;ASAP1,intron_variant,,ENST00000524299,;"	"T"	"ENSG00000153317"	"ENST00000518721"	"Transcript"	"intron_variant"	"-/5507"	"-/3390"	"-/1129"	""	""	""	"1"	NA	-1	"ASAP1"	"HGNC"	2720	"protein_coding"	""	"CCDS6362.1"	"ENSP00000429900"	"Q9ULH1"	"E5RFD9"	"UPI0000351D6E"	"NM_001247996.1,NM_018482.3"	""	""	""	"1/29"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7883dcfa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.286885245901639	"WGS"	FALSE
"7612"	"KB-1568E2.1"	0	"mskcc.org"	"GRCh37"	"8"	131652160	131652160	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.154+15645C>A"	""	""	"ENST00000523502"	""	84	"55"	29	54	"54"	0	"KB-1568E2.1,intron_variant,,ENST00000523502,;"	"T"	"ENSG00000253656"	"ENST00000523502"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2072"	""	""	""	""	""	"1"	NA	-1	"KB-1568E2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"78840176-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.345238095238095	"WGS"	FALSE
"7613"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	132649653	132649653	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"rs545493687"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"61"	8	27	"27"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs545493687"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0036"	"C:0.0083"	"C:0.0029"	NA	"C:0"	"C:0.005"	"C:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"78843b96-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115942028985507	"WGS"	FALSE
"7614"	"LRRC6"	23639	"mskcc.org"	"GRCh37"	"8"	133686531	133686531	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.10+1199C>G"	""	""	"ENST00000250173"	""	88	"65"	23	39	"39"	0	"LRRC6,intron_variant,,ENST00000519595,NM_012472.4;LRRC6,intron_variant,,ENST00000518642,;LRRC6,intron_variant,,ENST00000250173,;LRRC6,intron_variant,,ENST00000520446,;LRRC6,intron_variant,,ENST00000518101,;LRRC6,intron_variant,,ENST00000523503,;LRRC6,intron_variant,,ENST00000521430,;LRRC6,intron_variant,,ENST00000522584,;"	"C"	"ENSG00000129295"	"ENST00000250173"	"Transcript"	"intron_variant"	"-/1580"	"-/1401"	"-/466"	""	""	""	"1"	NA	-1	"LRRC6"	"HGNC"	16725	"protein_coding"	"YES"	"CCDS6365.1"	"ENSP00000250173"	"Q86X45"	""	"UPI000000DBC5"	""	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"78849262-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261363636363636	"WGS"	FALSE
"7615"	"ENSR00001445851"	0	"mskcc.org"	"GRCh37"	"8"	134159273	134159273	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001445851"	""	78	"51"	27	54	"54"	0	""	"C"	""	"ENSR00001445851"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"7884ac0c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"7616"	"ENSR00001445858"	0	"mskcc.org"	"GRCh37"	"8"	134188412	134188412	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001445858"	""	70	"56"	14	54	"54"	0	""	"C"	""	"ENSR00001445858"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"7884ad1a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"7617"	"RP11-513H8.1"	0	"mskcc.org"	"GRCh37"	"8"	135255985	135255985	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.85-31536T>C"	""	""	"ENST00000523317"	""	35	"30"	5	8	"8"	0	"RP11-513H8.1,intron_variant,,ENST00000523317,;"	"G"	"ENSG00000253627"	"ENST00000523317"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/426"	""	""	""	""	""	"1"	NA	-1	"RP11-513H8.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"78854f54-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"7618"	"RP11-513H8.1"	0	"mskcc.org"	"GRCh37"	"8"	135330222	135330222	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.84+2385G>A"	""	""	"ENST00000523317"	""	117	"87"	30	58	"58"	0	"RP11-513H8.1,intron_variant,,ENST00000523317,;"	"T"	"ENSG00000253627"	"ENST00000523317"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/426"	""	""	""	""	""	"1"	NA	-1	"RP11-513H8.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"78855922-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256410256410256	"WGS"	FALSE
"7619"	"ZFAT"	57623	"mskcc.org"	"GRCh37"	"8"	135643454	135643454	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.448+6250G>T"	""	""	"ENST00000377838"	""	120	"84"	36	71	"71"	0	"ZFAT,intron_variant,,ENST00000520727,NM_001029939.3;ZFAT,intron_variant,,ENST00000377838,NM_020863.3,NM_001174157.1;ZFAT,intron_variant,,ENST00000429442,;ZFAT,intron_variant,,ENST00000520214,NM_001167583.2;ZFAT,intron_variant,,ENST00000520356,NM_001174158.1;ZFAT,intron_variant,,ENST00000523399,;ZFAT,intron_variant,,ENST00000522257,;ZFAT,intron_variant,,ENST00000518191,;ZFAT,intron_variant,,ENST00000523040,;ZFAT,intron_variant,,ENST00000522974,;ZFAT,intron_variant,,ENST00000523243,;ZFAT,intron_variant,,ENST00000523924,;"	"A"	"ENSG00000066827"	"ENST00000377838"	"Transcript"	"intron_variant"	"-/4597"	"-/3732"	"-/1243"	""	""	""	"1"	NA	-1	"ZFAT"	"HGNC"	19899	"protein_coding"	"YES"	"CCDS47924.1"	"ENSP00000367069"	"Q9P243"	""	"UPI0000210061"	"NM_020863.3,NM_001174157.1"	""	""	""	"3/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7885aaee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"7620"	"RP11-30J20.1"	0	"mskcc.org"	"GRCh37"	"8"	137765654	137765654	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.292-36424A>T"	""	""	"ENST00000524346"	""	105	"96"	9	63	"63"	0	"RP11-30J20.1,intron_variant,,ENST00000524346,;RP11-30J20.1,intron_variant,,ENST00000517345,;"	"T"	"ENSG00000254101"	"ENST00000524346"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/706"	""	""	""	""	""	"1"	NA	1	"RP11-30J20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"78864ea4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"7621"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	138639280	138639280	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"94"	5	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7886a11a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0505050505050505	"WGS"	FALSE
"7622"	"FAM135B"	51059	"mskcc.org"	"GRCh37"	"8"	139171472	139171472	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1259-6013C>T"	""	""	"ENST00000395297"	""	61	"47"	14	37	"36"	1	"FAM135B,intron_variant,,ENST00000395297,NM_015912.3;FAM135B,intron_variant,,ENST00000482951,;FAM135B,intron_variant,,ENST00000276737,;"	"A"	"ENSG00000147724"	"ENST00000395297"	"Transcript"	"intron_variant"	"-/6962"	"-/4221"	"-/1406"	""	""	""	"1"	NA	-1	"FAM135B"	"HGNC"	28029	"protein_coding"	"YES"	"CCDS6375.2"	"ENSP00000378710"	"Q49AJ0"	"J3QSR3"	"UPI000057A0DB"	"NM_015912.3"	""	""	""	"12/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"7886cece-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229508196721311	"WGS"	FALSE
"7623"	"FAM135B"	51059	"mskcc.org"	"GRCh37"	"8"	139448734	139448734	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-20+60180A>T"	""	""	"ENST00000395297"	""	104	"75"	29	42	"42"	0	"FAM135B,intron_variant,,ENST00000395297,NM_015912.3;FAM135B,intron_variant,,ENST00000520380,;FAM135B,intron_variant,,ENST00000517849,;FAM135B,downstream_gene_variant,,ENST00000520283,;FAM135B,downstream_gene_variant,,ENST00000520954,;FAM135B,intron_variant,,ENST00000482951,;FAM135B,intron_variant,,ENST00000276737,;"	"A"	"ENSG00000147724"	"ENST00000395297"	"Transcript"	"intron_variant"	"-/6962"	"-/4221"	"-/1406"	""	""	""	"1"	NA	-1	"FAM135B"	"HGNC"	28029	"protein_coding"	"YES"	"CCDS6375.2"	"ENSP00000378710"	"Q49AJ0"	"J3QSR3"	"UPI000057A0DB"	"NM_015912.3"	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"7887296e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278846153846154	"WGS"	FALSE
"7624"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	139583765	139583765	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"72"	42	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"788738e6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.368421052631579	"WGS"	FALSE
"7625"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	140341409	140341409	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs193243523"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"66"	26	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs193243523"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"7887e1ec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282608695652174	"WGS"	FALSE
"7626"	"AGO2"	27161	"mskcc.org"	"GRCh37"	"8"	141572420	141572420	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.518+132G>A"	""	""	"ENST00000220592"	""	81	"60"	21	51	"51"	0	"AGO2,intron_variant,,ENST00000220592,NM_012154.3;AGO2,intron_variant,,ENST00000519980,NM_001164623.1;AGO2,intron_variant,,ENST00000523609,;"	"T"	"ENSG00000123908"	"ENST00000220592"	"Transcript"	"intron_variant"	"-/3572"	"-/2580"	"-/859"	""	""	""	"1"	NA	-1	"AGO2"	"HGNC"	3263	"protein_coding"	"YES"	"CCDS6380.1"	"ENSP00000220592"	"Q9UKV8"	"E5RJY2"	"UPI0000168652"	"NM_012154.3"	""	""	""	"4/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7888a21c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259259259259259	"WGS"	FALSE
"7627"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	142119793	142119793	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"74"	7	39	"39"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"7888e1aa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"7628"	"SLC45A4"	57210	"mskcc.org"	"GRCh37"	"8"	142213393	142213393	"+"	"3'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000519067"	""	12	"8"	4	10	"10"	0	"SLC45A4,downstream_gene_variant,,ENST00000519067,NM_001286648.1;"	"G"	"ENSG00000022567"	"ENST00000519067"	"Transcript"	"downstream_gene_variant"	"-/7483"	"-/2154"	"-/717"	""	""	""	"1"	"3872"	-1	"SLC45A4"	"HGNC"	29196	"protein_coding"	""	"CCDS69550.1"	"ENSP00000429059"	"Q5BKX6"	"E5RJM7"	"UPI00001D825C"	"NM_001286648.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"7888f08c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"7629"	"SLC45A4"	57210	"mskcc.org"	"GRCh37"	"8"	142213401	142213401	"+"	"3'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000519067"	""	14	"10"	4	11	"11"	0	"SLC45A4,downstream_gene_variant,,ENST00000519067,NM_001286648.1;"	"G"	"ENSG00000022567"	"ENST00000519067"	"Transcript"	"downstream_gene_variant"	"-/7483"	"-/2154"	"-/717"	""	""	""	"1"	"3864"	-1	"SLC45A4"	"HGNC"	29196	"protein_coding"	""	"CCDS69550.1"	"ENSP00000429059"	"Q5BKX6"	"E5RJM7"	"UPI00001D825C"	"NM_001286648.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"7888f19a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"7630"	"BAI1"	575	"mskcc.org"	"GRCh37"	"8"	143554464	143554464	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.785-2371C>A"	""	""	"ENST00000517894"	""	84	"56"	28	50	"50"	0	"BAI1,intron_variant,,ENST00000517894,;BAI1,intron_variant,,ENST00000323289,NM_001702.2;BAI1,intron_variant,,ENST00000521208,;"	"A"	"ENSG00000181790"	"ENST00000517894"	"Transcript"	"intron_variant"	"-/6241"	"-/4755"	"-/1584"	""	""	""	"1"	NA	1	"BAI1"	"HGNC"	943	"protein_coding"	"YES"	"CCDS64985.1"	"ENSP00000430945"	"O14514"	""	"UPI00002109E8"	""	""	""	""	"2/30"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"788bc2f8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"7631"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	143727073	143727073	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"80"	5	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"788c66b8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"7632"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	146041617	146041617	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs549487507"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"67"	6	28	"28"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs549487507"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0004"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.002"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"788f85d2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"7633"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	146041623	146041623	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"67"	6	33	"33"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"788f86d6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"7634"	"RP11-143M1.7"	0	"mskcc.org"	"GRCh37"	"9"	54325	54325	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.181-1711C>A"	""	""	"ENST00000438175"	""	15	"11"	4	8	"8"	0	"RP11-143M1.7,intron_variant,,ENST00000438175,;"	"T"	"ENSG00000144140"	"ENST00000438175"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/343"	""	""	""	""	""	"1"	NA	-1	"RP11-143M1.7"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"789015e2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"7635"	"VLDLR"	7436	"mskcc.org"	"GRCh37"	"9"	2646614	2646614	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1703+62T>G"	""	""	"ENST00000382100"	""	111	"77"	34	52	"52"	0	"VLDLR,intron_variant,,ENST00000382100,NM_003383.3;VLDLR,intron_variant,,ENST00000382099,NM_001018056.1;VLDLR,downstream_gene_variant,,ENST00000382096,;VLDLR,intron_variant,,ENST00000478776,;"	"G"	"ENSG00000147852"	"ENST00000382100"	"Transcript"	"intron_variant"	"-/9163"	"-/2622"	"-/873"	""	""	""	"1"	NA	1	"VLDLR"	"HGNC"	12698	"protein_coding"	"YES"	"CCDS6446.1"	"ENSP00000371532"	"P98155"	""	"UPI0000055935"	"NM_003383.3"	""	""	""	"11/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"78914d5e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306306306306306	"WGS"	FALSE
"7636"	"KCNV2"	169522	"mskcc.org"	"GRCh37"	"9"	2722166	2722166	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1356+3071T>A"	""	""	"ENST00000382082"	""	113	"107"	6	71	"71"	0	"KCNV2,intron_variant,,ENST00000382082,NM_133497.3;KIAA0020,intron_variant,,ENST00000490444,;"	"A"	"ENSG00000168263"	"ENST00000382082"	"Transcript"	"intron_variant"	"-/2186"	"-/1638"	"-/545"	""	""	""	"1"	NA	1	"KCNV2"	"HGNC"	19698	"protein_coding"	"YES"	"CCDS6447.1"	"ENSP00000371514"	"Q8TDN2"	""	"UPI0000048D8E"	"NM_133497.3"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"78915682-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0530973451327434	"WGS"	FALSE
"7637"	"GLIS3"	169792	"mskcc.org"	"GRCh37"	"9"	4335987	4335987	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.264+11094C>G"	""	""	"ENST00000471664"	""	78	"50"	28	60	"60"	0	"GLIS3,intron_variant,,ENST00000471664,;"	"C"	"ENSG00000107249"	"ENST00000471664"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1569"	""	""	""	""	""	"1"	NA	-1	"GLIS3"	"HGNC"	28510	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"7891c522-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358974358974359	"WGS"	FALSE
"7638"	"SLC1A1"	6505	"mskcc.org"	"GRCh37"	"9"	4518663	4518663	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.92-25904C>T"	""	""	"ENST00000262352"	""	101	"73"	28	69	"69"	0	"SLC1A1,intron_variant,,ENST00000262352,NM_004170.5;"	"T"	"ENSG00000106688"	"ENST00000262352"	"Transcript"	"intron_variant"	"-/3722"	"-/1575"	"-/524"	""	""	""	"1"	NA	1	"SLC1A1"	"HGNC"	10939	"protein_coding"	"YES"	"CCDS6452.1"	"ENSP00000262352"	"P43005"	""	"UPI0000129B16"	"NM_004170.5"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"7891d7ce-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277227722772277	"WGS"	FALSE
"7639"	"KIAA1432"	57589	"mskcc.org"	"GRCh37"	"9"	5701082	5701082	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.332+11044G>T"	""	""	"ENST00000414202"	""	99	"67"	32	63	"63"	0	"KIAA1432,intron_variant,,ENST00000414202,NM_001206557.1,NM_020829.3;KIAA1432,intron_variant,,ENST00000418622,;KIAA1432,intron_variant,,ENST00000251879,NM_001135920.2;KIAA1432,intron_variant,,ENST00000449720,;KIAA1432,intron_variant,,ENST00000545641,;KIAA1432,intron_variant,,ENST00000381532,;"	"T"	"ENSG00000107036"	"ENST00000414202"	"Transcript"	"intron_variant"	"-/6774"	"-/4272"	"-/1423"	""	""	""	"1"	NA	1	"KIAA1432"	"HGNC"	17686	"protein_coding"	"YES"	"CCDS34982.2"	"ENSP00000416696"	"Q4ADV7"	""	"UPI00002110DE"	"NM_001206557.1,NM_020829.3"	""	""	""	"3/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"789276fc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323232323232323	"WGS"	FALSE
"7640"	"GLDC"	2731	"mskcc.org"	"GRCh37"	"9"	6534583	6534583	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2919+125C>T"	""	""	"ENST00000321612"	""	125	"87"	38	60	"60"	0	"GLDC,intron_variant,,ENST00000321612,NM_000170.2;GLDC,intron_variant,,ENST00000477960,;"	"A"	"ENSG00000178445"	"ENST00000321612"	"Transcript"	"intron_variant"	"-/3767"	"-/3063"	"-/1020"	""	""	""	"1"	NA	-1	"GLDC"	"HGNC"	4313	"protein_coding"	"YES"	"CCDS34987.1"	"ENSP00000370737"	"P23378"	""	"UPI0000684276"	"NM_000170.2"	""	""	""	"24/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"7892dade-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304	"WGS"	FALSE
"7641"	"PTPRD"	5789	"mskcc.org"	"GRCh37"	"9"	9871704	9871704	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-368+66803A>T"	""	""	"ENST00000381196"	""	102	"89"	13	43	"43"	0	"PTPRD,intron_variant,,ENST00000381196,NM_002839.3;PTPRD,intron_variant,,ENST00000463477,;"	"A"	"ENSG00000153707"	"ENST00000381196"	"Transcript"	"intron_variant"	"-/9911"	"-/5739"	"-/1912"	""	""	""	"1"	NA	-1	"PTPRD"	"HGNC"	9668	"protein_coding"	"YES"	"CCDS43786.1"	"ENSP00000370593"	"P23468"	"C9J6E4,B4DK48"	"UPI0000132990"	"NM_002839.3"	""	""	""	"2/42"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"789408a0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127450980392157	"WGS"	FALSE
"7642"	"PTPRD"	5789	"mskcc.org"	"GRCh37"	"9"	10285903	10285903	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs540454426"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-617+55060G>A"	""	""	"ENST00000463477"	""	97	"75"	22	51	"51"	0	"PTPRD,intron_variant,,ENST00000463477,;"	"T"	"ENSG00000153707"	"ENST00000463477"	"Transcript"	"intron_variant"	"-/1697"	"-/609"	"-/202"	""	""	"rs540454426"	"1"	NA	-1	"PTPRD"	"HGNC"	9668	"protein_coding"	""	""	"ENSP00000417661"	""	"C9J8S8,C9J6E4"	"UPI0000211125"	""	""	""	""	"3/16"	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7894279a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22680412371134	"WGS"	FALSE
"7643"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	13867375	13867375	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"61"	36	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"7895690c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.371134020618557	"WGS"	FALSE
"7644"	"CCDC171"	203238	"mskcc.org"	"GRCh37"	"9"	16005681	16005681	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.369-14906C>G"	""	""	"ENST00000486641"	""	103	"80"	23	45	"45"	0	"CCDC171,intron_variant,,ENST00000486641,;"	"G"	"ENSG00000164989"	"ENST00000486641"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2322"	""	""	""	""	""	"1"	NA	1	"CCDC171"	"HGNC"	29828	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"78964c78-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223300970873786	"WGS"	FALSE
"7645"	"BNC2"	54796	"mskcc.org"	"GRCh37"	"9"	16618384	16618384	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.331-35301G>A"	""	""	"ENST00000380672"	""	83	"58"	25	54	"54"	0	"BNC2,intron_variant,,ENST00000380672,NM_017637.5;BNC2,intron_variant,,ENST00000418777,;BNC2,intron_variant,,ENST00000380667,;BNC2,intron_variant,,ENST00000545497,;BNC2,intron_variant,,ENST00000380666,;BNC2,intron_variant,,ENST00000603713,;BNC2,intron_variant,,ENST00000471301,;BNC2,intron_variant,,ENST00000486514,;BNC2,intron_variant,,ENST00000468187,;BNC2,intron_variant,,ENST00000603313,;BNC2,intron_variant,,ENST00000484726,;"	"T"	"ENSG00000173068"	"ENST00000380672"	"Transcript"	"intron_variant"	"-/12844"	"-/3300"	"-/1099"	""	""	""	"1"	NA	-1	"BNC2"	"HGNC"	30988	"protein_coding"	"YES"	"CCDS6482.2"	"ENSP00000370047"	"Q6ZN30"	"S4R351,Q06HC7,Q06HC2,Q06HB9,D3DRJ1"	"UPI000035E7B0"	"NM_017637.5"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"789675ae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301204819277108	"WGS"	FALSE
"7646"	"ADAMTSL1"	92949	"mskcc.org"	"GRCh37"	"9"	18506458	18506458	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.191+1504C>T"	""	""	"ENST00000380548"	""	108	"69"	39	55	"55"	0	"ADAMTSL1,intron_variant,,ENST00000380548,NM_001040272.5;ADAMTSL1,intron_variant,,ENST00000276935,;ADAMTSL1,intron_variant,,ENST00000380566,;ADAMTSL1,intron_variant,,ENST00000327883,NM_052866.4;ADAMTSL1,intron_variant,,ENST00000380570,;ADAMTSL1,intron_variant,,ENST00000431052,;"	"T"	"ENSG00000178031"	"ENST00000380548"	"Transcript"	"intron_variant"	"-/8030"	"-/5289"	"-/1762"	""	""	""	"1"	NA	1	"ADAMTSL1"	"HGNC"	14632	"protein_coding"	"YES"	"CCDS47954.1"	"ENSP00000369921"	"Q8N6G6"	"H7BYE3"	"UPI000004FD83"	"NM_001040272.5"	""	""	""	"2/28"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"78973638-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.361111111111111	"WGS"	FALSE
"7647"	"FAM154A"	158297	"mskcc.org"	"GRCh37"	"9"	19007743	19007743	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.38+25126T>G"	""	""	"ENST00000380534"	""	94	"89"	5	54	"54"	0	"FAM154A,intron_variant,,ENST00000380534,NM_153707.2,NM_001287049.1;FAM154A,intron_variant,,ENST00000380530,NM_001287050.1;FAM154A,intron_variant,,ENST00000542071,NM_001287050.1;FAM154A,intron_variant,,ENST00000583128,;"	"C"	"ENSG00000155875"	"ENST00000380534"	"Transcript"	"intron_variant"	"-/2099"	"-/1425"	"-/474"	""	""	""	"1"	NA	-1	"FAM154A"	"HGNC"	28566	"protein_coding"	"YES"	"CCDS6487.1"	"ENSP00000369907"	"Q8IYX7"	"F6S232"	"UPI0000367609"	"NM_153707.2,NM_001287049.1"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"789772e2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0531914893617021	"WGS"	FALSE
"7648"	"PLIN2"	123	"mskcc.org"	"GRCh37"	"9"	19152847	19152847	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000434144"	""	73	"67"	6	35	"35"	0	"PLIN2,upstream_gene_variant,,ENST00000434144,;PLIN2,upstream_gene_variant,,ENST00000494753,;"	"T"	"ENSG00000147872"	"ENST00000434144"	"Transcript"	"upstream_gene_variant"	"-/623"	"-/375"	"-/125"	""	""	""	"1"	"3571"	-1	"PLIN2"	"HGNC"	248	"protein_coding"	""	""	"ENSP00000403421"	""	"Q5SYF5"	"UPI00004701C5"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"78978e26-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"7649"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	19814974	19814974	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"71"	28	63	"62"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7897e858-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282828282828283	"WGS"	FALSE
"7650"	"MLLT3"	4300	"mskcc.org"	"GRCh37"	"9"	20403446	20403446	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1125+10273C>A"	""	""	"ENST00000380338"	""	103	"72"	31	49	"49"	0	"MLLT3,intron_variant,,ENST00000380338,NM_004529.2;MLLT3,intron_variant,,ENST00000355930,;MLLT3,intron_variant,,ENST00000429426,NM_001286691.1;MLLT3,intron_variant,,ENST00000475957,;MLLT3,intron_variant,,ENST00000468513,;"	"T"	"ENSG00000171843"	"ENST00000380338"	"Transcript"	"intron_variant"	"-/6772"	"-/1707"	"-/568"	""	""	""	"1"	NA	-1	"MLLT3"	"HGNC"	7136	"protein_coding"	"YES"	"CCDS6494.1"	"ENSP00000369695"	"P42568"	"Q6LEQ8,B1APT5"	"UPI00002111CB"	"NM_004529.2"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"78980842-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.300970873786408	"WGS"	TRUE
"7651"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	21122009	21122009	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"76"	35	62	"62"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"78985306-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315315315315315	"WGS"	FALSE
"7652"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	24669957	24669957	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"113"	7	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"78992ede-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0583333333333333	"WGS"	FALSE
"7653"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	26724764	26724764	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"82"	20	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7899c402-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196078431372549	"WGS"	FALSE
"7654"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	29049035	29049035	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"58"	24	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"789a7bfe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292682926829268	"WGS"	FALSE
"7655"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	31406436	31406436	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"62"	30	50	"50"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"789b1884-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326086956521739	"WGS"	FALSE
"7656"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	32196064	32196064	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"85"	33	64	"64"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"789b6154-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279661016949153	"WGS"	FALSE
"7657"	"RP11-555J4.4"	0	"mskcc.org"	"GRCh37"	"9"	32650857	32650857	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000430787"	""	91	"60"	31	45	"45"	0	"RP11-555J4.4,downstream_gene_variant,,ENST00000430787,;"	"A"	"ENSG00000223440"	"ENST00000430787"	"Transcript"	"downstream_gene_variant"	"-/2582"	""	""	""	""	""	"1"	"2174"	1	"RP11-555J4.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"789b8e40-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340659340659341	"WGS"	FALSE
"7658"	"RECK"	8434	"mskcc.org"	"GRCh37"	"9"	36095847	36095847	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1086-4481C>T"	""	""	"ENST00000377966"	""	93	"86"	7	44	"44"	0	"RECK,intron_variant,,ENST00000377966,NM_021111.2;"	"T"	"ENSG00000122707"	"ENST00000377966"	"Transcript"	"intron_variant"	"-/4888"	"-/2916"	"-/971"	""	""	""	"1"	NA	1	"RECK"	"HGNC"	11345	"protein_coding"	"YES"	"CCDS6597.1"	"ENSP00000367202"	"O95980"	""	"UPI0000133587"	"NM_021111.2"	""	""	""	"10/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"789d393e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"7659"	"ZCCHC7"	84186	"mskcc.org"	"GRCh37"	"9"	37218213	37218213	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"rs757988271"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.611-83972A>T"	""	""	"ENST00000336755"	""	91	"69"	22	55	"55"	0	"ZCCHC7,intron_variant,,ENST00000336755,NM_032226.2;ZCCHC7,intron_variant,,ENST00000534928,;ZCCHC7,intron_variant,,ENST00000461038,;ZCCHC7,intron_variant,,ENST00000488607,;"	"T"	"ENSG00000147905"	"ENST00000336755"	"Transcript"	"intron_variant"	"-/2619"	"-/1632"	"-/543"	""	""	"rs757988271"	"1"	NA	1	"ZCCHC7"	"HGNC"	26209	"protein_coding"	"YES"	"CCDS6608.2"	"ENSP00000337839"	"Q8N3Z6"	"B4E024"	"UPI0000036027"	"NM_032226.2"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"789de870-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241758241758242	"WGS"	FALSE
"7660"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	44415770	44415770	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"78"	25	80	"80"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"78a2719c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242718446601942	"WGS"	FALSE
"7661"	"RP11-318K12.1"	0	"mskcc.org"	"GRCh37"	"9"	66706853	66706853	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.812+1587G>C"	""	""	"ENST00000414366"	""	109	"84"	25	47	"47"	0	"RP11-318K12.1,intron_variant,,ENST00000414366,;"	"G"	"ENSG00000228991"	"ENST00000414366"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1452"	""	""	""	""	""	"1"	NA	-1	"RP11-318K12.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"78a95dae-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229357798165138	"WGS"	FALSE
"7662"	"AL353763.1"	0	"mskcc.org"	"GRCh37"	"9"	69004323	69004323	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000459317"	""	69	"61"	8	38	"38"	0	"AL353763.1,upstream_gene_variant,,ENST00000459317,;MIR1299,upstream_gene_variant,,ENST00000459575,;"	"C"	"ENSG00000238919"	"ENST00000459317"	"Transcript"	"upstream_gene_variant"	"-/83"	""	""	""	""	""	"1"	"2242"	-1	"AL353763.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"78b0fd52-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115942028985507	"WGS"	FALSE
"7663"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	69348701	69348701	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	186	"160"	26	117	"117"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"78b261e2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.139784946236559	"WGS"	FALSE
"7664"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	69530628	69530628	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	167	"134"	33	78	"78"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"78b2fa6c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197604790419162	"WGS"	FALSE
"7665"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	69755925	69755925	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"16"	3	14	"14"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"78b3477e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"7666"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	69860869	69860869	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"16"	3	11	"11"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"78b3c410-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"7667"	"PIP5K1B"	8395	"mskcc.org"	"GRCh37"	"9"	71470567	71470567	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.70-8186A>G"	""	""	"ENST00000265382"	""	97	"64"	33	49	"49"	0	"PIP5K1B,intron_variant,,ENST00000265382,NM_003558.3;PIP5K1B,intron_variant,,ENST00000541509,NM_001278253.1;PIP5K1B,intron_variant,,ENST00000440050,;PIP5K1B,intron_variant,,ENST00000437200,;PIP5K1B,intron_variant,,ENST00000377284,;PIP5K1B,intron_variant,,ENST00000478500,;"	"G"	"ENSG00000107242"	"ENST00000265382"	"Transcript"	"intron_variant"	"-/2654"	"-/1623"	"-/540"	""	""	""	"1"	NA	1	"PIP5K1B"	"HGNC"	8995	"protein_coding"	"YES"	"CCDS6624.1"	"ENSP00000265382"	"O14986"	"Q7KYT6,Q7KYT4,B4DIG7"	"UPI000002E327"	"NM_003558.3"	""	""	""	"4/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"78b5127a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34020618556701	"WGS"	FALSE
"7668"	"RP11-265B8.5"	0	"mskcc.org"	"GRCh37"	"9"	71723428	71723428	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000605734"	""	82	"76"	6	41	"41"	0	"RP11-265B8.5,upstream_gene_variant,,ENST00000605734,;"	"C"	"ENSG00000270236"	"ENST00000605734"	"Transcript"	"upstream_gene_variant"	"-/292"	""	""	""	""	""	"1"	"295"	-1	"RP11-265B8.5"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"78b52c56-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"7669"	"FAM189A2"	9413	"mskcc.org"	"GRCh37"	"9"	72010805	72010805	"+"	"3'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000257515"	""	84	"54"	30	59	"59"	0	"FAM189A2,downstream_gene_variant,,ENST00000257515,NM_004816.3;FAM189A2,downstream_gene_variant,,ENST00000455972,NM_001127608.1;FAM189A2,downstream_gene_variant,,ENST00000303068,;FAM189A2,downstream_gene_variant,,ENST00000377216,;FAM189A2,downstream_gene_variant,,ENST00000469179,;FAM189A2,downstream_gene_variant,,ENST00000460871,;"	"T"	"ENSG00000135063"	"ENST00000257515"	"Transcript"	"downstream_gene_variant"	"-/2423"	"-/1353"	"-/450"	""	""	""	"1"	"3435"	1	"FAM189A2"	"HGNC"	24820	"protein_coding"	"YES"	"CCDS6629.1"	"ENSP00000257515"	"Q15884"	""	"UPI000022D765"	"NM_004816.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"78b55faa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WGS"	FALSE
"7670"	"ENSR00001471009"	0	"mskcc.org"	"GRCh37"	"9"	72612539	72612539	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001471009"	""	95	"73"	22	59	"59"	0	""	"A"	""	"ENSR00001471009"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"78b59510-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231578947368421	"WGS"	FALSE
"7671"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	76952691	76952691	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"82"	25	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"78b76d54-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233644859813084	"WGS"	FALSE
"7672"	"PCSK5"	5125	"mskcc.org"	"GRCh37"	"9"	78606238	78606238	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.411+5077C>T"	""	""	"ENST00000545128"	""	90	"61"	29	54	"54"	0	"PCSK5,intron_variant,,ENST00000545128,NM_001190482.1;PCSK5,intron_variant,,ENST00000376752,NM_006200.3;PCSK5,intron_variant,,ENST00000376767,;"	"T"	"ENSG00000099139"	"ENST00000545128"	"Transcript"	"intron_variant"	"-/9538"	"-/5583"	"-/1860"	""	""	""	"1"	NA	1	"PCSK5"	"HGNC"	8747	"protein_coding"	"YES"	"CCDS55320.1"	"ENSP00000446280"	"Q92824"	"I0EZ71"	"UPI0001DAD817"	"NM_001190482.1"	""	""	""	"3/36"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"78b80052-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322222222222222	"WGS"	FALSE
"7673"	"PCSK5"	5125	"mskcc.org"	"GRCh37"	"9"	78615386	78615386	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.411+14225G>A"	""	""	"ENST00000545128"	""	119	"86"	33	59	"59"	0	"PCSK5,intron_variant,,ENST00000545128,NM_001190482.1;PCSK5,intron_variant,,ENST00000376752,NM_006200.3;PCSK5,intron_variant,,ENST00000376767,;"	"A"	"ENSG00000099139"	"ENST00000545128"	"Transcript"	"intron_variant"	"-/9538"	"-/5583"	"-/1860"	""	""	""	"1"	NA	1	"PCSK5"	"HGNC"	8747	"protein_coding"	"YES"	"CCDS55320.1"	"ENSP00000446280"	"Q92824"	"I0EZ71"	"UPI0001DAD817"	"NM_001190482.1"	""	""	""	"3/36"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"78b8017e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277310924369748	"WGS"	FALSE
"7674"	"GCNT1"	2650	"mskcc.org"	"GRCh37"	"9"	79105678	79105678	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"rs151334482"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-289-10154A>T"	""	""	"ENST00000442371"	""	123	"116"	7	54	"54"	0	"GCNT1,intron_variant,,ENST00000442371,NM_001097634.1;GCNT1,intron_variant,,ENST00000376730,NM_001490.4,NM_001097636.1;GCNT1,intron_variant,,ENST00000444201,NM_001097633.1,NM_001097635.1;GCNT1,intron_variant,,ENST00000536223,;GCNT1,intron_variant,,ENST00000488136,;GCNT1,intron_variant,,ENST00000480311,;"	"T"	"ENSG00000187210"	"ENST00000442371"	"Transcript"	"intron_variant"	"-/5972"	"-/1287"	"-/428"	""	""	"rs151334482"	"1"	NA	1	"GCNT1"	"HGNC"	4203	"protein_coding"	"YES"	"CCDS6653.1"	"ENSP00000415454"	"Q02742"	""	"UPI000013CF63"	"NM_001097634.1"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"78b82e56-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0569105691056911	"WGS"	FALSE
"7675"	"GNAQ"	2776	"mskcc.org"	"GRCh37"	"9"	80377098	80377098	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.735+32281G>A"	""	""	"ENST00000286548"	""	46	"34"	12	8	"8"	0	"GNAQ,intron_variant,,ENST00000286548,NM_002072.3;GNAQ,intron_variant,,ENST00000397476,;"	"T"	"ENSG00000156052"	"ENST00000286548"	"Transcript"	"intron_variant"	"-/6539"	"-/1080"	"-/359"	""	""	""	"1"	NA	-1	"GNAQ"	"HGNC"	4390	"protein_coding"	"YES"	"CCDS6658.1"	"ENSP00000286548"	"P50148"	"G3V1P7"	"UPI000006D0FB"	"NM_002072.3"	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"78b8b4ca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	TRUE
"7676"	"GNAQ"	2776	"mskcc.org"	"GRCh37"	"9"	80552283	80552283	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.137-15022A>C"	""	""	"ENST00000286548"	""	99	"93"	6	40	"40"	0	"GNAQ,intron_variant,,ENST00000286548,NM_002072.3;GNAQ,intron_variant,,ENST00000411677,;"	"G"	"ENSG00000156052"	"ENST00000286548"	"Transcript"	"intron_variant"	"-/6539"	"-/1080"	"-/359"	""	""	""	"1"	NA	-1	"GNAQ"	"HGNC"	4390	"protein_coding"	"YES"	"CCDS6658.1"	"ENSP00000286548"	"P50148"	"G3V1P7"	"UPI000006D0FB"	"NM_002072.3"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"78b8c8c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	TRUE
"7677"	"TLE4"	7091	"mskcc.org"	"GRCh37"	"9"	82218320	82218320	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.253-9251G>A"	""	""	"ENST00000376552"	""	106	"79"	27	55	"55"	0	"TLE4,intron_variant,,ENST00000376520,;TLE4,intron_variant,,ENST00000376544,NM_001282753.1;TLE4,intron_variant,,ENST00000376552,NM_007005.3;TLE4,intron_variant,,ENST00000376534,;TLE4,intron_variant,,ENST00000376537,NM_001282748.1;TLE4,intron_variant,,ENST00000265284,NM_001282749.1;TLE4,intron_variant,,ENST00000428713,;TLE4,intron_variant,,ENST00000435650,;TLE4,intron_variant,,ENST00000425506,;TLE4,intron_variant,,ENST00000414465,;TLE4,intron_variant,,ENST00000455913,;TLE4,intron_variant,,ENST00000496853,;TLE4,intron_variant,,ENST00000474519,;TLE4,intron_variant,,ENST00000483597,;TLE4,intron_variant,,ENST00000470872,;TLE4,intron_variant,,ENST00000462803,;TLE4,intron_variant,,ENST00000485159,;TLE4,intron_variant,,ENST00000466428,;"	"A"	"ENSG00000106829"	"ENST00000376552"	"Transcript"	"intron_variant"	"-/3695"	"-/2322"	"-/773"	""	""	""	"1"	NA	1	"TLE4"	"HGNC"	11840	"protein_coding"	"YES"	"CCDS43837.1"	"ENSP00000365735"	"Q04727"	"B3KQ29"	"UPI00001CE3BA"	"NM_007005.3"	""	""	""	"4/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"78b95a10-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254716981132075	"WGS"	FALSE
"7678"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	82612711	82612711	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"60"	24	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"78b97e96-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"7679"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	83011801	83011801	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"76"	25	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"78b9a196-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247524752475248	"WGS"	FALSE
"7680"	"FRMD3"	257019	"mskcc.org"	"GRCh37"	"9"	86148505	86148505	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.147+4495C>T"	""	""	"ENST00000304195"	""	108	"69"	39	45	"45"	0	"FRMD3,intron_variant,,ENST00000304195,NM_001244960.1,NM_174938.5;FRMD3,intron_variant,,ENST00000376438,NM_001244959.1;"	"A"	"ENSG00000172159"	"ENST00000304195"	"Transcript"	"intron_variant"	"-/5297"	"-/1794"	"-/597"	""	""	""	"1"	NA	-1	"FRMD3"	"HGNC"	24125	"protein_coding"	"YES"	"CCDS43840.1"	"ENSP00000303508"	"A2A2Y4"	""	"UPI000066DA57"	"NM_001244960.1,NM_174938.5"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"78bb0aea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.361111111111111	"WGS"	FALSE
"7681"	"C9orf64"	84267	"mskcc.org"	"GRCh37"	"9"	86562911	86562911	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.598-3007G>A"	""	""	"ENST00000376344"	""	46	"36"	10	34	"33"	1	"C9orf64,intron_variant,,ENST00000376344,NM_032307.3;C9orf64,intron_variant,,ENST00000314700,;"	"T"	"ENSG00000165118"	"ENST00000376344"	"Transcript"	"intron_variant"	"-/2443"	"-/1026"	"-/341"	""	""	""	"1"	NA	-1	"C9orf64"	"HGNC"	28144	"protein_coding"	"YES"	"CCDS6666.2"	"ENSP00000365522"	"Q5T6V5"	"Q5T6V7"	"UPI000013E45E"	"NM_032307.3"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"78bb412c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"7682"	"C9orf64"	84267	"mskcc.org"	"GRCh37"	"9"	86570031	86570031	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.597+265A>G"	""	""	"ENST00000376344"	""	101	"91"	10	32	"32"	0	"C9orf64,intron_variant,,ENST00000376344,NM_032307.3;C9orf64,intron_variant,,ENST00000314700,;C9orf64,intron_variant,,ENST00000376340,;"	"C"	"ENSG00000165118"	"ENST00000376344"	"Transcript"	"intron_variant"	"-/2443"	"-/1026"	"-/341"	""	""	""	"1"	NA	-1	"C9orf64"	"HGNC"	28144	"protein_coding"	"YES"	"CCDS6666.2"	"ENSP00000365522"	"Q5T6V5"	"Q5T6V7"	"UPI000013E45E"	"NM_032307.3"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"78bb4320-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.099009900990099	"WGS"	FALSE
"7683"	"RP11-350E12.4"	0	"mskcc.org"	"GRCh37"	"9"	90683078	90683078	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000442490"	""	88	"81"	7	44	"44"	0	"RP11-350E12.4,downstream_gene_variant,,ENST00000442490,;"	"C"	"ENSG00000225385"	"ENST00000442490"	"Transcript"	"downstream_gene_variant"	"-/417"	""	""	""	""	""	"1"	"126"	1	"RP11-350E12.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"78bd20b4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0795454545454545	"WGS"	FALSE
"7684"	"SHC3"	53358	"mskcc.org"	"GRCh37"	"9"	91777111	91777111	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.474+15791G>A"	""	""	"ENST00000375835"	""	90	"64"	26	45	"45"	0	"SHC3,intron_variant,,ENST00000375835,NM_016848.5;SHC3,intron_variant,,ENST00000375830,;"	"T"	"ENSG00000148082"	"ENST00000375835"	"Transcript"	"intron_variant"	"-/2394"	"-/1785"	"-/594"	""	""	""	"1"	NA	-1	"SHC3"	"HGNC"	18181	"protein_coding"	"YES"	"CCDS6681.1"	"ENSP00000364995"	"Q92529"	""	"UPI0000073E1F"	"NM_016848.5"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"78bdcad2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288888888888889	"WGS"	FALSE
"7685"	"AUH"	549	"mskcc.org"	"GRCh37"	"9"	94116019	94116019	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.418+2146G>C"	""	""	"ENST00000375731"	""	73	"68"	5	41	"41"	0	"AUH,intron_variant,,ENST00000375731,NM_001698.2;AUH,intron_variant,,ENST00000303617,;AUH,intron_variant,,ENST00000422391,;AUH,intron_variant,,ENST00000478465,;AUH,intron_variant,,ENST00000475023,;"	"G"	"ENSG00000148090"	"ENST00000375731"	"Transcript"	"intron_variant"	"-/1577"	"-/1020"	"-/339"	""	""	""	"1"	NA	-1	"AUH"	"HGNC"	890	"protein_coding"	"YES"	"CCDS6689.1"	"ENSP00000364883"	"Q13825"	""	"UPI0000072F64"	"NM_001698.2"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"78bf2ce2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0684931506849315	"WGS"	FALSE
"7686"	"BICD2"	23299	"mskcc.org"	"GRCh37"	"9"	95482159	95482159	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1063-295C>G"	""	""	"ENST00000356884"	""	90	"65"	25	59	"59"	0	"BICD2,intron_variant,,ENST00000356884,NM_001003800.1;BICD2,intron_variant,,ENST00000375512,NM_015250.3;"	"C"	"ENSG00000185963"	"ENST00000356884"	"Transcript"	"intron_variant"	"-/6427"	"-/2568"	"-/855"	""	""	""	"1"	NA	-1	"BICD2"	"HGNC"	17208	"protein_coding"	"YES"	"CCDS35064.1"	"ENSP00000349351"	"Q8TD16"	""	"UPI00001BBAF1"	"NM_001003800.1"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"78bfdb74-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"7687"	"TDRD7"	23424	"mskcc.org"	"GRCh37"	"9"	100211937	100211937	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.855+7780C>T"	""	""	"ENST00000355295"	""	103	"71"	32	46	"46"	0	"TDRD7,intron_variant,,ENST00000355295,NM_014290.2;TDRD7,intron_variant,,ENST00000422139,;"	"T"	"ENSG00000196116"	"ENST00000355295"	"Transcript"	"intron_variant"	"-/3834"	"-/3297"	"-/1098"	""	""	""	"1"	NA	1	"TDRD7"	"HGNC"	30831	"protein_coding"	"YES"	"CCDS6725.1"	"ENSP00000347444"	"Q8NHU6"	""	"UPI00002114B5"	"NM_014290.2"	""	""	""	"6/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"78c24134-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310679611650485	"WGS"	FALSE
"7688"	"TMOD1"	7111	"mskcc.org"	"GRCh37"	"9"	100275132	100275132	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-49+11047G>A"	""	""	"ENST00000259365"	""	110	"85"	25	51	"51"	0	"TMOD1,intron_variant,,ENST00000259365,NM_003275.3;TMOD1,intron_variant,,ENST00000395211,NM_001166116.1;RP11-244N9.6,non_coding_transcript_exon_variant,,ENST00000451595,;RP11-244N9.6,downstream_gene_variant,,ENST00000609957,;"	"A"	"ENSG00000136842"	"ENST00000259365"	"Transcript"	"intron_variant"	"-/3343"	"-/1080"	"-/359"	""	""	""	"1"	NA	1	"TMOD1"	"HGNC"	11871	"protein_coding"	"YES"	"CCDS6726.1"	"ENSP00000259365"	"P28289"	""	"UPI000013707E"	"NM_003275.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"78c246ac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"7689"	"RP11-86L19.2"	0	"mskcc.org"	"GRCh37"	"9"	107045519	107045519	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.140+1972C>A"	""	""	"ENST00000469756"	""	78	"59"	19	62	"62"	0	"RP11-86L19.2,intron_variant,,ENST00000469756,;"	"A"	"ENSG00000242111"	"ENST00000469756"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/969"	""	""	""	""	""	"1"	NA	1	"RP11-86L19.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"78c4553c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.243589743589744	"WGS"	FALSE
"7690"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	108580559	108580559	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"72"	27	56	"55"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"78c4f532-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"7691"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	111345831	111345831	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"76"	27	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"78c5f9f0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.262135922330097	"WGS"	FALSE
"7692"	"CTNNAL1"	8727	"mskcc.org"	"GRCh37"	"9"	111773915	111773915	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.141+1667T>A"	""	""	"ENST00000325551"	""	104	"69"	35	48	"48"	0	"CTNNAL1,intron_variant,,ENST00000374595,NM_001286974.1;CTNNAL1,intron_variant,,ENST00000325551,NM_003798.2;CTNNAL1,intron_variant,,ENST00000325580,;CTNNAL1,intron_variant,,ENST00000374593,;TMEM245,downstream_gene_variant,,ENST00000374586,NM_032012.3;"	"T"	"ENSG00000119326"	"ENST00000325551"	"Transcript"	"intron_variant"	"-/2490"	"-/2205"	"-/734"	""	""	""	"1"	NA	-1	"CTNNAL1"	"HGNC"	2512	"protein_coding"	"YES"	"CCDS6775.1"	"ENSP00000320434"	"Q9UBT7"	"Q5JTQ9"	"UPI0000070AF1"	"NM_003798.2"	""	""	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"78c6139a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336538461538462	"WGS"	FALSE
"7693"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	116629622	116629622	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"91"	8	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"78c86f5a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0808080808080808	"WGS"	FALSE
"7694"	"ENSR00001312379"	0	"mskcc.org"	"GRCh37"	"9"	117464499	117464499	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001312379"	""	96	"73"	23	51	"51"	0	""	"G"	""	"ENSR00001312379"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"78c8d454-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239583333333333	"WGS"	FALSE
"7695"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	118298039	118298039	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"67"	20	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"78c90bfe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229885057471264	"WGS"	FALSE
"7696"	"ASTN2"	23245	"mskcc.org"	"GRCh37"	"9"	119761992	119761992	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1438+8379G>A"	""	""	"ENST00000361209"	""	89	"66"	23	65	"65"	0	"ASTN2,intron_variant,,ENST00000313400,;ASTN2,intron_variant,,ENST00000373996,;ASTN2,intron_variant,,ENST00000361209,NM_014010.4;ASTN2,intron_variant,,ENST00000361477,;ASTN2,intron_variant,,ENST00000373986,;"	"T"	"ENSG00000148219"	"ENST00000361209"	"Transcript"	"intron_variant"	"-/4622"	"-/3867"	"-/1288"	""	""	""	"1"	NA	-1	"ASTN2"	"HGNC"	17021	"protein_coding"	"YES"	"CCDS6815.1"	"ENSP00000354504"	"O75129"	"B7ZKP3,B2RCB6"	"UPI00002116D7"	"NM_014010.4"	""	""	""	"6/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"78c9922c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258426966292135	"WGS"	FALSE
"7697"	"PHF19"	26147	"mskcc.org"	"GRCh37"	"9"	123623114	123623114	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1304+253A>T"	""	""	"ENST00000373896"	""	98	"90"	8	59	"59"	0	"PHF19,intron_variant,,ENST00000373896,NM_015651.1,NM_001286840.1;PHF19,intron_variant,,ENST00000419155,NM_001286842.1;PHF19,downstream_gene_variant,,ENST00000453868,;PHF19,downstream_gene_variant,,ENST00000439674,;PHF19,intron_variant,,ENST00000487555,;PHF19,downstream_gene_variant,,ENST00000467266,;PHF19,upstream_gene_variant,,ENST00000462229,;PHF19,downstream_gene_variant,,ENST00000474402,;PHF19,downstream_gene_variant,,ENST00000464712,;PHF19,downstream_gene_variant,,ENST00000478371,;"	"A"	"ENSG00000119403"	"ENST00000373896"	"Transcript"	"intron_variant"	"-/4241"	"-/1743"	"-/580"	""	""	""	"1"	NA	-1	"PHF19"	"HGNC"	24566	"protein_coding"	"YES"	"CCDS35116.1"	"ENSP00000363003"	"Q5T6S3"	"F5H8K3,B0QZ72,B0QZ51,B0QZ50"	"UPI000016050A"	"NM_015651.1,NM_001286840.1"	""	""	""	"13/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"78cad0ba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WGS"	FALSE
"7698"	"C5"	727	"mskcc.org"	"GRCh37"	"9"	123732292	123732292	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4162+156C>G"	""	""	"ENST00000223642"	""	114	"83"	31	61	"61"	0	"C5,intron_variant,,ENST00000223642,NM_001735.2;"	"C"	"ENSG00000106804"	"ENST00000223642"	"Transcript"	"intron_variant"	"-/5462"	"-/5031"	"-/1676"	""	""	""	"1"	NA	-1	"C5"	"HGNC"	1331	"protein_coding"	"YES"	"CCDS6826.1"	"ENSP00000223642"	"P01031"	""	"UPI000013C838"	"NM_001735.2"	""	""	""	"32/40"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"78cae352-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271929824561404	"WGS"	FALSE
"7699"	"C5"	727	"mskcc.org"	"GRCh37"	"9"	123732293	123732293	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4162+155C>A"	""	""	"ENST00000223642"	""	114	"82"	32	60	"60"	0	"C5,intron_variant,,ENST00000223642,NM_001735.2;"	"T"	"ENSG00000106804"	"ENST00000223642"	"Transcript"	"intron_variant"	"-/5462"	"-/5031"	"-/1676"	""	""	""	"1"	NA	-1	"C5"	"HGNC"	1331	"protein_coding"	"YES"	"CCDS6826.1"	"ENSP00000223642"	"P01031"	""	"UPI000013C838"	"NM_001735.2"	""	""	""	"32/40"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"78cae460-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280701754385965	"WGS"	FALSE
"7700"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	127198296	127198296	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"53"	19	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"78cc27c6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263888888888889	"WGS"	FALSE
"7701"	"NR6A1"	2649	"mskcc.org"	"GRCh37"	"9"	127275009	127275009	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000487099"	""	90	"58"	32	42	"42"	0	"NR6A1,downstream_gene_variant,,ENST00000487099,NM_001489.4,NM_033334.3,NM_001278546.1;RP11-10J18.3,downstream_gene_variant,,ENST00000369027,;"	"T"	"ENSG00000148200"	"ENST00000487099"	"Transcript"	"downstream_gene_variant"	"-/7031"	"-/1443"	"-/480"	""	""	""	"1"	"4545"	-1	"NR6A1"	"HGNC"	7985	"protein_coding"	"YES"	"CCDS35137.1"	"ENSP00000420267"	"Q15406"	"F1D8S0"	"UPI0000130484"	"NM_001489.4,NM_033334.3,NM_001278546.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"78cc2f64-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355555555555556	"WGS"	FALSE
"7702"	"ZER1"	10444	"mskcc.org"	"GRCh37"	"9"	131489199	131489199	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000291900"	""	87	"80"	7	42	"42"	0	"ZER1,downstream_gene_variant,,ENST00000291900,NM_006336.3;ZDHHC12,upstream_gene_variant,,ENST00000372667,;ZDHHC12,upstream_gene_variant,,ENST00000372663,NM_032799.4;ZDHHC12,upstream_gene_variant,,ENST00000372672,;ZDHHC12,upstream_gene_variant,,ENST00000406904,;ZDHHC12,upstream_gene_variant,,ENST00000452105,;RP11-545E17.3,intron_variant,,ENST00000443631,;ZDHHC12,upstream_gene_variant,,ENST00000467312,;"	"G"	"ENSG00000160445"	"ENST00000291900"	"Transcript"	"downstream_gene_variant"	"-/4259"	"-/2301"	"-/766"	""	""	""	"1"	"2866"	-1	"ZER1"	"HGNC"	30960	"protein_coding"	"YES"	"CCDS6910.1"	"ENSP00000291900"	"Q7Z7L7"	"Q05BR7"	"UPI000013E085"	"NM_006336.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"78ce1176-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"7703"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	132173757	132173757	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"72"	7	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"78ceb3f6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"7704"	"GPR107"	57720	"mskcc.org"	"GRCh37"	"9"	132818716	132818716	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.141+2364A>G"	""	""	"ENST00000372406"	""	84	"78"	6	44	"44"	0	"GPR107,intron_variant,,ENST00000372406,NM_001136557.1;GPR107,intron_variant,,ENST00000347136,NM_020960.4;GPR107,intron_variant,,ENST00000372410,NM_001136558.1;GPR107,intron_variant,,ENST00000493417,NM_001287346.1;"	"G"	"ENSG00000148358"	"ENST00000372406"	"Transcript"	"intron_variant"	"-/7353"	"-/1803"	"-/600"	""	""	""	"1"	NA	1	"GPR107"	"HGNC"	17830	"protein_coding"	"YES"	"CCDS48041.1"	"ENSP00000361483"	"Q5VW38"	"B7ZL93"	"UPI00004589E0"	"NM_001136557.1"	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"78cf258e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"7705"	"PPAPDC3"	84814	"mskcc.org"	"GRCh37"	"9"	134162466	134162466	"+"	"5'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000372264"	""	97	"70"	27	57	"57"	0	"PPAPDC3,upstream_gene_variant,,ENST00000372264,NM_032728.3;PPAPDC3,upstream_gene_variant,,ENST00000372261,;"	"T"	"ENSG00000160539"	"ENST00000372264"	"Transcript"	"upstream_gene_variant"	"-/2095"	"-/816"	"-/271"	""	""	""	"1"	"2615"	1	"PPAPDC3"	"HGNC"	28174	"protein_coding"	"YES"	"CCDS6942.1"	"ENSP00000361338"	"Q8NBV4"	""	"UPI0000070B2A"	"NM_032728.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"78d03546-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278350515463918	"WGS"	FALSE
"7706"	"SLC2A6"	11182	"mskcc.org"	"GRCh37"	"9"	136346650	136346650	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371899"	""	80	"74"	6	48	"48"	0	"SLC2A6,upstream_gene_variant,,ENST00000371899,NM_017585.3;SLC2A6,upstream_gene_variant,,ENST00000371897,NM_001145099.1;SLC2A6,upstream_gene_variant,,ENST00000432868,;SLC2A6,upstream_gene_variant,,ENST00000414172,;SLC2A6,upstream_gene_variant,,ENST00000485978,;"	"A"	"ENSG00000160326"	"ENST00000371899"	"Transcript"	"upstream_gene_variant"	"-/2528"	"-/1524"	"-/507"	""	""	""	"1"	"2391"	-1	"SLC2A6"	"HGNC"	11011	"protein_coding"	"YES"	"CCDS6975.1"	"ENSP00000360966"	"Q9UGQ3"	""	"UPI0000001BE8"	"NM_017585.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"78d1c83e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"7707"	"RXRA"	6256	"mskcc.org"	"GRCh37"	"9"	137309413	137309413	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"rs561286200"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.780+240A>C"	""	""	"ENST00000481739"	""	75	"69"	6	29	"29"	0	"RXRA,intron_variant,,ENST00000540193,;RXRA,intron_variant,,ENST00000481739,NM_002957.4;RXRA,intron_variant,,ENST00000356384,;"	"C"	"ENSG00000186350"	"ENST00000481739"	"Transcript"	"intron_variant"	"-/1846"	"-/1389"	"-/462"	""	""	"rs561286200"	"1"	NA	1	"RXRA"	"HGNC"	10477	"protein_coding"	"YES"	"CCDS35172.1"	"ENSP00000419692"	"P19793"	"Q6P3U7,F1D8Q5,B3KY83"	"UPI0000042A9A"	"NM_002957.4"	""	""	""	"5/9"	""	"C:0.0066"	"C:0.0234"	"C:0.0029"	NA	"C:0"	"C:0"	"C:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"78d2bb40-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"7708"	"COL5A1"	1289	"mskcc.org"	"GRCh37"	"9"	137571273	137571273	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.110-11485G>A"	""	""	"ENST00000371817"	""	51	"43"	8	33	"33"	0	"COL5A1,intron_variant,,ENST00000371817,NM_001278074.1,NM_000093.4;COL5A1,intron_variant,,ENST00000464187,;"	"A"	"ENSG00000130635"	"ENST00000371817"	"Transcript"	"intron_variant"	"-/8468"	"-/5517"	"-/1838"	""	""	""	"1"	NA	1	"COL5A1"	"HGNC"	2209	"protein_coding"	"YES"	"CCDS6982.1"	"ENSP00000360882"	"P20908"	"Q9UML4,Q96HC0,Q59EE7"	"UPI0000210EE3"	"NM_001278074.1,NM_000093.4"	""	""	""	"1/65"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"78d35244-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.156862745098039	"WGS"	FALSE
"7709"	"CAMSAP1"	157922	"mskcc.org"	"GRCh37"	"9"	138739740	138739740	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1045+2243C>G"	""	""	"ENST00000389532"	""	11	"8"	3	8	"8"	0	"CAMSAP1,intron_variant,,ENST00000389532,NM_015447.3;CAMSAP1,intron_variant,,ENST00000312405,;CAMSAP1,intron_variant,,ENST00000409386,;CAMSAP1,downstream_gene_variant,,ENST00000492174,;"	"C"	"ENSG00000130559"	"ENST00000389532"	"Transcript"	"intron_variant"	"-/7696"	"-/4809"	"-/1602"	""	""	""	"1"	NA	-1	"CAMSAP1"	"HGNC"	19946	"protein_coding"	"YES"	"CCDS35176.2"	"ENSP00000374183"	"Q5T5Y3"	""	"UPI0000EDA283"	"NM_015447.3"	""	""	""	"7/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"78d54072-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"7710"	"TRAF2"	7186	"mskcc.org"	"GRCh37"	"9"	139809903	139809903	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.604-1090G>C"	""	""	"ENST00000247668"	""	94	"67"	27	37	"37"	0	"TRAF2,intron_variant,,ENST00000359662,;TRAF2,intron_variant,,ENST00000247668,NM_021138.3;TRAF2,intron_variant,,ENST00000536468,;TRAF2,intron_variant,,ENST00000482854,;TRAF2,intron_variant,,ENST00000469701,;"	"C"	"ENSG00000127191"	"ENST00000247668"	"Transcript"	"intron_variant"	"-/2264"	"-/1506"	"-/501"	""	""	""	"1"	NA	1	"TRAF2"	"HGNC"	12032	"protein_coding"	"YES"	"CCDS7013.1"	"ENSP00000247668"	"Q12933"	"B1AMY1,B1AMX8,B1AMX7"	"UPI0000001612"	"NM_021138.3"	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"78d6918e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287234042553192	"WGS"	FALSE
"7711"	"GRIN1"	2902	"mskcc.org"	"GRCh37"	"9"	140039975	140039975	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.394-203T>C"	""	""	"ENST00000371553"	""	28	"23"	5	18	"18"	0	"GRIN1,intron_variant,,ENST00000371561,NM_007327.3;GRIN1,intron_variant,,ENST00000315048,;GRIN1,intron_variant,,ENST00000350902,;GRIN1,intron_variant,,ENST00000371546,;GRIN1,intron_variant,,ENST00000371555,;GRIN1,intron_variant,,ENST00000371550,NM_021569.3;GRIN1,intron_variant,,ENST00000371553,NM_001185090.1;GRIN1,intron_variant,,ENST00000371560,NM_001185091.1;GRIN1,intron_variant,,ENST00000371559,NM_000832.6;GRIN1,intron_variant,,ENST00000471122,;"	"C"	"ENSG00000176884"	"ENST00000371553"	"Transcript"	"intron_variant"	"-/3751"	"-/2832"	"-/943"	""	""	""	"1"	NA	1	"GRIN1"	"HGNC"	4584	"protein_coding"	"YES"	"CCDS55354.1"	"ENSP00000360608"	"Q05586"	""	"UPI000014AF8E"	"NM_001185090.1"	""	""	""	"2/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"78d6d50e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"7712"	"EXD3"	54932	"mskcc.org"	"GRCh37"	"9"	140243095	140243095	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1831-405C>T"	""	""	"ENST00000340951"	""	44	"37"	7	13	"13"	0	"EXD3,intron_variant,,ENST00000340951,NM_017820.3;EXD3,intron_variant,,ENST00000342129,;EXD3,downstream_gene_variant,,ENST00000484392,;EXD3,downstream_gene_variant,,ENST00000478350,;EXD3,intron_variant,,ENST00000478344,;EXD3,intron_variant,,ENST00000491734,;EXD3,intron_variant,,ENST00000487745,;EXD3,downstream_gene_variant,,ENST00000472958,;"	"A"	"ENSG00000187609"	"ENST00000340951"	"Transcript"	"intron_variant"	"-/2872"	"-/2631"	"-/876"	""	""	""	"1"	NA	-1	"EXD3"	"HGNC"	26023	"protein_coding"	"YES"	"CCDS48066.1"	"ENSP00000340474"	"Q8N9H8"	"E9PI94"	"UPI00003676BC"	"NM_017820.3"	""	""	""	"16/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"78d7633e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.159090909090909	"WGS"	FALSE
"7713"	"EXD3"	54932	"mskcc.org"	"GRCh37"	"9"	140243096	140243096	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1831-406C>T"	""	""	"ENST00000340951"	""	43	"37"	6	13	"13"	0	"EXD3,intron_variant,,ENST00000340951,NM_017820.3;EXD3,intron_variant,,ENST00000342129,;EXD3,downstream_gene_variant,,ENST00000484392,;EXD3,downstream_gene_variant,,ENST00000478350,;EXD3,intron_variant,,ENST00000478344,;EXD3,intron_variant,,ENST00000491734,;EXD3,intron_variant,,ENST00000487745,;EXD3,downstream_gene_variant,,ENST00000472958,;"	"A"	"ENSG00000187609"	"ENST00000340951"	"Transcript"	"intron_variant"	"-/2872"	"-/2631"	"-/876"	""	""	""	"1"	NA	-1	"EXD3"	"HGNC"	26023	"protein_coding"	"YES"	"CCDS48066.1"	"ENSP00000340474"	"Q8N9H8"	"E9PI94"	"UPI00003676BC"	"NM_017820.3"	""	""	""	"16/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"78d76438-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"7714"	"LL0YNC03-29C1.1"	0	"mskcc.org"	"GRCh37"	"X"	167309	167309	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000431238"	""	17	"13"	4	10	"10"	0	"LL0YNC03-29C1.1,upstream_gene_variant,,ENST00000431238,;"	"T"	"ENSG00000228572"	"ENST00000431238"	"Transcript"	"upstream_gene_variant"	"-/259"	""	""	""	""	""	"1"	"3101"	1	"LL0YNC03-29C1.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"78da99a0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"7715"	"PPP2R3B"	28227	"mskcc.org"	"GRCh37"	"X"	331548	331548	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.325-9223G>A"	""	""	"ENST00000390665"	""	83	"59"	24	44	"44"	0	"PPP2R3B,intron_variant,,ENST00000390665,NM_013239.4;PPP2R3B,intron_variant,,ENST00000381625,;PPP2R3B,intron_variant,,ENST00000445792,;"	"T"	"ENSG00000167393"	"ENST00000390665"	"Transcript"	"intron_variant"	"-/2151"	"-/1728"	"-/575"	""	""	""	"1"	NA	-1	"PPP2R3B"	"HGNC"	13417	"protein_coding"	"YES"	"CCDS14104.1"	"ENSP00000375080"	"Q9Y5P8"	"Q96FD8"	"UPI00001BB8B8"	"NM_013239.4"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"78db5c82-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289156626506024	"WGS"	FALSE
"7716"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	880434	880434	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"43"	6	17	"17"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"78de8d58-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122448979591837	"WGS"	FALSE
"7717"	"RP11-309M23.1"	0	"mskcc.org"	"GRCh37"	"X"	951351	951351	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.207+189G>A"	""	""	"ENST00000420865"	""	52	"43"	9	22	"22"	0	"RP11-309M23.1,intron_variant,,ENST00000420865,;"	"A"	"ENSG00000237531"	"ENST00000420865"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/588"	""	""	""	""	""	"1"	NA	1	"RP11-309M23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"78deea3c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173076923076923	"WGS"	FALSE
"7718"	"RP11-309M23.1"	0	"mskcc.org"	"GRCh37"	"X"	951352	951352	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.207+190A>G"	""	""	"ENST00000420865"	""	56	"42"	14	24	"24"	0	"RP11-309M23.1,intron_variant,,ENST00000420865,;"	"G"	"ENSG00000237531"	"ENST00000420865"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/588"	""	""	""	""	""	"1"	NA	1	"RP11-309M23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"78deeb40-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"7719"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1117119	1117119	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	27	"23"	4	16	"16"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"78df6f16-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"7720"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1117123	1117123	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	31	"25"	6	18	"18"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"78df701a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193548387096774	"WGS"	FALSE
"7721"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1214043	1214043	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"89"	7	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"78df7e98-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0729166666666667	"WGS"	FALSE
"7722"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1248418	1248418	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"95"	7	46	"46"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"78dfa580-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0686274509803922	"WGS"	FALSE
"7723"	"SLC25A6"	293	"mskcc.org"	"GRCh37"	"X"	1506919	1506919	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.599-607G>C"	""	""	"ENST00000381401"	""	65	"60"	5	29	"29"	0	"SLC25A6,intron_variant,,ENST00000381401,NM_001636.3;SLC25A6,intron_variant,,ENST00000475167,;SLC25A6,intron_variant,,ENST00000484026,;"	"G"	"ENSG00000169100"	"ENST00000381401"	"Transcript"	"intron_variant"	"-/2062"	"-/897"	"-/298"	""	""	""	"1"	NA	-1	"SLC25A6"	"HGNC"	10992	"protein_coding"	"YES"	"CCDS14114.1"	"ENSP00000370808"	"P12236"	"Q6I9V5,Q59EI9,I7HJJ0"	"UPI00000015FE"	"NM_001636.3"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"78e13b16-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"7724"	"P2RY8"	286530	"mskcc.org"	"GRCh37"	"X"	1636153	1636153	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-25+19661C>A"	""	""	"ENST00000381297"	""	90	"84"	6	61	"61"	0	"P2RY8,intron_variant,,ENST00000381297,NM_178129.4;"	"T"	"ENSG00000182162"	"ENST00000381297"	"Transcript"	"intron_variant"	"-/4198"	"-/1080"	"-/359"	""	""	""	"1"	NA	-1	"P2RY8"	"HGNC"	15524	"protein_coding"	"YES"	"CCDS14115.1"	"ENSP00000370697"	"Q86VZ1"	""	"UPI000000DA6D"	"NM_178129.4"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"78e2012c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	TRUE
"7725"	"P2RY8"	286530	"mskcc.org"	"GRCh37"	"X"	1636161	1636161	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-25+19653G>A"	""	""	"ENST00000381297"	""	89	"82"	7	62	"62"	0	"P2RY8,intron_variant,,ENST00000381297,NM_178129.4;"	"T"	"ENSG00000182162"	"ENST00000381297"	"Transcript"	"intron_variant"	"-/4198"	"-/1080"	"-/359"	""	""	""	"1"	NA	-1	"P2RY8"	"HGNC"	15524	"protein_coding"	"YES"	"CCDS14115.1"	"ENSP00000370697"	"Q86VZ1"	""	"UPI000000DA6D"	"NM_178129.4"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"78e20230-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	TRUE
"7726"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1935606	1935606	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"62"	6	28	"28"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"78e31c2e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"7727"	"DHRSX"	207063	"mskcc.org"	"GRCh37"	"X"	2183089	2183089	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.596+1692G>T"	""	""	"ENST00000334651"	""	92	"86"	6	36	"36"	0	"DHRSX,intron_variant,,ENST00000334651,NM_145177.2;DHRSX,intron_variant,,ENST00000412516,;DHRSX,downstream_gene_variant,,ENST00000444280,;DHRSX,intron_variant,,ENST00000464935,;DHRSX,downstream_gene_variant,,ENST00000441131,;"	"A"	"ENSG00000169084"	"ENST00000334651"	"Transcript"	"intron_variant"	"-/2571"	"-/993"	"-/330"	""	""	""	"1"	NA	-1	"DHRSX"	"HGNC"	18399	"protein_coding"	"YES"	"CCDS35195.1"	"ENSP00000334113"	"Q8N5I4"	"C9JRH1"	"UPI0000D61D1C"	"NM_145177.2"	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"78e40648-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"7728"	"DHRSX"	207063	"mskcc.org"	"GRCh37"	"X"	2310806	2310806	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.286+15980A>T"	""	""	"ENST00000334651"	""	115	"109"	6	62	"62"	0	"DHRSX,intron_variant,,ENST00000334651,NM_145177.2;DHRSX,intron_variant,,ENST00000444280,;DHRSX,intron_variant,,ENST00000412516,;DHRSX,intron_variant,,ENST00000430536,;DHRSX,intron_variant,,ENST00000478825,;DHRSX,intron_variant,,ENST00000441131,;"	"A"	"ENSG00000169084"	"ENST00000334651"	"Transcript"	"intron_variant"	"-/2571"	"-/993"	"-/330"	""	""	""	"1"	NA	-1	"DHRSX"	"HGNC"	18399	"protein_coding"	"YES"	"CCDS35195.1"	"ENSP00000334113"	"Q8N5I4"	"C9JRH1"	"UPI0000D61D1C"	"NM_145177.2"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"78e48b7c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0521739130434783	"WGS"	FALSE
"7729"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	3326507	3326507	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"71"	26	61	"60"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"78e57b54-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268041237113402	"WGS"	FALSE
"7730"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	3509999	3509999	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"62"	26	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"78e5dda6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295454545454545	"WGS"	FALSE
"7731"	"RP11-585K14.2"	0	"mskcc.org"	"GRCh37"	"X"	5091005	5091005	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000440559"	""	109	"102"	7	55	"55"	0	"RP11-585K14.2,downstream_gene_variant,,ENST00000440559,;MTND6P12,upstream_gene_variant,,ENST00000428247,;"	"T"	"ENSG00000226313"	"ENST00000440559"	"Transcript"	"downstream_gene_variant"	"-/1134"	""	""	""	""	""	"1"	"2319"	1	"RP11-585K14.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"78e689ea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0642201834862385	"WGS"	FALSE
"7732"	"RP11-585K14.2"	0	"mskcc.org"	"GRCh37"	"X"	5091013	5091013	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"rs6638488"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000440559"	""	113	"103"	10	52	"52"	0	"RP11-585K14.2,downstream_gene_variant,,ENST00000440559,;MTND6P12,upstream_gene_variant,,ENST00000428247,;"	"C"	"ENSG00000226313"	"ENST00000440559"	"Transcript"	"downstream_gene_variant"	"-/1134"	""	""	""	""	"rs6638488"	"1"	"2327"	1	"RP11-585K14.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"78e68bd4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0884955752212389	"WGS"	FALSE
"7733"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	8186745	8186745	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs759802734"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"64"	33	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs759802734"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0003"	"A:0"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"78e7c300-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34020618556701	"WGS"	FALSE
"7734"	"KAL1"	3730	"mskcc.org"	"GRCh37"	"X"	8629365	8629365	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.256-37654C>A"	""	""	"ENST00000262648"	""	83	"78"	5	49	"49"	0	"KAL1,intron_variant,,ENST00000262648,NM_000216.2;"	"T"	"ENSG00000011201"	"ENST00000262648"	"Transcript"	"intron_variant"	"-/6314"	"-/2043"	"-/680"	""	""	""	"1"	NA	-1	"KAL1"	"HGNC"	6211	"protein_coding"	"YES"	"CCDS14130.1"	"ENSP00000262648"	"P23352"	""	"UPI00001AE843"	"NM_000216.2"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"78e8054a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0602409638554217	"WGS"	FALSE
"7735"	"MID1"	4281	"mskcc.org"	"GRCh37"	"X"	10645616	10645616	"+"	"5'UTR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-168G>A"	""	""	"ENST00000453318"	"1/10"	107	"68"	39	53	"53"	0	"MID1,5_prime_UTR_variant,,ENST00000453318,NM_001098624.2;MID1,5_prime_UTR_variant,,ENST00000413894,;MID1,intron_variant,,ENST00000380785,;MID1,intron_variant,,ENST00000380787,NM_033290.3;"	"T"	"ENSG00000101871"	"ENST00000453318"	"Transcript"	"5_prime_UTR_variant"	"164/6393"	"-/2004"	"-/667"	""	""	""	"1"	NA	-1	"MID1"	"HGNC"	7095	"protein_coding"	""	"CCDS14138.1"	"ENSP00000414521"	"O15344"	"C9JZJ7,C9J453"	"UPI000012F0E6"	"NM_001098624.2"	""	""	"1/10"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"78e93870-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364485981308411	"WGS"	FALSE
"7736"	"ARHGAP6"	395	"mskcc.org"	"GRCh37"	"X"	11266539	11266539	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.748+6129C>A"	""	""	"ENST00000337414"	""	116	"83"	33	54	"54"	0	"ARHGAP6,intron_variant,,ENST00000337414,NM_013427.2;ARHGAP6,intron_variant,,ENST00000303025,NM_013423.2;ARHGAP6,intron_variant,,ENST00000380736,NM_001287242.1;ARHGAP6,intron_variant,,ENST00000380718,NM_006125.2;ARHGAP6,intron_variant,,ENST00000380717,;ARHGAP6,intron_variant,,ENST00000534860,;ARHGAP6,intron_variant,,ENST00000380732,;ARHGAP6,intron_variant,,ENST00000413512,;ARHGAP6,intron_variant,,ENST00000489330,;ARHGAP6,intron_variant,,ENST00000495242,;"	"T"	"ENSG00000047648"	"ENST00000337414"	"Transcript"	"intron_variant"	"-/5117"	"-/2925"	"-/974"	""	""	""	"1"	NA	-1	"ARHGAP6"	"HGNC"	676	"protein_coding"	"YES"	"CCDS14140.1"	"ENSP00000338967"	"O43182"	"B4DN35"	"UPI00001AED54"	"NM_013427.2"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"78e9696c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28448275862069	"WGS"	FALSE
"7737"	"FRMPD4"	9758	"mskcc.org"	"GRCh37"	"X"	12358301	12358301	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.42-158498G>T"	""	""	"ENST00000380682"	""	99	"70"	29	53	"53"	0	"FRMPD4,intron_variant,,ENST00000380682,NM_014728.3;"	"T"	"ENSG00000169933"	"ENST00000380682"	"Transcript"	"intron_variant"	"-/8465"	"-/3969"	"-/1322"	""	""	""	"1"	NA	1	"FRMPD4"	"HGNC"	29007	"protein_coding"	"YES"	"CCDS35201.1"	"ENSP00000370057"	"Q14CM0"	""	"UPI00001C2066"	"NM_014728.3"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"78e9b07a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292929292929293	"WGS"	FALSE
"7738"	"GPM6B"	2824	"mskcc.org"	"GRCh37"	"X"	13851614	13851614	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5-47687A>T"	""	""	"ENST00000454189"	""	79	"74"	5	41	"41"	0	"GPM6B,intron_variant,,ENST00000454189,NM_001001994.1;GPM6B,intron_variant,,ENST00000398361,;GPM6B,intron_variant,,ENST00000468080,;GPM6B,intron_variant,,ENST00000493085,;"	"A"	"ENSG00000046653"	"ENST00000454189"	"Transcript"	"intron_variant"	"-/3957"	"-/741"	"-/246"	""	""	""	"1"	NA	-1	"GPM6B"	"HGNC"	4461	"protein_coding"	""	"CCDS48084.1"	"ENSP00000389915"	"Q13491"	"C9JZE8,C9J8H8,B7Z248"	"UPI000002AD86"	"NM_001001994.1"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"78ea1c0e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0632911392405063	"WGS"	FALSE
"7739"	"PIR"	8544	"mskcc.org"	"GRCh37"	"X"	15406611	15406611	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.760+1696C>T"	""	""	"ENST00000380421"	""	100	"71"	29	69	"69"	0	"PIR,intron_variant,,ENST00000380421,NM_001018109.2,NM_003662.3;PIR,intron_variant,,ENST00000380420,;FIGF,upstream_gene_variant,,ENST00000297904,NM_004469.4;PIR,intron_variant,,ENST00000492432,;PIR,downstream_gene_variant,,ENST00000484433,;"	"A"	"ENSG00000087842"	"ENST00000380421"	"Transcript"	"intron_variant"	"-/1539"	"-/873"	"-/290"	""	""	""	"1"	NA	-1	"PIR"	"HGNC"	30048	"protein_coding"	"YES"	"CCDS14167.1"	"ENSP00000369786"	"O00625"	""	"UPI0000049C30"	"NM_001018109.2,NM_003662.3"	""	""	""	"9/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"78eaa458-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29	"WGS"	FALSE
"7740"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	16562716	16562716	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"72"	22	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"78eafcbe-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234042553191489	"WGS"	FALSE
"7741"	"REPS2"	9185	"mskcc.org"	"GRCh37"	"X"	17029809	17029809	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.397+5342T>A"	""	""	"ENST00000357277"	""	70	"62"	8	65	"65"	0	"REPS2,intron_variant,,ENST00000357277,NM_001080975.1,NM_004726.2;REPS2,intron_variant,,ENST00000303843,;REPS2,intron_variant,,ENST00000380064,;REPS2,intron_variant,,ENST00000481792,;"	"A"	"ENSG00000169891"	"ENST00000357277"	"Transcript"	"intron_variant"	"-/7945"	"-/1983"	"-/660"	""	""	""	"1"	NA	1	"REPS2"	"HGNC"	9963	"protein_coding"	"YES"	"CCDS14180.2"	"ENSP00000349824"	"Q8NFH8"	""	"UPI00001BBB18"	"NM_001080975.1,NM_004726.2"	""	""	""	"2/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"78eb362a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"7742"	"SH3KBP1"	30011	"mskcc.org"	"GRCh37"	"X"	19567603	19567603	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1494+489A>T"	""	""	"ENST00000397821"	""	94	"64"	30	55	"55"	0	"SH3KBP1,intron_variant,,ENST00000397821,NM_031892.2;SH3KBP1,intron_variant,,ENST00000379716,NM_001184960.1;SH3KBP1,intron_variant,,ENST00000379698,NM_001024666.2;SH3KBP1,intron_variant,,ENST00000379726,;SH3KBP1,intron_variant,,ENST00000541422,;"	"A"	"ENSG00000147010"	"ENST00000397821"	"Transcript"	"intron_variant"	"-/4731"	"-/1998"	"-/665"	""	""	""	"1"	NA	-1	"SH3KBP1"	"HGNC"	13867	"protein_coding"	"YES"	"CCDS14193.1"	"ENSP00000380921"	"Q96B97"	"Q5JPT6,B7Z6E8"	"UPI000006CC82"	"NM_031892.2"	""	""	""	"14/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"78ec24c2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319148936170213	"WGS"	FALSE
"7743"	"MAP7D2"	256714	"mskcc.org"	"GRCh37"	"X"	20109757	20109757	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.130+25111T>G"	""	""	"ENST00000379643"	""	93	"64"	29	37	"37"	0	"MAP7D2,intron_variant,,ENST00000379651,NM_152780.3;MAP7D2,intron_variant,,ENST00000379643,NM_001168465.1;MAP7D2,intron_variant,,ENST00000443379,NM_001168466.1;MAP7D2,intron_variant,,ENST00000452324,NM_001168467.1;"	"C"	"ENSG00000184368"	"ENST00000379643"	"Transcript"	"intron_variant"	"-/3918"	"-/2322"	"-/773"	""	""	""	"1"	NA	-1	"MAP7D2"	"HGNC"	25899	"protein_coding"	"YES"	"CCDS55386.1"	"ENSP00000368964"	"Q96T17"	""	"UPI00015E039B"	"NM_001168465.1"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"78ec777e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311827956989247	"WGS"	FALSE
"7744"	"CNKSR2"	22866	"mskcc.org"	"GRCh37"	"X"	21583339	21583339	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1608+1769T>C"	""	""	"ENST00000379510"	""	95	"61"	34	73	"72"	1	"CNKSR2,intron_variant,,ENST00000425654,NM_001168647.1;CNKSR2,intron_variant,,ENST00000379510,NM_014927.3;CNKSR2,intron_variant,,ENST00000279451,NM_001168648.1;CNKSR2,intron_variant,,ENST00000543067,NM_001168649.1;AL928874.1,downstream_gene_variant,,ENST00000579338,;CNKSR2,intron_variant,,ENST00000485012,;"	"C"	"ENSG00000149970"	"ENST00000379510"	"Transcript"	"intron_variant"	"-/5315"	"-/3105"	"-/1034"	""	""	""	"1"	NA	1	"CNKSR2"	"HGNC"	19701	"protein_coding"	"YES"	"CCDS14198.1"	"ENSP00000368824"	"Q8WXI2"	""	"UPI0000070D72"	"NM_014927.3"	""	""	""	"13/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"78ecc79c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357894736842105	"WGS"	FALSE
"7745"	"CNKSR2"	22866	"mskcc.org"	"GRCh37"	"X"	21649834	21649834	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2693-17115C>G"	""	""	"ENST00000379510"	""	101	"82"	19	55	"55"	0	"CNKSR2,intron_variant,,ENST00000425654,NM_001168647.1;CNKSR2,intron_variant,,ENST00000379510,NM_014927.3;CNKSR2,intron_variant,,ENST00000279451,NM_001168648.1;CNKSR2,intron_variant,,ENST00000543067,NM_001168649.1;"	"G"	"ENSG00000149970"	"ENST00000379510"	"Transcript"	"intron_variant"	"-/5315"	"-/3105"	"-/1034"	""	""	""	"1"	NA	1	"CNKSR2"	"HGNC"	19701	"protein_coding"	"YES"	"CCDS14198.1"	"ENSP00000368824"	"Q8WXI2"	""	"UPI0000070D72"	"NM_014927.3"	""	""	""	"20/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"78eccbca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188118811881188	"WGS"	FALSE
"7746"	"CXorf58"	254158	"mskcc.org"	"GRCh37"	"X"	23950307	23950307	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.556-3006A>G"	""	""	"ENST00000379211"	""	93	"68"	25	56	"56"	0	"CXorf58,intron_variant,,ENST00000379211,NM_001169574.1,NM_152761.2;"	"G"	"ENSG00000165182"	"ENST00000379211"	"Transcript"	"intron_variant"	"-/1752"	"-/999"	"-/332"	""	""	""	"1"	NA	1	"CXorf58"	"HGNC"	26356	"protein_coding"	"YES"	"CCDS14209.1"	"ENSP00000368511"	"Q96LI9"	""	"UPI00001AEC5F"	"NM_001169574.1,NM_152761.2"	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"78edbcba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"7747"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	25288513	25288513	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"74"	28	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"78ee6868-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274509803921569	"WGS"	FALSE
"7748"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	25531160	25531160	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"78"	31	56	"56"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"78ee793e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284403669724771	"WGS"	FALSE
"7749"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	25673587	25673587	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"61"	24	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"78ee7c7c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282352941176471	"WGS"	FALSE
"7750"	"RP11-86A5.1"	0	"mskcc.org"	"GRCh37"	"X"	25899382	25899382	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.136+396C>A"	""	""	"ENST00000423914"	""	108	"99"	9	52	"52"	0	"RP11-86A5.1,intron_variant,,ENST00000423914,;"	"A"	"ENSG00000233403"	"ENST00000423914"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/550"	""	""	""	""	""	"1"	NA	1	"RP11-86A5.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"78ee858c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"7751"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	26149153	26149153	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"69"	37	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"78ee93d8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349056603773585	"WGS"	FALSE
"7752"	"DCAF8L2"	347442	"mskcc.org"	"GRCh37"	"X"	27640531	27640531	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-341-9465G>T"	""	""	"ENST00000451261"	""	97	"71"	26	33	"33"	0	"DCAF8L2,intron_variant,,ENST00000451261,NM_001136533.1;DCAF8L2,intron_variant,,ENST00000431122,;DCAF8L2,intron_variant,,ENST00000580017,;DCAF8L2,intron_variant,,ENST00000583068,;DCAF8L2,intron_variant,,ENST00000578111,;"	"T"	"ENSG00000189186"	"ENST00000451261"	"Transcript"	"intron_variant"	"-/2295"	"-/1896"	"-/631"	""	""	""	"1"	NA	1	"DCAF8L2"	"HGNC"	31811	"protein_coding"	"YES"	"CCDS59162.1"	"ENSP00000462745"	"P0C7V8"	"J3QRI4"	"UPI000183CBD9"	"NM_001136533.1"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"78ef15ba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268041237113402	"WGS"	FALSE
"7753"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	28231198	28231198	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"86"	29	62	"62"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"78ef4576-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252173913043478	"WGS"	FALSE
"7754"	"IL1RAPL1"	11141	"mskcc.org"	"GRCh37"	"X"	29000827	29000827	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.82+193285C>A"	""	""	"ENST00000378993"	""	110	"78"	32	63	"63"	0	"IL1RAPL1,intron_variant,,ENST00000378993,NM_014271.3;IL1RAPL1,intron_variant,,ENST00000302196,;RNA5SP500,downstream_gene_variant,,ENST00000364486,;"	"A"	"ENSG00000169306"	"ENST00000378993"	"Transcript"	"intron_variant"	"-/3667"	"-/2091"	"-/696"	""	""	""	"1"	NA	1	"IL1RAPL1"	"HGNC"	5996	"protein_coding"	"YES"	"CCDS14218.1"	"ENSP00000368278"	"Q9NZN1"	"Q7Z2H0"	"UPI000006D1BF"	"NM_014271.3"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"78ef7cf8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290909090909091	"WGS"	FALSE
"7755"	"IL1RAPL1"	11141	"mskcc.org"	"GRCh37"	"X"	29910873	29910873	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.779-24708C>G"	""	""	"ENST00000378993"	""	100	"75"	25	57	"57"	0	"IL1RAPL1,intron_variant,,ENST00000378993,NM_014271.3;IL1RAPL1,intron_variant,,ENST00000302196,;"	"G"	"ENSG00000169306"	"ENST00000378993"	"Transcript"	"intron_variant"	"-/3667"	"-/2091"	"-/696"	""	""	""	"1"	NA	1	"IL1RAPL1"	"HGNC"	5996	"protein_coding"	"YES"	"CCDS14218.1"	"ENSP00000368278"	"Q9NZN1"	"Q7Z2H0"	"UPI000006D1BF"	"NM_014271.3"	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"78efe08a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"7756"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	30004536	30004536	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"77"	26	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"78efefee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252427184466019	"WGS"	FALSE
"7757"	"MAGEB4"	4115	"mskcc.org"	"GRCh37"	"X"	30262160	30262160	"+"	"3'UTR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*867T>C"	""	""	"ENST00000378982"	"1/1"	108	"100"	8	62	"62"	0	"MAGEB4,3_prime_UTR_variant,,ENST00000378982,NM_002367.3;MAGEB1,intron_variant,,ENST00000378981,NM_002363.4;MAGEB1,intron_variant,,ENST00000397550,NM_177415.2;MAGEB1,upstream_gene_variant,,ENST00000397548,NM_177404.2;"	"C"	"ENSG00000120289"	"ENST00000378982"	"Transcript"	"3_prime_UTR_variant"	"2104/2237"	"-/1041"	"-/346"	""	""	""	"1"	NA	1	"MAGEB4"	"HGNC"	6811	"protein_coding"	"YES"	"CCDS14221.1"	"ENSP00000368266"	"O15481"	""	"UPI000012F055"	"NM_002367.3"	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"78f00c7c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"7758"	"DMD"	1756	"mskcc.org"	"GRCh37"	"X"	31620792	31620792	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8217+24998G>A"	""	""	"ENST00000357033"	""	100	"73"	27	49	"49"	0	"DMD,intron_variant,,ENST00000357033,NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000378677,NM_004009.3,NM_004010.3,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000378707,NM_004013.2,NM_004014.2;DMD,intron_variant,,ENST00000359836,NM_004022.2;DMD,intron_variant,,ENST00000541735,NM_004020.3;DMD,intron_variant,,ENST00000343523,NM_004023.2;DMD,intron_variant,,ENST00000358062,;DMD,intron_variant,,ENST00000474231,NM_004021.2;"	"T"	"ENSG00000198947"	"ENST00000357033"	"Transcript"	"intron_variant"	"-/13956"	"-/11058"	"-/3685"	""	""	""	"1"	NA	-1	"DMD"	"HGNC"	2928	"protein_coding"	"YES"	"CCDS14233.1"	"ENSP00000354923"	""	"Q9UPB5,Q9UPB4,Q9UMK8,Q9UMK7,Q9UMG1,Q9UME2,Q9UEH4,Q8WYF6,Q8WYF5,Q8WYF4,Q8WYF3,Q8WYF2,Q8WYF1,Q8WYF0,Q8WYE9,Q8WYE8,Q8WYE7,Q8WYE6,Q8WYE5,Q8WYE4,Q8WYE3,Q8WYE2,Q8WYE1,Q8WYD9,Q8WYD8,Q8WYD7,Q8WYD6,Q8WYD5,Q8WYD4,Q8WYD3,Q8WYD2,Q8WYD1,Q8WYD0,Q8WYC9,Q8WYC8,Q8WYC7,Q8WYC6,Q8WYC5,Q8WYC4,Q8WYC3,Q8WYC2,Q8WYC1,Q8WYC0,Q8WYB9,Q8WYB8,Q8WTQ2,Q7KZ40,Q7KYP7,Q548X2,Q14205,F2WSI7,E7EQS5"	"UPI000049E111"	"NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3"	""	""	""	"55/78"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"78f0fab0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27	"WGS"	FALSE
"7759"	"DMD"	1756	"mskcc.org"	"GRCh37"	"X"	31641409	31641409	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8217+4381C>T"	""	""	"ENST00000357033"	""	99	"63"	36	56	"56"	0	"DMD,intron_variant,,ENST00000357033,NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000378677,NM_004009.3,NM_004010.3,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000378707,NM_004013.2,NM_004014.2;DMD,intron_variant,,ENST00000359836,NM_004022.2;DMD,intron_variant,,ENST00000541735,NM_004020.3;DMD,intron_variant,,ENST00000343523,NM_004023.2;DMD,intron_variant,,ENST00000358062,;DMD,intron_variant,,ENST00000474231,NM_004021.2;"	"A"	"ENSG00000198947"	"ENST00000357033"	"Transcript"	"intron_variant"	"-/13956"	"-/11058"	"-/3685"	""	""	""	"1"	NA	-1	"DMD"	"HGNC"	2928	"protein_coding"	"YES"	"CCDS14233.1"	"ENSP00000354923"	""	"Q9UPB5,Q9UPB4,Q9UMK8,Q9UMK7,Q9UMG1,Q9UME2,Q9UEH4,Q8WYF6,Q8WYF5,Q8WYF4,Q8WYF3,Q8WYF2,Q8WYF1,Q8WYF0,Q8WYE9,Q8WYE8,Q8WYE7,Q8WYE6,Q8WYE5,Q8WYE4,Q8WYE3,Q8WYE2,Q8WYE1,Q8WYD9,Q8WYD8,Q8WYD7,Q8WYD6,Q8WYD5,Q8WYD4,Q8WYD3,Q8WYD2,Q8WYD1,Q8WYD0,Q8WYC9,Q8WYC8,Q8WYC7,Q8WYC6,Q8WYC5,Q8WYC4,Q8WYC3,Q8WYC2,Q8WYC1,Q8WYC0,Q8WYB9,Q8WYB8,Q8WTQ2,Q7KZ40,Q7KYP7,Q548X2,Q14205,F2WSI7,E7EQS5"	"UPI000049E111"	"NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3"	""	""	""	"55/78"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"78f0fce0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"7760"	"DMD"	1756	"mskcc.org"	"GRCh37"	"X"	32381185	32381185	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5155-110T>C"	""	""	"ENST00000357033"	""	47	"39"	8	23	"23"	0	"DMD,intron_variant,,ENST00000357033,NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000378677,NM_004009.3,NM_004010.3,NM_004014.2,NM_004012.3,NM_004011.3;DMD,downstream_gene_variant,,ENST00000420596,;DMD,downstream_gene_variant,,ENST00000448370,;DMD,intron_variant,,ENST00000488902,;"	"G"	"ENSG00000198947"	"ENST00000357033"	"Transcript"	"intron_variant"	"-/13956"	"-/11058"	"-/3685"	""	""	""	"1"	NA	-1	"DMD"	"HGNC"	2928	"protein_coding"	"YES"	"CCDS14233.1"	"ENSP00000354923"	""	"Q9UPB5,Q9UPB4,Q9UMK8,Q9UMK7,Q9UMG1,Q9UME2,Q9UEH4,Q8WYF6,Q8WYF5,Q8WYF4,Q8WYF3,Q8WYF2,Q8WYF1,Q8WYF0,Q8WYE9,Q8WYE8,Q8WYE7,Q8WYE6,Q8WYE5,Q8WYE4,Q8WYE3,Q8WYE2,Q8WYE1,Q8WYD9,Q8WYD8,Q8WYD7,Q8WYD6,Q8WYD5,Q8WYD4,Q8WYD3,Q8WYD2,Q8WYD1,Q8WYD0,Q8WYC9,Q8WYC8,Q8WYC7,Q8WYC6,Q8WYC5,Q8WYC4,Q8WYC3,Q8WYC2,Q8WYC1,Q8WYC0,Q8WYB9,Q8WYB8,Q8WTQ2,Q7KZ40,Q7KYP7,Q548X2,Q14205,F2WSI7,E7EQS5"	"UPI000049E111"	"NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3"	""	""	""	"36/78"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"78f14510-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170212765957447	"WGS"	FALSE
"7761"	"DMD"	1756	"mskcc.org"	"GRCh37"	"X"	32615770	32615770	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1483-1777C>G"	""	""	"ENST00000357033"	""	112	"79"	33	60	"60"	0	"DMD,intron_variant,,ENST00000357033,NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000378677,NM_004009.3,NM_004010.3,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000288447,;DMD,intron_variant,,ENST00000447523,;DMD,intron_variant,,ENST00000420596,;DMD,intron_variant,,ENST00000448370,;DMD,intron_variant,,ENST00000488902,;DMD,intron_variant,,ENST00000480751,;"	"C"	"ENSG00000198947"	"ENST00000357033"	"Transcript"	"intron_variant"	"-/13956"	"-/11058"	"-/3685"	""	""	""	"1"	NA	-1	"DMD"	"HGNC"	2928	"protein_coding"	"YES"	"CCDS14233.1"	"ENSP00000354923"	""	"Q9UPB5,Q9UPB4,Q9UMK8,Q9UMK7,Q9UMG1,Q9UME2,Q9UEH4,Q8WYF6,Q8WYF5,Q8WYF4,Q8WYF3,Q8WYF2,Q8WYF1,Q8WYF0,Q8WYE9,Q8WYE8,Q8WYE7,Q8WYE6,Q8WYE5,Q8WYE4,Q8WYE3,Q8WYE2,Q8WYE1,Q8WYD9,Q8WYD8,Q8WYD7,Q8WYD6,Q8WYD5,Q8WYD4,Q8WYD3,Q8WYD2,Q8WYD1,Q8WYD0,Q8WYC9,Q8WYC8,Q8WYC7,Q8WYC6,Q8WYC5,Q8WYC4,Q8WYC3,Q8WYC2,Q8WYC1,Q8WYC0,Q8WYB9,Q8WYB8,Q8WTQ2,Q7KZ40,Q7KYP7,Q548X2,Q14205,F2WSI7,E7EQS5"	"UPI000049E111"	"NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3"	""	""	""	"12/78"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"78f15118-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294642857142857	"WGS"	FALSE
"7762"	"DMD"	1756	"mskcc.org"	"GRCh37"	"X"	32726307	32726307	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.650-8897C>T"	""	""	"ENST00000357033"	""	95	"74"	21	56	"56"	0	"DMD,intron_variant,,ENST00000357033,NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000378677,NM_004009.3,NM_004010.3,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000288447,;DMD,intron_variant,,ENST00000447523,;DMD,intron_variant,,ENST00000420596,;DMD,intron_variant,,ENST00000448370,;DMD,intron_variant,,ENST00000488902,;DMD,intron_variant,,ENST00000480751,;"	"A"	"ENSG00000198947"	"ENST00000357033"	"Transcript"	"intron_variant"	"-/13956"	"-/11058"	"-/3685"	""	""	""	"1"	NA	-1	"DMD"	"HGNC"	2928	"protein_coding"	"YES"	"CCDS14233.1"	"ENSP00000354923"	""	"Q9UPB5,Q9UPB4,Q9UMK8,Q9UMK7,Q9UMG1,Q9UME2,Q9UEH4,Q8WYF6,Q8WYF5,Q8WYF4,Q8WYF3,Q8WYF2,Q8WYF1,Q8WYF0,Q8WYE9,Q8WYE8,Q8WYE7,Q8WYE6,Q8WYE5,Q8WYE4,Q8WYE3,Q8WYE2,Q8WYE1,Q8WYD9,Q8WYD8,Q8WYD7,Q8WYD6,Q8WYD5,Q8WYD4,Q8WYD3,Q8WYD2,Q8WYD1,Q8WYD0,Q8WYC9,Q8WYC8,Q8WYC7,Q8WYC6,Q8WYC5,Q8WYC4,Q8WYC3,Q8WYC2,Q8WYC1,Q8WYC0,Q8WYB9,Q8WYB8,Q8WTQ2,Q7KZ40,Q7KYP7,Q548X2,Q14205,F2WSI7,E7EQS5"	"UPI000049E111"	"NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3"	""	""	""	"7/78"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"78f15384-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221052631578947	"WGS"	FALSE
"7763"	"DMD"	1756	"mskcc.org"	"GRCh37"	"X"	32775638	32775638	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.649+51972C>A"	""	""	"ENST00000357033"	""	96	"65"	31	59	"59"	0	"DMD,intron_variant,,ENST00000357033,NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000378677,NM_004009.3,NM_004010.3,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000288447,;DMD,intron_variant,,ENST00000447523,;DMD,intron_variant,,ENST00000420596,;DMD,intron_variant,,ENST00000448370,;DMD-AS3,downstream_gene_variant,,ENST00000439592,;DMD,intron_variant,,ENST00000488902,;DMD,intron_variant,,ENST00000480751,;"	"T"	"ENSG00000198947"	"ENST00000357033"	"Transcript"	"intron_variant"	"-/13956"	"-/11058"	"-/3685"	""	""	""	"1"	NA	-1	"DMD"	"HGNC"	2928	"protein_coding"	"YES"	"CCDS14233.1"	"ENSP00000354923"	""	"Q9UPB5,Q9UPB4,Q9UMK8,Q9UMK7,Q9UMG1,Q9UME2,Q9UEH4,Q8WYF6,Q8WYF5,Q8WYF4,Q8WYF3,Q8WYF2,Q8WYF1,Q8WYF0,Q8WYE9,Q8WYE8,Q8WYE7,Q8WYE6,Q8WYE5,Q8WYE4,Q8WYE3,Q8WYE2,Q8WYE1,Q8WYD9,Q8WYD8,Q8WYD7,Q8WYD6,Q8WYD5,Q8WYD4,Q8WYD3,Q8WYD2,Q8WYD1,Q8WYD0,Q8WYC9,Q8WYC8,Q8WYC7,Q8WYC6,Q8WYC5,Q8WYC4,Q8WYC3,Q8WYC2,Q8WYC1,Q8WYC0,Q8WYB9,Q8WYB8,Q8WTQ2,Q7KZ40,Q7KYP7,Q548X2,Q14205,F2WSI7,E7EQS5"	"UPI000049E111"	"NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3"	""	""	""	"7/78"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"78f15488-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322916666666667	"WGS"	FALSE
"7764"	"DMD"	1756	"mskcc.org"	"GRCh37"	"X"	32817793	32817793	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.649+9817G>T"	""	""	"ENST00000357033"	""	75	"54"	21	60	"60"	0	"DMD,intron_variant,,ENST00000357033,NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000378677,NM_004009.3,NM_004010.3,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000288447,;DMD,intron_variant,,ENST00000447523,;DMD,intron_variant,,ENST00000420596,;DMD,intron_variant,,ENST00000448370,;DMD,intron_variant,,ENST00000488902,;DMD,intron_variant,,ENST00000480751,;"	"A"	"ENSG00000198947"	"ENST00000357033"	"Transcript"	"intron_variant"	"-/13956"	"-/11058"	"-/3685"	""	""	""	"1"	NA	-1	"DMD"	"HGNC"	2928	"protein_coding"	"YES"	"CCDS14233.1"	"ENSP00000354923"	""	"Q9UPB5,Q9UPB4,Q9UMK8,Q9UMK7,Q9UMG1,Q9UME2,Q9UEH4,Q8WYF6,Q8WYF5,Q8WYF4,Q8WYF3,Q8WYF2,Q8WYF1,Q8WYF0,Q8WYE9,Q8WYE8,Q8WYE7,Q8WYE6,Q8WYE5,Q8WYE4,Q8WYE3,Q8WYE2,Q8WYE1,Q8WYD9,Q8WYD8,Q8WYD7,Q8WYD6,Q8WYD5,Q8WYD4,Q8WYD3,Q8WYD2,Q8WYD1,Q8WYD0,Q8WYC9,Q8WYC8,Q8WYC7,Q8WYC6,Q8WYC5,Q8WYC4,Q8WYC3,Q8WYC2,Q8WYC1,Q8WYC0,Q8WYB9,Q8WYB8,Q8WTQ2,Q7KZ40,Q7KYP7,Q548X2,Q14205,F2WSI7,E7EQS5"	"UPI000049E111"	"NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3"	""	""	""	"7/78"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"78f15a6e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"7765"	"DMD"	1756	"mskcc.org"	"GRCh37"	"X"	32933334	32933334	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.94-65397C>G"	""	""	"ENST00000357033"	""	92	"62"	30	59	"59"	0	"DMD,intron_variant,,ENST00000357033,NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000378677,NM_004009.3,NM_004010.3,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000288447,;DMD,intron_variant,,ENST00000420596,;DMD,intron_variant,,ENST00000448370,;DMD,intron_variant,,ENST00000488902,;DMD,intron_variant,,ENST00000472681,;"	"C"	"ENSG00000198947"	"ENST00000357033"	"Transcript"	"intron_variant"	"-/13956"	"-/11058"	"-/3685"	""	""	""	"1"	NA	-1	"DMD"	"HGNC"	2928	"protein_coding"	"YES"	"CCDS14233.1"	"ENSP00000354923"	""	"Q9UPB5,Q9UPB4,Q9UMK8,Q9UMK7,Q9UMG1,Q9UME2,Q9UEH4,Q8WYF6,Q8WYF5,Q8WYF4,Q8WYF3,Q8WYF2,Q8WYF1,Q8WYF0,Q8WYE9,Q8WYE8,Q8WYE7,Q8WYE6,Q8WYE5,Q8WYE4,Q8WYE3,Q8WYE2,Q8WYE1,Q8WYD9,Q8WYD8,Q8WYD7,Q8WYD6,Q8WYD5,Q8WYD4,Q8WYD3,Q8WYD2,Q8WYD1,Q8WYD0,Q8WYC9,Q8WYC8,Q8WYC7,Q8WYC6,Q8WYC5,Q8WYC4,Q8WYC3,Q8WYC2,Q8WYC1,Q8WYC0,Q8WYB9,Q8WYB8,Q8WTQ2,Q7KZ40,Q7KYP7,Q548X2,Q14205,F2WSI7,E7EQS5"	"UPI000049E111"	"NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3"	""	""	""	"2/78"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"78f16d88-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326086956521739	"WGS"	FALSE
"7766"	"DMD"	1756	"mskcc.org"	"GRCh37"	"X"	32933335	32933335	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.94-65398C>A"	""	""	"ENST00000357033"	""	94	"63"	31	58	"58"	0	"DMD,intron_variant,,ENST00000357033,NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000378677,NM_004009.3,NM_004010.3,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000288447,;DMD,intron_variant,,ENST00000420596,;DMD,intron_variant,,ENST00000448370,;DMD,intron_variant,,ENST00000488902,;DMD,intron_variant,,ENST00000472681,;"	"T"	"ENSG00000198947"	"ENST00000357033"	"Transcript"	"intron_variant"	"-/13956"	"-/11058"	"-/3685"	""	""	""	"1"	NA	-1	"DMD"	"HGNC"	2928	"protein_coding"	"YES"	"CCDS14233.1"	"ENSP00000354923"	""	"Q9UPB5,Q9UPB4,Q9UMK8,Q9UMK7,Q9UMG1,Q9UME2,Q9UEH4,Q8WYF6,Q8WYF5,Q8WYF4,Q8WYF3,Q8WYF2,Q8WYF1,Q8WYF0,Q8WYE9,Q8WYE8,Q8WYE7,Q8WYE6,Q8WYE5,Q8WYE4,Q8WYE3,Q8WYE2,Q8WYE1,Q8WYD9,Q8WYD8,Q8WYD7,Q8WYD6,Q8WYD5,Q8WYD4,Q8WYD3,Q8WYD2,Q8WYD1,Q8WYD0,Q8WYC9,Q8WYC8,Q8WYC7,Q8WYC6,Q8WYC5,Q8WYC4,Q8WYC3,Q8WYC2,Q8WYC1,Q8WYC0,Q8WYB9,Q8WYB8,Q8WTQ2,Q7KZ40,Q7KYP7,Q548X2,Q14205,F2WSI7,E7EQS5"	"UPI000049E111"	"NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3"	""	""	""	"2/78"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"78f16ea0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329787234042553	"WGS"	FALSE
"7767"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	34185169	34185169	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"64"	27	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"78f1bd6a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296703296703297	"WGS"	FALSE
"7768"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	39356307	39356307	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"80"	7	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"78f32006-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"7769"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	39802609	39802609	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"71"	25	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"78f34c34-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260416666666667	"WGS"	FALSE
"7770"	"USP9X"	8239	"mskcc.org"	"GRCh37"	"X"	41071045	41071045	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5189+1110T>A"	""	""	"ENST00000324545"	""	72	"68"	4	30	"30"	0	"USP9X,intron_variant,,ENST00000324545,NM_001039590.2,NM_001039591.2;USP9X,intron_variant,,ENST00000378308,;USP9X,downstream_gene_variant,,ENST00000487625,;"	"A"	"ENSG00000124486"	"ENST00000324545"	"Transcript"	"intron_variant"	"-/12401"	"-/7713"	"-/2570"	""	""	""	"1"	NA	1	"USP9X"	"HGNC"	12632	"protein_coding"	"YES"	"CCDS43930.1"	"ENSP00000316357"	"Q93008"	""	"UPI00001AF419"	"NM_001039590.2,NM_001039591.2"	""	""	""	"33/44"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"78f40764-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"7771"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	42613162	42613162	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"66"	27	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"78f4977e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290322580645161	"WGS"	FALSE
"7772"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	43911987	43911987	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"86"	32	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"78f504ac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271186440677966	"WGS"	FALSE
"7773"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	49569540	49569540	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"65"	32	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"78f7f78e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329896907216495	"WGS"	FALSE
"7774"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	50255728	50255728	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	128	"97"	31	69	"69"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"78f82b3c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2421875	"WGS"	FALSE
"7775"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	51872773	51872773	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"72"	33	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"78f89e82-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314285714285714	"WGS"	FALSE
"7776"	"IQSEC2"	23096	"mskcc.org"	"GRCh37"	"X"	53261454	53261454	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000396435"	""	85	"62"	23	47	"47"	0	"IQSEC2,downstream_gene_variant,,ENST00000396435,NM_001111125.2;IQSEC2,downstream_gene_variant,,ENST00000375368,;IQSEC2,downstream_gene_variant,,ENST00000375365,NM_015075.1;"	"T"	"ENSG00000124313"	"ENST00000396435"	"Transcript"	"downstream_gene_variant"	"-/6011"	"-/4467"	"-/1488"	""	""	""	"1"	"604"	-1	"IQSEC2"	"HGNC"	29059	"protein_coding"	"YES"	"CCDS48130.1"	"ENSP00000379712"	"Q5JU85"	"C7SDG2"	"UPI00001C207D"	"NM_001111125.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"78f91ac4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270588235294118	"WGS"	FALSE
"7777"	"WNK3"	65267	"mskcc.org"	"GRCh37"	"X"	54351136	54351136	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.537+8434C>T"	""	""	"ENST00000354646"	""	104	"68"	36	48	"48"	0	"WNK3,intron_variant,,ENST00000354646,NM_020922.4;WNK3,intron_variant,,ENST00000375169,NM_001002838.3;WNK3,intron_variant,,ENST00000375159,;"	"A"	"ENSG00000196632"	"ENST00000354646"	"Transcript"	"intron_variant"	"-/11341"	"-/5403"	"-/1800"	""	""	""	"1"	NA	-1	"WNK3"	"HGNC"	14543	"protein_coding"	"YES"	"CCDS14357.1"	"ENSP00000346667"	"Q9BYP7"	"B1AQN8"	"UPI00001AF003"	"NM_020922.4"	""	""	""	"2/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"78f9a6ec-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"7778"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	54425856	54425856	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"60"	7	35	"35"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"78f9bd62-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104477611940299	"WGS"	FALSE
"7779"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	54766265	54766265	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs746662667"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"77"	22	54	"53"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs746662667"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"78f9ea44-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"7780"	"TRO"	7216	"mskcc.org"	"GRCh37"	"X"	54956343	54956343	"+"	"Silent"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3186A>T"	"p.="	"p.A1062A"	"ENST00000173898"	"12/13"	100	"95"	5	51	"51"	0	"TRO,synonymous_variant,p.=,ENST00000173898,NM_001039705.2;TRO,synonymous_variant,p.=,ENST00000375041,NM_001271184.1;TRO,synonymous_variant,p.=,ENST00000420798,NM_001271183.1;TRO,intron_variant,,ENST00000319167,NM_016157.3;TRO,intron_variant,,ENST00000375022,NM_177556.2;TRO,intron_variant,,ENST00000399736,NM_177557.2;PFKFB1,downstream_gene_variant,,ENST00000375006,NM_001271804.1,NM_002625.3;PFKFB1,downstream_gene_variant,,ENST00000545676,NM_001271805.1;PFKFB1,downstream_gene_variant,,ENST00000374992,;TRO,downstream_gene_variant,,ENST00000431115,;SNORA11,downstream_gene_variant,,ENST00000408823,;TRO,intron_variant,,ENST00000475183,;TRO,downstream_gene_variant,,ENST00000484031,;TRO,downstream_gene_variant,,ENST00000492142,;TRO,non_coding_transcript_exon_variant,,ENST00000492706,;TRO,intron_variant,,ENST00000445561,;TRO,downstream_gene_variant,,ENST00000469211,;"	"T"	"ENSG00000067445"	"ENST00000173898"	"Transcript"	"synonymous_variant"	"3298/4647"	"3186/4296"	"1062/1431"	"A"	"gcA/gcT"	""	"1"	NA	1	"TRO"	"HGNC"	12326	"protein_coding"	"YES"	"CCDS43959.1"	"ENSP00000173898"	"Q12816"	"F5GY27,E7ERU6,B1AKF6,B1AKF5,B1AKF4,B1AKF3,B1AKF2,B1AKE7,B1AKE6,B1AKE5"	"UPI000021208F"	"NM_001039705.2"	""	""	"12/13"	""	"Superfamily_domains:SSF141571"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"78f9f958-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	"VQSRTrancheSNP99.60to99.80"	"FALSE"	0.05	"WGS"	FALSE
"7781"	"AL353698.1"	0	"mskcc.org"	"GRCh37"	"X"	56096588	56096588	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000433279"	""	91	"83"	8	50	"50"	0	"AL353698.1,upstream_gene_variant,,ENST00000433279,;"	"G"	"ENSG00000233889"	"ENST00000433279"	"Transcript"	"upstream_gene_variant"	"-/1258"	"-/228"	"-/75"	""	""	""	"1"	"4169"	1	"AL353698.1"	"Clone_based_ensembl_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000392610"	""	"E7EML2"	"UPI0000457846"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"78fa38b4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0879120879120879	"WGS"	FALSE
"7782"	"RP11-622K12.1"	550643	"mskcc.org"	"GRCh37"	"X"	56751066	56751066	"+"	"5'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000374922"	""	83	"57"	26	51	"51"	0	"RP11-622K12.1,upstream_gene_variant,,ENST00000423617,;RP11-622K12.1,upstream_gene_variant,,ENST00000451583,;RP11-622K12.1,upstream_gene_variant,,ENST00000374922,;"	"C"	"ENSG00000204272"	"ENST00000374922"	"Transcript"	"upstream_gene_variant"	"-/1529"	""	""	""	""	""	"1"	"4626"	1	"RP11-622K12.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"78fa72c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313253012048193	"WGS"	FALSE
"7783"	"RP11-357C3.3"	92249	"mskcc.org"	"GRCh37"	"X"	62767847	62767847	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.162+12865T>G"	""	""	"ENST00000609401"	""	98	"70"	28	64	"64"	0	"RP11-357C3.3,intron_variant,,ENST00000609401,;RP11-357C3.3,intron_variant,,ENST00000609143,;RP11-357C3.3,intron_variant,,ENST00000608788,;RP11-357C3.3,intron_variant,,ENST00000610234,;RP11-357C3.3,intron_variant,,ENST00000610088,;RP11-357C3.3,intron_variant,,ENST00000433061,;"	"C"	"ENSG00000235437"	"ENST00000609401"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2886"	""	""	""	""	""	"1"	NA	-1	"RP11-357C3.3"	"Clone_based_vega_gene"	NA	"sense_overlapping"	""	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"78fe35e0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"7784"	"ARHGEF9"	23229	"mskcc.org"	"GRCh37"	"X"	62952657	62952657	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.10-8066T>G"	""	""	"ENST00000253401"	""	108	"102"	6	67	"67"	0	"ARHGEF9,intron_variant,,ENST00000253401,NM_015185.2;ARHGEF9,intron_variant,,ENST00000374870,NM_001173480.1;ARHGEF9,intron_variant,,ENST00000437457,NM_001173479.1;ARHGEF9,intron_variant,,ENST00000374872,;ARHGEF9,intron_variant,,ENST00000374878,;ARHGEF9,intron_variant,,ENST00000495564,;"	"C"	"ENSG00000131089"	"ENST00000253401"	"Transcript"	"intron_variant"	"-/5413"	"-/1551"	"-/516"	""	""	""	"1"	NA	-1	"ARHGEF9"	"HGNC"	14561	"protein_coding"	"YES"	"CCDS35315.1"	"ENSP00000253401"	"O43307"	"B1AMR3"	"UPI000006F940"	"NM_015185.2"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"78fe3eaa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"7785"	"MTMR8"	55613	"mskcc.org"	"GRCh37"	"X"	63472706	63472706	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1102-27152C>T"	""	""	"ENST00000453546"	""	102	"66"	36	61	"61"	0	"MTMR8,intron_variant,,ENST00000453546,;"	"A"	"ENSG00000102043"	"ENST00000453546"	"Transcript"	"intron_variant"	"-/2200"	"-/2082"	"-/693"	""	""	""	"1"	NA	-1	"MTMR8"	"HGNC"	16825	"protein_coding"	""	""	"ENSP00000394003"	""	"B4DQL0"	"UPI00017A778B"	""	""	""	""	"9/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"78fe663c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WGS"	FALSE
"7786"	"OPHN1"	4983	"mskcc.org"	"GRCh37"	"X"	67548266	67548266	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.155-29328T>C"	""	""	"ENST00000355520"	""	97	"89"	8	47	"47"	0	"OPHN1,intron_variant,,ENST00000355520,NM_002547.2;OPHN1,intron_variant,,ENST00000540071,;OPHN1,intron_variant,,ENST00000486068,;"	"G"	"ENSG00000079482"	"ENST00000355520"	"Transcript"	"intron_variant"	"-/7879"	"-/2409"	"-/802"	""	""	""	"1"	NA	-1	"OPHN1"	"HGNC"	8148	"protein_coding"	"YES"	"CCDS14388.1"	"ENSP00000347710"	"O60890"	"Q7Z2H1"	"UPI000003319E"	"NM_002547.2"	""	""	""	"2/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"78ffa7a4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0824742268041237	"WGS"	FALSE
"7787"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	68539153	68539153	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"75"	30	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"79000938-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"7788"	"EDA"	1896	"mskcc.org"	"GRCh37"	"X"	69039966	69039966	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.397-136911T>C"	""	""	"ENST00000374552"	""	104	"81"	23	54	"53"	1	"EDA,intron_variant,,ENST00000374552,NM_001399.4;EDA,intron_variant,,ENST00000374553,NM_001005609.1,NM_001005612.2;EDA,intron_variant,,ENST00000524573,;EDA,intron_variant,,ENST00000527388,NM_001005613.2;EDA,intron_variant,,ENST00000525810,NM_001005610.2;EDA,intron_variant,,ENST00000503592,;EDA,intron_variant,,ENST00000502251,;EDA,intron_variant,,ENST00000510681,;EDA,intron_variant,,ENST00000530321,;EDA,intron_variant,,ENST00000533317,;EDA,intron_variant,,ENST00000374548,;"	"C"	"ENSG00000158813"	"ENST00000374552"	"Transcript"	"intron_variant"	"-/5278"	"-/1176"	"-/391"	""	""	""	"1"	NA	1	"EDA"	"HGNC"	3157	"protein_coding"	"YES"	"CCDS14394.1"	"ENSP00000363680"	"Q92838"	"D6RA95"	"UPI0000052244"	"NM_001399.4"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"790022ce-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221153846153846	"WGS"	FALSE
"7789"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	70257521	70257521	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	58	"53"	5	43	"43"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"7900a71c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0862068965517241	"WGS"	FALSE
"7790"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	73151160	73151160	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	34	"29"	5	23	"23"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"7901f716-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"7791"	"MKRN5P"	0	"mskcc.org"	"GRCh37"	"X"	73387324	73387324	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000445263"	""	23	"18"	5	12	"12"	0	"FTX,intron_variant,,ENST00000602812,;FTX,intron_variant,,ENST00000603672,;FTX,intron_variant,,ENST00000602420,;MKRN5P,upstream_gene_variant,,ENST00000445263,;"	"T"	"ENSG00000224430"	"ENST00000445263"	"Transcript"	"upstream_gene_variant"	"-/1467"	""	""	""	""	""	"1"	"4961"	-1	"MKRN5P"	"HGNC"	7117	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"79020fb2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"7792"	"UPRT"	139596	"mskcc.org"	"GRCh37"	"X"	74489414	74489414	"+"	"5'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000373383"	""	119	"83"	36	60	"60"	0	"UPRT,upstream_gene_variant,,ENST00000373379,;UPRT,upstream_gene_variant,,ENST00000373383,NM_145052.3;UPRT,upstream_gene_variant,,ENST00000531704,;UPRT,upstream_gene_variant,,ENST00000462237,;UPRT,upstream_gene_variant,,ENST00000373373,;"	"G"	"ENSG00000094841"	"ENST00000373383"	"Transcript"	"upstream_gene_variant"	"-/2186"	"-/930"	"-/309"	""	""	""	"1"	"4509"	1	"UPRT"	"HGNC"	28334	"protein_coding"	"YES"	"CCDS14429.1"	"ENSP00000362481"	"Q96BW1"	"E9PSD7,A8KAF9"	"UPI000004B62E"	"NM_145052.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"79026f7a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302521008403361	"WGS"	FALSE
"7793"	"RP11-212D3.4"	0	"mskcc.org"	"GRCh37"	"X"	75121092	75121092	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000413763"	""	101	"88"	13	57	"57"	0	"RP11-212D3.4,upstream_gene_variant,,ENST00000413763,;AL451105.1,upstream_gene_variant,,ENST00000545116,;"	"C"	"ENSG00000226854"	"ENST00000413763"	"Transcript"	"upstream_gene_variant"	"-/1234"	""	""	""	""	""	"1"	"1848"	1	"RP11-212D3.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7902a1e8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128712871287129	"WGS"	FALSE
"7794"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	75561929	75561929	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"88"	33	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7902b764-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"7795"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	76127561	76127561	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"63"	31	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7902e9fa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329787234042553	"WGS"	FALSE
"7796"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	76401816	76401816	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"rs782251042"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"69"	31	40	"40"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs782251042"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0003"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"79030098-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.31	"WGS"	FALSE
"7797"	"UBE2V1P7"	0	"mskcc.org"	"GRCh37"	"X"	77805343	77805343	"+"	"3'Flank"	"SNP"	"A"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000446395"	""	114	"75"	39	66	"66"	0	"UBE2V1P7,downstream_gene_variant,,ENST00000446395,;"	"C"	"ENSG00000235061"	"ENST00000446395"	"Transcript"	"downstream_gene_variant"	"-/340"	""	""	""	""	""	"1"	"4566"	-1	"UBE2V1P7"	"HGNC"	44890	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"790373ca-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342105263157895	"WGS"	FALSE
"7798"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	78980999	78980999	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs188891832"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"68"	37	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs188891832"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7903c3de-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352380952380952	"WGS"	FALSE
"7799"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	79159870	79159870	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"68"	6	32	"32"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"7903d61c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"7800"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	79475076	79475076	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"76"	28	62	"62"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"7903f61a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269230769230769	"WGS"	FALSE
"7801"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	79576302	79576302	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs764938822"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"65"	26	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs764938822"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0008"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.0031"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7903f91c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"7802"	"BRWD3"	254065	"mskcc.org"	"GRCh37"	"X"	79963712	79963712	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2476-710A>C"	""	""	"ENST00000373275"	""	93	"84"	9	43	"43"	0	"BRWD3,intron_variant,,ENST00000373275,NM_153252.4;BRWD3,intron_variant,,ENST00000473691,;RP11-325E14.5,upstream_gene_variant,,ENST00000415494,;"	"G"	"ENSG00000165288"	"ENST00000373275"	"Transcript"	"intron_variant"	"-/11381"	"-/5409"	"-/1802"	""	""	""	"1"	NA	-1	"BRWD3"	"HGNC"	17342	"protein_coding"	"YES"	"CCDS14447.1"	"ENSP00000362372"	"Q6RI45"	""	"UPI000045785B"	"NM_153252.4"	""	""	""	"21/40"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"790418f2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"7803"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	80697800	80697800	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"55"	27	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"79043eea-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329268292682927	"WGS"	FALSE
"7804"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	80743509	80743509	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"73"	34	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"79044106-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317757009345794	"WGS"	FALSE
"7805"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	81795990	81795990	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"77"	28	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"790495c0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"7806"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	82866326	82866326	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"71"	38	63	"63"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"7904f240-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.348623853211009	"WGS"	FALSE
"7807"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	83496389	83496389	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"57"	34	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"79051d9c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373626373626374	"WGS"	FALSE
"7808"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	83826581	83826581	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"70"	23	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"790532f0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247311827956989	"WGS"	FALSE
"7809"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	84731222	84731222	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	123	"85"	38	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"79056504-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308943089430894	"WGS"	FALSE
"7810"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	84818569	84818569	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	40	"33"	7	22	"22"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"79056964-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175	"WGS"	FALSE
"7811"	"DACH2"	117154	"mskcc.org"	"GRCh37"	"X"	85931676	85931676	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.773-18348T>G"	""	""	"ENST00000373125"	""	105	"72"	33	54	"54"	0	"DACH2,intron_variant,,ENST00000373131,NM_001139514.1;DACH2,intron_variant,,ENST00000373125,NM_053281.3;DACH2,intron_variant,,ENST00000508860,NM_001139515.1;DACH2,intron_variant,,ENST00000510272,;DACH2,intron_variant,,ENST00000461604,;DACH2,intron_variant,,ENST00000506327,;"	"G"	"ENSG00000126733"	"ENST00000373125"	"Transcript"	"intron_variant"	"-/2232"	"-/1800"	"-/599"	""	""	""	"1"	NA	1	"DACH2"	"HGNC"	16814	"protein_coding"	"YES"	"CCDS14455.1"	"ENSP00000362217"	"Q96NX9"	""	"UPI00000717B4"	"NM_053281.3"	""	""	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"7905d188-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314285714285714	"WGS"	FALSE
"7812"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	86295477	86295477	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"92"	26	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"7905e6fa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220338983050847	"WGS"	FALSE
"7813"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	86362368	86362368	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"62"	34	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"7905eaf6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354166666666667	"WGS"	FALSE
"7814"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	86710849	86710849	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"96"	13	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"7906061c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119266055045872	"WGS"	FALSE
"7815"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	87900097	87900097	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"68"	32	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7906697c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32	"WGS"	FALSE
"7816"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	89455580	89455580	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"63"	20	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"7907e748-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240963855421687	"WGS"	FALSE
"7817"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	90135887	90135887	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"70"	36	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"79082cf8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.339622641509434	"WGS"	FALSE
"7818"	"PCDH11X"	27328	"mskcc.org"	"GRCh37"	"X"	91747922	91747922	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3367+24601G>T"	""	""	"ENST00000373094"	""	93	"68"	25	75	"75"	0	"PCDH11X,intron_variant,,ENST00000373094,NM_032968.3;PCDH11X,intron_variant,,ENST00000373097,NM_032969.3;PCDH11X,intron_variant,,ENST00000373088,NM_001168362.1;PCDH11X,intron_variant,,ENST00000406881,NM_001168360.1;PCDH11X,intron_variant,,ENST00000504220,NM_001168361.1;PCDH11X,intron_variant,,ENST00000361655,NM_001168363.1;PCDH11X,intron_variant,,ENST00000298274,;"	"T"	"ENSG00000102290"	"ENST00000373094"	"Transcript"	"intron_variant"	"-/9176"	"-/4044"	"-/1347"	""	""	""	"1"	NA	1	"PCDH11X"	"HGNC"	8656	"protein_coding"	"YES"	"CCDS14461.1"	"ENSP00000362186"	"Q9BZA7"	"Q70LT5,Q70LT4"	"UPI0000070BD8"	"NM_032968.3"	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7908b60a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"7819"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	92770456	92770456	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"64"	32	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7908f994-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"7820"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	93535262	93535262	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"70"	8	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"79092766-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"7821"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	93729080	93729080	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"75"	30	71	"71"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"790935ee-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"7822"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	94802565	94802565	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"67"	28	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"79099ae8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294736842105263	"WGS"	FALSE
"7823"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	94812876	94812876	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"75"	30	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"79099c28-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"7824"	"DIAPH2"	1730	"mskcc.org"	"GRCh37"	"X"	96337009	96337009	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2247+6749G>C"	""	""	"ENST00000324765"	""	68	"61"	7	34	"34"	0	"DIAPH2,intron_variant,,ENST00000324765,;DIAPH2,intron_variant,,ENST00000373061,NM_006729.4;DIAPH2,intron_variant,,ENST00000355827,NM_007309.3;DIAPH2,intron_variant,,ENST00000373049,;DIAPH2,intron_variant,,ENST00000373054,;"	"C"	"ENSG00000147202"	"ENST00000324765"	"Transcript"	"intron_variant"	"-/9333"	"-/3306"	"-/1101"	""	""	""	"1"	NA	1	"DIAPH2"	"HGNC"	2877	"protein_coding"	"YES"	"CCDS14467.1"	"ENSP00000321348"	"O60879"	""	"UPI00001293C8"	""	""	""	""	"19/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"790a1982-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102941176470588	"WGS"	FALSE
"7825"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	97999295	97999295	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"71"	23	79	"79"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"790ab586-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24468085106383	"WGS"	FALSE
"7826"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	98186627	98186627	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"67"	26	69	"69"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"790abefa-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279569892473118	"WGS"	FALSE
"7827"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	98234528	98234528	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"90"	6	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"790ac224-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"7828"	"XRCC6P5"	442459	"mskcc.org"	"GRCh37"	"X"	98712154	98712154	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000399535"	""	109	"88"	21	60	"60"	0	"XRCC6P5,downstream_gene_variant,,ENST00000399535,;"	"A"	"ENSG00000215070"	"ENST00000399535"	"Transcript"	"downstream_gene_variant"	"-/1347"	""	""	""	""	""	"1"	"4446"	-1	"XRCC6P5"	"HGNC"	45187	"processed_pseudogene"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"790ad5ac-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192660550458716	"WGS"	FALSE
"7829"	"CSTF2"	1478	"mskcc.org"	"GRCh37"	"X"	100094004	100094004	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*3+651G>T"	""	""	"ENST00000372972"	""	88	"60"	28	61	"61"	0	"CSTF2,intron_variant,,ENST00000415585,;CSTF2,intron_variant,,ENST00000372972,NM_001325.2;NOX1,downstream_gene_variant,,ENST00000372966,NM_001271815.1,NM_013955.2,NM_007052.4;NOX1,downstream_gene_variant,,ENST00000217885,;NOX1,downstream_gene_variant,,ENST00000372960,;NOX1,downstream_gene_variant,,ENST00000427768,;NOX1,downstream_gene_variant,,ENST00000372964,;CSTF2,intron_variant,,ENST00000475126,;"	"T"	"ENSG00000101811"	"ENST00000372972"	"Transcript"	"intron_variant"	"-/1958"	"-/1734"	"-/577"	""	""	""	"1"	NA	1	"CSTF2"	"HGNC"	2484	"protein_coding"	"YES"	"CCDS14473.1"	"ENSP00000362063"	"P33240"	""	"UPI000003BCAF"	"NM_001325.2"	""	""	""	"13/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"790b348e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318181818181818	"WGS"	FALSE
"7830"	"TRMT2B"	79979	"mskcc.org"	"GRCh37"	"X"	100299029	100299029	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-23-1728C>G"	""	""	"ENST00000372936"	""	84	"77"	7	50	"50"	0	"TRMT2B,intron_variant,,ENST00000338687,;TRMT2B,intron_variant,,ENST00000372936,NM_024917.5;TRMT2B,intron_variant,,ENST00000545398,NM_001167972.1;TRMT2B,intron_variant,,ENST00000372939,NM_001167971.1;TRMT2B,intron_variant,,ENST00000372935,NM_001167970.1;TRMT2B,intron_variant,,ENST00000372931,;TRMT2B-AS1,intron_variant,,ENST00000443801,;TRMT2B,intron_variant,,ENST00000478422,;"	"C"	"ENSG00000188917"	"ENST00000372936"	"Transcript"	"intron_variant"	"-/3327"	"-/1515"	"-/504"	""	""	""	"1"	NA	-1	"TRMT2B"	"HGNC"	25748	"protein_coding"	"YES"	"CCDS14477.1"	"ENSP00000362027"	"Q96GJ1"	""	"UPI0000070468"	"NM_024917.5"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"790b4c26-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"7831"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	101017072	101017072	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"90"	5	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"790bc818-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0526315789473684	"WGS"	FALSE
"7832"	"BHLHB9"	80823	"mskcc.org"	"GRCh37"	"X"	101982815	101982815	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-393+6796A>G"	""	""	"ENST00000457056"	""	88	"65"	23	52	"52"	0	"BHLHB9,intron_variant,,ENST00000457056,NM_001142527.1,NM_001142526.1,NM_001142525.1,NM_001142528.1,NM_001142524.1;BHLHB9,intron_variant,,ENST00000361229,NM_030639.2;BHLHB9,intron_variant,,ENST00000483294,;BHLHB9,intron_variant,,ENST00000486988,;"	"G"	"ENSG00000198908"	"ENST00000457056"	"Transcript"	"intron_variant"	"-/4082"	"-/1644"	"-/547"	""	""	""	"1"	NA	1	"BHLHB9"	"HGNC"	29353	"protein_coding"	""	"CCDS14502.1"	"ENSP00000403226"	"Q6PI77"	""	"UPI00001C1D50"	"NM_001142527.1,NM_001142526.1,NM_001142525.1,NM_001142528.1,NM_001142524.1"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"790bf4dc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261363636363636	"WGS"	FALSE
"7833"	"IL1RAPL2"	26280	"mskcc.org"	"GRCh37"	"X"	104064222	104064222	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.82+160546T>G"	""	""	"ENST00000372582"	""	97	"71"	26	43	"43"	0	"IL1RAPL2,intron_variant,,ENST00000372582,NM_017416.1;IL1RAPL2,intron_variant,,ENST00000344799,;"	"G"	"ENSG00000189108"	"ENST00000372582"	"Transcript"	"intron_variant"	"-/2985"	"-/2061"	"-/686"	""	""	""	"1"	NA	1	"IL1RAPL2"	"HGNC"	5997	"protein_coding"	"YES"	"CCDS14517.1"	"ENSP00000361663"	"Q9NP60"	""	"UPI0000073DF7"	"NM_017416.1"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"790cae04-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268041237113402	"WGS"	FALSE
"7834"	"IL1RAPL2"	26280	"mskcc.org"	"GRCh37"	"X"	104327940	104327940	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.83-112217A>G"	""	""	"ENST00000372582"	""	99	"92"	7	45	"45"	0	"IL1RAPL2,intron_variant,,ENST00000372582,NM_017416.1;IL1RAPL2,intron_variant,,ENST00000344799,;"	"G"	"ENSG00000189108"	"ENST00000372582"	"Transcript"	"intron_variant"	"-/2985"	"-/2061"	"-/686"	""	""	""	"1"	NA	1	"IL1RAPL2"	"HGNC"	5997	"protein_coding"	"YES"	"CCDS14517.1"	"ENSP00000361663"	"Q9NP60"	""	"UPI0000073DF7"	"NM_017416.1"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"790cb84a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0707070707070707	"WGS"	FALSE
"7835"	"IL1RAPL2"	26280	"mskcc.org"	"GRCh37"	"X"	104612340	104612340	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.697+100116C>A"	""	""	"ENST00000372582"	""	83	"57"	26	68	"68"	0	"IL1RAPL2,intron_variant,,ENST00000372582,NM_017416.1;IL1RAPL2,intron_variant,,ENST00000344799,;"	"A"	"ENSG00000189108"	"ENST00000372582"	"Transcript"	"intron_variant"	"-/2985"	"-/2061"	"-/686"	""	""	""	"1"	NA	1	"IL1RAPL2"	"HGNC"	5997	"protein_coding"	"YES"	"CCDS14517.1"	"ENSP00000361663"	"Q9NP60"	""	"UPI0000073DF7"	"NM_017416.1"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"790cc61e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313253012048193	"WGS"	FALSE
"7836"	"AL035088.1"	0	"mskcc.org"	"GRCh37"	"X"	106673492	106673492	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000385111"	""	99	"72"	27	46	"46"	0	"AL035088.1,downstream_gene_variant,,ENST00000385111,;KRT18P49,downstream_gene_variant,,ENST00000427083,;"	"A"	"ENSG00000207846"	"ENST00000385111"	"Transcript"	"downstream_gene_variant"	"-/91"	""	""	""	""	""	"1"	"1183"	1	"AL035088.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"790d8950-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"7837"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	110113983	110113983	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"94"	7	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"790eb956-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0693069306930693	"WGS"	FALSE
"7838"	"RP5-964N17.1"	0	"mskcc.org"	"GRCh37"	"X"	113097055	113097055	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.26+84426A>C"	""	""	"ENST00000468762"	""	121	"81"	40	56	"56"	0	"RP5-964N17.1,intron_variant,,ENST00000468762,;"	"G"	"ENSG00000241743"	"ENST00000468762"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/497"	""	""	""	""	""	"1"	NA	-1	"RP5-964N17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"790f9ba0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330578512396694	"WGS"	FALSE
"7839"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	115891212	115891212	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"78"	41	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7910d0e2-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34453781512605	"WGS"	FALSE
"7840"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	116786509	116786509	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"71"	27	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"791115b6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275510204081633	"WGS"	FALSE
"7841"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	116881064	116881064	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"69"	30	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"7911211e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303030303030303	"WGS"	FALSE
"7842"	"KLHL13"	90293	"mskcc.org"	"GRCh37"	"X"	117111047	117111047	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.107+6396G>T"	""	""	"ENST00000539496"	""	92	"76"	16	61	"61"	0	"KLHL13,intron_variant,,ENST00000540167,NM_001168302.1;KLHL13,intron_variant,,ENST00000545703,NM_001168303.1;KLHL13,intron_variant,,ENST00000371882,;KLHL13,intron_variant,,ENST00000541812,NM_001168301.1;KLHL13,intron_variant,,ENST00000539496,NM_001168299.1;KLHL13,intron_variant,,ENST00000469946,;KLHL13,intron_variant,,ENST00000453826,;KLHL13,upstream_gene_variant,,ENST00000262820,NM_033495.3;KLHL13,upstream_gene_variant,,ENST00000447671,;KLHL13,upstream_gene_variant,,ENST00000371878,NM_001168300.1;"	"A"	"ENSG00000003096"	"ENST00000539496"	"Transcript"	"intron_variant"	"-/3071"	"-/1977"	"-/658"	""	""	""	"1"	NA	-1	"KLHL13"	"HGNC"	22931	"protein_coding"	"YES"	"CCDS55480.1"	"ENSP00000443191"	"Q9P2N7"	"Q96HC9,C9JTS9"	"UPI0001914B0F"	"NM_001168299.1"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"79112b82-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"7843"	"RP13-347D8.1"	0	"mskcc.org"	"GRCh37"	"X"	118077867	118077867	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000443421"	""	54	"49"	5	38	"38"	0	"RP13-347D8.1,downstream_gene_variant,,ENST00000443421,;"	"A"	"ENSG00000231270"	"ENST00000443421"	"Transcript"	"downstream_gene_variant"	"-/905"	""	""	""	""	""	"1"	"4770"	1	"RP13-347D8.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"79119806-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0925925925925926	"WGS"	FALSE
"7844"	"KIAA1210"	57481	"mskcc.org"	"GRCh37"	"X"	118256302	118256302	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.481+1243T>C"	""	""	"ENST00000402510"	""	73	"67"	6	46	"46"	0	"KIAA1210,intron_variant,,ENST00000402510,NM_020721.1;"	"G"	"ENSG00000250423"	"ENST00000402510"	"Transcript"	"intron_variant"	"-/7824"	"-/5130"	"-/1709"	""	""	""	"1"	NA	-1	"KIAA1210"	"HGNC"	29218	"protein_coding"	"YES"	"CCDS48156.1"	"ENSP00000384670"	"Q9ULL0"	""	"UPI0001596C4C"	"NM_020721.1"	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"7911a918-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"7845"	"KIAA1210"	57481	"mskcc.org"	"GRCh37"	"X"	118265701	118265701	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"rs138618887"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.411-8086G>T"	""	""	"ENST00000402510"	""	89	"62"	27	58	"58"	0	"KIAA1210,intron_variant,,ENST00000402510,NM_020721.1;"	"A"	"ENSG00000250423"	"ENST00000402510"	"Transcript"	"intron_variant"	"-/7824"	"-/5130"	"-/1709"	""	""	"rs138618887"	"1"	NA	-1	"KIAA1210"	"HGNC"	29218	"protein_coding"	"YES"	"CCDS48156.1"	"ENSP00000384670"	"Q9ULL0"	""	"UPI0001596C4C"	"NM_020721.1"	""	""	""	"2/13"	""	"A:0.0093"	"A:0.0242"	"A:0.0029"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7911ad6e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303370786516854	"WGS"	FALSE
"7846"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	118411144	118411144	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"74"	9	45	"45"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7911ba3e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108433734939759	"WGS"	FALSE
"7847"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	118860212	118860212	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"73"	7	34	"34"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"791202dc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0875	"WGS"	FALSE
"7848"	"RP4-655L22.4"	0	"mskcc.org"	"GRCh37"	"X"	119865931	119865931	"+"	"5'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000427955"	""	106	"69"	37	67	"67"	0	"RP4-655L22.4,upstream_gene_variant,,ENST00000427955,;"	"T"	"ENSG00000181511"	"ENST00000427955"	"Transcript"	"upstream_gene_variant"	"-/303"	""	""	""	""	""	"1"	"1017"	1	"RP4-655L22.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"79126ac4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349056603773585	"WGS"	FALSE
"7849"	"ENSR00001491327"	0	"mskcc.org"	"GRCh37"	"X"	119883500	119883500	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001491327"	""	95	"70"	25	60	"60"	0	""	"A"	""	"ENSR00001491327"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"79126cb8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"7850"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	121926560	121926560	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"77"	32	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7912d2e8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293577981651376	"WGS"	FALSE
"7851"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	126588178	126588178	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"70"	31	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"791451d6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306930693069307	"WGS"	FALSE
"7852"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	126786895	126786895	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"68"	24	65	"64"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"79146b62-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"7853"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	128502211	128502211	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"79"	29	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7914c6b6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268518518518519	"WGS"	FALSE
"7854"	"SMARCA1"	6594	"mskcc.org"	"GRCh37"	"X"	128599266	128599266	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3030+231A>G"	""	""	"ENST00000371122"	""	99	"65"	34	56	"56"	0	"SMARCA1,intron_variant,,ENST00000371122,NM_003069.3;SMARCA1,intron_variant,,ENST00000371121,NM_139035.2;SMARCA1,intron_variant,,ENST00000371123,;"	"C"	"ENSG00000102038"	"ENST00000371122"	"Transcript"	"intron_variant"	"-/4099"	"-/3165"	"-/1054"	""	""	""	"1"	NA	-1	"SMARCA1"	"HGNC"	11097	"protein_coding"	"YES"	"CCDS14612.1"	"ENSP00000360163"	"P28370"	"F6TQG2"	"UPI0000161FA6"	"NM_003069.3"	""	""	""	"23/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7914f0e6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.343434343434343	"WGS"	FALSE
"7855"	"RP4-537K23.4"	0	"mskcc.org"	"GRCh37"	"X"	129072319	129072319	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.69-8448T>A"	""	""	"ENST00000432062"	""	91	"67"	24	46	"46"	0	"RP4-537K23.4,intron_variant,,ENST00000432062,;"	"T"	"ENSG00000235189"	"ENST00000432062"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/526"	""	""	""	""	""	"1"	NA	-1	"RP4-537K23.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"79152e8a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263736263736264	"WGS"	FALSE
"7856"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	129664474	129664474	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"32"	6	24	"24"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"791594a6-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"7857"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	129664752	129664752	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"102"	8	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"791596a4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0727272727272727	"WGS"	FALSE
"7858"	"IGSF1"	3547	"mskcc.org"	"GRCh37"	"X"	130435003	130435003	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-249-1259T>C"	""	""	"ENST00000370904"	""	108	"82"	26	55	"55"	0	"IGSF1,intron_variant,,ENST00000370904,;"	"G"	"ENSG00000147255"	"ENST00000370904"	"Transcript"	"intron_variant"	"-/5180"	"-/3984"	"-/1327"	""	""	""	"1"	NA	-1	"IGSF1"	"HGNC"	5948	"protein_coding"	""	"CCDS55490.1"	"ENSP00000359941"	"Q8N6C5"	""	"UPI0000070547"	""	""	""	""	"6/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"791602ba-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240740740740741	"WGS"	FALSE
"7859"	"MOSPD1"	56180	"mskcc.org"	"GRCh37"	"X"	134047373	134047373	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-102+1839A>G"	""	""	"ENST00000370783"	""	87	"63"	24	47	"46"	1	"MOSPD1,intron_variant,,ENST00000370783,NM_019556.1;MOSPD1,intron_variant,,ENST00000370779,;RNU6-616P,downstream_gene_variant,,ENST00000384353,;MOSPD1,intron_variant,,ENST00000491609,;MOSPD1,intron_variant,,ENST00000489890,;MOSPD1,intron_variant,,ENST00000462060,;"	"C"	"ENSG00000101928"	"ENST00000370783"	"Transcript"	"intron_variant"	"-/2364"	"-/642"	"-/213"	""	""	""	"1"	NA	-1	"MOSPD1"	"HGNC"	25235	"protein_coding"	"YES"	"CCDS14645.1"	"ENSP00000359819"	"Q9UJG1"	""	"UPI000006E909"	"NM_019556.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"79173518-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275862068965517	"WGS"	FALSE
"7860"	"ARHGEF6"	9459	"mskcc.org"	"GRCh37"	"X"	135799581	135799581	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.733-4052A>T"	""	""	"ENST00000250617"	""	91	"61"	30	47	"47"	0	"ARHGEF6,intron_variant,,ENST00000250617,NM_004840.2;ARHGEF6,intron_variant,,ENST00000370622,;ARHGEF6,intron_variant,,ENST00000370620,;ARHGEF6,intron_variant,,ENST00000535227,;"	"A"	"ENSG00000129675"	"ENST00000250617"	"Transcript"	"intron_variant"	"-/6019"	"-/2331"	"-/776"	""	""	""	"1"	NA	-1	"ARHGEF6"	"HGNC"	685	"protein_coding"	"YES"	"CCDS14660.1"	"ENSP00000250617"	"Q15052"	""	"UPI0000001C8E"	"NM_004840.2"	""	""	""	"6/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"7917dec8-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32967032967033	"WGS"	FALSE
"7861"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	136213737	136213737	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"66"	40	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"791821bc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.377358490566038	"WGS"	FALSE
"7862"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	136993974	136993974	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"75"	33	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"79185e7a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305555555555556	"WGS"	FALSE
"7863"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	137035035	137035035	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"79"	25	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"7918617c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240384615384615	"WGS"	FALSE
"7864"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	141116515	141116515	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"76"	5	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"791a3a6a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"7865"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	141554570	141554570	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"65"	30	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"791a7e4e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WGS"	FALSE
"7866"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	141593311	141593311	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"76"	30	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"791a8538-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283018867924528	"WGS"	FALSE
"7867"	"GS1-256O22.5"	0	"mskcc.org"	"GRCh37"	"X"	142459787	142459787	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.176+12318T>A"	""	""	"ENST00000431432"	""	128	"89"	39	55	"55"	0	"GS1-256O22.5,intron_variant,,ENST00000431432,;"	"A"	"ENSG00000227303"	"ENST00000431432"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/623"	""	""	""	""	""	"1"	NA	1	"GS1-256O22.5"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"791abdb4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3046875	"WGS"	FALSE
"7868"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	146559326	146559326	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	35	"31"	4	27	"27"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"791c3cd4-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"7869"	"RP3-433G13.1"	0	"mskcc.org"	"GRCh37"	"X"	146674668	146674668	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"rs781905532"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000450437"	""	86	"61"	25	67	"67"	0	"RP3-433G13.1,upstream_gene_variant,,ENST00000450437,;"	"A"	"ENSG00000228855"	"ENST00000450437"	"Transcript"	"upstream_gene_variant"	"-/298"	""	""	""	""	"rs781905532"	"1"	"1241"	-1	"RP3-433G13.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"A:0.0003"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"791c4d32-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290697674418605	"WGS"	FALSE
"7870"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	147342361	147342361	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"81"	12	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"791c9ad0-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"7871"	"AFF2"	2334	"mskcc.org"	"GRCh37"	"X"	147896683	147896683	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs190943587"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1086+5239G>A"	""	""	"ENST00000370460"	""	113	"85"	28	65	"65"	0	"AFF2,intron_variant,,ENST00000370460,NM_002025.3,NM_001169123.1;AFF2,intron_variant,,ENST00000370457,NM_001169122.1,NM_001169125.1,NM_001169124.1;AFF2,intron_variant,,ENST00000286437,NM_001170628.1;AFF2,intron_variant,,ENST00000342251,;AFF2,intron_variant,,ENST00000370458,;"	"A"	"ENSG00000155966"	"ENST00000370460"	"Transcript"	"intron_variant"	"-/13746"	"-/3936"	"-/1311"	""	""	"rs190943587"	"1"	NA	1	"AFF2"	"HGNC"	3776	"protein_coding"	"YES"	"CCDS14684.1"	"ENSP00000359489"	"P51816"	""	"UPI000049E130"	"NM_002025.3,NM_001169123.1"	""	""	""	"4/20"	""	"A:0.0026"	"A:0.0038"	"A:0.0043"	NA	"A:0"	"A:0.001"	"A:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"791cd50e-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247787610619469	"WGS"	FALSE
"7872"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	148224875	148224875	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"67"	37	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"791ce30a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355769230769231	"WGS"	FALSE
"7873"	"ENSR00000482995"	0	"mskcc.org"	"GRCh37"	"X"	151150224	151150224	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000482995"	""	91	"72"	19	46	"46"	0	""	"A"	""	"ENSR00000482995"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"791e122a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208791208791209	"WGS"	FALSE
"7874"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	152213593	152213593	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"55"	27	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"791e6a72-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329268292682927	"WGS"	FALSE
"7875"	"DNASE1L1"	1774	"mskcc.org"	"GRCh37"	"X"	153636548	153636548	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-88+900A>G"	""	""	"ENST00000369809"	""	95	"89"	6	39	"39"	0	"DNASE1L1,intron_variant,,ENST00000369809,NM_001009932.1;DNASE1L1,intron_variant,,ENST00000369808,NM_006730.2;DNASE1L1,intron_variant,,ENST00000393638,NM_001009934.1;DNASE1L1,intron_variant,,ENST00000014935,;DNASE1L1,intron_variant,,ENST00000309585,NM_001009933.1;DNASE1L1,intron_variant,,ENST00000369807,;DNASE1L1,intron_variant,,ENST00000424626,;DNASE1L1,intron_variant,,ENST00000451865,;DNASE1L1,intron_variant,,ENST00000432135,;RPL10,intron_variant,,ENST00000428169,;TAZ,upstream_gene_variant,,ENST00000299328,NM_000116.3;TAZ,upstream_gene_variant,,ENST00000350743,NM_181311.2;TAZ,upstream_gene_variant,,ENST00000351413,NM_181312.2;TAZ,upstream_gene_variant,,ENST00000369790,NM_181313.2;TAZ,upstream_gene_variant,,ENST00000369776,;TAZ,upstream_gene_variant,,ENST00000454722,;TAZ,upstream_gene_variant,,ENST00000426834,;TAZ,upstream_gene_variant,,ENST00000475699,;RPL10,downstream_gene_variant,,ENST00000451365,;RPL10,downstream_gene_variant,,ENST00000449494,;TAZ,upstream_gene_variant,,ENST00000439735,;RPL10,downstream_gene_variant,,ENST00000427682,;DNASE1L1,upstream_gene_variant,,ENST00000447892,;DNASE1L1,upstream_gene_variant,,ENST00000412184,;TAZ,upstream_gene_variant,,ENST00000479875,;TAZ,upstream_gene_variant,,ENST00000369793,;TAZ,upstream_gene_variant,,ENST00000455296,;TAZ,upstream_gene_variant,,ENST00000476307,;TAZ,upstream_gene_variant,,ENST00000465540,;TAZ,upstream_gene_variant,,ENST00000480812,;DNASE1L1,upstream_gene_variant,,ENST00000497242,;TAZ,upstream_gene_variant,,ENST00000483674,;TAZ,upstream_gene_variant,,ENST00000433313,;TAZ,upstream_gene_variant,,ENST00000426231,;TAZ,upstream_gene_variant,,ENST00000476679,;TAZ,upstream_gene_variant,,ENST00000445994,;TAZ,upstream_gene_variant,,ENST00000476800,;TAZ,upstream_gene_variant,,ENST00000483780,;"	"C"	"ENSG00000013563"	"ENST00000369809"	"Transcript"	"intron_variant"	"-/3008"	"-/909"	"-/302"	""	""	""	"1"	NA	-1	"DNASE1L1"	"HGNC"	2957	"protein_coding"	"YES"	"CCDS14747.1"	"ENSP00000358824"	"P49184"	"Q5HY40,A6QRJ0,A3KQT1"	"UPI0000129891"	"NM_001009932.1"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"791f4adc-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0631578947368421	"WGS"	FALSE
"7876"	"GDI1"	2664	"mskcc.org"	"GRCh37"	"X"	153672083	153672083	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000447750"	""	91	"57"	34	35	"35"	0	"GDI1,downstream_gene_variant,,ENST00000447750,NM_001493.2;FAM50A,upstream_gene_variant,,ENST00000393600,NM_004699.3;FAM50A,upstream_gene_variant,,ENST00000158526,;GDI1,downstream_gene_variant,,ENST00000465640,;GDI1,downstream_gene_variant,,ENST00000475976,;GDI1,downstream_gene_variant,,ENST00000485143,;GDI1,downstream_gene_variant,,ENST00000471972,;GDI1,downstream_gene_variant,,ENST00000491154,;GDI1,downstream_gene_variant,,ENST00000468483,;FAM50A,upstream_gene_variant,,ENST00000464419,;GDI1,downstream_gene_variant,,ENST00000476540,;GDI1,downstream_gene_variant,,ENST00000481304,;GDI1,downstream_gene_variant,,ENST00000489589,;GDI1,downstream_gene_variant,,ENST00000434049,;FAM50A,upstream_gene_variant,,ENST00000481619,;FAM50A,upstream_gene_variant,,ENST00000478509,;GDI1,downstream_gene_variant,,ENST00000445564,;GDI1,downstream_gene_variant,,ENST00000415109,;GDI1,downstream_gene_variant,,ENST00000460984,;FAM50A,upstream_gene_variant,,ENST00000490480,;"	"A"	"ENSG00000203879"	"ENST00000447750"	"Transcript"	"downstream_gene_variant"	"-/2474"	"-/1344"	"-/447"	""	""	""	"1"	"269"	1	"GDI1"	"HGNC"	4226	"protein_coding"	"YES"	"CCDS35452.1"	"ENSP00000394071"	"P31150"	"B4E070,B4DHX4"	"UPI000012B39B"	"NM_001493.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"791f5446-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373626373626374	"WGS"	FALSE
"7877"	"ENSR00000262073"	0	"mskcc.org"	"GRCh37"	"X"	153985958	153985958	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000262073"	""	76	"71"	5	37	"37"	0	""	"T"	""	"ENSR00000262073"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"791f6e36-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0657894736842105	"WGS"	FALSE
"7878"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	155095577	155095577	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"62"	24	55	"54"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"791fa234-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27906976744186	"WGS"	FALSE
"7879"	"VAMP7"	6845	"mskcc.org"	"GRCh37"	"X"	155146150	155146150	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.433+15899G>C"	""	""	"ENST00000262640"	""	111	"72"	39	63	"63"	0	"VAMP7,intron_variant,,ENST00000286448,NM_005638.5,NM_001145149.2;VAMP7,intron_variant,,ENST00000262640,NM_001185183.1;VAMP7,intron_variant,,ENST00000460621,;VAMP7,intron_variant,,ENST00000479687,;VAMP7,intron_variant,,ENST00000463317,;VAMP7,intron_variant,,ENST00000488344,;"	"C"	"ENSG00000124333"	"ENST00000262640"	"Transcript"	"intron_variant"	"-/2496"	"-/783"	"-/260"	""	""	""	"1"	NA	1	"VAMP7"	"HGNC"	11486	"protein_coding"	"YES"	"CCDS55548.1"	"ENSP00000262640"	"P51809"	""	"UPI000006F699"	"NM_001185183.1"	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"791fa446-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351351351351351	"WGS"	FALSE
"7880"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	6401859	6401859	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	44	"40"	4	26	"26"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"79200e2c-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"7881"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	13425333	13425333	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	11	"7"	4	7	"7"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"79208186-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"7882"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	58986843	58986843	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs2527462"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	36	"31"	5	10	"10"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs2527462"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"7927a33a-ffcc-11e5-9bf8-a690c673b430"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138888888888889	"WGS"	FALSE
"7883"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	16501465	16501466	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"."	19	41	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"f8840572-fdda-11e5-ba37-1f3e424a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.195876288659794	"WGS"	FALSE
"7884"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	35119776	35119793	"+"	"IGR"	"DEL"	"CTGGCAAGCAGATGACTG"	"CTGGCAAGCAGATGACTG"	"GAGC"	"novel"	NA	"284"	"W0006060F"	"CTGGCAAGCAGATGACTG"	"CTGGCAAGCAGATGACTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"."	12	42	"."	0	""	"GAGC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCTGGCAAGCAGATGACTGA"	"512cc688-fdda-11e5-ba37-1f3e424a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.157894736842105	"WGS"	FALSE
"7885"	"ELAVL4"	1996	"mskcc.org"	"GRCh37"	"1"	50637110	50637110	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.302-5649delT"	""	""	"ENST00000357083"	""	121	"."	18	53	"."	0	"ELAVL4,intron_variant,,ENST00000371824,;ELAVL4,intron_variant,,ENST00000371827,NM_001144776.1;ELAVL4,intron_variant,,ENST00000371821,;ELAVL4,intron_variant,,ENST00000371819,;ELAVL4,intron_variant,,ENST00000448907,NM_001144777.1;ELAVL4,intron_variant,,ENST00000371823,NM_021952.3,NM_001144774.1;ELAVL4,intron_variant,,ENST00000357083,NM_001144775.1;RP11-567C20.2,downstream_gene_variant,,ENST00000442477,;ELAVL4,intron_variant,,ENST00000492299,;"	"-"	"ENSG00000162374"	"ENST00000357083"	"Transcript"	"intron_variant"	"-/1415"	"-/1152"	"-/383"	""	""	""	"1"	NA	1	"ELAVL4"	"HGNC"	3315	"protein_coding"	"YES"	"CCDS44139.1"	"ENSP00000349594"	"P26378"	"B7Z5E0"	"UPI000006F633"	"NM_001144775.1"	NA	NA	""	"2/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATT"	"e97bbd22-fdd5-11e5-ba37-1f3e424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.148760330578512	"WGS"	FALSE
"7886"	"USP24"	23358	"mskcc.org"	"GRCh37"	"1"	55678357	55678361	"+"	"Intron"	"DEL"	"TCCTG"	"TCCTG"	"AAAA"	"novel"	NA	"284"	"W0006060F"	"TCCTG"	"TCCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.324+2102_324+2106delCAGGAinsTTTT"	""	""	"ENST00000294383"	""	115	"."	6	67	"."	0	"USP24,intron_variant,,ENST00000294383,NM_015306.2;USP24,intron_variant,,ENST00000407756,;"	"AAAA"	"ENSG00000162402"	"ENST00000294383"	"Transcript"	"intron_variant"	"-/10549"	"-/7863"	"-/2620"	""	""	""	"1"	NA	-1	"USP24"	"HGNC"	12623	"protein_coding"	"YES"	"CCDS44154.2"	"ENSP00000294383"	"Q9UPU5"	""	"UPI000059CFDE"	"NM_015306.2"	NA	NA	""	"1/67"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTCCTGT"	"5578afb8-fdda-11e5-ba37-1f3e424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0521739130434783	"WGS"	FALSE
"7887"	"DAB1"	1600	"mskcc.org"	"GRCh37"	"1"	57483401	57483402	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.896-2298dupT"	""	""	"ENST00000371236"	""	98	"."	16	63	"."	0	"DAB1,intron_variant,,ENST00000371236,;DAB1,intron_variant,,ENST00000371234,NM_021080.3;DAB1,intron_variant,,ENST00000420954,;DAB1,intron_variant,,ENST00000371231,;DAB1,intron_variant,,ENST00000414851,;DAB1,intron_variant,,ENST00000439789,;DAB1,intron_variant,,ENST00000371232,;DAB1,intron_variant,,ENST00000485760,;"	"A"	"ENSG00000173406"	"ENST00000371236"	"Transcript"	"intron_variant"	"-/5298"	"-/1668"	"-/555"	""	""	""	"1"	NA	-1	"DAB1"	"HGNC"	2661	"protein_coding"	"YES"	"CCDS607.1"	"ENSP00000360280"	"O75553"	""	"UPI000013EE33"	""	NA	NA	""	"11/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"cadccf5e-fddb-11e5-ba37-1f3e424a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.163265306122449	"WGS"	FALSE
"7888"	"INADL"	10207	"mskcc.org"	"GRCh37"	"1"	62445956	62445957	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3671-9876dupA"	""	""	"ENST00000371158"	""	98	"."	19	57	"."	0	"INADL,intron_variant,,ENST00000371158,NM_176877.2;INADL,intron_variant,,ENST00000316485,;INADL,intron_variant,,ENST00000543708,;INADL,intron_variant,,ENST00000545929,;INADL,intron_variant,,ENST00000307297,;INADL,intron_variant,,ENST00000494842,;INADL,intron_variant,,ENST00000490547,;INADL,intron_variant,,ENST00000484562,;INADL,intron_variant,,ENST00000459752,;INADL,intron_variant,,ENST00000484937,;"	"A"	"ENSG00000132849"	"ENST00000371158"	"Transcript"	"intron_variant"	"-/8505"	"-/5406"	"-/1801"	""	""	""	"1"	NA	1	"INADL"	"HGNC"	28881	"protein_coding"	"YES"	"CCDS617.2"	"ENSP00000360200"	"Q8NI35"	""	"UPI0000204487"	"NM_176877.2"	NA	NA	""	"27/42"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"e2d23630-fddb-11e5-ba37-1f3e424a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.193877551020408	"WGS"	FALSE
"7889"	"LEPR"	54741	"mskcc.org"	"GRCh37"	"1"	66029318	66029318	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-20-1908delT"	""	""	"ENST00000349533"	""	196	"."	6	126	"."	0	"LEPR,intron_variant,,ENST00000349533,NM_002303.5;LEPR,intron_variant,,ENST00000371060,NM_001198689.1,NM_001003679.3;LEPR,intron_variant,,ENST00000371059,NM_001198687.1,NM_001003680.3;LEPR,intron_variant,,ENST00000344610,;LEPR,intron_variant,,ENST00000406510,;LEPR,upstream_gene_variant,,ENST00000371058,NM_001198688.1;LEPR,intron_variant,,ENST00000462765,;"	"-"	"ENSG00000116678"	"ENST00000349533"	"Transcript"	"intron_variant"	"-/8227"	"-/3498"	"-/1165"	""	""	""	"1"	NA	1	"LEPR"	"HGNC"	6554	"protein_coding"	"YES"	"CCDS631.1"	"ENSP00000330393"	"P48357"	"L0I9J6,A2RRQ4"	"UPI000014C37B"	"NM_002303.5"	NA	NA	""	"2/19"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGTT"	"2f1a46fa-fdd6-11e5-ba37-1f3e424a729f"	"82"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0306122448979592	"WGS"	FALSE
"7890"	"LRRC7"	57554	"mskcc.org"	"GRCh37"	"1"	70539336	70539357	"+"	"Intron"	"DEL"	"GTGGAAAAATGCTTTGCTTATC"	"GTGGAAAAATGCTTTGCTTATC"	"AAAAATGCTTTGCTTGAT"	"novel"	NA	"284"	"W0006060F"	"GTGGAAAAATGCTTTGCTTATC"	"GTGGAAAAATGCTTTGCTTATC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4117-2424_4117-2403delGTGGAAAAATGCTTTGCTTATCinsAAAAATGCTTTGCTTGAT"	""	""	"ENST00000035383"	""	102	"."	6	53	"."	0	"LRRC7,intron_variant,,ENST00000310961,;LRRC7,intron_variant,,ENST00000035383,NM_020794.2;LRRC7,intron_variant,,ENST00000415775,;"	"AAAAATGCTTTGCTTGAT"	"ENSG00000033122"	"ENST00000035383"	"Transcript"	"intron_variant"	"-/5000"	"-/4614"	"-/1537"	""	""	""	"1"	NA	1	"LRRC7"	"HGNC"	18531	"protein_coding"	"YES"	"CCDS645.1"	"ENSP00000035383"	"Q96NW7"	""	"UPI000006F29B"	"NM_020794.2"	NA	NA	""	"21/24"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGTGGAAAAATGCTTTGCTTATCT"	"59b59c1c-fdda-11e5-ba37-1f3e424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0588235294117647	"WGS"	FALSE
"7891"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	72996838	72996838	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"."	10	35	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"4df9ad04-fdd6-11e5-ba37-1f3e424a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.161290322580645	"WGS"	FALSE
"7892"	"RP4-598G3.1"	101927295	"mskcc.org"	"GRCh37"	"1"	73802904	73802904	"+"	"RNA"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2216delA"	""	""	"ENST00000440762"	"4/4"	107	"."	31	42	"."	0	"RP4-598G3.1,non_coding_transcript_exon_variant,,ENST00000440762,;RP4-598G3.1,intron_variant,,ENST00000444827,;RP4-598G3.1,intron_variant,,ENST00000415686,;"	"-"	"ENSG00000233973"	"ENST00000440762"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"2215/3871"	""	""	""	""	""	"1"	NA	1	"RP4-598G3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	"4/4"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"5174cd9c-fdd6-11e5-ba37-1f3e424a729f"	"1860"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.289719626168224	"WGS"	FALSE
"7893"	"PTGFR"	5737	"mskcc.org"	"GRCh37"	"1"	78800324	78800326	"+"	"Intron"	"DEL"	"ATT"	"ATT"	"-"	"novel"	NA	"284"	"W0006060F"	"ATT"	"ATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-148+30709_-148+30711delATT"	""	""	"ENST00000370758"	""	108	"."	17	56	"."	0	"PTGFR,intron_variant,,ENST00000370758,;RP11-183M13.1,intron_variant,,ENST00000413519,;"	"-"	"ENSG00000122420"	"ENST00000370758"	"Transcript"	"intron_variant"	"-/4337"	"-/1080"	"-/359"	""	""	""	"1"	NA	1	"PTGFR"	"HGNC"	9600	"protein_coding"	""	"CCDS686.1"	"ENSP00000359794"	"P43088"	""	"UPI0000001C40"	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAATTT"	"6886df66-fdd6-11e5-ba37-1f3e424a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.157407407407407	"WGS"	FALSE
"7894"	"ENSR00001586876"	0	"mskcc.org"	"GRCh37"	"1"	83649934	83649935	"+"	"IGR"	"DEL"	"AA"	"AA"	"-"	"novel"	NA	"284"	"W0006060F"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001586876"	""	123	"."	6	72	"."	0	""	"-"	""	"ENSR00001586876"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAAA"	"800dae12-fdd6-11e5-ba37-1f3e424a729f"	"25"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0487804878048781	"WGS"	FALSE
"7895"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	93863900	93863903	"+"	"IGR"	"DEL"	"ACAA"	"ACAA"	"-"	"novel"	NA	"284"	"W0006060F"	"ACAA"	"ACAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"."	12	59	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGACAAA"	"b04745f2-fdd6-11e5-ba37-1f3e424a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.121212121212121	"WGS"	FALSE
"7896"	"PTBP2"	58155	"mskcc.org"	"GRCh37"	"1"	97198749	97198775	"+"	"Intron"	"DEL"	"TAGCTTCATCTTCAAAGAAGGAATGGC"	"TAGCTTCATCTTCAAAGAAGGAATGGC"	"GCCATT"	"novel"	NA	"284"	"W0006060F"	"TAGCTTCATCTTCAAAGAAGGAATGGC"	"TAGCTTCATCTTCAAAGAAGGAATGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.39+9599_39+9625delTAGCTTCATCTTCAAAGAAGGAATGGCinsGCCATT"	""	""	"ENST00000426398"	""	90	"."	51	34	"."	0	"PTBP2,intron_variant,,ENST00000609116,;PTBP2,intron_variant,,ENST00000370197,;PTBP2,intron_variant,,ENST00000370198,;PTBP2,intron_variant,,ENST00000426398,NM_021190.2;PTBP2,intron_variant,,ENST00000394184,;PTBP2,intron_variant,,ENST00000541987,;PTBP2,intron_variant,,ENST00000482253,;PTBP2,intron_variant,,ENST00000476419,;PTBP2,intron_variant,,ENST00000460706,;"	"GCCATT"	"ENSG00000117569"	"ENST00000426398"	"Transcript"	"intron_variant"	"-/3027"	"-/1596"	"-/531"	""	""	""	"1"	NA	1	"PTBP2"	"HGNC"	17662	"protein_coding"	"YES"	"CCDS754.1"	"ENSP00000412788"	"Q9UKA9"	""	"UPI000006F5BE"	"NM_021190.2"	NA	NA	""	"2/13"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTAGCTTCATCTTCAAAGAAGGAATGGCA"	"63f5f87a-fdda-11e5-ba37-1f3e424a729f"	"3050"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.566666666666667	"WGS"	FALSE
"7897"	"SYT6"	148281	"mskcc.org"	"GRCh37"	"1"	114661472	114661481	"+"	"Intron"	"DEL"	"AACGGGAGTG"	"AACGGGAGTG"	"-"	"novel"	NA	"284"	"W0006060F"	"AACGGGAGTG"	"AACGGGAGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.817-15138_817-15129delCACTCCCGTT"	""	""	"ENST00000609117"	""	90	"."	21	53	"."	0	"SYT6,intron_variant,,ENST00000393296,;SYT6,intron_variant,,ENST00000609117,;SYT6,intron_variant,,ENST00000369547,NM_001270805.1;SYT6,intron_variant,,ENST00000607941,NM_205848.3;SYT6,intron_variant,,ENST00000610222,;SYT6,intron_variant,,ENST00000610121,;SYT6,intron_variant,,ENST00000610096,;"	"-"	"ENSG00000134207"	"ENST00000609117"	"Transcript"	"intron_variant"	"-/4424"	"-/1278"	"-/425"	""	""	""	"1"	NA	-1	"SYT6"	"HGNC"	18638	"protein_coding"	"YES"	"CCDS871.1"	"ENSP00000477344"	""	"I6L9C3,B1AMB7,B1AMB6"	"UPI000000DACA"	""	NA	NA	""	"3/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAAACGGGAGTGG"	"1091cb08-fdd7-11e5-ba37-1f3e424a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.233333333333333	"WGS"	FALSE
"7898"	"HRNR"	388697	"mskcc.org"	"GRCh37"	"1"	152200179	152200179	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000368801"	""	95	"."	23	55	"."	0	"HRNR,upstream_gene_variant,,ENST00000368801,NM_001009931.2;FLG-AS1,intron_variant,,ENST00000420707,;FLG-AS1,intron_variant,,ENST00000593011,;"	"-"	"ENSG00000197915"	"ENST00000368801"	"Transcript"	"upstream_gene_variant"	"-/9623"	"-/8553"	"-/2850"	""	""	""	"1"	"3510"	-1	"HRNR"	"HGNC"	20846	"protein_coding"	"YES"	"CCDS30859.1"	"ENSP00000357791"	"Q86YZ3"	"Q5W8V9"	"UPI00001D7CAD"	"NM_001009931.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGG"	"d527d4da-fdd7-11e5-ba37-1f3e424a729f"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.242105263157895	"WGS"	FALSE
"7899"	"MA0138.2"	0	"mskcc.org"	"GRCh37"	"1"	157957988	157957988	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"MA0138.2"	""	82	"."	14	49	"."	0	""	"-"	""	"MA0138.2"	"MotifFeature"	"TF_binding_site_variant"	""	""	""	""	""	""	"1"	NA	-1	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	"Nrsf:MA0138.2"	"20"	"N"	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACT"	"f24a4b60-fdd7-11e5-ba37-1f3e424a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.170731707317073	"WGS"	FALSE
"7900"	"BRINP3"	339479	"mskcc.org"	"GRCh37"	"1"	190374601	190374623	"+"	"Intron"	"DEL"	"AAAAAAAAAAAAAAAAAAAAAAC"	"AAAAAAAAAAAAAAAAAAAAAAC"	"-"	"rs770053840"	NA	"284"	"W0006060F"	"AAAAAAAAAAAAAAAAAAAAAAC"	"AAAAAAAAAAAAAAAAAAAAAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.236+49162_236+49184delGTTTTTTTTTTTTTTTTTTTTTT"	""	""	"ENST00000367462"	""	111	"."	5	68	"."	0	"BRINP3,intron_variant,,ENST00000367462,NM_199051.1;BRINP3,intron_variant,,ENST00000534846,;"	"-"	"ENSG00000162670"	"ENST00000367462"	"Transcript"	"intron_variant"	"-/2889"	"-/2301"	"-/766"	""	""	"rs770053840"	"1"	NA	-1	"BRINP3"	"HGNC"	22393	"protein_coding"	"YES"	"CCDS1373.1"	"ENSP00000356432"	"Q76B58"	""	"UPI00001C1D9A"	"NM_199051.1"	NA	NA	""	"2/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAAAAAAAAAAAAAAAAAAACC"	"e611d9ac-fdd8-11e5-ba37-1f3e424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.045045045045045	"WGS"	FALSE
"7901"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	192184352	192184367	"+"	"IGR"	"DEL"	"AAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAA"	"-"	"novel"	NA	"284"	"W0006060F"	"AAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	65	"."	9	35	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAAAAAAAAAAAAAAAA"	"f7309412-fdd8-11e5-ba37-1f3e424a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.138461538461538	"WGS"	FALSE
"7902"	"ZNF281"	23528	"mskcc.org"	"GRCh37"	"1"	200371584	200371584	"+"	"3'Flank"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000294740"	""	91	"."	18	57	"."	0	"ZNF281,downstream_gene_variant,,ENST00000294740,NM_001281293.1,NM_012482.4,NM_001281294.1;ZNF281,downstream_gene_variant,,ENST00000367353,;ZNF281,downstream_gene_variant,,ENST00000367352,;"	"-"	"ENSG00000162702"	"ENST00000294740"	"Transcript"	"downstream_gene_variant"	"-/4891"	"-/2688"	"-/895"	""	""	""	"1"	"2484"	-1	"ZNF281"	"HGNC"	13075	"protein_coding"	"YES"	"CCDS1402.1"	"ENSP00000294740"	"Q9Y2X9"	"B3KMX4"	"UPI000013C345"	"NM_001281293.1,NM_012482.4,NM_001281294.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTG"	"36a50d44-fdd9-11e5-ba37-1f3e424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.197802197802198	"WGS"	FALSE
"7903"	"HHAT"	55733	"mskcc.org"	"GRCh37"	"1"	210758443	210758547	"+"	"Intron"	"DEL"	"TATAGAGGACTTTAAAAATTAGCCCAGGGTTGTAATGGAAGCAGTAAGTTGGCTGTACAGATGCAGATTTGCATCTTTGTCTTTCTCCTTCCCAGCTGTGTACCT"	"TATAGAGGACTTTAAAAATTAGCCCAGGGTTGTAATGGAAGCAGTAAGTTGGCTGTACAGATGCAGATTTGCATCTTTGTCTTTCTCCTTCCCAGCTGTGTACCT"	"GTCCTC"	"novel"	NA	"284"	"W0006060F"	"TATAGAGGACTTTAAAAATTAGCCCAGGGTTGTAATGGAAGCAGTAAGTTGGCTGTACAGATGCAGATTTGCATCTTTGTCTTTCTCCTTCCCAGCTGTGTACCT"	"TATAGAGGACTTTAAAAATTAGCCCAGGGTTGTAATGGAAGCAGTAAGTTGGCTGTACAGATGCAGATTTGCATCTTTGTCTTTCTCCTTCCCAGCTGTGTACCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1047-2799_1047-2695delTATAGAGGACTTTAAAAATTAGCCCAGGGTTGTAATGGAAGCAGTAAGTTGGCTGTACAGATGCAGATTTGCATCTTTGTCTTTCTCCTTCCCAGCTGTGTACCTinsGTCCTC"	""	""	"ENST00000545154"	""	84	"."	25	51	"."	0	"HHAT,intron_variant,,ENST00000367010,NM_001170580.1;HHAT,intron_variant,,ENST00000261458,NM_018194.4;HHAT,intron_variant,,ENST00000413764,NM_001122834.2;HHAT,intron_variant,,ENST00000545154,NM_001170587.1;HHAT,intron_variant,,ENST00000537898,NM_001170588.1;HHAT,intron_variant,,ENST00000541565,NM_001170564.1;HHAT,intron_variant,,ENST00000367009,;HHAT,intron_variant,,ENST00000391905,;HHAT,intron_variant,,ENST00000308852,;HHAT,intron_variant,,ENST00000545781,;"	"GTCCTC"	"ENSG00000054392"	"ENST00000545154"	"Transcript"	"intron_variant"	"-/3507"	"-/1485"	"-/494"	""	""	""	"1"	NA	1	"HHAT"	"HGNC"	18270	"protein_coding"	"YES"	"CCDS53471.1"	"ENSP00000438468"	"Q5VTY9"	"F5H2Y1,B1AK61"	"UPI0001C0B381"	"NM_001170587.1"	NA	NA	""	"8/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AATATAGAGGACTTTAAAAATTAGCCCAGGGTTGTAATGGAAGCAGTAAGTTGGCTGTACAGATGCAGATTTGCATCTTTGTCTTTCTCCTTCCCAGCTGTGTACCTT"	"9ceecee0-fdda-11e5-ba37-1f3e424a729f"	"1500"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.297619047619048	"WGS"	FALSE
"7904"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	215426985	215426996	"+"	"IGR"	"DEL"	"AAGTCACACTCT"	"AAGTCACACTCT"	"TTGGAGA"	"novel"	NA	"284"	"W0006060F"	"AAGTCACACTCT"	"AAGTCACACTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	25	51	"."	0	""	"TTGGAGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAAGTCACACTCTC"	"9eaa85a8-fdda-11e5-ba37-1f3e424a729f"	"1500"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.271739130434783	"WGS"	FALSE
"7905"	"ENSR00001599249"	0	"mskcc.org"	"GRCh37"	"1"	227008021	227008025	"+"	"IGR"	"DEL"	"AATAT"	"AATAT"	"-"	"novel"	NA	"284"	"W0006060F"	"AATAT"	"AATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001599249"	""	81	"."	13	47	"."	0	""	"-"	""	"ENSR00001599249"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAATATA"	"c482c5c0-fdd9-11e5-ba37-1f3e424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.160493827160494	"WGS"	FALSE
"7906"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	230174034	230174051	"+"	"IGR"	"DEL"	"GAAAGAGAAAGAAAAGAG"	"GAAAGAGAAAGAAAAGAG"	"AGGAAAGAGAAAGA"	"novel"	NA	"284"	"W0006060F"	"GAAAGAGAAAGAAAAGAG"	"GAAAGAGAAAGAAAAGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"."	5	43	"."	0	""	"AGGAAAGAGAAAGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAAAGAGAAAGAAAAGAGA"	"a3be5768-fdda-11e5-ba37-1f3e424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0694444444444444	"WGS"	FALSE
"7907"	"GNG4"	2786	"mskcc.org"	"GRCh37"	"1"	235743162	235743163	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAAAAAAAAAAAT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.99+3877_99+3878insATTTTTTTTTTTTTTTTT"	""	""	"ENST00000391854"	""	79	"."	6	34	"."	0	"GNG4,intron_variant,,ENST00000391854,NM_001098722.1,NM_004485.3;GNG4,intron_variant,,ENST00000450593,NM_001098721.1,NM_004485.3;GNG4,intron_variant,,ENST00000366598,;GNG4,intron_variant,,ENST00000366597,;GNG4,intron_variant,,ENST00000484517,;"	"AAAAAAAAAAAAAAAAAT"	"ENSG00000168243"	"ENST00000391854"	"Transcript"	"intron_variant"	"-/5104"	"-/228"	"-/75"	""	""	""	"1"	NA	-1	"GNG4"	"HGNC"	4407	"protein_coding"	"YES"	"CCDS1607.1"	"ENSP00000375727"	"P50150"	"B1APZ0"	"UPI000012B22C"	"NM_001098722.1,NM_004485.3"	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"34fa6b82-fddf-11e5-ba37-1f3e424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0759493670886076	"WGS"	FALSE
"7908"	"RGS7"	6000	"mskcc.org"	"GRCh37"	"1"	241205079	241205130	"+"	"Intron"	"DEL"	"CTCAGGGTTTTAACTCAGGACACTTACAATGAACTAACTCAGTACTACCTTT"	"CTCAGGGTTTTAACTCAGGACACTTACAATGAACTAACTCAGTACTACCTTT"	"TGGACACTTACAATGAACTAACTC"	"novel"	NA	"284"	"W0006060F"	"CTCAGGGTTTTAACTCAGGACACTTACAATGAACTAACTCAGTACTACCTTT"	"CTCAGGGTTTTAACTCAGGACACTTACAATGAACTAACTCAGTACTACCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.175+56836_175+56887delAAAGGTAGTACTGAGTTAGTTCATTGTAAGTGTCCTGAGTTAAAACCCTGAGinsGAGTTAGTTCATTGTAAGTGTCCA"	""	""	"ENST00000366565"	""	100	"."	22	45	"."	0	"RGS7,intron_variant,,ENST00000366565,NM_002924.4;RGS7,intron_variant,,ENST00000366564,NM_001282778.1;RGS7,intron_variant,,ENST00000446183,;RGS7,intron_variant,,ENST00000366563,NM_001282775.1;RGS7,intron_variant,,ENST00000348120,NM_001282773.1;RGS7,intron_variant,,ENST00000331110,;RGS7,intron_variant,,ENST00000407727,;RGS7,intron_variant,,ENST00000366562,;RGS7,intron_variant,,ENST00000401882,;"	"TGGACACTTACAATGAACTAACTC"	"ENSG00000182901"	"ENST00000366565"	"Transcript"	"intron_variant"	"-/2494"	"-/1464"	"-/487"	""	""	""	"1"	NA	-1	"RGS7"	"HGNC"	10003	"protein_coding"	"YES"	"CCDS31071.1"	"ENSP00000355523"	"P49802"	""	"UPI000040E182"	"NM_002924.4"	NA	NA	""	"3/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCTCAGGGTTTTAACTCAGGACACTTACAATGAACTAACTCAGTACTACCTTTG"	"a96a65da-fdda-11e5-ba37-1f3e424a729f"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.22	"WGS"	FALSE
"7909"	"RP11-385N23.1"	0	"mskcc.org"	"GRCh37"	"10"	7582376	7582377	"+"	"3'Flank"	"INS"	"-"	"-"	"AAAAAA"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000414631"	""	107	"."	6	46	"."	0	"RP11-385N23.1,downstream_gene_variant,,ENST00000414631,;"	"AAAAAA"	"ENSG00000230121"	"ENST00000414631"	"Transcript"	"downstream_gene_variant"	"-/714"	""	""	""	""	""	"1"	"3849"	1	"RP11-385N23.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"dee5371a-fdd7-11e5-a4d0-203e424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0560747663551402	"WGS"	FALSE
"7910"	"FAM171A1"	221061	"mskcc.org"	"GRCh37"	"10"	15257133	15257134	"+"	"Intron"	"DEL"	"AA"	"AA"	"-"	"novel"	NA	"284"	"W0006060F"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.987-534_987-533delTT"	""	""	"ENST00000378116"	""	86	"."	15	63	"."	0	"FAM171A1,intron_variant,,ENST00000378116,NM_001010924.1;FAM171A1,intron_variant,,ENST00000477161,;"	"-"	"ENSG00000148468"	"ENST00000378116"	"Transcript"	"intron_variant"	"-/3952"	"-/2673"	"-/890"	""	""	""	"1"	NA	-1	"FAM171A1"	"HGNC"	23522	"protein_coding"	"YES"	"CCDS31154.1"	"ENSP00000367356"	"Q5VUB5"	""	"UPI00001414CA"	"NM_001010924.1"	NA	NA	""	"7/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAAA"	"3e1321b4-fdd5-11e5-a4d0-203e424a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.174418604651163	"WGS"	FALSE
"7911"	"RP11-135A24.2"	102031319	"mskcc.org"	"GRCh37"	"10"	32644947	32644959	"+"	"Intron"	"DEL"	"GGAACAAAATTTA"	"GGAACAAAATTTA"	"ATTTAGAGGAAT"	"rs386742744"	NA	"284"	"W0006060F"	"GGAACAAAATTTA"	"GGAACAAAATTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.79+8544_79+8556delGGAACAAAATTTAinsATTTAGAGGAAT"	""	""	"ENST00000417447"	""	93	"."	11	60	"."	0	"EPC1,intron_variant,,ENST00000375110,NM_001282391.1;RP11-135A24.2,intron_variant,,ENST00000417447,;"	"ATTTAGAGGAAT"	"ENSG00000229327"	"ENST00000417447"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/265"	""	""	""	""	"rs386742744"	"1"	NA	1	"RP11-135A24.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGGAACAAAATTTAG"	"8bba5b2e-fdd7-11e5-a4d0-203e424a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.118279569892473	"WGS"	FALSE
"7912"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	42467983	42468011	"+"	"IGR"	"DEL"	"GCTGCAATGAACTCCCAAATGTCCATTCA"	"GCTGCAATGAACTCCCAAATGTCCATTCA"	"CCGCAATGAACTCCCAAATGTCCATT"	"novel"	NA	"284"	"W0006060F"	"GCTGCAATGAACTCCCAAATGTCCATTCA"	"GCTGCAATGAACTCCCAAATGTCCATTCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"."	11	47	"."	0	""	"CCGCAATGAACTCCCAAATGTCCATT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGCTGCAATGAACTCCCAAATGTCCATTCAC"	"91087b92-fdd7-11e5-a4d0-203e424a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.134146341463415	"WGS"	FALSE
"7913"	"ZNF22"	7570	"mskcc.org"	"GRCh37"	"10"	45502010	45502023	"+"	"3'Flank"	"DEL"	"TTTTTTTTTTTTTG"	"TTTTTTTTTTTTTG"	"-"	"rs553052301"	NA	"284"	"W0006060F"	"TTTTTTTTTTTTTG"	"TTTTTTTTTTTTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000298299"	""	102	"."	5	55	"."	0	"ZNF22,downstream_gene_variant,,ENST00000298299,NM_006963.4;CEP164P1,intron_variant,,ENST00000456938,;"	"-"	"ENSG00000165512"	"ENST00000298299"	"Transcript"	"downstream_gene_variant"	"-/2551"	"-/675"	"-/224"	""	""	"rs553052301"	"1"	"1236"	1	"ZNF22"	"HGNC"	13012	"protein_coding"	"YES"	"CCDS7211.1"	"ENSP00000298299"	"P17026"	""	"UPI0000001C08"	"NM_006963.4"	NA	NA	""	""	""	"-:0.0024"	"-:0.0008"	"-:0.0058"	NA	"-:0.004"	"-:0.001"	"-:0.002"	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTTTTTTTTTTTGT"	"df6b7124-fdd5-11e5-a4d0-203e424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0490196078431373	"WGS"	FALSE
"7914"	"PCDH15"	65217	"mskcc.org"	"GRCh37"	"10"	56689484	56689484	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-79-32224delC"	""	""	"ENST00000373957"	""	92	"."	17	47	"."	0	"PCDH15,intron_variant,,ENST00000373957,;PCDH15,intron_variant,,ENST00000458638,;"	"-"	"ENSG00000150275"	"ENST00000373957"	"Transcript"	"intron_variant"	"-/3471"	"-/2430"	"-/809"	""	""	""	"1"	NA	-1	"PCDH15"	"HGNC"	14674	"protein_coding"	""	""	"ENSP00000363068"	""	"A2A3D8"	"UPI00002288B6"	""	NA	NA	""	"3/20"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTGG"	"0caf28f6-fdd6-11e5-a4d0-203e424a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.184782608695652	"WGS"	FALSE
"7915"	"PCDH15"	65217	"mskcc.org"	"GRCh37"	"10"	56943123	56943124	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-155-16713dupT"	""	""	"ENST00000373957"	""	105	"."	15	60	"."	0	"PCDH15,intron_variant,,ENST00000373957,;PCDH15,intron_variant,,ENST00000458638,;"	"A"	"ENSG00000150275"	"ENST00000373957"	"Transcript"	"intron_variant"	"-/3471"	"-/2430"	"-/809"	""	""	""	"1"	NA	-1	"PCDH15"	"HGNC"	14674	"protein_coding"	""	""	"ENSP00000363068"	""	"A2A3D8"	"UPI00002288B6"	""	NA	NA	""	"2/20"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"382ce7ea-fdd9-11e5-a4d0-203e424a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.142857142857143	"WGS"	FALSE
"7916"	"ANK3"	288	"mskcc.org"	"GRCh37"	"10"	61924650	61924653	"+"	"Intron"	"DEL"	"AAGT"	"AAGT"	"-"	"novel"	NA	"284"	"W0006060F"	"AAGT"	"AAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2614+1696_2614+1699delACTT"	""	""	"ENST00000280772"	""	102	"."	23	74	"."	0	"ANK3,intron_variant,,ENST00000280772,NM_020987.3;ANK3,intron_variant,,ENST00000373827,NM_001204403.1;ANK3,intron_variant,,ENST00000503366,NM_001204404.1;ANK3,intron_variant,,ENST00000474360,;ANK3,intron_variant,,ENST00000460468,;"	"-"	"ENSG00000151150"	"ENST00000280772"	"Transcript"	"intron_variant"	"-/16874"	"-/13134"	"-/4377"	""	""	""	"1"	NA	-1	"ANK3"	"HGNC"	494	"protein_coding"	"YES"	"CCDS7258.1"	"ENSP00000280772"	"Q12955"	"D6RFK6,D6RBY7,B1AQT1"	"UPI0000141BA9"	"NM_020987.3"	NA	NA	""	"23/43"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAAAGTA"	"2a6941ce-fdd6-11e5-a4d0-203e424a729f"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.225490196078431	"WGS"	FALSE
"7917"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	67273102	67273177	"+"	"IGR"	"DEL"	"AGAACATGTGAAGCTTGTCTTTCTGTGCCTGGCTTATTTTATTTAACATAGTGACCTCCAGATTTGTCCATGTTGT"	"AGAACATGTGAAGCTTGTCTTTCTGTGCCTGGCTTATTTTATTTAACATAGTGACCTCCAGATTTGTCCATGTTGT"	"GGAGCTATATATATTTTTATATATA"	"novel"	NA	"284"	"W0006060F"	"AGAACATGTGAAGCTTGTCTTTCTGTGCCTGGCTTATTTTATTTAACATAGTGACCTCCAGATTTGTCCATGTTGT"	"AGAACATGTGAAGCTTGTCTTTCTGTGCCTGGCTTATTTTATTTAACATAGTGACCTCCAGATTTGTCCATGTTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"."	13	37	"."	0	""	"GGAGCTATATATATTTTTATATATA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAGAACATGTGAAGCTTGTCTTTCTGTGCCTGGCTTATTTTATTTAACATAGTGACCTCCAGATTTGTCCATGTTGTT"	"9bd67ccc-fdd7-11e5-a4d0-203e424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.168831168831169	"WGS"	FALSE
"7918"	"ASCC1"	51008	"mskcc.org"	"GRCh37"	"10"	73886513	73886548	"+"	"Intron"	"DEL"	"GAGAAAGATTCATATCACACCGAAGCTGTAGCCTGG"	"GAGAAAGATTCATATCACACCGAAGCTGTAGCCTGG"	"AAAGATTCATATCACACCGAAGCTGTAGCCTGGA"	"novel"	NA	"284"	"W0006060F"	"GAGAAAGATTCATATCACACCGAAGCTGTAGCCTGG"	"GAGAAAGATTCATATCACACCGAAGCTGTAGCCTGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1041+1292_1041+1327delCCAGGCTACAGCTTCGGTGTGATATGAATCTTTCTCinsTCCAGGCTACAGCTTCGGTGTGATATGAATCTTT"	""	""	"ENST00000342444"	""	108	"."	11	57	"."	0	"ASCC1,intron_variant,,ENST00000342444,NM_001198799.2;ASCC1,intron_variant,,ENST00000394919,NM_001198798.2;ASCC1,intron_variant,,ENST00000317168,NM_001198800.2;ASCC1,intron_variant,,ENST00000486689,;ASCC1,intron_variant,,ENST00000317126,;ASCC1,intron_variant,,ENST00000545550,;ASCC1,intron_variant,,ENST00000394915,;ASCC1,intron_variant,,ENST00000530394,;ASCC1,downstream_gene_variant,,ENST00000525286,;ASCC1,intron_variant,,ENST00000534259,;"	"AAAGATTCATATCACACCGAAGCTGTAGCCTGGA"	"ENSG00000138303"	"ENST00000342444"	"Transcript"	"intron_variant"	"-/2270"	"-/1203"	"-/400"	""	""	""	"1"	NA	-1	"ASCC1"	"HGNC"	24268	"protein_coding"	"YES"	"CCDS55713.1"	"ENSP00000339404"	"Q8N9N2"	"E9PJM2"	"UPI000006F7E9"	"NM_001198799.2"	NA	NA	""	"10/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGGAGAAAGATTCATATCACACCGAAGCTGTAGCCTGGA"	"9ee25cd8-fdd7-11e5-a4d0-203e424a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.101851851851852	"WGS"	FALSE
"7919"	"ASCC1"	51008	"mskcc.org"	"GRCh37"	"10"	73886513	73886548	"+"	"Intron"	"DEL"	"GAGAAAGATTCATATCACACCGAAGCTGTAGCCTGG"	"GAGAAAGATTCATATCACACCGAAGCTGTAGCCTGG"	"AAAGATTCATATCACACCGAAGCTGTAGCCTGGA"	"novel"	NA	"284"	"W0006060F"	"GAGAAAGATTCATATCACACCGAAGCTGTAGCCTGG"	"GAGAAAGATTCATATCACACCGAAGCTGTAGCCTGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1041+1292_1041+1327delCCAGGCTACAGCTTCGGTGTGATATGAATCTTTCTCinsTCCAGGCTACAGCTTCGGTGTGATATGAATCTTT"	""	""	"ENST00000342444"	""	108	"."	8	57	"."	0	"ASCC1,intron_variant,,ENST00000342444,NM_001198799.2;ASCC1,intron_variant,,ENST00000394919,NM_001198798.2;ASCC1,intron_variant,,ENST00000317168,NM_001198800.2;ASCC1,intron_variant,,ENST00000486689,;ASCC1,intron_variant,,ENST00000317126,;ASCC1,intron_variant,,ENST00000545550,;ASCC1,intron_variant,,ENST00000394915,;ASCC1,intron_variant,,ENST00000530394,;ASCC1,downstream_gene_variant,,ENST00000525286,;ASCC1,intron_variant,,ENST00000534259,;"	"AAAGATTCATATCACACCGAAGCTGTAGCCTGGA"	"ENSG00000138303"	"ENST00000342444"	"Transcript"	"intron_variant"	"-/2270"	"-/1203"	"-/400"	""	""	""	"1"	NA	-1	"ASCC1"	"HGNC"	24268	"protein_coding"	"YES"	"CCDS55713.1"	"ENSP00000339404"	"Q8N9N2"	"E9PJM2"	"UPI000006F7E9"	"NM_001198799.2"	NA	NA	""	"10/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGGAGAAAGATTCATATCACACCGAAGCTGTAGCCTGGA"	"9ee53f7a-fdd7-11e5-a4d0-203e424a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0740740740740741	"WGS"	FALSE
"7920"	"GSTO1"	9446	"mskcc.org"	"GRCh37"	"10"	106021290	106021295	"+"	"Intron"	"DEL"	"ATGTTA"	"TAAC"	"TAAC"	"rs386747181"	NA	"284"	"W0006060F"	"ATGTTA"	"ATGTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.367-1447_367-1442delATGTTAinsTAAC"	""	""	"ENST00000369713"	""	94	"."	69	62	"."	0	"GSTO1,intron_variant,,ENST00000539281,NM_001191003.1;GSTO1,intron_variant,,ENST00000369713,NM_004832.2;GSTO1,intron_variant,,ENST00000369710,NM_001191002.1;GSTO1,intron_variant,,ENST00000445155,;GSTO1,intron_variant,,ENST00000432659,;GSTO1,intron_variant,,ENST00000493946,;GSTO1,downstream_gene_variant,,ENST00000470554,;"	"TAAC"	"ENSG00000148834"	"ENST00000369713"	"Transcript"	"intron_variant"	"-/972"	"-/726"	"-/241"	""	""	"rs386747181"	"1"	NA	1	"GSTO1"	"HGNC"	13312	"protein_coding"	"YES"	"CCDS7555.1"	"ENSP00000358727"	"P78417"	"Q5TA02"	"UPI00000465CE"	"NM_004832.2"	NA	NA	""	"3/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAATGTTAA"	"a8b42f5c-fdd7-11e5-a4d0-203e424a729f"	"4140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.734042553191489	"WGS"	FALSE
"7921"	"NRIP3"	56675	"mskcc.org"	"GRCh37"	"11"	9023270	9023427	"+"	"Intron"	"DEL"	"AGAGAGTTTAAGCATGCTGCCTCACCCCAGCGCTTGCGGCTCTCCTAGCCCTACCTCGGTCTGCCTTGGTTTCTGTAACCTGGCTGTTCTGTGCAATCACTTGTACATTATAGGTGTGAAAACAGTGAGAGAGGGAAATCAACTCCATGACGGTGGGG"	"AGAGAGTTTAAGCATGCTGCCTCACCCCAGCGCTTGCGGCTCTCCTAGCCCTACCTCGGTCTGCCTTGGTTTCTGTAACCTGGCTGTTCTGTGCAATCACTTGTACATTATAGGTGTGAAAACAGTGAGAGAGGGAAATCAACTCCATGACGGTGGGG"	"GCCTTAGTGGAACTGTT"	"novel"	NA	"284"	"W0006060F"	"AGAGAGTTTAAGCATGCTGCCTCACCCCAGCGCTTGCGGCTCTCCTAGCCCTACCTCGGTCTGCCTTGGTTTCTGTAACCTGGCTGTTCTGTGCAATCACTTGTACATTATAGGTGTGAAAACAGTGAGAGAGGGAAATCAACTCCATGACGGTGGGG"	"AGAGAGTTTAAGCATGCTGCCTCACCCCAGCGCTTGCGGCTCTCCTAGCCCTACCTCGGTCTGCCTTGGTTTCTGTAACCTGGCTGTTCTGTGCAATCACTTGTACATTATAGGTGTGAAAACAGTGAGAGAGGGAAATCAACTCCATGACGGTGGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.174+1882_174+2039delCCCCACCGTCATGGAGTTGATTTCCCTCTCTCACTGTTTTCACACCTATAATGTACAAGTGATTGCACAGAACAGCCAGGTTACAGAAACCAAGGCAGACCGAGGTAGGGCTAGGAGAGCCGCAAGCGCTGGGGTGAGGCAGCATGCTTAAACTCTCTinsAACAGTTCCACTAAGGC"	""	""	"ENST00000309166"	""	72	"."	9	37	"."	0	"NRIP3,intron_variant,,ENST00000309166,NM_020645.2;NRIP3,intron_variant,,ENST00000531090,;NRIP3,intron_variant,,ENST00000525100,;RP11-467K18.2,upstream_gene_variant,,ENST00000531592,;"	"GCCTTAGTGGAACTGTT"	"ENSG00000175352"	"ENST00000309166"	"Transcript"	"intron_variant"	"-/3809"	"-/726"	"-/241"	""	""	""	"1"	NA	-1	"NRIP3"	"HGNC"	1167	"protein_coding"	"YES"	"CCDS31422.1"	"ENSP00000310205"	"Q9NQ35"	"B7Z3Y4"	"UPI000004B7A9"	"NM_020645.2"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAAGAGAGTTTAAGCATGCTGCCTCACCCCAGCGCTTGCGGCTCTCCTAGCCCTACCTCGGTCTGCCTTGGTTTCTGTAACCTGGCTGTTCTGTGCAATCACTTGTACATTATAGGTGTGAAAACAGTGAGAGAGGGAAATCAACTCCATGACGGTGGGGC"	"48940d48-fdd9-11e5-abd0-a8e5414a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.125	"WGS"	FALSE
"7922"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	26994719	26994719	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"."	10	51	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"d6a58340-fdd5-11e5-abd0-a8e5414a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.120481927710843	"WGS"	FALSE
"7923"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	28632952	28632961	"+"	"IGR"	"DEL"	"CTGATATCTA"	"CTGATATCTA"	"TTGCC"	"novel"	NA	"284"	"W0006060F"	"CTGATATCTA"	"CTGATATCTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	11	52	"."	0	""	"TTGCC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCTGATATCTAC"	"58976d5c-fdd9-11e5-abd0-a8e5414a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.119565217391304	"WGS"	FALSE
"7924"	"HIPK3"	10114	"mskcc.org"	"GRCh37"	"11"	33359144	33359174	"+"	"Intron"	"DEL"	"TGCCCACCTCCGCCTCCCAACGTGCTAGGAT"	"TGCCCACCTCCGCCTCCCAACGTGCTAGGAT"	"-"	"novel"	NA	"284"	"W0006060F"	"TGCCCACCTCCGCCTCCCAACGTGCTAGGAT"	"TGCCCACCTCCGCCTCCCAACGTGCTAGGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1341+405_1341+435delGCCCACCTCCGCCTCCCAACGTGCTAGGATT"	""	""	"ENST00000303296"	""	91	"."	16	57	"."	0	"HIPK3,intron_variant,,ENST00000303296,NM_005734.4;HIPK3,intron_variant,,ENST00000379016,NM_001048200.2;HIPK3,intron_variant,,ENST00000456517,NM_001278162.1;HIPK3,intron_variant,,ENST00000525975,NM_001278163.1;HIPK3,intron_variant,,ENST00000534262,;"	"-"	"ENSG00000110422"	"ENST00000303296"	"Transcript"	"intron_variant"	"-/7408"	"-/3648"	"-/1215"	""	""	""	"1"	NA	1	"HIPK3"	"HGNC"	4915	"protein_coding"	"YES"	"CCDS7884.1"	"ENSP00000304226"	"Q9H422"	"E9PKD7"	"UPI000006D7F8"	"NM_005734.4"	NA	NA	""	"4/16"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTGCCCACCTCCGCCTCCCAACGTGCTAGGATT"	"0caed37e-fdd6-11e5-abd0-a8e5414a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.175824175824176	"WGS"	FALSE
"7925"	"ABTB2"	25841	"mskcc.org"	"GRCh37"	"11"	34315157	34315176	"+"	"Intron"	"DEL"	"GTGTCAAATGCTGCTGAGAT"	"GTGTCAAATGCTGCTGAGAT"	"TATTCTGC"	"rs386752331"	NA	"284"	"W0006060F"	"GTGTCAAATGCTGCTGAGAT"	"GTGTCAAATGCTGCTGAGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.883+63072_883+63091delATCTCAGCAGCATTTGACACinsGCAGAATA"	""	""	"ENST00000435224"	""	87	"."	28	59	"."	0	"ABTB2,intron_variant,,ENST00000435224,NM_145804.2;ABTB2,intron_variant,,ENST00000298992,;"	"TATTCTGC"	"ENSG00000166016"	"ENST00000435224"	"Transcript"	"intron_variant"	"-/4902"	"-/3078"	"-/1025"	""	""	"rs386752331"	"1"	NA	-1	"ABTB2"	"HGNC"	23842	"protein_coding"	"YES"	"CCDS7890.2"	"ENSP00000410157"	"Q8N961"	""	"UPI0001DD21BB"	"NM_145804.2"	NA	NA	""	"1/16"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGTGTCAAATGCTGCTGAGATA"	"5ad61172-fdd9-11e5-abd0-a8e5414a729f"	"1680"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.32183908045977	"WGS"	FALSE
"7926"	"RP11-855O10.3"	0	"mskcc.org"	"GRCh37"	"11"	61424080	61424104	"+"	"5'Flank"	"DEL"	"CAGGGGGTGCAGGGTGGTGAGGGTA"	"CAGGGGGTGCAGGGTGGTGAGGGTA"	"-"	"novel"	NA	"284"	"W0006060F"	"CAGGGGGTGCAGGGTGGTGAGGGTA"	"CAGGGGGTGCAGGGTGGTGAGGGTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000542121"	""	47	"."	11	30	"."	0	"RP11-855O10.3,upstream_gene_variant,,ENST00000542121,;"	"-"	"ENSG00000255947"	"ENST00000542121"	"Transcript"	"upstream_gene_variant"	"-/462"	""	""	""	""	""	"1"	"906"	-1	"RP11-855O10.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCAGGGGGTGCAGGGTGGTGAGGGTAC"	"ea3eefbc-fdd6-11e5-abd0-a8e5414a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.234042553191489	"WGS"	FALSE
"7927"	"ESRRA"	2101	"mskcc.org"	"GRCh37"	"11"	64081667	64081667	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.443-42delC"	""	""	"ENST00000405666"	""	76	"."	15	53	"."	0	"ESRRA,intron_variant,,ENST00000405666,NM_001282450.1;ESRRA,intron_variant,,ENST00000406310,NM_004451.3,NM_001282451.1;ESRRA,intron_variant,,ENST00000000442,;ESRRA,intron_variant,,ENST00000539594,;TRMT112,downstream_gene_variant,,ENST00000544844,;PRDX5,upstream_gene_variant,,ENST00000265462,NM_012094.4;TRMT112,downstream_gene_variant,,ENST00000535750,;TRMT112,downstream_gene_variant,,ENST00000535126,;ESRRA,upstream_gene_variant,,ENST00000545035,;TRMT112,downstream_gene_variant,,ENST00000539854,;PRDX5,upstream_gene_variant,,ENST00000352435,NM_181651.2;TRMT112,downstream_gene_variant,,ENST00000308774,NM_016404.1,NM_001286082.1;PRDX5,upstream_gene_variant,,ENST00000347941,NM_181652.2;ESRRA,intron_variant,,ENST00000467987,;TRMT112,downstream_gene_variant,,ENST00000537918,;"	"-"	"ENSG00000173153"	"ENST00000405666"	"Transcript"	"intron_variant"	"-/2283"	"-/1272"	"-/423"	""	""	""	"1"	NA	1	"ESRRA"	"HGNC"	3471	"protein_coding"	"YES"	"CCDS41667.1"	"ENSP00000384851"	"P11474"	"Q96I02,Q96F89,Q569H8,F5H0E9,F5GWT5"	"UPI0000167B87"	"NM_001282450.1"	NA	NA	""	"3/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"ff0cf47a-fdd6-11e5-abd0-a8e5414a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.197368421052632	"WGS"	FALSE
"7928"	"PC"	5091	"mskcc.org"	"GRCh37"	"11"	66691861	66691861	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1+28040delA"	""	""	"ENST00000393960"	""	78	"."	5	41	"."	0	"PC,intron_variant,,ENST00000393960,NM_001040716.1;PC,intron_variant,,ENST00000393958,NM_000920.3;PC,intron_variant,,ENST00000355677,;PC,intron_variant,,ENST00000524491,;RNU7-23P,downstream_gene_variant,,ENST00000459465,;PC,intron_variant,,ENST00000528403,;PC,intron_variant,,ENST00000531614,;"	"-"	"ENSG00000173599"	"ENST00000393960"	"Transcript"	"intron_variant"	"-/4192"	"-/3537"	"-/1178"	""	""	""	"1"	NA	-1	"PC"	"HGNC"	8636	"protein_coding"	"YES"	"CCDS8152.1"	"ENSP00000377532"	"P11498"	"E9PS68"	"UPI0000132BC4"	"NM_001040716.1"	NA	NA	""	"3/22"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AATT"	"15896cce-fdd7-11e5-abd0-a8e5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0641025641025641	"WGS"	FALSE
"7929"	"FAM86C2P"	645332	"mskcc.org"	"GRCh37"	"11"	67562855	67562856	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAAAA"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.986+1290_986+1299dupTTTTTTTTTT"	""	""	"ENST00000528089"	""	71	"."	5	54	"."	0	"FAM86C2P,intron_variant,,ENST00000528089,;FAM86C2P,intron_variant,,ENST00000529253,;FAM86C2P,intron_variant,,ENST00000531806,;FAM86C2P,downstream_gene_variant,,ENST00000525180,;FAM86C2P,intron_variant,,ENST00000528684,;ALG1L8P,downstream_gene_variant,,ENST00000533887,;"	"AAAAAAAAAA"	"ENSG00000160172"	"ENST00000528089"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2496"	""	""	""	""	""	"1"	NA	-1	"FAM86C2P"	"HGNC"	42392	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"77d1ce72-fddb-11e5-abd0-a8e5414a729f"	"291"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0704225352112676	"WGS"	FALSE
"7930"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	85820953	85820959	"+"	"IGR"	"DEL"	"CCCTCTC"	"CCCTCTC"	"-"	"novel"	NA	"284"	"W0006060F"	"CCCTCTC"	"CCCTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	44	"."	7	14	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCCCTCTCC"	"a2f5deda-fdd7-11e5-abd0-a8e5414a729f"	"377"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.159090909090909	"WGS"	FALSE
"7931"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	90825953	90825954	"+"	"IGR"	"INS"	"-"	"-"	"TTTTTTTTTTTTTTTT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"."	5	58	"."	0	""	"TTTTTTTTTTTTTTTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"432eacac-fddc-11e5-abd0-a8e5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0515463917525773	"WGS"	FALSE
"7932"	"MAML2"	84441	"mskcc.org"	"GRCh37"	"11"	95854944	95854945	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTTTTT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.514-28275_514-28264dupAAAAAAAAAAAA"	""	""	"ENST00000524717"	""	115	"."	7	85	"."	0	"MAML2,intron_variant,,ENST00000524717,NM_032427.1;"	"TTTTTTTTTTTT"	"ENSG00000184384"	"ENST00000524717"	"Transcript"	"intron_variant"	"-/7106"	"-/3471"	"-/1156"	""	""	""	"1"	NA	-1	"MAML2"	"HGNC"	16259	"protein_coding"	"YES"	"CCDS44714.1"	"ENSP00000434552"	"Q8IZL2"	""	"UPI00001B4EFC"	"NM_032427.1"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"70092f54-fddc-11e5-abd0-a8e5414a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0608695652173913	"WGS"	TRUE
"7933"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	98328024	98328025	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"."	18	57	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"86a1d93c-fddc-11e5-abd0-a8e5414a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.148760330578512	"WGS"	FALSE
"7934"	"RP11-94P11.4"	0	"mskcc.org"	"GRCh37"	"11"	105218347	105218426	"+"	"Intron"	"DEL"	"CAGTCAGGATTCACAATCCAGGATTAAGGGGTGGAAATGAGAGCGCCATCGGTCATTATTACCCTTAGTGATACACTAGC"	"CAGTCAGGATTCACAATCCAGGATTAAGGGGTGGAAATGAGAGCGCCATCGGTCATTATTACCCTTAGTGATACACTAGC"	"AAAGTTATAT"	"novel"	NA	"284"	"W0006060F"	"CAGTCAGGATTCACAATCCAGGATTAAGGGGTGGAAATGAGAGCGCCATCGGTCATTATTACCCTTAGTGATACACTAGC"	"CAGTCAGGATTCACAATCCAGGATTAAGGGGTGGAAATGAGAGCGCCATCGGTCATTATTACCCTTAGTGATACACTAGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.97-79388_97-79309delGCTAGTGTATCACTAAGGGTAATAATGACCGATGGCGCTCTCATTTCCACCCCTTAATCCTGGATTGTGAATCCTGACTGinsATATAACTTT"	""	""	"ENST00000528811"	""	107	"."	16	38	"."	0	"RP11-94P11.4,intron_variant,,ENST00000528811,;"	"AAAGTTATAT"	"ENSG00000254998"	"ENST00000528811"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/445"	""	""	""	""	""	"1"	NA	-1	"RP11-94P11.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACAGTCAGGATTCACAATCCAGGATTAAGGGGTGGAAATGAGAGCGCCATCGGTCATTATTACCCTTAGTGATACACTAGCA"	"838f18ca-fdd9-11e5-abd0-a8e5414a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.149532710280374	"WGS"	FALSE
"7935"	"ATM"	472	"mskcc.org"	"GRCh37"	"11"	108199283	108199291	"+"	"Intron"	"DEL"	"TAAATTTTA"	"TAAATTTTA"	"-"	"novel"	NA	"284"	"W0006060F"	"TAAATTTTA"	"TAAATTTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7090-461_7090-453delTTTTATAAA"	""	""	"ENST00000278616"	""	102	"."	18	56	"."	0	"ATM,intron_variant,,ENST00000278616,NM_000051.3;ATM,intron_variant,,ENST00000452508,;C11orf65,intron_variant,,ENST00000525729,;C11orf65,downstream_gene_variant,,ENST00000524755,;ATM,upstream_gene_variant,,ENST00000533979,;ATM,intron_variant,,ENST00000524792,;ATM,intron_variant,,ENST00000533690,;ATM,intron_variant,,ENST00000525537,;ATM,intron_variant,,ENST00000527389,;C11orf65,downstream_gene_variant,,ENST00000527531,;ATM,upstream_gene_variant,,ENST00000525056,;"	"-"	"ENSG00000149311"	"ENST00000278616"	"Transcript"	"intron_variant"	"-/13147"	"-/9171"	"-/3056"	""	""	""	"1"	NA	1	"ATM"	"HGNC"	795	"protein_coding"	"YES"	"CCDS31669.1"	"ENSP00000278616"	"Q13315"	"M0QXY8,E9PRG7,E9PIN0"	"UPI0000DBEF44"	"NM_000051.3"	NA	NA	""	"48/62"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTTAAATTTTAT"	"66cfad90-fdd8-11e5-abd0-a8e5414a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.176470588235294	"WGS"	TRUE
"7936"	"DDX10"	1662	"mskcc.org"	"GRCh37"	"11"	108780842	108780855	"+"	"Intron"	"DEL"	"AAAGTGGAGATTAC"	"AAAGTGGAGATTAC"	"TATCAT"	"novel"	NA	"284"	"W0006060F"	"AAAGTGGAGATTAC"	"AAAGTGGAGATTAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2305-7758_2305-7745delAAAGTGGAGATTACinsTATCAT"	""	""	"ENST00000322536"	""	88	"."	13	54	"."	0	"DDX10,intron_variant,,ENST00000526794,;DDX10,intron_variant,,ENST00000322536,NM_004398.2;DDX10,intron_variant,,ENST00000524979,;DDX10,intron_variant,,ENST00000530116,;"	"TATCAT"	"ENSG00000178105"	"ENST00000322536"	"Transcript"	"intron_variant"	"-/3264"	"-/2628"	"-/875"	""	""	""	"1"	NA	1	"DDX10"	"HGNC"	2735	"protein_coding"	"YES"	"CCDS8342.1"	"ENSP00000314348"	"Q13206"	""	"UPI0000140E62"	"NM_004398.2"	NA	NA	""	"16/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAAAGTGGAGATTACC"	"8494131a-fdd9-11e5-abd0-a8e5414a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.147727272727273	"WGS"	TRUE
"7937"	"CADM1"	23705	"mskcc.org"	"GRCh37"	"11"	115101120	115101120	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.562+953delG"	""	""	"ENST00000452722"	""	105	"."	21	52	"."	0	"CADM1,intron_variant,,ENST00000452722,NM_014333.3;CADM1,intron_variant,,ENST00000542447,NM_001098517.1;CADM1,intron_variant,,ENST00000537058,;CADM1,intron_variant,,ENST00000536727,;CADM1,intron_variant,,ENST00000545380,;CADM1,intron_variant,,ENST00000331581,;CADM1,intron_variant,,ENST00000542450,;CADM1,intron_variant,,ENST00000543540,;CADM1,intron_variant,,ENST00000545094,;CADM1,intron_variant,,ENST00000543249,;CADM1,intron_variant,,ENST00000537140,;CADM1,intron_variant,,ENST00000541434,;CADM1,downstream_gene_variant,,ENST00000540951,;"	"-"	"ENSG00000182985"	"ENST00000452722"	"Transcript"	"intron_variant"	"-/8588"	"-/1329"	"-/442"	""	""	""	"1"	NA	-1	"CADM1"	"HGNC"	5951	"protein_coding"	"YES"	"CCDS8373.1"	"ENSP00000395359"	"Q9BY67"	"Q6MZK6,F5H8J9,F5H0H5"	"UPI0000049C25"	"NM_014333.3"	NA	NA	""	"4/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACC"	"99f36630-fdd8-11e5-abd0-a8e5414a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.2	"WGS"	FALSE
"7938"	"PKNOX2"	63876	"mskcc.org"	"GRCh37"	"11"	125048612	125048613	"+"	"Intron"	"INS"	"-"	"-"	"AGAAAGAGAAAGGAAGGAAG"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-201+13943_-201+13944insAAGAGAAAGGAAGGAAGAGA"	""	""	"ENST00000298282"	""	86	"."	8	46	"."	0	"PKNOX2,intron_variant,,ENST00000298282,NM_022062.2;PKNOX2,intron_variant,,ENST00000542175,;PKNOX2,intron_variant,,ENST00000527238,;PKNOX2,intron_variant,,ENST00000530517,;PKNOX2,intron_variant,,ENST00000531116,;PKNOX2,intron_variant,,ENST00000559662,;PKNOX2,intron_variant,,ENST00000557814,;PKNOX2,intron_variant,,ENST00000561399,;PKNOX2,intron_variant,,ENST00000532623,;"	"AGAAAGAGAAAGGAAGGAAG"	"ENSG00000165495"	"ENST00000298282"	"Transcript"	"intron_variant"	"-/3687"	"-/1419"	"-/472"	""	""	""	"1"	NA	1	"PKNOX2"	"HGNC"	16714	"protein_coding"	"YES"	"CCDS41730.1"	"ENSP00000298282"	"Q96KN3"	"H0YLX0,E9PRB6,E9PKL2,B7ZAF3"	"UPI000023271E"	"NM_022062.2"	NA	NA	""	"1/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"8cc31c30-fddd-11e5-abd0-a8e5414a729f"	"467"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0930232558139535	"WGS"	FALSE
"7939"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	132276256	132276259	"+"	"IGR"	"DEL"	"TCTG"	"TCTG"	"-"	"novel"	NA	"284"	"W0006060F"	"TCTG"	"TCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"."	7	51	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTGT"	"2ebfa418-fdd9-11e5-abd0-a8e5414a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0843373493975904	"WGS"	FALSE
"7940"	"RP11-359B12.2"	0	"mskcc.org"	"GRCh37"	"12"	1081001	1081005	"+"	"3'Flank"	"DEL"	"CCCCC"	"CCCCC"	"TCCC"	"novel"	NA	"284"	"W0006060F"	"CCCCC"	"CCCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000503602"	""	79	"."	8	49	"."	0	"RAD52,intron_variant,,ENST00000430095,;RP11-359B12.2,downstream_gene_variant,,ENST00000503602,;RP11-359B12.2,downstream_gene_variant,,ENST00000545629,;"	"T"	"ENSG00000250132"	"ENST00000503602"	"Transcript"	"downstream_gene_variant"	"-/3207"	""	""	""	""	""	"1"	"2297"	-1	"RP11-359B12.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCCCCCC"	"6fbd5be0-fdd9-11e5-921b-a9e5414a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.10126582278481	"WGS"	FALSE
"7941"	"C1S"	716	"mskcc.org"	"GRCh37"	"12"	7136430	7136431	"+"	"Intron"	"INS"	"-"	"-"	"TTTTT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-399-13811_-399-13807dupTTTTT"	""	""	"ENST00000406697"	""	105	"."	5	48	"."	0	"C1S,intron_variant,,ENST00000406697,;RP3-461F17.1,upstream_gene_variant,,ENST00000468816,;"	"TTTTT"	"ENSG00000182326"	"ENST00000406697"	"Transcript"	"intron_variant"	"-/3076"	"-/2067"	"-/688"	""	""	""	"1"	NA	1	"C1S"	"HGNC"	1247	"protein_coding"	"YES"	"CCDS31735.1"	"ENSP00000385035"	"P09871"	"F8WCZ6,F5H7T4,C9JY52,C9IZP8,B5MCV4"	"UPI0000126BF6"	""	NA	NA	""	"2/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"28"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"f95c55cc-fdd9-11e5-921b-a9e5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0476190476190476	"WGS"	FALSE
"7942"	"RP11-705C15.3"	101928054	"mskcc.org"	"GRCh37"	"12"	9813110	9813111	"+"	"RNA"	"DEL"	"CT"	"CT"	"-"	"novel"	NA	"284"	"W0006060F"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.937_938delCT"	""	""	"ENST00000537616"	"2/2"	97	"."	13	58	"."	0	"RP11-705C15.3,non_coding_transcript_exon_variant,,ENST00000537616,;RP11-705C15.2,downstream_gene_variant,,ENST00000575094,;RP11-705C15.2,downstream_gene_variant,,ENST00000545363,;RP11-705C15.2,downstream_gene_variant,,ENST00000576948,;RP11-705C15.5,downstream_gene_variant,,ENST00000573622,;RP11-705C15.2,downstream_gene_variant,,ENST00000574035,;CLEC2D,upstream_gene_variant,,ENST00000536355,;RP11-705C15.2,downstream_gene_variant,,ENST00000537668,;"	"-"	"ENSG00000257027"	"ENST00000537616"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"937-938/2508"	""	""	""	""	""	"1"	NA	1	"RP11-705C15.3"	"Clone_based_vega_gene"	NA	"sense_intronic"	"YES"	""	""	""	""	""	""	NA	NA	"2/2"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACTT"	"41b8a140-fdd5-11e5-921b-a9e5414a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.134020618556701	"WGS"	FALSE
"7943"	"TAS2R20"	259295	"mskcc.org"	"GRCh37"	"12"	11147933	11147936	"+"	"3'Flank"	"DEL"	"AAAC"	"AAAC"	"-"	"novel"	NA	"284"	"W0006060F"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000538986"	""	109	"."	12	62	"."	0	"TAS2R20,downstream_gene_variant,,ENST00000538986,NM_176889.2;TAS2R14,intron_variant,,ENST00000381852,;PRR4,intron_variant,,ENST00000536668,;PRR4,intron_variant,,ENST00000535024,;PRR4,intron_variant,,ENST00000539853,;PRR4,intron_variant,,ENST00000536086,;PRR4,intron_variant,,ENST00000534923,;PRR4,intron_variant,,ENST00000541977,;"	"-"	"ENSG00000255837"	"ENST00000538986"	"Transcript"	"downstream_gene_variant"	"-/1381"	"-/930"	"-/309"	""	""	""	"1"	"1158"	-1	"TAS2R20"	"HGNC"	19109	"protein_coding"	"YES"	"CCDS8639.1"	"ENSP00000441624"	"P59543"	"Q50KF4"	"UPI000000D822"	"NM_176889.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAAACA"	"52d2c820-fdd5-11e5-921b-a9e5414a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.110091743119266	"WGS"	FALSE
"7944"	"C2CD5"	9847	"mskcc.org"	"GRCh37"	"12"	22683126	22683128	"+"	"Intron"	"DEL"	"TGT"	"TGT"	"GC"	"novel"	NA	"284"	"W0006060F"	"TGT"	"TGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.178-2302_178-2300delACAinsGC"	""	""	"ENST00000333957"	""	66	"."	14	48	"."	0	"C2CD5,intron_variant,,ENST00000333957,NM_014802.1;C2CD5,intron_variant,,ENST00000536386,NM_001286173.1;C2CD5,intron_variant,,ENST00000446597,NM_001286176.1;C2CD5,intron_variant,,ENST00000544930,;C2CD5,intron_variant,,ENST00000545552,NM_001286175.1;C2CD5,intron_variant,,ENST00000396028,NM_001286177.1;C2CD5,intron_variant,,ENST00000542676,NM_001286174.1;C2CD5,upstream_gene_variant,,ENST00000540703,;C2CD5,intron_variant,,ENST00000541310,;C2CD5,downstream_gene_variant,,ENST00000535304,;"	"GC"	"ENSG00000111731"	"ENST00000333957"	"Transcript"	"intron_variant"	"-/4436"	"-/3003"	"-/1000"	""	""	""	"1"	NA	-1	"C2CD5"	"HGNC"	29062	"protein_coding"	"YES"	"CCDS31758.1"	"ENSP00000334229"	"Q86YS7"	""	"UPI000000D850"	"NM_014802.1"	NA	NA	""	"3/24"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTGTA"	"7f0dfb18-fdd9-11e5-921b-a9e5414a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.212121212121212	"WGS"	FALSE
"7945"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	26010289	26010293	"+"	"IGR"	"DEL"	"AAAAG"	"AAAAG"	"-"	"novel"	NA	"284"	"W0006060F"	"AAAAG"	"AAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"."	5	45	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAGA"	"d843908e-fdd5-11e5-921b-a9e5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0595238095238095	"WGS"	FALSE
"7946"	"KCNH3"	23416	"mskcc.org"	"GRCh37"	"12"	49947097	49947099	"+"	"Intron"	"DEL"	"TGT"	"TGT"	"-"	"rs199602952"	NA	"284"	"W0006060F"	"TGT"	"TGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1919-1010_1919-1008delGTT"	""	""	"ENST00000257981"	""	89	"."	18	45	"."	0	"KCNH3,intron_variant,,ENST00000257981,NM_012284.1;MCRS1,downstream_gene_variant,,ENST00000546244,NM_001278341.1;MCRS1,downstream_gene_variant,,ENST00000551598,;MCRS1,downstream_gene_variant,,ENST00000551625,;MCRS1,downstream_gene_variant,,ENST00000548602,;KCNH3,upstream_gene_variant,,ENST00000548675,;"	"-"	"ENSG00000135519"	"ENST00000257981"	"Transcript"	"intron_variant"	"-/3867"	"-/3252"	"-/1083"	""	""	"rs199602952"	"1"	NA	1	"KCNH3"	"HGNC"	6252	"protein_coding"	"YES"	"CCDS8786.1"	"ENSP00000257981"	"Q9ULD8"	"Q8N500"	"UPI000012DCA6"	"NM_012284.1"	NA	NA	""	"10/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"13"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTGTT"	"89757728-fdd6-11e5-921b-a9e5414a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.202247191011236	"WGS"	FALSE
"7947"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	50244978	50244997	"+"	"IGR"	"DEL"	"TTTTAAAAAGAATTCTTACC"	"TTTTAAAAAGAATTCTTACC"	"-"	"novel"	NA	"284"	"W0006060F"	"TTTTAAAAAGAATTCTTACC"	"TTTTAAAAAGAATTCTTACC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"."	20	52	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTTTTAAAAAGAATTCTTACCT"	"8bc5580e-fdd6-11e5-921b-a9e5414a729f"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.208333333333333	"WGS"	FALSE
"7948"	"NEUROD4"	58158	"mskcc.org"	"GRCh37"	"12"	55422554	55422606	"+"	"3'UTR"	"DEL"	"GGTGAATATTTTTACCAACTATGTCTTCATCACAGGTTTAACCCAATTTGCAG"	"GGTGAATATTTTTACCAACTATGTCTTCATCACAGGTTTAACCCAATTTGCAG"	"ATGAATATTTTTACCAACTATGTCTTCATCACAGGTTTAACCCAATTTGC"	"novel"	NA	"284"	"W0006060F"	"GGTGAATATTTTTACCAACTATGTCTTCATCACAGGTTTAACCCAATTTGCAG"	"GGTGAATATTTTTACCAACTATGTCTTCATCACAGGTTTAACCCAATTTGCAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1335_*1387delGGTGAATATTTTTACCAACTATGTCTTCATCACAGGTTTAACCCAATTTGCAGinsATGAATATTTTTACCAACTATGTCTTCATCACAGGTTTAACCCAATTTGC"	""	""	"ENST00000242994"	"2/2"	119	"."	11	53	"."	0	"NEUROD4,3_prime_UTR_variant,,ENST00000242994,NM_021191.2;"	"ATGAATATTTTTACCAACTATGTCTTCATCACAGGTTTAACCCAATTTGC"	"ENSG00000123307"	"ENST00000242994"	"Transcript"	"3_prime_UTR_variant"	"2709-2761/3953"	"-/996"	"-/331"	""	""	""	"1"	NA	1	"NEUROD4"	"HGNC"	13802	"protein_coding"	"YES"	"CCDS8886.1"	"ENSP00000242994"	"Q9HD90"	"Q8IW56"	"UPI000013CB1E"	"NM_021191.2"	NA	NA	"2/2"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGGTGAATATTTTTACCAACTATGTCTTCATCACAGGTTTAACCCAATTTGCAGA"	"9135c122-fdd9-11e5-921b-a9e5414a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.092436974789916	"WGS"	FALSE
"7949"	"PPM1H"	57460	"mskcc.org"	"GRCh37"	"12"	63217863	63217888	"+"	"Intron"	"DEL"	"ACAAGCATTCTTATACACCAATAACA"	"ACAAGCATTCTTATACACCAATAACA"	"TAAGCATTCCTATACACCAATA"	"novel"	NA	"284"	"W0006060F"	"ACAAGCATTCTTATACACCAATAACA"	"ACAAGCATTCTTATACACCAATAACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.411+8007_411+8031delGTTATTGGTGTATAAGAATGCTTGTinsATTGGTGTATAGGAATGCTTA"	""	""	"ENST00000228705"	""	62	"."	5	43	"."	0	"PPM1H,intron_variant,,ENST00000228705,NM_020700.1;PPM1H,intron_variant,,ENST00000548414,;PPM1H,intron_variant,,ENST00000547857,;"	"TAAGCATTCCTATACACCAAT"	"ENSG00000111110"	"ENST00000228705"	"Transcript"	"intron_variant"	"-/6353"	"-/1545"	"-/514"	""	""	""	"1"	NA	-1	"PPM1H"	"HGNC"	18583	"protein_coding"	"YES"	"CCDS44934.1"	"ENSP00000228705"	"Q9ULR3"	""	"UPI00000557DD"	"NM_020700.1"	NA	NA	""	"2/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCACAAGCATTCTTATACACCAATAACAG"	"9427f242-fdd9-11e5-921b-a9e5414a729f"	"241"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0806451612903226	"WGS"	FALSE
"7950"	"C12orf56"	115749	"mskcc.org"	"GRCh37"	"12"	64773908	64773920	"+"	"Intron"	"DEL"	"AAAAAAACAAAAC"	"AAAAAAACAAAAC"	"-"	"novel"	NA	"284"	"W0006060F"	"AAAAAAACAAAAC"	"AAAAAAACAAAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.252+10174_252+10186delGTTTTGTTTTTTT"	""	""	"ENST00000333722"	""	131	"."	8	63	"."	0	"C12orf56,intron_variant,,ENST00000543942,NM_001170633.1;C12orf56,intron_variant,,ENST00000333722,NM_001099676.2;C12orf56,intron_variant,,ENST00000543259,;RPS11P6,intron_variant,,ENST00000535684,;RPS11P6,intron_variant,,ENST00000482431,;"	"-"	"ENSG00000185306"	"ENST00000333722"	"Transcript"	"intron_variant"	"-/1712"	"-/1389"	"-/462"	""	""	""	"1"	NA	-1	"C12orf56"	"HGNC"	26967	"protein_coding"	"YES"	"CCDS44935.1"	"ENSP00000329698"	"Q8IXR9"	""	"UPI00001D7985"	"NM_001099676.2"	NA	NA	""	"1/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAAAACAAAACA"	"0b582178-fdd7-11e5-921b-a9e5414a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0610687022900763	"WGS"	FALSE
"7951"	"ANKS1B"	56899	"mskcc.org"	"GRCh37"	"12"	100190956	100190977	"+"	"Intron"	"DEL"	"TTTCATCAGAGATTAGAAAAAT"	"TTTCATCAGAGATTAGAAAAAT"	"AAC"	"novel"	NA	"284"	"W0006060F"	"TTTCATCAGAGATTAGAAAAAT"	"TTTCATCAGAGATTAGAAAAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.669+9205_669+9226delATTTTTCTAATCTCTGATGAAAinsGTT"	""	""	"ENST00000547776"	""	83	"."	24	63	"."	0	"ANKS1B,intron_variant,,ENST00000547776,NM_152788.4;ANKS1B,intron_variant,,ENST00000329257,;ANKS1B,intron_variant,,ENST00000547010,;ANKS1B,intron_variant,,ENST00000549866,;"	"AAC"	"ENSG00000185046"	"ENST00000547776"	"Transcript"	"intron_variant"	"-/3885"	"-/3747"	"-/1248"	""	""	""	"1"	NA	-1	"ANKS1B"	"HGNC"	24600	"protein_coding"	"YES"	"CCDS55872.1"	"ENSP00000449629"	"Q7Z6G8"	"R4GN73,R4GN70,R4GN07"	"UPI00003FE521"	"NM_152788.4"	NA	NA	""	"4/25"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTTCATCAGAGATTAGAAAAATT"	"a7ecfc5a-fdd9-11e5-921b-a9e5414a729f"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.289156626506024	"WGS"	FALSE
"7952"	"C12orf23"	90488	"mskcc.org"	"GRCh37"	"12"	107363617	107363654	"+"	"Intron"	"DEL"	"AAGTTTGAGCTTACATGCTAATATATGTGGCTCTATTT"	"AAGTTTGAGCTTACATGCTAATATATGTGGCTCTATTT"	"GTTTGAGCTTACATGCTAATATATGTGGCTCTATTTA"	"novel"	NA	"284"	"W0006060F"	"AAGTTTGAGCTTACATGCTAATATATGTGGCTCTATTT"	"AAGTTTGAGCTTACATGCTAATATATGTGGCTCTATTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.65-1266_65-1229delAAGTTTGAGCTTACATGCTAATATATGTGGCTCTATTTinsGTTTGAGCTTACATGCTAATATATGTGGCTCTATTTA"	""	""	"ENST00000280756"	""	99	"."	8	67	"."	0	"C12orf23,intron_variant,,ENST00000280756,NM_152261.2;C12orf23,intron_variant,,ENST00000548125,;C12orf23,intron_variant,,ENST00000551813,;C12orf23,intron_variant,,ENST00000550344,;C12orf23,intron_variant,,ENST00000547081,;C12orf23,intron_variant,,ENST00000547242,;C12orf23,intron_variant,,ENST00000551489,;C12orf23,upstream_gene_variant,,ENST00000551237,;C12orf23,upstream_gene_variant,,ENST00000548806,;"	"GTTTGAGCTTACATGCTAATATATGTGGCTCTATTTA"	"ENSG00000151135"	"ENST00000280756"	"Transcript"	"intron_variant"	"-/3362"	"-/351"	"-/116"	""	""	""	"1"	NA	1	"C12orf23"	"HGNC"	28281	"protein_coding"	"YES"	"CCDS9110.1"	"ENSP00000280756"	"Q8WUH6"	""	"UPI0000070E98"	"NM_152261.2"	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAAGTTTGAGCTTACATGCTAATATATGTGGCTCTATTTA"	"abade732-fdd9-11e5-921b-a9e5414a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0808080808080808	"WGS"	FALSE
"7953"	"CIT"	11113	"mskcc.org"	"GRCh37"	"12"	120155635	120155636	"+"	"Intron"	"INS"	"-"	"-"	"CTGACTT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4168+414_4168+415insAAGTCAG"	""	""	"ENST00000392521"	""	77	"."	5	30	"."	0	"CIT,intron_variant,,ENST00000392521,NM_001206999.1;CIT,intron_variant,,ENST00000261833,NM_007174.2;CIT,intron_variant,,ENST00000392520,;CIT,downstream_gene_variant,,ENST00000536325,;MIR1178,upstream_gene_variant,,ENST00000408396,;CIT,intron_variant,,ENST00000537607,;CIT,intron_variant,,ENST00000545913,;CIT,intron_variant,,ENST00000544588,;CIT,upstream_gene_variant,,ENST00000543239,;CIT,upstream_gene_variant,,ENST00000536008,;"	"CTGACTT"	"ENSG00000122966"	"ENST00000392521"	"Transcript"	"intron_variant"	"-/8708"	"-/6210"	"-/2069"	""	""	""	"1"	NA	-1	"CIT"	"HGNC"	1985	"protein_coding"	"YES"	"CCDS55891.1"	"ENSP00000376306"	"O14578"	""	"UPI0000683C41"	"NM_001206999.1"	NA	NA	""	"32/47"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"b92ce40e-fddd-11e5-921b-a9e5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0649350649350649	"WGS"	FALSE
"7954"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	126572833	126572847	"+"	"IGR"	"DEL"	"CATACATCAGTGCCT"	"CATACATCAGTGCCT"	"ACGTCAGTGCCG"	"novel"	NA	"284"	"W0006060F"	"CATACATCAGTGCCT"	"CATACATCAGTGCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"."	7	45	"."	0	""	"ACGTCAGTGCCG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCATACATCAGTGCCTA"	"b38a1fca-fdd9-11e5-921b-a9e5414a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0648148148148148	"WGS"	FALSE
"7955"	"TMEM132C"	92293	"mskcc.org"	"GRCh37"	"12"	129095806	129095806	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1122-4890delG"	""	""	"ENST00000435159"	""	123	"."	8	48	"."	0	"TMEM132C,intron_variant,,ENST00000435159,NM_001136103.2;TMEM132C,intron_variant,,ENST00000315208,;"	"-"	"ENSG00000181234"	"ENST00000435159"	"Transcript"	"intron_variant"	"-/4947"	"-/3327"	"-/1108"	""	""	""	"1"	NA	1	"TMEM132C"	"HGNC"	25436	"protein_coding"	"YES"	""	"ENSP00000410852"	"Q8N3T6"	"F5H439,E9PC33"	"UPI0001C0B37C"	"NM_001136103.2"	NA	NA	""	"3/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"41bf57de-fdd9-11e5-921b-a9e5414a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0650406504065041	"WGS"	FALSE
"7956"	"CDK8"	1024	"mskcc.org"	"GRCh37"	"13"	26841113	26841116	"+"	"Intron"	"DEL"	"AATT"	"AATT"	"-"	"novel"	NA	"284"	"W0006060F"	"AATT"	"AATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.128+12210_128+12213delTAAT"	""	""	"ENST00000381527"	""	106	"."	19	73	"."	0	"CDK8,intron_variant,,ENST00000381527,NM_001260.1;CDK8,intron_variant,,ENST00000536792,;"	"-"	"ENSG00000132964"	"ENST00000381527"	"Transcript"	"intron_variant"	"-/3055"	"-/1395"	"-/464"	""	""	""	"1"	NA	1	"CDK8"	"HGNC"	1779	"protein_coding"	"YES"	"CCDS9317.1"	"ENSP00000370938"	"P49336"	"B4DL75"	"UPI000002E531"	"NM_001260.1"	NA	NA	""	"1/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAATTA"	"129c41e6-fdd5-11e5-baa9-a7e5414a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.179245283018868	"WGS"	FALSE
"7957"	"KBTBD7"	84078	"mskcc.org"	"GRCh37"	"13"	41765260	41765260	"+"	"3'UTR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1079delA"	""	""	"ENST00000379483"	"1/1"	102	"."	22	52	"."	0	"KBTBD7,3_prime_UTR_variant,,ENST00000379483,NM_032138.4;"	"-"	"ENSG00000120696"	"ENST00000379483"	"Transcript"	"3_prime_UTR_variant"	"3443/4734"	"-/2055"	"-/684"	""	""	""	"1"	NA	-1	"KBTBD7"	"HGNC"	25266	"protein_coding"	"YES"	"CCDS9377.1"	"ENSP00000368797"	"Q8WVZ9"	"B4DS80"	"UPI0000071F8F"	"NM_032138.4"	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"64e771fa-fdd5-11e5-baa9-a7e5414a729f"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.215686274509804	"WGS"	FALSE
"7958"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	48102415	48102416	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs762586554"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	16	52	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs762586554"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"b863f3f6-fdd7-11e5-baa9-a7e5414a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.173913043478261	"WGS"	FALSE
"7959"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	53849261	53849262	"+"	"IGR"	"INS"	"-"	"-"	"AAAAAA"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	126	"."	6	69	"."	0	""	"AAAAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"d2d5962c-fdd7-11e5-baa9-a7e5414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0476190476190476	"WGS"	FALSE
"7960"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	58095881	58095881	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	125	"."	23	62	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"bc96e93a-fdd5-11e5-baa9-a7e5414a729f"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.184	"WGS"	FALSE
"7961"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	59899020	59899021	"+"	"IGR"	"INS"	"-"	"-"	"CAG"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"."	29	60	"."	0	""	"CAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"ed9324ac-fdd7-11e5-baa9-a7e5414a729f"	"1740"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.256637168141593	"WGS"	FALSE
"7962"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	60869620	60869620	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"."	5	78	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"c8bf678c-fdd5-11e5-baa9-a7e5414a729f"	"89"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0476190476190476	"WGS"	FALSE
"7963"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	65076915	65076916	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"."	5	70	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"0aac5b4e-fdd8-11e5-baa9-a7e5414a729f"	"265"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.05	"WGS"	FALSE
"7964"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	73041409	73041412	"+"	"IGR"	"DEL"	"TAAC"	"TAAC"	"GTT"	"novel"	NA	"284"	"W0006060F"	"TAAC"	"TAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	21	52	"."	0	""	"GTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTAACA"	"09b04f3a-fdd7-11e5-baa9-a7e5414a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.228260869565217	"WGS"	FALSE
"7965"	"KLF12"	11278	"mskcc.org"	"GRCh37"	"13"	74441551	74441552	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.124-21043_124-21042dupTA"	""	""	"ENST00000377669"	""	112	"."	9	60	"."	0	"KLF12,intron_variant,,ENST00000377669,NM_007249.4;KLF12,intron_variant,,ENST00000377666,;KLF12,intron_variant,,ENST00000472022,;"	"TA"	"ENSG00000118922"	"ENST00000377669"	"Transcript"	"intron_variant"	"-/10637"	"-/1209"	"-/402"	""	""	""	"1"	NA	-1	"KLF12"	"HGNC"	6346	"protein_coding"	"YES"	"CCDS9449.1"	"ENSP00000366897"	"Q9Y4X4"	""	"UPI000013D144"	"NM_007249.4"	NA	NA	""	"2/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"3acec4d8-fdd8-11e5-baa9-a7e5414a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0803571428571429	"WGS"	FALSE
"7966"	"RNF219-AS1"	100874222	"mskcc.org"	"GRCh37"	"13"	78716607	78716647	"+"	"Intron"	"DEL"	"TAAGATTTGGATTAGATGATAACTAACTTTGCTACCAGCTG"	"TAAGATTTGGATTAGATGATAACTAACTTTGCTACCAGCTG"	"-"	"novel"	NA	"284"	"W0006060F"	"TAAGATTTGGATTAGATGATAACTAACTTTGCTACCAGCTG"	"TAAGATTTGGATTAGATGATAACTAACTTTGCTACCAGCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.231-131780_231-131740delAAGATTTGGATTAGATGATAACTAACTTTGCTACCAGCTGT"	""	""	"ENST00000607862"	""	105	"."	19	52	"."	0	"RNF219-AS1,intron_variant,,ENST00000607862,;RNF219-AS1,intron_variant,,ENST00000606429,;RNF219-AS1,intron_variant,,ENST00000605996,;RNF219-AS1,intron_variant,,ENST00000444769,;RNF219-AS1,intron_variant,,ENST00000560209,;RNF219-AS1,intron_variant,,ENST00000607860,;RNF219-AS1,intron_variant,,ENST00000607205,;RNF219-AS1,intron_variant,,ENST00000606124,;RNF219-AS1,intron_variant,,ENST00000606376,;RNF219-AS1,intron_variant,,ENST00000606803,;RNF219-AS1,intron_variant,,ENST00000607220,;RNF219-AS1,intron_variant,,ENST00000430549,;RNF219-AS1,intron_variant,,ENST00000606187,;"	"-"	"ENSG00000234377"	"ENST00000607862"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/6001"	""	""	""	""	""	"1"	NA	1	"RNF219-AS1"	"HGNC"	42700	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTAAGATTTGGATTAGATGATAACTAACTTTGCTACCAGCTGT"	"2d165826-fdd6-11e5-baa9-a7e5414a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.180952380952381	"WGS"	FALSE
"7967"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	82097010	82097010	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"."	5	63	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"3e737248-fdd6-11e5-baa9-a7e5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0609756097560976	"WGS"	FALSE
"7968"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	85373462	85373465	"+"	"IGR"	"DEL"	"TTTA"	"TTTA"	"-"	"novel"	NA	"284"	"W0006060F"	"TTTA"	"TTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"."	21	56	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTTTAT"	"5078326c-fdd6-11e5-baa9-a7e5414a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.181034482758621	"WGS"	FALSE
"7969"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	90174317	90174328	"+"	"IGR"	"DEL"	"AAGGAAGGAAAA"	"AAGGAAGGAAAA"	"-"	"novel"	NA	"284"	"W0006060F"	"AAGGAAGGAAAA"	"AAGGAAGGAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"."	5	40	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAAGGAAGGAAAAG"	"6b027854-fdd6-11e5-baa9-a7e5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0806451612903226	"WGS"	FALSE
"7970"	"CLDN10"	9071	"mskcc.org"	"GRCh37"	"13"	96203905	96203905	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000299339"	""	112	"."	25	52	"."	0	"CLDN10,intron_variant,,ENST00000376873,NM_182848.3,NM_001160100.1;CLDN10,upstream_gene_variant,,ENST00000299339,NM_006984.4;"	"-"	"ENSG00000134873"	"ENST00000299339"	"Transcript"	"upstream_gene_variant"	"-/949"	"-/687"	"-/228"	""	""	""	"1"	"1074"	1	"CLDN10"	"HGNC"	2033	"protein_coding"	"YES"	"CCDS9476.1"	"ENSP00000299339"	"P78369"	"Q6IBF9,Q5W075"	"UPI0000127AB3"	"NM_006984.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAG"	"8de5f6c0-fdd6-11e5-baa9-a7e5414a729f"	"1500"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.223214285714286	"WGS"	FALSE
"7971"	"HS6ST3"	266722	"mskcc.org"	"GRCh37"	"13"	96745503	96745503	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.707+1683delA"	""	""	"ENST00000376705"	""	99	"."	14	71	"."	0	"HS6ST3,intron_variant,,ENST00000376705,NM_153456.3;"	"-"	"ENSG00000185352"	"ENST00000376705"	"Transcript"	"intron_variant"	"-/1659"	"-/1416"	"-/471"	""	""	""	"1"	NA	1	"HS6ST3"	"HGNC"	19134	"protein_coding"	"YES"	"CCDS9481.1"	"ENSP00000365895"	"Q8IZP7"	"B3KX95"	"UPI00001AF933"	"NM_153456.3"	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"91eba828-fdd6-11e5-baa9-a7e5414a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.141414141414141	"WGS"	FALSE
"7972"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	30779185	30779185	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"."	19	49	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"5750a96c-fdd5-11e5-862c-aae5414a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.166666666666667	"WGS"	FALSE
"7973"	"AKAP6"	9472	"mskcc.org"	"GRCh37"	"14"	32867734	32867735	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-34-34932_-34-34931insT"	""	""	"ENST00000280979"	""	89	"."	13	62	"."	0	"AKAP6,intron_variant,,ENST00000280979,NM_004274.4;AKAP6,intron_variant,,ENST00000557354,;AKAP6,intron_variant,,ENST00000557272,;AKAP6,intron_variant,,ENST00000557102,;RP11-320M16.2,intron_variant,,ENST00000557371,;RP11-320M16.2,downstream_gene_variant,,ENST00000556520,;AKAP6,intron_variant,,ENST00000556037,;"	"T"	"ENSG00000151320"	"ENST00000280979"	"Transcript"	"intron_variant"	"-/8686"	"-/6960"	"-/2319"	""	""	""	"1"	NA	1	"AKAP6"	"HGNC"	376	"protein_coding"	"YES"	"CCDS9644.1"	"ENSP00000280979"	"Q13023"	"G3V569,G3V3H6,G3V3H2,G3V3B5,D3DS91"	"UPI000013DC48"	"NM_004274.4"	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c0d5971e-fdd8-11e5-862c-aae5414a729f"	"761"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.146067415730337	"WGS"	FALSE
"7974"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	44081486	44081487	"+"	"IGR"	"INS"	"-"	"-"	"TTTTTT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	146	"."	6	60	"."	0	""	"TTTTTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"23e7d51a-fdd9-11e5-862c-aae5414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0410958904109589	"WGS"	FALSE
"7975"	"RP11-99L13.1"	0	"mskcc.org"	"GRCh37"	"14"	44915119	44915120	"+"	"Intron"	"INS"	"-"	"-"	"ATTCTATTTTAAATTCTATTTTAAAGCCAGATTTTCAGG"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.377+731_377+732insCCTGAAAATCTGGCTTTAAAATAGAATTTAAAATAGAAT"	""	""	"ENST00000556472"	""	126	"."	8	82	"."	0	"RP11-99L13.1,intron_variant,,ENST00000556472,;"	"ATTCTATTTTAAATTCTATTTTAAAGCCAGATTTTCAGG"	"ENSG00000258487"	"ENST00000556472"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/453"	""	""	""	""	""	"1"	NA	-1	"RP11-99L13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"2a8b48e8-fdd9-11e5-862c-aae5414a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0634920634920635	"WGS"	FALSE
"7976"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	48332571	48332601	"+"	"IGR"	"DEL"	"GATTATCTTGTTTTAAATGTTCATACTTGTT"	"GATTATCTTGTTTTAAATGTTCATACTTGTT"	"TATCTTGTTTTAAATGTTCATACTTGTTA"	"novel"	NA	"284"	"W0006060F"	"GATTATCTTGTTTTAAATGTTCATACTTGTT"	"GATTATCTTGTTTTAAATGTTCATACTTGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"."	18	52	"."	0	""	"TATCTTGTTTTAAATGTTCATACTTGTTA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGATTATCTTGTTTTAAATGTTCATACTTGTTA"	"1e0c430c-fdd8-11e5-862c-aae5414a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.165137614678899	"WGS"	FALSE
"7977"	"WDR89"	112840	"mskcc.org"	"GRCh37"	"14"	64071917	64071918	"+"	"Intron"	"INS"	"-"	"-"	"AC"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-31-5227_-31-5226insGT"	""	""	"ENST00000394942"	""	77	"."	6	51	"."	0	"WDR89,intron_variant,,ENST00000394942,NM_001258272.1,NM_001008726.2,NM_080666.3;WDR89,intron_variant,,ENST00000267522,;WDR89,intron_variant,,ENST00000554717,;HSPE1P2,downstream_gene_variant,,ENST00000554777,;"	"AC"	"ENSG00000140006"	"ENST00000394942"	"Transcript"	"intron_variant"	"-/2993"	"-/1164"	"-/387"	""	""	""	"1"	NA	-1	"WDR89"	"HGNC"	20489	"protein_coding"	"YES"	"CCDS9759.1"	"ENSP00000378399"	"Q96FK6"	"G3V4B8"	"UPI000000CBD9"	"NM_001258272.1,NM_001008726.2,NM_080666.3"	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"bf4fef60-fdd9-11e5-862c-aae5414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0779220779220779	"WGS"	FALSE
"7978"	"ZFYVE26"	23503	"mskcc.org"	"GRCh37"	"14"	68231991	68231991	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6011+953delA"	""	""	"ENST00000347230"	""	109	"."	12	51	"."	0	"ZFYVE26,intron_variant,,ENST00000347230,NM_015346.3;ZFYVE26,intron_variant,,ENST00000555452,;ZFYVE26,upstream_gene_variant,,ENST00000557306,;ZFYVE26,intron_variant,,ENST00000554523,;ZFYVE26,intron_variant,,ENST00000554557,;ZFYVE26,intron_variant,,ENST00000394455,;"	"-"	"ENSG00000072121"	"ENST00000347230"	"Transcript"	"intron_variant"	"-/9675"	"-/7620"	"-/2539"	""	""	""	"1"	NA	-1	"ZFYVE26"	"HGNC"	20761	"protein_coding"	"YES"	"CCDS9788.1"	"ENSP00000251119"	"Q68DK2"	""	"UPI00001FD735"	"NM_015346.3"	NA	NA	""	"32/41"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACTA"	"ac1a3976-fdd6-11e5-862c-aae5414a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.110091743119266	"WGS"	FALSE
"7979"	"ACOT4"	122970	"mskcc.org"	"GRCh37"	"14"	74068038	74068050	"+"	"3'Flank"	"DEL"	"CGGACAGATCACT"	"CGGACAGATCACT"	"AAGTGGATCAC"	"novel"	NA	"284"	"W0006060F"	"CGGACAGATCACT"	"CGGACAGATCACT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000326303"	""	79	"."	5	54	"."	0	"ACOT4,downstream_gene_variant,,ENST00000326303,NM_152331.3;"	"AAGTGGATCAC"	"ENSG00000177465"	"ENST00000326303"	"Transcript"	"downstream_gene_variant"	"-/2362"	"-/1266"	"-/421"	""	""	""	"1"	"4838"	1	"ACOT4"	"HGNC"	19748	"protein_coding"	"YES"	"CCDS9817.1"	"ENSP00000323071"	"Q8N9L9"	""	"UPI000004BF01"	"NM_152331.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCGGACAGATCACTT"	"2b966084-fdd8-11e5-862c-aae5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0632911392405063	"WGS"	FALSE
"7980"	"CTD-2341M24.1"	101928767	"mskcc.org"	"GRCh37"	"14"	86572101	86572131	"+"	"Intron"	"DEL"	"TCATCCATGTCCCTACAAAGGACATGAACTC"	"TCATCCATGTCCCTACAAAGGACATGAACTC"	"GTCCCTACAAAGGACATGAACTCATCAT"	"novel"	NA	"284"	"W0006060F"	"TCATCCATGTCCCTACAAAGGACATGAACTC"	"TCATCCATGTCCCTACAAAGGACATGAACTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.183-22193_183-22163delTCATCCATGTCCCTACAAAGGACATGAACTCinsGTCCCTACAAAGGACATGAACTCATCAT"	""	""	"ENST00000553668"	""	88	"."	18	56	"."	0	"CTD-2341M24.1,intron_variant,,ENST00000553668,;CTD-2341M24.1,intron_variant,,ENST00000557195,;CTD-2341M24.1,downstream_gene_variant,,ENST00000554647,;"	"GTCCCTACAAAGGACATGAACTCATCAT"	"ENSG00000258733"	"ENST00000553668"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/736"	""	""	""	""	""	"1"	NA	1	"CTD-2341M24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCATCCATGTCCCTACAAAGGACATGAACTCA"	"30cf2de2-fdd8-11e5-862c-aae5414a729f"	"773"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.204545454545455	"WGS"	FALSE
"7981"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	87218499	87218499	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"."	21	55	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTG"	"511812f4-fdd7-11e5-862c-aae5414a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.223404255319149	"WGS"	FALSE
"7982"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	95421048	95421048	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"."	19	59	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAA"	"99661f9c-fdd7-11e5-862c-aae5414a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.188118811881188	"WGS"	FALSE
"7983"	"CLMN"	79789	"mskcc.org"	"GRCh37"	"14"	95661078	95661108	"+"	"Intron"	"DEL"	"TATCTAACATGCCTACTTTGGTTGGACAGTG"	"TATCTAACATGCCTACTTTGGTTGGACAGTG"	"CTAACATGCCTACTTTGGTTGGACAGTGCT"	"novel"	NA	"284"	"W0006060F"	"TATCTAACATGCCTACTTTGGTTGGACAGTG"	"TATCTAACATGCCTACTTTGGTTGGACAGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2709-175_2709-145delCACTGTCCAACCAAAGTAGGCATGTTAGATAinsAGCACTGTCCAACCAAAGTAGGCATGTTAG"	""	""	"ENST00000298912"	""	99	"."	8	74	"."	0	"CLMN,intron_variant,,ENST00000298912,NM_024734.3;CLMN,upstream_gene_variant,,ENST00000556441,;CLMN,upstream_gene_variant,,ENST00000557215,;CLMN,intron_variant,,ENST00000556454,;CLMN,intron_variant,,ENST00000557696,;CLMN,upstream_gene_variant,,ENST00000556416,;RP11-725G5.3,upstream_gene_variant,,ENST00000555482,;"	"CTAACATGCCTACTTTGGTTGGACAGTGCT"	"ENSG00000165959"	"ENST00000298912"	"Transcript"	"intron_variant"	"-/12747"	"-/3009"	"-/1002"	""	""	""	"1"	NA	-1	"CLMN"	"HGNC"	19972	"protein_coding"	"YES"	"CCDS9933.1"	"ENSP00000298912"	"Q96JQ2"	"G3V5U3,G3V4C0,A0PJD0"	"UPI000006DB99"	"NM_024734.3"	NA	NA	""	"10/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATATCTAACATGCCTACTTTGGTTGGACAGTGC"	"37966c4e-fdd8-11e5-862c-aae5414a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0808080808080808	"WGS"	FALSE
"7984"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	99301453	99301506	"+"	"IGR"	"DEL"	"ATAAATGGCTCAGGGACGTGTCAATGGCATTTCCTCTGAAAGAATCACACACAC"	"ATAAATGGCTCAGGGACGTGTCAATGGCATTTCCTCTGAAAGAATCACACACAC"	"TTTCAGGGACGTGTCAATGGCATTTCCTCTGAAAGAATCACACACA"	"novel"	NA	"284"	"W0006060F"	"ATAAATGGCTCAGGGACGTGTCAATGGCATTTCCTCTGAAAGAATCACACACAC"	"ATAAATGGCTCAGGGACGTGTCAATGGCATTTCCTCTGAAAGAATCACACACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	8	60	"."	0	""	"TTTCAGGGACGTGTCAATGGCATTTCCTCTGAAAGAATCACACACA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGATAAATGGCTCAGGGACGTGTCAATGGCATTTCCTCTGAAAGAATCACACACACC"	"3a0c0646-fdd8-11e5-862c-aae5414a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0869565217391304	"WGS"	FALSE
"7985"	"HERC2"	8924	"mskcc.org"	"GRCh37"	"15"	28545970	28545976	"+"	"Intron"	"DEL"	"AAAAAAA"	"AAAAAAA"	"-"	"novel"	NA	"284"	"W0006060F"	"AAAAAAA"	"AAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.73-1314_73-1308delTTTTTTT"	""	""	"ENST00000261609"	""	65	"."	6	24	"."	0	"HERC2,intron_variant,,ENST00000261609,NM_004667.5;HERC2,intron_variant,,ENST00000564734,;HERC2,upstream_gene_variant,,ENST00000564383,;"	"-"	"ENSG00000128731"	"ENST00000261609"	"Transcript"	"intron_variant"	"-/15337"	"-/14505"	"-/4834"	""	""	""	"1"	NA	-1	"HERC2"	"HGNC"	4868	"protein_coding"	"YES"	"CCDS10021.1"	"ENSP00000261609"	"O95714"	""	"UPI00004578F7"	"NM_004667.5"	NA	NA	""	"2/92"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCAAAAAAAA"	"79333554-fdd5-11e5-9f1b-abe5414a729f"	"73"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0923076923076923	"WGS"	FALSE
"7986"	"CHRM5"	1133	"mskcc.org"	"GRCh37"	"15"	34345520	34345521	"+"	"Intron"	"INS"	"-"	"-"	"ATATAT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-76+6467_-76+6472dupATATAT"	""	""	"ENST00000383263"	""	107	"."	5	54	"."	0	"CHRM5,intron_variant,,ENST00000383263,NM_012125.3;CHRM5,intron_variant,,ENST00000557872,;CHRM5,intron_variant,,ENST00000560035,;"	"ATATAT"	"ENSG00000184984"	"ENST00000383263"	"Transcript"	"intron_variant"	"-/3043"	"-/1599"	"-/532"	""	""	""	"1"	NA	1	"CHRM5"	"HGNC"	1954	"protein_coding"	"YES"	"CCDS10031.1"	"ENSP00000372750"	"P08912"	"H0YKC0"	"UPI0000050412"	"NM_012125.3"	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"24"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"1e8c677a-fdd9-11e5-9f1b-abe5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0467289719626168	"WGS"	FALSE
"7987"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	37875920	37875920	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"."	16	59	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATG"	"d8049032-fdd5-11e5-9f1b-abe5414a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.161616161616162	"WGS"	FALSE
"7988"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	46384727	46384728	"+"	"IGR"	"INS"	"-"	"-"	"TT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"."	23	53	"."	0	""	"TT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"80e1b25e-fdd9-11e5-9f1b-abe5414a729f"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.212962962962963	"WGS"	FALSE
"7989"	"RP11-208K4.1"	0	"mskcc.org"	"GRCh37"	"15"	48268768	48268769	"+"	"Intron"	"INS"	"-"	"-"	"AGT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.196-16136_196-16134dupGTA"	""	""	"ENST00000560900"	""	112	"."	18	61	"."	0	"RP11-208K4.1,intron_variant,,ENST00000560900,;"	"AGT"	"ENSG00000259754"	"ENST00000560900"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/581"	""	""	""	""	""	"1"	NA	1	"RP11-208K4.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"8e72176a-fdd9-11e5-9f1b-abe5414a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.160714285714286	"WGS"	FALSE
"7990"	"TCF12"	6938	"mskcc.org"	"GRCh37"	"15"	57232651	57232656	"+"	"Intron"	"DEL"	"TCTTTC"	"TCTTTC"	"-"	"novel"	NA	"284"	"W0006060F"	"TCTTTC"	"TCTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.148+19356_148+19361delCTTTCT"	""	""	"ENST00000438423"	""	91	"."	6	52	"."	0	"TCF12,intron_variant,,ENST00000267811,NM_003205.3,NM_207038.1;TCF12,intron_variant,,ENST00000438423,NM_207037.1,NM_207036.1;TCF12,intron_variant,,ENST00000452095,;TCF12,intron_variant,,ENST00000333725,;TCF12,intron_variant,,ENST00000557843,;TCF12,intron_variant,,ENST00000559609,;TCF12,intron_variant,,ENST00000557947,;TCF12,intron_variant,,ENST00000560190,;TCF12,intron_variant,,ENST00000558908,;TCF12,intron_variant,,ENST00000561152,;"	"-"	"ENSG00000140262"	"ENST00000438423"	"Transcript"	"intron_variant"	"-/4786"	"-/2121"	"-/706"	""	""	""	"1"	NA	1	"TCF12"	"HGNC"	11623	"protein_coding"	"YES"	"CCDS10160.1"	"ENSP00000388940"	"Q99081"	"Q9NQY9,Q9NQY7,Q9NQY6,Q9NQY5,Q9NQY4,Q9NQY3,Q9NQY2,Q9NQY1,H0YNQ5"	"UPI000018CEA6"	"NM_207037.1,NM_207036.1"	NA	NA	""	"3/20"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTTCTTTCT"	"873e70a4-fdd6-11e5-9f1b-abe5414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0659340659340659	"WGS"	TRUE
"7991"	"PAQR5"	54852	"mskcc.org"	"GRCh37"	"15"	69649319	69649327	"+"	"Intron"	"DEL"	"CTTGGTGCT"	"CTTGGTGCT"	"AC"	"novel"	NA	"284"	"W0006060F"	"CTTGGTGCT"	"CTTGGTGCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-115-2986_-115-2978delCTTGGTGCTinsAC"	""	""	"ENST00000340965"	""	83	"."	13	46	"."	0	"PAQR5,intron_variant,,ENST00000340965,NM_001104554.1;PAQR5,intron_variant,,ENST00000395407,NM_017705.3;PAQR5,intron_variant,,ENST00000561153,;PAQR5,intron_variant,,ENST00000558684,;PAQR5,upstream_gene_variant,,ENST00000561027,;PAQR5,upstream_gene_variant,,ENST00000561250,;"	"AC"	"ENSG00000137819"	"ENST00000340965"	"Transcript"	"intron_variant"	"-/5480"	"-/993"	"-/330"	""	""	""	"1"	NA	1	"PAQR5"	"HGNC"	29645	"protein_coding"	"YES"	"CCDS10232.1"	"ENSP00000343877"	"Q9NXK6"	"H0YL06"	"UPI000013D0D0"	"NM_001104554.1"	NA	NA	""	"2/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCTTGGTGCTG"	"522f5e76-fdd8-11e5-9f1b-abe5414a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.156626506024096	"WGS"	FALSE
"7992"	"TSPAN3"	10099	"mskcc.org"	"GRCh37"	"15"	77379206	77379207	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000558745"	""	100	"."	9	50	"."	0	"TSPAN3,upstream_gene_variant,,ENST00000558745,;"	"T"	"ENSG00000140391"	"ENST00000558745"	"Transcript"	"upstream_gene_variant"	"-/1340"	"-/138"	"-/45"	""	""	""	"1"	"2880"	-1	"TSPAN3"	"HGNC"	17752	"protein_coding"	""	""	"ENSP00000453868"	""	"H0YMH8"	"UPI00022F87DB"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76b5774c-fdda-11e5-9f1b-abe5414a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.09	"WGS"	FALSE
"7993"	"CTD-2544M6.1"	0	"mskcc.org"	"GRCh37"	"15"	98678672	98678672	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.292-88704delG"	""	""	"ENST00000560360"	""	112	"."	21	38	"."	0	"CTD-2544M6.1,intron_variant,,ENST00000560360,;RP11-183E24.2,upstream_gene_variant,,ENST00000559643,;"	"-"	"ENSG00000259199"	"ENST00000560360"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/364"	""	""	""	""	""	"1"	NA	-1	"CTD-2544M6.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCC"	"f90c2a0e-fdd7-11e5-9f1b-abe5414a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.1875	"WGS"	FALSE
"7994"	"CHSY1"	22856	"mskcc.org"	"GRCh37"	"15"	101721160	101721161	"+"	"Intron"	"DEL"	"AA"	"AA"	"-"	"novel"	NA	"284"	"W0006060F"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.817-1976_817-1975delTT"	""	""	"ENST00000254190"	""	101	"."	28	64	"."	0	"CHSY1,intron_variant,,ENST00000254190,NM_014918.4;CHSY1,intron_variant,,ENST00000543813,;CHSY1,intron_variant,,ENST00000561414,;CHSY1,intron_variant,,ENST00000560766,;"	"-"	"ENSG00000131873"	"ENST00000254190"	"Transcript"	"intron_variant"	"-/4550"	"-/2409"	"-/802"	""	""	""	"1"	NA	-1	"CHSY1"	"HGNC"	17198	"protein_coding"	"YES"	"CCDS10390.1"	"ENSP00000254190"	"Q86X52"	""	"UPI000000DB6C"	"NM_014918.4"	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCAAA"	"150dc4ba-fdd8-11e5-9f1b-abe5414a729f"	"1680"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.277227722772277	"WGS"	FALSE
"7995"	"RP11-420N3.2"	0	"mskcc.org"	"GRCh37"	"16"	6061175	6061175	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.436+143839delT"	""	""	"ENST00000569895"	""	110	"."	15	67	"."	0	"RP11-420N3.2,intron_variant,,ENST00000569895,;"	"-"	"ENSG00000260411"	"ENST00000569895"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/829"	""	""	""	""	""	"1"	NA	1	"RP11-420N3.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"4/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTG"	"1c7567b0-fdd5-11e5-a63e-a6e5414a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.136363636363636	"WGS"	FALSE
"7996"	"SEPT1"	1731	"mskcc.org"	"GRCh37"	"16"	30390961	30390962	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.802-113_802-107dupAAAAAAA"	""	""	"ENST00000321367"	""	121	"."	6	59	"."	0	"SEPT1,intron_variant,,ENST00000321367,NM_052838.4;SEPT1,intron_variant,,ENST00000571393,;SEPT1,intron_variant,,ENST00000605106,;SEPT1,intron_variant,,ENST00000566517,;ZNF48,intron_variant,,ENST00000528032,;ZNF48,intron_variant,,ENST00000495929,;MYLPF,downstream_gene_variant,,ENST00000322861,NM_013292.3;MYLPF,downstream_gene_variant,,ENST00000568749,;MYLPF,downstream_gene_variant,,ENST00000566955,;MYLPF,downstream_gene_variant,,ENST00000563718,;SEPT1,downstream_gene_variant,,ENST00000570039,;SEPT1,downstream_gene_variant,,ENST00000567783,;SEPT1,intron_variant,,ENST00000563957,;SEPT1,intron_variant,,ENST00000573615,;SEPT1,intron_variant,,ENST00000572252,;SEPT1,intron_variant,,ENST00000568577,;SEPT1,downstream_gene_variant,,ENST00000563743,;SEPT1,downstream_gene_variant,,ENST00000562152,;MYLPF,downstream_gene_variant,,ENST00000563728,;"	"TTTTTTT"	"ENSG00000180096"	"ENST00000321367"	"Transcript"	"intron_variant"	"-/1592"	"-/1245"	"-/414"	""	""	""	"1"	NA	-1	"SEPT1"	"HGNC"	2879	"protein_coding"	"YES"	"CCDS10678.3"	"ENSP00000324511"	""	"S4R362,J3KNL2,H3BS29"	"UPI000066D948"	"NM_052838.4"	NA	NA	""	"8/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"8fb60eae-fe53-11e5-a63e-a6e5414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0495867768595041	"WGS"	FALSE
"7997"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	34179912	34179912	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"."	5	51	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACC"	"695b764a-fdd6-11e5-a63e-a6e5414a729f"	"224"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0510204081632653	"WGS"	FALSE
"7998"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	35121985	35121985	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"."	22	56	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"6df71e7a-fdd6-11e5-a63e-a6e5414a729f"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.205607476635514	"WGS"	FALSE
"7999"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	48791646	48791682	"+"	"IGR"	"DEL"	"ATCTGAGACTACAGGGATGCACCACTGTACCTGGTTT"	"ATCTGAGACTACAGGGATGCACCACTGTACCTGGTTT"	"GAGACTACAGGGATGCACCACTGTACCTGGTTTCAT"	"novel"	NA	"284"	"W0006060F"	"ATCTGAGACTACAGGGATGCACCACTGTACCTGGTTT"	"ATCTGAGACTACAGGGATGCACCACTGTACCTGGTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"."	11	57	"."	0	""	"GAGACTACAGGGATGCACCACTGTACCTGGTTTCA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTATCTGAGACTACAGGGATGCACCACTGTACCTGGTTTC"	"715a0718-fe52-11e5-a63e-a6e5414a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0990990990990991	"WGS"	FALSE
"8000"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	73756955	73757099	"+"	"IGR"	"DEL"	"ATGAGACCATACTCGCCATCCATTTTACCAAAGTGGCTCAATCCTACTTCAGACAGATTACCTAACAATATCCACTATGAGAAACACAACCCCATTGGCCACGGACTGATCTTTCACTGTTGATTCTCTGAGTGCTTTACAAATG"	"ATGAGACCATACTCGCCATCCATTTTACCAAAGTGGCTCAATCCTACTTCAGACAGATTACCTAACAATATCCACTATGAGAAACACAACCCCATTGGCCACGGACTGATCTTTCACTGTTGATTCTCTGAGTGCTTTACAAATG"	"-"	"novel"	NA	"284"	"W0006060F"	"ATGAGACCATACTCGCCATCCATTTTACCAAAGTGGCTCAATCCTACTTCAGACAGATTACCTAACAATATCCACTATGAGAAACACAACCCCATTGGCCACGGACTGATCTTTCACTGTTGATTCTCTGAGTGCTTTACAAATG"	"ATGAGACCATACTCGCCATCCATTTTACCAAAGTGGCTCAATCCTACTTCAGACAGATTACCTAACAATATCCACTATGAGAAACACAACCCCATTGGCCACGGACTGATCTTTCACTGTTGATTCTCTGAGTGCTTTACAAATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"."	19	52	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAATGAGACCATACTCGCCATCCATTTTACCAAAGTGGCTCAATCCTACTTCAGACAGATTACCTAACAATATCCACTATGAGAAACACAACCCCATTGGCCACGGACTGATCTTTCACTGTTGATTCTCTGAGTGCTTTACAAATGG"	"c68d82ea-fe44-11e5-a63e-a6e5414a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.202127659574468	"WGS"	FALSE
"8001"	"ENSR00001506579"	0	"mskcc.org"	"GRCh37"	"16"	76228688	76228691	"+"	"IGR"	"DEL"	"CTGA"	"CTGA"	"-"	"novel"	NA	"284"	"W0006060F"	"CTGA"	"CTGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001506579"	""	106	"."	25	44	"."	0	""	"-"	""	"ENSR00001506579"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCTGAC"	"d3a98cd0-fe44-11e5-a63e-a6e5414a729f"	"1500"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.235849056603774	"WGS"	FALSE
"8002"	"CDH13"	1012	"mskcc.org"	"GRCh37"	"16"	83813089	83813090	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1823-477dupA"	""	""	"ENST00000268613"	""	92	"."	7	56	"."	0	"CDH13,intron_variant,,ENST00000566620,NM_001257.4,NM_001220490.1,NM_001220489.1,NM_001220488.1;CDH13,intron_variant,,ENST00000268613,;CDH13,intron_variant,,ENST00000428848,;CDH13,intron_variant,,ENST00000539548,;"	"A"	"ENSG00000140945"	"ENST00000268613"	"Transcript"	"intron_variant"	"-/2722"	"-/2283"	"-/760"	""	""	""	"1"	NA	1	"CDH13"	"HGNC"	1753	"protein_coding"	"YES"	"CCDS58485.1"	"ENSP00000268613"	"P55290"	""	"UPI00020E71A6"	""	NA	NA	""	"12/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"e71515b8-fe59-11e5-a63e-a6e5414a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0760869565217391	"WGS"	FALSE
"8003"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	86829916	86829917	"+"	"IGR"	"INS"	"-"	"-"	"TTTTTTTTT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"."	5	47	"."	0	""	"TTTTTTTTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"fbbf729c-fe59-11e5-a63e-a6e5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0549450549450549	"WGS"	FALSE
"8004"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	247492	247901	"+"	"IGR"	"DEL"	"TTTATACAGTTACAATTTAACACTGCATCTTTAAATTATCACAGTAGTGCAATATTACGGTGAACTTTACACAGTTACAATTTAACACTGCGTCTTTAAATTATCACGGTAATGCGGTATGTGTTACAGTGAACTTTATACAGTTACGATTTAACACTGCATCTTTAAATTATCACAGCAATGCGGTATGTGTTACAGTGAACTTTATACAGTTACGATTTAACACTGCGTCTTTTAATTATCACGGTAATGCGGTATGTGTTACAGTGAACTTTATACAGATACGATTTAACACTGCATCTTTAAATTATCACGGTAATGCGGTATGTGTTACAGTGAACTTTATACAGTTACGATTTAACACTGCATCTTTAAATTATCACGGTAATGCGGTATGTGTTACAATTAAC"	"TTTATACAGTTACAATTTAACACTGCATCTTTAAATTATCACAGTAGTGCAATATTACGGTGAACTTTACACAGTTACAATTTAACACTGCGTCTTTAAATTATCACGGTAATGCGGTATGTGTTACAGTGAACTTTATACAGTTACGATTTAACACTGCATCTTTAAATTATCACAGCAATGCGGTATGTGTTACAGTGAACTTTATACAGTTACGATTTAACACTGCGTCTTTTAATTATCACGGTAATGCGGTATGTGTTACAGTGAACTTTATACAGATACGATTTAACACTGCATCTTTAAATTATCACGGTAATGCGGTATGTGTTACAGTGAACTTTATACAGTTACGATTTAACACTGCATCTTTAAATTATCACGGTAATGCGGTATGTGTTACAATTAAC"	"-"	"novel"	NA	"284"	"W0006060F"	"TTTATACAGTTACAATTTAACACTGCATCTTTAAATTATCACAGTAGTGCAATATTACGGTGAACTTTACACAGTTACAATTTAACACTGCGTCTTTAAATTATCACGGTAATGCGGTATGTGTTACAGTGAACTTTATACAGTTACGATTTAACACTGCATCTTTAAATTATCACAGCAATGCGGTATGTGTTACAGTGAACTTTATACAGTTACGATTTAACACTGCGTCTTTTAATTATCACGGTAATGCGGTATGTGTTACAGTGAACTTTATACAGATACGATTTAACACTGCATCTTTAAATTATCACGGTAATGCGGTATGTGTTACAGTGAACTTTATACAGTTACGATTTAACACTGCATCTTTAAATTATCACGGTAATGCGGTATGTGTTACAATTAAC"	"TTTATACAGTTACAATTTAACACTGCATCTTTAAATTATCACAGTAGTGCAATATTACGGTGAACTTTACACAGTTACAATTTAACACTGCGTCTTTAAATTATCACGGTAATGCGGTATGTGTTACAGTGAACTTTATACAGTTACGATTTAACACTGCATCTTTAAATTATCACAGCAATGCGGTATGTGTTACAGTGAACTTTATACAGTTACGATTTAACACTGCGTCTTTTAATTATCACGGTAATGCGGTATGTGTTACAGTGAACTTTATACAGATACGATTTAACACTGCATCTTTAAATTATCACGGTAATGCGGTATGTGTTACAGTGAACTTTATACAGTTACGATTTAACACTGCATCTTTAAATTATCACGGTAATGCGGTATGTGTTACAATTAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"."	9	47	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATTTATACAGTTACAATTTAACACTGCATCTTTAAATTATCACAGTAGTGCAATATTACGGTGAACTTTACACAGTTACAATTTAACACTGCGTCTTTAAATTATCACGGTAATGCGGTATGTGTTACAGTGAACTTTATACAGTTACGATTTAACACTGCATCTTTAAATTATCACAGCAATGCGGTATGTGTTACAGTGAACTTTATACAGTTACGATTTAACACTGCGTCTTTTAATTATCACGGTAATGCGGTATGTGTTACAGTGAACTTTATACAGATACGATTTAACACTGCATCTTTAAATTATCACGGTAATGCGGTATGTGTTACAGTGAACTTTATACAGTTACGATTTAACACTGCATCTTTAAATTATCACGGTAATGCGGTATGTGTTACAATTAACT"	"e700f46e-fdd4-11e5-8290-a5e5414a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.105882352941176	"WGS"	FALSE
"8005"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	2481749	2481749	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"."	15	59	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"f5f07102-fdd4-11e5-8290-a5e5414a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.145631067961165	"WGS"	FALSE
"8006"	"NDEL1"	81565	"mskcc.org"	"GRCh37"	"17"	8345739	8345740	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-12-1836dupT"	""	""	"ENST00000334527"	""	84	"."	20	52	"."	0	"NDEL1,intron_variant,,ENST00000334527,NM_030808.4;NDEL1,intron_variant,,ENST00000380025,;NDEL1,intron_variant,,ENST00000402554,NM_001025579.2;NDEL1,intron_variant,,ENST00000299734,;NDEL1,intron_variant,,ENST00000580012,;NDEL1,intron_variant,,ENST00000582490,;NDEL1,intron_variant,,ENST00000582812,;NDEL1,intron_variant,,ENST00000584866,;NDEL1,intron_variant,,ENST00000582665,;NDEL1,intron_variant,,ENST00000585098,;NDEL1,intron_variant,,ENST00000583066,;NDEL1,intron_variant,,ENST00000581189,;NDEL1,intron_variant,,ENST00000579880,;NDEL1,intron_variant,,ENST00000580237,;NDEL1,intron_variant,,ENST00000580738,;"	"T"	"ENSG00000166579"	"ENST00000334527"	"Transcript"	"intron_variant"	"-/2372"	"-/1038"	"-/345"	""	""	""	"1"	NA	1	"NDEL1"	"HGNC"	17620	"protein_coding"	"YES"	"CCDS11143.1"	"ENSP00000333982"	"Q9GZM8"	"J3QL85,J3QL31,J3KT16,J3KSF2,J3KRK9,B4DS41"	"UPI000000D76C"	"NM_030808.4"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"bde5b648-fdd7-11e5-8290-a5e5414a729f"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.238095238095238	"WGS"	FALSE
"8007"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	11053305	11053309	"+"	"IGR"	"DEL"	"GGTGC"	"GGTGC"	"AGTA"	"novel"	NA	"284"	"W0006060F"	"GGTGC"	"GGTGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"."	18	57	"."	0	""	"AGTA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGGTGCC"	"4a91b69c-fdd7-11e5-8290-a5e5414a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.227848101265823	"WGS"	FALSE
"8008"	"DRG2"	1819	"mskcc.org"	"GRCh37"	"17"	17993683	17993704	"+"	"Intron"	"DEL"	"TATATATATATATATATATATA"	"TATATATATATATATATATATA"	"-"	"novel"	NA	"284"	"W0006060F"	"TATATATATATATATATATATA"	"TATATATATATATATATATATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.64+2299_64+2320delATATATATATATATATATATAT"	""	""	"ENST00000225729"	""	82	"."	5	30	"."	0	"DRG2,intron_variant,,ENST00000225729,NM_001388.4;DRG2,intron_variant,,ENST00000395726,;DRG2,intron_variant,,ENST00000583355,;DRG2,intron_variant,,ENST00000579601,;DRG2,intron_variant,,ENST00000580929,;DRG2,intron_variant,,ENST00000467099,;DRG2,intron_variant,,ENST00000580055,;DRG2,intron_variant,,ENST00000582314,;DRG2,intron_variant,,ENST00000583162,;DRG2,intron_variant,,ENST00000496428,;DRG2,intron_variant,,ENST00000579224,;DRG2,intron_variant,,ENST00000577771,;DRG2,intron_variant,,ENST00000473213,;DRG2,intron_variant,,ENST00000578767,;DRG2,intron_variant,,ENST00000577450,;DRG2,intron_variant,,ENST00000582419,;DRG2,intron_variant,,ENST00000578173,;DRG2,intron_variant,,ENST00000584212,;"	"-"	"ENSG00000108591"	"ENST00000225729"	"Transcript"	"intron_variant"	"-/1964"	"-/1095"	"-/364"	""	""	""	"1"	NA	1	"DRG2"	"HGNC"	3030	"protein_coding"	"YES"	"CCDS11191.1"	"ENSP00000225729"	"P55039"	""	"UPI000012987D"	"NM_001388.4"	NA	NA	""	"1/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"17"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTATATATATATATATATATATAT"	"5907be80-fdd5-11e5-8290-a5e5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0609756097560976	"WGS"	FALSE
"8009"	"TAOK1"	57551	"mskcc.org"	"GRCh37"	"17"	27721168	27721169	"+"	"Intron"	"INS"	"-"	"-"	"TTTTT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-95+3155_-95+3159dupTTTTT"	""	""	"ENST00000261716"	""	119	"."	5	60	"."	0	"TAOK1,intron_variant,,ENST00000261716,NM_020791.2;TAOK1,intron_variant,,ENST00000536202,NM_025142.1;TAOK1,intron_variant,,ENST00000583121,;RP11-296K13.4,intron_variant,,ENST00000584958,;MIR4523,downstream_gene_variant,,ENST00000580425,;MIR4523,upstream_gene_variant,,ENST00000577218,;TAOK1,intron_variant,,ENST00000587277,;"	"TTTTT"	"ENSG00000160551"	"ENST00000261716"	"Transcript"	"intron_variant"	"-/12407"	"-/3006"	"-/1001"	""	""	""	"1"	NA	1	"TAOK1"	"HGNC"	29259	"protein_coding"	"YES"	"CCDS32601.1"	"ENSP00000261716"	"Q7L7X3"	"J3QS76"	"UPI000004A033"	"NM_020791.2"	NA	NA	""	"1/19"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"33"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"262de676-fdd8-11e5-8290-a5e5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0420168067226891	"WGS"	FALSE
"8010"	"TAF15"	8148	"mskcc.org"	"GRCh37"	"17"	34138774	34138775	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7+2196dupA"	""	""	"ENST00000588240"	""	109	"."	28	47	"."	0	"TAF15,intron_variant,,ENST00000588240,NM_139215.2,NM_003487.3;TAF15,intron_variant,,ENST00000311979,;TAF15,intron_variant,,ENST00000592237,;TAF15,intron_variant,,ENST00000590273,;TAF15,intron_variant,,ENST00000588441,;TAF15,intron_variant,,ENST00000587272,;AC015849.12,upstream_gene_variant,,ENST00000588414,;AC015849.19,downstream_gene_variant,,ENST00000588415,;TAF15,intron_variant,,ENST00000590051,;TAF15,intron_variant,,ENST00000591957,;TAF15,intron_variant,,ENST00000591527,;TAF15,downstream_gene_variant,,ENST00000592969,;"	"A"	"ENSG00000172660"	"ENST00000588240"	"Transcript"	"intron_variant"	"-/2191"	"-/1779"	"-/592"	""	""	""	"1"	NA	1	"TAF15"	"HGNC"	11547	"protein_coding"	"YES"	"CCDS32623.1"	"ENSP00000466950"	"Q92804"	"Q86X94,K7EJB3"	"UPI000013317D"	"NM_139215.2,NM_003487.3"	NA	NA	""	"1/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"4550693e-fdd8-11e5-8290-a5e5414a729f"	"1680"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.256880733944954	"WGS"	TRUE
"8011"	"KLHL10"	317719	"mskcc.org"	"GRCh37"	"17"	40000592	40000601	"+"	"Intron"	"DEL"	"CCTGCCTCAG"	"CCTGCCTCAG"	"-"	"novel"	NA	"284"	"W0006060F"	"CCTGCCTCAG"	"CCTGCCTCAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.685-783_685-774delGCCTCAGCCT"	""	""	"ENST00000293303"	""	83	"."	11	48	"."	0	"KLHL10,intron_variant,,ENST00000293303,NM_152467.3;KLHL10,downstream_gene_variant,,ENST00000448203,;KLHL10,downstream_gene_variant,,ENST00000438813,;RP11-156E6.1,downstream_gene_variant,,ENST00000560400,;KLHL10,downstream_gene_variant,,ENST00000485613,;"	"-"	"ENSG00000161594"	"ENST00000293303"	"Transcript"	"intron_variant"	"-/2057"	"-/1827"	"-/608"	""	""	""	"1"	NA	1	"KLHL10"	"HGNC"	18829	"protein_coding"	"YES"	"CCDS42340.1"	"ENSP00000293303"	"Q6JEL2"	"C9J999,B4DX37"	"UPI000013E0FA"	"NM_152467.3"	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTCCTGCCTCAGC"	"69c165fe-fdd6-11e5-8290-a5e5414a729f"	"626"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.132530120481928	"WGS"	FALSE
"8012"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	50665167	50665168	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"."	21	70	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"9f1e4ca6-fdd8-11e5-8290-a5e5414a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.1875	"WGS"	FALSE
"8013"	"PPM1E"	22843	"mskcc.org"	"GRCh37"	"17"	56926731	56926731	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.464+92909delT"	""	""	"ENST00000308249"	""	116	"."	5	46	"."	0	"PPM1E,intron_variant,,ENST00000308249,NM_014906.4;"	"-"	"ENSG00000175175"	"ENST00000308249"	"Transcript"	"intron_variant"	"-/2988"	"-/2268"	"-/755"	""	""	""	"1"	NA	1	"PPM1E"	"HGNC"	19322	"protein_coding"	"YES"	"CCDS11613.1"	"ENSP00000312411"	"Q8WY54"	"A7E2X1"	"UPI000013ECF6"	"NM_014906.4"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTC"	"c03d410a-fdd6-11e5-8290-a5e5414a729f"	"168"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0431034482758621	"WGS"	FALSE
"8014"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	62352396	62352396	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"."	13	47	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"d9f46d58-fdd6-11e5-8290-a5e5414a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.164556962025316	"WGS"	FALSE
"8015"	"RP11-14P20.1"	0	"mskcc.org"	"GRCh37"	"18"	509189	509213	"+"	"Intron"	"DEL"	"ATTTTGGAGATGGAGTTTTGCTCTT"	"ATTTTGGAGATGGAGTTTTGCTCTT"	"TTGGAGATGGAGTTTCGCTC"	"novel"	NA	"284"	"W0006060F"	"ATTTTGGAGATGGAGTTTTGCTCTT"	"ATTTTGGAGATGGAGTTTTGCTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.261-406_261-382delAAGAGCAAAACTCCATCTCCAAAATinsGAGCGAAACTCCATCTCCAA"	""	""	"ENST00000579492"	""	71	"."	7	47	"."	0	"RP11-14P20.1,intron_variant,,ENST00000579492,;"	"TTGGAGATGGAGTTTCGCTC"	"ENSG00000264265"	"ENST00000579492"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/500"	""	""	""	""	""	"1"	NA	-1	"RP11-14P20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTATTTTGGAGATGGAGTTTTGCTCTTG"	"b49973aa-fdd6-11e5-8e3a-3d1a424a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0985915492957746	"WGS"	FALSE
"8016"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	22000689	22000690	"+"	"IGR"	"DEL"	"TG"	"TG"	"-"	"novel"	NA	"284"	"W0006060F"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"."	17	51	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTGT"	"73b5ed56-fdd5-11e5-8e3a-3d1a424a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.163461538461538	"WGS"	FALSE
"8017"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	26979091	26979093	"+"	"IGR"	"DEL"	"AAT"	"AAT"	"TA"	"novel"	NA	"284"	"W0006060F"	"AAT"	"AAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"."	17	50	"."	0	""	"TA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAATG"	"be04730e-fdd6-11e5-8e3a-3d1a424a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.171717171717172	"WGS"	FALSE
"8018"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	58704241	58704242	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"."	14	72	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"de28bedc-fdd7-11e5-8e3a-3d1a424a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.14	"WGS"	FALSE
"8019"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	74389367	74389379	"+"	"IGR"	"DEL"	"AACATTCACGTGC"	"AACATTCACGTGC"	"GTTAATGTGGA"	"novel"	NA	"284"	"W0006060F"	"AACATTCACGTGC"	"AACATTCACGTGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"."	36	53	"."	0	""	"GTTAATGTGGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAACATTCACGTGCA"	"ce39c1d4-fdd6-11e5-8e3a-3d1a424a729f"	"2160"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.4	"WGS"	FALSE
"8020"	"MUM1"	84939	"mskcc.org"	"GRCh37"	"19"	1332388	1332389	"+"	"Intron"	"INS"	"-"	"-"	"TTTTG"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-69-23928_-69-23927insGTTTT"	""	""	"ENST00000344663"	""	85	"."	7	50	"."	0	"MUM1,intron_variant,,ENST00000344663,;"	"TTTTG"	"ENSG00000160953"	"ENST00000344663"	"Transcript"	"intron_variant"	"-/4092"	"-/2136"	"-/711"	""	""	""	"1"	NA	1	"MUM1"	"HGNC"	29641	"protein_coding"	"YES"	"CCDS12062.1"	"ENSP00000345789"	""	"K7EP97,K7END0,J3KNX4"	"UPI00001A95DB"	""	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"e9b812f8-fdd6-11e5-be9b-3c1a424a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0823529411764706	"WGS"	FALSE
"8021"	"DNM2"	1785	"mskcc.org"	"GRCh37"	"19"	10890178	10890179	"+"	"Intron"	"INS"	"-"	"-"	"TTTCTTT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.688+2289_688+2290insCTTTTTT"	""	""	"ENST00000389253"	""	99	"."	6	52	"."	0	"DNM2,intron_variant,,ENST00000314646,;DNM2,intron_variant,,ENST00000359692,NM_004945.3;DNM2,intron_variant,,ENST00000389253,NM_001005361.2;DNM2,intron_variant,,ENST00000355667,NM_001005360.2,NM_001190716.1;DNM2,intron_variant,,ENST00000408974,NM_001005362.2;DNM2,intron_variant,,ENST00000585892,;DNM2,upstream_gene_variant,,ENST00000587830,;DNM2,downstream_gene_variant,,ENST00000586939,;MIR4748,upstream_gene_variant,,ENST00000578076,;DNM2,downstream_gene_variant,,ENST00000591819,;DNM2,upstream_gene_variant,,ENST00000591118,;DNM2,downstream_gene_variant,,ENST00000587991,;DNM2,upstream_gene_variant,,ENST00000587485,;DNM2,intron_variant,,ENST00000591701,;"	"TTTCTTT"	"ENSG00000079805"	"ENST00000389253"	"Transcript"	"intron_variant"	"-/3581"	"-/2613"	"-/870"	""	""	""	"1"	NA	1	"DNM2"	"HGNC"	2974	"protein_coding"	"YES"	"CCDS45969.1"	"ENSP00000373905"	"P50570"	"Q8N1K8,K7EPK9"	"UPI000049A626"	"NM_001005361.2"	NA	NA	""	"5/20"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"2efb17de-fdd7-11e5-be9b-3c1a424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0606060606060606	"WGS"	TRUE
"8022"	"ZNF627"	199692	"mskcc.org"	"GRCh37"	"19"	11678518	11678519	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAA"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-198+3534_-198+3541dupAAAAAAAA"	""	""	"ENST00000585493"	""	85	"."	6	43	"."	0	"ZNF627,intron_variant,,ENST00000585493,;ZNF627,intron_variant,,ENST00000588651,;ZNF627,intron_variant,,ENST00000593279,;"	"AAAAAAAA"	"ENSG00000198551"	"ENST00000585493"	"Transcript"	"intron_variant"	"-/541"	"-/51"	"-/17"	""	""	""	"1"	NA	1	"ZNF627"	"HGNC"	30570	"protein_coding"	""	""	"ENSP00000464997"	""	""	"UPI0002840963"	""	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"22"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"33244ee8-fdd7-11e5-be9b-3c1a424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0705882352941176	"WGS"	FALSE
"8023"	"NR2F6"	2063	"mskcc.org"	"GRCh37"	"19"	17347296	17347297	"+"	"Intron"	"INS"	"-"	"-"	"C"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.374-423dupG"	""	""	"ENST00000291442"	""	86	"."	17	50	"."	0	"NR2F6,intron_variant,,ENST00000291442,NM_005234.3;NR2F6,intron_variant,,ENST00000596878,;AC010646.3,intron_variant,,ENST00000594059,;"	"C"	"ENSG00000160113"	"ENST00000291442"	"Transcript"	"intron_variant"	"-/2404"	"-/1215"	"-/404"	""	""	""	"1"	NA	-1	"NR2F6"	"HGNC"	7977	"protein_coding"	"YES"	"CCDS12352.1"	"ENSP00000291442"	"P10588"	"M0R384,M0R175,F1D8R3"	"UPI0000129B28"	"NM_005234.3"	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"5720e4e6-fdd7-11e5-be9b-3c1a424a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.197674418604651	"WGS"	FALSE
"8024"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	23915382	23915382	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"."	12	62	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGG"	"afa9d5fc-fdd5-11e5-be9b-3c1a424a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.13953488372093	"WGS"	FALSE
"8025"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	24154443	24154444	"+"	"IGR"	"DEL"	"CT"	"CT"	"-"	"novel"	NA	"284"	"W0006060F"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"."	8	60	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACCTC"	"b1b04c78-fdd5-11e5-be9b-3c1a424a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.115942028985507	"WGS"	FALSE
"8026"	"SCGB1B2P"	643719	"mskcc.org"	"GRCh37"	"19"	35064852	35064856	"+"	"3'Flank"	"DEL"	"ACCCT"	"ACCCT"	"GTAA"	"rs386808856"	NA	"284"	"W0006060F"	"ACCCT"	"ACCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000595013"	""	76	"."	15	32	"."	0	"SCGB1B2P,downstream_gene_variant,,ENST00000595013,;SCGB1B2P,downstream_gene_variant,,ENST00000597830,;"	"GTAA"	"ENSG00000268751"	"ENST00000595013"	"Transcript"	"downstream_gene_variant"	"-/612"	""	""	""	""	"rs386808856"	"1"	"2782"	-1	"SCGB1B2P"	"HGNC"	20741	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGACCCTG"	"d301cf4a-fdd6-11e5-be9b-3c1a424a729f"	"876"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.197368421052632	"WGS"	FALSE
"8027"	"SBSN"	374897	"mskcc.org"	"GRCh37"	"19"	36011259	36011260	"+"	"3'Flank"	"DEL"	"AA"	"AA"	"-"	"rs34882675"	NA	"284"	"W0006060F"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000452271"	""	88	"."	11	41	"."	0	"SBSN,downstream_gene_variant,,ENST00000452271,NM_001166034.1;SBSN,downstream_gene_variant,,ENST00000518157,NM_198538.3;SBSN,downstream_gene_variant,,ENST00000588674,NM_001166035.1;"	"-"	"ENSG00000189001"	"ENST00000452271"	"Transcript"	"downstream_gene_variant"	"-/1945"	"-/1773"	"-/590"	""	""	"rs34882675"	"1"	"3009"	-1	"SBSN"	"HGNC"	24950	"protein_coding"	"YES"	"CCDS54253.1"	"ENSP00000430242"	"Q6UWP8"	""	"UPI000059D6E7"	"NM_001166034.1"	NA	NA	""	""	""	"-:0.2057"	"-:0.0643"	"-:0.317"	NA	"-:0.1696"	"-:0.3022"	"-:0.2556"	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAT"	"dd5ef1f8-fdd5-11e5-be9b-3c1a424a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.125	"WGS"	FALSE
"8028"	"SIPA1L3"	23094	"mskcc.org"	"GRCh37"	"19"	38613913	38613913	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs56737388"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2868+3391delG"	""	""	"ENST00000222345"	""	81	"."	13	34	"."	0	"SIPA1L3,intron_variant,,ENST00000222345,NM_015073.1;SIPA1L3,intron_variant,,ENST00000600919,;SIPA1L3,intron_variant,,ENST00000601881,;SIPA1L3,downstream_gene_variant,,ENST00000594553,;"	"-"	"ENSG00000105738"	"ENST00000222345"	"Transcript"	"intron_variant"	"-/7987"	"-/5346"	"-/1781"	""	""	"rs56737388"	"1"	NA	1	"SIPA1L3"	"HGNC"	23801	"protein_coding"	"YES"	"CCDS33007.1"	"ENSP00000222345"	"O60292"	"Q8IUV1"	"UPI00001D8160"	"NM_015073.1"	NA	NA	""	"9/21"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"0dcb9936-fdd6-11e5-be9b-3c1a424a729f"	"746"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.160493827160494	"WGS"	FALSE
"8029"	"ENSR00001015619"	0	"mskcc.org"	"GRCh37"	"19"	43469436	43469437	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001015619"	""	130	"."	26	70	"."	0	""	"A"	""	"ENSR00001015619"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"ce6b4140-fdd7-11e5-be9b-3c1a424a729f"	"1560"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.2	"WGS"	FALSE
"8030"	"FOXA3"	3171	"mskcc.org"	"GRCh37"	"19"	46373448	46373448	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.70-1885delG"	""	""	"ENST00000302177"	""	83	"."	5	54	"."	0	"FOXA3,intron_variant,,ENST00000302177,NM_004497.2;FOXA3,intron_variant,,ENST00000594297,;"	"-"	"ENSG00000170608"	"ENST00000302177"	"Transcript"	"intron_variant"	"-/1989"	"-/1053"	"-/350"	""	""	""	"1"	NA	1	"FOXA3"	"HGNC"	5023	"protein_coding"	"YES"	"CCDS12677.1"	"ENSP00000304004"	"P55318"	"M0QZW5"	"UPI0000000DF9"	"NM_004497.2"	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"37a43696-fdd6-11e5-be9b-3c1a424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0602409638554217	"WGS"	FALSE
"8031"	"DHX34"	9704	"mskcc.org"	"GRCh37"	"19"	47883531	47883531	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2982+290delG"	""	""	"ENST00000328771"	""	87	"."	13	45	"."	0	"DHX34,intron_variant,,ENST00000328771,NM_014681.5;DHX34,intron_variant,,ENST00000486327,;DHX34,intron_variant,,ENST00000460681,;"	"-"	"ENSG00000134815"	"ENST00000328771"	"Transcript"	"intron_variant"	"-/4372"	"-/3432"	"-/1143"	""	""	""	"1"	NA	1	"DHX34"	"HGNC"	16719	"protein_coding"	"YES"	"CCDS12700.1"	"ENSP00000331907"	"Q14147"	""	"UPI0000202759"	"NM_014681.5"	NA	NA	""	"14/16"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGG"	"43695920-fdd6-11e5-be9b-3c1a424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.149425287356322	"WGS"	FALSE
"8032"	"ZNF114"	163071	"mskcc.org"	"GRCh37"	"19"	48793546	48793547	"+"	"3'Flank"	"INS"	"-"	"-"	"AAAAAAAAAAAAAAAAAAAGG"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000595607"	""	33	"."	5	19	"."	0	"ZNF114,downstream_gene_variant,,ENST00000595607,;ZNF114,downstream_gene_variant,,ENST00000315849,NM_153608.1;ZNF114,downstream_gene_variant,,ENST00000597695,;ZNF114,downstream_gene_variant,,ENST00000600687,;ZNF114,downstream_gene_variant,,ENST00000595408,;ZNF114,downstream_gene_variant,,ENST00000594024,;ZNF114,downstream_gene_variant,,ENST00000598898,;"	"AAAAAAAAAAAAAAAAAAAGG"	"ENSG00000178150"	"ENST00000595607"	"Transcript"	"downstream_gene_variant"	"-/2478"	"-/1254"	"-/417"	""	""	""	"1"	"2681"	1	"ZNF114"	"HGNC"	12894	"protein_coding"	"YES"	"CCDS12713.1"	"ENSP00000469998"	"Q8NC26"	"Q8N4J1"	"UPI000007282E"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"f0f7a578-fdd7-11e5-be9b-3c1a424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.151515151515152	"WGS"	FALSE
"8033"	"SIGLEC9"	27180	"mskcc.org"	"GRCh37"	"19"	51634855	51634856	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1203+3091dupA"	""	""	"ENST00000440804"	""	84	"."	5	39	"."	0	"SIGLEC9,intron_variant,,ENST00000440804,NM_001198558.1;SIGLEC9,downstream_gene_variant,,ENST00000250360,NM_014441.2;SIGLEC9,downstream_gene_variant,,ENST00000599948,;"	"A"	"ENSG00000129450"	"ENST00000440804"	"Transcript"	"intron_variant"	"-/1960"	"-/1440"	"-/479"	""	""	""	"1"	NA	1	"SIGLEC9"	"HGNC"	10878	"protein_coding"	"YES"	"CCDS56100.1"	"ENSP00000413861"	""	""	"UPI00017A75A8"	"NM_001198558.1"	NA	NA	""	"6/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"0596a63c-fdd8-11e5-be9b-3c1a424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0595238095238095	"WGS"	FALSE
"8034"	"ZNF525"	0	"mskcc.org"	"GRCh37"	"19"	53889563	53889591	"+"	"3'Flank"	"DEL"	"GATTCAGATCAAAACTGGTAATAAAATCA"	"GATTCAGATCAAAACTGGTAATAAAATCA"	"-"	"rs373612956"	NA	"284"	"W0006060F"	"GATTCAGATCAAAACTGGTAATAAAATCA"	"GATTCAGATCAAAACTGGTAATAAAATCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000474037"	""	82	"."	8	44	"."	0	"ZNF525,3_prime_UTR_variant,,ENST00000467003,;ZNF525,3_prime_UTR_variant,,ENST00000475179,;ZNF525,intron_variant,,ENST00000593918,;ZNF525,downstream_gene_variant,,ENST00000474037,;ZNF525,downstream_gene_variant,,ENST00000355326,;ZNF765,upstream_gene_variant,,ENST00000504146,;ZNF525,downstream_gene_variant,,ENST00000601790,;CTD-3141N22.1,non_coding_transcript_exon_variant,,ENST00000459631,;"	"-"	"ENSG00000203326"	"ENST00000474037"	"Transcript"	"downstream_gene_variant"	"-/3890"	"-/1440"	"-/479"	""	""	"rs373612956"	"1"	"1975"	1	"ZNF525"	"HGNC"	29423	"protein_coding"	"YES"	""	"ENSP00000417696"	""	"J3KR62,J3KR51"	"UPI0000EE700C"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGATTCAGATCAAAACTGGTAATAAAATCAG"	"9720a852-fdd6-11e5-be9b-3c1a424a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0975609756097561	"WGS"	FALSE
"8035"	"ZNF460"	10794	"mskcc.org"	"GRCh37"	"19"	57800106	57800116	"+"	"Intron"	"DEL"	"TTAGATTCTCT"	"TTAGATTCTCT"	"-"	"novel"	NA	"284"	"W0006060F"	"TTAGATTCTCT"	"TTAGATTCTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.158-1959_158-1949delAGATTCTCTTT"	""	""	"ENST00000360338"	""	121	"."	21	47	"."	0	"ZNF460,intron_variant,,ENST00000360338,NM_006635.3;ZNF460,intron_variant,,ENST00000537645,;ZNF460,intron_variant,,ENST00000599602,;"	"-"	"ENSG00000197714"	"ENST00000360338"	"Transcript"	"intron_variant"	"-/3350"	"-/1689"	"-/562"	""	""	""	"1"	NA	1	"ZNF460"	"HGNC"	21628	"protein_coding"	"YES"	"CCDS12949.1"	"ENSP00000353491"	"Q14592"	"M0R0J6,B4DNX9"	"UPI0000202D11"	"NM_006635.3"	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTAGATTCTCTT"	"b8b89826-fdd6-11e5-be9b-3c1a424a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.173553719008264	"WGS"	FALSE
"8036"	"DCDC2C"	728597	"mskcc.org"	"GRCh37"	"2"	3816876	3816876	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.743-25delG"	""	""	"ENST00000423741"	""	90	"."	19	47	"."	0	"DCDC2C,intron_variant,,ENST00000423741,NM_001287444.1;DCDC2C,intron_variant,,ENST00000399143,;DCDC2C,intron_variant,,ENST00000537457,;"	"-"	"ENSG00000214866"	"ENST00000423741"	"Transcript"	"intron_variant"	"-/895"	"-/895"	"-/298"	""	""	""	"1"	NA	1	"DCDC2C"	"HGNC"	32696	"protein_coding"	"YES"	""	"ENSP00000403984"	""	"H7C242"	"UPI000173A39B"	"NM_001287444.1"	NA	NA	""	"7/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGT"	"ff180d3a-fdd4-11e5-b220-c1e5414a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.211111111111111	"WGS"	FALSE
"8037"	"KLF11"	8462	"mskcc.org"	"GRCh37"	"2"	10191019	10191020	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1259-1316_1259-1308dupTTTTTTTTT"	""	""	"ENST00000305883"	""	88	"."	5	46	"."	0	"KLF11,intron_variant,,ENST00000535335,NM_001177718.1;KLF11,intron_variant,,ENST00000305883,NM_003597.4;KLF11,intron_variant,,ENST00000540845,NM_001177716.1;KLF11,downstream_gene_variant,,ENST00000440320,;KLF11,downstream_gene_variant,,ENST00000401510,;KLF11,downstream_gene_variant,,ENST00000448523,;RP11-254F7.3,downstream_gene_variant,,ENST00000607181,;"	"TTTTTTTTT"	"ENSG00000172059"	"ENST00000305883"	"Transcript"	"intron_variant"	"-/4030"	"-/1539"	"-/512"	""	""	""	"1"	NA	1	"KLF11"	"HGNC"	11811	"protein_coding"	"YES"	"CCDS1668.1"	"ENSP00000307023"	"O14901"	"Q53QU8,E7EX78,C9JM94,B5MCC4"	"UPI000012DEDA"	"NM_003597.4"	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"27"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"4afa9a12-fddd-11e5-b220-c1e5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0568181818181818	"WGS"	FALSE
"8038"	"RASGRP3"	25780	"mskcc.org"	"GRCh37"	"2"	33713462	33713465	"+"	"Intron"	"DEL"	"TGGA"	"TGGA"	"AGC"	"novel"	NA	"284"	"W0006060F"	"TGGA"	"TGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-261+11688_-261+11691delTGGAinsAGC"	""	""	"ENST00000403687"	""	106	"."	18	43	"."	0	"RASGRP3,intron_variant,,ENST00000403687,NM_001139488.1;RASGRP3,intron_variant,,ENST00000402538,NM_170672.2;RASGRP3,intron_variant,,ENST00000437184,;RASGRP3,intron_variant,,ENST00000442390,;RASGRP3,intron_variant,,ENST00000423159,;RASGRP3,intron_variant,,ENST00000444784,;RASGRP3,intron_variant,,ENST00000425210,;RASGRP3,intron_variant,,ENST00000497723,;RASGRP3,intron_variant,,ENST00000482857,;RASGRP3,intron_variant,,ENST00000479528,;"	"AGC"	"ENSG00000152689"	"ENST00000403687"	"Transcript"	"intron_variant"	"-/4807"	"-/2073"	"-/690"	""	""	""	"1"	NA	1	"RASGRP3"	"HGNC"	14545	"protein_coding"	"YES"	"CCDS46256.1"	"ENSP00000384192"	"Q8IV61"	"C9K0P4,C9JWP0,C9JSS2,C9J9C9,C9IYA5"	"UPI0000074694"	"NM_001139488.1"	NA	NA	""	"1/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATGGAA"	"284b50ac-fddc-11e5-b220-c1e5414a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.169811320754717	"WGS"	FALSE
"8039"	"MAP4K3"	8491	"mskcc.org"	"GRCh37"	"2"	39588344	39588345	"+"	"Intron"	"DEL"	"TT"	"TT"	"-"	"novel"	NA	"284"	"W0006060F"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.155-4865_155-4864delAA"	""	""	"ENST00000263881"	""	105	"."	12	57	"."	0	"MAP4K3,intron_variant,,ENST00000263881,NM_003618.3;MAP4K3,intron_variant,,ENST00000341681,NM_001270425.1;MAP4K3,intron_variant,,ENST00000437545,;MAP4K3,intron_variant,,ENST00000484274,;MAP4K3,intron_variant,,ENST00000429397,;MAP4K3,intron_variant,,ENST00000437968,;"	"-"	"ENSG00000011566"	"ENST00000263881"	"Transcript"	"intron_variant"	"-/4362"	"-/2685"	"-/894"	""	""	""	"1"	NA	-1	"MAP4K3"	"HGNC"	6865	"protein_coding"	"YES"	"CCDS1803.1"	"ENSP00000263881"	"Q8IVH8"	"Q53RV1,H7C1A4,B4DSS3,B3KMM5"	"UPI00000747E6"	"NM_003618.3"	NA	NA	""	"2/33"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTT"	"eda9ce02-fdd5-11e5-b220-c1e5414a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.114285714285714	"WGS"	FALSE
"8040"	"ENSR00000590025"	0	"mskcc.org"	"GRCh37"	"2"	48474371	48474372	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000590025"	""	86	"."	12	54	"."	0	""	"A"	""	"ENSR00000590025"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"d72f5cc4-fdde-11e5-b220-c1e5414a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.13953488372093	"WGS"	FALSE
"8041"	"RP11-444A22.1"	0	"mskcc.org"	"GRCh37"	"2"	60189856	60189857	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"novel"	NA	"284"	"W0006060F"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.111-135451_111-135450delTA"	""	""	"ENST00000606382"	""	97	"."	7	36	"."	0	"RP11-444A22.1,intron_variant,,ENST00000606382,;"	"-"	"ENSG00000271955"	"ENST00000606382"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/478"	""	""	""	""	""	"1"	NA	-1	"RP11-444A22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTAT"	"7656f202-fdd6-11e5-b220-c1e5414a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0721649484536082	"WGS"	FALSE
"8042"	"AC092669.6"	0	"mskcc.org"	"GRCh37"	"2"	66558798	66558812	"+"	"3'Flank"	"DEL"	"TTTTTTTTTTTTTTG"	"TTTTTTTTTTTTTTG"	"-"	"novel"	NA	"284"	"W0006060F"	"TTTTTTTTTTTTTTG"	"TTTTTTTTTTTTTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000412313"	""	80	"."	5	57	"."	0	"AC092669.6,downstream_gene_variant,,ENST00000412313,;AC092669.6,downstream_gene_variant,,ENST00000449673,;AC092669.2,downstream_gene_variant,,ENST00000437790,;"	"-"	"ENSG00000225815"	"ENST00000412313"	"Transcript"	"downstream_gene_variant"	"-/1024"	""	""	""	""	""	"1"	"3023"	1	"AC092669.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTTTTTTTTTTTTGA"	"a428f400-fdd6-11e5-b220-c1e5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0625	"WGS"	FALSE
"8043"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	71077245	71077251	"+"	"IGR"	"DEL"	"CCTATCA"	"CCTATCA"	"ATCTG"	"rs386647177"	NA	"284"	"W0006060F"	"CCTATCA"	"CCTATCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"."	17	50	"."	0	""	"ATCTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs386647177"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACCCTATCAA"	"453cb746-fddc-11e5-b220-c1e5414a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.223684210526316	"WGS"	FALSE
"8044"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	78394346	78394346	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"."	22	53	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAA"	"f916041c-fdd6-11e5-b220-c1e5414a729f"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.2	"WGS"	FALSE
"8045"	"ACTR3BP2"	440888	"mskcc.org"	"GRCh37"	"2"	92128291	92128294	"+"	"5'Flank"	"DEL"	"TTTA"	"TTTA"	"-"	"rs201271029"	NA	"284"	"W0006060F"	"TTTA"	"TTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000413404"	""	115	"."	13	50	"."	0	"ACTR3BP2,upstream_gene_variant,,ENST00000413404,;ACTR3BP2,upstream_gene_variant,,ENST00000444826,;"	"-"	"ENSG00000226481"	"ENST00000413404"	"Transcript"	"upstream_gene_variant"	"-/1373"	""	""	""	""	"rs201271029"	"1"	"400"	1	"ACTR3BP2"	"HGNC"	38677	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTTAT"	"84e570fe-fdd7-11e5-b220-c1e5414a729f"	"743"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.11304347826087	"WGS"	FALSE
"8046"	"GPR39"	2863	"mskcc.org"	"GRCh37"	"2"	133250379	133250380	"+"	"Intron"	"INS"	"-"	"-"	"ATATATACATACC"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.856+74913_856+74914insTACATACCATATA"	""	""	"ENST00000329321"	""	97	"."	6	54	"."	0	"GPR39,intron_variant,,ENST00000329321,NM_001508.2;YBX1P7,upstream_gene_variant,,ENST00000436766,;"	"ATATATACATACC"	"ENSG00000183840"	"ENST00000329321"	"Transcript"	"intron_variant"	"-/2784"	"-/1362"	"-/453"	""	""	""	"1"	NA	1	"GPR39"	"HGNC"	4496	"protein_coding"	"YES"	"CCDS2170.1"	"ENSP00000327417"	"O43194"	"Q53RU7,B3KVZ1,A4FVA5"	"UPI0000046406"	"NM_001508.2"	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"f864d61e-fde1-11e5-b220-c1e5414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0618556701030928	"WGS"	FALSE
"8047"	"AC093391.2"	101928243	"mskcc.org"	"GRCh37"	"2"	136754556	136754561	"+"	"Intron"	"DEL"	"CAGTAA"	"CAGTAA"	"TG"	"rs386650890"	NA	"284"	"W0006060F"	"CAGTAA"	"CAGTAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.357+578_357+583delCAGTAAinsTG"	""	""	"ENST00000594219"	""	111	"."	18	68	"."	0	"AC093391.2,intron_variant,,ENST00000594219,;AC093391.2,intron_variant,,ENST00000419808,;AC093391.2,intron_variant,,ENST00000438432,;AC093391.2,intron_variant,,ENST00000599018,;AC093391.2,intron_variant,,ENST00000595061,;AC093391.2,intron_variant,,ENST00000609237,;AC093391.2,intron_variant,,ENST00000607985,;AC093391.2,intron_variant,,ENST00000608471,;AC093391.2,intron_variant,,ENST00000446492,;AC093391.2,intron_variant,,ENST00000609663,;AC093391.2,upstream_gene_variant,,ENST00000597450,;AC093391.2,upstream_gene_variant,,ENST00000595624,;AC093391.2,upstream_gene_variant,,ENST00000601196,;AC093391.2,upstream_gene_variant,,ENST00000598565,;AC093391.2,upstream_gene_variant,,ENST00000601586,;AC093391.2,upstream_gene_variant,,ENST00000593462,;AC093391.2,upstream_gene_variant,,ENST00000399447,;AC093391.2,upstream_gene_variant,,ENST00000593405,;AC093391.2,upstream_gene_variant,,ENST00000594735,;"	"TG"	"ENSG00000231890"	"ENST00000594219"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1420"	""	""	""	""	"rs386650890"	"1"	NA	1	"AC093391.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACAGTAAG"	"ad25e332-fddc-11e5-b220-c1e5414a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.162162162162162	"WGS"	FALSE
"8048"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	147248006	147248171	"+"	"IGR"	"DEL"	"TGAAATCCTCCGAGAGAACAGAATGAGAGCGGAAGAAGGGACTGTGCATTAGATAAAATCATAGCATTGTTAGAAGTGGGAAAGGCACTAAATGCAGAGAAAGACATAACATGTCTAAACTATAAAAGCTCAGAATTGTTCTCCACAAAATCCACTTCGAATCACA"	"TGAAATCCTCCGAGAGAACAGAATGAGAGCGGAAGAAGGGACTGTGCATTAGATAAAATCATAGCATTGTTAGAAGTGGGAAAGGCACTAAATGCAGAGAAAGACATAACATGTCTAAACTATAAAAGCTCAGAATTGTTCTCCACAAAATCCACTTCGAATCACA"	"-"	"novel"	NA	"284"	"W0006060F"	"TGAAATCCTCCGAGAGAACAGAATGAGAGCGGAAGAAGGGACTGTGCATTAGATAAAATCATAGCATTGTTAGAAGTGGGAAAGGCACTAAATGCAGAGAAAGACATAACATGTCTAAACTATAAAAGCTCAGAATTGTTCTCCACAAAATCCACTTCGAATCACA"	"TGAAATCCTCCGAGAGAACAGAATGAGAGCGGAAGAAGGGACTGTGCATTAGATAAAATCATAGCATTGTTAGAAGTGGGAAAGGCACTAAATGCAGAGAAAGACATAACATGTCTAAACTATAAAAGCTCAGAATTGTTCTCCACAAAATCCACTTCGAATCACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"."	23	72	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTGAAATCCTCCGAGAGAACAGAATGAGAGCGGAAGAAGGGACTGTGCATTAGATAAAATCATAGCATTGTTAGAAGTGGGAAAGGCACTAAATGCAGAGAAAGACATAACATGTCTAAACTATAAAAGCTCAGAATTGTTCTCCACAAAATCCACTTCGAATCACAG"	"41a22506-fdd9-11e5-b220-c1e5414a729f"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.209090909090909	"WGS"	FALSE
"8049"	"MBD5"	55777	"mskcc.org"	"GRCh37"	"2"	148958373	148958388	"+"	"Intron"	"DEL"	"AAATGTAAGAACTTCT"	"AAATGTAAGAACTTCT"	"TAAATGTTTA"	"novel"	NA	"284"	"W0006060F"	"AAATGTAAGAACTTCT"	"AAATGTAAGAACTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-831+22011_-831+22026delAAATGTAAGAACTTCTinsTAAATGTTTA"	""	""	"ENST00000407073"	""	83	"."	32	50	"."	0	"MBD5,intron_variant,,ENST00000407073,NM_018328.4;MBD5,intron_variant,,ENST00000478804,;MBD5,intron_variant,,ENST00000488372,;MBD5,intron_variant,,ENST00000496158,;MBD5,intron_variant,,ENST00000473478,;"	"TAAATGTTTA"	"ENSG00000204406"	"ENST00000407073"	"Transcript"	"intron_variant"	"-/5992"	"-/4485"	"-/1494"	""	""	""	"1"	NA	1	"MBD5"	"HGNC"	20444	"protein_coding"	"YES"	"CCDS33302.1"	"ENSP00000386049"	"Q9P267"	""	"UPI0000208C40"	"NM_018328.4"	NA	NA	""	"3/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTAAATGTAAGAACTTCTA"	"b4230e58-fddc-11e5-b220-c1e5414a729f"	"1920"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.385542168674699	"WGS"	FALSE
"8050"	"NEB"	4703	"mskcc.org"	"GRCh37"	"2"	152569214	152569233	"+"	"Intron"	"DEL"	"AAGGGTCCATAGGTGAAGGA"	"AAGGGTCCATAGGTGAAGGA"	"-"	"novel"	NA	"284"	"W0006060F"	"AAGGGTCCATAGGTGAAGGA"	"AAGGGTCCATAGGTGAAGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.823-2181_823-2162delTCCTTCACCTATGGACCCTT"	""	""	"ENST00000397345"	""	98	"."	19	67	"."	0	"NEB,intron_variant,,ENST00000397345,NM_001164508.1;NEB,intron_variant,,ENST00000427231,NM_001164507.1,NM_001271208.1;NEB,intron_variant,,ENST00000603639,;NEB,intron_variant,,ENST00000604864,;NEB,intron_variant,,ENST00000409198,NM_004543.4;NEB,intron_variant,,ENST00000172853,;"	"-"	"ENSG00000183091"	"ENST00000397345"	"Transcript"	"intron_variant"	"-/26202"	"-/25578"	"-/8525"	""	""	""	"1"	NA	-1	"NEB"	"HGNC"	7720	"protein_coding"	"YES"	"CCDS54407.1"	"ENSP00000380505"	""	"H7C2D0,F8WCL5"	"UPI0002065BA0"	"NM_001164508.1"	NA	NA	""	"10/181"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAAGGGTCCATAGGTGAAGGAG"	"6af57714-fdd9-11e5-b220-c1e5414a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.193877551020408	"WGS"	FALSE
"8051"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	156846739	156846740	"+"	"IGR"	"DEL"	"AC"	"AC"	"-"	"novel"	NA	"284"	"W0006060F"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"."	6	51	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATACA"	"8f03a252-fdd9-11e5-b220-c1e5414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0740740740740741	"WGS"	FALSE
"8052"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	184275567	184275569	"+"	"IGR"	"DEL"	"CTT"	"CTT"	"-"	"novel"	NA	"284"	"W0006060F"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"."	11	67	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTC"	"4a357a6e-fdda-11e5-b220-c1e5414a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.11340206185567	"WGS"	FALSE
"8053"	"C2orf88"	84281	"mskcc.org"	"GRCh37"	"2"	190960159	190960164	"+"	"Intron"	"DEL"	"CCTCAC"	"CCTCAC"	"TTAG"	"rs386653714"	NA	"284"	"W0006060F"	"CCTCAC"	"CCTCAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-290+4463_-290+4468delCCTCACinsTTAG"	""	""	"ENST00000450357"	""	102	"."	9	56	"."	0	"C2orf88,intron_variant,,ENST00000450357,;C2orf88,intron_variant,,ENST00000490033,;C2orf88,intron_variant,,ENST00000495546,;"	"TTAG"	"ENSG00000187699"	"ENST00000450357"	"Transcript"	"intron_variant"	"-/486"	"-/90"	"-/30"	""	""	"rs386653714"	"1"	NA	1	"C2orf88"	"HGNC"	28191	"protein_coding"	""	""	"ENSP00000394370"	""	"C9JS57"	"UPI0001881843"	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACCTCACG"	"ccbe617e-fddc-11e5-b220-c1e5414a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0882352941176471	"WGS"	FALSE
"8054"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	200393152	200393152	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"."	17	49	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"af2f78f2-fdda-11e5-b220-c1e5414a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.155963302752294	"WGS"	FALSE
"8055"	"PARD3B"	117583	"mskcc.org"	"GRCh37"	"2"	205505753	205505757	"+"	"Intron"	"DEL"	"TATAT"	"TATAT"	"-"	"novel"	NA	"284"	"W0006060F"	"TATAT"	"TATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.121-45146_121-45142delTATAT"	""	""	"ENST00000358768"	""	120	"."	23	57	"."	0	"PARD3B,intron_variant,,ENST00000406610,NM_205863.3,NM_057177.6,NM_152526.5;PARD3B,intron_variant,,ENST00000358768,;PARD3B,intron_variant,,ENST00000351153,;PARD3B,intron_variant,,ENST00000349953,;PARD3B,intron_variant,,ENST00000462231,;PARD3B,intron_variant,,ENST00000415947,;"	"-"	"ENSG00000116117"	"ENST00000358768"	"Transcript"	"intron_variant"	"-/3432"	"-/3432"	"-/1143"	""	""	""	"1"	NA	1	"PARD3B"	"HGNC"	14446	"protein_coding"	"YES"	"CCDS42806.1"	"ENSP00000351618"	"Q8TEW8"	"Q587I4,Q53TQ6,Q53TP8,Q53TL6,Q53TI4,Q53T65,Q53SN0,Q4ZG80"	"UPI000007201E"	""	NA	NA	""	"1/21"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTATATT"	"cbfe7a8c-fdda-11e5-b220-c1e5414a729f"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.191666666666667	"WGS"	FALSE
"8056"	"ERBB4"	2066	"mskcc.org"	"GRCh37"	"2"	212372593	212372596	"+"	"Intron"	"DEL"	"AAAC"	"AAAC"	"-"	"novel"	NA	"284"	"W0006060F"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2487+54032_2487+54035delGTTT"	""	""	"ENST00000342788"	""	120	"."	20	53	"."	0	"ERBB4,intron_variant,,ENST00000342788,NM_005235.2;ERBB4,intron_variant,,ENST00000436443,NM_001042599.1;ERBB4,intron_variant,,ENST00000402597,;"	"-"	"ENSG00000178568"	"ENST00000342788"	"Transcript"	"intron_variant"	"-/12132"	"-/3927"	"-/1308"	""	""	""	"1"	NA	-1	"ERBB4"	"HGNC"	3432	"protein_coding"	"YES"	"CCDS2394.1"	"ENSP00000342235"	"Q15303"	"Q580Q7,Q53T57,Q53R48,Q53R25,Q53QS8,Q4ZG14,E9PDR1"	"UPI00000499DF"	"NM_005235.2"	NA	NA	""	"20/27"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAAAACA"	"f48a68b2-fdda-11e5-b220-c1e5414a729f"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.166666666666667	"WGS"	TRUE
"8057"	"SPAG16"	79582	"mskcc.org"	"GRCh37"	"2"	214471822	214471830	"+"	"Intron"	"DEL"	"AAAATTGAT"	"AAAATTGAT"	"-"	"novel"	NA	"284"	"W0006060F"	"AAAATTGAT"	"AAAATTGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1070+117008_1070+117016delAAAATTGAT"	""	""	"ENST00000331683"	""	97	"."	20	61	"."	0	"SPAG16,intron_variant,,ENST00000331683,NM_024532.4;SPAG16,intron_variant,,ENST00000374309,;SPAG16,intron_variant,,ENST00000451561,;SPAG16,intron_variant,,ENST00000452556,;SPAG16,intron_variant,,ENST00000406979,;"	"-"	"ENSG00000144451"	"ENST00000331683"	"Transcript"	"intron_variant"	"-/2177"	"-/1896"	"-/631"	""	""	""	"1"	NA	1	"SPAG16"	"HGNC"	23225	"protein_coding"	"YES"	"CCDS2396.1"	"ENSP00000332592"	"Q8N0X2"	"Q53TL7,Q53TF1,Q53SC3,Q53RV6,Q53RF0,Q53R35,Q53QP6"	"UPI00001AFF12"	"NM_024532.4"	NA	NA	""	"10/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAAAATTGATC"	"04e66d00-fddb-11e5-b220-c1e5414a729f"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.206185567010309	"WGS"	FALSE
"8058"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	218018604	218018613	"+"	"IGR"	"DEL"	"CAAATGTAAC"	"CAAATGTAAC"	"GCA"	"rs386655144"	NA	"284"	"W0006060F"	"CAAATGTAAC"	"CAAATGTAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"."	10	56	"."	0	""	"GCA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs386655144"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCAAATGTAACT"	"db3c3820-fddc-11e5-b220-c1e5414a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.104166666666667	"WGS"	FALSE
"8059"	"AC114765.1"	0	"mskcc.org"	"GRCh37"	"2"	221165063	221165066	"+"	"Intron"	"DEL"	"TTAC"	"TTAC"	"-"	"novel"	NA	"284"	"W0006060F"	"TTAC"	"TTAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.307-21754_307-21751delTACT"	""	""	"ENST00000432993"	""	93	"."	17	58	"."	0	"AC114765.1,intron_variant,,ENST00000432993,;"	"-"	"ENSG00000239498"	"ENST00000432993"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/754"	""	""	""	""	""	"1"	NA	1	"AC114765.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATTACT"	"3367b27e-fddb-11e5-b220-c1e5414a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.182795698924731	"WGS"	FALSE
"8060"	"AP1S3"	130340	"mskcc.org"	"GRCh37"	"2"	224645052	224645074	"+"	"Intron"	"DEL"	"AGAGAGAGAGAGAGAGAGAGAGA"	"AGAGAGAGAGAGAGAGAGAGAGA"	"TGTGTGTGTGTGT"	"novel"	NA	"284"	"W0006060F"	"AGAGAGAGAGAGAGAGAGAGAGA"	"AGAGAGAGAGAGAGAGAGAGAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4-2488_4-2466delTCTCTCTCTCTCTCTCTCTCTCTinsACACACACACACA"	""	""	"ENST00000396654"	""	67	"."	5	34	"."	0	"AP1S3,intron_variant,,ENST00000443700,;AP1S3,intron_variant,,ENST00000396654,NM_001039569.1;AP1S3,intron_variant,,ENST00000396653,;AP1S3,intron_variant,,ENST00000444408,;AP1S3,intron_variant,,ENST00000409375,;AP1S3,intron_variant,,ENST00000446015,;AP1S3,intron_variant,,ENST00000423110,;AP1S3,intron_variant,,ENST00000415298,;AP1S3,intron_variant,,ENST00000334271,;"	"TGTGTGTGTGTGT"	"ENSG00000152056"	"ENST00000396654"	"Transcript"	"intron_variant"	"-/830"	"-/465"	"-/154"	""	""	""	"1"	NA	-1	"AP1S3"	"HGNC"	18971	"protein_coding"	"YES"	"CCDS42827.1"	"ENSP00000379891"	"Q96PC3"	"Q53R44"	"UPI00003D357B"	"NM_001039569.1"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGAGAGAGAGAGAGAGAGAGAGAGAG"	"df8dd24e-fddc-11e5-b220-c1e5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0746268656716418	"WGS"	FALSE
"8061"	"ENSR00000608452"	0	"mskcc.org"	"GRCh37"	"2"	225282539	225282540	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000608452"	""	97	"."	13	52	"."	0	""	"T"	""	"ENSR00000608452"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"3ae1445c-fde5-11e5-b220-c1e5414a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.134020618556701	"WGS"	FALSE
"8062"	"RP4-764O22.1"	0	"mskcc.org"	"GRCh37"	"20"	7081349	7081351	"+"	"Intron"	"DEL"	"ATC"	"ATC"	"-"	"novel"	NA	"284"	"W0006060F"	"ATC"	"ATC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.81+31009_81+31011delTCA"	""	""	"ENST00000425900"	""	109	"."	21	59	"."	0	"RP4-764O22.1,intron_variant,,ENST00000425900,;"	"-"	"ENSG00000232271"	"ENST00000425900"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/381"	""	""	""	""	""	"1"	NA	1	"RP4-764O22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATCA"	"1b592704-fdd5-11e5-97c6-c3e5414a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.192660550458716	"WGS"	FALSE
"8063"	"ABHD12"	26090	"mskcc.org"	"GRCh37"	"20"	25275594	25275594	"+"	"3'UTR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*15delT"	""	""	"ENST00000376542"	"13/13"	95	"."	5	57	"."	0	"ABHD12,3_prime_UTR_variant,,ENST00000376542,NM_015600.4;PYGB,intron_variant,,ENST00000216962,NM_002862.3;PYGB,intron_variant,,ENST00000428458,;PYGB,intron_variant,,ENST00000471359,;ABHD12,3_prime_UTR_variant,,ENST00000465694,;"	"-"	"ENSG00000100997"	"ENST00000376542"	"Transcript"	"3_prime_UTR_variant"	"1510/1725"	"-/1215"	"-/404"	""	""	""	"1"	NA	-1	"ABHD12"	"HGNC"	15868	"protein_coding"	"YES"	"CCDS13172.1"	"ENSP00000365725"	"Q8N2K0"	"I3L440,I3L294"	"UPI000006F03A"	"NM_015600.4"	NA	NA	"13/13"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCAC"	"8ce52300-fdd5-11e5-97c6-c3e5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0526315789473684	"WGS"	FALSE
"8064"	"MROH8"	140699	"mskcc.org"	"GRCh37"	"20"	35794424	35794424	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.728+2100delC"	""	""	"ENST00000343811"	""	83	"."	17	53	"."	0	"MROH8,intron_variant,,ENST00000343811,NM_152503.4;MROH8,intron_variant,,ENST00000400441,;MROH8,intron_variant,,ENST00000441008,;MROH8,intron_variant,,ENST00000217333,;MROH8,intron_variant,,ENST00000400440,NM_213631.1;MROH8,intron_variant,,ENST00000421643,NM_213632.1;MROH8,intron_variant,,ENST00000422138,;MROH8,intron_variant,,ENST00000434295,;RP3-343K2.4,non_coding_transcript_exon_variant,,ENST00000447075,;"	"-"	"ENSG00000101353"	"ENST00000343811"	"Transcript"	"intron_variant"	"-/3425"	"-/3210"	"-/1069"	""	""	""	"1"	NA	-1	"MROH8"	"HGNC"	16125	"protein_coding"	"YES"	""	"ENSP00000339971"	""	"Q5JYR0,Q5JYQ9"	"UPI0000E5A31D"	"NM_152503.4"	NA	NA	""	"4/23"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"c98b748a-fdd5-11e5-97c6-c3e5414a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.204819277108434	"WGS"	FALSE
"8065"	"ATP9A"	10079	"mskcc.org"	"GRCh37"	"20"	50379590	50379590	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.68+5251delT"	""	""	"ENST00000338821"	""	86	"."	14	44	"."	0	"ATP9A,intron_variant,,ENST00000338821,NM_006045.1;ATP9A,intron_variant,,ENST00000311637,;ATP9A,intron_variant,,ENST00000402822,;"	"-"	"ENSG00000054793"	"ENST00000338821"	"Transcript"	"intron_variant"	"-/8106"	"-/3144"	"-/1047"	""	""	""	"1"	NA	-1	"ATP9A"	"HGNC"	13540	"protein_coding"	"YES"	"CCDS33489.1"	"ENSP00000342481"	"O75110"	"Q2NLD0,B4DR18"	"UPI000004D334"	"NM_006045.1"	NA	NA	""	"1/27"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"28372a2e-fdd6-11e5-97c6-c3e5414a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.162790697674419	"WGS"	FALSE
"8066"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	51338354	51338383	"+"	"IGR"	"DEL"	"TATATAATTATATATAATATATAATTTTTA"	"TATATAATTATATATAATATATAATTTTTA"	"-"	"novel"	NA	"284"	"W0006060F"	"TATATAATTATATATAATATATAATTTTTA"	"TATATAATTATATATAATATATAATTTTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"."	6	31	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTATATAATTATATATAATATATAATTTTTAT"	"30f38a18-fdd6-11e5-97c6-c3e5414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.075	"WGS"	FALSE
"8067"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	53889817	53889818	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"."	17	52	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"e9073fc2-fdd7-11e5-97c6-c3e5414a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.161904761904762	"WGS"	FALSE
"8068"	"RP5-827L5.2"	0	"mskcc.org"	"GRCh37"	"20"	59652906	59652907	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000420710"	""	101	"."	16	69	"."	0	"RP5-827L5.2,upstream_gene_variant,,ENST00000420710,;RP5-827L5.1,upstream_gene_variant,,ENST00000441660,;"	"A"	"ENSG00000229755"	"ENST00000420710"	"Transcript"	"upstream_gene_variant"	"-/500"	""	""	""	""	""	"1"	"34"	-1	"RP5-827L5.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"09157c84-fdd8-11e5-97c6-c3e5414a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.158415841584158	"WGS"	FALSE
"8069"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	9671472	9671474	"+"	"IGR"	"DEL"	"GTA"	"GTA"	"-"	"novel"	NA	"284"	"W0006060F"	"GTA"	"GTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	393	"."	19	189	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGTAG"	"f2c71a62-fdd4-11e5-aaec-c2e5414a729f"	"955"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0483460559796438	"WGS"	FALSE
"8070"	"AF240627.2"	0	"mskcc.org"	"GRCh37"	"21"	20016968	20016982	"+"	"Intron"	"DEL"	"AAATGAAATACCTTG"	"AAATGAAATACCTTG"	"TGAAATACCTTGTA"	"novel"	NA	"284"	"W0006060F"	"AAATGAAATACCTTG"	"AAATGAAATACCTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.286+3811_286+3825delAAATGAAATACCTTGinsTGAAATACCTTGTA"	""	""	"ENST00000416002"	""	97	"."	6	51	"."	0	"AF240627.2,intron_variant,,ENST00000416002,;AL109763.2,intron_variant,,ENST00000437492,;AL109763.2,intron_variant,,ENST00000355189,;AL109763.2,intron_variant,,ENST00000414582,;"	"TGAAATACCTTGTA"	"ENSG00000230233"	"ENST00000416002"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/879"	""	""	""	""	""	"1"	NA	1	"AF240627.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAATGAAATACCTTGT"	"d6c0c7da-fdd6-11e5-aaec-c2e5414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0618556701030928	"WGS"	FALSE
"8071"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	25181030	25181031	"+"	"IGR"	"INS"	"-"	"-"	"TTTTT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"."	5	52	"."	0	""	"TTTTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"da27f41a-fdd7-11e5-aaec-c2e5414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0485436893203883	"WGS"	FALSE
"8072"	"AP000362.1"	0	"mskcc.org"	"GRCh37"	"22"	23333498	23333521	"+"	"Intron"	"DEL"	"AGAGAGGGAGAGAGGGAGAGAGGG"	"AGAGAGGGAGAGAGGGAGAGAGGG"	"-"	"novel"	NA	"284"	"W0006060F"	"AGAGAGGGAGAGAGGGAGAGAGGG"	"AGAGAGGGAGAGAGGGAGAGAGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.88+614_88+637delAGGGAGAGAGGGAGAGAGGGAGAG"	""	""	"ENST00000420944"	""	50	"."	6	26	"."	0	"AP000362.1,intron_variant,,ENST00000420944,;AP000361.2,downstream_gene_variant,,ENST00000415639,;"	"-"	"ENSG00000223679"	"ENST00000420944"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/258"	""	""	""	""	""	"1"	NA	1	"AP000362.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"68"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGAGAGGGAGAGAGGGAGAGAGGGA"	"32f4774c-fdd5-11e5-92f3-c4e5414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.12	"WGS"	FALSE
"8073"	"ITPR1"	3708	"mskcc.org"	"GRCh37"	"3"	4563327	4563327	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.163+550delA"	""	""	"ENST00000302640"	""	106	"."	28	58	"."	0	"ITPR1,intron_variant,,ENST00000302640,NM_001168272.1;ITPR1,intron_variant,,ENST00000354582,;ITPR1,intron_variant,,ENST00000423119,NM_001099952.2;ITPR1,intron_variant,,ENST00000357086,;ITPR1,intron_variant,,ENST00000456211,NM_002222.5;ITPR1,intron_variant,,ENST00000443694,;ITPR1,intron_variant,,ENST00000544951,;ITPR1,intron_variant,,ENST00000467056,;"	"-"	"ENSG00000150995"	"ENST00000302640"	"Transcript"	"intron_variant"	"-/10197"	"-/8232"	"-/2743"	""	""	""	"1"	NA	1	"ITPR1"	"HGNC"	6180	"protein_coding"	"YES"	"CCDS54551.1"	"ENSP00000306253"	"Q14643"	""	"UPI0000E5A461"	"NM_001168272.1"	NA	NA	""	"4/60"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGAA"	"ff0ef132-fdd4-11e5-a913-cf02424a729f"	"1680"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.264150943396226	"WGS"	FALSE
"8074"	"PPARG"	5468	"mskcc.org"	"GRCh37"	"3"	12395906	12395906	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.82+2734delC"	""	""	"ENST00000287820"	""	111	"."	13	57	"."	0	"PPARG,intron_variant,,ENST00000397026,;PPARG,intron_variant,,ENST00000397010,;PPARG,intron_variant,,ENST00000397012,NM_138711.3;PPARG,intron_variant,,ENST00000309576,NM_138712.3;PPARG,intron_variant,,ENST00000287820,NM_015869.4;PPARG,intron_variant,,ENST00000397015,NM_005037.5;PPARG,intron_variant,,ENST00000397000,;PPARG,intron_variant,,ENST00000539812,;PPARG,intron_variant,,ENST00000397029,;PPARG,intron_variant,,ENST00000438682,;PPARG,intron_variant,,ENST00000455517,;PPARG,intron_variant,,ENST00000397023,;PPARG,intron_variant,,ENST00000477039,;PPARG,intron_variant,,ENST00000497594,;"	"-"	"ENSG00000132170"	"ENST00000287820"	"Transcript"	"intron_variant"	"-/1850"	"-/1518"	"-/505"	""	""	""	"1"	NA	1	"PPARG"	"HGNC"	9236	"protein_coding"	"YES"	"CCDS2609.1"	"ENSP00000287820"	"P37231"	"Q9UEF6,Q6L9M1,E9PFJ1,E7EUD1,E7EU07,D2KUA6"	"UPI0000055911"	"NM_015869.4"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGCC"	"2b2e7b66-fdd5-11e5-a913-cf02424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.117117117117117	"WGS"	TRUE
"8075"	"KCNH8"	131096	"mskcc.org"	"GRCh37"	"3"	19513111	19513111	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2040+14638delA"	""	""	"ENST00000328405"	""	94	"."	20	59	"."	0	"KCNH8,intron_variant,,ENST00000328405,NM_144633.2;KCNH8,intron_variant,,ENST00000452398,;"	"-"	"ENSG00000183960"	"ENST00000328405"	"Transcript"	"intron_variant"	"-/5137"	"-/3324"	"-/1107"	""	""	""	"1"	NA	1	"KCNH8"	"HGNC"	18864	"protein_coding"	"YES"	"CCDS2632.1"	"ENSP00000328813"	"Q96L42"	""	"UPI0000167D12"	"NM_144633.2"	NA	NA	""	"11/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"4b3baab4-fdd5-11e5-a913-cf02424a729f"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.212765957446809	"WGS"	FALSE
"8076"	"CMTM7"	112616	"mskcc.org"	"GRCh37"	"3"	32457854	32457860	"+"	"Intron"	"DEL"	"TTTTTTT"	"TTTTTTT"	"-"	"novel"	NA	"284"	"W0006060F"	"TTTTTTT"	"TTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.159+24326_159+24332delTTTTTTT"	""	""	"ENST00000334983"	""	68	"."	7	43	"."	0	"CMTM7,intron_variant,,ENST00000334983,NM_138410.2;CMTM7,intron_variant,,ENST00000349718,NM_181472.1;CMTM7,intron_variant,,ENST00000465248,;CMTM7,intron_variant,,ENST00000454304,;"	"-"	"ENSG00000153551"	"ENST00000334983"	"Transcript"	"intron_variant"	"-/2038"	"-/528"	"-/175"	""	""	""	"1"	NA	1	"CMTM7"	"HGNC"	19178	"protein_coding"	"YES"	"CCDS33730.1"	"ENSP00000335605"	"Q96FZ5"	""	"UPI00000343F1"	"NM_138410.2"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"29"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATTTTTTTT"	"abbd7f02-fdd5-11e5-a913-cf02424a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.102941176470588	"WGS"	FALSE
"8077"	"CNOT10"	25904	"mskcc.org"	"GRCh37"	"3"	32728946	32728947	"+"	"Intron"	"INS"	"-"	"-"	"TTTGTTTTTTTG"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.22+1975_22+1976insGTTTTTTTGTTT"	""	""	"ENST00000328834"	""	96	"."	8	39	"."	0	"CNOT10,intron_variant,,ENST00000328834,NM_015442.2;CNOT10,intron_variant,,ENST00000331889,NM_001256741.1;CNOT10,intron_variant,,ENST00000538368,;CNOT10,intron_variant,,ENST00000494439,;CNOT10,intron_variant,,ENST00000556853,;CNOT10,intron_variant,,ENST00000435630,;"	"TTTGTTTTTTTG"	"ENSG00000182973"	"ENST00000328834"	"Transcript"	"intron_variant"	"-/2815"	"-/2235"	"-/744"	""	""	""	"1"	NA	1	"CNOT10"	"HGNC"	23817	"protein_coding"	""	"CCDS2655.1"	"ENSP00000330060"	"Q9H9A5"	"B7Z5B3"	"UPI000006DA16"	"NM_015442.2"	NA	NA	""	"1/18"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7f65d392-fdd9-11e5-a913-cf02424a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0833333333333333	"WGS"	FALSE
"8078"	"PTPRG"	5793	"mskcc.org"	"GRCh37"	"3"	61836966	61836969	"+"	"Intron"	"DEL"	"CTGT"	"CTGT"	"-"	"novel"	NA	"284"	"W0006060F"	"CTGT"	"CTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.190+102314_190+102317delCTGT"	""	""	"ENST00000474889"	""	80	"."	22	62	"."	0	"PTPRG,intron_variant,,ENST00000474889,NM_002841.3;PTPRG,intron_variant,,ENST00000295874,;"	"-"	"ENSG00000144724"	"ENST00000474889"	"Transcript"	"intron_variant"	"-/9021"	"-/4338"	"-/1445"	""	""	""	"1"	NA	1	"PTPRG"	"HGNC"	9671	"protein_coding"	"YES"	"CCDS2895.1"	"ENSP00000418112"	"P23470"	"O60420"	"UPI00001AEBFB"	"NM_002841.3"	NA	NA	""	"2/29"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACTGTC"	"36e6c070-fdd6-11e5-a913-cf02424a729f"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.275	"WGS"	FALSE
"8079"	"CADPS"	8618	"mskcc.org"	"GRCh37"	"3"	62416714	62416730	"+"	"Intron"	"DEL"	"CTTCATAATTGAGGATA"	"CTTCATAATTGAGGATA"	"ATGTCAC"	"novel"	NA	"284"	"W0006060F"	"CTTCATAATTGAGGATA"	"CTTCATAATTGAGGATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3777+7049_3777+7065delTATCCTCAATTATGAAGinsGTGACAT"	""	""	"ENST00000383710"	""	83	"."	24	52	"."	0	"CADPS,intron_variant,,ENST00000383710,NM_003716.3;CADPS,intron_variant,,ENST00000357948,NM_183393.2;CADPS,intron_variant,,ENST00000283269,NM_183394.2;CADPS,intron_variant,,ENST00000473635,;CADPS,intron_variant,,ENST00000466621,;CADPS,intron_variant,,ENST00000474560,;"	"ATGTCAC"	"ENSG00000163618"	"ENST00000383710"	"Transcript"	"intron_variant"	"-/5471"	"-/4062"	"-/1353"	""	""	""	"1"	NA	-1	"CADPS"	"HGNC"	1426	"protein_coding"	"YES"	"CCDS46858.1"	"ENSP00000373215"	"Q9ULU8"	""	"UPI00001C036A"	"NM_003716.3"	NA	NA	""	"28/29"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCTTCATAATTGAGGATAG"	"b3b7d308-fdd8-11e5-a913-cf02424a729f"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.289156626506024	"WGS"	FALSE
"8080"	"MAGI1"	9223	"mskcc.org"	"GRCh37"	"3"	65705088	65705088	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.314-97325delA"	""	""	"ENST00000402939"	""	116	"."	26	78	"."	0	"MAGI1,intron_variant,,ENST00000330909,NM_015520.1;MAGI1,intron_variant,,ENST00000483466,NM_004742.2;MAGI1,intron_variant,,ENST00000402939,NM_001033057.1;MAGI1,intron_variant,,ENST00000497477,;MAGI1,intron_variant,,ENST00000470990,;MAGI1,intron_variant,,ENST00000464060,;"	"-"	"ENSG00000151276"	"ENST00000402939"	"Transcript"	"intron_variant"	"-/4389"	"-/4389"	"-/1462"	""	""	""	"1"	NA	-1	"MAGI1"	"HGNC"	946	"protein_coding"	"YES"	"CCDS33780.1"	"ENSP00000385450"	"Q96QZ7"	""	"UPI0000457132"	"NM_001033057.1"	NA	NA	""	"1/22"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATT"	"4644cc9c-fdd6-11e5-a913-cf02424a729f"	"1560"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.224137931034483	"WGS"	FALSE
"8081"	"MAGI1"	9223	"mskcc.org"	"GRCh37"	"3"	65834677	65834684	"+"	"Intron"	"DEL"	"TTTTTTTT"	"TTTTTTTT"	"-"	"novel"	NA	"284"	"W0006060F"	"TTTTTTTT"	"TTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.313+188987_313+188994delAAAAAAAA"	""	""	"ENST00000402939"	""	91	"."	5	56	"."	0	"MAGI1,intron_variant,,ENST00000330909,NM_015520.1;MAGI1,intron_variant,,ENST00000483466,NM_004742.2;MAGI1,intron_variant,,ENST00000402939,NM_001033057.1;MAGI1,intron_variant,,ENST00000497477,;MAGI1,intron_variant,,ENST00000470990,;MAGI1,intron_variant,,ENST00000464060,;RPL17P17,downstream_gene_variant,,ENST00000419491,;"	"-"	"ENSG00000151276"	"ENST00000402939"	"Transcript"	"intron_variant"	"-/4389"	"-/4389"	"-/1462"	""	""	""	"1"	NA	-1	"MAGI1"	"HGNC"	946	"protein_coding"	"YES"	"CCDS33780.1"	"ENSP00000385450"	"Q96QZ7"	""	"UPI0000457132"	"NM_001033057.1"	NA	NA	""	"1/22"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTTTTTTT"	"4773924c-fdd6-11e5-a913-cf02424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0549450549450549	"WGS"	FALSE
"8082"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	74724609	74724609	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	13	49	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTG"	"6e53c6fc-fdd6-11e5-a913-cf02424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.141304347826087	"WGS"	FALSE
"8083"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	78043588	78043588	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"."	6	60	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGA"	"7bed70c4-fdd6-11e5-a913-cf02424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0689655172413793	"WGS"	FALSE
"8084"	"LSAMP"	4045	"mskcc.org"	"GRCh37"	"3"	115631837	115631838	"+"	"Intron"	"INS"	"-"	"-"	"TGTTTTTCTAGAAGTATAGGGACAAATATGTGTATTCCATC"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.515-60414_515-60374dupGATGGAATACACATATTTGTCCCTATACTTCTAGAAAAACA"	""	""	"ENST00000490035"	""	125	"."	11	87	"."	0	"LSAMP,intron_variant,,ENST00000490035,NM_002338.3;LSAMP,intron_variant,,ENST00000333617,;LSAMP,intron_variant,,ENST00000539563,;LSAMP,intron_variant,,ENST00000498645,;"	"TGTTTTTCTAGAAGTATAGGGACAAATATGTGTATTCCATC"	"ENSG00000185565"	"ENST00000490035"	"Transcript"	"intron_variant"	"-/9446"	"-/1017"	"-/338"	""	""	""	"1"	NA	-1	"LSAMP"	"HGNC"	6705	"protein_coding"	"YES"	"CCDS2982.1"	"ENSP00000419000"	"Q13449"	""	"UPI00000746A0"	"NM_002338.3"	NA	NA	""	"3/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c13dc8f0-fdda-11e5-a913-cf02424a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.088	"WGS"	FALSE
"8085"	"GSK3B"	2932	"mskcc.org"	"GRCh37"	"3"	119588070	119588071	"+"	"Intron"	"INS"	"-"	"-"	"AAAAA"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.910-2600_910-2596dupTTTTT"	""	""	"ENST00000316626"	""	122	"."	9	48	"."	0	"GSK3B,intron_variant,,ENST00000264235,NM_001146156.1,NM_002093.3;GSK3B,intron_variant,,ENST00000316626,;GSK3B,intron_variant,,ENST00000473886,;"	"AAAAA"	"ENSG00000082701"	"ENST00000316626"	"Transcript"	"intron_variant"	"-/1636"	"-/1302"	"-/433"	""	""	""	"1"	NA	-1	"GSK3B"	"HGNC"	4617	"protein_coding"	"YES"	"CCDS2996.1"	"ENSP00000324806"	"P49841"	""	"UPI000002ACBB"	""	NA	NA	""	"8/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"d1ef0a7e-fdda-11e5-a913-cf02424a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0737704918032787	"WGS"	FALSE
"8086"	"ADCY5"	111	"mskcc.org"	"GRCh37"	"3"	123019986	123019994	"+"	"Intron"	"DEL"	"AGATGACGT"	"AGATGACGT"	"TAA"	"rs386665327"	NA	"284"	"W0006060F"	"AGATGACGT"	"AGATGACGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2725-852_2725-844delACGTCATCTinsTTA"	""	""	"ENST00000462833"	""	102	"."	12	44	"."	0	"ADCY5,intron_variant,,ENST00000462833,NM_183357.2;ADCY5,intron_variant,,ENST00000491190,;ADCY5,intron_variant,,ENST00000309879,NM_001199642.1;ADCY5,intron_variant,,ENST00000466617,;ADCY5,intron_variant,,ENST00000468683,;ADCY5,intron_variant,,ENST00000474577,;"	"TAA"	"ENSG00000173175"	"ENST00000462833"	"Transcript"	"intron_variant"	"-/7311"	"-/3786"	"-/1261"	""	""	"rs386665327"	"1"	NA	-1	"ADCY5"	"HGNC"	236	"protein_coding"	"YES"	"CCDS3022.1"	"ENSP00000419361"	"O95622"	"C9JRT8,C9JQ38,B7Z801,B7Z2C7"	"UPI000015E262"	"NM_183357.2"	NA	NA	""	"14/20"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCAGATGACGTC"	"c4024874-fdd8-11e5-a913-cf02424a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.117647058823529	"WGS"	FALSE
"8087"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	128925826	128925910	"+"	"IGR"	"DEL"	"TATATATATATATATATATATATATATACACACACACATACATATACATATATATACGTATATATATATATGTGTGTGTGTGTGT"	"TATATATATATATATATATATATATATACACACACACATACATATACATATATATACGTATATATATATATGTGTGTGTGTGTGT"	"AAAATATATA"	"novel"	NA	"284"	"W0006060F"	"TATATATATATATATATATATATATATACACACACACATACATATACATATATATACGTATATATATATATGTGTGTGTGTGTGT"	"TATATATATATATATATATATATATATACACACACACATACATATACATATATATACGTATATATATATATGTGTGTGTGTGTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	43	"."	9	16	"."	0	""	"AAAATATATA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAATATATATATATATATATATATATATATACACACACACATACATATACATATATATACGTATATATATATATGTGTGTGTGTGTGTG"	"c68ef952-fdd8-11e5-a913-cf02424a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.209302325581395	"WGS"	FALSE
"8088"	"RP11-657O9.1"	0	"mskcc.org"	"GRCh37"	"3"	135116140	135116152	"+"	"Intron"	"DEL"	"TGATGCCTCCAGC"	"TGATGCCTCCAGC"	"-"	"novel"	NA	"284"	"W0006060F"	"TGATGCCTCCAGC"	"TGATGCCTCCAGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.68-17463_68-17451delGCTGGAGGCATCA"	""	""	"ENST00000459861"	""	126	"."	30	56	"."	0	"RP11-657O9.1,intron_variant,,ENST00000459861,;RP11-657O9.1,intron_variant,,ENST00000466206,;RP11-657O9.1,intron_variant,,ENST00000473001,;"	"-"	"ENSG00000240086"	"ENST00000459861"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/827"	""	""	""	""	""	"1"	NA	-1	"RP11-657O9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATGATGCCTCCAGCT"	"58236b2a-fdd7-11e5-a913-cf02424a729f"	"1520"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.238095238095238	"WGS"	FALSE
"8089"	"STAG1"	10274	"mskcc.org"	"GRCh37"	"3"	136288050	136288051	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"novel"	NA	"284"	"W0006060F"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.298-348_298-347delGA"	""	""	"ENST00000383202"	""	109	"."	21	46	"."	0	"STAG1,intron_variant,,ENST00000383202,NM_005862.2;STAG1,intron_variant,,ENST00000236698,;STAG1,intron_variant,,ENST00000434713,;STAG1,intron_variant,,ENST00000480733,;STAG1,intron_variant,,ENST00000483235,;STAG1,intron_variant,,ENST00000487065,;STAG1,intron_variant,,ENST00000462818,;"	"-"	"ENSG00000118007"	"ENST00000383202"	"Transcript"	"intron_variant"	"-/6053"	"-/3777"	"-/1258"	""	""	""	"1"	NA	-1	"STAG1"	"HGNC"	11354	"protein_coding"	"YES"	"CCDS3090.1"	"ENSP00000372689"	"Q8WVM7"	"Q4LE48"	"UPI000020A2DE"	"NM_005862.2"	NA	NA	""	"4/33"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCT"	"5c280bc2-fdd7-11e5-a913-cf02424a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.192660550458716	"WGS"	FALSE
"8090"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	136980681	136980681	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"."	22	55	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"5f757058-fdd7-11e5-a913-cf02424a729f"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.203703703703704	"WGS"	FALSE
"8091"	"WWTR1"	25937	"mskcc.org"	"GRCh37"	"3"	149274848	149274849	"+"	"Intron"	"INS"	"-"	"-"	"TTTTT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.569-14529_569-14525dupAAAAA"	""	""	"ENST00000360632"	""	90	"."	5	60	"."	0	"WWTR1,intron_variant,,ENST00000465804,NM_001168278.1;WWTR1,intron_variant,,ENST00000360632,NM_015472.4;WWTR1,intron_variant,,ENST00000467467,NM_001168280.1;WWTR1,intron_variant,,ENST00000472417,;"	"TTTTT"	"ENSG00000018408"	"ENST00000360632"	"Transcript"	"intron_variant"	"-/2103"	"-/1203"	"-/400"	""	""	""	"1"	NA	-1	"WWTR1"	"HGNC"	24042	"protein_coding"	""	"CCDS3144.1"	"ENSP00000353847"	"Q9GZV5"	"C9JR84,C9JQS8,C9J588,C9J038"	"UPI000006D122"	"NM_015472.4"	NA	NA	""	"3/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"4b1bf416-fddb-11e5-a913-cf02424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0555555555555556	"WGS"	TRUE
"8092"	"ENSR00001378420"	0	"mskcc.org"	"GRCh37"	"3"	163261935	163261935	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs780649006"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001378420"	""	93	"."	19	50	"."	0	""	"-"	""	"ENSR00001378420"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs780649006"	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"db5f2b50-fdd7-11e5-a913-cf02424a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.204301075268817	"WGS"	FALSE
"8093"	"MAP3K13"	9175	"mskcc.org"	"GRCh37"	"3"	185113145	185113146	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTTTT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-86+31998_-86+32008dupTTTTTTTTTTT"	""	""	"ENST00000265026"	""	93	"."	6	50	"."	0	"MAP3K13,intron_variant,,ENST00000265026,NM_004721.4;MAP3K13,intron_variant,,ENST00000424227,NM_001242314.1;MAP3K13,intron_variant,,ENST00000443863,;MAP3K13,intron_variant,,ENST00000535426,;MAP3K13,intron_variant,,ENST00000446828,NM_001242317.1;MAP3K13,intron_variant,,ENST00000447637,;MAP3K13,intron_variant,,ENST00000428617,;MAP3K13,intron_variant,,ENST00000438053,;MAP3K13,intron_variant,,ENST00000433092,;"	"TTTTTTTTTTT"	"ENSG00000073803"	"ENST00000265026"	"Transcript"	"intron_variant"	"-/9876"	"-/2901"	"-/966"	""	""	""	"1"	NA	1	"MAP3K13"	"HGNC"	6852	"protein_coding"	"YES"	"CCDS3270.1"	"ENSP00000265026"	"O43283"	"C9JP65,C9J4W2"	"UPI000006CF91"	"NM_004721.4"	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"19"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"24f2a400-fddc-11e5-a913-cf02424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0645161290322581	"WGS"	TRUE
"8094"	"LPP"	4026	"mskcc.org"	"GRCh37"	"3"	188024530	188024530	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10+81215delT"	""	""	"ENST00000312675"	""	100	"."	22	59	"."	0	"LPP,intron_variant,,ENST00000312675,NM_005578.3,NM_001167672.1;LPP,intron_variant,,ENST00000543006,NM_001167671.1,NM_001167672.1;LPP,intron_variant,,ENST00000448637,;LPP,intron_variant,,ENST00000416784,;LPP,intron_variant,,ENST00000420410,;LPP,intron_variant,,ENST00000430340,;LPP,intron_variant,,ENST00000414139,;LPP,intron_variant,,ENST00000457242,;LPP,intron_variant,,ENST00000443217,;LPP,intron_variant,,ENST00000426274,;LPP,intron_variant,,ENST00000454789,;"	"-"	"ENSG00000145012"	"ENST00000312675"	"Transcript"	"intron_variant"	"-/18278"	"-/1839"	"-/612"	""	""	""	"1"	NA	1	"LPP"	"HGNC"	6679	"protein_coding"	"YES"	"CCDS3291.1"	"ENSP00000318089"	"Q93052"	"C9JT42,C9JIY7,C9JE51,C9J5C8,C9J4E3,C9J3U9,C9J2R5,C9J1K7,B7Z871"	"UPI000002E034"	"NM_005578.3,NM_001167672.1"	NA	NA	""	"2/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTA"	"5d082a12-fdd8-11e5-a913-cf02424a729f"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.22	"WGS"	TRUE
"8095"	"UVSSA"	57654	"mskcc.org"	"GRCh37"	"4"	1363901	1363912	"+"	"Intron"	"DEL"	"TAATGGTTTAAA"	"TAATGGTTTAAA"	"GTTCAT"	"novel"	NA	"284"	"W0006060F"	"TAATGGTTTAAA"	"TAATGGTTTAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1288+3682_1288+3693delTAATGGTTTAAAinsGTTCAT"	""	""	"ENST00000389851"	""	81	"."	14	53	"."	0	"UVSSA,intron_variant,,ENST00000389851,NM_020894.2;UVSSA,intron_variant,,ENST00000511216,;UVSSA,intron_variant,,ENST00000507531,;UVSSA,intron_variant,,ENST00000511563,;UVSSA,upstream_gene_variant,,ENST00000512728,;"	"GTTCAT"	"ENSG00000163945"	"ENST00000389851"	"Transcript"	"intron_variant"	"-/4560"	"-/2130"	"-/709"	""	""	""	"1"	NA	1	"UVSSA"	"HGNC"	29304	"protein_coding"	"YES"	"CCDS33938.1"	"ENSP00000374501"	"Q2YD98"	""	"UPI00001C1E0C"	"NM_020894.2"	NA	NA	""	"8/13"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTTAATGGTTTAAAA"	"8d1ec2be-fdd9-11e5-a740-d102424a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.172839506172839	"WGS"	FALSE
"8096"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	3289454	3289458	"+"	"IGR"	"DEL"	"ATTTA"	"ATTTA"	"-"	"novel"	NA	"284"	"W0006060F"	"ATTTA"	"ATTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"."	19	65	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCATTTAA"	"fd20a3c0-fdd4-11e5-a740-d102424a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.197916666666667	"WGS"	FALSE
"8097"	"EVC2"	132884	"mskcc.org"	"GRCh37"	"4"	5709671	5709671	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.228+342delC"	""	""	"ENST00000344408"	""	95	"."	12	34	"."	0	"EVC2,intron_variant,,ENST00000310917,NM_001166136.1;EVC2,intron_variant,,ENST00000344408,NM_147127.4;EVC2,intron_variant,,ENST00000344938,;EVC,upstream_gene_variant,,ENST00000382674,;EVC,upstream_gene_variant,,ENST00000264956,NM_153717.2;EVC,upstream_gene_variant,,ENST00000509451,;EVC2,intron_variant,,ENST00000475313,;EVC2,intron_variant,,ENST00000509670,;"	"-"	"ENSG00000173040"	"ENST00000344408"	"Transcript"	"intron_variant"	"-/4390"	"-/3927"	"-/1308"	""	""	""	"1"	NA	-1	"EVC2"	"HGNC"	19747	"protein_coding"	"YES"	"CCDS3382.2"	"ENSP00000342144"	"Q86UK5"	"Q4W5B1,Q4W5A4"	"UPI00001910B5"	"NM_147127.4"	NA	NA	""	"1/21"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTGG"	"0c36a45e-fdd5-11e5-a740-d102424a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.126315789473684	"WGS"	FALSE
"8098"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	17248489	17248489	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"."	23	52	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"628fc466-fdd5-11e5-a740-d102424a729f"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.23	"WGS"	FALSE
"8099"	"KCNIP4"	80333	"mskcc.org"	"GRCh37"	"4"	21235859	21235860	"+"	"Intron"	"INS"	"-"	"-"	"ATATTATATATAACATATATTATATATAAC"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.62-351528_62-351527insGTTATATATAATATATGTTATATATAATAT"	""	""	"ENST00000382152"	""	68	"."	5	31	"."	0	"KCNIP4,intron_variant,,ENST00000382148,NM_001035003.1;KCNIP4,intron_variant,,ENST00000382152,NM_025221.5;KCNIP4,intron_variant,,ENST00000382150,NM_147183.3;KCNIP4,intron_variant,,ENST00000447367,NM_147182.3,NM_147181.3;KCNIP4,intron_variant,,ENST00000509207,NM_001035004.1;KCNIP4,intron_variant,,ENST00000515786,;"	"ATATTATATATAACATATATTATATATAAC"	"ENSG00000185774"	"ENST00000382152"	"Transcript"	"intron_variant"	"-/1767"	"-/753"	"-/250"	""	""	""	"1"	NA	-1	"KCNIP4"	"HGNC"	30083	"protein_coding"	"YES"	"CCDS43216.1"	"ENSP00000371587"	"Q6PIL6"	""	"UPI000004A274"	"NM_025221.5"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"648f077c-fdda-11e5-a740-d102424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0735294117647059	"WGS"	FALSE
"8100"	"GBA3"	57733	"mskcc.org"	"GRCh37"	"4"	22787187	22787188	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTG"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1208-33153_1208-33148dupTTGTTT"	""	""	"ENST00000508166"	""	90	"."	6	65	"."	0	"GBA3,intron_variant,,ENST00000508264,;GBA3,intron_variant,,ENST00000508166,NM_020973.4;GBA3,intron_variant,,ENST00000511446,NM_001277225.1;GBA3,intron_variant,,ENST00000503442,NM_001128432.2;"	"TTTTTG"	"ENSG00000249948"	"ENST00000508166"	"Transcript"	"intron_variant"	"-/2164"	"-/1410"	"-/469"	""	""	""	"1"	NA	1	"GBA3"	"HGNC"	19069	"polymorphic_pseudogene"	"YES"	""	"ENSP00000427458"	""	""	""	"NM_020973.4"	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"6bf9fabc-fdda-11e5-a740-d102424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0666666666666667	"WGS"	FALSE
"8101"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	23994424	23994425	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"."	26	65	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"71e18c92-fdda-11e5-a740-d102424a729f"	"1560"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.204724409448819	"WGS"	FALSE
"8102"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	30477743	30477744	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	132	"."	26	62	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"974e3002-fdda-11e5-a740-d102424a729f"	"1560"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.196969696969697	"WGS"	FALSE
"8103"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	56627775	56627776	"+"	"IGR"	"INS"	"-"	"-"	"ACACATATATATGCACACACATATAC"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	142	"."	7	85	"."	0	""	"ACACATATATATGCACACACATATAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"1c0d7b86-fddb-11e5-a740-d102424a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0492957746478873	"WGS"	FALSE
"8104"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	60100706	60100713	"+"	"IGR"	"DEL"	"TAGTCTCA"	"TAGTCTCA"	"CATTACC"	"novel"	NA	"284"	"W0006060F"	"TAGTCTCA"	"TAGTCTCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"."	35	60	"."	0	""	"CATTACC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTAGTCTCAT"	"b64086d2-fdd9-11e5-a740-d102424a729f"	"2100"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.291666666666667	"WGS"	FALSE
"8105"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	61506952	61506973	"+"	"IGR"	"DEL"	"AAGACTGGCATTCTACAAACAC"	"AAGACTGGCATTCTACAAACAC"	"TTTGAACTAGAA"	"novel"	NA	"284"	"W0006060F"	"AAGACTGGCATTCTACAAACAC"	"AAGACTGGCATTCTACAAACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"."	9	53	"."	0	""	"TTTGAACTAGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTAAGACTGGCATTCTACAAACACT"	"b7187fe2-fdd9-11e5-a740-d102424a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.128571428571429	"WGS"	FALSE
"8106"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	61506952	61506973	"+"	"IGR"	"DEL"	"AAGACTGGCATTCTACAAACAC"	"AAGACTGGCATTCTACAAACAC"	"TTTGAACTAGAA"	"novel"	NA	"284"	"W0006060F"	"AAGACTGGCATTCTACAAACAC"	"AAGACTGGCATTCTACAAACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"."	13	53	"."	0	""	"TTTGAACTAGAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTAAGACTGGCATTCTACAAACACT"	"b71f8fd0-fdd9-11e5-a740-d102424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.191176470588235	"WGS"	FALSE
"8107"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	63671643	63671647	"+"	"IGR"	"DEL"	"TGAAG"	"TGAAG"	"GAAA"	"novel"	NA	"284"	"W0006060F"	"TGAAG"	"TGAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"."	8	62	"."	0	""	"GAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGAAGC"	"b7b6aef6-fdd9-11e5-a740-d102424a729f"	"451"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0860215053763441	"WGS"	FALSE
"8108"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	64173482	64173483	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs761548773"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"."	19	61	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs761548773"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"4561bf2e-fddb-11e5-a740-d102424a729f"	"1104"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.174311926605505	"WGS"	FALSE
"8109"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	66757843	66757846	"+"	"IGR"	"DEL"	"TTTG"	"TTTG"	"-"	"rs776962637"	NA	"284"	"W0006060F"	"TTTG"	"TTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"."	13	72	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs776962637"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTGT"	"cf99fb20-fdd6-11e5-a740-d102424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.135416666666667	"WGS"	FALSE
"8110"	"RP13-644M16.3"	0	"mskcc.org"	"GRCh37"	"4"	70005035	70005063	"+"	"3'Flank"	"DEL"	"TAGGTTGAGGCTGAAGTGAGCTGTGATCA"	"TAGGTTGAGGCTGAAGTGAGCTGTGATCA"	"CTCAAGTGT"	"novel"	NA	"284"	"W0006060F"	"TAGGTTGAGGCTGAAGTGAGCTGTGATCA"	"TAGGTTGAGGCTGAAGTGAGCTGTGATCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000508057"	""	96	"."	37	59	"."	0	"RP13-644M16.3,downstream_gene_variant,,ENST00000508057,;"	"CTCAAGTGT"	"ENSG00000250100"	"ENST00000508057"	"Transcript"	"downstream_gene_variant"	"-/576"	""	""	""	""	""	"1"	"4503"	1	"RP13-644M16.3"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGTAGGTTGAGGCTGAAGTGAGCTGTGATCAC"	"bb141bb0-fdd9-11e5-a740-d102424a729f"	"2220"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.385416666666667	"WGS"	FALSE
"8111"	"PRKG2"	5593	"mskcc.org"	"GRCh37"	"4"	82059811	82059968	"+"	"Intron"	"DEL"	"CCTGGTGTATGTTAATTTCTCAATAAATGTTGTCATTAATATTTATTCTTCATATTATTGCCTGACTACATGCCAGGCACTTTGGAAAGAGTTGAAAATAAGACAATGAATGCAATCTAATCCATGCCCTGAAGCTGCTCATCATAGCTTGTTAACAA"	"CCTGGTGTATGTTAATTTCTCAATAAATGTTGTCATTAATATTTATTCTTCATATTATTGCCTGACTACATGCCAGGCACTTTGGAAAGAGTTGAAAATAAGACAATGAATGCAATCTAATCCATGCCCTGAAGCTGCTCATCATAGCTTGTTAACAA"	"TTTTAATC"	"novel"	NA	"284"	"W0006060F"	"CCTGGTGTATGTTAATTTCTCAATAAATGTTGTCATTAATATTTATTCTTCATATTATTGCCTGACTACATGCCAGGCACTTTGGAAAGAGTTGAAAATAAGACAATGAATGCAATCTAATCCATGCCCTGAAGCTGCTCATCATAGCTTGTTAACAA"	"CCTGGTGTATGTTAATTTCTCAATAAATGTTGTCATTAATATTTATTCTTCATATTATTGCCTGACTACATGCCAGGCACTTTGGAAAGAGTTGAAAATAAGACAATGAATGCAATCTAATCCATGCCCTGAAGCTGCTCATCATAGCTTGTTAACAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1545-1332_1545-1175delTTGTTAACAAGCTATGATGAGCAGCTTCAGGGCATGGATTAGATTGCATTCATTGTCTTATTTTCAACTCTTTCCAAAGTGCCTGGCATGTAGTCAGGCAATAATATGAAGAATAAATATTAATGACAACATTTATTGAGAAATTAACATACACCAGGinsGATTAAAA"	""	""	"ENST00000395578"	""	90	"."	16	44	"."	0	"PRKG2,intron_variant,,ENST00000395578,;PRKG2,intron_variant,,ENST00000264399,NM_006259.1;PRKG2,intron_variant,,ENST00000418486,NM_001282485.1;PRKG2,intron_variant,,ENST00000545647,;PRKG2,intron_variant,,ENST00000509169,;PRKG2,intron_variant,,ENST00000509474,;PRKG2,downstream_gene_variant,,ENST00000456882,;"	"TTTTAATC"	"ENSG00000138669"	"ENST00000395578"	"Transcript"	"intron_variant"	"-/3431"	"-/2289"	"-/762"	""	""	""	"1"	NA	-1	"PRKG2"	"HGNC"	9416	"protein_coding"	"YES"	"CCDS3589.1"	"ENSP00000378945"	"Q13237"	"B7ZA25"	"UPI000012DDC6"	""	NA	NA	""	"12/18"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACCTGGTGTATGTTAATTTCTCAATAAATGTTGTCATTAATATTTATTCTTCATATTATTGCCTGACTACATGCCAGGCACTTTGGAAAGAGTTGAAAATAAGACAATGAATGCAATCTAATCCATGCCCTGAAGCTGCTCATCATAGCTTGTTAACAAA"	"c0849944-fdd9-11e5-a740-d102424a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.177777777777778	"WGS"	FALSE
"8112"	"GRID2"	2895	"mskcc.org"	"GRCh37"	"4"	94128288	94128289	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"novel"	NA	"284"	"W0006060F"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.736-266_736-265delAT"	""	""	"ENST00000282020"	""	100	"."	15	65	"."	0	"GRID2,intron_variant,,ENST00000282020,NM_001510.2;GRID2,intron_variant,,ENST00000510992,NM_001286838.1;GRID2,intron_variant,,ENST00000512631,;GRID2,intron_variant,,ENST00000505687,;"	"-"	"ENSG00000152208"	"ENST00000282020"	"Transcript"	"intron_variant"	"-/5340"	"-/3024"	"-/1007"	""	""	""	"1"	NA	1	"GRID2"	"HGNC"	4576	"protein_coding"	"YES"	"CCDS3637.1"	"ENSP00000282020"	"O43424"	"Q4W5S4,Q4W5L9,Q4W5F4,Q4W5B7,D6R976"	"UPI00001AEA78"	"NM_001510.2"	NA	NA	""	"4/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGTAT"	"6362d8f4-fdd7-11e5-a740-d102424a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.15	"WGS"	FALSE
"8113"	"RP11-556I14.2"	0	"mskcc.org"	"GRCh37"	"4"	105870536	105870536	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.248+16641delC"	""	""	"ENST00000515127"	""	89	"."	21	69	"."	0	"RP11-556I14.2,intron_variant,,ENST00000515127,;RP11-556I14.1,intron_variant,,ENST00000506148,;RP11-556I14.1,intron_variant,,ENST00000515649,;"	"-"	"ENSG00000248242"	"ENST00000515127"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/575"	""	""	""	""	""	"1"	NA	-1	"RP11-556I14.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGA"	"a1a99120-fdd7-11e5-a740-d102424a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.235955056179775	"WGS"	FALSE
"8114"	"TET2"	54790	"mskcc.org"	"GRCh37"	"4"	106205241	106205282	"+"	"3'Flank"	"DEL"	"ATATATATATACGTATATATATATATGTATATATATATACAC"	"ATATATATATACGTATATATATATATGTATATATATATACAC"	"-"	"novel"	NA	"284"	"W0006060F"	"ATATATATATACGTATATATATATATGTATATATATATACAC"	"ATATATATATACGTATATATATATATGTATATATATATACAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000380013"	""	68	"."	7	31	"."	0	"TET2,downstream_gene_variant,,ENST00000513237,;TET2,downstream_gene_variant,,ENST00000540549,;TET2,downstream_gene_variant,,ENST00000545826,;TET2,downstream_gene_variant,,ENST00000380013,NM_001127208.2;TET2,downstream_gene_variant,,ENST00000265149,;"	"-"	"ENSG00000168769"	"ENST00000380013"	"Transcript"	"downstream_gene_variant"	"-/9679"	"-/6009"	"-/2002"	""	""	""	"1"	"4281"	1	"TET2"	"HGNC"	25941	"protein_coding"	""	"CCDS47120.1"	"ENSP00000369351"	"Q6N021"	"E7EPB1,D6RE87"	"UPI00001D75E4"	"NM_001127208.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATATATATATATACGTATATATATATATGTATATATATATACACA"	"a3188c00-fdd7-11e5-a740-d102424a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.102941176470588	"WGS"	TRUE
"8115"	"RP11-380D23.2"	0	"mskcc.org"	"GRCh37"	"4"	111523735	111523735	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000503456"	""	97	"."	19	52	"."	0	"RP11-380D23.2,intron_variant,,ENST00000513690,;RP11-380D23.2,downstream_gene_variant,,ENST00000503456,;"	"-"	"ENSG00000250103"	"ENST00000503456"	"Transcript"	"downstream_gene_variant"	"-/493"	""	""	""	""	""	"1"	"782"	-1	"RP11-380D23.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"befd7ef8-fdd7-11e5-a740-d102424a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.195876288659794	"WGS"	FALSE
"8116"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	112576180	112576182	"+"	"IGR"	"DEL"	"AAC"	"AAC"	"-"	"novel"	NA	"284"	"W0006060F"	"AAC"	"AAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"."	18	63	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAACA"	"c459a93a-fdd7-11e5-a740-d102424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.183673469387755	"WGS"	FALSE
"8117"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	124404377	124404383	"+"	"IGR"	"DEL"	"ACACTTA"	"ACACTTA"	"CCCTT"	"novel"	NA	"284"	"W0006060F"	"ACACTTA"	"ACACTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"."	19	45	"."	0	""	"CCCTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCACACTTAG"	"d06666c6-fdd9-11e5-a740-d102424a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.195876288659794	"WGS"	FALSE
"8118"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	134417402	134417403	"+"	"IGR"	"INS"	"-"	"-"	"ATATATGTATAC"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"."	8	47	"."	0	""	"ATATATGTATAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"b9ea790c-fddc-11e5-a740-d102424a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.08	"WGS"	FALSE
"8119"	"RPS23P2"	0	"mskcc.org"	"GRCh37"	"4"	138373911	138373913	"+"	"3'Flank"	"DEL"	"AAG"	"AAG"	"-"	"novel"	NA	"284"	"W0006060F"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000463671"	""	103	"."	29	59	"."	0	"RPS23P2,downstream_gene_variant,,ENST00000463671,;"	"-"	"ENSG00000213448"	"ENST00000463671"	"Transcript"	"downstream_gene_variant"	"-/415"	""	""	""	""	""	"1"	"4256"	1	"RPS23P2"	"HGNC"	36568	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTAAGA"	"55a528ec-fdd8-11e5-a740-d102424a729f"	"1740"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.281553398058252	"WGS"	FALSE
"8120"	"RP11-284M14.1"	0	"mskcc.org"	"GRCh37"	"4"	143857918	143858597	"+"	"Intron"	"DEL"	"ATTTTAGGAGAGAGGATATTTCACTCAATTTTCATTTCACTCAAAAAAAAATGCTAAGAATGTACTATGTTCCAGGCACTGAACCAGGTACTGGGGGGCTGGGGGGGAAGTTGAGGTTGTAGCCATGAGCAACAGCAGGTGCCTCAGTCCTCACATGGTTAGAGTCAGTGTAGAGTGGGGGAGAGGTAGACATTAATTAAGTAATCACACAAACAAACATAAAATCACAATTGTTAGAAATGCTGTGATGAAAGGTTAAAAGGTGCTATAAGAACATATAATAATCATTCCTGAACATACTCAGAGTATTCACATAAACGCTCCCTAAGGAAGGGATGCCTAAACTGAGACATAAAGGTTGGGGAGGAGGAGAGGAGGAAAGAAGAAAAGAGAGACCACAAAAGCCACATATTTCTTTAAGCAAATCATCTTTAAGTCTGGATGTGCAGAGGCATTTTATTACCACATGTAATATGTGTTATGGATATTATTATTATAATATGTGTACATAAAAATATATTTGCACATAGTATATAAGCAGAATTATCTTATTTTCAAAATCACCAAAAATGATCTTTTTGAATACCTTAAACAAATTATCCAGGACCAACAAGTCTTGCTAGGATAAGGGCACTTAAAAGTCGATGAGGGTTGAGGAGAACTTAGAACCTGGCTTCTGA"	"ATTTTAGGAGAGAGGATATTTCACTCAATTTTCATTTCACTCAAAAAAAAATGCTAAGAATGTACTATGTTCCAGGCACTGAACCAGGTACTGGGGGGCTGGGGGGGAAGTTGAGGTTGTAGCCATGAGCAACAGCAGGTGCCTCAGTCCTCACATGGTTAGAGTCAGTGTAGAGTGGGGGAGAGGTAGACATTAATTAAGTAATCACACAAACAAACATAAAATCACAATTGTTAGAAATGCTGTGATGAAAGGTTAAAAGGTGCTATAAGAACATATAATAATCATTCCTGAACATACTCAGAGTATTCACATAAACGCTCCCTAAGGAAGGGATGCCTAAACTGAGACATAAAGGTTGGGGAGGAGGAGAGGAGGAAAGAAGAAAAGAGAGACCACAAAAGCCACATATTTCTTTAAGCAAATCATCTTTAAGTCTGGATGTGCAGAGGCATTTTATTACCACATGTAATATGTGTTATGGATATTATTATTATAATATGTGTACATAAAAATATATTTGCACATAGTATATAAGCAGAATTATCTTATTTTCAAAATCACCAAAAATGATCTTTTTGAATACCTTAAACAAATTATCCAGGACCAACAAGTCTTGCTAGGATAAGGGCACTTAAAAGTCGATGAGGGTTGAGGAGAACTTAGAACCTGGCTTCTGA"	"TAAAATTG"	"novel"	NA	"284"	"W0006060F"	"ATTTTAGGAGAGAGGATATTTCACTCAATTTTCATTTCACTCAAAAAAAAATGCTAAGAATGTACTATGTTCCAGGCACTGAACCAGGTACTGGGGGGCTGGGGGGGAAGTTGAGGTTGTAGCCATGAGCAACAGCAGGTGCCTCAGTCCTCACATGGTTAGAGTCAGTGTAGAGTGGGGGAGAGGTAGACATTAATTAAGTAATCACACAAACAAACATAAAATCACAATTGTTAGAAATGCTGTGATGAAAGGTTAAAAGGTGCTATAAGAACATATAATAATCATTCCTGAACATACTCAGAGTATTCACATAAACGCTCCCTAAGGAAGGGATGCCTAAACTGAGACATAAAGGTTGGGGAGGAGGAGAGGAGGAAAGAAGAAAAGAGAGACCACAAAAGCCACATATTTCTTTAAGCAAATCATCTTTAAGTCTGGATGTGCAGAGGCATTTTATTACCACATGTAATATGTGTTATGGATATTATTATTATAATATGTGTACATAAAAATATATTTGCACATAGTATATAAGCAGAATTATCTTATTTTCAAAATCACCAAAAATGATCTTTTTGAATACCTTAAACAAATTATCCAGGACCAACAAGTCTTGCTAGGATAAGGGCACTTAAAAGTCGATGAGGGTTGAGGAGAACTTAGAACCTGGCTTCTGA"	"ATTTTAGGAGAGAGGATATTTCACTCAATTTTCATTTCACTCAAAAAAAAATGCTAAGAATGTACTATGTTCCAGGCACTGAACCAGGTACTGGGGGGCTGGGGGGGAAGTTGAGGTTGTAGCCATGAGCAACAGCAGGTGCCTCAGTCCTCACATGGTTAGAGTCAGTGTAGAGTGGGGGAGAGGTAGACATTAATTAAGTAATCACACAAACAAACATAAAATCACAATTGTTAGAAATGCTGTGATGAAAGGTTAAAAGGTGCTATAAGAACATATAATAATCATTCCTGAACATACTCAGAGTATTCACATAAACGCTCCCTAAGGAAGGGATGCCTAAACTGAGACATAAAGGTTGGGGAGGAGGAGAGGAGGAAAGAAGAAAAGAGAGACCACAAAAGCCACATATTTCTTTAAGCAAATCATCTTTAAGTCTGGATGTGCAGAGGCATTTTATTACCACATGTAATATGTGTTATGGATATTATTATTATAATATGTGTACATAAAAATATATTTGCACATAGTATATAAGCAGAATTATCTTATTTTCAAAATCACCAAAAATGATCTTTTTGAATACCTTAAACAAATTATCCAGGACCAACAAGTCTTGCTAGGATAAGGGCACTTAAAAGTCGATGAGGGTTGAGGAGAACTTAGAACCTGGCTTCTGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.511+2645_511+3324delTCAGAAGCCAGGTTCTAAGTTCTCCTCAACCCTCATCGACTTTTAAGTGCCCTTATCCTAGCAAGACTTGTTGGTCCTGGATAATTTGTTTAAGGTATTCAAAAAGATCATTTTTGGTGATTTTGAAAATAAGATAATTCTGCTTATATACTATGTGCAAATATATTTTTATGTACACATATTATAATAATAATATCCATAACACATATTACATGTGGTAATAAAATGCCTCTGCACATCCAGACTTAAAGATGATTTGCTTAAAGAAATATGTGGCTTTTGTGGTCTCTCTTTTCTTCTTTCCTCCTCTCCTCCTCCCCAACCTTTATGTCTCAGTTTAGGCATCCCTTCCTTAGGGAGCGTTTATGTGAATACTCTGAGTATGTTCAGGAATGATTATTATATGTTCTTATAGCACCTTTTAACCTTTCATCACAGCATTTCTAACAATTGTGATTTTATGTTTGTTTGTGTGATTACTTAATTAATGTCTACCTCTCCCCCACTCTACACTGACTCTAACCATGTGAGGACTGAGGCACCTGCTGTTGCTCATGGCTACAACCTCAACTTCCCCCCCAGCCCCCCAGTACCTGGTTCAGTGCCTGGAACATAGTACATTCTTAGCATTTTTTTTTGAGTGAAATGAAAATTGAGTGAAATATCCTCTCTCCTAAAATinsCAATTTTA"	""	""	"ENST00000507826"	""	86	"."	24	49	"."	0	"RP11-284M14.1,intron_variant,,ENST00000507826,;"	"TAAAATTG"	"ENSG00000250326"	"ENST00000507826"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/579"	""	""	""	""	""	"1"	NA	-1	"RP11-284M14.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAATTTTAGGAGAGAGGATATTTCACTCAATTTTCATTTCACTCAAAAAAAAATGCTAAGAATGTACTATGTTCCAGGCACTGAACCAGGTACTGGGGGGCTGGGGGGGAAGTTGAGGTTGTAGCCATGAGCAACAGCAGGTGCCTCAGTCCTCACATGGTTAGAGTCAGTGTAGAGTGGGGGAGAGGTAGACATTAATTAAGTAATCACACAAACAAACATAAAATCACAATTGTTAGAAATGCTGTGATGAAAGGTTAAAAGGTGCTATAAGAACATATAATAATCATTCCTGAACATACTCAGAGTATTCACATAAACGCTCCCTAAGGAAGGGATGCCTAAACTGAGACATAAAGGTTGGGGAGGAGGAGAGGAGGAAAGAAGAAAAGAGAGACCACAAAAGCCACATATTTCTTTAAGCAAATCATCTTTAAGTCTGGATGTGCAGAGGCATTTTATTACCACATGTAATATGTGTTATGGATATTATTATTATAATATGTGTACATAAAAATATATTTGCACATAGTATATAAGCAGAATTATCTTATTTTCAAAATCACCAAAAATGATCTTTTTGAATACCTTAAACAAATTATCCAGGACCAACAAGTCTTGCTAGGATAAGGGCACTTAAAAGTCGATGAGGGTTGAGGAGAACTTAGAACCTGGCTTCTGAA"	"d8d12c38-fdd9-11e5-a740-d102424a729f"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.27906976744186	"WGS"	FALSE
"8121"	"MIR548G"	100313938	"mskcc.org"	"GRCh37"	"4"	148262811	148262811	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408442"	""	94	"."	11	57	"."	0	"MIR548G,downstream_gene_variant,,ENST00000408442,;"	"-"	"ENSG00000221369"	"ENST00000408442"	"Transcript"	"downstream_gene_variant"	"-/89"	""	""	""	""	""	"1"	"2970"	-1	"MIR548G"	"HGNC"	35326	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"84fbb9bc-fdd8-11e5-a740-d102424a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.117021276595745	"WGS"	FALSE
"8122"	"ARFIP1"	27236	"mskcc.org"	"GRCh37"	"4"	153739714	153740375	"+"	"Intron"	"DEL"	"ATAAACTTGAGTGAGGATGAACACCTTTGGCCAGAATTAAGGGAGGAACAGTAAGTGTGCTGTAGCCACAGGCACAGAAACTGGGCACTCCTGCTTCCACAGACTGGGAATGGTGTTTCTCGGAAACTGTGATTTCTGTGTCTCTGAATAGGTTGGTGGCCTGGGGGCAGTTTTGCCTTCCAAATGTAGGCTGCCTAGGACCTAGGTGGCTGCTGCTAGCAGAACACTATGGGTTGTGAGACCTGCCTTGCCAAGTGCATAGGAGCTGAGTGGGACTTAGTGCTGCCTGCAACCCCTCCTTCCCACGCAGATTCTTTTGTACAACAAAAGCATGTGCGCTTCTCCCTGGAACATTACCCCAGCAGCCAGGAAACTACCTTCTGAACACAAGGTGCTGCTGCTTGTGCTCGTACCTGGGGAGCCAGAGAAAGGACTTGCCTGACCCAGCCCCCACCCAGCTTTGCTCCTTCACTTGCCCTGGTCGTGTAACACAATGGGCAGGGGCCTTTGGGAACCCCATGGCCCTGCCCATTACCTGAGGCAGCAGAGTACCTCCCCTGGGTAACATAAGGCAAACACAAATTCCACCACTACCACTGTAGCTGGTGCAGTTGCAAGTGCTACCTCCTGGCTGATGGACAGCTGGCACAGCCCCGTTACAG"	"ATAAACTTGAGTGAGGATGAACACCTTTGGCCAGAATTAAGGGAGGAACAGTAAGTGTGCTGTAGCCACAGGCACAGAAACTGGGCACTCCTGCTTCCACAGACTGGGAATGGTGTTTCTCGGAAACTGTGATTTCTGTGTCTCTGAATAGGTTGGTGGCCTGGGGGCAGTTTTGCCTTCCAAATGTAGGCTGCCTAGGACCTAGGTGGCTGCTGCTAGCAGAACACTATGGGTTGTGAGACCTGCCTTGCCAAGTGCATAGGAGCTGAGTGGGACTTAGTGCTGCCTGCAACCCCTCCTTCCCACGCAGATTCTTTTGTACAACAAAAGCATGTGCGCTTCTCCCTGGAACATTACCCCAGCAGCCAGGAAACTACCTTCTGAACACAAGGTGCTGCTGCTTGTGCTCGTACCTGGGGAGCCAGAGAAAGGACTTGCCTGACCCAGCCCCCACCCAGCTTTGCTCCTTCACTTGCCCTGGTCGTGTAACACAATGGGCAGGGGCCTTTGGGAACCCCATGGCCCTGCCCATTACCTGAGGCAGCAGAGTACCTCCCCTGGGTAACATAAGGCAAACACAAATTCCACCACTACCACTGTAGCTGGTGCAGTTGCAAGTGCTACCTCCTGGCTGATGGACAGCTGGCACAGCCCCGTTACAG"	"GCAGGCACAATAA"	"novel"	NA	"284"	"W0006060F"	"ATAAACTTGAGTGAGGATGAACACCTTTGGCCAGAATTAAGGGAGGAACAGTAAGTGTGCTGTAGCCACAGGCACAGAAACTGGGCACTCCTGCTTCCACAGACTGGGAATGGTGTTTCTCGGAAACTGTGATTTCTGTGTCTCTGAATAGGTTGGTGGCCTGGGGGCAGTTTTGCCTTCCAAATGTAGGCTGCCTAGGACCTAGGTGGCTGCTGCTAGCAGAACACTATGGGTTGTGAGACCTGCCTTGCCAAGTGCATAGGAGCTGAGTGGGACTTAGTGCTGCCTGCAACCCCTCCTTCCCACGCAGATTCTTTTGTACAACAAAAGCATGTGCGCTTCTCCCTGGAACATTACCCCAGCAGCCAGGAAACTACCTTCTGAACACAAGGTGCTGCTGCTTGTGCTCGTACCTGGGGAGCCAGAGAAAGGACTTGCCTGACCCAGCCCCCACCCAGCTTTGCTCCTTCACTTGCCCTGGTCGTGTAACACAATGGGCAGGGGCCTTTGGGAACCCCATGGCCCTGCCCATTACCTGAGGCAGCAGAGTACCTCCCCTGGGTAACATAAGGCAAACACAAATTCCACCACTACCACTGTAGCTGGTGCAGTTGCAAGTGCTACCTCCTGGCTGATGGACAGCTGGCACAGCCCCGTTACAG"	"ATAAACTTGAGTGAGGATGAACACCTTTGGCCAGAATTAAGGGAGGAACAGTAAGTGTGCTGTAGCCACAGGCACAGAAACTGGGCACTCCTGCTTCCACAGACTGGGAATGGTGTTTCTCGGAAACTGTGATTTCTGTGTCTCTGAATAGGTTGGTGGCCTGGGGGCAGTTTTGCCTTCCAAATGTAGGCTGCCTAGGACCTAGGTGGCTGCTGCTAGCAGAACACTATGGGTTGTGAGACCTGCCTTGCCAAGTGCATAGGAGCTGAGTGGGACTTAGTGCTGCCTGCAACCCCTCCTTCCCACGCAGATTCTTTTGTACAACAAAAGCATGTGCGCTTCTCCCTGGAACATTACCCCAGCAGCCAGGAAACTACCTTCTGAACACAAGGTGCTGCTGCTTGTGCTCGTACCTGGGGAGCCAGAGAAAGGACTTGCCTGACCCAGCCCCCACCCAGCTTTGCTCCTTCACTTGCCCTGGTCGTGTAACACAATGGGCAGGGGCCTTTGGGAACCCCATGGCCCTGCCCATTACCTGAGGCAGCAGAGTACCTCCCCTGGGTAACATAAGGCAAACACAAATTCCACCACTACCACTGTAGCTGGTGCAGTTGCAAGTGCTACCTCCTGGCTGATGGACAGCTGGCACAGCCCCGTTACAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-9-11063_-9-10402delATAAACTTGAGTGAGGATGAACACCTTTGGCCAGAATTAAGGGAGGAACAGTAAGTGTGCTGTAGCCACAGGCACAGAAACTGGGCACTCCTGCTTCCACAGACTGGGAATGGTGTTTCTCGGAAACTGTGATTTCTGTGTCTCTGAATAGGTTGGTGGCCTGGGGGCAGTTTTGCCTTCCAAATGTAGGCTGCCTAGGACCTAGGTGGCTGCTGCTAGCAGAACACTATGGGTTGTGAGACCTGCCTTGCCAAGTGCATAGGAGCTGAGTGGGACTTAGTGCTGCCTGCAACCCCTCCTTCCCACGCAGATTCTTTTGTACAACAAAAGCATGTGCGCTTCTCCCTGGAACATTACCCCAGCAGCCAGGAAACTACCTTCTGAACACAAGGTGCTGCTGCTTGTGCTCGTACCTGGGGAGCCAGAGAAAGGACTTGCCTGACCCAGCCCCCACCCAGCTTTGCTCCTTCACTTGCCCTGGTCGTGTAACACAATGGGCAGGGGCCTTTGGGAACCCCATGGCCCTGCCCATTACCTGAGGCAGCAGAGTACCTCCCCTGGGTAACATAAGGCAAACACAAATTCCACCACTACCACTGTAGCTGGTGCAGTTGCAAGTGCTACCTCCTGGCTGATGGACAGCTGGCACAGCCCCGTTACAGinsGCAGGCACAATAA"	""	""	"ENST00000451320"	""	86	"."	8	43	"."	0	"ARFIP1,intron_variant,,ENST00000451320,NM_001287431.1;ARFIP1,intron_variant,,ENST00000353617,NM_001025593.1,NM_001025595.1;ARFIP1,intron_variant,,ENST00000405727,NM_014447.2;ARFIP1,intron_variant,,ENST00000429148,;ARFIP1,intron_variant,,ENST00000356064,;"	"GCAGGCACAATAA"	"ENSG00000164144"	"ENST00000451320"	"Transcript"	"intron_variant"	"-/3424"	"-/1122"	"-/373"	""	""	""	"1"	NA	1	"ARFIP1"	"HGNC"	21496	"protein_coding"	"YES"	"CCDS34080.1"	"ENSP00000395083"	"P53367"	"B7ZA10,B4E273"	"UPI0000125668"	"NM_001287431.1"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTATAAACTTGAGTGAGGATGAACACCTTTGGCCAGAATTAAGGGAGGAACAGTAAGTGTGCTGTAGCCACAGGCACAGAAACTGGGCACTCCTGCTTCCACAGACTGGGAATGGTGTTTCTCGGAAACTGTGATTTCTGTGTCTCTGAATAGGTTGGTGGCCTGGGGGCAGTTTTGCCTTCCAAATGTAGGCTGCCTAGGACCTAGGTGGCTGCTGCTAGCAGAACACTATGGGTTGTGAGACCTGCCTTGCCAAGTGCATAGGAGCTGAGTGGGACTTAGTGCTGCCTGCAACCCCTCCTTCCCACGCAGATTCTTTTGTACAACAAAAGCATGTGCGCTTCTCCCTGGAACATTACCCCAGCAGCCAGGAAACTACCTTCTGAACACAAGGTGCTGCTGCTTGTGCTCGTACCTGGGGAGCCAGAGAAAGGACTTGCCTGACCCAGCCCCCACCCAGCTTTGCTCCTTCACTTGCCCTGGTCGTGTAACACAATGGGCAGGGGCCTTTGGGAACCCCATGGCCCTGCCCATTACCTGAGGCAGCAGAGTACCTCCCCTGGGTAACATAAGGCAAACACAAATTCCACCACTACCACTGTAGCTGGTGCAGTTGCAAGTGCTACCTCCTGGCTGATGGACAGCTGGCACAGCCCCGTTACAGC"	"dbcbb214-fdd9-11e5-a740-d102424a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0930232558139535	"WGS"	FALSE
"8123"	"ARFIP1"	27236	"mskcc.org"	"GRCh37"	"4"	153739714	153740375	"+"	"Intron"	"DEL"	"ATAAACTTGAGTGAGGATGAACACCTTTGGCCAGAATTAAGGGAGGAACAGTAAGTGTGCTGTAGCCACAGGCACAGAAACTGGGCACTCCTGCTTCCACAGACTGGGAATGGTGTTTCTCGGAAACTGTGATTTCTGTGTCTCTGAATAGGTTGGTGGCCTGGGGGCAGTTTTGCCTTCCAAATGTAGGCTGCCTAGGACCTAGGTGGCTGCTGCTAGCAGAACACTATGGGTTGTGAGACCTGCCTTGCCAAGTGCATAGGAGCTGAGTGGGACTTAGTGCTGCCTGCAACCCCTCCTTCCCACGCAGATTCTTTTGTACAACAAAAGCATGTGCGCTTCTCCCTGGAACATTACCCCAGCAGCCAGGAAACTACCTTCTGAACACAAGGTGCTGCTGCTTGTGCTCGTACCTGGGGAGCCAGAGAAAGGACTTGCCTGACCCAGCCCCCACCCAGCTTTGCTCCTTCACTTGCCCTGGTCGTGTAACACAATGGGCAGGGGCCTTTGGGAACCCCATGGCCCTGCCCATTACCTGAGGCAGCAGAGTACCTCCCCTGGGTAACATAAGGCAAACACAAATTCCACCACTACCACTGTAGCTGGTGCAGTTGCAAGTGCTACCTCCTGGCTGATGGACAGCTGGCACAGCCCCGTTACAG"	"ATAAACTTGAGTGAGGATGAACACCTTTGGCCAGAATTAAGGGAGGAACAGTAAGTGTGCTGTAGCCACAGGCACAGAAACTGGGCACTCCTGCTTCCACAGACTGGGAATGGTGTTTCTCGGAAACTGTGATTTCTGTGTCTCTGAATAGGTTGGTGGCCTGGGGGCAGTTTTGCCTTCCAAATGTAGGCTGCCTAGGACCTAGGTGGCTGCTGCTAGCAGAACACTATGGGTTGTGAGACCTGCCTTGCCAAGTGCATAGGAGCTGAGTGGGACTTAGTGCTGCCTGCAACCCCTCCTTCCCACGCAGATTCTTTTGTACAACAAAAGCATGTGCGCTTCTCCCTGGAACATTACCCCAGCAGCCAGGAAACTACCTTCTGAACACAAGGTGCTGCTGCTTGTGCTCGTACCTGGGGAGCCAGAGAAAGGACTTGCCTGACCCAGCCCCCACCCAGCTTTGCTCCTTCACTTGCCCTGGTCGTGTAACACAATGGGCAGGGGCCTTTGGGAACCCCATGGCCCTGCCCATTACCTGAGGCAGCAGAGTACCTCCCCTGGGTAACATAAGGCAAACACAAATTCCACCACTACCACTGTAGCTGGTGCAGTTGCAAGTGCTACCTCCTGGCTGATGGACAGCTGGCACAGCCCCGTTACAG"	"GCAGGCACAATAA"	"novel"	NA	"284"	"W0006060F"	"ATAAACTTGAGTGAGGATGAACACCTTTGGCCAGAATTAAGGGAGGAACAGTAAGTGTGCTGTAGCCACAGGCACAGAAACTGGGCACTCCTGCTTCCACAGACTGGGAATGGTGTTTCTCGGAAACTGTGATTTCTGTGTCTCTGAATAGGTTGGTGGCCTGGGGGCAGTTTTGCCTTCCAAATGTAGGCTGCCTAGGACCTAGGTGGCTGCTGCTAGCAGAACACTATGGGTTGTGAGACCTGCCTTGCCAAGTGCATAGGAGCTGAGTGGGACTTAGTGCTGCCTGCAACCCCTCCTTCCCACGCAGATTCTTTTGTACAACAAAAGCATGTGCGCTTCTCCCTGGAACATTACCCCAGCAGCCAGGAAACTACCTTCTGAACACAAGGTGCTGCTGCTTGTGCTCGTACCTGGGGAGCCAGAGAAAGGACTTGCCTGACCCAGCCCCCACCCAGCTTTGCTCCTTCACTTGCCCTGGTCGTGTAACACAATGGGCAGGGGCCTTTGGGAACCCCATGGCCCTGCCCATTACCTGAGGCAGCAGAGTACCTCCCCTGGGTAACATAAGGCAAACACAAATTCCACCACTACCACTGTAGCTGGTGCAGTTGCAAGTGCTACCTCCTGGCTGATGGACAGCTGGCACAGCCCCGTTACAG"	"ATAAACTTGAGTGAGGATGAACACCTTTGGCCAGAATTAAGGGAGGAACAGTAAGTGTGCTGTAGCCACAGGCACAGAAACTGGGCACTCCTGCTTCCACAGACTGGGAATGGTGTTTCTCGGAAACTGTGATTTCTGTGTCTCTGAATAGGTTGGTGGCCTGGGGGCAGTTTTGCCTTCCAAATGTAGGCTGCCTAGGACCTAGGTGGCTGCTGCTAGCAGAACACTATGGGTTGTGAGACCTGCCTTGCCAAGTGCATAGGAGCTGAGTGGGACTTAGTGCTGCCTGCAACCCCTCCTTCCCACGCAGATTCTTTTGTACAACAAAAGCATGTGCGCTTCTCCCTGGAACATTACCCCAGCAGCCAGGAAACTACCTTCTGAACACAAGGTGCTGCTGCTTGTGCTCGTACCTGGGGAGCCAGAGAAAGGACTTGCCTGACCCAGCCCCCACCCAGCTTTGCTCCTTCACTTGCCCTGGTCGTGTAACACAATGGGCAGGGGCCTTTGGGAACCCCATGGCCCTGCCCATTACCTGAGGCAGCAGAGTACCTCCCCTGGGTAACATAAGGCAAACACAAATTCCACCACTACCACTGTAGCTGGTGCAGTTGCAAGTGCTACCTCCTGGCTGATGGACAGCTGGCACAGCCCCGTTACAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-9-11063_-9-10402delATAAACTTGAGTGAGGATGAACACCTTTGGCCAGAATTAAGGGAGGAACAGTAAGTGTGCTGTAGCCACAGGCACAGAAACTGGGCACTCCTGCTTCCACAGACTGGGAATGGTGTTTCTCGGAAACTGTGATTTCTGTGTCTCTGAATAGGTTGGTGGCCTGGGGGCAGTTTTGCCTTCCAAATGTAGGCTGCCTAGGACCTAGGTGGCTGCTGCTAGCAGAACACTATGGGTTGTGAGACCTGCCTTGCCAAGTGCATAGGAGCTGAGTGGGACTTAGTGCTGCCTGCAACCCCTCCTTCCCACGCAGATTCTTTTGTACAACAAAAGCATGTGCGCTTCTCCCTGGAACATTACCCCAGCAGCCAGGAAACTACCTTCTGAACACAAGGTGCTGCTGCTTGTGCTCGTACCTGGGGAGCCAGAGAAAGGACTTGCCTGACCCAGCCCCCACCCAGCTTTGCTCCTTCACTTGCCCTGGTCGTGTAACACAATGGGCAGGGGCCTTTGGGAACCCCATGGCCCTGCCCATTACCTGAGGCAGCAGAGTACCTCCCCTGGGTAACATAAGGCAAACACAAATTCCACCACTACCACTGTAGCTGGTGCAGTTGCAAGTGCTACCTCCTGGCTGATGGACAGCTGGCACAGCCCCGTTACAGinsGCAGGCACAATAA"	""	""	"ENST00000451320"	""	91	"."	17	43	"."	0	"ARFIP1,intron_variant,,ENST00000451320,NM_001287431.1;ARFIP1,intron_variant,,ENST00000353617,NM_001025593.1,NM_001025595.1;ARFIP1,intron_variant,,ENST00000405727,NM_014447.2;ARFIP1,intron_variant,,ENST00000429148,;ARFIP1,intron_variant,,ENST00000356064,;"	"GCAGGCACAATAA"	"ENSG00000164144"	"ENST00000451320"	"Transcript"	"intron_variant"	"-/3424"	"-/1122"	"-/373"	""	""	""	"1"	NA	1	"ARFIP1"	"HGNC"	21496	"protein_coding"	"YES"	"CCDS34080.1"	"ENSP00000395083"	"P53367"	"B7ZA10,B4E273"	"UPI0000125668"	"NM_001287431.1"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTATAAACTTGAGTGAGGATGAACACCTTTGGCCAGAATTAAGGGAGGAACAGTAAGTGTGCTGTAGCCACAGGCACAGAAACTGGGCACTCCTGCTTCCACAGACTGGGAATGGTGTTTCTCGGAAACTGTGATTTCTGTGTCTCTGAATAGGTTGGTGGCCTGGGGGCAGTTTTGCCTTCCAAATGTAGGCTGCCTAGGACCTAGGTGGCTGCTGCTAGCAGAACACTATGGGTTGTGAGACCTGCCTTGCCAAGTGCATAGGAGCTGAGTGGGACTTAGTGCTGCCTGCAACCCCTCCTTCCCACGCAGATTCTTTTGTACAACAAAAGCATGTGCGCTTCTCCCTGGAACATTACCCCAGCAGCCAGGAAACTACCTTCTGAACACAAGGTGCTGCTGCTTGTGCTCGTACCTGGGGAGCCAGAGAAAGGACTTGCCTGACCCAGCCCCCACCCAGCTTTGCTCCTTCACTTGCCCTGGTCGTGTAACACAATGGGCAGGGGCCTTTGGGAACCCCATGGCCCTGCCCATTACCTGAGGCAGCAGAGTACCTCCCCTGGGTAACATAAGGCAAACACAAATTCCACCACTACCACTGTAGCTGGTGCAGTTGCAAGTGCTACCTCCTGGCTGATGGACAGCTGGCACAGCCCCGTTACAGC"	"dbd3416e-fdd9-11e5-a740-d102424a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.186813186813187	"WGS"	FALSE
"8124"	"C4orf45"	152940	"mskcc.org"	"GRCh37"	"4"	159848981	159848997	"+"	"Intron"	"DEL"	"AGGGGCTTAGCACCCGG"	"AGGGGCTTAGCACCCGG"	"CTGGCGTA"	"novel"	NA	"284"	"W0006060F"	"AGGGGCTTAGCACCCGG"	"AGGGGCTTAGCACCCGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.357-12486_357-12470delCCGGGTGCTAAGCCCCTinsTACGCCAG"	""	""	"ENST00000434826"	""	81	"."	11	56	"."	0	"C4orf45,intron_variant,,ENST00000434826,NM_152543.2;C4orf45,intron_variant,,ENST00000508011,;C4orf45,intron_variant,,ENST00000505647,;"	"CTGGCGTA"	"ENSG00000164123"	"ENST00000434826"	"Transcript"	"intron_variant"	"-/1215"	"-/561"	"-/186"	""	""	""	"1"	NA	-1	"C4orf45"	"HGNC"	26342	"protein_coding"	"YES"	"CCDS47156.1"	"ENSP00000412215"	"Q96LM5"	""	"UPI000022C48A"	"NM_152543.2"	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAGGGGCTTAGCACCCGGG"	"de080866-fdd9-11e5-a740-d102424a729f"	"652"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.135802469135802	"WGS"	FALSE
"8125"	"MARCH1"	55016	"mskcc.org"	"GRCh37"	"4"	165024475	165024479	"+"	"Intron"	"DEL"	"CACCA"	"CACCA"	"-"	"novel"	NA	"284"	"W0006060F"	"CACCA"	"CACCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-39+8261_-39+8265delTGGTG"	""	""	"ENST00000503008"	""	44	"."	8	17	"."	0	"MARCH1,intron_variant,,ENST00000503008,NM_001166373.1;MARCH1,intron_variant,,ENST00000514618,;MARCH1,intron_variant,,ENST00000507270,;MARCH1,intron_variant,,ENST00000508725,;MARCH1,intron_variant,,ENST00000503104,;MARCH1,intron_variant,,ENST00000515471,;MARCH1,intron_variant,,ENST00000510075,;MARCH1,intron_variant,,ENST00000505391,;"	"-"	"ENSG00000145416"	"ENST00000503008"	"Transcript"	"intron_variant"	"-/5877"	"-/870"	"-/289"	""	""	""	"1"	NA	-1	"MARCH1"	"HGNC"	26077	"protein_coding"	"YES"	"CCDS54814.1"	"ENSP00000427223"	"Q8TCQ1"	"D6REN1"	"UPI0000037BB3"	"NM_001166373.1"	NA	NA	""	"2/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCACCAC"	"ddb3a97a-fdd8-11e5-a740-d102424a729f"	"120"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.181818181818182	"WGS"	FALSE
"8126"	"TLL1"	7092	"mskcc.org"	"GRCh37"	"4"	166897186	166897187	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAA"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.170-13328_170-13323dupAAAAAA"	""	""	"ENST00000061240"	""	111	"."	10	72	"."	0	"TLL1,intron_variant,,ENST00000061240,NM_012464.4;TLL1,intron_variant,,ENST00000507499,;TLL1,intron_variant,,ENST00000513213,NM_001204760.1;TLL1,intron_variant,,ENST00000506144,;TLL1,intron_variant,,ENST00000509505,;TLL1,intron_variant,,ENST00000504560,;"	"AAAAAA"	"ENSG00000038295"	"ENST00000061240"	"Transcript"	"intron_variant"	"-/6708"	"-/3042"	"-/1013"	""	""	""	"1"	NA	1	"TLL1"	"HGNC"	11843	"protein_coding"	"YES"	"CCDS3811.1"	"ENSP00000061240"	"O43897"	"D6RCE0"	"UPI0000072EED"	"NM_012464.4"	NA	NA	""	"1/20"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"24"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"53b20cb2-fddd-11e5-a740-d102424a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0900900900900901	"WGS"	FALSE
"8127"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	182335352	182335358	"+"	"IGR"	"DEL"	"TCGGGGG"	"TCGGGGG"	"-"	"novel"	NA	"284"	"W0006060F"	"TCGGGGG"	"TCGGGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"."	5	51	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTCGGGGGT"	"4a73786a-fdd9-11e5-a740-d102424a729f"	"76"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0467289719626168	"WGS"	FALSE
"8128"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	7276981	7276984	"+"	"IGR"	"DEL"	"ATTA"	"ATTA"	"-"	"novel"	NA	"284"	"W0006060F"	"ATTA"	"ATTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"."	20	71	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATTAA"	"25f13378-fdd5-11e5-88fa-d302424a729f"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.21505376344086	"WGS"	FALSE
"8129"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	11947806	11947806	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"."	18	62	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAG"	"4c83a1e2-fdd5-11e5-88fa-d302424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.1875	"WGS"	FALSE
"8130"	"TRIO"	7204	"mskcc.org"	"GRCh37"	"5"	14187904	14187945	"+"	"Intron"	"DEL"	"ATGTATTTGTTTACAAAACAATGACAAAATGAGACTTATGGG"	"ATGTATTTGTTTACAAAACAATGACAAAATGAGACTTATGGG"	"TTTGTTTACAAAACAATGACAAAATGAGACAT"	"novel"	NA	"284"	"W0006060F"	"ATGTATTTGTTTACAAAACAATGACAAAATGAGACTTATGGG"	"ATGTATTTGTTTACAAAACAATGACAAAATGAGACTTATGGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.157+43913_157+43954delATGTATTTGTTTACAAAACAATGACAAAATGAGACTTATGGGinsTTTGTTTACAAAACAATGACAAAATGAGACAT"	""	""	"ENST00000344204"	""	94	"."	13	57	"."	0	"TRIO,intron_variant,,ENST00000344204,NM_007118.2;TRIO,intron_variant,,ENST00000537187,;TRIO,intron_variant,,ENST00000509967,;TRIO,intron_variant,,ENST00000512070,;TRIO,intron_variant,,ENST00000502816,;TRIO,intron_variant,,ENST00000505971,;"	"TTTGTTTACAAAACAATGACAAAATGAGACAT"	"ENSG00000038382"	"ENST00000344204"	"Transcript"	"intron_variant"	"-/11100"	"-/9294"	"-/3097"	""	""	""	"1"	NA	1	"TRIO"	"HGNC"	12303	"protein_coding"	"YES"	"CCDS3883.1"	"ENSP00000339299"	"O75962"	""	"UPI000034ECE6"	"NM_007118.2"	NA	NA	""	"1/56"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAATGTATTTGTTTACAAAACAATGACAAAATGAGACTTATGGGA"	"0e7c65b8-fddb-11e5-88fa-d302424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.138297872340426	"WGS"	FALSE
"8131"	"CDH10"	1008	"mskcc.org"	"GRCh37"	"5"	24505149	24505149	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1393+72delT"	""	""	"ENST00000264463"	""	124	"."	24	61	"."	0	"CDH10,intron_variant,,ENST00000264463,NM_006727.3;CDH10,intron_variant,,ENST00000510477,;"	"-"	"ENSG00000040731"	"ENST00000264463"	"Transcript"	"intron_variant"	"-/3438"	"-/2367"	"-/788"	""	""	""	"1"	NA	-1	"CDH10"	"HGNC"	1749	"protein_coding"	"YES"	"CCDS3892.1"	"ENSP00000264463"	"Q9Y6N8"	""	"UPI0000167B7B"	"NM_006727.3"	NA	NA	""	"8/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAT"	"c66c7b14-fdd5-11e5-88fa-d302424a729f"	"1437"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.193548387096774	"WGS"	FALSE
"8132"	"PDZD2"	23037	"mskcc.org"	"GRCh37"	"5"	31989533	31989534	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTTTTTTTTTATTTATTTTTTTA"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.978+5784_978+5785insTTTATTTATTTTTTTATTTTTTTTTTTTT"	""	""	"ENST00000438447"	""	96	"."	5	57	"."	0	"PDZD2,intron_variant,,ENST00000438447,;PDZD2,intron_variant,,ENST00000282493,NM_178140.2;PDZD2,intron_variant,,ENST00000502489,;"	"TTTTTTTTTTTTTTTTATTTATTTTTTTA"	"ENSG00000133401"	"ENST00000438447"	"Transcript"	"intron_variant"	"-/11704"	"-/8520"	"-/2839"	""	""	""	"1"	NA	1	"PDZD2"	"HGNC"	18486	"protein_coding"	"YES"	"CCDS34137.1"	"ENSP00000402033"	"O15018"	"B4DGS3"	"UPI000069648B"	""	NA	NA	""	"3/24"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"13"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"89e9161e-fddc-11e5-88fa-d302424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0520833333333333	"WGS"	FALSE
"8133"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	40282715	40282717	"+"	"IGR"	"DEL"	"AAT"	"AAT"	"-"	"novel"	NA	"284"	"W0006060F"	"AAT"	"AAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"."	15	60	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAATA"	"5390d7f6-fdd6-11e5-88fa-d302424a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.129310344827586	"WGS"	FALSE
"8134"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	45835406	45835407	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"."	16	53	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"ee40ce04-fddc-11e5-88fa-d302424a729f"	"901"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.161616161616162	"WGS"	FALSE
"8135"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	63238093	63238105	"+"	"IGR"	"DEL"	"CTTATCAGCTTAA"	"CTTATCAGCTTAA"	"GGCT"	"novel"	NA	"284"	"W0006060F"	"CTTATCAGCTTAA"	"CTTATCAGCTTAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"."	14	61	"."	0	""	"GGCT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTGCTTATCAGCTTAAG"	"2be1f19a-fddb-11e5-88fa-d302424a729f"	"734"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.133333333333333	"WGS"	FALSE
"8136"	"FAM169A"	26049	"mskcc.org"	"GRCh37"	"5"	74098403	74098403	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.913-949delA"	""	""	"ENST00000389156"	""	95	"."	16	62	"."	0	"FAM169A,intron_variant,,ENST00000389156,NM_015566.2;FAM169A,intron_variant,,ENST00000510496,;FAM169A,intron_variant,,ENST00000380515,;FAM169A,intron_variant,,ENST00000514215,;FAM169A,intron_variant,,ENST00000510609,;CTD-2060C23.1,downstream_gene_variant,,ENST00000511688,;"	"-"	"ENSG00000198780"	"ENST00000389156"	"Transcript"	"intron_variant"	"-/5990"	"-/2013"	"-/670"	""	""	""	"1"	NA	-1	"FAM169A"	"HGNC"	29138	"protein_coding"	"YES"	"CCDS43330.1"	"ENSP00000373808"	"Q9Y6X4"	"D6RFI5,D6RC41,D6R953"	"UPI000013E38E"	"NM_015566.2"	NA	NA	""	"8/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTA"	"a2188dd2-fdd7-11e5-88fa-d302424a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.168421052631579	"WGS"	FALSE
"8137"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	86941616	86941619	"+"	"IGR"	"DEL"	"ATTA"	"ATTA"	"-"	"novel"	NA	"284"	"W0006060F"	"ATTA"	"ATTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"."	22	56	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGATTAA"	"13331a28-fdd8-11e5-88fa-d302424a729f"	"1290"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.255813953488372	"WGS"	FALSE
"8138"	"ARRDC3"	57561	"mskcc.org"	"GRCh37"	"5"	90663276	90663279	"+"	"3'Flank"	"DEL"	"AGAG"	"AGAG"	"-"	"novel"	NA	"284"	"W0006060F"	"AGAG"	"AGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000265138"	""	117	"."	16	47	"."	0	"ARRDC3,downstream_gene_variant,,ENST00000265138,NM_020801.2;ARRDC3,downstream_gene_variant,,ENST00000511391,;"	"-"	"ENSG00000113369"	"ENST00000265138"	"Transcript"	"downstream_gene_variant"	"-/4188"	"-/1245"	"-/414"	""	""	""	"1"	"1262"	-1	"ARRDC3"	"HGNC"	29263	"protein_coding"	"YES"	"CCDS34202.1"	"ENSP00000265138"	"Q96B67"	""	"UPI000006F2E2"	"NM_020801.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGAGA"	"2a21fc7c-fdd8-11e5-88fa-d302424a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.136752136752137	"WGS"	FALSE
"8139"	"RP11-155G15.2"	0	"mskcc.org"	"GRCh37"	"5"	96772953	96772954	"+"	"3'Flank"	"DEL"	"TC"	"TC"	"-"	"novel"	NA	"284"	"W0006060F"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000504578"	""	99	"."	5	52	"."	0	"RP11-155G15.2,downstream_gene_variant,,ENST00000504578,;"	"-"	"ENSG00000251513"	"ENST00000504578"	"Transcript"	"downstream_gene_variant"	"-/893"	""	""	""	""	""	"1"	"32"	1	"RP11-155G15.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCC"	"4ebaf688-fdd8-11e5-88fa-d302424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0505050505050505	"WGS"	FALSE
"8140"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	97835680	97835683	"+"	"IGR"	"DEL"	"ATGC"	"ATGC"	"TGG"	"novel"	NA	"284"	"W0006060F"	"ATGC"	"ATGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"."	25	53	"."	0	""	"TGG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATGCA"	"3a544be2-fddb-11e5-88fa-d302424a729f"	"1500"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.255102040816327	"WGS"	FALSE
"8141"	"CTD-2007H13.3"	0	"mskcc.org"	"GRCh37"	"5"	98302016	98302017	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.142-10458dupA"	""	""	"ENST00000513175"	""	104	"."	14	61	"."	0	"CTD-2007H13.3,intron_variant,,ENST00000513175,;"	"A"	"ENSG00000248489"	"ENST00000513175"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/478"	""	""	""	""	""	"1"	NA	1	"CTD-2007H13.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"5191bcf6-fdde-11e5-88fa-d302424a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.134615384615385	"WGS"	FALSE
"8142"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	99442780	99442781	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"."	16	61	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"5c68dc04-fdde-11e5-88fa-d302424a729f"	"831"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.146788990825688	"WGS"	FALSE
"8143"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	103308411	103308411	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"."	21	67	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTAA"	"8a062988-fdd8-11e5-88fa-d302424a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.184210526315789	"WGS"	FALSE
"8144"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	103566611	103566612	"+"	"IGR"	"DEL"	"CA"	"CA"	"-"	"novel"	NA	"284"	"W0006060F"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"."	18	55	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACCAC"	"8c0081fc-fdd8-11e5-88fa-d302424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.173076923076923	"WGS"	FALSE
"8145"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	103585904	103585905	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"."	5	71	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"7fe8a416-fdde-11e5-88fa-d302424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0549450549450549	"WGS"	FALSE
"8146"	"RP11-6N13.1"	0	"mskcc.org"	"GRCh37"	"5"	104706434	104706434	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.210+22028delA"	""	""	"ENST00000503650"	""	118	"."	18	58	"."	0	"RP11-6N13.1,intron_variant,,ENST00000503650,;"	"-"	"ENSG00000251574"	"ENST00000503650"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/777"	""	""	""	""	""	"1"	NA	-1	"RP11-6N13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"958f4730-fdd8-11e5-88fa-d302424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.152542372881356	"WGS"	FALSE
"8147"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	105015822	105015972	"+"	"IGR"	"DEL"	"ATGTTATATCAGAAGTAAATTTTTGAGCCAAATCAATAACGTGTCCACACTTACAGAATTTGCATAGAAGTATGTGTGTATGTGTGGGTGTATAACTTAAAGTTTTGGACTCAAATATTAAATTTAGTAGTAATGATGGCTGGTGTTGGCC"	"ATGTTATATCAGAAGTAAATTTTTGAGCCAAATCAATAACGTGTCCACACTTACAGAATTTGCATAGAAGTATGTGTGTATGTGTGGGTGTATAACTTAAAGTTTTGGACTCAAATATTAAATTTAGTAGTAATGATGGCTGGTGTTGGCC"	"-"	"novel"	NA	"284"	"W0006060F"	"ATGTTATATCAGAAGTAAATTTTTGAGCCAAATCAATAACGTGTCCACACTTACAGAATTTGCATAGAAGTATGTGTGTATGTGTGGGTGTATAACTTAAAGTTTTGGACTCAAATATTAAATTTAGTAGTAATGATGGCTGGTGTTGGCC"	"ATGTTATATCAGAAGTAAATTTTTGAGCCAAATCAATAACGTGTCCACACTTACAGAATTTGCATAGAAGTATGTGTGTATGTGTGGGTGTATAACTTAAAGTTTTGGACTCAAATATTAAATTTAGTAGTAATGATGGCTGGTGTTGGCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"."	22	60	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTATGTTATATCAGAAGTAAATTTTTGAGCCAAATCAATAACGTGTCCACACTTACAGAATTTGCATAGAAGTATGTGTGTATGTGTGGGTGTATAACTTAAAGTTTTGGACTCAAATATTAAATTTAGTAGTAATGATGGCTGGTGTTGGCCT"	"984df28c-fdd8-11e5-88fa-d302424a729f"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.2	"WGS"	FALSE
"8148"	"ENSR00001412819"	0	"mskcc.org"	"GRCh37"	"5"	111992510	111992510	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001412819"	""	114	"."	24	56	"."	0	""	"-"	""	"ENSR00001412819"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACC"	"cab23f9e-fdd8-11e5-88fa-d302424a729f"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.210526315789474	"WGS"	FALSE
"8149"	"MCC"	4163	"mskcc.org"	"GRCh37"	"5"	112634990	112635019	"+"	"Intron"	"DEL"	"AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA"	"-"	"novel"	NA	"284"	"W0006060F"	"AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.627+41197_627+41226delTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT"	""	""	"ENST00000408903"	""	108	"."	7	46	"."	0	"MCC,intron_variant,,ENST00000408903,NM_001085377.1;MCC,upstream_gene_variant,,ENST00000302475,NM_002387.2;MCC,upstream_gene_variant,,ENST00000514701,;"	"-"	"ENSG00000171444"	"ENST00000408903"	"Transcript"	"intron_variant"	"-/3476"	"-/3060"	"-/1019"	""	""	""	"1"	NA	-1	"MCC"	"HGNC"	6935	"protein_coding"	"YES"	"CCDS43351.1"	"ENSP00000386227"	"P23508"	"D6REY2"	"UPI00015E06EA"	"NM_001085377.1"	NA	NA	""	"3/18"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA"	"d0da3340-fdd8-11e5-88fa-d302424a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0648148148148148	"WGS"	FALSE
"8150"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	117643061	117643079	"+"	"IGR"	"DEL"	"TTTTACAGGATCTCCAGAG"	"TTTTACAGGATCTCCAGAG"	"ATGGTAAAAGAAAAGC"	"novel"	NA	"284"	"W0006060F"	"TTTTACAGGATCTCCAGAG"	"TTTTACAGGATCTCCAGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"."	12	34	"."	0	""	"ATGGTAAAAGAAAAGC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTTTTACAGGATCTCCAGAGA"	"46b4f292-fddb-11e5-88fa-d302424a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.141176470588235	"WGS"	FALSE
"8151"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	153966710	153966713	"+"	"IGR"	"DEL"	"AAAA"	"AAAA"	"-"	"novel"	NA	"284"	"W0006060F"	"AAAA"	"AAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"."	13	47	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAAAAA"	"10426632-fdda-11e5-88fa-d302424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.131313131313131	"WGS"	FALSE
"8152"	"DOCK2"	1794	"mskcc.org"	"GRCh37"	"5"	169280809	169280817	"+"	"Intron"	"DEL"	"TTTTTTTTT"	"TTTTTTTTT"	"-"	"novel"	NA	"284"	"W0006060F"	"TTTTTTTTT"	"TTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2799+12989_2799+12997delTTTTTTTTT"	""	""	"ENST00000256935"	""	148	"."	6	104	"."	0	"DOCK2,intron_variant,,ENST00000256935,NM_004946.2;DOCK2,intron_variant,,ENST00000520908,;DOCK2,intron_variant,,ENST00000540750,;DOCK2,intron_variant,,ENST00000519628,;DOCK2,intron_variant,,ENST00000523351,;DOCK2,intron_variant,,ENST00000520181,;DOCK2,intron_variant,,ENST00000524185,;"	"-"	"ENSG00000134516"	"ENST00000256935"	"Transcript"	"intron_variant"	"-/6097"	"-/5493"	"-/1830"	""	""	""	"1"	NA	1	"DOCK2"	"HGNC"	2988	"protein_coding"	"YES"	"CCDS4371.1"	"ENSP00000256935"	"Q92608"	"Q5XG91,B3KXW9"	"UPI00001A38CC"	"NM_004946.2"	NA	NA	""	"27/51"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"36"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTTTTTTTTT"	"8fcdf0f6-fdda-11e5-88fa-d302424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0405405405405405	"WGS"	FALSE
"8153"	"EXOC2"	55770	"mskcc.org"	"GRCh37"	"6"	682053	682053	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-44+10966delT"	""	""	"ENST00000230449"	""	98	"."	14	62	"."	0	"EXOC2,intron_variant,,ENST00000230449,NM_018303.5;EXOC2,intron_variant,,ENST00000448181,;EXOC2,intron_variant,,ENST00000443083,;EXOC2,intron_variant,,ENST00000475028,;"	"-"	"ENSG00000112685"	"ENST00000230449"	"Transcript"	"intron_variant"	"-/4449"	"-/2775"	"-/924"	""	""	""	"1"	NA	-1	"EXOC2"	"HGNC"	24968	"protein_coding"	"YES"	"CCDS34327.1"	"ENSP00000230449"	"Q96KP1"	"Q2MDF5,G8JLK9"	"UPI000003E7E3"	"NM_018303.5"	NA	NA	""	"1/27"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"ec66988c-fdd4-11e5-856d-d202424a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.142857142857143	"WGS"	FALSE
"8154"	"GMDS"	2762	"mskcc.org"	"GRCh37"	"6"	2052350	2052351	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAAAAAA"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.345+63643_345+63654dupTTTTTTTTTTTT"	""	""	"ENST00000380815"	""	97	"."	5	66	"."	0	"GMDS,intron_variant,,ENST00000380815,NM_001500.3;GMDS,intron_variant,,ENST00000530927,NM_001253846.1;"	"AAAAAAAAAAAA"	"ENSG00000112699"	"ENST00000380815"	"Transcript"	"intron_variant"	"-/1752"	"-/1119"	"-/372"	""	""	""	"1"	NA	-1	"GMDS"	"HGNC"	4369	"protein_coding"	"YES"	"CCDS4474.1"	"ENSP00000370194"	"O60547"	""	"UPI000012B8AA"	"NM_001500.3"	NA	NA	""	"4/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"1ed1445e-fddd-11e5-856d-d202424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0515463917525773	"WGS"	FALSE
"8155"	"LY86"	9450	"mskcc.org"	"GRCh37"	"6"	6650885	6650885	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.405+979delA"	""	""	"ENST00000379953"	""	112	"."	21	68	"."	0	"LY86,intron_variant,,ENST00000379953,;LY86,intron_variant,,ENST00000230568,NM_004271.3;"	"-"	"ENSG00000112799"	"ENST00000379953"	"Transcript"	"intron_variant"	"-/1197"	"-/489"	"-/162"	""	""	""	"1"	NA	1	"LY86"	"HGNC"	16837	"protein_coding"	"YES"	"CCDS4498.1"	"ENSP00000369286"	"O95711"	""	"UPI0000001C73"	""	NA	NA	""	"5/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"255ffc64-fdd5-11e5-856d-d202424a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.1875	"WGS"	FALSE
"8156"	"RP11-354I10.1"	0	"mskcc.org"	"GRCh37"	"6"	9149879	9149886	"+"	"Intron"	"DEL"	"AGTAAAAT"	"AGTAAAAT"	"-"	"novel"	NA	"284"	"W0006060F"	"AGTAAAAT"	"AGTAAAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.56-8513_56-8506delATTTTACT"	""	""	"ENST00000431369"	""	107	"."	23	54	"."	0	"RP11-354I10.1,intron_variant,,ENST00000431369,;"	"-"	"ENSG00000225775"	"ENST00000431369"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/661"	""	""	""	""	""	"1"	NA	-1	"RP11-354I10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAGTAAAATT"	"4033219c-fdd5-11e5-856d-d202424a729f"	"1364"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.214953271028037	"WGS"	FALSE
"8157"	"PHACTR1"	221692	"mskcc.org"	"GRCh37"	"6"	12959434	12959435	"+"	"Intron"	"INS"	"-"	"-"	"AAAAG"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.251-94159_251-94158insGAAAA"	""	""	"ENST00000379350"	""	96	"."	5	49	"."	0	"PHACTR1,intron_variant,,ENST00000379350,;PHACTR1,intron_variant,,ENST00000332995,;PHACTR1,intron_variant,,ENST00000457702,;PHACTR1,intron_variant,,ENST00000379345,;PHACTR1,intron_variant,,ENST00000406205,;PHACTR1,intron_variant,,ENST00000482982,;"	"AAAAG"	"ENSG00000112137"	"ENST00000379350"	"Transcript"	"intron_variant"	"-/4784"	"-/1455"	"-/484"	""	""	""	"1"	NA	1	"PHACTR1"	"HGNC"	20990	"protein_coding"	""	""	"ENSP00000368655"	"Q9C0D0"	""	"UPI000020D534"	""	NA	NA	""	"3/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"8638c41e-fddd-11e5-856d-d202424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0520833333333333	"WGS"	FALSE
"8158"	"RP11-345L23.1"	101927171	"mskcc.org"	"GRCh37"	"6"	53498100	53498242	"+"	"3'Flank"	"DEL"	"TTTTTTTGTATTTTTAGTAGAGACAGGTTTTCACCATGTTGACTGTGCTGGTCTCGAACTCCTGACCTCAAATGATCCCCCTGCCTCAGCCTCCCAAAGTGCTGGGATTACAGACATGGGCCACCACTCCCAGCTTTTTCTTC"	"TTTTTTTGTATTTTTAGTAGAGACAGGTTTTCACCATGTTGACTGTGCTGGTCTCGAACTCCTGACCTCAAATGATCCCCCTGCCTCAGCCTCCCAAAGTGCTGGGATTACAGACATGGGCCACCACTCCCAGCTTTTTCTTC"	"-"	"novel"	NA	"284"	"W0006060F"	"TTTTTTTGTATTTTTAGTAGAGACAGGTTTTCACCATGTTGACTGTGCTGGTCTCGAACTCCTGACCTCAAATGATCCCCCTGCCTCAGCCTCCCAAAGTGCTGGGATTACAGACATGGGCCACCACTCCCAGCTTTTTCTTC"	"TTTTTTTGTATTTTTAGTAGAGACAGGTTTTCACCATGTTGACTGTGCTGGTCTCGAACTCCTGACCTCAAATGATCCCCCTGCCTCAGCCTCCCAAAGTGCTGGGATTACAGACATGGGCCACCACTCCCAGCTTTTTCTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000448327"	""	105	"."	6	67	"."	0	"RP11-345L23.1,downstream_gene_variant,,ENST00000448327,;"	"-"	"ENSG00000235899"	"ENST00000448327"	"Transcript"	"downstream_gene_variant"	"-/566"	""	""	""	""	""	"1"	"1908"	1	"RP11-345L23.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTTTTTTGTATTTTTAGTAGAGACAGGTTTTCACCATGTTGACTGTGCTGGTCTCGAACTCCTGACCTCAAATGATCCCCCTGCCTCAGCCTCCCAAAGTGCTGGGATTACAGACATGGGCCACCACTCCCAGCTTTTTCTTCT"	"ed45ffb6-fdd6-11e5-856d-d202424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0571428571428571	"WGS"	FALSE
"8159"	"RP11-554D15.1"	101928516	"mskcc.org"	"GRCh37"	"6"	74960281	74960285	"+"	"Intron"	"DEL"	"TTTAG"	"TTTAG"	"-"	"novel"	NA	"284"	"W0006060F"	"TTTAG"	"TTTAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.139-96503_139-96499delTAGTT"	""	""	"ENST00000435946"	""	86	"."	19	64	"."	0	"RP11-554D15.1,intron_variant,,ENST00000435946,;"	"-"	"ENSG00000223786"	"ENST00000435946"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/669"	""	""	""	""	""	"1"	NA	1	"RP11-554D15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATTTAGT"	"401ae434-fdd9-11e5-856d-d202424a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.22093023255814	"WGS"	FALSE
"8160"	"NDUFA5P9"	0	"mskcc.org"	"GRCh37"	"6"	86921842	86921844	"+"	"3'Flank"	"DEL"	"AAC"	"AAC"	"-"	"novel"	NA	"284"	"W0006060F"	"AAC"	"AAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000472609"	""	123	"."	5	59	"."	0	"NDUFA5P9,downstream_gene_variant,,ENST00000472609,;NDUFA5P9,downstream_gene_variant,,ENST00000402104,;"	"-"	"ENSG00000220831"	"ENST00000472609"	"Transcript"	"downstream_gene_variant"	"-/340"	""	""	""	""	""	"1"	"2111"	-1	"NDUFA5P9"	"HGNC"	48851	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAACA"	"9b4eb074-fdd9-11e5-856d-d202424a729f"	"109"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.040650406504065	"WGS"	FALSE
"8161"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	88652690	88652698	"+"	"IGR"	"DEL"	"GCTTCATCC"	"GCTTCATCC"	"-"	"novel"	NA	"284"	"W0006060F"	"GCTTCATCC"	"GCTTCATCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"."	24	67	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGCTTCATCCA"	"a99677d4-fdd9-11e5-856d-d202424a729f"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.230769230769231	"WGS"	FALSE
"8162"	"ENSR00001784603"	0	"mskcc.org"	"GRCh37"	"6"	92009490	92009490	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001784603"	""	102	"."	18	67	"."	0	""	"-"	""	"ENSR00001784603"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"c08bfdba-fdd9-11e5-856d-d202424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.176470588235294	"WGS"	FALSE
"8163"	"SOBP"	55084	"mskcc.org"	"GRCh37"	"6"	107932028	107932059	"+"	"Intron"	"DEL"	"ATACACACACCATGGACTTAATGAAGGCAATT"	"ATACACACACCATGGACTTAATGAAGGCAATT"	"CACCATGGACTTAATGAAGGCAATTGAA"	"novel"	NA	"284"	"W0006060F"	"ATACACACACCATGGACTTAATGAAGGCAATT"	"ATACACACACCATGGACTTAATGAAGGCAATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.670-22690_670-22659delATACACACACCATGGACTTAATGAAGGCAATTinsCACCATGGACTTAATGAAGGCAATTGAA"	""	""	"ENST00000317357"	""	118	"."	16	61	"."	0	"SOBP,intron_variant,,ENST00000317357,NM_018013.3;"	"CACCATGGACTTAATGAAGGCAATTGAA"	"ENSG00000112320"	"ENST00000317357"	"Transcript"	"intron_variant"	"-/5231"	"-/2622"	"-/873"	""	""	""	"1"	NA	1	"SOBP"	"HGNC"	29256	"protein_coding"	"YES"	"CCDS43488.1"	"ENSP00000318900"	"A7XYQ1"	""	"UPI0000E6A8ED"	"NM_018013.3"	NA	NA	""	"5/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACATACACACACCATGGACTTAATGAAGGCAATTG"	"ddb11e68-fddc-11e5-856d-d202424a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.135593220338983	"WGS"	FALSE
"8164"	"METTL24"	728464	"mskcc.org"	"GRCh37"	"6"	110587596	110587602	"+"	"Intron"	"DEL"	"TAATCTG"	"TAATCTG"	"ATAATC"	"novel"	NA	"284"	"W0006060F"	"TAATCTG"	"TAATCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.787-20139_787-20133delCAGATTAinsGATTAT"	""	""	"ENST00000338882"	""	101	"."	18	60	"."	0	"METTL24,intron_variant,,ENST00000338882,NM_001123364.1;"	"ATAATC"	"ENSG00000053328"	"ENST00000338882"	"Transcript"	"intron_variant"	"-/1119"	"-/1101"	"-/366"	""	""	""	"1"	NA	-1	"METTL24"	"HGNC"	21566	"protein_coding"	"YES"	"CCDS43489.1"	"ENSP00000344071"	"Q5JXM2"	""	"UPI0000470C21"	"NM_001123364.1"	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATAATCTGT"	"df378b32-fddc-11e5-856d-d202424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.178217821782178	"WGS"	FALSE
"8165"	"RPL5P18"	0	"mskcc.org"	"GRCh37"	"6"	127688389	127688392	"+"	"3'Flank"	"DEL"	"CAAA"	"CAAA"	"-"	"novel"	NA	"284"	"W0006060F"	"CAAA"	"CAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000406671"	""	106	"."	21	54	"."	0	"RPL5P18,downstream_gene_variant,,ENST00000406671,;"	"-"	"ENSG00000220744"	"ENST00000406671"	"Transcript"	"downstream_gene_variant"	"-/891"	""	""	""	""	""	"1"	"3841"	1	"RPL5P18"	"HGNC"	36640	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACCAAAC"	"ecfb9eea-fdda-11e5-856d-d202424a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.19811320754717	"WGS"	FALSE
"8166"	"LAMA2"	3908	"mskcc.org"	"GRCh37"	"6"	129428392	129428394	"+"	"Intron"	"DEL"	"ATA"	"ATA"	"-"	"novel"	NA	"284"	"W0006060F"	"ATA"	"ATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.639+8836_639+8838delTAA"	""	""	"ENST00000421865"	""	124	"."	24	73	"."	0	"LAMA2,intron_variant,,ENST00000421865,NM_001079823.1,NM_000426.3;"	"-"	"ENSG00000196569"	"ENST00000421865"	"Transcript"	"intron_variant"	"-/9640"	"-/9369"	"-/3122"	""	""	""	"1"	NA	1	"LAMA2"	"HGNC"	6482	"protein_coding"	"YES"	"CCDS5138.1"	"ENSP00000400365"	"P24043"	"Q59H37"	"UPI00003673E0"	"NM_001079823.1,NM_000426.3"	NA	NA	""	"4/64"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTATAA"	"f8bb6666-fdda-11e5-856d-d202424a729f"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.193548387096774	"WGS"	FALSE
"8167"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	131088919	131088949	"+"	"IGR"	"DEL"	"TGGGATACTAGTGTCAACCTATTCCAGGGCA"	"TGGGATACTAGTGTCAACCTATTCCAGGGCA"	"AACCTATTCTTCCAAAGGCCAGGT"	"novel"	NA	"284"	"W0006060F"	"TGGGATACTAGTGTCAACCTATTCCAGGGCA"	"TGGGATACTAGTGTCAACCTATTCCAGGGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"."	13	47	"."	0	""	"AACCTATTCTTCCAAAGGCCAGGT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTGGGATACTAGTGTCAACCTATTCCAGGGCAG"	"f2234560-fddc-11e5-856d-d202424a729f"	"777"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.122641509433962	"WGS"	FALSE
"8168"	"LINC00271"	100131814	"mskcc.org"	"GRCh37"	"6"	135861929	135861930	"+"	"Intron"	"INS"	"-"	"-"	"A"	"rs200240648"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.147+42800dupA"	""	""	"ENST00000421378"	""	133	"."	21	73	"."	0	"LINC00271,intron_variant,,ENST00000421378,;LINC00271,intron_variant,,ENST00000438618,;"	"A"	"ENSG00000231028"	"ENST00000421378"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1580"	""	""	""	""	"rs200240648"	"1"	NA	1	"LINC00271"	"HGNC"	32526	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"134391a6-fde1-11e5-856d-d202424a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.157894736842105	"WGS"	FALSE
"8169"	"ENSR00001228902"	0	"mskcc.org"	"GRCh37"	"6"	140086916	140086917	"+"	"IGR"	"INS"	"-"	"-"	"TTAT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001228902"	""	112	"."	16	78	"."	0	""	"TTAT"	""	"ENSR00001228902"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"29a6a776-fde1-11e5-856d-d202424a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.142857142857143	"WGS"	FALSE
"8170"	"PDE10A"	10846	"mskcc.org"	"GRCh37"	"6"	166149301	166149306	"+"	"Intron"	"DEL"	"TGGGCA"	"TGGGCA"	"-"	"novel"	NA	"284"	"W0006060F"	"TGGGCA"	"TGGGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.497-192250_497-192245delTGCCCA"	""	""	"ENST00000580695"	""	111	"."	22	55	"."	0	"PDE10A,intron_variant,,ENST00000580695,;"	"-"	"ENSG00000112541"	"ENST00000580695"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/532"	""	""	""	""	""	"1"	NA	-1	"PDE10A"	"HGNC"	8772	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGGGCAT"	"4eda86de-fddc-11e5-856d-d202424a729f"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.198198198198198	"WGS"	FALSE
"8171"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	373778	373779	"+"	"IGR"	"INS"	"-"	"-"	"AA"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"."	5	47	"."	0	""	"AA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c6d25794-fddb-11e5-9677-d002424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0632911392405063	"WGS"	FALSE
"8172"	"CARD11"	84433	"mskcc.org"	"GRCh37"	"7"	3044223	3044224	"+"	"Intron"	"INS"	"-"	"-"	"ATAT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-126+39077_-126+39078insATAT"	""	""	"ENST00000396946"	""	76	"."	5	47	"."	0	"CARD11,intron_variant,,ENST00000396946,NM_032415.4;CARD11,intron_variant,,ENST00000356408,;"	"ATAT"	"ENSG00000198286"	"ENST00000396946"	"Transcript"	"intron_variant"	"-/4366"	"-/3465"	"-/1154"	""	""	""	"1"	NA	-1	"CARD11"	"HGNC"	16393	"protein_coding"	"YES"	"CCDS5336.2"	"ENSP00000380150"	"Q9BXL7"	"Q8TES3,E2QRC0"	"UPI00003FED38"	"NM_032415.4"	NA	NA	""	"1/24"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"e2445586-fddb-11e5-9677-d002424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0657894736842105	"WGS"	TRUE
"8173"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	12199899	12199900	"+"	"IGR"	"INS"	"-"	"-"	"AAAAAAAAA"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"."	5	49	"."	0	""	"AAAAAAAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"3e59f04c-fddc-11e5-9677-d002424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0649350649350649	"WGS"	FALSE
"8174"	"SNORA64"	0	"mskcc.org"	"GRCh37"	"7"	12736638	12736638	"+"	"3'Flank"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000362600"	""	101	"."	13	54	"."	0	"SNORA64,downstream_gene_variant,,ENST00000362600,;"	"-"	"ENSG00000199470"	"ENST00000362600"	"Transcript"	"downstream_gene_variant"	"-/132"	""	""	""	""	""	"1"	"3745"	-1	"SNORA64"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTT"	"74cf42e6-fdd5-11e5-9677-d002424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.128712871287129	"WGS"	FALSE
"8175"	"AC005062.2"	101927668	"mskcc.org"	"GRCh37"	"7"	19981977	19982004	"+"	"Intron"	"DEL"	"GAAAAGGAGAAACAGGAGAAACACAGAT"	"GAAAAGGAGAAACAGGAGAAACACAGAT"	"CAGAAAAGGAGAAACAGGAGAAACAC"	"novel"	NA	"284"	"W0006060F"	"GAAAAGGAGAAACAGGAGAAACACAGAT"	"GAAAAGGAGAAACAGGAGAAACACAGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.535+18541_535+18568delATCTGTGTTTCTCCTGTTTCTCCTTTTCinsGTGTTTCTCCTGTTTCTCCTTTTCTG"	""	""	"ENST00000449573"	""	109	"."	20	58	"."	0	"AC005062.2,intron_variant,,ENST00000449573,;AC005062.2,intron_variant,,ENST00000415499,;AC005062.2,intron_variant,,ENST00000437191,;AC005062.2,intron_variant,,ENST00000457921,;AC005062.2,intron_variant,,ENST00000435968,;AC005062.2,downstream_gene_variant,,ENST00000424516,;"	"CAGAAAAGGAGAAACAGGAGAAACAC"	"ENSG00000243004"	"ENST00000449573"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/804"	""	""	""	""	""	"1"	NA	-1	"AC005062.2"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGAAAAGGAGAAACAGGAGAAACACAGATA"	"4098fe94-fddb-11e5-9677-d002424a729f"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.18348623853211	"WGS"	FALSE
"8176"	"ABCB5"	340273	"mskcc.org"	"GRCh37"	"7"	20682149	20682150	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.315-649dupT"	""	""	"ENST00000404938"	""	111	"."	8	69	"."	0	"ABCB5,intron_variant,,ENST00000404938,NM_001163941.1;ABCB5,upstream_gene_variant,,ENST00000258738,NM_178559.5;ABCB5,upstream_gene_variant,,ENST00000443026,NM_001163942.1;ABCB5,upstream_gene_variant,,ENST00000406935,NM_001163993.1;ABCB5,upstream_gene_variant,,ENST00000477094,;AC002486.3,upstream_gene_variant,,ENST00000435098,;"	"T"	"ENSG00000004846"	"ENST00000404938"	"Transcript"	"intron_variant"	"-/5811"	"-/3774"	"-/1257"	""	""	""	"1"	NA	1	"ABCB5"	"HGNC"	46	"protein_coding"	"YES"	"CCDS55090.1"	"ENSP00000384881"	"Q2M3G0"	""	"UPI000173A253"	"NM_001163941.1"	NA	NA	""	"5/27"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"9"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"822bd038-fddc-11e5-9677-d002424a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0720720720720721	"WGS"	FALSE
"8177"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	25567405	25567423	"+"	"IGR"	"DEL"	"CCTCCAAAGTTACCCTCTA"	"CCTCCAAAGTTACCCTCTA"	"TCTACTTGATGTG"	"rs386711432"	NA	"284"	"W0006060F"	"CCTCCAAAGTTACCCTCTA"	"CCTCCAAAGTTACCCTCTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"."	28	51	"."	0	""	"TCTACTTGATGTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs386711432"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCCTCCAAAGTTACCCTCTAG"	"4789d02a-fddb-11e5-9677-d002424a729f"	"1680"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.32183908045977	"WGS"	FALSE
"8178"	"NPSR1"	387129	"mskcc.org"	"GRCh37"	"7"	34832277	34832278	"+"	"Intron"	"INS"	"-"	"-"	"TTTATATATATGTATATATATATATTTA"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.384+14101_384+14102insTTATATATATGTATATATATATATTTAT"	""	""	"ENST00000359791"	""	75	"."	9	34	"."	0	"NPSR1,intron_variant,,ENST00000360581,NM_207172.1;NPSR1,intron_variant,,ENST00000359791,NM_207173.1;NPSR1,intron_variant,,ENST00000531252,;NPSR1,intron_variant,,ENST00000381542,;NPSR1,intron_variant,,ENST00000381539,;NPSR1-AS1,intron_variant,,ENST00000442669,;NPSR1-AS1,intron_variant,,ENST00000436945,;NPSR1-AS1,intron_variant,,ENST00000539747,;NPSR1-AS1,intron_variant,,ENST00000431669,;NPSR1-AS1,intron_variant,,ENST00000535640,;NPSR1,intron_variant,,ENST00000396095,;NPSR1,intron_variant,,ENST00000381544,;"	"TTTATATATATGTATATATATATATTTA"	"ENSG00000187258"	"ENST00000359791"	"Transcript"	"intron_variant"	"-/1410"	"-/1134"	"-/377"	""	""	""	"1"	NA	1	"NPSR1"	"HGNC"	23631	"protein_coding"	"YES"	"CCDS5443.1"	"ENSP00000352839"	"Q6W5P4"	""	"UPI0000353D0F"	"NM_207173.1"	NA	NA	""	"3/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"f83156ae-fddc-11e5-9677-d002424a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.12	"WGS"	FALSE
"8179"	"RALA"	5898	"mskcc.org"	"GRCh37"	"7"	39660747	39660893	"+"	"5'Flank"	"DEL"	"TGCTTTTTTATCCTAGACAAATTGAGAATACTGTATTTAAATAATCTAAGACGTAAGTGAACGCGTTTCTCTTTTTTTGTGTGTTCAAAAATGCTGCTCTACAGGGATATAGAGTTAAAAACTAATAATTAGTCTTTGGTTTGCAGC"	"TGCTTTTTTATCCTAGACAAATTGAGAATACTGTATTTAAATAATCTAAGACGTAAGTGAACGCGTTTCTCTTTTTTTGTGTGTTCAAAAATGCTGCTCTACAGGGATATAGAGTTAAAAACTAATAATTAGTCTTTGGTTTGCAGC"	"CTGTAGCTATTATTTATAGGGCT"	"novel"	NA	"284"	"W0006060F"	"TGCTTTTTTATCCTAGACAAATTGAGAATACTGTATTTAAATAATCTAAGACGTAAGTGAACGCGTTTCTCTTTTTTTGTGTGTTCAAAAATGCTGCTCTACAGGGATATAGAGTTAAAAACTAATAATTAGTCTTTGGTTTGCAGC"	"TGCTTTTTTATCCTAGACAAATTGAGAATACTGTATTTAAATAATCTAAGACGTAAGTGAACGCGTTTCTCTTTTTTTGTGTGTTCAAAAATGCTGCTCTACAGGGATATAGAGTTAAAAACTAATAATTAGTCTTTGGTTTGCAGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000005257"	""	93	"."	12	54	"."	0	"RALA,upstream_gene_variant,,ENST00000005257,NM_005402.3;RALA,upstream_gene_variant,,ENST00000436179,;RALA,upstream_gene_variant,,ENST00000468201,;"	"CTGTAGCTATTATTTATAGGGCT"	"ENSG00000006451"	"ENST00000005257"	"Transcript"	"upstream_gene_variant"	"-/2880"	"-/621"	"-/206"	""	""	""	"1"	"2189"	1	"RALA"	"HGNC"	9839	"protein_coding"	"YES"	"CCDS5460.1"	"ENSP00000005257"	"P11233"	"C9JPE8"	"UPI0000001C8F"	"NM_005402.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATGCTTTTTTATCCTAGACAAATTGAGAATACTGTATTTAAATAATCTAAGACGTAAGTGAACGCGTTTCTCTTTTTTTGTGTGTTCAAAAATGCTGCTCTACAGGGATATAGAGTTAAAAACTAATAATTAGTCTTTGGTTTGCAGCT"	"521e29b4-fddb-11e5-9677-d002424a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.129032258064516	"WGS"	FALSE
"8180"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	47292876	47292876	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	16	57	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"a5b576d6-fdd6-11e5-9677-d002424a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.173913043478261	"WGS"	FALSE
"8181"	"RNU6-1126P"	0	"mskcc.org"	"GRCh37"	"7"	55853571	55853609	"+"	"5'Flank"	"DEL"	"TATATATATATATATATATATATATATATATATATTTTT"	"TATATATATATATATATATATATATATATATATATTTTT"	"-"	"novel"	NA	"284"	"W0006060F"	"TATATATATATATATATATATATATATATATATATTTTT"	"TATATATATATATATATATATATATATATATATATTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384002"	""	32	"."	5	25	"."	0	"RNU6-1126P,upstream_gene_variant,,ENST00000384002,;"	"-"	"ENSG00000206729"	"ENST00000384002"	"Transcript"	"upstream_gene_variant"	"-/107"	""	""	""	""	""	"1"	"3452"	1	"RNU6-1126P"	"HGNC"	48089	"snRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATATATATATATATATATATATATATATATATATATTTTTT"	"f06cbf0e-fdd6-11e5-9677-d002424a729f"	"283"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.15625	"WGS"	FALSE
"8182"	"RNU6-832P"	0	"mskcc.org"	"GRCh37"	"7"	68588643	68588644	"+"	"5'Flank"	"DEL"	"AC"	"AC"	"-"	"novel"	NA	"284"	"W0006060F"	"AC"	"AC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000363319"	""	102	"."	5	40	"."	0	"RNU6-832P,upstream_gene_variant,,ENST00000363319,;"	"-"	"ENSG00000200189"	"ENST00000363319"	"Transcript"	"upstream_gene_variant"	"-/107"	""	""	""	""	""	"1"	"1613"	1	"RNU6-832P"	"HGNC"	47795	"snRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATACA"	"1063407a-fdd8-11e5-9677-d002424a729f"	"290"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0490196078431373	"WGS"	FALSE
"8183"	"EIF4H"	7458	"mskcc.org"	"GRCh37"	"7"	73598468	73598468	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.60-3472delA"	""	""	"ENST00000265753"	""	90	"."	15	55	"."	0	"EIF4H,intron_variant,,ENST00000265753,NM_022170.1;EIF4H,intron_variant,,ENST00000353999,NM_031992.1;EIF4H,intron_variant,,ENST00000495187,;EIF4H,intron_variant,,ENST00000489484,;EIF4H,intron_variant,,ENST00000479338,;"	"-"	"ENSG00000106682"	"ENST00000265753"	"Transcript"	"intron_variant"	"-/2679"	"-/747"	"-/248"	""	""	""	"1"	NA	1	"EIF4H"	"HGNC"	12741	"protein_coding"	"YES"	"CCDS5564.1"	"ENSP00000265753"	"Q15056"	"Q75MU2,Q75MU1,Q75MT8"	"UPI000012D373"	"NM_022170.1"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAA"	"403e7f62-fdd8-11e5-9677-d002424a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.166666666666667	"WGS"	FALSE
"8184"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	75379308	75379309	"+"	"IGR"	"DEL"	"GT"	"GT"	"-"	"novel"	NA	"284"	"W0006060F"	"GT"	"GT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"."	6	40	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGTG"	"4eb61b22-fdd8-11e5-9677-d002424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0967741935483871	"WGS"	FALSE
"8185"	"ENSR00000629106"	0	"mskcc.org"	"GRCh37"	"7"	79252614	79252614	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000629106"	""	94	"."	14	62	"."	0	""	"-"	""	"ENSR00000629106"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATG"	"77efcd3a-fdd8-11e5-9677-d002424a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.148936170212766	"WGS"	FALSE
"8186"	"CACNA2D1"	781	"mskcc.org"	"GRCh37"	"7"	81689470	81689537	"+"	"Intron"	"DEL"	"TATATATATATAATATATATATATAATATATATATATTATATATATATTATATATATAATATATATAT"	"TATATATATATAATATATATATATAATATATATATATTATATATATATTATATATATAATATATATAT"	"ACATACATATATATACATATATAAT"	"novel"	NA	"284"	"W0006060F"	"TATATATATATAATATATATATATAATATATATATATTATATATATATTATATATATAATATATATAT"	"TATATATATATAATATATATATATAATATATATATATTATATATATATTATATATATAATATATATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.879+209_879+274delATATATATTATATATATAATATATATATAATATATATATATTATATATATATATTATATATATATAinsTATATATGTATATATATGTATGT"	""	""	"ENST00000356860"	""	30	"."	14	14	"."	0	"CACNA2D1,intron_variant,,ENST00000356860,NM_000722.2;CACNA2D1,intron_variant,,ENST00000356253,;CACNA2D1,intron_variant,,ENST00000423588,;CACNA2D1,intron_variant,,ENST00000461275,;"	"ACATACATATATATACATATATA"	"ENSG00000153956"	"ENST00000356860"	"Transcript"	"intron_variant"	"-/7563"	"-/3276"	"-/1091"	""	""	""	"1"	NA	-1	"CACNA2D1"	"HGNC"	1399	"protein_coding"	"YES"	"CCDS5598.1"	"ENSP00000349320"	"P54289"	"Q9UDU5,Q9UDQ3,Q9UDL7,O95026"	"UPI00003674CD"	"NM_000722.2"	NA	NA	""	"10/38"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTATTATATATATATAATATATATATATAATATATATATATTATATATATATTATATATATAATATATATATA"	"8add2b7e-fddb-11e5-9677-d002424a729f"	"696"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.466666666666667	"WGS"	FALSE
"8187"	"CTB-111H14.1"	0	"mskcc.org"	"GRCh37"	"7"	106369978	106369987	"+"	"Intron"	"DEL"	"GTTAGATATA"	"GTTAGATATA"	"AGTT"	"novel"	NA	"284"	"W0006060F"	"GTTAGATATA"	"GTTAGATATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.172+31025_172+31034delTATATCTAACinsAACT"	""	""	"ENST00000592441"	""	108	"."	20	63	"."	0	"CTB-111H14.1,intron_variant,,ENST00000592441,;CTB-111H14.1,intron_variant,,ENST00000490856,;"	"AGTT"	"ENSG00000243797"	"ENST00000592441"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/701"	""	""	""	""	""	"1"	NA	-1	"CTB-111H14.1"	"Clone_based_vega_gene"	NA	"sense_overlapping"	""	""	""	""	""	""	""	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGTTAGATATAA"	"9b07b366-fddb-11e5-9677-d002424a729f"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.185185185185185	"WGS"	FALSE
"8188"	"LAMB4"	22798	"mskcc.org"	"GRCh37"	"7"	107768061	107768063	"+"	"Intron"	"DEL"	"CAT"	"CAT"	"-"	"novel"	NA	"284"	"W0006060F"	"CAT"	"CAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-34+2688_-34+2690delATG"	""	""	"ENST00000388781"	""	103	"."	17	53	"."	0	"LAMB4,intron_variant,,ENST00000388781,NM_007356.2;LAMB4,intron_variant,,ENST00000205386,;LAMB4,intron_variant,,ENST00000388780,;LAMB4,intron_variant,,ENST00000418464,;LAMB4,intron_variant,,ENST00000414450,;LAMB4,intron_variant,,ENST00000475469,;"	"-"	"ENSG00000091128"	"ENST00000388781"	"Transcript"	"intron_variant"	"-/5858"	"-/5286"	"-/1761"	""	""	""	"1"	NA	-1	"LAMB4"	"HGNC"	6491	"protein_coding"	"YES"	"CCDS34732.1"	"ENSP00000373433"	"A4D0S4"	"C9JM08"	"UPI0000198CD5"	"NM_007356.2"	NA	NA	""	"1/33"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACATC"	"7997a184-fdd9-11e5-9677-d002424a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.16504854368932	"WGS"	FALSE
"8189"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	109001383	109001387	"+"	"IGR"	"DEL"	"AAGTT"	"AAGTT"	"-"	"novel"	NA	"284"	"W0006060F"	"AAGTT"	"AAGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"."	15	47	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAGTTA"	"8432d802-fdd9-11e5-9677-d002424a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.145631067961165	"WGS"	FALSE
"8190"	"LRRN3"	54674	"mskcc.org"	"GRCh37"	"7"	110759837	110759849	"+"	"Intron"	"DEL"	"AGGCAGGCCTCAC"	"AGGCAGGCCTCAC"	"TCACTAA"	"rs386716847"	NA	"284"	"W0006060F"	"AGGCAGGCCTCAC"	"AGGCAGGCCTCAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-358-2634_-358-2622delAGGCAGGCCTCACinsTCACTAA"	""	""	"ENST00000451085"	""	97	"."	13	62	"."	0	"LRRN3,intron_variant,,ENST00000451085,NM_001099660.1;LRRN3,intron_variant,,ENST00000422987,NM_018334.4;LRRN3,intron_variant,,ENST00000308478,NM_001099658.1;LRRN3,intron_variant,,ENST00000421101,;IMMP2L,intron_variant,,ENST00000405709,NM_032549.3;IMMP2L,intron_variant,,ENST00000331762,NM_001244606.1;IMMP2L,intron_variant,,ENST00000447215,;IMMP2L,intron_variant,,ENST00000452895,;IMMP2L,intron_variant,,ENST00000450877,;IMMP2L,intron_variant,,ENST00000415362,;IMMP2L,intron_variant,,ENST00000437687,;IMMP2L,intron_variant,,ENST00000489381,;"	"TCACTAA"	"ENSG00000173114"	"ENST00000451085"	"Transcript"	"intron_variant"	"-/3725"	"-/2127"	"-/708"	""	""	"rs386716847"	"1"	NA	1	"LRRN3"	"HGNC"	17200	"protein_coding"	"YES"	"CCDS5754.1"	"ENSP00000397312"	"Q9H3W5"	"A4D0T1,E7EW58"	"UPI0000037517"	"NM_001099660.1"	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAGGCAGGCCTCACG"	"9cce59e8-fddb-11e5-9677-d002424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.134020618556701	"WGS"	FALSE
"8191"	"MDFIC"	29969	"mskcc.org"	"GRCh37"	"7"	114574581	114574583	"+"	"Intron"	"DEL"	"CAA"	"CAA"	"-"	"novel"	NA	"284"	"W0006060F"	"CAA"	"CAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.422-7749_422-7747delCAA"	""	""	"ENST00000257724"	""	91	"."	18	58	"."	0	"MDFIC,intron_variant,,ENST00000257724,;MDFIC,intron_variant,,ENST00000393486,NM_001166345.1,NM_199072.4;MDFIC,intron_variant,,ENST00000427207,;MDFIC,intron_variant,,ENST00000498196,;MDFIC,intron_variant,,ENST00000431629,;"	"-"	"ENSG00000135272"	"ENST00000257724"	"Transcript"	"intron_variant"	"-/4598"	"-/1068"	"-/355"	""	""	""	"1"	NA	1	"MDFIC"	"HGNC"	28870	"protein_coding"	"YES"	"CCDS34737.1"	"ENSP00000257724"	""	"J3KN13,C9J784"	"UPI000013CF80"	""	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCAAA"	"b1bfaea8-fdd9-11e5-9677-d002424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.197802197802198	"WGS"	FALSE
"8192"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	115076291	115076294	"+"	"IGR"	"DEL"	"AGTC"	"AGTC"	"-"	"novel"	NA	"284"	"W0006060F"	"AGTC"	"AGTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"."	15	51	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAGTCA"	"b533bf8e-fdd9-11e5-9677-d002424a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.136363636363636	"WGS"	FALSE
"8193"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	118310367	118310372	"+"	"IGR"	"DEL"	"ATATAC"	"ATATAC"	"-"	"rs201481454"	NA	"284"	"W0006060F"	"ATATAC"	"ATATAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"."	5	55	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201481454"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATATACA"	"c98a1ab4-fdd9-11e5-9677-d002424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0526315789473684	"WGS"	FALSE
"8194"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	118714510	118714510	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs368109900"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"."	13	54	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs368109900"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0178"	"-:0.0378"	"-:0.0072"	NA	"-:0.0278"	"-:0.001"	"-:0.0051"	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCC"	"cc6251f2-fdd9-11e5-9677-d002424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.13	"WGS"	FALSE
"8195"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	121052606	121052606	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"."	8	65	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAA"	"dd094d26-fdd9-11e5-9677-d002424a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0761904761904762	"WGS"	FALSE
"8196"	"IQUB"	154865	"mskcc.org"	"GRCh37"	"7"	123118304	123118327	"+"	"Intron"	"DEL"	"AAAAAAGGATGAGTTCACATCCTT"	"AAAAAAGGATGAGTTCACATCCTT"	"GTTGGGATGTTCA"	"novel"	NA	"284"	"W0006060F"	"AAAAAAGGATGAGTTCACATCCTT"	"AAAAAAGGATGAGTTCACATCCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1410+1522_1410+1545delAAGGATGTGAACTCATCCTTTTTTinsTGAACATCCCAAC"	""	""	"ENST00000466202"	""	94	"."	15	44	"."	0	"IQUB,intron_variant,,ENST00000466202,NM_001282855.1;IQUB,intron_variant,,ENST00000324698,NM_178827.4;IQUB,intron_variant,,ENST00000434450,;IQUB,intron_variant,,ENST00000484508,;IQUB,intron_variant,,ENST00000469057,;"	"GTTGGGATGTTCA"	"ENSG00000164675"	"ENST00000466202"	"Transcript"	"intron_variant"	"-/3296"	"-/2376"	"-/791"	""	""	""	"1"	NA	-1	"IQUB"	"HGNC"	21995	"protein_coding"	"YES"	"CCDS5787.1"	"ENSP00000417769"	"Q8NA54"	""	"UPI000013E3DF"	"NM_001282855.1"	NA	NA	""	"8/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAAAAAAGGATGAGTTCACATCCTTT"	"a22c2e24-fddb-11e5-9677-d002424a729f"	"890"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.159574468085106	"WGS"	FALSE
"8197"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	125119702	125119704	"+"	"IGR"	"DEL"	"AAC"	"AAC"	"-"	"novel"	NA	"284"	"W0006060F"	"AAC"	"AAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"."	13	55	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAACA"	"fb7043be-fdd9-11e5-9677-d002424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.108333333333333	"WGS"	FALSE
"8198"	"MEST"	4232	"mskcc.org"	"GRCh37"	"7"	130131433	130131446	"+"	"5'Flank"	"DEL"	"CACGGTTCAGTACC"	"CACGGTTCAGTACC"	"-"	"novel"	NA	"284"	"W0006060F"	"CACGGTTCAGTACC"	"CACGGTTCAGTACC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000223215"	""	89	"."	11	49	"."	0	"MEST,intron_variant,,ENST00000341441,NM_177524.2;MEST,intron_variant,,ENST00000393187,NM_177525.2;MEST,intron_variant,,ENST00000378576,;MEST,intron_variant,,ENST00000416162,NM_001253902.1,NM_001253901.1;MEST,intron_variant,,ENST00000427521,;MEST,intron_variant,,ENST00000421001,;MEST,intron_variant,,ENST00000433159,;MEST,intron_variant,,ENST00000399874,;MEST,upstream_gene_variant,,ENST00000223215,NM_001253900.1,NM_002402.3;MEST,upstream_gene_variant,,ENST00000437945,;MEST,upstream_gene_variant,,ENST00000437637,;MEST,upstream_gene_variant,,ENST00000458161,;MIR335,upstream_gene_variant,,ENST00000362173,;hsa-mir-335,downstream_gene_variant,,ENST00000604666,;MEST,upstream_gene_variant,,ENST00000460590,;"	"-"	"ENSG00000106484"	"ENST00000223215"	"Transcript"	"upstream_gene_variant"	"-/2465"	"-/1008"	"-/335"	""	""	""	"1"	"488"	1	"MEST"	"HGNC"	7028	"protein_coding"	"YES"	"CCDS5822.1"	"ENSP00000223215"	"Q5EB52"	"C9JCM6,C9JWU9,C9JUD2,C9JRA9,C9JG66,A4D1L9"	"UPI000006DE62"	"NM_001253900.1,NM_002402.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCACGGTTCAGTACCC"	"2cf25526-fdda-11e5-9677-d002424a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.123595505617978	"WGS"	FALSE
"8199"	"CHRM2"	1129	"mskcc.org"	"GRCh37"	"7"	136686540	136686542	"+"	"Intron"	"DEL"	"AAT"	"AAT"	"-"	"novel"	NA	"284"	"W0006060F"	"AAT"	"AAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-46-13023_-46-13021delATA"	""	""	"ENST00000445907"	""	95	"."	23	57	"."	0	"CHRM2,intron_variant,,ENST00000445907,NM_001006627.1,NM_001006629.1;CHRM2,intron_variant,,ENST00000401861,NM_001006626.1;CHRM2,intron_variant,,ENST00000397608,NM_000739.2,NM_001006628.1,NM_001006630.1;CHRM2,intron_variant,,ENST00000402486,NM_001006631.1,NM_001006628.1,NM_001006630.1;CHRM2,intron_variant,,ENST00000453373,;CHRM2,intron_variant,,ENST00000320658,NM_001006632.1;hsa-mir-490,intron_variant,,ENST00000439694,;hsa-mir-490,intron_variant,,ENST00000425981,;hsa-mir-490,intron_variant,,ENST00000586239,;hsa-mir-490,intron_variant,,ENST00000597642,;hsa-mir-490,intron_variant,,ENST00000598184,;hsa-mir-490,intron_variant,,ENST00000593789,;hsa-mir-490,intron_variant,,ENST00000592183,;"	"-"	"ENSG00000181072"	"ENST00000445907"	"Transcript"	"intron_variant"	"-/5918"	"-/1401"	"-/466"	""	""	""	"1"	NA	1	"CHRM2"	"HGNC"	1951	"protein_coding"	"YES"	"CCDS5843.1"	"ENSP00000399745"	"P08172"	"Q96RH0,Q86SJ1,Q6SL56,A4D1Q0"	"UPI0000050410"	"NM_001006627.1,NM_001006629.1"	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGAATA"	"6277f07a-fdda-11e5-9677-d002424a729f"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.242105263157895	"WGS"	FALSE
"8200"	"TMEM176A"	55365	"mskcc.org"	"GRCh37"	"7"	150506653	150506653	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000484928"	""	113	"."	21	47	"."	0	"TMEM176A,downstream_gene_variant,,ENST00000484928,;TMEM176A,downstream_gene_variant,,ENST00000004103,NM_018487.2;TMEM176A,downstream_gene_variant,,ENST00000475536,;TMEM176A,downstream_gene_variant,,ENST00000461345,;TMEM176A,downstream_gene_variant,,ENST00000462826,;TMEM176A,downstream_gene_variant,,ENST00000494349,;TMEM176A,downstream_gene_variant,,ENST00000475007,;TMEM176A,downstream_gene_variant,,ENST00000481305,;TMEM176A,downstream_gene_variant,,ENST00000474166,;"	"-"	"ENSG00000002933"	"ENST00000484928"	"Transcript"	"downstream_gene_variant"	"-/1530"	"-/708"	"-/235"	""	""	""	"1"	"4456"	1	"TMEM176A"	"HGNC"	24930	"protein_coding"	"YES"	"CCDS5909.1"	"ENSP00000417626"	"Q96HP8"	"C9JRT9,C9JJ63"	"UPI000006E9AA"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"da2d4cbe-fdda-11e5-9677-d002424a729f"	"1228"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.185840707964602	"WGS"	FALSE
"8201"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	157755992	157755992	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1724-64563delT"	""	""	"ENST00000389418"	""	102	"."	16	50	"."	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"-"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	""	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	NA	NA	""	"11/22"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"23fe964a-fddb-11e5-9677-d002424a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.156862745098039	"WGS"	FALSE
"8202"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	159107545	159107546	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"."	17	74	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c656c278-fde0-11e5-9677-d002424a729f"	"1006"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.168316831683168	"WGS"	FALSE
"8203"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	5718767	5718829	"+"	"IGR"	"DEL"	"TCTCATAAAAATAATTCATCTCTTAAACTGTCCTCTTTTTATTCCTATGTACTTTTGCTAGGC"	"TCTCATAAAAATAATTCATCTCTTAAACTGTCCTCTTTTTATTCCTATGTACTTTTGCTAGGC"	"-"	"novel"	NA	"284"	"W0006060F"	"TCTCATAAAAATAATTCATCTCTTAAACTGTCCTCTTTTTATTCCTATGTACTTTTGCTAGGC"	"TCTCATAAAAATAATTCATCTCTTAAACTGTCCTCTTTTTATTCCTATGTACTTTTGCTAGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"."	16	59	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATCTCATAAAAATAATTCATCTCTTAAACTGTCCTCTTTTTATTCCTATGTACTTTTGCTAGGCT"	"1da9142e-fdd5-11e5-8c5e-d402424a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.145454545454545	"WGS"	FALSE
"8204"	"INTS9"	55756	"mskcc.org"	"GRCh37"	"8"	28737770	28737795	"+"	"Intron"	"DEL"	"TCCCTCTCCCTCTCCCTCTCCCTCTC"	"TCCCTCTCCCTCTCCCTCTCCCTCTC"	"CCTCCACGG"	"novel"	NA	"284"	"W0006060F"	"TCCCTCTCCCTCTCCCTCTCCCTCTC"	"TCCCTCTCCCTCTCCCTCTCCCTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9+9596_9+9621delGAGAGGGAGAGGGAGAGGGAGAGGGAinsCCGTGGAGG"	""	""	"ENST00000521022"	""	75	"."	10	41	"."	0	"INTS9,intron_variant,,ENST00000416984,NM_001145159.2;INTS9,intron_variant,,ENST00000521022,NM_018250.3;INTS9,intron_variant,,ENST00000521777,NM_001172562.1;INTS9,intron_variant,,ENST00000397363,;INTS9,intron_variant,,ENST00000523436,;INTS9,intron_variant,,ENST00000520184,;INTS9,intron_variant,,ENST00000523303,;INTS9,intron_variant,,ENST00000522363,;INTS9,intron_variant,,ENST00000520983,;INTS9,intron_variant,,ENST00000518510,;INTS9,intron_variant,,ENST00000520831,;"	"CCTCCACGG"	"ENSG00000104299"	"ENST00000521022"	"Transcript"	"intron_variant"	"-/2544"	"-/1977"	"-/658"	""	""	""	"1"	NA	-1	"INTS9"	"HGNC"	25592	"protein_coding"	"YES"	"CCDS34873.1"	"ENSP00000429065"	"Q9NV88"	"H7BYQ6,E5RJ88"	"UPI0000071C2E"	"NM_018250.3"	NA	NA	""	"1/16"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCCCTCTCCCTCTCCCTCTCCCTCTCT"	"db1542c4-fde1-11e5-8c5e-d402424a729f"	"532"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.133333333333333	"WGS"	FALSE
"8205"	"RP11-258J10.1"	0	"mskcc.org"	"GRCh37"	"8"	34646425	34646492	"+"	"Intron"	"DEL"	"TGTATATATGTGTGTGTATATATAGTGTATATATACATATGTGTGTATATATAGTGTATATATACATA"	"TGTATATATGTGTGTGTATATATAGTGTATATATACATATGTGTGTATATATAGTGTATATATACATA"	"-"	"novel"	NA	"284"	"W0006060F"	"TGTATATATGTGTGTGTATATATAGTGTATATATACATATGTGTGTATATATAGTGTATATATACATA"	"TGTATATATGTGTGTGTATATATAGTGTATATATACATATGTGTGTATATATAGTGTATATATACATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.46-3848_46-3781delATATATGTGTGTGTATATATAGTGTATATATACATATGTGTGTATATATAGTGTATATATACATATGT"	""	""	"ENST00000519189"	""	105	"."	8	56	"."	0	"RP11-258J10.1,intron_variant,,ENST00000519189,;"	"-"	"ENSG00000254344"	"ENST00000519189"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/529"	""	""	""	""	""	"1"	NA	1	"RP11-258J10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTGTATATATGTGTGTGTATATATAGTGTATATATACATATGTGTGTATATATAGTGTATATATACATAT"	"4718bbce-fdd6-11e5-8c5e-d402424a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0761904761904762	"WGS"	FALSE
"8206"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	40920993	40921000	"+"	"IGR"	"DEL"	"AAAGAGAA"	"AAAGAGAA"	"-"	"novel"	NA	"284"	"W0006060F"	"AAAGAGAA"	"AAAGAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"."	5	40	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAAGAGAAA"	"7762fe0c-fdd6-11e5-8c5e-d402424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0746268656716418	"WGS"	FALSE
"8207"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	43448392	43448400	"+"	"IGR"	"DEL"	"TGTTTTATC"	"TGTTTTATC"	"GTTGGA"	"novel"	NA	"284"	"W0006060F"	"TGTTTTATC"	"TGTTTTATC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"."	8	59	"."	0	""	"GTTGGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTGTTTTATCA"	"e011e0e8-fde1-11e5-8c5e-d402424a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0851063829787234	"WGS"	FALSE
"8208"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	63048121	63048128	"+"	"IGR"	"DEL"	"CTTGGATT"	"CTTGGATT"	"ATA"	"novel"	NA	"284"	"W0006060F"	"CTTGGATT"	"CTTGGATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"."	8	50	"."	0	""	"ATA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCTTGGATTC"	"77726764-fde2-11e5-8c5e-d402424a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0898876404494382	"WGS"	FALSE
"8209"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	65334686	65335185	"+"	"IGR"	"DEL"	"TGTATGAATTACATCTCAATAAAGCTGTTTTTTCAAAAAAGGCAAAGCCAGATGAGTGCTGTAAAGGATTTGAATTGCCATGGTAAAAAGTAGAGTTCATCGGTGACAGCAAGGAGGGAGTTCAACCCGGACATCAGGAAAGACTTTACAGAAGAGTGATGCTAAGGCTGAGGCTTGAAATATGAGTGGGTGTTTATTGTCTCCAGGGATCCTTCTCCAATCCATTAGACACGCTGCTACCACAGTGATCTTTTAACAATTAAAATCTGATCGTGCTACAGAGAGGCACATAGGCATCTTCTAAGGCCCTGCTCATGTCCTGTTTCTTTCTGTGGGTTGAGGATACATGAGTGTTACTTTCTCTGTGTATACAAATTACAGTATATACATTTGTTGAAATAGATGATACTTTGCAAAATAAAAAATAATTTTATTATATGACTATCCTGCCTAAAATTACTCAATAGATTCACATCACTAACATGGTAGAGATTTCGCTG"	"TGTATGAATTACATCTCAATAAAGCTGTTTTTTCAAAAAAGGCAAAGCCAGATGAGTGCTGTAAAGGATTTGAATTGCCATGGTAAAAAGTAGAGTTCATCGGTGACAGCAAGGAGGGAGTTCAACCCGGACATCAGGAAAGACTTTACAGAAGAGTGATGCTAAGGCTGAGGCTTGAAATATGAGTGGGTGTTTATTGTCTCCAGGGATCCTTCTCCAATCCATTAGACACGCTGCTACCACAGTGATCTTTTAACAATTAAAATCTGATCGTGCTACAGAGAGGCACATAGGCATCTTCTAAGGCCCTGCTCATGTCCTGTTTCTTTCTGTGGGTTGAGGATACATGAGTGTTACTTTCTCTGTGTATACAAATTACAGTATATACATTTGTTGAAATAGATGATACTTTGCAAAATAAAAAATAATTTTATTATATGACTATCCTGCCTAAAATTACTCAATAGATTCACATCACTAACATGGTAGAGATTTCGCTG"	"CTTTGT"	"novel"	NA	"284"	"W0006060F"	"TGTATGAATTACATCTCAATAAAGCTGTTTTTTCAAAAAAGGCAAAGCCAGATGAGTGCTGTAAAGGATTTGAATTGCCATGGTAAAAAGTAGAGTTCATCGGTGACAGCAAGGAGGGAGTTCAACCCGGACATCAGGAAAGACTTTACAGAAGAGTGATGCTAAGGCTGAGGCTTGAAATATGAGTGGGTGTTTATTGTCTCCAGGGATCCTTCTCCAATCCATTAGACACGCTGCTACCACAGTGATCTTTTAACAATTAAAATCTGATCGTGCTACAGAGAGGCACATAGGCATCTTCTAAGGCCCTGCTCATGTCCTGTTTCTTTCTGTGGGTTGAGGATACATGAGTGTTACTTTCTCTGTGTATACAAATTACAGTATATACATTTGTTGAAATAGATGATACTTTGCAAAATAAAAAATAATTTTATTATATGACTATCCTGCCTAAAATTACTCAATAGATTCACATCACTAACATGGTAGAGATTTCGCTG"	"TGTATGAATTACATCTCAATAAAGCTGTTTTTTCAAAAAAGGCAAAGCCAGATGAGTGCTGTAAAGGATTTGAATTGCCATGGTAAAAAGTAGAGTTCATCGGTGACAGCAAGGAGGGAGTTCAACCCGGACATCAGGAAAGACTTTACAGAAGAGTGATGCTAAGGCTGAGGCTTGAAATATGAGTGGGTGTTTATTGTCTCCAGGGATCCTTCTCCAATCCATTAGACACGCTGCTACCACAGTGATCTTTTAACAATTAAAATCTGATCGTGCTACAGAGAGGCACATAGGCATCTTCTAAGGCCCTGCTCATGTCCTGTTTCTTTCTGTGGGTTGAGGATACATGAGTGTTACTTTCTCTGTGTATACAAATTACAGTATATACATTTGTTGAAATAGATGATACTTTGCAAAATAAAAAATAATTTTATTATATGACTATCCTGCCTAAAATTACTCAATAGATTCACATCACTAACATGGTAGAGATTTCGCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"."	26	37	"."	0	""	"CTTTGT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTGTATGAATTACATCTCAATAAAGCTGTTTTTTCAAAAAAGGCAAAGCCAGATGAGTGCTGTAAAGGATTTGAATTGCCATGGTAAAAAGTAGAGTTCATCGGTGACAGCAAGGAGGGAGTTCAACCCGGACATCAGGAAAGACTTTACAGAAGAGTGATGCTAAGGCTGAGGCTTGAAATATGAGTGGGTGTTTATTGTCTCCAGGGATCCTTCTCCAATCCATTAGACACGCTGCTACCACAGTGATCTTTTAACAATTAAAATCTGATCGTGCTACAGAGAGGCACATAGGCATCTTCTAAGGCCCTGCTCATGTCCTGTTTCTTTCTGTGGGTTGAGGATACATGAGTGTTACTTTCTCTGTGTATACAAATTACAGTATATACATTTGTTGAAATAGATGATACTTTGCAAAATAAAAAATAATTTTATTATATGACTATCCTGCCTAAAATTACTCAATAGATTCACATCACTAACATGGTAGAGATTTCGCTGT"	"7811ea96-fde2-11e5-8c5e-d402424a729f"	"1560"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.257425742574257	"WGS"	FALSE
"8210"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	77288226	77288226	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"."	5	59	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATG"	"514993e8-fde0-11e5-8c5e-d402424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0442477876106195	"WGS"	FALSE
"8211"	"RALYL"	138046	"mskcc.org"	"GRCh37"	"8"	85193731	85193770	"+"	"Intron"	"DEL"	"CCTCTCTTGAGCATATGGCACTGTTCATTCACCTGACTCT"	"CCTCTCTTGAGCATATGGCACTGTTCATTCACCTGACTCT"	"ATGTA"	"novel"	NA	"284"	"W0006060F"	"CCTCTCTTGAGCATATGGCACTGTTCATTCACCTGACTCT"	"CCTCTCTTGAGCATATGGCACTGTTCATTCACCTGACTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.16+96482_16+96521delCCTCTCTTGAGCATATGGCACTGTTCATTCACCTGACTCTinsATGTA"	""	""	"ENST00000517638"	""	77	"."	20	55	"."	0	"RALYL,intron_variant,,ENST00000521268,NM_173848.5;RALYL,intron_variant,,ENST00000518566,NM_001287243.1;RALYL,intron_variant,,ENST00000522455,NM_001100392.1;RALYL,intron_variant,,ENST00000517638,NM_001100391.1;RALYL,intron_variant,,ENST00000521695,NM_001100393.1;RALYL,intron_variant,,ENST00000522613,;RALYL,intron_variant,,ENST00000517988,;RALYL,intron_variant,,ENST00000522647,;"	"ATGTA"	"ENSG00000184672"	"ENST00000517638"	"Transcript"	"intron_variant"	"-/1972"	"-/915"	"-/304"	""	""	""	"1"	NA	1	"RALYL"	"HGNC"	27036	"protein_coding"	"YES"	"CCDS55252.1"	"ENSP00000430128"	""	"G3V129,E5RIX9,E5RG71"	"UPI00002108E6"	"NM_001100391.1"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTCCTCTCTTGAGCATATGGCACTGTTCATTCACCTGACTCTT"	"80847f22-fde2-11e5-8c5e-d402424a729f"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.25974025974026	"WGS"	FALSE
"8212"	"LINC00535"	642924	"mskcc.org"	"GRCh37"	"8"	94657069	94657070	"+"	"Intron"	"INS"	"-"	"-"	"ATATATAATTTAATTTATATATTTC"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.948+14585_948+14586insGAAATATATAAATTAAATTATATAT"	""	""	"ENST00000501400"	""	99	"."	5	51	"."	0	"LINC00535,intron_variant,,ENST00000501400,;ZNF317P1,upstream_gene_variant,,ENST00000521453,;"	"ATATATAATTTAATTTATATATTTC"	"ENSG00000246662"	"ENST00000501400"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1914"	""	""	""	""	""	"1"	NA	-1	"LINC00535"	"HGNC"	43644	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"5/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"8c52f17e-fde4-11e5-8c5e-d402424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0505050505050505	"WGS"	FALSE
"8213"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	111082263	111082263	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"rs755776932"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	150	"."	5	110	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs755776932"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"20d08e1e-fde1-11e5-8c5e-d402424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0333333333333333	"WGS"	FALSE
"8214"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	115932449	115932449	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"."	27	60	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"3297b514-fde1-11e5-8c5e-d402424a729f"	"1620"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.272727272727273	"WGS"	FALSE
"8215"	"RP11-398G24.2"	0	"mskcc.org"	"GRCh37"	"8"	123115365	123115383	"+"	"Intron"	"DEL"	"AGTATCTGCTTTTTTGGAC"	"AGTATCTGCTTTTTTGGAC"	"-"	"novel"	NA	"284"	"W0006060F"	"AGTATCTGCTTTTTTGGAC"	"AGTATCTGCTTTTTTGGAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.160+23881_160+23899delGTCCAAAAAAGCAGATACT"	""	""	"ENST00000523792"	""	88	"."	18	61	"."	0	"RP11-398G24.2,intron_variant,,ENST00000523792,;"	"-"	"ENSG00000254303"	"ENST00000523792"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/790"	""	""	""	""	""	"1"	NA	-1	"RP11-398G24.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAAGTATCTGCTTTTTTGGACA"	"58007606-fde1-11e5-8c5e-d402424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.204545454545455	"WGS"	FALSE
"8216"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	136972273	136972274	"+"	"IGR"	"INS"	"-"	"-"	"AAAAAAAG"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"."	5	61	"."	0	""	"AAAAAAAG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"5fa7c6da-fde5-11e5-8c5e-d402424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0531914893617021	"WGS"	FALSE
"8217"	"KANK1"	23189	"mskcc.org"	"GRCh37"	"9"	628929	628952	"+"	"Intron"	"DEL"	"AATTAGCTGGGCATGGTGATGGGC"	"AATTAGCTGGGCATGGTGATGGGC"	"TTAGCTGGGTGTGGTGGCGCACA"	"novel"	NA	"284"	"W0006060F"	"AATTAGCTGGGCATGGTGATGGGC"	"AATTAGCTGGGCATGGTGATGGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-83-47961_-83-47938delAATTAGCTGGGCATGGTGATGGGCinsTTAGCTGGGTGTGGTGGCGCACA"	""	""	"ENST00000382303"	""	68	"."	10	32	"."	0	"KANK1,intron_variant,,ENST00000382303,NM_001256876.1;KANK1,intron_variant,,ENST00000382297,NM_001256877.1,NM_015158.3;KANK1,intron_variant,,ENST00000489369,;KANK1,intron_variant,,ENST00000354485,;"	"TTAGCTGGGTGTGGTGGCGCACA"	"ENSG00000107104"	"ENST00000382303"	"Transcript"	"intron_variant"	"-/5581"	"-/4059"	"-/1352"	""	""	""	"1"	NA	1	"KANK1"	"HGNC"	19309	"protein_coding"	"YES"	"CCDS34976.1"	"ENSP00000371740"	"Q14678"	"Q8WUM7,Q53U93"	"UPI00001AF26E"	"NM_001256876.1"	NA	NA	""	"5/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAAATTAGCTGGGCATGGTGATGGGCG"	"e0c49188-fdd8-11e5-be27-6634424a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.147058823529412	"WGS"	FALSE
"8218"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	7547525	7547563	"+"	"IGR"	"DEL"	"TATATAACAATAAATATAGTATTACAACAATTTACATAG"	"TATATAACAATAAATATAGTATTACAACAATTTACATAG"	"GTATATATAACAATAAATATAGTATTACAACA"	"novel"	NA	"284"	"W0006060F"	"TATATAACAATAAATATAGTATTACAACAATTTACATAG"	"TATATAACAATAAATATAGTATTACAACAATTTACATAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"."	6	69	"."	0	""	"GTATATATAACAATAAATATAGTATTACAACA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATATATAACAATAAATATAGTATTACAACAATTTACATAGT"	"e5b7e2c6-fdd8-11e5-be27-6634424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0618556701030928	"WGS"	FALSE
"8219"	"PTPRD"	5789	"mskcc.org"	"GRCh37"	"9"	10526263	10526263	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-672+86135delT"	""	""	"ENST00000463477"	""	116	"."	19	43	"."	0	"PTPRD,intron_variant,,ENST00000463477,;"	"-"	"ENSG00000153707"	"ENST00000463477"	"Transcript"	"intron_variant"	"-/1697"	"-/609"	"-/202"	""	""	""	"1"	NA	-1	"PTPRD"	"HGNC"	9668	"protein_coding"	""	""	"ENSP00000417661"	""	"C9J8S8,C9J6E4"	"UPI0000211125"	""	NA	NA	""	"2/16"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"3e925498-fdd5-11e5-be27-6634424a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.163793103448276	"WGS"	FALSE
"8220"	"CNTLN"	54875	"mskcc.org"	"GRCh37"	"9"	17491887	17491930	"+"	"Intron"	"DEL"	"TTTGTAAATAGAATATACTACTAGCCTGAAGGTTAACTGAAAGT"	"TTTGTAAATAGAATATACTACTAGCCTGAAGGTTAACTGAAAGT"	"AGTTGCAGGGAG"	"novel"	NA	"284"	"W0006060F"	"TTTGTAAATAGAATATACTACTAGCCTGAAGGTTAACTGAAAGT"	"TTTGTAAATAGAATATACTACTAGCCTGAAGGTTAACTGAAAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4119+4823_4119+4866delTTTGTAAATAGAATATACTACTAGCCTGAAGGTTAACTGAAAGTinsAGTTGCAGGGAG"	""	""	"ENST00000380647"	""	100	"."	17	43	"."	0	"CNTLN,intron_variant,,ENST00000380647,;CNTLN,intron_variant,,ENST00000425824,NM_017738.2;CNTLN,intron_variant,,ENST00000262360,;"	"AGTTGCAGGGAG"	"ENSG00000044459"	"ENST00000380647"	"Transcript"	"intron_variant"	"-/5576"	"-/4221"	"-/1406"	""	""	""	"1"	NA	1	"CNTLN"	"HGNC"	23432	"protein_coding"	"YES"	"CCDS43789.1"	"ENSP00000370021"	"Q9NXG0"	""	"UPI0000458809"	""	NA	NA	""	"25/25"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTTGTAAATAGAATATACTACTAGCCTGAAGGTTAACTGAAAGTT"	"ea8c2a5a-fdd8-11e5-be27-6634424a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.17	"WGS"	FALSE
"8221"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	40123435	40123435	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"."	6	36	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGA"	"35c6884c-fdd6-11e5-be27-6634424a729f"	"114"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.101694915254237	"WGS"	FALSE
"8222"	"RP11-764K9.1"	0	"mskcc.org"	"GRCh37"	"9"	68410550	68410550	"+"	"5'Flank"	"DEL"	"C"	"C"	"-"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000417843"	""	148	"."	14	99	"."	0	"RP11-764K9.1,upstream_gene_variant,,ENST00000417843,;RNA5SP284,downstream_gene_variant,,ENST00000384547,;MIR4477A,upstream_gene_variant,,ENST00000581659,;LINC00537,downstream_gene_variant,,ENST00000455245,;"	"-"	"ENSG00000225411"	"ENST00000417843"	"Transcript"	"upstream_gene_variant"	"-/2878"	""	""	""	""	""	"1"	"657"	-1	"RP11-764K9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"8d31a6d4-fdd6-11e5-be27-6634424a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0945945945945946	"WGS"	FALSE
"8223"	"RP11-569G13.2"	0	"mskcc.org"	"GRCh37"	"9"	98860325	98860326	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTTTTTTTT"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.306+490_306+504dupTTTTTTTTTTTTTTT"	""	""	"ENST00000432783"	""	96	"."	5	57	"."	0	"RP11-569G13.2,intron_variant,,ENST00000432783,;"	"TTTTTTTTTTTTTTT"	"ENSG00000237212"	"ENST00000432783"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1577"	""	""	""	""	""	"1"	NA	1	"RP11-569G13.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"16"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7d27555e-fddb-11e5-be27-6634424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0520833333333333	"WGS"	FALSE
"8224"	"ZNF510"	22869	"mskcc.org"	"GRCh37"	"9"	99523013	99523022	"+"	"Intron"	"DEL"	"AGATAGAGGA"	"AGATAGAGGA"	"GGAAAGA"	"novel"	NA	"284"	"W0006060F"	"AGATAGAGGA"	"AGATAGAGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.353-261_353-254delCTCTATCTinsTTTCC"	""	""	"ENST00000375231"	""	94	"."	5	56	"."	0	"ZNF510,intron_variant,,ENST00000375231,;ZNF510,intron_variant,,ENST00000223428,NM_014930.1;ZNF510,downstream_gene_variant,,ENST00000374641,;ZNF510,downstream_gene_variant,,ENST00000472201,;"	"GGAAA"	"ENSG00000081386"	"ENST00000375231"	"Transcript"	"intron_variant"	"-/5616"	"-/2052"	"-/683"	""	""	""	"1"	NA	-1	"ZNF510"	"HGNC"	29161	"protein_coding"	"YES"	"CCDS35074.1"	"ENSP00000364379"	"Q9Y2H8"	"Q6NUI8"	"UPI0000139E9E"	""	NA	NA	""	"5/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGATAGAGGAA"	"2302b822-fdd9-11e5-be27-6634424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0531914893617021	"WGS"	FALSE
"8225"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	106724521	106724521	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"284"	"W0006060F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	14	56	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACA"	"be158940-fdd7-11e5-be27-6634424a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.152173913043478	"WGS"	FALSE
"8226"	"ENSR00001473700"	0	"mskcc.org"	"GRCh37"	"9"	111382962	111382962	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"284"	"W0006060F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001473700"	""	99	"."	18	59	"."	0	""	"-"	""	"ENSR00001473700"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGT"	"e40445ec-fdd7-11e5-be27-6634424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.181818181818182	"WGS"	FALSE
"8227"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	7820677	7820677	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"."	19	43	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"4569b162-fdd5-11e5-8e17-6534424a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.197916666666667	"WGS"	FALSE
"8228"	"MSL3"	10943	"mskcc.org"	"GRCh37"	"X"	11786575	11786576	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"284"	"W0006060F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1172-114dupA"	""	""	"ENST00000312196"	""	114	"."	17	55	"."	0	"MSL3,intron_variant,,ENST00000380693,NM_006800.3;MSL3,intron_variant,,ENST00000312196,NM_078629.3;MSL3,intron_variant,,ENST00000398527,NM_001193270.1;MSL3,intron_variant,,ENST00000361672,NM_001282174.1;MSL3,downstream_gene_variant,,ENST00000337339,NM_078628.1;MSL3,downstream_gene_variant,,ENST00000380692,;MSL3,intron_variant,,ENST00000467141,;MSL3,non_coding_transcript_exon_variant,,ENST00000473380,;MSL3,intron_variant,,ENST00000468149,;MSL3,intron_variant,,ENST00000380691,;MSL3,downstream_gene_variant,,ENST00000494268,;"	"A"	"ENSG00000005302"	"ENST00000312196"	"Transcript"	"intron_variant"	"-/2343"	"-/1566"	"-/521"	""	""	""	"1"	NA	1	"MSL3"	"HGNC"	7370	"protein_coding"	"YES"	"CCDS14147.1"	"ENSP00000312244"	"Q8N5Y2"	"F8WC61,B4E2T7,A6NLU8"	"UPI000006E6B7"	"NM_078629.3"	NA	NA	""	"9/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"1880789e-fdd9-11e5-8e17-6534424a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.149122807017544	"WGS"	FALSE
"8229"	"CASK"	8573	"mskcc.org"	"GRCh37"	"X"	41447228	41447233	"+"	"Intron"	"DEL"	"CCTGTG"	"CCTGTG"	"-"	"novel"	NA	"284"	"W0006060F"	"CCTGTG"	"CCTGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1234-993_1234-988delCACAGG"	""	""	"ENST00000378166"	""	101	"."	26	39	"."	0	"CASK,intron_variant,,ENST00000318588,;CASK,intron_variant,,ENST00000361962,;CASK,intron_variant,,ENST00000421587,NM_001126055.2;CASK,intron_variant,,ENST00000378163,;CASK,intron_variant,,ENST00000378158,;CASK,intron_variant,,ENST00000378166,NM_003688.3;CASK,intron_variant,,ENST00000378179,;CASK,intron_variant,,ENST00000442742,NM_001126054.2;CASK,intron_variant,,ENST00000378154,;"	"-"	"ENSG00000147044"	"ENST00000378166"	"Transcript"	"intron_variant"	"-/3123"	"-/2766"	"-/921"	""	""	""	"1"	NA	-1	"CASK"	"HGNC"	1497	"protein_coding"	"YES"	"CCDS14257.1"	"ENSP00000367408"	"O14936"	""	"UPI000013DA91"	"NM_003688.3"	NA	NA	""	"13/26"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AACCTGTGA"	"fda527f2-fdd5-11e5-8e17-6534424a729f"	"1560"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.257425742574257	"WGS"	FALSE
"8230"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	55147933	55147936	"+"	"IGR"	"DEL"	"TAAC"	"TAAC"	"-"	"novel"	NA	"284"	"W0006060F"	"TAAC"	"TAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"."	11	70	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTAACT"	"31de5e26-fdd6-11e5-8e17-6534424a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.127906976744186	"WGS"	FALSE
"8231"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	56192461	56192462	"+"	"IGR"	"DEL"	"AT"	"AT"	"-"	"novel"	NA	"284"	"W0006060F"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"."	19	51	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAATT"	"362a0eda-fdd6-11e5-8e17-6534424a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.202127659574468	"WGS"	FALSE
"8232"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	62296838	62296838	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"284"	"W0006060F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"."	16	56	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"3d03b958-fdd7-11e5-8e17-6534424a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.145454545454545	"WGS"	FALSE
"8233"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	68586000	68586002	"+"	"IGR"	"DEL"	"GAT"	"GAT"	"-"	"novel"	NA	"284"	"W0006060F"	"GAT"	"GAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"."	14	54	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGATG"	"4ea30b96-fdd7-11e5-8e17-6534424a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.148936170212766	"WGS"	FALSE
"8234"	"HK2P1"	0	"mskcc.org"	"GRCh37"	"X"	79832054	79832073	"+"	"5'Flank"	"DEL"	"ACAGAGGTTCACTTGTCTCA"	"ACAGAGGTTCACTTGTCTCA"	"TTACCCCACAGAGG"	"novel"	NA	"284"	"W0006060F"	"ACAGAGGTTCACTTGTCTCA"	"ACAGAGGTTCACTTGTCTCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000447818"	""	81	"."	14	61	"."	0	"HK2P1,upstream_gene_variant,,ENST00000447818,;"	"TTACCCCACAGAGG"	"ENSG00000228612"	"ENST00000447818"	"Transcript"	"upstream_gene_variant"	"-/2737"	""	""	""	""	""	"1"	"1948"	-1	"HK2P1"	"HGNC"	4924	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTACAGAGGTTCACTTGTCTCAT"	"bbcd45f0-fdd8-11e5-8e17-6534424a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.172839506172839	"WGS"	FALSE
"8235"	"HDX"	139324	"mskcc.org"	"GRCh37"	"X"	83640205	83640209	"+"	"Intron"	"DEL"	"TTTTT"	"TTTTT"	"-"	"rs146043472"	NA	"284"	"W0006060F"	"TTTTT"	"TTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1306-23589_1306-23585delAAAAA"	""	""	"ENST00000297977"	""	104	"."	9	69	"."	0	"HDX,intron_variant,,ENST00000297977,NM_001177479.1,NM_144657.4;HDX,intron_variant,,ENST00000506585,NM_001177478.1;HDX,intron_variant,,ENST00000373177,;"	"-"	"ENSG00000165259"	"ENST00000297977"	"Transcript"	"intron_variant"	"-/6200"	"-/2073"	"-/690"	""	""	"rs146043472"	"1"	NA	-1	"HDX"	"HGNC"	26411	"protein_coding"	"YES"	"CCDS35342.1"	"ENSP00000297977"	"Q7Z353"	"E2QRN0"	"UPI00001A9DA4"	"NM_001177479.1,NM_144657.4"	NA	NA	""	"4/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTTTT"	"81fd7940-fdd7-11e5-8e17-6534424a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0865384615384615	"WGS"	FALSE
"8236"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	86937873	86937916	"+"	"IGR"	"DEL"	"ATATCTCTGTGCCCCAATCCCTTATTTCTGCACCCCAACCTCTT"	"ATATCTCTGTGCCCCAATCCCTTATTTCTGCACCCCAACCTCTT"	"-"	"novel"	NA	"284"	"W0006060F"	"ATATCTCTGTGCCCCAATCCCTTATTTCTGCACCCCAACCTCTT"	"ATATCTCTGTGCCCCAATCCCTTATTTCTGCACCCCAACCTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"."	6	32	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCATATCTCTGTGCCCCAATCCCTTATTTCTGCACCCCAACCTCTTA"	"8fc97fce-fdd7-11e5-8e17-6534424a729f"	"291"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0769230769230769	"WGS"	FALSE
"8237"	"RP1-249C1.1"	0	"mskcc.org"	"GRCh37"	"X"	88078838	88078838	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000604698"	""	103	"."	18	73	"."	0	"RP1-249C1.1,downstream_gene_variant,,ENST00000604698,;"	"-"	"ENSG00000271157"	"ENST00000604698"	"Transcript"	"downstream_gene_variant"	"-/785"	""	""	""	""	""	"1"	"3717"	-1	"RP1-249C1.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"95915026-fdd7-11e5-8e17-6534424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.174757281553398	"WGS"	FALSE
"8238"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	94650408	94650408	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"284"	"W0006060F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	16	56	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"b406f196-fdd7-11e5-8e17-6534424a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.173913043478261	"WGS"	FALSE
"8239"	"FAM199X"	139231	"mskcc.org"	"GRCh37"	"X"	103436303	103436308	"+"	"3'UTR"	"DEL"	"CTAAAT"	"CTAAAT"	"GTTAC"	"rs386826740"	NA	"284"	"W0006060F"	"CTAAAT"	"CTAAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1844_*1849delCTAAATinsGTTAC"	""	""	"ENST00000493442"	"6/6"	92	"."	11	46	"."	0	"FAM199X,3_prime_UTR_variant,,ENST00000493442,NM_207318.3;FAM199X,downstream_gene_variant,,ENST00000299906,;"	"GTTAC"	"ENSG00000123575"	"ENST00000493442"	"Transcript"	"3_prime_UTR_variant"	"3177-3182/7457"	"-/1167"	"-/388"	""	""	"rs386826740"	"1"	NA	1	"FAM199X"	"HGNC"	25195	"protein_coding"	"YES"	"CCDS35364.1"	"ENSP00000417581"	"Q6PEV8"	"B0QYU2"	"UPI00001C2069"	"NM_207318.3"	NA	NA	"6/6"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCTAAATT"	"c2db3456-fdd8-11e5-8e17-6534424a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.119565217391304	"WGS"	FALSE
"8240"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	108344048	108344052	"+"	"IGR"	"DEL"	"CTTAA"	"CTTAA"	"-"	"novel"	NA	"284"	"W0006060F"	"CTTAA"	"CTTAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"."	15	51	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACCTTAAC"	"e1141bf0-fdd7-11e5-8e17-6534424a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.161290322580645	"WGS"	FALSE
"8241"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	115928385	115928548	"+"	"IGR"	"DEL"	"ATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATATACTC"	"ATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATATACTC"	"-"	"novel"	NA	"284"	"W0006060F"	"ATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATATACTC"	"ATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATATACTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	64	"."	5	35	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATATACTCATATATATACTCATATATATATACTCA"	"06ca8a82-fdd8-11e5-8e17-6534424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.078125	"WGS"	FALSE
"8242"	"IGSF1"	3547	"mskcc.org"	"GRCh37"	"X"	130509376	130509378	"+"	"Intron"	"DEL"	"ATT"	"ATT"	"-"	"novel"	NA	"284"	"W0006060F"	"ATT"	"ATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-649-6352_-649-6350delAAT"	""	""	"ENST00000370904"	""	96	"."	19	57	"."	0	"IGSF1,intron_variant,,ENST00000370904,;"	"-"	"ENSG00000147255"	"ENST00000370904"	"Transcript"	"intron_variant"	"-/5180"	"-/3984"	"-/1327"	""	""	""	"1"	NA	-1	"IGSF1"	"HGNC"	5948	"protein_coding"	""	"CCDS55490.1"	"ENSP00000359941"	"Q8N6C5"	""	"UPI0000070547"	""	NA	NA	""	"2/25"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGATTA"	"35cd1d7c-fdd8-11e5-8e17-6534424a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.197916666666667	"WGS"	FALSE
"8243"	"CLIC2"	1193	"mskcc.org"	"GRCh37"	"X"	154546621	154546624	"+"	"Intron"	"DEL"	"AGTT"	"AGTT"	"-"	"novel"	NA	"284"	"W0006060F"	"AGTT"	"AGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.57+17056_57+17059delAACT"	""	""	"ENST00000369449"	""	92	"."	16	53	"."	0	"CLIC2,intron_variant,,ENST00000369449,NM_001289.4;CLIC2,intron_variant,,ENST00000321926,;CLIC2,intron_variant,,ENST00000465553,;CLIC2,intron_variant,,ENST00000491205,;"	"-"	"ENSG00000155962"	"ENST00000369449"	"Transcript"	"intron_variant"	"-/2655"	"-/744"	"-/247"	""	""	""	"1"	NA	-1	"CLIC2"	"HGNC"	2063	"protein_coding"	"YES"	"CCDS14767.1"	"ENSP00000358460"	"O15247"	""	"UPI0000169FC8"	"NM_001289.4"	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAGTTA"	"8daa1842-fdd8-11e5-8e17-6534424a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.173913043478261	"WGS"	FALSE
"8244"	"RP5-857K21.3"	0	"mskcc.org"	"GRCh37"	"1"	537613	537613	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"rs375637635"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000357876"	""	32	"28"	4	23	"23"	0	"RP5-857K21.4,intron_variant,,ENST00000440200,;RP5-857K21.3,upstream_gene_variant,,ENST00000357876,;"	"G"	"ENSG00000239664"	"ENST00000357876"	"Transcript"	"upstream_gene_variant"	"-/498"	""	""	""	""	"rs375637635"	"1"	"4735"	-1	"RP5-857K21.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"0f1eadea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"8245"	"RP11-206L10.2"	101929540	"mskcc.org"	"GRCh37"	"1"	705881	705881	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs116763968"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.586-789G>A"	""	""	"ENST00000428504"	""	49	"42"	7	26	"26"	0	"RP11-206L10.2,intron_variant,,ENST00000428504,;"	"T"	"ENSG00000228327"	"ENST00000428504"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1317"	""	""	""	""	"rs116763968"	"1"	NA	-1	"RP11-206L10.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/6"	""	"T:0.0407"	"T:0.143"	"T:0.013"	NA	"T:0"	"T:0.005"	"T:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"0f1ed57c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"8246"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	922738	922738	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"60"	6	37	"37"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"0f1f6a5a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"8247"	"DVL1"	1855	"mskcc.org"	"GRCh37"	"1"	1285386	1285386	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000378891"	""	25	"22"	3	14	"14"	0	"DVL1,upstream_gene_variant,,ENST00000378888,;DVL1,upstream_gene_variant,,ENST00000378891,NM_004421.2;MXRA8,downstream_gene_variant,,ENST00000477278,NM_001282583.1;MXRA8,downstream_gene_variant,,ENST00000309212,NM_032348.2,NM_001282582.1;MXRA8,downstream_gene_variant,,ENST00000445648,NM_001282585.1;MXRA8,downstream_gene_variant,,ENST00000342753,NM_001282584.1;MXRA8,downstream_gene_variant,,ENST00000474033,;MXRA8,downstream_gene_variant,,ENST00000476718,;MXRA8,downstream_gene_variant,,ENST00000473097,;MXRA8,downstream_gene_variant,,ENST00000478517,;DVL1,upstream_gene_variant,,ENST00000472445,;MXRA8,downstream_gene_variant,,ENST00000464351,;"	"T"	"ENSG00000107404"	"ENST00000378891"	"Transcript"	"upstream_gene_variant"	"-/2926"	"-/2013"	"-/670"	""	""	""	"1"	"894"	-1	"DVL1"	"HGNC"	3084	"protein_coding"	"YES"	"CCDS22.1"	"ENSP00000368169"	"O14640"	"Q6PJD6,B7Z6B5,B7Z1E8"	"UPI000013D455"	"NM_004421.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"0f1fc18a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"8248"	"PLCH2"	9651	"mskcc.org"	"GRCh37"	"1"	2393779	2393779	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.116-16136C>T"	""	""	"ENST00000609981"	""	51	"46"	5	27	"27"	0	"PLCH2,intron_variant,,ENST00000609981,;"	"T"	"ENSG00000149527"	"ENST00000609981"	"Transcript"	"intron_variant"	"-/568"	"-/333"	"-/111"	""	""	""	"1"	NA	1	"PLCH2"	"HGNC"	29037	"protein_coding"	""	""	"ENSP00000476436"	""	""	"UPI0003B92842"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"0f20acf8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0980392156862745	"WGS"	FALSE
"8249"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	5322430	5322430	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"65"	10	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"0f22da28-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"8250"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	5343243	5343243	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"88"	14	41	"41"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"0f22dad2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137254901960784	"WGS"	FALSE
"8251"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	5764113	5764113	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"59"	7	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"0f231a4c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106060606060606	"WGS"	FALSE
"8252"	"KCNAB2"	8514	"mskcc.org"	"GRCh37"	"1"	6127821	6127821	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.219-4994G>A"	""	""	"ENST00000378083"	""	103	"80"	23	57	"57"	0	"KCNAB2,intron_variant,,ENST00000164247,NM_001199860.1;KCNAB2,intron_variant,,ENST00000378097,NM_001199861.1;KCNAB2,intron_variant,,ENST00000378083,NM_001199862.1;KCNAB2,intron_variant,,ENST00000341524,NM_003636.3;KCNAB2,intron_variant,,ENST00000352527,NM_172130.2;KCNAB2,intron_variant,,ENST00000602612,;KCNAB2,intron_variant,,ENST00000458166,NM_001199863.1;KCNAB2,intron_variant,,ENST00000378092,;KCNAB2,intron_variant,,ENST00000428161,;KCNAB2,intron_variant,,ENST00000389632,;KCNAB2,intron_variant,,ENST00000378111,;KCNAB2,intron_variant,,ENST00000378087,;KCNAB2,intron_variant,,ENST00000472700,;KCNAB2,intron_variant,,ENST00000435937,;KCNAB2,intron_variant,,ENST00000445501,;KCNAB2,intron_variant,,ENST00000478098,;"	"A"	"ENSG00000069424"	"ENST00000378083"	"Transcript"	"intron_variant"	"-/4142"	"-/1248"	"-/415"	""	""	""	"1"	NA	1	"KCNAB2"	"HGNC"	6229	"protein_coding"	"YES"	"CCDS55570.1"	"ENSP00000367323"	"Q13303"	""	"UPI000035E741"	"NM_001199862.1"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"0f2354c6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223300970873786	"WGS"	FALSE
"8253"	"CHD5"	26038	"mskcc.org"	"GRCh37"	"1"	6198272	6198272	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2437-1347G>T"	""	""	"ENST00000262450"	""	99	"82"	17	50	"50"	0	"CHD5,intron_variant,,ENST00000262450,NM_015557.2;CHD5,intron_variant,,ENST00000378021,;CHD5,intron_variant,,ENST00000496404,;CHD5,intron_variant,,ENST00000462991,;"	"A"	"ENSG00000116254"	"ENST00000262450"	"Transcript"	"intron_variant"	"-/9646"	"-/5865"	"-/1954"	""	""	""	"1"	NA	-1	"CHD5"	"HGNC"	16816	"protein_coding"	"YES"	"CCDS57.1"	"ENSP00000262450"	"Q8TDI0"	""	"UPI000006CD03"	"NM_015557.2"	""	""	""	"15/41"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"0f235b92-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171717171717172	"WGS"	FALSE
"8254"	"RERE"	473	"mskcc.org"	"GRCh37"	"1"	8410717	8410717	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000337907"	""	70	"62"	8	34	"34"	0	"RERE,downstream_gene_variant,,ENST00000337907,NM_012102.3;RERE,downstream_gene_variant,,ENST00000377464,;RERE,downstream_gene_variant,,ENST00000400908,NM_001042681.1;RERE,downstream_gene_variant,,ENST00000476556,NM_001042682.1;RERE,downstream_gene_variant,,ENST00000400907,;RERE,downstream_gene_variant,,ENST00000505225,;RERE,downstream_gene_variant,,ENST00000467350,;"	"C"	"ENSG00000142599"	"ENST00000337907"	"Transcript"	"downstream_gene_variant"	"-/8026"	"-/4701"	"-/1566"	""	""	""	"1"	"1740"	-1	"RERE"	"HGNC"	9965	"protein_coding"	"YES"	"CCDS95.1"	"ENSP00000338629"	"Q9P2R6"	"K7EJQ1,K7EIQ4,K7EIE3"	"UPI00001419CC"	"NM_012102.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"0f244674-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"8255"	"SLC2A5"	6518	"mskcc.org"	"GRCh37"	"1"	9091794	9091794	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000377424"	""	104	"84"	20	55	"55"	0	"SLC2A5,downstream_gene_variant,,ENST00000377424,NM_003039.2;"	"T"	"ENSG00000142583"	"ENST00000377424"	"Transcript"	"downstream_gene_variant"	"-/4165"	"-/1506"	"-/501"	""	""	""	"1"	"3372"	-1	"SLC2A5"	"HGNC"	11010	"protein_coding"	"YES"	"CCDS99.1"	"ENSP00000366641"	"P22732"	"K7EQI3,K7EJZ0,K7EJR1,K7EIT1,B4DXN5,B4DT82"	"UPI00000532AC"	"NM_003039.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"0f247bc6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WGS"	FALSE
"8256"	"SPSB1"	80176	"mskcc.org"	"GRCh37"	"1"	9408066	9408066	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs550783461"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-149-7736C>T"	""	""	"ENST00000328089"	""	98	"87"	11	46	"46"	0	"SPSB1,intron_variant,,ENST00000328089,NM_025106.3;SPSB1,intron_variant,,ENST00000450402,;SPSB1,upstream_gene_variant,,ENST00000357898,;"	"T"	"ENSG00000171621"	"ENST00000328089"	"Transcript"	"intron_variant"	"-/3120"	"-/822"	"-/273"	""	""	"rs550783461"	"1"	NA	1	"SPSB1"	"HGNC"	30628	"protein_coding"	"YES"	"CCDS102.1"	"ENSP00000330221"	"Q96BD6"	"A2A276"	"UPI000006D00B"	"NM_025106.3"	""	""	""	"1/2"	""	"T:0.0006"	"T:0.0023"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"0f24a38a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112244897959184	"WGS"	FALSE
"8257"	"UBE4B"	10277	"mskcc.org"	"GRCh37"	"1"	10124337	10124337	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.25-7749G>C"	""	""	"ENST00000343090"	""	105	"85"	20	52	"52"	0	"UBE4B,intron_variant,,ENST00000377157,NM_006048.4;UBE4B,intron_variant,,ENST00000343090,NM_001105562.2;UBE4B,intron_variant,,ENST00000253251,;UBE4B,intron_variant,,ENST00000377153,;PGAM1P11,downstream_gene_variant,,ENST00000416729,;"	"C"	"ENSG00000130939"	"ENST00000343090"	"Transcript"	"intron_variant"	"-/5267"	"-/3909"	"-/1302"	""	""	""	"1"	NA	1	"UBE4B"	"HGNC"	12500	"protein_coding"	"YES"	"CCDS41245.1"	"ENSP00000343001"	"O95155"	""	"UPI0000137944"	"NM_001105562.2"	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"0f24f074-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"8258"	"UBE4B"	10277	"mskcc.org"	"GRCh37"	"1"	10210791	10210791	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2691-593A>G"	""	""	"ENST00000343090"	""	75	"66"	9	40	"40"	0	"UBE4B,intron_variant,,ENST00000377157,NM_006048.4;UBE4B,intron_variant,,ENST00000343090,NM_001105562.2;UBE4B,intron_variant,,ENST00000253251,;"	"G"	"ENSG00000130939"	"ENST00000343090"	"Transcript"	"intron_variant"	"-/5267"	"-/3909"	"-/1302"	""	""	""	"1"	NA	1	"UBE4B"	"HGNC"	12500	"protein_coding"	"YES"	"CCDS41245.1"	"ENSP00000343001"	"O95155"	""	"UPI0000137944"	"NM_001105562.2"	""	""	""	"20/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"0f24f858-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"8259"	"MTOR"	2475	"mskcc.org"	"GRCh37"	"1"	11292604	11292604	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2422-19C>G"	""	""	"ENST00000361445"	""	98	"76"	22	57	"57"	0	"MTOR,intron_variant,,ENST00000361445,NM_004958.3;RPL39P6,upstream_gene_variant,,ENST00000448289,;"	"C"	"ENSG00000198793"	"ENST00000361445"	"Transcript"	"intron_variant"	"-/8677"	"-/7650"	"-/2549"	""	""	""	"1"	NA	-1	"MTOR"	"HGNC"	3942	"protein_coding"	"YES"	"CCDS127.1"	"ENSP00000354558"	"P42345"	"Q96QW8,B1AKQ2,B1AKP8"	"UPI000012ABD3"	"NM_004958.3"	""	""	""	"15/57"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"0f255942-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224489795918367	"WGS"	TRUE
"8260"	"LRRC38"	126755	"mskcc.org"	"GRCh37"	"1"	13802473	13802473	"+"	"Silent"	"SNP"	"G"	"G"	"A"	"rs771667906"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.726C>T"	"p.="	"p.S242S"	"ENST00000376085"	"2/2"	83	"68"	15	44	"44"	0	"LRRC38,synonymous_variant,p.=,ENST00000376085,NM_001010847.1;"	"A"	"ENSG00000162494"	"ENST00000376085"	"Transcript"	"synonymous_variant"	"1181/2209"	"726/885"	"242/294"	"S"	"agC/agT"	"rs771667906"	"1"	NA	-1	"LRRC38"	"HGNC"	27005	"protein_coding"	"YES"	"CCDS53269.1"	"ENSP00000365253"	"Q5VT99"	""	"UPI00001C1D7E"	"NM_001010847.1"	""	""	"2/2"	""	"hmmpanther:PTHR24373"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"0f263d8a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180722891566265	"WGS"	FALSE
"8261"	"RP11-169K16.4"	0	"mskcc.org"	"GRCh37"	"1"	16080411	16080411	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000418525"	""	92	"70"	22	50	"50"	0	"FBLIM1,upstream_gene_variant,,ENST00000375766,NM_017556.2;FBLIM1,upstream_gene_variant,,ENST00000375771,;FBLIM1,upstream_gene_variant,,ENST00000400773,;FBLIM1,upstream_gene_variant,,ENST00000496928,;FBLIM1,upstream_gene_variant,,ENST00000508310,;FBLIM1,upstream_gene_variant,,ENST00000502638,;FBLIM1,upstream_gene_variant,,ENST00000431771,;FBLIM1,upstream_gene_variant,,ENST00000510393,;FBLIM1,upstream_gene_variant,,ENST00000483633,;FBLIM1,upstream_gene_variant,,ENST00000502739,;FBLIM1,upstream_gene_variant,,ENST00000510929,;FBLIM1,upstream_gene_variant,,ENST00000430076,;RP11-169K16.4,upstream_gene_variant,,ENST00000418525,;"	"A"	"ENSG00000224459"	"ENST00000418525"	"Transcript"	"upstream_gene_variant"	"-/639"	""	""	""	""	""	"1"	"4020"	-1	"RP11-169K16.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"0f26bfe4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239130434782609	"WGS"	FALSE
"8262"	"RP11-169K16.6"	0	"mskcc.org"	"GRCh37"	"1"	16117575	16117575	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000431782"	""	69	"63"	6	33	"33"	0	"FBLIM1,downstream_gene_variant,,ENST00000375766,NM_017556.2;FBLIM1,downstream_gene_variant,,ENST00000375771,;FBLIM1,downstream_gene_variant,,ENST00000400773,;RP11-169K16.6,upstream_gene_variant,,ENST00000431782,;"	"C"	"ENSG00000224321"	"ENST00000431782"	"Transcript"	"upstream_gene_variant"	"-/490"	""	""	""	""	""	"1"	"1716"	1	"RP11-169K16.6"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"0f26c64c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"8263"	"RP11-169K16.6"	0	"mskcc.org"	"GRCh37"	"1"	16117586	16117586	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000431782"	""	70	"62"	8	30	"30"	0	"FBLIM1,downstream_gene_variant,,ENST00000375766,NM_017556.2;FBLIM1,downstream_gene_variant,,ENST00000375771,;FBLIM1,downstream_gene_variant,,ENST00000400773,;RP11-169K16.6,upstream_gene_variant,,ENST00000431782,;"	"T"	"ENSG00000224321"	"ENST00000431782"	"Transcript"	"upstream_gene_variant"	"-/490"	""	""	""	""	""	"1"	"1705"	1	"RP11-169K16.6"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"0f26c6ec-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"8264"	"SZRD1"	26099	"mskcc.org"	"GRCh37"	"1"	16687437	16687437	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.362+7519T>A"	""	""	"ENST00000475078"	""	83	"63"	20	48	"48"	0	"SZRD1,intron_variant,,ENST00000475078,;"	"A"	"ENSG00000055070"	"ENST00000475078"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/490"	""	""	""	""	""	"1"	NA	1	"SZRD1"	"HGNC"	30232	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"0f27059e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240963855421687	"WGS"	FALSE
"8265"	"SZRD1"	26099	"mskcc.org"	"GRCh37"	"1"	16688413	16688413	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.362+8495A>T"	""	""	"ENST00000475078"	""	81	"73"	8	38	"38"	0	"SZRD1,intron_variant,,ENST00000475078,;"	"T"	"ENSG00000055070"	"ENST00000475078"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/490"	""	""	""	""	""	"1"	NA	1	"SZRD1"	"HGNC"	30232	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"0f2706e8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0987654320987654	"WGS"	FALSE
"8266"	"SZRD1"	26099	"mskcc.org"	"GRCh37"	"1"	16688415	16688415	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.362+8497T>C"	""	""	"ENST00000475078"	""	76	"66"	10	34	"34"	0	"SZRD1,intron_variant,,ENST00000475078,;"	"C"	"ENSG00000055070"	"ENST00000475078"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/490"	""	""	""	""	""	"1"	NA	1	"SZRD1"	"HGNC"	30232	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"0f270792-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WGS"	FALSE
"8267"	"UBR4"	23352	"mskcc.org"	"GRCh37"	"1"	19449889	19449889	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9589-335C>T"	""	""	"ENST00000375254"	""	82	"66"	16	36	"36"	0	"UBR4,intron_variant,,ENST00000375267,;UBR4,intron_variant,,ENST00000375254,NM_020765.2;UBR4,intron_variant,,ENST00000375217,;UBR4,intron_variant,,ENST00000375226,;UBR4,intron_variant,,ENST00000417040,;UBR4,intron_variant,,ENST00000425413,;UBR4,upstream_gene_variant,,ENST00000375218,;UBR4,downstream_gene_variant,,ENST00000475973,;"	"A"	"ENSG00000127481"	"ENST00000375254"	"Transcript"	"intron_variant"	"-/15906"	"-/15552"	"-/5183"	""	""	""	"1"	NA	-1	"UBR4"	"HGNC"	30313	"protein_coding"	"YES"	"CCDS189.1"	"ENSP00000364403"	"Q5T4S7"	"Q96HY5"	"UPI000021276F"	"NM_020765.2"	""	""	""	"65/105"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"0f291ec4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195121951219512	"WGS"	FALSE
"8268"	"USP48"	84196	"mskcc.org"	"GRCh37"	"1"	22114579	22114579	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000308271"	""	87	"68"	19	36	"36"	0	"USP48,upstream_gene_variant,,ENST00000308271,NM_032236.5;USP48,upstream_gene_variant,,ENST00000400301,;USP48,upstream_gene_variant,,ENST00000421625,NM_001032730.1;USP48,upstream_gene_variant,,ENST00000532737,;"	"T"	"ENSG00000090686"	"ENST00000308271"	"Transcript"	"upstream_gene_variant"	"-/4595"	"-/3108"	"-/1035"	""	""	""	"1"	"4480"	-1	"USP48"	"HGNC"	18533	"protein_coding"	"YES"	"CCDS30623.1"	"ENSP00000309262"	"Q86UV5"	"E9PRY5,E9PJH5,E9PJ87"	"UPI0000192195"	"NM_032236.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"0f29e444-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218390804597701	"WGS"	FALSE
"8269"	"EPHB2"	2048	"mskcc.org"	"GRCh37"	"1"	23069586	23069586	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.61+32050T>A"	""	""	"ENST00000374632"	""	90	"83"	7	53	"53"	0	"EPHB2,intron_variant,,ENST00000400191,NM_004442.6,NM_017449.3;EPHB2,intron_variant,,ENST00000374632,;EPHB2,intron_variant,,ENST00000374630,;EPHB2,intron_variant,,ENST00000544305,;"	"A"	"ENSG00000133216"	"ENST00000374632"	"Transcript"	"intron_variant"	"-/3677"	"-/2964"	"-/987"	""	""	""	"1"	NA	1	"EPHB2"	"HGNC"	3393	"protein_coding"	"YES"	"CCDS230.1"	"ENSP00000363763"	"P29323"	""	"UPI000016135C"	""	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"0f2a4434-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0777777777777778	"WGS"	FALSE
"8270"	"LUZP1"	7798	"mskcc.org"	"GRCh37"	"1"	23411043	23411043	"+"	"3'UTR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*4345G>A"	""	""	"ENST00000302291"	"5/5"	90	"76"	14	55	"55"	0	"LUZP1,3_prime_UTR_variant,,ENST00000302291,;LUZP1,3_prime_UTR_variant,,ENST00000418342,NM_001142546.1,NM_033631.3;LUZP1,3_prime_UTR_variant,,ENST00000374623,NM_033631.3;KDM1A,downstream_gene_variant,,ENST00000400181,NM_001009999.2;KDM1A,downstream_gene_variant,,ENST00000542151,;KDM1A,downstream_gene_variant,,ENST00000356634,NM_015013.3;KDM1A,downstream_gene_variant,,ENST00000494920,;KDM1A,downstream_gene_variant,,ENST00000465864,;RP1-184J9.2,intron_variant,,ENST00000427154,;KDM1A,downstream_gene_variant,,ENST00000602503,;"	"T"	"ENSG00000169641"	"ENST00000302291"	"Transcript"	"3_prime_UTR_variant"	"8378/8898"	"-/3231"	"-/1076"	""	""	""	"1"	NA	-1	"LUZP1"	"HGNC"	14985	"protein_coding"	"YES"	"CCDS30628.1"	"ENSP00000303758"	"Q86V48"	"E5RHU7,E5RFK8"	"UPI000020466A"	""	""	""	"5/5"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"0f2a5b40-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155555555555556	"WGS"	FALSE
"8271"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	23558784	23558784	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"84"	6	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"0f2a643c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"8272"	"ID3"	3399	"mskcc.org"	"GRCh37"	"1"	23882441	23882441	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000374561"	""	82	"62"	20	51	"51"	0	"ID3,downstream_gene_variant,,ENST00000374561,NM_002167.4;ID3,downstream_gene_variant,,ENST00000486541,;ID3,downstream_gene_variant,,ENST00000463312,;"	"A"	"ENSG00000117318"	"ENST00000374561"	"Transcript"	"downstream_gene_variant"	"-/1251"	"-/360"	"-/119"	""	""	""	"1"	"1968"	-1	"ID3"	"HGNC"	5362	"protein_coding"	"YES"	"CCDS237.1"	"ENSP00000363689"	"Q02535"	""	"UPI000016A132"	"NM_002167.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"0f2a90b0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24390243902439	"WGS"	FALSE
"8273"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	26834577	26834577	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"53"	6	43	"43"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"0f2b7872-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101694915254237	"WGS"	FALSE
"8274"	"SLC9A1"	6548	"mskcc.org"	"GRCh37"	"1"	27498165	27498165	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000374084"	""	70	"63"	7	28	"28"	0	"SLC9A1,upstream_gene_variant,,ENST00000374084,;"	"C"	"ENSG00000090020"	"ENST00000374084"	"Transcript"	"upstream_gene_variant"	"-/695"	"-/406"	"-/135"	""	""	""	"1"	"4693"	-1	"SLC9A1"	"HGNC"	11071	"protein_coding"	""	""	"ENSP00000363197"	""	"B1ALD5"	"UPI0002A4763C"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"0f2bb10c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"8275"	"EPB41"	2035	"mskcc.org"	"GRCh37"	"1"	29320936	29320936	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.681+882G>A"	""	""	"ENST00000343067"	""	84	"68"	16	43	"43"	0	"EPB41,intron_variant,,ENST00000343067,NM_001166005.1;EPB41,intron_variant,,ENST00000373798,;EPB41,intron_variant,,ENST00000356093,NM_001166007.1;EPB41,intron_variant,,ENST00000398863,;EPB41,intron_variant,,ENST00000349460,NM_203342.2;EPB41,intron_variant,,ENST00000373800,NM_004437.3;EPB41,intron_variant,,ENST00000347529,NM_203343.2;EPB41,intron_variant,,ENST00000373797,NM_001166006.1;EPB41,downstream_gene_variant,,ENST00000482464,;"	"A"	"ENSG00000159023"	"ENST00000343067"	"Transcript"	"intron_variant"	"-/5930"	"-/2595"	"-/864"	""	""	""	"1"	NA	1	"EPB41"	"HGNC"	3377	"protein_coding"	"YES"	"CCDS53288.1"	"ENSP00000345259"	"P11171"	""	"UPI000014177D"	"NM_001166005.1"	""	""	""	"3/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"0f2c9de2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"8276"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	30244660	30244660	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"65"	20	54	"53"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"0f2ce630-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"8277"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	30555867	30555867	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"68"	19	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"0f2cfca6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218390804597701	"WGS"	FALSE
"8278"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	31604961	31604961	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"45"	9	22	"22"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"0f2d4e2c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"8279"	"LCK"	3932	"mskcc.org"	"GRCh37"	"1"	32733756	32733756	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-5-6170C>T"	""	""	"ENST00000336890"	""	58	"52"	6	35	"35"	0	"LCK,intron_variant,,ENST00000336890,NM_005356.3;LCK,intron_variant,,ENST00000495610,;LCK,intron_variant,,ENST00000482949,;LCK,intron_variant,,ENST00000469765,;LCK,intron_variant,,ENST00000355928,;LCK,intron_variant,,ENST00000476457,;"	"T"	"ENSG00000182866"	"ENST00000336890"	"Transcript"	"intron_variant"	"-/2117"	"-/1530"	"-/509"	""	""	""	"1"	NA	1	"LCK"	"HGNC"	6524	"protein_coding"	"YES"	"CCDS359.1"	"ENSP00000337825"	"P06239"	"F8W6B9,B3KUV3"	"UPI0000151F17"	"NM_005356.3"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"0f2ddf18-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	TRUE
"8280"	"ZBTB8A"	653121	"mskcc.org"	"GRCh37"	"1"	33037761	33037761	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-2+18620C>G"	""	""	"ENST00000373510"	""	82	"68"	14	51	"51"	0	"ZBTB8A,intron_variant,,ENST00000373510,NM_001040441.1;ZBTB8A,intron_variant,,ENST00000316459,;RP1-27O5.3,intron_variant,,ENST00000480336,;"	"G"	"ENSG00000160062"	"ENST00000373510"	"Transcript"	"intron_variant"	"-/7075"	"-/1326"	"-/441"	""	""	""	"1"	NA	1	"ZBTB8A"	"HGNC"	24172	"protein_coding"	"YES"	"CCDS30664.1"	"ENSP00000362609"	"Q96BR9"	""	"UPI0000074750"	"NM_001040441.1"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"0f2e0060-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170731707317073	"WGS"	FALSE
"8281"	"ZBTB8A"	653121	"mskcc.org"	"GRCh37"	"1"	33037766	33037766	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-2+18625C>T"	""	""	"ENST00000373510"	""	84	"69"	15	51	"51"	0	"ZBTB8A,intron_variant,,ENST00000373510,NM_001040441.1;ZBTB8A,intron_variant,,ENST00000316459,;RP1-27O5.3,intron_variant,,ENST00000480336,;"	"T"	"ENSG00000160062"	"ENST00000373510"	"Transcript"	"intron_variant"	"-/7075"	"-/1326"	"-/441"	""	""	""	"1"	NA	1	"ZBTB8A"	"HGNC"	24172	"protein_coding"	"YES"	"CCDS30664.1"	"ENSP00000362609"	"Q96BR9"	""	"UPI0000074750"	"NM_001040441.1"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"0f2e010a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"8282"	"TRIM62"	55223	"mskcc.org"	"GRCh37"	"1"	33620629	33620629	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.877+3225G>C"	""	""	"ENST00000291416"	""	58	"51"	7	30	"30"	0	"TRIM62,intron_variant,,ENST00000291416,NM_018207.2;TRIM62,intron_variant,,ENST00000543586,;TRIM62,downstream_gene_variant,,ENST00000485148,;"	"G"	"ENSG00000116525"	"ENST00000291416"	"Transcript"	"intron_variant"	"-/3437"	"-/1428"	"-/475"	""	""	""	"1"	NA	-1	"TRIM62"	"HGNC"	25574	"protein_coding"	"YES"	"CCDS376.1"	"ENSP00000291416"	"Q9BVG3"	""	"UPI000004E050"	"NM_018207.2"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"0f2e4fb6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120689655172414	"WGS"	FALSE
"8283"	"AGO4"	192670	"mskcc.org"	"GRCh37"	"1"	36271235	36271235	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000373210"	""	77	"71"	6	44	"44"	0	"AGO4,upstream_gene_variant,,ENST00000373210,NM_017629.3;"	"C"	"ENSG00000134698"	"ENST00000373210"	"Transcript"	"upstream_gene_variant"	"-/7116"	"-/2586"	"-/861"	""	""	""	"1"	"2538"	1	"AGO4"	"HGNC"	18424	"protein_coding"	"YES"	"CCDS397.1"	"ENSP00000362306"	"Q9HCK5"	"Q9NXV9"	"UPI00001684D9"	"NM_017629.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"0f2ede90-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"8284"	"PABPC4"	8761	"mskcc.org"	"GRCh37"	"1"	40045597	40045597	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000372858"	""	50	"42"	8	17	"17"	0	"PABPC4,upstream_gene_variant,,ENST00000372857,NM_003819.3;PABPC4,upstream_gene_variant,,ENST00000372856,NM_001135654.1;PABPC4,upstream_gene_variant,,ENST00000372858,NM_001135653.1;PABPC4,upstream_gene_variant,,ENST00000372862,;PABPC4,upstream_gene_variant,,ENST00000451091,;PABPC4,upstream_gene_variant,,ENST00000531243,;PABPC4,upstream_gene_variant,,ENST00000470443,;"	"C"	"ENSG00000090621"	"ENST00000372858"	"Transcript"	"upstream_gene_variant"	"-/2753"	"-/1983"	"-/660"	""	""	""	"1"	"3524"	-1	"PABPC4"	"HGNC"	8557	"protein_coding"	"YES"	"CCDS44115.1"	"ENSP00000361949"	"Q13310"	"B1ANR1"	"UPI00002057C5"	"NM_001135653.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"0f2ffdde-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WGS"	FALSE
"8285"	"RLF"	6018	"mskcc.org"	"GRCh37"	"1"	40625766	40625766	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000372771"	""	60	"54"	6	41	"41"	0	"RLF,upstream_gene_variant,,ENST00000372771,NM_012421.3;"	"C"	"ENSG00000117000"	"ENST00000372771"	"Transcript"	"upstream_gene_variant"	"-/6246"	"-/5745"	"-/1914"	""	""	""	"1"	"1279"	1	"RLF"	"HGNC"	10025	"protein_coding"	"YES"	"CCDS448.1"	"ENSP00000361857"	"Q13129"	""	"UPI000013C9DA"	"NM_012421.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"0f3021b0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"8286"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	41392848	41392848	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"58"	17	54	"54"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"0f3052e8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226666666666667	"WGS"	FALSE
"8287"	"ERI3"	79033	"mskcc.org"	"GRCh37"	"1"	44799260	44799260	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"rs770774664"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.489+5457C>G"	""	""	"ENST00000372257"	""	90	"73"	17	65	"65"	0	"ERI3,intron_variant,,ENST00000372257,NM_024066.1;ERI3,intron_variant,,ENST00000537474,;ERI3,intron_variant,,ENST00000457571,;ERI3,intron_variant,,ENST00000452396,;AL390776.1,upstream_gene_variant,,ENST00000516337,;ERI3,intron_variant,,ENST00000495828,;"	"C"	"ENSG00000117419"	"ENST00000372257"	"Transcript"	"intron_variant"	"-/1684"	"-/1014"	"-/337"	""	""	"rs770774664"	"1"	NA	-1	"ERI3"	"HGNC"	17276	"protein_coding"	"YES"	"CCDS30696.1"	"ENSP00000361331"	"O43414"	"B4DN03,B4DEX5"	"UPI00001C1D9B"	"NM_024066.1"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"0f312a7e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188888888888889	"WGS"	FALSE
"8288"	"AGBL4"	84871	"mskcc.org"	"GRCh37"	"1"	49132742	49132742	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.635-3829A>G"	""	""	"ENST00000371839"	""	89	"68"	21	65	"65"	0	"AGBL4,intron_variant,,ENST00000416121,;AGBL4,intron_variant,,ENST00000371839,NM_032785.3;AGBL4,intron_variant,,ENST00000371838,;AGBL4,intron_variant,,ENST00000334103,;"	"C"	"ENSG00000186094"	"ENST00000371839"	"Transcript"	"intron_variant"	"-/2947"	"-/1512"	"-/503"	""	""	""	"1"	NA	-1	"AGBL4"	"HGNC"	25892	"protein_coding"	"YES"	"CCDS44137.1"	"ENSP00000360905"	"Q5VU57"	""	"UPI00002042F9"	"NM_032785.3"	""	""	""	"6/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"0f325138-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235955056179775	"WGS"	FALSE
"8289"	"AGBL4"	84871	"mskcc.org"	"GRCh37"	"1"	49995931	49995931	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.282+167054A>T"	""	""	"ENST00000371839"	""	79	"73"	6	47	"47"	0	"AGBL4,intron_variant,,ENST00000371839,NM_032785.3;AGBL4,intron_variant,,ENST00000371836,;AGBL4,intron_variant,,ENST00000371838,;AGBL4,intron_variant,,ENST00000497451,;"	"A"	"ENSG00000186094"	"ENST00000371839"	"Transcript"	"intron_variant"	"-/2947"	"-/1512"	"-/503"	""	""	""	"1"	NA	-1	"AGBL4"	"HGNC"	25892	"protein_coding"	"YES"	"CCDS44137.1"	"ENSP00000360905"	"Q5VU57"	""	"UPI00002042F9"	"NM_032785.3"	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"0f32647a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"8290"	"ENSR00000077093"	0	"mskcc.org"	"GRCh37"	"1"	50815153	50815153	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000077093"	""	82	"70"	12	61	"61"	0	""	"A"	""	"ENSR00000077093"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"0f327fc8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146341463414634	"WGS"	FALSE
"8291"	"MROH7"	374977	"mskcc.org"	"GRCh37"	"1"	55121952	55121952	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1231+2122T>A"	""	""	"ENST00000421030"	""	67	"61"	6	37	"37"	0	"MROH7,intron_variant,,ENST00000421030,NM_001039464.2;MROH7,intron_variant,,ENST00000339553,;MROH7,intron_variant,,ENST00000395690,;MROH7,intron_variant,,ENST00000409996,;MROH7,intron_variant,,ENST00000454855,;MROH7,intron_variant,,ENST00000545244,;MROH7,intron_variant,,ENST00000472987,;MROH7,intron_variant,,ENST00000478097,;MROH7-TTC4,intron_variant,,ENST00000425300,;MROH7-TTC4,intron_variant,,ENST00000414150,;MROH7-TTC4,intron_variant,,ENST00000606515,;MROH7,intron_variant,,ENST00000413188,;MROH7,intron_variant,,ENST00000422659,;MROH7,intron_variant,,ENST00000440047,;MROH7,intron_variant,,ENST00000438846,;MROH7,intron_variant,,ENST00000440217,;"	"A"	"ENSG00000184313"	"ENST00000421030"	"Transcript"	"intron_variant"	"-/4329"	"-/3972"	"-/1323"	""	""	""	"1"	NA	1	"MROH7"	"HGNC"	24802	"protein_coding"	"YES"	"CCDS41342.2"	"ENSP00000396622"	"Q68CQ1"	"C9K0L2,B7ZBM2"	"UPI000198C4E2"	"NM_001039464.2"	""	""	""	"3/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"0f33a254-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0895522388059701	"WGS"	FALSE
"8292"	"PCSK9"	255738	"mskcc.org"	"GRCh37"	"1"	55513295	55513295	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.523+976G>C"	""	""	"ENST00000302118"	""	92	"85"	7	64	"64"	0	"PCSK9,intron_variant,,ENST00000302118,NM_174936.3;PCSK9,intron_variant,,ENST00000543384,;PCSK9,intron_variant,,ENST00000452118,;PCSK9,upstream_gene_variant,,ENST00000490692,;"	"C"	"ENSG00000169174"	"ENST00000302118"	"Transcript"	"intron_variant"	"-/3637"	"-/2079"	"-/692"	""	""	""	"1"	NA	1	"PCSK9"	"HGNC"	20001	"protein_coding"	"YES"	"CCDS603.1"	"ENSP00000303208"	"Q8NBP7"	""	"UPI00001615E1"	"NM_174936.3"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"0f33b884-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"8293"	"DAB1"	1600	"mskcc.org"	"GRCh37"	"1"	57787108	57787108	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-136-30270A>G"	""	""	"ENST00000371236"	""	85	"72"	13	70	"70"	0	"DAB1,intron_variant,,ENST00000371236,;DAB1,intron_variant,,ENST00000371234,NM_021080.3;DAB1,intron_variant,,ENST00000371230,;DAB1,intron_variant,,ENST00000485760,;"	"C"	"ENSG00000173406"	"ENST00000371236"	"Transcript"	"intron_variant"	"-/5298"	"-/1668"	"-/555"	""	""	""	"1"	NA	-1	"DAB1"	"HGNC"	2661	"protein_coding"	"YES"	"CCDS607.1"	"ENSP00000360280"	"O75553"	""	"UPI000013EE33"	""	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"0f340032-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152941176470588	"WGS"	FALSE
"8294"	"FGGY"	55277	"mskcc.org"	"GRCh37"	"1"	60185736	60185736	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1585-37867T>C"	""	""	"ENST00000371218"	""	103	"81"	22	47	"47"	0	"FGGY,intron_variant,,ENST00000371218,NM_001113411.1;FGGY,intron_variant,,ENST00000303721,NM_018291.3;FGGY,intron_variant,,ENST00000371212,NM_001244714.1;FGGY,intron_variant,,ENST00000371210,NM_001278224.1;FGGY,intron_variant,,ENST00000493891,;FGGY,intron_variant,,ENST00000476939,;FGGY,intron_variant,,ENST00000471169,;FGGY,intron_variant,,ENST00000472783,;"	"C"	"ENSG00000172456"	"ENST00000371218"	"Transcript"	"intron_variant"	"-/2052"	"-/1728"	"-/575"	""	""	""	"1"	NA	1	"FGGY"	"HGNC"	25610	"protein_coding"	"YES"	"CCDS44155.1"	"ENSP00000360262"	"Q96C11"	"J3QKV9,C9J015"	"UPI0000458AF6"	"NM_001113411.1"	""	""	""	"15/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"0f344d1c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213592233009709	"WGS"	FALSE
"8295"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	61111201	61111201	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"70"	23	37	"37"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"0f346072-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247311827956989	"WGS"	FALSE
"8296"	"INADL"	10207	"mskcc.org"	"GRCh37"	"1"	62214148	62214148	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-36+5921G>T"	""	""	"ENST00000371158"	""	72	"66"	6	37	"37"	0	"INADL,intron_variant,,ENST00000371158,NM_176877.2;INADL,intron_variant,,ENST00000316485,;INADL,intron_variant,,ENST00000484562,;INADL,intron_variant,,ENST00000459752,;"	"T"	"ENSG00000132849"	"ENST00000371158"	"Transcript"	"intron_variant"	"-/8505"	"-/5406"	"-/1801"	""	""	""	"1"	NA	1	"INADL"	"HGNC"	28881	"protein_coding"	"YES"	"CCDS617.2"	"ENSP00000360200"	"Q8NI35"	""	"UPI0000204487"	"NM_176877.2"	""	""	""	"1/42"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"0f34983a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"8297"	"DOCK7"	85440	"mskcc.org"	"GRCh37"	"1"	63088674	63088674	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1425+2256C>G"	""	""	"ENST00000340370"	""	104	"67"	37	53	"53"	0	"DOCK7,intron_variant,,ENST00000251157,NM_001272001.1,NM_001271999.1;DOCK7,intron_variant,,ENST00000340370,NM_033407.3,NM_001272000.1;DOCK7,intron_variant,,ENST00000404627,NM_001272002.1;DOCK7,downstream_gene_variant,,ENST00000464312,;"	"C"	"ENSG00000116641"	"ENST00000340370"	"Transcript"	"intron_variant"	"-/6864"	"-/6330"	"-/2109"	""	""	""	"1"	NA	-1	"DOCK7"	"HGNC"	19190	"protein_coding"	"YES"	"CCDS30734.1"	"ENSP00000340742"	"Q96N67"	""	"UPI000044FEA9"	"NM_033407.3,NM_001272000.1"	""	""	""	"12/48"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"0f34d58e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355769230769231	"WGS"	FALSE
"8298"	"LINC00466"	199899	"mskcc.org"	"GRCh37"	"1"	63749522	63749522	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.191+20844C>T"	""	""	"ENST00000455304"	""	94	"78"	16	67	"67"	0	"LINC00466,intron_variant,,ENST00000455304,;LINC00466,intron_variant,,ENST00000436475,;"	"A"	"ENSG00000224209"	"ENST00000455304"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1098"	""	""	""	""	""	"1"	NA	-1	"LINC00466"	"HGNC"	27294	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"0f34eb3c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170212765957447	"WGS"	FALSE
"8299"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	68792923	68792923	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"59"	18	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"0f35d524-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233766233766234	"WGS"	FALSE
"8300"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	69766393	69766393	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"82"	17	77	"77"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"0f35ed0c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171717171717172	"WGS"	FALSE
"8301"	"LRRC7"	57554	"mskcc.org"	"GRCh37"	"1"	70207011	70207011	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2-18863C>T"	""	""	"ENST00000310961"	""	109	"91"	18	73	"73"	0	"LRRC7,intron_variant,,ENST00000310961,;LRRC7,intron_variant,,ENST00000370958,;"	"T"	"ENSG00000033122"	"ENST00000310961"	"Transcript"	"intron_variant"	"-/6507"	"-/4488"	"-/1495"	""	""	""	"1"	NA	1	"LRRC7"	"HGNC"	18531	"protein_coding"	""	""	"ENSP00000309245"	""	""	"UPI00004588A5"	""	""	""	""	"3/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"0f35fd7e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.165137614678899	"WGS"	FALSE
"8302"	"LRRC7"	57554	"mskcc.org"	"GRCh37"	"1"	70380395	70380395	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.534-16795A>C"	""	""	"ENST00000035383"	""	92	"73"	19	75	"75"	0	"LRRC7,intron_variant,,ENST00000310961,;LRRC7,intron_variant,,ENST00000035383,NM_020794.2;LRRC7,intron_variant,,ENST00000415775,;PIN1P1,upstream_gene_variant,,ENST00000412108,;PIN1P1,upstream_gene_variant,,ENST00000439639,;"	"C"	"ENSG00000033122"	"ENST00000035383"	"Transcript"	"intron_variant"	"-/5000"	"-/4614"	"-/1537"	""	""	""	"1"	NA	1	"LRRC7"	"HGNC"	18531	"protein_coding"	"YES"	"CCDS645.1"	"ENSP00000035383"	"Q96NW7"	""	"UPI000006F29B"	"NM_020794.2"	""	""	""	"5/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"0f3604ae-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206521739130435	"WGS"	FALSE
"8303"	"RP4-660H19.1"	0	"mskcc.org"	"GRCh37"	"1"	73292439	73292439	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.280+23994T>C"	""	""	"ENST00000445976"	""	100	"83"	17	51	"51"	0	"RP4-660H19.1,intron_variant,,ENST00000445976,;"	"G"	"ENSG00000225087"	"ENST00000445976"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/499"	""	""	""	""	""	"1"	NA	-1	"RP4-660H19.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"0f36632c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.17	"WGS"	FALSE
"8304"	"RP4-660H19.1"	0	"mskcc.org"	"GRCh37"	"1"	73292448	73292448	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.280+23985T>C"	""	""	"ENST00000445976"	""	100	"82"	18	49	"49"	0	"RP4-660H19.1,intron_variant,,ENST00000445976,;"	"G"	"ENSG00000225087"	"ENST00000445976"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/499"	""	""	""	""	""	"1"	NA	-1	"RP4-660H19.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"0f3663cc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.18	"WGS"	FALSE
"8305"	"FPGT-TNNI3K"	51086	"mskcc.org"	"GRCh37"	"1"	74792415	74792415	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.787-4719C>T"	""	""	"ENST00000557284"	""	94	"81"	13	56	"56"	0	"FPGT-TNNI3K,intron_variant,,ENST00000370895,;TNNI3K,intron_variant,,ENST00000370891,NM_001112808.2;TNNI3K,intron_variant,,ENST00000326637,NM_015978.2;FPGT-TNNI3K,intron_variant,,ENST00000557284,;FPGT-TNNI3K,intron_variant,,ENST00000370899,NM_001199327.1;FPGT-TNNI3K,intron_variant,,ENST00000534632,;"	"T"	"ENSG00000259030"	"ENST00000557284"	"Transcript"	"intron_variant"	"-/2855"	"-/2850"	"-/949"	""	""	""	"1"	NA	1	"FPGT-TNNI3K"	"HGNC"	42952	"protein_coding"	"YES"	"CCDS44161.2"	"ENSP00000450895"	""	"A6NHC7"	"UPI0001EECC26"	""	""	""	""	"7/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"0f369112-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138297872340426	"WGS"	FALSE
"8306"	"ST6GALNAC3"	256435	"mskcc.org"	"GRCh37"	"1"	76953286	76953286	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.623+75184A>T"	""	""	"ENST00000328299"	""	117	"98"	19	56	"56"	0	"ST6GALNAC3,intron_variant,,ENST00000328299,NM_152996.2;ST6GALNAC3,intron_variant,,ENST00000464140,;"	"T"	"ENSG00000184005"	"ENST00000328299"	"Transcript"	"intron_variant"	"-/6861"	"-/918"	"-/305"	""	""	""	"1"	NA	1	"ST6GALNAC3"	"HGNC"	19343	"protein_coding"	"YES"	"CCDS672.1"	"ENSP00000329214"	"Q8NDV1"	""	"UPI000006F75A"	"NM_152996.2"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"0f36e3ce-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162393162393162	"WGS"	FALSE
"8307"	"ELTD1"	64123	"mskcc.org"	"GRCh37"	"1"	79375643	79375643	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1749+7676C>G"	""	""	"ENST00000370742"	""	106	"84"	22	71	"71"	0	"ELTD1,intron_variant,,ENST00000370742,NM_022159.3;ELTD1,intron_variant,,ENST00000401034,;"	"C"	"ENSG00000162618"	"ENST00000370742"	"Transcript"	"intron_variant"	"-/3527"	"-/2073"	"-/690"	""	""	""	"1"	NA	-1	"ELTD1"	"HGNC"	20822	"protein_coding"	"YES"	"CCDS41352.1"	"ENSP00000359778"	"Q9HBW9"	""	"UPI00004561FF"	"NM_022159.3"	""	""	""	"12/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"0f374030-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207547169811321	"WGS"	FALSE
"8308"	"ELTD1"	64123	"mskcc.org"	"GRCh37"	"1"	79406823	79406823	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.326-1880G>T"	""	""	"ENST00000370742"	""	82	"65"	17	68	"68"	0	"ELTD1,intron_variant,,ENST00000370742,NM_022159.3;"	"A"	"ENSG00000162618"	"ENST00000370742"	"Transcript"	"intron_variant"	"-/3527"	"-/2073"	"-/690"	""	""	""	"1"	NA	-1	"ELTD1"	"HGNC"	20822	"protein_coding"	"YES"	"CCDS41352.1"	"ENSP00000359778"	"Q9HBW9"	""	"UPI00004561FF"	"NM_022159.3"	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"0f3740da-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207317073170732	"WGS"	FALSE
"8309"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	79852595	79852595	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"59"	13	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"0f374d0a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180555555555556	"WGS"	FALSE
"8310"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	83035541	83035541	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"76"	15	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"0f37b416-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164835164835165	"WGS"	FALSE
"8311"	"MCOLN3"	55283	"mskcc.org"	"GRCh37"	"1"	85508824	85508824	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.229-1964A>T"	""	""	"ENST00000370589"	""	113	"88"	25	46	"46"	0	"MCOLN3,intron_variant,,ENST00000370587,;WDR63,intron_variant,,ENST00000370596,;MCOLN3,intron_variant,,ENST00000370589,NM_018298.10;MCOLN3,intron_variant,,ENST00000341115,NM_001253693.1;MCOLN3,intron_variant,,ENST00000490600,;"	"A"	"ENSG00000055732"	"ENST00000370589"	"Transcript"	"intron_variant"	"-/2756"	"-/1662"	"-/553"	""	""	""	"1"	NA	-1	"MCOLN3"	"HGNC"	13358	"protein_coding"	"YES"	"CCDS701.1"	"ENSP00000359621"	"Q8TDD5"	""	"UPI0000073A4B"	"NM_018298.10"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"0f384cdc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221238938053097	"WGS"	FALSE
"8312"	"RP5-827O9.1"	0	"mskcc.org"	"GRCh37"	"1"	90999376	90999376	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000435832"	""	80	"61"	19	50	"50"	0	"RP5-827O9.1,upstream_gene_variant,,ENST00000435832,;"	"A"	"ENSG00000229201"	"ENST00000435832"	"Transcript"	"upstream_gene_variant"	"-/231"	""	""	""	""	""	"1"	"347"	-1	"RP5-827O9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"0f38e66a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2375	"WGS"	FALSE
"8313"	"SNX7"	51375	"mskcc.org"	"GRCh37"	"1"	99226225	99226225	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000306121"	""	89	"69"	20	69	"69"	0	"SNX7,downstream_gene_variant,,ENST00000370189,;SNX7,downstream_gene_variant,,ENST00000306121,NM_015976.4;SNX7,downstream_gene_variant,,ENST00000529992,NM_152238.3;SNX7,downstream_gene_variant,,ENST00000528824,;"	"C"	"ENSG00000162627"	"ENST00000306121"	"Transcript"	"downstream_gene_variant"	"-/1734"	"-/1356"	"-/451"	""	""	""	"1"	"169"	1	"SNX7"	"HGNC"	14971	"protein_coding"	"YES"	"CCDS755.2"	"ENSP00000304429"	"Q9UNH6"	"B7ZC83"	"UPI0000205396"	"NM_015976.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"0f3a46cc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224719101123595	"WGS"	FALSE
"8314"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	102621286	102621286	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"81"	28	62	"62"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"0f3acf0c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256880733944954	"WGS"	FALSE
"8315"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	104806598	104806598	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"97"	9	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"0f3b08aa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0849056603773585	"WGS"	FALSE
"8316"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	104974592	104974592	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"73"	17	60	"60"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"0f3b0e0e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188888888888889	"WGS"	FALSE
"8317"	"FAM102B"	284611	"mskcc.org"	"GRCh37"	"1"	109135346	109135346	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.138-7842A>T"	""	""	"ENST00000370035"	""	101	"79"	22	69	"69"	0	"FAM102B,intron_variant,,ENST00000370035,NM_001010883.2;FAM102B,intron_variant,,ENST00000405454,;"	"T"	"ENSG00000162636"	"ENST00000370035"	"Transcript"	"intron_variant"	"-/5600"	"-/1083"	"-/360"	""	""	""	"1"	NA	1	"FAM102B"	"HGNC"	27637	"protein_coding"	"YES"	"CCDS30786.2"	"ENSP00000359052"	"Q5T8I3"	""	"UPI00001D7585"	"NM_001010883.2"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"0f3b9838-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217821782178218	"WGS"	FALSE
"8318"	"DRAM2"	128338	"mskcc.org"	"GRCh37"	"1"	111674946	111674946	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-14-756A>G"	""	""	"ENST00000286692"	""	105	"83"	22	56	"56"	0	"DRAM2,intron_variant,,ENST00000286692,;DRAM2,intron_variant,,ENST00000539140,NM_178454.4;DRAM2,intron_variant,,ENST00000484310,;DRAM2,intron_variant,,ENST00000462092,;DRAM2,intron_variant,,ENST00000490780,;DRAM2,intron_variant,,ENST00000463682,;DRAM2,intron_variant,,ENST00000480600,;DRAM2,upstream_gene_variant,,ENST00000461449,;DRAM2,intron_variant,,ENST00000496430,;"	"C"	"ENSG00000156171"	"ENST00000286692"	"Transcript"	"intron_variant"	"-/2246"	"-/801"	"-/266"	""	""	""	"1"	NA	-1	"DRAM2"	"HGNC"	28769	"protein_coding"	"YES"	"CCDS30801.1"	"ENSP00000286692"	"Q6UX65"	"S4R2Z2"	"UPI000000DBA1"	""	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"0f3c1e48-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.20952380952381	"WGS"	FALSE
"8319"	"PKMP1"	0	"mskcc.org"	"GRCh37"	"1"	115084295	115084295	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000455804"	""	70	"64"	6	39	"39"	0	"PKMP1,downstream_gene_variant,,ENST00000455804,;"	"T"	"ENSG00000236480"	"ENST00000455804"	"Transcript"	"downstream_gene_variant"	"-/1523"	""	""	""	""	""	"1"	"3834"	1	"PKMP1"	"HGNC"	44243	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"0f3cc6e0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"8320"	"PKMP1"	0	"mskcc.org"	"GRCh37"	"1"	115084302	115084302	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000455804"	""	74	"67"	7	43	"43"	0	"PKMP1,downstream_gene_variant,,ENST00000455804,;"	"A"	"ENSG00000236480"	"ENST00000455804"	"Transcript"	"downstream_gene_variant"	"-/1523"	""	""	""	""	""	"1"	"3841"	1	"PKMP1"	"HGNC"	44243	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"0f3cc82a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	FALSE
"8321"	"PKMP1"	0	"mskcc.org"	"GRCh37"	"1"	115084313	115084313	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000455804"	""	71	"62"	9	41	"41"	0	"PKMP1,downstream_gene_variant,,ENST00000455804,;"	"C"	"ENSG00000236480"	"ENST00000455804"	"Transcript"	"downstream_gene_variant"	"-/1523"	""	""	""	""	""	"1"	"3852"	1	"PKMP1"	"HGNC"	44243	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"0f3cc8d4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126760563380282	"WGS"	FALSE
"8322"	"PKMP1"	0	"mskcc.org"	"GRCh37"	"1"	115084317	115084317	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000455804"	""	72	"65"	7	40	"40"	0	"PKMP1,downstream_gene_variant,,ENST00000455804,;"	"A"	"ENSG00000236480"	"ENST00000455804"	"Transcript"	"downstream_gene_variant"	"-/1523"	""	""	""	""	""	"1"	"3856"	1	"PKMP1"	"HGNC"	44243	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"0f3cc97e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"8323"	"SIKE1"	80143	"mskcc.org"	"GRCh37"	"1"	115322479	115322479	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.277+252T>A"	""	""	"ENST00000369528"	""	96	"70"	26	57	"57"	0	"SIKE1,intron_variant,,ENST00000369528,NM_025073.2,NM_001102396.1;SIKE1,intron_variant,,ENST00000060969,;SIKE1,intron_variant,,ENST00000506320,;SIKE1,intron_variant,,ENST00000475335,;SIKE1,intron_variant,,ENST00000369524,;SIKE1,intron_variant,,ENST00000466657,;SIKE1,intron_variant,,ENST00000474562,;SIKE1,intron_variant,,ENST00000462123,;SIKE1,intron_variant,,ENST00000510745,;SIKE1,intron_variant,,ENST00000471969,;"	"T"	"ENSG00000052723"	"ENST00000369528"	"Transcript"	"intron_variant"	"-/5506"	"-/636"	"-/211"	""	""	""	"1"	NA	-1	"SIKE1"	"HGNC"	26119	"protein_coding"	"YES"	"CCDS41371.1"	"ENSP00000358541"	"Q9BRV8"	""	"UPI0000470A25"	"NM_025073.2,NM_001102396.1"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"0f3cd180-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270833333333333	"WGS"	FALSE
"8324"	"SIKE1"	80143	"mskcc.org"	"GRCh37"	"1"	115322484	115322484	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.277+247T>G"	""	""	"ENST00000369528"	""	94	"67"	27	57	"57"	0	"SIKE1,intron_variant,,ENST00000369528,NM_025073.2,NM_001102396.1;SIKE1,intron_variant,,ENST00000060969,;SIKE1,intron_variant,,ENST00000506320,;SIKE1,intron_variant,,ENST00000475335,;SIKE1,intron_variant,,ENST00000369524,;SIKE1,intron_variant,,ENST00000466657,;SIKE1,intron_variant,,ENST00000474562,;SIKE1,intron_variant,,ENST00000462123,;SIKE1,intron_variant,,ENST00000510745,;SIKE1,intron_variant,,ENST00000471969,;"	"C"	"ENSG00000052723"	"ENST00000369528"	"Transcript"	"intron_variant"	"-/5506"	"-/636"	"-/211"	""	""	""	"1"	NA	-1	"SIKE1"	"HGNC"	26119	"protein_coding"	"YES"	"CCDS41371.1"	"ENSP00000358541"	"Q9BRV8"	""	"UPI0000470A25"	"NM_025073.2,NM_001102396.1"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"0f3cd22a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287234042553192	"WGS"	FALSE
"8325"	"U3"	0	"mskcc.org"	"GRCh37"	"1"	116825355	116825355	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408113"	""	96	"78"	18	64	"64"	0	"U3,downstream_gene_variant,,ENST00000408113,;"	"C"	"ENSG00000221040"	"ENST00000408113"	"Transcript"	"downstream_gene_variant"	"-/215"	""	""	""	""	""	"1"	"3913"	1	"U3"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"0f3d063c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"8326"	"FAM46C"	54855	"mskcc.org"	"GRCh37"	"1"	118149636	118149636	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-28+861G>T"	""	""	"ENST00000369448"	""	99	"80"	19	47	"47"	0	"FAM46C,intron_variant,,ENST00000369448,NM_017709.3;AL157902.3,upstream_gene_variant,,ENST00000425010,;AL157902.3,upstream_gene_variant,,ENST00000456126,;AL157902.3,upstream_gene_variant,,ENST00000440801,;"	"T"	"ENSG00000183508"	"ENST00000369448"	"Transcript"	"intron_variant"	"-/5751"	"-/1176"	"-/391"	""	""	""	"1"	NA	1	"FAM46C"	"HGNC"	24712	"protein_coding"	"YES"	"CCDS896.1"	"ENSP00000358458"	"Q5VWP2"	""	"UPI0000070C6C"	"NM_017709.3"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"0f3d47aa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191919191919192	"WGS"	TRUE
"8327"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	142542137	142542137	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"73"	6	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"0f406d4a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"8328"	"RNU1-114P"	0	"mskcc.org"	"GRCh37"	"1"	149145203	149145203	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000365297"	""	111	"85"	26	60	"60"	0	"RNU1-114P,downstream_gene_variant,,ENST00000365297,;"	"A"	"ENSG00000202167"	"ENST00000365297"	"Transcript"	"downstream_gene_variant"	"-/166"	""	""	""	""	""	"1"	"1511"	-1	"RNU1-114P"	"HGNC"	48456	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"0f4bb43e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234234234234234	"WGS"	FALSE
"8329"	"RP11-403I13.5"	0	"mskcc.org"	"GRCh37"	"1"	149228291	149228291	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000443018"	""	102	"87"	15	52	"52"	0	"RP11-403I13.5,upstream_gene_variant,,ENST00000443018,;RNVU1-18,upstream_gene_variant,,ENST00000384010,NR_004400.1;"	"C"	"ENSG00000232721"	"ENST00000443018"	"Transcript"	"upstream_gene_variant"	"-/1073"	""	""	""	""	""	"1"	"2425"	1	"RP11-403I13.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"0f4bd23e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"8330"	"RP11-403I13.4"	100293748	"mskcc.org"	"GRCh37"	"1"	149246811	149246811	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.563+1197T>A"	""	""	"ENST00000325963"	""	57	"43"	14	62	"62"	0	"RP11-403I13.4,intron_variant,,ENST00000325963,;RP11-403I13.4,intron_variant,,ENST00000430442,;RP11-403I13.4,intron_variant,,ENST00000442049,;RP11-403I13.4,downstream_gene_variant,,ENST00000457216,;RP11-403I13.4,downstream_gene_variant,,ENST00000439719,;RP11-403I13.4,upstream_gene_variant,,ENST00000425624,;RP11-403I13.4,downstream_gene_variant,,ENST00000435115,;"	"A"	"ENSG00000223779"	"ENST00000325963"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/5057"	""	""	""	""	""	"1"	NA	1	"RP11-403I13.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"0f4be22e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245614035087719	"WGS"	FALSE
"8331"	"HIST2H3PS2"	0	"mskcc.org"	"GRCh37"	"1"	149403306	149403306	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000392948"	""	92	"71"	21	42	"42"	0	"HIST2H3PS2,upstream_gene_variant,,ENST00000392948,;RP5-998N21.7,intron_variant,,ENST00000444624,;RP5-998N21.10,upstream_gene_variant,,ENST00000609879,;HIST2H2BB,upstream_gene_variant,,ENST00000609585,;HIST2H2BB,upstream_gene_variant,,ENST00000449108,;"	"T"	"ENSG00000203818"	"ENST00000392948"	"Transcript"	"upstream_gene_variant"	"-/412"	"-/411"	"-/136"	""	""	""	"1"	"2764"	-1	"HIST2H3PS2"	"HGNC"	32060	"protein_coding"	"YES"	""	"ENSP00000476960"	""	"Q5TEC6"	"UPI0000470A88"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"0f4c33c8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228260869565217	"WGS"	FALSE
"8332"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	150172355	150172355	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"66"	23	50	"49"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"0f4c925a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258426966292135	"WGS"	FALSE
"8333"	"PI4KB"	5298	"mskcc.org"	"GRCh37"	"1"	151275179	151275179	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1557-405C>T"	""	""	"ENST00000368875"	""	92	"84"	8	48	"48"	0	"PI4KB,intron_variant,,ENST00000368875,NM_002651.2;PI4KB,intron_variant,,ENST00000368874,NM_001198774.1;PI4KB,intron_variant,,ENST00000271657,;PI4KB,intron_variant,,ENST00000368873,;PI4KB,intron_variant,,ENST00000368872,NM_001198773.1;PI4KB,intron_variant,,ENST00000529142,NM_001198775.1;PI4KB,intron_variant,,ENST00000430800,;PI4KB,upstream_gene_variant,,ENST00000455060,;PI4KB,upstream_gene_variant,,ENST00000489889,;PI4KB,downstream_gene_variant,,ENST00000489223,;RN7SL444P,upstream_gene_variant,,ENST00000578948,;PI4KB,upstream_gene_variant,,ENST00000469239,;PI4KB,downstream_gene_variant,,ENST00000460323,;"	"A"	"ENSG00000143393"	"ENST00000368875"	"Transcript"	"intron_variant"	"-/3983"	"-/2487"	"-/828"	""	""	""	"1"	NA	-1	"PI4KB"	"HGNC"	8984	"protein_coding"	"YES"	"CCDS993.1"	"ENSP00000357869"	"Q9UBF8"	"F8W860,E9PL47,E9PIH4"	"UPI000007161F"	"NM_002651.2"	""	""	""	"7/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"0f4d0726-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"8334"	"S100A14"	57402	"mskcc.org"	"GRCh37"	"1"	153585691	153585691	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000368702"	""	81	"67"	14	55	"55"	0	"S100A14,downstream_gene_variant,,ENST00000368702,;S100A16,upstream_gene_variant,,ENST00000368704,;S100A16,upstream_gene_variant,,ENST00000368706,NM_080388.1;S100A14,downstream_gene_variant,,ENST00000368701,;S100A14,downstream_gene_variant,,ENST00000476873,;S100A14,downstream_gene_variant,,ENST00000344616,NM_020672.2;S100A16,upstream_gene_variant,,ENST00000368705,;S100A16,upstream_gene_variant,,ENST00000368703,;S100A16,upstream_gene_variant,,ENST00000474991,;S100A14,downstream_gene_variant,,ENST00000368700,;S100A14,downstream_gene_variant,,ENST00000469571,;"	"T"	"ENSG00000189334"	"ENST00000368702"	"Transcript"	"downstream_gene_variant"	"-/1218"	"-/315"	"-/104"	""	""	""	"1"	"1040"	-1	"S100A14"	"HGNC"	18901	"protein_coding"	"YES"	"CCDS1046.1"	"ENSP00000357691"	"Q9HCY8"	""	"UPI000000123E"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"0f4dc986-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172839506172839	"WGS"	FALSE
"8335"	"NUP210L"	91181	"mskcc.org"	"GRCh37"	"1"	153961533	153961533	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000368559"	""	105	"96"	9	45	"45"	0	"NUP210L,downstream_gene_variant,,ENST00000368559,NM_207308.2;NUP210L,downstream_gene_variant,,ENST00000271854,NM_001159484.1;NUP210L,downstream_gene_variant,,ENST00000368553,;RAB13,upstream_gene_variant,,ENST00000368575,NM_002870.3;RPS27,upstream_gene_variant,,ENST00000392558,;RPS27,upstream_gene_variant,,ENST00000368567,NM_001030.4;RAB13,upstream_gene_variant,,ENST00000462680,;RAB13,upstream_gene_variant,,ENST00000495720,;RAB13,upstream_gene_variant,,ENST00000484297,;RPS27,upstream_gene_variant,,ENST00000493224,;RPS27,upstream_gene_variant,,ENST00000477151,;"	"C"	"ENSG00000143552"	"ENST00000368559"	"Transcript"	"downstream_gene_variant"	"-/5889"	"-/5667"	"-/1888"	""	""	""	"1"	"3628"	-1	"NUP210L"	"HGNC"	29915	"protein_coding"	"YES"	"CCDS41399.1"	"ENSP00000357547"	"Q5VU65"	""	"UPI000023724F"	"NM_207308.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"0f4deda8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"8336"	"CCT3"	7203	"mskcc.org"	"GRCh37"	"1"	156297724	156297724	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.305-2844T>C"	""	""	"ENST00000295688"	""	35	"29"	6	15	"15"	0	"CCT3,intron_variant,,ENST00000295688,NM_005998.4;CCT3,intron_variant,,ENST00000368261,;CCT3,intron_variant,,ENST00000472765,;CCT3,intron_variant,,ENST00000368259,NM_001008800.2;CCT3,intron_variant,,ENST00000413555,;CCT3,intron_variant,,ENST00000496684,;CCT3,intron_variant,,ENST00000446905,;CCT3,intron_variant,,ENST00000478640,;CCT3,intron_variant,,ENST00000533194,;CCT3,intron_variant,,ENST00000415548,;CCT3,intron_variant,,ENST00000463132,;CCT3,downstream_gene_variant,,ENST00000368256,;CCT3,intron_variant,,ENST00000368262,;CCT3,intron_variant,,ENST00000368258,;CCT3,intron_variant,,ENST00000490221,;AL589685.1,downstream_gene_variant,,ENST00000416812,;"	"G"	"ENSG00000163468"	"ENST00000295688"	"Transcript"	"intron_variant"	"-/2150"	"-/1638"	"-/545"	""	""	""	"1"	NA	-1	"CCT3"	"HGNC"	1616	"protein_coding"	"YES"	"CCDS1140.2"	"ENSP00000295688"	"P49368"	"Q59H77,E9PQ35,B4DUR8"	"UPI000040EEFE"	"NM_005998.4"	""	""	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"0f4eb404-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171428571428571	"WGS"	FALSE
"8337"	"ISG20L2"	81875	"mskcc.org"	"GRCh37"	"1"	156688941	156688941	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000313146"	""	79	"69"	10	36	"36"	0	"ISG20L2,downstream_gene_variant,,ENST00000313146,NM_030980.1;ISG20L2,downstream_gene_variant,,ENST00000368219,;ISG20L2,downstream_gene_variant,,ENST00000472824,;ISG20L2,downstream_gene_variant,,ENST00000496538,;"	"A"	"ENSG00000143319"	"ENST00000313146"	"Transcript"	"downstream_gene_variant"	"-/3303"	"-/1062"	"-/353"	""	""	""	"1"	"2742"	-1	"ISG20L2"	"HGNC"	25745	"protein_coding"	"YES"	"CCDS1153.1"	"ENSP00000323424"	"Q9H9L3"	""	"UPI000006D42B"	"NM_030980.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"0f4ed420-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126582278481013	"WGS"	FALSE
"8338"	"ARHGEF11"	9826	"mskcc.org"	"GRCh37"	"1"	156948911	156948911	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.331+110A>T"	""	""	"ENST00000368194"	""	96	"71"	25	58	"58"	0	"ARHGEF11,intron_variant,,ENST00000368194,NM_198236.2;ARHGEF11,intron_variant,,ENST00000361409,NM_014784.3;"	"A"	"ENSG00000132694"	"ENST00000368194"	"Transcript"	"intron_variant"	"-/6889"	"-/4689"	"-/1562"	""	""	""	"1"	NA	-1	"ARHGEF11"	"HGNC"	14580	"protein_coding"	"YES"	"CCDS1163.1"	"ENSP00000357177"	"O15085"	""	"UPI00001D62A7"	"NM_198236.2"	""	""	""	"5/40"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"0f4eeafa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260416666666667	"WGS"	FALSE
"8339"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	157223752	157223752	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"87"	11	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"0f4efb08-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112244897959184	"WGS"	FALSE
"8340"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	158356256	158356256	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"91"	18	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"0f4f1db8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.165137614678899	"WGS"	FALSE
"8341"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	158758838	158758838	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"85"	24	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"0f4f29a2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220183486238532	"WGS"	FALSE
"8342"	"ENSR00001593199"	0	"mskcc.org"	"GRCh37"	"1"	161452608	161452608	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"rs771592500"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001593199"	""	114	"90"	24	64	"64"	0	""	"G"	""	"ENSR00001593199"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs771592500"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"0f4fd1e0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"8343"	"RP11-267N12.3"	8490	"mskcc.org"	"GRCh37"	"1"	163280605	163280605	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.242-4486T>G"	""	""	"ENST00000439699"	""	78	"66"	12	46	"46"	0	"NUF2,intron_variant,,ENST00000534289,;RP11-267N12.3,intron_variant,,ENST00000439699,;RP11-267N12.3,intron_variant,,ENST00000449680,;RP11-267N12.3,intron_variant,,ENST00000429865,;RP11-267N12.3,intron_variant,,ENST00000427213,;RP11-267N12.3,intron_variant,,ENST00000528689,;RP11-267N12.3,intron_variant,,ENST00000528019,;RP11-267N12.3,upstream_gene_variant,,ENST00000451759,;RGS5,intron_variant,,ENST00000534288,;RGS5,intron_variant,,ENST00000531954,;RGS5,intron_variant,,ENST00000428971,;RGS5,intron_variant,,ENST00000530241,;"	"C"	"ENSG00000232995"	"ENST00000439699"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1441"	""	""	""	""	""	"1"	NA	-1	"RP11-267N12.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"0f503dec-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"8344"	"RP5-1059H15.1"	0	"mskcc.org"	"GRCh37"	"1"	168336009	168336009	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000421214"	""	103	"92"	11	61	"61"	0	"RP5-1059H15.1,upstream_gene_variant,,ENST00000421214,;"	"C"	"ENSG00000227722"	"ENST00000421214"	"Transcript"	"upstream_gene_variant"	"-/548"	""	""	""	""	""	"1"	"2283"	1	"RP5-1059H15.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"0f511b7c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106796116504854	"WGS"	FALSE
"8345"	"NME7"	29922	"mskcc.org"	"GRCh37"	"1"	169108401	169108401	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1099-6346G>T"	""	""	"ENST00000367811"	""	92	"69"	23	61	"61"	0	"NME7,intron_variant,,ENST00000367811,NM_013330.3;NME7,intron_variant,,ENST00000472647,NM_197972.1;NME7,intron_variant,,ENST00000493481,;NME7,intron_variant,,ENST00000530739,;NME7,intron_variant,,ENST00000525440,;"	"A"	"ENSG00000143156"	"ENST00000367811"	"Transcript"	"intron_variant"	"-/1642"	"-/1131"	"-/376"	""	""	""	"1"	NA	-1	"NME7"	"HGNC"	20461	"protein_coding"	"YES"	"CCDS1277.1"	"ENSP00000356785"	"Q9Y5B8"	""	"UPI000012FE8C"	"NM_013330.3"	""	""	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"0f5139fe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"8346"	"F5"	2153	"mskcc.org"	"GRCh37"	"1"	169531772	169531772	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.374-1768C>A"	""	""	"ENST00000367797"	""	106	"86"	20	57	"57"	0	"F5,intron_variant,,ENST00000367796,;F5,intron_variant,,ENST00000367797,NM_000130.4;F5,intron_variant,,ENST00000546081,;"	"T"	"ENSG00000198734"	"ENST00000367797"	"Transcript"	"intron_variant"	"-/7024"	"-/6675"	"-/2224"	""	""	""	"1"	NA	-1	"F5"	"HGNC"	3542	"protein_coding"	"YES"	"CCDS1281.1"	"ENSP00000356771"	"P12259"	"Q8TD21,Q2HZZ1,Q1L610"	"UPI0000070F01"	"NM_000130.4"	""	""	""	"3/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"0f5146ce-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188679245283019	"WGS"	FALSE
"8347"	"SCYL3"	57147	"mskcc.org"	"GRCh37"	"1"	169850766	169850766	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.166-2806G>A"	""	""	"ENST00000367772"	""	98	"91"	7	63	"63"	0	"SCYL3,intron_variant,,ENST00000367771,NM_020423.6;SCYL3,intron_variant,,ENST00000367772,NM_181093.3;SCYL3,intron_variant,,ENST00000367770,;SCYL3,intron_variant,,ENST00000423670,;SCYL3,intron_variant,,ENST00000470238,;"	"T"	"ENSG00000000457"	"ENST00000367772"	"Transcript"	"intron_variant"	"-/3477"	"-/2229"	"-/742"	""	""	""	"1"	NA	-1	"SCYL3"	"HGNC"	19285	"protein_coding"	"YES"	"CCDS1287.1"	"ENSP00000356746"	"Q8IZE3"	""	"UPI00001AE580"	"NM_181093.3"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"0f51560a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"8348"	"FMO3"	2328	"mskcc.org"	"GRCh37"	"1"	171055597	171055597	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"rs544658214"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000367755"	""	85	"61"	24	47	"47"	0	"FMO3,upstream_gene_variant,,ENST00000367755,NM_001002294.2;FMO3,upstream_gene_variant,,ENST00000392085,NM_006894.5;FMO3,upstream_gene_variant,,ENST00000542847,;FMO3,upstream_gene_variant,,ENST00000538429,;FMO3,upstream_gene_variant,,ENST00000479749,;FMO3,upstream_gene_variant,,ENST00000534514,;FMO3,upstream_gene_variant,,ENST00000530212,;FMO3,upstream_gene_variant,,ENST00000472784,;RP5-1092L12.2,downstream_gene_variant,,ENST00000452221,;"	"A"	"ENSG00000007933"	"ENST00000367755"	"Transcript"	"upstream_gene_variant"	"-/2087"	"-/1599"	"-/532"	""	""	"rs544658214"	"1"	"4421"	1	"FMO3"	"HGNC"	3771	"protein_coding"	"YES"	"CCDS1292.1"	"ENSP00000356729"	"P31513"	""	"UPI000016A103"	"NM_001002294.2"	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"0f517798-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282352941176471	"WGS"	FALSE
"8349"	"RP1-15D23.2"	0	"mskcc.org"	"GRCh37"	"1"	172751239	172751239	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs545588710"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.223+5972C>T"	""	""	"ENST00000432694"	""	99	"75"	24	61	"61"	0	"RP1-15D23.2,intron_variant,,ENST00000432694,;"	"T"	"ENSG00000224228"	"ENST00000432694"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/808"	""	""	""	""	"rs545588710"	"1"	NA	1	"RP1-15D23.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	"A:0.0004"	"A:0.0015"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"0f51af42-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242424242424242	"WGS"	FALSE
"8350"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	173277596	173277596	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"92"	26	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"0f51c6bc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220338983050847	"WGS"	FALSE
"8351"	"SLC9C2"	284525	"mskcc.org"	"GRCh37"	"1"	173568815	173568815	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.228+441A>G"	""	""	"ENST00000367714"	""	93	"73"	20	34	"34"	0	"SLC9C2,intron_variant,,ENST00000367714,NM_178527.3;SLC9C2,intron_variant,,ENST00000536496,;RP3-436N22.3,intron_variant,,ENST00000431459,;SLC9C2,intron_variant,,ENST00000479367,;SLC9C2,intron_variant,,ENST00000476568,;"	"C"	"ENSG00000162753"	"ENST00000367714"	"Transcript"	"intron_variant"	"-/4428"	"-/3375"	"-/1124"	""	""	""	"1"	NA	-1	"SLC9C2"	"HGNC"	28664	"protein_coding"	"YES"	"CCDS1308.1"	"ENSP00000356687"	"Q5TAH2"	"F5H342"	"UPI0000197379"	"NM_178527.3"	""	""	""	"3/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"0f51d012-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21505376344086	"WGS"	FALSE
"8352"	"RC3H1"	149041	"mskcc.org"	"GRCh37"	"1"	173955521	173955521	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.232-1764C>G"	""	""	"ENST00000367696"	""	73	"67"	6	63	"63"	0	"RC3H1,intron_variant,,ENST00000367696,;RC3H1,intron_variant,,ENST00000258349,NM_172071.2;RC3H1,intron_variant,,ENST00000367694,;RC3H1,upstream_gene_variant,,ENST00000484867,;"	"C"	"ENSG00000135870"	"ENST00000367696"	"Transcript"	"intron_variant"	"-/11261"	"-/3402"	"-/1133"	""	""	""	"1"	NA	-1	"RC3H1"	"HGNC"	29434	"protein_coding"	"YES"	"CCDS30940.1"	"ENSP00000356669"	"Q5TC82"	"B9EGU6"	"UPI00001D7DA8"	""	""	""	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"0f51e3ea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"8353"	"RFWD2"	64326	"mskcc.org"	"GRCh37"	"1"	175942165	175942165	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2133+13914A>T"	""	""	"ENST00000367669"	""	79	"69"	10	52	"52"	0	"RFWD2,intron_variant,,ENST00000367669,NM_022457.5;RFWD2,intron_variant,,ENST00000308769,NM_001001740.2;RFWD2,intron_variant,,ENST00000367666,;SCARNA3,upstream_gene_variant,,ENST00000517097,;RFWD2,intron_variant,,ENST00000461830,;RFWD2,intron_variant,,ENST00000367667,NM_001286644.1;"	"A"	"ENSG00000143207"	"ENST00000367669"	"Transcript"	"intron_variant"	"-/3033"	"-/2196"	"-/731"	""	""	""	"1"	NA	-1	"RFWD2"	"HGNC"	17440	"protein_coding"	"YES"	"CCDS30944.1"	"ENSP00000356641"	"Q8NHY2"	"B3KM72"	"UPI0000061E51"	"NM_022457.5"	""	""	""	"18/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"0f523be2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126582278481013	"WGS"	FALSE
"8354"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	176225477	176225477	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	44	"39"	5	24	"24"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"0f5246a0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WGS"	FALSE
"8355"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	176260529	176260529	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"65"	11	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"0f524894-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.144736842105263	"WGS"	FALSE
"8356"	"BRINP2"	57795	"mskcc.org"	"GRCh37"	"1"	177220181	177220181	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.270-4874A>G"	""	""	"ENST00000361539"	""	124	"101"	23	47	"47"	0	"BRINP2,intron_variant,,ENST00000361539,NM_021165.2;"	"G"	"ENSG00000198797"	"ENST00000361539"	"Transcript"	"intron_variant"	"-/3558"	"-/2352"	"-/783"	""	""	""	"1"	NA	1	"BRINP2"	"HGNC"	13746	"protein_coding"	"YES"	"CCDS1320.1"	"ENSP00000354481"	"Q9C0B6"	""	"UPI000006DF55"	"NM_021165.2"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"0f526ce8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185483870967742	"WGS"	FALSE
"8357"	"RALGPS2"	55103	"mskcc.org"	"GRCh37"	"1"	178745329	178745329	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-83-488G>A"	""	""	"ENST00000367635"	""	82	"64"	18	47	"47"	0	"RALGPS2,intron_variant,,ENST00000367635,NM_152663.3;RALGPS2,intron_variant,,ENST00000367634,NM_001286247.1;RALGPS2,intron_variant,,ENST00000324778,;RALGPS2,intron_variant,,ENST00000495034,;"	"A"	"ENSG00000116191"	"ENST00000367635"	"Transcript"	"intron_variant"	"-/5834"	"-/1752"	"-/583"	""	""	""	"1"	NA	1	"RALGPS2"	"HGNC"	30279	"protein_coding"	"YES"	"CCDS1325.1"	"ENSP00000356607"	"Q86X27"	""	"UPI000000DBE1"	"NM_152663.3"	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"0f52af64-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219512195121951	"WGS"	FALSE
"8358"	"ACBD6"	84320	"mskcc.org"	"GRCh37"	"1"	180325670	180325670	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.663+40981A>G"	""	""	"ENST00000367595"	""	85	"77"	8	47	"47"	0	"ACBD6,intron_variant,,ENST00000367595,NM_032360.3;ACBD6,intron_variant,,ENST00000475338,;ACBD6,intron_variant,,ENST00000496993,;"	"C"	"ENSG00000135847"	"ENST00000367595"	"Transcript"	"intron_variant"	"-/1670"	"-/849"	"-/282"	""	""	""	"1"	NA	-1	"ACBD6"	"HGNC"	23339	"protein_coding"	"YES"	"CCDS1339.1"	"ENSP00000356567"	"Q9BR61"	""	"UPI0000039B39"	"NM_032360.3"	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"0f52fe4c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"8359"	"HMCN1"	83872	"mskcc.org"	"GRCh37"	"1"	185929971	185929971	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1829-1679G>A"	""	""	"ENST00000271588"	""	86	"70"	16	50	"50"	0	"HMCN1,intron_variant,,ENST00000271588,NM_031935.2;HMCN1,intron_variant,,ENST00000367492,;HMCN1,intron_variant,,ENST00000485744,;HMCN1,upstream_gene_variant,,ENST00000493413,;"	"A"	"ENSG00000143341"	"ENST00000271588"	"Transcript"	"intron_variant"	"-/18208"	"-/16908"	"-/5635"	""	""	""	"1"	NA	1	"HMCN1"	"HGNC"	19194	"protein_coding"	"YES"	"CCDS30956.1"	"ENSP00000271588"	"Q96RW7"	""	"UPI0000458C0E"	"NM_031935.2"	""	""	""	"11/106"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"0f53dae2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186046511627907	"WGS"	FALSE
"8360"	"RP11-463J7.2"	440704	"mskcc.org"	"GRCh37"	"1"	190655507	190655507	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.145-52061G>T"	""	""	"ENST00000413356"	""	81	"67"	14	60	"60"	0	"RP11-463J7.2,intron_variant,,ENST00000413356,;"	"T"	"ENSG00000231175"	"ENST00000413356"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2216"	""	""	""	""	""	"1"	NA	1	"RP11-463J7.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"0f5482a8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172839506172839	"WGS"	FALSE
"8361"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	192231165	192231165	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"69"	10	69	"69"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"0f54c484-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126582278481013	"WGS"	FALSE
"8362"	"CFHR5"	81494	"mskcc.org"	"GRCh37"	"1"	196979117	196979117	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000256785"	""	103	"76"	27	51	"51"	0	"CFHR5,downstream_gene_variant,,ENST00000367414,NM_030787.3;CFHR5,downstream_gene_variant,,ENST00000256785,;"	"A"	"ENSG00000134389"	"ENST00000256785"	"Transcript"	"downstream_gene_variant"	"-/2810"	"-/1710"	"-/569"	""	""	""	"1"	"313"	1	"CFHR5"	"HGNC"	24668	"protein_coding"	"YES"	"CCDS1387.1"	"ENSP00000256785"	"Q9BXR6"	""	"UPI0000043814"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"0f556826-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.262135922330097	"WGS"	FALSE
"8363"	"PTPRC"	5788	"mskcc.org"	"GRCh37"	"1"	198711144	198711144	"+"	"Silent"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2550G>A"	"p.="	"p.V850V"	"ENST00000442510"	"24/33"	87	"69"	18	52	"52"	0	"PTPRC,synonymous_variant,p.=,ENST00000367376,NM_002838.4;PTPRC,synonymous_variant,p.=,ENST00000352140,;PTPRC,synonymous_variant,p.=,ENST00000442510,;PTPRC,synonymous_variant,p.=,ENST00000594404,NM_080921.3;PTPRC,synonymous_variant,p.=,ENST00000348564,;"	"A"	"ENSG00000081237"	"ENST00000442510"	"Transcript"	"synonymous_variant"	"2691/5164"	"2550/3921"	"850/1306"	"V"	"gtG/gtA"	""	"1"	NA	1	"PTPRC"	"HGNC"	9666	"protein_coding"	"YES"	"CCDS1397.2"	"ENSP00000411355"	""	"M9MML3,Q9H3X6,Q6QIR3,Q6QIQ5,Q6QIN9,Q6QIN1,Q6QIM3,Q6LDN6"	"UPI000046FDB4"	""	""	""	"24/33"	""	"Gene3D:3.90.190.10,Pfam_domain:PF00102,PIRSF_domain:PIRSF002004,Prints_domain:PR00700,PROSITE_profiles:PS50055,PROSITE_profiles:PS50056,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF278,SMART_domains:SM00194,SMART_domains:SM00404,Superfamily_domains:SSF52799,Transmembrane_helices:TMhelix"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"0f55a390-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206896551724138	"WGS"	TRUE
"8364"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	198939086	198939086	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"86"	17	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"0f55a89a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16504854368932	"WGS"	FALSE
"8365"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	199413730	199413730	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"65"	21	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"0f55bbbe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244186046511628	"WGS"	FALSE
"8366"	"LMOD1"	25802	"mskcc.org"	"GRCh37"	"1"	201897936	201897936	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs188997237"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.261+17272G>A"	""	""	"ENST00000367288"	""	79	"72"	7	48	"48"	0	"LMOD1,intron_variant,,ENST00000367288,NM_012134.2;"	"T"	"ENSG00000163431"	"ENST00000367288"	"Transcript"	"intron_variant"	"-/3970"	"-/1803"	"-/600"	""	""	"rs188997237"	"1"	NA	-1	"LMOD1"	"HGNC"	6647	"protein_coding"	"YES"	"CCDS53457.1"	"ENSP00000356257"	"P29536"	"B4DIX9"	"UPI00003665F4"	"NM_012134.2"	""	""	""	"1/2"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"0f56a452-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"8367"	"RP11-510N19.2"	0	"mskcc.org"	"GRCh37"	"1"	201999554	201999554	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000453255"	""	100	"94"	6	42	"42"	0	"RP11-510N19.2,downstream_gene_variant,,ENST00000453255,;"	"T"	"ENSG00000232296"	"ENST00000453255"	"Transcript"	"downstream_gene_variant"	"-/87"	""	""	""	""	""	"1"	"1734"	1	"RP11-510N19.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"0f56adf8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.06	"WGS"	FALSE
"8368"	"LAX1"	54900	"mskcc.org"	"GRCh37"	"1"	203737090	203737090	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"rs551312318"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.89+2308A>T"	""	""	"ENST00000442561"	""	91	"86"	5	40	"40"	0	"LAX1,intron_variant,,ENST00000442561,NM_017773.3;LAX1,intron_variant,,ENST00000367217,NM_001136190.1;LAX1,upstream_gene_variant,,ENST00000367215,;"	"T"	"ENSG00000122188"	"ENST00000442561"	"Transcript"	"intron_variant"	"-/3023"	"-/1197"	"-/398"	""	""	"rs551312318"	"1"	NA	1	"LAX1"	"HGNC"	26005	"protein_coding"	"YES"	"CCDS1441.2"	"ENSP00000406970"	"Q8IWV1"	""	"UPI000007446D"	"NM_017773.3"	""	""	""	"1/4"	""	"T:0.0106"	"T:0.0378"	"T:0.0043"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"0f5737c8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0549450549450549	"WGS"	FALSE
"8369"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	203901500	203901500	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"70"	20	52	"52"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"0f574eca-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"8370"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	208722249	208722249	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"70"	18	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"0f588916-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204545454545455	"WGS"	FALSE
"8371"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	209011369	209011369	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"62"	18	55	"54"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"0f58938e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225	"WGS"	FALSE
"8372"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	209197825	209197825	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"72"	15	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"0f589ece-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WGS"	FALSE
"8373"	"SYT14"	255928	"mskcc.org"	"GRCh37"	"1"	210181590	210181590	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.197-5388C>T"	""	""	"ENST00000422431"	""	110	"98"	12	58	"58"	0	"SYT14,intron_variant,,ENST00000537238,NM_001256006.1,NM_153262.3;SYT14,intron_variant,,ENST00000422431,NM_001146261.2,NM_001146264.2;SYT14,intron_variant,,ENST00000367015,;SYT14,intron_variant,,ENST00000534859,NM_001146262.2;SYT14,intron_variant,,ENST00000399639,;SYT14,intron_variant,,ENST00000472886,;SYT14,intron_variant,,ENST00000367019,;SYT14,intron_variant,,ENST00000271745,;"	"T"	"ENSG00000143469"	"ENST00000422431"	"Transcript"	"intron_variant"	"-/5162"	"-/1860"	"-/619"	""	""	""	"1"	NA	1	"SYT14"	"HGNC"	23143	"protein_coding"	"YES"	"CCDS53469.1"	"ENSP00000389039"	"Q8NB59"	"A1L3Y1"	"UPI0001639EBD"	"NM_001146261.2,NM_001146264.2"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"0f58c8ea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109090909090909	"WGS"	FALSE
"8374"	"KCNH1"	3756	"mskcc.org"	"GRCh37"	"1"	211108357	211108357	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1033-14946A>G"	""	""	"ENST00000271751"	""	105	"80"	25	41	"41"	0	"KCNH1,intron_variant,,ENST00000367007,NM_172362.2,NM_002238.3;KCNH1,intron_variant,,ENST00000271751,;"	"C"	"ENSG00000143473"	"ENST00000271751"	"Transcript"	"intron_variant"	"-/3066"	"-/2970"	"-/989"	""	""	""	"1"	NA	-1	"KCNH1"	"HGNC"	6250	"protein_coding"	"YES"	"CCDS1496.1"	"ENSP00000271751"	"O95259"	""	"UPI000003230D"	""	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"0f58dcd6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WGS"	FALSE
"8375"	"INTS7"	25896	"mskcc.org"	"GRCh37"	"1"	212152240	212152240	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1231-387C>T"	""	""	"ENST00000366994"	""	75	"59"	16	50	"50"	0	"INTS7,intron_variant,,ENST00000366994,NM_001199811.1,NM_015434.3,NM_001199812.1;INTS7,intron_variant,,ENST00000366993,;INTS7,intron_variant,,ENST00000366992,;INTS7,intron_variant,,ENST00000440600,NM_001199809.1;INTS7,intron_variant,,ENST00000469606,;INTS7,upstream_gene_variant,,ENST00000461212,;INTS7,upstream_gene_variant,,ENST00000475798,;"	"A"	"ENSG00000143493"	"ENST00000366994"	"Transcript"	"intron_variant"	"-/4417"	"-/2889"	"-/962"	""	""	""	"1"	NA	-1	"INTS7"	"HGNC"	24484	"protein_coding"	"YES"	"CCDS1501.1"	"ENSP00000355961"	"Q9NVH2"	""	"UPI000006FE2E"	"NM_001199811.1,NM_015434.3,NM_001199812.1"	""	""	""	"10/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"0f591570-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213333333333333	"WGS"	FALSE
"8376"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	213495970	213495970	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"87"	11	68	"68"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"0f5966a6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112244897959184	"WGS"	FALSE
"8377"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	218132312	218132312	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"81"	9	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"0f5a0a98-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"8378"	"snoU13"	0	"mskcc.org"	"GRCh37"	"1"	223081152	223081152	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000459434"	""	72	"59"	13	33	"33"	0	"DISP1,intron_variant,,ENST00000360254,;snoU13,downstream_gene_variant,,ENST00000459434,;DISP1,intron_variant,,ENST00000495684,;"	"T"	"ENSG00000239054"	"ENST00000459434"	"Transcript"	"downstream_gene_variant"	"-/104"	""	""	""	""	""	"1"	"4034"	-1	"snoU13"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"0f5ad4fa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180555555555556	"WGS"	FALSE
"8379"	"RP11-396C23.3"	0	"mskcc.org"	"GRCh37"	"1"	226319112	226319112	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000605837"	""	100	"79"	21	54	"54"	0	"RP11-396C23.3,downstream_gene_variant,,ENST00000605837,;"	"C"	"ENSG00000270598"	"ENST00000605837"	"Transcript"	"downstream_gene_variant"	"-/169"	""	""	""	""	""	"1"	"4065"	1	"RP11-396C23.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"0f5bb65e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21	"WGS"	FALSE
"8380"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	227571063	227571063	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"65"	8	35	"35"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"0f5c13b0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10958904109589	"WGS"	FALSE
"8381"	"ARF1"	375	"mskcc.org"	"GRCh37"	"1"	228286860	228286860	"+"	"3'UTR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1146G>T"	""	""	"ENST00000541182"	"5/5"	101	"80"	21	60	"60"	0	"ARF1,3_prime_UTR_variant,,ENST00000541182,NM_001024227.1,NM_001024228.1;ARF1,3_prime_UTR_variant,,ENST00000540651,NM_001024226.1;ARF1,3_prime_UTR_variant,,ENST00000272102,NM_001658.3;C1orf35,downstream_gene_variant,,ENST00000272139,NM_024319.2;MIR3620,downstream_gene_variant,,ENST00000584469,;ARF1,non_coding_transcript_exon_variant,,ENST00000477821,;C1orf35,downstream_gene_variant,,ENST00000472617,;C1orf35,downstream_gene_variant,,ENST00000469781,;C1orf35,downstream_gene_variant,,ENST00000485896,;ARF1,downstream_gene_variant,,ENST00000478424,;ARF1,downstream_gene_variant,,ENST00000478336,;ARF1,downstream_gene_variant,,ENST00000490705,;C1orf35,downstream_gene_variant,,ENST00000491293,;ARF1,downstream_gene_variant,,ENST00000470558,;ARF1,downstream_gene_variant,,ENST00000477451,;ARF1,downstream_gene_variant,,ENST00000470670,;ARF1,downstream_gene_variant,,ENST00000469235,;ARF1,downstream_gene_variant,,ENST00000497165,;ARF1,downstream_gene_variant,,ENST00000482962,;C1orf35,downstream_gene_variant,,ENST00000465199,;ARF1,downstream_gene_variant,,ENST00000473949,;C1orf35,downstream_gene_variant,,ENST00000492757,;ARF1,downstream_gene_variant,,ENST00000473546,;"	"T"	"ENSG00000143761"	"ENST00000541182"	"Transcript"	"3_prime_UTR_variant"	"1954/2006"	"-/546"	"-/181"	""	""	""	"1"	NA	1	"ARF1"	"HGNC"	652	"protein_coding"	"YES"	"CCDS1565.1"	"ENSP00000440005"	"P84077"	""	"UPI0000021911"	"NM_001024227.1,NM_001024228.1"	""	""	"5/5"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"0f5c690a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207920792079208	"WGS"	FALSE
"8382"	"GUK1"	2987	"mskcc.org"	"GRCh37"	"1"	228328589	228328589	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.61+525C>T"	""	""	"ENST00000366728"	""	106	"81"	25	78	"78"	0	"GUK1,intron_variant,,ENST00000312726,NM_000858.5;GUK1,intron_variant,,ENST00000391865,NM_001159390.1;GUK1,intron_variant,,ENST00000366730,NM_001242839.1;GUK1,intron_variant,,ENST00000366726,;GUK1,intron_variant,,ENST00000435153,;GUK1,intron_variant,,ENST00000366722,;GUK1,intron_variant,,ENST00000366723,;GUK1,intron_variant,,ENST00000366728,NM_001242840.1;GUK1,intron_variant,,ENST00000366721,;GUK1,intron_variant,,ENST00000453943,;GUK1,upstream_gene_variant,,ENST00000366718,NM_001159391.1;GUK1,upstream_gene_variant,,ENST00000412265,;GUK1,upstream_gene_variant,,ENST00000366716,;GUK1,intron_variant,,ENST00000492871,;GUK1,intron_variant,,ENST00000485083,;GUK1,intron_variant,,ENST00000498092,;GUK1,intron_variant,,ENST00000469973,;GUK1,intron_variant,,ENST00000485838,;GUK1,intron_variant,,ENST00000493209,;GUK1,intron_variant,,ENST00000493138,;GUK1,intron_variant,,ENST00000462807,;GUK1,upstream_gene_variant,,ENST00000470040,;GUK1,upstream_gene_variant,,ENST00000491613,;GUK1,upstream_gene_variant,,ENST00000486668,;GUK1,upstream_gene_variant,,ENST00000485168,;GUK1,upstream_gene_variant,,ENST00000460224,;GUK1,upstream_gene_variant,,ENST00000464858,;GUK1,upstream_gene_variant,,ENST00000495999,;GUK1,upstream_gene_variant,,ENST00000478725,;GUK1,upstream_gene_variant,,ENST00000485733,;GUK1,upstream_gene_variant,,ENST00000485859,;GUK1,upstream_gene_variant,,ENST00000472939,;GUK1,upstream_gene_variant,,ENST00000484953,;"	"T"	"ENSG00000143774"	"ENST00000366728"	"Transcript"	"intron_variant"	"-/842"	"-/726"	"-/241"	""	""	""	"1"	NA	1	"GUK1"	"HGNC"	4693	"protein_coding"	"YES"	"CCDS55689.1"	"ENSP00000355689"	"Q16774"	""	"UPI000046FFA0"	"NM_001242840.1"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"0f5c69aa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235849056603774	"WGS"	FALSE
"8383"	"DISC1"	27185	"mskcc.org"	"GRCh37"	"1"	231919210	231919210	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1635-11778C>A"	""	""	"ENST00000366633"	""	111	"87"	24	63	"63"	0	"DISC1,intron_variant,,ENST00000439617,NM_001164540.1,NM_018662.2,NM_001164537.1;DISC1,intron_variant,,ENST00000366637,NM_001012957.1;DISC1,intron_variant,,ENST00000535983,NM_001164538.1,NM_001164541.1;DISC1,intron_variant,,ENST00000602281,NM_001164542.1,NM_001164544.1;DISC1,intron_variant,,ENST00000366633,NM_001164539.1;DISC1,intron_variant,,ENST00000539444,NM_001164548.1,NM_001164545.1;DISC1,intron_variant,,ENST00000537876,NM_001164547.1,NM_001164546.1;DISC1,intron_variant,,ENST00000366636,NM_001012959.1;DISC1,intron_variant,,ENST00000602873,NM_001164556.1;TSNAX-DISC1,intron_variant,,ENST00000602962,;TSNAX-DISC1,intron_variant,,ENST00000602567,;TSNAX-DISC1,intron_variant,,ENST00000602634,;TSNAX-DISC1,intron_variant,,ENST00000602956,;TSNAX-DISC1,intron_variant,,ENST00000602885,;DISC1,intron_variant,,ENST00000535944,;DISC1,intron_variant,,ENST00000422590,;DISC1,intron_variant,,ENST00000295051,;DISC1,intron_variant,,ENST00000602822,;DISC1,intron_variant,,ENST00000602713,;DISC1,intron_variant,,ENST00000602700,;DISC1,intron_variant,,ENST00000366632,;"	"A"	"ENSG00000162946"	"ENST00000366633"	"Transcript"	"intron_variant"	"-/2676"	"-/2268"	"-/755"	""	""	""	"1"	NA	1	"DISC1"	"HGNC"	2888	"protein_coding"	"YES"	"CCDS53482.1"	"ENSP00000355593"	"Q9NRI5"	"C4P0C8"	"UPI0001A61692"	"NM_001164539.1"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"0f5d3d80-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216216216216216	"WGS"	FALSE
"8384"	"DISC1"	27185	"mskcc.org"	"GRCh37"	"1"	231965073	231965073	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1981+10810C>A"	""	""	"ENST00000366633"	""	111	"104"	7	60	"60"	0	"DISC1,intron_variant,,ENST00000439617,NM_001164540.1,NM_018662.2,NM_001164537.1;DISC1,intron_variant,,ENST00000366637,NM_001012957.1;DISC1,intron_variant,,ENST00000535983,NM_001164538.1,NM_001164541.1;DISC1,intron_variant,,ENST00000366633,NM_001164539.1;DISC1,intron_variant,,ENST00000537876,NM_001164547.1,NM_001164546.1;DISC1,intron_variant,,ENST00000366636,NM_001012959.1;DISC1,intron_variant,,ENST00000427560,;DISC1,intron_variant,,ENST00000422590,;DISC1,intron_variant,,ENST00000602713,;DISC1,intron_variant,,ENST00000366632,;"	"A"	"ENSG00000162946"	"ENST00000366633"	"Transcript"	"intron_variant"	"-/2676"	"-/2268"	"-/755"	""	""	""	"1"	NA	1	"DISC1"	"HGNC"	2888	"protein_coding"	"YES"	"CCDS53482.1"	"ENSP00000355593"	"Q9NRI5"	"C4P0C8"	"UPI0001A61692"	"NM_001164539.1"	""	""	""	"9/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"0f5d400a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0630630630630631	"WGS"	FALSE
"8385"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	232514191	232514191	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"60"	16	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"0f5d514e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"8386"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	233601500	233601500	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"74"	19	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"0f5d7e94-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204301075268817	"WGS"	FALSE
"8387"	"ARID4B"	51742	"mskcc.org"	"GRCh37"	"1"	235400063	235400063	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.586-2256T>C"	""	""	"ENST00000264183"	""	99	"91"	8	55	"55"	0	"ARID4B,intron_variant,,ENST00000264183,NM_016374.5;ARID4B,intron_variant,,ENST00000366603,NM_001206794.1;ARID4B,intron_variant,,ENST00000349213,NM_031371.3;ARID4B,intron_variant,,ENST00000418304,;ARID4B,intron_variant,,ENST00000421364,;ARID4B,intron_variant,,ENST00000491632,;ARID4B,intron_variant,,ENST00000466653,;ARID4B,upstream_gene_variant,,ENST00000471257,;"	"G"	"ENSG00000054267"	"ENST00000264183"	"Transcript"	"intron_variant"	"-/6067"	"-/3939"	"-/1312"	""	""	""	"1"	NA	-1	"ARID4B"	"HGNC"	15550	"protein_coding"	"YES"	"CCDS31061.1"	"ENSP00000264183"	"Q4LE39"	""	"UPI00000437FE"	"NM_016374.5"	""	""	""	"8/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"0f5df644-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0808080808080808	"WGS"	FALSE
"8388"	"ARID4B"	51742	"mskcc.org"	"GRCh37"	"1"	235417549	235417549	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.275-1425T>C"	""	""	"ENST00000264183"	""	91	"64"	27	50	"50"	0	"ARID4B,intron_variant,,ENST00000264183,NM_016374.5;ARID4B,intron_variant,,ENST00000366603,NM_001206794.1;ARID4B,intron_variant,,ENST00000349213,NM_031371.3;ARID4B,intron_variant,,ENST00000418304,;ARID4B,intron_variant,,ENST00000421364,;ARID4B,intron_variant,,ENST00000491632,;ARID4B,intron_variant,,ENST00000466653,;"	"G"	"ENSG00000054267"	"ENST00000264183"	"Transcript"	"intron_variant"	"-/6067"	"-/3939"	"-/1312"	""	""	""	"1"	NA	-1	"ARID4B"	"HGNC"	15550	"protein_coding"	"YES"	"CCDS31061.1"	"ENSP00000264183"	"Q4LE39"	""	"UPI00000437FE"	"NM_016374.5"	""	""	""	"5/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"0f5dfa22-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296703296703297	"WGS"	FALSE
"8389"	"ERO1LB"	56605	"mskcc.org"	"GRCh37"	"1"	236433777	236433777	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103-483A>T"	""	""	"ENST00000354619"	""	93	"77"	16	61	"61"	0	"ERO1LB,intron_variant,,ENST00000354619,NM_019891.3;ERO1LB,intron_variant,,ENST00000327333,;ERO1LB,intron_variant,,ENST00000366589,;RNU2-70P,downstream_gene_variant,,ENST00000410718,;"	"A"	"ENSG00000086619"	"ENST00000354619"	"Transcript"	"intron_variant"	"-/4567"	"-/1404"	"-/467"	""	""	""	"1"	NA	-1	"ERO1LB"	"HGNC"	14355	"protein_coding"	"YES"	"CCDS31064.1"	"ENSP00000346635"	"Q86YB8"	"Q5TAE8,Q5T1H5"	"UPI00004700B5"	"NM_019891.3"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"0f5e4176-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172043010752688	"WGS"	FALSE
"8390"	"CHRM3"	1131	"mskcc.org"	"GRCh37"	"1"	239565665	239565665	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.663+15138A>G"	""	""	"ENST00000468573"	""	97	"77"	20	58	"58"	0	"CHRM3,intron_variant,,ENST00000468573,;CHRM3,intron_variant,,ENST00000492335,;"	"G"	"ENSG00000133019"	"ENST00000468573"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2005"	""	""	""	""	""	"1"	NA	1	"CHRM3"	"HGNC"	1952	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"0f5ef012-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206185567010309	"WGS"	FALSE
"8391"	"CHRM3"	1131	"mskcc.org"	"GRCh37"	"1"	239719358	239719358	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.871+10309G>A"	""	""	"ENST00000468573"	""	112	"90"	22	57	"57"	0	"CHRM3,intron_variant,,ENST00000468573,;CHRM3,intron_variant,,ENST00000492335,;"	"A"	"ENSG00000133019"	"ENST00000468573"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2005"	""	""	""	""	""	"1"	NA	1	"CHRM3"	"HGNC"	1952	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"0f5ef4b8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196428571428571	"WGS"	FALSE
"8392"	"FMN2"	56776	"mskcc.org"	"GRCh37"	"1"	240391020	240391020	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4065+16485G>T"	""	""	"ENST00000319653"	""	97	"85"	12	67	"67"	0	"FMN2,intron_variant,,ENST00000319653,NM_020066.4;"	"T"	"ENSG00000155816"	"ENST00000319653"	"Transcript"	"intron_variant"	"-/6434"	"-/5169"	"-/1722"	""	""	""	"1"	NA	1	"FMN2"	"HGNC"	14074	"protein_coding"	"YES"	"CCDS31069.2"	"ENSP00000318884"	"Q9NZ56"	"Q96L17,B4DN09"	"UPI00015FA087"	"NM_020066.4"	""	""	""	"6/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"0f5f1b0a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123711340206186	"WGS"	FALSE
"8393"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	240787366	240787366	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"55"	12	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"0f5f3914-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.17910447761194	"WGS"	FALSE
"8394"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	241619895	241619895	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"74"	11	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"0f5f64a2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129411764705882	"WGS"	FALSE
"8395"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	244947168	244947168	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"73"	17	40	"40"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"0f604638-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188888888888889	"WGS"	FALSE
"8396"	"OR14I1"	401994	"mskcc.org"	"GRCh37"	"1"	248840215	248840215	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000342623"	""	8	"5"	3	10	"10"	0	"OR14I1,downstream_gene_variant,,ENST00000342623,NM_001004734.1;"	"A"	"ENSG00000189181"	"ENST00000342623"	"Transcript"	"downstream_gene_variant"	"-/1002"	"-/936"	"-/311"	""	""	""	"1"	"4413"	-1	"OR14I1"	"HGNC"	19575	"protein_coding"	"YES"	"CCDS31125.1"	"ENSP00000339726"	"A6ND48"	""	"UPI0000199BC9"	"NM_001004734.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"0f61e8f8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WGS"	FALSE
"8397"	"OR14I1"	401994	"mskcc.org"	"GRCh37"	"1"	248840278	248840278	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000342623"	""	15	"11"	4	20	"20"	0	"OR14I1,downstream_gene_variant,,ENST00000342623,NM_001004734.1;"	"C"	"ENSG00000189181"	"ENST00000342623"	"Transcript"	"downstream_gene_variant"	"-/1002"	"-/936"	"-/311"	""	""	""	"1"	"4350"	-1	"OR14I1"	"HGNC"	19575	"protein_coding"	"YES"	"CCDS31125.1"	"ENSP00000339726"	"A6ND48"	""	"UPI0000199BC9"	"NM_001004734.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"0f61e998-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"8398"	"ADARB2"	105	"mskcc.org"	"GRCh37"	"10"	1252735	1252735	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1683-6648G>A"	""	""	"ENST00000381312"	""	92	"73"	19	43	"43"	0	"ADARB2,intron_variant,,ENST00000381312,NM_018702.3;"	"T"	"ENSG00000185736"	"ENST00000381312"	"Transcript"	"intron_variant"	"-/3606"	"-/2220"	"-/739"	""	""	""	"1"	NA	-1	"ADARB2"	"HGNC"	227	"protein_coding"	"YES"	"CCDS7058.1"	"ENSP00000370713"	"Q9NS39"	"Q5VW43"	"UPI0000071776"	"NM_018702.3"	""	""	""	"7/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"0f632b3c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206521739130435	"WGS"	FALSE
"8399"	"ADARB2"	105	"mskcc.org"	"GRCh37"	"10"	1291828	1291828	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1193-7466G>T"	""	""	"ENST00000381312"	""	102	"91"	11	52	"52"	0	"ADARB2,intron_variant,,ENST00000381312,NM_018702.3;"	"A"	"ENSG00000185736"	"ENST00000381312"	"Transcript"	"intron_variant"	"-/3606"	"-/2220"	"-/739"	""	""	""	"1"	NA	-1	"ADARB2"	"HGNC"	227	"protein_coding"	"YES"	"CCDS7058.1"	"ENSP00000370713"	"Q9NS39"	"Q5VW43"	"UPI0000071776"	"NM_018702.3"	""	""	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"0f634248-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107843137254902	"WGS"	FALSE
"8400"	"ADARB2"	105	"mskcc.org"	"GRCh37"	"10"	1665058	1665058	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.100+114187C>T"	""	""	"ENST00000381312"	""	95	"76"	19	59	"59"	0	"ADARB2,intron_variant,,ENST00000381312,NM_018702.3;"	"A"	"ENSG00000185736"	"ENST00000381312"	"Transcript"	"intron_variant"	"-/3606"	"-/2220"	"-/739"	""	""	""	"1"	NA	-1	"ADARB2"	"HGNC"	227	"protein_coding"	"YES"	"CCDS7058.1"	"ENSP00000370713"	"Q9NS39"	"Q5VW43"	"UPI0000071776"	"NM_018702.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"0f63b49e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"8401"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	4581830	4581830	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"86"	16	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"0f64e152-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.156862745098039	"WGS"	FALSE
"8402"	"AKR1C1"	1645	"mskcc.org"	"GRCh37"	"10"	4983606	4983606	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-379+8084A>G"	""	""	"ENST00000434459"	""	92	"80"	12	61	"61"	0	"AKR1C1,intron_variant,,ENST00000434459,;"	"G"	"ENSG00000187134"	"ENST00000434459"	"Transcript"	"intron_variant"	"-/2021"	"-/972"	"-/323"	""	""	""	"1"	NA	1	"AKR1C1"	"HGNC"	384	"protein_coding"	""	"CCDS7061.1"	"ENSP00000412248"	"Q04828"	""	"UPI0000125760"	""	""	""	""	"4/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"0f64f142-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"8403"	"AKR1CL1"	340811	"mskcc.org"	"GRCh37"	"10"	5216363	5216363	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.93+10612A>G"	""	""	"ENST00000488756"	""	119	"91"	28	54	"54"	0	"AKR1CL1,intron_variant,,ENST00000334314,;AKR1CL1,intron_variant,,ENST00000488756,;AKR1CL1,intron_variant,,ENST00000472691,;"	"C"	"ENSG00000196326"	"ENST00000488756"	"Transcript"	"intron_variant"	"-/485"	"-/456"	"-/152"	""	""	""	"1"	NA	-1	"AKR1CL1"	"HGNC"	23469	"protein_coding"	"YES"	""	"ENSP00000417935"	""	"C9J5T8"	"UPI0001B790F0"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"0f64ff16-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"8404"	"AKR1CL1"	340811	"mskcc.org"	"GRCh37"	"10"	5232247	5232247	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.24-5215C>T"	""	""	"ENST00000445191"	""	96	"84"	12	45	"45"	0	"AKR1CL1,intron_variant,,ENST00000445191,;"	"A"	"ENSG00000196326"	"ENST00000445191"	"Transcript"	"intron_variant"	"-/81"	"-/81"	"-/27"	""	""	""	"1"	NA	-1	"AKR1CL1"	"HGNC"	23469	"protein_coding"	""	""	"ENSP00000394055"	""	"H7C0B9"	"UPI0001AE6CD4"	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"0f650056-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"8405"	"RN7SL445P"	0	"mskcc.org"	"GRCh37"	"10"	5668777	5668777	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000495609"	""	115	"107"	8	54	"54"	0	"RN7SL445P,upstream_gene_variant,,ENST00000495609,;RP11-336A10.7,downstream_gene_variant,,ENST00000441526,;"	"A"	"ENSG00000240577"	"ENST00000495609"	"Transcript"	"upstream_gene_variant"	"-/291"	""	""	""	""	""	"1"	"4649"	1	"RN7SL445P"	"HGNC"	46461	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"0f653c4c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0695652173913043	"WGS"	FALSE
"8406"	"SFMBT2"	57713	"mskcc.org"	"GRCh37"	"10"	7343241	7343241	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.437-15325G>T"	""	""	"ENST00000361972"	""	109	"82"	27	70	"70"	0	"SFMBT2,intron_variant,,ENST00000361972,NM_001018039.1;SFMBT2,intron_variant,,ENST00000397167,NM_001029880.2;SFMBT2,intron_variant,,ENST00000379713,;"	"A"	"ENSG00000198879"	"ENST00000361972"	"Transcript"	"intron_variant"	"-/7922"	"-/2685"	"-/894"	""	""	""	"1"	NA	-1	"SFMBT2"	"HGNC"	20256	"protein_coding"	"YES"	"CCDS31138.1"	"ENSP00000355109"	"Q5VUG0"	""	"UPI00001C1EDF"	"NM_001018039.1"	""	""	""	"4/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"0f65bbfe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247706422018349	"WGS"	FALSE
"8407"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	9523080	9523080	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"65"	15	64	"64"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"0f665e10-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"8408"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	10941221	10941221	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"66"	26	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"0f66a050-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282608695652174	"WGS"	FALSE
"8409"	"FRMD4A"	55691	"mskcc.org"	"GRCh37"	"10"	13807900	13807900	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.385-3220T>G"	""	""	"ENST00000357447"	""	119	"89"	30	53	"53"	0	"FRMD4A,intron_variant,,ENST00000357447,NM_018027.3;FRMD4A,intron_variant,,ENST00000358621,;FRMD4A,intron_variant,,ENST00000378503,;FRMD4A,intron_variant,,ENST00000264546,;FRMD4A,intron_variant,,ENST00000342409,;"	"C"	"ENSG00000151474"	"ENST00000357447"	"Transcript"	"intron_variant"	"-/6815"	"-/3120"	"-/1039"	""	""	""	"1"	NA	-1	"FRMD4A"	"HGNC"	25491	"protein_coding"	"YES"	"CCDS7101.1"	"ENSP00000350032"	"Q9P2Q2"	"F8WAN4"	"UPI0000366665"	"NM_018027.3"	""	""	""	"6/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"0f6772fa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252100840336134	"WGS"	FALSE
"8410"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	16010856	16010856	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"67"	22	47	"47"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"0f680e36-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247191011235955	"WGS"	FALSE
"8411"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	18981695	18981695	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	65	"59"	6	30	"30"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"0f68a738-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"8412"	"MALRD1"	0	"mskcc.org"	"GRCh37"	"10"	19954257	19954257	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4208-27130T>C"	""	""	"ENST00000377266"	""	82	"61"	21	44	"44"	0	"MALRD1,intron_variant,,ENST00000454679,;MALRD1,intron_variant,,ENST00000377266,;MALRD1,intron_variant,,ENST00000377265,;MALRD1,intron_variant,,ENST00000455457,;"	"C"	"ENSG00000204740"	"ENST00000377266"	"Transcript"	"intron_variant"	"-/4461"	"-/4461"	"-/1486"	""	""	""	"1"	NA	1	"MALRD1"	"HGNC"	24331	"protein_coding"	"YES"	""	"ENSP00000366477"	""	"U5GXS0"	"UPI000191551D"	""	""	""	""	"22/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"0f68da6e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25609756097561	"WGS"	FALSE
"8413"	"MLLT10"	8028	"mskcc.org"	"GRCh37"	"10"	21858887	21858887	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.241-16336A>G"	""	""	"ENST00000307729"	""	111	"104"	7	58	"58"	0	"MLLT10,intron_variant,,ENST00000377072,NM_004641.3;MLLT10,intron_variant,,ENST00000446906,;MLLT10,intron_variant,,ENST00000307729,;MLLT10,intron_variant,,ENST00000377059,NM_001195626.1;MLLT10,intron_variant,,ENST00000430455,;MLLT10,intron_variant,,ENST00000495130,;MLLT10,intron_variant,,ENST00000476557,;MLLT10,intron_variant,,ENST00000462999,;MLLT10,intron_variant,,ENST00000480415,;MLLT10,intron_variant,,ENST00000479634,;"	"G"	"ENSG00000078403"	"ENST00000307729"	"Transcript"	"intron_variant"	"-/5032"	"-/3207"	"-/1068"	""	""	""	"1"	NA	1	"MLLT10"	"HGNC"	16063	"protein_coding"	"YES"	"CCDS55708.1"	"ENSP00000307411"	"P55197"	"Q71UR7,B4DVS6"	"UPI00001F8FF7"	""	""	""	""	"3/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAG"	"0f692d7a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0630630630630631	"WGS"	TRUE
"8414"	"AL139815.1"	0	"mskcc.org"	"GRCh37"	"10"	23366936	23366936	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408294"	""	89	"73"	16	41	"41"	0	"AL139815.1,upstream_gene_variant,,ENST00000408294,;"	"C"	"ENSG00000221221"	"ENST00000408294"	"Transcript"	"upstream_gene_variant"	"-/96"	""	""	""	""	""	"1"	"3529"	-1	"AL139815.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"0f697758-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179775280898876	"WGS"	FALSE
"8415"	"GPR158"	57512	"mskcc.org"	"GRCh37"	"10"	25809804	25809804	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1405-30101A>T"	""	""	"ENST00000376351"	""	93	"75"	18	65	"65"	0	"GPR158,intron_variant,,ENST00000376351,NM_020752.2;"	"T"	"ENSG00000151025"	"ENST00000376351"	"Transcript"	"intron_variant"	"-/6959"	"-/3648"	"-/1215"	""	""	""	"1"	NA	1	"GPR158"	"HGNC"	23689	"protein_coding"	"YES"	"CCDS31166.1"	"ENSP00000365529"	"Q5T848"	""	"UPI0000199875"	"NM_020752.2"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"0f69f07a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193548387096774	"WGS"	FALSE
"8416"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	28790948	28790948	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"rs188777366"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"74"	6	35	"35"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs188777366"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"0f6a831e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"8417"	"SVIL"	6840	"mskcc.org"	"GRCh37"	"10"	29997150	29997150	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-399-21570C>T"	""	""	"ENST00000375398"	""	60	"52"	8	21	"21"	0	"SVIL,intron_variant,,ENST00000375398,;SVIL,intron_variant,,ENST00000375400,NM_003174.3;RNU6-908P,upstream_gene_variant,,ENST00000410160,;SVIL,intron_variant,,ENST00000465422,;"	"A"	"ENSG00000197321"	"ENST00000375398"	"Transcript"	"intron_variant"	"-/7994"	"-/6645"	"-/2214"	""	""	""	"1"	NA	-1	"SVIL"	"HGNC"	11480	"protein_coding"	"YES"	"CCDS7164.1"	"ENSP00000364547"	"O95425"	"Q569J5"	"UPI0000366678"	""	""	""	""	"1/39"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"0f6acfb8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"8418"	"NRP1"	8829	"mskcc.org"	"GRCh37"	"10"	33538254	33538254	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.981+4702A>C"	""	""	"ENST00000265371"	""	98	"91"	7	55	"55"	0	"NRP1,intron_variant,,ENST00000265371,;NRP1,intron_variant,,ENST00000374867,NM_001244973.1,NM_003873.5,NM_001244972.1;NRP1,intron_variant,,ENST00000374875,;NRP1,intron_variant,,ENST00000432372,;NRP1,intron_variant,,ENST00000374823,;NRP1,intron_variant,,ENST00000374816,;NRP1,intron_variant,,ENST00000395995,;NRP1,intron_variant,,ENST00000374822,NM_001024628.2;NRP1,intron_variant,,ENST00000374821,NM_001024629.2;NRP1,downstream_gene_variant,,ENST00000455749,;"	"G"	"ENSG00000099250"	"ENST00000265371"	"Transcript"	"intron_variant"	"-/5882"	"-/2772"	"-/923"	""	""	""	"1"	NA	-1	"NRP1"	"HGNC"	8004	"protein_coding"	"YES"	"CCDS7177.1"	"ENSP00000265371"	"O14786"	"Q9H2E0,Q9H2D9,Q9H2D8,Q9H2D7,Q7Z5M2"	"UPI000013D60A"	""	""	""	""	"7/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"0f6b9678-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"8419"	"LINC00993"	101929520	"mskcc.org"	"GRCh37"	"10"	37614807	37614807	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.314+10078C>A"	""	""	"ENST00000426471"	""	86	"70"	16	56	"56"	0	"ANKRD30A,intron_variant,,ENST00000602533,;LINC00993,intron_variant,,ENST00000426471,;LINC00993,intron_variant,,ENST00000606476,;LINC00993,intron_variant,,ENST00000435629,;"	"A"	"ENSG00000235687"	"ENST00000426471"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/652"	""	""	""	""	""	"1"	NA	1	"LINC00993"	"HGNC"	48948	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"0f6c5b58-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186046511627907	"WGS"	FALSE
"8420"	"ZNF248"	57209	"mskcc.org"	"GRCh37"	"10"	38144325	38144325	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.15+899C>T"	""	""	"ENST00000395867"	""	92	"78"	14	65	"65"	0	"ZNF248,intron_variant,,ENST00000395867,NM_001267606.1,NM_001267605.1,NM_021045.2,NM_001267607.1;ZNF248,intron_variant,,ENST00000357328,NM_001267597.1;ZNF248,intron_variant,,ENST00000374648,;ZNF248,intron_variant,,ENST00000395873,;ZNF248,intron_variant,,ENST00000395874,;RP11-162G10.5,upstream_gene_variant,,ENST00000429214,;ZNF248,intron_variant,,ENST00000485560,;"	"A"	"ENSG00000198105"	"ENST00000395867"	"Transcript"	"intron_variant"	"-/5141"	"-/1740"	"-/579"	""	""	""	"1"	NA	-1	"ZNF248"	"HGNC"	13041	"protein_coding"	"YES"	"CCDS7194.1"	"ENSP00000379208"	"Q8NDW4"	"Q9UMP4,B4DF82,B1AL42,B1AL40,A2RUI7"	"UPI000006CF12"	"NM_001267606.1,NM_001267605.1,NM_021045.2,NM_001267607.1"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"0f6c7598-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152173913043478	"WGS"	FALSE
"8421"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	39066342	39066342	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"rs201436042"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	125	"116"	9	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201436042"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"0f6d67e6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072	"WGS"	FALSE
"8422"	"ZNF37BP"	100129482	"mskcc.org"	"GRCh37"	"10"	43020570	43020570	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.769-1384T>A"	""	""	"ENST00000452075"	""	96	"89"	7	52	"52"	0	"ZNF37BP,intron_variant,,ENST00000452075,;ZNF37BP,intron_variant,,ENST00000473592,;ZNF37BP,intron_variant,,ENST00000435805,;ZNF37BP,upstream_gene_variant,,ENST00000452306,;"	"T"	"ENSG00000234420"	"ENST00000452075"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/8637"	""	""	""	""	""	"1"	NA	-1	"ZNF37BP"	"HGNC"	13103	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"0f702080-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0729166666666667	"WGS"	FALSE
"8423"	"ZNF487"	0	"mskcc.org"	"GRCh37"	"10"	43938861	43938861	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-91+6151A>G"	""	""	"ENST00000437590"	""	73	"66"	7	40	"40"	0	"ZNF487,intron_variant,,ENST00000437590,;ZNF487,intron_variant,,ENST00000431662,;ZNF487,intron_variant,,ENST00000315429,;ZNF487,intron_variant,,ENST00000456416,;ZNF487,intron_variant,,ENST00000451167,;ZNF487,intron_variant,,ENST00000490208,;"	"G"	"ENSG00000243660"	"ENST00000437590"	"Transcript"	"intron_variant"	"-/2111"	"-/627"	"-/208"	""	""	""	"1"	NA	1	"ZNF487"	"HGNC"	23488	"protein_coding"	"YES"	""	"ENSP00000392335"	""	"B7Z7S5"	"UPI00019151EB"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"0f7079e0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"8424"	"AL603965.1"	100996760	"mskcc.org"	"GRCh37"	"10"	47742271	47742271	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000335083"	""	18	"13"	5	8	"8"	0	"AL603965.1,upstream_gene_variant,,ENST00000335083,;ANXA8L2,upstream_gene_variant,,ENST00000374277,NM_001630.2;ANXA8L2,upstream_gene_variant,,ENST00000340243,;ANXA8L2,upstream_gene_variant,,ENST00000538825,;ANXA8L2,upstream_gene_variant,,ENST00000449464,;FAM25HP,upstream_gene_variant,,ENST00000445847,;FAM25HP,intron_variant,,ENST00000399377,;"	"C"	"ENSG00000215033"	"ENST00000335083"	"Transcript"	"upstream_gene_variant"	"-/1970"	"-/486"	"-/161"	""	""	""	"1"	"4691"	1	"AL603965.1"	"Clone_based_ensembl_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000334090"	""	"A6NF06"	"UPI0000140950"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"0f713786-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"8425"	"ENSR00000116171"	0	"mskcc.org"	"GRCh37"	"10"	51498328	51498328	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000116171"	""	84	"63"	21	52	"51"	1	""	"G"	""	"ENSR00000116171"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"0f72171e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"8426"	"A1CF"	29974	"mskcc.org"	"GRCh37"	"10"	52583434	52583434	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.794-3025C>G"	""	""	"ENST00000373995"	""	88	"77"	11	54	"54"	0	"A1CF,intron_variant,,ENST00000374001,;A1CF,intron_variant,,ENST00000395489,NM_001198819.1;A1CF,intron_variant,,ENST00000373995,NM_138933.2;A1CF,intron_variant,,ENST00000282641,NM_138932.2;A1CF,intron_variant,,ENST00000373997,NM_001198820.1,NM_001198818.1,NM_014576.3;A1CF,intron_variant,,ENST00000373993,;A1CF,intron_variant,,ENST00000395495,;RP11-449O16.2,intron_variant,,ENST00000438919,;A1CF,intron_variant,,ENST00000493415,;A1CF,downstream_gene_variant,,ENST00000473480,;"	"C"	"ENSG00000148584"	"ENST00000373995"	"Transcript"	"intron_variant"	"-/2211"	"-/1785"	"-/594"	""	""	""	"1"	NA	-1	"A1CF"	"HGNC"	24086	"protein_coding"	"YES"	"CCDS7243.1"	"ENSP00000363107"	"Q9NQ94"	""	"UPI000013DB32"	"NM_138933.2"	""	""	""	"7/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"0f725382-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"8427"	"RP11-71J2.1"	0	"mskcc.org"	"GRCh37"	"10"	55051902	55051902	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs531514228"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.75-548C>T"	""	""	"ENST00000449272"	""	91	"78"	13	75	"75"	0	"RP11-71J2.1,intron_variant,,ENST00000449272,;"	"A"	"ENSG00000226296"	"ENST00000449272"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/597"	""	""	""	""	"rs531514228"	"1"	NA	-1	"RP11-71J2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	"A:0.0016"	"A:0.0053"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"0f72996e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"8428"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	61278153	61278153	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"57"	20	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"0f73809a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25974025974026	"WGS"	FALSE
"8429"	"RTKN2"	219790	"mskcc.org"	"GRCh37"	"10"	63954006	63954006	"+"	"3'UTR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*3661G>C"	""	""	"ENST00000373789"	"12/12"	94	"74"	20	60	"60"	0	"RTKN2,3_prime_UTR_variant,,ENST00000373789,NM_145307.2;RTKN2,intron_variant,,ENST00000315289,;RTKN2,intron_variant,,ENST00000395265,;"	"G"	"ENSG00000182010"	"ENST00000373789"	"Transcript"	"3_prime_UTR_variant"	"5588/6641"	"-/1830"	"-/609"	""	""	""	"1"	NA	-1	"RTKN2"	"HGNC"	19364	"protein_coding"	"YES"	"CCDS7263.1"	"ENSP00000362894"	"Q8IZC4"	""	"UPI000007413A"	"NM_145307.2"	""	""	"12/12"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"0f73f6a6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212765957446809	"WGS"	FALSE
"8430"	"JMJD1C"	221037	"mskcc.org"	"GRCh37"	"10"	65122204	65122204	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.333+17874T>G"	""	""	"ENST00000399262"	""	84	"72"	12	62	"62"	0	"JMJD1C,intron_variant,,ENST00000399262,NM_032776.1;JMJD1C,intron_variant,,ENST00000399251,;RP11-351O1.4,downstream_gene_variant,,ENST00000602989,;"	"C"	"ENSG00000171988"	"ENST00000399262"	"Transcript"	"intron_variant"	"-/8666"	"-/7623"	"-/2540"	""	""	""	"1"	NA	-1	"JMJD1C"	"HGNC"	12313	"protein_coding"	"YES"	"CCDS41532.1"	"ENSP00000382204"	"Q15652"	""	"UPI0000198BEF"	"NM_032776.1"	""	""	""	"2/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"0f7430c6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"8431"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	66979886	66979886	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"66"	18	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"0f7470fe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"8432"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	67269690	67269690	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"69"	33	62	"62"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"0f747a68-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323529411764706	"WGS"	FALSE
"8433"	"SLC25A16"	8034	"mskcc.org"	"GRCh37"	"10"	70250245	70250245	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs534465220"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.611-1859C>T"	""	""	"ENST00000609923"	""	103	"91"	12	48	"48"	0	"SLC25A16,intron_variant,,ENST00000609923,NM_152707.3;SLC25A16,intron_variant,,ENST00000539557,;SLC25A16,upstream_gene_variant,,ENST00000608053,;SLC25A16,intron_variant,,ENST00000265870,;SLC25A16,intron_variant,,ENST00000493963,;SLC25A16,downstream_gene_variant,,ENST00000474927,;"	"A"	"ENSG00000122912"	"ENST00000609923"	"Transcript"	"intron_variant"	"-/6529"	"-/999"	"-/332"	""	""	"rs534465220"	"1"	NA	-1	"SLC25A16"	"HGNC"	10986	"protein_coding"	"YES"	"CCDS7280.1"	"ENSP00000476815"	"P16260"	"B4DPV4"	"UPI00000704FB"	"NM_152707.3"	""	""	""	"6/8"	""	"A:0.0004"	"A:0"	"A:0"	NA	"A:0.002"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"0f74f6f0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116504854368932	"WGS"	FALSE
"8434"	"NPFFR1"	64106	"mskcc.org"	"GRCh37"	"10"	72047068	72047068	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000277942"	""	91	"76"	15	46	"46"	0	"NPFFR1,upstream_gene_variant,,ENST00000277942,NM_022146.4;"	"T"	"ENSG00000148734"	"ENST00000277942"	"Transcript"	"upstream_gene_variant"	"-/8921"	"-/1293"	"-/430"	""	""	""	"1"	"3636"	-1	"NPFFR1"	"HGNC"	17425	"protein_coding"	"YES"	"CCDS53539.1"	"ENSP00000277942"	"Q9GZQ6"	"Q5T6D8"	"UPI000005048B"	"NM_022146.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"0f75663a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164835164835165	"WGS"	FALSE
"8435"	"CDH23"	64072	"mskcc.org"	"GRCh37"	"10"	73421646	73421646	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1465-13223C>T"	""	""	"ENST00000224721"	""	55	"48"	7	35	"35"	0	"CDH23,intron_variant,,ENST00000224721,NM_022124.5;CDH23,intron_variant,,ENST00000442677,;CDH23,intron_variant,,ENST00000466757,;CDH23,intron_variant,,ENST00000299366,NM_001171931.1;"	"T"	"ENSG00000107736"	"ENST00000224721"	"Transcript"	"intron_variant"	"-/10085"	"-/10080"	"-/3359"	""	""	""	"1"	NA	1	"CDH23"	"HGNC"	13733	"protein_coding"	""	""	"ENSP00000224721"	""	""	"UPI0002B831D5"	"NM_022124.5"	""	""	""	"13/68"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"0f75a410-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127272727272727	"WGS"	FALSE
"8436"	"MICU1"	10367	"mskcc.org"	"GRCh37"	"10"	74131031	74131031	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1271-2918C>G"	""	""	"ENST00000361114"	""	83	"77"	6	45	"45"	0	"MICU1,intron_variant,,ENST00000398761,;MICU1,intron_variant,,ENST00000361114,NM_001195518.1,NM_006077.3;MICU1,intron_variant,,ENST00000401998,;MICU1,intron_variant,,ENST00000398763,;MICU1,intron_variant,,ENST00000418483,NM_001195519.1;MICU1,intron_variant,,ENST00000476605,;"	"C"	"ENSG00000107745"	"ENST00000361114"	"Transcript"	"intron_variant"	"-/2383"	"-/1431"	"-/476"	""	""	""	"1"	NA	-1	"MICU1"	"HGNC"	1530	"protein_coding"	"YES"	"CCDS55715.1"	"ENSP00000354415"	"Q9BPX6"	""	"UPI0000035D9A"	"NM_001195518.1,NM_006077.3"	""	""	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"0f75fd02-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"8437"	"MICU1"	10367	"mskcc.org"	"GRCh37"	"10"	74189448	74189448	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.934-6319G>T"	""	""	"ENST00000361114"	""	84	"71"	13	46	"46"	0	"MICU1,intron_variant,,ENST00000398761,;MICU1,intron_variant,,ENST00000361114,NM_001195518.1,NM_006077.3;MICU1,intron_variant,,ENST00000401998,;MICU1,intron_variant,,ENST00000398763,;MICU1,intron_variant,,ENST00000418483,NM_001195519.1;MICU1,intron_variant,,ENST00000489666,;MICU1,intron_variant,,ENST00000476605,;"	"A"	"ENSG00000107745"	"ENST00000361114"	"Transcript"	"intron_variant"	"-/2383"	"-/1431"	"-/476"	""	""	""	"1"	NA	-1	"MICU1"	"HGNC"	1530	"protein_coding"	"YES"	"CCDS55715.1"	"ENSP00000354415"	"Q9BPX6"	""	"UPI0000035D9A"	"NM_001195518.1,NM_006077.3"	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"0f760220-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.154761904761905	"WGS"	FALSE
"8438"	"ADK"	132	"mskcc.org"	"GRCh37"	"10"	76429750	76429750	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.878-191G>C"	""	""	"ENST00000286621"	""	90	"76"	14	47	"47"	0	"ADK,intron_variant,,ENST00000372734,NM_001123.3,NM_001202449.1;ADK,intron_variant,,ENST00000539909,NM_001202450.1;ADK,intron_variant,,ENST00000541550,;ADK,intron_variant,,ENST00000286621,NM_006721.3;"	"C"	"ENSG00000156110"	"ENST00000286621"	"Transcript"	"intron_variant"	"-/1169"	"-/1089"	"-/362"	""	""	""	"1"	NA	1	"ADK"	"HGNC"	257	"protein_coding"	"YES"	"CCDS7343.1"	"ENSP00000286621"	"P55263"	"Q9HB33"	"UPI00001255EA"	"NM_006721.3"	""	""	""	"9/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"0f7681f0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155555555555556	"WGS"	FALSE
"8439"	"KAT6B"	23522	"mskcc.org"	"GRCh37"	"10"	76729397	76729397	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.731-21A>G"	""	""	"ENST00000287239"	""	89	"71"	18	51	"51"	0	"KAT6B,intron_variant,,ENST00000287239,NM_001256468.1,NM_012330.3;KAT6B,intron_variant,,ENST00000372711,;KAT6B,intron_variant,,ENST00000372724,NM_001256469.1;KAT6B,intron_variant,,ENST00000372725,;KAT6B,intron_variant,,ENST00000372714,;"	"G"	"ENSG00000156650"	"ENST00000287239"	"Transcript"	"intron_variant"	"-/8287"	"-/6222"	"-/2073"	""	""	""	"1"	NA	1	"KAT6B"	"HGNC"	17582	"protein_coding"	"YES"	"CCDS7345.1"	"ENSP00000287239"	"Q8WYB5"	""	"UPI000013DEA0"	"NM_001256468.1,NM_012330.3"	""	""	""	"4/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"0f7694b0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.202247191011236	"WGS"	TRUE
"8440"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	77181129	77181129	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"73"	7	45	"45"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"0f76b01c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0875	"WGS"	FALSE
"8441"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	77262524	77262524	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"79"	21	71	"71"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"0f76b530-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21	"WGS"	FALSE
"8442"	"KCNMA1"	3778	"mskcc.org"	"GRCh37"	"10"	78885846	78885846	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.809-5040A>C"	""	""	"ENST00000404857"	""	82	"71"	11	53	"53"	0	"KCNMA1,intron_variant,,ENST00000604624,NM_001271518.1,NM_001014797.2;KCNMA1,intron_variant,,ENST00000286627,NM_002247.3,NM_001271519.1;KCNMA1,intron_variant,,ENST00000286628,NM_001161352.1;KCNMA1,intron_variant,,ENST00000372443,;KCNMA1,intron_variant,,ENST00000372440,;KCNMA1,intron_variant,,ENST00000404771,;KCNMA1,intron_variant,,ENST00000457953,;KCNMA1,intron_variant,,ENST00000372437,;KCNMA1,intron_variant,,ENST00000372421,;KCNMA1,intron_variant,,ENST00000406533,;KCNMA1,intron_variant,,ENST00000354353,;KCNMA1,intron_variant,,ENST00000404857,NM_001161353.1;KCNMA1,intron_variant,,ENST00000372408,;KCNMA1,intron_variant,,ENST00000372403,;"	"G"	"ENSG00000156113"	"ENST00000404857"	"Transcript"	"intron_variant"	"-/3660"	"-/3660"	"-/1219"	""	""	""	"1"	NA	-1	"KCNMA1"	"HGNC"	6284	"protein_coding"	"YES"	"CCDS53545.1"	"ENSP00000385806"	"Q12791"	""	"UPI00003519E8"	"NM_001161353.1"	""	""	""	"5/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"0f76e334-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134146341463415	"WGS"	FALSE
"8443"	"FAM213A"	84293	"mskcc.org"	"GRCh37"	"10"	82163700	82163700	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000372187"	""	81	"74"	7	46	"46"	0	"FAM213A,upstream_gene_variant,,ENST00000372187,NM_001243780.1,NM_032333.4,NM_001243782.1,NM_001243778.1;FAM213A,upstream_gene_variant,,ENST00000372185,NM_001243781.1,NM_001243782.1;FAM213A,upstream_gene_variant,,ENST00000372188,NM_001243779.1;"	"G"	"ENSG00000122378"	"ENST00000372187"	"Transcript"	"upstream_gene_variant"	"-/1741"	"-/690"	"-/229"	""	""	""	"1"	"4549"	1	"FAM213A"	"HGNC"	28651	"protein_coding"	""	"CCDS7368.1"	"ENSP00000361261"	"Q9BRX8"	""	"UPI0000049E00"	"NM_001243780.1,NM_032333.4,NM_001243782.1,NM_001243778.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"0f77941e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"8444"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	83571114	83571114	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"80"	16	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"0f77d668-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"8445"	"GHITM"	27069	"mskcc.org"	"GRCh37"	"10"	85906875	85906875	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.484-1611C>T"	""	""	"ENST00000372134"	""	124	"99"	25	61	"61"	0	"GHITM,intron_variant,,ENST00000372134,NM_014394.2;"	"T"	"ENSG00000165678"	"ENST00000372134"	"Transcript"	"intron_variant"	"-/2128"	"-/1038"	"-/345"	""	""	""	"1"	NA	1	"GHITM"	"HGNC"	17281	"protein_coding"	"YES"	"CCDS41542.1"	"ENSP00000361207"	"Q9H3K2"	"Q9P099,Q658I8,Q5VT94,B4DPG9"	"UPI0000049DE6"	"NM_014394.2"	""	""	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"0f781434-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.201612903225806	"WGS"	FALSE
"8446"	"ADIRF"	10974	"mskcc.org"	"GRCh37"	"10"	88733005	88733005	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000372013"	""	103	"89"	14	60	"60"	0	"ADIRF,downstream_gene_variant,,ENST00000372013,NM_006829.2;MMRN2,upstream_gene_variant,,ENST00000609457,;MMRN2,upstream_gene_variant,,ENST00000474994,;ADIRF,downstream_gene_variant,,ENST00000416348,;ADIRF-AS1,upstream_gene_variant,,ENST00000609111,;ADIRF-AS1,upstream_gene_variant,,ENST00000418273,;ADIRF-AS1,upstream_gene_variant,,ENST00000440490,;RP11-96C23.15,upstream_gene_variant,,ENST00000609363,;RP11-96C23.5,intron_variant,,ENST00000433214,;ADIRF,intron_variant,,ENST00000561504,;"	"A"	"ENSG00000148671"	"ENST00000372013"	"Transcript"	"downstream_gene_variant"	"-/917"	"-/231"	"-/76"	""	""	""	"1"	"2333"	1	"ADIRF"	"HGNC"	24043	"protein_coding"	"YES"	"CCDS7381.1"	"ENSP00000361083"	"Q15847"	"Q5TBU5"	"UPI0000000C61"	"NM_006829.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"0f7882ca-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135922330097087	"WGS"	FALSE
"8447"	"ENSR00001425851"	0	"mskcc.org"	"GRCh37"	"10"	91767763	91767763	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001425851"	""	100	"79"	21	65	"65"	0	""	"A"	""	"ENSR00001425851"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"0f791992-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21	"WGS"	FALSE
"8448"	"HELLS"	3070	"mskcc.org"	"GRCh37"	"10"	96356886	96356886	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2422+18T>G"	""	""	"ENST00000348459"	""	112	"93"	19	50	"50"	0	"HELLS,intron_variant,,ENST00000371327,;HELLS,intron_variant,,ENST00000348459,NM_018063.3;HELLS,intron_variant,,ENST00000394036,;HELLS,intron_variant,,ENST00000394045,;HELLS,intron_variant,,ENST00000371332,;HELLS,intron_variant,,ENST00000239026,;RP11-119K6.6,intron_variant,,ENST00000432120,;HELLS,intron_variant,,ENST00000475263,;HELLS,downstream_gene_variant,,ENST00000464030,;"	"G"	"ENSG00000119969"	"ENST00000348459"	"Transcript"	"intron_variant"	"-/3099"	"-/2517"	"-/838"	""	""	""	"1"	NA	1	"HELLS"	"HGNC"	4861	"protein_coding"	"YES"	"CCDS7434.1"	"ENSP00000239027"	"Q9NRZ9"	"B1ALG6"	"UPI000006F63A"	"NM_018063.3"	""	""	""	"21/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"0f79e688-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.169642857142857	"WGS"	FALSE
"8449"	"FRAT1"	10023	"mskcc.org"	"GRCh37"	"10"	99078026	99078026	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371021"	""	85	"76"	9	57	"57"	0	"FRAT1,upstream_gene_variant,,ENST00000371021,NM_005479.3;FRAT1,upstream_gene_variant,,ENST00000490980,;"	"C"	"ENSG00000165879"	"ENST00000371021"	"Transcript"	"upstream_gene_variant"	"-/2651"	"-/840"	"-/279"	""	""	""	"1"	"996"	1	"FRAT1"	"HGNC"	3944	"protein_coding"	"YES"	"CCDS7455.1"	"ENSP00000360060"	"Q92837"	""	"UPI000006D6B7"	"NM_005479.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"0f7a6270-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105882352941176	"WGS"	FALSE
"8450"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	99537613	99537613	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"79"	11	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"0f7a9696-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122222222222222	"WGS"	FALSE
"8451"	"RP11-441O15.3"	0	"mskcc.org"	"GRCh37"	"10"	101197232	101197232	"+"	"RNA"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2356A>G"	""	""	"ENST00000416191"	"4/4"	87	"71"	16	56	"56"	0	"RP11-441O15.3,non_coding_transcript_exon_variant,,ENST00000416191,;"	"G"	"ENSG00000224934"	"ENST00000416191"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"2356/2998"	""	""	""	""	""	"1"	NA	1	"RP11-441O15.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"0f7adb1a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.183908045977011	"WGS"	FALSE
"8452"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	102451383	102451383	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"65"	21	71	"71"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"0f7b3cc2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244186046511628	"WGS"	FALSE
"8453"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	107672723	107672723	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	125	"109"	16	58	"58"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"0f7cbc00-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128	"WGS"	FALSE
"8454"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	107816821	107816821	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"93"	10	36	"36"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"0f7cc74a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0970873786407767	"WGS"	FALSE
"8455"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	111280120	111280120	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"76"	16	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"0f7d7424-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"8456"	"ENSR00001611161"	0	"mskcc.org"	"GRCh37"	"10"	111729152	111729152	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001611161"	""	115	"91"	24	49	"49"	0	""	"T"	""	"ENSR00001611161"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"0f7d8a2c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208695652173913	"WGS"	FALSE
"8457"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	113348552	113348552	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	64	"59"	5	43	"43"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"0f7e1e88-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.078125	"WGS"	FALSE
"8458"	"RNU7-165P"	0	"mskcc.org"	"GRCh37"	"10"	115110936	115110936	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000458864"	""	94	"78"	16	68	"68"	0	"RNU7-165P,upstream_gene_variant,,ENST00000458864,;"	"G"	"ENSG00000238380"	"ENST00000458864"	"Transcript"	"upstream_gene_variant"	"-/60"	""	""	""	""	""	"1"	"2248"	1	"RNU7-165P"	"HGNC"	45699	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"0f7e980e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170212765957447	"WGS"	FALSE
"8459"	"KIAA1598"	57698	"mskcc.org"	"GRCh37"	"10"	118821179	118821179	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-188-13158A>T"	""	""	"ENST00000392901"	""	74	"66"	8	41	"41"	0	"KIAA1598,intron_variant,,ENST00000392901,NM_001258300.1;"	"A"	"ENSG00000187164"	"ENST00000392901"	"Transcript"	"intron_variant"	"-/2190"	"-/1497"	"-/498"	""	""	""	"1"	NA	-1	"KIAA1598"	"HGNC"	29319	"protein_coding"	""	"CCDS58097.1"	"ENSP00000376635"	"A0MZ66"	""	"UPI000041B1D0"	"NM_001258300.1"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"0f7fa866-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	TRUE
"8460"	"KIAA1598"	57698	"mskcc.org"	"GRCh37"	"10"	118837254	118837254	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-188-29233G>A"	""	""	"ENST00000392901"	""	91	"72"	19	42	"42"	0	"KIAA1598,intron_variant,,ENST00000392901,NM_001258300.1;"	"T"	"ENSG00000187164"	"ENST00000392901"	"Transcript"	"intron_variant"	"-/2190"	"-/1497"	"-/498"	""	""	""	"1"	NA	-1	"KIAA1598"	"HGNC"	29319	"protein_coding"	""	"CCDS58097.1"	"ENSP00000376635"	"A0MZ66"	""	"UPI000041B1D0"	"NM_001258300.1"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"0f7fab36-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208791208791209	"WGS"	TRUE
"8461"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	118943953	118943953	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"79"	13	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"0f7fbc16-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141304347826087	"WGS"	FALSE
"8462"	"FGFR2"	2263	"mskcc.org"	"GRCh37"	"10"	123330851	123330851	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.110-5633G>C"	""	""	"ENST00000358487"	""	50	"46"	4	29	"29"	0	"FGFR2,intron_variant,,ENST00000358487,NM_000141.4;FGFR2,intron_variant,,ENST00000369061,NM_001144914.1;FGFR2,intron_variant,,ENST00000357555,NM_023029.2,NM_001144915.1;FGFR2,intron_variant,,ENST00000356226,NM_001144918.1,NM_001144916.1;FGFR2,intron_variant,,ENST00000369060,NM_001144917.1;FGFR2,intron_variant,,ENST00000457416,NM_022970.3;FGFR2,intron_variant,,ENST00000351936,;FGFR2,intron_variant,,ENST00000369059,;FGFR2,intron_variant,,ENST00000360144,NM_001144919.1;FGFR2,intron_variant,,ENST00000369058,;FGFR2,intron_variant,,ENST00000369056,NM_001144913.1;FGFR2,intron_variant,,ENST00000336553,;FGFR2,intron_variant,,ENST00000346997,;FGFR2,intron_variant,,ENST00000359354,;FGFR2,intron_variant,,ENST00000490349,;FGFR2,intron_variant,,ENST00000604236,;"	"G"	"ENSG00000066468"	"ENST00000358487"	"Transcript"	"intron_variant"	"-/4255"	"-/2466"	"-/821"	""	""	""	"1"	NA	-1	"FGFR2"	"HGNC"	3689	"protein_coding"	""	"CCDS31298.1"	"ENSP00000351276"	"P21802"	"Q9UMA9,Q9UEH2,D3DRD6"	"UPI000012A72A"	"NM_000141.4"	""	""	""	"2/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"0f81418a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	TRUE
"8463"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	124485239	124485239	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"77"	12	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"0f81ae86-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134831460674157	"WGS"	FALSE
"8464"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	124940803	124940803	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"47"	25	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"0f81ca06-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347222222222222	"WGS"	FALSE
"8465"	"CPXM2"	119587	"mskcc.org"	"GRCh37"	"10"	125574636	125574636	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.654-15921G>A"	""	""	"ENST00000241305"	""	99	"77"	22	52	"52"	0	"CPXM2,intron_variant,,ENST00000241305,NM_198148.2;CPXM2,intron_variant,,ENST00000368854,;"	"T"	"ENSG00000121898"	"ENST00000241305"	"Transcript"	"intron_variant"	"-/3554"	"-/2271"	"-/756"	""	""	""	"1"	NA	-1	"CPXM2"	"HGNC"	26977	"protein_coding"	"YES"	"CCDS7637.1"	"ENSP00000241305"	"Q8N436"	""	"UPI00001AE6BE"	"NM_198148.2"	""	""	""	"4/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"0f820aac-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"8466"	"ADAM12"	8038	"mskcc.org"	"GRCh37"	"10"	127810785	127810785	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.426-3992A>C"	""	""	"ENST00000368679"	""	107	"77"	30	63	"63"	0	"ADAM12,intron_variant,,ENST00000368679,NM_003474.4;ADAM12,intron_variant,,ENST00000368676,NM_021641.3;ADAM12,intron_variant,,ENST00000448723,;"	"G"	"ENSG00000148848"	"ENST00000368679"	"Transcript"	"intron_variant"	"-/7938"	"-/2730"	"-/909"	""	""	""	"1"	NA	-1	"ADAM12"	"HGNC"	190	"protein_coding"	"YES"	"CCDS7653.1"	"ENSP00000357668"	"O43184"	""	"UPI000036672C"	"NM_003474.4"	""	""	""	"5/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"0f82eeae-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280373831775701	"WGS"	FALSE
"8467"	"C10orf90"	118611	"mskcc.org"	"GRCh37"	"10"	128291343	128291343	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.313+43791A>C"	""	""	"ENST00000544758"	""	99	"93"	6	62	"62"	0	"C10orf90,intron_variant,,ENST00000544758,;C10orf90,intron_variant,,ENST00000488181,;"	"G"	"ENSG00000154493"	"ENST00000544758"	"Transcript"	"intron_variant"	"-/2720"	"-/2391"	"-/796"	""	""	""	"1"	NA	-1	"C10orf90"	"HGNC"	26563	"protein_coding"	""	""	"ENSP00000444369"	""	"S4R3N7,Q5T025,F5GZL2"	"UPI0002065070"	""	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"0f8316ea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"8468"	"DOCK1"	1793	"mskcc.org"	"GRCh37"	"10"	129210996	129210996	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4365+1808T>C"	""	""	"ENST00000280333"	""	99	"82"	17	50	"50"	0	"DOCK1,intron_variant,,ENST00000280333,NM_001380.3;"	"C"	"ENSG00000150760"	"ENST00000280333"	"Transcript"	"intron_variant"	"-/6797"	"-/5598"	"-/1865"	""	""	""	"1"	NA	1	"DOCK1"	"HGNC"	2987	"protein_coding"	"YES"	""	"ENSP00000280333"	"Q14185"	""	"UPI0000246CA1"	"NM_001380.3"	""	""	""	"43/51"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"0f8352c2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171717171717172	"WGS"	FALSE
"8469"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	129289987	129289987	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"89"	22	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"0f835c7c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.198198198198198	"WGS"	FALSE
"8470"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	129547888	129547888	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"64"	19	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"0f836b90-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228915662650602	"WGS"	FALSE
"8471"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	130955787	130955787	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"70"	15	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"0f83f3a8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"8472"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	131181534	131181534	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"rs557931584"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"80"	7	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs557931584"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"0f84019a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"8473"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	132487850	132487850	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"88"	20	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"0f846e8c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WGS"	FALSE
"8474"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	132815938	132815938	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"75"	16	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"0f84a320-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175824175824176	"WGS"	FALSE
"8475"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	132842282	132842282	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"109"	8	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"0f84ad2a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0683760683760684	"WGS"	FALSE
"8476"	"STK32C"	282974	"mskcc.org"	"GRCh37"	"10"	134112601	134112601	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.262+8475A>G"	""	""	"ENST00000298630"	""	91	"84"	7	48	"48"	0	"STK32C,intron_variant,,ENST00000298630,NM_173575.2;STK32C,intron_variant,,ENST00000368622,;STK32C,intron_variant,,ENST00000368625,;STK32C,intron_variant,,ENST00000368620,;"	"C"	"ENSG00000165752"	"ENST00000298630"	"Transcript"	"intron_variant"	"-/2086"	"-/1461"	"-/486"	""	""	""	"1"	NA	-1	"STK32C"	"HGNC"	21332	"protein_coding"	"YES"	"CCDS7666.1"	"ENSP00000298630"	"Q86UX6"	"I6L972"	"UPI0000192113"	"NM_173575.2"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"0f85ae3c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"8477"	"IFITM2"	10581	"mskcc.org"	"GRCh37"	"11"	308176	308176	"+"	"5'UTR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17G>C"	""	""	"ENST00000399817"	"1/2"	98	"83"	15	78	"78"	0	"IFITM2,5_prime_UTR_variant,,ENST00000399817,NM_006435.2;IFITM2,intron_variant,,ENST00000533141,;IFITM2,upstream_gene_variant,,ENST00000602569,;IFITM2,upstream_gene_variant,,ENST00000399815,;RP11-326C3.7,downstream_gene_variant,,ENST00000526612,;IFITM2,upstream_gene_variant,,ENST00000527146,;RP11-326C3.4,upstream_gene_variant,,ENST00000533113,;"	"C"	"ENSG00000185201"	"ENST00000399817"	"Transcript"	"5_prime_UTR_variant"	"14/659"	"-/399"	"-/132"	""	""	""	"1"	NA	1	"IFITM2"	"HGNC"	5413	"protein_coding"	"YES"	"CCDS41583.1"	"ENSP00000382714"	"Q01629"	"E9PQN9"	"UPI00001AF520"	"NM_006435.2"	""	""	"1/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"0f88bc94-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.153061224489796	"WGS"	FALSE
"8478"	"H19"	283120	"mskcc.org"	"GRCh37"	"11"	2024078	2024078	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000414790"	""	99	"89"	10	61	"61"	0	"H19,upstream_gene_variant,,ENST00000414790,;H19,upstream_gene_variant,,ENST00000428066,;"	"C"	"ENSG00000130600"	"ENST00000414790"	"Transcript"	"upstream_gene_variant"	"-/2348"	""	""	""	""	""	"1"	"4973"	-1	"H19"	"HGNC"	4713	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"0f8a9708-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101010101010101	"WGS"	FALSE
"8479"	"HBG2"	3048	"mskcc.org"	"GRCh37"	"11"	5497938	5497938	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-565+114117A>C"	""	""	"ENST00000380259"	""	83	"71"	12	67	"67"	0	"HBG2,intron_variant,,ENST00000380259,;HBE1,intron_variant,,ENST00000380237,;HBG2,intron_variant,,ENST00000380252,;HBE1,intron_variant,,ENST00000396895,;AC104389.28,intron_variant,,ENST00000415970,;AC104389.28,intron_variant,,ENST00000418729,;AC104389.28,intron_variant,,ENST00000420465,;AC104389.28,intron_variant,,ENST00000420726,;"	"G"	"ENSG00000196565"	"ENST00000380259"	"Transcript"	"intron_variant"	"-/1772"	"-/444"	"-/147"	""	""	""	"1"	NA	-1	"HBG2"	"HGNC"	4832	"protein_coding"	"YES"	"CCDS7755.1"	"ENSP00000369609"	"P69892"	"Q9UNL6,Q9UJ01,Q14476,Q14474,Q14402,D9YZU9,A1EGU3"	"UPI00000012DA"	""	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"0f8bab48-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.144578313253012	"WGS"	FALSE
"8480"	"RP11-98J9.2"	0	"mskcc.org"	"GRCh37"	"11"	13850800	13850800	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.79-1973A>G"	""	""	"ENST00000530492"	""	80	"57"	23	55	"55"	0	"RP11-98J9.2,intron_variant,,ENST00000530492,;RP11-98J9.1,intron_variant,,ENST00000531749,;"	"C"	"ENSG00000254927"	"ENST00000530492"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/516"	""	""	""	""	""	"1"	NA	-1	"RP11-98J9.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"0f8cfbd8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2875	"WGS"	FALSE
"8481"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	13917350	13917350	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"77"	18	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"0f8cfdc2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189473684210526	"WGS"	FALSE
"8482"	"SPON1"	10418	"mskcc.org"	"GRCh37"	"11"	14190392	14190392	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1360+33278G>A"	""	""	"ENST00000310358"	""	85	"68"	17	56	"56"	0	"SPON1,intron_variant,,ENST00000310358,;SPON1,intron_variant,,ENST00000533633,;"	"A"	"ENSG00000152268"	"ENST00000310358"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/5372"	""	""	""	""	""	"1"	NA	1	"SPON1"	"HGNC"	11252	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"7/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"0f8d048e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"8483"	"NUCB2"	4925	"mskcc.org"	"GRCh37"	"11"	17229945	17229945	"+"	"5'UTR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-184C>G"	""	""	"ENST00000528644"	"1/3"	79	"65"	14	63	"63"	0	"NUCB2,5_prime_UTR_variant,,ENST00000528644,;PIK3C2A,upstream_gene_variant,,ENST00000540361,;PIK3C2A,upstream_gene_variant,,ENST00000532035,;PIK3C2A,upstream_gene_variant,,ENST00000531428,;PIK3C2A,upstream_gene_variant,,ENST00000503729,;PIK3C2A,upstream_gene_variant,,ENST00000533645,;"	"G"	"ENSG00000070081"	"ENST00000528644"	"Transcript"	"5_prime_UTR_variant"	"246/530"	"-/101"	"-/33"	""	""	""	"1"	NA	1	"NUCB2"	"HGNC"	8044	"protein_coding"	""	""	"ENSP00000431136"	""	"E9PLR5"	"UPI0001F78755"	""	""	""	"1/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"0f8d7b3a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177215189873418	"WGS"	FALSE
"8484"	"SAAL1"	113174	"mskcc.org"	"GRCh37"	"11"	18098610	18098610	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000524803"	""	109	"81"	28	47	"47"	0	"SAAL1,downstream_gene_variant,,ENST00000524803,;SAAL1,downstream_gene_variant,,ENST00000300013,NM_138421.2;SAAL1,downstream_gene_variant,,ENST00000529318,;SAAL1,downstream_gene_variant,,ENST00000531751,;SAAL1,downstream_gene_variant,,ENST00000530436,;SAAL1,downstream_gene_variant,,ENST00000532452,;SAAL1,intron_variant,,ENST00000532403,;SAAL1,downstream_gene_variant,,ENST00000534721,;SAAL1,downstream_gene_variant,,ENST00000531581,;SAAL1,downstream_gene_variant,,ENST00000530237,;"	"A"	"ENSG00000166788"	"ENST00000524803"	"Transcript"	"downstream_gene_variant"	"-/1582"	"-/1425"	"-/474"	""	""	""	"1"	"3229"	-1	"SAAL1"	"HGNC"	25158	"protein_coding"	"YES"	"CCDS31439.1"	"ENSP00000432487"	"Q96ER3"	"G1UCX3"	"UPI00001F9E3B"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"0f8db10e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256880733944954	"WGS"	FALSE
"8485"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	23656559	23656559	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"83"	18	46	"46"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"0f8ea460-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178217821782178	"WGS"	FALSE
"8486"	"ANO3"	63982	"mskcc.org"	"GRCh37"	"11"	26328902	26328902	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-77-2290A>T"	""	""	"ENST00000537978"	""	104	"98"	6	42	"42"	0	"ANO3,intron_variant,,ENST00000537978,;ANO3,upstream_gene_variant,,ENST00000525139,;"	"T"	"ENSG00000134343"	"ENST00000537978"	"Transcript"	"intron_variant"	"-/3260"	"-/2898"	"-/965"	""	""	""	"1"	NA	1	"ANO3"	"HGNC"	14004	"protein_coding"	""	""	"ENSP00000440737"	""	"E9PQ79,B7Z3F5,B7Z3A8"	"UPI0001F78163"	""	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"0f8f2f3e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0576923076923077	"WGS"	FALSE
"8487"	"CTD-3012A18.1"	0	"mskcc.org"	"GRCh37"	"11"	29547641	29547641	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.283+6736C>T"	""	""	"ENST00000530389"	""	82	"71"	11	59	"59"	0	"CTD-3012A18.1,intron_variant,,ENST00000530389,;RP11-460B17.3,intron_variant,,ENST00000525097,;"	"T"	"ENSG00000255029"	"ENST00000530389"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/563"	""	""	""	""	""	"1"	NA	1	"CTD-3012A18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"0f8f983e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134146341463415	"WGS"	FALSE
"8488"	"DCDC1"	341019	"mskcc.org"	"GRCh37"	"11"	31354922	31354922	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-7+2072A>T"	""	""	"ENST00000452803"	""	78	"57"	21	64	"64"	0	"DCDC1,intron_variant,,ENST00000452803,NM_181807.3;DCDC1,intron_variant,,ENST00000342355,;"	"A"	"ENSG00000170959"	"ENST00000452803"	"Transcript"	"intron_variant"	"-/1706"	"-/1065"	"-/354"	""	""	""	"1"	NA	-1	"DCDC1"	"HGNC"	20625	"protein_coding"	"YES"	"CCDS7872.1"	"ENSP00000389792"	"P59894"	""	"UPI00001F9F1E"	"NM_181807.3"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"0f8fca02-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269230769230769	"WGS"	FALSE
"8489"	"PAMR1"	25891	"mskcc.org"	"GRCh37"	"11"	35522256	35522256	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.74-6436A>G"	""	""	"ENST00000278360"	""	107	"79"	28	52	"52"	0	"PAMR1,intron_variant,,ENST00000378880,NM_001001991.1;PAMR1,intron_variant,,ENST00000532848,NM_001282675.1;PAMR1,intron_variant,,ENST00000278360,NM_015430.2;PAMR1,intron_variant,,ENST00000527605,;PAMR1,intron_variant,,ENST00000378878,NM_001282676.1;PAMR1,intron_variant,,ENST00000529303,;PAMR1,intron_variant,,ENST00000534803,;"	"C"	"ENSG00000149090"	"ENST00000278360"	"Transcript"	"intron_variant"	"-/2786"	"-/2214"	"-/737"	""	""	""	"1"	NA	-1	"PAMR1"	"HGNC"	24554	"protein_coding"	"YES"	"CCDS7898.1"	"ENSP00000278360"	"Q6UXH9"	"E9PQ70"	"UPI000013DB70"	"NM_015430.2"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"0f90a558-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261682242990654	"WGS"	FALSE
"8490"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	36972700	36972700	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"73"	22	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"0f90d690-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231578947368421	"WGS"	FALSE
"8491"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	37904243	37904243	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"84"	23	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"0f90fe54-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214953271028037	"WGS"	FALSE
"8492"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	38123738	38123738	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"64"	17	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"0f9102fa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209876543209877	"WGS"	FALSE
"8493"	"RP11-277K23.1"	0	"mskcc.org"	"GRCh37"	"11"	38656579	38656579	"+"	"RNA"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.101C>T"	""	""	"ENST00000531882"	"2/5"	100	"79"	21	56	"56"	0	"RP11-277K23.1,non_coding_transcript_exon_variant,,ENST00000531882,;RP11-277K23.1,non_coding_transcript_exon_variant,,ENST00000529017,;"	"A"	"ENSG00000255175"	"ENST00000531882"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"101/477"	""	""	""	""	""	"1"	NA	-1	"RP11-277K23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"0f9112d6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21	"WGS"	FALSE
"8494"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	39075870	39075870	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"75"	29	74	"74"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"0f9120be-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278846153846154	"WGS"	FALSE
"8495"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	39200049	39200049	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"93"	14	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"0f9124e2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130841121495327	"WGS"	FALSE
"8496"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	39513413	39513413	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"67"	21	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"0f913748-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238636363636364	"WGS"	FALSE
"8497"	"LRRC4C"	57689	"mskcc.org"	"GRCh37"	"11"	40678343	40678343	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-326-8515A>G"	""	""	"ENST00000530763"	""	94	"77"	17	60	"60"	0	"LRRC4C,intron_variant,,ENST00000530763,NM_020929.2;LRRC4C,intron_variant,,ENST00000528697,NM_001258419.1;LRRC4C,intron_variant,,ENST00000534577,;"	"C"	"ENSG00000148948"	"ENST00000530763"	"Transcript"	"intron_variant"	"-/2669"	"-/1923"	"-/640"	""	""	""	"1"	NA	-1	"LRRC4C"	"HGNC"	29317	"protein_coding"	""	"CCDS31464.1"	"ENSP00000434761"	"Q9HCJ2"	"E9PLP4"	"UPI000000D9A7"	"NM_020929.2"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"0f916ac4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180851063829787	"WGS"	FALSE
"8498"	"RP11-124G5.3"	0	"mskcc.org"	"GRCh37"	"11"	41656868	41656868	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.150-14919A>G"	""	""	"ENST00000526978"	""	85	"64"	21	62	"62"	0	"RP11-124G5.3,intron_variant,,ENST00000526978,;RP11-124G5.3,intron_variant,,ENST00000531210,;"	"C"	"ENSG00000255388"	"ENST00000526978"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/859"	""	""	""	""	""	"1"	NA	-1	"RP11-124G5.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"0f918c7a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247058823529412	"WGS"	FALSE
"8499"	"RP11-124G5.3"	0	"mskcc.org"	"GRCh37"	"11"	41705980	41705980	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.149+27919C>A"	""	""	"ENST00000526978"	""	95	"84"	11	46	"46"	0	"RP11-124G5.3,intron_variant,,ENST00000526978,;RP11-124G5.3,intron_variant,,ENST00000531210,;"	"T"	"ENSG00000255388"	"ENST00000526978"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/859"	""	""	""	""	""	"1"	NA	-1	"RP11-124G5.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"0f918e64-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115789473684211	"WGS"	FALSE
"8500"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	42433737	42433737	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"61"	20	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"0f919c88-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246913580246914	"WGS"	FALSE
"8501"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	42828887	42828887	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"86"	10	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"0f91a9f8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104166666666667	"WGS"	FALSE
"8502"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	44685119	44685119	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs180747168"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	60	"53"	7	29	"29"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs180747168"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"0f91e454-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116666666666667	"WGS"	FALSE
"8503"	"RP11-430H10.4"	0	"mskcc.org"	"GRCh37"	"11"	45480403	45480403	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.535+31125C>T"	""	""	"ENST00000528445"	""	98	"78"	20	66	"66"	0	"RP11-430H10.4,intron_variant,,ENST00000528445,;"	"A"	"ENSG00000255041"	"ENST00000528445"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/606"	""	""	""	""	""	"1"	NA	-1	"RP11-430H10.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"0f920e0c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204081632653061	"WGS"	FALSE
"8504"	"PHF21A"	51317	"mskcc.org"	"GRCh37"	"11"	46097514	46097514	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.153+791A>C"	""	""	"ENST00000418153"	""	107	"87"	20	58	"58"	0	"PHF21A,intron_variant,,ENST00000257821,NM_001101802.1;PHF21A,intron_variant,,ENST00000323180,NM_016621.3;PHF21A,intron_variant,,ENST00000418153,;PHF21A,intron_variant,,ENST00000529782,;PHF21A,intron_variant,,ENST00000529734,;PHF21A,intron_variant,,ENST00000524497,;PHF21A,intron_variant,,ENST00000531959,;PHF21A,downstream_gene_variant,,ENST00000525438,;PHF21A,downstream_gene_variant,,ENST00000533757,;PHF21A,intron_variant,,ENST00000532883,;"	"G"	"ENSG00000135365"	"ENST00000418153"	"Transcript"	"intron_variant"	"-/2730"	"-/2043"	"-/680"	""	""	""	"1"	NA	-1	"PHF21A"	"HGNC"	24156	"protein_coding"	"YES"	"CCDS44578.1"	"ENSP00000398824"	"Q96BD5"	"E9PR02,E9PQM3,E9PNW9,E9PLV4"	"UPI000006E1CB"	""	""	""	""	"5/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"0f9223ce-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186915887850467	"WGS"	FALSE
"8505"	"TRIM51CP"	0	"mskcc.org"	"GRCh37"	"11"	48968395	48968395	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.507+360G>T"	""	""	"ENST00000505076"	""	75	"61"	14	64	"64"	0	"TRIM51CP,intron_variant,,ENST00000505076,;TRIM51CP,intron_variant,,ENST00000544390,;"	"T"	"ENSG00000249910"	"ENST00000505076"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1357"	""	""	""	""	""	"1"	NA	1	"TRIM51CP"	"HGNC"	43968	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"0f92fc0e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186666666666667	"WGS"	FALSE
"8506"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	48990449	48990449	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"88"	16	74	"74"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"0f92fcae-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"8507"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	56779136	56779136	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"62"	13	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"0f94eb7c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173333333333333	"WGS"	FALSE
"8508"	"P2RX3"	5024	"mskcc.org"	"GRCh37"	"11"	57124575	57124575	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.842+6203G>A"	""	""	"ENST00000263314"	""	107	"87"	20	48	"48"	0	"P2RX3,intron_variant,,ENST00000263314,NM_002559.3;AP000781.1,upstream_gene_variant,,ENST00000580015,;"	"A"	"ENSG00000109991"	"ENST00000263314"	"Transcript"	"intron_variant"	"-/1831"	"-/1194"	"-/397"	""	""	""	"1"	NA	1	"P2RX3"	"HGNC"	8534	"protein_coding"	"YES"	"CCDS7953.1"	"ENSP00000263314"	"P56373"	"H0YDR6"	"UPI00000342EB"	"NM_002559.3"	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"0f94f928-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186915887850467	"WGS"	FALSE
"8509"	"TIMM10"	26519	"mskcc.org"	"GRCh37"	"11"	57300496	57300496	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000257245"	""	96	"85"	11	48	"48"	0	"TIMM10,upstream_gene_variant,,ENST00000257245,NM_012456.2;TIMM10,upstream_gene_variant,,ENST00000525158,;TIMM10,upstream_gene_variant,,ENST00000525587,;"	"T"	"ENSG00000134809"	"ENST00000257245"	"Transcript"	"upstream_gene_variant"	"-/680"	"-/273"	"-/90"	""	""	""	"1"	"2258"	-1	"TIMM10"	"HGNC"	11814	"protein_coding"	"YES"	"CCDS7959.1"	"ENSP00000257245"	"P62072"	""	"UPI0000022ABB"	"NM_012456.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"0f950d00-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114583333333333	"WGS"	FALSE
"8510"	"SYT7"	9066	"mskcc.org"	"GRCh37"	"11"	61346620	61346620	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.31+1642G>T"	""	""	"ENST00000540677"	""	95	"80"	15	79	"79"	0	"SYT7,intron_variant,,ENST00000263846,NM_004200.3;SYT7,intron_variant,,ENST00000539008,;SYT7,intron_variant,,ENST00000540677,NM_001252065.1;SYT7,intron_variant,,ENST00000542670,;SYT7,intron_variant,,ENST00000535826,;SYT7,intron_variant,,ENST00000542836,;SYT7,intron_variant,,ENST00000545053,;SYT7,intron_variant,,ENST00000539468,;SYT7,intron_variant,,ENST00000539246,;"	"A"	"ENSG00000011347"	"ENST00000540677"	"Transcript"	"intron_variant"	"-/2013"	"-/1437"	"-/478"	""	""	""	"1"	NA	-1	"SYT7"	"HGNC"	11514	"protein_coding"	"YES"	"CCDS58139.1"	"ENSP00000444201"	"O43581"	""	"UPI0001639ECE"	"NM_001252065.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"0f95cab0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"8511"	"FADS1"	3992	"mskcc.org"	"GRCh37"	"11"	61587512	61587512	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000350997"	""	81	"75"	6	50	"50"	0	"FADS2,intron_variant,,ENST00000257261,NM_001281501.1;FADS2,intron_variant,,ENST00000522056,NM_001281502.1;FADS1,intron_variant,,ENST00000421879,;FADS1,intron_variant,,ENST00000448607,;FADS2,intron_variant,,ENST00000517839,;FADS2,intron_variant,,ENST00000574708,;FADS2,intron_variant,,ENST00000522639,;FADS1,upstream_gene_variant,,ENST00000350997,NM_013402.4;FADS1,upstream_gene_variant,,ENST00000542506,;FADS1,upstream_gene_variant,,ENST00000433932,;FADS1,upstream_gene_variant,,ENST00000540767,;FADS1,upstream_gene_variant,,ENST00000545245,;FADS1,upstream_gene_variant,,ENST00000466716,;FADS1,upstream_gene_variant,,ENST00000545405,;FADS1,upstream_gene_variant,,ENST00000544309,;FADS1,upstream_gene_variant,,ENST00000473263,;FADS1,upstream_gene_variant,,ENST00000544696,;FADS1,upstream_gene_variant,,ENST00000539419,;FADS1,upstream_gene_variant,,ENST00000491310,;MIR1908,upstream_gene_variant,,ENST00000410394,;FADS1,upstream_gene_variant,,ENST00000541683,;FADS1,upstream_gene_variant,,ENST00000424501,;"	"C"	"ENSG00000149485"	"ENST00000350997"	"Transcript"	"upstream_gene_variant"	"-/4523"	"-/1506"	"-/501"	""	""	""	"1"	"2878"	-1	"FADS1"	"HGNC"	3574	"protein_coding"	"YES"	"CCDS8011.2"	"ENSP00000322229"	"O60427"	"I3ZNT3,I3ZNS6,I3ZNS3,I3ZNS1,I3ZNN6,I3ZNL9,I3ZNL2,I3ZNH3,I3ZNE3,F5H8G5,F5H852,F5H5X5,F5H3P6,F5H2H3,F5H1Q7,F5H0Y2,F5GYH4,C9JJB3,C9J425"	"UPI00001AF33B"	"NM_013402.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"0f95e126-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"8512"	"TAF6L"	10629	"mskcc.org"	"GRCh37"	"11"	62540453	62540453	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-14+1491G>A"	""	""	"ENST00000294168"	""	79	"73"	6	32	"32"	0	"TAF6L,intron_variant,,ENST00000294168,NM_006473.3;TMEM223,intron_variant,,ENST00000528367,;TAF6L,intron_variant,,ENST00000529509,;TAF6L,intron_variant,,ENST00000526261,;RP11-727F15.11,upstream_gene_variant,,ENST00000596071,;TMEM223,intron_variant,,ENST00000527073,;TAF6L,intron_variant,,ENST00000524976,;TAF6L,intron_variant,,ENST00000532915,;TAF6L,intron_variant,,ENST00000525405,;"	"A"	"ENSG00000162227"	"ENST00000294168"	"Transcript"	"intron_variant"	"-/2116"	"-/1869"	"-/622"	""	""	""	"1"	NA	1	"TAF6L"	"HGNC"	17305	"protein_coding"	"YES"	"CCDS8035.1"	"ENSP00000294168"	"Q9Y6J9"	"E9PP94,E9PLV8"	"UPI00000720C0"	"NM_006473.3"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"0f965c28-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"8513"	"RP11-770G2.2"	0	"mskcc.org"	"GRCh37"	"11"	65523338	65523338	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.70+10069C>G"	""	""	"ENST00000534505"	""	80	"71"	9	38	"38"	0	"RP11-770G2.2,intron_variant,,ENST00000534505,;"	"G"	"ENSG00000255557"	"ENST00000534505"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/464"	""	""	""	""	""	"1"	NA	1	"RP11-770G2.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"0f97656e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1125	"WGS"	FALSE
"8514"	"RP11-770G2.2"	0	"mskcc.org"	"GRCh37"	"11"	65523339	65523339	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.70+10070A>G"	""	""	"ENST00000534505"	""	81	"72"	9	37	"37"	0	"RP11-770G2.2,intron_variant,,ENST00000534505,;"	"G"	"ENSG00000255557"	"ENST00000534505"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/464"	""	""	""	""	""	"1"	NA	1	"RP11-770G2.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"0f976622-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"8515"	"RP11-770G2.2"	0	"mskcc.org"	"GRCh37"	"11"	65523345	65523345	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs376886654"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.70+10076A>G"	""	""	"ENST00000534505"	""	79	"70"	9	40	"40"	0	"RP11-770G2.2,intron_variant,,ENST00000534505,;"	"G"	"ENSG00000255557"	"ENST00000534505"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/464"	""	""	""	""	"rs376886654"	"1"	NA	1	"RP11-770G2.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	"G:0.0028"	"G:0.0098"	"G:0"	NA	"G:0"	"G:0.001"	"G:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"0f9766c2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113924050632911	"WGS"	FALSE
"8516"	"DPP3"	10072	"mskcc.org"	"GRCh37"	"11"	66245939	66245939	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000360510"	""	110	"93"	17	52	"52"	0	"DPP3,upstream_gene_variant,,ENST00000532677,NM_130443.3,NM_005700.4,NM_001256670.1;DPP3,upstream_gene_variant,,ENST00000531863,;PELI3,downstream_gene_variant,,ENST00000349459,NM_001098510.1;PELI3,downstream_gene_variant,,ENST00000320740,NM_145065.2,NM_001243136.1;DPP3,upstream_gene_variant,,ENST00000360510,;DPP3,upstream_gene_variant,,ENST00000453114,;DPP3,upstream_gene_variant,,ENST00000541961,;DPP3,upstream_gene_variant,,ENST00000530165,;PELI3,downstream_gene_variant,,ENST00000528752,;PELI3,downstream_gene_variant,,ENST00000524466,;PELI3,downstream_gene_variant,,ENST00000526296,;DPP3,upstream_gene_variant,,ENST00000531354,;DPP3,upstream_gene_variant,,ENST00000533725,;DPP3,upstream_gene_variant,,ENST00000531314,;DPP3,upstream_gene_variant,,ENST00000532019,;DPP3,upstream_gene_variant,,ENST00000526515,;CTD-3074O7.5,intron_variant,,ENST00000527274,;CTD-3074O7.5,intron_variant,,ENST00000527092,;CTD-3074O7.5,intron_variant,,ENST00000533502,;CTD-3074O7.5,intron_variant,,ENST00000525142,;CTD-3074O7.5,upstream_gene_variant,,ENST00000602951,;DPP3,upstream_gene_variant,,ENST00000531272,;DPP3,upstream_gene_variant,,ENST00000544603,;PELI3,downstream_gene_variant,,ENST00000531856,;PELI3,downstream_gene_variant,,ENST00000532970,;"	"A"	"ENSG00000254986"	"ENST00000360510"	"Transcript"	"upstream_gene_variant"	"-/2687"	"-/2214"	"-/737"	""	""	""	"1"	"1941"	1	"DPP3"	"HGNC"	3008	"protein_coding"	"YES"	"CCDS8141.1"	"ENSP00000353701"	"Q9NY33"	"E9PQF2,E9PQ14,E9PPK9,E9PNX5"	"UPI000012983B"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"0f979836-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.154545454545455	"WGS"	FALSE
"8517"	"LRP5"	4041	"mskcc.org"	"GRCh37"	"11"	68221055	68221055	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000294304"	""	84	"76"	8	38	"38"	0	"LRP5,downstream_gene_variant,,ENST00000294304,NM_002335.2;LRP5,downstream_gene_variant,,ENST00000529702,;LRP5,downstream_gene_variant,,ENST00000529481,;LRP5,downstream_gene_variant,,ENST00000529993,;"	"T"	"ENSG00000162337"	"ENST00000294304"	"Transcript"	"downstream_gene_variant"	"-/5159"	"-/4848"	"-/1615"	""	""	""	"1"	"4312"	1	"LRP5"	"HGNC"	6697	"protein_coding"	"YES"	"CCDS8181.1"	"ENSP00000294304"	"O75197"	"E9PHY1"	"UPI0000073246"	"NM_002335.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"0f988c8c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"8518"	"RP11-554A11.6"	101928200	"mskcc.org"	"GRCh37"	"11"	68789078	68789078	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000538407"	""	97	"77"	20	66	"66"	0	"RP11-554A11.6,downstream_gene_variant,,ENST00000538407,;"	"A"	"ENSG00000256508"	"ENST00000538407"	"Transcript"	"downstream_gene_variant"	"-/1490"	""	""	""	""	""	"1"	"3163"	1	"RP11-554A11.6"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"0f98c8d2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206185567010309	"WGS"	FALSE
"8519"	"SHANK2"	22941	"mskcc.org"	"GRCh37"	"11"	70817842	70817842	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.592+3145C>A"	""	""	"ENST00000338508"	""	88	"75"	13	72	"72"	0	"SHANK2,intron_variant,,ENST00000338508,;SHANK2,intron_variant,,ENST00000413503,;SHANK2,intron_variant,,ENST00000457074,;"	"T"	"ENSG00000162105"	"ENST00000338508"	"Transcript"	"intron_variant"	"-/8987"	"-/5553"	"-/1850"	""	""	""	"1"	NA	-1	"SHANK2"	"HGNC"	14295	"protein_coding"	"YES"	""	"ENSP00000345193"	""	"C9JFP8,A6NHU9"	"UPI00020653A9"	""	""	""	""	"4/32"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"0f99bf1c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147727272727273	"WGS"	FALSE
"8520"	"CLPB"	81570	"mskcc.org"	"GRCh37"	"11"	72146401	72146401	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000294053"	""	72	"66"	6	45	"45"	0	"CLPB,upstream_gene_variant,,ENST00000294053,NM_001258394.1,NM_030813.4;CLPB,upstream_gene_variant,,ENST00000538039,NM_001258392.1;CLPB,upstream_gene_variant,,ENST00000437826,;CLPB,upstream_gene_variant,,ENST00000535990,;CLPB,upstream_gene_variant,,ENST00000543042,;CLPB,upstream_gene_variant,,ENST00000340729,NM_001258393.1;CLPB,upstream_gene_variant,,ENST00000445069,;CLPB,upstream_gene_variant,,ENST00000544683,;CLPB,upstream_gene_variant,,ENST00000539148,;CLPB,upstream_gene_variant,,ENST00000542555,;CLPB,upstream_gene_variant,,ENST00000535477,;"	"G"	"ENSG00000162129"	"ENST00000294053"	"Transcript"	"upstream_gene_variant"	"-/3240"	"-/2124"	"-/707"	""	""	""	"1"	"709"	-1	"CLPB"	"HGNC"	30664	"protein_coding"	"YES"	"CCDS8215.1"	"ENSP00000294053"	"Q9H078"	"F5H392"	"UPI00001359D5"	"NM_001258394.1,NM_030813.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"0f9a4874-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"8521"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	72252521	72252521	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"81"	8	49	"49"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"0f9a5580-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"8522"	"MRPL48"	51642	"mskcc.org"	"GRCh37"	"11"	73572811	73572811	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.475-1406T>A"	""	""	"ENST00000310614"	""	104	"81"	23	52	"52"	0	"MRPL48,intron_variant,,ENST00000314282,;MRPL48,intron_variant,,ENST00000535529,;MRPL48,intron_variant,,ENST00000310614,NM_016055.5;MRPL48,intron_variant,,ENST00000411840,;MRPL48,intron_variant,,ENST00000398483,;MRPL48,intron_variant,,ENST00000542303,;MRPL48,intron_variant,,ENST00000508278,;MRPL48,intron_variant,,ENST00000540162,;MRPL48,intron_variant,,ENST00000544819,;MRPL48,intron_variant,,ENST00000543058,;MRPL48,downstream_gene_variant,,ENST00000544140,;"	"A"	"ENSG00000175581"	"ENST00000310614"	"Transcript"	"intron_variant"	"-/1536"	"-/639"	"-/212"	""	""	""	"1"	NA	1	"MRPL48"	"HGNC"	16653	"protein_coding"	"YES"	"CCDS44676.1"	"ENSP00000308717"	"Q96GC5"	"F5H702"	"UPI0000073BDE"	"NM_016055.5"	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"0f9aaa44-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221153846153846	"WGS"	FALSE
"8523"	"XRRA1"	143570	"mskcc.org"	"GRCh37"	"11"	74576134	74576134	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.980-2068C>T"	""	""	"ENST00000340360"	""	94	"67"	27	63	"63"	0	"XRRA1,intron_variant,,ENST00000340360,NM_182969.2;XRRA1,intron_variant,,ENST00000321448,NM_001270381.1;XRRA1,intron_variant,,ENST00000527087,NM_001270380.1;XRRA1,intron_variant,,ENST00000528819,;XRRA1,intron_variant,,ENST00000531849,;XRRA1,intron_variant,,ENST00000530562,;XRRA1,intron_variant,,ENST00000531449,;XRRA1,intron_variant,,ENST00000529926,;XRRA1,upstream_gene_variant,,ENST00000431210,;"	"A"	"ENSG00000166435"	"ENST00000340360"	"Transcript"	"intron_variant"	"-/5681"	"-/2379"	"-/792"	""	""	""	"1"	NA	-1	"XRRA1"	"HGNC"	18868	"protein_coding"	"YES"	"CCDS44680.1"	"ENSP00000339918"	"Q6P2D8"	"E9PJ58"	"UPI0001572CC6"	"NM_182969.2"	""	""	""	"10/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"0f9adc4e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287234042553192	"WGS"	FALSE
"8524"	"MOGAT2"	80168	"mskcc.org"	"GRCh37"	"11"	75447560	75447560	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"rs568139892"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000198801"	""	76	"69"	7	31	"31"	0	"MOGAT2,downstream_gene_variant,,ENST00000526712,;MOGAT2,downstream_gene_variant,,ENST00000198801,NM_025098.2;"	"T"	"ENSG00000166391"	"ENST00000198801"	"Transcript"	"downstream_gene_variant"	"-/1404"	"-/1005"	"-/334"	""	""	"rs568139892"	"1"	"4900"	1	"MOGAT2"	"HGNC"	23248	"protein_coding"	"YES"	"CCDS8240.1"	"ENSP00000198801"	"Q3SYC2"	""	"UPI000000D839"	"NM_025098.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"0f9b043a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"8525"	"MYO7A"	4647	"mskcc.org"	"GRCh37"	"11"	76916235	76916235	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5481-272G>A"	""	""	"ENST00000409709"	""	109	"96"	13	63	"63"	0	"MYO7A,intron_variant,,ENST00000409709,NM_000260.3;MYO7A,intron_variant,,ENST00000458637,NM_001127180.1;MYO7A,intron_variant,,ENST00000409619,;MYO7A,intron_variant,,ENST00000458169,;MYO7A,intron_variant,,ENST00000605744,;MYO7A,intron_variant,,ENST00000481328,;"	"A"	"ENSG00000137474"	"ENST00000409709"	"Transcript"	"intron_variant"	"-/7462"	"-/6648"	"-/2215"	""	""	""	"1"	NA	1	"MYO7A"	"HGNC"	7606	"protein_coding"	"YES"	"CCDS53683.1"	"ENSP00000386331"	"Q13402"	""	"UPI00001FAFE6"	"NM_000260.3"	""	""	""	"39/48"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"0f9b4ef4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119266055045872	"WGS"	FALSE
"8526"	"DLG2"	1740	"mskcc.org"	"GRCh37"	"11"	83239271	83239271	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2193+4480C>T"	""	""	"ENST00000376104"	""	87	"77"	10	58	"58"	0	"DLG2,intron_variant,,ENST00000398309,NM_001364.3;DLG2,intron_variant,,ENST00000426717,NM_001142702.1;DLG2,intron_variant,,ENST00000376104,NM_001142699.1;DLG2,intron_variant,,ENST00000543673,;DLG2,intron_variant,,ENST00000280241,NM_001206769.1;DLG2,intron_variant,,ENST00000418306,NM_001142700.1;DLG2,intron_variant,,ENST00000531015,;DLG2,intron_variant,,ENST00000532653,;DLG2,intron_variant,,ENST00000524982,;DLG2,intron_variant,,ENST00000537455,;DLG2,intron_variant,,ENST00000330014,;DLG2,intron_variant,,ENST00000376106,;DLG2,intron_variant,,ENST00000404783,;DLG2,intron_variant,,ENST00000420775,;DLG2,intron_variant,,ENST00000398304,;DLG2,intron_variant,,ENST00000530800,;DLG2,intron_variant,,ENST00000524601,;DLG2,downstream_gene_variant,,ENST00000529399,;"	"A"	"ENSG00000150672"	"ENST00000376104"	"Transcript"	"intron_variant"	"-/5139"	"-/2928"	"-/975"	""	""	""	"1"	NA	-1	"DLG2"	"HGNC"	2901	"protein_coding"	"YES"	"CCDS44690.1"	"ENSP00000365272"	"Q15700"	"F8W750,E9PQT9"	"UPI0000E59399"	"NM_001142699.1"	""	""	""	"21/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"0f9c3724-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114942528735632	"WGS"	FALSE
"8527"	"DLG2"	1740	"mskcc.org"	"GRCh37"	"11"	83852085	83852085	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.624+22419A>T"	""	""	"ENST00000376104"	""	91	"70"	21	59	"59"	0	"DLG2,intron_variant,,ENST00000398309,NM_001364.3;DLG2,intron_variant,,ENST00000376104,NM_001142699.1;DLG2,intron_variant,,ENST00000543673,;DLG2,intron_variant,,ENST00000280241,NM_001206769.1;DLG2,intron_variant,,ENST00000418306,NM_001142700.1;DLG2,intron_variant,,ENST00000531015,;DLG2,intron_variant,,ENST00000532653,;DLG2,intron_variant,,ENST00000524982,;DLG2,intron_variant,,ENST00000537455,;DLG2,intron_variant,,ENST00000330014,;DLG2,intron_variant,,ENST00000376106,;DLG2,intron_variant,,ENST00000398301,;DLG2,intron_variant,,ENST00000398299,;DLG2,intron_variant,,ENST00000524941,;DLG2,intron_variant,,ENST00000527466,;DLG2,intron_variant,,ENST00000529111,;DLG2,intron_variant,,ENST00000529401,;"	"A"	"ENSG00000150672"	"ENST00000376104"	"Transcript"	"intron_variant"	"-/5139"	"-/2928"	"-/975"	""	""	""	"1"	NA	-1	"DLG2"	"HGNC"	2901	"protein_coding"	"YES"	"CCDS44690.1"	"ENSP00000365272"	"Q15700"	"F8W750,E9PQT9"	"UPI0000E59399"	"NM_001142699.1"	""	""	""	"9/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"0f9c4ed0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"8528"	"C11orf73"	51501	"mskcc.org"	"GRCh37"	"11"	86030493	86030493	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.268+12969T>C"	""	""	"ENST00000278483"	""	96	"86"	10	36	"36"	0	"C11orf73,intron_variant,,ENST00000533986,;C11orf73,intron_variant,,ENST00000278483,NM_016401.3;RN7SL225P,downstream_gene_variant,,ENST00000464648,;C11orf73,intron_variant,,ENST00000530208,;C11orf73,intron_variant,,ENST00000532270,;C11orf73,intron_variant,,ENST00000531485,;C11orf73,intron_variant,,ENST00000528004,;"	"C"	"ENSG00000149196"	"ENST00000278483"	"Transcript"	"intron_variant"	"-/1109"	"-/594"	"-/197"	""	""	""	"1"	NA	1	"C11orf73"	"HGNC"	26938	"protein_coding"	"YES"	"CCDS8275.1"	"ENSP00000278483"	"Q53FT3"	""	"UPI000006CF46"	"NM_016401.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"0f9ca83a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104166666666667	"WGS"	FALSE
"8529"	"ME3"	10873	"mskcc.org"	"GRCh37"	"11"	86234238	86234238	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.468-14329T>G"	""	""	"ENST00000543262"	""	115	"105"	10	62	"62"	0	"ME3,intron_variant,,ENST00000543262,NM_001161586.1;ME3,intron_variant,,ENST00000393324,NM_001014811.1;ME3,intron_variant,,ENST00000359636,NM_006680.2;ME3,intron_variant,,ENST00000524826,;ME3,intron_variant,,ENST00000323418,;RP11-317J19.1,intron_variant,,ENST00000524610,;ME3,intron_variant,,ENST00000526504,;ME3,intron_variant,,ENST00000530520,;"	"C"	"ENSG00000151376"	"ENST00000543262"	"Transcript"	"intron_variant"	"-/2311"	"-/1815"	"-/604"	""	""	""	"1"	NA	-1	"ME3"	"HGNC"	6985	"protein_coding"	"YES"	"CCDS8277.1"	"ENSP00000440246"	"Q16798"	"E9PQP5,E9PNN2,E9PMB9"	"UPI000013DC4F"	"NM_001161586.1"	""	""	""	"4/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"0f9cab96-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"8530"	"GRM5"	2915	"mskcc.org"	"GRCh37"	"11"	88549138	88549138	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"rs551434681"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.911+33936A>G"	""	""	"ENST00000418177"	""	94	"85"	9	58	"58"	0	"GRM5,intron_variant,,ENST00000418177,;GRM5,intron_variant,,ENST00000455756,NM_000842.3;GRM5,intron_variant,,ENST00000305447,NM_001143831.2;GRM5,intron_variant,,ENST00000305432,;GRM5,intron_variant,,ENST00000393297,;"	"C"	"ENSG00000168959"	"ENST00000418177"	"Transcript"	"intron_variant"	"-/8023"	"-/3639"	"-/1212"	""	""	"rs551434681"	"1"	NA	-1	"GRM5"	"HGNC"	4597	"protein_coding"	"YES"	"CCDS44694.1"	"ENSP00000402912"	"P41594"	""	"UPI000012F081"	""	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"0f9d1cc0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0957446808510638	"WGS"	FALSE
"8531"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	91225447	91225447	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"80"	21	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"0f9d9c4a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207920792079208	"WGS"	FALSE
"8532"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	91642951	91642951	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"80"	17	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"0f9da794-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175257731958763	"WGS"	FALSE
"8533"	"RP11-856F16.2"	0	"mskcc.org"	"GRCh37"	"11"	94657668	94657668	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.97+922C>G"	""	""	"ENST00000545958"	""	107	"83"	24	67	"67"	0	"RP11-856F16.2,intron_variant,,ENST00000545958,;"	"C"	"ENSG00000256469"	"ENST00000545958"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/593"	""	""	""	""	""	"1"	NA	-1	"RP11-856F16.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"0f9e0bd0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224299065420561	"WGS"	FALSE
"8534"	"MAML2"	84441	"mskcc.org"	"GRCh37"	"11"	95706639	95706639	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000524717"	""	93	"70"	23	62	"61"	1	"MAML2,downstream_gene_variant,,ENST00000524717,NM_032427.1;"	"C"	"ENSG00000184384"	"ENST00000524717"	"Transcript"	"downstream_gene_variant"	"-/7106"	"-/3471"	"-/1156"	""	""	""	"1"	"3123"	-1	"MAML2"	"HGNC"	16259	"protein_coding"	"YES"	"CCDS44714.1"	"ENSP00000434552"	"Q8IZL2"	""	"UPI00001B4EFC"	"NM_032427.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"0f9e3682-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247311827956989	"WGS"	TRUE
"8535"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	97970368	97970368	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"83"	6	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"0f9e7764-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"8536"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	98023104	98023104	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"69"	16	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"0f9e7958-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188235294117647	"WGS"	FALSE
"8537"	"ENSR00000567723"	0	"mskcc.org"	"GRCh37"	"11"	100274020	100274020	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000567723"	""	88	"71"	17	75	"75"	0	""	"T"	""	"ENSR00000567723"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"0f9ecade-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193181818181818	"WGS"	FALSE
"8538"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	100276515	100276515	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"85"	22	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"0f9ecb7e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205607476635514	"WGS"	FALSE
"8539"	"GUCY1A2"	2977	"mskcc.org"	"GRCh37"	"11"	106547446	106547446	"+"	"3'UTR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*10829C>A"	""	""	"ENST00000526355"	"8/8"	95	"77"	18	62	"62"	0	"GUCY1A2,3_prime_UTR_variant,,ENST00000526355,NM_000855.2;"	"T"	"ENSG00000152402"	"ENST00000526355"	"Transcript"	"3_prime_UTR_variant"	"13497/16205"	"-/2199"	"-/732"	""	""	""	"1"	NA	-1	"GUCY1A2"	"HGNC"	4684	"protein_coding"	""	"CCDS8335.1"	"ENSP00000431245"	"P33402"	""	"UPI0000128C17"	"NM_000855.2"	""	""	"8/8"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"0f9fb7dc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189473684210526	"WGS"	FALSE
"8540"	"CTD-2355J17.2"	0	"mskcc.org"	"GRCh37"	"11"	107452228	107452228	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000604056"	""	97	"73"	24	60	"60"	0	"CTD-2355J17.2,downstream_gene_variant,,ENST00000604056,;"	"C"	"ENSG00000270969"	"ENST00000604056"	"Transcript"	"downstream_gene_variant"	"-/1003"	""	""	""	""	""	"1"	"4399"	-1	"CTD-2355J17.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"0f9fd65e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247422680412371	"WGS"	FALSE
"8541"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	112698201	112698201	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"85"	6	49	"49"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"0fa0baba-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"8542"	"UPK2"	7379	"mskcc.org"	"GRCh37"	"11"	118808113	118808113	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.128+12113G>C"	""	""	"ENST00000534788"	""	101	"92"	9	52	"52"	0	"UPK2,intron_variant,,ENST00000534788,;"	"C"	"ENSG00000110375"	"ENST00000534788"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/958"	""	""	""	""	""	"1"	NA	1	"UPK2"	"HGNC"	12579	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"0fa2010e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0891089108910891	"WGS"	FALSE
"8543"	"FOXR1"	283150	"mskcc.org"	"GRCh37"	"11"	118850468	118850468	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.611+90G>C"	""	""	"ENST00000317011"	""	82	"63"	19	58	"58"	0	"FOXR1,intron_variant,,ENST00000317011,NM_181721.2;FOXR1,intron_variant,,ENST00000533282,;FOXR1,intron_variant,,ENST00000531539,;"	"C"	"ENSG00000176302"	"ENST00000317011"	"Transcript"	"intron_variant"	"-/1159"	"-/879"	"-/292"	""	""	""	"1"	NA	1	"FOXR1"	"HGNC"	29980	"protein_coding"	"YES"	"CCDS31688.1"	"ENSP00000314806"	"Q6PIV2"	""	"UPI0000192103"	"NM_181721.2"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"0fa2067c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231707317073171	"WGS"	FALSE
"8544"	"GRIK4"	2900	"mskcc.org"	"GRCh37"	"11"	120660405	120660405	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"rs548857720"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.83-12997G>T"	""	""	"ENST00000527524"	""	87	"73"	14	41	"41"	0	"GRIK4,intron_variant,,ENST00000527524,NM_001282470.1;GRIK4,intron_variant,,ENST00000438375,NM_014619.2;GRIK4,intron_variant,,ENST00000526536,;GRIK4,intron_variant,,ENST00000533291,;"	"T"	"ENSG00000149403"	"ENST00000527524"	"Transcript"	"intron_variant"	"-/5802"	"-/2871"	"-/956"	""	""	"rs548857720"	"1"	NA	1	"GRIK4"	"HGNC"	4582	"protein_coding"	"YES"	"CCDS8433.1"	"ENSP00000435648"	"Q16099"	""	"UPI000013DB8D"	"NM_001282470.1"	""	""	""	"3/20"	""	"T:0.0002"	"T:0"	"T:0.0014"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"0fa27dd2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.160919540229885	"WGS"	FALSE
"8545"	"GRIK4"	2900	"mskcc.org"	"GRCh37"	"11"	120745329	120745329	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1059+402T>C"	""	""	"ENST00000527524"	""	91	"72"	19	53	"53"	0	"GRIK4,intron_variant,,ENST00000527524,NM_001282470.1;GRIK4,intron_variant,,ENST00000438375,NM_014619.2;RP11-640N11.2,intron_variant,,ENST00000505153,;GRIK4,intron_variant,,ENST00000533291,;"	"C"	"ENSG00000149403"	"ENST00000527524"	"Transcript"	"intron_variant"	"-/5802"	"-/2871"	"-/956"	""	""	""	"1"	NA	1	"GRIK4"	"HGNC"	4582	"protein_coding"	"YES"	"CCDS8433.1"	"ENSP00000435648"	"Q16099"	""	"UPI000013DB8D"	"NM_001282470.1"	""	""	""	"10/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"0fa282aa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208791208791209	"WGS"	FALSE
"8546"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	120885833	120885833	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"48"	11	39	"39"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"0fa287dc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186440677966102	"WGS"	FALSE
"8547"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	124597737	124597737	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"76"	26	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"0fa34910-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254901960784314	"WGS"	FALSE
"8548"	"PATE2"	399967	"mskcc.org"	"GRCh37"	"11"	125650271	125650271	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"rs770024312"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000358524"	""	88	"75"	13	61	"61"	0	"PATE2,upstream_gene_variant,,ENST00000358524,NM_212555.2;PATE2,upstream_gene_variant,,ENST00000436890,;"	"T"	"ENSG00000196844"	"ENST00000358524"	"Transcript"	"upstream_gene_variant"	"-/1657"	"-/342"	"-/113"	""	""	"rs770024312"	"1"	"1557"	-1	"PATE2"	"HGNC"	32249	"protein_coding"	"YES"	"CCDS8465.1"	"ENSP00000351325"	"Q6UY27"	""	"UPI0000198EDC"	"NM_212555.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"0fa37e4e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147727272727273	"WGS"	FALSE
"8549"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	128045274	128045274	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"72"	28	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"0fa40260-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"8550"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	129203589	129203589	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"57"	27	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"0fa433fc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.321428571428571	"WGS"	FALSE
"8551"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	129221630	129221630	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"74"	23	40	"40"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"0fa435e6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.237113402061856	"WGS"	FALSE
"8552"	"NTM"	50863	"mskcc.org"	"GRCh37"	"11"	131552381	131552381	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.83-229077G>A"	""	""	"ENST00000374791"	""	79	"70"	9	50	"50"	0	"NTM,intron_variant,,ENST00000374791,NM_001048209.1;NTM,intron_variant,,ENST00000539799,;NTM,intron_variant,,ENST00000427481,;NTM,intron_variant,,ENST00000550167,;NTM,intron_variant,,ENST00000436745,;"	"A"	"ENSG00000182667"	"ENST00000374791"	"Transcript"	"intron_variant"	"-/3040"	"-/1035"	"-/344"	""	""	""	"1"	NA	1	"NTM"	"HGNC"	17941	"protein_coding"	""	"CCDS41733.1"	"ENSP00000363923"	"Q9P121"	""	"UPI0000047814"	"NM_001048209.1"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"0fa4c09c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113924050632911	"WGS"	FALSE
"8553"	"NTM"	50863	"mskcc.org"	"GRCh37"	"11"	131982063	131982063	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.168-34113G>T"	""	""	"ENST00000425719"	""	94	"72"	22	48	"48"	0	"NTM,intron_variant,,ENST00000374786,NM_001144058.1,NM_016522.2;NTM,intron_variant,,ENST00000374791,NM_001048209.1;NTM,intron_variant,,ENST00000425719,;NTM,intron_variant,,ENST00000374784,NM_001144059.1;NTM,intron_variant,,ENST00000539799,;NTM,intron_variant,,ENST00000427481,;NTM,intron_variant,,ENST00000550167,;NTM,intron_variant,,ENST00000498764,;NTM,intron_variant,,ENST00000479431,;"	"T"	"ENSG00000182667"	"ENST00000425719"	"Transcript"	"intron_variant"	"-/1607"	"-/1068"	"-/355"	""	""	""	"1"	NA	1	"NTM"	"HGNC"	17941	"protein_coding"	"YES"	"CCDS44777.1"	"ENSP00000396722"	"Q9P121"	""	"UPI00001A58B9"	""	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"0fa4e7d4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234042553191489	"WGS"	FALSE
"8554"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	134657571	134657571	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"86"	19	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"0fa5e5d0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180952380952381	"WGS"	FALSE
"8555"	"B4GALNT3"	283358	"mskcc.org"	"GRCh37"	"12"	663922	663922	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"rs76330720"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2060+773C>G"	""	""	"ENST00000266383"	""	33	"28"	5	24	"24"	0	"B4GALNT3,intron_variant,,ENST00000266383,NM_173593.3;B4GALNT3,intron_variant,,ENST00000322843,;B4GALNT3,intron_variant,,ENST00000535402,;"	"G"	"ENSG00000139044"	"ENST00000266383"	"Transcript"	"intron_variant"	"-/5068"	"-/2997"	"-/998"	""	""	"rs76330720"	"1"	NA	1	"B4GALNT3"	"HGNC"	24137	"protein_coding"	"YES"	"CCDS8504.1"	"ENSP00000266383"	"Q6L9W6"	""	"UPI0000366851"	"NM_173593.3"	""	""	""	"14/19"	""	"G:0.0032"	"G:0.0098"	"G:0"	NA	"G:0"	"G:0"	"G:0.0031"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"0fa6da1c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151515151515152	"WGS"	FALSE
"8556"	"MLF2"	8079	"mskcc.org"	"GRCh37"	"12"	6862431	6862431	"+"	"5'UTR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-355G>T"	""	""	"ENST00000203630"	"1/9"	77	"63"	14	66	"66"	0	"MLF2,5_prime_UTR_variant,,ENST00000203630,;MLF2,intron_variant,,ENST00000539187,;MLF2,upstream_gene_variant,,ENST00000435120,NM_005439.2;MLF2,upstream_gene_variant,,ENST00000537126,;MLF2,upstream_gene_variant,,ENST00000542154,;MLF2,upstream_gene_variant,,ENST00000536207,;MLF2,upstream_gene_variant,,ENST00000540710,;MLF2,upstream_gene_variant,,ENST00000564181,;MLF2,upstream_gene_variant,,ENST00000541346,;MLF2,upstream_gene_variant,,ENST00000536249,;MLF2,upstream_gene_variant,,ENST00000541305,;"	"A"	"ENSG00000089693"	"ENST00000203630"	"Transcript"	"5_prime_UTR_variant"	"291/1958"	"-/747"	"-/248"	""	""	""	"1"	NA	-1	"MLF2"	"HGNC"	7126	"protein_coding"	"YES"	"CCDS8559.1"	"ENSP00000203630"	"Q15773"	"Q5U0N1,F5H800,F5H7L5"	"UPI000012F1FA"	""	""	""	"1/9"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"0fa8af54-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"8557"	"C1S"	716	"mskcc.org"	"GRCh37"	"12"	7108202	7108202	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs74202416"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-400+2768C>T"	""	""	"ENST00000406697"	""	34	"29"	5	16	"16"	0	"C1S,intron_variant,,ENST00000406697,;LPCAT3,intron_variant,,ENST00000261407,NM_005768.5;LPCAT3,intron_variant,,ENST00000536971,;EMG1,downstream_gene_variant,,ENST00000564245,;LPCAT3,intron_variant,,ENST00000535479,;LPCAT3,intron_variant,,ENST00000536797,;LPCAT3,intron_variant,,ENST00000543794,;LPCAT3,intron_variant,,ENST00000540090,;LPCAT3,intron_variant,,ENST00000538910,;"	"T"	"ENSG00000182326"	"ENST00000406697"	"Transcript"	"intron_variant"	"-/3076"	"-/2067"	"-/688"	""	""	"rs74202416"	"1"	NA	1	"C1S"	"HGNC"	1247	"protein_coding"	"YES"	"CCDS31735.1"	"ENSP00000385035"	"P09871"	"F8WCZ6,F5H7T4,C9JY52,C9IZP8,B5MCV4"	"UPI0000126BF6"	""	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"0fa8d222-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"8558"	"RIMKLB"	57494	"mskcc.org"	"GRCh37"	"12"	8883891	8883891	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs182686189"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.175+17254G>A"	""	""	"ENST00000357529"	""	77	"67"	10	45	"45"	0	"RIMKLB,intron_variant,,ENST00000357529,NM_020734.2;RIMKLB,intron_variant,,ENST00000538135,;RIMKLB,intron_variant,,ENST00000535829,;RIMKLB,intron_variant,,ENST00000537189,;RIMKLB,intron_variant,,ENST00000541044,;RIMKLB,intron_variant,,ENST00000539923,;RIMKLB,intron_variant,,ENST00000299673,;RIMKLB,intron_variant,,ENST00000544257,;"	"A"	"ENSG00000166532"	"ENST00000357529"	"Transcript"	"intron_variant"	"-/5830"	"-/1161"	"-/386"	""	""	"rs182686189"	"1"	NA	1	"RIMKLB"	"HGNC"	29228	"protein_coding"	"YES"	"CCDS41748.1"	"ENSP00000350136"	"Q9ULI2"	"F5H3V4,F5GZH5"	"UPI000013E5D1"	"NM_020734.2"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"0fa97560-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12987012987013	"WGS"	FALSE
"8559"	"A2ML1-AS1"	0	"mskcc.org"	"GRCh37"	"12"	8954221	8954221	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.287-25241T>A"	""	""	"ENST00000537288"	""	80	"74"	6	39	"39"	0	"A2ML1-AS1,intron_variant,,ENST00000537288,;"	"T"	"ENSG00000256661"	"ENST00000537288"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/452"	""	""	""	""	""	"1"	NA	-1	"A2ML1-AS1"	"HGNC"	41022	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"0fa97bc8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"8560"	"RP11-599J14.2"	0	"mskcc.org"	"GRCh37"	"12"	9558475	9558475	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.50-3323G>T"	""	""	"ENST00000540982"	""	16	"13"	3	22	"22"	0	"RP11-599J14.2,intron_variant,,ENST00000540982,;"	"A"	"ENSG00000256673"	"ENST00000540982"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/400"	""	""	""	""	""	"1"	NA	-1	"RP11-599J14.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"0fa9a918-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"8561"	"KLRK1"	22914	"mskcc.org"	"GRCh37"	"12"	10546781	10546781	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000240618"	""	99	"78"	21	57	"57"	0	"KLRK1,upstream_gene_variant,,ENST00000240618,NM_007360.3,NM_001199805.1;RP11-277P12.20,intron_variant,,ENST00000500682,;KLRC4-KLRK1,intron_variant,,ENST00000543572,;KLRC4-KLRK1,intron_variant,,ENST00000539300,;KLRC4-KLRK1,intron_variant,,ENST00000543812,;KLRC4-KLRK1,intron_variant,,ENST00000586581,;KLRC4-KLRK1,intron_variant,,ENST00000539370,;KLRC4-KLRK1,intron_variant,,ENST00000590323,;KLRC4-KLRK1,intron_variant,,ENST00000590131,;KLRC4-KLRK1,intron_variant,,ENST00000588447,;KLRC4-KLRK1,intron_variant,,ENST00000588263,;KLRC4-KLRK1,intron_variant,,ENST00000585711,;KLRC4-KLRK1,intron_variant,,ENST00000591546,;KLRC4-KLRK1,intron_variant,,ENST00000585507,;KLRC4-KLRK1,intron_variant,,ENST00000591937,;KLRK1,upstream_gene_variant,,ENST00000544449,;KLRK1,upstream_gene_variant,,ENST00000396451,;"	"T"	"ENSG00000213809"	"ENST00000240618"	"Transcript"	"upstream_gene_variant"	"-/1553"	"-/651"	"-/216"	""	""	""	"1"	"4164"	-1	"KLRK1"	"HGNC"	18788	"protein_coding"	"YES"	"CCDS8623.1"	"ENSP00000240618"	"P26718"	"Q8WZ67"	"UPI000013CAB1"	"NM_007360.3,NM_001199805.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"0fa9e2d4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212121212121212	"WGS"	FALSE
"8562"	"RP11-711K1.7"	0	"mskcc.org"	"GRCh37"	"12"	11599633	11599633	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.215-11541C>A"	""	""	"ENST00000542062"	""	63	"52"	11	54	"54"	0	"RP11-711K1.7,intron_variant,,ENST00000542062,;RP11-711K1.7,intron_variant,,ENST00000538349,;RP11-711K1.7,intron_variant,,ENST00000540635,;PRB2,intron_variant,,ENST00000545829,;"	"T"	"ENSG00000255790"	"ENST00000542062"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/562"	""	""	""	""	""	"1"	NA	-1	"RP11-711K1.7"	"Clone_based_vega_gene"	NA	"sense_intronic"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"0faa0886-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174603174603175	"WGS"	FALSE
"8563"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	11767300	11767300	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"74"	12	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"0faa0f0c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"8564"	"SLC15A5"	729025	"mskcc.org"	"GRCh37"	"12"	16380939	16380939	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1163-3403C>T"	""	""	"ENST00000344941"	""	90	"70"	20	55	"55"	0	"SLC15A5,intron_variant,,ENST00000344941,NM_001170798.1;"	"A"	"ENSG00000188991"	"ENST00000344941"	"Transcript"	"intron_variant"	"-/2923"	"-/1740"	"-/579"	""	""	""	"1"	NA	-1	"SLC15A5"	"HGNC"	33455	"protein_coding"	"YES"	""	"ENSP00000340402"	"A6NIM6"	""	"UPI0000DD8132"	"NM_001170798.1"	""	""	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"0fab1884-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"8565"	"RP11-405A12.2"	0	"mskcc.org"	"GRCh37"	"12"	20064435	20064435	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.154-11697C>T"	""	""	"ENST00000535764"	""	63	"56"	7	46	"46"	0	"RP11-405A12.2,intron_variant,,ENST00000535764,;"	"T"	"ENSG00000255910"	"ENST00000535764"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/718"	""	""	""	""	""	"1"	NA	1	"RP11-405A12.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"0fabe462-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"8566"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	22738712	22738712	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"61"	22	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"0fac5b0e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265060240963855	"WGS"	FALSE
"8567"	"RP11-114G22.1"	0	"mskcc.org"	"GRCh37"	"12"	22914636	22914636	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.155-25858A>T"	""	""	"ENST00000536744"	""	94	"77"	17	55	"55"	0	"RP11-114G22.1,intron_variant,,ENST00000536744,;RP11-114G22.1,intron_variant,,ENST00000413794,;"	"T"	"ENSG00000256995"	"ENST00000536744"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/647"	""	""	""	""	""	"1"	NA	1	"RP11-114G22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"0fac6252-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180851063829787	"WGS"	FALSE
"8568"	"SOX5"	6660	"mskcc.org"	"GRCh37"	"12"	23943388	23943388	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.482-34730C>G"	""	""	"ENST00000451604"	""	82	"69"	13	63	"63"	0	"SOX5,intron_variant,,ENST00000546136,;SOX5,intron_variant,,ENST00000309359,NM_006940.4,NM_152989.3;SOX5,intron_variant,,ENST00000451604,;SOX5,intron_variant,,ENST00000381381,NM_001261414.1;SOX5,intron_variant,,ENST00000537393,;SOX5,intron_variant,,ENST00000545921,NM_001261415.1;SOX5,intron_variant,,ENST00000541536,;SOX5,intron_variant,,ENST00000541847,;SOX5,intron_variant,,ENST00000441133,;SOX5,intron_variant,,ENST00000367206,;"	"C"	"ENSG00000134532"	"ENST00000451604"	"Transcript"	"intron_variant"	"-/4261"	"-/2292"	"-/763"	""	""	""	"1"	NA	-1	"SOX5"	"HGNC"	11201	"protein_coding"	"YES"	"CCDS8699.1"	"ENSP00000398273"	"P35711"	"T2CYZ2,F5GWL1"	"UPI000007405E"	""	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"0fac9128-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.158536585365854	"WGS"	FALSE
"8569"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	25465732	25465732	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"61"	21	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"0facc328-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25609756097561	"WGS"	FALSE
"8570"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	32928216	32928216	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"82"	28	72	"72"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"0fae5c92-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254545454545455	"WGS"	FALSE
"8571"	"CPNE8"	144402	"mskcc.org"	"GRCh37"	"12"	39082260	39082260	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1144-2841T>G"	""	""	"ENST00000331366"	""	106	"79"	27	65	"65"	0	"CPNE8,intron_variant,,ENST00000331366,NM_153634.2;CPNE8,intron_variant,,ENST00000538596,;CPNE8,intron_variant,,ENST00000360449,;CPNE8,upstream_gene_variant,,ENST00000549842,;"	"C"	"ENSG00000139117"	"ENST00000331366"	"Transcript"	"intron_variant"	"-/3489"	"-/1695"	"-/564"	""	""	""	"1"	NA	-1	"CPNE8"	"HGNC"	23498	"protein_coding"	"YES"	"CCDS8733.1"	"ENSP00000329748"	"Q86YQ8"	"Q86VY2"	"UPI000015FF59"	"NM_153634.2"	""	""	""	"15/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"0faf9562-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254716981132075	"WGS"	FALSE
"8572"	"CPNE8"	144402	"mskcc.org"	"GRCh37"	"12"	39105690	39105690	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.915-8967A>T"	""	""	"ENST00000331366"	""	104	"84"	20	58	"58"	0	"CPNE8,intron_variant,,ENST00000331366,NM_153634.2;CPNE8,intron_variant,,ENST00000538596,;CPNE8,intron_variant,,ENST00000360449,;"	"A"	"ENSG00000139117"	"ENST00000331366"	"Transcript"	"intron_variant"	"-/3489"	"-/1695"	"-/564"	""	""	""	"1"	NA	-1	"CPNE8"	"HGNC"	23498	"protein_coding"	"YES"	"CCDS8733.1"	"ENSP00000329748"	"Q86YQ8"	"Q86VY2"	"UPI000015FF59"	"NM_153634.2"	""	""	""	"13/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"0faf960c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WGS"	FALSE
"8573"	"RP11-242C24.2"	0	"mskcc.org"	"GRCh37"	"12"	39859105	39859105	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000396414"	""	87	"64"	23	51	"51"	0	"RP11-242C24.2,downstream_gene_variant,,ENST00000396414,;"	"T"	"ENSG00000255991"	"ENST00000396414"	"Transcript"	"downstream_gene_variant"	"-/802"	""	""	""	""	""	"1"	"1139"	-1	"RP11-242C24.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"0fafb164-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264367816091954	"WGS"	FALSE
"8574"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	47380444	47380444	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"65"	17	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"0fb102da-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207317073170732	"WGS"	FALSE
"8575"	"ASB8"	140461	"mskcc.org"	"GRCh37"	"12"	48548593	48548593	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-33-1281C>T"	""	""	"ENST00000317697"	""	89	"65"	24	58	"58"	0	"ASB8,intron_variant,,ENST00000317697,NM_024095.3;ASB8,intron_variant,,ENST00000536549,;ASB8,intron_variant,,ENST00000536953,;ASB8,intron_variant,,ENST00000539528,;ASB8,intron_variant,,ENST00000539503,;ASB8,intron_variant,,ENST00000535988,;ASB8,intron_variant,,ENST00000540782,;ASB8,intron_variant,,ENST00000535055,;ASB8,intron_variant,,ENST00000545791,;ASB8,intron_variant,,ENST00000536071,;ASB8,intron_variant,,ENST00000540212,;ASB8,upstream_gene_variant,,ENST00000548228,;ASB8,intron_variant,,ENST00000537754,;ASB8,intron_variant,,ENST00000539464,;ASB8,intron_variant,,ENST00000540143,;ASB8,intron_variant,,ENST00000539865,;ASB8,upstream_gene_variant,,ENST00000536938,;"	"A"	"ENSG00000177981"	"ENST00000317697"	"Transcript"	"intron_variant"	"-/2615"	"-/867"	"-/288"	""	""	""	"1"	NA	-1	"ASB8"	"HGNC"	17183	"protein_coding"	"YES"	"CCDS8761.1"	"ENSP00000320893"	"Q9H765"	"F8VS92,F5H7B4,F5H6A7,F5GZZ3"	"UPI00001260EB"	"NM_024095.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"0fb1394e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269662921348315	"WGS"	FALSE
"8576"	"RP11-1100L3.4"	0	"mskcc.org"	"GRCh37"	"12"	52292059	52292059	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000552112"	""	88	"73"	15	53	"53"	0	"RP11-1100L3.4,upstream_gene_variant,,ENST00000552112,;"	"G"	"ENSG00000258021"	"ENST00000552112"	"Transcript"	"upstream_gene_variant"	"-/772"	""	""	""	""	""	"1"	"2290"	1	"RP11-1100L3.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"0fb2b21a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170454545454545	"WGS"	FALSE
"8577"	"TENC1"	23371	"mskcc.org"	"GRCh37"	"12"	53446162	53446162	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.215-77G>T"	""	""	"ENST00000314276"	""	108	"85"	23	51	"51"	0	"TENC1,intron_variant,,ENST00000314250,NM_170754.2;TENC1,intron_variant,,ENST00000451358,;TENC1,intron_variant,,ENST00000314276,NM_015319.2;TENC1,intron_variant,,ENST00000379902,NM_198316.1;TENC1,intron_variant,,ENST00000552570,;TENC1,intron_variant,,ENST00000549700,;TENC1,intron_variant,,ENST00000546602,;RP11-983P16.4,intron_variant,,ENST00000546793,;RP11-983P16.4,intron_variant,,ENST00000550601,;RP11-983P16.4,downstream_gene_variant,,ENST00000551890,;TENC1,intron_variant,,ENST00000549311,;TENC1,intron_variant,,ENST00000549498,;TENC1,intron_variant,,ENST00000552403,;TENC1,upstream_gene_variant,,ENST00000551693,;TENC1,downstream_gene_variant,,ENST00000551302,;"	"T"	"ENSG00000111077"	"ENST00000314276"	"Transcript"	"intron_variant"	"-/4944"	"-/4260"	"-/1419"	""	""	""	"1"	NA	1	"TENC1"	"HGNC"	19737	"protein_coding"	"YES"	"CCDS8842.1"	"ENSP00000319756"	"Q63HR2"	""	"UPI000013F790"	"NM_015319.2"	""	""	""	"2/28"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"0fb30576-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212962962962963	"WGS"	FALSE
"8578"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	53751554	53751554	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"63"	9	38	"38"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"0fb32344-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"8579"	"PA2G4"	5036	"mskcc.org"	"GRCh37"	"12"	56505511	56505511	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1119+198T>G"	""	""	"ENST00000303305"	""	94	"79"	15	31	"31"	0	"PA2G4,intron_variant,,ENST00000303305,NM_006191.2;PA2G4,intron_variant,,ENST00000552766,;RPL41,upstream_gene_variant,,ENST00000546591,NM_001035267.1;PA2G4,downstream_gene_variant,,ENST00000551061,;PA2G4,downstream_gene_variant,,ENST00000553057,;RP11-603J24.9,downstream_gene_variant,,ENST00000548861,;RPL41,upstream_gene_variant,,ENST00000501597,NM_021104.1;RP11-603J24.17,intron_variant,,ENST00000548595,;RPL41,upstream_gene_variant,,ENST00000358888,;RPL41,upstream_gene_variant,,ENST00000546485,;PA2G4,downstream_gene_variant,,ENST00000552266,;PA2G4,downstream_gene_variant,,ENST00000550166,;PA2G4,downstream_gene_variant,,ENST00000552528,;"	"G"	"ENSG00000170515"	"ENST00000303305"	"Transcript"	"intron_variant"	"-/2577"	"-/1185"	"-/394"	""	""	""	"1"	NA	1	"PA2G4"	"HGNC"	8550	"protein_coding"	"YES"	"CCDS8902.1"	"ENSP00000302886"	"Q9UQ80"	"Q6PIN5,F8VZ69,A8K6Y1"	"UPI0000049B6B"	"NM_006191.2"	""	""	""	"12/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"0fb3e9f0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.159574468085106	"WGS"	FALSE
"8580"	"ANKRD52"	283373	"mskcc.org"	"GRCh37"	"12"	56653728	56653728	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000267116"	""	35	"29"	6	15	"15"	0	"ANKRD52,upstream_gene_variant,,ENST00000267116,NM_173595.3;ANKRD52,upstream_gene_variant,,ENST00000551023,;ANKRD52,upstream_gene_variant,,ENST00000548081,;"	"C"	"ENSG00000139645"	"ENST00000267116"	"Transcript"	"upstream_gene_variant"	"-/8688"	"-/3231"	"-/1076"	""	""	""	"1"	"1553"	-1	"ANKRD52"	"HGNC"	26614	"protein_coding"	"YES"	"CCDS44920.1"	"ENSP00000267116"	"Q8NB46"	""	"UPI0000237861"	"NM_173595.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"0fb3f6fc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171428571428571	"WGS"	FALSE
"8581"	"TIMELESS"	8914	"mskcc.org"	"GRCh37"	"12"	56835403	56835403	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-61-7388G>A"	""	""	"ENST00000553532"	""	95	"87"	8	57	"57"	0	"TIMELESS,intron_variant,,ENST00000229201,NM_003920.3;TIMELESS,intron_variant,,ENST00000553532,;TIMELESS,intron_variant,,ENST00000554616,;"	"T"	"ENSG00000111602"	"ENST00000553532"	"Transcript"	"intron_variant"	"-/4371"	"-/3627"	"-/1208"	""	""	""	"1"	NA	-1	"TIMELESS"	"HGNC"	11813	"protein_coding"	"YES"	"CCDS8918.1"	"ENSP00000450607"	"Q9UNS1"	""	"UPI000013C8EA"	""	""	""	""	"1/28"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"0fb40de0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0842105263157895	"WGS"	FALSE
"8582"	"GLS2"	27165	"mskcc.org"	"GRCh37"	"12"	56870417	56870417	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.838-656C>T"	""	""	"ENST00000311966"	""	81	"75"	6	48	"48"	0	"GLS2,intron_variant,,ENST00000311966,NM_001280797.1,NM_013267.3,NM_001280798.1,NM_001280796.1;GLS2,intron_variant,,ENST00000461077,;GLS2,downstream_gene_variant,,ENST00000539272,;GLS2,intron_variant,,ENST00000476991,;GLS2,intron_variant,,ENST00000486433,;GLS2,intron_variant,,ENST00000424141,;GLS2,intron_variant,,ENST00000479952,;GLS2,intron_variant,,ENST00000486896,;GLS2,intron_variant,,ENST00000494345,;GLS2,intron_variant,,ENST00000494474,;GLS2,intron_variant,,ENST00000496006,;GLS2,upstream_gene_variant,,ENST00000390288,;GLS2,downstream_gene_variant,,ENST00000471282,;GLS2,downstream_gene_variant,,ENST00000483347,;GLS2,downstream_gene_variant,,ENST00000491880,;"	"A"	"ENSG00000135423"	"ENST00000311966"	"Transcript"	"intron_variant"	"-/2623"	"-/1809"	"-/602"	""	""	""	"1"	NA	-1	"GLS2"	"HGNC"	29570	"protein_coding"	"YES"	"CCDS8921.1"	"ENSP00000310447"	"Q9UI32"	"Q0VD99"	"UPI0000061E10"	"NM_001280797.1,NM_013267.3,NM_001280798.1,NM_001280796.1"	""	""	""	"7/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"0fb416b4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"8583"	"SNORA48"	0	"mskcc.org"	"GRCh37"	"12"	57258993	57258993	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"rs553909386"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000391081"	""	99	"94"	5	61	"61"	0	"SNORA48,downstream_gene_variant,,ENST00000391081,;RP11-74M13.4,intron_variant,,ENST00000557452,;"	"A"	"ENSG00000212383"	"ENST00000391081"	"Transcript"	"downstream_gene_variant"	"-/134"	""	""	""	""	"rs553909386"	"1"	"3701"	1	"SNORA48"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"0fb45b56-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0505050505050505	"WGS"	FALSE
"8584"	"R3HDM2"	22864	"mskcc.org"	"GRCh37"	"12"	57724230	57724230	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-35-19984C>G"	""	""	"ENST00000347140"	""	83	"77"	6	51	"51"	0	"R3HDM2,intron_variant,,ENST00000402412,;R3HDM2,intron_variant,,ENST00000347140,;R3HDM2,intron_variant,,ENST00000403821,;R3HDM2,intron_variant,,ENST00000448732,;"	"C"	"ENSG00000179912"	"ENST00000347140"	"Transcript"	"intron_variant"	"-/4331"	"-/2931"	"-/976"	""	""	""	"1"	NA	-1	"R3HDM2"	"HGNC"	29167	"protein_coding"	"YES"	"CCDS8937.2"	"ENSP00000317903"	"Q9Y2K5"	"C9J7N6"	"UPI00005A60D3"	""	""	""	""	"2/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"0fb47ce4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"8585"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	59722115	59722115	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"62"	21	67	"67"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"0fb4e102-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253012048192771	"WGS"	FALSE
"8586"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	59827711	59827711	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"92"	8	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"0fb4e1ac-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"8587"	"SLC16A7"	9194	"mskcc.org"	"GRCh37"	"12"	60078015	60078015	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10-20558G>A"	""	""	"ENST00000552432"	""	90	"65"	25	61	"61"	0	"SLC16A7,intron_variant,,ENST00000552432,NM_001270623.1,NM_001270622.1;SLC16A7,intron_variant,,ENST00000547379,;SLC16A7,intron_variant,,ENST00000552024,;SLC16A7,intron_variant,,ENST00000548610,;SLC16A7,intron_variant,,ENST00000549465,;"	"A"	"ENSG00000118596"	"ENST00000552432"	"Transcript"	"intron_variant"	"-/2250"	"-/1437"	"-/478"	""	""	""	"1"	NA	1	"SLC16A7"	"HGNC"	10928	"protein_coding"	""	"CCDS8961.1"	"ENSP00000449547"	"O60669"	"F8W0N3,F8VS95,F5H843"	"UPI00000722FD"	"NM_001270623.1,NM_001270622.1"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"0fb4f048-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"8588"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	61956566	61956566	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"85"	10	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"0fb52748-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"8589"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	67215341	67215341	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"72"	16	45	"45"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"0fb606cc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"8590"	"TRHDE"	29953	"mskcc.org"	"GRCh37"	"12"	72960122	72960122	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1908-2226T>A"	""	""	"ENST00000261180"	""	97	"81"	16	53	"53"	0	"TRHDE,intron_variant,,ENST00000261180,NM_013381.2;TRHDE,downstream_gene_variant,,ENST00000547300,;TRHDE,intron_variant,,ENST00000549138,;TRHDE,intron_variant,,ENST00000549401,;TRHDE,upstream_gene_variant,,ENST00000549922,;"	"A"	"ENSG00000072657"	"ENST00000261180"	"Transcript"	"intron_variant"	"-/5618"	"-/3075"	"-/1024"	""	""	""	"1"	NA	1	"TRHDE"	"HGNC"	30748	"protein_coding"	"YES"	"CCDS9004.1"	"ENSP00000261180"	"Q9UKU6"	""	"UPI0000136D52"	"NM_013381.2"	""	""	""	"9/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"0fb710c6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164948453608247	"WGS"	FALSE
"8591"	"TRHDE"	29953	"mskcc.org"	"GRCh37"	"12"	73000133	73000133	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2187-12538G>A"	""	""	"ENST00000261180"	""	102	"74"	28	61	"61"	0	"TRHDE,intron_variant,,ENST00000261180,NM_013381.2;TRHDE,intron_variant,,ENST00000549138,;TRHDE,intron_variant,,ENST00000549922,;CHCHD3P2,upstream_gene_variant,,ENST00000550751,;"	"A"	"ENSG00000072657"	"ENST00000261180"	"Transcript"	"intron_variant"	"-/5618"	"-/3075"	"-/1024"	""	""	""	"1"	NA	1	"TRHDE"	"HGNC"	30748	"protein_coding"	"YES"	"CCDS9004.1"	"ENSP00000261180"	"Q9UKU6"	""	"UPI0000136D52"	"NM_013381.2"	""	""	""	"12/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"0fb712ba-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274509803921569	"WGS"	FALSE
"8592"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	74349881	74349881	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"72"	14	66	"66"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"0fb74aaa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162790697674419	"WGS"	FALSE
"8593"	"PHLDA1"	22822	"mskcc.org"	"GRCh37"	"12"	76431659	76431659	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"rs373238497"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000266671"	""	111	"85"	26	52	"52"	0	"PHLDA1,upstream_gene_variant,,ENST00000266671,;RP11-290L1.2,downstream_gene_variant,,ENST00000547721,;"	"C"	"ENSG00000139289"	"ENST00000266671"	"Transcript"	"upstream_gene_variant"	"-/8069"	"-/1206"	"-/401"	""	""	"rs373238497"	"1"	"3947"	-1	"PHLDA1"	"HGNC"	8933	"protein_coding"	"YES"	"CCDS31861.1"	"ENSP00000266671"	"Q8WV24"	"R4GND3,A2BDE7"	"UPI000013D704"	""	""	""	""	""	""	"C:0.0012"	"C:0"	"C:0"	NA	"C:0.005"	"C:0"	"C:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"0fb7b5ee-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234234234234234	"WGS"	FALSE
"8594"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	77328790	77328790	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"78"	27	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"0fb7d9de-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257142857142857	"WGS"	FALSE
"8595"	"NAV3"	89795	"mskcc.org"	"GRCh37"	"12"	78347315	78347315	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.414+12402C>T"	""	""	"ENST00000536525"	""	94	"75"	19	61	"61"	0	"NAV3,intron_variant,,ENST00000397909,NM_001024383.1;NAV3,intron_variant,,ENST00000228327,;NAV3,intron_variant,,ENST00000266692,;NAV3,intron_variant,,ENST00000536525,NM_014903.4;NAV3,intron_variant,,ENST00000549464,;NAV3,downstream_gene_variant,,ENST00000549369,;"	"T"	"ENSG00000067798"	"ENST00000536525"	"Transcript"	"intron_variant"	"-/7386"	"-/7092"	"-/2363"	""	""	""	"1"	NA	1	"NAV3"	"HGNC"	15998	"protein_coding"	"YES"	"CCDS41815.1"	"ENSP00000446132"	"Q8IVL0"	"F8VZV4"	"UPI00001FB1E8"	"NM_014903.4"	""	""	""	"3/38"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"0fb80044-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202127659574468	"WGS"	FALSE
"8596"	"RP11-38F22.1"	100507498	"mskcc.org"	"GRCh37"	"12"	78740220	78740220	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.567+12740G>T"	""	""	"ENST00000548512"	""	95	"87"	8	76	"76"	0	"RP11-38F22.1,intron_variant,,ENST00000548512,;"	"A"	"ENSG00000258220"	"ENST00000548512"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1264"	""	""	""	""	""	"1"	NA	-1	"RP11-38F22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"0fb80d32-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0842105263157895	"WGS"	FALSE
"8597"	"SYT1"	6857	"mskcc.org"	"GRCh37"	"12"	79558098	79558098	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17-53185T>G"	""	""	"ENST00000261205"	""	95	"70"	25	45	"45"	0	"SYT1,intron_variant,,ENST00000261205,NM_005639.2;SYT1,intron_variant,,ENST00000457153,;SYT1,intron_variant,,ENST00000393240,NM_001135805.1;SYT1,intron_variant,,ENST00000552744,NM_001135806.1;SYT1,intron_variant,,ENST00000446242,;SYT1,intron_variant,,ENST00000552624,;SYT1,intron_variant,,ENST00000549671,;SYT1,intron_variant,,ENST00000552074,;SYT1,intron_variant,,ENST00000551304,;SYT1,intron_variant,,ENST00000547046,;SYT1,intron_variant,,ENST00000549454,;"	"G"	"ENSG00000067715"	"ENST00000261205"	"Transcript"	"intron_variant"	"-/4808"	"-/1269"	"-/422"	""	""	""	"1"	NA	1	"SYT1"	"HGNC"	11509	"protein_coding"	"YES"	"CCDS9017.1"	"ENSP00000261205"	"P21579"	"F8W1U9,F8VZY3,F8VYH8,F8VP93,C9JX50"	"UPI000013669A"	"NM_005639.2"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"0fb82ae2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"8598"	"PTPRQ"	0	"mskcc.org"	"GRCh37"	"12"	81060841	81060841	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6181-1945T>C"	""	""	"ENST00000266688"	""	84	"75"	9	55	"55"	0	"PTPRQ,intron_variant,,ENST00000266688,;"	"C"	"ENSG00000139304"	"ENST00000266688"	"Transcript"	"intron_variant"	"-/6888"	"-/6888"	"-/2295"	""	""	""	"1"	NA	1	"PTPRQ"	"HGNC"	9679	"protein_coding"	"YES"	""	"ENSP00000266688"	"Q9UMZ3"	""	"UPI00020655BB"	""	""	""	""	"44/49"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"0fb86ed0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"8599"	"TSPAN19"	144448	"mskcc.org"	"GRCh37"	"12"	85419026	85419026	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.265-1848A>C"	""	""	"ENST00000532498"	""	78	"73"	5	53	"53"	0	"TSPAN19,intron_variant,,ENST00000532498,NM_001100917.1;TSPAN19,downstream_gene_variant,,ENST00000547836,;TSPAN19,intron_variant,,ENST00000547403,;TSPAN19,intron_variant,,ENST00000532628,;TSPAN19,intron_variant,,ENST00000552392,;TSPAN19,intron_variant,,ENST00000433494,;"	"G"	"ENSG00000231738"	"ENST00000532498"	"Transcript"	"intron_variant"	"-/998"	"-/747"	"-/248"	""	""	""	"1"	NA	-1	"TSPAN19"	"HGNC"	31886	"protein_coding"	"YES"	"CCDS44949.1"	"ENSP00000433816"	"P0C672"	"F8VZ36"	"UPI000003F7BD"	"NM_001100917.1"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"0fb8fb3e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0641025641025641	"WGS"	FALSE
"8600"	"LRRIQ1"	84125	"mskcc.org"	"GRCh37"	"12"	85601597	85601597	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4823-21698T>C"	""	""	"ENST00000393217"	""	94	"79"	15	56	"56"	0	"LRRIQ1,intron_variant,,ENST00000393217,NM_001079910.1;LRRIQ1,intron_variant,,ENST00000526363,;LRRIQ1,intron_variant,,ENST00000528777,;"	"C"	"ENSG00000133640"	"ENST00000393217"	"Transcript"	"intron_variant"	"-/5394"	"-/5169"	"-/1722"	""	""	""	"1"	NA	1	"LRRIQ1"	"HGNC"	25708	"protein_coding"	"YES"	"CCDS41816.1"	"ENSP00000376910"	"Q96JM4"	"A8MY60"	"UPI0000ED4E82"	"NM_001079910.1"	""	""	""	"24/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"0fb8fe72-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.159574468085106	"WGS"	FALSE
"8601"	"MGAT4C"	25834	"mskcc.org"	"GRCh37"	"12"	86903157	86903157	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-348-74115C>T"	""	""	"ENST00000549405"	""	79	"69"	10	46	"46"	0	"MGAT4C,intron_variant,,ENST00000549405,;MGAT4C,intron_variant,,ENST00000602941,;MGAT4C,intron_variant,,ENST00000551921,;"	"A"	"ENSG00000182050"	"ENST00000549405"	"Transcript"	"intron_variant"	"-/2581"	"-/1437"	"-/478"	""	""	""	"1"	NA	-1	"MGAT4C"	"HGNC"	30871	"protein_coding"	""	"CCDS9030.1"	"ENSP00000449022"	"Q9UBM8"	"F8VWY2"	"UPI00001B002C"	""	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"0fb92aaa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126582278481013	"WGS"	FALSE
"8602"	"RP11-202H2.1"	0	"mskcc.org"	"GRCh37"	"12"	87063945	87063945	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.366+57041G>A"	""	""	"ENST00000550014"	""	90	"70"	20	61	"61"	0	"MGAT4C,intron_variant,,ENST00000549405,;RP11-202H2.1,intron_variant,,ENST00000550014,;MGAT4C,intron_variant,,ENST00000551921,;"	"T"	"ENSG00000258185"	"ENST00000550014"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/450"	""	""	""	""	""	"1"	NA	-1	"RP11-202H2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"0fb92f14-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"8603"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	88051909	88051909	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	123	"102"	21	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"0fb944b8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170731707317073	"WGS"	FALSE
"8604"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	91144632	91144632	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"67"	20	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"0fb9a548-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229885057471264	"WGS"	FALSE
"8605"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	93352313	93352313	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"90"	6	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"0fb9ecb0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"8606"	"ENSR00001634065"	0	"mskcc.org"	"GRCh37"	"12"	93627693	93627693	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001634065"	""	94	"77"	17	66	"66"	0	""	"C"	""	"ENSR00001634065"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"0fb9fb56-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180851063829787	"WGS"	FALSE
"8607"	"FGD6"	55785	"mskcc.org"	"GRCh37"	"12"	95514432	95514432	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3083-6955A>G"	""	""	"ENST00000343958"	""	114	"106"	8	66	"66"	0	"FGD6,intron_variant,,ENST00000343958,NM_018351.3;FGD6,intron_variant,,ENST00000546711,;FGD6,intron_variant,,ENST00000549499,;FGD6,upstream_gene_variant,,ENST00000551521,;FGD6,intron_variant,,ENST00000451107,;"	"C"	"ENSG00000180263"	"ENST00000343958"	"Transcript"	"intron_variant"	"-/9288"	"-/4293"	"-/1430"	""	""	""	"1"	NA	-1	"FGD6"	"HGNC"	21740	"protein_coding"	"YES"	"CCDS31878.1"	"ENSP00000344446"	"Q6ZV73"	"F8VY01"	"UPI00001FB2F4"	"NM_018351.3"	""	""	""	"8/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"0fba62e4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0701754385964912	"WGS"	FALSE
"8608"	"GAS2L3"	283431	"mskcc.org"	"GRCh37"	"12"	100996648	100996648	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.303+1117C>T"	""	""	"ENST00000539410"	""	96	"78"	18	49	"49"	0	"GAS2L3,intron_variant,,ENST00000537247,;GAS2L3,intron_variant,,ENST00000539410,;GAS2L3,intron_variant,,ENST00000547754,NM_174942.1;GAS2L3,intron_variant,,ENST00000266754,;GAS2L3,downstream_gene_variant,,ENST00000550295,;GAS2L3,intron_variant,,ENST00000548113,;"	"T"	"ENSG00000139354"	"ENST00000539410"	"Transcript"	"intron_variant"	"-/2486"	"-/2085"	"-/694"	""	""	""	"1"	NA	1	"GAS2L3"	"HGNC"	27475	"protein_coding"	"YES"	"CCDS9079.1"	"ENSP00000439672"	"Q86XJ1"	"H0YIT6,G3V1N3,F8VSB7"	"UPI000000DA3B"	""	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"0fbb7f4e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"8609"	"ANO4"	121601	"mskcc.org"	"GRCh37"	"12"	101193512	101193512	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-141+4707C>T"	""	""	"ENST00000392979"	""	76	"61"	15	58	"58"	0	"ANO4,intron_variant,,ENST00000392979,NM_178826.3,NM_001286616.1;ANO4,intron_variant,,ENST00000392977,NM_001286615.1;ANO4,intron_variant,,ENST00000299222,;ANO4,intron_variant,,ENST00000538618,;ANO4,intron_variant,,ENST00000546991,;ANO4,intron_variant,,ENST00000551148,;ANO4,intron_variant,,ENST00000549155,;"	"T"	"ENSG00000151572"	"ENST00000392979"	"Transcript"	"intron_variant"	"-/3909"	"-/2763"	"-/920"	""	""	""	"1"	NA	1	"ANO4"	"HGNC"	23837	"protein_coding"	"YES"	"CCDS31884.1"	"ENSP00000376705"	"Q32M45"	""	"UPI0000198E2E"	"NM_178826.3,NM_001286616.1"	""	""	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"0fbb8656-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197368421052632	"WGS"	FALSE
"8610"	"IGF1"	3479	"mskcc.org"	"GRCh37"	"12"	102798805	102798805	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.452-2461A>C"	""	""	"ENST00000456098"	""	92	"86"	6	52	"52"	0	"IGF1,intron_variant,,ENST00000456098,NM_001111283.1;IGF1,intron_variant,,ENST00000337514,NM_000618.3;IGF1,intron_variant,,ENST00000392904,;IGF1,intron_variant,,ENST00000424202,NM_001111284.1;IGF1,intron_variant,,ENST00000392905,;IGF1,intron_variant,,ENST00000481539,;"	"G"	"ENSG00000017427"	"ENST00000456098"	"Transcript"	"intron_variant"	"-/7370"	"-/477"	"-/158"	""	""	""	"1"	NA	-1	"IGF1"	"HGNC"	5464	"protein_coding"	""	"CCDS44961.1"	"ENSP00000394999"	"P05019"	"Q6LD41,Q13429"	"UPI000155D519"	"NM_001111283.1"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTA"	"0fbbd3cc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"8611"	"STAB2"	55576	"mskcc.org"	"GRCh37"	"12"	104005712	104005712	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.332-8534C>T"	""	""	"ENST00000388887"	""	82	"71"	11	53	"53"	0	"STAB2,intron_variant,,ENST00000388887,NM_017564.9;"	"T"	"ENSG00000136011"	"ENST00000388887"	"Transcript"	"intron_variant"	"-/8251"	"-/7656"	"-/2551"	""	""	""	"1"	NA	1	"STAB2"	"HGNC"	18629	"protein_coding"	"YES"	"CCDS31888.1"	"ENSP00000373539"	"Q8WWQ8"	"H0YIF3"	"UPI00001ADDF4"	"NM_017564.9"	""	""	""	"3/68"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"0fbc07a2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134146341463415	"WGS"	FALSE
"8612"	"NT5DC3"	51559	"mskcc.org"	"GRCh37"	"12"	104184502	104184502	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1020-1805C>T"	""	""	"ENST00000392876"	""	51	"44"	7	32	"32"	0	"NT5DC3,intron_variant,,ENST00000392876,NM_001031701.2;NT5DC3,upstream_gene_variant,,ENST00000474268,;NT5DC3,intron_variant,,ENST00000415849,;"	"A"	"ENSG00000111696"	"ENST00000392876"	"Transcript"	"intron_variant"	"-/7207"	"-/1647"	"-/548"	""	""	""	"1"	NA	-1	"NT5DC3"	"HGNC"	30826	"protein_coding"	"YES"	"CCDS41824.1"	"ENSP00000376615"	"Q86UY8"	""	"UPI0000192759"	"NM_001031701.2"	""	""	""	"9/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"0fbc129c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137254901960784	"WGS"	FALSE
"8613"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	104842585	104842585	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"76"	21	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"0fbc3a10-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216494845360825	"WGS"	FALSE
"8614"	"ALDH1L2"	160428	"mskcc.org"	"GRCh37"	"12"	105451437	105451437	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1287+414T>A"	""	""	"ENST00000258494"	""	84	"72"	12	34	"34"	0	"ALDH1L2,intron_variant,,ENST00000258494,NM_001034173.3;ALDH1L2,intron_variant,,ENST00000424857,;ALDH1L2,intron_variant,,ENST00000549335,;ALDH1L2,intron_variant,,ENST00000552270,;"	"T"	"ENSG00000136010"	"ENST00000258494"	"Transcript"	"intron_variant"	"-/7547"	"-/2772"	"-/923"	""	""	""	"1"	NA	-1	"ALDH1L2"	"HGNC"	26777	"protein_coding"	"YES"	"CCDS31891.1"	"ENSP00000258494"	"Q3SY69"	""	"UPI00000477A9"	"NM_001034173.3"	""	""	""	"10/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"0fbc50fe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"8615"	"SSH1"	54434	"mskcc.org"	"GRCh37"	"12"	109172036	109172036	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000326495"	""	109	"83"	26	69	"69"	0	"SSH1,downstream_gene_variant,,ENST00000326495,NM_018984.3;SSH1,downstream_gene_variant,,ENST00000360239,;SNORA40,non_coding_transcript_exon_variant,,ENST00000578927,;SNORA40,non_coding_transcript_exon_variant,,ENST00000391200,;"	"T"	"ENSG00000084112"	"ENST00000326495"	"Transcript"	"downstream_gene_variant"	"-/8538"	"-/3150"	"-/1049"	""	""	""	"1"	"4434"	-1	"SSH1"	"HGNC"	30579	"protein_coding"	"YES"	"CCDS9121.1"	"ENSP00000315713"	"Q8WYL5"	""	"UPI000003E894"	"NM_018984.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"0fbd006c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238532110091743	"WGS"	FALSE
"8616"	"MYO1H"	283446	"mskcc.org"	"GRCh37"	"12"	109828107	109828107	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.126+1458C>A"	""	""	"ENST00000310903"	""	84	"78"	6	52	"52"	0	"MYO1H,intron_variant,,ENST00000310903,;MYO1H,intron_variant,,ENST00000431443,NM_001101421.3;"	"A"	"ENSG00000174527"	"ENST00000310903"	"Transcript"	"intron_variant"	"-/4364"	"-/3069"	"-/1022"	""	""	""	"1"	NA	1	"MYO1H"	"HGNC"	13879	"protein_coding"	"YES"	"CCDS53826.1"	"ENSP00000439182"	""	"S4R387,F5H3C6"	"UPI0001AFF951"	""	""	""	""	"2/31"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"0fbd3456-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"8617"	"ACAD10"	80724	"mskcc.org"	"GRCh37"	"12"	112161135	112161135	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1154+1592C>T"	""	""	"ENST00000455480"	""	35	"30"	5	24	"24"	0	"ACAD10,intron_variant,,ENST00000455480,NM_001136538.1;ACAD10,intron_variant,,ENST00000313698,NM_025247.5;ACAD10,intron_variant,,ENST00000549590,;ACAD10,intron_variant,,ENST00000392636,;ACAD10,intron_variant,,ENST00000507683,;ACAD10,intron_variant,,ENST00000515283,;ACAD10,intron_variant,,ENST00000552706,;ACAD10,intron_variant,,ENST00000413681,;ACAD10,intron_variant,,ENST00000508303,;ACAD10,intron_variant,,ENST00000502746,;ACAD10,intron_variant,,ENST00000503490,;ACAD10,downstream_gene_variant,,ENST00000507135,;ACAD10,downstream_gene_variant,,ENST00000514847,;"	"T"	"ENSG00000111271"	"ENST00000455480"	"Transcript"	"intron_variant"	"-/4071"	"-/3273"	"-/1090"	""	""	""	"1"	NA	1	"ACAD10"	"HGNC"	21597	"protein_coding"	"YES"	"CCDS44973.1"	"ENSP00000389813"	"Q6JQN1"	"F8VXK4,D6RFF6"	"UPI000013F5E7"	"NM_001136538.1"	""	""	""	"9/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"0fbe1bbe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"8618"	"ACAD10"	80724	"mskcc.org"	"GRCh37"	"12"	112161137	112161137	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1154+1594C>T"	""	""	"ENST00000455480"	""	32	"27"	5	22	"22"	0	"ACAD10,intron_variant,,ENST00000455480,NM_001136538.1;ACAD10,intron_variant,,ENST00000313698,NM_025247.5;ACAD10,intron_variant,,ENST00000549590,;ACAD10,intron_variant,,ENST00000392636,;ACAD10,intron_variant,,ENST00000507683,;ACAD10,intron_variant,,ENST00000515283,;ACAD10,intron_variant,,ENST00000552706,;ACAD10,intron_variant,,ENST00000413681,;ACAD10,intron_variant,,ENST00000508303,;ACAD10,intron_variant,,ENST00000502746,;ACAD10,intron_variant,,ENST00000503490,;ACAD10,downstream_gene_variant,,ENST00000507135,;ACAD10,downstream_gene_variant,,ENST00000514847,;"	"T"	"ENSG00000111271"	"ENST00000455480"	"Transcript"	"intron_variant"	"-/4071"	"-/3273"	"-/1090"	""	""	""	"1"	NA	1	"ACAD10"	"HGNC"	21597	"protein_coding"	"YES"	"CCDS44973.1"	"ENSP00000389813"	"Q6JQN1"	"F8VXK4,D6RFF6"	"UPI000013F5E7"	"NM_001136538.1"	""	""	""	"9/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"0fbe1c68-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WGS"	FALSE
"8619"	"ACAD10"	80724	"mskcc.org"	"GRCh37"	"12"	112161330	112161330	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1154+1787T>A"	""	""	"ENST00000455480"	""	31	"28"	3	28	"28"	0	"ACAD10,intron_variant,,ENST00000455480,NM_001136538.1;ACAD10,intron_variant,,ENST00000313698,NM_025247.5;ACAD10,intron_variant,,ENST00000549590,;ACAD10,intron_variant,,ENST00000392636,;ACAD10,intron_variant,,ENST00000507683,;ACAD10,intron_variant,,ENST00000515283,;ACAD10,intron_variant,,ENST00000552706,;ACAD10,intron_variant,,ENST00000413681,;ACAD10,intron_variant,,ENST00000508303,;ACAD10,intron_variant,,ENST00000502746,;ACAD10,intron_variant,,ENST00000503490,;ACAD10,downstream_gene_variant,,ENST00000507135,;ACAD10,downstream_gene_variant,,ENST00000514847,;"	"A"	"ENSG00000111271"	"ENST00000455480"	"Transcript"	"intron_variant"	"-/4071"	"-/3273"	"-/1090"	""	""	""	"1"	NA	1	"ACAD10"	"HGNC"	21597	"protein_coding"	"YES"	"CCDS44973.1"	"ENSP00000389813"	"Q6JQN1"	"F8VXK4,D6RFF6"	"UPI000013F5E7"	"NM_001136538.1"	""	""	""	"9/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"0fbe1d08-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"8620"	"OAS3"	4940	"mskcc.org"	"GRCh37"	"12"	113395956	113395956	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1658-2920A>G"	""	""	"ENST00000228928"	""	112	"96"	16	64	"64"	0	"OAS3,intron_variant,,ENST00000228928,NM_006187.2;RP1-71H24.1,intron_variant,,ENST00000552784,;OAS3,intron_variant,,ENST00000546800,;"	"G"	"ENSG00000111331"	"ENST00000228928"	"Transcript"	"intron_variant"	"-/6719"	"-/3264"	"-/1087"	""	""	""	"1"	NA	1	"OAS3"	"HGNC"	8088	"protein_coding"	"YES"	"CCDS44981.1"	"ENSP00000228928"	"Q9Y6K5"	""	"UPI000034ECD3"	"NM_006187.2"	""	""	""	"7/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"0fbe6baa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"8621"	"RP11-100F15.2"	0	"mskcc.org"	"GRCh37"	"12"	114544955	114544955	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.63-160C>T"	""	""	"ENST00000546791"	""	90	"78"	12	65	"65"	0	"RP11-100F15.2,intron_variant,,ENST00000546791,;RP11-100F15.2,intron_variant,,ENST00000549266,;GLULP5,downstream_gene_variant,,ENST00000547831,;"	"T"	"ENSG00000257997"	"ENST00000546791"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/382"	""	""	""	""	""	"1"	NA	1	"RP11-100F15.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"0fbeac64-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"8622"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	115819437	115819437	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs763604928"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"68"	19	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs763604928"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"0fbefe30-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218390804597701	"WGS"	FALSE
"8623"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	116331839	116331839	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"69"	19	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"0fbf1a8c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215909090909091	"WGS"	FALSE
"8624"	"SUDS3"	64426	"mskcc.org"	"GRCh37"	"12"	118851348	118851348	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.889-792G>A"	""	""	"ENST00000543473"	""	110	"92"	18	54	"54"	0	"SUDS3,intron_variant,,ENST00000543473,NM_022491.2;SUDS3,intron_variant,,ENST00000397564,;SUDS3,intron_variant,,ENST00000541280,;SUDS3,intron_variant,,ENST00000541591,;SUDS3,downstream_gene_variant,,ENST00000360286,;"	"A"	"ENSG00000111707"	"ENST00000543473"	"Transcript"	"intron_variant"	"-/4897"	"-/987"	"-/328"	""	""	""	"1"	NA	1	"SUDS3"	"HGNC"	29545	"protein_coding"	"YES"	"CCDS44993.1"	"ENSP00000443988"	"Q9H7L9"	"Q52LB7,Q2M2F3"	"UPI00001C1F43"	"NM_022491.2"	""	""	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"0fbfdbc0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163636363636364	"WGS"	FALSE
"8625"	"CIT"	11113	"mskcc.org"	"GRCh37"	"12"	120169242	120169242	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3351-807A>G"	""	""	"ENST00000392521"	""	73	"66"	7	56	"56"	0	"CIT,intron_variant,,ENST00000392521,NM_001206999.1;CIT,intron_variant,,ENST00000261833,NM_007174.2;CIT,intron_variant,,ENST00000392520,;CIT,intron_variant,,ENST00000546026,;CIT,intron_variant,,ENST00000536325,;CIT,intron_variant,,ENST00000537607,;CIT,intron_variant,,ENST00000545913,;CIT,downstream_gene_variant,,ENST00000541841,;"	"C"	"ENSG00000122966"	"ENST00000392521"	"Transcript"	"intron_variant"	"-/8708"	"-/6210"	"-/2069"	""	""	""	"1"	NA	-1	"CIT"	"HGNC"	1985	"protein_coding"	"YES"	"CCDS55891.1"	"ENSP00000376306"	"O14578"	""	"UPI0000683C41"	"NM_001206999.1"	""	""	""	"26/47"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"0fc01d4c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"8626"	"GCN1L1"	10985	"mskcc.org"	"GRCh37"	"12"	120565169	120565169	"+"	"3'UTR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*484A>C"	""	""	"ENST00000300648"	"58/58"	106	"78"	28	57	"57"	0	"GCN1L1,3_prime_UTR_variant,,ENST00000300648,NM_006836.1;"	"G"	"ENSG00000089154"	"ENST00000300648"	"Transcript"	"3_prime_UTR_variant"	"8513/8675"	"-/8016"	"-/2671"	""	""	""	"1"	NA	-1	"GCN1L1"	"HGNC"	4199	"protein_coding"	"YES"	"CCDS41847.1"	"ENSP00000300648"	"Q92616"	"B4DM32"	"UPI00001FBC69"	"NM_006836.1"	""	""	"58/58"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"0fc03cc8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264150943396226	"WGS"	FALSE
"8627"	"ANAPC5"	51433	"mskcc.org"	"GRCh37"	"12"	121803683	121803683	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-90-17999G>A"	""	""	"ENST00000536837"	""	86	"70"	16	58	"58"	0	"ANAPC5,intron_variant,,ENST00000536837,;"	"T"	"ENSG00000089053"	"ENST00000536837"	"Transcript"	"intron_variant"	"-/509"	"-/133"	"-/44"	""	""	""	"1"	NA	-1	"ANAPC5"	"HGNC"	15713	"protein_coding"	""	""	"ENSP00000441508"	""	"F5GZ05"	"UPI000204AC2F"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"0fc0b568-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186046511627907	"WGS"	FALSE
"8628"	"MPHOSPH9"	10198	"mskcc.org"	"GRCh37"	"12"	123704878	123704878	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.416+1041A>T"	""	""	"ENST00000392425"	""	89	"84"	5	57	"57"	0	"MPHOSPH9,intron_variant,,ENST00000606320,NM_022782.3;MPHOSPH9,intron_variant,,ENST00000541076,;MPHOSPH9,intron_variant,,ENST00000392425,;MPHOSPH9,intron_variant,,ENST00000302349,;MPHOSPH9,intron_variant,,ENST00000539336,;MPHOSPH9,intron_variant,,ENST00000537854,;MPHOSPH9,downstream_gene_variant,,ENST00000541437,;MPHOSPH9,downstream_gene_variant,,ENST00000539639,;MPHOSPH9,downstream_gene_variant,,ENST00000538169,;MPHOSPH9,intron_variant,,ENST00000545556,;MPHOSPH9,intron_variant,,ENST00000302373,;MPHOSPH9,upstream_gene_variant,,ENST00000539024,;MPHOSPH9,downstream_gene_variant,,ENST00000535049,;"	"A"	"ENSG00000051825"	"ENST00000392425"	"Transcript"	"intron_variant"	"-/3609"	"-/3096"	"-/1031"	""	""	""	"1"	NA	-1	"MPHOSPH9"	"HGNC"	7215	"protein_coding"	"YES"	""	"ENSP00000376220"	"Q99550"	""	"UPI00001D62B9"	""	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"0fc17796-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0561797752808989	"WGS"	FALSE
"8629"	"RP11-83B20.1"	0	"mskcc.org"	"GRCh37"	"12"	124996580	124996580	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000543970"	""	100	"76"	24	64	"64"	0	"NCOR2,intron_variant,,ENST00000356219,NM_006312.5;NCOR2,intron_variant,,ENST00000404121,NM_001206654.1;NCOR2,intron_variant,,ENST00000397355,;NCOR2,intron_variant,,ENST00000404621,NM_001077261.3;NCOR2,intron_variant,,ENST00000429285,;NCOR2,intron_variant,,ENST00000458234,;NCOR2,intron_variant,,ENST00000420698,;RP11-83B20.1,upstream_gene_variant,,ENST00000543970,;NCOR2,intron_variant,,ENST00000542565,;"	"A"	"ENSG00000214650"	"ENST00000543970"	"Transcript"	"upstream_gene_variant"	"-/1282"	""	""	""	""	""	"1"	"1188"	1	"RP11-83B20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"0fc21728-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WGS"	FALSE
"8630"	"SCARB1"	949	"mskcc.org"	"GRCh37"	"12"	125322108	125322108	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.127-19855T>C"	""	""	"ENST00000261693"	""	30	"21"	9	15	"15"	0	"SCARB1,intron_variant,,ENST00000339570,NM_001082959.1;SCARB1,intron_variant,,ENST00000415380,;SCARB1,intron_variant,,ENST00000261693,NM_005505.4;SCARB1,intron_variant,,ENST00000541205,;SCARB1,intron_variant,,ENST00000376788,;SCARB1,intron_variant,,ENST00000540495,;SCARB1,intron_variant,,ENST00000546215,;SCARB1,intron_variant,,ENST00000545493,;SCARB1,intron_variant,,ENST00000535005,;SCARB1,intron_variant,,ENST00000539320,;SCARB1,intron_variant,,ENST00000541661,;SCARB1,intron_variant,,ENST00000538291,;"	"G"	"ENSG00000073060"	"ENST00000261693"	"Transcript"	"intron_variant"	"-/2611"	"-/1530"	"-/509"	""	""	""	"1"	NA	-1	"SCARB1"	"HGNC"	1664	"protein_coding"	"YES"	"CCDS9259.1"	"ENSP00000261693"	"Q8WTV0"	""	"UPI000014CE1C"	"NM_005505.4"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"0fc235f0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"8631"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	127988892	127988892	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"89"	9	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"0fc2db4a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0918367346938776	"WGS"	FALSE
"8632"	"SLC15A4"	121260	"mskcc.org"	"GRCh37"	"12"	129282315	129282315	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1573+1489G>A"	""	""	"ENST00000266771"	""	97	"82"	15	60	"60"	0	"SLC15A4,intron_variant,,ENST00000266771,NM_145648.3;SLC15A4,intron_variant,,ENST00000544112,;SLC15A4,intron_variant,,ENST00000545031,;SLC15A4,intron_variant,,ENST00000376744,;SLC15A4,downstream_gene_variant,,ENST00000366292,;"	"T"	"ENSG00000139370"	"ENST00000266771"	"Transcript"	"intron_variant"	"-/2776"	"-/1734"	"-/577"	""	""	""	"1"	NA	-1	"SLC15A4"	"HGNC"	23090	"protein_coding"	"YES"	"CCDS9264.1"	"ENSP00000266771"	"Q8N697"	"F5GZQ7,B6ZDF2"	"UPI000006F120"	"NM_145648.3"	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"0fc37ac8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.154639175257732	"WGS"	FALSE
"8633"	"RP11-897M7.1"	0	"mskcc.org"	"GRCh37"	"12"	131977330	131977330	"+"	"RNA"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.167T>A"	""	""	"ENST00000535133"	"1/3"	99	"90"	9	47	"47"	0	"RP11-897M7.1,non_coding_transcript_exon_variant,,ENST00000535133,;"	"T"	"ENSG00000256209"	"ENST00000535133"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"167/493"	""	""	""	""	""	"1"	NA	-1	"RP11-897M7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"0fc4a51a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"8634"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	132061237	132061237	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs61936760"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"13"	5	8	"8"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs61936760"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"0fc4afec-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"8635"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	132061243	132061243	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"13"	4	7	"7"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"0fc4b0b4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"8636"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	132999670	132999670	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"75"	7	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"0fc5bb08-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"8637"	"ANKLE2"	23141	"mskcc.org"	"GRCh37"	"12"	133309578	133309578	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs535013881"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1891+1393C>T"	""	""	"ENST00000357997"	""	31	"22"	9	22	"21"	1	"ANKLE2,intron_variant,,ENST00000539605,;ANKLE2,intron_variant,,ENST00000357997,NM_015114.1;ANKLE2,intron_variant,,ENST00000538766,;ANKLE2,upstream_gene_variant,,ENST00000542282,;ANKLE2,upstream_gene_variant,,ENST00000542657,;ANKLE2,downstream_gene_variant,,ENST00000337516,;ANKLE2,downstream_gene_variant,,ENST00000545623,;ANKLE2,downstream_gene_variant,,ENST00000535036,;ANKLE2,intron_variant,,ENST00000542374,;ANKLE2,intron_variant,,ENST00000505031,;ANKLE2,intron_variant,,ENST00000439231,;ANKLE2,downstream_gene_variant,,ENST00000538591,;"	"A"	"ENSG00000176915"	"ENST00000357997"	"Transcript"	"intron_variant"	"-/4481"	"-/2817"	"-/938"	""	""	"rs535013881"	"1"	NA	-1	"ANKLE2"	"HGNC"	29101	"protein_coding"	"YES"	"CCDS41869.1"	"ENSP00000350686"	"Q86XL3"	"F5H417,F5H2H5,F5H1E7,F5H1D4"	"UPI00001981FB"	"NM_015114.1"	""	""	""	"10/12"	""	"A:0.0246"	"A:0.0915"	"A:0.0029"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"0fc62d2c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290322580645161	"WGS"	FALSE
"8638"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	19151417	19151417	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"63"	10	40	"40"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"0fc69532-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136986301369863	"WGS"	FALSE
"8639"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	19194023	19194023	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"79"	27	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"0fc6a040-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254716981132075	"WGS"	FALSE
"8640"	"RNU6-76P"	100873777	"mskcc.org"	"GRCh37"	"13"	19456399	19456399	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384060"	""	111	"102"	9	57	"57"	0	"RNU6-76P,downstream_gene_variant,,ENST00000384060,NR_046943.1;"	"T"	"ENSG00000206787"	"ENST00000384060"	"Transcript"	"downstream_gene_variant"	"-/104"	""	""	""	""	""	"1"	"2102"	1	"RNU6-76P"	"HGNC"	42566	"snRNA"	"YES"	""	""	""	""	""	"NR_046943.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"0fc6cd72-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"8641"	"PSPC1P1"	0	"mskcc.org"	"GRCh37"	"13"	19797183	19797183	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.186-3268A>T"	""	""	"ENST00000442352"	""	58	"52"	6	49	"49"	0	"PSPC1P1,intron_variant,,ENST00000442352,;"	"A"	"ENSG00000227879"	"ENST00000442352"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/665"	""	""	""	""	""	"1"	NA	-1	"PSPC1P1"	"HGNC"	42033	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"0fc6ddee-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"8642"	"PSPC1"	55269	"mskcc.org"	"GRCh37"	"13"	20296672	20296672	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1158+7707A>T"	""	""	"ENST00000338910"	""	87	"80"	7	49	"49"	0	"PSPC1,intron_variant,,ENST00000338910,NM_001042414.2;PSPC1,intron_variant,,ENST00000492741,;PSPC1,intron_variant,,ENST00000471658,;"	"A"	"ENSG00000121390"	"ENST00000338910"	"Transcript"	"intron_variant"	"-/2407"	"-/1572"	"-/523"	""	""	""	"1"	NA	-1	"PSPC1"	"HGNC"	20320	"protein_coding"	"YES"	"CCDS41870.1"	"ENSP00000343966"	"Q8WXF1"	""	"UPI000006F2BE"	"NM_001042414.2"	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"0fc70512-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"8643"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	21686493	21686493	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"78"	6	60	"60"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"0fc7874e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"8644"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	21770784	21770784	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"89"	9	59	"59"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"0fc792b6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0918367346938776	"WGS"	FALSE
"8645"	"RP11-363G2.4"	0	"mskcc.org"	"GRCh37"	"13"	23433142	23433142	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000445646"	""	26	"23"	3	24	"24"	0	"RP11-363G2.4,downstream_gene_variant,,ENST00000445646,;"	"C"	"ENSG00000229556"	"ENST00000445646"	"Transcript"	"downstream_gene_variant"	"-/2042"	""	""	""	""	""	"1"	"4865"	1	"RP11-363G2.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"0fc802aa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"8646"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	23732127	23732127	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"rs779884640"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"76"	15	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs779884640"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"0fc81d1c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164835164835165	"WGS"	FALSE
"8647"	"AL359538.1"	0	"mskcc.org"	"GRCh37"	"13"	25186588	25186588	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390174"	""	96	"82"	14	56	"56"	0	"AL359538.1,downstream_gene_variant,,ENST00000390174,;"	"A"	"ENSG00000211508"	"ENST00000390174"	"Transcript"	"downstream_gene_variant"	"-/97"	""	""	""	""	""	"1"	"3275"	1	"AL359538.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"0fc870e6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145833333333333	"WGS"	FALSE
"8648"	"USP12"	219333	"mskcc.org"	"GRCh37"	"13"	27684264	27684264	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"rs76407407"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.130-4183A>T"	""	""	"ENST00000282344"	""	59	"55"	4	37	"37"	0	"USP12,intron_variant,,ENST00000282344,NM_182488.3;"	"A"	"ENSG00000152484"	"ENST00000282344"	"Transcript"	"intron_variant"	"-/4497"	"-/1113"	"-/370"	""	""	"rs76407407"	"1"	NA	-1	"USP12"	"HGNC"	20485	"protein_coding"	"YES"	"CCDS31952.1"	"ENSP00000282344"	"O75317"	""	"UPI0000198DEE"	"NM_182488.3"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"0fc91d2a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0677966101694915	"WGS"	FALSE
"8649"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	27987448	27987448	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"77"	15	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"0fc93094-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16304347826087	"WGS"	FALSE
"8650"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	29424555	29424555	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"59"	21	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"0fc98c74-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2625	"WGS"	FALSE
"8651"	"LINC00297"	100874059	"mskcc.org"	"GRCh37"	"13"	30463695	30463695	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"rs758714406"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000453470"	""	108	"90"	18	61	"61"	0	"LINC00297,upstream_gene_variant,,ENST00000453470,;"	"T"	"ENSG00000224329"	"ENST00000453470"	"Transcript"	"upstream_gene_variant"	"-/913"	""	""	""	""	"rs758714406"	"1"	"1153"	-1	"LINC00297"	"HGNC"	39210	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"0fc9ae34-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"8652"	"TEX26-AS1"	100507064	"mskcc.org"	"GRCh37"	"13"	31465486	31465486	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1436-7289T>G"	""	""	"ENST00000585870"	""	106	"85"	21	55	"55"	0	"TEX26-AS1,intron_variant,,ENST00000585870,;TEX26-AS1,intron_variant,,ENST00000588726,;TEX26-AS1,intron_variant,,ENST00000592950,;"	"C"	"ENSG00000224743"	"ENST00000585870"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2053"	""	""	""	""	""	"1"	NA	-1	"TEX26-AS1"	"HGNC"	42784	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"0fca1702-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19811320754717	"WGS"	FALSE
"8653"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	32389358	32389358	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"86"	12	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"0fca361a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122448979591837	"WGS"	FALSE
"8654"	"PDS5B"	23047	"mskcc.org"	"GRCh37"	"13"	33253216	33253216	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1057+150G>T"	""	""	"ENST00000315596"	""	91	"71"	20	56	"56"	0	"PDS5B,intron_variant,,ENST00000315596,NM_015032.3;PDS5B,intron_variant,,ENST00000450460,;PDS5B,intron_variant,,ENST00000498550,;"	"T"	"ENSG00000083642"	"ENST00000315596"	"Transcript"	"intron_variant"	"-/7497"	"-/4344"	"-/1447"	""	""	""	"1"	NA	1	"PDS5B"	"HGNC"	20418	"protein_coding"	"YES"	"CCDS41878.1"	"ENSP00000313851"	"Q9NTI5"	""	"UPI000006D4A9"	"NM_015032.3"	""	""	""	"10/34"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"0fca57f8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21978021978022	"WGS"	FALSE
"8655"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	34800934	34800934	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"61"	13	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"0fca8a0c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175675675675676	"WGS"	FALSE
"8656"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	34800935	34800935	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"60"	14	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"0fca8ab6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189189189189189	"WGS"	FALSE
"8657"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	34817443	34817443	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"71"	24	59	"58"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"0fca8b56-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"8658"	"NBEA"	26960	"mskcc.org"	"GRCh37"	"13"	35739110	35739110	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4233+464A>G"	""	""	"ENST00000400445"	""	102	"77"	25	47	"47"	0	"NBEA,intron_variant,,ENST00000400445,NM_015678.4;NBEA,intron_variant,,ENST00000540320,;NBEA,intron_variant,,ENST00000310336,;NBEA,intron_variant,,ENST00000379939,;"	"G"	"ENSG00000172915"	"ENST00000400445"	"Transcript"	"intron_variant"	"-/11119"	"-/8841"	"-/2946"	""	""	""	"1"	NA	1	"NBEA"	"HGNC"	7648	"protein_coding"	"YES"	"CCDS45026.1"	"ENSP00000383295"	"Q8NFP9"	""	"UPI00004FF92F"	"NM_015678.4"	""	""	""	"24/57"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"0fcaaffa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245098039215686	"WGS"	FALSE
"8659"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	37052482	37052482	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"83"	14	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"0fcaf8ac-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.144329896907216	"WGS"	FALSE
"8660"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	40692294	40692294	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"75"	21	48	"48"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"0fcb7ffc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WGS"	FALSE
"8661"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	43291910	43291910	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"69"	25	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"0fcc2c04-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265957446808511	"WGS"	FALSE
"8662"	"RP11-248G5.8"	101930578	"mskcc.org"	"GRCh37"	"13"	52747722	52747722	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1996+2052C>A"	""	""	"ENST00000451298"	""	95	"70"	25	53	"53"	0	"RP11-248G5.8,intron_variant,,ENST00000451298,;MRPS31P5,intron_variant,,ENST00000416599,;MRPS31P5,intron_variant,,ENST00000606974,;MRPS31P5,upstream_gene_variant,,ENST00000607588,;MRPS31P5,downstream_gene_variant,,ENST00000423686,;"	"T"	"ENSG00000217576"	"ENST00000451298"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3796"	""	""	""	""	""	"1"	NA	-1	"RP11-248G5.8"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"19/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"0fcde51c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"8663"	"THSD1"	55901	"mskcc.org"	"GRCh37"	"13"	52949734	52949734	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000258613"	""	61	"56"	5	35	"35"	0	"THSD1,downstream_gene_variant,,ENST00000349258,NM_199263.2;THSD1,downstream_gene_variant,,ENST00000258613,NM_018676.3;THSD1,downstream_gene_variant,,ENST00000544466,;"	"C"	"ENSG00000136114"	"ENST00000258613"	"Transcript"	"downstream_gene_variant"	"-/2962"	"-/2559"	"-/852"	""	""	""	"1"	"1588"	-1	"THSD1"	"HGNC"	17754	"protein_coding"	"YES"	"CCDS9432.1"	"ENSP00000258613"	"Q9NS62"	"F5H419"	"UPI000007376D"	"NM_018676.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"0fcdf278-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0819672131147541	"WGS"	FALSE
"8664"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	57556828	57556828	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"81"	9	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"0fceeed0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"8665"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	59156101	59156101	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"73"	14	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"0fcf3d54-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.160919540229885	"WGS"	FALSE
"8666"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	60197103	60197103	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"83"	23	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"0fcf7f26-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216981132075472	"WGS"	FALSE
"8667"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	61857203	61857203	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"70"	19	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"0fd0039c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213483146067416	"WGS"	FALSE
"8668"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	62518363	62518363	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"70"	21	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"0fd01d32-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"8669"	"PPP1R2P10"	0	"mskcc.org"	"GRCh37"	"13"	64386203	64386203	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000393023"	""	101	"88"	13	74	"74"	0	"PPP1R2P10,upstream_gene_variant,,ENST00000393023,;"	"A"	"ENSG00000213232"	"ENST00000393023"	"Transcript"	"upstream_gene_variant"	"-/595"	""	""	""	""	""	"1"	"462"	-1	"PPP1R2P10"	"HGNC"	42008	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"0fd08f2e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128712871287129	"WGS"	FALSE
"8670"	"PPP1R2P10"	0	"mskcc.org"	"GRCh37"	"13"	64386204	64386204	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000393023"	""	100	"87"	13	73	"73"	0	"PPP1R2P10,upstream_gene_variant,,ENST00000393023,;"	"A"	"ENSG00000213232"	"ENST00000393023"	"Transcript"	"upstream_gene_variant"	"-/595"	""	""	""	""	""	"1"	"463"	-1	"PPP1R2P10"	"HGNC"	42008	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"0fd09064-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13	"WGS"	FALSE
"8671"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	68388754	68388754	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"65"	14	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"0fd1784e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177215189873418	"WGS"	FALSE
"8672"	"OR7E33P"	0	"mskcc.org"	"GRCh37"	"13"	68489095	68489095	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000437705"	""	91	"68"	23	60	"60"	0	"OR7E33P,downstream_gene_variant,,ENST00000437705,;"	"C"	"ENSG00000226537"	"ENST00000437705"	"Transcript"	"downstream_gene_variant"	"-/862"	""	""	""	""	""	"1"	"3015"	1	"OR7E33P"	"HGNC"	8406	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"0fd17e20-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252747252747253	"WGS"	FALSE
"8673"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	70849165	70849165	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"76"	16	65	"65"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"0fd1f896-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"8674"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	73201873	73201873	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"84"	14	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"0fd29526-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"8675"	"RP11-173B14.5"	101927155	"mskcc.org"	"GRCh37"	"13"	76200717	76200717	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.167-7675T>A"	""	""	"ENST00000568302"	""	28	"25"	3	11	"11"	0	"LMO7,intron_variant,,ENST00000357063,;LMO7,intron_variant,,ENST00000377534,;LMO7,intron_variant,,ENST00000341547,NM_005358.5;RP11-173B14.5,intron_variant,,ENST00000568302,;RP11-173B14.5,intron_variant,,ENST00000568735,;RP11-173B14.4,upstream_gene_variant,,ENST00000422931,;RP11-29G8.3,intron_variant,,ENST00000563635,;RP11-29G8.3,downstream_gene_variant,,ENST00000570285,;LMO7,intron_variant,,ENST00000533299,;"	"T"	"ENSG00000261105"	"ENST00000568302"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/549"	""	""	""	""	""	"1"	NA	-1	"RP11-173B14.5"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"0fd352e0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"8676"	"RNF219-AS1"	100874222	"mskcc.org"	"GRCh37"	"13"	78766434	78766434	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.231-81954G>A"	""	""	"ENST00000607862"	""	116	"93"	23	57	"57"	0	"RNF219-AS1,intron_variant,,ENST00000607862,;RNF219-AS1,intron_variant,,ENST00000606429,;RNF219-AS1,intron_variant,,ENST00000605996,;RNF219-AS1,intron_variant,,ENST00000444769,;RNF219-AS1,intron_variant,,ENST00000560209,;RNF219-AS1,intron_variant,,ENST00000607860,;RNF219-AS1,intron_variant,,ENST00000607205,;RNF219-AS1,intron_variant,,ENST00000606124,;RNF219-AS1,intron_variant,,ENST00000606376,;RNF219-AS1,intron_variant,,ENST00000606803,;RNF219-AS1,intron_variant,,ENST00000607220,;RNF219-AS1,intron_variant,,ENST00000430549,;RNF219-AS1,intron_variant,,ENST00000606187,;"	"A"	"ENSG00000234377"	"ENST00000607862"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/6001"	""	""	""	""	""	"1"	NA	1	"RNF219-AS1"	"HGNC"	42700	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"0fd3bb72-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.198275862068966	"WGS"	FALSE
"8677"	"RPL21P111"	0	"mskcc.org"	"GRCh37"	"13"	79340132	79340132	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000418453"	""	89	"77"	12	68	"68"	0	"RPL21P111,downstream_gene_variant,,ENST00000418453,;"	"A"	"ENSG00000237109"	"ENST00000418453"	"Transcript"	"downstream_gene_variant"	"-/477"	""	""	""	""	""	"1"	"4346"	1	"RPL21P111"	"HGNC"	36564	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"0fd3d3d2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134831460674157	"WGS"	FALSE
"8678"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	79377322	79377322	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"73"	8	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"0fd3d954-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0987654320987654	"WGS"	FALSE
"8679"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	82240522	82240522	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"65"	6	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"0fd44f60-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"8680"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	82695594	82695594	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"79"	23	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"0fd46234-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225490196078431	"WGS"	FALSE
"8681"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	82761530	82761530	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"79"	23	56	"56"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"0fd46536-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225490196078431	"WGS"	FALSE
"8682"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	82777338	82777338	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"84"	22	61	"61"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"0fd465e0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207547169811321	"WGS"	FALSE
"8683"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	83927503	83927503	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"67"	17	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"0fd48606-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202380952380952	"WGS"	FALSE
"8684"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	84366151	84366151	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"75"	25	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"0fd48cb4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"8685"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	85054276	85054276	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"67"	24	68	"68"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"0fd4aaf0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263736263736264	"WGS"	FALSE
"8686"	"RP11-30L8.1"	0	"mskcc.org"	"GRCh37"	"13"	86696553	86696553	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.149-48427G>A"	""	""	"ENST00000445967"	""	100	"78"	22	56	"56"	0	"RP11-30L8.1,intron_variant,,ENST00000445967,;"	"A"	"ENSG00000232252"	"ENST00000445967"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/194"	""	""	""	""	""	"1"	NA	1	"RP11-30L8.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"0fd4df7a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22	"WGS"	FALSE
"8687"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	87139467	87139467	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"rs543871068"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"65"	17	67	"67"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs543871068"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0002"	"C:0.0008"	"C:0"	NA	"C:0"	"C:0"	"C:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"0fd4ecf4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207317073170732	"WGS"	FALSE
"8688"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	87306435	87306435	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"82"	6	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"0fd4f80c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"8689"	"MIR4500HG"	642345	"mskcc.org"	"GRCh37"	"13"	88198687	88198687	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.129-34962A>T"	""	""	"ENST00000436290"	""	95	"74"	21	58	"58"	0	"MIR4500HG,intron_variant,,ENST00000436290,;"	"A"	"ENSG00000228824"	"ENST00000436290"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1675"	""	""	""	""	""	"1"	NA	-1	"MIR4500HG"	"HGNC"	42773	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"0fd51bca-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221052631578947	"WGS"	FALSE
"8690"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	89680587	89680587	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"75"	22	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"0fd5552c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22680412371134	"WGS"	FALSE
"8691"	"GPC5"	2262	"mskcc.org"	"GRCh37"	"13"	93134314	93134314	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1561+337072G>A"	""	""	"ENST00000377067"	""	75	"62"	13	56	"56"	0	"GPC5,intron_variant,,ENST00000377067,NM_004466.4;GPC5-IT1,upstream_gene_variant,,ENST00000416664,;"	"A"	"ENSG00000179399"	"ENST00000377067"	"Transcript"	"intron_variant"	"-/2889"	"-/1719"	"-/572"	""	""	""	"1"	NA	1	"GPC5"	"HGNC"	4453	"protein_coding"	"YES"	"CCDS9468.1"	"ENSP00000366267"	"P78333"	""	"UPI0000001C85"	"NM_004466.4"	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"0fd5c886-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173333333333333	"WGS"	FALSE
"8692"	"GPC6"	10082	"mskcc.org"	"GRCh37"	"13"	94646611	94646611	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.712-33372T>A"	""	""	"ENST00000377047"	""	94	"74"	20	58	"58"	0	"GPC6,intron_variant,,ENST00000377047,NM_005708.3;"	"A"	"ENSG00000183098"	"ENST00000377047"	"Transcript"	"intron_variant"	"-/6467"	"-/1668"	"-/555"	""	""	""	"1"	NA	1	"GPC6"	"HGNC"	4454	"protein_coding"	"YES"	"CCDS9469.1"	"ENSP00000366246"	"Q9Y625"	""	"UPI0000032F5B"	"NM_005708.3"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"0fd60328-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212765957446809	"WGS"	FALSE
"8693"	"ABCC4"	10257	"mskcc.org"	"GRCh37"	"13"	95698490	95698490	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3457-1798A>C"	""	""	"ENST00000376887"	""	95	"88"	7	52	"52"	0	"ABCC4,intron_variant,,ENST00000376887,NM_005845.3;ABCC4,intron_variant,,ENST00000412704,;ABCC4,intron_variant,,ENST00000471041,;ABCC4,upstream_gene_variant,,ENST00000484109,;"	"G"	"ENSG00000125257"	"ENST00000376887"	"Transcript"	"intron_variant"	"-/5837"	"-/3978"	"-/1325"	""	""	""	"1"	NA	-1	"ABCC4"	"HGNC"	55	"protein_coding"	"YES"	"CCDS9474.1"	"ENSP00000366084"	"O15439"	"Q8IUA3"	"UPI00001A36E6"	"NM_005845.3"	""	""	""	"27/30"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"0fd62204-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"8694"	"ABCC4"	10257	"mskcc.org"	"GRCh37"	"13"	95880995	95880995	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.531+5869C>T"	""	""	"ENST00000376887"	""	82	"68"	14	39	"39"	0	"ABCC4,intron_variant,,ENST00000376887,NM_005845.3;ABCC4,intron_variant,,ENST00000412704,;ABCC4,intron_variant,,ENST00000431522,NM_001105515.1;ABCC4,intron_variant,,ENST00000536256,;ABCC4,intron_variant,,ENST00000538287,;"	"A"	"ENSG00000125257"	"ENST00000376887"	"Transcript"	"intron_variant"	"-/5837"	"-/3978"	"-/1325"	""	""	""	"1"	NA	-1	"ABCC4"	"HGNC"	55	"protein_coding"	"YES"	"CCDS9474.1"	"ENSP00000366084"	"O15439"	"Q8IUA3"	"UPI00001A36E6"	"NM_005845.3"	""	""	""	"4/30"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"0fd62a24-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170731707317073	"WGS"	FALSE
"8695"	"ABCC4"	10257	"mskcc.org"	"GRCh37"	"13"	95949991	95949991	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs557107250"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.74+3504C>T"	""	""	"ENST00000376887"	""	99	"92"	7	41	"41"	0	"ABCC4,intron_variant,,ENST00000376887,NM_005845.3;ABCC4,intron_variant,,ENST00000412704,;ABCC4,intron_variant,,ENST00000431522,NM_001105515.1;ABCC4,intron_variant,,ENST00000536256,;ABCC4,intron_variant,,ENST00000538287,;"	"A"	"ENSG00000125257"	"ENST00000376887"	"Transcript"	"intron_variant"	"-/5837"	"-/3978"	"-/1325"	""	""	"rs557107250"	"1"	NA	-1	"ABCC4"	"HGNC"	55	"protein_coding"	"YES"	"CCDS9474.1"	"ENSP00000366084"	"O15439"	"Q8IUA3"	"UPI00001A36E6"	"NM_005845.3"	""	""	""	"1/30"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"0fd634b0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0707070707070707	"WGS"	FALSE
"8696"	"UGGT2"	55757	"mskcc.org"	"GRCh37"	"13"	96570155	96570155	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2295+7779T>A"	""	""	"ENST00000376747"	""	108	"80"	28	61	"61"	0	"UGGT2,intron_variant,,ENST00000376747,NM_020121.3;"	"T"	"ENSG00000102595"	"ENST00000376747"	"Transcript"	"intron_variant"	"-/4832"	"-/4551"	"-/1516"	""	""	""	"1"	NA	-1	"UGGT2"	"HGNC"	15664	"protein_coding"	"YES"	"CCDS9480.1"	"ENSP00000365938"	"Q9NYU1"	""	"UPI00001FC9AA"	"NM_020121.3"	""	""	""	"20/38"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"0fd658f0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259259259259259	"WGS"	FALSE
"8697"	"HS6ST3"	266722	"mskcc.org"	"GRCh37"	"13"	97485224	97485224	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1188C>T"	"p.="	"p.R396R"	"ENST00000376705"	"2/2"	99	"76"	23	52	"52"	0	"HS6ST3,synonymous_variant,p.=,ENST00000376705,NM_153456.3;"	"T"	"ENSG00000185352"	"ENST00000376705"	"Transcript"	"synonymous_variant"	"1212/1659"	"1188/1416"	"396/471"	"R"	"cgC/cgT"	""	"1"	NA	1	"HS6ST3"	"HGNC"	19134	"protein_coding"	"YES"	"CCDS9481.1"	"ENSP00000365895"	"Q8IZP7"	"B3KX95"	"UPI00001AF933"	"NM_153456.3"	""	""	"2/2"	""	"hmmpanther:PTHR12812,hmmpanther:PTHR12812:SF3,Pfam_domain:PF03567"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"0fd68564-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232323232323232	"WGS"	FALSE
"8698"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	98279095	98279095	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"78"	13	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"0fd6bc46-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"8699"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	98411179	98411179	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"84"	13	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"0fd6cb5a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134020618556701	"WGS"	FALSE
"8700"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	103930263	103930263	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"70"	17	61	"61"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"0fd870b8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195402298850575	"WGS"	FALSE
"8701"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	105257849	105257849	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"81"	9	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"0fd8ab00-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"8702"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	111240138	111240138	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"79"	19	76	"76"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"0fd9c60c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193877551020408	"WGS"	FALSE
"8703"	"ARHGEF7"	8874	"mskcc.org"	"GRCh37"	"13"	111867001	111867001	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs575830387"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.532-3025A>G"	""	""	"ENST00000375741"	""	84	"68"	16	47	"47"	0	"ARHGEF7,intron_variant,,ENST00000375741,NM_145735.2,NM_001113511.1;ARHGEF7,intron_variant,,ENST00000375739,NM_001113512.1;ARHGEF7,intron_variant,,ENST00000218789,;ARHGEF7,intron_variant,,ENST00000375736,NM_003899.3;ARHGEF7,intron_variant,,ENST00000375723,;ARHGEF7,intron_variant,,ENST00000426073,NM_001113513.1;ARHGEF7,intron_variant,,ENST00000370623,;ARHGEF7,intron_variant,,ENST00000317133,;ARHGEF7,intron_variant,,ENST00000375737,;ARHGEF7,intron_variant,,ENST00000466143,;ARHGEF7,intron_variant,,ENST00000544132,;ARHGEF7,intron_variant,,ENST00000467053,;ARHGEF7,intron_variant,,ENST00000449979,;ARHGEF7,intron_variant,,ENST00000491775,;ARHGEF7,intron_variant,,ENST00000426768,;ARHGEF7,intron_variant,,ENST00000469877,;"	"G"	"ENSG00000102606"	"ENST00000375741"	"Transcript"	"intron_variant"	"-/5525"	"-/2412"	"-/803"	""	""	"rs575830387"	"1"	NA	1	"ARHGEF7"	"HGNC"	15607	"protein_coding"	"YES"	"CCDS45068.1"	"ENSP00000364893"	"Q14155"	"Q5ZEZ3,E7EUY6,C9JDI6,C9JAD7,B1ANY6"	"UPI00002132CC"	"NM_145735.2,NM_001113511.1"	""	""	""	"5/19"	""	"G:0.0002"	"G:0"	"G:0"	NA	"G:0.001"	"G:0"	"G:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"0fd9ef24-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"8704"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	112957954	112957954	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	50	"45"	5	15	"15"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"0fdb4d7e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"8705"	"TMEM255B"	348013	"mskcc.org"	"GRCh37"	"13"	114512641	114512641	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.814-2068C>T"	""	""	"ENST00000375353"	""	93	"84"	9	68	"68"	0	"TMEM255B,intron_variant,,ENST00000375353,NM_182614.2;TMEM255B,intron_variant,,ENST00000467169,;TMEM255B,downstream_gene_variant,,ENST00000498692,;"	"T"	"ENSG00000184497"	"ENST00000375353"	"Transcript"	"intron_variant"	"-/1031"	"-/981"	"-/326"	""	""	""	"1"	NA	1	"TMEM255B"	"HGNC"	28297	"protein_coding"	"YES"	"CCDS45071.1"	"ENSP00000364502"	"Q8WV15"	""	"UPI0000071C2C"	"NM_182614.2"	""	""	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"0fdd59e8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"8706"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	19246935	19246935	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"79"	8	29	"29"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"0fde2ae4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"8707"	"TRAV8-6"	0	"mskcc.org"	"GRCh37"	"14"	22449361	22449361	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390443"	""	115	"86"	29	45	"45"	0	"TRAV8-6,downstream_gene_variant,,ENST00000390443,;"	"T"	"ENSG00000211795"	"ENST00000390443"	"Transcript"	"downstream_gene_variant"	"-/561"	"-/341"	"-/113"	""	""	""	"1"	"2001"	1	"TRAV8-6"	"HGNC"	12151	"TR_V_gene"	"YES"	""	"ENSP00000450505"	""	""	"UPI000011C712"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"0fe1ddec-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252173913043478	"WGS"	FALSE
"8708"	"TRDV1"	0	"mskcc.org"	"GRCh37"	"14"	22560855	22560855	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390452"	""	90	"85"	5	36	"36"	0	"TRDV1,upstream_gene_variant,,ENST00000390452,;"	"T"	"ENSG00000211804"	"ENST00000390452"	"Transcript"	"upstream_gene_variant"	"-/365"	"-/347"	"-/115"	""	""	""	"1"	"3454"	1	"TRDV1"	"HGNC"	12262	"TR_V_gene"	"YES"	""	"ENSP00000452111"	""	"A0JD20"	"UPI0000113D27"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"0fe1e1c0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"8709"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	23330212	23330212	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"70"	9	61	"61"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"0fe212f8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113924050632911	"WGS"	FALSE
"8710"	"TM9SF1"	10548	"mskcc.org"	"GRCh37"	"14"	24670401	24670401	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.611-6159C>A"	""	""	"ENST00000530611"	""	70	"63"	7	40	"40"	0	"TM9SF1,intron_variant,,ENST00000530611,;TM9SF1,intron_variant,,ENST00000556387,;TSSK4,upstream_gene_variant,,ENST00000339917,NM_001184739.1,NM_174944.3;TSSK4,upstream_gene_variant,,ENST00000287913,;TSSK4,upstream_gene_variant,,ENST00000556621,;TSSK4,upstream_gene_variant,,ENST00000555092,;TSSK4,upstream_gene_variant,,ENST00000428351,;TSSK4,upstream_gene_variant,,ENST00000554420,;"	"T"	"ENSG00000254692"	"ENST00000530611"	"Transcript"	"intron_variant"	"-/2740"	"-/2448"	"-/815"	""	""	""	"1"	NA	-1	"TM9SF1"	"Uniprot_gn"	11864	"protein_coding"	"YES"	""	"ENSP00000433967"	""	"E9PSI1,G3V1B9,E9PS99,E9PQY7,E9PNW2,E9PL78,E9PJC4"	"UPI0001F77BE7"	""	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"0fe282c4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"8711"	"RP11-314P15.2"	0	"mskcc.org"	"GRCh37"	"14"	26472826	26472826	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.258+122537C>T"	""	""	"ENST00000546412"	""	109	"86"	23	53	"53"	0	"RP11-314P15.2,intron_variant,,ENST00000546412,;"	"A"	"ENSG00000257986"	"ENST00000546412"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/529"	""	""	""	""	""	"1"	NA	-1	"RP11-314P15.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"0fe2d530-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211009174311927	"WGS"	FALSE
"8712"	"RP11-314P15.2"	0	"mskcc.org"	"GRCh37"	"14"	26505745	26505745	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.258+89618A>T"	""	""	"ENST00000546412"	""	75	"70"	5	46	"46"	0	"RP11-314P15.2,intron_variant,,ENST00000546412,;"	"A"	"ENSG00000257986"	"ENST00000546412"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/529"	""	""	""	""	""	"1"	NA	-1	"RP11-314P15.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"0fe2d71a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"8713"	"CTD-3006G17.2"	728755	"mskcc.org"	"GRCh37"	"14"	28017240	28017240	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs181892507"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.262+108409C>T"	""	""	"ENST00000553392"	""	83	"66"	17	74	"74"	0	"CTD-3006G17.2,intron_variant,,ENST00000553392,;CTD-3006G17.2,intron_variant,,ENST00000556890,;CTD-3006G17.2,intron_variant,,ENST00000554904,;CTD-3006G17.2,intron_variant,,ENST00000555797,;"	"A"	"ENSG00000258932"	"ENST00000553392"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/674"	""	""	""	""	"rs181892507"	"1"	NA	-1	"CTD-3006G17.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	"A:0.0010"	"A:0"	"A:0"	NA	"A:0"	"A:0.001"	"A:0.0041"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"0fe30988-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204819277108434	"WGS"	FALSE
"8714"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	28345049	28345049	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs369976963"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"69"	16	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs369976963"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"0fe31dba-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188235294117647	"WGS"	FALSE
"8715"	"RP11-562L8.1"	0	"mskcc.org"	"GRCh37"	"14"	29787833	29787833	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.360+27818G>A"	""	""	"ENST00000551110"	""	99	"82"	17	52	"52"	0	"RP11-562L8.1,intron_variant,,ENST00000551110,;RP11-562L8.1,intron_variant,,ENST00000548306,;RP11-562L8.1,intron_variant,,ENST00000550975,;RP11-562L8.1,intron_variant,,ENST00000548665,;RP11-562L8.1,intron_variant,,ENST00000551040,;"	"T"	"ENSG00000257522"	"ENST00000551110"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/643"	""	""	""	""	""	"1"	NA	-1	"RP11-562L8.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"0fe34a88-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171717171717172	"WGS"	FALSE
"8716"	"PRKD1"	5587	"mskcc.org"	"GRCh37"	"14"	30049472	30049472	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2435-1906A>T"	""	""	"ENST00000331968"	""	99	"77"	22	63	"63"	0	"PRKD1,intron_variant,,ENST00000331968,NM_002742.2;PRKD1,intron_variant,,ENST00000415220,;"	"A"	"ENSG00000184304"	"ENST00000331968"	"Transcript"	"intron_variant"	"-/3726"	"-/2739"	"-/912"	""	""	""	"1"	NA	-1	"PRKD1"	"HGNC"	9407	"protein_coding"	"YES"	"CCDS9637.1"	"ENSP00000333568"	"Q15139"	"Q1KKQ2"	"UPI0000456761"	"NM_002742.2"	""	""	""	"16/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTC"	"0fe354ce-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"8717"	"NPAS3"	64067	"mskcc.org"	"GRCh37"	"14"	33759560	33759560	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.385+74928C>G"	""	""	"ENST00000356141"	""	90	"78"	12	48	"48"	0	"NPAS3,intron_variant,,ENST00000346562,NM_022123.2,NM_173159.2,NM_001164749.1,NM_001165893.1;NPAS3,intron_variant,,ENST00000548645,;NPAS3,intron_variant,,ENST00000551492,;NPAS3,intron_variant,,ENST00000356141,;NPAS3,intron_variant,,ENST00000357798,;NPAS3,intron_variant,,ENST00000551634,;NPAS3,intron_variant,,ENST00000547068,;NPAS3,intron_variant,,ENST00000551008,;NPAS3,intron_variant,,ENST00000341321,;NPAS3,intron_variant,,ENST00000546849,;NPAS3,intron_variant,,ENST00000549770,;"	"G"	"ENSG00000151322"	"ENST00000356141"	"Transcript"	"intron_variant"	"-/2802"	"-/2802"	"-/933"	""	""	""	"1"	NA	1	"NPAS3"	"HGNC"	19311	"protein_coding"	"YES"	"CCDS53891.1"	"ENSP00000348460"	"Q8IXF0"	""	"UPI00000743C2"	""	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"0fe414a4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"8718"	"NPAS3"	64067	"mskcc.org"	"GRCh37"	"14"	33806529	33806529	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.386-29863G>C"	""	""	"ENST00000356141"	""	107	"82"	25	58	"58"	0	"NPAS3,intron_variant,,ENST00000346562,NM_022123.2,NM_173159.2,NM_001164749.1,NM_001165893.1;NPAS3,intron_variant,,ENST00000548645,;NPAS3,intron_variant,,ENST00000551492,;NPAS3,intron_variant,,ENST00000356141,;NPAS3,intron_variant,,ENST00000357798,;NPAS3,intron_variant,,ENST00000551634,;NPAS3,intron_variant,,ENST00000547068,;NPAS3,intron_variant,,ENST00000551008,;NPAS3,intron_variant,,ENST00000341321,;NPAS3,intron_variant,,ENST00000546849,;NPAS3,intron_variant,,ENST00000549770,;"	"C"	"ENSG00000151322"	"ENST00000356141"	"Transcript"	"intron_variant"	"-/2802"	"-/2802"	"-/933"	""	""	""	"1"	NA	1	"NPAS3"	"HGNC"	19311	"protein_coding"	"YES"	"CCDS53891.1"	"ENSP00000348460"	"Q8IXF0"	""	"UPI00000743C2"	""	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"0fe416a2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233644859813084	"WGS"	FALSE
"8719"	"EGLN3"	112399	"mskcc.org"	"GRCh37"	"14"	34735534	34735534	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.60-96682G>A"	""	""	"ENST00000551935"	""	75	"61"	14	58	"58"	0	"EGLN3,intron_variant,,ENST00000551935,;"	"T"	"ENSG00000129521"	"ENST00000551935"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/575"	""	""	""	""	""	"1"	NA	-1	"EGLN3"	"HGNC"	14661	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"0fe437a4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186666666666667	"WGS"	FALSE
"8720"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	34940724	34940724	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs570340547"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"74"	8	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs570340547"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0006"	"A:0.0008"	"A:0.0014"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"0fe449ba-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WGS"	FALSE
"8721"	"BAZ1A"	11177	"mskcc.org"	"GRCh37"	"14"	35253792	35253792	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1832-659G>C"	""	""	"ENST00000360310"	""	57	"52"	5	32	"32"	0	"BAZ1A,intron_variant,,ENST00000360310,NM_013448.2;BAZ1A,intron_variant,,ENST00000358716,NM_182648.1;BAZ1A,intron_variant,,ENST00000382422,;BAZ1A,intron_variant,,ENST00000553385,;BAZ1A,intron_variant,,ENST00000555273,;BAZ1A,upstream_gene_variant,,ENST00000556314,;"	"G"	"ENSG00000198604"	"ENST00000360310"	"Transcript"	"intron_variant"	"-/6010"	"-/4671"	"-/1556"	""	""	""	"1"	NA	-1	"BAZ1A"	"HGNC"	960	"protein_coding"	"YES"	"CCDS9651.1"	"ENSP00000353458"	"Q9NRL2"	"D3DS96"	"UPI00001584D3"	"NM_013448.2"	""	""	""	"14/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"0fe47e6c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087719298245614	"WGS"	FALSE
"8722"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	35374466	35374466	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"56"	21	56	"55"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"0fe4908c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"8723"	"PSMA6"	5687	"mskcc.org"	"GRCh37"	"14"	35790712	35790712	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000261479"	""	88	"82"	6	46	"46"	0	"PSMA6,downstream_gene_variant,,ENST00000261479,NM_002791.1;PSMA6,downstream_gene_variant,,ENST00000555764,NM_001282233.1,NM_001282232.1;PSMA6,downstream_gene_variant,,ENST00000540871,NM_001282234.1;PSMA6,downstream_gene_variant,,ENST00000553809,;PSMA6,downstream_gene_variant,,ENST00000556506,;PSMA6,downstream_gene_variant,,ENST00000556221,;PSMA6,downstream_gene_variant,,ENST00000554457,;KIAA0391,downstream_gene_variant,,ENST00000557565,;PSMA6,downstream_gene_variant,,ENST00000554541,;PSMA6,downstream_gene_variant,,ENST00000554961,;"	"G"	"ENSG00000100902"	"ENST00000261479"	"Transcript"	"downstream_gene_variant"	"-/1029"	"-/741"	"-/246"	""	""	""	"1"	"4032"	1	"PSMA6"	"HGNC"	9535	"protein_coding"	"YES"	"CCDS9655.1"	"ENSP00000261479"	"P60900"	"Q9BZ93,B4DQR4"	"UPI0000001C1E"	"NM_002791.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"0fe4b2ce-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"8724"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	42014706	42014706	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"70"	16	64	"64"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"0fe59f0e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186046511627907	"WGS"	FALSE
"8725"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	42746412	42746412	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"78"	23	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"0fe5ba84-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227722772277228	"WGS"	FALSE
"8726"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	43370079	43370079	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	64	"55"	9	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"0fe5cc54-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.140625	"WGS"	FALSE
"8727"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	43684826	43684826	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"80"	21	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"0fe5d9ba-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207920792079208	"WGS"	FALSE
"8728"	"MDGA2"	161357	"mskcc.org"	"GRCh37"	"14"	47309459	47309459	"+"	"3'UTR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1675A>C"	""	""	"ENST00000426342"	"17/17"	112	"91"	21	56	"56"	0	"MDGA2,3_prime_UTR_variant,,ENST00000426342,NM_182830.4;MDGA2,3_prime_UTR_variant,,ENST00000399232,NM_001113498.2;MDGA2,downstream_gene_variant,,ENST00000439988,;MDGA2,downstream_gene_variant,,ENST00000357362,;MDGA2,downstream_gene_variant,,ENST00000399222,;"	"G"	"ENSG00000139915"	"ENST00000426342"	"Transcript"	"3_prime_UTR_variant"	"4606/5239"	"-/2184"	"-/727"	""	""	""	"1"	NA	-1	"MDGA2"	"HGNC"	19835	"protein_coding"	"YES"	"CCDS41948.1"	"ENSP00000405456"	"Q7Z553"	"F8WE89"	"UPI0000213DB6"	"NM_182830.4"	""	""	"17/17"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"0fe64e72-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"8729"	"MDGA2"	161357	"mskcc.org"	"GRCh37"	"14"	47988567	47988567	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.280+155153C>T"	""	""	"ENST00000439988"	""	89	"73"	16	69	"69"	0	"MDGA2,intron_variant,,ENST00000399232,NM_001113498.2;MDGA2,intron_variant,,ENST00000439988,;MDGA2,intron_variant,,ENST00000557238,;"	"A"	"ENSG00000272781"	"ENST00000439988"	"Transcript"	"intron_variant"	"-/3078"	"-/3078"	"-/1025"	""	""	""	"1"	NA	-1	"MDGA2"	"Uniprot_gn"	19835	"protein_coding"	"YES"	""	"ENSP00000400011"	"Q7Z553"	"F8WE89"	"UPI0001DD21C1"	""	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"0fe666c8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179775280898876	"WGS"	FALSE
"8730"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	48752355	48752355	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"66"	24	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"0fe681a8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"8731"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	49021429	49021429	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"69"	20	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"0fe68810-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224719101123595	"WGS"	FALSE
"8732"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	49021430	49021430	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"68"	22	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"0fe688b0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244444444444444	"WGS"	FALSE
"8733"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	49471514	49471514	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"75"	20	63	"63"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"0fe692ce-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"8734"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	50383014	50383014	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"80"	7	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"0fe6c3b6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"8735"	"ENSR00000651951"	0	"mskcc.org"	"GRCh37"	"14"	51895718	51895718	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000651951"	""	65	"56"	9	40	"40"	0	""	"C"	""	"ENSR00000651951"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"0fe72702-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138461538461538	"WGS"	FALSE
"8736"	"ENSR00001646730"	0	"mskcc.org"	"GRCh37"	"14"	53315153	53315153	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs192039615"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001646730"	""	101	"92"	9	43	"43"	0	""	"T"	""	"ENSR00001646730"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs192039615"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0004"	"T:0"	"T:0"	NA	"T:0.002"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"0fe76f0a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0891089108910891	"WGS"	FALSE
"8737"	"AL163953.3"	0	"mskcc.org"	"GRCh37"	"14"	54013108	54013108	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.503-140809G>A"	""	""	"ENST00000456100"	""	110	"87"	23	61	"61"	0	"AL163953.3,intron_variant,,ENST00000456100,;"	"A"	"ENSG00000237356"	"ENST00000456100"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/562"	""	""	""	""	""	"1"	NA	1	"AL163953.3"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"0fe7ae34-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209090909090909	"WGS"	FALSE
"8738"	"RP11-813I20.2"	0	"mskcc.org"	"GRCh37"	"14"	56221345	56221345	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.75+6345A>C"	""	""	"ENST00000554458"	""	106	"98"	8	51	"51"	0	"RP11-813I20.2,intron_variant,,ENST00000554458,;"	"C"	"ENSG00000258784"	"ENST00000554458"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/459"	""	""	""	""	""	"1"	NA	1	"RP11-813I20.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"0fe81658-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0754716981132075	"WGS"	FALSE
"8739"	"OTX2-AS1"	100309464	"mskcc.org"	"GRCh37"	"14"	57313032	57313032	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.287+32845A>T"	""	""	"ENST00000534909"	""	89	"70"	19	72	"72"	0	"RP11-1085N6.5,intron_variant,,ENST00000557467,;RP11-1085N6.5,intron_variant,,ENST00000554149,;OTX2-AS1,intron_variant,,ENST00000534909,;OTX2-AS1,intron_variant,,ENST00000554725,;OTX2-AS1,intron_variant,,ENST00000554358,;OTX2-AS1,intron_variant,,ENST00000554428,;"	"T"	"ENSG00000248550"	"ENST00000534909"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2428"	""	""	""	""	""	"1"	NA	1	"OTX2-AS1"	"HGNC"	43906	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"0fe84100-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213483146067416	"WGS"	FALSE
"8740"	"PCNXL4"	64430	"mskcc.org"	"GRCh37"	"14"	60571245	60571245	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-13-10173T>G"	""	""	"ENST00000317623"	""	101	"83"	18	53	"53"	0	"PCNXL4,intron_variant,,ENST00000406854,;PCNXL4,intron_variant,,ENST00000391611,;PCNXL4,intron_variant,,ENST00000317623,NM_022495.5;PCNXL4,intron_variant,,ENST00000406949,;PCNXL4,upstream_gene_variant,,ENST00000404681,;PCNXL4,intron_variant,,ENST00000556907,;PCNXL4,intron_variant,,ENST00000555569,;"	"G"	"ENSG00000126773"	"ENST00000317623"	"Transcript"	"intron_variant"	"-/3932"	"-/2817"	"-/938"	""	""	""	"1"	NA	1	"PCNXL4"	"HGNC"	20349	"protein_coding"	"YES"	""	"ENSP00000317396"	""	"B6ZDM2"	"UPI00014F7B83"	"NM_022495.5"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"0fe8b626-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178217821782178	"WGS"	FALSE
"8741"	"SNAPC1"	6617	"mskcc.org"	"GRCh37"	"14"	62251189	62251189	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.976+2074A>G"	""	""	"ENST00000216294"	""	105	"98"	7	69	"69"	0	"SNAPC1,intron_variant,,ENST00000216294,NM_003082.3;"	"G"	"ENSG00000023608"	"ENST00000216294"	"Transcript"	"intron_variant"	"-/2656"	"-/1107"	"-/368"	""	""	""	"1"	NA	1	"SNAPC1"	"HGNC"	11134	"protein_coding"	"YES"	"CCDS9755.1"	"ENSP00000216294"	"Q16533"	""	"UPI0000000DEB"	"NM_003082.3"	""	""	""	"8/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"0fe8fc08-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"8742"	"PPP2R5E"	5529	"mskcc.org"	"GRCh37"	"14"	63982755	63982755	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.157+23492C>T"	""	""	"ENST00000337537"	""	88	"81"	7	46	"46"	0	"PPP2R5E,intron_variant,,ENST00000337537,NM_006246.2,NM_001282179.1;PPP2R5E,intron_variant,,ENST00000555899,NM_001282180.1;PPP2R5E,intron_variant,,ENST00000553266,;PPP2R5E,intron_variant,,ENST00000556878,;"	"A"	"ENSG00000154001"	"ENST00000337537"	"Transcript"	"intron_variant"	"-/6659"	"-/1404"	"-/467"	""	""	""	"1"	NA	-1	"PPP2R5E"	"HGNC"	9313	"protein_coding"	"YES"	"CCDS9758.1"	"ENSP00000337641"	"Q16537"	"J3KQN6"	"UPI0000124E94"	"NM_006246.2,NM_001282179.1"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"0fe93772-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0795454545454545	"WGS"	FALSE
"8743"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	65656749	65656749	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs546915526"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"74"	26	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs546915526"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"0fe9b486-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26	"WGS"	FALSE
"8744"	"MED6"	10001	"mskcc.org"	"GRCh37"	"14"	71044274	71044274	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000554963"	""	99	"81"	18	46	"46"	0	"MED6,downstream_gene_variant,,ENST00000554963,;"	"G"	"ENSG00000133997"	"ENST00000554963"	"Transcript"	"downstream_gene_variant"	"-/975"	"-/750"	"-/249"	""	""	""	"1"	"3700"	-1	"MED6"	"HGNC"	19970	"protein_coding"	""	""	"ENSP00000451684"	""	"G3V4A5"	"UPI00001FD7AD"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"0feab840-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"8745"	"PSEN1"	5663	"mskcc.org"	"GRCh37"	"14"	73669262	73669262	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.869-3832G>C"	""	""	"ENST00000324501"	""	45	"40"	5	40	"40"	0	"PSEN1,intron_variant,,ENST00000324501,NM_000021.3,NM_007318.2;PSEN1,intron_variant,,ENST00000406768,;PSEN1,intron_variant,,ENST00000394164,;PSEN1,intron_variant,,ENST00000344094,;PSEN1,intron_variant,,ENST00000357710,;PSEN1,intron_variant,,ENST00000261970,;PSEN1,intron_variant,,ENST00000557511,;PSEN1,intron_variant,,ENST00000555386,;PSEN1,intron_variant,,ENST00000553855,;PSEN1,intron_variant,,ENST00000554995,;PSEN1,upstream_gene_variant,,ENST00000555867,;"	"C"	"ENSG00000080815"	"ENST00000324501"	"Transcript"	"intron_variant"	"-/6078"	"-/1404"	"-/467"	""	""	""	"1"	NA	1	"PSEN1"	"HGNC"	9508	"protein_coding"	"YES"	"CCDS9812.1"	"ENSP00000326366"	"P49768"	"G3V4P4,G3V4M0,G3V2G7,E7ES96"	"UPI000003F05F"	"NM_000021.3,NM_007318.2"	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"0feb1718-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"8746"	"NRXN3"	9369	"mskcc.org"	"GRCh37"	"14"	79300068	79300068	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1156+23381C>A"	""	""	"ENST00000554719"	""	85	"69"	16	62	"62"	0	"NRXN3,intron_variant,,ENST00000554719,NM_004796.5;NRXN3,intron_variant,,ENST00000335750,;NRXN3,intron_variant,,ENST00000554738,;NRXN3,intron_variant,,ENST00000556496,;"	"A"	"ENSG00000021645"	"ENST00000554719"	"Transcript"	"intron_variant"	"-/4156"	"-/3186"	"-/1061"	""	""	""	"1"	NA	1	"NRXN3"	"HGNC"	8010	"protein_coding"	"YES"	"CCDS9870.1"	"ENSP00000451648"	"Q9Y4C0"	"G3V4R9,G3V247"	"UPI0000167BBA"	"NM_004796.5"	""	""	""	"7/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"0fec7dba-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188235294117647	"WGS"	FALSE
"8747"	"TSHR"	7253	"mskcc.org"	"GRCh37"	"14"	81601265	81601265	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs756765127"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.693-4758C>T"	""	""	"ENST00000298171"	""	89	"73"	16	48	"48"	0	"TSHR,intron_variant,,ENST00000541158,;TSHR,intron_variant,,ENST00000298171,NM_000369.2;RP11-114N19.3,intron_variant,,ENST00000557775,;"	"T"	"ENSG00000165409"	"ENST00000298171"	"Transcript"	"intron_variant"	"-/4400"	"-/2295"	"-/764"	""	""	"rs756765127"	"1"	NA	1	"TSHR"	"HGNC"	12373	"protein_coding"	""	"CCDS9872.1"	"ENSP00000298171"	""	"Q0VAP8,F5GYU5"	"UPI000013E4A2"	"NM_000369.2"	""	""	""	"8/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"0fecca72-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179775280898876	"WGS"	TRUE
"8748"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	81926328	81926328	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"76"	8	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"0fecddb4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"8749"	"ENSR00000421912"	0	"mskcc.org"	"GRCh37"	"14"	85746935	85746935	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000421912"	""	86	"68"	18	62	"62"	0	""	"T"	""	"ENSR00000421912"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"0fed885e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209302325581395	"WGS"	FALSE
"8750"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	87210728	87210728	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"69"	22	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"0fedc030-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241758241758242	"WGS"	FALSE
"8751"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	87221868	87221868	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"75"	13	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"0fedc0da-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147727272727273	"WGS"	FALSE
"8752"	"KCNK10"	54207	"mskcc.org"	"GRCh37"	"14"	88753168	88753168	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.53-23273C>A"	""	""	"ENST00000319231"	""	88	"66"	22	57	"57"	0	"KCNK10,intron_variant,,ENST00000340700,NM_021161.4;KCNK10,intron_variant,,ENST00000319231,NM_138317.2;KCNK10,intron_variant,,ENST00000556282,;"	"T"	"ENSG00000100433"	"ENST00000319231"	"Transcript"	"intron_variant"	"-/2725"	"-/1632"	"-/543"	""	""	""	"1"	NA	-1	"KCNK10"	"HGNC"	6273	"protein_coding"	"YES"	"CCDS9881.1"	"ENSP00000312811"	"P57789"	""	"UPI000002A697"	"NM_138317.2"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"0fede4a2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"8753"	"LGMN"	5641	"mskcc.org"	"GRCh37"	"14"	93194923	93194923	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.138+4071C>G"	""	""	"ENST00000393218"	""	99	"86"	13	45	"45"	0	"LGMN,intron_variant,,ENST00000393218,NM_001008530.2;LGMN,intron_variant,,ENST00000334869,NM_005606.6;LGMN,intron_variant,,ENST00000557434,;LGMN,intron_variant,,ENST00000555699,;LGMN,intron_variant,,ENST00000554080,;LGMN,intron_variant,,ENST00000553802,;LGMN,intron_variant,,ENST00000554919,;LGMN,intron_variant,,ENST00000554397,;LGMN,intron_variant,,ENST00000553371,;LGMN,downstream_gene_variant,,ENST00000553918,;LGMN,intron_variant,,ENST00000557609,;LGMN,intron_variant,,ENST00000556097,;LGMN,intron_variant,,ENST00000557694,;LGMN,intron_variant,,ENST00000554189,;LGMN,downstream_gene_variant,,ENST00000557315,;"	"C"	"ENSG00000100600"	"ENST00000393218"	"Transcript"	"intron_variant"	"-/2115"	"-/1302"	"-/433"	""	""	""	"1"	NA	-1	"LGMN"	"HGNC"	9472	"protein_coding"	"YES"	"CCDS9904.1"	"ENSP00000376911"	"Q99538"	"Q96CY7,Q53XC6,G3V5B2,G3V4P5,G3V4H2"	"UPI000000CC65"	"NM_001008530.2"	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"0feedaec-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131313131313131	"WGS"	FALSE
"8754"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	95952059	95952059	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"77"	15	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"0fef89d8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16304347826087	"WGS"	FALSE
"8755"	"RN7SL710P"	0	"mskcc.org"	"GRCh37"	"14"	97994022	97994022	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000495675"	""	92	"72"	20	64	"64"	0	"CTD-2506J14.1,intron_variant,,ENST00000554862,;RN7SL710P,downstream_gene_variant,,ENST00000495675,;"	"G"	"ENSG00000240730"	"ENST00000495675"	"Transcript"	"downstream_gene_variant"	"-/283"	""	""	""	""	""	"1"	"2206"	-1	"RN7SL710P"	"HGNC"	46726	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"0fefd780-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"8756"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	101973647	101973647	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"70"	16	69	"69"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"0ff0dedc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186046511627907	"WGS"	FALSE
"8757"	"TRAF3"	7187	"mskcc.org"	"GRCh37"	"14"	103377735	103377735	"+"	"3'UTR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*5614G>A"	""	""	"ENST00000560371"	"11/11"	102	"81"	21	60	"60"	0	"TRAF3,3_prime_UTR_variant,,ENST00000560371,NM_145725.2,NM_003300.3;"	"A"	"ENSG00000131323"	"ENST00000560371"	"Transcript"	"3_prime_UTR_variant"	"7538/7640"	"-/1707"	"-/568"	""	""	""	"1"	NA	1	"TRAF3"	"HGNC"	12033	"protein_coding"	"YES"	"CCDS9975.1"	"ENSP00000454207"	"Q13114"	"H0YMI8"	"UPI000000CBF9"	"NM_145725.2,NM_003300.3"	""	""	"11/11"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"0ff16a8c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205882352941176	"WGS"	FALSE
"8760"	"TMEM121"	80757	"mskcc.org"	"GRCh37"	"14"	106000488	106000488	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000392519"	""	101	"88"	13	60	"60"	0	"TMEM121,downstream_gene_variant,,ENST00000392519,NM_025268.2;TMEM121,downstream_gene_variant,,ENST00000431372,;ATP5G1P1,downstream_gene_variant,,ENST00000448724,;"	"T"	"ENSG00000184986"	"ENST00000392519"	"Transcript"	"downstream_gene_variant"	"-/1532"	"-/960"	"-/319"	""	""	""	"1"	"3949"	1	"TMEM121"	"HGNC"	20511	"protein_coding"	"YES"	"CCDS10006.1"	"ENSP00000376304"	"Q9BTD3"	""	"UPI0000073639"	"NM_025268.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"0ff32408-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128712871287129	"WGS"	FALSE
"8761"	"IGHJ6"	0	"mskcc.org"	"GRCh37"	"14"	106334413	106334413	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390560"	""	94	"81"	13	66	"66"	0	"IGHJ6,upstream_gene_variant,,ENST00000390560,;IGHJ2,upstream_gene_variant,,ENST00000390564,;IGHJ1,upstream_gene_variant,,ENST00000390565,;IGHJ3,upstream_gene_variant,,ENST00000463911,;IGHJ5,upstream_gene_variant,,ENST00000488476,;IGHJ4,upstream_gene_variant,,ENST00000461719,;IGHD7-27,upstream_gene_variant,,ENST00000439842,;IGHJ2P,upstream_gene_variant,,ENST00000454480,;IGHJ1P,upstream_gene_variant,,ENST00000450690,;IGHJ3P,upstream_gene_variant,,ENST00000436826,;"	"A"	"ENSG00000211900"	"ENST00000390560"	"Transcript"	"upstream_gene_variant"	"-/61"	"-/61"	"-/20"	""	""	""	"1"	"4945"	-1	"IGHJ6"	"HGNC"	5540	"IG_J_gene"	"YES"	""	"ENSP00000419223"	""	""	"UPI000173A6A4"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"0ff44dc4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138297872340426	"WGS"	FALSE
"8762"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	21886178	21886178	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"70"	8	37	"37"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"0ff6b320-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"8763"	"DKFZP547L112"	0	"mskcc.org"	"GRCh37"	"15"	22015100	22015100	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000594169"	""	106	"88"	18	64	"64"	0	"DKFZP547L112,downstream_gene_variant,,ENST00000594169,;CXADRP2,downstream_gene_variant,,ENST00000556905,;"	"T"	"ENSG00000268531"	"ENST00000594169"	"Transcript"	"downstream_gene_variant"	"-/681"	"-/681"	"-/226"	""	""	""	"1"	"3050"	1	"DKFZP547L112"	"Uniprot_gn"	NA	"protein_coding"	"YES"	""	"ENSP00000472922"	""	"Q9H052"	"UPI000006D89B"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"0ff6dfb2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.169811320754717	"WGS"	FALSE
"8764"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	22825461	22825461	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"rs28629373"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"7"	3	6	"6"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs28629373"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0629"	"A:0.1369"	"A:0.0346"	NA	"A:0.0476"	"A:0.004"	"A:0.0593"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"0ff77396-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"8765"	"PWRN1"	791114	"mskcc.org"	"GRCh37"	"15"	24831576	24831576	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1231-1138A>T"	""	""	"ENST00000568609"	""	107	"80"	27	56	"56"	0	"PWRN1,intron_variant,,ENST00000568609,;PWRN1,intron_variant,,ENST00000568045,;PWRN1,intron_variant,,ENST00000562501,;PWRN1,intron_variant,,ENST00000564898,;PWRN1,upstream_gene_variant,,ENST00000568019,;"	"T"	"ENSG00000259905"	"ENST00000568609"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1443"	""	""	""	""	""	"1"	NA	1	"PWRN1"	"HGNC"	33235	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"0ff89f14-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252336448598131	"WGS"	FALSE
"8766"	"SNORD116-20"	727708	"mskcc.org"	"GRCh37"	"15"	25332228	25332228	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000567527"	""	131	"104"	27	64	"64"	0	"SNORD116-20,upstream_gene_variant,,ENST00000567527,;SNORD116-17,downstream_gene_variant,,ENST00000383929,NR_003332.1;SNORD116-18,downstream_gene_variant,,ENST00000383961,NR_003333.2;SNHG14,upstream_gene_variant,,ENST00000384430,NR_003336.2;SNORD116-20,upstream_gene_variant,,ENST00000384507,NR_003335.2;SNORD116-20,upstream_gene_variant,,ENST00000384529,NR_003334.2;SNORD116-16,downstream_gene_variant,,ENST00000384533,NR_003331.2;SNORD116-23,upstream_gene_variant,,ENST00000384645,NR_003337.2;SNORD116-19,downstream_gene_variant,,ENST00000384729,NR_001290.2;SNHG14,intron_variant,,ENST00000546682,;SNHG14,intron_variant,,ENST00000549804,;SNHG14,intron_variant,,ENST00000553108,;SNHG14,downstream_gene_variant,,ENST00000383025,;"	"C"	"ENSG00000261069"	"ENST00000567527"	"Transcript"	"upstream_gene_variant"	"-/1236"	""	""	""	""	""	"1"	"580"	1	"SNORD116-20"	"HGNC"	33086	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"0ff8b4a4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206106870229008	"WGS"	FALSE
"8767"	"GABRG3"	2567	"mskcc.org"	"GRCh37"	"15"	27530235	27530235	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.271-41721G>C"	""	""	"ENST00000333743"	""	118	"96"	22	55	"55"	0	"GABRG3,intron_variant,,ENST00000333743,NM_033223.4;GABRG3,intron_variant,,ENST00000555083,NM_001270873.1;GABRG3,intron_variant,,ENST00000554696,;RNA5SP391,upstream_gene_variant,,ENST00000363456,;GABRG3,intron_variant,,ENST00000554786,;"	"C"	"ENSG00000182256"	"ENST00000333743"	"Transcript"	"intron_variant"	"-/2004"	"-/1404"	"-/467"	""	""	""	"1"	NA	1	"GABRG3"	"HGNC"	4088	"protein_coding"	"YES"	"CCDS45195.1"	"ENSP00000331912"	"Q99928"	""	"UPI000012AFCB"	"NM_033223.4"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"0ff910de-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186440677966102	"WGS"	FALSE
"8768"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	27918775	27918775	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"rs367564486"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"68"	14	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs367564486"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"0ff929c0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170731707317073	"WGS"	FALSE
"8769"	"HERC2"	8924	"mskcc.org"	"GRCh37"	"15"	28370861	28370861	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.12803-522G>A"	""	""	"ENST00000261609"	""	112	"99"	13	69	"69"	0	"HERC2,intron_variant,,ENST00000261609,NM_004667.5;"	"T"	"ENSG00000128731"	"ENST00000261609"	"Transcript"	"intron_variant"	"-/15337"	"-/14505"	"-/4834"	""	""	""	"1"	NA	-1	"HERC2"	"HGNC"	4868	"protein_coding"	"YES"	"CCDS10021.1"	"ENSP00000261609"	"O95714"	""	"UPI00004578F7"	"NM_004667.5"	""	""	""	"83/92"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"0ff946e4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116071428571429	"WGS"	FALSE
"8770"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	29927194	29927194	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"79"	11	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"0ffa0912-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122222222222222	"WGS"	FALSE
"8771"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	29959823	29959823	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	65	"58"	7	31	"31"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"0ffa0ba6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107692307692308	"WGS"	FALSE
"8772"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	31479514	31479514	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"74"	16	44	"44"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"0ffac618-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177777777777778	"WGS"	FALSE
"8773"	"FMN1"	342184	"mskcc.org"	"GRCh37"	"15"	33227332	33227332	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2470-8870T>G"	""	""	"ENST00000334528"	""	84	"74"	10	52	"52"	0	"FMN1,intron_variant,,ENST00000334528,NM_001103184.3;FMN1,intron_variant,,ENST00000559047,NM_001277313.1;FMN1,intron_variant,,ENST00000561249,;"	"C"	"ENSG00000248905"	"ENST00000334528"	"Transcript"	"intron_variant"	"-/12355"	"-/3591"	"-/1196"	""	""	""	"1"	NA	-1	"FMN1"	"HGNC"	3768	"protein_coding"	"YES"	"CCDS45209.1"	"ENSP00000333950"	"Q68DA7"	""	"UPI00004086C3"	"NM_001103184.3"	""	""	""	"5/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"0ffb3ba2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"8774"	"BUB1B"	701	"mskcc.org"	"GRCh37"	"15"	40472961	40472961	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.582-2954C>T"	""	""	"ENST00000287598"	""	70	"63"	7	45	"45"	0	"BUB1B,intron_variant,,ENST00000287598,NM_001211.5;BUB1B,intron_variant,,ENST00000412359,;BUB1B,downstream_gene_variant,,ENST00000560120,;BUB1B,downstream_gene_variant,,ENST00000559414,;BUB1B,upstream_gene_variant,,ENST00000559733,;BUB1B,upstream_gene_variant,,ENST00000557848,;BUB1B,upstream_gene_variant,,ENST00000559772,;BUB1B,upstream_gene_variant,,ENST00000559461,;"	"T"	"ENSG00000156970"	"ENST00000287598"	"Transcript"	"intron_variant"	"-/3725"	"-/3153"	"-/1050"	""	""	""	"1"	NA	1	"BUB1B"	"HGNC"	1149	"protein_coding"	"YES"	"CCDS10053.1"	"ENSP00000287598"	"O60566"	""	"UPI000006E699"	"NM_001211.5"	""	""	""	"5/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"0ffc6bee-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	TRUE
"8775"	"NDUFAF1"	51103	"mskcc.org"	"GRCh37"	"15"	41687649	41687649	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.574-407C>G"	""	""	"ENST00000260361"	""	71	"64"	7	40	"40"	0	"NDUFAF1,intron_variant,,ENST00000260361,NM_016013.3;NDUFAF1,intron_variant,,ENST00000560978,;NDUFAF1,downstream_gene_variant,,ENST00000558719,;NDUFAF1,intron_variant,,ENST00000559127,;"	"C"	"ENSG00000137806"	"ENST00000260361"	"Transcript"	"intron_variant"	"-/1457"	"-/984"	"-/327"	""	""	""	"1"	NA	-1	"NDUFAF1"	"HGNC"	18828	"protein_coding"	"YES"	"CCDS10075.1"	"ENSP00000260361"	"Q9Y375"	"H0YNN4,H0YNB7"	"UPI0000127985"	"NM_016013.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"0ffcceea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0985915492957746	"WGS"	FALSE
"8776"	"FRMD5"	84978	"mskcc.org"	"GRCh37"	"15"	44336007	44336007	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103-119500T>C"	""	""	"ENST00000417257"	""	100	"93"	7	62	"62"	0	"FRMD5,intron_variant,,ENST00000417257,NM_032892.3;FRMD5,intron_variant,,ENST00000402883,;FRMD5,intron_variant,,ENST00000484674,;FRMD5,intron_variant,,ENST00000421674,;FRMD5,intron_variant,,ENST00000458630,;FRMD5,intron_variant,,ENST00000451277,;"	"G"	"ENSG00000171877"	"ENST00000417257"	"Transcript"	"intron_variant"	"-/5011"	"-/1713"	"-/570"	""	""	""	"1"	NA	-1	"FRMD5"	"HGNC"	28214	"protein_coding"	"YES"	"CCDS10107.2"	"ENSP00000403067"	"Q7Z6J6"	"A8K1U8"	"UPI00001A9475"	"NM_032892.3"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"0ffd8074-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.07	"WGS"	FALSE
"8777"	"FRMD5"	84978	"mskcc.org"	"GRCh37"	"15"	44336017	44336017	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103-119510T>C"	""	""	"ENST00000417257"	""	96	"89"	7	62	"62"	0	"FRMD5,intron_variant,,ENST00000417257,NM_032892.3;FRMD5,intron_variant,,ENST00000402883,;FRMD5,intron_variant,,ENST00000484674,;FRMD5,intron_variant,,ENST00000421674,;FRMD5,intron_variant,,ENST00000458630,;FRMD5,intron_variant,,ENST00000451277,;"	"G"	"ENSG00000171877"	"ENST00000417257"	"Transcript"	"intron_variant"	"-/5011"	"-/1713"	"-/570"	""	""	""	"1"	NA	-1	"FRMD5"	"HGNC"	28214	"protein_coding"	"YES"	"CCDS10107.2"	"ENSP00000403067"	"Q7Z6J6"	"A8K1U8"	"UPI00001A9475"	"NM_032892.3"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"0ffd8114-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0729166666666667	"WGS"	FALSE
"8778"	"FRMD5"	84978	"mskcc.org"	"GRCh37"	"15"	44336020	44336020	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103-119513G>A"	""	""	"ENST00000417257"	""	95	"88"	7	61	"61"	0	"FRMD5,intron_variant,,ENST00000417257,NM_032892.3;FRMD5,intron_variant,,ENST00000402883,;FRMD5,intron_variant,,ENST00000484674,;FRMD5,intron_variant,,ENST00000421674,;FRMD5,intron_variant,,ENST00000458630,;FRMD5,intron_variant,,ENST00000451277,;"	"T"	"ENSG00000171877"	"ENST00000417257"	"Transcript"	"intron_variant"	"-/5011"	"-/1713"	"-/570"	""	""	""	"1"	NA	-1	"FRMD5"	"HGNC"	28214	"protein_coding"	"YES"	"CCDS10107.2"	"ENSP00000403067"	"Q7Z6J6"	"A8K1U8"	"UPI00001A9475"	"NM_032892.3"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"0ffd81be-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"8779"	"RP11-208K4.1"	0	"mskcc.org"	"GRCh37"	"15"	48243575	48243575	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.196-41331G>C"	""	""	"ENST00000560900"	""	97	"75"	22	63	"63"	0	"RP11-208K4.1,intron_variant,,ENST00000560900,;CTD-2007H18.1,downstream_gene_variant,,ENST00000558370,;"	"C"	"ENSG00000259754"	"ENST00000560900"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/581"	""	""	""	""	""	"1"	NA	1	"RP11-208K4.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"0ffe3514-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22680412371134	"WGS"	FALSE
"8780"	"GALK2"	2585	"mskcc.org"	"GRCh37"	"15"	49569811	49569811	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.505-4373A>G"	""	""	"ENST00000560031"	""	54	"48"	6	29	"29"	0	"GALK2,intron_variant,,ENST00000327171,NM_001001556.1;GALK2,intron_variant,,ENST00000543495,;GALK2,intron_variant,,ENST00000560031,;GALK2,intron_variant,,ENST00000544523,;GALK2,intron_variant,,ENST00000396509,NM_002044.2;GALK2,intron_variant,,ENST00000559454,;GALK2,intron_variant,,ENST00000560138,;GALK2,intron_variant,,ENST00000561014,;GALK2,intron_variant,,ENST00000560119,;GALK2,intron_variant,,ENST00000559883,;GALK2,intron_variant,,ENST00000559423,;GALK2,intron_variant,,ENST00000559208,;"	"G"	"ENSG00000156958"	"ENST00000560031"	"Transcript"	"intron_variant"	"-/2043"	"-/1377"	"-/458"	""	""	""	"1"	NA	1	"GALK2"	"HGNC"	4119	"protein_coding"	"YES"	"CCDS42034.1"	"ENSP00000453129"	"Q01415"	"H0YNR7,H0YND3,B7ZAX5"	"UPI000012B06E"	""	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"0ffe5a44-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"8781"	"SPPL2A"	84888	"mskcc.org"	"GRCh37"	"15"	51054352	51054352	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.66+3313C>G"	""	""	"ENST00000261854"	""	51	"47"	4	38	"38"	0	"SPPL2A,intron_variant,,ENST00000261854,NM_032802.3;SPPL2A,intron_variant,,ENST00000558414,;SPPL2A,intron_variant,,ENST00000560288,;"	"C"	"ENSG00000138600"	"ENST00000261854"	"Transcript"	"intron_variant"	"-/2329"	"-/1563"	"-/520"	""	""	""	"1"	NA	-1	"SPPL2A"	"HGNC"	30227	"protein_coding"	"YES"	"CCDS10138.1"	"ENSP00000261854"	"Q8TCT8"	"H0YNA7"	"UPI0000013591"	"NM_032802.3"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"0ffeaa44-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0784313725490196	"WGS"	FALSE
"8782"	"DYX1C1"	161582	"mskcc.org"	"GRCh37"	"15"	55793677	55793677	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-255-2895G>C"	""	""	"ENST00000321149"	""	73	"67"	6	39	"39"	0	"DYX1C1,intron_variant,,ENST00000321149,NM_130810.3;DYX1C1,intron_variant,,ENST00000348518,NM_001033559.2;DYX1C1,intron_variant,,ENST00000380679,NM_001033560.1;DYX1C1,upstream_gene_variant,,ENST00000457155,;DYX1C1,upstream_gene_variant,,ENST00000448430,;DYX1C1-CCPG1,upstream_gene_variant,,ENST00000565113,;DYX1C1-CCPG1,upstream_gene_variant,,ENST00000568310,;DYX1C1,upstream_gene_variant,,ENST00000524160,;DYX1C1,upstream_gene_variant,,ENST00000522437,;DYX1C1,upstream_gene_variant,,ENST00000519017,;"	"G"	"ENSG00000256061"	"ENST00000321149"	"Transcript"	"intron_variant"	"-/1993"	"-/1263"	"-/420"	""	""	""	"1"	NA	-1	"DYX1C1"	"HGNC"	21493	"protein_coding"	"YES"	"CCDS10154.1"	"ENSP00000323275"	"Q8WXU2"	""	"UPI000013E5B8"	"NM_130810.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"0fff8a5e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"8783"	"RORA"	6095	"mskcc.org"	"GRCh37"	"15"	60880281	60880281	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.138-29776A>T"	""	""	"ENST00000261523"	""	118	"96"	22	51	"51"	0	"RORA,intron_variant,,ENST00000335670,NM_134261.2;RORA,intron_variant,,ENST00000261523,NM_134260.2;RORA,intron_variant,,ENST00000309157,NM_002943.3;RORA,intron_variant,,ENST00000449337,NM_134262.2;RORA,intron_variant,,ENST00000559343,;RP11-219B17.1,intron_variant,,ENST00000559824,;RP11-219B17.1,intron_variant,,ENST00000558235,;RORA,intron_variant,,ENST00000560004,;RORA,intron_variant,,ENST00000558234,;RORA,intron_variant,,ENST00000551975,;RORA,intron_variant,,ENST00000557822,;"	"A"	"ENSG00000069667"	"ENST00000261523"	"Transcript"	"intron_variant"	"-/1951"	"-/1671"	"-/556"	""	""	""	"1"	NA	-1	"RORA"	"HGNC"	10258	"protein_coding"	"YES"	"CCDS10179.1"	"ENSP00000261523"	"P35398"	""	"UPI0000134548"	"NM_134260.2"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"100081fc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186440677966102	"WGS"	FALSE
"8784"	"CLPX"	10845	"mskcc.org"	"GRCh37"	"15"	65473378	65473378	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.80-836T>C"	""	""	"ENST00000300107"	""	83	"74"	9	50	"50"	0	"CLPX,intron_variant,,ENST00000300107,NM_006660.3;CLPX,intron_variant,,ENST00000559218,;CLPX,intron_variant,,ENST00000559152,;CLPX,intron_variant,,ENST00000558958,;"	"G"	"ENSG00000166855"	"ENST00000300107"	"Transcript"	"intron_variant"	"-/4695"	"-/1902"	"-/633"	""	""	""	"1"	NA	-1	"CLPX"	"HGNC"	2088	"protein_coding"	"YES"	"CCDS10202.1"	"ENSP00000300107"	"O76031"	"H0YK07"	"UPI0000127B73"	"NM_006660.3"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"100162a2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108433734939759	"WGS"	FALSE
"8785"	"IQCH"	64799	"mskcc.org"	"GRCh37"	"15"	67629680	67629680	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.508+247G>A"	""	""	"ENST00000335894"	""	99	"75"	24	70	"70"	0	"IQCH,intron_variant,,ENST00000335894,NM_001031715.2;IQCH,intron_variant,,ENST00000546225,NM_001284347.1;IQCH,intron_variant,,ENST00000358767,;IQCH,intron_variant,,ENST00000514049,;IQCH,intron_variant,,ENST00000559568,NM_001284349.1;IQCH,intron_variant,,ENST00000535744,;IQCH,intron_variant,,ENST00000561339,;"	"A"	"ENSG00000103599"	"ENST00000335894"	"Transcript"	"intron_variant"	"-/4208"	"-/3084"	"-/1027"	""	""	""	"1"	NA	1	"IQCH"	"HGNC"	25721	"protein_coding"	"YES"	"CCDS32273.1"	"ENSP00000336861"	"Q86VS3"	"H3BRL4"	"UPI000013CCE9"	"NM_001031715.2"	""	""	""	"5/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"1001ce5e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242424242424242	"WGS"	FALSE
"8786"	"PAQR5"	54852	"mskcc.org"	"GRCh37"	"15"	69657508	69657508	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.51+5038C>A"	""	""	"ENST00000340965"	""	81	"75"	6	45	"45"	0	"PAQR5,intron_variant,,ENST00000340965,NM_001104554.1;PAQR5,intron_variant,,ENST00000395407,NM_017705.3;PAQR5,intron_variant,,ENST00000561153,;PAQR5,intron_variant,,ENST00000558684,;RNA5SP398,upstream_gene_variant,,ENST00000517163,;PAQR5,intron_variant,,ENST00000561027,;PAQR5,intron_variant,,ENST00000561250,;"	"A"	"ENSG00000137819"	"ENST00000340965"	"Transcript"	"intron_variant"	"-/5480"	"-/993"	"-/330"	""	""	""	"1"	NA	1	"PAQR5"	"HGNC"	29645	"protein_coding"	"YES"	"CCDS10232.1"	"ENSP00000343877"	"Q9NXK6"	"H0YL06"	"UPI000013D0D0"	"NM_001104554.1"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"10023d62-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"8787"	"CTD-2323K18.1"	0	"mskcc.org"	"GRCh37"	"15"	75877237	75877237	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.706+13383A>G"	""	""	"ENST00000568707"	""	108	"99"	9	64	"64"	0	"CTD-2323K18.1,intron_variant,,ENST00000568707,;CTD-2323K18.1,intron_variant,,ENST00000565138,;CTD-2323K18.1,intron_variant,,ENST00000567875,;CTD-2323K18.1,intron_variant,,ENST00000566032,;"	"C"	"ENSG00000260269"	"ENST00000568707"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/789"	""	""	""	""	""	"1"	NA	-1	"CTD-2323K18.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"1003cc2c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"8788"	"SCAPER"	49855	"mskcc.org"	"GRCh37"	"15"	76726352	76726352	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3311+67T>G"	""	""	"ENST00000563290"	""	96	"80"	16	60	"60"	0	"SCAPER,intron_variant,,ENST00000538941,NM_001145923.1;SCAPER,intron_variant,,ENST00000563290,;SCAPER,intron_variant,,ENST00000324767,NM_020843.2;SCAPER,downstream_gene_variant,,ENST00000568428,;SCAPER,downstream_gene_variant,,ENST00000569395,;SCAPER,intron_variant,,ENST00000303521,;SCAPER,downstream_gene_variant,,ENST00000564757,;"	"C"	"ENSG00000140386"	"ENST00000563290"	"Transcript"	"intron_variant"	"-/4747"	"-/4203"	"-/1400"	""	""	""	"1"	NA	-1	"SCAPER"	"HGNC"	13081	"protein_coding"	"YES"	"CCDS53962.1"	"ENSP00000454973"	"Q9BY12"	"H3BTY2,H3BR40,H3BPB0"	"UPI0000E59CC3"	""	""	""	""	"26/31"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"1004080e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"8789"	"SCAPER"	49855	"mskcc.org"	"GRCh37"	"15"	76826294	76826294	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2839-28979A>G"	""	""	"ENST00000563290"	""	81	"52"	29	68	"68"	0	"SCAPER,intron_variant,,ENST00000538941,NM_001145923.1;SCAPER,intron_variant,,ENST00000563290,;SCAPER,intron_variant,,ENST00000324767,NM_020843.2;SCAPER,intron_variant,,ENST00000568428,;SCAPER,intron_variant,,ENST00000569784,;SCAPER,intron_variant,,ENST00000303521,;SCAPER,intron_variant,,ENST00000564757,;SCAPER,intron_variant,,ENST00000563688,;"	"C"	"ENSG00000140386"	"ENST00000563290"	"Transcript"	"intron_variant"	"-/4747"	"-/4203"	"-/1400"	""	""	""	"1"	NA	-1	"SCAPER"	"HGNC"	13081	"protein_coding"	"YES"	"CCDS53962.1"	"ENSP00000454973"	"Q9BY12"	"H3BTY2,H3BR40,H3BPB0"	"UPI0000E59CC3"	""	""	""	""	"23/31"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"10040d0e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358024691358025	"WGS"	FALSE
"8790"	"SCAPER"	49855	"mskcc.org"	"GRCh37"	"15"	76944551	76944551	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2645+13443C>T"	""	""	"ENST00000563290"	""	63	"57"	6	38	"38"	0	"SCAPER,intron_variant,,ENST00000538941,NM_001145923.1;SCAPER,intron_variant,,ENST00000563290,;SCAPER,intron_variant,,ENST00000324767,NM_020843.2;SCAPER,intron_variant,,ENST00000303521,;SCAPER,intron_variant,,ENST00000564757,;"	"A"	"ENSG00000140386"	"ENST00000563290"	"Transcript"	"intron_variant"	"-/4747"	"-/4203"	"-/1400"	""	""	""	"1"	NA	-1	"SCAPER"	"HGNC"	13081	"protein_coding"	"YES"	"CCDS53962.1"	"ENSP00000454973"	"Q9BY12"	"H3BTY2,H3BR40,H3BPB0"	"UPI0000E59CC3"	""	""	""	""	"21/31"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"10040f98-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"8791"	"CHRNB4"	1143	"mskcc.org"	"GRCh37"	"15"	78940539	78940539	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.409+1182A>C"	""	""	"ENST00000560511"	""	63	"57"	6	50	"50"	0	"CHRNB4,intron_variant,,ENST00000560511,;CHRNB4,intron_variant,,ENST00000559849,;"	"G"	"ENSG00000117971"	"ENST00000560511"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/727"	""	""	""	""	""	"1"	NA	-1	"CHRNB4"	"HGNC"	1964	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"10048810-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"8792"	"AP3B2"	8120	"mskcc.org"	"GRCh37"	"15"	83338637	83338637	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1666-2952G>C"	""	""	"ENST00000261722"	""	65	"59"	6	31	"31"	0	"AP3B2,intron_variant,,ENST00000261722,NM_004644.4;AP3B2,intron_variant,,ENST00000535359,NM_001278512.1;AP3B2,intron_variant,,ENST00000535348,NM_001278511.1;RP11-752G15.3,intron_variant,,ENST00000560650,;AP3B2,intron_variant,,ENST00000543938,;"	"G"	"ENSG00000103723"	"ENST00000261722"	"Transcript"	"intron_variant"	"-/3736"	"-/3249"	"-/1082"	""	""	""	"1"	NA	-1	"AP3B2"	"HGNC"	567	"protein_coding"	"YES"	"CCDS45331.1"	"ENSP00000261722"	"Q13367"	"F5GWU4"	"UPI0000125030"	"NM_004644.4"	""	""	""	"14/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"10053da0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"8793"	"FSD2"	123722	"mskcc.org"	"GRCh37"	"15"	83478369	83478369	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000334574"	""	96	"72"	24	58	"58"	0	"FSD2,upstream_gene_variant,,ENST00000334574,;WHAMM,upstream_gene_variant,,ENST00000286760,NM_001080435.1;FSD2,upstream_gene_variant,,ENST00000541889,NM_001007122.2,NM_001281805.1,NM_001281806.1;FSD2,upstream_gene_variant,,ENST00000561368,;"	"T"	"ENSG00000186628"	"ENST00000334574"	"Transcript"	"upstream_gene_variant"	"-/6418"	"-/2250"	"-/749"	""	""	""	"1"	"3548"	-1	"FSD2"	"HGNC"	18024	"protein_coding"	"YES"	"CCDS45332.1"	"ENSP00000335651"	"A1L4K1"	"H0YLA8"	"UPI0000161097"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"10055010-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"8794"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	84713905	84713905	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"83"	13	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"1005808a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135416666666667	"WGS"	FALSE
"8795"	"RP11-23A22.1"	0	"mskcc.org"	"GRCh37"	"15"	86501404	86501404	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000561364"	""	98	"73"	25	51	"51"	0	"RP11-23A22.1,downstream_gene_variant,,ENST00000561364,;"	"C"	"ENSG00000259608"	"ENST00000561364"	"Transcript"	"downstream_gene_variant"	"-/255"	""	""	""	""	""	"1"	"544"	-1	"RP11-23A22.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"10060d52-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255102040816327	"WGS"	FALSE
"8796"	"CTD-2315E11.1"	0	"mskcc.org"	"GRCh37"	"15"	90670922	90670922	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.307-5707C>G"	""	""	"ENST00000561101"	""	79	"71"	8	56	"56"	0	"CTD-2315E11.1,intron_variant,,ENST00000561101,;RN7SL755P,upstream_gene_variant,,ENST00000578588,;"	"G"	"ENSG00000259685"	"ENST00000561101"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/352"	""	""	""	""	""	"1"	NA	1	"CTD-2315E11.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"1006d8f4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10126582278481	"WGS"	FALSE
"8797"	"IQGAP1"	8826	"mskcc.org"	"GRCh37"	"15"	90930144	90930144	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000268182"	""	79	"72"	7	43	"43"	0	"IQGAP1,upstream_gene_variant,,ENST00000268182,NM_003870.3;IQGAP1,upstream_gene_variant,,ENST00000560738,;IQGAP1,upstream_gene_variant,,ENST00000560418,;IQGAP1,upstream_gene_variant,,ENST00000559809,;NDUFA3P4,downstream_gene_variant,,ENST00000560814,;"	"C"	"ENSG00000140575"	"ENST00000268182"	"Transcript"	"upstream_gene_variant"	"-/7233"	"-/4974"	"-/1657"	""	""	""	"1"	"1306"	1	"IQGAP1"	"HGNC"	6110	"protein_coding"	"YES"	"CCDS10362.1"	"ENSP00000268182"	"P46940"	"H0YKA5"	"UPI000012D863"	"NM_003870.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"1006ef38-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"8798"	"RN7SL599P"	0	"mskcc.org"	"GRCh37"	"15"	93398719	93398719	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000580349"	""	89	"83"	6	63	"63"	0	"RN7SL599P,upstream_gene_variant,,ENST00000580349,;"	"G"	"ENSG00000264123"	"ENST00000580349"	"Transcript"	"upstream_gene_variant"	"-/292"	""	""	""	""	""	"1"	"1014"	1	"RN7SL599P"	"HGNC"	46615	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"10077638-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"8799"	"MCTP2"	55784	"mskcc.org"	"GRCh37"	"15"	94947260	94947260	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs192093968"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2085+2012G>A"	""	""	"ENST00000357742"	""	97	"79"	18	75	"75"	0	"MCTP2,intron_variant,,ENST00000357742,NM_018349.3;MCTP2,intron_variant,,ENST00000451018,NM_001159643.1;MCTP2,downstream_gene_variant,,ENST00000331706,;MCTP2,downstream_gene_variant,,ENST00000557742,NM_001159644.1;MCTP2,intron_variant,,ENST00000456504,;MCTP2,downstream_gene_variant,,ENST00000557505,;"	"A"	"ENSG00000140563"	"ENST00000357742"	"Transcript"	"intron_variant"	"-/3965"	"-/2637"	"-/878"	""	""	"rs192093968"	"1"	NA	1	"MCTP2"	"HGNC"	25636	"protein_coding"	"YES"	"CCDS32338.1"	"ENSP00000350377"	"Q6DN12"	"Q9NPN6"	"UPI0000D613A2"	"NM_018349.3"	""	""	""	"16/21"	""	"A:0.0004"	"A:0"	"A:0"	NA	"A:0"	"A:0.001"	"A:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"1007c692-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185567010309278	"WGS"	FALSE
"8800"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	95206008	95206008	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	53	"49"	4	25	"25"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"1007cb60-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0754716981132075	"WGS"	FALSE
"8801"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	96441940	96441940	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"73"	24	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"1007f7fc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247422680412371	"WGS"	FALSE
"8802"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	96954556	96954556	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"77"	28	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"1008103e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"8803"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	97184265	97184265	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs374102026"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"89"	25	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs374102026"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"10081a52-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219298245614035	"WGS"	FALSE
"8804"	"LYSMD4"	145748	"mskcc.org"	"GRCh37"	"15"	100271298	100271298	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.285+80G>T"	""	""	"ENST00000344791"	""	103	"85"	18	57	"57"	0	"LYSMD4,intron_variant,,ENST00000545021,NM_001284420.1,NM_001284422.1;LYSMD4,intron_variant,,ENST00000344791,NM_152449.2,NM_001284419.1;LYSMD4,intron_variant,,ENST00000332728,;LYSMD4,intron_variant,,ENST00000409796,NM_001284418.1,NM_001284417.1;LYSMD4,intron_variant,,ENST00000450512,;LYSMD4,intron_variant,,ENST00000604213,;LYSMD4,intron_variant,,ENST00000496108,;LYSMD4,intron_variant,,ENST00000484050,;LYSMD4,intron_variant,,ENST00000479791,;LYSMD4,intron_variant,,ENST00000493256,;"	"A"	"ENSG00000183060"	"ENST00000344791"	"Transcript"	"intron_variant"	"-/2885"	"-/894"	"-/297"	""	""	""	"1"	NA	-1	"LYSMD4"	"HGNC"	26571	"protein_coding"	"YES"	"CCDS10381.1"	"ENSP00000342840"	"Q5XG99"	"B3KWE4"	"UPI000021D1F8"	"NM_152449.2,NM_001284419.1"	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"1008a0bc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174757281553398	"WGS"	FALSE
"8805"	"GNPTG"	84572	"mskcc.org"	"GRCh37"	"16"	1409483	1409483	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.179-2261A>C"	""	""	"ENST00000204679"	""	79	"71"	8	49	"49"	0	"GNPTG,intron_variant,,ENST00000204679,NM_032520.4;GNPTG,intron_variant,,ENST00000529110,;UNKL,downstream_gene_variant,,ENST00000389221,NM_001193388.3;UNKL,downstream_gene_variant,,ENST00000248104,NM_001276414.1;UNKL,downstream_gene_variant,,ENST00000403703,;UNKL,downstream_gene_variant,,ENST00000391893,;LA16c-316G12.2,intron_variant,,ENST00000569831,;UNKL,downstream_gene_variant,,ENST00000562537,;GNPTG,intron_variant,,ENST00000527168,;GNPTG,intron_variant,,ENST00000529957,;GNPTG,intron_variant,,ENST00000526820,;GNPTG,upstream_gene_variant,,ENST00000527076,;GNPTG,downstream_gene_variant,,ENST00000527876,;GNPTG,downstream_gene_variant,,ENST00000534197,;"	"C"	"ENSG00000090581"	"ENST00000204679"	"Transcript"	"intron_variant"	"-/1221"	"-/918"	"-/305"	""	""	""	"1"	NA	1	"GNPTG"	"HGNC"	23026	"protein_coding"	"YES"	"CCDS10436.1"	"ENSP00000204679"	"Q9UJJ9"	"Q96RZ2"	"UPI0000073F3C"	"NM_032520.4"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"100b4ff6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10126582278481	"WGS"	FALSE
"8806"	"TBC1D24"	57465	"mskcc.org"	"GRCh37"	"16"	2548659	2548659	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1142+262C>T"	""	""	"ENST00000293970"	""	97	"78"	19	71	"71"	0	"TBC1D24,intron_variant,,ENST00000567020,NM_020705.2;TBC1D24,intron_variant,,ENST00000564879,;TBC1D24,intron_variant,,ENST00000293970,NM_001199107.1;TBC1D24,intron_variant,,ENST00000434757,;RP11-20I23.1,intron_variant,,ENST00000564543,;TBC1D24,downstream_gene_variant,,ENST00000562105,;TBC1D24,upstream_gene_variant,,ENST00000569874,;"	"T"	"ENSG00000162065"	"ENST00000293970"	"Transcript"	"intron_variant"	"-/4340"	"-/1680"	"-/559"	""	""	""	"1"	NA	1	"TBC1D24"	"HGNC"	29203	"protein_coding"	"YES"	"CCDS55980.1"	"ENSP00000293970"	"Q9ULP9"	"H3BV07,H3BNU1"	"UPI000041A97A"	"NM_001199107.1"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"100be3c6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195876288659794	"WGS"	FALSE
"8807"	"RP11-420N3.2"	0	"mskcc.org"	"GRCh37"	"16"	6040567	6040567	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.436+123231A>C"	""	""	"ENST00000569895"	""	90	"81"	9	68	"68"	0	"RP11-420N3.2,intron_variant,,ENST00000569895,;"	"C"	"ENSG00000260411"	"ENST00000569895"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/829"	""	""	""	""	""	"1"	NA	1	"RP11-420N3.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"100d2d44-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"8808"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	6235773	6235773	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4-131223C>T"	""	""	"ENST00000547372"	""	87	"77"	10	70	"70"	0	"RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RP11-420N3.2,intron_variant,,ENST00000569895,;RBFOX1,intron_variant,,ENST00000548749,;"	"T"	"ENSG00000078328"	"ENST00000547372"	"Transcript"	"intron_variant"	"-/3524"	"-/1401"	"-/466"	""	""	""	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	""	""	"ENSP00000446842"	""	"Q8TCM0,Q59HD3,F8VZY7,F8VZG9"	"UPI00020CDFAB"	""	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"100d3514-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114942528735632	"WGS"	FALSE
"8809"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	6747577	6747577	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.114+42926G>A"	""	""	"ENST00000547372"	""	77	"59"	18	52	"52"	0	"RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RBFOX1,intron_variant,,ENST00000535565,;RBFOX1,intron_variant,,ENST00000552089,;RBFOX1,intron_variant,,ENST00000551752,;RP11-420N3.2,intron_variant,,ENST00000569895,;RBFOX1,intron_variant,,ENST00000547427,;RBFOX1,intron_variant,,ENST00000548749,;"	"A"	"ENSG00000078328"	"ENST00000547372"	"Transcript"	"intron_variant"	"-/3524"	"-/1401"	"-/466"	""	""	""	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	""	""	"ENSP00000446842"	""	"Q8TCM0,Q59HD3,F8VZY7,F8VZG9"	"UPI00020CDFAB"	""	""	""	""	"3/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"100d5e36-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233766233766234	"WGS"	FALSE
"8810"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	8110533	8110533	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	27	"23"	4	12	"12"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"100dbbce-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"8811"	"RP11-243A14.1"	101927009	"mskcc.org"	"GRCh37"	"16"	9490960	9490960	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.194-4627C>T"	""	""	"ENST00000564305"	""	105	"88"	17	62	"62"	0	"RP11-243A14.1,intron_variant,,ENST00000564305,;"	"T"	"ENSG00000261617"	"ENST00000564305"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/5298"	""	""	""	""	""	"1"	NA	1	"RP11-243A14.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"100e488c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161904761904762	"WGS"	FALSE
"8812"	"LITAF"	9516	"mskcc.org"	"GRCh37"	"16"	11654139	11654139	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-5-3548A>G"	""	""	"ENST00000571688"	""	95	"83"	12	57	"57"	0	"LITAF,intron_variant,,ENST00000571688,NM_001136472.1;LITAF,intron_variant,,ENST00000339430,NM_004862.3;LITAF,intron_variant,,ENST00000413364,NM_001136473.1;LITAF,intron_variant,,ENST00000381810,;LITAF,intron_variant,,ENST00000570904,;LITAF,intron_variant,,ENST00000574763,;LITAF,intron_variant,,ENST00000571459,;LITAF,intron_variant,,ENST00000576036,;LITAF,intron_variant,,ENST00000570798,;LITAF,intron_variant,,ENST00000571277,;LITAF,intron_variant,,ENST00000571627,;LITAF,intron_variant,,ENST00000576334,;LITAF,intron_variant,,ENST00000574848,;LITAF,intron_variant,,ENST00000574701,;LITAF,intron_variant,,ENST00000571976,;LITAF,intron_variant,,ENST00000572255,;LITAF,intron_variant,,ENST00000574703,;LITAF,intron_variant,,ENST00000573332,;LITAF,upstream_gene_variant,,ENST00000575426,;"	"C"	"ENSG00000189067"	"ENST00000571688"	"Transcript"	"intron_variant"	"-/2357"	"-/486"	"-/161"	""	""	""	"1"	NA	-1	"LITAF"	"HGNC"	16841	"protein_coding"	"YES"	"CCDS32386.1"	"ENSP00000459533"	"Q99732"	"I3L3U8,I3L329,I3L1R0,I3L1I9,I3L1H3"	"UPI000007094D"	"NM_001136472.1"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"100ed536-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126315789473684	"WGS"	FALSE
"8813"	"NTAN1"	123803	"mskcc.org"	"GRCh37"	"16"	15142813	15142813	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.82-857G>T"	""	""	"ENST00000287706"	""	87	"79"	8	40	"40"	0	"PDXDC1,intron_variant,,ENST00000535621,NM_001285449.1;NTAN1,intron_variant,,ENST00000287706,NM_001270766.1,NM_173474.3;NTAN1,intron_variant,,ENST00000566419,;NTAN1,intron_variant,,ENST00000568320,NM_001270767.1;NTAN1,intron_variant,,ENST00000565187,;NTAN1,intron_variant,,ENST00000567030,;NTAN1,intron_variant,,ENST00000563940,;NTAN1,intron_variant,,ENST00000567420,;NTAN1,upstream_gene_variant,,ENST00000566542,;NTAN1,upstream_gene_variant,,ENST00000568738,;"	"A"	"ENSG00000157045"	"ENST00000287706"	"Transcript"	"intron_variant"	"-/1204"	"-/933"	"-/310"	""	""	""	"1"	NA	-1	"NTAN1"	"HGNC"	29909	"protein_coding"	"YES"	"CCDS10558.1"	"ENSP00000287706"	"Q96AB6"	"Q658S0,H3BPN7"	"UPI0000071024"	"NM_001270766.1,NM_173474.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"100fe20a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"8814"	"DNAH3"	55567	"mskcc.org"	"GRCh37"	"16"	21093580	21093580	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2878-532A>G"	""	""	"ENST00000261383"	""	71	"57"	14	56	"56"	0	"DNAH3,intron_variant,,ENST00000261383,NM_017539.1;DNAH3,intron_variant,,ENST00000415178,;"	"C"	"ENSG00000158486"	"ENST00000261383"	"Transcript"	"intron_variant"	"-/12394"	"-/12351"	"-/4116"	""	""	""	"1"	NA	-1	"DNAH3"	"HGNC"	2949	"protein_coding"	"YES"	"CCDS10594.1"	"ENSP00000261383"	"Q8TD57"	""	"UPI00001100F2"	"NM_017539.1"	""	""	""	"19/61"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"1011ace8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197183098591549	"WGS"	FALSE
"8815"	"USP31"	57478	"mskcc.org"	"GRCh37"	"16"	23129255	23129255	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.634-9751C>T"	""	""	"ENST00000219689"	""	105	"87"	18	35	"35"	0	"USP31,intron_variant,,ENST00000219689,NM_020718.3;"	"A"	"ENSG00000103404"	"ENST00000219689"	"Transcript"	"intron_variant"	"-/10699"	"-/4059"	"-/1352"	""	""	""	"1"	NA	-1	"USP31"	"HGNC"	20060	"protein_coding"	"YES"	"CCDS10607.1"	"ENSP00000219689"	"Q70CQ4"	""	"UPI0000366B06"	"NM_020718.3"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"10124aae-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171428571428571	"WGS"	FALSE
"8816"	"EARS2"	124454	"mskcc.org"	"GRCh37"	"16"	23552603	23552603	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.485+3232A>T"	""	""	"ENST00000449606"	""	89	"81"	8	50	"50"	0	"EARS2,intron_variant,,ENST00000449606,NM_001083614.1;EARS2,intron_variant,,ENST00000563459,;EARS2,intron_variant,,ENST00000564501,;EARS2,intron_variant,,ENST00000563232,;EARS2,intron_variant,,ENST00000564987,;EARS2,intron_variant,,ENST00000566017,;EARS2,downstream_gene_variant,,ENST00000564461,;EARS2,downstream_gene_variant,,ENST00000561859,;EARS2,intron_variant,,ENST00000564668,;EARS2,downstream_gene_variant,,ENST00000564997,;EARS2,downstream_gene_variant,,ENST00000562581,;SUB1P4,downstream_gene_variant,,ENST00000566062,;"	"A"	"ENSG00000103356"	"ENST00000449606"	"Transcript"	"intron_variant"	"-/3961"	"-/1572"	"-/523"	""	""	""	"1"	NA	-1	"EARS2"	"HGNC"	29419	"protein_coding"	"YES"	"CCDS42132.1"	"ENSP00000395196"	"Q5JPH6"	""	"UPI000015FBF2"	"NM_001083614.1"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"1012709c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"8817"	"ARHGAP17"	55114	"mskcc.org"	"GRCh37"	"16"	25011980	25011980	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.53+14550T>A"	""	""	"ENST00000289968"	""	98	"84"	14	51	"51"	0	"ARHGAP17,intron_variant,,ENST00000289968,NM_001006634.1;ARHGAP17,intron_variant,,ENST00000441763,;ARHGAP17,intron_variant,,ENST00000303665,NM_018054.4;ARHGAP17,intron_variant,,ENST00000455311,;ARHGAP17,intron_variant,,ENST00000573449,;ARHGAP17,intron_variant,,ENST00000575975,;ARHGAP17,intron_variant,,ENST00000571480,;ARHGAP17,intron_variant,,ENST00000573625,;ARHGAP17,intron_variant,,ENST00000575447,;"	"T"	"ENSG00000140750"	"ENST00000289968"	"Transcript"	"intron_variant"	"-/3461"	"-/2646"	"-/881"	""	""	""	"1"	NA	-1	"ARHGAP17"	"HGNC"	18239	"protein_coding"	"YES"	"CCDS32409.1"	"ENSP00000289968"	"Q68EM7"	"I3L4P6"	"UPI00000433FD"	"NM_001006634.1"	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"1012c600-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"8818"	"GSG1L"	146395	"mskcc.org"	"GRCh37"	"16"	28047162	28047162	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349+27235C>A"	""	""	"ENST00000447459"	""	87	"59"	28	57	"57"	0	"GSG1L,intron_variant,,ENST00000380898,;GSG1L,intron_variant,,ENST00000447459,NM_001109763.1;GSG1L,intron_variant,,ENST00000395724,;GSG1L,intron_variant,,ENST00000562611,;"	"T"	"ENSG00000169181"	"ENST00000447459"	"Transcript"	"intron_variant"	"-/4916"	"-/996"	"-/331"	""	""	""	"1"	NA	-1	"GSG1L"	"HGNC"	28283	"protein_coding"	"YES"	"CCDS45450.1"	"ENSP00000394954"	"Q6UXU4"	""	"UPI0000EE765B"	"NM_001109763.1"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"10139e5e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32183908045977	"WGS"	FALSE
"8819"	"RP11-347C12.2"	595101	"mskcc.org"	"GRCh37"	"16"	30337560	30337560	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.400+8736A>G"	""	""	"ENST00000411546"	""	93	"86"	7	59	"59"	0	"RP11-347C12.2,intron_variant,,ENST00000411546,;RP11-347C12.2,intron_variant,,ENST00000529428,;"	"C"	"ENSG00000183604"	"ENST00000411546"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2362"	""	""	""	""	""	"1"	NA	-1	"RP11-347C12.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"1014953e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"8820"	"ZNF48"	197407	"mskcc.org"	"GRCh37"	"16"	30410038	30410038	"+"	"Silent"	"SNP"	"T"	"T"	"G"	"rs770931635"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1467T>G"	"p.="	"p.A489A"	"ENST00000320159"	"2/2"	95	"86"	9	68	"68"	0	"ZNF48,synonymous_variant,p.=,ENST00000320159,NM_152652.2,NM_001214907.1,NM_001214909.1,NM_001214906.1;ZNF48,downstream_gene_variant,,ENST00000524644,;ZNF48,downstream_gene_variant,,ENST00000528032,;ZNF48,downstream_gene_variant,,ENST00000495929,;SEPT1,upstream_gene_variant,,ENST00000570039,;SEPT1,upstream_gene_variant,,ENST00000567783,;"	"G"	"ENSG00000180035"	"ENST00000320159"	"Transcript"	"synonymous_variant"	"1843/3234"	"1467/1857"	"489/618"	"A"	"gcT/gcG"	"rs770931635"	"1"	NA	1	"ZNF48"	"HGNC"	13114	"protein_coding"	"YES"	"CCDS10679.1"	"ENSP00000324056"	"Q96MX3"	"E9PQ92,E9PJ50"	"UPI000013E982"	"NM_152652.2,NM_001214907.1,NM_001214909.1,NM_001214906.1"	""	""	"2/2"	""	"Superfamily_domains:SSF57667,SMART_domains:SM00355,Pfam_domain:PF13465,Gene3D:3.30.160.60,PROSITE_patterns:PS00028,hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF18,PROSITE_profiles:PS50157"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	"9.415e-06"	"0"	"0"	"0"	"0"	"1.841e-05"	"0"	"0"	NA	"PASS"	"CTG"	"10149e26-deaf-11e6-a4db-9a8e424a729f"	"."	9.418e-06	"1/106176"	"1/106210"	"0/9058"	"0/11216"	"0/7864"	"0/6614"	"1/54324"	"0/694"	"0/16406"	"PASS"	"FALSE"	0.0947368421052632	"WGS"	FALSE
"8821"	"PYCARD"	29108	"mskcc.org"	"GRCh37"	"16"	31212049	31212049	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000247470"	""	85	"77"	8	48	"48"	0	"PYCARD,downstream_gene_variant,,ENST00000561508,;C16orf98,upstream_gene_variant,,ENST00000561916,;PYCARD,downstream_gene_variant,,ENST00000247470,NM_013258.4;PYCARD,downstream_gene_variant,,ENST00000350605,NM_145182.2;RP11-388M20.1,downstream_gene_variant,,ENST00000565152,;PYCARD,downstream_gene_variant,,ENST00000565022,;"	"T"	"ENSG00000103490"	"ENST00000247470"	"Transcript"	"downstream_gene_variant"	"-/990"	"-/588"	"-/195"	""	""	""	"1"	"757"	-1	"PYCARD"	"HGNC"	16608	"protein_coding"	"YES"	"CCDS10708.1"	"ENSP00000247470"	"Q9ULZ3"	""	"UPI0000032BA7"	"NM_013258.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"1014ffc4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"8822"	"RP11-1166P10.1"	0	"mskcc.org"	"GRCh37"	"16"	32004678	32004678	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1089-1441C>A"	""	""	"ENST00000568208"	""	85	"79"	6	43	"43"	0	"RP11-1166P10.1,intron_variant,,ENST00000568570,;RP11-1166P10.1,upstream_gene_variant,,ENST00000568978,;RP11-1166P10.1,intron_variant,,ENST00000568208,;"	"A"	"ENSG00000260628"	"ENST00000568208"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1670"	""	""	""	""	""	"1"	NA	1	"RP11-1166P10.1"	"Clone_based_vega_gene"	NA	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"101531e2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0705882352941176	"WGS"	FALSE
"8823"	"HERC2P4"	100289574	"mskcc.org"	"GRCh37"	"16"	32145760	32145760	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.66-16030C>T"	""	""	"ENST00000564145"	""	132	"111"	21	62	"62"	0	"HERC2P4,intron_variant,,ENST00000564145,;"	"A"	"ENSG00000230267"	"ENST00000564145"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/683"	""	""	""	""	""	"1"	NA	-1	"HERC2P4"	"HGNC"	4872	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"1015709e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.159090909090909	"WGS"	FALSE
"8824"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	32936223	32936223	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"75"	10	40	"40"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"1016ebfe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"8825"	"CCNYL3"	0	"mskcc.org"	"GRCh37"	"16"	34275290	34275290	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.413+655C>T"	""	""	"ENST00000566504"	""	103	"77"	26	62	"62"	0	"CCNYL3,intron_variant,,ENST00000566504,;CCNYL3,intron_variant,,ENST00000407030,;"	"T"	"ENSG00000216671"	"ENST00000566504"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1065"	""	""	""	""	""	"1"	NA	1	"CCNYL3"	"HGNC"	33206	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"10191014-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252427184466019	"WGS"	FALSE
"8826"	"CTD-2144E22.10"	0	"mskcc.org"	"GRCh37"	"16"	34320976	34320976	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000563400"	""	112	"92"	20	58	"58"	0	"CTD-2144E22.10,upstream_gene_variant,,ENST00000563400,;CCNYL3,downstream_gene_variant,,ENST00000407030,;CTD-2144E22.2,downstream_gene_variant,,ENST00000569273,;"	"C"	"ENSG00000260809"	"ENST00000563400"	"Transcript"	"upstream_gene_variant"	"-/1518"	""	""	""	""	""	"1"	"3896"	1	"CTD-2144E22.10"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"101910be-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"8827"	"RP11-488I20.5"	0	"mskcc.org"	"GRCh37"	"16"	34577490	34577490	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000561884"	""	91	"79"	12	74	"74"	0	"RP11-488I20.5,upstream_gene_variant,,ENST00000561884,;RARRES2P9,downstream_gene_variant,,ENST00000565168,;"	"T"	"ENSG00000260427"	"ENST00000561884"	"Transcript"	"upstream_gene_variant"	"-/913"	""	""	""	""	""	"1"	"4266"	1	"RP11-488I20.5"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"10191348-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131868131868132	"WGS"	FALSE
"8828"	"ITFG1"	81533	"mskcc.org"	"GRCh37"	"16"	47331425	47331425	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1070+13726C>A"	""	""	"ENST00000320640"	""	95	"74"	21	60	"60"	0	"ITFG1,intron_variant,,ENST00000320640,NM_030790.3;ITFG1,intron_variant,,ENST00000544001,;RP11-474B12.1,upstream_gene_variant,,ENST00000564739,;ITFG1,intron_variant,,ENST00000568047,;ITFG1,intron_variant,,ENST00000542691,;ITFG1,intron_variant,,ENST00000537184,;"	"T"	"ENSG00000129636"	"ENST00000320640"	"Transcript"	"intron_variant"	"-/3400"	"-/1839"	"-/612"	""	""	""	"1"	NA	-1	"ITFG1"	"HGNC"	30697	"protein_coding"	"YES"	"CCDS10728.1"	"ENSP00000319918"	"Q8TB96"	"H3BQ64,B4DSA2,B4DHQ9"	"UPI0000039EB3"	"NM_030790.3"	""	""	""	"10/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"101a3b6a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221052631578947	"WGS"	FALSE
"8829"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	48894842	48894842	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"84"	16	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"101a9d8a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WGS"	FALSE
"8830"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	49016340	49016340	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"78"	16	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"101aaf32-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170212765957447	"WGS"	FALSE
"8831"	"HEATR3"	55027	"mskcc.org"	"GRCh37"	"16"	50125677	50125677	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1511-2939C>T"	""	""	"ENST00000299192"	""	81	"73"	8	35	"35"	0	"HEATR3,intron_variant,,ENST00000299192,NM_182922.2;HEATR3,intron_variant,,ENST00000285767,;HEATR3,intron_variant,,ENST00000564942,;"	"T"	"ENSG00000155393"	"ENST00000299192"	"Transcript"	"intron_variant"	"-/3560"	"-/2043"	"-/680"	""	""	""	"1"	NA	1	"HEATR3"	"HGNC"	26087	"protein_coding"	"YES"	"CCDS10739.1"	"ENSP00000299192"	"Q7Z4Q2"	""	"UPI0000071B6C"	"NM_182922.2"	""	""	""	"11/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"101b37d6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0987654320987654	"WGS"	FALSE
"8832"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	50172443	50172443	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"75"	17	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"101b4118-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184782608695652	"WGS"	FALSE
"8833"	"RP11-21B23.2"	0	"mskcc.org"	"GRCh37"	"16"	50426959	50426959	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"rs200821393"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.199+1887A>G"	""	""	"ENST00000566876"	""	86	"78"	8	37	"37"	0	"RP11-21B23.2,intron_variant,,ENST00000566876,;"	"C"	"ENSG00000261092"	"ENST00000566876"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/425"	""	""	""	""	"rs200821393"	"1"	NA	-1	"RP11-21B23.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"101b57b6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"8834"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	52911151	52911151	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"51"	19	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"101bf91e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271428571428571	"WGS"	FALSE
"8835"	"CES5A"	221223	"mskcc.org"	"GRCh37"	"16"	55963408	55963408	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.160+20289G>A"	""	""	"ENST00000521992"	""	99	"74"	25	65	"65"	0	"CES5A,intron_variant,,ENST00000521992,NM_001190158.1;CES5A,upstream_gene_variant,,ENST00000518005,;CES5A,upstream_gene_variant,,ENST00000536025,;CES5A,intron_variant,,ENST00000541580,;CES5A,upstream_gene_variant,,ENST00000521228,;"	"T"	"ENSG00000159398"	"ENST00000521992"	"Transcript"	"intron_variant"	"-/2258"	"-/1815"	"-/604"	""	""	""	"1"	NA	-1	"CES5A"	"HGNC"	26459	"protein_coding"	"YES"	"CCDS54012.1"	"ENSP00000428864"	"Q6NT32"	"I3NI11,F5H0J7"	"UPI0001914B41"	"NM_001190158.1"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"101cca56-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252525252525253	"WGS"	FALSE
"8836"	"CNGB1"	1258	"mskcc.org"	"GRCh37"	"16"	57936454	57936454	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2795-925T>A"	""	""	"ENST00000251102"	""	77	"71"	6	60	"60"	0	"CNGB1,intron_variant,,ENST00000564448,NM_001286130.1;CNGB1,intron_variant,,ENST00000251102,NM_001297.4;CNGB1,upstream_gene_variant,,ENST00000565942,;CNGB1,intron_variant,,ENST00000569643,;"	"T"	"ENSG00000070729"	"ENST00000251102"	"Transcript"	"intron_variant"	"-/4179"	"-/3756"	"-/1251"	""	""	""	"1"	NA	-1	"CNGB1"	"HGNC"	2151	"protein_coding"	"YES"	"CCDS42169.1"	"ENSP00000251102"	"Q14028"	"H3BQC3"	"UPI000013CCDF"	"NM_001297.4"	""	""	""	"27/32"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"101dacf0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"8837"	"RP11-430C1.1"	101927580	"mskcc.org"	"GRCh37"	"16"	60079876	60079876	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.263-256A>C"	""	""	"ENST00000568279"	""	106	"92"	14	52	"52"	0	"RP11-430C1.1,intron_variant,,ENST00000568279,;"	"C"	"ENSG00000261807"	"ENST00000568279"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/6584"	""	""	""	""	""	"1"	NA	1	"RP11-430C1.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"101e4d90-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.132075471698113	"WGS"	FALSE
"8838"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	61099283	61099283	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"69"	16	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"101ea43e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188235294117647	"WGS"	FALSE
"8839"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	62355687	62355687	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"90"	18	65	"65"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"101edf30-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"8840"	"RP11-368L12.1"	0	"mskcc.org"	"GRCh37"	"16"	63487040	63487040	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.434+78089T>C"	""	""	"ENST00000568932"	""	94	"71"	23	58	"56"	2	"RP11-368L12.1,intron_variant,,ENST00000568932,;"	"G"	"ENSG00000260658"	"ENST00000568932"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/561"	""	""	""	""	""	"1"	NA	-1	"RP11-368L12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"101f274c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24468085106383	"WGS"	FALSE
"8841"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	64242450	64242450	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"71"	16	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"101f6392-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.183908045977011	"WGS"	FALSE
"8842"	"LINC00922"	283867	"mskcc.org"	"GRCh37"	"16"	65486249	65486249	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.218-88538A>T"	""	""	"ENST00000569736"	""	47	"43"	4	33	"33"	0	"LINC00922,intron_variant,,ENST00000569736,;LINC00922,intron_variant,,ENST00000564041,;LINC00922,intron_variant,,ENST00000568492,;"	"A"	"ENSG00000261742"	"ENST00000569736"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1760"	""	""	""	""	""	"1"	NA	-1	"LINC00922"	"HGNC"	27545	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"101fa44c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"8843"	"LINC00922"	283867	"mskcc.org"	"GRCh37"	"16"	65593379	65593379	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.217+12295A>T"	""	""	"ENST00000569736"	""	84	"70"	14	53	"53"	0	"LINC00922,intron_variant,,ENST00000569736,;LINC00922,intron_variant,,ENST00000564041,;LINC00922,intron_variant,,ENST00000568492,;"	"A"	"ENSG00000261742"	"ENST00000569736"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1760"	""	""	""	""	""	"1"	NA	-1	"LINC00922"	"HGNC"	27545	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"101faf32-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"8844"	"CKLF"	51192	"mskcc.org"	"GRCh37"	"16"	66589658	66589658	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.79-2435T>A"	""	""	"ENST00000264001"	""	92	"73"	19	52	"52"	0	"CKLF,intron_variant,,ENST00000264001,NM_016951.3;CKLF,intron_variant,,ENST00000417030,NM_001040138.2;CKLF-CMTM1,intron_variant,,ENST00000532838,;CKLF-CMTM1,intron_variant,,ENST00000527729,NM_001202509.1;CKLF,intron_variant,,ENST00000345436,NM_181641.2;CKLF,intron_variant,,ENST00000351137,NM_181640.2;CKLF,intron_variant,,ENST00000362093,NM_016326.3;TK2,upstream_gene_variant,,ENST00000563478,;TK2,upstream_gene_variant,,ENST00000562484,;Y_RNA,downstream_gene_variant,,ENST00000563151,;CKLF,intron_variant,,ENST00000563092,;CKLF,intron_variant,,ENST00000526149,;CKLF,intron_variant,,ENST00000534692,;CKLF-CMTM1,intron_variant,,ENST00000527845,;"	"A"	"ENSG00000217555"	"ENST00000264001"	"Transcript"	"intron_variant"	"-/669"	"-/459"	"-/152"	""	""	""	"1"	NA	1	"CKLF"	"HGNC"	13253	"protein_coding"	"YES"	"CCDS10807.1"	"ENSP00000264001"	"Q9UBR5"	""	"UPI0000036209"	"NM_016951.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"101ffd8e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206521739130435	"WGS"	FALSE
"8845"	"CDH1"	999	"mskcc.org"	"GRCh37"	"16"	68795944	68795944	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.163+23630G>T"	""	""	"ENST00000261769"	""	85	"59"	26	42	"42"	0	"CDH1,intron_variant,,ENST00000261769,NM_004360.3;CDH1,intron_variant,,ENST00000422392,;CDH1,upstream_gene_variant,,ENST00000562836,;CDH1,upstream_gene_variant,,ENST00000564676,;CDH1,intron_variant,,ENST00000566612,;CDH1,intron_variant,,ENST00000566510,;"	"T"	"ENSG00000039068"	"ENST00000261769"	"Transcript"	"intron_variant"	"-/4889"	"-/2649"	"-/882"	""	""	""	"1"	NA	1	"CDH1"	"HGNC"	1748	"protein_coding"	"YES"	"CCDS10869.1"	"ENSP00000261769"	"P12830"	"B3GN61"	"UPI00000341EF"	"NM_004360.3"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"1020cc6e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305882352941176	"WGS"	TRUE
"8846"	"SNTB2"	6645	"mskcc.org"	"GRCh37"	"16"	69330497	69330497	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1346-2996T>G"	""	""	"ENST00000336278"	""	78	"71"	7	43	"43"	0	"SNTB2,intron_variant,,ENST00000336278,NM_006750.3;RP11-343C2.11,upstream_gene_variant,,ENST00000570054,;SNTB2,intron_variant,,ENST00000467311,;"	"G"	"ENSG00000168807"	"ENST00000336278"	"Transcript"	"intron_variant"	"-/9789"	"-/1623"	"-/540"	""	""	""	"1"	NA	1	"SNTB2"	"HGNC"	11169	"protein_coding"	"YES"	"CCDS10873.1"	"ENSP00000338191"	"Q13425"	""	"UPI0000135B21"	"NM_006750.3"	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"10210594-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"8847"	"NFAT5"	10725	"mskcc.org"	"GRCh37"	"16"	69650514	69650514	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.128-9792C>T"	""	""	"ENST00000432919"	""	78	"67"	11	54	"54"	0	"NFAT5,intron_variant,,ENST00000349945,NM_138714.3;NFAT5,intron_variant,,ENST00000432919,NM_138713.3,NM_001113178.2;NFAT5,intron_variant,,ENST00000354436,NM_006599.3;NFAT5,intron_variant,,ENST00000393742,NM_173214.2;NFAT5,intron_variant,,ENST00000567239,;NFAT5,intron_variant,,ENST00000566899,NM_173215.2;NFAT5,intron_variant,,ENST00000426654,;NFAT5,intron_variant,,ENST00000567990,;"	"T"	"ENSG00000102908"	"ENST00000432919"	"Transcript"	"intron_variant"	"-/14157"	"-/4650"	"-/1549"	""	""	""	"1"	NA	1	"NFAT5"	"HGNC"	7774	"protein_coding"	"YES"	"CCDS45518.1"	"ENSP00000396538"	"O94916"	""	"UPI000049DE1B"	"NM_138713.3,NM_001113178.2"	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"10212f6a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141025641025641	"WGS"	FALSE
"8848"	"ZNRF1"	84937	"mskcc.org"	"GRCh37"	"16"	75132249	75132249	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.520+4684G>A"	""	""	"ENST00000335325"	""	116	"94"	22	57	"57"	0	"ZNRF1,intron_variant,,ENST00000335325,NM_032268.4;ZNRF1,intron_variant,,ENST00000320619,;ZNRF1,intron_variant,,ENST00000567962,;ZNRF1,intron_variant,,ENST00000566250,;ZNRF1,intron_variant,,ENST00000568511,;ZNRF1,intron_variant,,ENST00000564320,;ZNRF1,intron_variant,,ENST00000579084,;"	"A"	"ENSG00000186187"	"ENST00000335325"	"Transcript"	"intron_variant"	"-/4620"	"-/684"	"-/227"	""	""	""	"1"	NA	1	"ZNRF1"	"HGNC"	18452	"protein_coding"	"YES"	"CCDS10912.1"	"ENSP00000335091"	"Q8ND25"	"J3KTB9"	"UPI0000037DAA"	"NM_032268.4"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"102313d4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189655172413793	"WGS"	FALSE
"8849"	"CNTNAP4"	85445	"mskcc.org"	"GRCh37"	"16"	76544904	76544904	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2147-10133G>T"	""	""	"ENST00000478060"	""	90	"68"	22	59	"59"	0	"CNTNAP4,intron_variant,,ENST00000307431,NM_033401.3;CNTNAP4,intron_variant,,ENST00000377504,;CNTNAP4,intron_variant,,ENST00000476707,;CNTNAP4,intron_variant,,ENST00000478060,NM_138994.3;CNTNAP4,intron_variant,,ENST00000469589,;CNTNAP4,intron_variant,,ENST00000469667,;"	"T"	"ENSG00000152910"	"ENST00000478060"	"Transcript"	"intron_variant"	"-/3708"	"-/3708"	"-/1235"	""	""	""	"1"	NA	1	"CNTNAP4"	"HGNC"	18747	"protein_coding"	"YES"	"CCDS10924.2"	"ENSP00000418741"	"Q9C0A0"	"H3BPC8"	"UPI000059D3C6"	"NM_138994.3"	""	""	""	"14/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"1023556a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244444444444444	"WGS"	FALSE
"8850"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	76999694	76999694	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"70"	17	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"1023632a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195402298850575	"WGS"	FALSE
"8851"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	79565644	79565644	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"74"	18	37	"37"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"1023d0a8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195652173913043	"WGS"	FALSE
"8852"	"RN7SKP190"	0	"mskcc.org"	"GRCh37"	"16"	82226532	82226532	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516079"	""	92	"76"	16	49	"49"	0	"RN7SKP190,upstream_gene_variant,,ENST00000516079,;"	"A"	"ENSG00000251888"	"ENST00000516079"	"Transcript"	"upstream_gene_variant"	"-/286"	""	""	""	""	""	"1"	"137"	-1	"RN7SKP190"	"HGNC"	45914	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"10245d66-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"8853"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	85880653	85880653	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"78"	22	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"10255ec8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22	"WGS"	FALSE
"8854"	"CTD-2015G9.2"	0	"mskcc.org"	"GRCh37"	"16"	86761076	86761076	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.57-398G>A"	""	""	"ENST00000562064"	""	103	"90"	13	70	"70"	0	"CTD-2015G9.2,intron_variant,,ENST00000562064,;CTD-2015G9.2,intron_variant,,ENST00000569740,;"	"A"	"ENSG00000261175"	"ENST00000562064"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/550"	""	""	""	""	""	"1"	NA	1	"CTD-2015G9.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"1025d09c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12621359223301	"WGS"	FALSE
"8855"	"CBFA2T3"	863	"mskcc.org"	"GRCh37"	"16"	88971564	88971564	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.152-3500T>C"	""	""	"ENST00000268679"	""	82	"64"	18	52	"51"	1	"CBFA2T3,intron_variant,,ENST00000268679,NM_005187.5;CBFA2T3,intron_variant,,ENST00000360302,;CBFA2T3,intron_variant,,ENST00000436887,;CBFA2T3,intron_variant,,ENST00000448839,;CBFA2T3,intron_variant,,ENST00000327483,NM_175931.2;CBFA2T3,intron_variant,,ENST00000569464,;CBFA2T3,intron_variant,,ENST00000563640,;CBFA2T3,intron_variant,,ENST00000569443,;CBFA2T3,intron_variant,,ENST00000564416,;CBFA2T3,intron_variant,,ENST00000570046,;CBFA2T3,upstream_gene_variant,,ENST00000562719,;"	"G"	"ENSG00000129993"	"ENST00000268679"	"Transcript"	"intron_variant"	"-/4477"	"-/1962"	"-/653"	""	""	""	"1"	NA	-1	"CBFA2T3"	"HGNC"	1537	"protein_coding"	"YES"	"CCDS10972.1"	"ENSP00000268679"	"O75081"	"H3BSI4,H3BR72,H3BMZ0,B3KR45"	"UPI0000167F93"	"NM_005187.5"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"10276128-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219512195121951	"WGS"	TRUE
"8856"	"VPS53"	55275	"mskcc.org"	"GRCh37"	"17"	615306	615306	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.88-1453A>G"	""	""	"ENST00000437048"	""	80	"73"	7	50	"50"	0	"VPS53,intron_variant,,ENST00000437048,NM_001128159.2;VPS53,intron_variant,,ENST00000446250,;VPS53,intron_variant,,ENST00000291074,NM_018289.3;VPS53,intron_variant,,ENST00000571805,;VPS53,intron_variant,,ENST00000401468,;VPS53,intron_variant,,ENST00000576019,;VPS53,intron_variant,,ENST00000574029,;VPS53,intron_variant,,ENST00000571456,;VPS53,intron_variant,,ENST00000575207,;VPS53,intron_variant,,ENST00000570510,;VPS53,intron_variant,,ENST00000573028,;VPS53,intron_variant,,ENST00000389040,;"	"C"	"ENSG00000141252"	"ENST00000437048"	"Transcript"	"intron_variant"	"-/13106"	"-/2499"	"-/832"	""	""	""	"1"	NA	-1	"VPS53"	"HGNC"	25608	"protein_coding"	"YES"	"CCDS45558.1"	"ENSP00000401435"	"Q5VIR6"	"Q8NCR1,I3L4P9"	"UPI0000DBEF01"	"NM_001128159.2"	""	""	""	"1/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"1029dfc0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0875	"WGS"	FALSE
"8857"	"RPA1"	6117	"mskcc.org"	"GRCh37"	"17"	1765748	1765748	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.361+9265T>G"	""	""	"ENST00000254719"	""	77	"71"	6	45	"45"	0	"RPA1,intron_variant,,ENST00000254719,NM_002945.3;RPA1,intron_variant,,ENST00000570451,;RPA1,intron_variant,,ENST00000571058,;AC016292.3,upstream_gene_variant,,ENST00000451056,;"	"G"	"ENSG00000132383"	"ENST00000254719"	"Transcript"	"intron_variant"	"-/4340"	"-/1851"	"-/616"	""	""	""	"1"	NA	1	"RPA1"	"HGNC"	10289	"protein_coding"	"YES"	"CCDS11014.1"	"ENSP00000254719"	"P27694"	"I3L524,I3L2M5"	"UPI000013379A"	"NM_002945.3"	""	""	""	"5/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"102abb3e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"8858"	"SMG6"	23293	"mskcc.org"	"GRCh37"	"17"	2152873	2152873	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2662-4860A>G"	""	""	"ENST00000263073"	""	105	"96"	9	59	"59"	0	"SMG6,intron_variant,,ENST00000544865,;SMG6,intron_variant,,ENST00000263073,NM_017575.4;SMG6,intron_variant,,ENST00000354901,NM_001256827.1;SMG6,intron_variant,,ENST00000570606,;SMG6,upstream_gene_variant,,ENST00000570659,;"	"C"	"ENSG00000070366"	"ENST00000263073"	"Transcript"	"intron_variant"	"-/5960"	"-/4260"	"-/1419"	""	""	""	"1"	NA	-1	"SMG6"	"HGNC"	17809	"protein_coding"	"YES"	"CCDS11016.1"	"ENSP00000263073"	"Q86US8"	"K7ENH7,K7ELM2,K7EKV2,I3L421,I3L3A9,I3L355,I3L1W8,I3L176"	"UPI00002005C8"	"NM_017575.4"	""	""	""	"8/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"102ae83e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"8859"	"RP11-64J4.2"	0	"mskcc.org"	"GRCh37"	"17"	3226671	3226671	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs118155803"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.359+12656G>A"	""	""	"ENST00000573491"	""	52	"43"	9	26	"26"	0	"RP11-64J4.2,intron_variant,,ENST00000573491,;RP11-64J4.2,intron_variant,,ENST00000573901,;RP11-64J4.2,intron_variant,,ENST00000576166,;"	"T"	"ENSG00000262670"	"ENST00000573491"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/586"	""	""	""	""	"rs118155803"	"1"	NA	-1	"RP11-64J4.2"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"102b54b8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173076923076923	"WGS"	FALSE
"8860"	"WSCD1"	339166	"mskcc.org"	"GRCh37"	"17"	5786794	5786794	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-454-5283C>T"	""	""	"ENST00000573619"	""	23	"18"	5	16	"16"	0	"WSCD1,intron_variant,,ENST00000573619,;WSCD1,intron_variant,,ENST00000563763,;"	"T"	"ENSG00000179314"	"ENST00000573619"	"Transcript"	"intron_variant"	"-/759"	"-/134"	"-/44"	""	""	""	"1"	NA	1	"WSCD1"	"HGNC"	29060	"protein_coding"	""	""	"ENSP00000461865"	""	"I3NI40"	"UPI00025A2D7A"	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"102c96ca-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"8861"	"WSCD1"	339166	"mskcc.org"	"GRCh37"	"17"	5978763	5978763	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-288-4928G>A"	""	""	"ENST00000574946"	""	81	"69"	12	42	"42"	0	"WSCD1,intron_variant,,ENST00000574946,;WSCD1,intron_variant,,ENST00000317744,NM_015253.1;WSCD1,intron_variant,,ENST00000539421,;WSCD1,intron_variant,,ENST00000574232,;WSCD1,intron_variant,,ENST00000573634,;WSCD1,intron_variant,,ENST00000576083,;WSCD1,intron_variant,,ENST00000573619,;WSCD1,upstream_gene_variant,,ENST00000571973,;WSCD1,upstream_gene_variant,,ENST00000576233,;WSCD1,intron_variant,,ENST00000572764,;"	"A"	"ENSG00000179314"	"ENST00000574946"	"Transcript"	"intron_variant"	"-/5884"	"-/1728"	"-/575"	""	""	""	"1"	NA	1	"WSCD1"	"HGNC"	29060	"protein_coding"	"YES"	"CCDS32538.1"	"ENSP00000460825"	"Q658N2"	"I3NI40,I3L3G4,I3L2Y9,I3L127"	"UPI0000197208"	""	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"102c9fe4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"8862"	"TP53"	7157	"mskcc.org"	"GRCh37"	"17"	7585784	7585784	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-29+4911T>G"	""	""	"ENST00000269305"	""	98	"91"	7	50	"50"	0	"TP53,intron_variant,,ENST00000420246,NM_001126114.2,NM_001276696.1;TP53,intron_variant,,ENST00000455263,NM_001276695.1,NM_001126113.2;TP53,intron_variant,,ENST00000269305,NM_001126112.2,NM_001276761.1,NM_001276760.1,NM_000546.5,NM_001126118.1;TP53,intron_variant,,ENST00000445888,;TP53,intron_variant,,ENST00000509690,;TP53,intron_variant,,ENST00000604348,;TP53,intron_variant,,ENST00000503591,;TP53,intron_variant,,ENST00000514944,;WRAP53,upstream_gene_variant,,ENST00000316024,;WRAP53,upstream_gene_variant,,ENST00000457584,NM_001143991.1;WRAP53,upstream_gene_variant,,ENST00000431639,NM_001143990.1;RP11-199F11.2,downstream_gene_variant,,ENST00000571370,;TP53,intron_variant,,ENST00000505014,;"	"C"	"ENSG00000141510"	"ENST00000269305"	"Transcript"	"intron_variant"	"-/2579"	"-/1182"	"-/393"	""	""	""	"1"	NA	-1	"TP53"	"HGNC"	11998	"protein_coding"	"YES"	"CCDS11118.1"	"ENSP00000269305"	"P04637"	"S5LQU8,Q761V2,Q6IT77,Q1HGV1,Q0PKT5,L0ES54,L0EQ05,K7PPA8,H2EHT1,G4Y083,E9PCY9,E7ESS1,E7EMR6,B5AKF6,B4DNI2,A4GWD0,A4GWB8,A4GWB5,A4GW97,A4GW76,A4GW75,A4GW74,A4GW67,A2I9Z1,A2I9Z0"	"UPI000002ED67"	"NM_001126112.2,NM_001276761.1,NM_001276760.1,NM_000546.5,NM_001126118.1"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAG"	"102d4fd4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	TRUE
"8863"	"RP11-401O9.4"	0	"mskcc.org"	"GRCh37"	"17"	10191856	10191856	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000609088"	""	80	"64"	16	50	"50"	0	"RP11-401O9.4,upstream_gene_variant,,ENST00000609088,;"	"G"	"ENSG00000273388"	"ENST00000609088"	"Transcript"	"upstream_gene_variant"	"-/523"	""	""	""	""	""	"1"	"3281"	1	"RP11-401O9.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"102e3354-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"8864"	"MYH13"	8735	"mskcc.org"	"GRCh37"	"17"	10221475	10221475	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3738+632G>A"	""	""	"ENST00000418404"	""	91	"69"	22	62	"62"	0	"MYH13,intron_variant,,ENST00000418404,;MYH13,intron_variant,,ENST00000252172,NM_003802.2;RP11-401O9.3,upstream_gene_variant,,ENST00000577743,;RP11-401O9.4,downstream_gene_variant,,ENST00000609088,;"	"T"	"ENSG00000006788"	"ENST00000418404"	"Transcript"	"intron_variant"	"-/6296"	"-/5817"	"-/1938"	""	""	""	"1"	NA	-1	"MYH13"	"HGNC"	7571	"protein_coding"	"YES"	"CCDS45613.1"	"ENSP00000404570"	"Q9UKX3"	""	"UPI0000DB39EA"	""	""	""	""	"26/40"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"102e35de-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241758241758242	"WGS"	FALSE
"8865"	"CTC-297N7.11"	0	"mskcc.org"	"GRCh37"	"17"	10381353	10381353	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.155+71798G>T"	""	""	"ENST00000587182"	""	73	"60"	13	56	"56"	0	"CTC-297N7.11,intron_variant,,ENST00000587182,;RP11-799N11.1,intron_variant,,ENST00000399342,;RP11-799N11.1,intron_variant,,ENST00000581304,;"	"T"	"ENSG00000272975"	"ENST00000587182"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2274"	""	""	""	""	""	"1"	NA	1	"CTC-297N7.11"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"102e3afc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178082191780822	"WGS"	FALSE
"8866"	"SHISA6"	388336	"mskcc.org"	"GRCh37"	"17"	11191022	11191022	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.799+24179A>C"	""	""	"ENST00000441885"	""	52	"36"	16	27	"27"	0	"SHISA6,intron_variant,,ENST00000441885,NM_207386.3;SHISA6,intron_variant,,ENST00000432116,NM_001173462.1;SHISA6,intron_variant,,ENST00000409168,NM_001173461.1;SHISA6,intron_variant,,ENST00000343478,;RP11-680C21.1,upstream_gene_variant,,ENST00000577346,;"	"C"	"ENSG00000188803"	"ENST00000441885"	"Transcript"	"intron_variant"	"-/7575"	"-/1656"	"-/551"	""	""	""	"1"	NA	1	"SHISA6"	"HGNC"	34491	"protein_coding"	"YES"	"CCDS45615.1"	"ENSP00000390084"	"Q6ZSJ9"	""	"UPI000183CBD8"	"NM_207386.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"102e724c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"8867"	"RP11-131K5.2"	0	"mskcc.org"	"GRCh37"	"17"	13817653	13817653	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000580134"	""	83	"73"	10	60	"60"	0	"RP11-131K5.2,downstream_gene_variant,,ENST00000580134,;COX10-AS1,intron_variant,,ENST00000602743,;"	"T"	"ENSG00000265494"	"ENST00000580134"	"Transcript"	"downstream_gene_variant"	"-/1982"	""	""	""	""	""	"1"	"3124"	1	"RP11-131K5.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"102ef35c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120481927710843	"WGS"	FALSE
"8868"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	16402628	16402628	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"76"	8	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"102fb904-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"8869"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	17980898	17980898	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"87"	7	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"103023e4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"8870"	"SPECC1"	92521	"mskcc.org"	"GRCh37"	"17"	20061423	20061423	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.284-46223G>A"	""	""	"ENST00000261503"	""	94	"75"	19	60	"60"	0	"SPECC1,intron_variant,,ENST00000395530,NM_001033555.2;SPECC1,intron_variant,,ENST00000395529,NM_152904.4;SPECC1,intron_variant,,ENST00000261503,NM_001033553.2;SPECC1,intron_variant,,ENST00000395527,NM_001243439.1;SPECC1,intron_variant,,ENST00000395522,NM_001033554.2,NM_001243438.1;SPECC1,intron_variant,,ENST00000395525,;SPECC1,intron_variant,,ENST00000536879,;SPECC1,intron_variant,,ENST00000581973,;SPECC1,intron_variant,,ENST00000583463,;SPECC1,intron_variant,,ENST00000583482,;SPECC1,intron_variant,,ENST00000472876,;SPECC1,intron_variant,,ENST00000582063,;SPECC1,intron_variant,,ENST00000413167,;SPECC1,intron_variant,,ENST00000579688,;SPECC1,intron_variant,,ENST00000467722,;"	"A"	"ENSG00000128487"	"ENST00000261503"	"Transcript"	"intron_variant"	"-/3948"	"-/3207"	"-/1068"	""	""	""	"1"	NA	1	"SPECC1"	"HGNC"	30615	"protein_coding"	"YES"	"CCDS32590.1"	"ENSP00000261503"	"Q5M775"	"J3QSD6,J3QS22,J3QRQ9,J3QQM0,J3KTI9,J3KS18,J3KRD8,J3KRB9,F5H2Z1,B4DQ24"	"UPI000020187D"	"NM_001033553.2"	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"1030f6ca-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202127659574468	"WGS"	TRUE
"8871"	"AC087499.10"	0	"mskcc.org"	"GRCh37"	"17"	20541467	20541467	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000428134"	""	31	"27"	4	17	"17"	0	"AC087499.10,upstream_gene_variant,,ENST00000428134,;RP11-218E15.1,upstream_gene_variant,,ENST00000578406,;"	"A"	"ENSG00000227685"	"ENST00000428134"	"Transcript"	"upstream_gene_variant"	"-/620"	""	""	""	""	""	"1"	"4920"	-1	"AC087499.10"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"10312e6a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"8872"	"DHRS7B"	25979	"mskcc.org"	"GRCh37"	"17"	21048893	21048893	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.20+18589T>C"	""	""	"ENST00000395511"	""	96	"86"	10	55	"55"	0	"DHRS7B,intron_variant,,ENST00000395511,NM_015510.4;DHRS7B,intron_variant,,ENST00000579303,;DHRS7B,intron_variant,,ENST00000582161,;DHRS7B,intron_variant,,ENST00000578426,;DHRS7B,intron_variant,,ENST00000579099,;"	"C"	"ENSG00000109016"	"ENST00000395511"	"Transcript"	"intron_variant"	"-/2175"	"-/978"	"-/325"	""	""	""	"1"	NA	1	"DHRS7B"	"HGNC"	24547	"protein_coding"	"YES"	"CCDS11215.1"	"ENSP00000378887"	"Q6IAN0"	"J3QKT1"	"UPI00000739CB"	"NM_015510.4"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"103155fc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104166666666667	"WGS"	FALSE
"8873"	"NCOR1P2"	0	"mskcc.org"	"GRCh37"	"17"	21540741	21540741	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.105-3673G>T"	""	""	"ENST00000584728"	""	71	"62"	9	44	"44"	0	"NCOR1P2,intron_variant,,ENST00000584728,;"	"T"	"ENSG00000265019"	"ENST00000584728"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/294"	""	""	""	""	""	"1"	NA	1	"NCOR1P2"	"HGNC"	42997	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"10319936-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126760563380282	"WGS"	FALSE
"8874"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	22068650	22068650	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs188191082"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"89"	7	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs188191082"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0030"	"A:0"	"A:0"	NA	"A:0.0139"	"A:0"	"A:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"1031fdf4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0729166666666667	"WGS"	FALSE
"8875"	"SARM1"	23098	"mskcc.org"	"GRCh37"	"17"	26705326	26705326	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.369-2896G>T"	""	""	"ENST00000457710"	""	98	"73"	25	62	"62"	0	"SARM1,intron_variant,,ENST00000457710,NM_015077.3;TMEM199,intron_variant,,ENST00000509083,;SARM1,intron_variant,,ENST00000379061,;CTB-96E2.3,intron_variant,,ENST00000591482,;"	"T"	"ENSG00000004139"	"ENST00000457710"	"Transcript"	"intron_variant"	"-/7304"	"-/2073"	"-/690"	""	""	""	"1"	NA	1	"SARM1"	"HGNC"	17074	"protein_coding"	"YES"	""	"ENSP00000406738"	""	""	"UPI0000042801"	"NM_015077.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"1033c0ee-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255102040816327	"WGS"	FALSE
"8876"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	27516030	27516030	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"81"	21	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"103423e0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205882352941176	"WGS"	FALSE
"8877"	"SUZ12P"	0	"mskcc.org"	"GRCh37"	"17"	29074965	29074965	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1015+4578C>G"	""	""	"ENST00000582557"	""	109	"101"	8	47	"47"	0	"SUZ12P,intron_variant,,ENST00000582557,;SUZ12P,intron_variant,,ENST00000578070,;SUZ12P,intron_variant,,ENST00000497969,;SUZ12P,intron_variant,,ENST00000579526,;SUZ12P,intron_variant,,ENST00000578195,;"	"G"	"ENSG00000264538"	"ENST00000582557"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1560"	""	""	""	""	""	"1"	NA	1	"SUZ12P"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"1034afcc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.073394495412844	"WGS"	FALSE
"8878"	"RHOT1"	55288	"mskcc.org"	"GRCh37"	"17"	30563625	30563625	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.361-16479A>T"	""	""	"ENST00000580392"	""	83	"63"	20	42	"42"	0	"RHOT1,intron_variant,,ENST00000580392,;RHOT1,intron_variant,,ENST00000584852,;RHOT1,intron_variant,,ENST00000582586,;"	"T"	"ENSG00000126858"	"ENST00000580392"	"Transcript"	"intron_variant"	"-/650"	"-/405"	"-/134"	""	""	""	"1"	NA	1	"RHOT1"	"HGNC"	21168	"protein_coding"	""	""	"ENSP00000463532"	""	""	"UPI000268B0C8"	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"10353fb4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240963855421687	"WGS"	FALSE
"8879"	"ASIC2"	40	"mskcc.org"	"GRCh37"	"17"	31811720	31811720	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.556-372635G>T"	""	""	"ENST00000359872"	""	96	"84"	12	59	"59"	0	"ASIC2,intron_variant,,ENST00000359872,NM_001094.4;"	"A"	"ENSG00000108684"	"ENST00000359872"	"Transcript"	"intron_variant"	"-/3179"	"-/1539"	"-/512"	""	""	""	"1"	NA	-1	"ASIC2"	"HGNC"	99	"protein_coding"	""	"CCDS42296.1"	"ENSP00000352934"	"Q16515"	""	"UPI00000441F0"	"NM_001094.4"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"10358352-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"8880"	"CTC-304I17.5"	0	"mskcc.org"	"GRCh37"	"17"	32483997	32483997	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000583224"	""	101	"77"	24	72	"72"	0	"ASIC2,5_prime_UTR_variant,,ENST00000359872,NM_001094.4;CTC-304I17.5,upstream_gene_variant,,ENST00000583224,;ASIC2,downstream_gene_variant,,ENST00000583395,;"	"T"	"ENSG00000263571"	"ENST00000583224"	"Transcript"	"upstream_gene_variant"	"-/803"	""	""	""	""	""	"1"	"4759"	1	"CTC-304I17.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"10359630-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.237623762376238	"WGS"	FALSE
"8881"	"RP11-215E13.1"	101927239	"mskcc.org"	"GRCh37"	"17"	32500295	32500295	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.893+1284T>C"	""	""	"ENST00000566930"	""	111	"92"	19	60	"60"	0	"RP11-215E13.1,intron_variant,,ENST00000566930,;RP11-215E13.1,intron_variant,,ENST00000580792,;RP11-215E13.1,intron_variant,,ENST00000584724,;RP11-215E13.2,upstream_gene_variant,,ENST00000579438,;AC005549.1,upstream_gene_variant,,ENST00000578120,;ASIC2,intron_variant,,ENST00000583395,;"	"G"	"ENSG00000261156"	"ENST00000566930"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1081"	""	""	""	""	""	"1"	NA	-1	"RP11-215E13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"10359770-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171171171171171	"WGS"	FALSE
"8882"	"RP11-215E13.1"	101927239	"mskcc.org"	"GRCh37"	"17"	32506480	32506480	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.186-88A>C"	""	""	"ENST00000566930"	""	82	"75"	7	59	"59"	0	"RP11-215E13.1,intron_variant,,ENST00000566930,;RP11-215E13.1,intron_variant,,ENST00000580792,;RP11-215E13.1,intron_variant,,ENST00000584724,;RP11-215E13.2,downstream_gene_variant,,ENST00000579438,;AC005549.2,downstream_gene_variant,,ENST00000583716,;ASIC2,upstream_gene_variant,,ENST00000583395,;"	"G"	"ENSG00000261156"	"ENST00000566930"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1081"	""	""	""	""	""	"1"	NA	-1	"RP11-215E13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"10359810-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"8883"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	37144886	37144886	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"64"	5	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"1036f502-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072463768115942	"WGS"	FALSE
"8884"	"RNU6-233P"	0	"mskcc.org"	"GRCh37"	"17"	37702198	37702198	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000410845"	""	71	"65"	6	57	"57"	0	"RNU6-233P,downstream_gene_variant,,ENST00000410845,;CDK12,upstream_gene_variant,,ENST00000559545,;CDK12,upstream_gene_variant,,ENST00000558240,;CDK12,intron_variant,,ENST00000559663,;CDK12,intron_variant,,ENST00000581963,;CDK12,upstream_gene_variant,,ENST00000585161,;"	"C"	"ENSG00000222777"	"ENST00000410845"	"Transcript"	"downstream_gene_variant"	"-/141"	""	""	""	""	""	"1"	"159"	-1	"RNU6-233P"	"HGNC"	47196	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"10373918-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"8885"	"SMARCE1"	6605	"mskcc.org"	"GRCh37"	"17"	38805599	38805599	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000348513"	""	106	"83"	23	56	"56"	0	"SMARCE1,upstream_gene_variant,,ENST00000348513,NM_003079.4;SMARCE1,upstream_gene_variant,,ENST00000474246,;SMARCE1,upstream_gene_variant,,ENST00000544009,;SMARCE1,upstream_gene_variant,,ENST00000431889,;SMARCE1,upstream_gene_variant,,ENST00000377808,;SMARCE1,upstream_gene_variant,,ENST00000400122,;SMARCE1,upstream_gene_variant,,ENST00000580419,;SMARCE1,upstream_gene_variant,,ENST00000578044,;SMARCE1,upstream_gene_variant,,ENST00000478349,;SMARCE1,upstream_gene_variant,,ENST00000582955,;SMARCE1,upstream_gene_variant,,ENST00000580654,;SMARCE1,upstream_gene_variant,,ENST00000577721,;KRT222,intron_variant,,ENST00000476049,;SMARCE1,upstream_gene_variant,,ENST00000578112,;SMARCE1,upstream_gene_variant,,ENST00000493660,;SMARCE1,upstream_gene_variant,,ENST00000469334,;SMARCE1,upstream_gene_variant,,ENST00000481231,;"	"G"	"ENSG00000073584"	"ENST00000348513"	"Transcript"	"upstream_gene_variant"	"-/5840"	"-/1236"	"-/411"	""	""	""	"1"	"839"	-1	"SMARCE1"	"HGNC"	11109	"protein_coding"	"YES"	"CCDS11370.1"	"ENSP00000323967"	"Q969G3"	"J3QR61,J3QKX6,J3KT85,C0IMW8,B4DGM3"	"UPI000006FB55"	"NM_003079.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"1037ad12-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216981132075472	"WGS"	TRUE
"8886"	"KRT222"	125113	"mskcc.org"	"GRCh37"	"17"	38817326	38817326	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.225+842T>A"	""	""	"ENST00000394052"	""	79	"73"	6	36	"36"	0	"KRT222,intron_variant,,ENST00000394052,NM_152349.2;AC073508.1,upstream_gene_variant,,ENST00000607244,;KRT222,intron_variant,,ENST00000394049,;KRT222,intron_variant,,ENST00000476049,;KRT222,intron_variant,,ENST00000581564,;KRT222,intron_variant,,ENST00000580719,;"	"T"	"ENSG00000213424"	"ENST00000394052"	"Transcript"	"intron_variant"	"-/1102"	"-/888"	"-/295"	""	""	""	"1"	NA	-1	"KRT222"	"HGNC"	28695	"protein_coding"	"YES"	"CCDS11371.1"	"ENSP00000377616"	"Q8N1A0"	""	"UPI0000072F8A"	"NM_152349.2"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"1037af9c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"8887"	"RP11-605F20.1"	0	"mskcc.org"	"GRCh37"	"17"	38968500	38968500	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000582101"	""	90	"75"	15	60	"60"	0	"RP11-605F20.1,downstream_gene_variant,,ENST00000582101,;"	"A"	"ENSG00000264488"	"ENST00000582101"	"Transcript"	"downstream_gene_variant"	"-/265"	""	""	""	""	""	"1"	"2952"	1	"RP11-605F20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"1037b370-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"8888"	"KRT15"	3866	"mskcc.org"	"GRCh37"	"17"	39666098	39666098	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000254043"	""	88	"72"	16	52	"52"	0	"KRT15,downstream_gene_variant,,ENST00000254043,NM_002275.3;KRT15,downstream_gene_variant,,ENST00000393974,;KRT15,downstream_gene_variant,,ENST00000393981,;KRT15,downstream_gene_variant,,ENST00000393976,;KRT13,upstream_gene_variant,,ENST00000246635,NM_153490.2;KRT13,upstream_gene_variant,,ENST00000336861,NM_002274.3;KRT13,upstream_gene_variant,,ENST00000587544,;KRT13,upstream_gene_variant,,ENST00000590425,;KRT13,upstream_gene_variant,,ENST00000587435,;KRT15,downstream_gene_variant,,ENST00000474031,;KRT13,upstream_gene_variant,,ENST00000468313,;KRT13,upstream_gene_variant,,ENST00000464634,;KRT15,downstream_gene_variant,,ENST00000586794,;"	"G"	"ENSG00000171346"	"ENST00000254043"	"Transcript"	"downstream_gene_variant"	"-/5237"	"-/1371"	"-/456"	""	""	""	"1"	"3897"	-1	"KRT15"	"HGNC"	6421	"protein_coding"	"YES"	"CCDS11398.1"	"ENSP00000254043"	"P19012"	""	"UPI000013CE0E"	"NM_002275.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"1037e8e0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"8889"	"KRT15"	3866	"mskcc.org"	"GRCh37"	"17"	39669439	39669439	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000254043"	""	59	"49"	10	59	"59"	0	"KRT15,downstream_gene_variant,,ENST00000254043,NM_002275.3;KRT15,downstream_gene_variant,,ENST00000393974,;KRT15,downstream_gene_variant,,ENST00000393981,;KRT15,downstream_gene_variant,,ENST00000393976,;KRT15,downstream_gene_variant,,ENST00000458290,;KRT15,downstream_gene_variant,,ENST00000474031,;KRT15,downstream_gene_variant,,ENST00000497016,;KRT15,downstream_gene_variant,,ENST00000463447,;KRT15,downstream_gene_variant,,ENST00000470004,;KRT15,downstream_gene_variant,,ENST00000586794,;"	"T"	"ENSG00000171346"	"ENST00000254043"	"Transcript"	"downstream_gene_variant"	"-/5237"	"-/1371"	"-/456"	""	""	""	"1"	"556"	-1	"KRT15"	"HGNC"	6421	"protein_coding"	"YES"	"CCDS11398.1"	"ENSP00000254043"	"P19012"	""	"UPI000013CE0E"	"NM_002275.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"1037e98a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.169491525423729	"WGS"	FALSE
"8890"	"ACLY"	47	"mskcc.org"	"GRCh37"	"17"	40056316	40056316	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1184-1278A>G"	""	""	"ENST00000352035"	""	52	"42"	10	34	"34"	0	"ACLY,intron_variant,,ENST00000352035,NM_001096.2;ACLY,intron_variant,,ENST00000353196,NM_198830.1;ACLY,intron_variant,,ENST00000590151,;ACLY,intron_variant,,ENST00000393896,;ACLY,intron_variant,,ENST00000537919,;ACLY,intron_variant,,ENST00000590770,;ACLY,downstream_gene_variant,,ENST00000588547,;"	"C"	"ENSG00000131473"	"ENST00000352035"	"Transcript"	"intron_variant"	"-/4339"	"-/3306"	"-/1101"	""	""	""	"1"	NA	-1	"ACLY"	"HGNC"	115	"protein_coding"	"YES"	"CCDS11412.1"	"ENSP00000253792"	"P53396"	"Q4LE36,K7ESG8,K7EIE7"	"UPI000013CDF3"	"NM_001096.2"	""	""	""	"11/28"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"10381a18-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WGS"	FALSE
"8891"	"DHX8"	1659	"mskcc.org"	"GRCh37"	"17"	41560200	41560200	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000262415"	""	65	"58"	7	51	"51"	0	"DHX8,upstream_gene_variant,,ENST00000262415,NM_004941.1;DHX8,upstream_gene_variant,,ENST00000540306,;DHX8,upstream_gene_variant,,ENST00000605777,;DHX8,upstream_gene_variant,,ENST00000592258,;"	"C"	"ENSG00000067596"	"ENST00000262415"	"Transcript"	"upstream_gene_variant"	"-/5558"	"-/3663"	"-/1220"	""	""	""	"1"	"1134"	1	"DHX8"	"HGNC"	2749	"protein_coding"	"YES"	"CCDS11464.1"	"ENSP00000262415"	"Q14562"	""	"UPI00001290D9"	"NM_004941.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"1038bb12-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107692307692308	"WGS"	FALSE
"8892"	"C17orf53"	78995	"mskcc.org"	"GRCh37"	"17"	42243331	42243331	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000319977"	""	98	"92"	6	39	"39"	0	"C17orf53,downstream_gene_variant,,ENST00000319977,NM_024032.3,NM_001171251.1;C17orf53,downstream_gene_variant,,ENST00000585683,;C17orf53,downstream_gene_variant,,ENST00000245382,;ASB16,upstream_gene_variant,,ENST00000293414,NM_080863.4;ASB16,upstream_gene_variant,,ENST00000591700,;ASB16,upstream_gene_variant,,ENST00000589618,;C17orf53,downstream_gene_variant,,ENST00000588073,;"	"T"	"ENSG00000125319"	"ENST00000319977"	"Transcript"	"downstream_gene_variant"	"-/2725"	"-/1944"	"-/647"	""	""	""	"1"	"3487"	1	"C17orf53"	"HGNC"	28460	"protein_coding"	"YES"	"CCDS11477.1"	"ENSP00000313500"	"Q8N3J3"	""	"UPI0000073E49"	"NM_024032.3,NM_001171251.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"1038f942-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0612244897959184	"WGS"	FALSE
"8893"	"C1QL1"	10882	"mskcc.org"	"GRCh37"	"17"	43032377	43032377	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000253407"	""	89	"80"	9	52	"52"	0	"C1QL1,downstream_gene_variant,,ENST00000253407,NM_006688.3;"	"C"	"ENSG00000131094"	"ENST00000253407"	"Transcript"	"downstream_gene_variant"	"-/1295"	"-/777"	"-/258"	""	""	""	"1"	"4684"	-1	"C1QL1"	"HGNC"	24182	"protein_coding"	"YES"	"CCDS11492.1"	"ENSP00000253407"	"O75973"	""	"UPI0000126BF5"	"NM_006688.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"103945a0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101123595505618	"WGS"	FALSE
"8894"	"KANSL1"	284058	"mskcc.org"	"GRCh37"	"17"	44163391	44163391	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1432-3483T>G"	""	""	"ENST00000262419"	""	119	"106"	13	54	"54"	0	"KANSL1,intron_variant,,ENST00000262419,NM_001193466.1;KANSL1,intron_variant,,ENST00000393476,;KANSL1,intron_variant,,ENST00000574590,NM_001193465.1;KANSL1,intron_variant,,ENST00000572904,NM_015443.3;KANSL1,intron_variant,,ENST00000432791,;KANSL1,intron_variant,,ENST00000575318,;KANSL1,intron_variant,,ENST00000577114,;"	"C"	"ENSG00000120071"	"ENST00000262419"	"Transcript"	"intron_variant"	"-/5309"	"-/3318"	"-/1105"	""	""	""	"1"	NA	-1	"KANSL1"	"HGNC"	24565	"protein_coding"	"YES"	"CCDS11503.1"	"ENSP00000262419"	"Q7Z3B3"	"I3L243,I3L233"	"UPI0001AE66EA"	"NM_001193466.1"	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"10399dde-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109243697478992	"WGS"	FALSE
"8895"	"SKAP1"	8631	"mskcc.org"	"GRCh37"	"17"	46502113	46502113	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.46+5324C>T"	""	""	"ENST00000336915"	""	41	"36"	5	26	"26"	0	"SKAP1,intron_variant,,ENST00000336915,NM_003726.3,NM_001075099.1;SKAP1,intron_variant,,ENST00000584924,;SKAP1,intron_variant,,ENST00000584709,;"	"A"	"ENSG00000141293"	"ENST00000336915"	"Transcript"	"intron_variant"	"-/1534"	"-/1080"	"-/359"	""	""	""	"1"	NA	-1	"SKAP1"	"HGNC"	15605	"protein_coding"	"YES"	"CCDS32674.1"	"ENSP00000338171"	"Q86WV1"	"J3QS38,J3QRG3"	"UPI0000200EFD"	"NM_003726.3,NM_001075099.1"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"103a4d92-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WGS"	FALSE
"8896"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	50756062	50756062	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"71"	6	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"103ba58e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"8897"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	52488737	52488737	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs751822887"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"69"	21	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs751822887"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"103bdf22-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WGS"	FALSE
"8898"	"STXBP4"	252983	"mskcc.org"	"GRCh37"	"17"	53133772	53133772	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1011+9257A>T"	""	""	"ENST00000376352"	""	100	"83"	17	68	"68"	0	"STXBP4,intron_variant,,ENST00000376352,NM_178509.5;STXBP4,intron_variant,,ENST00000434978,;"	"T"	"ENSG00000166263"	"ENST00000376352"	"Transcript"	"intron_variant"	"-/6243"	"-/1662"	"-/553"	""	""	""	"1"	NA	1	"STXBP4"	"HGNC"	19694	"protein_coding"	"YES"	"CCDS11584.2"	"ENSP00000365530"	"Q6ZWJ1"	""	"UPI000050D3EE"	"NM_178509.5"	""	""	""	"12/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"103befb2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.17	"WGS"	FALSE
"8899"	"SCPEP1"	59342	"mskcc.org"	"GRCh37"	"17"	55086126	55086126	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000262288"	""	85	"71"	14	65	"65"	0	"SCPEP1,downstream_gene_variant,,ENST00000262288,NM_021626.2;SCPEP1,downstream_gene_variant,,ENST00000573239,;SCPEP1,downstream_gene_variant,,ENST00000576154,;SCPEP1,downstream_gene_variant,,ENST00000575423,;SCPEP1,downstream_gene_variant,,ENST00000570479,;"	"A"	"ENSG00000121064"	"ENST00000262288"	"Transcript"	"downstream_gene_variant"	"-/1942"	"-/1359"	"-/452"	""	""	""	"1"	"2002"	1	"SCPEP1"	"HGNC"	29507	"protein_coding"	"YES"	"CCDS11593.1"	"ENSP00000262288"	"Q9HB40"	"I3L506"	"UPI0000038BD2"	"NM_021626.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"103c6ce4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164705882352941	"WGS"	FALSE
"8900"	"HSF5"	124535	"mskcc.org"	"GRCh37"	"17"	56543522	56543522	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1020+724G>A"	""	""	"ENST00000323777"	""	76	"53"	23	51	"51"	0	"HSF5,intron_variant,,ENST00000323777,NM_001080439.1;"	"T"	"ENSG00000176160"	"ENST00000323777"	"Transcript"	"intron_variant"	"-/4094"	"-/1791"	"-/596"	""	""	""	"1"	NA	-1	"HSF5"	"HGNC"	26862	"protein_coding"	"YES"	"CCDS32690.1"	"ENSP00000313243"	"Q4G112"	""	"UPI0000161929"	"NM_001080439.1"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"103cc248-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302631578947368	"WGS"	FALSE
"8901"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	60194534	60194534	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"82"	23	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"103dd5d4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219047619047619	"WGS"	FALSE
"8902"	"TLK2"	11011	"mskcc.org"	"GRCh37"	"17"	60565370	60565370	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.81+6803T>G"	""	""	"ENST00000346027"	""	101	"92"	9	49	"49"	0	"TLK2,intron_variant,,ENST00000582809,;TLK2,intron_variant,,ENST00000326270,NM_001284333.1;TLK2,intron_variant,,ENST00000346027,NM_006852.3;TLK2,intron_variant,,ENST00000343388,NM_001112707.1,NM_001284363.1;TLK2,intron_variant,,ENST00000542523,;TLK2,intron_variant,,ENST00000581041,;TLK2,intron_variant,,ENST00000583843,;TLK2,intron_variant,,ENST00000579450,;TLK2,intron_variant,,ENST00000580705,;TLK2,intron_variant,,ENST00000582195,;TLK2,intron_variant,,ENST00000577616,;TLK2,intron_variant,,ENST00000583690,;"	"G"	"ENSG00000146872"	"ENST00000346027"	"Transcript"	"intron_variant"	"-/3449"	"-/2253"	"-/750"	""	""	""	"1"	NA	1	"TLK2"	"HGNC"	11842	"protein_coding"	"YES"	"CCDS11633.1"	"ENSP00000275780"	"Q86UE8"	"J3QS73,J3QQN4,J3QLK5,J3KST4"	"UPI00001B6B0F"	"NM_006852.3"	""	""	""	"2/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"103e007c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0891089108910891	"WGS"	FALSE
"8903"	"RP11-180P8.1"	0	"mskcc.org"	"GRCh37"	"17"	61008887	61008887	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000582505"	""	91	"85"	6	59	"59"	0	"RP11-180P8.1,downstream_gene_variant,,ENST00000582505,;"	"T"	"ENSG00000263931"	"ENST00000582505"	"Transcript"	"downstream_gene_variant"	"-/498"	""	""	""	""	""	"1"	"3876"	-1	"RP11-180P8.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"103e2444-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"8904"	"MAP3K3"	4215	"mskcc.org"	"GRCh37"	"17"	61767326	61767326	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1156+231C>T"	""	""	"ENST00000361357"	""	116	"94"	22	68	"68"	0	"MAP3K3,intron_variant,,ENST00000361357,NM_203351.1;MAP3K3,intron_variant,,ENST00000361733,NM_002401.3;MAP3K3,intron_variant,,ENST00000579585,;MAP3K3,intron_variant,,ENST00000584573,;MAP3K3,intron_variant,,ENST00000577395,;MAP3K3,downstream_gene_variant,,ENST00000577784,;MAP3K3,non_coding_transcript_exon_variant,,ENST00000577839,;MAP3K3,intron_variant,,ENST00000577597,;MAP3K3,downstream_gene_variant,,ENST00000585302,;MAP3K3,upstream_gene_variant,,ENST00000581732,;MAP3K3,downstream_gene_variant,,ENST00000578622,;"	"T"	"ENSG00000198909"	"ENST00000361357"	"Transcript"	"intron_variant"	"-/4818"	"-/1974"	"-/657"	""	""	""	"1"	NA	1	"MAP3K3"	"HGNC"	6855	"protein_coding"	"YES"	"CCDS32701.1"	"ENSP00000354927"	"Q99759"	"Q7Z4E6"	"UPI0000074003"	"NM_203351.1"	""	""	""	"12/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"103e5f36-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189655172413793	"WGS"	FALSE
"8905"	"TEX2"	55852	"mskcc.org"	"GRCh37"	"17"	62270533	62270533	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2176+386G>A"	""	""	"ENST00000258991"	""	91	"75"	16	43	"43"	0	"TEX2,intron_variant,,ENST00000258991,NM_001288732.1,NM_001288733.1;TEX2,intron_variant,,ENST00000583097,;TEX2,intron_variant,,ENST00000584379,NM_018469.3;TEX2,intron_variant,,ENST00000583501,;TEX2,upstream_gene_variant,,ENST00000577489,;"	"T"	"ENSG00000136478"	"ENST00000258991"	"Transcript"	"intron_variant"	"-/5232"	"-/3405"	"-/1134"	""	""	""	"1"	NA	-1	"TEX2"	"HGNC"	30884	"protein_coding"	"YES"	"CCDS11658.1"	"ENSP00000258991"	"Q8IWB9"	"Q9NX99,J3QKY0,J3KRY2"	"UPI00001AE7BC"	"NM_001288732.1,NM_001288733.1"	""	""	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"103e8754-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175824175824176	"WGS"	FALSE
"8906"	"CTD-2535L24.2"	0	"mskcc.org"	"GRCh37"	"17"	63575362	63575362	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*61-20508C>G"	""	""	"ENST00000577662"	""	98	"85"	13	60	"60"	0	"CTD-2535L24.2,intron_variant,,ENST00000577662,;"	"C"	"ENSG00000266076"	"ENST00000577662"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/1616"	"-/141"	"-/46"	""	""	""	"1"	NA	-1	"CTD-2535L24.2"	"Clone_based_vega_gene"	NA	"nonsense_mediated_decay"	"YES"	""	"ENSP00000462418"	""	""	"UPI000268B17F"	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"103ee708-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13265306122449	"WGS"	FALSE
"8907"	"CEP112"	201134	"mskcc.org"	"GRCh37"	"17"	63848426	63848426	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2164-274G>A"	""	""	"ENST00000392769"	""	22	"18"	4	11	"11"	0	"CEP112,intron_variant,,ENST00000392769,NM_145036.3;CEP112,intron_variant,,ENST00000535342,NM_001199165.1;CEP112,intron_variant,,ENST00000537949,;CEP112,intron_variant,,ENST00000541355,;CEP112,intron_variant,,ENST00000580482,;CEP112,intron_variant,,ENST00000580694,;CEP112,intron_variant,,ENST00000584627,;CEP112,intron_variant,,ENST00000582795,;CEP112,intron_variant,,ENST00000584987,;CEP112,intron_variant,,ENST00000582861,;"	"T"	"ENSG00000154240"	"ENST00000392769"	"Transcript"	"intron_variant"	"-/3517"	"-/2868"	"-/955"	""	""	""	"1"	NA	-1	"CEP112"	"HGNC"	28514	"protein_coding"	"YES"	"CCDS32710.1"	"ENSP00000376522"	"Q8N8E3"	"J3QQV3"	"UPI0000603C26"	"NM_145036.3"	""	""	""	"20/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"103ef126-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"8908"	"CEP112"	201134	"mskcc.org"	"GRCh37"	"17"	63860433	63860433	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2164-12281G>T"	""	""	"ENST00000392769"	""	98	"76"	22	48	"48"	0	"CEP112,intron_variant,,ENST00000392769,NM_145036.3;CEP112,intron_variant,,ENST00000535342,NM_001199165.1;CEP112,intron_variant,,ENST00000537949,;CEP112,intron_variant,,ENST00000541355,;CEP112,intron_variant,,ENST00000580482,;CEP112,intron_variant,,ENST00000580694,;CEP112,intron_variant,,ENST00000584627,;CEP112,intron_variant,,ENST00000582795,;CEP112,intron_variant,,ENST00000584987,;CEP112,intron_variant,,ENST00000582861,;"	"A"	"ENSG00000154240"	"ENST00000392769"	"Transcript"	"intron_variant"	"-/3517"	"-/2868"	"-/955"	""	""	""	"1"	NA	-1	"CEP112"	"HGNC"	28514	"protein_coding"	"YES"	"CCDS32710.1"	"ENSP00000376522"	"Q8N8E3"	"J3QQV3"	"UPI0000603C26"	"NM_145036.3"	""	""	""	"20/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"103ef324-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224489795918367	"WGS"	FALSE
"8909"	"PRKCA"	5578	"mskcc.org"	"GRCh37"	"17"	64314860	64314860	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.205+12615T>A"	""	""	"ENST00000413366"	""	87	"79"	8	48	"48"	0	"PRKCA,intron_variant,,ENST00000413366,NM_002737.2;PRKCA,intron_variant,,ENST00000583361,;PRKCA,intron_variant,,ENST00000284384,;PRKCA,intron_variant,,ENST00000578063,;"	"A"	"ENSG00000154229"	"ENST00000413366"	"Transcript"	"intron_variant"	"-/8751"	"-/2019"	"-/672"	""	""	""	"1"	NA	1	"PRKCA"	"HGNC"	9393	"protein_coding"	"YES"	"CCDS11664.1"	"ENSP00000408695"	"P17252"	"L7RSM7"	"UPI000013DD98"	"NM_002737.2"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"103f1688-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"8910"	"PRKCA"	5578	"mskcc.org"	"GRCh37"	"17"	64314887	64314887	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.205+12642T>C"	""	""	"ENST00000413366"	""	85	"77"	8	47	"47"	0	"PRKCA,intron_variant,,ENST00000413366,NM_002737.2;PRKCA,intron_variant,,ENST00000583361,;PRKCA,intron_variant,,ENST00000284384,;PRKCA,intron_variant,,ENST00000578063,;"	"C"	"ENSG00000154229"	"ENST00000413366"	"Transcript"	"intron_variant"	"-/8751"	"-/2019"	"-/672"	""	""	""	"1"	NA	1	"PRKCA"	"HGNC"	9393	"protein_coding"	"YES"	"CCDS11664.1"	"ENSP00000408695"	"P17252"	"L7RSM7"	"UPI000013DD98"	"NM_002737.2"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"103f175a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"8911"	"PRKCA"	5578	"mskcc.org"	"GRCh37"	"17"	64314905	64314905	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.205+12660A>G"	""	""	"ENST00000413366"	""	93	"87"	6	46	"46"	0	"PRKCA,intron_variant,,ENST00000413366,NM_002737.2;PRKCA,intron_variant,,ENST00000583361,;PRKCA,intron_variant,,ENST00000284384,;PRKCA,intron_variant,,ENST00000578063,;"	"G"	"ENSG00000154229"	"ENST00000413366"	"Transcript"	"intron_variant"	"-/8751"	"-/2019"	"-/672"	""	""	""	"1"	NA	1	"PRKCA"	"HGNC"	9393	"protein_coding"	"YES"	"CCDS11664.1"	"ENSP00000408695"	"P17252"	"L7RSM7"	"UPI000013DD98"	"NM_002737.2"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"103f180e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"8912"	"PRKCA"	5578	"mskcc.org"	"GRCh37"	"17"	64314941	64314941	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.205+12696C>G"	""	""	"ENST00000413366"	""	93	"87"	6	49	"49"	0	"PRKCA,intron_variant,,ENST00000413366,NM_002737.2;PRKCA,intron_variant,,ENST00000583361,;PRKCA,intron_variant,,ENST00000284384,;PRKCA,intron_variant,,ENST00000578063,;"	"G"	"ENSG00000154229"	"ENST00000413366"	"Transcript"	"intron_variant"	"-/8751"	"-/2019"	"-/672"	""	""	""	"1"	NA	1	"PRKCA"	"HGNC"	9393	"protein_coding"	"YES"	"CCDS11664.1"	"ENSP00000408695"	"P17252"	"L7RSM7"	"UPI000013DD98"	"NM_002737.2"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"103f18b8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"8913"	"PRKCA"	5578	"mskcc.org"	"GRCh37"	"17"	64764970	64764970	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1525-5135A>G"	""	""	"ENST00000413366"	""	106	"92"	14	51	"51"	0	"PRKCA,intron_variant,,ENST00000413366,NM_002737.2;PRKCA,intron_variant,,ENST00000284384,;"	"G"	"ENSG00000154229"	"ENST00000413366"	"Transcript"	"intron_variant"	"-/8751"	"-/2019"	"-/672"	""	""	""	"1"	NA	1	"PRKCA"	"HGNC"	9393	"protein_coding"	"YES"	"CCDS11664.1"	"ENSP00000408695"	"P17252"	"L7RSM7"	"UPI000013DD98"	"NM_002737.2"	""	""	""	"13/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"103f2812-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.132075471698113	"WGS"	FALSE
"8914"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	68590836	68590836	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"82"	21	52	"52"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"1040ac46-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203883495145631	"WGS"	FALSE
"8915"	"CTD-2532D12.4"	0	"mskcc.org"	"GRCh37"	"17"	71745747	71745747	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.167-977A>G"	""	""	"ENST00000583854"	""	72	"65"	7	40	"40"	0	"CTD-2532D12.4,intron_variant,,ENST00000583854,;LINC00469,downstream_gene_variant,,ENST00000321800,;LINC00469,downstream_gene_variant,,ENST00000544677,;"	"G"	"ENSG00000263574"	"ENST00000583854"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1140"	""	""	""	""	""	"1"	NA	1	"CTD-2532D12.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"10417d9c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"8916"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	75703352	75703352	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"86"	11	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"10433fe2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.11340206185567	"WGS"	FALSE
"8917"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	80467096	80467096	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"58"	9	24	"24"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"1045d766-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134328358208955	"WGS"	FALSE
"8918"	"B3GNTL1"	146712	"mskcc.org"	"GRCh37"	"17"	80934289	80934289	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.505-10667C>T"	""	""	"ENST00000320865"	""	21	"17"	4	12	"12"	0	"B3GNTL1,intron_variant,,ENST00000576599,;B3GNTL1,intron_variant,,ENST00000320865,NM_001009905.1;RP11-1197K16.2,upstream_gene_variant,,ENST00000576197,;RP11-1197K16.2,upstream_gene_variant,,ENST00000573207,;RP11-1197K16.2,upstream_gene_variant,,ENST00000574647,;RP11-1197K16.2,upstream_gene_variant,,ENST00000577023,;B3GNTL1,intron_variant,,ENST00000571954,;B3GNTL1,intron_variant,,ENST00000570947,;B3GNTL1,intron_variant,,ENST00000572977,;"	"A"	"ENSG00000175711"	"ENST00000320865"	"Transcript"	"intron_variant"	"-/1383"	"-/1086"	"-/361"	""	""	""	"1"	NA	-1	"B3GNTL1"	"HGNC"	21727	"protein_coding"	"YES"	"CCDS32778.1"	"ENSP00000319979"	"Q67FW5"	"I3L232"	"UPI00003B5C5A"	"NM_001009905.1"	""	""	""	"6/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"1046455c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"8919"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	2457813	2457813	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"79"	21	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"1047a2ee-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21	"WGS"	FALSE
"8920"	"TWSG1"	57045	"mskcc.org"	"GRCh37"	"18"	9385460	9385460	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.224-10818G>A"	""	""	"ENST00000262120"	""	42	"37"	5	24	"24"	0	"TWSG1,intron_variant,,ENST00000262120,NM_020648.5;TWSG1,intron_variant,,ENST00000581641,;TWSG1,intron_variant,,ENST00000583147,;"	"A"	"ENSG00000128791"	"ENST00000262120"	"Transcript"	"intron_variant"	"-/3756"	"-/672"	"-/223"	""	""	""	"1"	NA	1	"TWSG1"	"HGNC"	12429	"protein_coding"	"YES"	"CCDS11844.1"	"ENSP00000262120"	"Q9GZX9"	""	"UPI0000071AF6"	"NM_020648.5"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"1048e3f2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"8921"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	14281780	14281780	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs188035428"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"44"	5	30	"30"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs188035428"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0130"	"T:0.0461"	"T:0.0058"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"104a535e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WGS"	FALSE
"8922"	"RP11-757O6.4"	0	"mskcc.org"	"GRCh37"	"18"	14358290	14358290	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000584979"	""	94	"81"	13	58	"58"	0	"RP11-757O6.4,downstream_gene_variant,,ENST00000584979,;"	"A"	"ENSG00000265437"	"ENST00000584979"	"Transcript"	"downstream_gene_variant"	"-/510"	""	""	""	""	""	"1"	"3143"	-1	"RP11-757O6.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"104a5f20-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138297872340426	"WGS"	FALSE
"8923"	"FEM1AP2"	0	"mskcc.org"	"GRCh37"	"18"	14396068	14396068	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000581547"	""	98	"92"	6	45	"45"	0	"FEM1AP2,upstream_gene_variant,,ENST00000581547,;"	"A"	"ENSG00000265296"	"ENST00000581547"	"Transcript"	"upstream_gene_variant"	"-/1997"	""	""	""	""	""	"1"	"2160"	-1	"FEM1AP2"	"HGNC"	39830	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"104a6114-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0612244897959184	"WGS"	FALSE
"8924"	"ESCO1"	114799	"mskcc.org"	"GRCh37"	"18"	19156948	19156948	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-693-1210A>G"	""	""	"ENST00000269214"	""	101	"90"	11	54	"54"	0	"ESCO1,intron_variant,,ENST00000269214,NM_052911.2;ESCO1,intron_variant,,ENST00000383276,;"	"C"	"ENSG00000141446"	"ENST00000269214"	"Transcript"	"intron_variant"	"-/4523"	"-/2523"	"-/840"	""	""	""	"1"	NA	-1	"ESCO1"	"HGNC"	24645	"protein_coding"	"YES"	"CCDS32800.1"	"ENSP00000269214"	"Q5FWF5"	""	"UPI00001C1FF4"	"NM_052911.2"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"104b4962-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108910891089109	"WGS"	FALSE
"8925"	"RP11-268I9.3"	0	"mskcc.org"	"GRCh37"	"18"	19460157	19460157	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.138-8471C>G"	""	""	"ENST00000583436"	""	71	"65"	6	50	"50"	0	"RP11-268I9.3,intron_variant,,ENST00000583436,;RNU6-1038P,downstream_gene_variant,,ENST00000516516,;"	"C"	"ENSG00000264149"	"ENST00000583436"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/417"	""	""	""	""	""	"1"	NA	-1	"RP11-268I9.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"104b64c4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"8926"	"TAF4B"	6875	"mskcc.org"	"GRCh37"	"18"	23850396	23850396	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.597+2809G>A"	""	""	"ENST00000269142"	""	110	"90"	20	46	"46"	0	"TAF4B,intron_variant,,ENST00000269142,NM_005640.1;TAF4B,intron_variant,,ENST00000578121,;TAF4B,intron_variant,,ENST00000400466,;RP11-25D3.1,downstream_gene_variant,,ENST00000580975,;TAF4B,intron_variant,,ENST00000418698,;"	"A"	"ENSG00000141384"	"ENST00000269142"	"Transcript"	"intron_variant"	"-/5260"	"-/2589"	"-/862"	""	""	""	"1"	NA	1	"TAF4B"	"HGNC"	11538	"protein_coding"	"YES"	"CCDS42421.1"	"ENSP00000269142"	"Q92750"	"B4DYT3,A4PBF8"	"UPI00006C65F2"	"NM_005640.1"	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"104c2d00-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"8927"	"CHST9"	83539	"mskcc.org"	"GRCh37"	"18"	24598891	24598891	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.202+5189G>C"	""	""	"ENST00000284224"	""	77	"63"	14	58	"58"	0	"CHST9,intron_variant,,ENST00000284224,NM_031422.5;CHST9,intron_variant,,ENST00000581714,;CHST9,intron_variant,,ENST00000580774,NM_001256316.1;AQP4-AS1,intron_variant,,ENST00000578701,;"	"G"	"ENSG00000154080"	"ENST00000284224"	"Transcript"	"intron_variant"	"-/2238"	"-/1332"	"-/443"	""	""	""	"1"	NA	-1	"CHST9"	"HGNC"	19898	"protein_coding"	"YES"	"CCDS42422.1"	"ENSP00000284224"	"Q7L1S5"	""	"UPI000006EC67"	"NM_031422.5"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"104c57ee-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"8928"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	26461360	26461360	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs779302888"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"57"	9	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs779302888"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"104c9cc2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"8929"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	27962007	27962007	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"51"	18	66	"66"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"104cbbd0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"8930"	"ELP2"	55250	"mskcc.org"	"GRCh37"	"18"	33711348	33711348	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.138+1314G>T"	""	""	"ENST00000442325"	""	107	"93"	14	58	"58"	0	"ELP2,intron_variant,,ENST00000358232,NM_018255.2;ELP2,intron_variant,,ENST00000442325,NM_001242875.1;ELP2,intron_variant,,ENST00000350494,NM_001242876.1;ELP2,intron_variant,,ENST00000351393,NM_001242877.1;ELP2,intron_variant,,ENST00000423854,NM_001242879.1;ELP2,intron_variant,,ENST00000542824,NM_001242878.1;ELP2,intron_variant,,ENST00000543127,;SLC39A6,upstream_gene_variant,,ENST00000269187,NM_012319.3;SLC39A6,upstream_gene_variant,,ENST00000590986,;SLC39A6,upstream_gene_variant,,ENST00000440549,NM_001099406.1;ELP2,intron_variant,,ENST00000540135,;ELP2,intron_variant,,ENST00000539560,;ELP2,intron_variant,,ENST00000535488,;ELP2,intron_variant,,ENST00000542430,;ELP2,intron_variant,,ENST00000541190,;ELP2,intron_variant,,ENST00000545632,;ELP2,intron_variant,,ENST00000544267,;ELP2,intron_variant,,ENST00000540799,;"	"T"	"ENSG00000134759"	"ENST00000442325"	"Transcript"	"intron_variant"	"-/2722"	"-/2676"	"-/891"	""	""	""	"1"	NA	1	"ELP2"	"HGNC"	18248	"protein_coding"	"YES"	"CCDS56065.1"	"ENSP00000414851"	"Q6IA86"	""	"UPI0000E03DE9"	"NM_001242875.1"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"104d775a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130841121495327	"WGS"	FALSE
"8931"	"ELP2"	55250	"mskcc.org"	"GRCh37"	"18"	33711349	33711349	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.138+1315C>T"	""	""	"ENST00000442325"	""	108	"95"	13	58	"58"	0	"ELP2,intron_variant,,ENST00000358232,NM_018255.2;ELP2,intron_variant,,ENST00000442325,NM_001242875.1;ELP2,intron_variant,,ENST00000350494,NM_001242876.1;ELP2,intron_variant,,ENST00000351393,NM_001242877.1;ELP2,intron_variant,,ENST00000423854,NM_001242879.1;ELP2,intron_variant,,ENST00000542824,NM_001242878.1;ELP2,intron_variant,,ENST00000543127,;SLC39A6,upstream_gene_variant,,ENST00000269187,NM_012319.3;SLC39A6,upstream_gene_variant,,ENST00000590986,;SLC39A6,upstream_gene_variant,,ENST00000440549,NM_001099406.1;ELP2,intron_variant,,ENST00000540135,;ELP2,intron_variant,,ENST00000539560,;ELP2,intron_variant,,ENST00000535488,;ELP2,intron_variant,,ENST00000542430,;ELP2,intron_variant,,ENST00000541190,;ELP2,intron_variant,,ENST00000545632,;ELP2,intron_variant,,ENST00000544267,;ELP2,intron_variant,,ENST00000540799,;"	"T"	"ENSG00000134759"	"ENST00000442325"	"Transcript"	"intron_variant"	"-/2722"	"-/2676"	"-/891"	""	""	""	"1"	NA	1	"ELP2"	"HGNC"	18248	"protein_coding"	"YES"	"CCDS56065.1"	"ENSP00000414851"	"Q6IA86"	""	"UPI0000E03DE9"	"NM_001242875.1"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"104d7804-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12037037037037	"WGS"	FALSE
"8932"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	35816107	35816107	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"93"	18	43	"43"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"104deb40-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162162162162162	"WGS"	FALSE
"8933"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	37628034	37628034	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs746750940"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"67"	23	69	"69"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs746750940"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"104e2b0a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255555555555556	"WGS"	FALSE
"8934"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	41103460	41103460	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"69"	10	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"104e969e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126582278481013	"WGS"	FALSE
"8935"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	45262659	45262659	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"70"	10	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"104f4530-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"8936"	"SMAD7"	4092	"mskcc.org"	"GRCh37"	"18"	46466682	46466682	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.742+2169G>T"	""	""	"ENST00000262158"	""	87	"74"	13	55	"55"	0	"SMAD7,intron_variant,,ENST00000262158,NM_001190821.1,NM_005904.3;SMAD7,intron_variant,,ENST00000589634,;SMAD7,intron_variant,,ENST00000591805,NM_001190822.1;SMAD7,intron_variant,,ENST00000586093,;SMAD7,intron_variant,,ENST00000585986,;SMAD7,intron_variant,,ENST00000545051,;"	"A"	"ENSG00000101665"	"ENST00000262158"	"Transcript"	"intron_variant"	"-/3087"	"-/1281"	"-/426"	""	""	""	"1"	NA	-1	"SMAD7"	"HGNC"	6773	"protein_coding"	"YES"	"CCDS11936.1"	"ENSP00000262158"	"O15105"	"K7EKF0"	"UPI0000135A83"	"NM_001190821.1,NM_005904.3"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"104f82a2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.149425287356322	"WGS"	FALSE
"8937"	"MYO5B"	4645	"mskcc.org"	"GRCh37"	"18"	47448245	47448245	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2090+7637A>T"	""	""	"ENST00000285039"	""	117	"89"	28	55	"55"	0	"MYO5B,intron_variant,,ENST00000285039,NM_001080467.2;"	"A"	"ENSG00000167306"	"ENST00000285039"	"Transcript"	"intron_variant"	"-/9505"	"-/5547"	"-/1848"	""	""	""	"1"	NA	-1	"MYO5B"	"HGNC"	7603	"protein_coding"	"YES"	"CCDS42436.1"	"ENSP00000285039"	"Q9ULV0"	"Q14782,Q0P656,K7EPI3"	"UPI00001D7B21"	"NM_001080467.2"	""	""	""	"17/39"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"104fc5c8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239316239316239	"WGS"	FALSE
"8938"	"ME2"	4200	"mskcc.org"	"GRCh37"	"18"	48469539	48469539	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1587+2783G>C"	""	""	"ENST00000321341"	""	89	"62"	27	57	"57"	0	"ME2,intron_variant,,ENST00000321341,NM_002396.4;ME2,intron_variant,,ENST00000382927,NM_001168335.1;ME2,intron_variant,,ENST00000585680,;ME2,intron_variant,,ENST00000591925,;"	"C"	"ENSG00000082212"	"ENST00000321341"	"Transcript"	"intron_variant"	"-/3164"	"-/1755"	"-/584"	""	""	""	"1"	NA	1	"ME2"	"HGNC"	6984	"protein_coding"	"YES"	"CCDS11948.1"	"ENSP00000321070"	"P23368"	""	"UPI000012EBAA"	"NM_002396.4"	""	""	""	"15/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"104fec2e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303370786516854	"WGS"	FALSE
"8939"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	52346082	52346082	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs551972891"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"66"	10	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs551972891"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0006"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.0031"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"105079b4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WGS"	FALSE
"8940"	"ENSR00001515583"	0	"mskcc.org"	"GRCh37"	"18"	55515709	55515709	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001515583"	""	86	"74"	12	50	"50"	0	""	"T"	""	"ENSR00001515583"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"10510960-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"8941"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	57875997	57875997	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"64"	20	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"10519d4e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WGS"	FALSE
"8942"	"BCL2"	596	"mskcc.org"	"GRCh37"	"18"	60923677	60923677	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.585+61638G>T"	""	""	"ENST00000333681"	""	91	"74"	17	67	"67"	0	"BCL2,intron_variant,,ENST00000398117,NM_000633.2;BCL2,intron_variant,,ENST00000333681,;"	"A"	"ENSG00000171791"	"ENST00000333681"	"Transcript"	"intron_variant"	"-/3209"	"-/720"	"-/239"	""	""	""	"1"	NA	-1	"BCL2"	"HGNC"	990	"protein_coding"	""	"CCDS11981.1"	"ENSP00000329623"	"P10415"	"Q96PA0"	"UPI000000D90E"	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"10521efe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186813186813187	"WGS"	TRUE
"8943"	"CDH19"	28513	"mskcc.org"	"GRCh37"	"18"	64199581	64199581	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1337-2378A>T"	""	""	"ENST00000262150"	""	96	"82"	14	52	"52"	0	"CDH19,3_prime_UTR_variant,,ENST00000454642,;CDH19,intron_variant,,ENST00000262150,NM_021153.3;CDH19,intron_variant,,ENST00000540086,NM_001271028.1;CDH19,intron_variant,,ENST00000579658,;"	"A"	"ENSG00000071991"	"ENST00000262150"	"Transcript"	"intron_variant"	"-/6341"	"-/2319"	"-/772"	""	""	""	"1"	NA	-1	"CDH19"	"HGNC"	1758	"protein_coding"	"YES"	"CCDS11994.1"	"ENSP00000262150"	"Q9H159"	"Q96KY9,J3QS15,F8VVI9"	"UPI0000048ECF"	"NM_021153.3"	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"10528f06-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145833333333333	"WGS"	FALSE
"8944"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	64294893	64294893	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"72"	15	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"10529276-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WGS"	FALSE
"8945"	"CD226"	10666	"mskcc.org"	"GRCh37"	"18"	67593155	67593155	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.382+20815C>T"	""	""	"ENST00000280200"	""	85	"70"	15	57	"57"	0	"CD226,intron_variant,,ENST00000280200,NM_006566.2;CD226,intron_variant,,ENST00000581982,;CD226,intron_variant,,ENST00000582621,;CD226,intron_variant,,ENST00000579496,;CD226,intron_variant,,ENST00000577287,;CD226,intron_variant,,ENST00000583955,;"	"A"	"ENSG00000150637"	"ENST00000280200"	"Transcript"	"intron_variant"	"-/2638"	"-/1011"	"-/336"	""	""	""	"1"	NA	-1	"CD226"	"HGNC"	16961	"protein_coding"	"YES"	"CCDS11997.1"	"ENSP00000280200"	"Q15762"	"J3QRQ4,J3QR77,J3QQW1,J3QL19,J3QKM7"	"UPI000013DC05"	"NM_006566.2"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"1053068e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"8946"	"RP11-736G13.1"	0	"mskcc.org"	"GRCh37"	"18"	69604857	69604857	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs75696321"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.100-215C>T"	""	""	"ENST00000580927"	""	75	"66"	9	57	"57"	0	"RP11-736G13.1,intron_variant,,ENST00000580927,;RP11-736G13.2,downstream_gene_variant,,ENST00000604699,;"	"A"	"ENSG00000265995"	"ENST00000580927"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/287"	""	""	""	""	"rs75696321"	"1"	NA	-1	"RP11-736G13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	"A:0.0086"	"A:0"	"A:0"	NA	"A:0.0407"	"A:0"	"A:0.002"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"10535a1c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"8947"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	69747417	69747417	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"84"	5	74	"74"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"10535d6e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0561797752808989	"WGS"	FALSE
"8948"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	71343017	71343017	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"81"	13	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"1053a332-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138297872340426	"WGS"	FALSE
"8949"	"CNDP2"	55748	"mskcc.org"	"GRCh37"	"18"	72188830	72188830	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000324262"	""	99	"80"	19	52	"52"	0	"CNDP2,downstream_gene_variant,,ENST00000324262,NM_018235.2;CNDP2,downstream_gene_variant,,ENST00000579847,;CNDP2,downstream_gene_variant,,ENST00000324301,NM_001168499.1;CNDP2,downstream_gene_variant,,ENST00000579624,;CNDP2,downstream_gene_variant,,ENST00000583695,;CNDP2,downstream_gene_variant,,ENST00000584581,;CNDP2,downstream_gene_variant,,ENST00000577409,;"	"A"	"ENSG00000133313"	"ENST00000324262"	"Transcript"	"downstream_gene_variant"	"-/2804"	"-/1428"	"-/475"	""	""	""	"1"	"467"	1	"CNDP2"	"HGNC"	24437	"protein_coding"	"YES"	"CCDS12006.1"	"ENSP00000325548"	"Q96KP4"	"Q9NW02,J3QRD0,J3QR27,J3QQN6,J3QLU1,J3QKT2,J3QKQ0,J3KSV5,J3KSS4,J3KRD5,B4DV28"	"UPI00000463FE"	"NM_018235.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"1053dcc6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191919191919192	"WGS"	FALSE
"8950"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	73399053	73399053	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"63"	25	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"10541204-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284090909090909	"WGS"	FALSE
"8951"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	76463440	76463440	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs531366105"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"81"	10	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs531366105"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0004"	"A:0.0008"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"10555be6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10989010989011	"WGS"	FALSE
"8952"	"THEG"	51298	"mskcc.org"	"GRCh37"	"19"	360270	360270	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000342640"	""	37	"32"	5	20	"20"	0	"THEG,downstream_gene_variant,,ENST00000342640,NM_016585.4;THEG,downstream_gene_variant,,ENST00000530711,;THEG,downstream_gene_variant,,ENST00000346878,NM_199202.2;"	"A"	"ENSG00000105549"	"ENST00000342640"	"Transcript"	"downstream_gene_variant"	"-/1326"	"-/1140"	"-/379"	""	""	""	"1"	"1787"	-1	"THEG"	"HGNC"	13706	"protein_coding"	"YES"	"CCDS12025.1"	"ENSP00000340088"	"Q9P2T0"	""	"UPI000006E5C6"	"NM_016585.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"10578c22-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135135135135135	"WGS"	FALSE
"8953"	"TPGS1"	91978	"mskcc.org"	"GRCh37"	"19"	518192	518192	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.339-697G>A"	""	""	"ENST00000359315"	""	16	"12"	4	5	"5"	0	"TPGS1,intron_variant,,ENST00000359315,NM_033513.2;"	"A"	"ENSG00000141933"	"ENST00000359315"	"Transcript"	"intron_variant"	"-/1312"	"-/873"	"-/290"	""	""	""	"1"	NA	1	"TPGS1"	"HGNC"	25058	"protein_coding"	"YES"	"CCDS42454.1"	"ENSP00000352265"	"Q6ZTW0"	""	"UPI0000202E14"	"NM_033513.2"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"1057fd4c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"8954"	"TPGS1"	91978	"mskcc.org"	"GRCh37"	"19"	522372	522372	"+"	"3'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000359315"	""	109	"99"	10	59	"59"	0	"TPGS1,downstream_gene_variant,,ENST00000359315,NM_033513.2;"	"G"	"ENSG00000141933"	"ENST00000359315"	"Transcript"	"downstream_gene_variant"	"-/1312"	"-/873"	"-/290"	""	""	""	"1"	"2718"	1	"TPGS1"	"HGNC"	25058	"protein_coding"	"YES"	"CCDS42454.1"	"ENSP00000352265"	"Q6ZTW0"	""	"UPI0000202E14"	"NM_033513.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"1057ff40-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0917431192660551	"WGS"	FALSE
"8955"	"MISP"	126353	"mskcc.org"	"GRCh37"	"19"	756184	756184	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-57-706G>A"	""	""	"ENST00000215582"	""	118	"97"	21	53	"53"	0	"MISP,intron_variant,,ENST00000215582,NM_173481.2;"	"A"	"ENSG00000099812"	"ENST00000215582"	"Transcript"	"intron_variant"	"-/2872"	"-/2040"	"-/679"	""	""	""	"1"	NA	1	"MISP"	"HGNC"	27000	"protein_coding"	"YES"	"CCDS12042.1"	"ENSP00000215582"	"Q8IVT2"	""	"UPI00000745CD"	"NM_173481.2"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"1058594a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177966101694915	"WGS"	FALSE
"8956"	"AZU1"	566	"mskcc.org"	"GRCh37"	"19"	829243	829243	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.216-319G>C"	""	""	"ENST00000233997"	""	78	"67"	11	39	"39"	0	"AZU1,intron_variant,,ENST00000233997,NM_001700.3;AZU1,intron_variant,,ENST00000592205,;"	"C"	"ENSG00000172232"	"ENST00000233997"	"Transcript"	"intron_variant"	"-/917"	"-/756"	"-/251"	""	""	""	"1"	NA	1	"AZU1"	"HGNC"	913	"protein_coding"	"YES"	"CCDS12044.1"	"ENSP00000233997"	"P20160"	""	"UPI0000126ECD"	"NM_001700.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"10587330-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141025641025641	"WGS"	FALSE
"8957"	"ARID3A"	1820	"mskcc.org"	"GRCh37"	"19"	979841	979841	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"rs531281638"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000263620"	""	46	"41"	5	24	"24"	0	"ARID3A,downstream_gene_variant,,ENST00000263620,NM_005224.2;WDR18,upstream_gene_variant,,ENST00000251289,NM_024100.3;WDR18,upstream_gene_variant,,ENST00000587001,;WDR18,upstream_gene_variant,,ENST00000607440,;WDR18,upstream_gene_variant,,ENST00000591997,;WDR18,upstream_gene_variant,,ENST00000591985,;WDR18,upstream_gene_variant,,ENST00000585809,;WDR18,upstream_gene_variant,,ENST00000586317,;"	"A"	"ENSG00000116017"	"ENST00000263620"	"Transcript"	"downstream_gene_variant"	"-/5983"	"-/1782"	"-/593"	""	""	"rs531281638"	"1"	"3902"	1	"ARID3A"	"HGNC"	3031	"protein_coding"	"YES"	"CCDS12050.1"	"ENSP00000263620"	"Q99856"	""	"UPI0000129881"	"NM_005224.2"	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"1058a292-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108695652173913	"WGS"	FALSE
"8958"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	3334427	3334427	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	58	"52"	6	29	"29"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"105a98ea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"8959"	"DOHH"	83475	"mskcc.org"	"GRCh37"	"19"	3503731	3503731	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000427575"	""	102	"94"	8	46	"46"	0	"FZR1,upstream_gene_variant,,ENST00000441788,NM_016263.3;DOHH,upstream_gene_variant,,ENST00000427575,NM_001145165.1;DOHH,upstream_gene_variant,,ENST00000250937,NM_031304.4;DOHH,upstream_gene_variant,,ENST00000592858,;RN7SL866P,downstream_gene_variant,,ENST00000578785,;FZR1,upstream_gene_variant,,ENST00000588327,;"	"T"	"ENSG00000129932"	"ENST00000427575"	"Transcript"	"upstream_gene_variant"	"-/2031"	"-/909"	"-/302"	""	""	""	"1"	"2793"	-1	"DOHH"	"HGNC"	28662	"protein_coding"	"YES"	"CCDS12108.1"	"ENSP00000398882"	"Q9BU89"	"K7EIV2"	"UPI0000071C59"	"NM_001145165.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"105ab96a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0784313725490196	"WGS"	FALSE
"8960"	"NDUFA11"	126328	"mskcc.org"	"GRCh37"	"19"	5891532	5891532	"+"	"3'UTR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1396T>G"	""	""	"ENST00000418389"	"4/4"	101	"75"	26	46	"46"	0	"NDUFA11,3_prime_UTR_variant,,ENST00000418389,NM_001193375.1;FUT5,intron_variant,,ENST00000252675,;AC024592.12,intron_variant,,ENST00000586349,;AC024592.12,intron_variant,,ENST00000585661,;NDUFA11,downstream_gene_variant,,ENST00000592634,;NDUFA11,downstream_gene_variant,,ENST00000308961,NM_175614.4;AC024592.12,intron_variant,,ENST00000592091,;NDUFA11,downstream_gene_variant,,ENST00000593233,;NDUFA11,downstream_gene_variant,,ENST00000591341,;"	"C"	"ENSG00000174886"	"ENST00000418389"	"Transcript"	"3_prime_UTR_variant"	"2161/2406"	"-/687"	"-/228"	""	""	""	"1"	NA	-1	"NDUFA11"	"HGNC"	20371	"protein_coding"	"YES"	"CCDS54203.1"	"ENSP00000389160"	"Q86Y39"	""	"UPI0001AE63D7"	"NM_001193375.1"	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"105c7872-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257425742574257	"WGS"	FALSE
"8961"	"PDE4A"	5141	"mskcc.org"	"GRCh37"	"19"	10548503	10548503	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.321-8391C>T"	""	""	"ENST00000352831"	""	87	"78"	9	42	"42"	0	"PDE4A,intron_variant,,ENST00000380702,;PDE4A,intron_variant,,ENST00000352831,NM_001111307.1;PDE4A,intron_variant,,ENST00000592685,NM_001243121.1;PDE4A,intron_variant,,ENST00000293683,NM_001111308.1;PDE4A,intron_variant,,ENST00000440014,NM_001111309.1;"	"T"	"ENSG00000065989"	"ENST00000352831"	"Transcript"	"intron_variant"	"-/3643"	"-/2661"	"-/886"	""	""	""	"1"	NA	1	"PDE4A"	"HGNC"	8780	"protein_coding"	"YES"	"CCDS45961.1"	"ENSP00000270474"	"P27815"	"Q86V67"	"UPI0000047003"	"NM_001111307.1"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"105eed00-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"8962"	"PDE4A"	5141	"mskcc.org"	"GRCh37"	"19"	10548515	10548515	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.321-8379C>G"	""	""	"ENST00000352831"	""	89	"79"	10	44	"44"	0	"PDE4A,intron_variant,,ENST00000380702,;PDE4A,intron_variant,,ENST00000352831,NM_001111307.1;PDE4A,intron_variant,,ENST00000592685,NM_001243121.1;PDE4A,intron_variant,,ENST00000293683,NM_001111308.1;PDE4A,intron_variant,,ENST00000440014,NM_001111309.1;"	"G"	"ENSG00000065989"	"ENST00000352831"	"Transcript"	"intron_variant"	"-/3643"	"-/2661"	"-/886"	""	""	""	"1"	NA	1	"PDE4A"	"HGNC"	8780	"protein_coding"	"YES"	"CCDS45961.1"	"ENSP00000270474"	"P27815"	"Q86V67"	"UPI0000047003"	"NM_001111307.1"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"105eedaa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112359550561798	"WGS"	FALSE
"8963"	"KEAP1"	9817	"mskcc.org"	"GRCh37"	"19"	10593722	10593722	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000171111"	""	72	"65"	7	27	"27"	0	"KEAP1,downstream_gene_variant,,ENST00000171111,NM_203500.1;KEAP1,downstream_gene_variant,,ENST00000393623,NM_012289.3;KEAP1,downstream_gene_variant,,ENST00000592478,;KEAP1,downstream_gene_variant,,ENST00000590593,;KEAP1,downstream_gene_variant,,ENST00000590237,;"	"G"	"ENSG00000079999"	"ENST00000171111"	"Transcript"	"downstream_gene_variant"	"-/2955"	"-/1875"	"-/624"	""	""	""	"1"	"3074"	-1	"KEAP1"	"HGNC"	23177	"protein_coding"	"YES"	"CCDS12239.1"	"ENSP00000171111"	"Q14145"	"K7ESE0,K7EJD8,K7EJ49"	"UPI000007139C"	"NM_203500.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"105ef78c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"8964"	"QTRT1"	81890	"mskcc.org"	"GRCh37"	"19"	10811753	10811753	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000250237"	""	83	"76"	7	54	"54"	0	"QTRT1,upstream_gene_variant,,ENST00000250237,NM_031209.2;QTRT1,upstream_gene_variant,,ENST00000592254,;QTRT1,upstream_gene_variant,,ENST00000585885,;QTRT1,upstream_gene_variant,,ENST00000589488,;QTRT1,upstream_gene_variant,,ENST00000421333,;QTRT1,upstream_gene_variant,,ENST00000587599,;QTRT1,upstream_gene_variant,,ENST00000590705,;"	"G"	"ENSG00000213339"	"ENST00000250237"	"Transcript"	"upstream_gene_variant"	"-/1317"	"-/1212"	"-/403"	""	""	""	"1"	"374"	1	"QTRT1"	"HGNC"	23797	"protein_coding"	"YES"	"CCDS12248.1"	"ENSP00000250237"	"Q9BXR0"	""	"UPI000003B010"	"NM_031209.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"105f1e60-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"8965"	"ZNF627"	199692	"mskcc.org"	"GRCh37"	"19"	11714991	11714991	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3+6546C>T"	""	""	"ENST00000361113"	""	98	"78"	20	58	"58"	0	"ZNF627,intron_variant,,ENST00000361113,NM_145295.3;ZNF627,intron_variant,,ENST00000588174,;ZNF627,intron_variant,,ENST00000587939,;ZNF627,intron_variant,,ENST00000585493,;ZNF627,intron_variant,,ENST00000593279,;"	"T"	"ENSG00000198551"	"ENST00000361113"	"Transcript"	"intron_variant"	"-/2840"	"-/1386"	"-/461"	""	""	""	"1"	NA	1	"ZNF627"	"HGNC"	30570	"protein_coding"	"YES"	"CCDS42502.1"	"ENSP00000354414"	"Q7L945"	"K7ELG4"	"UPI0000071491"	"NM_145295.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"105fa218-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204081632653061	"WGS"	FALSE
"8966"	"RFX1"	5989	"mskcc.org"	"GRCh37"	"19"	14122337	14122337	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000586913"	""	89	"81"	8	34	"34"	0	"RFX1,upstream_gene_variant,,ENST00000586913,;"	"C"	"ENSG00000132005"	"ENST00000586913"	"Transcript"	"upstream_gene_variant"	"-/440"	""	""	""	""	""	"1"	"4486"	-1	"RFX1"	"HGNC"	9982	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"1060c670-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"8967"	"ENSR00000343991"	0	"mskcc.org"	"GRCh37"	"19"	14614598	14614598	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000343991"	""	89	"84"	5	43	"43"	0	""	"T"	""	"ENSR00000343991"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"1061130a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0561797752808989	"WGS"	FALSE
"8968"	"OR7C2"	26658	"mskcc.org"	"GRCh37"	"19"	15051888	15051888	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000248072"	""	73	"68"	5	51	"51"	0	"OR7C2,upstream_gene_variant,,ENST00000248072,NM_012377.1;"	"C"	"ENSG00000127529"	"ENST00000248072"	"Transcript"	"upstream_gene_variant"	"-/960"	"-/960"	"-/319"	""	""	""	"1"	"413"	1	"OR7C2"	"HGNC"	8374	"protein_coding"	"YES"	"CCDS12320.1"	"ENSP00000248072"	"O60412"	""	"UPI0000041E80"	"NM_012377.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"106142d0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0684931506849315	"WGS"	FALSE
"8969"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	15711727	15711727	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"69"	20	67	"67"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"10618808-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224719101123595	"WGS"	FALSE
"8970"	"CTD-2562J15.6"	0	"mskcc.org"	"GRCh37"	"19"	16410570	16410570	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.209-16038T>C"	""	""	"ENST00000588799"	""	81	"74"	7	40	"40"	0	"CTD-2562J15.6,intron_variant,,ENST00000588799,;"	"G"	"ENSG00000267275"	"ENST00000588799"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/571"	""	""	""	""	""	"1"	NA	-1	"CTD-2562J15.6"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"1061d1dc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"8971"	"SLC35E1"	79939	"mskcc.org"	"GRCh37"	"19"	16658101	16658101	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000595753"	""	75	"70"	5	45	"45"	0	"SLC35E1,downstream_gene_variant,,ENST00000595753,NM_024881.4;CHERP,upstream_gene_variant,,ENST00000546361,NM_006387.5;CHERP,upstream_gene_variant,,ENST00000198939,;CTD-3222D19.7,upstream_gene_variant,,ENST00000595909,;CTD-3222D19.7,upstream_gene_variant,,ENST00000596487,;CTD-3222D19.11,upstream_gene_variant,,ENST00000597357,;SLC35E1,downstream_gene_variant,,ENST00000593812,;SLC35E1,downstream_gene_variant,,ENST00000596387,;CTD-3222D19.2,intron_variant,,ENST00000409035,;SLC35E1,downstream_gene_variant,,ENST00000409648,;CHERP,upstream_gene_variant,,ENST00000551747,;"	"T"	"ENSG00000127526"	"ENST00000595753"	"Transcript"	"downstream_gene_variant"	"-/5099"	"-/1233"	"-/410"	""	""	""	"1"	"2541"	-1	"SLC35E1"	"HGNC"	20803	"protein_coding"	"YES"	"CCDS12346.2"	"ENSP00000470652"	"Q96K37"	""	"UPI000004D338"	"NM_024881.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"1061f176-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"8972"	"DDA1"	79016	"mskcc.org"	"GRCh37"	"19"	17427623	17427623	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.198+819C>A"	""	""	"ENST00000359866"	""	110	"102"	8	57	"57"	0	"DDA1,intron_variant,,ENST00000359866,NM_024050.5;DDA1,intron_variant,,ENST00000593466,;DDA1,intron_variant,,ENST00000596582,;DDA1,intron_variant,,ENST00000594501,;DDA1,downstream_gene_variant,,ENST00000596925,;"	"A"	"ENSG00000130311"	"ENST00000359866"	"Transcript"	"intron_variant"	"-/4078"	"-/309"	"-/102"	""	""	""	"1"	NA	1	"DDA1"	"HGNC"	28360	"protein_coding"	"YES"	"CCDS12357.1"	"ENSP00000352928"	"Q9BW61"	""	"UPI0000071D06"	"NM_024050.5"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"106254cc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0727272727272727	"WGS"	FALSE
"8973"	"SLC5A5"	6528	"mskcc.org"	"GRCh37"	"19"	17986406	17986406	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.544-355G>C"	""	""	"ENST00000222248"	""	74	"69"	5	27	"27"	0	"SLC5A5,intron_variant,,ENST00000222248,NM_000453.2;"	"C"	"ENSG00000105641"	"ENST00000222248"	"Transcript"	"intron_variant"	"-/3576"	"-/1932"	"-/643"	""	""	""	"1"	NA	1	"SLC5A5"	"HGNC"	11040	"protein_coding"	"YES"	"CCDS12368.1"	"ENSP00000222248"	"Q92911"	"Q9UEU3"	"UPI00001359F6"	"NM_000453.2"	""	""	""	"4/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"1062a8d2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0675675675675676	"WGS"	FALSE
"8974"	"RN7SL513P"	0	"mskcc.org"	"GRCh37"	"19"	18445174	18445174	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000465715"	""	93	"74"	19	49	"49"	0	"RN7SL513P,downstream_gene_variant,,ENST00000465715,;"	"G"	"ENSG00000239821"	"ENST00000465715"	"Transcript"	"downstream_gene_variant"	"-/296"	""	""	""	""	""	"1"	"793"	1	"RN7SL513P"	"HGNC"	46529	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"1062f31e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204301075268817	"WGS"	FALSE
"8975"	"PGPEP1"	54858	"mskcc.org"	"GRCh37"	"19"	18457325	18457325	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.87+3604T>A"	""	""	"ENST00000269919"	""	101	"86"	15	49	"49"	0	"PGPEP1,intron_variant,,ENST00000269919,NM_017712.2;PGPEP1,intron_variant,,ENST00000252813,;PGPEP1,intron_variant,,ENST00000604499,;PGPEP1,intron_variant,,ENST00000595066,;PGPEP1,intron_variant,,ENST00000597431,;PGPEP1,intron_variant,,ENST00000600283,;PGPEP1,intron_variant,,ENST00000596962,;"	"A"	"ENSG00000130517"	"ENST00000269919"	"Transcript"	"intron_variant"	"-/7092"	"-/630"	"-/209"	""	""	""	"1"	NA	1	"PGPEP1"	"HGNC"	13568	"protein_coding"	"YES"	"CCDS12375.1"	"ENSP00000269919"	"Q9NXJ5"	"U3KQG9,Q8IVT1"	"UPI0000049B15"	"NM_017712.2"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"1062f3c8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148514851485149	"WGS"	FALSE
"8976"	"HOMER3"	9454	"mskcc.org"	"GRCh37"	"19"	19046831	19046831	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.304-1612T>C"	""	""	"ENST00000539827"	""	89	"77"	12	42	"42"	0	"HOMER3,intron_variant,,ENST00000539827,;HOMER3,intron_variant,,ENST00000542541,NM_001145722.1;HOMER3,intron_variant,,ENST00000392351,NM_004838.3;HOMER3,intron_variant,,ENST00000433218,NM_001145721.1;HOMER3,intron_variant,,ENST00000221222,NM_001145724.1;HOMER3,intron_variant,,ENST00000355887,;HOMER3,intron_variant,,ENST00000594439,;HOMER3,intron_variant,,ENST00000594794,;HOMER3,intron_variant,,ENST00000596482,;HOMER3,intron_variant,,ENST00000600077,;HOMER3,downstream_gene_variant,,ENST00000599097,;AC005932.1,upstream_gene_variant,,ENST00000601106,;AC002985.3,upstream_gene_variant,,ENST00000596918,;AC002985.3,upstream_gene_variant,,ENST00000593484,;HOMER3,upstream_gene_variant,,ENST00000595756,;HOMER3,downstream_gene_variant,,ENST00000599808,;"	"G"	"ENSG00000051128"	"ENST00000539827"	"Transcript"	"intron_variant"	"-/1979"	"-/1086"	"-/361"	""	""	""	"1"	NA	-1	"HOMER3"	"HGNC"	17514	"protein_coding"	"YES"	"CCDS12391.1"	"ENSP00000439937"	"Q9NSC5"	"M0R2U7,M0R2T8,M0QZN1"	"UPI0000140C32"	""	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"10632d8e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134831460674157	"WGS"	FALSE
"8977"	"AC005932.1"	0	"mskcc.org"	"GRCh37"	"19"	19061387	19061387	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000601106"	""	80	"73"	7	35	"35"	0	"AC005932.1,downstream_gene_variant,,ENST00000601106,;"	"A"	"ENSG00000269019"	"ENST00000601106"	"Transcript"	"downstream_gene_variant"	"-/957"	""	""	""	""	""	"1"	"3747"	1	"AC005932.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"10633630-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0875	"WGS"	FALSE
"8978"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	21091938	21091938	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"96"	10	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"106416fe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0943396226415094	"WGS"	FALSE
"8979"	"ZNF708"	7562	"mskcc.org"	"GRCh37"	"19"	21481337	21481337	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.227-3796A>G"	""	""	"ENST00000356929"	""	100	"71"	29	62	"62"	0	"ZNF708,intron_variant,,ENST00000356929,NM_021269.2;ZNF708,intron_variant,,ENST00000602023,;ZNF708,intron_variant,,ENST00000601295,;ZNF708,intron_variant,,ENST00000598046,;"	"C"	"ENSG00000182141"	"ENST00000356929"	"Transcript"	"intron_variant"	"-/4004"	"-/1692"	"-/563"	""	""	""	"1"	NA	-1	"ZNF708"	"HGNC"	12945	"protein_coding"	"YES"	"CCDS32980.1"	"ENSP00000349401"	"P17019"	"M0R1G3,M0QYN4"	"UPI000041F9DE"	"NM_021269.2"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"106445e8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29	"WGS"	FALSE
"8980"	"ZNF98"	148198	"mskcc.org"	"GRCh37"	"19"	22622060	22622060	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.316-35746C>T"	""	""	"ENST00000593802"	""	80	"70"	10	56	"56"	0	"ZNF98,intron_variant,,ENST00000593802,;ZNF98,intron_variant,,ENST00000599879,;"	"A"	"ENSG00000197360"	"ENST00000593802"	"Transcript"	"intron_variant"	"-/493"	"-/394"	"-/131"	""	""	""	"1"	NA	-1	"ZNF98"	"HGNC"	13174	"protein_coding"	""	""	"ENSP00000472301"	""	"M0R243"	"UPI0002A47708"	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"1064bf6e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"8981"	"ZNF536"	9745	"mskcc.org"	"GRCh37"	"19"	31171579	31171579	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.170-30085T>A"	""	""	"ENST00000592773"	""	77	"67"	10	45	"45"	0	"ZNF536,intron_variant,,ENST00000592773,;"	"A"	"ENSG00000198597"	"ENST00000592773"	"Transcript"	"intron_variant"	"-/2951"	"-/283"	"-/94"	""	""	""	"1"	NA	1	"ZNF536"	"HGNC"	29025	"protein_coding"	""	""	"ENSP00000467909"	""	"K7EQN6"	"UPI0002840975"	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"106714ee-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12987012987013	"WGS"	FALSE
"8982"	"AKR1B1P7"	0	"mskcc.org"	"GRCh37"	"19"	33857057	33857057	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000587229"	""	96	"80"	16	64	"64"	0	"AKR1B1P7,upstream_gene_variant,,ENST00000587229,;"	"C"	"ENSG00000266899"	"ENST00000587229"	"Transcript"	"upstream_gene_variant"	"-/949"	""	""	""	""	""	"1"	"4703"	-1	"AKR1B1P7"	"HGNC"	33497	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"1067bfc0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"8983"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	35674898	35674898	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs532737226"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"81"	20	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs532737226"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"10685c6e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.198019801980198	"WGS"	FALSE
"8984"	"ZNF566"	84924	"mskcc.org"	"GRCh37"	"19"	36961855	36961855	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.235+1958T>A"	""	""	"ENST00000454319"	""	75	"70"	5	40	"40"	0	"ZNF566,intron_variant,,ENST00000454319,NM_001145343.1,NM_001145345.1,NM_001145344.1;ZNF566,intron_variant,,ENST00000434377,NM_032838.4;ZNF566,intron_variant,,ENST00000493391,;ZNF566,intron_variant,,ENST00000392170,;ZNF566,intron_variant,,ENST00000424129,;ZNF566,intron_variant,,ENST00000452939,;ZNF566,intron_variant,,ENST00000427002,;ZNF566,intron_variant,,ENST00000472909,;ZNF566,downstream_gene_variant,,ENST00000460937,;ZNF566,downstream_gene_variant,,ENST00000480361,;"	"T"	"ENSG00000186017"	"ENST00000454319"	"Transcript"	"intron_variant"	"-/5253"	"-/1260"	"-/419"	""	""	""	"1"	NA	-1	"ZNF566"	"HGNC"	25919	"protein_coding"	"YES"	"CCDS46061.1"	"ENSP00000394207"	"Q969W8"	"C9J2D3,B4DRR6"	"UPI0000E046D6"	"NM_001145343.1,NM_001145345.1,NM_001145344.1"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"10690dda-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"8985"	"PPP1R14A"	94274	"mskcc.org"	"GRCh37"	"19"	38740869	38740869	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000301242"	""	86	"80"	6	42	"42"	0	"SPINT2,intron_variant,,ENST00000590510,;PPP1R14A,downstream_gene_variant,,ENST00000591585,;PPP1R14A,downstream_gene_variant,,ENST00000301242,NM_033256.2;PPP1R14A,downstream_gene_variant,,ENST00000347262,NM_001243947.1;PPP1R14A,downstream_gene_variant,,ENST00000587515,;PPP1R14A,downstream_gene_variant,,ENST00000591291,;"	"T"	"ENSG00000167641"	"ENST00000301242"	"Transcript"	"downstream_gene_variant"	"-/777"	"-/444"	"-/147"	""	""	""	"1"	"1008"	-1	"PPP1R14A"	"HGNC"	14871	"protein_coding"	"YES"	"CCDS12509.1"	"ENSP00000301242"	"Q96A00"	""	"UPI0000072604"	"NM_033256.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"1069d0f8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"8986"	"PPP1R14A"	94274	"mskcc.org"	"GRCh37"	"19"	38740875	38740875	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000301242"	""	89	"80"	9	40	"40"	0	"SPINT2,intron_variant,,ENST00000590510,;PPP1R14A,downstream_gene_variant,,ENST00000591585,;PPP1R14A,downstream_gene_variant,,ENST00000301242,NM_033256.2;PPP1R14A,downstream_gene_variant,,ENST00000347262,NM_001243947.1;PPP1R14A,downstream_gene_variant,,ENST00000587515,;PPP1R14A,downstream_gene_variant,,ENST00000591291,;"	"T"	"ENSG00000167641"	"ENST00000301242"	"Transcript"	"downstream_gene_variant"	"-/777"	"-/444"	"-/147"	""	""	""	"1"	"1002"	-1	"PPP1R14A"	"HGNC"	14871	"protein_coding"	"YES"	"CCDS12509.1"	"ENSP00000301242"	"Q96A00"	""	"UPI0000072604"	"NM_033256.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"1069d1ac-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101123595505618	"WGS"	FALSE
"8987"	"RYR1"	6261	"mskcc.org"	"GRCh37"	"19"	38927111	38927111	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.45+2597A>G"	""	""	"ENST00000359596"	""	103	"92"	11	52	"52"	0	"RYR1,intron_variant,,ENST00000355481,NM_000540.2,NM_001042723.1;RYR1,intron_variant,,ENST00000360985,;RYR1,intron_variant,,ENST00000359596,;"	"G"	"ENSG00000196218"	"ENST00000359596"	"Transcript"	"intron_variant"	"-/15117"	"-/15117"	"-/5038"	""	""	""	"1"	NA	1	"RYR1"	"HGNC"	10483	"protein_coding"	"YES"	"CCDS33011.1"	"ENSP00000352608"	"P21817"	"O75591,B4DET7"	"UPI0000D7E62F"	""	""	""	""	"1/105"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"1069eec6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106796116504854	"WGS"	FALSE
"8988"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	39547696	39547696	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"90"	8	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"106a387c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WGS"	FALSE
"8989"	"LRFN1"	57622	"mskcc.org"	"GRCh37"	"19"	39797865	39797865	"+"	"3'UTR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*408G>A"	""	""	"ENST00000248668"	"2/2"	66	"53"	13	66	"66"	0	"LRFN1,3_prime_UTR_variant,,ENST00000248668,NM_020862.1;"	"T"	"ENSG00000128011"	"ENST00000248668"	"Transcript"	"3_prime_UTR_variant"	"2724/3381"	"-/2316"	"-/771"	""	""	""	"1"	NA	-1	"LRFN1"	"HGNC"	29290	"protein_coding"	"YES"	"CCDS46071.1"	"ENSP00000248668"	"Q9P244"	""	"UPI00001A5C55"	"NM_020862.1"	""	""	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"106a57a8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196969696969697	"WGS"	FALSE
"8990"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	40111743	40111743	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"rs755583544"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"62"	16	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs755583544"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"106a79cc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205128205128205	"WGS"	FALSE
"8991"	"HNRNPUL1"	11100	"mskcc.org"	"GRCh37"	"19"	41779272	41779272	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.573-615C>T"	""	""	"ENST00000392006"	""	87	"74"	13	55	"55"	0	"HNRNPUL1,intron_variant,,ENST00000392006,NM_007040.3;HNRNPUL1,intron_variant,,ENST00000352456,NM_144732.2;HNRNPUL1,intron_variant,,ENST00000263367,;HNRNPUL1,intron_variant,,ENST00000602130,;HNRNPUL1,intron_variant,,ENST00000378215,;HNRNPUL1,intron_variant,,ENST00000595018,;HNRNPUL1,intron_variant,,ENST00000593587,;HNRNPUL1,intron_variant,,ENST00000599614,;HNRNPUL1,intron_variant,,ENST00000599719,;HNRNPUL1,intron_variant,,ENST00000601336,;HNRNPUL1,intron_variant,,ENST00000601309,;HNRNPUL1,intron_variant,,ENST00000597725,;HNRNPUL1,downstream_gene_variant,,ENST00000595336,;HNRNPUL1,intron_variant,,ENST00000594207,;HNRNPUL1,intron_variant,,ENST00000595196,;HNRNPUL1,upstream_gene_variant,,ENST00000600332,;HNRNPUL1,upstream_gene_variant,,ENST00000600596,;HNRNPUL1,downstream_gene_variant,,ENST00000599521,;"	"T"	"ENSG00000105323"	"ENST00000392006"	"Transcript"	"intron_variant"	"-/3555"	"-/2571"	"-/856"	""	""	""	"1"	NA	1	"HNRNPUL1"	"HGNC"	17011	"protein_coding"	"YES"	"CCDS12576.1"	"ENSP00000375863"	"Q9BUJ2"	"M0R203,M0R0K8,M0QZV6,M0QYZ0,M0QYI8,B3KM60"	"UPI000013D3F4"	"NM_007040.3"	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"106b3100-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.149425287356322	"WGS"	FALSE
"8992"	"CEACAM21"	90273	"mskcc.org"	"GRCh37"	"19"	42082523	42082523	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000401445"	""	117	"89"	28	52	"52"	0	"CEACAM21,intron_variant,,ENST00000407170,NM_001288773.1;CEACAM21,upstream_gene_variant,,ENST00000187608,NM_001098506.1,NM_033543.3;CEACAM21,upstream_gene_variant,,ENST00000401445,;CEACAM21,intron_variant,,ENST00000482870,;CEACAM21,upstream_gene_variant,,ENST00000457737,;"	"A"	"ENSG00000007129"	"ENST00000401445"	"Transcript"	"upstream_gene_variant"	"-/1008"	"-/882"	"-/293"	""	""	""	"1"	"78"	1	"CEACAM21"	"HGNC"	28834	"protein_coding"	"YES"	"CCDS46086.1"	"ENSP00000385739"	"Q3KPI0"	""	"UPI0000D617B1"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"106b4c12-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239316239316239	"WGS"	FALSE
"8993"	"GRIK5"	2901	"mskcc.org"	"GRCh37"	"19"	42522412	42522412	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1871+3041G>T"	""	""	"ENST00000262895"	""	66	"60"	6	35	"35"	0	"GRIK5,intron_variant,,ENST00000262895,NM_002088.4;GRIK5,intron_variant,,ENST00000301218,;GRIK5,intron_variant,,ENST00000593562,;GRIK5,intron_variant,,ENST00000454993,;GRIK5,downstream_gene_variant,,ENST00000594528,;"	"A"	"ENSG00000105737"	"ENST00000262895"	"Transcript"	"intron_variant"	"-/3493"	"-/2943"	"-/980"	""	""	""	"1"	NA	-1	"GRIK5"	"HGNC"	4583	"protein_coding"	"YES"	"CCDS12595.1"	"ENSP00000262895"	"Q16478"	""	"UPI000013D353"	"NM_002088.4"	""	""	""	"14/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"106b74bc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"8994"	"ZNF284"	342909	"mskcc.org"	"GRCh37"	"19"	44579717	44579717	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-68-758T>G"	""	""	"ENST00000421176"	""	94	"73"	21	44	"44"	0	"ZNF284,intron_variant,,ENST00000421176,NM_001037813.2;ZNF223,intron_variant,,ENST00000591793,;"	"G"	"ENSG00000186026"	"ENST00000421176"	"Transcript"	"intron_variant"	"-/4351"	"-/1782"	"-/593"	""	""	""	"1"	NA	1	"ZNF284"	"HGNC"	13078	"protein_coding"	"YES"	"CCDS46099.1"	"ENSP00000411032"	"Q2VY69"	""	"UPI00005788EA"	"NM_001037813.2"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"106c148a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223404255319149	"WGS"	FALSE
"8995"	"BBC3"	27113	"mskcc.org"	"GRCh37"	"19"	47719731	47719731	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000449228"	""	95	"87"	8	68	"68"	0	"BBC3,downstream_gene_variant,,ENST00000439096,NM_014417.4;BBC3,downstream_gene_variant,,ENST00000449228,NM_001127240.2;BBC3,downstream_gene_variant,,ENST00000341983,NM_001127241.2;BBC3,downstream_gene_variant,,ENST00000300880,NM_001127242.2;BBC3,downstream_gene_variant,,ENST00000601438,;"	"C"	"ENSG00000105327"	"ENST00000449228"	"Transcript"	"downstream_gene_variant"	"-/1827"	"-/786"	"-/261"	""	""	""	"1"	"4350"	-1	"BBC3"	"HGNC"	17868	"protein_coding"	"YES"	"CCDS46129.1"	"ENSP00000404503"	"Q96PG8"	""	"UPI000013E6A8"	"NM_001127240.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"106d8720-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0842105263157895	"WGS"	FALSE
"8996"	"GLTSCR1"	29998	"mskcc.org"	"GRCh37"	"19"	48114262	48114262	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-108+2723G>T"	""	""	"ENST00000396720"	""	82	"67"	15	46	"46"	0	"GLTSCR1,intron_variant,,ENST00000396720,NM_015711.3;GLTSCR1,intron_variant,,ENST00000594866,;CTD-2571L23.8,intron_variant,,ENST00000599924,;CTD-3001H11.1,downstream_gene_variant,,ENST00000598376,;"	"T"	"ENSG00000063169"	"ENST00000396720"	"Transcript"	"intron_variant"	"-/5684"	"-/4683"	"-/1560"	""	""	""	"1"	NA	1	"GLTSCR1"	"HGNC"	4332	"protein_coding"	"YES"	"CCDS46134.1"	"ENSP00000379946"	"Q9NZM4"	"M0QYC3"	"UPI00016278EE"	"NM_015711.3"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"106db880-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182926829268293	"WGS"	FALSE
"8997"	"TPRX1"	284355	"mskcc.org"	"GRCh37"	"19"	48318182	48318182	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.151+3543T>C"	""	""	"ENST00000535759"	""	54	"48"	6	32	"32"	0	"TPRX1,intron_variant,,ENST00000535759,;CRX,upstream_gene_variant,,ENST00000566686,;"	"G"	"ENSG00000178928"	"ENST00000535759"	"Transcript"	"intron_variant"	"-/2059"	"-/1527"	"-/508"	""	""	""	"1"	NA	-1	"TPRX1"	"HGNC"	32174	"protein_coding"	""	""	"ENSP00000438832"	""	"D2CFI5"	"UPI0001C0780F"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"106dd23e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"8998"	"NUP62"	23636	"mskcc.org"	"GRCh37"	"19"	50437366	50437366	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000596217"	""	78	"67"	11	56	"56"	0	"NUP62,upstream_gene_variant,,ENST00000596217,;NUP62,upstream_gene_variant,,ENST00000422090,NM_001193357.1;NUP62,upstream_gene_variant,,ENST00000413454,NM_153718.3,NM_012346.4;NUP62,upstream_gene_variant,,ENST00000352066,NM_016553.4;IL4I1,upstream_gene_variant,,ENST00000595948,NM_001258018.1;IL4I1,upstream_gene_variant,,ENST00000341114,NM_001258017.1,NM_172374.2;ATF5,downstream_gene_variant,,ENST00000423777,NM_001193646.1;NUP62,upstream_gene_variant,,ENST00000597029,;NUP62,upstream_gene_variant,,ENST00000597723,;ATF5,downstream_gene_variant,,ENST00000595125,NM_012068.5;NUP62,upstream_gene_variant,,ENST00000593652,;NUP62,upstream_gene_variant,,ENST00000596437,;ATF5,downstream_gene_variant,,ENST00000597227,;IL4I1,upstream_gene_variant,,ENST00000596022,;ATF5,downstream_gene_variant,,ENST00000596658,;IL4I1,upstream_gene_variant,,ENST00000596011,;ATF5,downstream_gene_variant,,ENST00000600336,;IL4I1,upstream_gene_variant,,ENST00000597295,;NUP62,upstream_gene_variant,,ENST00000600935,;NUP62,upstream_gene_variant,,ENST00000599567,;NUP62,upstream_gene_variant,,ENST00000594673,;NUP62,upstream_gene_variant,,ENST00000599788,;NUP62,upstream_gene_variant,,ENST00000596680,;MIR4751,downstream_gene_variant,,ENST00000578027,;NUP62,upstream_gene_variant,,ENST00000600583,;NUP62,upstream_gene_variant,,ENST00000599830,;NUP62,upstream_gene_variant,,ENST00000598301,;NUP62,upstream_gene_variant,,ENST00000595463,;NUP62,upstream_gene_variant,,ENST00000599560,;NUP62,upstream_gene_variant,,ENST00000601665,;NUP62,upstream_gene_variant,,ENST00000597814,;NUP62,upstream_gene_variant,,ENST00000599186,;CTC-326K19.6,intron_variant,,ENST00000451973,;IL4I1,upstream_gene_variant,,ENST00000601717,;"	"C"	"ENSG00000213024"	"ENST00000596217"	"Transcript"	"upstream_gene_variant"	"-/3590"	"-/1569"	"-/522"	""	""	""	"1"	"4605"	-1	"NUP62"	"HGNC"	8066	"protein_coding"	"YES"	"CCDS12788.1"	"ENSP00000471191"	"P37198"	"M0R302,M0R1S1,M0R0B7,M0QZL5,M0QYY0,M0QX64,M0QX41,M0QX13,M0QX10"	"UPI000013EAFD"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"106f4150-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141025641025641	"WGS"	FALSE
"8999"	"SHANK1"	50944	"mskcc.org"	"GRCh37"	"19"	51204119	51204119	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"rs539827580"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1747+1605G>C"	""	""	"ENST00000293441"	""	76	"63"	13	37	"37"	0	"SHANK1,intron_variant,,ENST00000293441,NM_016148.2;SHANK1,intron_variant,,ENST00000391814,;SHANK1,intron_variant,,ENST00000359082,;SHANK1,downstream_gene_variant,,ENST00000461154,;"	"G"	"ENSG00000161681"	"ENST00000293441"	"Transcript"	"intron_variant"	"-/6643"	"-/6486"	"-/2161"	""	""	"rs539827580"	"1"	NA	-1	"SHANK1"	"HGNC"	15474	"protein_coding"	"YES"	"CCDS12799.1"	"ENSP00000293441"	"Q9Y566"	""	"UPI000013E109"	"NM_016148.2"	""	""	""	"11/22"	""	"G:0.0002"	"G:0"	"G:0"	NA	"G:0.001"	"G:0"	"G:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"106fd372-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171052631578947	"WGS"	FALSE
"9000"	"SIGLECL1"	284369	"mskcc.org"	"GRCh37"	"19"	51773508	51773508	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000316401"	""	107	"88"	19	62	"62"	0	"SIGLECL1,downstream_gene_variant,,ENST00000316401,NM_173635.1;SIGLECL1,downstream_gene_variant,,ENST00000601727,;SIGLECL1,downstream_gene_variant,,ENST00000597824,;SIGLECL1,downstream_gene_variant,,ENST00000597610,;CTD-3187F8.11,upstream_gene_variant,,ENST00000594261,;CTD-3187F8.11,upstream_gene_variant,,ENST00000600813,;CTD-3187F8.11,upstream_gene_variant,,ENST00000595566,;CTD-3187F8.2,intron_variant,,ENST00000597569,;SIGLECL1,downstream_gene_variant,,ENST00000593968,;"	"T"	"ENSG00000179213"	"ENST00000316401"	"Transcript"	"downstream_gene_variant"	"-/1708"	"-/594"	"-/197"	""	""	""	"1"	"924"	1	"SIGLECL1"	"HGNC"	26856	"protein_coding"	"YES"	"CCDS12827.1"	"ENSP00000321249"	"Q8N7X8"	"M0QY54,M0QY48"	"UPI000006D35D"	"NM_173635.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"107028ae-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177570093457944	"WGS"	FALSE
"9001"	"ZNF578"	147660	"mskcc.org"	"GRCh37"	"19"	52998694	52998694	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"rs2447901"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-20+4016T>A"	""	""	"ENST00000421239"	""	90	"84"	6	64	"64"	0	"ZNF578,intron_variant,,ENST00000421239,NM_001099694.1;ZNF578,intron_variant,,ENST00000601120,;"	"A"	"ENSG00000258405"	"ENST00000421239"	"Transcript"	"intron_variant"	"-/2017"	"-/1773"	"-/590"	""	""	"rs2447901"	"1"	NA	1	"ZNF578"	"HGNC"	26449	"protein_coding"	"YES"	"CCDS54310.1"	"ENSP00000459216"	"Q96N58"	"M0QZV4"	"UPI000048A457"	"NM_001099694.1"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"10707ce6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"9002"	"ZNF888"	0	"mskcc.org"	"GRCh37"	"19"	53423187	53423187	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.103-1937A>T"	""	""	"ENST00000596623"	""	9	"6"	3	6	"6"	0	"ZNF888,intron_variant,,ENST00000596623,;CTD-2331H12.7,upstream_gene_variant,,ENST00000594546,;ZNF888,upstream_gene_variant,,ENST00000454258,;"	"A"	"ENSG00000213793"	"ENST00000596623"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/551"	""	""	""	""	""	"1"	NA	-1	"ZNF888"	"HGNC"	38695	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"1070bef4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"9003"	"ZNF347"	84671	"mskcc.org"	"GRCh37"	"19"	53655301	53655301	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.15+1685C>G"	""	""	"ENST00000452676"	""	34	"30"	4	33	"33"	0	"ZNF347,intron_variant,,ENST00000452676,NM_001172674.1;ZNF347,intron_variant,,ENST00000334197,NM_032584.2;ZNF347,intron_variant,,ENST00000601469,NM_001172675.1;ZNF347,intron_variant,,ENST00000597183,;ZNF347,intron_variant,,ENST00000601804,;ZNF347,intron_variant,,ENST00000599096,;ZNF347,upstream_gene_variant,,ENST00000595967,;ZNF347,intron_variant,,ENST00000595710,;"	"C"	"ENSG00000197937"	"ENST00000452676"	"Transcript"	"intron_variant"	"-/4553"	"-/2523"	"-/840"	""	""	""	"1"	NA	-1	"ZNF347"	"HGNC"	16447	"protein_coding"	"YES"	"CCDS54314.1"	"ENSP00000405218"	"Q96SE7"	"M0R1E9,M0QXR8"	"UPI000059D78C"	"NM_001172674.1"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"1070da56-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"9004"	"CTD-2224J9.8"	0	"mskcc.org"	"GRCh37"	"19"	54017928	54017928	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"rs369839713"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000601966"	""	43	"38"	5	14	"14"	0	"CTD-2224J9.8,downstream_gene_variant,,ENST00000601966,;CTD-2224J9.8,downstream_gene_variant,,ENST00000597004,;"	"G"	"ENSG00000213777"	"ENST00000601966"	"Transcript"	"downstream_gene_variant"	"-/578"	""	""	""	""	"rs369839713"	"1"	"2263"	1	"CTD-2224J9.8"	"Clone_based_vega_gene"	NA	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	""	""	"G:0.2720"	"G:0.3003"	"G:0.2608"	NA	"G:0.1379"	"G:0.3131"	"G:0.3374"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"10710904-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116279069767442	"WGS"	FALSE
"9005"	"CTD-2224J9.8"	0	"mskcc.org"	"GRCh37"	"19"	54017938	54017938	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"rs181497838"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000601966"	""	40	"35"	5	12	"12"	0	"CTD-2224J9.8,downstream_gene_variant,,ENST00000601966,;CTD-2224J9.8,downstream_gene_variant,,ENST00000597004,;"	"T"	"ENSG00000213777"	"ENST00000601966"	"Transcript"	"downstream_gene_variant"	"-/578"	""	""	""	""	"rs181497838"	"1"	"2273"	1	"CTD-2224J9.8"	"Clone_based_vega_gene"	NA	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.2720"	"T:0.3003"	"T:0.2608"	NA	"T:0.1379"	"T:0.3131"	"T:0.3374"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"10710a58-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"9006"	"NLRP12"	91662	"mskcc.org"	"GRCh37"	"19"	54320740	54320740	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.290-2498A>T"	""	""	"ENST00000324134"	""	89	"83"	6	25	"25"	0	"NLRP12,intron_variant,,ENST00000324134,NM_144687.3,NM_001277126.1;NLRP12,intron_variant,,ENST00000391773,;NLRP12,intron_variant,,ENST00000535162,;NLRP12,intron_variant,,ENST00000345770,;NLRP12,intron_variant,,ENST00000351894,;NLRP12,intron_variant,,ENST00000391775,NM_001277129.1;NLRP12,intron_variant,,ENST00000354278,;NLRP12,intron_variant,,ENST00000391772,;"	"A"	"ENSG00000142405"	"ENST00000324134"	"Transcript"	"intron_variant"	"-/3801"	"-/3186"	"-/1061"	""	""	""	"1"	NA	-1	"NLRP12"	"HGNC"	22938	"protein_coding"	"YES"	"CCDS12864.1"	"ENSP00000319377"	"P59046"	""	"UPI00001412CE"	"NM_144687.3,NM_001277126.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"10713942-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"9007"	"AC008746.10"	0	"mskcc.org"	"GRCh37"	"19"	54895858	54895858	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"rs540606854"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000450173"	""	41	"35"	6	48	"48"	0	"AC008746.10,downstream_gene_variant,,ENST00000450173,;"	"C"	"ENSG00000237955"	"ENST00000450173"	"Transcript"	"downstream_gene_variant"	"-/472"	""	""	""	""	"rs540606854"	"1"	"4294"	1	"AC008746.10"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"C:0.0006"	"C:0"	"C:0"	NA	"C:0.001"	"C:0"	"C:0.002"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"1071cd8a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146341463414634	"WGS"	FALSE
"9008"	"TMEM238"	388564	"mskcc.org"	"GRCh37"	"19"	55886750	55886750	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000444469"	""	113	"104"	9	66	"66"	0	"IL11,upstream_gene_variant,,ENST00000585513,;IL11,upstream_gene_variant,,ENST00000590625,NM_001267718.1;TMEM238,downstream_gene_variant,,ENST00000444469,NM_001190764.1;TMEM190,upstream_gene_variant,,ENST00000291934,NM_139172.1;CTD-2105E13.15,downstream_gene_variant,,ENST00000595064,;"	"T"	"ENSG00000233493"	"ENST00000444469"	"Transcript"	"downstream_gene_variant"	"-/1000"	"-/531"	"-/176"	""	""	""	"1"	"3863"	-1	"TMEM238"	"HGNC"	40042	"protein_coding"	"YES"	"CCDS54323.1"	"ENSP00000416154"	"C9JI98"	""	"UPI00001D8196"	"NM_001190764.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"1072732a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.079646017699115	"WGS"	FALSE
"9009"	"AC006115.1"	0	"mskcc.org"	"GRCh37"	"19"	57226904	57226904	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000580221"	""	83	"66"	17	51	"51"	0	"AC006115.1,downstream_gene_variant,,ENST00000580221,;AC006115.3,intron_variant,,ENST00000594400,;AC006115.3,intron_variant,,ENST00000600093,;AC006115.3,intron_variant,,ENST00000597822,;"	"A"	"ENSG00000265070"	"ENST00000580221"	"Transcript"	"downstream_gene_variant"	"-/85"	""	""	""	""	""	"1"	"3667"	-1	"AC006115.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"107357e0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204819277108434	"WGS"	FALSE
"9010"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	57584349	57584349	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"86"	8	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"107381fc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"9011"	"ZSCAN18"	65982	"mskcc.org"	"GRCh37"	"19"	58593469	58593469	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000600404"	""	81	"75"	6	47	"47"	0	"ZSCAN18,downstream_gene_variant,,ENST00000240727,NM_023926.4;ZSCAN18,downstream_gene_variant,,ENST00000601144,NM_001145543.1;ZSCAN18,downstream_gene_variant,,ENST00000433686,;ZSCAN18,downstream_gene_variant,,ENST00000600404,NM_001145542.1;ZSCAN18,downstream_gene_variant,,ENST00000421612,NM_001145544.1;ZSCAN18,downstream_gene_variant,,ENST00000600522,;ZNF135,intron_variant,,ENST00000515535,;ZSCAN18,downstream_gene_variant,,ENST00000598497,;ZSCAN18,downstream_gene_variant,,ENST00000596372,;ZSCAN18,downstream_gene_variant,,ENST00000594191,;ZSCAN18,downstream_gene_variant,,ENST00000595784,;"	"G"	"ENSG00000121413"	"ENST00000600404"	"Transcript"	"downstream_gene_variant"	"-/1934"	"-/1701"	"-/566"	""	""	""	"1"	"2380"	-1	"ZSCAN18"	"HGNC"	21037	"protein_coding"	"YES"	"CCDS46214.1"	"ENSP00000470123"	"Q8TBC5"	"Q69Z04,M0R1U9"	"UPI00017A6DAF"	"NM_001145542.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"1073e1d8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"9012"	"ZNF324"	25799	"mskcc.org"	"GRCh37"	"19"	58976661	58976661	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000536459"	""	53	"48"	5	27	"27"	0	"ZNF324,upstream_gene_variant,,ENST00000536459,;ZNF324,upstream_gene_variant,,ENST00000196482,NM_014347.2;"	"C"	"ENSG00000083812"	"ENST00000536459"	"Transcript"	"upstream_gene_variant"	"-/3795"	"-/1662"	"-/553"	""	""	""	"1"	"1762"	1	"ZNF324"	"HGNC"	14096	"protein_coding"	"YES"	"CCDS12981.1"	"ENSP00000444812"	"O75467"	"F5H1K2"	"UPI000013C359"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"10741536-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0943396226415094	"WGS"	FALSE
"9013"	"MZF1"	7593	"mskcc.org"	"GRCh37"	"19"	59076683	59076683	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"rs541085753"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.773-1812T>A"	""	""	"ENST00000215057"	""	51	"38"	13	35	"34"	1	"MZF1,intron_variant,,ENST00000215057,NM_001267033.1,NM_198055.1;MZF1,intron_variant,,ENST00000599369,NM_003422.2;MZF1,intron_variant,,ENST00000594234,;MZF1,downstream_gene_variant,,ENST00000594108,;AC016629.8,intron_variant,,ENST00000600534,;AC016629.8,intron_variant,,ENST00000593642,;AC016629.8,intron_variant,,ENST00000600726,;MZF1,downstream_gene_variant,,ENST00000595245,;MZF1,upstream_gene_variant,,ENST00000600004,;MZF1,downstream_gene_variant,,ENST00000600048,;"	"T"	"ENSG00000099326"	"ENST00000215057"	"Transcript"	"intron_variant"	"-/2905"	"-/2205"	"-/734"	""	""	"rs541085753"	"1"	NA	-1	"MZF1"	"HGNC"	13108	"protein_coding"	"YES"	"CCDS12988.1"	"ENSP00000215057"	"P28698"	"M0R2C0"	"UPI0000072863"	"NM_001267033.1,NM_198055.1"	""	""	""	"5/5"	""	"T:0.0156"	"T:0.0545"	"T:0.0072"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"10743110-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254901960784314	"WGS"	FALSE
"9014"	"SNTG2"	54221	"mskcc.org"	"GRCh37"	"2"	964838	964838	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.72+18084C>G"	""	""	"ENST00000308624"	""	97	"85"	12	60	"60"	0	"SNTG2,intron_variant,,ENST00000308624,NM_018968.3;SNTG2,intron_variant,,ENST00000407292,;SNTG2,intron_variant,,ENST00000452177,;SNTG2,intron_variant,,ENST00000450962,;"	"G"	"ENSG00000172554"	"ENST00000308624"	"Transcript"	"intron_variant"	"-/1888"	"-/1620"	"-/539"	""	""	""	"1"	NA	1	"SNTG2"	"HGNC"	13741	"protein_coding"	"YES"	"CCDS46220.1"	"ENSP00000311837"	"Q9NY99"	""	"UPI0000456D73"	"NM_018968.3"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"1075171a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123711340206186	"WGS"	FALSE
"9015"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	2562396	2562396	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"77"	11	58	"58"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"10765eb8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"9016"	"TSSC1"	7260	"mskcc.org"	"GRCh37"	"2"	3224450	3224450	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.417-6431G>C"	""	""	"ENST00000382125"	""	81	"74"	7	50	"50"	0	"TSSC1,intron_variant,,ENST00000398659,;TSSC1,intron_variant,,ENST00000443925,;TSSC1,intron_variant,,ENST00000382125,NM_003310.2;TSSC1,intron_variant,,ENST00000441271,;TSSC1,intron_variant,,ENST00000478754,;TSSC1,intron_variant,,ENST00000463662,;TSSC1,intron_variant,,ENST00000462515,;TSSC1,intron_variant,,ENST00000455162,;TSSC1,intron_variant,,ENST00000406835,;TSSC1,intron_variant,,ENST00000435721,;TSSC1,intron_variant,,ENST00000482570,;"	"G"	"ENSG00000032389"	"ENST00000382125"	"Transcript"	"intron_variant"	"-/1766"	"-/1164"	"-/387"	""	""	""	"1"	NA	-1	"TSSC1"	"HGNC"	12383	"protein_coding"	"YES"	"CCDS1651.1"	"ENSP00000371559"	"Q53HC9"	""	"UPI000006DFE1"	"NM_003310.2"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"1076ef2c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"9017"	"TSSC1"	7260	"mskcc.org"	"GRCh37"	"2"	3300148	3300148	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.260-38922T>C"	""	""	"ENST00000382125"	""	50	"45"	5	38	"38"	0	"TSSC1,intron_variant,,ENST00000398659,;TSSC1,intron_variant,,ENST00000443925,;TSSC1,intron_variant,,ENST00000382125,NM_003310.2;TSSC1,intron_variant,,ENST00000441271,;TSSC1,intron_variant,,ENST00000444776,;TSSC1-IT1,downstream_gene_variant,,ENST00000454977,;TSSC1,intron_variant,,ENST00000478754,;TSSC1,intron_variant,,ENST00000463662,;TSSC1,intron_variant,,ENST00000455162,;TSSC1,intron_variant,,ENST00000406835,;TSSC1,intron_variant,,ENST00000435721,;"	"G"	"ENSG00000032389"	"ENST00000382125"	"Transcript"	"intron_variant"	"-/1766"	"-/1164"	"-/387"	""	""	""	"1"	NA	-1	"TSSC1"	"HGNC"	12383	"protein_coding"	"YES"	"CCDS1651.1"	"ENSP00000371559"	"Q53HC9"	""	"UPI000006DFE1"	"NM_003310.2"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"10770b10-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"9018"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	4175533	4175533	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"73"	16	45	"45"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"10777d0c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179775280898876	"WGS"	FALSE
"9019"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	4956220	4956220	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"74"	21	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"1077a0ac-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221052631578947	"WGS"	FALSE
"9020"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	5886631	5886631	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"65"	15	65	"65"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"1077e6ca-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"9021"	"hsa-mir-7515"	102466235	"mskcc.org"	"GRCh37"	"2"	6791820	6791820	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"rs749385335"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000591018"	""	79	"64"	15	42	"42"	0	"hsa-mir-7515,upstream_gene_variant,,ENST00000591018,;hsa-mir-7515,upstream_gene_variant,,ENST00000591400,;hsa-mir-7515,upstream_gene_variant,,ENST00000588330,;hsa-mir-7515,upstream_gene_variant,,ENST00000590006,;hsa-mir-7515,upstream_gene_variant,,ENST00000592365,;hsa-mir-7515,upstream_gene_variant,,ENST00000587748,;hsa-mir-7515,upstream_gene_variant,,ENST00000591731,;hsa-mir-7515,upstream_gene_variant,,ENST00000586893,;hsa-mir-7515,upstream_gene_variant,,ENST00000591129,;hsa-mir-7515,upstream_gene_variant,,ENST00000591093,;hsa-mir-7515,upstream_gene_variant,,ENST00000590971,;hsa-mir-7515,upstream_gene_variant,,ENST00000588145,;hsa-mir-7515,upstream_gene_variant,,ENST00000588051,;hsa-mir-7515,upstream_gene_variant,,ENST00000591575,;hsa-mir-7515,upstream_gene_variant,,ENST00000587316,;hsa-mir-7515,upstream_gene_variant,,ENST00000592229,;hsa-mir-7515,upstream_gene_variant,,ENST00000587162,;hsa-mir-7515,upstream_gene_variant,,ENST00000593277,;hsa-mir-7515,upstream_gene_variant,,ENST00000586129,;hsa-mir-7515,upstream_gene_variant,,ENST00000592730,;hsa-mir-7515,upstream_gene_variant,,ENST00000585781,;hsa-mir-7515,upstream_gene_variant,,ENST00000415657,;hsa-mir-7515,upstream_gene_variant,,ENST00000588220,;hsa-mir-7515,upstream_gene_variant,,ENST00000585789,;hsa-mir-7515,upstream_gene_variant,,ENST00000431336,;hsa-mir-7515,upstream_gene_variant,,ENST00000585810,;hsa-mir-7515,upstream_gene_variant,,ENST00000592816,;hsa-mir-7515,upstream_gene_variant,,ENST00000587050,;hsa-mir-7515,upstream_gene_variant,,ENST00000425711,;hsa-mir-7515,upstream_gene_variant,,ENST00000585767,;hsa-mir-7515,upstream_gene_variant,,ENST00000450467,;"	"T"	"ENSG00000236172"	"ENST00000591018"	"Transcript"	"upstream_gene_variant"	"-/1240"	""	""	""	""	"rs749385335"	"1"	"1441"	-1	"hsa-mir-7515"	"miRBase"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"1078075e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189873417721519	"WGS"	FALSE
"9022"	"LINC00299"	339789	"mskcc.org"	"GRCh37"	"2"	8292597	8292597	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.714-92062T>A"	""	""	"ENST00000430192"	""	99	"83"	16	63	"63"	0	"LINC00299,intron_variant,,ENST00000430192,;LINC00298,intron_variant,,ENST00000456681,;"	"T"	"ENSG00000236790"	"ENST00000430192"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1760"	""	""	""	""	""	"1"	NA	-1	"LINC00299"	"HGNC"	27940	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"10784660-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161616161616162	"WGS"	FALSE
"9023"	"LPIN1"	23175	"mskcc.org"	"GRCh37"	"2"	11959807	11959807	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2664+83C>T"	""	""	"ENST00000449576"	""	76	"58"	18	51	"51"	0	"LPIN1,intron_variant,,ENST00000256720,NM_145693.2;LPIN1,intron_variant,,ENST00000396097,;LPIN1,intron_variant,,ENST00000396099,;LPIN1,intron_variant,,ENST00000449576,NM_001261428.1;LPIN1,intron_variant,,ENST00000425416,NM_001261427.1;LPIN1,intron_variant,,ENST00000404113,;LPIN1,upstream_gene_variant,,ENST00000487576,;LPIN1,intron_variant,,ENST00000475922,;"	"T"	"ENSG00000134324"	"ENST00000449576"	"Transcript"	"intron_variant"	"-/3077"	"-/2928"	"-/975"	""	""	""	"1"	NA	1	"LPIN1"	"HGNC"	13345	"protein_coding"	"YES"	"CCDS58699.1"	"ENSP00000397908"	""	"F5GY24,C9J278,C9IYP2,B4DGZ6"	"UPI0002064F62"	"NM_001261428.1"	""	""	""	"20/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"1079a906-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236842105263158	"WGS"	FALSE
"9024"	"AC096559.1"	100506457	"mskcc.org"	"GRCh37"	"2"	12006813	12006813	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.31+772A>C"	""	""	"ENST00000438292"	""	99	"75"	24	67	"67"	0	"AC096559.1,intron_variant,,ENST00000438292,;AC096559.1,downstream_gene_variant,,ENST00000429878,;"	"C"	"ENSG00000224184"	"ENST00000438292"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/442"	""	""	""	""	""	"1"	NA	1	"AC096559.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"1079b036-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242424242424242	"WGS"	FALSE
"9025"	"AC008069.1"	0	"mskcc.org"	"GRCh37"	"2"	16942285	16942285	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.57-5998C>T"	""	""	"ENST00000448650"	""	85	"78"	7	58	"58"	0	"AC008069.1,intron_variant,,ENST00000448650,;AC008069.1,intron_variant,,ENST00000423925,;"	"T"	"ENSG00000223536"	"ENST00000448650"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/596"	""	""	""	""	""	"1"	NA	1	"AC008069.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"107a868c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0823529411764706	"WGS"	FALSE
"9026"	"KCNS3"	3790	"mskcc.org"	"GRCh37"	"2"	18379970	18379970	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.424+28196G>C"	""	""	"ENST00000465292"	""	92	"68"	24	59	"59"	0	"KCNS3,intron_variant,,ENST00000465292,;"	"C"	"ENSG00000170745"	"ENST00000465292"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/585"	""	""	""	""	""	"1"	NA	1	"KCNS3"	"HGNC"	6302	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"107aaaf4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"9027"	"AC067959.1"	0	"mskcc.org"	"GRCh37"	"2"	21962600	21962600	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.194-59629A>T"	""	""	"ENST00000435237"	""	98	"92"	6	48	"48"	0	"AC067959.1,intron_variant,,ENST00000435237,;"	"T"	"ENSG00000233005"	"ENST00000435237"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/488"	""	""	""	""	""	"1"	NA	1	"AC067959.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"107b1f02-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0612244897959184	"WGS"	FALSE
"9028"	"AC068490.2"	0	"mskcc.org"	"GRCh37"	"2"	22323280	22323280	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.200+110457T>C"	""	""	"ENST00000450551"	""	108	"90"	18	64	"64"	0	"AC068490.2,intron_variant,,ENST00000450551,;"	"G"	"ENSG00000231200"	"ENST00000450551"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/636"	""	""	""	""	""	"1"	NA	-1	"AC068490.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"107b2fec-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"9029"	"AC068490.2"	0	"mskcc.org"	"GRCh37"	"2"	22477869	22477869	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.71-44003C>A"	""	""	"ENST00000450551"	""	95	"81"	14	64	"64"	0	"AC068490.2,intron_variant,,ENST00000450551,;"	"T"	"ENSG00000231200"	"ENST00000450551"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/636"	""	""	""	""	""	"1"	NA	-1	"AC068490.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"107b3460-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147368421052632	"WGS"	FALSE
"9030"	"KLHL29"	114818	"mskcc.org"	"GRCh37"	"2"	23816467	23816467	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs543710846"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.285+31116G>A"	""	""	"ENST00000486442"	""	83	"65"	18	60	"60"	0	"KLHL29,intron_variant,,ENST00000486442,NM_052920.1;KLHL29,intron_variant,,ENST00000489446,;"	"A"	"ENSG00000119771"	"ENST00000486442"	"Transcript"	"intron_variant"	"-/5287"	"-/2628"	"-/875"	""	""	"rs543710846"	"1"	NA	1	"KLHL29"	"HGNC"	29404	"protein_coding"	"YES"	"CCDS54335.1"	"ENSP00000420659"	"Q96CT2"	"Q53T86"	"UPI000058F1B6"	"NM_052920.1"	""	""	""	"3/13"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"107b621e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216867469879518	"WGS"	FALSE
"9031"	"ITSN2"	50618	"mskcc.org"	"GRCh37"	"2"	24587581	24587581	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000355123"	""	107	"101"	6	66	"66"	0	"ITSN2,upstream_gene_variant,,ENST00000355123,NM_006277.2;ITSN2,upstream_gene_variant,,ENST00000361999,NM_019595.3;ITSN2,upstream_gene_variant,,ENST00000406921,NM_147152.2;ITSN2,upstream_gene_variant,,ENST00000412011,;ITSN2,upstream_gene_variant,,ENST00000443927,;ITSN2,upstream_gene_variant,,ENST00000407704,;"	"T"	"ENSG00000198399"	"ENST00000355123"	"Transcript"	"upstream_gene_variant"	"-/6300"	"-/5094"	"-/1697"	""	""	""	"1"	"3998"	-1	"ITSN2"	"HGNC"	6184	"protein_coding"	"YES"	"CCDS1710.2"	"ENSP00000347244"	"Q9NZM3"	"Q53TM3,Q53TK4,F8W719"	"UPI000013D415"	"NM_006277.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"107b99a0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0560747663551402	"WGS"	FALSE
"9032"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	24609226	24609226	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"68"	20	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"107b9ffe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"9033"	"DTNB"	1838	"mskcc.org"	"GRCh37"	"2"	25855594	25855594	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.149-4341G>C"	""	""	"ENST00000406818"	""	100	"75"	25	60	"60"	0	"DTNB,intron_variant,,ENST00000406818,NM_001256303.1,NM_021907.4;DTNB,intron_variant,,ENST00000407661,NM_183360.2,NM_001256304.1;DTNB,intron_variant,,ENST00000404103,NM_033147.3;DTNB,intron_variant,,ENST00000288642,;DTNB,intron_variant,,ENST00000496972,NM_001256308.1;DTNB,intron_variant,,ENST00000407038,NM_033148.3;DTNB,intron_variant,,ENST00000407186,;DTNB,intron_variant,,ENST00000405222,NM_183361.2;DTNB,intron_variant,,ENST00000545439,;DTNB,intron_variant,,ENST00000303659,;DTNB,intron_variant,,ENST00000349996,;DTNB,intron_variant,,ENST00000472690,;DTNB,intron_variant,,ENST00000495466,;DTNB,intron_variant,,ENST00000486826,;DTNB,intron_variant,,ENST00000398951,;DTNB,intron_variant,,ENST00000485845,;DTNB,intron_variant,,ENST00000356599,;DTNB,intron_variant,,ENST00000493538,;DTNB,intron_variant,,ENST00000460418,;"	"G"	"ENSG00000138101"	"ENST00000406818"	"Transcript"	"intron_variant"	"-/2474"	"-/1884"	"-/627"	""	""	""	"1"	NA	-1	"DTNB"	"HGNC"	3058	"protein_coding"	"YES"	"CCDS46237.1"	"ENSP00000384084"	"O60941"	"Q53TC8,Q53T51,Q53SF9,Q53QV1,F8W9U0,E9PE76,E7ES64"	"UPI0000129949"	"NM_001256303.1,NM_021907.4"	""	""	""	"3/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"107bf328-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"9034"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	26227220	26227220	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"96"	7	39	"39"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"107c1074-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0679611650485437	"WGS"	FALSE
"9035"	"TMEM214"	54867	"mskcc.org"	"GRCh37"	"2"	27269538	27269538	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000238788"	""	87	"68"	19	57	"57"	0	"AGBL5,intron_variant,,ENST00000421915,;TMEM214,downstream_gene_variant,,ENST00000238788,NM_017727.4;TMEM214,downstream_gene_variant,,ENST00000404032,NM_001083590.1;AGBL5,upstream_gene_variant,,ENST00000453161,;AGBL5,upstream_gene_variant,,ENST00000451003,;AGBL5-AS1,downstream_gene_variant,,ENST00000444217,;AGBL5,upstream_gene_variant,,ENST00000487078,;TMEM214,downstream_gene_variant,,ENST00000321326,;AGBL5,upstream_gene_variant,,ENST00000477136,;TMEM214,downstream_gene_variant,,ENST00000460665,;"	"T"	"ENSG00000119777"	"ENST00000238788"	"Transcript"	"downstream_gene_variant"	"-/2990"	"-/2070"	"-/689"	""	""	""	"1"	"4975"	1	"TMEM214"	"HGNC"	25983	"protein_coding"	"YES"	"CCDS42664.1"	"ENSP00000238788"	"Q6NUQ4"	"B2RD07"	"UPI00003FF926"	"NM_017727.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"107c61f0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218390804597701	"WGS"	FALSE
"9036"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	27638746	27638746	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"87"	7	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"107c8a54-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"9037"	"GALNT14"	79623	"mskcc.org"	"GRCh37"	"2"	31270283	31270283	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.314+67326T>C"	""	""	"ENST00000324589"	""	89	"71"	18	54	"54"	0	"GALNT14,intron_variant,,ENST00000349752,NM_024572.3;GALNT14,intron_variant,,ENST00000406653,NM_001253827.1;GALNT14,intron_variant,,ENST00000324589,NM_001253826.1;GALNT14,intron_variant,,ENST00000356174,;GALNT14,intron_variant,,ENST00000420311,;GALNT14,intron_variant,,ENST00000430167,;GALNT14,intron_variant,,ENST00000464038,;GALNT14,intron_variant,,ENST00000496397,;GALNT14,intron_variant,,ENST00000490212,;GALNT14,intron_variant,,ENST00000498206,;GALNT14,intron_variant,,ENST00000461193,;GALNT14,intron_variant,,ENST00000455477,;GALNT14,intron_variant,,ENST00000424136,;"	"G"	"ENSG00000158089"	"ENST00000324589"	"Transcript"	"intron_variant"	"-/2169"	"-/1674"	"-/557"	""	""	""	"1"	NA	-1	"GALNT14"	"HGNC"	22946	"protein_coding"	"YES"	"CCDS58706.1"	"ENSP00000314500"	"Q96FL9"	""	"UPI0000073A6F"	"NM_001253826.1"	""	""	""	"3/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"107d344a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202247191011236	"WGS"	FALSE
"9038"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	32561795	32561795	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"89"	7	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"107d72c0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0729166666666667	"WGS"	FALSE
"9039"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	42298277	42298277	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"82"	8	45	"45"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"10806282-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"9040"	"ENSR00000300786"	0	"mskcc.org"	"GRCh37"	"2"	43290216	43290216	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000300786"	""	67	"60"	7	35	"35"	0	""	"A"	""	"ENSR00000300786"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"10810bba-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104477611940299	"WGS"	FALSE
"9041"	"AC079807.4"	0	"mskcc.org"	"GRCh37"	"2"	48294795	48294795	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.241-64231A>C"	""	""	"ENST00000447571"	""	90	"71"	19	57	"57"	0	"AC079807.4,intron_variant,,ENST00000447571,;AC079807.4,intron_variant,,ENST00000587616,;"	"G"	"ENSG00000230773"	"ENST00000447571"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1808"	""	""	""	""	""	"1"	NA	-1	"AC079807.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"10832a4e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211111111111111	"WGS"	FALSE
"9042"	"PPP1R21"	129285	"mskcc.org"	"GRCh37"	"2"	48745460	48745460	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000294952"	""	97	"74"	23	49	"49"	0	"PPP1R21,downstream_gene_variant,,ENST00000294952,NM_001135629.2;PPP1R21,downstream_gene_variant,,ENST00000281394,NM_001193475.1,NM_152994.4;PPP1R21,downstream_gene_variant,,ENST00000449090,;PPP1R21,downstream_gene_variant,,ENST00000476199,;PPP1R21,downstream_gene_variant,,ENST00000416913,;"	"G"	"ENSG00000162869"	"ENST00000294952"	"Transcript"	"downstream_gene_variant"	"-/3142"	"-/2343"	"-/780"	""	""	""	"1"	"2935"	1	"PPP1R21"	"HGNC"	30595	"protein_coding"	"YES"	"CCDS46278.1"	"ENSP00000294952"	"Q6ZMI0"	"F8W7E1"	"UPI000015C523"	"NM_001135629.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"108343a8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.237113402061856	"WGS"	FALSE
"9043"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	49532043	49532043	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"70"	17	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"10836d2e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195402298850575	"WGS"	FALSE
"9044"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	49536624	49536624	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"84"	19	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"10836e50-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184466019417476	"WGS"	FALSE
"9045"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	52773145	52773145	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"77"	17	35	"35"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"1083c800-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180851063829787	"WGS"	FALSE
"9046"	"EML6"	400954	"mskcc.org"	"GRCh37"	"2"	55172434	55172434	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4005-3585C>G"	""	""	"ENST00000356458"	""	25	"21"	4	7	"7"	0	"EML6,intron_variant,,ENST00000356458,NM_001039753.2;EML6,upstream_gene_variant,,ENST00000481376,;"	"G"	"ENSG00000214595"	"ENST00000356458"	"Transcript"	"intron_variant"	"-/8320"	"-/5877"	"-/1958"	""	""	""	"1"	NA	1	"EML6"	"HGNC"	35412	"protein_coding"	"YES"	"CCDS46286.1"	"ENSP00000348842"	"Q6ZMW3"	""	"UPI00006C0432"	"NM_001039753.2"	""	""	""	"27/40"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"108443a2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WGS"	FALSE
"9047"	"VRK2"	7444	"mskcc.org"	"GRCh37"	"2"	58280392	58280392	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.136+4290A>G"	""	""	"ENST00000435505"	""	99	"77"	22	61	"61"	0	"VRK2,intron_variant,,ENST00000435505,NM_001288837.1;VRK2,intron_variant,,ENST00000417641,NM_001288838.1;VRK2,intron_variant,,ENST00000412104,NM_001130483.2;VRK2,intron_variant,,ENST00000340157,NM_001130481.2,NM_006296.6,NM_001130480.2;VRK2,intron_variant,,ENST00000440705,NM_001130482.2;VRK2,intron_variant,,ENST00000428021,;VRK2,intron_variant,,ENST00000432057,NM_001288836.1;"	"G"	"ENSG00000028116"	"ENST00000435505"	"Transcript"	"intron_variant"	"-/2446"	"-/1527"	"-/508"	""	""	""	"1"	NA	1	"VRK2"	"HGNC"	12719	"protein_coding"	"YES"	"CCDS1859.1"	"ENSP00000408002"	"Q86Y07"	""	"UPI000013D498"	"NM_001288837.1"	""	""	""	"5/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"1084a52c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"9048"	"LINC01122"	0	"mskcc.org"	"GRCh37"	"2"	58671115	58671115	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.127+15516T>A"	""	""	"ENST00000452840"	""	91	"76"	15	51	"51"	0	"LINC01122,intron_variant,,ENST00000452840,;LINC01122,intron_variant,,ENST00000449448,;LINC01122,intron_variant,,ENST00000422723,;LINC01122,intron_variant,,ENST00000455219,;LINC01122,intron_variant,,ENST00000429095,;LINC01122,intron_variant,,ENST00000429664,;"	"A"	"ENSG00000233723"	"ENST00000452840"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4077"	""	""	""	""	""	"1"	NA	1	"LINC01122"	"HGNC"	49267	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"1084b710-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164835164835165	"WGS"	FALSE
"9049"	"WDPCP"	51057	"mskcc.org"	"GRCh37"	"2"	63777656	63777656	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.75+37675A>T"	""	""	"ENST00000272321"	""	100	"72"	28	45	"45"	0	"WDPCP,intron_variant,,ENST00000409562,;WDPCP,intron_variant,,ENST00000272321,NM_015910.5;WDPCP,intron_variant,,ENST00000431065,;WDPCP,intron_variant,,ENST00000409835,;WDPCP,intron_variant,,ENST00000490935,;WDPCP,intron_variant,,ENST00000467687,;WDPCP,intron_variant,,ENST00000417238,;WDPCP,intron_variant,,ENST00000418148,;"	"A"	"ENSG00000143951"	"ENST00000272321"	"Transcript"	"intron_variant"	"-/3392"	"-/2241"	"-/746"	""	""	""	"1"	NA	-1	"WDPCP"	"HGNC"	28027	"protein_coding"	"YES"	"CCDS42688.1"	"ENSP00000272321"	"O95876"	"Q53TG5,Q53S85,Q53RX9,E9PFG9"	"UPI000013D946"	"NM_015910.5"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"1085d2e4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"9050"	"WDPCP"	51057	"mskcc.org"	"GRCh37"	"2"	64018480	64018480	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.308+22276G>T"	""	""	"ENST00000490935"	""	108	"85"	23	68	"68"	0	"WDPCP,intron_variant,,ENST00000490935,;WDPCP,intron_variant,,ENST00000467687,;"	"A"	"ENSG00000143951"	"ENST00000490935"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/847"	""	""	""	""	""	"1"	NA	-1	"WDPCP"	"HGNC"	28027	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"1085da32-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212962962962963	"WGS"	FALSE
"9051"	"AFTPH"	54812	"mskcc.org"	"GRCh37"	"2"	64763512	64763512	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-33+11766C>G"	""	""	"ENST00000238855"	""	74	"67"	7	43	"43"	0	"AFTPH,intron_variant,,ENST00000422803,;AFTPH,intron_variant,,ENST00000238855,NM_203437.3;AFTPH,intron_variant,,ENST00000238856,NM_001002243.2,NM_017657.4;AFTPH,intron_variant,,ENST00000498706,;"	"G"	"ENSG00000119844"	"ENST00000238855"	"Transcript"	"intron_variant"	"-/4087"	"-/2811"	"-/936"	""	""	""	"1"	NA	1	"AFTPH"	"HGNC"	25951	"protein_coding"	"YES"	"CCDS46303.1"	"ENSP00000238855"	"Q6ULP2"	""	"UPI00003E1F8E"	"NM_203437.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"1086002a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	FALSE
"9052"	"AC023115.2"	101930566	"mskcc.org"	"GRCh37"	"2"	67516031	67516031	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.525-184A>G"	""	""	"ENST00000452716"	""	110	"95"	15	59	"59"	0	"AC023115.2,intron_variant,,ENST00000452716,;AC023115.2,intron_variant,,ENST00000593336,;AC023115.2,intron_variant,,ENST00000450294,;AC023115.2,intron_variant,,ENST00000598583,;"	"G"	"ENSG00000235885"	"ENST00000452716"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1074"	""	""	""	""	""	"1"	NA	1	"AC023115.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"108682b6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"9053"	"NFU1"	27247	"mskcc.org"	"GRCh37"	"2"	69624091	69624091	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.721-669C>G"	""	""	"ENST00000410022"	""	92	"85"	7	35	"35"	0	"NFU1,intron_variant,,ENST00000410022,NM_001002755.2;NFU1,intron_variant,,ENST00000394305,NM_001002756.2;NFU1,intron_variant,,ENST00000303698,NM_015700.3;NFU1,intron_variant,,ENST00000462320,;NFU1,downstream_gene_variant,,ENST00000484177,;NFU1,downstream_gene_variant,,ENST00000450796,;NFU1,intron_variant,,ENST00000471185,;NFU1,intron_variant,,ENST00000474230,;"	"C"	"ENSG00000169599"	"ENST00000410022"	"Transcript"	"intron_variant"	"-/1467"	"-/765"	"-/254"	""	""	""	"1"	NA	-1	"NFU1"	"HGNC"	16287	"protein_coding"	"YES"	"CCDS33217.1"	"ENSP00000387219"	"Q9UMS0"	"F8W9P7,C9J8Q1"	"UPI00001B3DAF"	"NM_001002755.2"	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"1086e6b6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"9054"	"LRRTM4"	80059	"mskcc.org"	"GRCh37"	"2"	77315916	77315916	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1552-339874T>C"	""	""	"ENST00000409093"	""	76	"57"	19	79	"79"	0	"LRRTM4,intron_variant,,ENST00000409911,NM_001282924.1,NM_001134745.1;LRRTM4,intron_variant,,ENST00000409093,;LRRTM4,intron_variant,,ENST00000409884,;"	"G"	"ENSG00000176204"	"ENST00000409093"	"Transcript"	"intron_variant"	"-/2247"	"-/1773"	"-/590"	""	""	""	"1"	NA	-1	"LRRTM4"	"HGNC"	19411	"protein_coding"	"YES"	"CCDS46346.1"	"ENSP00000386357"	"Q86VH4"	"C9JM64"	"UPI0000047808"	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"1088b2ac-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"9055"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	78618095	78618095	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"rs184426184"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"72"	16	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs184426184"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0.0014"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"1088ecd6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"9056"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	78618873	78618873	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"53"	21	37	"37"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"1088ed76-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283783783783784	"WGS"	FALSE
"9057"	"CTNNA2"	1496	"mskcc.org"	"GRCh37"	"2"	79943836	79943836	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103-27677T>G"	""	""	"ENST00000466387"	""	100	"78"	22	66	"66"	0	"CTNNA2,intron_variant,,ENST00000466387,;CTNNA2,intron_variant,,ENST00000496558,NM_001164883.1,NM_004389.3,NM_001282598.1;CTNNA2,intron_variant,,ENST00000402739,NM_001282597.1;CTNNA2,intron_variant,,ENST00000541047,;CTNNA2,intron_variant,,ENST00000361291,;CTNNA2,intron_variant,,ENST00000540488,;CTNNA2,intron_variant,,ENST00000409971,;CTNNA2,intron_variant,,ENST00000451966,;CTNNA2,intron_variant,,ENST00000508970,;"	"G"	"ENSG00000066032"	"ENST00000466387"	"Transcript"	"intron_variant"	"-/4349"	"-/2718"	"-/905"	""	""	""	"1"	NA	1	"CTNNA2"	"HGNC"	2510	"protein_coding"	"YES"	"CCDS42703.2"	"ENSP00000418191"	"P26232"	"F6KRI5,C9J144,C9IZ88"	"UPI00001A3E86"	""	""	""	""	"6/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"10891850-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22	"WGS"	FALSE
"9058"	"CTNNA2"	1496	"mskcc.org"	"GRCh37"	"2"	80022246	80022246	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.298+50538G>T"	""	""	"ENST00000466387"	""	91	"76"	15	42	"42"	0	"CTNNA2,intron_variant,,ENST00000466387,;CTNNA2,intron_variant,,ENST00000496558,NM_001164883.1,NM_004389.3,NM_001282598.1;CTNNA2,intron_variant,,ENST00000402739,NM_001282597.1;CTNNA2,intron_variant,,ENST00000541047,;CTNNA2,intron_variant,,ENST00000361291,;CTNNA2,intron_variant,,ENST00000540488,;CTNNA2,intron_variant,,ENST00000409971,;AC096753.1,downstream_gene_variant,,ENST00000577381,;"	"T"	"ENSG00000066032"	"ENST00000466387"	"Transcript"	"intron_variant"	"-/4349"	"-/2718"	"-/905"	""	""	""	"1"	NA	1	"CTNNA2"	"HGNC"	2510	"protein_coding"	"YES"	"CCDS42703.2"	"ENSP00000418191"	"P26232"	"F6KRI5,C9J144,C9IZ88"	"UPI00001A3E86"	""	""	""	""	"7/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"108919cc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164835164835165	"WGS"	FALSE
"9059"	"CTNNA2"	1496	"mskcc.org"	"GRCh37"	"2"	80056013	80056013	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.299-29126A>G"	""	""	"ENST00000466387"	""	103	"91"	12	56	"56"	0	"CTNNA2,intron_variant,,ENST00000466387,;CTNNA2,intron_variant,,ENST00000496558,NM_001164883.1,NM_004389.3,NM_001282598.1;CTNNA2,intron_variant,,ENST00000402739,NM_001282597.1;CTNNA2,intron_variant,,ENST00000541047,;CTNNA2,intron_variant,,ENST00000361291,;CTNNA2,intron_variant,,ENST00000540488,;CTNNA2,intron_variant,,ENST00000409971,;"	"G"	"ENSG00000066032"	"ENST00000466387"	"Transcript"	"intron_variant"	"-/4349"	"-/2718"	"-/905"	""	""	""	"1"	NA	1	"CTNNA2"	"HGNC"	2510	"protein_coding"	"YES"	"CCDS42703.2"	"ENSP00000418191"	"P26232"	"F6KRI5,C9J144,C9IZ88"	"UPI00001A3E86"	""	""	""	""	"7/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"10891bc0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116504854368932	"WGS"	FALSE
"9060"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	81548937	81548937	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"66"	17	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"10894aaa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204819277108434	"WGS"	FALSE
"9061"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	83627073	83627073	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"86"	15	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"108987fe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148514851485149	"WGS"	FALSE
"9062"	"TCF7L1"	83439	"mskcc.org"	"GRCh37"	"2"	85540409	85540409	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000282111"	""	72	"63"	9	48	"48"	0	"TGOLN2,downstream_gene_variant,,ENST00000377386,;TGOLN2,downstream_gene_variant,,ENST00000398263,NM_001206844.1,NM_001206840.1,NM_001206841.1,NM_006464.3;TGOLN2,downstream_gene_variant,,ENST00000282120,;TCF7L1,downstream_gene_variant,,ENST00000282111,NM_031283.2;AC093162.5,upstream_gene_variant,,ENST00000501107,;"	"G"	"ENSG00000152284"	"ENST00000282111"	"Transcript"	"downstream_gene_variant"	"-/2968"	"-/1767"	"-/588"	""	""	""	"1"	"2898"	1	"TCF7L1"	"HGNC"	11640	"protein_coding"	"YES"	"CCDS1971.1"	"ENSP00000282111"	"Q9HCS4"	"Q53T87,C9JPE3"	"UPI0000136846"	"NM_031283.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"1089d614-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"9063"	"REEP1"	65055	"mskcc.org"	"GRCh37"	"2"	86454932	86454932	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.616+4816C>A"	""	""	"ENST00000538924"	""	96	"71"	25	46	"46"	0	"REEP1,intron_variant,,ENST00000165698,NM_022912.2;REEP1,intron_variant,,ENST00000535845,NM_001164731.1;REEP1,intron_variant,,ENST00000538924,NM_001164730.1;REEP1,intron_variant,,ENST00000541910,NM_001164732.1;REEP1,intron_variant,,ENST00000540790,;REEP1,downstream_gene_variant,,ENST00000453231,;REEP1,downstream_gene_variant,,ENST00000428491,;REEP1,downstream_gene_variant,,ENST00000437769,;REEP1,downstream_gene_variant,,ENST00000473407,;REEP1,downstream_gene_variant,,ENST00000490915,;"	"T"	"ENSG00000068615"	"ENST00000538924"	"Transcript"	"intron_variant"	"-/3735"	"-/627"	"-/208"	""	""	""	"1"	NA	-1	"REEP1"	"HGNC"	25786	"protein_coding"	"YES"	"CCDS54374.1"	"ENSP00000438346"	"Q9H902"	"E7EUF7"	"UPI0001914DEC"	"NM_001164730.1"	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"108a11ce-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260416666666667	"WGS"	FALSE
"9064"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	89836669	89836669	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"105"	8	45	"45"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"108c4dea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0707964601769911	"WGS"	FALSE
"9065"	"ANKRD20A8P"	440482	"mskcc.org"	"GRCh37"	"2"	95505897	95505897	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.907-1309C>T"	""	""	"ENST00000432432"	""	77	"58"	19	59	"59"	0	"ANKRD20A8P,intron_variant,,ENST00000432432,;ANKRD20A8P,intron_variant,,ENST00000446135,;"	"A"	"ENSG00000229089"	"ENST00000432432"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3512"	""	""	""	""	""	"1"	NA	-1	"ANKRD20A8P"	"HGNC"	23666	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"6/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"109065b0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246753246753247	"WGS"	FALSE
"9066"	"AFF3"	3899	"mskcc.org"	"GRCh37"	"2"	100257254	100257254	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1259+8834T>A"	""	""	"ENST00000356421"	""	99	"84"	15	65	"65"	0	"AFF3,intron_variant,,ENST00000409236,;AFF3,intron_variant,,ENST00000317233,NM_002285.2;AFF3,intron_variant,,ENST00000356421,NM_001025108.1;AFF3,intron_variant,,ENST00000409579,;AFF3,intron_variant,,ENST00000430789,;"	"T"	"ENSG00000144218"	"ENST00000356421"	"Transcript"	"intron_variant"	"-/8118"	"-/3756"	"-/1251"	""	""	""	"1"	NA	-1	"AFF3"	"HGNC"	6473	"protein_coding"	"YES"	"CCDS33258.1"	"ENSP00000348793"	"P51826"	""	"UPI000041098C"	"NM_001025108.1"	""	""	""	"12/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"1091c11c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151515151515152	"WGS"	TRUE
"9067"	"NCK2"	8440	"mskcc.org"	"GRCh37"	"2"	106444274	106444274	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17+11204G>T"	""	""	"ENST00000233154"	""	96	"78"	18	68	"68"	0	"NCK2,intron_variant,,ENST00000233154,NM_003581.4;NCK2,intron_variant,,ENST00000451463,NM_001004722.3;NCK2,intron_variant,,ENST00000393348,;NCK2,intron_variant,,ENST00000522586,;"	"T"	"ENSG00000071051"	"ENST00000233154"	"Transcript"	"intron_variant"	"-/2683"	"-/1143"	"-/380"	""	""	""	"1"	NA	1	"NCK2"	"HGNC"	7665	"protein_coding"	"YES"	"CCDS33266.1"	"ENSP00000233154"	"O43639"	"Q53TG4,Q53T91,E9PEE2,E7EPF5"	"UPI000012FE3F"	"NM_003581.4"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"10932af2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"9068"	"AC006227.1"	0	"mskcc.org"	"GRCh37"	"2"	107920023	107920023	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.395-36859A>G"	""	""	"ENST00000443123"	""	100	"80"	20	58	"58"	0	"AC006227.1,intron_variant,,ENST00000443123,;AC006227.1,intron_variant,,ENST00000455614,;"	"C"	"ENSG00000229457"	"ENST00000443123"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/860"	""	""	""	""	""	"1"	NA	-1	"AC006227.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"1093f0c2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"9069"	"LIMS1"	3987	"mskcc.org"	"GRCh37"	"2"	109212760	109212760	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-5+7676A>G"	""	""	"ENST00000393310"	""	135	"111"	24	70	"70"	0	"LIMS1,intron_variant,,ENST00000393310,NM_001193488.1;LIMS1,intron_variant,,ENST00000544547,NM_001193483.2;LIMS1,intron_variant,,ENST00000332345,NM_004987.5;LIMS1,intron_variant,,ENST00000428064,;"	"G"	"ENSG00000169756"	"ENST00000393310"	"Transcript"	"intron_variant"	"-/4392"	"-/978"	"-/325"	""	""	""	"1"	NA	1	"LIMS1"	"HGNC"	6616	"protein_coding"	""	"CCDS2078.1"	"ENSP00000376987"	"P48059"	"F8WB59"	"UPI0000131AF3"	"NM_001193488.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"10948f6e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177777777777778	"WGS"	FALSE
"9070"	"SH3RF3"	344558	"mskcc.org"	"GRCh37"	"2"	109936337	109936337	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.574-27793T>C"	""	""	"ENST00000309415"	""	101	"84"	17	47	"47"	0	"SH3RF3,intron_variant,,ENST00000309415,NM_001099289.1;SH3RF3,intron_variant,,ENST00000418513,;"	"C"	"ENSG00000172985"	"ENST00000309415"	"Transcript"	"intron_variant"	"-/2649"	"-/2649"	"-/882"	""	""	""	"1"	NA	1	"SH3RF3"	"HGNC"	24699	"protein_coding"	"YES"	""	"ENSP00000309186"	"Q8TEJ3"	"C9JNJ4"	"UPI0000DD7AEA"	"NM_001099289.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"10950746-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168316831683168	"WGS"	FALSE
"9071"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	112332598	112332598	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"87"	13	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"109600c4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13	"WGS"	FALSE
"9072"	"DPP10"	57628	"mskcc.org"	"GRCh37"	"2"	116208257	116208257	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.284-48829C>G"	""	""	"ENST00000393147"	""	105	"72"	33	57	"57"	0	"DPP10,intron_variant,,ENST00000410059,NM_001178037.1,NM_020868.3;DPP10,intron_variant,,ENST00000409163,NM_001178036.1;DPP10,intron_variant,,ENST00000310323,NM_001004360.3;DPP10,intron_variant,,ENST00000393147,NM_001178034.1;DPP10,intron_variant,,ENST00000436732,;DPP10,intron_variant,,ENST00000393146,;DPP10,intron_variant,,ENST00000419287,;DPP10,intron_variant,,ENST00000488208,;DPP10,intron_variant,,ENST00000461250,;DPP10,intron_variant,,ENST00000486885,;DPP10,intron_variant,,ENST00000429914,;"	"G"	"ENSG00000175497"	"ENST00000393147"	"Transcript"	"intron_variant"	"-/2758"	"-/2403"	"-/800"	""	""	""	"1"	NA	1	"DPP10"	"HGNC"	20823	"protein_coding"	"YES"	"CCDS54388.1"	"ENSP00000376855"	"Q8N608"	"J3KQK8,C9J4M8"	"UPI00015E0A22"	"NM_001178034.1"	""	""	""	"3/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"1098c9a8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314285714285714	"WGS"	FALSE
"9073"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	116695303	116695303	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"79"	8	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"1098f086-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"9074"	"AC012363.4"	0	"mskcc.org"	"GRCh37"	"2"	120971780	120971780	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.205+2136G>T"	""	""	"ENST00000455707"	""	94	"70"	24	56	"56"	0	"AC012363.4,intron_variant,,ENST00000455707,;MTND4P26,non_coding_transcript_exon_variant,,ENST00000415971,;MTND5P28,upstream_gene_variant,,ENST00000438005,;AC012363.8,downstream_gene_variant,,ENST00000440974,;AC012363.7,downstream_gene_variant,,ENST00000445926,;MTND3P10,downstream_gene_variant,,ENST00000450967,;AC012363.10,downstream_gene_variant,,ENST00000429447,;"	"A"	"ENSG00000224789"	"ENST00000455707"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/575"	""	""	""	""	""	"1"	NA	-1	"AC012363.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"109a304a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25531914893617	"WGS"	FALSE
"9075"	"NIFK-AS1"	254128	"mskcc.org"	"GRCh37"	"2"	122450832	122450832	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.498-12512G>A"	""	""	"ENST00000419902"	""	68	"60"	8	30	"30"	0	"NIFK-AS1,intron_variant,,ENST00000419902,;"	"A"	"ENSG00000236859"	"ENST00000419902"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1043"	""	""	""	""	""	"1"	NA	1	"NIFK-AS1"	"HGNC"	27385	"antisense"	""	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"109b1366-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"9076"	"AC018737.3"	101927801	"mskcc.org"	"GRCh37"	"2"	122549320	122549320	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.60+1241C>T"	""	""	"ENST00000438722"	""	97	"80"	17	58	"58"	0	"AC018737.3,intron_variant,,ENST00000438722,;AC018737.3,intron_variant,,ENST00000435895,;AC018737.3,intron_variant,,ENST00000422238,;AC018737.3,intron_variant,,ENST00000422649,;"	"T"	"ENSG00000224655"	"ENST00000438722"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/794"	""	""	""	""	""	"1"	NA	1	"AC018737.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"109b20d6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175257731958763	"WGS"	FALSE
"9077"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	126769309	126769309	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"74"	16	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"109c564a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177777777777778	"WGS"	FALSE
"9078"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	126809308	126809308	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs573665523"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"78"	23	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs573665523"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0018"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.0092"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"109c5780-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227722772277228	"WGS"	FALSE
"9079"	"MAP3K2"	10746	"mskcc.org"	"GRCh37"	"2"	128143632	128143632	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-66+2192A>G"	""	""	"ENST00000409947"	""	92	"72"	20	59	"59"	0	"MAP3K2,intron_variant,,ENST00000409947,;MAP3K2,intron_variant,,ENST00000409179,;AC068282.3,upstream_gene_variant,,ENST00000433673,;"	"C"	"ENSG00000169967"	"ENST00000409947"	"Transcript"	"intron_variant"	"-/10992"	"-/1860"	"-/619"	""	""	""	"1"	NA	-1	"MAP3K2"	"HGNC"	6854	"protein_coding"	"YES"	"CCDS46404.1"	"ENSP00000387246"	"Q9Y2U5"	"Q96K88,F8W6K3"	"UPI0000208C78"	""	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"109cda0c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"9080"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	129689744	129689744	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"86"	17	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"109db30a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16504854368932	"WGS"	FALSE
"9081"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	129712435	129712435	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"70"	19	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"109dbb2a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213483146067416	"WGS"	FALSE
"9082"	"ENSR00000123949"	0	"mskcc.org"	"GRCh37"	"2"	131554764	131554764	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000123949"	""	84	"77"	7	41	"41"	0	""	"C"	""	"ENSR00000123949"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"109ee036-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"9083"	"MZT2A"	80097	"mskcc.org"	"GRCh37"	"2"	132253617	132253617	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000309451"	""	104	"82"	22	54	"54"	0	"MZT2A,upstream_gene_variant,,ENST00000309451,NM_001085365.1;MIR4784,upstream_gene_variant,,ENST00000579560,;AC093838.4,intron_variant,,ENST00000438378,;MZT2A,upstream_gene_variant,,ENST00000410036,;MZT2A,upstream_gene_variant,,ENST00000488586,;MZT2A,upstream_gene_variant,,ENST00000491265,;MZT2A,upstream_gene_variant,,ENST00000445782,;MZT2A,upstream_gene_variant,,ENST00000427024,;AC093838.4,intron_variant,,ENST00000415574,;AC093838.4,intron_variant,,ENST00000416745,;AC093838.4,intron_variant,,ENST00000426369,;AC093838.4,intron_variant,,ENST00000538598,;AC093838.4,intron_variant,,ENST00000543513,;"	"C"	"ENSG00000173272"	"ENST00000309451"	"Transcript"	"upstream_gene_variant"	"-/624"	"-/477"	"-/158"	""	""	""	"1"	"3622"	-1	"MZT2A"	"HGNC"	33187	"protein_coding"	"YES"	"CCDS42758.1"	"ENSP00000311500"	"Q6P582"	""	"UPI0000421BEF"	"NM_001085365.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"109f83b0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211538461538462	"WGS"	FALSE
"9084"	"ANKRD30BL"	554226	"mskcc.org"	"GRCh37"	"2"	132925056	132925056	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.442-10337G>T"	""	""	"ENST00000470729"	""	96	"88"	8	48	"48"	0	"ANKRD30BL,intron_variant,,ENST00000470729,;"	"A"	"ENSG00000163046"	"ENST00000470729"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1425"	""	""	""	""	""	"1"	NA	-1	"ANKRD30BL"	"HGNC"	35167	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"10a0419c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"9085"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	137265539	137265539	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"71"	12	54	"54"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"10a23baa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.144578313253012	"WGS"	FALSE
"9086"	"THSD7B"	80731	"mskcc.org"	"GRCh37"	"2"	138125620	138125620	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2501-37563A>T"	""	""	"ENST00000272643"	""	92	"87"	5	53	"53"	0	"THSD7B,intron_variant,,ENST00000409968,;THSD7B,intron_variant,,ENST00000272643,;THSD7B,intron_variant,,ENST00000413152,NM_001080427.1;THSD7B,intron_variant,,ENST00000543459,;"	"T"	"ENSG00000144229"	"ENST00000272643"	"Transcript"	"intron_variant"	"-/5942"	"-/4830"	"-/1609"	""	""	""	"1"	NA	1	"THSD7B"	"HGNC"	29348	"protein_coding"	"YES"	""	"ENSP00000272643"	"Q9C0I4"	""	"UPI00015E0A18"	""	""	""	""	"11/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"10a27368-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0543478260869565	"WGS"	FALSE
"9087"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	144601427	144601427	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"73"	22	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"10a3e900-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231578947368421	"WGS"	FALSE
"9088"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	148523765	148523765	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"84"	17	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"10a4cd52-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168316831683168	"WGS"	FALSE
"9089"	"LYPD6B"	130576	"mskcc.org"	"GRCh37"	"2"	150046860	150046860	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.78-14907T>C"	""	""	"ENST00000409642"	""	126	"108"	18	67	"67"	0	"LYPD6B,intron_variant,,ENST00000409642,NM_177964.3;LYPD6B,intron_variant,,ENST00000409029,;LYPD6B,intron_variant,,ENST00000409876,;LYPD6B,intron_variant,,ENST00000280115,;LYPD6B,downstream_gene_variant,,ENST00000450639,;LYPD6B,intron_variant,,ENST00000498249,;LYPD6B,intron_variant,,ENST00000473975,;LYPD6B,intron_variant,,ENST00000437627,;LYPD6B,intron_variant,,ENST00000442722,;"	"C"	"ENSG00000150556"	"ENST00000409642"	"Transcript"	"intron_variant"	"-/1577"	"-/624"	"-/207"	""	""	""	"1"	NA	1	"LYPD6B"	"HGNC"	27018	"protein_coding"	"YES"	"CCDS46423.1"	"ENSP00000387077"	"Q8NI32"	""	"UPI00001BDB14"	"NM_177964.3"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"10a52e8c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"9090"	"AC016682.1"	0	"mskcc.org"	"GRCh37"	"2"	151082365	151082365	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.260+11439G>T"	""	""	"ENST00000437118"	""	95	"69"	26	53	"53"	0	"AC016682.1,intron_variant,,ENST00000437118,;"	"T"	"ENSG00000230645"	"ENST00000437118"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/368"	""	""	""	""	""	"1"	NA	1	"AC016682.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"10a55a10-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"9091"	"ARL5A"	26225	"mskcc.org"	"GRCh37"	"2"	152654975	152654975	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000295087"	""	75	"65"	10	40	"40"	0	"ARL5A,downstream_gene_variant,,ENST00000295087,NM_012097.3,NM_001037174.1;ARL5A,downstream_gene_variant,,ENST00000428992,NM_177985.2;ARL5A,intron_variant,,ENST00000446896,;ARL5A,downstream_gene_variant,,ENST00000458140,;"	"A"	"ENSG00000162980"	"ENST00000295087"	"Transcript"	"downstream_gene_variant"	"-/5326"	"-/540"	"-/179"	""	""	""	"1"	"341"	-1	"ARL5A"	"HGNC"	696	"protein_coding"	"YES"	"CCDS2195.1"	"ENSP00000295087"	"Q9Y689"	""	"UPI0000125EE6"	"NM_012097.3,NM_001037174.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"10a59598-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"9092"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	153742082	153742082	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"81"	23	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"10a5c0ae-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221153846153846	"WGS"	FALSE
"9093"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	153891689	153891689	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"76"	30	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"10a5c36a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283018867924528	"WGS"	FALSE
"9094"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	153980669	153980669	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"66"	16	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"10a5c40a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195121951219512	"WGS"	FALSE
"9095"	"KCNJ3"	3760	"mskcc.org"	"GRCh37"	"2"	155719732	155719732	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000295101"	""	91	"68"	23	64	"64"	0	"KCNJ3,downstream_gene_variant,,ENST00000295101,NM_002239.3,NM_001260509.1;"	"C"	"ENSG00000162989"	"ENST00000295101"	"Transcript"	"downstream_gene_variant"	"-/5021"	"-/1506"	"-/501"	""	""	""	"1"	"4869"	1	"KCNJ3"	"HGNC"	6264	"protein_coding"	"YES"	"CCDS2200.1"	"ENSP00000295101"	"P48549"	"Q53R59"	"UPI000012D899"	"NM_002239.3,NM_001260509.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"10a5f916-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252747252747253	"WGS"	FALSE
"9096"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	155930990	155930990	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"90"	17	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"10a6017c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.158878504672897	"WGS"	FALSE
"9097"	"SCN9A"	6335	"mskcc.org"	"GRCh37"	"2"	167152136	167152136	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.902-964G>A"	""	""	"ENST00000409672"	""	90	"81"	9	68	"68"	0	"SCN9A,intron_variant,,ENST00000303354,;SCN9A,intron_variant,,ENST00000375387,;SCN9A,intron_variant,,ENST00000409672,NM_002977.3;SCN9A,intron_variant,,ENST00000409435,;SCN9A,intron_variant,,ENST00000452182,;SCN9A,intron_variant,,ENST00000454569,;AC010127.3,intron_variant,,ENST00000447809,;"	"T"	"ENSG00000169432"	"ENST00000409672"	"Transcript"	"intron_variant"	"-/9768"	"-/5934"	"-/1977"	""	""	""	"1"	NA	-1	"SCN9A"	"HGNC"	10597	"protein_coding"	"YES"	"CCDS46441.1"	"ENSP00000386306"	"Q15858"	"Q53QP0"	"UPI0000140AC7"	"NM_002977.3"	""	""	""	"7/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"10a7820e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"9098"	"CTAGE14P"	0	"mskcc.org"	"GRCh37"	"2"	168573907	168573907	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000397819"	""	83	"59"	24	49	"49"	0	"CTAGE14P,upstream_gene_variant,,ENST00000397819,;"	"A"	"ENSG00000214211"	"ENST00000397819"	"Transcript"	"upstream_gene_variant"	"-/2403"	""	""	""	""	""	"1"	"1332"	-1	"CTAGE14P"	"HGNC"	37299	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"10a7a716-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289156626506024	"WGS"	FALSE
"9099"	"PDK1"	5163	"mskcc.org"	"GRCh37"	"2"	173420535	173420535	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000282077"	""	100	"81"	19	76	"76"	0	"PDK1,intron_variant,,ENST00000543905,;PDK1,intron_variant,,ENST00000544863,;PDK1,intron_variant,,ENST00000443353,;PDK1,upstream_gene_variant,,ENST00000282077,;PDK1,upstream_gene_variant,,ENST00000410055,NM_002610.4;PDK1,upstream_gene_variant,,ENST00000392571,NM_001278549.1;PDK1,upstream_gene_variant,,ENST00000416991,;PDK1,upstream_gene_variant,,ENST00000439519,;AC093818.1,intron_variant,,ENST00000450443,;AC093818.1,intron_variant,,ENST00000442417,;AC093818.1,intron_variant,,ENST00000436922,;AC093818.1,intron_variant,,ENST00000444919,;Y_RNA,downstream_gene_variant,,ENST00000362996,;PDK1,intron_variant,,ENST00000436490,;PDK1,upstream_gene_variant,,ENST00000431718,;"	"T"	"ENSG00000152256"	"ENST00000282077"	"Transcript"	"upstream_gene_variant"	"-/14193"	"-/1311"	"-/436"	""	""	""	"1"	"162"	1	"PDK1"	"HGNC"	8809	"protein_coding"	"YES"	"CCDS2250.1"	"ENSP00000282077"	"Q15118"	"C9JKT3,Q53R49,B7Z7N6,B7Z207"	"UPI0000001C7A"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"10a8af58-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19	"WGS"	FALSE
"9100"	"AC013410.1"	0	"mskcc.org"	"GRCh37"	"2"	174436060	174436060	"+"	"3'Flank"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000436223"	""	105	"68"	37	60	"60"	0	"AC013410.1,downstream_gene_variant,,ENST00000436223,;"	"G"	"ENSG00000237016"	"ENST00000436223"	"Transcript"	"downstream_gene_variant"	"-/1232"	""	""	""	""	""	"1"	"3778"	-1	"AC013410.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"10a8d852-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352380952380952	"WGS"	FALSE
"9101"	"AC018890.6"	0	"mskcc.org"	"GRCh37"	"2"	175595032	175595032	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.321+480G>T"	""	""	"ENST00000442996"	""	90	"76"	14	61	"61"	0	"AC018890.6,intron_variant,,ENST00000442996,;"	"T"	"ENSG00000236449"	"ENST00000442996"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2400"	""	""	""	""	""	"1"	NA	1	"AC018890.6"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"10a906ba-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155555555555556	"WGS"	FALSE
"9102"	"OSBPL6"	114880	"mskcc.org"	"GRCh37"	"2"	179232182	179232182	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1363-4671T>G"	""	""	"ENST00000392505"	""	92	"78"	14	55	"55"	0	"OSBPL6,intron_variant,,ENST00000190611,NM_032523.3;OSBPL6,intron_variant,,ENST00000392505,NM_001201480.1;OSBPL6,intron_variant,,ENST00000359685,NM_001201482.1;OSBPL6,intron_variant,,ENST00000409045,NM_001201481.1;OSBPL6,intron_variant,,ENST00000409631,;OSBPL6,intron_variant,,ENST00000315022,NM_145739.2;OSBPL6,intron_variant,,ENST00000357080,;"	"G"	"ENSG00000079156"	"ENST00000392505"	"Transcript"	"intron_variant"	"-/3637"	"-/2880"	"-/959"	""	""	""	"1"	NA	1	"OSBPL6"	"HGNC"	16388	"protein_coding"	"YES"	"CCDS56150.1"	"ENSP00000376293"	"Q9BZF3"	""	"UPI0000E5A29F"	"NM_001201480.1"	""	""	""	"14/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"10a990bc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152173913043478	"WGS"	FALSE
"9103"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	183397785	183397785	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"98"	6	73	"73"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"10aa05a6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0576923076923077	"WGS"	FALSE
"9104"	"ZNF804A"	91752	"mskcc.org"	"GRCh37"	"2"	185670353	185670353	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.112-60743T>A"	""	""	"ENST00000302277"	""	106	"77"	29	76	"76"	0	"ZNF804A,intron_variant,,ENST00000302277,NM_194250.1;"	"A"	"ENSG00000170396"	"ENST00000302277"	"Transcript"	"intron_variant"	"-/4690"	"-/3630"	"-/1209"	""	""	""	"1"	NA	1	"ZNF804A"	"HGNC"	21711	"protein_coding"	"YES"	"CCDS2291.1"	"ENSP00000303252"	"Q7Z570"	""	"UPI00001B4B18"	"NM_194250.1"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"10aa4dcc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273584905660377	"WGS"	FALSE
"9105"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	187047183	187047183	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"103"	6	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"10aa7892-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.055045871559633	"WGS"	FALSE
"9106"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	188544762	188544762	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"75"	20	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"10aaa786-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"9107"	"WDR75"	84128	"mskcc.org"	"GRCh37"	"2"	190334385	190334385	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1819+220T>A"	""	""	"ENST00000314761"	""	93	"77"	16	54	"54"	0	"WDR75,intron_variant,,ENST00000314761,NM_032168.1;WDR75,intron_variant,,ENST00000427960,;WDR75,intron_variant,,ENST00000436347,;"	"A"	"ENSG00000115368"	"ENST00000314761"	"Transcript"	"intron_variant"	"-/2701"	"-/2493"	"-/830"	""	""	""	"1"	NA	1	"WDR75"	"HGNC"	25725	"protein_coding"	"YES"	"CCDS2298.1"	"ENSP00000314193"	"Q8IWA0"	"Q05D27,A8K330"	"UPI000007452C"	"NM_032168.1"	""	""	""	"16/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"10aadd5a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172043010752688	"WGS"	FALSE
"9108"	"C2orf88"	84281	"mskcc.org"	"GRCh37"	"2"	190909603	190909603	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.220-34346C>A"	""	""	"ENST00000478197"	""	81	"63"	18	57	"57"	0	"C2orf88,intron_variant,,ENST00000478197,;C2orf88,intron_variant,,ENST00000495546,;"	"A"	"ENSG00000187699"	"ENST00000478197"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/567"	""	""	""	""	""	"1"	NA	1	"C2orf88"	"HGNC"	28191	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"10aaf4e8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"9109"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	193747411	193747411	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"82"	20	69	"69"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"10ab5be0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196078431372549	"WGS"	FALSE
"9110"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	194782090	194782090	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"68"	25	53	"53"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"10ab7f12-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"9111"	"AC006196.1"	101927431	"mskcc.org"	"GRCh37"	"2"	195622033	195622033	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.587-1861A>T"	""	""	"ENST00000447194"	""	106	"85"	21	69	"69"	0	"AC006196.1,intron_variant,,ENST00000447194,;"	"T"	"ENSG00000230173"	"ENST00000447194"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2852"	""	""	""	""	""	"1"	NA	1	"AC006196.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"10ab9b50-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19811320754717	"WGS"	FALSE
"9112"	"HECW2"	57520	"mskcc.org"	"GRCh37"	"2"	197445278	197445278	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-36+11910T>C"	""	""	"ENST00000260983"	""	82	"61"	21	47	"47"	0	"HECW2,intron_variant,,ENST00000260983,NM_020760.1;HECW2,intron_variant,,ENST00000452031,;HECW2,intron_variant,,ENST00000427457,;"	"G"	"ENSG00000138411"	"ENST00000260983"	"Transcript"	"intron_variant"	"-/11809"	"-/4719"	"-/1572"	""	""	""	"1"	NA	-1	"HECW2"	"HGNC"	29853	"protein_coding"	"YES"	"CCDS33354.1"	"ENSP00000260983"	"Q9P2P5"	"C9JPI9,C9JHL2"	"UPI00001A75E8"	"NM_020760.1"	""	""	""	"1/28"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"10abd07a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25609756097561	"WGS"	FALSE
"9113"	"AC108032.1"	0	"mskcc.org"	"GRCh37"	"2"	200740795	200740795	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000416706"	""	91	"69"	22	68	"68"	0	"AC073043.1,intron_variant,,ENST00000601136,;AC073043.1,intron_variant,,ENST00000457577,;AC073043.1,downstream_gene_variant,,ENST00000597899,;AC073043.1,downstream_gene_variant,,ENST00000600604,;AC073043.1,downstream_gene_variant,,ENST00000596255,;AC073043.1,downstream_gene_variant,,ENST00000593806,;AC073043.1,downstream_gene_variant,,ENST00000593735,;AC073043.1,downstream_gene_variant,,ENST00000600956,;AC073043.1,downstream_gene_variant,,ENST00000594091,;AC073043.1,downstream_gene_variant,,ENST00000599089,;AC108032.1,downstream_gene_variant,,ENST00000416706,;"	"C"	"ENSG00000227004"	"ENST00000416706"	"Transcript"	"downstream_gene_variant"	"-/207"	""	""	""	""	""	"1"	"3694"	1	"AC108032.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"10ac3bdc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241758241758242	"WGS"	FALSE
"9114"	"ORC2"	4999	"mskcc.org"	"GRCh37"	"2"	201827676	201827676	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-60+537T>A"	""	""	"ENST00000234296"	""	95	"79"	16	63	"63"	0	"ORC2,intron_variant,,ENST00000234296,NM_006190.4;ORC2,intron_variant,,ENST00000410039,;ORC2,intron_variant,,ENST00000457595,;AC005037.3,upstream_gene_variant,,ENST00000332935,;AC005037.3,upstream_gene_variant,,ENST00000413848,;ORC2,intron_variant,,ENST00000467605,;"	"T"	"ENSG00000115942"	"ENST00000234296"	"Transcript"	"intron_variant"	"-/4312"	"-/1734"	"-/577"	""	""	""	"1"	NA	-1	"ORC2"	"HGNC"	8488	"protein_coding"	"YES"	"CCDS2334.1"	"ENSP00000234296"	"Q13416"	"C9JK08,B8ZZ80"	"UPI0000130E5A"	"NM_006190.4"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"10ac6b5c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168421052631579	"WGS"	FALSE
"9115"	"ICA1L"	130026	"mskcc.org"	"GRCh37"	"2"	203702274	203702274	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-7-8535C>T"	""	""	"ENST00000392237"	""	105	"98"	7	50	"50"	0	"ICA1L,intron_variant,,ENST00000392237,NM_138468.4,NM_001288623.1,NM_001288622.1;ICA1L,intron_variant,,ENST00000358299,;ICA1L,intron_variant,,ENST00000421334,;ICA1L,intron_variant,,ENST00000454326,;ICA1L,intron_variant,,ENST00000432273,;ICA1L,intron_variant,,ENST00000418208,;ICA1L,intron_variant,,ENST00000412210,;ICA1L,intron_variant,,ENST00000450143,;ICA1L,intron_variant,,ENST00000420558,;ICA1L,intron_variant,,ENST00000419460,;ICA1L,intron_variant,,ENST00000416760,;ICA1L,intron_variant,,ENST00000457524,;ICA1L,intron_variant,,ENST00000411681,;ICA1L,intron_variant,,ENST00000441547,;ICA1L,intron_variant,,ENST00000435143,;ICA1L,intron_variant,,ENST00000438804,;ICA1L,intron_variant,,ENST00000484561,;ICA1L,intron_variant,,ENST00000437978,;KRT8P15,downstream_gene_variant,,ENST00000425226,;"	"A"	"ENSG00000163596"	"ENST00000392237"	"Transcript"	"intron_variant"	"-/5173"	"-/1449"	"-/482"	""	""	""	"1"	NA	-1	"ICA1L"	"HGNC"	14442	"protein_coding"	"YES"	"CCDS2354.1"	"ENSP00000376070"	"Q8NDH6"	"C9JRB6,C9JP49,C9JEP0,C9JEN4,C9JDM8,C9JDK6,C9JAQ4,C9J9Z8,C9J5Z0,C9J1M7"	"UPI000007263F"	"NM_138468.4,NM_001288623.1,NM_001288622.1"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"10acd858-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"9116"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	204512405	204512405	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"66"	21	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"10ad10f2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241379310344828	"WGS"	FALSE
"9117"	"PARD3B"	117583	"mskcc.org"	"GRCh37"	"2"	205868905	205868905	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.394+38859G>C"	""	""	"ENST00000358768"	""	83	"53"	30	65	"65"	0	"PARD3B,intron_variant,,ENST00000406610,NM_205863.3,NM_057177.6,NM_152526.5;PARD3B,intron_variant,,ENST00000358768,;PARD3B,intron_variant,,ENST00000351153,;PARD3B,intron_variant,,ENST00000349953,;PARD3B,intron_variant,,ENST00000462231,;PARD3B,intron_variant,,ENST00000415947,;"	"C"	"ENSG00000116117"	"ENST00000358768"	"Transcript"	"intron_variant"	"-/3432"	"-/3432"	"-/1143"	""	""	""	"1"	NA	1	"PARD3B"	"HGNC"	14446	"protein_coding"	"YES"	"CCDS42806.1"	"ENSP00000351618"	"Q8TEW8"	"Q587I4,Q53TQ6,Q53TP8,Q53TL6,Q53TI4,Q53T65,Q53SN0,Q4ZG80"	"UPI000007201E"	""	""	""	""	"3/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"10ad3b9a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36144578313253	"WGS"	FALSE
"9118"	"AC007383.6"	0	"mskcc.org"	"GRCh37"	"2"	207103082	207103082	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000445875"	""	88	"69"	19	47	"47"	0	"AC007383.6,upstream_gene_variant,,ENST00000445875,;"	"A"	"ENSG00000159186"	"ENST00000445875"	"Transcript"	"upstream_gene_variant"	"-/636"	""	""	""	""	""	"1"	"1487"	-1	"AC007383.6"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"10ad7b00-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215909090909091	"WGS"	FALSE
"9119"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	207192201	207192201	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"79"	20	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"10ad83f2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202020202020202	"WGS"	FALSE
"9120"	"AC017081.1"	0	"mskcc.org"	"GRCh37"	"2"	207221783	207221783	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000598562"	""	56	"46"	10	45	"45"	0	"AC017081.1,downstream_gene_variant,,ENST00000598562,;"	"T"	"ENSG00000269633"	"ENST00000598562"	"Transcript"	"downstream_gene_variant"	"-/381"	"-/381"	"-/126"	""	""	""	"1"	"940"	1	"AC017081.1"	"Clone_based_ensembl_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000471782"	""	"M0R1D0"	"UPI000013D97E"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"10ad85dc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"9121"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	207295324	207295324	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"82"	13	67	"67"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"10ad8906-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136842105263158	"WGS"	FALSE
"9122"	"CRYGC"	1420	"mskcc.org"	"GRCh37"	"2"	208996600	208996600	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000282141"	""	89	"83"	6	55	"55"	0	"CRYGC,upstream_gene_variant,,ENST00000282141,NM_020989.3;AC093698.4,downstream_gene_variant,,ENST00000415505,;"	"G"	"ENSG00000163254"	"ENST00000282141"	"Transcript"	"upstream_gene_variant"	"-/629"	"-/525"	"-/174"	""	""	""	"1"	"2046"	-1	"CRYGC"	"HGNC"	2410	"protein_coding"	"YES"	"CCDS2379.1"	"ENSP00000282141"	"P07315"	""	"UPI000013DCBD"	"NM_020989.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"10ade432-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"9123"	"RNA5SP117"	0	"mskcc.org"	"GRCh37"	"2"	209784680	209784680	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000365294"	""	96	"79"	17	61	"61"	0	"RNA5SP117,downstream_gene_variant,,ENST00000365294,;"	"T"	"ENSG00000202164"	"ENST00000365294"	"Transcript"	"downstream_gene_variant"	"-/118"	""	""	""	""	""	"1"	"591"	-1	"RNA5SP117"	"HGNC"	42915	"rRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"10adf706-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177083333333333	"WGS"	FALSE
"9124"	"MAP2"	4133	"mskcc.org"	"GRCh37"	"2"	210384831	210384831	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-172+12466C>G"	""	""	"ENST00000199940"	""	97	"79"	18	59	"59"	0	"MAP2,intron_variant,,ENST00000199940,NM_001039538.1;"	"G"	"ENSG00000078018"	"ENST00000199940"	"Transcript"	"intron_variant"	"-/2241"	"-/1680"	"-/559"	""	""	""	"1"	NA	1	"MAP2"	"HGNC"	6839	"protein_coding"	""	"CCDS33369.1"	"ENSP00000199940"	"P11137"	"Q16296,A8MZ31"	"UPI00000746E7"	"NM_001039538.1"	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"10ae06b0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185567010309278	"WGS"	FALSE
"9125"	"ERBB4"	2066	"mskcc.org"	"GRCh37"	"2"	213349446	213349446	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.82+53727G>A"	""	""	"ENST00000342788"	""	100	"82"	18	67	"67"	0	"ERBB4,intron_variant,,ENST00000342788,NM_005235.2;ERBB4,intron_variant,,ENST00000436443,NM_001042599.1;ERBB4,intron_variant,,ENST00000402597,;ERBB4,intron_variant,,ENST00000260943,;ERBB4,intron_variant,,ENST00000484594,;"	"T"	"ENSG00000178568"	"ENST00000342788"	"Transcript"	"intron_variant"	"-/12132"	"-/3927"	"-/1308"	""	""	""	"1"	NA	-1	"ERBB4"	"HGNC"	3432	"protein_coding"	"YES"	"CCDS2394.1"	"ENSP00000342235"	"Q15303"	"Q580Q7,Q53T57,Q53R48,Q53R25,Q53QS8,Q4ZG14,E9PDR1"	"UPI00000499DF"	"NM_005235.2"	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"10ae62cc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.18	"WGS"	TRUE
"9126"	"DIRC3"	729582	"mskcc.org"	"GRCh37"	"2"	218247300	218247300	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1458+42725G>A"	""	""	"ENST00000474063"	""	102	"72"	30	47	"47"	0	"DIRC3,intron_variant,,ENST00000474063,;DIRC3,intron_variant,,ENST00000486365,;"	"T"	"ENSG00000231672"	"ENST00000474063"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3078"	""	""	""	""	""	"1"	NA	-1	"DIRC3"	"HGNC"	17805	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"10af2824-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"9127"	"CXCR2"	3579	"mskcc.org"	"GRCh37"	"2"	218985453	218985453	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000453237"	""	88	"83"	5	56	"56"	0	"CXCR2,upstream_gene_variant,,ENST00000453237,NM_001168298.1;CXCR2,upstream_gene_variant,,ENST00000415392,;CXCR2,upstream_gene_variant,,ENST00000449014,;"	"T"	"ENSG00000180871"	"ENST00000453237"	"Transcript"	"upstream_gene_variant"	"-/813"	"-/602"	"-/200"	""	""	""	"1"	"4559"	1	"CXCR2"	"HGNC"	6027	"protein_coding"	""	""	"ENSP00000413686"	""	"C9JW47,C9JG19,C9J2F9,C9J1J7"	"UPI000198C76B"	"NM_001168298.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"10af51f0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0568181818181818	"WGS"	FALSE
"9128"	"WNT10A"	80326	"mskcc.org"	"GRCh37"	"2"	219763245	219763245	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000258411"	""	94	"76"	18	53	"53"	0	"WNT10A,downstream_gene_variant,,ENST00000258411,NM_025216.2;AC073128.10,downstream_gene_variant,,ENST00000419511,;WNT10A,intron_variant,,ENST00000489887,;"	"A"	"ENSG00000135925"	"ENST00000258411"	"Transcript"	"downstream_gene_variant"	"-/2547"	"-/1254"	"-/417"	""	""	""	"1"	"4592"	1	"WNT10A"	"HGNC"	13829	"protein_coding"	"YES"	"CCDS2426.1"	"ENSP00000258411"	"Q9GZT5"	"Q9BTP0,Q05BQ6"	"UPI0000032F2A"	"NM_025216.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"10af96a6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191489361702128	"WGS"	FALSE
"9129"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	223910334	223910334	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"58"	25	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"10b03976-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301204819277108	"WGS"	FALSE
"9130"	"KCNE4"	23704	"mskcc.org"	"GRCh37"	"2"	223950573	223950573	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.189+25152G>T"	""	""	"ENST00000488477"	""	107	"83"	24	49	"49"	0	"KCNE4,intron_variant,,ENST00000488477,;"	"T"	"ENSG00000152049"	"ENST00000488477"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/908"	""	""	""	""	""	"1"	NA	1	"KCNE4"	"HGNC"	6244	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"10b03c00-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224299065420561	"WGS"	FALSE
"9131"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	225325372	225325372	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"76"	7	41	"41"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"10b073aa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"9132"	"NYAP2"	57624	"mskcc.org"	"GRCh37"	"2"	226398056	226398056	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.523+19668T>G"	""	""	"ENST00000272907"	""	97	"77"	20	49	"49"	0	"NYAP2,intron_variant,,ENST00000272907,NM_020864.1;NYAP2,intron_variant,,ENST00000409269,;"	"G"	"ENSG00000144460"	"ENST00000272907"	"Transcript"	"intron_variant"	"-/4828"	"-/1962"	"-/653"	""	""	""	"1"	NA	1	"NYAP2"	"HGNC"	29291	"protein_coding"	"YES"	"CCDS46529.1"	"ENSP00000272907"	"Q9P242"	""	"UPI00001C1DB6"	"NM_020864.1"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"10b0939e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206185567010309	"WGS"	FALSE
"9133"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	226688997	226688997	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"84"	19	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"10b0a4a6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184466019417476	"WGS"	FALSE
"9134"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	229114715	229114715	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"54"	16	47	"47"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"10b10a9a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228571428571429	"WGS"	FALSE
"9135"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	229224514	229224514	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"74"	28	54	"54"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"10b10ed2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274509803921569	"WGS"	FALSE
"9136"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	230585948	230585948	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"73"	6	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"10b14de8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"9137"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	230585949	230585949	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"70"	7	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"10b14e88-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"9138"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	232494559	232494559	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"44"	7	35	"35"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"10b1e0fa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137254901960784	"WGS"	FALSE
"9139"	"UGT1A6"	54578	"mskcc.org"	"GRCh37"	"2"	234632720	234632720	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.861+30209G>T"	""	""	"ENST00000305139"	""	40	"35"	5	32	"32"	0	"UGT1A6,intron_variant,,ENST00000305139,NM_001072.3;UGT1A9,intron_variant,,ENST00000354728,;UGT1A10,intron_variant,,ENST00000344644,NM_019075.2;UGT1A8,intron_variant,,ENST00000373450,NM_019076.4;UGT1A4,intron_variant,,ENST00000373409,NM_007120.2;UGT1A8,intron_variant,,ENST00000609637,NM_021027.2;UGT1A5,intron_variant,,ENST00000373414,;UGT1A8,intron_variant,,ENST00000608381,NM_019078.1;UGT1A7,intron_variant,,ENST00000373426,NM_019077.2;UGT1A10,intron_variant,,ENST00000373445,;UGT1A6,intron_variant,,ENST00000373424,NM_205862.1;UGT1A6,intron_variant,,ENST00000406651,;UGT1A6,intron_variant,,ENST00000480628,;UGT1A6,intron_variant,,ENST00000478062,;UGT1A4,intron_variant,,ENST00000450233,;UGT1A6,intron_variant,,ENST00000446481,;UGT1A6,intron_variant,,ENST00000484784,;RPL17P11,upstream_gene_variant,,ENST00000417593,;"	"T"	"ENSG00000167165"	"ENST00000305139"	"Transcript"	"intron_variant"	"-/2479"	"-/1599"	"-/532"	""	""	""	"1"	NA	1	"UGT1A6"	"HGNC"	12538	"protein_coding"	"YES"	"CCDS2507.1"	"ENSP00000303174"	"P19224"	"Q5DSZ8,H7C5F8,C9JMY5"	"UPI000007021F"	"NM_001072.3"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"10b2c66e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"9140"	"AGAP1"	116987	"mskcc.org"	"GRCh37"	"2"	236568575	236568575	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.164-49248G>A"	""	""	"ENST00000304032"	""	87	"73"	14	49	"49"	0	"AGAP1,intron_variant,,ENST00000304032,NM_001037131.2;AGAP1,intron_variant,,ENST00000336665,NM_014914.4;AGAP1,intron_variant,,ENST00000409457,NM_001244888.1;AGAP1,intron_variant,,ENST00000402604,;"	"A"	"ENSG00000157985"	"ENST00000304032"	"Transcript"	"intron_variant"	"-/10832"	"-/2574"	"-/857"	""	""	""	"1"	NA	1	"AGAP1"	"HGNC"	16922	"protein_coding"	"YES"	"CCDS33408.1"	"ENSP00000307634"	"Q9UPQ3"	"Q53S93,Q4ZG54,Q4ZG22,F5GXM9"	"UPI00005E1AE1"	"NM_001037131.2"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"10b33dba-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.160919540229885	"WGS"	FALSE
"9141"	"COL6A3"	1293	"mskcc.org"	"GRCh37"	"2"	238320038	238320038	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs13402635"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-31+2558G>A"	""	""	"ENST00000295550"	""	89	"72"	17	67	"67"	0	"COL6A3,intron_variant,,ENST00000295550,NM_004369.3;COL6A3,intron_variant,,ENST00000347401,;COL6A3,intron_variant,,ENST00000353578,NM_057167.3;COL6A3,intron_variant,,ENST00000346358,;COL6A3,intron_variant,,ENST00000472056,NM_057166.4;COL6A3,intron_variant,,ENST00000392004,NM_057165.4;COL6A3,intron_variant,,ENST00000392003,NM_057164.4;COL6A3,intron_variant,,ENST00000433762,;"	"T"	"ENSG00000163359"	"ENST00000295550"	"Transcript"	"intron_variant"	"-/10749"	"-/9534"	"-/3177"	""	""	"rs13402635"	"1"	NA	-1	"COL6A3"	"HGNC"	2213	"protein_coding"	"YES"	"CCDS33412.1"	"ENSP00000295550"	"P12111"	"Q8N4Z1,D9ZGF2"	"UPI0000456F39"	"NM_004369.3"	""	""	""	"1/43"	""	"T:0.0048"	"T:0.0166"	"T:0.0029"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"10b3beca-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191011235955056	"WGS"	FALSE
"9142"	"ILKAP"	80895	"mskcc.org"	"GRCh37"	"2"	239079561	239079561	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1038+23G>T"	""	""	"ENST00000254654"	""	84	"66"	18	54	"54"	0	"ILKAP,missense_variant,p.Trp171Leu,ENST00000450411,;ILKAP,intron_variant,,ENST00000254654,NM_030768.2;FAM132B,downstream_gene_variant,,ENST00000357303,;FAM132B,downstream_gene_variant,,ENST00000546354,;FAM132B,downstream_gene_variant,,ENST00000344233,;ILKAP,intron_variant,,ENST00000466468,;ILKAP,intron_variant,,ENST00000463129,;ILKAP,intron_variant,,ENST00000465131,;FAM132B,downstream_gene_variant,,ENST00000473274,;FAM132B,downstream_gene_variant,,ENST00000479091,;FAM132B,downstream_gene_variant,,ENST00000481917,;"	"A"	"ENSG00000132323"	"ENST00000254654"	"Transcript"	"intron_variant"	"-/1490"	"-/1179"	"-/392"	""	""	""	"1"	NA	-1	"ILKAP"	"HGNC"	15566	"protein_coding"	"YES"	"CCDS2526.1"	"ENSP00000254654"	"Q9H0C8"	""	"UPI000007307E"	"NM_030768.2"	""	""	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"10b405e2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"9143"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	241333123	241333123	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs749883132"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"70"	24	69	"69"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs749883132"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"10b53570-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25531914893617	"WGS"	FALSE
"9144"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	612994	612994	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"81"	8	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"10b6b616-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"9145"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	3820766	3820766	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"65"	5	37	"37"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"10b794c8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"9146"	"GPCPD1"	56261	"mskcc.org"	"GRCh37"	"20"	5568908	5568908	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.232-1993A>T"	""	""	"ENST00000379019"	""	87	"82"	5	61	"61"	0	"GPCPD1,intron_variant,,ENST00000379019,NM_019593.3;GPCPD1,intron_variant,,ENST00000481690,;GPCPD1,upstream_gene_variant,,ENST00000481038,;"	"A"	"ENSG00000125772"	"ENST00000379019"	"Transcript"	"intron_variant"	"-/5454"	"-/2019"	"-/672"	""	""	""	"1"	NA	-1	"GPCPD1"	"HGNC"	26957	"protein_coding"	"YES"	"CCDS13090.1"	"ENSP00000368305"	"Q9NPB8"	"D3DW07"	"UPI0000062241"	"NM_019593.3"	""	""	""	"4/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"10b80174-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0574712643678161	"WGS"	FALSE
"9147"	"ENSR00001719251"	0	"mskcc.org"	"GRCh37"	"20"	8095124	8095124	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001719251"	""	100	"81"	19	57	"57"	0	""	"A"	""	"ENSR00001719251"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"10b86b5a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19	"WGS"	FALSE
"9148"	"PLCB1"	23236	"mskcc.org"	"GRCh37"	"20"	8515484	8515484	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.247-93457G>A"	""	""	"ENST00000338037"	""	93	"82"	11	37	"37"	0	"PLCB1,intron_variant,,ENST00000378641,NM_182734.2;PLCB1,intron_variant,,ENST00000338037,NM_015192.3;PLCB1,intron_variant,,ENST00000378637,;PLCB1,intron_variant,,ENST00000404098,;"	"A"	"ENSG00000182621"	"ENST00000338037"	"Transcript"	"intron_variant"	"-/6729"	"-/3651"	"-/1216"	""	""	""	"1"	NA	1	"PLCB1"	"HGNC"	15917	"protein_coding"	"YES"	"CCDS13102.1"	"ENSP00000338185"	"Q9NQ66"	""	"UPI0000131A8F"	"NM_015192.3"	""	""	""	"3/31"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"10b8769a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.118279569892473	"WGS"	FALSE
"9149"	"PLCB4"	5332	"mskcc.org"	"GRCh37"	"20"	9228634	9228634	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-16+30535G>T"	""	""	"ENST00000334005"	""	94	"74"	20	52	"52"	0	"PLCB4,intron_variant,,ENST00000334005,;PLCB4,intron_variant,,ENST00000378473,NM_001172646.1;PLCB4,intron_variant,,ENST00000278655,NM_182797.2;PLCB4,intron_variant,,ENST00000407043,;PLCB4,intron_variant,,ENST00000416836,;PLCB4,intron_variant,,ENST00000441846,;PLCB4,intron_variant,,ENST00000437503,;"	"T"	"ENSG00000101333"	"ENST00000334005"	"Transcript"	"intron_variant"	"-/5620"	"-/3585"	"-/1194"	""	""	""	"1"	NA	1	"PLCB4"	"HGNC"	9059	"protein_coding"	""	"CCDS13104.1"	"ENSP00000334105"	"Q15147"	"B1AJW4,B1AJW3,B1AJW2,B1AJW1"	"UPI00002069DF"	""	""	""	""	"2/37"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"10b89594-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212765957446809	"WGS"	FALSE
"9150"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	10994357	10994357	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"72"	12	42	"42"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"10b8cd84-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"9151"	"ENSR00001447316"	0	"mskcc.org"	"GRCh37"	"20"	11354051	11354051	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs6040596"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001447316"	""	98	"91"	7	65	"65"	0	""	"G"	""	"ENSR00001447316"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs6040596"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	"G:0.0002"	"G:0.0008"	"G:0"	NA	"G:0"	"G:0"	"G:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"10b8d626-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"9152"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	12724442	12724442	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"80"	17	75	"75"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"10b90894-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175257731958763	"WGS"	FALSE
"9153"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	13666486	13666486	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"64"	20	60	"60"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"10b9287e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WGS"	FALSE
"9154"	"MACROD2"	140733	"mskcc.org"	"GRCh37"	"20"	15102981	15102981	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.419-107605T>A"	""	""	"ENST00000217246"	""	85	"70"	15	57	"57"	0	"MACROD2,intron_variant,,ENST00000217246,NM_080676.5;MACROD2,intron_variant,,ENST00000310348,;"	"A"	"ENSG00000172264"	"ENST00000217246"	"Transcript"	"intron_variant"	"-/4994"	"-/1278"	"-/425"	""	""	""	"1"	NA	1	"MACROD2"	"HGNC"	16126	"protein_coding"	"YES"	"CCDS13120.2"	"ENSP00000217246"	"A1Z1Q3"	""	"UPI00005B2E12"	"NM_080676.5"	""	""	""	"5/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"10b96956-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"9155"	"ENSR00000398511"	0	"mskcc.org"	"GRCh37"	"20"	17848630	17848630	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000398511"	""	96	"72"	24	50	"50"	0	""	"C"	""	"ENSR00000398511"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"10b9d5c6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"9156"	"CSRP2BP"	57325	"mskcc.org"	"GRCh37"	"20"	18170894	18170894	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000435364"	""	38	"34"	4	25	"25"	0	"CSRP2BP,downstream_gene_variant,,ENST00000435364,NM_020536.4;CSRP2BP,downstream_gene_variant,,ENST00000377681,;CSRP2BP,downstream_gene_variant,,ENST00000489634,;"	"T"	"ENSG00000149474"	"ENST00000435364"	"Transcript"	"downstream_gene_variant"	"-/3618"	"-/2349"	"-/782"	""	""	""	"1"	"1863"	1	"CSRP2BP"	"HGNC"	15904	"protein_coding"	"YES"	"CCDS13133.1"	"ENSP00000392318"	"Q9H8E8"	"D6RAU4"	"UPI000013DB91"	"NM_020536.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"10b9ecbe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"9157"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	22156634	22156634	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"91"	8	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"10bacb84-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0808080808080808	"WGS"	FALSE
"9158"	"CSTL1"	128817	"mskcc.org"	"GRCh37"	"20"	23421484	23421484	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs193020430"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.219+361C>T"	""	""	"ENST00000347397"	""	80	"62"	18	57	"57"	0	"CSTL1,intron_variant,,ENST00000347397,NM_138283.1;CSTL1,intron_variant,,ENST00000246020,;CSTL1,non_coding_transcript_exon_variant,,ENST00000485969,;CSTL1,downstream_gene_variant,,ENST00000472140,;"	"T"	"ENSG00000125823"	"ENST00000347397"	"Transcript"	"intron_variant"	"-/736"	"-/438"	"-/145"	""	""	"rs193020430"	"1"	NA	1	"CSTL1"	"HGNC"	15958	"protein_coding"	"YES"	"CCDS13153.1"	"ENSP00000344907"	"Q9H114"	""	"UPI000003E836"	"NM_138283.1"	""	""	""	"2/3"	""	"T:0.0012"	"T:0.0045"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"10bb1846-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225	"WGS"	FALSE
"9159"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	25093909	25093909	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"81"	8	46	"46"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"10bb7f2a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"9160"	"NINL"	22981	"mskcc.org"	"GRCh37"	"20"	25529165	25529165	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-11-21931C>G"	""	""	"ENST00000278886"	""	109	"102"	7	64	"64"	0	"NINL,intron_variant,,ENST00000278886,NM_025176.4;NINL,intron_variant,,ENST00000422516,;"	"C"	"ENSG00000101004"	"ENST00000278886"	"Transcript"	"intron_variant"	"-/4969"	"-/4149"	"-/1382"	""	""	""	"1"	NA	-1	"NINL"	"HGNC"	29163	"protein_coding"	"YES"	"CCDS33452.1"	"ENSP00000278886"	"Q9Y2I6"	""	"UPI0000206B64"	"NM_025176.4"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"10bbb1fc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0642201834862385	"WGS"	FALSE
"9161"	"FAM182A"	728882	"mskcc.org"	"GRCh37"	"20"	26075970	26075970	"+"	"3'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000415411"	""	96	"82"	14	57	"57"	0	"FAM182A,downstream_gene_variant,,ENST00000415411,;"	"G"	"ENSG00000125804"	"ENST00000415411"	"Transcript"	"downstream_gene_variant"	"-/992"	""	""	""	""	""	"1"	"2287"	1	"FAM182A"	"HGNC"	16222	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"10bc314a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145833333333333	"WGS"	FALSE
"9162"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	30177432	30177432	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"77"	7	47	"47"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"10bda610-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"9163"	"BPIFB2"	80341	"mskcc.org"	"GRCh37"	"20"	31601458	31601458	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.309-158G>T"	""	""	"ENST00000170150"	""	101	"89"	12	49	"49"	0	"BPIFB2,intron_variant,,ENST00000170150,NM_025227.2;"	"T"	"ENSG00000078898"	"ENST00000170150"	"Transcript"	"intron_variant"	"-/1898"	"-/1377"	"-/458"	""	""	""	"1"	NA	1	"BPIFB2"	"HGNC"	16177	"protein_coding"	"YES"	"CCDS13210.1"	"ENSP00000170150"	"Q8N4F0"	""	"UPI00000377B0"	"NM_025227.2"	""	""	""	"4/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"10be8ecc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.118811881188119	"WGS"	FALSE
"9164"	"BPIFB5P"	0	"mskcc.org"	"GRCh37"	"20"	31909236	31909236	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.426-340G>A"	""	""	"ENST00000457066"	""	86	"75"	11	56	"56"	0	"BPIFB5P,intron_variant,,ENST00000457066,;"	"A"	"ENSG00000233146"	"ENST00000457066"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1099"	""	""	""	""	""	"1"	NA	1	"BPIFB5P"	"HGNC"	42177	"unitary_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"10bea4fc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127906976744186	"WGS"	FALSE
"9165"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	32757549	32757549	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"71"	7	44	"44"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"10bf0f5a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"9166"	"ITCH"	83737	"mskcc.org"	"GRCh37"	"20"	32952441	32952441	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-99+1286C>A"	""	""	"ENST00000262650"	""	67	"62"	5	32	"32"	0	"ITCH,intron_variant,,ENST00000374864,NM_001257137.1,NM_031483.5,NM_001257138.1;ITCH,intron_variant,,ENST00000262650,;ITCH,intron_variant,,ENST00000535650,;ITCH,intron_variant,,ENST00000486883,;ITCH,intron_variant,,ENST00000479215,;"	"A"	"ENSG00000078747"	"ENST00000262650"	"Transcript"	"intron_variant"	"-/3089"	"-/2712"	"-/903"	""	""	""	"1"	NA	1	"ITCH"	"HGNC"	13890	"protein_coding"	"YES"	"CCDS58768.1"	"ENSP00000262650"	"Q96J02"	""	"UPI00000731C2"	""	""	""	""	"1/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"10bf29a4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0746268656716418	"WGS"	FALSE
"9167"	"ITCH"	83737	"mskcc.org"	"GRCh37"	"20"	32995238	32995238	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.71-1219A>G"	""	""	"ENST00000262650"	""	93	"80"	13	42	"42"	0	"ITCH,intron_variant,,ENST00000374864,NM_001257137.1,NM_031483.5,NM_001257138.1;ITCH,intron_variant,,ENST00000262650,;ITCH,intron_variant,,ENST00000535650,;ITCH,intron_variant,,ENST00000486883,;CDC42P1,upstream_gene_variant,,ENST00000456658,;"	"G"	"ENSG00000078747"	"ENST00000262650"	"Transcript"	"intron_variant"	"-/3089"	"-/2712"	"-/903"	""	""	""	"1"	NA	1	"ITCH"	"HGNC"	13890	"protein_coding"	"YES"	"CCDS58768.1"	"ENSP00000262650"	"Q96J02"	""	"UPI00000731C2"	""	""	""	""	"3/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAA"	"10bf348a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.139784946236559	"WGS"	FALSE
"9168"	"NCOA6"	23054	"mskcc.org"	"GRCh37"	"20"	33368497	33368497	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.235+1427T>A"	""	""	"ENST00000374796"	""	87	"81"	6	57	"57"	0	"NCOA6,intron_variant,,ENST00000374796,;NCOA6,intron_variant,,ENST00000359003,NM_014071.3,NM_001242539.1;"	"T"	"ENSG00000198646"	"ENST00000374796"	"Transcript"	"intron_variant"	"-/9311"	"-/6192"	"-/2063"	""	""	""	"1"	NA	-1	"NCOA6"	"HGNC"	15936	"protein_coding"	"YES"	"CCDS13241.1"	"ENSP00000363929"	"Q14686"	""	"UPI000013C634"	""	""	""	""	"4/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"10bf6dba-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"9169"	"C20orf173"	140873	"mskcc.org"	"GRCh37"	"20"	34117905	34117905	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000444723"	""	73	"67"	6	40	"40"	0	"C20orf173,upstream_gene_variant,,ENST00000444723,NM_001145350.1;C20orf173,upstream_gene_variant,,ENST00000246199,;C20orf173,upstream_gene_variant,,ENST00000374345,;C20orf173,upstream_gene_variant,,ENST00000424444,;RP3-477O4.5,upstream_gene_variant,,ENST00000422009,;RP3-477O4.5,upstream_gene_variant,,ENST00000419294,;"	"G"	"ENSG00000125975"	"ENST00000444723"	"Transcript"	"upstream_gene_variant"	"-/1059"	"-/609"	"-/202"	""	""	""	"1"	"424"	-1	"C20orf173"	"HGNC"	16166	"protein_coding"	"YES"	"CCDS46594.1"	"ENSP00000403566"	"Q96LM9"	"Q4VXS0,Q4VXR9"	"UPI0001948489"	"NM_001145350.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"10bfdbd8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"9170"	"EPB41L1"	2036	"mskcc.org"	"GRCh37"	"20"	34779087	34779087	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1300+368C>T"	""	""	"ENST00000338074"	""	76	"70"	6	51	"51"	0	"EPB41L1,intron_variant,,ENST00000338074,NM_012156.2,NM_001258329.1;EPB41L1,intron_variant,,ENST00000441639,NM_177996.2;EPB41L1,intron_variant,,ENST00000373946,NM_001258330.1;EPB41L1,intron_variant,,ENST00000373950,;EPB41L1,intron_variant,,ENST00000202028,NM_001258331.1;EPB41L1,intron_variant,,ENST00000373941,;EPB41L1,intron_variant,,ENST00000451082,;EPB41L1,downstream_gene_variant,,ENST00000430276,;"	"T"	"ENSG00000088367"	"ENST00000338074"	"Transcript"	"intron_variant"	"-/6266"	"-/2646"	"-/881"	""	""	""	"1"	NA	1	"EPB41L1"	"HGNC"	3378	"protein_coding"	"YES"	"CCDS13271.1"	"ENSP00000337168"	"Q9H4G0"	"Q4VXN8,Q4VXN7,Q4VXN6,Q4VXN5,Q4VXN2,Q4VXN1,Q4VXN0"	"UPI0000129AF8"	"NM_012156.2,NM_001258329.1"	""	""	""	"11/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"10c02868-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"9171"	"SRC"	6714	"mskcc.org"	"GRCh37"	"20"	36008354	36008354	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000358208"	""	50	"43"	7	30	"30"	0	"SRC,intron_variant,,ENST00000373578,NM_198291.2;SRC,intron_variant,,ENST00000445403,NM_005417.4;SRC,upstream_gene_variant,,ENST00000373567,;SRC,upstream_gene_variant,,ENST00000373558,;SRC,upstream_gene_variant,,ENST00000360723,;SRC,upstream_gene_variant,,ENST00000358208,;SRC,intron_variant,,ENST00000497734,;SRC,upstream_gene_variant,,ENST00000472968,;"	"G"	"ENSG00000197122"	"ENST00000358208"	"Transcript"	"upstream_gene_variant"	"-/3748"	"-/1611"	"-/536"	""	""	""	"1"	"2738"	1	"SRC"	"HGNC"	11283	"protein_coding"	""	"CCDS13294.1"	"ENSP00000350941"	"P12931"	"Q9H7V3,Q71UK5"	"UPI0000000CB3"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"10c0d628-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.14	"WGS"	FALSE
"9172"	"SRC"	6714	"mskcc.org"	"GRCh37"	"20"	36008359	36008359	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000358208"	""	51	"44"	7	28	"28"	0	"SRC,intron_variant,,ENST00000373578,NM_198291.2;SRC,intron_variant,,ENST00000445403,NM_005417.4;SRC,upstream_gene_variant,,ENST00000373567,;SRC,upstream_gene_variant,,ENST00000373558,;SRC,upstream_gene_variant,,ENST00000360723,;SRC,upstream_gene_variant,,ENST00000358208,;SRC,intron_variant,,ENST00000497734,;SRC,upstream_gene_variant,,ENST00000472968,;"	"G"	"ENSG00000197122"	"ENST00000358208"	"Transcript"	"upstream_gene_variant"	"-/3748"	"-/1611"	"-/536"	""	""	""	"1"	"2733"	1	"SRC"	"HGNC"	11283	"protein_coding"	""	"CCDS13294.1"	"ENSP00000350941"	"P12931"	"Q9H7V3,Q71UK5"	"UPI0000000CB3"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"10c0d768-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137254901960784	"WGS"	FALSE
"9173"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	37298128	37298128	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"71"	25	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"10c178b2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260416666666667	"WGS"	FALSE
"9174"	"PPP1R16B"	26051	"mskcc.org"	"GRCh37"	"20"	37524687	37524687	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.467+334T>C"	""	""	"ENST00000299824"	""	65	"56"	9	27	"27"	0	"PPP1R16B,intron_variant,,ENST00000299824,NM_015568.2;PPP1R16B,intron_variant,,ENST00000373331,NM_001172735.1;PPP1R16B,downstream_gene_variant,,ENST00000468265,;PPP1R16B,downstream_gene_variant,,ENST00000463749,;"	"C"	"ENSG00000101445"	"ENST00000299824"	"Transcript"	"intron_variant"	"-/6251"	"-/1704"	"-/567"	""	""	""	"1"	NA	1	"PPP1R16B"	"HGNC"	15850	"protein_coding"	"YES"	"CCDS13309.1"	"ENSP00000299824"	"Q96T49"	""	"UPI0000132059"	"NM_015568.2"	""	""	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"10c19c66-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138461538461538	"WGS"	FALSE
"9175"	"PTPRT"	11122	"mskcc.org"	"GRCh37"	"20"	41172620	41172620	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1154-71418A>T"	""	""	"ENST00000373198"	""	103	"98"	5	41	"41"	0	"PTPRT,intron_variant,,ENST00000373198,NM_133170.3;PTPRT,intron_variant,,ENST00000373201,;PTPRT,intron_variant,,ENST00000373193,NM_007050.5;PTPRT,intron_variant,,ENST00000373190,;PTPRT,intron_variant,,ENST00000373184,;PTPRT,intron_variant,,ENST00000356100,;PTPRT,intron_variant,,ENST00000373187,;"	"A"	"ENSG00000196090"	"ENST00000373198"	"Transcript"	"intron_variant"	"-/12746"	"-/4383"	"-/1460"	""	""	""	"1"	NA	-1	"PTPRT"	"HGNC"	9682	"protein_coding"	""	"CCDS68127.1"	"ENSP00000362294"	"O14522"	""	"UPI00001AF6FA"	"NM_133170.3"	""	""	""	"7/31"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"10c28414-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0485436893203883	"WGS"	FALSE
"9176"	"C20orf62"	140834	"mskcc.org"	"GRCh37"	"20"	43096608	43096608	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000372910"	""	79	"62"	17	57	"57"	0	"C20orf62,upstream_gene_variant,,ENST00000372910,NM_001287807.1;C20orf62,upstream_gene_variant,,ENST00000306731,;RPL37AP1,upstream_gene_variant,,ENST00000412502,;"	"G"	"ENSG00000168746"	"ENST00000372910"	"Transcript"	"upstream_gene_variant"	"-/700"	"-/513"	"-/170"	""	""	""	"1"	"2624"	-1	"C20orf62"	"HGNC"	16195	"protein_coding"	"YES"	""	"ENSP00000362001"	"Q4KN68"	""	"UPI0000198842"	"NM_001287807.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"10c385bc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215189873417722	"WGS"	FALSE
"9177"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	46778387	46778387	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"62"	21	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"10c55c48-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253012048192771	"WGS"	FALSE
"9178"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	51459456	51459456	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"59"	26	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"10c82554-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305882352941176	"WGS"	FALSE
"9179"	"TSHZ2"	128553	"mskcc.org"	"GRCh37"	"20"	51794531	51794531	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.41-75507G>T"	""	""	"ENST00000371497"	""	93	"74"	19	57	"57"	0	"TSHZ2,intron_variant,,ENST00000371497,NM_173485.5,NM_001193421.1;RP11-15M15.1,intron_variant,,ENST00000432706,;"	"T"	"ENSG00000182463"	"ENST00000371497"	"Transcript"	"intron_variant"	"-/12187"	"-/3105"	"-/1034"	""	""	""	"1"	NA	1	"TSHZ2"	"HGNC"	13010	"protein_coding"	"YES"	"CCDS33490.1"	"ENSP00000360552"	"Q9NRE2"	"S4R3C8"	"UPI0000206747"	"NM_173485.5,NM_001193421.1"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"10c84dc2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204301075268817	"WGS"	FALSE
"9180"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	52481503	52481503	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	134	"115"	19	79	"79"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"10c8c27a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141791044776119	"WGS"	FALSE
"9181"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	53910058	53910058	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"72"	14	67	"67"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"10c9505a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162790697674419	"WGS"	FALSE
"9182"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	57542217	57542217	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"59"	9	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"10cb2358-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.132352941176471	"WGS"	FALSE
"9183"	"SYCP2"	10388	"mskcc.org"	"GRCh37"	"20"	58501814	58501814	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-46-4300T>A"	""	""	"ENST00000357552"	""	94	"76"	18	50	"50"	0	"SYCP2,intron_variant,,ENST00000357552,;SYCP2,intron_variant,,ENST00000371001,NM_014258.2;SYCP2,intron_variant,,ENST00000446834,;SYCP2,intron_variant,,ENST00000425931,;"	"T"	"ENSG00000196074"	"ENST00000357552"	"Transcript"	"intron_variant"	"-/5567"	"-/4593"	"-/1530"	""	""	""	"1"	NA	-1	"SYCP2"	"HGNC"	11490	"protein_coding"	"YES"	"CCDS13482.1"	"ENSP00000350162"	"Q9BX26"	"A2A341"	"UPI0000135683"	""	""	""	""	"2/44"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"10cba5bc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191489361702128	"WGS"	FALSE
"9184"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	61027035	61027035	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	33	"23"	10	22	"20"	2	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"10ce9f7e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303030303030303	"WGS"	FALSE
"9185"	"RP11-305P22.9"	63930	"mskcc.org"	"GRCh37"	"20"	61664515	61664515	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.91+23690G>T"	""	""	"ENST00000607802"	""	78	"64"	14	43	"43"	0	"RP11-305P22.9,intron_variant,,ENST00000607802,;RP11-305P22.9,intron_variant,,ENST00000606208,;LINC00029,downstream_gene_variant,,ENST00000370341,;LINC01056,upstream_gene_variant,,ENST00000455711,;LINC00029,downstream_gene_variant,,ENST00000414668,;LINC00029,downstream_gene_variant,,ENST00000456634,;"	"T"	"ENSG00000272259"	"ENST00000607802"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3408"	""	""	""	""	""	"1"	NA	1	"RP11-305P22.9"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"10cf3eca-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179487179487179	"WGS"	FALSE
"9186"	"BIRC7"	79444	"mskcc.org"	"GRCh37"	"20"	61864400	61864400	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000217169"	""	101	"78"	23	57	"57"	0	"BIRC7,upstream_gene_variant,,ENST00000217169,NM_139317.2;BIRC7,upstream_gene_variant,,ENST00000342412,NM_022161.3;"	"A"	"ENSG00000101197"	"ENST00000217169"	"Transcript"	"upstream_gene_variant"	"-/1368"	"-/897"	"-/298"	""	""	""	"1"	"2835"	1	"BIRC7"	"HGNC"	13702	"protein_coding"	"YES"	"CCDS13513.1"	"ENSP00000217169"	"Q96CA5"	""	"UPI00001269A6"	"NM_139317.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"10cf8916-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227722772277228	"WGS"	FALSE
"9187"	"RTEL1"	51750	"mskcc.org"	"GRCh37"	"20"	62303494	62303494	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.772-415C>G"	""	""	"ENST00000508582"	""	88	"83"	5	43	"43"	0	"RTEL1,intron_variant,,ENST00000318100,;RTEL1,intron_variant,,ENST00000370018,NM_032957.4,NM_016434.3;RTEL1,intron_variant,,ENST00000360203,NM_001283009.1;RTEL1,intron_variant,,ENST00000508582,;RTEL1,intron_variant,,ENST00000356810,;RTEL1,intron_variant,,ENST00000463361,;RTEL1-TNFRSF6B,intron_variant,,ENST00000482936,;RTEL1-TNFRSF6B,intron_variant,,ENST00000492259,;"	"G"	"ENSG00000258366"	"ENST00000508582"	"Transcript"	"intron_variant"	"-/4273"	"-/3732"	"-/1243"	""	""	""	"1"	NA	1	"RTEL1"	"HGNC"	15888	"protein_coding"	"YES"	"CCDS13530.3"	"ENSP00000424307"	"Q9NZ71"	""	"UPI00019B2219"	""	""	""	""	"8/34"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"10d089a6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0568181818181818	"WGS"	FALSE
"9188"	"AJ239321.3"	0	"mskcc.org"	"GRCh37"	"21"	14496216	14496216	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"rs79952685"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000424255"	""	87	"78"	9	40	"40"	0	"AJ239321.3,downstream_gene_variant,,ENST00000424255,;"	"G"	"ENSG00000237202"	"ENST00000424255"	"Transcript"	"downstream_gene_variant"	"-/564"	""	""	""	""	"rs79952685"	"1"	"3088"	1	"AJ239321.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"10e34956-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"9189"	"GTF2IP2"	0	"mskcc.org"	"GRCh37"	"21"	14853100	14853100	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.99+8299A>G"	""	""	"ENST00000424290"	""	83	"71"	12	66	"66"	0	"GTF2IP2,intron_variant,,ENST00000424290,;VN1R8P,downstream_gene_variant,,ENST00000407739,;"	"C"	"ENSG00000226930"	"ENST00000424290"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/697"	""	""	""	""	""	"1"	NA	-1	"GTF2IP2"	"HGNC"	16082	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"10e383da-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.144578313253012	"WGS"	FALSE
"9190"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	16685616	16685616	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"86"	12	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"10e3fc0c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122448979591837	"WGS"	FALSE
"9191"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	19092153	19092153	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"3"	4	8	"8"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"10e46764-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.571428571428571	"WGS"	FALSE
"9192"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	19111871	19111871	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"rs76170527"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"120"	7	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs76170527"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0212"	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"10e46b56-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0551181102362205	"WGS"	FALSE
"9193"	"TMPRSS15"	5651	"mskcc.org"	"GRCh37"	"21"	19835136	19835136	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.10+22981C>A"	""	""	"ENST00000422787"	""	72	"67"	5	49	"49"	0	"TMPRSS15,intron_variant,,ENST00000422787,;TMPRSS15,upstream_gene_variant,,ENST00000474775,;"	"T"	"ENSG00000154646"	"ENST00000422787"	"Transcript"	"intron_variant"	"-/754"	"-/683"	"-/227"	""	""	""	"1"	NA	-1	"TMPRSS15"	"HGNC"	9490	"protein_coding"	""	""	"ENSP00000398253"	""	"Q9NR95,E9PG70"	"UPI0000E5A385"	""	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"10e4833e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0694444444444444	"WGS"	FALSE
"9194"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	20589221	20589221	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"rs143210736"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"69"	20	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143210736"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0008"	"T:0"	"T:0"	NA	"T:0.003"	"T:0"	"T:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"10e49964-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224719101123595	"WGS"	FALSE
"9195"	"AP000946.2"	0	"mskcc.org"	"GRCh37"	"21"	21267026	21267026	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.118-1139C>T"	""	""	"ENST00000443479"	""	93	"73"	20	60	"60"	0	"AP000946.2,intron_variant,,ENST00000443479,;"	"A"	"ENSG00000233480"	"ENST00000443479"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/412"	""	""	""	""	""	"1"	NA	-1	"AP000946.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"10e4abe8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21505376344086	"WGS"	FALSE
"9196"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	24164105	24164105	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"72"	20	67	"67"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"10e5094e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"9197"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	24215919	24215919	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"92"	6	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"10e50dc2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0612244897959184	"WGS"	FALSE
"9198"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	25251243	25251243	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"71"	12	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"10e531d0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.144578313253012	"WGS"	FALSE
"9199"	"AP000233.4"	0	"mskcc.org"	"GRCh37"	"21"	26539355	26539355	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"rs755619036"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000409758"	""	98	"78"	20	58	"58"	0	"AP000233.4,downstream_gene_variant,,ENST00000409758,;"	"A"	"ENSG00000222042"	"ENST00000409758"	"Transcript"	"downstream_gene_variant"	"-/763"	""	""	""	""	"rs755619036"	"1"	"2390"	-1	"AP000233.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"10e55f5c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204081632653061	"WGS"	FALSE
"9200"	"AP001604.3"	0	"mskcc.org"	"GRCh37"	"21"	28790520	28790520	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.203-18627T>C"	""	""	"ENST00000420186"	""	106	"80"	26	62	"62"	0	"AP001604.3,intron_variant,,ENST00000420186,;RPL10P1,downstream_gene_variant,,ENST00000447844,;"	"G"	"ENSG00000231236"	"ENST00000420186"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2603"	""	""	""	""	""	"1"	NA	-1	"AP001604.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"10e5af7a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245283018867925	"WGS"	FALSE
"9201"	"SCAF4"	57466	"mskcc.org"	"GRCh37"	"21"	33085095	33085095	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.31-6425C>T"	""	""	"ENST00000286835"	""	89	"81"	8	51	"51"	0	"SCAF4,intron_variant,,ENST00000286835,NM_020706.2;SCAF4,intron_variant,,ENST00000399804,NM_001145445.1;SCAF4,intron_variant,,ENST00000434667,NM_001145444.1;SCAF4,intron_variant,,ENST00000485790,;"	"A"	"ENSG00000156304"	"ENST00000286835"	"Transcript"	"intron_variant"	"-/4193"	"-/3444"	"-/1147"	""	""	""	"1"	NA	-1	"SCAF4"	"HGNC"	19304	"protein_coding"	"YES"	"CCDS33537.1"	"ENSP00000286835"	"O95104"	"Q0P607"	"UPI0000206D66"	"NM_020706.2"	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"10e668d4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"9202"	"EVA1C"	59271	"mskcc.org"	"GRCh37"	"21"	33851080	33851080	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs184885713"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.634+10924G>A"	""	""	"ENST00000300255"	""	103	"85"	18	67	"67"	0	"EVA1C,intron_variant,,ENST00000300255,NM_058187.3;EVA1C,intron_variant,,ENST00000382699,NM_001286556.1;EVA1C,intron_variant,,ENST00000401402,;EVA1C,intron_variant,,ENST00000412833,;EVA1C,intron_variant,,ENST00000459833,;EVA1C,intron_variant,,ENST00000464037,;EVA1C,intron_variant,,ENST00000437338,;EVA1C,intron_variant,,ENST00000435323,;EVA1C,intron_variant,,ENST00000457807,;"	"A"	"ENSG00000166979"	"ENST00000300255"	"Transcript"	"intron_variant"	"-/1998"	"-/1326"	"-/441"	""	""	"rs184885713"	"1"	NA	1	"EVA1C"	"HGNC"	13239	"protein_coding"	"YES"	"CCDS13614.1"	"ENSP00000300255"	"P58658"	"C9JS02,B3KWG0"	"UPI00000373F4"	"NM_058187.3"	""	""	""	"4/7"	""	"A:0.0028"	"A:0.0091"	"A:0.0029"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"10e6c31a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174757281553398	"WGS"	FALSE
"9203"	"EVA1C"	59271	"mskcc.org"	"GRCh37"	"21"	33851155	33851155	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.634+10999G>C"	""	""	"ENST00000300255"	""	115	"88"	27	63	"63"	0	"EVA1C,intron_variant,,ENST00000300255,NM_058187.3;EVA1C,intron_variant,,ENST00000382699,NM_001286556.1;EVA1C,intron_variant,,ENST00000401402,;EVA1C,intron_variant,,ENST00000412833,;EVA1C,intron_variant,,ENST00000459833,;EVA1C,intron_variant,,ENST00000464037,;EVA1C,intron_variant,,ENST00000437338,;EVA1C,intron_variant,,ENST00000435323,;EVA1C,intron_variant,,ENST00000457807,;"	"C"	"ENSG00000166979"	"ENST00000300255"	"Transcript"	"intron_variant"	"-/1998"	"-/1326"	"-/441"	""	""	""	"1"	NA	1	"EVA1C"	"HGNC"	13239	"protein_coding"	"YES"	"CCDS13614.1"	"ENSP00000300255"	"P58658"	"C9JS02,B3KWG0"	"UPI00000373F4"	"NM_058187.3"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"10e6c3c4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234782608695652	"WGS"	FALSE
"9204"	"C21orf49"	0	"mskcc.org"	"GRCh37"	"21"	34204495	34204495	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.43-19564A>G"	""	""	"ENST00000453404"	""	99	"88"	11	55	"55"	0	"C21orf49,intron_variant,,ENST00000453404,;C21orf49,intron_variant,,ENST00000454365,;"	"G"	"ENSG00000205930"	"ENST00000453404"	"Transcript"	"intron_variant"	"-/992"	"-/75"	"-/24"	""	""	""	"1"	NA	1	"C21orf49"	"HGNC"	1290	"protein_coding"	""	""	"ENSP00000408057"	""	"F8WEE1"	"UPI000173A350"	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"10e6cfd6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"9205"	"ITSN1"	6453	"mskcc.org"	"GRCh37"	"21"	35041458	35041458	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-33+26439T>G"	""	""	"ENST00000381318"	""	115	"107"	8	45	"45"	0	"ITSN1,intron_variant,,ENST00000381318,NM_003024.2;ITSN1,intron_variant,,ENST00000381285,;ITSN1,intron_variant,,ENST00000399367,;ITSN1,intron_variant,,ENST00000381291,NM_001001132.1;ITSN1,intron_variant,,ENST00000399352,;ITSN1,intron_variant,,ENST00000399349,;ITSN1,intron_variant,,ENST00000399355,;ITSN1,intron_variant,,ENST00000399353,;ITSN1,intron_variant,,ENST00000444491,;AP000304.12,intron_variant,,ENST00000429238,;ITSN1,intron_variant,,ENST00000451686,;ITSN1,intron_variant,,ENST00000470742,;"	"G"	"ENSG00000205726"	"ENST00000381318"	"Transcript"	"intron_variant"	"-/17015"	"-/5166"	"-/1721"	""	""	""	"1"	NA	1	"ITSN1"	"HGNC"	6183	"protein_coding"	"YES"	"CCDS33545.1"	"ENSP00000370719"	"Q15811"	"D6PAW2,C9JXS9,C9J1A4"	"UPI00001403C6"	"NM_003024.2"	""	""	""	"1/39"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"10e7111c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0695652173913043	"WGS"	FALSE
"9206"	"AP000320.7"	0	"mskcc.org"	"GRCh37"	"21"	35532978	35532978	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.294+35198A>C"	""	""	"ENST00000362077"	""	54	"34"	20	30	"29"	1	"AP000320.7,intron_variant,,ENST00000362077,;"	"C"	"ENSG00000272657"	"ENST00000362077"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/641"	""	""	""	""	""	"1"	NA	1	"AP000320.7"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"10e72968-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.37037037037037	"WGS"	FALSE
"9207"	"RUNX1"	861	"mskcc.org"	"GRCh37"	"21"	36323893	36323893	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.59-58633T>G"	""	""	"ENST00000300305"	""	93	"87"	6	48	"48"	0	"RUNX1,intron_variant,,ENST00000300305,;RUNX1,intron_variant,,ENST00000437180,NM_001754.4;RUNX1,intron_variant,,ENST00000475045,;RUNX1,intron_variant,,ENST00000486278,;RUNX1,intron_variant,,ENST00000455571,;RUNX1,intron_variant,,ENST00000416754,;RUNX1,intron_variant,,ENST00000482318,;"	"C"	"ENSG00000159216"	"ENST00000300305"	"Transcript"	"intron_variant"	"-/6222"	"-/1443"	"-/480"	""	""	""	"1"	NA	-1	"RUNX1"	"HGNC"	10471	"protein_coding"	"YES"	"CCDS13639.1"	"ENSP00000300305"	"Q01196"	""	"UPI000015FE6A"	""	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"10e753c0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	TRUE
"9208"	"HLCS"	3141	"mskcc.org"	"GRCh37"	"21"	38314686	38314686	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-111-3392T>C"	""	""	"ENST00000399120"	""	68	"62"	6	38	"38"	0	"HLCS,intron_variant,,ENST00000399120,NM_001242784.1;HLCS,intron_variant,,ENST00000336648,NM_000411.6,NM_001242785.1;HLCS,intron_variant,,ENST00000448340,;HLCS,intron_variant,,ENST00000419461,;HLCS,intron_variant,,ENST00000427746,;DPRXP5,upstream_gene_variant,,ENST00000604662,;"	"G"	"ENSG00000159267"	"ENST00000399120"	"Transcript"	"intron_variant"	"-/6466"	"-/2181"	"-/726"	""	""	""	"1"	NA	-1	"HLCS"	"HGNC"	4976	"protein_coding"	"YES"	"CCDS13647.1"	"ENSP00000382071"	"P50747"	"C9JD75,C9JCQ9"	"UPI0000126A8C"	"NM_001242784.1"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"10e7d0f2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"9209"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	40233628	40233628	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"61"	17	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"10e82c8c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217948717948718	"WGS"	FALSE
"9210"	"SLC37A1"	54020	"mskcc.org"	"GRCh37"	"21"	43953342	43953342	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.139-1466G>A"	""	""	"ENST00000352133"	""	89	"72"	17	66	"66"	0	"SLC37A1,intron_variant,,ENST00000352133,;SLC37A1,intron_variant,,ENST00000398341,NM_018964.3;"	"A"	"ENSG00000160190"	"ENST00000352133"	"Transcript"	"intron_variant"	"-/3664"	"-/1602"	"-/533"	""	""	""	"1"	NA	1	"SLC37A1"	"HGNC"	11024	"protein_coding"	"YES"	"CCDS13689.1"	"ENSP00000344648"	"P57057"	""	"UPI00001AEB81"	""	""	""	""	"3/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"10e946d0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191011235955056	"WGS"	FALSE
"9211"	"PKNOX1"	5316	"mskcc.org"	"GRCh37"	"21"	44414399	44414399	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-56-10037A>G"	""	""	"ENST00000291547"	""	32	"27"	5	20	"20"	0	"PKNOX1,intron_variant,,ENST00000291547,NM_004571.3;PKNOX1,intron_variant,,ENST00000432907,NM_001286258.1;PKNOX1,intron_variant,,ENST00000480179,;PKNOX1,intron_variant,,ENST00000418336,;"	"G"	"ENSG00000160199"	"ENST00000291547"	"Transcript"	"intron_variant"	"-/5002"	"-/1311"	"-/436"	""	""	""	"1"	NA	1	"PKNOX1"	"HGNC"	9022	"protein_coding"	"YES"	"CCDS13692.1"	"ENSP00000291547"	"P55347"	"Q96I87,E7EPN6"	"UPI000000D8D4"	"NM_004571.3"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"10e9806e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WGS"	FALSE
"9212"	"PCBP3"	54039	"mskcc.org"	"GRCh37"	"21"	47330111	47330111	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.472-705G>T"	""	""	"ENST00000400314"	""	22	"19"	3	16	"16"	0	"PCBP3,intron_variant,,ENST00000400314,;PCBP3,intron_variant,,ENST00000400310,;PCBP3,intron_variant,,ENST00000449640,NM_020528.2;PCBP3,intron_variant,,ENST00000400309,;PCBP3,intron_variant,,ENST00000400308,NM_001130141.1;PCBP3,intron_variant,,ENST00000400305,;PCBP3,intron_variant,,ENST00000400304,;PCBP3,intron_variant,,ENST00000468429,;PCBP3,upstream_gene_variant,,ENST00000475402,;"	"T"	"ENSG00000183570"	"ENST00000400314"	"Transcript"	"intron_variant"	"-/2202"	"-/1116"	"-/371"	""	""	""	"1"	NA	1	"PCBP3"	"HGNC"	8651	"protein_coding"	"YES"	"CCDS42974.2"	"ENSP00000383168"	"P57721"	""	"UPI00005989D5"	""	""	""	""	"8/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"10eb5ec0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"9213"	"SPATC1L"	84221	"mskcc.org"	"GRCh37"	"21"	47578653	47578653	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000291672"	""	111	"94"	17	56	"56"	0	"SPATC1L,downstream_gene_variant,,ENST00000291672,NM_001142854.1;FTCD,upstream_gene_variant,,ENST00000397748,;FTCD,upstream_gene_variant,,ENST00000359679,;FTCD,upstream_gene_variant,,ENST00000291670,NM_006657.2;FTCD,upstream_gene_variant,,ENST00000397746,NM_206965.1;FTCD,upstream_gene_variant,,ENST00000355384,;FTCD,upstream_gene_variant,,ENST00000397743,;SPATC1L,downstream_gene_variant,,ENST00000330205,NM_032261.4;FTCD,upstream_gene_variant,,ENST00000498355,;"	"A"	"ENSG00000160284"	"ENST00000291672"	"Transcript"	"downstream_gene_variant"	"-/2303"	"-/1023"	"-/340"	""	""	""	"1"	"2422"	-1	"SPATC1L"	"HGNC"	1298	"protein_coding"	"YES"	"CCDS46653.1"	"ENSP00000291672"	"Q9H0A9"	""	"UPI000013E06B"	"NM_001142854.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"10ebe868-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153153153153153	"WGS"	FALSE
"9214"	"PCNT"	5116	"mskcc.org"	"GRCh37"	"21"	47760763	47760763	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.640-5279T>G"	""	""	"ENST00000359568"	""	101	"83"	18	54	"54"	0	"PCNT,intron_variant,,ENST00000359568,NM_006031.5;PCNT,intron_variant,,ENST00000480896,;PCNT,intron_variant,,ENST00000490468,;"	"G"	"ENSG00000160299"	"ENST00000359568"	"Transcript"	"intron_variant"	"-/10560"	"-/10011"	"-/3336"	""	""	""	"1"	NA	1	"PCNT"	"HGNC"	16068	"protein_coding"	"YES"	"CCDS33592.1"	"ENSP00000352572"	"O95613"	""	"UPI00001AEB88"	"NM_006031.5"	""	""	""	"3/46"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"10ec2ea4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178217821782178	"WGS"	FALSE
"9215"	"BCL2L13"	23786	"mskcc.org"	"GRCh37"	"22"	18190613	18190613	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.600+5461G>T"	""	""	"ENST00000317582"	""	95	"74"	21	48	"48"	0	"BCL2L13,intron_variant,,ENST00000355028,NM_001270734.1,NM_001270733.1;BCL2L13,intron_variant,,ENST00000317582,NM_015367.3;BCL2L13,intron_variant,,ENST00000543133,NM_001270729.1;BCL2L13,intron_variant,,ENST00000337612,;BCL2L13,intron_variant,,ENST00000538149,;BCL2L13,intron_variant,,ENST00000418951,;BCL2L13,downstream_gene_variant,,ENST00000493680,;BCL2L13,intron_variant,,ENST00000485631,;BCL2L13,intron_variant,,ENST00000399777,;BCL2L13,intron_variant,,ENST00000498133,;"	"T"	"ENSG00000099968"	"ENST00000317582"	"Transcript"	"intron_variant"	"-/2992"	"-/1458"	"-/485"	""	""	""	"1"	NA	1	"BCL2L13"	"HGNC"	17164	"protein_coding"	"YES"	"CCDS13746.1"	"ENSP00000318883"	"Q9BXK5"	"B2RB43"	"UPI000004F301"	"NM_015367.3"	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"10efb344-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221052631578947	"WGS"	FALSE
"9216"	"TXNRD2"	10587	"mskcc.org"	"GRCh37"	"22"	19875377	19875377	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs376119444"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.950-4393G>A"	""	""	"ENST00000400521"	""	87	"72"	15	45	"45"	0	"TXNRD2,intron_variant,,ENST00000400519,;TXNRD2,intron_variant,,ENST00000535882,;TXNRD2,intron_variant,,ENST00000400518,;TXNRD2,intron_variant,,ENST00000400521,NM_006440.3;TXNRD2,intron_variant,,ENST00000542719,;TXNRD2,intron_variant,,ENST00000474308,;TXNRD2,intron_variant,,ENST00000494454,;TXNRD2,intron_variant,,ENST00000400525,;TXNRD2,upstream_gene_variant,,ENST00000487165,;AC000078.5,non_coding_transcript_exon_variant,,ENST00000420617,;"	"T"	"ENSG00000184470"	"ENST00000400521"	"Transcript"	"intron_variant"	"-/1933"	"-/1575"	"-/524"	""	""	"rs376119444"	"1"	NA	-1	"TXNRD2"	"HGNC"	18155	"protein_coding"	"YES"	"CCDS42981.1"	"ENSP00000383365"	"Q9NNW7"	""	"UPI0000167BDD"	"NM_006440.3"	""	""	""	"11/17"	""	"T:0.0006"	"T:0.0015"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"10f12418-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WGS"	FALSE
"9217"	"FAM230A"	101927859	"mskcc.org"	"GRCh37"	"22"	20715801	20715801	"+"	"3'UTR"	"SNP"	"G"	"C"	"C"	"rs573113062"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*4815G>C"	""	""	"ENST00000434783"	"8/8"	15	"10"	5	6	"6"	0	"FAM230A,3_prime_UTR_variant,,ENST00000434783,;USP41,intron_variant,,ENST00000454608,;USP41,downstream_gene_variant,,ENST00000292729,;USP41,intron_variant,,ENST00000486536,;USP41,downstream_gene_variant,,ENST00000470202,;"	"C"	"ENSG00000188280"	"ENST00000434783"	"Transcript"	"3_prime_UTR_variant"	"7717/8854"	"-/2718"	"-/905"	""	""	"rs573113062"	"1"	NA	1	"FAM230A"	"HGNC"	45045	"protein_coding"	"YES"	""	"ENSP00000463576"	""	"J3QLJ4"	"UPI000268B488"	""	""	""	"8/8"	""	""	"C:0.0052"	"C:0.0098"	"C:0.0058"	NA	"C:0.004"	"C:0.001"	"C:0.0041"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"10f1b66c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"9218"	"PI4KA"	5297	"mskcc.org"	"GRCh37"	"22"	21097774	21097774	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3457-722A>G"	""	""	"ENST00000255882"	""	71	"65"	6	31	"31"	0	"PI4KA,intron_variant,,ENST00000255882,NM_058004.3;PI4KA,intron_variant,,ENST00000572273,;PI4KA,upstream_gene_variant,,ENST00000494113,;PI4KA,downstream_gene_variant,,ENST00000475414,;"	"C"	"ENSG00000241973"	"ENST00000255882"	"Transcript"	"intron_variant"	"-/6752"	"-/6309"	"-/2102"	""	""	""	"1"	NA	-1	"PI4KA"	"HGNC"	8983	"protein_coding"	"YES"	"CCDS33603.2"	"ENSP00000255882"	""	"Q4LE69,J3KN10,C9JLI1"	"UPI0000E06BD6"	"NM_058004.3"	""	""	""	"30/54"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"10f1eba0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"9219"	"PI4KA"	5297	"mskcc.org"	"GRCh37"	"22"	21097781	21097781	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3457-729A>T"	""	""	"ENST00000255882"	""	78	"71"	7	31	"31"	0	"PI4KA,intron_variant,,ENST00000255882,NM_058004.3;PI4KA,intron_variant,,ENST00000572273,;PI4KA,upstream_gene_variant,,ENST00000494113,;PI4KA,downstream_gene_variant,,ENST00000475414,;"	"A"	"ENSG00000241973"	"ENST00000255882"	"Transcript"	"intron_variant"	"-/6752"	"-/6309"	"-/2102"	""	""	""	"1"	NA	-1	"PI4KA"	"HGNC"	8983	"protein_coding"	"YES"	"CCDS33603.2"	"ENSP00000255882"	""	"Q4LE69,J3KN10,C9JLI1"	"UPI0000E06BD6"	"NM_058004.3"	""	""	""	"30/54"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"10f1ec90-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"9220"	"PI4KA"	5297	"mskcc.org"	"GRCh37"	"22"	21203765	21203765	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"rs754385423"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.156+9093A>G"	""	""	"ENST00000255882"	""	126	"105"	21	69	"69"	0	"PI4KA,intron_variant,,ENST00000255882,NM_058004.3;PI4KA,intron_variant,,ENST00000572273,;PI4KA,intron_variant,,ENST00000449120,;PI4KA,intron_variant,,ENST00000485963,;"	"C"	"ENSG00000241973"	"ENST00000255882"	"Transcript"	"intron_variant"	"-/6752"	"-/6309"	"-/2102"	""	""	"rs754385423"	"1"	NA	-1	"PI4KA"	"HGNC"	8983	"protein_coding"	"YES"	"CCDS33603.2"	"ENSP00000255882"	""	"Q4LE69,J3KN10,C9JLI1"	"UPI0000E06BD6"	"NM_058004.3"	""	""	""	"1/54"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"10f1f596-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"9221"	"SNAP29"	9342	"mskcc.org"	"GRCh37"	"22"	21227156	21227156	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.434+2335T>C"	""	""	"ENST00000215730"	""	57	"48"	9	37	"37"	0	"SNAP29,intron_variant,,ENST00000215730,NM_004782.3;SNAP29,intron_variant,,ENST00000439214,;SNAP29,downstream_gene_variant,,ENST00000490458,;"	"C"	"ENSG00000099940"	"ENST00000215730"	"Transcript"	"intron_variant"	"-/4287"	"-/777"	"-/258"	""	""	""	"1"	NA	1	"SNAP29"	"HGNC"	11133	"protein_coding"	"YES"	"CCDS13784.1"	"ENSP00000215730"	"O95721"	"C9JAF7"	"UPI0000135B00"	"NM_004782.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"10f1f820-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"9222"	"SNAP29"	9342	"mskcc.org"	"GRCh37"	"22"	21227157	21227157	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.434+2336G>A"	""	""	"ENST00000215730"	""	56	"48"	8	38	"38"	0	"SNAP29,intron_variant,,ENST00000215730,NM_004782.3;SNAP29,intron_variant,,ENST00000439214,;SNAP29,downstream_gene_variant,,ENST00000490458,;"	"A"	"ENSG00000099940"	"ENST00000215730"	"Transcript"	"intron_variant"	"-/4287"	"-/777"	"-/258"	""	""	""	"1"	NA	1	"SNAP29"	"HGNC"	11133	"protein_coding"	"YES"	"CCDS13784.1"	"ENSP00000215730"	"O95721"	"C9JAF7"	"UPI0000135B00"	"NM_004782.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"10f1f8c0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"9223"	"AP000345.4"	0	"mskcc.org"	"GRCh37"	"22"	23851460	23851460	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000432249"	""	50	"43"	7	24	"24"	0	"AP000345.4,downstream_gene_variant,,ENST00000432249,;"	"A"	"ENSG00000225413"	"ENST00000432249"	"Transcript"	"downstream_gene_variant"	"-/477"	""	""	""	""	""	"1"	"3221"	-1	"AP000345.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"10f3c222-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.14	"WGS"	FALSE
"9224"	"KIAA1671"	85379	"mskcc.org"	"GRCh37"	"22"	25375226	25375226	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-345+26487G>T"	""	""	"ENST00000406486"	""	89	"80"	9	52	"52"	0	"KIAA1671,intron_variant,,ENST00000406486,;"	"T"	"ENSG00000197077"	"ENST00000406486"	"Transcript"	"intron_variant"	"-/7864"	"-/5421"	"-/1806"	""	""	""	"1"	NA	1	"KIAA1671"	"HGNC"	29345	"protein_coding"	""	"CCDS46676.1"	"ENSP00000385152"	"Q9BY89"	""	"UPI00002073DC"	""	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"10f495e4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101123595505618	"WGS"	FALSE
"9225"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	25705725	25705725	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"rs182082070"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"74"	15	36	"36"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs182082070"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"10f4b3b2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168539325842697	"WGS"	FALSE
"9226"	"CRYBB2P1"	1416	"mskcc.org"	"GRCh37"	"22"	25859034	25859034	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.366+3552C>A"	""	""	"ENST00000354451"	""	92	"71"	21	47	"47"	0	"CRYBB2P1,intron_variant,,ENST00000354451,;CRYBB2P1,intron_variant,,ENST00000509460,;CRYBB2P1,downstream_gene_variant,,ENST00000609084,;CRYBB2P1,downstream_gene_variant,,ENST00000382734,;CRYBB2P1,downstream_gene_variant,,ENST00000415709,;"	"A"	"ENSG00000100058"	"ENST00000354451"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1560"	""	""	""	""	""	"1"	NA	1	"CRYBB2P1"	"HGNC"	2399	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"10f4c1e0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228260869565217	"WGS"	FALSE
"9227"	"MYO18B"	84700	"mskcc.org"	"GRCh37"	"22"	26351782	26351782	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6156+452C>A"	""	""	"ENST00000335473"	""	76	"66"	10	59	"59"	0	"MYO18B,intron_variant,,ENST00000335473,NM_032608.5;MYO18B,intron_variant,,ENST00000407587,;MYO18B,intron_variant,,ENST00000536101,;MYO18B,intron_variant,,ENST00000543971,;CTA-125H2.1,downstream_gene_variant,,ENST00000436423,;MYO18B,intron_variant,,ENST00000539544,;MYO18B,intron_variant,,ENST00000539302,;MYO18B,intron_variant,,ENST00000418374,;"	"A"	"ENSG00000133454"	"ENST00000335473"	"Transcript"	"intron_variant"	"-/8565"	"-/7704"	"-/2567"	""	""	""	"1"	NA	1	"MYO18B"	"HGNC"	18150	"protein_coding"	"YES"	"CCDS54507.1"	"ENSP00000334563"	""	"Q8N903"	"UPI0000207402"	"NM_032608.5"	""	""	""	"39/43"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"10f4e9ea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WGS"	FALSE
"9228"	"PITPNB"	23760	"mskcc.org"	"GRCh37"	"22"	28319061	28319061	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000335272"	""	66	"58"	8	39	"39"	0	"PITPNB,upstream_gene_variant,,ENST00000335272,NM_012399.3;PITPNB,upstream_gene_variant,,ENST00000455418,NM_001284278.1;PITPNB,upstream_gene_variant,,ENST00000320996,NM_001284277.1;PITPNB,upstream_gene_variant,,ENST00000415296,;PITPNB,upstream_gene_variant,,ENST00000436663,;MIR3199-2,upstream_gene_variant,,ENST00000582434,;TTC28-AS1,intron_variant,,ENST00000454741,;TTC28-AS1,intron_variant,,ENST00000434221,;TTC28-AS1,intron_variant,,ENST00000437713,;TTC28-AS1,intron_variant,,ENST00000419253,;TTC28-AS1,intron_variant,,ENST00000454996,;TTC28-AS1,intron_variant,,ENST00000425112,;TTC28-AS1,intron_variant,,ENST00000452612,;TTC28-AS1,intron_variant,,ENST00000428818,;TTC28-AS1,intron_variant,,ENST00000435348,;TTC28-AS1,intron_variant,,ENST00000430853,;TTC28-AS1,intron_variant,,ENST00000453632,;TTC28-AS1,intron_variant,,ENST00000424161,;TTC28-AS1,intron_variant,,ENST00000430525,;TTC28-AS1,downstream_gene_variant,,ENST00000417381,;PITPNB,upstream_gene_variant,,ENST00000471825,;TTC28-AS1,downstream_gene_variant,,ENST00000436996,;PITPNB,upstream_gene_variant,,ENST00000460566,;TTC28-AS1,downstream_gene_variant,,ENST00000428858,;"	"C"	"ENSG00000180957"	"ENST00000335272"	"Transcript"	"upstream_gene_variant"	"-/2926"	"-/816"	"-/271"	""	""	""	"1"	"3805"	-1	"PITPNB"	"HGNC"	9002	"protein_coding"	"YES"	"CCDS13842.1"	"ENSP00000334738"	"P48739"	"B3KYB6"	"UPI0000043C3A"	"NM_012399.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"10f552cc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"9229"	"TTC28"	23331	"mskcc.org"	"GRCh37"	"22"	29040778	29040778	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103-14960A>G"	""	""	"ENST00000397906"	""	82	"76"	6	53	"53"	0	"TTC28,intron_variant,,ENST00000397906,NM_001145418.1;RN7SL162P,upstream_gene_variant,,ENST00000579233,;TTC28,intron_variant,,ENST00000468807,;"	"C"	"ENSG00000100154"	"ENST00000397906"	"Transcript"	"intron_variant"	"-/11793"	"-/7446"	"-/2481"	""	""	""	"1"	NA	-1	"TTC28"	"HGNC"	29179	"protein_coding"	"YES"	"CCDS46678.1"	"ENSP00000381003"	"Q96AY4"	""	"UPI00003E58F8"	"NM_001145418.1"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"10f567f8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"9230"	"CHEK2"	11200	"mskcc.org"	"GRCh37"	"22"	29135245	29135245	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-7+2512G>A"	""	""	"ENST00000328354"	""	94	"78"	16	51	"51"	0	"CHEK2,intron_variant,,ENST00000544772,NM_001257387.1;CHEK2,intron_variant,,ENST00000382580,NM_001005735.1;CHEK2,intron_variant,,ENST00000405598,;CHEK2,intron_variant,,ENST00000328354,NM_007194.3;CHEK2,intron_variant,,ENST00000382566,;CHEK2,intron_variant,,ENST00000348295,NM_145862.2;CHEK2,intron_variant,,ENST00000382578,;CHEK2,intron_variant,,ENST00000439200,;CHEK2,intron_variant,,ENST00000425190,;CHEK2,intron_variant,,ENST00000382565,;CHEK2,intron_variant,,ENST00000398017,;CHEK2,upstream_gene_variant,,ENST00000404276,;CHEK2,upstream_gene_variant,,ENST00000402731,;CHEK2,upstream_gene_variant,,ENST00000403642,;HSCB,upstream_gene_variant,,ENST00000216027,NM_172002.3;HSCB,upstream_gene_variant,,ENST00000398941,;CHEK2,upstream_gene_variant,,ENST00000447421,;HSCB,upstream_gene_variant,,ENST00000495977,;HSCB,upstream_gene_variant,,ENST00000485599,;HSCB,upstream_gene_variant,,ENST00000483861,;CHEK2,intron_variant,,ENST00000416671,;CHEK2,intron_variant,,ENST00000433028,;CHEK2,upstream_gene_variant,,ENST00000433728,;CHEK2,upstream_gene_variant,,ENST00000417588,;CHEK2,upstream_gene_variant,,ENST00000448511,;HSCB,upstream_gene_variant,,ENST00000450178,;HSCB,upstream_gene_variant,,ENST00000420442,;"	"T"	"ENSG00000183765"	"ENST00000328354"	"Transcript"	"intron_variant"	"-/1867"	"-/1632"	"-/543"	""	""	""	"1"	NA	-1	"CHEK2"	"HGNC"	16627	"protein_coding"	""	"CCDS13843.1"	"ENSP00000329178"	"O96017"	"B7ZBF2"	"UPI00000316FF"	"NM_007194.3"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"10f5786a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170212765957447	"WGS"	TRUE
"9231"	"ZNRF3"	84133	"mskcc.org"	"GRCh37"	"22"	29450123	29450123	"+"	"3'UTR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*513T>A"	""	""	"ENST00000544604"	"9/9"	89	"66"	23	56	"56"	0	"ZNRF3,3_prime_UTR_variant,,ENST00000544604,NM_001206998.1;ZNRF3,3_prime_UTR_variant,,ENST00000332811,;ZNRF3,downstream_gene_variant,,ENST00000406323,;ZNRF3,downstream_gene_variant,,ENST00000402174,NM_032173.3;C22orf31,downstream_gene_variant,,ENST00000216071,NM_015370.1;"	"A"	"ENSG00000183579"	"ENST00000544604"	"Transcript"	"3_prime_UTR_variant"	"3499/6851"	"-/2811"	"-/936"	""	""	""	"1"	NA	1	"ZNRF3"	"HGNC"	18126	"protein_coding"	"YES"	"CCDS56225.1"	"ENSP00000443824"	"Q9ULT6"	""	"UPI0000EE5944"	"NM_001206998.1"	""	""	"9/9"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"10f58cba-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258426966292135	"WGS"	FALSE
"9232"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	31076820	31076820	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"96"	11	39	"39"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"10f62224-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102803738317757	"WGS"	FALSE
"9233"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	31076824	31076824	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"94"	14	40	"40"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"10f622d8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12962962962963	"WGS"	FALSE
"9234"	"SELM"	140606	"mskcc.org"	"GRCh37"	"22"	31507742	31507742	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-231-3870C>G"	""	""	"ENST00000402395"	""	81	"75"	6	45	"45"	0	"SELM,intron_variant,,ENST00000402395,;SELM,upstream_gene_variant,,ENST00000400299,NM_080430.2;SELM,upstream_gene_variant,,ENST00000465536,;SELM,upstream_gene_variant,,ENST00000491958,;SELM,upstream_gene_variant,,ENST00000460642,;SELM,upstream_gene_variant,,ENST00000490967,;SELM,upstream_gene_variant,,ENST00000465447,;SELM,upstream_gene_variant,,ENST00000469262,;RP3-412A9.12,upstream_gene_variant,,ENST00000420779,;"	"C"	"ENSG00000198832"	"ENST00000402395"	"Transcript"	"intron_variant"	"-/1054"	"-/438"	"-/145"	""	""	""	"1"	NA	-1	"SELM"	"Uniprot_gn"	NA	"protein_coding"	"YES"	"CCDS43003.1"	"ENSP00000384564"	"Q8WWX9"	""	"UPI000016788A"	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"10f638ea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"9235"	"EIF4ENIF1"	56478	"mskcc.org"	"GRCh37"	"22"	31878875	31878875	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.96+5734T>A"	""	""	"ENST00000397525"	""	65	"59"	6	33	"33"	0	"EIF4ENIF1,intron_variant,,ENST00000397525,NM_001164501.1;EIF4ENIF1,intron_variant,,ENST00000330125,NM_019843.3;EIF4ENIF1,intron_variant,,ENST00000397523,;EIF4ENIF1,intron_variant,,ENST00000344710,NM_001164502.1;EIF4ENIF1,intron_variant,,ENST00000423097,;EIF4ENIF1,intron_variant,,ENST00000397520,;EIF4ENIF1,intron_variant,,ENST00000397518,;RNU6-28P,upstream_gene_variant,,ENST00000362378,NR_046489.1;DRG1,intron_variant,,ENST00000548143,;"	"T"	"ENSG00000184708"	"ENST00000397525"	"Transcript"	"intron_variant"	"-/3695"	"-/2958"	"-/985"	""	""	""	"1"	NA	-1	"EIF4ENIF1"	"HGNC"	16687	"protein_coding"	"YES"	"CCDS13898.1"	"ENSP00000380659"	"Q9NRA8"	"B1AKL6,B1AKL5"	"UPI0000124F14"	"NM_001164501.1"	""	""	""	"2/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"10f65af0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"9236"	"SFI1"	9814	"mskcc.org"	"GRCh37"	"22"	32008117	32008117	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2490+291C>G"	""	""	"ENST00000400288"	""	87	"81"	6	51	"51"	0	"SFI1,intron_variant,,ENST00000432498,NM_014775.3;SFI1,intron_variant,,ENST00000540643,NM_001258325.1;SFI1,intron_variant,,ENST00000443326,NM_001258326.1,NM_001258327.1;SFI1,intron_variant,,ENST00000400288,NM_001007467.2;SFI1,intron_variant,,ENST00000414585,;SFI1,intron_variant,,ENST00000400289,;SFI1,intron_variant,,ENST00000443011,;SFI1,intron_variant,,ENST00000417682,;SFI1,non_coding_transcript_exon_variant,,ENST00000463436,;SFI1,upstream_gene_variant,,ENST00000474741,;SFI1,downstream_gene_variant,,ENST00000466991,;SFI1,intron_variant,,ENST00000382162,;SFI1,intron_variant,,ENST00000452250,;SFI1,intron_variant,,ENST00000524296,;SFI1,upstream_gene_variant,,ENST00000464333,;SFI1,upstream_gene_variant,,ENST00000476577,;SFI1,upstream_gene_variant,,ENST00000357852,;SFI1,upstream_gene_variant,,ENST00000495107,;SFI1,downstream_gene_variant,,ENST00000491973,;"	"G"	"ENSG00000198089"	"ENST00000400288"	"Transcript"	"intron_variant"	"-/4002"	"-/3729"	"-/1242"	""	""	""	"1"	NA	1	"SFI1"	"HGNC"	29064	"protein_coding"	"YES"	"CCDS43004.1"	"ENSP00000383145"	"A8K8P3"	""	"UPI00004703B1"	"NM_001007467.2"	""	""	""	"24/32"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"10f66c70-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"9237"	"DEPDC5"	9681	"mskcc.org"	"GRCh37"	"22"	32282879	32282879	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4007-6689A>T"	""	""	"ENST00000382112"	""	81	"76"	5	48	"48"	0	"DEPDC5,intron_variant,,ENST00000400246,;DEPDC5,intron_variant,,ENST00000266091,;DEPDC5,intron_variant,,ENST00000400249,NM_014662.3;DEPDC5,intron_variant,,ENST00000382112,NM_001136029.2,NM_001242896.1;DEPDC5,intron_variant,,ENST00000400248,;DEPDC5,intron_variant,,ENST00000382111,;DEPDC5,intron_variant,,ENST00000382105,;DEPDC5,intron_variant,,ENST00000535622,NM_001242897.1;DEPDC5,intron_variant,,ENST00000433147,;DEPDC5,intron_variant,,ENST00000539165,;DEPDC5,intron_variant,,ENST00000448753,;RP1-180M12.1,downstream_gene_variant,,ENST00000454534,;"	"T"	"ENSG00000100150"	"ENST00000382112"	"Transcript"	"intron_variant"	"-/5363"	"-/4785"	"-/1594"	""	""	""	"1"	NA	1	"DEPDC5"	"HGNC"	18423	"protein_coding"	"YES"	"CCDS46692.1"	"ENSP00000371546"	"O75140"	"C9JGS4,B4DGG3"	"UPI00004708D5"	"NM_001136029.2,NM_001242896.1"	""	""	""	"37/41"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAC"	"10f680d4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"9238"	"AP1B1P1"	23782	"mskcc.org"	"GRCh37"	"22"	32527247	32527247	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.283-961A>T"	""	""	"ENST00000432373"	""	93	"87"	6	55	"55"	0	"AP1B1P1,intron_variant,,ENST00000432373,;RP1-127L4.10,downstream_gene_variant,,ENST00000423412,;AP1B1P1,upstream_gene_variant,,ENST00000448124,;AP1B1P2,upstream_gene_variant,,ENST00000416196,;"	"T"	"ENSG00000234479"	"ENST00000432373"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/827"	""	""	""	""	""	"1"	NA	1	"AP1B1P1"	"HGNC"	297	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"10f699e8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"9239"	"SYN3"	8224	"mskcc.org"	"GRCh37"	"22"	33456937	33456937	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000358763"	""	74	"65"	9	47	"47"	0	"SYN3,upstream_gene_variant,,ENST00000358763,NM_001135774.1;SYN3,upstream_gene_variant,,ENST00000441821,;"	"A"	"ENSG00000185666"	"ENST00000358763"	"Transcript"	"upstream_gene_variant"	"-/3126"	"-/1743"	"-/580"	""	""	""	"1"	"2579"	-1	"SYN3"	"HGNC"	11496	"protein_coding"	"YES"	"CCDS13908.1"	"ENSP00000351614"	"O14994"	"Q4TT46,Q17R54,A6ZJ82"	"UPI00001365D3"	"NM_001135774.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"10f709c8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121621621621622	"WGS"	FALSE
"9240"	"FOXRED2"	80020	"mskcc.org"	"GRCh37"	"22"	36884426	36884426	"+"	"3'UTR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1629A>G"	""	""	"ENST00000397224"	"9/9"	70	"62"	8	35	"35"	0	"FOXRED2,3_prime_UTR_variant,,ENST00000397224,NM_001102371.1;FOXRED2,3_prime_UTR_variant,,ENST00000216187,NM_024955.5;FOXRED2,downstream_gene_variant,,ENST00000366463,;FOXRED2,downstream_gene_variant,,ENST00000397223,;"	"C"	"ENSG00000100350"	"ENST00000397224"	"Transcript"	"3_prime_UTR_variant"	"3778/4967"	"-/2055"	"-/684"	""	""	""	"1"	NA	-1	"FOXRED2"	"HGNC"	26264	"protein_coding"	"YES"	"CCDS13929.1"	"ENSP00000380401"	"Q8IWF2"	"B0QYA2,A8MUR8"	"UPI00000744FA"	"NM_001102371.1"	""	""	"9/9"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"10f8d6fe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"9241"	"TEX33"	339669	"mskcc.org"	"GRCh37"	"22"	37394295	37394295	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.634+1586C>A"	""	""	"ENST00000405091"	""	75	"59"	16	54	"54"	0	"TEX33,intron_variant,,ENST00000405091,;TEX33,intron_variant,,ENST00000402860,NM_178552.3,NM_001163857.1;TEX33,intron_variant,,ENST00000381821,;TEX33,intron_variant,,ENST00000442538,;"	"T"	"ENSG00000185264"	"ENST00000405091"	"Transcript"	"intron_variant"	"-/1149"	"-/843"	"-/280"	""	""	""	"1"	NA	-1	"TEX33"	"HGNC"	28568	"protein_coding"	"YES"	"CCDS54524.1"	"ENSP00000386118"	"O43247"	""	"UPI000020767B"	""	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"10f940e4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213333333333333	"WGS"	FALSE
"9242"	"RP1-151B14.6"	0	"mskcc.org"	"GRCh37"	"22"	37565708	37565708	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.208+2704G>A"	""	""	"ENST00000419128"	""	84	"70"	14	46	"46"	0	"IL2RB,intron_variant,,ENST00000453962,;IL2RB,intron_variant,,ENST00000445595,;IL2RB,intron_variant,,ENST00000429622,;RP1-151B14.6,intron_variant,,ENST00000419128,;IL2RB,intron_variant,,ENST00000461607,;"	"A"	"ENSG00000235237"	"ENST00000419128"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/630"	""	""	""	""	""	"1"	NA	1	"RP1-151B14.6"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"10f967ea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"9243"	"C1QTNF6"	114904	"mskcc.org"	"GRCh37"	"22"	37589035	37589035	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000337843"	""	87	"71"	16	46	"46"	0	"C1QTNF6,upstream_gene_variant,,ENST00000337843,NM_031910.3;C1QTNF6,upstream_gene_variant,,ENST00000397110,NM_182486.1;C1QTNF6,intron_variant,,ENST00000470655,;C1QTNF6,intron_variant,,ENST00000497071,;C1QTNF6,intron_variant,,ENST00000467564,;C1QTNF6,upstream_gene_variant,,ENST00000434784,;"	"A"	"ENSG00000133466"	"ENST00000337843"	"Transcript"	"upstream_gene_variant"	"-/2934"	"-/837"	"-/278"	""	""	""	"1"	"4706"	-1	"C1QTNF6"	"HGNC"	14343	"protein_coding"	"YES"	"CCDS13943.1"	"ENSP00000338812"	"Q9BXI9"	""	"UPI0000035BB4"	"NM_031910.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"10f969d4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.183908045977011	"WGS"	FALSE
"9244"	"CYTH4"	27128	"mskcc.org"	"GRCh37"	"22"	37681502	37681502	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.19+2873T>A"	""	""	"ENST00000248901"	""	100	"84"	16	57	"57"	0	"CYTH4,intron_variant,,ENST00000248901,NM_013385.3;CYTH4,intron_variant,,ENST00000457992,;CYTH4,intron_variant,,ENST00000405206,;CYTH4,intron_variant,,ENST00000402997,;CYTH4,intron_variant,,ENST00000439667,;CYTH4,intron_variant,,ENST00000462927,;CYTH4,intron_variant,,ENST00000469886,;CYTH4,intron_variant,,ENST00000480510,;"	"A"	"ENSG00000100055"	"ENST00000248901"	"Transcript"	"intron_variant"	"-/3202"	"-/1185"	"-/394"	""	""	""	"1"	NA	1	"CYTH4"	"HGNC"	9505	"protein_coding"	"YES"	"CCDS13946.1"	"ENSP00000248901"	"Q9UIA0"	"Q8WWE8,B4E2V8,B1AHH4"	"UPI000000D99D"	"NM_013385.3"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"10f971f4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WGS"	FALSE
"9245"	"CARD10"	29775	"mskcc.org"	"GRCh37"	"22"	37906182	37906182	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.909+37G>C"	""	""	"ENST00000403299"	""	66	"61"	5	43	"43"	0	"CARD10,intron_variant,,ENST00000403299,;CARD10,intron_variant,,ENST00000251973,NM_014550.3;CARD10,intron_variant,,ENST00000437756,;CARD10,upstream_gene_variant,,ENST00000406271,;CARD10,intron_variant,,ENST00000494166,;CARD10,intron_variant,,ENST00000476871,;"	"G"	"ENSG00000100065"	"ENST00000403299"	"Transcript"	"intron_variant"	"-/4113"	"-/3099"	"-/1032"	""	""	""	"1"	NA	-1	"CARD10"	"HGNC"	16422	"protein_coding"	"YES"	"CCDS13948.1"	"ENSP00000384570"	"Q9BWT7"	"Q17RA1,B7Z3N7,B0QYC4"	"UPI0000044645"	""	""	""	""	"5/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	"1.886e-05"	"0"	"0"	"0"	"0"	"1.924e-05"	"0"	"6.541e-05"	NA	"PASS"	"ACC"	"10f9967a-deaf-11e6-a4db-9a8e424a729f"	"."	1.987e-05	"2/100652"	"2/106058"	"0/7994"	"0/11014"	"0/7662"	"0/6080"	"1/51966"	"0/648"	"1/15288"	"VQSRTrancheINDEL99.00to99.50"	"FALSE"	0.0757575757575758	"WGS"	FALSE
"9246"	"CBY1"	25776	"mskcc.org"	"GRCh37"	"22"	39061986	39061986	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-39+296A>C"	""	""	"ENST00000396811"	""	112	"86"	26	50	"50"	0	"CBY1,intron_variant,,ENST00000396811,NM_001002880.1;CBY1,intron_variant,,ENST00000216029,NM_015373.3;CBY1,intron_variant,,ENST00000416285,;CBY1,intron_variant,,ENST00000411557,;RP3-508I15.9,downstream_gene_variant,,ENST00000444381,;RP3-508I15.9,downstream_gene_variant,,ENST00000422408,;RP3-508I15.9,downstream_gene_variant,,ENST00000431924,;RP3-508I15.10,downstream_gene_variant,,ENST00000423346,;CBY1,intron_variant,,ENST00000489847,;CBY1,intron_variant,,ENST00000492576,;CBY1,intron_variant,,ENST00000485501,;CBY1,intron_variant,,ENST00000475924,;CBY1,intron_variant,,ENST00000492537,;CBY1,upstream_gene_variant,,ENST00000467118,;"	"C"	"ENSG00000100211"	"ENST00000396811"	"Transcript"	"intron_variant"	"-/1269"	"-/381"	"-/126"	""	""	""	"1"	NA	1	"CBY1"	"HGNC"	1307	"protein_coding"	"YES"	"CCDS13974.1"	"ENSP00000380026"	"Q9Y3M2"	"B0QY54,B0QY53"	"UPI0000128720"	"NM_001002880.1"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"10fab870-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232142857142857	"WGS"	FALSE
"9247"	"CACNA1I"	8911	"mskcc.org"	"GRCh37"	"22"	40037656	40037656	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1056+469A>T"	""	""	"ENST00000402142"	""	98	"81"	17	62	"62"	0	"CACNA1I,intron_variant,,ENST00000336649,;CACNA1I,intron_variant,,ENST00000402142,NM_021096.3;CACNA1I,intron_variant,,ENST00000400164,;CACNA1I,intron_variant,,ENST00000404898,NM_001003406.1;CACNA1I,intron_variant,,ENST00000401624,;CACNA1I,intron_variant,,ENST00000407673,;CACNA1I,upstream_gene_variant,,ENST00000471970,;"	"T"	"ENSG00000100346"	"ENST00000402142"	"Transcript"	"intron_variant"	"-/10004"	"-/6672"	"-/2223"	""	""	""	"1"	NA	1	"CACNA1I"	"HGNC"	1396	"protein_coding"	"YES"	"CCDS46710.1"	"ENSP00000385019"	"Q9P0X4"	""	"UPI000012727D"	"NM_021096.3"	""	""	""	"6/36"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"10fba532-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173469387755102	"WGS"	FALSE
"9248"	"TNRC6B"	23112	"mskcc.org"	"GRCh37"	"22"	40629072	40629072	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6-12947C>A"	""	""	"ENST00000454349"	""	92	"86"	6	55	"55"	0	"TNRC6B,intron_variant,,ENST00000454349,NM_001162501.1;TNRC6B,intron_variant,,ENST00000335727,NM_015088.2;TNRC6B,intron_variant,,ENST00000301923,NM_001024843.1;TNRC6B,intron_variant,,ENST00000402203,;TNRC6B,intron_variant,,ENST00000489500,;"	"A"	"ENSG00000100354"	"ENST00000454349"	"Transcript"	"intron_variant"	"-/18279"	"-/5502"	"-/1833"	""	""	""	"1"	NA	1	"TNRC6B"	"HGNC"	29190	"protein_coding"	"YES"	"CCDS54533.1"	"ENSP00000401946"	"Q9UPQ9"	""	"UPI00017A6F19"	"NM_001162501.1"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"10fbf55a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"9249"	"MEI1"	150365	"mskcc.org"	"GRCh37"	"22"	42147737	42147737	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1793-858T>C"	""	""	"ENST00000401548"	""	67	"58"	9	41	"41"	0	"MEI1,intron_variant,,ENST00000401548,NM_152513.3;MEI1,intron_variant,,ENST00000400107,;MEI1,intron_variant,,ENST00000300398,;MEI1,intron_variant,,ENST00000540833,;MEI1,upstream_gene_variant,,ENST00000540880,;Y_RNA,downstream_gene_variant,,ENST00000384086,;MEI1,upstream_gene_variant,,ENST00000482055,;MEI1,upstream_gene_variant,,ENST00000492484,;MEI1,upstream_gene_variant,,ENST00000476614,;MEI1,upstream_gene_variant,,ENST00000460702,;"	"C"	"ENSG00000167077"	"ENST00000401548"	"Transcript"	"intron_variant"	"-/4020"	"-/3825"	"-/1274"	""	""	""	"1"	NA	1	"MEI1"	"HGNC"	28613	"protein_coding"	"YES"	"CCDS46718.1"	"ENSP00000384115"	"Q5TIA1"	""	"UPI00006E232C"	"NM_152513.3"	""	""	""	"15/30"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"10fd5396-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134328358208955	"WGS"	FALSE
"9250"	"LINC00634"	339674	"mskcc.org"	"GRCh37"	"22"	42350241	42350241	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.248+1816T>C"	""	""	"ENST00000381348"	""	61	"55"	6	29	"29"	0	"LINC00634,intron_variant,,ENST00000381348,;LINC00634,intron_variant,,ENST00000505157,;LINC00634,upstream_gene_variant,,ENST00000522737,;"	"C"	"ENSG00000205704"	"ENST00000381348"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1510"	""	""	""	""	""	"1"	NA	1	"LINC00634"	"HGNC"	27930	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"10fd6af2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0983606557377049	"WGS"	FALSE
"9251"	"SERHL2"	253190	"mskcc.org"	"GRCh37"	"22"	42965995	42965995	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.649-1132C>G"	""	""	"ENST00000327678"	""	96	"72"	24	50	"50"	0	"SERHL2,intron_variant,,ENST00000327678,NM_014509.3;SERHL2,intron_variant,,ENST00000340239,;SERHL2,intron_variant,,ENST00000335879,NM_001284334.1;SERHL2,intron_variant,,ENST00000407614,;RNU6-513P,upstream_gene_variant,,ENST00000516104,;RN7SKP80,upstream_gene_variant,,ENST00000365188,;RRP7B,non_coding_transcript_exon_variant,,ENST00000437211,;RRP7B,intron_variant,,ENST00000357802,;RRP7B,downstream_gene_variant,,ENST00000458605,;SERHL2,intron_variant,,ENST00000477564,;SERHL2,intron_variant,,ENST00000527167,;SERHL2,intron_variant,,ENST00000416156,;SERHL2,intron_variant,,ENST00000534080,;RRP7B,downstream_gene_variant,,ENST00000566851,;"	"G"	"ENSG00000183569"	"ENST00000327678"	"Transcript"	"intron_variant"	"-/1374"	"-/945"	"-/314"	""	""	""	"1"	NA	1	"SERHL2"	"HGNC"	29446	"protein_coding"	"YES"	"CCDS14037.1"	"ENSP00000331376"	"Q9H4I8"	"E9PMQ2"	"UPI0000135810"	"NM_014509.3"	""	""	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"10fdb048-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"9252"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	43418266	43418266	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	64	"58"	6	31	"31"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"10fde374-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"9253"	"RP1-102D24.5"	0	"mskcc.org"	"GRCh37"	"22"	45847608	45847608	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000454439"	""	94	"76"	18	49	"49"	0	"RP1-102D24.5,upstream_gene_variant,,ENST00000454439,;"	"T"	"ENSG00000232363"	"ENST00000454439"	"Transcript"	"upstream_gene_variant"	"-/545"	""	""	""	""	""	"1"	"2984"	-1	"RP1-102D24.5"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"10ff1d7a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191489361702128	"WGS"	FALSE
"9254"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	46034283	46034283	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"86"	7	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"10ff2fb8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"9255"	"RP11-191L9.4"	284930	"mskcc.org"	"GRCh37"	"22"	48176246	48176246	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs116105780"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1125+41921G>A"	""	""	"ENST00000423737"	""	82	"66"	16	60	"60"	0	"RP11-191L9.4,intron_variant,,ENST00000423737,;"	"A"	"ENSG00000224271"	"ENST00000423737"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1815"	""	""	""	""	"rs116105780"	"1"	NA	1	"RP11-191L9.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"8/8"	""	"A:0.0084"	"A:0.0287"	"A:0.0058"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"11000762-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195121951219512	"WGS"	FALSE
"9256"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	48822886	48822886	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs546440318"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"85"	12	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs546440318"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"11003fc0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123711340206186	"WGS"	FALSE
"9257"	"ALG12"	79087	"mskcc.org"	"GRCh37"	"22"	50291442	50291442	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000330817"	""	66	"59"	7	34	"34"	0	"ALG12,downstream_gene_variant,,ENST00000330817,NM_024105.3;CITF22-1A6.3,upstream_gene_variant,,ENST00000610245,;"	"T"	"ENSG00000182858"	"ENST00000330817"	"Transcript"	"downstream_gene_variant"	"-/5350"	"-/1467"	"-/488"	""	""	""	"1"	"2435"	-1	"ALG12"	"HGNC"	19358	"protein_coding"	"YES"	"CCDS14081.1"	"ENSP00000333813"	"Q9BV10"	""	"UPI000006D8F9"	"NM_024105.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"1101554a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106060606060606	"WGS"	FALSE
"9258"	"CNTN4"	152330	"mskcc.org"	"GRCh37"	"3"	2349691	2349691	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-144-31171G>A"	""	""	"ENST00000397461"	""	104	"96"	8	50	"50"	0	"CNTN4,intron_variant,,ENST00000397461,NM_001206955.1;CNTN4,intron_variant,,ENST00000418658,NM_175607.2;CNTN4,intron_variant,,ENST00000422330,;CNTN4,intron_variant,,ENST00000455083,;CNTN4,intron_variant,,ENST00000427741,;"	"A"	"ENSG00000144619"	"ENST00000397461"	"Transcript"	"intron_variant"	"-/5198"	"-/3081"	"-/1026"	""	""	""	"1"	NA	1	"CNTN4"	"HGNC"	2174	"protein_coding"	"YES"	"CCDS43041.1"	"ENSP00000380602"	"Q8IWV2"	"G3XAD4,C9JMQ2,C9JGK9"	"UPI000007446C"	"NM_001206955.1"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"1104ff42-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"9259"	"PNPT1P1"	0	"mskcc.org"	"GRCh37"	"3"	4028310	4028310	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000450418"	""	91	"85"	6	55	"55"	0	"SUMF1,intron_variant,,ENST00000534863,;SUMF1,intron_variant,,ENST00000448413,;PNPT1P1,upstream_gene_variant,,ENST00000450418,;"	"C"	"ENSG00000229241"	"ENST00000450418"	"Transcript"	"upstream_gene_variant"	"-/2315"	""	""	""	""	""	"1"	"2331"	-1	"PNPT1P1"	"HGNC"	44468	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"11054e98-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"9260"	"LMCD1-AS1"	101927394	"mskcc.org"	"GRCh37"	"3"	8110337	8110337	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs776480493"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.515-76348G>A"	""	""	"ENST00000446281"	""	102	"84"	18	74	"74"	0	"LMCD1-AS1,intron_variant,,ENST00000446281,;"	"T"	"ENSG00000227110"	"ENST00000446281"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/932"	""	""	""	""	"rs776480493"	"1"	NA	-1	"LMCD1-AS1"	"HGNC"	44477	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"1105fe9c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"9261"	"LMCD1-AS1"	101927394	"mskcc.org"	"GRCh37"	"3"	8254448	8254448	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.563-17688G>A"	""	""	"ENST00000452802"	""	106	"83"	23	59	"59"	0	"LMCD1-AS1,intron_variant,,ENST00000452802,;LMCD1-AS1,intron_variant,,ENST00000446281,;"	"T"	"ENSG00000227110"	"ENST00000452802"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1387"	""	""	""	""	""	"1"	NA	-1	"LMCD1-AS1"	"HGNC"	44477	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"11060748-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216981132075472	"WGS"	FALSE
"9262"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	9677324	9677324	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs557495194"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"73"	6	36	"36"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs557495194"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"110674da-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"9263"	"IRAK2"	3656	"mskcc.org"	"GRCh37"	"3"	10214273	10214273	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.95-5249C>T"	""	""	"ENST00000256458"	""	54	"47"	7	30	"30"	0	"IRAK2,intron_variant,,ENST00000256458,NM_001570.3;"	"T"	"ENSG00000134070"	"ENST00000256458"	"Transcript"	"intron_variant"	"-/3483"	"-/1878"	"-/625"	""	""	""	"1"	NA	1	"IRAK2"	"HGNC"	6113	"protein_coding"	"YES"	"CCDS33697.1"	"ENSP00000256458"	"O43187"	""	"UPI000020AB17"	"NM_001570.3"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"1106aa5e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12962962962963	"WGS"	FALSE
"9264"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	13281932	13281932	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"74"	16	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"11076ab6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177777777777778	"WGS"	FALSE
"9265"	"EAF1"	85403	"mskcc.org"	"GRCh37"	"3"	15474053	15474053	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.335+323T>C"	""	""	"ENST00000396842"	""	102	"80"	22	61	"61"	0	"EAF1,intron_variant,,ENST00000396842,NM_033083.6;EAF1,intron_variant,,ENST00000432764,;METTL6,intron_variant,,ENST00000598878,;RNU6-1024P,downstream_gene_variant,,ENST00000384199,;EAF1-AS1,downstream_gene_variant,,ENST00000597949,;EAF1,intron_variant,,ENST00000449565,;"	"C"	"ENSG00000144597"	"ENST00000396842"	"Transcript"	"intron_variant"	"-/4690"	"-/807"	"-/268"	""	""	""	"1"	NA	1	"EAF1"	"HGNC"	20907	"protein_coding"	"YES"	"CCDS2626.1"	"ENSP00000380054"	"Q96JC9"	""	"UPI000004B29F"	"NM_033083.6"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"1107e2b6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215686274509804	"WGS"	FALSE
"9266"	"KCNH8"	131096	"mskcc.org"	"GRCh37"	"3"	19330239	19330239	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.442+7418G>A"	""	""	"ENST00000328405"	""	86	"80"	6	65	"65"	0	"KCNH8,intron_variant,,ENST00000328405,NM_144633.2;KCNH8,intron_variant,,ENST00000452398,;"	"A"	"ENSG00000183960"	"ENST00000328405"	"Transcript"	"intron_variant"	"-/5137"	"-/3324"	"-/1107"	""	""	""	"1"	NA	1	"KCNH8"	"HGNC"	18864	"protein_coding"	"YES"	"CCDS2632.1"	"ENSP00000328813"	"Q96L42"	""	"UPI0000167D12"	"NM_144633.2"	""	""	""	"3/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"110866fa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"9267"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	21013244	21013244	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"84"	15	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"1108a2e6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151515151515152	"WGS"	FALSE
"9268"	"ZNF385D-AS2"	0	"mskcc.org"	"GRCh37"	"3"	22022149	22022149	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"rs565780007"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000436306"	""	78	"63"	15	48	"48"	0	"ZNF385D-AS2,downstream_gene_variant,,ENST00000436306,;ZNF385D,intron_variant,,ENST00000494118,;ZNF385D,intron_variant,,ENST00000494108,;ZNF385D,intron_variant,,ENST00000474607,;"	"A"	"ENSG00000223351"	"ENST00000436306"	"Transcript"	"downstream_gene_variant"	"-/424"	""	""	""	""	"rs565780007"	"1"	"829"	1	"ZNF385D-AS2"	"HGNC"	42420	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"A:0.0004"	"A:0.0008"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"1108c56e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WGS"	FALSE
"9269"	"ZNF385D"	79750	"mskcc.org"	"GRCh37"	"3"	22385825	22385825	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.183+28116G>C"	""	""	"ENST00000494118"	""	92	"80"	12	71	"71"	0	"ZNF385D,intron_variant,,ENST00000494118,;ZNF385D,intron_variant,,ENST00000494108,;ZNF385D,intron_variant,,ENST00000466511,;"	"G"	"ENSG00000151789"	"ENST00000494118"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1050"	""	""	""	""	""	"1"	NA	-1	"ZNF385D"	"HGNC"	26191	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"1108d414-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"9270"	"UBE2E1"	7324	"mskcc.org"	"GRCh37"	"3"	23847390	23847390	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000306627"	""	75	"69"	6	45	"45"	0	"UBE2E1,upstream_gene_variant,,ENST00000306627,NM_003341.4;UBE2E1,upstream_gene_variant,,ENST00000346855,NM_182666.2;UBE2E1,upstream_gene_variant,,ENST00000424381,NM_001202476.1;UBE2E1,upstream_gene_variant,,ENST00000442670,;UBE2E1,upstream_gene_variant,,ENST00000467766,;UBE2E1-AS1,intron_variant,,ENST00000426702,;UBE2E1,upstream_gene_variant,,ENST00000475680,;UBE2E1,upstream_gene_variant,,ENST00000481622,;UBE2E1,upstream_gene_variant,,ENST00000484048,;UBE2E1,upstream_gene_variant,,ENST00000495141,;"	"C"	"ENSG00000170142"	"ENST00000306627"	"Transcript"	"upstream_gene_variant"	"-/1511"	"-/582"	"-/193"	""	""	""	"1"	"4"	1	"UBE2E1"	"HGNC"	12477	"protein_coding"	"YES"	"CCDS2638.1"	"ENSP00000303709"	"P51965"	"C9J2P0"	"UPI0000137964"	"NM_003341.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"110905a6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"9271"	"THRB"	7068	"mskcc.org"	"GRCh37"	"3"	24491998	24491998	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs116787688"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-261+44180T>C"	""	""	"ENST00000396671"	""	102	"78"	24	72	"72"	0	"THRB,intron_variant,,ENST00000396671,NM_001128176.2;THRB,intron_variant,,ENST00000356447,NM_001128177.1,NM_000461.4;THRB,intron_variant,,ENST00000416420,NM_001252634.1;THRB,intron_variant,,ENST00000413780,;THRB,intron_variant,,ENST00000447875,;THRB,intron_variant,,ENST00000453729,;THRB,intron_variant,,ENST00000415021,;THRB,intron_variant,,ENST00000418247,;THRB,intron_variant,,ENST00000447414,;THRB,intron_variant,,ENST00000431815,;THRB,intron_variant,,ENST00000428492,;THRB-IT1,downstream_gene_variant,,ENST00000425296,;"	"G"	"ENSG00000151090"	"ENST00000396671"	"Transcript"	"intron_variant"	"-/7459"	"-/1386"	"-/461"	""	""	"rs116787688"	"1"	NA	-1	"THRB"	"HGNC"	11799	"protein_coding"	"YES"	"CCDS2641.1"	"ENSP00000379904"	"P10828"	"J3KR21,F1D8N7,C9JZS5,C9JTN1,C9JNQ4,C9JJM3,C9JHC2"	"UPI0000136D26"	"NM_001128176.2"	""	""	""	"1/10"	""	"G:0.0034"	"G:0.0129"	"G:0"	NA	"G:0"	"G:0"	"G:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"110921da-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"9272"	"AC133680.1"	0	"mskcc.org"	"GRCh37"	"3"	24991145	24991145	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.345+90902A>C"	""	""	"ENST00000455576"	""	118	"95"	23	56	"56"	0	"AC133680.1,intron_variant,,ENST00000455576,;"	"C"	"ENSG00000237838"	"ENST00000455576"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/584"	""	""	""	""	""	"1"	NA	1	"AC133680.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"11092cac-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194915254237288	"WGS"	FALSE
"9273"	"LRRC3B"	116135	"mskcc.org"	"GRCh37"	"3"	26678213	26678213	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-161+13485C>A"	""	""	"ENST00000396641"	""	75	"54"	21	57	"57"	0	"LRRC3B,intron_variant,,ENST00000396641,NM_052953.2;LRRC3B,intron_variant,,ENST00000417744,;LRRC3B,intron_variant,,ENST00000432040,;LRRC3B,intron_variant,,ENST00000414619,;LRRC3B,intron_variant,,ENST00000469437,;"	"A"	"ENSG00000179796"	"ENST00000396641"	"Transcript"	"intron_variant"	"-/1696"	"-/780"	"-/259"	""	""	""	"1"	NA	1	"LRRC3B"	"HGNC"	28105	"protein_coding"	"YES"	"CCDS2644.1"	"ENSP00000379880"	"Q96PB8"	"C9JMC7,C9J6A1"	"UPI000000D990"	"NM_052953.2"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"110957cc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"9274"	"AC104306.2"	0	"mskcc.org"	"GRCh37"	"3"	32553030	32553030	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000581249"	""	78	"71"	7	38	"38"	0	"AC104306.2,upstream_gene_variant,,ENST00000581249,;AC104306.1,downstream_gene_variant,,ENST00000449702,;"	"A"	"ENSG00000264135"	"ENST00000581249"	"Transcript"	"upstream_gene_variant"	"-/95"	""	""	""	""	""	"1"	"4188"	1	"AC104306.2"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"110a4ac4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"9275"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	34882916	34882916	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"83"	24	68	"68"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"110ad84a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224299065420561	"WGS"	FALSE
"9276"	"NBPF21P"	0	"mskcc.org"	"GRCh37"	"3"	36672142	36672142	"+"	"RNA"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.512A>C"	""	""	"ENST00000425093"	"4/9"	90	"78"	12	56	"56"	0	"NBPF21P,non_coding_transcript_exon_variant,,ENST00000425093,;"	"G"	"ENSG00000231382"	"ENST00000425093"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"512/1451"	""	""	""	""	""	"1"	NA	-1	"NBPF21P"	"HGNC"	32001	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"4/9"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"110b20fc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"9277"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	39247902	39247902	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"80"	24	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"110bda42-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"9278"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	40726059	40726059	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"82"	19	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"110c518e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188118811881188	"WGS"	FALSE
"9279"	"LYZL4"	131375	"mskcc.org"	"GRCh37"	"3"	42440444	42440444	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.372-1618C>T"	""	""	"ENST00000287748"	""	113	"86"	27	59	"59"	0	"LYZL4,intron_variant,,ENST00000287748,NM_144634.2;LYZL4,intron_variant,,ENST00000441172,;LYZL4,intron_variant,,ENST00000470991,;"	"A"	"ENSG00000157093"	"ENST00000287748"	"Transcript"	"intron_variant"	"-/904"	"-/441"	"-/146"	""	""	""	"1"	NA	-1	"LYZL4"	"HGNC"	28387	"protein_coding"	"YES"	"CCDS2697.1"	"ENSP00000287748"	"Q96KX0"	""	"UPI000000D78B"	"NM_144634.2"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"110cf62a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238938053097345	"WGS"	FALSE
"9280"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	45336714	45336714	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"68"	19	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"110e08ee-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218390804597701	"WGS"	FALSE
"9281"	"LARS2"	23395	"mskcc.org"	"GRCh37"	"3"	45433637	45433637	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-21-2288A>G"	""	""	"ENST00000415258"	""	90	"70"	20	59	"59"	0	"LARS2,intron_variant,,ENST00000415258,;LARS2,intron_variant,,ENST00000265537,NM_015340.3;LARS2,intron_variant,,ENST00000414984,;LARS2,intron_variant,,ENST00000431023,;LARS2,intron_variant,,ENST00000430399,;"	"G"	"ENSG00000011376"	"ENST00000415258"	"Transcript"	"intron_variant"	"-/4744"	"-/2712"	"-/903"	""	""	""	"1"	NA	1	"LARS2"	"HGNC"	17095	"protein_coding"	"YES"	"CCDS2728.1"	"ENSP00000408576"	"Q15031"	"Q9BQR0,C9JYR8"	"UPI0000001297"	""	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"110e1082-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"9282"	"KLHL18"	23276	"mskcc.org"	"GRCh37"	"3"	47327312	47327312	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.129+2728G>T"	""	""	"ENST00000232766"	""	92	"75"	17	52	"52"	0	"KLHL18,intron_variant,,ENST00000232766,NM_025010.4;KLHL18,intron_variant,,ENST00000455924,;KLHL18,intron_variant,,ENST00000437353,;KIF9,upstream_gene_variant,,ENST00000335044,NM_001134878.1,NM_182902.3;KIF9,upstream_gene_variant,,ENST00000265529,;KIF9,upstream_gene_variant,,ENST00000444589,NM_022342.4;KIF9,upstream_gene_variant,,ENST00000452770,;KIF9,upstream_gene_variant,,ENST00000352910,;KIF9,upstream_gene_variant,,ENST00000456548,;KIF9,upstream_gene_variant,,ENST00000425853,;KIF9,upstream_gene_variant,,ENST00000425452,;KIF9,upstream_gene_variant,,ENST00000432493,;KLHL18,intron_variant,,ENST00000483201,;KIF9,upstream_gene_variant,,ENST00000487440,;KLHL18,intron_variant,,ENST00000461084,;KLHL18,intron_variant,,ENST00000442272,;KLHL18,intron_variant,,ENST00000433449,;KIF9,upstream_gene_variant,,ENST00000443784,;KIF9,upstream_gene_variant,,ENST00000498584,;"	"T"	"ENSG00000114648"	"ENST00000232766"	"Transcript"	"intron_variant"	"-/4620"	"-/1725"	"-/574"	""	""	""	"1"	NA	1	"KLHL18"	"HGNC"	29120	"protein_coding"	"YES"	"CCDS33749.1"	"ENSP00000232766"	"O94889"	"Q6PJF0,C9J4G4,B4DHW4"	"UPI00004703A5"	"NM_025010.4"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"110e9c8c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184782608695652	"WGS"	FALSE
"9283"	"SMARCC1"	6599	"mskcc.org"	"GRCh37"	"3"	47628893	47628893	"+"	"3'UTR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*806G>A"	""	""	"ENST00000254480"	"28/28"	85	"71"	14	45	"45"	0	"SMARCC1,3_prime_UTR_variant,,ENST00000254480,NM_003074.3;SMARCC1,downstream_gene_variant,,ENST00000425518,;SMARCC1,downstream_gene_variant,,ENST00000492896,;"	"T"	"ENSG00000173473"	"ENST00000254480"	"Transcript"	"3_prime_UTR_variant"	"4244/6375"	"-/3318"	"-/1105"	""	""	""	"1"	NA	-1	"SMARCC1"	"HGNC"	11104	"protein_coding"	"YES"	"CCDS2758.1"	"ENSP00000254480"	"Q92922"	"F8WE13"	"UPI000013CE3B"	"NM_003074.3"	""	""	"28/28"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"110edc60-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164705882352941	"WGS"	FALSE
"9284"	"DHX30"	22907	"mskcc.org"	"GRCh37"	"3"	47862997	47862997	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.124+3390A>G"	""	""	"ENST00000445061"	""	88	"80"	8	52	"52"	0	"DHX30,intron_variant,,ENST00000446256,NM_014966.3;DHX30,intron_variant,,ENST00000445061,NM_138615.2;DHX30,intron_variant,,ENST00000348968,;DHX30,upstream_gene_variant,,ENST00000457607,;DHX30,intron_variant,,ENST00000476446,;DHX30,intron_variant,,ENST00000492893,;DHX30,upstream_gene_variant,,ENST00000471082,;DHX30,intron_variant,,ENST00000395745,;DHX30,intron_variant,,ENST00000441384,;DHX30,intron_variant,,ENST00000415400,;DHX30,downstream_gene_variant,,ENST00000472718,;"	"G"	"ENSG00000132153"	"ENST00000445061"	"Transcript"	"intron_variant"	"-/4065"	"-/3585"	"-/1194"	""	""	""	"1"	NA	1	"DHX30"	"HGNC"	16716	"protein_coding"	"YES"	"CCDS2759.1"	"ENSP00000405620"	"Q7L2E3"	"H7BXY3"	"UPI000007112B"	"NM_138615.2"	""	""	""	"4/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"110f1f5e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"9285"	"CCDC36"	339834	"mskcc.org"	"GRCh37"	"3"	49300340	49300340	"+"	"3'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000438782"	""	76	"70"	6	41	"41"	0	"CCDC36,downstream_gene_variant,,ENST00000438782,;RP11-3B7.1,downstream_gene_variant,,ENST00000440528,;"	"G"	"ENSG00000173421"	"ENST00000438782"	"Transcript"	"downstream_gene_variant"	"-/2843"	"-/1785"	"-/594"	""	""	""	"1"	"4803"	1	"CCDC36"	"HGNC"	27945	"protein_coding"	"YES"	"CCDS33755.2"	"ENSP00000391788"	"Q8IYA8"	""	"UPI0000209CD2"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"111074a8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"9286"	"RBM5"	10181	"mskcc.org"	"GRCh37"	"3"	50124885	50124885	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000347869"	""	85	"78"	7	27	"27"	0	"RBM5,upstream_gene_variant,,ENST00000347869,NM_005778.3;RBM5,upstream_gene_variant,,ENST00000469838,;RBM5,upstream_gene_variant,,ENST00000437500,;RBM5,upstream_gene_variant,,ENST00000404526,;RBM5,upstream_gene_variant,,ENST00000441305,;RBM5,upstream_gene_variant,,ENST00000417905,;RBM6,intron_variant,,ENST00000434592,;RBM5,upstream_gene_variant,,ENST00000464087,;RBM5,upstream_gene_variant,,ENST00000492472,;RBM5,upstream_gene_variant,,ENST00000433556,;RBM5,upstream_gene_variant,,ENST00000438369,;"	"T"	"ENSG00000003756"	"ENST00000347869"	"Transcript"	"upstream_gene_variant"	"-/3188"	"-/2448"	"-/815"	""	""	""	"1"	"1456"	1	"RBM5"	"HGNC"	9902	"protein_coding"	"YES"	"CCDS2810.1"	"ENSP00000343054"	"P52756"	"C9JR02,C9JFQ5,C9J9P7"	"UPI000013337C"	"NM_005778.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"11116048-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0823529411764706	"WGS"	FALSE
"9287"	"RAD54L2"	23132	"mskcc.org"	"GRCh37"	"3"	51624071	51624071	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-54-312A>G"	""	""	"ENST00000409535"	""	87	"65"	22	51	"51"	0	"RAD54L2,intron_variant,,ENST00000409535,NM_015106.2;RAD54L2,intron_variant,,ENST00000487093,;"	"G"	"ENSG00000164080"	"ENST00000409535"	"Transcript"	"intron_variant"	"-/9776"	"-/4404"	"-/1467"	""	""	""	"1"	NA	1	"RAD54L2"	"HGNC"	29123	"protein_coding"	"YES"	"CCDS33765.2"	"ENSP00000386520"	"Q9Y4B4"	"E7EU19"	"UPI000022C0AA"	"NM_015106.2"	""	""	""	"1/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"111244e0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252873563218391	"WGS"	FALSE
"9288"	"DNAH12"	201625	"mskcc.org"	"GRCh37"	"3"	57493128	57493128	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.897+242A>G"	""	""	"ENST00000311202"	""	74	"68"	6	55	"55"	0	"DNAH12,intron_variant,,ENST00000351747,NM_178504.4;DNAH12,intron_variant,,ENST00000495027,;DNAH12,intron_variant,,ENST00000389536,;DNAH12,intron_variant,,ENST00000311202,NM_198564.3;"	"C"	"ENSG00000174844"	"ENST00000311202"	"Transcript"	"intron_variant"	"-/2048"	"-/1374"	"-/457"	""	""	""	"1"	NA	-1	"DNAH12"	"HGNC"	2943	"protein_coding"	"YES"	"CCDS33771.1"	"ENSP00000312554"	"Q6ZR08"	""	"UPI000036716B"	"NM_198564.3"	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"11147238-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"9289"	"FHIT"	2272	"mskcc.org"	"GRCh37"	"3"	60979910	60979910	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-111+47809C>G"	""	""	"ENST00000468189"	""	91	"73"	18	55	"55"	0	"FHIT,intron_variant,,ENST00000468189,;FHIT,intron_variant,,ENST00000492590,NM_002012.2,NM_001166243.1;FHIT,intron_variant,,ENST00000476844,;FHIT,intron_variant,,ENST00000488467,;FHIT,intron_variant,,ENST00000490952,;"	"C"	"ENSG00000189283"	"ENST00000468189"	"Transcript"	"intron_variant"	"-/1634"	"-/444"	"-/147"	""	""	""	"1"	NA	-1	"FHIT"	"HGNC"	3701	"protein_coding"	"YES"	"CCDS2894.1"	"ENSP00000417480"	"P49789"	"Q71VB2,Q45QG9,Q1WAB3,Q194U8,E9PBZ0,A2IAT6,A2IAS9"	"UPI000000160B"	""	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"1115e910-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197802197802198	"WGS"	TRUE
"9290"	"LINC00698"	285401	"mskcc.org"	"GRCh37"	"3"	62931198	62931198	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"rs200020422"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000468072"	""	85	"80"	5	55	"55"	0	"LINC00698,upstream_gene_variant,,ENST00000468072,;LINC00698,upstream_gene_variant,,ENST00000465684,;LINC00698,upstream_gene_variant,,ENST00000475886,;LINC00698,upstream_gene_variant,,ENST00000465262,;"	"A"	"ENSG00000244342"	"ENST00000468072"	"Transcript"	"upstream_gene_variant"	"-/1957"	""	""	""	""	"rs200020422"	"1"	"4948"	1	"LINC00698"	"HGNC"	27720	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"1116464e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"9291"	"LINC00698"	285401	"mskcc.org"	"GRCh37"	"3"	63000473	63000473	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.125+62715G>A"	""	""	"ENST00000468072"	""	91	"80"	11	53	"53"	0	"LINC00698,intron_variant,,ENST00000468072,;LINC00698,intron_variant,,ENST00000465684,;LINC00698,intron_variant,,ENST00000475886,;LINC00698,intron_variant,,ENST00000465262,;"	"A"	"ENSG00000244342"	"ENST00000468072"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1957"	""	""	""	""	""	"1"	NA	1	"LINC00698"	"HGNC"	27720	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"111648d8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120879120879121	"WGS"	FALSE
"9292"	"PRICKLE2"	166336	"mskcc.org"	"GRCh37"	"3"	64224954	64224954	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.129-40311A>T"	""	""	"ENST00000564377"	""	81	"70"	11	41	"41"	0	"PRICKLE2,intron_variant,,ENST00000564377,;PRICKLE2,intron_variant,,ENST00000498162,;PRICKLE2,intron_variant,,ENST00000569824,;"	"A"	"ENSG00000163637"	"ENST00000564377"	"Transcript"	"intron_variant"	"-/4242"	"-/2703"	"-/900"	""	""	""	"1"	NA	-1	"PRICKLE2"	"HGNC"	20340	"protein_coding"	""	""	"ENSP00000455004"	""	"H3BNU0,C9JY03"	"UPI0002466C62"	""	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"11168280-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135802469135802	"WGS"	FALSE
"9293"	"MAGI1"	9223	"mskcc.org"	"GRCh37"	"3"	65535542	65535542	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.431-56236T>C"	""	""	"ENST00000402939"	""	101	"78"	23	60	"60"	0	"MAGI1,intron_variant,,ENST00000330909,NM_015520.1;MAGI1,intron_variant,,ENST00000483466,NM_004742.2;MAGI1,intron_variant,,ENST00000402939,NM_001033057.1;MAGI1,intron_variant,,ENST00000463103,;MAGI1,intron_variant,,ENST00000460329,;MAGI1,intron_variant,,ENST00000497477,;MAGI1,intron_variant,,ENST00000470990,;MAGI1,upstream_gene_variant,,ENST00000476403,;MAGI1,intron_variant,,ENST00000464060,;"	"G"	"ENSG00000151276"	"ENST00000402939"	"Transcript"	"intron_variant"	"-/4389"	"-/4389"	"-/1462"	""	""	""	"1"	NA	-1	"MAGI1"	"HGNC"	946	"protein_coding"	"YES"	"CCDS33780.1"	"ENSP00000385450"	"Q96QZ7"	""	"UPI0000457132"	"NM_001033057.1"	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"1116b714-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227722772277228	"WGS"	FALSE
"9294"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	66681507	66681507	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"69"	15	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"1116e2c0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"9295"	"FOXP1"	27086	"mskcc.org"	"GRCh37"	"3"	71632444	71632444	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-447+617G>T"	""	""	"ENST00000318789"	""	104	"87"	17	58	"58"	0	"FOXP1,intron_variant,,ENST00000318789,NM_032682.5,NM_001244810.1,NM_001244813.1;FOXP1,intron_variant,,ENST00000493089,NM_001244808.1;FOXP1,intron_variant,,ENST00000318779,NM_001012505.1;RP11-154H23.3,upstream_gene_variant,,ENST00000604491,;FOXP1,intron_variant,,ENST00000471386,;FOXP1,upstream_gene_variant,,ENST00000498154,;"	"A"	"ENSG00000114861"	"ENST00000318789"	"Transcript"	"intron_variant"	"-/7114"	"-/2034"	"-/677"	""	""	""	"1"	NA	-1	"FOXP1"	"HGNC"	3823	"protein_coding"	""	"CCDS2914.1"	"ENSP00000318902"	"Q9H334"	"Q8IXF4,Q548T7,C9J5T4,C9IYY1,B4DMV4"	"UPI0000001041"	"NM_032682.5,NM_001244810.1,NM_001244813.1"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"11178a18-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163461538461538	"WGS"	TRUE
"9296"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	73272235	73272235	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"77"	15	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"1117d8ce-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16304347826087	"WGS"	FALSE
"9297"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	75853498	75853498	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	53	"47"	6	41	"41"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"11186f64-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113207547169811	"WGS"	FALSE
"9298"	"ROBO1"	6091	"mskcc.org"	"GRCh37"	"3"	79418150	79418150	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.88+220824C>G"	""	""	"ENST00000464233"	""	90	"69"	21	62	"62"	0	"ROBO1,intron_variant,,ENST00000464233,NM_002941.3;"	"C"	"ENSG00000169855"	"ENST00000464233"	"Transcript"	"intron_variant"	"-/6742"	"-/4956"	"-/1651"	""	""	""	"1"	NA	-1	"ROBO1"	"HGNC"	10249	"protein_coding"	"YES"	"CCDS54611.1"	"ENSP00000420321"	"Q9Y6N7"	""	"UPI00000713D9"	"NM_002941.3"	""	""	""	"2/30"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"11191f2c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WGS"	FALSE
"9299"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	81226356	81226356	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"78"	14	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"111951f4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152173913043478	"WGS"	FALSE
"9300"	"GBE1"	2632	"mskcc.org"	"GRCh37"	"3"	81659559	81659559	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.993-16385T>G"	""	""	"ENST00000429644"	""	98	"77"	21	51	"51"	0	"GBE1,intron_variant,,ENST00000429644,NM_000158.3;GBE1,intron_variant,,ENST00000489715,;SETP6,downstream_gene_variant,,ENST00000479329,;RP11-142L1.3,upstream_gene_variant,,ENST00000477387,;"	"C"	"ENSG00000114480"	"ENST00000429644"	"Transcript"	"intron_variant"	"-/3461"	"-/2109"	"-/702"	""	""	""	"1"	NA	-1	"GBE1"	"HGNC"	4180	"protein_coding"	"YES"	"CCDS54612.1"	"ENSP00000410833"	"Q04446"	""	"UPI0000209A24"	"NM_000158.3"	""	""	""	"7/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"11196504-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"9301"	"RP11-260O18.1"	0	"mskcc.org"	"GRCh37"	"3"	82494822	82494822	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.655-7811G>A"	""	""	"ENST00000470263"	""	98	"77"	21	56	"56"	0	"RP11-260O18.1,intron_variant,,ENST00000470263,;"	"A"	"ENSG00000239440"	"ENST00000470263"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1951"	""	""	""	""	""	"1"	NA	1	"RP11-260O18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"1119751c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"9302"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	84982953	84982953	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"82"	18	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"1119afaa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.18	"WGS"	FALSE
"9303"	"CADM2"	253559	"mskcc.org"	"GRCh37"	"3"	85793804	85793804	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67+18106A>C"	""	""	"ENST00000405615"	""	104	"75"	29	53	"53"	0	"CADM2,intron_variant,,ENST00000383699,NM_001167675.1,NM_001256504.1,NM_001256505.1;CADM2,intron_variant,,ENST00000407528,NM_001167674.1;CADM2,intron_variant,,ENST00000405615,NM_153184.3;"	"C"	"ENSG00000175161"	"ENST00000405615"	"Transcript"	"intron_variant"	"-/1314"	"-/1314"	"-/437"	""	""	""	"1"	NA	1	"CADM2"	"HGNC"	29849	"protein_coding"	"YES"	"CCDS33792.1"	"ENSP00000384193"	"Q8N3J6"	"G3XHN8"	"UPI000013F077"	"NM_153184.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"1119cda0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278846153846154	"WGS"	FALSE
"9304"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	86641272	86641272	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"81"	24	62	"62"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"1119e65a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228571428571429	"WGS"	FALSE
"9305"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	87764969	87764969	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs530847244"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"86"	11	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs530847244"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"111a007c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.11340206185567	"WGS"	FALSE
"9306"	"ARL13B"	200894	"mskcc.org"	"GRCh37"	"3"	93695959	93695959	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000394222"	""	104	"91"	13	50	"50"	0	"ARL13B,upstream_gene_variant,,ENST00000535334,NM_001174151.1;PROS1,upstream_gene_variant,,ENST00000394236,NM_000313.3;ARL13B,upstream_gene_variant,,ENST00000303097,NM_144996.3;ARL13B,upstream_gene_variant,,ENST00000394222,NM_001174150.1;ARL13B,upstream_gene_variant,,ENST00000471138,NM_182896.2;ARL13B,upstream_gene_variant,,ENST00000539730,;PROS1,upstream_gene_variant,,ENST00000348974,;ARL13B,upstream_gene_variant,,ENST00000478400,;PROS1,upstream_gene_variant,,ENST00000472684,;RNU6-511P,non_coding_transcript_exon_variant,,ENST00000363496,;ARL13B,upstream_gene_variant,,ENST00000486562,;ARL13B,upstream_gene_variant,,ENST00000492165,;ARL13B,upstream_gene_variant,,ENST00000335438,;ARL13B,upstream_gene_variant,,ENST00000460371,;ARL13B,upstream_gene_variant,,ENST00000475206,;"	"T"	"ENSG00000169379"	"ENST00000394222"	"Transcript"	"upstream_gene_variant"	"-/2453"	"-/1287"	"-/428"	""	""	""	"1"	"3034"	1	"ARL13B"	"HGNC"	25419	"protein_coding"	"YES"	"CCDS2925.1"	"ENSP00000377769"	"Q3SXY8"	"B4DRI8"	"UPI00001B94DF"	"NM_001174150.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"111a8ca4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"9307"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	94044793	94044793	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"71"	21	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"111a9bd6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228260869565217	"WGS"	FALSE
"9308"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	95749876	95749876	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"69"	20	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"111ac32c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224719101123595	"WGS"	FALSE
"9309"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	96038714	96038714	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"90"	11	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"111acc5a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108910891089109	"WGS"	FALSE
"9310"	"EPHA6"	285220	"mskcc.org"	"GRCh37"	"3"	96681415	96681415	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.451-24759G>A"	""	""	"ENST00000389672"	""	65	"54"	11	38	"38"	0	"EPHA6,intron_variant,,ENST00000389672,NM_001080448.2;EPHA6,intron_variant,,ENST00000470610,;EPHA6,intron_variant,,ENST00000542517,NM_001278301.1;EPHA6,intron_variant,,ENST00000506569,;"	"A"	"ENSG00000080224"	"ENST00000389672"	"Transcript"	"intron_variant"	"-/3971"	"-/3393"	"-/1130"	""	""	""	"1"	NA	1	"EPHA6"	"HGNC"	19296	"protein_coding"	"YES"	"CCDS46876.1"	"ENSP00000374323"	""	"H0Y8K5"	"UPI000004BB12"	"NM_001080448.2"	""	""	""	"2/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"111ae352-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.169230769230769	"WGS"	FALSE
"9311"	"LNP1"	348801	"mskcc.org"	"GRCh37"	"3"	100133442	100133442	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-34+12159T>C"	""	""	"ENST00000383693"	""	83	"73"	10	53	"53"	0	"LNP1,intron_variant,,ENST00000383693,NM_001085451.1;LNP1,intron_variant,,ENST00000489752,;LNP1,intron_variant,,ENST00000466996,;"	"C"	"ENSG00000206535"	"ENST00000383693"	"Transcript"	"intron_variant"	"-/2210"	"-/537"	"-/178"	""	""	""	"1"	NA	1	"LNP1"	"HGNC"	28014	"protein_coding"	"YES"	"CCDS43120.1"	"ENSP00000373191"	"A1A4G5"	"B3KPG3"	"UPI00001B64A6"	"NM_001085451.1"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"111b4040-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120481927710843	"WGS"	FALSE
"9312"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	105768251	105768251	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"90"	17	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"111c1d30-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.158878504672897	"WGS"	FALSE
"9313"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	107139589	107139589	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"72"	29	72	"72"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"111c4698-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287128712871287	"WGS"	FALSE
"9314"	"LINC00635"	151658	"mskcc.org"	"GRCh37"	"3"	107561686	107561686	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1210-627A>G"	""	""	"ENST00000464359"	""	80	"67"	13	51	"51"	0	"LINC00635,intron_variant,,ENST00000464359,;LINC00635,intron_variant,,ENST00000488852,;LINC00635,intron_variant,,ENST00000497811,;LINC00635,intron_variant,,ENST00000461121,;LINC00635,intron_variant,,ENST00000608506,;"	"C"	"ENSG00000241469"	"ENST00000464359"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2119"	""	""	""	""	""	"1"	NA	-1	"LINC00635"	"HGNC"	27184	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"10/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"111c4f3a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1625	"WGS"	FALSE
"9315"	"KIAA1524"	57650	"mskcc.org"	"GRCh37"	"3"	108297116	108297116	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.818+1012T>G"	""	""	"ENST00000295746"	""	107	"76"	31	63	"63"	0	"KIAA1524,intron_variant,,ENST00000295746,NM_020890.2;KIAA1524,intron_variant,,ENST00000491772,;SNORA70,downstream_gene_variant,,ENST00000365509,;KIAA1524,intron_variant,,ENST00000487834,;KIAA1524,intron_variant,,ENST00000481530,;KIAA1524,downstream_gene_variant,,ENST00000468953,;"	"C"	"ENSG00000163507"	"ENST00000295746"	"Transcript"	"intron_variant"	"-/4075"	"-/2718"	"-/905"	""	""	""	"1"	NA	-1	"KIAA1524"	"HGNC"	29302	"protein_coding"	"YES"	"CCDS33812.1"	"ENSP00000295746"	"Q8TCG1"	""	"UPI0000209EFF"	"NM_020890.2"	""	""	""	"7/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"111c67e0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289719626168224	"WGS"	FALSE
"9316"	"RP11-397K18.1"	0	"mskcc.org"	"GRCh37"	"3"	109078720	109078720	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000485133"	""	64	"57"	7	60	"60"	0	"RP11-397K18.1,downstream_gene_variant,,ENST00000485133,;"	"G"	"ENSG00000241257"	"ENST00000485133"	"Transcript"	"downstream_gene_variant"	"-/188"	""	""	""	""	""	"1"	"4174"	-1	"RP11-397K18.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"111c97f6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109375	"WGS"	FALSE
"9317"	"RP11-397K18.1"	0	"mskcc.org"	"GRCh37"	"3"	109078733	109078733	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000485133"	""	67	"62"	5	58	"58"	0	"RP11-397K18.1,downstream_gene_variant,,ENST00000485133,;"	"A"	"ENSG00000241257"	"ENST00000485133"	"Transcript"	"downstream_gene_variant"	"-/188"	""	""	""	""	""	"1"	"4161"	-1	"RP11-397K18.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"111c9936-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0746268656716418	"WGS"	FALSE
"9318"	"RP11-696F10.1"	0	"mskcc.org"	"GRCh37"	"3"	109695588	109695588	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000498515"	""	87	"75"	12	53	"53"	0	"RP11-696F10.1,downstream_gene_variant,,ENST00000498515,;"	"A"	"ENSG00000243945"	"ENST00000498515"	"Transcript"	"downstream_gene_variant"	"-/228"	""	""	""	""	""	"1"	"799"	-1	"RP11-696F10.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"111cb722-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WGS"	FALSE
"9319"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	109959246	109959246	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"55"	18	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"111cc078-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246575342465753	"WGS"	FALSE
"9320"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	110007159	110007159	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"77"	7	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"111cc456-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"9321"	"RNU6ATAC15P"	0	"mskcc.org"	"GRCh37"	"3"	110268772	110268772	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408279"	""	91	"69"	22	60	"60"	0	"RNU6ATAC15P,downstream_gene_variant,,ENST00000408279,;"	"T"	"ENSG00000221206"	"ENST00000408279"	"Transcript"	"downstream_gene_variant"	"-/121"	""	""	""	""	""	"1"	"1920"	-1	"RNU6ATAC15P"	"HGNC"	46914	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"111cc91a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241758241758242	"WGS"	FALSE
"9322"	"CD200R1L"	344807	"mskcc.org"	"GRCh37"	"3"	112569928	112569928	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000488794"	""	81	"64"	17	58	"58"	0	"CD200R1L,upstream_gene_variant,,ENST00000488794,;"	"A"	"ENSG00000206531"	"ENST00000488794"	"Transcript"	"upstream_gene_variant"	"-/1597"	"-/753"	"-/250"	""	""	""	"1"	"4225"	-1	"CD200R1L"	"HGNC"	24665	"protein_coding"	""	"CCDS56267.1"	"ENSP00000418413"	"Q6Q8B3"	""	"UPI0000034DDB"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"111d11e0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209876543209877	"WGS"	FALSE
"9323"	"GRAMD1C"	54762	"mskcc.org"	"GRCh37"	"3"	113543789	113543789	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000479212"	""	93	"79"	14	40	"40"	0	"GRAMD1C,upstream_gene_variant,,ENST00000479212,;"	"T"	"ENSG00000178075"	"ENST00000479212"	"Transcript"	"upstream_gene_variant"	"-/2230"	""	""	""	""	""	"1"	"3240"	1	"GRAMD1C"	"HGNC"	25252	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"111d3fc6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.150537634408602	"WGS"	FALSE
"9324"	"RP11-174O3.1"	0	"mskcc.org"	"GRCh37"	"3"	120026470	120026470	"+"	"RNA"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.898C>G"	""	""	"ENST00000498792"	"1/1"	82	"75"	7	48	"48"	0	"RP11-174O3.1,non_coding_transcript_exon_variant,,ENST00000498792,;"	"G"	"ENSG00000240882"	"ENST00000498792"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"898/1227"	""	""	""	""	""	"1"	NA	1	"RP11-174O3.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"111e1702-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"9325"	"PARP15"	165631	"mskcc.org"	"GRCh37"	"3"	122331108	122331108	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.544-780C>G"	""	""	"ENST00000464300"	""	71	"65"	6	49	"49"	0	"PARP15,intron_variant,,ENST00000483793,;PARP15,intron_variant,,ENST00000464300,NM_001113523.1;PARP15,upstream_gene_variant,,ENST00000310366,NM_152615.1;PARP15,upstream_gene_variant,,ENST00000493645,;PARP15,intron_variant,,ENST00000465304,;"	"G"	"ENSG00000173200"	"ENST00000464300"	"Transcript"	"intron_variant"	"-/2156"	"-/2037"	"-/678"	""	""	""	"1"	NA	1	"PARP15"	"HGNC"	26876	"protein_coding"	"YES"	"CCDS46893.1"	"ENSP00000417214"	""	"J3KR47"	"UPI000163A140"	"NM_001113523.1"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"111e8408-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"9326"	"KALRN"	8997	"mskcc.org"	"GRCh37"	"3"	124396728	124396728	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2103-309A>T"	""	""	"ENST00000291478"	""	102	"86"	16	66	"66"	0	"KALRN,intron_variant,,ENST00000291478,NM_007064.3;KALRN,intron_variant,,ENST00000360013,NM_001024660.3;KALRN,intron_variant,,ENST00000354186,;KALRN,intron_variant,,ENST00000428018,;KALRN,intron_variant,,ENST00000462213,;KALRN,downstream_gene_variant,,ENST00000393496,;KALRN,downstream_gene_variant,,ENST00000459915,;KALRN,intron_variant,,ENST00000484542,;"	"T"	"ENSG00000160145"	"ENST00000291478"	"Transcript"	"intron_variant"	"-/10888"	"-/3870"	"-/1289"	""	""	""	"1"	NA	1	"KALRN"	"HGNC"	4814	"protein_coding"	""	"CCDS3028.1"	"ENSP00000291478"	"O60229"	""	"UPI00001AEB7E"	"NM_007064.3"	""	""	""	"16/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"111edde0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.156862745098039	"WGS"	FALSE
"9327"	"TXNRD3"	645840	"mskcc.org"	"GRCh37"	"3"	126342694	126342694	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"rs77147567"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1456-1311G>T"	""	""	"ENST00000524230"	""	39	"35"	4	15	"15"	0	"TXNRD3,intron_variant,,ENST00000524230,NM_052883.1;TXNRD3,intron_variant,,ENST00000523403,NM_001173513.1;RP11-390G14.1,upstream_gene_variant,,ENST00000505008,;"	"A"	"ENSG00000197763"	"ENST00000524230"	"Transcript"	"intron_variant"	"-/2950"	"-/2097"	"-/698"	""	""	"rs77147567"	"1"	NA	-1	"TXNRD3"	"HGNC"	20667	"protein_coding"	"YES"	""	"ENSP00000430031"	""	""	"UPI0001F78636"	"NM_052883.1"	""	""	""	"10/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"111f92c6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"9328"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	127027888	127027888	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"56"	7	47	"47"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"111fc0b6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"9329"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	127027890	127027890	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	60	"54"	6	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"111fc200-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"9330"	"ISY1-RAB43"	100534599	"mskcc.org"	"GRCh37"	"3"	128821473	128821473	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.852-7461G>T"	""	""	"ENST00000418265"	""	46	"42"	4	27	"27"	0	"ISY1-RAB43,intron_variant,,ENST00000418265,NM_001204890.1;RAB43,intron_variant,,ENST00000315150,NM_198490.2,NM_001204888.1;RAB43,intron_variant,,ENST00000393304,NM_001204886.1;RAB43,intron_variant,,ENST00000393305,NM_001204883.1;RAB43,intron_variant,,ENST00000393307,NM_001204884.1;RAB43,intron_variant,,ENST00000393308,NM_001204885.1;RAB43,intron_variant,,ENST00000476465,NM_001204887.1;RAB43,intron_variant,,ENST00000457077,;"	"A"	"ENSG00000261796"	"ENST00000418265"	"Transcript"	"intron_variant"	"-/4868"	"-/996"	"-/331"	""	""	""	"1"	NA	-1	"ISY1-RAB43"	"HGNC"	42969	"protein_coding"	"YES"	"CCDS56276.1"	"ENSP00000411822"	""	"H9XFA1"	"UPI00005A60DB"	"NM_001204890.1"	""	""	""	"11/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"1120289e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"9331"	"TMCC1-AS1"	100507032	"mskcc.org"	"GRCh37"	"3"	129635013	129635013	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.238-2230A>G"	""	""	"ENST00000604747"	""	84	"70"	14	53	"53"	0	"TMCC1-AS1,intron_variant,,ENST00000604747,;"	"G"	"ENSG00000271270"	"ENST00000604747"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/413"	""	""	""	""	""	"1"	NA	1	"TMCC1-AS1"	"HGNC"	49060	"antisense"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"1120711e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"9332"	"COL6A5"	256076	"mskcc.org"	"GRCh37"	"3"	130205388	130205388	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000265379"	""	104	"79"	25	59	"59"	0	"COL6A5,downstream_gene_variant,,ENST00000265379,NM_001278298.1;COL6A5,downstream_gene_variant,,ENST00000432398,NM_153264.6;COL6A5,downstream_gene_variant,,ENST00000512836,;COL6A5,downstream_gene_variant,,ENST00000373157,;COL6A5,downstream_gene_variant,,ENST00000312481,;"	"T"	"ENSG00000172752"	"ENST00000265379"	"Transcript"	"downstream_gene_variant"	"-/9226"	"-/7848"	"-/2615"	""	""	""	"1"	"1700"	1	"COL6A5"	"HGNC"	26674	"protein_coding"	"YES"	""	"ENSP00000265379"	""	"E9PAL5"	"UPI0002064ECE"	"NM_001278298.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"1120a2c4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240384615384615	"WGS"	FALSE
"9333"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	137396073	137396073	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"61"	17	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"1121cf32-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217948717948718	"WGS"	FALSE
"9334"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	137861900	137861900	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"65"	13	39	"39"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"1121de96-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"9335"	"MRPS22"	56945	"mskcc.org"	"GRCh37"	"3"	138741669	138741669	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-143+16732T>A"	""	""	"ENST00000495075"	""	70	"65"	5	36	"36"	0	"MRPS22,intron_variant,,ENST00000495075,;PRR23B,upstream_gene_variant,,ENST00000329447,NM_001013650.2;"	"A"	"ENSG00000175110"	"ENST00000495075"	"Transcript"	"intron_variant"	"-/1547"	"-/1083"	"-/360"	""	""	""	"1"	NA	1	"MRPS22"	"HGNC"	14508	"protein_coding"	"YES"	"CCDS3107.1"	"ENSP00000418008"	"P82650"	"Q96Q16"	"UPI0000042222"	""	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"112218fc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"9336"	"TFDP2"	7029	"mskcc.org"	"GRCh37"	"3"	141764688	141764688	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.83-40302T>A"	""	""	"ENST00000489671"	""	90	"83"	7	46	"46"	0	"TFDP2,intron_variant,,ENST00000499676,NM_001178139.1;TFDP2,intron_variant,,ENST00000489671,;TFDP2,intron_variant,,ENST00000467072,NM_001178138.1;TFDP2,intron_variant,,ENST00000317104,;TFDP2,intron_variant,,ENST00000475734,;TFDP2,intron_variant,,ENST00000494358,;TFDP2,intron_variant,,ENST00000467634,;TFDP2,intron_variant,,ENST00000488107,;TFDP2,intron_variant,,ENST00000464782,;TFDP2,intron_variant,,ENST00000476617,;TFDP2,intron_variant,,ENST00000495095,;TFDP2,intron_variant,,ENST00000487734,;RP11-343B5.1,upstream_gene_variant,,ENST00000498753,;"	"T"	"ENSG00000114126"	"ENST00000489671"	"Transcript"	"intron_variant"	"-/3138"	"-/1341"	"-/446"	""	""	""	"1"	NA	-1	"TFDP2"	"HGNC"	11751	"protein_coding"	"YES"	"CCDS54650.1"	"ENSP00000420616"	"Q14188"	"C9JTZ9,C9JNB6,C9JCY5,C9J5D5,C9J461"	"UPI0000136B56"	""	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"1122778e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0777777777777778	"WGS"	FALSE
"9337"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	141983167	141983167	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"68"	5	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"11228116-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0684931506849315	"WGS"	FALSE
"9338"	"SLC9A9"	285195	"mskcc.org"	"GRCh37"	"3"	143034192	143034192	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1605-46370T>G"	""	""	"ENST00000316549"	""	104	"84"	20	49	"49"	0	"SLC9A9,intron_variant,,ENST00000316549,NM_173653.3;RP13-635I23.3,upstream_gene_variant,,ENST00000491347,;"	"C"	"ENSG00000181804"	"ENST00000316549"	"Transcript"	"intron_variant"	"-/3627"	"-/1938"	"-/645"	""	""	""	"1"	NA	-1	"SLC9A9"	"HGNC"	20653	"protein_coding"	"YES"	"CCDS33872.1"	"ENSP00000320246"	"Q8IVB4"	""	"UPI0000074664"	"NM_173653.3"	""	""	""	"14/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"1122ae2a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WGS"	FALSE
"9339"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	145646756	145646756	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"103"	15	80	"80"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"112324d6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127118644067797	"WGS"	FALSE
"9340"	"RP11-649A16.1"	0	"mskcc.org"	"GRCh37"	"3"	146866063	146866063	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs763839494"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.229+8189G>A"	""	""	"ENST00000473299"	""	111	"104"	7	62	"62"	0	"RP11-649A16.1,intron_variant,,ENST00000473299,;"	"T"	"ENSG00000243620"	"ENST00000473299"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/570"	""	""	""	""	"rs763839494"	"1"	NA	-1	"RP11-649A16.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"1123661c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0630630630630631	"WGS"	FALSE
"9341"	"CPB1"	1360	"mskcc.org"	"GRCh37"	"3"	148552459	148552459	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.272+50A>T"	""	""	"ENST00000491148"	""	117	"93"	24	59	"59"	0	"CPB1,intron_variant,,ENST00000491148,;CPB1,intron_variant,,ENST00000282957,NM_001871.2;CPB1,intron_variant,,ENST00000468341,;CPB1,intron_variant,,ENST00000462345,;CPB1,downstream_gene_variant,,ENST00000494888,;CPB1,upstream_gene_variant,,ENST00000484877,;CPB1,intron_variant,,ENST00000465718,;"	"T"	"ENSG00000153002"	"ENST00000491148"	"Transcript"	"intron_variant"	"-/1773"	"-/1254"	"-/417"	""	""	""	"1"	NA	1	"CPB1"	"HGNC"	2299	"protein_coding"	"YES"	"CCDS33874.1"	"ENSP00000417222"	"P15086"	"Q68DJ8,C9JXS3,C9J5C4"	"UPI00001271CD"	""	""	""	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"1123d3cc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205128205128205	"WGS"	FALSE
"9342"	"MED12L"	116931	"mskcc.org"	"GRCh37"	"3"	150886290	150886290	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1494+2521G>A"	""	""	"ENST00000474524"	""	84	"64"	20	47	"47"	0	"MED12L,intron_variant,,ENST00000474524,NM_053002.4;MED12L,intron_variant,,ENST00000273432,;MED12L,intron_variant,,ENST00000309237,;MED12L,intron_variant,,ENST00000422248,;"	"A"	"ENSG00000144893"	"ENST00000474524"	"Transcript"	"intron_variant"	"-/10744"	"-/6438"	"-/2145"	""	""	""	"1"	NA	1	"MED12L"	"HGNC"	16050	"protein_coding"	"YES"	"CCDS33876.1"	"ENSP00000417235"	"Q86YW9"	""	"UPI000020A46B"	"NM_053002.4"	""	""	""	"10/42"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"11249348-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WGS"	FALSE
"9343"	"ENSR00001747192"	0	"mskcc.org"	"GRCh37"	"3"	151697737	151697737	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001747192"	""	91	"74"	17	50	"50"	0	""	"A"	""	"ENSR00001747192"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"1124da74-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186813186813187	"WGS"	FALSE
"9344"	"RP11-217E22.5"	0	"mskcc.org"	"GRCh37"	"3"	153630863	153630863	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.80-7277A>T"	""	""	"ENST00000463297"	""	107	"87"	20	60	"60"	0	"RP11-217E22.5,intron_variant,,ENST00000463297,;RP11-23D24.2,intron_variant,,ENST00000488210,;"	"T"	"ENSG00000243486"	"ENST00000463297"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/703"	""	""	""	""	""	"1"	NA	1	"RP11-217E22.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"112576fa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186915887850467	"WGS"	FALSE
"9345"	"ARHGEF26"	26084	"mskcc.org"	"GRCh37"	"3"	153858437	153858437	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1270-8741G>A"	""	""	"ENST00000356448"	""	57	"50"	7	48	"48"	0	"ARHGEF26,intron_variant,,ENST00000356448,NM_001251962.1;ARHGEF26,intron_variant,,ENST00000465093,NM_015595.3,NM_001251963.1;ARHGEF26,intron_variant,,ENST00000465817,;ARHGEF26,intron_variant,,ENST00000496710,;"	"A"	"ENSG00000114790"	"ENST00000356448"	"Transcript"	"intron_variant"	"-/5254"	"-/2616"	"-/871"	""	""	""	"1"	NA	1	"ARHGEF26"	"HGNC"	24490	"protein_coding"	"YES"	"CCDS46938.1"	"ENSP00000348828"	"Q96DR7"	""	"UPI00001410D0"	"NM_001251962.1"	""	""	""	"4/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"11258d84-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12280701754386	"WGS"	FALSE
"9346"	"C3orf33"	285315	"mskcc.org"	"GRCh37"	"3"	155480651	155480651	"+"	"3'UTR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*655A>C"	""	""	"ENST00000534941"	"6/6"	87	"78"	9	50	"50"	0	"C3orf33,3_prime_UTR_variant,,ENST00000534941,NM_173657.1;C3orf33,3_prime_UTR_variant,,ENST00000340171,;C3orf33,3_prime_UTR_variant,,ENST00000482061,;C3orf33,downstream_gene_variant,,ENST00000486435,;C3orf33,downstream_gene_variant,,ENST00000465810,;RP11-674E16.1,downstream_gene_variant,,ENST00000469035,;"	"G"	"ENSG00000174928"	"ENST00000534941"	"Transcript"	"3_prime_UTR_variant"	"1681/1931"	"-/756"	"-/251"	""	""	""	"1"	NA	-1	"C3orf33"	"HGNC"	26434	"protein_coding"	"YES"	"CCDS54659.1"	"ENSP00000445446"	"Q6P1S2"	""	"UPI000006E70D"	"NM_173657.1"	""	""	"6/6"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"112608ae-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"9347"	"IL12A-AS1"	101928376	"mskcc.org"	"GRCh37"	"3"	159811530	159811530	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.518-68209G>A"	""	""	"ENST00000497452"	""	87	"77"	10	38	"38"	0	"IL12A-AS1,intron_variant,,ENST00000497452,;"	"T"	"ENSG00000244040"	"ENST00000497452"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2425"	""	""	""	""	""	"1"	NA	-1	"IL12A-AS1"	"HGNC"	49094	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"1127a538-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114942528735632	"WGS"	FALSE
"9348"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	162024196	162024196	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"72"	7	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"11282968-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"9349"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	162248972	162248972	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"58"	18	70	"70"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"1128445c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236842105263158	"WGS"	FALSE
"9350"	"CT64"	647107	"mskcc.org"	"GRCh37"	"3"	163021678	163021678	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000470546"	""	86	"68"	18	44	"44"	0	"CT64,intron_variant,,ENST00000489012,;CT64,upstream_gene_variant,,ENST00000470546,;CT64,upstream_gene_variant,,ENST00000492553,;CT64,upstream_gene_variant,,ENST00000494897,;CT64,upstream_gene_variant,,ENST00000493473,;CT64,upstream_gene_variant,,ENST00000488173,;"	"T"	"ENSG00000241369"	"ENST00000470546"	"Transcript"	"upstream_gene_variant"	"-/1519"	""	""	""	""	""	"1"	"589"	-1	"CT64"	"HGNC"	37197	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"11286aea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209302325581395	"WGS"	FALSE
"9351"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	163360033	163360033	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"92"	9	47	"47"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"112882be-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0891089108910891	"WGS"	FALSE
"9352"	"RP11-71H9.1"	0	"mskcc.org"	"GRCh37"	"3"	164466097	164466097	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.68-17269A>T"	""	""	"ENST00000497379"	""	98	"77"	21	39	"39"	0	"RP11-71H9.1,intron_variant,,ENST00000497379,;"	"A"	"ENSG00000241767"	"ENST00000497379"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/838"	""	""	""	""	""	"1"	NA	-1	"RP11-71H9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"1128bcf2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"9353"	"SI"	6476	"mskcc.org"	"GRCh37"	"3"	164749174	164749174	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2737-519C>A"	""	""	"ENST00000264382"	""	101	"77"	24	71	"71"	0	"SI,intron_variant,,ENST00000264382,NM_001041.3;"	"T"	"ENSG00000090402"	"ENST00000264382"	"Transcript"	"intron_variant"	"-/6011"	"-/5484"	"-/1827"	""	""	""	"1"	NA	-1	"SI"	"HGNC"	10856	"protein_coding"	"YES"	"CCDS3196.1"	"ENSP00000264382"	"P14410"	""	"UPI000022C287"	"NM_001041.3"	""	""	""	"24/47"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"1128d016-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.237623762376238	"WGS"	FALSE
"9354"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	166683036	166683036	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"87"	14	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"11293f7e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138613861386139	"WGS"	FALSE
"9355"	"RP11-641D5.2"	0	"mskcc.org"	"GRCh37"	"3"	169188952	169188952	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.368+967T>G"	""	""	"ENST00000480669"	""	95	"73"	22	64	"64"	0	"MECOM,intron_variant,,ENST00000494292,NM_004991.3;MECOM,intron_variant,,ENST00000486748,;RP11-641D5.2,intron_variant,,ENST00000480669,;MECOM,intron_variant,,ENST00000485957,;"	"G"	"ENSG00000241479"	"ENST00000480669"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/535"	""	""	""	""	""	"1"	NA	1	"RP11-641D5.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"1129c80e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231578947368421	"WGS"	FALSE
"9356"	"PRKCI"	5584	"mskcc.org"	"GRCh37"	"3"	170000479	170000479	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1067+723T>C"	""	""	"ENST00000295797"	""	76	"68"	8	50	"50"	0	"PRKCI,intron_variant,,ENST00000295797,NM_002740.5;PRKCI,intron_variant,,ENST00000482353,;PRKCI,downstream_gene_variant,,ENST00000493761,;PRKCI,downstream_gene_variant,,ENST00000488541,;"	"C"	"ENSG00000163558"	"ENST00000295797"	"Transcript"	"intron_variant"	"-/4950"	"-/1791"	"-/596"	""	""	""	"1"	NA	1	"PRKCI"	"HGNC"	9404	"protein_coding"	"YES"	"CCDS3212.2"	"ENSP00000295797"	"P41743"	""	"UPI000020A798"	"NM_002740.5"	""	""	""	"11/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"112a210a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"9357"	"KLF7P1"	0	"mskcc.org"	"GRCh37"	"3"	170666347	170666347	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000490941"	""	69	"54"	15	27	"27"	0	"KLF7P1,downstream_gene_variant,,ENST00000490941,;"	"T"	"ENSG00000240704"	"ENST00000490941"	"Transcript"	"downstream_gene_variant"	"-/1048"	""	""	""	""	""	"1"	"4292"	-1	"KLF7P1"	"HGNC"	17207	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"112a4068-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"9358"	"TNIK"	23043	"mskcc.org"	"GRCh37"	"3"	170951600	170951600	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs77302946"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.124-5590C>T"	""	""	"ENST00000436636"	""	82	"66"	16	57	"57"	0	"TNIK,intron_variant,,ENST00000436636,NM_015028.2;TNIK,intron_variant,,ENST00000369326,NM_001161560.1,NM_001161566.1,NM_001161562.1,NM_001161561.1;TNIK,intron_variant,,ENST00000538048,NM_001161564.1,NM_001161563.1;TNIK,intron_variant,,ENST00000341852,NM_001161565.1;TNIK,intron_variant,,ENST00000284483,;TNIK,intron_variant,,ENST00000357327,;TNIK,intron_variant,,ENST00000470834,;TNIK,intron_variant,,ENST00000488470,;TNIK,intron_variant,,ENST00000460047,;TNIK,intron_variant,,ENST00000475336,;"	"A"	"ENSG00000154310"	"ENST00000436636"	"Transcript"	"intron_variant"	"-/6970"	"-/4083"	"-/1360"	""	""	"rs77302946"	"1"	NA	-1	"TNIK"	"HGNC"	30765	"protein_coding"	"YES"	"CCDS46956.1"	"ENSP00000399511"	"Q9UKE5"	""	"UPI000003ABDF"	"NM_015028.2"	""	""	""	"2/32"	""	"A:0.0110"	"A:0.0393"	"A:0.0029"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"112a487e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195121951219512	"WGS"	FALSE
"9359"	"RP11-324C10.1"	0	"mskcc.org"	"GRCh37"	"3"	172975734	172975734	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.23-1751T>A"	""	""	"ENST00000447709"	""	74	"53"	21	50	"50"	0	"RP11-324C10.1,intron_variant,,ENST00000447709,;"	"A"	"ENSG00000237473"	"ENST00000447709"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/470"	""	""	""	""	""	"1"	NA	1	"RP11-324C10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"112a97a2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283783783783784	"WGS"	FALSE
"9360"	"NLGN1"	22871	"mskcc.org"	"GRCh37"	"3"	173344949	173344949	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.493+22068G>T"	""	""	"ENST00000457714"	""	110	"87"	23	55	"55"	0	"NLGN1,intron_variant,,ENST00000457714,NM_014932.3;NLGN1,intron_variant,,ENST00000361589,;NLGN1,intron_variant,,ENST00000545397,;NLGN1,intron_variant,,ENST00000401917,;NLGN1,intron_variant,,ENST00000415045,;"	"T"	"ENSG00000169760"	"ENST00000457714"	"Transcript"	"intron_variant"	"-/8242"	"-/2472"	"-/823"	""	""	""	"1"	NA	1	"NLGN1"	"HGNC"	14291	"protein_coding"	"YES"	"CCDS3222.1"	"ENSP00000392500"	"Q8N2Q7"	""	"UPI0000072F54"	"NM_014932.3"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"112a9cd4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209090909090909	"WGS"	FALSE
"9361"	"NAALADL2"	254827	"mskcc.org"	"GRCh37"	"3"	174365701	174365701	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-114-89730G>C"	""	""	"ENST00000434257"	""	96	"89"	7	61	"61"	0	"NAALADL2,intron_variant,,ENST00000434257,;NAALADL2,intron_variant,,ENST00000491329,;NAALADL2,intron_variant,,ENST00000489729,;"	"C"	"ENSG00000177694"	"ENST00000434257"	"Transcript"	"intron_variant"	"-/574"	"-/345"	"-/115"	""	""	""	"1"	NA	1	"NAALADL2"	"HGNC"	23219	"protein_coding"	""	""	"ENSP00000409858"	""	"C9JQ86"	"UPI000198CBC8"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"112ac498-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0729166666666667	"WGS"	FALSE
"9362"	"NAALADL2"	254827	"mskcc.org"	"GRCh37"	"3"	175122171	175122171	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1091-42846C>A"	""	""	"ENST00000454872"	""	100	"86"	14	49	"49"	0	"NAALADL2,intron_variant,,ENST00000454872,NM_207015.2;NAALADL2,intron_variant,,ENST00000473253,;NAALADL2,intron_variant,,ENST00000489299,;NAALADL2,intron_variant,,ENST00000414826,;"	"A"	"ENSG00000177694"	"ENST00000454872"	"Transcript"	"intron_variant"	"-/4953"	"-/2388"	"-/795"	""	""	""	"1"	NA	1	"NAALADL2"	"HGNC"	23219	"protein_coding"	"YES"	"CCDS46960.1"	"ENSP00000404705"	"Q58DX5"	"C9JQ86"	"UPI0000161608"	"NM_207015.2"	""	""	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"112ae40a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.14	"WGS"	FALSE
"9363"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	175571503	175571503	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"75"	25	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"112af346-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"9364"	"RP11-644C3.1"	0	"mskcc.org"	"GRCh37"	"3"	176469703	176469703	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.199-95184C>T"	""	""	"ENST00000428516"	""	47	"39"	8	25	"25"	0	"RP11-644C3.1,intron_variant,,ENST00000428516,;"	"A"	"ENSG00000232461"	"ENST00000428516"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/678"	""	""	""	""	""	"1"	NA	-1	"RP11-644C3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"112b0ae8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170212765957447	"WGS"	FALSE
"9365"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	177146369	177146369	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"56"	20	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"112b4da0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"9366"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	179034584	179034584	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"74"	19	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"112b95e4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204301075268817	"WGS"	FALSE
"9367"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	179871157	179871157	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"85"	23	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"112bc51e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212962962962963	"WGS"	FALSE
"9368"	"CCDC39-AS1"	0	"mskcc.org"	"GRCh37"	"3"	180406768	180406768	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.107+8790A>T"	""	""	"ENST00000495357"	""	89	"69"	20	53	"53"	0	"CCDC39,intron_variant,,ENST00000273654,;CCDC39,intron_variant,,ENST00000471307,;CCDC39-AS1,intron_variant,,ENST00000495357,;CCDC39,intron_variant,,ENST00000476379,;"	"T"	"ENSG00000243187"	"ENST00000495357"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/283"	""	""	""	""	""	"1"	NA	1	"CCDC39-AS1"	"HGNC"	41089	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"112bd608-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224719101123595	"WGS"	FALSE
"9369"	"SOX2-OT"	347689	"mskcc.org"	"GRCh37"	"3"	180880016	180880016	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.149-13286T>A"	""	""	"ENST00000493521"	""	90	"75"	15	56	"56"	0	"SOX2-OT,intron_variant,,ENST00000493521,;SOX2-OT,intron_variant,,ENST00000460739,;SOX2-OT,intron_variant,,ENST00000461063,;"	"A"	"ENSG00000242808"	"ENST00000493521"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1239"	""	""	""	""	""	"1"	NA	1	"SOX2-OT"	"HGNC"	20209	"sense_overlapping"	""	""	""	""	""	""	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"112be5f8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"9370"	"ATP11B"	23200	"mskcc.org"	"GRCh37"	"3"	182588126	182588126	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1866+1007C>T"	""	""	"ENST00000323116"	""	88	"67"	21	51	"51"	0	"ATP11B,intron_variant,,ENST00000323116,NM_014616.2;ATP11B,intron_variant,,ENST00000498086,;ATP11B,intron_variant,,ENST00000490303,;ATP11B,upstream_gene_variant,,ENST00000466758,;"	"T"	"ENSG00000058063"	"ENST00000323116"	"Transcript"	"intron_variant"	"-/7325"	"-/3534"	"-/1177"	""	""	""	"1"	NA	1	"ATP11B"	"HGNC"	13553	"protein_coding"	"YES"	"CCDS33896.1"	"ENSP00000321195"	"Q9Y2G3"	"B4E3T1"	"UPI000004124E"	"NM_014616.2"	""	""	""	"17/29"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"112c2504-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238636363636364	"WGS"	FALSE
"9371"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	185291306	185291306	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"70"	26	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"112d3a0c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270833333333333	"WGS"	FALSE
"9372"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	186320558	186320558	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs566024941"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"76"	26	55	"54"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs566024941"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"112dbac2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254901960784314	"WGS"	FALSE
"9373"	"TMEM207"	131920	"mskcc.org"	"GRCh37"	"3"	190159410	190159410	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.114-139G>C"	""	""	"ENST00000354905"	""	112	"90"	22	44	"44"	0	"TMEM207,intron_variant,,ENST00000354905,NM_207316.1;"	"G"	"ENSG00000198398"	"ENST00000354905"	"Transcript"	"intron_variant"	"-/1448"	"-/441"	"-/146"	""	""	""	"1"	NA	-1	"TMEM207"	"HGNC"	33705	"protein_coding"	"YES"	"CCDS3297.1"	"ENSP00000346981"	"Q6UWW9"	""	"UPI0000048F12"	"NM_207316.1"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"112f284e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196428571428571	"WGS"	FALSE
"9374"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	190840296	190840296	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"53"	6	52	"52"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"112f61ba-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101694915254237	"WGS"	FALSE
"9375"	"CPN2"	1370	"mskcc.org"	"GRCh37"	"3"	194059547	194059547	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"rs759544667"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000323830"	""	95	"90"	5	50	"50"	0	"CPN2,downstream_gene_variant,,ENST00000323830,NM_001080513.2;CPN2,downstream_gene_variant,,ENST00000429275,;"	"A"	"ENSG00000178772"	"ENST00000323830"	"Transcript"	"downstream_gene_variant"	"-/3028"	"-/1638"	"-/545"	""	""	"rs759544667"	"1"	"947"	-1	"CPN2"	"HGNC"	2313	"protein_coding"	"YES"	"CCDS33920.1"	"ENSP00000319464"	"P22792"	""	"UPI0001AE76B7"	"NM_001080513.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"11304dbe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0526315789473684	"WGS"	FALSE
"9376"	"XXYLT1"	152002	"mskcc.org"	"GRCh37"	"3"	194981773	194981773	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.504+9511G>C"	""	""	"ENST00000310380"	""	87	"64"	23	67	"67"	0	"XXYLT1,intron_variant,,ENST00000310380,NM_152531.4;XXYLT1,upstream_gene_variant,,ENST00000494175,;XXYLT1,intron_variant,,ENST00000455281,;"	"G"	"ENSG00000173950"	"ENST00000310380"	"Transcript"	"intron_variant"	"-/2727"	"-/1182"	"-/393"	""	""	""	"1"	NA	-1	"XXYLT1"	"HGNC"	26639	"protein_coding"	"YES"	"CCDS43188.1"	"ENSP00000309640"	"Q8NBI6"	""	"UPI000003B10F"	"NM_152531.4"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"1130e45e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264367816091954	"WGS"	FALSE
"9377"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	195200001	195200001	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs373653963"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	37	"30"	7	33	"33"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs373653963"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"113110aa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189189189189189	"WGS"	FALSE
"9378"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	195214141	195214141	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"37"	4	39	"39"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"11311942-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WGS"	FALSE
"9379"	"SDHAP1"	727956	"mskcc.org"	"GRCh37"	"3"	195688767	195688767	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2325+1404T>C"	""	""	"ENST00000427841"	""	40	"35"	5	24	"24"	0	"SDHAP1,intron_variant,,ENST00000427841,;SDHAP1,intron_variant,,ENST00000427149,;SDHAP1,downstream_gene_variant,,ENST00000354559,;SDHAP1,intron_variant,,ENST00000354937,;SDHAP1,downstream_gene_variant,,ENST00000440850,;"	"G"	"ENSG00000185485"	"ENST00000427841"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2491"	""	""	""	""	""	"1"	NA	-1	"SDHAP1"	"HGNC"	32455	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"16/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"1133e30c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"9380"	"SDHAP1"	727956	"mskcc.org"	"GRCh37"	"3"	195688800	195688800	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2325+1371C>G"	""	""	"ENST00000427841"	""	43	"36"	7	25	"25"	0	"SDHAP1,intron_variant,,ENST00000427841,;SDHAP1,intron_variant,,ENST00000427149,;SDHAP1,downstream_gene_variant,,ENST00000354559,;SDHAP1,intron_variant,,ENST00000354937,;SDHAP1,downstream_gene_variant,,ENST00000440850,;"	"C"	"ENSG00000185485"	"ENST00000427841"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2491"	""	""	""	""	""	"1"	NA	-1	"SDHAP1"	"HGNC"	32455	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"16/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"1133e73a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162790697674419	"WGS"	FALSE
"9381"	"UBXN7"	26043	"mskcc.org"	"GRCh37"	"3"	196134164	196134164	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.174G>A"	"p.="	"p.E58E"	"ENST00000296328"	"2/11"	94	"75"	19	52	"52"	0	"UBXN7,synonymous_variant,p.=,ENST00000296328,NM_015562.1;UBXN7,synonymous_variant,p.=,ENST00000381887,;UBXN7,synonymous_variant,p.=,ENST00000413584,;UBXN7,intron_variant,,ENST00000535858,;UBXN7,intron_variant,,ENST00000428095,;UBXN7,non_coding_transcript_exon_variant,,ENST00000493566,;UBXN7,intron_variant,,ENST00000429160,;"	"T"	"ENSG00000163960"	"ENST00000296328"	"Transcript"	"synonymous_variant"	"249/10568"	"174/1470"	"58/489"	"E"	"gaG/gaA"	""	"1"	NA	-1	"UBXN7"	"HGNC"	29119	"protein_coding"	"YES"	"CCDS43191.1"	"ENSP00000296328"	"O94888"	"F5GYB1,C9JD50,C9JAT7"	"UPI00001C1DEF"	"NM_015562.1"	""	""	"2/11"	""	"PIRSF_domain:PIRSF037991,hmmpanther:PTHR23322,hmmpanther:PTHR23322:SF6"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"1134ab70-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202127659574468	"WGS"	FALSE
"9382"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	196270029	196270029	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"55"	7	37	"37"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"1134e022-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112903225806452	"WGS"	FALSE
"9383"	"LINC01063"	101929769	"mskcc.org"	"GRCh37"	"3"	196356654	196356654	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000441644"	""	99	"72"	27	61	"60"	1	"LINC01063,downstream_gene_variant,,ENST00000441644,;"	"A"	"ENSG00000232065"	"ENST00000441644"	"Transcript"	"downstream_gene_variant"	"-/348"	""	""	""	""	""	"1"	"1715"	-1	"LINC01063"	"HGNC"	49092	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"1134e6c6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"9384"	"ANKRD18DP"	348840	"mskcc.org"	"GRCh37"	"3"	197812267	197812267	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000435620"	""	84	"69"	15	58	"58"	0	"ANKRD18DP,upstream_gene_variant,,ENST00000435620,;ANKRD18DP,upstream_gene_variant,,ENST00000335478,;ANKRD18DP,upstream_gene_variant,,ENST00000455355,;"	"T"	"ENSG00000226435"	"ENST00000435620"	"Transcript"	"upstream_gene_variant"	"-/2897"	""	""	""	""	""	"1"	"4725"	-1	"ANKRD18DP"	"HGNC"	28016	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"1136f808-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"9385"	"MAEA"	10296	"mskcc.org"	"GRCh37"	"4"	1313928	1313928	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.457-2241G>A"	""	""	"ENST00000303400"	""	41	"35"	6	35	"35"	0	"MAEA,intron_variant,,ENST00000303400,NM_001017405.1;MAEA,intron_variant,,ENST00000264750,NM_005882.3;MAEA,intron_variant,,ENST00000514708,;MAEA,intron_variant,,ENST00000510794,;MAEA,intron_variant,,ENST00000505839,;MAEA,intron_variant,,ENST00000505177,;MAEA,intron_variant,,ENST00000452175,;MAEA,intron_variant,,ENST00000503653,;MAEA,intron_variant,,ENST00000502558,;MAEA,intron_variant,,ENST00000512842,;MAEA,intron_variant,,ENST00000503693,;MAEA,intron_variant,,ENST00000509531,;MAEA,intron_variant,,ENST00000512308,;MAEA,intron_variant,,ENST00000509254,;MAEA,intron_variant,,ENST00000513301,;"	"A"	"ENSG00000090316"	"ENST00000303400"	"Transcript"	"intron_variant"	"-/2222"	"-/1191"	"-/396"	""	""	""	"1"	NA	1	"MAEA"	"HGNC"	13731	"protein_coding"	"YES"	"CCDS33936.1"	"ENSP00000302830"	"Q7L5Y9"	"D6RID6,D3DVP1,B4DQT1,B3KXS8"	"UPI00000343F4"	"NM_001017405.1"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"113a9044-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146341463414634	"WGS"	FALSE
"9386"	"FAM86EP"	0	"mskcc.org"	"GRCh37"	"4"	3940730	3940730	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000313946"	""	90	"72"	18	54	"54"	0	"AC226119.5,intron_variant,,ENST00000514073,;FAM86EP,downstream_gene_variant,,ENST00000313946,;FAM86EP,downstream_gene_variant,,ENST00000511488,;FAM86EP,downstream_gene_variant,,ENST00000510565,;FAM86EP,downstream_gene_variant,,ENST00000507301,;ALG1L7P,intron_variant,,ENST00000502317,;ALG1L7P,intron_variant,,ENST00000546233,;FAM86EP,downstream_gene_variant,,ENST00000510506,;"	"A"	"ENSG00000251669"	"ENST00000313946"	"Transcript"	"downstream_gene_variant"	"-/2845"	""	""	""	""	""	"1"	"2757"	-1	"FAM86EP"	"HGNC"	28017	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"113d194a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"9387"	"PPP2R2C"	5522	"mskcc.org"	"GRCh37"	"4"	6550648	6550648	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-58-13544C>T"	""	""	"ENST00000506140"	""	87	"65"	22	52	"52"	0	"PPP2R2C,intron_variant,,ENST00000506140,NM_001206994.1;PPP2R2C,intron_variant,,ENST00000507294,NM_001206995.1;"	"A"	"ENSG00000074211"	"ENST00000506140"	"Transcript"	"intron_variant"	"-/1780"	"-/1323"	"-/440"	""	""	""	"1"	NA	-1	"PPP2R2C"	"HGNC"	9306	"protein_coding"	""	"CCDS56305.1"	"ENSP00000423649"	"Q9Y2T4"	""	"UPI0000EE6E13"	"NM_001206994.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"113e969e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252873563218391	"WGS"	FALSE
"9388"	"TBC1D14"	57533	"mskcc.org"	"GRCh37"	"4"	7028281	7028281	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2016+1292A>G"	""	""	"ENST00000409757"	""	92	"74"	18	58	"58"	0	"TBC1D14,intron_variant,,ENST00000409757,NM_020773.2;TBC1D14,intron_variant,,ENST00000448507,NM_001113361.1;TBC1D14,intron_variant,,ENST00000410031,;TBC1D14,intron_variant,,ENST00000451522,NM_001113363.1,NM_001286805.1;TBC1D14,intron_variant,,ENST00000446947,;RP11-367J11.2,downstream_gene_variant,,ENST00000500031,;"	"G"	"ENSG00000132405"	"ENST00000409757"	"Transcript"	"intron_variant"	"-/4925"	"-/2082"	"-/693"	""	""	""	"1"	NA	1	"TBC1D14"	"HGNC"	29246	"protein_coding"	"YES"	"CCDS3394.2"	"ENSP00000386921"	"Q9P2M4"	"C9JP26,C9J541"	"UPI000020BAB6"	"NM_020773.2"	""	""	""	"13/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"113eef5e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195652173913043	"WGS"	FALSE
"9389"	"FAM184B"	27146	"mskcc.org"	"GRCh37"	"4"	17702813	17702813	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs756105736"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1377+3810G>A"	""	""	"ENST00000265018"	""	81	"58"	23	53	"53"	0	"FAM184B,intron_variant,,ENST00000265018,NM_015688.1;"	"T"	"ENSG00000047662"	"ENST00000265018"	"Transcript"	"intron_variant"	"-/6622"	"-/3183"	"-/1060"	""	""	"rs756105736"	"1"	NA	-1	"FAM184B"	"HGNC"	29235	"protein_coding"	"YES"	"CCDS47033.1"	"ENSP00000265018"	"Q9ULE4"	""	"UPI000020BD7C"	"NM_015688.1"	""	""	""	"5/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"11436c0a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283950617283951	"WGS"	FALSE
"9390"	"ENSR00001429859"	0	"mskcc.org"	"GRCh37"	"4"	18697370	18697370	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001429859"	""	90	"73"	17	61	"61"	0	""	"T"	""	"ENSR00001429859"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"11439ea0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188888888888889	"WGS"	FALSE
"9391"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	18892980	18892980	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"68"	23	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"1143b1ba-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252747252747253	"WGS"	FALSE
"9392"	"SLIT2"	9353	"mskcc.org"	"GRCh37"	"4"	20519951	20519951	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1059-1054T>C"	""	""	"ENST00000504154"	""	39	"34"	5	34	"34"	0	"SLIT2,intron_variant,,ENST00000504154,NM_004787.1;SLIT2,intron_variant,,ENST00000503823,;SLIT2,intron_variant,,ENST00000273739,;SLIT2,intron_variant,,ENST00000503837,;"	"C"	"ENSG00000145147"	"ENST00000504154"	"Transcript"	"intron_variant"	"-/6390"	"-/4590"	"-/1529"	""	""	""	"1"	NA	1	"SLIT2"	"HGNC"	11086	"protein_coding"	"YES"	"CCDS3426.1"	"ENSP00000422591"	"O94813"	"Q4W5N0,Q4W5K2,B3KNE2"	"UPI00000747E4"	"NM_004787.1"	""	""	""	"11/36"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"1143f8e6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128205128205128	"WGS"	FALSE
"9393"	"GPR125"	166647	"mskcc.org"	"GRCh37"	"4"	22450131	22450131	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.474-997G>T"	""	""	"ENST00000334304"	""	79	"59"	20	43	"43"	0	"GPR125,intron_variant,,ENST00000334304,NM_145290.3;GPR125,intron_variant,,ENST00000502482,;GPR125,intron_variant,,ENST00000514129,;GPR125,intron_variant,,ENST00000282943,;GPR125,intron_variant,,ENST00000506133,;GPR125,intron_variant,,ENST00000513385,;GPR125,intron_variant,,ENST00000514749,;"	"A"	"ENSG00000152990"	"ENST00000334304"	"Transcript"	"intron_variant"	"-/4557"	"-/3966"	"-/1321"	""	""	""	"1"	NA	-1	"GPR125"	"HGNC"	13839	"protein_coding"	"YES"	"CCDS33964.1"	"ENSP00000334952"	"Q8IWK6"	"Q6JN45,D6RER4,D6RDX4"	"UPI00001D7735"	"NM_145290.3"	""	""	""	"4/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"114451ce-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253164556962025	"WGS"	FALSE
"9394"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	24013579	24013579	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"79"	16	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"1144b268-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168421052631579	"WGS"	FALSE
"9395"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	26042650	26042650	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"78"	21	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"1145536c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212121212121212	"WGS"	FALSE
"9396"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	27411569	27411569	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"64"	18	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"1145cb9e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219512195121951	"WGS"	FALSE
"9397"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	27622209	27622209	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"74"	13	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"1145d828-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.149425287356322	"WGS"	FALSE
"9398"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	30123656	30123656	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"66"	9	44	"44"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"11463a2a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"9399"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	30234831	30234831	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"92"	14	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"11463df4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.132075471698113	"WGS"	FALSE
"9400"	"PCDH7"	5099	"mskcc.org"	"GRCh37"	"4"	30757999	30757999	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3174+31781C>T"	""	""	"ENST00000543491"	""	93	"73"	20	41	"41"	0	"PCDH7,intron_variant,,ENST00000511884,NM_001173523.1,NM_032457.3;PCDH7,intron_variant,,ENST00000543491,;"	"T"	"ENSG00000169851"	"ENST00000543491"	"Transcript"	"intron_variant"	"-/3768"	"-/3768"	"-/1255"	""	""	""	"1"	NA	1	"PCDH7"	"HGNC"	8659	"protein_coding"	"YES"	"CCDS54753.1"	"ENSP00000441802"	""	"F5GWJ1"	"UPI0001CB27C3"	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"114652d0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21505376344086	"WGS"	FALSE
"9401"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	33287526	33287526	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"84"	12	56	"56"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"11469c68-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"9402"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	35202601	35202601	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"69"	14	32	"32"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"1146d5a2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168674698795181	"WGS"	FALSE
"9403"	"DTHD1"	401124	"mskcc.org"	"GRCh37"	"4"	36283054	36283054	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000456874"	""	102	"74"	28	70	"70"	0	"DTHD1,upstream_gene_variant,,ENST00000456874,NM_001170700.2;DTHD1,upstream_gene_variant,,ENST00000357504,NM_001136536.4;DTHD1,upstream_gene_variant,,ENST00000507598,;"	"A"	"ENSG00000197057"	"ENST00000456874"	"Transcript"	"upstream_gene_variant"	"-/4335"	"-/2346"	"-/781"	""	""	""	"1"	"2590"	1	"DTHD1"	"HGNC"	37261	"protein_coding"	"YES"	"CCDS54754.1"	"ENSP00000401597"	"Q6ZMT9"	""	"UPI00006C079E"	"NM_001170700.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"1146f8ac-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274509803921569	"WGS"	FALSE
"9404"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	36472916	36472916	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"60"	15	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"1146fd2a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"9405"	"N4BP2"	55728	"mskcc.org"	"GRCh37"	"4"	40121007	40121007	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1821-545C>T"	""	""	"ENST00000261435"	""	103	"80"	23	44	"44"	0	"N4BP2,intron_variant,,ENST00000261435,NM_018177.4;N4BP2,intron_variant,,ENST00000513269,;N4BP2,intron_variant,,ENST00000511480,;"	"T"	"ENSG00000078177"	"ENST00000261435"	"Transcript"	"intron_variant"	"-/9744"	"-/5313"	"-/1770"	""	""	""	"1"	NA	1	"N4BP2"	"HGNC"	29851	"protein_coding"	"YES"	"CCDS3457.1"	"ENSP00000261435"	"Q86UW6"	"D6R9J2"	"UPI00001A962C"	"NM_018177.4"	""	""	""	"8/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"1147d088-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223300970873786	"WGS"	FALSE
"9406"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	43673925	43673925	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"80"	25	53	"53"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"11490048-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WGS"	FALSE
"9407"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	45764129	45764129	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs143785964"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"72"	16	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143785964"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"11497b7c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"9408"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	49126471	49126471	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	28	"21"	7	8	"8"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"114ee5da-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"9409"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	49139061	49139061	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	65	"60"	5	27	"27"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"11504f74-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"9410"	"SNX18P24"	0	"mskcc.org"	"GRCh37"	"4"	49563566	49563566	"+"	"RNA"	"SNP"	"T"	"T"	"A"	"rs576620714"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.71T>A"	""	""	"ENST00000505249"	"1/1"	136	"116"	20	88	"88"	0	"SNX18P24,non_coding_transcript_exon_variant,,ENST00000505249,;RP11-241F15.7,downstream_gene_variant,,ENST00000513357,;RP11-241F15.9,upstream_gene_variant,,ENST00000416712,;"	"A"	"ENSG00000251539"	"ENST00000505249"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"71/671"	""	""	""	""	"rs576620714"	"1"	NA	1	"SNX18P24"	"HGNC"	39632	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"11579f2c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"9411"	"SCFD2"	152579	"mskcc.org"	"GRCh37"	"4"	53962557	53962557	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1561+48943T>C"	""	""	"ENST00000401642"	""	96	"78"	18	55	"55"	0	"SCFD2,intron_variant,,ENST00000401642,NM_152540.3;SCFD2,intron_variant,,ENST00000388940,;"	"G"	"ENSG00000184178"	"ENST00000401642"	"Transcript"	"intron_variant"	"-/3176"	"-/2055"	"-/684"	""	""	""	"1"	NA	-1	"SCFD2"	"HGNC"	30676	"protein_coding"	"YES"	"CCDS33984.1"	"ENSP00000384182"	"Q8WU76"	"D6RCK6"	"UPI000006FB05"	"NM_152540.3"	""	""	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"11599ec6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"9412"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	59992251	59992251	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"82"	20	75	"75"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"115a97e0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196078431372549	"WGS"	FALSE
"9413"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	60229354	60229354	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"79"	10	72	"72"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"115aa2bc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112359550561798	"WGS"	FALSE
"9414"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	64689992	64689992	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"79"	11	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"115b2872-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122222222222222	"WGS"	FALSE
"9415"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	64871669	64871669	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"109"	6	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"115b2d90-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0521739130434783	"WGS"	FALSE
"9416"	"EPHA5"	2044	"mskcc.org"	"GRCh37"	"4"	66296840	66296840	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1403-10557G>T"	""	""	"ENST00000273854"	""	102	"85"	17	49	"49"	0	"EPHA5,intron_variant,,ENST00000273854,NM_004439.5,NM_001281765.1;EPHA5,intron_variant,,ENST00000511294,NM_001281767.1;EPHA5,intron_variant,,ENST00000432638,;EPHA5,intron_variant,,ENST00000354839,NM_182472.2;"	"A"	"ENSG00000145242"	"ENST00000273854"	"Transcript"	"intron_variant"	"-/8266"	"-/3114"	"-/1037"	""	""	""	"1"	NA	-1	"EPHA5"	"HGNC"	3389	"protein_coding"	"YES"	"CCDS3513.1"	"ENSP00000273854"	"P54756"	""	"UPI000013D9D9"	"NM_004439.5,NM_001281765.1"	""	""	""	"5/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"115b5856-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"9417"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	68225277	68225277	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"73"	16	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"115b9582-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179775280898876	"WGS"	FALSE
"9418"	"UBA6-AS1"	550112	"mskcc.org"	"GRCh37"	"4"	68896665	68896665	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1906-31660G>A"	""	""	"ENST00000500538"	""	100	"81"	19	46	"46"	0	"UBA6-AS1,intron_variant,,ENST00000500538,;"	"A"	"ENSG00000248049"	"ENST00000500538"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3352"	""	""	""	""	""	"1"	NA	1	"UBA6-AS1"	"HGNC"	49083	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"115bb044-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19	"WGS"	FALSE
"9419"	"ANKRD17"	26057	"mskcc.org"	"GRCh37"	"4"	73943047	73943047	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7587+25T>C"	""	""	"ENST00000358602"	""	99	"69"	30	54	"54"	0	"ANKRD17,intron_variant,,ENST00000358602,NM_032217.3;ANKRD17,intron_variant,,ENST00000558247,;ANKRD17,intron_variant,,ENST00000509867,NM_001286771.1;ANKRD17,intron_variant,,ENST00000330838,NM_198889.1;ANKRD17,downstream_gene_variant,,ENST00000510127,;"	"G"	"ENSG00000132466"	"ENST00000358602"	"Transcript"	"intron_variant"	"-/10784"	"-/7812"	"-/2603"	""	""	""	"1"	NA	-1	"ANKRD17"	"HGNC"	23575	"protein_coding"	"YES"	"CCDS34004.1"	"ENSP00000351416"	"O75179"	""	"UPI00002263B0"	"NM_032217.3"	""	""	""	"32/33"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"115c67f0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303030303030303	"WGS"	FALSE
"9420"	"RP11-580P21.1"	0	"mskcc.org"	"GRCh37"	"4"	74198653	74198653	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000510511"	""	109	"94"	15	53	"53"	0	"RP11-580P21.1,downstream_gene_variant,,ENST00000510511,;"	"C"	"ENSG00000249976"	"ENST00000510511"	"Transcript"	"downstream_gene_variant"	"-/539"	""	""	""	""	""	"1"	"4297"	-1	"RP11-580P21.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"115c7916-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137614678899083	"WGS"	FALSE
"9421"	"AFM"	173	"mskcc.org"	"GRCh37"	"4"	74354561	74354561	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.843+85A>G"	""	""	"ENST00000226355"	""	100	"74"	26	52	"52"	0	"AFM,intron_variant,,ENST00000226355,NM_001133.2;"	"G"	"ENSG00000079557"	"ENST00000226355"	"Transcript"	"intron_variant"	"-/2032"	"-/1800"	"-/599"	""	""	""	"1"	NA	1	"AFM"	"HGNC"	316	"protein_coding"	"YES"	"CCDS3557.1"	"ENSP00000226355"	"P43652"	""	"UPI000012565D"	"NM_001133.2"	""	""	""	"7/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"115c7db2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26	"WGS"	FALSE
"9422"	"CDKL2"	8999	"mskcc.org"	"GRCh37"	"4"	76527443	76527443	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.795+1558T>A"	""	""	"ENST00000429927"	""	75	"70"	5	51	"51"	0	"CDKL2,intron_variant,,ENST00000429927,NM_003948.3;CDKL2,intron_variant,,ENST00000307465,;CDKL2,intron_variant,,ENST00000506234,;"	"T"	"ENSG00000138769"	"ENST00000429927"	"Transcript"	"intron_variant"	"-/3383"	"-/1482"	"-/493"	""	""	""	"1"	NA	-1	"CDKL2"	"HGNC"	1782	"protein_coding"	"YES"	"CCDS3570.1"	"ENSP00000412365"	"Q92772"	""	"UPI000006D070"	"NM_003948.3"	""	""	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"115cbd7c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"9423"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	78024039	78024039	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	29	"24"	5	16	"16"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"115cfb70-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WGS"	FALSE
"9424"	"CCNG2"	901	"mskcc.org"	"GRCh37"	"4"	78109415	78109415	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000354403"	""	78	"63"	15	45	"45"	0	"CCNG2,downstream_gene_variant,,ENST00000354403,;CCNG2,intron_variant,,ENST00000497512,;CCNG2,intron_variant,,ENST00000514756,;"	"T"	"ENSG00000138764"	"ENST00000354403"	"Transcript"	"downstream_gene_variant"	"-/1338"	"-/1035"	"-/344"	""	""	""	"1"	"3153"	1	"CCNG2"	"HGNC"	1593	"protein_coding"	""	""	"ENSP00000346379"	""	"Q8N5D4,D6RHI3"	"UPI000006CE99"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"115cfdfa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WGS"	FALSE
"9425"	"RP11-689K5.3"	0	"mskcc.org"	"GRCh37"	"4"	82914872	82914872	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.244+50282A>T"	""	""	"ENST00000510780"	""	92	"87"	5	53	"53"	0	"RASGEF1B,intron_variant,,ENST00000512716,;RP11-689K5.3,intron_variant,,ENST00000510780,;RP11-689K5.3,intron_variant,,ENST00000508294,;RP11-689K5.3,intron_variant,,ENST00000512343,;RP11-689K5.3,intron_variant,,ENST00000514050,;"	"A"	"ENSG00000251331"	"ENST00000510780"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/539"	""	""	""	""	""	"1"	NA	-1	"RP11-689K5.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"115db826-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0543478260869565	"WGS"	FALSE
"9426"	"TMEM150C"	441027	"mskcc.org"	"GRCh37"	"4"	83429136	83429136	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10-3316T>C"	""	""	"ENST00000515780"	""	81	"68"	13	43	"43"	0	"TMEM150C,intron_variant,,ENST00000515780,;TMEM150C,intron_variant,,ENST00000449862,NM_001080506.1;TMEM150C,intron_variant,,ENST00000508701,;TMEM150C,intron_variant,,ENST00000454948,;"	"G"	"ENSG00000249242"	"ENST00000515780"	"Transcript"	"intron_variant"	"-/3296"	"-/750"	"-/249"	""	""	""	"1"	NA	-1	"TMEM150C"	"HGNC"	37263	"protein_coding"	"YES"	"CCDS47087.1"	"ENSP00000420919"	"B9EJG8"	"D6RDW6"	"UPI000020B0D7"	""	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"115dd860-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.160493827160494	"WGS"	FALSE
"9427"	"LIN54"	132660	"mskcc.org"	"GRCh37"	"4"	83870291	83870291	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.952-2664A>G"	""	""	"ENST00000340417"	""	75	"59"	16	45	"45"	0	"LIN54,intron_variant,,ENST00000340417,NM_194282.2;LIN54,intron_variant,,ENST00000395282,;LIN54,intron_variant,,ENST00000395283,;LIN54,intron_variant,,ENST00000442461,NM_001115008.1;LIN54,intron_variant,,ENST00000446851,;LIN54,intron_variant,,ENST00000506560,;LIN54,intron_variant,,ENST00000505397,;LIN54,intron_variant,,ENST00000510557,NM_001115007.1;snoR442,upstream_gene_variant,,ENST00000517025,;Y_RNA,upstream_gene_variant,,ENST00000362660,;LIN54,intron_variant,,ENST00000510877,;LIN54,intron_variant,,ENST00000508171,;"	"C"	"ENSG00000189308"	"ENST00000340417"	"Transcript"	"intron_variant"	"-/6127"	"-/2250"	"-/749"	""	""	""	"1"	NA	-1	"LIN54"	"HGNC"	25397	"protein_coding"	"YES"	"CCDS3599.1"	"ENSP00000341947"	"Q6MZP7"	""	"UPI00001D75DE"	"NM_194282.2"	""	""	""	"4/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"115dee22-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213333333333333	"WGS"	FALSE
"9428"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	85237941	85237941	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"56"	25	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"115e4084-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308641975308642	"WGS"	FALSE
"9429"	"MAPK10"	5602	"mskcc.org"	"GRCh37"	"4"	87276496	87276496	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-121-699G>A"	""	""	"ENST00000359221"	""	96	"72"	24	52	"52"	0	"MAPK10,intron_variant,,ENST00000395169,NM_138980.2,NM_138982.2;MAPK10,intron_variant,,ENST00000395166,;MAPK10,intron_variant,,ENST00000359221,;MAPK10,intron_variant,,ENST00000449047,;MAPK10,intron_variant,,ENST00000361569,NM_002753.3;MAPK10,intron_variant,,ENST00000395161,;MAPK10,intron_variant,,ENST00000511167,;MAPK10,intron_variant,,ENST00000512689,;MAPK10,intron_variant,,ENST00000512017,;MAPK10,intron_variant,,ENST00000503911,;MAPK10,intron_variant,,ENST00000511328,;MAPK10,intron_variant,,ENST00000512564,;MAPK10,intron_variant,,ENST00000502302,;MAPK10,intron_variant,,ENST00000506773,;MAPK10,intron_variant,,ENST00000509464,;MAPK10,intron_variant,,ENST00000513186,;MAPK10,intron_variant,,ENST00000513839,;MAPK10,intron_variant,,ENST00000506385,;MAPK10,intron_variant,,ENST00000512046,;MAPK10,intron_variant,,ENST00000514856,;MAPK10,intron_variant,,ENST00000504397,;MAPK10,downstream_gene_variant,,ENST00000515650,;MAPK10,upstream_gene_variant,,ENST00000505356,;MAPK10,intron_variant,,ENST00000310816,;"	"T"	"ENSG00000109339"	"ENST00000359221"	"Transcript"	"intron_variant"	"-/2672"	"-/1395"	"-/464"	""	""	""	"1"	NA	-1	"MAPK10"	"HGNC"	6872	"protein_coding"	"YES"	"CCDS34026.1"	"ENSP00000352157"	"P53779"	"D6RJF9,D6RFZ7,D6RFX8,D6RDG1,D6RCB1,D6RC26,D6RBH2,D6RAU3,D6RAJ0,D6R9C1,B3KR72,A8MWW6"	"UPI0000049042"	""	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"115e9e76-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"9430"	"SPARCL1"	8404	"mskcc.org"	"GRCh37"	"4"	88418871	88418871	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.54+1802A>C"	""	""	"ENST00000418378"	""	97	"85"	12	50	"50"	0	"SPARCL1,intron_variant,,ENST00000418378,NM_001128310.1;SPARCL1,intron_variant,,ENST00000282470,NM_004684.4;SPARCL1,intron_variant,,ENST00000503414,;SPARCL1,intron_variant,,ENST00000434434,;SPARCL1,intron_variant,,ENST00000541496,;SPARCL1,intron_variant,,ENST00000512317,;SPARCL1,intron_variant,,ENST00000509407,;SPARCL1,intron_variant,,ENST00000543631,;SPARCL1,intron_variant,,ENST00000458304,;SPARCL1,intron_variant,,ENST00000535835,;"	"G"	"ENSG00000152583"	"ENST00000418378"	"Transcript"	"intron_variant"	"-/2994"	"-/1995"	"-/664"	""	""	""	"1"	NA	-1	"SPARCL1"	"HGNC"	11220	"protein_coding"	"YES"	"CCDS3622.1"	"ENSP00000414856"	"Q14515"	"F5H4Y3,F5H331,E9PC64,E7EU82,D6RA29,C9JJR8,B4E2Z0"	"UPI000013DCE3"	"NM_001128310.1"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"115edc56-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123711340206186	"WGS"	FALSE
"9431"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	95645481	95645481	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"80"	15	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"115fd426-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"9432"	"RP11-145G20.1"	0	"mskcc.org"	"GRCh37"	"4"	97642581	97642581	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.200-96835A>G"	""	""	"ENST00000522173"	""	92	"78"	14	57	"57"	0	"RP11-145G20.1,intron_variant,,ENST00000522173,;"	"G"	"ENSG00000248510"	"ENST00000522173"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/799"	""	""	""	""	""	"1"	NA	1	"RP11-145G20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"1160188c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152173913043478	"WGS"	FALSE
"9433"	"SLC39A8"	64116	"mskcc.org"	"GRCh37"	"4"	103170166	103170166	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000424970"	""	89	"80"	9	56	"56"	0	"SLC39A8,downstream_gene_variant,,ENST00000424970,NM_001135147.1;"	"C"	"ENSG00000138821"	"ENST00000424970"	"Transcript"	"downstream_gene_variant"	"-/4032"	"-/1335"	"-/444"	""	""	""	"1"	"2032"	-1	"SLC39A8"	"HGNC"	20862	"protein_coding"	""	"CCDS47117.1"	"ENSP00000394548"	"Q9C0K1"	""	"UPI00017A8813"	"NM_001135147.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"1160c232-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101123595505618	"WGS"	FALSE
"9434"	"SLC9B1"	150159	"mskcc.org"	"GRCh37"	"4"	103895510	103895510	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.211+15447A>T"	""	""	"ENST00000296422"	""	89	"81"	8	54	"54"	0	"SLC9B1,intron_variant,,ENST00000296422,NM_139173.3;SLC9B1,intron_variant,,ENST00000394789,NM_001100874.2;SLC9B1,intron_variant,,ENST00000514340,;SLC9B1,intron_variant,,ENST00000514972,;SLC9B1,intron_variant,,ENST00000503584,;SLC9B1,intron_variant,,ENST00000504216,;SLC9B1,intron_variant,,ENST00000510243,;"	"A"	"ENSG00000164037"	"ENST00000296422"	"Transcript"	"intron_variant"	"-/1879"	"-/1548"	"-/515"	""	""	""	"1"	NA	-1	"SLC9B1"	"HGNC"	24244	"protein_coding"	"YES"	"CCDS34041.1"	"ENSP00000296422"	"Q4ZJI4"	"D6RGI9"	"UPI000020B281"	"NM_139173.3"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"1160f310-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"9435"	"RP11-729M20.1"	0	"mskcc.org"	"GRCh37"	"4"	105285897	105285897	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.251-29802C>T"	""	""	"ENST00000514327"	""	95	"83"	12	51	"51"	0	"RP11-729M20.1,intron_variant,,ENST00000514327,;"	"T"	"ENSG00000251170"	"ENST00000514327"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/567"	""	""	""	""	""	"1"	NA	1	"RP11-729M20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"11612236-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126315789473684	"WGS"	FALSE
"9436"	"ENSR00001433852"	0	"mskcc.org"	"GRCh37"	"4"	107417042	107417042	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001433852"	""	88	"63"	25	63	"63"	0	""	"A"	""	"ENSR00001433852"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"11615fd0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284090909090909	"WGS"	FALSE
"9437"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	107520555	107520555	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"80"	16	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"1161649e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"9438"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	111964011	111964011	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"78"	27	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"11620368-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257142857142857	"WGS"	FALSE
"9439"	"TIFA"	92610	"mskcc.org"	"GRCh37"	"4"	113201776	113201776	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-18-2186C>G"	""	""	"ENST00000361717"	""	96	"76"	20	49	"49"	0	"TIFA,intron_variant,,ENST00000361717,NM_052864.2;TIFA,intron_variant,,ENST00000500655,;ALPK1,upstream_gene_variant,,ENST00000514594,;"	"C"	"ENSG00000145365"	"ENST00000361717"	"Transcript"	"intron_variant"	"-/4157"	"-/555"	"-/184"	""	""	""	"1"	NA	-1	"TIFA"	"HGNC"	19075	"protein_coding"	"YES"	"CCDS34051.1"	"ENSP00000354911"	"Q96CG3"	""	"UPI0000070568"	"NM_052864.2"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"11622c76-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WGS"	FALSE
"9440"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	113725421	113725421	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"62"	6	42	"42"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"116249e0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"9441"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	113725424	113725424	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"62"	7	39	"39"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"11624b2a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101449275362319	"WGS"	FALSE
"9442"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	117796643	117796643	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"82"	16	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"1162da9a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163265306122449	"WGS"	FALSE
"9443"	"AC092661.1"	0	"mskcc.org"	"GRCh37"	"4"	118468735	118468735	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.160-107227G>A"	""	""	"ENST00000422145"	""	102	"80"	22	65	"65"	0	"AC092661.1,intron_variant,,ENST00000422145,;"	"A"	"ENSG00000236922"	"ENST00000422145"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2516"	""	""	""	""	""	"1"	NA	1	"AC092661.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"1162ef9e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215686274509804	"WGS"	FALSE
"9444"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	118666548	118666548	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"79"	18	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"1162f732-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185567010309278	"WGS"	FALSE
"9445"	"NDST3"	9348	"mskcc.org"	"GRCh37"	"4"	119132775	119132775	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1540-12871G>T"	""	""	"ENST00000296499"	""	91	"76"	15	49	"49"	0	"NDST3,intron_variant,,ENST00000296499,NM_004784.2;NDST3,intron_variant,,ENST00000433996,;"	"T"	"ENSG00000164100"	"ENST00000296499"	"Transcript"	"intron_variant"	"-/5961"	"-/2622"	"-/873"	""	""	""	"1"	NA	1	"NDST3"	"HGNC"	7682	"protein_coding"	"YES"	"CCDS3708.1"	"ENSP00000296499"	"O95803"	""	"UPI0000071C44"	"NM_004784.2"	""	""	""	"6/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"116301d2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164835164835165	"WGS"	FALSE
"9446"	"NDST3"	9348	"mskcc.org"	"GRCh37"	"4"	119146459	119146459	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1722+631G>A"	""	""	"ENST00000296499"	""	97	"71"	26	60	"60"	0	"NDST3,intron_variant,,ENST00000296499,NM_004784.2;NDST3,intron_variant,,ENST00000433996,;"	"A"	"ENSG00000164100"	"ENST00000296499"	"Transcript"	"intron_variant"	"-/5961"	"-/2622"	"-/873"	""	""	""	"1"	NA	1	"NDST3"	"HGNC"	7682	"protein_coding"	"YES"	"CCDS3708.1"	"ENSP00000296499"	"O95803"	""	"UPI0000071C44"	"NM_004784.2"	""	""	""	"7/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"11630272-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268041237113402	"WGS"	FALSE
"9447"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	121424736	121424736	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"90"	19	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"11638dfa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174311926605505	"WGS"	FALSE
"9448"	"NDNF"	79625	"mskcc.org"	"GRCh37"	"4"	121982218	121982218	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-2+10930T>A"	""	""	"ENST00000379692"	""	92	"73"	19	73	"73"	0	"NDNF,intron_variant,,ENST00000379692,NM_024574.3;NDNF,intron_variant,,ENST00000515757,;NDNF,intron_variant,,ENST00000511408,;RN7SKP137,downstream_gene_variant,,ENST00000411074,;"	"T"	"ENSG00000173376"	"ENST00000379692"	"Transcript"	"intron_variant"	"-/2885"	"-/1707"	"-/568"	""	""	""	"1"	NA	-1	"NDNF"	"HGNC"	26256	"protein_coding"	"YES"	"CCDS3717.2"	"ENSP00000369014"	"Q8TB73"	"D6RF18,D6R972"	"UPI00001D6985"	"NM_024574.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"11639f7a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206521739130435	"WGS"	FALSE
"9449"	"TNIP3"	79931	"mskcc.org"	"GRCh37"	"4"	122092163	122092163	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.211-6862C>T"	""	""	"ENST00000509841"	""	100	"79"	21	50	"50"	0	"TNIP3,intron_variant,,ENST00000454328,;TNIP3,intron_variant,,ENST00000507879,NM_001128843.2;TNIP3,intron_variant,,ENST00000509841,NM_001244764.1;"	"A"	"ENSG00000050730"	"ENST00000509841"	"Transcript"	"intron_variant"	"-/1575"	"-/1131"	"-/376"	""	""	""	"1"	NA	-1	"TNIP3"	"HGNC"	19315	"protein_coding"	"YES"	"CCDS58926.1"	"ENSP00000426613"	"Q96KP6"	""	"UPI00017A8362"	"NM_001244764.1"	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"1163a164-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21	"WGS"	FALSE
"9450"	"LINC01091"	285419	"mskcc.org"	"GRCh37"	"4"	124700724	124700724	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs576243951"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.112+5194G>A"	""	""	"ENST00000515769"	""	82	"75"	7	44	"44"	0	"LINC01091,intron_variant,,ENST00000515769,;LINC01091,intron_variant,,ENST00000508111,;LINC01091,intron_variant,,ENST00000511919,;"	"A"	"ENSG00000249464"	"ENST00000515769"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2204"	""	""	""	""	"rs576243951"	"1"	NA	1	"LINC01091"	"HGNC"	27721	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"11640d5c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"9451"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	125320478	125320478	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"93"	15	62	"62"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"11641676-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138888888888889	"WGS"	FALSE
"9452"	"SCLT1"	132320	"mskcc.org"	"GRCh37"	"4"	129904240	129904240	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.686+9082A>T"	""	""	"ENST00000281142"	""	97	"90"	7	46	"46"	0	"SCLT1,intron_variant,,ENST00000281142,NM_144643.2;SCLT1,intron_variant,,ENST00000434680,;SCLT1,intron_variant,,ENST00000503215,;SCLT1,intron_variant,,ENST00000439369,;SCLT1,intron_variant,,ENST00000502495,;"	"A"	"ENSG00000151466"	"ENST00000281142"	"Transcript"	"intron_variant"	"-/3055"	"-/2067"	"-/688"	""	""	""	"1"	NA	-1	"SCLT1"	"HGNC"	26406	"protein_coding"	"YES"	"CCDS3740.1"	"ENSP00000281142"	"Q96NL6"	""	"UPI000013DC5F"	"NM_144643.2"	""	""	""	"9/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"1164cda0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0721649484536082	"WGS"	FALSE
"9453"	"ENSR00001249772"	0	"mskcc.org"	"GRCh37"	"4"	134546136	134546136	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001249772"	""	99	"72"	27	52	"52"	0	""	"T"	""	"ENSR00001249772"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"1165de2a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"9454"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	135290325	135290325	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"80"	26	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"1165ebea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245283018867925	"WGS"	FALSE
"9455"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	139494183	139494183	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"84"	7	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"11666f2a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"9456"	"NAA15"	80155	"mskcc.org"	"GRCh37"	"4"	140255830	140255830	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.139+418G>A"	""	""	"ENST00000296543"	""	112	"88"	24	53	"53"	0	"NAA15,intron_variant,,ENST00000296543,NM_057175.3;NAA15,intron_variant,,ENST00000398947,;NAA15,intron_variant,,ENST00000482087,;NAA15,upstream_gene_variant,,ENST00000480277,;"	"A"	"ENSG00000164134"	"ENST00000296543"	"Transcript"	"intron_variant"	"-/6222"	"-/2601"	"-/866"	""	""	""	"1"	NA	1	"NAA15"	"HGNC"	30782	"protein_coding"	"YES"	"CCDS43270.1"	"ENSP00000296543"	"Q9BXJ9"	""	"UPI000004B631"	"NM_057175.3"	""	""	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"1166b12e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"9457"	"IL15"	3600	"mskcc.org"	"GRCh37"	"4"	142612907	142612907	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-99-27612C>T"	""	""	"ENST00000296545"	""	91	"71"	20	55	"55"	0	"IL15,intron_variant,,ENST00000296545,;IL15,intron_variant,,ENST00000320650,NM_000585.4;IL15,intron_variant,,ENST00000514653,NM_172175.2;IL15,intron_variant,,ENST00000529613,;"	"T"	"ENSG00000164136"	"ENST00000296545"	"Transcript"	"intron_variant"	"-/2472"	"-/489"	"-/162"	""	""	""	"1"	NA	1	"IL15"	"HGNC"	5977	"protein_coding"	"YES"	"CCDS3755.1"	"ENSP00000296545"	"P40933"	""	"UPI0000031AC7"	""	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"11670c32-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21978021978022	"WGS"	FALSE
"9458"	"RP11-284M14.1"	0	"mskcc.org"	"GRCh37"	"4"	144078839	144078839	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.354+26822T>C"	""	""	"ENST00000507826"	""	94	"69"	25	42	"42"	0	"RP11-284M14.1,intron_variant,,ENST00000507826,;"	"G"	"ENSG00000250326"	"ENST00000507826"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/579"	""	""	""	""	""	"1"	NA	-1	"RP11-284M14.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"1167311c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265957446808511	"WGS"	FALSE
"9459"	"OTUD4"	54726	"mskcc.org"	"GRCh37"	"4"	146097250	146097250	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-36-1354C>G"	""	""	"ENST00000454497"	""	79	"73"	6	43	"43"	0	"OTUD4,intron_variant,,ENST00000454497,NM_001102653.1;OTUD4,intron_variant,,ENST00000447906,;OTUD4,intron_variant,,ENST00000514973,;OTUD4,intron_variant,,ENST00000296579,NM_017493.6;OTUD4,intron_variant,,ENST00000509620,;OTUD4,intron_variant,,ENST00000504501,;OTUD4,intron_variant,,ENST00000455611,;OTUD4,intron_variant,,ENST00000505976,;OTUD4,intron_variant,,ENST00000509985,;OTUD4,upstream_gene_variant,,ENST00000504331,;"	"C"	"ENSG00000164164"	"ENST00000454497"	"Transcript"	"intron_variant"	"-/7069"	"-/3150"	"-/1049"	""	""	""	"1"	NA	-1	"OTUD4"	"HGNC"	24949	"protein_coding"	"YES"	"CCDS47139.1"	"ENSP00000409279"	"Q01804"	"D6RA27"	"UPI0000DA6D4D"	"NM_001102653.1"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"11678d56-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"9460"	"SLC10A7"	84068	"mskcc.org"	"GRCh37"	"4"	147272605	147272605	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.436-25457T>A"	""	""	"ENST00000335472"	""	111	"90"	21	57	"57"	0	"SLC10A7,intron_variant,,ENST00000432059,;SLC10A7,intron_variant,,ENST00000335472,NM_001029998.3;SLC10A7,intron_variant,,ENST00000264986,;SLC10A7,intron_variant,,ENST00000394062,;SLC10A7,intron_variant,,ENST00000507030,;SLC10A7,intron_variant,,ENST00000507560,;"	"T"	"ENSG00000120519"	"ENST00000335472"	"Transcript"	"intron_variant"	"-/2798"	"-/1023"	"-/340"	""	""	""	"1"	NA	-1	"SLC10A7"	"HGNC"	23088	"protein_coding"	"YES"	"CCDS34073.1"	"ENSP00000334594"	"Q0GE19"	"B3KWW2"	"UPI000020B547"	"NM_001029998.3"	""	""	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"1167cce4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189189189189189	"WGS"	FALSE
"9461"	"ARHGAP10"	79658	"mskcc.org"	"GRCh37"	"4"	148683374	148683374	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.154+29768G>A"	""	""	"ENST00000336498"	""	89	"70"	19	51	"51"	0	"ARHGAP10,intron_variant,,ENST00000336498,NM_024605.3;ARHGAP10,intron_variant,,ENST00000510379,;"	"A"	"ENSG00000071205"	"ENST00000336498"	"Transcript"	"intron_variant"	"-/3299"	"-/2361"	"-/786"	""	""	""	"1"	NA	1	"ARHGAP10"	"HGNC"	26099	"protein_coding"	"YES"	"CCDS34075.1"	"ENSP00000336923"	"A1A4S6"	"Q8ND72,Q3KQX3"	"UPI000013EA63"	"NM_024605.3"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"1168068c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213483146067416	"WGS"	FALSE
"9462"	"RP11-18H21.3"	0	"mskcc.org"	"GRCh37"	"4"	153126248	153126248	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000504957"	""	90	"72"	18	58	"58"	0	"RP11-18H21.3,downstream_gene_variant,,ENST00000504957,;"	"G"	"ENSG00000251377"	"ENST00000504957"	"Transcript"	"downstream_gene_variant"	"-/495"	""	""	""	""	""	"1"	"2325"	-1	"RP11-18H21.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"1168c270-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"9463"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	155852131	155852131	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs575340931"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"55"	28	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs575340931"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0004"	"A:0.0008"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"116931b0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337349397590361	"WGS"	FALSE
"9464"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	158328985	158328985	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"68"	21	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"1169910a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235955056179775	"WGS"	FALSE
"9465"	"RP11-502M1.2"	0	"mskcc.org"	"GRCh37"	"4"	161503553	161503553	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.846-3845G>T"	""	""	"ENST00000512652"	""	87	"81"	6	45	"45"	0	"RP11-502M1.2,intron_variant,,ENST00000512652,;"	"T"	"ENSG00000249425"	"ENST00000512652"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1417"	""	""	""	""	""	"1"	NA	1	"RP11-502M1.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"116a0be4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"9466"	"MARCH1"	55016	"mskcc.org"	"GRCh37"	"4"	165228152	165228152	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-114+76187A>T"	""	""	"ENST00000503008"	""	90	"76"	14	62	"62"	0	"MARCH1,intron_variant,,ENST00000503008,NM_001166373.1;MARCH1,intron_variant,,ENST00000514618,;MARCH1,intron_variant,,ENST00000507270,;MARCH1,intron_variant,,ENST00000508725,;MARCH1,intron_variant,,ENST00000515471,;MARCH1,intron_variant,,ENST00000510075,;MARCH1,intron_variant,,ENST00000505391,;"	"A"	"ENSG00000145416"	"ENST00000503008"	"Transcript"	"intron_variant"	"-/5877"	"-/870"	"-/289"	""	""	""	"1"	NA	-1	"MARCH1"	"HGNC"	26077	"protein_coding"	"YES"	"CCDS54814.1"	"ENSP00000427223"	"Q8TCQ1"	"D6REN1"	"UPI0000037BB3"	"NM_001166373.1"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"116a785e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155555555555556	"WGS"	FALSE
"9467"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	168330157	168330157	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"72"	12	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"116b227c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"9468"	"MFAP3L"	9848	"mskcc.org"	"GRCh37"	"4"	170931957	170931957	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-133-4796A>C"	""	""	"ENST00000361618"	""	76	"69"	7	27	"27"	0	"MFAP3L,intron_variant,,ENST00000361618,NM_021647.6;MFAP3L,intron_variant,,ENST00000393702,;MFAP3L,intron_variant,,ENST00000504999,;MFAP3L,intron_variant,,ENST00000512698,;MFAP3L,intron_variant,,ENST00000507601,;MFAP3L,intron_variant,,ENST00000506110,;MFAP3L,intron_variant,,ENST00000506764,;MFAP3L,upstream_gene_variant,,ENST00000510306,;"	"G"	"ENSG00000198948"	"ENST00000361618"	"Transcript"	"intron_variant"	"-/6318"	"-/1230"	"-/409"	""	""	""	"1"	NA	-1	"MFAP3L"	"HGNC"	29083	"protein_coding"	"YES"	"CCDS34103.1"	"ENSP00000354583"	"O75121"	"D6RGZ8,D6RDM6,D6RCF0,D6RCC0,D6RAB5,D6R9L7"	"UPI0000073AA1"	"NM_021647.6"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"116ba382-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"9469"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	171029220	171029220	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"97"	16	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"116ba756-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141592920353982	"WGS"	FALSE
"9470"	"GALNTL6"	442117	"mskcc.org"	"GRCh37"	"4"	172919542	172919542	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.138+183673C>T"	""	""	"ENST00000506823"	""	79	"63"	16	48	"48"	0	"GALNTL6,intron_variant,,ENST00000506823,NM_001034845.2;"	"T"	"ENSG00000174473"	"ENST00000506823"	"Transcript"	"intron_variant"	"-/3922"	"-/1806"	"-/601"	""	""	""	"1"	NA	1	"GALNTL6"	"HGNC"	33844	"protein_coding"	"YES"	"CCDS34104.1"	"ENSP00000423313"	"Q49A17"	"E5D8G0"	"UPI000058EB5C"	"NM_001034845.2"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"116bd0be-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.20253164556962	"WGS"	FALSE
"9471"	"GALNTL6"	442117	"mskcc.org"	"GRCh37"	"4"	173080230	173080230	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.139-70577C>T"	""	""	"ENST00000506823"	""	97	"71"	26	73	"73"	0	"GALNTL6,intron_variant,,ENST00000506823,NM_001034845.2;GALNTL6,intron_variant,,ENST00000508122,;"	"T"	"ENSG00000174473"	"ENST00000506823"	"Transcript"	"intron_variant"	"-/3922"	"-/1806"	"-/601"	""	""	""	"1"	NA	1	"GALNTL6"	"HGNC"	33844	"protein_coding"	"YES"	"CCDS34104.1"	"ENSP00000423313"	"Q49A17"	"E5D8G0"	"UPI000058EB5C"	"NM_001034845.2"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"116bd3f2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268041237113402	"WGS"	FALSE
"9472"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	176965893	176965893	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"80"	16	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"116c537c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"9473"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	177742864	177742864	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"80"	20	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"116c73fc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"9474"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	179811300	179811300	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"80"	6	45	"45"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"116cb02e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"9475"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	179856469	179856469	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"91"	21	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"116cb218-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"9476"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	180028431	180028431	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"67"	17	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"116cb9c0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202380952380952	"WGS"	FALSE
"9477"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	181963926	181963926	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"87"	7	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"116d0dbc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"9478"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	182312850	182312850	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"73"	17	65	"65"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"116d18c0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188888888888889	"WGS"	FALSE
"9479"	"AC108142.1"	90768	"mskcc.org"	"GRCh37"	"4"	182842057	182842057	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.379-43783A>T"	""	""	"ENST00000509012"	""	91	"77"	14	81	"81"	0	"AC108142.1,intron_variant,,ENST00000509012,;"	"A"	"ENSG00000177822"	"ENST00000509012"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/564"	""	""	""	""	""	"1"	NA	-1	"AC108142.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"116d2d92-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"9480"	"ENPP6"	133121	"mskcc.org"	"GRCh37"	"4"	185130418	185130418	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.241+8314C>T"	""	""	"ENST00000296741"	""	62	"36"	26	31	"31"	0	"ENPP6,intron_variant,,ENST00000296741,NM_153343.3;ENPP6,intron_variant,,ENST00000512353,;"	"A"	"ENSG00000164303"	"ENST00000296741"	"Transcript"	"intron_variant"	"-/3936"	"-/1323"	"-/440"	""	""	""	"1"	NA	-1	"ENPP6"	"HGNC"	23409	"protein_coding"	"YES"	"CCDS3834.1"	"ENSP00000296741"	"Q6UWR7"	"D6R9P1"	"UPI0000073C89"	"NM_153343.3"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"116d9804-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.419354838709677	"WGS"	FALSE
"9481"	"FAT1"	2195	"mskcc.org"	"GRCh37"	"4"	187588464	187588464	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3266-3697C>G"	""	""	"ENST00000441802"	""	97	"78"	19	52	"52"	0	"FAT1,intron_variant,,ENST00000441802,NM_005245.3;"	"C"	"ENSG00000083857"	"ENST00000441802"	"Transcript"	"intron_variant"	"-/14786"	"-/13767"	"-/4588"	""	""	""	"1"	NA	-1	"FAT1"	"HGNC"	3595	"protein_coding"	"YES"	"CCDS47177.1"	"ENSP00000406229"	"Q14517"	"D6RCE4"	"UPI000051946B"	"NM_005245.3"	""	""	""	"2/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"116f73fe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195876288659794	"WGS"	TRUE
"9482"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	190607422	190607422	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	29	"26"	3	16	"16"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"117157b4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"9483"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	191042896	191042896	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	32	"28"	4	30	"30"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"1172356c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"9484"	"AHRR"	57491	"mskcc.org"	"GRCh37"	"5"	408203	408203	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.364-5256T>A"	""	""	"ENST00000316418"	""	104	"81"	23	58	"58"	0	"AHRR,intron_variant,,ENST00000316418,NM_020731.4;AHRR,intron_variant,,ENST00000505113,NM_001242412.1;AHRR,intron_variant,,ENST00000512529,;AHRR,intron_variant,,ENST00000510400,;AHRR,intron_variant,,ENST00000514523,;CTD-2228K2.2,upstream_gene_variant,,ENST00000515583,;"	"A"	"ENSG00000063438"	"ENST00000316418"	"Transcript"	"intron_variant"	"-/5661"	"-/2160"	"-/719"	""	""	""	"1"	NA	1	"AHRR"	"HGNC"	346	"protein_coding"	"YES"	"CCDS43297.1"	"ENSP00000323816"	"A9YTQ3"	"E5RGQ2,E5RFG4"	"UPI00004572BE"	"NM_020731.4"	""	""	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"11730aaa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221153846153846	"WGS"	FALSE
"9485"	"SLC12A7"	10723	"mskcc.org"	"GRCh37"	"5"	1063806	1063806	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2739+153A>G"	""	""	"ENST00000264930"	""	23	"17"	6	12	"12"	0	"SLC12A7,intron_variant,,ENST00000264930,NM_006598.2;SLC12A7,intron_variant,,ENST00000513223,;MIR4635,upstream_gene_variant,,ENST00000583759,;SLC12A7,intron_variant,,ENST00000514994,;"	"C"	"ENSG00000113504"	"ENST00000264930"	"Transcript"	"intron_variant"	"-/5272"	"-/3252"	"-/1083"	""	""	""	"1"	NA	-1	"SLC12A7"	"HGNC"	10915	"protein_coding"	"YES"	"CCDS34129.1"	"ENSP00000264930"	"Q9Y666"	""	"UPI0000141815"	"NM_006598.2"	""	""	""	"20/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"11754572-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"9486"	"TERT"	7015	"mskcc.org"	"GRCh37"	"5"	1269442	1269442	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2469-694G>A"	""	""	"ENST00000310581"	""	96	"80"	16	67	"67"	0	"TERT,intron_variant,,ENST00000310581,NM_198253.2,NM_001193376.1;TERT,intron_variant,,ENST00000296820,;TERT,intron_variant,,ENST00000334602,;TERT,intron_variant,,ENST00000508104,;TERT,intron_variant,,ENST00000460137,;TERT,intron_variant,,ENST00000484238,;TERT,upstream_gene_variant,,ENST00000503656,;"	"T"	"ENSG00000164362"	"ENST00000310581"	"Transcript"	"intron_variant"	"-/4018"	"-/3399"	"-/1132"	""	""	""	"1"	NA	-1	"TERT"	"HGNC"	11730	"protein_coding"	"YES"	"CCDS3861.2"	"ENSP00000309572"	"O14746"	"Q9UNS6,Q9UNR4,Q9UBR6"	"UPI0000031309"	"NM_198253.2,NM_001193376.1"	""	""	""	"8/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"1175f1ac-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	TRUE
"9487"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	2702891	2702891	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"72"	25	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"11790ac2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257731958762887	"WGS"	FALSE
"9488"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	3756223	3756223	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"75"	8	46	"46"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"117a245c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0963855421686747	"WGS"	FALSE
"9489"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	6145583	6145583	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"82"	7	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"117b5dea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	FALSE
"9490"	"RP11-122F24.1"	0	"mskcc.org"	"GRCh37"	"5"	7109129	7109129	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.155-39752G>A"	""	""	"ENST00000512838"	""	98	"79"	19	62	"62"	0	"RP11-122F24.1,intron_variant,,ENST00000512838,;"	"A"	"ENSG00000250974"	"ENST00000512838"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/568"	""	""	""	""	""	"1"	NA	1	"RP11-122F24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"117bb29a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193877551020408	"WGS"	FALSE
"9491"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	8253009	8253009	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"65"	20	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"117c612c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"9492"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	8290340	8290340	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"68"	22	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"117c65e6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244444444444444	"WGS"	FALSE
"9493"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	12898786	12898786	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"76"	22	58	"58"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"117df280-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224489795918367	"WGS"	FALSE
"9494"	"RP11-419C19.2"	0	"mskcc.org"	"GRCh37"	"5"	12917452	12917452	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.167-3169C>G"	""	""	"ENST00000510065"	""	81	"63"	18	59	"59"	0	"RP11-419C19.2,intron_variant,,ENST00000510065,;"	"C"	"ENSG00000248457"	"ENST00000510065"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/270"	""	""	""	""	""	"1"	NA	-1	"RP11-419C19.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"117df532-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"9495"	"MARCH11"	441061	"mskcc.org"	"GRCh37"	"5"	16065376	16065376	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000332432"	""	92	"79"	13	54	"54"	0	"MARCH11,downstream_gene_variant,,ENST00000332432,NM_001102562.1;MARCH11,downstream_gene_variant,,ENST00000507111,;"	"A"	"ENSG00000183654"	"ENST00000332432"	"Transcript"	"downstream_gene_variant"	"-/1741"	"-/1209"	"-/402"	""	""	""	"1"	"1872"	-1	"MARCH11"	"HGNC"	33609	"protein_coding"	"YES"	"CCDS47192.1"	"ENSP00000333181"	"A6NNE9"	""	"UPI00015B3D4A"	"NM_001102562.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"117ed1c8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141304347826087	"WGS"	FALSE
"9496"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	18765326	18765326	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	52	"35"	17	31	"31"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"117fcb0a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326923076923077	"WGS"	FALSE
"9497"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	18855338	18855338	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"53"	18	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"117fcede-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253521126760563	"WGS"	FALSE
"9498"	"RP11-124N3.3"	0	"mskcc.org"	"GRCh37"	"5"	19080465	19080465	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.289+61702A>T"	""	""	"ENST00000504827"	""	90	"77"	13	54	"54"	0	"RP11-124N3.3,intron_variant,,ENST00000504827,;"	"A"	"ENSG00000249174"	"ENST00000504827"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/660"	""	""	""	""	""	"1"	NA	-1	"RP11-124N3.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"117fd50a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.144444444444444	"WGS"	FALSE
"9499"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	19389011	19389011	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"83"	20	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"117fddde-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194174757281553	"WGS"	FALSE
"9500"	"CDH18"	1016	"mskcc.org"	"GRCh37"	"5"	19622214	19622214	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.644-9504G>T"	""	""	"ENST00000507958"	""	90	"72"	18	43	"43"	0	"CDH18,intron_variant,,ENST00000507958,;CDH18,intron_variant,,ENST00000382275,NM_004934.3,NM_001167667.1;CDH18,intron_variant,,ENST00000274170,;CDH18,intron_variant,,ENST00000506372,;CDH18,intron_variant,,ENST00000502796,;CDH18,intron_variant,,ENST00000511273,;CDH18,intron_variant,,ENST00000515257,;"	"A"	"ENSG00000145526"	"ENST00000507958"	"Transcript"	"intron_variant"	"-/3542"	"-/2373"	"-/790"	""	""	""	"1"	NA	-1	"CDH18"	"HGNC"	1757	"protein_coding"	"YES"	"CCDS3889.1"	"ENSP00000425093"	"Q13634"	""	"UPI0000126DBD"	""	""	""	""	"7/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"117fe392-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"9501"	"CDH18"	1016	"mskcc.org"	"GRCh37"	"5"	20004725	20004725	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-517-12602C>A"	""	""	"ENST00000507958"	""	95	"84"	11	62	"62"	0	"CDH18,intron_variant,,ENST00000507958,;CDH18,intron_variant,,ENST00000507632,;"	"T"	"ENSG00000145526"	"ENST00000507958"	"Transcript"	"intron_variant"	"-/3542"	"-/2373"	"-/790"	""	""	""	"1"	NA	-1	"CDH18"	"HGNC"	1757	"protein_coding"	"YES"	"CCDS3889.1"	"ENSP00000425093"	"Q13634"	""	"UPI0000126DBD"	""	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"117feedc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115789473684211	"WGS"	FALSE
"9502"	"CDH18"	1016	"mskcc.org"	"GRCh37"	"5"	20435536	20435536	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-580+140035C>A"	""	""	"ENST00000507958"	""	92	"71"	21	63	"63"	0	"CDH18,intron_variant,,ENST00000507958,;CDH18,intron_variant,,ENST00000507632,;"	"T"	"ENSG00000145526"	"ENST00000507958"	"Transcript"	"intron_variant"	"-/3542"	"-/2373"	"-/790"	""	""	""	"1"	NA	-1	"CDH18"	"HGNC"	1757	"protein_coding"	"YES"	"CCDS3889.1"	"ENSP00000425093"	"Q13634"	""	"UPI0000126DBD"	""	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"117ffef4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228260869565217	"WGS"	FALSE
"9503"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	22870092	22870092	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"rs747743612"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"70"	13	67	"67"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs747743612"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"1180b59c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.156626506024096	"WGS"	FALSE
"9504"	"ENSR00001408043"	0	"mskcc.org"	"GRCh37"	"5"	24257575	24257575	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001408043"	""	101	"95"	6	58	"58"	0	""	"A"	""	"ENSR00001408043"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"1180e120-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0594059405940594	"WGS"	FALSE
"9505"	"RP11-730N24.1"	340107	"mskcc.org"	"GRCh37"	"5"	24842864	24842864	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000504339"	""	103	"79"	24	59	"59"	0	"RP11-730N24.1,upstream_gene_variant,,ENST00000504339,;"	"G"	"ENSG00000248908"	"ENST00000504339"	"Transcript"	"upstream_gene_variant"	"-/2290"	""	""	""	""	""	"1"	"2172"	-1	"RP11-730N24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"1180f96c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233009708737864	"WGS"	FALSE
"9506"	"LINC01021"	643401	"mskcc.org"	"GRCh37"	"5"	27474836	27474836	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.229-806T>A"	""	""	"ENST00000512067"	""	90	"84"	6	56	"56"	0	"LINC01021,intron_variant,,ENST00000512067,;LINC01021,intron_variant,,ENST00000510165,;LINC01021,intron_variant,,ENST00000505775,;LINC01021,intron_variant,,ENST00000514844,;LINC01021,intron_variant,,ENST00000503107,;LINC01021,upstream_gene_variant,,ENST00000514255,;"	"A"	"ENSG00000250337"	"ENST00000512067"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1610"	""	""	""	""	""	"1"	NA	1	"LINC01021"	"HGNC"	48995	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"118158b2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"9507"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	30127252	30127252	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"71"	28	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"1181dac6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282828282828283	"WGS"	FALSE
"9508"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	30321261	30321261	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"76"	16	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"1181e0c0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"9509"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	30535272	30535272	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"69"	20	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"1181f272-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224719101123595	"WGS"	FALSE
"9510"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	30586373	30586373	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"74"	11	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"1181f466-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129411764705882	"WGS"	FALSE
"9511"	"WDR70"	55100	"mskcc.org"	"GRCh37"	"5"	37415482	37415482	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.492+18810T>C"	""	""	"ENST00000265107"	""	35	"31"	4	31	"31"	0	"WDR70,intron_variant,,ENST00000265107,NM_018034.2;WDR70,intron_variant,,ENST00000504564,;WDR70,intron_variant,,ENST00000511906,;"	"C"	"ENSG00000082068"	"ENST00000265107"	"Transcript"	"intron_variant"	"-/2983"	"-/1965"	"-/654"	""	""	""	"1"	NA	1	"WDR70"	"HGNC"	25495	"protein_coding"	"YES"	"CCDS34147.1"	"ENSP00000265107"	"Q9NW82"	""	"UPI0000049FC2"	"NM_018034.2"	""	""	""	"5/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"11837d7c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"9512"	"WDR70"	55100	"mskcc.org"	"GRCh37"	"5"	37653450	37653450	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1093-44307T>A"	""	""	"ENST00000265107"	""	99	"76"	23	55	"55"	0	"WDR70,intron_variant,,ENST00000265107,NM_018034.2;WDR70,intron_variant,,ENST00000504564,;WDR70,intron_variant,,ENST00000510699,;WDR70,intron_variant,,ENST00000511906,;"	"A"	"ENSG00000082068"	"ENST00000265107"	"Transcript"	"intron_variant"	"-/2983"	"-/1965"	"-/654"	""	""	""	"1"	NA	1	"WDR70"	"HGNC"	25495	"protein_coding"	"YES"	"CCDS34147.1"	"ENSP00000265107"	"Q9NW82"	""	"UPI0000049FC2"	"NM_018034.2"	""	""	""	"10/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"11838920-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232323232323232	"WGS"	FALSE
"9513"	"ENSR00001408657"	0	"mskcc.org"	"GRCh37"	"5"	37787424	37787424	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001408657"	""	89	"71"	18	46	"46"	0	""	"C"	""	"ENSR00001408657"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"11839096-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202247191011236	"WGS"	FALSE
"9514"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	39988108	39988108	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"78"	10	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"1183ed3e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WGS"	FALSE
"9515"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	43001407	43001407	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"82"	15	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"1184517a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.154639175257732	"WGS"	FALSE
"9516"	"RP11-53O19.1"	100506674	"mskcc.org"	"GRCh37"	"5"	44747812	44747812	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.137-1672A>G"	""	""	"ENST00000503452"	""	87	"69"	18	63	"63"	0	"RP11-53O19.1,intron_variant,,ENST00000503452,;RP11-53O19.1,intron_variant,,ENST00000514597,;RP11-53O19.1,intron_variant,,ENST00000505302,;RP11-53O19.1,intron_variant,,ENST00000508945,;"	"C"	"ENSG00000251141"	"ENST00000503452"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/738"	""	""	""	""	""	"1"	NA	-1	"RP11-53O19.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"11849220-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206896551724138	"WGS"	FALSE
"9517"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	50881188	50881188	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"79"	8	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"11864692-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"9518"	"SLC38A9"	153129	"mskcc.org"	"GRCh37"	"5"	54992504	54992504	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.113+1170G>A"	""	""	"ENST00000396865"	""	22	"17"	5	12	"12"	0	"SLC38A9,intron_variant,,ENST00000539768,;SLC38A9,intron_variant,,ENST00000396865,NM_173514.3;SLC38A9,intron_variant,,ENST00000318672,;SLC38A9,intron_variant,,ENST00000416547,;SLC38A9,intron_variant,,ENST00000511233,;SLC38A9,intron_variant,,ENST00000512208,;SLC38A9,intron_variant,,ENST00000513993,;SLC38A9,intron_variant,,ENST00000503891,;SLC38A9,upstream_gene_variant,,ENST00000515629,NM_001258286.1;SLC38A9,upstream_gene_variant,,ENST00000512595,NM_001258287.1;SLC38A9,upstream_gene_variant,,ENST00000503817,;SLC38A9,upstream_gene_variant,,ENST00000502247,;SLC38A9,downstream_gene_variant,,ENST00000513275,;SLC38A9,downstream_gene_variant,,ENST00000507109,;SLC38A9,downstream_gene_variant,,ENST00000506624,;SLC38A9,non_coding_transcript_exon_variant,,ENST00000504880,;SLC38A9,downstream_gene_variant,,ENST00000502416,;SLC38A9,intron_variant,,ENST00000508124,NM_001282429.1;SLC38A9,intron_variant,,ENST00000505563,;SLC38A9,intron_variant,,ENST00000514806,;SLC38A9,upstream_gene_variant,,ENST00000505708,;"	"T"	"ENSG00000177058"	"ENST00000396865"	"Transcript"	"intron_variant"	"-/2927"	"-/1686"	"-/561"	""	""	""	"1"	NA	-1	"SLC38A9"	"HGNC"	26907	"protein_coding"	"YES"	"CCDS3968.1"	"ENSP00000380074"	"Q8NBW4"	"E7ESU6,D6RIW7,D6RHW0,D6RG31,D6RER8,D6RDH2,D6R9X0,B3KVK8"	"UPI00001403C2"	"NM_173514.3"	""	""	""	"3/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"1186de2c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"9519"	"GPBP1"	65056	"mskcc.org"	"GRCh37"	"5"	56492585	56492585	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-57-17316A>C"	""	""	"ENST00000424459"	""	89	"75"	14	42	"42"	0	"GPBP1,intron_variant,,ENST00000424459,NM_022913.3;GPBP1,intron_variant,,ENST00000454432,;GPBP1,intron_variant,,ENST00000514387,NM_001203246.1;GPBP1,intron_variant,,ENST00000506184,;GPBP1,intron_variant,,ENST00000511209,NM_001127235.2;"	"C"	"ENSG00000062194"	"ENST00000424459"	"Transcript"	"intron_variant"	"-/4683"	"-/1482"	"-/493"	""	""	""	"1"	NA	1	"GPBP1"	"HGNC"	29520	"protein_coding"	""	""	"ENSP00000401596"	""	"D4PHA4"	"UPI0000EE6B9D"	"NM_022913.3"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"11872ca6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157303370786517	"WGS"	FALSE
"9520"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	56656593	56656593	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"80"	17	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"1187326e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175257731958763	"WGS"	FALSE
"9521"	"PDE4D"	5144	"mskcc.org"	"GRCh37"	"5"	59061768	59061768	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.455+127227T>G"	""	""	"ENST00000340635"	""	85	"68"	17	42	"42"	0	"PDE4D,intron_variant,,ENST00000340635,NM_001104631.1;PDE4D,intron_variant,,ENST00000507116,NM_001197218.1;PDE4D,intron_variant,,ENST00000502484,NM_001165899.1;PDE4D,intron_variant,,ENST00000546160,;PDE4D,intron_variant,,ENST00000502575,;PDE4D,intron_variant,,ENST00000512069,;PDE4D,intron_variant,,ENST00000405053,;PDE4D,intron_variant,,ENST00000309641,;PDE4D,intron_variant,,ENST00000514231,;"	"C"	"ENSG00000113448"	"ENST00000340635"	"Transcript"	"intron_variant"	"-/8232"	"-/2430"	"-/809"	""	""	""	"1"	NA	-1	"PDE4D"	"HGNC"	8783	"protein_coding"	"YES"	"CCDS47213.1"	"ENSP00000345502"	"Q08499"	"D6RHE0"	"UPI0000050EB1"	"NM_001104631.1"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"11877d0a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"9522"	"PDE4D"	5144	"mskcc.org"	"GRCh37"	"5"	59217126	59217126	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs531743478"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.272+67189G>A"	""	""	"ENST00000502484"	""	86	"69"	17	64	"64"	0	"PDE4D,intron_variant,,ENST00000502484,NM_001165899.1;PDE4D,intron_variant,,ENST00000546160,;PDE4D,intron_variant,,ENST00000512069,;PDE4D,intron_variant,,ENST00000514231,;"	"T"	"ENSG00000113448"	"ENST00000502484"	"Transcript"	"intron_variant"	"-/2478"	"-/2247"	"-/748"	""	""	"rs531743478"	"1"	NA	-1	"PDE4D"	"HGNC"	8783	"protein_coding"	""	"CCDS54859.1"	"ENSP00000423094"	"Q08499"	"D6RIG1,D6RHE0,D6RAQ0"	"UPI0000074652"	"NM_001165899.1"	""	""	""	"3/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"11878106-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197674418604651	"WGS"	FALSE
"9523"	"IPO11"	51194	"mskcc.org"	"GRCh37"	"5"	61707266	61707266	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs771621230"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-7+7336C>T"	""	""	"ENST00000514647"	""	94	"87"	7	56	"56"	0	"IPO11,intron_variant,,ENST00000514647,;IPO11,upstream_gene_variant,,ENST00000325324,NM_016338.4;IPO11,upstream_gene_variant,,ENST00000506200,;IPO11,upstream_gene_variant,,ENST00000505902,;KIF2A,intron_variant,,ENST00000509663,;IPO11,intron_variant,,ENST00000424533,;"	"T"	"ENSG00000086200"	"ENST00000514647"	"Transcript"	"intron_variant"	"-/584"	"-/446"	"-/148"	""	""	"rs771621230"	"1"	NA	1	"IPO11"	"HGNC"	20628	"protein_coding"	""	""	"ENSP00000427129"	""	"D6RCQ2,D6RCN7"	"UPI0001D3B343"	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"1187cea4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"9524"	"CWC27"	10283	"mskcc.org"	"GRCh37"	"5"	64074381	64074381	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.140-3367C>T"	""	""	"ENST00000381070"	""	108	"95"	13	71	"71"	0	"CWC27,intron_variant,,ENST00000508024,;CWC27,intron_variant,,ENST00000381070,NM_005869.2;CWC27,intron_variant,,ENST00000485990,;"	"T"	"ENSG00000153015"	"ENST00000381070"	"Transcript"	"intron_variant"	"-/2078"	"-/1419"	"-/472"	""	""	""	"1"	NA	1	"CWC27"	"HGNC"	10664	"protein_coding"	"YES"	"CCDS3982.2"	"ENSP00000370460"	"Q6UX04"	""	"UPI0000048ECC"	"NM_005869.2"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"118825f2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12037037037037	"WGS"	FALSE
"9525"	"CWC27"	10283	"mskcc.org"	"GRCh37"	"5"	64208781	64208781	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1042+27408T>A"	""	""	"ENST00000381070"	""	94	"74"	20	57	"57"	0	"CWC27,intron_variant,,ENST00000381070,NM_005869.2;CWC27,intron_variant,,ENST00000545000,;"	"A"	"ENSG00000153015"	"ENST00000381070"	"Transcript"	"intron_variant"	"-/2078"	"-/1419"	"-/472"	""	""	""	"1"	NA	1	"CWC27"	"HGNC"	10664	"protein_coding"	"YES"	"CCDS3982.2"	"ENSP00000370460"	"Q6UX04"	""	"UPI0000048ECC"	"NM_005869.2"	""	""	""	"11/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"1188291c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212765957446809	"WGS"	FALSE
"9526"	"PIK3R1"	5295	"mskcc.org"	"GRCh37"	"5"	67585245	67585245	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.917-2842T>C"	""	""	"ENST00000274335"	""	65	"48"	17	52	"52"	0	"PIK3R1,intron_variant,,ENST00000521381,NM_181523.2;PIK3R1,intron_variant,,ENST00000396611,;PIK3R1,intron_variant,,ENST00000274335,;PIK3R1,intron_variant,,ENST00000521657,;PIK3R1,intron_variant,,ENST00000320694,NM_181524.1;PIK3R1,intron_variant,,ENST00000522084,;PIK3R1,intron_variant,,ENST00000523807,;PIK3R1,intron_variant,,ENST00000521409,;PIK3R1,upstream_gene_variant,,ENST00000523872,NM_001242466.1;PIK3R1,upstream_gene_variant,,ENST00000336483,NM_181504.3;PIK3R1,upstream_gene_variant,,ENST00000519025,;PIK3R1,upstream_gene_variant,,ENST00000518813,;PIK3R1,upstream_gene_variant,,ENST00000520550,;PIK3R1,upstream_gene_variant,,ENST00000517698,;PIK3R1,upstream_gene_variant,,ENST00000518292,;"	"C"	"ENSG00000145675"	"ENST00000274335"	"Transcript"	"intron_variant"	"-/6435"	"-/2175"	"-/724"	""	""	""	"1"	NA	1	"PIK3R1"	"HGNC"	8979	"protein_coding"	""	"CCDS3993.1"	"ENSP00000274335"	"P27986"	"J7GXU7,J7GU64,E5RJY0,E5RHI0,E5RGI8,B3KWZ7"	"UPI000013D9FF"	""	""	""	""	"6/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"1188b1b6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261538461538462	"WGS"	TRUE
"9527"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"5"	72391359	72391359	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000363963"	""	104	"83"	21	53	"53"	0	"Y_RNA,upstream_gene_variant,,ENST00000363963,;"	"T"	"ENSG00000200833"	"ENST00000363963"	"Transcript"	"upstream_gene_variant"	"-/110"	""	""	""	""	""	"1"	"4541"	1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"1189a53a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.201923076923077	"WGS"	FALSE
"9528"	"ARHGEF28"	64283	"mskcc.org"	"GRCh37"	"5"	73020602	73020602	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.34-25060A>C"	""	""	"ENST00000545377"	""	113	"86"	27	51	"51"	0	"ARHGEF28,intron_variant,,ENST00000545377,NM_001080479.2;ARHGEF28,intron_variant,,ENST00000513042,NM_001177693.1;ARHGEF28,intron_variant,,ENST00000287898,;ARHGEF28,intron_variant,,ENST00000426542,;ARHGEF28,intron_variant,,ENST00000437974,;ARHGEF28,intron_variant,,ENST00000296794,;ARHGEF28,intron_variant,,ENST00000509848,;"	"C"	"ENSG00000214944"	"ENST00000545377"	"Transcript"	"intron_variant"	"-/6351"	"-/5196"	"-/1731"	""	""	""	"1"	NA	1	"ARHGEF28"	"HGNC"	30322	"protein_coding"	"YES"	"CCDS47231.2"	"ENSP00000441913"	"Q8N1W1"	"D6RAP0"	"UPI00004DF58E"	"NM_001080479.2"	""	""	""	"2/36"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"1189c16e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238938053097345	"WGS"	FALSE
"9529"	"CTD-2292M14.1"	0	"mskcc.org"	"GRCh37"	"5"	73385062	73385062	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.478-5070A>C"	""	""	"ENST00000511395"	""	105	"86"	19	56	"56"	0	"CTD-2292M14.1,intron_variant,,ENST00000511395,;"	"G"	"ENSG00000248474"	"ENST00000511395"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/577"	""	""	""	""	""	"1"	NA	-1	"CTD-2292M14.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"1189d19a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180952380952381	"WGS"	FALSE
"9530"	"FAM169A"	26049	"mskcc.org"	"GRCh37"	"5"	74111143	74111143	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.491-1299A>G"	""	""	"ENST00000389156"	""	68	"49"	19	48	"48"	0	"FAM169A,intron_variant,,ENST00000389156,NM_015566.2;FAM169A,intron_variant,,ENST00000510496,;FAM169A,intron_variant,,ENST00000380515,;FAM169A,intron_variant,,ENST00000513277,;FAM169A,intron_variant,,ENST00000514200,;FAM169A,intron_variant,,ENST00000514215,;FAM169A,intron_variant,,ENST00000510609,;"	"C"	"ENSG00000198780"	"ENST00000389156"	"Transcript"	"intron_variant"	"-/5990"	"-/2013"	"-/670"	""	""	""	"1"	NA	-1	"FAM169A"	"HGNC"	29138	"protein_coding"	"YES"	"CCDS43330.1"	"ENSP00000373808"	"Q9Y6X4"	"D6RFI5,D6RC41,D6R953"	"UPI000013E38E"	"NM_015566.2"	""	""	""	"5/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"1189ea90-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279411764705882	"WGS"	FALSE
"9531"	"AC008581.1"	0	"mskcc.org"	"GRCh37"	"5"	76432731	76432731	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000410384"	""	107	"85"	22	50	"50"	0	"AC008581.1,upstream_gene_variant,,ENST00000410384,;ZBED3-AS1,intron_variant,,ENST00000513591,;ZBED3-AS1,intron_variant,,ENST00000512001,;ZBED3-AS1,intron_variant,,ENST00000514905,;ZBED3-AS1,intron_variant,,ENST00000503969,;ZBED3-AS1,intron_variant,,ENST00000513406,;ZBED3-AS1,intron_variant,,ENST00000502433,;ZBED3-AS1,intron_variant,,ENST00000508401,;ZBED3-AS1,intron_variant,,ENST00000515419,;ZBED3-AS1,intron_variant,,ENST00000507749,;ZBED3-AS1,intron_variant,,ENST00000514114,;ZBED3-AS1,upstream_gene_variant,,ENST00000515356,;ZBED3-AS1,upstream_gene_variant,,ENST00000511547,;"	"A"	"ENSG00000222316"	"ENST00000410384"	"Transcript"	"upstream_gene_variant"	"-/110"	""	""	""	""	""	"1"	"1061"	1	"AC008581.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"118a5fca-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205607476635514	"WGS"	FALSE
"9532"	"ATG10"	83734	"mskcc.org"	"GRCh37"	"5"	81289135	81289135	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.108+5638T>C"	""	""	"ENST00000282185"	""	106	"97"	9	56	"56"	0	"ATG10,intron_variant,,ENST00000282185,NM_031482.4;ATG10,intron_variant,,ENST00000458350,NM_001131028.1;ATG10,intron_variant,,ENST00000355178,;ATG10,intron_variant,,ENST00000513443,;ATG10,intron_variant,,ENST00000513634,;ATG10-IT1,downstream_gene_variant,,ENST00000396880,;ATG10,intron_variant,,ENST00000504770,;"	"C"	"ENSG00000152348"	"ENST00000282185"	"Transcript"	"intron_variant"	"-/3033"	"-/663"	"-/220"	""	""	""	"1"	NA	1	"ATG10"	"HGNC"	20315	"protein_coding"	"YES"	"CCDS4057.1"	"ENSP00000282185"	"Q9H0Y0"	"D6RDX3,D6RC89"	"UPI0000037BF4"	"NM_031482.4"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"118b7252-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0849056603773585	"WGS"	FALSE
"9533"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	83141620	83141620	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"76"	23	71	"71"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"118bd85a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232323232323232	"WGS"	FALSE
"9534"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	84094630	84094630	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"99"	9	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"118bf772-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"9535"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	85289572	85289572	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"65"	23	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"118c1f5e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261363636363636	"WGS"	FALSE
"9536"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	86158447	86158447	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"67"	16	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"118c5186-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192771084337349	"WGS"	FALSE
"9537"	"RP11-133F8.2"	0	"mskcc.org"	"GRCh37"	"5"	91929737	91929737	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.53-33997G>A"	""	""	"ENST00000512210"	""	92	"76"	16	70	"70"	0	"RP11-133F8.2,intron_variant,,ENST00000512210,;RP11-133F8.2,intron_variant,,ENST00000513779,;"	"T"	"ENSG00000249776"	"ENST00000512210"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/511"	""	""	""	""	""	"1"	NA	-1	"RP11-133F8.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"118d0888-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"9538"	"MCTP1"	79772	"mskcc.org"	"GRCh37"	"5"	94474265	94474265	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.721-121077A>T"	""	""	"ENST00000515393"	""	91	"83"	8	59	"59"	0	"MCTP1,intron_variant,,ENST00000515393,NM_024717.4;MCTP1,intron_variant,,ENST00000503301,;MCTP1,intron_variant,,ENST00000513695,;"	"A"	"ENSG00000175471"	"ENST00000515393"	"Transcript"	"intron_variant"	"-/5396"	"-/3000"	"-/999"	""	""	""	"1"	NA	-1	"MCTP1"	"HGNC"	26183	"protein_coding"	"YES"	"CCDS34203.1"	"ENSP00000424126"	"Q6DN14"	"E5RJR1"	"UPI0000D6165C"	"NM_024717.4"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"118d5022-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0879120879120879	"WGS"	FALSE
"9539"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	97567982	97567982	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"36"	6	25	"25"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"118db274-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"9540"	"FAM174A"	345757	"mskcc.org"	"GRCh37"	"5"	99870307	99870307	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000312637"	""	97	"75"	22	77	"77"	0	"FAM174A,upstream_gene_variant,,ENST00000312637,NM_198507.1;CTD-2001C12.1,intron_variant,,ENST00000499025,;CTD-2001C12.1,intron_variant,,ENST00000504833,;FAM174A,upstream_gene_variant,,ENST00000509040,;"	"G"	"ENSG00000174132"	"ENST00000312637"	"Transcript"	"upstream_gene_variant"	"-/1356"	"-/573"	"-/190"	""	""	""	"1"	"702"	1	"FAM174A"	"HGNC"	24943	"protein_coding"	"YES"	"CCDS4090.1"	"ENSP00000307954"	"Q8TBP5"	""	"UPI000004BA6F"	"NM_198507.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"118e3334-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22680412371134	"WGS"	FALSE
"9541"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	100931681	100931681	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"60"	26	64	"62"	2	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"118e5580-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302325581395349	"WGS"	FALSE
"9542"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	103449481	103449481	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"74"	15	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"118eacd8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168539325842697	"WGS"	FALSE
"9543"	"RP11-6N13.1"	0	"mskcc.org"	"GRCh37"	"5"	104691733	104691733	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.210+36729G>A"	""	""	"ENST00000503650"	""	103	"86"	17	59	"59"	0	"RP11-6N13.1,intron_variant,,ENST00000503650,;"	"T"	"ENSG00000251574"	"ENST00000503650"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/777"	""	""	""	""	""	"1"	NA	-1	"RP11-6N13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"118ed7e4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16504854368932	"WGS"	FALSE
"9544"	"FBXL17"	64839	"mskcc.org"	"GRCh37"	"5"	107429485	107429485	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1746-72783C>G"	""	""	"ENST00000542267"	""	106	"83"	23	47	"47"	0	"FBXL17,intron_variant,,ENST00000542267,NM_001163315.2;FBXL17,intron_variant,,ENST00000359660,;FBXL17,intron_variant,,ENST00000496714,;FBXL17,intron_variant,,ENST00000481160,;"	"C"	"ENSG00000145743"	"ENST00000542267"	"Transcript"	"intron_variant"	"-/5188"	"-/2106"	"-/701"	""	""	""	"1"	NA	-1	"FBXL17"	"HGNC"	13615	"protein_coding"	"YES"	"CCDS54886.1"	"ENSP00000437464"	"Q9UF56"	""	"UPI00019B21FB"	"NM_001163315.2"	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"118f23f2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216981132075472	"WGS"	FALSE
"9545"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	107742211	107742211	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"83"	20	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"118f2c9e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194174757281553	"WGS"	FALSE
"9546"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	107907368	107907368	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"74"	23	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"118f33a6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.237113402061856	"WGS"	FALSE
"9547"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	116046060	116046060	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"84"	20	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"11902d92-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WGS"	FALSE
"9548"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	125859459	125859459	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"89"	17	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"1191b1b2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.160377358490566	"WGS"	FALSE
"9549"	"CTC-228N24.1"	728586	"mskcc.org"	"GRCh37"	"5"	127118453	127118453	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.279-14342C>G"	""	""	"ENST00000514853"	""	88	"66"	22	64	"64"	0	"CTC-228N24.1,intron_variant,,ENST00000514853,;RP11-483H11.1,downstream_gene_variant,,ENST00000509510,;"	"G"	"ENSG00000230561"	"ENST00000514853"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1044"	""	""	""	""	""	"1"	NA	1	"CTC-228N24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"1191f474-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"9550"	"CTC-228N24.1"	728586	"mskcc.org"	"GRCh37"	"5"	127199312	127199312	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.468-11918T>C"	""	""	"ENST00000514853"	""	92	"77"	15	50	"50"	0	"CTC-228N24.1,intron_variant,,ENST00000514853,;"	"C"	"ENSG00000230561"	"ENST00000514853"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1044"	""	""	""	""	""	"1"	NA	1	"CTC-228N24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"1191f6fe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16304347826087	"WGS"	FALSE
"9551"	"SLC12A2"	6558	"mskcc.org"	"GRCh37"	"5"	127443470	127443470	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.757-5036T>A"	""	""	"ENST00000262461"	""	78	"64"	14	54	"54"	0	"SLC12A2,intron_variant,,ENST00000262461,NM_001046.2;SLC12A2,intron_variant,,ENST00000343225,NM_001256461.1;SLC12A2,intron_variant,,ENST00000509205,;KDELC1P1,upstream_gene_variant,,ENST00000512118,;"	"A"	"ENSG00000064651"	"ENST00000262461"	"Transcript"	"intron_variant"	"-/6885"	"-/3639"	"-/1212"	""	""	""	"1"	NA	1	"SLC12A2"	"HGNC"	10911	"protein_coding"	"YES"	"CCDS4144.1"	"ENSP00000262461"	"P55011"	"Q53ZR1"	"UPI000013541A"	"NM_001046.2"	""	""	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"1192013a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179487179487179	"WGS"	FALSE
"9552"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	130254864	130254864	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"50"	7	30	"30"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"11924d7a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12280701754386	"WGS"	FALSE
"9553"	"CTC-432M15.3"	0	"mskcc.org"	"GRCh37"	"5"	131134919	131134919	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000514667"	""	140	"132"	8	68	"68"	0	"CTC-432M15.3,upstream_gene_variant,,ENST00000514667,;FNIP1,upstream_gene_variant,,ENST00000307968,NM_001008738.2;FNIP1,upstream_gene_variant,,ENST00000307954,;FNIP1,upstream_gene_variant,,ENST00000510461,NM_133372.2;FNIP1,upstream_gene_variant,,ENST00000511848,;"	"T"	"ENSG00000273217"	"ENST00000514667"	"Transcript"	"upstream_gene_variant"	"-/6393"	"-/4956"	"-/1651"	""	""	""	"1"	"2243"	-1	"CTC-432M15.3"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000426948"	""	"E9PCH4,D6RB02"	"UPI0001D3B6D1"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"11927656-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0571428571428571	"WGS"	FALSE
"9554"	"AC034228.7"	0	"mskcc.org"	"GRCh37"	"5"	131163394	131163394	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1427-8838T>C"	""	""	"ENST00000442687"	""	115	"96"	19	66	"66"	0	"AC034228.7,intron_variant,,ENST00000439905,;ACSL6,intron_variant,,ENST00000413683,;AC034228.7,intron_variant,,ENST00000442687,;"	"G"	"ENSG00000239642"	"ENST00000442687"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1578"	""	""	""	""	""	"1"	NA	-1	"AC034228.7"	"Clone_based_vega_gene"	NA	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"11/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"119277a0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.165217391304348	"WGS"	FALSE
"9555"	"KIF3A"	11127	"mskcc.org"	"GRCh37"	"5"	132027029	132027029	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000378746"	""	77	"66"	11	50	"50"	0	"KIF3A,downstream_gene_variant,,ENST00000378746,NM_007054.5;KIF3A,downstream_gene_variant,,ENST00000378735,;AC004237.1,intron_variant,,ENST00000431165,;"	"C"	"ENSG00000131437"	"ENST00000378746"	"Transcript"	"downstream_gene_variant"	"-/6325"	"-/2100"	"-/699"	""	""	""	"1"	"1291"	-1	"KIF3A"	"HGNC"	6319	"protein_coding"	"YES"	"CCDS34235.1"	"ENSP00000368020"	"Q9Y496"	""	"UPI000035B258"	"NM_007054.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"1192a00e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"9556"	"CDKL3"	51265	"mskcc.org"	"GRCh37"	"5"	133646202	133646202	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.881+1781C>T"	""	""	"ENST00000265334"	""	111	"102"	9	53	"53"	0	"CDKL3,intron_variant,,ENST00000521118,;CDKL3,intron_variant,,ENST00000265334,NM_001113575.1;CDKL3,intron_variant,,ENST00000523054,;CDKL3,intron_variant,,ENST00000609654,;CDKL3,intron_variant,,ENST00000435211,NM_016508.3;CDKL3,intron_variant,,ENST00000523832,;CDKL3,intron_variant,,ENST00000435240,;CDKL3,intron_variant,,ENST00000536186,;CDKL3,intron_variant,,ENST00000609383,;CDKL3,intron_variant,,ENST00000521755,;CTD-2410N18.4,intron_variant,,ENST00000518409,;CTD-2410N18.4,intron_variant,,ENST00000520515,;CDKL3,intron_variant,,ENST00000520693,;CDKL3,intron_variant,,ENST00000519312,;CDKL3,intron_variant,,ENST00000520592,;"	"A"	"ENSG00000006837"	"ENST00000265334"	"Transcript"	"intron_variant"	"-/2127"	"-/1779"	"-/592"	""	""	""	"1"	NA	-1	"CDKL3"	"HGNC"	15483	"protein_coding"	"YES"	"CCDS47264.1"	"ENSP00000265334"	"Q8IVW4"	""	"UPI00000745AD"	"NM_001113575.1"	""	""	""	"7/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"1192f702-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"9557"	"AC106775.1"	0	"mskcc.org"	"GRCh37"	"5"	136873504	136873504	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408685"	""	44	"39"	5	33	"33"	0	"AC106775.1,downstream_gene_variant,,ENST00000408685,;SPOCK1,intron_variant,,ENST00000503916,;"	"G"	"ENSG00000221612"	"ENST00000408685"	"Transcript"	"downstream_gene_variant"	"-/68"	""	""	""	""	""	"1"	"4294"	1	"AC106775.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"1193ad78-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WGS"	FALSE
"9558"	"PAIP2"	51247	"mskcc.org"	"GRCh37"	"5"	138691053	138691053	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-26-8395A>G"	""	""	"ENST00000394795"	""	62	"55"	7	32	"32"	0	"PAIP2,intron_variant,,ENST00000394795,;PAIP2,intron_variant,,ENST00000265192,NM_016480.3;PAIP2,intron_variant,,ENST00000510080,NM_001033112.1;PAIP2,intron_variant,,ENST00000507755,;PAIP2,intron_variant,,ENST00000511706,;PAIP2,intron_variant,,ENST00000511381,;PAIP2,intron_variant,,ENST00000510409,;PAIP2,intron_variant,,ENST00000507415,;"	"G"	"ENSG00000120727"	"ENST00000394795"	"Transcript"	"intron_variant"	"-/2294"	"-/384"	"-/127"	""	""	""	"1"	NA	1	"PAIP2"	"HGNC"	17970	"protein_coding"	"YES"	"CCDS4211.1"	"ENSP00000378275"	"Q9BPZ3"	"D6RA77"	"UPI0000049FBF"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"1194273a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112903225806452	"WGS"	FALSE
"9559"	"UBE2D2"	7322	"mskcc.org"	"GRCh37"	"5"	138946766	138946766	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.24+5366C>G"	""	""	"ENST00000398733"	""	92	"86"	6	64	"64"	0	"UBE2D2,intron_variant,,ENST00000253815,NM_181838.1;UBE2D2,intron_variant,,ENST00000398733,NM_003339.2;UBE2D2,intron_variant,,ENST00000505007,;UBE2D2,intron_variant,,ENST00000505548,;UBE2D2,intron_variant,,ENST00000511725,;UBE2D2,intron_variant,,ENST00000398734,;UBE2D2,intron_variant,,ENST00000510470,;"	"G"	"ENSG00000131508"	"ENST00000398733"	"Transcript"	"intron_variant"	"-/2702"	"-/444"	"-/147"	""	""	""	"1"	NA	1	"UBE2D2"	"HGNC"	12475	"protein_coding"	"YES"	"CCDS43369.1"	"ENSP00000381717"	"P62837"	"D6RFM0,D6RAW0"	"UPI0000006BD0"	"NM_003339.2"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"11943bf8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"9560"	"KCTD16"	57528	"mskcc.org"	"GRCh37"	"5"	143859255	143859255	"+"	"3'UTR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*5578C>A"	""	""	"ENST00000507359"	"3/3"	87	"80"	7	63	"63"	0	"KCTD16,3_prime_UTR_variant,,ENST00000507359,NM_020768.3;"	"A"	"ENSG00000183775"	"ENST00000507359"	"Transcript"	"3_prime_UTR_variant"	"7956/13950"	"-/1287"	"-/428"	""	""	""	"1"	NA	1	"KCTD16"	"HGNC"	29244	"protein_coding"	"YES"	"CCDS34260.1"	"ENSP00000426548"	"Q68DU8"	""	"UPI000004A046"	"NM_020768.3"	""	""	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"11954ca0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"9561"	"GRIA1"	2890	"mskcc.org"	"GRCh37"	"5"	153049879	153049879	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.730-4181A>T"	""	""	"ENST00000518783"	""	93	"79"	14	58	"58"	0	"GRIA1,intron_variant,,ENST00000285900,NM_000827.3,NM_001258019.1;GRIA1,intron_variant,,ENST00000518783,NM_001258021.1;GRIA1,intron_variant,,ENST00000340592,NM_001258020.1,NM_001114183.1;GRIA1,intron_variant,,ENST00000521843,NM_001258023.1;GRIA1,intron_variant,,ENST00000448073,NM_001258022.1;GRIA1,intron_variant,,ENST00000518142,;GRIA1,intron_variant,,ENST00000481559,;"	"T"	"ENSG00000155511"	"ENST00000518783"	"Transcript"	"intron_variant"	"-/5233"	"-/2751"	"-/916"	""	""	""	"1"	NA	1	"GRIA1"	"HGNC"	4571	"protein_coding"	"YES"	"CCDS58987.1"	"ENSP00000428994"	"P42261"	""	"UPI0001E8F433"	"NM_001258021.1"	""	""	""	"5/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"1196bba8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.150537634408602	"WGS"	FALSE
"9562"	"FAM114A2"	10827	"mskcc.org"	"GRCh37"	"5"	153403938	153403938	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.913+2021G>T"	""	""	"ENST00000351797"	""	104	"84"	20	58	"58"	0	"FAM114A2,intron_variant,,ENST00000351797,NM_018691.2;FAM114A2,intron_variant,,ENST00000522858,;FAM114A2,intron_variant,,ENST00000520667,;FAM114A2,intron_variant,,ENST00000520313,;FAM114A2,downstream_gene_variant,,ENST00000522395,;FAM114A2,downstream_gene_variant,,ENST00000523705,;FAM114A2,downstream_gene_variant,,ENST00000518900,;FAM114A2,downstream_gene_variant,,ENST00000517803,;FAM114A2,downstream_gene_variant,,ENST00000518735,;"	"A"	"ENSG00000055147"	"ENST00000351797"	"Transcript"	"intron_variant"	"-/4443"	"-/1518"	"-/505"	""	""	""	"1"	NA	-1	"FAM114A2"	"HGNC"	1333	"protein_coding"	"YES"	"CCDS4323.1"	"ENSP00000341597"	"Q9NRY5"	"E5RK42,E5RHP2,E5RHI8,E5RH43,E5RGF9,E5RFK2"	"UPI000013D5DA"	"NM_018691.2"	""	""	""	"8/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"1196c3aa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WGS"	FALSE
"9563"	"HAVCR1"	26762	"mskcc.org"	"GRCh37"	"5"	156483220	156483220	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.47-676G>A"	""	""	"ENST00000339252"	""	82	"76"	6	37	"37"	0	"HAVCR1,intron_variant,,ENST00000339252,NM_012206.2;HAVCR1,intron_variant,,ENST00000425854,;HAVCR1,intron_variant,,ENST00000522693,;HAVCR1,intron_variant,,ENST00000544197,NM_001099414.1;HAVCR1,intron_variant,,ENST00000523175,NM_001173393.1;HAVCR1,intron_variant,,ENST00000518745,;"	"T"	"ENSG00000113249"	"ENST00000339252"	"Transcript"	"intron_variant"	"-/1845"	"-/1095"	"-/364"	""	""	""	"1"	NA	-1	"HAVCR1"	"HGNC"	17866	"protein_coding"	"YES"	"CCDS43392.1"	"ENSP00000344844"	"Q96D42"	"E5RIF6"	"UPI000006EEEC"	"NM_012206.2"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"11974c12-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"9564"	"ADAM19"	8728	"mskcc.org"	"GRCh37"	"5"	156955097	156955097	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs116639861"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.407+2718C>T"	""	""	"ENST00000257527"	""	121	"86"	35	65	"65"	0	"ADAM19,intron_variant,,ENST00000257527,NM_033274.4;ADAM19,intron_variant,,ENST00000394020,;ADAM19,intron_variant,,ENST00000517905,;ADAM19,intron_variant,,ENST00000430702,;ADAM19,intron_variant,,ENST00000517951,;"	"A"	"ENSG00000135074"	"ENST00000257527"	"Transcript"	"intron_variant"	"-/6481"	"-/2757"	"-/918"	""	""	"rs116639861"	"1"	NA	-1	"ADAM19"	"HGNC"	197	"protein_coding"	"YES"	"CCDS4338.1"	"ENSP00000257527"	"Q9H013"	""	"UPI000013CF6A"	"NM_033274.4"	""	""	""	"5/22"	""	"A:0.0052"	"A:0.0189"	"A:0"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"11976670-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289256198347107	"WGS"	FALSE
"9565"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	161752918	161752918	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"98"	23	64	"64"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"119853a0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.190082644628099	"WGS"	FALSE
"9566"	"RP11-541P9.3"	0	"mskcc.org"	"GRCh37"	"5"	162664206	162664206	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.117+19651C>T"	""	""	"ENST00000509211"	""	95	"72"	23	59	"59"	0	"RP11-541P9.3,intron_variant,,ENST00000509211,;RP11-541P9.3,intron_variant,,ENST00000458002,;"	"A"	"ENSG00000250061"	"ENST00000509211"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/630"	""	""	""	""	""	"1"	NA	-1	"RP11-541P9.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"1198772c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242105263157895	"WGS"	FALSE
"9567"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	163341017	163341017	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"93"	17	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"11988ea6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.154545454545455	"WGS"	FALSE
"9568"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	163459215	163459215	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"59"	27	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"11989306-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313953488372093	"WGS"	FALSE
"9569"	"NEURL1B"	54492	"mskcc.org"	"GRCh37"	"5"	172116943	172116943	"+"	"3'UTR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*3015G>C"	""	""	"ENST00000369800"	"5/5"	99	"79"	20	61	"61"	0	"NEURL1B,3_prime_UTR_variant,,ENST00000369800,NM_001142651.1;NEURL1B,downstream_gene_variant,,ENST00000522853,;NEURL1B,downstream_gene_variant,,ENST00000520919,;CTB-79E8.2,downstream_gene_variant,,ENST00000519976,;"	"C"	"ENSG00000214357"	"ENST00000369800"	"Transcript"	"3_prime_UTR_variant"	"4824/6424"	"-/1668"	"-/555"	""	""	""	"1"	NA	1	"NEURL1B"	"HGNC"	35422	"protein_coding"	"YES"	"CCDS47342.1"	"ENSP00000358815"	"A8MQ27"	""	"UPI0000D6E5EA"	"NM_001142651.1"	""	""	"5/5"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"119a64b0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202020202020202	"WGS"	FALSE
"9570"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	173716549	173716549	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"86"	11	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"119acb3a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.11340206185567	"WGS"	FALSE
"9571"	"CDHR2"	54825	"mskcc.org"	"GRCh37"	"5"	175989353	175989353	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-15-2986A>G"	""	""	"ENST00000510636"	""	90	"81"	9	58	"58"	0	"CDHR2,intron_variant,,ENST00000510636,NM_001171976.1;CDHR2,intron_variant,,ENST00000261944,NM_017675.4;CDHR2,upstream_gene_variant,,ENST00000506348,;CDHR2,intron_variant,,ENST00000510124,;"	"G"	"ENSG00000074276"	"ENST00000510636"	"Transcript"	"intron_variant"	"-/4509"	"-/3933"	"-/1310"	""	""	""	"1"	NA	1	"CDHR2"	"HGNC"	18231	"protein_coding"	"YES"	"CCDS34297.1"	"ENSP00000424565"	"Q9BYE9"	""	"UPI0000DBEE8C"	"NM_001171976.1"	""	""	""	"1/31"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"119bb0a4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"9572"	"UNC5A"	90249	"mskcc.org"	"GRCh37"	"5"	176300227	176300227	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.887-742C>T"	""	""	"ENST00000329542"	""	98	"78"	20	71	"71"	0	"UNC5A,intron_variant,,ENST00000329542,NM_133369.2;UNC5A,intron_variant,,ENST00000261961,;UNC5A,intron_variant,,ENST00000509580,;UNC5A,intron_variant,,ENST00000513890,;"	"T"	"ENSG00000113763"	"ENST00000329542"	"Transcript"	"intron_variant"	"-/3812"	"-/2529"	"-/842"	""	""	""	"1"	NA	1	"UNC5A"	"HGNC"	12567	"protein_coding"	"YES"	"CCDS34299.1"	"ENSP00000332737"	"Q6ZN44"	""	"UPI0000047F37"	"NM_133369.2"	""	""	""	"6/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"119bda98-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204081632653061	"WGS"	FALSE
"9573"	"UIMC1"	51720	"mskcc.org"	"GRCh37"	"5"	176350819	176350819	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1598-12429A>G"	""	""	"ENST00000377227"	""	86	"77"	9	34	"34"	0	"UIMC1,intron_variant,,ENST00000377219,NM_016290.4;UIMC1,intron_variant,,ENST00000377227,;UIMC1,intron_variant,,ENST00000511320,NM_001199297.1,NM_001199298.1;UIMC1,intron_variant,,ENST00000506128,;UIMC1,intron_variant,,ENST00000503273,;UIMC1,intron_variant,,ENST00000512031,;UIMC1,intron_variant,,ENST00000510698,;"	"C"	"ENSG00000087206"	"ENST00000377227"	"Transcript"	"intron_variant"	"-/2570"	"-/2160"	"-/719"	""	""	""	"1"	NA	-1	"UIMC1"	"HGNC"	30298	"protein_coding"	"YES"	"CCDS4408.1"	"ENSP00000366434"	"Q96RL1"	"D6RDZ5,D6RC40,D6R9M3"	"UPI00001A9954"	""	""	""	""	"10/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"119bdd04-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104651162790698	"WGS"	FALSE
"9574"	"RP11-1252I4.2"	0	"mskcc.org"	"GRCh37"	"5"	177361705	177361705	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000511650"	""	102	"86"	16	57	"57"	0	"RP11-1252I4.2,upstream_gene_variant,,ENST00000511650,;RP11-423H2.1,intron_variant,,ENST00000507037,;RP11-423H2.1,downstream_gene_variant,,ENST00000503449,;"	"C"	"ENSG00000250101"	"ENST00000511650"	"Transcript"	"upstream_gene_variant"	"-/547"	""	""	""	""	""	"1"	"4918"	1	"RP11-1252I4.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"119c4b72-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.156862745098039	"WGS"	FALSE
"9575"	"MAML1"	9794	"mskcc.org"	"GRCh37"	"5"	179206167	179206167	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000292599"	""	83	"78"	5	40	"40"	0	"MAML1,downstream_gene_variant,,ENST00000292599,NM_014757.4;MAML1,intron_variant,,ENST00000503050,;MAML1,downstream_gene_variant,,ENST00000511027,;"	"C"	"ENSG00000161021"	"ENST00000292599"	"Transcript"	"downstream_gene_variant"	"-/5723"	"-/3051"	"-/1016"	""	""	""	"1"	"1880"	1	"MAML1"	"HGNC"	13632	"protein_coding"	"YES"	"CCDS34315.1"	"ENSP00000292599"	"Q92585"	""	"UPI0000071286"	"NM_014757.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"119d58fa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0602409638554217	"WGS"	FALSE
"9576"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	284845	284845	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	154	"135"	19	83	"83"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"119e271c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123376623376623	"WGS"	FALSE
"9577"	"RP11-274H24.1"	0	"mskcc.org"	"GRCh37"	"6"	4493003	4493003	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.384+579A>G"	""	""	"ENST00000563079"	""	64	"55"	9	50	"50"	0	"RP11-274H24.1,intron_variant,,ENST00000563079,;"	"G"	"ENSG00000260239"	"ENST00000563079"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2272"	""	""	""	""	""	"1"	NA	1	"RP11-274H24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"119f5038-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.140625	"WGS"	FALSE
"9578"	"CDYL"	9425	"mskcc.org"	"GRCh37"	"6"	4810184	4810184	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.24+33143T>C"	""	""	"ENST00000397588"	""	111	"102"	9	54	"54"	0	"CDYL,intron_variant,,ENST00000328908,;CDYL,intron_variant,,ENST00000397588,NM_004824.3;CDYL,intron_variant,,ENST00000440139,;CDYL,intron_variant,,ENST00000472453,;CDYL,intron_variant,,ENST00000483019,;CDYL,intron_variant,,ENST00000491864,;"	"C"	"ENSG00000153046"	"ENST00000397588"	"Transcript"	"intron_variant"	"-/2184"	"-/1635"	"-/544"	""	""	""	"1"	NA	1	"CDYL"	"HGNC"	1811	"protein_coding"	"YES"	"CCDS4491.2"	"ENSP00000380718"	"Q9Y232"	""	"UPI0000160F23"	"NM_004824.3"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"119f5d62-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"9579"	"CDYL"	9425	"mskcc.org"	"GRCh37"	"6"	4828576	4828576	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.24+51535T>A"	""	""	"ENST00000397588"	""	82	"63"	19	51	"51"	0	"CDYL,intron_variant,,ENST00000328908,;CDYL,intron_variant,,ENST00000397588,NM_004824.3;CDYL,intron_variant,,ENST00000440139,;CDYL,intron_variant,,ENST00000472453,;CDYL,intron_variant,,ENST00000483019,;CDYL,intron_variant,,ENST00000491864,;"	"A"	"ENSG00000153046"	"ENST00000397588"	"Transcript"	"intron_variant"	"-/2184"	"-/1635"	"-/544"	""	""	""	"1"	NA	1	"CDYL"	"HGNC"	1811	"protein_coding"	"YES"	"CCDS4491.2"	"ENSP00000380718"	"Q9Y232"	""	"UPI0000160F23"	"NM_004824.3"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"119f5e0c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231707317073171	"WGS"	FALSE
"9580"	"RREB1"	6239	"mskcc.org"	"GRCh37"	"6"	7103226	7103226	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000379938"	""	56	"46"	10	35	"35"	0	"RREB1,upstream_gene_variant,,ENST00000379938,NM_001003700.1,NM_001003699.3;RREB1,upstream_gene_variant,,ENST00000379933,NM_001168344.1;RREB1,upstream_gene_variant,,ENST00000471433,;RREB1,upstream_gene_variant,,ENST00000491191,;"	"A"	"ENSG00000124782"	"ENST00000379938"	"Transcript"	"upstream_gene_variant"	"-/8778"	"-/5229"	"-/1742"	""	""	""	"1"	"4815"	1	"RREB1"	"HGNC"	10449	"protein_coding"	"YES"	"CCDS34335.1"	"ENSP00000369270"	"Q92766"	"C9JU34,C9JPJ6,C9JE09"	"UPI000020E496"	"NM_001003700.1,NM_001003699.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"119fd67a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"9581"	"DSP"	1832	"mskcc.org"	"GRCh37"	"6"	7573332	7573332	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2131-987C>T"	""	""	"ENST00000379802"	""	118	"96"	22	54	"54"	0	"DSP,intron_variant,,ENST00000379802,NM_004415.2;DSP,intron_variant,,ENST00000418664,NM_001008844.1;"	"T"	"ENSG00000096696"	"ENST00000379802"	"Transcript"	"intron_variant"	"-/9796"	"-/8616"	"-/2871"	""	""	""	"1"	NA	1	"DSP"	"HGNC"	3052	"protein_coding"	"YES"	"CCDS4501.1"	"ENSP00000369129"	"P15924"	"G1UI31,B4DKX6"	"UPI000013C67F"	"NM_004415.2"	""	""	""	"15/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"119ff5d8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186440677966102	"WGS"	FALSE
"9582"	"OFCC1"	266553	"mskcc.org"	"GRCh37"	"6"	9591940	9591940	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000469421"	""	92	"73"	19	64	"64"	0	"OFCC1,downstream_gene_variant,,ENST00000469421,;OFCC1,downstream_gene_variant,,ENST00000492094,;"	"A"	"ENSG00000181355"	"ENST00000469421"	"Transcript"	"downstream_gene_variant"	"-/484"	""	""	""	""	""	"1"	"4403"	-1	"OFCC1"	"HGNC"	21017	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"11a04c5e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206521739130435	"WGS"	FALSE
"9583"	"ENSR00001493130"	0	"mskcc.org"	"GRCh37"	"6"	11395054	11395054	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001493130"	""	95	"74"	21	54	"54"	0	""	"T"	""	"ENSR00001493130"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"11a0abc2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221052631578947	"WGS"	FALSE
"9584"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	11845616	11845616	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"72"	23	58	"58"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"11a0bba8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242105263157895	"WGS"	FALSE
"9585"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	12565741	12565741	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"74"	12	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"11a0de6c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"9586"	"PHACTR1"	221692	"mskcc.org"	"GRCh37"	"6"	12834154	12834154	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.250+84132G>C"	""	""	"ENST00000379348"	""	77	"65"	12	45	"45"	0	"PHACTR1,intron_variant,,ENST00000379350,;PHACTR1,intron_variant,,ENST00000332995,;PHACTR1,intron_variant,,ENST00000379348,;PHACTR1,intron_variant,,ENST00000406205,;"	"C"	"ENSG00000112137"	"ENST00000379348"	"Transcript"	"intron_variant"	"-/795"	"-/510"	"-/169"	""	""	""	"1"	NA	1	"PHACTR1"	"HGNC"	20990	"protein_coding"	"YES"	""	"ENSP00000368653"	""	"Q5R356"	"UPI000020D535"	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"11a0edc6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155844155844156	"WGS"	FALSE
"9587"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	14259835	14259835	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"66"	20	54	"54"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"11a138f8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232558139534884	"WGS"	FALSE
"9588"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	15752652	15752652	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"79"	5	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"11a198e8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0595238095238095	"WGS"	FALSE
"9589"	"ENSR00001493500"	0	"mskcc.org"	"GRCh37"	"6"	15907847	15907847	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001493500"	""	112	"88"	24	61	"61"	0	""	"G"	""	"ENSR00001493500"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"11a1a05e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"9590"	"CASC15"	401237	"mskcc.org"	"GRCh37"	"6"	21660227	21660227	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000606336"	""	90	"82"	8	32	"32"	0	"CASC15,upstream_gene_variant,,ENST00000606336,;"	"G"	"ENSG00000272168"	"ENST00000606336"	"Transcript"	"upstream_gene_variant"	"-/1288"	""	""	""	""	""	"1"	"4776"	1	"CASC15"	"HGNC"	28245	"lincRNA"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"11a2f27e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"9591"	"CASC15"	401237	"mskcc.org"	"GRCh37"	"6"	21849098	21849098	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.616+46127A>G"	""	""	"ENST00000606851"	""	98	"90"	8	60	"60"	0	"CASC15,intron_variant,,ENST00000606851,;CASC15,intron_variant,,ENST00000607048,;CASC15,intron_variant,,ENST00000606336,;"	"G"	"ENSG00000272168"	"ENST00000606851"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1889"	""	""	""	""	""	"1"	NA	1	"CASC15"	"HGNC"	28245	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"11a30b7e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WGS"	FALSE
"9592"	"RP1-209A6.1"	0	"mskcc.org"	"GRCh37"	"6"	22803413	22803413	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.198-58116C>A"	""	""	"ENST00000420572"	""	99	"78"	21	50	"50"	0	"RP1-209A6.1,intron_variant,,ENST00000420572,;"	"T"	"ENSG00000233358"	"ENST00000420572"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/871"	""	""	""	""	""	"1"	NA	-1	"RP1-209A6.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"11a33b6c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212121212121212	"WGS"	FALSE
"9593"	"CMAHP"	8418	"mskcc.org"	"GRCh37"	"6"	25132805	25132805	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.724+5043T>C"	""	""	"ENST00000377989"	""	100	"84"	16	50	"50"	0	"CMAHP,intron_variant,,ENST00000377989,;CMAHP,intron_variant,,ENST00000458373,;CMAHP,intron_variant,,ENST00000462823,;CMAHP,intron_variant,,ENST00000436589,;CMAHP,intron_variant,,ENST00000377993,;CMAHP,intron_variant,,ENST00000424282,;"	"G"	"ENSG00000168405"	"ENST00000377989"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2264"	""	""	""	""	""	"1"	NA	-1	"CMAHP"	"HGNC"	2098	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"11a3a764-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WGS"	FALSE
"9594"	"RP3-522P13.2"	0	"mskcc.org"	"GRCh37"	"6"	25271746	25271746	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000397093"	""	61	"51"	10	28	"28"	0	"RP3-522P13.2,downstream_gene_variant,,ENST00000397093,;"	"T"	"ENSG00000213972"	"ENST00000397093"	"Transcript"	"downstream_gene_variant"	"-/927"	""	""	""	""	""	"1"	"682"	-1	"RP3-522P13.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"11a3b114-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163934426229508	"WGS"	FALSE
"9595"	"LRRC16A"	55604	"mskcc.org"	"GRCh37"	"6"	25322398	25322398	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.138+37261A>T"	""	""	"ENST00000329474"	""	127	"116"	11	43	"43"	0	"LRRC16A,intron_variant,,ENST00000329474,NM_001173977.1,NM_017640.5;LRRC16A,intron_variant,,ENST00000377969,;LRRC16A,intron_variant,,ENST00000461945,;"	"T"	"ENSG00000079691"	"ENST00000329474"	"Transcript"	"intron_variant"	"-/5431"	"-/4116"	"-/1371"	""	""	""	"1"	NA	1	"LRRC16A"	"HGNC"	21581	"protein_coding"	"YES"	"CCDS54973.1"	"ENSP00000331983"	"Q5VZK9"	""	"UPI00004588AB"	"NM_001173977.1,NM_017640.5"	""	""	""	"2/36"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"11a3b3c6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0866141732283465	"WGS"	FALSE
"9596"	"SLC17A4"	10050	"mskcc.org"	"GRCh37"	"6"	25775745	25775745	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.988-1078C>T"	""	""	"ENST00000377905"	""	87	"70"	17	43	"43"	0	"SLC17A4,intron_variant,,ENST00000377905,NM_005495.2,NM_001286121.1;SLC17A4,intron_variant,,ENST00000397076,;SLC17A4,intron_variant,,ENST00000439485,;"	"T"	"ENSG00000146039"	"ENST00000377905"	"Transcript"	"intron_variant"	"-/3616"	"-/1494"	"-/497"	""	""	""	"1"	NA	1	"SLC17A4"	"HGNC"	10932	"protein_coding"	"YES"	"CCDS4564.1"	"ENSP00000367137"	"Q9Y2C5"	""	"UPI0000073585"	"NM_005495.2,NM_001286121.1"	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"11a3bfc4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195402298850575	"WGS"	FALSE
"9597"	"SLC17A4"	10050	"mskcc.org"	"GRCh37"	"6"	25781675	25781675	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000377905"	""	82	"61"	21	53	"53"	0	"SLC17A4,downstream_gene_variant,,ENST00000377905,NM_005495.2,NM_001286121.1;SLC17A4,downstream_gene_variant,,ENST00000397076,;SLC17A1,downstream_gene_variant,,ENST00000244527,NM_005074.3;SLC17A1,downstream_gene_variant,,ENST00000427328,;SLC17A4,downstream_gene_variant,,ENST00000439485,;SLC17A1,downstream_gene_variant,,ENST00000377886,;"	"G"	"ENSG00000146039"	"ENST00000377905"	"Transcript"	"downstream_gene_variant"	"-/3616"	"-/1494"	"-/497"	""	""	""	"1"	"256"	1	"SLC17A4"	"HGNC"	10932	"protein_coding"	"YES"	"CCDS4564.1"	"ENSP00000367137"	"Q9Y2C5"	""	"UPI0000073585"	"NM_005495.2,NM_001286121.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"11a3c06e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25609756097561	"WGS"	FALSE
"9598"	"HIST1H3PS1"	0	"mskcc.org"	"GRCh37"	"6"	26318975	26318975	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000404612"	""	104	"84"	20	55	"55"	0	"HIST1H3PS1,downstream_gene_variant,,ENST00000404612,;"	"A"	"ENSG00000220875"	"ENST00000404612"	"Transcript"	"downstream_gene_variant"	"-/417"	""	""	""	""	""	"1"	"3129"	-1	"HIST1H3PS1"	"HGNC"	18982	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"11a3e3dc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WGS"	FALSE
"9599"	"PRSS16"	10279	"mskcc.org"	"GRCh37"	"6"	27213412	27213412	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000230582"	""	84	"68"	16	46	"46"	0	"PRSS16,upstream_gene_variant,,ENST00000230582,NM_005865.3;PRSS16,upstream_gene_variant,,ENST00000421826,;PRSS16,upstream_gene_variant,,ENST00000475106,;PRSS16,upstream_gene_variant,,ENST00000485993,;PRSS16,upstream_gene_variant,,ENST00000454665,;PRSS16,upstream_gene_variant,,ENST00000470870,;PRSS16,upstream_gene_variant,,ENST00000468930,;PRSS16,upstream_gene_variant,,ENST00000466364,;"	"A"	"ENSG00000112812"	"ENST00000230582"	"Transcript"	"upstream_gene_variant"	"-/2716"	"-/1545"	"-/514"	""	""	""	"1"	"2090"	1	"PRSS16"	"HGNC"	9480	"protein_coding"	"YES"	"CCDS4623.1"	"ENSP00000230582"	"Q9NQE7"	"Q7Z5N5"	"UPI0000137773"	"NM_005865.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"11a439c2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"9600"	"RP11-373N24.2"	0	"mskcc.org"	"GRCh37"	"6"	28599451	28599451	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000605542"	""	83	"74"	9	40	"40"	0	"RP11-373N24.2,downstream_gene_variant,,ENST00000605542,;"	"C"	"ENSG00000271440"	"ENST00000605542"	"Transcript"	"downstream_gene_variant"	"-/214"	""	""	""	""	""	"1"	"1707"	-1	"RP11-373N24.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"11a48b16-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108433734939759	"WGS"	FALSE
"9601"	"HCG22"	285834	"mskcc.org"	"GRCh37"	"6"	31018512	31018512	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000426185"	""	90	"75"	15	54	"54"	0	"HCG22,upstream_gene_variant,,ENST00000426185,;HCG22,upstream_gene_variant,,ENST00000565192,;HCG22,upstream_gene_variant,,ENST00000562344,;HCG22,upstream_gene_variant,,ENST00000566475,;HCG22,upstream_gene_variant,,ENST00000570223,;"	"A"	"ENSG00000228789"	"ENST00000426185"	"Transcript"	"upstream_gene_variant"	"-/1980"	""	""	""	""	""	"1"	"3472"	1	"HCG22"	"HGNC"	27780	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"11a5790e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"9602"	"C6orf48"	50854	"mskcc.org"	"GRCh37"	"6"	31803938	31803938	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-94+710A>G"	""	""	"ENST00000375640"	""	86	"79"	7	46	"46"	0	"C6orf48,intron_variant,,ENST00000375640,NM_001040438.1,NM_001287484.1;C6orf48,intron_variant,,ENST00000375642,;C6orf48,intron_variant,,ENST00000395789,;C6orf48,intron_variant,,ENST00000375638,NM_001040437.1,NM_001287482.1;C6orf48,intron_variant,,ENST00000375639,NM_001287483.1;C6orf48,intron_variant,,ENST00000375635,NM_001287487.1;C6orf48,intron_variant,,ENST00000375641,;C6orf48,intron_variant,,ENST00000375633,NM_001287488.1;C6orf48,upstream_gene_variant,,ENST00000395788,;SNORD52,upstream_gene_variant,,ENST00000364884,NR_002742.2;SNORD48,downstream_gene_variant,,ENST00000364953,NR_002745.1;"	"G"	"ENSG00000204387"	"ENST00000375640"	"Transcript"	"intron_variant"	"-/1053"	"-/228"	"-/75"	""	""	""	"1"	NA	1	"C6orf48"	"HGNC"	19078	"protein_coding"	"YES"	"CCDS34416.1"	"ENSP00000364791"	"Q9UBA6"	""	"UPI0000070B70"	"NM_001040438.1,NM_001287484.1"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"11a5eac4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0813953488372093	"WGS"	FALSE
"9603"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	32992756	32992756	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"82"	8	62	"62"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"11a8f7f0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"9604"	"UHRF1BP1"	54887	"mskcc.org"	"GRCh37"	"6"	34842148	34842148	"+"	"3'UTR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1933A>G"	""	""	"ENST00000192788"	"21/21"	100	"83"	17	59	"59"	0	"UHRF1BP1,3_prime_UTR_variant,,ENST00000192788,NM_017754.3;UHRF1BP1,intron_variant,,ENST00000452449,;TAF11,downstream_gene_variant,,ENST00000361288,NM_005643.3;TAF11,downstream_gene_variant,,ENST00000420584,NM_001270488.1;"	"G"	"ENSG00000065060"	"ENST00000192788"	"Transcript"	"3_prime_UTR_variant"	"6427/9570"	"-/4323"	"-/1440"	""	""	""	"1"	NA	1	"UHRF1BP1"	"HGNC"	21216	"protein_coding"	"YES"	"CCDS43455.1"	"ENSP00000192788"	"Q6BDS2"	""	"UPI00001B654C"	"NM_017754.3"	""	""	"21/21"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"11a9b064-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.17	"WGS"	FALSE
"9605"	"ZNF76"	7629	"mskcc.org"	"GRCh37"	"6"	35258735	35258735	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.625+242G>T"	""	""	"ENST00000373953"	""	119	"102"	17	50	"50"	0	"ZNF76,intron_variant,,ENST00000373953,NM_003427.3;ZNF76,intron_variant,,ENST00000440666,;ZNF76,intron_variant,,ENST00000339411,;ZNF76,intron_variant,,ENST00000469195,;ZNF76,upstream_gene_variant,,ENST00000498555,;ZNF76,3_prime_UTR_variant,,ENST00000229405,;ZNF76,intron_variant,,ENST00000486891,;ZNF76,downstream_gene_variant,,ENST00000491400,;ZNF76,downstream_gene_variant,,ENST00000484932,;ZNF76,upstream_gene_variant,,ENST00000479226,;ZNF76,downstream_gene_variant,,ENST00000460229,;"	"T"	"ENSG00000065029"	"ENST00000373953"	"Transcript"	"intron_variant"	"-/2716"	"-/1713"	"-/570"	""	""	""	"1"	NA	1	"ZNF76"	"HGNC"	13149	"protein_coding"	"YES"	"CCDS4801.1"	"ENSP00000363064"	"P36508"	"E7EX64"	"UPI000013C41C"	"NM_003427.3"	""	""	""	"7/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"11a9ce28-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"9606"	"RP1-153P14.8"	100505530	"mskcc.org"	"GRCh37"	"6"	37498127	37498127	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.358-3925G>A"	""	""	"ENST00000570443"	""	78	"61"	17	42	"42"	0	"RP1-153P14.8,intron_variant,,ENST00000570443,;"	"A"	"ENSG00000204110"	"ENST00000570443"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/537"	""	""	""	""	""	"1"	NA	1	"RP1-153P14.8"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"11aa74f4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217948717948718	"WGS"	FALSE
"9607"	"BTBD9"	114781	"mskcc.org"	"GRCh37"	"6"	38237303	38237303	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1455-13011A>T"	""	""	"ENST00000481247"	""	117	"100"	17	61	"61"	0	"BTBD9,intron_variant,,ENST00000481247,NM_052893.1,NM_001099272.1;BTBD9,intron_variant,,ENST00000314100,NM_001172418.1,NM_152733.2;BTBD9,intron_variant,,ENST00000419706,;BTBD9,intron_variant,,ENST00000403056,;BTBD9,intron_variant,,ENST00000408958,;BTBD9,intron_variant,,ENST00000328403,;"	"A"	"ENSG00000183826"	"ENST00000481247"	"Transcript"	"intron_variant"	"-/8525"	"-/1839"	"-/612"	""	""	""	"1"	NA	-1	"BTBD9"	"HGNC"	21228	"protein_coding"	"YES"	"CCDS47418.1"	"ENSP00000418751"	"Q96Q07"	"Q8N299,C9JVC1,C9J8E4"	"UPI00001C040E"	"NM_052893.1,NM_001099272.1"	""	""	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"11aa9ef2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145299145299145	"WGS"	FALSE
"9608"	"PPP2R5D"	5528	"mskcc.org"	"GRCh37"	"6"	42962297	42962297	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.105+4871T>C"	""	""	"ENST00000485511"	""	105	"97"	8	57	"57"	0	"PPP2R5D,intron_variant,,ENST00000485511,NM_001270476.1,NM_006245.3;PPP2R5D,intron_variant,,ENST00000472118,;PPP2R5D,intron_variant,,ENST00000394110,NM_180976.2;PPP2R5D,intron_variant,,ENST00000461010,NM_180977.2;PPP2R5D,intron_variant,,ENST00000230402,;"	"C"	"ENSG00000112640"	"ENST00000485511"	"Transcript"	"intron_variant"	"-/3044"	"-/1809"	"-/602"	""	""	""	"1"	NA	1	"PPP2R5D"	"HGNC"	9312	"protein_coding"	"YES"	"CCDS4878.1"	"ENSP00000417963"	"Q14738"	""	"UPI0000124E92"	"NM_001270476.1,NM_006245.3"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"11abab62-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0761904761904762	"WGS"	FALSE
"9609"	"MAD2L1BP"	9587	"mskcc.org"	"GRCh37"	"6"	43605574	43605574	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"rs376970167"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.408+1191G>T"	""	""	"ENST00000451025"	""	106	"99"	7	44	"44"	0	"MAD2L1BP,intron_variant,,ENST00000451025,NM_001003690.1;MAD2L1BP,intron_variant,,ENST00000372171,NM_014628.2;MAD2L1BP,downstream_gene_variant,,ENST00000508232,;"	"T"	"ENSG00000124688"	"ENST00000451025"	"Transcript"	"intron_variant"	"-/1517"	"-/921"	"-/306"	""	""	"rs376970167"	"1"	NA	1	"MAD2L1BP"	"HGNC"	21059	"protein_coding"	"YES"	"CCDS47431.1"	"ENSP00000410818"	"Q15013"	""	"UPI000020DDDB"	"NM_001003690.1"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"11abe30c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0660377358490566	"WGS"	FALSE
"9610"	"TMEM63B"	55362	"mskcc.org"	"GRCh37"	"6"	44112827	44112827	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.783-1757G>C"	""	""	"ENST00000259746"	""	88	"83"	5	33	"33"	0	"TMEM63B,intron_variant,,ENST00000259746,;TMEM63B,intron_variant,,ENST00000323267,NM_018426.1;TMEM63B,intron_variant,,ENST00000371893,;TMEM63B,downstream_gene_variant,,ENST00000532634,;TMEM63B,downstream_gene_variant,,ENST00000527188,;TMEM63B,intron_variant,,ENST00000533121,;TMEM63B,intron_variant,,ENST00000534326,;TMEM63B,intron_variant,,ENST00000525873,;TMEM63B,intron_variant,,ENST00000497371,;TMEM63B,downstream_gene_variant,,ENST00000525294,;"	"C"	"ENSG00000137216"	"ENST00000259746"	"Transcript"	"intron_variant"	"-/3318"	"-/2499"	"-/832"	""	""	""	"1"	NA	1	"TMEM63B"	"HGNC"	17735	"protein_coding"	"YES"	"CCDS34461.1"	"ENSP00000259746"	"Q5T3F8"	"E9PNG1"	"UPI000020DDEE"	""	""	""	""	"10/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"11ac0be8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0568181818181818	"WGS"	FALSE
"9611"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	50331795	50331795	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"82"	7	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"11aceb58-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	FALSE
"9612"	"RP11-524K22.1"	0	"mskcc.org"	"GRCh37"	"6"	50482220	50482220	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.163+310G>T"	""	""	"ENST00000426547"	""	79	"73"	6	57	"57"	0	"RP11-524K22.1,intron_variant,,ENST00000426547,;"	"T"	"ENSG00000233470"	"ENST00000426547"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/285"	""	""	""	""	""	"1"	NA	1	"RP11-524K22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"11acf1ac-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"9613"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	51136420	51136420	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"64"	11	58	"58"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"11ad0980-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146666666666667	"WGS"	FALSE
"9614"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	52462570	52462570	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"87"	15	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"11ad3fd6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"9615"	"RP11-343D24.2"	101927293	"mskcc.org"	"GRCh37"	"6"	57688700	57688700	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000456887"	""	98	"82"	16	47	"47"	0	"RP11-343D24.2,upstream_gene_variant,,ENST00000456887,;GAPDHP41,upstream_gene_variant,,ENST00000429582,;"	"T"	"ENSG00000231273"	"ENST00000456887"	"Transcript"	"upstream_gene_variant"	"-/315"	""	""	""	""	""	"1"	"2195"	1	"RP11-343D24.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"11ae8486-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163265306122449	"WGS"	FALSE
"9616"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	62077738	62077738	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"34"	4	31	"31"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"11aed422-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"9617"	"RP11-448N11.2"	0	"mskcc.org"	"GRCh37"	"6"	63256842	63256842	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000405686"	""	99	"90"	9	52	"52"	0	"RP11-448N11.2,upstream_gene_variant,,ENST00000405686,;"	"C"	"ENSG00000217067"	"ENST00000405686"	"Transcript"	"upstream_gene_variant"	"-/392"	""	""	""	""	""	"1"	"490"	1	"RP11-448N11.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"11aef66e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"9618"	"LGSN"	51557	"mskcc.org"	"GRCh37"	"6"	63983001	63983001	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000370658"	""	84	"60"	24	52	"52"	0	"LGSN,downstream_gene_variant,,ENST00000370658,NM_016571.2,NM_001143940.1;"	"T"	"ENSG00000146166"	"ENST00000370658"	"Transcript"	"downstream_gene_variant"	"-/5213"	"-/627"	"-/208"	""	""	""	"1"	"2855"	-1	"LGSN"	"HGNC"	21016	"protein_coding"	""	"CCDS55027.1"	"ENSP00000359692"	"Q5TDP6"	""	"UPI00019294FE"	"NM_016571.2,NM_001143940.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"11af0cee-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"9619"	"EYS"	346007	"mskcc.org"	"GRCh37"	"6"	65668270	65668270	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2260-12463T>C"	""	""	"ENST00000503581"	""	88	"78"	10	39	"39"	0	"EYS,intron_variant,,ENST00000503581,NM_001142800.1;EYS,intron_variant,,ENST00000370621,;EYS,intron_variant,,ENST00000370616,;"	"G"	"ENSG00000188107"	"ENST00000503581"	"Transcript"	"intron_variant"	"-/10589"	"-/9435"	"-/3144"	""	""	""	"1"	NA	-1	"EYS"	"HGNC"	21555	"protein_coding"	"YES"	"CCDS47445.1"	"ENSP00000424243"	"Q5T1H1"	""	"UPI000188F466"	"NM_001142800.1"	""	""	""	"14/42"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"11af519a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WGS"	FALSE
"9620"	"EYS"	346007	"mskcc.org"	"GRCh37"	"6"	65727712	65727712	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2138-20116A>G"	""	""	"ENST00000503581"	""	98	"80"	18	61	"61"	0	"EYS,intron_variant,,ENST00000503581,NM_001142800.1;EYS,intron_variant,,ENST00000370621,;EYS,intron_variant,,ENST00000370616,;"	"C"	"ENSG00000188107"	"ENST00000503581"	"Transcript"	"intron_variant"	"-/10589"	"-/9435"	"-/3144"	""	""	""	"1"	NA	-1	"EYS"	"HGNC"	21555	"protein_coding"	"YES"	"CCDS47445.1"	"ENSP00000424243"	"Q5T1H1"	""	"UPI000188F466"	"NM_001142800.1"	""	""	""	"13/42"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"11af5244-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.183673469387755	"WGS"	FALSE
"9621"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	66877267	66877267	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"75"	23	63	"63"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"11af803e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23469387755102	"WGS"	FALSE
"9622"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	68635269	68635269	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs185664357"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"76"	13	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs185664357"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"11afca9e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146067415730337	"WGS"	FALSE
"9623"	"FAM135A"	57579	"mskcc.org"	"GRCh37"	"6"	71132101	71132101	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-133-4041T>G"	""	""	"ENST00000418814"	""	107	"83"	24	54	"53"	1	"FAM135A,intron_variant,,ENST00000418814,NM_001162529.1,NM_001105531.2;FAM135A,intron_variant,,ENST00000370479,;FAM135A,intron_variant,,ENST00000457062,NM_020819.4;FAM135A,intron_variant,,ENST00000361499,;FAM135A,intron_variant,,ENST00000505769,;FAM135A,intron_variant,,ENST00000515323,;FAM135A,intron_variant,,ENST00000507085,;FAM135A,intron_variant,,ENST00000515280,;FAM135A,intron_variant,,ENST00000508844,;FAM135A,intron_variant,,ENST00000514185,;FAM135A,upstream_gene_variant,,ENST00000194672,;"	"G"	"ENSG00000082269"	"ENST00000418814"	"Transcript"	"intron_variant"	"-/6415"	"-/4548"	"-/1515"	""	""	""	"1"	NA	1	"FAM135A"	"HGNC"	21084	"protein_coding"	"YES"	"CCDS55028.1"	"ENSP00000410768"	"Q9P2D6"	"D6RFG9,D6REA8,D6RC17"	"UPI000004A0FF"	"NM_001162529.1,NM_001105531.2"	""	""	""	"2/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"11b0112a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224299065420561	"WGS"	FALSE
"9624"	"OOEP-AS1"	0	"mskcc.org"	"GRCh37"	"6"	74095110	74095110	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.383-2250T>A"	""	""	"ENST00000445350"	""	70	"65"	5	36	"36"	0	"OOEP,intron_variant,,ENST00000370363,;OOEP,intron_variant,,ENST00000441145,;OOEP-AS1,intron_variant,,ENST00000445350,;"	"A"	"ENSG00000231332"	"ENST00000445350"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/463"	""	""	""	""	""	"1"	NA	1	"OOEP-AS1"	"HGNC"	39192	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"11b089e8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"9625"	"CD109"	135228	"mskcc.org"	"GRCh37"	"6"	74515900	74515900	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2961-667C>T"	""	""	"ENST00000287097"	""	101	"74"	27	63	"63"	0	"CD109,intron_variant,,ENST00000437994,NM_133493.3,NM_001159587.1;CD109,intron_variant,,ENST00000422508,NM_001159588.1;CD109,intron_variant,,ENST00000287097,;CD109,downstream_gene_variant,,ENST00000474094,;"	"T"	"ENSG00000156535"	"ENST00000287097"	"Transcript"	"intron_variant"	"-/9130"	"-/4338"	"-/1445"	""	""	""	"1"	NA	1	"CD109"	"HGNC"	21685	"protein_coding"	"YES"	"CCDS4982.1"	"ENSP00000287097"	"Q6YHK3"	"Q5XUN1,Q5XUM8,Q5XUM6,F1C639"	"UPI000013DE92"	""	""	""	""	"24/32"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"11b0bbd4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267326732673267	"WGS"	FALSE
"9626"	"COL12A1"	1303	"mskcc.org"	"GRCh37"	"6"	75869807	75869807	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2984-3568G>C"	""	""	"ENST00000322507"	""	89	"69"	20	46	"46"	0	"COL12A1,intron_variant,,ENST00000322507,NM_004370.5;COL12A1,intron_variant,,ENST00000483888,;COL12A1,intron_variant,,ENST00000416123,;COL12A1,intron_variant,,ENST00000345356,NM_080645.2;"	"G"	"ENSG00000111799"	"ENST00000322507"	"Transcript"	"intron_variant"	"-/11723"	"-/9192"	"-/3063"	""	""	""	"1"	NA	-1	"COL12A1"	"HGNC"	2188	"protein_coding"	"YES"	"CCDS43482.1"	"ENSP00000325146"	"Q99715"	""	"UPI000045890B"	"NM_004370.5"	""	""	""	"14/65"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"11b0ffcc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224719101123595	"WGS"	FALSE
"9627"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	78223926	78223926	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"70"	21	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"11b14b80-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"9628"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	78973150	78973150	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"38"	19	28	"28"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"11b1612e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"9629"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	83162220	83162220	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"92"	28	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"11b1e540-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WGS"	FALSE
"9630"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	83429983	83429983	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"57"	17	33	"33"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"11b1f116-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22972972972973	"WGS"	FALSE
"9631"	"AKIRIN2"	55122	"mskcc.org"	"GRCh37"	"6"	88402675	88402675	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.235+8493T>C"	""	""	"ENST00000257787"	""	94	"86"	8	56	"56"	0	"AKIRIN2,intron_variant,,ENST00000257787,NM_018064.3;"	"G"	"ENSG00000135334"	"ENST00000257787"	"Transcript"	"intron_variant"	"-/1662"	"-/612"	"-/203"	""	""	""	"1"	NA	-1	"AKIRIN2"	"HGNC"	21407	"protein_coding"	"YES"	"CCDS5013.1"	"ENSP00000257787"	"Q53H80"	"Q9NW35"	"UPI000006D634"	"NM_018064.3"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"11b2a8b8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"9632"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	88837942	88837942	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"80"	16	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"11b2bb82-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"9633"	"GABRR2"	2570	"mskcc.org"	"GRCh37"	"6"	90016209	90016209	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.114-6625G>T"	""	""	"ENST00000402938"	""	111	"85"	26	56	"56"	0	"GABRR2,intron_variant,,ENST00000402938,NM_002043.3;GABRR2,intron_variant,,ENST00000602399,;GABRR2,intron_variant,,ENST00000602808,;TUBB3P1,downstream_gene_variant,,ENST00000405796,;"	"A"	"ENSG00000111886"	"ENST00000402938"	"Transcript"	"intron_variant"	"-/1682"	"-/1398"	"-/465"	""	""	""	"1"	NA	-1	"GABRR2"	"HGNC"	4091	"protein_coding"	"YES"	"CCDS5020.3"	"ENSP00000386029"	"P28476"	"B4DER2"	"UPI000012B0DB"	"NM_002043.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"11b2f624-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234234234234234	"WGS"	FALSE
"9634"	"BACH2"	60468	"mskcc.org"	"GRCh37"	"6"	90745857	90745857	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-12-27282T>G"	""	""	"ENST00000257749"	""	75	"49"	26	45	"45"	0	"BACH2,intron_variant,,ENST00000257749,NM_021813.2;BACH2,intron_variant,,ENST00000537989,NM_001170794.1;BACH2,intron_variant,,ENST00000343122,;BACH2,intron_variant,,ENST00000453877,;BACH2,intron_variant,,ENST00000406998,;"	"C"	"ENSG00000112182"	"ENST00000257749"	"Transcript"	"intron_variant"	"-/9113"	"-/2526"	"-/841"	""	""	""	"1"	NA	-1	"BACH2"	"HGNC"	14078	"protein_coding"	"YES"	"CCDS5026.1"	"ENSP00000257749"	"Q9BYV9"	"S0BE05,S0BDZ6,S0BDY5,Q7Z6Q0"	"UPI000004F8AD"	"NM_021813.2"	""	""	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"11b31b2c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346666666666667	"WGS"	FALSE
"9635"	"AL589947.1"	0	"mskcc.org"	"GRCh37"	"6"	93520692	93520692	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000459381"	""	108	"78"	30	62	"62"	0	"AL589947.1,upstream_gene_variant,,ENST00000459381,;"	"A"	"ENSG00000238412"	"ENST00000459381"	"Transcript"	"upstream_gene_variant"	"-/94"	""	""	""	""	""	"1"	"1067"	1	"AL589947.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"11b36938-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"9636"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	94281765	94281765	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"97"	7	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"11b37e5a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0673076923076923	"WGS"	FALSE
"9637"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	98000468	98000468	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"73"	20	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"11b3f6b4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21505376344086	"WGS"	FALSE
"9638"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	99068429	99068429	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"69"	21	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"11b41608-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WGS"	FALSE
"9639"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	100138600	100138600	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"60"	12	43	"43"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"11b43b74-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"9640"	"ASCC3"	10973	"mskcc.org"	"GRCh37"	"6"	101231712	101231712	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1395+14877A>T"	""	""	"ENST00000369162"	""	96	"78"	18	60	"60"	0	"ASCC3,intron_variant,,ENST00000369162,NM_006828.2;ASCC3,intron_variant,,ENST00000522650,NM_001284271.1;ASCC3,intron_variant,,ENST00000324696,;"	"A"	"ENSG00000112249"	"ENST00000369162"	"Transcript"	"intron_variant"	"-/8146"	"-/6609"	"-/2202"	""	""	""	"1"	NA	-1	"ASCC3"	"HGNC"	18697	"protein_coding"	"YES"	"CCDS5046.1"	"ENSP00000358159"	"Q8N3C0"	"E5RFZ0"	"UPI000014145A"	"NM_006828.2"	""	""	""	"8/41"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"11b46284-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"9641"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	101840156	101840156	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"76"	22	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"11b474fe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224489795918367	"WGS"	FALSE
"9642"	"GRIK2"	2898	"mskcc.org"	"GRCh37"	"6"	102300980	102300980	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1318-6182G>A"	""	""	"ENST00000421544"	""	88	"66"	22	61	"61"	0	"GRIK2,intron_variant,,ENST00000369138,NM_001166247.1;GRIK2,intron_variant,,ENST00000413795,NM_175768.3;GRIK2,intron_variant,,ENST00000421544,NM_021956.4;GRIK2,intron_variant,,ENST00000369134,;GRIK2,intron_variant,,ENST00000318991,;GRIK2,intron_variant,,ENST00000369137,;GRIK2,intron_variant,,ENST00000436862,;GRIK2,intron_variant,,ENST00000455610,;"	"A"	"ENSG00000164418"	"ENST00000421544"	"Transcript"	"intron_variant"	"-/4789"	"-/2727"	"-/908"	""	""	""	"1"	NA	1	"GRIK2"	"HGNC"	4580	"protein_coding"	"YES"	"CCDS5048.1"	"ENSP00000397026"	"Q13002"	"Q9BZ15,Q6P3V6,H7C2P5,F8WEZ8,D7RWZ8"	"UPI000012B617"	"NM_021956.4"	""	""	""	"9/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGG"	"11b48372-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"9643"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	103900836	103900836	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"61"	21	69	"69"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"11b4b0ea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25609756097561	"WGS"	FALSE
"9644"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	104016332	104016332	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs79759208"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"70"	36	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs79759208"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0124"	"T:0.0439"	"T:0.0043"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"11b4b6e4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.339622641509434	"WGS"	FALSE
"9645"	"PDSS2"	57107	"mskcc.org"	"GRCh37"	"6"	107502681	107502681	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1041+12345T>C"	""	""	"ENST00000369037"	""	65	"57"	8	42	"42"	0	"PDSS2,intron_variant,,ENST00000369037,NM_020381.3;PDSS2,intron_variant,,ENST00000453874,;"	"G"	"ENSG00000164494"	"ENST00000369037"	"Transcript"	"intron_variant"	"-/3540"	"-/1200"	"-/399"	""	""	""	"1"	NA	-1	"PDSS2"	"HGNC"	23041	"protein_coding"	"YES"	"CCDS5059.1"	"ENSP00000358033"	"Q86YH6"	"B4DWD3"	"UPI000013E3B4"	"NM_020381.3"	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAA"	"11b5557c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123076923076923	"WGS"	FALSE
"9646"	"PDSS2"	57107	"mskcc.org"	"GRCh37"	"6"	107502684	107502684	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1041+12342A>G"	""	""	"ENST00000369037"	""	67	"56"	11	41	"41"	0	"PDSS2,intron_variant,,ENST00000369037,NM_020381.3;PDSS2,intron_variant,,ENST00000453874,;"	"C"	"ENSG00000164494"	"ENST00000369037"	"Transcript"	"intron_variant"	"-/3540"	"-/1200"	"-/399"	""	""	""	"1"	NA	-1	"PDSS2"	"HGNC"	23041	"protein_coding"	"YES"	"CCDS5059.1"	"ENSP00000358033"	"Q86YH6"	"B4DWD3"	"UPI000013E3B4"	"NM_020381.3"	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"11b556f8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164179104477612	"WGS"	FALSE
"9647"	"PDSS2"	57107	"mskcc.org"	"GRCh37"	"6"	107502685	107502685	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1041+12341A>G"	""	""	"ENST00000369037"	""	67	"59"	8	39	"39"	0	"PDSS2,intron_variant,,ENST00000369037,NM_020381.3;PDSS2,intron_variant,,ENST00000453874,;"	"C"	"ENSG00000164494"	"ENST00000369037"	"Transcript"	"intron_variant"	"-/3540"	"-/1200"	"-/399"	""	""	""	"1"	NA	-1	"PDSS2"	"HGNC"	23041	"protein_coding"	"YES"	"CCDS5059.1"	"ENSP00000358033"	"Q86YH6"	"B4DWD3"	"UPI000013E3B4"	"NM_020381.3"	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"11b557a2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119402985074627	"WGS"	FALSE
"9648"	"C6orf183"	0	"mskcc.org"	"GRCh37"	"6"	109543497	109543497	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1360-4272C>G"	""	""	"ENST00000417143"	""	110	"91"	19	61	"61"	0	"C6orf183,intron_variant,,ENST00000417143,;"	"G"	"ENSG00000243587"	"ENST00000417143"	"Transcript"	"intron_variant"	"-/1956"	"-/1875"	"-/625"	""	""	""	"1"	NA	1	"C6orf183"	"HGNC"	21562	"polymorphic_pseudogene"	""	""	"ENSP00000475092"	""	""	""	""	""	""	""	"11/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"11b5d8bc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172727272727273	"WGS"	FALSE
"9649"	"RP3-399L15.2"	0	"mskcc.org"	"GRCh37"	"6"	114858077	114858077	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"rs562826997"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000435802"	""	84	"70"	14	66	"66"	0	"RP3-399L15.2,upstream_gene_variant,,ENST00000435802,;"	"A"	"ENSG00000226079"	"ENST00000435802"	"Transcript"	"upstream_gene_variant"	"-/402"	""	""	""	""	"rs562826997"	"1"	"1038"	-1	"RP3-399L15.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"A:0.0004"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"11b6d6f4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"9650"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	115227845	115227845	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"65"	12	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"11b6e5d6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155844155844156	"WGS"	FALSE
"9651"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	116188972	116188972	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"71"	18	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"11b6fdd2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202247191011236	"WGS"	FALSE
"9652"	"RWDD1"	51389	"mskcc.org"	"GRCh37"	"6"	116896618	116896618	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.73+3800T>C"	""	""	"ENST00000466444"	""	96	"71"	25	64	"64"	0	"RWDD1,intron_variant,,ENST00000466444,NM_015952.2;RWDD1,intron_variant,,ENST00000487832,NM_001007464.1;RWDD1,intron_variant,,ENST00000392526,NM_016104.2;RWDD1,intron_variant,,ENST00000368590,;RWDD1,intron_variant,,ENST00000518117,;RWDD1,upstream_gene_variant,,ENST00000468204,;RWDD1,intron_variant,,ENST00000517800,;"	"C"	"ENSG00000111832"	"ENST00000466444"	"Transcript"	"intron_variant"	"-/5522"	"-/732"	"-/243"	""	""	""	"1"	NA	1	"RWDD1"	"HGNC"	20993	"protein_coding"	"YES"	"CCDS34520.1"	"ENSP00000420357"	"Q9H446"	"E5RJE3,E5RGS5,E5RGQ3"	"UPI000006CF1D"	"NM_015952.2"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"11b71b50-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260416666666667	"WGS"	FALSE
"9653"	"GPRC6A"	222545	"mskcc.org"	"GRCh37"	"6"	117110183	117110183	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000310357"	""	105	"85"	20	73	"73"	0	"GPRC6A,downstream_gene_variant,,ENST00000310357,NM_148963.2;GPRC6A,downstream_gene_variant,,ENST00000368549,NM_001286355.1;GPRC6A,downstream_gene_variant,,ENST00000530250,NM_001286354.1;"	"A"	"ENSG00000173612"	"ENST00000310357"	"Transcript"	"downstream_gene_variant"	"-/2860"	"-/2781"	"-/926"	""	""	""	"1"	"3065"	-1	"GPRC6A"	"HGNC"	18510	"protein_coding"	"YES"	"CCDS5112.1"	"ENSP00000309493"	"Q5T6X5"	""	"UPI000013EFF9"	"NM_148963.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"11b72398-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"9654"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	120173620	120173620	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"78"	20	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"11b79710-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204081632653061	"WGS"	FALSE
"9655"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	120463600	120463600	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"73"	20	61	"61"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"11b79ecc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21505376344086	"WGS"	FALSE
"9656"	"NKAIN2"	154215	"mskcc.org"	"GRCh37"	"6"	124711455	124711455	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.273+34962C>G"	""	""	"ENST00000368417"	""	104	"79"	25	49	"49"	0	"NKAIN2,intron_variant,,ENST00000368417,NM_001040214.1;NKAIN2,intron_variant,,ENST00000368416,;NKAIN2,intron_variant,,ENST00000545433,;NKAIN2,intron_variant,,ENST00000546092,;NKAIN2,intron_variant,,ENST00000476571,;"	"G"	"ENSG00000188580"	"ENST00000368417"	"Transcript"	"intron_variant"	"-/3115"	"-/627"	"-/208"	""	""	""	"1"	NA	1	"NKAIN2"	"HGNC"	16443	"protein_coding"	"YES"	"CCDS34526.1"	"ENSP00000357402"	"Q5VXU1"	"B3KNZ0,B0AZU5"	"UPI0000458919"	"NM_001040214.1"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"11b832e2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240384615384615	"WGS"	FALSE
"9657"	"C6orf58"	352999	"mskcc.org"	"GRCh37"	"6"	127889651	127889651	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.255-2247T>G"	""	""	"ENST00000498112"	""	119	"112"	7	50	"50"	0	"C6orf58,intron_variant,,ENST00000498112,;"	"G"	"ENSG00000184530"	"ENST00000498112"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/352"	""	""	""	""	""	"1"	NA	1	"C6orf58"	"HGNC"	20960	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"11b8911a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"9658"	"ARHGAP18"	93663	"mskcc.org"	"GRCh37"	"6"	129940802	129940802	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.787-805T>C"	""	""	"ENST00000368149"	""	61	"53"	8	29	"29"	0	"ARHGAP18,intron_variant,,ENST00000368149,NM_033515.2;"	"G"	"ENSG00000146376"	"ENST00000368149"	"Transcript"	"intron_variant"	"-/4462"	"-/1992"	"-/663"	""	""	""	"1"	NA	-1	"ARHGAP18"	"HGNC"	21035	"protein_coding"	"YES"	"CCDS34535.1"	"ENSP00000357131"	"Q8N392"	""	"UPI000020E208"	"NM_033515.2"	""	""	""	"5/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"11b8dc92-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131147540983607	"WGS"	FALSE
"9659"	"ENSR00001499842"	0	"mskcc.org"	"GRCh37"	"6"	130245413	130245413	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001499842"	""	78	"71"	7	40	"40"	0	""	"A"	""	"ENSR00001499842"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"11b8ecaa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"9660"	"ENPP1"	5167	"mskcc.org"	"GRCh37"	"6"	132161062	132161062	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.241-7854A>G"	""	""	"ENST00000360971"	""	99	"71"	28	55	"55"	0	"ENPP1,intron_variant,,ENST00000360971,NM_006208.2;ENPP1,intron_variant,,ENST00000513998,;ENPP1,intron_variant,,ENST00000486853,;"	"G"	"ENSG00000197594"	"ENST00000360971"	"Transcript"	"intron_variant"	"-/7442"	"-/2778"	"-/925"	""	""	""	"1"	NA	1	"ENPP1"	"HGNC"	3356	"protein_coding"	"YES"	"CCDS5150.2"	"ENSP00000354238"	"P22413"	"Q9NS95"	"UPI00001303F0"	"NM_006208.2"	""	""	""	"1/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAC"	"11b93ad4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282828282828283	"WGS"	FALSE
"9661"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	133363255	133363255	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"72"	25	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"11b96f7c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257731958762887	"WGS"	FALSE
"9662"	"RP3-323P13.2"	100507308	"mskcc.org"	"GRCh37"	"6"	134087906	134087906	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.547+2063G>C"	""	""	"ENST00000607033"	""	103	"84"	19	62	"62"	0	"RP3-323P13.2,intron_variant,,ENST00000607033,;RP3-323P13.2,intron_variant,,ENST00000606544,;RP3-323P13.2,intron_variant,,ENST00000606292,;RP3-323P13.2,intron_variant,,ENST00000607573,;RP3-323P13.2,intron_variant,,ENST00000419627,;"	"G"	"ENSG00000227954"	"ENST00000607033"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2960"	""	""	""	""	""	"1"	NA	-1	"RP3-323P13.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"11b98c64-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184466019417476	"WGS"	FALSE
"9663"	"ABRACL"	58527	"mskcc.org"	"GRCh37"	"6"	139357313	139357313	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.61+1955A>G"	""	""	"ENST00000367660"	""	81	"72"	9	33	"33"	0	"ABRACL,intron_variant,,ENST00000367660,NM_021243.2;ABRACL,downstream_gene_variant,,ENST00000461027,;"	"G"	"ENSG00000146386"	"ENST00000367660"	"Transcript"	"intron_variant"	"-/845"	"-/246"	"-/81"	""	""	""	"1"	NA	1	"ABRACL"	"HGNC"	21230	"protein_coding"	"YES"	"CCDS43509.1"	"ENSP00000356632"	"Q9P1F3"	""	"UPI000004BBBC"	"NM_021243.2"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"11ba77e6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"9664"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	142424435	142424435	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"86"	19	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"11baf72a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180952380952381	"WGS"	FALSE
"9665"	"AIG1"	51390	"mskcc.org"	"GRCh37"	"6"	143574796	143574796	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.400-30451C>T"	""	""	"ENST00000357847"	""	100	"79"	21	63	"63"	0	"AIG1,intron_variant,,ENST00000357847,NM_016108.2,NM_001286587.1;AIG1,intron_variant,,ENST00000344492,;AIG1,intron_variant,,ENST00000275235,;AIG1,intron_variant,,ENST00000367601,;AIG1,intron_variant,,ENST00000458219,;AIG1,intron_variant,,ENST00000447498,;"	"T"	"ENSG00000146416"	"ENST00000357847"	"Transcript"	"intron_variant"	"-/1395"	"-/717"	"-/238"	""	""	""	"1"	NA	1	"AIG1"	"HGNC"	21607	"protein_coding"	"YES"	"CCDS5198.1"	"ENSP00000350509"	"Q9NVV5"	"Q5THU2,Q5T2H0"	"UPI000006F22E"	"NM_016108.2,NM_001286587.1"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"11bb11b0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21	"WGS"	FALSE
"9666"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	143699441	143699441	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"77"	18	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"11bb1656-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189473684210526	"WGS"	FALSE
"9667"	"ADGB"	79747	"mskcc.org"	"GRCh37"	"6"	146973103	146973103	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.331-2168C>T"	""	""	"ENST00000397944"	""	88	"64"	24	70	"70"	0	"ADGB,intron_variant,,ENST00000397944,NM_024694.3;ADGB,intron_variant,,ENST00000367493,;ADGB,intron_variant,,ENST00000522242,;ADGB,upstream_gene_variant,,ENST00000473647,;ADGB,intron_variant,,ENST00000493950,;ADGB,intron_variant,,ENST00000326929,;ADGB,intron_variant,,ENST00000522396,;"	"T"	"ENSG00000118492"	"ENST00000397944"	"Transcript"	"intron_variant"	"-/5325"	"-/5004"	"-/1667"	""	""	""	"1"	NA	1	"ADGB"	"HGNC"	21212	"protein_coding"	"YES"	""	"ENSP00000381036"	"Q8N7X0"	""	"UPI000020E382"	"NM_024694.3"	""	""	""	"3/35"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"11bb8cd0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"9668"	"RP11-631F7.2"	0	"mskcc.org"	"GRCh37"	"6"	148455854	148455854	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.97-580A>G"	""	""	"ENST00000417838"	""	87	"69"	18	55	"55"	0	"RP11-631F7.2,intron_variant,,ENST00000417838,;"	"C"	"ENSG00000230205"	"ENST00000417838"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/426"	""	""	""	""	""	"1"	NA	-1	"RP11-631F7.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"11bbc16e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206896551724138	"WGS"	FALSE
"9669"	"UST"	10090	"mskcc.org"	"GRCh37"	"6"	149198877	149198877	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.248-9245G>T"	""	""	"ENST00000367463"	""	41	"36"	5	27	"27"	0	"UST,intron_variant,,ENST00000367463,NM_005715.2;"	"T"	"ENSG00000111962"	"ENST00000367463"	"Transcript"	"intron_variant"	"-/4198"	"-/1221"	"-/406"	""	""	""	"1"	NA	1	"UST"	"HGNC"	17223	"protein_coding"	"YES"	"CCDS5213.1"	"ENSP00000356433"	"Q9Y2C2"	""	"UPI000006EF6A"	"NM_005715.2"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"11bbe324-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WGS"	FALSE
"9670"	"RAET1E"	135250	"mskcc.org"	"GRCh37"	"6"	150211088	150211088	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"rs772965437"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.279G>A"	"p.="	"p.T93T"	"ENST00000357183"	"2/4"	100	"82"	18	51	"51"	0	"RAET1E,synonymous_variant,p.=,ENST00000532335,NM_001243328.1;RAET1E,synonymous_variant,p.=,ENST00000357183,NM_139165.2;RAET1E,synonymous_variant,p.=,ENST00000529948,NM_001243327.1;RAET1E,synonymous_variant,p.=,ENST00000367363,NM_001243325.1;RAET1E,downstream_gene_variant,,ENST00000531073,;RP11-244K5.8,intron_variant,,ENST00000606915,;RAET1E-AS1,intron_variant,,ENST00000605899,;RAET1E-AS1,upstream_gene_variant,,ENST00000446954,;RAET1E,intron_variant,,ENST00000392270,;"	"T"	"ENSG00000164520"	"ENST00000357183"	"Transcript"	"synonymous_variant"	"412/958"	"279/792"	"93/263"	"T"	"acG/acA"	"rs772965437"	"1"	NA	-1	"RAET1E"	"HGNC"	16793	"protein_coding"	"YES"	"CCDS5221.1"	"ENSP00000349709"	"Q8TD07"	"I2GUA6,E9PKJ6"	"UPI0000071E77"	"NM_139165.2"	""	""	"2/4"	""	"Gene3D:3.30.500.10,Pfam_domain:PF14586,hmmpanther:PTHR16675,hmmpanther:PTHR16675:SF64,Superfamily_domains:SSF54452"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	"1.883e-05"	"0"	"0"	"0"	"0"	"1.84e-05"	"0"	"6.095e-05"	NA	"PASS"	"GCG"	"11bc2c8a-deaf-11e6-a4db-9a8e424a729f"	"."	1.883e-05	"2/106208"	"2/106210"	"0/9066"	"0/11214"	"0/7866"	"0/6614"	"1/54346"	"0/694"	"1/16408"	"PASS"	"FALSE"	0.18	"WGS"	FALSE
"9671"	"SYNE1"	23345	"mskcc.org"	"GRCh37"	"6"	152539572	152539572	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.22045-34A>T"	""	""	"ENST00000367255"	""	97	"90"	7	47	"47"	0	"SYNE1,intron_variant,,ENST00000367255,NM_182961.3;SYNE1,intron_variant,,ENST00000265368,;SYNE1,intron_variant,,ENST00000448038,;SYNE1,intron_variant,,ENST00000423061,NM_033071.3;SYNE1,intron_variant,,ENST00000341594,;SYNE1,intron_variant,,ENST00000356820,;SYNE1,intron_variant,,ENST00000367251,;SYNE1,upstream_gene_variant,,ENST00000367257,;SYNE1,intron_variant,,ENST00000367256,;SYNE1,intron_variant,,ENST00000409694,;"	"A"	"ENSG00000131018"	"ENST00000367255"	"Transcript"	"intron_variant"	"-/27748"	"-/26394"	"-/8797"	""	""	""	"1"	NA	-1	"SYNE1"	"HGNC"	17089	"protein_coding"	"YES"	"CCDS5236.2"	"ENSP00000356224"	"Q8NF91"	""	"UPI000204AF58"	"NM_182961.3"	""	""	""	"120/145"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"11bcbac4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.0721649484536082	"WGS"	FALSE
"9672"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	156247611	156247611	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"76"	12	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"11bd6168-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"9673"	"TULP4"	56995	"mskcc.org"	"GRCh37"	"6"	158876330	158876330	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.859+3030T>A"	""	""	"ENST00000367097"	""	56	"52"	4	27	"27"	0	"TULP4,intron_variant,,ENST00000367097,NM_020245.4;TULP4,intron_variant,,ENST00000367094,NM_001007466.2;"	"A"	"ENSG00000130338"	"ENST00000367097"	"Transcript"	"intron_variant"	"-/11123"	"-/4632"	"-/1543"	""	""	""	"1"	NA	1	"TULP4"	"HGNC"	15530	"protein_coding"	"YES"	"CCDS34561.1"	"ENSP00000356064"	"Q9NRJ4"	""	"UPI000013CD76"	"NM_020245.4"	""	""	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"11be68ec-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"9674"	"TMEM181"	57583	"mskcc.org"	"GRCh37"	"6"	158984807	158984807	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.420-9645G>T"	""	""	"ENST00000367090"	""	88	"73"	15	53	"53"	0	"TMEM181,intron_variant,,ENST00000367090,NM_020823.1;"	"T"	"ENSG00000146433"	"ENST00000367090"	"Transcript"	"intron_variant"	"-/5390"	"-/1839"	"-/612"	""	""	""	"1"	NA	1	"TMEM181"	"HGNC"	20958	"protein_coding"	"YES"	"CCDS43520.1"	"ENSP00000356057"	"Q9P2C4"	""	"UPI00001C1E40"	"NM_020823.1"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"11be6cc0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170454545454545	"WGS"	FALSE
"9675"	"SYTL3"	94120	"mskcc.org"	"GRCh37"	"6"	159076204	159076204	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-229+3330A>C"	""	""	"ENST00000360448"	""	101	"84"	17	53	"53"	0	"SYTL3,intron_variant,,ENST00000360448,NM_001242394.1,NM_001242384.1,NM_001009991.3,NM_001242395.1;SYTL3,intron_variant,,ENST00000469735,;"	"C"	"ENSG00000164674"	"ENST00000360448"	"Transcript"	"intron_variant"	"-/2277"	"-/1629"	"-/542"	""	""	""	"1"	NA	1	"SYTL3"	"HGNC"	15587	"protein_coding"	""	"CCDS34563.1"	"ENSP00000353631"	"Q4VX76"	""	"UPI0000D4E01E"	"NM_001242394.1,NM_001242384.1,NM_001009991.3,NM_001242395.1"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"11be71de-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168316831683168	"WGS"	FALSE
"9676"	"SLC22A3"	6581	"mskcc.org"	"GRCh37"	"6"	160859988	160859988	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1288+1745C>T"	""	""	"ENST00000275300"	""	90	"69"	21	44	"44"	0	"SLC22A3,intron_variant,,ENST00000392145,;SLC22A3,intron_variant,,ENST00000275300,NM_021977.3;"	"T"	"ENSG00000146477"	"ENST00000275300"	"Transcript"	"intron_variant"	"-/3348"	"-/1671"	"-/556"	""	""	""	"1"	NA	1	"SLC22A3"	"HGNC"	10967	"protein_coding"	"YES"	"CCDS5277.1"	"ENSP00000275300"	"O75751"	"Q9NQC0"	"UPI0000130BB7"	"NM_021977.3"	""	""	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"11beccec-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WGS"	FALSE
"9677"	"PARK2"	5071	"mskcc.org"	"GRCh37"	"6"	163016889	163016889	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7+131805C>T"	""	""	"ENST00000366898"	""	84	"58"	26	71	"70"	1	"PARK2,intron_variant,,ENST00000366898,NM_004562.2;PARK2,intron_variant,,ENST00000366897,NM_013987.2;PARK2,intron_variant,,ENST00000366896,NM_013988.2;PARK2,intron_variant,,ENST00000366892,;PARK2,intron_variant,,ENST00000338468,;PARK2,intron_variant,,ENST00000366894,;PARK2,intron_variant,,ENST00000479615,;"	"A"	"ENSG00000185345"	"ENST00000366898"	"Transcript"	"intron_variant"	"-/4180"	"-/1398"	"-/465"	""	""	""	"1"	NA	-1	"PARK2"	"HGNC"	8607	"protein_coding"	"YES"	"CCDS5281.1"	"ENSP00000355865"	"O60260"	"M4T2U2,Q6S8G7,Q6Q2I8,Q5XNR7"	"UPI00003673FE"	"NM_004562.2"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"11bf7480-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30952380952381	"WGS"	FALSE
"9678"	"LINC00473"	90632	"mskcc.org"	"GRCh37"	"6"	166405957	166405957	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000455853"	""	85	"69"	16	55	"55"	0	"LINC00473,upstream_gene_variant,,ENST00000584911,;LINC00473,upstream_gene_variant,,ENST00000455853,;LINC00473,upstream_gene_variant,,ENST00000584179,;LINC00473,upstream_gene_variant,,ENST00000581850,;LINC00473,upstream_gene_variant,,ENST00000444465,;"	"G"	"ENSG00000223414"	"ENST00000455853"	"Transcript"	"upstream_gene_variant"	"-/1822"	""	""	""	""	""	"1"	"4430"	-1	"LINC00473"	"HGNC"	21160	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"11c03bcc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188235294117647	"WGS"	FALSE
"9679"	"RP11-514O12.4"	0	"mskcc.org"	"GRCh37"	"6"	167312353	167312353	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.434+35226C>G"	""	""	"ENST00000507747"	""	95	"88"	7	69	"69"	0	"RP11-514O12.4,intron_variant,,ENST00000507747,;RPS6KA2,intron_variant,,ENST00000512860,;RPS6KA2-AS1,upstream_gene_variant,,ENST00000455390,;"	"C"	"ENSG00000249141"	"ENST00000507747"	"Transcript"	"intron_variant"	"-/600"	"-/558"	"-/185"	""	""	""	"1"	NA	-1	"RP11-514O12.4"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000426906"	""	""	"UPI0001D3BD06"	""	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"11c07ace-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"9680"	"RP11-568A7.2"	0	"mskcc.org"	"GRCh37"	"6"	167662891	167662891	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000439207"	""	96	"76"	20	70	"70"	0	"RP11-568A7.2,downstream_gene_variant,,ENST00000439207,;"	"A"	"ENSG00000228648"	"ENST00000439207"	"Transcript"	"downstream_gene_variant"	"-/205"	""	""	""	""	""	"1"	"3487"	1	"RP11-568A7.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"11c09d4c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WGS"	FALSE
"9681"	"WDR27"	253769	"mskcc.org"	"GRCh37"	"6"	170024888	170024888	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2223+8155T>A"	""	""	"ENST00000448612"	""	98	"81"	17	52	"52"	0	"WDR27,intron_variant,,ENST00000333572,;WDR27,intron_variant,,ENST00000448612,NM_182552.4;WDR27,intron_variant,,ENST00000423258,NM_001202550.1;WDR27,intron_variant,,ENST00000546525,;WDR27,intron_variant,,ENST00000479310,;"	"T"	"ENSG00000184465"	"ENST00000448612"	"Transcript"	"intron_variant"	"-/3178"	"-/2688"	"-/895"	""	""	""	"1"	NA	-1	"WDR27"	"HGNC"	21248	"protein_coding"	"YES"	"CCDS47520.2"	"ENSP00000416289"	"A2RRH5"	"F8VUY7"	"UPI00015E06AF"	"NM_182552.4"	""	""	""	"21/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"11c25f56-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173469387755102	"WGS"	FALSE
"9682"	"RP11-302L19.1"	0	"mskcc.org"	"GRCh37"	"6"	170478405	170478405	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000429305"	""	89	"74"	15	69	"69"	0	"RP11-302L19.1,downstream_gene_variant,,ENST00000429305,;"	"T"	"ENSG00000232197"	"ENST00000429305"	"Transcript"	"downstream_gene_variant"	"-/429"	""	""	""	""	""	"1"	"154"	1	"RP11-302L19.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"11c2c45a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168539325842697	"WGS"	FALSE
"9683"	"AC226118.1"	442497	"mskcc.org"	"GRCh37"	"7"	418741	418741	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000515213"	""	104	"88"	16	73	"73"	0	"AC226118.1,upstream_gene_variant,,ENST00000515213,;"	"A"	"ENSG00000249574"	"ENST00000515213"	"Transcript"	"upstream_gene_variant"	"-/2146"	""	""	""	""	""	"1"	"584"	1	"AC226118.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"11c413d2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"9684"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	1358493	1358493	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs566518978"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"70"	16	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs566518978"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0010"	"T:0"	"T:0"	NA	"T:0.005"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"11c58514-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186046511627907	"WGS"	FALSE
"9685"	"MAD1L1"	8379	"mskcc.org"	"GRCh37"	"7"	1969466	1969466	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs71523286"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1807+6857C>T"	""	""	"ENST00000406869"	""	18	"14"	4	11	"11"	0	"MAD1L1,intron_variant,,ENST00000406869,;MAD1L1,intron_variant,,ENST00000399654,NM_001013837.1,NM_003550.2,NM_001013836.1;MAD1L1,intron_variant,,ENST00000265854,;MAD1L1,intron_variant,,ENST00000402746,;MAD1L1,intron_variant,,ENST00000437877,;MAD1L1,intron_variant,,ENST00000450235,;"	"A"	"ENSG00000002822"	"ENST00000406869"	"Transcript"	"intron_variant"	"-/2991"	"-/2157"	"-/718"	""	""	"rs71523286"	"1"	NA	-1	"MAD1L1"	"HGNC"	6762	"protein_coding"	"YES"	"CCDS43539.1"	"ENSP00000385334"	"Q9Y6D9"	"C9K086,C9JX80,C9JTA2,C9JKI7,C9JJ38,C9J9H5"	"UPI0000072C4D"	""	""	""	""	"17/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"11c604d0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"9686"	"SNX8"	29886	"mskcc.org"	"GRCh37"	"7"	2360336	2360336	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-66+33521T>C"	""	""	"ENST00000435336"	""	112	"97"	15	53	"53"	0	"SNX8,intron_variant,,ENST00000435336,;SNX8,intron_variant,,ENST00000447136,;"	"G"	"ENSG00000106266"	"ENST00000435336"	"Transcript"	"intron_variant"	"-/634"	"-/481"	"-/160"	""	""	""	"1"	NA	-1	"SNX8"	"HGNC"	14972	"protein_coding"	""	""	"ENSP00000406212"	""	"C9JCB9,C9J8E6,C9IYC5"	"UPI000173A1EA"	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"11c648fa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133928571428571	"WGS"	FALSE
"9687"	"SDK1"	221935	"mskcc.org"	"GRCh37"	"7"	3616542	3616542	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.299-42170G>C"	""	""	"ENST00000404826"	""	85	"74"	11	66	"66"	0	"SDK1,intron_variant,,ENST00000404826,NM_152744.3;SDK1,intron_variant,,ENST00000389531,;"	"C"	"ENSG00000146555"	"ENST00000404826"	"Transcript"	"intron_variant"	"-/10397"	"-/6642"	"-/2213"	""	""	""	"1"	NA	1	"SDK1"	"HGNC"	19307	"protein_coding"	"YES"	"CCDS34590.1"	"ENSP00000385899"	"Q7Z5N4"	""	"UPI0000DBEEC4"	"NM_152744.3"	""	""	""	"1/44"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"11c6c71c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129411764705882	"WGS"	FALSE
"9688"	"MMD2"	221938	"mskcc.org"	"GRCh37"	"7"	4987520	4987520	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.47+11082T>C"	""	""	"ENST00000404774"	""	57	"50"	7	44	"44"	0	"MMD2,intron_variant,,ENST00000404774,NM_001100600.1;MMD2,intron_variant,,ENST00000406755,NM_001270375.1;MMD2,intron_variant,,ENST00000401401,NM_198403.3;"	"G"	"ENSG00000136297"	"ENST00000404774"	"Transcript"	"intron_variant"	"-/2415"	"-/813"	"-/270"	""	""	""	"1"	NA	-1	"MMD2"	"HGNC"	30133	"protein_coding"	"YES"	"CCDS47529.1"	"ENSP00000384690"	"Q8IY49"	""	"UPI000016199F"	"NM_001100600.1"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"11c7547a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12280701754386	"WGS"	FALSE
"9689"	"TNRC18"	84629	"mskcc.org"	"GRCh37"	"7"	5455815	5455815	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.187+4876C>A"	""	""	"ENST00000430969"	""	86	"64"	22	40	"40"	0	"TNRC18,intron_variant,,ENST00000399537,;TNRC18,intron_variant,,ENST00000430969,NM_001080495.2;TNRC18,intron_variant,,ENST00000399434,;AC092171.2,upstream_gene_variant,,ENST00000455866,;AC093620.5,upstream_gene_variant,,ENST00000342963,;"	"T"	"ENSG00000182095"	"ENST00000430969"	"Transcript"	"intron_variant"	"-/10562"	"-/8907"	"-/2968"	""	""	""	"1"	NA	-1	"TNRC18"	"HGNC"	11962	"protein_coding"	"YES"	"CCDS47534.1"	"ENSP00000395538"	"O15417"	"H7C3U5,C9J9K1"	"UPI00016632FD"	"NM_001080495.2"	""	""	""	"2/29"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"11c77c3e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255813953488372	"WGS"	FALSE
"9690"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	5831402	5831402	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	28	"22"	6	10	"10"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"11c7a6be-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"9691"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	5831406	5831406	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"20"	6	9	"9"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"11c7a75e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"9692"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	5831407	5831407	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"20"	6	9	"9"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"11c7a7fe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"9693"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	5831408	5831408	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"20"	6	9	"9"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"11c7a89e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"9694"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	5831419	5831419	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs369145105"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"20"	6	9	"9"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs369145105"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"11c7a948-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"9695"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	5831420	5831420	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs372677828"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"20"	6	9	"9"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs372677828"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"11c7a9e8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"9696"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	5831422	5831422	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"rs376943881"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	25	"19"	6	9	"9"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs376943881"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"11c7aa88-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WGS"	FALSE
"9697"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	5831425	5831425	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs371212786"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	24	"18"	6	8	"8"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs371212786"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"11c7ab28-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"9698"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	5831432	5831432	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs373898461"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	22	"16"	6	6	"6"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs373898461"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"11c7abd2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"9699"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	5831433	5831433	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs377687888"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	23	"17"	6	6	"6"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs377687888"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"11c7ac72-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"9700"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	5831436	5831436	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"rs370993939"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	23	"17"	6	6	"6"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs370993939"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"11c7ad12-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"9701"	"FAM220A"	84792	"mskcc.org"	"GRCh37"	"7"	6385514	6385514	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-82+2690G>C"	""	""	"ENST00000313324"	""	87	"70"	17	46	"46"	0	"FAM220A,intron_variant,,ENST00000313324,NM_001037163.1;FAM220A,intron_variant,,ENST00000530143,;FAM220A,intron_variant,,ENST00000578372,;FAM220A,intron_variant,,ENST00000533877,;"	"G"	"ENSG00000178397"	"ENST00000313324"	"Transcript"	"intron_variant"	"-/2214"	"-/780"	"-/259"	""	""	""	"1"	NA	-1	"FAM220A"	"HGNC"	22422	"protein_coding"	"YES"	"CCDS34599.1"	"ENSP00000317289"	"Q7Z4H9"	"E9PQY0,E9PQC6"	"UPI000013F4F0"	"NM_001037163.1"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"11c7fc36-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195402298850575	"WGS"	FALSE
"9702"	"KDELR2"	11014	"mskcc.org"	"GRCh37"	"7"	6499535	6499535	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000258739"	""	105	"96"	9	56	"56"	0	"DAGLB,intron_variant,,ENST00000436575,;KDELR2,downstream_gene_variant,,ENST00000258739,NM_006854.3;KDELR2,downstream_gene_variant,,ENST00000490996,NM_001100603.1;KDELR2,intron_variant,,ENST00000463747,;KDELR2,downstream_gene_variant,,ENST00000454368,;"	"T"	"ENSG00000136240"	"ENST00000258739"	"Transcript"	"downstream_gene_variant"	"-/2884"	"-/639"	"-/212"	""	""	""	"1"	"1177"	-1	"KDELR2"	"HGNC"	6305	"protein_coding"	"YES"	"CCDS5351.1"	"ENSP00000258739"	"P33947"	""	"UPI000012A0CC"	"NM_006854.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"11c80f14-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"9703"	"AC092104.5"	0	"mskcc.org"	"GRCh37"	"7"	7105082	7105082	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000580342"	""	88	"69"	19	55	"55"	0	"AC092104.5,downstream_gene_variant,,ENST00000580342,;AC092104.1,downstream_gene_variant,,ENST00000580594,;AC092104.3,downstream_gene_variant,,ENST00000581847,;AC092104.2,downstream_gene_variant,,ENST00000578180,;MIR3683,downstream_gene_variant,,ENST00000580847,;AC092104.4,downstream_gene_variant,,ENST00000581017,;"	"T"	"ENSG00000266409"	"ENST00000580342"	"Transcript"	"downstream_gene_variant"	"-/83"	""	""	""	""	""	"1"	"2736"	-1	"AC092104.5"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"11c844a2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215909090909091	"WGS"	FALSE
"9704"	"THSD7A"	221981	"mskcc.org"	"GRCh37"	"7"	11504622	11504622	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2369-2852G>T"	""	""	"ENST00000423059"	""	98	"82"	16	59	"59"	0	"THSD7A,intron_variant,,ENST00000423059,NM_015204.2;AC004538.3,intron_variant,,ENST00000445839,;THSD7A,intron_variant,,ENST00000497575,;"	"A"	"ENSG00000005108"	"ENST00000423059"	"Transcript"	"intron_variant"	"-/10663"	"-/4974"	"-/1657"	""	""	""	"1"	NA	-1	"THSD7A"	"HGNC"	22207	"protein_coding"	"YES"	"CCDS47543.1"	"ENSP00000406482"	"Q9UPZ6"	""	"UPI00006C0B74"	"NM_015204.2"	""	""	""	"9/27"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"11c8dff2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163265306122449	"WGS"	FALSE
"9705"	"DGKB"	1607	"mskcc.org"	"GRCh37"	"7"	14276197	14276197	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs144823406"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2126-58421C>T"	""	""	"ENST00000403951"	""	106	"79"	27	57	"57"	0	"DGKB,intron_variant,,ENST00000403951,;DGKB,intron_variant,,ENST00000258767,;DGKB,intron_variant,,ENST00000399322,NM_004080.2;DGKB,intron_variant,,ENST00000402815,;DGKB,intron_variant,,ENST00000407950,;DGKB,intron_variant,,ENST00000444700,;DGKB,intron_variant,,ENST00000406247,NM_145695.2;DGKB,intron_variant,,ENST00000403963,;DGKB,intron_variant,,ENST00000493142,;"	"A"	"ENSG00000136267"	"ENST00000403951"	"Transcript"	"intron_variant"	"-/6917"	"-/2415"	"-/804"	""	""	"rs144823406"	"1"	NA	-1	"DGKB"	"HGNC"	2850	"protein_coding"	"YES"	"CCDS47547.1"	"ENSP00000385780"	"Q9Y6T7"	"C9JA18,B7Z3B3"	"UPI0000033B9B"	""	""	""	""	"23/25"	""	"A:0.0024"	"A:0.0091"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"11c940b4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254716981132075	"WGS"	FALSE
"9706"	"HDAC9"	9734	"mskcc.org"	"GRCh37"	"7"	18442706	18442706	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.26-55759G>T"	""	""	"ENST00000417496"	""	113	"88"	25	68	"68"	0	"HDAC9,intron_variant,,ENST00000417496,NM_001204144.1;HDAC9,intron_variant,,ENST00000433709,;HDAC9,intron_variant,,ENST00000413509,;HDAC9,intron_variant,,ENST00000474742,;HDAC9,intron_variant,,ENST00000461159,;"	"T"	"ENSG00000048052"	"ENST00000417496"	"Transcript"	"intron_variant"	"-/2524"	"-/1767"	"-/588"	""	""	""	"1"	NA	1	"HDAC9"	"HGNC"	14065	"protein_coding"	""	"CCDS56465.1"	"ENSP00000401669"	"Q9UKV0"	"Q75N08,C9JLX1,C9JD56"	"UPI00019154CE"	"NM_001204144.1"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"11c9cdfe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221238938053097	"WGS"	FALSE
"9707"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	24135289	24135289	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"82"	27	55	"54"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"11caab2a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247706422018349	"WGS"	FALSE
"9708"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	24521968	24521968	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"81"	23	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"11cab778-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221153846153846	"WGS"	FALSE
"9709"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	24551171	24551171	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"75"	27	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"11cab822-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264705882352941	"WGS"	FALSE
"9710"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	27076813	27076813	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"86"	9	40	"40"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"11cb21fe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0947368421052632	"WGS"	FALSE
"9711"	"DPY19L2P3"	442524	"mskcc.org"	"GRCh37"	"7"	29774184	29774184	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1878+990C>G"	""	""	"ENST00000414296"	""	89	"79"	10	66	"66"	0	"DPY19L2P3,intron_variant,,ENST00000414296,;"	"G"	"ENSG00000227855"	"ENST00000414296"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2326"	""	""	""	""	""	"1"	NA	1	"DPY19L2P3"	"HGNC"	22367	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"18/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"11cb9e4a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112359550561798	"WGS"	FALSE
"9712"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	32442035	32442035	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"58"	14	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"11cc0fce-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194444444444444	"WGS"	FALSE
"9713"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	34324895	34324895	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"84"	8	74	"74"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"11cc772a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"9714"	"TBX20"	57057	"mskcc.org"	"GRCh37"	"7"	35280825	35280825	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.655-176A>G"	""	""	"ENST00000408931"	""	114	"84"	30	46	"46"	0	"TBX20,intron_variant,,ENST00000408931,NM_001077653.2,NM_001166220.1;TBX20,intron_variant,,ENST00000492961,;"	"C"	"ENSG00000164532"	"ENST00000408931"	"Transcript"	"intron_variant"	"-/1871"	"-/1344"	"-/447"	""	""	""	"1"	NA	-1	"TBX20"	"HGNC"	11598	"protein_coding"	"YES"	"CCDS43568.1"	"ENSP00000386170"	"Q9UMR3"	"C1INI6,C1INI5,C1INI4,C1INI3,C1INI2,C1INI1"	"UPI00004B23D3"	"NM_001077653.2,NM_001166220.1"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"11ccb82a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"9715"	"AOAH"	313	"mskcc.org"	"GRCh37"	"7"	36658438	36658438	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.703-487T>A"	""	""	"ENST00000258749"	""	89	"83"	6	55	"55"	0	"AOAH,intron_variant,,ENST00000431169,NM_001177506.1;AOAH,intron_variant,,ENST00000258749,NM_001637.3;AOAH,intron_variant,,ENST00000535891,NM_001177507.1;AOAH,downstream_gene_variant,,ENST00000543742,;"	"T"	"ENSG00000136250"	"ENST00000258749"	"Transcript"	"intron_variant"	"-/2379"	"-/1728"	"-/575"	""	""	""	"1"	NA	-1	"AOAH"	"HGNC"	548	"protein_coding"	"YES"	"CCDS5448.1"	"ENSP00000258749"	"P28039"	""	"UPI0000001291"	"NM_001637.3"	""	""	""	"9/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"11ccf952-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"9716"	"TRGJP"	0	"mskcc.org"	"GRCh37"	"7"	38310433	38310433	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390338"	""	78	"66"	12	36	"36"	0	"TRGJP,downstream_gene_variant,,ENST00000390338,;TRGJ1,upstream_gene_variant,,ENST00000390337,;"	"A"	"ENSG00000211691"	"ENST00000390338"	"Transcript"	"downstream_gene_variant"	"-/61"	"-/61"	"-/20"	""	""	""	"1"	"2755"	-1	"TRGJP"	"HGNC"	12279	"TR_J_gene"	"YES"	""	"ENSP00000418089"	""	""	"UPI0000113D4F"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"11cd370a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"9717"	"SUGCT"	79783	"mskcc.org"	"GRCh37"	"7"	40285418	40285418	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.597+8093G>A"	""	""	"ENST00000309930"	""	69	"55"	14	42	"42"	0	"SUGCT,intron_variant,,ENST00000309930,NM_024728.2,NM_001193311.1;SUGCT,intron_variant,,ENST00000335693,NM_001193313.1;SUGCT,intron_variant,,ENST00000416370,;SUGCT,intron_variant,,ENST00000401647,NM_001193312.1;"	"A"	"ENSG00000175600"	"ENST00000309930"	"Transcript"	"intron_variant"	"-/1719"	"-/1416"	"-/471"	""	""	""	"1"	NA	1	"SUGCT"	"HGNC"	16001	"protein_coding"	"YES"	"CCDS55104.1"	"ENSP00000312054"	"Q9HAC7"	"Q9Y6U8,Q75MU8,Q75MS9,Q75MI5"	"UPI000013EF6B"	"NM_024728.2,NM_001193311.1"	""	""	""	"7/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"11cd9394-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202898550724638	"WGS"	FALSE
"9718"	"ENSR00001795289"	0	"mskcc.org"	"GRCh37"	"7"	45441587	45441587	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001795289"	""	101	"80"	21	55	"55"	0	""	"T"	""	"ENSR00001795289"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"11cea522-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207920792079208	"WGS"	FALSE
"9719"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	45984846	45984846	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"70"	22	58	"58"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"11cecb6a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239130434782609	"WGS"	FALSE
"9720"	"ABCA13"	154664	"mskcc.org"	"GRCh37"	"7"	48605034	48605034	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.14355-14786T>C"	""	""	"ENST00000435803"	""	87	"63"	24	55	"55"	0	"ABCA13,intron_variant,,ENST00000435803,NM_152701.3;ABCA13,intron_variant,,ENST00000411975,;ABCA13,intron_variant,,ENST00000544596,;ABCA13,intron_variant,,ENST00000453246,;"	"C"	"ENSG00000179869"	"ENST00000435803"	"Transcript"	"intron_variant"	"-/17184"	"-/15177"	"-/5058"	""	""	""	"1"	NA	1	"ABCA13"	"HGNC"	14638	"protein_coding"	"YES"	"CCDS47584.1"	"ENSP00000411096"	"Q86UQ4"	""	"UPI00001A95EA"	"NM_152701.3"	""	""	""	"55/61"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"11cf3672-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275862068965517	"WGS"	FALSE
"9721"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	49174101	49174101	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"81"	8	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"11cf5508-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"9722"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	49613912	49613912	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"91"	5	71	"71"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"11cf637c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0520833333333333	"WGS"	FALSE
"9723"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	51990734	51990734	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"63"	12	52	"52"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"11cfce48-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WGS"	FALSE
"9724"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	51990735	51990735	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"63"	13	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"11cfcee8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171052631578947	"WGS"	FALSE
"9725"	"GS1-18A18.2"	0	"mskcc.org"	"GRCh37"	"7"	54650404	54650404	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000439027"	""	86	"72"	14	60	"60"	0	"GS1-18A18.2,upstream_gene_variant,,ENST00000439027,;"	"A"	"ENSG00000228735"	"ENST00000439027"	"Transcript"	"upstream_gene_variant"	"-/757"	""	""	""	""	""	"1"	"3917"	-1	"GS1-18A18.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"11d02ece-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162790697674419	"WGS"	FALSE
"9726"	"LANCL2"	55915	"mskcc.org"	"GRCh37"	"7"	55466349	55466349	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.530+26T>G"	""	""	"ENST00000254770"	""	104	"76"	28	55	"55"	0	"LANCL2,intron_variant,,ENST00000254770,NM_018697.3;LANCL2,intron_variant,,ENST00000486376,;LANCL2,intron_variant,,ENST00000452107,;"	"G"	"ENSG00000132434"	"ENST00000254770"	"Transcript"	"intron_variant"	"-/4353"	"-/1353"	"-/450"	""	""	""	"1"	NA	1	"LANCL2"	"HGNC"	6509	"protein_coding"	"YES"	"CCDS5517.1"	"ENSP00000254770"	"Q9NS86"	"B4DWZ7"	"UPI000006F7D0"	"NM_018697.3"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"11d05b24-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269230769230769	"WGS"	FALSE
"9727"	"ZNF713"	349075	"mskcc.org"	"GRCh37"	"7"	55995185	55995185	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.268+3793C>T"	""	""	"ENST00000429591"	""	86	"80"	6	52	"52"	0	"ZNF713,intron_variant,,ENST00000429591,NM_182633.1;MRPS17,intron_variant,,ENST00000426595,;ZNF713,downstream_gene_variant,,ENST00000482436,;ZNF713,downstream_gene_variant,,ENST00000466630,;ZNF713,downstream_gene_variant,,ENST00000411863,;"	"T"	"ENSG00000178665"	"ENST00000429591"	"Transcript"	"intron_variant"	"-/3550"	"-/1293"	"-/430"	""	""	""	"1"	NA	1	"ZNF713"	"HGNC"	22043	"protein_coding"	"YES"	"CCDS34639.1"	"ENSP00000416662"	"Q8N859"	""	"UPI000007283F"	"NM_182633.1"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"11d0884c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"9728"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	56855311	56855311	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"61"	7	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"11d0eed6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102941176470588	"WGS"	FALSE
"9729"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	57379310	57379310	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"58"	17	35	"35"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"11d15448-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226666666666667	"WGS"	FALSE
"9730"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	61834861	61834861	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"65"	25	71	"71"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"11d2e074-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"9731"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	62567135	62567135	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"79"	30	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"11d3412c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275229357798165	"WGS"	FALSE
"9732"	"RP5-905H7.4"	0	"mskcc.org"	"GRCh37"	"7"	62725210	62725210	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000422502"	""	88	"67"	21	52	"52"	0	"RP5-905H7.4,downstream_gene_variant,,ENST00000422502,;"	"T"	"ENSG00000236638"	"ENST00000422502"	"Transcript"	"downstream_gene_variant"	"-/392"	""	""	""	""	""	"1"	"1376"	1	"RP5-905H7.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"11d3581a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238636363636364	"WGS"	FALSE
"9733"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	63937020	63937020	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"56"	6	47	"47"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"11d3e1ea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"9734"	"ZNF138"	7697	"mskcc.org"	"GRCh37"	"7"	64280285	64280285	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.130+4863A>T"	""	""	"ENST00000440155"	""	56	"52"	4	19	"19"	0	"ZNF138,intron_variant,,ENST00000359735,NM_001271637.1,NM_001271639.1;ZNF138,intron_variant,,ENST00000437743,NM_001271638.1,NM_001271649.1;ZNF138,intron_variant,,ENST00000397136,;ZNF138,intron_variant,,ENST00000440598,;ZNF138,intron_variant,,ENST00000307355,;ZNF138,intron_variant,,ENST00000440155,NM_006524.3;ZNF138,intron_variant,,ENST00000494380,NM_001160183.2;ZNF138,intron_variant,,ENST00000430838,;"	"T"	"ENSG00000197008"	"ENST00000440155"	"Transcript"	"intron_variant"	"-/1066"	"-/882"	"-/293"	""	""	""	"1"	NA	1	"ZNF138"	"HGNC"	12922	"protein_coding"	"YES"	"CCDS34645.2"	"ENSP00000407262"	"P52744"	"E7EWC5,A2RRP7"	"UPI000198CD4D"	"NM_006524.3"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"11d3f78e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"9735"	"AC092685.1"	0	"mskcc.org"	"GRCh37"	"7"	64724065	64724065	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000580332"	""	11	"7"	4	17	"17"	0	"AC092685.1,upstream_gene_variant,,ENST00000580332,;RP11-746P2.1,downstream_gene_variant,,ENST00000452114,;"	"A"	"ENSG00000265175"	"ENST00000580332"	"Transcript"	"upstream_gene_variant"	"-/96"	""	""	""	""	""	"1"	"4244"	1	"AC092685.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"11d42c90-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"9736"	"AC092685.1"	0	"mskcc.org"	"GRCh37"	"7"	64724173	64724173	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000580332"	""	19	"15"	4	20	"20"	0	"AC092685.1,upstream_gene_variant,,ENST00000580332,;RP11-746P2.1,downstream_gene_variant,,ENST00000452114,;"	"T"	"ENSG00000265175"	"ENST00000580332"	"Transcript"	"upstream_gene_variant"	"-/96"	""	""	""	""	""	"1"	"4136"	1	"AC092685.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"11d42d30-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"9737"	"KCTD7"	27342	"mskcc.org"	"GRCh37"	"7"	66225946	66225946	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs569254384"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17-10924G>A"	""	""	"ENST00000510829"	""	109	"84"	25	47	"47"	0	"KCTD7,intron_variant,,ENST00000380828,;KCTD7,intron_variant,,ENST00000510829,NM_014504.2;RABGEF1,intron_variant,,ENST00000284957,NM_001287062.1;RABGEF1,intron_variant,,ENST00000439720,;RABGEF1,intron_variant,,ENST00000450873,;RABGEF1,intron_variant,,ENST00000437078,NM_001287061.1;KCTD7,intron_variant,,ENST00000451741,;RABGEF1,intron_variant,,ENST00000442563,;KCTD7,intron_variant,,ENST00000503687,;RABGEF1,intron_variant,,ENST00000607882,;"	"A"	"ENSG00000243335"	"ENST00000510829"	"Transcript"	"intron_variant"	"-/3805"	"-/1476"	"-/491"	""	""	"rs569254384"	"1"	NA	1	"KCTD7"	"HGNC"	21957	"protein_coding"	"YES"	"CCDS5535.1"	"ENSP00000421124"	""	"C9JDA2,B3KMF1"	"UPI00000730D5"	"NM_014504.2"	""	""	""	"1/8"	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"11d4f6e8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229357798165138	"WGS"	FALSE
"9738"	"TMEM248"	55069	"mskcc.org"	"GRCh37"	"7"	66388199	66388199	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-19+1751G>C"	""	""	"ENST00000341567"	""	83	"76"	7	39	"39"	0	"TMEM248,intron_variant,,ENST00000341567,NM_017994.4;TMEM248,intron_variant,,ENST00000607045,;TMEM248,intron_variant,,ENST00000413593,;TMEM248,intron_variant,,ENST00000433271,;"	"C"	"ENSG00000106609"	"ENST00000341567"	"Transcript"	"intron_variant"	"-/4229"	"-/945"	"-/314"	""	""	""	"1"	NA	1	"TMEM248"	"HGNC"	25476	"protein_coding"	"YES"	"CCDS5536.1"	"ENSP00000340668"	"Q9NWD8"	"U3KQ21,F8WE75,C9JKP5,C9J3C8"	"UPI0000073CC6"	"NM_017994.4"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"11d505ac-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"9739"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	68480070	68480070	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"68"	22	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"11d5c3c0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244444444444444	"WGS"	FALSE
"9740"	"CALN1"	83698	"mskcc.org"	"GRCh37"	"7"	71743368	71743368	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.244+303T>A"	""	""	"ENST00000395275"	""	87	"73"	14	51	"51"	0	"CALN1,intron_variant,,ENST00000395275,NM_031468.3;CALN1,intron_variant,,ENST00000329008,NM_001017440.2;CALN1,intron_variant,,ENST00000395276,;CALN1,intron_variant,,ENST00000412588,;CALN1,intron_variant,,ENST00000431984,;CALN1,intron_variant,,ENST00000405452,;CALN1,intron_variant,,ENST00000446128,;"	"T"	"ENSG00000183166"	"ENST00000395275"	"Transcript"	"intron_variant"	"-/9459"	"-/786"	"-/261"	""	""	""	"1"	NA	-1	"CALN1"	"HGNC"	13248	"protein_coding"	"YES"	"CCDS47603.1"	"ENSP00000378690"	"Q9BXU9"	"Q86UM7,Q86UL5,Q75MW5,Q75MP5,Q75MI2,E9PFU3,A4D1Z1"	"UPI0000D4B903"	"NM_031468.3"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"11d669c4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.160919540229885	"WGS"	FALSE
"9741"	"NCF1B"	654816	"mskcc.org"	"GRCh37"	"7"	72645292	72645292	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.909-553G>A"	""	""	"ENST00000423083"	""	58	"52"	6	28	"28"	0	"NCF1B,intron_variant,,ENST00000423083,;NCF1B,downstream_gene_variant,,ENST00000432102,;NCF1B,intron_variant,,ENST00000338578,;NCF1B,intron_variant,,ENST00000435988,;NCF1B,intron_variant,,ENST00000541521,;NCF1B,downstream_gene_variant,,ENST00000543901,;"	"A"	"ENSG00000182487"	"ENST00000423083"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1516"	""	""	""	""	""	"1"	NA	1	"NCF1B"	"HGNC"	32522	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"11d6b596-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"9742"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	73172618	73172618	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	64	"56"	8	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"11d6f830-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"9743"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	74066713	74066713	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"83"	8	43	"43"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"11d77850-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0879120879120879	"WGS"	FALSE
"9744"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	74066743	74066743	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"80"	9	47	"47"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"11d778f0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101123595505618	"WGS"	FALSE
"9745"	"HIP1"	3092	"mskcc.org"	"GRCh37"	"7"	75333619	75333619	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.120+34500T>G"	""	""	"ENST00000336926"	""	99	"83"	16	61	"61"	0	"HIP1,intron_variant,,ENST00000336926,NM_005338.6;HIP1,intron_variant,,ENST00000434438,NM_001243198.2;HIP1,intron_variant,,ENST00000485723,;"	"C"	"ENSG00000127946"	"ENST00000336926"	"Transcript"	"intron_variant"	"-/8013"	"-/3114"	"-/1037"	""	""	""	"1"	NA	-1	"HIP1"	"HGNC"	4913	"protein_coding"	"YES"	"CCDS34669.1"	"ENSP00000336747"	"O00291"	"Q8TDA4,B4DYD7,B4DK46"	"UPI000013D65F"	"NM_005338.6"	""	""	""	"1/30"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"11d7dee4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161616161616162	"WGS"	TRUE
"9746"	"CCL24"	6369	"mskcc.org"	"GRCh37"	"7"	75455939	75455939	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000416943"	""	82	"73"	9	54	"54"	0	"CCL24,upstream_gene_variant,,ENST00000416943,NM_002991.2;"	"G"	"ENSG00000106178"	"ENST00000416943"	"Transcript"	"upstream_gene_variant"	"-/585"	"-/360"	"-/119"	""	""	""	"1"	"3265"	-1	"CCL24"	"HGNC"	10623	"protein_coding"	"YES"	"CCDS34670.1"	"ENSP00000400533"	"O00175"	""	"UPI0000050AFE"	"NM_002991.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"11d7f8fc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109756097560976	"WGS"	FALSE
"9747"	"UPK3B"	80761	"mskcc.org"	"GRCh37"	"7"	76275671	76275671	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*206-436T>A"	""	""	"ENST00000419923"	""	99	"77"	22	72	"72"	0	"UPK3B,intron_variant,,ENST00000419923,;UPK3B,intron_variant,,ENST00000443097,;AC004980.10,downstream_gene_variant,,ENST00000423648,;"	"A"	"ENSG00000243566"	"ENST00000419923"	"Transcript"	"intron_variant"	"-/1608"	"-/963"	"-/320"	""	""	""	"1"	NA	1	"UPK3B"	"HGNC"	21444	"protein_coding"	"YES"	"CCDS5588.1"	"ENSP00000441602"	"Q9BT76"	""	"UPI00001AE7A4"	""	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"11d885e2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"9748"	"MAGI2"	9863	"mskcc.org"	"GRCh37"	"7"	78888887	78888887	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.301+193449G>A"	""	""	"ENST00000354212"	""	82	"69"	13	52	"52"	0	"MAGI2,intron_variant,,ENST00000354212,NM_012301.3;MAGI2,intron_variant,,ENST00000419488,;MAGI2,intron_variant,,ENST00000522391,;"	"T"	"ENSG00000187391"	"ENST00000354212"	"Transcript"	"intron_variant"	"-/6861"	"-/4368"	"-/1455"	""	""	""	"1"	NA	-1	"MAGI2"	"HGNC"	18957	"protein_coding"	"YES"	"CCDS5594.1"	"ENSP00000346151"	"Q86UL8"	""	"UPI00001615D2"	"NM_012301.3"	""	""	""	"1/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"11d92308-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.158536585365854	"WGS"	FALSE
"9749"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	85671258	85671258	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"74"	18	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"11da1f06-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195652173913043	"WGS"	FALSE
"9750"	"ABCB1"	5243	"mskcc.org"	"GRCh37"	"7"	87236022	87236022	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-330-5628T>A"	""	""	"ENST00000265724"	""	110	"100"	10	58	"58"	0	"ABCB1,intron_variant,,ENST00000265724,NM_000927.4;ABCB1,intron_variant,,ENST00000416177,;ABCB1,intron_variant,,ENST00000476862,;"	"T"	"ENSG00000085563"	"ENST00000265724"	"Transcript"	"intron_variant"	"-/4645"	"-/3843"	"-/1280"	""	""	""	"1"	NA	-1	"ABCB1"	"HGNC"	40	"protein_coding"	"YES"	"CCDS5608.1"	"ENSP00000265724"	"P08183"	"Q6TBL4,E7EWT8,B5U2G4,A4D1D2"	"UPI000013D66C"	"NM_000927.4"	""	""	""	"1/28"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"11da4e9a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"9751"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	92691899	92691899	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"71"	19	68	"68"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"11db141a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211111111111111	"WGS"	FALSE
"9752"	"DYNC1I1"	1780	"mskcc.org"	"GRCh37"	"7"	95617325	95617325	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.894+858T>A"	""	""	"ENST00000324972"	""	93	"75"	18	52	"52"	0	"DYNC1I1,intron_variant,,ENST00000324972,NM_004411.4;DYNC1I1,intron_variant,,ENST00000447467,NM_001135556.1;DYNC1I1,intron_variant,,ENST00000437599,NM_001278421.1;DYNC1I1,intron_variant,,ENST00000359388,NM_001135557.1;DYNC1I1,intron_variant,,ENST00000457059,;DYNC1I1,intron_variant,,ENST00000537881,NM_001278422.1;DYNC1I1,intron_variant,,ENST00000519371,;"	"A"	"ENSG00000158560"	"ENST00000324972"	"Transcript"	"intron_variant"	"-/2950"	"-/1938"	"-/645"	""	""	""	"1"	NA	1	"DYNC1I1"	"HGNC"	2963	"protein_coding"	"YES"	"CCDS5644.1"	"ENSP00000320130"	"O14576"	"Q75MI9,Q75LS9,A4D1I7"	"UPI0000129A01"	"NM_004411.4"	""	""	""	"9/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"11db8454-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193548387096774	"WGS"	FALSE
"9753"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	96076691	96076691	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"57"	18	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"11db925a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WGS"	FALSE
"9754"	"AC005020.1"	0	"mskcc.org"	"GRCh37"	"7"	99184935	99184935	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000584735"	""	94	"87"	7	72	"72"	0	"AC005020.1,downstream_gene_variant,,ENST00000584735,;GS1-259H13.10,intron_variant,,ENST00000486324,;GS1-259H13.10,intron_variant,,ENST00000455905,;"	"T"	"ENSG00000265324"	"ENST00000584735"	"Transcript"	"downstream_gene_variant"	"-/85"	""	""	""	""	""	"1"	"313"	1	"AC005020.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"11dc88e0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"9755"	"AZGP1"	563	"mskcc.org"	"GRCh37"	"7"	99560388	99560388	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000292401"	""	82	"73"	9	61	"61"	0	"AZGP1,downstream_gene_variant,,ENST00000411734,;AZGP1,downstream_gene_variant,,ENST00000292401,NM_001185.3;AZGP1,downstream_gene_variant,,ENST00000419575,;AZGP1,downstream_gene_variant,,ENST00000483612,;AZGP1,downstream_gene_variant,,ENST00000477251,;"	"A"	"ENSG00000160862"	"ENST00000292401"	"Transcript"	"downstream_gene_variant"	"-/1307"	"-/897"	"-/298"	""	""	""	"1"	"3965"	-1	"AZGP1"	"HGNC"	910	"protein_coding"	"YES"	"CCDS5680.1"	"ENSP00000292401"	"P25311"	""	"UPI00000720DE"	"NM_001185.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"11dc961e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109756097560976	"WGS"	FALSE
"9756"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	101415169	101415169	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"72"	5	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"11ddb5ee-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0649350649350649	"WGS"	FALSE
"9757"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	106487228	106487228	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"77"	21	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"11e056f0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"9758"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	108738435	108738435	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"rs74212509"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	8	"5"	3	7	"7"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs74212509"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"11e0c75c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WGS"	FALSE
"9759"	"CAPZA2"	830	"mskcc.org"	"GRCh37"	"7"	116547265	116547265	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.506+869A>G"	""	""	"ENST00000361183"	""	106	"85"	21	65	"65"	0	"CAPZA2,intron_variant,,ENST00000361183,NM_006136.2;CAPZA2,intron_variant,,ENST00000458284,;CAPZA2,downstream_gene_variant,,ENST00000490693,;Y_RNA,downstream_gene_variant,,ENST00000516306,;CAPZA2,intron_variant,,ENST00000417431,;CAPZA2,downstream_gene_variant,,ENST00000414148,;CAPZA2,intron_variant,,ENST00000426421,;CAPZA2,intron_variant,,ENST00000449080,;CAPZA2,downstream_gene_variant,,ENST00000464669,;CAPZA2,upstream_gene_variant,,ENST00000465607,;"	"G"	"ENSG00000198898"	"ENST00000361183"	"Transcript"	"intron_variant"	"-/5182"	"-/861"	"-/286"	""	""	""	"1"	NA	1	"CAPZA2"	"HGNC"	1490	"protein_coding"	"YES"	"CCDS5768.1"	"ENSP00000354947"	"P47755"	"A4D0V4"	"UPI00001270FC"	"NM_006136.2"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"11e1a208-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19811320754717	"WGS"	FALSE
"9760"	"ANKRD7"	56311	"mskcc.org"	"GRCh37"	"7"	117886813	117886813	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000265224"	""	94	"87"	7	54	"54"	0	"ANKRD7,downstream_gene_variant,,ENST00000357099,;ANKRD7,downstream_gene_variant,,ENST00000265224,NM_019644.3;ANKRD7,downstream_gene_variant,,ENST00000417525,;ANKRD7,downstream_gene_variant,,ENST00000433239,;ANKRD7,downstream_gene_variant,,ENST00000490445,;"	"C"	"ENSG00000106013"	"ENST00000265224"	"Transcript"	"downstream_gene_variant"	"-/1298"	"-/765"	"-/254"	""	""	""	"1"	"4070"	1	"ANKRD7"	"HGNC"	18588	"protein_coding"	"YES"	"CCDS43638.1"	"ENSP00000265224"	"Q92527"	"Q9UPM1"	"UPI0000E826A8"	"NM_019644.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"11e1c83c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"9761"	"ING3"	54556	"mskcc.org"	"GRCh37"	"7"	120591447	120591447	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.100+158C>T"	""	""	"ENST00000315870"	""	89	"75"	14	55	"55"	0	"ING3,intron_variant,,ENST00000315870,NM_019071.2;ING3,intron_variant,,ENST00000445699,;ING3,intron_variant,,ENST00000431467,;ING3,intron_variant,,ENST00000339121,NM_198267.1;ING3,intron_variant,,ENST00000427726,;"	"T"	"ENSG00000071243"	"ENST00000315870"	"Transcript"	"intron_variant"	"-/3777"	"-/1257"	"-/418"	""	""	""	"1"	NA	1	"ING3"	"HGNC"	14587	"protein_coding"	"YES"	"CCDS5778.1"	"ENSP00000320566"	"Q9NXR8"	"E7ET07"	"UPI00000373B3"	"NM_019071.2"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"11e1f938-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157303370786517	"WGS"	FALSE
"9762"	"RP11-212P7.2"	0	"mskcc.org"	"GRCh37"	"7"	128162653	128162653	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000608477"	""	98	"91"	7	41	"41"	0	"RP11-212P7.2,downstream_gene_variant,,ENST00000608477,;"	"A"	"ENSG00000273270"	"ENST00000608477"	"Transcript"	"downstream_gene_variant"	"-/7054"	""	""	""	""	""	"1"	"1417"	-1	"RP11-212P7.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"11e2ea5a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"9763"	"CHCHD3"	54927	"mskcc.org"	"GRCh37"	"7"	132518784	132518784	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.524+4375A>G"	""	""	"ENST00000262570"	""	100	"85"	15	56	"56"	0	"CHCHD3,intron_variant,,ENST00000262570,NM_017812.2;CHCHD3,intron_variant,,ENST00000448878,;AC009518.8,intron_variant,,ENST00000453078,;CHCHD3,intron_variant,,ENST00000476546,;CHCHD3,intron_variant,,ENST00000496427,;CHCHD3,intron_variant,,ENST00000423635,;CHCHD3,downstream_gene_variant,,ENST00000466644,;"	"C"	"ENSG00000106554"	"ENST00000262570"	"Transcript"	"intron_variant"	"-/1598"	"-/684"	"-/227"	""	""	""	"1"	NA	-1	"CHCHD3"	"HGNC"	21906	"protein_coding"	"YES"	"CCDS5828.1"	"ENSP00000262570"	"Q9NX63"	"A4D1N4"	"UPI0000044721"	"NM_017812.2"	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"11e50eca-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WGS"	FALSE
"9764"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	132803959	132803959	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"84"	27	42	"42"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"11e51c8a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.243243243243243	"WGS"	FALSE
"9765"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	135532501	135532501	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"78"	7	39	"39"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"11e5cb12-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0823529411764706	"WGS"	FALSE
"9766"	"UBN2"	254048	"mskcc.org"	"GRCh37"	"7"	138947099	138947099	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1395+612A>G"	""	""	"ENST00000473989"	""	72	"62"	10	37	"37"	0	"UBN2,intron_variant,,ENST00000473989,NM_173569.3;UBN2,intron_variant,,ENST00000288561,;UBN2,intron_variant,,ENST00000483726,;UBN2,downstream_gene_variant,,ENST00000486663,;"	"G"	"ENSG00000157741"	"ENST00000473989"	"Transcript"	"intron_variant"	"-/14444"	"-/4044"	"-/1347"	""	""	""	"1"	NA	1	"UBN2"	"HGNC"	21931	"protein_coding"	"YES"	"CCDS43655.2"	"ENSP00000418648"	"Q6ZU65"	"C9J6Y5"	"UPI00001D74DF"	"NM_173569.3"	""	""	""	"6/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"11e73a10-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138888888888889	"WGS"	FALSE
"9767"	"SLC37A3"	84255	"mskcc.org"	"GRCh37"	"7"	140013269	140013269	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*633-15946A>G"	""	""	"ENST00000477571"	""	93	"74"	19	51	"51"	0	"SLC37A3,intron_variant,,ENST00000477571,;"	"C"	"ENSG00000157800"	"ENST00000477571"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/3488"	"-/675"	"-/224"	""	""	""	"1"	NA	-1	"SLC37A3"	"HGNC"	20651	"nonsense_mediated_decay"	""	""	"ENSP00000417365"	""	"F8WF28,F8WAR9"	"UPI0001B79257"	""	""	""	""	"13/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"11e786c8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204301075268817	"WGS"	FALSE
"9768"	"TMEM178B"	100507421	"mskcc.org"	"GRCh37"	"7"	140804892	140804892	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs185708399"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.382+30400C>T"	""	""	"ENST00000565468"	""	95	"75"	20	63	"63"	0	"TMEM178B,intron_variant,,ENST00000565468,NM_001195278.1;TMEM178B,intron_variant,,ENST00000563442,;"	"T"	"ENSG00000261115"	"ENST00000565468"	"Transcript"	"intron_variant"	"-/10558"	"-/885"	"-/294"	""	""	"rs185708399"	"1"	NA	1	"TMEM178B"	"HGNC"	44112	"protein_coding"	"YES"	"CCDS59086.1"	"ENSP00000456594"	"H3BS89"	""	"UPI0000E217DE"	"NM_001195278.1"	""	""	""	"1/3"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"11e7ebb8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"9769"	"TMEM178B"	100507421	"mskcc.org"	"GRCh37"	"7"	141036047	141036047	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.497-101361C>T"	""	""	"ENST00000565468"	""	81	"70"	11	61	"61"	0	"TMEM178B,intron_variant,,ENST00000565468,NM_001195278.1;"	"T"	"ENSG00000261115"	"ENST00000565468"	"Transcript"	"intron_variant"	"-/10558"	"-/885"	"-/294"	""	""	""	"1"	NA	1	"TMEM178B"	"HGNC"	44112	"protein_coding"	"YES"	"CCDS59086.1"	"ENSP00000456594"	"H3BS89"	""	"UPI0000E217DE"	"NM_001195278.1"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"11e7f270-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135802469135802	"WGS"	FALSE
"9770"	"EPHB6"	2051	"mskcc.org"	"GRCh37"	"7"	142553060	142553060	"+"	"5'UTR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-519G>A"	""	""	"ENST00000392957"	"1/20"	89	"73"	16	64	"64"	0	"EPHB6,5_prime_UTR_variant,,ENST00000392957,NM_004445.4,NM_001280794.1;EPHB6,5_prime_UTR_variant,,ENST00000442129,;EPHB6,non_coding_transcript_exon_variant,,ENST00000497095,;EPHB6,5_prime_UTR_variant,,ENST00000425995,;EPHB6,non_coding_transcript_exon_variant,,ENST00000466783,;"	"A"	"ENSG00000106123"	"ENST00000392957"	"Transcript"	"5_prime_UTR_variant"	"269/4043"	"-/3066"	"-/1021"	""	""	""	"1"	NA	1	"EPHB6"	"HGNC"	3396	"protein_coding"	"YES"	"CCDS5873.2"	"ENSP00000376684"	"O15197"	""	"UPI00006635A8"	"NM_004445.4,NM_001280794.1"	""	""	"1/20"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"11e83a3c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179775280898876	"WGS"	FALSE
"9771"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	145095259	145095259	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"62"	22	59	"58"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"11e89c2a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261904761904762	"WGS"	FALSE
"9772"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	145742784	145742784	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"47"	7	30	"30"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"11e8addc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12962962962963	"WGS"	FALSE
"9773"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	145742787	145742787	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"49"	7	29	"29"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"11e8ae86-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"9774"	"CNTNAP2"	26047	"mskcc.org"	"GRCh37"	"7"	146745439	146745439	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.550+4293G>A"	""	""	"ENST00000361727"	""	76	"60"	16	51	"51"	0	"CNTNAP2,intron_variant,,ENST00000361727,NM_014141.5;"	"A"	"ENSG00000174469"	"ENST00000361727"	"Transcript"	"intron_variant"	"-/9894"	"-/3996"	"-/1331"	""	""	""	"1"	NA	1	"CNTNAP2"	"HGNC"	13830	"protein_coding"	"YES"	"CCDS5889.1"	"ENSP00000354778"	"Q9UHC6"	"Q9UDV4,Q96T77,Q86UL9,Q86UL6,Q86UL4,Q86UJ1,Q86UI8,Q75MQ9,Q75MF8,Q75MF6,Q75MD4,Q75MA1,Q75M92,Q75LG9,O75852,B7Z1Y6"	"UPI00001285FA"	"NM_014141.5"	""	""	""	"4/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"11e8caf6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"9775"	"CNTNAP2"	26047	"mskcc.org"	"GRCh37"	"7"	147250763	147250763	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1778-8467A>T"	""	""	"ENST00000361727"	""	109	"88"	21	58	"58"	0	"CNTNAP2,intron_variant,,ENST00000361727,NM_014141.5;"	"T"	"ENSG00000174469"	"ENST00000361727"	"Transcript"	"intron_variant"	"-/9894"	"-/3996"	"-/1331"	""	""	""	"1"	NA	1	"CNTNAP2"	"HGNC"	13830	"protein_coding"	"YES"	"CCDS5889.1"	"ENSP00000354778"	"Q9UHC6"	"Q9UDV4,Q96T77,Q86UL9,Q86UL6,Q86UL4,Q86UJ1,Q86UI8,Q75MQ9,Q75MF8,Q75MF6,Q75MD4,Q75MA1,Q75M92,Q75LG9,O75852,B7Z1Y6"	"UPI00001285FA"	"NM_014141.5"	""	""	""	"11/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAG"	"11e8da50-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192660550458716	"WGS"	FALSE
"9776"	"GALNT11"	63917	"mskcc.org"	"GRCh37"	"7"	151779611	151779611	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-39+3118G>C"	""	""	"ENST00000434507"	""	101	"94"	7	43	"43"	0	"GALNT11,intron_variant,,ENST00000434507,;GALNT11,intron_variant,,ENST00000430044,NM_022087.2;GALNT11,intron_variant,,ENST00000415421,;GALNT11,intron_variant,,ENST00000320311,;GALNT11,intron_variant,,ENST00000452146,;GALNT11,intron_variant,,ENST00000431668,;GALNT11,intron_variant,,ENST00000423337,;GALNT11,intron_variant,,ENST00000446096,;GALNT11,intron_variant,,ENST00000482812,;GALNT11,intron_variant,,ENST00000447778,;"	"C"	"ENSG00000178234"	"ENST00000434507"	"Transcript"	"intron_variant"	"-/2747"	"-/1827"	"-/608"	""	""	""	"1"	NA	1	"GALNT11"	"HGNC"	19875	"protein_coding"	"YES"	"CCDS5930.1"	"ENSP00000416787"	"Q8NCW6"	"C9JMT8,C9J8A7,C9J111"	"UPI000004C2AA"	""	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"11ea2dba-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0693069306930693	"WGS"	FALSE
"9777"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	152930470	152930470	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"87"	14	61	"61"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"11eaf6fa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138613861386139	"WGS"	FALSE
"9778"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	153232139	153232139	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"77"	22	62	"62"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"11eaffce-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"9779"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	156036923	156036923	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"55"	23	49	"49"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"11ec40f0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294871794871795	"WGS"	FALSE
"9780"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	158083684	158083684	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.277+25827T>G"	""	""	"ENST00000389418"	""	94	"77"	17	46	"46"	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"C"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	""	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	""	""	""	"3/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"11ee1c72-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180851063829787	"WGS"	FALSE
"9781"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	158307409	158307409	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs150470447"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.113-24932C>T"	""	""	"ENST00000389418"	""	90	"66"	24	62	"62"	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"A"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	"rs150470447"	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	""	""	""	"1/22"	""	"A:0.0004"	"A:0"	"A:0"	NA	"A:0.001"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"11eed716-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"9782"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	158985880	158985880	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"70"	28	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"11ef7f2c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"9783"	"AC133633.2"	0	"mskcc.org"	"GRCh37"	"8"	2352749	2352749	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs568824217"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.297-1542C>T"	""	""	"ENST00000522799"	""	102	"86"	16	61	"61"	0	"AC133633.2,intron_variant,,ENST00000522799,;"	"A"	"ENSG00000253444"	"ENST00000522799"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/512"	""	""	""	""	"rs568824217"	"1"	NA	-1	"AC133633.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"11f27380-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.156862745098039	"WGS"	FALSE
"9784"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	3479383	3479383	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1010-5064C>T"	""	""	"ENST00000537824"	""	80	"58"	22	59	"59"	0	"CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;"	"A"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	""	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	""	""	""	"7/69"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"11f2bbe2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275	"WGS"	FALSE
"9785"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	4182742	4182742	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.415+94733C>A"	""	""	"ENST00000537824"	""	107	"79"	28	49	"49"	0	"CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;"	"T"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	""	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	""	""	""	"3/69"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"11f2e1bc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261682242990654	"WGS"	FALSE
"9786"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	4548099	4548099	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.86-53019T>G"	""	""	"ENST00000537824"	""	100	"77"	23	57	"56"	1	"CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;"	"C"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	""	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	""	""	""	"1/69"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"11f2f062-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23	"WGS"	FALSE
"9787"	"RPL23AP54"	0	"mskcc.org"	"GRCh37"	"8"	5336818	5336818	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000495129"	""	103	"83"	20	51	"51"	0	"RPL23AP54,downstream_gene_variant,,ENST00000495129,;"	"T"	"ENSG00000240486"	"ENST00000495129"	"Transcript"	"downstream_gene_variant"	"-/419"	""	""	""	""	""	"1"	"2330"	1	"RPL23AP54"	"HGNC"	36689	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"11f31998-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194174757281553	"WGS"	FALSE
"9788"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	5434202	5434202	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"83"	34	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"11f31e16-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290598290598291	"WGS"	FALSE
"9789"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	5624015	5624015	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"73"	22	50	"49"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"11f33504-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231578947368421	"WGS"	FALSE
"9790"	"DEFA7P"	0	"mskcc.org"	"GRCh37"	"8"	6899527	6899527	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000382676"	""	98	"69"	29	66	"66"	0	"DEFA7P,upstream_gene_variant,,ENST00000382676,;"	"T"	"ENSG00000206042"	"ENST00000382676"	"Transcript"	"upstream_gene_variant"	"-/285"	""	""	""	""	""	"1"	"2566"	-1	"DEFA7P"	"HGNC"	31798	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"11f3945e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295918367346939	"WGS"	FALSE
"9791"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	11818296	11818296	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"85"	13	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"11f550b4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13265306122449	"WGS"	FALSE
"9792"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	12503912	12503912	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"77"	21	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"11f5f9f6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"9793"	"SGCZ"	137868	"mskcc.org"	"GRCh37"	"8"	14093171	14093171	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.424+1930G>A"	""	""	"ENST00000382080"	""	90	"73"	17	63	"63"	0	"SGCZ,intron_variant,,ENST00000382080,NM_139167.2;SGCZ,intron_variant,,ENST00000421524,;"	"T"	"ENSG00000185053"	"ENST00000382080"	"Transcript"	"intron_variant"	"-/2234"	"-/939"	"-/312"	""	""	""	"1"	NA	-1	"SGCZ"	"HGNC"	14075	"protein_coding"	"YES"	"CCDS5992.2"	"ENSP00000371512"	"Q96LD1"	""	"UPI00002339F6"	"NM_139167.2"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"11f65e96-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188888888888889	"WGS"	FALSE
"9794"	"MSR1"	4481	"mskcc.org"	"GRCh37"	"8"	16018206	16018206	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.817+3368C>T"	""	""	"ENST00000262101"	""	108	"90"	18	64	"64"	0	"MSR1,intron_variant,,ENST00000350896,NM_138716.2,NM_138715.2;MSR1,intron_variant,,ENST00000381998,NM_002445.3;MSR1,intron_variant,,ENST00000262101,;MSR1,intron_variant,,ENST00000445506,;MSR1,intron_variant,,ENST00000355282,;MSR1,intron_variant,,ENST00000536385,;MSR1,intron_variant,,ENST00000522672,;MSR1,intron_variant,,ENST00000519060,;"	"A"	"ENSG00000038945"	"ENST00000262101"	"Transcript"	"intron_variant"	"-/2132"	"-/1356"	"-/451"	""	""	""	"1"	NA	-1	"MSR1"	"HGNC"	7376	"protein_coding"	"YES"	"CCDS5995.1"	"ENSP00000262101"	"P21757"	"E5RFW8"	"UPI000012F686"	""	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"11f6aa7c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"9795"	"RP11-13N12.1"	0	"mskcc.org"	"GRCh37"	"8"	16590198	16590198	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.373+50499G>C"	""	""	"ENST00000521411"	""	101	"81"	20	44	"44"	0	"RP11-13N12.1,intron_variant,,ENST00000521411,;"	"G"	"ENSG00000253496"	"ENST00000521411"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/543"	""	""	""	""	""	"1"	NA	-1	"RP11-13N12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"11f6c520-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.198019801980198	"WGS"	FALSE
"9796"	"MTUS1"	57509	"mskcc.org"	"GRCh37"	"8"	17641871	17641871	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-155+16236G>T"	""	""	"ENST00000262102"	""	76	"60"	16	53	"53"	0	"MTUS1,intron_variant,,ENST00000381869,NM_001001925.2;MTUS1,intron_variant,,ENST00000262102,NM_001001924.2;MTUS1,intron_variant,,ENST00000381862,;MTUS1,upstream_gene_variant,,ENST00000518755,;MTUS1,intron_variant,,ENST00000523718,;"	"A"	"ENSG00000129422"	"ENST00000262102"	"Transcript"	"intron_variant"	"-/6160"	"-/3813"	"-/1270"	""	""	""	"1"	NA	-1	"MTUS1"	"HGNC"	29789	"protein_coding"	"YES"	"CCDS43717.1"	"ENSP00000262102"	"Q9ULD2"	""	"UPI000003FF3C"	"NM_001001924.2"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"11f6e780-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"9797"	"AC100802.3"	0	"mskcc.org"	"GRCh37"	"8"	19935286	19935286	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000519197"	""	120	"93"	27	73	"73"	0	"AC100802.3,upstream_gene_variant,,ENST00000519197,;"	"A"	"ENSG00000253775"	"ENST00000519197"	"Transcript"	"upstream_gene_variant"	"-/1026"	""	""	""	""	""	"1"	"1530"	1	"AC100802.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"11f74c7a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225	"WGS"	FALSE
"9798"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	20465052	20465052	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"76"	17	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"11f75c4c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182795698924731	"WGS"	FALSE
"9799"	"SLC39A14"	23516	"mskcc.org"	"GRCh37"	"8"	22261691	22261691	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-15-518C>G"	""	""	"ENST00000359741"	""	124	"115"	9	49	"49"	0	"SLC39A14,intron_variant,,ENST00000359741,NM_015359.4;SLC39A14,intron_variant,,ENST00000381237,NM_001128431.2;SLC39A14,intron_variant,,ENST00000289952,NM_001135153.1;SLC39A14,intron_variant,,ENST00000240095,NM_001135154.1;SLC39A14,intron_variant,,ENST00000520832,;SLC39A14,intron_variant,,ENST00000524285,;SLC39A14,intron_variant,,ENST00000522881,;SLC39A14,intron_variant,,ENST00000519960,;SLC39A14,intron_variant,,ENST00000520644,;SLC39A14,upstream_gene_variant,,ENST00000517552,;"	"G"	"ENSG00000104635"	"ENST00000359741"	"Transcript"	"intron_variant"	"-/4641"	"-/1479"	"-/492"	""	""	""	"1"	NA	1	"SLC39A14"	"HGNC"	20858	"protein_coding"	"YES"	"CCDS6030.1"	"ENSP00000352779"	"Q15043"	"E5RJ40,E5RJG5,E5RIP4,E5RGA7,E5RFZ8,E5RFF5"	"UPI0000457680"	"NM_015359.4"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"11f7c510-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0725806451612903	"WGS"	FALSE
"9800"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	23028123	23028123	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"60"	21	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"11f7f684-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259259259259259	"WGS"	FALSE
"9801"	"RP11-624C23.1"	0	"mskcc.org"	"GRCh37"	"8"	24502842	24502842	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.184+238673G>T"	""	""	"ENST00000519689"	""	101	"88"	13	64	"64"	0	"RP11-624C23.1,intron_variant,,ENST00000519689,;"	"A"	"ENSG00000253535"	"ENST00000519689"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/651"	""	""	""	""	""	"1"	NA	-1	"RP11-624C23.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"11f833ec-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128712871287129	"WGS"	FALSE
"9802"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	24917845	24917845	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"64"	22	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"11f83f7c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255813953488372	"WGS"	FALSE
"9803"	"PNMA2"	10687	"mskcc.org"	"GRCh37"	"8"	26372036	26372036	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000522362"	""	106	"81"	25	74	"74"	0	"DPYSL2,5_prime_UTR_variant,,ENST00000521913,NM_001197293.2;PNMA2,upstream_gene_variant,,ENST00000522362,NM_007257.5;PNMA2,upstream_gene_variant,,ENST00000522764,;PNMA2,upstream_gene_variant,,ENST00000523244,;PNMA2,upstream_gene_variant,,ENST00000518212,;PNMA2,upstream_gene_variant,,ENST00000521875,;PNMA2,upstream_gene_variant,,ENST00000522450,;PNMA2,upstream_gene_variant,,ENST00000521740,;PNMA2,upstream_gene_variant,,ENST00000523616,;"	"T"	"ENSG00000240694"	"ENST00000522362"	"Transcript"	"upstream_gene_variant"	"-/4965"	"-/1095"	"-/364"	""	""	""	"1"	"428"	-1	"PNMA2"	"HGNC"	9159	"protein_coding"	"YES"	"CCDS34868.1"	"ENSP00000429344"	"Q9UL42"	""	"UPI0000073D3F"	"NM_007257.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"11f88e32-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235849056603774	"WGS"	FALSE
"9804"	"RP11-1G11.2"	0	"mskcc.org"	"GRCh37"	"8"	26408888	26408888	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000524123"	""	102	"78"	24	50	"50"	0	"DPYSL2,intron_variant,,ENST00000521913,NM_001197293.2;RP11-1G11.2,downstream_gene_variant,,ENST00000524123,;"	"T"	"ENSG00000253208"	"ENST00000524123"	"Transcript"	"downstream_gene_variant"	"-/795"	""	""	""	""	""	"1"	"2909"	1	"RP11-1G11.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"11f89012-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"9805"	"UBXN8"	0	"mskcc.org"	"GRCh37"	"8"	30602249	30602249	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.287+272C>T"	""	""	"ENST00000519246"	""	93	"76"	17	62	"62"	0	"UBXN8,intron_variant,,ENST00000519246,;UBXN8,intron_variant,,ENST00000517341,;UBXN8,intron_variant,,ENST00000265616,;UBXN8,intron_variant,,ENST00000380154,;UBXN8,intron_variant,,ENST00000341403,;UBXN8,intron_variant,,ENST00000523607,;UBXN8,intron_variant,,ENST00000522735,;UBXN8,intron_variant,,ENST00000522968,;UBXN8,intron_variant,,ENST00000518239,;"	"T"	"ENSG00000104691"	"ENST00000519246"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1623"	""	""	""	""	""	"1"	NA	1	"UBXN8"	"HGNC"	30307	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"11f97c5c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182795698924731	"WGS"	FALSE
"9806"	"PPP2CB"	5516	"mskcc.org"	"GRCh37"	"8"	30630645	30630645	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000523023"	""	51	"46"	5	27	"27"	0	"PPP2CB,downstream_gene_variant,,ENST00000523023,;"	"T"	"ENSG00000104695"	"ENST00000523023"	"Transcript"	"downstream_gene_variant"	"-/448"	"-/159"	"-/52"	""	""	""	"1"	"1328"	-1	"PPP2CB"	"HGNC"	9300	"nonsense_mediated_decay"	""	""	"ENSP00000429927"	""	""	"UPI0001E8F0D2"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"11f97ee6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0980392156862745	"WGS"	FALSE
"9807"	"NRG1"	3084	"mskcc.org"	"GRCh37"	"8"	31839002	31839002	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.304+340757G>A"	""	""	"ENST00000523534"	""	101	"85"	16	59	"59"	0	"NRG1,intron_variant,,ENST00000523534,;NRG1,intron_variant,,ENST00000520407,NM_013962.2;NRG1,intron_variant,,ENST00000519301,NM_001160001.1;NRG1,intron_variant,,ENST00000518104,NM_001159995.1;"	"A"	"ENSG00000157168"	"ENST00000523534"	"Transcript"	"intron_variant"	"-/2516"	"-/2142"	"-/713"	""	""	""	"1"	NA	1	"NRG1"	"HGNC"	7997	"protein_coding"	""	""	"ENSP00000429067"	""	"H0YBA3"	"UPI0001E8F0FD"	""	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"11f9b244-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.158415841584158	"WGS"	TRUE
"9808"	"ENSR00001807725"	0	"mskcc.org"	"GRCh37"	"8"	33994707	33994707	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs572786096"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001807725"	""	80	"69"	11	47	"47"	0	""	"A"	""	"ENSR00001807725"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs572786096"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0042"	"A:0.0151"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"11fa0a46-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1375	"WGS"	FALSE
"9809"	"UNC5D"	137970	"mskcc.org"	"GRCh37"	"8"	35222688	35222688	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103+129283C>A"	""	""	"ENST00000404895"	""	66	"52"	14	51	"51"	0	"UNC5D,intron_variant,,ENST00000287272,;UNC5D,intron_variant,,ENST00000416672,;UNC5D,intron_variant,,ENST00000404895,NM_080872.2;UNC5D,intron_variant,,ENST00000420357,;"	"A"	"ENSG00000156687"	"ENST00000404895"	"Transcript"	"intron_variant"	"-/3252"	"-/2862"	"-/953"	""	""	""	"1"	NA	1	"UNC5D"	"HGNC"	18634	"protein_coding"	"YES"	"CCDS6093.2"	"ENSP00000385143"	"Q6UXZ4"	""	"UPI00001D6915"	"NM_080872.2"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"11fa2d50-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212121212121212	"WGS"	FALSE
"9810"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	36835878	36835878	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"85"	14	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"11fa61ee-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141414141414141	"WGS"	FALSE
"9811"	"ADAM32"	203102	"mskcc.org"	"GRCh37"	"8"	39018587	39018587	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.594+103C>T"	""	""	"ENST00000379907"	""	103	"82"	21	51	"51"	0	"ADAM32,intron_variant,,ENST00000379907,NM_145004.5;ADAM32,intron_variant,,ENST00000437682,;ADAM32,intron_variant,,ENST00000519315,;ADAM32,intron_variant,,ENST00000522506,;ADAM32,downstream_gene_variant,,ENST00000399831,;ADAM32,intron_variant,,ENST00000518259,;RPL3P10,upstream_gene_variant,,ENST00000476002,;"	"T"	"ENSG00000197140"	"ENST00000379907"	"Transcript"	"intron_variant"	"-/2601"	"-/2364"	"-/787"	""	""	""	"1"	NA	1	"ADAM32"	"HGNC"	15479	"protein_coding"	"YES"	"CCDS47846.1"	"ENSP00000369238"	"Q8TC27"	"E5RJY7"	"UPI000013F62F"	"NM_145004.5"	""	""	""	"7/24"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"11faf500-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203883495145631	"WGS"	FALSE
"9812"	"ADAM5"	255926	"mskcc.org"	"GRCh37"	"8"	39268399	39268399	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"rs550160348"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1834-6334G>C"	""	""	"ENST00000505455"	""	92	"86"	6	52	"52"	0	"ADAM5,intron_variant,,ENST00000505455,;ADAM5,intron_variant,,ENST00000359790,;ADAM5,intron_variant,,ENST00000512764,;ADAM5,intron_variant,,ENST00000433441,;ADAM5,intron_variant,,ENST00000417441,;ADAM5,intron_variant,,ENST00000498728,;ADAM5,intron_variant,,ENST00000399789,;"	"C"	"ENSG00000196115"	"ENST00000505455"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1998"	""	""	""	""	"rs550160348"	"1"	NA	1	"ADAM5"	"HGNC"	212	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"15/15"	""	"C:0.0325"	"C:0.1142"	"C:0.0115"	NA	"C:0"	"C:0.004"	"C:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"11faf8fc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"9813"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	43290015	43290015	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"88"	17	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"11fc08e6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161904761904762	"WGS"	FALSE
"9814"	"ENSR00001808713"	0	"mskcc.org"	"GRCh37"	"8"	49812158	49812158	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001808713"	""	84	"76"	8	60	"60"	0	""	"T"	""	"ENSR00001808713"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"11fe5704-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"9815"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	49877263	49877263	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"80"	11	49	"49"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"11fe584e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120879120879121	"WGS"	FALSE
"9816"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	51821344	51821344	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"75"	27	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"11fe9110-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264705882352941	"WGS"	FALSE
"9817"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	52071636	52071636	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"72"	6	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"11fe99d0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"9818"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	55188311	55188311	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"82"	6	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"11ff1004-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"9819"	"RP11-56A10.1"	0	"mskcc.org"	"GRCh37"	"8"	55659157	55659157	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.657+7568A>G"	""	""	"ENST00000521465"	""	91	"74"	17	50	"50"	0	"RP11-56A10.1,intron_variant,,ENST00000521465,;"	"G"	"ENSG00000254608"	"ENST00000521465"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1014"	""	""	""	""	""	"1"	NA	1	"RP11-56A10.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"11ff2526-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186813186813187	"WGS"	FALSE
"9820"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	60995761	60995761	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"66"	12	38	"38"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"11ffe09c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"9821"	"SGK3"	23678	"mskcc.org"	"GRCh37"	"8"	67728644	67728644	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.329+2481A>G"	""	""	"ENST00000396596"	""	66	"58"	8	31	"31"	0	"SGK3,intron_variant,,ENST00000396596,NM_013257.4;SGK3,intron_variant,,ENST00000345714,;SGK3,intron_variant,,ENST00000521198,NM_001033578.2;SGK3,intron_variant,,ENST00000522398,;C8orf44-SGK3,intron_variant,,ENST00000519289,NM_001204173.1;SGK3,intron_variant,,ENST00000520976,NM_170709.2;SGK3,intron_variant,,ENST00000522629,;SGK3,intron_variant,,ENST00000518388,;SGK3,intron_variant,,ENST00000521960,;SGK3,intron_variant,,ENST00000521152,;SGK3,intron_variant,,ENST00000519396,;"	"G"	"ENSG00000104205"	"ENST00000396596"	"Transcript"	"intron_variant"	"-/4135"	"-/1491"	"-/496"	""	""	""	"1"	NA	1	"SGK3"	"HGNC"	10812	"protein_coding"	"YES"	"CCDS6195.1"	"ENSP00000379842"	"Q96BR1"	"Q6FHV7,E5RK28,E5RJV7,E5RHR8"	"UPI000013591F"	"NM_013257.4"	""	""	""	"5/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"1200f0ea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"9822"	"PREX2"	80243	"mskcc.org"	"GRCh37"	"8"	69075509	69075509	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4346+5838T>C"	""	""	"ENST00000288368"	""	92	"73"	19	61	"61"	0	"PREX2,intron_variant,,ENST00000288368,NM_024870.2,NM_025170.4;PREX2,intron_variant,,ENST00000520235,;PREX2,intron_variant,,ENST00000522247,;"	"C"	"ENSG00000046889"	"ENST00000288368"	"Transcript"	"intron_variant"	"-/10750"	"-/4821"	"-/1606"	""	""	""	"1"	NA	1	"PREX2"	"HGNC"	22950	"protein_coding"	"YES"	"CCDS6201.1"	"ENSP00000288368"	"Q70Z35"	"Q56UR8"	"UPI0000375435"	"NM_024870.2,NM_025170.4"	""	""	""	"35/39"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"1201281c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206521739130435	"WGS"	FALSE
"9823"	"GS1-44D20.1"	0	"mskcc.org"	"GRCh37"	"8"	70042274	70042274	"+"	"RNA"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.442C>T"	""	""	"ENST00000520239"	"1/1"	116	"108"	8	52	"52"	0	"GS1-44D20.1,non_coding_transcript_exon_variant,,ENST00000520239,;"	"T"	"ENSG00000254332"	"ENST00000520239"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"442/748"	""	""	""	""	""	"1"	NA	1	"GS1-44D20.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"120164c6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"9824"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	71868675	71868675	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"72"	15	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"1201b520-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WGS"	FALSE
"9825"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	72293297	72293297	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"69"	13	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"1201c042-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.158536585365854	"WGS"	FALSE
"9826"	"RP11-383H13.1"	100132891	"mskcc.org"	"GRCh37"	"8"	72862272	72862272	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.498-12886C>T"	""	""	"ENST00000537896"	""	102	"77"	25	68	"68"	0	"RP11-383H13.1,intron_variant,,ENST00000537896,;RP11-383H13.1,intron_variant,,ENST00000524152,;RP11-383H13.1,intron_variant,,ENST00000521467,;RP11-383H13.1,intron_variant,,ENST00000457356,;RP11-383H13.1,intron_variant,,ENST00000518916,;RP11-383H13.1,intron_variant,,ENST00000519751,;RP11-383H13.1,intron_variant,,ENST00000522519,;"	"T"	"ENSG00000235531"	"ENST00000537896"	"Transcript"	"intron_variant"	"-/1528"	"-/549"	"-/182"	""	""	""	"1"	NA	1	"RP11-383H13.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000440866"	""	"B7Z945"	"UPI000191533B"	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"1201d1e0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245098039215686	"WGS"	FALSE
"9827"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	73279948	73279948	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"77"	17	64	"64"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"1201e7d4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180851063829787	"WGS"	FALSE
"9828"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	73368379	73368379	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"78"	18	72	"72"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"1201eb62-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"9829"	"RP11-758M4.4"	0	"mskcc.org"	"GRCh37"	"8"	75779618	75779618	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000518128"	""	86	"67"	19	58	"58"	0	"RP11-758M4.4,upstream_gene_variant,,ENST00000518128,;RP11-758M4.4,upstream_gene_variant,,ENST00000523860,;RP11-758M4.4,upstream_gene_variant,,ENST00000522914,;"	"G"	"ENSG00000253706"	"ENST00000518128"	"Transcript"	"upstream_gene_variant"	"-/2810"	""	""	""	""	""	"1"	"444"	-1	"RP11-758M4.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"1202575a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22093023255814	"WGS"	FALSE
"9830"	"HNF4G"	3174	"mskcc.org"	"GRCh37"	"8"	76455654	76455654	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.89-392T>C"	""	""	"ENST00000396423"	""	100	"76"	24	50	"50"	0	"HNF4G,intron_variant,,ENST00000396423,NM_004133.4;HNF4G,intron_variant,,ENST00000354370,;HNF4G,intron_variant,,ENST00000396419,;"	"C"	"ENSG00000164749"	"ENST00000396423"	"Transcript"	"intron_variant"	"-/4209"	"-/1338"	"-/445"	""	""	""	"1"	NA	1	"HNF4G"	"HGNC"	5026	"protein_coding"	"YES"	"CCDS6220.2"	"ENSP00000379701"	"Q14541"	"F1D8Q4"	"UPI0000D47E07"	"NM_004133.4"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"120281ee-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WGS"	FALSE
"9831"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	77191810	77191810	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"72"	24	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"120294f4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"9832"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	78092931	78092931	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"83"	19	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"1202b38a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186274509803922	"WGS"	FALSE
"9833"	"TPD52"	7163	"mskcc.org"	"GRCh37"	"8"	81056494	81056494	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.19+27166A>T"	""	""	"ENST00000379096"	""	110	"88"	22	71	"71"	0	"TPD52,intron_variant,,ENST00000379096,NM_005079.2,NM_001287144.1;TPD52,intron_variant,,ENST00000518937,NM_001025253.1;TPD52,intron_variant,,ENST00000519303,;TPD52,intron_variant,,ENST00000520795,;TPD52,intron_variant,,ENST00000519250,;TPD52,intron_variant,,ENST00000521561,;TPD52,intron_variant,,ENST00000521354,;TPD52,intron_variant,,ENST00000521241,;TPD52,intron_variant,,ENST00000523753,;TPD52,intron_variant,,ENST00000518517,;"	"A"	"ENSG00000076554"	"ENST00000379096"	"Transcript"	"intron_variant"	"-/3918"	"-/555"	"-/184"	""	""	""	"1"	NA	-1	"TPD52"	"HGNC"	12005	"protein_coding"	""	"CCDS55249.1"	"ENSP00000368390"	"P55327"	""	"UPI00000534B5"	"NM_005079.2,NM_001287144.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"12030326-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"9834"	"RP11-157I4.4"	0	"mskcc.org"	"GRCh37"	"8"	82429004	82429004	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.435-4938C>T"	""	""	"ENST00000524085"	""	87	"68"	19	58	"58"	0	"RP11-157I4.4,intron_variant,,ENST00000524085,;RP11-257P3.3,upstream_gene_variant,,ENST00000523380,;RP11-257P3.3,upstream_gene_variant,,ENST00000518637,;FTH1P11,downstream_gene_variant,,ENST00000517577,;"	"T"	"ENSG00000253859"	"ENST00000524085"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/546"	""	""	""	""	""	"1"	NA	1	"RP11-157I4.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"120337ce-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218390804597701	"WGS"	FALSE
"9835"	"RP11-653B10.1"	0	"mskcc.org"	"GRCh37"	"8"	83484604	83484604	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.229-8154G>A"	""	""	"ENST00000522776"	""	85	"72"	13	59	"59"	0	"RP11-653B10.1,intron_variant,,ENST00000522776,;"	"T"	"ENSG00000253503"	"ENST00000522776"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/544"	""	""	""	""	""	"1"	NA	-1	"RP11-653B10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"120364ce-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152941176470588	"WGS"	FALSE
"9836"	"RP11-120I21.2"	0	"mskcc.org"	"GRCh37"	"8"	84930452	84930452	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.124-26327A>T"	""	""	"ENST00000523678"	""	89	"69"	20	53	"53"	0	"RP11-120I21.2,intron_variant,,ENST00000523678,;"	"T"	"ENSG00000254202"	"ENST00000523678"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/640"	""	""	""	""	""	"1"	NA	1	"RP11-120I21.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"1203975a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224719101123595	"WGS"	FALSE
"9837"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	85082355	85082355	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"55"	21	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"120399ee-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276315789473684	"WGS"	FALSE
"9838"	"RALYL"	138046	"mskcc.org"	"GRCh37"	"8"	85267208	85267208	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.16+169959T>A"	""	""	"ENST00000517638"	""	89	"70"	19	45	"45"	0	"RALYL,intron_variant,,ENST00000521268,NM_173848.5;RALYL,intron_variant,,ENST00000518566,NM_001287243.1;RALYL,intron_variant,,ENST00000522455,NM_001100392.1;RALYL,intron_variant,,ENST00000517638,NM_001100391.1;RALYL,intron_variant,,ENST00000521695,NM_001100393.1;RALYL,intron_variant,,ENST00000522613,;RALYL,intron_variant,,ENST00000517988,;RALYL,intron_variant,,ENST00000522647,;"	"A"	"ENSG00000184672"	"ENST00000517638"	"Transcript"	"intron_variant"	"-/1972"	"-/915"	"-/304"	""	""	""	"1"	NA	1	"RALYL"	"HGNC"	27036	"protein_coding"	"YES"	"CCDS55252.1"	"ENSP00000430128"	""	"G3V129,E5RIX9,E5RG71"	"UPI00002108E6"	"NM_001100391.1"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"1203a150-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213483146067416	"WGS"	FALSE
"9839"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	89803900	89803900	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"91"	16	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"1204e434-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.149532710280374	"WGS"	FALSE
"9840"	"RP11-37B2.1"	101929709	"mskcc.org"	"GRCh37"	"8"	90686164	90686164	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"rs112051941"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.684-44665A>G"	""	""	"ENST00000519655"	""	84	"59"	25	73	"73"	0	"RP11-37B2.1,intron_variant,,ENST00000519655,;RP11-37B2.1,intron_variant,,ENST00000524190,;"	"C"	"ENSG00000251136"	"ENST00000519655"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1398"	""	""	""	""	"rs112051941"	"1"	NA	-1	"RP11-37B2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/6"	""	"C:0.0050"	"C:0.0189"	"C:0"	NA	"C:0"	"C:0"	"C:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"1204feb0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297619047619048	"WGS"	FALSE
"9841"	"RP11-37B2.1"	101929709	"mskcc.org"	"GRCh37"	"8"	90686165	90686165	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.684-44666G>A"	""	""	"ENST00000519655"	""	84	"61"	23	73	"73"	0	"RP11-37B2.1,intron_variant,,ENST00000519655,;RP11-37B2.1,intron_variant,,ENST00000524190,;"	"T"	"ENSG00000251136"	"ENST00000519655"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1398"	""	""	""	""	""	"1"	NA	-1	"RP11-37B2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"1204ff50-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273809523809524	"WGS"	FALSE
"9842"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	92528345	92528345	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"62"	12	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"12052c5a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162162162162162	"WGS"	FALSE
"9843"	"VPS13B"	157680	"mskcc.org"	"GRCh37"	"8"	100611131	100611131	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5295+21270C>A"	""	""	"ENST00000358544"	""	87	"62"	25	60	"60"	0	"VPS13B,intron_variant,,ENST00000395996,;VPS13B,intron_variant,,ENST00000358544,NM_017890.4;VPS13B,intron_variant,,ENST00000357162,NM_152564.4;VPS13B,intron_variant,,ENST00000521559,;"	"A"	"ENSG00000132549"	"ENST00000358544"	"Transcript"	"intron_variant"	"-/14094"	"-/12069"	"-/4022"	""	""	""	"1"	NA	1	"VPS13B"	"HGNC"	2183	"protein_coding"	"YES"	"CCDS6280.1"	"ENSP00000351346"	"Q7Z7G8"	""	"UPI00001D2D35"	"NM_017890.4"	""	""	""	"33/61"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"1206b336-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28735632183908	"WGS"	FALSE
"9844"	"ANKRD46"	157567	"mskcc.org"	"GRCh37"	"8"	101536347	101536347	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.471-1348G>A"	""	""	"ENST00000520552"	""	94	"75"	19	61	"61"	0	"ANKRD46,intron_variant,,ENST00000520311,NM_001270378.1;ANKRD46,intron_variant,,ENST00000519597,NM_198401.3;ANKRD46,intron_variant,,ENST00000335659,NM_001270377.1;ANKRD46,intron_variant,,ENST00000520552,NM_001270379.1;ANKRD46,intron_variant,,ENST00000519316,;ANKRD46,intron_variant,,ENST00000358990,;"	"T"	"ENSG00000186106"	"ENST00000520552"	"Transcript"	"intron_variant"	"-/1686"	"-/699"	"-/232"	""	""	""	"1"	NA	-1	"ANKRD46"	"HGNC"	27229	"protein_coding"	"YES"	"CCDS59109.1"	"ENSP00000429015"	"Q86W74"	"J3KP26,E5RI20,E5RHV2,E5RFM7"	"UPI000018CE82"	"NM_001270379.1"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"1206e59a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202127659574468	"WGS"	FALSE
"9845"	"RP11-1C8.5"	0	"mskcc.org"	"GRCh37"	"8"	104475478	104475478	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000562917"	""	75	"59"	16	50	"50"	0	"RP11-1C8.5,upstream_gene_variant,,ENST00000562917,;"	"A"	"ENSG00000261670"	"ENST00000562917"	"Transcript"	"upstream_gene_variant"	"-/4597"	""	""	""	""	""	"1"	"1139"	1	"RP11-1C8.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"12077fdc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213333333333333	"WGS"	FALSE
"9846"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	108539964	108539964	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"67"	13	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"12080e98-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1625	"WGS"	FALSE
"9847"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	111830764	111830764	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"77"	19	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"120861c2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197916666666667	"WGS"	FALSE
"9848"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	114503505	114503505	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"59"	15	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"1208b14a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202702702702703	"WGS"	FALSE
"9849"	"RP11-393K19.1"	0	"mskcc.org"	"GRCh37"	"8"	115330329	115330329	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000518851"	""	108	"84"	24	46	"46"	0	"RP11-393K19.1,downstream_gene_variant,,ENST00000518851,;"	"T"	"ENSG00000253499"	"ENST00000518851"	"Transcript"	"downstream_gene_variant"	"-/512"	""	""	""	""	""	"1"	"300"	-1	"RP11-393K19.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"1208c6f8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"9850"	"HAS2"	3037	"mskcc.org"	"GRCh37"	"8"	122654060	122654060	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000303924"	""	115	"101"	14	55	"55"	0	"HAS2,upstream_gene_variant,,ENST00000303924,NM_005328.2;HAS2-AS1,intron_variant,,ENST00000514180,;HAS2-AS1,intron_variant,,ENST00000520043,;HAS2-AS1,intron_variant,,ENST00000518865,;HAS2-AS1,intron_variant,,ENST00000522197,;"	"A"	"ENSG00000170961"	"ENST00000303924"	"Transcript"	"upstream_gene_variant"	"-/4190"	"-/1659"	"-/552"	""	""	""	"1"	"430"	-1	"HAS2"	"HGNC"	4819	"protein_coding"	"YES"	"CCDS6335.1"	"ENSP00000306991"	"Q92819"	""	"UPI000012C0A9"	"NM_005328.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"1209dc6e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121739130434783	"WGS"	FALSE
"9851"	"RP11-973F15.2"	0	"mskcc.org"	"GRCh37"	"8"	123714792	123714792	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs567740395"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.357+514G>A"	""	""	"ENST00000577765"	""	91	"77"	14	50	"50"	0	"RP11-973F15.2,intron_variant,,ENST00000577765,;"	"T"	"ENSG00000263443"	"ENST00000577765"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/501"	""	""	""	""	"rs567740395"	"1"	NA	-1	"RP11-973F15.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"1209fec4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"9852"	"RP11-65D17.1"	101927657	"mskcc.org"	"GRCh37"	"8"	127342283	127342283	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000500180"	""	105	"84"	21	63	"63"	0	"RP11-65D17.1,downstream_gene_variant,,ENST00000500180,;"	"A"	"ENSG00000244791"	"ENST00000500180"	"Transcript"	"downstream_gene_variant"	"-/1422"	""	""	""	""	""	"1"	"503"	1	"RP11-65D17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"120aa04a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"9853"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	129655641	129655641	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"84"	5	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"120b097c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0561797752808989	"WGS"	FALSE
"9854"	"CCDC26"	0	"mskcc.org"	"GRCh37"	"8"	130493895	130493895	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.313-959A>T"	""	""	"ENST00000446592"	""	88	"77"	11	57	"57"	0	"CCDC26,intron_variant,,ENST00000446592,;CCDC26,intron_variant,,ENST00000523151,;CCDC26,intron_variant,,ENST00000520048,;MIR3686,downstream_gene_variant,,ENST00000577904,;"	"A"	"ENSG00000229140"	"ENST00000446592"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1721"	""	""	""	""	""	"1"	NA	-1	"CCDC26"	"HGNC"	28416	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"120b2b78-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"9855"	"ASAP1"	50807	"mskcc.org"	"GRCh37"	"8"	131109774	131109774	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2402-5385C>A"	""	""	"ENST00000357668"	""	87	"72"	15	57	"57"	0	"ASAP1,intron_variant,,ENST00000357668,;ASAP1,intron_variant,,ENST00000518721,NM_001247996.1,NM_018482.3;ASAP1,intron_variant,,ENST00000524124,;ASAP1,intron_variant,,ENST00000519483,;ASAP1,intron_variant,,ENST00000521075,;ASAP1,intron_variant,,ENST00000520189,;"	"T"	"ENSG00000153317"	"ENST00000357668"	"Transcript"	"intron_variant"	"-/6042"	"-/3390"	"-/1129"	""	""	""	"1"	NA	-1	"ASAP1"	"HGNC"	2720	"protein_coding"	"YES"	"CCDS6362.1"	"ENSP00000350297"	"Q9ULH1"	"E5RFD9"	"UPI0000351D6E"	""	""	""	""	"23/28"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"120b5152-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WGS"	FALSE
"9856"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	131532596	131532596	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"82"	9	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"120b6bec-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0989010989010989	"WGS"	FALSE
"9857"	"KB-1568E2.1"	0	"mskcc.org"	"GRCh37"	"8"	131633427	131633427	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.155-22110A>G"	""	""	"ENST00000523502"	""	87	"79"	8	55	"55"	0	"KB-1568E2.1,intron_variant,,ENST00000523502,;"	"C"	"ENSG00000253656"	"ENST00000523502"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2072"	""	""	""	""	""	"1"	NA	-1	"KB-1568E2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"120b7254-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"9858"	"ST3GAL1"	6482	"mskcc.org"	"GRCh37"	"8"	134550578	134550578	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-580+5723G>A"	""	""	"ENST00000319914"	""	89	"69"	20	46	"46"	0	"ST3GAL1,intron_variant,,ENST00000319914,;ST3GAL1,intron_variant,,ENST00000521180,NM_173344.2,NM_003033.3;ST3GAL1,intron_variant,,ENST00000522652,;ST3GAL1,intron_variant,,ENST00000517668,;ST3GAL1,intron_variant,,ENST00000519435,;ST3GAL1,intron_variant,,ENST00000518298,;ST3GAL1,intron_variant,,ENST00000522873,;"	"T"	"ENSG00000008513"	"ENST00000319914"	"Transcript"	"intron_variant"	"-/6967"	"-/1023"	"-/340"	""	""	""	"1"	NA	-1	"ST3GAL1"	"HGNC"	10862	"protein_coding"	"YES"	"CCDS6373.1"	"ENSP00000318445"	"Q11201"	"E5RHV6,E5RH34,E5RGL4,E5RGI3,E5RG72"	"UPI00000015E1"	""	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"120bdb0e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224719101123595	"WGS"	FALSE
"9859"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	135180761	135180761	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"86"	17	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"120c0142-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16504854368932	"WGS"	FALSE
"9860"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	136898248	136898248	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"rs11986901"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"80"	19	53	"53"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11986901"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0136"	"C:0.0469"	"C:0.0086"	NA	"C:0"	"C:0"	"C:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"120c72f8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191919191919192	"WGS"	FALSE
"9861"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	138753750	138753750	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs563625651"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"76"	21	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs563625651"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0004"	"T:0"	"T:0"	NA	"T:0"	"T:0.001"	"T:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"120cb830-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216494845360825	"WGS"	FALSE
"9862"	"FAM135B"	51059	"mskcc.org"	"GRCh37"	"8"	139295452	139295452	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.158-17367C>G"	""	""	"ENST00000395297"	""	82	"66"	16	44	"44"	0	"FAM135B,intron_variant,,ENST00000395297,NM_015912.3;FAM135B,intron_variant,,ENST00000160713,;FAM135B,intron_variant,,ENST00000517849,;FAM135B,intron_variant,,ENST00000482951,;FAM135B,intron_variant,,ENST00000276737,;"	"C"	"ENSG00000147724"	"ENST00000395297"	"Transcript"	"intron_variant"	"-/6962"	"-/4221"	"-/1406"	""	""	""	"1"	NA	-1	"FAM135B"	"HGNC"	28029	"protein_coding"	"YES"	"CCDS6375.2"	"ENSP00000378710"	"Q49AJ0"	"J3QSR3"	"UPI000057A0DB"	"NM_015912.3"	""	""	""	"3/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"120ce918-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195121951219512	"WGS"	FALSE
"9863"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	140544062	140544062	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs75968360"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"85"	23	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs75968360"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0112"	"T:0.0386"	"T:0.0072"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"120d46d8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212962962962963	"WGS"	FALSE
"9864"	"TRAPPC9"	83696	"mskcc.org"	"GRCh37"	"8"	141217713	141217713	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2850+13845A>G"	""	""	"ENST00000389328"	""	108	"86"	22	58	"58"	0	"TRAPPC9,intron_variant,,ENST00000389328,NM_031466.5;TRAPPC9,intron_variant,,ENST00000438773,NM_001160372.1;TRAPPC9,intron_variant,,ENST00000389327,;TRAPPC9,intron_variant,,ENST00000520857,;TRAPPC9,intron_variant,,ENST00000521667,;TRAPPC9,intron_variant,,ENST00000520532,;TRAPPC9,intron_variant,,ENST00000517667,;"	"C"	"ENSG00000167632"	"ENST00000389328"	"Transcript"	"intron_variant"	"-/4474"	"-/3741"	"-/1246"	""	""	""	"1"	NA	-1	"TRAPPC9"	"HGNC"	30832	"protein_coding"	"YES"	"CCDS34946.1"	"ENSP00000373979"	"Q96Q05"	""	"UPI0000DBEF2B"	"NM_031466.5"	""	""	""	"17/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"120d8670-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203703703703704	"WGS"	FALSE
"9865"	"TRAPPC9"	83696	"mskcc.org"	"GRCh37"	"8"	141391218	141391218	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1429-9939A>G"	""	""	"ENST00000389328"	""	94	"87"	7	44	"44"	0	"TRAPPC9,intron_variant,,ENST00000389328,NM_031466.5;TRAPPC9,intron_variant,,ENST00000438773,NM_001160372.1;TRAPPC9,intron_variant,,ENST00000389327,;TRAPPC9,intron_variant,,ENST00000520857,;"	"C"	"ENSG00000167632"	"ENST00000389328"	"Transcript"	"intron_variant"	"-/4474"	"-/3741"	"-/1246"	""	""	""	"1"	NA	-1	"TRAPPC9"	"HGNC"	30832	"protein_coding"	"YES"	"CCDS34946.1"	"ENSP00000373979"	"Q96Q05"	""	"UPI0000DBEF2B"	"NM_031466.5"	""	""	""	"7/22"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"120d9480-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"9866"	"PTK2"	5747	"mskcc.org"	"GRCh37"	"8"	141725919	141725919	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2142+1778G>T"	""	""	"ENST00000340930"	""	106	"85"	21	65	"65"	0	"PTK2,intron_variant,,ENST00000522684,NM_153831.3;PTK2,intron_variant,,ENST00000517887,;PTK2,intron_variant,,ENST00000395218,;PTK2,intron_variant,,ENST00000519419,;PTK2,intron_variant,,ENST00000340930,NM_001199649.1;PTK2,intron_variant,,ENST00000521059,NM_005607.4;PTK2,intron_variant,,ENST00000519654,;PTK2,intron_variant,,ENST00000535192,;PTK2,intron_variant,,ENST00000519465,;PTK2,intron_variant,,ENST00000523539,;PTK2,intron_variant,,ENST00000538769,;PTK2,intron_variant,,ENST00000521986,;PTK2,intron_variant,,ENST00000430260,;PTK2,intron_variant,,ENST00000521562,;PTK2,intron_variant,,ENST00000523388,;PTK2,intron_variant,,ENST00000522424,;PTK2,downstream_gene_variant,,ENST00000518509,;PTK2,intron_variant,,ENST00000519993,;PTK2,intron_variant,,ENST00000524202,;PTK2,intron_variant,,ENST00000521250,;PTK2,intron_variant,,ENST00000521029,;PTK2,intron_variant,,ENST00000521981,;"	"A"	"ENSG00000169398"	"ENST00000340930"	"Transcript"	"intron_variant"	"-/4414"	"-/3198"	"-/1065"	""	""	""	"1"	NA	-1	"PTK2"	"HGNC"	9611	"protein_coding"	"YES"	"CCDS56557.1"	"ENSP00000341189"	"Q05397"	"E5RJQ2,E5RIK4,E5RI72,E5RHK7,E5RHD8,E5RH48,E5RH08,E5RH01,E5RGA6,E5RG86,E5RG80,E5RG66,E5RFW9"	"UPI0001E8F57E"	"NM_001199649.1"	""	""	""	"23/32"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"120db442-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19811320754717	"WGS"	FALSE
"9867"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	142953849	142953849	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"37"	5	40	"40"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"120e576c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"9868"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	144053192	144053192	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs530424881"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"53"	22	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs530424881"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"120f87ea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293333333333333	"WGS"	FALSE
"9869"	"ZFP41"	286128	"mskcc.org"	"GRCh37"	"8"	144337810	144337810	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*901-4135T>A"	""	""	"ENST00000330701"	""	49	"45"	4	35	"35"	0	"ZFP41,intron_variant,,ENST00000330701,NM_173832.4;ZFP41,intron_variant,,ENST00000522452,;ZFP41,downstream_gene_variant,,ENST00000520584,NM_001271156.1;"	"A"	"ENSG00000181638"	"ENST00000330701"	"Transcript"	"intron_variant"	"-/4797"	"-/597"	"-/198"	""	""	""	"1"	NA	1	"ZFP41"	"HGNC"	26786	"protein_coding"	"YES"	"CCDS6397.1"	"ENSP00000327427"	"Q8N8Y5"	""	"UPI0000070522"	"NM_173832.4"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"120fdb78-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WGS"	FALSE
"9870"	"MROH1"	727957	"mskcc.org"	"GRCh37"	"8"	145217520	145217520	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-56-1154A>G"	""	""	"ENST00000528919"	""	67	"60"	7	52	"52"	0	"MROH1,intron_variant,,ENST00000528919,NM_032450.2;MROH1,intron_variant,,ENST00000534366,NM_001288814.1;MROH1,intron_variant,,ENST00000398656,;MROH1,intron_variant,,ENST00000423230,NM_001099280.1,NM_001099281.1;MROH1,upstream_gene_variant,,ENST00000326134,;MROH1,intron_variant,,ENST00000527552,;MROH1,intron_variant,,ENST00000532255,;MROH1,intron_variant,,ENST00000525287,;"	"G"	"ENSG00000179832"	"ENST00000528919"	"Transcript"	"intron_variant"	"-/5234"	"-/4926"	"-/1641"	""	""	""	"1"	NA	1	"MROH1"	"HGNC"	26958	"protein_coding"	"YES"	"CCDS47938.1"	"ENSP00000435565"	"Q8NDA8"	""	"UPI0001AE6FA6"	"NM_032450.2"	""	""	""	"1/42"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"12106412-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104477611940299	"WGS"	FALSE
"9871"	"DOCK8"	81704	"mskcc.org"	"GRCh37"	"9"	261362	261362	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.54-10265A>T"	""	""	"ENST00000453981"	""	87	"65"	22	65	"65"	0	"DOCK8,intron_variant,,ENST00000432829,NM_203447.3;DOCK8,intron_variant,,ENST00000453981,;DOCK8,intron_variant,,ENST00000479404,;DOCK8,intron_variant,,ENST00000524396,;DOCK8,intron_variant,,ENST00000454469,;DOCK8,intron_variant,,ENST00000469197,;"	"T"	"ENSG00000107099"	"ENST00000453981"	"Transcript"	"intron_variant"	"-/7448"	"-/6300"	"-/2099"	""	""	""	"1"	NA	1	"DOCK8"	"HGNC"	19191	"protein_coding"	"YES"	"CCDS6440.2"	"ENSP00000408464"	"Q8NF50"	"E2J6M5,C9J7A3,C9J613"	"UPI0000E0B9E5"	""	""	""	""	"1/47"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"121182ac-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252873563218391	"WGS"	FALSE
"9872"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	832142	832142	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"75"	14	52	"52"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"1211a750-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157303370786517	"WGS"	FALSE
"9873"	"SMARCA2"	6595	"mskcc.org"	"GRCh37"	"9"	2136109	2136109	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3981+12172A>G"	""	""	"ENST00000382203"	""	91	"81"	10	41	"41"	0	"SMARCA2,intron_variant,,ENST00000382203,;SMARCA2,intron_variant,,ENST00000349721,NM_003070.3;SMARCA2,intron_variant,,ENST00000357248,NM_139045.2;SMARCA2,intron_variant,,ENST00000382194,;"	"G"	"ENSG00000080503"	"ENST00000382203"	"Transcript"	"intron_variant"	"-/5867"	"-/4773"	"-/1590"	""	""	""	"1"	NA	1	"SMARCA2"	"HGNC"	11098	"protein_coding"	"YES"	"CCDS34977.1"	"ENSP00000371638"	"P51531"	"Q6LC24,Q56A76,F6XDY1,F6VDE0,F6RS74,F6QYQ1,B1ALG5,B1ALG2"	"UPI00001AE8EB"	""	""	""	""	"27/33"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"1211da04-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10989010989011	"WGS"	FALSE
"9874"	"RCL1"	10171	"mskcc.org"	"GRCh37"	"9"	4877467	4877467	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.449-7021T>A"	""	""	"ENST00000445485"	""	101	"71"	30	58	"58"	0	"RCL1,intron_variant,,ENST00000445485,;"	"A"	"ENSG00000120158"	"ENST00000445485"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1878"	""	""	""	""	""	"1"	NA	1	"RCL1"	"HGNC"	17687	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"121251fa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297029702970297	"WGS"	FALSE
"9875"	"ERMP1"	79956	"mskcc.org"	"GRCh37"	"9"	5828030	5828030	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.640+2697T>C"	""	""	"ENST00000339450"	""	83	"76"	7	49	"49"	0	"ERMP1,intron_variant,,ENST00000339450,NM_024896.2;ERMP1,intron_variant,,ENST00000381506,;ERMP1,intron_variant,,ENST00000214893,;ERMP1,intron_variant,,ENST00000462592,;ERMP1,intron_variant,,ENST00000489219,;ERMP1,intron_variant,,ENST00000487088,;ERMP1,intron_variant,,ENST00000475005,;"	"G"	"ENSG00000099219"	"ENST00000339450"	"Transcript"	"intron_variant"	"-/5376"	"-/2715"	"-/904"	""	""	""	"1"	NA	-1	"ERMP1"	"HGNC"	23703	"protein_coding"	"YES"	"CCDS34983.1"	"ENSP00000340427"	"Q7Z2K6"	"D3DRI3"	"UPI00001D7694"	"NM_024896.2"	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"12126c9e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"9876"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	7215886	7215886	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"64"	14	35	"35"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"1212d288-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179487179487179	"WGS"	FALSE
"9877"	"PTPRD"	5789	"mskcc.org"	"GRCh37"	"9"	10038389	10038389	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000381196"	""	96	"75"	21	61	"61"	0	"PTPRD,intron_variant,,ENST00000463477,;PTPRD,upstream_gene_variant,,ENST00000381196,NM_002839.3;"	"T"	"ENSG00000153707"	"ENST00000381196"	"Transcript"	"upstream_gene_variant"	"-/9911"	"-/5739"	"-/1912"	""	""	""	"1"	"4599"	-1	"PTPRD"	"HGNC"	9668	"protein_coding"	"YES"	"CCDS43786.1"	"ENSP00000370593"	"P23468"	"C9J6E4,B4DK48"	"UPI0000132990"	"NM_002839.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"121323aa-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WGS"	FALSE
"9878"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	10970351	10970351	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"90"	5	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"1213479a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0526315789473684	"WGS"	FALSE
"9879"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	13972004	13972004	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"96"	19	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"1213a794-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.165217391304348	"WGS"	FALSE
"9880"	"ENSR00001469366"	0	"mskcc.org"	"GRCh37"	"9"	14562188	14562188	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001469366"	""	92	"73"	19	66	"66"	0	""	"T"	""	"ENSR00001469366"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"1213beb4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206521739130435	"WGS"	FALSE
"9881"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	18299771	18299771	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"85"	15	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"121465e4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WGS"	FALSE
"9882"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	23269136	23269136	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"78"	18	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"12154a04-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"9883"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	25561605	25561605	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"76"	22	58	"57"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"12158bae-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224489795918367	"WGS"	FALSE
"9884"	"LINGO2"	158038	"mskcc.org"	"GRCh37"	"9"	27944228	27944228	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000379992"	""	101	"76"	25	66	"66"	0	"LINGO2,downstream_gene_variant,,ENST00000379992,NM_152570.2;LINGO2,downstream_gene_variant,,ENST00000308675,;RP11-438B23.2,non_coding_transcript_exon_variant,,ENST00000566293,;"	"T"	"ENSG00000174482"	"ENST00000379992"	"Transcript"	"downstream_gene_variant"	"-/3044"	"-/1821"	"-/606"	""	""	""	"1"	"3848"	-1	"LINGO2"	"HGNC"	21207	"protein_coding"	"YES"	"CCDS6524.1"	"ENSP00000369328"	"Q7L985"	""	"UPI000004C7CD"	"NM_152570.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"1215f044-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247524752475248	"WGS"	FALSE
"9885"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	30426806	30426806	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"81"	17	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"12164ce2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173469387755102	"WGS"	FALSE
"9886"	"RP11-537H15.4"	0	"mskcc.org"	"GRCh37"	"9"	34138142	34138142	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000435838"	""	74	"67"	7	56	"56"	0	"RP11-537H15.4,upstream_gene_variant,,ENST00000435838,;"	"T"	"ENSG00000239392"	"ENST00000435838"	"Transcript"	"upstream_gene_variant"	"-/1540"	""	""	""	""	""	"1"	"3448"	-1	"RP11-537H15.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"1216ef44-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	FALSE
"9887"	"ATP8B5P"	158381	"mskcc.org"	"GRCh37"	"9"	35419013	35419013	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.150+10013C>A"	""	""	"ENST00000430846"	""	83	"63"	20	50	"49"	1	"ATP8B5P,intron_variant,,ENST00000430846,;ATP8B5P,intron_variant,,ENST00000329395,;ATP8B5P,intron_variant,,ENST00000439972,;ATP8B5P,intron_variant,,ENST00000417941,;"	"A"	"ENSG00000179766"	"ENST00000430846"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3962"	""	""	""	""	""	"1"	NA	1	"ATP8B5P"	"HGNC"	27245	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"121748d6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240963855421687	"WGS"	FALSE
"9888"	"CD72"	971	"mskcc.org"	"GRCh37"	"9"	35633918	35633918	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.408+12482T>G"	""	""	"ENST00000465754"	""	121	"93"	28	49	"49"	0	"CD72,intron_variant,,ENST00000465754,;"	"C"	"ENSG00000137101"	"ENST00000465754"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/675"	""	""	""	""	""	"1"	NA	-1	"CD72"	"HGNC"	1696	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"121753a8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231404958677686	"WGS"	FALSE
"9889"	"RNF38"	152006	"mskcc.org"	"GRCh37"	"9"	36454619	36454619	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs537705610"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.242-29939C>T"	""	""	"ENST00000488058"	""	91	"83"	8	32	"32"	0	"RNF38,intron_variant,,ENST00000488058,;"	"A"	"ENSG00000137075"	"ENST00000488058"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/582"	""	""	""	""	"rs537705610"	"1"	NA	-1	"RNF38"	"HGNC"	18052	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"12179b88-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0879120879120879	"WGS"	FALSE
"9890"	"RNF38"	152006	"mskcc.org"	"GRCh37"	"9"	36454623	36454623	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.242-29943G>T"	""	""	"ENST00000488058"	""	98	"91"	7	33	"33"	0	"RNF38,intron_variant,,ENST00000488058,;"	"A"	"ENSG00000137075"	"ENST00000488058"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/582"	""	""	""	""	""	"1"	NA	-1	"RNF38"	"HGNC"	18052	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"12179c32-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"9891"	"CNTNAP3"	79937	"mskcc.org"	"GRCh37"	"9"	39159548	39159548	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1477+6382A>C"	""	""	"ENST00000297668"	""	88	"76"	12	48	"48"	0	"CNTNAP3,intron_variant,,ENST00000297668,NM_033655.3;CNTNAP3,intron_variant,,ENST00000358144,;CNTNAP3,intron_variant,,ENST00000377656,;CNTNAP3,intron_variant,,ENST00000377659,;CNTNAP3,intron_variant,,ENST00000323947,;CNTNAP3,intron_variant,,ENST00000443583,;RP11-290L7.5,non_coding_transcript_exon_variant,,ENST00000605859,;RP11-290L7.2,downstream_gene_variant,,ENST00000453646,;"	"G"	"ENSG00000106714"	"ENST00000297668"	"Transcript"	"intron_variant"	"-/5064"	"-/3867"	"-/1288"	""	""	""	"1"	NA	-1	"CNTNAP3"	"HGNC"	13834	"protein_coding"	"YES"	"CCDS6616.1"	"ENSP00000297668"	"Q9BZ76"	""	"UPI000013E43B"	"NM_033655.3"	""	""	""	"9/23"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"12188c50-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"9892"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	65553136	65553136	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"56"	20	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"121d37d2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"9893"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	68286791	68286791	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"81"	21	50	"50"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"122018e4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205882352941176	"WGS"	FALSE
"9894"	"FXN"	2395	"mskcc.org"	"GRCh37"	"9"	71703144	71703144	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.483-11673A>G"	""	""	"ENST00000396364"	""	65	"59"	6	31	"31"	0	"FXN,intron_variant,,ENST00000396364,NM_001161706.1;"	"G"	"ENSG00000165060"	"ENST00000396364"	"Transcript"	"intron_variant"	"-/980"	"-/516"	"-/171"	""	""	""	"1"	NA	1	"FXN"	"HGNC"	3951	"protein_coding"	""	"CCDS55313.1"	"ENSP00000379650"	"Q16595"	""	"UPI000002A9EC"	"NM_001161706.1"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"122438b6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"9895"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	75040585	75040585	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"66"	9	39	"39"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"12251966-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"9896"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	77329537	77329537	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"75"	18	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"1225776c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193548387096774	"WGS"	FALSE
"9897"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	78375404	78375404	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"76"	18	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"1225ab06-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191489361702128	"WGS"	FALSE
"9898"	"PCSK5"	5125	"mskcc.org"	"GRCh37"	"9"	78524359	78524359	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.192+18070C>A"	""	""	"ENST00000545128"	""	83	"75"	8	56	"56"	0	"PCSK5,intron_variant,,ENST00000545128,NM_001190482.1;PCSK5,intron_variant,,ENST00000376752,NM_006200.3;PCSK5,intron_variant,,ENST00000376767,;AL359253.1,upstream_gene_variant,,ENST00000459505,;"	"A"	"ENSG00000099139"	"ENST00000545128"	"Transcript"	"intron_variant"	"-/9538"	"-/5583"	"-/1860"	""	""	""	"1"	NA	1	"PCSK5"	"HGNC"	8747	"protein_coding"	"YES"	"CCDS55320.1"	"ENSP00000446280"	"Q92824"	"I0EZ71"	"UPI0001DAD817"	"NM_001190482.1"	""	""	""	"1/36"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"1225adcc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0963855421686747	"WGS"	FALSE
"9899"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	81254114	81254114	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"81"	16	49	"49"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"12263418-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164948453608247	"WGS"	FALSE
"9900"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	81560493	81560493	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"62"	13	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"12263c60-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173333333333333	"WGS"	FALSE
"9901"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	82764565	82764565	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"61"	23	68	"68"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"122665dc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273809523809524	"WGS"	FALSE
"9902"	"RP11-154D17.1"	101927502	"mskcc.org"	"GRCh37"	"9"	84326290	84326290	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.247+21416G>C"	""	""	"ENST00000437181"	""	13	"8"	5	10	"10"	0	"RP11-154D17.1,intron_variant,,ENST00000437181,;"	"C"	"ENSG00000233926"	"ENST00000437181"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1449"	""	""	""	""	""	"1"	NA	1	"RP11-154D17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"122697e6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WGS"	FALSE
"9903"	"RP11-154D17.1"	101927502	"mskcc.org"	"GRCh37"	"9"	84326300	84326300	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.247+21426A>G"	""	""	"ENST00000437181"	""	15	"11"	4	8	"8"	0	"RP11-154D17.1,intron_variant,,ENST00000437181,;"	"G"	"ENSG00000233926"	"ENST00000437181"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1449"	""	""	""	""	""	"1"	NA	1	"RP11-154D17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"12269886-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"9904"	"NTRK2"	4915	"mskcc.org"	"GRCh37"	"9"	87317456	87317456	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.359+122A>G"	""	""	"ENST00000277120"	""	83	"62"	21	67	"67"	0	"NTRK2,intron_variant,,ENST00000304053,NM_001018065.2;NTRK2,intron_variant,,ENST00000376208,NM_001018066.2;NTRK2,intron_variant,,ENST00000395882,NM_001007097.1;NTRK2,intron_variant,,ENST00000359847,;NTRK2,intron_variant,,ENST00000376214,NM_006180.3;NTRK2,intron_variant,,ENST00000376213,NM_001018064.1;NTRK2,intron_variant,,ENST00000277120,;NTRK2,intron_variant,,ENST00000323115,;NTRK2,intron_variant,,ENST00000395866,;"	"G"	"ENSG00000148053"	"ENST00000277120"	"Transcript"	"intron_variant"	"-/4057"	"-/2517"	"-/838"	""	""	""	"1"	NA	1	"NTRK2"	"HGNC"	8032	"protein_coding"	""	"CCDS6671.1"	"ENSP00000277120"	"Q16620"	"S5MD53,Q8WXJ4"	"UPI000006FA0D"	""	""	""	""	"4/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAA"	"122723d2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253012048192771	"WGS"	FALSE
"9905"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	87848290	87848290	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs11140904"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"56"	16	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs11140904"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0028"	"A:0"	"A:0"	NA	"A:0.0139"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"122738cc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"9906"	"RP11-555F9.2"	340515	"mskcc.org"	"GRCh37"	"9"	93296657	93296657	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.218-25434G>A"	""	""	"ENST00000449990"	""	95	"72"	23	56	"56"	0	"RP11-555F9.2,intron_variant,,ENST00000449990,;"	"T"	"ENSG00000229613"	"ENST00000449990"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/791"	""	""	""	""	""	"1"	NA	-1	"RP11-555F9.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"12286008-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242105263157895	"WGS"	FALSE
"9907"	"WNK2"	65268	"mskcc.org"	"GRCh37"	"9"	96057760	96057760	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5819+2305G>A"	""	""	"ENST00000297954"	""	111	"83"	28	46	"46"	0	"WNK2,intron_variant,,ENST00000432730,;WNK2,intron_variant,,ENST00000297954,NM_001282394.1;WNK2,intron_variant,,ENST00000349097,;WNK2,intron_variant,,ENST00000395477,NM_006648.3;WNK2,intron_variant,,ENST00000356055,;WNK2,intron_variant,,ENST00000411624,;WNK2,intron_variant,,ENST00000395475,;WNK2,intron_variant,,ENST00000427277,;WNK2,intron_variant,,ENST00000448251,;WNK2,intron_variant,,ENST00000453718,;WNK2,intron_variant,,ENST00000474009,;WNK2,intron_variant,,ENST00000479696,;"	"A"	"ENSG00000165238"	"ENST00000297954"	"Transcript"	"intron_variant"	"-/7138"	"-/6894"	"-/2297"	""	""	""	"1"	NA	1	"WNK2"	"HGNC"	14542	"protein_coding"	"YES"	""	"ENSP00000297954"	"Q9Y3S1"	""	"UPI0000236D76"	"NM_001282394.1"	""	""	""	"23/29"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"122901fc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252252252252252	"WGS"	FALSE
"9908"	"C9orf3"	84909	"mskcc.org"	"GRCh37"	"9"	97746403	97746403	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1977+4694C>T"	""	""	"ENST00000375315"	""	71	"59"	12	44	"44"	0	"C9orf3,intron_variant,,ENST00000375315,NM_001193329.1;C9orf3,intron_variant,,ENST00000297979,NM_032823.5;C9orf3,intron_variant,,ENST00000428313,;C9orf3,intron_variant,,ENST00000424143,;C9orf3,intron_variant,,ENST00000451893,;C9orf3,intron_variant,,ENST00000462125,;C9orf3,intron_variant,,ENST00000479161,;C9orf3,intron_variant,,ENST00000460573,;"	"T"	"ENSG00000148120"	"ENST00000375315"	"Transcript"	"intron_variant"	"-/2941"	"-/2460"	"-/819"	""	""	""	"1"	NA	1	"C9orf3"	"HGNC"	1361	"protein_coding"	"YES"	"CCDS55328.1"	"ENSP00000364464"	"Q8N6M6"	"B4DKZ8"	"UPI0000211ACC"	"NM_001193329.1"	""	""	""	"10/15"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"1229763c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.169014084507042	"WGS"	FALSE
"9909"	"SLC35D2"	11046	"mskcc.org"	"GRCh37"	"9"	99103760	99103760	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.684+2426C>G"	""	""	"ENST00000253270"	""	82	"61"	21	54	"54"	0	"SLC35D2,intron_variant,,ENST00000253270,NM_007001.2;SLC35D2,intron_variant,,ENST00000375259,NM_001286990.1;"	"C"	"ENSG00000130958"	"ENST00000253270"	"Transcript"	"intron_variant"	"-/1613"	"-/1014"	"-/337"	""	""	""	"1"	NA	-1	"SLC35D2"	"HGNC"	20799	"protein_coding"	"YES"	"CCDS6717.1"	"ENSP00000253270"	"Q76EJ3"	"Q5VZJ2"	"UPI000003778E"	"NM_007001.2"	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"1229baa2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25609756097561	"WGS"	FALSE
"9910"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	100733261	100733261	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"77"	23	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"122a2ca8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23	"WGS"	FALSE
"9911"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	105150381	105150381	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"73"	25	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"122adbd0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255102040816327	"WGS"	FALSE
"9912"	"RP11-436F21.1"	0	"mskcc.org"	"GRCh37"	"9"	106168562	106168562	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.110+23503A>T"	""	""	"ENST00000421507"	""	87	"82"	5	64	"64"	0	"RP11-436F21.1,intron_variant,,ENST00000421507,;"	"A"	"ENSG00000226566"	"ENST00000421507"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/526"	""	""	""	""	""	"1"	NA	-1	"RP11-436F21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"122af4a8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0574712643678161	"WGS"	FALSE
"9913"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	111338276	111338276	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"87"	7	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"122bd148-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"9914"	"TXN"	7295	"mskcc.org"	"GRCh37"	"9"	113023841	113023841	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000374517"	""	97	"79"	18	78	"78"	0	"TXN,upstream_gene_variant,,ENST00000374517,NM_003329.3;"	"A"	"ENSG00000136810"	"ENST00000374517"	"Transcript"	"upstream_gene_variant"	"-/869"	"-/318"	"-/105"	""	""	""	"1"	"4921"	-1	"TXN"	"HGNC"	12435	"protein_coding"	"YES"	"CCDS35103.1"	"ENSP00000363641"	"P10599"	"H9ZYJ2"	"UPI000011065C"	"NM_003329.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"122c1842-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185567010309278	"WGS"	FALSE
"9915"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	114625645	114625645	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"85"	5	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"122c6ff4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"9916"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	114753500	114753500	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"89"	16	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"122c7990-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152380952380952	"WGS"	FALSE
"9917"	"PTBP3"	9991	"mskcc.org"	"GRCh37"	"9"	115089777	115089777	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.60+5287A>T"	""	""	"ENST00000458258"	""	86	"77"	9	47	"47"	0	"PTBP3,intron_variant,,ENST00000334318,NM_005156.6,NM_001163790.2;PTBP3,intron_variant,,ENST00000374257,NM_001244897.1,NM_001163788.2,NM_001244896.1;PTBP3,intron_variant,,ENST00000458258,NM_001244898.1;PTBP3,intron_variant,,ENST00000374255,;PTBP3,intron_variant,,ENST00000343327,;PTBP3,intron_variant,,ENST00000210227,;PTBP3,intron_variant,,ENST00000450374,;PTBP3,intron_variant,,ENST00000487997,;"	"A"	"ENSG00000119314"	"ENST00000458258"	"Transcript"	"intron_variant"	"-/7093"	"-/1677"	"-/558"	""	""	""	"1"	NA	-1	"PTBP3"	"HGNC"	10253	"protein_coding"	"YES"	"CCDS59141.1"	"ENSP00000414921"	"O95758"	""	"UPI000000DA96"	"NM_001244898.1"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"122c8dcc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104651162790698	"WGS"	FALSE
"9918"	"KIAA1958"	158405	"mskcc.org"	"GRCh37"	"9"	115294613	115294613	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-24-41724A>G"	""	""	"ENST00000337530"	""	95	"71"	24	48	"48"	0	"KIAA1958,intron_variant,,ENST00000337530,NM_001287038.1,NM_133465.3;KIAA1958,intron_variant,,ENST00000374244,;KIAA1958,intron_variant,,ENST00000536272,NM_001287036.1;"	"G"	"ENSG00000165185"	"ENST00000337530"	"Transcript"	"intron_variant"	"-/11775"	"-/2151"	"-/716"	""	""	""	"1"	NA	1	"KIAA1958"	"HGNC"	23427	"protein_coding"	"YES"	"CCDS35108.1"	"ENSP00000336940"	"Q8N8K9"	""	"UPI000007327E"	"NM_001287038.1,NM_133465.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"122c9718-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"9919"	"GPR144"	0	"mskcc.org"	"GRCh37"	"9"	127226752	127226752	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1792-1785G>A"	""	""	"ENST00000334810"	""	79	"62"	17	55	"55"	0	"GPR144,intron_variant,,ENST00000334810,NM_001161808.1;"	"A"	"ENSG00000180264"	"ENST00000334810"	"Transcript"	"intron_variant"	"-/2892"	"-/2892"	"-/963"	""	""	""	"1"	NA	1	"GPR144"	"HGNC"	18651	"protein_coding"	"YES"	""	"ENSP00000335156"	"Q7Z7M1"	""	"UPI000019AD1B"	"NM_001161808.1"	""	""	""	"10/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"122eaefe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215189873417722	"WGS"	FALSE
"9920"	"HSPA5"	3309	"mskcc.org"	"GRCh37"	"9"	128002002	128002002	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.493-190A>T"	""	""	"ENST00000324460"	""	70	"62"	8	33	"33"	0	"HSPA5,intron_variant,,ENST00000324460,NM_005347.4;RP11-65N13.8,upstream_gene_variant,,ENST00000468244,;"	"A"	"ENSG00000044574"	"ENST00000324460"	"Transcript"	"intron_variant"	"-/3908"	"-/1965"	"-/654"	""	""	""	"1"	NA	-1	"HSPA5"	"HGNC"	5238	"protein_coding"	"YES"	"CCDS6863.1"	"ENSP00000324173"	"P11021"	""	"UPI0000001061"	"NM_005347.4"	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"122ef350-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"9921"	"PBX3"	5090	"mskcc.org"	"GRCh37"	"9"	128543275	128543275	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.274+32373T>C"	""	""	"ENST00000373489"	""	30	"25"	5	15	"15"	0	"PBX3,intron_variant,,ENST00000373487,;PBX3,intron_variant,,ENST00000342287,;PBX3,intron_variant,,ENST00000373489,NM_006195.5;PBX3,intron_variant,,ENST00000447726,NM_001134778.1;PBX3,intron_variant,,ENST00000373483,;PBX3,intron_variant,,ENST00000491787,;PBX3,intron_variant,,ENST00000497091,;PBX3,intron_variant,,ENST00000373482,;PBX3,intron_variant,,ENST00000373492,;"	"C"	"ENSG00000167081"	"ENST00000373489"	"Transcript"	"intron_variant"	"-/2502"	"-/1305"	"-/434"	""	""	""	"1"	NA	1	"PBX3"	"HGNC"	8634	"protein_coding"	"YES"	"CCDS6865.1"	"ENSP00000362588"	"P40426"	"U3KQA2"	"UPI00001313B3"	"NM_006195.5"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"122f1d1c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"9922"	"ZBTB43"	23099	"mskcc.org"	"GRCh37"	"9"	129563077	129563077	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000373464"	""	102	"95"	7	44	"44"	0	"ZBTB43,upstream_gene_variant,,ENST00000373464,NM_014007.3;ZBTB43,upstream_gene_variant,,ENST00000449886,NM_001135776.1;ZBTB43,upstream_gene_variant,,ENST00000450858,;"	"C"	"ENSG00000169155"	"ENST00000373464"	"Transcript"	"upstream_gene_variant"	"-/5965"	"-/1404"	"-/467"	""	""	""	"1"	"4217"	1	"ZBTB43"	"HGNC"	17908	"protein_coding"	"YES"	"CCDS6867.1"	"ENSP00000362563"	"O43298"	"Q5JU97"	"UPI000013C34F"	"NM_014007.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"122f6646-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0686274509803922	"WGS"	FALSE
"9923"	"ZBTB34"	403341	"mskcc.org"	"GRCh37"	"9"	129636045	129636045	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10-5624A>G"	""	""	"ENST00000319119"	""	78	"70"	8	47	"47"	0	"ZBTB34,intron_variant,,ENST00000319119,NM_001099270.1;"	"G"	"ENSG00000177125"	"ENST00000319119"	"Transcript"	"intron_variant"	"-/6564"	"-/1515"	"-/504"	""	""	""	"1"	NA	1	"ZBTB34"	"HGNC"	31446	"protein_coding"	""	""	"ENSP00000317534"	"Q8NCN2"	""	"UPI00001C1EC2"	"NM_001099270.1"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"122f6b5a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"9924"	"RALGPS1"	9649	"mskcc.org"	"GRCh37"	"9"	129741108	129741108	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.216+1084A>T"	""	""	"ENST00000259351"	""	84	"60"	24	44	"44"	0	"RALGPS1,intron_variant,,ENST00000259351,NM_014636.2;RALGPS1,intron_variant,,ENST00000373434,NM_001190728.1;RALGPS1,intron_variant,,ENST00000424082,NM_001190729.1;RALGPS1,intron_variant,,ENST00000394022,;RALGPS1,intron_variant,,ENST00000373436,NM_001190730.1;RALGPS1,intron_variant,,ENST00000394011,;RALGPS1,intron_variant,,ENST00000319107,;RALGPS1,intron_variant,,ENST00000472427,;RALGPS1,downstream_gene_variant,,ENST00000480993,;RALGPS1,intron_variant,,ENST00000373439,;"	"T"	"ENSG00000136828"	"ENST00000259351"	"Transcript"	"intron_variant"	"-/6336"	"-/1674"	"-/557"	""	""	""	"1"	NA	1	"RALGPS1"	"HGNC"	16851	"protein_coding"	"YES"	"CCDS35143.1"	"ENSP00000259351"	"Q5JS13"	""	"UPI000006D3AF"	"NM_014636.2"	""	""	""	"4/18"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"122f706e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"9925"	"NAIF1"	203245	"mskcc.org"	"GRCh37"	"9"	130821004	130821004	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000373078"	""	103	"96"	7	48	"48"	0	"NAIF1,downstream_gene_variant,,ENST00000373078,NM_197956.3;RP11-379C10.1,upstream_gene_variant,,ENST00000414976,;NAIF1,downstream_gene_variant,,ENST00000488519,;NAIF1,downstream_gene_variant,,ENST00000470245,;NAIF1,downstream_gene_variant,,ENST00000466139,;"	"C"	"ENSG00000171169"	"ENST00000373078"	"Transcript"	"downstream_gene_variant"	"-/3399"	"-/984"	"-/327"	""	""	""	"1"	"2508"	-1	"NAIF1"	"HGNC"	25446	"protein_coding"	"YES"	"CCDS6889.1"	"ENSP00000362170"	"Q69YI7"	""	"UPI0000160C94"	"NM_197956.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"122fb84e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0679611650485437	"WGS"	FALSE
"9926"	"TBC1D13"	54662	"mskcc.org"	"GRCh37"	"9"	131555256	131555256	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.383+403G>T"	""	""	"ENST00000372648"	""	100	"80"	20	69	"69"	0	"TBC1D13,intron_variant,,ENST00000372648,NM_018201.3;TBC1D13,intron_variant,,ENST00000539497,;TBC1D13,intron_variant,,ENST00000223865,NM_001286772.1;TBC1D13,intron_variant,,ENST00000466056,;TBC1D13,intron_variant,,ENST00000475097,;"	"T"	"ENSG00000107021"	"ENST00000372648"	"Transcript"	"intron_variant"	"-/3906"	"-/1203"	"-/400"	""	""	""	"1"	NA	1	"TBC1D13"	"HGNC"	25571	"protein_coding"	"YES"	"CCDS6911.1"	"ENSP00000361731"	"Q9NVG8"	"Q59F95,B4DHM6,B3KW04"	"UPI000013E816"	"NM_018201.3"	""	""	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"12301c62-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"9927"	"TBC1D13"	54662	"mskcc.org"	"GRCh37"	"9"	131565752	131565752	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.754+13T>G"	""	""	"ENST00000372648"	""	71	"47"	24	44	"44"	0	"TBC1D13,intron_variant,,ENST00000372648,NM_018201.3;TBC1D13,intron_variant,,ENST00000539497,;TBC1D13,intron_variant,,ENST00000223865,NM_001286772.1;TBC1D13,downstream_gene_variant,,ENST00000466056,;"	"G"	"ENSG00000107021"	"ENST00000372648"	"Transcript"	"intron_variant"	"-/3906"	"-/1203"	"-/400"	""	""	""	"1"	NA	1	"TBC1D13"	"HGNC"	25571	"protein_coding"	"YES"	"CCDS6911.1"	"ENSP00000361731"	"Q9NVG8"	"Q59F95,B4DHM6,B3KW04"	"UPI000013E816"	"NM_018201.3"	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"12301d02-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.338028169014085	"WGS"	FALSE
"9928"	"SH3GLB2"	56904	"mskcc.org"	"GRCh37"	"9"	131775807	131775807	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.561+883C>T"	""	""	"ENST00000372564"	""	115	"87"	28	43	"43"	0	"SH3GLB2,intron_variant,,ENST00000372564,NM_020145.2;SH3GLB2,intron_variant,,ENST00000372554,NM_001287045.1;SH3GLB2,intron_variant,,ENST00000417224,;SH3GLB2,intron_variant,,ENST00000416629,;SH3GLB2,intron_variant,,ENST00000372559,NM_001287046.1;SH3GLB2,non_coding_transcript_exon_variant,,ENST00000461811,;SH3GLB2,intron_variant,,ENST00000483980,;SH3GLB2,intron_variant,,ENST00000455407,;SH3GLB2,intron_variant,,ENST00000477165,;SH3GLB2,intron_variant,,ENST00000425236,;SH3GLB2,upstream_gene_variant,,ENST00000479237,;SH3GLB2,downstream_gene_variant,,ENST00000416230,;"	"A"	"ENSG00000148341"	"ENST00000372564"	"Transcript"	"intron_variant"	"-/2982"	"-/1188"	"-/395"	""	""	""	"1"	NA	-1	"SH3GLB2"	"HGNC"	10834	"protein_coding"	"YES"	"CCDS6916.1"	"ENSP00000361645"	"Q9NR46"	""	"UPI000006D1AE"	"NM_020145.2"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"123038f0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.243478260869565	"WGS"	FALSE
"9929"	"USP20"	10868	"mskcc.org"	"GRCh37"	"9"	132636923	132636923	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1809C>T"	"p.="	"p.V603V"	"ENST00000315480"	"18/25"	100	"81"	19	57	"57"	0	"USP20,synonymous_variant,p.=,ENST00000315480,;USP20,synonymous_variant,p.=,ENST00000358355,NM_001008563.4;USP20,synonymous_variant,p.=,ENST00000372429,NM_006676.7,NM_001110303.3;USP20,intron_variant,,ENST00000474895,;USP20,upstream_gene_variant,,ENST00000472108,;USP20,downstream_gene_variant,,ENST00000491731,;USP20,upstream_gene_variant,,ENST00000496927,;"	"T"	"ENSG00000136878"	"ENST00000315480"	"Transcript"	"synonymous_variant"	"1967/4458"	"1809/2745"	"603/914"	"V"	"gtC/gtT"	""	"1"	NA	1	"USP20"	"HGNC"	12619	"protein_coding"	"YES"	"CCDS43892.1"	"ENSP00000313811"	"Q9Y2K6"	"Q9UQN9"	"UPI000013D050"	""	""	""	"18/25"	""	"PROSITE_profiles:PS50235,hmmpanther:PTHR24006,hmmpanther:PTHR24006:SF402,Pfam_domain:PF00443,Superfamily_domains:SSF54001"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"1230a48e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19	"WGS"	FALSE
"9930"	"FNBP1"	23048	"mskcc.org"	"GRCh37"	"9"	132775166	132775166	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs778137942"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.25-17929G>A"	""	""	"ENST00000446176"	""	92	"73"	19	59	"59"	0	"FNBP1,intron_variant,,ENST00000420781,;FNBP1,intron_variant,,ENST00000446176,NM_015033.2;FNBP1,intron_variant,,ENST00000355681,;"	"T"	"ENSG00000187239"	"ENST00000446176"	"Transcript"	"intron_variant"	"-/5393"	"-/1854"	"-/617"	""	""	"rs778137942"	"1"	NA	-1	"FNBP1"	"HGNC"	17069	"protein_coding"	"YES"	"CCDS48040.1"	"ENSP00000413625"	"Q96RU3"	"B7ZL12"	"UPI000022408C"	"NM_015033.2"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"1230ada8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206521739130435	"WGS"	TRUE
"9931"	"RP11-83J21.3"	0	"mskcc.org"	"GRCh37"	"9"	133819781	133819781	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.164+22G>A"	""	""	"ENST00000421067"	""	37	"29"	8	20	"20"	0	"RP11-83J21.3,intron_variant,,ENST00000421067,;"	"A"	"ENSG00000236658"	"ENST00000421067"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/462"	""	""	""	""	""	"1"	NA	1	"RP11-83J21.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"123101ea-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216216216216216	"WGS"	FALSE
"9932"	"PRRC2B"	84726	"mskcc.org"	"GRCh37"	"9"	134273424	134273424	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-56+3774G>C"	""	""	"ENST00000405995"	""	112	"86"	26	61	"61"	0	"PRRC2B,intron_variant,,ENST00000405995,;"	"C"	"ENSG00000130723"	"ENST00000405995"	"Transcript"	"intron_variant"	"-/9157"	"-/4608"	"-/1535"	""	""	""	"1"	NA	1	"PRRC2B"	"HGNC"	28121	"protein_coding"	""	""	"ENSP00000384606"	"Q5JSZ5"	"B4E3S7"	"UPI00004A2DAD"	""	""	""	""	"1/30"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"12314ae2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232142857142857	"WGS"	FALSE
"9933"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	134681343	134681343	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"72"	15	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"12317260-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WGS"	FALSE
"9934"	"RXRA"	6256	"mskcc.org"	"GRCh37"	"9"	137273576	137273576	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.29-19902C>T"	""	""	"ENST00000481739"	""	102	"83"	19	48	"48"	0	"RXRA,intron_variant,,ENST00000481739,NM_002957.4;MIR4669,downstream_gene_variant,,ENST00000585099,;RXRA,intron_variant,,ENST00000356384,;RXRA,intron_variant,,ENST00000484822,;"	"T"	"ENSG00000186350"	"ENST00000481739"	"Transcript"	"intron_variant"	"-/1846"	"-/1389"	"-/462"	""	""	""	"1"	NA	1	"RXRA"	"HGNC"	10477	"protein_coding"	"YES"	"CCDS35172.1"	"ENSP00000419692"	"P19793"	"Q6P3U7,F1D8Q5,B3KY83"	"UPI0000042A9A"	"NM_002957.4"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"123270d4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186274509803922	"WGS"	FALSE
"9935"	"RXRA"	6256	"mskcc.org"	"GRCh37"	"9"	137314450	137314450	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.910+799C>T"	""	""	"ENST00000481739"	""	52	"47"	5	33	"33"	0	"RXRA,intron_variant,,ENST00000540193,;RXRA,intron_variant,,ENST00000481739,NM_002957.4;RXRA,intron_variant,,ENST00000356384,;"	"T"	"ENSG00000186350"	"ENST00000481739"	"Transcript"	"intron_variant"	"-/1846"	"-/1389"	"-/462"	""	""	""	"1"	NA	1	"RXRA"	"HGNC"	10477	"protein_coding"	"YES"	"CCDS35172.1"	"ENSP00000419692"	"P19793"	"Q6P3U7,F1D8Q5,B3KY83"	"UPI0000042A9A"	"NM_002957.4"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"123276ba-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0961538461538462	"WGS"	FALSE
"9936"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	137464676	137464676	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"89"	7	78	"78"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"1232b012-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0729166666666667	"WGS"	FALSE
"9937"	"COL5A1"	1289	"mskcc.org"	"GRCh37"	"9"	137677794	137677794	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2593-47T>A"	""	""	"ENST00000371817"	""	95	"80"	15	70	"70"	0	"COL5A1,intron_variant,,ENST00000371817,NM_001278074.1,NM_000093.4;"	"A"	"ENSG00000130635"	"ENST00000371817"	"Transcript"	"intron_variant"	"-/8468"	"-/5517"	"-/1838"	""	""	""	"1"	NA	1	"COL5A1"	"HGNC"	2209	"protein_coding"	"YES"	"CCDS6982.1"	"ENSP00000360882"	"P20908"	"Q9UML4,Q96HC0,Q59EE7"	"UPI0000210EE3"	"NM_001278074.1,NM_000093.4"	""	""	""	"30/65"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"1232d7fe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"9938"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	137845478	137845478	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"82"	7	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"1232f11c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	FALSE
"9939"	"OLFM1"	10439	"mskcc.org"	"GRCh37"	"9"	137965656	137965656	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000252854"	""	95	"81"	14	52	"52"	0	"OLFM1,upstream_gene_variant,,ENST00000252854,NM_014279.4;OLFM1,upstream_gene_variant,,ENST00000277415,NM_006334.3;OLFM1,upstream_gene_variant,,ENST00000371799,;OLFM1,upstream_gene_variant,,ENST00000371801,;"	"A"	"ENSG00000130558"	"ENST00000252854"	"Transcript"	"upstream_gene_variant"	"-/2591"	"-/1404"	"-/467"	""	""	""	"1"	"1710"	1	"OLFM1"	"HGNC"	17187	"protein_coding"	"YES"	"CCDS6986.1"	"ENSP00000252854"	"Q99784"	"Q6IMJ8,Q96BL8,F5H810,F5GZQ2,B3KR22"	"UPI000013CD8C"	"NM_014279.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"1233004e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147368421052632	"WGS"	FALSE
"9940"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	138159582	138159582	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs143191400"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"76"	19	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143191400"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0012"	"A:0.0038"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"12333366-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"9941"	"KCNT1"	57582	"mskcc.org"	"GRCh37"	"9"	138635332	138635332	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.255-6612G>A"	""	""	"ENST00000371757"	""	89	"70"	19	58	"58"	0	"KCNT1,intron_variant,,ENST00000298480,;KCNT1,intron_variant,,ENST00000371757,NM_020822.2;KCNT1,intron_variant,,ENST00000487664,NM_001272003.1;KCNT1,intron_variant,,ENST00000263604,;KCNT1,intron_variant,,ENST00000491806,;KCNT1,intron_variant,,ENST00000488444,;KCNT1,intron_variant,,ENST00000486577,;KCNT1,intron_variant,,ENST00000490355,;KCNT1,intron_variant,,ENST00000473941,;KCNT1,intron_variant,,ENST00000460750,;"	"A"	"ENSG00000107147"	"ENST00000371757"	"Transcript"	"intron_variant"	"-/4717"	"-/3708"	"-/1235"	""	""	""	"1"	NA	1	"KCNT1"	"HGNC"	18865	"protein_coding"	"YES"	"CCDS35175.2"	"ENSP00000360822"	"Q5JUK3"	"C9JBV2"	"UPI000192C42B"	"NM_020822.2"	""	""	""	"2/30"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"12337ac4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213483146067416	"WGS"	FALSE
"9942"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	91293	91293	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	35	"31"	4	19	"19"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"1236353e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"9943"	"PLCXD1"	55344	"mskcc.org"	"GRCh37"	"X"	197720	197720	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000381657"	""	23	"19"	4	15	"15"	0	"PLCXD1,intron_variant,,ENST00000399012,;PLCXD1,intron_variant,,ENST00000430923,;PLCXD1,upstream_gene_variant,,ENST00000381657,NM_018390.3;PLCXD1,upstream_gene_variant,,ENST00000381663,;PLCXD1,upstream_gene_variant,,ENST00000448477,;PLCXD1,upstream_gene_variant,,ENST00000447472,;PLCXD1,upstream_gene_variant,,ENST00000415337,;PLCXD1,upstream_gene_variant,,ENST00000445062,;PLCXD1,upstream_gene_variant,,ENST00000429181,;PLCXD1,upstream_gene_variant,,ENST00000443019,;PLCXD1,intron_variant,,ENST00000484611,;"	"C"	"ENSG00000182378"	"ENST00000381657"	"Transcript"	"upstream_gene_variant"	"-/5507"	"-/972"	"-/323"	""	""	""	"1"	"139"	1	"PLCXD1"	"HGNC"	23148	"protein_coding"	"YES"	"CCDS14103.1"	"ENSP00000371073"	"Q9NUJ7"	"K7EIC3,C9JP92"	"UPI0000048190"	"NM_018390.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"1236d3a4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"9944"	"PLCXD1"	55344	"mskcc.org"	"GRCh37"	"X"	197731	197731	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000381657"	""	20	"17"	3	15	"15"	0	"PLCXD1,5_prime_UTR_variant,,ENST00000445062,;PLCXD1,intron_variant,,ENST00000399012,;PLCXD1,intron_variant,,ENST00000430923,;PLCXD1,upstream_gene_variant,,ENST00000381657,NM_018390.3;PLCXD1,upstream_gene_variant,,ENST00000381663,;PLCXD1,upstream_gene_variant,,ENST00000448477,;PLCXD1,upstream_gene_variant,,ENST00000447472,;PLCXD1,upstream_gene_variant,,ENST00000415337,;PLCXD1,upstream_gene_variant,,ENST00000429181,;PLCXD1,upstream_gene_variant,,ENST00000443019,;PLCXD1,intron_variant,,ENST00000484611,;"	"A"	"ENSG00000182378"	"ENST00000381657"	"Transcript"	"upstream_gene_variant"	"-/5507"	"-/972"	"-/323"	""	""	""	"1"	"128"	1	"PLCXD1"	"HGNC"	23148	"protein_coding"	"YES"	"CCDS14103.1"	"ENSP00000371073"	"Q9NUJ7"	"K7EIC3,C9JP92"	"UPI0000048190"	"NM_018390.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"1236d444-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WGS"	FALSE
"9945"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	380860	380860	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"79"	8	33	"33"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"123737cc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"9946"	"RPL14P5"	0	"mskcc.org"	"GRCh37"	"X"	964628	964628	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000436474"	""	61	"47"	14	46	"46"	0	"RPL14P5,downstream_gene_variant,,ENST00000436474,;"	"T"	"ENSG00000225661"	"ENST00000436474"	"Transcript"	"downstream_gene_variant"	"-/730"	""	""	""	""	""	"1"	"4610"	-1	"RPL14P5"	"HGNC"	37720	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"12390eda-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229508196721311	"WGS"	FALSE
"9947"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1248689	1248689	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"74"	8	41	"41"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"1239689e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WGS"	FALSE
"9948"	"IL3RA"	3563	"mskcc.org"	"GRCh37"	"X"	1500625	1500625	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1062+628C>A"	""	""	"ENST00000331035"	""	65	"58"	7	33	"33"	0	"IL3RA,intron_variant,,ENST00000331035,NM_002183.3,NM_001267713.1;IL3RA,intron_variant,,ENST00000381469,;SLC25A6,downstream_gene_variant,,ENST00000381401,NM_001636.3;"	"A"	"ENSG00000185291"	"ENST00000331035"	"Transcript"	"intron_variant"	"-/1706"	"-/1137"	"-/378"	""	""	""	"1"	NA	1	"IL3RA"	"HGNC"	6012	"protein_coding"	"YES"	"CCDS14113.1"	"ENSP00000327890"	"P26951"	"Q9UEH7"	"UPI0000001C31"	"NM_002183.3,NM_001267713.1"	""	""	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"123a63ac-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107692307692308	"WGS"	FALSE
"9949"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	2122110	2122110	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"96"	12	64	"64"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"123b91d2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"9950"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	6359881	6359881	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	60	"53"	7	37	"37"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"123d0742-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116666666666667	"WGS"	FALSE
"9951"	"FAM9B"	171483	"mskcc.org"	"GRCh37"	"X"	9052867	9052867	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.216-2091A>T"	""	""	"ENST00000461107"	""	110	"95"	15	52	"52"	0	"FAM9B,intron_variant,,ENST00000461107,;FAM9B,intron_variant,,ENST00000472522,;"	"A"	"ENSG00000177138"	"ENST00000461107"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3592"	""	""	""	""	""	"1"	NA	-1	"FAM9B"	"HGNC"	18404	"retained_intron"	""	""	""	""	""	""	""	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"123d7a92-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"9952"	"CLCN4"	1183	"mskcc.org"	"GRCh37"	"X"	10193276	10193276	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2192+4359A>T"	""	""	"ENST00000380833"	""	95	"89"	6	54	"54"	0	"CLCN4,intron_variant,,ENST00000380833,NM_001830.3,NM_001256944.1;CLCN4,intron_variant,,ENST00000380829,;CLCN4,intron_variant,,ENST00000421085,;"	"T"	"ENSG00000073464"	"ENST00000380833"	"Transcript"	"intron_variant"	"-/6750"	"-/2283"	"-/760"	""	""	""	"1"	NA	1	"CLCN4"	"HGNC"	2022	"protein_coding"	"YES"	"CCDS14137.1"	"ENSP00000370213"	"P51793"	"Q75N13,B7Z5Z4"	"UPI0000127A99"	"NM_001830.3,NM_001256944.1"	""	""	""	"12/12"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"123e148e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0631578947368421	"WGS"	FALSE
"9953"	"FRMPD4"	9758	"mskcc.org"	"GRCh37"	"X"	12164257	12164257	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.41+7126C>T"	""	""	"ENST00000380682"	""	105	"85"	20	63	"63"	0	"FRMPD4,intron_variant,,ENST00000380682,NM_014728.3;AC002981.1,downstream_gene_variant,,ENST00000516302,;Y_RNA,upstream_gene_variant,,ENST00000384068,;"	"T"	"ENSG00000169933"	"ENST00000380682"	"Transcript"	"intron_variant"	"-/8465"	"-/3969"	"-/1322"	""	""	""	"1"	NA	1	"FRMPD4"	"HGNC"	29007	"protein_coding"	"YES"	"CCDS35201.1"	"ENSP00000370057"	"Q14CM0"	""	"UPI00001C2066"	"NM_014728.3"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"123e5034-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"9954"	"GPM6B"	2824	"mskcc.org"	"GRCh37"	"X"	13934383	13934383	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4+22243G>T"	""	""	"ENST00000454189"	""	105	"82"	23	54	"54"	0	"GPM6B,intron_variant,,ENST00000454189,NM_001001994.1;GPM6B,intron_variant,,ENST00000398361,;"	"A"	"ENSG00000046653"	"ENST00000454189"	"Transcript"	"intron_variant"	"-/3957"	"-/741"	"-/246"	""	""	""	"1"	NA	-1	"GPM6B"	"HGNC"	4461	"protein_coding"	""	"CCDS48084.1"	"ENSP00000389915"	"Q13491"	"C9JZE8,C9J8H8,B7Z248"	"UPI000002AD86"	"NM_001001994.1"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"123e979c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219047619047619	"WGS"	FALSE
"9955"	"ASB9"	140462	"mskcc.org"	"GRCh37"	"X"	15285487	15285487	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.94+2416C>A"	""	""	"ENST00000380488"	""	62	"56"	6	37	"37"	0	"ASB9,intron_variant,,ENST00000546332,NM_001168531.1;ASB9,intron_variant,,ENST00000380488,NM_001031739.2;ASB9,intron_variant,,ENST00000380485,NM_024087.2;ASB9,intron_variant,,ENST00000380483,NM_001168530.1;ASB9,intron_variant,,ENST00000473862,;ASB9,intron_variant,,ENST00000470015,;"	"T"	"ENSG00000102048"	"ENST00000380488"	"Transcript"	"intron_variant"	"-/1678"	"-/885"	"-/294"	""	""	""	"1"	NA	-1	"ASB9"	"HGNC"	17184	"protein_coding"	"YES"	"CCDS35208.1"	"ENSP00000369855"	"Q96DX5"	""	"UPI00001260ED"	"NM_001031739.2"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"123ec69a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"9956"	"CA5B"	11238	"mskcc.org"	"GRCh37"	"X"	15750838	15750838	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-134+11123T>C"	""	""	"ENST00000498004"	""	101	"80"	21	54	"54"	0	"CA5B,intron_variant,,ENST00000498004,;"	"C"	"ENSG00000169239"	"ENST00000498004"	"Transcript"	"intron_variant"	"-/488"	"-/230"	"-/76"	""	""	""	"1"	NA	1	"CA5B"	"HGNC"	1378	"protein_coding"	""	""	"ENSP00000418622"	""	"C9IZP3"	"UPI0001B79183"	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"123ee0b2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207920792079208	"WGS"	FALSE
"9957"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	16537084	16537084	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"79"	7	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"123eff02-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0813953488372093	"WGS"	FALSE
"9958"	"SYAP1"	94056	"mskcc.org"	"GRCh37"	"X"	16776327	16776327	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.931+895A>T"	""	""	"ENST00000380155"	""	91	"85"	6	46	"46"	0	"SYAP1,intron_variant,,ENST00000380155,NM_032796.3;"	"T"	"ENSG00000169895"	"ENST00000380155"	"Transcript"	"intron_variant"	"-/6129"	"-/1059"	"-/352"	""	""	""	"1"	NA	1	"SYAP1"	"HGNC"	16273	"protein_coding"	"YES"	"CCDS14177.1"	"ENSP00000369500"	"Q96A49"	"B4DHY7"	"UPI000006E658"	"NM_032796.3"	""	""	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"123f228e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"9959"	"TXLNG"	55787	"mskcc.org"	"GRCh37"	"X"	16802328	16802328	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000380122"	""	58	"52"	6	25	"25"	0	"TXLNG,upstream_gene_variant,,ENST00000380122,NM_018360.2;TXLNG,upstream_gene_variant,,ENST00000398155,NM_001168683.1;"	"A"	"ENSG00000086712"	"ENST00000380122"	"Transcript"	"upstream_gene_variant"	"-/4401"	"-/1587"	"-/528"	""	""	""	"1"	"2222"	1	"TXLNG"	"HGNC"	18578	"protein_coding"	"YES"	"CCDS14178.1"	"ENSP00000369465"	"Q9NUQ3"	""	"UPI00001AE847"	"NM_018360.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"123f25c2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"9960"	"PHKA2"	5256	"mskcc.org"	"GRCh37"	"X"	18971331	18971331	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.238-672G>T"	""	""	"ENST00000379942"	""	80	"68"	12	56	"56"	0	"PHKA2,intron_variant,,ENST00000379942,NM_000292.2;"	"A"	"ENSG00000044446"	"ENST00000379942"	"Transcript"	"intron_variant"	"-/5559"	"-/3708"	"-/1235"	""	""	""	"1"	NA	-1	"PHKA2"	"HGNC"	8926	"protein_coding"	"YES"	"CCDS14190.1"	"ENSP00000369274"	"P46019"	""	"UPI000012DF4B"	"NM_000292.2"	""	""	""	"2/32"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"123f9070-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WGS"	FALSE
"9961"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	19162695	19162695	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"70"	7	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"123f9b24-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"9962"	"RPS6KA3"	6197	"mskcc.org"	"GRCh37"	"X"	20192428	20192428	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1227+854G>C"	""	""	"ENST00000379565"	""	99	"75"	24	56	"55"	1	"RPS6KA3,intron_variant,,ENST00000379565,NM_004586.2;RPS6KA3,intron_variant,,ENST00000544447,;RPS6KA3,intron_variant,,ENST00000540702,;RPS6KA3,intron_variant,,ENST00000379548,;RPS6KA3,upstream_gene_variant,,ENST00000479809,;"	"G"	"ENSG00000177189"	"ENST00000379565"	"Transcript"	"intron_variant"	"-/7918"	"-/2223"	"-/740"	""	""	""	"1"	NA	-1	"RPS6KA3"	"HGNC"	10432	"protein_coding"	"YES"	"CCDS14197.1"	"ENSP00000368884"	"P51812"	"Q7Z2J4,Q7Z2J3,B7ZB17,B1AXG2"	"UPI000012DB2E"	"NM_004586.2"	""	""	""	"14/21"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"123fd7b0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242424242424242	"WGS"	FALSE
"9963"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	20664786	20664786	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"75"	14	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"123fe782-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157303370786517	"WGS"	FALSE
"9964"	"ZNF645"	158506	"mskcc.org"	"GRCh37"	"X"	22291225	22291225	"+"	"Silent"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.117G>A"	"p.="	"p.G39G"	"ENST00000323684"	"1/1"	94	"80"	14	54	"54"	0	"ZNF645,synonymous_variant,p.=,ENST00000323684,NM_152577.3;RP11-40F8.2,intron_variant,,ENST00000608254,;"	"A"	"ENSG00000175809"	"ENST00000323684"	"Transcript"	"synonymous_variant"	"161/1510"	"117/1278"	"39/425"	"G"	"ggG/ggA"	""	"1"	NA	1	"ZNF645"	"HGNC"	26371	"protein_coding"	"YES"	"CCDS14205.1"	"ENSP00000323348"	"Q8N7E2"	""	"UPI0000073BD5"	"NM_152577.3"	""	""	"1/1"	""	"hmmpanther:PTHR13480,hmmpanther:PTHR13480:SF1"	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"12401f40-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.148936170212766	"WGS"	FALSE
"9965"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	23551510	23551510	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"79"	24	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"1240472c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233009708737864	"WGS"	FALSE
"9966"	"PRDX4"	10549	"mskcc.org"	"GRCh37"	"X"	23698048	23698048	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.599+644G>C"	""	""	"ENST00000379341"	""	89	"81"	8	64	"64"	0	"PRDX4,intron_variant,,ENST00000379341,NM_006406.1;PRDX4,intron_variant,,ENST00000439422,;PRDX4,downstream_gene_variant,,ENST00000379331,;PRDX4,downstream_gene_variant,,ENST00000379349,;PRDX4,downstream_gene_variant,,ENST00000495599,;"	"C"	"ENSG00000123131"	"ENST00000379341"	"Transcript"	"intron_variant"	"-/1005"	"-/816"	"-/271"	""	""	""	"1"	NA	1	"PRDX4"	"HGNC"	17169	"protein_coding"	"YES"	"CCDS14206.1"	"ENSP00000368646"	"Q13162"	""	"UPI00001314E8"	"NM_006406.1"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"124050b4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"9967"	"SAT1"	6303	"mskcc.org"	"GRCh37"	"X"	23796915	23796915	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000379270"	""	73	"67"	6	33	"33"	0	"SAT1,upstream_gene_variant,,ENST00000379270,NM_002970.2;SAT1,upstream_gene_variant,,ENST00000379253,;SAT1,upstream_gene_variant,,ENST00000379254,;SAT1,upstream_gene_variant,,ENST00000379251,;RP13-314C10.5,intron_variant,,ENST00000366134,;Y_RNA,upstream_gene_variant,,ENST00000365402,;SAT1,upstream_gene_variant,,ENST00000489394,;SAT1,upstream_gene_variant,,ENST00000463236,;SAT1,upstream_gene_variant,,ENST00000487713,;"	"A"	"ENSG00000130066"	"ENST00000379270"	"Transcript"	"upstream_gene_variant"	"-/1065"	"-/516"	"-/171"	""	""	""	"1"	"4375"	1	"SAT1"	"HGNC"	10540	"protein_coding"	"YES"	"CCDS14207.1"	"ENSP00000368572"	"P21673"	"Q6ICU9,A2VED4"	"UPI000012621E"	"NM_002970.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"12405e92-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"9968"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	23839943	23839943	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"72"	7	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"12406662-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"9969"	"EIF2S3"	1968	"mskcc.org"	"GRCh37"	"X"	24072665	24072665	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000253039"	""	66	"61"	5	64	"64"	0	"EIF2S3,upstream_gene_variant,,ENST00000253039,NM_001415.3;EIF2S3,upstream_gene_variant,,ENST00000423068,;EIF2S3,upstream_gene_variant,,ENST00000487075,;"	"G"	"ENSG00000130741"	"ENST00000253039"	"Transcript"	"upstream_gene_variant"	"-/2858"	"-/1419"	"-/472"	""	""	""	"1"	"168"	1	"EIF2S3"	"HGNC"	3267	"protein_coding"	"YES"	"CCDS14210.1"	"ENSP00000253039"	"P41091"	""	"UPI0000163BD6"	"NM_001415.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"124082e6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0757575757575758	"WGS"	FALSE
"9970"	"POLA1"	5422	"mskcc.org"	"GRCh37"	"X"	24904807	24904807	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4030-1316C>A"	""	""	"ENST00000379059"	""	86	"65"	21	46	"46"	0	"POLA1,intron_variant,,ENST00000379068,;POLA1,intron_variant,,ENST00000379059,NM_016937.3;"	"A"	"ENSG00000101868"	"ENST00000379059"	"Transcript"	"intron_variant"	"-/5440"	"-/4389"	"-/1462"	""	""	""	"1"	NA	1	"POLA1"	"HGNC"	9173	"protein_coding"	"YES"	"CCDS14214.1"	"ENSP00000368349"	"P09884"	""	"UPI000014D383"	"NM_016937.3"	""	""	""	"34/36"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"1240b310-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244186046511628	"WGS"	FALSE
"9971"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	25924024	25924024	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"47"	4	58	"58"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"1240dc3c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0784313725490196	"WGS"	FALSE
"9972"	"DCAF8L2"	347442	"mskcc.org"	"GRCh37"	"X"	27660224	27660224	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-220+10107A>C"	""	""	"ENST00000451261"	""	83	"74"	9	41	"41"	0	"DCAF8L2,intron_variant,,ENST00000451261,NM_001136533.1;DCAF8L2,intron_variant,,ENST00000431122,;DCAF8L2,intron_variant,,ENST00000583068,;DCAF8L2,intron_variant,,ENST00000578111,;"	"C"	"ENSG00000189186"	"ENST00000451261"	"Transcript"	"intron_variant"	"-/2295"	"-/1896"	"-/631"	""	""	""	"1"	NA	1	"DCAF8L2"	"HGNC"	31811	"protein_coding"	"YES"	"CCDS59162.1"	"ENSP00000462745"	"P0C7V8"	"J3QRI4"	"UPI000183CBD9"	"NM_001136533.1"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"124126b0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108433734939759	"WGS"	FALSE
"9973"	"DCAF8L2"	347442	"mskcc.org"	"GRCh37"	"X"	27660234	27660234	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-220+10117T>A"	""	""	"ENST00000451261"	""	92	"84"	8	42	"42"	0	"DCAF8L2,intron_variant,,ENST00000451261,NM_001136533.1;DCAF8L2,intron_variant,,ENST00000431122,;DCAF8L2,intron_variant,,ENST00000583068,;DCAF8L2,intron_variant,,ENST00000578111,;"	"A"	"ENSG00000189186"	"ENST00000451261"	"Transcript"	"intron_variant"	"-/2295"	"-/1896"	"-/631"	""	""	""	"1"	NA	1	"DCAF8L2"	"HGNC"	31811	"protein_coding"	"YES"	"CCDS59162.1"	"ENSP00000462745"	"P0C7V8"	"J3QRI4"	"UPI000183CBD9"	"NM_001136533.1"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"1241275a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"9974"	"DCAF8L2"	347442	"mskcc.org"	"GRCh37"	"X"	27700938	27700938	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-143+4909C>G"	""	""	"ENST00000451261"	""	88	"75"	13	51	"51"	0	"DCAF8L2,intron_variant,,ENST00000451261,NM_001136533.1;DCAF8L2,intron_variant,,ENST00000431122,;DCAF8L2,intron_variant,,ENST00000583068,;DCAF8L2,intron_variant,,ENST00000578111,;"	"G"	"ENSG00000189186"	"ENST00000451261"	"Transcript"	"intron_variant"	"-/2295"	"-/1896"	"-/631"	""	""	""	"1"	NA	1	"DCAF8L2"	"HGNC"	31811	"protein_coding"	"YES"	"CCDS59162.1"	"ENSP00000462745"	"P0C7V8"	"J3QRI4"	"UPI000183CBD9"	"NM_001136533.1"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"1241296c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147727272727273	"WGS"	FALSE
"9975"	"GK"	2710	"mskcc.org"	"GRCh37"	"X"	30702651	30702651	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs780490561"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.338-6589C>T"	""	""	"ENST00000378943"	""	94	"75"	19	46	"46"	0	"GK,intron_variant,,ENST00000378943,NM_001128127.2;GK,intron_variant,,ENST00000378946,NM_203391.3,NM_001205019.1,NM_000167.5;GK,intron_variant,,ENST00000427190,;GK,intron_variant,,ENST00000378945,;GK,upstream_gene_variant,,ENST00000425166,;GK,intron_variant,,ENST00000481024,;GK,intron_variant,,ENST00000479048,;GK,intron_variant,,ENST00000487652,;GK,intron_variant,,ENST00000471362,;GK,upstream_gene_variant,,ENST00000488296,;"	"T"	"ENSG00000198814"	"ENST00000378943"	"Transcript"	"intron_variant"	"-/3707"	"-/1662"	"-/553"	""	""	"rs780490561"	"1"	NA	1	"GK"	"HGNC"	4289	"protein_coding"	"YES"	"CCDS48090.1"	"ENSP00000368226"	"P32189"	""	"UPI000002AA89"	"NM_001128127.2"	""	""	""	"4/19"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"1241a5a4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202127659574468	"WGS"	FALSE
"9976"	"DMD"	1756	"mskcc.org"	"GRCh37"	"X"	32995949	32995949	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.93+42307G>T"	""	""	"ENST00000357033"	""	93	"73"	20	48	"48"	0	"DMD,intron_variant,,ENST00000357033,NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000378677,NM_004009.3,NM_004010.3,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000288447,;DMD,intron_variant,,ENST00000420596,;DMD,intron_variant,,ENST00000448370,;DMD,intron_variant,,ENST00000488902,;DMD,intron_variant,,ENST00000472681,;"	"A"	"ENSG00000198947"	"ENST00000357033"	"Transcript"	"intron_variant"	"-/13956"	"-/11058"	"-/3685"	""	""	""	"1"	NA	-1	"DMD"	"HGNC"	2928	"protein_coding"	"YES"	"CCDS14233.1"	"ENSP00000354923"	""	"Q9UPB5,Q9UPB4,Q9UMK8,Q9UMK7,Q9UMG1,Q9UME2,Q9UEH4,Q8WYF6,Q8WYF5,Q8WYF4,Q8WYF3,Q8WYF2,Q8WYF1,Q8WYF0,Q8WYE9,Q8WYE8,Q8WYE7,Q8WYE6,Q8WYE5,Q8WYE4,Q8WYE3,Q8WYE2,Q8WYE1,Q8WYD9,Q8WYD8,Q8WYD7,Q8WYD6,Q8WYD5,Q8WYD4,Q8WYD3,Q8WYD2,Q8WYD1,Q8WYD0,Q8WYC9,Q8WYC8,Q8WYC7,Q8WYC6,Q8WYC5,Q8WYC4,Q8WYC3,Q8WYC2,Q8WYC1,Q8WYC0,Q8WYB9,Q8WYB8,Q8WTQ2,Q7KZ40,Q7KYP7,Q548X2,Q14205,F2WSI7,E7EQS5"	"UPI000049E111"	"NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3"	""	""	""	"2/78"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"12421c3c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21505376344086	"WGS"	FALSE
"9977"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	34918861	34918861	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"84"	36	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"12424cac-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"9978"	"CXorf30"	645090	"mskcc.org"	"GRCh37"	"X"	36286525	36286525	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-218-12077A>T"	""	""	"ENST00000378657"	""	78	"67"	11	71	"71"	0	"CXorf30,intron_variant,,ENST00000378657,NM_001098843.4;CXorf30,intron_variant,,ENST00000378653,;"	"T"	"ENSG00000205081"	"ENST00000378657"	"Transcript"	"intron_variant"	"-/2860"	"-/1902"	"-/633"	""	""	""	"1"	NA	1	"CXorf30"	"HGNC"	27298	"protein_coding"	"YES"	"CCDS55396.1"	"ENSP00000367926"	"A6PW82"	""	"UPI0001642840"	"NM_001098843.4"	""	""	""	"3/17"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"1242740c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141025641025641	"WGS"	FALSE
"9979"	"OTC"	5009	"mskcc.org"	"GRCh37"	"X"	38231560	38231560	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.298+2430A>T"	""	""	"ENST00000039007"	""	100	"83"	17	55	"55"	0	"OTC,intron_variant,,ENST00000039007,NM_000531.5;TM4SF2,intron_variant,,ENST00000465127,;OTC,intron_variant,,ENST00000488812,;"	"T"	"ENSG00000036473"	"ENST00000039007"	"Transcript"	"intron_variant"	"-/1585"	"-/1065"	"-/354"	""	""	""	"1"	NA	1	"OTC"	"HGNC"	8512	"protein_coding"	"YES"	"CCDS14247.1"	"ENSP00000039007"	"P00480"	""	"UPI000013C550"	"NM_000531.5"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"1242bfd4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.17	"WGS"	FALSE
"9980"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	40721880	40721880	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"rs780543496"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"28"	10	14	"14"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs780543496"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0215"	"A:0.0567"	"A:0.0086"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"12435098-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"9981"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	44671160	44671160	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"49"	20	39	"39"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"124415a0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289855072463768	"WGS"	FALSE
"9982"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	47402718	47402718	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs758314716"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"80"	7	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs758314716"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"G:0.0016"	"G:0.0045"	"G:0"	NA	"G:0"	"G:0"	"G:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"1244cd9c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"9983"	"CXXC1P1"	392459	"mskcc.org"	"GRCh37"	"X"	47578879	47578879	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.196-4047T>A"	""	""	"ENST00000483225"	""	87	"82"	5	53	"53"	0	"CXXC1P1,intron_variant,,ENST00000483225,;CXXC1P1,intron_variant,,ENST00000589302,;CXXC1P1,upstream_gene_variant,,ENST00000489409,;RP1-212G6.4,upstream_gene_variant,,ENST00000436365,;"	"A"	"ENSG00000187893"	"ENST00000483225"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1897"	""	""	""	""	""	"1"	NA	1	"CXXC1P1"	"HGNC"	27864	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"1244d85a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0574712643678161	"WGS"	FALSE
"9984"	"SSXP3"	0	"mskcc.org"	"GRCh37"	"X"	48029191	48029191	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000442971"	""	90	"77"	13	53	"53"	0	"SSXP3,downstream_gene_variant,,ENST00000442971,;"	"T"	"ENSG00000225198"	"ENST00000442971"	"Transcript"	"downstream_gene_variant"	"-/1300"	""	""	""	""	""	"1"	"3413"	1	"SSXP3"	"HGNC"	30640	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"1244f97a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.144444444444444	"WGS"	FALSE
"9985"	"TBC1D25"	4943	"mskcc.org"	"GRCh37"	"X"	48412367	48412367	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.389-4918G>A"	""	""	"ENST00000376771"	""	77	"68"	9	40	"40"	0	"TBC1D25,intron_variant,,ENST00000376771,NM_002536.2;TBC1D25,intron_variant,,ENST00000537536,;TBC1D25,intron_variant,,ENST00000418627,;TBC1D25,intron_variant,,ENST00000476141,;TBC1D25,intron_variant,,ENST00000494495,;TBC1D25,intron_variant,,ENST00000481090,;"	"A"	"ENSG00000068354"	"ENST00000376771"	"Transcript"	"intron_variant"	"-/4042"	"-/2067"	"-/688"	""	""	""	"1"	NA	1	"TBC1D25"	"HGNC"	8092	"protein_coding"	"YES"	"CCDS35242.1"	"ENSP00000365962"	"Q3MII6"	"B4DF03,B4DE92"	"UPI0000160685"	"NM_002536.2"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"1245175c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116883116883117	"WGS"	FALSE
"9986"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	48469396	48469396	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"71"	7	41	"41"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"1245218e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"9987"	"OTUD5"	55593	"mskcc.org"	"GRCh37"	"X"	48789357	48789357	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1074+2380T>C"	""	""	"ENST00000156084"	""	92	"82"	10	31	"31"	0	"OTUD5,intron_variant,,ENST00000156084,NM_017602.3;OTUD5,intron_variant,,ENST00000376488,;OTUD5,intron_variant,,ENST00000396743,NM_001136157.1,NM_001136158.1;OTUD5,intron_variant,,ENST00000455452,;OTUD5,intron_variant,,ENST00000428668,NM_001136159.1;OTUD5,intron_variant,,ENST00000484499,;OTUD5,downstream_gene_variant,,ENST00000481142,;"	"G"	"ENSG00000068308"	"ENST00000156084"	"Transcript"	"intron_variant"	"-/2740"	"-/1716"	"-/571"	""	""	""	"1"	NA	-1	"OTUD5"	"HGNC"	25402	"protein_coding"	"YES"	"CCDS14313.1"	"ENSP00000156084"	"Q96G74"	"H7BZQ3"	"UPI000006ED2A"	"NM_017602.3"	""	""	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"12453840-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108695652173913	"WGS"	FALSE
"9988"	"GRIPAP1"	56850	"mskcc.org"	"GRCh37"	"X"	48841296	48841296	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1176+385T>C"	""	""	"ENST00000376441"	""	75	"64"	11	36	"36"	0	"GRIPAP1,intron_variant,,ENST00000376423,NM_207672.1;GRIPAP1,intron_variant,,ENST00000376441,NM_020137.3;GRIPAP1,intron_variant,,ENST00000376425,;GRIPAP1,intron_variant,,ENST00000376444,;GRIPAP1,intron_variant,,ENST00000473581,;GRIPAP1,intron_variant,,ENST00000474512,;GRIPAP1,upstream_gene_variant,,ENST00000488361,;"	"G"	"ENSG00000068400"	"ENST00000376441"	"Transcript"	"intron_variant"	"-/3032"	"-/2526"	"-/841"	""	""	""	"1"	NA	-1	"GRIPAP1"	"HGNC"	18706	"protein_coding"	"YES"	"CCDS35248.1"	"ENSP00000365624"	"Q4V328"	""	"UPI000035AC76"	"NM_020137.3"	""	""	""	"14/25"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"12453d54-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146666666666667	"WGS"	FALSE
"9989"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	53527395	53527395	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"80"	11	44	"44"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"124634c0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120879120879121	"WGS"	FALSE
"9990"	"PAGE2B"	389860	"mskcc.org"	"GRCh37"	"X"	55108219	55108219	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000374971"	""	110	"87"	23	48	"48"	0	"PAGE2B,downstream_gene_variant,,ENST00000374971,NM_001015038.2;PAGE2B,downstream_gene_variant,,ENST00000374974,;"	"A"	"ENSG00000238269"	"ENST00000374971"	"Transcript"	"downstream_gene_variant"	"-/493"	"-/336"	"-/111"	""	""	""	"1"	"2883"	1	"PAGE2B"	"HGNC"	31805	"protein_coding"	"YES"	"CCDS35304.1"	"ENSP00000364110"	"Q5JRK9"	""	"UPI0000040ABA"	"NM_001015038.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"1246960e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209090909090909	"WGS"	FALSE
"9991"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	55636704	55636704	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"66"	14	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"1246a64e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175	"WGS"	FALSE
"9992"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	57988548	57988548	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"73"	22	60	"59"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"1246eb54-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231578947368421	"WGS"	FALSE
"9993"	"ZC4H2"	55906	"mskcc.org"	"GRCh37"	"X"	64223345	64223345	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-272+31164T>G"	""	""	"ENST00000337990"	""	121	"95"	26	79	"79"	0	"ZC4H2,intron_variant,,ENST00000337990,NM_001178032.2,NM_001243804.1;ZC4H2,intron_variant,,ENST00000488831,;"	"C"	"ENSG00000126970"	"ENST00000337990"	"Transcript"	"intron_variant"	"-/2363"	"-/606"	"-/201"	""	""	""	"1"	NA	-1	"ZC4H2"	"HGNC"	24931	"protein_coding"	""	"CCDS55431.1"	"ENSP00000338650"	"Q9NQZ6"	""	"UPI0000072A6A"	"NM_001178032.2,NM_001243804.1"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"1248ab88-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214876033057851	"WGS"	FALSE
"9994"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	66235580	66235580	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"107"	6	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"1248dd1a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0530973451327434	"WGS"	FALSE
"9995"	"TEX11"	56159	"mskcc.org"	"GRCh37"	"X"	69879116	69879116	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1426-7714G>T"	""	""	"ENST00000395889"	""	104	"82"	22	58	"58"	0	"TEX11,intron_variant,,ENST00000395889,NM_001003811.1;TEX11,intron_variant,,ENST00000374333,NM_031276.2;TEX11,intron_variant,,ENST00000344304,;TEX11,intron_variant,,ENST00000374320,;"	"A"	"ENSG00000120498"	"ENST00000395889"	"Transcript"	"intron_variant"	"-/3133"	"-/2823"	"-/940"	""	""	""	"1"	NA	-1	"TEX11"	"HGNC"	11733	"protein_coding"	"YES"	"CCDS35323.1"	"ENSP00000379226"	"Q8IYF3"	""	"UPI000013CA89"	"NM_001003811.1"	""	""	""	"17/30"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"124985e4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211538461538462	"WGS"	FALSE
"9996"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	72235773	72235773	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"86"	11	47	"47"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"124a2594-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.11340206185567	"WGS"	FALSE
"9997"	"RLIM"	51132	"mskcc.org"	"GRCh37"	"X"	73811181	73811181	"+"	"3'UTR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*94G>A"	""	""	"ENST00000332687"	"4/4"	97	"74"	23	44	"44"	0	"RLIM,3_prime_UTR_variant,,ENST00000332687,NM_016120.3;RLIM,3_prime_UTR_variant,,ENST00000349225,NM_183353.2;"	"T"	"ENSG00000131263"	"ENST00000332687"	"Transcript"	"3_prime_UTR_variant"	"2188/8317"	"-/1875"	"-/624"	""	""	""	"1"	NA	-1	"RLIM"	"HGNC"	13429	"protein_coding"	"YES"	"CCDS14427.1"	"ENSP00000328059"	"Q9NVW2"	""	"UPI000006FD6A"	"NM_016120.3"	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"124a7f76-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.237113402061856	"WGS"	FALSE
"9998"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	74251899	74251899	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"80"	21	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"124a9114-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207920792079208	"WGS"	FALSE
"9999"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	74911104	74911104	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"78"	25	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"124ab220-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242718446601942	"WGS"	FALSE
"10000"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	75414089	75414089	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"78"	19	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"124abee6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195876288659794	"WGS"	FALSE
"10001"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	75418643	75418643	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"76"	21	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"124abf86-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216494845360825	"WGS"	FALSE
"10002"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	75483414	75483414	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"78"	18	63	"63"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"124ac45e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
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"10004"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	79795665	79795665	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"69"	10	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"124b5e46-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126582278481013	"WGS"	FALSE
"10005"	"RPL22P22"	0	"mskcc.org"	"GRCh37"	"X"	81760785	81760785	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000395439"	""	87	"80"	7	43	"43"	0	"RPL22P22,downstream_gene_variant,,ENST00000395439,;"	"A"	"ENSG00000213653"	"ENST00000395439"	"Transcript"	"downstream_gene_variant"	"-/379"	""	""	""	""	""	"1"	"1098"	-1	"RPL22P22"	"HGNC"	36109	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"124b8894-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"10006"	"UBE2DNL"	100131816	"mskcc.org"	"GRCh37"	"X"	84193093	84193093	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000602536"	""	102	"75"	27	58	"58"	0	"UBE2DNL,downstream_gene_variant,,ENST00000602536,;UBE2DNL,downstream_gene_variant,,ENST00000451386,;UBE2DNL,downstream_gene_variant,,ENST00000442533,;UBE2DNL,downstream_gene_variant,,ENST00000474922,;"	"G"	"ENSG00000229547"	"ENST00000602536"	"Transcript"	"downstream_gene_variant"	"-/740"	""	""	""	""	""	"1"	"3197"	1	"UBE2DNL"	"HGNC"	28656	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"124bcf5c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264705882352941	"WGS"	FALSE
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"10008"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	89320776	89320776	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"89"	8	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"124ccd3a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0824742268041237	"WGS"	FALSE
"10009"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	89340758	89340758	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"68"	7	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"124ccf24-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0933333333333333	"WGS"	FALSE
"10010"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	93698938	93698938	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"67"	20	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"124d5eee-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229885057471264	"WGS"	FALSE
"10011"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	94523972	94523972	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"88"	6	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"124d78f2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"10012"	"DIAPH2-AS1"	0	"mskcc.org"	"GRCh37"	"X"	96899266	96899266	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000542084"	""	109	"83"	26	57	"57"	0	"DIAPH2-AS1,upstream_gene_variant,,ENST00000542084,;"	"C"	"ENSG00000236256"	"ENST00000542084"	"Transcript"	"upstream_gene_variant"	"-/450"	""	""	""	""	""	"1"	"1678"	-1	"DIAPH2-AS1"	"HGNC"	16972	"antisense"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"124de102-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238532110091743	"WGS"	FALSE
"10013"	"DIAPH2-AS1"	0	"mskcc.org"	"GRCh37"	"X"	96899267	96899267	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000542084"	""	108	"82"	26	57	"57"	0	"DIAPH2-AS1,upstream_gene_variant,,ENST00000542084,;"	"T"	"ENSG00000236256"	"ENST00000542084"	"Transcript"	"upstream_gene_variant"	"-/450"	""	""	""	""	""	"1"	"1679"	-1	"DIAPH2-AS1"	"HGNC"	16972	"antisense"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"124de1a2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240740740740741	"WGS"	FALSE
"10014"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	97424394	97424394	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"77"	14	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"124def4e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"10015"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	99125893	99125893	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"74"	14	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"124e14e2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.159090909090909	"WGS"	FALSE
"10016"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	99708806	99708806	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"69"	27	61	"61"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"124e2dba-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28125	"WGS"	FALSE
"10017"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	102367165	102367165	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"86"	10	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"124ec87e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104166666666667	"WGS"	FALSE
"10018"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	105267329	105267329	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"71"	15	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"124f2ed6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174418604651163	"WGS"	FALSE
"10019"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	105343666	105343666	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"71"	8	52	"52"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"124f34d0-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10126582278481	"WGS"	FALSE
"10020"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	105350334	105350334	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"67"	22	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"124f3570-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247191011235955	"WGS"	FALSE
"10021"	"VSIG1"	340547	"mskcc.org"	"GRCh37"	"X"	107293831	107293831	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.49+5422T>A"	""	""	"ENST00000415430"	""	101	"85"	16	63	"63"	0	"VSIG1,intron_variant,,ENST00000415430,NM_001170553.1;VSIG1,intron_variant,,ENST00000217957,NM_182607.4;VSIG1,intron_variant,,ENST00000458383,;"	"A"	"ENSG00000101842"	"ENST00000415430"	"Transcript"	"intron_variant"	"-/3236"	"-/1272"	"-/423"	""	""	""	"1"	NA	1	"VSIG1"	"HGNC"	28675	"protein_coding"	"YES"	"CCDS55474.1"	"ENSP00000402219"	"Q86XK7"	"C9JY48"	"UPI00017A7E2F"	"NM_001170553.1"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"124f82dc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.158415841584158	"WGS"	FALSE
"10022"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	110781450	110781450	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"72"	23	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"124ffcf8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242105263157895	"WGS"	FALSE
"10023"	"TRPC5"	7224	"mskcc.org"	"GRCh37"	"X"	111121076	111121076	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.901-23742G>A"	""	""	"ENST00000262839"	""	87	"69"	18	56	"56"	0	"TRPC5,intron_variant,,ENST00000262839,NM_012471.2;TRPC5OS,upstream_gene_variant,,ENST00000371970,;"	"T"	"ENSG00000072315"	"ENST00000262839"	"Transcript"	"intron_variant"	"-/5839"	"-/2922"	"-/973"	""	""	""	"1"	NA	-1	"TRPC5"	"HGNC"	12337	"protein_coding"	"YES"	"CCDS14561.1"	"ENSP00000262839"	"Q9UL62"	""	"UPI00001374B6"	"NM_012471.2"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"12500ba8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206896551724138	"WGS"	FALSE
"10024"	"TRPC5"	7224	"mskcc.org"	"GRCh37"	"X"	111216218	111216218	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-21-20549T>C"	""	""	"ENST00000262839"	""	101	"69"	32	60	"60"	0	"TRPC5,intron_variant,,ENST00000262839,NM_012471.2;"	"G"	"ENSG00000072315"	"ENST00000262839"	"Transcript"	"intron_variant"	"-/5839"	"-/2922"	"-/973"	""	""	""	"1"	NA	-1	"TRPC5"	"HGNC"	12337	"protein_coding"	"YES"	"CCDS14561.1"	"ENSP00000262839"	"Q9UL62"	""	"UPI00001374B6"	"NM_012471.2"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"12500ed2-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316831683168317	"WGS"	FALSE
"10025"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	111355307	111355307	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"99"	19	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"12501166-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161016949152542	"WGS"	FALSE
"10026"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	111953480	111953480	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"16"	3	14	"14"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"12502dcc-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"10027"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	111953481	111953481	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	20	"17"	3	14	"14"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"12502e6c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WGS"	FALSE
"10028"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	111953496	111953496	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"15"	3	13	"13"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"12502fb6-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"10029"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	112613925	112613925	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"88"	16	54	"54"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"12504ec4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"10030"	"RP5-964N17.1"	0	"mskcc.org"	"GRCh37"	"X"	113186052	113186052	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000468762"	""	89	"63"	26	46	"46"	0	"RP5-964N17.1,upstream_gene_variant,,ENST00000468762,;U3,downstream_gene_variant,,ENST00000364804,;"	"A"	"ENSG00000241743"	"ENST00000468762"	"Transcript"	"upstream_gene_variant"	"-/497"	""	""	""	""	""	"1"	"4546"	-1	"RP5-964N17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"12506260-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292134831460674	"WGS"	FALSE
"10031"	"HTR2C"	3358	"mskcc.org"	"GRCh37"	"X"	113898155	113898155	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-80+49816A>T"	""	""	"ENST00000276198"	""	73	"66"	7	50	"50"	0	"HTR2C,intron_variant,,ENST00000276198,NM_000868.2;HTR2C,intron_variant,,ENST00000371950,NM_001256761.1;HTR2C,intron_variant,,ENST00000371951,NM_001256760.1;"	"T"	"ENSG00000147246"	"ENST00000276198"	"Transcript"	"intron_variant"	"-/4751"	"-/1377"	"-/458"	""	""	""	"1"	NA	1	"HTR2C"	"HGNC"	5295	"protein_coding"	"YES"	"CCDS14564.1"	"ENSP00000276198"	"P28335"	"B3VRF0,B3VRE5,B3VRE0"	"UPI000000126F"	"NM_000868.2"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"12508736-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"10032"	"LRCH2"	57631	"mskcc.org"	"GRCh37"	"X"	114346503	114346503	"+"	"3'UTR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1276A>G"	""	""	"ENST00000317135"	"21/21"	94	"82"	12	42	"42"	0	"LRCH2,3_prime_UTR_variant,,ENST00000317135,NM_020871.3;LRCH2,3_prime_UTR_variant,,ENST00000538422,NM_001243963.1;"	"C"	"ENSG00000130224"	"ENST00000317135"	"Transcript"	"3_prime_UTR_variant"	"3605/4923"	"-/2298"	"-/765"	""	""	""	"1"	NA	-1	"LRCH2"	"HGNC"	29292	"protein_coding"	"YES"	"CCDS48155.1"	"ENSP00000325091"	"Q5VUJ6"	""	"UPI000022DB30"	"NM_020871.3"	""	""	"21/21"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"12509686-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127659574468085	"WGS"	FALSE
"10033"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	116438856	116438856	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"58"	16	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"125106e8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216216216216216	"WGS"	FALSE
"10034"	"SEPT6"	23157	"mskcc.org"	"GRCh37"	"X"	118749974	118749974	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000343984"	""	91	"84"	7	53	"53"	0	"SEPT6,3_prime_UTR_variant,,ENST00000360156,NM_145802.3,NM_145800.3;SEPT6,downstream_gene_variant,,ENST00000394610,NM_145799.3;SEPT6,downstream_gene_variant,,ENST00000354416,;SEPT6,downstream_gene_variant,,ENST00000343984,NM_015129.5;SEPT6,downstream_gene_variant,,ENST00000489216,;SEPT6,downstream_gene_variant,,ENST00000354228,;SEPT6,downstream_gene_variant,,ENST00000467310,;SEPT6,downstream_gene_variant,,ENST00000460411,;"	"T"	"ENSG00000125354"	"ENST00000343984"	"Transcript"	"downstream_gene_variant"	"-/2693"	"-/1305"	"-/434"	""	""	""	"1"	"1628"	-1	"SEPT6"	"HGNC"	15848	"protein_coding"	"YES"	"CCDS14584.1"	"ENSP00000341524"	"Q14141"	"Q541S4"	"UPI0000001C54"	"NM_015129.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"1251b520-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	TRUE
"10035"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	119546253	119546253	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"57"	16	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"1251e716-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219178082191781	"WGS"	FALSE
"10036"	"TENM1"	10178	"mskcc.org"	"GRCh37"	"X"	123872350	123872350	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.536-1303T>G"	""	""	"ENST00000422452"	""	94	"76"	18	59	"59"	0	"TENM1,intron_variant,,ENST00000422452,NM_001163279.1,NM_001163278.1;TENM1,intron_variant,,ENST00000371130,NM_014253.3;"	"C"	"ENSG00000009694"	"ENST00000422452"	"Transcript"	"intron_variant"	"-/12891"	"-/8199"	"-/2732"	""	""	""	"1"	NA	-1	"TENM1"	"HGNC"	8117	"protein_coding"	"YES"	"CCDS55488.1"	"ENSP00000403954"	"Q9UKZ4"	"G3CAS6,B7ZMH4"	"UPI0000211B6A"	"NM_001163279.1,NM_001163278.1"	""	""	""	"3/31"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"12527d7a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191489361702128	"WGS"	FALSE
"10037"	"RP1-161N10.1"	0	"mskcc.org"	"GRCh37"	"X"	124338656	124338656	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000422498"	""	76	"64"	12	39	"39"	0	"RP1-161N10.1,upstream_gene_variant,,ENST00000422498,;"	"T"	"ENSG00000232599"	"ENST00000422498"	"Transcript"	"upstream_gene_variant"	"-/534"	""	""	""	""	""	"1"	"469"	-1	"RP1-161N10.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"1252895a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"10038"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	124408244	124408244	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"55"	7	46	"46"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"12528ebe-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112903225806452	"WGS"	FALSE
"10039"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	125588167	125588167	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"80"	19	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"1252b394-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191919191919192	"WGS"	FALSE
"10040"	"RP1-23K20.2"	0	"mskcc.org"	"GRCh37"	"X"	130155320	130155320	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.134+18367T>C"	""	""	"ENST00000451431"	""	114	"83"	31	55	"55"	0	"RP1-23K20.2,intron_variant,,ENST00000451431,;RP1-23K20.2,intron_variant,,ENST00000412420,;"	"G"	"ENSG00000228659"	"ENST00000451431"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/401"	""	""	""	""	""	"1"	NA	-1	"RP1-23K20.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"125383c8-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271929824561404	"WGS"	FALSE
"10041"	"TFDP3"	51270	"mskcc.org"	"GRCh37"	"X"	132348414	132348414	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000310125"	""	91	"75"	16	48	"48"	0	"TFDP3,downstream_gene_variant,,ENST00000310125,NM_016521.2;"	"T"	"ENSG00000183434"	"ENST00000310125"	"Transcript"	"downstream_gene_variant"	"-/1680"	"-/1218"	"-/405"	""	""	""	"1"	"2283"	-1	"TFDP3"	"HGNC"	24603	"protein_coding"	"YES"	"CCDS14636.2"	"ENSP00000385461"	"Q5H9I0"	""	"UPI0000212570"	"NM_016521.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"1253ce32-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175824175824176	"WGS"	FALSE
"10042"	"GPC3"	2719	"mskcc.org"	"GRCh37"	"X"	132687210	132687210	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1643-16889C>T"	""	""	"ENST00000394299"	""	83	"67"	16	51	"51"	0	"GPC3,intron_variant,,ENST00000370818,NM_001164618.1,NM_004484.3;GPC3,intron_variant,,ENST00000394299,NM_001164617.1;GPC3,intron_variant,,ENST00000543339,NM_001164619.1;"	"A"	"ENSG00000147257"	"ENST00000394299"	"Transcript"	"intron_variant"	"-/2379"	"-/1812"	"-/603"	""	""	""	"1"	NA	-1	"GPC3"	"HGNC"	4451	"protein_coding"	"YES"	"CCDS55496.1"	"ENSP00000377836"	"P51654"	""	"UPI00015E044A"	"NM_001164617.1"	""	""	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"1253dcce-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192771084337349	"WGS"	TRUE
"10043"	"LARP1BP3"	0	"mskcc.org"	"GRCh37"	"X"	133343228	133343228	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000437229"	""	84	"77"	7	60	"60"	0	"LARP1BP3,downstream_gene_variant,,ENST00000437229,;"	"C"	"ENSG00000232664"	"ENST00000437229"	"Transcript"	"downstream_gene_variant"	"-/869"	""	""	""	""	""	"1"	"3282"	1	"LARP1BP3"	"HGNC"	44085	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"12541b62-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"10044"	"MMGT1"	93380	"mskcc.org"	"GRCh37"	"X"	135041653	135041653	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000305963"	""	79	"71"	8	36	"36"	0	"MMGT1,downstream_gene_variant,,ENST00000305963,NM_173470.1;MMGT1,downstream_gene_variant,,ENST00000433339,;"	"G"	"ENSG00000169446"	"ENST00000305963"	"Transcript"	"downstream_gene_variant"	"-/3738"	"-/396"	"-/131"	""	""	""	"1"	"2576"	-1	"MMGT1"	"HGNC"	28100	"protein_coding"	"YES"	"CCDS14653.1"	"ENSP00000306220"	"Q8N4V1"	""	"UPI000006D414"	"NM_173470.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"1254696e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10126582278481	"WGS"	FALSE
"10045"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	136366110	136366110	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"105"	12	66	"66"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"1254b342-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"10046"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	137230065	137230065	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"82"	13	67	"67"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"1254d322-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136842105263158	"WGS"	FALSE
"10047"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	137542744	137542744	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"55"	16	46	"46"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"1254ddf4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225352112676056	"WGS"	FALSE
"10048"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	139435945	139435945	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	60	"54"	6	32	"32"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"12551f9e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"10049"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	142079229	142079229	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"93"	16	45	"45"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"1255e5be-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146788990825688	"WGS"	FALSE
"10050"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	142615621	142615621	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"80"	9	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"1255f2d4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101123595505618	"WGS"	FALSE
"10051"	"MIR514A1"	574516	"mskcc.org"	"GRCh37"	"X"	146363639	146363639	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000385133"	""	116	"99"	17	77	"77"	0	"MIR514A1,upstream_gene_variant,,ENST00000385133,;MIR514A2,upstream_gene_variant,,ENST00000385131,;MIR514A3,downstream_gene_variant,,ENST00000385132,;"	"C"	"ENSG00000207868"	"ENST00000385133"	"Transcript"	"upstream_gene_variant"	"-/98"	""	""	""	""	""	"1"	"2777"	-1	"MIR514A1"	"HGNC"	32148	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"12569b3a-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146551724137931	"WGS"	FALSE
"10052"	"AFF2"	2334	"mskcc.org"	"GRCh37"	"X"	147818543	147818543	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1042-72857C>T"	""	""	"ENST00000370460"	""	79	"72"	7	48	"48"	0	"AFF2,intron_variant,,ENST00000370460,NM_002025.3,NM_001169123.1;AFF2,intron_variant,,ENST00000370457,NM_001169122.1,NM_001169125.1,NM_001169124.1;AFF2,intron_variant,,ENST00000286437,NM_001170628.1;AFF2,intron_variant,,ENST00000342251,;AFF2,intron_variant,,ENST00000370458,;"	"T"	"ENSG00000155966"	"ENST00000370460"	"Transcript"	"intron_variant"	"-/13746"	"-/3936"	"-/1311"	""	""	""	"1"	NA	1	"AFF2"	"HGNC"	3776	"protein_coding"	"YES"	"CCDS14684.1"	"ENSP00000359489"	"P51816"	""	"UPI000049E130"	"NM_002025.3,NM_001169123.1"	""	""	""	"3/20"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"1256d53c-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"10053"	"MECP2"	4204	"mskcc.org"	"GRCh37"	"X"	153343584	153343584	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.62+19477A>T"	""	""	"ENST00000453960"	""	71	"66"	5	57	"57"	0	"MECP2,intron_variant,,ENST00000303391,NM_004992.3;MECP2,intron_variant,,ENST00000453960,NM_001110792.1;MECP2,intron_variant,,ENST00000407218,;MECP2,intron_variant,,ENST00000415944,;MECP2,intron_variant,,ENST00000496908,;MECP2,intron_variant,,ENST00000369957,;"	"A"	"ENSG00000169057"	"ENST00000453960"	"Transcript"	"intron_variant"	"-/1685"	"-/1497"	"-/498"	""	""	""	"1"	NA	-1	"MECP2"	"HGNC"	6990	"protein_coding"	"YES"	"CCDS48193.1"	"ENSP00000395535"	"P51608"	""	"UPI0000253F1B"	"NM_001110792.1"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"1257ee90-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0704225352112676	"WGS"	FALSE
"10054"	"ENSR00001492270"	0	"mskcc.org"	"GRCh37"	"X"	153389290	153389290	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001492270"	""	89	"69"	20	47	"47"	0	""	"A"	""	"ENSR00001492270"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"1257f58e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224719101123595	"WGS"	FALSE
"10055"	"TAZ"	6901	"mskcc.org"	"GRCh37"	"X"	153642822	153642822	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.460+295G>A"	""	""	"ENST00000299328"	""	83	"77"	6	58	"58"	0	"TAZ,intron_variant,,ENST00000299328,NM_000116.3;TAZ,intron_variant,,ENST00000350743,NM_181311.2;TAZ,intron_variant,,ENST00000351413,NM_181312.2;TAZ,intron_variant,,ENST00000369790,NM_181313.2;TAZ,intron_variant,,ENST00000369776,;TAZ,intron_variant,,ENST00000454722,;TAZ,intron_variant,,ENST00000475699,;TAZ,intron_variant,,ENST00000439735,;DNASE1L1,upstream_gene_variant,,ENST00000369809,NM_001009932.1;DNASE1L1,upstream_gene_variant,,ENST00000393638,NM_001009934.1;DNASE1L1,upstream_gene_variant,,ENST00000014935,;DNASE1L1,upstream_gene_variant,,ENST00000309585,NM_001009933.1;DNASE1L1,upstream_gene_variant,,ENST00000424626,;DNASE1L1,upstream_gene_variant,,ENST00000451865,;DNASE1L1,upstream_gene_variant,,ENST00000432135,;TAZ,downstream_gene_variant,,ENST00000426834,;TAZ,intron_variant,,ENST00000470127,;TAZ,downstream_gene_variant,,ENST00000479875,;TAZ,intron_variant,,ENST00000369793,;TAZ,intron_variant,,ENST00000455296,;TAZ,intron_variant,,ENST00000476307,;TAZ,intron_variant,,ENST00000483674,;TAZ,intron_variant,,ENST00000433313,;TAZ,intron_variant,,ENST00000426231,;TAZ,intron_variant,,ENST00000476679,;TAZ,intron_variant,,ENST00000483780,;TAZ,upstream_gene_variant,,ENST00000494912,;TAZ,downstream_gene_variant,,ENST00000465540,;TAZ,downstream_gene_variant,,ENST00000480812,;TAZ,downstream_gene_variant,,ENST00000445994,;TAZ,downstream_gene_variant,,ENST00000476800,;"	"A"	"ENSG00000102125"	"ENST00000299328"	"Transcript"	"intron_variant"	"-/1890"	"-/879"	"-/292"	""	""	""	"1"	NA	1	"TAZ"	"HGNC"	11577	"protein_coding"	"YES"	"CCDS14748.1"	"ENSP00000299328"	"Q16635"	"F2Z2H6,Q2VF39"	"UPI0000136CA2"	"NM_000116.3"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"1258016e-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"10056"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	153827270	153827270	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs782613913"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"55"	8	39	"39"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs782613913"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0008"	"A:0.0023"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"125815b4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126984126984127	"WGS"	FALSE
"10057"	"DUX4L17"	0	"mskcc.org"	"GRCh37"	"Y"	13470880	13470880	"+"	"RNA"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.284G>A"	""	""	"ENST00000557360"	"1/1"	40	"35"	5	30	"30"	0	"DUX4L17,non_coding_transcript_exon_variant,,ENST00000557360,;"	"A"	"ENSG00000259154"	"ENST00000557360"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"284/1267"	""	""	""	""	""	"1"	NA	1	"DUX4L17"	"HGNC"	37717	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"125a0a36-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"10058"	"DUX4L19"	0	"mskcc.org"	"GRCh37"	"Y"	13488446	13488446	"+"	"RNA"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.442C>T"	""	""	"ENST00000557448"	"1/1"	12	"8"	4	6	"6"	0	"DUX4L19,non_coding_transcript_exon_variant,,ENST00000557448,;PABPC1P5,upstream_gene_variant,,ENST00000603738,;"	"T"	"ENSG00000258991"	"ENST00000557448"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"442/1267"	""	""	""	""	""	"1"	NA	1	"DUX4L19"	"HGNC"	37718	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"125a7516-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"10059"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	58994878	58994878	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	34	"30"	4	16	"16"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"125b51d4-deaf-11e6-a4db-9a8e424a729f"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"10060"	"RP11-740P5.2"	0	"mskcc.org"	"GRCh37"	"1"	2725576	2725593	"+"	"3'Flank"	"DEL"	"GCTGCCGTGGGCCTGGCT"	"GCTGCCGTGGGCCTGGCT"	"CAGCC"	"rs386627637"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"GCTGCCGTGGGCCTGGCT"	"GCTGCCGTGGGCCTGGCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000457440"	""	110	"."	31	63	"."	0	"RP11-740P5.2,downstream_gene_variant,,ENST00000457440,;"	"CAGCC"	"ENSG00000233234"	"ENST00000457440"	"Transcript"	"downstream_gene_variant"	"-/607"	""	""	""	""	"rs386627637"	"1"	"2822"	-1	"RP11-740P5.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGCTGCCGTGGGCCTGGCTC"	"cdfca296-a9a6-11e6-a885-f23fa304fa55"	"1860"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.281818181818182	"WGS"	FALSE
"10061"	"MIIP"	60672	"mskcc.org"	"GRCh37"	"1"	12078992	12079005	"+"	"5'Flank"	"DEL"	"AAAAAAAAAAAAAA"	"AAAAAAAAAAAAAA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AAAAAAAAAAAAAA"	"AAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000235332"	""	84	"."	6	30	"."	0	"MIIP,upstream_gene_variant,,ENST00000235332,NM_021933.3;MIIP,upstream_gene_variant,,ENST00000436478,;MIIP,upstream_gene_variant,,ENST00000466860,;MIIP,upstream_gene_variant,,ENST00000498685,;MIIP,upstream_gene_variant,,ENST00000478749,;RP5-1077B9.5,upstream_gene_variant,,ENST00000603287,;"	"-"	"ENSG00000116691"	"ENST00000235332"	"Transcript"	"upstream_gene_variant"	"-/1573"	"-/1167"	"-/388"	""	""	""	"1"	"518"	1	"MIIP"	"HGNC"	25715	"protein_coding"	"YES"	"CCDS143.1"	"ENSP00000235332"	"Q5JXC2"	""	"UPI000013C9CB"	"NM_021933.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAAAAAAAAAAAAAAA"	"be65c02e-a99c-11e6-a885-f23fa304fa55"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"10062"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	24474722	24474726	"+"	"IGR"	"DEL"	"TTCTT"	"TTCTT"	"CTC"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TTCTT"	"TTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"."	5	37	"."	0	""	"CTC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTTCTTG"	"e8a3886c-a9a6-11e6-a885-f23fa304fa55"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0684931506849315	"WGS"	FALSE
"10063"	"RUNX3"	864	"mskcc.org"	"GRCh37"	"1"	25250852	25250852	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.481+3213delT"	""	""	"ENST00000399916"	""	103	"."	11	69	"."	0	"RUNX3,intron_variant,,ENST00000399916,NM_001031680.2;RUNX3,intron_variant,,ENST00000308873,NM_004350.2;RUNX3,intron_variant,,ENST00000338888,;RUNX3,intron_variant,,ENST00000540420,;RUNX3,intron_variant,,ENST00000496967,;"	"-"	"ENSG00000020633"	"ENST00000399916"	"Transcript"	"intron_variant"	"-/4340"	"-/1290"	"-/429"	""	""	""	"1"	NA	-1	"RUNX3"	"HGNC"	10473	"protein_coding"	"YES"	"CCDS30633.1"	"ENSP00000382800"	"Q13761"	""	"UPI000002B2FF"	"NM_001031680.2"	NA	NA	""	"3/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAA"	"7deb5ff8-a99d-11e6-a885-f23fa304fa55"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.106796116504854	"WGS"	FALSE
"10064"	"STMN1"	3925	"mskcc.org"	"GRCh37"	"1"	26230931	26230931	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.13+224delG"	""	""	"ENST00000426559"	""	113	"."	21	68	"."	0	"STMN1,intron_variant,,ENST00000399728,NM_203401.1;STMN1,intron_variant,,ENST00000455785,NM_005563.3,NM_203399.1;STMN1,intron_variant,,ENST00000357865,;STMN1,intron_variant,,ENST00000426559,NM_001145454.1;STMN1,intron_variant,,ENST00000374291,;STMN1,intron_variant,,ENST00000446334,;MIR3917,downstream_gene_variant,,ENST00000580971,;STMN1,intron_variant,,ENST00000465604,;STMN1,upstream_gene_variant,,ENST00000485226,;"	"-"	"ENSG00000117632"	"ENST00000426559"	"Transcript"	"intron_variant"	"-/948"	"-/525"	"-/174"	""	""	""	"1"	NA	-1	"STMN1"	"HGNC"	6510	"protein_coding"	"YES"	"CCDS44090.1"	"ENSP00000410452"	"P16949"	"A2A2D0"	"UPI000191512D"	"NM_001145454.1"	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCA"	"875fe734-a99d-11e6-a885-f23fa304fa55"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.185840707964602	"WGS"	FALSE
"10065"	"AGBL4"	84871	"mskcc.org"	"GRCh37"	"1"	50106923	50106926	"+"	"Intron"	"DEL"	"ATTA"	"ATTA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"ATTA"	"ATTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.282+56059_282+56062delTAAT"	""	""	"ENST00000371839"	""	108	"."	16	58	"."	0	"AGBL4,intron_variant,,ENST00000371839,NM_032785.3;AGBL4,intron_variant,,ENST00000371836,;AGBL4,intron_variant,,ENST00000371838,;AGBL4,intron_variant,,ENST00000497451,;"	"-"	"ENSG00000186094"	"ENST00000371839"	"Transcript"	"intron_variant"	"-/2947"	"-/1512"	"-/503"	""	""	""	"1"	NA	-1	"AGBL4"	"HGNC"	25892	"protein_coding"	"YES"	"CCDS44137.1"	"ENSP00000360905"	"Q5VU57"	""	"UPI00002042F9"	"NM_032785.3"	NA	NA	""	"3/13"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGATTAA"	"61d15952-a99e-11e6-a885-f23fa304fa55"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"10066"	"NEGR1"	257194	"mskcc.org"	"GRCh37"	"1"	72437121	72437122	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.177-36128dupA"	""	""	"ENST00000357731"	""	107	"."	11	73	"."	0	"NEGR1,intron_variant,,ENST00000357731,NM_173808.2;NEGR1,intron_variant,,ENST00000306821,;NEGR1,intron_variant,,ENST00000434200,;NEGR1,intron_variant,,ENST00000467479,;"	"T"	"ENSG00000172260"	"ENST00000357731"	"Transcript"	"intron_variant"	"-/12811"	"-/1065"	"-/354"	""	""	""	"1"	NA	-1	"NEGR1"	"HGNC"	17302	"protein_coding"	"YES"	"CCDS661.1"	"ENSP00000350364"	"Q7Z3B1"	"Q8N440,Q68DZ8"	"UPI00000477EE"	"NM_173808.2"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"d85b49aa-a9aa-11e6-a885-f23fa304fa55"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.102803738317757	"WGS"	FALSE
"10067"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	80521382	80521383	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	123	"."	13	74	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"2562bbfc-a9ab-11e6-a885-f23fa304fa55"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.105691056910569	"WGS"	FALSE
"10068"	"RP11-302M6.4"	0	"mskcc.org"	"GRCh37"	"1"	90214799	90214799	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.138+62631delG"	""	""	"ENST00000370453"	""	128	"."	5	71	"."	0	"LRRC8C,intron_variant,,ENST00000479252,;RP11-302M6.4,intron_variant,,ENST00000370453,;"	"-"	"ENSG00000271949"	"ENST00000370453"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/654"	"-/159"	"-/52"	""	""	""	"1"	NA	1	"RP11-302M6.4"	"Clone_based_vega_gene"	NA	"nonsense_mediated_decay"	"YES"	""	"ENSP00000359482"	""	"A6NED7"	"UPI0001F78081"	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"ba09106e-a99f-11e6-a885-f23fa304fa55"	"10"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0390625	"WGS"	FALSE
"10069"	"BTBD8"	284697	"mskcc.org"	"GRCh37"	"1"	92577848	92577849	"+"	"Intron"	"INS"	"-"	"-"	"TAATCG"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.662+4291_662+4296dupTAATCG"	""	""	"ENST00000342818"	""	75	"."	13	43	"."	0	"BTBD8,intron_variant,,ENST00000370382,;BTBD8,intron_variant,,ENST00000342818,NM_183242.3;BTBD8,intron_variant,,ENST00000540648,;GAPDHP46,downstream_gene_variant,,ENST00000424043,;"	"TAATCG"	"ENSG00000189195"	"ENST00000342818"	"Transcript"	"intron_variant"	"-/1408"	"-/1137"	"-/378"	""	""	""	"1"	NA	1	"BTBD8"	"HGNC"	21019	"protein_coding"	"YES"	"CCDS737.1"	"ENSP00000343686"	"Q5XKL5"	""	"UPI000014114A"	"NM_183242.3"	NA	NA	""	"4/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"a2052d16-a9ab-11e6-a885-f23fa304fa55"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.173333333333333	"WGS"	FALSE
"10070"	"DENND2C"	163259	"mskcc.org"	"GRCh37"	"1"	115128787	115128790	"+"	"Intron"	"DEL"	"TTGT"	"TTGT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TTGT"	"TTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2756-538_2756-535delACAA"	""	""	"ENST00000393274"	""	89	"."	11	58	"."	0	"DENND2C,intron_variant,,ENST00000393274,NM_001256404.1;DENND2C,intron_variant,,ENST00000393276,NM_198459.3;DENND2C,intron_variant,,ENST00000393277,;BCAS2,upstream_gene_variant,,ENST00000369541,NM_005872.2;DENND2C,intron_variant,,ENST00000495031,;DENND2C,downstream_gene_variant,,ENST00000481894,;BCAS2,upstream_gene_variant,,ENST00000485021,;"	"-"	"ENSG00000175984"	"ENST00000393274"	"Transcript"	"intron_variant"	"-/6163"	"-/2787"	"-/928"	""	""	""	"1"	NA	-1	"DENND2C"	"HGNC"	24748	"protein_coding"	"YES"	"CCDS58018.1"	"ENSP00000376955"	"Q68D51"	""	"UPI000048AF71"	"NM_001256404.1"	NA	NA	""	"20/20"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTGTA"	"ad58883a-a9a0-11e6-a885-f23fa304fa55"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.123595505617978	"WGS"	FALSE
"10071"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	119098575	119098586	"+"	"IGR"	"DEL"	"CTCTAAGTAATA"	"CTCTAAGTAATA"	"ACTATT"	"rs386635055"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CTCTAAGTAATA"	"CTCTAAGTAATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"."	5	73	"."	0	""	"ACTATT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs386635055"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACTCTAAGTAATAA"	"2afb9650-a9a7-11e6-a885-f23fa304fa55"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"10072"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	149359217	149359217	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"."	12	51	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"20572eda-a9a2-11e6-a885-f23fa304fa55"	"542"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"10073"	"SNX27"	81609	"mskcc.org"	"GRCh37"	"1"	151599685	151599685	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.312-11676delC"	""	""	"ENST00000368843"	""	102	"."	13	49	"."	0	"SNX27,intron_variant,,ENST00000368843,NM_030918.5;SNX27,intron_variant,,ENST00000458013,;RNU6-1062P,upstream_gene_variant,,ENST00000383908,;SNX27,intron_variant,,ENST00000368841,;"	"-"	"ENSG00000143376"	"ENST00000368843"	"Transcript"	"intron_variant"	"-/7197"	"-/1587"	"-/528"	""	""	""	"1"	NA	1	"SNX27"	"HGNC"	20073	"protein_coding"	"YES"	"CCDS1001.1"	"ENSP00000357836"	"Q96L92"	""	"UPI00001A962E"	"NM_030918.5"	NA	NA	""	"1/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"3f424b90-a9a2-11e6-a885-f23fa304fa55"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.127450980392157	"WGS"	FALSE
"10074"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	190952097	190952108	"+"	"IGR"	"DEL"	"TATACATGTGTA"	"TATACATGTGTA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TATACATGTGTA"	"TATACATGTGTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"."	5	50	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGTATACATGTGTAT"	"d2dadf1a-a9a3-11e6-a885-f23fa304fa55"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"10075"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	194442038	194442038	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"."	14	77	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAG"	"f915052a-a9a3-11e6-a885-f23fa304fa55"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.144329896907216	"WGS"	FALSE
"10076"	"REN"	5972	"mskcc.org"	"GRCh37"	"1"	204129132	204129135	"+"	"Intron"	"DEL"	"AAGG"	"AAGG"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AAGG"	"AAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.493-412_493-409delCCTT"	""	""	"ENST00000272190"	""	97	"."	12	61	"."	0	"REN,intron_variant,,ENST00000367195,;REN,intron_variant,,ENST00000272190,NM_000537.3;"	"-"	"ENSG00000143839"	"ENST00000272190"	"Transcript"	"intron_variant"	"-/1447"	"-/1221"	"-/406"	""	""	""	"1"	NA	-1	"REN"	"HGNC"	9958	"protein_coding"	"YES"	"CCDS30981.1"	"ENSP00000272190"	"P00797"	"Q9UQK5"	"UPI000000091F"	"NM_000537.3"	NA	NA	""	"4/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAAAGGA"	"6acd8d0e-a9a4-11e6-a885-f23fa304fa55"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.123711340206186	"WGS"	FALSE
"10077"	"TMEM206"	55248	"mskcc.org"	"GRCh37"	"1"	212566190	212566190	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.317-5748delG"	""	""	"ENST00000535273"	""	107	"."	5	56	"."	0	"TMEM206,intron_variant,,ENST00000261455,NM_018252.2;TMEM206,intron_variant,,ENST00000535273,NM_001198862.1;TMEM206,intron_variant,,ENST00000471937,;TMEM206,intron_variant,,ENST00000467822,;"	"-"	"ENSG00000065600"	"ENST00000535273"	"Transcript"	"intron_variant"	"-/2113"	"-/1236"	"-/411"	""	""	""	"1"	NA	-1	"TMEM206"	"HGNC"	25593	"protein_coding"	"YES"	"CCDS55687.1"	"ENSP00000438863"	"Q9H813"	"B4DHQ5"	"UPI0001914DBE"	"NM_001198862.1"	NA	NA	""	"3/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACA"	"c7bf991c-a9a4-11e6-a885-f23fa304fa55"	"67"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0467289719626168	"WGS"	FALSE
"10078"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	228625206	228625206	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"."	21	51	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"8f2f0d3e-a9a5-11e6-a885-f23fa304fa55"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.223404255319149	"WGS"	FALSE
"10079"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	229915150	229915150	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"."	17	71	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGG"	"d13aab3e-a9a5-11e6-a885-f23fa304fa55"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.168316831683168	"WGS"	FALSE
"10080"	"FMN2"	56776	"mskcc.org"	"GRCh37"	"1"	240631581	240631582	"+"	"Intron"	"DEL"	"CA"	"CA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5061-4083_5061-4082delCA"	""	""	"ENST00000319653"	""	102	"."	5	60	"."	0	"FMN2,intron_variant,,ENST00000319653,NM_020066.4;FMN2,intron_variant,,ENST00000543681,;FMN2,intron_variant,,ENST00000545751,;AL646016.1,intron_variant,,ENST00000596886,;FMN2,upstream_gene_variant,,ENST00000496950,;"	"-"	"ENSG00000155816"	"ENST00000319653"	"Transcript"	"intron_variant"	"-/6434"	"-/5169"	"-/1722"	""	""	""	"1"	NA	1	"FMN2"	"HGNC"	14074	"protein_coding"	"YES"	"CCDS31069.2"	"ENSP00000318884"	"Q9NZ56"	"Q96L17,B4DN09"	"UPI00015FA087"	"NM_020066.4"	NA	NA	""	"16/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGCAC"	"4e2e8818-a9a6-11e6-a885-f23fa304fa55"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0490196078431373	"WGS"	FALSE
"10081"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	242170799	242170799	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"."	9	44	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACC"	"64813430-a9a6-11e6-a885-f23fa304fa55"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.134328358208955	"WGS"	FALSE
"10082"	"USP6NL"	9712	"mskcc.org"	"GRCh37"	"10"	11643251	11643252	"+"	"Intron"	"INS"	"-"	"-"	"AC"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-83-3537_-83-3536dupGT"	""	""	"ENST00000609104"	""	106	"."	17	58	"."	0	"USP6NL,intron_variant,,ENST00000609104,NM_014688.2;USP6NL,intron_variant,,ENST00000606752,;"	"AC"	"ENSG00000148429"	"ENST00000609104"	"Transcript"	"intron_variant"	"-/11377"	"-/2487"	"-/828"	""	""	""	"1"	NA	-1	"USP6NL"	"HGNC"	16858	"protein_coding"	""	"CCDS53492.1"	"ENSP00000476462"	""	""	"UPI000000DA06"	"NM_014688.2"	NA	NA	""	"1/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"08f04640-a9a3-11e6-a1c9-8d6604f5c5cb"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.160377358490566	"WGS"	FALSE
"10083"	"GRID1"	2894	"mskcc.org"	"GRCh37"	"10"	87847482	87847487	"+"	"Intron"	"DEL"	"AGCCCA"	"AGCCCA"	"GCT"	"rs386746202"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AGCCCA"	"AGCCCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.726+51089_726+51094delTGGGCTinsAGC"	""	""	"ENST00000327946"	""	92	"."	19	45	"."	0	"GRID1,intron_variant,,ENST00000327946,NM_017551.2;GRID1,intron_variant,,ENST00000464741,;"	"GCT"	"ENSG00000182771"	"ENST00000327946"	"Transcript"	"intron_variant"	"-/5834"	"-/3030"	"-/1009"	""	""	"rs386746202"	"1"	NA	-1	"GRID1"	"HGNC"	4575	"protein_coding"	"YES"	"CCDS31236.1"	"ENSP00000330148"	"Q9ULK0"	"B7Z7L0"	"UPI00001D8051"	"NM_017551.2"	NA	NA	""	"4/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAGCCCAG"	"54e590c4-a9a2-11e6-a1c9-8d6604f5c5cb"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.206521739130435	"WGS"	FALSE
"10084"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	119448237	119448237	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"."	18	50	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGG"	"4244c97c-a9a1-11e6-a1c9-8d6604f5c5cb"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"10085"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	124470887	124470890	"+"	"IGR"	"DEL"	"CTAA"	"CTAA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CTAA"	"CTAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	6	53	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACCTAAC"	"801812a4-a9a1-11e6-a1c9-8d6604f5c5cb"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"10086"	"LSP1"	4046	"mskcc.org"	"GRCh37"	"11"	1892326	1892326	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.437+4188delC"	""	""	"ENST00000381775"	""	123	"."	16	74	"."	0	"LSP1,5_prime_UTR_variant,,ENST00000406638,NM_001013255.1,NM_001013254.1;LSP1,intron_variant,,ENST00000381775,NM_001242932.1;LSP1,intron_variant,,ENST00000405957,NM_001013253.1;LSP1,intron_variant,,ENST00000311604,NM_002339.2;LSP1,intron_variant,,ENST00000417766,;LSP1,intron_variant,,ENST00000457279,;LSP1,intron_variant,,ENST00000421485,;LSP1,intron_variant,,ENST00000429923,;LSP1,intron_variant,,ENST00000418975,;LSP1,intron_variant,,ENST00000446808,;LSP1,intron_variant,,ENST00000451814,;AC051649.12,downstream_gene_variant,,ENST00000509204,;LSP1,upstream_gene_variant,,ENST00000472974,;"	"-"	"ENSG00000130592"	"ENST00000381775"	"Transcript"	"intron_variant"	"-/2016"	"-/1404"	"-/467"	""	""	""	"1"	NA	1	"LSP1"	"HGNC"	6707	"protein_coding"	"YES"	"CCDS58110.1"	"ENSP00000371194"	"P33241"	"Q9UEV8,Q9UEV7,E9PBD8,C9JNQ1,C9JKF7,C9J9B9"	"UPI000013F8D0"	"NM_001242932.1"	NA	NA	""	"2/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCC"	"30abca76-a99c-11e6-9af6-e43258ddda77"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.130081300813008	"WGS"	FALSE
"10087"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	25237432	25237533	"+"	"IGR"	"DEL"	"ATATATATAAATATATATGTGAATATATATAAATATATATGTGAATATATATATAAATATATATGTGAATATATAGAAATATATATGTGAATATATTTATGA"	"ATATATATAAATATATATGTGAATATATATAAATATATATGTGAATATATATATAAATATATATGTGAATATATAGAAATATATATGTGAATATATTTATGA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"ATATATATAAATATATATGTGAATATATATAAATATATATGTGAATATATATATAAATATATATGTGAATATATAGAAATATATATGTGAATATATTTATGA"	"ATATATATAAATATATATGTGAATATATATAAATATATATGTGAATATATATATAAATATATATGTGAATATATAGAAATATATATGTGAATATATTTATGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	146	"."	13	71	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATATATATAAATATATATGTGAATATATATAAATATATATGTGAATATATATATAAATATATATGTGAATATATAGAAATATATATGTGAATATATTTATGAA"	"25385ad2-a99d-11e6-9af6-e43258ddda77"	"657"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.089041095890411	"WGS"	FALSE
"10088"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	25310388	25310390	"+"	"IGR"	"DEL"	"AGC"	"AGC"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AGC"	"AGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	12	58	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGCT"	"2618a222-a99d-11e6-9af6-e43258ddda77"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"10089"	"LGR4"	55366	"mskcc.org"	"GRCh37"	"11"	27404800	27404800	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.690-997delT"	""	""	"ENST00000379214"	""	105	"."	16	70	"."	0	"LGR4,intron_variant,,ENST00000379214,NM_018490.2;LGR4,intron_variant,,ENST00000389858,;LGR4,downstream_gene_variant,,ENST00000480977,;LGR4,upstream_gene_variant,,ENST00000530658,;LGR4,downstream_gene_variant,,ENST00000527773,;"	"-"	"ENSG00000205213"	"ENST00000379214"	"Transcript"	"intron_variant"	"-/5206"	"-/2856"	"-/951"	""	""	""	"1"	NA	-1	"LGR4"	"HGNC"	13299	"protein_coding"	"YES"	"CCDS31449.1"	"ENSP00000368516"	"Q9BXB1"	"Q59ER8"	"UPI00000373E7"	"NM_018490.2"	NA	NA	""	"6/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTAA"	"3d21692c-a99d-11e6-9af6-e43258ddda77"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.152380952380952	"WGS"	FALSE
"10090"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	111052662	111052662	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"."	5	39	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATG"	"694c10e4-a9a0-11e6-9af6-e43258ddda77"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0632911392405063	"WGS"	FALSE
"10091"	"TMEM52B"	120939	"mskcc.org"	"GRCh37"	"12"	10340196	10340199	"+"	"Intron"	"DEL"	"TTTG"	"TTTG"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TTTG"	"TTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.247+1011_247+1014delGTTT"	""	""	"ENST00000298530"	""	88	"."	5	49	"."	0	"TMEM52B,intron_variant,,ENST00000298530,NM_153022.2;TMEM52B,intron_variant,,ENST00000381923,NM_001079815.1;TMEM52B,intron_variant,,ENST00000536952,;TMEM52B,downstream_gene_variant,,ENST00000543484,;TMEM52B,intron_variant,,ENST00000546153,;"	"-"	"ENSG00000165685"	"ENST00000298530"	"Transcript"	"intron_variant"	"-/2731"	"-/492"	"-/163"	""	""	""	"1"	NA	1	"TMEM52B"	"HGNC"	26438	"protein_coding"	"YES"	"CCDS8619.1"	"ENSP00000298530"	"Q4KMG9"	""	"UPI000006D360"	"NM_153022.2"	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATTTGT"	"a955e128-a99c-11e6-91e5-e49b8b7769d1"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0568181818181818	"WGS"	FALSE
"10092"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	16882246	16882247	"+"	"IGR"	"INS"	"-"	"-"	"A"	"rs199584982"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"."	5	64	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs199584982"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"A:0.0090"	"A:0.0303"	"A:0"	NA	"A:0.002"	"A:0"	"A:0.0031"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"a8a17156-a9a2-11e6-91e5-e49b8b7769d1"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0454545454545455	"WGS"	FALSE
"10093"	"RASSF8"	11228	"mskcc.org"	"GRCh37"	"12"	26142584	26142586	"+"	"Intron"	"DEL"	"TTC"	"TTC"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TTC"	"TTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-109+30505_-109+30507delCTT"	""	""	"ENST00000405154"	""	104	"."	12	59	"."	0	"RASSF8,intron_variant,,ENST00000405154,NM_001164748.1;RASSF8,intron_variant,,ENST00000381352,NM_007211.4;RASSF8,intron_variant,,ENST00000542865,NM_001164747.1;RASSF8,intron_variant,,ENST00000535907,;RASSF8,intron_variant,,ENST00000538081,;"	"-"	"ENSG00000123094"	"ENST00000405154"	"Transcript"	"intron_variant"	"-/5510"	"-/1260"	"-/419"	""	""	""	"1"	NA	1	"RASSF8"	"HGNC"	13232	"protein_coding"	"YES"	"CCDS53765.1"	"ENSP00000384491"	"Q8NHQ8"	"H0YG85,F5H8C5,F5H8B9,F5H7J1,F5H343,F5H0S5,F5GYP8"	"UPI00001FB7C1"	"NM_001164748.1"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTTTCT"	"544edd50-a99d-11e6-91e5-e49b8b7769d1"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"10094"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	33206089	33206096	"+"	"IGR"	"DEL"	"CGCCCTCA"	"CGCCCTCA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CGCCCTCA"	"CGCCCTCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"."	6	64	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCGCCCTCAC"	"a9fb49aa-a99d-11e6-91e5-e49b8b7769d1"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"10095"	"RP11-493L12.5"	0	"mskcc.org"	"GRCh37"	"12"	47765915	47765915	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000550019"	""	104	"."	18	61	"."	0	"RP11-493L12.5,downstream_gene_variant,,ENST00000550019,;"	"-"	"ENSG00000257924"	"ENST00000550019"	"Transcript"	"downstream_gene_variant"	"-/540"	""	""	""	""	""	"1"	"2197"	1	"RP11-493L12.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGA"	"0b516392-a99e-11e6-91e5-e49b8b7769d1"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.173076923076923	"WGS"	FALSE
"10096"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	60376944	60376947	"+"	"IGR"	"DEL"	"AGAC"	"AGAC"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AGAC"	"AGAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"."	12	55	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAGACA"	"94bcb05a-a99e-11e6-91e5-e49b8b7769d1"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"10097"	"RP11-314D7.1"	101928116	"mskcc.org"	"GRCh37"	"12"	73510753	73510767	"+"	"Intron"	"DEL"	"CACTTTCTTCAAATT"	"CACTTTCTTCAAATT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CACTTTCTTCAAATT"	"CACTTTCTTCAAATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.302-351_302-337delAATTTGAAGAAAGTG"	""	""	"ENST00000551135"	""	93	"."	8	50	"."	0	"RP11-314D7.1,intron_variant,,ENST00000551135,;RP11-314D7.1,intron_variant,,ENST00000552541,;RP11-314D7.1,intron_variant,,ENST00000552840,;"	"-"	"ENSG00000258294"	"ENST00000551135"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/981"	""	""	""	""	""	"1"	NA	-1	"RP11-314D7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACACTTTCTTCAAATTA"	"0d5a8708-a99f-11e6-91e5-e49b8b7769d1"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0860215053763441	"WGS"	FALSE
"10098"	"PPFIA2"	8499	"mskcc.org"	"GRCh37"	"12"	82011712	82011714	"+"	"Intron"	"DEL"	"AGA"	"AGA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AGA"	"AGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.303+58856_303+58858delTCT"	""	""	"ENST00000549396"	""	114	"."	11	63	"."	0	"PPFIA2,intron_variant,,ENST00000550584,NM_001220473.1;PPFIA2,intron_variant,,ENST00000549396,NM_003625.3,NM_001220476.1,NM_001282536.1;PPFIA2,intron_variant,,ENST00000549325,NM_001220474.1;PPFIA2,intron_variant,,ENST00000548586,;PPFIA2,intron_variant,,ENST00000552948,NM_001220475.1;PPFIA2,intron_variant,,ENST00000333447,;PPFIA2,intron_variant,,ENST00000551442,;PPFIA2,intron_variant,,ENST00000547623,;PPFIA2,intron_variant,,ENST00000552020,;"	"-"	"ENSG00000139220"	"ENST00000549396"	"Transcript"	"intron_variant"	"-/5363"	"-/3774"	"-/1257"	""	""	""	"1"	NA	-1	"PPFIA2"	"HGNC"	9246	"protein_coding"	"YES"	"CCDS55857.1"	"ENSP00000450337"	"O75334"	"H0YHK3,F8W1Y8,F8VU88"	"UPI0000168655"	"NM_003625.3,NM_001220476.1,NM_001282536.1"	NA	NA	""	"4/32"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAGAA"	"5539564e-a99f-11e6-91e5-e49b8b7769d1"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0964912280701754	"WGS"	FALSE
"10099"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	87791997	87791997	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"."	11	59	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"88f08f0c-a99f-11e6-91e5-e49b8b7769d1"	"647"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.107843137254902	"WGS"	FALSE
"10100"	"TMTC3"	160418	"mskcc.org"	"GRCh37"	"12"	88594934	88594936	"+"	"3'Flank"	"DEL"	"TAC"	"TAC"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TAC"	"TAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000266712"	""	101	"."	15	55	"."	0	"TMTC3,downstream_gene_variant,,ENST00000266712,NM_181783.3;"	"-"	"ENSG00000139324"	"ENST00000266712"	"Transcript"	"downstream_gene_variant"	"-/7203"	"-/2745"	"-/914"	""	""	""	"1"	"1270"	1	"TMTC3"	"HGNC"	26899	"protein_coding"	"YES"	"CCDS9032.1"	"ENSP00000266712"	"Q6ZXV5"	"F8W044"	"UPI000004D255"	"NM_181783.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTACT"	"8ed8ced4-a99f-11e6-91e5-e49b8b7769d1"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.148514851485149	"WGS"	FALSE
"10101"	"RP11-654D12.2"	0	"mskcc.org"	"GRCh37"	"12"	90306206	90306206	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.228-8636delT"	""	""	"ENST00000547370"	""	77	"."	9	56	"."	0	"RP11-654D12.2,intron_variant,,ENST00000547370,;"	"-"	"ENSG00000258216"	"ENST00000547370"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/547"	""	""	""	""	""	"1"	NA	1	"RP11-654D12.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"9acb1724-a99f-11e6-91e5-e49b8b7769d1"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.116883116883117	"WGS"	FALSE
"10102"	"SLC17A8"	246213	"mskcc.org"	"GRCh37"	"12"	100785339	100785339	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.473+442delT"	""	""	"ENST00000323346"	""	93	"."	11	65	"."	0	"SLC17A8,intron_variant,,ENST00000323346,NM_001145288.1,NM_139319.2;SLC17A8,intron_variant,,ENST00000392989,;"	"-"	"ENSG00000179520"	"ENST00000323346"	"Transcript"	"intron_variant"	"-/3983"	"-/1770"	"-/589"	""	""	""	"1"	NA	1	"SLC17A8"	"HGNC"	20151	"protein_coding"	"YES"	"CCDS9077.1"	"ENSP00000316909"	"Q8NDX2"	""	"UPI0000073B9B"	"NM_001145288.1,NM_139319.2"	NA	NA	""	"3/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCTC"	"05fe74d2-a9a0-11e6-91e5-e49b8b7769d1"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.118279569892473	"WGS"	FALSE
"10103"	"RP4-601P9.2"	0	"mskcc.org"	"GRCh37"	"12"	115148817	115148817	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000551875"	""	78	"."	8	37	"."	0	"RP4-601P9.2,upstream_gene_variant,,ENST00000551875,;"	"-"	"ENSG00000257817"	"ENST00000551875"	"Transcript"	"upstream_gene_variant"	"-/1330"	""	""	""	""	""	"1"	"2799"	1	"RP4-601P9.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGG"	"926cbe74-a9a0-11e6-91e5-e49b8b7769d1"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"10104"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	115538478	115538480	"+"	"IGR"	"DEL"	"TGT"	"TGT"	"-"	"rs534517631"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TGT"	"TGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"."	6	52	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs534517631"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0040"	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTGTT"	"980612ea-a9a0-11e6-91e5-e49b8b7769d1"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"10105"	"TNFRSF19"	55504	"mskcc.org"	"GRCh37"	"13"	24247518	24247518	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000382258"	""	88	"."	6	60	"."	0	"TNFRSF19,frameshift_variant,,ENST00000382263,NM_001204458.1;TNFRSF19,frameshift_variant,,ENST00000248484,NM_148957.3;TNFRSF19,frameshift_variant,,ENST00000403372,NM_001204459.1;TNFRSF19,downstream_gene_variant,,ENST00000382258,NM_018647.3;"	"-"	"ENSG00000127863"	"ENST00000382258"	"Transcript"	"downstream_gene_variant"	"-/1625"	"-/1272"	"-/423"	""	""	""	"1"	"4106"	1	"TNFRSF19"	"HGNC"	11915	"protein_coding"	"YES"	"CCDS9302.1"	"ENSP00000371693"	"Q9NS68"	""	"UPI00001372A7"	"NM_018647.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"6796ffc4-a99c-11e6-9936-e2c4913c143f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"FALSE"	0.0681818181818182	"WGS"	FALSE
"10106"	"POLR1D"	51082	"mskcc.org"	"GRCh37"	"13"	28199532	28199532	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000302979"	""	92	"."	12	63	"."	0	"POLR1D,intron_variant,,ENST00000399697,NM_152705.2,NM_001206559.1;LNX2,upstream_gene_variant,,ENST00000316334,NM_153371.3;POLR1D,downstream_gene_variant,,ENST00000302979,NM_015972.3;POLR1D,downstream_gene_variant,,ENST00000399696,;POLR1D,intron_variant,,ENST00000465887,;POLR1D,intron_variant,,ENST00000489647,;"	"-"	"ENSG00000186184"	"ENST00000302979"	"Transcript"	"downstream_gene_variant"	"-/1626"	"-/402"	"-/133"	""	""	""	"1"	"1943"	1	"POLR1D"	"HGNC"	20422	"protein_coding"	"YES"	"CCDS9325.1"	"ENSP00000302478"	"Q9Y2S0"	""	"UPI00001345BE"	"NM_015972.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGAA"	"9d01a5b0-a99c-11e6-9936-e2c4913c143f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"10107"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	34800930	34800930	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"."	9	54	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATT"	"e54d896a-a99c-11e6-9936-e2c4913c143f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.1125	"WGS"	FALSE
"10108"	"LHFP"	10186	"mskcc.org"	"GRCh37"	"13"	40097704	40097705	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.385+77264_385+77265delAT"	""	""	"ENST00000379589"	""	119	"."	5	57	"."	0	"LHFP,intron_variant,,ENST00000379589,NM_005780.2;"	"-"	"ENSG00000183722"	"ENST00000379589"	"Transcript"	"intron_variant"	"-/2110"	"-/603"	"-/200"	""	""	""	"1"	NA	-1	"LHFP"	"HGNC"	6586	"protein_coding"	"YES"	"CCDS9369.1"	"ENSP00000368908"	"Q9Y693"	""	"UPI000006D140"	"NM_005780.2"	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAATG"	"18893388-a99d-11e6-9936-e2c4913c143f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0420168067226891	"WGS"	TRUE
"10109"	"RNASEH2B"	79621	"mskcc.org"	"GRCh37"	"13"	51521035	51521035	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.617-1088delA"	""	""	"ENST00000336617"	""	101	"."	14	59	"."	0	"RNASEH2B,intron_variant,,ENST00000336617,NM_024570.3;RNASEH2B,intron_variant,,ENST00000422660,NM_001142279.2;RNASEH2B,intron_variant,,ENST00000495244,;RNASEH2B,upstream_gene_variant,,ENST00000465541,;"	"-"	"ENSG00000136104"	"ENST00000336617"	"Transcript"	"intron_variant"	"-/1629"	"-/939"	"-/312"	""	""	""	"1"	NA	1	"RNASEH2B"	"HGNC"	25671	"protein_coding"	"YES"	"CCDS9425.1"	"ENSP00000337623"	"Q5TBB1"	""	"UPI000013CFE7"	"NM_024570.3"	NA	NA	""	"7/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGAC"	"86a06f26-a99d-11e6-9936-e2c4913c143f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.138613861386139	"WGS"	FALSE
"10110"	"ENSR00001510225"	0	"mskcc.org"	"GRCh37"	"13"	66166817	66167018	"+"	"IGR"	"DEL"	"GTCATATCAACTTTTAACACATACAGAATCCACTGGACTCTTTGTCAATACTCAGAGTCTCCATTCTTGTGTATAAACTAGAACAGCTATTCTGATTTTAGCAAAGGGATAAAATACTCAGCCAAACTTTGAATGAGAAACGACATTTAGTTTGGGTGAGCACATGAATAAGACCTTTTCATTTAGCTGGAATCACTTTGCA"	"GTCATATCAACTTTTAACACATACAGAATCCACTGGACTCTTTGTCAATACTCAGAGTCTCCATTCTTGTGTATAAACTAGAACAGCTATTCTGATTTTAGCAAAGGGATAAAATACTCAGCCAAACTTTGAATGAGAAACGACATTTAGTTTGGGTGAGCACATGAATAAGACCTTTTCATTTAGCTGGAATCACTTTGCA"	"CAAAACTTTATTTT"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"GTCATATCAACTTTTAACACATACAGAATCCACTGGACTCTTTGTCAATACTCAGAGTCTCCATTCTTGTGTATAAACTAGAACAGCTATTCTGATTTTAGCAAAGGGATAAAATACTCAGCCAAACTTTGAATGAGAAACGACATTTAGTTTGGGTGAGCACATGAATAAGACCTTTTCATTTAGCTGGAATCACTTTGCA"	"GTCATATCAACTTTTAACACATACAGAATCCACTGGACTCTTTGTCAATACTCAGAGTCTCCATTCTTGTGTATAAACTAGAACAGCTATTCTGATTTTAGCAAAGGGATAAAATACTCAGCCAAACTTTGAATGAGAAACGACATTTAGTTTGGGTGAGCACATGAATAAGACCTTTTCATTTAGCTGGAATCACTTTGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001510225"	""	81	"."	24	34	"."	0	""	"CAAAACTTTATTTT"	""	"ENSR00001510225"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGTCATATCAACTTTTAACACATACAGAATCCACTGGACTCTTTGTCAATACTCAGAGTCTCCATTCTTGTGTATAAACTAGAACAGCTATTCTGATTTTAGCAAAGGGATAAAATACTCAGCCAAACTTTGAATGAGAAACGACATTTAGTTTGGGTGAGCACATGAATAAGACCTTTTCATTTAGCTGGAATCACTTTGCAG"	"28c23ed6-a9a0-11e6-9936-e2c4913c143f"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"10111"	"LINC00348"	100885781	"mskcc.org"	"GRCh37"	"13"	71597627	71597628	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.108+8250dupA"	""	""	"ENST00000428761"	""	100	"."	10	49	"."	0	"LINC00348,intron_variant,,ENST00000428761,;"	"A"	"ENSG00000226846"	"ENST00000428761"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/948"	""	""	""	""	""	"1"	NA	1	"LINC00348"	"HGNC"	42658	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"847eaef6-a9a2-11e6-9936-e2c4913c143f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.1	"WGS"	FALSE
"10112"	"DACH1"	1602	"mskcc.org"	"GRCh37"	"13"	72246871	72246871	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.970+9056delT"	""	""	"ENST00000305425"	""	96	"."	17	59	"."	0	"DACH1,intron_variant,,ENST00000305425,NM_080759.4;DACH1,intron_variant,,ENST00000313174,NM_080760.4;DACH1,intron_variant,,ENST00000354591,NM_004392.5;DACH1,intron_variant,,ENST00000359684,;H3F3BP1,upstream_gene_variant,,ENST00000440551,;"	"-"	"ENSG00000165659"	"ENST00000305425"	"Transcript"	"intron_variant"	"-/5239"	"-/2127"	"-/708"	""	""	""	"1"	NA	-1	"DACH1"	"HGNC"	2663	"protein_coding"	"YES"	"CCDS41899.1"	"ENSP00000304994"	"Q9UI36"	""	"UPI00001FCE9E"	"NM_080759.4"	NA	NA	""	"2/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"5573b04c-a99e-11e6-9936-e2c4913c143f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.177083333333333	"WGS"	FALSE
"10113"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	79491676	79491679	"+"	"IGR"	"DEL"	"CTTA"	"CTTA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CTTA"	"CTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"."	12	65	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCTTAC"	"9c0fa650-a99e-11e6-9936-e2c4913c143f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.122448979591837	"WGS"	FALSE
"10114"	"GPC6"	10082	"mskcc.org"	"GRCh37"	"13"	94337042	94337049	"+"	"Intron"	"DEL"	"AGCATTTA"	"AGCATTTA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AGCATTTA"	"AGCATTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.319+139369_319+139376delGCATTTAA"	""	""	"ENST00000377047"	""	79	"."	7	65	"."	0	"GPC6,intron_variant,,ENST00000377047,NM_005708.3;"	"-"	"ENSG00000183098"	"ENST00000377047"	"Transcript"	"intron_variant"	"-/6467"	"-/1668"	"-/555"	""	""	""	"1"	NA	1	"GPC6"	"HGNC"	4454	"protein_coding"	"YES"	"CCDS9469.1"	"ENSP00000366246"	"Q9Y625"	""	"UPI0000032F5B"	"NM_005708.3"	NA	NA	""	"2/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATAGCATTTAA"	"28e14fde-a99f-11e6-9936-e2c4913c143f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"10115"	"TM9SF2"	9375	"mskcc.org"	"GRCh37"	"13"	100179085	100179085	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"rs199819127"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.334-2635delT"	""	""	"ENST00000376387"	""	82	"."	5	51	"."	0	"TM9SF2,intron_variant,,ENST00000376387,NM_004800.2;TM9SF2,intron_variant,,ENST00000463709,;"	"-"	"ENSG00000125304"	"ENST00000376387"	"Transcript"	"intron_variant"	"-/3430"	"-/1992"	"-/663"	""	""	"rs199819127"	"1"	NA	1	"TM9SF2"	"HGNC"	11865	"protein_coding"	"YES"	"CCDS9493.1"	"ENSP00000365567"	"Q99805"	""	"UPI000013684D"	"NM_004800.2"	NA	NA	""	"3/16"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTT"	"654e705a-a99f-11e6-9936-e2c4913c143f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0609756097560976	"WGS"	FALSE
"10116"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	111655850	111655851	"+"	"IGR"	"INS"	"-"	"-"	"AAAAAAAAAAAAAAAA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"."	5	58	"."	0	""	"AAAAAAAAAAAAAAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"0d4e9a4c-a9a4-11e6-9936-e2c4913c143f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0476190476190476	"WGS"	FALSE
"10117"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	112196037	112196038	"+"	"IGR"	"DEL"	"AT"	"AT"	"-"	"rs138489018"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"."	15	56	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138489018"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0026"	"-:0.0098"	"-:0"	NA	"-:0"	"-:0"	"-:0"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATG"	"dd9bfc6c-a99f-11e6-9936-e2c4913c143f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"10118"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	24185995	24186057	"+"	"IGR"	"DEL"	"CAGGCGTAAGCCACCGGGCCCAGCCAATTTAACATTTTTTTATATGGCAAAAGATACCGTAAA"	"CAGGCGTAAGCCACCGGGCCCAGCCAATTTAACATTTTTTTATATGGCAAAAGATACCGTAAA"	"ACAGGCGTAAGCCACCGGGCCCAGCCAATTTAACATTTTTTTATATGG"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CAGGCGTAAGCCACCGGGCCCAGCCAATTTAACATTTTTTTATATGGCAAAAGATACCGTAAA"	"CAGGCGTAAGCCACCGGGCCCAGCCAATTTAACATTTTTTTATATGGCAAAAGATACCGTAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	8	61	"."	0	""	"ACAGGCGTAAGCCACCGGGCCCAGCCAATTTAACATTTTTTTATATGG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCAGGCGTAAGCCACCGGGCCCAGCCAATTTAACATTTTTTTATATGGCAAAAGATACCGTAAAC"	"f24407c2-a99f-11e6-87c2-b6e5d4e1d892"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"10119"	"AL162759.1"	0	"mskcc.org"	"GRCh37"	"14"	54241118	54241118	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.581-5437delG"	""	""	"ENST00000418927"	""	98	"."	15	62	"."	0	"AL162759.1,intron_variant,,ENST00000418927,;"	"-"	"ENSG00000235269"	"ENST00000418927"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/602"	""	""	""	""	""	"1"	NA	-1	"AL162759.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACT"	"b511d8c2-a99d-11e6-87c2-b6e5d4e1d892"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.153061224489796	"WGS"	FALSE
"10120"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	66279171	66279172	"+"	"IGR"	"INS"	"-"	"-"	"TTTTTTTT"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"."	5	65	"."	0	""	"TTTTTTTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"30c98678-a9a2-11e6-87c2-b6e5d4e1d892"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0490196078431373	"WGS"	FALSE
"10121"	"RP11-483E23.5"	0	"mskcc.org"	"GRCh37"	"15"	28716298	28716309	"+"	"3'Flank"	"DEL"	"AAAAAAAAAAAA"	"AAAAAAAAAAAA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AAAAAAAAAAAA"	"AAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000563970"	""	89	"."	5	58	"."	0	"RP11-483E23.5,downstream_gene_variant,,ENST00000563970,;"	"-"	"ENSG00000261365"	"ENST00000563970"	"Transcript"	"downstream_gene_variant"	"-/127"	""	""	""	""	""	"1"	"2159"	-1	"RP11-483E23.5"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAAAAAAAAAAAA"	"d82440e4-a99c-11e6-b137-e829eeef8000"	"88"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0561797752808989	"WGS"	FALSE
"10122"	"RP13-395E19.3"	0	"mskcc.org"	"GRCh37"	"15"	32732247	32732248	"+"	"5'Flank"	"INS"	"-"	"-"	"AC"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000562108"	""	74	"."	6	37	"."	0	"RP13-395E19.3,upstream_gene_variant,,ENST00000562108,;DNM1P32,downstream_gene_variant,,ENST00000566124,;"	"AC"	"ENSG00000215304"	"ENST00000562108"	"Transcript"	"upstream_gene_variant"	"-/1097"	""	""	""	""	""	"1"	"4813"	-1	"RP13-395E19.3"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"f667da6c-a9a0-11e6-b137-e829eeef8000"	"247"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"10123"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	37850425	37850425	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"."	15	61	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCA"	"469daba0-a99d-11e6-b137-e829eeef8000"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"10124"	"EIF2AK4"	440275	"mskcc.org"	"GRCh37"	"15"	40233698	40233749	"+"	"Intron"	"DEL"	"ATTATACCATAGCCTCAAGAATTCAAAGTGTTTATTCTTGAAAAATCAAAAT"	"ATTATACCATAGCCTCAAGAATTCAAAGTGTTTATTCTTGAAAAATCAAAAT"	"TATTATACCATAGCCTCAAGAATTCAAAGTGTTTATTCTTGAAAAATCA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"ATTATACCATAGCCTCAAGAATTCAAAGTGTTTATTCTTGAAAAATCAAAAT"	"ATTATACCATAGCCTCAAGAATTCAAAGTGTTTATTCTTGAAAAATCAAAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.258-1835_257+1880delATTATACCATAGCCTCAAGAATTCAAAGTGTTTATTCTTGAAAAATCAAAATinsTATTATACCATAGCCTCAAGAATTCAAAGTGTTTATTCTTGAAAAATCA"	""	""	"ENST00000263791"	""	107	"."	6	57	"."	0	"EIF2AK4,intron_variant,,ENST00000263791,NM_001013703.2;EIF2AK4,intron_variant,,ENST00000382727,;EIF2AK4,intron_variant,,ENST00000559624,;EIF2AK4,intron_variant,,ENST00000560648,;"	"TATTATACCATAGCCTCAAGAATTCAAAGTGTTTATTCTTGAAAAATCA"	"ENSG00000128829"	"ENST00000263791"	"Transcript"	"intron_variant"	"-/5499"	"-/4950"	"-/1649"	""	""	""	"1"	NA	1	"EIF2AK4"	"HGNC"	19687	"protein_coding"	"YES"	"CCDS42016.1"	"ENSP00000263791"	"Q9P2K8"	""	"UPI0000160791"	"NM_001013703.2"	NA	NA	""	"2/38"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTATTATACCATAGCCTCAAGAATTCAAAGTGTTTATTCTTGAAAAATCAAAATA"	"072ecd52-a9a0-11e6-b137-e829eeef8000"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0560747663551402	"WGS"	FALSE
"10125"	"SLC30A4"	7782	"mskcc.org"	"GRCh37"	"15"	45769834	45769879	"+"	"3'Flank"	"DEL"	"ATATATATAATACATATATATAATATATATAATACATATATATAAT"	"ATATATATAATACATATATATAATATATATAATACATATATATAAT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"ATATATATAATACATATATATAATATATATAATACATATATATAAT"	"ATATATATAATACATATATATAATATATATAATACATATATATAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000261867"	""	77	"."	6	40	"."	0	"SLC30A4,downstream_gene_variant,,ENST00000261867,NM_013309.4;RP11-519G16.3,intron_variant,,ENST00000560077,;RP11-519G16.3,intron_variant,,ENST00000558536,;RP11-519G16.3,intron_variant,,ENST00000560647,;"	"-"	"ENSG00000104154"	"ENST00000261867"	"Transcript"	"downstream_gene_variant"	"-/7157"	"-/1290"	"-/429"	""	""	""	"1"	"1930"	-1	"SLC30A4"	"HGNC"	11015	"protein_coding"	"YES"	"CCDS10125.1"	"ENSP00000261867"	"O14863"	""	"UPI00000526F2"	"NM_013309.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAATATATATAATACATATATATAATATATATAATACATATATATAATA"	"a0f11380-a99d-11e6-b137-e829eeef8000"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"10126"	"PPCDC"	60490	"mskcc.org"	"GRCh37"	"15"	75319979	75319979	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-72-609delA"	""	""	"ENST00000342932"	""	98	"."	14	56	"."	0	"PPCDC,intron_variant,,ENST00000342932,NM_021823.3;PPCDC,intron_variant,,ENST00000568649,;PPCDC,intron_variant,,ENST00000564923,;PPCDC,intron_variant,,ENST00000569562,;PPCDC,upstream_gene_variant,,ENST00000567336,;PPCDC,upstream_gene_variant,,ENST00000562095,;PPCDC,intron_variant,,ENST00000568207,;PPCDC,intron_variant,,ENST00000562192,;RP11-151H2.1,downstream_gene_variant,,ENST00000565251,;"	"-"	"ENSG00000138621"	"ENST00000342932"	"Transcript"	"intron_variant"	"-/2250"	"-/615"	"-/204"	""	""	""	"1"	NA	1	"PPCDC"	"HGNC"	28107	"protein_coding"	"YES"	"CCDS10275.1"	"ENSP00000343190"	"Q96CD2"	"H3BU63,H3BU34,H3BPW5"	"UPI000013D223"	"NM_021823.3"	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAC"	"d03d0e9a-a99e-11e6-b137-e829eeef8000"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"10127"	"IL16"	3603	"mskcc.org"	"GRCh37"	"15"	81551114	81551115	"+"	"Intron"	"INS"	"-"	"-"	"TCTCTCTCTATA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.313-998_313-997insCTCTCTCTATAT"	""	""	"ENST00000302987"	""	94	"."	5	61	"."	0	"IL16,intron_variant,,ENST00000394660,NM_172217.3,NM_001172128.1;IL16,intron_variant,,ENST00000302987,;IL16,intron_variant,,ENST00000559388,;IL16,intron_variant,,ENST00000559383,;IL16,intron_variant,,ENST00000360547,;IL16,intron_variant,,ENST00000560241,;"	"TCTCTCTCTATA"	"ENSG00000172349"	"ENST00000302987"	"Transcript"	"intron_variant"	"-/3999"	"-/3999"	"-/1332"	""	""	""	"1"	NA	1	"IL16"	"HGNC"	5980	"protein_coding"	"YES"	"CCDS42069.1"	"ENSP00000302935"	"Q14005"	"H0YLL1"	"UPI0000229CE7"	""	NA	NA	""	"1/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"ec39f47e-a9a2-11e6-b137-e829eeef8000"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0531914893617021	"WGS"	FALSE
"10128"	"CNTNAP4"	85445	"mskcc.org"	"GRCh37"	"16"	76407077	76407144	"+"	"Intron"	"DEL"	"ATATATTCCACATAAATAGGTGAATATATTCCACATAAATAGGTGAATATATTCCACATAAATAGGTG"	"ATATATTCCACATAAATAGGTGAATATATTCCACATAAATAGGTGAATATATTCCACATAAATAGGTG"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"ATATATTCCACATAAATAGGTGAATATATTCCACATAAATAGGTGAATATATTCCACATAAATAGGTG"	"ATATATTCCACATAAATAGGTGAATATATTCCACATAAATAGGTGAATATATTCCACATAAATAGGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.315+17670_315+17737delTATATTCCACATAAATAGGTGAATATATTCCACATAAATAGGTGAATATATTCCACATAAATAGGTGA"	""	""	"ENST00000478060"	""	91	"."	6	49	"."	0	"CNTNAP4,intron_variant,,ENST00000307431,NM_033401.3;CNTNAP4,intron_variant,,ENST00000377504,;CNTNAP4,intron_variant,,ENST00000476707,;CNTNAP4,intron_variant,,ENST00000478060,NM_138994.3;CNTNAP4,intron_variant,,ENST00000469589,;CNTNAP4,intron_variant,,ENST00000469667,;CNTNAP4,intron_variant,,ENST00000463177,;CNTNAP4,intron_variant,,ENST00000471618,;"	"-"	"ENSG00000152910"	"ENST00000478060"	"Transcript"	"intron_variant"	"-/3708"	"-/3708"	"-/1235"	""	""	""	"1"	NA	1	"CNTNAP4"	"HGNC"	18747	"protein_coding"	"YES"	"CCDS10924.2"	"ENSP00000418741"	"Q9C0A0"	"H3BPC8"	"UPI000059D3C6"	"NM_138994.3"	NA	NA	""	"3/22"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAATATATTCCACATAAATAGGTGAATATATTCCACATAAATAGGTGAATATATTCCACATAAATAGGTGA"	"3b5f39ae-aa13-11e6-b881-a69cc7ed6826"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"10129"	"MAP2K4"	6416	"mskcc.org"	"GRCh37"	"17"	12004828	12004828	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.513+5818delA"	""	""	"ENST00000353533"	""	94	"."	16	49	"."	0	"MAP2K4,intron_variant,,ENST00000415385,NM_001281435.1;MAP2K4,intron_variant,,ENST00000353533,NM_003010.3;MAP2K4,intron_variant,,ENST00000581941,;MAP2K4,intron_variant,,ENST00000579089,;MAP2K4,intron_variant,,ENST00000602811,;MAP2K4,intron_variant,,ENST00000602375,;MAP2K4,intron_variant,,ENST00000602686,;MAP2K4,intron_variant,,ENST00000602305,;MAP2K4,intron_variant,,ENST00000602537,;MAP2K4,intron_variant,,ENST00000538465,;MAP2K4,intron_variant,,ENST00000582377,;MAP2K4,intron_variant,,ENST00000582183,;"	"-"	"ENSG00000065559"	"ENST00000353533"	"Transcript"	"intron_variant"	"-/3826"	"-/1200"	"-/399"	""	""	""	"1"	NA	1	"MAP2K4"	"HGNC"	6844	"protein_coding"	"YES"	"CCDS11162.1"	"ENSP00000262445"	"P45985"	"J3QQR2,J3KTI6"	"UPI000012F48E"	"NM_003010.3"	NA	NA	""	"4/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"ca2557c6-a99c-11e6-9381-e29350ff6c36"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.170212765957447	"WGS"	TRUE
"10130"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	14978060	14978061	"+"	"IGR"	"INS"	"-"	"-"	"AAAAAAA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"."	5	63	"."	0	""	"AAAAAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"57570372-a9a4-11e6-9381-e29350ff6c36"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0531914893617021	"WGS"	FALSE
"10131"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	46902595	46902596	"+"	"IGR"	"INS"	"-"	"-"	"TTTTTTT"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"."	8	59	"."	0	""	"TTTTTTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"f7894b56-a9a5-11e6-9381-e29350ff6c36"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"10132"	"RP11-1018N14.1"	101927274	"mskcc.org"	"GRCh37"	"17"	49409685	49409685	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1356+676delC"	""	""	"ENST00000514726"	""	93	"."	5	56	"."	0	"RP11-1018N14.1,intron_variant,,ENST00000514726,;RP11-1018N14.2,upstream_gene_variant,,ENST00000441895,;RP11-1018N14.3,upstream_gene_variant,,ENST00000505978,;RP11-1018N14.4,upstream_gene_variant,,ENST00000510059,;"	"-"	"ENSG00000249383"	"ENST00000514726"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1723"	""	""	""	""	""	"1"	NA	-1	"RP11-1018N14.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGG"	"891f935e-a9a1-11e6-9381-e29350ff6c36"	"94"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0537634408602151	"WGS"	FALSE
"10133"	"SLC39A11"	201266	"mskcc.org"	"GRCh37"	"17"	70848343	70848344	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAAA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.452-2409_452-2401dupTTTTTTTTT"	""	""	"ENST00000542342"	""	90	"."	5	63	"."	0	"SLC39A11,intron_variant,,ENST00000542342,NM_001159770.1;SLC39A11,intron_variant,,ENST00000255559,NM_139177.3;SLC39A11,intron_variant,,ENST00000579732,;SLC39A11,intron_variant,,ENST00000580557,;SLC39A11,intron_variant,,ENST00000582769,;SLC39A11,intron_variant,,ENST00000583146,;SLC39A11,upstream_gene_variant,,ENST00000583715,;SLC39A11,upstream_gene_variant,,ENST00000581581,;SLC39A11,intron_variant,,ENST00000579491,;SLC39A11,intron_variant,,ENST00000584129,;SLC39A11,upstream_gene_variant,,ENST00000579319,;"	"AAAAAAAAA"	"ENSG00000133195"	"ENST00000542342"	"Transcript"	"intron_variant"	"-/2752"	"-/1029"	"-/342"	""	""	""	"1"	NA	-1	"SLC39A11"	"HGNC"	14463	"protein_coding"	"YES"	"CCDS54160.1"	"ENSP00000445829"	"Q8N1S5"	"J3QLA9,J3KT59,J3KRI1"	"UPI000020017B"	"NM_001159770.1"	NA	NA	""	"5/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"1a530d4c-a9a7-11e6-9381-e29350ff6c36"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"10134"	"PTPRM"	5797	"mskcc.org"	"GRCh37"	"18"	8140524	8140525	"+"	"Intron"	"DEL"	"TT"	"TT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2168-3117_2168-3116delTT"	""	""	"ENST00000580170"	""	78	"."	5	49	"."	0	"PTPRM,intron_variant,,ENST00000332175,NM_002845.3;PTPRM,intron_variant,,ENST00000580170,NM_001105244.1;PTPRM,intron_variant,,ENST00000400053,;PTPRM,intron_variant,,ENST00000444013,;PTPRM,intron_variant,,ENST00000400060,;PTPRM,intron_variant,,ENST00000583289,;PTPRM,intron_variant,,ENST00000577468,;PTPRM,intron_variant,,ENST00000577827,;"	"-"	"ENSG00000173482"	"ENST00000580170"	"Transcript"	"intron_variant"	"-/5941"	"-/4398"	"-/1465"	""	""	""	"1"	NA	1	"PTPRM"	"HGNC"	9675	"protein_coding"	"YES"	"CCDS58613.1"	"ENSP00000463325"	"P28827"	"Q49AC9"	"UPI00015CFC03"	"NM_001105244.1"	NA	NA	""	"13/32"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTT"	"aed9fc60-a99c-11e6-8cbe-d6627721223b"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0641025641025641	"WGS"	FALSE
"10135"	"RP11-534N16.1"	101927718	"mskcc.org"	"GRCh37"	"18"	28944802	28944803	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTTTTTT"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.96-10399_96-10387dupAAAAAAAAAAAAA"	""	""	"ENST00000581856"	""	74	"."	5	45	"."	0	"RP11-534N16.1,intron_variant,,ENST00000581856,;RP11-534N16.1,intron_variant,,ENST00000578477,;RP11-534N16.1,intron_variant,,ENST00000581452,;"	"TTTTTTTTTTTTT"	"ENSG00000266729"	"ENST00000581856"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/669"	""	""	""	""	""	"1"	NA	-1	"RP11-534N16.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"833bad56-a9a1-11e6-8cbe-d6627721223b"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0675675675675676	"WGS"	FALSE
"10136"	"CCDC178"	374864	"mskcc.org"	"GRCh37"	"18"	30576790	30576790	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2389-22145delG"	""	""	"ENST00000383096"	""	96	"."	10	63	"."	0	"CCDC178,intron_variant,,ENST00000383096,;CCDC178,intron_variant,,ENST00000403303,NM_001105528.1;CCDC178,intron_variant,,ENST00000583930,;CCDC178,intron_variant,,ENST00000300227,NM_198995.2;CCDC178,intron_variant,,ENST00000406524,;CCDC178,intron_variant,,ENST00000579947,;CCDC178,intron_variant,,ENST00000402325,;CCDC178,intron_variant,,ENST00000581524,;CCDC178,intron_variant,,ENST00000579916,;CCDC178,intron_variant,,ENST00000581852,;"	"-"	"ENSG00000166960"	"ENST00000383096"	"Transcript"	"intron_variant"	"-/3391"	"-/2604"	"-/867"	""	""	""	"1"	NA	-1	"CCDC178"	"HGNC"	29588	"protein_coding"	"YES"	"CCDS42424.1"	"ENSP00000372576"	"Q5BJE1"	"J3QKU2"	"UPI000022A700"	""	NA	NA	""	"21/22"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCA"	"7efe5058-a99d-11e6-8cbe-d6627721223b"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.104166666666667	"WGS"	FALSE
"10137"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	42224239	42224242	"+"	"IGR"	"DEL"	"GTTT"	"GTTT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"GTTT"	"GTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"."	9	48	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGTTTG"	"e7484ad8-a99d-11e6-8cbe-d6627721223b"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.116883116883117	"WGS"	FALSE
"10138"	"TCF4"	6925	"mskcc.org"	"GRCh37"	"18"	52970485	52970486	"+"	"Intron"	"INS"	"-"	"-"	"ACACACACACACACCCCTACACACACACACACACCCCT"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.856-23599_856-23598insAGGGGTGTGTGTGTGTGTGTAGGGGTGTGTGTGTGTGT"	""	""	"ENST00000398339"	""	106	"."	8	59	"."	0	"TCF4,intron_variant,,ENST00000354452,NM_001083962.1;TCF4,intron_variant,,ENST00000356073,NM_003199.2;TCF4,intron_variant,,ENST00000537578,NM_001243227.1;TCF4,intron_variant,,ENST00000564403,NM_001243228.1;TCF4,intron_variant,,ENST00000568740,;TCF4,intron_variant,,ENST00000540999,;TCF4,intron_variant,,ENST00000398339,NM_001243226.1;TCF4,intron_variant,,ENST00000457482,;TCF4,intron_variant,,ENST00000565018,;TCF4,intron_variant,,ENST00000568673,;TCF4,intron_variant,,ENST00000564999,;TCF4,intron_variant,,ENST00000543082,NM_001243231.1;TCF4,intron_variant,,ENST00000544241,NM_001243232.1;TCF4,intron_variant,,ENST00000561992,NM_001243233.1;TCF4,intron_variant,,ENST00000566279,;TCF4,intron_variant,,ENST00000566286,NM_001243230.1;TCF4,intron_variant,,ENST00000567880,;TCF4,intron_variant,,ENST00000537856,;TCF4,intron_variant,,ENST00000564228,;TCF4,intron_variant,,ENST00000570287,NM_001243235.1,NM_001243234.1;TCF4,intron_variant,,ENST00000570177,;TCF4,intron_variant,,ENST00000568169,;TCF4,intron_variant,,ENST00000566514,;TCF4,intron_variant,,ENST00000565908,;TCF4,intron_variant,,ENST00000568186,;TCF4,intron_variant,,ENST00000562607,;TCF4,intron_variant,,ENST00000566777,;TCF4,intron_variant,,ENST00000569012,;TCF4,intron_variant,,ENST00000562638,;TCF4,upstream_gene_variant,,ENST00000561831,NM_001243236.1;TCF4,intron_variant,,ENST00000563760,;TCF4,intron_variant,,ENST00000563686,;TCF4,intron_variant,,ENST00000562680,;"	"ACACACACACACACCCCTACACACACACACACACCCCT"	"ENSG00000196628"	"ENST00000398339"	"Transcript"	"intron_variant"	"-/2478"	"-/2322"	"-/773"	""	""	""	"1"	NA	-1	"TCF4"	"HGNC"	11634	"protein_coding"	"YES"	"CCDS58631.1"	"ENSP00000381382"	""	"K7ERJ0,H3BUQ3,H3BTM9,H3BTC3,H3BT24,H3BSX3,H3BRF7,H3BPG3,H3BP59,H3BNZ2,H3BNI2,H3BME8,H3BMC8,G0LNT8,G0LNT7,G0LNT4,G0LNT3,E9PH57"	"UPI000059D58C"	"NM_001243226.1"	NA	NA	""	"9/20"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"6a77fa44-a9a2-11e6-8cbe-d6627721223b"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0754716981132075	"WGS"	FALSE
"10139"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	65954888	65954891	"+"	"IGR"	"DEL"	"GACA"	"GACA"	"ACC"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"GACA"	"GACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"."	26	54	"."	0	""	"ACC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGACAC"	"455fd8dc-a9a0-11e6-8cbe-d6627721223b"	"1560"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.245283018867925	"WGS"	FALSE
"10140"	"CTD-3193O13.10"	388499	"mskcc.org"	"GRCh37"	"19"	7945809	7946303	"+"	"5'Flank"	"DEL"	"CCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCAGCTATATATATATTTTAAACAGTGAGGGGCTGTTTTGTTTTGTTTTGTTTTTTGGTTTTGTTTGTTCGTTTGTTTGTTTGGATGGAGTCCTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGTTTGATCTCAGCTCACTGCAACCTCCACCTCCTGGGTTCAAGTGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGCCCACCATCACGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACAAGTTTTCACCCTGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCACGTAATCCACCCGCCTCAGCCTCCCAAAGTGTTGGTATTACAGGCGTGAGCCACCGCGCCCAGCCCCTAATTTTGTATTTTTAGTAGAGACGGGGTTTCGCCATGTTGGCCAGGCTGGTCTTGAACTCCTGGCCTCAAGTGATCCACCCACCTTGA"	"CCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCAGCTATATATATATTTTAAACAGTGAGGGGCTGTTTTGTTTTGTTTTGTTTTTTGGTTTTGTTTGTTCGTTTGTTTGTTTGGATGGAGTCCTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGTTTGATCTCAGCTCACTGCAACCTCCACCTCCTGGGTTCAAGTGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGCCCACCATCACGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACAAGTTTTCACCCTGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCACGTAATCCACCCGCCTCAGCCTCCCAAAGTGTTGGTATTACAGGCGTGAGCCACCGCGCCCAGCCCCTAATTTTGTATTTTTAGTAGAGACGGGGTTTCGCCATGTTGGCCAGGCTGGTCTTGAACTCCTGGCCTCAAGTGATCCACCCACCTTGA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCAGCTATATATATATTTTAAACAGTGAGGGGCTGTTTTGTTTTGTTTTGTTTTTTGGTTTTGTTTGTTCGTTTGTTTGTTTGGATGGAGTCCTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGTTTGATCTCAGCTCACTGCAACCTCCACCTCCTGGGTTCAAGTGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGCCCACCATCACGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACAAGTTTTCACCCTGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCACGTAATCCACCCGCCTCAGCCTCCCAAAGTGTTGGTATTACAGGCGTGAGCCACCGCGCCCAGCCCCTAATTTTGTATTTTTAGTAGAGACGGGGTTTCGCCATGTTGGCCAGGCTGGTCTTGAACTCCTGGCCTCAAGTGATCCACCCACCTTGA"	"CCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCAGCTATATATATATTTTAAACAGTGAGGGGCTGTTTTGTTTTGTTTTGTTTTTTGGTTTTGTTTGTTCGTTTGTTTGTTTGGATGGAGTCCTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGTTTGATCTCAGCTCACTGCAACCTCCACCTCCTGGGTTCAAGTGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGCCCACCATCACGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACAAGTTTTCACCCTGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCACGTAATCCACCCGCCTCAGCCTCCCAAAGTGTTGGTATTACAGGCGTGAGCCACCGCGCCCAGCCCCTAATTTTGTATTTTTAGTAGAGACGGGGTTTCGCCATGTTGGCCAGGCTGGTCTTGAACTCCTGGCCTCAAGTGATCCACCCACCTTGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000600506"	""	93	"."	5	54	"."	0	"CTD-3193O13.10,upstream_gene_variant,,ENST00000600506,;"	"-"	"ENSG00000269153"	"ENST00000600506"	"Transcript"	"upstream_gene_variant"	"-/676"	""	""	""	""	""	"1"	"804"	-1	"CTD-3193O13.10"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCAGCTATATATATATTTTAAACAGTGAGGGGCTGTTTTGTTTTGTTTTGTTTTTTGGTTTTGTTTGTTCGTTTGTTTGTTTGGATGGAGTCCTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGTTTGATCTCAGCTCACTGCAACCTCCACCTCCTGGGTTCAAGTGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGCCCACCATCACGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACAAGTTTTCACCCTGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCACGTAATCCACCCGCCTCAGCCTCCCAAAGTGTTGGTATTACAGGCGTGAGCCACCGCGCCCAGCCCCTAATTTTGTATTTTTAGTAGAGACGGGGTTTCGCCATGTTGGCCAGGCTGGTCTTGAACTCCTGGCCTCAAGTGATCCACCCACCTTGAC"	"a9f21a84-a99c-11e6-9dce-dfc6ea1ea0af"	"241"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0537634408602151	"WGS"	FALSE
"10141"	"MAN2B1"	4125	"mskcc.org"	"GRCh37"	"19"	12752928	12752929	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000456935"	""	99	"."	5	56	"."	0	"MAN2B1,downstream_gene_variant,,ENST00000456935,NM_000528.3,NM_001173498.1;MAN2B1,downstream_gene_variant,,ENST00000221363,;ZNF490,upstream_gene_variant,,ENST00000465656,;MAN2B1,downstream_gene_variant,,ENST00000480851,;MAN2B1,downstream_gene_variant,,ENST00000466794,;CTD-2192J16.22,downstream_gene_variant,,ENST00000597692,;MAN2B1,downstream_gene_variant,,ENST00000469423,;MAN2B1,downstream_gene_variant,,ENST00000493218,;CTD-2192J16.15,downstream_gene_variant,,ENST00000325000,;"	"A"	"ENSG00000104774"	"ENST00000456935"	"Transcript"	"downstream_gene_variant"	"-/3184"	"-/3036"	"-/1011"	""	""	""	"1"	"4398"	-1	"MAN2B1"	"HGNC"	6826	"protein_coding"	"YES"	"CCDS32919.1"	"ENSP00000395473"	"O00754"	"B4E0K9"	"UPI00000559EC"	"NM_000528.3,NM_001173498.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"adaf249c-a9a0-11e6-9dce-dfc6ea1ea0af"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0505050505050505	"WGS"	FALSE
"10142"	"ZNF701"	55762	"mskcc.org"	"GRCh37"	"19"	53090475	53090475	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000540331"	""	104	"."	15	58	"."	0	"ZNF701,downstream_gene_variant,,ENST00000540331,NM_001172655.1;ZNF701,downstream_gene_variant,,ENST00000391785,NM_018260.2;ZNF701,downstream_gene_variant,,ENST00000301093,;ZNF701,downstream_gene_variant,,ENST00000593941,;ZNF701,downstream_gene_variant,,ENST00000596514,;CTD-3099C6.7,upstream_gene_variant,,ENST00000599222,;ZNF137P,upstream_gene_variant,,ENST00000597158,;ZNF137P,upstream_gene_variant,,ENST00000456718,;"	"-"	"ENSG00000167562"	"ENST00000540331"	"Transcript"	"downstream_gene_variant"	"-/5538"	"-/1596"	"-/531"	""	""	""	"1"	"48"	1	"ZNF701"	"HGNC"	25597	"protein_coding"	"YES"	"CCDS54311.1"	"ENSP00000444339"	""	"M0R085,F5GZM6"	"UPI0001C53D22"	"NM_001172655.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"47b84dd6-a99f-11e6-9dce-dfc6ea1ea0af"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.144230769230769	"WGS"	FALSE
"10143"	"CACNG7"	59284	"mskcc.org"	"GRCh37"	"19"	54449844	54449853	"+"	"3'Flank"	"DEL"	"TTTTTTTTTT"	"TTTTTTTTTT"	"ATATATATA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TTTTTTTTTT"	"TTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000391767"	""	86	"."	8	35	"."	0	"CACNG7,downstream_gene_variant,,ENST00000391767,;CACNG7,downstream_gene_variant,,ENST00000222212,NM_031896.4;CACNG7,downstream_gene_variant,,ENST00000391766,;CACNG7,downstream_gene_variant,,ENST00000468076,;"	"ATATATATA"	"ENSG00000105605"	"ENST00000391767"	"Transcript"	"downstream_gene_variant"	"-/2688"	"-/828"	"-/275"	""	""	""	"1"	"2649"	1	"CACNG7"	"HGNC"	13626	"protein_coding"	"YES"	"CCDS12868.1"	"ENSP00000375647"	"P62955"	""	"UPI00000010F1"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTTTTTTTTTTT"	"ecea493a-a99f-11e6-9dce-dfc6ea1ea0af"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"10144"	"ZNF549"	256051	"mskcc.org"	"GRCh37"	"19"	58073857	58073857	"+"	"3'Flank"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000602149"	""	100	"."	17	67	"."	0	"ZNF549,downstream_gene_variant,,ENST00000602149,;ZNF550,upstream_gene_variant,,ENST00000325134,;ZNF550,upstream_gene_variant,,ENST00000457177,NM_001277090.1,NM_001277093.1,NM_001277092.1,NM_001277091.1;ZNF550,upstream_gene_variant,,ENST00000601415,;ZNF550,upstream_gene_variant,,ENST00000447310,;ZNF550,upstream_gene_variant,,ENST00000376230,;ZNF550,upstream_gene_variant,,ENST00000595560,;"	"-"	"ENSG00000121406"	"ENST00000602149"	"Transcript"	"downstream_gene_variant"	"-/5505"	"-/315"	"-/104"	""	""	""	"1"	"4947"	1	"ZNF549"	"HGNC"	26632	"protein_coding"	""	""	"ENSP00000469280"	""	"M0QXN3"	"UPI0002A47740"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"a3dc3b54-a99f-11e6-9dce-dfc6ea1ea0af"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.17	"WGS"	FALSE
"10145"	"ALK"	238	"mskcc.org"	"GRCh37"	"2"	29585312	29585313	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1282+21285_1282+21286delCA"	""	""	"ENST00000389048"	""	86	"."	14	53	"."	0	"ALK,intron_variant,,ENST00000389048,NM_004304.4;ALK,intron_variant,,ENST00000431873,;"	"-"	"ENSG00000171094"	"ENST00000389048"	"Transcript"	"intron_variant"	"-/6220"	"-/4863"	"-/1620"	""	""	""	"1"	NA	-1	"ALK"	"HGNC"	427	"protein_coding"	"YES"	"CCDS33172.1"	"ENSP00000373700"	"Q9UM73"	"Q580I3"	"UPI00001684DA"	"NM_004304.4"	NA	NA	""	"5/28"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AATGT"	"2b10dbe6-a99d-11e6-9c07-b6f2d6c9aa6f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.162790697674419	"WGS"	TRUE
"10146"	"IMMT"	10989	"mskcc.org"	"GRCh37"	"2"	86379563	86379564	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1178-926_1178-921dupTTTTTT"	""	""	"ENST00000410111"	""	108	"."	7	52	"."	0	"IMMT,intron_variant,,ENST00000410111,NM_001100169.1,NM_006839.2,NM_001100170.1;IMMT,intron_variant,,ENST00000449247,;IMMT,intron_variant,,ENST00000442664,;IMMT,intron_variant,,ENST00000254636,;IMMT,intron_variant,,ENST00000409051,;IMMT,intron_variant,,ENST00000419070,;"	"AAAAAA"	"ENSG00000132305"	"ENST00000410111"	"Transcript"	"intron_variant"	"-/3001"	"-/2277"	"-/758"	""	""	""	"1"	NA	-1	"IMMT"	"HGNC"	6047	"protein_coding"	"YES"	"CCDS46355.1"	"ENSP00000387262"	"Q16891"	""	"UPI0000073828"	"NM_001100169.1,NM_006839.2,NM_001100170.1"	NA	NA	""	"11/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"1896a9a2-a9aa-11e6-9c07-b6f2d6c9aa6f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0648148148148148	"WGS"	FALSE
"10147"	"ANKRD36B"	0	"mskcc.org"	"GRCh37"	"2"	98152176	98152177	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2471+586dupA"	""	""	"ENST00000258459"	""	127	"."	7	76	"."	0	"ANKRD36B,intron_variant,,ENST00000258459,;ANKRD36B,intron_variant,,ENST00000438709,;ANKRD36B,intron_variant,,ENST00000377003,;ANKRD36B,intron_variant,,ENST00000359901,;ANKRD36B,intron_variant,,ENST00000447597,;"	"T"	"ENSG00000196912"	"ENST00000258459"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/5986"	""	""	""	""	""	"1"	NA	-1	"ANKRD36B"	"HGNC"	29333	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"34/43"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"ba88f04e-a9aa-11e6-9c07-b6f2d6c9aa6f"	"189"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0551181102362205	"WGS"	FALSE
"10148"	"AFF3"	3899	"mskcc.org"	"GRCh37"	"2"	100405906	100405921	"+"	"Intron"	"DEL"	"ACCAAAAAAAAAAAAA"	"ACCAAAAAAAAAAAAA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"ACCAAAAAAAAAAAAA"	"ACCAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.997-37158_997-37143delTTTTTTTTTTTTTGGT"	""	""	"ENST00000356421"	""	86	"."	15	43	"."	0	"AFF3,intron_variant,,ENST00000409236,;AFF3,intron_variant,,ENST00000317233,NM_002285.2;AFF3,intron_variant,,ENST00000356421,NM_001025108.1;AFF3,intron_variant,,ENST00000409579,;AFF3,intron_variant,,ENST00000430789,;"	"-"	"ENSG00000144218"	"ENST00000356421"	"Transcript"	"intron_variant"	"-/8118"	"-/3756"	"-/1251"	""	""	""	"1"	NA	-1	"AFF3"	"HGNC"	6473	"protein_coding"	"YES"	"CCDS33258.1"	"ENSP00000348793"	"P51826"	""	"UPI000041098C"	"NM_001025108.1"	NA	NA	""	"7/23"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCACCAAAAAAAAAAAAAA"	"060628c6-a9a0-11e6-9c07-b6f2d6c9aa6f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.174418604651163	"WGS"	TRUE
"10149"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	107521297	107521297	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"."	13	50	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGG"	"48cde31a-a9a0-11e6-9c07-b6f2d6c9aa6f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.151162790697674	"WGS"	FALSE
"10150"	"SH3RF3"	344558	"mskcc.org"	"GRCh37"	"2"	109835266	109835266	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.573+88701delA"	""	""	"ENST00000309415"	""	83	"."	5	60	"."	0	"SH3RF3,intron_variant,,ENST00000309415,NM_001099289.1;SH3RF3,intron_variant,,ENST00000418513,;"	"-"	"ENSG00000172985"	"ENST00000309415"	"Transcript"	"intron_variant"	"-/2649"	"-/2649"	"-/882"	""	""	""	"1"	NA	1	"SH3RF3"	"HGNC"	24699	"protein_coding"	"YES"	""	"ENSP00000309186"	"Q8TEJ3"	"C9JNJ4"	"UPI0000DD7AEA"	"NM_001099289.1"	NA	NA	""	"1/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAA"	"612ba8ac-a9a0-11e6-9c07-b6f2d6c9aa6f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0602409638554217	"WGS"	FALSE
"10151"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	140510974	140510974	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"."	8	58	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTT"	"92b8e794-a9a1-11e6-9c07-b6f2d6c9aa6f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"10152"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	146499941	146499942	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"."	10	44	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"cc03c946-a9ac-11e6-9c07-b6f2d6c9aa6f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0840336134453782	"WGS"	FALSE
"10153"	"GALNT13"	114805	"mskcc.org"	"GRCh37"	"2"	155005425	155005429	"+"	"Intron"	"DEL"	"GCAGA"	"GCAGA"	"CCGG"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"GCAGA"	"GCAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.311+8407_311+8411delGCAGAinsCCGG"	""	""	"ENST00000392825"	""	89	"."	22	47	"."	0	"GALNT13,intron_variant,,ENST00000392825,NM_052917.2;GALNT13,intron_variant,,ENST00000409237,;AC008166.1,upstream_gene_variant,,ENST00000582975,;GALNT13,intron_variant,,ENST00000431076,;"	"CCGG"	"ENSG00000144278"	"ENST00000392825"	"Transcript"	"intron_variant"	"-/5536"	"-/1671"	"-/556"	""	""	""	"1"	NA	1	"GALNT13"	"HGNC"	23242	"protein_coding"	"YES"	"CCDS2199.1"	"ENSP00000376570"	"Q8IUC8"	"Q68VI8"	"UPI0000051E22"	"NM_052917.2"	NA	NA	""	"4/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGCAGAA"	"575506ce-a9a6-11e6-9c07-b6f2d6c9aa6f"	"983"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.247191011235955	"WGS"	FALSE
"10154"	"BAZ2B"	29994	"mskcc.org"	"GRCh37"	"2"	160347088	160347099	"+"	"Intron"	"DEL"	"CGTGATCACAGC"	"CGTGATCACAGC"	"TGCAC"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CGTGATCACAGC"	"CGTGATCACAGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-2-11866_-2-11856delCTGTGATCACGinsTGCA"	""	""	"ENST00000392783"	""	126	"."	39	55	"."	0	"BAZ2B,intron_variant,,ENST00000392783,NM_013450.2;BAZ2B,intron_variant,,ENST00000392782,;BAZ2B,intron_variant,,ENST00000355831,;BAZ2B,intron_variant,,ENST00000343439,;BAZ2B,intron_variant,,ENST00000437839,;BAZ2B,intron_variant,,ENST00000541068,;BAZ2B,intron_variant,,ENST00000483316,;BAZ2B,intron_variant,,ENST00000482503,;BAZ2B,intron_variant,,ENST00000467184,;"	"TGCA"	"ENSG00000123636"	"ENST00000392783"	"Transcript"	"intron_variant"	"-/8289"	"-/6507"	"-/2168"	""	""	""	"1"	NA	-1	"BAZ2B"	"HGNC"	963	"protein_coding"	"YES"	"CCDS2209.2"	"ENSP00000376534"	"Q9UIF8"	"Q8NC87,Q53TG3,C9JCA6"	"UPI0000D74C4A"	"NM_013450.2"	NA	NA	""	"2/36"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCGTGATCACAGCT"	"58d8eb78-a9a6-11e6-9c07-b6f2d6c9aa6f"	"2340"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.30952380952381	"WGS"	FALSE
"10155"	"CSRNP3"	80034	"mskcc.org"	"GRCh37"	"2"	166333993	166333994	"+"	"Intron"	"INS"	"-"	"-"	"TGAAATATATAT"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-283+7743_-283+7744insTGAAATATATAT"	""	""	"ENST00000314499"	""	56	"."	6	44	"."	0	"CSRNP3,intron_variant,,ENST00000314499,NM_001172173.1;CSRNP3,intron_variant,,ENST00000421875,;CSRNP3,intron_variant,,ENST00000409664,;CSRNP3,intron_variant,,ENST00000464503,;"	"TGAAATATATAT"	"ENSG00000178662"	"ENST00000314499"	"Transcript"	"intron_variant"	"-/11788"	"-/1758"	"-/585"	""	""	""	"1"	NA	1	"CSRNP3"	"HGNC"	30729	"protein_coding"	"YES"	"CCDS2225.1"	"ENSP00000318258"	"Q8WYN3"	"E7EN18,B8ZZD9"	"UPI0000136882"	"NM_001172173.1"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"98e8059e-a9ad-11e6-9c07-b6f2d6c9aa6f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"10156"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	171738570	171738590	"+"	"IGR"	"DEL"	"AAGCTCCTGCCTTTCACTGGT"	"AAGCTCCTGCCTTTCACTGGT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AAGCTCCTGCCTTTCACTGGT"	"AAGCTCCTGCCTTTCACTGGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"."	13	63	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAGCTCCTGCCTTTCACTGGTA"	"c178f7c6-a9a2-11e6-9c07-b6f2d6c9aa6f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.168831168831169	"WGS"	FALSE
"10157"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	174247497	174247497	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"."	10	49	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"d81a2a18-a9a2-11e6-9c07-b6f2d6c9aa6f"	"580"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"10158"	"ZNF804A"	91752	"mskcc.org"	"GRCh37"	"2"	185668087	185668087	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.112-63009delC"	""	""	"ENST00000302277"	""	117	"."	12	56	"."	0	"ZNF804A,intron_variant,,ENST00000302277,NM_194250.1;"	"-"	"ENSG00000170396"	"ENST00000302277"	"Transcript"	"intron_variant"	"-/4690"	"-/3630"	"-/1209"	""	""	""	"1"	NA	1	"ZNF804A"	"HGNC"	21711	"protein_coding"	"YES"	"CCDS2291.1"	"ENSP00000303252"	"Q7Z570"	""	"UPI00001B4B18"	"NM_194250.1"	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACT"	"20dcde94-a9a3-11e6-9c07-b6f2d6c9aa6f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"10159"	"AC079610.1"	0	"mskcc.org"	"GRCh37"	"2"	213500753	213500753	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.382-54621delA"	""	""	"ENST00000415387"	""	95	"."	16	59	"."	0	"AC079610.1,intron_variant,,ENST00000415387,;"	"-"	"ENSG00000273118"	"ENST00000415387"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/433"	""	""	""	""	""	"1"	NA	-1	"AC079610.1"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"2f039836-a9a4-11e6-9c07-b6f2d6c9aa6f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.168421052631579	"WGS"	FALSE
"10160"	"AC012668.2"	0	"mskcc.org"	"GRCh37"	"2"	216410490	216410493	"+"	"5'Flank"	"DEL"	"TAAT"	"TAAT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TAAT"	"TAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000417485"	""	94	"."	15	76	"."	0	"AC012668.2,intron_variant,,ENST00000422353,;AC012668.2,upstream_gene_variant,,ENST00000417485,;AC012668.1,upstream_gene_variant,,ENST00000431727,;"	"-"	"ENSG00000237525"	"ENST00000417485"	"Transcript"	"upstream_gene_variant"	"-/1642"	""	""	""	""	""	"1"	"428"	1	"AC012668.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATAATT"	"5161ed7e-a9a4-11e6-9c07-b6f2d6c9aa6f"	"880"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.159574468085106	"WGS"	FALSE
"10161"	"PLCD4"	84812	"mskcc.org"	"GRCh37"	"2"	219486442	219486455	"+"	"Intron"	"DEL"	"CTAGGCTCAATGCC"	"CTAGGCTCAATGCC"	"-"	"rs376175707"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CTAGGCTCAATGCC"	"CTAGGCTCAATGCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.540+132_540+145delCCCTAGGCTCAATG"	""	""	"ENST00000450993"	""	89	"."	12	58	"."	0	"PLCD4,intron_variant,,ENST00000450993,NM_032726.3;PLCD4,intron_variant,,ENST00000432688,;PLCD4,intron_variant,,ENST00000417849,;PLCD4,downstream_gene_variant,,ENST00000415854,;U3,downstream_gene_variant,,ENST00000516996,;PLCD4,intron_variant,,ENST00000473443,;PLCD4,intron_variant,,ENST00000483685,;PLCD4,intron_variant,,ENST00000469493,;PLCD4,intron_variant,,ENST00000465713,;PLCD4,intron_variant,,ENST00000446503,;PLCD4,upstream_gene_variant,,ENST00000459791,;PLCD4,downstream_gene_variant,,ENST00000444453,;"	"-"	"ENSG00000115556"	"ENST00000450993"	"Transcript"	"intron_variant"	"-/3232"	"-/2289"	"-/762"	""	""	"rs376175707"	"1"	NA	1	"PLCD4"	"HGNC"	9062	"protein_coding"	"YES"	"CCDS46516.1"	"ENSP00000388631"	"Q9BRC7"	"C9JAE4"	"UPI0000044279"	"NM_032726.3"	NA	NA	""	"5/15"	""	"-:0.0110"	"-:0.0386"	"-:0.0058"	NA	"-:0"	"-:0"	"-:0"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"12"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCTAGGCTCAATGCCC"	"738aa710-a9a4-11e6-9c07-b6f2d6c9aa6f"	"678"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.134831460674157	"WGS"	FALSE
"10162"	"SAG"	6295	"mskcc.org"	"GRCh37"	"2"	234223839	234223850	"+"	"Intron"	"DEL"	"GGCTTTAGGTCT"	"GGCTTTAGGTCT"	"AGTTC"	"rs386656343"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"GGCTTTAGGTCT"	"GGCTTTAGGTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.76-882_76-871delGGCTTTAGGTCTinsAGTTC"	""	""	"ENST00000409110"	""	92	"."	17	55	"."	0	"SAG,intron_variant,,ENST00000409110,NM_000541.4;SAG,intron_variant,,ENST00000447536,;SAG,intron_variant,,ENST00000415974,;SAG,upstream_gene_variant,,ENST00000449594,;SAG,intron_variant,,ENST00000462487,;SAG,intron_variant,,ENST00000479450,;SAG,upstream_gene_variant,,ENST00000461532,;SAG,upstream_gene_variant,,ENST00000474206,;SAG,intron_variant,,ENST00000476500,;SAG,intron_variant,,ENST00000471884,;SAG,intron_variant,,ENST00000412969,;SAG,intron_variant,,ENST00000453143,;"	"AGTTC"	"ENSG00000130561"	"ENST00000409110"	"Transcript"	"intron_variant"	"-/1591"	"-/1218"	"-/405"	""	""	"rs386656343"	"1"	NA	1	"SAG"	"HGNC"	10521	"protein_coding"	"YES"	"CCDS46545.1"	"ENSP00000386444"	"P10523"	"E7ESX4,A0FDN6"	"UPI000013CD8D"	"NM_000541.4"	NA	NA	""	"2/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTGGCTTTAGGTCTA"	"93174fd2-a9a6-11e6-9c07-b6f2d6c9aa6f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.184782608695652	"WGS"	FALSE
"10163"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	235079390	235079391	"+"	"IGR"	"INS"	"-"	"-"	"TTTTTGTTG"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	40	"."	5	30	"."	0	""	"TTTTTGTTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"8f7c8f36-a9b0-11e6-9c07-b6f2d6c9aa6f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.125	"WGS"	FALSE
"10164"	"COMMD7"	149951	"mskcc.org"	"GRCh37"	"20"	31325186	31325187	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAAAAAAAAG"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.84+5927_84+5928insCTTTTTTTTTTTTTT"	""	""	"ENST00000278980"	""	76	"."	5	38	"."	0	"COMMD7,intron_variant,,ENST00000278980,NM_001099339.1,NM_053041.2;COMMD7,intron_variant,,ENST00000446419,;COMMD7,intron_variant,,ENST00000474815,;COMMD7,intron_variant,,ENST00000610160,;"	"AAAAAAAAAAAAAAG"	"ENSG00000149600"	"ENST00000278980"	"Transcript"	"intron_variant"	"-/1900"	"-/603"	"-/200"	""	""	""	"1"	NA	-1	"COMMD7"	"HGNC"	16223	"protein_coding"	"YES"	"CCDS42864.1"	"ENSP00000278980"	"Q86VX2"	""	"UPI000006D145"	"NM_001099339.1,NM_053041.2"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"e6d8be6e-a99f-11e6-bfca-dfb9c8fce2e9"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0657894736842105	"WGS"	FALSE
"10165"	"PTPN1"	5770	"mskcc.org"	"GRCh37"	"20"	49200933	49200933	"+"	"3'UTR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1683delT"	""	""	"ENST00000371621"	"10/10"	83	"."	8	52	"."	0	"PTPN1,3_prime_UTR_variant,,ENST00000371621,NM_001278618.1,NM_002827.3;FAM65C,downstream_gene_variant,,ENST00000327979,;FAM65C,downstream_gene_variant,,ENST00000045083,NM_080829.2;FAM65C,downstream_gene_variant,,ENST00000535356,;PTPN1,downstream_gene_variant,,ENST00000541713,;MIR645,upstream_gene_variant,,ENST00000385283,;FAM65C,downstream_gene_variant,,ENST00000462842,;"	"-"	"ENSG00000196396"	"ENST00000371621"	"Transcript"	"3_prime_UTR_variant"	"3163/3529"	"-/1308"	"-/435"	""	""	""	"1"	NA	1	"PTPN1"	"HGNC"	9642	"protein_coding"	"YES"	"CCDS13430.1"	"ENSP00000360683"	"P18031"	"B4DSN5,A8K3M3"	"UPI000011DD79"	"NM_001278618.1,NM_002827.3"	NA	NA	"10/10"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTT"	"eb5c13ac-a99d-11e6-bfca-dfb9c8fce2e9"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0963855421686747	"WGS"	FALSE
"10166"	"COL20A1"	57642	"mskcc.org"	"GRCh37"	"20"	61934619	61934619	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.194-2148delC"	""	""	"ENST00000358894"	""	109	"."	18	71	"."	0	"COL20A1,intron_variant,,ENST00000422202,;COL20A1,intron_variant,,ENST00000326996,;COL20A1,intron_variant,,ENST00000435874,;COL20A1,intron_variant,,ENST00000358894,NM_020882.2;COL20A1,intron_variant,,ENST00000479501,;"	"-"	"ENSG00000101203"	"ENST00000358894"	"Transcript"	"intron_variant"	"-/4172"	"-/3855"	"-/1284"	""	""	""	"1"	NA	1	"COL20A1"	"HGNC"	14670	"protein_coding"	"YES"	"CCDS46628.1"	"ENSP00000351767"	"Q9P218"	""	"UPI000051910D"	"NM_020882.2"	NA	NA	""	"3/35"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"81a47cbe-a99e-11e6-bfca-dfb9c8fce2e9"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.165137614678899	"WGS"	FALSE
"10167"	"BAGE2"	0	"mskcc.org"	"GRCh37"	"21"	11091372	11091373	"+"	"Intron"	"INS"	"-"	"-"	"AAAC"	"rs372387154"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.324+6173_324+6174insGTTT"	""	""	"ENST00000470054"	""	117	"."	5	82	"."	0	"BAGE2,intron_variant,,ENST00000470054,;BAGE2,intron_variant,,ENST00000474011,;"	"AAAC"	"ENSG00000187172"	"ENST00000470054"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1891"	""	""	""	""	"rs372387154"	"1"	NA	-1	"BAGE2"	"HGNC"	15723	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"8ff802a2-a9a0-11e6-9139-ee57401139e8"	"61"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0427350427350427	"WGS"	FALSE
"10168"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	20722922	20722923	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"."	6	58	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"06b1a9a2-a9a1-11e6-9139-ee57401139e8"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"10169"	"AP001626.1"	101928233	"mskcc.org"	"GRCh37"	"21"	44035598	44035599	"+"	"5'Flank"	"INS"	"-"	"-"	"ACACACCACAT"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000419628"	""	63	"."	5	36	"."	0	"AP001626.1,upstream_gene_variant,,ENST00000419628,;"	"ACACACCACAT"	"ENSG00000225431"	"ENST00000419628"	"Transcript"	"upstream_gene_variant"	"-/1775"	""	""	""	""	""	"1"	"430"	-1	"AP001626.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"d97cb4ee-a9a1-11e6-9139-ee57401139e8"	"230"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0793650793650794	"WGS"	FALSE
"10170"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	44233001	44233005	"+"	"IGR"	"DEL"	"TAAAT"	"TAAAT"	"-"	"rs762604169"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TAAAT"	"TAAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"."	7	62	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs762604169"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATAAATT"	"db379234-a99e-11e6-9139-ee57401139e8"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"10171"	"SLC9A3P2"	0	"mskcc.org"	"GRCh37"	"22"	21004735	21004741	"+"	"5'Flank"	"DEL"	"ATATAGG"	"ATATAGG"	"GTCA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"ATATAGG"	"ATATAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000447821"	""	83	"."	29	57	"."	0	"SMPD4P1,intron_variant,,ENST00000443839,;SLC9A3P2,upstream_gene_variant,,ENST00000447821,;"	"GTCA"	"ENSG00000238125"	"ENST00000447821"	"Transcript"	"upstream_gene_variant"	"-/2021"	""	""	""	""	""	"1"	"2276"	1	"SLC9A3P2"	"HGNC"	19325	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGATATAGGC"	"07a1aa68-a99e-11e6-93c4-98ef5af00f81"	"1740"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.349397590361446	"WGS"	FALSE
"10172"	"PPP1R26P5"	0	"mskcc.org"	"GRCh37"	"22"	21700387	21700388	"+"	"3'Flank"	"INS"	"-"	"-"	"AC"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000416640"	""	81	"."	5	37	"."	0	"PPP1R26P5,downstream_gene_variant,,ENST00000416640,;"	"AC"	"ENSG00000232771"	"ENST00000416640"	"Transcript"	"downstream_gene_variant"	"-/3664"	""	""	""	""	""	"1"	"840"	1	"PPP1R26P5"	"HGNC"	42019	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"8053ad94-a99e-11e6-93c4-98ef5af00f81"	"64"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"10173"	"AP000345.1"	388882	"mskcc.org"	"GRCh37"	"22"	23811339	23811389	"+"	"Intron"	"DEL"	"TTTTTAGTGGAGAAGGGGTTTAACTGTTAGCCAGGATGGTCTCAATCTCCT"	"TTTTTAGTGGAGAAGGGGTTTAACTGTTAGCCAGGATGGTCTCAATCTCCT"	"AGTGGAGAAGGGGTTTAACTGTTAGCCAGGATGGTCTCAATCTCCGG"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TTTTTAGTGGAGAAGGGGTTTAACTGTTAGCCAGGATGGTCTCAATCTCCT"	"TTTTTAGTGGAGAAGGGGTTTAACTGTTAGCCAGGATGGTCTCAATCTCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.943+135_943+185delAGGAGATTGAGACCATCCTGGCTAACAGTTAAACCCCTTCTCCACTAAAAAinsCCGGAGATTGAGACCATCCTGGCTAACAGTTAAACCCCTTCTCCACT"	""	""	"ENST00000320372"	""	78	"."	12	56	"."	0	"AP000345.1,intron_variant,,ENST00000320372,;AP000345.1,downstream_gene_variant,,ENST00000539460,;"	"AGTGGAGAAGGGGTTTAACTGTTAGCCAGGATGGTCTCAATCTCCGG"	"ENSG00000178248"	"ENST00000320372"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1578"	""	""	""	""	""	"1"	NA	-1	"AP000345.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"10/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTTTAGTGGAGAAGGGGTTTAACTGTTAGCCAGGATGGTCTCAATCTCCTG"	"0b2f028e-a99e-11e6-93c4-98ef5af00f81"	"620"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"10174"	"SREBF2"	6721	"mskcc.org"	"GRCh37"	"22"	42291388	42291692	"+"	"Intron"	"DEL"	"GCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCATGCCCAGGCCTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTTTCGCTCTTGTTGCCCAGGCTGGAGTGCAATGGACCAGTCTCAGCTCACTGCAACCTCTGCCTCCCGGGTTCAAGTGATTCTTCTGCCTTAGCCTCCCAAGTAGCTGGGATTACAGGCGCCCACCACCATGCCTGGCTAATTTTTGTACTTTTAGTAGAGATGAGGTTTCACCATGTCATTCAGGCTGGTCTTGAACTCCTGATCTCGGGCAATCCGCCTGCCTCG"	"GCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCATGCCCAGGCCTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTTTCGCTCTTGTTGCCCAGGCTGGAGTGCAATGGACCAGTCTCAGCTCACTGCAACCTCTGCCTCCCGGGTTCAAGTGATTCTTCTGCCTTAGCCTCCCAAGTAGCTGGGATTACAGGCGCCCACCACCATGCCTGGCTAATTTTTGTACTTTTAGTAGAGATGAGGTTTCACCATGTCATTCAGGCTGGTCTTGAACTCCTGATCTCGGGCAATCCGCCTGCCTCG"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"GCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCATGCCCAGGCCTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTTTCGCTCTTGTTGCCCAGGCTGGAGTGCAATGGACCAGTCTCAGCTCACTGCAACCTCTGCCTCCCGGGTTCAAGTGATTCTTCTGCCTTAGCCTCCCAAGTAGCTGGGATTACAGGCGCCCACCACCATGCCTGGCTAATTTTTGTACTTTTAGTAGAGATGAGGTTTCACCATGTCATTCAGGCTGGTCTTGAACTCCTGATCTCGGGCAATCCGCCTGCCTCG"	"GCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCATGCCCAGGCCTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTTTCGCTCTTGTTGCCCAGGCTGGAGTGCAATGGACCAGTCTCAGCTCACTGCAACCTCTGCCTCCCGGGTTCAAGTGATTCTTCTGCCTTAGCCTCCCAAGTAGCTGGGATTACAGGCGCCCACCACCATGCCTGGCTAATTTTTGTACTTTTAGTAGAGATGAGGTTTCACCATGTCATTCAGGCTGGTCTTGAACTCCTGATCTCGGGCAATCCGCCTGCCTCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2495+474_2495+778delGTGAGCCACCATGCCCAGGCCTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTTTCGCTCTTGTTGCCCAGGCTGGAGTGCAATGGACCAGTCTCAGCTCACTGCAACCTCTGCCTCCCGGGTTCAAGTGATTCTTCTGCCTTAGCCTCCCAAGTAGCTGGGATTACAGGCGCCCACCACCATGCCTGGCTAATTTTTGTACTTTTAGTAGAGATGAGGTTTCACCATGTCATTCAGGCTGGTCTTGAACTCCTGATCTCGGGCAATCCGCCTGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGC"	""	""	"ENST00000361204"	""	93	"."	5	51	"."	0	"SREBF2,intron_variant,,ENST00000361204,NM_004599.3;SREBF2,upstream_gene_variant,,ENST00000435061,;SREBF2,intron_variant,,ENST00000491541,;SREBF2,intron_variant,,ENST00000424354,;SREBF2,upstream_gene_variant,,ENST00000463741,;SREBF2,upstream_gene_variant,,ENST00000490262,;"	"-"	"ENSG00000198911"	"ENST00000361204"	"Transcript"	"intron_variant"	"-/5240"	"-/3426"	"-/1141"	""	""	""	"1"	NA	1	"SREBF2"	"HGNC"	11290	"protein_coding"	"YES"	"CCDS14023.1"	"ENSP00000354476"	"Q12772"	"Q8NCY3"	"UPI00001678D0"	"NM_004599.3"	NA	NA	""	"13/18"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"27"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCATGCCCAGGCCTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTTTCGCTCTTGTTGCCCAGGCTGGAGTGCAATGGACCAGTCTCAGCTCACTGCAACCTCTGCCTCCCGGGTTCAAGTGATTCTTCTGCCTTAGCCTCCCAAGTAGCTGGGATTACAGGCGCCCACCACCATGCCTGGCTAATTTTTGTACTTTTAGTAGAGATGAGGTTTCACCATGTCATTCAGGCTGGTCTTGAACTCCTGATCTCGGGCAATCCGCCTGCCTCGG"	"8ad55494-a99d-11e6-93c4-98ef5af00f81"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0537634408602151	"WGS"	FALSE
"10175"	"BIK"	638	"mskcc.org"	"GRCh37"	"22"	43503535	43503535	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000216115"	""	88	"."	9	59	"."	0	"BIK,upstream_gene_variant,,ENST00000216115,NM_001197.4;"	"-"	"ENSG00000100290"	"ENST00000216115"	"Transcript"	"upstream_gene_variant"	"-/953"	"-/483"	"-/160"	""	""	""	"1"	"3219"	1	"BIK"	"HGNC"	1051	"protein_coding"	"YES"	"CCDS14044.1"	"ENSP00000216115"	"Q13323"	""	"UPI000000D929"	"NM_001197.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"9befd6b4-a99d-11e6-93c4-98ef5af00f81"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.102272727272727	"WGS"	FALSE
"10176"	"CNTN4"	152330	"mskcc.org"	"GRCh37"	"3"	2715952	2715952	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.56-61939delT"	""	""	"ENST00000397461"	""	87	"."	8	55	"."	0	"CNTN4,intron_variant,,ENST00000397461,NM_001206955.1;CNTN4,intron_variant,,ENST00000418658,NM_175607.2;CNTN4,intron_variant,,ENST00000427331,;CNTN4,intron_variant,,ENST00000422330,;CNTN4,intron_variant,,ENST00000455083,;CNTN4,intron_variant,,ENST00000434053,;CNTN4,intron_variant,,ENST00000427741,;CNTN4,intron_variant,,ENST00000430505,;CNTN4,intron_variant,,ENST00000438282,;"	"-"	"ENSG00000144619"	"ENST00000397461"	"Transcript"	"intron_variant"	"-/5198"	"-/3081"	"-/1026"	""	""	""	"1"	NA	1	"CNTN4"	"HGNC"	2174	"protein_coding"	"YES"	"CCDS43041.1"	"ENSP00000380602"	"Q8IWV2"	"G3XAD4,C9JMQ2,C9JGK9"	"UPI000007446C"	"NM_001206955.1"	NA	NA	""	"3/23"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGTT"	"3e1112ac-a99c-11e6-9bbe-aa11980357a4"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"10177"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	16037594	16037595	"+"	"IGR"	"INS"	"-"	"-"	"TTTTTTTTTTTT"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"."	5	53	"."	0	""	"TTTTTTTTTTTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"07c4dc5e-a9a3-11e6-9bbe-aa11980357a4"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.05	"WGS"	FALSE
"10178"	"ITGA9"	3680	"mskcc.org"	"GRCh37"	"3"	37539949	37539955	"+"	"Intron"	"DEL"	"GAGTGGA"	"GAGTGGA"	"CC"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"GAGTGGA"	"GAGTGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.612+3890_612+3896delGAGTGGAinsCC"	""	""	"ENST00000264741"	""	86	"."	10	45	"."	0	"ITGA9,intron_variant,,ENST00000264741,NM_002207.2;ITGA9,intron_variant,,ENST00000422441,;"	"CC"	"ENSG00000144668"	"ENST00000264741"	"Transcript"	"intron_variant"	"-/7889"	"-/3108"	"-/1035"	""	""	""	"1"	NA	1	"ITGA9"	"HGNC"	6145	"protein_coding"	"YES"	"CCDS2669.1"	"ENSP00000264741"	"Q13797"	""	"UPI00001AE8BB"	"NM_002207.2"	NA	NA	""	"5/27"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGCTGAGTGGAG"	"4de26ec8-a9a2-11e6-9bbe-aa11980357a4"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.116279069767442	"WGS"	FALSE
"10179"	"EIF1B"	10289	"mskcc.org"	"GRCh37"	"3"	40352928	40352929	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.196-33_196-32delTA"	""	""	"ENST00000232905"	""	103	"."	12	49	"."	0	"EIF1B,intron_variant,,ENST00000232905,NM_005875.2;ENTPD3-AS1,downstream_gene_variant,,ENST00000439293,;EIF1B,non_coding_transcript_exon_variant,,ENST00000462088,;EIF1B,intron_variant,,ENST00000488260,;EIF1B,intron_variant,,ENST00000487151,;"	"-"	"ENSG00000114784"	"ENST00000232905"	"Transcript"	"intron_variant"	"-/1010"	"-/342"	"-/113"	""	""	""	"1"	NA	1	"EIF1B"	"HGNC"	30792	"protein_coding"	"YES"	"CCDS2690.1"	"ENSP00000232905"	"O60739"	"Q6FG85"	"UPI0000003EA1"	"NM_005875.2"	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTAA"	"c546858a-a99d-11e6-9bbe-aa11980357a4"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.116504854368932	"WGS"	FALSE
"10180"	"ERC2"	26059	"mskcc.org"	"GRCh37"	"3"	56292972	56292972	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1074+37075delT"	""	""	"ENST00000288221"	""	103	"."	10	54	"."	0	"ERC2,intron_variant,,ENST00000288221,NM_015576.1;ERC2,intron_variant,,ENST00000460849,;"	"-"	"ENSG00000187672"	"ENST00000288221"	"Transcript"	"intron_variant"	"-/6138"	"-/2874"	"-/957"	""	""	""	"1"	NA	-1	"ERC2"	"HGNC"	31922	"protein_coding"	"YES"	"CCDS46851.1"	"ENSP00000288221"	"O15083"	""	"UPI00001C1572"	"NM_015576.1"	NA	NA	""	"3/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"5caa411e-a99e-11e6-9bbe-aa11980357a4"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0970873786407767	"WGS"	FALSE
"10181"	"PRICKLE2"	166336	"mskcc.org"	"GRCh37"	"3"	64076465	64076475	"+"	"3'Flank"	"DEL"	"TTTTTTTTTTC"	"TTTTTTTTTTC"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TTTTTTTTTTC"	"TTTTTTTTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000295902"	""	130	"."	6	76	"."	0	"PRICKLE2,downstream_gene_variant,,ENST00000295902,NM_198859.3;LINC00994,upstream_gene_variant,,ENST00000485805,;RP11-129B22.1,intron_variant,,ENST00000482609,;"	"-"	"ENSG00000163637"	"ENST00000295902"	"Transcript"	"downstream_gene_variant"	"-/8305"	"-/2535"	"-/844"	""	""	""	"1"	"3068"	-1	"PRICKLE2"	"HGNC"	20340	"protein_coding"	"YES"	"CCDS2902.1"	"ENSP00000295902"	"Q7Z3G6"	"C9JY03"	"UPI0000160A8B"	"NM_198859.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTTTTTTTTTTTCT"	"ad8f3da0-a99e-11e6-9bbe-aa11980357a4"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0461538461538462	"WGS"	FALSE
"10182"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	94037184	94037184	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"."	19	50	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"96f47686-a99f-11e6-9bbe-aa11980357a4"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.193877551020408	"WGS"	FALSE
"10183"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	94921499	94921502	"+"	"IGR"	"DEL"	"TCCA"	"TCCA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TCCA"	"TCCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"."	13	64	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTCCAT"	"9eeaa6e4-a99f-11e6-9bbe-aa11980357a4"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.125	"WGS"	FALSE
"10184"	"EPHA6"	285220	"mskcc.org"	"GRCh37"	"3"	97065260	97065262	"+"	"Intron"	"DEL"	"ATA"	"ATA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"ATA"	"ATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1607-58730_1607-58728delTAA"	""	""	"ENST00000389672"	""	90	"."	18	56	"."	0	"EPHA6,intron_variant,,ENST00000389672,NM_001080448.2;"	"-"	"ENSG00000080224"	"ENST00000389672"	"Transcript"	"intron_variant"	"-/3971"	"-/3393"	"-/1130"	""	""	""	"1"	NA	1	"EPHA6"	"HGNC"	19296	"protein_coding"	"YES"	"CCDS46876.1"	"ENSP00000374323"	""	"H0Y8K5"	"UPI000004BB12"	"NM_001080448.2"	NA	NA	""	"5/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATAA"	"adf83b9c-a99f-11e6-9bbe-aa11980357a4"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.2	"WGS"	FALSE
"10185"	"RP11-457K10.1"	0	"mskcc.org"	"GRCh37"	"3"	109413144	109413148	"+"	"Intron"	"DEL"	"TTGTT"	"TTGTT"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TTGTT"	"TTGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.29+46162_29+46166delTTGTTinsA"	""	""	"ENST00000485384"	""	92	"."	16	63	"."	0	"RP11-457K10.1,intron_variant,,ENST00000485384,;"	"A"	"ENSG00000242029"	"ENST00000485384"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/262"	""	""	""	""	""	"1"	NA	1	"RP11-457K10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTTGTTG"	"6a5b9098-a9a2-11e6-9bbe-aa11980357a4"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"10186"	"PLCXD2"	257068	"mskcc.org"	"GRCh37"	"3"	111406546	111406546	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.163+12291delG"	""	""	"ENST00000477665"	""	101	"."	5	69	"."	0	"PLCXD2,intron_variant,,ENST00000393934,NM_153268.3;PLCXD2,intron_variant,,ENST00000477665,NM_001185106.1;PLCXD2,upstream_gene_variant,,ENST00000468174,;"	"-"	"ENSG00000240891"	"ENST00000477665"	"Transcript"	"intron_variant"	"-/1721"	"-/918"	"-/305"	""	""	""	"1"	NA	1	"PLCXD2"	"HGNC"	26462	"protein_coding"	"YES"	"CCDS54619.1"	"ENSP00000420686"	"Q0VAA5"	"C9JB87"	"UPI0000DBDDA7"	"NM_001185106.1"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"10a50ba8-a9a0-11e6-9bbe-aa11980357a4"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0495049504950495	"WGS"	FALSE
"10187"	"PLCXD2"	257068	"mskcc.org"	"GRCh37"	"3"	111552737	111552814	"+"	"Intron"	"DEL"	"GAATTATATATATAATATATGTAATAGAATTATATATATAATATATGTAATGGAATTATATATATAATATATGTAATG"	"GAATTATATATATAATATATGTAATAGAATTATATATATAATATATGTAATGGAATTATATATATAATATATGTAATG"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"GAATTATATATATAATATATGTAATAGAATTATATATATAATATATGTAATGGAATTATATATATAATATATGTAATG"	"GAATTATATATATAATATATGTAATAGAATTATATATATAATATATGTAATGGAATTATATATATAATATATGTAATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*34-11893_*34-11816delTAATATATGTAATGGAATTATATATATAATATATGTAATGGAATTATATATATAATATATGTAATAGAATTATATATA"	""	""	"ENST00000477665"	""	41	"."	6	27	"."	0	"PHLDB2,intron_variant,,ENST00000393923,NM_001134437.1;PLCXD2,intron_variant,,ENST00000393934,NM_153268.3;PLCXD2,intron_variant,,ENST00000477665,NM_001185106.1;"	"-"	"ENSG00000240891"	"ENST00000477665"	"Transcript"	"intron_variant"	"-/1721"	"-/918"	"-/305"	""	""	""	"1"	NA	1	"PLCXD2"	"HGNC"	26462	"protein_coding"	"YES"	"CCDS54619.1"	"ENSP00000420686"	"Q0VAA5"	"C9JB87"	"UPI0000DBDDA7"	"NM_001185106.1"	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"38"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGAATTATATATATAATATATGTAATAGAATTATATATATAATATATGTAATGGAATTATATATATAATATATGTAATGG"	"11cfe55c-a9a0-11e6-9bbe-aa11980357a4"	"156"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.146341463414634	"WGS"	FALSE
"10188"	"ADCY5"	111	"mskcc.org"	"GRCh37"	"3"	123078107	123078110	"+"	"Intron"	"DEL"	"ACAG"	"ACAG"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"ACAG"	"ACAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1135-6682_1135-6679delCTGT"	""	""	"ENST00000462833"	""	86	"."	15	54	"."	0	"ADCY5,intron_variant,,ENST00000462833,NM_183357.2;ADCY5,intron_variant,,ENST00000491190,;ADCY5,intron_variant,,ENST00000309879,NM_001199642.1;ADCY5,intron_variant,,ENST00000466617,;ADCY5,intron_variant,,ENST00000483566,;ADCY5,intron_variant,,ENST00000470367,;ADCY5,intron_variant,,ENST00000476455,;"	"-"	"ENSG00000173175"	"ENST00000462833"	"Transcript"	"intron_variant"	"-/7311"	"-/3786"	"-/1261"	""	""	""	"1"	NA	-1	"ADCY5"	"HGNC"	236	"protein_coding"	"YES"	"CCDS3022.1"	"ENSP00000419361"	"O95622"	"C9JRT8,C9JQ38,B7Z801,B7Z2C7"	"UPI000015E262"	"NM_183357.2"	NA	NA	""	"1/20"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTACAGA"	"5d296a5a-a9a0-11e6-9bbe-aa11980357a4"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.174418604651163	"WGS"	FALSE
"10189"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	127120346	127120347	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	17	55	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"26cf39d8-a9a7-11e6-9bbe-aa11980357a4"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.184782608695652	"WGS"	FALSE
"10190"	"CPNE4"	131034	"mskcc.org"	"GRCh37"	"3"	131945101	131945111	"+"	"Intron"	"DEL"	"CTTCCTCCACT"	"CTTCCTCCACT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CTTCCTCCACT"	"CTTCCTCCACT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1829+57776_-1829+57786delAGTGGAGGAAG"	""	""	"ENST00000512055"	""	94	"."	15	49	"."	0	"CPNE4,intron_variant,,ENST00000512055,;"	"-"	"ENSG00000196353"	"ENST00000512055"	"Transcript"	"intron_variant"	"-/5431"	"-/1674"	"-/557"	""	""	""	"1"	NA	-1	"CPNE4"	"HGNC"	2317	"protein_coding"	"YES"	"CCDS3072.1"	"ENSP00000421705"	"Q96A23"	"Q4G168,D6RI99,D6RFY4,D6RCT2"	"UPI0000127C14"	""	NA	NA	""	"2/19"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCTTCCTCCACTC"	"90db6eac-a9a0-11e6-9bbe-aa11980357a4"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.159574468085106	"WGS"	FALSE
"10191"	"NPHP3-AS1"	348808	"mskcc.org"	"GRCh37"	"3"	132518053	132518053	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.331-1007delA"	""	""	"ENST00000504440"	""	97	"."	6	55	"."	0	"NPHP3-AS1,intron_variant,,ENST00000504440,;"	"-"	"ENSG00000248724"	"ENST00000504440"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2507"	""	""	""	""	""	"1"	NA	1	"NPHP3-AS1"	"HGNC"	24129	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"4/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAA"	"936a901c-a9a0-11e6-9bbe-aa11980357a4"	"86"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0618556701030928	"WGS"	FALSE
"10192"	"NPHP3-AS1"	348808	"mskcc.org"	"GRCh37"	"3"	132518315	132518315	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.331-746delA"	""	""	"ENST00000504440"	""	88	"."	5	55	"."	0	"NPHP3-AS1,intron_variant,,ENST00000504440,;"	"-"	"ENSG00000248724"	"ENST00000504440"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2507"	""	""	""	""	""	"1"	NA	1	"NPHP3-AS1"	"HGNC"	24129	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"4/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"937182dc-a9a0-11e6-9bbe-aa11980357a4"	"66"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0568181818181818	"WGS"	FALSE
"10193"	"RP11-23D24.2"	0	"mskcc.org"	"GRCh37"	"3"	153364376	153364407	"+"	"Intron"	"DEL"	"TATATAATTATATATATATTATATAATGAATA"	"TATATAATTATATATATATTATATAATGAATA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TATATAATTATATATATATTATATAATGAATA"	"TATATAATTATATATATATTATATAATGAATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.160+25557_160+25588delTATTCATTATATAATATATATATAATTATATA"	""	""	"ENST00000493214"	""	35	"."	5	20	"."	0	"RP11-23D24.2,intron_variant,,ENST00000493214,;"	"-"	"ENSG00000238755"	"ENST00000493214"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/812"	""	""	""	""	""	"1"	NA	-1	"RP11-23D24.2"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"3/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTATATAATTATATATATATTATATAATGAATAT"	"0dc38bac-a9a1-11e6-9bbe-aa11980357a4"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"10194"	"RP11-23D24.2"	0	"mskcc.org"	"GRCh37"	"3"	153460126	153460129	"+"	"Intron"	"DEL"	"AACT"	"AACT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AACT"	"AACT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.25-11533_25-11530delAGTT"	""	""	"ENST00000493214"	""	107	"."	10	65	"."	0	"RP11-23D24.2,intron_variant,,ENST00000493214,;RP11-23D24.2,intron_variant,,ENST00000488210,;"	"-"	"ENSG00000238755"	"ENST00000493214"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/812"	""	""	""	""	""	"1"	NA	-1	"RP11-23D24.2"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAACTT"	"0e4f1bfe-a9a1-11e6-9bbe-aa11980357a4"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0934579439252336	"WGS"	FALSE
"10195"	"LEKR1"	389170	"mskcc.org"	"GRCh37"	"3"	156570579	156570580	"+"	"Frame_Shift_Ins"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.72dupT"	"p.Lys25Ter"	"p.K25*"	"ENST00000491763"	"3/5"	106	"."	14	55	"."	0	"LEKR1,frameshift_variant,p.Lys25Ter,ENST00000356539,NM_001004316.2;LEKR1,frameshift_variant,p.Lys25Ter,ENST00000491763,NM_001193283.1;LEKR1,frameshift_variant,p.Lys25Ter,ENST00000477399,;LEKR1,frameshift_variant,p.Lys25Ter,ENST00000498839,;LEKR1,frameshift_variant,p.Lys25Ter,ENST00000483177,;LEKR1,5_prime_UTR_variant,,ENST00000470811,;LEKR1,non_coding_transcript_exon_variant,,ENST00000485017,;LEKR1,non_coding_transcript_exon_variant,,ENST00000465728,;LEKR1,intron_variant,,ENST00000489350,;LEKR1,intron_variant,,ENST00000467376,;"	"T"	"ENSG00000197980"	"ENST00000491763"	"Transcript"	"frameshift_variant"	"866-867/1940"	"71-72/399"	"24/132"	"C/CX"	"tgt/tgTt"	""	"1"	NA	1	"LEKR1"	"HGNC"	33765	"protein_coding"	"YES"	"CCDS54660.1"	"ENSP00000474182"	""	"D3DNK7"	"UPI00006C06BC"	"NM_001193283.1"	NA	NA	"3/5"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"HIGH"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"3e2f31c2-a9a8-11e6-9bbe-aa11980357a4"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.132075471698113	"WGS"	FALSE
"10196"	"IQCJ-SCHIP1"	29970	"mskcc.org"	"GRCh37"	"3"	159241614	159241614	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.292-240618delC"	""	""	"ENST00000485419"	""	85	"."	5	53	"."	0	"IQCJ-SCHIP1,intron_variant,,ENST00000337808,NM_001197107.1,NM_014575.3;IQCJ-SCHIP1,intron_variant,,ENST00000485419,NM_001197113.1;IQCJ-SCHIP1,intron_variant,,ENST00000412423,;IQCJ-SCHIP1,intron_variant,,ENST00000476809,NM_001197114.1;IQCJ-SCHIP1,intron_variant,,ENST00000527095,NM_001197108.1;IQCJ-SCHIP1,intron_variant,,ENST00000483486,;IQCJ-SCHIP1,intron_variant,,ENST00000481715,;IQCJ-SCHIP1,intron_variant,,ENST00000488898,;IQCJ-SCHIP1,intron_variant,,ENST00000471575,;IQCJ-SCHIP1,intron_variant,,ENST00000467442,;"	"-"	"ENSG00000250588"	"ENST00000485419"	"Transcript"	"intron_variant"	"-/2445"	"-/1692"	"-/563"	""	""	""	"1"	NA	1	"IQCJ-SCHIP1"	"HGNC"	38842	"protein_coding"	"YES"	"CCDS56289.1"	"ENSP00000420182"	""	"C9JMW4,C9J630,C9J615"	"UPI0000E5AA62"	"NM_001197113.1"	NA	NA	""	"4/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACA"	"2a60a4a2-a9a1-11e6-9bbe-aa11980357a4"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"10197"	"KNG1"	3827	"mskcc.org"	"GRCh37"	"3"	186438959	186438961	"+"	"Intron"	"DEL"	"CTT"	"CTT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.306+958_306+960delCTT"	""	""	"ENST00000265023"	""	87	"."	10	59	"."	0	"KNG1,intron_variant,,ENST00000265023,NM_001102416.2;KNG1,intron_variant,,ENST00000287611,NM_000893.3;KNG1,intron_variant,,ENST00000447445,NM_001166451.1;RP11-573D15.8,intron_variant,,ENST00000599314,;"	"-"	"ENSG00000113889"	"ENST00000265023"	"Transcript"	"intron_variant"	"-/3435"	"-/1935"	"-/644"	""	""	""	"1"	NA	1	"KNG1"	"HGNC"	6383	"protein_coding"	"YES"	"CCDS43183.1"	"ENSP00000265023"	"P01042"	""	"UPI000013D5AC"	"NM_001102416.2"	NA	NA	""	"2/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCCTTC"	"cd1008fa-a9a1-11e6-9bbe-aa11980357a4"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.114942528735632	"WGS"	FALSE
"10198"	"LRRC15"	131578	"mskcc.org"	"GRCh37"	"3"	194092084	194092096	"+"	"5'Flank"	"DEL"	"CTGGTCTCATGAT"	"CTGGTCTCATGAT"	"TTGG"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CTGGTCTCATGAT"	"CTGGTCTCATGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000347624"	""	94	"."	6	51	"."	0	"LRRC15,upstream_gene_variant,,ENST00000347624,NM_130830.4;LRRC15,upstream_gene_variant,,ENST00000428839,;"	"TTGG"	"ENSG00000172061"	"ENST00000347624"	"Transcript"	"upstream_gene_variant"	"-/5883"	"-/1746"	"-/581"	""	""	""	"1"	"1612"	-1	"LRRC15"	"HGNC"	20818	"protein_coding"	""	"CCDS3306.1"	"ENSP00000306276"	"Q8TF66"	""	"UPI00005764CF"	"NM_130830.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTGGTCTCATGATT"	"8e9a9512-a9a2-11e6-9bbe-aa11980357a4"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"10199"	"UBXN7"	26043	"mskcc.org"	"GRCh37"	"3"	196162910	196162920	"+"	"5'Flank"	"DEL"	"CAGGCTGGAGT"	"CAGGCTGGAGT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CAGGCTGGAGT"	"CAGGCTGGAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000296328"	""	98	"."	13	59	"."	0	"UBXN7,upstream_gene_variant,,ENST00000296328,NM_015562.1;UBXN7,upstream_gene_variant,,ENST00000535858,;UBXN7,upstream_gene_variant,,ENST00000428095,;UBXN7,upstream_gene_variant,,ENST00000381887,;UBXN7-AS1,downstream_gene_variant,,ENST00000598881,;UBXN7-AS1,downstream_gene_variant,,ENST00000442941,;UBXN7,upstream_gene_variant,,ENST00000429160,;UBXN7,upstream_gene_variant,,ENST00000493566,;"	"-"	"ENSG00000163960"	"ENST00000296328"	"Transcript"	"upstream_gene_variant"	"-/10568"	"-/1470"	"-/489"	""	""	""	"1"	"3565"	-1	"UBXN7"	"HGNC"	29119	"protein_coding"	"YES"	"CCDS43191.1"	"ENSP00000296328"	"O94888"	"F5GYB1,C9JD50,C9JAT7"	"UPI00001C1DEF"	"NM_015562.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCCAGGCTGGAGTG"	"22c2805c-a9a2-11e6-9bbe-aa11980357a4"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.13265306122449	"WGS"	FALSE
"10200"	"LMLN"	89782	"mskcc.org"	"GRCh37"	"3"	197704726	197704727	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.549+1143_549+1144delTA"	""	""	"ENST00000420910"	""	98	"."	5	59	"."	0	"LMLN,intron_variant,,ENST00000330198,NM_033029.3;LMLN,intron_variant,,ENST00000420910,NM_001136049.2;LMLN,intron_variant,,ENST00000482695,;LMLN,intron_variant,,ENST00000332636,;LMLN,intron_variant,,ENST00000419117,;LMLN,intron_variant,,ENST00000451139,;LMLN,intron_variant,,ENST00000482837,;LMLN,upstream_gene_variant,,ENST00000473676,;"	"-"	"ENSG00000185621"	"ENST00000420910"	"Transcript"	"intron_variant"	"-/2423"	"-/2079"	"-/692"	""	""	""	"1"	NA	1	"LMLN"	"HGNC"	15991	"protein_coding"	"YES"	"CCDS46988.1"	"ENSP00000410926"	"Q96KR4"	"B4DR62"	"UPI000192C367"	"NM_001136049.2"	NA	NA	""	"5/16"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATA"	"30d1b870-a9a2-11e6-9bbe-aa11980357a4"	"287"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0510204081632653	"WGS"	FALSE
"10201"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	27404619	27404620	"+"	"IGR"	"INS"	"-"	"-"	"AT"	"rs375375815"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"."	7	49	"."	0	""	"AT"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs375375815"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"13ab093a-a9a8-11e6-853f-cf7a99408267"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0707070707070707	"WGS"	FALSE
"10202"	"RP11-472K22.1"	0	"mskcc.org"	"GRCh37"	"4"	29160525	29160534	"+"	"Intron"	"DEL"	"CAACCTTTGT"	"CAACCTTTGT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CAACCTTTGT"	"CAACCTTTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.468+40043_468+40052delACCTTTGTCA"	""	""	"ENST00000503299"	""	86	"."	13	51	"."	0	"RP11-472K22.1,intron_variant,,ENST00000503299,;"	"-"	"ENSG00000248176"	"ENST00000503299"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/758"	""	""	""	""	""	"1"	NA	1	"RP11-472K22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCAACCTTTGTC"	"9915246c-a99d-11e6-853f-cf7a99408267"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.151162790697674	"WGS"	FALSE
"10203"	"WDR19"	57728	"mskcc.org"	"GRCh37"	"4"	39184870	39184871	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTTTT"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6+697_6+707dupTTTTTTTTTTT"	""	""	"ENST00000399820"	""	111	"."	7	43	"."	0	"WDR19,intron_variant,,ENST00000399820,NM_025132.3;WDR19,intron_variant,,ENST00000288634,;WDR19,intron_variant,,ENST00000506503,;WDR19,intron_variant,,ENST00000509560,;WDR19,intron_variant,,ENST00000512112,;WDR19,intron_variant,,ENST00000511729,;WDR19,intron_variant,,ENST00000506869,;WDR19,intron_variant,,ENST00000503697,;WDR19,intron_variant,,ENST00000505055,;WDR19,intron_variant,,ENST00000502389,;"	"TTTTTTTTTTT"	"ENSG00000157796"	"ENST00000399820"	"Transcript"	"intron_variant"	"-/4520"	"-/4029"	"-/1342"	""	""	""	"1"	NA	1	"WDR19"	"HGNC"	18340	"protein_coding"	"YES"	"CCDS47042.1"	"ENSP00000382717"	"Q8NEZ3"	"D6RE75,B4DGR6"	"UPI000004CC24"	"NM_025132.3"	NA	NA	""	"1/36"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"20"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"90cb47c2-a9a8-11e6-853f-cf7a99408267"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0630630630630631	"WGS"	FALSE
"10204"	"RBM47"	54502	"mskcc.org"	"GRCh37"	"4"	40594981	40595007	"+"	"Intron"	"DEL"	"TATATATATATATATATTTTTTTTTTT"	"TATATATATATATATATTTTTTTTTTT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TATATATATATATATATTTTTTTTTTT"	"TATATATATATATATATTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-240+36406_-240+36432delAAAAAAAAAAATATATATATATATATA"	""	""	"ENST00000319592"	""	72	"."	5	32	"."	0	"RBM47,intron_variant,,ENST00000319592,;RBM47,intron_variant,,ENST00000295971,NM_001098634.1;RBM47,intron_variant,,ENST00000514014,;RBM47,intron_variant,,ENST00000515053,;RBM47,intron_variant,,ENST00000505414,;RBM47,intron_variant,,ENST00000511598,;RBM47,intron_variant,,ENST00000514782,;RBM47,intron_variant,,ENST00000505220,;RBM47,intron_variant,,ENST00000511902,;RBM47,intron_variant,,ENST00000510871,;RBM47,intron_variant,,ENST00000513044,;"	"-"	"ENSG00000163694"	"ENST00000319592"	"Transcript"	"intron_variant"	"-/4934"	"-/1575"	"-/524"	""	""	""	"1"	NA	-1	"RBM47"	"HGNC"	30358	"protein_coding"	""	"CCDS3460.1"	"ENSP00000320108"	"A0AV96"	"D6RFL5,D6REZ6,D6RCT1,D6RBS9,D6RBP6,D6RA49,D6R9M7"	"UPI0000140649"	""	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATATATATATATATATATTTTTTTTTTTT"	"23ee6e90-a99e-11e6-853f-cf7a99408267"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0694444444444444	"WGS"	FALSE
"10205"	"RP11-506N2.1"	0	"mskcc.org"	"GRCh37"	"4"	59793891	59793892	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.236+48840dupA"	""	""	"ENST00000513551"	""	94	"."	12	66	"."	0	"RP11-506N2.1,intron_variant,,ENST00000513551,;RP11-506N2.1,intron_variant,,ENST00000510941,;RP11-506N2.1,intron_variant,,ENST00000510371,;RP11-506N2.1,intron_variant,,ENST00000503232,;"	"T"	"ENSG00000251339"	"ENST00000513551"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1061"	""	""	""	""	""	"1"	NA	-1	"RP11-506N2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"7bf8bd38-a9a9-11e6-853f-cf7a99408267"	"663"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.127659574468085	"WGS"	FALSE
"10206"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	78589365	78589377	"+"	"IGR"	"DEL"	"TTTTTTTTTTTTG"	"TTTTTTTTTTTTG"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TTTTTTTTTTTTG"	"TTTTTTTTTTTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"."	5	49	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTTTTTTTTTTGA"	"5a0197e8-a9a1-11e6-853f-cf7a99408267"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0609756097560976	"WGS"	FALSE
"10207"	"PRKG2"	5593	"mskcc.org"	"GRCh37"	"4"	82138211	82138212	"+"	"5'Flank"	"INS"	"-"	"-"	"TA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000395578"	""	90	"."	5	45	"."	0	"PRKG2,upstream_gene_variant,,ENST00000395578,;PRKG2,upstream_gene_variant,,ENST00000418486,NM_001282485.1;"	"TA"	"ENSG00000138669"	"ENST00000395578"	"Transcript"	"upstream_gene_variant"	"-/3431"	"-/2289"	"-/762"	""	""	""	"1"	"2023"	-1	"PRKG2"	"HGNC"	9416	"protein_coding"	"YES"	"CCDS3589.1"	"ENSP00000378945"	"Q13237"	"B7ZA25"	"UPI000012DDC6"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"30b77f2a-a9aa-11e6-853f-cf7a99408267"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"10208"	"PPP3CA"	5530	"mskcc.org"	"GRCh37"	"4"	102151734	102151734	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.59-34461delC"	""	""	"ENST00000394854"	""	91	"."	10	54	"."	0	"PPP3CA,intron_variant,,ENST00000394854,NM_000944.4;PPP3CA,intron_variant,,ENST00000323055,NM_001130692.1;PPP3CA,intron_variant,,ENST00000512215,;PPP3CA,intron_variant,,ENST00000394853,NM_001130691.1;PPP3CA,intron_variant,,ENST00000507176,;PPP3CA,intron_variant,,ENST00000523694,;PPP3CA,intron_variant,,ENST00000529324,;PPP3CA,intron_variant,,ENST00000525819,;"	"-"	"ENSG00000138814"	"ENST00000394854"	"Transcript"	"intron_variant"	"-/4685"	"-/1566"	"-/521"	""	""	""	"1"	NA	-1	"PPP3CA"	"HGNC"	9314	"protein_coding"	"YES"	"CCDS34037.1"	"ENSP00000378323"	"Q08209"	"Q9UMM5,Q9UMB2,E9PPC8,E9PK68,E7ETC2"	"UPI0000110660"	"NM_000944.4"	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGA"	"496e9272-a9a2-11e6-853f-cf7a99408267"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.10989010989011	"WGS"	FALSE
"10209"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	115215885	115215885	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"."	10	64	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGG"	"b9bc6d74-a9a2-11e6-853f-cf7a99408267"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.136986301369863	"WGS"	FALSE
"10210"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	118867833	118867833	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"."	9	52	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"dac5814a-a9a2-11e6-853f-cf7a99408267"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.1125	"WGS"	FALSE
"10211"	"IL21-AS1"	100996941	"mskcc.org"	"GRCh37"	"4"	123558058	123558058	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2797+7907delG"	""	""	"ENST00000417927"	""	81	"."	9	57	"."	0	"IL21-AS1,intron_variant,,ENST00000417927,;"	"-"	"ENSG00000227145"	"ENST00000417927"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3748"	""	""	""	""	""	"1"	NA	1	"IL21-AS1"	"HGNC"	40299	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"7/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"0eb3785e-a9a3-11e6-853f-cf7a99408267"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"10212"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	163621563	163621563	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"."	12	46	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"b5ce1e72-a9a4-11e6-853f-cf7a99408267"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"10213"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	180542061	180542062	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"."	12	62	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"96ec1272-a9ac-11e6-853f-cf7a99408267"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.144578313253012	"WGS"	FALSE
"10214"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	8568482	8568511	"+"	"IGR"	"DEL"	"ATATAATATATACATATATATTTATATAAA"	"ATATAATATATACATATATATTTATATAAA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"ATATAATATATACATATATATTTATATAAA"	"ATATAATATATACATATATATTTATATAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"."	6	13	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTATATAATATATACATATATATTTATATAAAA"	"85ffb2e4-a99c-11e6-aa6e-a832379d9dc0"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"10215"	"CTD-2203A3.1"	0	"mskcc.org"	"GRCh37"	"5"	51352623	51352624	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTT"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.26-22082_26-22074dupTTTTTTTTT"	""	""	"ENST00000510583"	""	100	"."	6	52	"."	0	"CTD-2203A3.1,intron_variant,,ENST00000510583,;"	"TTTTTTTTT"	"ENSG00000248789"	"ENST00000510583"	"Transcript"	"intron_variant"	"-/419"	"-/252"	"-/83"	""	""	""	"1"	NA	1	"CTD-2203A3.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000421473"	""	"D6RFH9"	"UPI0000E09549"	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"21"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"8a73a944-a9a5-11e6-aa6e-a832379d9dc0"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.06	"WGS"	FALSE
"10216"	"PDE4D"	5144	"mskcc.org"	"GRCh37"	"5"	59087752	59087753	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.455+101242dupT"	""	""	"ENST00000340635"	""	96	"."	18	58	"."	0	"PDE4D,intron_variant,,ENST00000340635,NM_001104631.1;PDE4D,intron_variant,,ENST00000502484,NM_001165899.1;PDE4D,intron_variant,,ENST00000546160,;PDE4D,intron_variant,,ENST00000512069,;PDE4D,intron_variant,,ENST00000405053,;PDE4D,intron_variant,,ENST00000514231,;"	"A"	"ENSG00000113448"	"ENST00000340635"	"Transcript"	"intron_variant"	"-/8232"	"-/2430"	"-/809"	""	""	""	"1"	NA	-1	"PDE4D"	"HGNC"	8783	"protein_coding"	"YES"	"CCDS47213.1"	"ENSP00000345502"	"Q08499"	"D6RHE0"	"UPI0000050EB1"	"NM_001104631.1"	NA	NA	""	"1/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"d2ac56e8-a9a5-11e6-aa6e-a832379d9dc0"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.1875	"WGS"	FALSE
"10217"	"EDIL3"	10085	"mskcc.org"	"GRCh37"	"5"	83561777	83561777	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.68-11747delC"	""	""	"ENST00000296591"	""	107	"."	15	45	"."	0	"EDIL3,intron_variant,,ENST00000296591,NM_005711.4;EDIL3,intron_variant,,ENST00000380138,NM_001278642.1;"	"-"	"ENSG00000164176"	"ENST00000296591"	"Transcript"	"intron_variant"	"-/4727"	"-/1443"	"-/480"	""	""	""	"1"	NA	-1	"EDIL3"	"HGNC"	3173	"protein_coding"	"YES"	"CCDS4062.1"	"ENSP00000296591"	"O43854"	""	"UPI000004D126"	"NM_005711.4"	NA	NA	""	"1/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGG"	"c7eee74e-a99f-11e6-aa6e-a832379d9dc0"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.14018691588785	"WGS"	FALSE
"10218"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	89048119	89048120	"+"	"IGR"	"INS"	"-"	"-"	"C"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"."	18	59	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"dab09704-a9a6-11e6-aa6e-a832379d9dc0"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.1875	"WGS"	FALSE
"10219"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	103626330	103626331	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"."	5	63	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"46495438-a9a7-11e6-aa6e-a832379d9dc0"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0595238095238095	"WGS"	FALSE
"10220"	"CTD-3179P9.1"	0	"mskcc.org"	"GRCh37"	"5"	117475402	117475490	"+"	"Intron"	"DEL"	"ACCTAACAGACAAACTTCTTTATCTGCTTATGTATTGGCAAAATGAGTGAAATACGTGAAAAAAAAGAAAGAAAACAGAAATAGAGTAA"	"ACCTAACAGACAAACTTCTTTATCTGCTTATGTATTGGCAAAATGAGTGAAATACGTGAAAAAAAAGAAAGAAAACAGAAATAGAGTAA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"ACCTAACAGACAAACTTCTTTATCTGCTTATGTATTGGCAAAATGAGTGAAATACGTGAAAAAAAAGAAAGAAAACAGAAATAGAGTAA"	"ACCTAACAGACAAACTTCTTTATCTGCTTATGTATTGGCAAAATGAGTGAAATACGTGAAAAAAAAGAAAGAAAACAGAAATAGAGTAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.255-47757_255-47669delCCTAACAGACAAACTTCTTTATCTGCTTATGTATTGGCAAAATGAGTGAAATACGTGAAAAAAAAGAAAGAAAACAGAAATAGAGTAAA"	""	""	"ENST00000509669"	""	104	"."	15	51	"."	0	"CTD-3179P9.1,intron_variant,,ENST00000509669,;"	"-"	"ENSG00000249797"	"ENST00000509669"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/637"	""	""	""	""	""	"1"	NA	1	"CTD-3179P9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGACCTAACAGACAAACTTCTTTATCTGCTTATGTATTGGCAAAATGAGTGAAATACGTGAAAAAAAAGAAAGAAAACAGAAATAGAGTAAA"	"da673fce-a9a0-11e6-aa6e-a832379d9dc0"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.144230769230769	"WGS"	FALSE
"10221"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	120439174	120439178	"+"	"IGR"	"DEL"	"TTCTA"	"TTCTA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TTCTA"	"TTCTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"."	13	63	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTCTAT"	"f32e090c-a9a0-11e6-aa6e-a832379d9dc0"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.147727272727273	"WGS"	FALSE
"10222"	"CHSY3"	337876	"mskcc.org"	"GRCh37"	"5"	129496609	129496610	"+"	"Intron"	"INS"	"-"	"-"	"TTA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1087-23311_1087-23310insATT"	""	""	"ENST00000305031"	""	90	"."	6	42	"."	0	"CHSY3,intron_variant,,ENST00000305031,NM_175856.4;CHSY3,intron_variant,,ENST00000507545,;"	"TTA"	"ENSG00000198108"	"ENST00000305031"	"Transcript"	"intron_variant"	"-/3850"	"-/2649"	"-/882"	""	""	""	"1"	NA	1	"CHSY3"	"HGNC"	24293	"protein_coding"	"YES"	"CCDS34223.1"	"ENSP00000302629"	"Q70JA7"	"Q1JTV1"	"UPI0000251E08"	"NM_175856.4"	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"1da23b3e-a9a8-11e6-aa6e-a832379d9dc0"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"10223"	"FSTL4"	23105	"mskcc.org"	"GRCh37"	"5"	132687931	132687932	"+"	"Intron"	"INS"	"-"	"-"	"ATATATATACACACATATATATATATACACACATATATATATACACACAC"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.410-35588_410-35587insGTGTGTGTATATATATATGTGTGTATATATATATATGTGTGTATATATAT"	""	""	"ENST00000265342"	""	93	"."	5	70	"."	0	"FSTL4,intron_variant,,ENST00000265342,NM_015082.1;FSTL4,intron_variant,,ENST00000510685,;"	"ATATATATACACACATATATATATATACACACATATATATATACACACAC"	"ENSG00000053108"	"ENST00000265342"	"Transcript"	"intron_variant"	"-/5419"	"-/2529"	"-/842"	""	""	""	"1"	NA	-1	"FSTL4"	"HGNC"	21389	"protein_coding"	"YES"	"CCDS34238.1"	"ENSP00000265342"	"Q6MZW2"	""	"UPI000003AFB0"	"NM_015082.1"	NA	NA	""	"4/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"31097ec6-a9a8-11e6-aa6e-a832379d9dc0"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0537634408602151	"WGS"	FALSE
"10224"	"CTC-340A15.2"	102546299	"mskcc.org"	"GRCh37"	"5"	164578566	164578567	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.452-19811dupA"	""	""	"ENST00000519570"	""	96	"."	12	55	"."	0	"CTC-340A15.2,intron_variant,,ENST00000519570,;CTC-340A15.2,intron_variant,,ENST00000522646,;CTC-340A15.2,intron_variant,,ENST00000522303,;"	"A"	"ENSG00000241956"	"ENST00000519570"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/717"	""	""	""	""	""	"1"	NA	1	"CTC-340A15.2"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"5/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"45f6d42c-a9a9-11e6-aa6e-a832379d9dc0"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.125	"WGS"	FALSE
"10225"	"CPEB4"	80315	"mskcc.org"	"GRCh37"	"5"	173393939	173393942	"+"	"3'Flank"	"DEL"	"TAAT"	"TAAT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TAAT"	"TAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000265085"	""	94	"."	13	59	"."	0	"CPEB4,downstream_gene_variant,,ENST00000265085,NM_030627.2;"	"-"	"ENSG00000113742"	"ENST00000265085"	"Transcript"	"downstream_gene_variant"	"-/9483"	"-/2190"	"-/729"	""	""	""	"1"	"4960"	1	"CPEB4"	"HGNC"	21747	"protein_coding"	"YES"	"CCDS4390.1"	"ENSP00000265085"	"Q17RY0"	""	"UPI000020C179"	"NM_030627.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTAATT"	"d0504ef2-a9a2-11e6-aa6e-a832379d9dc0"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.138297872340426	"WGS"	FALSE
"10226"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	175639160	175639190	"+"	"IGR"	"DEL"	"CAGGATGCTGAGCCAGGAGGATCACTTGAGC"	"CAGGATGCTGAGCCAGGAGGATCACTTGAGC"	"GGGA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CAGGATGCTGAGCCAGGAGGATCACTTGAGC"	"CAGGATGCTGAGCCAGGAGGATCACTTGAGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"."	8	60	"."	0	""	"GGGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCAGGATGCTGAGCCAGGAGGATCACTTGAGCC"	"a9e4a2a8-a9a3-11e6-aa6e-a832379d9dc0"	"109"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"10227"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	178525576	178525579	"+"	"IGR"	"DEL"	"AAAT"	"AAAT"	"-"	"rs534184749"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AAAT"	"AAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"."	7	74	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs534184749"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0022"	"-:0"	"-:0"	NA	"-:0"	"-:0"	"-:0.0112"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAATA"	"168b98ae-a9a3-11e6-aa6e-a832379d9dc0"	"400"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"10228"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	6670258	6670259	"+"	"IGR"	"DEL"	"AG"	"AG"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"."	10	62	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAGA"	"60459bae-a99c-11e6-a78c-8c5382fa88f6"	"580"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0970873786407767	"WGS"	FALSE
"10229"	"ANKS1A"	23294	"mskcc.org"	"GRCh37"	"6"	34977795	34977795	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1424-7452delA"	""	""	"ENST00000360359"	""	94	"."	18	51	"."	0	"ANKS1A,intron_variant,,ENST00000360359,NM_015245.2;ANKS1A,intron_variant,,ENST00000535627,;"	"-"	"ENSG00000064999"	"ENST00000360359"	"Transcript"	"intron_variant"	"-/6336"	"-/3405"	"-/1134"	""	""	""	"1"	NA	1	"ANKS1A"	"HGNC"	20961	"protein_coding"	"YES"	"CCDS4798.1"	"ENSP00000353518"	"Q92625"	""	"UPI00001C1E4D"	"NM_015245.2"	NA	NA	""	"10/23"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGAA"	"cd06aa20-a99d-11e6-a78c-8c5382fa88f6"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.191489361702128	"WGS"	FALSE
"10230"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	43430512	43430512	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"."	12	46	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAT"	"1fa9d9be-a99e-11e6-a78c-8c5382fa88f6"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.146341463414634	"WGS"	FALSE
"10231"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	51308060	51308063	"+"	"IGR"	"DEL"	"TTAA"	"TTAA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TTAA"	"TTAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"."	11	57	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTTAAT"	"63b66014-a99e-11e6-a78c-8c5382fa88f6"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.112244897959184	"WGS"	FALSE
"10232"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	95509483	95509483	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"."	21	80	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"0308e29c-a9a2-11e6-a78c-8c5382fa88f6"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.177966101694915	"WGS"	FALSE
"10233"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	99152811	99152811	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"."	13	68	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"1ebee6ee-a9a2-11e6-a78c-8c5382fa88f6"	"459"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"10234"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	130264798	130264807	"+"	"IGR"	"DEL"	"ACGAGGACTT"	"ACGAGGACTT"	"GATGTA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"ACGAGGACTT"	"ACGAGGACTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"."	29	52	"."	0	""	"GATGTA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACACGAGGACTTC"	"b895f48a-a9a5-11e6-a78c-8c5382fa88f6"	"1740"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.308510638297872	"WGS"	FALSE
"10235"	"EEF1A1P36"	0	"mskcc.org"	"GRCh37"	"6"	132592164	132592166	"+"	"5'Flank"	"DEL"	"CCT"	"CCT"	"TG"	"rs386705956"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CCT"	"CCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000427807"	""	93	"."	10	57	"."	0	"EEF1A1P36,upstream_gene_variant,,ENST00000427807,;"	"TG"	"ENSG00000223912"	"ENST00000427807"	"Transcript"	"upstream_gene_variant"	"-/1351"	""	""	""	""	"rs386705956"	"1"	"955"	1	"EEF1A1P36"	"HGNC"	37914	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCCTT"	"ba7a43c8-a9a5-11e6-a78c-8c5382fa88f6"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.10752688172043	"WGS"	FALSE
"10236"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	142191291	142191295	"+"	"IGR"	"DEL"	"TTGAT"	"TTGAT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TTGAT"	"TTGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"."	13	42	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTGATT"	"ae975d04-a9a3-11e6-a78c-8c5382fa88f6"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.147727272727273	"WGS"	FALSE
"10237"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	150620756	150620758	"+"	"IGR"	"DEL"	"CGT"	"CGT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CGT"	"CGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"."	8	31	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACGTC"	"008cbfc8-a9a4-11e6-a78c-8c5382fa88f6"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0987654320987654	"WGS"	FALSE
"10238"	"PLEKHG1"	57480	"mskcc.org"	"GRCh37"	"6"	151028119	151028122	"+"	"Intron"	"DEL"	"TTTC"	"TTTC"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TTTC"	"TTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-98-26598_-98-26595delCTTT"	""	""	"ENST00000367328"	""	102	"."	5	72	"."	0	"PLEKHG1,intron_variant,,ENST00000367328,NM_001029884.1;PLEKHG1,intron_variant,,ENST00000367326,;"	"-"	"ENSG00000120278"	"ENST00000367328"	"Transcript"	"intron_variant"	"-/7237"	"-/4158"	"-/1385"	""	""	""	"1"	NA	1	"PLEKHG1"	"HGNC"	20884	"protein_coding"	"YES"	"CCDS34552.1"	"ENSP00000356297"	"Q9ULL1"	"Q5T1F3,Q5JYA6,Q5EBL9"	"UPI000015FC80"	"NM_001029884.1"	NA	NA	""	"2/16"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTTCT"	"046aa768-a9a4-11e6-a78c-8c5382fa88f6"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0490196078431373	"WGS"	FALSE
"10239"	"PARK2"	5071	"mskcc.org"	"GRCh37"	"6"	161818606	161818609	"+"	"Intron"	"DEL"	"TGCA"	"TGCA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TGCA"	"TGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1084-10700_1084-10697delTGCA"	""	""	"ENST00000366898"	""	108	"."	18	70	"."	0	"PARK2,intron_variant,,ENST00000366898,NM_004562.2;PARK2,intron_variant,,ENST00000366897,NM_013987.2;PARK2,intron_variant,,ENST00000366896,NM_013988.2;PARK2,intron_variant,,ENST00000338468,;PARK2,intron_variant,,ENST00000366894,;PARK2,intron_variant,,ENST00000479615,;"	"-"	"ENSG00000185345"	"ENST00000366898"	"Transcript"	"intron_variant"	"-/4180"	"-/1398"	"-/465"	""	""	""	"1"	NA	-1	"PARK2"	"HGNC"	8607	"protein_coding"	"YES"	"CCDS5281.1"	"ENSP00000355865"	"O60260"	"M4T2U2,Q6S8G7,Q6Q2I8,Q5XNR7"	"UPI00003673FE"	"NM_004562.2"	NA	NA	""	"9/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATTGCAT"	"af601108-a9a4-11e6-a78c-8c5382fa88f6"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"10240"	"PARK2"	5071	"mskcc.org"	"GRCh37"	"6"	162124872	162124884	"+"	"Intron"	"DEL"	"TTTTTTTTTTTTT"	"TTTTTTTTTTTTT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TTTTTTTTTTTTT"	"TTTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.871+81920_871+81932delAAAAAAAAAAAAA"	""	""	"ENST00000366898"	""	104	"."	8	48	"."	0	"PARK2,intron_variant,,ENST00000366898,NM_004562.2;PARK2,intron_variant,,ENST00000366897,NM_013987.2;PARK2,intron_variant,,ENST00000366896,NM_013988.2;PARK2,intron_variant,,ENST00000366892,;PARK2,intron_variant,,ENST00000338468,;PARK2,intron_variant,,ENST00000366894,;PARK2,intron_variant,,ENST00000479615,;"	"-"	"ENSG00000185345"	"ENST00000366898"	"Transcript"	"intron_variant"	"-/4180"	"-/1398"	"-/465"	""	""	""	"1"	NA	-1	"PARK2"	"HGNC"	8607	"protein_coding"	"YES"	"CCDS5281.1"	"ENSP00000355865"	"O60260"	"M4T2U2,Q6S8G7,Q6Q2I8,Q5XNR7"	"UPI00003673FE"	"NM_004562.2"	NA	NA	""	"7/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTTTTTTTTTTTTTT"	"b25bb7ea-a9a4-11e6-a78c-8c5382fa88f6"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"10241"	"LINC00473"	90632	"mskcc.org"	"GRCh37"	"6"	166320741	166320749	"+"	"3'Flank"	"DEL"	"TGGTCCTGG"	"TGGTCCTGG"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TGGTCCTGG"	"TGGTCCTGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000444465"	""	100	"."	12	49	"."	0	"LINC00473,downstream_gene_variant,,ENST00000444465,;PDE10A,intron_variant,,ENST00000535229,;PDE10A,intron_variant,,ENST00000580695,;"	"-"	"ENSG00000223414"	"ENST00000444465"	"Transcript"	"downstream_gene_variant"	"-/798"	""	""	""	""	""	"1"	"1541"	-1	"LINC00473"	"HGNC"	21160	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTGGTCCTGGT"	"dab1f59c-a9a4-11e6-a78c-8c5382fa88f6"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.12	"WGS"	FALSE
"10242"	"LINC00473"	90632	"mskcc.org"	"GRCh37"	"6"	166333123	166333123	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.395-8703delT"	""	""	"ENST00000444465"	""	111	"."	13	63	"."	0	"LINC00473,intron_variant,,ENST00000444465,;PDE10A,intron_variant,,ENST00000535229,;PDE10A,intron_variant,,ENST00000580695,;"	"-"	"ENSG00000223414"	"ENST00000444465"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/798"	""	""	""	""	""	"1"	NA	-1	"LINC00473"	"HGNC"	21160	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"dad79266-a9a4-11e6-a78c-8c5382fa88f6"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.117117117117117	"WGS"	FALSE
"10243"	"GNA12"	2768	"mskcc.org"	"GRCh37"	"7"	2884718	2884718	"+"	"5'Flank"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000275364"	""	93	"."	5	60	"."	0	"GNA12,upstream_gene_variant,,ENST00000275364,NM_007353.2;GNA12,upstream_gene_variant,,ENST00000544127,;"	"-"	"ENSG00000146535"	"ENST00000275364"	"Transcript"	"upstream_gene_variant"	"-/4378"	"-/1146"	"-/381"	""	""	""	"1"	"760"	-1	"GNA12"	"HGNC"	4380	"protein_coding"	"YES"	"CCDS5335.1"	"ENSP00000275364"	"Q03113"	""	"UPI000013DA5B"	"NM_007353.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTT"	"4ac6f87c-a99c-11e6-b224-b17eefd2df21"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0537634408602151	"WGS"	FALSE
"10244"	"MMD2"	221938	"mskcc.org"	"GRCh37"	"7"	4969627	4969996	"+"	"Intron"	"DEL"	"ATGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCATATTACAAGGTCAGGAGATCTAGACCATCCTGGCTAACACAGTGAAACCCCATCTCTACTAAAAATACAAAAAAAATAGCTGAGTGTGGTGGCGGGCACCTGTAGTCCCAGCTACTTGGAGGCTGAGGCAGGAGAATGGCATGAACCCAGGAGGTGGAGGTTGCAGTGAGCCAAGATCACGCCGCCACTGCACTCCAGCCTGGGAGACAGAACAAGACTCCATCTCAAAAAAAAAAAAAAAAAAAAGAGCCCAGACTGCAGTAGGGTGGGCCCCCATCCAATATGAGTAGGGTTCCCTAAAAAGACAAAACAGGCCGGGC"	"ATGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCATATTACAAGGTCAGGAGATCTAGACCATCCTGGCTAACACAGTGAAACCCCATCTCTACTAAAAATACAAAAAAAATAGCTGAGTGTGGTGGCGGGCACCTGTAGTCCCAGCTACTTGGAGGCTGAGGCAGGAGAATGGCATGAACCCAGGAGGTGGAGGTTGCAGTGAGCCAAGATCACGCCGCCACTGCACTCCAGCCTGGGAGACAGAACAAGACTCCATCTCAAAAAAAAAAAAAAAAAAAAGAGCCCAGACTGCAGTAGGGTGGGCCCCCATCCAATATGAGTAGGGTTCCCTAAAAAGACAAAACAGGCCGGGC"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"ATGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCATATTACAAGGTCAGGAGATCTAGACCATCCTGGCTAACACAGTGAAACCCCATCTCTACTAAAAATACAAAAAAAATAGCTGAGTGTGGTGGCGGGCACCTGTAGTCCCAGCTACTTGGAGGCTGAGGCAGGAGAATGGCATGAACCCAGGAGGTGGAGGTTGCAGTGAGCCAAGATCACGCCGCCACTGCACTCCAGCCTGGGAGACAGAACAAGACTCCATCTCAAAAAAAAAAAAAAAAAAAAGAGCCCAGACTGCAGTAGGGTGGGCCCCCATCCAATATGAGTAGGGTTCCCTAAAAAGACAAAACAGGCCGGGC"	"ATGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCATATTACAAGGTCAGGAGATCTAGACCATCCTGGCTAACACAGTGAAACCCCATCTCTACTAAAAATACAAAAAAAATAGCTGAGTGTGGTGGCGGGCACCTGTAGTCCCAGCTACTTGGAGGCTGAGGCAGGAGAATGGCATGAACCCAGGAGGTGGAGGTTGCAGTGAGCCAAGATCACGCCGCCACTGCACTCCAGCCTGGGAGACAGAACAAGACTCCATCTCAAAAAAAAAAAAAAAAAAAAGAGCCCAGACTGCAGTAGGGTGGGCCCCCATCCAATATGAGTAGGGTTCCCTAAAAAGACAAAACAGGCCGGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.48-4833_48-4464delGCCCGGCCTGTTTTGTCTTTTTAGGGAACCCTACTCATATTGGATGGGGGCCCACCCTACTGCAGTCTGGGCTCTTTTTTTTTTTTTTTTTTTTGAGATGGAGTCTTGTTCTGTCTCCCAGGCTGGAGTGCAGTGGCGGCGTGATCTTGGCTCACTGCAACCTCCACCTCCTGGGTTCATGCCATTCTCCTGCCTCAGCCTCCAAGTAGCTGGGACTACAGGTGCCCGCCACCACACTCAGCTATTTTTTTTGTATTTTTAGTAGAGATGGGGTTTCACTGTGTTAGCCAGGATGGTCTAGATCTCCTGACCTTGTAATATGCCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCAT"	""	""	"ENST00000404774"	""	110	"."	6	46	"."	0	"MMD2,intron_variant,,ENST00000404774,NM_001100600.1;MMD2,intron_variant,,ENST00000406755,NM_001270375.1;MMD2,intron_variant,,ENST00000401401,NM_198403.3;"	"-"	"ENSG00000136297"	"ENST00000404774"	"Transcript"	"intron_variant"	"-/2415"	"-/813"	"-/270"	""	""	""	"1"	NA	-1	"MMD2"	"HGNC"	30133	"protein_coding"	"YES"	"CCDS47529.1"	"ENSP00000384690"	"Q8IY49"	""	"UPI000016199F"	"NM_001100600.1"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTATGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCATATTACAAGGTCAGGAGATCTAGACCATCCTGGCTAACACAGTGAAACCCCATCTCTACTAAAAATACAAAAAAAATAGCTGAGTGTGGTGGCGGGCACCTGTAGTCCCAGCTACTTGGAGGCTGAGGCAGGAGAATGGCATGAACCCAGGAGGTGGAGGTTGCAGTGAGCCAAGATCACGCCGCCACTGCACTCCAGCCTGGGAGACAGAACAAGACTCCATCTCAAAAAAAAAAAAAAAAAAAAGAGCCCAGACTGCAGTAGGGTGGGCCCCCATCCAATATGAGTAGGGTTCCCTAAAAAGACAAAACAGGCCGGGCA"	"699e0c22-a99c-11e6-b224-b17eefd2df21"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0545454545454545	"WGS"	FALSE
"10245"	"AC011288.2"	0	"mskcc.org"	"GRCh37"	"7"	13519952	13519953	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.352-156311dupT"	""	""	"ENST00000411542"	""	100	"."	10	68	"."	0	"AC011288.2,intron_variant,,ENST00000411542,;"	"T"	"ENSG00000229618"	"ENST00000411542"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/526"	""	""	""	""	""	"1"	NA	1	"AC011288.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"486fab34-a9a4-11e6-b224-b17eefd2df21"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.1	"WGS"	FALSE
"10246"	"DGKB"	1607	"mskcc.org"	"GRCh37"	"7"	14672992	14672993	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1135-3097_1135-3096delAG"	""	""	"ENST00000403951"	""	93	"."	6	55	"."	0	"DGKB,intron_variant,,ENST00000403951,;DGKB,intron_variant,,ENST00000258767,;DGKB,intron_variant,,ENST00000399322,NM_004080.2;DGKB,intron_variant,,ENST00000402815,;DGKB,intron_variant,,ENST00000407950,;DGKB,intron_variant,,ENST00000444700,;DGKB,intron_variant,,ENST00000406247,NM_145695.2;DGKB,intron_variant,,ENST00000403963,;DGKB,intron_variant,,ENST00000471732,;DGKB,intron_variant,,ENST00000477401,;"	"-"	"ENSG00000136267"	"ENST00000403951"	"Transcript"	"intron_variant"	"-/6917"	"-/2415"	"-/804"	""	""	""	"1"	NA	-1	"DGKB"	"HGNC"	2850	"protein_coding"	"YES"	"CCDS47547.1"	"ENSP00000385780"	"Q9Y6T7"	"C9JA18,B7Z3B3"	"UPI0000033B9B"	""	NA	NA	""	"13/25"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACTC"	"d9c113be-a99c-11e6-b224-b17eefd2df21"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"10247"	"DGKB"	1607	"mskcc.org"	"GRCh37"	"7"	14783804	14783804	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.169-7985delT"	""	""	"ENST00000403951"	""	89	"."	11	72	"."	0	"DGKB,intron_variant,,ENST00000403951,;DGKB,intron_variant,,ENST00000258767,;DGKB,intron_variant,,ENST00000399322,NM_004080.2;DGKB,intron_variant,,ENST00000402815,;DGKB,intron_variant,,ENST00000407950,;DGKB,intron_variant,,ENST00000444700,;DGKB,intron_variant,,ENST00000406247,NM_145695.2;DGKB,intron_variant,,ENST00000437998,;DGKB,intron_variant,,ENST00000403963,;DGKB,intron_variant,,ENST00000463981,;DGKB,intron_variant,,ENST00000467449,;DGKB,intron_variant,,ENST00000477401,;"	"-"	"ENSG00000136267"	"ENST00000403951"	"Transcript"	"intron_variant"	"-/6917"	"-/2415"	"-/804"	""	""	""	"1"	NA	-1	"DGKB"	"HGNC"	2850	"protein_coding"	"YES"	"CCDS47547.1"	"ENSP00000385780"	"Q9Y6T7"	"C9JA18,B7Z3B3"	"UPI0000033B9B"	""	NA	NA	""	"4/25"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAC"	"db73b68a-a99c-11e6-b224-b17eefd2df21"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.123595505617978	"WGS"	FALSE
"10248"	"NT5C3A"	51251	"mskcc.org"	"GRCh37"	"7"	33084804	33084805	"+"	"Intron"	"INS"	"-"	"-"	"G"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.153+17375dupC"	""	""	"ENST00000242210"	""	112	"."	11	54	"."	0	"NT5C3A,intron_variant,,ENST00000242210,NM_001002010.2,NM_001002009.2;NT5C3A,intron_variant,,ENST00000610140,;NT5C3A,upstream_gene_variant,,ENST00000396152,NM_016489.12;NT5C3A,upstream_gene_variant,,ENST00000381626,NM_001166118.2;NT5C3A,upstream_gene_variant,,ENST00000409467,;NT5C3A,upstream_gene_variant,,ENST00000449201,;RN7SL505P,downstream_gene_variant,,ENST00000482644,;NT5C3A,intron_variant,,ENST00000456458,;NT5C3A,upstream_gene_variant,,ENST00000464840,;NT5C3A,upstream_gene_variant,,ENST00000497542,;"	"G"	"ENSG00000122643"	"ENST00000242210"	"Transcript"	"intron_variant"	"-/1670"	"-/1011"	"-/336"	""	""	""	"1"	NA	-1	"NT5C3A"	"HGNC"	17820	"protein_coding"	"YES"	"CCDS34616.1"	"ENSP00000242210"	"Q9H0P0"	"C9K084"	"UPI0000037BCB"	"NM_001002010.2,NM_001002009.2"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"01a3d65c-a9a5-11e6-b224-b17eefd2df21"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0982142857142857	"WGS"	FALSE
"10249"	"BBS9"	27241	"mskcc.org"	"GRCh37"	"7"	33514517	33514517	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2116-30558delA"	""	""	"ENST00000242067"	""	80	"."	10	51	"."	0	"BBS9,intron_variant,,ENST00000242067,NM_198428.2;BBS9,intron_variant,,ENST00000355070,NM_001033605.1;BBS9,intron_variant,,ENST00000354265,;BBS9,intron_variant,,ENST00000396127,NM_001033604.1;BBS9,intron_variant,,ENST00000350941,NM_014451.3;BBS9,intron_variant,,ENST00000434373,;BBS9,intron_variant,,ENST00000433714,;"	"-"	"ENSG00000122507"	"ENST00000242067"	"Transcript"	"intron_variant"	"-/4027"	"-/2664"	"-/887"	""	""	""	"1"	NA	1	"BBS9"	"HGNC"	30000	"protein_coding"	"YES"	"CCDS43566.1"	"ENSP00000242067"	"Q3SYG4"	"C9JRR5,C9JJ08"	"UPI000020ED57"	"NM_198428.2"	NA	NA	""	"19/22"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCAT"	"93c35682-a99d-11e6-b224-b17eefd2df21"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.125	"WGS"	FALSE
"10250"	"BLVRA"	644	"mskcc.org"	"GRCh37"	"7"	43842742	43842742	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.461-530delT"	""	""	"ENST00000402924"	""	100	"."	14	45	"."	0	"BLVRA,intron_variant,,ENST00000402924,NM_001253823.1;BLVRA,intron_variant,,ENST00000265523,NM_000712.3;BLVRA,intron_variant,,ENST00000486984,;"	"-"	"ENSG00000106605"	"ENST00000402924"	"Transcript"	"intron_variant"	"-/1159"	"-/891"	"-/296"	""	""	""	"1"	NA	1	"BLVRA"	"HGNC"	1062	"protein_coding"	"YES"	"CCDS5472.1"	"ENSP00000385757"	"P53004"	"C9J1E1"	"UPI0000126937"	"NM_001253823.1"	NA	NA	""	"7/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CATT"	"ea172950-a99d-11e6-b224-b17eefd2df21"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.14	"WGS"	FALSE
"10251"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	49009355	49009363	"+"	"IGR"	"DEL"	"CACCCTTCT"	"CACCCTTCT"	"TATGCA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CACCCTTCT"	"CACCCTTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"."	23	53	"."	0	""	"TATGCA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCACCCTTCTT"	"404db5fa-a9a3-11e6-b224-b17eefd2df21"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.239583333333333	"WGS"	FALSE
"10252"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	66830474	66830475	"+"	"IGR"	"INS"	"-"	"-"	"AAAAAAAAAAAAAAA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"."	5	49	"."	0	""	"AAAAAAAAAAAAAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"4281e384-a9a6-11e6-b224-b17eefd2df21"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0467289719626168	"WGS"	FALSE
"10253"	"AUTS2"	26053	"mskcc.org"	"GRCh37"	"7"	70052666	70052666	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.691-110887delC"	""	""	"ENST00000342771"	""	81	"."	16	55	"."	0	"AUTS2,intron_variant,,ENST00000342771,NM_015570.2;AUTS2,intron_variant,,ENST00000406775,NM_001127231.1;"	"-"	"ENSG00000158321"	"ENST00000342771"	"Transcript"	"intron_variant"	"-/6173"	"-/3780"	"-/1259"	""	""	""	"1"	NA	1	"AUTS2"	"HGNC"	14262	"protein_coding"	"YES"	"CCDS5539.1"	"ENSP00000344087"	"Q8WXX7"	"Q75MQ7,Q75MQ4,Q75MQ3,Q75MD7"	"UPI0000126665"	"NM_015570.2"	NA	NA	""	"5/18"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CACC"	"c2a9cf88-a99f-11e6-b224-b17eefd2df21"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.197530864197531	"WGS"	FALSE
"10254"	"SRRM3"	222183	"mskcc.org"	"GRCh37"	"7"	75845377	75845616	"+"	"Intron"	"DEL"	"GGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCCACATCTGGCTAATTTTTTGTCATTTTAGTAGAGATGGGGATTCACCATGTTGGCCAGGCTGGTCGTGAACTTCTGACCTCAGGTGATCCCCCAGCCTCGACCTCCCAAAGTGTTGGGATTACAGGCATGAGCCACCATGCCTGCCCCCATGCTGGTCTTGAACTCCTGGGTGCAAGCAGTCTTCCCACCTC"	"GGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCCACATCTGGCTAATTTTTTGTCATTTTAGTAGAGATGGGGATTCACCATGTTGGCCAGGCTGGTCGTGAACTTCTGACCTCAGGTGATCCCCCAGCCTCGACCTCCCAAAGTGTTGGGATTACAGGCATGAGCCACCATGCCTGCCCCCATGCTGGTCTTGAACTCCTGGGTGCAAGCAGTCTTCCCACCTC"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"GGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCCACATCTGGCTAATTTTTTGTCATTTTAGTAGAGATGGGGATTCACCATGTTGGCCAGGCTGGTCGTGAACTTCTGACCTCAGGTGATCCCCCAGCCTCGACCTCCCAAAGTGTTGGGATTACAGGCATGAGCCACCATGCCTGCCCCCATGCTGGTCTTGAACTCCTGGGTGCAAGCAGTCTTCCCACCTC"	"GGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCCACATCTGGCTAATTTTTTGTCATTTTAGTAGAGATGGGGATTCACCATGTTGGCCAGGCTGGTCGTGAACTTCTGACCTCAGGTGATCCCCCAGCCTCGACCTCCCAAAGTGTTGGGATTACAGGCATGAGCCACCATGCCTGCCCCCATGCTGGTCTTGAACTCCTGGGTGCAAGCAGTCTTCCCACCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-40+14031_-40+14270delCGCCCGGCCCACATCTGGCTAATTTTTTGTCATTTTAGTAGAGATGGGGATTCACCATGTTGGCCAGGCTGGTCGTGAACTTCTGACCTCAGGTGATCCCCCAGCCTCGACCTCCCAAAGTGTTGGGATTACAGGCATGAGCCACCATGCCTGCCCCCATGCTGGTCTTGAACTCCTGGGTGCAAGCAGTCTTCCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCG"	""	""	"ENST00000326382"	""	72	"."	5	54	"."	0	"SRRM3,intron_variant,,ENST00000388802,;SRRM3,intron_variant,,ENST00000326382,NM_001110199.1;"	"-"	"ENSG00000177679"	"ENST00000326382"	"Transcript"	"intron_variant"	"-/3611"	"-/1794"	"-/597"	""	""	""	"1"	NA	1	"SRRM3"	"HGNC"	26729	"protein_coding"	"YES"	""	"ENSP00000325298"	"A6NNA2"	""	"UPI0000E5ADAA"	"NM_001110199.1"	NA	NA	""	"1/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"39"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCCACATCTGGCTAATTTTTTGTCATTTTAGTAGAGATGGGGATTCACCATGTTGGCCAGGCTGGTCGTGAACTTCTGACCTCAGGTGATCCCCCAGCCTCGACCTCCCAAAGTGTTGGGATTACAGGCATGAGCCACCATGCCTGCCCCCATGCTGGTCTTGAACTCCTGGGTGCAAGCAGTCTTCCCACCTCG"	"03c94aa2-a9a0-11e6-b224-b17eefd2df21"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0694444444444444	"WGS"	FALSE
"10255"	"MAGI2"	9863	"mskcc.org"	"GRCh37"	"7"	77820616	77820616	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2269+3575delT"	""	""	"ENST00000354212"	""	101	"."	19	65	"."	0	"MAGI2,intron_variant,,ENST00000354212,NM_012301.3;MAGI2,intron_variant,,ENST00000419488,;MAGI2,intron_variant,,ENST00000522391,;MAGI2,intron_variant,,ENST00000524316,;MAGI2,intron_variant,,ENST00000519748,;MAGI2,intron_variant,,ENST00000520379,;"	"-"	"ENSG00000187391"	"ENST00000354212"	"Transcript"	"intron_variant"	"-/6861"	"-/4368"	"-/1455"	""	""	""	"1"	NA	-1	"MAGI2"	"HGNC"	18957	"protein_coding"	"YES"	"CCDS5594.1"	"ENSP00000346151"	"Q86UL8"	""	"UPI00001615D2"	"NM_012301.3"	NA	NA	""	"12/21"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"200f8a96-a9a0-11e6-b224-b17eefd2df21"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.188118811881188	"WGS"	FALSE
"10256"	"ARPC1A"	10552	"mskcc.org"	"GRCh37"	"7"	98937672	98937674	"+"	"Intron"	"DEL"	"CTT"	"CTT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.169+1764_169+1766delCTT"	""	""	"ENST00000262942"	""	107	"."	22	48	"."	0	"ARPC1A,intron_variant,,ENST00000432884,;ARPC1A,intron_variant,,ENST00000262942,NM_001190996.1,NM_006409.3;ARPC1A,intron_variant,,ENST00000441989,;ARPC1A,intron_variant,,ENST00000432786,;"	"-"	"ENSG00000241685"	"ENST00000262942"	"Transcript"	"intron_variant"	"-/1565"	"-/1113"	"-/370"	""	""	""	"1"	NA	1	"ARPC1A"	"HGNC"	703	"protein_coding"	"YES"	"CCDS5660.1"	"ENSP00000262942"	"Q92747"	"Q75MY0"	"UPI0000167B41"	"NM_001190996.1,NM_006409.3"	NA	NA	""	"3/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACTTT"	"e0a6d1ba-a9a0-11e6-b224-b17eefd2df21"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.205607476635514	"WGS"	FALSE
"10257"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	113308234	113308234	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"."	6	62	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATG"	"7763fc4a-a9a1-11e6-b224-b17eefd2df21"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.06	"WGS"	FALSE
"10258"	"TFEC"	22797	"mskcc.org"	"GRCh37"	"7"	115794745	115794745	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-69+5099delG"	""	""	"ENST00000484212"	""	113	"."	13	72	"."	0	"TFEC,intron_variant,,ENST00000484212,;TFEC,intron_variant,,ENST00000474337,;TFEC,intron_variant,,ENST00000465322,;"	"-"	"ENSG00000105967"	"ENST00000484212"	"Transcript"	"intron_variant"	"-/1245"	"-/951"	"-/316"	""	""	""	"1"	NA	-1	"TFEC"	"HGNC"	11754	"protein_coding"	""	""	"ENSP00000417432"	""	"Q75MG2,B7Z757"	"UPI00019151E7"	""	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"883f7e9a-a9a1-11e6-b224-b17eefd2df21"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.115044247787611	"WGS"	FALSE
"10259"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	125588233	125588233	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"."	7	37	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"cfbdbbf6-a9a1-11e6-b224-b17eefd2df21"	"392"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"10260"	"CNTNAP2"	26047	"mskcc.org"	"GRCh37"	"7"	145932277	145932278	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.97+118217dupA"	""	""	"ENST00000361727"	""	97	"."	5	52	"."	0	"CNTNAP2,intron_variant,,ENST00000361727,NM_014141.5;"	"A"	"ENSG00000174469"	"ENST00000361727"	"Transcript"	"intron_variant"	"-/9894"	"-/3996"	"-/1331"	""	""	""	"1"	NA	1	"CNTNAP2"	"HGNC"	13830	"protein_coding"	"YES"	"CCDS5889.1"	"ENSP00000354778"	"Q9UHC6"	"Q9UDV4,Q96T77,Q86UL9,Q86UL6,Q86UL4,Q86UJ1,Q86UI8,Q75MQ9,Q75MF8,Q75MF6,Q75MD4,Q75MA1,Q75M92,Q75LG9,O75852,B7Z1Y6"	"UPI00001285FA"	"NM_014141.5"	NA	NA	""	"1/23"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTA"	"19115b62-a9a9-11e6-b224-b17eefd2df21"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0515463917525773	"WGS"	FALSE
"10261"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	153033123	153033123	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"."	21	57	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTT"	"df24712e-a9a2-11e6-b224-b17eefd2df21"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.205882352941176	"WGS"	FALSE
"10262"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	2238019	2238020	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	195	"."	10	128	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"f431c7b2-a9aa-11e6-a791-a0fe320ab54d"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0512820512820513	"WGS"	FALSE
"10263"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	8499686	8499687	"+"	"IGR"	"INS"	"-"	"-"	"AAAAAAAAA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"."	6	55	"."	0	""	"AAAAAAAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"2336ce5e-a9ab-11e6-a791-a0fe320ab54d"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0571428571428571	"WGS"	FALSE
"10264"	"SGCZ"	137868	"mskcc.org"	"GRCh37"	"8"	14093171	14093173	"+"	"Intron"	"DEL"	"CAT"	"CAT"	"TA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CAT"	"CAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.424+1928_424+1930delATGinsTA"	""	""	"ENST00000382080"	""	93	"."	5	63	"."	0	"SGCZ,intron_variant,,ENST00000382080,NM_139167.2;SGCZ,intron_variant,,ENST00000421524,;"	"TA"	"ENSG00000185053"	"ENST00000382080"	"Transcript"	"intron_variant"	"-/2234"	"-/939"	"-/312"	""	""	""	"1"	NA	-1	"SGCZ"	"HGNC"	14075	"protein_coding"	"YES"	"CCDS5992.2"	"ENSP00000371512"	"Q96LD1"	""	"UPI00002339F6"	"NM_139167.2"	NA	NA	""	"4/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCATG"	"cd3bb02e-a9a9-11e6-a791-a0fe320ab54d"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0537634408602151	"WGS"	FALSE
"10265"	"SGCZ"	137868	"mskcc.org"	"GRCh37"	"8"	14093171	14093173	"+"	"Intron"	"DEL"	"CAT"	"CAT"	"TA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CAT"	"CAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.424+1928_424+1930delATGinsTA"	""	""	"ENST00000382080"	""	93	"."	7	63	"."	0	"SGCZ,intron_variant,,ENST00000382080,NM_139167.2;SGCZ,intron_variant,,ENST00000421524,;"	"TA"	"ENSG00000185053"	"ENST00000382080"	"Transcript"	"intron_variant"	"-/2234"	"-/939"	"-/312"	""	""	""	"1"	NA	-1	"SGCZ"	"HGNC"	14075	"protein_coding"	"YES"	"CCDS5992.2"	"ENSP00000371512"	"Q96LD1"	""	"UPI00002339F6"	"NM_139167.2"	NA	NA	""	"4/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCATG"	"cd41a8da-a9a9-11e6-a791-a0fe320ab54d"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"10266"	"NAT1"	9	"mskcc.org"	"GRCh37"	"8"	18034102	18034103	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTG"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-261+5858_-261+5859insTTTTGTTTT"	""	""	"ENST00000535084"	""	88	"."	5	55	"."	0	"NAT1,intron_variant,,ENST00000535084,NM_001160179.1;NAT1,intron_variant,,ENST00000517441,;"	"TTTTTTTTG"	"ENSG00000171428"	"ENST00000535084"	"Transcript"	"intron_variant"	"-/1967"	"-/873"	"-/290"	""	""	""	"1"	NA	1	"NAT1"	"HGNC"	7645	"protein_coding"	""	"CCDS6007.1"	"ENSP00000444609"	"P18440"	"Q6U7I7,Q5C8V2,Q400J6,Q400I9,Q09LL5"	"UPI00000001A2"	"NM_001160179.1"	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"6c8f37b2-a9ab-11e6-a791-a0fe320ab54d"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0568181818181818	"WGS"	FALSE
"10267"	"NRG1"	3084	"mskcc.org"	"GRCh37"	"8"	32415239	32415250	"+"	"Intron"	"DEL"	"TATCCATTTTGG"	"TATCCATTTTGG"	"CCCAT"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TATCCATTTTGG"	"TATCCATTTTGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.100+8895_100+8906delTATCCATTTTGGinsCCCAT"	""	""	"ENST00000356819"	""	101	"."	6	61	"."	0	"NRG1,intron_variant,,ENST00000341377,NM_013964.3;NRG1,intron_variant,,ENST00000338921,;NRG1,intron_variant,,ENST00000356819,NM_013956.3,NM_001159999.1;NRG1,intron_variant,,ENST00000287845,;NRG1,intron_variant,,ENST00000523534,;NRG1,intron_variant,,ENST00000287842,NM_013957.3,NM_001160004.1;NRG1,intron_variant,,ENST00000523079,NM_001160008.1;NRG1,intron_variant,,ENST00000405005,;NRG1,intron_variant,,ENST00000520407,NM_013962.2;NRG1,intron_variant,,ENST00000519301,NM_001160001.1;NRG1,intron_variant,,ENST00000521670,NM_013960.3;NRG1,intron_variant,,ENST00000518104,NM_001159995.1;"	"CCCAT"	"ENSG00000157168"	"ENST00000356819"	"Transcript"	"intron_variant"	"-/3083"	"-/1938"	"-/645"	""	""	""	"1"	NA	1	"NRG1"	"HGNC"	7997	"protein_coding"	"YES"	"CCDS6083.1"	"ENSP00000349275"	"Q02297"	"Q7RTW5,B7Z168"	"UPI000013DED7"	"NM_013956.3,NM_001159999.1"	NA	NA	""	"1/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTATCCATTTTGGG"	"d7ed262e-a9a9-11e6-a791-a0fe320ab54d"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0594059405940594	"WGS"	TRUE
"10268"	"TTI2"	80185	"mskcc.org"	"GRCh37"	"8"	33366135	33366136	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.834+1122_834+1128dupTTTTTTT"	""	""	"ENST00000431156"	""	108	"."	5	58	"."	0	"TTI2,intron_variant,,ENST00000431156,NM_001102401.2;TTI2,intron_variant,,ENST00000360742,NM_025115.3,NM_001265581.1;TTI2,intron_variant,,ENST00000520636,;TTI2,downstream_gene_variant,,ENST00000523305,;SNORD13,upstream_gene_variant,,ENST00000459299,NR_003041.1;TTI2,intron_variant,,ENST00000519356,;"	"AAAAAAA"	"ENSG00000129696"	"ENST00000431156"	"Transcript"	"intron_variant"	"-/2363"	"-/1527"	"-/508"	""	""	""	"1"	NA	-1	"TTI2"	"HGNC"	26262	"protein_coding"	"YES"	"CCDS6090.1"	"ENSP00000411169"	"Q6NXR4"	"E5RHM7"	"UPI000013D26B"	"NM_001102401.2"	NA	NA	""	"3/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"da6b0450-a9ab-11e6-a791-a0fe320ab54d"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0462962962962963	"WGS"	FALSE
"10269"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	50289002	50289012	"+"	"IGR"	"DEL"	"TAATGCCTAGA"	"TAATGCCTAGA"	"ATCTGTTG"	"rs386725127"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TAATGCCTAGA"	"TAATGCCTAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"."	12	60	"."	0	""	"ATCTGTTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs386725127"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATAATGCCTAGAT"	"bb27519e-a9aa-11e6-a791-a0fe320ab54d"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"10270"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	50289002	50289012	"+"	"IGR"	"DEL"	"TAATGCCTAGA"	"TAATGCCTAGA"	"ATCTGTTG"	"rs386725127"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TAATGCCTAGA"	"TAATGCCTAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"."	16	60	"."	0	""	"ATCTGTTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs386725127"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATAATGCCTAGAT"	"bb3411a4-a9aa-11e6-a791-a0fe320ab54d"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.170212765957447	"WGS"	FALSE
"10271"	"CTD-2272D18.1"	101927141	"mskcc.org"	"GRCh37"	"8"	83873199	83873202	"+"	"Intron"	"DEL"	"AAAT"	"AAAT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AAAT"	"AAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.361-229_361-226delTAAA"	""	""	"ENST00000524359"	""	97	"."	15	63	"."	0	"CTD-2272D18.1,intron_variant,,ENST00000524359,;RP11-731N10.1,upstream_gene_variant,,ENST00000522123,;"	"-"	"ENSG00000254394"	"ENST00000524359"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/616"	""	""	""	""	""	"1"	NA	1	"CTD-2272D18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAATA"	"fe98d8ec-a9a7-11e6-a791-a0fe320ab54d"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.154639175257732	"WGS"	FALSE
"10272"	"OXR1"	55074	"mskcc.org"	"GRCh37"	"8"	107694072	107694072	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.307-1351delT"	""	""	"ENST00000442977"	""	115	"."	6	55	"."	0	"OXR1,intron_variant,,ENST00000445937,NM_018002.3;OXR1,intron_variant,,ENST00000517566,NM_001198533.1;OXR1,intron_variant,,ENST00000312046,NM_181354.4;OXR1,intron_variant,,ENST00000452423,;OXR1,intron_variant,,ENST00000531443,;OXR1,intron_variant,,ENST00000442977,NM_001198532.1;OXR1,intron_variant,,ENST00000497705,;OXR1,intron_variant,,ENST00000517686,;OXR1,upstream_gene_variant,,ENST00000517455,;OXR1,intron_variant,,ENST00000435082,;OXR1,intron_variant,,ENST00000438229,;"	"-"	"ENSG00000164830"	"ENST00000442977"	"Transcript"	"intron_variant"	"-/2956"	"-/2625"	"-/874"	""	""	""	"1"	NA	1	"OXR1"	"HGNC"	15822	"protein_coding"	"YES"	"CCDS56548.1"	"ENSP00000405424"	"Q8N573"	"E9PLW2"	"UPI0001914BEA"	"NM_001198532.1"	NA	NA	""	"3/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGTT"	"d59bbf3a-a9a8-11e6-a791-a0fe320ab54d"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0521739130434783	"WGS"	FALSE
"10273"	"EXT1"	2131	"mskcc.org"	"GRCh37"	"8"	119022872	119022881	"+"	"Intron"	"DEL"	"GTCCTTTAGG"	"GTCCTTTAGG"	"ATATT"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"GTCCTTTAGG"	"GTCCTTTAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.962+99443_962+99452delCCTAAAGGACinsAATAT"	""	""	"ENST00000378204"	""	118	"."	20	42	"."	0	"EXT1,intron_variant,,ENST00000378204,NM_000127.2;EXT1,intron_variant,,ENST00000436216,;EXT1,intron_variant,,ENST00000437196,;"	"ATATT"	"ENSG00000182197"	"ENST00000378204"	"Transcript"	"intron_variant"	"-/8270"	"-/2241"	"-/746"	""	""	""	"1"	NA	-1	"EXT1"	"HGNC"	3512	"protein_coding"	"YES"	"CCDS6324.1"	"ENSP00000367446"	"Q16394"	"T2FFJ4,S5Y321,D7RTA7"	"UPI000012A3A1"	"NM_000127.2"	NA	NA	""	"1/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGGTCCTTTAGGA"	"d9634352-a9aa-11e6-a791-a0fe320ab54d"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.169491525423729	"WGS"	TRUE
"10274"	"RP11-369K17.1"	0	"mskcc.org"	"GRCh37"	"8"	122015445	122015453	"+"	"Intron"	"DEL"	"AATATATAT"	"AATATATAT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AATATATAT"	"AATATATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.96-40177_96-40169delATATATATA"	""	""	"ENST00000517739"	""	87	"."	5	41	"."	0	"RP11-369K17.1,intron_variant,,ENST00000517739,;"	"-"	"ENSG00000253619"	"ENST00000517739"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/776"	""	""	""	""	""	"1"	NA	1	"RP11-369K17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAATATATATA"	"32913a44-a9a9-11e6-a791-a0fe320ab54d"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0574712643678161	"WGS"	FALSE
"10275"	"MIR5194"	100847051	"mskcc.org"	"GRCh37"	"8"	131018912	131018913	"+"	"3'Flank"	"INS"	"-"	"-"	"TATATACACATATATATGTGTATATATATACATATATATATGTGTG"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000582634"	""	85	"."	6	39	"."	0	"FAM49B,intron_variant,,ENST00000401979,;FAM49B,intron_variant,,ENST00000523509,;FAM49B,intron_variant,,ENST00000519110,;FAM49B,intron_variant,,ENST00000517654,;FAM49B,intron_variant,,ENST00000523993,;FAM49B,intron_variant,,ENST00000518283,;FAM49B,intron_variant,,ENST00000519020,;FAM49B,intron_variant,,ENST00000518167,;FAM49B,intron_variant,,ENST00000522361,;MIR5194,downstream_gene_variant,,ENST00000582634,;RNU7-181P,upstream_gene_variant,,ENST00000517234,;FAM49B,intron_variant,,ENST00000518879,;FAM49B,intron_variant,,ENST00000521223,;FAM49B,intron_variant,,ENST00000522702,;FAM49B,intron_variant,,ENST00000518285,;FAM49B,intron_variant,,ENST00000523288,;FAM49B,intron_variant,,ENST00000523514,;"	"TATATACACATATATATGTGTATATATATACATATATATATGTGTG"	"ENSG00000264653"	"ENST00000582634"	"Transcript"	"downstream_gene_variant"	"-/120"	""	""	""	""	""	"1"	"1667"	-1	"MIR5194"	"HGNC"	43498	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"2ca59e4a-a9ae-11e6-a791-a0fe320ab54d"	"355"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0705882352941176	"WGS"	FALSE
"10276"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	143037129	143037166	"+"	"IGR"	"DEL"	"ATACATATATATACATATACATATATATACACATACAT"	"ATACATATATATACATATACATATATATACACATACAT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"ATACATATATATACATATACATATATATACACATACAT"	"ATACATATATATACATATACATATATATACACATACAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"."	5	40	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATACATATATATACATATACATATATATACACATACATA"	"ad362dd6-a9a9-11e6-a791-a0fe320ab54d"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0632911392405063	"WGS"	FALSE
"10277"	"SCRIB"	23513	"mskcc.org"	"GRCh37"	"8"	144898053	144898061	"+"	"5'Flank"	"DEL"	"CGCCCCGCG"	"CGCCCCGCG"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CGCCCCGCG"	"CGCCCCGCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000356994"	""	75	"."	11	69	"."	0	"SCRIB,upstream_gene_variant,,ENST00000356994,NM_182706.4;SCRIB,upstream_gene_variant,,ENST00000320476,NM_015356.4;SCRIB,upstream_gene_variant,,ENST00000377533,;PUF60,downstream_gene_variant,,ENST00000526683,NM_001271098.1,NM_078480.2;PUF60,downstream_gene_variant,,ENST00000453551,NM_001136033.2;PUF60,downstream_gene_variant,,ENST00000349157,NM_014281.4,NM_001271096.1;PUF60,downstream_gene_variant,,ENST00000313352,NM_001271100.1;PUF60,downstream_gene_variant,,ENST00000456095,NM_001271099.1;PUF60,downstream_gene_variant,,ENST00000527197,NM_001271097.1;PUF60,downstream_gene_variant,,ENST00000527744,;PUF60,downstream_gene_variant,,ENST00000526459,;PUF60,downstream_gene_variant,,ENST00000529999,;PUF60,downstream_gene_variant,,ENST00000532884,;PUF60,downstream_gene_variant,,ENST00000531897,;PUF60,downstream_gene_variant,,ENST00000533162,;MIR937,upstream_gene_variant,,ENST00000401271,;PUF60,downstream_gene_variant,,ENST00000524570,;PUF60,downstream_gene_variant,,ENST00000531951,;PUF60,downstream_gene_variant,,ENST00000528999,;PUF60,downstream_gene_variant,,ENST00000528320,;PUF60,downstream_gene_variant,,ENST00000529693,;PUF60,downstream_gene_variant,,ENST00000531995,;PUF60,downstream_gene_variant,,ENST00000532127,;PUF60,downstream_gene_variant,,ENST00000527584,;"	"-"	"ENSG00000180900"	"ENST00000356994"	"Transcript"	"upstream_gene_variant"	"-/5218"	"-/4968"	"-/1655"	""	""	""	"1"	"504"	-1	"SCRIB"	"HGNC"	30377	"protein_coding"	"YES"	"CCDS6412.1"	"ENSP00000349486"	"Q14160"	""	"UPI00004576FD"	"NM_182706.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCCGCCCCGCGC"	"ba625fca-a9a9-11e6-a791-a0fe320ab54d"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.146666666666667	"WGS"	FALSE
"10278"	"SLC1A1"	6505	"mskcc.org"	"GRCh37"	"9"	4553564	4553564	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.233-7885delA"	""	""	"ENST00000262352"	""	85	"."	7	46	"."	0	"SLC1A1,intron_variant,,ENST00000262352,NM_004170.5;SPATA6L,3_prime_UTR_variant,,ENST00000485616,;"	"-"	"ENSG00000106688"	"ENST00000262352"	"Transcript"	"intron_variant"	"-/3722"	"-/1575"	"-/524"	""	""	""	"1"	NA	1	"SLC1A1"	"HGNC"	10939	"protein_coding"	"YES"	"CCDS6452.1"	"ENSP00000262352"	"P43005"	""	"UPI0000129B16"	"NM_004170.5"	NA	NA	""	"2/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAC"	"49d1a548-a99c-11e6-ba7f-e02bfcec48f2"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0823529411764706	"WGS"	FALSE
"10279"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	12636826	12636826	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"."	11	55	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"a328dad0-a99c-11e6-ba7f-e02bfcec48f2"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.139240506329114	"WGS"	FALSE
"10280"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	19393642	19393643	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"."	12	67	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"92b56410-a9a2-11e6-ba7f-e02bfcec48f2"	"700"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.106194690265487	"WGS"	FALSE
"10281"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	23659782	23659782	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"."	9	55	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCC"	"10b737f4-a99d-11e6-ba7f-e02bfcec48f2"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.087378640776699	"WGS"	FALSE
"10282"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	25611688	25611688	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"."	5	58	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"20a2117a-a99d-11e6-ba7f-e02bfcec48f2"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0531914893617021	"WGS"	FALSE
"10283"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	30372045	30372046	"+"	"IGR"	"DEL"	"TT"	"TT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"."	11	66	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATTG"	"4b222a34-a99d-11e6-ba7f-e02bfcec48f2"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.10377358490566	"WGS"	FALSE
"10284"	"RP11-274B18.4"	0	"mskcc.org"	"GRCh37"	"9"	71260595	71260600	"+"	"3'Flank"	"DEL"	"ACTCAC"	"ACTCAC"	"TA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"ACTCAC"	"ACTCAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000413269"	""	65	"."	19	45	"."	0	"RP11-274B18.4,downstream_gene_variant,,ENST00000413269,;"	"TA"	"ENSG00000226337"	"ENST00000413269"	"Transcript"	"downstream_gene_variant"	"-/1739"	""	""	""	""	""	"1"	"1237"	1	"RP11-274B18.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTACTCACT"	"93f75262-a9a1-11e6-ba7f-e02bfcec48f2"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.292307692307692	"WGS"	FALSE
"10285"	"ENSR00001308146"	0	"mskcc.org"	"GRCh37"	"9"	93822898	93822899	"+"	"IGR"	"DEL"	"GA"	"GA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"GA"	"GA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001308146"	""	109	"."	19	45	"."	0	""	"-"	""	"ENSR00001308146"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGAG"	"49741150-a99f-11e6-ba7f-e02bfcec48f2"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.174311926605505	"WGS"	FALSE
"10286"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	110878056	110878057	"+"	"IGR"	"INS"	"-"	"-"	"ATATAATATATATTATATATTAAGTTACATATAATATATATTATATATTAAGTTAC"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"."	10	62	"."	0	""	"ATATAATATATATTATATATTAAGTTACATATAATATATATTATATATTAAGTTAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"47aeebaa-a9a5-11e6-ba7f-e02bfcec48f2"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0892857142857143	"WGS"	FALSE
"10287"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	137492600	137492601	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"."	9	75	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"601b342c-a9a6-11e6-ba7f-e02bfcec48f2"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0708661417322835	"WGS"	FALSE
"10288"	"NPM1P9"	0	"mskcc.org"	"GRCh37"	"X"	14850429	14850429	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000453156"	""	92	"."	12	49	"."	0	"NPM1P9,downstream_gene_variant,,ENST00000453156,;"	"-"	"ENSG00000231066"	"ENST00000453156"	"Transcript"	"downstream_gene_variant"	"-/844"	""	""	""	""	""	"1"	"2169"	-1	"NPM1P9"	"HGNC"	7929	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGC"	"8008849c-a99c-11e6-9bbb-82109c5ef6fb"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"10289"	"CDKL5"	6792	"mskcc.org"	"GRCh37"	"X"	18506830	18506830	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-162-18222delA"	""	""	"ENST00000379989"	""	93	"."	8	52	"."	0	"CDKL5,intron_variant,,ENST00000379989,NM_001037343.1;CDKL5,intron_variant,,ENST00000379996,NM_003159.2;"	"-"	"ENSG00000008086"	"ENST00000379989"	"Transcript"	"intron_variant"	"-/3459"	"-/3093"	"-/1030"	""	""	""	"1"	NA	1	"CDKL5"	"HGNC"	11411	"protein_coding"	"YES"	"CCDS14186.1"	"ENSP00000369325"	"O76039"	""	"UPI0000136103"	"NM_001037343.1"	NA	NA	""	"2/21"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAA"	"8f3d4876-a99c-11e6-9bbb-82109c5ef6fb"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0860215053763441	"WGS"	FALSE
"10290"	"PHKA2"	5256	"mskcc.org"	"GRCh37"	"X"	19005732	19005732	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000379942"	""	113	"."	10	56	"."	0	"PHKA2,upstream_gene_variant,,ENST00000379942,NM_000292.2;GPR64,downstream_gene_variant,,ENST00000354791,;GPR64,downstream_gene_variant,,ENST00000379878,NM_001184833.1;GPR64,downstream_gene_variant,,ENST00000379876,NM_001184836.1,NM_001184835.1;GPR64,downstream_gene_variant,,ENST00000379869,NM_001079858.2,NM_005756.3;GPR64,downstream_gene_variant,,ENST00000360279,NM_001079860.2;GPR64,downstream_gene_variant,,ENST00000379873,NM_001184834.1;GPR64,downstream_gene_variant,,ENST00000357544,NM_001184837.1;GPR64,downstream_gene_variant,,ENST00000357991,;GPR64,downstream_gene_variant,,ENST00000356606,NM_001079859.2;GPR64,downstream_gene_variant,,ENST00000340581,;"	"-"	"ENSG00000044446"	"ENST00000379942"	"Transcript"	"upstream_gene_variant"	"-/5559"	"-/3708"	"-/1235"	""	""	""	"1"	"3016"	-1	"PHKA2"	"HGNC"	8926	"protein_coding"	"YES"	"CCDS14190.1"	"ENSP00000369274"	"P46019"	""	"UPI000012DF4B"	"NM_000292.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGAA"	"91dd9ef0-a99c-11e6-9bbb-82109c5ef6fb"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0884955752212389	"WGS"	FALSE
"10291"	"SH3KBP1"	30011	"mskcc.org"	"GRCh37"	"X"	19853717	19853717	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.162+526delC"	""	""	"ENST00000397821"	""	86	"."	5	43	"."	0	"SH3KBP1,intron_variant,,ENST00000397821,NM_031892.2;SH3KBP1,intron_variant,,ENST00000379697,;"	"-"	"ENSG00000147010"	"ENST00000397821"	"Transcript"	"intron_variant"	"-/4731"	"-/1998"	"-/665"	""	""	""	"1"	NA	-1	"SH3KBP1"	"HGNC"	13867	"protein_coding"	"YES"	"CCDS14193.1"	"ENSP00000380921"	"Q96B97"	"Q5JPT6,B7Z6E8"	"UPI000006CC82"	"NM_031892.2"	NA	NA	""	"2/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"979729d8-a99c-11e6-9bbb-82109c5ef6fb"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0581395348837209	"WGS"	FALSE
"10292"	"RP11-40F8.2"	100873065	"mskcc.org"	"GRCh37"	"X"	22677829	22677829	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.179-38655delT"	""	""	"ENST00000455399"	""	109	"."	7	71	"."	0	"RP11-40F8.2,intron_variant,,ENST00000455399,;RP11-40F8.2,intron_variant,,ENST00000608254,;"	"-"	"ENSG00000233067"	"ENST00000455399"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/718"	""	""	""	""	""	"1"	NA	-1	"RP11-40F8.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"a54d3c66-a99c-11e6-9bbb-82109c5ef6fb"	"243"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0642201834862385	"WGS"	FALSE
"10293"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	26332484	26332489	"+"	"IGR"	"DEL"	"TGTTAT"	"TGTTAT"	"ATCT"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TGTTAT"	"TGTTAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"."	6	40	"."	0	""	"ATC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTGTTATC"	"1707f924-a9a0-11e6-9bbb-82109c5ef6fb"	"240"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.055045871559633	"WGS"	FALSE
"10294"	"TM4SF2"	0	"mskcc.org"	"GRCh37"	"X"	37752493	37752521	"+"	"Intron"	"DEL"	"CTATATATGTATATATAACATACCACAAT"	"CTATATATGTATATATAACATACCACAAT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"CTATATATGTATATATAACATACCACAAT"	"CTATATATGTATATATAACATACCACAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.171+467267_171+467295delATCTATATATGTATATATAACATACCACA"	""	""	"ENST00000465127"	""	94	"."	5	50	"."	0	"TM4SF2,intron_variant,,ENST00000465127,;"	"-"	"ENSG00000250349"	"ENST00000465127"	"Transcript"	"intron_variant"	"-/954"	"-/840"	"-/279"	""	""	""	"1"	NA	1	"TM4SF2"	"Uniprot_gn"	NA	"protein_coding"	"YES"	""	"ENSP00000417050"	""	"Q7Z2J5,Q7Z2I5,Q7Z2E9,Q7Z2D9,B4E171"	"UPI00017A8803"	""	NA	NA	""	"3/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"27"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACTATATATGTATATATAACATACCACAATC"	"eb44ffe2-a99c-11e6-9bbb-82109c5ef6fb"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0531914893617021	"WGS"	FALSE
"10295"	"SSX4"	6759	"mskcc.org"	"GRCh37"	"X"	48240737	48240738	"+"	"5'Flank"	"INS"	"-"	"-"	"TCTTCCCTTCCCTTTCTTCCCTTCCT"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000376886"	""	94	"."	6	81	"."	0	"SSX4,upstream_gene_variant,,ENST00000376886,NM_005636.3;SSX4,upstream_gene_variant,,ENST00000375517,NM_175729.1;RP11-344N17.12,intron_variant,,ENST00000413071,;"	"TCTTCCCTTCCCTTTCTTCCCTTCCT"	"ENSG00000204645"	"ENST00000376886"	"Transcript"	"upstream_gene_variant"	"-/1322"	"-/567"	"-/188"	""	""	""	"1"	"2125"	1	"SSX4"	"HGNC"	11338	"protein_coding"	"YES"	"CCDS35240.1"	"ENSP00000366083"	"O60224"	""	"UPI0000136054"	"NM_005636.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"8e1e4f12-a9a1-11e6-9bbb-82109c5ef6fb"	"213"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0638297872340425	"WGS"	TRUE
"10296"	"EDA"	1896	"mskcc.org"	"GRCh37"	"X"	69030102	69030118	"+"	"Intron"	"DEL"	"AAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAA"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"AAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.397-146746_397-146730delAAAAAAAAAAAAAAAAA"	""	""	"ENST00000374552"	""	64	"."	5	30	"."	0	"EDA,intron_variant,,ENST00000374552,NM_001399.4;EDA,intron_variant,,ENST00000374553,NM_001005609.1,NM_001005612.2;EDA,intron_variant,,ENST00000524573,;EDA,intron_variant,,ENST00000527388,NM_001005613.2;EDA,intron_variant,,ENST00000525810,NM_001005610.2;EDA,intron_variant,,ENST00000503592,;EDA,intron_variant,,ENST00000502251,;EDA,intron_variant,,ENST00000510681,;EDA,intron_variant,,ENST00000530321,;EDA,intron_variant,,ENST00000533317,;EDA,intron_variant,,ENST00000374548,;"	"-"	"ENSG00000158813"	"ENST00000374552"	"Transcript"	"intron_variant"	"-/5278"	"-/1176"	"-/391"	""	""	""	"1"	NA	1	"EDA"	"HGNC"	3157	"protein_coding"	"YES"	"CCDS14394.1"	"ENSP00000363680"	"Q92838"	"D6RA95"	"UPI0000052244"	"NM_001399.4"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"29"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCAAAAAAAAAAAAAAAAAA"	"9d16f1f2-a99e-11e6-9bbb-82109c5ef6fb"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.078125	"WGS"	FALSE
"10297"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	99336450	99336451	"+"	"IGR"	"INS"	"-"	"-"	"GTAATTTATCATTCTCCCTTCTTCTCAGA"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"."	7	72	"."	0	""	"GTAATTTATCATTCTCCCTTCTTCTCAGA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"3b8e161e-a9a2-11e6-9bbb-82109c5ef6fb"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.0630630630630631	"WGS"	FALSE
"10298"	"LRCH2"	57631	"mskcc.org"	"GRCh37"	"X"	114349094	114349095	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2179-1197dupT"	""	""	"ENST00000317135"	""	107	"."	13	55	"."	0	"LRCH2,intron_variant,,ENST00000317135,NM_020871.3;LRCH2,intron_variant,,ENST00000538422,NM_001243963.1;"	"A"	"ENSG00000130224"	"ENST00000317135"	"Transcript"	"intron_variant"	"-/4923"	"-/2298"	"-/765"	""	""	""	"1"	NA	-1	"LRCH2"	"HGNC"	29292	"protein_coding"	"YES"	"CCDS48155.1"	"ENSP00000325091"	"Q5VUJ6"	""	"UPI000022DB30"	"NM_020871.3"	NA	NA	""	"20/20"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"6421d93a-a9a2-11e6-9bbb-82109c5ef6fb"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.121495327102804	"WGS"	FALSE
"10299"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	116141550	116141551	"+"	"IGR"	"DEL"	"TT"	"TT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"."	11	60	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATTT"	"52c9d17c-a99f-11e6-9bbb-82109c5ef6fb"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.11340206185567	"WGS"	FALSE
"10300"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	124325005	124325008	"+"	"IGR"	"DEL"	"TTAT"	"TTAT"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"TTAT"	"TTAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"."	15	62	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATTATT"	"7b09ca20-a99f-11e6-9bbb-82109c5ef6fb"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.168539325842697	"WGS"	FALSE
"10301"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	126045695	126045695	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	12	64	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGG"	"82ba3778-a99f-11e6-9bbb-82109c5ef6fb"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"10302"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	142299643	142299643	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC225"	"I-H-113378-N1-1-D1-1"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"."	11	60	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAG"	"c0a75be2-a99f-11e6-9bbb-82109c5ef6fb"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	"FALSE"	0.154929577464789	"WGS"	FALSE
"10303"	"DVL1"	1855	"mskcc.org"	"GRCh37"	"1"	1285386	1285386	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000378891"	""	12	"9"	3	7	"7"	0	"DVL1,upstream_gene_variant,,ENST00000378888,;DVL1,upstream_gene_variant,,ENST00000378891,NM_004421.2;MXRA8,downstream_gene_variant,,ENST00000477278,NM_001282583.1;MXRA8,downstream_gene_variant,,ENST00000309212,NM_032348.2,NM_001282582.1;MXRA8,downstream_gene_variant,,ENST00000445648,NM_001282585.1;MXRA8,downstream_gene_variant,,ENST00000342753,NM_001282584.1;MXRA8,downstream_gene_variant,,ENST00000474033,;MXRA8,downstream_gene_variant,,ENST00000476718,;MXRA8,downstream_gene_variant,,ENST00000473097,;MXRA8,downstream_gene_variant,,ENST00000478517,;DVL1,upstream_gene_variant,,ENST00000472445,;MXRA8,downstream_gene_variant,,ENST00000464351,;"	"T"	"ENSG00000107404"	"ENST00000378891"	"Transcript"	"upstream_gene_variant"	"-/2926"	"-/2013"	"-/670"	""	""	""	"1"	"894"	-1	"DVL1"	"HGNC"	3084	"protein_coding"	"YES"	"CCDS22.1"	"ENSP00000368169"	"O14640"	"Q6PJD6,B7Z6B5,B7Z1E8"	"UPI000013D455"	"NM_004421.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"c11ef86a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"10304"	"AL645728.1"	0	"mskcc.org"	"GRCh37"	"1"	1515255	1515255	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366221"	""	71	"65"	6	37	"37"	0	"AL645728.1,downstream_gene_variant,,ENST00000366221,;AL645728.3,non_coding_transcript_exon_variant,,ENST00000426195,;"	"A"	"ENSG00000215014"	"ENST00000366221"	"Transcript"	"downstream_gene_variant"	"-/1019"	"-/303"	"-/100"	""	""	""	"1"	"3882"	1	"AL645728.1"	"Clone_based_ensembl_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000407048"	""	"Q9P0E8,H0Y6Q5"	"UPI000013E8B3"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c11f2d8a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"10305"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	2815871	2815871	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs754939804"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"60"	23	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs754939804"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c1220456-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27710843373494	"WGS"	FALSE
"10306"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	4139162	4139162	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"60"	35	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c122f244-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.368421052631579	"WGS"	FALSE
"10307"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	6464369	6464369	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"67"	30	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c124670a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309278350515464	"WGS"	FALSE
"10308"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	9284003	9284003	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"78"	7	37	"37"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c125ea12-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0823529411764706	"WGS"	FALSE
"10309"	"PIK3CD"	5293	"mskcc.org"	"GRCh37"	"1"	9767952	9767952	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-32-2530T>A"	""	""	"ENST00000377346"	""	74	"69"	5	49	"49"	0	"PIK3CD,intron_variant,,ENST00000536656,;PIK3CD,intron_variant,,ENST00000377346,NM_005026.3;PIK3CD,upstream_gene_variant,,ENST00000361110,;"	"A"	"ENSG00000171608"	"ENST00000377346"	"Transcript"	"intron_variant"	"-/5203"	"-/3135"	"-/1044"	""	""	""	"1"	NA	1	"PIK3CD"	"HGNC"	8977	"protein_coding"	"YES"	"CCDS104.1"	"ENSP00000366563"	"O00329"	"B7ZM44"	"UPI000013E807"	"NM_005026.3"	""	""	""	"2/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"c1262a54-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0675675675675676	"WGS"	FALSE
"10310"	"KIF1B"	23095	"mskcc.org"	"GRCh37"	"1"	10436049	10436049	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5271-554T>C"	""	""	"ENST00000263934"	""	81	"73"	8	46	"46"	0	"KIF1B,intron_variant,,ENST00000377086,;KIF1B,intron_variant,,ENST00000377081,;KIF1B,intron_variant,,ENST00000263934,NM_015074.3;"	"C"	"ENSG00000054523"	"ENST00000263934"	"Transcript"	"intron_variant"	"-/6816"	"-/5313"	"-/1770"	""	""	""	"1"	NA	1	"KIF1B"	"HGNC"	16636	"protein_coding"	"YES"	"CCDS111.1"	"ENSP00000263934"	"O60333"	"B4DMF3"	"UPI000013EE7E"	"NM_015074.3"	""	""	""	"46/46"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"c1268350-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0987654320987654	"WGS"	FALSE
"10311"	"KAZN"	23254	"mskcc.org"	"GRCh37"	"1"	14984061	14984061	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.226+58342T>G"	""	""	"ENST00000376030"	""	96	"69"	27	57	"57"	0	"KAZN,intron_variant,,ENST00000376030,NM_201628.2;KAZN,intron_variant,,ENST00000422387,NM_015209.2;KAZN,intron_variant,,ENST00000503743,;KAZN,intron_variant,,ENST00000491547,;"	"G"	"ENSG00000189337"	"ENST00000376030"	"Transcript"	"intron_variant"	"-/6030"	"-/2328"	"-/775"	""	""	""	"1"	NA	1	"KAZN"	"HGNC"	29173	"protein_coding"	"YES"	"CCDS152.2"	"ENSP00000365198"	"Q674X7"	"B4DEV2,B0QYQ6"	"UPI0000E1E68A"	"NM_201628.2"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c1287ea8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28125	"WGS"	FALSE
"10312"	"KAZN"	23254	"mskcc.org"	"GRCh37"	"1"	15220885	15220885	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.227-66295C>T"	""	""	"ENST00000376030"	""	83	"77"	6	59	"59"	0	"KAZN,intron_variant,,ENST00000376030,NM_201628.2;KAZN,intron_variant,,ENST00000422387,NM_015209.2;KAZN,intron_variant,,ENST00000503743,;KAZN,intron_variant,,ENST00000491547,;"	"T"	"ENSG00000189337"	"ENST00000376030"	"Transcript"	"intron_variant"	"-/6030"	"-/2328"	"-/775"	""	""	""	"1"	NA	1	"KAZN"	"HGNC"	29173	"protein_coding"	"YES"	"CCDS152.2"	"ENSP00000365198"	"Q674X7"	"B4DEV2,B0QYQ6"	"UPI0000E1E68A"	"NM_201628.2"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c12889f2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"10313"	"FHAD1"	114827	"mskcc.org"	"GRCh37"	"1"	15602790	15602790	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs114548966"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.300+3765C>T"	""	""	"ENST00000358897"	""	90	"60"	30	45	"45"	0	"FHAD1,intron_variant,,ENST00000358897,NM_052929.1;FHAD1,intron_variant,,ENST00000417793,;FHAD1,intron_variant,,ENST00000375999,;FHAD1,intron_variant,,ENST00000375998,;FHAD1,intron_variant,,ENST00000433640,;"	"T"	"ENSG00000142621"	"ENST00000358897"	"Transcript"	"intron_variant"	"-/5090"	"-/4239"	"-/1412"	""	""	"rs114548966"	"1"	NA	1	"FHAD1"	"HGNC"	29408	"protein_coding"	""	""	"ENSP00000351770"	"B1AJZ9"	""	"UPI0001761703"	"NM_052929.1"	""	""	""	"3/30"	""	"T:0.0014"	"T:0.0053"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c128a716-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"10314"	"PLEKHM2"	23207	"mskcc.org"	"GRCh37"	"1"	16019198	16019198	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.60+8085G>C"	""	""	"ENST00000375799"	""	101	"74"	27	55	"54"	1	"PLEKHM2,intron_variant,,ENST00000375799,NM_015164.2;PLEKHM2,intron_variant,,ENST00000375793,;PLEKHM2,intron_variant,,ENST00000462455,;"	"C"	"ENSG00000116786"	"ENST00000375799"	"Transcript"	"intron_variant"	"-/4122"	"-/3060"	"-/1019"	""	""	""	"1"	NA	1	"PLEKHM2"	"HGNC"	29131	"protein_coding"	"YES"	"CCDS44063.1"	"ENSP00000364956"	"Q8IWE5"	""	"UPI00001C1D9C"	"NM_015164.2"	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c128d6c8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267326732673267	"WGS"	FALSE
"10315"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	25217605	25217605	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"92"	18	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c12f0804-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163636363636364	"WGS"	FALSE
"10316"	"PDIK1L"	149420	"mskcc.org"	"GRCh37"	"1"	26436561	26436561	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000374271"	""	94	"66"	28	52	"52"	0	"PDIK1L,upstream_gene_variant,,ENST00000374271,NM_001243533.1,NM_001243532.1,NM_152835.4;PDIK1L,upstream_gene_variant,,ENST00000374269,;PDIK1L,upstream_gene_variant,,ENST00000444713,;"	"T"	"ENSG00000175087"	"ENST00000374271"	"Transcript"	"upstream_gene_variant"	"-/4279"	"-/1026"	"-/341"	""	""	""	"1"	"1767"	1	"PDIK1L"	"HGNC"	18981	"protein_coding"	"YES"	"CCDS274.1"	"ENSP00000363389"	"Q8N165"	""	"UPI0000035B9E"	"NM_001243533.1,NM_001243532.1,NM_152835.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c12fe1a2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297872340425532	"WGS"	FALSE
"10317"	"UBXN11"	91544	"mskcc.org"	"GRCh37"	"1"	26619240	26619240	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.559+1456C>T"	""	""	"ENST00000374222"	""	84	"59"	25	60	"60"	0	"UBXN11,intron_variant,,ENST00000314675,NM_001077262.1;UBXN11,intron_variant,,ENST00000374222,;UBXN11,intron_variant,,ENST00000374217,NM_145345.2;UBXN11,intron_variant,,ENST00000374221,NM_183008.2;UBXN11,intron_variant,,ENST00000357089,;UBXN11,intron_variant,,ENST00000374223,;UBXN11,intron_variant,,ENST00000436301,;UBXN11,intron_variant,,ENST00000374215,;UBXN11,intron_variant,,ENST00000535108,;UBXN11,intron_variant,,ENST00000452980,;UBXN11,intron_variant,,ENST00000442942,;UBXN11,downstream_gene_variant,,ENST00000423664,;UBXN11,downstream_gene_variant,,ENST00000421827,;UBXN11,downstream_gene_variant,,ENST00000450041,;UBXN11,intron_variant,,ENST00000472155,;UBXN11,intron_variant,,ENST00000475591,;UBXN11,intron_variant,,ENST00000496466,;UBXN11,intron_variant,,ENST00000494942,;"	"A"	"ENSG00000158062"	"ENST00000374222"	"Transcript"	"intron_variant"	"-/2043"	"-/1563"	"-/520"	""	""	""	"1"	NA	-1	"UBXN11"	"HGNC"	30600	"protein_coding"	"YES"	"CCDS41288.1"	"ENSP00000363339"	"Q5T124"	""	"UPI00004700E1"	""	""	""	""	"9/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c12ff782-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297619047619048	"WGS"	FALSE
"10318"	"SLC9A1"	6548	"mskcc.org"	"GRCh37"	"1"	27433763	27433763	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1282+376C>G"	""	""	"ENST00000263980"	""	37	"31"	6	19	"19"	0	"SLC9A1,intron_variant,,ENST00000263980,NM_003047.4;SLC9A1,intron_variant,,ENST00000545949,;SLC9A1,intron_variant,,ENST00000374086,;SLC9A1,upstream_gene_variant,,ENST00000374089,;SLC9A1,upstream_gene_variant,,ENST00000447808,;"	"C"	"ENSG00000090020"	"ENST00000263980"	"Transcript"	"intron_variant"	"-/4516"	"-/2448"	"-/815"	""	""	""	"1"	NA	-1	"SLC9A1"	"HGNC"	11071	"protein_coding"	"YES"	"CCDS295.1"	"ENSP00000263980"	"P19634"	"B4DTZ6,B1ALD5"	"UPI000012FD1B"	"NM_003047.4"	""	""	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c1307022-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162162162162162	"WGS"	FALSE
"10319"	"PHACTR4"	65979	"mskcc.org"	"GRCh37"	"1"	28703248	28703248	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-39+6912C>A"	""	""	"ENST00000373839"	""	85	"77"	8	37	"37"	0	"PHACTR4,intron_variant,,ENST00000373839,NM_001048183.1;PHACTR4,intron_variant,,ENST00000493669,;PHACTR4,intron_variant,,ENST00000463428,;"	"A"	"ENSG00000204138"	"ENST00000373839"	"Transcript"	"intron_variant"	"-/6190"	"-/2109"	"-/702"	""	""	""	"1"	NA	1	"PHACTR4"	"HGNC"	25793	"protein_coding"	""	"CCDS41293.1"	"ENSP00000362945"	"Q8IZ21"	""	"UPI000007419C"	"NM_001048183.1"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c1310ff0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"10320"	"PHACTR4"	65979	"mskcc.org"	"GRCh37"	"1"	28703251	28703251	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-39+6915C>G"	""	""	"ENST00000373839"	""	83	"77"	6	38	"38"	0	"PHACTR4,intron_variant,,ENST00000373839,NM_001048183.1;PHACTR4,intron_variant,,ENST00000493669,;PHACTR4,intron_variant,,ENST00000463428,;"	"G"	"ENSG00000204138"	"ENST00000373839"	"Transcript"	"intron_variant"	"-/6190"	"-/2109"	"-/702"	""	""	""	"1"	NA	1	"PHACTR4"	"HGNC"	25793	"protein_coding"	""	"CCDS41293.1"	"ENSP00000362945"	"Q8IZ21"	""	"UPI000007419C"	"NM_001048183.1"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c13110cc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"10321"	"PHACTR4"	65979	"mskcc.org"	"GRCh37"	"1"	28703259	28703259	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-39+6923T>A"	""	""	"ENST00000373839"	""	85	"79"	6	38	"38"	0	"PHACTR4,intron_variant,,ENST00000373839,NM_001048183.1;PHACTR4,intron_variant,,ENST00000493669,;PHACTR4,intron_variant,,ENST00000463428,;"	"A"	"ENSG00000204138"	"ENST00000373839"	"Transcript"	"intron_variant"	"-/6190"	"-/2109"	"-/702"	""	""	""	"1"	NA	1	"PHACTR4"	"HGNC"	25793	"protein_coding"	""	"CCDS41293.1"	"ENSP00000362945"	"Q8IZ21"	""	"UPI000007419C"	"NM_001048183.1"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c13111a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0705882352941176	"WGS"	FALSE
"10322"	"RCC1"	1104	"mskcc.org"	"GRCh37"	"1"	28860206	28860206	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.534+1344T>C"	""	""	"ENST00000373831"	""	43	"37"	6	13	"13"	0	"RCC1,intron_variant,,ENST00000373833,;RCC1,intron_variant,,ENST00000398958,NM_001048199.2;RCC1,intron_variant,,ENST00000373832,NM_001269.4;RCC1,intron_variant,,ENST00000373831,NM_001048194.2,NM_001048195.2;RCC1,intron_variant,,ENST00000411533,;RCC1,intron_variant,,ENST00000430407,;RCC1,intron_variant,,ENST00000434290,;RCC1,intron_variant,,ENST00000419074,;RCC1,intron_variant,,ENST00000427469,;RCC1,downstream_gene_variant,,ENST00000486790,;RCC1,intron_variant,,ENST00000429051,;RCC1,upstream_gene_variant,,ENST00000478232,;"	"C"	"ENSG00000180198"	"ENST00000373831"	"Transcript"	"intron_variant"	"-/1577"	"-/1359"	"-/452"	""	""	""	"1"	NA	1	"RCC1"	"HGNC"	1913	"protein_coding"	"YES"	"CCDS41295.1"	"ENSP00000362937"	"P18754"	""	"UPI0000204066"	"NM_001048194.2,NM_001048195.2"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c1312bca-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"10323"	"GMEB1"	10691	"mskcc.org"	"GRCh37"	"1"	29032432	29032432	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.898+1591C>T"	""	""	"ENST00000294409"	""	64	"54"	10	29	"29"	0	"GMEB1,intron_variant,,ENST00000373816,NM_024482.2;GMEB1,intron_variant,,ENST00000294409,NM_006582.3;GMEB1,intron_variant,,ENST00000361872,;GMEB1,intron_variant,,ENST00000480454,;"	"T"	"ENSG00000162419"	"ENST00000294409"	"Transcript"	"intron_variant"	"-/1912"	"-/1722"	"-/573"	""	""	""	"1"	NA	1	"GMEB1"	"HGNC"	4370	"protein_coding"	"YES"	"CCDS327.1"	"ENSP00000294409"	"Q9Y692"	""	"UPI000012B8AB"	"NM_006582.3"	""	""	""	"8/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c1315be0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WGS"	FALSE
"10324"	"RP1-212P9.3"	0	"mskcc.org"	"GRCh37"	"1"	29204428	29204428	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000418471"	""	84	"77"	7	44	"44"	0	"RP1-212P9.3,upstream_gene_variant,,ENST00000418471,;Y_RNA,downstream_gene_variant,,ENST00000362886,;"	"C"	"ENSG00000233427"	"ENST00000418471"	"Transcript"	"upstream_gene_variant"	"-/1085"	""	""	""	""	""	"1"	"580"	-1	"RP1-212P9.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c1316f72-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"10325"	"FAM229A"	100128071	"mskcc.org"	"GRCh37"	"1"	32821927	32821927	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000432622"	""	95	"71"	24	45	"45"	0	"TSSK3,intron_variant,,ENST00000574315,;FAM229A,downstream_gene_variant,,ENST00000432622,NM_001167676.1;FAM229A,downstream_gene_variant,,ENST00000428500,;TSSK3,downstream_gene_variant,,ENST00000574792,;TSSK3,downstream_gene_variant,,ENST00000421153,;FAM229A,downstream_gene_variant,,ENST00000416512,;"	"A"	"ENSG00000225828"	"ENST00000432622"	"Transcript"	"downstream_gene_variant"	"-/699"	"-/384"	"-/127"	""	""	""	"1"	"4944"	-1	"FAM229A"	"HGNC"	44652	"protein_coding"	"YES"	"CCDS57985.1"	"ENSP00000455971"	"H3BQW9"	""	"UPI0000252147"	"NM_001167676.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c132b6b6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"10326"	"CSMD2"	114784	"mskcc.org"	"GRCh37"	"1"	34007913	34007913	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8845+407C>G"	""	""	"ENST00000241312"	""	94	"88"	6	54	"54"	0	"CSMD2,intron_variant,,ENST00000373381,NM_052896.3,NM_001281956.1;CSMD2,intron_variant,,ENST00000241312,;"	"C"	"ENSG00000121904"	"ENST00000241312"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/13108"	"-/10464"	"-/3487"	""	""	""	"1"	NA	-1	"CSMD2"	"HGNC"	19290	"nonsense_mediated_decay"	"YES"	"CCDS380.1"	"ENSP00000241312"	"Q7Z408"	""	"UPI00004561AB"	""	""	""	""	"57/69"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c1331ca0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"10327"	"FOXO6"	100132074	"mskcc.org"	"GRCh37"	"1"	41850538	41850538	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000372591"	""	90	"69"	21	66	"66"	0	"FOXO6,downstream_gene_variant,,ENST00000372591,;"	"T"	"ENSG00000204060"	"ENST00000372591"	"Transcript"	"downstream_gene_variant"	"-/2398"	"-/1680"	"-/559"	""	""	""	"1"	"1276"	1	"FOXO6"	"HGNC"	24814	"protein_coding"	"YES"	""	"ENSP00000361672"	""	"A6NCE0"	"UPI000059CFB1"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c135a1dc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WGS"	FALSE
"10328"	"CYP4A27P"	0	"mskcc.org"	"GRCh37"	"1"	47469953	47469953	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000567218"	""	106	"80"	26	56	"56"	0	"CYP4X1,intron_variant,,ENST00000538609,;CYP4A27P,upstream_gene_variant,,ENST00000567218,;CYP4A44P,upstream_gene_variant,,ENST00000569984,;"	"T"	"ENSG00000261593"	"ENST00000567218"	"Transcript"	"upstream_gene_variant"	"-/190"	""	""	""	""	""	"1"	"3194"	-1	"CYP4A27P"	"HGNC"	42414	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c1379b40-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245283018867925	"WGS"	FALSE
"10329"	"FAF1"	11124	"mskcc.org"	"GRCh37"	"1"	51116144	51116144	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.744+4970C>A"	""	""	"ENST00000396153"	""	82	"76"	6	40	"40"	0	"FAF1,intron_variant,,ENST00000396153,NM_007051.2;FAF1,intron_variant,,ENST00000371778,;FAF1,intron_variant,,ENST00000494400,;"	"T"	"ENSG00000185104"	"ENST00000396153"	"Transcript"	"intron_variant"	"-/4367"	"-/1953"	"-/650"	""	""	""	"1"	NA	-1	"FAF1"	"HGNC"	3578	"protein_coding"	"YES"	"CCDS554.1"	"ENSP00000379457"	"Q9UNN5"	""	"UPI0000032C67"	"NM_007051.2"	""	""	""	"8/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c13847c0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"10330"	"ECHDC2"	55268	"mskcc.org"	"GRCh37"	"1"	53386032	53386032	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.121+1193G>C"	""	""	"ENST00000371522"	""	102	"95"	7	50	"50"	0	"ECHDC2,intron_variant,,ENST00000536120,;ECHDC2,intron_variant,,ENST00000371522,NM_001198961.1;ECHDC2,intron_variant,,ENST00000541281,;ECHDC2,intron_variant,,ENST00000358358,NM_018281.3;ECHDC2,intron_variant,,ENST00000467988,NM_001198962.1;ECHDC2,intron_variant,,ENST00000480312,;ECHDC2,intron_variant,,ENST00000544531,;ECHDC2,intron_variant,,ENST00000495920,;ECHDC2,intron_variant,,ENST00000460612,;ECHDC2,intron_variant,,ENST00000476477,;ECHDC2,intron_variant,,ENST00000371520,;ECHDC2,intron_variant,,ENST00000544365,;ECHDC2,intron_variant,,ENST00000542552,;ECHDC2,intron_variant,,ENST00000488268,;ECHDC2,intron_variant,,ENST00000474789,;RP4-631H13.6,upstream_gene_variant,,ENST00000420575,;RP4-631H13.4,downstream_gene_variant,,ENST00000436385,;"	"G"	"ENSG00000121310"	"ENST00000371522"	"Transcript"	"intron_variant"	"-/1509"	"-/879"	"-/292"	""	""	""	"1"	NA	-1	"ECHDC2"	"HGNC"	23408	"protein_coding"	"YES"	"CCDS55600.1"	"ENSP00000360577"	"Q86YB7"	"Q8WY60,B7Z7N0"	"UPI0000204369"	"NM_001198961.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c1390d90-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0686274509803922	"WGS"	FALSE
"10331"	"NDC1"	55706	"mskcc.org"	"GRCh37"	"1"	54290699	54290699	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.594+772A>C"	""	""	"ENST00000371429"	""	94	"75"	19	49	"49"	0	"NDC1,intron_variant,,ENST00000371429,NM_001168551.1,NM_018087.4;NDC1,intron_variant,,ENST00000540001,;NDC1,intron_variant,,ENST00000537333,;NDC1,intron_variant,,ENST00000234725,;AL049745.1,upstream_gene_variant,,ENST00000578163,;NDC1,intron_variant,,ENST00000480952,;"	"G"	"ENSG00000058804"	"ENST00000371429"	"Transcript"	"intron_variant"	"-/5134"	"-/2025"	"-/674"	""	""	""	"1"	NA	-1	"NDC1"	"HGNC"	25525	"protein_coding"	"YES"	"CCDS583.1"	"ENSP00000360483"	"Q9BTX1"	"G3XA81,B4DZG6"	"UPI000006D8F7"	"NM_001168551.1,NM_018087.4"	""	""	""	"5/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c1395eee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202127659574468	"WGS"	FALSE
"10332"	"DAB1"	1600	"mskcc.org"	"GRCh37"	"1"	57650962	57650962	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.68-39860G>A"	""	""	"ENST00000371236"	""	99	"63"	36	55	"55"	0	"DAB1,intron_variant,,ENST00000371236,;DAB1,intron_variant,,ENST00000371234,NM_021080.3;DAB1,intron_variant,,ENST00000420954,;DAB1,intron_variant,,ENST00000371231,;DAB1,intron_variant,,ENST00000414851,;DAB1,intron_variant,,ENST00000439789,;DAB1,intron_variant,,ENST00000371230,;DAB1,intron_variant,,ENST00000371232,;DAB1,intron_variant,,ENST00000332102,;DAB1,intron_variant,,ENST00000485760,;DAB1,intron_variant,,ENST00000473821,;"	"T"	"ENSG00000173406"	"ENST00000371236"	"Transcript"	"intron_variant"	"-/5298"	"-/1668"	"-/555"	""	""	""	"1"	NA	-1	"DAB1"	"HGNC"	2661	"protein_coding"	"YES"	"CCDS607.1"	"ENSP00000360280"	"O75553"	""	"UPI000013EE33"	""	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c139f8ea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"10333"	"RP11-470E16.1"	729467	"mskcc.org"	"GRCh37"	"1"	59611867	59611867	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.200+481A>G"	""	""	"ENST00000425914"	""	87	"65"	22	75	"75"	0	"RP11-470E16.1,intron_variant,,ENST00000425914,;RP11-470E16.1,intron_variant,,ENST00000436225,;RP11-470E16.1,intron_variant,,ENST00000592607,;RP11-470E16.1,intron_variant,,ENST00000585367,;RP11-470E16.1,intron_variant,,ENST00000587839,;"	"C"	"ENSG00000224609"	"ENST00000425914"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1111"	""	""	""	""	""	"1"	NA	-1	"RP11-470E16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c13a504c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252873563218391	"WGS"	FALSE
"10334"	"RP11-776H12.1"	0	"mskcc.org"	"GRCh37"	"1"	61106890	61106890	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"rs565499253"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000439156"	""	80	"54"	26	52	"52"	0	"RP11-776H12.1,upstream_gene_variant,,ENST00000439156,;"	"A"	"ENSG00000226476"	"ENST00000439156"	"Transcript"	"upstream_gene_variant"	"-/1798"	""	""	""	""	"rs565499253"	"1"	"727"	-1	"RP11-776H12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c13a7f18-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325	"WGS"	FALSE
"10335"	"L1TD1"	54596	"mskcc.org"	"GRCh37"	"1"	62661241	62661241	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-205+648A>T"	""	""	"ENST00000498273"	""	65	"61"	4	45	"45"	0	"L1TD1,intron_variant,,ENST00000498273,NM_019079.4,NM_001164835.1;RPS15AP7,downstream_gene_variant,,ENST00000439294,;"	"T"	"ENSG00000240563"	"ENST00000498273"	"Transcript"	"intron_variant"	"-/3849"	"-/2598"	"-/865"	""	""	""	"1"	NA	1	"L1TD1"	"HGNC"	25595	"protein_coding"	"YES"	"CCDS619.1"	"ENSP00000419901"	"Q5T7N2"	""	"UPI000013E18E"	"NM_019079.4,NM_001164835.1"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c13b0dfc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0615384615384615	"WGS"	FALSE
"10336"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	62880218	62880218	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"73"	7	52	"52"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c13b1d06-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0875	"WGS"	FALSE
"10337"	"ROR1"	4919	"mskcc.org"	"GRCh37"	"1"	64553532	64553532	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.482+37144G>T"	""	""	"ENST00000371079"	""	98	"75"	23	70	"70"	0	"ROR1,intron_variant,,ENST00000371079,NM_005012.3;ROR1,intron_variant,,ENST00000371080,NM_001083592.1;ROR1,intron_variant,,ENST00000482426,;"	"T"	"ENSG00000185483"	"ENST00000371079"	"Transcript"	"intron_variant"	"-/5832"	"-/2814"	"-/937"	""	""	""	"1"	NA	1	"ROR1"	"HGNC"	10256	"protein_coding"	"YES"	"CCDS626.1"	"ENSP00000360120"	"Q01973"	""	"UPI00001AF82C"	"NM_005012.3"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c13b79a4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23469387755102	"WGS"	FALSE
"10338"	"PDE4B"	5142	"mskcc.org"	"GRCh37"	"1"	66650392	66650392	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.282-62751C>G"	""	""	"ENST00000329654"	""	91	"66"	25	72	"72"	0	"PDE4B,intron_variant,,ENST00000423207,NM_001037340.1;PDE4B,intron_variant,,ENST00000329654,NM_001037341.1;PDE4B,intron_variant,,ENST00000341517,NM_002600.3;PDE4B,intron_variant,,ENST00000371049,;PDE4B,intron_variant,,ENST00000412480,;PDE4B,intron_variant,,ENST00000532040,;PDE4B,intron_variant,,ENST00000526666,;"	"G"	"ENSG00000184588"	"ENST00000329654"	"Transcript"	"intron_variant"	"-/3998"	"-/2211"	"-/736"	""	""	""	"1"	NA	1	"PDE4B"	"HGNC"	8781	"protein_coding"	"YES"	"CCDS632.1"	"ENSP00000332116"	"Q07343"	"E9PR34,E9PNB0,E9PJ03"	"UPI0000127BF6"	"NM_001037341.1"	""	""	""	"3/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c13be2fe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274725274725275	"WGS"	FALSE
"10339"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	73060740	73060740	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"72"	24	75	"75"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c13cfc8e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"10340"	"RP4-788P17.1"	0	"mskcc.org"	"GRCh37"	"1"	74120291	74120291	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.26+19367G>T"	""	""	"ENST00000424953"	""	78	"57"	21	68	"68"	0	"RP4-788P17.1,intron_variant,,ENST00000424953,;"	"T"	"ENSG00000223479"	"ENST00000424953"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/557"	""	""	""	""	""	"1"	NA	1	"RP4-788P17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c13d1962-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269230769230769	"WGS"	FALSE
"10341"	"RP4-788P17.1"	0	"mskcc.org"	"GRCh37"	"1"	74162772	74162772	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.27-2662G>A"	""	""	"ENST00000424953"	""	87	"59"	28	45	"45"	0	"RP4-788P17.1,intron_variant,,ENST00000424953,;"	"A"	"ENSG00000223479"	"ENST00000424953"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/557"	""	""	""	""	""	"1"	NA	1	"RP4-788P17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c13d1cdc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32183908045977	"WGS"	FALSE
"10342"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	75488107	75488107	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"67"	30	73	"73"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c13d48ec-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309278350515464	"WGS"	FALSE
"10343"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	81331347	81331347	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"59"	23	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c13e3f4a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280487804878049	"WGS"	FALSE
"10344"	"RP5-837I24.2"	101927434	"mskcc.org"	"GRCh37"	"1"	81995912	81995912	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.40-15032A>G"	""	""	"ENST00000443939"	""	97	"71"	26	50	"50"	0	"LPHN2,intron_variant,,ENST00000370728,;LPHN2,intron_variant,,ENST00000370730,;LPHN2,intron_variant,,ENST00000370725,;LPHN2,intron_variant,,ENST00000370723,;LPHN2,intron_variant,,ENST00000370727,;LPHN2,intron_variant,,ENST00000370721,;RP5-837I24.2,intron_variant,,ENST00000443939,;LPHN2,intron_variant,,ENST00000469377,;LPHN2,intron_variant,,ENST00000473719,;"	"C"	"ENSG00000234953"	"ENST00000443939"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/643"	""	""	""	""	""	"1"	NA	-1	"RP5-837I24.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c13e60b0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268041237113402	"WGS"	FALSE
"10345"	"BCL10"	8915	"mskcc.org"	"GRCh37"	"1"	85730469	85730469	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000370580"	""	80	"75"	5	52	"52"	0	"BCL10,downstream_gene_variant,,ENST00000370580,NM_003921.4;Y_RNA,downstream_gene_variant,,ENST00000411322,;"	"T"	"ENSG00000142867"	"ENST00000370580"	"Transcript"	"downstream_gene_variant"	"-/2819"	"-/702"	"-/233"	""	""	""	"1"	"1462"	-1	"BCL10"	"HGNC"	989	"protein_coding"	"YES"	"CCDS704.1"	"ENSP00000359612"	"O95999"	""	"UPI000012682F"	"NM_003921.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"c13f4f0c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	TRUE
"10346"	"CTA-21C21.1"	0	"mskcc.org"	"GRCh37"	"1"	88779306	88779306	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000603130"	""	102	"80"	22	57	"57"	0	"CTA-21C21.1,downstream_gene_variant,,ENST00000603130,;"	"T"	"ENSG00000270507"	"ENST00000603130"	"Transcript"	"downstream_gene_variant"	"-/150"	""	""	""	""	""	"1"	"321"	1	"CTA-21C21.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c13fc658-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215686274509804	"WGS"	FALSE
"10347"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	91544931	91544931	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"74"	7	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c1405f5a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"10348"	"HFM1"	164045	"mskcc.org"	"GRCh37"	"1"	91830737	91830737	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1685+10178T>A"	""	""	"ENST00000370425"	""	102	"97"	5	55	"55"	0	"HFM1,intron_variant,,ENST00000370425,NM_001017975.3;HFM1,intron_variant,,ENST00000294696,;HFM1,intron_variant,,ENST00000370424,;"	"T"	"ENSG00000162669"	"ENST00000370425"	"Transcript"	"intron_variant"	"-/4931"	"-/4308"	"-/1435"	""	""	""	"1"	NA	-1	"HFM1"	"HGNC"	20193	"protein_coding"	"YES"	"CCDS30769.2"	"ENSP00000359454"	"A2PYH4"	"D2KTB2,C9JQP7,B7ZM00,A6NGI5"	"UPI0000F51F79"	"NM_001017975.3"	""	""	""	"13/38"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c1407418-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0490196078431373	"WGS"	FALSE
"10349"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	93289365	93289365	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"84"	8	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c140df0c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"10350"	"SLC44A3"	126969	"mskcc.org"	"GRCh37"	"1"	95286567	95286567	"+"	"Silent"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.90A>T"	"p.="	"p.T30T"	"ENST00000271227"	"2/15"	81	"62"	19	38	"38"	0	"SLC44A3,synonymous_variant,p.=,ENST00000271227,NM_001258340.1,NM_001114106.2,NM_001258341.1;SLC44A3,synonymous_variant,p.=,ENST00000529450,;SLC44A3,5_prime_UTR_variant,,ENST00000422520,;SLC44A3,intron_variant,,ENST00000446120,NM_001258342.1;SLC44A3,intron_variant,,ENST00000467909,NM_152369.4;SLC44A3,intron_variant,,ENST00000527077,NM_001258343.1;SLC44A3,intron_variant,,ENST00000532427,;LINC01057,upstream_gene_variant,,ENST00000452922,;LINC01057,upstream_gene_variant,,ENST00000418366,;LINC01057,upstream_gene_variant,,ENST00000442418,;LINC01057,upstream_gene_variant,,ENST00000421997,;LINC01057,upstream_gene_variant,,ENST00000414374,;SLC44A3,upstream_gene_variant,,ENST00000475883,;"	"T"	"ENSG00000143036"	"ENST00000271227"	"Transcript"	"synonymous_variant"	"192/2388"	"90/1962"	"30/653"	"T"	"acA/acT"	""	"1"	NA	1	"SLC44A3"	"HGNC"	28689	"protein_coding"	"YES"	"CCDS44176.1"	"ENSP00000271227"	"Q8N4M1"	"F8W7F3"	"UPI0000206066"	"NM_001258340.1,NM_001114106.2,NM_001258341.1"	""	""	"2/15"	""	"hmmpanther:PTHR12385,hmmpanther:PTHR12385:SF13"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c1413966-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234567901234568	"WGS"	FALSE
"10351"	"RP11-286B14.1"	100996635	"mskcc.org"	"GRCh37"	"1"	96118075	96118075	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs770269591"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.307+113827C>T"	""	""	"ENST00000456933"	""	70	"47"	23	55	"55"	0	"RP11-286B14.1,intron_variant,,ENST00000456933,;"	"T"	"ENSG00000228971"	"ENST00000456933"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/714"	""	""	""	""	"rs770269591"	"1"	NA	1	"RP11-286B14.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c1415ee6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.328571428571429	"WGS"	FALSE
"10352"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	97438610	97438610	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"59"	7	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c1418696-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106060606060606	"WGS"	FALSE
"10353"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	98586208	98586208	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"58"	27	71	"71"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c141a6d0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317647058823529	"WGS"	FALSE
"10354"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	98653155	98653155	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"77"	8	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c141a892-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"10355"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	99722960	99722960	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"72"	31	67	"67"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c141cc46-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.300970873786408	"WGS"	FALSE
"10356"	"DPH5"	51611	"mskcc.org"	"GRCh37"	"1"	101486664	101486664	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.260+533A>G"	""	""	"ENST00000370109"	""	97	"74"	23	65	"65"	0	"DPH5,intron_variant,,ENST00000370109,NM_001077395.1,NM_001077394.1,NM_015958.2;DPH5,intron_variant,,ENST00000342173,;DPH5,intron_variant,,ENST00000488176,;RP11-421L21.3,upstream_gene_variant,,ENST00000446527,;RP11-421L21.3,upstream_gene_variant,,ENST00000453011,;DPH5,intron_variant,,ENST00000370105,;DPH5,intron_variant,,ENST00000488789,;DPH5,intron_variant,,ENST00000464270,;DPH5,intron_variant,,ENST00000481871,;DPH5,intron_variant,,ENST00000477293,;DPH5,intron_variant,,ENST00000466807,;DPH5,intron_variant,,ENST00000490732,;DPH5,intron_variant,,ENST00000498372,;DPH5,intron_variant,,ENST00000492067,;DPH5,intron_variant,,ENST00000476507,;DPH5,downstream_gene_variant,,ENST00000481982,;"	"C"	"ENSG00000117543"	"ENST00000370109"	"Transcript"	"intron_variant"	"-/1316"	"-/858"	"-/285"	""	""	""	"1"	NA	-1	"DPH5"	"HGNC"	24270	"protein_coding"	"YES"	"CCDS41358.1"	"ENSP00000359127"	"Q9H2P9"	"Q96DC6,B3KWP1"	"UPI000003B000"	"NM_001077395.1,NM_001077394.1,NM_015958.2"	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c1420daa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.237113402061856	"WGS"	FALSE
"10357"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	102153980	102153980	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"58"	29	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c1422574-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"10358"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	102947687	102947687	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"61"	29	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c142396a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322222222222222	"WGS"	FALSE
"10359"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	103202697	103202697	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"63"	26	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c14242d4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292134831460674	"WGS"	FALSE
"10360"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	105070328	105070328	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs183477392"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"55"	25	70	"70"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs183477392"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0048"	"A:0.0182"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c1427fb0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"10361"	"RP11-24P14.1"	0	"mskcc.org"	"GRCh37"	"1"	106527354	106527354	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.368+3718G>A"	""	""	"ENST00000429080"	""	94	"75"	19	44	"44"	0	"RP11-24P14.1,intron_variant,,ENST00000429080,;"	"T"	"ENSG00000233047"	"ENST00000429080"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/459"	""	""	""	""	""	"1"	NA	-1	"RP11-24P14.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c142c380-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202127659574468	"WGS"	FALSE
"10362"	"KIAA1324"	57535	"mskcc.org"	"GRCh37"	"1"	109723383	109723383	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.953-4284T>G"	""	""	"ENST00000369939"	""	96	"77"	19	55	"55"	0	"KIAA1324,intron_variant,,ENST00000369939,NM_020775.4;KIAA1324,intron_variant,,ENST00000529753,NM_001267048.1;KIAA1324,intron_variant,,ENST00000457623,;KIAA1324,intron_variant,,ENST00000527996,NM_001284352.1;KIAA1324,intron_variant,,ENST00000490758,;"	"G"	"ENSG00000116299"	"ENST00000369939"	"Transcript"	"intron_variant"	"-/3442"	"-/3042"	"-/1013"	""	""	""	"1"	NA	1	"KIAA1324"	"HGNC"	29618	"protein_coding"	"YES"	"CCDS794.1"	"ENSP00000358955"	"Q6UXG2"	"E9PS21,E9PMS2,E9PLY8,E9PLQ2"	"UPI00002051E0"	"NM_020775.4"	""	""	""	"7/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c1435ffc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197916666666667	"WGS"	FALSE
"10363"	"GNAI3"	2773	"mskcc.org"	"GRCh37"	"1"	110130940	110130940	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.874+1436C>G"	""	""	"ENST00000369851"	""	92	"85"	7	54	"54"	0	"GNAI3,intron_variant,,ENST00000369851,NM_006496.3;RNU6V,downstream_gene_variant,,ENST00000384105,;"	"G"	"ENSG00000065135"	"ENST00000369851"	"Transcript"	"intron_variant"	"-/3206"	"-/1065"	"-/354"	""	""	""	"1"	NA	1	"GNAI3"	"HGNC"	4387	"protein_coding"	"YES"	"CCDS802.1"	"ENSP00000358867"	"P08754"	"Q5TZX1,C9J2Z2"	"UPI000004D205"	"NM_006496.3"	""	""	""	"7/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"c14373fc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"10364"	"ENSR00001589169"	0	"mskcc.org"	"GRCh37"	"1"	110899417	110899417	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001589169"	""	84	"53"	31	54	"54"	0	""	"C"	""	"ENSR00001589169"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c143995e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.369047619047619	"WGS"	FALSE
"10365"	"LAMTOR5-AS1"	101410535	"mskcc.org"	"GRCh37"	"1"	110958475	110958475	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.708-156G>T"	""	""	"ENST00000608602"	""	81	"57"	24	61	"60"	1	"LAMTOR5-AS1,intron_variant,,ENST00000608602,;LAMTOR5-AS1,intron_variant,,ENST00000609512,;LAMTOR5-AS1,intron_variant,,ENST00000608253,;LAMTOR5-AS1,intron_variant,,ENST00000590413,;LAMTOR5-AS1,intron_variant,,ENST00000457535,;LAMTOR5-AS1,intron_variant,,ENST00000610148,;LAMTOR5-AS1,intron_variant,,ENST00000608499,;LAMTOR5-AS1,intron_variant,,ENST00000608486,;LAMTOR5-AS1,intron_variant,,ENST00000444238,;LAMTOR5-AS1,intron_variant,,ENST00000609709,;LAMTOR5-AS1,intron_variant,,ENST00000598454,;LAMTOR5-AS1,intron_variant,,ENST00000608635,;LAMTOR5-AS1,intron_variant,,ENST00000608067,;LAMTOR5-AS1,intron_variant,,ENST00000608077,;LAMTOR5-AS1,intron_variant,,ENST00000608719,;LAMTOR5-AS1,intron_variant,,ENST00000590826,;LAMTOR5-AS1,intron_variant,,ENST00000585330,;LAMTOR5-AS1,intron_variant,,ENST00000609653,;LAMTOR5-AS1,intron_variant,,ENST00000609244,;LAMTOR5-AS1,intron_variant,,ENST00000608152,;LAMTOR5-AS1,intron_variant,,ENST00000609245,;LAMTOR5-AS1,intron_variant,,ENST00000608111,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000585433,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000596890,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000598350,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000598158,;LAMTOR5-AS1,upstream_gene_variant,,ENST00000599202,;LAMTOR5-AS1,downstream_gene_variant,,ENST00000587691,;"	"T"	"ENSG00000224699"	"ENST00000608602"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/953"	""	""	""	""	""	"1"	NA	1	"LAMTOR5-AS1"	"HGNC"	40823	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c1439a3a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"10366"	"RP3-522D1.1"	0	"mskcc.org"	"GRCh37"	"1"	113408426	113408426	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.401-11136A>T"	""	""	"ENST00000456651"	""	102	"95"	7	33	"33"	0	"RP3-522D1.1,intron_variant,,ENST00000456651,;RP3-522D1.1,intron_variant,,ENST00000422022,;"	"T"	"ENSG00000224167"	"ENST00000456651"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/587"	""	""	""	""	""	"1"	NA	1	"RP3-522D1.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c1448c9c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0686274509803922	"WGS"	FALSE
"10367"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	113700761	113700761	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"71"	27	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c144b2da-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275510204081633	"WGS"	FALSE
"10368"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	114731732	114731732	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"60"	25	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c144e264-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"10369"	"CD2"	914	"mskcc.org"	"GRCh37"	"1"	117300726	117300726	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.383-2298G>A"	""	""	"ENST00000369478"	""	103	"68"	35	68	"68"	0	"CD2,intron_variant,,ENST00000369478,NM_001767.3;CD2,downstream_gene_variant,,ENST00000369477,;"	"A"	"ENSG00000116824"	"ENST00000369478"	"Transcript"	"intron_variant"	"-/1609"	"-/1056"	"-/351"	""	""	""	"1"	NA	1	"CD2"	"HGNC"	1639	"protein_coding"	"YES"	"CCDS889.1"	"ENSP00000358490"	"P06729"	"Q53F96"	"UPI0000062209"	"NM_001767.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c1453ae8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.339805825242718	"WGS"	FALSE
"10370"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	120867906	120867906	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	52	"32"	20	40	"40"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c14667c4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WGS"	FALSE
"10371"	"RP11-782C8.1"	0	"mskcc.org"	"GRCh37"	"1"	143223999	143223999	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.147+3278T>A"	""	""	"ENST00000438000"	""	92	"69"	23	37	"37"	0	"RP11-782C8.1,intron_variant,,ENST00000438000,;RP11-782C8.5,intron_variant,,ENST00000429121,;RP11-782C8.1,intron_variant,,ENST00000447407,;RP11-782C8.1,intron_variant,,ENST00000428930,;RP11-782C8.5,intron_variant,,ENST00000422716,;RP11-782C8.5,intron_variant,,ENST00000435585,;RP11-782C8.5,intron_variant,,ENST00000456937,;RP11-782C8.5,intron_variant,,ENST00000437865,;"	"A"	"ENSG00000230850"	"ENST00000438000"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1786"	""	""	""	""	""	"1"	NA	1	"RP11-782C8.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"c14eee08-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"10372"	"RP11-435B5.6"	0	"mskcc.org"	"GRCh37"	"1"	143521395	143521395	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000429884"	""	106	"99"	7	64	"64"	0	"RP11-435B5.6,downstream_gene_variant,,ENST00000429884,;"	"G"	"ENSG00000226897"	"ENST00000429884"	"Transcript"	"downstream_gene_variant"	"-/362"	""	""	""	""	""	"1"	"4096"	1	"RP11-435B5.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c151dfe6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0660377358490566	"WGS"	FALSE
"10373"	"RP11-435B5.6"	0	"mskcc.org"	"GRCh37"	"1"	143521404	143521404	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000429884"	""	106	"99"	7	66	"66"	0	"RP11-435B5.6,downstream_gene_variant,,ENST00000429884,;"	"G"	"ENSG00000226897"	"ENST00000429884"	"Transcript"	"downstream_gene_variant"	"-/362"	""	""	""	""	""	"1"	"4105"	1	"RP11-435B5.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c151e0c2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0660377358490566	"WGS"	FALSE
"10374"	"GJA8"	2703	"mskcc.org"	"GRCh37"	"1"	147375968	147375968	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-12+981G>T"	""	""	"ENST00000240986"	""	112	"72"	40	72	"72"	0	"GJA8,intron_variant,,ENST00000240986,NM_005267.4;GJA8,upstream_gene_variant,,ENST00000369235,;"	"T"	"ENSG00000121634"	"ENST00000240986"	"Transcript"	"intron_variant"	"-/1364"	"-/1302"	"-/433"	""	""	""	"1"	NA	1	"GJA8"	"HGNC"	4281	"protein_coding"	"YES"	"CCDS30834.1"	"ENSP00000240986"	"P48165"	""	"UPI0000049BA0"	"NM_005267.4"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"c156b872-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WGS"	FALSE
"10375"	"LINC00302"	0	"mskcc.org"	"GRCh37"	"1"	152629490	152629490	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000444515"	""	102	"97"	5	50	"50"	0	"LINC00302,downstream_gene_variant,,ENST00000444515,;LINC00302,downstream_gene_variant,,ENST00000536536,;"	"A"	"ENSG00000176075"	"ENST00000444515"	"Transcript"	"downstream_gene_variant"	"-/302"	""	""	""	""	""	"1"	"210"	1	"LINC00302"	"HGNC"	31825	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c15c4102-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0490196078431373	"WGS"	FALSE
"10376"	"LCE6A"	448835	"mskcc.org"	"GRCh37"	"1"	152812592	152812592	"+"	"5'Flank"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000431011"	""	86	"58"	28	51	"51"	0	"LCE6A,upstream_gene_variant,,ENST00000431011,NM_001128600.1;"	"C"	"ENSG00000235942"	"ENST00000431011"	"Transcript"	"upstream_gene_variant"	"-/628"	"-/243"	"-/80"	""	""	""	"1"	"2752"	1	"LCE6A"	"HGNC"	31824	"protein_coding"	"YES"	"CCDS44227.1"	"ENSP00000411070"	"A0A183"	""	"UPI0000D83229"	"NM_001128600.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c15c447c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325581395348837	"WGS"	FALSE
"10377"	"KCNN3"	3782	"mskcc.org"	"GRCh37"	"1"	154695270	154695270	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1701+3122C>G"	""	""	"ENST00000271915"	""	69	"64"	5	39	"39"	0	"KCNN3,intron_variant,,ENST00000271915,NM_001204087.1,NM_002249.5;KCNN3,intron_variant,,ENST00000361147,NM_170782.2;KCNN3,intron_variant,,ENST00000358505,;"	"C"	"ENSG00000143603"	"ENST00000271915"	"Transcript"	"intron_variant"	"-/13033"	"-/2196"	"-/731"	""	""	""	"1"	NA	-1	"KCNN3"	"HGNC"	6292	"protein_coding"	"YES"	"CCDS30880.1"	"ENSP00000271915"	""	"Q6JXY2"	"UPI000013D915"	"NM_001204087.1,NM_002249.5"	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c15d0f38-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072463768115942	"WGS"	FALSE
"10378"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	159600694	159600694	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"57"	17	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c15e8f52-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22972972972973	"WGS"	FALSE
"10379"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	160422892	160422892	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"58"	8	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c15ebb80-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"10380"	"RNU6-481P"	0	"mskcc.org"	"GRCh37"	"1"	161366358	161366358	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384194"	""	100	"94"	6	47	"47"	0	"RNU6-481P,upstream_gene_variant,,ENST00000384194,;"	"A"	"ENSG00000206921"	"ENST00000384194"	"Transcript"	"upstream_gene_variant"	"-/107"	""	""	""	""	""	"1"	"4721"	1	"RNU6-481P"	"HGNC"	47444	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c15f4550-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.06	"WGS"	FALSE
"10381"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	164375867	164375867	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"65"	30	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c16010d4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WGS"	FALSE
"10382"	"PBX1"	5087	"mskcc.org"	"GRCh37"	"1"	164797188	164797188	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1200+6325C>G"	""	""	"ENST00000420696"	""	73	"49"	24	60	"60"	0	"PBX1,intron_variant,,ENST00000420696,NM_002585.3,NM_001204963.1,NM_001204961.1;PBX1,intron_variant,,ENST00000560641,;PBX1,intron_variant,,ENST00000367897,;PBX1,intron_variant,,ENST00000540246,;PBX1,intron_variant,,ENST00000540236,;PBX1,intron_variant,,ENST00000559240,;RP11-506O24.2,upstream_gene_variant,,ENST00000607752,;PBX1,intron_variant,,ENST00000468104,;PBX1,intron_variant,,ENST00000560469,;PBX1,intron_variant,,ENST00000496120,;PBX1,intron_variant,,ENST00000558796,;PBX1,intron_variant,,ENST00000465089,;"	"G"	"ENSG00000185630"	"ENST00000420696"	"Transcript"	"intron_variant"	"-/6636"	"-/1293"	"-/430"	""	""	""	"1"	NA	1	"PBX1"	"HGNC"	8632	"protein_coding"	"YES"	"CCDS1246.1"	"ENSP00000405890"	"P40424"	"Q68DD6,H0YLT4,H0YLM3,H0YLD4,H0YLB0,H0YKH1,F8WA05"	"UPI00000213E1"	"NM_002585.3,NM_001204963.1,NM_001204961.1"	""	""	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"c1602ef2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.328767123287671	"WGS"	TRUE
"10383"	"ENSR00001525548"	0	"mskcc.org"	"GRCh37"	"1"	165005767	165005767	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001525548"	""	83	"62"	21	57	"57"	0	""	"A"	""	"ENSR00001525548"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c1603708-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253012048192771	"WGS"	FALSE
"10384"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	165890671	165890671	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"67"	7	35	"35"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c1606728-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	FALSE
"10385"	"FAM78B"	149297	"mskcc.org"	"GRCh37"	"1"	166104680	166104680	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.263+30543T>C"	""	""	"ENST00000338353"	""	94	"75"	19	63	"63"	0	"FAM78B,intron_variant,,ENST00000338353,;FAM78B,intron_variant,,ENST00000354422,NM_001017961.3;FAM78B,intron_variant,,ENST00000435676,;FAM78B,intron_variant,,ENST00000456900,;FAM78B,intron_variant,,ENST00000441649,;"	"G"	"ENSG00000188859"	"ENST00000338353"	"Transcript"	"intron_variant"	"-/1597"	"-/786"	"-/261"	""	""	""	"1"	NA	-1	"FAM78B"	"HGNC"	13495	"protein_coding"	"YES"	"CCDS30931.1"	"ENSP00000339681"	"Q5VT40"	""	"UPI00001612B4"	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c16075d8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202127659574468	"WGS"	FALSE
"10386"	"RP11-479J7.1"	0	"mskcc.org"	"GRCh37"	"1"	166404317	166404317	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.176+17224A>G"	""	""	"ENST00000448643"	""	77	"52"	25	64	"63"	1	"RP11-479J7.1,intron_variant,,ENST00000448643,;"	"C"	"ENSG00000225325"	"ENST00000448643"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/810"	""	""	""	""	""	"1"	NA	-1	"RP11-479J7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c1608118-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324675324675325	"WGS"	FALSE
"10387"	"POGK"	57645	"mskcc.org"	"GRCh37"	"1"	166808540	166808540	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000367875"	""	70	"51"	19	44	"44"	0	"POGK,upstream_gene_variant,,ENST00000367875,;POGK,upstream_gene_variant,,ENST00000367876,NM_017542.3;POGK,upstream_gene_variant,,ENST00000537173,;POGK,upstream_gene_variant,,ENST00000536514,;POGK,upstream_gene_variant,,ENST00000449930,;"	"T"	"ENSG00000143157"	"ENST00000367875"	"Transcript"	"upstream_gene_variant"	"-/6254"	"-/1830"	"-/609"	""	""	""	"1"	"786"	1	"POGK"	"HGNC"	18800	"protein_coding"	"YES"	"CCDS1254.1"	"ENSP00000356849"	"Q9P215"	"Q5TIJ2"	"UPI0000167816"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c1608942-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271428571428571	"WGS"	FALSE
"10388"	"NME7"	29922	"mskcc.org"	"GRCh37"	"1"	169270973	169270973	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.440+1410G>A"	""	""	"ENST00000367811"	""	86	"59"	27	50	"50"	0	"NME7,intron_variant,,ENST00000367811,NM_013330.3;NME7,intron_variant,,ENST00000472647,NM_197972.1;NME7,intron_variant,,ENST00000469474,;NME7,intron_variant,,ENST00000491225,;NME7,intron_variant,,ENST00000480478,;NME7,intron_variant,,ENST00000485609,;NME7,intron_variant,,ENST00000483228,;NME7,intron_variant,,ENST00000524967,;NME7,intron_variant,,ENST00000525440,;NME7,intron_variant,,ENST00000528517,;NME7,intron_variant,,ENST00000472984,;NME7,downstream_gene_variant,,ENST00000527460,;"	"T"	"ENSG00000143156"	"ENST00000367811"	"Transcript"	"intron_variant"	"-/1642"	"-/1131"	"-/376"	""	""	""	"1"	NA	-1	"NME7"	"HGNC"	20461	"protein_coding"	"YES"	"CCDS1277.1"	"ENSP00000356785"	"Q9Y5B8"	""	"UPI000012FE8C"	"NM_013330.3"	""	""	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c1611998-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313953488372093	"WGS"	FALSE
"10389"	"SUCO"	51430	"mskcc.org"	"GRCh37"	"1"	172540864	172540864	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1049+994T>G"	""	""	"ENST00000263688"	""	27	"23"	4	7	"7"	0	"SUCO,intron_variant,,ENST00000367723,NM_016227.2;SUCO,intron_variant,,ENST00000608151,;SUCO,intron_variant,,ENST00000263688,NM_014283.3;SUCO,intron_variant,,ENST00000610051,NM_001282750.1;SUCO,downstream_gene_variant,,ENST00000608804,;SUCO,downstream_gene_variant,,ENST00000608673,;"	"G"	"ENSG00000094975"	"ENST00000263688"	"Transcript"	"intron_variant"	"-/5556"	"-/3765"	"-/1254"	""	""	""	"1"	NA	1	"SUCO"	"HGNC"	1240	"protein_coding"	"YES"	"CCDS1303.1"	"ENSP00000263688"	"Q9UBS9"	""	"UPI0000070BAC"	"NM_014283.3"	""	""	""	"9/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c161b93e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"10390"	"SUCO"	51430	"mskcc.org"	"GRCh37"	"1"	172540871	172540871	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1049+1001A>G"	""	""	"ENST00000263688"	""	22	"18"	4	5	"5"	0	"SUCO,intron_variant,,ENST00000367723,NM_016227.2;SUCO,intron_variant,,ENST00000608151,;SUCO,intron_variant,,ENST00000263688,NM_014283.3;SUCO,intron_variant,,ENST00000610051,NM_001282750.1;SUCO,downstream_gene_variant,,ENST00000608804,;SUCO,downstream_gene_variant,,ENST00000608673,;"	"G"	"ENSG00000094975"	"ENST00000263688"	"Transcript"	"intron_variant"	"-/5556"	"-/3765"	"-/1254"	""	""	""	"1"	NA	1	"SUCO"	"HGNC"	1240	"protein_coding"	"YES"	"CCDS1303.1"	"ENSP00000263688"	"Q9UBS9"	""	"UPI0000070BAC"	"NM_014283.3"	""	""	""	"9/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c161ba24-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"10391"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	178975834	178975834	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"86"	9	37	"37"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c162c0d6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0947368421052632	"WGS"	FALSE
"10392"	"RGSL1"	353299	"mskcc.org"	"GRCh37"	"1"	182507830	182507830	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2495-1552G>A"	""	""	"ENST00000294854"	""	73	"46"	27	60	"60"	0	"RGSL1,intron_variant,,ENST00000294854,NM_001137669.1;RGSL1,intron_variant,,ENST00000542961,;RGSL1,intron_variant,,ENST00000436031,;RGSL1,intron_variant,,ENST00000443996,;RGSL1,intron_variant,,ENST00000415960,;"	"A"	"ENSG00000121446"	"ENST00000294854"	"Transcript"	"intron_variant"	"-/3696"	"-/3231"	"-/1076"	""	""	""	"1"	NA	1	"RGSL1"	"HGNC"	18636	"protein_coding"	"YES"	"CCDS58049.1"	"ENSP00000457748"	"A5PLK6"	"H3BNQ0"	"UPI000156571A"	"NM_001137669.1"	""	""	""	"14/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c1637d14-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36986301369863	"WGS"	FALSE
"10393"	"APOBEC4"	403314	"mskcc.org"	"GRCh37"	"1"	183622408	183622408	"+"	"5'UTR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-232A>G"	""	""	"ENST00000308641"	"1/2"	84	"63"	21	65	"64"	1	"APOBEC4,5_prime_UTR_variant,,ENST00000308641,NM_203454.2;RGL1,intron_variant,,ENST00000304685,NM_015149.3;RGL1,intron_variant,,ENST00000536277,;APOBEC4,non_coding_transcript_exon_variant,,ENST00000481562,;"	"C"	"ENSG00000173627"	"ENST00000308641"	"Transcript"	"5_prime_UTR_variant"	"41/2648"	"-/1104"	"-/367"	""	""	""	"1"	NA	-1	"APOBEC4"	"HGNC"	32152	"protein_coding"	"YES"	"CCDS1358.1"	"ENSP00000310622"	"Q8WW27"	""	"UPI0000071339"	"NM_203454.2"	""	""	"1/2"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c163bf5e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"10394"	"RNA5SP72"	0	"mskcc.org"	"GRCh37"	"1"	184987534	184987534	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000364442"	""	76	"68"	8	37	"37"	0	"RNA5SP72,upstream_gene_variant,,ENST00000364442,;"	"G"	"ENSG00000201312"	"ENST00000364442"	"Transcript"	"upstream_gene_variant"	"-/117"	""	""	""	""	""	"1"	"3335"	-1	"RNA5SP72"	"HGNC"	42849	"rRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c163fb0e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"10395"	"PLA2G4A"	5321	"mskcc.org"	"GRCh37"	"1"	186899529	186899529	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.559-2366A>T"	""	""	"ENST00000367466"	""	72	"53"	19	59	"59"	0	"PLA2G4A,intron_variant,,ENST00000367466,NM_024420.2;PLA2G4A,intron_variant,,ENST00000442353,;PLA2G4A,intron_variant,,ENST00000466600,;"	"T"	"ENSG00000116711"	"ENST00000367466"	"Transcript"	"intron_variant"	"-/2875"	"-/2250"	"-/749"	""	""	""	"1"	NA	1	"PLA2G4A"	"HGNC"	9035	"protein_coding"	"YES"	"CCDS1372.1"	"ENSP00000356436"	"P47712"	""	"UPI0000203D76"	"NM_024420.2"	""	""	""	"7/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c1646260-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263888888888889	"WGS"	FALSE
"10396"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	188244243	188244243	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"50"	28	70	"70"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c164ac98-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358974358974359	"WGS"	FALSE
"10397"	"RP5-1011O1.2"	0	"mskcc.org"	"GRCh37"	"1"	192516467	192516467	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.71+19810A>G"	""	""	"ENST00000434300"	""	82	"67"	15	64	"64"	0	"RP5-1011O1.2,intron_variant,,ENST00000434300,;"	"C"	"ENSG00000232498"	"ENST00000434300"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/396"	""	""	""	""	""	"1"	NA	-1	"RP5-1011O1.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c16556ac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182926829268293	"WGS"	FALSE
"10398"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	193582435	193582435	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"63"	32	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c1657bdc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336842105263158	"WGS"	FALSE
"10399"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	193600649	193600649	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"59"	31	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c1657d6c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344444444444444	"WGS"	FALSE
"10400"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	194959423	194959423	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"54"	29	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c165b8ae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349397590361446	"WGS"	FALSE
"10401"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	195213680	195213680	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"81"	7	47	"47"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c165c164-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0795454545454545	"WGS"	FALSE
"10402"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	198445323	198445323	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"53"	21	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c1668108-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283783783783784	"WGS"	FALSE
"10403"	"ENSR00000550468"	0	"mskcc.org"	"GRCh37"	"1"	199711227	199711227	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000550468"	""	66	"44"	22	42	"42"	0	""	"A"	""	"ENSR00000550468"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c1669864-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"10404"	"CAMSAP2"	23271	"mskcc.org"	"GRCh37"	"1"	200741609	200741609	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.399+11383C>T"	""	""	"ENST00000358823"	""	93	"85"	8	48	"48"	0	"CAMSAP2,intron_variant,,ENST00000358823,NM_203459.1;CAMSAP2,intron_variant,,ENST00000236925,;CAMSAP2,intron_variant,,ENST00000413307,;"	"T"	"ENSG00000118200"	"ENST00000358823"	"Transcript"	"intron_variant"	"-/7352"	"-/4437"	"-/1478"	""	""	""	"1"	NA	1	"CAMSAP2"	"HGNC"	29188	"protein_coding"	"YES"	"CCDS1404.1"	"ENSP00000351684"	"Q08AD1"	""	"UPI000020470D"	"NM_203459.1"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c166e828-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0860215053763441	"WGS"	FALSE
"10405"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	202053531	202053531	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	65	"48"	17	36	"36"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c167694c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261538461538462	"WGS"	FALSE
"10406"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	203357803	203357803	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"75"	29	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c167dda0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278846153846154	"WGS"	FALSE
"10407"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	204016041	204016041	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"80"	9	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c1682df0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101123595505618	"WGS"	FALSE
"10408"	"PLEKHA6"	22874	"mskcc.org"	"GRCh37"	"1"	204254982	204254982	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-94-11045T>A"	""	""	"ENST00000272203"	""	93	"71"	22	46	"46"	0	"PLEKHA6,intron_variant,,ENST00000272203,NM_014935.4;PLEKHA6,intron_variant,,ENST00000414478,;PLEKHA6,intron_variant,,ENST00000564627,;"	"T"	"ENSG00000143850"	"ENST00000272203"	"Transcript"	"intron_variant"	"-/7401"	"-/3147"	"-/1048"	""	""	""	"1"	NA	-1	"PLEKHA6"	"HGNC"	17053	"protein_coding"	"YES"	"CCDS1444.1"	"ENSP00000272203"	"Q9Y2H5"	""	"UPI000013D935"	"NM_014935.4"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c1684a9c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236559139784946	"WGS"	FALSE
"10409"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	204479544	204479544	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs201303554"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"70"	8	27	"27"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201303554"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c1685960-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"10410"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	207162205	207162205	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"76"	31	77	"77"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"c1693b14-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289719626168224	"WGS"	FALSE
"10411"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	208713628	208713628	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs549747073"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"82"	34	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs549747073"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c16978ea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293103448275862	"WGS"	FALSE
"10412"	"KCNH1"	3756	"mskcc.org"	"GRCh37"	"1"	210994412	210994412	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1463-16904G>A"	""	""	"ENST00000271751"	""	85	"54"	31	52	"52"	0	"KCNH1,intron_variant,,ENST00000367007,NM_172362.2,NM_002238.3;KCNH1,intron_variant,,ENST00000271751,;"	"T"	"ENSG00000143473"	"ENST00000271751"	"Transcript"	"intron_variant"	"-/3066"	"-/2970"	"-/989"	""	""	""	"1"	NA	-1	"KCNH1"	"HGNC"	6250	"protein_coding"	"YES"	"CCDS1496.1"	"ENSP00000271751"	"O95259"	""	"UPI000003230D"	""	""	""	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"c16a4630-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364705882352941	"WGS"	FALSE
"10413"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	214306539	214306539	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"52"	17	47	"47"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c16b1506-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246376811594203	"WGS"	FALSE
"10414"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	215083041	215083041	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"57"	25	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c16b39be-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304878048780488	"WGS"	FALSE
"10415"	"KCTD3"	51133	"mskcc.org"	"GRCh37"	"1"	215788681	215788681	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs542930871"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1562+3418G>A"	""	""	"ENST00000259154"	""	94	"69"	25	59	"59"	0	"KCTD3,intron_variant,,ENST00000259154,NM_016121.3;KCTD3,intron_variant,,ENST00000452413,;KCTD3,upstream_gene_variant,,ENST00000495537,;KCTD3,upstream_gene_variant,,ENST00000465650,;"	"A"	"ENSG00000136636"	"ENST00000259154"	"Transcript"	"intron_variant"	"-/3931"	"-/2448"	"-/815"	""	""	"rs542930871"	"1"	NA	1	"KCTD3"	"HGNC"	21305	"protein_coding"	"YES"	"CCDS1515.1"	"ENSP00000259154"	"Q9Y597"	"B4DJX2"	"UPI0000071A2E"	"NM_016121.3"	""	""	""	"15/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c16b48c8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265957446808511	"WGS"	FALSE
"10416"	"ESRRG"	2104	"mskcc.org"	"GRCh37"	"1"	216766813	216766813	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.605-25373T>A"	""	""	"ENST00000366937"	""	94	"68"	26	53	"53"	0	"ESRRG,intron_variant,,ENST00000391890,NM_001243515.1,NM_001243519.1;ESRRG,intron_variant,,ENST00000360012,NM_001243514.1;ESRRG,intron_variant,,ENST00000366937,NM_001243518.1;ESRRG,intron_variant,,ENST00000361525,NM_206594.2,NM_001243505.1;ESRRG,intron_variant,,ENST00000366940,NM_001134285.2;ESRRG,intron_variant,,ENST00000493603,;ESRRG,intron_variant,,ENST00000366938,NM_001243513.1;ESRRG,intron_variant,,ENST00000361395,NM_001243510.1;ESRRG,intron_variant,,ENST00000408911,NM_001438.3;ESRRG,intron_variant,,ENST00000359162,NM_001243506.1,NM_001243511.1,NM_206595.2;ESRRG,intron_variant,,ENST00000463665,NM_001243507.1;ESRRG,intron_variant,,ENST00000487276,NM_001243512.1;ESRRG,intron_variant,,ENST00000493748,NM_001243509.1;ESRRG,intron_variant,,ENST00000475275,;ESRRG,intron_variant,,ENST00000586199,;"	"T"	"ENSG00000196482"	"ENST00000366937"	"Transcript"	"intron_variant"	"-/5365"	"-/1413"	"-/470"	""	""	""	"1"	NA	-1	"ESRRG"	"HGNC"	3474	"protein_coding"	"YES"	"CCDS58061.1"	"ENSP00000355904"	"P62508"	"C9JNX5,C9J5W9,C9J0E3"	"UPI0000D4BFAB"	"NM_001243518.1"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"c16b6d6c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276595744680851	"WGS"	FALSE
"10417"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	218283796	218283796	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"62"	23	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c16bab2e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270588235294118	"WGS"	FALSE
"10418"	"TMEM63A"	9725	"mskcc.org"	"GRCh37"	"1"	226071196	226071196	"+"	"5'Flank"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366835"	""	83	"58"	25	45	"45"	0	"TMEM63A,upstream_gene_variant,,ENST00000366835,NM_014698.2;LEFTY1,downstream_gene_variant,,ENST00000272134,NM_020997.3;RP4-559A3.7,downstream_gene_variant,,ENST00000432920,;LEFTY1,downstream_gene_variant,,ENST00000492457,;"	"C"	"ENSG00000196187"	"ENST00000366835"	"Transcript"	"upstream_gene_variant"	"-/4098"	"-/2424"	"-/807"	""	""	""	"1"	"1127"	-1	"TMEM63A"	"HGNC"	29118	"protein_coding"	"YES"	"CCDS31042.1"	"ENSP00000355800"	"O94886"	"Q2HIZ8"	"UPI000006DE50"	"NM_014698.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c16d8110-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301204819277108	"WGS"	FALSE
"10419"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	227736967	227736967	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"70"	19	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c16e0dce-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213483146067416	"WGS"	FALSE
"10420"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	229287324	229287324	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"70"	22	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c16e88ee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239130434782609	"WGS"	FALSE
"10421"	"RAB4A"	5867	"mskcc.org"	"GRCh37"	"1"	229410979	229410979	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.31+3862T>A"	""	""	"ENST00000366690"	""	101	"70"	31	51	"51"	0	"RAB4A,intron_variant,,ENST00000366690,NM_004578.3;RP5-1061H20.4,upstream_gene_variant,,ENST00000429227,;RP5-1061H20.4,upstream_gene_variant,,ENST00000436334,;RAB4A,intron_variant,,ENST00000473894,;RAB4A,intron_variant,,ENST00000481981,;RP5-1061H20.3,upstream_gene_variant,,ENST00000434404,;"	"A"	"ENSG00000168118"	"ENST00000366690"	"Transcript"	"intron_variant"	"-/2966"	"-/657"	"-/218"	""	""	""	"1"	NA	1	"RAB4A"	"HGNC"	9781	"protein_coding"	"YES"	"CCDS31050.1"	"ENSP00000355651"	"P20338"	""	"UPI0000161F4E"	"NM_004578.3"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c16e90b4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306930693069307	"WGS"	FALSE
"10422"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	229957377	229957377	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs147268704"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"60"	27	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147268704"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c16ec8f4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"10423"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	231640093	231640093	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"51"	18	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c16f441e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"10424"	"SIPA1L2"	57568	"mskcc.org"	"GRCh37"	"1"	232700084	232700084	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366630"	""	70	"61"	9	43	"43"	0	"SIPA1L2,upstream_gene_variant,,ENST00000366630,;"	"T"	"ENSG00000116991"	"ENST00000366630"	"Transcript"	"upstream_gene_variant"	"-/6690"	"-/5169"	"-/1722"	""	""	""	"1"	"2780"	-1	"SIPA1L2"	"HGNC"	23800	"protein_coding"	"YES"	"CCDS41474.1"	"ENSP00000355589"	"Q9P2F8"	""	"UPI00001D7D6A"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c16f78ee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128571428571429	"WGS"	FALSE
"10425"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	233028593	233028593	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"60"	24	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"c16f8884-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"10426"	"SLC35F3"	148641	"mskcc.org"	"GRCh37"	"1"	234304274	234304274	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.284-62889G>A"	""	""	"ENST00000366618"	""	104	"70"	34	66	"66"	0	"SLC35F3,intron_variant,,ENST00000366618,NM_173508.2;"	"A"	"ENSG00000183780"	"ENST00000366618"	"Transcript"	"intron_variant"	"-/2891"	"-/1473"	"-/490"	""	""	""	"1"	NA	1	"SLC35F3"	"HGNC"	23616	"protein_coding"	"YES"	"CCDS1600.1"	"ENSP00000355577"	"Q8IY50"	""	"UPI000006DD13"	"NM_173508.2"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c16fca7e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326923076923077	"WGS"	FALSE
"10427"	"SLC35F3"	148641	"mskcc.org"	"GRCh37"	"1"	234304798	234304798	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.284-62365A>T"	""	""	"ENST00000366618"	""	80	"55"	25	52	"52"	0	"SLC35F3,intron_variant,,ENST00000366618,NM_173508.2;"	"T"	"ENSG00000183780"	"ENST00000366618"	"Transcript"	"intron_variant"	"-/2891"	"-/1473"	"-/490"	""	""	""	"1"	NA	1	"SLC35F3"	"HGNC"	23616	"protein_coding"	"YES"	"CCDS1600.1"	"ENSP00000355577"	"Q8IY50"	""	"UPI000006DD13"	"NM_173508.2"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"c16fcb5a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"10428"	"RP4-781K5.9"	0	"mskcc.org"	"GRCh37"	"1"	234781776	234781776	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.82-1097G>C"	""	""	"ENST00000607759"	""	113	"100"	13	61	"61"	0	"RP4-781K5.9,intron_variant,,ENST00000607759,;RP4-781K5.4,upstream_gene_variant,,ENST00000417805,;"	"C"	"ENSG00000272362"	"ENST00000607759"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/526"	""	""	""	""	""	"1"	NA	1	"RP4-781K5.9"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c16ffa30-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115044247787611	"WGS"	FALSE
"10429"	"RP4-781K5.7"	0	"mskcc.org"	"GRCh37"	"1"	234853932	234853932	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.464-1106G>T"	""	""	"ENST00000422414"	""	89	"75"	14	62	"62"	0	"RP4-781K5.7,intron_variant,,ENST00000422414,;"	"T"	"ENSG00000224037"	"ENST00000422414"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1008"	""	""	""	""	""	"1"	NA	1	"RP4-781K5.7"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c16ffcce-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157303370786517	"WGS"	FALSE
"10430"	"ARID4B"	51742	"mskcc.org"	"GRCh37"	"1"	235327105	235327105	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000264183"	""	123	"84"	39	65	"65"	0	"ARID4B,downstream_gene_variant,,ENST00000264183,NM_016374.5;ARID4B,downstream_gene_variant,,ENST00000366603,NM_001206794.1;ARID4B,downstream_gene_variant,,ENST00000349213,NM_031371.3;RBM34,upstream_gene_variant,,ENST00000408888,;RBM34,upstream_gene_variant,,ENST00000366606,NM_015014.2;RBM34,upstream_gene_variant,,ENST00000447801,;RBM34,upstream_gene_variant,,ENST00000429912,;RBM34,upstream_gene_variant,,ENST00000485019,;ARID4B,intron_variant,,ENST00000474953,;ARID4B,downstream_gene_variant,,ENST00000421364,;RBM34,upstream_gene_variant,,ENST00000474086,;RBM34,upstream_gene_variant,,ENST00000476261,;RBM34,upstream_gene_variant,,ENST00000486751,;RBM34,upstream_gene_variant,,ENST00000468751,;RBM34,upstream_gene_variant,,ENST00000475960,;"	"A"	"ENSG00000054267"	"ENST00000264183"	"Transcript"	"downstream_gene_variant"	"-/6067"	"-/3939"	"-/1312"	""	""	""	"1"	"3105"	-1	"ARID4B"	"HGNC"	15550	"protein_coding"	"YES"	"CCDS31061.1"	"ENSP00000264183"	"Q4LE39"	""	"UPI00000437FE"	"NM_016374.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c1704256-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317073170731707	"WGS"	FALSE
"10431"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	235514200	235514200	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"55"	27	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c1705ed0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329268292682927	"WGS"	FALSE
"10432"	"ENSR00001041246"	0	"mskcc.org"	"GRCh37"	"1"	236095308	236095308	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001041246"	""	85	"64"	21	62	"62"	0	""	"A"	""	"ENSR00001041246"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c1709260-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247058823529412	"WGS"	FALSE
"10433"	"HEATR1"	55127	"mskcc.org"	"GRCh37"	"1"	236729238	236729238	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4416G>A"	"p.="	"p.K1472K"	"ENST00000366582"	"31/45"	87	"62"	25	56	"56"	0	"HEATR1,synonymous_variant,p.=,ENST00000366582,NM_018072.5;HEATR1,synonymous_variant,p.=,ENST00000366581,;"	"T"	"ENSG00000119285"	"ENST00000366582"	"Transcript"	"synonymous_variant"	"4531/8447"	"4416/6435"	"1472/2144"	"K"	"aaG/aaA"	""	"1"	NA	-1	"HEATR1"	"HGNC"	25517	"protein_coding"	"YES"	"CCDS31066.1"	"ENSP00000355541"	"Q9H583"	"Q6P664"	"UPI000013D4D4"	"NM_018072.5"	""	""	"31/45"	""	"Gene3D:1.25.10.10,hmmpanther:PTHR13457,hmmpanther:PTHR13457:SF1,Superfamily_domains:SSF48371"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c170d9fa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28735632183908	"WGS"	FALSE
"10434"	"RYR2"	6262	"mskcc.org"	"GRCh37"	"1"	237617117	237617117	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1293-574A>G"	""	""	"ENST00000366574"	""	87	"80"	7	53	"53"	0	"RYR2,intron_variant,,ENST00000366574,NM_001035.2;RYR2,intron_variant,,ENST00000542537,;RYR2,intron_variant,,ENST00000360064,;"	"G"	"ENSG00000198626"	"ENST00000366574"	"Transcript"	"intron_variant"	"-/16562"	"-/14904"	"-/4967"	""	""	""	"1"	NA	1	"RYR2"	"HGNC"	10484	"protein_coding"	"YES"	"CCDS55691.1"	"ENSP00000355533"	"Q92736"	"H0YGL9,D7UNU4,D7UNU3,D7UNU2"	"UPI0000DD0308"	"NM_001035.2"	""	""	""	"14/104"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"c17110d2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"10435"	"GREM2"	64388	"mskcc.org"	"GRCh37"	"1"	240729062	240729062	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-2+46122G>A"	""	""	"ENST00000318160"	""	87	"64"	23	65	"64"	1	"GREM2,intron_variant,,ENST00000318160,NM_022469.3;"	"T"	"ENSG00000180875"	"ENST00000318160"	"Transcript"	"intron_variant"	"-/4170"	"-/507"	"-/168"	""	""	""	"1"	NA	-1	"GREM2"	"HGNC"	17655	"protein_coding"	"YES"	"CCDS31070.1"	"ENSP00000318650"	"Q9H772"	""	"UPI000006F961"	"NM_022469.3"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c1719ffc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264367816091954	"WGS"	FALSE
"10436"	"ENSR00001530677"	0	"mskcc.org"	"GRCh37"	"1"	242953947	242953947	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001530677"	""	81	"58"	23	64	"64"	0	""	"T"	""	"ENSR00001530677"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c1723610-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283950617283951	"WGS"	FALSE
"10437"	"ENSR00001601207"	0	"mskcc.org"	"GRCh37"	"1"	247571341	247571341	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001601207"	""	95	"90"	5	61	"61"	0	""	"A"	""	"ENSR00001601207"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c173f310-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0526315789473684	"WGS"	FALSE
"10438"	"GCSAML"	148823	"mskcc.org"	"GRCh37"	"1"	247704031	247704031	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-148+1938G>A"	""	""	"ENST00000366491"	""	95	"72"	23	57	"57"	0	"GCSAML,intron_variant,,ENST00000366491,NM_001281834.1;GCSAML,intron_variant,,ENST00000366489,NM_001281838.1,NM_001281835.1;GCSAML,intron_variant,,ENST00000463359,;GCSAML,intron_variant,,ENST00000527084,;GCSAML,intron_variant,,ENST00000527541,;GCSAML,intron_variant,,ENST00000529512,;GCSAML,intron_variant,,ENST00000366490,;GCSAML,intron_variant,,ENST00000526896,;GCSAML,intron_variant,,ENST00000531662,;"	"A"	"ENSG00000169224"	"ENST00000366491"	"Transcript"	"intron_variant"	"-/4130"	"-/348"	"-/115"	""	""	""	"1"	NA	1	"GCSAML"	"HGNC"	29583	"protein_coding"	""	"CCDS60470.1"	"ENSP00000355447"	"Q5JQS6"	"E9PRX8,E9PLW0"	"UPI000022AFEB"	"NM_001281834.1"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c174103e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242105263157895	"WGS"	FALSE
"10439"	"DIP2C"	22982	"mskcc.org"	"GRCh37"	"10"	339690	339690	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3987-5329C>G"	""	""	"ENST00000280886"	""	73	"52"	21	56	"56"	0	"DIP2C,intron_variant,,ENST00000280886,NM_014974.2;"	"C"	"ENSG00000151240"	"ENST00000280886"	"Transcript"	"intron_variant"	"-/7894"	"-/4671"	"-/1556"	""	""	""	"1"	NA	-1	"DIP2C"	"HGNC"	29150	"protein_coding"	"YES"	"CCDS7054.1"	"ENSP00000280886"	"Q9Y2E4"	""	"UPI00001833B9"	"NM_014974.2"	""	""	""	"32/36"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c174eee6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287671232876712	"WGS"	FALSE
"10440"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	3002891	3002891	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"80"	20	80	"80"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c1778688-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"10441"	"AKR1C5P"	0	"mskcc.org"	"GRCh37"	"10"	5164505	5164505	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.529-146C>T"	""	""	"ENST00000427165"	""	90	"66"	24	55	"55"	0	"AKR1C5P,intron_variant,,ENST00000427165,;"	"A"	"ENSG00000225418"	"ENST00000427165"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/609"	""	""	""	""	""	"1"	NA	-1	"AKR1C5P"	"HGNC"	44679	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c17864e0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"10442"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	9215350	9215350	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"59"	29	60	"60"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c17a0160-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329545454545455	"WGS"	FALSE
"10443"	"CDC123"	8872	"mskcc.org"	"GRCh37"	"10"	12269283	12269283	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.441-3664G>T"	""	""	"ENST00000281141"	""	91	"76"	15	44	"44"	0	"CDC123,intron_variant,,ENST00000281141,NM_006023.2;CDC123,intron_variant,,ENST00000378900,;CDC123,intron_variant,,ENST00000429258,;CDC123,intron_variant,,ENST00000442050,;CDC123,upstream_gene_variant,,ENST00000440613,;CDC123,intron_variant,,ENST00000455773,;CDC123,intron_variant,,ENST00000498747,;"	"T"	"ENSG00000151465"	"ENST00000281141"	"Transcript"	"intron_variant"	"-/1542"	"-/1011"	"-/336"	""	""	""	"1"	NA	1	"CDC123"	"HGNC"	16827	"protein_coding"	"YES"	"CCDS7090.1"	"ENSP00000281141"	"O75794"	""	"UPI000006FE36"	"NM_006023.2"	""	""	""	"6/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c17acfe6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164835164835165	"WGS"	FALSE
"10444"	"CCDC3"	83643	"mskcc.org"	"GRCh37"	"10"	13005881	13005881	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.549+34457G>A"	""	""	"ENST00000378825"	""	90	"83"	7	50	"50"	0	"CCDC3,intron_variant,,ENST00000378839,NM_001282658.1;CCDC3,intron_variant,,ENST00000378825,NM_031455.3;"	"T"	"ENSG00000151468"	"ENST00000378825"	"Transcript"	"intron_variant"	"-/2729"	"-/813"	"-/270"	""	""	""	"1"	NA	-1	"CCDC3"	"HGNC"	23813	"protein_coding"	"YES"	"CCDS7093.1"	"ENSP00000368102"	"Q9BQI4"	"Q5VYV9"	"UPI000006E69C"	"NM_031455.3"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c17b1870-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0777777777777778	"WGS"	FALSE
"10445"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	14525027	14525027	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"44"	22	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c17b8da0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"10446"	"ITGA8"	8516	"mskcc.org"	"GRCh37"	"10"	15611432	15611432	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2637+2778T>C"	""	""	"ENST00000378076"	""	82	"60"	22	70	"70"	0	"ITGA8,intron_variant,,ENST00000378076,NM_003638.1;"	"G"	"ENSG00000077943"	"ENST00000378076"	"Transcript"	"intron_variant"	"-/6755"	"-/3192"	"-/1063"	""	""	""	"1"	NA	-1	"ITGA8"	"HGNC"	6144	"protein_coding"	"YES"	"CCDS31155.1"	"ENSP00000367316"	"P53708"	""	"UPI00001D80A0"	"NM_003638.1"	""	""	""	"25/29"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"c17bf5f6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268292682926829	"WGS"	FALSE
"10447"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	16164448	16164448	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs144009112"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"53"	24	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144009112"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0.001"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c17c1702-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311688311688312	"WGS"	FALSE
"10448"	"ST8SIA6"	338596	"mskcc.org"	"GRCh37"	"10"	17418974	17418974	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.290+13556T>G"	""	""	"ENST00000377602"	""	84	"79"	5	63	"63"	0	"ST8SIA6,intron_variant,,ENST00000377602,NM_001004470.1;"	"C"	"ENSG00000148488"	"ENST00000377602"	"Transcript"	"intron_variant"	"-/2276"	"-/1197"	"-/398"	""	""	""	"1"	NA	-1	"ST8SIA6"	"HGNC"	23317	"protein_coding"	"YES"	"CCDS31158.1"	"ENSP00000366827"	"P61647"	""	"UPI0000359594"	"NM_001004470.1"	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c17c4ff6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0595238095238095	"WGS"	FALSE
"10449"	"MALRD1"	0	"mskcc.org"	"GRCh37"	"10"	19827674	19827674	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3615+7394C>T"	""	""	"ENST00000377266"	""	97	"76"	21	61	"61"	0	"MALRD1,intron_variant,,ENST00000454679,;MALRD1,intron_variant,,ENST00000377266,;MALRD1,intron_variant,,ENST00000377265,;MALRD1,intron_variant,,ENST00000455457,;"	"T"	"ENSG00000204740"	"ENST00000377266"	"Transcript"	"intron_variant"	"-/4461"	"-/4461"	"-/1486"	""	""	""	"1"	NA	1	"MALRD1"	"HGNC"	24331	"protein_coding"	"YES"	""	"ENSP00000366477"	""	"U5GXS0"	"UPI000191551D"	""	""	""	""	"19/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c17ce038-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216494845360825	"WGS"	FALSE
"10450"	"MALRD1"	0	"mskcc.org"	"GRCh37"	"10"	19909703	19909703	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4207+12872G>A"	""	""	"ENST00000377266"	""	94	"62"	32	54	"54"	0	"MALRD1,intron_variant,,ENST00000454679,;MALRD1,intron_variant,,ENST00000377266,;MALRD1,intron_variant,,ENST00000377265,;MALRD1,intron_variant,,ENST00000455457,;"	"A"	"ENSG00000204740"	"ENST00000377266"	"Transcript"	"intron_variant"	"-/4461"	"-/4461"	"-/1486"	""	""	""	"1"	NA	1	"MALRD1"	"HGNC"	24331	"protein_coding"	"YES"	""	"ENSP00000366477"	""	"U5GXS0"	"UPI000191551D"	""	""	""	""	"22/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c17ce2cc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340425531914894	"WGS"	FALSE
"10451"	"PIP4K2A"	5305	"mskcc.org"	"GRCh37"	"10"	22909739	22909739	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.145-11093G>T"	""	""	"ENST00000376573"	""	105	"79"	26	49	"49"	0	"PIP4K2A,intron_variant,,ENST00000376573,NM_005028.4;PIP4K2A,intron_variant,,ENST00000545335,;"	"A"	"ENSG00000150867"	"ENST00000376573"	"Transcript"	"intron_variant"	"-/3802"	"-/1221"	"-/406"	""	""	""	"1"	NA	-1	"PIP4K2A"	"HGNC"	8997	"protein_coding"	"YES"	"CCDS7141.1"	"ENSP00000365757"	"P48426"	"S4R320,B4DGX2"	"UPI0000001052"	"NM_005028.4"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"c17da0fe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247619047619048	"WGS"	FALSE
"10452"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	23047937	23047937	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"55"	25	38	"37"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c17daa22-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"10453"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	23102993	23102993	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"79"	27	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c17dae78-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254716981132075	"WGS"	FALSE
"10454"	"KIAA1217"	56243	"mskcc.org"	"GRCh37"	"10"	24090744	24090744	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-321+106581G>A"	""	""	"ENST00000376462"	""	99	"73"	26	60	"59"	1	"KIAA1217,intron_variant,,ENST00000376462,NM_001098500.1;KIAA1217,intron_variant,,ENST00000481700,;"	"A"	"ENSG00000120549"	"ENST00000376462"	"Transcript"	"intron_variant"	"-/6123"	"-/3795"	"-/1264"	""	""	""	"1"	NA	1	"KIAA1217"	"HGNC"	25428	"protein_coding"	""	"CCDS41496.1"	"ENSP00000365645"	""	""	"UPI00003FECAE"	"NM_001098500.1"	""	""	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c17dfb58-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.262626262626263	"WGS"	FALSE
"10455"	"KIAA1217"	56243	"mskcc.org"	"GRCh37"	"10"	24388718	24388718	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-171+92415T>A"	""	""	"ENST00000376462"	""	46	"42"	4	32	"32"	0	"KIAA1217,intron_variant,,ENST00000376462,NM_001098500.1;"	"A"	"ENSG00000120549"	"ENST00000376462"	"Transcript"	"intron_variant"	"-/6123"	"-/3795"	"-/1264"	""	""	""	"1"	NA	1	"KIAA1217"	"HGNC"	25428	"protein_coding"	""	"CCDS41496.1"	"ENSP00000365645"	""	""	"UPI00003FECAE"	"NM_001098500.1"	""	""	""	"2/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"c17e0094-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"10456"	"HIRAP1"	0	"mskcc.org"	"GRCh37"	"10"	25976990	25976990	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"rs374960848"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000605318"	""	86	"62"	24	65	"65"	0	"HIRAP1,upstream_gene_variant,,ENST00000605318,;"	"A"	"ENSG00000271563"	"ENST00000605318"	"Transcript"	"upstream_gene_variant"	"-/787"	""	""	""	""	"rs374960848"	"1"	"3476"	1	"HIRAP1"	"HGNC"	44916	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"A:0.0012"	"A:0"	"A:0.0014"	NA	"A:0"	"A:0.001"	"A:0.0041"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c17e56f2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27906976744186	"WGS"	FALSE
"10457"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	26133457	26133457	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"66"	21	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c17e5e54-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241379310344828	"WGS"	FALSE
"10458"	"ARMC4"	55130	"mskcc.org"	"GRCh37"	"10"	28161927	28161927	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2611-10376C>T"	""	""	"ENST00000305242"	""	75	"69"	6	48	"48"	0	"ARMC4,intron_variant,,ENST00000305242,NM_018076.2;ARMC4,intron_variant,,ENST00000537576,;ARMC4,intron_variant,,ENST00000545014,;"	"A"	"ENSG00000169126"	"ENST00000305242"	"Transcript"	"intron_variant"	"-/3572"	"-/3135"	"-/1044"	""	""	""	"1"	NA	-1	"ARMC4"	"HGNC"	25583	"protein_coding"	"YES"	"CCDS7157.1"	"ENSP00000306410"	"Q5T2S8"	"R4GN11,A8K906"	"UPI00001A95E1"	"NM_018076.2"	""	""	""	"17/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"c17ed172-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"10459"	"ZNF438"	220929	"mskcc.org"	"GRCh37"	"10"	31278862	31278862	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-378-5507C>G"	""	""	"ENST00000436087"	""	108	"97"	11	61	"61"	0	"ZNF438,intron_variant,,ENST00000452305,NM_001143770.1;ZNF438,intron_variant,,ENST00000436087,NM_001143766.1;ZNF438,intron_variant,,ENST00000538351,NM_001143769.1;ZNF438,intron_variant,,ENST00000442986,NM_182755.2,NM_001143768.1;ZNF438,intron_variant,,ENST00000413025,NM_001143767.1;ZNF438,intron_variant,,ENST00000375311,;"	"C"	"ENSG00000183621"	"ENST00000436087"	"Transcript"	"intron_variant"	"-/3293"	"-/2487"	"-/828"	""	""	""	"1"	NA	-1	"ZNF438"	"HGNC"	21029	"protein_coding"	"YES"	"CCDS7168.1"	"ENSP00000406934"	"Q7Z4V0"	"Q5T427"	"UPI00001B3D8F"	"NM_001143766.1"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c17fcc6c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101851851851852	"WGS"	FALSE
"10460"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	32087072	32087072	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"59"	24	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c18000e2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289156626506024	"WGS"	FALSE
"10461"	"KIF5B"	3799	"mskcc.org"	"GRCh37"	"10"	32320709	32320709	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1375-502T>C"	""	""	"ENST00000302418"	""	65	"58"	7	31	"31"	0	"KIF5B,intron_variant,,ENST00000302418,NM_004521.2;"	"G"	"ENSG00000170759"	"ENST00000302418"	"Transcript"	"intron_variant"	"-/5877"	"-/2892"	"-/963"	""	""	""	"1"	NA	-1	"KIF5B"	"HGNC"	6324	"protein_coding"	"YES"	"CCDS7171.1"	"ENSP00000307078"	"P33176"	"A8K048"	"UPI000012DE68"	"NM_004521.2"	""	""	""	"13/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c1801668-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107692307692308	"WGS"	TRUE
"10462"	"EPC1"	80314	"mskcc.org"	"GRCh37"	"10"	32615405	32615405	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.153+20286G>T"	""	""	"ENST00000263062"	""	103	"70"	33	54	"54"	0	"EPC1,intron_variant,,ENST00000319778,NM_001272004.1,NM_001272019.1;EPC1,intron_variant,,ENST00000375110,NM_001282391.1;EPC1,intron_variant,,ENST00000263062,NM_025209.3;EPC1,intron_variant,,ENST00000495790,;"	"A"	"ENSG00000120616"	"ENST00000263062"	"Transcript"	"intron_variant"	"-/2913"	"-/2511"	"-/836"	""	""	""	"1"	NA	-1	"EPC1"	"HGNC"	19876	"protein_coding"	"YES"	"CCDS7172.1"	"ENSP00000263062"	"Q9H2F5"	"Q68DJ2"	"UPI000006F77F"	"NM_025209.3"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c1803a3a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.320388349514563	"WGS"	FALSE
"10463"	"PARD3"	56288	"mskcc.org"	"GRCh37"	"10"	34710634	34710634	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.715-19789G>A"	""	""	"ENST00000374789"	""	92	"71"	21	62	"62"	0	"PARD3,intron_variant,,ENST00000374789,NM_019619.3;PARD3,intron_variant,,ENST00000374788,NM_001184785.1;PARD3,intron_variant,,ENST00000545693,NM_001184786.1;PARD3,intron_variant,,ENST00000346874,NM_001184787.1;PARD3,intron_variant,,ENST00000350537,NM_001184788.1,NM_001184789.1;PARD3,intron_variant,,ENST00000374790,;PARD3,intron_variant,,ENST00000545260,NM_001184790.1;PARD3,intron_variant,,ENST00000374794,NM_001184791.1;PARD3,intron_variant,,ENST00000340077,NM_001184792.1;PARD3,intron_variant,,ENST00000374773,NM_001184793.1;PARD3,intron_variant,,ENST00000374776,NM_001184794.1;PARD3,intron_variant,,ENST00000544292,;"	"T"	"ENSG00000148498"	"ENST00000374789"	"Transcript"	"intron_variant"	"-/6005"	"-/4071"	"-/1356"	""	""	""	"1"	NA	-1	"PARD3"	"HGNC"	16051	"protein_coding"	"YES"	"CCDS7178.1"	"ENSP00000363921"	"Q8TEW0"	""	"UPI0000073A9F"	"NM_019619.3"	""	""	""	"5/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c1809ec6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228260869565217	"WGS"	FALSE
"10464"	"PARD3"	56288	"mskcc.org"	"GRCh37"	"10"	34771859	34771859	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.404-12668G>T"	""	""	"ENST00000374789"	""	91	"69"	22	50	"50"	0	"PARD3,intron_variant,,ENST00000374789,NM_019619.3;PARD3,intron_variant,,ENST00000374788,NM_001184785.1;PARD3,intron_variant,,ENST00000545693,NM_001184786.1;PARD3,intron_variant,,ENST00000346874,NM_001184787.1;PARD3,intron_variant,,ENST00000350537,NM_001184788.1,NM_001184789.1;PARD3,intron_variant,,ENST00000374790,;PARD3,intron_variant,,ENST00000545260,NM_001184790.1;PARD3,intron_variant,,ENST00000374794,NM_001184791.1;PARD3,intron_variant,,ENST00000340077,NM_001184792.1;PARD3,intron_variant,,ENST00000374773,NM_001184793.1;PARD3,intron_variant,,ENST00000374776,NM_001184794.1;"	"A"	"ENSG00000148498"	"ENST00000374789"	"Transcript"	"intron_variant"	"-/6005"	"-/4071"	"-/1356"	""	""	""	"1"	NA	-1	"PARD3"	"HGNC"	16051	"protein_coding"	"YES"	"CCDS7178.1"	"ENSP00000363921"	"Q8TEW0"	""	"UPI0000073A9F"	"NM_019619.3"	""	""	""	"3/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c180a07e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241758241758242	"WGS"	FALSE
"10465"	"ANKRD30A"	91074	"mskcc.org"	"GRCh37"	"10"	37490810	37490810	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2701+557A>C"	""	""	"ENST00000361713"	""	97	"75"	22	59	"59"	0	"ANKRD30A,intron_variant,,ENST00000374660,;ANKRD30A,intron_variant,,ENST00000602533,;ANKRD30A,intron_variant,,ENST00000361713,NM_052997.2;"	"C"	"ENSG00000148513"	"ENST00000361713"	"Transcript"	"intron_variant"	"-/4405"	"-/4026"	"-/1341"	""	""	""	"1"	NA	1	"ANKRD30A"	"HGNC"	17234	"protein_coding"	"YES"	"CCDS7193.1"	"ENSP00000354432"	"Q9BXX3"	"R4GNA2"	"UPI0000458879"	"NM_052997.2"	""	""	""	"31/35"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c181698c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22680412371134	"WGS"	FALSE
"10466"	"AL022344.4"	0	"mskcc.org"	"GRCh37"	"10"	43171312	43171312	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.359-1507A>T"	""	""	"ENST00000411439"	""	98	"69"	29	67	"67"	0	"AL022344.4,intron_variant,,ENST00000411439,;"	"A"	"ENSG00000233515"	"ENST00000411439"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/519"	""	""	""	""	""	"1"	NA	-1	"AL022344.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"c18573c4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295918367346939	"WGS"	FALSE
"10467"	"LINC00842"	643650	"mskcc.org"	"GRCh37"	"10"	47016126	47016126	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.377-3050A>T"	""	""	"ENST00000503031"	""	189	"170"	19	114	"114"	0	"LINC00842,intron_variant,,ENST00000503031,;"	"A"	"ENSG00000223477"	"ENST00000503031"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1700"	""	""	""	""	""	"1"	NA	-1	"LINC00842"	"HGNC"	44989	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c186583e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.100529100529101	"WGS"	FALSE
"10468"	"CTGLF11P"	0	"mskcc.org"	"GRCh37"	"10"	47731122	47731122	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000280961"	""	65	"55"	10	29	"29"	0	"CTGLF11P,downstream_gene_variant,,ENST00000280961,;CTGLF11P,downstream_gene_variant,,ENST00000399470,;"	"T"	"ENSG00000204150"	"ENST00000280961"	"Transcript"	"downstream_gene_variant"	"-/2419"	""	""	""	""	""	"1"	"887"	1	"CTGLF11P"	"HGNC"	23660	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c1868c14-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"10469"	"ENSR00001605545"	0	"mskcc.org"	"GRCh37"	"10"	50451377	50451377	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001605545"	""	99	"92"	7	42	"42"	0	""	"T"	""	"ENSR00001605545"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c1874226-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0707070707070707	"WGS"	FALSE
"10470"	"ENSR00001605549"	0	"mskcc.org"	"GRCh37"	"10"	50470435	50470435	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001605549"	""	113	"91"	22	70	"70"	0	""	"T"	""	"ENSR00001605549"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c1874758-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194690265486726	"WGS"	FALSE
"10471"	"SGMS1"	259230	"mskcc.org"	"GRCh37"	"10"	52155508	52155508	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-232+37728T>C"	""	""	"ENST00000361781"	""	96	"89"	7	55	"55"	0	"SGMS1,intron_variant,,ENST00000361781,NM_147156.3;SGMS1,intron_variant,,ENST00000429490,;AC069547.2,downstream_gene_variant,,ENST00000596442,;SGMS1,intron_variant,,ENST00000492601,;SGMS1,intron_variant,,ENST00000609445,;"	"G"	"ENSG00000198964"	"ENST00000361781"	"Transcript"	"intron_variant"	"-/3744"	"-/1242"	"-/413"	""	""	""	"1"	NA	-1	"SGMS1"	"HGNC"	29799	"protein_coding"	"YES"	"CCDS7240.1"	"ENSP00000354829"	""	"R4GNI5,D3DWC4,E6ZCI7"	"UPI000000D9FC"	"NM_147156.3"	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c187a0b8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0729166666666667	"WGS"	FALSE
"10472"	"RP11-96B5.3"	0	"mskcc.org"	"GRCh37"	"10"	52822067	52822067	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000343087"	""	98	"91"	7	52	"52"	0	"PRKG1,intron_variant,,ENST00000373985,NM_001098512.2;PRKG1,intron_variant,,ENST00000401604,;RP11-96B5.3,downstream_gene_variant,,ENST00000343087,;"	"G"	"ENSG00000223502"	"ENST00000343087"	"Transcript"	"downstream_gene_variant"	"-/421"	""	""	""	""	""	"1"	"272"	-1	"RP11-96B5.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c187be7c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"10473"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	55260894	55260894	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"51"	27	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c18819a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"10474"	"PCDH15"	65217	"mskcc.org"	"GRCh37"	"10"	56278288	56278288	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.157+9284C>T"	""	""	"ENST00000361849"	""	83	"69"	14	64	"64"	0	"PCDH15,intron_variant,,ENST00000373965,NM_001142772.1,NM_001142771.1;PCDH15,intron_variant,,ENST00000414778,;PCDH15,intron_variant,,ENST00000361849,NM_001142768.1,NM_001142765.1,NM_001142764.1,NM_001142763.1;PCDH15,intron_variant,,ENST00000395432,NM_001142767.1;PCDH15,intron_variant,,ENST00000395433,NM_001142773.1;PCDH15,intron_variant,,ENST00000320301,NM_033056.3;PCDH15,intron_variant,,ENST00000395430,NM_001142766.1;PCDH15,intron_variant,,ENST00000437009,;PCDH15,intron_variant,,ENST00000395438,NM_001142770.1;PCDH15,intron_variant,,ENST00000395445,NM_001142769.1;PCDH15,intron_variant,,ENST00000409834,;PCDH15,intron_variant,,ENST00000373955,;PCDH15,intron_variant,,ENST00000373957,;PCDH15,intron_variant,,ENST00000395446,;PCDH15,intron_variant,,ENST00000395440,;PCDH15,intron_variant,,ENST00000395442,;PCDH15,intron_variant,,ENST00000458638,;RP11-257I14.1,intron_variant,,ENST00000422842,;PCDH15,intron_variant,,ENST00000495484,;PCDH15,intron_variant,,ENST00000448885,;PCDH15,intron_variant,,ENST00000373956,;PCDH15,intron_variant,,ENST00000414367,;"	"A"	"ENSG00000150275"	"ENST00000361849"	"Transcript"	"intron_variant"	"-/6957"	"-/5874"	"-/1957"	""	""	""	"1"	NA	-1	"PCDH15"	"HGNC"	14674	"protein_coding"	"YES"	"CCDS44404.1"	"ENSP00000354950"	""	"A2A3E7,A2A3D9"	"UPI0000EE048B"	"NM_001142768.1,NM_001142765.1,NM_001142764.1,NM_001142763.1"	""	""	""	"3/33"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"c1884c52-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168674698795181	"WGS"	FALSE
"10475"	"PCDH15"	65217	"mskcc.org"	"GRCh37"	"10"	56699017	56699017	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-79-41757C>A"	""	""	"ENST00000373957"	""	65	"49"	16	35	"34"	1	"PCDH15,intron_variant,,ENST00000373957,;PCDH15,intron_variant,,ENST00000458638,;"	"T"	"ENSG00000150275"	"ENST00000373957"	"Transcript"	"intron_variant"	"-/3471"	"-/2430"	"-/809"	""	""	""	"1"	NA	-1	"PCDH15"	"HGNC"	14674	"protein_coding"	""	""	"ENSP00000363068"	""	"A2A3D8"	"UPI00002288B6"	""	""	""	""	"3/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"c1885fc6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246153846153846	"WGS"	FALSE
"10476"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	58644015	58644015	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"66"	8	64	"64"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c188b9da-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"10477"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	60884836	60884836	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"59"	19	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c1891c2c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.243589743589744	"WGS"	FALSE
"10478"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	61176443	61176443	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"84"	18	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c18923f2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"10479"	"C10orf107"	219621	"mskcc.org"	"GRCh37"	"10"	63437665	63437665	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-100-3236C>A"	""	""	"ENST00000330194"	""	85	"63"	22	42	"42"	0	"C10orf107,intron_variant,,ENST00000330194,NM_173554.2;C10orf107,intron_variant,,ENST00000389639,;"	"A"	"ENSG00000183346"	"ENST00000330194"	"Transcript"	"intron_variant"	"-/1685"	"-/627"	"-/208"	""	""	""	"1"	NA	1	"C10orf107"	"HGNC"	28678	"protein_coding"	"YES"	"CCDS7262.1"	"ENSP00000328698"	"Q8IVU9"	""	"UPI00000745BC"	"NM_173554.2"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c18992d8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258823529411765	"WGS"	FALSE
"10480"	"EGR2"	1959	"mskcc.org"	"GRCh37"	"10"	64667028	64667028	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.291-5548G>A"	""	""	"ENST00000493899"	""	98	"91"	7	65	"65"	0	"EGR2,intron_variant,,ENST00000493899,;"	"T"	"ENSG00000122877"	"ENST00000493899"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/686"	""	""	""	""	""	"1"	NA	-1	"EGR2"	"HGNC"	3239	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"c189c442-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"10481"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	64820858	64820858	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"100"	8	59	"59"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c189cf00-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"10482"	"RP11-144G16.1"	0	"mskcc.org"	"GRCh37"	"10"	64882681	64882681	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000433019"	""	83	"59"	24	53	"53"	0	"RP11-144G16.1,downstream_gene_variant,,ENST00000433019,;"	"A"	"ENSG00000224301"	"ENST00000433019"	"Transcript"	"downstream_gene_variant"	"-/505"	""	""	""	""	""	"1"	"1017"	-1	"RP11-144G16.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c189d432-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289156626506024	"WGS"	FALSE
"10483"	"HERC4"	26091	"mskcc.org"	"GRCh37"	"10"	69771145	69771145	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1069+2638T>C"	""	""	"ENST00000395198"	""	108	"95"	13	60	"60"	0	"HERC4,intron_variant,,ENST00000395198,NM_022079.2;HERC4,intron_variant,,ENST00000277817,;HERC4,intron_variant,,ENST00000412272,NM_001278185.1;HERC4,intron_variant,,ENST00000373700,NM_015601.3,NM_001278186.1;HERC4,intron_variant,,ENST00000395187,;RN7SL220P,upstream_gene_variant,,ENST00000581978,;HERC4,intron_variant,,ENST00000427635,;HERC4,intron_variant,,ENST00000473533,;POU5F1P5,upstream_gene_variant,,ENST00000445059,;"	"G"	"ENSG00000148634"	"ENST00000395198"	"Transcript"	"intron_variant"	"-/4445"	"-/3174"	"-/1057"	""	""	""	"1"	NA	-1	"HERC4"	"HGNC"	24521	"protein_coding"	"YES"	"CCDS41533.1"	"ENSP00000378624"	"Q5GLZ8"	"D6RFK9"	"UPI00004C6F56"	"NM_022079.2"	""	""	""	"9/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c18abd0c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12037037037037	"WGS"	FALSE
"10484"	"DNA2"	1763	"mskcc.org"	"GRCh37"	"10"	70186520	70186520	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2466+3673G>A"	""	""	"ENST00000399180"	""	81	"73"	8	47	"47"	0	"DNA2,intron_variant,,ENST00000399180,;DNA2,intron_variant,,ENST00000358410,NM_001080449.2;DNA2,intron_variant,,ENST00000399179,;DNA2,intron_variant,,ENST00000551118,;DNA2,intron_variant,,ENST00000440722,;RP11-9E13.4,downstream_gene_variant,,ENST00000415623,;"	"T"	"ENSG00000138346"	"ENST00000399180"	"Transcript"	"intron_variant"	"-/4416"	"-/3441"	"-/1146"	""	""	""	"1"	NA	-1	"DNA2"	"HGNC"	2939	"protein_coding"	"YES"	""	"ENSP00000382133"	""	"J3KPX5"	"UPI00001D80EF"	""	""	""	""	"14/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"c18ae67e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0987654320987654	"WGS"	FALSE
"10485"	"DDX50"	79009	"mskcc.org"	"GRCh37"	"10"	70688819	70688819	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1240-5136G>C"	""	""	"ENST00000373585"	""	85	"79"	6	51	"51"	0	"DDX50,intron_variant,,ENST00000373585,NM_024045.1;DDX50,intron_variant,,ENST00000466265,;DDX50,intron_variant,,ENST00000460470,;"	"C"	"ENSG00000107625"	"ENST00000373585"	"Transcript"	"intron_variant"	"-/2538"	"-/2214"	"-/737"	""	""	""	"1"	NA	1	"DDX50"	"HGNC"	17906	"protein_coding"	"YES"	"CCDS7283.1"	"ENSP00000362687"	"Q9BQ39"	"Q9NTA9,B4DED6"	"UPI000006FBBF"	"NM_024045.1"	""	""	""	"8/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c18b326e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0705882352941176	"WGS"	FALSE
"10486"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	71403526	71403526	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"75"	26	62	"62"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c18b78fa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257425742574257	"WGS"	FALSE
"10487"	"LRRC20"	55222	"mskcc.org"	"GRCh37"	"10"	72091721	72091721	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.233-7935G>T"	""	""	"ENST00000355790"	""	118	"79"	39	64	"63"	1	"LRRC20,intron_variant,,ENST00000355790,NM_207119.2,NM_001278214.1,NM_001278212.1;LRRC20,intron_variant,,ENST00000373224,NM_001278211.1,NM_001278214.1,NM_001278212.1;LRRC20,intron_variant,,ENST00000395011,NM_001278213.1;LRRC20,intron_variant,,ENST00000395010,;LRRC20,intron_variant,,ENST00000358141,NM_018239.3;LRRC20,intron_variant,,ENST00000357631,NM_018205.3;LRRC20,intron_variant,,ENST00000446961,;"	"A"	"ENSG00000172731"	"ENST00000355790"	"Transcript"	"intron_variant"	"-/3414"	"-/555"	"-/184"	""	""	""	"1"	NA	-1	"LRRC20"	"HGNC"	23421	"protein_coding"	"YES"	"CCDS7302.1"	"ENSP00000348043"	"Q8TCA0"	""	"UPI000004C613"	"NM_207119.2,NM_001278214.1,NM_001278212.1"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c18b9de4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330508474576271	"WGS"	FALSE
"10488"	"PRF1"	5551	"mskcc.org"	"GRCh37"	"10"	72354626	72354626	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000441259"	""	83	"77"	6	46	"46"	0	"PRF1,downstream_gene_variant,,ENST00000441259,NM_005041.4,NM_001083116.1;PRF1,downstream_gene_variant,,ENST00000373209,;"	"T"	"ENSG00000180644"	"ENST00000441259"	"Transcript"	"downstream_gene_variant"	"-/2533"	"-/1668"	"-/555"	""	""	""	"1"	"2479"	-1	"PRF1"	"HGNC"	9360	"protein_coding"	"YES"	"CCDS7305.1"	"ENSP00000398568"	"P14222"	"S5S2F2,S5RDP5"	"UPI000013162B"	"NM_005041.4,NM_001083116.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"c18bb2a2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	TRUE
"10489"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	73660094	73660094	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"75"	29	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c18c432a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278846153846154	"WGS"	FALSE
"10490"	"MICU1"	10367	"mskcc.org"	"GRCh37"	"10"	74159596	74159596	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1180+8091C>T"	""	""	"ENST00000361114"	""	103	"94"	9	35	"35"	0	"MICU1,intron_variant,,ENST00000398761,;MICU1,intron_variant,,ENST00000361114,NM_001195518.1,NM_006077.3;MICU1,intron_variant,,ENST00000401998,;MICU1,intron_variant,,ENST00000398763,;MICU1,intron_variant,,ENST00000418483,NM_001195519.1;MICU1,intron_variant,,ENST00000476605,;"	"A"	"ENSG00000107745"	"ENST00000361114"	"Transcript"	"intron_variant"	"-/2383"	"-/1431"	"-/476"	""	""	""	"1"	NA	-1	"MICU1"	"HGNC"	1530	"protein_coding"	"YES"	"CCDS55715.1"	"ENSP00000354415"	"Q9BPX6"	""	"UPI0000035D9A"	"NM_001195518.1,NM_006077.3"	""	""	""	"10/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"c18c7cdc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087378640776699	"WGS"	FALSE
"10491"	"C10orf11"	83938	"mskcc.org"	"GRCh37"	"10"	77720436	77720436	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.48-75330A>G"	""	""	"ENST00000372499"	""	92	"67"	25	55	"55"	0	"C10orf11,intron_variant,,ENST00000372499,NM_032024.3;C10orf11,intron_variant,,ENST00000593699,;C10orf11,intron_variant,,ENST00000593817,;"	"G"	"ENSG00000148655"	"ENST00000372499"	"Transcript"	"intron_variant"	"-/899"	"-/597"	"-/198"	""	""	""	"1"	NA	1	"C10orf11"	"HGNC"	23405	"protein_coding"	"YES"	"CCDS7351.1"	"ENSP00000361577"	"Q9H2I8"	""	"UPI000006D28F"	"NM_032024.3"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"c18d97ac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"10492"	"KCNMA1"	3778	"mskcc.org"	"GRCh37"	"10"	78873896	78873896	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs181608951"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.885-1696G>A"	""	""	"ENST00000404857"	""	74	"54"	20	65	"65"	0	"KCNMA1,intron_variant,,ENST00000604624,NM_001271518.1,NM_001014797.2;KCNMA1,intron_variant,,ENST00000286627,NM_002247.3,NM_001271519.1;KCNMA1,intron_variant,,ENST00000286628,NM_001161352.1;KCNMA1,intron_variant,,ENST00000372443,;KCNMA1,intron_variant,,ENST00000372440,;KCNMA1,intron_variant,,ENST00000404771,;KCNMA1,intron_variant,,ENST00000457953,;KCNMA1,intron_variant,,ENST00000372437,;KCNMA1,intron_variant,,ENST00000372421,;KCNMA1,intron_variant,,ENST00000406533,;KCNMA1,intron_variant,,ENST00000354353,;KCNMA1,intron_variant,,ENST00000404857,NM_001161353.1;KCNMA1,intron_variant,,ENST00000372408,;KCNMA1,intron_variant,,ENST00000372403,;KCNMA1,upstream_gene_variant,,ENST00000434208,;"	"T"	"ENSG00000156113"	"ENST00000404857"	"Transcript"	"intron_variant"	"-/3660"	"-/3660"	"-/1219"	""	""	"rs181608951"	"1"	NA	-1	"KCNMA1"	"HGNC"	6284	"protein_coding"	"YES"	"CCDS53545.1"	"ENSP00000385806"	"Q12791"	""	"UPI00003519E8"	"NM_001161353.1"	""	""	""	"6/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"c18dba3e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27027027027027	"WGS"	FALSE
"10493"	"LINC00856"	100132987	"mskcc.org"	"GRCh37"	"10"	80229311	80229311	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs560660675"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.157-55776C>T"	""	""	"ENST00000510550"	""	105	"96"	9	44	"44"	0	"LINC00856,intron_variant,,ENST00000510550,;"	"T"	"ENSG00000230417"	"ENST00000510550"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/595"	""	""	""	""	"rs560660675"	"1"	NA	1	"LINC00856"	"HGNC"	45111	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/3"	""	"T:0.0016"	"T:0.0053"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c18e0278-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"10494"	"TMEM254-AS1"	219347	"mskcc.org"	"GRCh37"	"10"	81820066	81820066	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.313+480G>A"	""	""	"ENST00000412298"	""	110	"100"	10	49	"49"	0	"TMEM254-AS1,intron_variant,,ENST00000412298,;TMEM254-AS1,intron_variant,,ENST00000432070,;TMEM254-AS1,intron_variant,,ENST00000448729,;"	"T"	"ENSG00000230091"	"ENST00000412298"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3121"	""	""	""	""	""	"1"	NA	-1	"TMEM254-AS1"	"HGNC"	27340	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c18ea11a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"10495"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	82708946	82708946	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"58"	27	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c18edce8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317647058823529	"WGS"	FALSE
"10496"	"NRG3"	10718	"mskcc.org"	"GRCh37"	"10"	84022682	84022682	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.824-95813C>A"	""	""	"ENST00000372141"	""	102	"87"	15	70	"70"	0	"NRG3,intron_variant,,ENST00000372142,NM_001165973.1;NRG3,intron_variant,,ENST00000404547,;NRG3,intron_variant,,ENST00000372141,NM_001165972.1,NM_001010848.3;NRG3,intron_variant,,ENST00000556918,;NRG3,intron_variant,,ENST00000404576,;NRG3,intron_variant,,ENST00000602794,;NRG3,intron_variant,,ENST00000555784,;"	"A"	"ENSG00000185737"	"ENST00000372141"	"Transcript"	"intron_variant"	"-/2158"	"-/2091"	"-/696"	""	""	""	"1"	NA	1	"NRG3"	"HGNC"	7999	"protein_coding"	"YES"	"CCDS31233.1"	"ENSP00000361214"	"P56975"	"D9ZHQ8"	"UPI00003D64C0"	"NM_001165972.1,NM_001010848.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c18ef890-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"10497"	"NRG3"	10718	"mskcc.org"	"GRCh37"	"10"	84659658	84659658	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1054+34465T>G"	""	""	"ENST00000372141"	""	96	"81"	15	67	"67"	0	"NRG3,intron_variant,,ENST00000372142,NM_001165973.1;NRG3,intron_variant,,ENST00000404547,;NRG3,intron_variant,,ENST00000372141,NM_001165972.1,NM_001010848.3;NRG3,intron_variant,,ENST00000556918,;NRG3,intron_variant,,ENST00000404576,;NRG3,intron_variant,,ENST00000545131,;NRG3,intron_variant,,ENST00000537893,;NRG3,intron_variant,,ENST00000602794,;NRG3,intron_variant,,ENST00000555784,;"	"G"	"ENSG00000185737"	"ENST00000372141"	"Transcript"	"intron_variant"	"-/2158"	"-/2091"	"-/696"	""	""	""	"1"	NA	1	"NRG3"	"HGNC"	7999	"protein_coding"	"YES"	"CCDS31233.1"	"ENSP00000361214"	"P56975"	"D9ZHQ8"	"UPI00003D64C0"	"NM_001165972.1,NM_001010848.3"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c18f129e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WGS"	FALSE
"10498"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	84778541	84778541	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"76"	34	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c18f1532-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309090909090909	"WGS"	FALSE
"10499"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	85049568	85049568	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"62"	22	71	"71"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c18f2388-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261904761904762	"WGS"	FALSE
"10500"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	85346890	85346890	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"64"	23	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c18f3300-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264367816091954	"WGS"	FALSE
"10501"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	86287586	86287586	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"62"	36	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c18f543e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36734693877551	"WGS"	FALSE
"10502"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	86414490	86414490	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"49"	19	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"c18f5e98-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279411764705882	"WGS"	FALSE
"10503"	"GRID1"	2894	"mskcc.org"	"GRCh37"	"10"	87788874	87788874	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.726+109702G>A"	""	""	"ENST00000327946"	""	79	"71"	8	57	"57"	0	"GRID1,intron_variant,,ENST00000327946,NM_017551.2;GRID1,intron_variant,,ENST00000464741,;"	"T"	"ENSG00000182771"	"ENST00000327946"	"Transcript"	"intron_variant"	"-/5834"	"-/3030"	"-/1009"	""	""	""	"1"	NA	-1	"GRID1"	"HGNC"	4575	"protein_coding"	"YES"	"CCDS31236.1"	"ENSP00000330148"	"Q9ULK0"	"B7Z7L0"	"UPI00001D8051"	"NM_017551.2"	""	""	""	"4/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c18f808a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10126582278481	"WGS"	FALSE
"10504"	"GRID1"	2894	"mskcc.org"	"GRCh37"	"10"	88110515	88110515	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.235+13183G>A"	""	""	"ENST00000327946"	""	102	"72"	30	46	"45"	1	"GRID1,intron_variant,,ENST00000327946,NM_017551.2;GRID1,intron_variant,,ENST00000464741,;"	"T"	"ENSG00000182771"	"ENST00000327946"	"Transcript"	"intron_variant"	"-/5834"	"-/3030"	"-/1009"	""	""	""	"1"	NA	-1	"GRID1"	"HGNC"	4575	"protein_coding"	"YES"	"CCDS31236.1"	"ENSP00000330148"	"Q9ULK0"	"B7Z7L0"	"UPI00001D8051"	"NM_017551.2"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c18f8cb0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"10505"	"RNLS"	55328	"mskcc.org"	"GRCh37"	"10"	90239116	90239116	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.526+93544G>C"	""	""	"ENST00000331772"	""	99	"68"	31	57	"57"	0	"RNLS,intron_variant,,ENST00000371947,NM_018363.3;RNLS,intron_variant,,ENST00000331772,NM_001031709.2;RNLS,intron_variant,,ENST00000437752,;RNLS,intron_variant,,ENST00000466945,;RNLS,intron_variant,,ENST00000481793,;"	"G"	"ENSG00000184719"	"ENST00000331772"	"Transcript"	"intron_variant"	"-/1447"	"-/1029"	"-/342"	""	""	""	"1"	NA	-1	"RNLS"	"HGNC"	25641	"protein_coding"	"YES"	"CCDS31239.1"	"ENSP00000332530"	"Q5VYX0"	"G9G138,G9G137"	"UPI00001AFF46"	"NM_001031709.2"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c1906aa4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313131313131313	"WGS"	FALSE
"10506"	"STAMBPL1"	57559	"mskcc.org"	"GRCh37"	"10"	90651791	90651791	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-53-9622G>A"	""	""	"ENST00000371926"	""	89	"60"	29	64	"63"	1	"STAMBPL1,intron_variant,,ENST00000371927,;STAMBPL1,intron_variant,,ENST00000371926,NM_020799.3;STAMBPL1,intron_variant,,ENST00000461650,;"	"A"	"ENSG00000138134"	"ENST00000371926"	"Transcript"	"intron_variant"	"-/2532"	"-/1311"	"-/436"	""	""	""	"1"	NA	1	"STAMBPL1"	"HGNC"	24105	"protein_coding"	"YES"	"CCDS7391.1"	"ENSP00000360994"	"Q96FJ0"	"B3KR00"	"UPI000013FA61"	"NM_020799.3"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c1907dbe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325842696629214	"WGS"	FALSE
"10507"	"HTR7"	3363	"mskcc.org"	"GRCh37"	"10"	92571179	92571179	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.539+45711G>T"	""	""	"ENST00000336152"	""	90	"84"	6	58	"58"	0	"HTR7,intron_variant,,ENST00000371721,;HTR7,intron_variant,,ENST00000336152,NM_019859.3;HTR7,intron_variant,,ENST00000371719,NM_019860.3;HTR7,intron_variant,,ENST00000277874,NM_000872.4;"	"A"	"ENSG00000148680"	"ENST00000336152"	"Transcript"	"intron_variant"	"-/3126"	"-/1440"	"-/479"	""	""	""	"1"	NA	-1	"HTR7"	"HGNC"	5302	"protein_coding"	"YES"	"CCDS7408.1"	"ENSP00000337949"	"P34969"	""	"UPI0000049B68"	"NM_019859.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c190cb16-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"10508"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	93065816	93065816	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"61"	6	37	"37"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"c190e0b0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0895522388059701	"WGS"	FALSE
"10509"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	93434135	93434135	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"79"	27	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c190f032-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254716981132075	"WGS"	FALSE
"10510"	"BTAF1"	9044	"mskcc.org"	"GRCh37"	"10"	93751245	93751245	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2855-631T>C"	""	""	"ENST00000265990"	""	59	"54"	5	37	"37"	0	"BTAF1,intron_variant,,ENST00000265990,NM_003972.2;BTAF1,upstream_gene_variant,,ENST00000544642,;BTAF1,downstream_gene_variant,,ENST00000471217,;"	"C"	"ENSG00000095564"	"ENST00000265990"	"Transcript"	"intron_variant"	"-/7250"	"-/5550"	"-/1849"	""	""	""	"1"	NA	1	"BTAF1"	"HGNC"	17307	"protein_coding"	"YES"	"CCDS7419.1"	"ENSP00000265990"	"O14981"	"Q8N6J1,Q2M1V9,B4E0W6"	"UPI0000136782"	"NM_003972.2"	""	""	""	"20/37"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c1910536-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0847457627118644	"WGS"	FALSE
"10511"	"CPEB3"	22849	"mskcc.org"	"GRCh37"	"10"	93879783	93879783	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1454-8832C>T"	""	""	"ENST00000265997"	""	55	"48"	7	36	"36"	0	"CPEB3,intron_variant,,ENST00000412050,NM_001178137.1;CPEB3,intron_variant,,ENST00000265997,NM_014912.4;SDHCP2,downstream_gene_variant,,ENST00000398565,;"	"A"	"ENSG00000107864"	"ENST00000265997"	"Transcript"	"intron_variant"	"-/4851"	"-/2097"	"-/698"	""	""	""	"1"	NA	-1	"CPEB3"	"HGNC"	21746	"protein_coding"	"YES"	"CCDS31246.1"	"ENSP00000265997"	"Q8NE35"	""	"UPI000013F7DE"	"NM_014912.4"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c19115a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127272727272727	"WGS"	FALSE
"10512"	"SLC35G1"	159371	"mskcc.org"	"GRCh37"	"10"	95706097	95706097	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*254-7669G>A"	""	""	"ENST00000494992"	""	102	"90"	12	52	"52"	0	"SLC35G1,intron_variant,,ENST00000494992,;SLC35G1,intron_variant,,ENST00000605679,;"	"A"	"ENSG00000176273"	"ENST00000494992"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/726"	"-/192"	"-/63"	""	""	""	"1"	NA	1	"SLC35G1"	"HGNC"	26607	"nonsense_mediated_decay"	""	""	"ENSP00000474294"	""	"D3DR41"	"UPI0000D4AAC2"	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c191a518-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"10513"	"PLCE1"	51196	"mskcc.org"	"GRCh37"	"10"	96013417	96013417	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3280-530A>T"	""	""	"ENST00000371380"	""	109	"100"	9	64	"64"	0	"PLCE1,intron_variant,,ENST00000371380,;PLCE1,intron_variant,,ENST00000260766,NM_016341.3;PLCE1,intron_variant,,ENST00000371375,;PLCE1,intron_variant,,ENST00000371385,NM_001165979.1;"	"T"	"ENSG00000138193"	"ENST00000371380"	"Transcript"	"intron_variant"	"-/12024"	"-/6909"	"-/2302"	""	""	""	"1"	NA	1	"PLCE1"	"HGNC"	17175	"protein_coding"	"YES"	"CCDS41552.1"	"ENSP00000360431"	"Q9P212"	"B7ZM61"	"UPI00001F93EE"	""	""	""	""	"8/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"c191b580-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0825688073394495	"WGS"	FALSE
"10514"	"TBC1D12"	23232	"mskcc.org"	"GRCh37"	"10"	96282420	96282420	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2000+210G>C"	""	""	"ENST00000225235"	""	103	"65"	38	43	"42"	1	"TBC1D12,intron_variant,,ENST00000225235,NM_015188.1;TBC1D12,intron_variant,,ENST00000485048,;"	"C"	"ENSG00000108239"	"ENST00000225235"	"Transcript"	"intron_variant"	"-/5272"	"-/2328"	"-/775"	""	""	""	"1"	NA	1	"TBC1D12"	"HGNC"	29082	"protein_coding"	"YES"	"CCDS41553.1"	"ENSP00000225235"	"O60347"	"B9A6L3"	"UPI00001C1ED6"	"NM_015188.1"	""	""	""	"11/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c191c304-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.368932038834951	"WGS"	FALSE
"10515"	"COX15"	1355	"mskcc.org"	"GRCh37"	"10"	101479667	101479667	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.832+1077G>A"	""	""	"ENST00000016171"	""	107	"87"	20	51	"51"	0	"COX15,intron_variant,,ENST00000370483,NM_078470.4,NM_004376.5;COX15,intron_variant,,ENST00000016171,;CUTC,intron_variant,,ENST00000493385,;COX15,upstream_gene_variant,,ENST00000497381,;"	"T"	"ENSG00000014919"	"ENST00000016171"	"Transcript"	"intron_variant"	"-/2356"	"-/1233"	"-/410"	""	""	""	"1"	NA	-1	"COX15"	"HGNC"	2263	"protein_coding"	"YES"	"CCDS7482.1"	"ENSP00000016171"	"Q7KZN9"	"B4DQM2"	"UPI000006E691"	""	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"c19307a0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186915887850467	"WGS"	FALSE
"10516"	"SCD"	6319	"mskcc.org"	"GRCh37"	"10"	102113088	102113088	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.441+835A>C"	""	""	"ENST00000370355"	""	76	"58"	18	60	"59"	1	"SCD,intron_variant,,ENST00000370355,NM_005063.4;"	"C"	"ENSG00000099194"	"ENST00000370355"	"Transcript"	"intron_variant"	"-/5362"	"-/1080"	"-/359"	""	""	""	"1"	NA	1	"SCD"	"HGNC"	10571	"protein_coding"	"YES"	"CCDS7493.1"	"ENSP00000359380"	"O00767"	""	"UPI00001252D2"	"NM_005063.4"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c1934864-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236842105263158	"WGS"	FALSE
"10517"	"SNORD112"	0	"mskcc.org"	"GRCh37"	"10"	103858964	103858964	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000517259"	""	76	"69"	7	50	"50"	0	"SNORD112,upstream_gene_variant,,ENST00000517259,;"	"G"	"ENSG00000253068"	"ENST00000517259"	"Transcript"	"upstream_gene_variant"	"-/71"	""	""	""	""	""	"1"	"3055"	1	"SNORD112"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c193e7ce-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"10518"	"SH3PXD2A"	9644	"mskcc.org"	"GRCh37"	"10"	105440223	105440223	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.428-11813T>G"	""	""	"ENST00000355946"	""	92	"82"	10	40	"40"	0	"SH3PXD2A,intron_variant,,ENST00000369774,;SH3PXD2A,intron_variant,,ENST00000355946,NM_014631.2;SH3PXD2A,intron_variant,,ENST00000420222,;SH3PXD2A,intron_variant,,ENST00000427662,;SH3PXD2A,upstream_gene_variant,,ENST00000540321,;SH3PXD2A,intron_variant,,ENST00000315994,;"	"C"	"ENSG00000107957"	"ENST00000355946"	"Transcript"	"intron_variant"	"-/11245"	"-/3318"	"-/1105"	""	""	""	"1"	NA	-1	"SH3PXD2A"	"HGNC"	23664	"protein_coding"	"YES"	"CCDS31278.1"	"ENSP00000348215"	"Q5TCZ1"	""	"UPI000041B175"	"NM_014631.2"	""	""	""	"6/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c194879c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108695652173913	"WGS"	FALSE
"10519"	"SH3PXD2A"	9644	"mskcc.org"	"GRCh37"	"10"	105440224	105440224	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.428-11814C>T"	""	""	"ENST00000355946"	""	89	"80"	9	41	"41"	0	"SH3PXD2A,intron_variant,,ENST00000369774,;SH3PXD2A,intron_variant,,ENST00000355946,NM_014631.2;SH3PXD2A,intron_variant,,ENST00000420222,;SH3PXD2A,intron_variant,,ENST00000427662,;SH3PXD2A,upstream_gene_variant,,ENST00000540321,;SH3PXD2A,intron_variant,,ENST00000315994,;"	"A"	"ENSG00000107957"	"ENST00000355946"	"Transcript"	"intron_variant"	"-/11245"	"-/3318"	"-/1105"	""	""	""	"1"	NA	-1	"SH3PXD2A"	"HGNC"	23664	"protein_coding"	"YES"	"CCDS31278.1"	"ENSP00000348215"	"Q5TCZ1"	""	"UPI000041B175"	"NM_014631.2"	""	""	""	"6/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c1948878-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101123595505618	"WGS"	FALSE
"10520"	"CCDC147"	159686	"mskcc.org"	"GRCh37"	"10"	106161429	106161429	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2039+768G>T"	""	""	"ENST00000369704"	""	107	"79"	28	52	"52"	0	"CCDC147,intron_variant,,ENST00000369704,NM_001008723.1;snoU13,downstream_gene_variant,,ENST00000458914,;"	"T"	"ENSG00000120051"	"ENST00000369704"	"Transcript"	"intron_variant"	"-/3313"	"-/2619"	"-/872"	""	""	""	"1"	NA	1	"CCDC147"	"HGNC"	26676	"protein_coding"	"YES"	"CCDS31282.1"	"ENSP00000358718"	"Q5T655"	"B4DK97"	"UPI0000160405"	"NM_001008723.1"	""	""	""	"13/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c194b866-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261682242990654	"WGS"	FALSE
"10521"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	107665193	107665193	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"63"	36	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c194f3ee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"10522"	"RP11-298H24.1"	0	"mskcc.org"	"GRCh37"	"10"	107923209	107923209	"+"	"RNA"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.104G>T"	""	""	"ENST00000452286"	"1/4"	82	"55"	27	48	"48"	0	"RP11-298H24.1,non_coding_transcript_exon_variant,,ENST00000452286,;RP11-298H24.1,intron_variant,,ENST00000449761,;"	"T"	"ENSG00000229775"	"ENST00000452286"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"104/665"	""	""	""	""	""	"1"	NA	1	"RP11-298H24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c194fe48-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329268292682927	"WGS"	FALSE
"10523"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	108111521	108111521	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"68"	22	82	"82"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c1950dac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244444444444444	"WGS"	FALSE
"10524"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	108289484	108289484	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"62"	17	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c195164e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215189873417722	"WGS"	FALSE
"10525"	"SORCS1"	114815	"mskcc.org"	"GRCh37"	"10"	108386419	108386419	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2662+2541C>T"	""	""	"ENST00000344440"	""	93	"62"	31	48	"48"	0	"SORCS1,intron_variant,,ENST00000263054,NM_001206570.1,NM_052918.4;SORCS1,intron_variant,,ENST00000344440,NM_001206571.1,NM_001206569.1,NM_001013031.2,NM_001206572.1;SORCS1,intron_variant,,ENST00000369698,;SORCS1,intron_variant,,ENST00000486192,;"	"A"	"ENSG00000108018"	"ENST00000344440"	"Transcript"	"intron_variant"	"-/3612"	"-/3597"	"-/1198"	""	""	""	"1"	NA	-1	"SORCS1"	"HGNC"	16697	"protein_coding"	"YES"	"CCDS31283.1"	"ENSP00000345964"	"Q8WY21"	"B3KVZ0"	"UPI000036671B"	"NM_001206571.1,NM_001206569.1,NM_001013031.2,NM_001206572.1"	""	""	""	"19/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c1951cac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"10526"	"SORCS1"	114815	"mskcc.org"	"GRCh37"	"10"	108641287	108641287	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.627-51856G>C"	""	""	"ENST00000344440"	""	84	"76"	8	53	"53"	0	"SORCS1,intron_variant,,ENST00000263054,NM_001206570.1,NM_052918.4;SORCS1,intron_variant,,ENST00000344440,NM_001206571.1,NM_001206569.1,NM_001013031.2,NM_001206572.1;"	"G"	"ENSG00000108018"	"ENST00000344440"	"Transcript"	"intron_variant"	"-/3612"	"-/3597"	"-/1198"	""	""	""	"1"	NA	-1	"SORCS1"	"HGNC"	16697	"protein_coding"	"YES"	"CCDS31283.1"	"ENSP00000345964"	"Q8WY21"	"B3KVZ0"	"UPI000036671B"	"NM_001206571.1,NM_001206569.1,NM_001013031.2,NM_001206572.1"	""	""	""	"2/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c19529ae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"10527"	"SORCS1"	114815	"mskcc.org"	"GRCh37"	"10"	108647601	108647601	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.627-58170A>G"	""	""	"ENST00000344440"	""	73	"60"	13	66	"66"	0	"SORCS1,intron_variant,,ENST00000263054,NM_001206570.1,NM_052918.4;SORCS1,intron_variant,,ENST00000344440,NM_001206571.1,NM_001206569.1,NM_001013031.2,NM_001206572.1;"	"C"	"ENSG00000108018"	"ENST00000344440"	"Transcript"	"intron_variant"	"-/3612"	"-/3597"	"-/1198"	""	""	""	"1"	NA	-1	"SORCS1"	"HGNC"	16697	"protein_coding"	"YES"	"CCDS31283.1"	"ENSP00000345964"	"Q8WY21"	"B3KVZ0"	"UPI000036671B"	"NM_001206571.1,NM_001206569.1,NM_001013031.2,NM_001206572.1"	""	""	""	"2/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c1952a8a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178082191780822	"WGS"	FALSE
"10528"	"RP11-215N21.1"	0	"mskcc.org"	"GRCh37"	"10"	109604927	109604927	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.456-500G>A"	""	""	"ENST00000594566"	""	97	"87"	10	53	"53"	0	"RP11-215N21.1,intron_variant,,ENST00000594566,;RP11-215N21.1,intron_variant,,ENST00000596263,;RP11-215N21.1,intron_variant,,ENST00000598903,;RP11-215N21.1,intron_variant,,ENST00000593666,;"	"T"	"ENSG00000229981"	"ENST00000594566"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/796"	""	""	""	""	""	"1"	NA	-1	"RP11-215N21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c1954f60-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103092783505155	"WGS"	FALSE
"10529"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	109927949	109927949	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"69"	5	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"c1955cbc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0675675675675676	"WGS"	FALSE
"10530"	"RPL7P35"	0	"mskcc.org"	"GRCh37"	"10"	112314346	112314346	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000446943"	""	70	"50"	20	37	"37"	0	"RPL7P35,upstream_gene_variant,,ENST00000446943,;"	"G"	"ENSG00000233518"	"ENST00000446943"	"Transcript"	"upstream_gene_variant"	"-/740"	""	""	""	""	""	"1"	"3734"	-1	"RPL7P35"	"HGNC"	36153	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c195c0e4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"10531"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	112873757	112873757	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"57"	20	67	"67"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c195d73c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25974025974026	"WGS"	FALSE
"10532"	"ACSL5"	51703	"mskcc.org"	"GRCh37"	"10"	114129951	114129951	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000354655"	""	99	"91"	8	37	"37"	0	"ACSL5,upstream_gene_variant,,ENST00000354655,NM_203379.1;"	"T"	"ENSG00000197142"	"ENST00000354655"	"Transcript"	"upstream_gene_variant"	"-/3351"	"-/2052"	"-/683"	""	""	""	"1"	"3825"	1	"ACSL5"	"HGNC"	16526	"protein_coding"	""	"CCDS7573.1"	"ENSP00000346680"	"Q9ULC5"	""	"UPI000012E295"	"NM_203379.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c19612f6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0808080808080808	"WGS"	FALSE
"10533"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	115062840	115062840	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs148664814"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"71"	24	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148664814"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0018"	"T:0.0053"	"T:0.0029"	NA	"T:0"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c1965af4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"10534"	"TAF9BP2"	0	"mskcc.org"	"GRCh37"	"10"	116573487	116573487	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000400856"	""	87	"76"	11	47	"47"	0	"TAF9BP2,downstream_gene_variant,,ENST00000400856,;"	"A"	"ENSG00000215760"	"ENST00000400856"	"Transcript"	"downstream_gene_variant"	"-/499"	""	""	""	""	""	"1"	"2558"	1	"TAF9BP2"	"HGNC"	38836	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c196b62a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126436781609195	"WGS"	FALSE
"10535"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	116775203	116775203	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"75"	28	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c196c7be-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271844660194175	"WGS"	FALSE
"10536"	"ATRNL1"	26033	"mskcc.org"	"GRCh37"	"10"	117413477	117413477	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs547946219"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3796-73281C>T"	""	""	"ENST00000355044"	""	73	"55"	18	63	"63"	0	"ATRNL1,intron_variant,,ENST00000355044,NM_207303.2;ATRNL1,intron_variant,,ENST00000423111,;ATRNL1,intron_variant,,ENST00000303745,;"	"T"	"ENSG00000107518"	"ENST00000355044"	"Transcript"	"intron_variant"	"-/8479"	"-/4140"	"-/1379"	""	""	"rs547946219"	"1"	NA	1	"ATRNL1"	"HGNC"	29063	"protein_coding"	"YES"	"CCDS7592.1"	"ENSP00000347152"	"Q5VV63"	""	"UPI000021CCF8"	"NM_207303.2"	""	""	""	"26/28"	""	"T:0.0012"	"T:0.0045"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c196ebf4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246575342465753	"WGS"	FALSE
"10537"	"KIAA1598"	57698	"mskcc.org"	"GRCh37"	"10"	118645249	118645249	"+"	"3'UTR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*606A>G"	""	""	"ENST00000355371"	"17/17"	105	"70"	35	60	"60"	0	"KIAA1598,3_prime_UTR_variant,,ENST00000355371,NM_001258299.1,NM_001127211.2,NM_001258298.1;KIAA1598,3_prime_UTR_variant,,ENST00000260777,NM_018330.6;KIAA1598,intron_variant,,ENST00000392903,;ENO4,intron_variant,,ENST00000369207,;ENO4,downstream_gene_variant,,ENST00000341276,NM_001242699.1;ENO4,downstream_gene_variant,,ENST00000409522,;KIAA1598,non_coding_transcript_exon_variant,,ENST00000497044,;"	"C"	"ENSG00000187164"	"ENST00000355371"	"Transcript"	"3_prime_UTR_variant"	"3000/3941"	"-/1896"	"-/631"	""	""	""	"1"	NA	-1	"KIAA1598"	"HGNC"	29319	"protein_coding"	"YES"	"CCDS44482.1"	"ENSP00000347532"	"A0MZ66"	""	"UPI0000404A8F"	"NM_001258299.1,NM_001127211.2,NM_001258298.1"	""	""	"17/17"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c197171e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	TRUE
"10538"	"KIAA1598"	57698	"mskcc.org"	"GRCh37"	"10"	118844369	118844369	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs553043405"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-188-36348C>T"	""	""	"ENST00000392901"	""	88	"63"	25	48	"48"	0	"KIAA1598,intron_variant,,ENST00000392901,NM_001258300.1;"	"A"	"ENSG00000187164"	"ENST00000392901"	"Transcript"	"intron_variant"	"-/2190"	"-/1497"	"-/498"	""	""	"rs553043405"	"1"	NA	-1	"KIAA1598"	"HGNC"	29319	"protein_coding"	""	"CCDS58097.1"	"ENSP00000376635"	"A0MZ66"	""	"UPI000041B1D0"	"NM_001258300.1"	""	""	""	"1/17"	""	"A:0.0016"	"A:0.003"	"A:0"	NA	"A:0.001"	"A:0.003"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c1971e12-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284090909090909	"WGS"	TRUE
"10539"	"RP11-245J24.1"	0	"mskcc.org"	"GRCh37"	"10"	120011720	120011720	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs774656551"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.263+4365C>T"	""	""	"ENST00000436430"	""	105	"98"	7	61	"61"	0	"RP11-245J24.1,intron_variant,,ENST00000436430,;RP11-245J24.1,downstream_gene_variant,,ENST00000431695,;RP11-245J24.1,downstream_gene_variant,,ENST00000436975,;"	"T"	"ENSG00000238276"	"ENST00000436430"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/556"	""	""	""	""	"rs774656551"	"1"	NA	1	"RP11-245J24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c1977682-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"10540"	"GRK5"	2869	"mskcc.org"	"GRCh37"	"10"	121060546	121060546	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.53-25482G>T"	""	""	"ENST00000392870"	""	85	"53"	32	52	"52"	0	"GRK5,intron_variant,,ENST00000392870,NM_005308.2;"	"T"	"ENSG00000198873"	"ENST00000392870"	"Transcript"	"intron_variant"	"-/2654"	"-/1773"	"-/590"	""	""	""	"1"	NA	1	"GRK5"	"HGNC"	4544	"protein_coding"	"YES"	"CCDS7612.1"	"ENSP00000376609"	"P34947"	"Q24JT8,G8JLE8"	"UPI0000049BF9"	"NM_005308.2"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c197d82a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.376470588235294	"WGS"	FALSE
"10541"	"RGS10"	6001	"mskcc.org"	"GRCh37"	"10"	121282037	121282037	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.255+3507G>C"	""	""	"ENST00000369103"	""	90	"84"	6	59	"59"	0	"RGS10,intron_variant,,ENST00000392865,NM_002925.3;RGS10,intron_variant,,ENST00000369103,NM_001005339.1;RGS10,intron_variant,,ENST00000369101,;RGS10,intron_variant,,ENST00000469575,;"	"G"	"ENSG00000148908"	"ENST00000369103"	"Transcript"	"intron_variant"	"-/804"	"-/546"	"-/181"	""	""	""	"1"	NA	-1	"RGS10"	"HGNC"	9992	"protein_coding"	"YES"	"CCDS31294.1"	"ENSP00000358099"	"O43665"	""	"UPI0000038DD4"	"NM_001005339.1"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c197f602-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"10542"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	121363272	121363272	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"42"	7	33	"33"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c1980f0c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"10543"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	121478022	121478022	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"69"	22	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c1982384-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241758241758242	"WGS"	FALSE
"10544"	"WDR11-AS1"	283089	"mskcc.org"	"GRCh37"	"10"	122599810	122599810	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs544625191"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.104-9955G>A"	""	""	"ENST00000598981"	""	102	"78"	24	48	"48"	0	"WDR11-AS1,intron_variant,,ENST00000598981,;"	"T"	"ENSG00000227165"	"ENST00000598981"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2242"	""	""	""	""	"rs544625191"	"1"	NA	-1	"WDR11-AS1"	"HGNC"	27437	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c19853cc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"10545"	"FGFR2"	2263	"mskcc.org"	"GRCh37"	"10"	123330851	123330851	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.110-5633G>C"	""	""	"ENST00000358487"	""	46	"42"	4	24	"24"	0	"FGFR2,intron_variant,,ENST00000358487,NM_000141.4;FGFR2,intron_variant,,ENST00000369061,NM_001144914.1;FGFR2,intron_variant,,ENST00000357555,NM_023029.2,NM_001144915.1;FGFR2,intron_variant,,ENST00000356226,NM_001144918.1,NM_001144916.1;FGFR2,intron_variant,,ENST00000369060,NM_001144917.1;FGFR2,intron_variant,,ENST00000457416,NM_022970.3;FGFR2,intron_variant,,ENST00000351936,;FGFR2,intron_variant,,ENST00000369059,;FGFR2,intron_variant,,ENST00000360144,NM_001144919.1;FGFR2,intron_variant,,ENST00000369058,;FGFR2,intron_variant,,ENST00000369056,NM_001144913.1;FGFR2,intron_variant,,ENST00000336553,;FGFR2,intron_variant,,ENST00000346997,;FGFR2,intron_variant,,ENST00000359354,;FGFR2,intron_variant,,ENST00000490349,;FGFR2,intron_variant,,ENST00000604236,;"	"G"	"ENSG00000066468"	"ENST00000358487"	"Transcript"	"intron_variant"	"-/4255"	"-/2466"	"-/821"	""	""	""	"1"	NA	-1	"FGFR2"	"HGNC"	3689	"protein_coding"	""	"CCDS31298.1"	"ENSP00000351276"	"P21802"	"Q9UMA9,Q9UEH2,D3DRD6"	"UPI000012A72A"	"NM_000141.4"	""	""	""	"2/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"c1988360-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	TRUE
"10546"	"TACC2"	10579	"mskcc.org"	"GRCh37"	"10"	123929407	123929407	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5835-25148G>A"	""	""	"ENST00000369005"	""	72	"65"	7	38	"38"	0	"TACC2,intron_variant,,ENST00000369005,NM_206862.2;TACC2,intron_variant,,ENST00000334433,;TACC2,intron_variant,,ENST00000515273,;TACC2,intron_variant,,ENST00000515603,;TACC2,intron_variant,,ENST00000453444,;TACC2,intron_variant,,ENST00000513429,NM_206861.1;TACC2,intron_variant,,ENST00000360561,NM_206860.1;TACC2,intron_variant,,ENST00000368999,;TACC2,intron_variant,,ENST00000358010,;TACC2,intron_variant,,ENST00000369000,;TACC2,intron_variant,,ENST00000369001,;TACC2,intron_variant,,ENST00000369004,;TACC2,intron_variant,,ENST00000260733,NM_006997.2;TACC2,intron_variant,,ENST00000493951,;TACC2,intron_variant,,ENST00000492237,;"	"A"	"ENSG00000138162"	"ENST00000369005"	"Transcript"	"intron_variant"	"-/9673"	"-/8847"	"-/2948"	""	""	""	"1"	NA	1	"TACC2"	"HGNC"	11523	"protein_coding"	"YES"	"CCDS7626.1"	"ENSP00000358001"	"O95359"	""	"UPI0000246F6B"	"NM_206862.2"	""	""	""	"7/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c198c0b4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"10547"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	126960264	126960264	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"69"	22	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c199b33e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241758241758242	"WGS"	FALSE
"10548"	"EDRF1"	26098	"mskcc.org"	"GRCh37"	"10"	127424344	127424344	"+"	"Silent"	"SNP"	"C"	"T"	"T"	""	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1629C>T"	"p.="	"p.P543P"	"ENST00000356792"	"13/25"	98	"69"	29	55	"55"	0	"EDRF1,synonymous_variant,p.=,ENST00000337623,NM_015608.2;EDRF1,synonymous_variant,p.=,ENST00000356792,NM_001202438.1;EDRF1,upstream_gene_variant,,ENST00000368813,;EDRF1,synonymous_variant,p.=,ENST00000419769,;EDRF1,synonymous_variant,p.=,ENST00000368815,;EDRF1,3_prime_UTR_variant,,ENST00000481600,;EDRF1,non_coding_transcript_exon_variant,,ENST00000525091,;EDRF1,downstream_gene_variant,,ENST00000530795,;"	"T"	"ENSG00000107938"	"ENST00000356792"	"Transcript"	"synonymous_variant"	"1861/4128"	"1629/3717"	"543/1238"	"P"	"ccC/ccT"	"COSM1346620"	"1"	NA	1	"EDRF1"	"HGNC"	24640	"protein_coding"	"YES"	"CCDS55733.1"	"ENSP00000349244"	"Q3B7T1"	""	"UPI00005CA2E3"	"NM_001202438.1"	""	""	"13/25"	""	"Low_complexity_(Seg):seg,hmmpanther:PTHR15000:SF1,hmmpanther:PTHR15000"	""	""	""	NA	""	""	""	""	""	""	"1"	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	"1"	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c199c69e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295918367346939	"WGS"	FALSE
"10549"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	132359987	132359987	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs372381700"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"81"	10	40	"40"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs372381700"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c19b5a4a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10989010989011	"WGS"	FALSE
"10550"	"DEAF1"	10522	"mskcc.org"	"GRCh37"	"11"	678163	678163	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1255+531A>G"	""	""	"ENST00000382409"	""	76	"69"	7	32	"32"	0	"DEAF1,intron_variant,,ENST00000382409,NM_021008.2;DEAF1,intron_variant,,ENST00000338675,;RP11-754B17.1,intron_variant,,ENST00000527799,;DEAF1,intron_variant,,ENST00000525904,;DEAF1,intron_variant,,ENST00000530813,;DEAF1,intron_variant,,ENST00000527170,;DEAF1,intron_variant,,ENST00000526790,;"	"C"	"ENSG00000177030"	"ENST00000382409"	"Transcript"	"intron_variant"	"-/2500"	"-/1698"	"-/565"	""	""	""	"1"	NA	-1	"DEAF1"	"HGNC"	14677	"protein_coding"	"YES"	"CCDS31327.1"	"ENSP00000371846"	"O75398"	""	"UPI00001290E6"	"NM_021008.2"	""	""	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"c1a09d98-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"10551"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	2078858	2078858	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"71"	6	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c1a232de-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"10552"	"KCNQ1"	3784	"mskcc.org"	"GRCh37"	"11"	2764426	2764426	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1515-25648G>A"	""	""	"ENST00000155840"	""	105	"72"	33	38	"38"	0	"KCNQ1,intron_variant,,ENST00000155840,NM_000218.2,NM_181798.1;KCNQ1,intron_variant,,ENST00000335475,;"	"A"	"ENSG00000053918"	"ENST00000155840"	"Transcript"	"intron_variant"	"-/3245"	"-/2031"	"-/676"	""	""	""	"1"	NA	1	"KCNQ1"	"HGNC"	6294	"protein_coding"	"YES"	"CCDS7736.1"	"ENSP00000155840"	"P51787"	"Q96AI9,A0FIK7"	"UPI000004662D"	"NM_000218.2,NM_181798.1"	""	""	""	"11/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"c1a28356-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314285714285714	"WGS"	FALSE
"10553"	"OSBPL5"	114879	"mskcc.org"	"GRCh37"	"11"	3124952	3124952	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1245-402A>G"	""	""	"ENST00000263650"	""	55	"48"	7	23	"23"	0	"OSBPL5,intron_variant,,ENST00000263650,NM_020896.3;OSBPL5,intron_variant,,ENST00000389989,NM_145638.2,NM_001144063.1;OSBPL5,intron_variant,,ENST00000348039,;OSBPL5,intron_variant,,ENST00000525498,;OSBPL5,intron_variant,,ENST00000542243,;OSBPL5,upstream_gene_variant,,ENST00000534454,;OSBPL5,intron_variant,,ENST00000534491,;OSBPL5,intron_variant,,ENST00000471998,;OSBPL5,downstream_gene_variant,,ENST00000532951,;"	"C"	"ENSG00000021762"	"ENST00000263650"	"Transcript"	"intron_variant"	"-/3889"	"-/2640"	"-/879"	""	""	""	"1"	NA	-1	"OSBPL5"	"HGNC"	16392	"protein_coding"	"YES"	"CCDS31344.1"	"ENSP00000263650"	"Q9H0X9"	"H0YCD7,E9PQB4,E9PPQ2,E9PNH0,E9PLN3,E9PJE6,E9PIJ6"	"UPI000000D722"	"NM_020896.3"	""	""	""	"10/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c1a2a91c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127272727272727	"WGS"	FALSE
"10554"	"OSBPL5"	114879	"mskcc.org"	"GRCh37"	"11"	3124954	3124954	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs533140284"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1245-404G>A"	""	""	"ENST00000263650"	""	55	"48"	7	22	"22"	0	"OSBPL5,intron_variant,,ENST00000263650,NM_020896.3;OSBPL5,intron_variant,,ENST00000389989,NM_145638.2,NM_001144063.1;OSBPL5,intron_variant,,ENST00000348039,;OSBPL5,intron_variant,,ENST00000525498,;OSBPL5,intron_variant,,ENST00000542243,;OSBPL5,upstream_gene_variant,,ENST00000534454,;OSBPL5,intron_variant,,ENST00000534491,;OSBPL5,intron_variant,,ENST00000471998,;OSBPL5,downstream_gene_variant,,ENST00000532951,;"	"T"	"ENSG00000021762"	"ENST00000263650"	"Transcript"	"intron_variant"	"-/3889"	"-/2640"	"-/879"	""	""	"rs533140284"	"1"	NA	-1	"OSBPL5"	"HGNC"	16392	"protein_coding"	"YES"	"CCDS31344.1"	"ENSP00000263650"	"Q9H0X9"	"H0YCD7,E9PQB4,E9PPQ2,E9PNH0,E9PLN3,E9PJE6,E9PIJ6"	"UPI000000D722"	"NM_020896.3"	""	""	""	"10/21"	""	"T:0.0004"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0.001"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c1a2aa02-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127272727272727	"WGS"	FALSE
"10555"	"OSBPL5"	114879	"mskcc.org"	"GRCh37"	"11"	3124956	3124956	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1245-406C>G"	""	""	"ENST00000263650"	""	50	"43"	7	22	"22"	0	"OSBPL5,intron_variant,,ENST00000263650,NM_020896.3;OSBPL5,intron_variant,,ENST00000389989,NM_145638.2,NM_001144063.1;OSBPL5,intron_variant,,ENST00000348039,;OSBPL5,intron_variant,,ENST00000525498,;OSBPL5,intron_variant,,ENST00000542243,;OSBPL5,upstream_gene_variant,,ENST00000534454,;OSBPL5,intron_variant,,ENST00000534491,;OSBPL5,intron_variant,,ENST00000471998,;OSBPL5,downstream_gene_variant,,ENST00000532951,;"	"C"	"ENSG00000021762"	"ENST00000263650"	"Transcript"	"intron_variant"	"-/3889"	"-/2640"	"-/879"	""	""	""	"1"	NA	-1	"OSBPL5"	"HGNC"	16392	"protein_coding"	"YES"	"CCDS31344.1"	"ENSP00000263650"	"Q9H0X9"	"H0YCD7,E9PQB4,E9PPQ2,E9PNH0,E9PLN3,E9PJE6,E9PIJ6"	"UPI000000D722"	"NM_020896.3"	""	""	""	"10/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c1a2aae8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.14	"WGS"	FALSE
"10556"	"OSBPL5"	114879	"mskcc.org"	"GRCh37"	"11"	3124999	3124999	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1244+424G>A"	""	""	"ENST00000263650"	""	44	"37"	7	17	"17"	0	"OSBPL5,intron_variant,,ENST00000263650,NM_020896.3;OSBPL5,intron_variant,,ENST00000389989,NM_145638.2,NM_001144063.1;OSBPL5,intron_variant,,ENST00000348039,;OSBPL5,intron_variant,,ENST00000525498,;OSBPL5,intron_variant,,ENST00000542243,;OSBPL5,upstream_gene_variant,,ENST00000534454,;OSBPL5,intron_variant,,ENST00000534491,;OSBPL5,intron_variant,,ENST00000471998,;OSBPL5,downstream_gene_variant,,ENST00000532951,;"	"T"	"ENSG00000021762"	"ENST00000263650"	"Transcript"	"intron_variant"	"-/3889"	"-/2640"	"-/879"	""	""	""	"1"	NA	-1	"OSBPL5"	"HGNC"	16392	"protein_coding"	"YES"	"CCDS31344.1"	"ENSP00000263650"	"Q9H0X9"	"H0YCD7,E9PQB4,E9PPQ2,E9PNH0,E9PLN3,E9PJE6,E9PIJ6"	"UPI000000D722"	"NM_020896.3"	""	""	""	"10/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c1a2ae4e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.159090909090909	"WGS"	FALSE
"10557"	"OSBPL5"	114879	"mskcc.org"	"GRCh37"	"11"	3125009	3125009	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"rs111992648"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1244+414G>C"	""	""	"ENST00000263650"	""	44	"37"	7	17	"17"	0	"OSBPL5,intron_variant,,ENST00000263650,NM_020896.3;OSBPL5,intron_variant,,ENST00000389989,NM_145638.2,NM_001144063.1;OSBPL5,intron_variant,,ENST00000348039,;OSBPL5,intron_variant,,ENST00000525498,;OSBPL5,intron_variant,,ENST00000542243,;OSBPL5,upstream_gene_variant,,ENST00000534454,;OSBPL5,intron_variant,,ENST00000534491,;OSBPL5,intron_variant,,ENST00000471998,;OSBPL5,downstream_gene_variant,,ENST00000532951,;"	"G"	"ENSG00000021762"	"ENST00000263650"	"Transcript"	"intron_variant"	"-/3889"	"-/2640"	"-/879"	""	""	"rs111992648"	"1"	NA	-1	"OSBPL5"	"HGNC"	16392	"protein_coding"	"YES"	"CCDS31344.1"	"ENSP00000263650"	"Q9H0X9"	"H0YCD7,E9PQB4,E9PPQ2,E9PNH0,E9PLN3,E9PJE6,E9PIJ6"	"UPI000000D722"	"NM_020896.3"	""	""	""	"10/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c1a2af2a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.159090909090909	"WGS"	FALSE
"10558"	"DENND5A"	23258	"mskcc.org"	"GRCh37"	"11"	9267031	9267031	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.109+19477C>T"	""	""	"ENST00000328194"	""	71	"64"	7	36	"36"	0	"DENND5A,intron_variant,,ENST00000328194,NM_015213.3,NM_001243254.1;DENND5A,intron_variant,,ENST00000530044,;RP11-5L12.1,non_coding_transcript_exon_variant,,ENST00000528520,;DENND5A,intron_variant,,ENST00000526707,;DENND5A,intron_variant,,ENST00000530780,;"	"A"	"ENSG00000184014"	"ENST00000328194"	"Transcript"	"intron_variant"	"-/5031"	"-/3864"	"-/1287"	""	""	""	"1"	NA	-1	"DENND5A"	"HGNC"	19344	"protein_coding"	"YES"	"CCDS31423.1"	"ENSP00000328524"	"Q6IQ26"	"B3KWN5"	"UPI00001C1F29"	"NM_015213.3,NM_001243254.1"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c1a4961e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0985915492957746	"WGS"	FALSE
"10559"	"DENND5A"	23258	"mskcc.org"	"GRCh37"	"11"	9284436	9284436	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.109+2072G>C"	""	""	"ENST00000328194"	""	84	"79"	5	39	"39"	0	"DENND5A,intron_variant,,ENST00000328194,NM_015213.3,NM_001243254.1;DENND5A,intron_variant,,ENST00000530044,;DENND5A,intron_variant,,ENST00000526707,;DENND5A,intron_variant,,ENST00000530780,;"	"G"	"ENSG00000184014"	"ENST00000328194"	"Transcript"	"intron_variant"	"-/5031"	"-/3864"	"-/1287"	""	""	""	"1"	NA	-1	"DENND5A"	"HGNC"	19344	"protein_coding"	"YES"	"CCDS31423.1"	"ENSP00000328524"	"Q6IQ26"	"B3KWN5"	"UPI00001C1F29"	"NM_015213.3,NM_001243254.1"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c1a49a6a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0595238095238095	"WGS"	FALSE
"10560"	"CTD-2003C8.2"	0	"mskcc.org"	"GRCh37"	"11"	10911245	10911245	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.192-4574C>A"	""	""	"ENST00000503469"	""	89	"61"	28	50	"50"	0	"CTD-2003C8.2,intron_variant,,ENST00000503469,;ZBED5-AS1,intron_variant,,ENST00000530344,;"	"T"	"ENSG00000250041"	"ENST00000503469"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/431"	""	""	""	""	""	"1"	NA	-1	"CTD-2003C8.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c1a50478-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314606741573034	"WGS"	FALSE
"10561"	"MICAL2"	9645	"mskcc.org"	"GRCh37"	"11"	12157554	12157554	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-152-2383C>T"	""	""	"ENST00000256194"	""	90	"65"	25	54	"54"	0	"MICAL2,intron_variant,,ENST00000256194,NM_014632.2,NM_001282663.1;MICAL2,intron_variant,,ENST00000537344,NM_001282665.1;MICAL2,intron_variant,,ENST00000532179,;MICAL2,intron_variant,,ENST00000526065,;MICAL2,intron_variant,,ENST00000532420,;MICAL2,intron_variant,,ENST00000530823,;MICAL2,upstream_gene_variant,,ENST00000342902,NM_001282664.1;MICAL2,upstream_gene_variant,,ENST00000527546,NM_001282665.1;MICAL2,intron_variant,,ENST00000531732,;"	"T"	"ENSG00000133816"	"ENST00000256194"	"Transcript"	"intron_variant"	"-/3906"	"-/3375"	"-/1124"	""	""	""	"1"	NA	1	"MICAL2"	"HGNC"	24693	"protein_coding"	"YES"	"CCDS7809.1"	"ENSP00000256194"	"O94851"	"E9PRE0,E9PNC3,E9PL42,E9PKI3,E9PJB0"	"UPI000000DA92"	"NM_014632.2,NM_001282663.1"	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c1a559dc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"10562"	"PDE3B"	5140	"mskcc.org"	"GRCh37"	"11"	14896556	14896556	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000282096"	""	68	"42"	26	59	"59"	0	"PDE3B,downstream_gene_variant,,ENST00000282096,NM_000922.3;CYP2R1,downstream_gene_variant,,ENST00000532378,;CYP2R1,downstream_gene_variant,,ENST00000334636,NM_024514.4;CYP2R1,downstream_gene_variant,,ENST00000532805,;CYP2R1,downstream_gene_variant,,ENST00000530609,;CYP2R1,downstream_gene_variant,,ENST00000534686,;CYP2R1,downstream_gene_variant,,ENST00000525015,;"	"A"	"ENSG00000152270"	"ENST00000282096"	"Transcript"	"downstream_gene_variant"	"-/4836"	"-/3339"	"-/1112"	""	""	""	"1"	"4206"	1	"PDE3B"	"HGNC"	8779	"protein_coding"	"YES"	"CCDS7817.1"	"ENSP00000282096"	"Q13370"	""	"UPI000013DCB7"	"NM_000922.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c1a5d25e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.382352941176471	"WGS"	FALSE
"10563"	"C11orf58"	10944	"mskcc.org"	"GRCh37"	"11"	16642631	16642631	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.83+7870A>T"	""	""	"ENST00000527893"	""	87	"59"	28	64	"64"	0	"C11orf58,intron_variant,,ENST00000527893,;SOX6,intron_variant,,ENST00000524520,;SOX6,intron_variant,,ENST00000525259,;SOX6,intron_variant,,ENST00000530378,;"	"T"	"ENSG00000110696"	"ENST00000527893"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/813"	""	""	""	""	""	"1"	NA	1	"C11orf58"	"HGNC"	16990	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c1a60954-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32183908045977	"WGS"	FALSE
"10564"	"SAA1"	6288	"mskcc.org"	"GRCh37"	"11"	18287109	18287109	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"rs139535444"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000405158"	""	111	"80"	31	74	"73"	1	"SAA1,upstream_gene_variant,,ENST00000405158,NM_000331.4;SAA1,upstream_gene_variant,,ENST00000356524,NM_199161.3;SAA1,upstream_gene_variant,,ENST00000532858,NM_001178006.1;RNA5SP334,upstream_gene_variant,,ENST00000364825,;ST13P5,downstream_gene_variant,,ENST00000526214,;ST13P5,downstream_gene_variant,,ENST00000545963,;"	"A"	"ENSG00000173432"	"ENST00000405158"	"Transcript"	"upstream_gene_variant"	"-/675"	"-/369"	"-/122"	""	""	"rs139535444"	"1"	"702"	1	"SAA1"	"HGNC"	10513	"protein_coding"	"YES"	"CCDS7835.1"	"ENSP00000384906"	"P0DJI8"	"E9PQD6"	"UPI000013F119"	"NM_000331.4"	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"c1a66a8e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279279279279279	"WGS"	FALSE
"10565"	"NELL1"	4745	"mskcc.org"	"GRCh37"	"11"	21040292	21040292	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1300+58186G>A"	""	""	"ENST00000357134"	""	89	"61"	28	46	"46"	0	"NELL1,intron_variant,,ENST00000298925,NM_001288713.1;NELL1,intron_variant,,ENST00000357134,NM_201551.1,NM_006157.3;NELL1,intron_variant,,ENST00000325319,NM_001288714.1;NELL1,intron_variant,,ENST00000532434,;NELL1,intron_variant,,ENST00000530672,;"	"A"	"ENSG00000165973"	"ENST00000357134"	"Transcript"	"intron_variant"	"-/3022"	"-/2433"	"-/810"	""	""	""	"1"	NA	1	"NELL1"	"HGNC"	7750	"protein_coding"	"YES"	"CCDS7855.1"	"ENSP00000349654"	"Q92832"	"K9UUD5"	"UPI000013E53D"	"NM_201551.1,NM_006157.3"	""	""	""	"12/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c1a7032c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314606741573034	"WGS"	FALSE
"10566"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	24181142	24181142	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"61"	25	62	"61"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c1a77852-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290697674418605	"WGS"	FALSE
"10567"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	24295891	24295891	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"71"	8	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c1a77be0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10126582278481	"WGS"	FALSE
"10568"	"RP11-115J23.1"	0	"mskcc.org"	"GRCh37"	"11"	28984257	28984257	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.305-75032C>G"	""	""	"ENST00000513853"	""	67	"43"	24	59	"59"	0	"RP11-115J23.1,intron_variant,,ENST00000513853,;RP11-115J23.1,intron_variant,,ENST00000511073,;"	"G"	"ENSG00000249867"	"ENST00000513853"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/806"	""	""	""	""	""	"1"	NA	1	"RP11-115J23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c1a85dd0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358208955223881	"WGS"	FALSE
"10569"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	32537724	32537724	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"61"	36	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c1a8f47a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.371134020618557	"WGS"	FALSE
"10570"	"LDLRAD3"	143458	"mskcc.org"	"GRCh37"	"11"	36102064	36102064	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs753426267"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.194-1139G>A"	""	""	"ENST00000315571"	""	79	"58"	21	45	"45"	0	"LDLRAD3,intron_variant,,ENST00000315571,NM_174902.2;LDLRAD3,intron_variant,,ENST00000524419,;LDLRAD3,intron_variant,,ENST00000528989,;LDLRAD3,intron_variant,,ENST00000532490,;"	"A"	"ENSG00000179241"	"ENST00000315571"	"Transcript"	"intron_variant"	"-/3798"	"-/1038"	"-/345"	""	""	"rs753426267"	"1"	NA	1	"LDLRAD3"	"HGNC"	27046	"protein_coding"	"YES"	"CCDS31462.1"	"ENSP00000318607"	"Q86YD5"	""	"UPI000003B0FB"	"NM_174902.2"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c1a9a01e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265822784810127	"WGS"	FALSE
"10571"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	37109016	37109016	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"83"	9	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c1a9c1e8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0978260869565217	"WGS"	FALSE
"10572"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	37267506	37267506	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"61"	19	57	"56"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c1a9c634-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2375	"WGS"	FALSE
"10573"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	37359653	37359653	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"65"	14	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c1a9cb5c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177215189873418	"WGS"	FALSE
"10574"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	39297589	39297589	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"79"	29	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c1aa1bf2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268518518518519	"WGS"	FALSE
"10575"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	40063045	40063045	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"56"	24	62	"62"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"c1aa543c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"10576"	"LRRC4C"	57689	"mskcc.org"	"GRCh37"	"11"	40367069	40367069	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-189-25798G>T"	""	""	"ENST00000530763"	""	88	"83"	5	57	"57"	0	"LRRC4C,intron_variant,,ENST00000530763,NM_020929.2;LRRC4C,intron_variant,,ENST00000528697,NM_001258419.1;"	"A"	"ENSG00000148948"	"ENST00000530763"	"Transcript"	"intron_variant"	"-/2669"	"-/1923"	"-/640"	""	""	""	"1"	NA	-1	"LRRC4C"	"HGNC"	29317	"protein_coding"	""	"CCDS31464.1"	"ENSP00000434761"	"Q9HCJ2"	"E9PLP4"	"UPI000000D9A7"	"NM_020929.2"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c1aa5e14-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0568181818181818	"WGS"	FALSE
"10577"	"LRRC4C"	57689	"mskcc.org"	"GRCh37"	"11"	40456487	40456487	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-189-115216G>T"	""	""	"ENST00000530763"	""	89	"64"	25	52	"52"	0	"LRRC4C,intron_variant,,ENST00000530763,NM_020929.2;LRRC4C,intron_variant,,ENST00000528697,NM_001258419.1;"	"A"	"ENSG00000148948"	"ENST00000530763"	"Transcript"	"intron_variant"	"-/2669"	"-/1923"	"-/640"	""	""	""	"1"	NA	-1	"LRRC4C"	"HGNC"	29317	"protein_coding"	""	"CCDS31464.1"	"ENSP00000434761"	"Q9HCJ2"	"E9PLP4"	"UPI000000D9A7"	"NM_020929.2"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c1aa6508-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280898876404494	"WGS"	FALSE
"10578"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	42644960	42644960	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"77"	5	60	"60"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c1aaaf9a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0609756097560976	"WGS"	FALSE
"10579"	"NUP160"	23279	"mskcc.org"	"GRCh37"	"11"	47801032	47801032	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4222-286T>A"	""	""	"ENST00000378460"	""	122	"86"	36	57	"57"	0	"NUP160,intron_variant,,ENST00000378460,NM_015231.1;NUP160,intron_variant,,ENST00000530326,;"	"T"	"ENSG00000030066"	"ENST00000378460"	"Transcript"	"intron_variant"	"-/5376"	"-/4311"	"-/1436"	""	""	""	"1"	NA	-1	"NUP160"	"HGNC"	18017	"protein_coding"	"YES"	"CCDS31484.1"	"ENSP00000367721"	"Q12769"	""	"UPI0000185FEB"	"NM_015231.1"	""	""	""	"35/35"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"c1ac2366-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295081967213115	"WGS"	FALSE
"10580"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	48201581	48201581	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"59"	20	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c1ac40f8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253164556962025	"WGS"	FALSE
"10581"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	50212987	50212987	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"63"	21	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c1acc58c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"10582"	"OR4A6P"	0	"mskcc.org"	"GRCh37"	"11"	51397852	51397852	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000534364"	""	91	"65"	26	64	"64"	0	"OR4A6P,upstream_gene_variant,,ENST00000534364,;"	"C"	"ENSG00000255078"	"ENST00000534364"	"Transcript"	"upstream_gene_variant"	"-/970"	""	""	""	""	""	"1"	"3419"	-1	"OR4A6P"	"HGNC"	15163	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c1acf4bc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"10583"	"OR4A16"	81327	"mskcc.org"	"GRCh37"	"11"	55108350	55108350	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000314721"	""	22	"17"	5	10	"10"	0	"OR4A16,upstream_gene_variant,,ENST00000314721,NM_001005274.1;"	"T"	"ENSG00000181961"	"ENST00000314721"	"Transcript"	"upstream_gene_variant"	"-/1081"	"-/987"	"-/328"	""	""	""	"1"	"2277"	1	"OR4A16"	"HGNC"	15153	"protein_coding"	"YES"	"CCDS31499.1"	"ENSP00000325128"	"Q8NH70"	""	"UPI0000061EB2"	"NM_001005274.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c1ad9d7c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"10584"	"OR5M3"	219482	"mskcc.org"	"GRCh37"	"11"	56232773	56232773	"+"	"3'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000312240"	""	104	"69"	35	72	"72"	0	"OR5M3,downstream_gene_variant,,ENST00000312240,NM_001004742.2;OR5M9,upstream_gene_variant,,ENST00000279791,NM_001004743.1;"	"A"	"ENSG00000174937"	"ENST00000312240"	"Transcript"	"downstream_gene_variant"	"-/1051"	"-/924"	"-/307"	""	""	""	"1"	"4191"	-1	"OR5M3"	"HGNC"	14806	"protein_coding"	"YES"	"CCDS31532.1"	"ENSP00000312208"	"Q8NGP4"	""	"UPI0000041BAA"	"NM_001004742.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c1adcbd0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336538461538462	"WGS"	FALSE
"10585"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	56493049	56493049	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs548783656"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"55"	14	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs548783656"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0004"	"T:0.0008"	"T:0.0014"	NA	"T:0"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c1add92c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202898550724638	"WGS"	FALSE
"10586"	"CTNND1"	1500	"mskcc.org"	"GRCh37"	"11"	57565021	57565021	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.956+557A>T"	""	""	"ENST00000399050"	""	43	"36"	7	38	"38"	0	"CTNND1,intron_variant,,ENST00000524630,;CTNND1,intron_variant,,ENST00000399050,NM_001085458.1;CTNND1,intron_variant,,ENST00000361332,NM_001085459.1;CTNND1,intron_variant,,ENST00000360682,;CTNND1,intron_variant,,ENST00000361796,NM_001206885.1,NM_001085461.1;CTNND1,intron_variant,,ENST00000361391,NM_001331.2;CTNND1,intron_variant,,ENST00000358694,NM_001085460.1;CTNND1,intron_variant,,ENST00000529526,NM_001206891.1;CTNND1,intron_variant,,ENST00000532649,NM_001206889.1;CTNND1,intron_variant,,ENST00000534579,;CTNND1,intron_variant,,ENST00000428599,NM_001085462.1;CTNND1,intron_variant,,ENST00000532844,NM_001206883.1;CTNND1,intron_variant,,ENST00000526357,NM_001206886.1;CTNND1,intron_variant,,ENST00000529873,NM_001206887.1;CTNND1,intron_variant,,ENST00000530748,NM_001206884.1;CTNND1,intron_variant,,ENST00000528621,NM_001206888.1;CTNND1,intron_variant,,ENST00000415361,NM_001085463.1;CTNND1,intron_variant,,ENST00000530094,NM_001085464.1;CTNND1,intron_variant,,ENST00000426142,NM_001085467.1;CTNND1,intron_variant,,ENST00000532787,NM_001085465.1;CTNND1,intron_variant,,ENST00000532463,NM_001206890.1;CTNND1,intron_variant,,ENST00000528232,NM_001085466.1;CTNND1,intron_variant,,ENST00000529986,NM_001085468.1;CTNND1,intron_variant,,ENST00000532245,NM_001085469.1;CTNND1,intron_variant,,ENST00000399039,;CTNND1,intron_variant,,ENST00000527467,;CTNND1,intron_variant,,ENST00000531014,;CTNND1,intron_variant,,ENST00000533667,;CTNND1,intron_variant,,ENST00000525902,;CTNND1,intron_variant,,ENST00000526772,;CTNND1,intron_variant,,ENST00000529919,;CTNND1,intron_variant,,ENST00000526938,;CTNND1,intron_variant,,ENST00000534647,;CTNND1,intron_variant,,ENST00000533189,;CTNND1,downstream_gene_variant,,ENST00000530068,;RP11-691N7.6,downstream_gene_variant,,ENST00000531074,;CTNND1,upstream_gene_variant,,ENST00000527599,;"	"T"	"ENSG00000198561"	"ENST00000399050"	"Transcript"	"intron_variant"	"-/6313"	"-/2907"	"-/968"	""	""	""	"1"	NA	1	"CTNND1"	"HGNC"	2515	"protein_coding"	"YES"	"CCDS44604.1"	"ENSP00000382004"	"O60716"	"E9PKY0,E9PKL1"	"UPI000012860B"	"NM_001085458.1"	""	""	""	"6/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c1ae2512-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162790697674419	"WGS"	FALSE
"10587"	"OR4D7P"	0	"mskcc.org"	"GRCh37"	"11"	59298080	59298080	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000534196"	""	57	"51"	6	30	"30"	0	"OR4D7P,upstream_gene_variant,,ENST00000534196,;"	"G"	"ENSG00000254770"	"ENST00000534196"	"Transcript"	"upstream_gene_variant"	"-/942"	""	""	""	""	""	"1"	"1147"	1	"OR4D7P"	"HGNC"	15176	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c1ae5618-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"10588"	"LINC00301"	283197	"mskcc.org"	"GRCh37"	"11"	60389815	60389815	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.200+1224G>A"	""	""	"ENST00000320202"	""	31	"27"	4	13	"13"	0	"LINC00301,intron_variant,,ENST00000320202,;LINC00301,intron_variant,,ENST00000412599,;"	"A"	"ENSG00000181995"	"ENST00000320202"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/852"	""	""	""	""	""	"1"	NA	1	"LINC00301"	"HGNC"	28603	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c1ae99c0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"10589"	"LINC00301"	283197	"mskcc.org"	"GRCh37"	"11"	60389828	60389828	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.200+1237C>T"	""	""	"ENST00000320202"	""	30	"26"	4	13	"13"	0	"LINC00301,intron_variant,,ENST00000320202,;LINC00301,intron_variant,,ENST00000412599,;"	"T"	"ENSG00000181995"	"ENST00000320202"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/852"	""	""	""	""	""	"1"	NA	1	"LINC00301"	"HGNC"	28603	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c1ae9b82-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"10590"	"SLC15A3"	51296	"mskcc.org"	"GRCh37"	"11"	60724222	60724222	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000227880"	""	88	"63"	25	57	"57"	0	"SLC15A3,upstream_gene_variant,,ENST00000227880,NM_016582.2;SLC15A3,upstream_gene_variant,,ENST00000538739,;"	"T"	"ENSG00000110446"	"ENST00000227880"	"Transcript"	"upstream_gene_variant"	"-/2115"	"-/1746"	"-/581"	""	""	""	"1"	"4965"	-1	"SLC15A3"	"HGNC"	18068	"protein_coding"	"YES"	"CCDS7998.1"	"ENSP00000227880"	"Q8IY34"	"F5H251,F5GZ36"	"UPI000004433B"	"NM_016582.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c1aeaf5a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284090909090909	"WGS"	FALSE
"10591"	"RP11-810P12.5"	100507521	"mskcc.org"	"GRCh37"	"11"	61850353	61850353	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000524942"	""	85	"78"	7	55	"55"	0	"RP11-810P12.5,upstream_gene_variant,,ENST00000524942,;"	"C"	"ENSG00000255553"	"ENST00000524942"	"Transcript"	"upstream_gene_variant"	"-/788"	""	""	""	""	""	"1"	"697"	-1	"RP11-810P12.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c1af244e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0823529411764706	"WGS"	FALSE
"10592"	"RP11-867O8.5"	0	"mskcc.org"	"GRCh37"	"11"	65131847	65131847	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000533886"	""	98	"92"	6	56	"56"	0	"RP11-867O8.5,upstream_gene_variant,,ENST00000533886,;"	"C"	"ENSG00000255478"	"ENST00000533886"	"Transcript"	"upstream_gene_variant"	"-/564"	""	""	""	""	""	"1"	"3062"	1	"RP11-867O8.5"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c1b0bb6a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0612244897959184	"WGS"	FALSE
"10593"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	66344770	66344770	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs148639057"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"61"	32	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs148639057"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0024"	"A:0.0091"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c1b13bc6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344086021505376	"WGS"	FALSE
"10594"	"RBM4"	5936	"mskcc.org"	"GRCh37"	"11"	66415808	66415808	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000409406"	""	114	"107"	7	65	"65"	0	"RBM4,intron_variant,,ENST00000396053,NM_001198844.1;RBM4,intron_variant,,ENST00000506523,;RBM4,intron_variant,,ENST00000578778,;RBM4,downstream_gene_variant,,ENST00000409406,;RBM4,downstream_gene_variant,,ENST00000503028,;RBM4,downstream_gene_variant,,ENST00000408993,;RBM4,downstream_gene_variant,,ENST00000310092,NM_002896.3;RBM14-RBM4,downstream_gene_variant,,ENST00000412278,NM_001198845.1;RBM4,downstream_gene_variant,,ENST00000514361,;RBM4,downstream_gene_variant,,ENST00000530235,;RBM4,downstream_gene_variant,,ENST00000398692,NM_001198843.1;RBM14-RBM4,downstream_gene_variant,,ENST00000500635,NM_001198846.1;RBM4,downstream_gene_variant,,ENST00000510173,;RBM4,downstream_gene_variant,,ENST00000515838,;RBM4,downstream_gene_variant,,ENST00000528039,;RBM14-RBM4,downstream_gene_variant,,ENST00000421355,;"	"T"	"ENSG00000173933"	"ENST00000409406"	"Transcript"	"downstream_gene_variant"	"-/2321"	"-/1095"	"-/364"	""	""	""	"1"	"1870"	1	"RBM4"	"HGNC"	9901	"protein_coding"	"YES"	"CCDS41676.1"	"ENSP00000386894"	"Q9BWF3"	""	"UPI0000073FC1"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c1b146f2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0614035087719298	"WGS"	FALSE
"10595"	"RHOD"	29984	"mskcc.org"	"GRCh37"	"11"	66837364	66837364	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.331-532G>A"	""	""	"ENST00000308831"	""	99	"92"	7	59	"59"	0	"RHOD,intron_variant,,ENST00000308831,NM_014578.3;RHOD,intron_variant,,ENST00000533360,;RHOD,intron_variant,,ENST00000532559,;"	"A"	"ENSG00000173156"	"ENST00000308831"	"Transcript"	"intron_variant"	"-/1129"	"-/633"	"-/210"	""	""	""	"1"	NA	1	"RHOD"	"HGNC"	670	"protein_coding"	"YES"	"CCDS8155.1"	"ENSP00000308576"	"O00212"	""	"UPI000013EDC5"	"NM_014578.3"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c1b18072-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0707070707070707	"WGS"	FALSE
"10596"	"KDM2A"	22992	"mskcc.org"	"GRCh37"	"11"	66893936	66893936	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.42+5107T>C"	""	""	"ENST00000529006"	""	84	"75"	9	37	"37"	0	"KDM2A,intron_variant,,ENST00000529006,NM_012308.2;KDM2A,intron_variant,,ENST00000398645,;KDM2A,intron_variant,,ENST00000532436,;KDM2A,intron_variant,,ENST00000527157,;"	"C"	"ENSG00000173120"	"ENST00000529006"	"Transcript"	"intron_variant"	"-/6967"	"-/3489"	"-/1162"	""	""	""	"1"	NA	1	"KDM2A"	"HGNC"	13606	"protein_coding"	"YES"	"CCDS44657.1"	"ENSP00000432786"	"Q9Y2K7"	"I3VM54,I3VM53"	"UPI00001678A9"	"NM_012308.2"	""	""	""	"2/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c1b199e0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"10597"	"ACY3"	91703	"mskcc.org"	"GRCh37"	"11"	67422603	67422603	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"rs60967767"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000255082"	""	64	"59"	5	36	"36"	0	"ACY3,upstream_gene_variant,,ENST00000255082,NM_080658.1;AP003385.2,upstream_gene_variant,,ENST00000426387,;"	"G"	"ENSG00000132744"	"ENST00000255082"	"Transcript"	"upstream_gene_variant"	"-/1300"	"-/960"	"-/319"	""	""	"rs60967767"	"1"	"4473"	-1	"ACY3"	"HGNC"	24104	"protein_coding"	"YES"	"CCDS8175.1"	"ENSP00000255082"	"Q96HD9"	"E9PRA7"	"UPI0000073C5C"	"NM_080658.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"c1b1c9ba-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.078125	"WGS"	FALSE
"10598"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	69321453	69321453	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"76"	17	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c1b30b40-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182795698924731	"WGS"	FALSE
"10599"	"ENSR00000685727"	0	"mskcc.org"	"GRCh37"	"11"	69402538	69402538	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000685727"	""	91	"60"	31	57	"57"	0	""	"C"	""	"ENSR00000685727"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c1b3122a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340659340659341	"WGS"	FALSE
"10600"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	72214928	72214928	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"64"	29	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c1b4bac6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311827956989247	"WGS"	FALSE
"10601"	"RAB6A"	5870	"mskcc.org"	"GRCh37"	"11"	73423935	73423935	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs185507373"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.401+3361T>C"	""	""	"ENST00000310653"	""	70	"62"	8	58	"58"	0	"RAB6A,intron_variant,,ENST00000310653,NM_002869.4,NM_001077637.1;RAB6A,intron_variant,,ENST00000336083,NM_198896.1;RAB6A,intron_variant,,ENST00000541973,;RAB6A,intron_variant,,ENST00000536566,NM_001243719.1;RAB6A,intron_variant,,ENST00000541588,NM_001243718.1;RAB6A,intron_variant,,ENST00000540771,;RAB6A,intron_variant,,ENST00000400470,;RAB6A,intron_variant,,ENST00000537446,;RAB6A,intron_variant,,ENST00000545625,;"	"G"	"ENSG00000175582"	"ENST00000310653"	"Transcript"	"intron_variant"	"-/3389"	"-/627"	"-/208"	""	""	"rs185507373"	"1"	NA	-1	"RAB6A"	"HGNC"	9786	"protein_coding"	"YES"	"CCDS8223.1"	"ENSP00000311449"	"P20340"	"Q9UL30"	"UPI000002B21A"	"NM_002869.4,NM_001077637.1"	""	""	""	"5/7"	""	"G:0.0002"	"G:0.0008"	"G:0"	NA	"G:0"	"G:0"	"G:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c1b506ac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"10602"	"UCP2"	7351	"mskcc.org"	"GRCh37"	"11"	73690593	73690593	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-99-1071T>G"	""	""	"ENST00000310473"	""	110	"104"	6	48	"48"	0	"UCP2,intron_variant,,ENST00000310473,NM_003355.2;UCP2,intron_variant,,ENST00000536983,;UCP2,intron_variant,,ENST00000539764,;UCP2,upstream_gene_variant,,ENST00000544615,;UCP2,upstream_gene_variant,,ENST00000545212,;UCP2,intron_variant,,ENST00000542615,;UCP2,intron_variant,,ENST00000541027,;UCP2,intron_variant,,ENST00000543714,;UCP2,downstream_gene_variant,,ENST00000539330,;UCP2,upstream_gene_variant,,ENST00000545562,;"	"C"	"ENSG00000175567"	"ENST00000310473"	"Transcript"	"intron_variant"	"-/2113"	"-/930"	"-/309"	""	""	""	"1"	NA	-1	"UCP2"	"HGNC"	12518	"protein_coding"	"YES"	"CCDS8228.1"	"ENSP00000312029"	"P55851"	"F5H312"	"UPI000003627C"	"NM_003355.2"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"c1b52b8c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0545454545454545	"WGS"	FALSE
"10603"	"RP11-672A2.7"	0	"mskcc.org"	"GRCh37"	"11"	76304263	76304263	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000527320"	""	89	"64"	25	53	"53"	0	"RP11-672A2.7,downstream_gene_variant,,ENST00000527320,;"	"A"	"ENSG00000254755"	"ENST00000527320"	"Transcript"	"downstream_gene_variant"	"-/189"	""	""	""	""	""	"1"	"2008"	1	"RP11-672A2.7"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c1b5bdae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280898876404494	"WGS"	FALSE
"10604"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	76532880	76532880	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs567872236"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"54"	29	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs567872236"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0004"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c1b65e62-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349397590361446	"WGS"	FALSE
"10605"	"TENM4"	26011	"mskcc.org"	"GRCh37"	"11"	78591680	78591680	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1084+9150G>C"	""	""	"ENST00000278550"	""	93	"63"	30	60	"60"	0	"TENM4,intron_variant,,ENST00000278550,NM_001098816.2;"	"G"	"ENSG00000149256"	"ENST00000278550"	"Transcript"	"intron_variant"	"-/14000"	"-/8310"	"-/2769"	""	""	""	"1"	NA	-1	"TENM4"	"HGNC"	29945	"protein_coding"	"YES"	"CCDS44688.1"	"ENSP00000278550"	"Q6N022"	"G3CAT1"	"UPI0000DD8112"	"NM_001098816.2"	""	""	""	"9/33"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c1b6f25a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32258064516129	"WGS"	FALSE
"10606"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	80178752	80178752	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"60"	29	70	"69"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c1b7255e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325842696629214	"WGS"	FALSE
"10607"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	80503976	80503976	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"84"	7	51	"51"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c1b72b62-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"10608"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	80700561	80700561	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"50"	24	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c1b7317a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324324324324324	"WGS"	FALSE
"10609"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	81528249	81528249	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"64"	28	80	"80"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c1b752c2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WGS"	FALSE
"10610"	"RP11-179A16.1"	101928989	"mskcc.org"	"GRCh37"	"11"	82083145	82083145	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.236-15475C>T"	""	""	"ENST00000500502"	""	84	"65"	19	58	"58"	0	"RP11-179A16.1,intron_variant,,ENST00000500502,;RP11-179A16.1,intron_variant,,ENST00000532217,;"	"A"	"ENSG00000245832"	"ENST00000500502"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1397"	""	""	""	""	""	"1"	NA	-1	"RP11-179A16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c1b760c8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226190476190476	"WGS"	FALSE
"10611"	"DLG2"	1740	"mskcc.org"	"GRCh37"	"11"	83229490	83229490	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2193+14261A>C"	""	""	"ENST00000376104"	""	77	"57"	20	56	"56"	0	"DLG2,intron_variant,,ENST00000398309,NM_001364.3;DLG2,intron_variant,,ENST00000426717,NM_001142702.1;DLG2,intron_variant,,ENST00000376104,NM_001142699.1;DLG2,intron_variant,,ENST00000543673,;DLG2,intron_variant,,ENST00000280241,NM_001206769.1;DLG2,intron_variant,,ENST00000418306,NM_001142700.1;DLG2,intron_variant,,ENST00000531015,;DLG2,intron_variant,,ENST00000532653,;DLG2,intron_variant,,ENST00000524982,;DLG2,intron_variant,,ENST00000537455,;DLG2,intron_variant,,ENST00000330014,;DLG2,intron_variant,,ENST00000376106,;DLG2,intron_variant,,ENST00000404783,;DLG2,intron_variant,,ENST00000420775,;DLG2,intron_variant,,ENST00000398304,;DLG2,intron_variant,,ENST00000530800,;DLG2,intron_variant,,ENST00000524601,;"	"G"	"ENSG00000150672"	"ENST00000376104"	"Transcript"	"intron_variant"	"-/5139"	"-/2928"	"-/975"	""	""	""	"1"	NA	-1	"DLG2"	"HGNC"	2901	"protein_coding"	"YES"	"CCDS44690.1"	"ENSP00000365272"	"Q15700"	"F8W750,E9PQT9"	"UPI0000E59399"	"NM_001142699.1"	""	""	""	"21/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c1b7987c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25974025974026	"WGS"	FALSE
"10612"	"DLG2"	1740	"mskcc.org"	"GRCh37"	"11"	84116830	84116830	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.519+128783G>A"	""	""	"ENST00000376104"	""	73	"52"	21	64	"64"	0	"DLG2,intron_variant,,ENST00000398309,NM_001364.3;DLG2,intron_variant,,ENST00000376104,NM_001142699.1;DLG2,intron_variant,,ENST00000543673,;DLG2,intron_variant,,ENST00000532653,;DLG2,intron_variant,,ENST00000524982,;DLG2,intron_variant,,ENST00000527466,;DLG2,intron_variant,,ENST00000529111,;"	"T"	"ENSG00000150672"	"ENST00000376104"	"Transcript"	"intron_variant"	"-/5139"	"-/2928"	"-/975"	""	""	""	"1"	NA	-1	"DLG2"	"HGNC"	2901	"protein_coding"	"YES"	"CCDS44690.1"	"ENSP00000365272"	"Q15700"	"F8W750,E9PQT9"	"UPI0000E59399"	"NM_001142699.1"	""	""	""	"7/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c1b7b276-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287671232876712	"WGS"	FALSE
"10613"	"ME3"	10873	"mskcc.org"	"GRCh37"	"11"	86248663	86248663	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.467+18932C>T"	""	""	"ENST00000543262"	""	65	"47"	18	49	"49"	0	"ME3,intron_variant,,ENST00000543262,NM_001161586.1;ME3,intron_variant,,ENST00000393324,NM_001014811.1;ME3,intron_variant,,ENST00000359636,NM_006680.2;ME3,intron_variant,,ENST00000524826,;ME3,intron_variant,,ENST00000323418,;RP11-317J19.1,intron_variant,,ENST00000524610,;ME3,intron_variant,,ENST00000526504,;ME3,intron_variant,,ENST00000530520,;"	"A"	"ENSG00000151376"	"ENST00000543262"	"Transcript"	"intron_variant"	"-/2311"	"-/1815"	"-/604"	""	""	""	"1"	NA	-1	"ME3"	"HGNC"	6985	"protein_coding"	"YES"	"CCDS8277.1"	"ENSP00000440246"	"Q16798"	"E9PQP5,E9PNN2,E9PMB9"	"UPI000013DC4F"	"NM_001161586.1"	""	""	""	"4/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c1b80424-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276923076923077	"WGS"	FALSE
"10614"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	88880288	88880288	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"64"	24	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c1b86996-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"10615"	"DISC1FP1"	101929222	"mskcc.org"	"GRCh37"	"11"	90445129	90445129	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.186-89805C>A"	""	""	"ENST00000562678"	""	99	"66"	33	58	"58"	0	"DISC1FP1,intron_variant,,ENST00000562678,;DISC1FP1,intron_variant,,ENST00000562245,;DISC1FP1,intron_variant,,ENST00000561596,;DISC1FP1,intron_variant,,ENST00000563681,;"	"A"	"ENSG00000261645"	"ENST00000562678"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/796"	""	""	""	""	""	"1"	NA	1	"DISC1FP1"	"HGNC"	33625	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c1b8ce68-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"10616"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	91454855	91454855	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"74"	27	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c1b8efd8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267326732673267	"WGS"	FALSE
"10617"	"CCDC67"	159989	"mskcc.org"	"GRCh37"	"11"	93149517	93149517	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1638+1237T>A"	""	""	"ENST00000298050"	""	82	"76"	6	42	"42"	0	"CCDC67,intron_variant,,ENST00000534747,;CCDC67,intron_variant,,ENST00000298050,NM_181645.3;CCDC67,intron_variant,,ENST00000525646,;CCDC67,intron_variant,,ENST00000529909,;CCDC67,intron_variant,,ENST00000531448,;CCDC67,downstream_gene_variant,,ENST00000530862,;"	"A"	"ENSG00000165325"	"ENST00000298050"	"Transcript"	"intron_variant"	"-/2664"	"-/1815"	"-/604"	""	""	""	"1"	NA	1	"CCDC67"	"HGNC"	26344	"protein_coding"	"YES"	"CCDS44707.1"	"ENSP00000298050"	"Q05D60"	"E9PIY2,E9PPB2,E9PIV7"	"UPI0000161951"	"NM_181645.3"	""	""	""	"13/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c1b9208e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"10618"	"RP11-360K13.1"	0	"mskcc.org"	"GRCh37"	"11"	96468270	96468270	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.158+6796C>T"	""	""	"ENST00000527528"	""	80	"65"	15	64	"64"	0	"RP11-360K13.1,intron_variant,,ENST00000527528,;"	"T"	"ENSG00000254587"	"ENST00000527528"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1647"	""	""	""	""	""	"1"	NA	1	"RP11-360K13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c1b9ae00-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"10619"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	98331679	98331679	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"rs138381258"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"64"	24	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138381258"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c1b9fce8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"10620"	"CNTN5"	53942	"mskcc.org"	"GRCh37"	"11"	99837902	99837902	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.877+10161C>A"	""	""	"ENST00000524871"	""	83	"61"	22	57	"57"	0	"CNTN5,intron_variant,,ENST00000524871,NM_014361.3;CNTN5,intron_variant,,ENST00000527185,NM_001243271.1;CNTN5,intron_variant,,ENST00000528682,NM_001243270.1;CNTN5,intron_variant,,ENST00000418526,NM_175566.2;CNTN5,intron_variant,,ENST00000279463,;CNTN5,intron_variant,,ENST00000525236,;CNTN5,intron_variant,,ENST00000528727,;"	"A"	"ENSG00000149972"	"ENST00000524871"	"Transcript"	"intron_variant"	"-/6258"	"-/3303"	"-/1100"	""	""	""	"1"	NA	1	"CNTN5"	"HGNC"	2175	"protein_coding"	"YES"	"CCDS53696.1"	"ENSP00000435637"	"O94779"	"B4DGP0"	"UPI000006DAB0"	"NM_014361.3"	""	""	""	"8/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c1ba4504-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265060240963855	"WGS"	FALSE
"10621"	"RP11-788M5.3"	0	"mskcc.org"	"GRCh37"	"11"	101046185	101046185	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.180+16199C>T"	""	""	"ENST00000531772"	""	63	"42"	21	58	"58"	0	"RP11-788M5.3,intron_variant,,ENST00000531772,;"	"T"	"ENSG00000255504"	"ENST00000531772"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/429"	""	""	""	""	""	"1"	NA	1	"RP11-788M5.3"	"Clone_based_vega_gene"	NA	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c1ba7178-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"10622"	"MMP1"	4312	"mskcc.org"	"GRCh37"	"11"	102657164	102657164	"+"	"3'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000315274"	""	75	"53"	22	64	"64"	0	"MMP1,downstream_gene_variant,,ENST00000315274,NM_002421.3,NM_001145938.1;WTAPP1,intron_variant,,ENST00000525739,;WTAPP1,intron_variant,,ENST00000544704,;WTAPP1,intron_variant,,ENST00000371455,;"	"C"	"ENSG00000196611"	"ENST00000315274"	"Transcript"	"downstream_gene_variant"	"-/1970"	"-/1410"	"-/469"	""	""	""	"1"	"3487"	-1	"MMP1"	"HGNC"	7155	"protein_coding"	"YES"	"CCDS8322.1"	"ENSP00000322788"	"P03956"	"Q96DZ4,B4DN15,A5GZ69"	"UPI00000422BA"	"NM_002421.3,NM_001145938.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"c1baf454-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293333333333333	"WGS"	FALSE
"10623"	"MMP1"	4312	"mskcc.org"	"GRCh37"	"11"	102657165	102657165	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000315274"	""	77	"56"	21	66	"66"	0	"MMP1,downstream_gene_variant,,ENST00000315274,NM_002421.3,NM_001145938.1;WTAPP1,intron_variant,,ENST00000525739,;WTAPP1,intron_variant,,ENST00000544704,;WTAPP1,intron_variant,,ENST00000371455,;"	"T"	"ENSG00000196611"	"ENST00000315274"	"Transcript"	"downstream_gene_variant"	"-/1970"	"-/1410"	"-/469"	""	""	""	"1"	"3486"	-1	"MMP1"	"HGNC"	7155	"protein_coding"	"YES"	"CCDS8322.1"	"ENSP00000322788"	"P03956"	"Q96DZ4,B4DN15,A5GZ69"	"UPI00000422BA"	"NM_002421.3,NM_001145938.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"c1baf530-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"10624"	"ENSR00001573115"	0	"mskcc.org"	"GRCh37"	"11"	106335036	106335036	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001573115"	""	84	"78"	6	52	"52"	0	""	"T"	""	"ENSR00001573115"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c1bb6024-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"10625"	"RP11-144G7.2"	0	"mskcc.org"	"GRCh37"	"11"	107984012	107984012	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.390-2891A>T"	""	""	"ENST00000525548"	""	29	"26"	3	18	"18"	0	"RP11-144G7.2,intron_variant,,ENST00000525548,;"	"A"	"ENSG00000255467"	"ENST00000525548"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/964"	""	""	""	""	""	"1"	NA	-1	"RP11-144G7.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c1bbafd4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"10626"	"ENSR00001623503"	0	"mskcc.org"	"GRCh37"	"11"	109958309	109958309	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001623503"	""	89	"66"	23	54	"54"	0	""	"T"	""	"ENSR00001623503"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c1bbf9e4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258426966292135	"WGS"	FALSE
"10627"	"ZC3H12C"	85463	"mskcc.org"	"GRCh37"	"11"	109991793	109991793	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.22-15595G>C"	""	""	"ENST00000278590"	""	92	"83"	9	49	"49"	0	"ZC3H12C,intron_variant,,ENST00000278590,NM_033390.1;"	"C"	"ENSG00000149289"	"ENST00000278590"	"Transcript"	"intron_variant"	"-/8807"	"-/2652"	"-/883"	""	""	""	"1"	NA	1	"ZC3H12C"	"HGNC"	29362	"protein_coding"	"YES"	"CCDS44727.1"	"ENSP00000278590"	"Q9C0D7"	"E9PP00"	"UPI0000DD80B8"	"NM_033390.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c1bbfffc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0978260869565217	"WGS"	FALSE
"10628"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	111025280	111025280	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"54"	24	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c1bc2928-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"10629"	"C11orf52"	91894	"mskcc.org"	"GRCh37"	"11"	111798530	111798530	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000278601"	""	94	"85"	9	46	"46"	0	"DIXDC1,intron_variant,,ENST00000529225,NM_001278542.1;C11orf52,downstream_gene_variant,,ENST00000278601,NM_080659.2;CRYAB,upstream_gene_variant,,ENST00000527950,NM_001885.1;C11orf52,downstream_gene_variant,,ENST00000529342,;RNA5SP351,upstream_gene_variant,,ENST00000459480,;C11orf52,downstream_gene_variant,,ENST00000527286,;HSPB2-C11orf52,downstream_gene_variant,,ENST00000534100,;C11orf52,downstream_gene_variant,,ENST00000529012,;"	"A"	"ENSG00000149300"	"ENST00000278601"	"Transcript"	"downstream_gene_variant"	"-/1141"	"-/372"	"-/123"	""	""	""	"1"	"934"	1	"C11orf52"	"HGNC"	30531	"protein_coding"	"YES"	"CCDS8353.1"	"ENSP00000278601"	"Q96A22"	"E9PPX5"	"UPI000013DB82"	"NM_080659.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c1bc49e4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0957446808510638	"WGS"	FALSE
"10630"	"C11orf52"	91894	"mskcc.org"	"GRCh37"	"11"	111798545	111798545	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000278601"	""	88	"83"	5	42	"42"	0	"DIXDC1,intron_variant,,ENST00000529225,NM_001278542.1;C11orf52,downstream_gene_variant,,ENST00000278601,NM_080659.2;CRYAB,upstream_gene_variant,,ENST00000527950,NM_001885.1;C11orf52,downstream_gene_variant,,ENST00000529342,;RNA5SP351,upstream_gene_variant,,ENST00000459480,;C11orf52,downstream_gene_variant,,ENST00000527286,;HSPB2-C11orf52,downstream_gene_variant,,ENST00000534100,;C11orf52,downstream_gene_variant,,ENST00000529012,;"	"C"	"ENSG00000149300"	"ENST00000278601"	"Transcript"	"downstream_gene_variant"	"-/1141"	"-/372"	"-/123"	""	""	""	"1"	"949"	1	"C11orf52"	"HGNC"	30531	"protein_coding"	"YES"	"CCDS8353.1"	"ENSP00000278601"	"Q96A22"	"E9PPX5"	"UPI000013DB82"	"NM_080659.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c1bc4aca-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0568181818181818	"WGS"	FALSE
"10631"	"NXPE1"	120400	"mskcc.org"	"GRCh37"	"11"	114389139	114389139	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000251921"	""	103	"78"	25	54	"54"	0	"NXPE1,downstream_gene_variant,,ENST00000536271,;NXPE1,downstream_gene_variant,,ENST00000424269,;NXPE1,downstream_gene_variant,,ENST00000251921,NM_152315.2;NXPE2P1,upstream_gene_variant,,ENST00000543705,;RP11-172C16.5,downstream_gene_variant,,ENST00000604893,;"	"T"	"ENSG00000095110"	"ENST00000251921"	"Transcript"	"downstream_gene_variant"	"-/1888"	"-/1218"	"-/405"	""	""	""	"1"	"3298"	-1	"NXPE1"	"HGNC"	28527	"protein_coding"	"YES"	"CCDS8372.1"	"ENSP00000251921"	"Q8N323"	"G3V1T0"	"UPI000013CD22"	"NM_152315.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c1bcd5a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242718446601942	"WGS"	FALSE
"10632"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	114718431	114718431	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"56"	23	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c1bcfbb4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291139240506329	"WGS"	FALSE
"10633"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	116107502	116107502	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"64"	34	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c1bd3502-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346938775510204	"WGS"	FALSE
"10634"	"HINFP"	25988	"mskcc.org"	"GRCh37"	"11"	118999885	118999885	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.182-1550A>G"	""	""	"ENST00000350777"	""	81	"74"	7	61	"61"	0	"HINFP,intron_variant,,ENST00000532312,;HINFP,intron_variant,,ENST00000350777,NM_198971.2,NM_015517.4,NM_001243259.1;HINFP,intron_variant,,ENST00000527410,;HINFP,intron_variant,,ENST00000529988,;HINFP,downstream_gene_variant,,ENST00000530678,;HINFP,intron_variant,,ENST00000527354,;HINFP,intron_variant,,ENST00000529354,;HINFP,intron_variant,,ENST00000531360,;HINFP,upstream_gene_variant,,ENST00000527755,;HINFP,upstream_gene_variant,,ENST00000531022,;HINFP,upstream_gene_variant,,ENST00000532860,;HINFP,upstream_gene_variant,,ENST00000529808,;HINFP,downstream_gene_variant,,ENST00000527206,;HINFP,upstream_gene_variant,,ENST00000529610,;"	"G"	"ENSG00000172273"	"ENST00000350777"	"Transcript"	"intron_variant"	"-/3161"	"-/1554"	"-/517"	""	""	""	"1"	NA	1	"HINFP"	"HGNC"	17850	"protein_coding"	"YES"	"CCDS8414.1"	"ENSP00000318085"	"Q9BQA5"	"E9PL67,E9PJA3"	"UPI000013EB5D"	"NM_198971.2,NM_015517.4,NM_001243259.1"	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c1be1fb2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"10635"	"GRIK4"	2900	"mskcc.org"	"GRCh37"	"11"	120684620	120684620	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.248-1467G>A"	""	""	"ENST00000527524"	""	97	"75"	22	51	"51"	0	"GRIK4,intron_variant,,ENST00000527524,NM_001282470.1;GRIK4,intron_variant,,ENST00000438375,NM_014619.2;GRIK4,intron_variant,,ENST00000526536,;GRIK4,intron_variant,,ENST00000533291,;"	"A"	"ENSG00000149403"	"ENST00000527524"	"Transcript"	"intron_variant"	"-/5802"	"-/2871"	"-/956"	""	""	""	"1"	NA	1	"GRIK4"	"HGNC"	4582	"protein_coding"	"YES"	"CCDS8433.1"	"ENSP00000435648"	"Q16099"	""	"UPI000013DB8D"	"NM_001282470.1"	""	""	""	"4/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c1be9744-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22680412371134	"WGS"	FALSE
"10636"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	121080230	121080230	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"70"	19	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c1bea996-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213483146067416	"WGS"	FALSE
"10637"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	123933795	123933795	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"70"	24	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c1bf7d76-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25531914893617	"WGS"	FALSE
"10638"	"VWA5A"	4013	"mskcc.org"	"GRCh37"	"11"	123996476	123996476	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1244+1453G>T"	""	""	"ENST00000456829"	""	93	"63"	30	61	"61"	0	"VWA5A,intron_variant,,ENST00000456829,NM_001130142.1;VWA5A,intron_variant,,ENST00000392748,NM_014622.4;VWA5A,intron_variant,,ENST00000360334,;VWA5A,downstream_gene_variant,,ENST00000392744,;VWA5A,downstream_gene_variant,,ENST00000449321,;VWA5A,downstream_gene_variant,,ENST00000361352,NM_198315.2;"	"T"	"ENSG00000110002"	"ENST00000456829"	"Transcript"	"intron_variant"	"-/4388"	"-/2361"	"-/786"	""	""	""	"1"	NA	1	"VWA5A"	"HGNC"	6658	"protein_coding"	"YES"	"CCDS8444.1"	"ENSP00000407726"	"O00534"	""	"UPI0000158B80"	"NM_001130142.1"	""	""	""	"11/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c1bf7f2e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32258064516129	"WGS"	FALSE
"10639"	"RP11-677M14.7"	100507283	"mskcc.org"	"GRCh37"	"11"	124706057	124706057	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000499143"	""	98	"73"	25	56	"56"	0	"RP11-677M14.7,downstream_gene_variant,,ENST00000499143,;"	"A"	"ENSG00000245498"	"ENST00000499143"	"Transcript"	"downstream_gene_variant"	"-/2886"	""	""	""	""	""	"1"	"1674"	1	"RP11-677M14.7"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c1bfa1a2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255102040816327	"WGS"	FALSE
"10640"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	125381900	125381900	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"71"	5	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c1bfc218-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0657894736842105	"WGS"	FALSE
"10641"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	127321207	127321207	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"58"	27	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c1c03d2e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317647058823529	"WGS"	FALSE
"10642"	"C11orf44"	283171	"mskcc.org"	"GRCh37"	"11"	130564996	130564996	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.211-18093G>T"	""	""	"ENST00000317019"	""	104	"95"	9	66	"66"	0	"C11orf44,intron_variant,,ENST00000317019,NM_001271983.1;"	"T"	"ENSG00000175728"	"ENST00000317019"	"Transcript"	"intron_variant"	"-/3547"	"-/369"	"-/122"	""	""	""	"1"	NA	1	"C11orf44"	"HGNC"	26805	"protein_coding"	"YES"	"CCDS8489.1"	"ENSP00000326394"	"Q8N8P7"	""	"UPI0000072C79"	"NM_001271983.1"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c1c0ecec-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0865384615384615	"WGS"	FALSE
"10643"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	130593137	130593137	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"70"	24	74	"74"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"c1c0edc8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25531914893617	"WGS"	FALSE
"10644"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	130611569	130611569	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"78"	19	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c1c0ef8a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195876288659794	"WGS"	FALSE
"10645"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	134577134	134577134	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs117583130"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"58"	33	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs117583130"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0004"	"T:0"	"T:0"	NA	"T:0.002"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c1c1fa10-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.362637362637363	"WGS"	FALSE
"10646"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	5080720	5080720	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"71"	21	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c1c4b0d4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228260869565217	"WGS"	FALSE
"10647"	"RP1-102E24.8"	0	"mskcc.org"	"GRCh37"	"12"	6508054	6508054	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000541888"	""	92	"85"	7	47	"47"	0	"RP1-102E24.8,downstream_gene_variant,,ENST00000541888,;"	"G"	"ENSG00000256433"	"ENST00000541888"	"Transcript"	"downstream_gene_variant"	"-/724"	""	""	""	""	""	"1"	"3819"	1	"RP1-102E24.8"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c1c522b2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"10648"	"C1S"	716	"mskcc.org"	"GRCh37"	"12"	7154811	7154811	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-232+4379G>A"	""	""	"ENST00000406697"	""	92	"66"	26	56	"55"	1	"C1S,intron_variant,,ENST00000406697,;"	"A"	"ENSG00000182326"	"ENST00000406697"	"Transcript"	"intron_variant"	"-/3076"	"-/2067"	"-/688"	""	""	""	"1"	NA	1	"C1S"	"HGNC"	1247	"protein_coding"	"YES"	"CCDS31735.1"	"ENSP00000385035"	"P09871"	"F8WCZ6,F5H7T4,C9JY52,C9IZP8,B5MCV4"	"UPI0000126BF6"	""	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"c1c5908a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282608695652174	"WGS"	FALSE
"10649"	"CD163L1"	283316	"mskcc.org"	"GRCh37"	"12"	7594215	7594215	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.32-373C>T"	""	""	"ENST00000313599"	""	113	"84"	29	61	"61"	0	"CD163L1,intron_variant,,ENST00000313599,;CD163L1,intron_variant,,ENST00000416109,NM_174941.4;CD163L1,intron_variant,,ENST00000396630,;CD163L1,intron_variant,,ENST00000543276,;RP11-157G21.2,upstream_gene_variant,,ENST00000538078,;"	"A"	"ENSG00000177675"	"ENST00000313599"	"Transcript"	"intron_variant"	"-/4615"	"-/4362"	"-/1453"	""	""	""	"1"	NA	-1	"CD163L1"	"HGNC"	30375	"protein_coding"	"YES"	"CCDS8577.1"	"ENSP00000315945"	"Q9NR16"	"F5H7R7"	"UPI000013F5AD"	""	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c1c5aad4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256637168141593	"WGS"	FALSE
"10650"	"NANOGNB"	360030	"mskcc.org"	"GRCh37"	"12"	7924479	7924479	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.515+1365A>T"	""	""	"ENST00000382119"	""	105	"97"	8	49	"49"	0	"NANOGNB,intron_variant,,ENST00000382119,NM_001145465.1;"	"T"	"ENSG00000205857"	"ENST00000382119"	"Transcript"	"intron_variant"	"-/907"	"-/567"	"-/188"	""	""	""	"1"	NA	1	"NANOGNB"	"HGNC"	24958	"protein_coding"	"YES"	"CCDS44826.1"	"ENSP00000371553"	"Q7Z5D8"	""	"UPI00001B3DAD"	"NM_001145465.1"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c1c5cab4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0761904761904762	"WGS"	FALSE
"10651"	"CLEC6A"	93978	"mskcc.org"	"GRCh37"	"12"	8626892	8626892	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.370-1829C>T"	""	""	"ENST00000382073"	""	99	"74"	25	47	"47"	0	"CLEC6A,intron_variant,,ENST00000382073,NM_001007033.1;"	"T"	"ENSG00000205846"	"ENST00000382073"	"Transcript"	"intron_variant"	"-/1682"	"-/630"	"-/209"	""	""	""	"1"	NA	1	"CLEC6A"	"HGNC"	14556	"protein_coding"	"YES"	"CCDS31739.1"	"ENSP00000371505"	"Q6EIG7"	""	"UPI00003BE8D6"	"NM_001007033.1"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c1c63b84-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252525252525253	"WGS"	FALSE
"10652"	"SNORA75"	0	"mskcc.org"	"GRCh37"	"12"	9442473	9442473	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000391138"	""	121	"102"	19	62	"62"	0	"SNORA75,upstream_gene_variant,,ENST00000391138,;RP11-22B23.1,intron_variant,,ENST00000341155,;RP11-22B23.1,intron_variant,,ENST00000539757,;RP11-22B23.1,intron_variant,,ENST00000415169,;"	"A"	"ENSG00000212440"	"ENST00000391138"	"Transcript"	"upstream_gene_variant"	"-/150"	""	""	""	""	""	"1"	"3055"	-1	"SNORA75"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c1c66884-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15702479338843	"WGS"	FALSE
"10653"	"RP11-599J14.2"	0	"mskcc.org"	"GRCh37"	"12"	9559432	9559432	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.50-4280C>G"	""	""	"ENST00000540982"	""	74	"68"	6	38	"38"	0	"RP11-599J14.2,intron_variant,,ENST00000540982,;"	"C"	"ENSG00000256673"	"ENST00000540982"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/400"	""	""	""	""	""	"1"	NA	-1	"RP11-599J14.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c1c68b52-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"10654"	"APOLD1"	81575	"mskcc.org"	"GRCh37"	"12"	12895629	12895629	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.96+16599C>T"	""	""	"ENST00000326765"	""	113	"83"	30	48	"48"	0	"APOLD1,intron_variant,,ENST00000326765,NM_001130415.1;APOLD1,intron_variant,,ENST00000534843,;APOLD1,intron_variant,,ENST00000540583,;APOLD1,intron_variant,,ENST00000588943,;"	"T"	"ENSG00000178878"	"ENST00000326765"	"Transcript"	"intron_variant"	"-/4640"	"-/840"	"-/279"	""	""	""	"1"	NA	1	"APOLD1"	"HGNC"	25268	"protein_coding"	"YES"	"CCDS44833.1"	"ENSP00000324277"	"Q96LR9"	""	"UPI0000D4A841"	"NM_001130415.1"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c1c7a2ee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265486725663717	"WGS"	FALSE
"10655"	"PTPRO"	5800	"mskcc.org"	"GRCh37"	"12"	15641732	15641732	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349+4551C>A"	""	""	"ENST00000281171"	""	89	"62"	27	65	"65"	0	"PTPRO,intron_variant,,ENST00000281171,NM_030667.2;PTPRO,intron_variant,,ENST00000348962,NM_002848.3;PTPRO,intron_variant,,ENST00000543886,;"	"A"	"ENSG00000151490"	"ENST00000281171"	"Transcript"	"intron_variant"	"-/5301"	"-/3651"	"-/1216"	""	""	""	"1"	NA	1	"PTPRO"	"HGNC"	9678	"protein_coding"	"YES"	"CCDS8675.1"	"ENSP00000281171"	"Q16827"	"B4DS16"	"UPI000013DC62"	"NM_030667.2"	""	""	""	"2/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"c1c84956-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303370786516854	"WGS"	FALSE
"10656"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	16962014	16962014	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"55"	27	50	"50"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c1c88452-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329268292682927	"WGS"	FALSE
"10657"	"PIK3C2G"	5288	"mskcc.org"	"GRCh37"	"12"	18475671	18475671	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1208+1705C>A"	""	""	"ENST00000266497"	""	87	"68"	19	54	"54"	0	"PIK3C2G,intron_variant,,ENST00000433979,NM_004570.4;PIK3C2G,intron_variant,,ENST00000266497,;PIK3C2G,intron_variant,,ENST00000538779,NM_001288772.1;PIK3C2G,intron_variant,,ENST00000535651,;RERGL,upstream_gene_variant,,ENST00000541632,;PIK3C2G,intron_variant,,ENST00000546003,NM_001288774.1;"	"A"	"ENSG00000139144"	"ENST00000266497"	"Transcript"	"intron_variant"	"-/4754"	"-/4338"	"-/1445"	""	""	""	"1"	NA	1	"PIK3C2G"	"HGNC"	8973	"protein_coding"	""	"CCDS44839.1"	"ENSP00000266497"	"O75747"	""	"UPI000013D6EF"	""	""	""	""	"6/30"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c1c8d06a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218390804597701	"WGS"	FALSE
"10658"	"CCDC91"	55297	"mskcc.org"	"GRCh37"	"12"	28697048	28697048	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1216-4948A>G"	""	""	"ENST00000545336"	""	83	"66"	17	54	"54"	0	"CCDC91,intron_variant,,ENST00000545336,;CCDC91,intron_variant,,ENST00000539107,;CCDC91,intron_variant,,ENST00000381259,NM_018318.3;CCDC91,intron_variant,,ENST00000306172,;CCDC91,intron_variant,,ENST00000381256,;CCDC91,intron_variant,,ENST00000542801,;CCDC91,upstream_gene_variant,,ENST00000542814,;CCDC91,upstream_gene_variant,,ENST00000541792,;CCDC91,upstream_gene_variant,,ENST00000543019,;CCDC91,intron_variant,,ENST00000540401,;CCDC91,intron_variant,,ENST00000543809,;CCDC91,intron_variant,,ENST00000535520,;CCDC91,upstream_gene_variant,,ENST00000539270,;"	"G"	"ENSG00000123106"	"ENST00000545336"	"Transcript"	"intron_variant"	"-/2738"	"-/1326"	"-/441"	""	""	""	"1"	NA	1	"CCDC91"	"HGNC"	24855	"protein_coding"	"YES"	"CCDS8716.1"	"ENSP00000438040"	"Q7Z6B0"	"F5H4N8,F5GZH9,F5GXK6"	"UPI00001AEE23"	""	""	""	""	"15/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c1cabd26-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204819277108434	"WGS"	FALSE
"10659"	"CCDC91"	55297	"mskcc.org"	"GRCh37"	"12"	28737691	28737691	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000541792"	""	62	"40"	22	60	"60"	0	"CCDC91,downstream_gene_variant,,ENST00000541792,;CCDC91,downstream_gene_variant,,ENST00000543019,;CCDC91,downstream_gene_variant,,ENST00000539270,;"	"T"	"ENSG00000123106"	"ENST00000541792"	"Transcript"	"downstream_gene_variant"	"-/259"	"-/141"	"-/46"	""	""	""	"1"	"4815"	1	"CCDC91"	"HGNC"	24855	"protein_coding"	""	""	"ENSP00000439935"	""	"H0YFR6"	"UPI000204ACF5"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c1cabe02-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354838709677419	"WGS"	FALSE
"10660"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	29067491	29067491	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"62"	25	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c1cacffa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28735632183908	"WGS"	FALSE
"10661"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	34292665	34292665	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"55"	31	47	"47"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c1cc1acc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36046511627907	"WGS"	FALSE
"10662"	"RP11-313F23.4"	0	"mskcc.org"	"GRCh37"	"12"	34369601	34369601	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.73+2115G>A"	""	""	"ENST00000545923"	""	68	"61"	7	52	"52"	0	"RP11-313F23.4,intron_variant,,ENST00000545923,;"	"T"	"ENSG00000255652"	"ENST00000545923"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/743"	""	""	""	""	""	"1"	NA	-1	"RP11-313F23.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c1cc1ffe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102941176470588	"WGS"	FALSE
"10663"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	39652358	39652358	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"55"	25	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c1cd7228-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"10664"	"SLC2A13"	114134	"mskcc.org"	"GRCh37"	"12"	40462606	40462606	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.557-20594G>C"	""	""	"ENST00000280871"	""	99	"76"	23	52	"52"	0	"SLC2A13,intron_variant,,ENST00000280871,NM_052885.3;SLC2A13,intron_variant,,ENST00000380858,;RPL30P13,upstream_gene_variant,,ENST00000418873,;"	"G"	"ENSG00000151229"	"ENST00000280871"	"Transcript"	"intron_variant"	"-/7003"	"-/1947"	"-/648"	""	""	""	"1"	NA	-1	"SLC2A13"	"HGNC"	15956	"protein_coding"	"YES"	"CCDS8736.2"	"ENSP00000280871"	"Q96QE2"	""	"UPI000066D913"	"NM_052885.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c1cd94ba-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232323232323232	"WGS"	FALSE
"10665"	"MUC19"	283463	"mskcc.org"	"GRCh37"	"12"	40840321	40840321	"+"	"Silent"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3015T>G"	"p.="	"p.P1005P"	"ENST00000454784"	"31/84"	91	"70"	21	57	"57"	0	"MUC19,synonymous_variant,p.=,ENST00000454784,;MUC19,3_prime_UTR_variant,,ENST00000425730,;RP11-115F18.1,upstream_gene_variant,,ENST00000552757,;"	"G"	"ENSG00000205592"	"ENST00000454784"	"Transcript"	"synonymous_variant"	"3748/19628"	"3015/10893"	"1005/3630"	"P"	"ccT/ccG"	""	"1"	NA	1	"MUC19"	"HGNC"	14362	"protein_coding"	"YES"	""	"ENSP00000476404"	""	"C9JCE7"	"UPI0003B927DE"	""	""	""	"31/84"	""	"Gene3D:2.10.25.10,hmmpanther:PTHR11339,hmmpanther:PTHR11339:SF266"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c1cda7e8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"10666"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	43614888	43614888	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"65"	37	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c1ce6b9c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.362745098039216	"WGS"	FALSE
"10667"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	44105478	44105478	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs750682536"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"51"	29	75	"75"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs750682536"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c1ce7b0a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3625	"WGS"	FALSE
"10668"	"NELL2"	4753	"mskcc.org"	"GRCh37"	"12"	45085853	45085853	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1468+11656C>G"	""	""	"ENST00000437801"	""	86	"57"	29	57	"57"	0	"NELL2,intron_variant,,ENST00000429094,NM_001145108.1;NELL2,intron_variant,,ENST00000437801,NM_001145107.1;NELL2,intron_variant,,ENST00000395487,NM_001145109.1;NELL2,intron_variant,,ENST00000452445,NM_006159.2;NELL2,intron_variant,,ENST00000551601,;NELL2,intron_variant,,ENST00000549027,;NELL2,intron_variant,,ENST00000333837,NM_001145110.1;NELL2,intron_variant,,ENST00000550313,;NELL2,intron_variant,,ENST00000547751,;NELL2,intron_variant,,ENST00000549668,;"	"C"	"ENSG00000184613"	"ENST00000437801"	"Transcript"	"intron_variant"	"-/3279"	"-/2601"	"-/866"	""	""	""	"1"	NA	-1	"NELL2"	"HGNC"	7751	"protein_coding"	"YES"	"CCDS44863.1"	"ENSP00000416341"	"Q99435"	"F8W1I8,F8W1A2,F8VRQ0"	"UPI000191537D"	"NM_001145107.1"	""	""	""	"13/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c1ce9752-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337209302325581	"WGS"	FALSE
"10669"	"NELL2"	4753	"mskcc.org"	"GRCh37"	"12"	45295798	45295798	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.38+11784G>T"	""	""	"ENST00000333837"	""	88	"58"	30	61	"61"	0	"NELL2,intron_variant,,ENST00000333837,NM_001145110.1;NELL2,intron_variant,,ENST00000552993,;NELL2,intron_variant,,ENST00000551949,;"	"A"	"ENSG00000184613"	"ENST00000333837"	"Transcript"	"intron_variant"	"-/2943"	"-/2520"	"-/839"	""	""	""	"1"	NA	-1	"NELL2"	"HGNC"	7751	"protein_coding"	""	"CCDS53781.1"	"ENSP00000327988"	"Q99435"	"F8W1I8,F8W1A2,F8VRQ0"	"UPI0001914C08"	"NM_001145110.1"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c1ce9d60-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340909090909091	"WGS"	FALSE
"10670"	"RNA5SP361"	0	"mskcc.org"	"GRCh37"	"12"	45507133	45507133	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000362686"	""	94	"88"	6	57	"57"	0	"RNA5SP361,upstream_gene_variant,,ENST00000362686,;"	"A"	"ENSG00000199556"	"ENST00000362686"	"Transcript"	"upstream_gene_variant"	"-/118"	""	""	""	""	""	"1"	"4421"	1	"RNA5SP361"	"HGNC"	43261	"rRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c1cea404-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"10671"	"ARID2"	196528	"mskcc.org"	"GRCh37"	"12"	46303668	46303668	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000334344"	""	99	"67"	32	51	"51"	0	"ARID2,downstream_gene_variant,,ENST00000334344,NM_152641.2;ARID2,downstream_gene_variant,,ENST00000444670,;ARID2,downstream_gene_variant,,ENST00000457135,;ARID2,downstream_gene_variant,,ENST00000479608,;"	"A"	"ENSG00000189079"	"ENST00000334344"	"Transcript"	"downstream_gene_variant"	"-/8642"	"-/5508"	"-/1835"	""	""	""	"1"	"1845"	1	"ARID2"	"HGNC"	18037	"protein_coding"	"YES"	"CCDS31783.1"	"ENSP00000335044"	"Q68CP9"	"Q96SQ4,F8WCU9"	"UPI00001D7973"	"NM_152641.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c1cecf4c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323232323232323	"WGS"	TRUE
"10672"	"SLC38A4"	55089	"mskcc.org"	"GRCh37"	"12"	47192359	47192359	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-112-5393T>A"	""	""	"ENST00000447411"	""	80	"73"	7	51	"51"	0	"SLC38A4,intron_variant,,ENST00000447411,NM_001143824.1;SLC38A4,intron_variant,,ENST00000266579,NM_018018.4;SLC38A4,intron_variant,,ENST00000547477,;SLC38A4,intron_variant,,ENST00000546940,;"	"T"	"ENSG00000139209"	"ENST00000447411"	"Transcript"	"intron_variant"	"-/3789"	"-/1644"	"-/547"	""	""	""	"1"	NA	-1	"SLC38A4"	"HGNC"	14679	"protein_coding"	"YES"	"CCDS8750.1"	"ENSP00000389843"	"Q969I6"	"F8VRD9,F8VQY9"	"UPI00000468F8"	"NM_001143824.1"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c1cee90a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0875	"WGS"	FALSE
"10673"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	49006111	49006111	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"62"	17	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c1cf5890-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215189873417722	"WGS"	FALSE
"10674"	"LINC00935"	0	"mskcc.org"	"GRCh37"	"12"	49118787	49118787	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000548380"	""	75	"69"	6	46	"46"	0	"LINC00935,upstream_gene_variant,,ENST00000548380,;LINC00935,upstream_gene_variant,,ENST00000548054,;"	"C"	"ENSG00000257987"	"ENST00000548380"	"Transcript"	"upstream_gene_variant"	"-/573"	"-/396"	"-/131"	""	""	""	"1"	"2431"	1	"LINC00935"	"HGNC"	48628	"protein_coding"	"YES"	""	"ENSP00000449932"	""	"F8WEG0"	"UPI00001605D7"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c1cf679a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"10675"	"SPATS2"	65244	"mskcc.org"	"GRCh37"	"12"	49836410	49836410	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-243-18143G>A"	""	""	"ENST00000553127"	""	85	"79"	6	30	"30"	0	"SPATS2,intron_variant,,ENST00000553127,;SPATS2,intron_variant,,ENST00000321898,;SPATS2,intron_variant,,ENST00000552918,NM_023071.3;SPATS2,intron_variant,,ENST00000547865,;SPATS2,intron_variant,,ENST00000551540,;SPATS2,intron_variant,,ENST00000550997,;SPATS2,intron_variant,,ENST00000549298,;SPATS2,intron_variant,,ENST00000549179,;SPATS2,intron_variant,,ENST00000549538,;SPATS2,intron_variant,,ENST00000548710,;SPATS2,intron_variant,,ENST00000548377,;SPATS2,intron_variant,,ENST00000548654,;SPATS2,intron_variant,,ENST00000550643,;SPATS2,intron_variant,,ENST00000548777,;SPATS2,intron_variant,,ENST00000552171,;SPATS2,intron_variant,,ENST00000549412,;SPATS2,intron_variant,,ENST00000549375,;SPATS2,intron_variant,,ENST00000548388,;RP11-161H23.8,non_coding_transcript_exon_variant,,ENST00000549563,;"	"A"	"ENSG00000123352"	"ENST00000553127"	"Transcript"	"intron_variant"	"-/3318"	"-/1638"	"-/545"	""	""	""	"1"	NA	1	"SPATS2"	"HGNC"	18650	"protein_coding"	"YES"	"CCDS31794.1"	"ENSP00000448228"	"Q86XZ4"	"F8W128,F8VZS5,F8VXP9,F8VXB3,F8VX46,F8VRH4"	"UPI0000171C5F"	""	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c1cfdda6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0705882352941176	"WGS"	FALSE
"10676"	"AQP5"	362	"mskcc.org"	"GRCh37"	"12"	50359052	50359052	"+"	"3'UTR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*92G>A"	""	""	"ENST00000293599"	"4/4"	91	"64"	27	67	"67"	0	"AQP5,3_prime_UTR_variant,,ENST00000293599,NM_001651.3;AQP6,upstream_gene_variant,,ENST00000551733,;RP11-469H8.6,upstream_gene_variant,,ENST00000550214,;RP11-469H8.6,upstream_gene_variant,,ENST00000552379,;RP11-469H8.6,upstream_gene_variant,,ENST00000550530,;AQP6,upstream_gene_variant,,ENST00000489786,;AQP5,downstream_gene_variant,,ENST00000553132,;"	"A"	"ENSG00000161798"	"ENST00000293599"	"Transcript"	"3_prime_UTR_variant"	"1038/1450"	"-/798"	"-/265"	""	""	""	"1"	NA	1	"AQP5"	"HGNC"	638	"protein_coding"	"YES"	"CCDS8793.1"	"ENSP00000293599"	"P55064"	""	"UPI000004A0C9"	"NM_001651.3"	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGG"	"c1d01032-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296703296703297	"WGS"	FALSE
"10677"	"SMAGP"	57228	"mskcc.org"	"GRCh37"	"12"	51666196	51666196	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000603798"	""	86	"79"	7	46	"46"	0	"SMAGP,upstream_gene_variant,,ENST00000603798,NM_001031628.1;SMAGP,upstream_gene_variant,,ENST00000603864,;SMAGP,upstream_gene_variant,,ENST00000398453,NM_001033873.1;DAZAP2,downstream_gene_variant,,ENST00000604900,;SMAGP,upstream_gene_variant,,ENST00000603838,;SMAGP,upstream_gene_variant,,ENST00000605426,;SMAGP,upstream_gene_variant,,ENST00000605627,;SMAGP,upstream_gene_variant,,ENST00000604188,;SMAGP,upstream_gene_variant,,ENST00000380103,;"	"C"	"ENSG00000170545"	"ENST00000603798"	"Transcript"	"upstream_gene_variant"	"-/2350"	"-/294"	"-/97"	""	""	""	"1"	"1522"	-1	"SMAGP"	"HGNC"	26918	"protein_coding"	"YES"	"CCDS44889.1"	"ENSP00000475068"	"Q0VAQ4"	"S4R466,S4R3E1,Q7L5E9"	"UPI00001FC254"	"NM_001031628.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c1d0b7d0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0813953488372093	"WGS"	FALSE
"10678"	"OS9"	10956	"mskcc.org"	"GRCh37"	"12"	58108631	58108631	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.580-912T>C"	""	""	"ENST00000315970"	""	82	"75"	7	41	"41"	0	"OS9,intron_variant,,ENST00000315970,NM_006812.3,NM_001017958.2;OS9,intron_variant,,ENST00000257966,NM_001261420.1,NM_001017956.2;OS9,intron_variant,,ENST00000389142,NM_001017957.2;OS9,intron_variant,,ENST00000435406,NM_001261422.1;OS9,intron_variant,,ENST00000551035,NM_001261421.1;OS9,intron_variant,,ENST00000552285,;OS9,intron_variant,,ENST00000389146,;OS9,intron_variant,,ENST00000439210,NM_001261423.1;OS9,intron_variant,,ENST00000413095,;OS9,intron_variant,,ENST00000547079,;OS9,intron_variant,,ENST00000550372,;RP11-571M6.7,intron_variant,,ENST00000549477,;OS9,intron_variant,,ENST00000549307,;OS9,intron_variant,,ENST00000553208,;OS9,intron_variant,,ENST00000552787,;OS9,upstream_gene_variant,,ENST00000550202,;OS9,upstream_gene_variant,,ENST00000550438,;OS9,upstream_gene_variant,,ENST00000550699,;"	"C"	"ENSG00000135506"	"ENST00000315970"	"Transcript"	"intron_variant"	"-/2691"	"-/2004"	"-/667"	""	""	""	"1"	NA	1	"OS9"	"HGNC"	16994	"protein_coding"	"YES"	"CCDS31843.1"	"ENSP00000318165"	"Q13438"	"Q9BR60"	"UPI0000130EAC"	"NM_006812.3,NM_001017958.2"	""	""	""	"5/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c1d37b14-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"10679"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	58422544	58422544	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"72"	21	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c1d38d2a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225806451612903	"WGS"	FALSE
"10680"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	60411898	60411898	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"52"	22	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c1d3e072-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297297297297297	"WGS"	FALSE
"10681"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	62036538	62036538	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"75"	11	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c1d41a7e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127906976744186	"WGS"	FALSE
"10682"	"FRS2"	10818	"mskcc.org"	"GRCh37"	"12"	69869689	69869689	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-329+5379G>C"	""	""	"ENST00000299293"	""	95	"66"	29	63	"63"	0	"FRS2,intron_variant,,ENST00000299293,NM_001278353.1,NM_001278356.1,NM_006654.4,NM_001278351.1;FRS2,intron_variant,,ENST00000550389,NM_001278357.1;FRS2,intron_variant,,ENST00000549921,;FRS2,intron_variant,,ENST00000550937,;FRS2,intron_variant,,ENST00000547219,;FRS2,intron_variant,,ENST00000548154,;FRS2,intron_variant,,ENST00000549092,;FRS2,intron_variant,,ENST00000550169,;FRS2,intron_variant,,ENST00000550316,;FRS2,intron_variant,,ENST00000547414,;"	"C"	"ENSG00000166225"	"ENST00000299293"	"Transcript"	"intron_variant"	"-/6861"	"-/1527"	"-/508"	""	""	""	"1"	NA	1	"FRS2"	"HGNC"	16971	"protein_coding"	"YES"	"CCDS41809.1"	"ENSP00000299293"	"Q8WU20"	"L7RTG7,F8VZI4,F8VZ12,F8VYZ7,F8VX65,F8VW66,F8VS98"	"UPI000003F143"	"NM_001278353.1,NM_001278356.1,NM_006654.4,NM_001278351.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c1d5b618-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305263157894737	"WGS"	FALSE
"10683"	"FRS2"	10818	"mskcc.org"	"GRCh37"	"12"	69871800	69871800	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-329+7490T>C"	""	""	"ENST00000299293"	""	79	"72"	7	60	"60"	0	"FRS2,intron_variant,,ENST00000299293,NM_001278353.1,NM_001278356.1,NM_006654.4,NM_001278351.1;FRS2,intron_variant,,ENST00000550389,NM_001278357.1;FRS2,intron_variant,,ENST00000549921,;FRS2,intron_variant,,ENST00000550937,;FRS2,intron_variant,,ENST00000547219,;FRS2,intron_variant,,ENST00000548154,;FRS2,intron_variant,,ENST00000549092,;FRS2,intron_variant,,ENST00000550169,;FRS2,intron_variant,,ENST00000550316,;FRS2,intron_variant,,ENST00000547414,;"	"C"	"ENSG00000166225"	"ENST00000299293"	"Transcript"	"intron_variant"	"-/6861"	"-/1527"	"-/508"	""	""	""	"1"	NA	1	"FRS2"	"HGNC"	16971	"protein_coding"	"YES"	"CCDS41809.1"	"ENSP00000299293"	"Q8WU20"	"L7RTG7,F8VZI4,F8VZ12,F8VYZ7,F8VX65,F8VW66,F8VS98"	"UPI000003F143"	"NM_001278353.1,NM_001278356.1,NM_006654.4,NM_001278351.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c1d5b992-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"10684"	"TSPAN8"	7103	"mskcc.org"	"GRCh37"	"12"	71660087	71660087	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-110+11044T>A"	""	""	"ENST00000393330"	""	84	"76"	8	55	"55"	0	"TSPAN8,intron_variant,,ENST00000393330,;TSPAN8,intron_variant,,ENST00000549421,;"	"T"	"ENSG00000127324"	"ENST00000393330"	"Transcript"	"intron_variant"	"-/1516"	"-/714"	"-/237"	""	""	""	"1"	NA	-1	"TSPAN8"	"HGNC"	11855	"protein_coding"	"YES"	"CCDS8999.1"	"ENSP00000377003"	"P19075"	""	"UPI000003EE40"	""	""	""	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c1d6210c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"10685"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	73921221	73921221	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"76"	6	61	"61"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c1d66aae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"10686"	"SYT1"	6857	"mskcc.org"	"GRCh37"	"12"	79538418	79538418	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17-72865C>A"	""	""	"ENST00000261205"	""	103	"72"	31	56	"56"	0	"SYT1,intron_variant,,ENST00000261205,NM_005639.2;SYT1,intron_variant,,ENST00000457153,;SYT1,intron_variant,,ENST00000393240,NM_001135805.1;SYT1,intron_variant,,ENST00000552744,NM_001135806.1;SYT1,intron_variant,,ENST00000446242,;SYT1,intron_variant,,ENST00000552624,;SYT1,intron_variant,,ENST00000549671,;SYT1,intron_variant,,ENST00000552074,;SYT1,intron_variant,,ENST00000551304,;SYT1,intron_variant,,ENST00000547046,;SYT1,intron_variant,,ENST00000549454,;"	"A"	"ENSG00000067715"	"ENST00000261205"	"Transcript"	"intron_variant"	"-/4808"	"-/1269"	"-/422"	""	""	""	"1"	NA	1	"SYT1"	"HGNC"	11509	"protein_coding"	"YES"	"CCDS9017.1"	"ENSP00000261205"	"P21579"	"F8W1U9,F8VZY3,F8VYH8,F8VP93,C9JX50"	"UPI000013669A"	"NM_005639.2"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c1d77e26-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.300970873786408	"WGS"	FALSE
"10687"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	80452627	80452627	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"77"	27	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c1d7b616-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259615384615385	"WGS"	FALSE
"10688"	"PTPRQ"	0	"mskcc.org"	"GRCh37"	"12"	81036133	81036133	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5904-6543G>C"	""	""	"ENST00000266688"	""	77	"61"	16	66	"66"	0	"PTPRQ,intron_variant,,ENST00000266688,;PTPRQ,intron_variant,,ENST00000547881,;PTPRQ,intron_variant,,ENST00000549355,;"	"C"	"ENSG00000139304"	"ENST00000266688"	"Transcript"	"intron_variant"	"-/6888"	"-/6888"	"-/2295"	""	""	""	"1"	NA	1	"PTPRQ"	"HGNC"	9679	"protein_coding"	"YES"	""	"ENSP00000266688"	"Q9UMZ3"	""	"UPI00020655BB"	""	""	""	""	"40/49"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"c1d7d18c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207792207792208	"WGS"	FALSE
"10689"	"PPFIA2"	8499	"mskcc.org"	"GRCh37"	"12"	81706533	81706533	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2642+13023G>T"	""	""	"ENST00000549396"	""	95	"62"	33	61	"61"	0	"PPFIA2,intron_variant,,ENST00000550584,NM_001220473.1;PPFIA2,intron_variant,,ENST00000549396,NM_003625.3,NM_001220476.1,NM_001282536.1;PPFIA2,intron_variant,,ENST00000549325,NM_001220474.1;PPFIA2,intron_variant,,ENST00000548586,;PPFIA2,intron_variant,,ENST00000552948,NM_001220475.1;PPFIA2,intron_variant,,ENST00000407050,NM_001220477.1;PPFIA2,intron_variant,,ENST00000550359,;PPFIA2,intron_variant,,ENST00000443686,NM_001220478.1;PPFIA2,intron_variant,,ENST00000333447,;PPFIA2,intron_variant,,ENST00000541570,NM_001220479.1;PPFIA2,intron_variant,,ENST00000541017,NM_001220480.1;PPFIA2,intron_variant,,ENST00000551147,;PPFIA2,intron_variant,,ENST00000550018,;RP11-121G22.3,downstream_gene_variant,,ENST00000549161,;RP11-121G22.3,downstream_gene_variant,,ENST00000552534,;RP11-121G22.3,downstream_gene_variant,,ENST00000553197,;RP11-121G22.3,downstream_gene_variant,,ENST00000551401,;RP11-121G22.3,downstream_gene_variant,,ENST00000550302,;RP11-121G22.3,downstream_gene_variant,,ENST00000547762,;PPFIA2,intron_variant,,ENST00000545296,;PPFIA2,intron_variant,,ENST00000551461,;"	"A"	"ENSG00000139220"	"ENST00000549396"	"Transcript"	"intron_variant"	"-/5363"	"-/3774"	"-/1257"	""	""	""	"1"	NA	-1	"PPFIA2"	"HGNC"	9246	"protein_coding"	"YES"	"CCDS55857.1"	"ENSP00000450337"	"O75334"	"H0YHK3,F8W1Y8,F8VU88"	"UPI0000168655"	"NM_003625.3,NM_001220476.1,NM_001282536.1"	""	""	""	"22/32"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c1d7f05e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347368421052632	"WGS"	FALSE
"10690"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	84480009	84480009	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"54"	31	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c1d8416c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364705882352941	"WGS"	FALSE
"10691"	"TSPAN19"	144448	"mskcc.org"	"GRCh37"	"12"	85418233	85418233	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.265-1055G>T"	""	""	"ENST00000532498"	""	105	"85"	20	55	"55"	0	"TSPAN19,intron_variant,,ENST00000532498,NM_001100917.1;TSPAN19,downstream_gene_variant,,ENST00000547836,;TSPAN19,intron_variant,,ENST00000547403,;TSPAN19,intron_variant,,ENST00000532628,;TSPAN19,intron_variant,,ENST00000552392,;TSPAN19,intron_variant,,ENST00000433494,;"	"A"	"ENSG00000231738"	"ENST00000532498"	"Transcript"	"intron_variant"	"-/998"	"-/747"	"-/248"	""	""	""	"1"	NA	-1	"TSPAN19"	"HGNC"	31886	"protein_coding"	"YES"	"CCDS44949.1"	"ENSP00000433816"	"P0C672"	"F8VZ36"	"UPI000003F7BD"	"NM_001100917.1"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c1d85af8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"10692"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	85894896	85894896	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"58"	34	73	"73"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c1d87f42-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.369565217391304	"WGS"	FALSE
"10693"	"MGAT4C"	25834	"mskcc.org"	"GRCh37"	"12"	86770297	86770297	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-239-42392A>G"	""	""	"ENST00000549405"	""	94	"71"	23	65	"65"	0	"MGAT4C,intron_variant,,ENST00000549405,;MGAT4C,intron_variant,,ENST00000602941,;MGAT4C,intron_variant,,ENST00000551921,;"	"C"	"ENSG00000182050"	"ENST00000549405"	"Transcript"	"intron_variant"	"-/2581"	"-/1437"	"-/478"	""	""	""	"1"	NA	-1	"MGAT4C"	"HGNC"	30871	"protein_coding"	""	"CCDS9030.1"	"ENSP00000449022"	"Q9UBM8"	"F8VWY2"	"UPI00001B002C"	""	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c1d89a36-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24468085106383	"WGS"	FALSE
"10694"	"RP11-202H2.1"	0	"mskcc.org"	"GRCh37"	"12"	87037799	87037799	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.367-44361A>G"	""	""	"ENST00000550014"	""	75	"55"	20	80	"80"	0	"MGAT4C,intron_variant,,ENST00000549405,;RP11-202H2.1,intron_variant,,ENST00000550014,;MGAT4C,intron_variant,,ENST00000551921,;"	"C"	"ENSG00000258185"	"ENST00000550014"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/450"	""	""	""	""	""	"1"	NA	-1	"RP11-202H2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c1d8a206-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"10695"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	90972729	90972729	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"67"	25	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c1d93bd0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"10696"	"CCER1"	196477	"mskcc.org"	"GRCh37"	"12"	91302204	91302204	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.233-2563G>A"	""	""	"ENST00000548187"	""	80	"48"	32	61	"61"	0	"CCER1,intron_variant,,ENST00000548187,;"	"T"	"ENSG00000197651"	"ENST00000548187"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/475"	""	""	""	""	""	"1"	NA	-1	"CCER1"	"HGNC"	28373	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c1d949b8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WGS"	FALSE
"10697"	"NUDT4"	11163	"mskcc.org"	"GRCh37"	"12"	93786252	93786252	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.100-2133T>G"	""	""	"ENST00000337179"	""	83	"77"	6	52	"52"	0	"NUDT4,intron_variant,,ENST00000337179,NM_199040.2;NUDT4,intron_variant,,ENST00000415493,NM_019094.4;NUDT4,intron_variant,,ENST00000549992,;NUDT4,intron_variant,,ENST00000547014,;NUDT4,intron_variant,,ENST00000548662,;NUDT4,intron_variant,,ENST00000546925,;NUDT4,intron_variant,,ENST00000550056,;"	"G"	"ENSG00000173598"	"ENST00000337179"	"Transcript"	"intron_variant"	"-/4855"	"-/546"	"-/181"	""	""	""	"1"	NA	1	"NUDT4"	"HGNC"	8051	"protein_coding"	"YES"	"CCDS9044.1"	"ENSP00000338352"	"Q9NZJ9"	""	"UPI00000730C3"	"NM_199040.2"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c1d9b60a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"10698"	"RP11-167N24.3"	0	"mskcc.org"	"GRCh37"	"12"	95830977	95830977	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000550470"	""	92	"65"	27	66	"66"	0	"RP11-167N24.3,upstream_gene_variant,,ENST00000550470,;RNU6-735P,downstream_gene_variant,,ENST00000410612,;RP11-167N24.3,upstream_gene_variant,,ENST00000551610,;"	"T"	"ENSG00000257943"	"ENST00000550470"	"Transcript"	"upstream_gene_variant"	"-/458"	""	""	""	""	""	"1"	"373"	-1	"RP11-167N24.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c1da30f8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293478260869565	"WGS"	FALSE
"10699"	"HAL"	3034	"mskcc.org"	"GRCh37"	"12"	96362569	96362569	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000261208"	""	86	"58"	28	52	"52"	0	"HAL,downstream_gene_variant,,ENST00000261208,NM_002108.3;HAL,downstream_gene_variant,,ENST00000541929,NM_001258333.1;AMDHD1,downstream_gene_variant,,ENST00000266736,NM_152435.2;HAL,downstream_gene_variant,,ENST00000544080,;AMDHD1,downstream_gene_variant,,ENST00000548310,;"	"A"	"ENSG00000084110"	"ENST00000261208"	"Transcript"	"downstream_gene_variant"	"-/3913"	"-/1974"	"-/657"	""	""	""	"1"	"3871"	-1	"HAL"	"HGNC"	4806	"protein_coding"	"YES"	"CCDS9058.1"	"ENSP00000261208"	"P42357"	"Q2PH61,Q2PH60,Q2PH56"	"UPI000012CE8E"	"NM_002108.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"c1da7482-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325581395348837	"WGS"	FALSE
"10700"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	98372375	98372375	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"66"	23	72	"72"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c1daccd4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258426966292135	"WGS"	FALSE
"10701"	"ANKS1B"	56899	"mskcc.org"	"GRCh37"	"12"	100319053	100319053	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.134+58829G>T"	""	""	"ENST00000547776"	""	83	"58"	25	62	"62"	0	"ANKS1B,intron_variant,,ENST00000547776,NM_152788.4;ANKS1B,intron_variant,,ENST00000329257,;ANKS1B,intron_variant,,ENST00000547010,;ANKS1B,intron_variant,,ENST00000549866,;"	"A"	"ENSG00000185046"	"ENST00000547776"	"Transcript"	"intron_variant"	"-/3885"	"-/3747"	"-/1248"	""	""	""	"1"	NA	-1	"ANKS1B"	"HGNC"	24600	"protein_coding"	"YES"	"CCDS55872.1"	"ENSP00000449629"	"Q7Z6G8"	"R4GN73,R4GN70,R4GN07"	"UPI00003FE521"	"NM_152788.4"	""	""	""	"1/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c1db2512-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301204819277108	"WGS"	FALSE
"10702"	"SCYL2"	55681	"mskcc.org"	"GRCh37"	"12"	100688407	100688407	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.335+2969T>A"	""	""	"ENST00000360820"	""	23	"19"	4	14	"14"	0	"SCYL2,intron_variant,,ENST00000360820,NM_017988.4;SCYL2,intron_variant,,ENST00000549687,;SCYL2,intron_variant,,ENST00000548392,;SCYL2,intron_variant,,ENST00000550067,;SCYL2,downstream_gene_variant,,ENST00000549486,;"	"A"	"ENSG00000136021"	"ENST00000360820"	"Transcript"	"intron_variant"	"-/5779"	"-/2790"	"-/929"	""	""	""	"1"	NA	1	"SCYL2"	"HGNC"	19286	"protein_coding"	"YES"	"CCDS9076.1"	"ENSP00000354061"	"Q6P3W7"	"F8VSC5,F8VPW3"	"UPI000004FD59"	"NM_017988.4"	""	""	""	"3/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c1db4812-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"10703"	"ANO4"	121601	"mskcc.org"	"GRCh37"	"12"	101115679	101115679	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.22+4354T>G"	""	""	"ENST00000538618"	""	74	"51"	23	37	"37"	0	"ANO4,intron_variant,,ENST00000538618,;ANO4,intron_variant,,ENST00000549155,;"	"G"	"ENSG00000151572"	"ENST00000538618"	"Transcript"	"intron_variant"	"-/1385"	"-/1071"	"-/356"	""	""	""	"1"	NA	1	"ANO4"	"HGNC"	23837	"protein_coding"	""	""	"ENSP00000443751"	""	"F8VW62,F5H834"	"UPI0002065644"	""	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c1db565e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310810810810811	"WGS"	FALSE
"10704"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	102887585	102887585	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"76"	16	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c1dbaf32-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"10705"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	103224818	103224818	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"66"	26	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c1dbba72-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282608695652174	"WGS"	FALSE
"10706"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	103413676	103413676	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs559823147"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"67"	25	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs559823147"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c1dbc6e8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"10707"	"C12orf75"	387882	"mskcc.org"	"GRCh37"	"12"	105669429	105669429	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.67+40295G>A"	""	""	"ENST00000548458"	""	44	"34"	10	29	"29"	0	"C12orf75,intron_variant,,ENST00000548458,;"	"A"	"ENSG00000235162"	"ENST00000548458"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/887"	""	""	""	""	""	"1"	NA	1	"C12orf75"	"HGNC"	35164	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c1dccda4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"10708"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	106311760	106311760	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"51"	27	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c1dcee42-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"10709"	"EEF1B2P4"	0	"mskcc.org"	"GRCh37"	"12"	107290343	107290343	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"rs561745455"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000551398"	""	15	"10"	5	8	"8"	0	"EEF1B2P4,downstream_gene_variant,,ENST00000551398,;"	"A"	"ENSG00000257119"	"ENST00000551398"	"Transcript"	"downstream_gene_variant"	"-/348"	""	""	""	""	"rs561745455"	"1"	"4718"	-1	"EEF1B2P4"	"HGNC"	32475	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c1dd1412-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"10710"	"WSCD2"	9671	"mskcc.org"	"GRCh37"	"12"	108622987	108622987	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.979+2046C>T"	""	""	"ENST00000332082"	""	76	"50"	26	51	"51"	0	"WSCD2,intron_variant,,ENST00000332082,;WSCD2,intron_variant,,ENST00000261400,;WSCD2,intron_variant,,ENST00000547525,NM_014653.2;WSCD2,intron_variant,,ENST00000549903,;WSCD2,downstream_gene_variant,,ENST00000551638,;WSCD2,intron_variant,,ENST00000546629,;"	"T"	"ENSG00000075035"	"ENST00000332082"	"Transcript"	"intron_variant"	"-/4710"	"-/1698"	"-/565"	""	""	""	"1"	NA	1	"WSCD2"	"HGNC"	29117	"protein_coding"	"YES"	"CCDS41828.1"	"ENSP00000331933"	"Q2TBF2"	"F8W030"	"UPI00001C1F3A"	""	""	""	""	"7/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c1dd6084-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342105263157895	"WGS"	FALSE
"10711"	"FOXN4"	121643	"mskcc.org"	"GRCh37"	"12"	109728908	109728908	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.87-817G>A"	""	""	"ENST00000299162"	""	92	"65"	27	49	"49"	0	"FOXN4,intron_variant,,ENST00000299162,NM_213596.2;FOXN4,intron_variant,,ENST00000355216,;FOXN4,upstream_gene_variant,,ENST00000468516,;FOXN4,upstream_gene_variant,,ENST00000423960,;"	"T"	"ENSG00000139445"	"ENST00000299162"	"Transcript"	"intron_variant"	"-/3350"	"-/1554"	"-/517"	""	""	""	"1"	NA	-1	"FOXN4"	"HGNC"	21399	"protein_coding"	"YES"	"CCDS9126.2"	"ENSP00000299162"	"Q96NZ1"	""	"UPI0000551BEE"	"NM_213596.2"	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c1ddb624-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293478260869565	"WGS"	FALSE
"10712"	"RPL6"	6128	"mskcc.org"	"GRCh37"	"12"	112847544	112847544	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000424576"	""	95	"61"	34	47	"47"	0	"RPL6,intron_variant,,ENST00000551291,;RPL6,intron_variant,,ENST00000550238,;RPL6,upstream_gene_variant,,ENST00000424576,NM_001024662.1;RPL6,upstream_gene_variant,,ENST00000550566,;RPL6,upstream_gene_variant,,ENST00000202773,NM_000970.3;RPL6,upstream_gene_variant,,ENST00000548343,;RPL6,upstream_gene_variant,,ENST00000549847,;RPL6,upstream_gene_variant,,ENST00000553213,;RPL6,upstream_gene_variant,,ENST00000546368,;RPL6,upstream_gene_variant,,ENST00000551041,;RPL6,upstream_gene_variant,,ENST00000553205,;RPL6,upstream_gene_variant,,ENST00000552455,;RPL6,upstream_gene_variant,,ENST00000549562,;"	"T"	"ENSG00000089009"	"ENST00000424576"	"Transcript"	"upstream_gene_variant"	"-/1074"	"-/867"	"-/288"	""	""	""	"1"	"144"	-1	"RPL6"	"HGNC"	10362	"protein_coding"	"YES"	"CCDS9162.1"	"ENSP00000403172"	"Q02878"	"U3KQR5,F8VWR1,F8VU16,F8VZA3,F8VZ45,F8VR69"	"UPI0000001608"	"NM_001024662.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c1df0f88-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357894736842105	"WGS"	FALSE
"10713"	"RPH3A"	22895	"mskcc.org"	"GRCh37"	"12"	113230858	113230858	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-19+790G>A"	""	""	"ENST00000389385"	""	79	"70"	9	56	"56"	0	"RPH3A,intron_variant,,ENST00000389385,NM_001143854.1,NM_014954.3;RPH3A,intron_variant,,ENST00000415485,;RPH3A,intron_variant,,ENST00000447659,;RPH3A,intron_variant,,ENST00000551052,;RPH3A,intron_variant,,ENST00000543106,;RPH3A,intron_variant,,ENST00000548866,;RPH3A,intron_variant,,ENST00000551593,;RPH3A,intron_variant,,ENST00000547728,;RPH3A,intron_variant,,ENST00000550901,;RPH3A,intron_variant,,ENST00000551198,;RPH3A,intron_variant,,ENST00000552667,;RPH3A,intron_variant,,ENST00000548197,;RPH3A,intron_variant,,ENST00000553114,;RPH3A,intron_variant,,ENST00000546703,;RPH3A,intron_variant,,ENST00000547840,;RPH3A,intron_variant,,ENST00000551748,;RPH3A,intron_variant,,ENST00000549769,;RPH3A,intron_variant,,ENST00000549736,;RPH3A,intron_variant,,ENST00000547686,;RPH3A,intron_variant,,ENST00000546426,;RPH3A,intron_variant,,ENST00000552679,;RPH3A,intron_variant,,ENST00000547099,;"	"A"	"ENSG00000089169"	"ENST00000389385"	"Transcript"	"intron_variant"	"-/4679"	"-/2085"	"-/694"	""	""	""	"1"	NA	1	"RPH3A"	"HGNC"	17056	"protein_coding"	"YES"	"CCDS44979.1"	"ENSP00000374036"	"Q9Y2J0"	"F8W1K7,F8W1A3,F8W131,F8W116,F8VZS2,F8VVK8,F8VV58,F8VTR7,F8VR41,F8VNW3,F8VNU2,F8VNP7"	"UPI000013456D"	"NM_001143854.1,NM_014954.3"	""	""	""	"2/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c1df2766-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113924050632911	"WGS"	FALSE
"10714"	"OSTF1P1"	0	"mskcc.org"	"GRCh37"	"12"	115030078	115030078	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000550242"	""	86	"58"	28	62	"62"	0	"OSTF1P1,downstream_gene_variant,,ENST00000550242,;"	"A"	"ENSG00000258244"	"ENST00000550242"	"Transcript"	"downstream_gene_variant"	"-/609"	""	""	""	""	""	"1"	"3471"	1	"OSTF1P1"	"HGNC"	31439	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c1df9f52-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325581395348837	"WGS"	FALSE
"10715"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	115070385	115070385	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"84"	8	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c1dfa10a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"10716"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	115642271	115642271	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"63"	28	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c1dfcd60-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"10717"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	115680892	115680892	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"84"	5	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c1dfcf90-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0561797752808989	"WGS"	FALSE
"10718"	"MED13L"	23389	"mskcc.org"	"GRCh37"	"12"	116394654	116394654	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000281928"	""	101	"72"	29	63	"63"	0	"MED13L,downstream_gene_variant,,ENST00000281928,NM_015335.4;RP11-493P1.2,upstream_gene_variant,,ENST00000549725,;MED13L,downstream_gene_variant,,ENST00000552023,;"	"A"	"ENSG00000123066"	"ENST00000281928"	"Transcript"	"downstream_gene_variant"	"-/9530"	"-/6633"	"-/2210"	""	""	""	"1"	"1727"	-1	"MED13L"	"HGNC"	22962	"protein_coding"	"YES"	"CCDS9177.1"	"ENSP00000281928"	"Q71F56"	"Q9H6Z7"	"UPI0000241C1E"	"NM_015335.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"c1e007a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287128712871287	"WGS"	FALSE
"10719"	"SUDS3"	64426	"mskcc.org"	"GRCh37"	"12"	118829216	118829216	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.517+129C>T"	""	""	"ENST00000543473"	""	95	"70"	25	45	"45"	0	"SUDS3,intron_variant,,ENST00000543473,NM_022491.2;SUDS3,intron_variant,,ENST00000397564,;"	"T"	"ENSG00000111707"	"ENST00000543473"	"Transcript"	"intron_variant"	"-/4897"	"-/987"	"-/328"	""	""	""	"1"	NA	1	"SUDS3"	"HGNC"	29545	"protein_coding"	"YES"	"CCDS44993.1"	"ENSP00000443988"	"Q9H7L9"	"Q52LB7,Q2M2F3"	"UPI00001C1F43"	"NM_022491.2"	""	""	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c1e0e736-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"10720"	"ENSR00001467692"	0	"mskcc.org"	"GRCh37"	"12"	118871247	118871247	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001467692"	""	84	"61"	23	54	"54"	0	""	"T"	""	"ENSR00001467692"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c1e0e952-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273809523809524	"WGS"	FALSE
"10721"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	118939785	118939785	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"88"	24	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c1e0eefc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"10722"	"GCN1L1"	10985	"mskcc.org"	"GRCh37"	"12"	120624957	120624957	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.122-2267A>G"	""	""	"ENST00000300648"	""	111	"77"	34	48	"48"	0	"GCN1L1,intron_variant,,ENST00000300648,NM_006836.1;"	"C"	"ENSG00000089154"	"ENST00000300648"	"Transcript"	"intron_variant"	"-/8675"	"-/8016"	"-/2671"	""	""	""	"1"	NA	-1	"GCN1L1"	"HGNC"	4199	"protein_coding"	"YES"	"CCDS41847.1"	"ENSP00000300648"	"Q92616"	"B4DM32"	"UPI00001FBC69"	"NM_006836.1"	""	""	""	"2/57"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c1e1644a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306306306306306	"WGS"	FALSE
"10723"	"PLA2G1B"	5319	"mskcc.org"	"GRCh37"	"12"	120757964	120757964	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000308366"	""	106	"98"	8	51	"51"	0	"PLA2G1B,downstream_gene_variant,,ENST00000308366,NM_000928.2;PLA2G1B,downstream_gene_variant,,ENST00000549767,;PLA2G1B,downstream_gene_variant,,ENST00000423423,;"	"A"	"ENSG00000170890"	"ENST00000308366"	"Transcript"	"downstream_gene_variant"	"-/565"	"-/447"	"-/148"	""	""	""	"1"	"1950"	-1	"PLA2G1B"	"HGNC"	9030	"protein_coding"	"YES"	"CCDS9195.1"	"ENSP00000312286"	"P04054"	"F8W062"	"UPI0000048FD9"	"NM_000928.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c1e18ac4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0754716981132075	"WGS"	FALSE
"10724"	"GATC"	283459	"mskcc.org"	"GRCh37"	"12"	120887779	120887779	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.254+3147G>C"	""	""	"ENST00000551765"	""	77	"68"	9	53	"53"	0	"GATC,intron_variant,,ENST00000551765,NM_176818.2;AL021546.6,intron_variant,,ENST00000551806,;GATC,intron_variant,,ENST00000229384,;TRIAP1,upstream_gene_variant,,ENST00000546954,NM_016399.2;TRIAP1,upstream_gene_variant,,ENST00000302432,;GATC,intron_variant,,ENST00000548171,;RPL31P52,downstream_gene_variant,,ENST00000407532,;"	"C"	"ENSG00000257218"	"ENST00000551765"	"Transcript"	"intron_variant"	"-/2081"	"-/411"	"-/136"	""	""	""	"1"	NA	1	"GATC"	"HGNC"	25068	"protein_coding"	"YES"	"CCDS31911.1"	"ENSP00000446872"	"O43716"	"J3KMY1"	"UPI0000124E0C"	"NM_176818.2"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c1e19fd2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116883116883117	"WGS"	FALSE
"10725"	"SPPL3"	121665	"mskcc.org"	"GRCh37"	"12"	121308531	121308531	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.23+33117G>T"	""	""	"ENST00000353487"	""	86	"59"	27	54	"52"	2	"SPPL3,intron_variant,,ENST00000353487,NM_139015.4;SPPL3,intron_variant,,ENST00000536996,;SPPL3,intron_variant,,ENST00000543608,;SPPL3,intron_variant,,ENST00000543854,;"	"A"	"ENSG00000157837"	"ENST00000353487"	"Transcript"	"intron_variant"	"-/4148"	"-/1155"	"-/384"	""	""	""	"1"	NA	-1	"SPPL3"	"HGNC"	30424	"protein_coding"	"YES"	"CCDS9208.1"	"ENSP00000288680"	"Q8TCT6"	"F5H7J2,F5H6I1,F5H4Y6,F5H4L1,F5H2A2"	"UPI0000013590"	"NM_139015.4"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c1e1cdcc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313953488372093	"WGS"	FALSE
"10726"	"TMEM120B"	144404	"mskcc.org"	"GRCh37"	"12"	122177553	122177553	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs768107363"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.70-3982A>G"	""	""	"ENST00000449592"	""	99	"89"	10	43	"43"	0	"TMEM120B,intron_variant,,ENST00000449592,NM_001080825.2;TMEM120B,upstream_gene_variant,,ENST00000541467,;TMEM120B,intron_variant,,ENST00000342607,;"	"G"	"ENSG00000188735"	"ENST00000449592"	"Transcript"	"intron_variant"	"-/7461"	"-/1020"	"-/339"	""	""	"rs768107363"	"1"	NA	1	"TMEM120B"	"HGNC"	32008	"protein_coding"	"YES"	"CCDS41852.1"	"ENSP00000404991"	"A0PK00"	""	"UPI0000160852"	"NM_001080825.2"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c1e26066-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101010101010101	"WGS"	FALSE
"10727"	"hsa-mir-8072"	102466877	"mskcc.org"	"GRCh37"	"12"	123848854	123848854	"+"	"RNA"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.440T>A"	""	""	"ENST00000602918"	"1/1"	78	"73"	5	47	"47"	0	"SBNO1,intron_variant,,ENST00000602750,;SBNO1,intron_variant,,ENST00000602398,;hsa-mir-8072,non_coding_transcript_exon_variant,,ENST00000602918,;hsa-mir-8072,upstream_gene_variant,,ENST00000543072,;"	"A"	"ENSG00000256092"	"ENST00000602918"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"440/1920"	""	""	""	""	""	"1"	NA	1	"hsa-mir-8072"	"miRBase"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"c1e343c8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0641025641025641	"WGS"	FALSE
"10728"	"GTF2H3"	2967	"mskcc.org"	"GRCh37"	"12"	124131668	124131668	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.201-842G>C"	""	""	"ENST00000543341"	""	59	"52"	7	48	"48"	0	"GTF2H3,intron_variant,,ENST00000543341,NM_001271868.1,NM_001516.4;GTF2H3,intron_variant,,ENST00000228955,NM_001271867.1;GTF2H3,intron_variant,,ENST00000536375,NM_001271866.1;GTF2H3,intron_variant,,ENST00000538845,;GTF2H3,intron_variant,,ENST00000539994,;GTF2H3,intron_variant,,ENST00000538533,;GTF2H3,upstream_gene_variant,,ENST00000543154,;GTF2H3,intron_variant,,ENST00000543415,;GTF2H3,intron_variant,,ENST00000543005,;GTF2H3,intron_variant,,ENST00000537695,;GTF2H3,intron_variant,,ENST00000537368,;GTF2H3,intron_variant,,ENST00000542279,;"	"C"	"ENSG00000111358"	"ENST00000543341"	"Transcript"	"intron_variant"	"-/3329"	"-/927"	"-/308"	""	""	""	"1"	NA	1	"GTF2H3"	"HGNC"	4657	"protein_coding"	"YES"	"CCDS9252.1"	"ENSP00000445162"	"Q13889"	"B4DNZ6"	"UPI00000622FE"	"NM_001271868.1,NM_001516.4"	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c1e3807c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.11864406779661	"WGS"	FALSE
"10729"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	126165240	126165240	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"11"	6	6	"6"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c1e461ea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WGS"	FALSE
"10730"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	127315031	127315031	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"80"	6	53	"53"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c1e48cc4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"10731"	"TMEM132C"	92293	"mskcc.org"	"GRCh37"	"12"	128899308	128899308	"+"	"Silent"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.117A>T"	"p.="	"p.I39I"	"ENST00000435159"	"2/9"	92	"86"	6	51	"51"	0	"TMEM132C,synonymous_variant,p.=,ENST00000435159,NM_001136103.2;"	"T"	"ENSG00000181234"	"ENST00000435159"	"Transcript"	"synonymous_variant"	"117/4947"	"117/3327"	"39/1108"	"I"	"atA/atT"	""	"1"	NA	1	"TMEM132C"	"HGNC"	25436	"protein_coding"	"YES"	""	"ENSP00000410852"	"Q8N3T6"	"F5H439,E9PC33"	"UPI0001C0B37C"	"NM_001136103.2"	""	""	"2/9"	""	"hmmpanther:PTHR13388,hmmpanther:PTHR13388:SF4"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"c1e51130-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"10732"	"GLT1D1"	144423	"mskcc.org"	"GRCh37"	"12"	129411688	129411688	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"rs77855375"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.376-18183G>T"	""	""	"ENST00000281703"	""	78	"57"	21	52	"52"	0	"GLT1D1,missense_variant,p.Val202Leu,ENST00000442111,;GLT1D1,missense_variant,p.Val207Leu,ENST00000537468,;GLT1D1,missense_variant,p.Val119Leu,ENST00000542193,;GLT1D1,intron_variant,,ENST00000281703,NM_144669.1;GLT1D1,3_prime_UTR_variant,,ENST00000441390,;GLT1D1,3_prime_UTR_variant,,ENST00000413816,;GLT1D1,3_prime_UTR_variant,,ENST00000539044,;"	"T"	"ENSG00000151948"	"ENST00000281703"	"Transcript"	"intron_variant"	"-/2721"	"-/801"	"-/266"	""	""	"rs77855375"	"1"	NA	1	"GLT1D1"	"HGNC"	26483	"protein_coding"	"YES"	"CCDS9265.1"	"ENSP00000281703"	"Q96MS3"	""	"UPI0000070E33"	"NM_144669.1"	""	""	""	"4/7"	""	"A:0.0014"	"A:0"	"A:0"	NA	"A:0.0069"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c1e57bac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.269230769230769	"WGS"	FALSE
"10733"	"TMEM132D"	121256	"mskcc.org"	"GRCh37"	"12"	129867966	129867966	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1116-45604G>C"	""	""	"ENST00000422113"	""	71	"49"	22	64	"64"	0	"TMEM132D,intron_variant,,ENST00000422113,NM_133448.2;"	"G"	"ENSG00000151952"	"ENST00000422113"	"Transcript"	"intron_variant"	"-/5776"	"-/3300"	"-/1099"	""	""	""	"1"	NA	-1	"TMEM132D"	"HGNC"	29411	"protein_coding"	"YES"	"CCDS9266.1"	"ENSP00000408581"	"Q14C87"	""	"UPI000023759C"	"NM_133448.2"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c1e5ac44-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309859154929577	"WGS"	FALSE
"10734"	"TMEM132D"	121256	"mskcc.org"	"GRCh37"	"12"	129910686	129910686	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1116-88324C>T"	""	""	"ENST00000422113"	""	81	"52"	29	59	"59"	0	"TMEM132D,intron_variant,,ENST00000422113,NM_133448.2;"	"A"	"ENSG00000151952"	"ENST00000422113"	"Transcript"	"intron_variant"	"-/5776"	"-/3300"	"-/1099"	""	""	""	"1"	NA	-1	"TMEM132D"	"HGNC"	29411	"protein_coding"	"YES"	"CCDS9266.1"	"ENSP00000408581"	"Q14C87"	""	"UPI000023759C"	"NM_133448.2"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c1e5bbda-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358024691358025	"WGS"	FALSE
"10735"	"TMEM132D"	121256	"mskcc.org"	"GRCh37"	"12"	130078700	130078700	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs543224667"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.969-62950G>A"	""	""	"ENST00000422113"	""	87	"78"	9	57	"57"	0	"TMEM132D,intron_variant,,ENST00000422113,NM_133448.2;"	"T"	"ENSG00000151952"	"ENST00000422113"	"Transcript"	"intron_variant"	"-/5776"	"-/3300"	"-/1099"	""	""	"rs543224667"	"1"	NA	-1	"TMEM132D"	"HGNC"	29411	"protein_coding"	"YES"	"CCDS9266.1"	"ENSP00000408581"	"Q14C87"	""	"UPI000023759C"	"NM_133448.2"	""	""	""	"2/8"	""	"T:0.0004"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.002"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c1e5c5a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"10736"	"TMEM132D"	121256	"mskcc.org"	"GRCh37"	"12"	130358869	130358869	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.79+28937G>A"	""	""	"ENST00000422113"	""	86	"80"	6	49	"49"	0	"TMEM132D,intron_variant,,ENST00000422113,NM_133448.2;"	"T"	"ENSG00000151952"	"ENST00000422113"	"Transcript"	"intron_variant"	"-/5776"	"-/3300"	"-/1099"	""	""	""	"1"	NA	-1	"TMEM132D"	"HGNC"	29411	"protein_coding"	"YES"	"CCDS9266.1"	"ENSP00000408581"	"Q14C87"	""	"UPI000023759C"	"NM_133448.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c1e5df66-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"10737"	"RPS6P20"	0	"mskcc.org"	"GRCh37"	"12"	131772363	131772363	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"rs369819364"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000464655"	""	118	"109"	9	47	"47"	0	"RPS6P20,downstream_gene_variant,,ENST00000464655,;"	"A"	"ENSG00000226356"	"ENST00000464655"	"Transcript"	"downstream_gene_variant"	"-/1109"	""	""	""	""	"rs369819364"	"1"	"4250"	-1	"RPS6P20"	"HGNC"	36940	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c1e6c840-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.076271186440678	"WGS"	FALSE
"10738"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	132044292	132044292	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	52	"47"	5	23	"23"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c1e7071a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0961538461538462	"WGS"	FALSE
"10739"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	19075242	19075242	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"69"	10	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c1e96550-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126582278481013	"WGS"	FALSE
"10740"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	23333233	23333233	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"54"	22	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c1eae66e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289473684210526	"WGS"	FALSE
"10741"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	27110243	27110243	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"61"	23	58	"58"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c1ec522e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273809523809524	"WGS"	FALSE
"10742"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	27110254	27110254	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"58"	19	56	"56"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c1ec5314-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246753246753247	"WGS"	FALSE
"10743"	"LINC00297"	100874059	"mskcc.org"	"GRCh37"	"13"	30467475	30467475	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000453470"	""	121	"110"	11	64	"64"	0	"LINC00297,upstream_gene_variant,,ENST00000453470,;"	"T"	"ENSG00000224329"	"ENST00000453470"	"Transcript"	"upstream_gene_variant"	"-/913"	""	""	""	""	""	"1"	"4933"	-1	"LINC00297"	"HGNC"	39210	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c1ed0aa2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"10744"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	32132736	32132736	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"70"	28	65	"64"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c1ed726c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"10745"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	39680599	39680599	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"78"	22	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c1eebc44-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22	"WGS"	FALSE
"10746"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	39798935	39798935	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"53"	25	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c1eec09a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.320512820512821	"WGS"	FALSE
"10747"	"ENSR00001509222"	0	"mskcc.org"	"GRCh37"	"13"	42929590	42929590	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001509222"	""	92	"65"	27	61	"61"	0	""	"T"	""	"ENSR00001509222"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c1ef82f0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293478260869565	"WGS"	FALSE
"10748"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	43261894	43261894	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"63"	32	54	"54"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c1ef94fc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336842105263158	"WGS"	FALSE
"10749"	"EPSTI1"	94240	"mskcc.org"	"GRCh37"	"13"	43461111	43461111	"+"	"3'UTR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1275C>T"	""	""	"ENST00000313640"	"13/13"	83	"62"	21	51	"51"	0	"EPSTI1,3_prime_UTR_variant,,ENST00000313640,NM_001002264.2;EPSTI1,3_prime_UTR_variant,,ENST00000313624,NM_033255.3;EPSTI1,downstream_gene_variant,,ENST00000398762,;EPSTI1,non_coding_transcript_exon_variant,,ENST00000540470,;"	"A"	"ENSG00000133106"	"ENST00000313640"	"Transcript"	"3_prime_UTR_variant"	"2573/3160"	"-/1233"	"-/410"	""	""	""	"1"	NA	-1	"EPSTI1"	"HGNC"	16465	"protein_coding"	"YES"	"CCDS31964.1"	"ENSP00000318982"	"Q96J88"	"F5H799"	"UPI0000074657"	"NM_001002264.2"	""	""	"13/13"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c1ef9d44-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253012048192771	"WGS"	FALSE
"10750"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	44367505	44367505	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"74"	6	60	"60"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c1efc936-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"10751"	"SMIM2-AS1"	101929212	"mskcc.org"	"GRCh37"	"13"	44801275	44801275	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.220-11689C>T"	""	""	"ENST00000437867"	""	111	"82"	29	62	"62"	0	"SMIM2-AS1,intron_variant,,ENST00000437867,;"	"T"	"ENSG00000227258"	"ENST00000437867"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/266"	""	""	""	""	""	"1"	NA	1	"SMIM2-AS1"	"HGNC"	42674	"antisense"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c1efdc82-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261261261261261	"WGS"	FALSE
"10752"	"GTF2F2"	2963	"mskcc.org"	"GRCh37"	"13"	45818064	45818064	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.387-8942G>T"	""	""	"ENST00000340473"	""	116	"86"	30	47	"45"	2	"GTF2F2,intron_variant,,ENST00000340473,NM_004128.2;GTF2F2,intron_variant,,ENST00000494087,;GTF2F2,intron_variant,,ENST00000461904,;"	"T"	"ENSG00000188342"	"ENST00000340473"	"Transcript"	"intron_variant"	"-/1432"	"-/750"	"-/249"	""	""	""	"1"	NA	1	"GTF2F2"	"HGNC"	4653	"protein_coding"	"YES"	"CCDS9395.1"	"ENSP00000340823"	"P13984"	""	"UPI0000000C36"	"NM_004128.2"	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c1f01d50-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258620689655172	"WGS"	FALSE
"10753"	"GTF2F2"	2963	"mskcc.org"	"GRCh37"	"13"	45818065	45818065	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.387-8941G>T"	""	""	"ENST00000340473"	""	114	"84"	30	47	"47"	0	"GTF2F2,intron_variant,,ENST00000340473,NM_004128.2;GTF2F2,intron_variant,,ENST00000494087,;GTF2F2,intron_variant,,ENST00000461904,;"	"T"	"ENSG00000188342"	"ENST00000340473"	"Transcript"	"intron_variant"	"-/1432"	"-/750"	"-/249"	""	""	""	"1"	NA	1	"GTF2F2"	"HGNC"	4653	"protein_coding"	"YES"	"CCDS9395.1"	"ENSP00000340823"	"P13984"	""	"UPI0000000C36"	"NM_004128.2"	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c1f01e2c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"10754"	"LRRC63"	220416	"mskcc.org"	"GRCh37"	"13"	46853984	46853984	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000595396"	""	71	"53"	18	56	"56"	0	"LRRC63,downstream_gene_variant,,ENST00000595396,NM_001282460.1;"	"T"	"ENSG00000173988"	"ENST00000595396"	"Transcript"	"downstream_gene_variant"	"-/2327"	"-/1764"	"-/587"	""	""	""	"1"	"2483"	1	"LRRC63"	"HGNC"	34296	"protein_coding"	"YES"	"CCDS61325.1"	"ENSP00000469337"	""	"M0QXR7"	"UPI0002742DC2"	"NM_001282460.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c1f06a80-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253521126760563	"WGS"	FALSE
"10755"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	47895892	47895892	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"89"	6	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c1f092da-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0631578947368421	"WGS"	FALSE
"10756"	"FNDC3A"	22862	"mskcc.org"	"GRCh37"	"13"	49553246	49553246	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-40+2933C>T"	""	""	"ENST00000492622"	""	91	"65"	26	64	"64"	0	"FNDC3A,intron_variant,,ENST00000492622,NM_001079673.1;FNDC3A,intron_variant,,ENST00000541916,NM_001278438.1;FNDC3A,intron_variant,,ENST00000484074,;FNDC3A,intron_variant,,ENST00000378383,;"	"T"	"ENSG00000102531"	"ENST00000492622"	"Transcript"	"intron_variant"	"-/6286"	"-/3597"	"-/1198"	""	""	""	"1"	NA	1	"FNDC3A"	"HGNC"	20296	"protein_coding"	"YES"	"CCDS41886.1"	"ENSP00000417257"	"Q9Y2H6"	""	"UPI0000229601"	"NM_001079673.1"	""	""	""	"1/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c1f0e316-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"10757"	"DLEU7"	220107	"mskcc.org"	"GRCh37"	"13"	51403200	51403200	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.459+14124T>A"	""	""	"ENST00000400393"	""	48	"43"	5	43	"43"	0	"DLEU7,intron_variant,,ENST00000400393,NM_198989.2;DLEU7,intron_variant,,ENST00000504404,;DLEU7-AS1,intron_variant,,ENST00000413510,;"	"T"	"ENSG00000186047"	"ENST00000400393"	"Transcript"	"intron_variant"	"-/2092"	"-/483"	"-/160"	""	""	""	"1"	NA	-1	"DLEU7"	"HGNC"	17567	"protein_coding"	"YES"	"CCDS53869.1"	"ENSP00000420976"	"Q6UYE1"	""	"UPI0000684279"	"NM_198989.2"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c1f169d0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104166666666667	"WGS"	FALSE
"10758"	"GUCY1B2"	2974	"mskcc.org"	"GRCh37"	"13"	51640923	51640923	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000493639"	""	90	"84"	6	56	"56"	0	"GUCY1B2,intron_variant,,ENST00000532104,;GUCY1B2,intron_variant,,ENST00000533288,;GUCY1B2,upstream_gene_variant,,ENST00000493639,;GUCY1B2,upstream_gene_variant,,ENST00000389600,;GUCY1B2,upstream_gene_variant,,ENST00000537462,;GUCY1B2,upstream_gene_variant,,ENST00000531898,;"	"C"	"ENSG00000123201"	"ENST00000493639"	"Transcript"	"upstream_gene_variant"	"-/2871"	""	""	""	""	""	"1"	"781"	-1	"GUCY1B2"	"HGNC"	4686	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c1f175ce-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"10759"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	54225121	54225121	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"68"	19	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c1f2076e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218390804597701	"WGS"	FALSE
"10760"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	54862642	54862642	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"60"	28	60	"59"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c1f21470-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318181818181818	"WGS"	FALSE
"10761"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	54875014	54875014	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"63"	22	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c1f217e0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258823529411765	"WGS"	FALSE
"10762"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	56103177	56103177	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"54"	30	73	"73"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c1f2490e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WGS"	FALSE
"10763"	"HNF4GP1"	0	"mskcc.org"	"GRCh37"	"13"	56579296	56579296	"+"	"5'Flank"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000430567"	""	74	"50"	24	47	"47"	0	"HNF4GP1,upstream_gene_variant,,ENST00000430567,;"	"C"	"ENSG00000228611"	"ENST00000430567"	"Transcript"	"upstream_gene_variant"	"-/1249"	""	""	""	""	""	"1"	"4714"	-1	"HNF4GP1"	"HGNC"	35417	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"c1f2613c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324324324324324	"WGS"	FALSE
"10764"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	57803890	57803890	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"53"	19	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c1f27d5c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263888888888889	"WGS"	FALSE
"10765"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	58418738	58418738	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs755564328"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"53"	19	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs755564328"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c1f290ee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263888888888889	"WGS"	FALSE
"10766"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	60188353	60188353	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"96"	6	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c1f2d4e6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"10767"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	62882934	62882934	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"92"	25	56	"56"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c1f34020-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213675213675214	"WGS"	FALSE
"10768"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	65245732	65245732	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"53"	35	48	"48"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c1f3a20e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.397727272727273	"WGS"	FALSE
"10769"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	65303247	65303247	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"59"	17	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c1f3a4a2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223684210526316	"WGS"	FALSE
"10770"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	65649684	65649684	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	61	"42"	19	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"c1f3b032-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311475409836066	"WGS"	FALSE
"10771"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	65999872	65999872	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"85"	6	63	"63"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c1f3ba82-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"10772"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	66034110	66034110	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"61"	25	78	"78"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c1f3bb5e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290697674418605	"WGS"	FALSE
"10773"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	66065980	66065980	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"68"	22	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c1f3bd16-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244444444444444	"WGS"	FALSE
"10774"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	66334403	66334403	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"54"	34	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c1f3c40a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.386363636363636	"WGS"	FALSE
"10775"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	68543518	68543518	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"64"	16	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c1f40578-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"10776"	"LINC00383"	0	"mskcc.org"	"GRCh37"	"13"	69821643	69821643	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.104-22380C>A"	""	""	"ENST00000433664"	""	77	"59"	18	58	"58"	0	"LINC00383,intron_variant,,ENST00000433664,;"	"A"	"ENSG00000237534"	"ENST00000433664"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/817"	""	""	""	""	""	"1"	NA	1	"LINC00383"	"HGNC"	42710	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c1f4271a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233766233766234	"WGS"	FALSE
"10777"	"LINC00383"	0	"mskcc.org"	"GRCh37"	"13"	69821644	69821644	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.104-22379C>T"	""	""	"ENST00000433664"	""	78	"60"	18	58	"58"	0	"LINC00383,intron_variant,,ENST00000433664,;"	"T"	"ENSG00000237534"	"ENST00000433664"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/817"	""	""	""	""	""	"1"	NA	1	"LINC00383"	"HGNC"	42710	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c1f42878-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"10778"	"DACH1"	1602	"mskcc.org"	"GRCh37"	"13"	72063141	72063141	"+"	"Silent"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1716G>A"	"p.="	"p.L572L"	"ENST00000305425"	"7/11"	87	"61"	26	42	"42"	0	"DACH1,synonymous_variant,p.=,ENST00000305425,NM_080759.4;DACH1,synonymous_variant,p.=,ENST00000313174,NM_080760.4;DACH1,synonymous_variant,p.=,ENST00000354591,NM_004392.5;DACH1,synonymous_variant,p.=,ENST00000359684,;"	"T"	"ENSG00000165659"	"ENST00000305425"	"Transcript"	"synonymous_variant"	"2139/5239"	"1716/2127"	"572/708"	"L"	"ctG/ctA"	""	"1"	NA	-1	"DACH1"	"HGNC"	2663	"protein_coding"	"YES"	"CCDS41899.1"	"ENSP00000304994"	"Q9UI36"	""	"UPI00001FCE9E"	"NM_080759.4"	""	""	"7/11"	""	"hmmpanther:PTHR12577,hmmpanther:PTHR12577:SF14"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c1f46f22-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298850574712644	"WGS"	FALSE
"10779"	"ENSR00001641787"	0	"mskcc.org"	"GRCh37"	"13"	73141641	73141641	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001641787"	""	91	"69"	22	64	"64"	0	""	"T"	""	"ENSR00001641787"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c1f49e98-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241758241758242	"WGS"	FALSE
"10780"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	73681721	73681721	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"89"	22	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c1f4d1ba-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.198198198198198	"WGS"	FALSE
"10781"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	75179697	75179697	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"56"	23	40	"40"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c1f51ba2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291139240506329	"WGS"	FALSE
"10782"	"ENSR00001510796"	0	"mskcc.org"	"GRCh37"	"13"	77410691	77410691	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs576458612"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001510796"	""	102	"72"	30	46	"46"	0	""	"T"	""	"ENSR00001510796"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs576458612"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c1f576f6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"10783"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	80426505	80426505	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"61"	7	32	"32"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c1f5df60-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102941176470588	"WGS"	FALSE
"10784"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	82099110	82099110	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"71"	24	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c1f637c6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"10785"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	83485201	83485201	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"65"	27	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c1f6772c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293478260869565	"WGS"	FALSE
"10786"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	84602774	84602774	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"74"	25	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c1f69e5a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252525252525253	"WGS"	FALSE
"10787"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	85501224	85501224	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"63"	22	79	"79"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c1f6ba98-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258823529411765	"WGS"	FALSE
"10788"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	85626085	85626085	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"58"	32	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c1f6bc50-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355555555555556	"WGS"	FALSE
"10789"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	87425022	87425022	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"59"	21	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c1f6f012-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2625	"WGS"	FALSE
"10790"	"ENSR00001511141"	0	"mskcc.org"	"GRCh37"	"13"	87777143	87777143	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001511141"	""	64	"43"	21	46	"46"	0	""	"T"	""	"ENSR00001511141"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c1f6ff58-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.328125	"WGS"	FALSE
"10791"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	87889525	87889525	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"63"	23	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c1f7023c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267441860465116	"WGS"	FALSE
"10792"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	88535028	88535028	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"61"	6	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c1f724e2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0895522388059701	"WGS"	FALSE
"10793"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	89714820	89714820	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"67"	26	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c1f7535e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279569892473118	"WGS"	FALSE
"10794"	"LINC01049"	101927224	"mskcc.org"	"GRCh37"	"13"	91187322	91187322	"+"	"RNA"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.730A>G"	""	""	"ENST00000426840"	"6/6"	83	"77"	6	56	"56"	0	"LINC01049,non_coding_transcript_exon_variant,,ENST00000426840,;"	"G"	"ENSG00000234384"	"ENST00000426840"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"730/742"	""	""	""	""	""	"1"	NA	1	"LINC01049"	"HGNC"	49043	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"6/6"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c1f78f0e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"10795"	"GPC5"	2262	"mskcc.org"	"GRCh37"	"13"	93347412	93347412	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1562-171123A>T"	""	""	"ENST00000377067"	""	98	"72"	26	57	"57"	0	"GPC5,intron_variant,,ENST00000377067,NM_004466.4;"	"T"	"ENSG00000179399"	"ENST00000377067"	"Transcript"	"intron_variant"	"-/2889"	"-/1719"	"-/572"	""	""	""	"1"	NA	1	"GPC5"	"HGNC"	4453	"protein_coding"	"YES"	"CCDS9468.1"	"ENSP00000366267"	"P78333"	""	"UPI0000001C85"	"NM_004466.4"	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c1f7d4a0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26530612244898	"WGS"	FALSE
"10796"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	95995613	95995613	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"82"	9	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"c1f85df8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0989010989010989	"WGS"	FALSE
"10797"	"HS6ST3"	266722	"mskcc.org"	"GRCh37"	"13"	97217199	97217199	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.708-267545T>A"	""	""	"ENST00000376705"	""	86	"64"	22	51	"51"	0	"HS6ST3,intron_variant,,ENST00000376705,NM_153456.3;"	"A"	"ENSG00000185352"	"ENST00000376705"	"Transcript"	"intron_variant"	"-/1659"	"-/1416"	"-/471"	""	""	""	"1"	NA	1	"HS6ST3"	"HGNC"	19134	"protein_coding"	"YES"	"CCDS9481.1"	"ENSP00000365895"	"Q8IZP7"	"B3KX95"	"UPI00001AF933"	"NM_153456.3"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c1f899da-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255813953488372	"WGS"	FALSE
"10798"	"IPO5"	3843	"mskcc.org"	"GRCh37"	"13"	98656730	98656730	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1551+1439A>T"	""	""	"ENST00000261574"	""	99	"66"	33	53	"53"	0	"IPO5,intron_variant,,ENST00000261574,NM_002271.4;IPO5,intron_variant,,ENST00000357602,;IPO5,intron_variant,,ENST00000469360,;IPO5,intron_variant,,ENST00000490680,;IPO5,intron_variant,,ENST00000539640,;IPO5,intron_variant,,ENST00000493492,;IPO5,intron_variant,,ENST00000491555,;IPO5,intron_variant,,ENST00000479736,;IPO5,downstream_gene_variant,,ENST00000470493,;"	"T"	"ENSG00000065150"	"ENST00000261574"	"Transcript"	"intron_variant"	"-/6003"	"-/3348"	"-/1115"	""	""	""	"1"	NA	1	"IPO5"	"HGNC"	6402	"protein_coding"	"YES"	"CCDS31999.1"	"ENSP00000261574"	"O00410"	"Q9BVS9,E7EX05,E7EWK4,E7ETV3,E7ESZ1,E7ESA1,C9JZD8,C9JZ53,C9JXE0,C9JQT6,C9J875,B3KWG6"	"UPI0000163C1C"	"NM_002271.4"	""	""	""	"16/28"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c1f8c13a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"10799"	"CLYBL"	171425	"mskcc.org"	"GRCh37"	"13"	100515122	100515122	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.439-123G>A"	""	""	"ENST00000376360"	""	76	"50"	26	51	"51"	0	"CLYBL,intron_variant,,ENST00000376355,NM_206808.2;CLYBL,intron_variant,,ENST00000376360,;CLYBL,intron_variant,,ENST00000444838,;CLYBL,intron_variant,,ENST00000339105,;CLYBL,intron_variant,,ENST00000376354,;CLYBL,intron_variant,,ENST00000416504,;CLYBL,intron_variant,,ENST00000443887,;CLYBL,upstream_gene_variant,,ENST00000419700,;"	"A"	"ENSG00000125246"	"ENST00000376360"	"Transcript"	"intron_variant"	"-/2207"	"-/1023"	"-/340"	""	""	""	"1"	NA	1	"CLYBL"	"HGNC"	18355	"protein_coding"	"YES"	"CCDS32002.1"	"ENSP00000365538"	"Q8N0X4"	"Q5JVC0"	"UPI0000071ADE"	""	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c1f94678-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342105263157895	"WGS"	FALSE
"10800"	"NALCN"	259232	"mskcc.org"	"GRCh37"	"13"	101787312	101787312	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2118+8119C>T"	""	""	"ENST00000251127"	""	98	"71"	27	52	"52"	0	"NALCN,intron_variant,,ENST00000251127,NM_052867.2;NALCN,intron_variant,,ENST00000467264,;"	"A"	"ENSG00000102452"	"ENST00000251127"	"Transcript"	"intron_variant"	"-/6816"	"-/5217"	"-/1738"	""	""	""	"1"	NA	-1	"NALCN"	"HGNC"	19082	"protein_coding"	"YES"	"CCDS9498.1"	"ENSP00000251127"	"Q8IZF0"	"B3KX53,B3KMK1"	"UPI000004EBBD"	"NM_052867.2"	""	""	""	"17/43"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGA"	"c1f98f02-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275510204081633	"WGS"	FALSE
"10801"	"FGF14"	2259	"mskcc.org"	"GRCh37"	"13"	102851507	102851507	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.208+202314C>T"	""	""	"ENST00000376131"	""	97	"75"	22	63	"63"	0	"FGF14,intron_variant,,ENST00000376131,NM_175929.2;"	"A"	"ENSG00000102466"	"ENST00000376131"	"Transcript"	"intron_variant"	"-/3902"	"-/759"	"-/252"	""	""	""	"1"	NA	-1	"FGF14"	"HGNC"	3671	"protein_coding"	"YES"	"CCDS9500.1"	"ENSP00000365301"	"Q92915"	""	"UPI000000D898"	"NM_175929.2"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"c1f9a884-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22680412371134	"WGS"	FALSE
"10802"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	104478599	104478599	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"78"	5	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c1f9dd18-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0602409638554217	"WGS"	FALSE
"10803"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	104559701	104559701	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	30	"25"	5	20	"20"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c1f9deda-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"10804"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	105164433	105164433	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"63"	23	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c1f9ffe6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267441860465116	"WGS"	FALSE
"10805"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	106901449	106901449	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"59"	24	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c1fa4730-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289156626506024	"WGS"	FALSE
"10806"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	107096459	107096459	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"82"	8	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c1fa4f14-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"10807"	"LINC00443"	100874173	"mskcc.org"	"GRCh37"	"13"	107314093	107314093	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.240-6901G>A"	""	""	"ENST00000421601"	""	83	"55"	28	66	"66"	0	"LINC00443,intron_variant,,ENST00000421601,;ATP5G1P5,upstream_gene_variant,,ENST00000429024,;ATP5G1P5,upstream_gene_variant,,ENST00000452440,;"	"A"	"ENSG00000230156"	"ENST00000421601"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1170"	""	""	""	""	""	"1"	NA	1	"LINC00443"	"HGNC"	42780	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c1fa51a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337349397590361	"WGS"	FALSE
"10808"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	107642083	107642083	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"67"	21	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c1fa63e6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238636363636364	"WGS"	FALSE
"10809"	"MYO16"	23026	"mskcc.org"	"GRCh37"	"13"	109395195	109395195	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.441+15264G>T"	""	""	"ENST00000356711"	""	86	"80"	6	52	"52"	0	"MYO16,intron_variant,,ENST00000356711,NM_015011.1;MYO16,intron_variant,,ENST00000357550,NM_001198950.1;MYO16,intron_variant,,ENST00000251041,;"	"T"	"ENSG00000041515"	"ENST00000356711"	"Transcript"	"intron_variant"	"-/6874"	"-/5577"	"-/1858"	""	""	""	"1"	NA	1	"MYO16"	"HGNC"	29822	"protein_coding"	"YES"	"CCDS32008.1"	"ENSP00000349145"	"Q9Y6X6"	""	"UPI0000160FF2"	"NM_015011.1"	""	""	""	"4/34"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c1fab80a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"10810"	"TMEM255B"	348013	"mskcc.org"	"GRCh37"	"13"	114478362	114478362	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.252+6229C>T"	""	""	"ENST00000375353"	""	82	"76"	6	55	"55"	0	"TMEM255B,intron_variant,,ENST00000375353,NM_182614.2;TMEM255B,intron_variant,,ENST00000375348,;TMEM255B,intron_variant,,ENST00000488362,;"	"T"	"ENSG00000184497"	"ENST00000375353"	"Transcript"	"intron_variant"	"-/1031"	"-/981"	"-/326"	""	""	""	"1"	NA	1	"TMEM255B"	"HGNC"	28297	"protein_coding"	"YES"	"CCDS45071.1"	"ENSP00000364502"	"Q8WV15"	""	"UPI0000071C2C"	"NM_182614.2"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c1fee448-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"10811"	"RASA3"	22821	"mskcc.org"	"GRCh37"	"13"	114856113	114856113	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.56-16801T>A"	""	""	"ENST00000334062"	""	102	"72"	30	58	"58"	0	"RASA3,intron_variant,,ENST00000334062,NM_007368.2;RASA3,intron_variant,,ENST00000542651,;"	"T"	"ENSG00000185989"	"ENST00000334062"	"Transcript"	"intron_variant"	"-/4191"	"-/2505"	"-/834"	""	""	""	"1"	NA	-1	"RASA3"	"HGNC"	20331	"protein_coding"	"YES"	"CCDS32016.1"	"ENSP00000335029"	"Q14644"	"F8W6X8"	"UPI000000DBC1"	"NM_007368.2"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c1ff9758-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"10812"	"RASA3"	22821	"mskcc.org"	"GRCh37"	"13"	114882767	114882767	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55+15143C>T"	""	""	"ENST00000334062"	""	45	"39"	6	29	"29"	0	"RASA3,intron_variant,,ENST00000334062,NM_007368.2;RASA3,intron_variant,,ENST00000542651,;"	"A"	"ENSG00000185989"	"ENST00000334062"	"Transcript"	"intron_variant"	"-/4191"	"-/2505"	"-/834"	""	""	""	"1"	NA	-1	"RASA3"	"HGNC"	20331	"protein_coding"	"YES"	"CCDS32016.1"	"ENSP00000335029"	"Q14644"	"F8W6X8"	"UPI000000DBC1"	"NM_007368.2"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c1ffa946-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"10813"	"ENSR00001644409"	0	"mskcc.org"	"GRCh37"	"13"	114918459	114918459	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001644409"	""	83	"51"	32	48	"48"	0	""	"A"	""	"ENSR00001644409"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c1ffc50c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.385542168674699	"WGS"	FALSE
"10814"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	19094138	19094138	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	163	"137"	26	126	"126"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c200068e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.159509202453988	"WGS"	FALSE
"10815"	"OR4K5"	79317	"mskcc.org"	"GRCh37"	"14"	20383935	20383935	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000315915"	""	78	"57"	21	51	"51"	0	"OR4K5,upstream_gene_variant,,ENST00000315915,NM_001005483.1;"	"C"	"ENSG00000176281"	"ENST00000315915"	"Transcript"	"upstream_gene_variant"	"-/1078"	"-/972"	"-/323"	""	""	""	"1"	"4806"	1	"OR4K5"	"HGNC"	14745	"protein_coding"	"YES"	"CCDS32024.1"	"ENSP00000319511"	"Q8NGD3"	""	"UPI0000061E9E"	"NM_001005483.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c2012be0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269230769230769	"WGS"	FALSE
"10816"	"TRAV4"	0	"mskcc.org"	"GRCh37"	"14"	22208847	22208847	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390426"	""	95	"67"	28	46	"46"	0	"TRAV4,downstream_gene_variant,,ENST00000390426,;"	"T"	"ENSG00000211778"	"ENST00000390426"	"Transcript"	"downstream_gene_variant"	"-/395"	"-/328"	"-/109"	""	""	""	"1"	"3583"	1	"TRAV4"	"HGNC"	12140	"TR_V_gene"	"YES"	""	"ENSP00000451535"	""	""	"UPI000011C703"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c2019f08-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294736842105263	"WGS"	FALSE
"10817"	"RP11-298I3.5"	0	"mskcc.org"	"GRCh37"	"14"	23437387	23437387	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs150950849"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.50+14031T>C"	""	""	"ENST00000555074"	""	101	"93"	8	47	"47"	0	"RP11-298I3.5,intron_variant,,ENST00000555074,;AJUBA,downstream_gene_variant,,ENST00000262713,NM_032876.4;AJUBA,downstream_gene_variant,,ENST00000397388,NM_198086.1;AJUBA,downstream_gene_variant,,ENST00000361265,;"	"G"	"ENSG00000259132"	"ENST00000555074"	"Transcript"	"intron_variant"	"-/835"	"-/582"	"-/193"	""	""	"rs150950849"	"1"	NA	-1	"RP11-298I3.5"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000450856"	""	""	"UPI0003335196"	""	""	""	""	"1/4"	""	"G:0.0090"	"G:0.0333"	"G:0.0014"	NA	"G:0"	"G:0"	"G:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c201e012-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0792079207920792	"WGS"	FALSE
"10818"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	24329588	24329588	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"88"	27	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c2021596-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234782608695652	"WGS"	FALSE
"10819"	"STXBP6"	29091	"mskcc.org"	"GRCh37"	"14"	25290314	25290314	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs371915672"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.452-1914G>A"	""	""	"ENST00000323944"	""	89	"66"	23	64	"64"	0	"STXBP6,intron_variant,,ENST00000323944,;STXBP6,intron_variant,,ENST00000396700,;STXBP6,intron_variant,,ENST00000548724,;STXBP6,intron_variant,,ENST00000419632,NM_014178.6;STXBP6,intron_variant,,ENST00000550887,;STXBP6,intron_variant,,ENST00000546511,;STXBP6,intron_variant,,ENST00000358326,;STXBP6,upstream_gene_variant,,ENST00000548369,;STXBP6,intron_variant,,ENST00000548182,;"	"T"	"ENSG00000168952"	"ENST00000323944"	"Transcript"	"intron_variant"	"-/4132"	"-/633"	"-/210"	""	""	"rs371915672"	"1"	NA	-1	"STXBP6"	"HGNC"	19666	"protein_coding"	"YES"	"CCDS9634.1"	"ENSP00000324302"	"Q8NFX7"	""	"UPI000006DD7D"	""	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c2029ec6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258426966292135	"WGS"	FALSE
"10820"	"RP11-314P15.2"	0	"mskcc.org"	"GRCh37"	"14"	26499239	26499239	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.258+96124A>T"	""	""	"ENST00000546412"	""	101	"93"	8	57	"57"	0	"RP11-314P15.2,intron_variant,,ENST00000546412,;"	"A"	"ENSG00000257986"	"ENST00000546412"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/529"	""	""	""	""	""	"1"	NA	-1	"RP11-314P15.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c202d210-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0792079207920792	"WGS"	FALSE
"10821"	"CTD-3006G17.2"	728755	"mskcc.org"	"GRCh37"	"14"	28002036	28002036	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.262+123613G>A"	""	""	"ENST00000553392"	""	82	"62"	20	51	"51"	0	"CTD-3006G17.2,intron_variant,,ENST00000553392,;CTD-3006G17.2,intron_variant,,ENST00000556890,;CTD-3006G17.2,intron_variant,,ENST00000554904,;CTD-3006G17.2,intron_variant,,ENST00000555797,;"	"T"	"ENSG00000258932"	"ENST00000553392"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/674"	""	""	""	""	""	"1"	NA	-1	"CTD-3006G17.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c2030cee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24390243902439	"WGS"	FALSE
"10822"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	29000959	29000959	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs117408691"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"87"	7	40	"40"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs117408691"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0004"	"A:0"	"A:0"	NA	"A:0.002"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c2035ee2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"10823"	"RP11-412H8.2"	0	"mskcc.org"	"GRCh37"	"14"	29083003	29083003	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"rs371502642"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000549742"	""	89	"78"	11	67	"67"	0	"RP11-412H8.2,upstream_gene_variant,,ENST00000549742,;"	"A"	"ENSG00000258175"	"ENST00000549742"	"Transcript"	"upstream_gene_variant"	"-/665"	""	""	""	""	"rs371502642"	"1"	"174"	-1	"RP11-412H8.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"A:0.0008"	"A:0"	"A:0"	NA	"A:0.004"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c2036180-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123595505617978	"WGS"	FALSE
"10824"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	29649576	29649576	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"55"	21	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c2037710-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276315789473684	"WGS"	FALSE
"10825"	"CTD-2251F13.1"	0	"mskcc.org"	"GRCh37"	"14"	30646189	30646189	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.399-8626T>G"	""	""	"ENST00000508469"	""	94	"82"	12	59	"59"	0	"PRKD1,intron_variant,,ENST00000549503,;CTD-2251F13.1,intron_variant,,ENST00000508469,;CTD-2251F13.1,intron_variant,,ENST00000549360,;"	"C"	"ENSG00000248975"	"ENST00000508469"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/922"	""	""	""	""	""	"1"	NA	-1	"CTD-2251F13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c20396c8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127659574468085	"WGS"	FALSE
"10826"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	31686922	31686922	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"81"	10	37	"37"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c203da98-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10989010989011	"WGS"	FALSE
"10827"	"ENSR00001456333"	0	"mskcc.org"	"GRCh37"	"14"	32355754	32355754	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001456333"	""	101	"75"	26	70	"70"	0	""	"A"	""	"ENSR00001456333"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c20414ea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257425742574257	"WGS"	FALSE
"10828"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	32513231	32513231	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"67"	29	68	"68"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c2041bd4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302083333333333	"WGS"	FALSE
"10829"	"NPAS3"	64067	"mskcc.org"	"GRCh37"	"14"	33750543	33750543	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.385+65911C>A"	""	""	"ENST00000356141"	""	89	"53"	36	53	"53"	0	"NPAS3,intron_variant,,ENST00000346562,NM_022123.2,NM_173159.2,NM_001164749.1,NM_001165893.1;NPAS3,intron_variant,,ENST00000548645,;NPAS3,intron_variant,,ENST00000551492,;NPAS3,intron_variant,,ENST00000356141,;NPAS3,intron_variant,,ENST00000357798,;NPAS3,intron_variant,,ENST00000551634,;NPAS3,intron_variant,,ENST00000547068,;NPAS3,intron_variant,,ENST00000551008,;NPAS3,intron_variant,,ENST00000341321,;NPAS3,intron_variant,,ENST00000546849,;NPAS3,intron_variant,,ENST00000549770,;"	"A"	"ENSG00000151322"	"ENST00000356141"	"Transcript"	"intron_variant"	"-/2802"	"-/2802"	"-/933"	""	""	""	"1"	NA	1	"NPAS3"	"HGNC"	19311	"protein_coding"	"YES"	"CCDS53891.1"	"ENSP00000348460"	"Q8IXF0"	""	"UPI00000743C2"	""	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c2045658-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.404494382022472	"WGS"	FALSE
"10830"	"NPAS3"	64067	"mskcc.org"	"GRCh37"	"14"	34158358	34158358	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.733+12767G>C"	""	""	"ENST00000356141"	""	88	"82"	6	59	"59"	0	"NPAS3,intron_variant,,ENST00000346562,NM_022123.2,NM_173159.2,NM_001164749.1,NM_001165893.1;NPAS3,intron_variant,,ENST00000548645,;NPAS3,intron_variant,,ENST00000551492,;NPAS3,intron_variant,,ENST00000356141,;NPAS3,intron_variant,,ENST00000357798,;NPAS3,intron_variant,,ENST00000551634,;"	"C"	"ENSG00000151322"	"ENST00000356141"	"Transcript"	"intron_variant"	"-/2802"	"-/2802"	"-/933"	""	""	""	"1"	NA	1	"NPAS3"	"HGNC"	19311	"protein_coding"	"YES"	"CCDS53891.1"	"ENSP00000348460"	"Q8IXF0"	""	"UPI00000743C2"	""	""	""	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c20462d8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"10831"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	37106313	37106313	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"65"	30	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c20576e6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WGS"	FALSE
"10832"	"SLC25A21"	89874	"mskcc.org"	"GRCh37"	"14"	37159803	37159803	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.604-5673C>A"	""	""	"ENST00000331299"	""	97	"74"	23	61	"60"	1	"SLC25A21,intron_variant,,ENST00000331299,NM_030631.3;SLC25A21,intron_variant,,ENST00000555449,NM_001171170.1;"	"T"	"ENSG00000183032"	"ENST00000331299"	"Transcript"	"intron_variant"	"-/2785"	"-/900"	"-/299"	""	""	""	"1"	NA	-1	"SLC25A21"	"HGNC"	14411	"protein_coding"	"YES"	"CCDS9663.1"	"ENSP00000329452"	"Q9BQT8"	""	"UPI0000130BCE"	"NM_030631.3"	""	""	""	"7/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c2057c40-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.237113402061856	"WGS"	FALSE
"10833"	"RP11-407N17.3"	4253	"mskcc.org"	"GRCh37"	"14"	39756027	39756027	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.220-4196T>A"	""	""	"ENST00000603904"	""	66	"60"	6	44	"44"	0	"RP11-407N17.3,intron_variant,,ENST00000553728,;CTAGE5,intron_variant,,ENST00000280083,;CTAGE5,intron_variant,,ENST00000396158,NM_001247989.1,NM_203355.2,NM_001247990.1,NM_005930.3;RP11-407N17.3,intron_variant,,ENST00000603904,NM_203356.2,NM_001247988.1;CTAGE5,intron_variant,,ENST00000553352,;CTAGE5,intron_variant,,ENST00000396165,;CTAGE5,intron_variant,,ENST00000341749,NM_203354.2;CTAGE5,intron_variant,,ENST00000557038,;CTAGE5,intron_variant,,ENST00000348007,;CTAGE5,intron_variant,,ENST00000341502,;CTAGE5,intron_variant,,ENST00000556148,;CTAGE5,intron_variant,,ENST00000555716,;CTAGE5,intron_variant,,ENST00000554392,;CTAGE5,intron_variant,,ENST00000556990,;"	"A"	"ENSG00000258941"	"ENST00000603904"	"Transcript"	"intron_variant"	"-/3511"	"-/2328"	"-/775"	""	""	""	"1"	NA	1	"RP11-407N17.3"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	"CCDS9676.1"	"ENSP00000473943"	""	""	"UPI000034ECC0"	"NM_203356.2,NM_001247988.1"	""	""	""	"4/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c205e63a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"10834"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	40318333	40318333	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"60"	33	64	"64"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c20604e4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354838709677419	"WGS"	FALSE
"10835"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	40351859	40351859	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"77"	25	62	"62"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c206069c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245098039215686	"WGS"	FALSE
"10836"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	40410812	40410812	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"64"	18	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c2060caa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219512195121951	"WGS"	FALSE
"10837"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	41294215	41294215	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"51"	23	65	"65"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c2062aa0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310810810810811	"WGS"	FALSE
"10838"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	42705136	42705136	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"63"	19	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c2065804-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231707317073171	"WGS"	FALSE
"10839"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	43295563	43295563	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"62"	14	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c2066fce-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184210526315789	"WGS"	FALSE
"10840"	"RP11-88E18.1"	0	"mskcc.org"	"GRCh37"	"14"	43740610	43740610	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000554689"	""	77	"52"	25	67	"67"	0	"RP11-88E18.1,upstream_gene_variant,,ENST00000554689,;"	"A"	"ENSG00000258406"	"ENST00000554689"	"Transcript"	"upstream_gene_variant"	"-/874"	""	""	""	""	""	"1"	"3417"	1	"RP11-88E18.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c2067c80-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324675324675325	"WGS"	FALSE
"10841"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	43905313	43905313	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"55"	25	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c2068a18-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"10842"	"RP11-305B6.3"	0	"mskcc.org"	"GRCh37"	"14"	44695235	44695235	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.69+158445G>T"	""	""	"ENST00000553827"	""	103	"70"	33	65	"65"	0	"RP11-305B6.3,intron_variant,,ENST00000553827,;"	"A"	"ENSG00000258969"	"ENST00000553827"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/257"	""	""	""	""	""	"1"	NA	-1	"RP11-305B6.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c206aca0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.320388349514563	"WGS"	FALSE
"10843"	"FANCM"	57697	"mskcc.org"	"GRCh37"	"14"	45642726	45642726	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2316+313G>A"	""	""	"ENST00000267430"	""	85	"77"	8	56	"56"	0	"FANCM,intron_variant,,ENST00000267430,NM_020937.2;FANCM,intron_variant,,ENST00000542564,;FANCM,intron_variant,,ENST00000556250,;FANCM,upstream_gene_variant,,ENST00000554809,;"	"A"	"ENSG00000187790"	"ENST00000267430"	"Transcript"	"intron_variant"	"-/7111"	"-/6147"	"-/2048"	""	""	""	"1"	NA	1	"FANCM"	"HGNC"	23168	"protein_coding"	"YES"	"CCDS32070.1"	"ENSP00000267430"	"Q8IYD8"	""	"UPI000059F032"	"NM_020937.2"	""	""	""	"13/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"c2072112-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"10844"	"MDGA2"	161357	"mskcc.org"	"GRCh37"	"14"	47306248	47306248	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000426342"	""	91	"86"	5	58	"58"	0	"MDGA2,downstream_gene_variant,,ENST00000426342,NM_182830.4;MDGA2,downstream_gene_variant,,ENST00000399232,NM_001113498.2;MDGA2,downstream_gene_variant,,ENST00000439988,;MDGA2,downstream_gene_variant,,ENST00000357362,;MDGA2,downstream_gene_variant,,ENST00000399222,;"	"A"	"ENSG00000139915"	"ENST00000426342"	"Transcript"	"downstream_gene_variant"	"-/5239"	"-/2184"	"-/727"	""	""	""	"1"	"2578"	-1	"MDGA2"	"HGNC"	19835	"protein_coding"	"YES"	"CCDS41948.1"	"ENSP00000405456"	"Q7Z553"	"F8WE89"	"UPI0000213DB6"	"NM_182830.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c2076014-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0549450549450549	"WGS"	FALSE
"10845"	"RP11-737F10.1"	0	"mskcc.org"	"GRCh37"	"14"	49291509	49291509	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000555346"	""	100	"93"	7	68	"68"	0	"RP11-737F10.1,downstream_gene_variant,,ENST00000555346,;"	"A"	"ENSG00000258381"	"ENST00000555346"	"Transcript"	"downstream_gene_variant"	"-/234"	""	""	""	""	""	"1"	"2713"	1	"RP11-737F10.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c207ae3e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.07	"WGS"	FALSE
"10846"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	52763165	52763165	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs536468047"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"60"	20	67	"67"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs536468047"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c2089402-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"10847"	"PELI2"	57161	"mskcc.org"	"GRCh37"	"14"	56742401	56742401	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.208-3993A>T"	""	""	"ENST00000267460"	""	97	"60"	37	54	"54"	0	"PELI2,intron_variant,,ENST00000267460,NM_021255.2;PELI2,intron_variant,,ENST00000559044,;PELI2,intron_variant,,ENST00000561019,;"	"T"	"ENSG00000139946"	"ENST00000267460"	"Transcript"	"intron_variant"	"-/5909"	"-/1263"	"-/420"	""	""	""	"1"	NA	1	"PELI2"	"HGNC"	8828	"protein_coding"	"YES"	"CCDS9726.1"	"ENSP00000267460"	"Q9HAT8"	"Q659D8,H0YNF4,H0YK56"	"UPI0000062262"	"NM_021255.2"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c2095c5c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.381443298969072	"WGS"	FALSE
"10848"	"C14orf39"	317761	"mskcc.org"	"GRCh37"	"14"	60920791	60920791	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1503+928T>G"	""	""	"ENST00000321731"	""	92	"65"	27	49	"48"	1	"C14orf39,intron_variant,,ENST00000321731,NM_174978.2;C14orf39,intron_variant,,ENST00000557138,;C14orf39,intron_variant,,ENST00000498565,;"	"C"	"ENSG00000179008"	"ENST00000321731"	"Transcript"	"intron_variant"	"-/2813"	"-/1764"	"-/587"	""	""	""	"1"	NA	-1	"C14orf39"	"HGNC"	19849	"protein_coding"	"YES"	"CCDS9746.1"	"ENSP00000324920"	"Q8N1H7"	"G3V493,G3V3U9"	"UPI0000140C15"	"NM_174978.2"	""	""	""	"16/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"c20a132c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293478260869565	"WGS"	FALSE
"10849"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	62869612	62869612	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"52"	36	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c20a7290-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.409090909090909	"WGS"	FALSE
"10850"	"PPP2R5E"	5529	"mskcc.org"	"GRCh37"	"14"	63929995	63929995	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.158-9392A>T"	""	""	"ENST00000337537"	""	80	"73"	7	44	"44"	0	"PPP2R5E,intron_variant,,ENST00000337537,NM_006246.2,NM_001282179.1;PPP2R5E,intron_variant,,ENST00000555899,NM_001282180.1;PPP2R5E,intron_variant,,ENST00000422769,NM_001282181.1,NM_001282182.1;RN7SL540P,non_coding_transcript_exon_variant,,ENST00000578422,;PPP2R5E,intron_variant,,ENST00000553266,;PPP2R5E,intron_variant,,ENST00000556484,;PPP2R5E,intron_variant,,ENST00000556878,;"	"A"	"ENSG00000154001"	"ENST00000337537"	"Transcript"	"intron_variant"	"-/6659"	"-/1404"	"-/467"	""	""	""	"1"	NA	-1	"PPP2R5E"	"HGNC"	9313	"protein_coding"	"YES"	"CCDS9758.1"	"ENSP00000337641"	"Q16537"	"J3KQN6"	"UPI0000124E94"	"NM_006246.2,NM_001282179.1"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c20a99b4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0875	"WGS"	FALSE
"10851"	"SYNE2"	23224	"mskcc.org"	"GRCh37"	"14"	64640394	64640394	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.17236-1268A>T"	""	""	"ENST00000358025"	""	82	"76"	6	48	"48"	0	"SYNE2,intron_variant,,ENST00000357395,;SYNE2,intron_variant,,ENST00000358025,NM_182914.2;SYNE2,intron_variant,,ENST00000344113,NM_015180.4;SYNE2,intron_variant,,ENST00000554584,;SYNE2,intron_variant,,ENST00000555002,;SYNE2,intron_variant,,ENST00000394768,;ESR2,intron_variant,,ENST00000542956,;ESR2,intron_variant,,ENST00000556275,;SYNE2,downstream_gene_variant,,ENST00000556342,;SYNE2,intron_variant,,ENST00000555612,;SYNE2,intron_variant,,ENST00000553289,;"	"T"	"ENSG00000054654"	"ENST00000358025"	"Transcript"	"intron_variant"	"-/21875"	"-/20724"	"-/6907"	""	""	""	"1"	NA	1	"SYNE2"	"HGNC"	17084	"protein_coding"	"YES"	"CCDS9761.2"	"ENSP00000350719"	"Q8WXH0"	"Q6MZP0,G3V5D3,G3V403"	"UPI00003677E5"	"NM_182914.2"	""	""	""	"94/115"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"c20aea40-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"10852"	"SLC39A9"	55334	"mskcc.org"	"GRCh37"	"14"	69897080	69897080	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.205+6161G>C"	""	""	"ENST00000336643"	""	97	"71"	26	49	"48"	1	"SLC39A9,intron_variant,,ENST00000031146,;SLC39A9,intron_variant,,ENST00000336643,NM_018375.4;SLC39A9,intron_variant,,ENST00000556605,NM_001252150.1;SLC39A9,intron_variant,,ENST00000557046,NM_001252148.1;SLC39A9,intron_variant,,ENST00000555245,;SLC39A9,intron_variant,,ENST00000556125,;SLC39A9,intron_variant,,ENST00000555840,;SLC39A9,intron_variant,,ENST00000538956,;SLC39A9,downstream_gene_variant,,ENST00000554059,;"	"C"	"ENSG00000029364"	"ENST00000336643"	"Transcript"	"intron_variant"	"-/3560"	"-/924"	"-/307"	""	""	""	"1"	NA	1	"SLC39A9"	"HGNC"	20182	"protein_coding"	"YES"	"CCDS9795.1"	"ENSP00000336887"	"Q9NUM3"	"C4N9M8,B4DDK0"	"UPI0000040C12"	"NM_018375.4"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c20c0cfe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268041237113402	"WGS"	FALSE
"10853"	"RGS6"	9628	"mskcc.org"	"GRCh37"	"14"	72564232	72564232	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.84+132640C>A"	""	""	"ENST00000553525"	""	94	"88"	6	47	"47"	0	"RGS6,intron_variant,,ENST00000553530,NM_004296.5,NM_001204422.1,NM_001204421.1,NM_001204418.1,NM_001204417.1,NM_001204420.1;RGS6,intron_variant,,ENST00000553525,NM_001204424.1;RGS6,intron_variant,,ENST00000555571,;RGS6,intron_variant,,ENST00000556437,NM_001204416.1;RGS6,intron_variant,,ENST00000355512,;RGS6,intron_variant,,ENST00000404301,;RGS6,intron_variant,,ENST00000407322,;RGS6,intron_variant,,ENST00000406236,;RGS6,intron_variant,,ENST00000402788,NM_001204423.1;RGS6,intron_variant,,ENST00000343854,NM_001204419.1;RGS6,intron_variant,,ENST00000554474,;"	"A"	"ENSG00000182732"	"ENST00000553525"	"Transcript"	"intron_variant"	"-/2005"	"-/1473"	"-/490"	""	""	""	"1"	NA	1	"RGS6"	"HGNC"	10002	"protein_coding"	"YES"	"CCDS55924.1"	"ENSP00000451030"	"P49758"	"Q59FJ8"	"UPI00001698D0"	"NM_001204424.1"	""	""	""	"2/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c20c8a4e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"10854"	"DPF3"	8110	"mskcc.org"	"GRCh37"	"14"	73110120	73110120	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.872-13676T>C"	""	""	"ENST00000556509"	""	97	"90"	7	49	"49"	0	"DPF3,intron_variant,,ENST00000556509,NM_001280542.1;"	"G"	"ENSG00000205683"	"ENST00000556509"	"Transcript"	"intron_variant"	"-/1138"	"-/1137"	"-/378"	""	""	""	"1"	NA	-1	"DPF3"	"HGNC"	17427	"protein_coding"	""	"CCDS61497.1"	"ENSP00000450518"	"Q92784"	""	"UPI000059D26C"	"NM_001280542.1"	""	""	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c20c9c6e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0721649484536082	"WGS"	FALSE
"10855"	"NUMB"	8650	"mskcc.org"	"GRCh37"	"14"	73824341	73824341	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-15-1867G>A"	""	""	"ENST00000355058"	""	73	"66"	7	49	"49"	0	"NUMB,intron_variant,,ENST00000554546,NM_001005745.1;NUMB,intron_variant,,ENST00000355058,;NUMB,intron_variant,,ENST00000555238,NM_001005743.1;NUMB,intron_variant,,ENST00000359560,;NUMB,intron_variant,,ENST00000557597,NM_003744.5;NUMB,intron_variant,,ENST00000356296,;NUMB,intron_variant,,ENST00000555394,NM_001005744.1;NUMB,intron_variant,,ENST00000535282,;NUMB,intron_variant,,ENST00000560335,;NUMB,intron_variant,,ENST00000555738,;NUMB,intron_variant,,ENST00000559312,;NUMB,intron_variant,,ENST00000554521,;NUMB,intron_variant,,ENST00000555307,;NUMB,intron_variant,,ENST00000554394,;NUMB,intron_variant,,ENST00000555859,;NUMB,intron_variant,,ENST00000555987,;NUMB,intron_variant,,ENST00000554818,;NUMB,upstream_gene_variant,,ENST00000454166,;NUMB,upstream_gene_variant,,ENST00000544991,;NUMB,intron_variant,,ENST00000557031,;NUMB,intron_variant,,ENST00000554315,;NUMB,intron_variant,,ENST00000557774,;NUMB,intron_variant,,ENST00000556112,;"	"T"	"ENSG00000133961"	"ENST00000355058"	"Transcript"	"intron_variant"	"-/3593"	"-/1956"	"-/651"	""	""	""	"1"	NA	-1	"NUMB"	"HGNC"	8060	"protein_coding"	"YES"	"CCDS32116.1"	"ENSP00000347169"	"P49757"	"Q5D0E5,G3V4S6,G3V3Z8,G3V3R1"	"UPI00001309BF"	""	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c20ceff2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"10856"	"NUMB"	8650	"mskcc.org"	"GRCh37"	"14"	73824350	73824350	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-15-1876T>C"	""	""	"ENST00000355058"	""	77	"69"	8	50	"50"	0	"NUMB,intron_variant,,ENST00000554546,NM_001005745.1;NUMB,intron_variant,,ENST00000355058,;NUMB,intron_variant,,ENST00000555238,NM_001005743.1;NUMB,intron_variant,,ENST00000359560,;NUMB,intron_variant,,ENST00000557597,NM_003744.5;NUMB,intron_variant,,ENST00000356296,;NUMB,intron_variant,,ENST00000555394,NM_001005744.1;NUMB,intron_variant,,ENST00000535282,;NUMB,intron_variant,,ENST00000560335,;NUMB,intron_variant,,ENST00000555738,;NUMB,intron_variant,,ENST00000559312,;NUMB,intron_variant,,ENST00000554521,;NUMB,intron_variant,,ENST00000555307,;NUMB,intron_variant,,ENST00000554394,;NUMB,intron_variant,,ENST00000555859,;NUMB,intron_variant,,ENST00000555987,;NUMB,intron_variant,,ENST00000554818,;NUMB,upstream_gene_variant,,ENST00000454166,;NUMB,upstream_gene_variant,,ENST00000544991,;NUMB,intron_variant,,ENST00000557031,;NUMB,intron_variant,,ENST00000554315,;NUMB,intron_variant,,ENST00000557774,;NUMB,intron_variant,,ENST00000556112,;"	"G"	"ENSG00000133961"	"ENST00000355058"	"Transcript"	"intron_variant"	"-/3593"	"-/1956"	"-/651"	""	""	""	"1"	NA	-1	"NUMB"	"HGNC"	8060	"protein_coding"	"YES"	"CCDS32116.1"	"ENSP00000347169"	"P49757"	"Q5D0E5,G3V4S6,G3V3Z8,G3V3R1"	"UPI00001309BF"	""	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c20cf13c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103896103896104	"WGS"	FALSE
"10857"	"POMT2"	29954	"mskcc.org"	"GRCh37"	"14"	77744330	77744330	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs371595187"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2147+407G>A"	""	""	"ENST00000261534"	""	95	"69"	26	49	"49"	0	"POMT2,intron_variant,,ENST00000261534,NM_013382.5;POMT2,intron_variant,,ENST00000556394,;POMT2,downstream_gene_variant,,ENST00000556171,;POMT2,intron_variant,,ENST00000602717,;POMT2,intron_variant,,ENST00000452340,;POMT2,intron_variant,,ENST00000554767,;POMT2,intron_variant,,ENST00000555710,;POMT2,downstream_gene_variant,,ENST00000555134,;POMT2,downstream_gene_variant,,ENST00000554564,;POMT2,downstream_gene_variant,,ENST00000556446,;"	"T"	"ENSG00000009830"	"ENST00000261534"	"Transcript"	"intron_variant"	"-/4876"	"-/2253"	"-/750"	""	""	"rs371595187"	"1"	NA	-1	"POMT2"	"HGNC"	19743	"protein_coding"	"YES"	"CCDS9857.1"	"ENSP00000261534"	"Q9UKY4"	"G3V4X9"	"UPI0000070587"	"NM_013382.5"	""	""	""	"20/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"c20e1a94-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"10858"	"NRXN3"	9369	"mskcc.org"	"GRCh37"	"14"	78734825	78734825	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.709+24680C>T"	""	""	"ENST00000554738"	""	79	"54"	25	41	"41"	0	"NRXN3,intron_variant,,ENST00000554738,;NRXN3,intron_variant,,ENST00000556088,;"	"T"	"ENSG00000021645"	"ENST00000554738"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/6446"	"-/4179"	"-/1392"	""	""	""	"1"	NA	1	"NRXN3"	"HGNC"	8010	"nonsense_mediated_decay"	""	""	"ENSP00000450683"	"Q9Y4C0"	"G3V4R9,G3V247"	"UPI0000074791"	""	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c20e5a18-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316455696202532	"WGS"	FALSE
"10859"	"NRXN3"	9369	"mskcc.org"	"GRCh37"	"14"	79466782	79466782	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2143+12298C>T"	""	""	"ENST00000554719"	""	103	"95"	8	71	"71"	0	"NRXN3,intron_variant,,ENST00000554719,NM_004796.5;NRXN3,intron_variant,,ENST00000335750,;NRXN3,intron_variant,,ENST00000554738,;"	"T"	"ENSG00000021645"	"ENST00000554719"	"Transcript"	"intron_variant"	"-/4156"	"-/3186"	"-/1061"	""	""	""	"1"	NA	1	"NRXN3"	"HGNC"	8010	"protein_coding"	"YES"	"CCDS9870.1"	"ENSP00000451648"	"Q9Y4C0"	"G3V4R9,G3V247"	"UPI0000167BBA"	"NM_004796.5"	""	""	""	"12/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c20e723c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0776699029126214	"WGS"	FALSE
"10860"	"NRXN3"	9369	"mskcc.org"	"GRCh37"	"14"	79610743	79610743	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2143+156259G>A"	""	""	"ENST00000554719"	""	87	"64"	23	52	"52"	0	"NRXN3,intron_variant,,ENST00000554719,NM_004796.5;NRXN3,intron_variant,,ENST00000335750,;NRXN3,intron_variant,,ENST00000554738,;"	"A"	"ENSG00000021645"	"ENST00000554719"	"Transcript"	"intron_variant"	"-/4156"	"-/3186"	"-/1061"	""	""	""	"1"	NA	1	"NRXN3"	"HGNC"	8010	"protein_coding"	"YES"	"CCDS9870.1"	"ENSP00000451648"	"Q9Y4C0"	"G3V4R9,G3V247"	"UPI0000167BBA"	"NM_004796.5"	""	""	""	"12/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c20e75ac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264367816091954	"WGS"	FALSE
"10861"	"NRXN3"	9369	"mskcc.org"	"GRCh37"	"14"	80116763	80116763	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2326-13358G>T"	""	""	"ENST00000554719"	""	98	"71"	27	68	"66"	2	"NRXN3,intron_variant,,ENST00000281127,NM_138970.4,NM_001272020.1;NRXN3,intron_variant,,ENST00000428277,NM_001105250.2;NRXN3,intron_variant,,ENST00000554719,NM_004796.5;NRXN3,intron_variant,,ENST00000335750,;NRXN3,intron_variant,,ENST00000557594,;NRXN3,intron_variant,,ENST00000556003,;NRXN3,intron_variant,,ENST00000555073,;NRXN3,intron_variant,,ENST00000554738,;NRXN3,intron_variant,,ENST00000555387,;"	"T"	"ENSG00000021645"	"ENST00000554719"	"Transcript"	"intron_variant"	"-/4156"	"-/3186"	"-/1061"	""	""	""	"1"	NA	1	"NRXN3"	"HGNC"	8010	"protein_coding"	"YES"	"CCDS9870.1"	"ENSP00000451648"	"Q9Y4C0"	"G3V4R9,G3V247"	"UPI0000167BBA"	"NM_004796.5"	""	""	""	"13/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c20e8c86-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275510204081633	"WGS"	FALSE
"10862"	"RP11-666E17.1"	0	"mskcc.org"	"GRCh37"	"14"	82229572	82229572	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.220+10986G>A"	""	""	"ENST00000554814"	""	98	"67"	31	61	"61"	0	"RP11-666E17.1,intron_variant,,ENST00000554814,;"	"A"	"ENSG00000259035"	"ENST00000554814"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/559"	""	""	""	""	""	"1"	NA	1	"RP11-666E17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c20ed416-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316326530612245	"WGS"	FALSE
"10863"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	82738490	82738490	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"53"	24	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c20ee01e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311688311688312	"WGS"	FALSE
"10864"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	83216409	83216409	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"60"	27	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c20f1868-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"10865"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	83401738	83401738	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"94"	10	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c20f2330-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0961538461538462	"WGS"	FALSE
"10866"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	83716484	83716484	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"74"	28	70	"70"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c20f2fe2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274509803921569	"WGS"	FALSE
"10867"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	87495434	87495434	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"82"	7	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c20fe842-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	FALSE
"10868"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	88155387	88155387	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"95"	8	67	"67"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c21003ea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0776699029126214	"WGS"	FALSE
"10869"	"EML5"	161436	"mskcc.org"	"GRCh37"	"14"	89259844	89259844	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000554922"	""	97	"69"	28	46	"46"	0	"EML5,upstream_gene_variant,,ENST00000554922,NM_183387.2;EML5,upstream_gene_variant,,ENST00000352093,;EML5,upstream_gene_variant,,ENST00000380664,;"	"C"	"ENSG00000165521"	"ENST00000554922"	"Transcript"	"upstream_gene_variant"	"-/9570"	"-/5934"	"-/1977"	""	""	""	"1"	"748"	-1	"EML5"	"HGNC"	18197	"protein_coding"	"YES"	"CCDS45148.1"	"ENSP00000451998"	"Q05BV3"	""	"UPI00001C0438"	"NM_183387.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c21027d0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288659793814433	"WGS"	FALSE
"10870"	"FOXN3"	1112	"mskcc.org"	"GRCh37"	"14"	89691289	89691289	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.746-34496C>T"	""	""	"ENST00000345097"	""	80	"72"	8	39	"39"	0	"FOXN3,intron_variant,,ENST00000345097,NM_001085471.1;FOXN3,intron_variant,,ENST00000261302,;FOXN3,intron_variant,,ENST00000557258,NM_005197.3;FOXN3,intron_variant,,ENST00000555353,;FOXN3,intron_variant,,ENST00000553840,;FOXN3,intron_variant,,ENST00000553353,;FOXN3,upstream_gene_variant,,ENST00000555010,;FOXN3,intron_variant,,ENST00000557718,;"	"A"	"ENSG00000053254"	"ENST00000345097"	"Transcript"	"intron_variant"	"-/7832"	"-/1473"	"-/490"	""	""	""	"1"	NA	-1	"FOXN3"	"HGNC"	1928	"protein_coding"	"YES"	"CCDS41977.1"	"ENSP00000343288"	"O00409"	"G3V5C7,G3V4N5,G3V3A7"	"UPI000003B451"	"NM_001085471.1"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c21040e4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"10871"	"FOXN3"	1112	"mskcc.org"	"GRCh37"	"14"	89691302	89691302	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.746-34509T>C"	""	""	"ENST00000345097"	""	85	"78"	7	39	"39"	0	"FOXN3,intron_variant,,ENST00000345097,NM_001085471.1;FOXN3,intron_variant,,ENST00000261302,;FOXN3,intron_variant,,ENST00000557258,NM_005197.3;FOXN3,intron_variant,,ENST00000555353,;FOXN3,intron_variant,,ENST00000553840,;FOXN3,intron_variant,,ENST00000553353,;FOXN3,upstream_gene_variant,,ENST00000555010,;FOXN3,intron_variant,,ENST00000557718,;"	"G"	"ENSG00000053254"	"ENST00000345097"	"Transcript"	"intron_variant"	"-/7832"	"-/1473"	"-/490"	""	""	""	"1"	NA	-1	"FOXN3"	"HGNC"	1928	"protein_coding"	"YES"	"CCDS41977.1"	"ENSP00000343288"	"O00409"	"G3V5C7,G3V4N5,G3V3A7"	"UPI000003B451"	"NM_001085471.1"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c21041c0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0823529411764706	"WGS"	FALSE
"10872"	"C14orf159"	80017	"mskcc.org"	"GRCh37"	"14"	91673505	91673505	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1564+2336G>A"	""	""	"ENST00000518868"	""	46	"41"	5	33	"33"	0	"C14orf159,intron_variant,,ENST00000518868,NM_001286470.1;C14orf159,intron_variant,,ENST00000523771,NM_001286471.1;C14orf159,intron_variant,,ENST00000256324,NM_001102368.1;C14orf159,intron_variant,,ENST00000522322,NM_001102367.1;C14orf159,intron_variant,,ENST00000412671,;C14orf159,intron_variant,,ENST00000523816,NM_001102366.1;C14orf159,intron_variant,,ENST00000521077,NM_001286472.1;C14orf159,intron_variant,,ENST00000520328,NM_001102369.1;C14orf159,intron_variant,,ENST00000428926,NM_024952.6;C14orf159,intron_variant,,ENST00000525393,;C14orf159,intron_variant,,ENST00000522816,;C14orf159,intron_variant,,ENST00000557303,;C14orf159,intron_variant,,ENST00000523837,;C14orf159,intron_variant,,ENST00000523461,;C14orf159,intron_variant,,ENST00000517306,;"	"A"	"ENSG00000133943"	"ENST00000518868"	"Transcript"	"intron_variant"	"-/3075"	"-/1866"	"-/621"	""	""	""	"1"	NA	1	"C14orf159"	"HGNC"	20498	"protein_coding"	"YES"	"CCDS41979.1"	"ENSP00000428263"	"Q7Z3D6"	"E5RK56,E5RK14,E5RJD1,E5RJ87,E5RJ62,E5RIU5,E5RIL4,E5RHG2,E5RGP9,E5RFT5"	"UPI000000CC60"	"NM_001286470.1"	""	""	""	"15/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c210d644-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108695652173913	"WGS"	FALSE
"10873"	"FBLN5"	10516	"mskcc.org"	"GRCh37"	"14"	92418757	92418757	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000342058"	""	99	"66"	33	57	"57"	0	"FBLN5,upstream_gene_variant,,ENST00000342058,NM_006329.3;FBLN5,upstream_gene_variant,,ENST00000554468,;FBLN5,upstream_gene_variant,,ENST00000557088,;FBLN5,upstream_gene_variant,,ENST00000557570,;"	"A"	"ENSG00000140092"	"ENST00000342058"	"Transcript"	"upstream_gene_variant"	"-/2123"	"-/1347"	"-/448"	""	""	""	"1"	"4590"	-1	"FBLN5"	"HGNC"	3602	"protein_coding"	"YES"	"CCDS9898.1"	"ENSP00000345008"	"Q9UBX5"	"G3V3Y2"	"UPI0000001070"	"NM_006329.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"c2110ed4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"10874"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	92778370	92778370	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"52"	26	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c2112d06-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"10875"	"BTBD7"	55727	"mskcc.org"	"GRCh37"	"14"	93733805	93733805	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1163-3466T>G"	""	""	"ENST00000334746"	""	83	"52"	31	60	"60"	0	"BTBD7,intron_variant,,ENST00000334746,NM_001002860.2;BTBD7,intron_variant,,ENST00000554565,;BTBD7,intron_variant,,ENST00000393170,;BTBD7,intron_variant,,ENST00000553975,;BTBD7,intron_variant,,ENST00000355125,;BTBD7,intron_variant,,ENST00000554644,;"	"C"	"ENSG00000011114"	"ENST00000334746"	"Transcript"	"intron_variant"	"-/8430"	"-/3399"	"-/1132"	""	""	""	"1"	NA	-1	"BTBD7"	"HGNC"	18269	"protein_coding"	"YES"	"CCDS32146.1"	"ENSP00000335615"	"Q9P203"	"G3V2J4"	"UPI00001FDA78"	"NM_001002860.2"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c211748c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373493975903614	"WGS"	FALSE
"10876"	"UNC79"	57578	"mskcc.org"	"GRCh37"	"14"	93827328	93827328	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-351+27459G>A"	""	""	"ENST00000256339"	""	64	"51"	13	59	"59"	0	"UNC79,intron_variant,,ENST00000256339,NM_020818.3;"	"A"	"ENSG00000133958"	"ENST00000256339"	"Transcript"	"intron_variant"	"-/8400"	"-/7377"	"-/2458"	""	""	""	"1"	NA	1	"UNC79"	"HGNC"	19966	"protein_coding"	"YES"	"CCDS9911.2"	"ENSP00000256339"	"Q9P2D8"	""	"UPI0000D62441"	"NM_020818.3"	""	""	""	"1/49"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c21180bc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203125	"WGS"	FALSE
"10877"	"PRIMA1"	145270	"mskcc.org"	"GRCh37"	"14"	94220840	94220840	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.230-17124G>A"	""	""	"ENST00000393140"	""	98	"72"	26	55	"55"	0	"PRIMA1,intron_variant,,ENST00000393140,NM_178013.3;PRIMA1,intron_variant,,ENST00000393143,;PRIMA1,intron_variant,,ENST00000316227,;PRIMA1,intron_variant,,ENST00000477603,;"	"T"	"ENSG00000175785"	"ENST00000393140"	"Transcript"	"intron_variant"	"-/3711"	"-/462"	"-/153"	""	""	""	"1"	NA	-1	"PRIMA1"	"HGNC"	18319	"protein_coding"	"YES"	"CCDS9912.1"	"ENSP00000376848"	"Q86XR5"	""	"UPI0000051D0A"	"NM_178013.3"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c211912e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26530612244898	"WGS"	FALSE
"10878"	"RP11-76E12.1"	100129345	"mskcc.org"	"GRCh37"	"14"	98095658	98095658	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000355909"	""	94	"67"	27	61	"61"	0	"RP11-76E12.1,downstream_gene_variant,,ENST00000355909,;RP11-76E12.1,downstream_gene_variant,,ENST00000556163,;"	"T"	"ENSG00000197176"	"ENST00000355909"	"Transcript"	"downstream_gene_variant"	"-/1670"	""	""	""	""	""	"1"	"3326"	-1	"RP11-76E12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c212abe0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287234042553192	"WGS"	FALSE
"10879"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	101650739	101650739	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"58"	29	42	"41"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c213bd28-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"10880"	"HSP90AA1"	3320	"mskcc.org"	"GRCh37"	"14"	102542533	102542533	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000334701"	""	64	"57"	7	37	"37"	0	"HSP90AA1,downstream_gene_variant,,ENST00000334701,NM_001017963.2;HSP90AA1,downstream_gene_variant,,ENST00000216281,NM_005348.3;RN7SL472P,downstream_gene_variant,,ENST00000492799,;"	"T"	"ENSG00000080824"	"ENST00000334701"	"Transcript"	"downstream_gene_variant"	"-/3510"	"-/2565"	"-/854"	""	""	""	"1"	"4853"	-1	"HSP90AA1"	"HGNC"	5253	"protein_coding"	"YES"	"CCDS32160.1"	"ENSP00000335153"	"P07900"	"Q96HX7,Q8TBA7,Q86SX1,K9JA46"	"UPI0000408144"	"NM_001017963.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c2141ea8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109375	"WGS"	TRUE
"10881"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	103766223	103766223	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"72"	9	41	"41"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c214a2ba-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"10882"	"RP11-73M18.2"	3831	"mskcc.org"	"GRCh37"	"14"	104076766	104076766	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.515+23065T>C"	""	""	"ENST00000472726"	""	101	"92"	9	50	"50"	0	"RP11-73M18.2,intron_variant,,ENST00000472726,;KLC1,intron_variant,,ENST00000557172,;APOPT1,downstream_gene_variant,,ENST00000474271,;"	"C"	"ENSG00000256500"	"ENST00000472726"	"Transcript"	"intron_variant"	"-/2505"	"-/2199"	"-/732"	""	""	""	"1"	NA	1	"RP11-73M18.2"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000439065"	""	"Q7Z5D5,G3V2P7,E7EVH7"	"UPI0001AE69A1"	""	""	""	""	"4/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c214d104-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0891089108910891	"WGS"	FALSE
"10883"	"C14orf2"	9556	"mskcc.org"	"GRCh37"	"14"	104388796	104388796	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000414262"	""	70	"63"	7	39	"39"	0	"C14orf2,intron_variant,,ENST00000554880,;C14orf2,upstream_gene_variant,,ENST00000553430,;C14orf2,upstream_gene_variant,,ENST00000554713,;C14orf2,upstream_gene_variant,,ENST00000414262,NM_001127393.1;C14orf2,upstream_gene_variant,,ENST00000555030,;C14orf2,upstream_gene_variant,,ENST00000286953,NM_004894.2;C14orf2,upstream_gene_variant,,ENST00000557040,;C14orf2,upstream_gene_variant,,ENST00000553449,;C14orf2,upstream_gene_variant,,ENST00000554089,;C14orf2,upstream_gene_variant,,ENST00000557260,;C14orf2,upstream_gene_variant,,ENST00000554528,;"	"T"	"ENSG00000156411"	"ENST00000414262"	"Transcript"	"upstream_gene_variant"	"-/842"	"-/228"	"-/75"	""	""	""	"1"	"958"	-1	"C14orf2"	"HGNC"	1188	"protein_coding"	"YES"	"CCDS45169.1"	"ENSP00000401770"	"P56378"	""	"UPI000000CC79"	"NM_001127393.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c2150444-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"10884"	"C14orf2"	9556	"mskcc.org"	"GRCh37"	"14"	104388805	104388805	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000414262"	""	68	"60"	8	40	"40"	0	"C14orf2,intron_variant,,ENST00000554880,;C14orf2,upstream_gene_variant,,ENST00000553430,;C14orf2,upstream_gene_variant,,ENST00000554713,;C14orf2,upstream_gene_variant,,ENST00000414262,NM_001127393.1;C14orf2,upstream_gene_variant,,ENST00000555030,;C14orf2,upstream_gene_variant,,ENST00000286953,NM_004894.2;C14orf2,upstream_gene_variant,,ENST00000557040,;C14orf2,upstream_gene_variant,,ENST00000553449,;C14orf2,upstream_gene_variant,,ENST00000554089,;C14orf2,upstream_gene_variant,,ENST00000557260,;C14orf2,upstream_gene_variant,,ENST00000554528,;"	"T"	"ENSG00000156411"	"ENST00000414262"	"Transcript"	"upstream_gene_variant"	"-/842"	"-/228"	"-/75"	""	""	""	"1"	"967"	-1	"C14orf2"	"HGNC"	1188	"protein_coding"	"YES"	"CCDS45169.1"	"ENSP00000401770"	"P56378"	""	"UPI000000CC79"	"NM_001127393.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c2150520-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"10887"	"ATP5G1P1"	0	"mskcc.org"	"GRCh37"	"14"	106005905	106005905	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000448724"	""	106	"79"	27	78	"78"	0	"ATP5G1P1,upstream_gene_variant,,ENST00000448724,;"	"T"	"ENSG00000230157"	"ENST00000448724"	"Transcript"	"upstream_gene_variant"	"-/379"	""	""	""	""	""	"1"	"2329"	-1	"ATP5G1P1"	"HGNC"	19815	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"c2167108-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254716981132075	"WGS"	FALSE
"10888"	"IGHV1OR15-9"	0	"mskcc.org"	"GRCh37"	"15"	20170417	20170417	"+"	"5'Flank"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000338912"	""	90	"57"	33	69	"69"	0	"IGHV1OR15-9,upstream_gene_variant,,ENST00000338912,;SLC20A1P3,downstream_gene_variant,,ENST00000555979,;"	"G"	"ENSG00000188403"	"ENST00000338912"	"Transcript"	"upstream_gene_variant"	"-/353"	"-/353"	"-/117"	""	""	""	"1"	"63"	-1	"IGHV1OR15-9"	"HGNC"	5569	"IG_V_gene"	"YES"	""	"ENSP00000474639"	""	""	"UPI0000113A94"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c218dac4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.366666666666667	"WGS"	FALSE
"10889"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	20376147	20376147	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	40	"34"	6	28	"28"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c2195aee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WGS"	FALSE
"10890"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	20403974	20403974	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	215	"186"	29	149	"149"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c21965fc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134883720930233	"WGS"	FALSE
"10891"	"RP11-2F9.4"	0	"mskcc.org"	"GRCh37"	"15"	22435704	22435704	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.74+400G>A"	""	""	"ENST00000565129"	""	99	"87"	12	67	"67"	0	"RP11-2F9.4,intron_variant,,ENST00000565129,;RP11-2F9.3,downstream_gene_variant,,ENST00000460876,;RP11-2F9.3,downstream_gene_variant,,ENST00000415697,;"	"T"	"ENSG00000260739"	"ENST00000565129"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/545"	""	""	""	""	""	"1"	NA	-1	"RP11-2F9.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c21b2662-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"10892"	"NIPA2"	81614	"mskcc.org"	"GRCh37"	"15"	23032931	23032931	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-216+347T>A"	""	""	"ENST00000337451"	""	102	"96"	6	55	"55"	0	"NIPA2,intron_variant,,ENST00000337451,NM_030922.6;NIPA2,intron_variant,,ENST00000398014,NM_001008860.2;NIPA2,intron_variant,,ENST00000398013,NM_001008892.2;NIPA2,intron_variant,,ENST00000359727,NM_001184888.1;NIPA2,intron_variant,,ENST00000539711,NM_001008894.2;NIPA2,intron_variant,,ENST00000560039,;NIPA2,intron_variant,,ENST00000559571,;NIPA2,intron_variant,,ENST00000560205,;NIPA2,intron_variant,,ENST00000561072,;NIPA2,intron_variant,,ENST00000560762,;"	"T"	"ENSG00000140157"	"ENST00000337451"	"Transcript"	"intron_variant"	"-/3233"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"NIPA2"	"HGNC"	17044	"protein_coding"	"YES"	"CCDS10010.1"	"ENSP00000337618"	"Q8N8Q9"	"H0YMQ7"	"UPI0000070013"	"NM_030922.6"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"c21bd184-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"10893"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	23782436	23782436	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"86"	12	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c21c6aa4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122448979591837	"WGS"	FALSE
"10894"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	24358861	24358861	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"61"	28	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c21c951a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314606741573034	"WGS"	FALSE
"10895"	"ATP10A"	57194	"mskcc.org"	"GRCh37"	"15"	25933127	25933127	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3166-152C>G"	""	""	"ENST00000356865"	""	90	"49"	41	47	"47"	0	"ATP10A,missense_variant,p.Thr34Arg,ENST00000555756,;ATP10A,intron_variant,,ENST00000356865,NM_024490.3;ATP10A,intron_variant,,ENST00000555815,;ATP10A,upstream_gene_variant,,ENST00000555450,;"	"C"	"ENSG00000206190"	"ENST00000356865"	"Transcript"	"intron_variant"	"-/6680"	"-/4500"	"-/1499"	""	""	""	"1"	NA	-1	"ATP10A"	"HGNC"	13542	"protein_coding"	"YES"	"CCDS32178.1"	"ENSP00000349325"	"O60312"	""	"UPI0000124FAB"	"NM_024490.3"	""	""	""	"15/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"c21d87f4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.455555555555556	"WGS"	FALSE
"10896"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	27941400	27941400	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"57"	24	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c21dec76-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"10897"	"HERC2"	8924	"mskcc.org"	"GRCh37"	"15"	28527180	28527180	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.323-1747C>G"	""	""	"ENST00000261609"	""	109	"102"	7	39	"39"	0	"HERC2,intron_variant,,ENST00000261609,NM_004667.5;HERC2,intron_variant,,ENST00000564734,;HERC2,intron_variant,,ENST00000564383,;"	"C"	"ENSG00000128731"	"ENST00000261609"	"Transcript"	"intron_variant"	"-/15337"	"-/14505"	"-/4834"	""	""	""	"1"	NA	-1	"HERC2"	"HGNC"	4868	"protein_coding"	"YES"	"CCDS10021.1"	"ENSP00000261609"	"O95714"	""	"UPI00004578F7"	"NM_004667.5"	""	""	""	"4/92"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"c21e0cc4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0642201834862385	"WGS"	FALSE
"10898"	"RP11-578F21.12"	646278	"mskcc.org"	"GRCh37"	"15"	29062497	29062497	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.973+464C>T"	""	""	"ENST00000566321"	""	82	"67"	15	46	"46"	0	"RP11-578F21.12,intron_variant,,ENST00000563202,;RP11-578F21.12,intron_variant,,ENST00000566321,;"	"T"	"ENSG00000261377"	"ENST00000566321"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1069"	""	""	""	""	""	"1"	NA	1	"RP11-578F21.12"	"Clone_based_vega_gene"	NA	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c21e91a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182926829268293	"WGS"	FALSE
"10899"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	32283309	32283309	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"88"	7	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c21fbce0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"10900"	"FMN1"	342184	"mskcc.org"	"GRCh37"	"15"	33260718	33260718	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2318+197A>C"	""	""	"ENST00000334528"	""	78	"50"	28	49	"49"	0	"FMN1,intron_variant,,ENST00000334528,NM_001103184.3;FMN1,intron_variant,,ENST00000559047,NM_001277313.1;FMN1,intron_variant,,ENST00000561249,;SNORD77,upstream_gene_variant,,ENST00000391113,;"	"G"	"ENSG00000248905"	"ENST00000334528"	"Transcript"	"intron_variant"	"-/12355"	"-/3591"	"-/1196"	""	""	""	"1"	NA	-1	"FMN1"	"HGNC"	3768	"protein_coding"	"YES"	"CCDS45209.1"	"ENSP00000333950"	"Q68DA7"	""	"UPI00004086C3"	"NM_001103184.3"	""	""	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c2202464-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358974358974359	"WGS"	FALSE
"10901"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	38679168	38679168	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"54"	24	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c2213354-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"10902"	"RP11-624L4.1"	0	"mskcc.org"	"GRCh37"	"15"	39443157	39443157	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.45-79348G>C"	""	""	"ENST00000561058"	""	88	"66"	22	65	"65"	0	"RP11-624L4.1,intron_variant,,ENST00000561058,;RP11-624L4.1,intron_variant,,ENST00000560484,;RP11-624L4.1,intron_variant,,ENST00000558209,;"	"G"	"ENSG00000259345"	"ENST00000561058"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/570"	""	""	""	""	""	"1"	NA	-1	"RP11-624L4.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c2214e7a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"10903"	"CHP1"	11261	"mskcc.org"	"GRCh37"	"15"	41539507	41539507	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.140+3570T>C"	""	""	"ENST00000334660"	""	88	"78"	10	45	"45"	0	"CHP1,intron_variant,,ENST00000334660,NM_007236.4;CHP1,intron_variant,,ENST00000560397,;CHP1,intron_variant,,ENST00000558351,;CHP1,intron_variant,,ENST00000561280,;CHP1,intron_variant,,ENST00000560411,;CHP1,intron_variant,,ENST00000392151,;CHP1,intron_variant,,ENST00000560784,;"	"C"	"ENSG00000187446"	"ENST00000334660"	"Transcript"	"intron_variant"	"-/3284"	"-/588"	"-/195"	""	""	""	"1"	NA	1	"CHP1"	"HGNC"	17433	"protein_coding"	"YES"	"CCDS10073.1"	"ENSP00000335632"	"Q99653"	""	"UPI000013D461"	"NM_007236.4"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c222046e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WGS"	FALSE
"10904"	"MGA"	23269	"mskcc.org"	"GRCh37"	"15"	41966214	41966214	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1064+4058C>G"	""	""	"ENST00000219905"	""	93	"87"	6	53	"53"	0	"MGA,intron_variant,,ENST00000219905,NM_001164273.1;MGA,intron_variant,,ENST00000389936,;MGA,intron_variant,,ENST00000570161,;MGA,intron_variant,,ENST00000545763,NM_001080541.2;MGA,intron_variant,,ENST00000566586,;MGA,intron_variant,,ENST00000563576,;MGA,intron_variant,,ENST00000566718,;MGA,intron_variant,,ENST00000561532,;MGA,intron_variant,,ENST00000568630,;"	"G"	"ENSG00000174197"	"ENST00000219905"	"Transcript"	"intron_variant"	"-/12042"	"-/9198"	"-/3065"	""	""	""	"1"	NA	1	"MGA"	"HGNC"	14010	"protein_coding"	"YES"	"CCDS55959.1"	"ENSP00000219905"	"Q8IWI9"	"H3BTF4,H3BP52"	"UPI0001B2337E"	"NM_001164273.1"	""	""	""	"2/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c22244ec-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"10905"	"TP53BP1"	7158	"mskcc.org"	"GRCh37"	"15"	43774299	43774299	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.372-1079A>G"	""	""	"ENST00000382044"	""	63	"57"	6	37	"37"	0	"TP53BP1,intron_variant,,ENST00000263801,NM_005657.2;TP53BP1,intron_variant,,ENST00000382044,NM_001141980.1,NM_001141979.1;TP53BP1,intron_variant,,ENST00000450115,;TP53BP1,intron_variant,,ENST00000382039,;TP53BP1,intron_variant,,ENST00000413546,;TP53BP1,intron_variant,,ENST00000572085,;"	"C"	"ENSG00000067369"	"ENST00000382044"	"Transcript"	"intron_variant"	"-/6231"	"-/5934"	"-/1977"	""	""	""	"1"	NA	-1	"TP53BP1"	"HGNC"	11999	"protein_coding"	"YES"	"CCDS45250.1"	"ENSP00000371475"	"Q12888"	"B3KVT9"	"UPI0000D720ED"	"NM_001141980.1,NM_001141979.1"	""	""	""	"4/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c222b120-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"10906"	"CTDSPL2"	51496	"mskcc.org"	"GRCh37"	"15"	44805195	44805195	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.970-1601T>A"	""	""	"ENST00000260327"	""	64	"59"	5	56	"56"	0	"CTDSPL2,intron_variant,,ENST00000260327,NM_016396.2;CTDSPL2,intron_variant,,ENST00000396780,;CTDSPL2,intron_variant,,ENST00000558373,;CTDSPL2,intron_variant,,ENST00000558966,;CTD-2329K10.1,downstream_gene_variant,,ENST00000561324,;CTDSPL2,intron_variant,,ENST00000560620,;"	"A"	"ENSG00000137770"	"ENST00000260327"	"Transcript"	"intron_variant"	"-/6828"	"-/1401"	"-/466"	""	""	""	"1"	NA	1	"CTDSPL2"	"HGNC"	26936	"protein_coding"	"YES"	"CCDS10110.1"	"ENSP00000260327"	"Q05D32"	"H0YNW9,H0YNU2,H0YMH7"	"UPI000004A0B3"	"NM_016396.2"	""	""	""	"8/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c2232e02-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.078125	"WGS"	FALSE
"10907"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	47195687	47195687	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"82"	6	62	"62"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c223c592-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"10908"	"ATP8B4"	79895	"mskcc.org"	"GRCh37"	"15"	50347637	50347637	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.88-7976C>A"	""	""	"ENST00000284509"	""	92	"68"	24	60	"60"	0	"ATP8B4,intron_variant,,ENST00000284509,NM_024837.3;ATP8B4,intron_variant,,ENST00000559829,;ATP8B4,intron_variant,,ENST00000558829,;ATP8B4,intron_variant,,ENST00000560437,;ATP8B4,intron_variant,,ENST00000559726,;ATP8B4,intron_variant,,ENST00000558906,;ATP8B4,intron_variant,,ENST00000557955,;"	"T"	"ENSG00000104043"	"ENST00000284509"	"Transcript"	"intron_variant"	"-/5677"	"-/3579"	"-/1192"	""	""	""	"1"	NA	-1	"ATP8B4"	"HGNC"	13536	"protein_coding"	"YES"	"CCDS32238.1"	"ENSP00000284509"	"Q8TF62"	"H0YMB5"	"UPI0000055904"	"NM_024837.3"	""	""	""	"3/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c224382e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"10909"	"AP4E1"	23431	"mskcc.org"	"GRCh37"	"15"	51300613	51300613	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000261842"	""	77	"70"	7	57	"57"	0	"AP4E1,downstream_gene_variant,,ENST00000261842,NM_001252127.1,NM_007347.4;AP4E1,downstream_gene_variant,,ENST00000560508,;AP4E1,downstream_gene_variant,,ENST00000561397,;"	"G"	"ENSG00000081014"	"ENST00000261842"	"Transcript"	"downstream_gene_variant"	"-/6758"	"-/3414"	"-/1137"	""	""	""	"1"	"2516"	1	"AP4E1"	"HGNC"	573	"protein_coding"	"YES"	"CCDS32240.1"	"ENSP00000261842"	"Q9UPM8"	""	"UPI00001D89D8"	"NM_001252127.1,NM_007347.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"c2249580-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"10910"	"TNFAIP8L3"	388121	"mskcc.org"	"GRCh37"	"15"	51393138	51393138	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.172+4064G>T"	""	""	"ENST00000327536"	""	90	"77"	13	68	"68"	0	"TNFAIP8L3,intron_variant,,ENST00000327536,NM_207381.2;RP11-108K3.1,intron_variant,,ENST00000559909,;"	"A"	"ENSG00000183578"	"ENST00000327536"	"Transcript"	"intron_variant"	"-/2262"	"-/879"	"-/292"	""	""	""	"1"	NA	-1	"TNFAIP8L3"	"HGNC"	20620	"protein_coding"	"YES"	"CCDS32241.1"	"ENSP00000328016"	"Q5GJ75"	""	"UPI00004C7A8B"	"NM_207381.2"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c2249ab2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.144444444444444	"WGS"	FALSE
"10911"	"RP11-844G16.1"	0	"mskcc.org"	"GRCh37"	"15"	56610410	56610410	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000563485"	""	104	"98"	6	63	"63"	0	"TEX9,intron_variant,,ENST00000560827,;RP11-844G16.1,upstream_gene_variant,,ENST00000563485,;"	"C"	"ENSG00000261174"	"ENST00000563485"	"Transcript"	"upstream_gene_variant"	"-/527"	""	""	""	""	""	"1"	"4981"	1	"RP11-844G16.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c225e89a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0576923076923077	"WGS"	FALSE
"10912"	"ZNF280D"	54816	"mskcc.org"	"GRCh37"	"15"	57078484	57078484	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-200+20074C>T"	""	""	"ENST00000559000"	""	109	"101"	8	60	"60"	0	"ZNF280D,intron_variant,,ENST00000559000,;"	"A"	"ENSG00000137871"	"ENST00000559000"	"Transcript"	"intron_variant"	"-/4726"	"-/2244"	"-/747"	""	""	""	"1"	NA	-1	"ZNF280D"	"HGNC"	25953	"protein_coding"	""	""	"ENSP00000453045"	""	"H0YL38"	"UPI0000E01FB5"	""	""	""	""	"6/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c225fe66-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.073394495412844	"WGS"	FALSE
"10913"	"TCF12"	6938	"mskcc.org"	"GRCh37"	"15"	57210584	57210584	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000438423"	""	105	"96"	9	54	"54"	0	"ZNF280D,5_prime_UTR_variant,,ENST00000559000,;TCF12,upstream_gene_variant,,ENST00000267811,NM_003205.3,NM_207038.1;TCF12,upstream_gene_variant,,ENST00000438423,NM_207037.1,NM_207036.1;TCF12,upstream_gene_variant,,ENST00000452095,;TCF12,upstream_gene_variant,,ENST00000333725,;TCF12,upstream_gene_variant,,ENST00000557843,;TCF12,upstream_gene_variant,,ENST00000559609,;TCF12,upstream_gene_variant,,ENST00000557947,;ZNF280D,non_coding_transcript_exon_variant,,ENST00000561122,;ZNF280D,non_coding_transcript_exon_variant,,ENST00000560587,;ZNF280D,upstream_gene_variant,,ENST00000559920,;TCF12,upstream_gene_variant,,ENST00000560190,;TCF12,upstream_gene_variant,,ENST00000558908,;TCF12,upstream_gene_variant,,ENST00000561152,;"	"A"	"ENSG00000140262"	"ENST00000438423"	"Transcript"	"upstream_gene_variant"	"-/4786"	"-/2121"	"-/706"	""	""	""	"1"	"237"	1	"TCF12"	"HGNC"	11623	"protein_coding"	"YES"	"CCDS10160.1"	"ENSP00000388940"	"Q99081"	"Q9NQY9,Q9NQY7,Q9NQY6,Q9NQY5,Q9NQY4,Q9NQY3,Q9NQY2,Q9NQY1,H0YNQ5"	"UPI000018CEA6"	"NM_207037.1,NM_207036.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGG"	"c2260b54-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	TRUE
"10914"	"CGNL1"	84952	"mskcc.org"	"GRCh37"	"15"	57797067	57797067	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2404-11911A>T"	""	""	"ENST00000281282"	""	103	"68"	35	51	"51"	0	"CGNL1,intron_variant,,ENST00000281282,NM_032866.4,NM_001252335.1;"	"T"	"ENSG00000128849"	"ENST00000281282"	"Transcript"	"intron_variant"	"-/7224"	"-/3909"	"-/1302"	""	""	""	"1"	NA	1	"CGNL1"	"HGNC"	25931	"protein_coding"	"YES"	"CCDS10161.1"	"ENSP00000281282"	"Q0VF96"	""	"UPI000019B4EF"	"NM_032866.4,NM_001252335.1"	""	""	""	"8/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"c2262dc8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.339805825242718	"WGS"	FALSE
"10915"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	58147519	58147519	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"66"	17	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c22636e2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204819277108434	"WGS"	FALSE
"10916"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	58203219	58203219	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"59"	34	71	"71"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c22638ea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.365591397849462	"WGS"	FALSE
"10917"	"BNIP2"	663	"mskcc.org"	"GRCh37"	"15"	59958505	59958505	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1257-2186T>C"	""	""	"ENST00000267859"	""	99	"72"	27	59	"59"	0	"BNIP2,intron_variant,,ENST00000267859,;BNIP2,intron_variant,,ENST00000607373,NM_004330.2;BNIP2,intron_variant,,ENST00000415213,;BNIP2,intron_variant,,ENST00000439052,;AC092755.4,intron_variant,,ENST00000441746,;BNIP2,intron_variant,,ENST00000478981,;BNIP2,downstream_gene_variant,,ENST00000464390,;BNIP2,downstream_gene_variant,,ENST00000448414,;BNIP2,downstream_gene_variant,,ENST00000560776,;"	"G"	"ENSG00000140299"	"ENST00000267859"	"Transcript"	"intron_variant"	"-/6325"	"-/1308"	"-/435"	""	""	""	"1"	NA	-1	"BNIP2"	"HGNC"	1083	"protein_coding"	"YES"	"CCDS10174.2"	"ENSP00000267859"	""	"J3KN59"	"UPI0000E59C57"	""	""	""	""	"9/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c226a29e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"10918"	"FOXB1"	27023	"mskcc.org"	"GRCh37"	"15"	60339884	60339884	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.684+11456G>T"	""	""	"ENST00000560857"	""	100	"65"	35	61	"61"	0	"FOXB1,intron_variant,,ENST00000560857,;"	"T"	"ENSG00000171956"	"ENST00000560857"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/767"	""	""	""	""	""	"1"	NA	1	"FOXB1"	"HGNC"	3799	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c226b5ae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WGS"	FALSE
"10919"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	60542135	60542135	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"59"	11	42	"42"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c226c468-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157142857142857	"WGS"	FALSE
"10920"	"TLN2"	83660	"mskcc.org"	"GRCh37"	"15"	62921780	62921780	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-36-17694G>T"	""	""	"ENST00000561311"	""	87	"59"	28	61	"61"	0	"TLN2,intron_variant,,ENST00000561311,;"	"T"	"ENSG00000171914"	"ENST00000561311"	"Transcript"	"intron_variant"	"-/11880"	"-/7629"	"-/2542"	""	""	""	"1"	NA	1	"TLN2"	"HGNC"	15447	"protein_coding"	"YES"	"CCDS32261.1"	"ENSP00000453508"	"Q9Y4G6"	""	"UPI00001FE5FC"	""	""	""	""	"2/57"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c2275d06-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32183908045977	"WGS"	FALSE
"10921"	"FAM96A"	84191	"mskcc.org"	"GRCh37"	"15"	64380398	64380398	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.289+488G>T"	""	""	"ENST00000300030"	""	92	"60"	32	63	"62"	1	"FAM96A,intron_variant,,ENST00000557835,;FAM96A,intron_variant,,ENST00000300030,NM_032231.4;FAM96A,intron_variant,,ENST00000380290,NM_001014812.1;FAM96A,intron_variant,,ENST00000559950,;FAM96A,intron_variant,,ENST00000559705,;"	"A"	"ENSG00000166797"	"ENST00000300030"	"Transcript"	"intron_variant"	"-/1105"	"-/483"	"-/160"	""	""	""	"1"	NA	-1	"FAM96A"	"HGNC"	26235	"protein_coding"	"YES"	"CCDS10189.1"	"ENSP00000300030"	"Q9H5X1"	""	"UPI0000137917"	"NM_032231.4"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c2279a6e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347826086956522	"WGS"	FALSE
"10922"	"CSNK1G1"	53944	"mskcc.org"	"GRCh37"	"15"	64627809	64627809	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-225+20378A>G"	""	""	"ENST00000303052"	""	91	"84"	7	68	"68"	0	"CSNK1G1,intron_variant,,ENST00000303052,NM_022048.3;CSNK1G1,intron_variant,,ENST00000607537,;CTD-2116N17.1,intron_variant,,ENST00000606793,;CTD-2116N17.1,intron_variant,,ENST00000561349,;CSNK1G1,intron_variant,,ENST00000303032,;CTD-2116N17.1,intron_variant,,ENST00000560278,;CTD-2116N17.1,intron_variant,,ENST00000558783,;"	"C"	"ENSG00000169118"	"ENST00000303052"	"Transcript"	"intron_variant"	"-/8107"	"-/1269"	"-/422"	""	""	""	"1"	NA	-1	"CSNK1G1"	"HGNC"	2454	"protein_coding"	"YES"	"CCDS10192.2"	"ENSP00000305777"	"Q9HCP0"	"U3KQP7"	"UPI000003F575"	"NM_022048.3"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c227b0d0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"10923"	"RNU5A-1"	26831	"mskcc.org"	"GRCh37"	"15"	65587607	65587607	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000362698"	""	41	"26"	15	26	"26"	0	"RNU5A-1,upstream_gene_variant,,ENST00000362698,NR_002756.2;PARP16,intron_variant,,ENST00000558873,;"	"T"	"ENSG00000199568"	"ENST00000362698"	"Transcript"	"upstream_gene_variant"	"-/116"	""	""	""	""	""	"1"	"782"	1	"RNU5A-1"	"HGNC"	10211	"snRNA"	"YES"	""	""	""	""	""	"NR_002756.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c228461c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.365853658536585	"WGS"	FALSE
"10924"	"DPP8"	54878	"mskcc.org"	"GRCh37"	"15"	65796767	65796767	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.420+2814A>T"	""	""	"ENST00000341861"	""	78	"73"	5	47	"47"	0	"DPP8,intron_variant,,ENST00000341861,NM_197960.2;DPP8,intron_variant,,ENST00000300141,NM_130434.3;DPP8,intron_variant,,ENST00000321147,NM_197961.2;DPP8,intron_variant,,ENST00000321118,;DPP8,intron_variant,,ENST00000559233,;DPP8,intron_variant,,ENST00000358939,NM_017743.4;DPP8,intron_variant,,ENST00000339244,;DPP8,intron_variant,,ENST00000558529,;DPP8,intron_variant,,ENST00000559526,;DPP8,downstream_gene_variant,,ENST00000560436,;Y_RNA,downstream_gene_variant,,ENST00000516408,;DPP8,intron_variant,,ENST00000395652,;"	"A"	"ENSG00000074603"	"ENST00000341861"	"Transcript"	"intron_variant"	"-/8699"	"-/2697"	"-/898"	""	""	""	"1"	NA	-1	"DPP8"	"HGNC"	16490	"protein_coding"	"YES"	"CCDS10207.1"	"ENSP00000339208"	"Q6V1X1"	"H0YN53,H0YMV1"	"UPI00001BFAFE"	"NM_197960.2"	""	""	""	"3/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c22855bc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0641025641025641	"WGS"	FALSE
"10925"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	70249423	70249423	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"75"	33	77	"77"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c22a2568-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305555555555556	"WGS"	FALSE
"10926"	"LRRC49"	54839	"mskcc.org"	"GRCh37"	"15"	71338972	71338972	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1873-2776C>A"	""	""	"ENST00000560369"	""	85	"64"	21	56	"56"	0	"LRRC49,intron_variant,,ENST00000260382,NM_001199017.1,NM_017691.3;LRRC49,intron_variant,,ENST00000443425,NM_001199018.1;LRRC49,intron_variant,,ENST00000560369,;LRRC49,intron_variant,,ENST00000544974,NM_001284357.1;LRRC49,intron_variant,,ENST00000560691,;LRRC49,intron_variant,,ENST00000560158,;LRRC49,intron_variant,,ENST00000436542,;LRRC49,upstream_gene_variant,,ENST00000561131,;LRRC49,intron_variant,,ENST00000561081,;LRRC49,intron_variant,,ENST00000560107,;"	"A"	"ENSG00000137821"	"ENST00000560369"	"Transcript"	"intron_variant"	"-/2586"	"-/2076"	"-/691"	""	""	""	"1"	NA	1	"LRRC49"	"HGNC"	25965	"protein_coding"	"YES"	"CCDS58376.1"	"ENSP00000453273"	"Q8IUZ0"	"H0YNV5,H0YNI5,H0YLQ8,H0YKI5,H0YKE9"	"UPI0001E92A32"	""	""	""	""	"15/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c22a777a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247058823529412	"WGS"	FALSE
"10927"	"THSD4"	79875	"mskcc.org"	"GRCh37"	"15"	71476062	71476062	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"rs75048807"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.99+28791T>A"	""	""	"ENST00000355327"	""	94	"87"	7	50	"50"	0	"THSD4,intron_variant,,ENST00000355327,;THSD4,intron_variant,,ENST00000261862,NM_024817.2;RP11-673C5.2,intron_variant,,ENST00000561571,;RP11-673C5.2,intron_variant,,ENST00000566268,;RP11-673C5.2,intron_variant,,ENST00000569258,;RP11-673C5.2,downstream_gene_variant,,ENST00000562634,;RP11-673C5.2,downstream_gene_variant,,ENST00000564562,;"	"A"	"ENSG00000187720"	"ENST00000355327"	"Transcript"	"intron_variant"	"-/9200"	"-/3057"	"-/1018"	""	""	"rs75048807"	"1"	NA	1	"THSD4"	"HGNC"	25835	"protein_coding"	"YES"	"CCDS10238.2"	"ENSP00000347484"	"Q6ZMP0"	""	"UPI00001A797D"	""	""	""	""	"3/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"c22a80d0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"10928"	"EDC3"	80153	"mskcc.org"	"GRCh37"	"15"	74972273	74972273	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-18-4790A>T"	""	""	"ENST00000315127"	""	78	"71"	7	49	"49"	0	"EDC3,splice_region_variant,,ENST00000566828,;EDC3,intron_variant,,ENST00000315127,NM_025083.3,NM_001142444.1;EDC3,intron_variant,,ENST00000426797,NM_001142443.1;EDC3,intron_variant,,ENST00000568176,;EDC3,intron_variant,,ENST00000563009,;EDC3,intron_variant,,ENST00000566243,;EDC3,intron_variant,,ENST00000566219,;EDC3,intron_variant,,ENST00000569561,;EDC3,intron_variant,,ENST00000563292,;EDC3,intron_variant,,ENST00000570138,;EDC3,intron_variant,,ENST00000566119,;EDC3,intron_variant,,ENST00000567813,;EDC3,intron_variant,,ENST00000565602,;EDC3,intron_variant,,ENST00000569007,;"	"A"	"ENSG00000179151"	"ENST00000315127"	"Transcript"	"intron_variant"	"-/3763"	"-/1527"	"-/508"	""	""	""	"1"	NA	-1	"EDC3"	"HGNC"	26114	"protein_coding"	"YES"	"CCDS10267.1"	"ENSP00000320503"	"Q96F86"	"H3BU87,H3BTH0,H3BTF8,H3BSQ0,H3BQP5,H3BQA1,H3BQ37,H3BPW9,H3BN89,H3BMB8"	"UPI000007309A"	"NM_025083.3,NM_001142444.1"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c22ba1c2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"10929"	"SIN3A"	25942	"mskcc.org"	"GRCh37"	"15"	75679644	75679644	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"rs559026198"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3021+2349A>G"	""	""	"ENST00000394947"	""	87	"60"	27	53	"52"	1	"SIN3A,intron_variant,,ENST00000394947,NM_001145358.1;SIN3A,intron_variant,,ENST00000360439,NM_001145357.1;SIN3A,intron_variant,,ENST00000394949,NM_015477.2;SIN3A,intron_variant,,ENST00000570021,;RPL13P4,upstream_gene_variant,,ENST00000484355,;"	"C"	"ENSG00000169375"	"ENST00000394947"	"Transcript"	"intron_variant"	"-/6737"	"-/3822"	"-/1273"	""	""	"rs559026198"	"1"	NA	-1	"SIN3A"	"HGNC"	19353	"protein_coding"	"YES"	"CCDS10279.1"	"ENSP00000378402"	"Q96ST3"	"H3BT34,H3BQ88,H3BQ76,H3BP90,H3BNZ3,H3BNA0"	"UPI000013EAD4"	"NM_001145358.1"	""	""	""	"16/20"	""	"C:0.0004"	"C:0"	"C:0"	NA	"C:0"	"C:0"	"C:0.002"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c22be9e8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"10930"	"ADAMTS7P3"	0	"mskcc.org"	"GRCh37"	"15"	78275316	78275316	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1186+925C>A"	""	""	"ENST00000566116"	""	80	"52"	28	50	"50"	0	"TBC1D2B,downstream_gene_variant,,ENST00000465531,;ADAMTS7P3,intron_variant,,ENST00000566116,;"	"A"	"ENSG00000261143"	"ENST00000566116"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3716"	""	""	""	""	""	"1"	NA	1	"ADAMTS7P3"	"HGNC"	49409	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"7/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c22ca7a2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WGS"	FALSE
"10931"	"IDH3A"	3419	"mskcc.org"	"GRCh37"	"15"	78444909	78444909	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.28-2646T>C"	""	""	"ENST00000299518"	""	73	"67"	6	38	"38"	0	"IDH3A,intron_variant,,ENST00000299518,NM_005530.2;IDH3A,intron_variant,,ENST00000558554,;IDH3A,intron_variant,,ENST00000441490,;IDH3A,intron_variant,,ENST00000559186,;IDH3A,intron_variant,,ENST00000559881,;IDH3A,intron_variant,,ENST00000557826,;IDH3A,intron_variant,,ENST00000560770,;IDH3A,intron_variant,,ENST00000561279,;IDH3A,intron_variant,,ENST00000559205,;IDH3A,intron_variant,,ENST00000558605,;IDH3A,intron_variant,,ENST00000559889,;IDH3A,intron_variant,,ENST00000560667,;IDH3A,intron_variant,,ENST00000559803,;IDH3A,intron_variant,,ENST00000558933,;IDH3A,intron_variant,,ENST00000558509,;IDH3A,intron_variant,,ENST00000559865,;IDH3A,intron_variant,,ENST00000559106,;IDH3A,intron_variant,,ENST00000560414,;IDH3A,intron_variant,,ENST00000560396,;IDH3A,upstream_gene_variant,,ENST00000558602,;"	"C"	"ENSG00000166411"	"ENST00000299518"	"Transcript"	"intron_variant"	"-/4128"	"-/1101"	"-/366"	""	""	""	"1"	NA	1	"IDH3A"	"HGNC"	5384	"protein_coding"	"YES"	"CCDS10297.1"	"ENSP00000299518"	"P50213"	"H0YM64,H0YLI6,H0YKD0,B7Z9J8,B4DJB4"	"UPI000012D1AC"	"NM_005530.2"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"c22cb422-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"10932"	"RASGRF1"	5923	"mskcc.org"	"GRCh37"	"15"	79263246	79263246	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"rs554233445"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3729+962A>G"	""	""	"ENST00000419573"	""	99	"90"	9	51	"51"	0	"RASGRF1,intron_variant,,ENST00000419573,NM_002891.4;RASGRF1,intron_variant,,ENST00000558480,NM_001145648.1;RASGRF1,intron_variant,,ENST00000394745,NM_153815.2;RASGRF1,downstream_gene_variant,,ENST00000559926,;"	"C"	"ENSG00000058335"	"ENST00000419573"	"Transcript"	"intron_variant"	"-/6294"	"-/3822"	"-/1273"	""	""	"rs554233445"	"1"	NA	-1	"RASGRF1"	"HGNC"	9875	"protein_coding"	"YES"	"CCDS10309.1"	"ENSP00000405963"	""	"J3KQP9"	"UPI000013D1F1"	"NM_002891.4"	""	""	""	"27/27"	""	"C:0.0028"	"C:0"	"C:0"	NA	"C:0.0129"	"C:0"	"C:0.001"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c22d017a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"10933"	"RP11-499F3.2"	0	"mskcc.org"	"GRCh37"	"15"	82034273	82034273	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.201+55992G>A"	""	""	"ENST00000560054"	""	87	"60"	27	56	"56"	0	"RP11-499F3.2,intron_variant,,ENST00000560054,;RP11-499F3.2,intron_variant,,ENST00000560097,;CTD-2034I4.1,intron_variant,,ENST00000559211,;"	"T"	"ENSG00000259692"	"ENST00000560054"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/569"	""	""	""	""	""	"1"	NA	-1	"RP11-499F3.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c22d6818-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"10934"	"AP3B2"	8120	"mskcc.org"	"GRCh37"	"15"	83338637	83338637	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1666-2952G>C"	""	""	"ENST00000261722"	""	56	"49"	7	15	"15"	0	"AP3B2,intron_variant,,ENST00000261722,NM_004644.4;AP3B2,intron_variant,,ENST00000535359,NM_001278512.1;AP3B2,intron_variant,,ENST00000535348,NM_001278511.1;RP11-752G15.3,intron_variant,,ENST00000560650,;AP3B2,intron_variant,,ENST00000543938,;"	"G"	"ENSG00000103723"	"ENST00000261722"	"Transcript"	"intron_variant"	"-/3736"	"-/3249"	"-/1082"	""	""	""	"1"	NA	-1	"AP3B2"	"HGNC"	567	"protein_coding"	"YES"	"CCDS45331.1"	"ENSP00000261722"	"Q13367"	"F5GWU4"	"UPI0000125030"	"NM_004644.4"	""	""	""	"14/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c22da12a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"10935"	"UBE2Q2P1"	388165	"mskcc.org"	"GRCh37"	"15"	85106285	85106285	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1291+6451T>C"	""	""	"ENST00000339094"	""	103	"72"	31	59	"59"	0	"UBE2Q2P1,intron_variant,,ENST00000339094,;UBE2Q2P1,intron_variant,,ENST00000558251,;UBE2Q2P1,intron_variant,,ENST00000561403,;UBE2Q2P1,downstream_gene_variant,,ENST00000559871,;UBE2Q2P1,intron_variant,,ENST00000354771,;"	"G"	"ENSG00000189136"	"ENST00000339094"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2150"	""	""	""	""	""	"1"	NA	-1	"UBE2Q2P1"	"HGNC"	37439	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c22dfa76-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.300970873786408	"WGS"	FALSE
"10936"	"PDE8A"	5151	"mskcc.org"	"GRCh37"	"15"	85594288	85594288	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.187-13313T>A"	""	""	"ENST00000310298"	""	104	"77"	27	54	"54"	0	"PDE8A,intron_variant,,ENST00000310298,;PDE8A,intron_variant,,ENST00000394553,NM_002605.2;PDE8A,intron_variant,,ENST00000557957,NM_001243137.1;PDE8A,intron_variant,,ENST00000339708,NM_173454.1;PDE8A,intron_variant,,ENST00000485596,;PDE8A,intron_variant,,ENST00000478717,;PDE8A,intron_variant,,ENST00000559742,;PDE8A,intron_variant,,ENST00000559086,;"	"A"	"ENSG00000073417"	"ENST00000310298"	"Transcript"	"intron_variant"	"-/3984"	"-/2490"	"-/829"	""	""	""	"1"	NA	1	"PDE8A"	"HGNC"	8793	"protein_coding"	"YES"	"CCDS10336.1"	"ENSP00000311453"	"O60658"	"Q9UMB5,Q86XV4,B3KV57"	"UPI0000127C00"	""	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c22e22d0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259615384615385	"WGS"	FALSE
"10937"	"AKAP13"	11214	"mskcc.org"	"GRCh37"	"15"	86255155	86255155	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5611+1279C>T"	""	""	"ENST00000361243"	""	91	"67"	24	55	"55"	0	"AKAP13,intron_variant,,ENST00000394518,NM_007200.4,NM_001270546.1;AKAP13,intron_variant,,ENST00000361243,NM_006738.5;AKAP13,intron_variant,,ENST00000394510,;AKAP13,intron_variant,,ENST00000560579,;AKAP13,intron_variant,,ENST00000560676,;AKAP13,intron_variant,,ENST00000557852,;AKAP13,intron_variant,,ENST00000560482,;AKAP13,intron_variant,,ENST00000559278,;"	"T"	"ENSG00000170776"	"ENST00000361243"	"Transcript"	"intron_variant"	"-/9468"	"-/8454"	"-/2817"	""	""	""	"1"	NA	1	"AKAP13"	"HGNC"	371	"protein_coding"	"YES"	"CCDS32320.1"	"ENSP00000354718"	"Q12802"	"H0YMI5,A8MYJ1"	"UPI00001A8BEB"	"NM_006738.5"	""	""	""	"19/36"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c22e508e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263736263736264	"WGS"	FALSE
"10938"	"AGBL1"	123624	"mskcc.org"	"GRCh37"	"15"	87403908	87403908	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs533826065"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3084-127310C>T"	""	""	"ENST00000441037"	""	65	"58"	7	62	"62"	0	"AGBL1,intron_variant,,ENST00000441037,NM_152336.2;AGBL1,intron_variant,,ENST00000421325,;AGBL1,intron_variant,,ENST00000389298,;"	"T"	"ENSG00000166748"	"ENST00000441037"	"Transcript"	"intron_variant"	"-/3508"	"-/3201"	"-/1066"	""	""	"rs533826065"	"1"	NA	1	"AGBL1"	"HGNC"	26504	"protein_coding"	"YES"	"CCDS58398.1"	"ENSP00000413001"	"Q96MI9"	"J3KQF5"	"UPI0000EC9CE0"	"NM_152336.2"	""	""	""	"22/23"	""	"T:0.0006"	"T:0.0008"	"T:0.0014"	NA	"T:0"	"T:0"	"T:0.001"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"c22ea890-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107692307692308	"WGS"	FALSE
"10939"	"RP11-648K4.2"	0	"mskcc.org"	"GRCh37"	"15"	88074412	88074412	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.157+11740A>T"	""	""	"ENST00000560439"	""	88	"61"	27	60	"60"	0	"RP11-648K4.2,intron_variant,,ENST00000560439,;"	"A"	"ENSG00000259560"	"ENST00000560439"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/448"	""	""	""	""	""	"1"	NA	-1	"RP11-648K4.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c22ebdc6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306818181818182	"WGS"	FALSE
"10940"	"NTRK3"	4916	"mskcc.org"	"GRCh37"	"15"	88483998	88483998	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs368970686"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1586-14T>C"	""	""	"ENST00000360948"	""	102	"95"	7	58	"58"	0	"NTRK3,intron_variant,,ENST00000394480,NM_002530.3,NM_001243101.1;NTRK3,intron_variant,,ENST00000360948,NM_001012338.2;NTRK3,intron_variant,,ENST00000357724,;NTRK3,intron_variant,,ENST00000355254,;NTRK3,intron_variant,,ENST00000557856,;NTRK3,intron_variant,,ENST00000558676,;NTRK3,intron_variant,,ENST00000542733,;NTRK3,upstream_gene_variant,,ENST00000559680,;"	"G"	"ENSG00000140538"	"ENST00000360948"	"Transcript"	"intron_variant"	"-/2826"	"-/2520"	"-/839"	""	""	"rs368970686"	"1"	NA	-1	"NTRK3"	"HGNC"	8033	"protein_coding"	"YES"	"CCDS32322.1"	"ENSP00000354207"	"Q16288"	"R4GNH5"	"UPI000006DC82"	"NM_001012338.2"	""	""	""	"13/18"	""	""	""	""	NA	""	""	""	"G:0.0002"	"G:0"	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	"9.415e-06"	"0.0001103"	"0"	"0"	"0"	"0"	"0"	"0"	"1"	"PASS"	"GAC"	"c22ec42e-0958-11e6-b1a0-c2d8dff80e40"	"."	9.416e-06	"1/106204"	"1/106210"	"1/9064"	"0/11216"	"0/7864"	"0/6614"	"0/54344"	"0/694"	"0/16408"	"PASS"	"FALSE"	0.0686274509803922	"WGS"	TRUE
"10941"	"NTRK3"	4916	"mskcc.org"	"GRCh37"	"15"	88528148	88528148	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1586-44164C>A"	""	""	"ENST00000360948"	""	90	"66"	24	49	"49"	0	"NTRK3,intron_variant,,ENST00000394480,NM_002530.3,NM_001243101.1;NTRK3,intron_variant,,ENST00000317501,NM_001007156.2;NTRK3,intron_variant,,ENST00000360948,NM_001012338.2;NTRK3,intron_variant,,ENST00000357724,;NTRK3,intron_variant,,ENST00000355254,;NTRK3,intron_variant,,ENST00000557856,;NTRK3,intron_variant,,ENST00000558676,;NTRK3,intron_variant,,ENST00000542733,;NTRK3,intron_variant,,ENST00000540489,;NTRK3,intron_variant,,ENST00000558306,;NTRK3,intron_variant,,ENST00000537300,;"	"T"	"ENSG00000140538"	"ENST00000360948"	"Transcript"	"intron_variant"	"-/2826"	"-/2520"	"-/839"	""	""	""	"1"	NA	-1	"NTRK3"	"HGNC"	8033	"protein_coding"	"YES"	"CCDS32322.1"	"ENSP00000354207"	"Q16288"	"R4GNH5"	"UPI000006DC82"	"NM_001012338.2"	""	""	""	"13/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"c22ec7a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	TRUE
"10942"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	89096737	89096737	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	22	"16"	6	7	"7"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c22ee846-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"10943"	"HAPLN3"	145864	"mskcc.org"	"GRCh37"	"15"	89429531	89429531	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.124+875T>C"	""	""	"ENST00000359595"	""	79	"72"	7	43	"43"	0	"HAPLN3,intron_variant,,ENST00000359595,NM_178232.2;HAPLN3,intron_variant,,ENST00000562889,;HAPLN3,intron_variant,,ENST00000562281,;HAPLN3,intron_variant,,ENST00000558770,;HAPLN3,intron_variant,,ENST00000563808,;"	"G"	"ENSG00000140511"	"ENST00000359595"	"Transcript"	"intron_variant"	"-/1980"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"HAPLN3"	"HGNC"	21446	"protein_coding"	"YES"	"CCDS10346.1"	"ENSP00000352606"	"Q96S86"	""	"UPI0000048EB3"	"NM_178232.2"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c22ef8e0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"10944"	"HAPLN3"	145864	"mskcc.org"	"GRCh37"	"15"	89429926	89429926	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.124+480G>C"	""	""	"ENST00000359595"	""	115	"107"	8	56	"56"	0	"HAPLN3,intron_variant,,ENST00000359595,NM_178232.2;HAPLN3,intron_variant,,ENST00000562889,;HAPLN3,intron_variant,,ENST00000562281,;HAPLN3,intron_variant,,ENST00000558770,;HAPLN3,intron_variant,,ENST00000563808,;"	"G"	"ENSG00000140511"	"ENST00000359595"	"Transcript"	"intron_variant"	"-/1980"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"HAPLN3"	"HGNC"	21446	"protein_coding"	"YES"	"CCDS10346.1"	"ENSP00000352606"	"Q96S86"	""	"UPI0000048EB3"	"NM_178232.2"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c22ef9bc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0695652173913043	"WGS"	FALSE
"10945"	"HAPLN3"	145864	"mskcc.org"	"GRCh37"	"15"	89429931	89429931	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.124+475A>G"	""	""	"ENST00000359595"	""	114	"104"	10	59	"59"	0	"HAPLN3,intron_variant,,ENST00000359595,NM_178232.2;HAPLN3,intron_variant,,ENST00000562889,;HAPLN3,intron_variant,,ENST00000562281,;HAPLN3,intron_variant,,ENST00000558770,;HAPLN3,intron_variant,,ENST00000563808,;"	"C"	"ENSG00000140511"	"ENST00000359595"	"Transcript"	"intron_variant"	"-/1980"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"HAPLN3"	"HGNC"	21446	"protein_coding"	"YES"	"CCDS10346.1"	"ENSP00000352606"	"Q96S86"	""	"UPI0000048EB3"	"NM_178232.2"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c22efa98-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087719298245614	"WGS"	FALSE
"10946"	"POLG"	5428	"mskcc.org"	"GRCh37"	"15"	89859544	89859544	"+"	"3'UTR"	"SNP"	"T"	"C"	"C"	"rs143445952"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*438A>G"	""	""	"ENST00000268124"	"23/23"	93	"61"	32	50	"50"	0	"POLG,3_prime_UTR_variant,,ENST00000268124,NM_001126131.1,NM_002693.2;FANCI,intron_variant,,ENST00000310775,NM_001113378.1;FANCI,intron_variant,,ENST00000300027,NM_018193.2;FANCI,intron_variant,,ENST00000561894,;POLG,downstream_gene_variant,,ENST00000442287,;FANCI,intron_variant,,ENST00000566615,;FANCI,downstream_gene_variant,,ENST00000565522,;FANCI,intron_variant,,ENST00000566895,;FANCI,intron_variant,,ENST00000447611,;POLG,downstream_gene_variant,,ENST00000530292,;POLG,downstream_gene_variant,,ENST00000526671,;POLG,downstream_gene_variant,,ENST00000528881,;POLG,downstream_gene_variant,,ENST00000530715,;"	"C"	"ENSG00000140521"	"ENST00000268124"	"Transcript"	"3_prime_UTR_variant"	"4492/4502"	"-/3720"	"-/1239"	""	""	"rs143445952"	"1"	NA	-1	"POLG"	"HGNC"	9179	"protein_coding"	"YES"	"CCDS10350.1"	"ENSP00000268124"	"P54098"	"E5KNU5,Q6LCA9,Q2V8X9"	"UPI000000D9E8"	"NM_001126131.1,NM_002693.2"	""	""	"23/23"	""	""	"C:0.0016"	"C:0.0061"	"C:0"	NA	"C:0"	"C:0"	"C:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"c22f1a96-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344086021505376	"WGS"	FALSE
"10947"	"SEMA4B"	10509	"mskcc.org"	"GRCh37"	"15"	90731697	90731697	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-122+3384T>A"	""	""	"ENST00000332496"	""	82	"75"	7	38	"38"	0	"SEMA4B,intron_variant,,ENST00000332496,NM_020210.3;SEMA4B,intron_variant,,ENST00000379122,;SEMA4B,intron_variant,,ENST00000561085,;SEMA4B,intron_variant,,ENST00000559322,;SEMA4B,upstream_gene_variant,,ENST00000559792,;SEMA4B,upstream_gene_variant,,ENST00000558895,;SEMA4B,upstream_gene_variant,,ENST00000560263,;SEMA4B,intron_variant,,ENST00000559300,;"	"A"	"ENSG00000185033"	"ENST00000332496"	"Transcript"	"intron_variant"	"-/3781"	"-/2514"	"-/837"	""	""	""	"1"	NA	1	"SEMA4B"	"HGNC"	10730	"protein_coding"	""	"CCDS45347.1"	"ENSP00000332204"	""	"Q4VBY2,J3KNP4,H0YMR1,H0YMD6,H0YLN3"	"UPI0000197391"	"NM_020210.3"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c22f8fd0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"10948"	"IQGAP1"	8826	"mskcc.org"	"GRCh37"	"15"	91004892	91004892	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1777-4341G>A"	""	""	"ENST00000268182"	""	70	"51"	19	52	"52"	0	"IQGAP1,intron_variant,,ENST00000268182,NM_003870.3;IQGAP1,intron_variant,,ENST00000560738,;"	"A"	"ENSG00000140575"	"ENST00000268182"	"Transcript"	"intron_variant"	"-/7233"	"-/4974"	"-/1657"	""	""	""	"1"	NA	1	"IQGAP1"	"HGNC"	6110	"protein_coding"	"YES"	"CCDS10362.1"	"ENSP00000268182"	"P46940"	"H0YKA5"	"UPI000012D863"	"NM_003870.3"	""	""	""	"15/37"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c22fb3b6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271428571428571	"WGS"	FALSE
"10949"	"CRTC3"	64784	"mskcc.org"	"GRCh37"	"15"	91190223	91190223	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"rs113153149"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000268184"	""	60	"55"	5	24	"24"	0	"CRTC3,downstream_gene_variant,,ENST00000420329,NM_022769.4,NM_001042574.2;CRTC3,downstream_gene_variant,,ENST00000268184,;RP11-387D10.2,intron_variant,,ENST00000559531,;"	"C"	"ENSG00000140577"	"ENST00000268184"	"Transcript"	"downstream_gene_variant"	"-/2537"	"-/1860"	"-/619"	""	""	"rs113153149"	"1"	"4178"	1	"CRTC3"	"HGNC"	26148	"protein_coding"	"YES"	"CCDS32331.1"	"ENSP00000268184"	"Q6UUV7"	""	"UPI00001FEB98"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c22fc888-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	TRUE
"10950"	"CHD2"	1106	"mskcc.org"	"GRCh37"	"15"	93502172	93502172	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2000+2293A>G"	""	""	"ENST00000394196"	""	100	"77"	23	66	"66"	0	"CHD2,intron_variant,,ENST00000394196,NM_001271.3;CHD2,intron_variant,,ENST00000557381,;CHD2,intron_variant,,ENST00000555582,;"	"G"	"ENSG00000173575"	"ENST00000394196"	"Transcript"	"intron_variant"	"-/9857"	"-/5487"	"-/1828"	""	""	""	"1"	NA	1	"CHD2"	"HGNC"	1917	"protein_coding"	"YES"	"CCDS10374.2"	"ENSP00000377747"	"O14647"	"Q6AI05,Q3YLD6,Q3YLD5,G3V4S8,G3V418"	"UPI0000E8A85C"	"NM_001271.3"	""	""	""	"16/38"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"c2308700-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23	"WGS"	FALSE
"10951"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	93766010	93766010	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	61	"51"	10	32	"32"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"c2308fac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163934426229508	"WGS"	FALSE
"10952"	"RP11-255M2.2"	0	"mskcc.org"	"GRCh37"	"15"	95667112	95667112	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.266+8711C>T"	""	""	"ENST00000554787"	""	58	"41"	17	49	"49"	0	"RP11-255M2.2,intron_variant,,ENST00000554787,;"	"A"	"ENSG00000258773"	"ENST00000554787"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/573"	""	""	""	""	""	"1"	NA	-1	"RP11-255M2.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c230f0be-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293103448275862	"WGS"	FALSE
"10953"	"RP11-183E24.2"	0	"mskcc.org"	"GRCh37"	"15"	98671520	98671520	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.174+3143G>A"	""	""	"ENST00000559643"	""	95	"88"	7	58	"58"	0	"RP11-183E24.2,intron_variant,,ENST00000559643,;CTD-2544M6.1,intron_variant,,ENST00000560360,;"	"T"	"ENSG00000259320"	"ENST00000559643"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/410"	""	""	""	""	""	"1"	NA	-1	"RP11-183E24.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c23175de-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"10954"	"RP11-66B24.5"	0	"mskcc.org"	"GRCh37"	"15"	101259343	101259343	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"rs4965701"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.123+2767C>G"	""	""	"ENST00000559755"	""	23	"20"	3	14	"14"	0	"RP11-66B24.5,intron_variant,,ENST00000559755,;"	"G"	"ENSG00000259579"	"ENST00000559755"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/643"	""	""	""	""	"rs4965701"	"1"	NA	1	"RP11-66B24.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c2323884-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"10955"	"RAB11FIP3"	9727	"mskcc.org"	"GRCh37"	"16"	512928	512928	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.808+1431A>G"	""	""	"ENST00000262305"	""	102	"84"	18	59	"59"	0	"RAB11FIP3,intron_variant,,ENST00000262305,NM_014700.3;RAB11FIP3,intron_variant,,ENST00000457159,;RAB11FIP3,intron_variant,,ENST00000434585,;"	"G"	"ENSG00000090565"	"ENST00000262305"	"Transcript"	"intron_variant"	"-/4831"	"-/2271"	"-/756"	""	""	""	"1"	NA	1	"RAB11FIP3"	"HGNC"	17224	"protein_coding"	"YES"	"CCDS32351.1"	"ENSP00000262305"	"O75154"	"F6X994"	"UPI0000129C9C"	"NM_014700.3"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c233fc5a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"10956"	"LMF1"	64788	"mskcc.org"	"GRCh37"	"16"	1002984	1002984	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"rs530328138"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.503+1373A>G"	""	""	"ENST00000262301"	""	20	"15"	5	12	"12"	0	"LMF1,intron_variant,,ENST00000262301,NM_022773.2;LMF1,intron_variant,,ENST00000399843,;LMF1,intron_variant,,ENST00000543238,;LMF1,intron_variant,,ENST00000568897,;LMF1,intron_variant,,ENST00000570014,;LMF1,intron_variant,,ENST00000539379,;LMF1,intron_variant,,ENST00000562380,;LMF1,intron_variant,,ENST00000566609,;LMF1,intron_variant,,ENST00000545827,;LMF1,intron_variant,,ENST00000562226,;LMF1,intron_variant,,ENST00000568964,;LMF1,intron_variant,,ENST00000567595,;"	"C"	"ENSG00000103227"	"ENST00000262301"	"Transcript"	"intron_variant"	"-/2621"	"-/1704"	"-/567"	""	""	"rs530328138"	"1"	NA	-1	"LMF1"	"HGNC"	14154	"protein_coding"	"YES"	"CCDS45373.1"	"ENSP00000262301"	"Q96S06"	"H3BVI4,H3BN37,B3KS80"	"UPI000006E366"	"NM_022773.2"	""	""	""	"2/10"	""	"C:0.0014"	"C:0.003"	"C:0"	NA	"C:0"	"C:0"	"C:0.0031"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"c234c784-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"10957"	"MEIOB"	64735	"mskcc.org"	"GRCh37"	"16"	1932670	1932670	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-495+527T>C"	""	""	"ENST00000470044"	""	72	"64"	8	48	"48"	0	"MEIOB,intron_variant,,ENST00000470044,;MEIOB,intron_variant,,ENST00000563416,;"	"G"	"ENSG00000162039"	"ENST00000470044"	"Transcript"	"intron_variant"	"-/1857"	"-/795"	"-/264"	""	""	""	"1"	NA	-1	"MEIOB"	"HGNC"	28569	"protein_coding"	""	""	"ENSP00000457416"	""	"H3BU10,H3BSU6"	"UPI0000EE6531"	""	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"c235d840-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"10958"	"MEIOB"	64735	"mskcc.org"	"GRCh37"	"16"	1932679	1932679	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-495+518G>A"	""	""	"ENST00000470044"	""	67	"61"	6	44	"44"	0	"MEIOB,intron_variant,,ENST00000470044,;MEIOB,intron_variant,,ENST00000563416,;"	"T"	"ENSG00000162039"	"ENST00000470044"	"Transcript"	"intron_variant"	"-/1857"	"-/795"	"-/264"	""	""	""	"1"	NA	-1	"MEIOB"	"HGNC"	28569	"protein_coding"	""	""	"ENSP00000457416"	""	"H3BU10,H3BSU6"	"UPI0000EE6531"	""	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c235d91c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0895522388059701	"WGS"	FALSE
"10959"	"CREBBP"	1387	"mskcc.org"	"GRCh37"	"16"	3883542	3883542	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.798+16756G>T"	""	""	"ENST00000262367"	""	85	"59"	26	75	"75"	0	"CREBBP,intron_variant,,ENST00000262367,NM_004380.2;CREBBP,intron_variant,,ENST00000382070,NM_001079846.1;"	"A"	"ENSG00000005339"	"ENST00000262367"	"Transcript"	"intron_variant"	"-/10803"	"-/7329"	"-/2442"	""	""	""	"1"	NA	-1	"CREBBP"	"HGNC"	2348	"protein_coding"	"YES"	"CCDS10509.1"	"ENSP00000262367"	"Q92793"	"Q75MY6,I3L3I5,B5A253,B5A252,B5A250,B5A246,B5A244,B5A243,B5A242,B5A240,B5A239,B5A235,B5A231,B5A227,B5A226,B5A222,B5A221,B5A219,B5A218,B5A216,B5A215,B5A214,B5A212"	"UPI0000000620"	"NM_004380.2"	""	""	""	"2/30"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"c236f7a2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305882352941176	"WGS"	TRUE
"10960"	"RP11-420N3.2"	0	"mskcc.org"	"GRCh37"	"16"	5499436	5499436	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.292-17781A>G"	""	""	"ENST00000585867"	""	115	"80"	35	53	"53"	0	"RP11-420N3.2,intron_variant,,ENST00000569895,;RP11-420N3.2,intron_variant,,ENST00000585867,;"	"G"	"ENSG00000260411"	"ENST00000585867"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1580"	""	""	""	""	""	"1"	NA	1	"RP11-420N3.2"	"Clone_based_vega_gene"	NA	"retained_intron"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c237d5a0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WGS"	FALSE
"10961"	"RP11-420N3.2"	0	"mskcc.org"	"GRCh37"	"16"	5760591	5760591	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.403+111629C>G"	""	""	"ENST00000569895"	""	92	"69"	23	51	"51"	0	"RP11-420N3.2,intron_variant,,ENST00000569895,;"	"G"	"ENSG00000260411"	"ENST00000569895"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/829"	""	""	""	""	""	"1"	NA	1	"RP11-420N3.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c237ec98-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"10962"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	6415922	6415922	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.66+48864C>G"	""	""	"ENST00000547372"	""	76	"53"	23	69	"69"	0	"RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RP11-420N3.2,intron_variant,,ENST00000569895,;RBFOX1,intron_variant,,ENST00000548749,;"	"G"	"ENSG00000078328"	"ENST00000547372"	"Transcript"	"intron_variant"	"-/3524"	"-/1401"	"-/466"	""	""	""	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	""	""	"ENSP00000446842"	""	"Q8TCM0,Q59HD3,F8VZY7,F8VZG9"	"UPI00020CDFAB"	""	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c2381fba-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302631578947368	"WGS"	FALSE
"10963"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	6562696	6562696	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"rs569364149"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67-141908C>A"	""	""	"ENST00000547372"	""	83	"61"	22	57	"57"	0	"RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RBFOX1,intron_variant,,ENST00000535565,;RBFOX1,intron_variant,,ENST00000552089,;RBFOX1,intron_variant,,ENST00000551752,;RP11-420N3.2,intron_variant,,ENST00000569895,;RBFOX1,intron_variant,,ENST00000547427,;RBFOX1,intron_variant,,ENST00000548749,;"	"A"	"ENSG00000078328"	"ENST00000547372"	"Transcript"	"intron_variant"	"-/3524"	"-/1401"	"-/466"	""	""	"rs569364149"	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	""	""	"ENSP00000446842"	""	"Q8TCM0,Q59HD3,F8VZY7,F8VZG9"	"UPI00020CDFAB"	""	""	""	""	"2/16"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c2382e1a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265060240963855	"WGS"	FALSE
"10964"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	6654876	6654876	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67-49728C>G"	""	""	"ENST00000547372"	""	85	"59"	26	55	"55"	0	"RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RBFOX1,intron_variant,,ENST00000535565,;RBFOX1,intron_variant,,ENST00000552089,;RBFOX1,intron_variant,,ENST00000551752,;RP11-420N3.2,intron_variant,,ENST00000569895,;RBFOX1,intron_variant,,ENST00000547427,;RBFOX1,intron_variant,,ENST00000548749,;"	"G"	"ENSG00000078328"	"ENST00000547372"	"Transcript"	"intron_variant"	"-/3524"	"-/1401"	"-/466"	""	""	""	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	""	""	"ENSP00000446842"	""	"Q8TCM0,Q59HD3,F8VZY7,F8VZG9"	"UPI00020CDFAB"	""	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c238334c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305882352941176	"WGS"	FALSE
"10965"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	7197062	7197062	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"rs113500781"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.156+94963C>G"	""	""	"ENST00000547372"	""	33	"29"	4	16	"16"	0	"RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RBFOX1,intron_variant,,ENST00000535565,;RBFOX1,intron_variant,,ENST00000547338,NM_001142334.1;RBFOX1,intron_variant,,ENST00000552089,;RBFOX1,intron_variant,,ENST00000551752,;RBFOX1,intron_variant,,ENST00000547427,;"	"G"	"ENSG00000078328"	"ENST00000547372"	"Transcript"	"intron_variant"	"-/3524"	"-/1401"	"-/466"	""	""	"rs113500781"	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	""	""	"ENSP00000446842"	""	"Q8TCM0,Q59HD3,F8VZY7,F8VZG9"	"UPI00020CDFAB"	""	""	""	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c2386146-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"10966"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	7201759	7201759	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.156+99660C>A"	""	""	"ENST00000547372"	""	101	"80"	21	61	"61"	0	"RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RBFOX1,intron_variant,,ENST00000535565,;RBFOX1,intron_variant,,ENST00000547338,NM_001142334.1;RBFOX1,intron_variant,,ENST00000552089,;RBFOX1,intron_variant,,ENST00000551752,;RBFOX1,intron_variant,,ENST00000547427,;"	"A"	"ENSG00000078328"	"ENST00000547372"	"Transcript"	"intron_variant"	"-/3524"	"-/1401"	"-/466"	""	""	""	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	""	""	"ENSP00000446842"	""	"Q8TCM0,Q59HD3,F8VZY7,F8VZG9"	"UPI00020CDFAB"	""	""	""	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c2386222-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207920792079208	"WGS"	FALSE
"10967"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	7556058	7556058	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.88-12091G>A"	""	""	"ENST00000311745"	""	80	"55"	25	44	"44"	0	"RBFOX1,intron_variant,,ENST00000340209,;RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000355637,NM_145893.2;RBFOX1,intron_variant,,ENST00000311745,NM_145891.2,NM_145892.2;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RBFOX1,intron_variant,,ENST00000535565,;RBFOX1,intron_variant,,ENST00000436368,;RBFOX1,intron_variant,,ENST00000547338,NM_001142334.1;RBFOX1,intron_variant,,ENST00000552089,;RBFOX1,intron_variant,,ENST00000551752,;RBFOX1,upstream_gene_variant,,ENST00000570626,;RBFOX1,intron_variant,,ENST00000569889,;"	"A"	"ENSG00000078328"	"ENST00000311745"	"Transcript"	"intron_variant"	"-/3268"	"-/1257"	"-/418"	""	""	""	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	"YES"	"CCDS10531.1"	"ENSP00000309117"	"Q9NWB1"	""	"UPI000006E29E"	"NM_145891.2,NM_145892.2"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c2387a46-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"10968"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	7976209	7976209	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs527806699"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"84"	22	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs527806699"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c2389288-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207547169811321	"WGS"	FALSE
"10969"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	9647443	9647443	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"70"	25	50	"49"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c239617c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"10970"	"RP11-297M9.1"	0	"mskcc.org"	"GRCh37"	"16"	9767199	9767199	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.162+3332G>T"	""	""	"ENST00000561538"	""	94	"88"	6	58	"58"	0	"RP11-297M9.1,intron_variant,,ENST00000561538,;"	"A"	"ENSG00000260362"	"ENST00000561538"	"Transcript"	"intron_variant"	"-/660"	"-/300"	"-/99"	""	""	""	"1"	NA	-1	"RP11-297M9.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000457047"	""	"H3BT68"	"UPI0002466DFB"	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c2396afa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"10971"	"GRIN2A"	2903	"mskcc.org"	"GRCh37"	"16"	10161171	10161171	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.414+112684G>A"	""	""	"ENST00000330684"	""	96	"65"	31	63	"63"	0	"GRIN2A,intron_variant,,ENST00000396573,NM_000833.3;GRIN2A,intron_variant,,ENST00000330684,NM_001134407.1;GRIN2A,intron_variant,,ENST00000404927,NM_001134408.1;GRIN2A,intron_variant,,ENST00000562109,;GRIN2A,intron_variant,,ENST00000396575,;"	"T"	"ENSG00000183454"	"ENST00000330684"	"Transcript"	"intron_variant"	"-/5031"	"-/4395"	"-/1464"	""	""	""	"1"	NA	-1	"GRIN2A"	"HGNC"	4585	"protein_coding"	""	"CCDS10539.1"	"ENSP00000332549"	"Q12879"	"Q547U9"	"UPI000000D7AB"	"NM_001134407.1"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"c23987b0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322916666666667	"WGS"	TRUE
"10972"	"CTD-3037G24.3"	0	"mskcc.org"	"GRCh37"	"16"	12677679	12677679	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.308-22676A>T"	""	""	"ENST00000564505"	""	90	"85"	5	43	"43"	0	"CTD-3037G24.3,intron_variant,,ENST00000564505,;"	"A"	"ENSG00000259899"	"ENST00000564505"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/698"	""	""	""	""	""	"1"	NA	-1	"CTD-3037G24.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c23a76de-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"10973"	"SNORA27"	0	"mskcc.org"	"GRCh37"	"16"	12934835	12934835	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000362604"	""	91	"63"	28	52	"52"	0	"SNORA27,downstream_gene_variant,,ENST00000362604,;"	"T"	"ENSG00000199474"	"ENST00000362604"	"Transcript"	"downstream_gene_variant"	"-/124"	""	""	""	""	""	"1"	"1509"	-1	"SNORA27"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c23a8d7c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"10974"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	13979717	13979717	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs140358288"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"59"	33	34	"34"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs140358288"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0004"	"T:0"	"T:0.0014"	NA	"T:0.001"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c23ace22-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358695652173913	"WGS"	FALSE
"10975"	"PARN"	5073	"mskcc.org"	"GRCh37"	"16"	14690160	14690160	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.841-2925G>T"	""	""	"ENST00000437198"	""	114	"81"	33	54	"54"	0	"PARN,intron_variant,,ENST00000437198,NM_002582.3,NM_001134477.2;PARN,intron_variant,,ENST00000420015,NM_001242992.1;PARN,intron_variant,,ENST00000341484,;PARN,intron_variant,,ENST00000539279,;PARN,intron_variant,,ENST00000569444,;PARN,upstream_gene_variant,,ENST00000564113,;PARN,intron_variant,,ENST00000563641,;PARN,downstream_gene_variant,,ENST00000538472,;"	"A"	"ENSG00000140694"	"ENST00000437198"	"Transcript"	"intron_variant"	"-/3078"	"-/1920"	"-/639"	""	""	""	"1"	NA	-1	"PARN"	"HGNC"	8609	"protein_coding"	"YES"	"CCDS45419.1"	"ENSP00000387911"	"O95453"	"B3KN69"	"UPI0000031F7A"	"NM_002582.3,NM_001134477.2"	""	""	""	"12/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"c23b0220-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289473684210526	"WGS"	FALSE
"10976"	"ABCC1"	4363	"mskcc.org"	"GRCh37"	"16"	16205068	16205068	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2872-164T>G"	""	""	"ENST00000399410"	""	97	"67"	30	72	"71"	1	"ABCC1,intron_variant,,ENST00000399408,;ABCC1,intron_variant,,ENST00000399410,NM_004996.3;ABCC1,intron_variant,,ENST00000346370,;ABCC1,intron_variant,,ENST00000351154,;ABCC1,intron_variant,,ENST00000345148,;ABCC1,intron_variant,,ENST00000349029,;ABCC1,intron_variant,,ENST00000572882,;ABCC1,downstream_gene_variant,,ENST00000576557,;ABCC1,intron_variant,,ENST00000575422,;ABCC1,intron_variant,,ENST00000574761,;ABCC1,intron_variant,,ENST00000572053,;"	"G"	"ENSG00000103222"	"ENST00000399410"	"Transcript"	"intron_variant"	"-/6552"	"-/4596"	"-/1531"	""	""	""	"1"	NA	1	"ABCC1"	"HGNC"	51	"protein_coding"	"YES"	"CCDS42122.1"	"ENSP00000382342"	"P33527"	"Q9BV39"	"UPI00001FEEFC"	"NM_004996.3"	""	""	""	"21/30"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c23c0b52-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309278350515464	"WGS"	FALSE
"10977"	"TMC5"	79838	"mskcc.org"	"GRCh37"	"16"	19428377	19428377	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"rs181966328"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-308+5879T>C"	""	""	"ENST00000396229"	""	49	"44"	5	32	"32"	0	"TMC5,intron_variant,,ENST00000396229,NM_001105248.1;TMC5,intron_variant,,ENST00000381414,NM_001105249.1;TMC5,intron_variant,,ENST00000541464,;TMC5,upstream_gene_variant,,ENST00000542583,NM_001261841.1;TMC5,intron_variant,,ENST00000563675,;"	"C"	"ENSG00000103534"	"ENST00000396229"	"Transcript"	"intron_variant"	"-/4917"	"-/3021"	"-/1006"	""	""	"rs181966328"	"1"	NA	1	"TMC5"	"HGNC"	22999	"protein_coding"	"YES"	"CCDS45431.1"	"ENSP00000379531"	"Q6UXY8"	""	"UPI00001FEF87"	"NM_001105248.1"	""	""	""	"1/21"	""	"C:0.0078"	"C:0.0197"	"C:0.0072"	NA	"C:0"	"C:0.008"	"C:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c23d99c2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WGS"	FALSE
"10978"	"CACNG3"	10368	"mskcc.org"	"GRCh37"	"16"	24312112	24312112	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs566835113"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.211+43826C>T"	""	""	"ENST00000005284"	""	88	"82"	6	47	"47"	0	"CACNG3,intron_variant,,ENST00000005284,NM_006539.3;"	"T"	"ENSG00000006116"	"ENST00000005284"	"Transcript"	"intron_variant"	"-/3088"	"-/948"	"-/315"	""	""	"rs566835113"	"1"	NA	1	"CACNG3"	"HGNC"	1407	"protein_coding"	"YES"	"CCDS10620.1"	"ENSP00000005284"	"O60359"	""	"UPI000000D979"	"NM_006539.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c23f51ae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"10979"	"LCMT1"	51451	"mskcc.org"	"GRCh37"	"16"	25194116	25194116	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000399069"	""	96	"88"	8	45	"45"	0	"LCMT1,downstream_gene_variant,,ENST00000399069,NM_016309.2;LCMT1,downstream_gene_variant,,ENST00000380966,NM_001032391.1;LCMT1,downstream_gene_variant,,ENST00000575396,;RN7SL557P,upstream_gene_variant,,ENST00000581047,;LCMT1,downstream_gene_variant,,ENST00000572869,;LCMT1,downstream_gene_variant,,ENST00000380962,;LCMT1,downstream_gene_variant,,ENST00000564011,;LCMT1,downstream_gene_variant,,ENST00000576625,;LCMT1,downstream_gene_variant,,ENST00000574450,;"	"T"	"ENSG00000205629"	"ENST00000399069"	"Transcript"	"downstream_gene_variant"	"-/1368"	"-/1005"	"-/334"	""	""	""	"1"	"4564"	1	"LCMT1"	"HGNC"	17557	"protein_coding"	"YES"	"CCDS45445.1"	"ENSP00000382021"	"Q9UIC8"	"I3L2Q8"	"UPI0000000C29"	"NM_016309.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c23fb298-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"10980"	"HS3ST4"	9951	"mskcc.org"	"GRCh37"	"16"	25843784	25843784	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.734+139312A>T"	""	""	"ENST00000331351"	""	87	"54"	33	59	"59"	0	"HS3ST4,intron_variant,,ENST00000331351,NM_006040.2;"	"T"	"ENSG00000182601"	"ENST00000331351"	"Transcript"	"intron_variant"	"-/3203"	"-/1371"	"-/456"	""	""	""	"1"	NA	1	"HS3ST4"	"HGNC"	5200	"protein_coding"	"YES"	"CCDS53995.1"	"ENSP00000330606"	"Q9Y661"	"A5H458"	"UPI000040938A"	"NM_006040.2"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c23fd570-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.379310344827586	"WGS"	FALSE
"10981"	"KIAA0556"	23247	"mskcc.org"	"GRCh37"	"16"	27585194	27585194	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8-28T>G"	""	""	"ENST00000261588"	""	94	"65"	29	63	"63"	0	"KIAA0556,intron_variant,,ENST00000261588,NM_015202.2;KIAA0556,upstream_gene_variant,,ENST00000568258,;KIAA0556,intron_variant,,ENST00000566023,;KIAA0556,upstream_gene_variant,,ENST00000565672,;"	"G"	"ENSG00000047578"	"ENST00000261588"	"Transcript"	"intron_variant"	"-/6616"	"-/4857"	"-/1618"	""	""	""	"1"	NA	1	"KIAA0556"	"HGNC"	29068	"protein_coding"	"YES"	"CCDS32415.1"	"ENSP00000261588"	"O60303"	"B4DHT8"	"UPI000045693C"	"NM_015202.2"	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c2406224-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308510638297872	"WGS"	FALSE
"10982"	"CTB-134H23.3"	101928215	"mskcc.org"	"GRCh37"	"16"	29115175	29115175	"+"	"RNA"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1643G>A"	""	""	"ENST00000562618"	"2/2"	70	"49"	21	35	"35"	0	"CTB-134H23.3,non_coding_transcript_exon_variant,,ENST00000562618,;RRN3P2,intron_variant,,ENST00000564580,;RRN3P2,intron_variant,,ENST00000427965,;CTB-134H23.3,downstream_gene_variant,,ENST00000565800,;RRN3P2,intron_variant,,ENST00000566038,;CTB-134H23.3,intron_variant,,ENST00000567688,;"	"T"	"ENSG00000260908"	"ENST00000562618"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1643/1840"	""	""	""	""	""	"1"	NA	-1	"CTB-134H23.3"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c2411db8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"10983"	"DOC2A"	8448	"mskcc.org"	"GRCh37"	"16"	30021526	30021526	"+"	"Silent"	"SNP"	"G"	"A"	"A"	"rs775405719"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.18C>T"	"p.="	"p.G6G"	"ENST00000350119"	"2/11"	100	"69"	31	50	"50"	0	"DOC2A,synonymous_variant,p.=,ENST00000350119,NM_003586.2,NM_001282068.1,NM_001282063.1,NM_001282062.1;DOC2A,synonymous_variant,p.=,ENST00000564944,;DOC2A,synonymous_variant,p.=,ENST00000564979,;DOC2A,synonymous_variant,p.=,ENST00000565273,;DOC2A,synonymous_variant,p.=,ENST00000563378,;DOC2A,intron_variant,,ENST00000563125,;DOC2A,intron_variant,,ENST00000567332,;DOC2A,intron_variant,,ENST00000574405,;INO80E,downstream_gene_variant,,ENST00000563197,NM_173618.1;INO80E,downstream_gene_variant,,ENST00000304516,;DOC2A,upstream_gene_variant,,ENST00000564357,;INO80E,downstream_gene_variant,,ENST00000567705,;INO80E,downstream_gene_variant,,ENST00000562291,;DOC2A,downstream_gene_variant,,ENST00000567824,;DOC2A,downstream_gene_variant,,ENST00000570194,;DOC2A,downstream_gene_variant,,ENST00000564075,;DOC2A,non_coding_transcript_exon_variant,,ENST00000564233,;DOC2A,intron_variant,,ENST00000566310,;DOC2A,intron_variant,,ENST00000561671,;DOC2A,intron_variant,,ENST00000566456,;INO80E,downstream_gene_variant,,ENST00000569957,;INO80E,downstream_gene_variant,,ENST00000540562,;INO80E,downstream_gene_variant,,ENST00000567987,;INO80E,downstream_gene_variant,,ENST00000562441,;INO80E,downstream_gene_variant,,ENST00000567065,;"	"A"	"ENSG00000149927"	"ENST00000350119"	"Transcript"	"synonymous_variant"	"209/2071"	"18/1203"	"6/400"	"G"	"ggC/ggT"	"rs775405719,COSM379094"	"1"	NA	-1	"DOC2A"	"HGNC"	2985	"protein_coding"	"YES"	"CCDS10666.1"	"ENSP00000340017"	"Q14183"	"H3BU41,H3BSH4,H3BNF7"	"UPI000013DBC8"	"NM_003586.2,NM_001282068.1,NM_001282063.1,NM_001282062.1"	""	""	"2/11"	""	"PIRSF_domain:PIRSF036931,hmmpanther:PTHR10024:SF204,hmmpanther:PTHR10024"	""	""	""	NA	""	""	""	""	""	""	"0,1"	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	"0,1"	"1"	"9.416e-06"	"0"	"0"	"0.0001274"	"0"	"0"	"0"	"0"	NA	"PASS"	"CGC"	"c241b03e-0958-11e6-b1a0-c2d8dff80e40"	"."	9.503e-06	"1/105230"	"1/106206"	"0/8502"	"0/11214"	"1/7850"	"0/6614"	"0/53960"	"0/688"	"0/16402"	"PASS"	"FALSE"	0.31	"WGS"	FALSE
"10984"	"RP11-19N8.2"	0	"mskcc.org"	"GRCh37"	"16"	33038494	33038494	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.499+366G>A"	""	""	"ENST00000567619"	""	92	"84"	8	57	"57"	0	"RP11-19N8.2,intron_variant,,ENST00000567619,;RP11-19N8.2,downstream_gene_variant,,ENST00000562500,;"	"T"	"ENSG00000261259"	"ENST00000567619"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/702"	""	""	""	""	""	"1"	NA	-1	"RP11-19N8.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c245a1d0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"10985"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	34853075	34853075	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"71"	32	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c2488fc6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310679611650485	"WGS"	FALSE
"10986"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	48056495	48056495	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs550733045"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"77"	6	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs550733045"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c249fc80-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"10987"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	51038485	51038485	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"59"	28	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c24aaa36-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32183908045977	"WGS"	FALSE
"10988"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	51875538	51875538	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"76"	5	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c24aeaf0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"10989"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	52147710	52147710	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"55"	35	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c24af39c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388888888888889	"WGS"	FALSE
"10990"	"GNAO1"	2775	"mskcc.org"	"GRCh37"	"16"	56310166	56310166	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.303+182G>T"	""	""	"ENST00000262494"	""	92	"59"	33	57	"57"	0	"GNAO1,intron_variant,,ENST00000262494,NM_138736.2;GNAO1,intron_variant,,ENST00000262493,NM_020988.2;GNAO1,intron_variant,,ENST00000565363,;GNAO1,intron_variant,,ENST00000563440,;GNAO1,intron_variant,,ENST00000562316,;GNAO1,non_coding_transcript_exon_variant,,ENST00000563661,;"	"T"	"ENSG00000087258"	"ENST00000262494"	"Transcript"	"intron_variant"	"-/5574"	"-/1065"	"-/354"	""	""	""	"1"	NA	1	"GNAO1"	"HGNC"	4389	"protein_coding"	"YES"	"CCDS10757.1"	"ENSP00000262494"	"P09471"	"Q6AWC5,H3BTM2,H3BQG8"	"UPI000007349C"	"NM_138736.2"	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"c24bd97e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358695652173913	"WGS"	FALSE
"10991"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	60673261	60673261	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"60"	30	73	"73"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c24d1302-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"10992"	"RP11-90K18.1"	0	"mskcc.org"	"GRCh37"	"16"	60958825	60958825	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000563784"	""	87	"63"	24	61	"61"	0	"RP11-90K18.1,downstream_gene_variant,,ENST00000563784,;"	"T"	"ENSG00000261178"	"ENST00000563784"	"Transcript"	"downstream_gene_variant"	"-/1377"	""	""	""	""	""	"1"	"812"	-1	"RP11-90K18.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c24d284c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275862068965517	"WGS"	FALSE
"10993"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	61575439	61575439	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"64"	19	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c24d3a08-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228915662650602	"WGS"	FALSE
"10994"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	64668276	64668276	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"65"	19	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c24db370-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226190476190476	"WGS"	FALSE
"10995"	"RP11-95H3.1"	0	"mskcc.org"	"GRCh37"	"16"	65202897	65202897	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.406+6172A>G"	""	""	"ENST00000563754"	""	100	"77"	23	56	"56"	0	"RP11-95H3.1,intron_variant,,ENST00000563754,;"	"C"	"ENSG00000259847"	"ENST00000563754"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/750"	""	""	""	""	""	"1"	NA	-1	"RP11-95H3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c24dc482-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23	"WGS"	FALSE
"10996"	"RP11-351A20.1"	0	"mskcc.org"	"GRCh37"	"16"	65672286	65672286	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.168-8304T>A"	""	""	"ENST00000563811"	""	100	"69"	31	73	"73"	0	"RP11-351A20.1,intron_variant,,ENST00000563811,;"	"A"	"ENSG00000261818"	"ENST00000563811"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/428"	""	""	""	""	""	"1"	NA	1	"RP11-351A20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c24dd4b8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.31	"WGS"	FALSE
"10997"	"PLA2G15"	23659	"mskcc.org"	"GRCh37"	"16"	68291130	68291130	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.727+1237T>G"	""	""	"ENST00000219345"	""	94	"88"	6	64	"64"	0	"PLA2G15,intron_variant,,ENST00000219345,NM_012320.3;PLA2G15,intron_variant,,ENST00000413021,;PLA2G15,intron_variant,,ENST00000566188,;PLA2G15,intron_variant,,ENST00000444212,;PLA2G15,intron_variant,,ENST00000568082,;PLA2G15,intron_variant,,ENST00000564827,;PLA2G15,downstream_gene_variant,,ENST00000565744,;RP11-96D1.7,intron_variant,,ENST00000563175,;RP11-96D1.7,intron_variant,,ENST00000569843,;PLA2G15,intron_variant,,ENST00000565460,;PLA2G15,downstream_gene_variant,,ENST00000562449,;PLA2G15,downstream_gene_variant,,ENST00000566978,;PLA2G15,downstream_gene_variant,,ENST00000562966,;"	"G"	"ENSG00000103066"	"ENST00000219345"	"Transcript"	"intron_variant"	"-/2723"	"-/1239"	"-/412"	""	""	""	"1"	NA	1	"PLA2G15"	"HGNC"	17163	"protein_coding"	"YES"	"CCDS10864.1"	"ENSP00000219345"	"Q8NCC3"	""	"UPI00000359EF"	"NM_012320.3"	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c24f4ffa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"10998"	"TANGO6"	79613	"mskcc.org"	"GRCh37"	"16"	68925286	68925286	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1378-9051C>T"	""	""	"ENST00000261778"	""	92	"85"	7	54	"54"	0	"TANGO6,intron_variant,,ENST00000261778,NM_024562.1;TANGO6,intron_variant,,ENST00000565852,;"	"T"	"ENSG00000103047"	"ENST00000261778"	"Transcript"	"intron_variant"	"-/4816"	"-/3285"	"-/1094"	""	""	""	"1"	NA	1	"TANGO6"	"HGNC"	25749	"protein_coding"	"YES"	"CCDS45516.1"	"ENSP00000261778"	"Q9C0B7"	"B3KTB6"	"UPI00001FF4A8"	"NM_024562.1"	""	""	""	"7/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c24f87c2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"10999"	"SNTB2"	6645	"mskcc.org"	"GRCh37"	"16"	69329983	69329983	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1346-3510G>A"	""	""	"ENST00000336278"	""	81	"73"	8	57	"57"	0	"SNTB2,intron_variant,,ENST00000336278,NM_006750.3;RP11-343C2.11,upstream_gene_variant,,ENST00000570054,;SNTB2,intron_variant,,ENST00000467311,;"	"A"	"ENSG00000168807"	"ENST00000336278"	"Transcript"	"intron_variant"	"-/9789"	"-/1623"	"-/540"	""	""	""	"1"	NA	1	"SNTB2"	"HGNC"	11169	"protein_coding"	"YES"	"CCDS10873.1"	"ENSP00000338191"	"Q13425"	""	"UPI0000135B21"	"NM_006750.3"	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c24fc264-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0987654320987654	"WGS"	FALSE
"11000"	"NFAT5"	10725	"mskcc.org"	"GRCh37"	"16"	69717817	69717817	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1691-973C>G"	""	""	"ENST00000432919"	""	78	"71"	7	51	"51"	0	"NFAT5,intron_variant,,ENST00000349945,NM_138714.3;NFAT5,intron_variant,,ENST00000432919,NM_138713.3,NM_001113178.2;NFAT5,intron_variant,,ENST00000354436,NM_006599.3;NFAT5,intron_variant,,ENST00000393742,NM_173214.2;NFAT5,intron_variant,,ENST00000567239,;NFAT5,intron_variant,,ENST00000566899,NM_173215.2;NFAT5,intron_variant,,ENST00000565301,;NFAT5,intron_variant,,ENST00000426654,;NFAT5,intron_variant,,ENST00000567990,;NFAT5,intron_variant,,ENST00000563474,;NFAT5,intron_variant,,ENST00000562429,;"	"G"	"ENSG00000102908"	"ENST00000432919"	"Transcript"	"intron_variant"	"-/14157"	"-/4650"	"-/1549"	""	""	""	"1"	NA	1	"NFAT5"	"HGNC"	7774	"protein_coding"	"YES"	"CCDS45518.1"	"ENSP00000396538"	"O94916"	""	"UPI000049DE1B"	"NM_138713.3,NM_001113178.2"	""	""	""	"10/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c24fe2e4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"11001"	"WWP2"	11060	"mskcc.org"	"GRCh37"	"16"	69975660	69975660	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000359154"	""	102	"81"	21	69	"69"	0	"WWP2,downstream_gene_variant,,ENST00000359154,NM_001270454.1,NM_007014.4;WWP2,downstream_gene_variant,,ENST00000448661,;WWP2,downstream_gene_variant,,ENST00000356003,;WWP2,downstream_gene_variant,,ENST00000568684,NM_199424.2;WWP2,downstream_gene_variant,,ENST00000542271,NM_001270453.1;WWP2,downstream_gene_variant,,ENST00000544162,;WWP2,downstream_gene_variant,,ENST00000569297,;WWP2,downstream_gene_variant,,ENST00000566463,;WWP2,downstream_gene_variant,,ENST00000567161,;WWP2,downstream_gene_variant,,ENST00000567303,;"	"T"	"ENSG00000198373"	"ENST00000359154"	"Transcript"	"downstream_gene_variant"	"-/4515"	"-/2613"	"-/870"	""	""	""	"1"	"16"	1	"WWP2"	"HGNC"	16804	"protein_coding"	"YES"	"CCDS10885.1"	"ENSP00000352069"	"O00308"	"H3BRX8,H3BPJ8,B4DHF6"	"UPI000006CD16"	"NM_001270454.1,NM_007014.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c25002a6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205882352941176	"WGS"	FALSE
"11002"	"PDXDC2P"	283970	"mskcc.org"	"GRCh37"	"16"	70102057	70102057	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000531894"	""	73	"66"	7	39	"39"	0	"PDXDC2P,upstream_gene_variant,,ENST00000531894,;PDXDC2P,upstream_gene_variant,,ENST00000325845,;PDXDC2P,upstream_gene_variant,,ENST00000530079,;PDXDC2P,upstream_gene_variant,,ENST00000529089,;PDXDC2P,upstream_gene_variant,,ENST00000525173,;PDXDC2P,upstream_gene_variant,,ENST00000534580,;PDXDC2P,upstream_gene_variant,,ENST00000533264,;PDXDC2P,upstream_gene_variant,,ENST00000527016,;PDXDC2P,upstream_gene_variant,,ENST00000534700,;"	"A"	"ENSG00000196696"	"ENST00000531894"	"Transcript"	"upstream_gene_variant"	"-/4184"	""	""	""	""	""	"1"	"2206"	-1	"PDXDC2P"	"HGNC"	27559	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c25011ba-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"11003"	"RP11-296I10.6"	100506060	"mskcc.org"	"GRCh37"	"16"	70249779	70249779	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000565246"	""	104	"97"	7	54	"54"	0	"RP11-296I10.6,downstream_gene_variant,,ENST00000581050,;RP11-296I10.6,downstream_gene_variant,,ENST00000573141,;RP11-296I10.6,downstream_gene_variant,,ENST00000565246,;"	"G"	"ENSG00000261556"	"ENST00000565246"	"Transcript"	"downstream_gene_variant"	"-/2631"	""	""	""	""	""	"1"	"3994"	-1	"RP11-296I10.6"	"Clone_based_vega_gene"	NA	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c2503b72-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0673076923076923	"WGS"	FALSE
"11004"	"RP11-296I10.6"	100506060	"mskcc.org"	"GRCh37"	"16"	70249782	70249782	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000565246"	""	99	"93"	6	53	"53"	0	"RP11-296I10.6,downstream_gene_variant,,ENST00000581050,;RP11-296I10.6,downstream_gene_variant,,ENST00000573141,;RP11-296I10.6,downstream_gene_variant,,ENST00000565246,;"	"A"	"ENSG00000261556"	"ENST00000565246"	"Transcript"	"downstream_gene_variant"	"-/2631"	""	""	""	""	""	"1"	"3991"	-1	"RP11-296I10.6"	"Clone_based_vega_gene"	NA	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c2503c4e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"11005"	"ZNF19"	7567	"mskcc.org"	"GRCh37"	"16"	71511184	71511184	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.274+947T>C"	""	""	"ENST00000288177"	""	95	"67"	28	49	"49"	0	"ZNF19,intron_variant,,ENST00000288177,NM_006961.3;ZNF19,intron_variant,,ENST00000567225,;ZNF19,intron_variant,,ENST00000565637,;ZNF19,intron_variant,,ENST00000564230,;ZNF19,intron_variant,,ENST00000565100,;ZNF19,intron_variant,,ENST00000568815,;ZNF19,downstream_gene_variant,,ENST00000569072,;ZNF19,downstream_gene_variant,,ENST00000566202,;ZNF19,downstream_gene_variant,,ENST00000561469,;ZNF19,downstream_gene_variant,,ENST00000564225,;AC010547.9,intron_variant,,ENST00000561908,;ZNF19,intron_variant,,ENST00000569717,;ZNF19,intron_variant,,ENST00000565541,;ZNF19,downstream_gene_variant,,ENST00000562210,;"	"G"	"ENSG00000157429"	"ENST00000288177"	"Transcript"	"intron_variant"	"-/3213"	"-/1377"	"-/458"	""	""	""	"1"	NA	-1	"ZNF19"	"HGNC"	12981	"protein_coding"	"YES"	"CCDS10901.1"	"ENSP00000288177"	"P17023"	"J3KT56,H3BQI6,H3BQ26,H3BNI0,H3BNH9"	"UPI00001E0590"	"NM_006961.3"	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c250e00e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294736842105263	"WGS"	FALSE
"11006"	"AP1G1"	164	"mskcc.org"	"GRCh37"	"16"	71834063	71834063	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-4+8603G>C"	""	""	"ENST00000393512"	""	70	"64"	6	49	"49"	0	"AP1G1,intron_variant,,ENST00000299980,NM_001128.5;AP1G1,intron_variant,,ENST00000423132,;AP1G1,intron_variant,,ENST00000569748,;AP1G1,intron_variant,,ENST00000433195,;AP1G1,intron_variant,,ENST00000393512,NM_001030007.1;AP1G1,intron_variant,,ENST00000563104,;AP1G1,intron_variant,,ENST00000563259,;AP1G1,intron_variant,,ENST00000570017,;AP1G1,intron_variant,,ENST00000565412,;AP1G1,intron_variant,,ENST00000567583,;AP1G1,intron_variant,,ENST00000569975,;AP1G1,intron_variant,,ENST00000569185,;AP1G1,intron_variant,,ENST00000570297,;AP1G1,intron_variant,,ENST00000565009,;AP1G1,intron_variant,,ENST00000568327,;AP1G1,intron_variant,,ENST00000450149,;AP1G1,intron_variant,,ENST00000566161,;"	"G"	"ENSG00000166747"	"ENST00000393512"	"Transcript"	"intron_variant"	"-/3593"	"-/2478"	"-/825"	""	""	""	"1"	NA	-1	"AP1G1"	"HGNC"	555	"protein_coding"	"YES"	"CCDS45522.1"	"ENSP00000377148"	"O43747"	"H3BV30,H3BS13,H3BRM7,H3BR36,H3BPN9,H3BN75,H3BN71,B3KNW1"	"UPI000016A4AD"	"NM_001030007.1"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c250f7ce-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"11007"	"GLG1"	2734	"mskcc.org"	"GRCh37"	"16"	74578884	74578884	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.439-12833G>A"	""	""	"ENST00000205061"	""	94	"82"	12	45	"45"	0	"GLG1,intron_variant,,ENST00000422840,NM_001145667.1;GLG1,intron_variant,,ENST00000205061,NM_012201.5;GLG1,intron_variant,,ENST00000447066,NM_001145666.1;GLG1,intron_variant,,ENST00000565474,;GLG1,intron_variant,,ENST00000565260,;GLG1,intron_variant,,ENST00000562090,;GLG1,intron_variant,,ENST00000567951,;"	"T"	"ENSG00000090863"	"ENST00000205061"	"Transcript"	"intron_variant"	"-/3730"	"-/3612"	"-/1203"	""	""	""	"1"	NA	-1	"GLG1"	"HGNC"	4316	"protein_coding"	"YES"	"CCDS32485.1"	"ENSP00000205061"	"Q92896"	"Q6ZMF1,H3BQT1"	"UPI00001FFBD9"	"NM_012201.5"	""	""	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c251fd54-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127659574468085	"WGS"	FALSE
"11008"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	75955774	75955774	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"42"	24	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c25272b6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"11009"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	77542793	77542793	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"77"	7	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c252accc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"11010"	"NUDT7"	283927	"mskcc.org"	"GRCh37"	"16"	77779010	77779010	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000268533"	""	98	"91"	7	52	"52"	0	"NUDT7,downstream_gene_variant,,ENST00000268533,NM_001105663.2;NUDT7,downstream_gene_variant,,ENST00000437314,NM_001243661.1;NUDT7,downstream_gene_variant,,ENST00000564085,NM_001243657.1;NUDT7,downstream_gene_variant,,ENST00000563839,;RP11-264M12.2,upstream_gene_variant,,ENST00000563690,;NUDT7,downstream_gene_variant,,ENST00000564031,;"	"T"	"ENSG00000140876"	"ENST00000268533"	"Transcript"	"downstream_gene_variant"	"-/1096"	"-/717"	"-/238"	""	""	""	"1"	"2853"	1	"NUDT7"	"HGNC"	8054	"protein_coding"	"YES"	"CCDS42195.1"	"ENSP00000268533"	"P0C024"	""	"UPI000003EFFE"	"NM_001105663.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c252bb22-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"11011"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	80089975	80089975	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"82"	27	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c2533926-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247706422018349	"WGS"	FALSE
"11012"	"RP11-960L18.1"	101928342	"mskcc.org"	"GRCh37"	"16"	81788067	81788067	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.421-1408A>C"	""	""	"ENST00000565272"	""	16	"13"	3	6	"6"	0	"PLCG2,intron_variant,,ENST00000565054,;RP11-960L18.1,intron_variant,,ENST00000565272,;RP11-960L18.1,intron_variant,,ENST00000569731,;RP11-960L18.1,intron_variant,,ENST00000563954,;RP11-960L18.1,intron_variant,,ENST00000568131,;"	"C"	"ENSG00000261218"	"ENST00000565272"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/756"	""	""	""	""	""	"1"	NA	1	"RP11-960L18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c253b90a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"11013"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	82060920	82060920	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"73"	24	40	"40"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c253ce72-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247422680412371	"WGS"	FALSE
"11014"	"CDH13"	1012	"mskcc.org"	"GRCh37"	"16"	83428692	83428692	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.922+50081G>T"	""	""	"ENST00000268613"	""	92	"70"	22	47	"47"	0	"CDH13,intron_variant,,ENST00000566620,NM_001257.4,NM_001220490.1,NM_001220489.1,NM_001220488.1;CDH13,intron_variant,,ENST00000268613,;CDH13,intron_variant,,ENST00000428848,;RP11-543N12.1,intron_variant,,ENST00000562565,;RP11-543N12.1,intron_variant,,ENST00000564635,;CDH13,intron_variant,,ENST00000569454,;CDH13,intron_variant,,ENST00000539548,;"	"T"	"ENSG00000140945"	"ENST00000268613"	"Transcript"	"intron_variant"	"-/2722"	"-/2283"	"-/760"	""	""	""	"1"	NA	1	"CDH13"	"HGNC"	1753	"protein_coding"	"YES"	"CCDS58485.1"	"ENSP00000268613"	"P55290"	""	"UPI00020E71A6"	""	""	""	""	"7/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c2541788-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239130434782609	"WGS"	FALSE
"11015"	"CA5A"	763	"mskcc.org"	"GRCh37"	"16"	87950583	87950583	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.340+9771G>A"	""	""	"ENST00000309893"	""	89	"64"	25	49	"49"	0	"CA5A,intron_variant,,ENST00000309893,NM_001739.1;"	"T"	"ENSG00000174990"	"ENST00000309893"	"Transcript"	"intron_variant"	"-/1094"	"-/918"	"-/305"	""	""	""	"1"	NA	-1	"CA5A"	"HGNC"	1377	"protein_coding"	"YES"	"CCDS10965.1"	"ENSP00000309649"	"P35218"	""	"UPI0000126DF3"	"NM_001739.1"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"c25661b4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280898876404494	"WGS"	FALSE
"11016"	"ANKRD11"	29123	"mskcc.org"	"GRCh37"	"16"	89433027	89433027	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-59-49541C>T"	""	""	"ENST00000301030"	""	102	"74"	28	49	"49"	0	"ANKRD11,intron_variant,,ENST00000301030,NM_001256183.1,NM_013275.5;ANKRD11,intron_variant,,ENST00000378330,NM_001256182.1;ANKRD11,intron_variant,,ENST00000562816,;ANKRD11,intron_variant,,ENST00000568512,;ANKRD11,intron_variant,,ENST00000378332,;"	"A"	"ENSG00000167522"	"ENST00000301030"	"Transcript"	"intron_variant"	"-/9301"	"-/7992"	"-/2663"	""	""	""	"1"	NA	-1	"ANKRD11"	"HGNC"	21316	"protein_coding"	"YES"	"CCDS32513.1"	"ENSP00000301030"	"Q6UB99"	""	"UPI00004569E1"	"NM_001256183.1,NM_013275.5"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"c258519a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274509803921569	"WGS"	FALSE
"11017"	"ITGAE"	3682	"mskcc.org"	"GRCh37"	"17"	3673272	3673272	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.156-6018G>T"	""	""	"ENST00000263087"	""	90	"56"	34	50	"50"	0	"ITGAE,intron_variant,,ENST00000263087,NM_002208.4;"	"A"	"ENSG00000083457"	"ENST00000263087"	"Transcript"	"intron_variant"	"-/3858"	"-/3540"	"-/1179"	""	""	""	"1"	NA	-1	"ITGAE"	"HGNC"	6147	"protein_coding"	"YES"	"CCDS32531.1"	"ENSP00000263087"	"P38570"	""	"UPI000049DE2D"	"NM_002208.4"	""	""	""	"2/30"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c25cef2a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.377777777777778	"WGS"	FALSE
"11018"	"UBE2G1"	7326	"mskcc.org"	"GRCh37"	"17"	4274244	4274244	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000396981"	""	87	"79"	8	34	"34"	0	"UBE2G1,upstream_gene_variant,,ENST00000396981,NM_003342.4;UBE2G1,upstream_gene_variant,,ENST00000572484,;UBE2G1,upstream_gene_variant,,ENST00000571980,;UBE2G1,upstream_gene_variant,,ENST00000574633,;"	"C"	"ENSG00000132388"	"ENST00000396981"	"Transcript"	"upstream_gene_variant"	"-/3974"	"-/513"	"-/170"	""	""	""	"1"	"4467"	-1	"UBE2G1"	"HGNC"	12482	"protein_coding"	"YES"	"CCDS32532.1"	"ENSP00000380178"	"P62253"	"K7EPR7,I3L2Q4,I3L2H7,I3L0Q0"	"UPI0000028843"	"NM_003342.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c25d3f70-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"11019"	"UBE2G1"	7326	"mskcc.org"	"GRCh37"	"17"	4274252	4274252	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000396981"	""	87	"79"	8	38	"38"	0	"UBE2G1,upstream_gene_variant,,ENST00000396981,NM_003342.4;UBE2G1,upstream_gene_variant,,ENST00000572484,;UBE2G1,upstream_gene_variant,,ENST00000571980,;UBE2G1,upstream_gene_variant,,ENST00000574633,;"	"G"	"ENSG00000132388"	"ENST00000396981"	"Transcript"	"upstream_gene_variant"	"-/3974"	"-/513"	"-/170"	""	""	""	"1"	"4475"	-1	"UBE2G1"	"HGNC"	12482	"protein_coding"	"YES"	"CCDS32532.1"	"ENSP00000380178"	"P62253"	"K7EPR7,I3L2Q4,I3L2H7,I3L0Q0"	"UPI0000028843"	"NM_003342.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c25d404c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"11020"	"SPNS3"	201305	"mskcc.org"	"GRCh37"	"17"	4348595	4348595	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.402+132C>A"	""	""	"ENST00000355530"	""	93	"62"	31	51	"51"	0	"SPNS3,intron_variant,,ENST00000355530,NM_182538.4;SPNS3,intron_variant,,ENST00000333476,;SPNS3,intron_variant,,ENST00000576069,;SPNS3,intron_variant,,ENST00000575194,;SPNS3,intron_variant,,ENST00000572078,;SPNS3,upstream_gene_variant,,ENST00000575185,;"	"A"	"ENSG00000182557"	"ENST00000355530"	"Transcript"	"intron_variant"	"-/2133"	"-/1539"	"-/512"	""	""	""	"1"	NA	1	"SPNS3"	"HGNC"	28433	"protein_coding"	"YES"	"CCDS11045.1"	"ENSP00000347721"	"Q6ZMD2"	""	"UPI00001971EC"	"NM_182538.4"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c25d57a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"11021"	"PLD2"	5338	"mskcc.org"	"GRCh37"	"17"	4724092	4724092	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2463-996A>C"	""	""	"ENST00000263088"	""	59	"53"	6	31	"31"	0	"PLD2,intron_variant,,ENST00000263088,NM_001243108.1,NM_002663.4;PLD2,intron_variant,,ENST00000572940,;PLD2,intron_variant,,ENST00000576864,;PLD2,downstream_gene_variant,,ENST00000576983,;PLD2,downstream_gene_variant,,ENST00000575246,;PLD2,downstream_gene_variant,,ENST00000571273,;PLD2,downstream_gene_variant,,ENST00000574796,;PLD2,downstream_gene_variant,,ENST00000572127,;PLD2,downstream_gene_variant,,ENST00000572199,;PLD2,upstream_gene_variant,,ENST00000575945,;PLD2,downstream_gene_variant,,ENST00000576329,;PLD2,downstream_gene_variant,,ENST00000573258,;"	"C"	"ENSG00000129219"	"ENST00000263088"	"Transcript"	"intron_variant"	"-/3503"	"-/2802"	"-/933"	""	""	""	"1"	NA	1	"PLD2"	"HGNC"	9068	"protein_coding"	"YES"	"CCDS11057.1"	"ENSP00000263088"	"O14939"	"I3L222,I3L1F3"	"UPI0000131BDE"	"NM_001243108.1,NM_002663.4"	""	""	""	"23/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c25da41a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101694915254237	"WGS"	FALSE
"11022"	"USP6"	9098	"mskcc.org"	"GRCh37"	"17"	5034804	5034804	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.155+825G>C"	""	""	"ENST00000574788"	""	57	"52"	5	39	"39"	0	"USP6,intron_variant,,ENST00000574788,;USP6,intron_variant,,ENST00000332776,;USP6,intron_variant,,ENST00000304328,;USP6,intron_variant,,ENST00000250066,NM_004505.2;USP6,intron_variant,,ENST00000572429,;USP6,intron_variant,,ENST00000575709,;USP6,intron_variant,,ENST00000572949,;USP6,intron_variant,,ENST00000357482,;RP11-46I8.4,upstream_gene_variant,,ENST00000575546,;"	"C"	"ENSG00000129204"	"ENST00000574788"	"Transcript"	"intron_variant"	"-/8464"	"-/4221"	"-/1406"	""	""	""	"1"	NA	1	"USP6"	"HGNC"	12629	"protein_coding"	"YES"	"CCDS11069.2"	"ENSP00000460380"	"P35125"	"Q6U210"	"UPI000006226F"	""	""	""	""	"11/37"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c25e0644-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087719298245614	"WGS"	TRUE
"11023"	"SCIMP"	388325	"mskcc.org"	"GRCh37"	"17"	5109406	5109406	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000574081"	""	76	"69"	7	49	"49"	0	"SCIMP,downstream_gene_variant,,ENST00000574081,NM_001271842.1,NM_207103.3;SCIMP,downstream_gene_variant,,ENST00000399600,;RP11-333E1.1,intron_variant,,ENST00000571689,;RP11-333E1.1,intron_variant,,ENST00000575601,;"	"G"	"ENSG00000161929"	"ENST00000574081"	"Transcript"	"downstream_gene_variant"	"-/2383"	"-/438"	"-/145"	""	""	""	"1"	"2850"	-1	"SCIMP"	"HGNC"	33504	"protein_coding"	"YES"	"CCDS42242.1"	"ENSP00000461269"	"Q6UWF3"	""	"UPI0000048F58"	"NM_001271842.1,NM_207103.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c25e0e96-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"11024"	"CLEC10A"	10462	"mskcc.org"	"GRCh37"	"17"	6980825	6980825	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.184+491G>A"	""	""	"ENST00000254868"	""	25	"19"	6	15	"15"	0	"CLEC10A,intron_variant,,ENST00000576617,;CLEC10A,intron_variant,,ENST00000254868,NM_182906.2;CLEC10A,intron_variant,,ENST00000416562,NM_006344.2;CLEC10A,intron_variant,,ENST00000571664,;CLEC10A,upstream_gene_variant,,ENST00000576549,;CLEC10A,downstream_gene_variant,,ENST00000571624,;"	"T"	"ENSG00000132514"	"ENST00000254868"	"Transcript"	"intron_variant"	"-/1797"	"-/951"	"-/316"	""	""	""	"1"	NA	-1	"CLEC10A"	"HGNC"	16916	"protein_coding"	"YES"	"CCDS11087.1"	"ENSP00000254868"	"Q8IUN9"	""	"UPI0000074738"	"NM_182906.2"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c25ecc0a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WGS"	FALSE
"11025"	"YBX2"	51087	"mskcc.org"	"GRCh37"	"17"	7201492	7201492	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000007699"	""	74	"68"	6	36	"36"	0	"YBX2,upstream_gene_variant,,ENST00000007699,NM_015982.3;YBX2,upstream_gene_variant,,ENST00000570627,;YBX2,upstream_gene_variant,,ENST00000571485,;YBX2,upstream_gene_variant,,ENST00000571834,;YBX2,upstream_gene_variant,,ENST00000571127,;"	"C"	"ENSG00000006047"	"ENST00000007699"	"Transcript"	"upstream_gene_variant"	"-/1590"	"-/1095"	"-/364"	""	""	""	"1"	"3609"	-1	"YBX2"	"HGNC"	17948	"protein_coding"	"YES"	"CCDS11098.1"	"ENSP00000007699"	"Q9Y2T7"	""	"UPI000006E761"	"NM_015982.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c25f0328-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"11026"	"HES7"	84667	"mskcc.org"	"GRCh37"	"17"	8025936	8025936	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.139-188C>T"	""	""	"ENST00000541682"	""	101	"82"	19	60	"60"	0	"HES7,intron_variant,,ENST00000541682,NM_032580.3,NM_001165967.1;HES7,intron_variant,,ENST00000317814,;HES7,intron_variant,,ENST00000577735,;ALOXE3,upstream_gene_variant,,ENST00000380149,;ALOXE3,upstream_gene_variant,,ENST00000448843,NM_021628.2;ALOXE3,upstream_gene_variant,,ENST00000318227,NM_001165960.1;"	"A"	"ENSG00000179111"	"ENST00000541682"	"Transcript"	"intron_variant"	"-/1674"	"-/693"	"-/230"	""	""	""	"1"	NA	-1	"HES7"	"HGNC"	15977	"protein_coding"	"YES"	"CCDS54085.1"	"ENSP00000446205"	"Q9BYE0"	""	"UPI0000E59E09"	"NM_032580.3,NM_001165967.1"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"c25f7ba0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188118811881188	"WGS"	FALSE
"11027"	"ENSR00001340450"	0	"mskcc.org"	"GRCh37"	"17"	8205715	8205715	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001340450"	""	105	"97"	8	45	"45"	0	""	"C"	""	"ENSR00001340450"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c25f99b4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0761904761904762	"WGS"	FALSE
"11028"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	8612374	8612374	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"77"	5	77	"77"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c25fb714-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0609756097560976	"WGS"	FALSE
"11029"	"CTC-297N7.11"	0	"mskcc.org"	"GRCh37"	"17"	10470162	10470162	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.156-692G>A"	""	""	"ENST00000587182"	""	78	"52"	26	60	"60"	0	"CTC-297N7.11,intron_variant,,ENST00000587182,;"	"A"	"ENSG00000272975"	"ENST00000587182"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2274"	""	""	""	""	""	"1"	NA	1	"CTC-297N7.11"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c2606286-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"11030"	"MYOCD"	93649	"mskcc.org"	"GRCh37"	"17"	12621148	12621148	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.253+410C>A"	""	""	"ENST00000425538"	""	95	"64"	31	52	"52"	0	"MYOCD,intron_variant,,ENST00000425538,NM_001146312.1,NM_153604.2;MYOCD,intron_variant,,ENST00000343344,;MYOCD,upstream_gene_variant,,ENST00000395988,;MYOCD,downstream_gene_variant,,ENST00000579237,;"	"A"	"ENSG00000141052"	"ENST00000425538"	"Transcript"	"intron_variant"	"-/8466"	"-/2961"	"-/986"	""	""	""	"1"	NA	1	"MYOCD"	"HGNC"	16067	"protein_coding"	"YES"	"CCDS54091.1"	"ENSP00000401678"	"Q8IZQ8"	""	"UPI000022A2E2"	"NM_001146312.1,NM_153604.2"	""	""	""	"4/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c260ef6c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326315789473684	"WGS"	FALSE
"11031"	"ELAC2"	60528	"mskcc.org"	"GRCh37"	"17"	12909046	12909046	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.870+24T>G"	""	""	"ENST00000338034"	""	99	"93"	6	50	"50"	0	"ELAC2,intron_variant,,ENST00000338034,NM_018127.6,NM_173717.1;ELAC2,intron_variant,,ENST00000395962,;ELAC2,intron_variant,,ENST00000426905,NM_001165962.1;ELAC2,intron_variant,,ENST00000584650,;ELAC2,intron_variant,,ENST00000609101,;ELAC2,intron_variant,,ENST00000446899,;ELAC2,downstream_gene_variant,,ENST00000580504,;ELAC2,intron_variant,,ENST00000609345,;ELAC2,intron_variant,,ENST00000484122,;ELAC2,intron_variant,,ENST00000480891,;ELAC2,upstream_gene_variant,,ENST00000465825,;ELAC2,upstream_gene_variant,,ENST00000487229,;ELAC2,upstream_gene_variant,,ENST00000578104,;ELAC2,upstream_gene_variant,,ENST00000492559,;ELAC2,upstream_gene_variant,,ENST00000578991,;ELAC2,upstream_gene_variant,,ENST00000476042,;"	"C"	"ENSG00000006744"	"ENST00000338034"	"Transcript"	"intron_variant"	"-/3148"	"-/2481"	"-/826"	""	""	""	"1"	NA	-1	"ELAC2"	"HGNC"	14198	"protein_coding"	"YES"	"CCDS11164.1"	"ENSP00000337445"	"Q9BQ52"	"Q9HAS7,J3QRS2,J3QL08,B4DT15"	"UPI000004A07E"	"NM_018127.6,NM_173717.1"	""	""	""	"10/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAA"	"c26107a4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.0606060606060606	"WGS"	FALSE
"11032"	"HS3ST3A1"	9955	"mskcc.org"	"GRCh37"	"17"	13474571	13474571	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.599+29277A>G"	""	""	"ENST00000284110"	""	87	"65"	22	58	"58"	0	"HS3ST3A1,intron_variant,,ENST00000284110,NM_006042.1;"	"C"	"ENSG00000153976"	"ENST00000284110"	"Transcript"	"intron_variant"	"-/2527"	"-/1221"	"-/406"	""	""	""	"1"	NA	-1	"HS3ST3A1"	"HGNC"	5196	"protein_coding"	"YES"	"CCDS11165.1"	"ENSP00000284110"	"Q9Y663"	"J3KSX5"	"UPI000000DAA6"	"NM_006042.1"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c2612c34-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252873563218391	"WGS"	FALSE
"11033"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	16494645	16494645	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"54"	5	37	"37"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c2622666-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0847457627118644	"WGS"	FALSE
"11034"	"RAI1"	10743	"mskcc.org"	"GRCh37"	"17"	17638469	17638469	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17+10996C>T"	""	""	"ENST00000353383"	""	99	"92"	7	33	"33"	0	"RAI1,intron_variant,,ENST00000353383,NM_030665.3;RAI1,intron_variant,,ENST00000471135,;"	"T"	"ENSG00000108557"	"ENST00000353383"	"Transcript"	"intron_variant"	"-/7662"	"-/5721"	"-/1906"	""	""	""	"1"	NA	1	"RAI1"	"HGNC"	9834	"protein_coding"	"YES"	"CCDS11188.1"	"ENSP00000323074"	"Q7Z5J4"	"J3QLL5,A8MXE8"	"UPI0000200AAF"	"NM_030665.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"c2629394-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0707070707070707	"WGS"	FALSE
"11035"	"KRT16P1"	729252	"mskcc.org"	"GRCh37"	"17"	18344251	18344251	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.614-17C>T"	""	""	"ENST00000584962"	""	35	"26"	9	18	"18"	0	"KRT16P1,intron_variant,,ENST00000581027,;KRT16P1,intron_variant,,ENST00000581210,;KRT16P1,intron_variant,,ENST00000584135,;KRT16P1,intron_variant,,ENST00000584962,;KRT16P1,upstream_gene_variant,,ENST00000577750,;KRT16P1,intron_variant,,ENST00000399124,;KRT16P1,intron_variant,,ENST00000411877,;"	"T"	"ENSG00000214856"	"ENST00000584962"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1958"	""	""	""	""	""	"1"	NA	1	"KRT16P1"	"HGNC"	6420	"retained_intron"	"YES"	""	""	""	""	""	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c262eea2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257142857142857	"WGS"	FALSE
"11036"	"RP11-434D2.7"	0	"mskcc.org"	"GRCh37"	"17"	20406784	20406784	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000587907"	""	104	"93"	11	49	"49"	0	"RP11-434D2.7,downstream_gene_variant,,ENST00000587907,;KRT16P3,intron_variant,,ENST00000580113,;KRT16P3,intron_variant,,ENST00000580621,;KRT16P3,upstream_gene_variant,,ENST00000584759,;KRT16P3,intron_variant,,ENST00000439127,;KRT16P3,intron_variant,,ENST00000536327,;"	"A"	"ENSG00000266925"	"ENST00000587907"	"Transcript"	"downstream_gene_variant"	"-/1519"	""	""	""	""	""	"1"	"3942"	-1	"RP11-434D2.7"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c263e244-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105769230769231	"WGS"	FALSE
"11037"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	21949540	21949540	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"56"	21	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c2653428-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"11038"	"ENSR00001343247"	0	"mskcc.org"	"GRCh37"	"17"	26308485	26308485	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001343247"	""	101	"79"	22	56	"56"	0	""	"T"	""	"ENSR00001343247"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c2673aa2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217821782178218	"WGS"	FALSE
"11039"	"FOXN1"	8456	"mskcc.org"	"GRCh37"	"17"	26841482	26841482	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-15+8021C>A"	""	""	"ENST00000579795"	""	74	"49"	25	46	"46"	0	"FOXN1,intron_variant,,ENST00000579795,;FOXN1,intron_variant,,ENST00000577936,;RP11-192H23.4,intron_variant,,ENST00000481916,;"	"A"	"ENSG00000109101"	"ENST00000579795"	"Transcript"	"intron_variant"	"-/2145"	"-/1947"	"-/648"	""	""	""	"1"	NA	1	"FOXN1"	"HGNC"	12765	"protein_coding"	""	"CCDS11232.1"	"ENSP00000464645"	"O15353"	"J3KRT9"	"UPI000012ADE6"	""	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"c26761bc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337837837837838	"WGS"	FALSE
"11040"	"RP11-192H23.4"	0	"mskcc.org"	"GRCh37"	"17"	26931203	26931203	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.524+8846G>T"	""	""	"ENST00000531839"	""	29	"24"	5	17	"17"	0	"RP11-192H23.4,intron_variant,,ENST00000531839,;SPAG5,upstream_gene_variant,,ENST00000321765,NM_006461.3;RP11-192H23.4,downstream_gene_variant,,ENST00000534850,;RP11-192H23.4,downstream_gene_variant,,ENST00000577790,;SPAG5-AS1,intron_variant,,ENST00000414744,;SPAG5-AS1,intron_variant,,ENST00000556050,;SPAG5-AS1,intron_variant,,ENST00000554154,;RP11-192H23.6,upstream_gene_variant,,ENST00000579019,;RP11-192H23.8,upstream_gene_variant,,ENST00000582858,;RP11-192H23.4,3_prime_UTR_variant,,ENST00000481916,;RP11-192H23.4,intron_variant,,ENST00000584196,;SGK494,downstream_gene_variant,,ENST00000579457,;"	"A"	"ENSG00000258472"	"ENST00000531839"	"Transcript"	"intron_variant"	"-/1033"	"-/1009"	"-/336"	""	""	""	"1"	NA	-1	"RP11-192H23.4"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000431165"	""	"E9PMD0"	"UPI0001F77E26"	""	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c2677c2e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WGS"	FALSE
"11041"	"TAOK1"	57551	"mskcc.org"	"GRCh37"	"17"	27780631	27780631	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.132+1933G>A"	""	""	"ENST00000261716"	""	83	"76"	7	48	"48"	0	"TAOK1,intron_variant,,ENST00000261716,NM_020791.2;TAOK1,intron_variant,,ENST00000536202,NM_025142.1;TAOK1,intron_variant,,ENST00000583121,;TAOK1,downstream_gene_variant,,ENST00000587277,;"	"A"	"ENSG00000160551"	"ENST00000261716"	"Transcript"	"intron_variant"	"-/12407"	"-/3006"	"-/1001"	""	""	""	"1"	NA	1	"TAOK1"	"HGNC"	29259	"protein_coding"	"YES"	"CCDS32601.1"	"ENSP00000261716"	"Q7L7X3"	"J3QS76"	"UPI000004A033"	"NM_020791.2"	""	""	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c267e6d2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"11042"	"TAOK1"	57551	"mskcc.org"	"GRCh37"	"17"	27784661	27784661	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs567682717"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.132+5963C>T"	""	""	"ENST00000261716"	""	73	"66"	7	25	"25"	0	"TAOK1,intron_variant,,ENST00000261716,NM_020791.2;TAOK1,intron_variant,,ENST00000536202,NM_025142.1;TAOK1,intron_variant,,ENST00000583121,;"	"T"	"ENSG00000160551"	"ENST00000261716"	"Transcript"	"intron_variant"	"-/12407"	"-/3006"	"-/1001"	""	""	"rs567682717"	"1"	NA	1	"TAOK1"	"HGNC"	29259	"protein_coding"	"YES"	"CCDS32601.1"	"ENSP00000261716"	"Q7L7X3"	"J3QS76"	"UPI000004A033"	"NM_020791.2"	""	""	""	"2/19"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c267ea42-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"11043"	"SSH2"	85464	"mskcc.org"	"GRCh37"	"17"	28028058	28028058	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.211+1919T>C"	""	""	"ENST00000269033"	""	84	"78"	6	48	"48"	0	"SSH2,intron_variant,,ENST00000269033,NM_033389.2,NM_001282129.1;SSH2,intron_variant,,ENST00000540801,;SSH2,intron_variant,,ENST00000592397,;RP11-68I3.2,intron_variant,,ENST00000581474,;SSH2,intron_variant,,ENST00000324677,;SSH2,intron_variant,,ENST00000394848,;SSH2,intron_variant,,ENST00000577483,;SSH2,intron_variant,,ENST00000579040,NM_001282130.1;"	"G"	"ENSG00000141298"	"ENST00000269033"	"Transcript"	"intron_variant"	"-/9327"	"-/4272"	"-/1423"	""	""	""	"1"	NA	-1	"SSH2"	"HGNC"	30580	"protein_coding"	"YES"	"CCDS11253.1"	"ENSP00000269033"	"Q76I76"	"J3KSQ9"	"UPI00001D6272"	"NM_033389.2,NM_001282129.1"	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c2680b3a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"11044"	"SSH2"	85464	"mskcc.org"	"GRCh37"	"17"	28140616	28140616	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.64-19661A>T"	""	""	"ENST00000269033"	""	74	"69"	5	39	"39"	0	"SSH2,intron_variant,,ENST00000269033,NM_033389.2,NM_001282129.1;SSH2,intron_variant,,ENST00000540801,;SSH2,intron_variant,,ENST00000592397,;SSH2,intron_variant,,ENST00000394848,;SSH2,intron_variant,,ENST00000577483,;SSH2,intron_variant,,ENST00000579040,NM_001282130.1;SSH2,intron_variant,,ENST00000578411,;"	"A"	"ENSG00000141298"	"ENST00000269033"	"Transcript"	"intron_variant"	"-/9327"	"-/4272"	"-/1423"	""	""	""	"1"	NA	-1	"SSH2"	"HGNC"	30580	"protein_coding"	"YES"	"CCDS11253.1"	"ENSP00000269033"	"Q76I76"	"J3KSQ9"	"UPI00001D6272"	"NM_033389.2,NM_001282129.1"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c2681b48-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0675675675675676	"WGS"	FALSE
"11045"	"CRLF3"	51379	"mskcc.org"	"GRCh37"	"17"	29116338	29116338	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"rs548523359"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.959+3120T>C"	""	""	"ENST00000324238"	""	122	"83"	39	53	"53"	0	"CRLF3,intron_variant,,ENST00000324238,NM_015986.3;CRLF3,intron_variant,,ENST00000544695,;CRLF3,upstream_gene_variant,,ENST00000583527,;CTD-2349P21.9,upstream_gene_variant,,ENST00000580085,;SUZ12P,intron_variant,,ENST00000583950,;CRLF3,intron_variant,,ENST00000577725,;SUZ12P,downstream_gene_variant,,ENST00000582329,;CRLF3,upstream_gene_variant,,ENST00000585268,;CRLF3,intron_variant,,ENST00000578692,;"	"G"	"ENSG00000176390"	"ENST00000324238"	"Transcript"	"intron_variant"	"-/2957"	"-/1329"	"-/442"	""	""	"rs548523359"	"1"	NA	-1	"CRLF3"	"HGNC"	17177	"protein_coding"	"YES"	"CCDS32607.1"	"ENSP00000318804"	"Q8IUI8"	"B4DJU5"	"UPI0000231BEA"	"NM_015986.3"	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c268728c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319672131147541	"WGS"	FALSE
"11046"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	30125753	30125753	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"63"	26	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c268cc00-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292134831460674	"WGS"	FALSE
"11047"	"MYO1D"	4642	"mskcc.org"	"GRCh37"	"17"	30847485	30847485	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2865-25552C>G"	""	""	"ENST00000318217"	""	96	"65"	31	53	"53"	0	"MYO1D,intron_variant,,ENST00000318217,NM_015194.1;MYO1D,intron_variant,,ENST00000394649,;RP11-466A19.8,intron_variant,,ENST00000578408,;RP11-466A19.3,intron_variant,,ENST00000584219,;RP11-466A19.6,upstream_gene_variant,,ENST00000583156,;MYO1D,intron_variant,,ENST00000577352,;"	"C"	"ENSG00000176658"	"ENST00000318217"	"Transcript"	"intron_variant"	"-/5563"	"-/3021"	"-/1006"	""	""	""	"1"	NA	-1	"MYO1D"	"HGNC"	7598	"protein_coding"	"YES"	"CCDS32615.1"	"ENSP00000324527"	"O94832"	"Q8N618,K7EIG7"	"UPI0000186004"	"NM_015194.1"	""	""	""	"21/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c2692e2a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322916666666667	"WGS"	FALSE
"11048"	"ASIC2"	40	"mskcc.org"	"GRCh37"	"17"	31578241	31578241	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.708+40185C>A"	""	""	"ENST00000225823"	""	82	"53"	29	65	"65"	0	"ASIC2,intron_variant,,ENST00000225823,NM_183377.1;ASIC2,intron_variant,,ENST00000359872,NM_001094.4;ASIC2,intron_variant,,ENST00000448983,;ASIC2,intron_variant,,ENST00000579816,;"	"T"	"ENSG00000108684"	"ENST00000225823"	"Transcript"	"intron_variant"	"-/3443"	"-/1692"	"-/563"	""	""	""	"1"	NA	-1	"ASIC2"	"HGNC"	99	"protein_coding"	"YES"	"CCDS11276.1"	"ENSP00000225823"	"Q16515"	"B3KXQ3"	"UPI000013C881"	"NM_183377.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c2695d0a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.353658536585366	"WGS"	FALSE
"11049"	"AC015849.12"	0	"mskcc.org"	"GRCh37"	"17"	34130788	34130788	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000588414"	""	80	"64"	16	48	"48"	0	"AC015849.12,downstream_gene_variant,,ENST00000588414,;"	"T"	"ENSG00000267578"	"ENST00000588414"	"Transcript"	"downstream_gene_variant"	"-/409"	""	""	""	""	""	"1"	"4705"	-1	"AC015849.12"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c269e55e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"11050"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	35202218	35202218	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"61"	17	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c26a4b02-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217948717948718	"WGS"	FALSE
"11051"	"RP11-1407O15.2"	101929950	"mskcc.org"	"GRCh37"	"17"	36414268	36414268	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000520237"	""	81	"75"	6	42	"42"	0	"RP11-1407O15.2,intron_variant,,ENST00000518004,;RP11-1407O15.2,upstream_gene_variant,,ENST00000520237,;RP11-1407O15.2,upstream_gene_variant,,ENST00000312412,;RP11-1407O15.2,upstream_gene_variant,,ENST00000523089,;RP11-1407O15.2,intron_variant,,ENST00000400815,;RP11-1407O15.2,upstream_gene_variant,,ENST00000520499,;"	"A"	"ENSG00000174093"	"ENST00000520237"	"Transcript"	"upstream_gene_variant"	"-/1676"	"-/1433"	"-/477"	""	""	""	"1"	"999"	-1	"RP11-1407O15.2"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000428261"	""	"E7EWZ2"	"UPI0001AE669C"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c26ac0dc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"11052"	"RAPGEFL1"	51195	"mskcc.org"	"GRCh37"	"17"	38335644	38335644	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-99+1011G>C"	""	""	"ENST00000436615"	""	93	"69"	24	55	"55"	0	"RAPGEFL1,intron_variant,,ENST00000436615,NM_016339.3;RAPGEFL1,intron_variant,,ENST00000264644,;RAPGEFL1,intron_variant,,ENST00000544503,;RAPGEFL1,intron_variant,,ENST00000456989,;RAPGEFL1,intron_variant,,ENST00000543876,;RAPGEFL1,intron_variant,,ENST00000538884,;RAPGEFL1,intron_variant,,ENST00000541245,;RAPGEFL1,upstream_gene_variant,,ENST00000538981,;RAPGEFL1,intron_variant,,ENST00000540388,;"	"C"	"ENSG00000108352"	"ENST00000436615"	"Transcript"	"intron_variant"	"-/3727"	"-/1371"	"-/456"	""	""	""	"1"	NA	1	"RAPGEFL1"	"HGNC"	17428	"protein_coding"	"YES"	"CCDS11363.1"	"ENSP00000408322"	"Q9UHV5"	"F5GYJ3,F5GY17,F5GXC6"	"UPI000006DB6B"	"NM_016339.3"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c26bcf5e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258064516129032	"WGS"	FALSE
"11053"	"KRTAP9-2"	83899	"mskcc.org"	"GRCh37"	"17"	39387446	39387446	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000377721"	""	96	"89"	7	62	"62"	0	"KRTAP9-2,downstream_gene_variant,,ENST00000377721,NM_031961.2;KRTAP9-3,upstream_gene_variant,,ENST00000411528,NM_031962.2;KRTAP9-2,downstream_gene_variant,,ENST00000455970,;"	"A"	"ENSG00000239886"	"ENST00000377721"	"Transcript"	"downstream_gene_variant"	"-/1005"	"-/525"	"-/174"	""	""	""	"1"	"3542"	1	"KRTAP9-2"	"HGNC"	16926	"protein_coding"	"YES"	"CCDS32651.1"	"ENSP00000366950"	"Q9BYQ4"	"Q6ISF6"	"UPI000013CE13"	"NM_031961.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c26c2a30-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0729166666666667	"WGS"	FALSE
"11054"	"STAT5B"	6777	"mskcc.org"	"GRCh37"	"17"	40397609	40397609	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10-13454A>G"	""	""	"ENST00000293328"	""	91	"83"	8	50	"50"	0	"STAT5B,intron_variant,,ENST00000293328,NM_012448.3;STAT5B,intron_variant,,ENST00000415845,;STAT5B,intron_variant,,ENST00000468312,;"	"C"	"ENSG00000173757"	"ENST00000293328"	"Transcript"	"intron_variant"	"-/5103"	"-/2364"	"-/787"	""	""	""	"1"	NA	-1	"STAT5B"	"HGNC"	11367	"protein_coding"	"YES"	"CCDS11423.1"	"ENSP00000293328"	"P51692"	"C9J4I3"	"UPI000006F059"	"NM_012448.3"	""	""	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"c26cbbc6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0879120879120879	"WGS"	TRUE
"11055"	"STAT3"	6774	"mskcc.org"	"GRCh37"	"17"	40530089	40530089	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-24+10208G>A"	""	""	"ENST00000264657"	""	87	"80"	7	56	"56"	0	"STAT3,intron_variant,,ENST00000264657,NM_139276.2,NM_003150.3;STAT3,intron_variant,,ENST00000585517,NM_213662.1;STAT3,intron_variant,,ENST00000588969,;STAT3,intron_variant,,ENST00000404395,;STAT3,intron_variant,,ENST00000389272,;STAT3,intron_variant,,ENST00000588065,;"	"T"	"ENSG00000168610"	"ENST00000264657"	"Transcript"	"intron_variant"	"-/5047"	"-/2313"	"-/770"	""	""	""	"1"	NA	-1	"STAT3"	"HGNC"	11364	"protein_coding"	"YES"	"CCDS32656.1"	"ENSP00000264657"	"P40763"	"G8JLH9"	"UPI0000031047"	"NM_139276.2,NM_003150.3"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"c26cc7ec-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	TRUE
"11056"	"FAM134C"	162427	"mskcc.org"	"GRCh37"	"17"	40730215	40730215	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000309428"	""	103	"73"	30	48	"48"	0	"FAM134C,downstream_gene_variant,,ENST00000309428,NM_178126.3;MLX,downstream_gene_variant,,ENST00000246912,NM_170607.2;MLX,downstream_gene_variant,,ENST00000435881,NM_198204.1;MLX,downstream_gene_variant,,ENST00000346833,NM_198205.1;FAM134C,downstream_gene_variant,,ENST00000585894,;FAM134C,downstream_gene_variant,,ENST00000543197,;PSMC3IP,upstream_gene_variant,,ENST00000393795,NM_001256016.1,NM_016556.3,NM_001256015.1;PSMC3IP,upstream_gene_variant,,ENST00000253789,NM_013290.6;PSMC3IP,upstream_gene_variant,,ENST00000587209,NM_001256014.1;PSMC3IP,upstream_gene_variant,,ENST00000590760,;FAM134C,downstream_gene_variant,,ENST00000589797,;MLX,downstream_gene_variant,,ENST00000590050,;FAM134C,downstream_gene_variant,,ENST00000586870,;PSMC3IP,upstream_gene_variant,,ENST00000589505,;PSMC3IP,upstream_gene_variant,,ENST00000590931,;PSMC3IP,upstream_gene_variant,,ENST00000588544,;PSMC3IP,upstream_gene_variant,,ENST00000587268,;PSMC3IP,upstream_gene_variant,,ENST00000586337,;FAM134C,downstream_gene_variant,,ENST00000589007,;"	"A"	"ENSG00000141699"	"ENST00000309428"	"Transcript"	"downstream_gene_variant"	"-/3759"	"-/1401"	"-/466"	""	""	""	"1"	"1318"	-1	"FAM134C"	"HGNC"	27258	"protein_coding"	"YES"	"CCDS11432.1"	"ENSP00000309432"	"Q86VR2"	"K7EQI9,K7ENZ6,K7EJ42,B3KR75"	"UPI0000171C73"	"NM_178126.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c26ce2fe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29126213592233	"WGS"	FALSE
"11057"	"RPL27"	6155	"mskcc.org"	"GRCh37"	"17"	41154059	41154059	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs777346329"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.252-631C>T"	""	""	"ENST00000589913"	""	112	"101"	11	49	"49"	0	"RPL27,intron_variant,,ENST00000589913,;RPL27,intron_variant,,ENST00000589037,;RPL27,intron_variant,,ENST00000590864,;RPL27,intron_variant,,ENST00000253788,NM_000988.3;RPL27,intron_variant,,ENST00000586277,;IFI35,upstream_gene_variant,,ENST00000415816,NM_005533.4;IFI35,upstream_gene_variant,,ENST00000438323,;Y_RNA,upstream_gene_variant,,ENST00000363257,;IFI35,upstream_gene_variant,,ENST00000536969,;RPL27,intron_variant,,ENST00000593262,;RPL27,intron_variant,,ENST00000588830,;IFI35,upstream_gene_variant,,ENST00000246911,;IFI35,upstream_gene_variant,,ENST00000396722,;RPL27,downstream_gene_variant,,ENST00000587478,;"	"T"	"ENSG00000131469"	"ENST00000589913"	"Transcript"	"intron_variant"	"-/697"	"-/411"	"-/136"	""	""	"rs777346329"	"1"	NA	1	"RPL27"	"HGNC"	10328	"protein_coding"	"YES"	"CCDS11449.1"	"ENSP00000464813"	"P61353"	"Q6LCU2,K7EQQ9"	"UPI00000002E0"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c26d17d8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0982142857142857	"WGS"	FALSE
"11058"	"NBR1"	4077	"mskcc.org"	"GRCh37"	"17"	41344194	41344194	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1073+596T>C"	""	""	"ENST00000422280"	""	95	"87"	8	40	"40"	0	"NBR1,intron_variant,,ENST00000422280,NM_031858.2;NBR1,intron_variant,,ENST00000341165,NM_031862.2;NBR1,intron_variant,,ENST00000389312,;NBR1,intron_variant,,ENST00000590996,NM_005899.3;NBR1,intron_variant,,ENST00000589872,;NBR1,intron_variant,,ENST00000542611,;NBR1,intron_variant,,ENST00000585505,;"	"C"	"ENSG00000188554"	"ENST00000422280"	"Transcript"	"intron_variant"	"-/4973"	"-/2901"	"-/966"	""	""	""	"1"	NA	1	"NBR1"	"HGNC"	6746	"protein_coding"	"YES"	"CCDS45694.1"	"ENSP00000411250"	"Q14596"	"Q3LRK1,Q3LRJ8,Q3LRJ5,Q3LRI9,Q3LRI6,Q3LRI0,B7Z4J4"	"UPI0000161BF3"	"NM_031858.2"	""	""	""	"10/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c26d26d8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0842105263157895	"WGS"	FALSE
"11059"	"RP11-392O1.4"	0	"mskcc.org"	"GRCh37"	"17"	41667319	41667319	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.32-137G>A"	""	""	"ENST00000588996"	""	98	"90"	8	42	"42"	0	"RP11-392O1.4,intron_variant,,ENST00000588996,;"	"A"	"ENSG00000267747"	"ENST00000588996"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/561"	""	""	""	""	""	"1"	NA	1	"RP11-392O1.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c26d499c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WGS"	FALSE
"11060"	"GJC1"	10052	"mskcc.org"	"GRCh37"	"17"	42880227	42880227	"+"	"3'UTR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1768G>A"	""	""	"ENST00000426548"	"3/3"	88	"66"	22	52	"51"	1	"GJC1,3_prime_UTR_variant,,ENST00000426548,NM_001080383.1,NM_005497.3;GJC1,intron_variant,,ENST00000587113,;GJC1,downstream_gene_variant,,ENST00000330514,;GJC1,downstream_gene_variant,,ENST00000592524,;GJC1,downstream_gene_variant,,ENST00000590758,;GJC1,downstream_gene_variant,,ENST00000591424,;GJC1,downstream_gene_variant,,ENST00000587239,;GJC1,downstream_gene_variant,,ENST00000586347,;GJC1,downstream_gene_variant,,ENST00000586267,;"	"T"	"ENSG00000182963"	"ENST00000426548"	"Transcript"	"3_prime_UTR_variant"	"3229/7640"	"-/1191"	"-/396"	""	""	""	"1"	NA	-1	"GJC1"	"HGNC"	4280	"protein_coding"	"YES"	"CCDS11487.1"	"ENSP00000411528"	"P36383"	"Q5H9P2,K7EQ14,K7ENT9,K7EM78"	"UPI000013C62A"	"NM_001080383.1,NM_005497.3"	""	""	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c26df888-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"11061"	"HEXIM1"	10614	"mskcc.org"	"GRCh37"	"17"	43224428	43224428	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000332499"	""	89	"65"	24	57	"57"	0	"HEXIM1,upstream_gene_variant,,ENST00000332499,NM_006460.2;ACBD4,downstream_gene_variant,,ENST00000431281,NM_001135704.1;ACBD4,downstream_gene_variant,,ENST00000591859,;ACBD4,downstream_gene_variant,,ENST00000398322,NM_024722.2;ACBD4,downstream_gene_variant,,ENST00000321854,NM_001135705.1;ACBD4,downstream_gene_variant,,ENST00000592162,;ACBD4,downstream_gene_variant,,ENST00000586346,NM_001135706.1;ACBD4,downstream_gene_variant,,ENST00000376955,NM_001135707.1;AC002117.1,downstream_gene_variant,,ENST00000589950,;AC002117.1,downstream_gene_variant,,ENST00000452741,;ACBD4,downstream_gene_variant,,ENST00000585553,;"	"T"	"ENSG00000186834"	"ENST00000332499"	"Transcript"	"upstream_gene_variant"	"-/4785"	"-/1080"	"-/359"	""	""	""	"1"	"256"	1	"HEXIM1"	"HGNC"	24953	"protein_coding"	"YES"	"CCDS11495.1"	"ENSP00000328773"	"O94992"	""	"UPI000006E405"	"NM_006460.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c26e2510-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269662921348315	"WGS"	FALSE
"11062"	"MAPT"	4137	"mskcc.org"	"GRCh37"	"17"	44078082	44078082	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1827+4052C>A"	""	""	"ENST00000344290"	""	86	"60"	26	62	"62"	0	"MAPT,intron_variant,,ENST00000344290,NM_001123066.3;MAPT,intron_variant,,ENST00000576518,;MAPT,intron_variant,,ENST00000262410,NM_016835.4;MAPT,intron_variant,,ENST00000351559,NM_005910.5;MAPT,intron_variant,,ENST00000340799,NM_001123067.3,NM_016834.4;MAPT,intron_variant,,ENST00000535772,NM_001203252.1,NM_001203251.1;MAPT,intron_variant,,ENST00000347967,;MAPT,intron_variant,,ENST00000446361,;MAPT,intron_variant,,ENST00000415613,;MAPT,intron_variant,,ENST00000571987,;MAPT,intron_variant,,ENST00000574436,;MAPT,intron_variant,,ENST00000420682,;MAPT,intron_variant,,ENST00000431008,;MAPT,intron_variant,,ENST00000334239,NM_016841.4;STH,downstream_gene_variant,,ENST00000537309,NM_001007532.2;MAPT,intron_variant,,ENST00000570299,;"	"A"	"ENSG00000186868"	"ENST00000344290"	"Transcript"	"intron_variant"	"-/6816"	"-/2331"	"-/776"	""	""	""	"1"	NA	1	"MAPT"	"HGNC"	6893	"protein_coding"	"YES"	"CCDS45715.1"	"ENSP00000340820"	"P10636"	""	"UPI0001AE66E9"	"NM_001123066.3"	""	""	""	"11/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"c26e8c8a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302325581395349	"WGS"	FALSE
"11063"	"SKAP1"	8631	"mskcc.org"	"GRCh37"	"17"	46306353	46306353	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.281-39491G>T"	""	""	"ENST00000336915"	""	71	"57"	14	41	"41"	0	"SKAP1,intron_variant,,ENST00000336915,NM_003726.3,NM_001075099.1;SKAP1,intron_variant,,ENST00000584924,;SKAP1,intron_variant,,ENST00000584709,;SKAP1,intron_variant,,ENST00000581400,;SKAP1,intron_variant,,ENST00000581419,;"	"A"	"ENSG00000141293"	"ENST00000336915"	"Transcript"	"intron_variant"	"-/1534"	"-/1080"	"-/359"	""	""	""	"1"	NA	-1	"SKAP1"	"HGNC"	15605	"protein_coding"	"YES"	"CCDS32674.1"	"ENSP00000338171"	"Q86WV1"	"J3QS38,J3QRG3"	"UPI0000200EFD"	"NM_003726.3,NM_001075099.1"	""	""	""	"4/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c26f59c6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197183098591549	"WGS"	FALSE
"11064"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	46754187	46754187	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"71"	36	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c26f7834-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336448598130841	"WGS"	FALSE
"11065"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	46817189	46817189	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"50"	33	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c26f7e56-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.397590361445783	"WGS"	FALSE
"11066"	"RP11-304F15.6"	0	"mskcc.org"	"GRCh37"	"17"	47987574	47987574	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000518420"	""	92	"70"	22	37	"37"	0	"RP11-304F15.6,upstream_gene_variant,,ENST00000518420,;"	"C"	"ENSG00000254039"	"ENST00000518420"	"Transcript"	"upstream_gene_variant"	"-/395"	""	""	""	""	""	"1"	"4193"	1	"RP11-304F15.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c26ffc82-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239130434782609	"WGS"	FALSE
"11067"	"ITGA3"	3675	"mskcc.org"	"GRCh37"	"17"	48163461	48163461	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"rs572024907"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2920-1647G>T"	""	""	"ENST00000007722"	""	27	"23"	4	18	"18"	0	"ITGA3,intron_variant,,ENST00000320031,NM_002204.2,NM_005501.2;ITGA3,intron_variant,,ENST00000007722,;ITGA3,intron_variant,,ENST00000506827,;ITGA3,intron_variant,,ENST00000505306,;ITGA3,upstream_gene_variant,,ENST00000506437,;ITGA3,upstream_gene_variant,,ENST00000514834,;ITGA3,downstream_gene_variant,,ENST00000504417,;"	"T"	"ENSG00000005884"	"ENST00000007722"	"Transcript"	"intron_variant"	"-/3665"	"-/3201"	"-/1066"	""	""	"rs572024907"	"1"	NA	1	"ITGA3"	"HGNC"	6139	"protein_coding"	"YES"	"CCDS11557.1"	"ENSP00000007722"	"P26006"	"Q86SW1"	"UPI0000140781"	""	""	""	""	"23/24"	""	"T:0.0052"	"T:0.0076"	"T:0.0043"	NA	"T:0.004"	"T:0.004"	"T:0.0051"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"c2700fe2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"11068"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	51786693	51786693	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"83"	13	67	"67"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c27115e0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135416666666667	"WGS"	FALSE
"11069"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	52392599	52392599	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"83"	7	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c271277e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0777777777777778	"WGS"	FALSE
"11070"	"PCTP"	58488	"mskcc.org"	"GRCh37"	"17"	53859773	53859773	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.579+7553C>T"	""	""	"ENST00000573500"	""	101	"70"	31	66	"66"	0	"PCTP,intron_variant,,ENST00000573500,;PCTP,intron_variant,,ENST00000572536,;PCTP,intron_variant,,ENST00000576221,;"	"T"	"ENSG00000141179"	"ENST00000573500"	"Transcript"	"intron_variant"	"-/919"	"-/660"	"-/219"	""	""	""	"1"	NA	1	"PCTP"	"HGNC"	8752	"protein_coding"	""	""	"ENSP00000460437"	""	"I3L3H0"	"UPI000040B041"	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c2716b12-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306930693069307	"WGS"	FALSE
"11071"	"COIL"	8161	"mskcc.org"	"GRCh37"	"17"	55021728	55021728	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1558+2075T>A"	""	""	"ENST00000240316"	""	99	"94"	5	51	"51"	0	"COIL,intron_variant,,ENST00000240316,NM_004645.2;RP5-1107A17.3,downstream_gene_variant,,ENST00000572187,;"	"T"	"ENSG00000121058"	"ENST00000240316"	"Transcript"	"intron_variant"	"-/2650"	"-/1731"	"-/576"	""	""	""	"1"	NA	-1	"COIL"	"HGNC"	2184	"protein_coding"	"YES"	"CCDS11592.1"	"ENSP00000240316"	"P38432"	""	"UPI0000131068"	"NM_004645.2"	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c271c292-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0505050505050505	"WGS"	FALSE
"11072"	"CLTC"	1213	"mskcc.org"	"GRCh37"	"17"	57731758	57731758	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.796-1457C>T"	""	""	"ENST00000269122"	""	85	"78"	7	49	"49"	0	"CLTC,intron_variant,,ENST00000269122,NM_004859.3,NM_001288653.1;CLTC,intron_variant,,ENST00000393043,;CLTC,intron_variant,,ENST00000579456,;CLTC,intron_variant,,ENST00000472129,;CLTC,upstream_gene_variant,,ENST00000483176,;CLTC,downstream_gene_variant,,ENST00000584313,;"	"T"	"ENSG00000141367"	"ENST00000269122"	"Transcript"	"intron_variant"	"-/7760"	"-/5028"	"-/1675"	""	""	""	"1"	NA	1	"CLTC"	"HGNC"	2092	"protein_coding"	"YES"	"CCDS32696.1"	"ENSP00000269122"	"Q00610"	"Q49AL0"	"UPI0000127ABD"	"NM_004859.3,NM_001288653.1"	""	""	""	"5/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"c272b0da-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0823529411764706	"WGS"	TRUE
"11073"	"RP11-178C3.2"	101927755	"mskcc.org"	"GRCh37"	"17"	58067475	58067475	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.159-2774T>G"	""	""	"ENST00000586209"	""	83	"76"	7	37	"37"	0	"TBC1D3P1-DHX40P1,intron_variant,,ENST00000587125,;RP11-178C3.2,intron_variant,,ENST00000586209,;DHX40P1,intron_variant,,ENST00000588725,;"	"G"	"ENSG00000267302"	"ENST00000586209"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1603"	""	""	""	""	""	"1"	NA	1	"RP11-178C3.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c272de34-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"11074"	"BCAS3"	54828	"mskcc.org"	"GRCh37"	"17"	59007857	59007857	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1087+5996G>A"	""	""	"ENST00000390652"	""	100	"73"	27	66	"64"	2	"BCAS3,intron_variant,,ENST00000589222,;BCAS3,intron_variant,,ENST00000588462,;BCAS3,intron_variant,,ENST00000390652,NM_001099432.1;BCAS3,intron_variant,,ENST00000408905,;BCAS3,intron_variant,,ENST00000407086,NM_017679.3;BCAS3,intron_variant,,ENST00000588874,;BCAS3,intron_variant,,ENST00000585744,;BCAS3,intron_variant,,ENST00000586484,;BCAS3,intron_variant,,ENST00000590128,;BCAS3,intron_variant,,ENST00000586705,;BCAS3,intron_variant,,ENST00000586041,;"	"A"	"ENSG00000141376"	"ENST00000390652"	"Transcript"	"intron_variant"	"-/3531"	"-/2787"	"-/928"	""	""	""	"1"	NA	1	"BCAS3"	"HGNC"	14347	"protein_coding"	"YES"	"CCDS45749.1"	"ENSP00000375067"	"Q9H6U6"	"K7ESE9,K7EML5,K7EKB0,K7EJU7,K7EJH7"	"UPI00001AE949"	"NM_001099432.1"	""	""	""	"13/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c2733474-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27	"WGS"	FALSE
"11075"	"BCAS3"	54828	"mskcc.org"	"GRCh37"	"17"	59271067	59271067	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2470+109142G>A"	""	""	"ENST00000390652"	""	50	"43"	7	27	"27"	0	"BCAS3,intron_variant,,ENST00000589222,;BCAS3,intron_variant,,ENST00000588462,;BCAS3,intron_variant,,ENST00000390652,NM_001099432.1;BCAS3,intron_variant,,ENST00000408905,;BCAS3,intron_variant,,ENST00000407086,NM_017679.3;BCAS3,intron_variant,,ENST00000588874,;BCAS3,intron_variant,,ENST00000585744,;BCAS3,intron_variant,,ENST00000587002,;BCAS3,intron_variant,,ENST00000585812,;BCAS3,intron_variant,,ENST00000587294,;BCAS3,intron_variant,,ENST00000585979,;"	"A"	"ENSG00000141376"	"ENST00000390652"	"Transcript"	"intron_variant"	"-/3531"	"-/2787"	"-/928"	""	""	""	"1"	NA	1	"BCAS3"	"HGNC"	14347	"protein_coding"	"YES"	"CCDS45749.1"	"ENSP00000375067"	"Q9H6U6"	"K7ESE9,K7EML5,K7EKB0,K7EJU7,K7EJH7"	"UPI00001AE949"	"NM_001099432.1"	""	""	""	"23/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c2733f46-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.14	"WGS"	FALSE
"11076"	"EFCAB3"	146779	"mskcc.org"	"GRCh37"	"17"	60443818	60443818	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"rs74638919"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000450662"	""	80	"58"	22	60	"60"	0	"EFCAB3,upstream_gene_variant,,ENST00000450662,NM_001144933.1;"	"A"	"ENSG00000172421"	"ENST00000450662"	"Transcript"	"upstream_gene_variant"	"-/1691"	"-/1473"	"-/490"	""	""	"rs74638919"	"1"	"3761"	1	"EFCAB3"	"HGNC"	26379	"protein_coding"	"YES"	"CCDS45751.1"	"ENSP00000403932"	"Q8N7B9"	"E5RJB7,E5RHB1"	"UPI0001929531"	"NM_001144933.1"	""	""	""	""	""	"A:0.0148"	"A:0"	"A:0"	NA	"A:0.0724"	"A:0"	"A:0.001"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c2738dde-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275	"WGS"	FALSE
"11077"	"TANC2"	26115	"mskcc.org"	"GRCh37"	"17"	61084225	61084225	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000424789"	""	95	"89"	6	57	"57"	0	"TANC2,upstream_gene_variant,,ENST00000424789,NM_025185.3;TANC2,upstream_gene_variant,,ENST00000389520,;RP11-180P8.5,upstream_gene_variant,,ENST00000606304,;"	"G"	"ENSG00000170921"	"ENST00000424789"	"Transcript"	"upstream_gene_variant"	"-/11721"	"-/5973"	"-/1990"	""	""	""	"1"	"2692"	1	"TANC2"	"HGNC"	30212	"protein_coding"	"YES"	"CCDS45754.1"	"ENSP00000387593"	"Q9HCD6"	""	"UPI00015D57DF"	"NM_025185.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c273d118-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0631578947368421	"WGS"	FALSE
"11078"	"AXIN2"	8313	"mskcc.org"	"GRCh37"	"17"	63559651	63559651	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000307078"	""	68	"63"	5	33	"33"	0	"AXIN2,upstream_gene_variant,,ENST00000307078,NM_004655.3;AXIN2,upstream_gene_variant,,ENST00000375702,;AXIN2,upstream_gene_variant,,ENST00000580513,;AXIN2,upstream_gene_variant,,ENST00000585045,;AXIN2,upstream_gene_variant,,ENST00000577278,;AXIN2,upstream_gene_variant,,ENST00000544103,;CTD-2535L24.2,intron_variant,,ENST00000577662,;"	"A"	"ENSG00000168646"	"ENST00000307078"	"Transcript"	"upstream_gene_variant"	"-/4259"	"-/2532"	"-/843"	""	""	""	"1"	"1886"	-1	"AXIN2"	"HGNC"	904	"protein_coding"	"YES"	"CCDS11662.1"	"ENSP00000302625"	"Q9Y2T1"	"J3QRK4,J3QQJ3,F5GX43"	"UPI00001AEE5A"	"NM_004655.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"c274a886-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0735294117647059	"WGS"	TRUE
"11079"	"PITPNC1"	26207	"mskcc.org"	"GRCh37"	"17"	65426412	65426412	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.48+52094A>G"	""	""	"ENST00000581322"	""	83	"74"	9	42	"42"	0	"PITPNC1,intron_variant,,ENST00000580974,NM_012417.3,NM_181671.2;PITPNC1,intron_variant,,ENST00000299954,;PITPNC1,intron_variant,,ENST00000335257,;PITPNC1,intron_variant,,ENST00000581322,;PITPNC1,intron_variant,,ENST00000584471,;"	"G"	"ENSG00000154217"	"ENST00000581322"	"Transcript"	"intron_variant"	"-/1124"	"-/999"	"-/332"	""	""	""	"1"	NA	1	"PITPNC1"	"HGNC"	21045	"protein_coding"	"YES"	"CCDS58588.1"	"ENSP00000464006"	""	"J3QS95,J3QRS7,J3QR20"	"UPI00001AE46B"	""	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c27671c0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108433734939759	"WGS"	FALSE
"11080"	"BPTF"	2186	"mskcc.org"	"GRCh37"	"17"	65930004	65930004	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6259+1869A>T"	""	""	"ENST00000306378"	""	62	"56"	6	47	"47"	0	"BPTF,intron_variant,,ENST00000321892,;BPTF,intron_variant,,ENST00000335221,NM_004459.6;BPTF,intron_variant,,ENST00000306378,NM_182641.3;BPTF,intron_variant,,ENST00000424123,;BPTF,intron_variant,,ENST00000544778,;BPTF,intron_variant,,ENST00000582467,;BPTF,upstream_gene_variant,,ENST00000577770,;"	"T"	"ENSG00000171634"	"ENST00000306378"	"Transcript"	"intron_variant"	"-/9688"	"-/8763"	"-/2920"	""	""	""	"1"	NA	1	"BPTF"	"HGNC"	3581	"protein_coding"	"YES"	"CCDS11673.1"	"ENSP00000307208"	"Q12830"	""	"UPI00002263BF"	"NM_182641.3"	""	""	""	"18/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c276a334-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"11081"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	65997887	65997887	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"62"	6	38	"38"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c276b3ba-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"11082"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	66001532	66001532	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"66"	8	32	"32"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c276b9be-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"11083"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	66001868	66001868	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	35	"29"	6	23	"23"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c276ba9a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171428571428571	"WGS"	FALSE
"11084"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	66205936	66205936	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"69"	6	44	"44"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c276d214-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"11085"	"KCNJ16"	3773	"mskcc.org"	"GRCh37"	"17"	68106580	68106580	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-191+2058T>C"	""	""	"ENST00000392670"	""	83	"62"	21	68	"68"	0	"KCNJ16,intron_variant,,ENST00000585558,;KCNJ16,intron_variant,,ENST00000392670,;KCNJ16,intron_variant,,ENST00000283936,NM_018658.2;KCNJ16,intron_variant,,ENST00000392671,NM_170741.2;KCNJ16,intron_variant,,ENST00000589377,NM_001270422.1;KCNJ16,intron_variant,,ENST00000586462,;KCNJ16,intron_variant,,ENST00000587698,;KCNJ16,intron_variant,,ENST00000587892,;KCNJ16,intron_variant,,ENST00000591891,;AC002539.1,intron_variant,,ENST00000435112,;"	"C"	"ENSG00000153822"	"ENST00000392670"	"Transcript"	"intron_variant"	"-/4009"	"-/1257"	"-/418"	""	""	""	"1"	NA	1	"KCNJ16"	"HGNC"	6262	"protein_coding"	"YES"	"CCDS11687.1"	"ENSP00000376438"	"Q9NPI9"	"K7ELL5,K7EKJ4"	"UPI000012D8B3"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c27746fe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253012048192771	"WGS"	FALSE
"11086"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	69407083	69407083	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"97"	6	65	"65"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c277a072-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.058252427184466	"WGS"	FALSE
"11087"	"ENSR00001537879"	0	"mskcc.org"	"GRCh37"	"17"	69409983	69409983	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001537879"	""	90	"69"	21	60	"60"	0	""	"A"	""	"ENSR00001537879"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c277a144-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WGS"	FALSE
"11088"	"SLC39A11"	201266	"mskcc.org"	"GRCh37"	"17"	70760085	70760085	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.623-27227G>T"	""	""	"ENST00000542342"	""	81	"57"	24	51	"51"	0	"SLC39A11,intron_variant,,ENST00000542342,NM_001159770.1;SLC39A11,intron_variant,,ENST00000255559,NM_139177.3;SLC39A11,intron_variant,,ENST00000582769,;SLC39A11,intron_variant,,ENST00000581581,;SLC39A11,intron_variant,,ENST00000579319,;"	"A"	"ENSG00000133195"	"ENST00000542342"	"Transcript"	"intron_variant"	"-/2752"	"-/1029"	"-/342"	""	""	""	"1"	NA	-1	"SLC39A11"	"HGNC"	14463	"protein_coding"	"YES"	"CCDS54160.1"	"ENSP00000445829"	"Q8N1S5"	"J3QLA9,J3KT59,J3KRI1"	"UPI000020017B"	"NM_001159770.1"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c2780bd4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"11089"	"RP11-101O21.1"	0	"mskcc.org"	"GRCh37"	"17"	72139700	72139700	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs763606840"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.163+10489C>T"	""	""	"ENST00000584003"	""	89	"58"	31	60	"60"	0	"RP11-101O21.1,intron_variant,,ENST00000584003,;"	"A"	"ENSG00000266357"	"ENST00000584003"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/573"	""	""	""	""	"rs763606840"	"1"	NA	-1	"RP11-101O21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c2788d8e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.348314606741573	"WGS"	FALSE
"11090"	"GRB2"	2885	"mskcc.org"	"GRCh37"	"17"	73403603	73403603	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000392562"	""	90	"82"	8	37	"37"	0	"GRB2,upstream_gene_variant,,ENST00000392562,;GRB2,upstream_gene_variant,,ENST00000316804,NM_002086.4;GRB2,upstream_gene_variant,,ENST00000316615,NM_203506.2;RNU6-938P,downstream_gene_variant,,ENST00000411285,;MIR3678,downstream_gene_variant,,ENST00000578455,;GRB2,upstream_gene_variant,,ENST00000577711,;"	"C"	"ENSG00000177885"	"ENST00000392562"	"Transcript"	"upstream_gene_variant"	"-/3729"	"-/654"	"-/217"	""	""	""	"1"	"2036"	-1	"GRB2"	"HGNC"	4566	"protein_coding"	"YES"	"CCDS11721.1"	"ENSP00000376345"	"P62993"	"J3KT38,B0LPF3"	"UPI000004EF93"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c27924a6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"11091"	"KIAA0195"	9772	"mskcc.org"	"GRCh37"	"17"	73470024	73470024	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.24+2014C>T"	""	""	"ENST00000314256"	""	92	"84"	8	62	"62"	0	"KIAA0195,intron_variant,,ENST00000314256,NM_014738.4;KIAA0195,intron_variant,,ENST00000579208,;KIAA0195,intron_variant,,ENST00000582186,;KIAA0195,intron_variant,,ENST00000582455,;KIAA0195,intron_variant,,ENST00000577380,;KIAA0195,intron_variant,,ENST00000581519,;KIAA0195,intron_variant,,ENST00000581252,;KIAA0195,upstream_gene_variant,,ENST00000375248,;KIAA0195,intron_variant,,ENST00000580416,;KIAA0195,intron_variant,,ENST00000581085,;KIAA0195,intron_variant,,ENST00000585277,;KIAA0195,upstream_gene_variant,,ENST00000585105,;KIAA0195,upstream_gene_variant,,ENST00000579707,;"	"T"	"ENSG00000177728"	"ENST00000314256"	"Transcript"	"intron_variant"	"-/5213"	"-/4071"	"-/1356"	""	""	""	"1"	NA	1	"KIAA0195"	"HGNC"	28983	"protein_coding"	"YES"	"CCDS32732.1"	"ENSP00000313885"	"Q12767"	"J3QS17,J3QRT3,J3QLM7,J3KT63,J3KRU7"	"UPI0000139439"	"NM_014738.4"	""	""	""	"2/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c2793270-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"11092"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	74976954	74976954	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"77"	7	51	"51"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c279f5de-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"11093"	"AC015815.5"	0	"mskcc.org"	"GRCh37"	"17"	75079734	75079734	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366146"	""	87	"63"	24	40	"40"	0	"LINC00338,upstream_gene_variant,,ENST00000568363,;SEC14L1,upstream_gene_variant,,ENST00000564414,;SEC14L1,upstream_gene_variant,,ENST00000568056,;AC015815.5,upstream_gene_variant,,ENST00000366146,;AC015815.3,upstream_gene_variant,,ENST00000366144,;AC015815.4,downstream_gene_variant,,ENST00000366145,;"	"T"	"ENSG00000203318"	"ENST00000366146"	"Transcript"	"upstream_gene_variant"	"-/132"	""	""	""	""	""	"1"	"2884"	-1	"AC015815.5"	"Clone_based_ensembl_gene"	NA	"pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c279ffc0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275862068965517	"WGS"	FALSE
"11094"	"USP36"	57602	"mskcc.org"	"GRCh37"	"17"	76794060	76794060	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*21-99A>C"	""	""	"ENST00000542802"	""	100	"71"	29	52	"52"	0	"USP36,3_prime_UTR_variant,,ENST00000312010,NM_025090.3;USP36,intron_variant,,ENST00000542802,;USP36,intron_variant,,ENST00000449938,;USP36,intron_variant,,ENST00000592231,;USP36,intron_variant,,ENST00000588130,;USP36,upstream_gene_variant,,ENST00000592326,;USP36,3_prime_UTR_variant,,ENST00000589225,;USP36,intron_variant,,ENST00000587010,;USP36,intron_variant,,ENST00000587379,;USP36,intron_variant,,ENST00000591052,;USP36,downstream_gene_variant,,ENST00000588086,;"	"G"	"ENSG00000055483"	"ENST00000542802"	"Transcript"	"intron_variant"	"-/6063"	"-/3372"	"-/1123"	""	""	""	"1"	NA	-1	"USP36"	"HGNC"	20062	"protein_coding"	"YES"	"CCDS32755.1"	"ENSP00000441214"	"Q9P275"	"K7ERC1,K7EQS0,K7EPT1,K7ELT3,K7EJI3"	"UPI00000398BB"	""	""	""	""	"20/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c27ad044-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29	"WGS"	FALSE
"11095"	"BAIAP2"	10458	"mskcc.org"	"GRCh37"	"17"	79046301	79046301	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.218-12331C>T"	""	""	"ENST00000321300"	""	88	"67"	21	40	"40"	0	"BAIAP2,intron_variant,,ENST00000321300,NM_001144888.1,NM_017451.2;BAIAP2,intron_variant,,ENST00000575712,;BAIAP2,intron_variant,,ENST00000575245,;BAIAP2,intron_variant,,ENST00000435091,NM_006340.2;BAIAP2,intron_variant,,ENST00000428708,;BAIAP2,intron_variant,,ENST00000321280,NM_017450.2;BAIAP2,intron_variant,,ENST00000392411,;BAIAP2,intron_variant,,ENST00000572073,;BAIAP2,intron_variant,,ENST00000573677,;BAIAP2,intron_variant,,ENST00000572918,;BAIAP2,intron_variant,,ENST00000571530,;BAIAP2,intron_variant,,ENST00000573659,;BAIAP2,intron_variant,,ENST00000575958,;BAIAP2,intron_variant,,ENST00000575989,;BAIAP2,intron_variant,,ENST00000573894,;BAIAP2,intron_variant,,ENST00000573017,;BAIAP2,intron_variant,,ENST00000570913,;BAIAP2,intron_variant,,ENST00000576364,;BAIAP2,intron_variant,,ENST00000572329,;BAIAP2,intron_variant,,ENST00000574804,;BAIAP2,intron_variant,,ENST00000576470,;BAIAP2,intron_variant,,ENST00000575750,;"	"T"	"ENSG00000175866"	"ENST00000321300"	"Transcript"	"intron_variant"	"-/2879"	"-/1659"	"-/552"	""	""	""	"1"	NA	1	"BAIAP2"	"HGNC"	947	"protein_coding"	"YES"	"CCDS11775.1"	"ENSP00000316338"	"Q9UQB8"	"I3L526,I3L327,I3L2M4,I3L1C8,I3L125,I3L113,I3L0Y9,I3L0M4"	"UPI000000D762"	"NM_001144888.1,NM_017451.2"	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c27c51e4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238636363636364	"WGS"	FALSE
"11096"	"CCDC57"	284001	"mskcc.org"	"GRCh37"	"17"	80124209	80124209	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1883-2976T>A"	""	""	"ENST00000392343"	""	72	"67"	5	44	"44"	0	"CCDC57,intron_variant,,ENST00000389641,;CCDC57,intron_variant,,ENST00000392347,NM_198082.2;CCDC57,intron_variant,,ENST00000392343,;CCDC57,intron_variant,,ENST00000419322,;CCDC57,intron_variant,,ENST00000327026,;CCDC57,intron_variant,,ENST00000577530,;"	"T"	"ENSG00000176155"	"ENST00000392343"	"Transcript"	"intron_variant"	"-/2896"	"-/2256"	"-/751"	""	""	""	"1"	NA	-1	"CCDC57"	"HGNC"	27564	"protein_coding"	"YES"	""	"ENSP00000376154"	"Q2TAC2"	""	"UPI000022A20F"	""	""	""	""	"13/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c27d29de-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0694444444444444	"WGS"	FALSE
"11097"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	80471760	80471760	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"78"	10	38	"38"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c27e0610-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WGS"	FALSE
"11098"	"RAB40B"	10966	"mskcc.org"	"GRCh37"	"17"	80643163	80643163	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.142+13168C>T"	""	""	"ENST00000571995"	""	63	"44"	19	41	"41"	0	"RAB40B,intron_variant,,ENST00000571995,NM_006822.2;RAB40B,intron_variant,,ENST00000269347,;RAB40B,intron_variant,,ENST00000538809,;RAB40B,intron_variant,,ENST00000571554,;RAB40B,intron_variant,,ENST00000572603,;"	"A"	"ENSG00000141542"	"ENST00000571995"	"Transcript"	"intron_variant"	"-/3859"	"-/837"	"-/278"	""	""	""	"1"	NA	-1	"RAB40B"	"HGNC"	18284	"protein_coding"	"YES"	"CCDS11816.1"	"ENSP00000461785"	"Q12829"	"J3KN64"	"UPI0000133001"	"NM_006822.2"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c27e3860-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301587301587302	"WGS"	FALSE
"11099"	"CETN1"	1068	"mskcc.org"	"GRCh37"	"18"	581351	581351	"+"	"3'UTR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*424G>A"	""	""	"ENST00000327228"	"1/1"	106	"81"	25	65	"65"	0	"CETN1,3_prime_UTR_variant,,ENST00000327228,NM_004066.1;"	"A"	"ENSG00000177143"	"ENST00000327228"	"Transcript"	"3_prime_UTR_variant"	"985/1158"	"-/519"	"-/172"	""	""	""	"1"	NA	1	"CETN1"	"HGNC"	1866	"protein_coding"	"YES"	"CCDS11820.1"	"ENSP00000319052"	"Q12798"	""	"UPI0000127517"	"NM_004066.1"	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c27f9fac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235849056603774	"WGS"	FALSE
"11100"	"METTL4"	64863	"mskcc.org"	"GRCh37"	"18"	2547006	2547006	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1074+348C>T"	""	""	"ENST00000574538"	""	83	"55"	28	47	"47"	0	"METTL4,intron_variant,,ENST00000319888,;METTL4,intron_variant,,ENST00000574538,NM_022840.3;METTL4,intron_variant,,ENST00000576251,;METTL4,intron_variant,,ENST00000573134,;"	"A"	"ENSG00000101574"	"ENST00000574538"	"Transcript"	"intron_variant"	"-/2742"	"-/1419"	"-/472"	""	""	""	"1"	NA	-1	"METTL4"	"HGNC"	24726	"protein_coding"	"YES"	"CCDS11826.1"	"ENSP00000458290"	"Q8N3J2"	"I3L4A0,I3L0Y1"	"UPI000020191B"	"NM_022840.3"	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c28015ae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337349397590361	"WGS"	FALSE
"11101"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	5342322	5342322	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"99"	7	60	"60"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c280df3e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0660377358490566	"WGS"	FALSE
"11102"	"RALBP1"	10928	"mskcc.org"	"GRCh37"	"18"	9482187	9482187	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-56+7013A>C"	""	""	"ENST00000019317"	""	98	"69"	29	71	"71"	0	"RALBP1,intron_variant,,ENST00000019317,;RALBP1,intron_variant,,ENST00000383432,NM_006788.3;RALBP1,intron_variant,,ENST00000458039,;RALBP1,intron_variant,,ENST00000585015,;RALBP1,intron_variant,,ENST00000577221,;"	"C"	"ENSG00000017797"	"ENST00000019317"	"Transcript"	"intron_variant"	"-/4368"	"-/1968"	"-/655"	""	""	""	"1"	NA	1	"RALBP1"	"HGNC"	9841	"protein_coding"	"YES"	"CCDS11845.1"	"ENSP00000019317"	"Q15311"	"Q59E87,J3QLT3,E7ENF8"	"UPI00000703A3"	""	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c281a6d0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295918367346939	"WGS"	FALSE
"11103"	"SPIRE1"	56907	"mskcc.org"	"GRCh37"	"18"	12576537	12576537	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.373-29634A>G"	""	""	"ENST00000409402"	""	52	"47"	5	24	"24"	0	"SPIRE1,intron_variant,,ENST00000409402,NM_001128626.1;SPIRE1,intron_variant,,ENST00000410092,NM_020148.2;SPIRE1,intron_variant,,ENST00000453447,NM_001128627.1;SPIRE1,intron_variant,,ENST00000383356,;SPIRE1,intron_variant,,ENST00000309836,;SPIRE1,intron_variant,,ENST00000449797,;SPIRE1,intron_variant,,ENST00000497844,;SPIRE1,intron_variant,,ENST00000462226,;SPIRE1,intron_variant,,ENST00000440472,;"	"C"	"ENSG00000134278"	"ENST00000409402"	"Transcript"	"intron_variant"	"-/5665"	"-/2271"	"-/756"	""	""	""	"1"	NA	-1	"SPIRE1"	"HGNC"	30622	"protein_coding"	"YES"	"CCDS45829.1"	"ENSP00000387266"	"Q08AE8"	"Q96AS4,K7EQR2,C9JYR7"	"UPI00001C1FFE"	"NM_001128626.1"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c282a3c8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0961538461538462	"WGS"	FALSE
"11104"	"RP11-411B10.8"	0	"mskcc.org"	"GRCh37"	"18"	14050094	14050094	"+"	"5'Flank"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000603126"	""	75	"51"	24	46	"46"	0	"RP11-411B10.8,upstream_gene_variant,,ENST00000603126,;"	"C"	"ENSG00000270469"	"ENST00000603126"	"Transcript"	"upstream_gene_variant"	"-/811"	""	""	""	""	""	"1"	"3856"	1	"RP11-411B10.8"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c2832424-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32	"WGS"	FALSE
"11105"	"ANKRD20A5P"	0	"mskcc.org"	"GRCh37"	"18"	14223425	14223425	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2027+1632C>T"	""	""	"ENST00000431648"	""	60	"52"	8	26	"26"	0	"ANKRD20A5P,upstream_gene_variant,,ENST00000577614,;ANKRD20A5P,downstream_gene_variant,,ENST00000580995,;ANKRD20A5P,downstream_gene_variant,,ENST00000583348,;ANKRD20A5P,intron_variant,,ENST00000431648,;ANKRD20A5P,upstream_gene_variant,,ENST00000427989,;RHOT1P1,downstream_gene_variant,,ENST00000582468,;"	"T"	"ENSG00000186481"	"ENST00000431648"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2472"	""	""	""	""	""	"1"	NA	1	"ANKRD20A5P"	"HGNC"	33833	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"15/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c28344cc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"11106"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	14284210	14284210	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	40	"33"	7	26	"26"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c2836768-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175	"WGS"	FALSE
"11107"	"CXADRP3"	440224	"mskcc.org"	"GRCh37"	"18"	14476362	14476362	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000581457"	""	97	"88"	9	68	"68"	0	"CXADRP3,downstream_gene_variant,,ENST00000581457,;"	"A"	"ENSG00000265766"	"ENST00000581457"	"Transcript"	"downstream_gene_variant"	"-/1955"	""	""	""	""	""	"1"	"1592"	-1	"CXADRP3"	"HGNC"	33974	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c2838130-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0927835051546392	"WGS"	FALSE
"11108"	"RP11-595B24.1"	0	"mskcc.org"	"GRCh37"	"18"	19609701	19609701	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.40-13477G>A"	""	""	"ENST00000584898"	""	74	"62"	12	40	"40"	0	"RP11-595B24.1,intron_variant,,ENST00000584898,;RP11-595B24.1,intron_variant,,ENST00000585185,;RP11-595B24.1,intron_variant,,ENST00000584028,;"	"A"	"ENSG00000265758"	"ENST00000584898"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/603"	""	""	""	""	""	"1"	NA	1	"RP11-595B24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c284ace0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162162162162162	"WGS"	FALSE
"11109"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	20630992	20630992	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"89"	7	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c284f006-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0729166666666667	"WGS"	FALSE
"11110"	"ANKRD29"	147463	"mskcc.org"	"GRCh37"	"18"	21184484	21184484	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs548246352"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.823-3211G>A"	""	""	"ENST00000592179"	""	121	"95"	26	44	"44"	0	"ANKRD29,intron_variant,,ENST00000592179,NM_173505.2;ANKRD29,intron_variant,,ENST00000284207,;ANKRD29,intron_variant,,ENST00000322980,;ANKRD29,intron_variant,,ENST00000591280,;ANKRD29,intron_variant,,ENST00000587763,;ANKRD29,intron_variant,,ENST00000591617,;"	"T"	"ENSG00000154065"	"ENST00000592179"	"Transcript"	"intron_variant"	"-/3361"	"-/906"	"-/301"	""	""	"rs548246352"	"1"	NA	-1	"ANKRD29"	"HGNC"	27110	"protein_coding"	"YES"	"CCDS11879.1"	"ENSP00000468354"	"Q8N6D5"	""	"UPI00001618ED"	"NM_173505.2"	""	""	""	"9/9"	""	"T:0.0012"	"T:0.0038"	"T:0.0014"	NA	"T:0"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c28517f2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214876033057851	"WGS"	FALSE
"11111"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	22618620	22618620	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"77"	25	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c2855474-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245098039215686	"WGS"	FALSE
"11112"	"CDH2"	1000	"mskcc.org"	"GRCh37"	"18"	25571002	25571002	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1345-688C>A"	""	""	"ENST00000269141"	""	82	"61"	21	62	"62"	0	"CDH2,intron_variant,,ENST00000269141,NM_001792.3;CDH2,intron_variant,,ENST00000399380,;"	"T"	"ENSG00000170558"	"ENST00000269141"	"Transcript"	"intron_variant"	"-/4332"	"-/2721"	"-/906"	""	""	""	"1"	NA	-1	"CDH2"	"HGNC"	1759	"protein_coding"	"YES"	"CCDS11891.1"	"ENSP00000269141"	"P19022"	"C9JMH2,C9J126"	"UPI000013D7FD"	"NM_001792.3"	""	""	""	"9/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c285e344-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25609756097561	"WGS"	FALSE
"11113"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	27208257	27208257	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"86"	8	69	"69"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c286217e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"11114"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	27270853	27270853	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"54"	31	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c2862412-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364705882352941	"WGS"	FALSE
"11115"	"WBP11P1"	441818	"mskcc.org"	"GRCh37"	"18"	30094615	30094615	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000567636"	""	95	"69"	26	59	"59"	0	"WBP11P1,downstream_gene_variant,,ENST00000567636,;WBP11P1,downstream_gene_variant,,ENST00000562560,;"	"T"	"ENSG00000260389"	"ENST00000567636"	"Transcript"	"downstream_gene_variant"	"-/2972"	""	""	""	""	""	"1"	"18"	1	"WBP11P1"	"HGNC"	26250	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c2869aaa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"11116"	"FHOD3"	80206	"mskcc.org"	"GRCh37"	"18"	34047932	34047932	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.338-33963T>C"	""	""	"ENST00000257209"	""	89	"69"	20	44	"44"	0	"FHOD3,intron_variant,,ENST00000257209,NM_025135.2;FHOD3,intron_variant,,ENST00000590592,NM_001281740.1;FHOD3,intron_variant,,ENST00000445677,;FHOD3,intron_variant,,ENST00000359247,NM_001281739.1;FHOD3,intron_variant,,ENST00000589114,;"	"C"	"ENSG00000134775"	"ENST00000257209"	"Transcript"	"intron_variant"	"-/4967"	"-/4320"	"-/1439"	""	""	""	"1"	NA	1	"FHOD3"	"HGNC"	26178	"protein_coding"	"YES"	"CCDS32816.1"	"ENSP00000257209"	"Q2V2M9"	""	"UPI0000251DB7"	"NM_025135.2"	""	""	""	"3/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c2872d26-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224719101123595	"WGS"	FALSE
"11117"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	36684153	36684153	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"55"	33	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c2879ea0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WGS"	FALSE
"11118"	"RP11-636O21.1"	0	"mskcc.org"	"GRCh37"	"18"	37425328	37425328	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.417-3492T>C"	""	""	"ENST00000585822"	""	86	"61"	25	51	"51"	0	"RP11-636O21.1,intron_variant,,ENST00000585822,;"	"G"	"ENSG00000267413"	"ENST00000585822"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1115"	""	""	""	""	""	"1"	NA	-1	"RP11-636O21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"c287d32a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290697674418605	"WGS"	FALSE
"11119"	"RP11-653G8.2"	101927900	"mskcc.org"	"GRCh37"	"18"	37662135	37662135	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs559222496"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.884-481G>A"	""	""	"ENST00000566101"	""	77	"59"	18	55	"55"	0	"RP11-653G8.2,intron_variant,,ENST00000566101,;"	"A"	"ENSG00000261715"	"ENST00000566101"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1226"	""	""	""	""	"rs559222496"	"1"	NA	1	"RP11-653G8.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c287dfa0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233766233766234	"WGS"	FALSE
"11120"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	39445823	39445823	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"67"	21	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c2881b78-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238636363636364	"WGS"	FALSE
"11121"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	40780937	40780937	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"68"	25	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c2884b98-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"11122"	"LOXHD1"	125336	"mskcc.org"	"GRCh37"	"18"	44233328	44233328	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.130+3539C>A"	""	""	"ENST00000536736"	""	87	"60"	27	65	"65"	0	"LOXHD1,intron_variant,,ENST00000536736,NM_144612.6;LOXHD1,intron_variant,,ENST00000441551,;"	"T"	"ENSG00000167210"	"ENST00000536736"	"Transcript"	"intron_variant"	"-/6848"	"-/6636"	"-/2211"	""	""	""	"1"	NA	-1	"LOXHD1"	"HGNC"	26521	"protein_coding"	""	""	"ENSP00000444586"	""	"J3KRE7,F5GZB4,C9J269,C9IYQ1"	"UPI0001A595CE"	"NM_144612.6"	""	""	""	"1/39"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"c288da86-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"11123"	"ST8SIA5"	29906	"mskcc.org"	"GRCh37"	"18"	44266390	44266390	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.457-141G>A"	""	""	"ENST00000315087"	""	98	"63"	35	53	"53"	0	"ST8SIA5,intron_variant,,ENST00000315087,NM_013305.4;ST8SIA5,intron_variant,,ENST00000538168,;ST8SIA5,intron_variant,,ENST00000536490,;ST8SIA5,intron_variant,,ENST00000590497,;ST8SIA5,intron_variant,,ENST00000589088,;ST8SIA5,intron_variant,,ENST00000587428,;ST8SIA5,downstream_gene_variant,,ENST00000591375,;"	"T"	"ENSG00000101638"	"ENST00000315087"	"Transcript"	"intron_variant"	"-/2716"	"-/1131"	"-/376"	""	""	""	"1"	NA	-1	"ST8SIA5"	"HGNC"	17827	"protein_coding"	"YES"	"CCDS11930.1"	"ENSP00000321343"	"O15466"	"B3KSU2"	"UPI000013C72F"	"NM_013305.4"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c288db62-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WGS"	FALSE
"11124"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	49363258	49363258	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"70"	5	45	"45"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c28a3f7a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"11125"	"DCC"	1630	"mskcc.org"	"GRCh37"	"18"	50763440	50763440	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs553981773"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1911+21473C>T"	""	""	"ENST00000442544"	""	86	"71"	15	58	"58"	0	"DCC,intron_variant,,ENST00000442544,NM_005215.3;DCC,intron_variant,,ENST00000581580,;DCC,intron_variant,,ENST00000412726,;hsa-mir-4528,upstream_gene_variant,,ENST00000577763,;DCC,intron_variant,,ENST00000304775,;"	"T"	"ENSG00000187323"	"ENST00000442544"	"Transcript"	"intron_variant"	"-/5721"	"-/4344"	"-/1447"	""	""	"rs553981773"	"1"	NA	1	"DCC"	"HGNC"	2701	"protein_coding"	"YES"	"CCDS11952.1"	"ENSP00000389140"	"P43146"	"J3QQJ6"	"UPI00001AEDC6"	"NM_005215.3"	""	""	""	"12/28"	""	"T:0.0004"	"T:0"	"T:0"	NA	"T:0.002"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"c28a6eaa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174418604651163	"WGS"	FALSE
"11126"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	51980663	51980663	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"74"	10	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c28ab464-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"11127"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	52354187	52354187	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"69"	28	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"c28abb58-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288659793814433	"WGS"	FALSE
"11128"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	58632046	58632046	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"52"	18	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c28c1bf6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257142857142857	"WGS"	FALSE
"11129"	"RP11-146N18.1"	284294	"mskcc.org"	"GRCh37"	"18"	61983374	61983374	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.580+22024G>T"	""	""	"ENST00000589376"	""	70	"56"	14	82	"82"	0	"RP11-146N18.1,intron_variant,,ENST00000589376,;"	"T"	"ENSG00000267134"	"ENST00000589376"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1722"	""	""	""	""	""	"1"	NA	1	"RP11-146N18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c28cc966-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"11130"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	64054756	64054756	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs578030611"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"78"	9	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs578030611"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c28d1db2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"11131"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	64135534	64135534	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"78"	25	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c28d23ca-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242718446601942	"WGS"	FALSE
"11132"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	64299989	64299989	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"66"	15	58	"58"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c28d2d5c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WGS"	FALSE
"11133"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	64657465	64657465	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"61"	24	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c28d3b62-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282352941176471	"WGS"	FALSE
"11134"	"RP11-638L3.1"	643542	"mskcc.org"	"GRCh37"	"18"	65520782	65520782	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.381+17287C>G"	""	""	"ENST00000583687"	""	74	"65"	9	54	"54"	0	"RP11-638L3.1,intron_variant,,ENST00000583687,;"	"G"	"ENSG00000265533"	"ENST00000583687"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2991"	""	""	""	""	""	"1"	NA	1	"RP11-638L3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c28d5994-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121621621621622	"WGS"	FALSE
"11135"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	66803837	66803837	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"98"	6	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c28d84e6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0576923076923077	"WGS"	FALSE
"11136"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	66961080	66961080	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"66"	17	72	"72"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c28d8e6e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204819277108434	"WGS"	FALSE
"11137"	"DOK6"	220164	"mskcc.org"	"GRCh37"	"18"	67519638	67519638	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"rs191521728"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000382713"	""	73	"53"	20	42	"42"	0	"DOK6,downstream_gene_variant,,ENST00000382713,NM_152721.5;CD226,intron_variant,,ENST00000578928,;"	"A"	"ENSG00000206052"	"ENST00000382713"	"Transcript"	"downstream_gene_variant"	"-/8890"	"-/996"	"-/331"	""	""	"rs191521728"	"1"	"3315"	1	"DOK6"	"HGNC"	28301	"protein_coding"	"YES"	"CCDS32841.1"	"ENSP00000372160"	"Q6PKX4"	""	"UPI000035EC7C"	"NM_152721.5"	""	""	""	""	""	"A:0.0272"	"A:0"	"A:0.0014"	NA	"A:0.1012"	"A:0.007"	"A:0.0266"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c28dada4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273972602739726	"WGS"	FALSE
"11138"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	69036127	69036127	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"72"	27	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c28e095c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"11139"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	69849954	69849954	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"43"	28	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c28e29a0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.394366197183099	"WGS"	FALSE
"11140"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	69993797	69993797	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"75"	27	56	"56"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c28e2fae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264705882352941	"WGS"	FALSE
"11141"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	70981267	70981267	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"68"	19	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c28e78a6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218390804597701	"WGS"	FALSE
"11142"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	73277992	73277992	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs545966923"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"75"	9	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs545966923"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0010"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.0051"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c28ef286-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"11143"	"RP11-1O2.1"	339298	"mskcc.org"	"GRCh37"	"18"	73852028	73852028	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2208-4421A>G"	""	""	"ENST00000584677"	""	90	"81"	9	56	"56"	0	"RP11-1O2.1,intron_variant,,ENST00000584677,;"	"G"	"ENSG00000263547"	"ENST00000584677"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2794"	""	""	""	""	""	"1"	NA	1	"RP11-1O2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c28f04f6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"11144"	"ZNF236"	7776	"mskcc.org"	"GRCh37"	"18"	74555918	74555918	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.50-5564T>A"	""	""	"ENST00000253159"	""	100	"94"	6	47	"47"	0	"ZNF236,intron_variant,,ENST00000253159,NM_007345.3;ZNF236,intron_variant,,ENST00000320610,;ZNF236,intron_variant,,ENST00000543926,;"	"A"	"ENSG00000130856"	"ENST00000253159"	"Transcript"	"intron_variant"	"-/8124"	"-/5538"	"-/1845"	""	""	""	"1"	NA	1	"ZNF236"	"HGNC"	13028	"protein_coding"	"YES"	"CCDS42447.1"	"ENSP00000253159"	"Q9UL36"	""	"UPI0000F6DCCB"	"NM_007345.3"	""	""	""	"1/30"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c28f55fa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.06	"WGS"	FALSE
"11145"	"POLRMT"	5442	"mskcc.org"	"GRCh37"	"19"	632109	632109	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.193+725T>A"	""	""	"ENST00000588649"	""	63	"57"	6	16	"16"	0	"POLRMT,intron_variant,,ENST00000588649,NM_005035.3;POLRMT,upstream_gene_variant,,ENST00000590573,;AC004449.6,downstream_gene_variant,,ENST00000564240,;POLRMT,intron_variant,,ENST00000607260,;POLRMT,intron_variant,,ENST00000592863,;"	"T"	"ENSG00000099821"	"ENST00000588649"	"Transcript"	"intron_variant"	"-/3829"	"-/3693"	"-/1230"	""	""	""	"1"	NA	-1	"POLRMT"	"HGNC"	9200	"protein_coding"	"YES"	"CCDS12036.1"	"ENSP00000465759"	"O00411"	""	"UPI000013C68E"	"NM_005035.3"	""	""	""	"2/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c2939386-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"11146"	"PALM"	5064	"mskcc.org"	"GRCh37"	"19"	735329	735329	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.443-690G>T"	""	""	"ENST00000338448"	""	51	"38"	13	32	"32"	0	"PALM,intron_variant,,ENST00000264560,NM_001040134.1;PALM,intron_variant,,ENST00000338448,NM_002579.2;PALM,intron_variant,,ENST00000593172,;PALM,intron_variant,,ENST00000592155,;PALM,intron_variant,,ENST00000590161,;PALM,intron_variant,,ENST00000587513,;PALM,intron_variant,,ENST00000589012,;PALM,downstream_gene_variant,,ENST00000592870,;"	"T"	"ENSG00000099864"	"ENST00000338448"	"Transcript"	"intron_variant"	"-/2725"	"-/1164"	"-/387"	""	""	""	"1"	NA	1	"PALM"	"HGNC"	8594	"protein_coding"	"YES"	"CCDS32857.1"	"ENSP00000341911"	"O75781"	"B7Z6Y8"	"UPI0000001616"	"NM_002579.2"	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c293b67c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254901960784314	"WGS"	FALSE
"11147"	"ABCA7"	10347	"mskcc.org"	"GRCh37"	"19"	1050039	1050039	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"rs115362414"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2552+603G>C"	""	""	"ENST00000263094"	""	74	"68"	6	46	"46"	0	"ABCA7,intron_variant,,ENST00000263094,NM_019112.3;ABCA7,intron_variant,,ENST00000433129,;ABCA7,intron_variant,,ENST00000435683,;ABCA7,downstream_gene_variant,,ENST00000533574,;ABCA7,upstream_gene_variant,,ENST00000530092,;"	"C"	"ENSG00000064687"	"ENST00000263094"	"Transcript"	"intron_variant"	"-/6816"	"-/6441"	"-/2146"	""	""	"rs115362414"	"1"	NA	1	"ABCA7"	"HGNC"	37	"protein_coding"	"YES"	"CCDS12055.1"	"ENSP00000263094"	"Q8IZY2"	"E9PL63"	"UPI000013D3A4"	"NM_019112.3"	""	""	""	"18/46"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c2942436-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"11148"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	1682179	1682179	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"67"	9	52	"52"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c294ba36-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.118421052631579	"WGS"	FALSE
"11149"	"DOT1L"	84444	"mskcc.org"	"GRCh37"	"19"	2232011	2232011	"+"	"3'UTR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*2220C>A"	""	""	"ENST00000398665"	"28/28"	79	"74"	5	52	"52"	0	"DOT1L,3_prime_UTR_variant,,ENST00000398665,NM_032482.2;PLEKHJ1,intron_variant,,ENST00000587394,;DOT1L,downstream_gene_variant,,ENST00000457590,;PLEKHJ1,downstream_gene_variant,,ENST00000589097,;SF3A2,upstream_gene_variant,,ENST00000221494,NM_007165.4;PLEKHJ1,downstream_gene_variant,,ENST00000587962,;PLEKHJ1,downstream_gene_variant,,ENST00000326631,NM_018049.1;PLEKHJ1,downstream_gene_variant,,ENST00000586608,;PLEKHJ1,downstream_gene_variant,,ENST00000591099,;DOT1L,downstream_gene_variant,,ENST00000446286,;MIR1227,downstream_gene_variant,,ENST00000408484,;PLEKHJ1,downstream_gene_variant,,ENST00000589791,;PLEKHJ1,downstream_gene_variant,,ENST00000588633,;PLEKHJ1,downstream_gene_variant,,ENST00000588450,;PLEKHJ1,downstream_gene_variant,,ENST00000588545,;SF3A2,upstream_gene_variant,,ENST00000592314,;SF3A2,upstream_gene_variant,,ENST00000592839,;PLEKHJ1,downstream_gene_variant,,ENST00000588356,;PLEKHJ1,downstream_gene_variant,,ENST00000586497,;PLEKHJ1,downstream_gene_variant,,ENST00000585423,;"	"A"	"ENSG00000104885"	"ENST00000398665"	"Transcript"	"3_prime_UTR_variant"	"6870/7436"	"-/4614"	"-/1537"	""	""	""	"1"	NA	1	"DOT1L"	"HGNC"	24948	"protein_coding"	"YES"	"CCDS42460.1"	"ENSP00000381657"	"Q8TEK3"	""	"UPI000002A839"	"NM_032482.2"	""	""	"28/28"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c29530ec-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0632911392405063	"WGS"	FALSE
"11150"	"NFIC"	4782	"mskcc.org"	"GRCh37"	"19"	3361360	3361360	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3+1677T>C"	""	""	"ENST00000589123"	""	93	"63"	30	39	"39"	0	"NFIC,intron_variant,,ENST00000589123,NM_205843.2,NM_001245005.1;NFIC,intron_variant,,ENST00000346156,;NFIC,intron_variant,,ENST00000395111,;NFIC,intron_variant,,ENST00000586919,;"	"C"	"ENSG00000141905"	"ENST00000589123"	"Transcript"	"intron_variant"	"-/8068"	"-/1500"	"-/499"	""	""	""	"1"	NA	1	"NFIC"	"HGNC"	7786	"protein_coding"	""	"CCDS45914.1"	"ENSP00000465655"	"P08651"	""	"UPI000002AF18"	"NM_205843.2,NM_001245005.1"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c2966764-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32258064516129	"WGS"	FALSE
"11151"	"PTPRS"	5802	"mskcc.org"	"GRCh37"	"19"	5245072	5245072	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.989-579G>C"	""	""	"ENST00000357368"	""	95	"87"	8	47	"47"	0	"PTPRS,intron_variant,,ENST00000372412,;PTPRS,intron_variant,,ENST00000357368,NM_002850.3;PTPRS,intron_variant,,ENST00000262963,;PTPRS,intron_variant,,ENST00000348075,NM_130854.2;PTPRS,intron_variant,,ENST00000587303,;PTPRS,intron_variant,,ENST00000353284,NM_130853.2,NM_130855.2;PTPRS,intron_variant,,ENST00000588012,;PTPRS,intron_variant,,ENST00000592099,;PTPRS,intron_variant,,ENST00000588552,;"	"G"	"ENSG00000105426"	"ENST00000357368"	"Transcript"	"intron_variant"	"-/7347"	"-/5847"	"-/1948"	""	""	""	"1"	NA	-1	"PTPRS"	"HGNC"	9681	"protein_coding"	"YES"	"CCDS45930.1"	"ENSP00000349932"	"Q13332"	"K7ESP0,K7ERX4"	"UPI000059D63E"	"NM_002850.3"	""	""	""	"10/37"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c298778e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0842105263157895	"WGS"	FALSE
"11152"	"FUT5"	2527	"mskcc.org"	"GRCh37"	"19"	5864488	5864488	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000252675"	""	99	"74"	25	39	"39"	0	"FUT5,downstream_gene_variant,,ENST00000252675,;FUT5,downstream_gene_variant,,ENST00000588525,NM_002034.2;AC024592.12,downstream_gene_variant,,ENST00000586349,;AC024592.12,downstream_gene_variant,,ENST00000585661,;AC024592.12,downstream_gene_variant,,ENST00000592091,;"	"A"	"ENSG00000130383"	"ENST00000252675"	"Transcript"	"downstream_gene_variant"	"-/2118"	"-/1125"	"-/374"	""	""	""	"1"	"1694"	-1	"FUT5"	"HGNC"	4016	"protein_coding"	"YES"	"CCDS12154.1"	"ENSP00000252675"	"Q11128"	"K7ENC0"	"UPI000013CD7B"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c298da30-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252525252525253	"WGS"	FALSE
"11153"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	8015258	8015258	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"66"	23	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c29a8556-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258426966292135	"WGS"	FALSE
"11154"	"OR7H1P"	0	"mskcc.org"	"GRCh37"	"19"	9387805	9387805	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000448965"	""	75	"50"	25	41	"41"	0	"OR7H1P,downstream_gene_variant,,ENST00000448965,;"	"A"	"ENSG00000226480"	"ENST00000448965"	"Transcript"	"downstream_gene_variant"	"-/922"	""	""	""	""	""	"1"	"1319"	-1	"OR7H1P"	"HGNC"	8468	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c29c1a7e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"11155"	"DNM2"	1785	"mskcc.org"	"GRCh37"	"19"	10906884	10906884	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs772236702"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1196+769C>T"	""	""	"ENST00000389253"	""	98	"88"	10	52	"52"	0	"DNM2,intron_variant,,ENST00000314646,;DNM2,intron_variant,,ENST00000359692,NM_004945.3;DNM2,intron_variant,,ENST00000389253,NM_001005361.2;DNM2,intron_variant,,ENST00000355667,NM_001005360.2,NM_001190716.1;DNM2,intron_variant,,ENST00000408974,NM_001005362.2;DNM2,intron_variant,,ENST00000585892,;DNM2,intron_variant,,ENST00000587830,;DNM2,downstream_gene_variant,,ENST00000587485,;DNM2,intron_variant,,ENST00000593220,;DNM2,downstream_gene_variant,,ENST00000591701,;DNM2,upstream_gene_variant,,ENST00000587329,;"	"T"	"ENSG00000079805"	"ENST00000389253"	"Transcript"	"intron_variant"	"-/3581"	"-/2613"	"-/870"	""	""	"rs772236702"	"1"	NA	1	"DNM2"	"HGNC"	2974	"protein_coding"	"YES"	"CCDS45969.1"	"ENSP00000373905"	"P50570"	"Q8N1K8,K7EPK9"	"UPI000049A626"	"NM_001005361.2"	""	""	""	"9/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	"9.415e-06"	"0"	"0"	"0"	"0"	"1.84e-05"	"0"	"0"	"1"	"PASS"	"TCC"	"c29d25e0-0958-11e6-b1a0-c2d8dff80e40"	"."	9.423e-06	"1/106128"	"1/106210"	"0/9048"	"0/11200"	"0/7866"	"0/6612"	"1/54342"	"0/694"	"0/16366"	"PASS"	"FALSE"	0.102040816326531	"WGS"	TRUE
"11156"	"DOCK6"	57572	"mskcc.org"	"GRCh37"	"19"	11360488	11360488	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.720+1062C>G"	""	""	"ENST00000294618"	""	50	"45"	5	25	"25"	0	"DOCK6,intron_variant,,ENST00000294618,NM_020812.3;DOCK6,intron_variant,,ENST00000585609,;DOCK6,downstream_gene_variant,,ENST00000587572,;DOCK6,downstream_gene_variant,,ENST00000586482,;"	"C"	"ENSG00000130158"	"ENST00000294618"	"Transcript"	"intron_variant"	"-/6358"	"-/6144"	"-/2047"	""	""	""	"1"	NA	-1	"DOCK6"	"HGNC"	19189	"protein_coding"	"YES"	"CCDS45975.1"	"ENSP00000294618"	"Q96HP0"	""	"UPI000059D66F"	"NM_020812.3"	""	""	""	"6/47"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"c29d7a9a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"11157"	"ZNF136"	7695	"mskcc.org"	"GRCh37"	"19"	12291102	12291102	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4-5498C>T"	""	""	"ENST00000343979"	""	91	"68"	23	58	"58"	0	"ZNF136,intron_variant,,ENST00000343979,NM_003437.3;ZNF136,intron_variant,,ENST00000398616,;ZNF136,intron_variant,,ENST00000418338,;ZNF136,intron_variant,,ENST00000439995,;ZNF136,intron_variant,,ENST00000425827,;ZNF136,upstream_gene_variant,,ENST00000464860,;"	"T"	"ENSG00000196646"	"ENST00000343979"	"Transcript"	"intron_variant"	"-/3011"	"-/1623"	"-/540"	""	""	""	"1"	NA	1	"ZNF136"	"HGNC"	12920	"protein_coding"	"YES"	"CCDS32916.1"	"ENSP00000344162"	"P52737"	"F8WES0,C9JR58,C9JJK8,C9J2Q9"	"UPI0000000C7B"	"NM_003437.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c29df60a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252747252747253	"WGS"	FALSE
"11158"	"ZNF709"	163051	"mskcc.org"	"GRCh37"	"19"	12578963	12578963	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4-1299T>A"	""	""	"ENST00000397732"	""	94	"88"	6	39	"39"	0	"ZNF709,intron_variant,,ENST00000397732,NM_152601.3;ZNF709,intron_variant,,ENST00000428311,;ZNF709,intron_variant,,ENST00000455490,;CTD-3105H18.18,intron_variant,,ENST00000598753,;"	"T"	"ENSG00000242852"	"ENST00000397732"	"Transcript"	"intron_variant"	"-/4910"	"-/1926"	"-/641"	""	""	""	"1"	NA	-1	"ZNF709"	"HGNC"	20629	"protein_coding"	"YES"	"CCDS42504.1"	"ENSP00000380840"	"Q8N972"	""	"UPI000006CF50"	"NM_152601.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c29e362e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"11159"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	13291062	13291062	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"82"	6	25	"25"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"c29ebc0c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"11160"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	15320013	15320013	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"87"	9	42	"42"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c2a021e6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"11161"	"CTD-2562J15.6"	0	"mskcc.org"	"GRCh37"	"19"	16410570	16410570	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.209-16038T>C"	""	""	"ENST00000588799"	""	83	"76"	7	51	"51"	0	"CTD-2562J15.6,intron_variant,,ENST00000588799,;"	"G"	"ENSG00000267275"	"ENST00000588799"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/571"	""	""	""	""	""	"1"	NA	-1	"CTD-2562J15.6"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c2a0ca92-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"11162"	"UNC13A"	23025	"mskcc.org"	"GRCh37"	"19"	17761444	17761444	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs775605405"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1440-1048C>T"	""	""	"ENST00000519716"	""	83	"75"	8	50	"50"	0	"UNC13A,intron_variant,,ENST00000428389,;UNC13A,intron_variant,,ENST00000519716,NM_001080421.2;UNC13A,intron_variant,,ENST00000252773,;UNC13A,intron_variant,,ENST00000551649,;UNC13A,intron_variant,,ENST00000552293,;UNC13A,intron_variant,,ENST00000550896,;"	"A"	"ENSG00000130477"	"ENST00000519716"	"Transcript"	"intron_variant"	"-/9838"	"-/5112"	"-/1703"	""	""	"rs775605405"	"1"	NA	-1	"UNC13A"	"HGNC"	23150	"protein_coding"	"YES"	"CCDS46013.2"	"ENSP00000429562"	"Q9UPW8"	""	"UPI00006C19A7"	"NM_001080421.2"	""	""	""	"12/43"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"c2a1cfe6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0963855421686747	"WGS"	FALSE
"11163"	"PGPEP1"	54858	"mskcc.org"	"GRCh37"	"19"	18471779	18471779	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.438-2422T>C"	""	""	"ENST00000269919"	""	98	"90"	8	34	"34"	0	"PGPEP1,intron_variant,,ENST00000269919,NM_017712.2;PGPEP1,intron_variant,,ENST00000252813,;PGPEP1,intron_variant,,ENST00000604499,;PGPEP1,intron_variant,,ENST00000597431,;PGPEP1,intron_variant,,ENST00000595552,;PGPEP1,intron_variant,,ENST00000597663,;PGPEP1,downstream_gene_variant,,ENST00000595066,;PGPEP1,intron_variant,,ENST00000600283,;PGPEP1,intron_variant,,ENST00000596962,;"	"C"	"ENSG00000130517"	"ENST00000269919"	"Transcript"	"intron_variant"	"-/7092"	"-/630"	"-/209"	""	""	""	"1"	NA	1	"PGPEP1"	"HGNC"	13568	"protein_coding"	"YES"	"CCDS12375.1"	"ENSP00000269919"	"Q9NXJ5"	"U3KQG9,Q8IVT1"	"UPI0000049B15"	"NM_017712.2"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c2a25966-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WGS"	FALSE
"11164"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	20946981	20946981	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"62"	25	67	"67"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c2a366bc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28735632183908	"WGS"	FALSE
"11165"	"CTD-2561J22.3"	0	"mskcc.org"	"GRCh37"	"19"	21622067	21622067	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.196+33409C>T"	""	""	"ENST00000600810"	""	82	"56"	26	48	"48"	0	"CTD-2561J22.5,downstream_gene_variant,,ENST00000596705,;CTD-2561J22.3,intron_variant,,ENST00000600810,;"	"T"	"ENSG00000269237"	"ENST00000600810"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/472"	"-/279"	"-/92"	""	""	""	"1"	NA	1	"CTD-2561J22.3"	"Clone_based_vega_gene"	NA	"nonsense_mediated_decay"	"YES"	""	"ENSP00000473166"	""	"M0R3E3"	"UPI0002A47591"	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c2a3de62-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317073170731707	"WGS"	FALSE
"11166"	"ZNF100"	163227	"mskcc.org"	"GRCh37"	"19"	21944492	21944492	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.96+4004G>A"	""	""	"ENST00000358296"	""	109	"75"	34	56	"56"	0	"ZNF100,intron_variant,,ENST00000358296,NM_173531.3;ZNF100,intron_variant,,ENST00000598026,;ZNF100,intron_variant,,ENST00000596452,;"	"T"	"ENSG00000197020"	"ENST00000358296"	"Transcript"	"intron_variant"	"-/5745"	"-/1629"	"-/542"	""	""	""	"1"	NA	-1	"ZNF100"	"HGNC"	12880	"protein_coding"	"YES"	"CCDS42538.1"	"ENSP00000351042"	"Q8IYN0"	"Q6MZN6"	"UPI00001614AC"	"NM_173531.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c2a40108-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311926605504587	"WGS"	FALSE
"11167"	"ZNF208"	7757	"mskcc.org"	"GRCh37"	"19"	22175778	22175778	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4-4067C>T"	""	""	"ENST00000397126"	""	78	"49"	29	67	"67"	0	"ZNF208,intron_variant,,ENST00000397126,NM_007153.3;ZNF208,intron_variant,,ENST00000601773,;ZNF208,intron_variant,,ENST00000597040,;ZNF208,intron_variant,,ENST00000599916,;ZNF208,intron_variant,,ENST00000601993,;ZNF208,upstream_gene_variant,,ENST00000599723,;AC003973.6,upstream_gene_variant,,ENST00000603918,;"	"A"	"ENSG00000160321"	"ENST00000397126"	"Transcript"	"intron_variant"	"-/3992"	"-/3843"	"-/1280"	""	""	""	"1"	NA	-1	"ZNF208"	"HGNC"	12999	"protein_coding"	"YES"	"CCDS54240.1"	"ENSP00000380315"	"O43345"	""	"UPI0001B23C28"	"NM_007153.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c2a42732-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.371794871794872	"WGS"	FALSE
"11168"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	24454384	24454384	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"70"	26	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c2a54f68-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270833333333333	"WGS"	FALSE
"11169"	"VSTM2B"	342865	"mskcc.org"	"GRCh37"	"19"	30013535	30013535	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000335523"	""	92	"70"	22	46	"46"	0	"VSTM2B,upstream_gene_variant,,ENST00000335523,NM_001146339.1;CTC-525D6.1,intron_variant,,ENST00000582581,;CTC-525D6.2,intron_variant,,ENST00000579268,;CTC-525D6.1,intron_variant,,ENST00000577849,;"	"G"	"ENSG00000187135"	"ENST00000335523"	"Transcript"	"upstream_gene_variant"	"-/1488"	"-/858"	"-/285"	""	""	""	"1"	"3871"	1	"VSTM2B"	"HGNC"	33595	"protein_coding"	"YES"	"CCDS46034.1"	"ENSP00000335038"	"A6NLU5"	""	"UPI00001D8158"	"NM_001146339.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c2a68644-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239130434782609	"WGS"	FALSE
"11170"	"CTD-2057D4.2"	0	"mskcc.org"	"GRCh37"	"19"	30391368	30391368	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000586584"	""	28	"22"	6	9	"9"	0	"CTD-2057D4.2,downstream_gene_variant,,ENST00000586584,;"	"T"	"ENSG00000267433"	"ENST00000586584"	"Transcript"	"downstream_gene_variant"	"-/174"	""	""	""	""	""	"1"	"1235"	-1	"CTD-2057D4.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c2a6bf74-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"11171"	"ZNF536"	9745	"mskcc.org"	"GRCh37"	"19"	30766978	30766978	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-189-8001T>C"	""	""	"ENST00000585628"	""	72	"65"	7	63	"63"	0	"ZNF536,intron_variant,,ENST00000585628,;ZNF536,intron_variant,,ENST00000591488,;ZNF536,intron_variant,,ENST00000590564,;"	"C"	"ENSG00000198597"	"ENST00000585628"	"Transcript"	"intron_variant"	"-/3198"	"-/2849"	"-/949"	""	""	""	"1"	NA	1	"ZNF536"	"HGNC"	29025	"protein_coding"	""	""	"ENSP00000465771"	""	"K7EKT4,K7EJP8"	"UPI0002840973"	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c2a70146-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"11172"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	31300301	31300301	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"65"	32	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c2a71762-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329896907216495	"WGS"	FALSE
"11173"	"WDR88"	126248	"mskcc.org"	"GRCh37"	"19"	33629696	33629696	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.387+1003C>G"	""	""	"ENST00000355868"	""	101	"91"	10	41	"41"	0	"WDR88,intron_variant,,ENST00000361680,;WDR88,intron_variant,,ENST00000355868,NM_173479.3;WDR88,intron_variant,,ENST00000592765,;"	"G"	"ENSG00000166359"	"ENST00000355868"	"Transcript"	"intron_variant"	"-/1718"	"-/1419"	"-/472"	""	""	""	"1"	NA	1	"WDR88"	"HGNC"	26999	"protein_coding"	"YES"	"CCDS12429.1"	"ENSP00000348129"	"Q6ZMY6"	""	"UPI0000456C8B"	"NM_173479.3"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c2a7c69e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.099009900990099	"WGS"	FALSE
"11174"	"ZNF146"	7705	"mskcc.org"	"GRCh37"	"19"	36709075	36709075	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-855+2977A>T"	""	""	"ENST00000456324"	""	89	"59"	30	37	"37"	0	"ZNF146,5_prime_UTR_variant,,ENST00000443387,NM_007145.2;ZNF146,intron_variant,,ENST00000456324,NM_001099638.1,NM_001099639.1;ZNF565,intron_variant,,ENST00000355114,;ZNF565,upstream_gene_variant,,ENST00000392173,NM_001042474.1;ZNF565,upstream_gene_variant,,ENST00000304116,NM_152477.3;ZNF565,upstream_gene_variant,,ENST00000591473,;ZNF565,upstream_gene_variant,,ENST00000585994,;ZNF146,intron_variant,,ENST00000586094,;ZNF146,intron_variant,,ENST00000591063,;ZNF565,upstream_gene_variant,,ENST00000587803,;ZNF565,upstream_gene_variant,,ENST00000586648,;"	"T"	"ENSG00000167635"	"ENST00000456324"	"Transcript"	"intron_variant"	"-/3780"	"-/879"	"-/292"	""	""	""	"1"	NA	1	"ZNF146"	"HGNC"	12931	"protein_coding"	"YES"	"CCDS12492.1"	"ENSP00000400391"	"Q15072"	""	"UPI000013E6EC"	"NM_001099638.1,NM_001099639.1"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c2a9333a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337078651685393	"WGS"	FALSE
"11175"	"ZNF461"	92283	"mskcc.org"	"GRCh37"	"19"	37127194	37127194	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000588268"	""	114	"105"	9	75	"75"	0	"ZNF461,downstream_gene_variant,,ENST00000588268,NM_153257.2;ZNF461,downstream_gene_variant,,ENST00000360357,;ZNF461,downstream_gene_variant,,ENST00000591370,;ZNF461,downstream_gene_variant,,ENST00000540605,;ZNF461,downstream_gene_variant,,ENST00000589442,;ZNF461,downstream_gene_variant,,ENST00000396893,;ZNF461,downstream_gene_variant,,ENST00000590487,;ZNF461,downstream_gene_variant,,ENST00000590361,;"	"C"	"ENSG00000197808"	"ENST00000588268"	"Transcript"	"downstream_gene_variant"	"-/2584"	"-/1692"	"-/563"	""	""	""	"1"	"1697"	-1	"ZNF461"	"HGNC"	21629	"protein_coding"	"YES"	"CCDS54257.1"	"ENSP00000467931"	"Q8TAF7"	"K7EJM1,K7EIW1"	"UPI00002021CA"	"NM_153257.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c2a99c9e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"11176"	"CTD-2162K18.4"	0	"mskcc.org"	"GRCh37"	"19"	37267935	37267935	"+"	"3'UTR"	"SNP"	"C"	"C"	"T"	"rs541682272"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1520C>T"	""	""	"ENST00000590750"	"2/2"	100	"71"	29	65	"65"	0	"CTD-2162K18.4,3_prime_UTR_variant,,ENST00000590750,;ZNF850,upstream_gene_variant,,ENST00000591344,NM_001193552.1,NM_001267779.1;ZNF850,upstream_gene_variant,,ENST00000589390,;CTD-2162K18.3,upstream_gene_variant,,ENST00000588717,;CTD-2162K18.4,downstream_gene_variant,,ENST00000591531,;"	"T"	"ENSG00000267260"	"ENST00000590750"	"Transcript"	"3_prime_UTR_variant"	"1805/1850"	"-/261"	"-/86"	""	""	"rs541682272"	"1"	NA	1	"CTD-2162K18.4"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000468807"	""	"K7ESP3"	"UPI0000034E3B"	""	""	""	"2/2"	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c2a9b184-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29	"WGS"	FALSE
"11177"	"SIPA1L3"	23094	"mskcc.org"	"GRCh37"	"19"	38507718	38507718	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-378-12011A>G"	""	""	"ENST00000222345"	""	69	"61"	8	25	"25"	0	"SIPA1L3,intron_variant,,ENST00000222345,NM_015073.1;SIPA1L3,intron_variant,,ENST00000476317,;"	"G"	"ENSG00000105738"	"ENST00000222345"	"Transcript"	"intron_variant"	"-/7987"	"-/5346"	"-/1781"	""	""	""	"1"	NA	1	"SIPA1L3"	"HGNC"	23801	"protein_coding"	"YES"	"CCDS33007.1"	"ENSP00000222345"	"O60292"	"Q8IUV1"	"UPI00001D8160"	"NM_015073.1"	""	""	""	"1/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c2aa9414-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115942028985507	"WGS"	FALSE
"11178"	"SPINT2"	10653	"mskcc.org"	"GRCh37"	"19"	38750417	38750417	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000301244"	""	77	"52"	25	33	"33"	0	"SPINT2,intron_variant,,ENST00000590510,;SPINT2,upstream_gene_variant,,ENST00000301244,NM_021102.3;SPINT2,upstream_gene_variant,,ENST00000454580,NM_001166103.1;SPINT2,upstream_gene_variant,,ENST00000587090,;PPP1R14A,upstream_gene_variant,,ENST00000591585,;PPP1R14A,upstream_gene_variant,,ENST00000301242,NM_033256.2;SPINT2,upstream_gene_variant,,ENST00000587516,;PPP1R14A,upstream_gene_variant,,ENST00000347262,NM_001243947.1;PPP1R14A,upstream_gene_variant,,ENST00000591291,;SPINT2,upstream_gene_variant,,ENST00000590210,;"	"A"	"ENSG00000167642"	"ENST00000301244"	"Transcript"	"upstream_gene_variant"	"-/1802"	"-/759"	"-/252"	""	""	""	"1"	"4681"	1	"SPINT2"	"HGNC"	11247	"protein_coding"	"YES"	"CCDS12510.1"	"ENSP00000301244"	"O43291"	"K7EM91,K7EKC8,K7EJS4"	"UPI0000135E8E"	"NM_021102.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"c2aab624-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324675324675325	"WGS"	FALSE
"11179"	"PAK4"	10298	"mskcc.org"	"GRCh37"	"19"	39643724	39643724	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-321-15146A>C"	""	""	"ENST00000593690"	""	98	"69"	29	70	"70"	0	"PAK4,intron_variant,,ENST00000599386,NM_001014835.1;PAK4,intron_variant,,ENST00000593690,NM_001014831.2;PAK4,intron_variant,,ENST00000358301,NM_001014832.1;PAK4,intron_variant,,ENST00000321944,NM_005884.3;PAK4,intron_variant,,ENST00000599470,NM_001014834.2;PAK4,intron_variant,,ENST00000593480,;PAK4,intron_variant,,ENST00000602004,;PAK4,upstream_gene_variant,,ENST00000599657,;PAK4,downstream_gene_variant,,ENST00000597766,;"	"C"	"ENSG00000130669"	"ENST00000593690"	"Transcript"	"intron_variant"	"-/3025"	"-/1776"	"-/591"	""	""	""	"1"	NA	1	"PAK4"	"HGNC"	16059	"protein_coding"	"YES"	"CCDS12528.1"	"ENSP00000469413"	"O96013"	"M0R2X4,B4DUG0"	"UPI0000001281"	"NM_001014831.2"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c2ab406c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295918367346939	"WGS"	FALSE
"11180"	"CTC-246B18.8"	0	"mskcc.org"	"GRCh37"	"19"	39811996	39811996	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000601911"	""	76	"54"	22	40	"40"	0	"CTC-246B18.8,upstream_gene_variant,,ENST00000601911,;"	"G"	"ENSG00000268262"	"ENST00000601911"	"Transcript"	"upstream_gene_variant"	"-/877"	""	""	""	""	""	"1"	"498"	-1	"CTC-246B18.8"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c2ab4ee0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289473684210526	"WGS"	FALSE
"11181"	"AC005176.2"	100129935	"mskcc.org"	"GRCh37"	"19"	40130408	40130408	"+"	"RNA"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1084G>A"	""	""	"ENST00000594263"	"1/4"	70	"51"	19	50	"50"	0	"AC005176.2,non_coding_transcript_exon_variant,,ENST00000594263,;AC005176.2,upstream_gene_variant,,ENST00000597077,;AC005176.2,upstream_gene_variant,,ENST00000597791,;AC005176.3,upstream_gene_variant,,ENST00000600975,;"	"A"	"ENSG00000268153"	"ENST00000594263"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1084/1831"	""	""	""	""	""	"1"	NA	1	"AC005176.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c2ab7aaa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271428571428571	"WGS"	FALSE
"11182"	"SNRPA"	6626	"mskcc.org"	"GRCh37"	"19"	41273348	41273348	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000243563"	""	66	"59"	7	43	"43"	0	"SNRPA,downstream_gene_variant,,ENST00000243563,NM_004596.4;SNRPA,downstream_gene_variant,,ENST00000601393,;SNRPA,downstream_gene_variant,,ENST00000601545,;MIA,upstream_gene_variant,,ENST00000597600,;SNRPA,downstream_gene_variant,,ENST00000597353,;MIA-RAB4B,upstream_gene_variant,,ENST00000600729,;SNRPA,downstream_gene_variant,,ENST00000598923,;SNRPA,downstream_gene_variant,,ENST00000596860,;"	"C"	"ENSG00000077312"	"ENST00000243563"	"Transcript"	"downstream_gene_variant"	"-/1621"	"-/849"	"-/282"	""	""	""	"1"	"2054"	1	"SNRPA"	"HGNC"	11151	"protein_coding"	"YES"	"CCDS12565.1"	"ENSP00000243563"	"P09012"	"M0R2B8,M0R221,M0QZG7"	"UPI000002C8F2"	"NM_004596.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c2ac0e52-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106060606060606	"WGS"	FALSE
"11183"	"TGFB1"	7040	"mskcc.org"	"GRCh37"	"19"	41851624	41851624	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.517-855T>A"	""	""	"ENST00000221930"	""	72	"66"	6	51	"51"	0	"TGFB1,intron_variant,,ENST00000221930,NM_000660.4;TGFB1,upstream_gene_variant,,ENST00000598758,;TGFB1,intron_variant,,ENST00000597453,;TGFB1,upstream_gene_variant,,ENST00000600196,;"	"T"	"ENSG00000105329"	"ENST00000221930"	"Transcript"	"intron_variant"	"-/2769"	"-/1173"	"-/390"	""	""	""	"1"	NA	-1	"TGFB1"	"HGNC"	11766	"protein_coding"	"YES"	"CCDS33031.1"	"ENSP00000221930"	"P01137"	"Q7Z488,Q7Z487,Q5PY19"	"UPI000013C7E1"	"NM_000660.4"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"c2ac5c68-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"11184"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	42167945	42167945	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"62"	27	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c2ac716c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303370786516854	"WGS"	FALSE
"11185"	"IRGC"	56269	"mskcc.org"	"GRCh37"	"19"	44215279	44215279	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000244314"	""	108	"73"	35	66	"66"	0	"IRGC,upstream_gene_variant,,ENST00000244314,NM_019612.3;IRGC,upstream_gene_variant,,ENST00000596627,;"	"T"	"ENSG00000124449"	"ENST00000244314"	"Transcript"	"upstream_gene_variant"	"-/1662"	"-/1392"	"-/463"	""	""	""	"1"	"4883"	1	"IRGC"	"HGNC"	28835	"protein_coding"	"YES"	"CCDS12629.1"	"ENSP00000244314"	"Q6NXR0"	"J7NNX4"	"UPI000011DFC0"	"NM_019612.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c2ad3d04-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324074074074074	"WGS"	FALSE
"11186"	"PVRL2"	5819	"mskcc.org"	"GRCh37"	"19"	45367820	45367820	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.89-708G>A"	""	""	"ENST00000252483"	""	86	"78"	8	52	"52"	0	"PVRL2,intron_variant,,ENST00000252483,NM_001042724.1;PVRL2,intron_variant,,ENST00000252485,NM_002856.2;"	"A"	"ENSG00000130202"	"ENST00000252483"	"Transcript"	"intron_variant"	"-/2466"	"-/1617"	"-/538"	""	""	""	"1"	NA	1	"PVRL2"	"HGNC"	9707	"protein_coding"	"YES"	"CCDS42576.1"	"ENSP00000252483"	"Q92692"	"Q7Z458,Q7Z457,Q7Z456"	"UPI000004A2BF"	"NM_001042724.1"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c2add728-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"11187"	"PPP5D1"	100506012	"mskcc.org"	"GRCh37"	"19"	47086362	47086362	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.87+17778A>C"	""	""	"ENST00000414155"	""	84	"78"	6	46	"46"	0	"PPP5D1,intron_variant,,ENST00000414155,;PPP5D1,intron_variant,,ENST00000602017,NM_001205281.1;AC011551.3,intron_variant,,ENST00000593888,;AC011551.3,intron_variant,,ENST00000598743,;PPP5D1,intron_variant,,ENST00000593359,;"	"G"	"ENSG00000230510"	"ENST00000414155"	"Transcript"	"intron_variant"	"-/1882"	"-/516"	"-/171"	""	""	""	"1"	NA	-1	"PPP5D1"	"HGNC"	44209	"protein_coding"	"YES"	""	"ENSP00000392262"	"E7EU14"	""	"UPI00001D817D"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c2aedfb0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"11188"	"CRX"	1406	"mskcc.org"	"GRCh37"	"19"	48344074	48344074	"+"	"3'UTR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*850G>A"	""	""	"ENST00000221996"	"4/4"	82	"47"	35	61	"61"	0	"CRX,3_prime_UTR_variant,,ENST00000221996,NM_000554.4;CRX,intron_variant,,ENST00000539067,;TPRX2P,intron_variant,,ENST00000535362,;CRX,downstream_gene_variant,,ENST00000566686,;CRX,intron_variant,,ENST00000602001,;CRX,downstream_gene_variant,,ENST00000556527,;"	"A"	"ENSG00000105392"	"ENST00000221996"	"Transcript"	"3_prime_UTR_variant"	"1956/4469"	"-/900"	"-/299"	""	""	""	"1"	NA	1	"CRX"	"HGNC"	2383	"protein_coding"	"YES"	"CCDS12706.1"	"ENSP00000221996"	"O43186"	"Q0QD45,H3BUU7,A4GUB7"	"UPI00001284E0"	"NM_000554.4"	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"c2afc3c6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.426829268292683	"WGS"	FALSE
"11189"	"CARD8"	22900	"mskcc.org"	"GRCh37"	"19"	48728523	48728523	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1036-3411T>C"	""	""	"ENST00000391898"	""	67	"62"	5	39	"39"	0	"CARD8,intron_variant,,ENST00000391898,NM_001184900.1;CARD8,intron_variant,,ENST00000359009,;CARD8,intron_variant,,ENST00000447740,NM_001184901.1;CARD8,intron_variant,,ENST00000520753,NM_001184902.1;CARD8,intron_variant,,ENST00000520153,NM_014959.3;ZNF114,intron_variant,,ENST00000597695,;CARD8,intron_variant,,ENST00000519940,;CARD8,intron_variant,,ENST00000520015,NM_001184903.1;CARD8,intron_variant,,ENST00000521613,;CARD8,intron_variant,,ENST00000357778,;CARD8,intron_variant,,ENST00000518622,;CARD8,intron_variant,,ENST00000522051,;CARD8,intron_variant,,ENST00000518979,;CARD8,intron_variant,,ENST00000377461,;CARD8,intron_variant,,ENST00000522773,;CARD8,intron_variant,,ENST00000519646,;CARD8,intron_variant,,ENST00000517510,;CARD8,intron_variant,,ENST00000521415,;CARD8,intron_variant,,ENST00000519302,;CARD8,intron_variant,,ENST00000523579,;CARD8,intron_variant,,ENST00000523668,;"	"G"	"ENSG00000105483"	"ENST00000391898"	"Transcript"	"intron_variant"	"-/5263"	"-/1614"	"-/537"	""	""	""	"1"	NA	-1	"CARD8"	"HGNC"	17057	"protein_coding"	"YES"	"CCDS54289.1"	"ENSP00000375767"	"Q9Y2G2"	"E5RGG3,E5RFV9"	"UPI000022A913"	"NM_001184900.1"	""	""	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c2b014ac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0746268656716418	"WGS"	FALSE
"11190"	"CARD8"	22900	"mskcc.org"	"GRCh37"	"19"	48728529	48728529	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1036-3417A>G"	""	""	"ENST00000391898"	""	65	"60"	5	37	"37"	0	"CARD8,intron_variant,,ENST00000391898,NM_001184900.1;CARD8,intron_variant,,ENST00000359009,;CARD8,intron_variant,,ENST00000447740,NM_001184901.1;CARD8,intron_variant,,ENST00000520753,NM_001184902.1;CARD8,intron_variant,,ENST00000520153,NM_014959.3;ZNF114,intron_variant,,ENST00000597695,;CARD8,intron_variant,,ENST00000519940,;CARD8,intron_variant,,ENST00000520015,NM_001184903.1;CARD8,intron_variant,,ENST00000521613,;CARD8,intron_variant,,ENST00000357778,;CARD8,intron_variant,,ENST00000518622,;CARD8,intron_variant,,ENST00000522051,;CARD8,intron_variant,,ENST00000518979,;CARD8,intron_variant,,ENST00000377461,;CARD8,intron_variant,,ENST00000522773,;CARD8,intron_variant,,ENST00000519646,;CARD8,intron_variant,,ENST00000517510,;CARD8,intron_variant,,ENST00000521415,;CARD8,intron_variant,,ENST00000519302,;CARD8,intron_variant,,ENST00000523579,;CARD8,intron_variant,,ENST00000523668,;"	"C"	"ENSG00000105483"	"ENST00000391898"	"Transcript"	"intron_variant"	"-/5263"	"-/1614"	"-/537"	""	""	""	"1"	NA	-1	"CARD8"	"HGNC"	17057	"protein_coding"	"YES"	"CCDS54289.1"	"ENSP00000375767"	"Q9Y2G2"	"E5RGG3,E5RFV9"	"UPI000022A913"	"NM_001184900.1"	""	""	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c2b01588-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"11191"	"CARD8"	22900	"mskcc.org"	"GRCh37"	"19"	48728530	48728530	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1036-3418A>G"	""	""	"ENST00000391898"	""	64	"59"	5	36	"36"	0	"CARD8,intron_variant,,ENST00000391898,NM_001184900.1;CARD8,intron_variant,,ENST00000359009,;CARD8,intron_variant,,ENST00000447740,NM_001184901.1;CARD8,intron_variant,,ENST00000520753,NM_001184902.1;CARD8,intron_variant,,ENST00000520153,NM_014959.3;ZNF114,intron_variant,,ENST00000597695,;CARD8,intron_variant,,ENST00000519940,;CARD8,intron_variant,,ENST00000520015,NM_001184903.1;CARD8,intron_variant,,ENST00000521613,;CARD8,intron_variant,,ENST00000357778,;CARD8,intron_variant,,ENST00000518622,;CARD8,intron_variant,,ENST00000522051,;CARD8,intron_variant,,ENST00000518979,;CARD8,intron_variant,,ENST00000377461,;CARD8,intron_variant,,ENST00000522773,;CARD8,intron_variant,,ENST00000519646,;CARD8,intron_variant,,ENST00000517510,;CARD8,intron_variant,,ENST00000521415,;CARD8,intron_variant,,ENST00000519302,;CARD8,intron_variant,,ENST00000523579,;CARD8,intron_variant,,ENST00000523668,;"	"C"	"ENSG00000105483"	"ENST00000391898"	"Transcript"	"intron_variant"	"-/5263"	"-/1614"	"-/537"	""	""	""	"1"	NA	-1	"CARD8"	"HGNC"	17057	"protein_coding"	"YES"	"CCDS54289.1"	"ENSP00000375767"	"Q9Y2G2"	"E5RGG3,E5RFV9"	"UPI000022A913"	"NM_001184900.1"	""	""	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c2b01664-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.078125	"WGS"	FALSE
"11192"	"NUCB1"	4924	"mskcc.org"	"GRCh37"	"19"	49424635	49424635	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"rs142771381"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1173+54G>T"	""	""	"ENST00000405315"	""	80	"55"	25	73	"73"	0	"NUCB1,intron_variant,,ENST00000405315,NM_006184.5;NUCB1,intron_variant,,ENST00000263273,;NUCB1,intron_variant,,ENST00000407032,;NUCB1,downstream_gene_variant,,ENST00000424608,;NUCB1,downstream_gene_variant,,ENST00000452087,;NUCB1-AS1,upstream_gene_variant,,ENST00000416432,;CTD-2639E6.4,upstream_gene_variant,,ENST00000569130,;NUCB1,intron_variant,,ENST00000485798,;NUCB1,intron_variant,,ENST00000492367,;NUCB1,intron_variant,,ENST00000465524,;NUCB1,downstream_gene_variant,,ENST00000469291,;NUCB1,downstream_gene_variant,,ENST00000460125,;"	"T"	"ENSG00000104805"	"ENST00000405315"	"Transcript"	"intron_variant"	"-/2668"	"-/1386"	"-/461"	""	""	"rs142771381"	"1"	NA	1	"NUCB1"	"HGNC"	8043	"protein_coding"	"YES"	"CCDS12740.1"	"ENSP00000385923"	"Q02818"	"Q96BA4,C9JBD3,C9J3C1,B4DZX0,B3KUR6"	"UPI0000161F57"	"NM_006184.5"	""	""	""	"11/12"	""	"A:0.0030"	"A:0"	"A:0.0043"	NA	"A:0"	"A:0.0109"	"A:0.001"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	"1.11e-05"	"0"	"0"	"0"	"0"	"0"	"0"	"0"	NA	"PASS"	"CGT"	"c2b0c1ea-0958-11e6-b1a0-c2d8dff80e40"	"."	0	"0/14694"	"1/90084"	"0/1658"	"0/336"	"0/380"	"0/50"	"0/4214"	"0/126"	"0/7930"	"PASS"	"FALSE"	0.3125	"WGS"	FALSE
"11193"	"ENSR00001695317"	0	"mskcc.org"	"GRCh37"	"19"	51797636	51797636	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"rs567494818"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001695317"	""	98	"69"	29	62	"61"	1	""	"T"	""	"ENSR00001695317"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs567494818"	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c2b28584-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295918367346939	"WGS"	FALSE
"11194"	"KIR3DL1"	3812	"mskcc.org"	"GRCh37"	"19"	55346302	55346302	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000391728"	""	65	"59"	6	55	"55"	0	"KIR3DL1,intron_variant,,ENST00000402254,;KIR3DL1,downstream_gene_variant,,ENST00000391728,NM_013289.2;KIR3DL1,downstream_gene_variant,,ENST00000538269,;KIR3DL1,downstream_gene_variant,,ENST00000541392,;KIR3DL1,downstream_gene_variant,,ENST00000326542,;KIR3DL1,downstream_gene_variant,,ENST00000358178,;KIR2DS4,intron_variant,,ENST00000339924,NM_001281971.1,NM_012314.4;KIR2DS4,intron_variant,,ENST00000391729,;"	"T"	"ENSG00000167633"	"ENST00000391728"	"Transcript"	"downstream_gene_variant"	"-/1871"	"-/1335"	"-/444"	""	""	""	"1"	"4069"	1	"KIR3DL1"	"HGNC"	6338	"protein_coding"	"YES"	"CCDS42621.1"	"ENSP00000375608"	"P43629"	"Q5UCE2,Q8NHL0"	"UPI000012DB24"	"NM_013289.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c2b4a7ba-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"11195"	"TPO"	7173	"mskcc.org"	"GRCh37"	"2"	1530786	1530786	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2618+10032A>T"	""	""	"ENST00000345913"	""	25	"22"	3	23	"23"	0	"TPO,intron_variant,,ENST00000422464,;TPO,intron_variant,,ENST00000345913,NM_000547.5;TPO,intron_variant,,ENST00000329066,NM_001206744.1;TPO,intron_variant,,ENST00000337415,;TPO,intron_variant,,ENST00000346956,NM_175721.3;TPO,intron_variant,,ENST00000382201,NM_001206745.1,NM_175719.3;TPO,intron_variant,,ENST00000349624,;TPO,intron_variant,,ENST00000382198,NM_175722.3;TPO,intron_variant,,ENST00000446278,;TPO,intron_variant,,ENST00000469607,;TPO,intron_variant,,ENST00000425083,;TPO,intron_variant,,ENST00000497517,;TPO,intron_variant,,ENST00000479902,;"	"T"	"ENSG00000115705"	"ENST00000345913"	"Transcript"	"intron_variant"	"-/3145"	"-/2802"	"-/933"	""	""	""	"1"	NA	1	"TPO"	"HGNC"	12015	"protein_coding"	"YES"	"CCDS1643.1"	"ENSP00000318820"	"P07202"	"Q53QT2,C9J511"	"UPI000013D480"	"NM_000547.5"	""	""	""	"15/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"c2b8ad6a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"11196"	"MYT1L"	23040	"mskcc.org"	"GRCh37"	"2"	2030860	2030860	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs575286424"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-158+26890C>T"	""	""	"ENST00000428368"	""	82	"75"	7	44	"44"	0	"MYT1L,intron_variant,,ENST00000399161,NM_015025.2;MYT1L,intron_variant,,ENST00000428368,;MYT1L,intron_variant,,ENST00000479156,;"	"A"	"ENSG00000186487"	"ENST00000428368"	"Transcript"	"intron_variant"	"-/4850"	"-/3555"	"-/1184"	""	""	"rs575286424"	"1"	NA	-1	"MYT1L"	"HGNC"	7623	"protein_coding"	"YES"	"CCDS46222.1"	"ENSP00000396103"	"Q9UL68"	""	"UPI00004E55EA"	""	""	""	""	"4/24"	""	"A:0.0002"	"A:0"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c2b971e6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"11197"	"MYT1L"	23040	"mskcc.org"	"GRCh37"	"2"	2036044	2036044	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-158+21706C>G"	""	""	"ENST00000428368"	""	50	"45"	5	22	"22"	0	"MYT1L,intron_variant,,ENST00000399161,NM_015025.2;MYT1L,intron_variant,,ENST00000428368,;MYT1L,intron_variant,,ENST00000479156,;"	"C"	"ENSG00000186487"	"ENST00000428368"	"Transcript"	"intron_variant"	"-/4850"	"-/3555"	"-/1184"	""	""	""	"1"	NA	-1	"MYT1L"	"HGNC"	7623	"protein_coding"	"YES"	"CCDS46222.1"	"ENSP00000396103"	"Q9UL68"	""	"UPI00004E55EA"	""	""	""	""	"4/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c2b9777c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"11198"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	2494600	2494600	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"66"	27	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c2b996bc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290322580645161	"WGS"	FALSE
"11199"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	4662017	4662017	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"71"	20	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c2bac280-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21978021978022	"WGS"	FALSE
"11200"	"LINC00299"	339789	"mskcc.org"	"GRCh37"	"2"	8255357	8255357	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.714-54822G>A"	""	""	"ENST00000430192"	""	93	"58"	35	49	"49"	0	"LINC00299,intron_variant,,ENST00000430192,;LINC00298,intron_variant,,ENST00000456681,;LINC00299,intron_variant,,ENST00000454043,;"	"T"	"ENSG00000236790"	"ENST00000430192"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1760"	""	""	""	""	""	"1"	NA	-1	"LINC00299"	"HGNC"	27940	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c2bb70ea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.376344086021505	"WGS"	FALSE
"11201"	"AC096559.1"	100506457	"mskcc.org"	"GRCh37"	"2"	12491049	12491049	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.412+42139G>C"	""	""	"ENST00000412294"	""	83	"52"	31	54	"54"	0	"AC096559.1,intron_variant,,ENST00000412294,;AC096559.1,intron_variant,,ENST00000412606,;"	"C"	"ENSG00000224184"	"ENST00000412294"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2183"	""	""	""	""	""	"1"	NA	1	"AC096559.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c2bd2bd8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373493975903614	"WGS"	FALSE
"11202"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	13586042	13586042	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"69"	29	77	"77"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c2bd6b70-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295918367346939	"WGS"	FALSE
"11203"	"AC008271.1"	101926966	"mskcc.org"	"GRCh37"	"2"	15861880	15861880	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.282+20381G>C"	""	""	"ENST00000436967"	""	97	"72"	25	58	"58"	0	"AC008271.1,intron_variant,,ENST00000436967,;AC008271.1,downstream_gene_variant,,ENST00000492352,;"	"C"	"ENSG00000231031"	"ENST00000436967"	"Transcript"	"intron_variant"	"-/431"	"-/366"	"-/121"	""	""	""	"1"	NA	1	"AC008271.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000399192"	""	""	"UPI000173A3E9"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c2bdc2d2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257731958762887	"WGS"	FALSE
"11204"	"AC092594.1"	0	"mskcc.org"	"GRCh37"	"2"	19407979	19407979	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.106-82831A>G"	""	""	"ENST00000449124"	""	82	"58"	24	65	"65"	0	"AC092594.1,intron_variant,,ENST00000449124,;AC092594.1,intron_variant,,ENST00000432142,;AC092594.1,intron_variant,,ENST00000418165,;"	"C"	"ENSG00000236204"	"ENST00000449124"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/626"	""	""	""	""	""	"1"	NA	-1	"AC092594.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c2be58aa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292682926829268	"WGS"	FALSE
"11205"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	19940234	19940234	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"61"	28	45	"44"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c2be78a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314606741573034	"WGS"	FALSE
"11206"	"DTNB"	1838	"mskcc.org"	"GRCh37"	"2"	25894632	25894632	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-2+1623T>C"	""	""	"ENST00000406818"	""	95	"88"	7	55	"55"	0	"DTNB,intron_variant,,ENST00000406818,NM_001256303.1,NM_021907.4;DTNB,intron_variant,,ENST00000407661,NM_183360.2,NM_001256304.1;DTNB,intron_variant,,ENST00000404103,NM_033147.3;DTNB,intron_variant,,ENST00000288642,;DTNB,intron_variant,,ENST00000407038,NM_033148.3;DTNB,intron_variant,,ENST00000407186,;DTNB,intron_variant,,ENST00000405222,NM_183361.2;DTNB,intron_variant,,ENST00000545439,;DTNB,intron_variant,,ENST00000349996,;DTNB,intron_variant,,ENST00000486826,;DTNB,intron_variant,,ENST00000398951,;DTNB,intron_variant,,ENST00000356599,;DTNB,intron_variant,,ENST00000493538,;"	"G"	"ENSG00000138101"	"ENST00000406818"	"Transcript"	"intron_variant"	"-/2474"	"-/1884"	"-/627"	""	""	""	"1"	NA	-1	"DTNB"	"HGNC"	3058	"protein_coding"	"YES"	"CCDS46237.1"	"ENSP00000384084"	"O60941"	"Q53TC8,Q53T51,Q53SF9,Q53QV1,F8W9U0,E9PE76,E7ES64"	"UPI0000129949"	"NM_001256303.1,NM_021907.4"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"c2bfcf1e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"11207"	"RAB10"	10890	"mskcc.org"	"GRCh37"	"2"	26364936	26364936	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000264710"	""	99	"71"	28	52	"52"	0	"RAB10,downstream_gene_variant,,ENST00000264710,NM_016131.4;AC011742.3,upstream_gene_variant,,ENST00000443818,;"	"C"	"ENSG00000084733"	"ENST00000264710"	"Transcript"	"downstream_gene_variant"	"-/3535"	"-/603"	"-/200"	""	""	""	"1"	"4613"	1	"RAB10"	"HGNC"	9759	"protein_coding"	"YES"	"CCDS1720.1"	"ENSP00000264710"	"P61026"	"Q9UL28,Q53T70,Q53SX4"	"UPI0000001263"	"NM_016131.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c2c005a6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282828282828283	"WGS"	FALSE
"11208"	"KHK"	3795	"mskcc.org"	"GRCh37"	"2"	27318510	27318510	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.344+1031T>C"	""	""	"ENST00000260599"	""	103	"91"	12	56	"56"	0	"KHK,intron_variant,,ENST00000260599,NM_000221.2;KHK,intron_variant,,ENST00000260598,NM_006488.2;KHK,intron_variant,,ENST00000429697,;CGREF1,downstream_gene_variant,,ENST00000402394,NM_006569.5;CGREF1,downstream_gene_variant,,ENST00000402550,NM_001166240.1;CGREF1,downstream_gene_variant,,ENST00000452318,NM_001166241.1;KHK,intron_variant,,ENST00000490823,;KHK,intron_variant,,ENST00000464371,;KHK,intron_variant,,ENST00000469936,;CGREF1,downstream_gene_variant,,ENST00000440612,;"	"C"	"ENSG00000138030"	"ENST00000260599"	"Transcript"	"intron_variant"	"-/2411"	"-/897"	"-/298"	""	""	""	"1"	NA	1	"KHK"	"HGNC"	6315	"protein_coding"	"YES"	"CCDS1734.1"	"ENSP00000260599"	"P50053"	""	"UPI000012DE02"	"NM_000221.2"	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"c2c04ebc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116504854368932	"WGS"	FALSE
"11209"	"C2orf16"	84226	"mskcc.org"	"GRCh37"	"2"	27795888	27795888	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408964"	""	112	"99"	13	56	"56"	0	"C2orf16,upstream_gene_variant,,ENST00000408964,NM_032266.3;"	"C"	"ENSG00000221843"	"ENST00000408964"	"Transcript"	"upstream_gene_variant"	"-/6200"	"-/5955"	"-/1984"	""	""	""	"1"	"3501"	1	"C2orf16"	"HGNC"	25275	"protein_coding"	"YES"	"CCDS42666.1"	"ENSP00000386190"	"Q68DN1"	""	"UPI0000D61179"	"NM_032266.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c2c07c5c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116071428571429	"WGS"	FALSE
"11210"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	30213132	30213132	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"74"	24	42	"42"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c2c11360-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244897959183673	"WGS"	FALSE
"11211"	"ENSR00000675939"	0	"mskcc.org"	"GRCh37"	"2"	31987264	31987264	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000675939"	""	88	"57"	31	54	"54"	0	""	"A"	""	"ENSR00000675939"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c2c15528-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352272727272727	"WGS"	FALSE
"11212"	"MEMO1"	51072	"mskcc.org"	"GRCh37"	"2"	32237113	32237113	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000295065"	""	79	"62"	17	55	"55"	0	"MEMO1,upstream_gene_variant,,ENST00000295065,NM_015955.2;MEMO1,upstream_gene_variant,,ENST00000404530,;MEMO1,upstream_gene_variant,,ENST00000426310,NM_001137602.1;MEMO1,upstream_gene_variant,,ENST00000407893,;MEMO1,upstream_gene_variant,,ENST00000437854,;CTC-336P14.1,upstream_gene_variant,,ENST00000605811,;DPY30,non_coding_transcript_exon_variant,,ENST00000452582,;DPY30,non_coding_transcript_exon_variant,,ENST00000414013,;DPY30,intron_variant,,ENST00000446765,;MEMO1,upstream_gene_variant,,ENST00000490459,;MEMO1,upstream_gene_variant,,ENST00000413686,;"	"T"	"ENSG00000162959"	"ENST00000295065"	"Transcript"	"upstream_gene_variant"	"-/4505"	"-/894"	"-/297"	""	""	""	"1"	"1487"	-1	"MEMO1"	"HGNC"	14014	"protein_coding"	"YES"	"CCDS1776.1"	"ENSP00000295065"	"Q9Y316"	"C9JSD7"	"UPI0000001C55"	"NM_015955.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c2c16982-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215189873417722	"WGS"	FALSE
"11213"	"AC073218.1"	0	"mskcc.org"	"GRCh37"	"2"	34627690	34627690	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs543744033"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.475+18054C>T"	""	""	"ENST00000422558"	""	79	"52"	27	50	"50"	0	"AC073218.1,intron_variant,,ENST00000422558,;AC011748.1,downstream_gene_variant,,ENST00000390736,;"	"T"	"ENSG00000226785"	"ENST00000422558"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/567"	""	""	""	""	"rs543744033"	"1"	NA	1	"AC073218.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	"T:0.0036"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.0184"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c2c28ee8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341772151898734	"WGS"	FALSE
"11214"	"AC012593.1"	0	"mskcc.org"	"GRCh37"	"2"	35318984	35318984	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.116-65166C>A"	""	""	"ENST00000588944"	""	93	"65"	28	52	"52"	0	"AC012593.1,intron_variant,,ENST00000588944,;AC012593.1,intron_variant,,ENST00000592523,;AC012593.1,intron_variant,,ENST00000586769,;AC012593.1,intron_variant,,ENST00000588650,;AC012593.1,intron_variant,,ENST00000587791,;AC012593.1,intron_variant,,ENST00000585391,;AC012593.1,intron_variant,,ENST00000453451,;AC012593.1,intron_variant,,ENST00000591221,;"	"A"	"ENSG00000226994"	"ENST00000588944"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/919"	""	""	""	""	""	"1"	NA	1	"AC012593.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c2c2ae78-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301075268817204	"WGS"	FALSE
"11215"	"DHX57"	90957	"mskcc.org"	"GRCh37"	"2"	39026275	39026275	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4018-691T>C"	""	""	"ENST00000295373"	""	89	"82"	7	37	"37"	0	"DHX57,intron_variant,,ENST00000295373,NM_198963.1;DHX57,intron_variant,,ENST00000452978,;DHX57,intron_variant,,ENST00000460193,;DHX57,intron_variant,,ENST00000457308,;DHX57,intron_variant,,ENST00000477981,;"	"G"	"ENSG00000163214"	"ENST00000295373"	"Transcript"	"intron_variant"	"-/4858"	"-/4161"	"-/1386"	""	""	""	"1"	NA	-1	"DHX57"	"HGNC"	20086	"protein_coding"	"YES"	"CCDS1800.1"	"ENSP00000295373"	"Q6P158"	"C9J207,B4DKW2"	"UPI0000231C8C"	"NM_198963.1"	""	""	""	"23/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c2c39a9a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	FALSE
"11216"	"MAP4K3"	8491	"mskcc.org"	"GRCh37"	"2"	39620598	39620598	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.97-15334A>G"	""	""	"ENST00000263881"	""	95	"75"	20	51	"51"	0	"MAP4K3,intron_variant,,ENST00000263881,NM_003618.3;MAP4K3,intron_variant,,ENST00000341681,NM_001270425.1;MAP4K3,intron_variant,,ENST00000484274,;RNU6-1185P,downstream_gene_variant,,ENST00000516430,;MAP4K3,intron_variant,,ENST00000429397,;MAP4K3,intron_variant,,ENST00000437968,;"	"C"	"ENSG00000011566"	"ENST00000263881"	"Transcript"	"intron_variant"	"-/4362"	"-/2685"	"-/894"	""	""	""	"1"	NA	-1	"MAP4K3"	"HGNC"	6865	"protein_coding"	"YES"	"CCDS1803.1"	"ENSP00000263881"	"Q8IVH8"	"Q53RV1,H7C1A4,B4DSS3,B3KMM5"	"UPI00000747E6"	"NM_003618.3"	""	""	""	"1/33"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c2c3c0ba-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"11217"	"DYNC2LI1"	51626	"mskcc.org"	"GRCh37"	"2"	44012193	44012193	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.161+1500T>C"	""	""	"ENST00000260605"	""	86	"78"	8	66	"66"	0	"DYNC2LI1,intron_variant,,ENST00000398823,;DYNC2LI1,intron_variant,,ENST00000260605,NM_001193464.1,NM_016008.3;DYNC2LI1,intron_variant,,ENST00000605786,;DYNC2LI1,intron_variant,,ENST00000378587,;DYNC2LI1,intron_variant,,ENST00000406852,NM_015522.3;DYNC2LI1,intron_variant,,ENST00000443170,;DYNC2LI1,intron_variant,,ENST00000489222,;DYNC2LI1,intron_variant,,ENST00000462426,;DYNC2LI1,intron_variant,,ENST00000479242,;DYNC2LI1,intron_variant,,ENST00000496980,;"	"C"	"ENSG00000138036"	"ENST00000260605"	"Transcript"	"intron_variant"	"-/1399"	"-/1056"	"-/351"	""	""	""	"1"	NA	1	"DYNC2LI1"	"HGNC"	24595	"protein_coding"	"YES"	"CCDS1813.1"	"ENSP00000260605"	"Q8TCX1"	"F8W853"	"UPI0000044727"	"NM_001193464.1,NM_016008.3"	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c2c4b9ac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"11218"	"LRPPRC"	10128	"mskcc.org"	"GRCh37"	"2"	44227433	44227433	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000260665"	""	79	"72"	7	32	"32"	0	"LRPPRC,upstream_gene_variant,,ENST00000260665,NM_133259.3;LRPPRC,upstream_gene_variant,,ENST00000409946,;LRPPRC,upstream_gene_variant,,ENST00000409659,;LRPPRC,upstream_gene_variant,,ENST00000447246,;"	"T"	"ENSG00000138095"	"ENST00000260665"	"Transcript"	"upstream_gene_variant"	"-/6335"	"-/4185"	"-/1394"	""	""	""	"1"	"4289"	-1	"LRPPRC"	"HGNC"	15714	"protein_coding"	"YES"	"CCDS33189.1"	"ENSP00000260665"	"P42704"	"E5KNY5"	"UPI000019B4D2"	"NM_133259.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"c2c4c99c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"11219"	"CAMKMT"	79823	"mskcc.org"	"GRCh37"	"2"	44977405	44977405	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.699-3789C>A"	""	""	"ENST00000378494"	""	66	"47"	19	66	"66"	0	"CAMKMT,intron_variant,,ENST00000378494,NM_024766.4;"	"A"	"ENSG00000143919"	"ENST00000378494"	"Transcript"	"intron_variant"	"-/1495"	"-/972"	"-/323"	""	""	""	"1"	NA	1	"CAMKMT"	"HGNC"	26276	"protein_coding"	"YES"	"CCDS1820.1"	"ENSP00000367755"	"Q7Z624"	"D6W5A4"	"UPI0000070B33"	"NM_024766.4"	""	""	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"c2c4f94e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287878787878788	"WGS"	FALSE
"11220"	"NRXN1"	9378	"mskcc.org"	"GRCh37"	"2"	50514827	50514827	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3485-50719A>T"	""	""	"ENST00000404971"	""	79	"65"	14	62	"62"	0	"NRXN1,intron_variant,,ENST00000404971,NM_001135659.1;NRXN1,intron_variant,,ENST00000406316,NM_004801.4;NRXN1,intron_variant,,ENST00000401669,;NRXN1,intron_variant,,ENST00000405472,;NRXN1,intron_variant,,ENST00000342183,NM_138735.2;NRXN1,intron_variant,,ENST00000402717,;NRXN1,intron_variant,,ENST00000406859,;NRXN1,intron_variant,,ENST00000401710,;NRXN1,intron_variant,,ENST00000331040,;"	"A"	"ENSG00000179915"	"ENST00000404971"	"Transcript"	"intron_variant"	"-/7578"	"-/4644"	"-/1547"	""	""	""	"1"	NA	-1	"NRXN1"	"HGNC"	8008	"protein_coding"	"YES"	"CCDS46282.1"	"ENSP00000385142"	"Q9ULB1"	"Q08AH0"	"UPI00015A218A"	"NM_001135659.1"	""	""	""	"18/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"c2c63020-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177215189873418	"WGS"	FALSE
"11221"	"NRXN1"	9378	"mskcc.org"	"GRCh37"	"2"	50680330	50680330	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3484+12250C>T"	""	""	"ENST00000404971"	""	96	"74"	22	41	"41"	0	"NRXN1,intron_variant,,ENST00000404971,NM_001135659.1;NRXN1,intron_variant,,ENST00000406316,NM_004801.4;NRXN1,intron_variant,,ENST00000401669,;NRXN1,intron_variant,,ENST00000405472,;NRXN1,intron_variant,,ENST00000402717,;NRXN1,intron_variant,,ENST00000406859,;NRXN1,intron_variant,,ENST00000401710,;NRXN1,intron_variant,,ENST00000331040,;"	"A"	"ENSG00000179915"	"ENST00000404971"	"Transcript"	"intron_variant"	"-/7578"	"-/4644"	"-/1547"	""	""	""	"1"	NA	-1	"NRXN1"	"HGNC"	8008	"protein_coding"	"YES"	"CCDS46282.1"	"ENSP00000385142"	"Q9ULB1"	"Q08AH0"	"UPI00015A218A"	"NM_001135659.1"	""	""	""	"18/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"c2c635d4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229166666666667	"WGS"	FALSE
"11222"	"NRXN1"	9378	"mskcc.org"	"GRCh37"	"2"	51076145	51076145	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.931+72862G>A"	""	""	"ENST00000404971"	""	93	"67"	26	57	"57"	0	"NRXN1,intron_variant,,ENST00000404971,NM_001135659.1;NRXN1,intron_variant,,ENST00000406316,NM_004801.4;NRXN1,intron_variant,,ENST00000401669,;NRXN1,intron_variant,,ENST00000405472,;NRXN1,intron_variant,,ENST00000402717,;NRXN1,intron_variant,,ENST00000406859,;"	"T"	"ENSG00000179915"	"ENST00000404971"	"Transcript"	"intron_variant"	"-/7578"	"-/4644"	"-/1547"	""	""	""	"1"	NA	-1	"NRXN1"	"HGNC"	8008	"protein_coding"	"YES"	"CCDS46282.1"	"ENSP00000385142"	"Q9ULB1"	"Q08AH0"	"UPI00015A218A"	"NM_001135659.1"	""	""	""	"6/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"c2c6411e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279569892473118	"WGS"	FALSE
"11223"	"AC007682.1"	730100	"mskcc.org"	"GRCh37"	"2"	51401904	51401904	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.514+122312C>T"	""	""	"ENST00000440698"	""	91	"64"	27	47	"47"	0	"AC007682.1,intron_variant,,ENST00000440698,;"	"T"	"ENSG00000231918"	"ENST00000440698"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3939"	""	""	""	""	""	"1"	NA	1	"AC007682.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c2c64a9c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296703296703297	"WGS"	FALSE
"11224"	"FTH1P6"	0	"mskcc.org"	"GRCh37"	"2"	52852721	52852721	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000430768"	""	83	"77"	6	52	"52"	0	"FTH1P6,upstream_gene_variant,,ENST00000430768,;"	"T"	"ENSG00000233083"	"ENST00000430768"	"Transcript"	"upstream_gene_variant"	"-/320"	""	""	""	""	""	"1"	"4160"	1	"FTH1P6"	"HGNC"	39088	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c2c67bd4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"11225"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	52937479	52937479	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"59"	21	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c2c67f44-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2625	"WGS"	FALSE
"11226"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	53296280	53296280	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"63"	21	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c2c68fc0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"11227"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	59329631	59329631	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"65"	21	70	"70"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c2c7836c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244186046511628	"WGS"	FALSE
"11228"	"RP11-444A22.1"	0	"mskcc.org"	"GRCh37"	"2"	59787648	59787648	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.237-48308A>T"	""	""	"ENST00000606382"	""	75	"66"	9	51	"51"	0	"AC007131.2,intron_variant,,ENST00000412409,;RP11-444A22.1,intron_variant,,ENST00000606382,;"	"A"	"ENSG00000271955"	"ENST00000606382"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/478"	""	""	""	""	""	"1"	NA	-1	"RP11-444A22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c2c7912c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"11229"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	61894992	61894992	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"61"	23	67	"67"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c2c8040e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273809523809524	"WGS"	FALSE
"11230"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	61894993	61894993	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"62"	22	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c2c804ea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261904761904762	"WGS"	FALSE
"11231"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	61945598	61945598	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"60"	16	47	"47"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c2c80cc4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"11232"	"AC092155.4"	0	"mskcc.org"	"GRCh37"	"2"	62819359	62819359	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.251-1647A>C"	""	""	"ENST00000444672"	""	72	"66"	6	33	"33"	0	"AC092155.4,intron_variant,,ENST00000444672,;"	"G"	"ENSG00000226622"	"ENST00000444672"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/573"	""	""	""	""	""	"1"	NA	-1	"AC092155.4"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c2c84e78-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"11233"	"AC074391.1"	101927533	"mskcc.org"	"GRCh37"	"2"	65998882	65998882	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.668+16965G>A"	""	""	"ENST00000606978"	""	95	"65"	30	46	"46"	0	"AC074391.1,intron_variant,,ENST00000606978,;AC074391.1,downstream_gene_variant,,ENST00000414811,;"	"A"	"ENSG00000204929"	"ENST00000606978"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1117"	""	""	""	""	""	"1"	NA	1	"AC074391.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c2c908b8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WGS"	FALSE
"11234"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	71397571	71397571	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"82"	5	60	"60"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c2ca487c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0574712643678161	"WGS"	FALSE
"11235"	"EXOC6B"	23233	"mskcc.org"	"GRCh37"	"2"	72801694	72801694	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.846+927G>A"	""	""	"ENST00000272427"	""	100	"71"	29	59	"59"	0	"EXOC6B,intron_variant,,ENST00000272427,NM_015189.1;EXOC6B,intron_variant,,ENST00000410104,;EXOC6B,intron_variant,,ENST00000410112,;"	"T"	"ENSG00000144036"	"ENST00000272427"	"Transcript"	"intron_variant"	"-/5918"	"-/2436"	"-/811"	""	""	""	"1"	NA	-1	"EXOC6B"	"HGNC"	17085	"protein_coding"	"YES"	"CCDS46333.1"	"ENSP00000272427"	"Q9Y2D4"	"Q9H8D6"	"UPI000046995C"	"NM_015189.1"	""	""	""	"7/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c2ca9fc0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29	"WGS"	FALSE
"11236"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	76208701	76208701	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	58	"54"	4	41	"41"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c2cb73be-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"11237"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	76728010	76728010	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"66"	19	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c2cb864c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223529411764706	"WGS"	FALSE
"11238"	"LRRTM4"	80059	"mskcc.org"	"GRCh37"	"2"	77172699	77172699	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1552-196657G>T"	""	""	"ENST00000409093"	""	88	"59"	29	57	"57"	0	"LRRTM4,intron_variant,,ENST00000409911,NM_001282924.1,NM_001134745.1;LRRTM4,intron_variant,,ENST00000409093,;LRRTM4,intron_variant,,ENST00000409884,;"	"A"	"ENSG00000176204"	"ENST00000409093"	"Transcript"	"intron_variant"	"-/2247"	"-/1773"	"-/590"	""	""	""	"1"	NA	-1	"LRRTM4"	"HGNC"	19411	"protein_coding"	"YES"	"CCDS46346.1"	"ENSP00000386357"	"Q86VH4"	"C9JM64"	"UPI0000047808"	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c2cb9cfe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329545454545455	"WGS"	FALSE
"11239"	"LRRTM4"	80059	"mskcc.org"	"GRCh37"	"2"	77253187	77253187	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs550542897"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1552-277145C>T"	""	""	"ENST00000409093"	""	81	"59"	22	66	"66"	0	"LRRTM4,intron_variant,,ENST00000409911,NM_001282924.1,NM_001134745.1;LRRTM4,intron_variant,,ENST00000409093,;LRRTM4,intron_variant,,ENST00000409884,;"	"A"	"ENSG00000176204"	"ENST00000409093"	"Transcript"	"intron_variant"	"-/2247"	"-/1773"	"-/590"	""	""	"rs550542897"	"1"	NA	-1	"LRRTM4"	"HGNC"	19411	"protein_coding"	"YES"	"CCDS46346.1"	"ENSP00000386357"	"Q86VH4"	"C9JM64"	"UPI0000047808"	""	""	""	""	"3/3"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c2cba05a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271604938271605	"WGS"	FALSE
"11240"	"LRRTM4"	80059	"mskcc.org"	"GRCh37"	"2"	77418976	77418976	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1551+326468A>T"	""	""	"ENST00000409093"	""	81	"76"	5	78	"78"	0	"LRRTM4,intron_variant,,ENST00000409911,NM_001282924.1,NM_001134745.1;LRRTM4,intron_variant,,ENST00000409093,;LRRTM4,intron_variant,,ENST00000409884,;"	"A"	"ENSG00000176204"	"ENST00000409093"	"Transcript"	"intron_variant"	"-/2247"	"-/1773"	"-/590"	""	""	""	"1"	NA	-1	"LRRTM4"	"HGNC"	19411	"protein_coding"	"YES"	"CCDS46346.1"	"ENSP00000386357"	"Q86VH4"	"C9JM64"	"UPI0000047808"	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c2cbb450-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"11241"	"LRRTM4"	80059	"mskcc.org"	"GRCh37"	"2"	77506897	77506897	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1551+238547C>A"	""	""	"ENST00000409093"	""	87	"62"	25	71	"71"	0	"LRRTM4,intron_variant,,ENST00000409911,NM_001282924.1,NM_001134745.1;LRRTM4,intron_variant,,ENST00000409093,;LRRTM4,intron_variant,,ENST00000409884,;"	"T"	"ENSG00000176204"	"ENST00000409093"	"Transcript"	"intron_variant"	"-/2247"	"-/1773"	"-/590"	""	""	""	"1"	NA	-1	"LRRTM4"	"HGNC"	19411	"protein_coding"	"YES"	"CCDS46346.1"	"ENSP00000386357"	"Q86VH4"	"C9JM64"	"UPI0000047808"	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c2cbb612-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28735632183908	"WGS"	FALSE
"11242"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	78070299	78070299	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"68"	20	63	"63"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c2cbd4e4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"11243"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	78173986	78173986	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"50"	23	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c2cbd85e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315068493150685	"WGS"	FALSE
"11244"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	78220979	78220979	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"75"	30	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c2cbdaf2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"11245"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	79224345	79224345	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"90"	7	77	"77"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c2cbfb7c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0721649484536082	"WGS"	FALSE
"11246"	"CTNNA2"	1496	"mskcc.org"	"GRCh37"	"2"	80232070	80232070	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1056+95147C>A"	""	""	"ENST00000466387"	""	83	"55"	28	47	"47"	0	"CTNNA2,intron_variant,,ENST00000466387,;CTNNA2,intron_variant,,ENST00000496558,NM_001164883.1,NM_004389.3,NM_001282598.1;CTNNA2,intron_variant,,ENST00000402739,NM_001282597.1;CTNNA2,intron_variant,,ENST00000541047,;CTNNA2,intron_variant,,ENST00000361291,;CTNNA2,intron_variant,,ENST00000540488,;"	"A"	"ENSG00000066032"	"ENST00000466387"	"Transcript"	"intron_variant"	"-/4349"	"-/2718"	"-/905"	""	""	""	"1"	NA	1	"CTNNA2"	"HGNC"	2510	"protein_coding"	"YES"	"CCDS42703.2"	"ENSP00000418191"	"P26232"	"F6KRI5,C9J144,C9IZ88"	"UPI00001A3E86"	""	""	""	""	"11/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c2cc19cc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337349397590361	"WGS"	FALSE
"11247"	"CTNNA2"	1496	"mskcc.org"	"GRCh37"	"2"	80697211	80697211	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1290+50485A>T"	""	""	"ENST00000466387"	""	73	"57"	16	54	"54"	0	"CTNNA2,intron_variant,,ENST00000466387,;CTNNA2,intron_variant,,ENST00000496558,NM_001164883.1,NM_004389.3,NM_001282598.1;CTNNA2,intron_variant,,ENST00000402739,NM_001282597.1;CTNNA2,intron_variant,,ENST00000541047,;CTNNA2,intron_variant,,ENST00000343114,NM_001282600.1,NM_001282599.1;CTNNA2,intron_variant,,ENST00000361291,;CTNNA2,intron_variant,,ENST00000540488,;CTNNA2,intron_variant,,ENST00000409550,;CTNNA2,intron_variant,,ENST00000493024,;CTNNA2,intron_variant,,ENST00000465616,;"	"T"	"ENSG00000066032"	"ENST00000466387"	"Transcript"	"intron_variant"	"-/4349"	"-/2718"	"-/905"	""	""	""	"1"	NA	1	"CTNNA2"	"HGNC"	2510	"protein_coding"	"YES"	"CCDS42703.2"	"ENSP00000418191"	"P26232"	"F6KRI5,C9J144,C9IZ88"	"UPI00001A3E86"	""	""	""	""	"13/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c2cc2980-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219178082191781	"WGS"	FALSE
"11248"	"AC079896.1"	0	"mskcc.org"	"GRCh37"	"2"	82234664	82234664	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000455845"	""	78	"52"	26	69	"68"	1	"AC079896.1,upstream_gene_variant,,ENST00000455845,;"	"T"	"ENSG00000231781"	"ENST00000455845"	"Transcript"	"upstream_gene_variant"	"-/488"	""	""	""	""	""	"1"	"1840"	-1	"AC079896.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c2cc5874-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"11249"	"AC016753.7"	0	"mskcc.org"	"GRCh37"	"2"	85715522	85715522	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000453567"	""	49	"44"	5	23	"23"	0	"AC016753.7,downstream_gene_variant,,ENST00000453567,;"	"T"	"ENSG00000229648"	"ENST00000453567"	"Transcript"	"downstream_gene_variant"	"-/851"	""	""	""	""	""	"1"	"2531"	-1	"AC016753.7"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c2cd01fc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WGS"	FALSE
"11250"	"CD8B"	926	"mskcc.org"	"GRCh37"	"2"	87071867	87071867	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.620+178C>G"	""	""	"ENST00000331469"	""	94	"66"	28	48	"48"	0	"CD8B,intron_variant,,ENST00000390655,NM_004931.4;CD8B,intron_variant,,ENST00000393759,NM_172101.3;CD8B,intron_variant,,ENST00000393761,NM_001178100.1;CD8B,intron_variant,,ENST00000349455,NM_172102.3;CD8B,intron_variant,,ENST00000331469,NM_172213.3;CD8B,intron_variant,,ENST00000431506,;"	"C"	"ENSG00000172116"	"ENST00000331469"	"Transcript"	"intron_variant"	"-/832"	"-/732"	"-/243"	""	""	""	"1"	NA	-1	"CD8B"	"HGNC"	1707	"protein_coding"	"YES"	"CCDS1995.1"	"ENSP00000331172"	"P10966"	"Q8TD28,B4E0F8"	"UPI0000160A12"	"NM_172213.3"	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c2cd5e86-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297872340425532	"WGS"	FALSE
"11251"	"PGBD4P5"	0	"mskcc.org"	"GRCh37"	"2"	89220273	89220273	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000445958"	""	71	"51"	20	44	"44"	0	"PGBD4P5,downstream_gene_variant,,ENST00000445958,;"	"A"	"ENSG00000225136"	"ENST00000445958"	"Transcript"	"downstream_gene_variant"	"-/426"	""	""	""	""	""	"1"	"1571"	-1	"PGBD4P5"	"HGNC"	44070	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c2cf0100-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28169014084507	"WGS"	FALSE
"11252"	"IGKV1D-37"	0	"mskcc.org"	"GRCh37"	"2"	89928482	89928482	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000509129"	""	152	"130"	22	89	"89"	0	"IGKV1D-37,downstream_gene_variant,,ENST00000509129,;IGKV2D-36,downstream_gene_variant,,ENST00000518643,;"	"A"	"ENSG00000250036"	"ENST00000509129"	"Transcript"	"downstream_gene_variant"	"-/353"	"-/353"	"-/117"	""	""	""	"1"	"4456"	1	"IGKV1D-37"	"HGNC"	5755	"IG_V_gene"	"YES"	""	"ENSP00000425962"	""	""	"UPI0000F30382"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c2cf9994-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.144736842105263	"WGS"	FALSE
"11253"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	92039041	92039041	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"73"	24	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c2d2c114-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247422680412371	"WGS"	FALSE
"11254"	"ANKRD36B"	0	"mskcc.org"	"GRCh37"	"2"	98106817	98106817	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000497329"	""	107	"100"	7	65	"65"	0	"ANKRD36B,downstream_gene_variant,,ENST00000497329,;ANKRD36B,downstream_gene_variant,,ENST00000488634,;ANKRD36B,downstream_gene_variant,,ENST00000377003,;"	"A"	"ENSG00000196912"	"ENST00000497329"	"Transcript"	"downstream_gene_variant"	"-/802"	""	""	""	""	""	"1"	"2161"	-1	"ANKRD36B"	"HGNC"	29333	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c2d4cc3e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0654205607476635	"WGS"	FALSE
"11255"	"PDCL3"	79031	"mskcc.org"	"GRCh37"	"2"	101189179	101189179	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.577+919T>A"	""	""	"ENST00000264254"	""	82	"76"	6	56	"56"	0	"PDCL3,intron_variant,,ENST00000264254,NM_024065.4;PDCL3,downstream_gene_variant,,ENST00000450127,;PDCL3,downstream_gene_variant,,ENST00000416255,;snoU13,upstream_gene_variant,,ENST00000458824,;"	"A"	"ENSG00000115539"	"ENST00000264254"	"Transcript"	"intron_variant"	"-/1337"	"-/720"	"-/239"	""	""	""	"1"	NA	1	"PDCL3"	"HGNC"	28860	"protein_coding"	"YES"	"CCDS33261.1"	"ENSP00000264254"	"Q9H2J4"	"C9JST4"	"UPI00000372D0"	"NM_024065.4"	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c2d55d34-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"11256"	"AC092570.4"	0	"mskcc.org"	"GRCh37"	"2"	102143228	102143228	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000452117"	""	77	"55"	22	49	"49"	0	"AC092570.4,upstream_gene_variant,,ENST00000452117,;"	"A"	"ENSG00000232556"	"ENST00000452117"	"Transcript"	"upstream_gene_variant"	"-/1143"	""	""	""	""	""	"1"	"4790"	-1	"AC092570.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c2d598da-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"11257"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	104162246	104162246	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"55"	25	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c2d5f276-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"11258"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	104333855	104333855	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	65	"51"	14	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c2d5f6e0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215384615384615	"WGS"	FALSE
"11259"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	104373825	104373825	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"89"	6	72	"72"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c2d5fc58-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0631578947368421	"WGS"	FALSE
"11260"	"LINC01159"	0	"mskcc.org"	"GRCh37"	"2"	105487518	105487518	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.207+1186A>G"	""	""	"ENST00000433433"	""	103	"71"	32	68	"68"	0	"LINC01159,intron_variant,,ENST00000433433,;LINC01159,intron_variant,,ENST00000434764,;RP11-13J10.1,intron_variant,,ENST00000598623,;AC018730.4,upstream_gene_variant,,ENST00000454183,;"	"C"	"ENSG00000229743"	"ENST00000433433"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3103"	""	""	""	""	""	"1"	NA	-1	"LINC01159"	"HGNC"	49514	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c2d62a02-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310679611650485	"WGS"	FALSE
"11261"	"ENSR00001545145"	0	"mskcc.org"	"GRCh37"	"2"	106671480	106671480	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001545145"	""	79	"54"	25	62	"62"	0	""	"G"	""	"ENSR00001545145"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c2d66ba2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316455696202532	"WGS"	FALSE
"11262"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	107709386	107709386	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"60"	20	61	"61"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c2d6b40e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"11263"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	107763463	107763463	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"59"	22	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c2d6b4ea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271604938271605	"WGS"	FALSE
"11264"	"AC096669.3"	0	"mskcc.org"	"GRCh37"	"2"	108155378	108155378	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs78895981"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.345+7143C>T"	""	""	"ENST00000443205"	""	93	"86"	7	46	"46"	0	"AC096669.3,intron_variant,,ENST00000443205,;AC096669.2,intron_variant,,ENST00000414300,;AC096669.3,upstream_gene_variant,,ENST00000439893,;"	"T"	"ENSG00000224568"	"ENST00000443205"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1539"	""	""	""	""	"rs78895981"	"1"	NA	1	"AC096669.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	"T:0.0054"	"T:0"	"T:0"	NA	"T:0.0258"	"T:0"	"T:0.001"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c2d6c2be-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"11265"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	108213851	108213851	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"64"	12	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c2d6cc50-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"11266"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	108350384	108350384	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"67"	32	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c2d6ce08-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323232323232323	"WGS"	FALSE
"11267"	"SULT1C2"	6819	"mskcc.org"	"GRCh37"	"2"	108914916	108914916	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.278-107A>T"	""	""	"ENST00000326853"	""	113	"107"	6	45	"45"	0	"SULT1C2,intron_variant,,ENST00000326853,NM_176825.2;SULT1C2,intron_variant,,ENST00000251481,NM_001056.3;SULT1C2,intron_variant,,ENST00000437390,;SULT1C2,intron_variant,,ENST00000409880,;SULT1C2,intron_variant,,ENST00000409067,;SULT1C2,intron_variant,,ENST00000438339,;SULT1C2,downstream_gene_variant,,ENST00000492554,;SULT1C2,intron_variant,,ENST00000442801,;SULT1C2,upstream_gene_variant,,ENST00000495441,;"	"T"	"ENSG00000198203"	"ENST00000326853"	"Transcript"	"intron_variant"	"-/2828"	"-/924"	"-/307"	""	""	""	"1"	NA	1	"SULT1C2"	"HGNC"	11456	"protein_coding"	"YES"	"CCDS2076.1"	"ENSP00000319622"	"O00338"	""	"UPI000002B313"	"NM_176825.2"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c2d6f0e0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0530973451327434	"WGS"	FALSE
"11268"	"LIMS1"	3987	"mskcc.org"	"GRCh37"	"2"	109210815	109210815	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-5+5731G>C"	""	""	"ENST00000393310"	""	92	"63"	29	66	"66"	0	"LIMS1,intron_variant,,ENST00000393310,NM_001193488.1;LIMS1,intron_variant,,ENST00000544547,NM_001193483.2;LIMS1,intron_variant,,ENST00000332345,NM_004987.5;LIMS1,intron_variant,,ENST00000428064,;"	"C"	"ENSG00000169756"	"ENST00000393310"	"Transcript"	"intron_variant"	"-/4392"	"-/978"	"-/325"	""	""	""	"1"	NA	1	"LIMS1"	"HGNC"	6616	"protein_coding"	""	"CCDS2078.1"	"ENSP00000376987"	"P48059"	"F8WB59"	"UPI0000131AF3"	"NM_001193488.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c2d6fd06-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315217391304348	"WGS"	FALSE
"11269"	"RGPD8"	84220	"mskcc.org"	"GRCh37"	"2"	113171827	113171827	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.783-1624A>G"	""	""	"ENST00000302558"	""	54	"49"	5	33	"33"	0	"RGPD8,intron_variant,,ENST00000302558,NM_001164463.1;RGPD8,intron_variant,,ENST00000409750,;RGPD8,intron_variant,,ENST00000330575,;RGPD8,downstream_gene_variant,,ENST00000496537,;RGPD8,intron_variant,,ENST00000522286,;"	"C"	"ENSG00000169629"	"ENST00000302558"	"Transcript"	"intron_variant"	"-/5576"	"-/5298"	"-/1765"	""	""	""	"1"	NA	-1	"RGPD8"	"HGNC"	9849	"protein_coding"	"YES"	"CCDS46394.1"	"ENSP00000306637"	"O14715"	"I1Z9D1,C9J1P2"	"UPI000013E7F5"	"NM_001164463.1"	""	""	""	"6/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c2d83770-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0925925925925926	"WGS"	FALSE
"11270"	"WASH2P"	375260	"mskcc.org"	"GRCh37"	"2"	114361373	114361373	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000538033"	""	25	"20"	5	8	"8"	0	"WASH2P,downstream_gene_variant,,ENST00000538033,;WASH2P,downstream_gene_variant,,ENST00000326632,;WASH2P,downstream_gene_variant,,ENST00000453662,;DDX11L2,upstream_gene_variant,,ENST00000535848,;DDX11L2,upstream_gene_variant,,ENST00000437401,;DDX11L2,upstream_gene_variant,,ENST00000457993,;"	"G"	"ENSG00000146556"	"ENST00000538033"	"Transcript"	"downstream_gene_variant"	"-/2800"	""	""	""	""	""	"1"	"4753"	1	"WASH2P"	"HGNC"	33145	"retained_intron"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c2d8ff98-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"11271"	"DPP10"	57628	"mskcc.org"	"GRCh37"	"2"	116406631	116406631	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.454-40632T>C"	""	""	"ENST00000393147"	""	97	"65"	32	63	"63"	0	"DPP10,intron_variant,,ENST00000410059,NM_001178037.1,NM_020868.3;DPP10,intron_variant,,ENST00000409163,NM_001178036.1;DPP10,intron_variant,,ENST00000310323,NM_001004360.3;DPP10,intron_variant,,ENST00000393147,NM_001178034.1;DPP10,intron_variant,,ENST00000393146,;DPP10,intron_variant,,ENST00000488208,;DPP10,intron_variant,,ENST00000429914,;"	"C"	"ENSG00000175497"	"ENST00000393147"	"Transcript"	"intron_variant"	"-/2758"	"-/2403"	"-/800"	""	""	""	"1"	NA	1	"DPP10"	"HGNC"	20823	"protein_coding"	"YES"	"CCDS54388.1"	"ENSP00000376855"	"Q8N608"	"J3KQK8,C9J4M8"	"UPI00015E0A22"	"NM_001178034.1"	""	""	""	"5/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"c2d97d42-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329896907216495	"WGS"	FALSE
"11272"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	116766216	116766216	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"57"	30	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c2d98d28-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344827586206897	"WGS"	FALSE
"11273"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	117336556	117336556	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"72"	26	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c2d9a8da-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26530612244898	"WGS"	FALSE
"11274"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	118221381	118221381	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"79"	5	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c2d9d6a2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0595238095238095	"WGS"	FALSE
"11275"	"ENSR00001545859"	0	"mskcc.org"	"GRCh37"	"2"	119479340	119479340	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001545859"	""	67	"47"	20	38	"38"	0	""	"A"	""	"ENSR00001545859"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c2da1cde-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298507462686567	"WGS"	FALSE
"11276"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	119952996	119952996	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"53"	21	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c2da389a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283783783783784	"WGS"	FALSE
"11277"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	121884020	121884020	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"60"	27	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c2daace4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"11278"	"NIFK"	84365	"mskcc.org"	"GRCh37"	"2"	122484425	122484425	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000285814"	""	94	"88"	6	55	"55"	0	"NIFK,downstream_gene_variant,,ENST00000285814,NM_032390.4;NIFK,downstream_gene_variant,,ENST00000447132,;NIFK,downstream_gene_variant,,ENST00000423105,;NIFK,downstream_gene_variant,,ENST00000451734,;NIFK-AS1,intron_variant,,ENST00000419902,;NIFK,downstream_gene_variant,,ENST00000477693,;NIFK,downstream_gene_variant,,ENST00000481978,;NIFK,downstream_gene_variant,,ENST00000498570,;"	"T"	"ENSG00000155438"	"ENST00000285814"	"Transcript"	"downstream_gene_variant"	"-/1734"	"-/882"	"-/293"	""	""	""	"1"	"96"	-1	"NIFK"	"HGNC"	17838	"protein_coding"	"YES"	"CCDS2135.1"	"ENSP00000285814"	"Q9BYG3"	"C9J808"	"UPI00000738EB"	"NM_032390.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c2dafadc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"11279"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	122532217	122532217	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"65"	7	39	"39"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c2dafbb8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"11280"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	125783933	125783933	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"53"	22	39	"39"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c2dba1c6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293333333333333	"WGS"	FALSE
"11281"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	125971624	125971624	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"66"	22	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c2dba7f2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"11282"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	126590732	126590732	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"71"	26	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c2dbbb16-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268041237113402	"WGS"	FALSE
"11283"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	126837075	126837075	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"72"	14	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c2dbc822-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162790697674419	"WGS"	FALSE
"11284"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	126857964	126857964	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"66"	22	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c2dbc962-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"11285"	"MAP3K2"	10746	"mskcc.org"	"GRCh37"	"2"	128125089	128125089	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-66+20735G>T"	""	""	"ENST00000409947"	""	102	"96"	6	49	"49"	0	"MAP3K2,intron_variant,,ENST00000409947,;MAP3K2,intron_variant,,ENST00000409179,;"	"A"	"ENSG00000169967"	"ENST00000409947"	"Transcript"	"intron_variant"	"-/10992"	"-/1860"	"-/619"	""	""	""	"1"	NA	-1	"MAP3K2"	"HGNC"	6854	"protein_coding"	"YES"	"CCDS46404.1"	"ENSP00000387246"	"Q9Y2U5"	"Q96K88,F8W6K3"	"UPI0000208C78"	""	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c2dc0b8e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"11286"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	128676435	128676435	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"60"	34	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c2dc303c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.361702127659574	"WGS"	FALSE
"11287"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	129444699	129444699	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"64"	23	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c2dc87ee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264367816091954	"WGS"	FALSE
"11288"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	130177953	130177953	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"69"	6	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c2dcc268-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"11289"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	130823426	130823426	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	32	"28"	4	18	"18"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c2dcf210-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"11290"	"LINC01087"	101927994	"mskcc.org"	"GRCh37"	"2"	132392295	132392295	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000431979"	""	90	"84"	6	53	"53"	0	"LINC01087,upstream_gene_variant,,ENST00000431979,;"	"G"	"ENSG00000224559"	"ENST00000431979"	"Transcript"	"upstream_gene_variant"	"-/3516"	""	""	""	""	""	"1"	"2303"	1	"LINC01087"	"HGNC"	49144	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c2ddceb0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"11291"	"NCKAP5"	344148	"mskcc.org"	"GRCh37"	"2"	133453321	133453321	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5714-22443G>C"	""	""	"ENST00000409261"	""	88	"61"	27	50	"50"	0	"NCKAP5,intron_variant,,ENST00000409261,NM_207363.2;NCKAP5,intron_variant,,ENST00000317721,;NCKAP5,intron_variant,,ENST00000409213,NM_207481.3;NCKAP5,intron_variant,,ENST00000405974,;"	"G"	"ENSG00000176771"	"ENST00000409261"	"Transcript"	"intron_variant"	"-/7592"	"-/5730"	"-/1909"	""	""	""	"1"	NA	-1	"NCKAP5"	"HGNC"	29847	"protein_coding"	"YES"	"CCDS46418.1"	"ENSP00000387128"	"O14513"	"C9JYL7"	"UPI0000E07A3F"	"NM_207363.2"	""	""	""	"19/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c2dea36c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306818181818182	"WGS"	FALSE
"11292"	"THSD7B"	80731	"mskcc.org"	"GRCh37"	"2"	137715660	137715660	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.139+75773A>G"	""	""	"ENST00000272643"	""	96	"67"	29	66	"66"	0	"THSD7B,intron_variant,,ENST00000409968,;THSD7B,intron_variant,,ENST00000272643,;THSD7B,intron_variant,,ENST00000472720,;"	"G"	"ENSG00000144229"	"ENST00000272643"	"Transcript"	"intron_variant"	"-/5942"	"-/4830"	"-/1609"	""	""	""	"1"	NA	1	"THSD7B"	"HGNC"	29348	"protein_coding"	"YES"	""	"ENSP00000272643"	"Q9C0I4"	""	"UPI00015E0A18"	""	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c2df98c6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302083333333333	"WGS"	FALSE
"11293"	"SPOPL"	339745	"mskcc.org"	"GRCh37"	"2"	139319644	139319644	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.837+1147A>T"	""	""	"ENST00000280098"	""	102	"96"	6	62	"62"	0	"SPOPL,intron_variant,,ENST00000280098,NM_001001664.2;SPOPL,intron_variant,,ENST00000420679,;SPOPL,upstream_gene_variant,,ENST00000467775,;"	"T"	"ENSG00000144228"	"ENST00000280098"	"Transcript"	"intron_variant"	"-/6025"	"-/1179"	"-/392"	""	""	""	"1"	NA	1	"SPOPL"	"HGNC"	27934	"protein_coding"	"YES"	"CCDS33298.1"	"ENSP00000280098"	"Q6IQ16"	"B4DEY7"	"UPI0000208BED"	"NM_001001664.2"	""	""	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"c2dfc8aa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"11294"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	143295936	143295936	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"69"	19	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c2e07520-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215909090909091	"WGS"	FALSE
"11295"	"ARHGAP15"	55843	"mskcc.org"	"GRCh37"	"2"	143963546	143963546	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.234+3775C>T"	""	""	"ENST00000295095"	""	78	"55"	23	54	"54"	0	"ARHGAP15,intron_variant,,ENST00000409869,;ARHGAP15,intron_variant,,ENST00000295095,NM_018460.3;ARHGAP15,intron_variant,,ENST00000460776,;ARHGAP15,intron_variant,,ENST00000552641,;"	"T"	"ENSG00000075884"	"ENST00000295095"	"Transcript"	"intron_variant"	"-/1775"	"-/1428"	"-/475"	""	""	""	"1"	NA	1	"ARHGAP15"	"HGNC"	21030	"protein_coding"	"YES"	"CCDS2184.1"	"ENSP00000295095"	"Q53QZ3"	""	"UPI0000035D98"	"NM_018460.3"	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c2e08ff6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294871794871795	"WGS"	FALSE
"11296"	"ARHGAP15"	55843	"mskcc.org"	"GRCh37"	"2"	144014382	144014382	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"rs553239519"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.474+6213T>C"	""	""	"ENST00000295095"	""	104	"67"	37	59	"59"	0	"ARHGAP15,intron_variant,,ENST00000295095,NM_018460.3;ARHGAP15,intron_variant,,ENST00000460776,;ARHGAP15,intron_variant,,ENST00000469117,;ARHGAP15,intron_variant,,ENST00000474474,;ARHGAP15,intron_variant,,ENST00000552641,;"	"C"	"ENSG00000075884"	"ENST00000295095"	"Transcript"	"intron_variant"	"-/1775"	"-/1428"	"-/475"	""	""	"rs553239519"	"1"	NA	1	"ARHGAP15"	"HGNC"	21030	"protein_coding"	"YES"	"CCDS2184.1"	"ENSP00000295095"	"Q53QZ3"	""	"UPI0000035D98"	"NM_018460.3"	""	""	""	"6/13"	""	"C:0.0004"	"C:0"	"C:0"	NA	"C:0"	"C:0.001"	"C:0.001"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c2e090d2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355769230769231	"WGS"	FALSE
"11297"	"ARHGAP15"	55843	"mskcc.org"	"GRCh37"	"2"	144308085	144308085	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.926-5892C>A"	""	""	"ENST00000295095"	""	97	"71"	26	57	"57"	0	"ARHGAP15,intron_variant,,ENST00000295095,NM_018460.3;RP11-570L15.1,intron_variant,,ENST00000553076,;RP11-570L15.2,intron_variant,,ENST00000546678,;ARHGAP15,intron_variant,,ENST00000549436,;"	"A"	"ENSG00000075884"	"ENST00000295095"	"Transcript"	"intron_variant"	"-/1775"	"-/1428"	"-/475"	""	""	""	"1"	NA	1	"ARHGAP15"	"HGNC"	21030	"protein_coding"	"YES"	"CCDS2184.1"	"ENSP00000295095"	"Q53QZ3"	""	"UPI0000035D98"	"NM_018460.3"	""	""	""	"10/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c2e0983e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268041237113402	"WGS"	FALSE
"11298"	"GTDC1"	79712	"mskcc.org"	"GRCh37"	"2"	144739058	144739058	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.876-10729T>C"	""	""	"ENST00000392869"	""	104	"72"	32	67	"66"	1	"GTDC1,intron_variant,,ENST00000392869,NM_001284234.1;GTDC1,intron_variant,,ENST00000409214,NM_001006636.3,NM_001284234.1;GTDC1,intron_variant,,ENST00000542155,NM_001164629.2;GTDC1,intron_variant,,ENST00000344850,;GTDC1,intron_variant,,ENST00000392867,NM_024659.4;GTDC1,intron_variant,,ENST00000241391,;GTDC1,intron_variant,,ENST00000409298,;GTDC1,intron_variant,,ENST00000463875,;GTDC1,intron_variant,,ENST00000415569,NM_001284238.1;GTDC1,intron_variant,,ENST00000392871,NM_001284233.1;"	"G"	"ENSG00000121964"	"ENST00000392869"	"Transcript"	"intron_variant"	"-/10514"	"-/1377"	"-/458"	""	""	""	"1"	NA	-1	"GTDC1"	"HGNC"	20887	"protein_coding"	"YES"	"CCDS33300.1"	"ENSP00000376608"	"Q4AE62"	"G5EA49,G1UFN1,C9JIH3,C9J2C5"	"UPI000022BC3B"	"NM_001284234.1"	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c2e0a1c6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"11299"	"TEX41"	401014	"mskcc.org"	"GRCh37"	"2"	145599457	145599457	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.307+73610A>G"	""	""	"ENST00000445791"	""	107	"67"	40	68	"68"	0	"TEX41,intron_variant,,ENST00000445791,;TEX41,intron_variant,,ENST00000451774,;TEX41,intron_variant,,ENST00000599187,;TEX41,intron_variant,,ENST00000597469,;TEX41,intron_variant,,ENST00000600679,;TEX41,intron_variant,,ENST00000597670,;TEX41,intron_variant,,ENST00000600064,;TEX41,intron_variant,,ENST00000598659,;TEX41,intron_variant,,ENST00000596230,;TEX41,intron_variant,,ENST00000596540,;TEX41,intron_variant,,ENST00000594471,;TEX41,intron_variant,,ENST00000597655,;TEX41,intron_variant,,ENST00000597893,;TEX41,intron_variant,,ENST00000598248,;TEX41,intron_variant,,ENST00000601277,;TEX41,intron_variant,,ENST00000595686,;TEX41,intron_variant,,ENST00000599072,;TEX41,intron_variant,,ENST00000596589,;TEX41,intron_variant,,ENST00000594626,;TEX41,intron_variant,,ENST00000414256,;TEX41,intron_variant,,ENST00000451027,;"	"G"	"ENSG00000226674"	"ENST00000445791"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4635"	""	""	""	""	""	"1"	NA	1	"TEX41"	"HGNC"	48667	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c2e0c2dc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373831775700935	"WGS"	FALSE
"11300"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	146382091	146382091	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"57"	17	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c2e0d678-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22972972972973	"WGS"	FALSE
"11301"	"ENSR00001709898"	0	"mskcc.org"	"GRCh37"	"2"	150761009	150761009	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001709898"	""	91	"71"	20	71	"71"	0	""	"G"	""	"ENSR00001709898"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c2e1a418-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21978021978022	"WGS"	FALSE
"11302"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	150894529	150894529	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"52"	25	65	"65"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c2e1ab0c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324675324675325	"WGS"	FALSE
"11303"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	153117786	153117786	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"61"	25	51	"51"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c2e20c5a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290697674418605	"WGS"	FALSE
"11304"	"GALNT13"	114805	"mskcc.org"	"GRCh37"	"2"	154748619	154748619	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-176-8830A>T"	""	""	"ENST00000392825"	""	69	"51"	18	60	"60"	0	"GALNT13,intron_variant,,ENST00000392825,NM_052917.2;GALNT13,intron_variant,,ENST00000434213,;"	"T"	"ENSG00000144278"	"ENST00000392825"	"Transcript"	"intron_variant"	"-/5536"	"-/1671"	"-/556"	""	""	""	"1"	NA	1	"GALNT13"	"HGNC"	23242	"protein_coding"	"YES"	"CCDS2199.1"	"ENSP00000376570"	"Q8IUC8"	"Q68VI8"	"UPI0000051E22"	"NM_052917.2"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c2e249c2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"11305"	"GALNT13"	114805	"mskcc.org"	"GRCh37"	"2"	154879493	154879493	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.142+78341T>A"	""	""	"ENST00000392825"	""	90	"83"	7	62	"62"	0	"GALNT13,intron_variant,,ENST00000392825,NM_052917.2;GALNT13,intron_variant,,ENST00000409237,;"	"A"	"ENSG00000144278"	"ENST00000392825"	"Transcript"	"intron_variant"	"-/5536"	"-/1671"	"-/556"	""	""	""	"1"	NA	1	"GALNT13"	"HGNC"	23242	"protein_coding"	"YES"	"CCDS2199.1"	"ENSP00000376570"	"Q8IUC8"	"Q68VI8"	"UPI0000051E22"	"NM_052917.2"	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"c2e24e68-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0777777777777778	"WGS"	FALSE
"11306"	"AC092625.1"	0	"mskcc.org"	"GRCh37"	"2"	155818615	155818615	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000442706"	""	86	"60"	26	53	"53"	0	"AC092625.1,downstream_gene_variant,,ENST00000442706,;"	"T"	"ENSG00000230991"	"ENST00000442706"	"Transcript"	"downstream_gene_variant"	"-/393"	""	""	""	""	""	"1"	"3410"	-1	"AC092625.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c2e271cc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302325581395349	"WGS"	FALSE
"11307"	"GALNT5"	11227	"mskcc.org"	"GRCh37"	"2"	158140225	158140225	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1455-569A>T"	""	""	"ENST00000259056"	""	81	"57"	24	63	"63"	0	"GALNT5,intron_variant,,ENST00000259056,NM_014568.1;"	"T"	"ENSG00000136542"	"ENST00000259056"	"Transcript"	"intron_variant"	"-/6171"	"-/2823"	"-/940"	""	""	""	"1"	NA	1	"GALNT5"	"HGNC"	4127	"protein_coding"	"YES"	"CCDS2203.1"	"ENSP00000259056"	"Q7Z7M9"	"Q68VJ5"	"UPI000019AD19"	"NM_014568.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c2e2b060-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"11308"	"TANC1"	85461	"mskcc.org"	"GRCh37"	"2"	160031438	160031438	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1504-26A>T"	""	""	"ENST00000263635"	""	77	"54"	23	51	"51"	0	"TANC1,intron_variant,,ENST00000263635,NM_033394.2,NM_001145909.1;TANC1,intron_variant,,ENST00000454300,;"	"T"	"ENSG00000115183"	"ENST00000263635"	"Transcript"	"intron_variant"	"-/7470"	"-/5586"	"-/1861"	""	""	""	"1"	NA	1	"TANC1"	"HGNC"	29364	"protein_coding"	"YES"	"CCDS42766.1"	"ENSP00000263635"	"Q9C0D5"	""	"UPI0000421D80"	"NM_033394.2,NM_001145909.1"	""	""	""	"11/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c2e30c9a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298701298701299	"WGS"	FALSE
"11309"	"BAZ2B"	29994	"mskcc.org"	"GRCh37"	"2"	160411913	160411913	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-3+421G>T"	""	""	"ENST00000392783"	""	82	"62"	20	61	"61"	0	"BAZ2B,intron_variant,,ENST00000392783,NM_013450.2;BAZ2B,intron_variant,,ENST00000392782,;BAZ2B,intron_variant,,ENST00000355831,;BAZ2B,intron_variant,,ENST00000343439,;BAZ2B,intron_variant,,ENST00000437839,;BAZ2B,intron_variant,,ENST00000541068,;BAZ2B,intron_variant,,ENST00000483316,;BAZ2B,intron_variant,,ENST00000467184,;BAZ2B,downstream_gene_variant,,ENST00000552327,;"	"A"	"ENSG00000123636"	"ENST00000392783"	"Transcript"	"intron_variant"	"-/8289"	"-/6507"	"-/2168"	""	""	""	"1"	NA	-1	"BAZ2B"	"HGNC"	963	"protein_coding"	"YES"	"CCDS2209.2"	"ENSP00000376534"	"Q9UIF8"	"Q8NC87,Q53TG3,C9JCA6"	"UPI0000D74C4A"	"NM_013450.2"	""	""	""	"2/36"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c2e31a0a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24390243902439	"WGS"	FALSE
"11310"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	164177867	164177867	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"57"	21	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c2e3c626-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269230769230769	"WGS"	FALSE
"11311"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	164380636	164380636	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"92"	9	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c2e3ce5a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0891089108910891	"WGS"	FALSE
"11312"	"XIRP2"	129446	"mskcc.org"	"GRCh37"	"2"	168116570	168116570	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000409195"	""	110	"83"	27	69	"69"	0	"XIRP2,downstream_gene_variant,,ENST00000409195,NM_152381.5;XIRP2,downstream_gene_variant,,ENST00000295237,;XIRP2,downstream_gene_variant,,ENST00000409273,NM_001199144.1;XIRP2,downstream_gene_variant,,ENST00000409728,NM_001199143.1;XIRP2,downstream_gene_variant,,ENST00000409043,NM_001079810.3;XIRP2,downstream_gene_variant,,ENST00000409756,;XIRP2,downstream_gene_variant,,ENST00000420519,;XIRP2,downstream_gene_variant,,ENST00000409605,NM_001199145.1;"	"G"	"ENSG00000163092"	"ENST00000409195"	"Transcript"	"downstream_gene_variant"	"-/12675"	"-/10650"	"-/3549"	""	""	""	"1"	"307"	1	"XIRP2"	"HGNC"	14303	"protein_coding"	"YES"	"CCDS42769.1"	"ENSP00000386840"	""	"J3KNB1"	"UPI0000E9BBED"	"NM_152381.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c2e464b4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245454545454545	"WGS"	FALSE
"11313"	"ABCB11"	8647	"mskcc.org"	"GRCh37"	"2"	169866634	169866634	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.389+3148T>C"	""	""	"ENST00000263817"	""	91	"63"	28	59	"59"	0	"ABCB11,intron_variant,,ENST00000263817,NM_003742.2;"	"G"	"ENSG00000073734"	"ENST00000263817"	"Transcript"	"intron_variant"	"-/4775"	"-/3966"	"-/1321"	""	""	""	"1"	NA	-1	"ABCB11"	"HGNC"	42	"protein_coding"	"YES"	"CCDS46444.1"	"ENSP00000263817"	"O95342"	"Q9UIL3,Q53S60,B4DYQ0"	"UPI0000163BFA"	"NM_003742.2"	""	""	""	"5/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"c2e4b04a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"11314"	"AC007277.3"	100130256	"mskcc.org"	"GRCh37"	"2"	171534878	171534878	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.648+4027T>A"	""	""	"ENST00000428156"	""	87	"69"	18	46	"46"	0	"AC007277.3,intron_variant,,ENST00000428156,;"	"T"	"ENSG00000213981"	"ENST00000428156"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2189"	""	""	""	""	""	"1"	NA	-1	"AC007277.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c2e5163e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206896551724138	"WGS"	FALSE
"11315"	"AC013410.2"	0	"mskcc.org"	"GRCh37"	"2"	174574314	174574314	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000422627"	""	92	"80"	12	59	"59"	0	"AC013410.2,upstream_gene_variant,,ENST00000422627,;"	"A"	"ENSG00000237617"	"ENST00000422627"	"Transcript"	"upstream_gene_variant"	"-/201"	""	""	""	""	""	"1"	"3438"	-1	"AC013410.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c2e5c372-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"11316"	"AC018890.6"	0	"mskcc.org"	"GRCh37"	"2"	175604376	175604376	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.321+9824T>C"	""	""	"ENST00000442996"	""	94	"76"	18	72	"72"	0	"AC018890.6,intron_variant,,ENST00000442996,;"	"C"	"ENSG00000236449"	"ENST00000442996"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2400"	""	""	""	""	""	"1"	NA	1	"AC018890.6"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c2e5f1a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191489361702128	"WGS"	FALSE
"11317"	"CHN1"	1123	"mskcc.org"	"GRCh37"	"2"	175661889	175661889	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000409900"	""	86	"80"	6	63	"63"	0	"CHN1,downstream_gene_variant,,ENST00000409900,NM_001822.5;CHN1,downstream_gene_variant,,ENST00000295497,NM_001206602.1;CHN1,downstream_gene_variant,,ENST00000409156,NM_001025201.3;CHN1,downstream_gene_variant,,ENST00000409597,;CHN1,downstream_gene_variant,,ENST00000444394,;CHN1,downstream_gene_variant,,ENST00000409089,;CHN1,downstream_gene_variant,,ENST00000488080,;CHN1,downstream_gene_variant,,ENST00000492964,;"	"T"	"ENSG00000128656"	"ENST00000409900"	"Transcript"	"downstream_gene_variant"	"-/2447"	"-/1380"	"-/459"	""	""	""	"1"	"2202"	-1	"CHN1"	"HGNC"	1943	"protein_coding"	"YES"	"CCDS46455.1"	"ENSP00000386741"	"P15882"	"C9J3G1"	"UPI000012781D"	"NM_001822.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"c2e5f96e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	TRUE
"11318"	"CHN1"	1123	"mskcc.org"	"GRCh37"	"2"	175817637	175817637	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs761215940"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.20-707G>A"	""	""	"ENST00000409900"	""	85	"61"	24	62	"62"	0	"CHN1,intron_variant,,ENST00000409900,NM_001822.5;CHN1,intron_variant,,ENST00000409156,NM_001025201.3;CHN1,intron_variant,,ENST00000488080,;CHN1,intron_variant,,ENST00000469597,;CHN1,intron_variant,,ENST00000425395,;CHN1,intron_variant,,ENST00000451799,;"	"T"	"ENSG00000128656"	"ENST00000409900"	"Transcript"	"intron_variant"	"-/2447"	"-/1380"	"-/459"	""	""	"rs761215940"	"1"	NA	-1	"CHN1"	"HGNC"	1943	"protein_coding"	"YES"	"CCDS46455.1"	"ENSP00000386741"	"P15882"	"C9J3G1"	"UPI000012781D"	"NM_001822.5"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"c2e5fe3c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282352941176471	"WGS"	TRUE
"11319"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	176368183	176368183	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"82"	6	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c2e60cd8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"11320"	"AC016751.2"	0	"mskcc.org"	"GRCh37"	"2"	176766155	176766155	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000458254"	""	78	"61"	17	44	"44"	0	"AC016751.2,downstream_gene_variant,,ENST00000458254,;AC016751.3,intron_variant,,ENST00000453206,;"	"T"	"ENSG00000229779"	"ENST00000458254"	"Transcript"	"downstream_gene_variant"	"-/306"	""	""	""	""	""	"1"	"2944"	-1	"AC016751.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c2e62434-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217948717948718	"WGS"	FALSE
"11321"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	177817354	177817354	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"49"	37	53	"52"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c2e65102-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.430232558139535	"WGS"	FALSE
"11322"	"AC009478.1"	0	"mskcc.org"	"GRCh37"	"2"	181500496	181500496	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.226-33298T>G"	""	""	"ENST00000429816"	""	73	"59"	14	52	"52"	0	"AC009478.1,intron_variant,,ENST00000429816,;"	"C"	"ENSG00000225258"	"ENST00000429816"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/562"	""	""	""	""	""	"1"	NA	-1	"AC009478.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c2e6e720-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191780821917808	"WGS"	FALSE
"11323"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	181771008	181771008	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"68"	28	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c2e6f53a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WGS"	FALSE
"11324"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	182666227	182666227	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"58"	23	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c2e70bb0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283950617283951	"WGS"	FALSE
"11325"	"PPP1R1C"	151242	"mskcc.org"	"GRCh37"	"2"	182902033	182902033	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.164-24136G>A"	""	""	"ENST00000280295"	""	92	"76"	16	62	"62"	0	"PPP1R1C,intron_variant,,ENST00000409137,NM_001261425.1,NM_001261424.1;PPP1R1C,intron_variant,,ENST00000280295,;PPP1R1C,intron_variant,,ENST00000409702,;PPP1R1C,intron_variant,,ENST00000452904,NM_001080545.2;PPP1R1C,intron_variant,,ENST00000475249,;PPP1R1C,intron_variant,,ENST00000495820,;PPP1R1C,intron_variant,,ENST00000490645,;PPP1R1C,intron_variant,,ENST00000486067,;PPP1R1C,intron_variant,,ENST00000465612,;PPP1R1C,intron_variant,,ENST00000479855,;PPP1R1C,intron_variant,,ENST00000464264,;"	"A"	"ENSG00000150722"	"ENST00000280295"	"Transcript"	"intron_variant"	"-/1636"	"-/351"	"-/116"	""	""	""	"1"	NA	1	"PPP1R1C"	"HGNC"	14940	"protein_coding"	"YES"	"CCDS58740.1"	"ENSP00000280295"	"Q8WVI7"	"Q53SA3"	"UPI000006D8CA"	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c2e71178-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"11326"	"NUP35"	129401	"mskcc.org"	"GRCh37"	"2"	184013471	184013471	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.398-2765C>T"	""	""	"ENST00000295119"	""	100	"69"	31	52	"52"	0	"NUP35,intron_variant,,ENST00000295119,NM_138285.3,NM_001287584.1;NUP35,intron_variant,,ENST00000541912,NM_001287585.1;NUP35,intron_variant,,ENST00000409798,;NUP35,intron_variant,,ENST00000479162,;NUP35,intron_variant,,ENST00000374930,;"	"T"	"ENSG00000163002"	"ENST00000295119"	"Transcript"	"intron_variant"	"-/1633"	"-/981"	"-/326"	""	""	""	"1"	NA	1	"NUP35"	"HGNC"	29797	"protein_coding"	"YES"	"CCDS2290.1"	"ENSP00000295119"	"Q8NFH5"	"C9JWU7,C9JIY9,C9IYQ7,B4DYB4,B4DP57"	"UPI000000DBA2"	"NM_138285.3,NM_001287584.1"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c2e74be8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.31	"WGS"	FALSE
"11327"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	185350853	185350853	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"80"	6	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c2e786bc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"11328"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	186316387	186316387	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"63"	22	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c2e7a4d0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258823529411765	"WGS"	FALSE
"11329"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	187847577	187847577	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"80"	7	58	"58"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c2e7e24c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"11330"	"AC007319.1"	0	"mskcc.org"	"GRCh37"	"2"	187868543	187868543	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.92+451G>A"	""	""	"ENST00000412276"	""	71	"53"	18	37	"37"	0	"AC007319.1,intron_variant,,ENST00000412276,;AC007319.1,intron_variant,,ENST00000453517,;AC018735.1,upstream_gene_variant,,ENST00000437208,;"	"A"	"ENSG00000224063"	"ENST00000412276"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/829"	""	""	""	""	""	"1"	NA	1	"AC007319.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c2e7e404-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253521126760563	"WGS"	FALSE
"11331"	"AC007319.1"	0	"mskcc.org"	"GRCh37"	"2"	188017489	188017489	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.93-39073T>A"	""	""	"ENST00000412276"	""	83	"57"	26	56	"56"	0	"AC007319.1,intron_variant,,ENST00000412276,;AC007319.1,intron_variant,,ENST00000453517,;"	"A"	"ENSG00000224063"	"ENST00000412276"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/829"	""	""	""	""	""	"1"	NA	1	"AC007319.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c2e7eaee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313253012048193	"WGS"	FALSE
"11332"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	193231017	193231017	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs572846991"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"66"	26	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs572846991"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c2e94722-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282608695652174	"WGS"	FALSE
"11333"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	193963403	193963403	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"66"	6	68	"68"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c2e95dde-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"11334"	"STK17B"	9262	"mskcc.org"	"GRCh37"	"2"	197041036	197041036	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000263955"	""	85	"62"	23	60	"60"	0	"STK17B,5_prime_UTR_variant,,ENST00000409228,;STK17B,5_prime_UTR_variant,,ENST00000420683,;STK17B,upstream_gene_variant,,ENST00000263955,NM_004226.3;"	"G"	"ENSG00000081320"	"ENST00000263955"	"Transcript"	"upstream_gene_variant"	"-/5287"	"-/1119"	"-/372"	""	""	""	"1"	"4737"	-1	"STK17B"	"HGNC"	11396	"protein_coding"	"YES"	"CCDS2315.1"	"ENSP00000263955"	"O94768"	"U3KQF8,Q53QE7,C9JZJ1"	"UPI0000035B5D"	"NM_004226.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c2e9c774-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270588235294118	"WGS"	FALSE
"11335"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	200399478	200399478	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"54"	21	76	"76"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c2ea6594-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"11336"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	200618581	200618581	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"85"	29	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c2ea6d50-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254385964912281	"WGS"	FALSE
"11337"	"FTCDNL1"	0	"mskcc.org"	"GRCh37"	"2"	200663494	200663494	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.212-37936G>A"	""	""	"ENST00000416668"	""	86	"67"	19	52	"52"	0	"FTCDNL1,intron_variant,,ENST00000416668,;FTCDNL1,intron_variant,,ENST00000420922,;"	"T"	"ENSG00000226124"	"ENST00000416668"	"Transcript"	"intron_variant"	"-/944"	"-/234"	"-/77"	""	""	""	"1"	NA	-1	"FTCDNL1"	"HGNC"	48661	"protein_coding"	""	""	"ENSP00000454447"	""	"H3BMM2"	"UPI0000209338"	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c2ea6e36-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22093023255814	"WGS"	FALSE
"11338"	"NOP58"	51602	"mskcc.org"	"GRCh37"	"2"	203150767	203150767	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.434+1563C>T"	""	""	"ENST00000264279"	""	83	"76"	7	41	"41"	0	"NOP58,intron_variant,,ENST00000264279,NM_015934.3;NOP58,intron_variant,,ENST00000492688,;NOP58,downstream_gene_variant,,ENST00000467734,;NOP58,downstream_gene_variant,,ENST00000472050,;NOP58,intron_variant,,ENST00000433543,;NOP58,intron_variant,,ENST00000478941,;NOP58,downstream_gene_variant,,ENST00000488403,;NOP58,downstream_gene_variant,,ENST00000426814,;"	"T"	"ENSG00000055044"	"ENST00000264279"	"Transcript"	"intron_variant"	"-/2046"	"-/1590"	"-/529"	""	""	""	"1"	NA	1	"NOP58"	"HGNC"	29926	"protein_coding"	"YES"	"CCDS2353.1"	"ENSP00000264279"	"Q9Y2X3"	""	"UPI0000130366"	"NM_015934.3"	""	""	""	"5/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c2eb04d6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"11339"	"NOP58"	51602	"mskcc.org"	"GRCh37"	"2"	203150768	203150768	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.434+1564A>G"	""	""	"ENST00000264279"	""	82	"76"	6	43	"43"	0	"NOP58,intron_variant,,ENST00000264279,NM_015934.3;NOP58,intron_variant,,ENST00000492688,;NOP58,downstream_gene_variant,,ENST00000467734,;NOP58,downstream_gene_variant,,ENST00000472050,;NOP58,intron_variant,,ENST00000433543,;NOP58,intron_variant,,ENST00000478941,;NOP58,downstream_gene_variant,,ENST00000488403,;NOP58,downstream_gene_variant,,ENST00000426814,;"	"G"	"ENSG00000055044"	"ENST00000264279"	"Transcript"	"intron_variant"	"-/2046"	"-/1590"	"-/529"	""	""	""	"1"	NA	1	"NOP58"	"HGNC"	29926	"protein_coding"	"YES"	"CCDS2353.1"	"ENSP00000264279"	"Q9Y2X3"	""	"UPI0000130366"	"NM_015934.3"	""	""	""	"5/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c2eb05b2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"11340"	"BMPR2"	659	"mskcc.org"	"GRCh37"	"2"	203412286	203412286	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1413+5116A>G"	""	""	"ENST00000374580"	""	106	"95"	11	51	"51"	0	"BMPR2,intron_variant,,ENST00000374580,NM_001204.6;BMPR2,intron_variant,,ENST00000374574,;"	"G"	"ENSG00000204217"	"ENST00000374580"	"Transcript"	"intron_variant"	"-/11461"	"-/3117"	"-/1038"	""	""	""	"1"	NA	1	"BMPR2"	"HGNC"	1078	"protein_coding"	"YES"	"CCDS33361.1"	"ENSP00000363708"	"Q13873"	""	"UPI0000126A3B"	"NM_001204.6"	""	""	""	"10/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"c2eb3596-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10377358490566	"WGS"	FALSE
"11341"	"WDR12"	55759	"mskcc.org"	"GRCh37"	"2"	203761329	203761329	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.455-387T>C"	""	""	"ENST00000261015"	""	106	"94"	12	55	"55"	0	"WDR12,intron_variant,,ENST00000261015,NM_018256.3;WDR12,downstream_gene_variant,,ENST00000477723,;WDR12,intron_variant,,ENST00000478869,;WDR12,upstream_gene_variant,,ENST00000475611,;WDR12,upstream_gene_variant,,ENST00000477727,;"	"G"	"ENSG00000138442"	"ENST00000261015"	"Transcript"	"intron_variant"	"-/8100"	"-/1272"	"-/423"	""	""	""	"1"	NA	-1	"WDR12"	"HGNC"	14098	"protein_coding"	"YES"	"CCDS2356.1"	"ENSP00000261015"	"Q9GZL7"	"Q53T99"	"UPI0000138ED2"	"NM_018256.3"	""	""	""	"5/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c2eb5fb2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113207547169811	"WGS"	FALSE
"11342"	"ABI2"	10152	"mskcc.org"	"GRCh37"	"2"	204294028	204294028	"+"	"3'UTR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1953A>C"	""	""	"ENST00000261017"	"10/10"	96	"70"	26	62	"62"	0	"ABI2,3_prime_UTR_variant,,ENST00000295851,NM_001282925.1;ABI2,3_prime_UTR_variant,,ENST00000261017,NM_005759.4;RAPH1,intron_variant,,ENST00000457812,;RAPH1,downstream_gene_variant,,ENST00000319170,NM_213589.1;ABI2,downstream_gene_variant,,ENST00000422511,;ABI2,downstream_gene_variant,,ENST00000424558,NM_001282926.1;ABI2,downstream_gene_variant,,ENST00000261018,;ABI2,downstream_gene_variant,,ENST00000261016,NM_001282927.1;ABI2,downstream_gene_variant,,ENST00000430418,;ABI2,downstream_gene_variant,,ENST00000417864,;ABI2,downstream_gene_variant,,ENST00000454023,;ABI2,intron_variant,,ENST00000464761,;ABI2,downstream_gene_variant,,ENST00000416396,;ABI2,downstream_gene_variant,,ENST00000441061,;ABI2,downstream_gene_variant,,ENST00000416001,;"	"C"	"ENSG00000138443"	"ENST00000261017"	"Transcript"	"3_prime_UTR_variant"	"3616/6484"	"-/1428"	"-/475"	""	""	""	"1"	NA	1	"ABI2"	"HGNC"	24011	"protein_coding"	"YES"	"CCDS2358.1"	"ENSP00000261017"	"Q9NYB9"	"Q53SH3,Q53RS4,B7ZAM8"	"UPI0000070712"	"NM_005759.4"	""	""	"10/10"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c2eb8e4c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270833333333333	"WGS"	FALSE
"11343"	"PARD3B"	117583	"mskcc.org"	"GRCh37"	"2"	206441705	206441705	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3074+23578C>T"	""	""	"ENST00000358768"	""	89	"66"	23	45	"45"	0	"PARD3B,intron_variant,,ENST00000406610,NM_205863.3,NM_057177.6,NM_152526.5;PARD3B,intron_variant,,ENST00000358768,;PARD3B,intron_variant,,ENST00000351153,;PARD3B,intron_variant,,ENST00000349953,;PARD3B,intron_variant,,ENST00000488622,;"	"T"	"ENSG00000116117"	"ENST00000358768"	"Transcript"	"intron_variant"	"-/3432"	"-/3432"	"-/1143"	""	""	""	"1"	NA	1	"PARD3B"	"HGNC"	14446	"protein_coding"	"YES"	"CCDS42806.1"	"ENSP00000351618"	"Q8TEW8"	"Q587I4,Q53TQ6,Q53TP8,Q53TL6,Q53TI4,Q53T65,Q53SN0,Q4ZG80"	"UPI000007201E"	""	""	""	""	"21/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c2ebe27a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258426966292135	"WGS"	FALSE
"11344"	"AC007879.5"	101927887	"mskcc.org"	"GRCh37"	"2"	208203858	208203858	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.401-6439G>C"	""	""	"ENST00000418850"	""	94	"67"	27	58	"58"	0	"AC007879.5,intron_variant,,ENST00000418850,;AC007879.5,intron_variant,,ENST00000412387,;"	"G"	"ENSG00000223725"	"ENST00000418850"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/741"	""	""	""	""	""	"1"	NA	-1	"AC007879.5"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c2ec444a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287234042553192	"WGS"	FALSE
"11345"	"METTL21A"	151194	"mskcc.org"	"GRCh37"	"2"	208475570	208475570	"+"	"3'UTR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*2200G>C"	""	""	"ENST00000411432"	"4/4"	20	"17"	3	10	"10"	0	"METTL21A,3_prime_UTR_variant,,ENST00000411432,NM_001127395.1;METTL21A,intron_variant,,ENST00000458426,;METTL21A,intron_variant,,ENST00000425132,;METTL21A,intron_variant,,ENST00000432416,;METTL21A,downstream_gene_variant,,ENST00000448007,NM_145280.4;METTL21A,downstream_gene_variant,,ENST00000272839,;METTL21A,downstream_gene_variant,,ENST00000406927,;METTL21A,downstream_gene_variant,,ENST00000426075,;METTL21A,downstream_gene_variant,,ENST00000442521,;METTL21A,downstream_gene_variant,,ENST00000448823,;METTL21A,intron_variant,,ENST00000477919,;METTL21A,downstream_gene_variant,,ENST00000461419,;"	"G"	"ENSG00000144401"	"ENST00000411432"	"Transcript"	"3_prime_UTR_variant"	"3074/4805"	"-/657"	"-/218"	""	""	""	"1"	NA	-1	"METTL21A"	"HGNC"	30476	"protein_coding"	"YES"	"CCDS2376.1"	"ENSP00000415115"	"Q8WXB1"	""	"UPI000013D97D"	"NM_001127395.1"	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c2ec4c24-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WGS"	FALSE
"11346"	"PTH2R"	5746	"mskcc.org"	"GRCh37"	"2"	209478123	209478123	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*98+41231C>T"	""	""	"ENST00000419079"	""	77	"52"	25	50	"50"	0	"PTH2R,intron_variant,,ENST00000419079,;"	"T"	"ENSG00000144407"	"ENST00000419079"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/811"	"-/165"	"-/54"	""	""	""	"1"	NA	1	"PTH2R"	"HGNC"	9609	"nonsense_mediated_decay"	""	""	"ENSP00000393930"	""	""	"UPI000198C666"	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c2ec8e3c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324675324675325	"WGS"	FALSE
"11347"	"ENSR00001551198"	0	"mskcc.org"	"GRCh37"	"2"	210196087	210196087	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001551198"	""	73	"50"	23	51	"51"	0	""	"A"	""	"ENSR00001551198"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"c2ecac32-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315068493150685	"WGS"	FALSE
"11348"	"UNC80"	285175	"mskcc.org"	"GRCh37"	"2"	210681704	210681704	"+"	"Silent"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1407A>T"	"p.="	"p.P469P"	"ENST00000439458"	"10/64"	92	"68"	24	48	"48"	0	"UNC80,synonymous_variant,p.=,ENST00000439458,NM_032504.1;UNC80,synonymous_variant,p.=,ENST00000272845,NM_182587.3;"	"T"	"ENSG00000144406"	"ENST00000439458"	"Transcript"	"synonymous_variant"	"1487/13562"	"1407/9777"	"469/3258"	"P"	"ccA/ccT"	""	"1"	NA	1	"UNC80"	"HGNC"	26582	"protein_coding"	"YES"	"CCDS46504.1"	"ENSP00000391088"	"Q8N2C7"	""	"UPI00017E10C9"	"NM_032504.1"	""	""	"10/64"	""	"hmmpanther:PTHR31781,hmmpanther:PTHR31781:SF1"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c2ecbdda-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"11349"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	211803614	211803614	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"62"	17	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c2ece832-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215189873417722	"WGS"	FALSE
"11350"	"AC007563.5"	0	"mskcc.org"	"GRCh37"	"2"	217764823	217764823	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.511-93858A>G"	""	""	"ENST00000447289"	""	105	"76"	29	60	"60"	0	"AC007563.5,intron_variant,,ENST00000447289,;AC007563.5,intron_variant,,ENST00000607591,;"	"G"	"ENSG00000236886"	"ENST00000447289"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/552"	""	""	""	""	""	"1"	NA	1	"AC007563.5"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c2edfd08-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276190476190476	"WGS"	FALSE
"11351"	"DIRC3"	729582	"mskcc.org"	"GRCh37"	"2"	218458151	218458151	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.321+6184G>A"	""	""	"ENST00000474063"	""	72	"54"	18	49	"49"	0	"DIRC3,intron_variant,,ENST00000474063,;DIRC3,intron_variant,,ENST00000486365,;"	"T"	"ENSG00000231672"	"ENST00000474063"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3078"	""	""	""	""	""	"1"	NA	-1	"DIRC3"	"HGNC"	17805	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"c2ee224c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"11352"	"ZFAND2B"	130617	"mskcc.org"	"GRCh37"	"2"	220055254	220055254	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000436556"	""	22	"16"	6	6	"6"	0	"ZFAND2B,upstream_gene_variant,,ENST00000436556,;"	"G"	"ENSG00000158552"	"ENST00000436556"	"Transcript"	"upstream_gene_variant"	"-/741"	"-/150"	"-/50"	""	""	""	"1"	"4705"	1	"ZFAND2B"	"HGNC"	25206	"protein_coding"	""	""	"ENSP00000400760"	""	"C9J1R6"	"UPI0001881941"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c2eeafaa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"11353"	"RPL23P4"	0	"mskcc.org"	"GRCh37"	"2"	220561614	220561614	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000442836"	""	107	"72"	35	63	"63"	0	"AC009502.4,intron_variant,,ENST00000606673,;AC009502.4,intron_variant,,ENST00000416861,;RPL23P4,upstream_gene_variant,,ENST00000442836,;"	"A"	"ENSG00000223903"	"ENST00000442836"	"Transcript"	"upstream_gene_variant"	"-/416"	""	""	""	""	""	"1"	"907"	1	"RPL23P4"	"HGNC"	36678	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c2eeccce-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.327102803738318	"WGS"	FALSE
"11354"	"ENSR00000607883"	0	"mskcc.org"	"GRCh37"	"2"	220683857	220683857	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000607883"	""	81	"53"	28	42	"42"	0	""	"A"	""	"ENSR00000607883"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c2eed11a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.345679012345679	"WGS"	FALSE
"11355"	"FARSB"	10056	"mskcc.org"	"GRCh37"	"2"	223522692	223522692	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000281828"	""	95	"89"	6	40	"40"	0	"FARSB,upstream_gene_variant,,ENST00000281828,NM_005687.3;FARSB,upstream_gene_variant,,ENST00000536361,;"	"A"	"ENSG00000116120"	"ENST00000281828"	"Transcript"	"upstream_gene_variant"	"-/3369"	"-/1770"	"-/589"	""	""	""	"1"	"1636"	-1	"FARSB"	"HGNC"	17800	"protein_coding"	"YES"	"CCDS2454.1"	"ENSP00000281828"	"Q9NSD9"	"F5H6Y1"	"UPI00002096AC"	"NM_005687.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c2ef5004-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0631578947368421	"WGS"	FALSE
"11356"	"KCNE4"	23704	"mskcc.org"	"GRCh37"	"2"	224018987	224018987	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.190-38800G>T"	""	""	"ENST00000488477"	""	99	"68"	31	71	"71"	0	"KCNE4,intron_variant,,ENST00000488477,;"	"T"	"ENSG00000152049"	"ENST00000488477"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/908"	""	""	""	""	""	"1"	NA	1	"KCNE4"	"HGNC"	6244	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c2ef7110-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313131313131313	"WGS"	FALSE
"11357"	"KCNE4"	23704	"mskcc.org"	"GRCh37"	"2"	224018988	224018988	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.190-38799G>T"	""	""	"ENST00000488477"	""	98	"66"	32	71	"71"	0	"KCNE4,intron_variant,,ENST00000488477,;"	"T"	"ENSG00000152049"	"ENST00000488477"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/908"	""	""	""	""	""	"1"	NA	1	"KCNE4"	"HGNC"	6244	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c2ef71ec-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326530612244898	"WGS"	FALSE
"11358"	"PID1"	55022	"mskcc.org"	"GRCh37"	"2"	229767028	229767028	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.357-51664A>T"	""	""	"ENST00000482518"	""	81	"76"	5	54	"54"	0	"PID1,intron_variant,,ENST00000482518,;"	"A"	"ENSG00000153823"	"ENST00000482518"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/479"	""	""	""	""	""	"1"	NA	-1	"PID1"	"HGNC"	26084	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c2f08b18-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"11359"	"PID1"	55022	"mskcc.org"	"GRCh37"	"2"	229995449	229995449	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.270+25085A>T"	""	""	"ENST00000392054"	""	92	"64"	28	54	"54"	0	"PID1,intron_variant,,ENST00000392054,NM_017933.4;PID1,intron_variant,,ENST00000392055,NM_001100818.1;PID1,intron_variant,,ENST00000409462,;PID1,intron_variant,,ENST00000354069,;PID1,intron_variant,,ENST00000482518,;PID1,intron_variant,,ENST00000534952,;"	"A"	"ENSG00000153823"	"ENST00000392054"	"Transcript"	"intron_variant"	"-/2745"	"-/747"	"-/248"	""	""	""	"1"	NA	-1	"PID1"	"HGNC"	26084	"protein_coding"	"YES"	"CCDS2471.1"	"ENSP00000375907"	"Q7Z2X4"	"Q4ZG81"	"UPI00001C0AF7"	"NM_017933.4"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c2f0927a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WGS"	FALSE
"11360"	"DNER"	92737	"mskcc.org"	"GRCh37"	"2"	230402042	230402042	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.993+9621C>T"	""	""	"ENST00000341772"	""	92	"72"	20	62	"62"	0	"DNER,intron_variant,,ENST00000341772,NM_139072.3;"	"A"	"ENSG00000187957"	"ENST00000341772"	"Transcript"	"intron_variant"	"-/3260"	"-/2214"	"-/737"	""	""	""	"1"	NA	-1	"DNER"	"HGNC"	24456	"protein_coding"	"YES"	"CCDS33390.1"	"ENSP00000345229"	"Q8NFT8"	"B4E399"	"UPI0000048EB8"	"NM_139072.3"	""	""	""	"5/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c2f0a15c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"11361"	"SP100"	6672	"mskcc.org"	"GRCh37"	"2"	231279281	231279281	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000340126"	""	83	"60"	23	51	"51"	0	"SP100,upstream_gene_variant,,ENST00000264052,NM_003113.3;SP100,upstream_gene_variant,,ENST00000340126,NM_001080391.1;SP100,upstream_gene_variant,,ENST00000409112,NM_001206701.1;SP100,upstream_gene_variant,,ENST00000409897,NM_001206704.1;SP100,upstream_gene_variant,,ENST00000409341,NM_001206702.1;SP100,upstream_gene_variant,,ENST00000427101,NM_001206703.1;SP100,upstream_gene_variant,,ENST00000409824,;SP100,upstream_gene_variant,,ENST00000341950,;SP100,upstream_gene_variant,,ENST00000432979,;"	"C"	"ENSG00000067066"	"ENST00000340126"	"Transcript"	"upstream_gene_variant"	"-/2926"	"-/2658"	"-/885"	""	""	""	"1"	"1700"	1	"SP100"	"HGNC"	11206	"protein_coding"	"YES"	"CCDS42832.1"	"ENSP00000343023"	"P23497"	"Q4ZG64"	"UPI000013DD6A"	"NM_001080391.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c2f0fbd4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27710843373494	"WGS"	FALSE
"11362"	"UGT1A12P"	0	"mskcc.org"	"GRCh37"	"2"	234497672	234497672	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000447084"	""	99	"74"	25	55	"55"	0	"UGT1A12P,downstream_gene_variant,,ENST00000447084,;"	"T"	"ENSG00000228949"	"ENST00000447084"	"Transcript"	"downstream_gene_variant"	"-/853"	""	""	""	""	""	"1"	"2735"	1	"UGT1A12P"	"HGNC"	12533	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c2f26532-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252525252525253	"WGS"	FALSE
"11363"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	236029305	236029305	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"65"	37	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c2f2cde2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.362745098039216	"WGS"	FALSE
"11364"	"AC092576.1"	0	"mskcc.org"	"GRCh37"	"2"	236234129	236234129	"+"	"5'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000401183"	""	91	"63"	28	64	"64"	0	"AC092576.1,upstream_gene_variant,,ENST00000401183,;"	"C"	"ENSG00000216002"	"ENST00000401183"	"Transcript"	"upstream_gene_variant"	"-/94"	""	""	""	""	""	"1"	"873"	1	"AC092576.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c2f2d7c4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"11365"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	243153360	243153360	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"69"	6	28	"28"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c2f73b02-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"11366"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	1007544	1007544	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"78"	7	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c2f78f9e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0823529411764706	"WGS"	FALSE
"11367"	"ENSR00001718501"	0	"mskcc.org"	"GRCh37"	"20"	1855842	1855842	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001718501"	""	82	"50"	32	41	"41"	0	""	"T"	""	"ENSR00001718501"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c2f7c928-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.390243902439024	"WGS"	FALSE
"11368"	"EBF4"	57593	"mskcc.org"	"GRCh37"	"20"	2736178	2736178	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1529-95G>A"	""	""	"ENST00000380648"	""	82	"67"	15	29	"29"	0	"EBF4,intron_variant,,ENST00000380648,NM_001110514.1;EBF4,intron_variant,,ENST00000342725,;EBF4,intron_variant,,ENST00000609451,;EBF4,intron_variant,,ENST00000463145,;EBF4,non_coding_transcript_exon_variant,,ENST00000477287,;EBF4,intron_variant,,ENST00000491472,;EBF4,intron_variant,,ENST00000481662,;EBF4,intron_variant,,ENST00000609967,;EBF4,intron_variant,,ENST00000449079,;"	"A"	"ENSG00000088881"	"ENST00000380648"	"Transcript"	"intron_variant"	"-/2910"	"-/1797"	"-/598"	""	""	""	"1"	NA	1	"EBF4"	"HGNC"	29278	"protein_coding"	"YES"	"CCDS46573.1"	"ENSP00000370022"	""	"Q7Z5T1,E9PEI2"	"UPI00001C2038"	"NM_001110514.1"	""	""	""	"15/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c2f8055a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182926829268293	"WGS"	FALSE
"11369"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	3811929	3811929	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	53	"48"	5	39	"39"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c2f883d6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0943396226415094	"WGS"	FALSE
"11370"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	3813413	3813413	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"54"	8	42	"42"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c2f8866a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"11371"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	4184075	4184075	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"92"	8	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c2f8c09e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"11372"	"CDS2"	8760	"mskcc.org"	"GRCh37"	"20"	5158669	5158669	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.390-794C>T"	""	""	"ENST00000460006"	""	92	"85"	7	69	"69"	0	"CDS2,intron_variant,,ENST00000460006,NM_003818.3;CDS2,intron_variant,,ENST00000379062,;CDS2,intron_variant,,ENST00000450570,;CDS2,upstream_gene_variant,,ENST00000535100,;CDS2,intron_variant,,ENST00000379070,;CDS2,intron_variant,,ENST00000468817,;CDS2,intron_variant,,ENST00000467923,;CDS2,downstream_gene_variant,,ENST00000486875,;"	"T"	"ENSG00000101290"	"ENST00000460006"	"Transcript"	"intron_variant"	"-/9298"	"-/1338"	"-/445"	""	""	""	"1"	NA	1	"CDS2"	"HGNC"	1801	"protein_coding"	"YES"	"CCDS13088.1"	"ENSP00000419879"	"O95674"	""	"UPI0000001293"	"NM_003818.3"	""	""	""	"4/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c2f8f91a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"11373"	"PROKR2"	128674	"mskcc.org"	"GRCh37"	"20"	5295456	5295456	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-8-433G>T"	""	""	"ENST00000546004"	""	107	"100"	7	58	"58"	0	"PROKR2,intron_variant,,ENST00000546004,;PROKR2,upstream_gene_variant,,ENST00000217270,NM_144773.2;"	"A"	"ENSG00000101292"	"ENST00000546004"	"Transcript"	"intron_variant"	"-/1771"	"-/1155"	"-/384"	""	""	""	"1"	NA	-1	"PROKR2"	"HGNC"	15836	"protein_coding"	"YES"	"CCDS13089.1"	"ENSP00000440790"	"Q8NFJ6"	""	"UPI000003BCC6"	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"c2f90018-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0654205607476635	"WGS"	FALSE
"11374"	"C20orf196"	149840	"mskcc.org"	"GRCh37"	"20"	5831256	5831256	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.179-12414A>T"	""	""	"ENST00000303142"	""	79	"53"	26	45	"45"	0	"C20orf196,intron_variant,,ENST00000303142,NM_152504.2;C20orf196,intron_variant,,ENST00000442185,;C20orf196,intron_variant,,ENST00000445603,;"	"T"	"ENSG00000171984"	"ENST00000303142"	"Transcript"	"intron_variant"	"-/1154"	"-/618"	"-/205"	""	""	""	"1"	NA	1	"C20orf196"	"HGNC"	26318	"protein_coding"	"YES"	"CCDS13091.1"	"ENSP00000305875"	"Q8IYI0"	""	"UPI0000074251"	"NM_152504.2"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c2f93452-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329113924050633	"WGS"	FALSE
"11375"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	7580010	7580010	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"64"	5	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c2f97ebc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072463768115942	"WGS"	FALSE
"11376"	"SNAP25-AS1"	100131208	"mskcc.org"	"GRCh37"	"20"	10145485	10145485	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.638+31981T>C"	""	""	"ENST00000603542"	""	82	"62"	20	44	"44"	0	"SNAP25-AS1,intron_variant,,ENST00000603542,;SNAP25-AS1,intron_variant,,ENST00000421143,;SNAP25-AS1,intron_variant,,ENST00000426491,;SNAP25-AS1,intron_variant,,ENST00000605592,;SNAP25-AS1,intron_variant,,ENST00000451151,;SNAP25-AS1,intron_variant,,ENST00000453544,;"	"G"	"ENSG00000227906"	"ENST00000603542"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3207"	""	""	""	""	""	"1"	NA	-1	"SNAP25-AS1"	"HGNC"	44312	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c2f9d2f4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24390243902439	"WGS"	FALSE
"11377"	"C20orf187"	0	"mskcc.org"	"GRCh37"	"20"	11013417	11013417	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000378252"	""	104	"77"	27	52	"52"	0	"C20orf187,downstream_gene_variant,,ENST00000378252,;C20orf187,downstream_gene_variant,,ENST00000537362,;"	"T"	"ENSG00000125899"	"ENST00000378252"	"Transcript"	"downstream_gene_variant"	"-/446"	"-/153"	"-/50"	""	""	""	"1"	"3403"	1	"C20orf187"	"HGNC"	16180	"protein_coding"	"YES"	""	"ENSP00000367499"	"Q9UGB4"	"H0YFP8"	"UPI000006E374"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c2f9f572-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259615384615385	"WGS"	FALSE
"11378"	"RPS11P1"	0	"mskcc.org"	"GRCh37"	"20"	11323963	11323963	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000451072"	""	77	"52"	25	63	"63"	0	"RPS11P1,downstream_gene_variant,,ENST00000451072,;"	"T"	"ENSG00000235544"	"ENST00000451072"	"Transcript"	"downstream_gene_variant"	"-/473"	""	""	""	""	""	"1"	"2068"	-1	"RPS11P1"	"HGNC"	16553	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c2f9fd38-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324675324675325	"WGS"	FALSE
"11379"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	11451122	11451122	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"78"	29	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c2fa003a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271028037383178	"WGS"	FALSE
"11380"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	11451136	11451136	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"74"	27	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c2fa0116-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267326732673267	"WGS"	FALSE
"11381"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	12008409	12008409	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"71"	6	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c2fa182c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"11382"	"MACROD2"	140733	"mskcc.org"	"GRCh37"	"20"	14073149	14073149	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.271+6775G>A"	""	""	"ENST00000217246"	""	98	"68"	30	66	"66"	0	"MACROD2,intron_variant,,ENST00000217246,NM_080676.5;MACROD2,intron_variant,,ENST00000310348,;MACROD2,intron_variant,,ENST00000477147,;MACROD2,intron_variant,,ENST00000494602,;MACROD2,intron_variant,,ENST00000490428,;"	"A"	"ENSG00000172264"	"ENST00000217246"	"Transcript"	"intron_variant"	"-/4994"	"-/1278"	"-/425"	""	""	""	"1"	NA	1	"MACROD2"	"HGNC"	16126	"protein_coding"	"YES"	"CCDS13120.2"	"ENSP00000217246"	"A1Z1Q3"	""	"UPI00005B2E12"	"NM_080676.5"	""	""	""	"3/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c2fa7844-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306122448979592	"WGS"	FALSE
"11383"	"MACROD2"	140733	"mskcc.org"	"GRCh37"	"20"	14291773	14291773	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.272-182352G>A"	""	""	"ENST00000217246"	""	89	"56"	33	62	"62"	0	"MACROD2,intron_variant,,ENST00000217246,NM_080676.5;MACROD2,intron_variant,,ENST00000310348,;MACROD2,intron_variant,,ENST00000477147,;MACROD2,intron_variant,,ENST00000494602,;MACROD2,intron_variant,,ENST00000490428,;"	"A"	"ENSG00000172264"	"ENST00000217246"	"Transcript"	"intron_variant"	"-/4994"	"-/1278"	"-/425"	""	""	""	"1"	NA	1	"MACROD2"	"HGNC"	16126	"protein_coding"	"YES"	"CCDS13120.2"	"ENSP00000217246"	"A1Z1Q3"	""	"UPI00005B2E12"	"NM_080676.5"	""	""	""	"3/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c2fa82b2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.370786516853933	"WGS"	FALSE
"11384"	"MACROD2"	140733	"mskcc.org"	"GRCh37"	"20"	14702850	14702850	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.418+37245A>G"	""	""	"ENST00000217246"	""	92	"67"	25	48	"48"	0	"MACROD2,intron_variant,,ENST00000217246,NM_080676.5;MACROD2,intron_variant,,ENST00000310348,;MACROD2,intron_variant,,ENST00000464883,;MACROD2,intron_variant,,ENST00000497992,;MACROD2,intron_variant,,ENST00000463861,;"	"G"	"ENSG00000172264"	"ENST00000217246"	"Transcript"	"intron_variant"	"-/4994"	"-/1278"	"-/425"	""	""	""	"1"	NA	1	"MACROD2"	"HGNC"	16126	"protein_coding"	"YES"	"CCDS13120.2"	"ENSP00000217246"	"A1Z1Q3"	""	"UPI00005B2E12"	"NM_080676.5"	""	""	""	"5/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"c2fa8e4c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"11385"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	18175475	18175475	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"57"	6	31	"31"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c2fb5cdc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"11386"	"ENSR00001720642"	0	"mskcc.org"	"GRCh37"	"20"	23083313	23083313	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001720642"	""	97	"75"	22	52	"52"	0	""	"A"	""	"ENSR00001720642"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c2fc6000-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22680412371134	"WGS"	FALSE
"11387"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	24025901	24025901	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"73"	26	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c2fc9e62-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.262626262626263	"WGS"	FALSE
"11388"	"SYNDIG1"	79953	"mskcc.org"	"GRCh37"	"20"	24544587	24544587	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.480+20374C>T"	""	""	"ENST00000376862"	""	78	"51"	27	46	"46"	0	"SYNDIG1,intron_variant,,ENST00000376862,NM_024893.2;"	"T"	"ENSG00000101463"	"ENST00000376862"	"Transcript"	"intron_variant"	"-/2522"	"-/777"	"-/258"	""	""	""	"1"	NA	1	"SYNDIG1"	"HGNC"	15885	"protein_coding"	"YES"	"CCDS13164.1"	"ENSP00000366058"	"Q9H7V2"	""	"UPI00001285DC"	"NM_024893.2"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c2fcb67c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"11389"	"SYNDIG1"	79953	"mskcc.org"	"GRCh37"	"20"	24595831	24595831	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.618+30202C>T"	""	""	"ENST00000376862"	""	101	"71"	30	67	"67"	0	"SYNDIG1,intron_variant,,ENST00000376862,NM_024893.2;"	"T"	"ENSG00000101463"	"ENST00000376862"	"Transcript"	"intron_variant"	"-/2522"	"-/777"	"-/258"	""	""	""	"1"	NA	1	"SYNDIG1"	"HGNC"	15885	"protein_coding"	"YES"	"CCDS13164.1"	"ENSP00000366058"	"Q9H7V2"	""	"UPI00001285DC"	"NM_024893.2"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c2fcbe9c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297029702970297	"WGS"	FALSE
"11390"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	24890382	24890382	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"67"	33	69	"68"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c2fcd792-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.33	"WGS"	FALSE
"11391"	"APMAP"	57136	"mskcc.org"	"GRCh37"	"20"	24961088	24961088	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.213-1570C>T"	""	""	"ENST00000217456"	""	86	"80"	6	54	"54"	0	"APMAP,intron_variant,,ENST00000217456,NM_020531.2;APMAP,intron_variant,,ENST00000451442,;APMAP,intron_variant,,ENST00000447138,;"	"A"	"ENSG00000101474"	"ENST00000217456"	"Transcript"	"intron_variant"	"-/2430"	"-/1251"	"-/416"	""	""	""	"1"	NA	-1	"APMAP"	"HGNC"	13238	"protein_coding"	"YES"	"CCDS13166.1"	"ENSP00000217456"	"Q9HDC9"	""	"UPI0000036D2D"	"NM_020531.2"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c2fce16a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"11392"	"MIR663A"	724033	"mskcc.org"	"GRCh37"	"20"	26215499	26215499	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs200365470"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.204+16400G>A"	""	""	"ENST00000596767"	""	92	"78"	14	62	"62"	0	"MIR663A,intron_variant,,ENST00000596767,;MIR663A,intron_variant,,ENST00000601119,;MIR663A,intron_variant,,ENST00000601901,;MIR663A,intron_variant,,ENST00000594130,;"	"T"	"ENSG00000227195"	"ENST00000596767"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/837"	""	""	""	""	"rs200365470"	"1"	NA	-1	"MIR663A"	"HGNC"	32919	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c2fdbacc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152173913043478	"WGS"	FALSE
"11393"	"DEFB121"	245934	"mskcc.org"	"GRCh37"	"20"	29999597	29999597	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.217+828G>A"	""	""	"ENST00000376312"	""	112	"86"	26	46	"46"	0	"DEFB121,intron_variant,,ENST00000376312,;"	"T"	"ENSG00000204548"	"ENST00000376312"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/458"	""	""	""	""	""	"1"	NA	-1	"DEFB121"	"HGNC"	18101	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c2fea61c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232142857142857	"WGS"	FALSE
"11394"	"HM13"	81502	"mskcc.org"	"GRCh37"	"20"	30097865	30097865	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000398174"	""	75	"64"	11	39	"39"	0	"HM13,upstream_gene_variant,,ENST00000335574,NM_178580.1;HM13,upstream_gene_variant,,ENST00000398174,NM_178581.1;HM13,upstream_gene_variant,,ENST00000340852,NM_030789.2;HM13,upstream_gene_variant,,ENST00000376127,;HM13,upstream_gene_variant,,ENST00000344042,;HM13,upstream_gene_variant,,ENST00000496438,;HM13,upstream_gene_variant,,ENST00000460225,;HM13,upstream_gene_variant,,ENST00000466766,;HM13,upstream_gene_variant,,ENST00000498035,;"	"G"	"ENSG00000101294"	"ENST00000398174"	"Transcript"	"upstream_gene_variant"	"-/1753"	"-/1281"	"-/426"	""	""	""	"1"	"4366"	1	"HM13"	"HGNC"	16435	"protein_coding"	"YES"	"CCDS42861.1"	"ENSP00000381237"	"Q8TCT9"	""	"UPI000001358F"	"NM_178581.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c2fec67e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146666666666667	"WGS"	FALSE
"11395"	"HM13"	81502	"mskcc.org"	"GRCh37"	"20"	30144314	30144314	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.808+1682C>T"	""	""	"ENST00000398174"	""	86	"58"	28	45	"45"	0	"HM13,intron_variant,,ENST00000335574,NM_178580.1;HM13,intron_variant,,ENST00000398174,NM_178581.1;HM13,intron_variant,,ENST00000340852,NM_030789.2;HM13,intron_variant,,ENST00000376127,;HM13,intron_variant,,ENST00000344042,;HM13,intron_variant,,ENST00000492709,;HM13,intron_variant,,ENST00000460389,;HM13,intron_variant,,ENST00000487964,;HM13,intron_variant,,ENST00000472128,;HM13,intron_variant,,ENST00000469097,;HM13,intron_variant,,ENST00000494153,;HM13,intron_variant,,ENST00000469126,;HM13,intron_variant,,ENST00000483310,;HM13,intron_variant,,ENST00000468559,;HM13,intron_variant,,ENST00000474466,;HM13,downstream_gene_variant,,ENST00000464661,;HM13,downstream_gene_variant,,ENST00000460225,;"	"T"	"ENSG00000101294"	"ENST00000398174"	"Transcript"	"intron_variant"	"-/1753"	"-/1281"	"-/426"	""	""	""	"1"	NA	1	"HM13"	"HGNC"	16435	"protein_coding"	"YES"	"CCDS42861.1"	"ENSP00000381237"	"Q8TCT9"	""	"UPI000001358F"	"NM_178581.1"	""	""	""	"8/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c2fecd7c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325581395348837	"WGS"	FALSE
"11396"	"BPIFB4"	149954	"mskcc.org"	"GRCh37"	"20"	31699543	31699543	"+"	"3'UTR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*300T>C"	""	""	"ENST00000375483"	"16/16"	73	"48"	25	62	"62"	0	"BPIFB4,3_prime_UTR_variant,,ENST00000375483,NM_182519.2;BPIFB4,non_coding_transcript_exon_variant,,ENST00000494121,;"	"C"	"ENSG00000186191"	"ENST00000375483"	"Transcript"	"3_prime_UTR_variant"	"2145/2159"	"-/1845"	"-/614"	""	""	""	"1"	NA	1	"BPIFB4"	"HGNC"	16179	"protein_coding"	"YES"	"CCDS13213.2"	"ENSP00000364632"	"P59827"	""	"UPI0000206190"	"NM_182519.2"	""	""	"16/16"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c2ff7024-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342465753424658	"WGS"	FALSE
"11397"	"CBFA2T2"	9139	"mskcc.org"	"GRCh37"	"20"	32113189	32113189	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-228+35082T>A"	""	""	"ENST00000375279"	""	79	"70"	9	46	"46"	0	"CBFA2T2,intron_variant,,ENST00000375279,;CBFA2T2,intron_variant,,ENST00000342704,NM_001032999.2;CBFA2T2,intron_variant,,ENST00000471007,;"	"A"	"ENSG00000078699"	"ENST00000375279"	"Transcript"	"intron_variant"	"-/7617"	"-/1815"	"-/604"	""	""	""	"1"	NA	1	"CBFA2T2"	"HGNC"	1536	"protein_coding"	""	"CCDS13221.1"	"ENSP00000364428"	"O43439"	"Q68DC6,D1LYX4,B4DFM9,A2A2D9"	"UPI0000073E07"	""	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c2ff9856-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113924050632911	"WGS"	FALSE
"11398"	"C20orf173"	140873	"mskcc.org"	"GRCh37"	"20"	34121554	34121554	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000444723"	""	51	"46"	5	28	"28"	0	"C20orf173,upstream_gene_variant,,ENST00000444723,NM_001145350.1;C20orf173,upstream_gene_variant,,ENST00000246199,;C20orf173,upstream_gene_variant,,ENST00000374345,;C20orf173,upstream_gene_variant,,ENST00000424444,;RP3-477O4.5,upstream_gene_variant,,ENST00000419294,;"	"C"	"ENSG00000125975"	"ENST00000444723"	"Transcript"	"upstream_gene_variant"	"-/1059"	"-/609"	"-/202"	""	""	""	"1"	"4073"	-1	"C20orf173"	"HGNC"	16166	"protein_coding"	"YES"	"CCDS46594.1"	"ENSP00000403566"	"Q96LM9"	"Q4VXS0,Q4VXR9"	"UPI0001948489"	"NM_001145350.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c30055d4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0980392156862745	"WGS"	FALSE
"11399"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	36596226	36596226	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"55"	18	45	"45"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c3016794-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246575342465753	"WGS"	FALSE
"11400"	"BPI"	671	"mskcc.org"	"GRCh37"	"20"	36906831	36906831	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.72-10598G>T"	""	""	"ENST00000451435"	""	118	"85"	33	45	"45"	0	"BPI,intron_variant,,ENST00000451435,;BPI,intron_variant,,ENST00000418004,;BPI,intron_variant,,ENST00000479646,;"	"T"	"ENSG00000101425"	"ENST00000451435"	"Transcript"	"intron_variant"	"-/2857"	"-/288"	"-/95"	""	""	""	"1"	NA	1	"BPI"	"HGNC"	1095	"protein_coding"	""	""	"ENSP00000391511"	""	"A2A2A1"	"UPI00002064E1"	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c3017d2e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279661016949153	"WGS"	FALSE
"11401"	"FAM83D"	81610	"mskcc.org"	"GRCh37"	"20"	37584019	37584019	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000217429"	""	41	"36"	5	28	"28"	0	"FAM83D,downstream_gene_variant,,ENST00000217429,NM_030919.2;"	"G"	"ENSG00000101447"	"ENST00000217429"	"Transcript"	"downstream_gene_variant"	"-/2429"	"-/1848"	"-/615"	""	""	""	"1"	"2316"	1	"FAM83D"	"HGNC"	16122	"protein_coding"	"YES"	"CCDS42872.1"	"ENSP00000217429"	"Q9H4H8"	""	"UPI00004708E6"	"NM_030919.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c301b834-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WGS"	FALSE
"11402"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	37707770	37707770	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs570441657"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"92"	8	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs570441657"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0012"	"A:0"	"A:0"	NA	"A:0.006"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c301bd66-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"11403"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	38651245	38651245	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"70"	31	60	"59"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c301da9e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306930693069307	"WGS"	FALSE
"11404"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	38807106	38807106	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"88"	6	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c301e3a4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"11405"	"ENSR00000401077"	0	"mskcc.org"	"GRCh37"	"20"	39410313	39410313	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs566936797"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000401077"	""	88	"57"	31	52	"52"	0	""	"T"	""	"ENSR00000401077"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs566936797"	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c301eb60-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352272727272727	"WGS"	FALSE
"11406"	"PTPRT"	11122	"mskcc.org"	"GRCh37"	"20"	40766229	40766229	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2827+4326C>T"	""	""	"ENST00000373198"	""	85	"58"	27	69	"69"	0	"PTPRT,intron_variant,,ENST00000373198,NM_133170.3;PTPRT,intron_variant,,ENST00000373201,;PTPRT,intron_variant,,ENST00000373193,NM_007050.5;PTPRT,intron_variant,,ENST00000373190,;PTPRT,intron_variant,,ENST00000373184,;PTPRT,intron_variant,,ENST00000356100,;PTPRT,intron_variant,,ENST00000373187,;"	"A"	"ENSG00000196090"	"ENST00000373198"	"Transcript"	"intron_variant"	"-/12746"	"-/4383"	"-/1460"	""	""	""	"1"	NA	-1	"PTPRT"	"HGNC"	9682	"protein_coding"	""	"CCDS68127.1"	"ENSP00000362294"	"O14522"	""	"UPI00001AF6FA"	"NM_133170.3"	""	""	""	"19/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c30220da-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317647058823529	"WGS"	FALSE
"11407"	"PTPRT"	11122	"mskcc.org"	"GRCh37"	"20"	41030423	41030423	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1560+46437G>A"	""	""	"ENST00000373198"	""	96	"65"	31	51	"51"	0	"PTPRT,intron_variant,,ENST00000373198,NM_133170.3;PTPRT,intron_variant,,ENST00000373201,;PTPRT,intron_variant,,ENST00000373193,NM_007050.5;PTPRT,intron_variant,,ENST00000373190,;PTPRT,intron_variant,,ENST00000373184,;PTPRT,intron_variant,,ENST00000356100,;PTPRT,intron_variant,,ENST00000373187,;"	"T"	"ENSG00000196090"	"ENST00000373198"	"Transcript"	"intron_variant"	"-/12746"	"-/4383"	"-/1460"	""	""	""	"1"	NA	-1	"PTPRT"	"HGNC"	9682	"protein_coding"	""	"CCDS68127.1"	"ENSP00000362294"	"O14522"	""	"UPI00001AF6FA"	"NM_133170.3"	""	""	""	"9/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c3022896-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322916666666667	"WGS"	FALSE
"11408"	"PTPRT"	11122	"mskcc.org"	"GRCh37"	"20"	41638360	41638360	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.89-123788G>A"	""	""	"ENST00000373198"	""	86	"62"	24	46	"46"	0	"PTPRT,intron_variant,,ENST00000373198,NM_133170.3;PTPRT,intron_variant,,ENST00000373201,;PTPRT,intron_variant,,ENST00000373193,NM_007050.5;PTPRT,intron_variant,,ENST00000373190,;PTPRT,intron_variant,,ENST00000373184,;PTPRT,intron_variant,,ENST00000356100,;PTPRT,intron_variant,,ENST00000373187,;"	"T"	"ENSG00000196090"	"ENST00000373198"	"Transcript"	"intron_variant"	"-/12746"	"-/4383"	"-/1460"	""	""	""	"1"	NA	-1	"PTPRT"	"HGNC"	9682	"protein_coding"	""	"CCDS68127.1"	"ENSP00000362294"	"O14522"	""	"UPI00001AF6FA"	"NM_133170.3"	""	""	""	"1/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c302335e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27906976744186	"WGS"	FALSE
"11409"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	41865058	41865058	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"68"	29	46	"46"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c3024380-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298969072164948	"WGS"	FALSE
"11410"	"RPL35AP"	0	"mskcc.org"	"GRCh37"	"20"	46102716	46102716	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000425552"	""	92	"84"	8	40	"40"	0	"RPL35AP,downstream_gene_variant,,ENST00000425552,;"	"C"	"ENSG00000234075"	"ENST00000425552"	"Transcript"	"downstream_gene_variant"	"-/326"	""	""	""	""	""	"1"	"4242"	-1	"RPL35AP"	"HGNC"	16546	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c3035748-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"11411"	"SULF2"	55959	"mskcc.org"	"GRCh37"	"20"	46389831	46389831	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-100-3624G>T"	""	""	"ENST00000359930"	""	92	"59"	33	62	"62"	0	"SULF2,intron_variant,,ENST00000359930,NM_018837.3;SULF2,intron_variant,,ENST00000484875,NM_198596.2,NM_001161841.1;SULF2,intron_variant,,ENST00000361612,;SULF2,intron_variant,,ENST00000467815,;SULF2,intron_variant,,ENST00000437955,;SULF2,upstream_gene_variant,,ENST00000474450,;SULF2,intron_variant,,ENST00000463221,;"	"A"	"ENSG00000196562"	"ENST00000359930"	"Transcript"	"intron_variant"	"-/4915"	"-/2613"	"-/870"	""	""	""	"1"	NA	-1	"SULF2"	"HGNC"	20392	"protein_coding"	"YES"	"CCDS13408.1"	"ENSP00000353007"	"Q8IWU5"	"Q5BKT1,B1AMP9"	"UPI000003FFBA"	"NM_018837.3"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c303700c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358695652173913	"WGS"	FALSE
"11412"	"CSE1L"	1434	"mskcc.org"	"GRCh37"	"20"	47710925	47710925	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2594+102C>T"	""	""	"ENST00000262982"	""	78	"47"	31	50	"50"	0	"CSE1L,intron_variant,,ENST00000262982,NM_001316.3,NM_001256135.1;CSE1L,intron_variant,,ENST00000396192,;CSE1L,intron_variant,,ENST00000542325,;CSE1L,intron_variant,,ENST00000469700,;"	"T"	"ENSG00000124207"	"ENST00000262982"	"Transcript"	"intron_variant"	"-/3553"	"-/2916"	"-/971"	""	""	""	"1"	NA	1	"CSE1L"	"HGNC"	2431	"protein_coding"	"YES"	"CCDS13412.1"	"ENSP00000262982"	"P55060"	""	"UPI000013D377"	"NM_001316.3,NM_001256135.1"	""	""	""	"23/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c30414a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.397435897435897	"WGS"	FALSE
"11413"	"KCNB1"	3745	"mskcc.org"	"GRCh37"	"20"	47988888	47988888	"+"	"3'UTR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*632A>T"	""	""	"ENST00000371741"	"2/2"	89	"56"	33	59	"59"	0	"KCNB1,3_prime_UTR_variant,,ENST00000371741,NM_004975.2;"	"A"	"ENSG00000158445"	"ENST00000371741"	"Transcript"	"3_prime_UTR_variant"	"3376/11850"	"-/2577"	"-/858"	""	""	""	"1"	NA	-1	"KCNB1"	"HGNC"	6231	"protein_coding"	"YES"	"CCDS13418.1"	"ENSP00000360806"	"Q14721"	""	"UPI000012DC80"	"NM_004975.2"	""	""	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"c3042b78-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.370786516853933	"WGS"	FALSE
"11414"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	48213544	48213544	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"73"	7	64	"64"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c3043668-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0875	"WGS"	FALSE
"11415"	"TMEM189"	7335	"mskcc.org"	"GRCh37"	"20"	48773553	48773553	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000557021"	""	91	"67"	24	56	"56"	0	"TMEM189,upstream_gene_variant,,ENST00000557021,NM_199203.2;TMEM189-UBE2V1,upstream_gene_variant,,ENST00000341698,NM_001257399.1;TMEM189,upstream_gene_variant,,ENST00000371650,NM_001162505.1;TMEM189,upstream_gene_variant,,ENST00000371652,NM_199129.2;TMEM189,upstream_gene_variant,,ENST00000453505,;TMEM189,upstream_gene_variant,,ENST00000371658,;"	"G"	"ENSG00000240849"	"ENST00000557021"	"Transcript"	"upstream_gene_variant"	"-/2916"	"-/1113"	"-/370"	""	""	""	"1"	"3218"	-1	"TMEM189"	"HGNC"	16735	"protein_coding"	"YES"	"CCDS13424.1"	"ENSP00000450635"	""	"G3V2F7"	"UPI0000367052"	"NM_199203.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c3048aaa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263736263736264	"WGS"	FALSE
"11416"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	49734138	49734138	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"49"	32	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c304e59a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.395061728395062	"WGS"	FALSE
"11417"	"RP4-723E3.1"	101927700	"mskcc.org"	"GRCh37"	"20"	50991690	50991690	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.335+19792G>A"	""	""	"ENST00000454600"	""	73	"53"	20	53	"53"	0	"RP4-723E3.1,intron_variant,,ENST00000454600,;"	"A"	"ENSG00000234948"	"ENST00000454600"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/745"	""	""	""	""	""	"1"	NA	1	"RP4-723E3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c3054684-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273972602739726	"WGS"	FALSE
"11418"	"RP4-723E3.1"	101927700	"mskcc.org"	"GRCh37"	"20"	51256874	51256874	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.449-6155A>T"	""	""	"ENST00000428009"	""	95	"69"	26	60	"60"	0	"RP4-723E3.1,intron_variant,,ENST00000428009,;RP4-723E3.1,intron_variant,,ENST00000454600,;"	"T"	"ENSG00000234948"	"ENST00000428009"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4390"	""	""	""	""	""	"1"	NA	1	"RP4-723E3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c3055c32-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"11419"	"ZNF217"	7764	"mskcc.org"	"GRCh37"	"20"	52210785	52210785	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371471"	""	63	"45"	18	32	"32"	0	"ZNF217,intron_variant,,ENST00000431687,;ZNF217,upstream_gene_variant,,ENST00000371471,;ZNF217,intron_variant,,ENST00000540425,;"	"A"	"ENSG00000171940"	"ENST00000371471"	"Transcript"	"upstream_gene_variant"	"-/5796"	"-/3147"	"-/1048"	""	""	""	"1"	"407"	-1	"ZNF217"	"HGNC"	13009	"protein_coding"	"YES"	"CCDS13443.1"	"ENSP00000360526"	"O75362"	"A2A326"	"UPI000013C323"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c3059be8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"11420"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	53276288	53276288	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"72"	7	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c305f2f0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"11421"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	53292072	53292072	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"66"	19	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c305f3cc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223529411764706	"WGS"	FALSE
"11422"	"CASS4"	57091	"mskcc.org"	"GRCh37"	"20"	54987154	54987154	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"rs143418478"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371336"	""	95	"67"	28	58	"58"	0	"CASS4,upstream_gene_variant,,ENST00000371336,NM_001164114.1,NM_020356.3;CASS4,upstream_gene_variant,,ENST00000360314,NM_001164116.1;CASS4,upstream_gene_variant,,ENST00000434344,NM_001164115.1;CASS4,upstream_gene_variant,,ENST00000497244,;"	"T"	"ENSG00000087589"	"ENST00000371336"	"Transcript"	"upstream_gene_variant"	"-/3155"	"-/2361"	"-/786"	""	""	"rs143418478"	"1"	"160"	1	"CASS4"	"HGNC"	15878	"protein_coding"	"YES"	"CCDS33492.1"	"ENSP00000360387"	"Q9NQ75"	""	"UPI00001285DB"	"NM_001164114.1,NM_020356.3"	""	""	""	""	""	"T:0.0010"	"T:0.003"	"T:0.0014"	NA	"T:0"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c3063e18-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294736842105263	"WGS"	FALSE
"11423"	"ENSR00001724759"	0	"mskcc.org"	"GRCh37"	"20"	55287725	55287725	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001724759"	""	95	"87"	8	50	"50"	0	""	"T"	""	"ENSR00001724759"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c306593e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0842105263157895	"WGS"	FALSE
"11424"	"BMP7"	655	"mskcc.org"	"GRCh37"	"20"	55740209	55740209	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000395863"	""	79	"53"	26	51	"51"	0	"BMP7,downstream_gene_variant,,ENST00000395863,NM_001719.2;"	"A"	"ENSG00000101144"	"ENST00000395863"	"Transcript"	"downstream_gene_variant"	"-/4013"	"-/1296"	"-/431"	""	""	""	"1"	"3595"	-1	"BMP7"	"HGNC"	1074	"protein_coding"	"YES"	"CCDS13455.1"	"ENSP00000379204"	"P18075"	"Q9NQQ8,Q9H2W7,A8K571"	"UPI00000349AD"	"NM_001719.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c3067928-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329113924050633	"WGS"	FALSE
"11425"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	57542217	57542217	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"49"	8	38	"38"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c307361a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.140350877192982	"WGS"	FALSE
"11426"	"MIR1257"	100302168	"mskcc.org"	"GRCh37"	"20"	60523624	60523624	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408490"	""	20	"16"	4	5	"5"	0	"TAF4,downstream_gene_variant,,ENST00000474089,;MIR1257,downstream_gene_variant,,ENST00000408490,;"	"C"	"ENSG00000221417"	"ENST00000408490"	"Transcript"	"downstream_gene_variant"	"-/117"	""	""	""	""	""	"1"	"4978"	-1	"MIR1257"	"HGNC"	35322	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c308a798-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"11427"	"MIR1257"	100302168	"mskcc.org"	"GRCh37"	"20"	60523625	60523625	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408490"	""	20	"16"	4	5	"5"	0	"TAF4,downstream_gene_variant,,ENST00000474089,;MIR1257,downstream_gene_variant,,ENST00000408490,;"	"A"	"ENSG00000221417"	"ENST00000408490"	"Transcript"	"downstream_gene_variant"	"-/117"	""	""	""	""	""	"1"	"4977"	-1	"MIR1257"	"HGNC"	35322	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c308a87e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"11428"	"ENSR00001725769"	0	"mskcc.org"	"GRCh37"	"20"	61609445	61609445	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001725769"	""	117	"109"	8	71	"71"	0	""	"G"	""	"ENSR00001725769"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c3096f02-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0683760683760684	"WGS"	FALSE
"11429"	"STMN3"	50861	"mskcc.org"	"GRCh37"	"20"	62273785	62273785	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.292-133C>T"	""	""	"ENST00000370053"	""	64	"50"	14	37	"37"	0	"STMN3,intron_variant,,ENST00000370053,NM_015894.3;STMN3,intron_variant,,ENST00000540534,NM_001276310.1;"	"A"	"ENSG00000197457"	"ENST00000370053"	"Transcript"	"intron_variant"	"-/2255"	"-/543"	"-/180"	""	""	""	"1"	NA	-1	"STMN3"	"HGNC"	15926	"protein_coding"	"YES"	"CCDS13529.1"	"ENSP00000359070"	"Q9NZ72"	"B7Z5G4"	"UPI000013611C"	"NM_015894.3"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c30a6448-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WGS"	FALSE
"11430"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	14457975	14457975	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"74"	20	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c316f38e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212765957446809	"WGS"	FALSE
"11431"	"CHODL"	140578	"mskcc.org"	"GRCh37"	"21"	19566402	19566402	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs569568196"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-44-62424C>T"	""	""	"ENST00000400128"	""	95	"70"	25	53	"53"	0	"CHODL,intron_variant,,ENST00000400128,;CHODL,intron_variant,,ENST00000400127,NM_001204176.1;CHODL,intron_variant,,ENST00000400135,NM_001204178.1;CHODL,intron_variant,,ENST00000400131,NM_001204177.1;"	"T"	"ENSG00000154645"	"ENST00000400128"	"Transcript"	"intron_variant"	"-/2421"	"-/699"	"-/232"	""	""	"rs569568196"	"1"	NA	1	"CHODL"	"HGNC"	17807	"protein_coding"	""	"CCDS56209.1"	"ENSP00000382993"	"Q9H9P2"	""	"UPI000015F4C4"	""	""	""	""	"2/6"	""	"T:0.0012"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.0061"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c3187772-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"11432"	"TMPRSS15"	5651	"mskcc.org"	"GRCh37"	"21"	19722779	19722779	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1171+2441G>A"	""	""	"ENST00000284885"	""	81	"69"	12	42	"42"	0	"TMPRSS15,intron_variant,,ENST00000284885,NM_002772.2;"	"T"	"ENSG00000154646"	"ENST00000284885"	"Transcript"	"intron_variant"	"-/3947"	"-/3060"	"-/1019"	""	""	""	"1"	NA	-1	"TMPRSS15"	"HGNC"	9490	"protein_coding"	"YES"	"CCDS13571.1"	"ENSP00000284885"	"P98073"	"Q9NR95"	"UPI000013DDBE"	"NM_002772.2"	""	""	""	"10/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"c31883ca-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"11433"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	21463794	21463794	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"60"	26	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c318ca38-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302325581395349	"WGS"	FALSE
"11434"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	22064330	22064330	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"76"	29	63	"62"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c318e270-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276190476190476	"WGS"	FALSE
"11435"	"NCAM2"	4685	"mskcc.org"	"GRCh37"	"21"	22605903	22605903	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.56-46995T>A"	""	""	"ENST00000400546"	""	90	"70"	20	66	"66"	0	"NCAM2,intron_variant,,ENST00000400546,NM_004540.3;NCAM2,intron_variant,,ENST00000284894,;NCAM2,intron_variant,,ENST00000535285,;"	"A"	"ENSG00000154654"	"ENST00000400546"	"Transcript"	"intron_variant"	"-/8135"	"-/2514"	"-/837"	""	""	""	"1"	NA	1	"NCAM2"	"HGNC"	7657	"protein_coding"	"YES"	"CCDS42910.1"	"ENSP00000383392"	"O15394"	"D3DSC5"	"UPI00001A3703"	"NM_004540.3"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c318f5a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"11436"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	23283080	23283080	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs570832194"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	65	"42"	23	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs570832194"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0002"	"C:0"	"C:0.0014"	NA	"C:0"	"C:0"	"C:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c319165a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.353846153846154	"WGS"	FALSE
"11437"	"LINC00308"	54143	"mskcc.org"	"GRCh37"	"21"	23483004	23483004	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.205-1086C>T"	""	""	"ENST00000419431"	""	66	"50"	16	46	"46"	0	"LINC00308,intron_variant,,ENST00000419431,;"	"T"	"ENSG00000184856"	"ENST00000419431"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/727"	""	""	""	""	""	"1"	NA	1	"LINC00308"	"HGNC"	16023	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c3191d4e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242424242424242	"WGS"	FALSE
"11438"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	23551463	23551463	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"67"	33	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c319205a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.33	"WGS"	FALSE
"11439"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	23845326	23845326	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"68"	25	75	"75"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c3193194-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"11440"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	24346857	24346857	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"85"	33	68	"68"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"c3194bac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279661016949153	"WGS"	FALSE
"11441"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	24347328	24347328	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"52"	16	44	"44"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c3194cc4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"11442"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	24374975	24374975	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"71"	6	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c3194db4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"11443"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	24525924	24525924	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"75"	28	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c31952f0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271844660194175	"WGS"	FALSE
"11444"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	26174320	26174320	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"83"	9	63	"63"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c3199076-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0978260869565217	"WGS"	FALSE
"11445"	"AP000233.4"	0	"mskcc.org"	"GRCh37"	"21"	26689560	26689560	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs181478601"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.89+16491C>T"	""	""	"ENST00000409758"	""	86	"64"	22	58	"58"	0	"AP000233.4,intron_variant,,ENST00000409758,;"	"A"	"ENSG00000222042"	"ENST00000409758"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/763"	""	""	""	""	"rs181478601"	"1"	NA	-1	"AP000233.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	"A:0.0006"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0.002"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c3199f08-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255813953488372	"WGS"	FALSE
"11446"	"ADAMTS5"	11096	"mskcc.org"	"GRCh37"	"21"	28322234	28322234	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1237+4824G>A"	""	""	"ENST00000284987"	""	86	"60"	26	48	"48"	0	"ADAMTS5,intron_variant,,ENST00000284987,NM_007038.3;MIR4759,upstream_gene_variant,,ENST00000584048,;"	"T"	"ENSG00000154736"	"ENST00000284987"	"Transcript"	"intron_variant"	"-/9056"	"-/2793"	"-/930"	""	""	""	"1"	NA	-1	"ADAMTS5"	"HGNC"	221	"protein_coding"	"YES"	"CCDS13579.1"	"ENSP00000284987"	"Q9UNA0"	""	"UPI00001AEAC2"	"NM_007038.3"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c319ee68-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302325581395349	"WGS"	FALSE
"11447"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	28889288	28889288	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"55"	18	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c31a0c2c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246575342465753	"WGS"	FALSE
"11448"	"BACH1"	571	"mskcc.org"	"GRCh37"	"21"	30667065	30667065	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000399921"	""	97	"70"	27	50	"50"	0	"BACH1,intron_variant,,ENST00000546469,;BACH1,intron_variant,,ENST00000550131,;BACH1,intron_variant,,ENST00000548219,;BACH1,intron_variant,,ENST00000547141,;BACH1,upstream_gene_variant,,ENST00000399921,NM_206866.1;BACH1,upstream_gene_variant,,ENST00000286800,NM_001186.2;BACH1,upstream_gene_variant,,ENST00000548467,;"	"T"	"ENSG00000156273"	"ENST00000399921"	"Transcript"	"upstream_gene_variant"	"-/5769"	"-/2211"	"-/736"	""	""	""	"1"	"4672"	1	"BACH1"	"HGNC"	935	"protein_coding"	"YES"	"CCDS13585.1"	"ENSP00000382805"	"O14867"	"Q6ICU0,F8VZL7,C9JMP6,C9IYR0,C9IYH8"	"UPI000012673F"	"NM_206866.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c31a61d6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278350515463918	"WGS"	FALSE
"11449"	"BACH1"	571	"mskcc.org"	"GRCh37"	"21"	30667066	30667066	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000399921"	""	95	"69"	26	51	"51"	0	"BACH1,intron_variant,,ENST00000546469,;BACH1,intron_variant,,ENST00000550131,;BACH1,intron_variant,,ENST00000548219,;BACH1,intron_variant,,ENST00000547141,;BACH1,upstream_gene_variant,,ENST00000399921,NM_206866.1;BACH1,upstream_gene_variant,,ENST00000286800,NM_001186.2;BACH1,upstream_gene_variant,,ENST00000548467,;"	"G"	"ENSG00000156273"	"ENST00000399921"	"Transcript"	"upstream_gene_variant"	"-/5769"	"-/2211"	"-/736"	""	""	""	"1"	"4671"	1	"BACH1"	"HGNC"	935	"protein_coding"	"YES"	"CCDS13585.1"	"ENSP00000382805"	"O14867"	"Q6ICU0,F8VZL7,C9JMP6,C9IYR0,C9IYH8"	"UPI000012673F"	"NM_206866.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c31a62b2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"11450"	"KRTAP19-7"	337974	"mskcc.org"	"GRCh37"	"21"	31936701	31936701	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000334849"	""	83	"55"	28	57	"57"	0	"KRTAP19-7,upstream_gene_variant,,ENST00000334849,NM_181614.1;"	"A"	"ENSG00000244362"	"ENST00000334849"	"Transcript"	"upstream_gene_variant"	"-/440"	"-/192"	"-/63"	""	""	""	"1"	"3068"	-1	"KRTAP19-7"	"HGNC"	18942	"protein_coding"	"YES"	"CCDS13599.1"	"ENSP00000334696"	"Q3SYF9"	""	"UPI00001A9E4E"	"NM_181614.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c31a9066-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337349397590361	"WGS"	FALSE
"11451"	"TIAM1"	7074	"mskcc.org"	"GRCh37"	"21"	32875915	32875915	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-421-39567T>C"	""	""	"ENST00000286827"	""	13	"8"	5	12	"11"	1	"TIAM1,intron_variant,,ENST00000286827,NM_003253.2;TIAM1,intron_variant,,ENST00000469412,;"	"G"	"ENSG00000156299"	"ENST00000286827"	"Transcript"	"intron_variant"	"-/7200"	"-/4776"	"-/1591"	""	""	""	"1"	NA	-1	"TIAM1"	"HGNC"	11805	"protein_coding"	"YES"	"CCDS13609.1"	"ENSP00000286827"	"Q13009"	"C9JMB5"	"UPI000013DE6F"	"NM_003253.2"	""	""	""	"1/28"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c31ac8f6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WGS"	FALSE
"11452"	"SH3BGR"	6450	"mskcc.org"	"GRCh37"	"21"	40849720	40849720	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.501+2579G>A"	""	""	"ENST00000333634"	""	113	"77"	36	65	"65"	0	"SH3BGR,intron_variant,,ENST00000333634,NM_007341.2;SH3BGR,intron_variant,,ENST00000380637,NM_001001713.1;SH3BGR,intron_variant,,ENST00000452550,;SH3BGR,intron_variant,,ENST00000380634,;SH3BGR,intron_variant,,ENST00000458295,;SH3BGR,intron_variant,,ENST00000380631,;SH3BGR,intron_variant,,ENST00000440288,;SH3BGR,intron_variant,,ENST00000423596,;"	"A"	"ENSG00000185437"	"ENST00000333634"	"Transcript"	"intron_variant"	"-/1251"	"-/720"	"-/239"	""	""	""	"1"	NA	1	"SH3BGR"	"HGNC"	10822	"protein_coding"	"YES"	"CCDS13666.1"	"ENSP00000332513"	"P55822"	"C9JX40"	"UPI00001B03C6"	"NM_007341.2"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c31d7d30-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.31858407079646	"WGS"	FALSE
"11453"	"CBS"	875	"mskcc.org"	"GRCh37"	"21"	44474317	44474317	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1553-224G>A"	""	""	"ENST00000398165"	""	77	"52"	25	47	"47"	0	"CBS,intron_variant,,ENST00000398165,NM_000071.2;CBS,intron_variant,,ENST00000352178,NM_001178008.1;CBS,intron_variant,,ENST00000398168,;CBS,intron_variant,,ENST00000398158,;CBS,intron_variant,,ENST00000359624,NM_001178009.1;CBS,intron_variant,,ENST00000544202,;CBS,intron_variant,,ENST00000451248,;CBS,downstream_gene_variant,,ENST00000430013,;CBS,downstream_gene_variant,,ENST00000458223,;CBS,intron_variant,,ENST00000461686,;CBS,intron_variant,,ENST00000462349,;CBS,downstream_gene_variant,,ENST00000491776,;"	"T"	"ENSG00000160200"	"ENST00000398165"	"Transcript"	"intron_variant"	"-/2605"	"-/1656"	"-/551"	""	""	""	"1"	NA	-1	"CBS"	"HGNC"	1550	"protein_coding"	"YES"	"CCDS13693.1"	"ENSP00000381231"	"P35520"	"Q96EH7,Q3LR94,F5H2U1,C9JMA6"	"UPI0000036BC5"	"NM_000071.2"	""	""	""	"16/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"c31ee4fe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324675324675325	"WGS"	FALSE
"11454"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	46165083	46165083	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"75"	11	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c31fe1ec-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127906976744186	"WGS"	FALSE
"11455"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	46983216	46983216	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"62"	30	61	"60"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c320a320-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326086956521739	"WGS"	FALSE
"11456"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	17708281	17708281	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"84"	8	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c324e85e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"11457"	"ATP6V1E1"	529	"mskcc.org"	"GRCh37"	"22"	18098975	18098975	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.100-2889T>C"	""	""	"ENST00000253413"	""	84	"75"	9	33	"33"	0	"ATP6V1E1,intron_variant,,ENST00000253413,NM_001696.3;ATP6V1E1,intron_variant,,ENST00000399796,NM_001039367.1;ATP6V1E1,intron_variant,,ENST00000399798,NM_001039366.1;ATP6V1E1,intron_variant,,ENST00000413576,;ATP6V1E1,intron_variant,,ENST00000478963,;ATP6V1E1,intron_variant,,ENST00000460085,;ATP6V1E1,intron_variant,,ENST00000484653,;ATP6V1E1,intron_variant,,ENST00000481365,;"	"G"	"ENSG00000131100"	"ENST00000253413"	"Transcript"	"intron_variant"	"-/1402"	"-/681"	"-/226"	""	""	""	"1"	NA	-1	"ATP6V1E1"	"HGNC"	857	"protein_coding"	"YES"	"CCDS13745.1"	"ENSP00000253413"	"P36543"	"Q53Y06"	"UPI0000000C60"	"NM_001696.3"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c3252440-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"11458"	"BCL2L13"	23786	"mskcc.org"	"GRCh37"	"22"	18137538	18137538	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-50-890T>A"	""	""	"ENST00000317582"	""	114	"106"	8	62	"62"	0	"BCL2L13,intron_variant,,ENST00000355028,NM_001270734.1,NM_001270733.1;BCL2L13,intron_variant,,ENST00000317582,NM_015367.3;BCL2L13,intron_variant,,ENST00000543133,NM_001270729.1;BCL2L13,intron_variant,,ENST00000493680,;BCL2L13,intron_variant,,ENST00000337612,;BCL2L13,intron_variant,,ENST00000538149,;BCL2L13,intron_variant,,ENST00000399782,;BCL2L13,upstream_gene_variant,,ENST00000418951,;BCL2L13,intron_variant,,ENST00000399781,;BCL2L13,intron_variant,,ENST00000464649,;BCL2L13,intron_variant,,ENST00000498133,;"	"A"	"ENSG00000099968"	"ENST00000317582"	"Transcript"	"intron_variant"	"-/2992"	"-/1458"	"-/485"	""	""	""	"1"	NA	1	"BCL2L13"	"HGNC"	17164	"protein_coding"	"YES"	"CCDS13746.1"	"ENSP00000318883"	"Q9BXK5"	"B2RB43"	"UPI000004F301"	"NM_015367.3"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c3252a4e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0701754385964912	"WGS"	FALSE
"11459"	"BID"	637	"mskcc.org"	"GRCh37"	"22"	18236214	18236214	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs555405514"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.81-3274C>T"	""	""	"ENST00000317361"	""	83	"76"	7	39	"39"	0	"BID,intron_variant,,ENST00000317361,NM_197966.2;BID,intron_variant,,ENST00000399774,NM_001244569.1,NM_001196.3;BID,intron_variant,,ENST00000399767,NM_197967.2;BID,intron_variant,,ENST00000399765,NM_001244570.1;BID,intron_variant,,ENST00000342111,;BID,intron_variant,,ENST00000551952,NM_001244567.1;BID,intron_variant,,ENST00000473439,;BID,intron_variant,,ENST00000552886,;BID,intron_variant,,ENST00000550946,;"	"A"	"ENSG00000015475"	"ENST00000317361"	"Transcript"	"intron_variant"	"-/2493"	"-/726"	"-/241"	""	""	"rs555405514"	"1"	NA	-1	"BID"	"HGNC"	1050	"protein_coding"	"YES"	"CCDS13747.1"	"ENSP00000318822"	"P55957"	"B2ZP79,B1PL87,A8ASI8"	"UPI00001D69F1"	"NM_197966.2"	""	""	""	"1/5"	""	"A:0.0004"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.002"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c3253a48-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"11460"	"MICAL3"	57553	"mskcc.org"	"GRCh37"	"22"	18362578	18362578	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2241+6066C>G"	""	""	"ENST00000441493"	""	86	"62"	24	65	"65"	0	"MICAL3,intron_variant,,ENST00000441493,NM_015241.2;MICAL3,intron_variant,,ENST00000429452,NM_001136004.1;MICAL3,intron_variant,,ENST00000461307,;MICAL3,intron_variant,,ENST00000414725,;MICAL3,intron_variant,,ENST00000444520,NM_001122731.1;MICAL3,intron_variant,,ENST00000585038,;MICAL3,intron_variant,,ENST00000207726,;MICAL3,intron_variant,,ENST00000400561,;MICAL3,intron_variant,,ENST00000383094,;MICAL3,upstream_gene_variant,,ENST00000462645,;MICAL3,upstream_gene_variant,,ENST00000465886,;MICAL3,upstream_gene_variant,,ENST00000498345,;MICAL3,intron_variant,,ENST00000495076,;"	"C"	"ENSG00000243156"	"ENST00000441493"	"Transcript"	"intron_variant"	"-/9445"	"-/6009"	"-/2002"	""	""	""	"1"	NA	-1	"MICAL3"	"HGNC"	24694	"protein_coding"	"YES"	"CCDS46659.1"	"ENSP00000416015"	"Q7RTP6"	"C9J922,A8K0E1"	"UPI0001823FDE"	"NM_015241.2"	""	""	""	"16/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c325715c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27906976744186	"WGS"	FALSE
"11461"	"FAM230A"	101927859	"mskcc.org"	"GRCh37"	"22"	20715082	20715082	"+"	"3'UTR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*4096C>A"	""	""	"ENST00000434783"	"8/8"	13	"8"	5	6	"6"	0	"FAM230A,3_prime_UTR_variant,,ENST00000434783,;USP41,intron_variant,,ENST00000454608,;USP41,downstream_gene_variant,,ENST00000292729,;USP41,intron_variant,,ENST00000486536,;USP41,downstream_gene_variant,,ENST00000470202,;"	"A"	"ENSG00000188280"	"ENST00000434783"	"Transcript"	"3_prime_UTR_variant"	"6998/8854"	"-/2718"	"-/905"	""	""	""	"1"	NA	1	"FAM230A"	"HGNC"	45045	"protein_coding"	"YES"	""	"ENSP00000463576"	""	"J3QLJ4"	"UPI000268B488"	""	""	""	"8/8"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c32787f8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WGS"	FALSE
"11462"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	21251274	21251274	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"70"	6	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c327d348-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"11463"	"PPIL2"	23759	"mskcc.org"	"GRCh37"	"22"	22021841	22021841	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.32+1421A>C"	""	""	"ENST00000412327"	""	97	"88"	9	55	"55"	0	"PPIL2,intron_variant,,ENST00000335025,;PPIL2,intron_variant,,ENST00000406385,;PPIL2,intron_variant,,ENST00000412327,NM_148176.2,NM_148175.2,NM_014337.3;PPIL2,intron_variant,,ENST00000398831,;PPIL2,intron_variant,,ENST00000456792,;PPIL2,intron_variant,,ENST00000492445,;PPIL2,intron_variant,,ENST00000458567,;PPIL2,intron_variant,,ENST00000498589,;PPIL2,intron_variant,,ENST00000484439,;PPIL2,upstream_gene_variant,,ENST00000485930,;PPIL2,intron_variant,,ENST00000417788,;PPIL2,intron_variant,,ENST00000498109,;PPIL2,intron_variant,,ENST00000496819,;"	"C"	"ENSG00000100023"	"ENST00000412327"	"Transcript"	"intron_variant"	"-/2709"	"-/1584"	"-/527"	""	""	""	"1"	NA	1	"PPIL2"	"HGNC"	9261	"protein_coding"	"YES"	"CCDS46670.1"	"ENSP00000390427"	"Q13356"	""	"UPI000002A7A2"	"NM_148176.2,NM_148175.2,NM_014337.3"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c328c564-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0927835051546392	"WGS"	FALSE
"11464"	"KB-1027C11.4"	0	"mskcc.org"	"GRCh37"	"22"	22235948	22235948	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000435222"	""	112	"106"	6	57	"57"	0	"KB-1027C11.4,downstream_gene_variant,,ENST00000435222,;"	"T"	"ENSG00000225544"	"ENST00000435222"	"Transcript"	"downstream_gene_variant"	"-/392"	""	""	""	""	""	"1"	"3673"	-1	"KB-1027C11.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c328ec7e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0535714285714286	"WGS"	FALSE
"11465"	"ADORA2A-AS1"	646023	"mskcc.org"	"GRCh37"	"22"	24865971	24865971	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.425+1765T>C"	""	""	"ENST00000543438"	""	85	"77"	8	44	"44"	0	"UPB1,intron_variant,,ENST00000413389,;ADORA2A-AS1,intron_variant,,ENST00000543438,;ADORA2A-AS1,intron_variant,,ENST00000326341,;ADORA2A-AS1,intron_variant,,ENST00000427813,;ADORA2A-AS1,intron_variant,,ENST00000412790,;"	"G"	"ENSG00000178803"	"ENST00000543438"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2568"	""	""	""	""	""	"1"	NA	-1	"ADORA2A-AS1"	"HGNC"	37122	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c32a23b4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"11466"	"CTA-211A9.5"	0	"mskcc.org"	"GRCh37"	"22"	27173182	27173182	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.552+265A>T"	""	""	"ENST00000437071"	""	100	"70"	30	69	"69"	0	"CTA-211A9.5,intron_variant,,ENST00000437071,;CTA-211A9.5,intron_variant,,ENST00000435162,;CTA-211A9.5,downstream_gene_variant,,ENST00000450963,;CTA-211A9.5,downstream_gene_variant,,ENST00000440816,;"	"T"	"ENSG00000244625"	"ENST00000437071"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1006"	""	""	""	""	""	"1"	NA	1	"CTA-211A9.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c32b2a98-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"11467"	"RFPL1"	5988	"mskcc.org"	"GRCh37"	"22"	29832674	29832674	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000354373"	""	105	"83"	22	48	"48"	0	"RFPL1,upstream_gene_variant,,ENST00000354373,NM_021026.2;RFPL1S,downstream_gene_variant,,ENST00000461286,;RFPL1S,downstream_gene_variant,,ENST00000539579,;"	"T"	"ENSG00000128250"	"ENST00000354373"	"Transcript"	"upstream_gene_variant"	"-/1496"	"-/954"	"-/317"	""	""	""	"1"	"1898"	1	"RFPL1"	"HGNC"	9977	"protein_coding"	"YES"	"CCDS13857.2"	"ENSP00000346342"	"O75677"	""	"UPI000013CC65"	"NM_021026.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c32c030a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.20952380952381	"WGS"	FALSE
"11468"	"HORMAD2"	150280	"mskcc.org"	"GRCh37"	"22"	30505349	30505349	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.295-2436T>C"	""	""	"ENST00000336726"	""	79	"71"	8	44	"44"	0	"HORMAD2,intron_variant,,ENST00000336726,NM_152510.2;HORMAD2,intron_variant,,ENST00000403975,;HORMAD2,intron_variant,,ENST00000450612,;HORMAD2,downstream_gene_variant,,ENST00000491605,;CTA-85E5.7,upstream_gene_variant,,ENST00000423857,;"	"C"	"ENSG00000176635"	"ENST00000336726"	"Transcript"	"intron_variant"	"-/2187"	"-/924"	"-/307"	""	""	""	"1"	NA	1	"HORMAD2"	"HGNC"	28383	"protein_coding"	"YES"	"CCDS46683.1"	"ENSP00000336984"	"Q8N7B1"	""	"UPI000006EB31"	"NM_152510.2"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c32c5242-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10126582278481	"WGS"	FALSE
"11469"	"SLC35E4"	339665	"mskcc.org"	"GRCh37"	"22"	31034463	31034463	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.619+1407A>T"	""	""	"ENST00000343605"	""	65	"60"	5	24	"24"	0	"SLC35E4,intron_variant,,ENST00000343605,NM_001001479.2;SLC35E4,intron_variant,,ENST00000406566,;SLC35E4,intron_variant,,ENST00000451479,;SLC35E4,intron_variant,,ENST00000300385,;"	"T"	"ENSG00000100036"	"ENST00000343605"	"Transcript"	"intron_variant"	"-/2714"	"-/1053"	"-/350"	""	""	""	"1"	NA	1	"SLC35E4"	"HGNC"	17058	"protein_coding"	"YES"	"CCDS13882.1"	"ENSP00000339626"	"Q6ICL7"	""	"UPI0000198650"	"NM_001001479.2"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c32c7a88-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"11470"	"RNU6-338P"	0	"mskcc.org"	"GRCh37"	"22"	31782586	31782586	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000383888"	""	104	"97"	7	63	"63"	0	"RNU6-338P,downstream_gene_variant,,ENST00000383888,;"	"G"	"ENSG00000206615"	"ENST00000383888"	"Transcript"	"downstream_gene_variant"	"-/105"	""	""	""	""	""	"1"	"2133"	-1	"RNU6-338P"	"HGNC"	47301	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"c32ccf1a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0673076923076923	"WGS"	FALSE
"11471"	"SFI1"	9814	"mskcc.org"	"GRCh37"	"22"	31989260	31989260	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1544+3697T>C"	""	""	"ENST00000400288"	""	42	"36"	6	22	"22"	0	"SFI1,intron_variant,,ENST00000432498,NM_014775.3;SFI1,intron_variant,,ENST00000540643,NM_001258325.1;SFI1,intron_variant,,ENST00000443326,NM_001258326.1,NM_001258327.1;SFI1,intron_variant,,ENST00000400288,NM_001007467.2;SFI1,intron_variant,,ENST00000414585,;SFI1,intron_variant,,ENST00000400289,;SFI1,intron_variant,,ENST00000443011,;SFI1,intron_variant,,ENST00000417682,;SFI1,intron_variant,,ENST00000382162,;SFI1,intron_variant,,ENST00000452250,;SFI1,intron_variant,,ENST00000524296,;"	"C"	"ENSG00000198089"	"ENST00000400288"	"Transcript"	"intron_variant"	"-/4002"	"-/3729"	"-/1242"	""	""	""	"1"	NA	1	"SFI1"	"HGNC"	29064	"protein_coding"	"YES"	"CCDS43004.1"	"ENSP00000383145"	"A8K8P3"	""	"UPI00004703B1"	"NM_001007467.2"	""	""	""	"15/32"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c32ce7ca-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"11472"	"RFPL2"	10739	"mskcc.org"	"GRCh37"	"22"	32599692	32599692	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000400237"	""	88	"81"	7	47	"47"	0	"RFPL2,intron_variant,,ENST00000248983,NM_001159545.1;RFPL2,upstream_gene_variant,,ENST00000400236,NM_001098527.2;RFPL2,upstream_gene_variant,,ENST00000400237,;RP1-90G24.10,upstream_gene_variant,,ENST00000434942,;IGLCOR22-1,downstream_gene_variant,,ENST00000523725,;"	"T"	"ENSG00000128253"	"ENST00000400237"	"Transcript"	"upstream_gene_variant"	"-/2407"	"-/1137"	"-/378"	""	""	""	"1"	"228"	-1	"RFPL2"	"HGNC"	9979	"protein_coding"	"YES"	"CCDS43009.2"	"ENSP00000383096"	"O75678"	""	"UPI000013CC66"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c32d294c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0795454545454545	"WGS"	FALSE
"11473"	"TIMP3"	7078	"mskcc.org"	"GRCh37"	"22"	33246587	33246587	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.204+1066A>G"	""	""	"ENST00000266085"	""	72	"51"	21	47	"47"	0	"TIMP3,intron_variant,,ENST00000266085,NM_000362.4;SYN3,intron_variant,,ENST00000358763,NM_001135774.1;SYN3,intron_variant,,ENST00000332840,NM_003490.3,NM_133633.2;SYN3,intron_variant,,ENST00000462268,;"	"G"	"ENSG00000100234"	"ENST00000266085"	"Transcript"	"intron_variant"	"-/4603"	"-/636"	"-/211"	""	""	""	"1"	NA	1	"TIMP3"	"HGNC"	11822	"protein_coding"	"YES"	"CCDS13911.1"	"ENSP00000266085"	"P35625"	""	"UPI000005F30A"	"NM_000362.4"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"c32d5ca0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WGS"	FALSE
"11474"	"LARGE"	9215	"mskcc.org"	"GRCh37"	"22"	34101854	34101854	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.107-55200C>T"	""	""	"ENST00000354992"	""	105	"75"	30	50	"50"	0	"LARGE,intron_variant,,ENST00000354992,NM_004737.4;LARGE,intron_variant,,ENST00000337431,;LARGE,intron_variant,,ENST00000397394,NM_133642.3;LARGE,intron_variant,,ENST00000402320,;LARGE,intron_variant,,ENST00000437602,;LARGE,intron_variant,,ENST00000413114,;LARGE,intron_variant,,ENST00000423375,;LARGE,intron_variant,,ENST00000434071,;LARGE,intron_variant,,ENST00000432776,;LARGE,intron_variant,,ENST00000430220,;SNORA76,upstream_gene_variant,,ENST00000517198,;LARGE,intron_variant,,ENST00000494763,;"	"A"	"ENSG00000133424"	"ENST00000354992"	"Transcript"	"intron_variant"	"-/4409"	"-/2271"	"-/756"	""	""	""	"1"	NA	-1	"LARGE"	"HGNC"	6511	"protein_coding"	"YES"	"CCDS13912.1"	"ENSP00000347088"	"O95461"	"B0QZ02,B0QZ01,B0QZ00,B0QYZ9,B0QYZ8"	"UPI000012E200"	"NM_004737.4"	""	""	""	"3/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"c32dadcc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"11475"	"RP1-272J12.1"	101926957	"mskcc.org"	"GRCh37"	"22"	35455400	35455400	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs577502683"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.686+4964G>A"	""	""	"ENST00000448318"	""	82	"57"	25	58	"58"	0	"RP1-272J12.1,intron_variant,,ENST00000448318,;"	"T"	"ENSG00000227895"	"ENST00000448318"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2129"	""	""	""	""	"rs577502683"	"1"	NA	-1	"RP1-272J12.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c32dff16-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304878048780488	"WGS"	FALSE
"11476"	"CACNG2"	10369	"mskcc.org"	"GRCh37"	"22"	36967427	36967427	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.296-4887G>C"	""	""	"ENST00000300105"	""	101	"94"	7	48	"48"	0	"CACNG2,intron_variant,,ENST00000300105,NM_006078.3;"	"G"	"ENSG00000166862"	"ENST00000300105"	"Transcript"	"intron_variant"	"-/2384"	"-/972"	"-/323"	""	""	""	"1"	NA	-1	"CACNG2"	"HGNC"	1406	"protein_coding"	"YES"	"CCDS13931.1"	"ENSP00000300105"	"Q9Y698"	""	"UPI00001272AC"	"NM_006078.3"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"c32ed166-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0693069306930693	"WGS"	FALSE
"11477"	"POLR2F"	5435	"mskcc.org"	"GRCh37"	"22"	38361240	38361240	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.222-1866C>G"	""	""	"ENST00000442738"	""	82	"77"	5	46	"46"	0	"POLR2F,intron_variant,,ENST00000442738,NM_021974.3;POLR2F,intron_variant,,ENST00000606538,;POLR2F,intron_variant,,ENST00000470701,;POLR2F,intron_variant,,ENST00000407936,;POLR2F,intron_variant,,ENST00000488684,;POLR2F,intron_variant,,ENST00000405557,;POLR2F,intron_variant,,ENST00000492213,;POLR2F,intron_variant,,ENST00000460648,;POLR2F,intron_variant,,ENST00000484894,;POLR2F,intron_variant,,ENST00000443002,;POLR2F,intron_variant,,ENST00000483713,;"	"G"	"ENSG00000100142"	"ENST00000442738"	"Transcript"	"intron_variant"	"-/2106"	"-/384"	"-/127"	""	""	""	"1"	NA	1	"POLR2F"	"HGNC"	9193	"protein_coding"	"YES"	"CCDS13963.1"	"ENSP00000403852"	"P61218"	"U3KQS8"	"UPI00001345E0"	"NM_021974.3"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c32f896c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0609756097560976	"WGS"	FALSE
"11478"	"CBY1"	25776	"mskcc.org"	"GRCh37"	"22"	39054231	39054231	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-179+1476A>C"	""	""	"ENST00000396811"	""	80	"71"	9	49	"49"	0	"CBY1,intron_variant,,ENST00000396811,NM_001002880.1;CBY1,intron_variant,,ENST00000216029,NM_015373.3;CBY1,intron_variant,,ENST00000416285,;CBY1,intron_variant,,ENST00000411557,;FAM227A,upstream_gene_variant,,ENST00000535113,NM_001013647.1;FAM227A,upstream_gene_variant,,ENST00000406767,;FAM227A,upstream_gene_variant,,ENST00000355830,;FAM227A,upstream_gene_variant,,ENST00000540952,;FAM227A,upstream_gene_variant,,ENST00000544346,;FAM227A,upstream_gene_variant,,ENST00000424706,;FAM227A,upstream_gene_variant,,ENST00000608409,;CBY1,intron_variant,,ENST00000489847,;CBY1,intron_variant,,ENST00000492576,;CBY1,intron_variant,,ENST00000485501,;CBY1,intron_variant,,ENST00000475924,;CBY1,intron_variant,,ENST00000492537,;FAM227A,upstream_gene_variant,,ENST00000484582,;FAM227A,upstream_gene_variant,,ENST00000490082,;"	"C"	"ENSG00000100211"	"ENST00000396811"	"Transcript"	"intron_variant"	"-/1269"	"-/381"	"-/126"	""	""	""	"1"	NA	1	"CBY1"	"HGNC"	1307	"protein_coding"	"YES"	"CCDS13974.1"	"ENSP00000380026"	"Q9Y3M2"	"B0QY54,B0QY53"	"UPI0000128720"	"NM_001002880.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c32ff30c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1125	"WGS"	FALSE
"11479"	"ST13"	6767	"mskcc.org"	"GRCh37"	"22"	41217462	41217462	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000216218"	""	59	"54"	5	40	"40"	0	"ST13,downstream_gene_variant,,ENST00000216218,NM_001278589.1,NM_003932.4;SLC25A17,upstream_gene_variant,,ENST00000435456,NM_006358.2;SLC25A17,upstream_gene_variant,,ENST00000544408,;SLC25A17,upstream_gene_variant,,ENST00000542412,;SLC25A17,upstream_gene_variant,,ENST00000434185,;SLC25A17,upstream_gene_variant,,ENST00000491545,;SLC25A17,upstream_gene_variant,,ENST00000263255,;SLC25A17,upstream_gene_variant,,ENST00000447566,;SLC25A17,upstream_gene_variant,,ENST00000420970,;SLC25A17,upstream_gene_variant,,ENST00000458600,;SLC25A17,upstream_gene_variant,,ENST00000427084,;SLC25A17,upstream_gene_variant,,ENST00000430221,;SLC25A17,upstream_gene_variant,,ENST00000426396,;SLC25A17,upstream_gene_variant,,ENST00000434193,;SLC25A17,upstream_gene_variant,,ENST00000443810,;SLC25A17,upstream_gene_variant,,ENST00000412879,;SLC25A17,upstream_gene_variant,,ENST00000449676,;"	"A"	"ENSG00000100380"	"ENST00000216218"	"Transcript"	"downstream_gene_variant"	"-/3595"	"-/1110"	"-/369"	""	""	""	"1"	"3077"	-1	"ST13"	"HGNC"	11343	"protein_coding"	"YES"	"CCDS14006.1"	"ENSP00000216218"	"P50502"	"Q0IJ56,F6VDH7,B7ZA40,B4E0U6"	"UPI000013605D"	"NM_001278589.1,NM_003932.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c330d358-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0847457627118644	"WGS"	FALSE
"11480"	"RBX1"	9978	"mskcc.org"	"GRCh37"	"22"	41357017	41357017	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.158-3034C>T"	""	""	"ENST00000216225"	""	109	"86"	23	75	"75"	0	"XPNPEP3,intron_variant,,ENST00000544094,;RBX1,intron_variant,,ENST00000216225,NM_014248.3;RBX1,intron_variant,,ENST00000476110,;"	"T"	"ENSG00000100387"	"ENST00000216225"	"Transcript"	"intron_variant"	"-/1188"	"-/327"	"-/108"	""	""	""	"1"	NA	1	"RBX1"	"HGNC"	9928	"protein_coding"	"YES"	"CCDS14009.1"	"ENSP00000216225"	"P62877"	""	"UPI0000028E5D"	"NM_014248.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c330e12c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211009174311927	"WGS"	FALSE
"11481"	"ACO2"	50	"mskcc.org"	"GRCh37"	"22"	41875506	41875506	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.36+10320G>C"	""	""	"ENST00000216254"	""	131	"124"	7	73	"73"	0	"ACO2,intron_variant,,ENST00000396512,;ACO2,intron_variant,,ENST00000216254,NM_001098.2;ACO2,intron_variant,,ENST00000471094,;"	"C"	"ENSG00000100412"	"ENST00000216254"	"Transcript"	"intron_variant"	"-/2741"	"-/2343"	"-/780"	""	""	""	"1"	NA	1	"ACO2"	"HGNC"	118	"protein_coding"	"YES"	"CCDS14017.1"	"ENSP00000216254"	"Q99798"	"B4DZ08,B4DEC3"	"UPI000003CA3B"	"NM_001098.2"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"c331495a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0534351145038168	"WGS"	FALSE
"11482"	"XRCC6"	2547	"mskcc.org"	"GRCh37"	"22"	42036388	42036388	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.773+2593T>C"	""	""	"ENST00000359308"	""	94	"86"	8	49	"49"	0	"XRCC6,intron_variant,,ENST00000359308,;XRCC6,intron_variant,,ENST00000360079,NM_001469.3;XRCC6,intron_variant,,ENST00000405878,;XRCC6,intron_variant,,ENST00000402580,;XRCC6,intron_variant,,ENST00000428575,;XRCC6,intron_variant,,ENST00000405506,;"	"C"	"ENSG00000196419"	"ENST00000359308"	"Transcript"	"intron_variant"	"-/2709"	"-/1830"	"-/609"	""	""	""	"1"	NA	1	"XRCC6"	"HGNC"	4055	"protein_coding"	"YES"	"CCDS14021.1"	"ENSP00000352257"	"P12956"	"F5H1I8"	"UPI0000000C8F"	""	""	""	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c33165ac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"11483"	"XRCC6"	2547	"mskcc.org"	"GRCh37"	"22"	42036396	42036396	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.773+2601A>G"	""	""	"ENST00000359308"	""	88	"81"	7	47	"47"	0	"XRCC6,intron_variant,,ENST00000359308,;XRCC6,intron_variant,,ENST00000360079,NM_001469.3;XRCC6,intron_variant,,ENST00000405878,;XRCC6,intron_variant,,ENST00000402580,;XRCC6,intron_variant,,ENST00000428575,;XRCC6,intron_variant,,ENST00000405506,;"	"G"	"ENSG00000196419"	"ENST00000359308"	"Transcript"	"intron_variant"	"-/2709"	"-/1830"	"-/609"	""	""	""	"1"	NA	1	"XRCC6"	"HGNC"	4055	"protein_coding"	"YES"	"CCDS14021.1"	"ENSP00000352257"	"P12956"	"F5H1I8"	"UPI0000000C8F"	""	""	""	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c3316692-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0795454545454545	"WGS"	FALSE
"11484"	"NHP2L1"	4809	"mskcc.org"	"GRCh37"	"22"	42067710	42067710	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000401959"	""	70	"63"	7	42	"42"	0	"NHP2L1,downstream_gene_variant,,ENST00000401959,NM_005008.3;NHP2L1,downstream_gene_variant,,ENST00000215956,;NHP2L1,downstream_gene_variant,,ENST00000355257,NM_001003796.1;NHP2L1,downstream_gene_variant,,ENST00000402458,;NHP2L1,downstream_gene_variant,,ENST00000463675,;"	"C"	"ENSG00000100138"	"ENST00000401959"	"Transcript"	"downstream_gene_variant"	"-/1670"	"-/387"	"-/128"	""	""	""	"1"	"2261"	-1	"NHP2L1"	"HGNC"	7819	"protein_coding"	"YES"	"CCDS14022.1"	"ENSP00000383949"	"P55769"	"Q6FHM6"	"UPI0000026E49"	"NM_005008.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c3316a02-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"11485"	"NFAM1"	150372	"mskcc.org"	"GRCh37"	"22"	42771627	42771627	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000329021"	""	65	"60"	5	28	"28"	0	"NFAM1,downstream_gene_variant,,ENST00000329021,NM_145912.5;"	"T"	"ENSG00000235568"	"ENST00000329021"	"Transcript"	"downstream_gene_variant"	"-/5602"	"-/813"	"-/270"	""	""	""	"1"	"4789"	-1	"NFAM1"	"HGNC"	29872	"protein_coding"	"YES"	"CCDS14034.1"	"ENSP00000333680"	"Q8NET5"	""	"UPI00000701BF"	"NM_145912.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c331c6a0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"11486"	"NFAM1"	150372	"mskcc.org"	"GRCh37"	"22"	42800595	42800595	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.564+4846A>T"	""	""	"ENST00000329021"	""	95	"72"	23	56	"56"	0	"NFAM1,intron_variant,,ENST00000329021,NM_145912.5;"	"A"	"ENSG00000235568"	"ENST00000329021"	"Transcript"	"intron_variant"	"-/5602"	"-/813"	"-/270"	""	""	""	"1"	NA	-1	"NFAM1"	"HGNC"	29872	"protein_coding"	"YES"	"CCDS14034.1"	"ENSP00000333680"	"Q8NET5"	""	"UPI00000701BF"	"NM_145912.5"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c331cb14-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242105263157895	"WGS"	FALSE
"11487"	"CTA-126B4.7"	0	"mskcc.org"	"GRCh37"	"22"	42846343	42846343	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000428765"	""	107	"74"	33	49	"49"	0	"CTA-126B4.7,downstream_gene_variant,,ENST00000428765,;"	"A"	"ENSG00000230107"	"ENST00000428765"	"Transcript"	"downstream_gene_variant"	"-/572"	""	""	""	""	""	"1"	"4142"	1	"CTA-126B4.7"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c331cf74-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308411214953271	"WGS"	FALSE
"11488"	"CELSR1"	9620	"mskcc.org"	"GRCh37"	"22"	46799841	46799841	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5227-4042C>T"	""	""	"ENST00000262738"	""	58	"51"	7	32	"32"	0	"CELSR1,intron_variant,,ENST00000262738,NM_014246.1;"	"A"	"ENSG00000075275"	"ENST00000262738"	"Transcript"	"intron_variant"	"-/11389"	"-/9045"	"-/3014"	""	""	""	"1"	NA	-1	"CELSR1"	"HGNC"	1850	"protein_coding"	"YES"	"CCDS14076.1"	"ENSP00000262738"	"Q9NYQ6"	"Q8NDT0"	"UPI0000040648"	"NM_014246.1"	""	""	""	"9/34"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"c3340078-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120689655172414	"WGS"	FALSE
"11489"	"GRAMD4"	23151	"mskcc.org"	"GRCh37"	"22"	47055747	47055747	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.405-1531A>G"	""	""	"ENST00000406902"	""	99	"71"	28	55	"54"	1	"GRAMD4,intron_variant,,ENST00000406902,;GRAMD4,intron_variant,,ENST00000361034,NM_015124.3;GRAMD4,upstream_gene_variant,,ENST00000456069,;"	"G"	"ENSG00000075240"	"ENST00000406902"	"Transcript"	"intron_variant"	"-/4484"	"-/1737"	"-/578"	""	""	""	"1"	NA	1	"GRAMD4"	"HGNC"	29113	"protein_coding"	"YES"	"CCDS33672.1"	"ENSP00000385689"	"Q6IC98"	""	"UPI0000161A59"	""	""	""	""	"4/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c334460a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282828282828283	"WGS"	FALSE
"11490"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	48338301	48338301	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"102"	7	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c335593c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0642201834862385	"WGS"	FALSE
"11491"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	48879497	48879497	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"72"	27	73	"73"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c335a04a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"11492"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	49772571	49772571	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"91"	28	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c3365dfa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"11493"	"PPP6R2"	9701	"mskcc.org"	"GRCh37"	"22"	50875219	50875219	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1605+338G>C"	""	""	"ENST00000395741"	""	99	"75"	24	51	"51"	0	"PPP6R2,intron_variant,,ENST00000359139,NM_014678.4,NM_001242900.1,NM_001242899.1,NM_001242898.1;PPP6R2,intron_variant,,ENST00000216061,;PPP6R2,intron_variant,,ENST00000395741,;PPP6R2,intron_variant,,ENST00000395744,;PPP6R2,intron_variant,,ENST00000401672,;PPP6R2,intron_variant,,ENST00000427222,;PPP6R2,upstream_gene_variant,,ENST00000473283,;"	"C"	"ENSG00000100239"	"ENST00000395741"	"Transcript"	"intron_variant"	"-/3304"	"-/2802"	"-/933"	""	""	""	"1"	NA	1	"PPP6R2"	"HGNC"	19253	"protein_coding"	"YES"	"CCDS56235.1"	"ENSP00000379090"	"O75170"	""	"UPI0000453B02"	""	""	""	""	"14/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c3376b78-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242424242424242	"WGS"	FALSE
"11494"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	173267	173267	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"57"	17	52	"52"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c337bea2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22972972972973	"WGS"	FALSE
"11495"	"CNTN4"	152330	"mskcc.org"	"GRCh37"	"3"	2602668	2602668	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-88-10432G>T"	""	""	"ENST00000397461"	""	69	"47"	22	56	"56"	0	"CNTN4,intron_variant,,ENST00000397461,NM_001206955.1;CNTN4,intron_variant,,ENST00000418658,NM_175607.2;CNTN4,intron_variant,,ENST00000422330,;CNTN4,intron_variant,,ENST00000455083,;CNTN4,intron_variant,,ENST00000434053,;CNTN4,intron_variant,,ENST00000427741,;CNTN4,intron_variant,,ENST00000430505,;CNTN4,intron_variant,,ENST00000438282,;"	"T"	"ENSG00000144619"	"ENST00000397461"	"Transcript"	"intron_variant"	"-/5198"	"-/3081"	"-/1026"	""	""	""	"1"	NA	1	"CNTN4"	"HGNC"	2174	"protein_coding"	"YES"	"CCDS43041.1"	"ENSP00000380602"	"Q8IWV2"	"G3XAD4,C9JMQ2,C9JGK9"	"UPI000007446C"	"NM_001206955.1"	""	""	""	"2/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"c3386bae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318840579710145	"WGS"	FALSE
"11496"	"ITPR1"	3708	"mskcc.org"	"GRCh37"	"3"	4624391	4624391	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.164-45056G>T"	""	""	"ENST00000302640"	""	79	"54"	25	70	"69"	1	"ITPR1,intron_variant,,ENST00000302640,NM_001168272.1;ITPR1,intron_variant,,ENST00000354582,;ITPR1,intron_variant,,ENST00000423119,NM_001099952.2;ITPR1,intron_variant,,ENST00000357086,;ITPR1,intron_variant,,ENST00000456211,NM_002222.5;ITPR1,intron_variant,,ENST00000443694,;ITPR1,intron_variant,,ENST00000544951,;ITPR1,intron_variant,,ENST00000467056,;"	"T"	"ENSG00000150995"	"ENST00000302640"	"Transcript"	"intron_variant"	"-/10197"	"-/8232"	"-/2743"	""	""	""	"1"	NA	1	"ITPR1"	"HGNC"	6180	"protein_coding"	"YES"	"CCDS54551.1"	"ENSP00000306253"	"Q14643"	""	"UPI0000E5A461"	"NM_001168272.1"	""	""	""	"4/60"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"c338c194-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316455696202532	"WGS"	FALSE
"11497"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	5083883	5083883	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"62"	32	59	"59"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c338db0c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340425531914894	"WGS"	FALSE
"11498"	"MRPS36P1"	0	"mskcc.org"	"GRCh37"	"3"	6818517	6818517	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000421291"	""	84	"63"	21	65	"65"	0	"GRM7,intron_variant,,ENST00000448328,;GRM7-AS3,intron_variant,,ENST00000424366,;GRM7-AS3,intron_variant,,ENST00000412629,;GRM7-AS3,intron_variant,,ENST00000417482,;GRM7-AS3,intron_variant,,ENST00000449158,;GRM7,intron_variant,,ENST00000443259,;MRPS36P1,upstream_gene_variant,,ENST00000421291,;"	"T"	"ENSG00000236152"	"ENST00000421291"	"Transcript"	"upstream_gene_variant"	"-/307"	""	""	""	""	""	"1"	"3487"	-1	"MRPS36P1"	"HGNC"	29771	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c3392b5c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"11499"	"LMCD1-AS1"	101927394	"mskcc.org"	"GRCh37"	"3"	8469033	8469033	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs539157066"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.571+67334G>A"	""	""	"ENST00000420095"	""	85	"67"	18	66	"66"	0	"LMCD1-AS1,intron_variant,,ENST00000420095,;LMCD1-AS1,intron_variant,,ENST00000452802,;LMCD1-AS1,intron_variant,,ENST00000446281,;"	"T"	"ENSG00000227110"	"ENST00000420095"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2144"	""	""	""	""	"rs539157066"	"1"	NA	-1	"LMCD1-AS1"	"HGNC"	44477	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	"T:0.0004"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0.001"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c3395f00-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211764705882353	"WGS"	FALSE
"11500"	"FANCD2"	2177	"mskcc.org"	"GRCh37"	"3"	10074262	10074262	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.65-254A>C"	""	""	"ENST00000287647"	""	86	"80"	6	62	"62"	0	"FANCD2,intron_variant,,ENST00000287647,NM_033084.3;FANCD2,intron_variant,,ENST00000419585,;FANCD2,intron_variant,,ENST00000383807,NM_001018115.1;FANCD2,intron_variant,,ENST00000383806,;FANCD2,intron_variant,,ENST00000431693,;RNU6-670P,upstream_gene_variant,,ENST00000364312,;FANCD2,upstream_gene_variant,,ENST00000438741,;FANCD2,intron_variant,,ENST00000435522,;"	"C"	"ENSG00000144554"	"ENST00000287647"	"Transcript"	"intron_variant"	"-/5219"	"-/4416"	"-/1471"	""	""	""	"1"	NA	1	"FANCD2"	"HGNC"	3585	"protein_coding"	"YES"	"CCDS2595.1"	"ENSP00000287647"	"Q9BXW9"	""	"UPI000006F678"	"NM_033084.3"	""	""	""	"2/42"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"c339fed8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	TRUE
"11501"	"TATDN2"	9797	"mskcc.org"	"GRCh37"	"3"	10313099	10313099	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1833+400A>G"	""	""	"ENST00000287652"	""	93	"86"	7	48	"48"	0	"TATDN2,intron_variant,,ENST00000287652,NM_014760.3;TATDN2,intron_variant,,ENST00000448281,;TATDN2,intron_variant,,ENST00000426850,;TATDN2,upstream_gene_variant,,ENST00000496355,;RP11-438J1.1,intron_variant,,ENST00000450534,;RP11-438J1.1,intron_variant,,ENST00000437082,;"	"G"	"ENSG00000157014"	"ENST00000287652"	"Transcript"	"intron_variant"	"-/5342"	"-/2286"	"-/761"	""	""	""	"1"	NA	1	"TATDN2"	"HGNC"	28988	"protein_coding"	"YES"	"CCDS33698.1"	"ENSP00000287652"	"Q93075"	"H7BZJ2"	"UPI000013DEC1"	"NM_014760.3"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c33a1bb6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"11502"	"ATP2B2"	491	"mskcc.org"	"GRCh37"	"3"	10722099	10722099	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs529411069"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-460+27501G>A"	""	""	"ENST00000397077"	""	84	"56"	28	68	"68"	0	"ATP2B2,intron_variant,,ENST00000397077,;"	"T"	"ENSG00000157087"	"ENST00000397077"	"Transcript"	"intron_variant"	"-/8964"	"-/3597"	"-/1198"	""	""	"rs529411069"	"1"	NA	-1	"ATP2B2"	"HGNC"	815	"protein_coding"	""	"CCDS2601.1"	"ENSP00000380267"	"Q01814"	"Q4LE63"	"UPI000002A445"	""	""	""	""	"1/21"	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c33a30e2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"11503"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	13279421	13279421	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"75"	27	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c33adc54-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264705882352941	"WGS"	FALSE
"11504"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	13340607	13340607	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"58"	35	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c33ae348-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.376344086021505	"WGS"	FALSE
"11505"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	15156851	15156851	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"87"	8	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c33b5ac6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0842105263157895	"WGS"	FALSE
"11506"	"AC144521.1"	101929587	"mskcc.org"	"GRCh37"	"3"	18768682	18768682	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.365-18764C>T"	""	""	"ENST00000595388"	""	92	"85"	7	53	"53"	0	"AC144521.1,intron_variant,,ENST00000595388,;AC144521.1,intron_variant,,ENST00000425799,;"	"T"	"ENSG00000228956"	"ENST00000595388"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/788"	""	""	""	""	""	"1"	NA	1	"AC144521.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c33c165a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"11507"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	19831765	19831765	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"59"	19	81	"81"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c33c40a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.243589743589744	"WGS"	FALSE
"11508"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	21070477	21070477	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"rs200910926"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	52	"47"	5	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200910926"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c33c8b26-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0961538461538462	"WGS"	FALSE
"11509"	"ZNF385D"	79750	"mskcc.org"	"GRCh37"	"3"	21523117	21523117	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.439+29236G>A"	""	""	"ENST00000281523"	""	90	"61"	29	55	"55"	0	"ZNF385D,intron_variant,,ENST00000281523,NM_024697.2;ZNF385D,intron_variant,,ENST00000494118,;ZNF385D,intron_variant,,ENST00000495739,;ZNF385D,intron_variant,,ENST00000446749,;"	"T"	"ENSG00000151789"	"ENST00000281523"	"Transcript"	"intron_variant"	"-/4498"	"-/1188"	"-/395"	""	""	""	"1"	NA	-1	"ZNF385D"	"HGNC"	26191	"protein_coding"	"YES"	"CCDS2636.1"	"ENSP00000281523"	"Q9H6B1"	""	"UPI00000724AC"	"NM_024697.2"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c33ca750-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322222222222222	"WGS"	FALSE
"11510"	"ZNF385D"	79750	"mskcc.org"	"GRCh37"	"3"	21933100	21933100	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.403-41889T>C"	""	""	"ENST00000494118"	""	85	"54"	31	58	"58"	0	"ZNF385D,intron_variant,,ENST00000494118,;ZNF385D,intron_variant,,ENST00000494108,;ZNF385D,intron_variant,,ENST00000474607,;"	"G"	"ENSG00000151789"	"ENST00000494118"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1050"	""	""	""	""	""	"1"	NA	-1	"ZNF385D"	"HGNC"	26191	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c33cb268-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364705882352941	"WGS"	FALSE
"11511"	"ZNF385D"	79750	"mskcc.org"	"GRCh37"	"3"	22274319	22274319	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.184-63792C>T"	""	""	"ENST00000494118"	""	97	"69"	28	44	"44"	0	"ZNF385D,intron_variant,,ENST00000494118,;ZNF385D,intron_variant,,ENST00000494108,;ZNF385D,intron_variant,,ENST00000466511,;"	"A"	"ENSG00000151789"	"ENST00000494118"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1050"	""	""	""	""	""	"1"	NA	-1	"ZNF385D"	"HGNC"	26191	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c33cbd3a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288659793814433	"WGS"	FALSE
"11512"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"3"	27584712	27584712	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000391229"	""	90	"73"	17	44	"44"	0	"Y_RNA,downstream_gene_variant,,ENST00000391229,;"	"A"	"ENSG00000238912"	"ENST00000391229"	"Transcript"	"downstream_gene_variant"	"-/102"	""	""	""	""	""	"1"	"4536"	-1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c33d8364-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188888888888889	"WGS"	FALSE
"11513"	"AC092415.1"	0	"mskcc.org"	"GRCh37"	"3"	28034495	28034495	"+"	"3'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000356047"	""	96	"57"	39	53	"53"	0	"AC092415.1,downstream_gene_variant,,ENST00000356047,;AC092415.1,downstream_gene_variant,,ENST00000437506,;"	"G"	"ENSG00000235493"	"ENST00000356047"	"Transcript"	"downstream_gene_variant"	"-/755"	""	""	""	""	""	"1"	"4206"	-1	"AC092415.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c33d9d40-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.40625	"WGS"	FALSE
"11514"	"OSBPL10"	114884	"mskcc.org"	"GRCh37"	"3"	31861984	31861984	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.729+9548C>G"	""	""	"ENST00000396556"	""	99	"71"	28	49	"49"	0	"OSBPL10,intron_variant,,ENST00000429492,;OSBPL10,intron_variant,,ENST00000396556,NM_017784.4;OSBPL10,intron_variant,,ENST00000438237,NM_001174060.1;OSBPL10,intron_variant,,ENST00000428241,;OSBPL10,intron_variant,,ENST00000467647,;OSBPL10,intron_variant,,ENST00000467955,;OSBPL10,intron_variant,,ENST00000485205,;OSBPL10,intron_variant,,ENST00000480671,;OSBPL10,downstream_gene_variant,,ENST00000466604,;"	"C"	"ENSG00000144645"	"ENST00000396556"	"Transcript"	"intron_variant"	"-/6600"	"-/2295"	"-/764"	""	""	""	"1"	NA	-1	"OSBPL10"	"HGNC"	16395	"protein_coding"	"YES"	"CCDS2651.1"	"ENSP00000379804"	"Q9BXB5"	""	"UPI0000130E9B"	"NM_017784.4"	""	""	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c33e2422-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282828282828283	"WGS"	FALSE
"11515"	"CMTM6"	54918	"mskcc.org"	"GRCh37"	"3"	32538642	32538642	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs373697434"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.139-5264C>T"	""	""	"ENST00000205636"	""	95	"85"	10	60	"60"	0	"CMTM6,intron_variant,,ENST00000205636,NM_017801.2;CMTM6,intron_variant,,ENST00000495177,;"	"A"	"ENSG00000091317"	"ENST00000205636"	"Transcript"	"intron_variant"	"-/3863"	"-/552"	"-/183"	""	""	"rs373697434"	"1"	NA	-1	"CMTM6"	"HGNC"	19177	"protein_coding"	"YES"	"CCDS2653.1"	"ENSP00000205636"	"Q9NX76"	""	"UPI000004A0E5"	"NM_017801.2"	""	""	""	"1/3"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.001"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c33e4722-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"11516"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	33988388	33988388	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"96"	7	71	"71"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c33ec792-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0679611650485437	"WGS"	FALSE
"11517"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	34643467	34643467	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"58"	24	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c33ede76-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292682926829268	"WGS"	FALSE
"11518"	"ITGA9"	3680	"mskcc.org"	"GRCh37"	"3"	37616419	37616419	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1689+32343G>T"	""	""	"ENST00000264741"	""	103	"75"	28	63	"63"	0	"ITGA9,intron_variant,,ENST00000264741,NM_002207.2;ITGA9,intron_variant,,ENST00000422441,;RNU7-73P,upstream_gene_variant,,ENST00000458743,;"	"T"	"ENSG00000144668"	"ENST00000264741"	"Transcript"	"intron_variant"	"-/7889"	"-/3108"	"-/1035"	""	""	""	"1"	NA	1	"ITGA9"	"HGNC"	6145	"protein_coding"	"YES"	"CCDS2669.1"	"ENSP00000264741"	"Q13797"	""	"UPI00001AE8BB"	"NM_002207.2"	""	""	""	"15/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"c33f54a0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271844660194175	"WGS"	FALSE
"11519"	"ITGA9"	3680	"mskcc.org"	"GRCh37"	"3"	37858610	37858610	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3010-1772T>A"	""	""	"ENST00000264741"	""	111	"83"	28	57	"57"	0	"ITGA9,intron_variant,,ENST00000264741,NM_002207.2;ITGA9,intron_variant,,ENST00000411817,;AC093415.2,intron_variant,,ENST00000608505,;AC093415.2,intron_variant,,ENST00000420870,;AC093415.2,intron_variant,,ENST00000438136,;AC093415.2,intron_variant,,ENST00000450990,;AC093415.2,intron_variant,,ENST00000445429,;AC093415.2,intron_variant,,ENST00000457661,;AC093415.2,intron_variant,,ENST00000429532,;AC093415.2,downstream_gene_variant,,ENST00000366441,;AC093415.2,downstream_gene_variant,,ENST00000594579,;AC093415.2,downstream_gene_variant,,ENST00000430620,;AC093415.2,intron_variant,,ENST00000439246,;"	"A"	"ENSG00000144668"	"ENST00000264741"	"Transcript"	"intron_variant"	"-/7889"	"-/3108"	"-/1035"	""	""	""	"1"	NA	1	"ITGA9"	"HGNC"	6145	"protein_coding"	"YES"	"CCDS2669.1"	"ENSP00000264741"	"Q13797"	""	"UPI00001AE8BB"	"NM_002207.2"	""	""	""	"27/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"c33f6166-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252252252252252	"WGS"	FALSE
"11520"	"SMARCC1"	6599	"mskcc.org"	"GRCh37"	"3"	47771834	47771834	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.577-1250C>T"	""	""	"ENST00000254480"	""	82	"63"	19	46	"46"	0	"SMARCC1,intron_variant,,ENST00000254480,NM_003074.3;SMARCC1,intron_variant,,ENST00000425518,;SMARCC1,intron_variant,,ENST00000485833,;SMARCC1,intron_variant,,ENST00000454240,;"	"A"	"ENSG00000173473"	"ENST00000254480"	"Transcript"	"intron_variant"	"-/6375"	"-/3318"	"-/1105"	""	""	""	"1"	NA	-1	"SMARCC1"	"HGNC"	11104	"protein_coding"	"YES"	"CCDS2758.1"	"ENSP00000254480"	"Q92922"	"F8WE13"	"UPI000013CE3B"	"NM_003074.3"	""	""	""	"5/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c3417230-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231707317073171	"WGS"	FALSE
"11521"	"SHISA5"	51246	"mskcc.org"	"GRCh37"	"3"	48523147	48523147	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.234-2481A>T"	""	""	"ENST00000296444"	""	70	"63"	7	34	"34"	0	"SHISA5,intron_variant,,ENST00000296444,NM_001272065.1,NM_016479.4;SHISA5,intron_variant,,ENST00000442747,NM_001272067.1;SHISA5,intron_variant,,ENST00000444115,NM_001272066.1;SHISA5,intron_variant,,ENST00000443308,;SHISA5,intron_variant,,ENST00000417841,;SHISA5,upstream_gene_variant,,ENST00000486344,;SHISA5,intron_variant,,ENST00000417962,NM_001272068.1;SHISA5,intron_variant,,ENST00000424965,;SHISA5,intron_variant,,ENST00000415268,;"	"A"	"ENSG00000164054"	"ENST00000296444"	"Transcript"	"intron_variant"	"-/2369"	"-/723"	"-/240"	""	""	""	"1"	NA	-1	"SHISA5"	"HGNC"	30376	"protein_coding"	"YES"	"CCDS2770.1"	"ENSP00000296444"	"Q8N114"	"C9IZ46,B7Z6Z2"	"UPI000003B0C1"	"NM_001272065.1,NM_016479.4"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c341ba1a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"11522"	"USP19"	10869	"mskcc.org"	"GRCh37"	"3"	49150531	49150531	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2500-469G>T"	""	""	"ENST00000434032"	""	78	"59"	19	47	"47"	0	"USP19,intron_variant,,ENST00000453664,NM_001199161.1,NM_001199162.1;USP19,intron_variant,,ENST00000417901,;USP19,intron_variant,,ENST00000434032,NM_001199160.1;USP19,intron_variant,,ENST00000398892,;USP19,intron_variant,,ENST00000398888,NM_006677.2;USP19,intron_variant,,ENST00000398898,;USP19,intron_variant,,ENST00000398896,;USP19,downstream_gene_variant,,ENST00000306026,;USP19,downstream_gene_variant,,ENST00000479073,;USP19,downstream_gene_variant,,ENST00000488993,;USP19,downstream_gene_variant,,ENST00000491859,;USP19,downstream_gene_variant,,ENST00000465902,;USP19,downstream_gene_variant,,ENST00000464931,;USP19,upstream_gene_variant,,ENST00000483667,;USP19,downstream_gene_variant,,ENST00000480163,;"	"A"	"ENSG00000172046"	"ENST00000434032"	"Transcript"	"intron_variant"	"-/4677"	"-/4260"	"-/1419"	""	""	""	"1"	NA	-1	"USP19"	"HGNC"	12617	"protein_coding"	"YES"	"CCDS56254.1"	"ENSP00000401197"	"O94966"	""	"UPI000198CAB3"	"NM_001199160.1"	""	""	""	"17/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c3420b82-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.243589743589744	"WGS"	FALSE
"11523"	"DOCK3"	1795	"mskcc.org"	"GRCh37"	"3"	51333207	51333207	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs566685106"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2923-14456C>T"	""	""	"ENST00000266037"	""	80	"56"	24	60	"60"	0	"DOCK3,intron_variant,,ENST00000266037,NM_004947.4;"	"T"	"ENSG00000088538"	"ENST00000266037"	"Transcript"	"intron_variant"	"-/8755"	"-/6093"	"-/2030"	""	""	"rs566685106"	"1"	NA	1	"DOCK3"	"HGNC"	2989	"protein_coding"	"YES"	"CCDS46835.1"	"ENSP00000266037"	"Q8IZD9"	""	"UPI000007412C"	"NM_004947.4"	""	""	""	"27/52"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c34326f2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"11524"	"CACNA2D3"	55799	"mskcc.org"	"GRCh37"	"3"	54392837	54392837	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.322-27905C>G"	""	""	"ENST00000474759"	""	98	"73"	25	61	"60"	1	"CACNA2D3,intron_variant,,ENST00000474759,NM_018398.2;CACNA2D3,intron_variant,,ENST00000288197,;CACNA2D3,intron_variant,,ENST00000415676,;CACNA2D3,intron_variant,,ENST00000490478,;CACNA2D3,intron_variant,,ENST00000492460,;CACNA2D3,intron_variant,,ENST00000471363,;CACNA2D3,intron_variant,,ENST00000477024,;CACNA2D3,intron_variant,,ENST00000468658,;"	"G"	"ENSG00000157445"	"ENST00000474759"	"Transcript"	"intron_variant"	"-/3675"	"-/3276"	"-/1091"	""	""	""	"1"	NA	1	"CACNA2D3"	"HGNC"	15460	"protein_coding"	"YES"	"CCDS54598.1"	"ENSP00000419101"	"Q8IZS8"	"C9JAV5"	"UPI000004A7BF"	"NM_018398.2"	""	""	""	"3/37"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c343ff32-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255102040816327	"WGS"	FALSE
"11525"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	57599084	57599084	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"50"	20	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c344baa8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"11526"	"ENSR00001479697"	0	"mskcc.org"	"GRCh37"	"3"	59549686	59549686	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001479697"	""	100	"69"	31	63	"63"	0	""	"T"	""	"ENSR00001479697"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c3451df4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.31	"WGS"	FALSE
"11527"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	61420485	61420485	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	46	"41"	5	24	"24"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c3455f8a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108695652173913	"WGS"	FALSE
"11528"	"PTPRG"	5793	"mskcc.org"	"GRCh37"	"3"	61657486	61657486	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.86-77066A>G"	""	""	"ENST00000474889"	""	43	"38"	5	21	"21"	0	"PTPRG,intron_variant,,ENST00000474889,NM_002841.3;PTPRG,intron_variant,,ENST00000295874,;PTPRG,intron_variant,,ENST00000495879,;PTPRG,intron_variant,,ENST00000475527,;"	"G"	"ENSG00000144724"	"ENST00000474889"	"Transcript"	"intron_variant"	"-/9021"	"-/4338"	"-/1445"	""	""	""	"1"	NA	1	"PTPRG"	"HGNC"	9671	"protein_coding"	"YES"	"CCDS2895.1"	"ENSP00000418112"	"P23470"	"O60420"	"UPI00001AEBFB"	"NM_002841.3"	""	""	""	"1/29"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c34568a4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116279069767442	"WGS"	FALSE
"11529"	"PTPRG"	5793	"mskcc.org"	"GRCh37"	"3"	61661526	61661526	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.86-73026A>C"	""	""	"ENST00000474889"	""	81	"74"	7	54	"54"	0	"PTPRG,intron_variant,,ENST00000474889,NM_002841.3;PTPRG,intron_variant,,ENST00000295874,;PTPRG,intron_variant,,ENST00000495879,;PTPRG,intron_variant,,ENST00000475527,;"	"C"	"ENSG00000144724"	"ENST00000474889"	"Transcript"	"intron_variant"	"-/9021"	"-/4338"	"-/1445"	""	""	""	"1"	NA	1	"PTPRG"	"HGNC"	9671	"protein_coding"	"YES"	"CCDS2895.1"	"ENSP00000418112"	"P23470"	"O60420"	"UPI00001AEBFB"	"NM_002841.3"	""	""	""	"1/29"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c3456a66-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"11530"	"PTPRG-AS1"	100506994	"mskcc.org"	"GRCh37"	"3"	62297119	62297119	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.262+5662C>G"	""	""	"ENST00000474795"	""	103	"77"	26	77	"77"	0	"PTPRG-AS1,intron_variant,,ENST00000474795,;PTPRG-AS1,intron_variant,,ENST00000462497,;PTPRG-AS1,intron_variant,,ENST00000466893,;PTPRG-AS1,intron_variant,,ENST00000475371,;PTPRG-AS1,intron_variant,,ENST00000479018,;PTPRG-AS1,intron_variant,,ENST00000498655,;PTPRG-AS1,intron_variant,,ENST00000490916,;PTPRG-AS1,intron_variant,,ENST00000495542,;PTPRG-AS1,intron_variant,,ENST00000479588,;"	"C"	"ENSG00000241472"	"ENST00000474795"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2661"	""	""	""	""	""	"1"	NA	-1	"PTPRG-AS1"	"HGNC"	44638	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c3458172-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252427184466019	"WGS"	FALSE
"11531"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	66702045	66702045	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"63"	22	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c3464df0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258823529411765	"WGS"	FALSE
"11532"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	70159868	70159868	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"61"	21	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"c346c262-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25609756097561	"WGS"	FALSE
"11533"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	70568494	70568494	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"69"	23	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c346d19e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"11534"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	71902397	71902397	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"59"	28	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c3471096-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32183908045977	"WGS"	FALSE
"11535"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	74195909	74195909	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"45"	26	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c3477680-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.366197183098592	"WGS"	FALSE
"11536"	"ROBO2"	6092	"mskcc.org"	"GRCh37"	"3"	76803287	76803287	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.110-343878A>G"	""	""	"ENST00000487694"	""	81	"53"	28	75	"75"	0	"ROBO2,intron_variant,,ENST00000487694,NM_001128929.2;ROBO2,intron_variant,,ENST00000602589,;ROBO2,intron_variant,,ENST00000475034,;"	"G"	"ENSG00000185008"	"ENST00000487694"	"Transcript"	"intron_variant"	"-/5919"	"-/4185"	"-/1394"	""	""	""	"1"	NA	1	"ROBO2"	"HGNC"	10250	"protein_coding"	"YES"	"CCDS54609.1"	"ENSP00000417335"	"Q9HCK4"	"H9XFA4"	"UPI0000D891EC"	"NM_001128929.2"	""	""	""	"2/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"c3481ce8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.345679012345679	"WGS"	FALSE
"11537"	"ROBO2"	6092	"mskcc.org"	"GRCh37"	"3"	77118009	77118009	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs371084305"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.110-29156C>T"	""	""	"ENST00000487694"	""	79	"58"	21	47	"47"	0	"ROBO2,intron_variant,,ENST00000461745,NM_002942.4;ROBO2,intron_variant,,ENST00000487694,NM_001128929.2;ROBO2,intron_variant,,ENST00000332191,;ROBO2,intron_variant,,ENST00000602589,;ROBO2,intron_variant,,ENST00000475034,;ROBO2,intron_variant,,ENST00000473767,;"	"T"	"ENSG00000185008"	"ENST00000487694"	"Transcript"	"intron_variant"	"-/5919"	"-/4185"	"-/1394"	""	""	"rs371084305"	"1"	NA	1	"ROBO2"	"HGNC"	10250	"protein_coding"	"YES"	"CCDS54609.1"	"ENSP00000417335"	"Q9HCK4"	"H9XFA4"	"UPI0000D891EC"	"NM_001128929.2"	""	""	""	"2/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"c3482a8a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265822784810127	"WGS"	FALSE
"11538"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	77886949	77886949	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"102"	8	54	"54"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c3485f8c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0727272727272727	"WGS"	FALSE
"11539"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	78223236	78223236	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"71"	34	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c3486dec-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323809523809524	"WGS"	FALSE
"11540"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	82633783	82633783	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"79"	7	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c34913fa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0813953488372093	"WGS"	FALSE
"11541"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	83472003	83472003	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"54"	18	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"c3492db8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"11542"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	84630258	84630258	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"104"	7	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c349569e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0630630630630631	"WGS"	FALSE
"11543"	"CADM2"	253559	"mskcc.org"	"GRCh37"	"3"	85873205	85873205	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.217+21859C>T"	""	""	"ENST00000405615"	""	72	"60"	12	73	"73"	0	"CADM2,intron_variant,,ENST00000383699,NM_001167675.1,NM_001256504.1,NM_001256505.1;CADM2,intron_variant,,ENST00000407528,NM_001167674.1;CADM2,intron_variant,,ENST00000405615,NM_153184.3;CADM2-AS2,intron_variant,,ENST00000467225,;"	"T"	"ENSG00000175161"	"ENST00000405615"	"Transcript"	"intron_variant"	"-/1314"	"-/1314"	"-/437"	""	""	""	"1"	NA	1	"CADM2"	"HGNC"	29849	"protein_coding"	"YES"	"CCDS33792.1"	"ENSP00000384193"	"Q8N3J6"	"G3XHN8"	"UPI000013F077"	"NM_153184.3"	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c349928a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"11544"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	87198382	87198382	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs547919601"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"77"	19	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs547919601"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c349c6e2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197916666666667	"WGS"	FALSE
"11545"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	87528430	87528430	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"57"	23	71	"70"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c349d0c4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2875	"WGS"	FALSE
"11546"	"EPHA3"	2042	"mskcc.org"	"GRCh37"	"3"	89190418	89190418	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.153+13995T>A"	""	""	"ENST00000336596"	""	87	"58"	29	61	"61"	0	"EPHA3,intron_variant,,ENST00000336596,NM_005233.5;EPHA3,intron_variant,,ENST00000494014,;EPHA3,intron_variant,,ENST00000452448,NM_182644.2;"	"A"	"ENSG00000044524"	"ENST00000336596"	"Transcript"	"intron_variant"	"-/5809"	"-/2952"	"-/983"	""	""	""	"1"	NA	1	"EPHA3"	"HGNC"	3387	"protein_coding"	"YES"	"CCDS2922.1"	"ENSP00000337451"	"P29320"	""	"UPI0000163BE4"	"NM_005233.5"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"c34a29ca-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"11547"	"EPHA3"	2042	"mskcc.org"	"GRCh37"	"3"	89413623	89413623	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1306+22383T>A"	""	""	"ENST00000336596"	""	76	"51"	25	52	"52"	0	"EPHA3,intron_variant,,ENST00000336596,NM_005233.5;EPHA3,intron_variant,,ENST00000494014,;EPHA3,intron_variant,,ENST00000452448,NM_182644.2;"	"A"	"ENSG00000044524"	"ENST00000336596"	"Transcript"	"intron_variant"	"-/5809"	"-/2952"	"-/983"	""	""	""	"1"	NA	1	"EPHA3"	"HGNC"	3387	"protein_coding"	"YES"	"CCDS2922.1"	"ENSP00000337451"	"P29320"	""	"UPI0000163BE4"	"NM_005233.5"	""	""	""	"5/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"c34a2efc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.328947368421053	"WGS"	FALSE
"11548"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	89992369	89992369	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"72"	33	63	"63"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c34a470c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314285714285714	"WGS"	FALSE
"11549"	"ARL13B"	200894	"mskcc.org"	"GRCh37"	"3"	93759439	93759439	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.798+607T>C"	""	""	"ENST00000394222"	""	108	"66"	42	56	"56"	0	"ARL13B,intron_variant,,ENST00000535334,NM_001174151.1;ARL13B,intron_variant,,ENST00000303097,NM_144996.3;ARL13B,intron_variant,,ENST00000394222,NM_001174150.1;ARL13B,intron_variant,,ENST00000471138,NM_182896.2;ARL13B,intron_variant,,ENST00000539730,;ARL13B,downstream_gene_variant,,ENST00000486562,;ARL13B,intron_variant,,ENST00000335438,;ARL13B,intron_variant,,ENST00000460371,;"	"C"	"ENSG00000169379"	"ENST00000394222"	"Transcript"	"intron_variant"	"-/2453"	"-/1287"	"-/428"	""	""	""	"1"	NA	1	"ARL13B"	"HGNC"	25419	"protein_coding"	"YES"	"CCDS2925.1"	"ENSP00000377769"	"Q3SXY8"	"B4DRI8"	"UPI00001B94DF"	"NM_001174150.1"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"c34ab26e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388888888888889	"WGS"	FALSE
"11550"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	94063929	94063929	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"74"	22	61	"60"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c34ac0c4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229166666666667	"WGS"	FALSE
"11551"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	95110002	95110002	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"97"	6	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c34ad85c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.058252427184466	"WGS"	FALSE
"11552"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	95516123	95516123	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"57"	17	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c34ae5ae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22972972972973	"WGS"	FALSE
"11553"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	96480093	96480093	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"94"	6	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c34b0a16-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.06	"WGS"	FALSE
"11554"	"FILIP1L"	11259	"mskcc.org"	"GRCh37"	"3"	99815721	99815721	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs781478913"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-11+17176G>A"	""	""	"ENST00000354552"	""	101	"73"	28	69	"69"	0	"FILIP1L,intron_variant,,ENST00000331335,NM_001042459.1;FILIP1L,intron_variant,,ENST00000354552,NM_182909.2;FILIP1L,intron_variant,,ENST00000398326,;CMSS1,intron_variant,,ENST00000421999,NM_032359.3;CMSS1,intron_variant,,ENST00000463526,;FILIP1L,intron_variant,,ENST00000468533,;CMSS1,intron_variant,,ENST00000491299,;"	"T"	"ENSG00000168386"	"ENST00000354552"	"Transcript"	"intron_variant"	"-/3970"	"-/3408"	"-/1135"	""	""	"rs781478913"	"1"	NA	-1	"FILIP1L"	"HGNC"	24589	"protein_coding"	"YES"	"CCDS43117.1"	"ENSP00000346560"	"Q4L180"	"C9JYJ6"	"UPI00001B24B2"	"NM_182909.2"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c34b717c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277227722772277	"WGS"	FALSE
"11555"	"ABI3BP"	25890	"mskcc.org"	"GRCh37"	"3"	100493302	100493302	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2398+147C>T"	""	""	"ENST00000284322"	""	98	"67"	31	63	"63"	0	"ABI3BP,intron_variant,,ENST00000471714,;ABI3BP,intron_variant,,ENST00000284322,NM_015429.3;ABI3BP,intron_variant,,ENST00000383691,;ABI3BP,intron_variant,,ENST00000495591,;ABI3BP,intron_variant,,ENST00000486770,;ABI3BP,downstream_gene_variant,,ENST00000497395,;ABI3BP,downstream_gene_variant,,ENST00000469764,;ABI3BP,intron_variant,,ENST00000470336,;ABI3BP,intron_variant,,ENST00000487012,;"	"A"	"ENSG00000154175"	"ENST00000284322"	"Transcript"	"intron_variant"	"-/4498"	"-/3228"	"-/1075"	""	""	""	"1"	NA	-1	"ABI3BP"	"HGNC"	17265	"protein_coding"	"YES"	"CCDS46880.1"	"ENSP00000284322"	"Q7Z7G0"	""	"UPI000011C136"	"NM_015429.3"	""	""	""	"28/34"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c34b8e28-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316326530612245	"WGS"	FALSE
"11556"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	103310938	103310938	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"69"	24	79	"79"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c34c2c16-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258064516129032	"WGS"	FALSE
"11557"	"ALCAM"	214	"mskcc.org"	"GRCh37"	"3"	105134020	105134020	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.73+47695C>A"	""	""	"ENST00000306107"	""	84	"58"	26	47	"47"	0	"ALCAM,intron_variant,,ENST00000306107,NM_001627.3;ALCAM,intron_variant,,ENST00000472644,NM_001243280.1;ALCAM,intron_variant,,ENST00000470756,;"	"A"	"ENSG00000170017"	"ENST00000306107"	"Transcript"	"intron_variant"	"-/4701"	"-/1752"	"-/583"	""	""	""	"1"	NA	1	"ALCAM"	"HGNC"	400	"protein_coding"	"YES"	"CCDS33810.1"	"ENSP00000305988"	"Q13740"	"F5GXJ9"	"UPI0000209ECA"	"NM_001627.3"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c34c72ac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30952380952381	"WGS"	FALSE
"11558"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	105745278	105745278	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"58"	20	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"c34c921e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256410256410256	"WGS"	FALSE
"11559"	"LINC00636"	285205	"mskcc.org"	"GRCh37"	"3"	107648556	107648556	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000494231"	""	90	"66"	24	58	"58"	0	"LINC00636,downstream_gene_variant,,ENST00000494231,;"	"C"	"ENSG00000240423"	"ENST00000494231"	"Transcript"	"downstream_gene_variant"	"-/1264"	""	""	""	""	""	"1"	"802"	1	"LINC00636"	"HGNC"	27702	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"c34cdf12-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"11560"	"HHLA2"	11148	"mskcc.org"	"GRCh37"	"3"	108040078	108040078	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-104-7039C>T"	""	""	"ENST00000357759"	""	76	"58"	18	58	"58"	0	"HHLA2,intron_variant,,ENST00000357759,NM_007072.2;HHLA2,intron_variant,,ENST00000489514,NM_001282557.1;HHLA2,intron_variant,,ENST00000467761,NM_001282556.1;HHLA2,intron_variant,,ENST00000467562,NM_001282559.1;HHLA2,intron_variant,,ENST00000491820,NM_001282558.1;HHLA2,intron_variant,,ENST00000463019,;HHLA2,intron_variant,,ENST00000462629,;HHLA2,intron_variant,,ENST00000482430,;HHLA2,intron_variant,,ENST00000467282,;AC078855.1,downstream_gene_variant,,ENST00000408797,;HNRNPA1P17,downstream_gene_variant,,ENST00000496620,;"	"T"	"ENSG00000114455"	"ENST00000357759"	"Transcript"	"intron_variant"	"-/2666"	"-/1245"	"-/414"	""	""	""	"1"	NA	1	"HHLA2"	"HGNC"	4905	"protein_coding"	"YES"	"CCDS46883.1"	"ENSP00000350402"	"Q9UM44"	"C9JY43,C9JY13,C9JD07,C9J8J7"	"UPI0000073CD9"	"NM_007072.2"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c34ceb92-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236842105263158	"WGS"	FALSE
"11561"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	108507944	108507944	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"63"	22	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c34cfc18-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258823529411765	"WGS"	FALSE
"11562"	"MORC1"	27136	"mskcc.org"	"GRCh37"	"3"	108797399	108797399	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.690-8795G>A"	""	""	"ENST00000232603"	""	87	"61"	26	67	"67"	0	"MORC1,intron_variant,,ENST00000232603,NM_014429.3;MORC1,intron_variant,,ENST00000483760,;"	"T"	"ENSG00000114487"	"ENST00000232603"	"Transcript"	"intron_variant"	"-/3764"	"-/2955"	"-/984"	""	""	""	"1"	NA	-1	"MORC1"	"HGNC"	7198	"protein_coding"	"YES"	"CCDS2955.1"	"ENSP00000232603"	"Q86VD1"	""	"UPI000013C964"	"NM_014429.3"	""	""	""	"8/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c34d0c58-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298850574712644	"WGS"	FALSE
"11563"	"ENSR00001370516"	0	"mskcc.org"	"GRCh37"	"3"	110139914	110139914	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001370516"	""	100	"93"	7	63	"63"	0	""	"C"	""	"ENSR00001370516"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c34d5c62-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.07	"WGS"	FALSE
"11564"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	110573034	110573034	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"51"	26	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c34d768e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337662337662338	"WGS"	FALSE
"11565"	"PVRL3-AS1"	100506555	"mskcc.org"	"GRCh37"	"3"	110750506	110750506	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.502+37605G>C"	""	""	"ENST00000476301"	""	92	"86"	6	66	"66"	0	"PVRL3-AS1,intron_variant,,ENST00000476301,;PVRL3-AS1,intron_variant,,ENST00000474769,;"	"G"	"ENSG00000242242"	"ENST00000476301"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/568"	""	""	""	""	""	"1"	NA	-1	"PVRL3-AS1"	"HGNC"	40813	"antisense"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c34d82aa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"11566"	"KIAA1407"	57577	"mskcc.org"	"GRCh37"	"3"	113706683	113706683	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2164-7043T>C"	""	""	"ENST00000295878"	""	89	"81"	8	58	"58"	0	"KIAA1407,intron_variant,,ENST00000295878,NM_020817.1;KIAA1407,intron_variant,,ENST00000545063,;KIAA1407,intron_variant,,ENST00000460813,;KIAA1407,intron_variant,,ENST00000527855,;RP11-255E6.5,downstream_gene_variant,,ENST00000605304,;"	"G"	"ENSG00000163617"	"ENST00000295878"	"Transcript"	"intron_variant"	"-/3976"	"-/2811"	"-/936"	""	""	""	"1"	NA	-1	"KIAA1407"	"HGNC"	29272	"protein_coding"	"YES"	"CCDS2977.1"	"ENSP00000295878"	"Q8NCU4"	""	"UPI00000732E9"	"NM_020817.1"	""	""	""	"13/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c34e27c8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"11567"	"ZBTB20"	26137	"mskcc.org"	"GRCh37"	"3"	114488719	114488719	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-505-26093G>T"	""	""	"ENST00000462705"	""	77	"71"	6	38	"38"	0	"ZBTB20,intron_variant,,ENST00000462705,NM_001164343.1;ZBTB20,intron_variant,,ENST00000357258,NM_015642.4;ZBTB20,intron_variant,,ENST00000488663,;ZBTB20,intron_variant,,ENST00000463890,;ZBTB20,intron_variant,,ENST00000480832,;ZBTB20,intron_variant,,ENST00000479879,;ZBTB20,intron_variant,,ENST00000491500,;ZBTB20,intron_variant,,ENST00000492665,;"	"A"	"ENSG00000181722"	"ENST00000462705"	"Transcript"	"intron_variant"	"-/3740"	"-/2007"	"-/668"	""	""	""	"1"	NA	-1	"ZBTB20"	"HGNC"	13503	"protein_coding"	""	"CCDS2981.1"	"ENSP00000420324"	"Q9HC78"	"C9JCX0"	"UPI000007179D"	"NM_001164343.1"	""	""	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"c34e488e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"11568"	"RP11-384F7.2"	0	"mskcc.org"	"GRCh37"	"3"	117601580	117601580	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.411+114449A>G"	""	""	"ENST00000484092"	""	93	"64"	29	46	"45"	1	"LSAMP,intron_variant,,ENST00000539563,;RP11-384F7.2,intron_variant,,ENST00000484092,;"	"C"	"ENSG00000239268"	"ENST00000484092"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/554"	""	""	""	""	""	"1"	NA	-1	"RP11-384F7.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c34eb7ba-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311827956989247	"WGS"	FALSE
"11569"	"IGSF11"	152404	"mskcc.org"	"GRCh37"	"3"	118669120	118669120	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs188770604"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.53-19998C>T"	""	""	"ENST00000393775"	""	95	"68"	27	61	"61"	0	"IGSF11,intron_variant,,ENST00000354673,NM_152538.2;IGSF11,intron_variant,,ENST00000425327,;IGSF11,intron_variant,,ENST00000393775,NM_001015887.1;IGSF11,intron_variant,,ENST00000489689,;IGSF11,intron_variant,,ENST00000441144,;IGSF11,intron_variant,,ENST00000491903,;IGSF11,intron_variant,,ENST00000483401,;IGSF11,intron_variant,,ENST00000480431,;IGSF11-AS1,downstream_gene_variant,,ENST00000477009,;IGSF11,intron_variant,,ENST00000494802,;"	"A"	"ENSG00000144847"	"ENST00000393775"	"Transcript"	"intron_variant"	"-/3495"	"-/1296"	"-/431"	""	""	"rs188770604"	"1"	NA	-1	"IGSF11"	"HGNC"	16669	"protein_coding"	"YES"	"CCDS46891.1"	"ENSP00000377370"	"Q5DX21"	"C9JAD3,C9IZX3"	"UPI000013D9B3"	"NM_001015887.1"	""	""	""	"1/6"	""	"A:0.0004"	"A:0.0015"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c34edb3c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284210526315789	"WGS"	FALSE
"11570"	"RP11-359H3.4"	0	"mskcc.org"	"GRCh37"	"3"	120199153	120199153	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000478134"	""	103	"95"	8	57	"57"	0	"RP11-359H3.4,downstream_gene_variant,,ENST00000478134,;"	"G"	"ENSG00000240774"	"ENST00000478134"	"Transcript"	"downstream_gene_variant"	"-/357"	""	""	""	""	""	"1"	"3865"	-1	"RP11-359H3.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c34f2f7e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0776699029126214	"WGS"	FALSE
"11571"	"STXBP5L"	9515	"mskcc.org"	"GRCh37"	"3"	120818969	120818969	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.471-14803A>G"	""	""	"ENST00000273666"	""	94	"88"	6	69	"69"	0	"STXBP5L,intron_variant,,ENST00000273666,NM_014980.2;STXBP5L,intron_variant,,ENST00000471454,;STXBP5L,intron_variant,,ENST00000471262,;STXBP5L,intron_variant,,ENST00000492541,;STXBP5L,intron_variant,,ENST00000472879,;STXBP5L,intron_variant,,ENST00000497029,;STXBP5L,intron_variant,,ENST00000461772,;RP11-678L1.1,downstream_gene_variant,,ENST00000469870,;"	"G"	"ENSG00000145087"	"ENST00000273666"	"Transcript"	"intron_variant"	"-/9496"	"-/3561"	"-/1186"	""	""	""	"1"	NA	1	"STXBP5L"	"HGNC"	30757	"protein_coding"	"YES"	"CCDS43137.1"	"ENSP00000273666"	"Q9Y2K9"	"C9JUZ7"	"UPI00001C1DEA"	"NM_014980.2"	""	""	""	"5/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c34f4612-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"11572"	"STXBP5L"	9515	"mskcc.org"	"GRCh37"	"3"	121089308	121089308	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2249-8255C>A"	""	""	"ENST00000273666"	""	103	"75"	28	57	"57"	0	"STXBP5L,intron_variant,,ENST00000273666,NM_014980.2;STXBP5L,intron_variant,,ENST00000471454,;STXBP5L,intron_variant,,ENST00000471262,;STXBP5L,intron_variant,,ENST00000492541,;STXBP5L,intron_variant,,ENST00000472879,;STXBP5L,intron_variant,,ENST00000497029,;"	"A"	"ENSG00000145087"	"ENST00000273666"	"Transcript"	"intron_variant"	"-/9496"	"-/3561"	"-/1186"	""	""	""	"1"	NA	1	"STXBP5L"	"HGNC"	30757	"protein_coding"	"YES"	"CCDS43137.1"	"ENSP00000273666"	"Q9Y2K9"	"C9JUZ7"	"UPI00001C1DEA"	"NM_014980.2"	""	""	""	"21/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c34f53f0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271844660194175	"WGS"	FALSE
"11573"	"HSPBAP1"	79663	"mskcc.org"	"GRCh37"	"3"	122499210	122499210	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.65-2457G>T"	""	""	"ENST00000306103"	""	22	"19"	3	15	"15"	0	"HSPBAP1,intron_variant,,ENST00000383659,;HSPBAP1,intron_variant,,ENST00000306103,NM_024610.5;HSPBAP1,intron_variant,,ENST00000465044,;HSPBAP1,intron_variant,,ENST00000467643,;HSPBAP1,intron_variant,,ENST00000478601,;"	"A"	"ENSG00000169087"	"ENST00000306103"	"Transcript"	"intron_variant"	"-/1953"	"-/1467"	"-/488"	""	""	""	"1"	NA	-1	"HSPBAP1"	"HGNC"	16389	"protein_coding"	"YES"	"CCDS3017.1"	"ENSP00000302562"	"Q96EW2"	"Q9H641"	"UPI00000715E9"	"NM_024610.5"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"c34fa990-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"11574"	"SNX4"	8723	"mskcc.org"	"GRCh37"	"3"	125212485	125212485	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.597+3700C>T"	""	""	"ENST00000251775"	""	78	"70"	8	57	"57"	0	"SNX4,intron_variant,,ENST00000251775,NM_003794.3;SNX4,intron_variant,,ENST00000536067,;SNX4,intron_variant,,ENST00000473417,;SNX4,intron_variant,,ENST00000471751,;SNX4,intron_variant,,ENST00000465505,;"	"A"	"ENSG00000114520"	"ENST00000251775"	"Transcript"	"intron_variant"	"-/2506"	"-/1353"	"-/450"	""	""	""	"1"	NA	-1	"SNX4"	"HGNC"	11175	"protein_coding"	"YES"	"CCDS3032.1"	"ENSP00000251775"	"O95219"	"Q9H398,B4DQV4"	"UPI000003586D"	"NM_003794.3"	""	""	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c3502f46-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"11575"	"MGLL"	11343	"mskcc.org"	"GRCh37"	"3"	127536760	127536760	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.155+3777G>C"	""	""	"ENST00000265052"	""	99	"72"	27	64	"64"	0	"MGLL,intron_variant,,ENST00000434178,;MGLL,intron_variant,,ENST00000265052,NM_001256585.1,NM_007283.6;MGLL,intron_variant,,ENST00000398104,NM_001003794.2;MGLL,intron_variant,,ENST00000453507,;MGLL,intron_variant,,ENST00000494830,;MGLL,intron_variant,,ENST00000479967,;"	"G"	"ENSG00000074416"	"ENST00000265052"	"Transcript"	"intron_variant"	"-/4612"	"-/942"	"-/313"	""	""	""	"1"	NA	-1	"MGLL"	"HGNC"	17038	"protein_coding"	"YES"	"CCDS46902.1"	"ENSP00000265052"	"Q99685"	"C9JAM4,C9J8Q3"	"UPI000004EC90"	"NM_001256585.1,NM_007283.6"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c3511c76-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"11576"	"TMEM108"	66000	"mskcc.org"	"GRCh37"	"3"	133099119	133099119	"+"	"Silent"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.564T>C"	"p.="	"p.G188G"	"ENST00000321871"	"4/6"	91	"67"	24	58	"58"	0	"TMEM108,synonymous_variant,p.=,ENST00000515826,;TMEM108,synonymous_variant,p.=,ENST00000321871,NM_001136469.1,NM_023943.2;TMEM108,synonymous_variant,p.=,ENST00000393130,;TMEM108,intron_variant,,ENST00000508711,NM_001282865.1;TMEM108,downstream_gene_variant,,ENST00000512662,;TMEM108,downstream_gene_variant,,ENST00000514894,;TMEM108,downstream_gene_variant,,ENST00000512137,;TMEM108,downstream_gene_variant,,ENST00000510183,;TMEM108,downstream_gene_variant,,ENST00000511555,;TMEM108,non_coding_transcript_exon_variant,,ENST00000511388,;"	"C"	"ENSG00000144868"	"ENST00000321871"	"Transcript"	"synonymous_variant"	"774/3744"	"564/1728"	"188/575"	"G"	"ggT/ggC"	""	"1"	NA	1	"TMEM108"	"HGNC"	28451	"protein_coding"	"YES"	"CCDS33858.1"	"ENSP00000324651"	"Q6UXF1"	"D6RIE1,D6RGJ9,D6RFH6,D6R9I6,D6R911"	"UPI000004EE8B"	"NM_001136469.1,NM_023943.2"	""	""	"4/6"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c3527b52-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263736263736264	"WGS"	FALSE
"11577"	"EPHB1"	2047	"mskcc.org"	"GRCh37"	"3"	134563635	134563635	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.58+49104T>A"	""	""	"ENST00000398015"	""	89	"57"	32	58	"58"	0	"EPHB1,intron_variant,,ENST00000398015,NM_004441.4;EPHB1,intron_variant,,ENST00000460895,;EPHB1,intron_variant,,ENST00000473867,;EPHB1,intron_variant,,ENST00000497173,;EPHB1,intron_variant,,ENST00000488154,;EPHB1,intron_variant,,ENST00000482618,;"	"A"	"ENSG00000154928"	"ENST00000398015"	"Transcript"	"intron_variant"	"-/4672"	"-/2955"	"-/984"	""	""	""	"1"	NA	1	"EPHB1"	"HGNC"	3392	"protein_coding"	"YES"	"CCDS46921.1"	"ENSP00000381097"	"P54762"	"C9K090,C9JB88,C9J6S4,C9J466,B3KTB2"	"UPI000012A07E"	"NM_004441.4"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c352cf6c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.359550561797753	"WGS"	FALSE
"11578"	"IL20RB"	53833	"mskcc.org"	"GRCh37"	"3"	136689655	136689655	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.89-9653A>C"	""	""	"ENST00000329582"	""	75	"70"	5	46	"46"	0	"IL20RB,intron_variant,,ENST00000329582,NM_144717.3;IL20RB,intron_variant,,ENST00000309741,;IL20RB-AS1,intron_variant,,ENST00000462176,;IL20RB,intron_variant,,ENST00000484501,;IL20RB,intron_variant,,ENST00000469964,;IL20RB,intron_variant,,ENST00000491483,;"	"C"	"ENSG00000174564"	"ENST00000329582"	"Transcript"	"intron_variant"	"-/2047"	"-/936"	"-/311"	""	""	""	"1"	NA	1	"IL20RB"	"HGNC"	6004	"protein_coding"	"YES"	"CCDS3093.1"	"ENSP00000328133"	"Q6UXL0"	""	"UPI000003E7F6"	"NM_144717.3"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c35340fa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"11579"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	138133663	138133663	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"55"	27	64	"64"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"c3538506-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329268292682927	"WGS"	FALSE
"11580"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	140914714	140914714	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"81"	30	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c353f50e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27027027027027	"WGS"	FALSE
"11581"	"GRK7"	131890	"mskcc.org"	"GRCh37"	"3"	141527959	141527959	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1325+1198A>G"	""	""	"ENST00000264952"	""	103	"94"	9	55	"55"	0	"GRK7,intron_variant,,ENST00000264952,NM_139209.2;"	"G"	"ENSG00000114124"	"ENST00000264952"	"Transcript"	"intron_variant"	"-/3239"	"-/1662"	"-/553"	""	""	""	"1"	NA	1	"GRK7"	"HGNC"	17031	"protein_coding"	"YES"	"CCDS3120.1"	"ENSP00000264952"	"Q8WTQ7"	""	"UPI000004244D"	"NM_139209.2"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c35414f8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087378640776699	"WGS"	FALSE
"11582"	"TFDP2"	7029	"mskcc.org"	"GRCh37"	"3"	141793005	141793005	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.82+18898A>G"	""	""	"ENST00000489671"	""	85	"77"	8	59	"59"	0	"TFDP2,intron_variant,,ENST00000499676,NM_001178139.1;TFDP2,intron_variant,,ENST00000489671,;TFDP2,intron_variant,,ENST00000467072,NM_001178138.1;TFDP2,intron_variant,,ENST00000317104,;TFDP2,intron_variant,,ENST00000475734,;TFDP2,intron_variant,,ENST00000494358,;TFDP2,intron_variant,,ENST00000467634,;TFDP2,intron_variant,,ENST00000488107,;TFDP2,intron_variant,,ENST00000464782,;TFDP2,intron_variant,,ENST00000476617,;TFDP2,intron_variant,,ENST00000495095,;TFDP2,intron_variant,,ENST00000487734,;"	"C"	"ENSG00000114126"	"ENST00000489671"	"Transcript"	"intron_variant"	"-/3138"	"-/1341"	"-/446"	""	""	""	"1"	NA	-1	"TFDP2"	"HGNC"	11751	"protein_coding"	"YES"	"CCDS54650.1"	"ENSP00000420616"	"Q14188"	"C9JTZ9,C9JNB6,C9JCY5,C9J5D5,C9J461"	"UPI0000136B56"	""	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c3544284-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"11583"	"SLC9A9"	285195	"mskcc.org"	"GRCh37"	"3"	143014364	143014364	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1605-26542A>G"	""	""	"ENST00000316549"	""	77	"60"	17	50	"50"	0	"SLC9A9,intron_variant,,ENST00000316549,NM_173653.3;"	"C"	"ENSG00000181804"	"ENST00000316549"	"Transcript"	"intron_variant"	"-/3627"	"-/1938"	"-/645"	""	""	""	"1"	NA	-1	"SLC9A9"	"HGNC"	20653	"protein_coding"	"YES"	"CCDS33872.1"	"ENSP00000320246"	"Q8IVB4"	""	"UPI0000074664"	"NM_173653.3"	""	""	""	"14/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"c3547fce-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220779220779221	"WGS"	FALSE
"11584"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	145119360	145119360	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"78"	16	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c354ba5c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170212765957447	"WGS"	FALSE
"11585"	"ZIC4"	84107	"mskcc.org"	"GRCh37"	"3"	147108377	147108377	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1154+341G>A"	""	""	"ENST00000525172"	""	86	"67"	19	50	"50"	0	"ZIC4,intron_variant,,ENST00000383075,NM_032153.5;ZIC4,intron_variant,,ENST00000525172,NM_001168378.1;ZIC4,intron_variant,,ENST00000425731,NM_001168379.1;ZIC4,intron_variant,,ENST00000484399,;ZIC4,intron_variant,,ENST00000473123,;ZIC4,intron_variant,,ENST00000491672,NM_001243256.1;ZIC1,upstream_gene_variant,,ENST00000488404,;ZIC4-AS1,downstream_gene_variant,,ENST00000462168,;ZIC4,intron_variant,,ENST00000472749,;ZIC4,intron_variant,,ENST00000463850,;ZIC4,intron_variant,,ENST00000475502,;ZIC4,intron_variant,,ENST00000464502,;ZIC1,upstream_gene_variant,,ENST00000472523,;ZIC4,upstream_gene_variant,,ENST00000480015,;ZIC4,intron_variant,,ENST00000494569,;ZIC4,intron_variant,,ENST00000493664,;"	"T"	"ENSG00000174963"	"ENST00000525172"	"Transcript"	"intron_variant"	"-/4152"	"-/1155"	"-/384"	""	""	""	"1"	NA	-1	"ZIC4"	"HGNC"	20393	"protein_coding"	"YES"	"CCDS54652.1"	"ENSP00000435509"	"Q8N9L1"	"C9JZU7,C9JD04,C9J6T3,B3KPI4"	"UPI0001914D88"	"NM_001168378.1"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"c355023c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22093023255814	"WGS"	FALSE
"11586"	"ENSR00001746784"	0	"mskcc.org"	"GRCh37"	"3"	147332968	147332968	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001746784"	""	81	"74"	7	60	"60"	0	""	"T"	""	"ENSR00001746784"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c35509a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"11587"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	148229465	148229465	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"65"	26	75	"75"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c3551fce-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"11588"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	148302974	148302974	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"57"	36	81	"81"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c3552186-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.387096774193548	"WGS"	FALSE
"11589"	"AGTR1"	185	"mskcc.org"	"GRCh37"	"3"	148438917	148438917	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-105-9050C>A"	""	""	"ENST00000542281"	""	88	"77"	11	55	"55"	0	"AGTR1,intron_variant,,ENST00000542281,NM_031850.3;AGTR1,intron_variant,,ENST00000497524,NM_009585.3;AGTR1,intron_variant,,ENST00000349243,NM_000685.4;AGTR1,intron_variant,,ENST00000418473,NM_004835.4;AGTR1,intron_variant,,ENST00000404754,;AGTR1,intron_variant,,ENST00000475166,;"	"A"	"ENSG00000144891"	"ENST00000542281"	"Transcript"	"intron_variant"	"-/2412"	"-/1080"	"-/359"	""	""	""	"1"	NA	1	"AGTR1"	"HGNC"	336	"protein_coding"	"YES"	"CCDS3137.1"	"ENSP00000443186"	"P30556"	"Q53YY0,D3DNG8"	"UPI0000039D66"	"NM_031850.3"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"c3552500-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"11590"	"RP11-454C18.1"	0	"mskcc.org"	"GRCh37"	"3"	151351015	151351015	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000492731"	""	95	"68"	27	62	"62"	0	"RP11-454C18.1,upstream_gene_variant,,ENST00000492731,;AC069067.1,upstream_gene_variant,,ENST00000410901,;"	"T"	"ENSG00000241151"	"ENST00000492731"	"Transcript"	"upstream_gene_variant"	"-/580"	""	""	""	""	""	"1"	"3947"	1	"RP11-454C18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c355acd2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284210526315789	"WGS"	FALSE
"11591"	"MBNL1"	4154	"mskcc.org"	"GRCh37"	"3"	152149646	152149646	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.346-860T>A"	""	""	"ENST00000282486"	""	96	"88"	8	67	"67"	0	"MBNL1,intron_variant,,ENST00000282486,;MBNL1,intron_variant,,ENST00000282488,;MBNL1,intron_variant,,ENST00000355460,NM_207292.1;MBNL1,intron_variant,,ENST00000324210,NM_021038.3;MBNL1,intron_variant,,ENST00000498502,;MBNL1,intron_variant,,ENST00000357472,NM_207297.1;MBNL1,intron_variant,,ENST00000324196,NM_207296.1;MBNL1,intron_variant,,ENST00000545754,NM_207295.1;MBNL1,intron_variant,,ENST00000463374,NM_207293.1;MBNL1,intron_variant,,ENST00000485910,NM_207294.1;MBNL1,intron_variant,,ENST00000493459,;MBNL1,intron_variant,,ENST00000478535,;MBNL1,intron_variant,,ENST00000492948,;MBNL1,intron_variant,,ENST00000485509,;MBNL1,intron_variant,,ENST00000464596,;MBNL1,intron_variant,,ENST00000465907,;MBNL1,intron_variant,,ENST00000460591,;MBNL1,intron_variant,,ENST00000495875,;MBNL1,intron_variant,,ENST00000460166,;"	"A"	"ENSG00000152601"	"ENST00000282486"	"Transcript"	"intron_variant"	"-/6422"	"-/1167"	"-/388"	""	""	""	"1"	NA	1	"MBNL1"	"HGNC"	6923	"protein_coding"	"YES"	"CCDS3165.1"	"ENSP00000282486"	"Q9NR56"	"C9JCX1,C9J7P7"	"UPI000003B440"	""	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"c355d2ac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"11592"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	152717451	152717451	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"52"	14	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c355ffac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212121212121212	"WGS"	FALSE
"11593"	"RP11-23D24.2"	0	"mskcc.org"	"GRCh37"	"3"	153693019	153693019	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.257+4700C>A"	""	""	"ENST00000488210"	""	68	"55"	13	56	"56"	0	"RP11-23D24.2,intron_variant,,ENST00000488210,;"	"T"	"ENSG00000238755"	"ENST00000488210"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/524"	""	""	""	""	""	"1"	NA	-1	"RP11-23D24.2"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c35632ba-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191176470588235	"WGS"	FALSE
"11594"	"PLCH1"	23007	"mskcc.org"	"GRCh37"	"3"	155259821	155259821	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs188310411"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1326+7755G>A"	""	""	"ENST00000340059"	""	79	"73"	6	51	"51"	0	"PLCH1,intron_variant,,ENST00000460012,;PLCH1,intron_variant,,ENST00000414191,;PLCH1,intron_variant,,ENST00000447496,NM_001130961.1;PLCH1,intron_variant,,ENST00000340059,NM_001130960.1;PLCH1,intron_variant,,ENST00000334686,NM_014996.2;PLCH1,intron_variant,,ENST00000494598,;"	"T"	"ENSG00000114805"	"ENST00000340059"	"Transcript"	"intron_variant"	"-/6168"	"-/5082"	"-/1693"	""	""	"rs188310411"	"1"	NA	-1	"PLCH1"	"HGNC"	29185	"protein_coding"	"YES"	"CCDS46939.1"	"ENSP00000345988"	"Q4KWH8"	""	"UPI00001D800E"	"NM_001130960.1"	""	""	""	"9/22"	""	"T:0.0026"	"T:0.0008"	"T:0.0043"	NA	"T:0"	"T:0.006"	"T:0.0031"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c356736a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"11595"	"ENSR00001747937"	0	"mskcc.org"	"GRCh37"	"3"	161883541	161883541	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001747937"	""	89	"64"	25	54	"54"	0	""	"C"	""	"ENSR00001747937"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c35790e2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280898876404494	"WGS"	FALSE
"11596"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	161964017	161964017	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"66"	23	77	"77"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c3579376-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258426966292135	"WGS"	FALSE
"11597"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	162250497	162250497	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"83"	24	63	"63"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c357a320-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224299065420561	"WGS"	FALSE
"11598"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	162542294	162542294	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"53"	21	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c357b2ca-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283783783783784	"WGS"	FALSE
"11599"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	163412858	163412858	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"55"	21	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c357d0fc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276315789473684	"WGS"	FALSE
"11600"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	163471589	163471589	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"54"	28	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c357d2be-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341463414634146	"WGS"	FALSE
"11601"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	163753753	163753753	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"55"	16	73	"73"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c357dcbe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225352112676056	"WGS"	FALSE
"11602"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	164609559	164609559	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"85"	18	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c357f2ee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174757281553398	"WGS"	FALSE
"11603"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	164666767	164666767	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"49"	25	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c357f884-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337837837837838	"WGS"	FALSE
"11604"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	164807605	164807605	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"52"	25	30	"30"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c357fbfe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324675324675325	"WGS"	FALSE
"11605"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	166426290	166426290	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"50"	23	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c3582728-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315068493150685	"WGS"	FALSE
"11606"	"EGFEM1P"	93556	"mskcc.org"	"GRCh37"	"3"	168200720	168200720	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.605-36604C>A"	""	""	"ENST00000511230"	""	76	"54"	22	70	"70"	0	"EGFEM1P,intron_variant,,ENST00000511230,;EGFEM1P,intron_variant,,ENST00000502778,;EGFEM1P,intron_variant,,ENST00000431685,;"	"A"	"ENSG00000206120"	"ENST00000511230"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/690"	""	""	""	""	""	"1"	NA	1	"EGFEM1P"	"HGNC"	25149	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c3586256-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289473684210526	"WGS"	FALSE
"11607"	"ENSR00001748157"	0	"mskcc.org"	"GRCh37"	"3"	169387361	169387361	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001748157"	""	73	"67"	6	57	"57"	0	""	"G"	""	"ENSR00001748157"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c3589b86-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"11608"	"SAMD7"	344658	"mskcc.org"	"GRCh37"	"3"	169640572	169640572	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.211+1446C>G"	""	""	"ENST00000428432"	""	84	"69"	15	60	"60"	0	"SAMD7,intron_variant,,ENST00000428432,NM_182610.2;SAMD7,intron_variant,,ENST00000335556,;SAMD7,intron_variant,,ENST00000487910,;"	"G"	"ENSG00000187033"	"ENST00000428432"	"Transcript"	"intron_variant"	"-/2399"	"-/1341"	"-/446"	""	""	""	"1"	NA	1	"SAMD7"	"HGNC"	25394	"protein_coding"	"YES"	"CCDS3209.1"	"ENSP00000391299"	"Q7Z3H4"	""	"UPI00001A9D13"	"NM_182610.2"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c358af7c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"11609"	"CLDN11"	5010	"mskcc.org"	"GRCh37"	"3"	170161099	170161099	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.391+19984G>A"	""	""	"ENST00000486975"	""	69	"50"	19	51	"51"	0	"CLDN11,intron_variant,,ENST00000486975,;CLDN11,intron_variant,,ENST00000451576,;CLDN11,intron_variant,,ENST00000488989,;CLDN11,intron_variant,,ENST00000471373,;"	"A"	"ENSG00000013297"	"ENST00000486975"	"Transcript"	"intron_variant"	"-/1139"	"-/498"	"-/165"	""	""	""	"1"	NA	1	"CLDN11"	"HGNC"	8514	"protein_coding"	""	""	"ENSP00000417434"	""	"B4DFI2"	"UPI00017A6ED3"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c358e956-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27536231884058	"WGS"	FALSE
"11610"	"NAALADL2"	254827	"mskcc.org"	"GRCh37"	"3"	174580605	174580605	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.43+3365C>A"	""	""	"ENST00000454872"	""	90	"60"	30	58	"58"	0	"NAALADL2,intron_variant,,ENST00000454872,NM_207015.2;NAALADL2,intron_variant,,ENST00000434257,;NAALADL2,upstream_gene_variant,,ENST00000473253,;NAALADL2,intron_variant,,ENST00000485853,;"	"A"	"ENSG00000177694"	"ENST00000454872"	"Transcript"	"intron_variant"	"-/4953"	"-/2388"	"-/795"	""	""	""	"1"	NA	1	"NAALADL2"	"HGNC"	23219	"protein_coding"	"YES"	"CCDS46960.1"	"ENSP00000404705"	"Q58DX5"	"C9JQ86"	"UPI0000161608"	"NM_207015.2"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c3599bbc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"11611"	"RP11-644C3.1"	0	"mskcc.org"	"GRCh37"	"3"	176388652	176388652	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.199-14133A>C"	""	""	"ENST00000428516"	""	77	"54"	23	70	"70"	0	"RP11-644C3.1,intron_variant,,ENST00000428516,;"	"G"	"ENSG00000232461"	"ENST00000428516"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/678"	""	""	""	""	""	"1"	NA	-1	"RP11-644C3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c359d492-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298701298701299	"WGS"	FALSE
"11612"	"ENSR00001486307"	0	"mskcc.org"	"GRCh37"	"3"	176685922	176685922	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001486307"	""	99	"66"	33	54	"53"	1	""	"G"	""	"ENSR00001486307"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c359e3b0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"11613"	"ENSR00001748715"	0	"mskcc.org"	"GRCh37"	"3"	176968112	176968112	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001748715"	""	78	"72"	6	49	"49"	0	""	"T"	""	"ENSR00001748715"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c35a00e8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"11614"	"LINC00578"	100505566	"mskcc.org"	"GRCh37"	"3"	177265326	177265326	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"rs200440209"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.289+8045T>A"	""	""	"ENST00000442937"	""	86	"79"	7	43	"43"	0	"LINC00578,intron_variant,,ENST00000442937,;LINC00578,intron_variant,,ENST00000439009,;"	"A"	"ENSG00000228221"	"ENST00000442937"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/612"	""	""	""	""	"rs200440209"	"1"	NA	1	"LINC00578"	"HGNC"	43807	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c35a1362-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0813953488372093	"WGS"	FALSE
"11615"	"USP13"	8975	"mskcc.org"	"GRCh37"	"3"	179411728	179411728	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.355+3639A>G"	""	""	"ENST00000263966"	""	92	"82"	10	52	"52"	0	"USP13,intron_variant,,ENST00000263966,NM_003940.2;USP13,intron_variant,,ENST00000496897,;USP13,intron_variant,,ENST00000482333,;USP13,intron_variant,,ENST00000497380,;"	"G"	"ENSG00000058056"	"ENST00000263966"	"Transcript"	"intron_variant"	"-/8323"	"-/2592"	"-/863"	""	""	""	"1"	NA	1	"USP13"	"HGNC"	12611	"protein_coding"	"YES"	"CCDS3235.1"	"ENSP00000263966"	"Q92995"	""	"UPI000006DC10"	"NM_003940.2"	""	""	""	"3/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c35a8072-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108695652173913	"WGS"	FALSE
"11616"	"PEX5L"	51555	"mskcc.org"	"GRCh37"	"3"	179717429	179717429	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.22-27976A>G"	""	""	"ENST00000467460"	""	79	"60"	19	59	"59"	0	"PEX5L,intron_variant,,ENST00000467460,NM_001256751.1,NM_016559.2;PEX5L,intron_variant,,ENST00000485199,NM_001256752.1;PEX5L,intron_variant,,ENST00000263962,NM_001256750.1;PEX5L,intron_variant,,ENST00000472994,NM_001256753.1;PEX5L,intron_variant,,ENST00000465751,;PEX5L,intron_variant,,ENST00000474909,;"	"C"	"ENSG00000114757"	"ENST00000467460"	"Transcript"	"intron_variant"	"-/9082"	"-/1881"	"-/626"	""	""	""	"1"	NA	-1	"PEX5L"	"HGNC"	30024	"protein_coding"	"YES"	"CCDS3236.1"	"ENSP00000419975"	"Q8IYB4"	"C9JZE2,C9IZ09"	"UPI0000049CE2"	"NM_001256751.1,NM_016559.2"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c35a8bc6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240506329113924	"WGS"	FALSE
"11617"	"SOX2-OT"	347689	"mskcc.org"	"GRCh37"	"3"	180939713	180939713	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.448+46342G>C"	""	""	"ENST00000597347"	""	75	"53"	22	57	"57"	0	"SOX2-OT,intron_variant,,ENST00000597347,;SOX2-OT,intron_variant,,ENST00000493521,;SOX2-OT,intron_variant,,ENST00000460739,;SOX2-OT,intron_variant,,ENST00000469278,;SOX2-OT,intron_variant,,ENST00000493116,;"	"C"	"ENSG00000242808"	"ENST00000597347"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1342"	""	""	""	""	""	"1"	NA	1	"SOX2-OT"	"HGNC"	20209	"sense_overlapping"	""	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c35ab826-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293333333333333	"WGS"	FALSE
"11618"	"KLHL24"	54800	"mskcc.org"	"GRCh37"	"3"	183393722	183393722	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1603-3152G>T"	""	""	"ENST00000454652"	""	113	"74"	39	55	"55"	0	"KLHL24,intron_variant,,ENST00000454652,NM_017644.3;KLHL24,intron_variant,,ENST00000242810,;KLHL24,downstream_gene_variant,,ENST00000476808,;KLHL24,downstream_gene_variant,,ENST00000475827,;KLHL24,downstream_gene_variant,,ENST00000492409,;"	"T"	"ENSG00000114796"	"ENST00000454652"	"Transcript"	"intron_variant"	"-/7380"	"-/1803"	"-/600"	""	""	""	"1"	NA	1	"KLHL24"	"HGNC"	25947	"protein_coding"	"YES"	"CCDS3246.1"	"ENSP00000395012"	"Q6TFL4"	"C9JXR5,C9JQ67,C9JN72,C9JMQ9,C9JCK3,C9J3M5,C9J2N4,C9J0A6"	"UPI000020A86F"	"NM_017644.3"	""	""	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c35bd530-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.345132743362832	"WGS"	FALSE
"11619"	"HTR3E-AS1"	0	"mskcc.org"	"GRCh37"	"3"	183808461	183808461	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000431427"	""	94	"85"	9	55	"55"	0	"HTR3E-AS1,downstream_gene_variant,,ENST00000431427,;Y_RNA,upstream_gene_variant,,ENST00000384621,;"	"C"	"ENSG00000238020"	"ENST00000431427"	"Transcript"	"downstream_gene_variant"	"-/515"	""	""	""	""	""	"1"	"4445"	-1	"HTR3E-AS1"	"HGNC"	41032	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c35c0e88-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0957446808510638	"WGS"	FALSE
"11620"	"SENP2"	59343	"mskcc.org"	"GRCh37"	"3"	185314143	185314143	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.158-2057T>G"	""	""	"ENST00000296257"	""	105	"76"	29	52	"52"	0	"SENP2,intron_variant,,ENST00000296257,NM_021627.2;SENP2,intron_variant,,ENST00000427465,;SENP2,intron_variant,,ENST00000545472,;SENP2,intron_variant,,ENST00000430355,;SENP2,intron_variant,,ENST00000465201,;SENP2,intron_variant,,ENST00000413407,;SENP2,intron_variant,,ENST00000453532,;SENP2,intron_variant,,ENST00000439684,;SENP2,intron_variant,,ENST00000458551,;SENP2,upstream_gene_variant,,ENST00000473760,;"	"G"	"ENSG00000163904"	"ENST00000296257"	"Transcript"	"intron_variant"	"-/5717"	"-/1770"	"-/589"	""	""	""	"1"	NA	1	"SENP2"	"HGNC"	23116	"protein_coding"	"YES"	"CCDS33902.1"	"ENSP00000296257"	"Q9HC62"	"J3KQD2,B4E2S4"	"UPI000007452F"	"NM_021627.2"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c35caafa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276190476190476	"WGS"	FALSE
"11621"	"MASP1"	5648	"mskcc.org"	"GRCh37"	"3"	186964487	186964487	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1091-3078C>T"	""	""	"ENST00000296280"	""	87	"69"	18	52	"52"	0	"MASP1,3_prime_UTR_variant,,ENST00000169293,NM_001031849.2;MASP1,intron_variant,,ENST00000337774,NM_001879.5;MASP1,intron_variant,,ENST00000296280,NM_139125.3;MASP1,intron_variant,,ENST00000392472,;MASP1,downstream_gene_variant,,ENST00000392470,;MASP1,intron_variant,,ENST00000495249,;MASP1,upstream_gene_variant,,ENST00000468121,;MASP1,upstream_gene_variant,,ENST00000480349,;MASP1,downstream_gene_variant,,ENST00000483719,;"	"A"	"ENSG00000127241"	"ENST00000296280"	"Transcript"	"intron_variant"	"-/4015"	"-/2187"	"-/728"	""	""	""	"1"	NA	-1	"MASP1"	"HGNC"	6901	"protein_coding"	"YES"	"CCDS33908.1"	"ENSP00000296280"	"P48740"	"Q9NSY8,C9JLU5"	"UPI000007256E"	"NM_139125.3"	""	""	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGA"	"c35d2782-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206896551724138	"WGS"	FALSE
"11622"	"ENSR00001382181"	0	"mskcc.org"	"GRCh37"	"3"	187701823	187701823	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001382181"	""	71	"47"	24	41	"41"	0	""	"C"	""	"ENSR00001382181"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c35d6206-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.338028169014085	"WGS"	FALSE
"11623"	"IL1RAP"	3556	"mskcc.org"	"GRCh37"	"3"	190366149	190366149	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1345+2518C>T"	""	""	"ENST00000317757"	""	74	"52"	22	47	"47"	0	"IL1RAP,synonymous_variant,p.=,ENST00000412504,;IL1RAP,synonymous_variant,p.=,ENST00000447382,NM_002182.3;IL1RAP,synonymous_variant,p.=,ENST00000072516,NM_001167929.1;IL1RAP,synonymous_variant,p.=,ENST00000439062,NM_001167928.1;IL1RAP,intron_variant,,ENST00000317757,NM_001167931.1;IL1RAP,intron_variant,,ENST00000443369,;IL1RAP,3_prime_UTR_variant,,ENST00000413869,;IL1RAP,3_prime_UTR_variant,,ENST00000342550,;"	"T"	"ENSG00000196083"	"ENST00000317757"	"Transcript"	"intron_variant"	"-/3717"	"-/2064"	"-/687"	""	""	""	"1"	NA	1	"IL1RAP"	"HGNC"	5995	"protein_coding"	"YES"	"CCDS54696.1"	"ENSP00000314807"	"Q9NPH3"	"Q8N9C1,C9JT28,C9J1D9"	"UPI000020A9C1"	"NM_001167931.1"	""	""	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c35dcd2c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297297297297297	"WGS"	FALSE
"11624"	"FGF12"	2257	"mskcc.org"	"GRCh37"	"3"	192453347	192453347	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-130-8235C>T"	""	""	"ENST00000450716"	""	101	"69"	32	60	"60"	0	"FGF12,intron_variant,,ENST00000450716,;"	"A"	"ENSG00000114279"	"ENST00000450716"	"Transcript"	"intron_variant"	"-/768"	"-/546"	"-/181"	""	""	""	"1"	NA	-1	"FGF12"	"HGNC"	3668	"protein_coding"	""	"CCDS46983.1"	"ENSP00000397635"	"P61328"	"C9JUK8,C9JIN3"	"UPI00000E8058"	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c35e148a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316831683168317	"WGS"	FALSE
"11625"	"CTBP1"	1487	"mskcc.org"	"GRCh37"	"4"	1231322	1231322	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.195+649G>C"	""	""	"ENST00000290921"	""	59	"53"	6	35	"35"	0	"CTBP1,3_prime_UTR_variant,,ENST00000510568,;CTBP1,intron_variant,,ENST00000382952,NM_001012614.1;CTBP1,intron_variant,,ENST00000290921,NM_001328.2;CTBP1,intron_variant,,ENST00000515399,;CTBP1,intron_variant,,ENST00000514210,;CTBP1,intron_variant,,ENST00000506180,;CTBP1,intron_variant,,ENST00000513420,;CTBP1,intron_variant,,ENST00000515690,;CTBP1,intron_variant,,ENST00000514495,;CTBP1,upstream_gene_variant,,ENST00000514669,;"	"G"	"ENSG00000159692"	"ENST00000290921"	"Transcript"	"intron_variant"	"-/2297"	"-/1323"	"-/440"	""	""	""	"1"	NA	-1	"CTBP1"	"HGNC"	2494	"protein_coding"	"YES"	"CCDS3348.1"	"ENSP00000290921"	"Q13363"	""	"UPI0000128637"	"NM_001328.2"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c364f2f0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101694915254237	"WGS"	FALSE
"11626"	"CTBP1-AS2"	92070	"mskcc.org"	"GRCh37"	"4"	1275801	1275801	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2373-5592A>G"	""	""	"ENST00000578730"	""	88	"81"	7	55	"55"	0	"CTBP1-AS2,intron_variant,,ENST00000578730,;"	"G"	"ENSG00000196810"	"ENST00000578730"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2757"	""	""	""	""	""	"1"	NA	1	"CTBP1-AS2"	"HGNC"	28307	"antisense"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c3650a88-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0795454545454545	"WGS"	FALSE
"11627"	"ZFYVE28"	57732	"mskcc.org"	"GRCh37"	"4"	2397828	2397828	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs541998602"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.39+22184T>C"	""	""	"ENST00000290974"	""	62	"57"	5	32	"32"	0	"ZFYVE28,intron_variant,,ENST00000290974,NM_020972.2;ZFYVE28,intron_variant,,ENST00000511071,NM_001172656.1;ZFYVE28,intron_variant,,ENST00000503000,NM_001172657.1;ZFYVE28,intron_variant,,ENST00000509171,NM_001172658.1;ZFYVE28,intron_variant,,ENST00000508184,;"	"G"	"ENSG00000159733"	"ENST00000290974"	"Transcript"	"intron_variant"	"-/4131"	"-/2664"	"-/887"	""	""	"rs541998602"	"1"	NA	-1	"ZFYVE28"	"HGNC"	29334	"protein_coding"	"YES"	"CCDS33942.1"	"ENSP00000290974"	"Q9HCC9"	"Q49AA1,D6RID3"	"UPI00001C1E08"	"NM_020972.2"	""	""	""	"1/12"	""	"G:0.0150"	"G:0.0522"	"G:0.0072"	NA	"G:0"	"G:0.001"	"G:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c365cb4e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WGS"	FALSE
"11628"	"RP11-503N18.3"	0	"mskcc.org"	"GRCh37"	"4"	2467496	2467496	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000506607"	""	114	"89"	25	56	"56"	0	"RNF4,intron_variant,,ENST00000503659,;RNF4,upstream_gene_variant,,ENST00000314289,NM_002938.4;RNF4,upstream_gene_variant,,ENST00000541204,;RNF4,upstream_gene_variant,,ENST00000506706,NM_001185009.2;RP11-503N18.3,downstream_gene_variant,,ENST00000506607,;RNF4,upstream_gene_variant,,ENST00000511859,NM_001185010.2;RNF4,upstream_gene_variant,,ENST00000509258,;RNF4,upstream_gene_variant,,ENST00000502316,;RNF4,upstream_gene_variant,,ENST00000507247,;RNF4,upstream_gene_variant,,ENST00000504224,;RP11-503N18.4,downstream_gene_variant,,ENST00000502641,;RNF4,upstream_gene_variant,,ENST00000511843,;RNF4,upstream_gene_variant,,ENST00000509388,;RNF4,upstream_gene_variant,,ENST00000511892,;RNF4,upstream_gene_variant,,ENST00000513643,;RNF4,upstream_gene_variant,,ENST00000509206,;RNF4,upstream_gene_variant,,ENST00000503123,;RNF4,upstream_gene_variant,,ENST00000504782,;RNF4,upstream_gene_variant,,ENST00000507784,;RNF4,upstream_gene_variant,,ENST00000513578,;RNF4,upstream_gene_variant,,ENST00000513284,;"	"G"	"ENSG00000249428"	"ENST00000506607"	"Transcript"	"downstream_gene_variant"	"-/1398"	"-/1380"	"-/459"	""	""	""	"1"	"2828"	1	"RP11-503N18.3"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000425050"	""	"D6REC4"	"UPI0001662080"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c365da94-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219298245614035	"WGS"	FALSE
"11629"	"RNF4"	6047	"mskcc.org"	"GRCh37"	"4"	2535533	2535533	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.298+20009C>G"	""	""	"ENST00000508235"	""	85	"63"	22	46	"46"	0	"RNF4,intron_variant,,ENST00000508235,;"	"G"	"ENSG00000063978"	"ENST00000508235"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/603"	"-/321"	"-/106"	""	""	""	"1"	NA	1	"RNF4"	"HGNC"	10067	"nonsense_mediated_decay"	""	""	"ENSP00000427212"	""	""	"UPI0001D3B11E"	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c365e732-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258823529411765	"WGS"	FALSE
"11630"	"OR7E43P"	0	"mskcc.org"	"GRCh37"	"4"	4172030	4172030	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000503910"	""	69	"53"	16	58	"58"	0	"OR7E43P,downstream_gene_variant,,ENST00000503910,;"	"T"	"ENSG00000249844"	"ENST00000503910"	"Transcript"	"downstream_gene_variant"	"-/920"	""	""	""	""	""	"1"	"4016"	-1	"OR7E43P"	"HGNC"	8417	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c3671c06-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231884057971014	"WGS"	FALSE
"11631"	"STX18"	53407	"mskcc.org"	"GRCh37"	"4"	4525883	4525883	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.168+17641C>T"	""	""	"ENST00000306200"	""	70	"49"	21	47	"47"	0	"STX18,intron_variant,,ENST00000306200,NM_016930.2;STX18,intron_variant,,ENST00000505286,;STX18,intron_variant,,ENST00000507908,;STX18,intron_variant,,ENST00000512780,;"	"A"	"ENSG00000168818"	"ENST00000306200"	"Transcript"	"intron_variant"	"-/2138"	"-/1008"	"-/335"	""	""	""	"1"	NA	-1	"STX18"	"HGNC"	15942	"protein_coding"	"YES"	"CCDS3377.1"	"ENSP00000305810"	"Q9P2W9"	"D6RD65,D6RC71"	"UPI0000049FDD"	"NM_016930.2"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c3673c0e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"11632"	"MAN2B2"	23324	"mskcc.org"	"GRCh37"	"4"	6606092	6606092	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1540-690A>T"	""	""	"ENST00000285599"	""	83	"62"	21	40	"40"	0	"MAN2B2,intron_variant,,ENST00000505907,;MAN2B2,intron_variant,,ENST00000285599,NM_015274.1;MAN2B2,intron_variant,,ENST00000504248,;MAN2B2,upstream_gene_variant,,ENST00000504960,;"	"T"	"ENSG00000013288"	"ENST00000285599"	"Transcript"	"intron_variant"	"-/5143"	"-/3030"	"-/1009"	""	""	""	"1"	NA	1	"MAN2B2"	"HGNC"	29623	"protein_coding"	"YES"	"CCDS33951.1"	"ENSP00000285599"	"Q9Y2E5"	"Q05BN7,B3KQN1"	"UPI000004BF05"	"NM_015274.1"	""	""	""	"10/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c367f98c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253012048192771	"WGS"	FALSE
"11633"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	10960601	10960601	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"50"	32	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c36a42aa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.390243902439024	"WGS"	FALSE
"11634"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	10967527	10967527	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"57"	18	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c36a4390-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WGS"	FALSE
"11635"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	11364112	11364112	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	65	"47"	18	61	"60"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c36a608c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276923076923077	"WGS"	FALSE
"11636"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	12027895	12027895	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"57"	36	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c36a8558-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.387096774193548	"WGS"	FALSE
"11637"	"RP11-341G5.1"	101929071	"mskcc.org"	"GRCh37"	"4"	13914395	13914395	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.350-16579C>A"	""	""	"ENST00000510907"	""	72	"46"	26	60	"60"	0	"RP11-341G5.1,intron_variant,,ENST00000510907,;RP11-341G5.1,intron_variant,,ENST00000503532,;"	"A"	"ENSG00000250634"	"ENST00000510907"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2228"	""	""	""	""	""	"1"	NA	1	"RP11-341G5.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c36ad350-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.361111111111111	"WGS"	FALSE
"11638"	"LDB2"	9079	"mskcc.org"	"GRCh37"	"4"	16745917	16745917	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.235+14864A>G"	""	""	"ENST00000304523"	""	74	"66"	8	48	"48"	0	"LDB2,intron_variant,,ENST00000502640,;LDB2,intron_variant,,ENST00000304523,NM_001290.3;LDB2,intron_variant,,ENST00000441778,NM_001130834.1;LDB2,intron_variant,,ENST00000515064,;LDB2,intron_variant,,ENST00000506732,;LDB2,intron_variant,,ENST00000510825,;LDB2,intron_variant,,ENST00000513457,;LDB2,intron_variant,,ENST00000508918,;LDB2,intron_variant,,ENST00000512345,;LDB2,intron_variant,,ENST00000508804,;"	"C"	"ENSG00000169744"	"ENST00000304523"	"Transcript"	"intron_variant"	"-/2548"	"-/1122"	"-/373"	""	""	""	"1"	NA	-1	"LDB2"	"HGNC"	6533	"protein_coding"	"YES"	"CCDS3420.1"	"ENSP00000306772"	"O43679"	"Q4W5E7,D6RAT1"	"UPI0000073D86"	"NM_001290.3"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c36b4e20-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"11639"	"RP11-608O21.1"	0	"mskcc.org"	"GRCh37"	"4"	19656719	19656719	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.288+121478T>A"	""	""	"ENST00000511431"	""	89	"66"	23	50	"50"	0	"RP11-608O21.1,intron_variant,,ENST00000511431,;"	"A"	"ENSG00000248515"	"ENST00000511431"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/889"	""	""	""	""	""	"1"	NA	1	"RP11-608O21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c36bd46c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258426966292135	"WGS"	FALSE
"11640"	"RP13-497K6.1"	0	"mskcc.org"	"GRCh37"	"4"	23777781	23777781	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000506514"	""	102	"94"	8	73	"73"	0	"RP13-497K6.1,upstream_gene_variant,,ENST00000506514,;PPARGC1A,intron_variant,,ENST00000509702,;"	"T"	"ENSG00000249453"	"ENST00000506514"	"Transcript"	"upstream_gene_variant"	"-/442"	""	""	""	""	""	"1"	"3432"	1	"RP13-497K6.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c36c6576-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0784313725490196	"WGS"	FALSE
"11641"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	24295215	24295215	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	22	"17"	5	11	"11"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c36c7566-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"11642"	"ENSR00001753477"	0	"mskcc.org"	"GRCh37"	"4"	24507949	24507949	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001753477"	""	94	"71"	23	42	"42"	0	""	"G"	""	"ENSR00001753477"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c36c8f60-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24468085106383	"WGS"	FALSE
"11643"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	27461294	27461294	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"68"	30	56	"56"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c36d4716-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306122448979592	"WGS"	FALSE
"11644"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	28287358	28287358	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"72"	28	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c36d6cb4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"11645"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	28649098	28649098	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"rs778016651"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"59"	27	69	"69"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs778016651"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c36d7b64-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313953488372093	"WGS"	FALSE
"11646"	"ENSR00001238778"	0	"mskcc.org"	"GRCh37"	"4"	29329190	29329190	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001238778"	""	96	"72"	24	56	"56"	0	""	"A"	""	"ENSR00001238778"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c36d90ae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"11647"	"ENSR00001430504"	0	"mskcc.org"	"GRCh37"	"4"	31694153	31694153	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001430504"	""	85	"54"	31	53	"53"	0	""	"T"	""	"ENSR00001430504"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c36dd870-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364705882352941	"WGS"	FALSE
"11648"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	33648275	33648275	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"59"	20	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c36e2262-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253164556962025	"WGS"	FALSE
"11649"	"RP11-79E3.3"	101928622	"mskcc.org"	"GRCh37"	"4"	33931204	33931204	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.423+17827C>G"	""	""	"ENST00000505018"	""	75	"52"	23	55	"55"	0	"RP11-79E3.3,intron_variant,,ENST00000505018,;RP11-79E3.2,intron_variant,,ENST00000506650,;RP11-79E3.2,intron_variant,,ENST00000505326,;RP11-79E3.3,intron_variant,,ENST00000512581,;RP11-79E3.2,intron_variant,,ENST00000515733,;"	"C"	"ENSG00000250954"	"ENST00000505018"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2404"	""	""	""	""	""	"1"	NA	-1	"RP11-79E3.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c36e2f82-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306666666666667	"WGS"	FALSE
"11650"	"RP11-548L20.1"	0	"mskcc.org"	"GRCh37"	"4"	34253044	34253044	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.41+7665G>A"	""	""	"ENST00000513843"	""	105	"87"	18	54	"54"	0	"RP11-548L20.1,intron_variant,,ENST00000513843,;RP11-548L20.1,intron_variant,,ENST00000514877,;"	"T"	"ENSG00000248685"	"ENST00000513843"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/546"	""	""	""	""	""	"1"	NA	-1	"RP11-548L20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c36e3590-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171428571428571	"WGS"	FALSE
"11651"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	34871751	34871751	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"63"	27	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c36e4b34-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"11652"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	35344277	35344277	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs200045443"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"58"	20	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200045443"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c36e5c82-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256410256410256	"WGS"	FALSE
"11653"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	35518691	35518691	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"74"	31	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c36e5ffc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295238095238095	"WGS"	FALSE
"11654"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	35851145	35851145	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"59"	22	62	"62"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c36e6830-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271604938271605	"WGS"	FALSE
"11655"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	35860696	35860696	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"44"	32	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c36e6916-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.421052631578947	"WGS"	FALSE
"11656"	"RP11-431M7.2"	0	"mskcc.org"	"GRCh37"	"4"	36386666	36386666	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs145990467"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.330+7037C>T"	""	""	"ENST00000504344"	""	81	"52"	29	58	"58"	0	"RP11-431M7.2,intron_variant,,ENST00000504344,;"	"A"	"ENSG00000251438"	"ENST00000504344"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/541"	""	""	""	""	"rs145990467"	"1"	NA	-1	"RP11-431M7.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	"A:0.0022"	"A:0"	"A:0"	NA	"A:0.0109"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c36e7974-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358024691358025	"WGS"	FALSE
"11657"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	37064775	37064775	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"68"	29	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c36e9206-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298969072164948	"WGS"	FALSE
"11658"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	37886069	37886069	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"61"	21	51	"51"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c36ebba0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25609756097561	"WGS"	FALSE
"11659"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	40278744	40278744	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"71"	24	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c36f934a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"11660"	"SLC30A9"	10463	"mskcc.org"	"GRCh37"	"4"	42075138	42075138	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1418+2430G>A"	""	""	"ENST00000264451"	""	82	"56"	26	45	"45"	0	"SLC30A9,intron_variant,,ENST00000264451,NM_006345.3;SLC30A9,intron_variant,,ENST00000513699,;SLC30A9,intron_variant,,ENST00000509683,;SLC30A9,intron_variant,,ENST00000505523,;"	"A"	"ENSG00000014824"	"ENST00000264451"	"Transcript"	"intron_variant"	"-/6218"	"-/1707"	"-/568"	""	""	""	"1"	NA	1	"SLC30A9"	"HGNC"	1329	"protein_coding"	"YES"	"CCDS3465.1"	"ENSP00000264451"	"Q6PML9"	""	"UPI000013D51C"	"NM_006345.3"	""	""	""	"15/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c3700a14-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317073170731707	"WGS"	FALSE
"11661"	"KCTD8"	386617	"mskcc.org"	"GRCh37"	"4"	44205890	44205890	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.962-28623T>C"	""	""	"ENST00000360029"	""	79	"72"	7	66	"66"	0	"KCTD8,intron_variant,,ENST00000360029,NM_198353.2;KCTD8,intron_variant,,ENST00000515268,;"	"G"	"ENSG00000183783"	"ENST00000360029"	"Transcript"	"intron_variant"	"-/2587"	"-/1422"	"-/473"	""	""	""	"1"	NA	-1	"KCTD8"	"HGNC"	22394	"protein_coding"	"YES"	"CCDS3467.1"	"ENSP00000353129"	"Q6ZWB6"	"B4DQJ9"	"UPI00001C08D6"	"NM_198353.2"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c3706874-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"11662"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	44603100	44603100	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"62"	24	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c3706e96-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27906976744186	"WGS"	FALSE
"11663"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	45176520	45176520	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"63"	25	66	"66"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c3707666-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284090909090909	"WGS"	FALSE
"11664"	"TXK"	7294	"mskcc.org"	"GRCh37"	"4"	48093546	48093546	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.710-1705C>T"	""	""	"ENST00000264316"	""	82	"73"	9	70	"70"	0	"TXK,intron_variant,,ENST00000264316,NM_003328.2;TXK,intron_variant,,ENST00000510457,;"	"A"	"ENSG00000074966"	"ENST00000264316"	"Transcript"	"intron_variant"	"-/2914"	"-/1584"	"-/527"	""	""	""	"1"	NA	-1	"TXK"	"HGNC"	12434	"protein_coding"	"YES"	"CCDS3480.1"	"ENSP00000264316"	"P42681"	"Q6LD14,Q6LD13,D6RA14"	"UPI000013D4F9"	"NM_003328.2"	""	""	""	"8/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c370db2e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109756097560976	"WGS"	FALSE
"11665"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	52979913	52979913	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"78"	28	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c379c018-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264150943396226	"WGS"	FALSE
"11666"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	58793057	58793057	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"53"	32	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c37ad6c4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.376470588235294	"WGS"	FALSE
"11667"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	61182489	61182489	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"57"	22	65	"65"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c37b3b28-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278481012658228	"WGS"	FALSE
"11668"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	61542902	61542902	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"56"	11	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c37b52d4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164179104477612	"WGS"	FALSE
"11669"	"LPHN3"	23284	"mskcc.org"	"GRCh37"	"4"	62911766	62911766	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3610+1499G>C"	""	""	"ENST00000514591"	""	89	"71"	18	64	"64"	0	"LPHN3,intron_variant,,ENST00000512091,;LPHN3,intron_variant,,ENST00000514591,;LPHN3,intron_variant,,ENST00000545650,NM_015236.4;LPHN3,intron_variant,,ENST00000509896,;LPHN3,intron_variant,,ENST00000511324,;LPHN3,intron_variant,,ENST00000508693,;LPHN3,intron_variant,,ENST00000507164,;LPHN3,intron_variant,,ENST00000506720,;LPHN3,intron_variant,,ENST00000506746,;LPHN3,intron_variant,,ENST00000507625,;LPHN3,intron_variant,,ENST00000506700,;LPHN3,intron_variant,,ENST00000504896,;LPHN3,intron_variant,,ENST00000514157,;LPHN3,intron_variant,,ENST00000508946,;LPHN3,intron_variant,,ENST00000514996,;LPHN3,intron_variant,,ENST00000502815,;"	"C"	"ENSG00000150471"	"ENST00000514591"	"Transcript"	"intron_variant"	"-/6297"	"-/4410"	"-/1469"	""	""	""	"1"	NA	1	"LPHN3"	"HGNC"	20974	"protein_coding"	"YES"	"CCDS54768.1"	"ENSP00000422533"	""	"Q4W5J9,E9PE04"	"UPI00016278EF"	""	""	""	""	"24/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c37b7138-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202247191011236	"WGS"	FALSE
"11670"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	63046541	63046541	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"58"	23	74	"74"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c37b76ce-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283950617283951	"WGS"	FALSE
"11671"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	63125823	63125823	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"61"	25	60	"60"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c37b7a48-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290697674418605	"WGS"	FALSE
"11672"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	64089252	64089252	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"62"	16	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c37ba298-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205128205128205	"WGS"	FALSE
"11673"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	64238330	64238330	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"68"	9	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c37ba536-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116883116883117	"WGS"	FALSE
"11674"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	64272556	64272556	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"51"	25	58	"56"	2	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"c37ba7d4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.328947368421053	"WGS"	FALSE
"11675"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	65589887	65589887	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"68"	19	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c37bc9e4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218390804597701	"WGS"	FALSE
"11676"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	65641493	65641493	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"51"	22	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c37bcc82-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301369863013699	"WGS"	FALSE
"11677"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	65657655	65657655	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs113308240"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"67"	27	81	"81"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113308240"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0172"	"A:0.0651"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c37bcd68-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287234042553192	"WGS"	FALSE
"11678"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	66145307	66145307	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"50"	22	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c37be370-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305555555555556	"WGS"	FALSE
"11679"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	66617146	66617146	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"86"	5	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c37bfc02-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0549450549450549	"WGS"	FALSE
"11680"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	66840454	66840454	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"62"	23	63	"62"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c37c1ad4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270588235294118	"WGS"	FALSE
"11681"	"RP11-25H12.1"	0	"mskcc.org"	"GRCh37"	"4"	66965989	66965989	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.464-22085A>T"	""	""	"ENST00000508572"	""	81	"57"	24	55	"55"	0	"RP11-25H12.1,intron_variant,,ENST00000508572,;"	"T"	"ENSG00000249413"	"ENST00000508572"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/754"	""	""	""	""	""	"1"	NA	1	"RP11-25H12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c37c20e2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"11682"	"UBA6"	55236	"mskcc.org"	"GRCh37"	"4"	68482999	68482999	"+"	"3'UTR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1716A>C"	""	""	"ENST00000322244"	"33/33"	110	"102"	8	77	"77"	0	"UBA6,3_prime_UTR_variant,,ENST00000322244,NM_018227.5;UBA6,downstream_gene_variant,,ENST00000514261,;"	"G"	"ENSG00000033178"	"ENST00000322244"	"Transcript"	"3_prime_UTR_variant"	"4935/9564"	"-/3159"	"-/1052"	""	""	""	"1"	NA	-1	"UBA6"	"HGNC"	25581	"protein_coding"	"YES"	"CCDS3516.1"	"ENSP00000313454"	"A0AVT1"	"B3KSS1"	"UPI000004A4F7"	"NM_018227.5"	""	""	"33/33"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c37c56f2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0727272727272727	"WGS"	FALSE
"11683"	"UBA6-AS1"	550112	"mskcc.org"	"GRCh37"	"4"	68644855	68644855	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1905+23882C>G"	""	""	"ENST00000500538"	""	98	"72"	26	44	"44"	0	"UBA6-AS1,intron_variant,,ENST00000500538,;UBA6-AS1,intron_variant,,ENST00000502758,;"	"G"	"ENSG00000248049"	"ENST00000500538"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3352"	""	""	""	""	""	"1"	NA	1	"UBA6-AS1"	"HGNC"	49083	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c37c5a6c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26530612244898	"WGS"	FALSE
"11684"	"UGT2B10"	7365	"mskcc.org"	"GRCh37"	"4"	69689938	69689938	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.999+1818G>A"	""	""	"ENST00000265403"	""	102	"95"	7	65	"65"	0	"UGT2B10,intron_variant,,ENST00000265403,NM_001075.4;UGT2B10,intron_variant,,ENST00000458688,NM_001144767.1;"	"A"	"ENSG00000109181"	"ENST00000265403"	"Transcript"	"intron_variant"	"-/1931"	"-/1587"	"-/528"	""	""	""	"1"	NA	1	"UGT2B10"	"HGNC"	12544	"protein_coding"	"YES"	""	"ENSP00000265403"	"P36537"	""	"UPI0000137A96"	"NM_001075.4"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c37c8ca8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0686274509803922	"WGS"	FALSE
"11685"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	69833351	69833351	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs372308947"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"68"	17	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs372308947"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0036"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.0184"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c37c939c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"11686"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	71186004	71186004	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"53"	29	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c37cd604-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.353658536585366	"WGS"	FALSE
"11687"	"PARM1"	25849	"mskcc.org"	"GRCh37"	"4"	75955851	75955851	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.770-3242T>A"	""	""	"ENST00000307428"	""	86	"62"	24	56	"56"	0	"PARM1,intron_variant,,ENST00000307428,NM_015393.3;PARM1,intron_variant,,ENST00000513238,;RP11-44F21.2,intron_variant,,ENST00000513770,;"	"A"	"ENSG00000169116"	"ENST00000307428"	"Transcript"	"intron_variant"	"-/5011"	"-/933"	"-/310"	""	""	""	"1"	NA	1	"PARM1"	"HGNC"	24536	"protein_coding"	"YES"	"CCDS47077.1"	"ENSP00000370224"	"Q6UWI2"	""	"UPI000004457B"	"NM_015393.3"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c37d9e18-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27906976744186	"WGS"	FALSE
"11688"	"RP11-567N4.2"	0	"mskcc.org"	"GRCh37"	"4"	76316717	76316717	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.333-30160G>A"	""	""	"ENST00000510744"	""	82	"55"	27	69	"69"	0	"RP11-567N4.2,intron_variant,,ENST00000510744,;"	"T"	"ENSG00000248646"	"ENST00000510744"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/473"	""	""	""	""	""	"1"	NA	-1	"RP11-567N4.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c37db164-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329268292682927	"WGS"	FALSE
"11689"	"RNU6-1187P"	0	"mskcc.org"	"GRCh37"	"4"	78066656	78066656	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000364771"	""	98	"81"	17	48	"48"	0	"RNU6-1187P,downstream_gene_variant,,ENST00000364771,;"	"G"	"ENSG00000201641"	"ENST00000364771"	"Transcript"	"downstream_gene_variant"	"-/110"	""	""	""	""	""	"1"	"4825"	-1	"RNU6-1187P"	"HGNC"	48150	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c37e1a0a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173469387755102	"WGS"	FALSE
"11690"	"C4orf22"	255119	"mskcc.org"	"GRCh37"	"4"	81494218	81494218	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.243-10029C>T"	""	""	"ENST00000508675"	""	102	"72"	30	58	"58"	0	"C4orf22,intron_variant,,ENST00000358105,NM_152770.2;C4orf22,intron_variant,,ENST00000508675,NM_001206997.1;C4orf22,intron_variant,,ENST00000512931,;C4orf22,intron_variant,,ENST00000502497,;C4orf22,intron_variant,,ENST00000503883,;C4orf22,intron_variant,,ENST00000513920,;C4orf22,intron_variant,,ENST00000514249,;"	"T"	"ENSG00000197826"	"ENST00000508675"	"Transcript"	"intron_variant"	"-/753"	"-/753"	"-/250"	""	""	""	"1"	NA	1	"C4orf22"	"HGNC"	28554	"protein_coding"	"YES"	"CCDS56336.1"	"ENSP00000425786"	"Q6V702"	""	"UPI0000D61589"	"NM_001206997.1"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c37ea056-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"11691"	"RP11-689K5.3"	0	"mskcc.org"	"GRCh37"	"4"	82754486	82754486	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.337-8762A>C"	""	""	"ENST00000510780"	""	78	"58"	20	62	"61"	1	"RASGEF1B,intron_variant,,ENST00000512716,;RP11-689K5.3,intron_variant,,ENST00000510780,;RP11-689K5.3,intron_variant,,ENST00000508294,;RP11-689K5.3,intron_variant,,ENST00000512343,;RP11-689K5.3,intron_variant,,ENST00000514050,;"	"G"	"ENSG00000251331"	"ENST00000510780"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/539"	""	""	""	""	""	"1"	NA	-1	"RP11-689K5.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c37ed1e8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256410256410256	"WGS"	FALSE
"11692"	"ENSR00001244308"	0	"mskcc.org"	"GRCh37"	"4"	84005598	84005598	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001244308"	""	100	"71"	29	54	"54"	0	""	"G"	""	"ENSR00001244308"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c37f1c84-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29	"WGS"	FALSE
"11693"	"FAM13A"	10144	"mskcc.org"	"GRCh37"	"4"	89969465	89969465	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.27+8624A>T"	""	""	"ENST00000264344"	""	101	"71"	30	64	"64"	0	"FAM13A,intron_variant,,ENST00000264344,NM_014883.3;FAM13A,intron_variant,,ENST00000511976,;FAM13A,intron_variant,,ENST00000509094,;FAM13A,intron_variant,,ENST00000515600,;FAM13A,intron_variant,,ENST00000502459,;FAM13A,intron_variant,,ENST00000512339,;"	"A"	"ENSG00000138640"	"ENST00000264344"	"Transcript"	"intron_variant"	"-/5858"	"-/3072"	"-/1023"	""	""	""	"1"	NA	-1	"FAM13A"	"HGNC"	19367	"protein_coding"	"YES"	"CCDS34029.1"	"ENSP00000264344"	"O94988"	"B4DPB4"	"UPI0000481AF3"	"NM_014883.3"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"c3806f1c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297029702970297	"WGS"	FALSE
"11694"	"FAM13A"	10144	"mskcc.org"	"GRCh37"	"4"	89978050	89978050	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.27+39C>A"	""	""	"ENST00000264344"	""	77	"48"	29	55	"55"	0	"FAM13A,intron_variant,,ENST00000264344,NM_014883.3;FAM13A,intron_variant,,ENST00000511976,;FAM13A,intron_variant,,ENST00000509094,;FAM13A,intron_variant,,ENST00000515600,;FAM13A,intron_variant,,ENST00000502459,;FAM13A,intron_variant,,ENST00000512339,;"	"T"	"ENSG00000138640"	"ENST00000264344"	"Transcript"	"intron_variant"	"-/5858"	"-/3072"	"-/1023"	""	""	""	"1"	NA	-1	"FAM13A"	"HGNC"	19367	"protein_coding"	"YES"	"CCDS34029.1"	"ENSP00000264344"	"O94988"	"B4DPB4"	"UPI0000481AF3"	"NM_014883.3"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"c3806ff8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.376623376623377	"WGS"	FALSE
"11695"	"CCSER1"	401145	"mskcc.org"	"GRCh37"	"4"	91524366	91524366	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1725-24810A>G"	""	""	"ENST00000509176"	""	91	"85"	6	57	"57"	0	"CCSER1,intron_variant,,ENST00000509176,NM_001145065.1;CCSER1,intron_variant,,ENST00000432775,NM_207491.2;CCSER1,intron_variant,,ENST00000333691,;CCSER1,intron_variant,,ENST00000505073,;"	"G"	"ENSG00000184305"	"ENST00000509176"	"Transcript"	"intron_variant"	"-/5847"	"-/2703"	"-/900"	""	""	""	"1"	NA	1	"CCSER1"	"HGNC"	29349	"protein_coding"	"YES"	"CCDS47099.1"	"ENSP00000425040"	"Q9C0I3"	""	"UPI00005A6104"	"NM_001145065.1"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c3809db6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"11696"	"GRID2"	2895	"mskcc.org"	"GRCh37"	"4"	93471172	93471172	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.89-40110G>T"	""	""	"ENST00000282020"	""	109	"79"	30	65	"65"	0	"GRID2,intron_variant,,ENST00000282020,NM_001510.2;GRID2,intron_variant,,ENST00000510992,NM_001286838.1;GRID2,intron_variant,,ENST00000505687,;"	"T"	"ENSG00000152208"	"ENST00000282020"	"Transcript"	"intron_variant"	"-/5340"	"-/3024"	"-/1007"	""	""	""	"1"	NA	1	"GRID2"	"HGNC"	4576	"protein_coding"	"YES"	"CCDS3637.1"	"ENSP00000282020"	"O43424"	"Q4W5S4,Q4W5L9,Q4W5F4,Q4W5B7,D6R976"	"UPI00001AEA78"	"NM_001510.2"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"c380dc86-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275229357798165	"WGS"	FALSE
"11697"	"GRID2"	2895	"mskcc.org"	"GRCh37"	"4"	93471173	93471173	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.89-40109G>T"	""	""	"ENST00000282020"	""	110	"79"	31	65	"65"	0	"GRID2,intron_variant,,ENST00000282020,NM_001510.2;GRID2,intron_variant,,ENST00000510992,NM_001286838.1;GRID2,intron_variant,,ENST00000505687,;"	"T"	"ENSG00000152208"	"ENST00000282020"	"Transcript"	"intron_variant"	"-/5340"	"-/3024"	"-/1007"	""	""	""	"1"	NA	1	"GRID2"	"HGNC"	4576	"protein_coding"	"YES"	"CCDS3637.1"	"ENSP00000282020"	"O43424"	"Q4W5S4,Q4W5L9,Q4W5F4,Q4W5B7,D6R976"	"UPI00001AEA78"	"NM_001510.2"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"c380dd62-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.281818181818182	"WGS"	FALSE
"11698"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	95643012	95643012	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"50"	16	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c381c510-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242424242424242	"WGS"	FALSE
"11699"	"RNU6-1059P"	0	"mskcc.org"	"GRCh37"	"4"	96785380	96785380	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000363752"	""	91	"60"	31	54	"54"	0	"RNU6-1059P,downstream_gene_variant,,ENST00000363752,;"	"T"	"ENSG00000200622"	"ENST00000363752"	"Transcript"	"downstream_gene_variant"	"-/98"	""	""	""	""	""	"1"	"4438"	-1	"RNU6-1059P"	"HGNC"	48022	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c381eebe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340659340659341	"WGS"	FALSE
"11700"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	97985067	97985067	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"70"	20	67	"67"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c3820944-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"11701"	"STPG2"	285555	"mskcc.org"	"GRCh37"	"4"	98492589	98492589	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1321-12321G>C"	""	""	"ENST00000295268"	""	98	"63"	35	55	"55"	0	"STPG2,intron_variant,,ENST00000522676,;STPG2,intron_variant,,ENST00000295268,NM_174952.2;RP11-681L8.1,intron_variant,,ENST00000518105,;RP11-681L8.1,intron_variant,,ENST00000521680,;STPG2,intron_variant,,ENST00000506482,;"	"G"	"ENSG00000163116"	"ENST00000295268"	"Transcript"	"intron_variant"	"-/1652"	"-/1380"	"-/459"	""	""	""	"1"	NA	-1	"STPG2"	"HGNC"	28712	"protein_coding"	"YES"	"CCDS3645.1"	"ENSP00000295268"	"Q8N412"	""	"UPI00000734EC"	"NM_174952.2"	""	""	""	"10/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c382161e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WGS"	FALSE
"11702"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	99720994	99720994	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"74"	18	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c38243be-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195652173913043	"WGS"	FALSE
"11703"	"EMCN"	51705	"mskcc.org"	"GRCh37"	"4"	101727241	101727241	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.282+9884G>T"	""	""	"ENST00000510657"	""	79	"63"	16	48	"48"	0	"EMCN,intron_variant,,ENST00000510657,;"	"A"	"ENSG00000164035"	"ENST00000510657"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/571"	""	""	""	""	""	"1"	NA	-1	"EMCN"	"HGNC"	16041	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c38295d0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.20253164556962	"WGS"	FALSE
"11704"	"PPP3CA"	5530	"mskcc.org"	"GRCh37"	"4"	102203398	102203398	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.58+64498T>A"	""	""	"ENST00000394854"	""	82	"57"	25	54	"54"	0	"PPP3CA,intron_variant,,ENST00000394854,NM_000944.4;PPP3CA,intron_variant,,ENST00000323055,NM_001130692.1;PPP3CA,intron_variant,,ENST00000512215,;PPP3CA,intron_variant,,ENST00000394853,NM_001130691.1;PPP3CA,intron_variant,,ENST00000507176,;PPP3CA,intron_variant,,ENST00000523694,;PPP3CA,intron_variant,,ENST00000529324,;PPP3CA,intron_variant,,ENST00000525819,;"	"T"	"ENSG00000138814"	"ENST00000394854"	"Transcript"	"intron_variant"	"-/4685"	"-/1566"	"-/521"	""	""	""	"1"	NA	-1	"PPP3CA"	"HGNC"	9314	"protein_coding"	"YES"	"CCDS34037.1"	"ENSP00000378323"	"Q08209"	"Q9UMM5,Q9UMB2,E9PPC8,E9PK68,E7ETC2"	"UPI0000110660"	"NM_000944.4"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c382ab2e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304878048780488	"WGS"	FALSE
"11705"	"BANK1"	55024	"mskcc.org"	"GRCh37"	"4"	102627923	102627923	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-45-14598C>A"	""	""	"ENST00000504592"	""	92	"86"	6	72	"72"	0	"BANK1,intron_variant,,ENST00000504592,;"	"A"	"ENSG00000153064"	"ENST00000504592"	"Transcript"	"intron_variant"	"-/3544"	"-/2313"	"-/770"	""	""	""	"1"	NA	1	"BANK1"	"HGNC"	18233	"protein_coding"	""	""	"ENSP00000421443"	"Q8NDB2"	""	"UPI000020B24F"	""	""	""	""	"4/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"c382c3b6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"11706"	"RP11-328K4.1"	101929448	"mskcc.org"	"GRCh37"	"4"	104220688	104220688	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.136+43237G>T"	""	""	"ENST00000513793"	""	85	"63"	22	56	"56"	0	"RP11-328K4.1,intron_variant,,ENST00000513793,;"	"T"	"ENSG00000248740"	"ENST00000513793"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/438"	""	""	""	""	""	"1"	NA	1	"RP11-328K4.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c3830c4a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258823529411765	"WGS"	FALSE
"11707"	"RP11-328K4.1"	101929448	"mskcc.org"	"GRCh37"	"4"	104333741	104333741	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.174-24351G>T"	""	""	"ENST00000508099"	""	87	"58"	29	47	"47"	0	"RP11-328K4.1,intron_variant,,ENST00000508099,;RP11-328K4.1,intron_variant,,ENST00000513793,;"	"T"	"ENSG00000248740"	"ENST00000508099"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/527"	""	""	""	""	""	"1"	NA	1	"RP11-328K4.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c3830ede-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"11708"	"GIMD1"	0	"mskcc.org"	"GRCh37"	"4"	107287716	107287716	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs777115422"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.160+484G>A"	""	""	"ENST00000507153"	""	71	"49"	22	57	"57"	0	"GIMD1,intron_variant,,ENST00000507153,;"	"T"	"ENSG00000250298"	"ENST00000507153"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/206"	""	""	""	""	"rs777115422"	"1"	NA	-1	"GIMD1"	"HGNC"	44141	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c3837da6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309859154929577	"WGS"	FALSE
"11709"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	107632811	107632811	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"89"	6	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c3838800-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0631578947368421	"WGS"	FALSE
"11710"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	107681307	107681307	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"103"	6	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c38388dc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.055045871559633	"WGS"	FALSE
"11711"	"PAPSS1"	9061	"mskcc.org"	"GRCh37"	"4"	108640800	108640800	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.60+476G>T"	""	""	"ENST00000265174"	""	77	"56"	21	61	"61"	0	"PAPSS1,intron_variant,,ENST00000265174,NM_005443.4;PAPSS1,intron_variant,,ENST00000511304,;PAPSS1,intron_variant,,ENST00000502431,;PAPSS1,intron_variant,,ENST00000514489,;PAPSS1,intron_variant,,ENST00000504987,;PAPSS1,intron_variant,,ENST00000512641,;"	"A"	"ENSG00000138801"	"ENST00000265174"	"Transcript"	"intron_variant"	"-/2731"	"-/1875"	"-/624"	""	""	""	"1"	NA	-1	"PAPSS1"	"HGNC"	8603	"protein_coding"	"YES"	"CCDS3676.1"	"ENSP00000265174"	"O43252"	"Q6IAX6,Q4W5H3,Q4W5F0"	"UPI0000132102"	"NM_005443.4"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c383abfa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"11712"	"PAPSS1"	9061	"mskcc.org"	"GRCh37"	"4"	108640801	108640801	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.60+475G>A"	""	""	"ENST00000265174"	""	77	"56"	21	58	"58"	0	"PAPSS1,intron_variant,,ENST00000265174,NM_005443.4;PAPSS1,intron_variant,,ENST00000511304,;PAPSS1,intron_variant,,ENST00000502431,;PAPSS1,intron_variant,,ENST00000514489,;PAPSS1,intron_variant,,ENST00000504987,;PAPSS1,intron_variant,,ENST00000512641,;"	"T"	"ENSG00000138801"	"ENST00000265174"	"Transcript"	"intron_variant"	"-/2731"	"-/1875"	"-/624"	""	""	""	"1"	NA	-1	"PAPSS1"	"HGNC"	8603	"protein_coding"	"YES"	"CCDS3676.1"	"ENSP00000265174"	"O43252"	"Q6IAX6,Q4W5H3,Q4W5F0"	"UPI0000132102"	"NM_005443.4"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c383acd6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"11713"	"CCDC109B"	55013	"mskcc.org"	"GRCh37"	"4"	110539150	110539150	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.100-41017G>A"	""	""	"ENST00000394650"	""	85	"64"	21	49	"49"	0	"CCDC109B,intron_variant,,ENST00000394650,NM_017918.4;CCDC109B,intron_variant,,ENST00000452915,;CCDC109B,intron_variant,,ENST00000515114,;CCDC109B,intron_variant,,ENST00000472310,;"	"A"	"ENSG00000005059"	"ENST00000394650"	"Transcript"	"intron_variant"	"-/2270"	"-/1011"	"-/336"	""	""	""	"1"	NA	1	"CCDC109B"	"HGNC"	26076	"protein_coding"	"YES"	"CCDS3683.2"	"ENSP00000378145"	"Q9NWR8"	""	"UPI000037446B"	"NM_017918.4"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c3840b90-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247058823529412	"WGS"	FALSE
"11714"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	112153301	112153301	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"64"	27	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c3845f00-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296703296703297	"WGS"	FALSE
"11715"	"ALPK1"	80216	"mskcc.org"	"GRCh37"	"4"	113296177	113296177	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-100-2657C>A"	""	""	"ENST00000458497"	""	80	"61"	19	57	"57"	0	"ALPK1,intron_variant,,ENST00000458497,NM_001102406.1,NM_025144.3;ALPK1,intron_variant,,ENST00000177648,;ALPK1,intron_variant,,ENST00000504176,NM_001253884.1;ALPK1,intron_variant,,ENST00000509722,;ALPK1,intron_variant,,ENST00000509688,;ALPK1,intron_variant,,ENST00000505127,;ALPK1,intron_variant,,ENST00000515330,;ALPK1,intron_variant,,ENST00000515106,;"	"A"	"ENSG00000073331"	"ENST00000458497"	"Transcript"	"intron_variant"	"-/5410"	"-/3735"	"-/1244"	""	""	""	"1"	NA	1	"ALPK1"	"HGNC"	20917	"protein_coding"	"YES"	"CCDS3697.1"	"ENSP00000398048"	"Q96QP1"	""	"UPI000045725F"	"NM_001102406.1,NM_025144.3"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c3849452-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2375	"WGS"	FALSE
"11716"	"ALPK1"	80216	"mskcc.org"	"GRCh37"	"4"	113296178	113296178	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-100-2656A>T"	""	""	"ENST00000458497"	""	81	"62"	19	59	"59"	0	"ALPK1,intron_variant,,ENST00000458497,NM_001102406.1,NM_025144.3;ALPK1,intron_variant,,ENST00000177648,;ALPK1,intron_variant,,ENST00000504176,NM_001253884.1;ALPK1,intron_variant,,ENST00000509722,;ALPK1,intron_variant,,ENST00000509688,;ALPK1,intron_variant,,ENST00000505127,;ALPK1,intron_variant,,ENST00000515330,;ALPK1,intron_variant,,ENST00000515106,;"	"T"	"ENSG00000073331"	"ENST00000458497"	"Transcript"	"intron_variant"	"-/5410"	"-/3735"	"-/1244"	""	""	""	"1"	NA	1	"ALPK1"	"HGNC"	20917	"protein_coding"	"YES"	"CCDS3697.1"	"ENSP00000398048"	"Q96QP1"	""	"UPI000045725F"	"NM_001102406.1,NM_025144.3"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c384952e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234567901234568	"WGS"	FALSE
"11717"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	116446473	116446473	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs147104627"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"54"	21	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs147104627"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0048"	"T:0.0144"	"T:0.0029"	NA	"T:0.003"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c3851698-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"11718"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	117495139	117495139	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"80"	21	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c3853a4c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207920792079208	"WGS"	FALSE
"11719"	"AC092661.1"	0	"mskcc.org"	"GRCh37"	"4"	118603358	118603358	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.264-6733G>C"	""	""	"ENST00000422145"	""	83	"67"	16	56	"56"	0	"AC092661.1,intron_variant,,ENST00000422145,;AC092661.1,intron_variant,,ENST00000600624,;"	"C"	"ENSG00000236922"	"ENST00000422145"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2516"	""	""	""	""	""	"1"	NA	1	"AC092661.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c38561b6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192771084337349	"WGS"	FALSE
"11720"	"RP11-236P13.1"	101927007	"mskcc.org"	"GRCh37"	"4"	120719834	120719834	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000512219"	""	103	"62"	41	61	"61"	0	"RP11-236P13.1,downstream_gene_variant,,ENST00000512219,;RP11-236P13.1,downstream_gene_variant,,ENST00000503266,;"	"A"	"ENSG00000250772"	"ENST00000512219"	"Transcript"	"downstream_gene_variant"	"-/637"	""	""	""	""	""	"1"	"417"	-1	"RP11-236P13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c385bb02-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.398058252427184	"WGS"	FALSE
"11721"	"RP11-501E14.1"	0	"mskcc.org"	"GRCh37"	"4"	121559612	121559612	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000506100"	""	68	"54"	14	39	"39"	0	"RP11-501E14.1,upstream_gene_variant,,ENST00000506100,;RP11-501E14.1,upstream_gene_variant,,ENST00000505556,;"	"A"	"ENSG00000249409"	"ENST00000506100"	"Transcript"	"upstream_gene_variant"	"-/544"	""	""	""	""	""	"1"	"633"	1	"RP11-501E14.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c385d722-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205882352941176	"WGS"	FALSE
"11722"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	122202775	122202775	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"68"	33	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c385f842-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326732673267327	"WGS"	FALSE
"11723"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	126074275	126074275	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"70"	29	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c3869388-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292929292929293	"WGS"	FALSE
"11724"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	127213775	127213775	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"64"	31	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c386b12e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326315789473684	"WGS"	FALSE
"11725"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	127421666	127421666	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"55"	28	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c386bb2e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337349397590361	"WGS"	FALSE
"11726"	"RP11-422J15.1"	0	"mskcc.org"	"GRCh37"	"4"	130719514	130719514	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.120-4633C>A"	""	""	"ENST00000513875"	""	66	"50"	16	51	"51"	0	"RP11-422J15.1,intron_variant,,ENST00000513875,;RP11-422J15.1,intron_variant,,ENST00000514892,;"	"A"	"ENSG00000249618"	"ENST00000513875"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1777"	""	""	""	""	""	"1"	NA	1	"RP11-422J15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c38749a4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242424242424242	"WGS"	FALSE
"11727"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	132474400	132474400	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"67"	7	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c3878842-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	FALSE
"11728"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	132816763	132816763	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	64	"50"	14	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c3880cc2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WGS"	FALSE
"11729"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	133494414	133494414	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"58"	35	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c3882a86-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.376344086021505	"WGS"	FALSE
"11730"	"RP11-149A7.2"	0	"mskcc.org"	"GRCh37"	"4"	133595914	133595914	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs755149325"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.428-3664C>T"	""	""	"ENST00000513270"	""	87	"75"	12	62	"62"	0	"RP11-149A7.2,intron_variant,,ENST00000513270,;"	"T"	"ENSG00000251398"	"ENST00000513270"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/508"	""	""	""	""	"rs755149325"	"1"	NA	1	"RP11-149A7.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c3882fd6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WGS"	FALSE
"11731"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	133745264	133745264	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"74"	29	67	"67"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c3883274-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.281553398058252	"WGS"	FALSE
"11732"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	134531164	134531164	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"72"	31	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c3884872-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.300970873786408	"WGS"	FALSE
"11733"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	134767899	134767899	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"59"	29	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c3884b06-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329545454545455	"WGS"	FALSE
"11734"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	136622688	136622688	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"rs773356365"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"61"	38	62	"62"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs773356365"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c388916a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.383838383838384	"WGS"	FALSE
"11735"	"LINC00613"	100507528	"mskcc.org"	"GRCh37"	"4"	136826605	136826605	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.59+8172A>T"	""	""	"ENST00000508714"	""	74	"50"	24	61	"61"	0	"LINC00613,intron_variant,,ENST00000508714,;"	"A"	"ENSG00000248330"	"ENST00000508714"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/323"	""	""	""	""	""	"1"	NA	-1	"LINC00613"	"HGNC"	44060	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c38895ca-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324324324324324	"WGS"	FALSE
"11736"	"RP11-775H9.2"	0	"mskcc.org"	"GRCh37"	"4"	137251528	137251528	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.321+64778T>G"	""	""	"ENST00000500324"	""	86	"60"	26	63	"63"	0	"RP11-775H9.2,intron_variant,,ENST00000500324,;"	"C"	"ENSG00000251567"	"ENST00000500324"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/525"	""	""	""	""	""	"1"	NA	-1	"RP11-775H9.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c388a15a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302325581395349	"WGS"	FALSE
"11737"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	139630304	139630304	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"39"	23	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c388f358-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.370967741935484	"WGS"	FALSE
"11738"	"RN7SL311P"	0	"mskcc.org"	"GRCh37"	"4"	140108299	140108299	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000579858"	""	87	"80"	7	40	"40"	0	"RN7SL311P,downstream_gene_variant,,ENST00000579858,;"	"C"	"ENSG00000265892"	"ENST00000579858"	"Transcript"	"downstream_gene_variant"	"-/303"	""	""	""	""	""	"1"	"1402"	1	"RN7SL311P"	"HGNC"	46327	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c38923e6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"11739"	"MAML3"	55534	"mskcc.org"	"GRCh37"	"4"	140909241	140909241	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.469-97120A>T"	""	""	"ENST00000509479"	""	86	"78"	8	46	"46"	0	"MAML3,intron_variant,,ENST00000509479,NM_018717.4;MAML3,intron_variant,,ENST00000502696,;"	"A"	"ENSG00000196782"	"ENST00000509479"	"Transcript"	"intron_variant"	"-/6844"	"-/3417"	"-/1138"	""	""	""	"1"	NA	-1	"MAML3"	"HGNC"	16272	"protein_coding"	"YES"	"CCDS54805.1"	"ENSP00000421180"	"Q96JK9"	"Q9NPV6,E7EVW8"	"UPI00001C1E1E"	"NM_018717.4"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c3895870-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"11740"	"USP38"	84640	"mskcc.org"	"GRCh37"	"4"	144106200	144106200	"+"	"5'UTR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-404C>G"	""	""	"ENST00000307017"	"1/10"	96	"74"	22	46	"46"	0	"USP38,5_prime_UTR_variant,,ENST00000307017,NM_032557.5;USP38,5_prime_UTR_variant,,ENST00000510377,;RP11-284M14.1,upstream_gene_variant,,ENST00000507486,;RP11-284M14.1,upstream_gene_variant,,ENST00000507826,;USP38,upstream_gene_variant,,ENST00000511739,;"	"G"	"ENSG00000170185"	"ENST00000307017"	"Transcript"	"5_prime_UTR_variant"	"103/7009"	"-/3129"	"-/1042"	""	""	""	"1"	NA	1	"USP38"	"HGNC"	20067	"protein_coding"	"YES"	"CCDS3758.1"	"ENSP00000303434"	"Q8NB14"	"B3KSB9"	"UPI0000047AF9"	"NM_032557.5"	""	""	"1/10"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c389c256-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229166666666667	"WGS"	FALSE
"11741"	"SMARCA5"	8467	"mskcc.org"	"GRCh37"	"4"	144438567	144438567	"+"	"Silent"	"SNP"	"C"	"T"	"T"	"rs753445235"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.237C>T"	"p.="	"p.T79T"	"ENST00000283131"	"2/24"	107	"75"	32	61	"61"	0	"SMARCA5,synonymous_variant,p.=,ENST00000283131,NM_003601.3;SMARCA5-AS1,upstream_gene_variant,,ENST00000500800,;"	"T"	"ENSG00000153147"	"ENST00000283131"	"Transcript"	"synonymous_variant"	"699/7923"	"237/3159"	"79/1052"	"T"	"acC/acT"	"rs753445235"	"1"	NA	1	"SMARCA5"	"HGNC"	11101	"protein_coding"	"YES"	"CCDS3761.1"	"ENSP00000283131"	"O60264"	"Q4W5H1,Q4W5G3"	"UPI000006E693"	"NM_003601.3"	""	""	"2/24"	""	"Pfam_domain:PF13892,hmmpanther:PTHR10799,hmmpanther:PTHR10799:SF575"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	"4.709e-05"	"0"	"0"	"0"	"0"	"0.000117"	"0"	"0"	"1"	"PASS"	"CCT"	"c389ccc4-0958-11e6-b1a0-c2d8dff80e40"	"."	5.686e-05	"5/87932"	"5/106186"	"0/7302"	"0/9654"	"0/7440"	"0/5826"	"5/42742"	"0/570"	"0/14398"	"PASS"	"FALSE"	0.299065420560748	"WGS"	FALSE
"11742"	"C4orf51"	646603	"mskcc.org"	"GRCh37"	"4"	146614930	146614930	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"rs113149723"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.234-2781T>A"	""	""	"ENST00000438731"	""	33	"27"	6	16	"16"	0	"C4orf51,intron_variant,,ENST00000438731,NM_001080531.1;C4orf51,intron_variant,,ENST00000511965,;"	"A"	"ENSG00000237136"	"ENST00000438731"	"Transcript"	"intron_variant"	"-/846"	"-/609"	"-/202"	""	""	"rs113149723"	"1"	NA	1	"C4orf51"	"HGNC"	37264	"protein_coding"	"YES"	"CCDS47140.1"	"ENSP00000391404"	"C9J302"	""	"UPI0000DD7C19"	"NM_001080531.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c38a5c70-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"11743"	"RP11-203B7.1"	0	"mskcc.org"	"GRCh37"	"4"	147017254	147017254	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"rs372169076"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.57-2134G>T"	""	""	"ENST00000503593"	""	86	"66"	20	49	"49"	0	"RP11-203B7.1,intron_variant,,ENST00000503593,;"	"A"	"ENSG00000251024"	"ENST00000503593"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/522"	""	""	""	""	"rs372169076"	"1"	NA	-1	"RP11-203B7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c38a7764-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232558139534884	"WGS"	FALSE
"11744"	"TTC29"	83894	"mskcc.org"	"GRCh37"	"4"	147811194	147811194	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.586+13502T>G"	""	""	"ENST00000325106"	""	70	"51"	19	55	"55"	0	"TTC29,intron_variant,,ENST00000513335,;TTC29,intron_variant,,ENST00000325106,NM_031956.2;TTC29,intron_variant,,ENST00000504425,;TTC29,intron_variant,,ENST00000398886,;TTC29,intron_variant,,ENST00000508306,;"	"C"	"ENSG00000137473"	"ENST00000325106"	"Transcript"	"intron_variant"	"-/1785"	"-/1428"	"-/475"	""	""	""	"1"	NA	-1	"TTC29"	"HGNC"	29936	"protein_coding"	"YES"	"CCDS47141.1"	"ENSP00000316740"	"Q8NA56"	"D6RJF6"	"UPI00001AE7CF"	"NM_031956.2"	""	""	""	"6/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c38a9d7a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271428571428571	"WGS"	FALSE
"11745"	"LRBA"	987	"mskcc.org"	"GRCh37"	"4"	151759846	151759846	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4569+5406T>A"	""	""	"ENST00000357115"	""	109	"74"	35	61	"60"	1	"LRBA,intron_variant,,ENST00000535741,;LRBA,intron_variant,,ENST00000510413,NM_001199282.2;LRBA,intron_variant,,ENST00000357115,NM_006726.4;LRBA,intron_variant,,ENST00000507224,;LRBA,intron_variant,,ENST00000509835,;LRBA,downstream_gene_variant,,ENST00000502839,;"	"T"	"ENSG00000198589"	"ENST00000357115"	"Transcript"	"intron_variant"	"-/9899"	"-/8592"	"-/2863"	""	""	""	"1"	NA	-1	"LRBA"	"HGNC"	1742	"protein_coding"	"YES"	"CCDS3773.1"	"ENSP00000349629"	"P50851"	"Q7KZN3"	"UPI000013E35C"	"NM_006726.4"	""	""	""	"28/57"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAA"	"c38b27f4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.321100917431193	"WGS"	FALSE
"11746"	"FAM160A1"	729830	"mskcc.org"	"GRCh37"	"4"	152575658	152575658	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2552-1726C>A"	""	""	"ENST00000435205"	""	90	"62"	28	64	"64"	0	"FAM160A1,intron_variant,,ENST00000435205,NM_001109977.1;FAM160A1,intron_variant,,ENST00000505231,;"	"A"	"ENSG00000164142"	"ENST00000435205"	"Transcript"	"intron_variant"	"-/4576"	"-/3123"	"-/1040"	""	""	""	"1"	NA	1	"FAM160A1"	"HGNC"	34237	"protein_coding"	"YES"	"CCDS47146.1"	"ENSP00000413196"	"Q05DH4"	"D6RF38,D6RBF5,D6RAG2"	"UPI00015DE720"	"NM_001109977.1"	""	""	""	"11/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c38b6a8e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311111111111111	"WGS"	FALSE
"11747"	"DCHS2"	54798	"mskcc.org"	"GRCh37"	"4"	155176118	155176118	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5576+553G>A"	""	""	"ENST00000357232"	""	102	"74"	28	68	"67"	1	"DCHS2,intron_variant,,ENST00000357232,NM_017639.3;"	"T"	"ENSG00000197410"	"ENST00000357232"	"Transcript"	"intron_variant"	"-/11040"	"-/8751"	"-/2916"	""	""	""	"1"	NA	-1	"DCHS2"	"HGNC"	23111	"protein_coding"	"YES"	"CCDS3785.1"	"ENSP00000349768"	"Q6V1P9"	"B3KT73"	"UPI000035B018"	"NM_017639.3"	""	""	""	"21/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c38bebbc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274509803921569	"WGS"	FALSE
"11748"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	156985981	156985981	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"66"	24	75	"75"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"c38c2c94-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"11749"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	157463545	157463545	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"70"	23	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c38c3a90-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247311827956989	"WGS"	FALSE
"11750"	"MARCH1"	55016	"mskcc.org"	"GRCh37"	"4"	164621532	164621532	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs561088952"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.162+433G>A"	""	""	"ENST00000503008"	""	78	"51"	27	37	"37"	0	"MARCH1,intron_variant,,ENST00000503008,NM_001166373.1;MARCH1,intron_variant,,ENST00000274056,;MARCH1,intron_variant,,ENST00000514618,;MARCH1,intron_variant,,ENST00000507270,;MARCH1,downstream_gene_variant,,ENST00000503104,;MARCH1,intron_variant,,ENST00000510696,;"	"T"	"ENSG00000145416"	"ENST00000503008"	"Transcript"	"intron_variant"	"-/5877"	"-/870"	"-/289"	""	""	"rs561088952"	"1"	NA	-1	"MARCH1"	"HGNC"	26077	"protein_coding"	"YES"	"CCDS54814.1"	"ENSP00000427223"	"Q8TCQ1"	"D6REN1"	"UPI0000037BB3"	"NM_001166373.1"	""	""	""	"4/7"	""	"T:0.0004"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.002"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c38d5272-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"11751"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	167094905	167094905	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"75"	23	65	"65"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c38dd59e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23469387755102	"WGS"	FALSE
"11752"	"SPOCK3"	50859	"mskcc.org"	"GRCh37"	"4"	167774532	167774532	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs142998934"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.598+35749G>A"	""	""	"ENST00000357154"	""	88	"58"	30	58	"58"	0	"SPOCK3,intron_variant,,ENST00000357154,NM_016950.2;SPOCK3,intron_variant,,ENST00000506886,;SPOCK3,intron_variant,,ENST00000357545,NM_001204354.1,NM_001204352.1,NM_001040159.1;SPOCK3,intron_variant,,ENST00000511531,;SPOCK3,intron_variant,,ENST00000504953,;SPOCK3,intron_variant,,ENST00000502330,;SPOCK3,intron_variant,,ENST00000510741,NM_001204356.1;SPOCK3,intron_variant,,ENST00000511269,;SPOCK3,intron_variant,,ENST00000421836,;SPOCK3,intron_variant,,ENST00000541354,NM_001204353.1;SPOCK3,intron_variant,,ENST00000512681,NM_001251967.1;SPOCK3,intron_variant,,ENST00000512648,NM_001204358.1;SPOCK3,intron_variant,,ENST00000535728,;SPOCK3,intron_variant,,ENST00000534949,NM_001204355.1;SPOCK3,intron_variant,,ENST00000541637,;SPOCK3,intron_variant,,ENST00000510403,;SPOCK3,intron_variant,,ENST00000507137,;SPOCK3,intron_variant,,ENST00000502821,;SPOCK3,intron_variant,,ENST00000511905,;SPOCK3,intron_variant,,ENST00000505187,;SPOCK3,intron_variant,,ENST00000507370,;SPOCK3,intron_variant,,ENST00000511226,;SPOCK3,intron_variant,,ENST00000515143,;"	"T"	"ENSG00000196104"	"ENST00000357154"	"Transcript"	"intron_variant"	"-/2986"	"-/1311"	"-/436"	""	""	"rs142998934"	"1"	NA	-1	"SPOCK3"	"HGNC"	13565	"protein_coding"	"YES"	"CCDS54817.1"	"ENSP00000349677"	"Q9BQ16"	"Q4W5S3,Q4W5E2,E7EMP8"	"UPI000004BA60"	"NM_016950.2"	""	""	""	"7/11"	""	"T:0.0044"	"T:0.0159"	"T:0.0014"	NA	"T:0"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c38dec3c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340909090909091	"WGS"	FALSE
"11753"	"DDX60"	55601	"mskcc.org"	"GRCh37"	"4"	169168371	169168371	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3964-602G>A"	""	""	"ENST00000393743"	""	113	"77"	36	47	"47"	0	"DDX60,intron_variant,,ENST00000393743,NM_017631.5;"	"T"	"ENSG00000137628"	"ENST00000393743"	"Transcript"	"intron_variant"	"-/6071"	"-/5139"	"-/1712"	""	""	""	"1"	NA	-1	"DDX60"	"HGNC"	25942	"protein_coding"	"YES"	"CCDS34097.1"	"ENSP00000377344"	"Q8IY21"	"Q9NXV7,Q9H616,Q6B0F7,D6R944"	"UPI000020B6AB"	"NM_017631.5"	""	""	""	"29/37"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c38e23dc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.31858407079646	"WGS"	FALSE
"11754"	"NEK1"	4750	"mskcc.org"	"GRCh37"	"4"	170487788	170487788	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1021-4441C>T"	""	""	"ENST00000507142"	""	83	"69"	14	58	"58"	0	"NEK1,intron_variant,,ENST00000439128,NM_012224.2;NEK1,intron_variant,,ENST00000507142,NM_001199397.1;NEK1,intron_variant,,ENST00000511633,NM_001199398.1;NEK1,intron_variant,,ENST00000510533,NM_001199400.1;NEK1,intron_variant,,ENST00000512193,NM_001199399.1;NEK1,intron_variant,,ENST00000509912,;"	"A"	"ENSG00000137601"	"ENST00000507142"	"Transcript"	"intron_variant"	"-/5556"	"-/3861"	"-/1286"	""	""	""	"1"	NA	-1	"NEK1"	"HGNC"	7744	"protein_coding"	"YES"	"CCDS56351.1"	"ENSP00000424757"	"Q96PY6"	"Q5JXL9"	"UPI00001D76CA"	"NM_001199397.1"	""	""	""	"12/35"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"c38e6f40-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168674698795181	"WGS"	FALSE
"11755"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	172042451	172042451	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"81"	25	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c38eaaaa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235849056603774	"WGS"	FALSE
"11756"	"GALNTL6"	442117	"mskcc.org"	"GRCh37"	"4"	173707190	173707190	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.554-23322T>C"	""	""	"ENST00000506823"	""	84	"62"	22	54	"54"	0	"GALNTL6,intron_variant,,ENST00000506823,NM_001034845.2;GALNTL6,intron_variant,,ENST00000508122,;"	"C"	"ENSG00000174473"	"ENST00000506823"	"Transcript"	"intron_variant"	"-/3922"	"-/1806"	"-/601"	""	""	""	"1"	NA	1	"GALNTL6"	"HGNC"	33844	"protein_coding"	"YES"	"CCDS34104.1"	"ENSP00000423313"	"Q49A17"	"E5D8G0"	"UPI000058EB5C"	"NM_001034845.2"	""	""	""	"5/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c38ee006-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261904761904762	"WGS"	FALSE
"11757"	"ADAM29"	11086	"mskcc.org"	"GRCh37"	"4"	175840542	175840542	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-557+920T>A"	""	""	"ENST00000359240"	""	87	"65"	22	71	"71"	0	"ADAM29,intron_variant,,ENST00000359240,NM_014269.4,NM_001278126.1,NM_001278125.1;ADAM29,intron_variant,,ENST00000445694,NM_001130703.1,NM_001278127.1;ADAM29,intron_variant,,ENST00000404450,NM_001130704.1;ADAM29,intron_variant,,ENST00000514159,NM_001130705.1;ADAM29,intron_variant,,ENST00000502305,;ADAM29,intron_variant,,ENST00000505141,;ADAM29,intron_variant,,ENST00000502940,;ADAM29,intron_variant,,ENST00000510280,;ADAM29,intron_variant,,ENST00000515538,;ADAM29,intron_variant,,ENST00000507969,;ADAM29,intron_variant,,ENST00000513477,;RP13-577H12.3,downstream_gene_variant,,ENST00000511798,;"	"A"	"ENSG00000168594"	"ENST00000359240"	"Transcript"	"intron_variant"	"-/3325"	"-/2463"	"-/820"	""	""	""	"1"	NA	1	"ADAM29"	"HGNC"	207	"protein_coding"	"YES"	"CCDS3823.1"	"ENSP00000352177"	"Q9UKF5"	"D6RHU0,D6RBU0"	"UPI000013E9DE"	"NM_014269.4,NM_001278126.1,NM_001278125.1"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c38f3dbc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252873563218391	"WGS"	FALSE
"11758"	"ENSR00001761453"	0	"mskcc.org"	"GRCh37"	"4"	175976586	175976586	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001761453"	""	111	"86"	25	60	"60"	0	""	"T"	""	"ENSR00001761453"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c38f47a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225225225225225	"WGS"	FALSE
"11759"	"GPM6A"	2823	"mskcc.org"	"GRCh37"	"4"	176677016	176677016	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.38-54098G>C"	""	""	"ENST00000280187"	""	96	"63"	33	54	"54"	0	"GPM6A,intron_variant,,ENST00000280187,NM_005277.4;GPM6A,intron_variant,,ENST00000393658,NM_201591.2;GPM6A,intron_variant,,ENST00000506894,NM_201592.2;GPM6A,intron_variant,,ENST00000515090,NM_001261448.1;GPM6A,intron_variant,,ENST00000503397,;GPM6A,intron_variant,,ENST00000513365,;GPM6A,intron_variant,,ENST00000505561,;GPM6A,intron_variant,,ENST00000502754,;GPM6A,intron_variant,,ENST00000512897,;GPM6A,intron_variant,,ENST00000512610,;GPM6A,intron_variant,,ENST00000513667,;GPM6A,intron_variant,,ENST00000507540,;GPM6A,intron_variant,,ENST00000507520,;GPM6A,intron_variant,,ENST00000512509,;GPM6A,intron_variant,,ENST00000505375,;GPM6A,intron_variant,,ENST00000509865,;GPM6A,intron_variant,,ENST00000505304,;"	"G"	"ENSG00000150625"	"ENST00000280187"	"Transcript"	"intron_variant"	"-/2854"	"-/837"	"-/278"	""	""	""	"1"	NA	-1	"GPM6A"	"HGNC"	4460	"protein_coding"	"YES"	"CCDS3824.1"	"ENSP00000280187"	"P51674"	"Q49AH3,D6RIF4,D6RFZ3,D6RFY0,D6REJ8,D6RD95,D6RBM6,D6RBH3,D6RAE4,D6R9T7"	"UPI000012EAE1"	"NM_005277.4"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c38f668e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34375	"WGS"	FALSE
"11760"	"GPM6A"	2823	"mskcc.org"	"GRCh37"	"4"	176677018	176677018	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.38-54100T>A"	""	""	"ENST00000280187"	""	97	"64"	33	52	"52"	0	"GPM6A,intron_variant,,ENST00000280187,NM_005277.4;GPM6A,intron_variant,,ENST00000393658,NM_201591.2;GPM6A,intron_variant,,ENST00000506894,NM_201592.2;GPM6A,intron_variant,,ENST00000515090,NM_001261448.1;GPM6A,intron_variant,,ENST00000503397,;GPM6A,intron_variant,,ENST00000513365,;GPM6A,intron_variant,,ENST00000505561,;GPM6A,intron_variant,,ENST00000502754,;GPM6A,intron_variant,,ENST00000512897,;GPM6A,intron_variant,,ENST00000512610,;GPM6A,intron_variant,,ENST00000513667,;GPM6A,intron_variant,,ENST00000507540,;GPM6A,intron_variant,,ENST00000507520,;GPM6A,intron_variant,,ENST00000512509,;GPM6A,intron_variant,,ENST00000505375,;GPM6A,intron_variant,,ENST00000509865,;GPM6A,intron_variant,,ENST00000505304,;"	"T"	"ENSG00000150625"	"ENST00000280187"	"Transcript"	"intron_variant"	"-/2854"	"-/837"	"-/278"	""	""	""	"1"	NA	-1	"GPM6A"	"HGNC"	4460	"protein_coding"	"YES"	"CCDS3824.1"	"ENSP00000280187"	"P51674"	"Q49AH3,D6RIF4,D6RFZ3,D6RFY0,D6REJ8,D6RD95,D6RBM6,D6RBH3,D6RAE4,D6R9T7"	"UPI000012EAE1"	"NM_005277.4"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c38f676a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34020618556701	"WGS"	FALSE
"11761"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	177907660	177907660	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"72"	29	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c38f9eec-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287128712871287	"WGS"	FALSE
"11762"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	179463272	179463272	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"57"	24	69	"69"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c38fd6d2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"11763"	"TRAPPC11"	60684	"mskcc.org"	"GRCh37"	"4"	184604292	184604292	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1207+314T>G"	""	""	"ENST00000334690"	""	94	"86"	8	44	"44"	0	"TRAPPC11,intron_variant,,ENST00000334690,NM_021942.5;TRAPPC11,intron_variant,,ENST00000357207,NM_199053.2;TRAPPC11,upstream_gene_variant,,ENST00000512476,;TRAPPC11,intron_variant,,ENST00000505676,;"	"G"	"ENSG00000168538"	"ENST00000334690"	"Transcript"	"intron_variant"	"-/4552"	"-/3402"	"-/1133"	""	""	""	"1"	NA	1	"TRAPPC11"	"HGNC"	25751	"protein_coding"	"YES"	"CCDS34112.1"	"ENSP00000335371"	"Q7Z392"	""	"UPI000020B774"	"NM_021942.5"	""	""	""	"11/29"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"c390f652-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"11764"	"IRF2"	3660	"mskcc.org"	"GRCh37"	"4"	185305833	185305833	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000393593"	""	102	"77"	25	55	"55"	0	"IRF2,downstream_gene_variant,,ENST00000393593,NM_002199.3;IRF2,downstream_gene_variant,,ENST00000505067,;IRF2,downstream_gene_variant,,ENST00000502750,;RP11-290F5.1,upstream_gene_variant,,ENST00000610223,;RP11-290F5.1,upstream_gene_variant,,ENST00000608785,;"	"A"	"ENSG00000168310"	"ENST00000393593"	"Transcript"	"downstream_gene_variant"	"-/2303"	"-/1050"	"-/349"	""	""	""	"1"	"3034"	-1	"IRF2"	"HGNC"	6117	"protein_coding"	"YES"	"CCDS3835.1"	"ENSP00000377218"	"P14316"	"K4DIA5,D6RB08,D6R9N5"	"UPI000012D888"	"NM_002199.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c3912406-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245098039215686	"WGS"	FALSE
"11765"	"MTNR1A"	4543	"mskcc.org"	"GRCh37"	"4"	187477653	187477653	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000307161"	""	88	"80"	8	62	"62"	0	"MTNR1A,upstream_gene_variant,,ENST00000307161,NM_005958.3;RP11-215A19.2,upstream_gene_variant,,ENST00000509111,;"	"C"	"ENSG00000168412"	"ENST00000307161"	"Transcript"	"upstream_gene_variant"	"-/1289"	"-/1053"	"-/350"	""	""	""	"1"	"932"	-1	"MTNR1A"	"HGNC"	7463	"protein_coding"	"YES"	"CCDS3848.1"	"ENSP00000302811"	"P48039"	""	"UPI0000050407"	"NM_005958.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c3922842-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"11766"	"MTNR1A"	4543	"mskcc.org"	"GRCh37"	"4"	187481160	187481160	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000307161"	""	86	"62"	24	49	"49"	0	"MTNR1A,upstream_gene_variant,,ENST00000307161,NM_005958.3;RP11-215A19.2,upstream_gene_variant,,ENST00000509111,;"	"A"	"ENSG00000168412"	"ENST00000307161"	"Transcript"	"upstream_gene_variant"	"-/1289"	"-/1053"	"-/350"	""	""	""	"1"	"4439"	-1	"MTNR1A"	"HGNC"	7463	"protein_coding"	"YES"	"CCDS3848.1"	"ENSP00000302811"	"P48039"	""	"UPI0000050407"	"NM_005958.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c3922a04-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27906976744186	"WGS"	FALSE
"11767"	"RP11-138B4.1"	339975	"mskcc.org"	"GRCh37"	"4"	188225507	188225507	"+"	"RNA"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1844G>T"	""	""	"ENST00000511385"	"4/4"	85	"76"	9	52	"52"	0	"RP11-138B4.1,non_coding_transcript_exon_variant,,ENST00000511385,;"	"A"	"ENSG00000250658"	"ENST00000511385"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1844/2114"	""	""	""	""	""	"1"	NA	-1	"RP11-138B4.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c3925e20-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105882352941176	"WGS"	FALSE
"11768"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	189036233	189036233	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"71"	30	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c392996c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297029702970297	"WGS"	FALSE
"11769"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	189137283	189137283	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	9	"5"	4	6	"6"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c392a66e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WGS"	FALSE
"11770"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	190019271	190019271	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"rs774607053"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"87"	7	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs774607053"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c393195a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"11771"	"RP11-706F1.1"	0	"mskcc.org"	"GRCh37"	"4"	190122761	190122761	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.178-3036A>T"	""	""	"ENST00000514966"	""	99	"72"	27	67	"67"	0	"RP11-706F1.1,intron_variant,,ENST00000514966,;"	"T"	"ENSG00000251310"	"ENST00000514966"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/412"	""	""	""	""	""	"1"	NA	1	"RP11-706F1.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c3932580-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"11772"	"ENSR00001438392"	0	"mskcc.org"	"GRCh37"	"4"	190566983	190566983	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001438392"	""	15	"11"	4	10	"10"	0	""	"A"	""	"ENSR00001438392"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c393850c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"11773"	"ENSR00001438392"	0	"mskcc.org"	"GRCh37"	"4"	190566985	190566985	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001438392"	""	15	"11"	4	10	"10"	0	""	"T"	""	"ENSR00001438392"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c39385e8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"11774"	"CEP72"	55722	"mskcc.org"	"GRCh37"	"5"	650901	650901	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1779-2202G>A"	""	""	"ENST00000264935"	""	19	"15"	4	11	"11"	0	"CEP72,intron_variant,,ENST00000264935,NM_018140.3;CEP72,intron_variant,,ENST00000444221,;CEP72,upstream_gene_variant,,ENST00000514507,;CEP72,upstream_gene_variant,,ENST00000499639,;CEP72,intron_variant,,ENST00000512038,;"	"A"	"ENSG00000112877"	"ENST00000264935"	"Transcript"	"intron_variant"	"-/2434"	"-/1944"	"-/647"	""	""	""	"1"	NA	1	"CEP72"	"HGNC"	25547	"protein_coding"	"YES"	"CCDS34126.1"	"ENSP00000264935"	"Q9P209"	""	"UPI0000072FB8"	"NM_018140.3"	""	""	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c395fc2e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"11775"	"CEP72"	55722	"mskcc.org"	"GRCh37"	"5"	650914	650914	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1779-2189G>A"	""	""	"ENST00000264935"	""	14	"10"	4	9	"9"	0	"CEP72,intron_variant,,ENST00000264935,NM_018140.3;CEP72,intron_variant,,ENST00000444221,;CEP72,upstream_gene_variant,,ENST00000514507,;CEP72,upstream_gene_variant,,ENST00000499639,;CEP72,intron_variant,,ENST00000512038,;"	"A"	"ENSG00000112877"	"ENST00000264935"	"Transcript"	"intron_variant"	"-/2434"	"-/1944"	"-/647"	""	""	""	"1"	NA	1	"CEP72"	"HGNC"	25547	"protein_coding"	"YES"	"CCDS34126.1"	"ENSP00000264935"	"Q9P209"	""	"UPI0000072FB8"	"NM_018140.3"	""	""	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c395fe40-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"11776"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	2082471	2082471	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	40	"35"	5	9	"9"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c3983d0e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"11777"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	3300422	3300422	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"55"	20	54	"54"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"c399016c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"11778"	"RP11-445O3.2"	0	"mskcc.org"	"GRCh37"	"5"	4479827	4479827	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.596+1978G>C"	""	""	"ENST00000507435"	""	95	"68"	27	66	"66"	0	"RP11-445O3.2,intron_variant,,ENST00000507435,;"	"G"	"ENSG00000248973"	"ENST00000507435"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/721"	""	""	""	""	""	"1"	NA	-1	"RP11-445O3.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c3999550-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284210526315789	"WGS"	FALSE
"11779"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	5541769	5541769	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"54"	35	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c399c426-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.393258426966292	"WGS"	FALSE
"11780"	"RP11-404K5.2"	0	"mskcc.org"	"GRCh37"	"5"	7301155	7301155	"+"	"RNA"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1197G>A"	""	""	"ENST00000512854"	"8/8"	70	"64"	6	26	"26"	0	"RP11-404K5.2,non_coding_transcript_exon_variant,,ENST00000512854,;RP11-404K5.1,downstream_gene_variant,,ENST00000500762,;"	"T"	"ENSG00000205976"	"ENST00000512854"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1197/2465"	""	""	""	""	""	"1"	NA	-1	"RP11-404K5.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"8/8"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c39a46b2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"11781"	"RP11-404K5.2"	0	"mskcc.org"	"GRCh37"	"5"	7305423	7305423	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs548697987"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.85-107G>A"	""	""	"ENST00000512854"	""	98	"64"	34	69	"69"	0	"RP11-404K5.2,intron_variant,,ENST00000512854,;"	"T"	"ENSG00000205976"	"ENST00000512854"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2465"	""	""	""	""	"rs548697987"	"1"	NA	-1	"RP11-404K5.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/7"	""	"T:0.0004"	"T:0"	"T:0"	NA	"T:0.001"	"T:0.001"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c39a4b4e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346938775510204	"WGS"	FALSE
"11782"	"ADCY2"	108	"mskcc.org"	"GRCh37"	"5"	7527569	7527569	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.570+6557T>A"	""	""	"ENST00000338316"	""	95	"71"	24	62	"62"	0	"ADCY2,intron_variant,,ENST00000338316,NM_020546.2;ADCY2,intron_variant,,ENST00000498598,;ADCY2,downstream_gene_variant,,ENST00000484965,;"	"A"	"ENSG00000078295"	"ENST00000338316"	"Transcript"	"intron_variant"	"-/6575"	"-/3276"	"-/1091"	""	""	""	"1"	NA	1	"ADCY2"	"HGNC"	233	"protein_coding"	"YES"	"CCDS3872.2"	"ENSP00000342952"	"Q08462"	"Q7RTV6,Q71UM8,D6REB8"	"UPI000066D9F2"	"NM_020546.2"	""	""	""	"3/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c39a5a12-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"11783"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	7974081	7974081	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"71"	26	68	"68"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c39a6f5c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268041237113402	"WGS"	FALSE
"11784"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	8141350	8141350	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"67"	21	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c39a85d2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238636363636364	"WGS"	FALSE
"11785"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	8148509	8148509	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"61"	26	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c39a87e4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298850574712644	"WGS"	FALSE
"11786"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	8710384	8710384	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"61"	34	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c39a9798-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357894736842105	"WGS"	FALSE
"11787"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	12498862	12498862	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"61"	26	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c39b5d68-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298850574712644	"WGS"	FALSE
"11788"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	13462956	13462956	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"rs112244351"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"81"	6	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112244351"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c39b7596-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"11789"	"TRIO"	7204	"mskcc.org"	"GRCh37"	"5"	14494311	14494311	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7880+1388G>T"	""	""	"ENST00000344204"	""	97	"66"	31	50	"50"	0	"TRIO,intron_variant,,ENST00000344204,NM_007118.2;TRIO,intron_variant,,ENST00000537187,;TRIO,intron_variant,,ENST00000513206,;TRIO,intron_variant,,ENST00000344135,;TRIO,intron_variant,,ENST00000512070,;TRIO,intron_variant,,ENST00000503399,;TRIO,upstream_gene_variant,,ENST00000508717,;TRIO,upstream_gene_variant,,ENST00000508343,;TRIO,upstream_gene_variant,,ENST00000508283,;"	"T"	"ENSG00000038382"	"ENST00000344204"	"Transcript"	"intron_variant"	"-/11100"	"-/9294"	"-/3097"	""	""	""	"1"	NA	1	"TRIO"	"HGNC"	12303	"protein_coding"	"YES"	"CCDS3883.1"	"ENSP00000339299"	"O75962"	""	"UPI000034ECE6"	"NM_007118.2"	""	""	""	"49/56"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"c39bac14-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319587628865979	"WGS"	FALSE
"11790"	"RP1-167G20.1"	101929505	"mskcc.org"	"GRCh37"	"5"	16386793	16386793	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1434-2340C>A"	""	""	"ENST00000513157"	""	85	"58"	27	50	"50"	0	"RP1-167G20.1,intron_variant,,ENST00000513157,;"	"T"	"ENSG00000248150"	"ENST00000513157"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2120"	""	""	""	""	""	"1"	NA	-1	"RP1-167G20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c39c04ca-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317647058823529	"WGS"	FALSE
"11791"	"BASP1"	10409	"mskcc.org"	"GRCh37"	"5"	17249666	17249666	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-9-25651C>T"	""	""	"ENST00000322611"	""	92	"71"	21	53	"53"	0	"BASP1,intron_variant,,ENST00000322611,NM_006317.4,NM_001271606.1;BASP1,intron_variant,,ENST00000606445,;"	"T"	"ENSG00000176788"	"ENST00000322611"	"Transcript"	"intron_variant"	"-/1878"	"-/684"	"-/227"	""	""	""	"1"	NA	1	"BASP1"	"HGNC"	957	"protein_coding"	"YES"	"CCDS3888.1"	"ENSP00000319281"	"P80723"	"U3KQP0"	"UPI0000140E98"	"NM_006317.4,NM_001271606.1"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c39c6a14-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228260869565217	"WGS"	FALSE
"11792"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	18327059	18327059	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"78"	6	78	"78"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c39cdc2e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"11793"	"RP11-774D14.1"	0	"mskcc.org"	"GRCh37"	"5"	20899849	20899849	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.541+4173T>A"	""	""	"ENST00000502427"	""	91	"66"	25	66	"66"	0	"RP11-774D14.1,intron_variant,,ENST00000502427,;RP11-774D14.1,intron_variant,,ENST00000512688,;"	"A"	"ENSG00000251629"	"ENST00000502427"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1687"	""	""	""	""	""	"1"	NA	1	"RP11-774D14.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c39d6ba8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274725274725275	"WGS"	FALSE
"11794"	"CDH12"	1010	"mskcc.org"	"GRCh37"	"5"	22147189	22147189	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-187+65418T>A"	""	""	"ENST00000382254"	""	99	"66"	33	85	"85"	0	"CDH12,intron_variant,,ENST00000382254,NM_004061.3;CDH12,intron_variant,,ENST00000504376,;CDH12,intron_variant,,ENST00000522262,;PMCHL1,intron_variant,,ENST00000418902,;PMCHL1,intron_variant,,ENST00000423301,;CDH12,intron_variant,,ENST00000518209,;PMCHL1,intron_variant,,ENST00000430902,;CDH12,intron_variant,,ENST00000521745,;CDH12,intron_variant,,ENST00000517378,;PMCHL1,downstream_gene_variant,,ENST00000423102,;"	"T"	"ENSG00000154162"	"ENST00000382254"	"Transcript"	"intron_variant"	"-/4164"	"-/2385"	"-/794"	""	""	""	"1"	NA	-1	"CDH12"	"HGNC"	1751	"protein_coding"	"YES"	"CCDS3890.1"	"ENSP00000371689"	"P55289"	"B3KRT0"	"UPI00000622EB"	"NM_004061.3"	""	""	""	"4/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c39dfbf4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"11795"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	23146901	23146901	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"39"	20	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c39e267e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.338983050847458	"WGS"	FALSE
"11796"	"CDH10"	1008	"mskcc.org"	"GRCh37"	"5"	24498760	24498760	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1394-132C>T"	""	""	"ENST00000264463"	""	69	"53"	16	57	"57"	0	"CDH10,intron_variant,,ENST00000264463,NM_006727.3;CDH10,intron_variant,,ENST00000502921,;CDH10,intron_variant,,ENST00000510477,;"	"A"	"ENSG00000040731"	"ENST00000264463"	"Transcript"	"intron_variant"	"-/3438"	"-/2367"	"-/788"	""	""	""	"1"	NA	-1	"CDH10"	"HGNC"	1749	"protein_coding"	"YES"	"CCDS3892.1"	"ENSP00000264463"	"Q9Y6N8"	""	"UPI0000167B7B"	"NM_006727.3"	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c39e61b6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231884057971014	"WGS"	FALSE
"11797"	"RP11-184E9.1"	0	"mskcc.org"	"GRCh37"	"5"	25206969	25206969	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.352+15827G>A"	""	""	"ENST00000502100"	""	70	"54"	16	54	"54"	0	"RP11-184E9.1,intron_variant,,ENST00000502100,;"	"A"	"ENSG00000245662"	"ENST00000502100"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/937"	""	""	""	""	""	"1"	NA	1	"RP11-184E9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c39e7a5c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228571428571429	"WGS"	FALSE
"11798"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	26076101	26076101	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"66"	22	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c39e98e8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"11799"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	26496834	26496834	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"66"	7	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c39ebd3c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"11800"	"PDZD2"	23037	"mskcc.org"	"GRCh37"	"5"	31728121	31728121	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-360-70875A>G"	""	""	"ENST00000438447"	""	81	"75"	6	42	"42"	0	"PDZD2,intron_variant,,ENST00000438447,;PDZD2,intron_variant,,ENST00000513910,;PDZD2,intron_variant,,ENST00000502824,;RP11-5N11.1,upstream_gene_variant,,ENST00000504053,;"	"G"	"ENSG00000133401"	"ENST00000438447"	"Transcript"	"intron_variant"	"-/11704"	"-/8520"	"-/2839"	""	""	""	"1"	NA	1	"PDZD2"	"HGNC"	18486	"protein_coding"	"YES"	"CCDS34137.1"	"ENSP00000402033"	"O15018"	"B4DGS3"	"UPI000069648B"	""	""	""	""	"1/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c39fae04-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"11801"	"PDZD2"	23037	"mskcc.org"	"GRCh37"	"5"	31737070	31737070	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-360-61926A>C"	""	""	"ENST00000438447"	""	88	"82"	6	46	"46"	0	"PDZD2,intron_variant,,ENST00000438447,;PDZD2,intron_variant,,ENST00000513910,;RP11-5N11.4,downstream_gene_variant,,ENST00000506865,;RP11-5N11.3,upstream_gene_variant,,ENST00000504817,;PDZD2,intron_variant,,ENST00000502824,;"	"C"	"ENSG00000133401"	"ENST00000438447"	"Transcript"	"intron_variant"	"-/11704"	"-/8520"	"-/2839"	""	""	""	"1"	NA	1	"PDZD2"	"HGNC"	18486	"protein_coding"	"YES"	"CCDS34137.1"	"ENSP00000402033"	"O15018"	"B4DGS3"	"UPI000069648B"	""	""	""	""	"1/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c39fb098-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"11802"	"CTD-2152M20.2"	0	"mskcc.org"	"GRCh37"	"5"	32119331	32119331	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.167+2270G>C"	""	""	"ENST00000503441"	""	103	"63"	40	63	"63"	0	"CTD-2152M20.2,intron_variant,,ENST00000503441,;"	"G"	"ENSG00000250764"	"ENST00000503441"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/834"	""	""	""	""	""	"1"	NA	-1	"CTD-2152M20.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c39fdd3e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388349514563107	"WGS"	FALSE
"11803"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	34534317	34534317	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"95"	7	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c3a07122-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0686274509803922	"WGS"	FALSE
"11804"	"AGXT2"	64902	"mskcc.org"	"GRCh37"	"5"	35024977	35024977	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.963+891T>A"	""	""	"ENST00000231420"	""	91	"86"	5	60	"60"	0	"AGXT2,intron_variant,,ENST00000231420,NM_031900.3;AGXT2,intron_variant,,ENST00000512135,;AGXT2,intron_variant,,ENST00000510428,;AGXT2,intron_variant,,ENST00000505349,;"	"T"	"ENSG00000113492"	"ENST00000231420"	"Transcript"	"intron_variant"	"-/2364"	"-/1545"	"-/514"	""	""	""	"1"	NA	-1	"AGXT2"	"HGNC"	14412	"protein_coding"	"YES"	"CCDS3908.1"	"ENSP00000231420"	"Q9BYV1"	""	"UPI0000125709"	"NM_031900.3"	""	""	""	"9/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c3a09526-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0549450549450549	"WGS"	FALSE
"11805"	"UGT3A1"	133688	"mskcc.org"	"GRCh37"	"5"	35991669	35991669	"+"	"5'UTR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-327C>T"	""	""	"ENST00000274278"	"1/7"	88	"68"	20	57	"57"	0	"UGT3A1,5_prime_UTR_variant,,ENST00000274278,NM_152404.3;UGT3A1,intron_variant,,ENST00000333811,NM_001171873.1;UGT3A1,upstream_gene_variant,,ENST00000503189,;UGT3A1,upstream_gene_variant,,ENST00000507113,;UGT3A1,upstream_gene_variant,,ENST00000513233,;UGT3A1,5_prime_UTR_variant,,ENST00000515801,;"	"A"	"ENSG00000145626"	"ENST00000274278"	"Transcript"	"5_prime_UTR_variant"	"32/5122"	"-/1572"	"-/523"	""	""	""	"1"	NA	-1	"UGT3A1"	"HGNC"	26625	"protein_coding"	"YES"	"CCDS3913.1"	"ENSP00000274278"	"Q6NUS8"	"A8K444"	"UPI000003C38B"	"NM_152404.3"	""	""	"1/7"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c3a0c0a0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"11806"	"NADK2"	133686	"mskcc.org"	"GRCh37"	"5"	36207915	36207915	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.861-548A>C"	""	""	"ENST00000381937"	""	87	"62"	25	69	"69"	0	"NADK2,intron_variant,,ENST00000397338,NM_001287340.1;NADK2,intron_variant,,ENST00000282512,NM_153013.3;NADK2,intron_variant,,ENST00000381937,NM_001085411.1;NADK2,intron_variant,,ENST00000506945,;NADK2,intron_variant,,ENST00000514504,;NADK2,upstream_gene_variant,,ENST00000502355,;NADK2,intron_variant,,ENST00000511613,;NADK2,intron_variant,,ENST00000509225,;NADK2,intron_variant,,ENST00000404560,;"	"G"	"ENSG00000152620"	"ENST00000381937"	"Transcript"	"intron_variant"	"-/2243"	"-/1329"	"-/442"	""	""	""	"1"	NA	-1	"NADK2"	"HGNC"	26404	"protein_coding"	"YES"	"CCDS47197.1"	"ENSP00000371362"	"Q4G0N4"	"Q49AR0,D6RHI4"	"UPI000150640C"	"NM_001085411.1"	""	""	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c3a0c816-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28735632183908	"WGS"	FALSE
"11807"	"ENSR00001764960"	0	"mskcc.org"	"GRCh37"	"5"	36600741	36600741	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001764960"	""	101	"73"	28	57	"57"	0	""	"T"	""	"ENSR00001764960"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c3a0d964-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277227722772277	"WGS"	FALSE
"11808"	"SLC1A3"	6507	"mskcc.org"	"GRCh37"	"5"	36639933	36639933	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.319+10244C>T"	""	""	"ENST00000265113"	""	106	"71"	35	63	"63"	0	"SLC1A3,intron_variant,,ENST00000265113,NM_004172.4;SLC1A3,intron_variant,,ENST00000381918,NM_001166695.1;SLC1A3,intron_variant,,ENST00000509272,;SLC1A3,intron_variant,,ENST00000514563,;"	"T"	"ENSG00000079215"	"ENST00000265113"	"Transcript"	"intron_variant"	"-/4170"	"-/1629"	"-/542"	""	""	""	"1"	NA	1	"SLC1A3"	"HGNC"	10941	"protein_coding"	"YES"	"CCDS3919.1"	"ENSP00000265113"	"P43003"	"E7EUV6,E7EUS7"	"UPI0000129B0F"	"NM_004172.4"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"c3a0da40-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330188679245283	"WGS"	FALSE
"11809"	"CTD-2035E11.4"	101927030	"mskcc.org"	"GRCh37"	"5"	43031105	43031105	"+"	"5'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000607830"	""	94	"66"	28	57	"57"	0	"CTD-2035E11.4,upstream_gene_variant,,ENST00000607830,;CTD-2201E18.3,intron_variant,,ENST00000503152,;"	"A"	"ENSG00000272382"	"ENST00000607830"	"Transcript"	"upstream_gene_variant"	"-/920"	""	""	""	""	""	"1"	"2713"	1	"CTD-2035E11.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c3a1fa74-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297872340425532	"WGS"	FALSE
"11810"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	44628494	44628494	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"66"	26	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c3a25ffa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282608695652174	"WGS"	FALSE
"11811"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	45226064	45226064	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"64"	19	33	"33"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c3a26f54-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228915662650602	"WGS"	FALSE
"11812"	"HCN1"	348980	"mskcc.org"	"GRCh37"	"5"	45639844	45639844	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.849+5443C>T"	""	""	"ENST00000303230"	""	89	"52"	37	47	"47"	0	"HCN1,intron_variant,,ENST00000303230,NM_021072.3;"	"A"	"ENSG00000164588"	"ENST00000303230"	"Transcript"	"intron_variant"	"-/5405"	"-/2673"	"-/890"	""	""	""	"1"	NA	-1	"HCN1"	"HGNC"	4845	"protein_coding"	"YES"	"CCDS3952.1"	"ENSP00000307342"	"O60741"	""	"UPI00001AED69"	"NM_021072.3"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGA"	"c3a281ec-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.415730337078652	"WGS"	FALSE
"11813"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	45770260	45770260	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"67"	28	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c3a28642-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294736842105263	"WGS"	FALSE
"11814"	"ASS1P9"	0	"mskcc.org"	"GRCh37"	"5"	53161099	53161099	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000513426"	""	87	"80"	7	47	"47"	0	"ASS1P9,downstream_gene_variant,,ENST00000513426,;"	"A"	"ENSG00000217791"	"ENST00000513426"	"Transcript"	"downstream_gene_variant"	"-/1236"	""	""	""	""	""	"1"	"4868"	1	"ASS1P9"	"HGNC"	772	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c3a4df64-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"11815"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	54903037	54903037	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"75"	8	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c3a534aa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0963855421686747	"WGS"	FALSE
"11816"	"PGAM1P1"	0	"mskcc.org"	"GRCh37"	"5"	57455012	57455012	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000504014"	""	95	"72"	23	54	"54"	0	"PGAM1P1,upstream_gene_variant,,ENST00000504014,;"	"T"	"ENSG00000248271"	"ENST00000504014"	"Transcript"	"upstream_gene_variant"	"-/556"	""	""	""	""	""	"1"	"2012"	1	"PGAM1P1"	"HGNC"	42448	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c3a5afa2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242105263157895	"WGS"	FALSE
"11817"	"GAPT"	202309	"mskcc.org"	"GRCh37"	"5"	57783636	57783636	"+"	"5'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000396776"	""	86	"61"	25	62	"62"	0	"GAPT,upstream_gene_variant,,ENST00000396776,NM_152687.2;GAPT,upstream_gene_variant,,ENST00000511930,;GAPT,upstream_gene_variant,,ENST00000502276,;GAPT,upstream_gene_variant,,ENST00000513924,;GAPT,upstream_gene_variant,,ENST00000515443,;"	"G"	"ENSG00000175857"	"ENST00000396776"	"Transcript"	"upstream_gene_variant"	"-/3016"	"-/474"	"-/157"	""	""	""	"1"	"3626"	1	"GAPT"	"HGNC"	26588	"protein_coding"	"YES"	"CCDS3975.1"	"ENSP00000379997"	"Q8N292"	"D6RBK7,D6RA63"	"UPI0000039EFF"	"NM_152687.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c3a5ce9c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290697674418605	"WGS"	FALSE
"11818"	"RAB3C"	115827	"mskcc.org"	"GRCh37"	"5"	57978974	57978974	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.253-42855T>A"	""	""	"ENST00000282878"	""	76	"52"	24	55	"55"	0	"RAB3C,intron_variant,,ENST00000282878,NM_138453.2;RAB3C,intron_variant,,ENST00000507977,;"	"A"	"ENSG00000152932"	"ENST00000282878"	"Transcript"	"intron_variant"	"-/8888"	"-/684"	"-/227"	""	""	""	"1"	NA	1	"RAB3C"	"HGNC"	30269	"protein_coding"	"YES"	"CCDS3976.1"	"ENSP00000282878"	"Q96E17"	""	"UPI0000133178"	"NM_138453.2"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c3a5d432-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WGS"	FALSE
"11819"	"SETP21"	0	"mskcc.org"	"GRCh37"	"5"	59756069	59756069	"+"	"RNA"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.498G>A"	""	""	"ENST00000514799"	"1/1"	91	"71"	20	71	"71"	0	"PDE4D,intron_variant,,ENST00000502484,NM_001165899.1;PDE4D,intron_variant,,ENST00000505507,;PDE4D,intron_variant,,ENST00000509355,;PDE4D,intron_variant,,ENST00000515835,;PDE4D,intron_variant,,ENST00000511382,;PDE4D,intron_variant,,ENST00000506510,;SETP21,non_coding_transcript_exon_variant,,ENST00000514799,;"	"T"	"ENSG00000214244"	"ENST00000514799"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"498/892"	""	""	""	""	""	"1"	NA	-1	"SETP21"	"HGNC"	42940	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c3a616ea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21978021978022	"WGS"	FALSE
"11820"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	61479179	61479179	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"70"	23	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c3a65eca-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247311827956989	"WGS"	FALSE
"11821"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	61984190	61984190	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"62"	33	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c3a6a664-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347368421052632	"WGS"	FALSE
"11822"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	63147467	63147467	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"60"	19	65	"64"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c3a6c978-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240506329113924	"WGS"	FALSE
"11823"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"5"	64417858	64417858	"+"	"5'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384708"	""	70	"47"	23	54	"53"	1	"Y_RNA,upstream_gene_variant,,ENST00000384708,;"	"C"	"ENSG00000207439"	"ENST00000384708"	"Transcript"	"upstream_gene_variant"	"-/106"	""	""	""	""	""	"1"	"1338"	1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c3a70352-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.328571428571429	"WGS"	FALSE
"11824"	"ADAMTS6"	11174	"mskcc.org"	"GRCh37"	"5"	64465534	64465534	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3244+910A>T"	""	""	"ENST00000381055"	""	78	"55"	23	46	"46"	0	"ADAMTS6,intron_variant,,ENST00000381055,NM_197941.2;ADAMTS6,intron_variant,,ENST00000314351,;ADAMTS6,downstream_gene_variant,,ENST00000417396,;ADAMTS6,intron_variant,,ENST00000381052,;"	"A"	"ENSG00000049192"	"ENST00000381055"	"Transcript"	"intron_variant"	"-/7311"	"-/3354"	"-/1117"	""	""	""	"1"	NA	-1	"ADAMTS6"	"HGNC"	222	"protein_coding"	"YES"	"CCDS3983.2"	"ENSP00000370443"	"Q9UKP5"	"Q5IR90"	"UPI000050D3F1"	"NM_197941.2"	""	""	""	"24/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c3a7042e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294871794871795	"WGS"	FALSE
"11825"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	65761600	65761600	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs761270636"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"44"	33	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs761270636"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c3a7460a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WGS"	FALSE
"11826"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	66633951	66633951	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"73"	6	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c3a76414-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"11827"	"RP11-83M16.6"	0	"mskcc.org"	"GRCh37"	"5"	67057810	67057810	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.152+55958C>T"	""	""	"ENST00000506819"	""	91	"62"	29	44	"44"	0	"RP11-434D9.1,intron_variant,,ENST00000514368,;RP11-83M16.6,intron_variant,,ENST00000506819,;RP11-83M16.6,intron_variant,,ENST00000510621,;RP11-434D9.1,intron_variant,,ENST00000503106,;"	"A"	"ENSG00000250421"	"ENST00000506819"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/589"	""	""	""	""	""	"1"	NA	-1	"RP11-83M16.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c3a76edc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318681318681319	"WGS"	FALSE
"11828"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	68074747	68074747	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"81"	19	59	"59"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c3a79498-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19	"WGS"	FALSE
"11829"	"CCDC125"	202243	"mskcc.org"	"GRCh37"	"5"	68586267	68586267	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1099+1748A>G"	""	""	"ENST00000396496"	""	69	"61"	8	33	"33"	0	"CCDC125,intron_variant,,ENST00000396496,;CCDC125,intron_variant,,ENST00000396499,NM_176816.3;CCDC125,intron_variant,,ENST00000383374,;CCDC125,intron_variant,,ENST00000511257,;CCDC125,intron_variant,,ENST00000460090,;"	"C"	"ENSG00000183323"	"ENST00000396496"	"Transcript"	"intron_variant"	"-/4198"	"-/1536"	"-/511"	""	""	""	"1"	NA	-1	"CCDC125"	"HGNC"	28924	"protein_coding"	"YES"	"CCDS4000.1"	"ENSP00000379754"	"Q86Z20"	""	"UPI00004572F8"	""	""	""	""	"10/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c3a846ae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115942028985507	"WGS"	FALSE
"11830"	"CCDC125"	202243	"mskcc.org"	"GRCh37"	"5"	68603016	68603016	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs539017688"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.532-287G>A"	""	""	"ENST00000396496"	""	92	"58"	34	39	"39"	0	"CCDC125,intron_variant,,ENST00000396496,;CCDC125,intron_variant,,ENST00000396499,NM_176816.3;CCDC125,intron_variant,,ENST00000383374,;CCDC125,intron_variant,,ENST00000511257,;CCDC125,intron_variant,,ENST00000460090,;CCDC125,downstream_gene_variant,,ENST00000512045,;"	"T"	"ENSG00000183323"	"ENST00000396496"	"Transcript"	"intron_variant"	"-/4198"	"-/1536"	"-/511"	""	""	"rs539017688"	"1"	NA	-1	"CCDC125"	"HGNC"	28924	"protein_coding"	"YES"	"CCDS4000.1"	"ENSP00000379754"	"Q86Z20"	""	"UPI00004572F8"	""	""	""	""	"5/11"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c3a84cb2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.369565217391304	"WGS"	FALSE
"11831"	"SERF1A"	8293	"mskcc.org"	"GRCh37"	"5"	70199760	70199760	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.116+2000T>C"	""	""	"ENST00000354833"	""	18	"14"	4	12	"12"	0	"SERF1A,intron_variant,,ENST00000354833,NM_021967.2;SERF1A,intron_variant,,ENST00000513436,;SERF1A,intron_variant,,ENST00000317633,NM_022968.1;SERF1A,intron_variant,,ENST00000512649,;SERF1A,intron_variant,,ENST00000507348,;SERF1A,intron_variant,,ENST00000504458,;SERF1A,intron_variant,,ENST00000512868,;SERF1A,downstream_gene_variant,,ENST00000511162,;SERF1A,intron_variant,,ENST00000503509,;"	"C"	"ENSG00000172058"	"ENST00000354833"	"Transcript"	"intron_variant"	"-/1889"	"-/333"	"-/110"	""	""	""	"1"	NA	1	"SERF1A"	"HGNC"	10755	"protein_coding"	"YES"	"CCDS47228.1"	"ENSP00000346892"	"O75920"	"E5RHJ0,D6RCL9"	"UPI0000135807"	"NM_021967.2"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c3a8c750-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"11832"	"SERF1A"	8293	"mskcc.org"	"GRCh37"	"5"	70199763	70199763	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.116+2003C>A"	""	""	"ENST00000354833"	""	17	"13"	4	12	"12"	0	"SERF1A,intron_variant,,ENST00000354833,NM_021967.2;SERF1A,intron_variant,,ENST00000513436,;SERF1A,intron_variant,,ENST00000317633,NM_022968.1;SERF1A,intron_variant,,ENST00000512649,;SERF1A,intron_variant,,ENST00000507348,;SERF1A,intron_variant,,ENST00000504458,;SERF1A,intron_variant,,ENST00000512868,;SERF1A,downstream_gene_variant,,ENST00000511162,;SERF1A,intron_variant,,ENST00000503509,;"	"A"	"ENSG00000172058"	"ENST00000354833"	"Transcript"	"intron_variant"	"-/1889"	"-/333"	"-/110"	""	""	""	"1"	NA	1	"SERF1A"	"HGNC"	10755	"protein_coding"	"YES"	"CCDS47228.1"	"ENSP00000346892"	"O75920"	"E5RHJ0,D6RCL9"	"UPI0000135807"	"NM_021967.2"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c3a8c82c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"11833"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	73269062	73269062	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"70"	24	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c3a97a24-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25531914893617	"WGS"	FALSE
"11834"	"CTD-2275D24.1"	0	"mskcc.org"	"GRCh37"	"5"	73635679	73635679	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.382-130T>G"	""	""	"ENST00000512458"	""	109	"101"	8	65	"65"	0	"CTD-2275D24.1,intron_variant,,ENST00000512458,;"	"G"	"ENSG00000251041"	"ENST00000512458"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/550"	""	""	""	""	""	"1"	NA	1	"CTD-2275D24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c3a97ede-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.073394495412844	"WGS"	FALSE
"11835"	"ANKRD31"	256006	"mskcc.org"	"GRCh37"	"5"	74369692	74369692	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5648-5203T>C"	""	""	"ENST00000506364"	""	61	"45"	16	48	"47"	1	"ANKRD31,intron_variant,,ENST00000506364,;ANKRD31,intron_variant,,ENST00000274361,NM_001164443.1;ANKRD31,intron_variant,,ENST00000504022,;"	"G"	"ENSG00000145700"	"ENST00000506364"	"Transcript"	"intron_variant"	"-/6207"	"-/5793"	"-/1930"	""	""	""	"1"	NA	-1	"ANKRD31"	"HGNC"	26853	"protein_coding"	"YES"	""	"ENSP00000427262"	""	"H0YAM5,D6RJB7"	"UPI0003B9283E"	""	""	""	""	"25/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c3a9a526-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.262295081967213	"WGS"	FALSE
"11836"	"ANKDD1B"	728780	"mskcc.org"	"GRCh37"	"5"	74968552	74968552	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000601380"	""	88	"61"	27	72	"72"	0	"ANKDD1B,downstream_gene_variant,,ENST00000601380,NM_001276713.1;POC5,downstream_gene_variant,,ENST00000428202,NM_001099271.1;POC5,downstream_gene_variant,,ENST00000514838,;POC5,downstream_gene_variant,,ENST00000380475,;POC5,downstream_gene_variant,,ENST00000446329,NM_152408.2;POC5,downstream_gene_variant,,ENST00000510798,;ANKDD1B,downstream_gene_variant,,ENST00000506596,;POC5,downstream_gene_variant,,ENST00000503521,;"	"T"	"ENSG00000189045"	"ENST00000601380"	"Transcript"	"downstream_gene_variant"	"-/2569"	"-/1587"	"-/528"	""	""	""	"1"	"881"	1	"ANKDD1B"	"HGNC"	32525	"protein_coding"	"YES"	"CCDS64180.1"	"ENSP00000471417"	"A6NHY2"	""	"UPI0002A4709F"	"NM_001276713.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c3a9bbba-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306818181818182	"WGS"	FALSE
"11837"	"WDR41"	55255	"mskcc.org"	"GRCh37"	"5"	76795788	76795788	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.43-10391A>T"	""	""	"ENST00000509971"	""	81	"74"	7	72	"72"	0	"WDR41,intron_variant,,ENST00000509971,;WDR41,intron_variant,,ENST00000509858,;WDR41,upstream_gene_variant,,ENST00000513917,;"	"A"	"ENSG00000164253"	"ENST00000509971"	"Transcript"	"intron_variant"	"-/543"	"-/452"	"-/150"	""	""	""	"1"	NA	-1	"WDR41"	"HGNC"	25601	"protein_coding"	""	""	"ENSP00000422922"	""	"D6R9E7"	"UPI0001D3B447"	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c3aa1e20-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"11838"	"CTC-512J14.5"	441089	"mskcc.org"	"GRCh37"	"5"	79642836	79642836	"+"	"3'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000514280"	""	60	"50"	10	31	"31"	0	"CTC-512J14.5,downstream_gene_variant,,ENST00000514280,;"	"G"	"ENSG00000248569"	"ENST00000514280"	"Transcript"	"downstream_gene_variant"	"-/936"	""	""	""	""	""	"1"	"4004"	-1	"CTC-512J14.5"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c3ab09a2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"11839"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	84542278	84542278	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"57"	29	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c3abff4c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337209302325581	"WGS"	FALSE
"11840"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	85301278	85301278	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"59"	26	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c3ac2a44-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305882352941176	"WGS"	FALSE
"11841"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	86903886	86903886	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"67"	26	62	"62"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c3ac8110-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279569892473118	"WGS"	FALSE
"11842"	"ENSR00001285184"	0	"mskcc.org"	"GRCh37"	"5"	90625544	90625544	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001285184"	""	119	"80"	39	59	"59"	0	""	"C"	""	"ENSR00001285184"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"c3ad0478-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.327731092436975	"WGS"	FALSE
"11843"	"RP11-348J24.2"	0	"mskcc.org"	"GRCh37"	"5"	91383488	91383488	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"rs552360349"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.224+4851C>A"	""	""	"ENST00000507217"	""	74	"49"	25	78	"78"	0	"RP11-348J24.2,intron_variant,,ENST00000507217,;"	"A"	"ENSG00000250049"	"ENST00000507217"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/576"	""	""	""	""	"rs552360349"	"1"	NA	1	"RP11-348J24.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/3"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c3ad163e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337837837837838	"WGS"	FALSE
"11844"	"KIAA0825"	285600	"mskcc.org"	"GRCh37"	"5"	93716673	93716673	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3710+3400A>C"	""	""	"ENST00000513200"	""	78	"45"	33	54	"53"	1	"KIAA0825,intron_variant,,ENST00000513200,NM_001145678.1;KIAA0825,intron_variant,,ENST00000427991,;"	"G"	"ENSG00000185261"	"ENST00000513200"	"Transcript"	"intron_variant"	"-/4942"	"-/3828"	"-/1275"	""	""	""	"1"	NA	-1	"KIAA0825"	"HGNC"	28532	"protein_coding"	""	""	"ENSP00000424618"	""	"C9J0Q2"	"UPI0001D3B505"	"NM_001145678.1"	""	""	""	"19/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c3ad6c88-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.423076923076923	"WGS"	FALSE
"11845"	"CTD-2260A17.2"	0	"mskcc.org"	"GRCh37"	"5"	96157800	96157800	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.138-7787G>A"	""	""	"ENST00000504056"	""	104	"72"	32	56	"56"	0	"CTD-2260A17.2,intron_variant,,ENST00000504056,;CTD-2260A17.2,intron_variant,,ENST00000501338,;CTD-2260A17.2,intron_variant,,ENST00000502262,;"	"T"	"ENSG00000247121"	"ENST00000504056"	"Transcript"	"intron_variant"	"-/470"	"-/201"	"-/66"	""	""	""	"1"	NA	-1	"CTD-2260A17.2"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000424932"	""	"D6RER1"	"UPI00006C094F"	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c3adc4e4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"11846"	"RP11-1E3.1"	102546227	"mskcc.org"	"GRCh37"	"5"	97010848	97010848	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000504012"	""	87	"63"	24	45	"45"	0	"RP11-1E3.1,downstream_gene_variant,,ENST00000504012,;RP11-72K17.2,downstream_gene_variant,,ENST00000509390,;"	"A"	"ENSG00000250331"	"ENST00000504012"	"Transcript"	"downstream_gene_variant"	"-/724"	""	""	""	""	""	"1"	"4098"	1	"RP11-1E3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c3adea50-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275862068965517	"WGS"	FALSE
"11847"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	97086591	97086591	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"65"	29	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c3adeeb0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308510638297872	"WGS"	FALSE
"11848"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	97302475	97302475	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs73772513"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"67"	15	70	"70"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs73772513"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c3adf75c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182926829268293	"WGS"	FALSE
"11849"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	98417423	98417423	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"73"	18	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c3ae211e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197802197802198	"WGS"	FALSE
"11850"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	99000891	99000891	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"79"	25	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c3ae5468-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240384615384615	"WGS"	FALSE
"11851"	"CTC-293G12.1"	0	"mskcc.org"	"GRCh37"	"5"	99998490	99998490	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000511592"	""	84	"62"	22	53	"53"	0	"CTC-293G12.1,upstream_gene_variant,,ENST00000511592,;"	"C"	"ENSG00000250806"	"ENST00000511592"	"Transcript"	"upstream_gene_variant"	"-/469"	""	""	""	""	""	"1"	"4816"	-1	"CTC-293G12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c3aea990-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261904761904762	"WGS"	FALSE
"11852"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	100655077	100655077	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"56"	20	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c3aeb9e4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"11853"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	101450240	101450240	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"59"	21	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c3aed366-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2625	"WGS"	FALSE
"11854"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	103195681	103195681	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"66"	20	65	"64"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c3af102e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232558139534884	"WGS"	FALSE
"11855"	"RP11-6N13.1"	0	"mskcc.org"	"GRCh37"	"5"	104061030	104061030	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.328+161529T>G"	""	""	"ENST00000503650"	""	83	"69"	14	66	"66"	0	"RP11-6N13.1,intron_variant,,ENST00000503650,;RP11-6N13.1,intron_variant,,ENST00000506976,;RP11-6N13.1,intron_variant,,ENST00000505824,;RP11-6N13.1,intron_variant,,ENST00000524336,;"	"C"	"ENSG00000251574"	"ENST00000503650"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/777"	""	""	""	""	""	"1"	NA	-1	"RP11-6N13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"c3af4382-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168674698795181	"WGS"	FALSE
"11856"	"RP11-6N13.1"	0	"mskcc.org"	"GRCh37"	"5"	104066867	104066867	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.328+155692C>A"	""	""	"ENST00000503650"	""	91	"83"	8	57	"57"	0	"RP11-6N13.1,intron_variant,,ENST00000503650,;RP11-6N13.1,intron_variant,,ENST00000506976,;RP11-6N13.1,intron_variant,,ENST00000505824,;RP11-6N13.1,intron_variant,,ENST00000524336,;"	"T"	"ENSG00000251574"	"ENST00000503650"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/777"	""	""	""	""	""	"1"	NA	-1	"RP11-6N13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c3af4468-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0879120879120879	"WGS"	FALSE
"11857"	"ENSR00001286788"	0	"mskcc.org"	"GRCh37"	"5"	105266746	105266746	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001286788"	""	91	"86"	5	63	"63"	0	""	"A"	""	"ENSR00001286788"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c3af7578-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0549450549450549	"WGS"	FALSE
"11858"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	108948256	108948256	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"87"	7	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c3b0047a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"11859"	"CAMK4"	814	"mskcc.org"	"GRCh37"	"5"	110600337	110600337	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.161+39995G>T"	""	""	"ENST00000282356"	""	75	"48"	27	50	"50"	0	"CAMK4,intron_variant,,ENST00000282356,NM_001744.4;CAMK4,intron_variant,,ENST00000512453,;CAMK4,intron_variant,,ENST00000508074,;AC010468.2,downstream_gene_variant,,ENST00000511981,;CAMK4,intron_variant,,ENST00000509408,;CAMK4,intron_variant,,ENST00000504090,;CAMK4,intron_variant,,ENST00000515231,;CAMK4,intron_variant,,ENST00000514007,;CAMK4,intron_variant,,ENST00000504544,;"	"T"	"ENSG00000152495"	"ENST00000282356"	"Transcript"	"intron_variant"	"-/12240"	"-/1422"	"-/473"	""	""	""	"1"	NA	1	"CAMK4"	"HGNC"	1464	"protein_coding"	"YES"	"CCDS4103.1"	"ENSP00000282356"	"Q16566"	"D6RE65"	"UPI000000128E"	"NM_001744.4"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c3b0345e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36	"WGS"	FALSE
"11860"	"CAMK4"	814	"mskcc.org"	"GRCh37"	"5"	110603263	110603263	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.161+42921G>A"	""	""	"ENST00000282356"	""	80	"51"	29	59	"59"	0	"CAMK4,intron_variant,,ENST00000282356,NM_001744.4;CAMK4,intron_variant,,ENST00000512453,;CAMK4,intron_variant,,ENST00000508074,;AC010468.2,intron_variant,,ENST00000511981,;CAMK4,intron_variant,,ENST00000509408,;CAMK4,intron_variant,,ENST00000504090,;CAMK4,intron_variant,,ENST00000515231,;CAMK4,intron_variant,,ENST00000514007,;CAMK4,intron_variant,,ENST00000504544,;"	"A"	"ENSG00000152495"	"ENST00000282356"	"Transcript"	"intron_variant"	"-/12240"	"-/1422"	"-/473"	""	""	""	"1"	NA	1	"CAMK4"	"HGNC"	1464	"protein_coding"	"YES"	"CCDS4103.1"	"ENSP00000282356"	"Q16566"	"D6RE65"	"UPI000000128E"	"NM_001744.4"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c3b0353a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3625	"WGS"	FALSE
"11861"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	113443248	113443248	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"72"	5	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c3b09e4e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0649350649350649	"WGS"	FALSE
"11862"	"RP11-438C19.2"	0	"mskcc.org"	"GRCh37"	"5"	114368917	114368917	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000509718"	""	83	"64"	19	60	"60"	0	"RP11-438C19.2,upstream_gene_variant,,ENST00000509718,;"	"T"	"ENSG00000251132"	"ENST00000509718"	"Transcript"	"upstream_gene_variant"	"-/622"	""	""	""	""	""	"1"	"1326"	-1	"RP11-438C19.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c3b0ba82-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228915662650602	"WGS"	FALSE
"11863"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	117225148	117225148	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"61"	22	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c3b13570-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265060240963855	"WGS"	FALSE
"11864"	"HSD17B4"	3295	"mskcc.org"	"GRCh37"	"5"	118855901	118855901	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1579-5010G>T"	""	""	"ENST00000504811"	""	94	"65"	29	59	"59"	0	"HSD17B4,intron_variant,,ENST00000504811,NM_001199291.1;HSD17B4,intron_variant,,ENST00000256216,NM_000414.3;HSD17B4,intron_variant,,ENST00000510025,;HSD17B4,intron_variant,,ENST00000414835,;HSD17B4,intron_variant,,ENST00000515320,NM_001199292.1;HSD17B4,intron_variant,,ENST00000509514,;HSD17B4,intron_variant,,ENST00000513628,;HSD17B4,intron_variant,,ENST00000522415,;HSD17B4,intron_variant,,ENST00000518349,;HSD17B4,intron_variant,,ENST00000520244,;HSD17B4,intron_variant,,ENST00000515235,;HSD17B4,intron_variant,,ENST00000442060,;"	"T"	"ENSG00000133835"	"ENST00000504811"	"Transcript"	"intron_variant"	"-/2740"	"-/2286"	"-/761"	""	""	""	"1"	NA	1	"HSD17B4"	"HGNC"	5213	"protein_coding"	"YES"	"CCDS56379.1"	"ENSP00000420914"	"P51659"	"Q9UBA4,E7EWE5,E7ET17"	"UPI0001AE7403"	"NM_001199291.1"	""	""	""	"18/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"c3b18bf6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308510638297872	"WGS"	FALSE
"11865"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	119295189	119295189	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"79"	6	47	"47"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c3b195ec-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0705882352941176	"WGS"	FALSE
"11866"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	121115947	121115947	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"54"	23	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c3b1dc64-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298701298701299	"WGS"	FALSE
"11867"	"FTMT"	94033	"mskcc.org"	"GRCh37"	"5"	121190334	121190334	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000321339"	""	79	"51"	28	61	"61"	0	"FTMT,downstream_gene_variant,,ENST00000321339,NM_177478.1;"	"T"	"ENSG00000181867"	"ENST00000321339"	"Transcript"	"downstream_gene_variant"	"-/870"	"-/729"	"-/242"	""	""	""	"1"	"1815"	1	"FTMT"	"HGNC"	17345	"protein_coding"	"YES"	"CCDS4128.1"	"ENSP00000313691"	"Q8N4E7"	""	"UPI000006F87E"	"NM_177478.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c3b1dd9a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354430379746835	"WGS"	FALSE
"11868"	"ZNF474"	133923	"mskcc.org"	"GRCh37"	"5"	121470073	121470073	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-213+4695A>T"	""	""	"ENST00000296600"	""	86	"66"	20	53	"53"	0	"ZNF474,intron_variant,,ENST00000296600,NM_207317.1;ZNF474,intron_variant,,ENST00000505843,;ZNF474,intron_variant,,ENST00000504912,;CTC-441N14.2,intron_variant,,ENST00000504829,;ZNF474,intron_variant,,ENST00000514925,;"	"T"	"ENSG00000164185"	"ENST00000296600"	"Transcript"	"intron_variant"	"-/1964"	"-/1095"	"-/364"	""	""	""	"1"	NA	1	"ZNF474"	"HGNC"	23245	"protein_coding"	"YES"	"CCDS4130.1"	"ENSP00000296600"	"Q6S9Z5"	"D6RFM9,D6RCA7"	"UPI0000160642"	"NM_207317.1"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c3b1e574-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232558139534884	"WGS"	FALSE
"11869"	"LMNB1"	4001	"mskcc.org"	"GRCh37"	"5"	126115905	126115905	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.359+2346A>T"	""	""	"ENST00000261366"	""	112	"80"	32	62	"62"	0	"LMNB1,intron_variant,,ENST00000261366,NM_001198557.1,NM_005573.3;LMNB1,intron_variant,,ENST00000395354,;RP11-434D11.4,upstream_gene_variant,,ENST00000509185,;LMNB1,intron_variant,,ENST00000460265,;LMNB1,intron_variant,,ENST00000504788,;LMNB1,intron_variant,,ENST00000492190,;LMNB1,intron_variant,,ENST00000472034,;LMNB1,intron_variant,,ENST00000463908,;"	"T"	"ENSG00000113368"	"ENST00000261366"	"Transcript"	"intron_variant"	"-/2878"	"-/1761"	"-/586"	""	""	""	"1"	NA	1	"LMNB1"	"HGNC"	6637	"protein_coding"	"YES"	"CCDS4140.1"	"ENSP00000261366"	"P20700"	"E9PBF6"	"UPI000013D170"	"NM_001198557.1,NM_005573.3"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"c3b2c25a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"11870"	"CTC-228N24.3"	644873	"mskcc.org"	"GRCh37"	"5"	127368310	127368310	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.207-8320G>T"	""	""	"ENST00000501702"	""	78	"50"	28	58	"58"	0	"CTC-228N24.3,intron_variant,,ENST00000501702,;CTC-228N24.3,intron_variant,,ENST00000501652,;CTC-228N24.3,intron_variant,,ENST00000499346,;CTC-228N24.3,intron_variant,,ENST00000508878,;CTC-228N24.3,intron_variant,,ENST00000501173,;CTC-228N24.3,intron_variant,,ENST00000514573,;CTC-228N24.3,intron_variant,,ENST00000514409,;CTC-228N24.3,intron_variant,,ENST00000508353,;"	"A"	"ENSG00000245937"	"ENST00000501702"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2977"	""	""	""	""	""	"1"	NA	-1	"CTC-228N24.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c3b2ede8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358974358974359	"WGS"	FALSE
"11871"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	129954364	129954364	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"77"	8	66	"66"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c3b341d0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"11872"	"KIF3A"	11127	"mskcc.org"	"GRCh37"	"5"	132027060	132027060	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000378746"	""	91	"81"	10	52	"52"	0	"KIF3A,downstream_gene_variant,,ENST00000378746,NM_007054.5;KIF3A,downstream_gene_variant,,ENST00000378735,;AC004237.1,intron_variant,,ENST00000431165,;"	"T"	"ENSG00000131437"	"ENST00000378746"	"Transcript"	"downstream_gene_variant"	"-/6325"	"-/2100"	"-/699"	""	""	""	"1"	"1260"	-1	"KIF3A"	"HGNC"	6319	"protein_coding"	"YES"	"CCDS34235.1"	"ENSP00000368020"	"Q9Y496"	""	"UPI000035B258"	"NM_007054.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c3b3b980-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10989010989011	"WGS"	FALSE
"11873"	"DDX46"	9879	"mskcc.org"	"GRCh37"	"5"	134157452	134157452	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2974+2758G>A"	""	""	"ENST00000354283"	""	71	"64"	7	48	"48"	0	"DDX46,intron_variant,,ENST00000452510,NM_014829.2;DDX46,intron_variant,,ENST00000354283,;DDX46,intron_variant,,ENST00000503946,;DDX46,intron_variant,,ENST00000507392,;DDX46,intron_variant,,ENST00000507053,;DDX46,upstream_gene_variant,,ENST00000506332,;"	"A"	"ENSG00000145833"	"ENST00000354283"	"Transcript"	"intron_variant"	"-/3821"	"-/3096"	"-/1031"	""	""	""	"1"	NA	1	"DDX46"	"HGNC"	18681	"protein_coding"	"YES"	"CCDS34240.1"	"ENSP00000346236"	"Q7L014"	""	"UPI0000072E73"	""	""	""	""	"21/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c3b4467a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0985915492957746	"WGS"	FALSE
"11874"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	135121875	135121875	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	65	"59"	6	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c3b481e4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"11875"	"ETF1"	2107	"mskcc.org"	"GRCh37"	"5"	137858639	137858639	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.87-4083A>C"	""	""	"ENST00000360541"	""	85	"75"	10	58	"58"	0	"ETF1,intron_variant,,ENST00000499810,NM_001282185.1,NM_001256302.1;ETF1,intron_variant,,ENST00000360541,NM_004730.3;ETF1,intron_variant,,ENST00000503014,;ETF1,intron_variant,,ENST00000572514,;ETF1,intron_variant,,ENST00000507939,;ETF1,intron_variant,,ENST00000514005,;ETF1,intron_variant,,ENST00000512198,;"	"G"	"ENSG00000120705"	"ENST00000360541"	"Transcript"	"intron_variant"	"-/3742"	"-/1314"	"-/437"	""	""	""	"1"	NA	-1	"ETF1"	"HGNC"	3477	"protein_coding"	"YES"	"CCDS4207.1"	"ENSP00000353741"	"P62495"	"Q96CG1,I3L492,D6RJE8"	"UPI00001110CB"	"NM_004730.3"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c3b511b8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"11876"	"TMEM173"	340061	"mskcc.org"	"GRCh37"	"5"	138863586	138863586	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000330794"	""	76	"69"	7	41	"41"	0	"TMEM173,upstream_gene_variant,,ENST00000330794,NM_198282.2;TMEM173,upstream_gene_variant,,ENST00000510817,;TMEM173,upstream_gene_variant,,ENST00000511850,;TMEM173,upstream_gene_variant,,ENST00000512606,;TMEM173,upstream_gene_variant,,ENST00000511886,;TMEM173,upstream_gene_variant,,ENST00000515507,;TMEM173,upstream_gene_variant,,ENST00000514542,;TMEM173,upstream_gene_variant,,ENST00000507297,;TMEM173,upstream_gene_variant,,ENST00000514119,;TMEM173,upstream_gene_variant,,ENST00000509573,;TMEM173,upstream_gene_variant,,ENST00000503287,;TMEM173,upstream_gene_variant,,ENST00000514348,;TMEM173,upstream_gene_variant,,ENST00000503838,;TMEM173,upstream_gene_variant,,ENST00000502825,;TMEM173,upstream_gene_variant,,ENST00000502362,;"	"A"	"ENSG00000184584"	"ENST00000330794"	"Transcript"	"upstream_gene_variant"	"-/1771"	"-/1140"	"-/379"	""	""	""	"1"	"1211"	-1	"TMEM173"	"HGNC"	27962	"protein_coding"	"YES"	"CCDS4215.1"	"ENSP00000331288"	"Q86WV6"	"J3QTB1"	"UPI000000DC5E"	"NM_198282.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c3b579e6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"11877"	"AC138517.4"	0	"mskcc.org"	"GRCh37"	"5"	138871726	138871726	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000513338"	""	81	"74"	7	47	"47"	0	"AC138517.4,upstream_gene_variant,,ENST00000513338,;AC138517.5,upstream_gene_variant,,ENST00000515724,;"	"A"	"ENSG00000249215"	"ENST00000513338"	"Transcript"	"upstream_gene_variant"	"-/1861"	""	""	""	""	""	"1"	"2115"	1	"AC138517.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c3b57f18-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"11878"	"PCDHGA12"	26025	"mskcc.org"	"GRCh37"	"5"	140851880	140851880	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2425-22494A>T"	""	""	"ENST00000252085"	""	98	"89"	9	54	"54"	0	"PCDHGA12,intron_variant,,ENST00000252085,NM_003735.2,NM_032094.1;PCDHGB3,intron_variant,,ENST00000576222,NM_018924.2,NM_032097.1;PCDHGA10,intron_variant,,ENST00000398610,NM_018913.2,NM_032090.1;PCDHGA3,intron_variant,,ENST00000253812,NM_018916.3,NM_032011.1;PCDHGA2,intron_variant,,ENST00000394576,NM_018915.2;PCDHGA8,intron_variant,,ENST00000398604,NM_032088.1;PCDHGA6,intron_variant,,ENST00000517434,NM_018919.2,NM_032086.1;PCDHGA7,intron_variant,,ENST00000518325,NM_018920.2;PCDHGA9,intron_variant,,ENST00000573521,NM_018921.2,NM_032089.1;PCDHGA1,intron_variant,,ENST00000517417,NM_018912.2;PCDHGA5,intron_variant,,ENST00000518069,NM_018918.2,NM_032054.1;PCDHGB2,intron_variant,,ENST00000522605,NM_018923.2,NM_032096.1;PCDHGA4,intron_variant,,ENST00000571252,NM_018917.2;PCDHGB6,intron_variant,,ENST00000520790,NM_018926.2,NM_032100.1;PCDHGB7,intron_variant,,ENST00000398594,NM_018927.3;PCDHGB1,intron_variant,,ENST00000523390,NM_018922.2,NM_032095.1;PCDHGB4,intron_variant,,ENST00000519479,NM_003736.2,NM_018925.2,NM_032098.1;PCDHGA11,intron_variant,,ENST00000398587,NM_032092.1,NM_018914.2;PCDHGA11,intron_variant,,ENST00000518882,;PCDHGC3,upstream_gene_variant,,ENST00000308177,NM_002588.2,NM_032402.1;"	"T"	"ENSG00000253159"	"ENST00000252085"	"Transcript"	"intron_variant"	"-/4747"	"-/2799"	"-/932"	""	""	""	"1"	NA	1	"PCDHGA12"	"HGNC"	8699	"protein_coding"	"YES"	"CCDS4260.1"	"ENSP00000252085"	"O60330"	"Q9UKW1,Q9BT64"	"UPI0000073EA1"	"NM_003735.2,NM_032094.1"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c3b60d20-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0918367346938776	"WGS"	FALSE
"11879"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	141146935	141146935	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"91"	5	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c3b61ed2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0520833333333333	"WGS"	FALSE
"11880"	"DPYSL3"	1809	"mskcc.org"	"GRCh37"	"5"	146849332	146849332	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.381+39709G>A"	""	""	"ENST00000343218"	""	77	"62"	15	56	"56"	0	"DPYSL3,intron_variant,,ENST00000343218,NM_001197294.1;DPYSL3,downstream_gene_variant,,ENST00000504965,;"	"T"	"ENSG00000113657"	"ENST00000343218"	"Transcript"	"intron_variant"	"-/5476"	"-/2055"	"-/684"	""	""	""	"1"	NA	-1	"DPYSL3"	"HGNC"	3015	"protein_coding"	"YES"	"CCDS56387.1"	"ENSP00000343690"	"Q14195"	"F5GWI3"	"UPI000020CF0E"	"NM_001197294.1"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c3b7126a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194805194805195	"WGS"	FALSE
"11881"	"DPYSL3"	1809	"mskcc.org"	"GRCh37"	"5"	146867667	146867667	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.381+21374C>T"	""	""	"ENST00000343218"	""	98	"91"	7	61	"61"	0	"DPYSL3,intron_variant,,ENST00000343218,NM_001197294.1;DPYSL3,intron_variant,,ENST00000504965,;"	"A"	"ENSG00000113657"	"ENST00000343218"	"Transcript"	"intron_variant"	"-/5476"	"-/2055"	"-/684"	""	""	""	"1"	NA	-1	"DPYSL3"	"HGNC"	3015	"protein_coding"	"YES"	"CCDS56387.1"	"ENSP00000343690"	"Q14195"	"F5GWI3"	"UPI000020CF0E"	"NM_001197294.1"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c3b71350-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"11882"	"SPINK5"	11005	"mskcc.org"	"GRCh37"	"5"	147438465	147438465	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-182-4961C>G"	""	""	"ENST00000521206"	""	75	"69"	6	40	"40"	0	"SPINK5,intron_variant,,ENST00000521206,;"	"G"	"ENSG00000133710"	"ENST00000521206"	"Transcript"	"intron_variant"	"-/492"	"-/206"	"-/68"	""	""	""	"1"	NA	1	"SPINK5"	"HGNC"	15464	"protein_coding"	""	""	"ENSP00000430264"	""	"E5RG22"	"UPI0001E8F6B5"	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"c3b73682-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"11883"	"SPINK5"	11005	"mskcc.org"	"GRCh37"	"5"	147438478	147438478	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-182-4948A>G"	""	""	"ENST00000521206"	""	76	"69"	7	41	"41"	0	"SPINK5,intron_variant,,ENST00000521206,;"	"G"	"ENSG00000133710"	"ENST00000521206"	"Transcript"	"intron_variant"	"-/492"	"-/206"	"-/68"	""	""	""	"1"	NA	1	"SPINK5"	"HGNC"	15464	"protein_coding"	""	""	"ENSP00000430264"	""	"E5RG22"	"UPI0001E8F6B5"	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"c3b7375e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"11884"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	147522043	147522043	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"60"	31	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c3b73e3e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340659340659341	"WGS"	FALSE
"11885"	"ARHGEF37"	389337	"mskcc.org"	"GRCh37"	"5"	149009824	149009824	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1818+1295G>T"	""	""	"ENST00000333677"	""	95	"58"	37	49	"49"	0	"ARHGEF37,intron_variant,,ENST00000333677,NM_001001669.2;ARHGEF37,intron_variant,,ENST00000509831,;"	"T"	"ENSG00000183111"	"ENST00000333677"	"Transcript"	"intron_variant"	"-/4968"	"-/2028"	"-/675"	""	""	""	"1"	NA	1	"ARHGEF37"	"HGNC"	34430	"protein_coding"	"YES"	"CCDS43385.1"	"ENSP00000328083"	"A1IGU5"	"D6RJH4"	"UPI00001D7F04"	"NM_001001669.2"	""	""	""	"12/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c3b78024-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.389473684210526	"WGS"	FALSE
"11886"	"GLRA1"	2741	"mskcc.org"	"GRCh37"	"5"	151302576	151302576	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.56+1479G>A"	""	""	"ENST00000455880"	""	106	"97"	9	57	"57"	0	"GLRA1,intron_variant,,ENST00000274576,NM_001146040.1,NM_000171.3;GLRA1,intron_variant,,ENST00000455880,;GLRA1,intron_variant,,ENST00000545569,;GLRA1,intron_variant,,ENST00000471351,;GLRA1,intron_variant,,ENST00000462581,;"	"T"	"ENSG00000145888"	"ENST00000455880"	"Transcript"	"intron_variant"	"-/1707"	"-/1374"	"-/457"	""	""	""	"1"	NA	-1	"GLRA1"	"HGNC"	4326	"protein_coding"	"YES"	"CCDS54942.1"	"ENSP00000411593"	"P23415"	""	"UPI0000DA6BF2"	""	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"c3b84e96-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0849056603773585	"WGS"	FALSE
"11887"	"AC091969.1"	101927134	"mskcc.org"	"GRCh37"	"5"	152120706	152120706	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs560565005"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.235-56361C>T"	""	""	"ENST00000522300"	""	82	"57"	25	55	"55"	0	"AC091969.1,intron_variant,,ENST00000522300,;AC091969.1,intron_variant,,ENST00000503048,;"	"A"	"ENSG00000249484"	"ENST00000522300"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2108"	""	""	""	""	"rs560565005"	"1"	NA	-1	"AC091969.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c3b86372-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304878048780488	"WGS"	FALSE
"11888"	"GRIA1"	2890	"mskcc.org"	"GRCh37"	"5"	152957721	152957721	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.251-68767A>G"	""	""	"ENST00000518783"	""	44	"38"	6	21	"20"	1	"GRIA1,intron_variant,,ENST00000285900,NM_000827.3,NM_001258019.1;GRIA1,intron_variant,,ENST00000518783,NM_001258021.1;GRIA1,intron_variant,,ENST00000340592,NM_001258020.1,NM_001114183.1;GRIA1,intron_variant,,ENST00000521843,NM_001258023.1;GRIA1,intron_variant,,ENST00000448073,NM_001258022.1;GRIA1,intron_variant,,ENST00000518142,;GRIA1,intron_variant,,ENST00000518862,;GRIA1,intron_variant,,ENST00000520966,;GRIA1,intron_variant,,ENST00000481559,;"	"G"	"ENSG00000155511"	"ENST00000518783"	"Transcript"	"intron_variant"	"-/5233"	"-/2751"	"-/916"	""	""	""	"1"	NA	1	"GRIA1"	"HGNC"	4571	"protein_coding"	"YES"	"CCDS58987.1"	"ENSP00000428994"	"P42261"	""	"UPI0001E8F433"	"NM_001258021.1"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c3b88ca8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"11889"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	154668066	154668066	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"83"	19	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c3b8e89c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186274509803922	"WGS"	FALSE
"11890"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	154826451	154826451	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"79"	11	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c3b8eb3a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122222222222222	"WGS"	FALSE
"11891"	"SGCD"	6444	"mskcc.org"	"GRCh37"	"5"	155521553	155521553	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-281-23335G>A"	""	""	"ENST00000517913"	""	80	"57"	23	73	"73"	0	"SGCD,intron_variant,,ENST00000517913,;"	"A"	"ENSG00000170624"	"ENST00000517913"	"Transcript"	"intron_variant"	"-/1412"	"-/771"	"-/256"	""	""	""	"1"	NA	1	"SGCD"	"HGNC"	10807	"protein_coding"	""	"CCDS47326.1"	"ENSP00000429378"	"Q92629"	""	"UPI000014A6BA"	""	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"c3b8fdf0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2875	"WGS"	FALSE
"11892"	"SGCD"	6444	"mskcc.org"	"GRCh37"	"5"	155644160	155644160	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-44+93131G>A"	""	""	"ENST00000517913"	""	103	"67"	36	66	"66"	0	"SGCD,intron_variant,,ENST00000517913,;"	"A"	"ENSG00000170624"	"ENST00000517913"	"Transcript"	"intron_variant"	"-/1412"	"-/771"	"-/256"	""	""	""	"1"	NA	1	"SGCD"	"HGNC"	10807	"protein_coding"	""	"CCDS47326.1"	"ENSP00000429378"	"Q92629"	""	"UPI000014A6BA"	""	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"c3b8ffa8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349514563106796	"WGS"	FALSE
"11893"	"HAVCR1"	26762	"mskcc.org"	"GRCh37"	"5"	156472235	156472235	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.782-2542A>T"	""	""	"ENST00000339252"	""	121	"114"	7	66	"66"	0	"HAVCR1,intron_variant,,ENST00000339252,NM_012206.2;HAVCR1,intron_variant,,ENST00000425854,;HAVCR1,intron_variant,,ENST00000522693,;HAVCR1,intron_variant,,ENST00000544197,NM_001099414.1;HAVCR1,intron_variant,,ENST00000523175,NM_001173393.1;HAVCR1,intron_variant,,ENST00000517644,;"	"A"	"ENSG00000113249"	"ENST00000339252"	"Transcript"	"intron_variant"	"-/1845"	"-/1095"	"-/364"	""	""	""	"1"	NA	-1	"HAVCR1"	"HGNC"	17866	"protein_coding"	"YES"	"CCDS43392.1"	"ENSP00000344844"	"Q96D42"	"E5RIF6"	"UPI000006EEEC"	"NM_012206.2"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c3b92a64-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0578512396694215	"WGS"	FALSE
"11894"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	157206841	157206841	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"69"	27	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c3b95f16-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28125	"WGS"	FALSE
"11895"	"ATP10B"	23120	"mskcc.org"	"GRCh37"	"5"	160102151	160102151	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.471-4477C>A"	""	""	"ENST00000327245"	""	91	"60"	31	44	"44"	0	"ATP10B,intron_variant,,ENST00000327245,NM_025153.2;ATP10B,intron_variant,,ENST00000326831,;ATP10B,intron_variant,,ENST00000517802,;ATP10B,intron_variant,,ENST00000521033,;"	"T"	"ENSG00000118322"	"ENST00000327245"	"Transcript"	"intron_variant"	"-/7566"	"-/4386"	"-/1461"	""	""	""	"1"	NA	-1	"ATP10B"	"HGNC"	13543	"protein_coding"	"YES"	"CCDS43394.1"	"ENSP00000313600"	"O94823"	""	"UPI0000191DAE"	"NM_025153.2"	""	""	""	"6/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c3b9fe44-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340659340659341	"WGS"	FALSE
"11896"	"GABRA1"	2554	"mskcc.org"	"GRCh37"	"5"	161280301	161280301	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.75-863A>G"	""	""	"ENST00000428797"	""	90	"58"	32	66	"66"	0	"GABRA1,intron_variant,,ENST00000428797,NM_001127643.1;GABRA1,intron_variant,,ENST00000444819,;GABRA1,intron_variant,,ENST00000437025,NM_001127645.1;GABRA1,intron_variant,,ENST00000420560,NM_001127648.1;GABRA1,intron_variant,,ENST00000393943,NM_001127644.1;GABRA1,intron_variant,,ENST00000023897,NM_000806.5;GABRA1,intron_variant,,ENST00000519621,;GABRA1,intron_variant,,ENST00000522651,;GABRA1,intron_variant,,ENST00000521339,;"	"G"	"ENSG00000022355"	"ENST00000428797"	"Transcript"	"intron_variant"	"-/4273"	"-/1371"	"-/456"	""	""	""	"1"	NA	1	"GABRA1"	"HGNC"	4075	"protein_coding"	"YES"	"CCDS4357.1"	"ENSP00000393097"	"P14867"	"E5RK60,E5RJS3"	"UPI000012AF95"	"NM_001127643.1"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"c3ba3dc8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355555555555556	"WGS"	FALSE
"11897"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	161476016	161476016	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"69"	20	61	"61"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c3ba4494-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224719101123595	"WGS"	FALSE
"11898"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	162081947	162081947	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"94"	7	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c3ba5d62-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0693069306930693	"WGS"	FALSE
"11899"	"CTC-207P7.1"	0	"mskcc.org"	"GRCh37"	"5"	163592136	163592136	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.495+29015T>C"	""	""	"ENST00000521805"	""	86	"51"	35	50	"50"	0	"CTC-207P7.1,intron_variant,,ENST00000521805,;"	"G"	"ENSG00000253331"	"ENST00000521805"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/674"	""	""	""	""	""	"1"	NA	-1	"CTC-207P7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c3ba9660-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.406976744186047	"WGS"	FALSE
"11900"	"CTC-340A15.2"	102546299	"mskcc.org"	"GRCh37"	"5"	164014919	164014919	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.159-13062G>A"	""	""	"ENST00000486913"	""	71	"54"	17	62	"61"	1	"CTC-340A15.2,intron_variant,,ENST00000486913,;CTC-340A15.2,intron_variant,,ENST00000517508,;CTC-340A15.2,intron_variant,,ENST00000519570,;CTC-340A15.2,intron_variant,,ENST00000522646,;CTC-340A15.2,intron_variant,,ENST00000522303,;CTC-340A15.2,intron_variant,,ENST00000523704,;"	"A"	"ENSG00000241956"	"ENST00000486913"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1618"	""	""	""	""	""	"1"	NA	1	"CTC-340A15.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c3baaee8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23943661971831	"WGS"	FALSE
"11901"	"CTC-340A15.2"	102546299	"mskcc.org"	"GRCh37"	"5"	164199108	164199108	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.346+49295C>T"	""	""	"ENST00000519570"	""	97	"90"	7	55	"55"	0	"CTC-340A15.2,intron_variant,,ENST00000519570,;CTC-340A15.2,intron_variant,,ENST00000522646,;CTC-340A15.2,intron_variant,,ENST00000522303,;"	"T"	"ENSG00000241956"	"ENST00000519570"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/717"	""	""	""	""	""	"1"	NA	1	"CTC-340A15.2"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c3bab7f8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0721649484536082	"WGS"	FALSE
"11902"	"CTC-535M15.2"	0	"mskcc.org"	"GRCh37"	"5"	164868436	164868436	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.21+92380C>T"	""	""	"ENST00000522189"	""	107	"84"	23	53	"53"	0	"CTC-535M15.2,intron_variant,,ENST00000522189,;"	"T"	"ENSG00000253693"	"ENST00000522189"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/734"	""	""	""	""	""	"1"	NA	1	"CTC-535M15.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c3bad9ae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214953271028037	"WGS"	FALSE
"11903"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	165865417	165865417	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	40	"28"	12	24	"24"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c3bb0bd6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"11904"	"RANBP17"	64901	"mskcc.org"	"GRCh37"	"5"	170359501	170359501	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1468+7947G>A"	""	""	"ENST00000523189"	""	92	"79"	13	59	"59"	0	"RANBP17,intron_variant,,ENST00000523189,NM_022897.3;RANBP17,intron_variant,,ENST00000522380,;RANBP17,intron_variant,,ENST00000520879,;RANBP17,intron_variant,,ENST00000522066,;RANBP17,intron_variant,,ENST00000519949,;RANBP17,intron_variant,,ENST00000520864,;RANBP17,intron_variant,,ENST00000522533,;RANBP17,intron_variant,,ENST00000389118,;RANBP17,intron_variant,,ENST00000519256,;"	"A"	"ENSG00000204764"	"ENST00000523189"	"Transcript"	"intron_variant"	"-/4588"	"-/3267"	"-/1088"	""	""	""	"1"	NA	1	"RANBP17"	"HGNC"	14428	"protein_coding"	"YES"	"CCDS34287.1"	"ENSP00000427975"	"Q9H2T7"	"Q546R4,E5RHX1"	"UPI000000107C"	"NM_022897.3"	""	""	""	"12/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c3bbf01e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141304347826087	"WGS"	TRUE
"11905"	"NPM1"	4869	"mskcc.org"	"GRCh37"	"5"	170830783	170830783	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.670-1523A>T"	""	""	"ENST00000296930"	""	39	"35"	4	14	"14"	0	"NPM1,intron_variant,,ENST00000296930,NM_002520.6;NPM1,intron_variant,,ENST00000393820,NM_001037738.2;NPM1,intron_variant,,ENST00000517671,;NPM1,intron_variant,,ENST00000351986,NM_199185.3;NPM1,downstream_gene_variant,,ENST00000521672,;NPM1,intron_variant,,ENST00000519955,;NPM1,upstream_gene_variant,,ENST00000524204,;"	"T"	"ENSG00000181163"	"ENST00000296930"	"Transcript"	"intron_variant"	"-/1758"	"-/885"	"-/294"	""	""	""	"1"	NA	1	"NPM1"	"HGNC"	7910	"protein_coding"	"YES"	"CCDS4376.1"	"ENSP00000296930"	"P06748"	"Q9BTI9,E5RI98"	"UPI00001303ED"	"NM_002520.6"	""	""	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"c3bc110c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	TRUE
"11906"	"FBXW11"	23291	"mskcc.org"	"GRCh37"	"5"	171426662	171426662	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.45+6800G>A"	""	""	"ENST00000265094"	""	82	"63"	19	59	"59"	0	"FBXW11,intron_variant,,ENST00000296933,NM_033645.2,NM_033644.2;FBXW11,intron_variant,,ENST00000265094,NM_012300.2;FBXW11,intron_variant,,ENST00000393802,;FBXW11,intron_variant,,ENST00000517395,;FBXW11,upstream_gene_variant,,ENST00000425623,;FBXW11,intron_variant,,ENST00000522507,;FBXW11,intron_variant,,ENST00000523843,;FBXW11,intron_variant,,ENST00000519693,;FBXW11,intron_variant,,ENST00000520376,;"	"T"	"ENSG00000072803"	"ENST00000265094"	"Transcript"	"intron_variant"	"-/4342"	"-/1629"	"-/542"	""	""	""	"1"	NA	-1	"FBXW11"	"HGNC"	13607	"protein_coding"	"YES"	"CCDS34289.1"	"ENSP00000265094"	"Q9UKB1"	""	"UPI000012ADB8"	"NM_012300.2"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c3bc3cb8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231707317073171	"WGS"	FALSE
"11907"	"SH3PXD2B"	285590	"mskcc.org"	"GRCh37"	"5"	171858978	171858978	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.76-9478G>A"	""	""	"ENST00000311601"	""	93	"60"	33	47	"47"	0	"SH3PXD2B,intron_variant,,ENST00000311601,NM_001017995.2;SH3PXD2B,intron_variant,,ENST00000519643,;"	"T"	"ENSG00000174705"	"ENST00000311601"	"Transcript"	"intron_variant"	"-/7777"	"-/2736"	"-/911"	""	""	""	"1"	NA	-1	"SH3PXD2B"	"HGNC"	29242	"protein_coding"	"YES"	"CCDS34291.1"	"ENSP00000309714"	"A1X283"	""	"UPI000020C12E"	"NM_001017995.2"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"c3bc5eb4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354838709677419	"WGS"	FALSE
"11908"	"NSG2"	51617	"mskcc.org"	"GRCh37"	"5"	173654888	173654888	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*19-14797G>A"	""	""	"ENST00000521585"	""	84	"54"	30	43	"43"	0	"NSG2,intron_variant,,ENST00000521585,;"	"A"	"ENSG00000170091"	"ENST00000521585"	"Transcript"	"intron_variant"	"-/1260"	"-/300"	"-/99"	""	""	""	"1"	NA	1	"NSG2"	"Uniprot_gn"	NA	"protein_coding"	""	""	"ENSP00000429863"	""	"E5RH73"	"UPI0001E8F2B0"	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c3bcfbda-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WGS"	FALSE
"11909"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	174779832	174779832	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"62"	5	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c3bd3f82-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0746268656716418	"WGS"	FALSE
"11910"	"UIMC1"	51720	"mskcc.org"	"GRCh37"	"5"	176416398	176416398	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-8-6774T>G"	""	""	"ENST00000377227"	""	101	"94"	7	40	"40"	0	"UIMC1,intron_variant,,ENST00000377219,NM_016290.4;UIMC1,intron_variant,,ENST00000377227,;UIMC1,intron_variant,,ENST00000511320,NM_001199297.1,NM_001199298.1;UIMC1,intron_variant,,ENST00000506128,;UIMC1,intron_variant,,ENST00000509236,;UIMC1,intron_variant,,ENST00000507513,;UIMC1,intron_variant,,ENST00000428382,;UIMC1,intron_variant,,ENST00000512031,;UIMC1,intron_variant,,ENST00000510698,;UIMC1,intron_variant,,ENST00000417486,;UIMC1,intron_variant,,ENST00000515488,;"	"C"	"ENSG00000087206"	"ENST00000377227"	"Transcript"	"intron_variant"	"-/2570"	"-/2160"	"-/719"	""	""	""	"1"	NA	-1	"UIMC1"	"HGNC"	30298	"protein_coding"	"YES"	"CCDS4408.1"	"ENSP00000366434"	"Q96RL1"	"D6RDZ5,D6RC40,D6R9M3"	"UPI00001A9954"	""	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c3be0ac0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0693069306930693	"WGS"	FALSE
"11911"	"GMCL1P1"	64396	"mskcc.org"	"GRCh37"	"5"	177614930	177614930	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000463439"	""	77	"54"	23	63	"63"	0	"GMCL1P1,upstream_gene_variant,,ENST00000463439,;"	"A"	"ENSG00000244234"	"ENST00000463439"	"Transcript"	"upstream_gene_variant"	"-/1581"	""	""	""	""	""	"1"	"630"	-1	"GMCL1P1"	"HGNC"	19717	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c3bed680-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298701298701299	"WGS"	FALSE
"11912"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	178838941	178838941	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	27	"22"	5	18	"18"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c3bf65dc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WGS"	FALSE
"11913"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	178871065	178871065	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"56"	23	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c3bf70cc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291139240506329	"WGS"	FALSE
"11914"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	179820154	179820154	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"78"	8	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c3bffa38-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"11915"	"BTNL8"	79908	"mskcc.org"	"GRCh37"	"5"	180375570	180375570	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.808+195G>A"	""	""	"ENST00000340184"	""	48	"34"	14	50	"50"	0	"BTNL8,intron_variant,,ENST00000231229,NM_024850.2,NM_001159708.1;BTNL8,intron_variant,,ENST00000340184,NM_001040462.2;BTNL8,intron_variant,,ENST00000508408,;BTNL8,intron_variant,,ENST00000533815,NM_001159710.1;BTNL8,intron_variant,,ENST00000400707,NM_001159709.1;BTNL8,intron_variant,,ENST00000505126,;BTNL8,intron_variant,,ENST00000511704,NM_001159707.1;BTNL8,non_coding_transcript_exon_variant,,ENST00000513442,;BTNL8,intron_variant,,ENST00000503543,;BTNL8,downstream_gene_variant,,ENST00000514448,;RPS29P12,downstream_gene_variant,,ENST00000460178,;"	"A"	"ENSG00000113303"	"ENST00000340184"	"Transcript"	"intron_variant"	"-/2071"	"-/1503"	"-/500"	""	""	""	"1"	NA	1	"BTNL8"	"HGNC"	26131	"protein_coding"	"YES"	"CCDS43413.1"	"ENSP00000342197"	"Q6UX41"	"D6RIR7"	"UPI00000389ED"	"NM_001040462.2"	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c3c042a4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WGS"	FALSE
"11916"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	1489958	1489958	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"88"	17	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c3c11ca6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161904761904762	"WGS"	FALSE
"11917"	"SERPINB6"	5269	"mskcc.org"	"GRCh37"	"6"	2947151	2947151	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000380520"	""	109	"100"	9	43	"43"	0	"SERPINB6,downstream_gene_variant,,ENST00000380520,;SERPINB6,downstream_gene_variant,,ENST00000335686,NM_001271824.1,NM_004568.5,NM_001195291.2;SERPINB6,downstream_gene_variant,,ENST00000380524,NM_001271825.1;SERPINB6,downstream_gene_variant,,ENST00000380546,NM_001271823.1;SERPINB6,downstream_gene_variant,,ENST00000380529,NM_001271822.1;SERPINB6,downstream_gene_variant,,ENST00000380539,;"	"G"	"ENSG00000124570"	"ENST00000380520"	"Transcript"	"downstream_gene_variant"	"-/3265"	"-/1131"	"-/376"	""	""	""	"1"	"1242"	-1	"SERPINB6"	"HGNC"	8950	"protein_coding"	"YES"	"CCDS4479.1"	"ENSP00000369891"	"P35237"	"Q8IXH2"	"UPI000013FEA1"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"c3c1843e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0825688073394495	"WGS"	FALSE
"11918"	"PXDC1"	221749	"mskcc.org"	"GRCh37"	"6"	3739928	3739928	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs568808834"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.257-1546C>T"	""	""	"ENST00000380283"	""	106	"71"	35	58	"58"	0	"PXDC1,intron_variant,,ENST00000380283,NM_183373.3;PXDC1,upstream_gene_variant,,ENST00000380277,;PXDC1,intron_variant,,ENST00000477592,;PXDC1,intron_variant,,ENST00000485986,;"	"A"	"ENSG00000168994"	"ENST00000380283"	"Transcript"	"intron_variant"	"-/2190"	"-/696"	"-/231"	""	""	"rs568808834"	"1"	NA	-1	"PXDC1"	"HGNC"	21361	"protein_coding"	"YES"	"CCDS4486.1"	"ENSP00000369636"	"Q5TGL8"	""	"UPI000013EB28"	"NM_183373.3"	""	""	""	"1/4"	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c3c1c958-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330188679245283	"WGS"	FALSE
"11919"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	4239883	4239883	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"64"	33	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c3c1eb18-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34020618556701	"WGS"	FALSE
"11920"	"LYRM4"	57128	"mskcc.org"	"GRCh37"	"6"	5188739	5188739	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.208-1525G>C"	""	""	"ENST00000500576"	""	94	"88"	6	68	"68"	0	"LYRM4,intron_variant,,ENST00000330636,NM_020408.5;LYRM4,intron_variant,,ENST00000464010,NM_001164841.1;LYRM4,intron_variant,,ENST00000468929,;LYRM4,intron_variant,,ENST00000480566,;LYRM4,intron_variant,,ENST00000500576,NM_001164840.1;LYRM4,intron_variant,,ENST00000463032,;"	"G"	"ENSG00000214113"	"ENST00000500576"	"Transcript"	"intron_variant"	"-/794"	"-/393"	"-/130"	""	""	""	"1"	NA	-1	"LYRM4"	"HGNC"	21365	"protein_coding"	"YES"	"CCDS54962.1"	"ENSP00000443900"	""	"F5H189"	"UPI0001B71BCB"	"NM_001164840.1"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"c3c22196-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"11921"	"F13A1"	2162	"mskcc.org"	"GRCh37"	"6"	6247742	6247742	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"rs769699309"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.798+803G>C"	""	""	"ENST00000264870"	""	74	"69"	5	67	"67"	0	"F13A1,intron_variant,,ENST00000264870,NM_000129.3;F13A1,downstream_gene_variant,,ENST00000479211,;"	"G"	"ENSG00000124491"	"ENST00000264870"	"Transcript"	"intron_variant"	"-/3999"	"-/2199"	"-/732"	""	""	"rs769699309"	"1"	NA	-1	"F13A1"	"HGNC"	3531	"protein_coding"	"YES"	"CCDS4496.1"	"ENSP00000264870"	"P00488"	"Q9NQP5"	"UPI000013D585"	"NM_000129.3"	""	""	""	"6/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"c3c25c6a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0675675675675676	"WGS"	FALSE
"11922"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	8478732	8478732	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"71"	8	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"c3c2e41e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10126582278481	"WGS"	FALSE
"11923"	"MAK"	4117	"mskcc.org"	"GRCh37"	"6"	10813476	10813476	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.358+401C>G"	""	""	"ENST00000313243"	""	51	"46"	5	26	"26"	0	"MAK,intron_variant,,ENST00000313243,;MAK,intron_variant,,ENST00000474039,NM_001242957.1,NM_001242385.1,NM_005906.4;MAK,intron_variant,,ENST00000354489,;MAK,intron_variant,,ENST00000538030,;MAK,intron_variant,,ENST00000536370,;SYCP2L,intron_variant,,ENST00000543878,;TMEM14B,intron_variant,,ENST00000489137,;TMEM14B,intron_variant,,ENST00000463448,;RP11-637O19.3,intron_variant,,ENST00000480294,;TMEM14B,intron_variant,,ENST00000473166,;TMEM14B,intron_variant,,ENST00000460341,;TMEM14B,intron_variant,,ENST00000463100,;TMEM14B,intron_variant,,ENST00000467229,;"	"C"	"ENSG00000111837"	"ENST00000313243"	"Transcript"	"intron_variant"	"-/3984"	"-/1872"	"-/623"	""	""	""	"1"	NA	-1	"MAK"	"HGNC"	6816	"protein_coding"	"YES"	"CCDS4516.1"	"ENSP00000313021"	"P20794"	""	"UPI0000001BCD"	""	""	""	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"c3c38126-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0980392156862745	"WGS"	FALSE
"11924"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	11698202	11698202	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"66"	34	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c3c3b29a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34	"WGS"	FALSE
"11925"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	12590910	12590910	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"107"	7	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c3c3e184-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0614035087719298	"WGS"	FALSE
"11926"	"RP11-146I2.1"	0	"mskcc.org"	"GRCh37"	"6"	15080174	15080174	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.229-112G>A"	""	""	"ENST00000437648"	""	102	"76"	26	33	"33"	0	"RP11-146I2.1,intron_variant,,ENST00000437648,;"	"T"	"ENSG00000234261"	"ENST00000437648"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1017"	""	""	""	""	""	"1"	NA	-1	"RP11-146I2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c3c47d10-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254901960784314	"WGS"	FALSE
"11927"	"RN7SL332P"	0	"mskcc.org"	"GRCh37"	"6"	15113217	15113217	"+"	"RNA"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.19C>T"	""	""	"ENST00000482163"	"1/1"	106	"98"	8	55	"55"	0	"RN7SL332P,non_coding_transcript_exon_variant,,ENST00000482163,;"	"T"	"ENSG00000242989"	"ENST00000482163"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"19/252"	""	""	""	""	""	"1"	NA	1	"RN7SL332P"	"HGNC"	46348	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c3c487ce-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0754716981132075	"WGS"	FALSE
"11928"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	18589689	18589689	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"75"	25	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c3c58584-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"11929"	"RP11-239H6.2"	0	"mskcc.org"	"GRCh37"	"6"	20282458	20282458	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.92-12149C>A"	""	""	"ENST00000449143"	""	59	"48"	11	61	"61"	0	"RP11-239H6.2,intron_variant,,ENST00000449143,;"	"A"	"ENSG00000227803"	"ENST00000449143"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/380"	""	""	""	""	""	"1"	NA	1	"RP11-239H6.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c3c5d552-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186440677966102	"WGS"	FALSE
"11930"	"RP11-239H6.2"	0	"mskcc.org"	"GRCh37"	"6"	20295499	20295499	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.191+793A>T"	""	""	"ENST00000449143"	""	89	"68"	21	71	"71"	0	"RP11-239H6.2,intron_variant,,ENST00000449143,;"	"T"	"ENSG00000227803"	"ENST00000449143"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/380"	""	""	""	""	""	"1"	NA	1	"RP11-239H6.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c3c5d638-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235955056179775	"WGS"	FALSE
"11931"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	21290630	21290630	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"77"	6	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c3c61198-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"11932"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	21301233	21301233	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"84"	8	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c3c61526-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"11933"	"LRRC16A"	55604	"mskcc.org"	"GRCh37"	"6"	25489498	25489498	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1065+685T>C"	""	""	"ENST00000329474"	""	101	"70"	31	67	"67"	0	"LRRC16A,intron_variant,,ENST00000329474,NM_001173977.1,NM_017640.5;"	"C"	"ENSG00000079691"	"ENST00000329474"	"Transcript"	"intron_variant"	"-/5431"	"-/4116"	"-/1371"	""	""	""	"1"	NA	1	"LRRC16A"	"HGNC"	21581	"protein_coding"	"YES"	"CCDS54973.1"	"ENSP00000331983"	"Q5VZK9"	""	"UPI00004588AB"	"NM_001173977.1,NM_017640.5"	""	""	""	"13/36"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c3c7184a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306930693069307	"WGS"	FALSE
"11934"	"LRRC16A"	55604	"mskcc.org"	"GRCh37"	"6"	25520629	25520629	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1968+64A>C"	""	""	"ENST00000329474"	""	86	"58"	28	59	"59"	0	"LRRC16A,intron_variant,,ENST00000329474,NM_001173977.1,NM_017640.5;"	"C"	"ENSG00000079691"	"ENST00000329474"	"Transcript"	"intron_variant"	"-/5431"	"-/4116"	"-/1371"	""	""	""	"1"	NA	1	"LRRC16A"	"HGNC"	21581	"protein_coding"	"YES"	"CCDS54973.1"	"ENSP00000331983"	"Q5VZK9"	""	"UPI00004588AB"	"NM_001173977.1,NM_017640.5"	""	""	""	"23/36"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c3c71930-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325581395348837	"WGS"	FALSE
"11935"	"TRNAI6"	0	"mskcc.org"	"GRCh37"	"6"	27595225	27595225	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000458896"	""	105	"96"	9	46	"46"	0	"TRNAI6,upstream_gene_variant,,ENST00000458896,;"	"G"	"ENSG00000238648"	"ENST00000458896"	"Transcript"	"upstream_gene_variant"	"-/124"	""	""	""	""	""	"1"	"3963"	1	"TRNAI6"	"HGNC"	34693	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c3c7b3fe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"11936"	"KRT18P1"	0	"mskcc.org"	"GRCh37"	"6"	28938002	28938002	"+"	"RNA"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.236G>T"	""	""	"ENST00000452408"	"1/1"	71	"52"	19	51	"51"	0	"KRT18P1,non_coding_transcript_exon_variant,,ENST00000452408,;"	"A"	"ENSG00000228666"	"ENST00000452408"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"236/1331"	""	""	""	""	""	"1"	NA	-1	"KRT18P1"	"HGNC"	6434	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c3c82406-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267605633802817	"WGS"	FALSE
"11937"	"KRT18P1"	0	"mskcc.org"	"GRCh37"	"6"	28938003	28938003	"+"	"RNA"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.235G>T"	""	""	"ENST00000452408"	"1/1"	75	"56"	19	48	"48"	0	"KRT18P1,non_coding_transcript_exon_variant,,ENST00000452408,;"	"A"	"ENSG00000228666"	"ENST00000452408"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"235/1331"	""	""	""	""	""	"1"	NA	-1	"KRT18P1"	"HGNC"	6434	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c3c8258c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253333333333333	"WGS"	FALSE
"11938"	"RPS10-NUDT3"	100529239	"mskcc.org"	"GRCh37"	"6"	34381801	34381801	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.456+4345G>A"	""	""	"ENST00000605528"	""	96	"88"	8	49	"49"	0	"RPS10-NUDT3,intron_variant,,ENST00000605528,NM_001202470.2;RPS10,downstream_gene_variant,,ENST00000344700,;RPS10,downstream_gene_variant,,ENST00000326199,NM_001014.4,NM_001204091.1,NM_001203245.2;RPS10,downstream_gene_variant,,ENST00000494077,;RPS10,downstream_gene_variant,,ENST00000467531,;RPS10,downstream_gene_variant,,ENST00000464218,;"	"T"	"ENSG00000270800"	"ENST00000605528"	"Transcript"	"intron_variant"	"-/876"	"-/859"	"-/286"	""	""	""	"1"	NA	-1	"RPS10-NUDT3"	"HGNC"	49181	"protein_coding"	"YES"	""	"ENSP00000475027"	""	"S4R435"	"UPI0003335061"	"NM_001202470.2"	""	""	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c3cff028-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"11939"	"BRPF3"	27154	"mskcc.org"	"GRCh37"	"6"	36187539	36187539	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3083+1752G>C"	""	""	"ENST00000357641"	""	76	"56"	20	39	"38"	1	"BRPF3,intron_variant,,ENST00000357641,NM_015695.2;BRPF3,intron_variant,,ENST00000339717,;BRPF3,intron_variant,,ENST00000543502,;BRPF3,intron_variant,,ENST00000443324,;BRPF3,intron_variant,,ENST00000534694,;BRPF3,intron_variant,,ENST00000534400,;BRPF3,intron_variant,,ENST00000441123,;BRPF3,intron_variant,,ENST00000449261,;BRPF3,intron_variant,,ENST00000532330,;BRPF3,intron_variant,,ENST00000441730,;"	"C"	"ENSG00000096070"	"ENST00000357641"	"Transcript"	"intron_variant"	"-/6052"	"-/3618"	"-/1205"	""	""	""	"1"	NA	1	"BRPF3"	"HGNC"	14256	"protein_coding"	"YES"	"CCDS34437.1"	"ENSP00000350267"	"Q9ULD4"	"A8WI62,A8WI61"	"UPI00001C1E4C"	"NM_015695.2"	""	""	""	"9/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c3d09a28-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"11940"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"6"	36640983	36640983	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516055"	""	77	"67"	10	57	"57"	0	"CDKN1A,upstream_gene_variant,,ENST00000448526,;Y_RNA,downstream_gene_variant,,ENST00000516055,;CDKN1A,upstream_gene_variant,,ENST00000459970,;LAP3P2,upstream_gene_variant,,ENST00000454686,;"	"G"	"ENSG00000251864"	"ENST00000516055"	"Transcript"	"downstream_gene_variant"	"-/107"	""	""	""	""	""	"1"	"262"	1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c3d0c5a2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12987012987013	"WGS"	FALSE
"11941"	"KIF6"	221458	"mskcc.org"	"GRCh37"	"6"	39432480	39432480	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1646-33543G>A"	""	""	"ENST00000287152"	""	85	"59"	26	69	"69"	0	"KIF6,intron_variant,,ENST00000287152,NM_145027.4;KIF6,intron_variant,,ENST00000458470,;KIF6,intron_variant,,ENST00000373216,;KIF6,intron_variant,,ENST00000373213,;KIF6,intron_variant,,ENST00000373215,;KIF6,intron_variant,,ENST00000538893,;"	"T"	"ENSG00000164627"	"ENST00000287152"	"Transcript"	"intron_variant"	"-/9082"	"-/2445"	"-/814"	""	""	""	"1"	NA	-1	"KIF6"	"HGNC"	21202	"protein_coding"	"YES"	"CCDS4844.1"	"ENSP00000287152"	"Q6ZMV9"	""	"UPI0000457436"	"NM_145027.4"	""	""	""	"13/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c3d19dc4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305882352941176	"WGS"	FALSE
"11942"	"DAAM2"	23500	"mskcc.org"	"GRCh37"	"6"	39761750	39761750	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-57+831G>A"	""	""	"ENST00000398904"	""	98	"70"	28	74	"74"	0	"DAAM2,intron_variant,,ENST00000538976,NM_015345.3;DAAM2,intron_variant,,ENST00000398904,;DAAM2,intron_variant,,ENST00000274867,NM_001201427.1;"	"A"	"ENSG00000146122"	"ENST00000398904"	"Transcript"	"intron_variant"	"-/6220"	"-/3207"	"-/1068"	""	""	""	"1"	NA	1	"DAAM2"	"HGNC"	18143	"protein_coding"	"YES"	"CCDS56426.1"	"ENSP00000381876"	"Q86T65"	""	"UPI000020DC88"	""	""	""	""	"1/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c3d1a83c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"11943"	"UBR2"	23304	"mskcc.org"	"GRCh37"	"6"	42569732	42569732	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.532-1594T>C"	""	""	"ENST00000372899"	""	29	"25"	4	17	"17"	0	"UBR2,intron_variant,,ENST00000372899,NM_015255.2;UBR2,intron_variant,,ENST00000372901,;UBR2,intron_variant,,ENST00000372903,NM_001184801.1;"	"C"	"ENSG00000024048"	"ENST00000372899"	"Transcript"	"intron_variant"	"-/7857"	"-/5268"	"-/1755"	""	""	""	"1"	NA	1	"UBR2"	"HGNC"	21289	"protein_coding"	"YES"	"CCDS4870.1"	"ENSP00000361990"	"Q8IWV8"	"B3KXG6"	"UPI0000074466"	"NM_015255.2"	""	""	""	"4/46"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"c3d2788e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WGS"	FALSE
"11944"	"GLTSCR1L"	23506	"mskcc.org"	"GRCh37"	"6"	42757241	42757241	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-102+7402A>C"	""	""	"ENST00000314073"	""	81	"75"	6	46	"46"	0	"GLTSCR1L,intron_variant,,ENST00000314073,;"	"C"	"ENSG00000112624"	"ENST00000314073"	"Transcript"	"intron_variant"	"-/6530"	"-/3240"	"-/1079"	""	""	""	"1"	NA	1	"GLTSCR1L"	"HGNC"	21111	"protein_coding"	"YES"	"CCDS34451.1"	"ENSP00000313933"	"Q6AI39"	""	"UPI0000161939"	""	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c3d2988c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"11945"	"POLH"	5429	"mskcc.org"	"GRCh37"	"6"	43548639	43548639	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-4-1414C>T"	""	""	"ENST00000372236"	""	64	"58"	6	36	"36"	0	"POLH,intron_variant,,ENST00000372236,NM_006502.2;POLH,intron_variant,,ENST00000372226,;POLH,intron_variant,,ENST00000535400,;POLH,intron_variant,,ENST00000443535,;XPO5,upstream_gene_variant,,ENST00000265351,NM_020750.2;XPO5,upstream_gene_variant,,ENST00000398799,;"	"T"	"ENSG00000170734"	"ENST00000372236"	"Transcript"	"intron_variant"	"-/3540"	"-/2142"	"-/713"	""	""	""	"1"	NA	1	"POLH"	"HGNC"	9181	"protein_coding"	"YES"	"CCDS4902.1"	"ENSP00000361310"	"Q9Y253"	"Q5JTF2,B4DG64,B3KN75"	"UPI000006F8FD"	"NM_006502.2"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"c3d2e6fc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"11946"	"RP1-261G23.4"	0	"mskcc.org"	"GRCh37"	"6"	43678726	43678726	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000406079"	""	82	"62"	20	51	"51"	0	"RP1-261G23.4,upstream_gene_variant,,ENST00000406079,;"	"A"	"ENSG00000218107"	"ENST00000406079"	"Transcript"	"upstream_gene_variant"	"-/803"	""	""	""	""	""	"1"	"4238"	-1	"RP1-261G23.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c3d2f0a2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24390243902439	"WGS"	FALSE
"11947"	"ENSR00001782148"	0	"mskcc.org"	"GRCh37"	"6"	44074107	44074107	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001782148"	""	109	"78"	31	67	"67"	0	""	"G"	""	"ENSR00001782148"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c3d32432-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284403669724771	"WGS"	FALSE
"11948"	"MRPL14"	64928	"mskcc.org"	"GRCh37"	"6"	44079405	44079405	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000372014"	""	84	"62"	22	38	"38"	0	"MRPL14,downstream_gene_variant,,ENST00000372014,NM_032111.2;"	"A"	"ENSG00000180992"	"ENST00000372014"	"Transcript"	"downstream_gene_variant"	"-/956"	"-/438"	"-/145"	""	""	""	"1"	"1789"	-1	"MRPL14"	"HGNC"	14279	"protein_coding"	"YES"	"CCDS34460.1"	"ENSP00000361084"	"Q6P1L8"	""	"UPI00000467E3"	"NM_032111.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c3d32518-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261904761904762	"WGS"	FALSE
"11949"	"SUPT3H"	8464	"mskcc.org"	"GRCh37"	"6"	45113197	45113197	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.135-39454C>T"	""	""	"ENST00000371460"	""	112	"77"	35	59	"59"	0	"SUPT3H,intron_variant,,ENST00000371460,NM_181356.2;SUPT3H,intron_variant,,ENST00000371459,NM_003599.3,NM_001261823.1;SUPT3H,intron_variant,,ENST00000371461,;SUPT3H,intron_variant,,ENST00000306867,;SUPT3H,intron_variant,,ENST00000475057,;"	"A"	"ENSG00000196284"	"ENST00000371460"	"Transcript"	"intron_variant"	"-/2389"	"-/987"	"-/328"	""	""	""	"1"	NA	-1	"SUPT3H"	"HGNC"	11466	"protein_coding"	"YES"	"CCDS34466.1"	"ENSP00000360515"	"O75486"	"B4E1H0"	"UPI000018CE7C"	"NM_181356.2"	""	""	""	"4/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c3d36a14-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"11950"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	50448688	50448688	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"86"	8	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c3d4259e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"11951"	"IL17A"	3605	"mskcc.org"	"GRCh37"	"6"	52050066	52050066	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000340057"	""	108	"80"	28	64	"64"	0	"IL17A,upstream_gene_variant,,ENST00000340057,NM_002190.2;"	"T"	"ENSG00000112115"	"ENST00000340057"	"Transcript"	"upstream_gene_variant"	"-/1859"	"-/468"	"-/155"	""	""	""	"1"	"1119"	1	"IL17A"	"HGNC"	5981	"protein_coding"	"YES"	"CCDS4937.1"	"ENSP00000344192"	"Q16552"	"D9MX03"	"UPI0000047D95"	"NM_002190.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c3d46356-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259259259259259	"WGS"	FALSE
"11952"	"RP11-392A23.4"	0	"mskcc.org"	"GRCh37"	"6"	52732343	52732343	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.86+2699A>T"	""	""	"ENST00000452866"	""	69	"63"	6	48	"48"	0	"RP11-392A23.4,intron_variant,,ENST00000452866,;"	"A"	"ENSG00000230375"	"ENST00000452866"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/669"	""	""	""	""	""	"1"	NA	-1	"RP11-392A23.4"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"c3d47968-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"11953"	"LRRC1"	55227	"mskcc.org"	"GRCh37"	"6"	53739545	53739545	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.278-4246A>G"	""	""	"ENST00000370888"	""	98	"73"	25	61	"61"	0	"LRRC1,intron_variant,,ENST00000370888,NM_018214.4;LRRC1,intron_variant,,ENST00000370882,;LRRC1,intron_variant,,ENST00000487251,;"	"G"	"ENSG00000137269"	"ENST00000370888"	"Transcript"	"intron_variant"	"-/3180"	"-/1575"	"-/524"	""	""	""	"1"	NA	1	"LRRC1"	"HGNC"	14307	"protein_coding"	"YES"	"CCDS4953.2"	"ENSP00000359925"	"Q9BTT6"	""	"UPI0000072801"	"NM_018214.4"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c3d4a870-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255102040816327	"WGS"	FALSE
"11954"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	54842785	54842785	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"53"	26	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c3d4c864-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329113924050633	"WGS"	FALSE
"11955"	"RP11-228O6.2"	0	"mskcc.org"	"GRCh37"	"6"	55544543	55544543	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000405336"	""	88	"81"	7	53	"53"	0	"RP11-228O6.2,downstream_gene_variant,,ENST00000405336,;"	"T"	"ENSG00000220725"	"ENST00000405336"	"Transcript"	"downstream_gene_variant"	"-/380"	""	""	""	""	""	"1"	"897"	-1	"RP11-228O6.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c3d4e6a0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0795454545454545	"WGS"	FALSE
"11956"	"RP11-343D24.2"	101927293	"mskcc.org"	"GRCh37"	"6"	57694995	57694995	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"rs550178116"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000456887"	""	100	"77"	23	65	"65"	0	"RP11-343D24.2,downstream_gene_variant,,ENST00000456887,;"	"C"	"ENSG00000231273"	"ENST00000456887"	"Transcript"	"downstream_gene_variant"	"-/315"	""	""	""	""	"rs550178116"	"1"	"3350"	1	"RP11-343D24.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"C:0.0002"	"C:0"	"C:0"	NA	"C:0"	"C:0.001"	"C:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c3d5d4e8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23	"WGS"	FALSE
"11957"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	57806566	57806566	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"59"	33	76	"76"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c3d5e302-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358695652173913	"WGS"	FALSE
"11958"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	58037074	58037074	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"60"	31	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c3d5ec80-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340659340659341	"WGS"	FALSE
"11959"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	61970942	61970942	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	53	"35"	18	52	"52"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c3d6358c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.339622641509434	"WGS"	FALSE
"11960"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	62259459	62259459	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"86"	6	63	"63"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c3d63906-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"11961"	"KHDRBS2"	202559	"mskcc.org"	"GRCh37"	"6"	62598921	62598921	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.810+5619G>T"	""	""	"ENST00000281156"	""	84	"61"	23	55	"55"	0	"KHDRBS2,intron_variant,,ENST00000281156,NM_152688.2;"	"A"	"ENSG00000112232"	"ENST00000281156"	"Transcript"	"intron_variant"	"-/2332"	"-/1050"	"-/349"	""	""	""	"1"	NA	-1	"KHDRBS2"	"HGNC"	18114	"protein_coding"	"YES"	"CCDS4963.1"	"ENSP00000281156"	"Q5VWX1"	""	"UPI000004D256"	"NM_152688.2"	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c3d64806-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273809523809524	"WGS"	FALSE
"11962"	"KHDRBS2"	202559	"mskcc.org"	"GRCh37"	"6"	62634295	62634295	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.484-23019T>G"	""	""	"ENST00000281156"	""	56	"44"	12	49	"49"	0	"KHDRBS2,intron_variant,,ENST00000281156,NM_152688.2;"	"C"	"ENSG00000112232"	"ENST00000281156"	"Transcript"	"intron_variant"	"-/2332"	"-/1050"	"-/349"	""	""	""	"1"	NA	-1	"KHDRBS2"	"HGNC"	18114	"protein_coding"	"YES"	"CCDS4963.1"	"ENSP00000281156"	"Q5VWX1"	""	"UPI000004D256"	"NM_152688.2"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"c3d648ec-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"11963"	"KHDRBS2"	202559	"mskcc.org"	"GRCh37"	"6"	62747966	62747966	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.336+9817C>T"	""	""	"ENST00000281156"	""	94	"67"	27	63	"63"	0	"KHDRBS2,intron_variant,,ENST00000281156,NM_152688.2;"	"A"	"ENSG00000112232"	"ENST00000281156"	"Transcript"	"intron_variant"	"-/2332"	"-/1050"	"-/349"	""	""	""	"1"	NA	-1	"KHDRBS2"	"HGNC"	18114	"protein_coding"	"YES"	"CCDS4963.1"	"ENSP00000281156"	"Q5VWX1"	""	"UPI000004D256"	"NM_152688.2"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c3d64c5c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287234042553192	"WGS"	FALSE
"11964"	"KHDRBS2"	202559	"mskcc.org"	"GRCh37"	"6"	62789015	62789015	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.220-31116G>A"	""	""	"ENST00000281156"	""	105	"97"	8	56	"56"	0	"KHDRBS2,intron_variant,,ENST00000281156,NM_152688.2;"	"T"	"ENSG00000112232"	"ENST00000281156"	"Transcript"	"intron_variant"	"-/2332"	"-/1050"	"-/349"	""	""	""	"1"	NA	-1	"KHDRBS2"	"HGNC"	18114	"protein_coding"	"YES"	"CCDS4963.1"	"ENSP00000281156"	"Q5VWX1"	""	"UPI000004D256"	"NM_152688.2"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c3d65134-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0761904761904762	"WGS"	FALSE
"11965"	"KHDRBS2"	202559	"mskcc.org"	"GRCh37"	"6"	62883042	62883042	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.219+4048C>T"	""	""	"ENST00000281156"	""	64	"52"	12	50	"50"	0	"KHDRBS2,intron_variant,,ENST00000281156,NM_152688.2;"	"A"	"ENSG00000112232"	"ENST00000281156"	"Transcript"	"intron_variant"	"-/2332"	"-/1050"	"-/349"	""	""	""	"1"	NA	-1	"KHDRBS2"	"HGNC"	18114	"protein_coding"	"YES"	"CCDS4963.1"	"ENSP00000281156"	"Q5VWX1"	""	"UPI000004D256"	"NM_152688.2"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c3d654ae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"11966"	"EYS"	346007	"mskcc.org"	"GRCh37"	"6"	64520893	64520893	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs116148078"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7229-4628C>T"	""	""	"ENST00000503581"	""	99	"67"	32	46	"46"	0	"EYS,intron_variant,,ENST00000503581,NM_001142800.1;EYS,intron_variant,,ENST00000370621,;EYS,intron_variant,,ENST00000370616,;EYS,intron_variant,,ENST00000398580,;RP11-59D5__B.2,intron_variant,,ENST00000429530,;EYS,upstream_gene_variant,,ENST00000486069,;"	"A"	"ENSG00000188107"	"ENST00000503581"	"Transcript"	"intron_variant"	"-/10589"	"-/9435"	"-/3144"	""	""	"rs116148078"	"1"	NA	-1	"EYS"	"HGNC"	21555	"protein_coding"	"YES"	"CCDS47445.1"	"ENSP00000424243"	"Q5T1H1"	""	"UPI000188F466"	"NM_001142800.1"	""	""	""	"36/42"	""	"A:0.0092"	"A:0.0348"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGG"	"c3d69856-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323232323232323	"WGS"	FALSE
"11967"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	67076346	67076346	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"73"	28	77	"77"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c3d6eec8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277227722772277	"WGS"	FALSE
"11968"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	67599298	67599298	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"84"	6	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c3d6ff1c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"11969"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	68360976	68360976	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"71"	15	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c3d732b6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174418604651163	"WGS"	FALSE
"11970"	"BAI3"	577	"mskcc.org"	"GRCh37"	"6"	69717969	69717969	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1930-5961C>T"	""	""	"ENST00000370598"	""	84	"64"	20	57	"57"	0	"BAI3,intron_variant,,ENST00000370598,NM_001704.2;"	"T"	"ENSG00000135298"	"ENST00000370598"	"Transcript"	"intron_variant"	"-/6010"	"-/4569"	"-/1522"	""	""	""	"1"	NA	1	"BAI3"	"HGNC"	945	"protein_coding"	"YES"	"CCDS4968.1"	"ENSP00000359630"	"O60242"	"S4R3D0,B7Z1K0"	"UPI00001AE6A9"	"NM_001704.2"	""	""	""	"11/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c3d7645c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WGS"	FALSE
"11971"	"BAI3"	577	"mskcc.org"	"GRCh37"	"6"	69907891	69907891	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2481-35291T>G"	""	""	"ENST00000370598"	""	103	"96"	7	64	"64"	0	"BAI3,intron_variant,,ENST00000370598,NM_001704.2;"	"G"	"ENSG00000135298"	"ENST00000370598"	"Transcript"	"intron_variant"	"-/6010"	"-/4569"	"-/1522"	""	""	""	"1"	NA	1	"BAI3"	"HGNC"	945	"protein_coding"	"YES"	"CCDS4968.1"	"ENSP00000359630"	"O60242"	"S4R3D0,B7Z1K0"	"UPI00001AE6A9"	"NM_001704.2"	""	""	""	"17/31"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c3d77096-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0679611650485437	"WGS"	FALSE
"11972"	"RP11-505P4.7"	0	"mskcc.org"	"GRCh37"	"6"	74251868	74251868	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.276+16143C>G"	""	""	"ENST00000429386"	""	74	"69"	5	51	"51"	0	"RP11-505P4.7,intron_variant,,ENST00000429386,;RP11-505P4.7,intron_variant,,ENST00000431108,;"	"G"	"ENSG00000229862"	"ENST00000429386"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/586"	""	""	""	""	""	"1"	NA	1	"RP11-505P4.7"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c3d83544-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0675675675675676	"WGS"	FALSE
"11973"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	74644039	74644039	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"59"	18	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c3d865dc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233766233766234	"WGS"	FALSE
"11974"	"RP11-554D15.1"	101928516	"mskcc.org"	"GRCh37"	"6"	75283738	75283738	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.194-100042C>A"	""	""	"ENST00000435946"	""	68	"43"	25	64	"64"	0	"RP11-554D15.1,intron_variant,,ENST00000435946,;RP11-554D15.3,intron_variant,,ENST00000432484,;"	"A"	"ENSG00000223786"	"ENST00000435946"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/669"	""	""	""	""	""	"1"	NA	1	"RP11-554D15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c3d87888-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.367647058823529	"WGS"	FALSE
"11975"	"RP11-554D15.1"	101928516	"mskcc.org"	"GRCh37"	"6"	75396998	75396998	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.279-3055C>T"	""	""	"ENST00000435946"	""	77	"57"	20	58	"58"	0	"RP11-554D15.1,intron_variant,,ENST00000435946,;RP11-554D15.3,intron_variant,,ENST00000432484,;"	"T"	"ENSG00000223786"	"ENST00000435946"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/669"	""	""	""	""	""	"1"	NA	1	"RP11-554D15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c3d87c7a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25974025974026	"WGS"	FALSE
"11976"	"COX7A2"	1347	"mskcc.org"	"GRCh37"	"6"	75951648	75951648	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.115-667A>T"	""	""	"ENST00000370081"	""	106	"99"	7	55	"55"	0	"COX7A2,missense_variant,p.Thr9Ser,ENST00000377978,;COX7A2,intron_variant,,ENST00000370081,;COX7A2,intron_variant,,ENST00000370089,;COX7A2,intron_variant,,ENST00000230459,NM_001865.3;COX7A2,intron_variant,,ENST00000509698,;COX7A2,intron_variant,,ENST00000460985,;COX7A2,intron_variant,,ENST00000472311,;COX7A2,intron_variant,,ENST00000481061,;COX7A2,intron_variant,,ENST00000459637,;"	"A"	"ENSG00000112695"	"ENST00000370081"	"Transcript"	"intron_variant"	"-/914"	"-/348"	"-/115"	""	""	""	"1"	NA	-1	"COX7A2"	"HGNC"	2288	"protein_coding"	"YES"	"CCDS34486.2"	"ENSP00000359098"	""	"H0UI06"	"UPI000015A446"	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c3d88ff8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0660377358490566	"WGS"	FALSE
"11977"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	78247670	78247670	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs755318402"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"61"	15	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs755318402"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c3d8ea8e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197368421052632	"WGS"	FALSE
"11978"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	79221347	79221347	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"72"	5	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c3d91270-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0649350649350649	"WGS"	FALSE
"11979"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	81245106	81245106	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"48"	20	63	"63"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c3d9537a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"11980"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	81732271	81732271	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"59"	28	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c3d975ee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32183908045977	"WGS"	FALSE
"11981"	"SNORA70"	0	"mskcc.org"	"GRCh37"	"6"	82470991	82470991	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384159"	""	97	"69"	28	41	"41"	0	"SNORA70,upstream_gene_variant,,ENST00000384159,;RP5-991C6.2,upstream_gene_variant,,ENST00000402075,;"	"A"	"ENSG00000206886"	"ENST00000384159"	"Transcript"	"upstream_gene_variant"	"-/133"	""	""	""	""	""	"1"	"2750"	1	"SNORA70"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c3d99902-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288659793814433	"WGS"	FALSE
"11982"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	82862597	82862597	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"50"	25	77	"77"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c3d9a49c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"11983"	"SNAP91"	9892	"mskcc.org"	"GRCh37"	"6"	84372688	84372688	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.274-547T>G"	""	""	"ENST00000439399"	""	86	"80"	6	62	"62"	0	"SNAP91,intron_variant,,ENST00000428679,;SNAP91,intron_variant,,ENST00000521485,;SNAP91,intron_variant,,ENST00000439399,NM_014841.2;SNAP91,intron_variant,,ENST00000369694,NM_001242792.1;SNAP91,intron_variant,,ENST00000195649,NM_001256718.1;SNAP91,intron_variant,,ENST00000521743,;SNAP91,intron_variant,,ENST00000520302,NM_001256717.1,NM_001242793.1;SNAP91,intron_variant,,ENST00000437520,NM_001242794.1;SNAP91,intron_variant,,ENST00000520213,;SNAP91,intron_variant,,ENST00000521931,;SNAP91,intron_variant,,ENST00000519779,;SNAP91,intron_variant,,ENST00000523484,;SNAP91,intron_variant,,ENST00000518309,;SNAP91,intron_variant,,ENST00000369690,;SNAP91,downstream_gene_variant,,ENST00000519825,;SNAP91,intron_variant,,ENST00000518312,;SNAP91,intron_variant,,ENST00000521616,;SNAP91,intron_variant,,ENST00000522248,;"	"C"	"ENSG00000065609"	"ENST00000439399"	"Transcript"	"intron_variant"	"-/4452"	"-/2724"	"-/907"	""	""	""	"1"	NA	-1	"SNAP91"	"HGNC"	14986	"protein_coding"	"YES"	"CCDS47455.1"	"ENSP00000400459"	"O60641"	"E5RK53,E5RK51,E5RJY3,E5RIJ5,E5RFU0,E5RFC6,B7Z2C2"	"UPI0000124FB3"	"NM_014841.2"	""	""	""	"3/29"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c3d9dc32-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"11984"	"RNU4-72P"	0	"mskcc.org"	"GRCh37"	"6"	86461058	86461058	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000410754"	""	94	"67"	27	67	"67"	0	"RNU4-72P,upstream_gene_variant,,ENST00000410754,;"	"T"	"ENSG00000222686"	"ENST00000410754"	"Transcript"	"upstream_gene_variant"	"-/173"	""	""	""	""	""	"1"	"241"	1	"RNU4-72P"	"HGNC"	47008	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c3da3bfa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287234042553192	"WGS"	FALSE
"11985"	"RARS2"	57038	"mskcc.org"	"GRCh37"	"6"	88252786	88252786	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.536-1074T>C"	""	""	"ENST00000369536"	""	80	"74"	6	57	"57"	0	"RARS2,intron_variant,,ENST00000369536,NM_020320.3;RARS2,downstream_gene_variant,,ENST00000451155,;"	"G"	"ENSG00000146282"	"ENST00000369536"	"Transcript"	"intron_variant"	"-/1818"	"-/1737"	"-/578"	""	""	""	"1"	NA	-1	"RARS2"	"HGNC"	21406	"protein_coding"	"YES"	"CCDS5011.1"	"ENSP00000358549"	"Q5T160"	"H0UI22"	"UPI000020D2E6"	"NM_020320.3"	""	""	""	"7/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"c3da9352-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"11986"	"ORC3"	23595	"mskcc.org"	"GRCh37"	"6"	88302261	88302261	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.25-1810C>G"	""	""	"ENST00000257789"	""	89	"83"	6	48	"48"	0	"ORC3,intron_variant,,ENST00000392844,NM_181837.2,NM_012381.3;ORC3,intron_variant,,ENST00000257789,;ORC3,intron_variant,,ENST00000546266,NM_001197259.1;ORC3,intron_variant,,ENST00000417380,;RARS2,upstream_gene_variant,,ENST00000369536,NM_020320.3;ORC3,intron_variant,,ENST00000468486,;"	"G"	"ENSG00000135336"	"ENST00000257789"	"Transcript"	"intron_variant"	"-/2501"	"-/2139"	"-/712"	""	""	""	"1"	NA	1	"ORC3"	"HGNC"	8489	"protein_coding"	"YES"	"CCDS5012.1"	"ENSP00000257789"	"Q9UBD5"	"U3KQL3"	"UPI00001B216A"	""	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c3da9b7c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"11987"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	91419518	91419518	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"58"	33	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c3db82bc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.362637362637363	"WGS"	FALSE
"11988"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	91727494	91727494	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs530387824"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"72"	10	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs530387824"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0008"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0.0031"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c3db8a50-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WGS"	FALSE
"11989"	"CASC6"	101929083	"mskcc.org"	"GRCh37"	"6"	92350125	92350125	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.264-6572G>T"	""	""	"ENST00000437768"	""	83	"61"	22	61	"61"	0	"CASC6,intron_variant,,ENST00000437768,;"	"A"	"ENSG00000224944"	"ENST00000437768"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/733"	""	""	""	""	""	"1"	NA	-1	"CASC6"	"HGNC"	49076	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c3db9798-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265060240963855	"WGS"	FALSE
"11990"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	92541893	92541893	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"70"	6	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c3db9cd4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"11991"	"SNORA18"	0	"mskcc.org"	"GRCh37"	"6"	94587463	94587463	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516440"	""	78	"61"	17	72	"72"	0	"SNORA18,upstream_gene_variant,,ENST00000516440,;"	"T"	"ENSG00000252249"	"ENST00000516440"	"Transcript"	"upstream_gene_variant"	"-/124"	""	""	""	""	""	"1"	"1361"	1	"SNORA18"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c3dbd492-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217948717948718	"WGS"	FALSE
"11992"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	94663989	94663989	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"59"	21	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c3dbd654-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2625	"WGS"	FALSE
"11993"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	94837140	94837140	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"67"	29	74	"74"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c3dbde24-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302083333333333	"WGS"	FALSE
"11994"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	94951683	94951683	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"64"	22	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c3dbe734-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255813953488372	"WGS"	FALSE
"11995"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	95253126	95253126	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"71"	26	76	"76"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c3dbeda6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268041237113402	"WGS"	FALSE
"11996"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	95368635	95368635	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"73"	17	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c3dbf120-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188888888888889	"WGS"	FALSE
"11997"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	97221435	97221435	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"68"	25	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c3dc21d6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"11998"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	97297563	97297563	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"64"	25	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c3dc2ba4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280898876404494	"WGS"	FALSE
"11999"	"RP1-104O17.2"	0	"mskcc.org"	"GRCh37"	"6"	98169489	98169489	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.47-10789C>A"	""	""	"ENST00000417315"	""	96	"69"	27	67	"67"	0	"RP1-104O17.2,intron_variant,,ENST00000417315,;RP1-104O17.3,upstream_gene_variant,,ENST00000432438,;"	"A"	"ENSG00000242486"	"ENST00000417315"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/357"	""	""	""	""	""	"1"	NA	1	"RP1-104O17.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c3dc45ee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28125	"WGS"	FALSE
"12000"	"RP11-436D23.1"	0	"mskcc.org"	"GRCh37"	"6"	98316312	98316312	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.206+40230A>G"	""	""	"ENST00000607823"	""	81	"57"	24	58	"58"	0	"RP11-436D23.1,intron_variant,,ENST00000607823,;"	"G"	"ENSG00000271860"	"ENST00000607823"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1962"	""	""	""	""	""	"1"	NA	1	"RP11-436D23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c3dc4ab2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"12001"	"RP11-436D23.1"	0	"mskcc.org"	"GRCh37"	"6"	98530709	98530709	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.268-16353C>T"	""	""	"ENST00000607823"	""	88	"71"	17	42	"42"	0	"RP11-436D23.1,intron_variant,,ENST00000607823,;RP11-436D23.1,intron_variant,,ENST00000607032,;RP11-436D23.1,intron_variant,,ENST00000606913,;"	"T"	"ENSG00000271860"	"ENST00000607823"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1962"	""	""	""	""	""	"1"	NA	1	"RP11-436D23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c3dc50d4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193181818181818	"WGS"	FALSE
"12002"	"RP11-436D23.1"	0	"mskcc.org"	"GRCh37"	"6"	98613955	98613955	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.352+66809C>T"	""	""	"ENST00000607823"	""	73	"46"	27	56	"56"	0	"RP11-436D23.1,intron_variant,,ENST00000607823,;RP11-436D23.1,intron_variant,,ENST00000607032,;RP11-436D23.1,intron_variant,,ENST00000606913,;"	"T"	"ENSG00000271860"	"ENST00000607823"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1962"	""	""	""	""	""	"1"	NA	1	"RP11-436D23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c3dc5444-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36986301369863	"WGS"	FALSE
"12003"	"RP11-436D23.1"	0	"mskcc.org"	"GRCh37"	"6"	98707113	98707113	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.353-15927T>A"	""	""	"ENST00000607823"	""	83	"63"	20	64	"64"	0	"RP11-436D23.1,intron_variant,,ENST00000607823,;RP11-436D23.1,intron_variant,,ENST00000607032,;RP11-436D23.1,intron_variant,,ENST00000606913,;"	"A"	"ENSG00000271860"	"ENST00000607823"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1962"	""	""	""	""	""	"1"	NA	1	"RP11-436D23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c3dc5606-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240963855421687	"WGS"	FALSE
"12004"	"RP3-453D15.1"	0	"mskcc.org"	"GRCh37"	"6"	99011083	99011083	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000424521"	""	86	"57"	29	51	"50"	1	"RP3-453D15.1,downstream_gene_variant,,ENST00000424521,;"	"T"	"ENSG00000235504"	"ENST00000424521"	"Transcript"	"downstream_gene_variant"	"-/138"	""	""	""	""	""	"1"	"4636"	1	"RP3-453D15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c3dc63a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337209302325581	"WGS"	FALSE
"12005"	"FBXL4"	26235	"mskcc.org"	"GRCh37"	"6"	99344771	99344771	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1317+2373A>C"	""	""	"ENST00000369244"	""	99	"94"	5	69	"69"	0	"FBXL4,intron_variant,,ENST00000369244,;FBXL4,intron_variant,,ENST00000229971,NM_012160.4,NM_001278716.1;"	"G"	"ENSG00000112234"	"ENST00000369244"	"Transcript"	"intron_variant"	"-/8029"	"-/1866"	"-/621"	""	""	""	"1"	NA	-1	"FBXL4"	"HGNC"	13601	"protein_coding"	"YES"	"CCDS5041.1"	"ENSP00000358247"	"Q9UKA2"	""	"UPI000012ADE3"	""	""	""	""	"7/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"c3dc72f8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0505050505050505	"WGS"	FALSE
"12006"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	103399807	103399807	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs371557282"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"70"	26	74	"74"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs371557282"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0008"	"A:0"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0.0031"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c3dd0998-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270833333333333	"WGS"	FALSE
"12007"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	104721670	104721670	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"67"	18	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c3dd3a1c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211764705882353	"WGS"	FALSE
"12008"	"BEND3"	57673	"mskcc.org"	"GRCh37"	"6"	107433085	107433085	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-98+1999G>C"	""	""	"ENST00000429433"	""	98	"91"	7	38	"38"	0	"BEND3,intron_variant,,ENST00000429433,NM_001080450.2;BEND3,intron_variant,,ENST00000369042,;"	"G"	"ENSG00000178409"	"ENST00000429433"	"Transcript"	"intron_variant"	"-/6644"	"-/2487"	"-/828"	""	""	""	"1"	NA	-1	"BEND3"	"HGNC"	23040	"protein_coding"	"YES"	"CCDS34507.1"	"ENSP00000411268"	"Q5T5X7"	""	"UPI00001D80D7"	"NM_001080450.2"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c3ddcb8a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"12009"	"PDSS2"	57107	"mskcc.org"	"GRCh37"	"6"	107544127	107544127	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.703-10641T>A"	""	""	"ENST00000369037"	""	88	"83"	5	43	"43"	0	"PDSS2,intron_variant,,ENST00000369037,NM_020381.3;PDSS2,intron_variant,,ENST00000453874,;AL591516.5,downstream_gene_variant,,ENST00000399375,;"	"T"	"ENSG00000164494"	"ENST00000369037"	"Transcript"	"intron_variant"	"-/3540"	"-/1200"	"-/399"	""	""	""	"1"	NA	-1	"PDSS2"	"HGNC"	23041	"protein_coding"	"YES"	"CCDS5059.1"	"ENSP00000358033"	"Q86YH6"	"B4DWD3"	"UPI000013E3B4"	"NM_020381.3"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"c3ddd904-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0568181818181818	"WGS"	FALSE
"12010"	"SEC63"	11231	"mskcc.org"	"GRCh37"	"6"	108255674	108255674	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.125-4956A>G"	""	""	"ENST00000369002"	""	33	"28"	5	23	"23"	0	"SEC63,intron_variant,,ENST00000369002,NM_007214.4;SEC63,intron_variant,,ENST00000429168,;RNU6-437P,downstream_gene_variant,,ENST00000459408,;SEC63,intron_variant,,ENST00000484803,;SEC63,intron_variant,,ENST00000446496,;RPL23AP50,downstream_gene_variant,,ENST00000434149,;"	"C"	"ENSG00000025796"	"ENST00000369002"	"Transcript"	"intron_variant"	"-/6411"	"-/2283"	"-/760"	""	""	""	"1"	NA	-1	"SEC63"	"HGNC"	21082	"protein_coding"	"YES"	"CCDS5061.1"	"ENSP00000357998"	"Q9UGP8"	"A6PVC9"	"UPI000000DBBB"	"NM_007214.4"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTC"	"c3ddff7e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151515151515152	"WGS"	FALSE
"12011"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	108853080	108853080	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"62"	41	44	"44"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c3de33fe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.398058252427184	"WGS"	FALSE
"12012"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	112304828	112304828	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"72"	17	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c3def05a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191011235955056	"WGS"	FALSE
"12013"	"RP1-105O18.1"	0	"mskcc.org"	"GRCh37"	"6"	112792807	112792807	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000446322"	""	96	"72"	24	89	"89"	0	"RP1-105O18.1,downstream_gene_variant,,ENST00000446322,;"	"A"	"ENSG00000232299"	"ENST00000446322"	"Transcript"	"downstream_gene_variant"	"-/488"	""	""	""	""	""	"1"	"4933"	-1	"RP1-105O18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c3df052c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"12014"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	115824074	115824074	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"75"	17	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c3df807e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184782608695652	"WGS"	FALSE
"12015"	"VGLL2"	245806	"mskcc.org"	"GRCh37"	"6"	117598305	117598305	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000326274"	""	73	"47"	26	64	"64"	0	"VGLL2,downstream_gene_variant,,ENST00000326274,NM_182645.3;VGLL2,downstream_gene_variant,,ENST00000352536,NM_153453.1;"	"T"	"ENSG00000170162"	"ENST00000326274"	"Transcript"	"downstream_gene_variant"	"-/2212"	"-/954"	"-/317"	""	""	""	"1"	"3580"	1	"VGLL2"	"HGNC"	20232	"protein_coding"	"YES"	"CCDS5115.1"	"ENSP00000320957"	"Q8N8G2"	""	"UPI000006FF57"	"NM_182645.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c3dfc70a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.356164383561644	"WGS"	FALSE
"12016"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	119063401	119063401	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"77"	7	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c3dffebe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"12017"	"MAN1A1"	4121	"mskcc.org"	"GRCh37"	"6"	119597052	119597052	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.897+14796C>T"	""	""	"ENST00000368468"	""	87	"70"	17	58	"58"	0	"MAN1A1,intron_variant,,ENST00000368468,NM_005907.3;MAN1A1,intron_variant,,ENST00000368466,;"	"A"	"ENSG00000111885"	"ENST00000368468"	"Transcript"	"intron_variant"	"-/5014"	"-/1962"	"-/653"	""	""	""	"1"	NA	-1	"MAN1A1"	"HGNC"	6821	"protein_coding"	"YES"	"CCDS5122.1"	"ENSP00000357453"	"P33908"	""	"UPI000013D632"	"NM_005907.3"	""	""	""	"5/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c3e017fa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195402298850575	"WGS"	FALSE
"12018"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	120594571	120594571	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"80"	6	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c3e02eac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"12019"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	121199700	121199700	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"58"	24	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c3e03ba4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292682926829268	"WGS"	FALSE
"12020"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	122565075	122565075	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"70"	15	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c3e07ac4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"12021"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	123407833	123407833	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"65"	25	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c3e0a1ca-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"12022"	"NKAIN2"	154215	"mskcc.org"	"GRCh37"	"6"	124553342	124553342	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55-50809C>T"	""	""	"ENST00000368417"	""	95	"62"	33	62	"62"	0	"NKAIN2,intron_variant,,ENST00000368417,NM_001040214.1;NKAIN2,intron_variant,,ENST00000368416,;NKAIN2,intron_variant,,ENST00000546092,;NKAIN2,intron_variant,,ENST00000476571,;"	"T"	"ENSG00000188580"	"ENST00000368417"	"Transcript"	"intron_variant"	"-/3115"	"-/627"	"-/208"	""	""	""	"1"	NA	1	"NKAIN2"	"HGNC"	16443	"protein_coding"	"YES"	"CCDS34526.1"	"ENSP00000357402"	"Q5VXU1"	"B3KNZ0,B0AZU5"	"UPI0000458919"	"NM_001040214.1"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c3e0b994-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347368421052632	"WGS"	FALSE
"12023"	"NKAIN2"	154215	"mskcc.org"	"GRCh37"	"6"	125125360	125125360	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.535+12815T>A"	""	""	"ENST00000368417"	""	74	"45"	29	53	"53"	0	"NKAIN2,intron_variant,,ENST00000368417,NM_001040214.1;NKAIN2,intron_variant,,ENST00000545433,;NKAIN2,intron_variant,,ENST00000546092,;"	"A"	"ENSG00000188580"	"ENST00000368417"	"Transcript"	"intron_variant"	"-/3115"	"-/627"	"-/208"	""	""	""	"1"	NA	1	"NKAIN2"	"HGNC"	16443	"protein_coding"	"YES"	"CCDS34526.1"	"ENSP00000357402"	"Q5VXU1"	"B3KNZ0,B0AZU5"	"UPI0000458919"	"NM_001040214.1"	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c3e0d08c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.391891891891892	"WGS"	FALSE
"12024"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	127993063	127993063	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs754186247"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"69"	6	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs754186247"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c3e135ae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"12025"	"PTPRK"	5796	"mskcc.org"	"GRCh37"	"6"	128576186	128576186	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.496-12439T>G"	""	""	"ENST00000368213"	""	129	"121"	8	47	"47"	0	"PTPRK,intron_variant,,ENST00000368227,;PTPRK,intron_variant,,ENST00000368226,NM_002844.3;PTPRK,intron_variant,,ENST00000368213,NM_001135648.1;PTPRK,intron_variant,,ENST00000532331,;PTPRK,intron_variant,,ENST00000368210,;PTPRK,intron_variant,,ENST00000368207,;PTPRK,intron_variant,,ENST00000368215,;PTPRK,intron_variant,,ENST00000490332,;PTPRK,intron_variant,,ENST00000524481,;PTPRK,intron_variant,,ENST00000524534,;PTPRK,intron_variant,,ENST00000495748,;PTPRK,intron_variant,,ENST00000429595,;PTPRK,intron_variant,,ENST00000531050,;"	"C"	"ENSG00000152894"	"ENST00000368213"	"Transcript"	"intron_variant"	"-/5816"	"-/4341"	"-/1446"	""	""	""	"1"	NA	-1	"PTPRK"	"HGNC"	9674	"protein_coding"	"YES"	"CCDS47473.1"	"ENSP00000357196"	"Q15262"	""	"UPI0001747A04"	"NM_001135648.1"	""	""	""	"3/30"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c3e1465c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.062015503875969	"WGS"	TRUE
"12026"	"LAMA2"	3908	"mskcc.org"	"GRCh37"	"6"	129688087	129688087	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4860+581C>G"	""	""	"ENST00000421865"	""	102	"92"	10	57	"57"	0	"LAMA2,intron_variant,,ENST00000421865,NM_001079823.1,NM_000426.3;"	"G"	"ENSG00000196569"	"ENST00000421865"	"Transcript"	"intron_variant"	"-/9640"	"-/9369"	"-/3122"	""	""	""	"1"	NA	1	"LAMA2"	"HGNC"	6482	"protein_coding"	"YES"	"CCDS5138.1"	"ENSP00000400365"	"P24043"	"Q59H37"	"UPI00003673E0"	"NM_001079823.1,NM_000426.3"	""	""	""	"33/64"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"c3e1705a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0980392156862745	"WGS"	FALSE
"12027"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	131102921	131102921	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"64"	26	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c3e19f76-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288888888888889	"WGS"	FALSE
"12028"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	131756829	131756829	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"67"	23	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c3e1b2cc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255555555555556	"WGS"	FALSE
"12029"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	139711195	139711195	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs376526004"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"69"	7	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs376526004"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c3e338d6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"12030"	"ENSR00001228815"	0	"mskcc.org"	"GRCh37"	"6"	139769755	139769755	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001228815"	""	86	"62"	24	61	"61"	0	""	"C"	""	"ENSR00001228815"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c3e33fb6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27906976744186	"WGS"	FALSE
"12031"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	141502820	141502820	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"62"	21	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c3e3a2da-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253012048192771	"WGS"	FALSE
"12032"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	146830685	146830685	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"59"	25	52	"52"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c3e47a02-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297619047619048	"WGS"	FALSE
"12033"	"RP11-307P5.1"	0	"mskcc.org"	"GRCh37"	"6"	148278474	148278474	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000427015"	""	98	"73"	25	43	"43"	0	"RP11-307P5.1,downstream_gene_variant,,ENST00000427015,;"	"A"	"ENSG00000227681"	"ENST00000427015"	"Transcript"	"downstream_gene_variant"	"-/773"	""	""	""	""	""	"1"	"3401"	1	"RP11-307P5.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c3e4af18-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255102040816327	"WGS"	FALSE
"12034"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	150457410	150457410	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"60"	21	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c3e52a4c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259259259259259	"WGS"	FALSE
"12035"	"CNKSR3"	154043	"mskcc.org"	"GRCh37"	"6"	154786057	154786057	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.53-14665T>A"	""	""	"ENST00000607772"	""	71	"65"	6	35	"35"	0	"CNKSR3,intron_variant,,ENST00000607772,NM_173515.2;CNKSR3,intron_variant,,ENST00000479339,;"	"T"	"ENSG00000153721"	"ENST00000607772"	"Transcript"	"intron_variant"	"-/21063"	"-/1668"	"-/555"	""	""	""	"1"	NA	-1	"CNKSR3"	"HGNC"	23034	"protein_coding"	"YES"	"CCDS5246.1"	"ENSP00000475915"	"Q6P9H4"	"C9JN62,C9IZX4"	"UPI000020D0EA"	"NM_173515.2"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c3e6147a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"12036"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	155015875	155015875	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"86"	10	40	"40"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c3e628e8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104166666666667	"WGS"	FALSE
"12037"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	157071123	157071123	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"73"	8	47	"47"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c3e6b2c2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0987654320987654	"WGS"	FALSE
"12038"	"TULP4"	56995	"mskcc.org"	"GRCh37"	"6"	158770853	158770853	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.252+35553C>T"	""	""	"ENST00000367097"	""	34	"29"	5	10	"10"	0	"TULP4,intron_variant,,ENST00000367097,NM_020245.4;TULP4,intron_variant,,ENST00000367094,NM_001007466.2;"	"T"	"ENSG00000130338"	"ENST00000367097"	"Transcript"	"intron_variant"	"-/11123"	"-/4632"	"-/1543"	""	""	""	"1"	NA	1	"TULP4"	"HGNC"	15530	"protein_coding"	"YES"	"CCDS34561.1"	"ENSP00000356064"	"Q9NRJ4"	""	"UPI000013CD76"	"NM_020245.4"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c3e7b88e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"12039"	"TULP4"	56995	"mskcc.org"	"GRCh37"	"6"	158889698	158889698	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1026+6937G>A"	""	""	"ENST00000367097"	""	123	"88"	35	55	"54"	1	"TULP4,intron_variant,,ENST00000367097,NM_020245.4;TULP4,intron_variant,,ENST00000367094,NM_001007466.2;"	"A"	"ENSG00000130338"	"ENST00000367097"	"Transcript"	"intron_variant"	"-/11123"	"-/4632"	"-/1543"	""	""	""	"1"	NA	1	"TULP4"	"HGNC"	15530	"protein_coding"	"YES"	"CCDS34561.1"	"ENSP00000356064"	"Q9NRJ4"	""	"UPI000013CD76"	"NM_020245.4"	""	""	""	"6/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c3e7c266-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284552845528455	"WGS"	FALSE
"12040"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	159917396	159917396	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"52"	28	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c3e8014a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WGS"	FALSE
"12041"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	160051631	160051631	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"53"	18	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c3e80e1a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253521126760563	"WGS"	FALSE
"12042"	"MAP3K4"	4216	"mskcc.org"	"GRCh37"	"6"	161500968	161500968	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2098-945G>A"	""	""	"ENST00000392142"	""	84	"58"	26	60	"60"	0	"MAP3K4,intron_variant,,ENST00000392142,NM_005922.2;MAP3K4,intron_variant,,ENST00000366920,;MAP3K4,intron_variant,,ENST00000366919,NM_006724.2;MAP3K4,intron_variant,,ENST00000348824,;MAP3K4,intron_variant,,ENST00000490904,;MAP3K4,intron_variant,,ENST00000544041,;MAP3K4,intron_variant,,ENST00000542851,;MAP3K4,upstream_gene_variant,,ENST00000540205,;"	"A"	"ENSG00000085511"	"ENST00000392142"	"Transcript"	"intron_variant"	"-/5490"	"-/4827"	"-/1608"	""	""	""	"1"	NA	1	"MAP3K4"	"HGNC"	6856	"protein_coding"	"YES"	"CCDS34565.1"	"ENSP00000375986"	"Q9Y6R4"	"F5H534"	"UPI00004574E1"	"NM_005922.2"	""	""	""	"5/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c3e890f6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30952380952381	"WGS"	FALSE
"12043"	"PARK2"	5071	"mskcc.org"	"GRCh37"	"6"	162760305	162760305	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.172-76508G>C"	""	""	"ENST00000366898"	""	38	"32"	6	11	"11"	0	"PARK2,intron_variant,,ENST00000366898,NM_004562.2;PARK2,intron_variant,,ENST00000366897,NM_013987.2;PARK2,intron_variant,,ENST00000366896,NM_013988.2;PARK2,intron_variant,,ENST00000366892,;PARK2,intron_variant,,ENST00000338468,;PARK2,intron_variant,,ENST00000366894,;PARK2,intron_variant,,ENST00000479615,;"	"G"	"ENSG00000185345"	"ENST00000366898"	"Transcript"	"intron_variant"	"-/4180"	"-/1398"	"-/465"	""	""	""	"1"	NA	-1	"PARK2"	"HGNC"	8607	"protein_coding"	"YES"	"CCDS5281.1"	"ENSP00000355865"	"O60260"	"M4T2U2,Q6S8G7,Q6Q2I8,Q5XNR7"	"UPI00003673FE"	"NM_004562.2"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"c3e8e952-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"12044"	"PDE10A"	10846	"mskcc.org"	"GRCh37"	"6"	166122765	166122765	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"rs534252870"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.497-165709C>G"	""	""	"ENST00000580695"	""	30	"25"	5	17	"17"	0	"PDE10A,intron_variant,,ENST00000580695,;"	"C"	"ENSG00000112541"	"ENST00000580695"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/532"	""	""	""	""	"rs534252870"	"1"	NA	-1	"PDE10A"	"HGNC"	8772	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	"C:0.0004"	"C:0"	"C:0"	NA	"C:0.002"	"C:0"	"C:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c3e9b512-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"12045"	"SMOC2"	64094	"mskcc.org"	"GRCh37"	"6"	169015875	169015875	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.940+6956A>G"	""	""	"ENST00000354536"	""	36	"31"	5	18	"18"	0	"SMOC2,intron_variant,,ENST00000354536,NM_022138.2;SMOC2,intron_variant,,ENST00000356284,NM_001166412.1;"	"G"	"ENSG00000112562"	"ENST00000354536"	"Transcript"	"intron_variant"	"-/3150"	"-/1374"	"-/457"	""	""	""	"1"	NA	1	"SMOC2"	"HGNC"	20323	"protein_coding"	"YES"	"CCDS5307.1"	"ENSP00000346537"	"Q9H3U7"	"B4DNB1"	"UPI0000072A56"	"NM_022138.2"	""	""	""	"9/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"c3eb6dc6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138888888888889	"WGS"	FALSE
"12046"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	169526394	169526394	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"62"	4	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c3ec06be-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"12047"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	170813230	170813230	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"98"	7	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c3ed9902-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"12048"	"ENSR00000620429"	0	"mskcc.org"	"GRCh37"	"7"	451361	451361	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000620429"	""	26	"23"	3	12	"12"	0	""	"T"	""	"ENSR00000620429"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c3ee5694-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"12049"	"GPER1"	2852	"mskcc.org"	"GRCh37"	"7"	1133093	1133093	"+"	"3'UTR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*601G>A"	""	""	"ENST00000397092"	"3/3"	104	"67"	37	57	"57"	0	"GPER1,3_prime_UTR_variant,,ENST00000397092,NM_001039966.1;GPER1,3_prime_UTR_variant,,ENST00000297469,NM_001505.2;GPER1,3_prime_UTR_variant,,ENST00000397088,NM_001098201.1;C7orf50,intron_variant,,ENST00000397098,;C7orf50,intron_variant,,ENST00000357429,NM_001134395.1,NM_032350.5;C7orf50,intron_variant,,ENST00000397100,NM_001134396.1;C7orf50,intron_variant,,ENST00000491163,;GPER1,downstream_gene_variant,,ENST00000401670,;GPER1,downstream_gene_variant,,ENST00000413368,;C7orf50,intron_variant,,ENST00000488073,;"	"A"	"ENSG00000164850"	"ENST00000397092"	"Transcript"	"3_prime_UTR_variant"	"2613/2971"	"-/1128"	"-/375"	""	""	""	"1"	NA	1	"GPER1"	"HGNC"	4485	"protein_coding"	"YES"	"CCDS5322.1"	"ENSP00000380281"	"Q99527"	"C9J3W2"	"UPI00000503F2"	"NM_001039966.1"	""	""	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c3ef623c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355769230769231	"WGS"	FALSE
"12050"	"MAD1L1"	8379	"mskcc.org"	"GRCh37"	"7"	2098281	2098281	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1218+10548A>G"	""	""	"ENST00000406869"	""	24	"19"	5	14	"14"	0	"MAD1L1,intron_variant,,ENST00000406869,;MAD1L1,intron_variant,,ENST00000399654,NM_001013837.1,NM_003550.2,NM_001013836.1;MAD1L1,intron_variant,,ENST00000265854,;MAD1L1,intron_variant,,ENST00000402746,;MAD1L1,intron_variant,,ENST00000438959,;MAD1L1,intron_variant,,ENST00000421113,;MAD1L1,intron_variant,,ENST00000444373,;"	"C"	"ENSG00000002822"	"ENST00000406869"	"Transcript"	"intron_variant"	"-/2991"	"-/2157"	"-/718"	""	""	""	"1"	NA	-1	"MAD1L1"	"HGNC"	6762	"protein_coding"	"YES"	"CCDS43539.1"	"ENSP00000385334"	"Q9Y6D9"	"C9K086,C9JX80,C9JTA2,C9JKI7,C9JJ38,C9J9H5"	"UPI0000072C4D"	""	""	""	""	"12/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c3f07348-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WGS"	FALSE
"12051"	"SNX8"	29886	"mskcc.org"	"GRCh37"	"7"	2298578	2298578	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.916-1140G>A"	""	""	"ENST00000222990"	""	129	"95"	34	50	"50"	0	"SNX8,intron_variant,,ENST00000222990,NM_013321.2;SNX8,intron_variant,,ENST00000479689,;SNX8,upstream_gene_variant,,ENST00000480807,;"	"T"	"ENSG00000106266"	"ENST00000222990"	"Transcript"	"intron_variant"	"-/4727"	"-/1398"	"-/465"	""	""	""	"1"	NA	-1	"SNX8"	"HGNC"	14972	"protein_coding"	"YES"	"CCDS5331.1"	"ENSP00000222990"	"Q9Y5X2"	"C9JCB9,C9J8E6,C9J014,C9IYC5"	"UPI0000135B46"	"NM_013321.2"	""	""	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c3f08676-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263565891472868	"WGS"	FALSE
"12052"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	3287571	3287571	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"70"	28	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c3f13152-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"12053"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	4396138	4396138	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs553851815"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"79"	29	67	"67"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs553851815"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c3f19840-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268518518518519	"WGS"	FALSE
"12054"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	4540933	4540933	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"81"	25	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c3f1aed4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235849056603774	"WGS"	FALSE
"12055"	"FOXK1"	221937	"mskcc.org"	"GRCh37"	"7"	4797387	4797387	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1244+569G>C"	""	""	"ENST00000328914"	""	119	"82"	37	48	"48"	0	"FOXK1,intron_variant,,ENST00000328914,NM_001037165.1;FOXK1,intron_variant,,ENST00000446823,;FOXK1,downstream_gene_variant,,ENST00000460979,;FOXK1,upstream_gene_variant,,ENST00000496023,;"	"C"	"ENSG00000164916"	"ENST00000328914"	"Transcript"	"intron_variant"	"-/11181"	"-/2202"	"-/733"	""	""	""	"1"	NA	1	"FOXK1"	"HGNC"	23480	"protein_coding"	"YES"	"CCDS34591.1"	"ENSP00000328720"	"P85037"	"B3KV39"	"UPI00004158EB"	"NM_001037165.1"	""	""	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c3f1d350-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310924369747899	"WGS"	FALSE
"12056"	"AC092171.4"	0	"mskcc.org"	"GRCh37"	"7"	5513596	5513596	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000444210"	""	90	"84"	6	49	"49"	0	"AC092171.4,upstream_gene_variant,,ENST00000444210,;FBXL18,intron_variant,,ENST00000415009,;"	"A"	"ENSG00000230733"	"ENST00000444210"	"Transcript"	"upstream_gene_variant"	"-/3251"	""	""	""	""	""	"1"	"1839"	1	"AC092171.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c3f232a0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"12057"	"NXPH1"	30010	"mskcc.org"	"GRCh37"	"7"	8788002	8788002	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55-2636G>A"	""	""	"ENST00000405863"	""	85	"57"	28	56	"56"	0	"NXPH1,intron_variant,,ENST00000405863,NM_152745.2;NXPH1,intron_variant,,ENST00000602349,;NXPH1,intron_variant,,ENST00000429542,;NXPH1,intron_variant,,ENST00000438764,;NXPH1,intron_variant,,ENST00000497400,;"	"A"	"ENSG00000122584"	"ENST00000405863"	"Transcript"	"intron_variant"	"-/2921"	"-/816"	"-/271"	""	""	""	"1"	NA	1	"NXPH1"	"HGNC"	20693	"protein_coding"	"YES"	"CCDS47540.1"	"ENSP00000384551"	"P58417"	"Q3LID8,C9JPD0,C9JE46,B4DJV1"	"UPI000000DC02"	"NM_152745.2"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c3f375a2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329411764705882	"WGS"	FALSE
"12058"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	9829868	9829868	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"58"	24	71	"71"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c3f39730-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292682926829268	"WGS"	FALSE
"12059"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	10242810	10242810	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs753221771"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"49"	22	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs753221771"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c3f3aa22-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309859154929577	"WGS"	FALSE
"12060"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	10343010	10343010	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"76"	20	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c3f3ad2e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WGS"	FALSE
"12061"	"AC011288.2"	0	"mskcc.org"	"GRCh37"	"7"	13339662	13339662	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.237-10172C>T"	""	""	"ENST00000411542"	""	101	"94"	7	49	"49"	0	"AC011288.2,intron_variant,,ENST00000411542,;"	"T"	"ENSG00000229618"	"ENST00000411542"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/526"	""	""	""	""	""	"1"	NA	1	"AC011288.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c3f43ca8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0693069306930693	"WGS"	FALSE
"12062"	"DGKB"	1607	"mskcc.org"	"GRCh37"	"7"	14283635	14283635	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2126-65859C>A"	""	""	"ENST00000403951"	""	104	"98"	6	65	"65"	0	"DGKB,intron_variant,,ENST00000403951,;DGKB,intron_variant,,ENST00000258767,;DGKB,intron_variant,,ENST00000399322,NM_004080.2;DGKB,intron_variant,,ENST00000402815,;DGKB,intron_variant,,ENST00000407950,;DGKB,intron_variant,,ENST00000444700,;DGKB,intron_variant,,ENST00000406247,NM_145695.2;DGKB,intron_variant,,ENST00000403963,;DGKB,intron_variant,,ENST00000493142,;"	"T"	"ENSG00000136267"	"ENST00000403951"	"Transcript"	"intron_variant"	"-/6917"	"-/2415"	"-/804"	""	""	""	"1"	NA	-1	"DGKB"	"HGNC"	2850	"protein_coding"	"YES"	"CCDS47547.1"	"ENSP00000385780"	"Q9Y6T7"	"C9JA18,B7Z3B3"	"UPI0000033B9B"	""	""	""	""	"23/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c3f471d2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0576923076923077	"WGS"	FALSE
"12063"	"DGKB"	1607	"mskcc.org"	"GRCh37"	"7"	14539818	14539818	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1774-21968A>T"	""	""	"ENST00000403951"	""	98	"70"	28	64	"64"	0	"DGKB,intron_variant,,ENST00000403951,;DGKB,intron_variant,,ENST00000258767,;DGKB,intron_variant,,ENST00000399322,NM_004080.2;DGKB,intron_variant,,ENST00000402815,;DGKB,intron_variant,,ENST00000407950,;DGKB,intron_variant,,ENST00000444700,;DGKB,intron_variant,,ENST00000406247,NM_145695.2;DGKB,intron_variant,,ENST00000403963,;"	"A"	"ENSG00000136267"	"ENST00000403951"	"Transcript"	"intron_variant"	"-/6917"	"-/2415"	"-/804"	""	""	""	"1"	NA	-1	"DGKB"	"HGNC"	2850	"protein_coding"	"YES"	"CCDS47547.1"	"ENSP00000385780"	"Q9Y6T7"	"C9JA18,B7Z3B3"	"UPI0000033B9B"	""	""	""	""	"20/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c3f4fcb0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"12064"	"DGKB"	1607	"mskcc.org"	"GRCh37"	"7"	14803169	14803169	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.71-5813A>T"	""	""	"ENST00000403951"	""	96	"63"	33	66	"66"	0	"DGKB,intron_variant,,ENST00000403951,;DGKB,intron_variant,,ENST00000258767,;DGKB,intron_variant,,ENST00000399322,NM_004080.2;DGKB,intron_variant,,ENST00000402815,;DGKB,intron_variant,,ENST00000407950,;DGKB,intron_variant,,ENST00000444700,;DGKB,intron_variant,,ENST00000406247,NM_145695.2;DGKB,intron_variant,,ENST00000437998,;DGKB,intron_variant,,ENST00000403963,;DGKB,intron_variant,,ENST00000463981,;DGKB,intron_variant,,ENST00000467449,;DGKB,intron_variant,,ENST00000477401,;"	"A"	"ENSG00000136267"	"ENST00000403951"	"Transcript"	"intron_variant"	"-/6917"	"-/2415"	"-/804"	""	""	""	"1"	NA	-1	"DGKB"	"HGNC"	2850	"protein_coding"	"YES"	"CCDS47547.1"	"ENSP00000385780"	"Q9Y6T7"	"C9JA18,B7Z3B3"	"UPI0000033B9B"	""	""	""	""	"2/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c3f503f4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34375	"WGS"	FALSE
"12065"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	15091986	15091986	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"73"	19	56	"56"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c3f50a02-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206521739130435	"WGS"	FALSE
"12066"	"AGMO"	392636	"mskcc.org"	"GRCh37"	"7"	15540536	15540536	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.409+43861C>T"	""	""	"ENST00000342526"	""	91	"69"	22	59	"59"	0	"AGMO,intron_variant,,ENST00000342526,NM_001004320.1;"	"A"	"ENSG00000187546"	"ENST00000342526"	"Transcript"	"intron_variant"	"-/2475"	"-/1338"	"-/445"	""	""	""	"1"	NA	-1	"AGMO"	"HGNC"	33784	"protein_coding"	"YES"	"CCDS34604.1"	"ENSP00000341662"	"Q6ZNB7"	""	"UPI0000050343"	"NM_001004320.1"	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c3f524a6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241758241758242	"WGS"	FALSE
"12067"	"ENSR00001557645"	0	"mskcc.org"	"GRCh37"	"7"	17656898	17656898	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001557645"	""	90	"64"	26	66	"66"	0	""	"A"	""	"ENSR00001557645"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c3f56d4e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288888888888889	"WGS"	FALSE
"12068"	"HDAC9"	9734	"mskcc.org"	"GRCh37"	"7"	18487753	18487753	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.26-10712G>A"	""	""	"ENST00000417496"	""	92	"65"	27	58	"58"	0	"HDAC9,intron_variant,,ENST00000417496,NM_001204144.1;HDAC9,intron_variant,,ENST00000433709,;HDAC9,intron_variant,,ENST00000413509,;HDAC9,intron_variant,,ENST00000474742,;HDAC9,intron_variant,,ENST00000461159,;"	"A"	"ENSG00000048052"	"ENST00000417496"	"Transcript"	"intron_variant"	"-/2524"	"-/1767"	"-/588"	""	""	""	"1"	NA	1	"HDAC9"	"HGNC"	14065	"protein_coding"	""	"CCDS56465.1"	"ENSP00000401669"	"Q9UKV0"	"Q75N08,C9JLX1,C9JD56"	"UPI00019154CE"	"NM_001204144.1"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"c3f594ae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293478260869565	"WGS"	FALSE
"12069"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	19383984	19383984	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"33"	14	39	"39"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c3f5b358-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297872340425532	"WGS"	FALSE
"12070"	"AC007091.1"	0	"mskcc.org"	"GRCh37"	"7"	19509697	19509697	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.356+64704A>T"	""	""	"ENST00000412563"	""	79	"62"	17	53	"53"	0	"AC007091.1,intron_variant,,ENST00000412563,;"	"T"	"ENSG00000223838"	"ENST00000412563"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/566"	""	""	""	""	""	"1"	NA	1	"AC007091.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c3f5b970-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215189873417722	"WGS"	FALSE
"12071"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	19726006	19726006	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"58"	22	66	"66"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c3f5bb28-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275	"WGS"	FALSE
"12072"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	22081206	22081206	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"67"	25	53	"52"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c3f615a0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"12073"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	25241527	25241527	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"46"	27	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c3f6a7cc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36986301369863	"WGS"	FALSE
"12074"	"AC003090.1"	646588	"mskcc.org"	"GRCh37"	"7"	25777535	25777535	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.209+12871G>A"	""	""	"ENST00000456777"	""	100	"63"	37	48	"48"	0	"AC003090.1,intron_variant,,ENST00000456777,;"	"T"	"ENSG00000223561"	"ENST00000456777"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/589"	""	""	""	""	""	"1"	NA	-1	"AC003090.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c3f6bbd6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.37	"WGS"	FALSE
"12075"	"RP1-170O19.17"	0	"mskcc.org"	"GRCh37"	"7"	27276914	27276914	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"rs2391399"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000523608"	""	79	"72"	7	31	"31"	0	"RP1-170O19.17,downstream_gene_variant,,ENST00000523608,;EVX1-AS,downstream_gene_variant,,ENST00000519050,;EVX1-AS,downstream_gene_variant,,ENST00000519218,;EVX1-AS,downstream_gene_variant,,ENST00000517726,;"	"C"	"ENSG00000253308"	"ENST00000523608"	"Transcript"	"downstream_gene_variant"	"-/757"	""	""	""	""	"rs2391399"	"1"	"1948"	-1	"RP1-170O19.17"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c3f71662-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"12076"	"AC005017.2"	0	"mskcc.org"	"GRCh37"	"7"	28314586	28314586	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000482002"	""	72	"48"	24	52	"50"	2	"AC005017.2,downstream_gene_variant,,ENST00000482002,;AC005017.2,downstream_gene_variant,,ENST00000445031,;"	"A"	"ENSG00000174495"	"ENST00000482002"	"Transcript"	"downstream_gene_variant"	"-/490"	""	""	""	""	""	"1"	"4244"	-1	"AC005017.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c3f74600-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"12077"	"ZNRF2P2"	646762	"mskcc.org"	"GRCh37"	"7"	29707126	29707126	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.367-16171C>T"	""	""	"ENST00000426767"	""	59	"45"	14	37	"37"	0	"ZNRF2P2,intron_variant,,ENST00000426767,;ZNRF2P2,intron_variant,,ENST00000442865,;DPY19L2P3,intron_variant,,ENST00000414296,;"	"A"	"ENSG00000225264"	"ENST00000426767"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/663"	""	""	""	""	""	"1"	NA	-1	"ZNRF2P2"	"HGNC"	42793	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c3f7a7c6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23728813559322	"WGS"	FALSE
"12078"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	32421674	32421674	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"74"	24	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c3f82854-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244897959183673	"WGS"	FALSE
"12079"	"DPY19L1P1"	100129460	"mskcc.org"	"GRCh37"	"7"	32644339	32644339	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1728-11421T>G"	""	""	"ENST00000417811"	""	99	"93"	6	51	"51"	0	"AVL9,intron_variant,,ENST00000404479,;DPY19L1P1,intron_variant,,ENST00000417811,;"	"C"	"ENSG00000229358"	"ENST00000417811"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2594"	""	""	""	""	""	"1"	NA	-1	"DPY19L1P1"	"HGNC"	22395	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"17/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c3f8496a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"12080"	"ENSR00001558713"	0	"mskcc.org"	"GRCh37"	"7"	33812425	33812425	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001558713"	""	92	"68"	24	48	"48"	0	""	"T"	""	"ENSR00001558713"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c3f8a306-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"12081"	"AOAH"	313	"mskcc.org"	"GRCh37"	"7"	36658509	36658509	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"rs764109064"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.703-558G>T"	""	""	"ENST00000258749"	""	80	"52"	28	72	"72"	0	"AOAH,intron_variant,,ENST00000431169,NM_001177506.1;AOAH,intron_variant,,ENST00000258749,NM_001637.3;AOAH,intron_variant,,ENST00000535891,NM_001177507.1;AOAH,downstream_gene_variant,,ENST00000543742,;"	"A"	"ENSG00000136250"	"ENST00000258749"	"Transcript"	"intron_variant"	"-/2379"	"-/1728"	"-/575"	""	""	"rs764109064"	"1"	NA	-1	"AOAH"	"HGNC"	548	"protein_coding"	"YES"	"CCDS5448.1"	"ENSP00000258749"	"P28039"	""	"UPI0000001291"	"NM_001637.3"	""	""	""	"9/20"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c3f93a64-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WGS"	FALSE
"12082"	"RP11-467D6.1"	0	"mskcc.org"	"GRCh37"	"7"	39983945	39983945	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000569710"	""	76	"68"	8	49	"49"	0	"RP11-467D6.1,downstream_gene_variant,,ENST00000569710,;"	"A"	"ENSG00000259826"	"ENST00000569710"	"Transcript"	"downstream_gene_variant"	"-/2234"	""	""	""	""	""	"1"	"3176"	-1	"RP11-467D6.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c3f9cdc6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"12083"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	41327359	41327359	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"53"	21	47	"47"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c3fa0dea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283783783783784	"WGS"	FALSE
"12084"	"CAMK2B"	816	"mskcc.org"	"GRCh37"	"7"	44301058	44301058	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.220+1546C>T"	""	""	"ENST00000395749"	""	87	"61"	26	60	"60"	0	"CAMK2B,intron_variant,,ENST00000395749,NM_001220.4;CAMK2B,intron_variant,,ENST00000457475,NM_172080.2,NM_172079.2;CAMK2B,intron_variant,,ENST00000350811,;CAMK2B,intron_variant,,ENST00000440254,NM_172078.2;CAMK2B,intron_variant,,ENST00000358707,NM_172081.2;CAMK2B,intron_variant,,ENST00000502837,;CAMK2B,intron_variant,,ENST00000258682,;CAMK2B,intron_variant,,ENST00000353625,NM_172083.2;CAMK2B,intron_variant,,ENST00000347193,NM_172082.2;CAMK2B,intron_variant,,ENST00000395747,;CAMK2B,intron_variant,,ENST00000346990,NM_172084.2;CAMK2B,intron_variant,,ENST00000421607,;CAMK2B,intron_variant,,ENST00000415369,;CAMK2B,intron_variant,,ENST00000424197,;CAMK2B,intron_variant,,ENST00000497584,;CAMK2B,intron_variant,,ENST00000495819,;CAMK2B,intron_variant,,ENST00000470984,;CAMK2B,intron_variant,,ENST00000462128,;CAMK2B,intron_variant,,ENST00000484972,;CAMK2B,upstream_gene_variant,,ENST00000497127,;CAMK2B,downstream_gene_variant,,ENST00000427209,;CAMK2B,intron_variant,,ENST00000523845,;CAMK2B,intron_variant,,ENST00000353185,;"	"A"	"ENSG00000058404"	"ENST00000395749"	"Transcript"	"intron_variant"	"-/4447"	"-/2001"	"-/666"	""	""	""	"1"	NA	-1	"CAMK2B"	"HGNC"	1461	"protein_coding"	"YES"	"CCDS5483.1"	"ENSP00000379098"	"Q13554"	"Q75LA8,Q75KE9,D3DVK8,A4D2J9"	"UPI0000164A3E"	"NM_001220.4"	""	""	""	"3/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c3fac794-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298850574712644	"WGS"	FALSE
"12085"	"NUDCD3"	23386	"mskcc.org"	"GRCh37"	"7"	44418605	44418605	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000355451"	""	77	"58"	19	51	"51"	0	"NUDCD3,downstream_gene_variant,,ENST00000355451,NM_015332.3;NUDCD3,downstream_gene_variant,,ENST00000460110,;NUDCD3,downstream_gene_variant,,ENST00000487118,;"	"T"	"ENSG00000015676"	"ENST00000355451"	"Transcript"	"downstream_gene_variant"	"-/8256"	"-/1086"	"-/361"	""	""	""	"1"	"115"	-1	"NUDCD3"	"HGNC"	22208	"protein_coding"	"YES"	"CCDS5490.2"	"ENSP00000347626"	"Q8IVD9"	"A4D2J8"	"UPI000020EEEB"	"NM_015332.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c3fad0b8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246753246753247	"WGS"	FALSE
"12086"	"IKZF1"	10320	"mskcc.org"	"GRCh37"	"7"	50359367	50359367	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.40+670G>A"	""	""	"ENST00000331340"	""	102	"67"	35	65	"65"	0	"IKZF1,intron_variant,,ENST00000331340,NM_006060.4,NM_001220772.1,NM_001220775.1,NM_001220773.1,NM_001220769.1;IKZF1,intron_variant,,ENST00000343574,NM_001220772.1,NM_001220775.1,NM_001220773.1,NM_001220769.1,NM_001220766.1;IKZF1,intron_variant,,ENST00000357364,NM_001220768.1;IKZF1,intron_variant,,ENST00000349824,NM_001220767.1,NM_001220776.1,NM_001220774.1,NM_001220770.1,NM_001220771.1;IKZF1,intron_variant,,ENST00000346667,;IKZF1,intron_variant,,ENST00000439701,;IKZF1,intron_variant,,ENST00000359197,;IKZF1,intron_variant,,ENST00000440768,;IKZF1,intron_variant,,ENST00000413698,;IKZF1,intron_variant,,ENST00000438033,;IKZF1,intron_variant,,ENST00000492782,;IKZF1,intron_variant,,ENST00000484847,;IKZF1,intron_variant,,ENST00000462201,;"	"A"	"ENSG00000185811"	"ENST00000331340"	"Transcript"	"intron_variant"	"-/6189"	"-/1560"	"-/519"	""	""	""	"1"	NA	1	"IKZF1"	"HGNC"	13176	"protein_coding"	""	""	"ENSP00000331614"	"Q13422"	""	"UPI000012D465"	"NM_006060.4,NM_001220772.1,NM_001220775.1,NM_001220773.1,NM_001220769.1"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"c3fc0cf8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.343137254901961	"WGS"	TRUE
"12087"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	51815868	51815868	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"75"	31	51	"51"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c3fc4ae2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292452830188679	"WGS"	FALSE
"12088"	"RP11-153N17.1"	0	"mskcc.org"	"GRCh37"	"7"	52233934	52233934	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.564-829T>A"	""	""	"ENST00000441295"	""	70	"50"	20	57	"57"	0	"RP11-153N17.1,intron_variant,,ENST00000441295,;"	"T"	"ENSG00000233960"	"ENST00000441295"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/738"	""	""	""	""	""	"1"	NA	-1	"RP11-153N17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c3fc5c30-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"12089"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	53083951	53083951	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"59"	34	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c3fc8084-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.365591397849462	"WGS"	FALSE
"12090"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	53605796	53605796	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	61	"46"	15	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c3fc9722-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245901639344262	"WGS"	FALSE
"12091"	"EGFR"	1956	"mskcc.org"	"GRCh37"	"7"	55225086	55225086	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1208-270G>A"	""	""	"ENST00000275493"	""	103	"67"	36	64	"64"	0	"EGFR,intron_variant,,ENST00000275493,NM_005228.3;EGFR,intron_variant,,ENST00000454757,;EGFR,intron_variant,,ENST00000455089,;EGFR,intron_variant,,ENST00000344576,NM_201284.1;EGFR,intron_variant,,ENST00000442591,;EGFR,intron_variant,,ENST00000342916,NM_201282.1;EGFR,downstream_gene_variant,,ENST00000420316,NM_201283.1;"	"A"	"ENSG00000146648"	"ENST00000275493"	"Transcript"	"intron_variant"	"-/9821"	"-/3633"	"-/1210"	""	""	""	"1"	NA	1	"EGFR"	"HGNC"	3236	"protein_coding"	"YES"	"CCDS5514.1"	"ENSP00000275493"	"P00533"	"Q75MF2,I3WA73,I3WA72,G9MC81,F1JTL6,E9PFD7,C9JYS6,A7VN06"	"UPI000003E750"	"NM_005228.3"	""	""	""	"10/27"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"c3fcd516-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349514563106796	"WGS"	TRUE
"12092"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	55386680	55386680	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"87"	6	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c3fcdebc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"12093"	"LANCL2"	55915	"mskcc.org"	"GRCh37"	"7"	55457218	55457218	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.205-2268T>G"	""	""	"ENST00000254770"	""	101	"73"	28	52	"52"	0	"LANCL2,intron_variant,,ENST00000254770,NM_018697.3;LANCL2,upstream_gene_variant,,ENST00000486376,;LANCL2,intron_variant,,ENST00000452107,;"	"G"	"ENSG00000132434"	"ENST00000254770"	"Transcript"	"intron_variant"	"-/4353"	"-/1353"	"-/450"	""	""	""	"1"	NA	1	"LANCL2"	"HGNC"	6509	"protein_coding"	"YES"	"CCDS5517.1"	"ENSP00000254770"	"Q9NS86"	"B4DWZ7"	"UPI000006F7D0"	"NM_018697.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c3fce15a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277227722772277	"WGS"	FALSE
"12094"	"RP11-310H4.2"	0	"mskcc.org"	"GRCh37"	"7"	55660052	55660052	"+"	"RNA"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.286C>T"	""	""	"ENST00000421500"	"1/2"	74	"54"	20	46	"46"	0	"RP11-310H4.2,non_coding_transcript_exon_variant,,ENST00000421500,;RP11-310H4.3,upstream_gene_variant,,ENST00000449899,;RP11-310H4.1,downstream_gene_variant,,ENST00000454777,;"	"T"	"ENSG00000233977"	"ENST00000421500"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"286/939"	""	""	""	""	""	"1"	NA	1	"RP11-310H4.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c3fceb50-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27027027027027	"WGS"	FALSE
"12095"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	56322063	56322063	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"97"	7	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c3fd44ba-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0673076923076923	"WGS"	FALSE
"12096"	"RP11-10F11.2"	0	"mskcc.org"	"GRCh37"	"7"	56710762	56710762	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.222-2757A>T"	""	""	"ENST00000429248"	""	19	"16"	3	6	"6"	0	"RP11-10F11.2,intron_variant,,ENST00000429248,;"	"A"	"ENSG00000228303"	"ENST00000429248"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1591"	""	""	""	""	""	"1"	NA	-1	"RP11-10F11.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c3fd6c9c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"12097"	"RP11-10F11.2"	0	"mskcc.org"	"GRCh37"	"7"	56710764	56710764	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.222-2759A>T"	""	""	"ENST00000429248"	""	19	"16"	3	6	"6"	0	"RP11-10F11.2,intron_variant,,ENST00000429248,;"	"A"	"ENSG00000228303"	"ENST00000429248"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1591"	""	""	""	""	""	"1"	NA	-1	"RP11-10F11.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c3fd6d78-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"12098"	"MTND4P4"	0	"mskcc.org"	"GRCh37"	"7"	57232524	57232524	"+"	"5'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000439033"	""	85	"60"	25	59	"59"	0	"MTND4P4,upstream_gene_variant,,ENST00000439033,;RP11-1217F2.3,upstream_gene_variant,,ENST00000455912,;"	"C"	"ENSG00000225295"	"ENST00000439033"	"Transcript"	"upstream_gene_variant"	"-/1366"	""	""	""	""	""	"1"	"4589"	1	"MTND4P4"	"HGNC"	42191	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c3fe3d52-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"12099"	"ZNF716"	441234	"mskcc.org"	"GRCh37"	"7"	57511187	57511187	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.39+1154A>T"	""	""	"ENST00000420713"	""	58	"53"	5	38	"38"	0	"ZNF716,intron_variant,,ENST00000420713,NM_001159279.1;"	"T"	"ENSG00000182111"	"ENST00000420713"	"Transcript"	"intron_variant"	"-/5197"	"-/1488"	"-/495"	""	""	""	"1"	NA	1	"ZNF716"	"HGNC"	32458	"protein_coding"	"YES"	"CCDS55112.1"	"ENSP00000394248"	"A6NP11"	""	"UPI00004192FD"	"NM_001159279.1"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c3fe5d82-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0862068965517241	"WGS"	FALSE
"12100"	"ZNF716"	441234	"mskcc.org"	"GRCh37"	"7"	57537375	57537375	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000420713"	""	102	"95"	7	58	"58"	0	"ZNF716,downstream_gene_variant,,ENST00000420713,NM_001159279.1;"	"A"	"ENSG00000182111"	"ENST00000420713"	"Transcript"	"downstream_gene_variant"	"-/5197"	"-/1488"	"-/495"	""	""	""	"1"	"4123"	1	"ZNF716"	"HGNC"	32458	"protein_coding"	"YES"	"CCDS55112.1"	"ENSP00000394248"	"A6NP11"	""	"UPI00004192FD"	"NM_001159279.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c3fe6016-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0686274509803922	"WGS"	FALSE
"12101"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	57637144	57637144	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"73"	6	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c3feb408-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"12102"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	62460551	62460551	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"66"	30	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c40094bc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"12103"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	62686407	62686407	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"68"	12	52	"52"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"c400ae3e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WGS"	FALSE
"12104"	"SLC29A4P2"	0	"mskcc.org"	"GRCh37"	"7"	63020964	63020964	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.948+265G>A"	""	""	"ENST00000504749"	""	117	"79"	38	56	"55"	1	"SLC29A4P2,intron_variant,,ENST00000504749,;"	"A"	"ENSG00000214660"	"ENST00000504749"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1089"	""	""	""	""	""	"1"	NA	1	"SLC29A4P2"	"HGNC"	43782	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c400d2e2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324786324786325	"WGS"	FALSE
"12105"	"RP11-165H4.3"	0	"mskcc.org"	"GRCh37"	"7"	63644945	63644945	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000395413"	""	71	"53"	18	42	"42"	0	"RP11-165H4.3,downstream_gene_variant,,ENST00000395413,;VN1R38P,upstream_gene_variant,,ENST00000450265,;"	"T"	"ENSG00000213644"	"ENST00000395413"	"Transcript"	"downstream_gene_variant"	"-/1184"	""	""	""	""	""	"1"	"1674"	1	"RP11-165H4.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c4017f08-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253521126760563	"WGS"	FALSE
"12106"	"TYW1"	55253	"mskcc.org"	"GRCh37"	"7"	66694132	66694132	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1978-9163T>C"	""	""	"ENST00000359626"	""	111	"70"	41	59	"59"	0	"TYW1,intron_variant,,ENST00000359626,NM_018264.3;TYW1,intron_variant,,ENST00000361660,;TYW1,intron_variant,,ENST00000495971,;"	"C"	"ENSG00000198874"	"ENST00000359626"	"Transcript"	"intron_variant"	"-/3348"	"-/2199"	"-/732"	""	""	""	"1"	NA	1	"TYW1"	"HGNC"	25598	"protein_coding"	"YES"	"CCDS5538.1"	"ENSP00000352645"	"Q9NV66"	"B4DW16"	"UPI00003674A9"	"NM_018264.3"	""	""	""	"15/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c40311d8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.369369369369369	"WGS"	FALSE
"12107"	"RP11-3P22.2"	0	"mskcc.org"	"GRCh37"	"7"	68740143	68740143	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.157-2758G>T"	""	""	"ENST00000435148"	""	62	"44"	18	46	"46"	0	"RP11-3P22.2,intron_variant,,ENST00000435148,;RP11-3P22.2,upstream_gene_variant,,ENST00000426356,;"	"A"	"ENSG00000225718"	"ENST00000435148"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/702"	""	""	""	""	""	"1"	NA	-1	"RP11-3P22.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c403e22a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290322580645161	"WGS"	FALSE
"12108"	"AUTS2"	26053	"mskcc.org"	"GRCh37"	"7"	69696952	69696952	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.660+97395G>C"	""	""	"ENST00000342771"	""	78	"70"	8	42	"42"	0	"AUTS2,intron_variant,,ENST00000342771,NM_015570.2;AUTS2,intron_variant,,ENST00000406775,NM_001127231.1;AUTS2,intron_variant,,ENST00000403018,NM_001127232.1;"	"C"	"ENSG00000158321"	"ENST00000342771"	"Transcript"	"intron_variant"	"-/6173"	"-/3780"	"-/1259"	""	""	""	"1"	NA	1	"AUTS2"	"HGNC"	14262	"protein_coding"	"YES"	"CCDS5539.1"	"ENSP00000344087"	"Q8WXX7"	"Q75MQ7,Q75MQ4,Q75MQ3,Q75MD7"	"UPI0000126665"	"NM_015570.2"	""	""	""	"4/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"c404201e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"12109"	"AUTS2"	26053	"mskcc.org"	"GRCh37"	"7"	70109564	70109564	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs769768219"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.691-53991G>A"	""	""	"ENST00000342771"	""	71	"42"	29	59	"59"	0	"AUTS2,intron_variant,,ENST00000342771,NM_015570.2;AUTS2,intron_variant,,ENST00000406775,NM_001127231.1;"	"A"	"ENSG00000158321"	"ENST00000342771"	"Transcript"	"intron_variant"	"-/6173"	"-/3780"	"-/1259"	""	""	"rs769768219"	"1"	NA	1	"AUTS2"	"HGNC"	14262	"protein_coding"	"YES"	"CCDS5539.1"	"ENSP00000344087"	"Q8WXX7"	"Q75MQ7,Q75MQ4,Q75MQ3,Q75MD7"	"UPI0000126665"	"NM_015570.2"	""	""	""	"5/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"c4043e50-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.408450704225352	"WGS"	FALSE
"12110"	"WBSCR17"	64409	"mskcc.org"	"GRCh37"	"7"	71168362	71168362	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1501-7384G>A"	""	""	"ENST00000333538"	""	97	"70"	27	57	"57"	0	"WBSCR17,intron_variant,,ENST00000333538,NM_022479.2;WBSCR17,intron_variant,,ENST00000498380,;WBSCR17,intron_variant,,ENST00000467723,;"	"A"	"ENSG00000185274"	"ENST00000333538"	"Transcript"	"intron_variant"	"-/3884"	"-/1797"	"-/598"	""	""	""	"1"	NA	1	"WBSCR17"	"HGNC"	16347	"protein_coding"	"YES"	"CCDS5540.1"	"ENSP00000329654"	"Q6IS24"	"Q68CW8,Q2L4S5,B3KRD2"	"UPI00000502D5"	"NM_022479.2"	""	""	""	"9/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c404866c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278350515463918	"WGS"	FALSE
"12111"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	72836679	72836679	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"56"	22	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c4053378-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282051282051282	"WGS"	FALSE
"12112"	"LAT2"	7462	"mskcc.org"	"GRCh37"	"7"	73621327	73621327	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000460943"	""	97	"64"	33	55	"54"	1	"LAT2,intron_variant,,ENST00000465116,;LAT2,upstream_gene_variant,,ENST00000460943,NM_032464.2;LAT2,upstream_gene_variant,,ENST00000398475,;LAT2,upstream_gene_variant,,ENST00000344995,NM_014146.3;LAT2,upstream_gene_variant,,ENST00000275635,NM_032463.2;LAT2,upstream_gene_variant,,ENST00000470709,;LAT2,upstream_gene_variant,,ENST00000361082,;LAT2,upstream_gene_variant,,ENST00000475494,;LAT2,upstream_gene_variant,,ENST00000488266,;LAT2,upstream_gene_variant,,ENST00000491595,;"	"T"	"ENSG00000086730"	"ENST00000460943"	"Transcript"	"upstream_gene_variant"	"-/2527"	"-/732"	"-/243"	""	""	""	"1"	"2421"	1	"LAT2"	"HGNC"	12749	"protein_coding"	"YES"	"CCDS5566.2"	"ENSP00000420494"	"Q9GZY6"	"F8W947,C9JDY7,C9JA24"	"UPI0000037782"	"NM_032464.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c405b17c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34020618556701	"WGS"	FALSE
"12113"	"CLIP2"	7461	"mskcc.org"	"GRCh37"	"7"	73807886	73807886	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2721-3518G>A"	""	""	"ENST00000223398"	""	76	"50"	26	40	"40"	0	"CLIP2,intron_variant,,ENST00000223398,NM_003388.4;CLIP2,intron_variant,,ENST00000361545,NM_032421.2;CLIP2,intron_variant,,ENST00000395060,;CLIP2,intron_variant,,ENST00000493166,;CLIP2,intron_variant,,ENST00000474962,;CLIP2,downstream_gene_variant,,ENST00000482424,;CLIP2,downstream_gene_variant,,ENST00000491075,;"	"A"	"ENSG00000106665"	"ENST00000223398"	"Transcript"	"intron_variant"	"-/5563"	"-/3141"	"-/1046"	""	""	""	"1"	NA	1	"CLIP2"	"HGNC"	2586	"protein_coding"	"YES"	"CCDS5569.1"	"ENSP00000223398"	"Q9UDT6"	"Q7Z5B7"	"UPI000007061E"	"NM_003388.4"	""	""	""	"13/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGA"	"c405d9a4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342105263157895	"WGS"	FALSE
"12114"	"UPK3B"	80761	"mskcc.org"	"GRCh37"	"7"	76637928	76637928	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*221-10213T>A"	""	""	"ENST00000419923"	""	61	"48"	13	29	"29"	0	"UPK3B,intron_variant,,ENST00000419923,;UPK3B,intron_variant,,ENST00000443097,;Y_RNA,upstream_gene_variant,,ENST00000365015,;DTX2P1-UPK3BP1-PMS2P11,intron_variant,,ENST00000584900,;DTX2P1-UPK3BP1-PMS2P11,intron_variant,,ENST00000579700,;DTX2P1,intron_variant,,ENST00000440837,;DTX2P1,intron_variant,,ENST00000162863,;DTX2P1,downstream_gene_variant,,ENST00000425797,;PMS2P11,upstream_gene_variant,,ENST00000451831,;UPK3BP1,downstream_gene_variant,,ENST00000428678,;"	"A"	"ENSG00000243566"	"ENST00000419923"	"Transcript"	"intron_variant"	"-/1608"	"-/963"	"-/320"	""	""	""	"1"	NA	1	"UPK3B"	"HGNC"	21444	"protein_coding"	"YES"	"CCDS5588.1"	"ENSP00000441602"	"Q9BT76"	""	"UPI00001AE7A4"	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c4078966-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213114754098361	"WGS"	FALSE
"12115"	"PTPN12"	5782	"mskcc.org"	"GRCh37"	"7"	77162847	77162847	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000248594"	""	25	"19"	6	6	"6"	0	"PTPN12,upstream_gene_variant,,ENST00000248594,NM_002835.3;PTPN12,upstream_gene_variant,,ENST00000435495,NM_001131009.1;PTPN12,upstream_gene_variant,,ENST00000415482,NM_001131008.1;PTPN12,upstream_gene_variant,,ENST00000433369,;PTPN12,upstream_gene_variant,,ENST00000460731,;PTPN12,upstream_gene_variant,,ENST00000523952,;"	"T"	"ENSG00000127947"	"ENST00000248594"	"Transcript"	"upstream_gene_variant"	"-/3406"	"-/2343"	"-/780"	""	""	""	"1"	"3745"	1	"PTPN12"	"HGNC"	9645	"protein_coding"	"YES"	"CCDS5592.1"	"ENSP00000248594"	"Q05209"	"F8WB51,E9PBR5,C9JJC1,C9J1X8,A4D1C5"	"UPI000013CC4C"	"NM_002835.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c407c138-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WGS"	FALSE
"12116"	"MAGI2"	9863	"mskcc.org"	"GRCh37"	"7"	78266006	78266006	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.419-9451G>A"	""	""	"ENST00000354212"	""	84	"59"	25	54	"54"	0	"MAGI2,intron_variant,,ENST00000354212,NM_012301.3;MAGI2,intron_variant,,ENST00000419488,;MAGI2,intron_variant,,ENST00000522391,;MAGI2,intron_variant,,ENST00000536571,;MAGI2,intron_variant,,ENST00000535697,;"	"T"	"ENSG00000187391"	"ENST00000354212"	"Transcript"	"intron_variant"	"-/6861"	"-/4368"	"-/1455"	""	""	""	"1"	NA	-1	"MAGI2"	"HGNC"	18957	"protein_coding"	"YES"	"CCDS5594.1"	"ENSP00000346151"	"Q86UL8"	""	"UPI00001615D2"	"NM_012301.3"	""	""	""	"2/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c4080134-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297619047619048	"WGS"	FALSE
"12117"	"MAGI2"	9863	"mskcc.org"	"GRCh37"	"7"	78615561	78615561	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs749377465"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.418+20845G>A"	""	""	"ENST00000354212"	""	100	"77"	23	68	"68"	0	"MAGI2,intron_variant,,ENST00000354212,NM_012301.3;MAGI2,intron_variant,,ENST00000419488,;MAGI2,intron_variant,,ENST00000522391,;MAGI2-IT1,intron_variant,,ENST00000440555,;"	"T"	"ENSG00000187391"	"ENST00000354212"	"Transcript"	"intron_variant"	"-/6861"	"-/4368"	"-/1455"	""	""	"rs749377465"	"1"	NA	-1	"MAGI2"	"HGNC"	18957	"protein_coding"	"YES"	"CCDS5594.1"	"ENSP00000346151"	"Q86UL8"	""	"UPI00001615D2"	"NM_012301.3"	""	""	""	"2/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c4080f1c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23	"WGS"	FALSE
"12118"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	79326789	79326789	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"95"	6	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c4082cea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0594059405940594	"WGS"	FALSE
"12119"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	79399983	79399983	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"73"	26	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c4083140-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.262626262626263	"WGS"	FALSE
"12120"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	81197194	81197194	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"67"	29	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c408772c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302083333333333	"WGS"	FALSE
"12121"	"AC010091.1"	100128317	"mskcc.org"	"GRCh37"	"7"	81203034	81203034	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000413944"	""	94	"55"	39	50	"50"	0	"AC010091.1,downstream_gene_variant,,ENST00000413944,;AC010091.1,downstream_gene_variant,,ENST00000455420,;"	"T"	"ENSG00000233491"	"ENST00000413944"	"Transcript"	"downstream_gene_variant"	"-/4571"	""	""	""	""	""	"1"	"2669"	-1	"AC010091.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c4087812-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.414893617021277	"WGS"	FALSE
"12122"	"CACNA2D1"	781	"mskcc.org"	"GRCh37"	"7"	81694246	81694246	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.729-576G>A"	""	""	"ENST00000356860"	""	97	"69"	28	68	"68"	0	"CACNA2D1,intron_variant,,ENST00000356860,NM_000722.2;CACNA2D1,intron_variant,,ENST00000356253,;CACNA2D1,intron_variant,,ENST00000423588,;CACNA2D1,intron_variant,,ENST00000461275,;"	"T"	"ENSG00000153956"	"ENST00000356860"	"Transcript"	"intron_variant"	"-/7563"	"-/3276"	"-/1091"	""	""	""	"1"	NA	-1	"CACNA2D1"	"HGNC"	1399	"protein_coding"	"YES"	"CCDS5598.1"	"ENSP00000349320"	"P54289"	"Q9UDU5,Q9UDQ3,Q9UDL7,O95026"	"UPI00003674CD"	"NM_000722.2"	""	""	""	"8/38"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"c4088974-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288659793814433	"WGS"	FALSE
"12123"	"CACNA2D1"	781	"mskcc.org"	"GRCh37"	"7"	81711746	81711746	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.658+2339C>T"	""	""	"ENST00000356860"	""	85	"64"	21	60	"59"	1	"CACNA2D1,intron_variant,,ENST00000356860,NM_000722.2;CACNA2D1,intron_variant,,ENST00000356253,;CACNA2D1,intron_variant,,ENST00000423588,;CACNA2D1,intron_variant,,ENST00000461275,;"	"A"	"ENSG00000153956"	"ENST00000356860"	"Transcript"	"intron_variant"	"-/7563"	"-/3276"	"-/1091"	""	""	""	"1"	NA	-1	"CACNA2D1"	"HGNC"	1399	"protein_coding"	"YES"	"CCDS5598.1"	"ENSP00000349320"	"P54289"	"Q9UDU5,Q9UDQ3,Q9UDL7,O95026"	"UPI00003674CD"	"NM_000722.2"	""	""	""	"7/38"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"c4088cee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247058823529412	"WGS"	FALSE
"12124"	"CACNA2D1"	781	"mskcc.org"	"GRCh37"	"7"	82061195	82061195	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.95+11486T>G"	""	""	"ENST00000356860"	""	64	"40"	24	47	"47"	0	"CACNA2D1,intron_variant,,ENST00000356860,NM_000722.2;CACNA2D1,intron_variant,,ENST00000356253,;CACNA2D1,intron_variant,,ENST00000423588,;"	"C"	"ENSG00000153956"	"ENST00000356860"	"Transcript"	"intron_variant"	"-/7563"	"-/3276"	"-/1091"	""	""	""	"1"	NA	-1	"CACNA2D1"	"HGNC"	1399	"protein_coding"	"YES"	"CCDS5598.1"	"ENSP00000349320"	"P54289"	"Q9UDU5,Q9UDQ3,Q9UDL7,O95026"	"UPI00003674CD"	"NM_000722.2"	""	""	""	"1/38"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"c40898b0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WGS"	FALSE
"12125"	"PCLO"	27445	"mskcc.org"	"GRCh37"	"7"	82527121	82527121	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.13528+4846G>T"	""	""	"ENST00000333891"	""	75	"44"	31	72	"72"	0	"PCLO,intron_variant,,ENST00000333891,NM_033026.5;PCLO,intron_variant,,ENST00000423517,NM_014510.2;PCLO,upstream_gene_variant,,ENST00000426442,;"	"A"	"ENSG00000186472"	"ENST00000333891"	"Transcript"	"intron_variant"	"-/20329"	"-/15429"	"-/5142"	""	""	""	"1"	NA	-1	"PCLO"	"HGNC"	13406	"protein_coding"	"YES"	"CCDS47630.1"	"ENSP00000334319"	"Q9Y6V0"	""	"UPI0001573469"	"NM_033026.5"	""	""	""	"9/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"c408a922-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.413333333333333	"WGS"	FALSE
"12126"	"ENSR00001797925"	0	"mskcc.org"	"GRCh37"	"7"	84559098	84559098	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001797925"	""	84	"76"	8	46	"46"	0	""	"G"	""	"ENSR00001797925"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"c40909ee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"12127"	"ENSR00000629745"	0	"mskcc.org"	"GRCh37"	"7"	84916594	84916594	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000629745"	""	87	"60"	27	47	"47"	0	""	"T"	""	"ENSR00000629745"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c4091538-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"12128"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	85674859	85674859	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"63"	28	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"c4092e24-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"12129"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	85767629	85767629	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"70"	27	74	"74"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c40932ca-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278350515463918	"WGS"	FALSE
"12130"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	85833444	85833444	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"63"	26	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c4093aea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292134831460674	"WGS"	FALSE
"12131"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	85908588	85908588	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"61"	36	70	"70"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c40940ee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.371134020618557	"WGS"	FALSE
"12132"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	91221085	91221085	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"61"	16	45	"45"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c40a2734-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207792207792208	"WGS"	FALSE
"12133"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	91517314	91517314	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	28	"24"	4	18	"18"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c40a3918-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"12134"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	96681583	96681583	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"58"	25	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c40b0c80-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301204819277108	"WGS"	FALSE
"12135"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	97028201	97028201	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"62"	26	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c40b24fe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295454545454545	"WGS"	FALSE
"12136"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	97711211	97711211	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	55	"47"	8	31	"31"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c40b59b0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145454545454545	"WGS"	FALSE
"12137"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	97711233	97711233	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"42"	9	29	"29"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c40b5a8c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"12138"	"TRRAP"	8295	"mskcc.org"	"GRCh37"	"7"	98588788	98588788	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9768+546G>A"	""	""	"ENST00000359863"	""	94	"56"	38	61	"61"	0	"TRRAP,intron_variant,,ENST00000359863,NM_001244580.1;TRRAP,intron_variant,,ENST00000355540,NM_003496.3;TRRAP,intron_variant,,ENST00000446306,;TRRAP,intron_variant,,ENST00000456197,;"	"A"	"ENSG00000196367"	"ENST00000359863"	"Transcript"	"intron_variant"	"-/12677"	"-/11580"	"-/3859"	""	""	""	"1"	NA	1	"TRRAP"	"HGNC"	12347	"protein_coding"	"YES"	"CCDS59066.1"	"ENSP00000352925"	"Q9Y4A5"	"C9K0N1"	"UPI00004575B4"	"NM_001244580.1"	""	""	""	"63/71"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c40bc6de-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.404255319148936	"WGS"	TRUE
"12139"	"RN7SL416P"	0	"mskcc.org"	"GRCh37"	"7"	100126797	100126797	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000494042"	""	76	"70"	6	45	"45"	0	"RN7SL416P,downstream_gene_variant,,ENST00000494042,;"	"C"	"ENSG00000242101"	"ENST00000494042"	"Transcript"	"downstream_gene_variant"	"-/296"	""	""	""	""	""	"1"	"1190"	-1	"RN7SL416P"	"HGNC"	46432	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c40c719c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"12140"	"MUC12"	10071	"mskcc.org"	"GRCh37"	"7"	100637693	100637693	"+"	"Silent"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3849T>G"	"p.="	"p.T1283T"	"ENST00000536621"	"2/12"	64	"57"	7	22	"22"	0	"MUC12,synonymous_variant,p.=,ENST00000379442,;MUC12,synonymous_variant,p.=,ENST00000536621,NM_001164462.1;"	"G"	"ENSG00000205277"	"ENST00000536621"	"Transcript"	"synonymous_variant"	"3849/16321"	"3849/16008"	"1283/5335"	"T"	"acT/acG"	""	"1"	NA	1	"MUC12"	"HGNC"	7510	"protein_coding"	"YES"	"CCDS55139.1"	"ENSP00000441929"	""	"F5GWV9"	"UPI0001B25898"	"NM_001164462.1"	""	""	"2/12"	""	"hmmpanther:PTHR32093,hmmpanther:PTHR32093:SF9,Low_complexity_(Seg):seg"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"c40cd3da-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109375	"WGS"	FALSE
"12141"	"CUX1"	1523	"mskcc.org"	"GRCh37"	"7"	101465036	101465036	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.63+5663G>A"	""	""	"ENST00000360264"	""	71	"62"	9	29	"29"	0	"CUX1,intron_variant,,ENST00000360264,NM_001202543.1;CUX1,intron_variant,,ENST00000292535,NM_181552.3;CUX1,intron_variant,,ENST00000549414,;CUX1,intron_variant,,ENST00000550008,;CUX1,intron_variant,,ENST00000546411,;CUX1,intron_variant,,ENST00000556210,;CUX1,intron_variant,,ENST00000437600,NM_181500.2;CUX1,intron_variant,,ENST00000292538,NM_001913.3;CUX1,intron_variant,,ENST00000547394,NM_001202544.1;CUX1,intron_variant,,ENST00000425244,NM_001202545.1;CUX1,intron_variant,,ENST00000393824,NM_001202546.1;CTA-339C12.1,downstream_gene_variant,,ENST00000560499,;CUX1,intron_variant,,ENST00000558469,;CUX1,intron_variant,,ENST00000497815,;CUX1,intron_variant,,ENST00000607092,;"	"A"	"ENSG00000257923"	"ENST00000360264"	"Transcript"	"intron_variant"	"-/13762"	"-/4551"	"-/1516"	""	""	""	"1"	NA	1	"CUX1"	"HGNC"	2557	"protein_coding"	"YES"	"CCDS56498.1"	"ENSP00000353401"	"P39880"	""	"UPI00001AEB98"	"NM_001202543.1"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c40d8e06-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126760563380282	"WGS"	TRUE
"12142"	"CUX1"	1523	"mskcc.org"	"GRCh37"	"7"	101465067	101465067	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.63+5694T>G"	""	""	"ENST00000360264"	""	86	"78"	8	36	"36"	0	"CUX1,intron_variant,,ENST00000360264,NM_001202543.1;CUX1,intron_variant,,ENST00000292535,NM_181552.3;CUX1,intron_variant,,ENST00000549414,;CUX1,intron_variant,,ENST00000550008,;CUX1,intron_variant,,ENST00000546411,;CUX1,intron_variant,,ENST00000556210,;CUX1,intron_variant,,ENST00000437600,NM_181500.2;CUX1,intron_variant,,ENST00000292538,NM_001913.3;CUX1,intron_variant,,ENST00000547394,NM_001202544.1;CUX1,intron_variant,,ENST00000425244,NM_001202545.1;CUX1,intron_variant,,ENST00000393824,NM_001202546.1;CTA-339C12.1,downstream_gene_variant,,ENST00000560499,;CUX1,intron_variant,,ENST00000558469,;CUX1,intron_variant,,ENST00000497815,;CUX1,intron_variant,,ENST00000607092,;"	"G"	"ENSG00000257923"	"ENST00000360264"	"Transcript"	"intron_variant"	"-/13762"	"-/4551"	"-/1516"	""	""	""	"1"	NA	1	"CUX1"	"HGNC"	2557	"protein_coding"	"YES"	"CCDS56498.1"	"ENSP00000353401"	"P39880"	""	"UPI00001AEB98"	"NM_001202543.1"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"c40d8fbe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	TRUE
"12143"	"PUS7"	54517	"mskcc.org"	"GRCh37"	"7"	105155007	105155007	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs150566469"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-8-6040G>A"	""	""	"ENST00000356362"	""	68	"61"	7	35	"35"	0	"PUS7,intron_variant,,ENST00000356362,NM_019042.3;PUS7,intron_variant,,ENST00000469408,;PUS7,intron_variant,,ENST00000481939,;"	"T"	"ENSG00000091127"	"ENST00000356362"	"Transcript"	"intron_variant"	"-/3480"	"-/1986"	"-/661"	""	""	"rs150566469"	"1"	NA	-1	"PUS7"	"HGNC"	26033	"protein_coding"	"YES"	"CCDS34725.1"	"ENSP00000348722"	"Q96PZ0"	"A3R6R7"	"UPI00001D483E"	"NM_019042.3"	""	""	""	"1/15"	""	"T:0.0735"	"T:0.2655"	"T:0.0202"	NA	"T:0"	"T:0.003"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c40ec762-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102941176470588	"WGS"	FALSE
"12144"	"CTB-111H14.1"	0	"mskcc.org"	"GRCh37"	"7"	106338898	106338898	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.172+62114A>G"	""	""	"ENST00000592441"	""	64	"59"	5	64	"64"	0	"CTB-111H14.1,intron_variant,,ENST00000592441,;CTB-111H14.1,intron_variant,,ENST00000490856,;"	"C"	"ENSG00000243797"	"ENST00000592441"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/701"	""	""	""	""	""	"1"	NA	-1	"CTB-111H14.1"	"Clone_based_vega_gene"	NA	"sense_overlapping"	""	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c40f2770-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.078125	"WGS"	FALSE
"12145"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	108786058	108786058	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"60"	26	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c40f9e80-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302325581395349	"WGS"	FALSE
"12146"	"AC073071.1"	0	"mskcc.org"	"GRCh37"	"7"	109219488	109219488	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.127-14099C>A"	""	""	"ENST00000412410"	""	110	"73"	37	56	"56"	0	"AC073071.1,intron_variant,,ENST00000412410,;"	"T"	"ENSG00000234273"	"ENST00000412410"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/388"	""	""	""	""	""	"1"	NA	-1	"AC073071.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c40fad94-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336363636363636	"WGS"	FALSE
"12147"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	109525185	109525185	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"59"	26	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c40fb92e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305882352941176	"WGS"	FALSE
"12148"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	109737584	109737584	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"66"	20	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c40fc022-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232558139534884	"WGS"	FALSE
"12149"	"IMMP2L"	83943	"mskcc.org"	"GRCh37"	"7"	110664221	110664221	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.240-60600C>A"	""	""	"ENST00000405709"	""	82	"63"	19	51	"51"	0	"IMMP2L,intron_variant,,ENST00000405709,NM_032549.3;IMMP2L,intron_variant,,ENST00000331762,NM_001244606.1;IMMP2L,intron_variant,,ENST00000447215,;IMMP2L,intron_variant,,ENST00000452895,;IMMP2L,intron_variant,,ENST00000450877,;IMMP2L,intron_variant,,ENST00000415362,;IMMP2L,intron_variant,,ENST00000437687,;IMMP2L,intron_variant,,ENST00000489381,;"	"T"	"ENSG00000184903"	"ENST00000405709"	"Transcript"	"intron_variant"	"-/1519"	"-/528"	"-/175"	""	""	""	"1"	NA	-1	"IMMP2L"	"HGNC"	14598	"protein_coding"	"YES"	"CCDS5753.1"	"ENSP00000384966"	"Q96T52"	"C9JVB0,A4D0S9"	"UPI000006D162"	"NM_032549.3"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"c40fd7f6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231707317073171	"WGS"	FALSE
"12150"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	111250413	111250413	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"20"	6	12	"12"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c40ff70e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"12151"	"FOXP2"	93986	"mskcc.org"	"GRCh37"	"7"	114249183	114249183	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.334-19412G>A"	""	""	"ENST00000408937"	""	83	"61"	22	49	"49"	0	"FOXP2,intron_variant,,ENST00000393500,;FOXP2,intron_variant,,ENST00000408937,NM_014491.3,NM_148898.3,NM_001172766.2;FOXP2,intron_variant,,ENST00000403559,NM_148900.3;FOXP2,intron_variant,,ENST00000393494,;FOXP2,intron_variant,,ENST00000350908,;FOXP2,intron_variant,,ENST00000393498,;FOXP2,intron_variant,,ENST00000393489,;FOXP2,intron_variant,,ENST00000378237,;FOXP2,intron_variant,,ENST00000390668,NM_001172767.2;FOXP2,intron_variant,,ENST00000360232,NM_148899.3;FOXP2,intron_variant,,ENST00000393495,;FOXP2,intron_variant,,ENST00000452963,;RNA5SP238,downstream_gene_variant,,ENST00000365464,;FOXP2,intron_variant,,ENST00000459666,;FOXP2,intron_variant,,ENST00000441290,;FOXP2,intron_variant,,ENST00000412402,;FOXP2,intron_variant,,ENST00000440349,;"	"A"	"ENSG00000128573"	"ENST00000408937"	"Transcript"	"intron_variant"	"-/6443"	"-/2223"	"-/740"	""	""	""	"1"	NA	1	"FOXP2"	"HGNC"	13875	"protein_coding"	"YES"	"CCDS43635.1"	"ENSP00000386200"	"O15409"	""	"UPI000007412B"	"NM_014491.3,NM_148898.3,NM_001172766.2"	""	""	""	"4/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"c41077ce-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265060240963855	"WGS"	FALSE
"12152"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	116292157	116292157	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"75"	13	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c410beaa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147727272727273	"WGS"	FALSE
"12153"	"KCND2"	3751	"mskcc.org"	"GRCh37"	"7"	120046011	120046011	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1115+130210T>A"	""	""	"ENST00000331113"	""	81	"72"	9	58	"58"	0	"KCND2,intron_variant,,ENST00000331113,NM_012281.2;"	"A"	"ENSG00000184408"	"ENST00000331113"	"Transcript"	"intron_variant"	"-/5331"	"-/1893"	"-/630"	""	""	""	"1"	NA	1	"KCND2"	"HGNC"	6238	"protein_coding"	"YES"	"CCDS5776.1"	"ENSP00000333496"	"Q9NZV8"	"A4D0V9,Q75LS7"	"UPI0000073D37"	"NM_012281.2"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c4112bf6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"12154"	"RP5-921G16.1"	0	"mskcc.org"	"GRCh37"	"7"	123896226	123896226	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.169-96644G>T"	""	""	"ENST00000484322"	""	103	"75"	28	47	"47"	0	"RP5-921G16.1,intron_variant,,ENST00000484322,;"	"T"	"ENSG00000242593"	"ENST00000484322"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4310"	""	""	""	""	""	"1"	NA	1	"RP5-921G16.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c411cfd4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271844660194175	"WGS"	FALSE
"12155"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	124132874	124132874	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"89"	13	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c411d290-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127450980392157	"WGS"	FALSE
"12156"	"POT1"	25913	"mskcc.org"	"GRCh37"	"7"	124475380	124475380	"+"	"Silent"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1458G>A"	"p.="	"p.L486L"	"ENST00000357628"	"15/19"	84	"58"	26	61	"61"	0	"POT1,synonymous_variant,p.=,ENST00000357628,NM_015450.2;POT1,synonymous_variant,p.=,ENST00000393329,NM_001042594.1;POT1,synonymous_variant,p.=,ENST00000609106,;POT1,synonymous_variant,p.=,ENST00000607932,;POT1,3_prime_UTR_variant,,ENST00000608057,;"	"T"	"ENSG00000128513"	"ENST00000357628"	"Transcript"	"synonymous_variant"	"2057/4080"	"1458/1905"	"486/634"	"L"	"ttG/ttA"	""	"1"	NA	-1	"POT1"	"HGNC"	17284	"protein_coding"	"YES"	"CCDS5793.1"	"ENSP00000350249"	"Q9NUX5"	"C9JPG9,A8MTK3"	"UPI0000073E3F"	"NM_015450.2"	""	""	"15/19"	""	"hmmpanther:PTHR14513,hmmpanther:PTHR14513:SF2"	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"c411e4a6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30952380952381	"WGS"	TRUE
"12157"	"POT1-AS1"	0	"mskcc.org"	"GRCh37"	"7"	124723732	124723732	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.615-33196C>T"	""	""	"ENST00000453342"	""	86	"57"	29	59	"59"	0	"POT1-AS1,intron_variant,,ENST00000453342,;POT1-AS1,intron_variant,,ENST00000449642,;POT1-AS1,intron_variant,,ENST00000435452,;POT1-AS1,intron_variant,,ENST00000415715,;POT1-AS1,intron_variant,,ENST00000429134,;"	"T"	"ENSG00000224897"	"ENST00000453342"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3252"	""	""	""	""	""	"1"	NA	1	"POT1-AS1"	"HGNC"	49459	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c411ee24-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337209302325581	"WGS"	FALSE
"12158"	"RP11-3B12.2"	101928283	"mskcc.org"	"GRCh37"	"7"	125023504	125023504	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000424515"	""	82	"62"	20	45	"45"	0	"RP11-3B12.2,downstream_gene_variant,,ENST00000424515,;"	"A"	"ENSG00000237764"	"ENST00000424515"	"Transcript"	"downstream_gene_variant"	"-/1453"	""	""	""	""	""	"1"	"4129"	1	"RP11-3B12.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c4120012-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24390243902439	"WGS"	FALSE
"12159"	"RP11-3B12.2"	101928283	"mskcc.org"	"GRCh37"	"7"	125023505	125023505	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000424515"	""	82	"61"	21	45	"45"	0	"RP11-3B12.2,downstream_gene_variant,,ENST00000424515,;"	"A"	"ENSG00000237764"	"ENST00000424515"	"Transcript"	"downstream_gene_variant"	"-/1453"	""	""	""	""	""	"1"	"4130"	1	"RP11-3B12.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c41200ee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25609756097561	"WGS"	FALSE
"12160"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	125164576	125164576	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"48"	28	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c4120468-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.368421052631579	"WGS"	FALSE
"12161"	"GRM8"	2918	"mskcc.org"	"GRCh37"	"7"	126392000	126392000	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1357+17919C>T"	""	""	"ENST00000339582"	""	91	"78"	13	57	"57"	0	"GRM8,intron_variant,,ENST00000339582,;GRM8,intron_variant,,ENST00000358373,NM_001127323.1;GRM8,intron_variant,,ENST00000444921,NM_000845.2;GRM8,intron_variant,,ENST00000405249,;GRM8,intron_variant,,ENST00000480995,;GRM8,intron_variant,,ENST00000472701,;GRM8,intron_variant,,ENST00000341617,;"	"A"	"ENSG00000179603"	"ENST00000339582"	"Transcript"	"intron_variant"	"-/4057"	"-/2727"	"-/908"	""	""	""	"1"	NA	-1	"GRM8"	"HGNC"	4600	"protein_coding"	"YES"	"CCDS5794.1"	"ENSP00000344173"	"O00222"	"E7ETK3,C9J7I1"	"UPI000012F085"	""	""	""	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c4122d6c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"12162"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	131250147	131250147	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"93"	6	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c4137fc8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"12163"	"ENSR00000634497"	0	"mskcc.org"	"GRCh37"	"7"	131290529	131290529	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000634497"	""	91	"84"	7	53	"53"	0	""	"G"	""	"ENSR00000634497"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c4138950-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"12164"	"ENSR00001564266"	0	"mskcc.org"	"GRCh37"	"7"	135596002	135596002	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001564266"	""	86	"57"	29	62	"62"	0	""	"C"	""	"ENSR00001564266"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c4147f40-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337209302325581	"WGS"	FALSE
"12165"	"hsa-mir-490"	574443	"mskcc.org"	"GRCh37"	"7"	136412440	136412440	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.467-39774C>A"	""	""	"ENST00000586239"	""	87	"60"	27	79	"79"	0	"hsa-mir-490,intron_variant,,ENST00000586239,;"	"T"	"ENSG00000234352"	"ENST00000586239"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/835"	""	""	""	""	""	"1"	NA	-1	"hsa-mir-490"	"miRBase"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c414b03c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"12166"	"ATP6V0A4"	50617	"mskcc.org"	"GRCh37"	"7"	138402410	138402410	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2140-1784A>G"	""	""	"ENST00000310018"	""	109	"101"	8	55	"55"	0	"ATP6V0A4,intron_variant,,ENST00000310018,NM_020632.2,NM_130840.2;ATP6V0A4,intron_variant,,ENST00000393054,NM_130841.2;ATP6V0A4,intron_variant,,ENST00000353492,;"	"C"	"ENSG00000105929"	"ENST00000310018"	"Transcript"	"intron_variant"	"-/3135"	"-/2523"	"-/840"	""	""	""	"1"	NA	-1	"ATP6V0A4"	"HGNC"	866	"protein_coding"	"YES"	"CCDS5849.1"	"ENSP00000308122"	"Q9HBG4"	""	"UPI000013CDFD"	"NM_020632.2,NM_130840.2"	""	""	""	"19/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"c41568ba-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.073394495412844	"WGS"	FALSE
"12167"	"ATP6V0A4"	50617	"mskcc.org"	"GRCh37"	"7"	138407664	138407664	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2011-894T>C"	""	""	"ENST00000310018"	""	78	"71"	7	47	"47"	0	"ATP6V0A4,intron_variant,,ENST00000310018,NM_020632.2,NM_130840.2;ATP6V0A4,intron_variant,,ENST00000393054,NM_130841.2;ATP6V0A4,intron_variant,,ENST00000353492,;"	"G"	"ENSG00000105929"	"ENST00000310018"	"Transcript"	"intron_variant"	"-/3135"	"-/2523"	"-/840"	""	""	""	"1"	NA	-1	"ATP6V0A4"	"HGNC"	866	"protein_coding"	"YES"	"CCDS5849.1"	"ENSP00000308122"	"Q9HBG4"	""	"UPI000013CDFD"	"NM_020632.2,NM_130840.2"	""	""	""	"18/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"c4156fb8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"12168"	"MYL6P4"	0	"mskcc.org"	"GRCh37"	"7"	141516294	141516294	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000477911"	""	87	"63"	24	61	"61"	0	"MYL6P4,downstream_gene_variant,,ENST00000477911,;"	"A"	"ENSG00000240677"	"ENST00000477911"	"Transcript"	"downstream_gene_variant"	"-/453"	""	""	""	""	""	"1"	"4237"	1	"MYL6P4"	"HGNC"	37813	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c4165fe0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275862068965517	"WGS"	FALSE
"12169"	"TRBV12-1"	0	"mskcc.org"	"GRCh37"	"7"	142216748	142216748	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000479785"	""	99	"80"	19	58	"58"	0	"TRBV12-1,upstream_gene_variant,,ENST00000479785,;"	"T"	"ENSG00000244661"	"ENST00000479785"	"Transcript"	"upstream_gene_variant"	"-/344"	""	""	""	""	""	"1"	"16"	-1	"TRBV12-1"	"HGNC"	12183	"TR_V_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c416700c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191919191919192	"WGS"	FALSE
"12170"	"EI24P4"	0	"mskcc.org"	"GRCh37"	"7"	144706716	144706716	"+"	"3'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000423683"	""	88	"54"	34	64	"64"	0	"EI24P4,downstream_gene_variant,,ENST00000423683,;AC073310.4,upstream_gene_variant,,ENST00000423226,;"	"A"	"ENSG00000236343"	"ENST00000423683"	"Transcript"	"downstream_gene_variant"	"-/1078"	""	""	""	""	""	"1"	"3488"	1	"EI24P4"	"HGNC"	44589	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"c416f450-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.386363636363636	"WGS"	FALSE
"12171"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	144947244	144947244	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"57"	6	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c416fa54-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"12172"	"CNTNAP2"	26047	"mskcc.org"	"GRCh37"	"7"	145889280	145889280	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.97+75215C>A"	""	""	"ENST00000361727"	""	90	"66"	24	67	"67"	0	"CNTNAP2,intron_variant,,ENST00000361727,NM_014141.5;"	"A"	"ENSG00000174469"	"ENST00000361727"	"Transcript"	"intron_variant"	"-/9894"	"-/3996"	"-/1331"	""	""	""	"1"	NA	1	"CNTNAP2"	"HGNC"	13830	"protein_coding"	"YES"	"CCDS5889.1"	"ENSP00000354778"	"Q9UHC6"	"Q9UDV4,Q96T77,Q86UL9,Q86UL6,Q86UL4,Q86UJ1,Q86UI8,Q75MQ9,Q75MF8,Q75MF6,Q75MD4,Q75MA1,Q75M92,Q75LG9,O75852,B7Z1Y6"	"UPI00001285FA"	"NM_014141.5"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"c4171426-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"12173"	"CNTNAP2"	26047	"mskcc.org"	"GRCh37"	"7"	146153565	146153565	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.98-317798C>A"	""	""	"ENST00000361727"	""	90	"56"	34	64	"64"	0	"CNTNAP2,intron_variant,,ENST00000361727,NM_014141.5;"	"A"	"ENSG00000174469"	"ENST00000361727"	"Transcript"	"intron_variant"	"-/9894"	"-/3996"	"-/1331"	""	""	""	"1"	NA	1	"CNTNAP2"	"HGNC"	13830	"protein_coding"	"YES"	"CCDS5889.1"	"ENSP00000354778"	"Q9UHC6"	"Q9UDV4,Q96T77,Q86UL9,Q86UL6,Q86UL4,Q86UJ1,Q86UI8,Q75MQ9,Q75MF8,Q75MF6,Q75MD4,Q75MA1,Q75M92,Q75LG9,O75852,B7Z1Y6"	"UPI00001285FA"	"NM_014141.5"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"c4171b1a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.377777777777778	"WGS"	FALSE
"12174"	"CNTNAP2"	26047	"mskcc.org"	"GRCh37"	"7"	146743408	146743408	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.550+2262C>T"	""	""	"ENST00000361727"	""	92	"67"	25	80	"80"	0	"CNTNAP2,intron_variant,,ENST00000361727,NM_014141.5;"	"T"	"ENSG00000174469"	"ENST00000361727"	"Transcript"	"intron_variant"	"-/9894"	"-/3996"	"-/1331"	""	""	""	"1"	NA	1	"CNTNAP2"	"HGNC"	13830	"protein_coding"	"YES"	"CCDS5889.1"	"ENSP00000354778"	"Q9UHC6"	"Q9UDV4,Q96T77,Q86UL9,Q86UL6,Q86UL4,Q86UJ1,Q86UI8,Q75MQ9,Q75MF8,Q75MF6,Q75MD4,Q75MA1,Q75M92,Q75LG9,O75852,B7Z1Y6"	"UPI00001285FA"	"NM_014141.5"	""	""	""	"4/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"c4173cd0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"12175"	"ENSR00000314539"	0	"mskcc.org"	"GRCh37"	"7"	148758074	148758074	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000314539"	""	95	"88"	7	43	"43"	0	""	"A"	""	"ENSR00000314539"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c417b1ec-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"12176"	"IQCA1P1"	392843	"mskcc.org"	"GRCh37"	"7"	150894894	150894894	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1008+14G>T"	""	""	"ENST00000453127"	""	105	"76"	29	47	"47"	0	"IQCA1P1,upstream_gene_variant,,ENST00000602518,;IQCA1P1,upstream_gene_variant,,ENST00000602757,;IQCA1P1,intron_variant,,ENST00000453127,;"	"A"	"ENSG00000183016"	"ENST00000453127"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2456"	""	""	""	""	""	"1"	NA	-1	"IQCA1P1"	"HGNC"	22831	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"7/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c418a624-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276190476190476	"WGS"	FALSE
"12177"	"GALNTL5"	168391	"mskcc.org"	"GRCh37"	"7"	151686474	151686474	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.658+2108A>G"	""	""	"ENST00000392800"	""	87	"81"	6	51	"51"	0	"GALNTL5,intron_variant,,ENST00000392800,NM_145292.3;GALNTL5,intron_variant,,ENST00000431418,;GALNTL5,intron_variant,,ENST00000416269,;GALNTL5,intron_variant,,ENST00000414073,;GALNTL5,intron_variant,,ENST00000426341,;GALNTL5,intron_variant,,ENST00000448366,;GALNTL5,intron_variant,,ENST00000416062,;"	"G"	"ENSG00000106648"	"ENST00000392800"	"Transcript"	"intron_variant"	"-/1719"	"-/1332"	"-/443"	""	""	""	"1"	NA	1	"GALNTL5"	"HGNC"	21725	"protein_coding"	"YES"	"CCDS5929.1"	"ENSP00000376548"	"Q7Z4T8"	""	"UPI000013C82E"	"NM_145292.3"	""	""	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c418f494-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"12178"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	152853663	152853663	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"61"	22	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c419f5d8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265060240963855	"WGS"	FALSE
"12179"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	155961519	155961519	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"rs28695739"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"22"	4	13	"13"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs28695739"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0505"	"C:0.1808"	"C:0.0144"	NA	"C:0"	"C:0.003"	"C:0.001"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c41c15a2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"12180"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	158289875	158289875	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.113-7398A>G"	""	""	"ENST00000389418"	""	22	"18"	4	6	"6"	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"C"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	""	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c41f1ebe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"12181"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	159096083	159096083	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"rs201352783"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"65"	21	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs201352783"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c42028f4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244186046511628	"WGS"	FALSE
"12182"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	159100740	159100740	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"52"	28	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c42029d0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WGS"	FALSE
"12183"	"ERICH1-AS1"	619343	"mskcc.org"	"GRCh37"	"8"	838659	838659	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.151+5311G>T"	""	""	"ENST00000524139"	""	83	"57"	26	51	"50"	1	"ERICH1-AS1,intron_variant,,ENST00000524139,;ERICH1-AS1,intron_variant,,ENST00000522092,;ERICH1-AS1,intron_variant,,ENST00000577187,;ERICH1-AS1,intron_variant,,ENST00000578889,;"	"T"	"ENSG00000237647"	"ENST00000524139"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1744"	""	""	""	""	""	"1"	NA	1	"ERICH1-AS1"	"HGNC"	32290	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c4211cb4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313253012048193	"WGS"	FALSE
"12184"	"CTD-2281E23.2"	0	"mskcc.org"	"GRCh37"	"8"	1187993	1187993	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"rs373247070"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.186-20858G>C"	""	""	"ENST00000520524"	""	17	"13"	4	8	"8"	0	"CTD-2281E23.2,intron_variant,,ENST00000520524,;"	"C"	"ENSG00000254269"	"ENST00000520524"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/381"	""	""	""	""	"rs373247070"	"1"	NA	1	"CTD-2281E23.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c421ac2e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"12185"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	1295575	1295575	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"66"	22	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c4220214-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"12186"	"DLGAP2"	9228	"mskcc.org"	"GRCh37"	"8"	1521043	1521043	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1202+6983A>C"	""	""	"ENST00000421627"	""	48	"41"	7	20	"20"	0	"DLGAP2,intron_variant,,ENST00000421627,NM_004745.4,NM_001277161.1;DLGAP2,intron_variant,,ENST00000520901,;RP11-666I19.2,intron_variant,,ENST00000518063,;"	"C"	"ENSG00000198010"	"ENST00000421627"	"Transcript"	"intron_variant"	"-/10132"	"-/2928"	"-/975"	""	""	""	"1"	NA	1	"DLGAP2"	"HGNC"	2906	"protein_coding"	"YES"	"CCDS47760.1"	"ENSP00000400258"	"Q9P1A6"	""	"UPI000021BFBC"	"NM_004745.4,NM_001277161.1"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c4226146-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145833333333333	"WGS"	FALSE
"12187"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	3126759	3126759	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs552308425"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4153+14907T>C"	""	""	"ENST00000537824"	""	101	"76"	25	52	"52"	0	"CSMD1,intron_variant,,ENST00000335551,;CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;CSMD1,intron_variant,,ENST00000523387,;CSMD1,intron_variant,,ENST00000523488,;"	"G"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	"rs552308425"	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	""	""	""	"26/69"	""	"G:0.0002"	"G:0.0008"	"G:0"	NA	"G:0"	"G:0"	"G:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c4239a5c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247524752475248	"WGS"	FALSE
"12188"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	3521759	3521759	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1009+44177T>A"	""	""	"ENST00000537824"	""	77	"56"	21	56	"56"	0	"CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;"	"T"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	""	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	""	""	""	"7/69"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c423cf90-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"12189"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	3876885	3876885	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.610+12542G>T"	""	""	"ENST00000537824"	""	84	"48"	36	55	"55"	0	"CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;"	"A"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	""	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	""	""	""	"4/69"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c423f088-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WGS"	FALSE
"12190"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	4865277	4865277	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"56"	30	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c4241ca2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.348837209302326	"WGS"	FALSE
"12191"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	5293338	5293338	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"55"	22	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c4243656-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"12192"	"DEFB107A"	503614	"mskcc.org"	"GRCh37"	"8"	7670485	7670485	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.71-1013T>C"	""	""	"ENST00000335021"	""	149	"114"	35	111	"111"	0	"DEFB107A,intron_variant,,ENST00000335021,NM_001037668.1;"	"G"	"ENSG00000186572"	"ENST00000335021"	"Transcript"	"intron_variant"	"-/389"	"-/213"	"-/70"	""	""	""	"1"	NA	-1	"DEFB107A"	"HGNC"	18086	"protein_coding"	"YES"	"CCDS43699.1"	"ENSP00000334681"	"Q8IZN7"	""	"UPI0000D7E5F1"	"NM_001037668.1"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c4255e3c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23489932885906	"WGS"	FALSE
"12193"	"RP11-211C9.1"	0	"mskcc.org"	"GRCh37"	"8"	8626459	8626459	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.375-11633A>T"	""	""	"ENST00000522213"	""	89	"82"	7	41	"41"	0	"RP11-211C9.1,intron_variant,,ENST00000522213,;RP11-211C9.1,intron_variant,,ENST00000519147,;"	"A"	"ENSG00000254367"	"ENST00000522213"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/666"	""	""	""	""	""	"1"	NA	-1	"RP11-211C9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c425fa4a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	FALSE
"12194"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	11092949	11092949	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs763634107"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"70"	29	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs763634107"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c42689ba-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292929292929293	"WGS"	FALSE
"12195"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	12503082	12503082	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"58"	28	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c4278748-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325581395348837	"WGS"	FALSE
"12196"	"DLC1"	10395	"mskcc.org"	"GRCh37"	"8"	12950811	12950811	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3527-477T>A"	""	""	"ENST00000276297"	""	86	"81"	5	64	"64"	0	"DLC1,intron_variant,,ENST00000276297,NM_182643.2;DLC1,intron_variant,,ENST00000358919,NM_006094.4;DLC1,intron_variant,,ENST00000512044,;DLC1,intron_variant,,ENST00000520226,NM_001164271.1;DLC1,intron_variant,,ENST00000510318,;DLC1,downstream_gene_variant,,ENST00000513883,;DLC1,downstream_gene_variant,,ENST00000510250,;DLC1,upstream_gene_variant,,ENST00000521730,;"	"T"	"ENSG00000164741"	"ENST00000276297"	"Transcript"	"intron_variant"	"-/7447"	"-/4587"	"-/1528"	""	""	""	"1"	NA	-1	"DLC1"	"HGNC"	2897	"protein_coding"	"YES"	"CCDS5989.1"	"ENSP00000276297"	"Q96QB1"	""	"UPI0000210275"	"NM_182643.2"	""	""	""	"12/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c427c208-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0581395348837209	"WGS"	FALSE
"12197"	"SGCZ"	137868	"mskcc.org"	"GRCh37"	"8"	14199343	14199343	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs755267745"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.235-17630C>T"	""	""	"ENST00000382080"	""	98	"67"	31	52	"52"	0	"SGCZ,intron_variant,,ENST00000382080,NM_139167.2;SGCZ,intron_variant,,ENST00000421524,;"	"A"	"ENSG00000185053"	"ENST00000382080"	"Transcript"	"intron_variant"	"-/2234"	"-/939"	"-/312"	""	""	"rs755267745"	"1"	NA	-1	"SGCZ"	"HGNC"	14075	"protein_coding"	"YES"	"CCDS5992.2"	"ENSP00000371512"	"Q96LD1"	""	"UPI00002339F6"	"NM_139167.2"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c427f502-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316326530612245	"WGS"	FALSE
"12198"	"SGCZ"	137868	"mskcc.org"	"GRCh37"	"8"	14719612	14719612	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs185021181"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.40-307177G>A"	""	""	"ENST00000382080"	""	100	"78"	22	60	"60"	0	"SGCZ,intron_variant,,ENST00000382080,NM_139167.2;"	"T"	"ENSG00000185053"	"ENST00000382080"	"Transcript"	"intron_variant"	"-/2234"	"-/939"	"-/312"	""	""	"rs185021181"	"1"	NA	-1	"SGCZ"	"HGNC"	14075	"protein_coding"	"YES"	"CCDS5992.2"	"ENSP00000371512"	"Q96LD1"	""	"UPI00002339F6"	"NM_139167.2"	""	""	""	"1/7"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0.001"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c4280b50-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22	"WGS"	FALSE
"12199"	"RP11-13N12.1"	0	"mskcc.org"	"GRCh37"	"8"	16706080	16706080	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.128-4316G>T"	""	""	"ENST00000521411"	""	104	"78"	26	59	"59"	0	"RP11-13N12.1,intron_variant,,ENST00000521411,;"	"A"	"ENSG00000253496"	"ENST00000521411"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/543"	""	""	""	""	""	"1"	NA	-1	"RP11-13N12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c4285fec-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"12200"	"PSD3"	23362	"mskcc.org"	"GRCh37"	"8"	18737297	18737297	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.131-7054C>T"	""	""	"ENST00000327040"	""	96	"74"	22	55	"55"	0	"PSD3,intron_variant,,ENST00000440756,;PSD3,intron_variant,,ENST00000327040,NM_015310.3;PSD3,intron_variant,,ENST00000523619,;"	"A"	"ENSG00000156011"	"ENST00000327040"	"Transcript"	"intron_variant"	"-/11689"	"-/3144"	"-/1047"	""	""	""	"1"	NA	-1	"PSD3"	"HGNC"	19093	"protein_coding"	"YES"	"CCDS43720.1"	"ENSP00000324127"	"Q9NYI0"	"E5RJE4,E5RJ29"	"UPI0000210A46"	"NM_015310.3"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c428b0b4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229166666666667	"WGS"	FALSE
"12201"	"SH2D4A"	63898	"mskcc.org"	"GRCh37"	"8"	19167637	19167637	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000265807"	""	98	"67"	31	56	"56"	0	"SH2D4A,upstream_gene_variant,,ENST00000265807,NM_022071.3,NM_001174160.1;SH2D4A,upstream_gene_variant,,ENST00000519207,NM_001174159.1;SH2D4A,upstream_gene_variant,,ENST00000518040,;"	"A"	"ENSG00000104611"	"ENST00000265807"	"Transcript"	"upstream_gene_variant"	"-/3352"	"-/1365"	"-/454"	""	""	""	"1"	"3491"	1	"SH2D4A"	"HGNC"	26102	"protein_coding"	"YES"	"CCDS6009.1"	"ENSP00000265807"	"Q9H788"	""	"UPI000007372B"	"NM_022071.3,NM_001174160.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c428caae-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316326530612245	"WGS"	FALSE
"12202"	"AC100802.3"	0	"mskcc.org"	"GRCh37"	"8"	19940875	19940875	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.218+3842C>A"	""	""	"ENST00000519197"	""	97	"66"	31	49	"49"	0	"AC100802.3,intron_variant,,ENST00000519197,;"	"A"	"ENSG00000253775"	"ENST00000519197"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1026"	""	""	""	""	""	"1"	NA	1	"AC100802.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c42902e4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319587628865979	"WGS"	FALSE
"12203"	"PHYHIP"	9796	"mskcc.org"	"GRCh37"	"8"	22081992	22081992	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.341-136C>A"	""	""	"ENST00000454243"	""	81	"54"	27	49	"49"	0	"PHYHIP,intron_variant,,ENST00000454243,NM_014759.3;PHYHIP,intron_variant,,ENST00000321613,NM_001099335.1;PHYHIP,intron_variant,,ENST00000523252,;PHYHIP,intron_variant,,ENST00000522869,;PHYHIP,intron_variant,,ENST00000518274,;"	"T"	"ENSG00000168490"	"ENST00000454243"	"Transcript"	"intron_variant"	"-/3200"	"-/993"	"-/330"	""	""	""	"1"	NA	-1	"PHYHIP"	"HGNC"	16865	"protein_coding"	"YES"	"CCDS43723.1"	"ENSP00000415491"	"Q92561"	""	"UPI0000139557"	"NM_014759.3"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c429843a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"12204"	"TRIM35"	23087	"mskcc.org"	"GRCh37"	"8"	27159369	27159369	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.436-3293G>C"	""	""	"ENST00000305364"	""	77	"54"	23	70	"70"	0	"TRIM35,intron_variant,,ENST00000305364,NM_171982.3;TRIM35,intron_variant,,ENST00000521253,;TRIM35,intron_variant,,ENST00000519219,;"	"G"	"ENSG00000104228"	"ENST00000305364"	"Transcript"	"intron_variant"	"-/4229"	"-/1482"	"-/493"	""	""	""	"1"	NA	-1	"TRIM35"	"HGNC"	16285	"protein_coding"	"YES"	"CCDS6056.2"	"ENSP00000301924"	"Q9UPQ4"	""	"UPI00001649FB"	"NM_171982.3"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c42ac084-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298701298701299	"WGS"	FALSE
"12205"	"ENSR00001389155"	0	"mskcc.org"	"GRCh37"	"8"	30168690	30168690	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001389155"	""	86	"80"	6	55	"55"	0	""	"A"	""	"ENSR00001389155"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c42b8474-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"12206"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	34408147	34408147	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"44"	28	65	"65"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c42c4e68-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388888888888889	"WGS"	FALSE
"12207"	"UNC5D"	137970	"mskcc.org"	"GRCh37"	"8"	35180444	35180444	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103+87039G>C"	""	""	"ENST00000404895"	""	91	"65"	26	71	"71"	0	"UNC5D,intron_variant,,ENST00000287272,;UNC5D,intron_variant,,ENST00000416672,;UNC5D,intron_variant,,ENST00000404895,NM_080872.2;UNC5D,intron_variant,,ENST00000420357,;"	"C"	"ENSG00000156687"	"ENST00000404895"	"Transcript"	"intron_variant"	"-/3252"	"-/2862"	"-/953"	""	""	""	"1"	NA	1	"UNC5D"	"HGNC"	18634	"protein_coding"	"YES"	"CCDS6093.2"	"ENSP00000385143"	"Q6UXZ4"	""	"UPI00001D6915"	"NM_080872.2"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c42c7a8c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"12208"	"UNC5D"	137970	"mskcc.org"	"GRCh37"	"8"	35513741	35513741	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.571-27324C>A"	""	""	"ENST00000404895"	""	75	"50"	25	47	"47"	0	"UNC5D,intron_variant,,ENST00000287272,;UNC5D,intron_variant,,ENST00000453357,;UNC5D,intron_variant,,ENST00000416672,;UNC5D,intron_variant,,ENST00000404895,NM_080872.2;UNC5D,intron_variant,,ENST00000420357,;"	"A"	"ENSG00000156687"	"ENST00000404895"	"Transcript"	"intron_variant"	"-/3252"	"-/2862"	"-/953"	""	""	""	"1"	NA	1	"UNC5D"	"HGNC"	18634	"protein_coding"	"YES"	"CCDS6093.2"	"ENSP00000385143"	"Q6UXZ4"	""	"UPI00001D6915"	"NM_080872.2"	""	""	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c42c8950-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"12209"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	36272110	36272110	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"67"	29	62	"62"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c42ca4d0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302083333333333	"WGS"	FALSE
"12210"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	37834803	37834803	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"75"	7	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c42d0bc8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"12211"	"C8orf86"	389649	"mskcc.org"	"GRCh37"	"8"	38380391	38380391	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.315+5450G>A"	""	""	"ENST00000358138"	""	34	"27"	7	15	"15"	0	"C8orf86,intron_variant,,ENST00000358138,NM_207412.1;C8orf86,intron_variant,,ENST00000437935,;"	"T"	"ENSG00000196166"	"ENST00000358138"	"Transcript"	"intron_variant"	"-/2250"	"-/672"	"-/223"	""	""	""	"1"	NA	-1	"C8orf86"	"HGNC"	33774	"protein_coding"	"YES"	"CCDS6108.1"	"ENSP00000350856"	"Q6ZUL3"	""	"UPI00001C0B34"	"NM_207412.1"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c42d4796-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205882352941176	"WGS"	FALSE
"12212"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	39406202	39406202	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"78"	5	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c42d82e2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0602409638554217	"WGS"	FALSE
"12213"	"ADAM2"	2515	"mskcc.org"	"GRCh37"	"8"	39654209	39654209	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs554131517"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.571-7950C>T"	""	""	"ENST00000265708"	""	70	"64"	6	68	"68"	0	"ADAM2,intron_variant,,ENST00000265708,NM_001464.4,NM_001278114.1;ADAM2,intron_variant,,ENST00000347580,NM_001278113.1;ADAM2,intron_variant,,ENST00000379853,;ADAM2,intron_variant,,ENST00000521880,;"	"A"	"ENSG00000104755"	"ENST00000265708"	"Transcript"	"intron_variant"	"-/2672"	"-/2208"	"-/735"	""	""	"rs554131517"	"1"	NA	-1	"ADAM2"	"HGNC"	198	"protein_coding"	"YES"	"CCDS34884.1"	"ENSP00000265708"	"Q99965"	""	"UPI00001254C2"	"NM_001464.4,NM_001278114.1"	""	""	""	"7/20"	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c42d8d28-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"12214"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	50780516	50780516	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"71"	19	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c431b862-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211111111111111	"WGS"	FALSE
"12215"	"SNTG1"	54212	"mskcc.org"	"GRCh37"	"8"	50854409	50854409	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-103+29618C>A"	""	""	"ENST00000522124"	""	109	"95"	14	64	"64"	0	"SNTG1,intron_variant,,ENST00000522124,NM_018967.2,NM_001287813.1;SNTG1,intron_variant,,ENST00000518864,;SNTG1,intron_variant,,ENST00000517473,NM_001287814.1;SNTG1,intron_variant,,ENST00000523085,;SNTG1,intron_variant,,ENST00000520697,;SNTG1,intron_variant,,ENST00000521316,;"	"A"	"ENSG00000147481"	"ENST00000522124"	"Transcript"	"intron_variant"	"-/3504"	"-/1554"	"-/517"	""	""	""	"1"	NA	1	"SNTG1"	"HGNC"	13740	"protein_coding"	"YES"	"CCDS6147.1"	"ENSP00000429842"	"Q9NSN8"	"E5RIN0"	"UPI000004A0DD"	"NM_018967.2,NM_001287813.1"	""	""	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c431bd26-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128440366972477	"WGS"	FALSE
"12216"	"SNTG1"	54212	"mskcc.org"	"GRCh37"	"8"	50854410	50854410	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-103+29619C>A"	""	""	"ENST00000522124"	""	106	"93"	13	64	"64"	0	"SNTG1,intron_variant,,ENST00000522124,NM_018967.2,NM_001287813.1;SNTG1,intron_variant,,ENST00000518864,;SNTG1,intron_variant,,ENST00000517473,NM_001287814.1;SNTG1,intron_variant,,ENST00000523085,;SNTG1,intron_variant,,ENST00000520697,;SNTG1,intron_variant,,ENST00000521316,;"	"A"	"ENSG00000147481"	"ENST00000522124"	"Transcript"	"intron_variant"	"-/3504"	"-/1554"	"-/517"	""	""	""	"1"	NA	1	"SNTG1"	"HGNC"	13740	"protein_coding"	"YES"	"CCDS6147.1"	"ENSP00000429842"	"Q9NSN8"	"E5RIN0"	"UPI000004A0DD"	"NM_018967.2,NM_001287813.1"	""	""	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c431be02-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122641509433962	"WGS"	FALSE
"12217"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	55264598	55264598	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"56"	27	67	"67"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c4327bda-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325301204819277	"WGS"	FALSE
"12218"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	55302828	55302828	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"62"	21	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c4327cb6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253012048192771	"WGS"	FALSE
"12219"	"XKR4"	114786	"mskcc.org"	"GRCh37"	"8"	56030223	56030223	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.806+14369C>T"	""	""	"ENST00000327381"	""	98	"59"	39	57	"57"	0	"XKR4,intron_variant,,ENST00000327381,NM_052898.1;"	"T"	"ENSG00000206579"	"ENST00000327381"	"Transcript"	"intron_variant"	"-/19880"	"-/1953"	"-/650"	""	""	""	"1"	NA	1	"XKR4"	"HGNC"	29394	"protein_coding"	"YES"	"CCDS34893.1"	"ENSP00000328326"	"Q5GH76"	""	"UPI000016098C"	"NM_052898.1"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c43298a4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.397959183673469	"WGS"	FALSE
"12220"	"RP11-246K15.1"	0	"mskcc.org"	"GRCh37"	"8"	58498720	58498720	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.78-5319C>T"	""	""	"ENST00000520881"	""	71	"57"	14	45	"45"	0	"RP11-246K15.1,intron_variant,,ENST00000520881,;"	"T"	"ENSG00000253821"	"ENST00000520881"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/157"	""	""	""	""	""	"1"	NA	1	"RP11-246K15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c4332d8c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197183098591549	"WGS"	FALSE
"12221"	"ENSR00001441602"	0	"mskcc.org"	"GRCh37"	"8"	61893607	61893607	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001441602"	""	72	"51"	21	64	"64"	0	""	"G"	""	"ENSR00001441602"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c433aee2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WGS"	FALSE
"12222"	"CLVS1"	157807	"mskcc.org"	"GRCh37"	"8"	62206815	62206815	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-152+1802T>A"	""	""	"ENST00000519846"	""	85	"77"	8	50	"50"	0	"CLVS1,intron_variant,,ENST00000519846,;CLVS1,intron_variant,,ENST00000325897,NM_173519.2;CLVS1,intron_variant,,ENST00000518592,;CLVS1,intron_variant,,ENST00000522621,;RP11-787D18.2,upstream_gene_variant,,ENST00000521378,;CLVS1,intron_variant,,ENST00000521189,;CLVS1,intron_variant,,ENST00000523868,;"	"A"	"ENSG00000177182"	"ENST00000519846"	"Transcript"	"intron_variant"	"-/3622"	"-/1065"	"-/354"	""	""	""	"1"	NA	1	"CLVS1"	"HGNC"	23139	"protein_coding"	"YES"	"CCDS6176.1"	"ENSP00000428402"	"Q8IUQ0"	"G3V122,E5RK22,E5RI68"	"UPI000007472D"	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c433be5a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"12223"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	62877029	62877029	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"45"	14	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"c433d980-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23728813559322	"WGS"	FALSE
"12224"	"RP11-600K15.1"	100505718	"mskcc.org"	"GRCh37"	"8"	69884082	69884082	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.416-17685G>A"	""	""	"ENST00000518540"	""	90	"63"	27	66	"66"	0	"RP11-600K15.1,intron_variant,,ENST00000518540,;RP11-600K15.1,intron_variant,,ENST00000519062,;RP11-600K15.1,intron_variant,,ENST00000524286,;"	"T"	"ENSG00000253658"	"ENST00000518540"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2367"	""	""	""	""	""	"1"	NA	-1	"RP11-600K15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c43533a2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"12225"	"XKR9"	389668	"mskcc.org"	"GRCh37"	"8"	71601804	71601804	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.272+8239G>A"	""	""	"ENST00000408926"	""	108	"85"	23	65	"65"	0	"XKR9,intron_variant,,ENST00000408926,NM_001011720.1,NM_001287260.1,NM_001287259.1;XKR9,intron_variant,,ENST00000520030,;XKR9,intron_variant,,ENST00000520273,;XKR9,intron_variant,,ENST00000520092,;"	"A"	"ENSG00000221947"	"ENST00000408926"	"Transcript"	"intron_variant"	"-/3174"	"-/1122"	"-/373"	""	""	""	"1"	NA	1	"XKR9"	"HGNC"	20937	"protein_coding"	"YES"	"CCDS34905.1"	"ENSP00000386141"	"Q5GH70"	"E5RFF6"	"UPI00004C7A9F"	"NM_001011720.1,NM_001287260.1,NM_001287259.1"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c4359d6a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212962962962963	"WGS"	FALSE
"12226"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	71808772	71808772	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"56"	20	51	"51"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c435b034-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"12227"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	71823793	71823793	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"88"	7	80	"80"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c435b110-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"12228"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	71973550	71973550	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"53"	21	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c435b7e6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283783783783784	"WGS"	FALSE
"12229"	"RP11-6I2.3"	0	"mskcc.org"	"GRCh37"	"8"	74997487	74997487	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.304-14167C>A"	""	""	"ENST00000519323"	""	83	"66"	17	65	"65"	0	"RP11-6I2.3,intron_variant,,ENST00000519323,;"	"A"	"ENSG00000254288"	"ENST00000519323"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/738"	""	""	""	""	""	"1"	NA	1	"RP11-6I2.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c4363ce8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204819277108434	"WGS"	FALSE
"12230"	"ZFHX4"	79776	"mskcc.org"	"GRCh37"	"8"	77677690	77677690	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3094-12754G>T"	""	""	"ENST00000521891"	""	99	"72"	27	59	"59"	0	"ZFHX4,intron_variant,,ENST00000521891,NM_024721.4;ZFHX4,intron_variant,,ENST00000455469,;ZFHX4,intron_variant,,ENST00000518282,;ZFHX4,intron_variant,,ENST00000050961,;ZFHX4,intron_variant,,ENST00000517683,;"	"T"	"ENSG00000091656"	"ENST00000521891"	"Transcript"	"intron_variant"	"-/14019"	"-/10851"	"-/3616"	""	""	""	"1"	NA	1	"ZFHX4"	"HGNC"	30939	"protein_coding"	"YES"	"CCDS47878.2"	"ENSP00000430497"	""	"Q9H7F3,Q86WW5,Q6DK57,G3V138,E5RI93,E5RHS1,E5RGK3,E5RG79"	"UPI0000424CC7"	"NM_024721.4"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c436b768-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"12231"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	79948782	79948782	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"85"	7	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c436f82c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"12232"	"RP11-26J3.1"	101927040	"mskcc.org"	"GRCh37"	"8"	80751009	80751009	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.303-18259C>G"	""	""	"ENST00000502766"	""	112	"79"	33	63	"63"	0	"RP11-26J3.1,intron_variant,,ENST00000502766,;RP11-26J3.1,intron_variant,,ENST00000517365,;"	"C"	"ENSG00000249328"	"ENST00000502766"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2126"	""	""	""	""	""	"1"	NA	-1	"RP11-26J3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c4371ec4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294642857142857	"WGS"	FALSE
"12233"	"SLC25A51P3"	0	"mskcc.org"	"GRCh37"	"8"	81508817	81508817	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000521814"	""	109	"82"	27	47	"47"	0	"SLC25A51P3,upstream_gene_variant,,ENST00000521814,;"	"T"	"ENSG00000254181"	"ENST00000521814"	"Transcript"	"upstream_gene_variant"	"-/889"	""	""	""	""	""	"1"	"879"	-1	"SLC25A51P3"	"HGNC"	31051	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"c43752e0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247706422018349	"WGS"	FALSE
"12234"	"SNX16"	64089	"mskcc.org"	"GRCh37"	"8"	82750109	82750109	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.375+1738G>A"	""	""	"ENST00000396330"	""	98	"65"	33	58	"58"	0	"SNX16,intron_variant,,ENST00000396330,NM_022133.3;SNX16,intron_variant,,ENST00000353788,NM_152837.2;SNX16,intron_variant,,ENST00000345957,NM_152836.2;SNX16,intron_variant,,ENST00000521810,;SNX16,intron_variant,,ENST00000523757,;SNX16,intron_variant,,ENST00000520618,;SNX16,downstream_gene_variant,,ENST00000519817,;SNX16,downstream_gene_variant,,ENST00000519119,;SNX16,downstream_gene_variant,,ENST00000518183,;SNX16,downstream_gene_variant,,ENST00000521773,;"	"T"	"ENSG00000104497"	"ENST00000396330"	"Transcript"	"intron_variant"	"-/3452"	"-/1035"	"-/344"	""	""	""	"1"	NA	-1	"SNX16"	"HGNC"	14980	"protein_coding"	"YES"	"CCDS6234.1"	"ENSP00000379621"	"P57768"	"E5RJ81,E5RJ65,E5RHF1,E5RGQ6"	"UPI000004D24C"	"NM_022133.3"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c4376d02-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336734693877551	"WGS"	FALSE
"12235"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	83179901	83179901	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"85"	8	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c4377ffe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0860215053763441	"WGS"	FALSE
"12236"	"RP11-731N10.1"	0	"mskcc.org"	"GRCh37"	"8"	83866735	83866735	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.57+4140T>C"	""	""	"ENST00000522123"	""	86	"54"	32	68	"68"	0	"RP11-731N10.1,intron_variant,,ENST00000522123,;CTD-2272D18.1,intron_variant,,ENST00000524359,;"	"G"	"ENSG00000253836"	"ENST00000522123"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/814"	""	""	""	""	""	"1"	NA	-1	"RP11-731N10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c437975a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.372093023255814	"WGS"	FALSE
"12237"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	84403896	84403896	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"54"	30	68	"67"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"c437a9de-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WGS"	FALSE
"12238"	"AF121898.3"	0	"mskcc.org"	"GRCh37"	"8"	88577980	88577980	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000517711"	""	76	"58"	18	63	"63"	0	"CNBD1,intron_variant,,ENST00000521593,;AF121898.3,intron_variant,,ENST00000440763,;AF121898.3,downstream_gene_variant,,ENST00000517711,;AF121898.3,downstream_gene_variant,,ENST00000518494,;"	"A"	"ENSG00000253500"	"ENST00000517711"	"Transcript"	"downstream_gene_variant"	"-/1044"	""	""	""	""	""	"1"	"418"	-1	"AF121898.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c43940f0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236842105263158	"WGS"	FALSE
"12239"	"MMP16"	4325	"mskcc.org"	"GRCh37"	"8"	89307971	89307971	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.132+31333T>A"	""	""	"ENST00000286614"	""	80	"62"	18	49	"49"	0	"MMP16,intron_variant,,ENST00000286614,NM_005941.4;MMP16,intron_variant,,ENST00000522726,;MMP16,intron_variant,,ENST00000544227,;MMP16,intron_variant,,ENST00000520568,;"	"T"	"ENSG00000156103"	"ENST00000286614"	"Transcript"	"intron_variant"	"-/11558"	"-/1824"	"-/607"	""	""	""	"1"	NA	-1	"MMP16"	"HGNC"	7162	"protein_coding"	"YES"	"CCDS6246.1"	"ENSP00000286614"	"P51512"	""	"UPI000003DC73"	"NM_005941.4"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c43953f6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225	"WGS"	FALSE
"12240"	"MMP16"	4325	"mskcc.org"	"GRCh37"	"8"	89313945	89313945	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.132+25359G>T"	""	""	"ENST00000286614"	""	90	"61"	29	56	"56"	0	"MMP16,intron_variant,,ENST00000286614,NM_005941.4;MMP16,intron_variant,,ENST00000522726,;MMP16,intron_variant,,ENST00000544227,;MMP16,intron_variant,,ENST00000520568,;"	"A"	"ENSG00000156103"	"ENST00000286614"	"Transcript"	"intron_variant"	"-/11558"	"-/1824"	"-/607"	""	""	""	"1"	NA	-1	"MMP16"	"HGNC"	7162	"protein_coding"	"YES"	"CCDS6246.1"	"ENSP00000286614"	"P51512"	""	"UPI000003DC73"	"NM_005941.4"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c43954d2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322222222222222	"WGS"	FALSE
"12241"	"RP11-586K2.1"	0	"mskcc.org"	"GRCh37"	"8"	89611319	89611319	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.310+56280C>G"	""	""	"ENST00000521433"	""	87	"82"	5	48	"48"	0	"RP11-586K2.1,intron_variant,,ENST00000521433,;RP11-586K2.1,intron_variant,,ENST00000518631,;RP11-586K2.1,intron_variant,,ENST00000520312,;"	"G"	"ENSG00000253553"	"ENST00000521433"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/579"	""	""	""	""	""	"1"	NA	1	"RP11-586K2.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c43964e0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0574712643678161	"WGS"	FALSE
"12242"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	98419497	98419497	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"64"	26	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c43b24a6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288888888888889	"WGS"	FALSE
"12243"	"POP1"	10940	"mskcc.org"	"GRCh37"	"8"	99140998	99140998	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.486+230A>T"	""	""	"ENST00000401707"	""	78	"54"	24	49	"49"	0	"POP1,intron_variant,,ENST00000401707,NM_001145860.1,NM_001145861.1;POP1,intron_variant,,ENST00000349693,NM_015029.2;POP1,intron_variant,,ENST00000522319,;"	"T"	"ENSG00000104356"	"ENST00000401707"	"Transcript"	"intron_variant"	"-/4719"	"-/3075"	"-/1024"	""	""	""	"1"	NA	1	"POP1"	"HGNC"	30129	"protein_coding"	"YES"	"CCDS6277.1"	"ENSP00000385787"	"Q99575"	"E5RK39"	"UPI0000131F33"	"NM_001145860.1,NM_001145861.1"	""	""	""	"4/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"c43b63a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"12244"	"NIPAL2"	79815	"mskcc.org"	"GRCh37"	"8"	99221275	99221275	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.655+3358T>G"	""	""	"ENST00000341166"	""	86	"60"	26	47	"47"	0	"NIPAL2,intron_variant,,ENST00000341166,NM_024759.1;NIPAL2,intron_variant,,ENST00000430223,;NIPAL2,intron_variant,,ENST00000520545,;NIPAL2,upstream_gene_variant,,ENST00000521820,;"	"C"	"ENSG00000104361"	"ENST00000341166"	"Transcript"	"intron_variant"	"-/4581"	"-/1107"	"-/368"	""	""	""	"1"	NA	-1	"NIPAL2"	"HGNC"	25854	"protein_coding"	"YES"	"CCDS6278.1"	"ENSP00000339256"	"Q9H841"	""	"UPI000007089C"	"NM_024759.1"	""	""	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c43b6b6e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302325581395349	"WGS"	FALSE
"12245"	"STK3"	6788	"mskcc.org"	"GRCh37"	"8"	99566584	99566584	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1033-6195A>G"	""	""	"ENST00000523601"	""	89	"64"	25	57	"57"	0	"STK3,intron_variant,,ENST00000523601,NM_001256312.1;STK3,intron_variant,,ENST00000419617,NM_006281.3;STK3,intron_variant,,ENST00000518165,;STK3,intron_variant,,ENST00000518582,;STK3,intron_variant,,ENST00000523159,;STK3,intron_variant,,ENST00000518627,;"	"C"	"ENSG00000104375"	"ENST00000523601"	"Transcript"	"intron_variant"	"-/3107"	"-/1560"	"-/519"	""	""	""	"1"	NA	-1	"STK3"	"HGNC"	11406	"protein_coding"	"YES"	"CCDS59108.1"	"ENSP00000429744"	""	"B3KYA7"	"UPI00004FB517"	"NM_001256312.1"	""	""	""	"10/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c43b7c62-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280898876404494	"WGS"	FALSE
"12246"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	103455626	103455626	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs557478234"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"89"	8	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs557478234"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c43c5754-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0824742268041237	"WGS"	FALSE
"12247"	"PKHD1L1"	93035	"mskcc.org"	"GRCh37"	"8"	110418148	110418148	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1670-416T>A"	""	""	"ENST00000378402"	""	103	"80"	23	77	"77"	0	"PKHD1L1,intron_variant,,ENST00000378402,NM_177531.4;"	"A"	"ENSG00000205038"	"ENST00000378402"	"Transcript"	"intron_variant"	"-/13076"	"-/12732"	"-/4243"	""	""	""	"1"	NA	1	"PKHD1L1"	"HGNC"	20313	"protein_coding"	"YES"	"CCDS47911.1"	"ENSP00000367655"	"Q86WI1"	""	"UPI0000E5B020"	"NM_177531.4"	""	""	""	"16/77"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c43d60a4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223300970873786	"WGS"	FALSE
"12248"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	111223326	111223326	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs758748276"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"96"	7	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs758748276"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c43d75f8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0679611650485437	"WGS"	FALSE
"12249"	"RP11-211F2.1"	0	"mskcc.org"	"GRCh37"	"8"	111359938	111359938	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.63+1836A>C"	""	""	"ENST00000522896"	""	92	"63"	29	62	"62"	0	"RP11-211F2.1,intron_variant,,ENST00000522896,;"	"G"	"ENSG00000253956"	"ENST00000522896"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/773"	""	""	""	""	""	"1"	NA	-1	"RP11-211F2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c43d7a44-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315217391304348	"WGS"	FALSE
"12250"	"CSMD3"	114788	"mskcc.org"	"GRCh37"	"8"	113665656	113665656	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3004+2727C>T"	""	""	"ENST00000297405"	""	76	"50"	26	50	"50"	0	"CSMD3,intron_variant,,ENST00000297405,NM_198123.1;CSMD3,intron_variant,,ENST00000343508,NM_198124.1;CSMD3,intron_variant,,ENST00000352409,;CSMD3,intron_variant,,ENST00000455883,NM_052900.2;CSMD3,intron_variant,,ENST00000339701,;"	"A"	"ENSG00000164796"	"ENST00000297405"	"Transcript"	"intron_variant"	"-/13212"	"-/11124"	"-/3707"	""	""	""	"1"	NA	-1	"CSMD3"	"HGNC"	19291	"protein_coding"	"YES"	"CCDS6315.1"	"ENSP00000297405"	"Q7Z407"	""	"UPI00001E0584"	"NM_198123.1"	""	""	""	"18/70"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c43dba2c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342105263157895	"WGS"	FALSE
"12251"	"CSMD3"	114788	"mskcc.org"	"GRCh37"	"8"	114000040	114000040	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1031-11663C>T"	""	""	"ENST00000297405"	""	93	"64"	29	70	"70"	0	"CSMD3,intron_variant,,ENST00000297405,NM_198123.1;CSMD3,intron_variant,,ENST00000343508,NM_198124.1;CSMD3,intron_variant,,ENST00000352409,;CSMD3,intron_variant,,ENST00000455883,NM_052900.2;"	"A"	"ENSG00000164796"	"ENST00000297405"	"Transcript"	"intron_variant"	"-/13212"	"-/11124"	"-/3707"	""	""	""	"1"	NA	-1	"CSMD3"	"HGNC"	19291	"protein_coding"	"YES"	"CCDS6315.1"	"ENSP00000297405"	"Q7Z407"	""	"UPI00001E0584"	"NM_198123.1"	""	""	""	"6/70"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c43dc1e8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311827956989247	"WGS"	FALSE
"12252"	"CSMD3"	114788	"mskcc.org"	"GRCh37"	"8"	114051074	114051074	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.918-19666T>A"	""	""	"ENST00000297405"	""	78	"58"	20	45	"45"	0	"CSMD3,intron_variant,,ENST00000297405,NM_198123.1;CSMD3,intron_variant,,ENST00000343508,NM_198124.1;CSMD3,intron_variant,,ENST00000352409,;CSMD3,intron_variant,,ENST00000455883,NM_052900.2;CSMD3,intron_variant,,ENST00000497026,;"	"T"	"ENSG00000164796"	"ENST00000297405"	"Transcript"	"intron_variant"	"-/13212"	"-/11124"	"-/3707"	""	""	""	"1"	NA	-1	"CSMD3"	"HGNC"	19291	"protein_coding"	"YES"	"CCDS6315.1"	"ENSP00000297405"	"Q7Z407"	""	"UPI00001E0584"	"NM_198123.1"	""	""	""	"5/70"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c43dc486-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256410256410256	"WGS"	FALSE
"12253"	"CSMD3"	114788	"mskcc.org"	"GRCh37"	"8"	114140237	114140237	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.710-29045G>C"	""	""	"ENST00000297405"	""	93	"73"	20	65	"65"	0	"CSMD3,intron_variant,,ENST00000297405,NM_198123.1;CSMD3,intron_variant,,ENST00000343508,NM_198124.1;CSMD3,intron_variant,,ENST00000352409,;CSMD3,intron_variant,,ENST00000455883,NM_052900.2;CSMD3,intron_variant,,ENST00000519485,;CSMD3,intron_variant,,ENST00000497026,;CSMD3,intron_variant,,ENST00000462254,;"	"G"	"ENSG00000164796"	"ENST00000297405"	"Transcript"	"intron_variant"	"-/13212"	"-/11124"	"-/3707"	""	""	""	"1"	NA	-1	"CSMD3"	"HGNC"	19291	"protein_coding"	"YES"	"CCDS6315.1"	"ENSP00000297405"	"Q7Z407"	""	"UPI00001E0584"	"NM_198123.1"	""	""	""	"4/70"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c43dcae4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21505376344086	"WGS"	FALSE
"12254"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	116008479	116008479	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"69"	19	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c43e0b6c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215909090909091	"WGS"	FALSE
"12255"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	117574045	117574045	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"62"	26	69	"69"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c43e52f2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295454545454545	"WGS"	FALSE
"12256"	"RPL35AP19"	0	"mskcc.org"	"GRCh37"	"8"	122396214	122396214	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000469425"	""	75	"55"	20	56	"56"	0	"RPL35AP19,upstream_gene_variant,,ENST00000469425,;"	"T"	"ENSG00000239872"	"ENST00000469425"	"Transcript"	"upstream_gene_variant"	"-/329"	""	""	""	""	""	"1"	"3509"	-1	"RPL35AP19"	"HGNC"	36631	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c43f0b52-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"12257"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	126829238	126829238	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"63"	20	66	"66"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c4400796-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240963855421687	"WGS"	FALSE
"12258"	"CASC8"	727677	"mskcc.org"	"GRCh37"	"8"	128329354	128329354	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1177-27049A>G"	""	""	"ENST00000502082"	""	33	"29"	4	10	"10"	0	"CASC8,intron_variant,,ENST00000502082,;CASC8,intron_variant,,ENST00000501396,;CASC8,intron_variant,,ENST00000523825,;"	"C"	"ENSG00000246228"	"ENST00000502082"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1420"	""	""	""	""	""	"1"	NA	-1	"CASC8"	"HGNC"	45129	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c4405da4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"12259"	"ASAP1"	50807	"mskcc.org"	"GRCh37"	"8"	131176995	131176995	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.909+2787A>T"	""	""	"ENST00000357668"	""	121	"80"	41	49	"49"	0	"ASAP1,intron_variant,,ENST00000357668,;ASAP1,intron_variant,,ENST00000518721,NM_001247996.1,NM_018482.3;ASAP1,intron_variant,,ENST00000524124,;ASAP1,intron_variant,,ENST00000524367,;SNORA12,downstream_gene_variant,,ENST00000391040,;ASAP1,intron_variant,,ENST00000521075,;ASAP1,upstream_gene_variant,,ENST00000524018,;"	"A"	"ENSG00000153317"	"ENST00000357668"	"Transcript"	"intron_variant"	"-/6042"	"-/3390"	"-/1129"	""	""	""	"1"	NA	-1	"ASAP1"	"HGNC"	2720	"protein_coding"	"YES"	"CCDS6362.1"	"ENSP00000350297"	"Q9ULH1"	"E5RFD9"	"UPI0000351D6E"	""	""	""	""	"10/28"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"c440ee72-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.338842975206612	"WGS"	FALSE
"12260"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	132520613	132520613	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"64"	15	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"c441bb54-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189873417721519	"WGS"	FALSE
"12261"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	132544615	132544615	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"58"	24	64	"64"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c441bd0c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292682926829268	"WGS"	FALSE
"12262"	"EFR3A"	23167	"mskcc.org"	"GRCh37"	"8"	132950408	132950408	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.11-2338T>A"	""	""	"ENST00000254624"	""	91	"67"	24	62	"62"	0	"EFR3A,intron_variant,,ENST00000254624,NM_015137.4;EFR3A,intron_variant,,ENST00000334503,;EFR3A,intron_variant,,ENST00000522709,;EFR3A,upstream_gene_variant,,ENST00000519656,;EFR3A,upstream_gene_variant,,ENST00000520362,;"	"A"	"ENSG00000132294"	"ENST00000254624"	"Transcript"	"intron_variant"	"-/5438"	"-/2466"	"-/821"	""	""	""	"1"	NA	1	"EFR3A"	"HGNC"	28970	"protein_coding"	"YES"	"CCDS34942.2"	"ENSP00000254624"	"Q14156"	"E5RJS1,B4DZ89"	"UPI00001C1E8F"	"NM_015137.4"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c441c9a0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263736263736264	"WGS"	FALSE
"12263"	"KCNQ3"	3786	"mskcc.org"	"GRCh37"	"8"	133410755	133410755	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.386+81639A>G"	""	""	"ENST00000388996"	""	104	"74"	30	61	"61"	0	"KCNQ3,intron_variant,,ENST00000388996,NM_004519.3;KCNQ3,intron_variant,,ENST00000519445,;KCNQ3,intron_variant,,ENST00000521134,NM_001204824.1;KCNQ3,intron_variant,,ENST00000519589,;"	"C"	"ENSG00000184156"	"ENST00000388996"	"Transcript"	"intron_variant"	"-/11441"	"-/2619"	"-/872"	""	""	""	"1"	NA	-1	"KCNQ3"	"HGNC"	6297	"protein_coding"	"YES"	"CCDS34943.1"	"ENSP00000373648"	"O43525"	""	"UPI00001279F0"	"NM_004519.3"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"c441dd96-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288461538461538	"WGS"	FALSE
"12264"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	135121349	135121349	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"66"	28	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c44254e2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297872340425532	"WGS"	FALSE
"12265"	"RP11-30J20.1"	0	"mskcc.org"	"GRCh37"	"8"	137572525	137572525	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.291+23223C>A"	""	""	"ENST00000524346"	""	82	"59"	23	53	"53"	0	"RP11-30J20.1,intron_variant,,ENST00000524346,;RP11-30J20.1,intron_variant,,ENST00000520060,;RP11-30J20.1,intron_variant,,ENST00000517345,;"	"A"	"ENSG00000254101"	"ENST00000524346"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/706"	""	""	""	""	""	"1"	NA	1	"RP11-30J20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c442e984-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280487804878049	"WGS"	FALSE
"12266"	"RP11-30J20.1"	0	"mskcc.org"	"GRCh37"	"8"	137855745	137855745	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.443+46132G>A"	""	""	"ENST00000524346"	""	88	"69"	19	55	"55"	0	"RP11-30J20.1,intron_variant,,ENST00000524346,;RP11-30J20.1,intron_variant,,ENST00000521097,;RP11-30J20.1,intron_variant,,ENST00000521034,;"	"A"	"ENSG00000254101"	"ENST00000524346"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/706"	""	""	""	""	""	"1"	NA	1	"RP11-30J20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c442f0a0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215909090909091	"WGS"	FALSE
"12267"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	138431118	138431118	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"61"	18	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c4430e64-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227848101265823	"WGS"	FALSE
"12268"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	138431119	138431119	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"61"	17	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"c4430f40-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217948717948718	"WGS"	FALSE
"12269"	"COL22A1"	169044	"mskcc.org"	"GRCh37"	"8"	139795323	139795323	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1597-2100C>A"	""	""	"ENST00000303045"	""	77	"70"	7	51	"51"	0	"COL22A1,intron_variant,,ENST00000303045,NM_152888.1;COL22A1,intron_variant,,ENST00000435777,;COL22A1,upstream_gene_variant,,ENST00000522546,;"	"T"	"ENSG00000169436"	"ENST00000303045"	"Transcript"	"intron_variant"	"-/6346"	"-/4881"	"-/1626"	""	""	""	"1"	NA	-1	"COL22A1"	"HGNC"	22989	"protein_coding"	"YES"	"CCDS6376.1"	"ENSP00000303153"	"Q8NFW1"	""	"UPI00001C1EA1"	"NM_152888.1"	""	""	""	"12/64"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c44388ee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"12270"	"TRAPPC9"	83696	"mskcc.org"	"GRCh37"	"8"	141359319	141359319	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1789+10830C>G"	""	""	"ENST00000389328"	""	19	"16"	3	10	"10"	0	"TRAPPC9,intron_variant,,ENST00000389328,NM_031466.5;TRAPPC9,intron_variant,,ENST00000438773,NM_001160372.1;TRAPPC9,intron_variant,,ENST00000389327,;TRAPPC9,intron_variant,,ENST00000520857,;"	"C"	"ENSG00000167632"	"ENST00000389328"	"Transcript"	"intron_variant"	"-/4474"	"-/3741"	"-/1246"	""	""	""	"1"	NA	-1	"TRAPPC9"	"HGNC"	30832	"protein_coding"	"YES"	"CCDS34946.1"	"ENSP00000373979"	"Q96Q05"	""	"UPI0000DBEF2B"	"NM_031466.5"	""	""	""	"9/22"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"c443f770-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"12271"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	142970275	142970275	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"68"	32	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c444dab4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32	"WGS"	FALSE
"12272"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	143100314	143100314	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs181401852"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"64"	26	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs181401852"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c444f922-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288888888888889	"WGS"	FALSE
"12273"	"MROH1"	727957	"mskcc.org"	"GRCh37"	"8"	145231290	145231290	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.169-3068T>A"	""	""	"ENST00000528919"	""	83	"75"	8	37	"37"	0	"MROH1,intron_variant,,ENST00000528919,NM_032450.2;MROH1,intron_variant,,ENST00000326134,;MROH1,intron_variant,,ENST00000534366,NM_001288814.1;MROH1,intron_variant,,ENST00000398656,;MROH1,intron_variant,,ENST00000423230,NM_001099280.1,NM_001099281.1;MROH1,intron_variant,,ENST00000527552,;MROH1,intron_variant,,ENST00000532255,;MROH1,intron_variant,,ENST00000525287,;MROH1,upstream_gene_variant,,ENST00000534508,;"	"A"	"ENSG00000179832"	"ENST00000528919"	"Transcript"	"intron_variant"	"-/5234"	"-/4926"	"-/1641"	""	""	""	"1"	NA	1	"MROH1"	"HGNC"	26958	"protein_coding"	"YES"	"CCDS47938.1"	"ENSP00000435565"	"Q8NDA8"	""	"UPI0001AE6FA6"	"NM_032450.2"	""	""	""	"3/42"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c446ffc4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0963855421686747	"WGS"	FALSE
"12274"	"FOXH1"	8928	"mskcc.org"	"GRCh37"	"8"	145706519	145706519	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000377317"	""	83	"76"	7	38	"38"	0	"FOXH1,upstream_gene_variant,,ENST00000377317,NM_003923.2;PPP1R16A,intron_variant,,ENST00000529283,;PPP1R16A,intron_variant,,ENST00000533088,;PPP1R16A,intron_variant,,ENST00000526183,;PPP1R16A,downstream_gene_variant,,ENST00000526643,;"	"T"	"ENSG00000160973"	"ENST00000377317"	"Transcript"	"upstream_gene_variant"	"-/2503"	"-/1098"	"-/365"	""	""	""	"1"	"4801"	-1	"FOXH1"	"HGNC"	3814	"protein_coding"	"YES"	"CCDS6428.1"	"ENSP00000366534"	"O75593"	""	"UPI0000053417"	"NM_003923.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"c4475168-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"12275"	"GLDC"	2731	"mskcc.org"	"GRCh37"	"9"	6626175	6626175	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.335-5856T>G"	""	""	"ENST00000321612"	""	95	"88"	7	41	"41"	0	"GLDC,intron_variant,,ENST00000321612,NM_000170.2;"	"C"	"ENSG00000178445"	"ENST00000321612"	"Transcript"	"intron_variant"	"-/3767"	"-/3063"	"-/1020"	""	""	""	"1"	NA	-1	"GLDC"	"HGNC"	4313	"protein_coding"	"YES"	"CCDS34987.1"	"ENSP00000370737"	"P23378"	""	"UPI0000684276"	"NM_000170.2"	""	""	""	"2/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAA"	"c44983f2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"12276"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	7564971	7564971	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"84"	8	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c449c948-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"12277"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	8166851	8166851	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"72"	33	68	"68"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"c449d8ca-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314285714285714	"WGS"	FALSE
"12278"	"PTPRD"	5789	"mskcc.org"	"GRCh37"	"9"	9001031	9001031	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-104+17666T>C"	""	""	"ENST00000381196"	""	77	"47"	30	55	"55"	0	"PTPRD,intron_variant,,ENST00000381196,NM_002839.3;PTPRD,intron_variant,,ENST00000463477,;"	"G"	"ENSG00000153707"	"ENST00000381196"	"Transcript"	"intron_variant"	"-/9911"	"-/5739"	"-/1912"	""	""	""	"1"	NA	-1	"PTPRD"	"HGNC"	9668	"protein_coding"	"YES"	"CCDS43786.1"	"ENSP00000370593"	"P23468"	"C9J6E4,B4DK48"	"UPI0000132990"	"NM_002839.3"	""	""	""	"8/42"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c449f60c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.38961038961039	"WGS"	FALSE
"12279"	"PTPRD"	5789	"mskcc.org"	"GRCh37"	"9"	9613215	9613215	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-286-38434A>T"	""	""	"ENST00000381196"	""	90	"85"	5	60	"60"	0	"PTPRD,intron_variant,,ENST00000381196,NM_002839.3;PTPRD,intron_variant,,ENST00000463477,;"	"A"	"ENSG00000153707"	"ENST00000381196"	"Transcript"	"intron_variant"	"-/9911"	"-/5739"	"-/1912"	""	""	""	"1"	NA	-1	"PTPRD"	"HGNC"	9668	"protein_coding"	"YES"	"CCDS43786.1"	"ENSP00000370593"	"P23468"	"C9J6E4,B4DK48"	"UPI0000132990"	"NM_002839.3"	""	""	""	"4/42"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c44a0bec-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"12280"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	10966598	10966598	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"94"	18	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c44a3edc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.160714285714286	"WGS"	FALSE
"12281"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	11618456	11618456	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"67"	27	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c44a5700-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287234042553192	"WGS"	FALSE
"12282"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	11854096	11854096	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"69"	16	71	"71"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c44a5fa2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188235294117647	"WGS"	FALSE
"12283"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	12349866	12349866	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"54"	19	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c44a8572-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26027397260274	"WGS"	FALSE
"12284"	"PSIP1"	11168	"mskcc.org"	"GRCh37"	"9"	15514874	15514874	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"rs561947999"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000380733"	""	85	"79"	6	55	"55"	0	"PSIP1,upstream_gene_variant,,ENST00000380733,;PSIP1,upstream_gene_variant,,ENST00000380738,NM_001128217.1,NM_033222.3;PSIP1,upstream_gene_variant,,ENST00000380715,;PSIP1,upstream_gene_variant,,ENST00000380716,;PSIP1,upstream_gene_variant,,ENST00000397519,NM_021144.3;PSIP1,upstream_gene_variant,,ENST00000484265,;PSIP1,upstream_gene_variant,,ENST00000488797,;PSIP1,upstream_gene_variant,,ENST00000463712,;PSIP1,upstream_gene_variant,,ENST00000487363,;"	"A"	"ENSG00000164985"	"ENST00000380733"	"Transcript"	"upstream_gene_variant"	"-/3391"	"-/1593"	"-/530"	""	""	"rs561947999"	"1"	"3857"	-1	"PSIP1"	"HGNC"	9527	"protein_coding"	"YES"	"CCDS6479.1"	"ENSP00000370109"	"O75475"	"Q8N4N4"	"UPI0000073FC4"	""	""	""	""	""	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c44b2270-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0705882352941176	"WGS"	TRUE
"12285"	"CCDC171"	203238	"mskcc.org"	"GRCh37"	"9"	15887593	15887593	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3600+12932G>T"	""	""	"ENST00000380701"	""	87	"62"	25	58	"58"	0	"CCDC171,intron_variant,,ENST00000380701,NM_173550.2;CCDC171,downstream_gene_variant,,ENST00000297641,;CCDC171,downstream_gene_variant,,ENST00000449575,;CCDC171,intron_variant,,ENST00000486641,;CCDC171,intron_variant,,ENST00000470191,;CCDC171,intron_variant,,ENST00000498725,;CCDC171,upstream_gene_variant,,ENST00000472806,;"	"T"	"ENSG00000164989"	"ENST00000380701"	"Transcript"	"intron_variant"	"-/6512"	"-/3981"	"-/1326"	""	""	""	"1"	NA	1	"CCDC171"	"HGNC"	29828	"protein_coding"	"YES"	"CCDS6481.1"	"ENSP00000370077"	"Q6TFL3"	"Q8NCV3"	"UPI000021C44B"	"NM_173550.2"	""	""	""	"24/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c44b3c9c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28735632183908	"WGS"	FALSE
"12286"	"SLC24A2"	25769	"mskcc.org"	"GRCh37"	"9"	19750474	19750474	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.930+35461C>T"	""	""	"ENST00000341998"	""	75	"49"	26	59	"59"	0	"SLC24A2,intron_variant,,ENST00000341998,NM_001193288.2,NM_020344.3;SLC24A2,intron_variant,,ENST00000286344,;"	"A"	"ENSG00000155886"	"ENST00000341998"	"Transcript"	"intron_variant"	"-/10749"	"-/1986"	"-/661"	""	""	""	"1"	NA	-1	"SLC24A2"	"HGNC"	10976	"protein_coding"	"YES"	"CCDS6493.1"	"ENSP00000344801"	"Q9UI40"	""	"UPI000004FA46"	"NM_001193288.2,NM_020344.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c44c14aa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346666666666667	"WGS"	FALSE
"12287"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	24646629	24646629	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"48"	26	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c44cc0bc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351351351351351	"WGS"	FALSE
"12288"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	29551487	29551487	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"64"	26	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c44d895c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288888888888889	"WGS"	FALSE
"12289"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	30092878	30092878	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"57"	24	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c44d9eb0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"12290"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	30270276	30270276	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"68"	31	71	"71"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c44da4c8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313131313131313	"WGS"	FALSE
"12291"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	31054201	31054201	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"63"	25	66	"66"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c44db97c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284090909090909	"WGS"	FALSE
"12292"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	31155863	31155863	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"76"	25	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c44dbf94-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247524752475248	"WGS"	FALSE
"12293"	"AL157884.1"	0	"mskcc.org"	"GRCh37"	"9"	32759840	32759840	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408769"	""	113	"85"	28	57	"57"	0	"AL157884.1,upstream_gene_variant,,ENST00000408769,;"	"T"	"ENSG00000221696"	"ENST00000408769"	"Transcript"	"upstream_gene_variant"	"-/127"	""	""	""	""	""	"1"	"4454"	1	"AL157884.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c44e1b74-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247787610619469	"WGS"	FALSE
"12294"	"PRSS3"	5646	"mskcc.org"	"GRCh37"	"9"	33768583	33768583	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.211+17858C>T"	""	""	"ENST00000361005"	""	78	"69"	9	47	"47"	0	"PRSS3,intron_variant,,ENST00000361005,NM_007343.3;PRSS3,intron_variant,,ENST00000342836,NM_001197097.2;PRSS3,intron_variant,,ENST00000429677,NM_001197098.1;PRSS3,intron_variant,,ENST00000457896,;PRSS3,intron_variant,,ENST00000468152,;"	"T"	"ENSG00000010438"	"ENST00000361005"	"Transcript"	"intron_variant"	"-/966"	"-/915"	"-/304"	""	""	""	"1"	NA	1	"PRSS3"	"HGNC"	9486	"protein_coding"	"YES"	"CCDS47958.1"	"ENSP00000354280"	"P35030"	""	"UPI000013C519"	"NM_007343.3"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c44e5a8a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"12295"	"GALT"	2592	"mskcc.org"	"GRCh37"	"9"	34641796	34641796	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000378842"	""	78	"72"	6	42	"42"	0	"GALT,upstream_gene_variant,,ENST00000378842,NM_000155.3;SIGMAR1,upstream_gene_variant,,ENST00000378892,;SIGMAR1,upstream_gene_variant,,ENST00000277010,NM_005866.2,NM_001282208.1;GALT,upstream_gene_variant,,ENST00000450095,NM_001258332.1;GALT,upstream_gene_variant,,ENST00000556278,;SIGMAR1,upstream_gene_variant,,ENST00000477726,NM_147157.2;SIGMAR1,upstream_gene_variant,,ENST00000461426,;SIGMAR1,upstream_gene_variant,,ENST00000497006,;GALT,upstream_gene_variant,,ENST00000557541,;SIGMAR1,upstream_gene_variant,,ENST00000478146,;GALT,intron_variant,,ENST00000605275,;GALT,upstream_gene_variant,,ENST00000555020,;GALT,upstream_gene_variant,,ENST00000489643,;GALT,upstream_gene_variant,,ENST00000554638,;SIGMAR1,upstream_gene_variant,,ENST00000353468,NM_001282206.1;GALT,upstream_gene_variant,,ENST00000487381,;GALT,upstream_gene_variant,,ENST00000554550,;GALT,upstream_gene_variant,,ENST00000555086,;GALT,upstream_gene_variant,,ENST00000472111,;GALT,upstream_gene_variant,,ENST00000554944,;GALT,upstream_gene_variant,,ENST00000473529,;GALT,upstream_gene_variant,,ENST00000465543,;GALT,upstream_gene_variant,,ENST00000554085,;GALT,upstream_gene_variant,,ENST00000554139,;GALT,upstream_gene_variant,,ENST00000473506,;GALT,upstream_gene_variant,,ENST00000555214,;GALT,upstream_gene_variant,,ENST00000554897,;GALT,upstream_gene_variant,,ENST00000556403,;GALT,upstream_gene_variant,,ENST00000554330,;GALT,upstream_gene_variant,,ENST00000468099,;"	"A"	"ENSG00000213930"	"ENST00000378842"	"Transcript"	"upstream_gene_variant"	"-/1768"	"-/1140"	"-/379"	""	""	""	"1"	"4864"	1	"GALT"	"HGNC"	4135	"protein_coding"	"YES"	"CCDS6565.1"	"ENSP00000368119"	"P07902"	"P78433,G3V3U5,D3DRM8,D1MBF6,D0EM86"	"UPI000012B073"	"NM_000155.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGA"	"c44eb17e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"12296"	"ZCCHC7"	84186	"mskcc.org"	"GRCh37"	"9"	37131073	37131073	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.610+4134C>T"	""	""	"ENST00000336755"	""	78	"61"	17	66	"66"	0	"ZCCHC7,intron_variant,,ENST00000336755,NM_032226.2;ZCCHC7,intron_variant,,ENST00000534928,;ZCCHC7,intron_variant,,ENST00000322831,;ZCCHC7,intron_variant,,ENST00000461038,;"	"T"	"ENSG00000147905"	"ENST00000336755"	"Transcript"	"intron_variant"	"-/2619"	"-/1632"	"-/543"	""	""	""	"1"	NA	1	"ZCCHC7"	"HGNC"	26209	"protein_coding"	"YES"	"CCDS6608.2"	"ENSP00000337839"	"Q8N3Z6"	"B4E024"	"UPI0000036027"	"NM_032226.2"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c44f83c4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217948717948718	"WGS"	FALSE
"12297"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	38208051	38208051	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"69"	23	67	"67"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"c44fd3c4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"12298"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	38208052	38208052	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"69"	24	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"c44fd4a0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258064516129032	"WGS"	FALSE
"12299"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	38467899	38467899	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"60"	27	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c44fe0c6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"12300"	"CNTNAP3B"	79937	"mskcc.org"	"GRCh37"	"9"	43683580	43683580	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000377564"	""	94	"68"	26	52	"52"	0	"CNTNAP3B,upstream_gene_variant,,ENST00000377564,NM_001201380.1;CNTNAP3B,upstream_gene_variant,,ENST00000276974,;CNTNAP3B,upstream_gene_variant,,ENST00000377561,;CNTNAP3B,upstream_gene_variant,,ENST00000341990,;CNTNAP3B,upstream_gene_variant,,ENST00000479351,;"	"T"	"ENSG00000154529"	"ENST00000377564"	"Transcript"	"upstream_gene_variant"	"-/7939"	"-/3867"	"-/1288"	""	""	""	"1"	"1322"	1	"CNTNAP3B"	"HGNC"	32035	"protein_coding"	"YES"	"CCDS55312.1"	"ENSP00000366787"	"Q96NU0"	""	"UPI0000470399"	"NM_001201380.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c452735e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276595744680851	"WGS"	FALSE
"12301"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	47287674	47287674	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	21	"17"	4	10	"10"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"c455f43e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"12302"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	68182818	68182818	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"56"	12	34	"34"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c4594378-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"12303"	"RP11-561O23.5"	440896	"mskcc.org"	"GRCh37"	"9"	70939684	70939684	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1336-266G>C"	""	""	"ENST00000429953"	""	31	"27"	4	20	"20"	0	"RP11-561O23.5,intron_variant,,ENST00000429953,;RP11-561O23.5,intron_variant,,ENST00000414223,;RP11-561O23.5,intron_variant,,ENST00000603050,;PGM5,upstream_gene_variant,,ENST00000604870,;"	"C"	"ENSG00000234394"	"ENST00000429953"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4384"	""	""	""	""	""	"1"	NA	1	"RP11-561O23.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c45e526e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"12304"	"RP11-274B18.4"	0	"mskcc.org"	"GRCh37"	"9"	71214275	71214275	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.461-26282T>C"	""	""	"ENST00000413269"	""	64	"45"	19	57	"57"	0	"RP11-274B18.4,intron_variant,,ENST00000413269,;"	"C"	"ENSG00000226337"	"ENST00000413269"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1739"	""	""	""	""	""	"1"	NA	1	"RP11-274B18.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c45e6a6a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296875	"WGS"	FALSE
"12305"	"TJP2"	9414	"mskcc.org"	"GRCh37"	"9"	71740407	71740407	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-131+4126A>G"	""	""	"ENST00000453658"	""	35	"30"	5	18	"18"	0	"TJP2,intron_variant,,ENST00000453658,NM_001170414.2;TJP2,intron_variant,,ENST00000606364,;TJP2,downstream_gene_variant,,ENST00000413932,;"	"G"	"ENSG00000119139"	"ENST00000453658"	"Transcript"	"intron_variant"	"-/4085"	"-/3063"	"-/1020"	""	""	""	"1"	NA	1	"TJP2"	"HGNC"	11828	"protein_coding"	""	"CCDS55317.1"	"ENSP00000392178"	"Q9UDY2"	"U3KQJ2,B1AN86"	"UPI000045775A"	"NM_001170414.2"	""	""	""	"1/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"c45e8bc6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"12306"	"MAMDC2"	256691	"mskcc.org"	"GRCh37"	"9"	72832093	72832093	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1652-1160T>C"	""	""	"ENST00000377182"	""	110	"76"	34	58	"57"	1	"MAMDC2,intron_variant,,ENST00000377182,NM_153267.4;SMC5-AS1,intron_variant,,ENST00000594708,;RPL24P8,upstream_gene_variant,,ENST00000446071,;"	"C"	"ENSG00000165072"	"ENST00000377182"	"Transcript"	"intron_variant"	"-/3616"	"-/2061"	"-/686"	""	""	""	"1"	NA	1	"MAMDC2"	"HGNC"	23673	"protein_coding"	"YES"	"CCDS6631.1"	"ENSP00000366387"	"Q7Z304"	""	"UPI000013E44F"	"NM_153267.4"	""	""	""	"11/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"c45f1d16-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309090909090909	"WGS"	FALSE
"12307"	"TRPM3"	80036	"mskcc.org"	"GRCh37"	"9"	73483325	73483325	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.178-3898C>A"	""	""	"ENST00000377110"	""	89	"84"	5	64	"64"	0	"TRPM3,intron_variant,,ENST00000377110,;TRPM3,intron_variant,,ENST00000377106,NM_020952.4,NM_206946.3;TRPM3,intron_variant,,ENST00000360823,NM_206944.3,NM_206947.3;TRPM3,intron_variant,,ENST00000377105,NM_206945.3,NM_024971.5;TRPM3,intron_variant,,ENST00000423814,;TRPM3,intron_variant,,ENST00000357533,;TRPM3,intron_variant,,ENST00000377111,NM_001007471.2;TRPM3,intron_variant,,ENST00000396283,;TRPM3,intron_variant,,ENST00000377101,;TRPM3,intron_variant,,ENST00000361823,NM_206948.2,NM_001007470.1;TRPM3,upstream_gene_variant,,ENST00000437699,;TRPM3,intron_variant,,ENST00000354500,;"	"T"	"ENSG00000083067"	"ENST00000377110"	"Transcript"	"intron_variant"	"-/12258"	"-/5124"	"-/1707"	""	""	""	"1"	NA	-1	"TRPM3"	"HGNC"	17992	"protein_coding"	"YES"	"CCDS43835.1"	"ENSP00000366314"	"Q9HCF6"	""	"UPI0001596895"	""	""	""	""	"1/24"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c45f3198-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0561797752808989	"WGS"	FALSE
"12308"	"TRPM3"	80036	"mskcc.org"	"GRCh37"	"9"	73818561	73818561	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.183+243008G>C"	""	""	"ENST00000423814"	""	86	"63"	23	49	"49"	0	"TRPM3,intron_variant,,ENST00000423814,;TRPM3,intron_variant,,ENST00000357533,;TRPM3,intron_variant,,ENST00000354500,;"	"G"	"ENSG00000083067"	"ENST00000423814"	"Transcript"	"intron_variant"	"-/5205"	"-/5205"	"-/1734"	""	""	""	"1"	NA	-1	"TRPM3"	"HGNC"	17992	"protein_coding"	""	""	"ENSP00000389542"	"Q9HCF6"	"E9PBI7"	"UPI0001F4E030"	""	""	""	""	"1/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c45f3dfa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267441860465116	"WGS"	FALSE
"12309"	"TRPM3"	80036	"mskcc.org"	"GRCh37"	"9"	73995372	73995372	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.183+66197A>G"	""	""	"ENST00000423814"	""	89	"62"	27	56	"56"	0	"TRPM3,intron_variant,,ENST00000423814,;TRPM3,intron_variant,,ENST00000357533,;TRPM3,intron_variant,,ENST00000354500,;"	"C"	"ENSG00000083067"	"ENST00000423814"	"Transcript"	"intron_variant"	"-/5205"	"-/5205"	"-/1734"	""	""	""	"1"	NA	-1	"TRPM3"	"HGNC"	17992	"protein_coding"	""	""	"ENSP00000389542"	"Q9HCF6"	"E9PBI7"	"UPI0001F4E030"	""	""	""	""	"1/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c45f4f2a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303370786516854	"WGS"	FALSE
"12310"	"TMC1"	117531	"mskcc.org"	"GRCh37"	"9"	75235235	75235235	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-196+3842G>A"	""	""	"ENST00000297784"	""	86	"80"	6	54	"54"	0	"TMC1,intron_variant,,ENST00000297784,NM_138691.2;TMC1,intron_variant,,ENST00000340019,;TMC1,intron_variant,,ENST00000497073,;"	"A"	"ENSG00000165091"	"ENST00000297784"	"Transcript"	"intron_variant"	"-/3201"	"-/2283"	"-/760"	""	""	""	"1"	NA	1	"TMC1"	"HGNC"	16513	"protein_coding"	"YES"	"CCDS6643.1"	"ENSP00000297784"	"Q8TDI8"	""	"UPI0000161FA9"	"NM_138691.2"	""	""	""	"3/23"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"c45f9e6c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"12311"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	75996408	75996408	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"62"	34	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c45fbc6c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354166666666667	"WGS"	FALSE
"12312"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	76576219	76576219	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"80"	9	73	"73"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c45fd47c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101123595505618	"WGS"	FALSE
"12313"	"TRPM6"	140803	"mskcc.org"	"GRCh37"	"9"	77335093	77335093	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000360774"	""	97	"91"	6	60	"60"	0	"TRPM6,downstream_gene_variant,,ENST00000451710,;TRPM6,downstream_gene_variant,,ENST00000360774,NM_017662.4;TRPM6,downstream_gene_variant,,ENST00000361255,NM_001177311.1;TRPM6,downstream_gene_variant,,ENST00000449912,NM_001177310.1;TRPM6,downstream_gene_variant,,ENST00000376872,;TRPM6,downstream_gene_variant,,ENST00000376871,;"	"A"	"ENSG00000119121"	"ENST00000360774"	"Transcript"	"downstream_gene_variant"	"-/8425"	"-/6069"	"-/2022"	""	""	""	"1"	"2318"	-1	"TRPM6"	"HGNC"	17995	"protein_coding"	"YES"	"CCDS6647.1"	"ENSP00000354006"	"Q9BX84"	""	"UPI000006E041"	"NM_017662.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"c45fed90-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0618556701030928	"WGS"	FALSE
"12314"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	77946349	77946349	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"57"	21	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c4603e3a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269230769230769	"WGS"	FALSE
"12315"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	78089840	78089840	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"69"	14	71	"71"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c4604542-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168674698795181	"WGS"	FALSE
"12316"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	78089841	78089841	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"69"	14	70	"70"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"c4604696-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168674698795181	"WGS"	FALSE
"12317"	"RP11-214N16.2"	0	"mskcc.org"	"GRCh37"	"9"	79167911	79167911	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"rs555213061"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000441480"	""	92	"64"	28	65	"65"	0	"RP11-214N16.2,upstream_gene_variant,,ENST00000441480,;"	"T"	"ENSG00000219149"	"ENST00000441480"	"Transcript"	"upstream_gene_variant"	"-/490"	""	""	""	""	"rs555213061"	"1"	"3224"	-1	"RP11-214N16.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c4607d32-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WGS"	FALSE
"12318"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	79733659	79733659	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"48"	27	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"c4609fb0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36	"WGS"	FALSE
"12319"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	79772942	79772942	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs562743303"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"69"	40	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs562743303"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c460a406-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36697247706422	"WGS"	FALSE
"12320"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	80806086	80806086	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"69"	24	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c460d9da-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258064516129032	"WGS"	FALSE
"12321"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	81137620	81137620	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"88"	23	52	"52"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c4610284-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207207207207207	"WGS"	FALSE
"12322"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	82806973	82806973	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"60"	34	72	"72"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c4614780-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.361702127659574	"WGS"	FALSE
"12323"	"RP11-15B24.5"	0	"mskcc.org"	"GRCh37"	"9"	84924415	84924415	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.183+27850A>G"	""	""	"ENST00000586399"	""	93	"66"	27	62	"62"	0	"RP11-15B24.5,intron_variant,,ENST00000586399,;RP11-15B24.5,intron_variant,,ENST00000590250,;RP11-15B24.5,intron_variant,,ENST00000590903,;RP11-15B24.5,intron_variant,,ENST00000591117,;RP11-15B24.5,intron_variant,,ENST00000590791,;RP11-15B24.5,intron_variant,,ENST00000591257,;RP11-15B24.5,intron_variant,,ENST00000588368,;RP11-15B24.5,intron_variant,,ENST00000586214,;RP11-15B24.5,intron_variant,,ENST00000585511,;RP11-15B24.5,intron_variant,,ENST00000588492,;RP11-15B24.5,intron_variant,,ENST00000585454,;RP11-15B24.5,intron_variant,,ENST00000590298,;RP11-15B24.5,intron_variant,,ENST00000590667,;RP11-15B24.5,intron_variant,,ENST00000457558,;"	"G"	"ENSG00000228430"	"ENST00000586399"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/792"	""	""	""	""	""	"1"	NA	1	"RP11-15B24.5"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c461ac52-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290322580645161	"WGS"	FALSE
"12324"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	86885236	86885236	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"65"	24	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c46216ba-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269662921348315	"WGS"	FALSE
"12325"	"AGTPBP1"	23287	"mskcc.org"	"GRCh37"	"9"	88248901	88248901	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1183-612C>T"	""	""	"ENST00000376083"	""	102	"70"	32	43	"43"	0	"AGTPBP1,intron_variant,,ENST00000357081,NM_001286715.1;AGTPBP1,intron_variant,,ENST00000337006,;AGTPBP1,intron_variant,,ENST00000376109,NM_001286717.1;AGTPBP1,intron_variant,,ENST00000376083,NM_015239.2;AGTPBP1,intron_variant,,ENST00000432218,;"	"A"	"ENSG00000135049"	"ENST00000376083"	"Transcript"	"intron_variant"	"-/4205"	"-/3561"	"-/1186"	""	""	""	"1"	NA	-1	"AGTPBP1"	"HGNC"	17258	"protein_coding"	"YES"	"CCDS6672.1"	"ENSP00000365251"	"Q9UPW5"	""	"UPI000013CF66"	"NM_015239.2"	""	""	""	"13/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c4625b3e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313725490196078	"WGS"	FALSE
"12326"	"U6"	0	"mskcc.org"	"GRCh37"	"9"	90608529	90608529	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000606534"	""	92	"67"	25	63	"63"	0	"U6,downstream_gene_variant,,ENST00000606534,;"	"T"	"ENSG00000271923"	"ENST00000606534"	"Transcript"	"downstream_gene_variant"	"-/107"	""	""	""	""	""	"1"	"4615"	-1	"U6"	"RFAM"	NA	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c4630d4a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"12327"	"RP11-350G13.1"	0	"mskcc.org"	"GRCh37"	"9"	90936858	90936858	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000445182"	""	102	"96"	6	56	"56"	0	"RP11-350G13.1,upstream_gene_variant,,ENST00000445182,;"	"T"	"ENSG00000226327"	"ENST00000445182"	"Transcript"	"upstream_gene_variant"	"-/886"	""	""	""	""	""	"1"	"2511"	1	"RP11-350G13.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"c4632f14-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"12328"	"MIR4289"	100423015	"mskcc.org"	"GRCh37"	"9"	91360484	91360484	"+"	"3'Flank"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000581736"	""	84	"59"	25	67	"67"	0	"MIR4289,downstream_gene_variant,,ENST00000581736,;"	"C"	"ENSG00000265873"	"ENST00000581736"	"Transcript"	"downstream_gene_variant"	"-/70"	""	""	""	""	""	"1"	"267"	-1	"MIR4289"	"HGNC"	38278	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c4635d4a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297619047619048	"WGS"	FALSE
"12329"	"ENSR00001472525"	0	"mskcc.org"	"GRCh37"	"9"	92771793	92771793	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001472525"	""	97	"69"	28	54	"54"	0	""	"T"	""	"ENSR00001472525"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c463b632-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288659793814433	"WGS"	FALSE
"12330"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	92899324	92899324	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"79"	28	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c463bb6e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261682242990654	"WGS"	FALSE
"12331"	"OR7E31P"	0	"mskcc.org"	"GRCh37"	"9"	92980091	92980091	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000426212"	""	92	"87"	5	56	"56"	0	"OR7E31P,downstream_gene_variant,,ENST00000426212,;"	"T"	"ENSG00000185074"	"ENST00000426212"	"Transcript"	"downstream_gene_variant"	"-/886"	""	""	""	""	""	"1"	"885"	1	"OR7E31P"	"HGNC"	8404	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c463c2a8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0543478260869565	"WGS"	FALSE
"12332"	"OR7E31P"	0	"mskcc.org"	"GRCh37"	"9"	92980096	92980096	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000426212"	""	94	"86"	8	59	"59"	0	"OR7E31P,downstream_gene_variant,,ENST00000426212,;"	"A"	"ENSG00000185074"	"ENST00000426212"	"Transcript"	"downstream_gene_variant"	"-/886"	""	""	""	""	""	"1"	"890"	1	"OR7E31P"	"HGNC"	8404	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c463c38e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"12333"	"AUH"	549	"mskcc.org"	"GRCh37"	"9"	94084662	94084662	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.505+2938G>C"	""	""	"ENST00000375731"	""	105	"77"	28	56	"56"	0	"AUH,intron_variant,,ENST00000375731,NM_001698.2;AUH,intron_variant,,ENST00000303617,;AUH,intron_variant,,ENST00000422391,;AUH,intron_variant,,ENST00000478465,;"	"G"	"ENSG00000148090"	"ENST00000375731"	"Transcript"	"intron_variant"	"-/1577"	"-/1020"	"-/339"	""	""	""	"1"	NA	-1	"AUH"	"HGNC"	890	"protein_coding"	"YES"	"CCDS6689.1"	"ENSP00000364883"	"Q13825"	""	"UPI0000072F64"	"NM_001698.2"	""	""	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"c46410c8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"12334"	"SPTLC1"	10558	"mskcc.org"	"GRCh37"	"9"	94847898	94847898	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.261-4653T>C"	""	""	"ENST00000262554"	""	80	"74"	6	65	"65"	0	"SPTLC1,intron_variant,,ENST00000262554,NM_001281303.1,NM_006415.3;SPTLC1,intron_variant,,ENST00000337841,NM_178324.2;SPTLC1,intron_variant,,ENST00000482632,;SPTLC1,intron_variant,,ENST00000477888,;"	"G"	"ENSG00000090054"	"ENST00000262554"	"Transcript"	"intron_variant"	"-/1894"	"-/1422"	"-/473"	""	""	""	"1"	NA	-1	"SPTLC1"	"HGNC"	11277	"protein_coding"	"YES"	"CCDS6692.1"	"ENSP00000262554"	"O15269"	"B4DR90"	"UPI000012E27B"	"NM_001281303.1,NM_006415.3"	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"c4643a12-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"12335"	"FBP1"	2203	"mskcc.org"	"GRCh37"	"9"	97392656	97392656	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.170+8767C>A"	""	""	"ENST00000415431"	""	86	"66"	20	63	"63"	0	"FBP1,intron_variant,,ENST00000415431,NM_001127628.1;FBP1,intron_variant,,ENST00000375326,NM_000507.3;FBP1,intron_variant,,ENST00000414122,;"	"T"	"ENSG00000165140"	"ENST00000415431"	"Transcript"	"intron_variant"	"-/1487"	"-/1017"	"-/338"	""	""	""	"1"	NA	-1	"FBP1"	"HGNC"	3606	"protein_coding"	"YES"	"CCDS6712.1"	"ENSP00000408025"	"P09467"	"Q5VZC3,A8QID0"	"UPI0000070F7C"	"NM_001127628.1"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"c464f902-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232558139534884	"WGS"	FALSE
"12336"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	106214484	106214484	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"60"	28	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c466d4c0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318181818181818	"WGS"	FALSE
"12337"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	106324587	106324587	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"64"	22	69	"69"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c466d970-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255813953488372	"WGS"	FALSE
"12338"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	106471277	106471277	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"64"	21	69	"69"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c466df7e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247058823529412	"WGS"	FALSE
"12339"	"RP11-308N19.1"	0	"mskcc.org"	"GRCh37"	"9"	109078767	109078767	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.171+37296T>A"	""	""	"ENST00000435485"	""	92	"67"	25	61	"61"	0	"RP11-308N19.1,intron_variant,,ENST00000435485,;"	"A"	"ENSG00000234323"	"ENST00000435485"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1686"	""	""	""	""	""	"1"	NA	1	"RP11-308N19.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c4675d96-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"12340"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	109554505	109554505	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"70"	29	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c467711e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292929292929293	"WGS"	FALSE
"12341"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	110226326	110226326	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"70"	8	28	"28"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c467c510-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"12342"	"AMBP"	259	"mskcc.org"	"GRCh37"	"9"	116831257	116831257	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.603+722C>G"	""	""	"ENST00000265132"	""	100	"72"	28	62	"62"	0	"AMBP,intron_variant,,ENST00000265132,NM_001633.3;AMBP,intron_variant,,ENST00000466610,;AMBP,intron_variant,,ENST00000540645,;AMBP,intron_variant,,ENST00000603230,;"	"C"	"ENSG00000106927"	"ENST00000265132"	"Transcript"	"intron_variant"	"-/1434"	"-/1059"	"-/352"	""	""	""	"1"	NA	-1	"AMBP"	"HGNC"	453	"protein_coding"	"YES"	"CCDS6800.1"	"ENSP00000265132"	"P02760"	"P78492"	"UPI000000D9AF"	"NM_001633.3"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c4696078-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"12343"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	121793537	121793537	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs138710539"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"59"	31	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs138710539"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c46a4c9a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344444444444444	"WGS"	FALSE
"12344"	"CNTRL"	11064	"mskcc.org"	"GRCh37"	"9"	123840887	123840887	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-204-1697G>A"	""	""	"ENST00000373855"	""	80	"55"	25	43	"43"	0	"CNTRL,intron_variant,,ENST00000373855,;CNTRL,intron_variant,,ENST00000373865,;"	"A"	"ENSG00000119397"	"ENST00000373855"	"Transcript"	"intron_variant"	"-/7660"	"-/6978"	"-/2325"	""	""	""	"1"	NA	1	"CNTRL"	"HGNC"	1858	"protein_coding"	"YES"	"CCDS35118.1"	"ENSP00000362962"	"Q7Z7A1"	"Q5JVD3,Q5JVD6,Q5JVD1"	"UPI0000211718"	""	""	""	""	"1/43"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c46aab54-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	TRUE
"12345"	"RC3H2"	54542	"mskcc.org"	"GRCh37"	"9"	125641066	125641066	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1212+968G>A"	""	""	"ENST00000373670"	""	59	"53"	6	43	"43"	0	"RC3H2,intron_variant,,ENST00000373670,;RC3H2,intron_variant,,ENST00000357244,NM_001100588.1;RC3H2,intron_variant,,ENST00000423239,NM_018835.2;RC3H2,intron_variant,,ENST00000335387,;RC3H2,intron_variant,,ENST00000373665,;SNORD90,downstream_gene_variant,,ENST00000391145,NR_003071.1;RC3H2,intron_variant,,ENST00000498479,;"	"T"	"ENSG00000056586"	"ENST00000373670"	"Transcript"	"intron_variant"	"-/9248"	"-/3576"	"-/1191"	""	""	""	"1"	NA	-1	"RC3H2"	"HGNC"	21461	"protein_coding"	"YES"	"CCDS43874.1"	"ENSP00000362774"	"Q9HBD1"	""	"UPI0000048D91"	""	""	""	""	"7/19"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c46b0e50-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101694915254237	"WGS"	FALSE
"12346"	"RP11-65N13.8"	0	"mskcc.org"	"GRCh37"	"9"	128013745	128013745	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.402-3112C>A"	""	""	"ENST00000468244"	""	85	"79"	6	49	"49"	0	"RP11-65N13.8,intron_variant,,ENST00000468244,;"	"A"	"ENSG00000239705"	"ENST00000468244"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/550"	""	""	""	""	""	"1"	NA	1	"RP11-65N13.8"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"c46bbfbc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0705882352941176	"WGS"	FALSE
"12347"	"GAPVD1"	26130	"mskcc.org"	"GRCh37"	"9"	128062095	128062095	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.185+710C>T"	""	""	"ENST00000394105"	""	57	"50"	7	31	"31"	0	"GAPVD1,intron_variant,,ENST00000470056,;GAPVD1,intron_variant,,ENST00000394104,NM_001282679.1;GAPVD1,intron_variant,,ENST00000265956,;GAPVD1,intron_variant,,ENST00000297933,NM_001282680.1;GAPVD1,intron_variant,,ENST00000495955,;GAPVD1,intron_variant,,ENST00000394105,NM_015635.2;GAPVD1,intron_variant,,ENST00000394083,;GAPVD1,intron_variant,,ENST00000312123,NM_001282681.1;GAPVD1,intron_variant,,ENST00000394084,;GAPVD1,intron_variant,,ENST00000467750,;GAPVD1,intron_variant,,ENST00000461379,;GAPVD1,upstream_gene_variant,,ENST00000431329,;GAPVD1,upstream_gene_variant,,ENST00000436712,;RNU6-1020P,downstream_gene_variant,,ENST00000363684,;GAPVD1,downstream_gene_variant,,ENST00000469528,;GAPVD1,intron_variant,,ENST00000497580,;"	"T"	"ENSG00000165219"	"ENST00000394105"	"Transcript"	"intron_variant"	"-/5207"	"-/4464"	"-/1487"	""	""	""	"1"	NA	1	"GAPVD1"	"HGNC"	23375	"protein_coding"	"YES"	"CCDS35138.1"	"ENSP00000377665"	"Q14C86"	"C9IZX9"	"UPI00001D76F1"	"NM_015635.2"	""	""	""	"2/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c46bc7fa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12280701754386	"WGS"	FALSE
"12348"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	129660450	129660450	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"57"	23	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c46c4e82-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2875	"WGS"	FALSE
"12349"	"ENG"	2022	"mskcc.org"	"GRCh37"	"9"	130606599	130606599	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.68-1075G>A"	""	""	"ENST00000373203"	""	66	"58"	8	39	"39"	0	"ENG,intron_variant,,ENST00000344849,;ENG,intron_variant,,ENST00000373203,NM_000118.3,NM_001114753.2,NM_001278138.1;RNA5SP296,upstream_gene_variant,,ENST00000410523,;"	"T"	"ENSG00000106991"	"ENST00000373203"	"Transcript"	"intron_variant"	"-/3048"	"-/1977"	"-/658"	""	""	""	"1"	NA	-1	"ENG"	"HGNC"	3349	"protein_coding"	"YES"	"CCDS48029.1"	"ENSP00000362299"	"P17813"	"Q71V36,F5GX88"	"UPI0000129E00"	"NM_000118.3,NM_001114753.2,NM_001278138.1"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"c46c9e96-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"12350"	"CCBL1"	883	"mskcc.org"	"GRCh37"	"9"	131623137	131623137	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-6-15447G>A"	""	""	"ENST00000302586"	""	103	"69"	34	57	"57"	0	"CCBL1,intron_variant,,ENST00000436267,NM_001287390.1;CCBL1,intron_variant,,ENST00000302586,NM_004059.4,NM_001122671.1;CCBL1,intron_variant,,ENST00000320665,NM_001122672.1;CCBL1,intron_variant,,ENST00000451800,;CCBL1,intron_variant,,ENST00000462722,;CCBL1,intron_variant,,ENST00000474824,;CCBL1,upstream_gene_variant,,ENST00000483599,;"	"T"	"ENSG00000171097"	"ENST00000302586"	"Transcript"	"intron_variant"	"-/1903"	"-/1269"	"-/422"	""	""	""	"1"	NA	-1	"CCBL1"	"HGNC"	1564	"protein_coding"	"YES"	"CCDS43884.1"	"ENSP00000302227"	"Q16773"	"Q9UQN7,Q9UQN6,Q5T278,Q5T276,A8K563"	"UPI0000073E31"	"NM_004059.4,NM_001122671.1"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"c46d3112-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330097087378641	"WGS"	FALSE
"12351"	"LRRC8A"	56262	"mskcc.org"	"GRCh37"	"9"	131656705	131656705	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-9+8305G>A"	""	""	"ENST00000259324"	""	57	"46"	11	51	"51"	0	"LRRC8A,intron_variant,,ENST00000259324,NM_001127244.1;LRRC8A,intron_variant,,ENST00000372600,NM_019594.3;LRRC8A,intron_variant,,ENST00000372599,NM_001127245.1;"	"A"	"ENSG00000136802"	"ENST00000259324"	"Transcript"	"intron_variant"	"-/4619"	"-/2433"	"-/810"	""	""	""	"1"	NA	1	"LRRC8A"	"HGNC"	19027	"protein_coding"	"YES"	"CCDS35155.1"	"ENSP00000259324"	"Q8IWT6"	"Q96SW8"	"UPI000004EF9E"	"NM_001127244.1"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"c46d3720-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192982456140351	"WGS"	FALSE
"12352"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	132546785	132546785	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"65"	5	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c46d9c74-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"12353"	"SETX"	23064	"mskcc.org"	"GRCh37"	"9"	135207958	135207958	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.839-1123T>G"	""	""	"ENST00000224140"	""	94	"63"	31	81	"81"	0	"SETX,intron_variant,,ENST00000372169,;SETX,intron_variant,,ENST00000224140,NM_015046.5;SETX,intron_variant,,ENST00000393220,;"	"C"	"ENSG00000107290"	"ENST00000224140"	"Transcript"	"intron_variant"	"-/11100"	"-/8034"	"-/2677"	""	""	""	"1"	NA	-1	"SETX"	"HGNC"	445	"protein_coding"	"YES"	"CCDS6947.1"	"ENSP00000224140"	"Q7Z333"	""	"UPI0000210D28"	"NM_015046.5"	""	""	""	"7/25"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"c46ecde2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329787234042553	"WGS"	FALSE
"12354"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	138052097	138052097	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"71"	27	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c470dad8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275510204081633	"WGS"	FALSE
"12355"	"NACC2"	138151	"mskcc.org"	"GRCh37"	"9"	138952152	138952152	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-59-9726G>A"	""	""	"ENST00000277554"	""	105	"74"	31	61	"61"	0	"NACC2,intron_variant,,ENST00000277554,NM_144653.4;"	"T"	"ENSG00000148411"	"ENST00000277554"	"Transcript"	"intron_variant"	"-/2077"	"-/1764"	"-/587"	""	""	""	"1"	NA	-1	"NACC2"	"HGNC"	23846	"protein_coding"	""	"CCDS6993.1"	"ENSP00000277554"	"Q96BF6"	""	"UPI0000073EEB"	"NM_144653.4"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c4716e6c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295238095238095	"WGS"	FALSE
"12356"	"EXD3"	54932	"mskcc.org"	"GRCh37"	"9"	140272701	140272701	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.121-4650A>G"	""	""	"ENST00000340951"	""	94	"85"	9	54	"54"	0	"EXD3,intron_variant,,ENST00000340951,NM_017820.3;EXD3,intron_variant,,ENST00000342129,;EXD3,intron_variant,,ENST00000479452,NM_001286823.1;EXD3,intron_variant,,ENST00000475006,;EXD3,intron_variant,,ENST00000490886,;EXD3,intron_variant,,ENST00000460390,;"	"C"	"ENSG00000187609"	"ENST00000340951"	"Transcript"	"intron_variant"	"-/2872"	"-/2631"	"-/876"	""	""	""	"1"	NA	-1	"EXD3"	"HGNC"	26023	"protein_coding"	"YES"	"CCDS48066.1"	"ENSP00000340474"	"Q8N9H8"	"E9PI94"	"UPI00003676BC"	"NM_017820.3"	""	""	""	"3/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"c472da36-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0957446808510638	"WGS"	FALSE
"12357"	"EHMT1"	79813	"mskcc.org"	"GRCh37"	"9"	140519569	140519569	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.21+6068G>A"	""	""	"ENST00000460843"	""	101	"90"	11	48	"48"	0	"EHMT1,intron_variant,,ENST00000460843,NM_024757.4;EHMT1,intron_variant,,ENST00000462484,NM_001145527.1;EHMT1,intron_variant,,ENST00000334856,;EHMT1,intron_variant,,ENST00000371394,;"	"A"	"ENSG00000181090"	"ENST00000460843"	"Transcript"	"intron_variant"	"-/5095"	"-/3897"	"-/1298"	""	""	""	"1"	NA	1	"EHMT1"	"HGNC"	24650	"protein_coding"	"YES"	"CCDS7050.2"	"ENSP00000417980"	"Q9H9B1"	"Q71M33,A0PJE0"	"UPI000194EC2D"	"NM_024757.4"	""	""	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"c473507e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108910891089109	"WGS"	FALSE
"12358"	"EHMT1"	79813	"mskcc.org"	"GRCh37"	"9"	140519570	140519570	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.21+6069G>A"	""	""	"ENST00000460843"	""	100	"88"	12	49	"49"	0	"EHMT1,intron_variant,,ENST00000460843,NM_024757.4;EHMT1,intron_variant,,ENST00000462484,NM_001145527.1;EHMT1,intron_variant,,ENST00000334856,;EHMT1,intron_variant,,ENST00000371394,;"	"A"	"ENSG00000181090"	"ENST00000460843"	"Transcript"	"intron_variant"	"-/5095"	"-/3897"	"-/1298"	""	""	""	"1"	NA	1	"EHMT1"	"HGNC"	24650	"protein_coding"	"YES"	"CCDS7050.2"	"ENSP00000417980"	"Q9H9B1"	"Q71M33,A0PJE0"	"UPI000194EC2D"	"NM_024757.4"	""	""	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"c473515a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"12359"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	626601	626601	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	126	"118"	8	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c476a378-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0634920634920635	"WGS"	FALSE
"12360"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	873369	873369	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"43"	23	47	"47"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c4778496-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.348484848484849	"WGS"	FALSE
"12361"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1026011	1026011	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"rs57275826"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"59"	7	49	"49"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs57275826"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0134"	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c4783a1c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106060606060606	"WGS"	FALSE
"12362"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1116917	1116917	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"64"	9	45	"45"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c4787176-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123287671232877	"WGS"	FALSE
"12363"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1248656	1248656	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"64"	9	41	"41"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c47895a2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123287671232877	"WGS"	FALSE
"12364"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1248670	1248670	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"53"	9	29	"29"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c47897a0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145161290322581	"WGS"	FALSE
"12365"	"IL3RA"	3563	"mskcc.org"	"GRCh37"	"X"	1472602	1472602	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.616+1203A>T"	""	""	"ENST00000331035"	""	53	"46"	7	16	"16"	0	"IL3RA,intron_variant,,ENST00000331035,NM_002183.3,NM_001267713.1;IL3RA,intron_variant,,ENST00000381469,;IL3RA,intron_variant,,ENST00000432757,;"	"T"	"ENSG00000185291"	"ENST00000331035"	"Transcript"	"intron_variant"	"-/1706"	"-/1137"	"-/378"	""	""	""	"1"	NA	1	"IL3RA"	"HGNC"	6012	"protein_coding"	"YES"	"CCDS14113.1"	"ENSP00000327890"	"P26951"	"Q9UEH7"	"UPI0000001C31"	"NM_002183.3,NM_001267713.1"	""	""	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c479c4b8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.132075471698113	"WGS"	FALSE
"12366"	"P2RY8"	286530	"mskcc.org"	"GRCh37"	"X"	1657904	1657904	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000381297"	""	77	"70"	7	56	"56"	0	"P2RY8,upstream_gene_variant,,ENST00000381297,NM_178129.4;"	"G"	"ENSG00000182162"	"ENST00000381297"	"Transcript"	"upstream_gene_variant"	"-/4198"	"-/1080"	"-/359"	""	""	""	"1"	"1904"	-1	"P2RY8"	"HGNC"	15524	"protein_coding"	"YES"	"CCDS14115.1"	"ENSP00000370697"	"Q86VZ1"	""	"UPI000000DA6D"	"NM_178129.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c47a8a38-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	TRUE
"12367"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1825214	1825214	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"67"	15	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"c47b0fe4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182926829268293	"WGS"	FALSE
"12368"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1956671	1956671	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"92"	8	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c47b699e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"12369"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	4406424	4406424	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	48	"42"	6	23	"23"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c47cc726-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"12370"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	8014572	8014572	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	34	"17"	17	28	"28"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c47d100a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WGS"	FALSE
"12371"	"KAL1"	3730	"mskcc.org"	"GRCh37"	"X"	8507035	8507035	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1449+670A>G"	""	""	"ENST00000262648"	""	44	"16"	28	26	"26"	0	"KAL1,intron_variant,,ENST00000262648,NM_000216.2;KAL1,upstream_gene_variant,,ENST00000481896,;"	"C"	"ENSG00000011201"	"ENST00000262648"	"Transcript"	"intron_variant"	"-/6314"	"-/2043"	"-/680"	""	""	""	"1"	NA	-1	"KAL1"	"HGNC"	6211	"protein_coding"	"YES"	"CCDS14130.1"	"ENSP00000262648"	"P23352"	""	"UPI00001AE843"	"NM_000216.2"	""	""	""	"10/13"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"c47d1c30-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.636363636363636	"WGS"	FALSE
"12372"	"TBL1X"	6907	"mskcc.org"	"GRCh37"	"X"	9587866	9587866	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-130-20447G>A"	""	""	"ENST00000217964"	""	49	"28"	21	30	"30"	0	"TBL1X,intron_variant,,ENST00000217964,NM_005647.3;TBL1X,intron_variant,,ENST00000407597,NM_001139466.1;TBL1X,intron_variant,,ENST00000424279,NM_001139467.1;TBL1X,intron_variant,,ENST00000380961,NM_001139468.1;TBL1X,intron_variant,,ENST00000536365,;TBL1X,intron_variant,,ENST00000415293,;TBL1X,intron_variant,,ENST00000441088,;TBL1X,intron_variant,,ENST00000422314,;TBL1X,intron_variant,,ENST00000452824,;"	"A"	"ENSG00000101849"	"ENST00000217964"	"Transcript"	"intron_variant"	"-/5866"	"-/1734"	"-/577"	""	""	""	"1"	NA	1	"TBL1X"	"HGNC"	11585	"protein_coding"	"YES"	"CCDS14133.1"	"ENSP00000217964"	"O60907"	"C9JYQ8,C9JP56,C9JCW3,C9J5F9"	"UPI0000161FAF"	"NM_005647.3"	""	""	""	"2/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c47d4eee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WGS"	FALSE
"12373"	"ARHGAP6"	395	"mskcc.org"	"GRCh37"	"X"	11154558	11154558	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"rs762693048"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000337414"	""	32	"27"	5	30	"30"	0	"ARHGAP6,intron_variant,,ENST00000534860,;ARHGAP6,downstream_gene_variant,,ENST00000337414,NM_013427.2;ARHGAP6,downstream_gene_variant,,ENST00000303025,NM_013423.2;ARHGAP6,downstream_gene_variant,,ENST00000380736,NM_001287242.1;ARHGAP6,downstream_gene_variant,,ENST00000489330,;ARHGAP6,downstream_gene_variant,,ENST00000495242,;"	"T"	"ENSG00000047648"	"ENST00000337414"	"Transcript"	"downstream_gene_variant"	"-/5117"	"-/2925"	"-/974"	""	""	"rs762693048"	"1"	"1106"	-1	"ARHGAP6"	"HGNC"	676	"protein_coding"	"YES"	"CCDS14140.1"	"ENSP00000338967"	"O43182"	"B4DN35"	"UPI00001AED54"	"NM_013427.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"c47d6a78-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WGS"	FALSE
"12374"	"ARHGAP6"	395	"mskcc.org"	"GRCh37"	"X"	11644608	11644608	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.588+37753C>T"	""	""	"ENST00000337414"	""	55	"21"	34	42	"42"	0	"ARHGAP6,intron_variant,,ENST00000337414,NM_013427.2;ARHGAP6,intron_variant,,ENST00000380718,NM_006125.2;ARHGAP6,intron_variant,,ENST00000380732,;ARHGAP6,intron_variant,,ENST00000489330,;ARHGAP6,intron_variant,,ENST00000495242,;"	"A"	"ENSG00000047648"	"ENST00000337414"	"Transcript"	"intron_variant"	"-/5117"	"-/2925"	"-/974"	""	""	""	"1"	NA	-1	"ARHGAP6"	"HGNC"	676	"protein_coding"	"YES"	"CCDS14140.1"	"ENSP00000338967"	"O43182"	"B4DN35"	"UPI00001AED54"	"NM_013427.2"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c47d6cf8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.618181818181818	"WGS"	FALSE
"12375"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	12148142	12148142	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"18"	23	35	"35"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c47d7144-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.560975609756098	"WGS"	FALSE
"12376"	"GLRA2"	2742	"mskcc.org"	"GRCh37"	"X"	14648289	14648289	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.930+20962A>G"	""	""	"ENST00000218075"	""	60	"35"	25	35	"35"	0	"GLRA2,intron_variant,,ENST00000218075,NM_002063.3;GLRA2,intron_variant,,ENST00000443437,NM_001171942.1,NM_001118885.1;GLRA2,intron_variant,,ENST00000355020,NM_001118886.1;"	"G"	"ENSG00000101958"	"ENST00000218075"	"Transcript"	"intron_variant"	"-/3216"	"-/1359"	"-/452"	""	""	""	"1"	NA	1	"GLRA2"	"HGNC"	4327	"protein_coding"	"YES"	"CCDS14160.1"	"ENSP00000218075"	"P23416"	""	"UPI000012BA64"	"NM_002063.3"	""	""	""	"7/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c47d9408-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WGS"	FALSE
"12377"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	16128191	16128191	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"21"	21	22	"22"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c47da394-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WGS"	FALSE
"12378"	"SH3KBP1"	30011	"mskcc.org"	"GRCh37"	"X"	19686749	19686749	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.726+15192A>T"	""	""	"ENST00000397821"	""	39	"34"	5	14	"14"	0	"SH3KBP1,intron_variant,,ENST00000397821,NM_031892.2;SH3KBP1,intron_variant,,ENST00000379716,NM_001184960.1;SH3KBP1,intron_variant,,ENST00000379698,NM_001024666.2;SH3KBP1,intron_variant,,ENST00000379697,;SH3KBP1,intron_variant,,ENST00000379726,;SH3KBP1,intron_variant,,ENST00000541422,;SH3KBP1,intron_variant,,ENST00000432234,;SH3KBP1,intron_variant,,ENST00000494961,;SH3KBP1,upstream_gene_variant,,ENST00000477102,;"	"A"	"ENSG00000147010"	"ENST00000397821"	"Transcript"	"intron_variant"	"-/4731"	"-/1998"	"-/665"	""	""	""	"1"	NA	-1	"SH3KBP1"	"HGNC"	13867	"protein_coding"	"YES"	"CCDS14193.1"	"ENSP00000380921"	"Q96B97"	"Q5JPT6,B7Z6E8"	"UPI000006CC82"	"NM_031892.2"	""	""	""	"6/17"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c47df9fc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128205128205128	"WGS"	FALSE
"12379"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	20998571	20998571	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	55	"25"	30	24	"24"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c47e1bbc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WGS"	FALSE
"12380"	"PHEX"	5251	"mskcc.org"	"GRCh37"	"X"	22107419	22107419	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.664-1128C>T"	""	""	"ENST00000379374"	""	49	"44"	5	30	"30"	0	"PHEX,intron_variant,,ENST00000379374,NM_000444.4;PHEX,intron_variant,,ENST00000535894,;PHEX,intron_variant,,ENST00000537599,;PHEX,upstream_gene_variant,,ENST00000475778,;"	"T"	"ENSG00000102174"	"ENST00000379374"	"Transcript"	"intron_variant"	"-/6172"	"-/2250"	"-/749"	""	""	""	"1"	NA	1	"PHEX"	"HGNC"	8918	"protein_coding"	"YES"	"CCDS14204.1"	"ENSP00000368682"	"P78562"	"D1LZJ7,B4DWG8"	"UPI0000033C42"	"NM_000444.4"	""	""	""	"5/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"c47e2666-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WGS"	FALSE
"12381"	"RP11-40F8.2"	100873065	"mskcc.org"	"GRCh37"	"X"	23175119	23175119	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.260-92881G>C"	""	""	"ENST00000608254"	""	39	"33"	6	23	"23"	0	"RP11-40F8.2,intron_variant,,ENST00000608254,;"	"G"	"ENSG00000233067"	"ENST00000608254"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/557"	""	""	""	""	""	"1"	NA	-1	"RP11-40F8.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c47e3a8e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"12382"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	23627179	23627179	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	46	"16"	30	31	"31"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"c47e4182-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.652173913043478	"WGS"	FALSE
"12383"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	23824114	23824114	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	58	"51"	7	30	"30"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c47e4a7e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120689655172414	"WGS"	FALSE
"12384"	"CXorf58"	254158	"mskcc.org"	"GRCh37"	"X"	23944103	23944103	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.424-1253A>G"	""	""	"ENST00000379211"	""	51	"45"	6	21	"21"	0	"CXorf58,intron_variant,,ENST00000379211,NM_001169574.1,NM_152761.2;"	"G"	"ENSG00000165182"	"ENST00000379211"	"Transcript"	"intron_variant"	"-/1752"	"-/999"	"-/332"	""	""	""	"1"	NA	1	"CXorf58"	"HGNC"	26356	"protein_coding"	"YES"	"CCDS14209.1"	"ENSP00000368511"	"Q96LI9"	""	"UPI00001AEC5F"	"NM_001169574.1,NM_152761.2"	""	""	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c47e4d1c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"12385"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	24141005	24141005	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"34"	4	20	"20"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c47e5d66-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"12386"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	24262806	24262806	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	40	"13"	27	29	"29"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c47e5ffa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.675	"WGS"	FALSE
"12387"	"PCYT1B"	9468	"mskcc.org"	"GRCh37"	"X"	24598551	24598551	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs181500541"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.566-976C>T"	""	""	"ENST00000379144"	""	40	"14"	26	28	"28"	0	"PCYT1B,intron_variant,,ENST00000379145,NM_001163264.1;PCYT1B,intron_variant,,ENST00000379144,NM_004845.4;PCYT1B,intron_variant,,ENST00000356768,NM_001163265.1;PCYT1B,intron_variant,,ENST00000496020,;"	"A"	"ENSG00000102230"	"ENST00000379144"	"Transcript"	"intron_variant"	"-/1692"	"-/1110"	"-/369"	""	""	"rs181500541"	"1"	NA	-1	"PCYT1B"	"HGNC"	8755	"protein_coding"	"YES"	"CCDS14213.1"	"ENSP00000368439"	"Q9Y5K3"	""	"UPI000012864E"	"NM_004845.4"	""	""	""	"5/7"	""	"A:0.0008"	"A:0.0015"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c47e67ca-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.65	"WGS"	FALSE
"12388"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	26962077	26962077	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	48	"41"	7	41	"41"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c47e870a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145833333333333	"WGS"	FALSE
"12389"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	27529391	27529391	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"13"	25	21	"21"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"c47e8d18-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.657894736842105	"WGS"	FALSE
"12390"	"IL1RAPL1"	11141	"mskcc.org"	"GRCh37"	"X"	29887349	29887349	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.779-48232T>C"	""	""	"ENST00000378993"	""	49	"44"	5	24	"24"	0	"IL1RAPL1,intron_variant,,ENST00000378993,NM_014271.3;IL1RAPL1,intron_variant,,ENST00000302196,;"	"C"	"ENSG00000169306"	"ENST00000378993"	"Transcript"	"intron_variant"	"-/3667"	"-/2091"	"-/696"	""	""	""	"1"	NA	1	"IL1RAPL1"	"HGNC"	5996	"protein_coding"	"YES"	"CCDS14218.1"	"ENSP00000368278"	"Q9NZN1"	"Q7Z2H0"	"UPI000006D1BF"	"NM_014271.3"	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"c47ebf7c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WGS"	FALSE
"12391"	"SIAH1P1"	0	"mskcc.org"	"GRCh37"	"X"	35648111	35648111	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000479411"	""	48	"44"	4	34	"34"	0	"SIAH1P1,downstream_gene_variant,,ENST00000479411,;SIAH1P1,downstream_gene_variant,,ENST00000420507,;"	"G"	"ENSG00000230227"	"ENST00000479411"	"Transcript"	"downstream_gene_variant"	"-/923"	""	""	""	""	""	"1"	"2930"	1	"SIAH1P1"	"HGNC"	30966	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"c47f37ea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"12392"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	38949775	38949775	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"36"	6	33	"33"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c47f5d60-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"12393"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	41343706	41343706	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	45	"38"	7	31	"31"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c47fa702-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155555555555556	"WGS"	FALSE
"12394"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	44457005	44457005	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	35	"31"	4	29	"29"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c47fe370-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"12395"	"JADE3"	9767	"mskcc.org"	"GRCh37"	"X"	46812488	46812488	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-11-31797C>T"	""	""	"ENST00000218343"	""	58	"52"	6	29	"29"	0	"JADE3,intron_variant,,ENST00000218343,NM_014735.3;JADE3,intron_variant,,ENST00000397189,NM_001077445.1;JADE3,intron_variant,,ENST00000424392,;JADE3,intron_variant,,ENST00000455411,;"	"T"	"ENSG00000102221"	"ENST00000218343"	"Transcript"	"intron_variant"	"-/4931"	"-/2472"	"-/823"	""	""	""	"1"	NA	1	"JADE3"	"HGNC"	22982	"protein_coding"	"YES"	"CCDS14271.1"	"ENSP00000218343"	"Q92613"	"F2Z3N8,F2Z2B6"	"UPI0000073DE6"	"NM_014735.3"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c4801a98-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"12396"	"JADE3"	9767	"mskcc.org"	"GRCh37"	"X"	46812490	46812490	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-11-31795G>A"	""	""	"ENST00000218343"	""	58	"53"	5	29	"29"	0	"JADE3,intron_variant,,ENST00000218343,NM_014735.3;JADE3,intron_variant,,ENST00000397189,NM_001077445.1;JADE3,intron_variant,,ENST00000424392,;JADE3,intron_variant,,ENST00000455411,;"	"A"	"ENSG00000102221"	"ENST00000218343"	"Transcript"	"intron_variant"	"-/4931"	"-/2472"	"-/823"	""	""	""	"1"	NA	1	"JADE3"	"HGNC"	22982	"protein_coding"	"YES"	"CCDS14271.1"	"ENSP00000218343"	"Q92613"	"F2Z3N8,F2Z2B6"	"UPI0000073DE6"	"NM_014735.3"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c4801b74-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0862068965517241	"WGS"	FALSE
"12397"	"TBC1D25"	4943	"mskcc.org"	"GRCh37"	"X"	48394942	48394942	"+"	"5'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000376771"	""	44	"16"	28	33	"33"	0	"TBC1D25,upstream_gene_variant,,ENST00000376771,NM_002536.2;TBC1D25,upstream_gene_variant,,ENST00000537536,;TBC1D25,upstream_gene_variant,,ENST00000418627,;TBC1D25,upstream_gene_variant,,ENST00000476141,;TBC1D25,upstream_gene_variant,,ENST00000494495,;TBC1D25,upstream_gene_variant,,ENST00000481090,;"	"A"	"ENSG00000068354"	"ENST00000376771"	"Transcript"	"upstream_gene_variant"	"-/4042"	"-/2067"	"-/688"	""	""	""	"1"	"2903"	1	"TBC1D25"	"HGNC"	8092	"protein_coding"	"YES"	"CCDS35242.1"	"ENSP00000365962"	"Q3MII6"	"B4DF03,B4DE92"	"UPI0000160685"	"NM_002536.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c48059ea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.636363636363636	"WGS"	FALSE
"12398"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	48734516	48734516	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"36"	6	20	"20"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"c4806ebc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"12399"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	53527395	53527395	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"36"	6	18	"18"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"c480cf56-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"12400"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	53730436	53730436	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"34"	4	27	"27"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c480dc9e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"12401"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	55241310	55241310	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"25"	24	21	"21"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c481111e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.489795918367347	"WGS"	FALSE
"12402"	"RP13-188A5.1"	0	"mskcc.org"	"GRCh37"	"X"	56025718	56025718	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.679-15560A>T"	""	""	"ENST00000452532"	""	22	"19"	3	21	"21"	0	"RP13-188A5.1,intron_variant,,ENST00000452532,;"	"T"	"ENSG00000227486"	"ENST00000452532"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1007"	""	""	""	""	""	"1"	NA	1	"RP13-188A5.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c4811b00-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"12403"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	58002133	58002133	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	44	"19"	25	38	"38"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c4813130-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.568181818181818	"WGS"	FALSE
"12404"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	58002134	58002134	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	45	"20"	25	36	"36"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c481320c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.555555555555556	"WGS"	FALSE
"12405"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	63824683	63824683	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	43	"39"	4	26	"26"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c482d47c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"12406"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	65008810	65008810	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	45	"15"	30	21	"21"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c482f0a6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WGS"	FALSE
"12407"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	69332567	69332567	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	48	"22"	26	35	"35"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c4834060-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.541666666666667	"WGS"	FALSE
"12408"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	70257498	70257498	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	36	"32"	4	21	"21"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c4836612-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"12409"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	70482767	70482767	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	36	"32"	4	16	"16"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"c4837224-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"12410"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	70482768	70482768	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	36	"30"	6	18	"18"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c4837300-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"12411"	"NHSL2"	340527	"mskcc.org"	"GRCh37"	"X"	71252225	71252225	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.281-99704A>C"	""	""	"ENST00000540800"	""	39	"34"	5	22	"22"	0	"NHSL2,intron_variant,,ENST00000540800,NM_001013627.2;"	"C"	"ENSG00000204131"	"ENST00000540800"	"Transcript"	"intron_variant"	"-/3678"	"-/3678"	"-/1225"	""	""	""	"1"	NA	1	"NHSL2"	"HGNC"	33737	"protein_coding"	"YES"	""	"ENSP00000444617"	""	"F5H593"	"UPI0001B09231"	"NM_001013627.2"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c4838ea8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128205128205128	"WGS"	FALSE
"12412"	"NHSL2"	340527	"mskcc.org"	"GRCh37"	"X"	71330291	71330291	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.281-21638G>A"	""	""	"ENST00000540800"	""	43	"13"	30	31	"31"	0	"NHSL2,intron_variant,,ENST00000540800,NM_001013627.2;"	"A"	"ENSG00000204131"	"ENST00000540800"	"Transcript"	"intron_variant"	"-/3678"	"-/3678"	"-/1225"	""	""	""	"1"	NA	1	"NHSL2"	"HGNC"	33737	"protein_coding"	"YES"	""	"ENSP00000444617"	""	"F5H593"	"UPI0001B09231"	"NM_001013627.2"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c4839060-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.697674418604651	"WGS"	FALSE
"12413"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	72279675	72279675	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"34"	4	23	"23"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c483a5fa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"12414"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	72279709	72279709	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	39	"35"	4	31	"31"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c483a6ea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"12415"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	75901490	75901490	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	50	"44"	6	35	"35"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c483f6fe-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"12416"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	76751822	76751822	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	55	"51"	4	21	"21"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c48402d4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0727272727272727	"WGS"	FALSE
"12417"	"ATRX"	546	"mskcc.org"	"GRCh37"	"X"	76998440	76998440	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.21-25720G>A"	""	""	"ENST00000373344"	""	34	"10"	24	24	"24"	0	"ATRX,intron_variant,,ENST00000373344,NM_000489.3;ATRX,intron_variant,,ENST00000395603,NM_138270.2;ATRX,intron_variant,,ENST00000480283,;"	"T"	"ENSG00000085224"	"ENST00000373344"	"Transcript"	"intron_variant"	"-/11167"	"-/7479"	"-/2492"	""	""	""	"1"	NA	-1	"ATRX"	"HGNC"	886	"protein_coding"	"YES"	"CCDS14434.1"	"ENSP00000362441"	"P46100"	"B4DLE1"	"UPI0000161F78"	"NM_000489.3"	""	""	""	"1/34"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"c48407fc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.705882352941177	"WGS"	TRUE
"12418"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	79102467	79102467	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"17"	24	22	"22"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c4842412-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.585365853658537	"WGS"	FALSE
"12419"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	79211422	79211422	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"42"	5	22	"22"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c484278c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106382978723404	"WGS"	FALSE
"12420"	"FAM46D"	169966	"mskcc.org"	"GRCh37"	"X"	79648829	79648829	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-141-45280A>T"	""	""	"ENST00000538312"	""	38	"14"	24	20	"20"	0	"FAM46D,intron_variant,,ENST00000538312,NM_001170574.1;"	"T"	"ENSG00000174016"	"ENST00000538312"	"Transcript"	"intron_variant"	"-/3106"	"-/1170"	"-/389"	""	""	""	"1"	NA	1	"FAM46D"	"HGNC"	28399	"protein_coding"	"YES"	"CCDS14446.1"	"ENSP00000443410"	"Q8NEK8"	""	"UPI0000073CF3"	"NM_001170574.1"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"c4842be2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.631578947368421	"WGS"	FALSE
"12421"	"RPS6KA6"	27330	"mskcc.org"	"GRCh37"	"X"	83349567	83349567	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1971+1635C>G"	""	""	"ENST00000262752"	""	36	"32"	4	23	"23"	0	"RPS6KA6,intron_variant,,ENST00000262752,NM_014496.4;RPS6KA6,intron_variant,,ENST00000543399,;RPS6KA6,downstream_gene_variant,,ENST00000495332,;"	"C"	"ENSG00000072133"	"ENST00000262752"	"Transcript"	"intron_variant"	"-/2547"	"-/2238"	"-/745"	""	""	""	"1"	NA	-1	"RPS6KA6"	"HGNC"	10435	"protein_coding"	"YES"	"CCDS14451.1"	"ENSP00000262752"	"Q9UK32"	""	"UPI0000035B52"	"NM_014496.4"	""	""	""	"20/21"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c4845b08-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"12422"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	84990264	84990264	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	44	"18"	26	24	"24"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c4846aa8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.590909090909091	"WGS"	FALSE
"12423"	"KLHL4"	56062	"mskcc.org"	"GRCh37"	"X"	86799630	86799630	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.422+26312G>T"	""	""	"ENST00000373114"	""	48	"19"	29	46	"46"	0	"KLHL4,intron_variant,,ENST00000373119,NM_019117.4;KLHL4,intron_variant,,ENST00000373114,NM_057162.2;"	"T"	"ENSG00000102271"	"ENST00000373114"	"Transcript"	"intron_variant"	"-/2445"	"-/2163"	"-/720"	""	""	""	"1"	NA	1	"KLHL4"	"HGNC"	6355	"protein_coding"	"YES"	"CCDS14456.1"	"ENSP00000362206"	"Q9C0H6"	""	"UPI000002ACC4"	"NM_057162.2"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c4848218-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.604166666666667	"WGS"	FALSE
"12424"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	87044260	87044260	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"44"	7	28	"28"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c4848664-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137254901960784	"WGS"	FALSE
"12425"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	87397338	87397338	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	50	"20"	30	36	"36"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c4848c54-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WGS"	FALSE
"12426"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	87661874	87661874	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	43	"39"	4	36	"36"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"c4848ee8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"12427"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	88104369	88104369	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	44	"19"	25	38	"37"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c48496b8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.568181818181818	"WGS"	FALSE
"12428"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	89051895	89051895	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	27	"11"	16	31	"31"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"c484e3fc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.592592592592593	"WGS"	FALSE
"12429"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	89970298	89970298	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"27"	11	28	"28"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c484f66c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289473684210526	"WGS"	FALSE
"12430"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	92834628	92834628	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"41"	6	32	"32"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"c4852eac-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127659574468085	"WGS"	FALSE
"12431"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	93320944	93320944	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	37	"15"	22	21	"21"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c48535f0-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.594594594594595	"WGS"	FALSE
"12432"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	94572767	94572767	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"28"	23	27	"27"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c4853d34-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.450980392156863	"WGS"	FALSE
"12433"	"RP13-75G22.1"	0	"mskcc.org"	"GRCh37"	"X"	97167643	97167643	"+"	"3'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000448218"	""	45	"23"	22	27	"27"	0	"RP13-75G22.1,downstream_gene_variant,,ENST00000448218,;"	"G"	"ENSG00000237752"	"ENST00000448218"	"Transcript"	"downstream_gene_variant"	"-/1447"	""	""	""	""	""	"1"	"4555"	1	"RP13-75G22.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"c4855b48-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.488888888888889	"WGS"	FALSE
"12434"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	97802613	97802613	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"11"	27	23	"23"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c485655c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.710526315789474	"WGS"	FALSE
"12435"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	100201022	100201022	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	39	"35"	4	19	"19"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"c4858bea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"12436"	"TMEM35"	59353	"mskcc.org"	"GRCh37"	"X"	100340832	100340832	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.120+6721T>A"	""	""	"ENST00000372930"	""	52	"47"	5	29	"29"	0	"TMEM35,intron_variant,,ENST00000372930,NM_021637.2;TRMT2B-AS1,intron_variant,,ENST00000443801,;TMEM35,intron_variant,,ENST00000478351,;"	"A"	"ENSG00000126950"	"ENST00000372930"	"Transcript"	"intron_variant"	"-/2195"	"-/504"	"-/167"	""	""	""	"1"	NA	1	"TMEM35"	"HGNC"	25864	"protein_coding"	"YES"	"CCDS14478.1"	"ENSP00000362021"	"Q53FP2"	""	"UPI0000035FFB"	"NM_021637.2"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"c4859040-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0961538461538462	"WGS"	FALSE
"12437"	"IL1RAPL2"	26280	"mskcc.org"	"GRCh37"	"X"	103996425	103996425	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.82+92749T>A"	""	""	"ENST00000372582"	""	45	"13"	32	26	"26"	0	"IL1RAPL2,intron_variant,,ENST00000372582,NM_017416.1;IL1RAPL2,intron_variant,,ENST00000344799,;"	"A"	"ENSG00000189108"	"ENST00000372582"	"Transcript"	"intron_variant"	"-/2985"	"-/2061"	"-/686"	""	""	""	"1"	NA	1	"IL1RAPL2"	"HGNC"	5997	"protein_coding"	"YES"	"CCDS14517.1"	"ENSP00000361663"	"Q9NP60"	""	"UPI0000073DF7"	"NM_017416.1"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c485e36a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.711111111111111	"WGS"	FALSE
"12438"	"IL1RAPL2"	26280	"mskcc.org"	"GRCh37"	"X"	104729898	104729898	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.772+1519C>T"	""	""	"ENST00000372582"	""	52	"37"	15	27	"27"	0	"IL1RAPL2,intron_variant,,ENST00000372582,NM_017416.1;IL1RAPL2,intron_variant,,ENST00000344799,;"	"T"	"ENSG00000189108"	"ENST00000372582"	"Transcript"	"intron_variant"	"-/2985"	"-/2061"	"-/686"	""	""	""	"1"	NA	1	"IL1RAPL2"	"HGNC"	5997	"protein_coding"	"YES"	"CCDS14517.1"	"ENSP00000361663"	"Q9NP60"	""	"UPI0000073DF7"	"NM_017416.1"	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c485fe0e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288461538461538	"WGS"	FALSE
"12439"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	106646477	106646477	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"18"	36	33	"33"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c48626ea-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WGS"	FALSE
"12440"	"PAK3"	5063	"mskcc.org"	"GRCh37"	"X"	110321023	110321023	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-27-45282G>A"	""	""	"ENST00000446737"	""	46	"40"	6	36	"36"	0	"PAK3,intron_variant,,ENST00000446737,NM_001128166.1;PAK3,intron_variant,,ENST00000425146,NM_001128167.1;"	"A"	"ENSG00000077264"	"ENST00000446737"	"Transcript"	"intron_variant"	"-/2550"	"-/1635"	"-/544"	""	""	""	"1"	NA	1	"PAK3"	"HGNC"	8592	"protein_coding"	""	"CCDS14554.1"	"ENSP00000410853"	"O75914"	""	"UPI0000131224"	"NM_001128166.1"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGA"	"c48660e2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"12441"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	110528330	110528330	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"35"	6	26	"26"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c4866380-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146341463414634	"WGS"	FALSE
"12442"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	110820157	110820157	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	24	"18"	6	16	"16"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c48667d6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"12443"	"RP5-964N17.1"	0	"mskcc.org"	"GRCh37"	"X"	112889902	112889902	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.27-28462G>A"	""	""	"ENST00000468762"	""	39	"16"	23	18	"18"	0	"RP5-964N17.1,intron_variant,,ENST00000468762,;"	"T"	"ENSG00000241743"	"ENST00000468762"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/497"	""	""	""	""	""	"1"	NA	-1	"RP5-964N17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"c4869030-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.58974358974359	"WGS"	FALSE
"12444"	"HTR2C"	3358	"mskcc.org"	"GRCh37"	"X"	113987079	113987079	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349+21063A>G"	""	""	"ENST00000276198"	""	33	"28"	5	25	"25"	0	"HTR2C,intron_variant,,ENST00000276198,NM_000868.2;HTR2C,intron_variant,,ENST00000371950,NM_001256761.1;HTR2C,intron_variant,,ENST00000371951,NM_001256760.1;"	"G"	"ENSG00000147246"	"ENST00000276198"	"Transcript"	"intron_variant"	"-/4751"	"-/1377"	"-/458"	""	""	""	"1"	NA	1	"HTR2C"	"HGNC"	5295	"protein_coding"	"YES"	"CCDS14564.1"	"ENSP00000276198"	"P28335"	"B3VRF0,B3VRE5,B3VRE0"	"UPI000000126F"	"NM_000868.2"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"c486a412-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151515151515152	"WGS"	FALSE
"12445"	"ASS1P5"	0	"mskcc.org"	"GRCh37"	"X"	114895929	114895929	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000435496"	""	46	"42"	4	20	"20"	0	"ASS1P5,upstream_gene_variant,,ENST00000435496,;RP1-241P17.7,downstream_gene_variant,,ENST00000605468,;"	"A"	"ENSG00000227881"	"ENST00000435496"	"Transcript"	"upstream_gene_variant"	"-/1239"	""	""	""	""	""	"1"	"3286"	1	"ASS1P5"	"HGNC"	768	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c486ca28-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"12446"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	120759639	120759639	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"41"	10	30	"30"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"c487862a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196078431372549	"WGS"	FALSE
"12447"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	122940438	122940438	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	43	"37"	6	16	"16"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c487a344-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"12448"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	123079790	123079790	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"21"	5	25	"25"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"c487a9b6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WGS"	FALSE
"12449"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	125159385	125159385	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	48	"20"	28	30	"30"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"c487d86e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WGS"	FALSE
"12450"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	125324254	125324254	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"19"	28	31	"31"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c487d94a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.595744680851064	"WGS"	FALSE
"12451"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	127084449	127084449	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	32	"29"	3	37	"37"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c487f33a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"12452"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	128010412	128010412	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"26"	21	33	"32"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"c488051e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.446808510638298	"WGS"	FALSE
"12453"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	131033690	131033690	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	24	"13"	11	26	"26"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"c4885f3c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.458333333333333	"WGS"	FALSE
"12454"	"FAM122C"	159091	"mskcc.org"	"GRCh37"	"X"	133973377	133973377	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.247-5858A>G"	""	""	"ENST00000370784"	""	24	"20"	4	16	"16"	0	"FAM122C,5_prime_UTR_variant,,ENST00000445123,;FAM122C,intron_variant,,ENST00000370784,NM_001170779.1;FAM122C,intron_variant,,ENST00000370785,NM_138819.3;FAM122C,non_coding_transcript_exon_variant,,ENST00000460216,;FAM122C,intron_variant,,ENST00000470657,;"	"G"	"ENSG00000156500"	"ENST00000370784"	"Transcript"	"intron_variant"	"-/1368"	"-/588"	"-/195"	""	""	""	"1"	NA	1	"FAM122C"	"HGNC"	25202	"protein_coding"	"YES"	"CCDS55501.1"	"ENSP00000359820"	"Q6P4D5"	""	"UPI0000227E33"	"NM_001170779.1"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"c4888ec6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"12455"	"RP11-308D16.4"	0	"mskcc.org"	"GRCh37"	"X"	136008532	136008532	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2052+994T>C"	""	""	"ENST00000424306"	""	43	"38"	5	21	"21"	0	"RP11-308D16.4,intron_variant,,ENST00000424306,;RP11-308D16.4,intron_variant,,ENST00000431464,;"	"C"	"ENSG00000234062"	"ENST00000424306"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2222"	""	""	""	""	""	"1"	NA	1	"RP11-308D16.4"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c488bc16-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116279069767442	"WGS"	FALSE
"12456"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	136800263	136800263	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"38"	4	19	"19"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c488cdfa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"12457"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	138403197	138403197	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs761710283"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	33	"29"	4	16	"16"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs761710283"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0003"	"A:0"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"c488dfa2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"12458"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	139083097	139083097	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"26"	30	27	"27"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"c488e6aa-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.535714285714286	"WGS"	FALSE
"12459"	"MAGEC3"	139081	"mskcc.org"	"GRCh37"	"X"	140956605	140956605	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.258+3214C>T"	""	""	"ENST00000298296"	""	48	"18"	30	36	"36"	0	"MAGEC3,intron_variant,,ENST00000298296,NM_138702.1;"	"T"	"ENSG00000165509"	"ENST00000298296"	"Transcript"	"intron_variant"	"-/1932"	"-/1932"	"-/643"	""	""	""	"1"	NA	1	"MAGEC3"	"HGNC"	23798	"protein_coding"	"YES"	"CCDS14676.1"	"ENSP00000298296"	"Q8TD91"	""	"UPI000006E09B"	"NM_138702.1"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c48911e8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WGS"	FALSE
"12460"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	147468279	147468279	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	45	"17"	28	19	"19"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c489a568-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.622222222222222	"WGS"	FALSE
"12461"	"HMGB3"	3149	"mskcc.org"	"GRCh37"	"X"	150147532	150147532	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000325307"	""	45	"38"	7	21	"21"	0	"HMGB3,upstream_gene_variant,,ENST00000325307,NM_005342.2;HMGB3,upstream_gene_variant,,ENST00000448905,;HMGB3,upstream_gene_variant,,ENST00000455596,;HMGB3,upstream_gene_variant,,ENST00000419110,;"	"C"	"ENSG00000029993"	"ENST00000325307"	"Transcript"	"upstream_gene_variant"	"-/3560"	"-/603"	"-/200"	""	""	""	"1"	"4227"	1	"HMGB3"	"HGNC"	5004	"protein_coding"	"YES"	"CCDS35428.1"	"ENSP00000359393"	"O15347"	"E9PES6,E7ES08,E7EQU1"	"UPI00000362ED"	"NM_005342.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"c489cafc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155555555555556	"WGS"	FALSE
"12462"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	150471407	150471407	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"19"	32	20	"20"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c489cf52-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.627450980392157	"WGS"	FALSE
"12463"	"RP11-1007I13.4"	0	"mskcc.org"	"GRCh37"	"X"	151286938	151286938	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.173-2699T>G"	""	""	"ENST00000509345"	""	45	"41"	4	20	"20"	0	"RP11-1007I13.4,intron_variant,,ENST00000509345,;RP11-1007I13.4,intron_variant,,ENST00000583636,;MAGEA5,upstream_gene_variant,,ENST00000427663,;MAGEA5,upstream_gene_variant,,ENST00000446757,;"	"C"	"ENSG00000266560"	"ENST00000509345"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/871"	""	""	""	""	""	"1"	NA	-1	"RP11-1007I13.4"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c489dc4a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"12464"	"RP1-14D6.2"	0	"mskcc.org"	"GRCh37"	"X"	151853599	151853599	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000435583"	""	22	"6"	16	16	"16"	0	"RP1-14D6.2,downstream_gene_variant,,ENST00000435583,;"	"A"	"ENSG00000234454"	"ENST00000435583"	"Transcript"	"downstream_gene_variant"	"-/817"	""	""	""	""	""	"1"	"1296"	1	"RP1-14D6.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"c489e492-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.727272727272727	"WGS"	FALSE
"12465"	"FLNA"	2316	"mskcc.org"	"GRCh37"	"X"	153604215	153604215	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000369850"	""	32	"24"	8	6	"6"	0	"FLNA,upstream_gene_variant,,ENST00000422373,NM_001456.3;FLNA,upstream_gene_variant,,ENST00000369850,NM_001110556.1;FLNA,upstream_gene_variant,,ENST00000360319,;FLNA,upstream_gene_variant,,ENST00000344736,;EMD,upstream_gene_variant,,ENST00000369842,NM_000117.2;EMD,upstream_gene_variant,,ENST00000369835,;EMD,upstream_gene_variant,,ENST00000492448,;FLNA,upstream_gene_variant,,ENST00000420627,;EMD,upstream_gene_variant,,ENST00000486738,;EMD,upstream_gene_variant,,ENST00000428228,;EMD,upstream_gene_variant,,ENST00000471965,;EMD,upstream_gene_variant,,ENST00000485261,;EMD,upstream_gene_variant,,ENST00000494443,;EMD,upstream_gene_variant,,ENST00000468294,;"	"G"	"ENSG00000196924"	"ENST00000369850"	"Transcript"	"upstream_gene_variant"	"-/8382"	"-/7944"	"-/2647"	""	""	""	"1"	"1221"	-1	"FLNA"	"HGNC"	3754	"protein_coding"	"YES"	"CCDS48194.1"	"ENSP00000358866"	"P21333"	"Q96C61,Q86TQ3,Q6NXF2,Q60FE5"	"UPI000013C596"	"NM_001110556.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAC"	"c48a072e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"12466"	"FAM50A"	9130	"mskcc.org"	"GRCh37"	"X"	153680845	153680845	"+"	"3'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000393600"	""	44	"16"	28	35	"35"	0	"FAM50A,downstream_gene_variant,,ENST00000393600,NM_004699.3;FAM50A,downstream_gene_variant,,ENST00000158526,;FAM50A,downstream_gene_variant,,ENST00000464419,;FAM50A,downstream_gene_variant,,ENST00000481619,;FAM50A,downstream_gene_variant,,ENST00000478509,;FAM50A,downstream_gene_variant,,ENST00000494278,;"	"T"	"ENSG00000071859"	"ENST00000393600"	"Transcript"	"downstream_gene_variant"	"-/1352"	"-/1020"	"-/339"	""	""	""	"1"	"1843"	1	"FAM50A"	"HGNC"	18786	"protein_coding"	"YES"	"CCDS14751.1"	"ENSP00000377225"	"Q14320"	"Q6PJH5,B0S8I6"	"UPI0000138FCD"	"NM_004699.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c48a112e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.636363636363636	"WGS"	FALSE
"12467"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	3780849	3780849	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	40	"16"	24	28	"27"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c48a8532-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WGS"	FALSE
"12468"	"EIF4A1P2"	0	"mskcc.org"	"GRCh37"	"Y"	5211444	5211444	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000422633"	""	27	"23"	4	19	"19"	0	"PCDH11Y,intron_variant,,ENST00000400457,NM_032973.2;PCDH11Y,intron_variant,,ENST00000215473,;EIF4A1P2,upstream_gene_variant,,ENST00000422633,;EIF4A1P2,upstream_gene_variant,,ENST00000545933,;"	"A"	"ENSG00000235001"	"ENST00000422633"	"Transcript"	"upstream_gene_variant"	"-/1220"	""	""	""	""	""	"1"	"4439"	-1	"EIF4A1P2"	"HGNC"	23946	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"c48aaa8a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"12469"	"PCDH11Y"	83259	"mskcc.org"	"GRCh37"	"Y"	5319286	5319286	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3065-49812A>T"	""	""	"ENST00000400457"	""	43	"36"	7	32	"32"	0	"PCDH11Y,intron_variant,,ENST00000400457,NM_032973.2;PCDH11Y,intron_variant,,ENST00000215473,;"	"T"	"ENSG00000099715"	"ENST00000400457"	"Transcript"	"intron_variant"	"-/8240"	"-/3960"	"-/1319"	""	""	""	"1"	NA	1	"PCDH11Y"	"HGNC"	15813	"protein_coding"	""	""	"ENSP00000383306"	""	"Q70LR5,Q70LR4"	"UPI000059DC01"	"NM_032973.2"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"c48ab066-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162790697674419	"WGS"	FALSE
"12470"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	5795191	5795191	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	50	"46"	4	19	"19"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"c48ac68c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"12471"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	5843321	5843321	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"36"	6	29	"29"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"c48acae2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"12472"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	8545948	8545948	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"37"	5	31	"31"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c48b2a6e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"12473"	"DUX4L18"	0	"mskcc.org"	"GRCh37"	"Y"	13481503	13481503	"+"	"3'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000553347"	""	45	"41"	4	35	"35"	0	"DUX4L18,downstream_gene_variant,,ENST00000553347,;"	"G"	"ENSG00000259029"	"ENST00000553347"	"Transcript"	"downstream_gene_variant"	"-/1267"	""	""	""	""	""	"1"	"3004"	1	"DUX4L18"	"HGNC"	37716	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"c48faf80-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"12474"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	13837612	13837612	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"rs374268825"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	36	"30"	6	32	"32"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs374268825"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"c493e92e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"12475"	"RCC2P1"	0	"mskcc.org"	"GRCh37"	"Y"	13907609	13907609	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000452257"	""	40	"32"	8	27	"27"	0	"RCC2P1,upstream_gene_variant,,ENST00000452257,;"	"T"	"ENSG00000234385"	"ENST00000452257"	"Transcript"	"upstream_gene_variant"	"-/1476"	""	""	""	""	""	"1"	"4376"	-1	"RCC2P1"	"HGNC"	37710	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c49415b6-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"12476"	"HDHD1P1"	0	"mskcc.org"	"GRCh37"	"Y"	17466724	17466724	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.291-5978T>A"	""	""	"ENST00000421058"	""	34	"28"	6	16	"16"	0	"HDHD1P1,intron_variant,,ENST00000421058,;"	"T"	"ENSG00000234620"	"ENST00000421058"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/495"	""	""	""	""	""	"1"	NA	-1	"HDHD1P1"	"HGNC"	20200	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"c4944ff4-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"12477"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22077415	22077415	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	48	"41"	7	27	"27"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"c494774a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145833333333333	"WGS"	FALSE
"12478"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22234211	22234211	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	21	"17"	4	8	"8"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"c4949130-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"12479"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22246962	22246962	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"rs375441741"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	37	"32"	5	14	"14"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs375441741"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"c4949f7c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135135135135135	"WGS"	FALSE
"12480"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22256141	22256141	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	44	"39"	5	26	"26"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"c494a81e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WGS"	FALSE
"12481"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22288071	22288071	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	44	"40"	4	27	"27"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"c494c9f2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"12482"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22430161	22430161	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	30	"26"	4	27	"27"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"c49513ee-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"12483"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22435338	22435338	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	10	"4"	6	8	"8"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"c4951a4c-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WGS"	FALSE
"12484"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22471482	22471482	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"37"	5	16	"16"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"c4957992-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"12485"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22489020	22489020	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	25	"18"	7	11	"11"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"c4959ecc-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"12486"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	23133596	23133596	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	40	"14"	26	20	"20"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c49615d2-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.65	"WGS"	FALSE
"12487"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	25231405	25231405	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"36"	5	20	"20"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"c4961e1a-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WGS"	FALSE
"12488"	"ANKRD36P1"	0	"mskcc.org"	"GRCh37"	"Y"	28554625	28554625	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000344424"	""	23	"13"	10	19	"19"	0	"ANKRD36P1,upstream_gene_variant,,ENST00000344424,;"	"T"	"ENSG00000188399"	"ENST00000344424"	"Transcript"	"upstream_gene_variant"	"-/659"	""	""	""	""	""	"1"	"1337"	1	"ANKRD36P1"	"HGNC"	37759	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c4963aa8-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.434782608695652	"WGS"	FALSE
"12489"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	58990168	58990168	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"37"	4	28	"28"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"c49d2638-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WGS"	FALSE
"12490"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	58990883	58990883	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"rs375534094"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"69"	7	42	"42"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs375534094"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	""	""	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	""	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"c49d285e-0958-11e6-b1a0-c2d8dff80e40"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"12491"	"CLDN19"	149461	"mskcc.org"	"GRCh37"	"1"	43195089	43195095	"+"	"3'Flank"	"DEL"	"AAAAAAA"	"AAAAAAA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AAAAAAA"	"AAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000296387"	""	49	"."	7	24	"."	0	"CLDN19,downstream_gene_variant,,ENST00000539749,NM_001185117.1;CLDN19,downstream_gene_variant,,ENST00000296387,NM_001123395.1,NM_148960.2;"	"-"	"ENSG00000164007"	"ENST00000296387"	"Transcript"	"downstream_gene_variant"	"-/2859"	"-/675"	"-/224"	""	""	""	"1"	"3669"	-1	"CLDN19"	"HGNC"	2040	"protein_coding"	"YES"	"CCDS471.1"	"ENSP00000296387"	"Q8N6F1"	""	"UPI000013E32D"	"NM_001123395.1,NM_148960.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCAAAAAAAA"	"893a17ac-06fd-11e6-8f73-e5193d393f3a"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"12492"	"INADL"	10207	"mskcc.org"	"GRCh37"	"1"	62571808	62571809	"+"	"Intron"	"INS"	"-"	"-"	"TATATACATG"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4378-2300_4378-2299insATATACATGT"	""	""	"ENST00000371158"	""	67	"."	5	31	"."	0	"INADL,intron_variant,,ENST00000371158,NM_176877.2;INADL,intron_variant,,ENST00000316485,;INADL,intron_variant,,ENST00000543708,;INADL,intron_variant,,ENST00000545929,;INADL,intron_variant,,ENST00000484562,;INADL,intron_variant,,ENST00000459752,;INADL,intron_variant,,ENST00000484937,;"	"TATATACATG"	"ENSG00000132849"	"ENST00000371158"	"Transcript"	"intron_variant"	"-/8505"	"-/5406"	"-/1801"	""	""	""	"1"	NA	1	"INADL"	"HGNC"	28881	"protein_coding"	"YES"	"CCDS617.2"	"ENSP00000360200"	"Q8NI35"	""	"UPI0000204487"	"NM_176877.2"	NA	NA	""	"33/42"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"433d507c-0705-11e6-8f73-e5193d393f3a"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0746268656716418	"WGS"	FALSE
"12493"	"RP4-788P17.1"	0	"mskcc.org"	"GRCh37"	"1"	74112542	74112542	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.26+11622delA"	""	""	"ENST00000424953"	""	91	"."	25	57	"."	0	"RP4-788P17.1,intron_variant,,ENST00000424953,;"	"-"	"ENSG00000223479"	"ENST00000424953"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/557"	""	""	""	""	""	"1"	NA	1	"RP4-788P17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAA"	"3406f506-06fe-11e6-8f73-e5193d393f3a"	"1500"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274725274725275	"WGS"	FALSE
"12494"	"BCAR3"	8412	"mskcc.org"	"GRCh37"	"1"	94312542	94312582	"+"	"Intron"	"DEL"	"GCGCGCAGGTCCAGCCGCGGCTGGGTCGGGCGCGGCGGCCG"	"GCGCGCAGGTCCAGCCGCGGCTGGGTCGGGCGCGGCGGCCG"	"CGCCGCAGGTCCAGGCCGCCGGCCGGTCCGGGC"	"novel"	NA	"JHRCC350"	"W0006120F"	"GCGCGCAGGTCCAGCCGCGGCTGGGTCGGGCGCGGCGGCCG"	"GCGCGCAGGTCCAGCCGCGGCTGGGTCGGGCGCGGCGGCCG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-209+44_-209+84delCGGCCGCCGCGCCCGACCCAGCCGCGGCTGGACCTGCGCGCinsGCCCGGACCGGCCGGCGGCCTGGACCTGCGGCG"	""	""	"ENST00000370244"	""	31	"."	5	13	"."	0	"BCAR3,intron_variant,,ENST00000370244,NM_001261408.1;RP4-561L24.3,upstream_gene_variant,,ENST00000565336,;MIR760,downstream_gene_variant,,ENST00000390220,;BCAR3,upstream_gene_variant,,ENST00000469315,;"	"CGCCGCAGGTCCAGGCCGCCGGCCGGTCCGGGC"	"ENSG00000137936"	"ENST00000370244"	"Transcript"	"intron_variant"	"-/3217"	"-/2478"	"-/825"	""	""	""	"1"	NA	-1	"BCAR3"	"HGNC"	973	"protein_coding"	"YES"	"CCDS745.1"	"ENSP00000359264"	"O75815"	"B3KNL6"	"UPI000000D971"	"NM_001261408.1"	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCGCGCGCAGGTCCAGCCGCGGCTGGGTCGGGCGCGGCGGCCGG"	"de77d736-0702-11e6-8f73-e5193d393f3a"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161290322580645	"WGS"	FALSE
"12495"	"RP11-153F1.1"	101928436	"mskcc.org"	"GRCh37"	"1"	104015735	104015737	"+"	"Intron"	"DEL"	"ATT"	"ATT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"ATT"	"ATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.89-40019_89-40017delAAT"	""	""	"ENST00000444810"	""	85	"."	17	61	"."	0	"RP11-153F1.1,intron_variant,,ENST00000444810,;RP11-153F1.1,intron_variant,,ENST00000447322,;"	"-"	"ENSG00000224613"	"ENST00000444810"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/527"	""	""	""	""	""	"1"	NA	-1	"RP11-153F1.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGATTA"	"dc6a43e2-06fe-11e6-8f73-e5193d393f3a"	"1020"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"12496"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	106181275	106181291	"+"	"IGR"	"DEL"	"AGACAAGGAGATGCGAT"	"AGACAAGGAGATGCGAT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AGACAAGGAGATGCGAT"	"AGACAAGGAGATGCGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"."	14	62	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAAGACAAGGAGATGCGATG"	"ed3267a4-06fe-11e6-8f73-e5193d393f3a"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177215189873418	"WGS"	FALSE
"12497"	"THEM4"	117145	"mskcc.org"	"GRCh37"	"1"	151846127	151846127	"+"	"3'UTR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1237delA"	""	""	"ENST00000368814"	"6/6"	94	"."	19	54	"."	0	"THEM4,3_prime_UTR_variant,,ENST00000368814,NM_053055.4;THEM4,downstream_gene_variant,,ENST00000477437,;THEM4,downstream_gene_variant,,ENST00000483207,;THEM4,downstream_gene_variant,,ENST00000471464,;"	"-"	"ENSG00000159445"	"ENST00000368814"	"Transcript"	"3_prime_UTR_variant"	"2310/2377"	"-/723"	"-/240"	""	""	""	"1"	NA	-1	"THEM4"	"HGNC"	17947	"protein_coding"	"YES"	"CCDS1006.1"	"ENSP00000357804"	"Q5T1C6"	""	"UPI000045625A"	"NM_053055.4"	NA	NA	"6/6"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTC"	"25b00270-0700-11e6-8f73-e5193d393f3a"	"1140"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202127659574468	"WGS"	FALSE
"12498"	"THBS3"	7059	"mskcc.org"	"GRCh37"	"1"	155176652	155176653	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.80-456dupT"	""	""	"ENST00000368378"	""	83	"."	17	43	"."	0	"THBS3,intron_variant,,ENST00000368378,NM_007112.4,NM_001252607.1;THBS3,intron_variant,,ENST00000541990,;THBS3,intron_variant,,ENST00000457183,NM_001252608.1;THBS3,upstream_gene_variant,,ENST00000541576,;MTX1,upstream_gene_variant,,ENST00000368376,NM_002455.3;MTX1,upstream_gene_variant,,ENST00000316721,NM_198883.2;MTX1,upstream_gene_variant,,ENST00000609421,;RP11-263K19.4,downstream_gene_variant,,ENST00000453136,;RP11-263K19.4,downstream_gene_variant,,ENST00000430312,;RP11-263K19.6,downstream_gene_variant,,ENST00000455788,;RP11-263K19.4,downstream_gene_variant,,ENST00000422665,;THBS3,intron_variant,,ENST00000486260,;MTX1,upstream_gene_variant,,ENST00000495589,;THBS3,upstream_gene_variant,,ENST00000460050,;THBS3,intron_variant,,ENST00000428962,;MTX1,upstream_gene_variant,,ENST00000481771,;MTX1,upstream_gene_variant,,ENST00000424959,;THBS3,upstream_gene_variant,,ENST00000496332,;"	"A"	"ENSG00000169231"	"ENST00000368378"	"Transcript"	"intron_variant"	"-/3145"	"-/2871"	"-/956"	""	""	""	"1"	NA	-1	"THBS3"	"HGNC"	11787	"protein_coding"	"YES"	"CCDS1099.1"	"ENSP00000357362"	"P49746"	"Q2HIZ1,F5H4Z8,B3KQE1"	"UPI000013776E"	"NM_007112.4,NM_001252607.1"	NA	NA	""	"1/22"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"bc7ae33a-0707-11e6-8f73-e5193d393f3a"	"1020"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204819277108434	"WGS"	FALSE
"12499"	"NOS1AP"	9722	"mskcc.org"	"GRCh37"	"1"	162187057	162187058	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTTTTTTTT"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.177+62805_177+62806insTTTTTTTTTTTTTTT"	""	""	"ENST00000361897"	""	69	"."	5	59	"."	0	"NOS1AP,intron_variant,,ENST00000361897,NM_014697.2,NM_001164757.1;NOS1AP,intron_variant,,ENST00000530878,;NOS1AP,intron_variant,,ENST00000430120,;"	"TTTTTTTTTTTTTTT"	"ENSG00000198929"	"ENST00000361897"	"Transcript"	"intron_variant"	"-/4931"	"-/1521"	"-/506"	""	""	""	"1"	NA	1	"NOS1AP"	"HGNC"	16859	"protein_coding"	"YES"	"CCDS1237.1"	"ENSP00000355133"	"O75052"	"H7BY61,E9PIP8"	"UPI000019C573"	"NM_014697.2,NM_001164757.1"	NA	NA	""	"2/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"14"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"ee5131b6-0707-11e6-8f73-e5193d393f3a"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072463768115942	"WGS"	FALSE
"12500"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	163673350	163673351	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"."	12	54	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"fa1339fe-0707-11e6-8f73-e5193d393f3a"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"12501"	"PAPPA2"	60676	"mskcc.org"	"GRCh37"	"1"	176654398	176654406	"+"	"Intron"	"DEL"	"TAATCTTCA"	"TAATCTTCA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TAATCTTCA"	"TAATCTTCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2138-4874_2138-4866delAATCTTCAT"	""	""	"ENST00000367662"	""	79	"."	21	67	"."	0	"PAPPA2,intron_variant,,ENST00000367662,NM_020318.2;PAPPA2,intron_variant,,ENST00000367661,NM_021936.2;"	"-"	"ENSG00000116183"	"ENST00000367662"	"Transcript"	"intron_variant"	"-/9685"	"-/5376"	"-/1791"	""	""	""	"1"	NA	1	"PAPPA2"	"HGNC"	14615	"protein_coding"	"YES"	"CCDS41438.1"	"ENSP00000356634"	"Q9BXP8"	""	"UPI000004A835"	"NM_020318.2"	NA	NA	""	"4/22"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTAATCTTCAT"	"bd57dd96-0700-11e6-8f73-e5193d393f3a"	"1260"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265822784810127	"WGS"	FALSE
"12502"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	187692783	187692784	"+"	"IGR"	"INS"	"-"	"-"	"TT"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"."	9	59	"."	0	""	"TT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"90f24662-0708-11e6-8f73-e5193d393f3a"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109756097560976	"WGS"	FALSE
"12503"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	195745189	195745197	"+"	"IGR"	"DEL"	"TTTTATTAT"	"TTTTATTAT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TTTTATTAT"	"TTTTATTAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"."	11	61	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTTATTATT"	"25390f2a-0701-11e6-8f73-e5193d393f3a"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134146341463415	"WGS"	FALSE
"12504"	"RP4-781K5.6"	0	"mskcc.org"	"GRCh37"	"1"	234825489	234825490	"+"	"Intron"	"DEL"	"AA"	"AA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.96+6315_96+6316delTT"	""	""	"ENST00000442382"	""	96	"."	18	81	"."	0	"RP4-781K5.6,intron_variant,,ENST00000442382,;"	"-"	"ENSG00000230628"	"ENST00000442382"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3564"	""	""	""	""	""	"1"	NA	-1	"RP4-781K5.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAAA"	"0c93574a-0702-11e6-8f73-e5193d393f3a"	"1080"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"12505"	"RP11-69C17.4"	0	"mskcc.org"	"GRCh37"	"10"	2226054	2226054	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.289+3797delA"	""	""	"ENST00000418524"	""	90	"."	21	62	"."	0	"RP11-69C17.4,intron_variant,,ENST00000418524,;"	"-"	"ENSG00000231326"	"ENST00000418524"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/587"	""	""	""	""	""	"1"	NA	-1	"RP11-69C17.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"11dc065c-06fd-11e6-bfb7-b139fd994bc2"	"1260"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WGS"	FALSE
"12506"	"ZEB1"	6935	"mskcc.org"	"GRCh37"	"10"	31733440	31733797	"+"	"Intron"	"DEL"	"TGCCTAGGTTTTCTTCTAGGGTTTTTATGGTTTTAGGTCTAAAGTTTAAATCTTTAATCCATCTTGAATTGATTTTTGTATAAGGTGTAAGGAAGGGATCCAGTTTCAGCTTTCTACATATGGCTAGCCAGTTTTCCCAGCACCATTTGTTAAATAGGGAATCCTTTCCCCATTGCTTGTTTTTCTCAGGTTTGTCAAAGATCAGATAGTCGTAGGTATGCGGCGTTATTTCTGAGGGCTCTGTTCTGTTCCATTGATCTATATCTCTGTTTTGGTACCAGTACCATGCTGTTTTGGTTACTGTAGCCTTGTAGTATAGTTTGAAGTCAGGTAGTGTGATGCCTCCAGCTTTGTTCTT"	"TGCCTAGGTTTTCTTCTAGGGTTTTTATGGTTTTAGGTCTAAAGTTTAAATCTTTAATCCATCTTGAATTGATTTTTGTATAAGGTGTAAGGAAGGGATCCAGTTTCAGCTTTCTACATATGGCTAGCCAGTTTTCCCAGCACCATTTGTTAAATAGGGAATCCTTTCCCCATTGCTTGTTTTTCTCAGGTTTGTCAAAGATCAGATAGTCGTAGGTATGCGGCGTTATTTCTGAGGGCTCTGTTCTGTTCCATTGATCTATATCTCTGTTTTGGTACCAGTACCATGCTGTTTTGGTTACTGTAGCCTTGTAGTATAGTTTGAAGTCAGGTAGTGTGATGCCTCCAGCTTTGTTCTT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TGCCTAGGTTTTCTTCTAGGGTTTTTATGGTTTTAGGTCTAAAGTTTAAATCTTTAATCCATCTTGAATTGATTTTTGTATAAGGTGTAAGGAAGGGATCCAGTTTCAGCTTTCTACATATGGCTAGCCAGTTTTCCCAGCACCATTTGTTAAATAGGGAATCCTTTCCCCATTGCTTGTTTTTCTCAGGTTTGTCAAAGATCAGATAGTCGTAGGTATGCGGCGTTATTTCTGAGGGCTCTGTTCTGTTCCATTGATCTATATCTCTGTTTTGGTACCAGTACCATGCTGTTTTGGTTACTGTAGCCTTGTAGTATAGTTTGAAGTCAGGTAGTGTGATGCCTCCAGCTTTGTTCTT"	"TGCCTAGGTTTTCTTCTAGGGTTTTTATGGTTTTAGGTCTAAAGTTTAAATCTTTAATCCATCTTGAATTGATTTTTGTATAAGGTGTAAGGAAGGGATCCAGTTTCAGCTTTCTACATATGGCTAGCCAGTTTTCCCAGCACCATTTGTTAAATAGGGAATCCTTTCCCCATTGCTTGTTTTTCTCAGGTTTGTCAAAGATCAGATAGTCGTAGGTATGCGGCGTTATTTCTGAGGGCTCTGTTCTGTTCCATTGATCTATATCTCTGTTTTGGTACCAGTACCATGCTGTTTTGGTTACTGTAGCCTTGTAGTATAGTTTGAAGTCAGGTAGTGTGATGCCTCCAGCTTTGTTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.59-16525_59-16168delGCCTAGGTTTTCTTCTAGGGTTTTTATGGTTTTAGGTCTAAAGTTTAAATCTTTAATCCATCTTGAATTGATTTTTGTATAAGGTGTAAGGAAGGGATCCAGTTTCAGCTTTCTACATATGGCTAGCCAGTTTTCCCAGCACCATTTGTTAAATAGGGAATCCTTTCCCCATTGCTTGTTTTTCTCAGGTTTGTCAAAGATCAGATAGTCGTAGGTATGCGGCGTTATTTCTGAGGGCTCTGTTCTGTTCCATTGATCTATATCTCTGTTTTGGTACCAGTACCATGCTGTTTTGGTTACTGTAGCCTTGTAGTATAGTTTGAAGTCAGGTAGTGTGATGCCTCCAGCTTTGTTCTTT"	""	""	"ENST00000361642"	""	88	"."	6	50	"."	0	"ZEB1,intron_variant,,ENST00000446923,NM_001174094.1,NM_001128128.2;ZEB1,intron_variant,,ENST00000361642,NM_001174093.1,NM_001174095.1,NM_001174096.1,NM_030751.5;ZEB1,intron_variant,,ENST00000320985,;ZEB1,intron_variant,,ENST00000560721,;ZEB1,intron_variant,,ENST00000542815,;ZEB1,intron_variant,,ENST00000561212,;ZEB1,intron_variant,,ENST00000559476,;ZEB1,intron_variant,,ENST00000424869,;ZEB1,intron_variant,,ENST00000558440,;ZEB1,intron_variant,,ENST00000559858,;ZEB1,intron_variant,,ENST00000493835,;ZEB1,intron_variant,,ENST00000606671,;ZEB1,intron_variant,,ENST00000606161,;ZEB1,intron_variant,,ENST00000437844,;ZEB1,intron_variant,,ENST00000488625,;ZEB1,intron_variant,,ENST00000542879,;ZEB1,intron_variant,,ENST00000558655,;ZEB1,intron_variant,,ENST00000561304,;ZEB1,intron_variant,,ENST00000559496,;ZEB1,intron_variant,,ENST00000558863,;ZEB1,intron_variant,,ENST00000560196,;ZEB1,intron_variant,,ENST00000561061,;ZEB1,intron_variant,,ENST00000557827,;"	"-"	"ENSG00000148516"	"ENST00000361642"	"Transcript"	"intron_variant"	"-/5990"	"-/3378"	"-/1125"	""	""	""	"1"	NA	1	"ZEB1"	"HGNC"	11642	"protein_coding"	"YES"	"CCDS53505.1"	"ENSP00000354487"	"P37275"	"F6TDF5"	"UPI000068F51D"	"NM_001174093.1,NM_001174095.1,NM_001174096.1,NM_030751.5"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AATGCCTAGGTTTTCTTCTAGGGTTTTTATGGTTTTAGGTCTAAAGTTTAAATCTTTAATCCATCTTGAATTGATTTTTGTATAAGGTGTAAGGAAGGGATCCAGTTTCAGCTTTCTACATATGGCTAGCCAGTTTTCCCAGCACCATTTGTTAAATAGGGAATCCTTTCCCCATTGCTTGTTTTTCTCAGGTTTGTCAAAGATCAGATAGTCGTAGGTATGCGGCGTTATTTCTGAGGGCTCTGTTCTGTTCCATTGATCTATATCTCTGTTTTGGTACCAGTACCATGCTGTTTTGGTTACTGTAGCCTTGTAGTATAGTTTGAAGTCAGGTAGTGTGATGCCTCCAGCTTTGTTCTTT"	"bab65d04-06fd-11e6-bfb7-b139fd994bc2"	"36"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"12507"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	58882827	58882827	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"."	24	57	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"3dcc8a60-06fe-11e6-bfb7-b139fd994bc2"	"1440"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220183486238532	"WGS"	FALSE
"12508"	"CDH23"	64072	"mskcc.org"	"GRCh37"	"10"	73184627	73184627	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.131-14957delT"	""	""	"ENST00000299366"	""	81	"."	19	53	"."	0	"CDH23,intron_variant,,ENST00000299366,NM_001171931.1;CDH23,intron_variant,,ENST00000398809,NM_052836.3;CDH23,intron_variant,,ENST00000461841,;CDH23,intron_variant,,ENST00000398842,;"	"-"	"ENSG00000107736"	"ENST00000299366"	"Transcript"	"intron_variant"	"-/3954"	"-/3321"	"-/1106"	""	""	""	"1"	NA	1	"CDH23"	"HGNC"	13733	"protein_coding"	""	""	"ENSP00000299366"	""	"G3XCN8,Q8N5B3"	"UPI0002B83367"	"NM_001171931.1"	NA	NA	""	"1/25"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCTG"	"904d83d4-06fe-11e6-bfb7-b139fd994bc2"	"1140"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234567901234568	"WGS"	FALSE
"12509"	"NRG3"	10718	"mskcc.org"	"GRCh37"	"10"	84032005	84032006	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.824-86489dupT"	""	""	"ENST00000372141"	""	76	"."	6	44	"."	0	"NRG3,intron_variant,,ENST00000372142,NM_001165973.1;NRG3,intron_variant,,ENST00000404547,;NRG3,intron_variant,,ENST00000372141,NM_001165972.1,NM_001010848.3;NRG3,intron_variant,,ENST00000556918,;NRG3,intron_variant,,ENST00000404576,;NRG3,intron_variant,,ENST00000602794,;NRG3,intron_variant,,ENST00000555784,;"	"T"	"ENSG00000185737"	"ENST00000372141"	"Transcript"	"intron_variant"	"-/2158"	"-/2091"	"-/696"	""	""	""	"1"	NA	1	"NRG3"	"HGNC"	7999	"protein_coding"	"YES"	"CCDS31233.1"	"ENSP00000361214"	"P56975"	"D9ZHQ8"	"UPI00003D64C0"	"NM_001165972.1,NM_001010848.3"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"912fd506-0701-11e6-bfb7-b139fd994bc2"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"12510"	"CYP2C9"	1559	"mskcc.org"	"GRCh37"	"10"	96736029	96736030	"+"	"Intron"	"DEL"	"TA"	"TA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.961+4028_961+4029delAT"	""	""	"ENST00000260682"	""	86	"."	9	63	"."	0	"CYP2C9,intron_variant,,ENST00000260682,NM_000771.3;"	"-"	"ENSG00000138109"	"ENST00000260682"	"Transcript"	"intron_variant"	"-/1847"	"-/1473"	"-/490"	""	""	""	"1"	NA	1	"CYP2C9"	"HGNC"	2623	"protein_coding"	"YES"	"CCDS7437.1"	"ENSP00000260682"	"P11712"	"S5RV20,Q9UEH3"	"UPI0000128258"	"NM_000771.3"	NA	NA	""	"6/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTTAT"	"f75b6406-06fe-11e6-bfb7-b139fd994bc2"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104651162790698	"WGS"	FALSE
"12511"	"C10orf131"	100127889	"mskcc.org"	"GRCh37"	"10"	97691700	97691707	"+"	"Intron"	"DEL"	"CTGTCTCA"	"CTGTCTCA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"CTGTCTCA"	"CTGTCTCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.312+4611_312+4618delCTGTCTCA"	""	""	"ENST00000423344"	""	98	"."	20	72	"."	0	"C10orf131,intron_variant,,ENST00000423344,NM_001130446.2;ENTPD1-AS1,intron_variant,,ENST00000416301,;ENTPD1-AS1,intron_variant,,ENST00000454638,;ENTPD1-AS1,intron_variant,,ENST00000452728,;ENTPD1-AS1,intron_variant,,ENST00000451364,;"	"-"	"ENSG00000173088"	"ENST00000423344"	"Transcript"	"intron_variant"	"-/1241"	"-/531"	"-/176"	""	""	""	"1"	NA	1	"C10orf131"	"HGNC"	31667	"protein_coding"	"YES"	"CCDS58090.1"	"ENSP00000411850"	"A6NCD4"	"R4GN90"	"UPI0001662670"	"NM_001130446.2"	NA	NA	""	"7/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTGTCTCAT"	"fcf41296-06fe-11e6-bfb7-b139fd994bc2"	"1192"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204081632653061	"WGS"	FALSE
"12512"	"PNLIPRP3"	119548	"mskcc.org"	"GRCh37"	"10"	118198808	118198811	"+"	"Intron"	"DEL"	"ACTG"	"ACTG"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"ACTG"	"ACTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.204+2434_204+2437delGACT"	""	""	"ENST00000369230"	""	79	"."	16	57	"."	0	"PNLIPRP3,intron_variant,,ENST00000369230,NM_001011709.2;HMGB3P8,downstream_gene_variant,,ENST00000449709,;"	"-"	"ENSG00000203837"	"ENST00000369230"	"Transcript"	"intron_variant"	"-/2354"	"-/1404"	"-/467"	""	""	""	"1"	NA	1	"PNLIPRP3"	"HGNC"	23492	"protein_coding"	"YES"	"CCDS31292.1"	"ENSP00000358232"	"Q17RR3"	""	"UPI000013DB40"	"NM_001011709.2"	NA	NA	""	"2/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCACTGA"	"604a6d9a-06ff-11e6-bfb7-b139fd994bc2"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.20253164556962	"WGS"	FALSE
"12513"	"FANK1"	92565	"mskcc.org"	"GRCh37"	"10"	127607764	127607765	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTT"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.13+22561_13+22568dupTTTTTTTT"	""	""	"ENST00000368693"	""	154	"."	8	75	"."	0	"FANK1,intron_variant,,ENST00000368695,NM_145235.3;FANK1,intron_variant,,ENST00000368693,;FANK1,intron_variant,,ENST00000449042,;"	"TTTTTTTT"	"ENSG00000203780"	"ENST00000368693"	"Transcript"	"intron_variant"	"-/1294"	"-/1038"	"-/345"	""	""	""	"1"	NA	1	"FANK1"	"HGNC"	23527	"protein_coding"	"YES"	"CCDS31309.1"	"ENSP00000357682"	"Q8TC84"	"C9JD80,A6NH44"	"UPI000046FFD6"	""	NA	NA	""	"1/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"28"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"464d90d6-0702-11e6-bfb7-b139fd994bc2"	"474"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.051948051948052	"WGS"	FALSE
"12514"	"TCERG1L"	256536	"mskcc.org"	"GRCh37"	"10"	133008507	133008507	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.857-43359delA"	""	""	"ENST00000368642"	""	86	"."	12	50	"."	0	"TCERG1L,intron_variant,,ENST00000368642,NM_174937.3;TCERG1L,intron_variant,,ENST00000483040,;"	"-"	"ENSG00000176769"	"ENST00000368642"	"Transcript"	"intron_variant"	"-/2618"	"-/1761"	"-/586"	""	""	""	"1"	NA	-1	"TCERG1L"	"HGNC"	23533	"protein_coding"	"YES"	"CCDS7662.2"	"ENSP00000357631"	"Q5VWI1"	""	"UPI00004589C8"	"NM_174937.3"	NA	NA	""	"4/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATC"	"b3170722-06ff-11e6-bfb7-b139fd994bc2"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"12515"	"RP13-726E6.1"	0	"mskcc.org"	"GRCh37"	"11"	3513459	3513460	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTT"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.210+9264_210+9272dupTTTTTTTTT"	""	""	"ENST00000534291"	""	86	"."	6	56	"."	0	"RP13-726E6.1,intron_variant,,ENST00000534291,;RP13-726E6.2,intron_variant,,ENST00000527970,;"	"TTTTTTTTT"	"ENSG00000254757"	"ENST00000534291"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/450"	""	""	""	""	""	"1"	NA	1	"RP13-726E6.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"insertion"	NA	"25"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"bdea4090-0701-11e6-b3d0-ac8bed4d3614"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"12516"	"HBB"	3043	"mskcc.org"	"GRCh37"	"11"	5246664	5246664	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000335295"	""	87	"."	16	60	"."	0	"HBB,downstream_gene_variant,,ENST00000335295,NM_000518.4;HBB,downstream_gene_variant,,ENST00000380315,;CoTC_ribozyme,upstream_gene_variant,,ENST00000408104,;HBB,downstream_gene_variant,,ENST00000485743,;HBB,downstream_gene_variant,,ENST00000475226,;"	"-"	"ENSG00000244734"	"ENST00000335295"	"Transcript"	"downstream_gene_variant"	"-/628"	"-/444"	"-/147"	""	""	""	"1"	"30"	-1	"HBB"	"HGNC"	4827	"protein_coding"	"YES"	"CCDS7753.1"	"ENSP00000333994"	"P68871"	"Q9H1I6,Q9GZL9,Q9BXA2,Q86VF0,Q7Z2K5,Q6VFQ5,Q14484,Q0Z944,K4EN30,J7LKS8,F8W6P5,E9M263,D9YZU5,D5FZW3,B5ANL9,B3VL12"	"UPI00000015C9"	"NM_000518.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTAA"	"adec4f84-06fd-11e6-b3d0-ac8bed4d3614"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.183908045977011	"WGS"	FALSE
"12517"	"DENND5A"	23258	"mskcc.org"	"GRCh37"	"11"	9183476	9183477	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"rs376177231"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2284-1066_2284-1065dupTA"	""	""	"ENST00000328194"	""	95	"."	21	56	"."	0	"DENND5A,intron_variant,,ENST00000328194,NM_015213.3,NM_001243254.1;DENND5A,intron_variant,,ENST00000530044,;DENND5A,intron_variant,,ENST00000527700,;DENND5A,intron_variant,,ENST00000526707,;"	"TA"	"ENSG00000184014"	"ENST00000328194"	"Transcript"	"intron_variant"	"-/5031"	"-/3864"	"-/1287"	""	""	"rs376177231"	"1"	NA	-1	"DENND5A"	"HGNC"	19344	"protein_coding"	"YES"	"CCDS31423.1"	"ENSP00000328524"	"Q6IQ26"	"B3KWN5"	"UPI00001C1F29"	"NM_015213.3,NM_001243254.1"	NA	NA	""	"11/22"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"ea4367fc-0701-11e6-b3d0-ac8bed4d3614"	"1260"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221052631578947	"WGS"	FALSE
"12518"	"ZDHHC5"	25921	"mskcc.org"	"GRCh37"	"11"	57435415	57435427	"+"	"5'UTR"	"DEL"	"CCGCGCGAGACGT"	"CCGCGCGAGACGT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"CCGCGCGAGACGT"	"CCGCGCGAGACGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1314_-1302delCGCGCGAGACGTC"	""	""	"ENST00000287169"	"1/12"	87	"."	16	30	"."	0	"ZDHHC5,5_prime_UTR_variant,,ENST00000287169,NM_015457.2;ZDHHC5,5_prime_UTR_variant,,ENST00000527985,;ZDHHC5,upstream_gene_variant,,ENST00000528177,;ZDHHC5,upstream_gene_variant,,ENST00000527090,;ZDHHC5,upstream_gene_variant,,ENST00000524540,;"	"-"	"ENSG00000156599"	"ENST00000287169"	"Transcript"	"5_prime_UTR_variant"	"48-60/4666"	"-/2148"	"-/715"	""	""	""	"1"	NA	1	"ZDHHC5"	"HGNC"	18472	"protein_coding"	"YES"	"CCDS7965.1"	"ENSP00000287169"	"Q9C0B5"	"E9PMA5,E9PJ97"	"UPI0000049DA3"	"NM_015457.2"	NA	NA	"1/12"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCCGCGCGAGACGTC"	"34d90a9a-06ff-11e6-b3d0-ac8bed4d3614"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.183908045977011	"WGS"	FALSE
"12519"	"RP5-903G2.2"	0	"mskcc.org"	"GRCh37"	"11"	67706711	67706712	"+"	"Intron"	"INS"	"-"	"-"	"TTTTT"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.92+438_92+442dupAAAAA"	""	""	"ENST00000527543"	""	106	"."	6	59	"."	0	"RP5-903G2.2,intron_variant,,ENST00000527543,;RP5-901A4.4,downstream_gene_variant,,ENST00000529649,;"	"TTTTT"	"ENSG00000254610"	"ENST00000527543"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/455"	""	""	""	""	""	"1"	NA	-1	"RP5-903G2.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"616b3a66-0703-11e6-b3d0-ac8bed4d3614"	"242"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0566037735849057	"WGS"	FALSE
"12520"	"LRP5"	4041	"mskcc.org"	"GRCh37"	"11"	68100905	68100906	"+"	"Intron"	"DEL"	"AA"	"AA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.92-14410_92-14409delAA"	""	""	"ENST00000294304"	""	87	"."	21	63	"."	0	"LRP5,intron_variant,,ENST00000294304,NM_002335.2;LRP5,intron_variant,,ENST00000529993,;"	"-"	"ENSG00000162337"	"ENST00000294304"	"Transcript"	"intron_variant"	"-/5159"	"-/4848"	"-/1615"	""	""	""	"1"	NA	1	"LRP5"	"HGNC"	6697	"protein_coding"	"YES"	"CCDS8181.1"	"ENSP00000294304"	"O75197"	"E9PHY1"	"UPI0000073246"	"NM_002335.2"	NA	NA	""	"1/22"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGAAT"	"8d833148-06ff-11e6-b3d0-ac8bed4d3614"	"1260"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241379310344828	"WGS"	FALSE
"12521"	"ACER3"	55331	"mskcc.org"	"GRCh37"	"11"	76586151	76586152	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTT"	"rs766889874"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103+14049_103+14054dupTTTTTT"	""	""	"ENST00000532485"	""	136	"."	5	69	"."	0	"ACER3,intron_variant,,ENST00000532485,NM_018367.5;ACER3,intron_variant,,ENST00000538157,;ACER3,intron_variant,,ENST00000526597,;ACER3,intron_variant,,ENST00000533873,;ACER3,intron_variant,,ENST00000534206,;AP002498.1,upstream_gene_variant,,ENST00000390741,;ACER3,intron_variant,,ENST00000530182,;ACER3,intron_variant,,ENST00000278544,;ACER3,intron_variant,,ENST00000531352,;ACER3,intron_variant,,ENST00000525861,;ACER3,intron_variant,,ENST00000531461,;ACER3,intron_variant,,ENST00000530334,;ACER3,intron_variant,,ENST00000525194,;"	"TTTTTT"	"ENSG00000078124"	"ENST00000532485"	"Transcript"	"intron_variant"	"-/7378"	"-/804"	"-/267"	""	""	"rs766889874"	"1"	NA	1	"ACER3"	"HGNC"	16066	"protein_coding"	"YES"	"CCDS8247.1"	"ENSP00000434480"	"Q9NUN7"	"F5GYA0,E9PIN9,B7Z2V2"	"UPI000013DB7C"	"NM_018367.5"	NA	NA	""	"1/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"26"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"9c4ae15e-0703-11e6-b3d0-ac8bed4d3614"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0367647058823529	"WGS"	FALSE
"12522"	"DISC1FP1"	101929222	"mskcc.org"	"GRCh37"	"11"	90268686	90268687	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.44-11229dupT"	""	""	"ENST00000562678"	""	89	"."	19	57	"."	0	"DISC1FP1,intron_variant,,ENST00000562678,;DISC1FP1,intron_variant,,ENST00000562245,;DISC1FP1,intron_variant,,ENST00000561596,;DISC1FP1,intron_variant,,ENST00000563681,;"	"T"	"ENSG00000261645"	"ENST00000562678"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/796"	""	""	""	""	""	"1"	NA	1	"DISC1FP1"	"HGNC"	33625	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"f4cef96e-0703-11e6-b3d0-ac8bed4d3614"	"1140"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213483146067416	"WGS"	FALSE
"12523"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	98410507	98410510	"+"	"IGR"	"DEL"	"CTTA"	"CTTA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"CTTA"	"CTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	8	65	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTTAC"	"536062fa-0700-11e6-b3d0-ac8bed4d3614"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"12524"	"GRAMD1B"	57476	"mskcc.org"	"GRCh37"	"11"	123414799	123414799	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.23+17921delG"	""	""	"ENST00000529750"	""	93	"."	20	46	"."	0	"GRAMD1B,intron_variant,,ENST00000529750,NM_020716.1;GRAMD1B,intron_variant,,ENST00000456860,NM_001286563.1;GRAMD1B,intron_variant,,ENST00000322282,;"	"-"	"ENSG00000023171"	"ENST00000529750"	"Transcript"	"intron_variant"	"-/7723"	"-/2217"	"-/738"	""	""	""	"1"	NA	1	"GRAMD1B"	"HGNC"	29214	"protein_coding"	"YES"	"CCDS53720.1"	"ENSP00000436500"	"Q3KR37"	""	"UPI00005C3025"	"NM_020716.1"	NA	NA	""	"1/19"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"09807106-0701-11e6-b3d0-ac8bed4d3614"	"1200"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21505376344086	"WGS"	FALSE
"12525"	"SCN3B"	55800	"mskcc.org"	"GRCh37"	"11"	123525398	123525399	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000392770"	""	93	"."	5	51	"."	0	"SCN3B,intron_variant,,ENST00000527836,;SCN3B,intron_variant,,ENST00000528267,;SCN3B,upstream_gene_variant,,ENST00000392770,NM_018400.3;SCN3B,upstream_gene_variant,,ENST00000299333,NM_001040151.1;SCN3B,upstream_gene_variant,,ENST00000530277,;"	"C"	"ENSG00000166257"	"ENST00000392770"	"Transcript"	"upstream_gene_variant"	"-/6061"	"-/648"	"-/215"	""	""	""	"1"	"86"	-1	"SCN3B"	"HGNC"	20665	"protein_coding"	"YES"	"CCDS8442.1"	"ENSP00000376523"	"Q9NY72"	"E9PQS8,E9PJP6"	"UPI00000341C8"	"NM_018400.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"d68cb4b8-0704-11e6-b3d0-ac8bed4d3614"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0537634408602151	"WGS"	FALSE
"12526"	"CBX3P4"	0	"mskcc.org"	"GRCh37"	"12"	2896927	2896927	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.300-274delC"	""	""	"ENST00000540428"	""	78	"."	5	46	"."	0	"CBX3P4,intron_variant,,ENST00000540428,;CBX3P4,upstream_gene_variant,,ENST00000538909,;"	"-"	"ENSG00000256030"	"ENST00000540428"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/423"	""	""	""	""	""	"1"	NA	-1	"CBX3P4"	"HGNC"	42876	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"1c404fee-06fe-11e6-8620-88b80827cc02"	"293"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0641025641025641	"WGS"	FALSE
"12527"	"BICD1"	636	"mskcc.org"	"GRCh37"	"12"	32412181	32412200	"+"	"Intron"	"DEL"	"TATCTAATTTGTATTATAAC"	"TATCTAATTTGTATTATAAC"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TATCTAATTTGTATTATAAC"	"TATCTAATTTGTATTATAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.427-34744_427-34725delCTAATTTGTATTATAACTAT"	""	""	"ENST00000281474"	""	93	"."	13	67	"."	0	"BICD1,intron_variant,,ENST00000548411,NM_001003398.1;BICD1,intron_variant,,ENST00000281474,NM_001714.2;BICD1,intron_variant,,ENST00000395758,;"	"-"	"ENSG00000151746"	"ENST00000281474"	"Transcript"	"intron_variant"	"-/3281"	"-/2928"	"-/975"	""	""	""	"1"	NA	1	"BICD1"	"HGNC"	1049	"protein_coding"	"YES"	"CCDS8726.1"	"ENSP00000281474"	"Q96G01"	""	"UPI00001AEA67"	"NM_001714.2"	NA	NA	""	"2/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATATCTAATTTGTATTATAACT"	"bfab3af4-06fe-11e6-8620-88b80827cc02"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.139784946236559	"WGS"	FALSE
"12528"	"RN7SL770P"	0	"mskcc.org"	"GRCh37"	"12"	56589932	56590263	"+"	"3'Flank"	"DEL"	"CCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCAGTAATGTTTTTTAAAGCTAAAGTTGGGGAAGAACTATATATAAGATTTGAGATAGGATCTTGCTCTGTTGCCAAGGCTGGAGTGTGGTGGCACGATCTTGGCTCACTGTGACCTCCATCTCCCGGGCTCATGCGATCCTCCCACCTCAGTTTCCCCAGTAGCTGGGGACTACAGGCATGCACCACCACACCCAATGAACTTTTAAATTTTTTATAAAGACACAGTTTCACCATATTGCCCAGGCTGGTCTTGAACTCTTGGGCTCAAGCAATCCACCCA"	"CCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCAGTAATGTTTTTTAAAGCTAAAGTTGGGGAAGAACTATATATAAGATTTGAGATAGGATCTTGCTCTGTTGCCAAGGCTGGAGTGTGGTGGCACGATCTTGGCTCACTGTGACCTCCATCTCCCGGGCTCATGCGATCCTCCCACCTCAGTTTCCCCAGTAGCTGGGGACTACAGGCATGCACCACCACACCCAATGAACTTTTAAATTTTTTATAAAGACACAGTTTCACCATATTGCCCAGGCTGGTCTTGAACTCTTGGGCTCAAGCAATCCACCCA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"CCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCAGTAATGTTTTTTAAAGCTAAAGTTGGGGAAGAACTATATATAAGATTTGAGATAGGATCTTGCTCTGTTGCCAAGGCTGGAGTGTGGTGGCACGATCTTGGCTCACTGTGACCTCCATCTCCCGGGCTCATGCGATCCTCCCACCTCAGTTTCCCCAGTAGCTGGGGACTACAGGCATGCACCACCACACCCAATGAACTTTTAAATTTTTTATAAAGACACAGTTTCACCATATTGCCCAGGCTGGTCTTGAACTCTTGGGCTCAAGCAATCCACCCA"	"CCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCAGTAATGTTTTTTAAAGCTAAAGTTGGGGAAGAACTATATATAAGATTTGAGATAGGATCTTGCTCTGTTGCCAAGGCTGGAGTGTGGTGGCACGATCTTGGCTCACTGTGACCTCCATCTCCCGGGCTCATGCGATCCTCCCACCTCAGTTTCCCCAGTAGCTGGGGACTACAGGCATGCACCACCACACCCAATGAACTTTTAAATTTTTTATAAAGACACAGTTTCACCATATTGCCCAGGCTGGTCTTGAACTCTTGGGCTCAAGCAATCCACCCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000581566"	""	96	"."	5	56	"."	0	"RN7SL770P,downstream_gene_variant,,ENST00000581566,;"	"-"	"ENSG00000266023"	"ENST00000581566"	"Transcript"	"downstream_gene_variant"	"-/250"	""	""	""	""	""	"1"	"752"	1	"RN7SL770P"	"HGNC"	46786	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCAGTAATGTTTTTTAAAGCTAAAGTTGGGGAAGAACTATATATAAGATTTGAGATAGGATCTTGCTCTGTTGCCAAGGCTGGAGTGTGGTGGCACGATCTTGGCTCACTGTGACCTCCATCTCCCGGGCTCATGCGATCCTCCCACCTCAGTTTCCCCAGTAGCTGGGGACTACAGGCATGCACCACCACACCCAATGAACTTTTAAATTTTTTATAAAGACACAGTTTCACCATATTGCCCAGGCTGGTCTTGAACTCTTGGGCTCAAGCAATCCACCCAC"	"259dce76-06ff-11e6-8620-88b80827cc02"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0520833333333333	"WGS"	FALSE
"12529"	"CAND1"	55832	"mskcc.org"	"GRCh37"	"12"	67698335	67698335	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1294-50delT"	""	""	"ENST00000545606"	""	107	"."	6	58	"."	0	"CAND1,intron_variant,,ENST00000545606,NM_018448.3;CAND1,intron_variant,,ENST00000544619,;CAND1,intron_variant,,ENST00000540319,;"	"-"	"ENSG00000111530"	"ENST00000545606"	"Transcript"	"intron_variant"	"-/11251"	"-/3693"	"-/1230"	""	""	""	"1"	NA	1	"CAND1"	"HGNC"	30688	"protein_coding"	"YES"	"CCDS8977.1"	"ENSP00000442318"	"Q86VP6"	"F5H6I6,B3KMG3"	"UPI0000037CC5"	"NM_018448.3"	NA	NA	""	"8/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTG"	"57b9a632-06ff-11e6-8620-88b80827cc02"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0560747663551402	"WGS"	FALSE
"12530"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	90766014	90766014	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs764540010"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"."	14	61	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs764540010"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"b547333c-06ff-11e6-8620-88b80827cc02"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205882352941176	"WGS"	FALSE
"12531"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	93992493	93992493	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"."	12	46	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"c2684e34-06ff-11e6-8620-88b80827cc02"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123711340206186	"WGS"	FALSE
"12532"	"KSR2"	283455	"mskcc.org"	"GRCh37"	"12"	118014391	118014683	"+"	"Intron"	"DEL"	"CTCCTGGGCTCAAGTGATCCTCCTGCCCCAGCCTCCCAAGTATCTAGGACCACGGTATGTGCCATCACTCCTGGCTAATTTTTTACCTTAATTTATTTTGTAGAGATAGGGTCTAGTTCTGTTGCCCAGGCTGATCTTGAACTCCTGTCCTCAAGTGATCTTCCTGCCCCAGACTCCCAAGTAGCTAGGACAACAGGCATGTACCATCATGCCTGGCTAATTTTTAAATTTTATTTATTTGTGTGTGTGTGTGTGGATGGGGTTCTCACGATGTTGCCAAAGCTGGTCTCAAA"	"CTCCTGGGCTCAAGTGATCCTCCTGCCCCAGCCTCCCAAGTATCTAGGACCACGGTATGTGCCATCACTCCTGGCTAATTTTTTACCTTAATTTATTTTGTAGAGATAGGGTCTAGTTCTGTTGCCCAGGCTGATCTTGAACTCCTGTCCTCAAGTGATCTTCCTGCCCCAGACTCCCAAGTAGCTAGGACAACAGGCATGTACCATCATGCCTGGCTAATTTTTAAATTTTATTTATTTGTGTGTGTGTGTGTGGATGGGGTTCTCACGATGTTGCCAAAGCTGGTCTCAAA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"CTCCTGGGCTCAAGTGATCCTCCTGCCCCAGCCTCCCAAGTATCTAGGACCACGGTATGTGCCATCACTCCTGGCTAATTTTTTACCTTAATTTATTTTGTAGAGATAGGGTCTAGTTCTGTTGCCCAGGCTGATCTTGAACTCCTGTCCTCAAGTGATCTTCCTGCCCCAGACTCCCAAGTAGCTAGGACAACAGGCATGTACCATCATGCCTGGCTAATTTTTAAATTTTATTTATTTGTGTGTGTGTGTGTGGATGGGGTTCTCACGATGTTGCCAAAGCTGGTCTCAAA"	"CTCCTGGGCTCAAGTGATCCTCCTGCCCCAGCCTCCCAAGTATCTAGGACCACGGTATGTGCCATCACTCCTGGCTAATTTTTTACCTTAATTTATTTTGTAGAGATAGGGTCTAGTTCTGTTGCCCAGGCTGATCTTGAACTCCTGTCCTCAAGTGATCTTCCTGCCCCAGACTCCCAAGTAGCTAGGACAACAGGCATGTACCATCATGCCTGGCTAATTTTTAAATTTTATTTATTTGTGTGTGTGTGTGTGGATGGGGTTCTCACGATGTTGCCAAAGCTGGTCTCAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1325+2241_1325+2533delTTTGAGACCAGCTTTGGCAACATCGTGAGAACCCCATCCACACACACACACACAAATAAATAAAATTTAAAAATTAGCCAGGCATGATGGTACATGCCTGTTGTCCTAGCTACTTGGGAGTCTGGGGCAGGAAGATCACTTGAGGACAGGAGTTCAAGATCAGCCTGGGCAACAGAACTAGACCCTATCTCTACAAAATAAATTAAGGTAAAAAATTAGCCAGGAGTGATGGCACATACCGTGGTCCTAGATACTTGGGAGGCTGGGGCAGGAGGATCACTTGAGCCCAGGAG"	""	""	"ENST00000339824"	""	94	"."	5	60	"."	0	"KSR2,intron_variant,,ENST00000425217,NM_173598.4;KSR2,intron_variant,,ENST00000339824,;KSR2,intron_variant,,ENST00000302438,;KSR2,intron_variant,,ENST00000545002,;"	"-"	"ENSG00000171435"	"ENST00000339824"	"Transcript"	"intron_variant"	"-/4429"	"-/2853"	"-/950"	""	""	""	"1"	NA	-1	"KSR2"	"HGNC"	18610	"protein_coding"	"YES"	""	"ENSP00000339952"	"Q6VAB6"	"E9PB13"	"UPI000152636C"	""	NA	NA	""	"7/19"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCTCCTGGGCTCAAGTGATCCTCCTGCCCCAGCCTCCCAAGTATCTAGGACCACGGTATGTGCCATCACTCCTGGCTAATTTTTTACCTTAATTTATTTTGTAGAGATAGGGTCTAGTTCTGTTGCCCAGGCTGATCTTGAACTCCTGTCCTCAAGTGATCTTCCTGCCCCAGACTCCCAAGTAGCTAGGACAACAGGCATGTACCATCATGCCTGGCTAATTTTTAAATTTTATTTATTTGTGTGTGTGTGTGTGGATGGGGTTCTCACGATGTTGCCAAAGCTGGTCTCAAAC"	"1f5a2bd0-0700-11e6-8620-88b80827cc02"	"296"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0531914893617021	"WGS"	FALSE
"12533"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	127288804	127288804	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"."	7	68	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"5324b1ec-0700-11e6-8620-88b80827cc02"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0630630630630631	"WGS"	FALSE
"12534"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	29456913	29456913	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"."	12	60	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACT"	"fc1feb24-06fe-11e6-8ecb-f4299f4bbec8"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134831460674157	"WGS"	FALSE
"12535"	"DCLK1"	9201	"mskcc.org"	"GRCh37"	"13"	36535341	36535341	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.724-13747delC"	""	""	"ENST00000255448"	""	95	"."	6	62	"."	0	"DCLK1,intron_variant,,ENST00000255448,NM_004734.4;DCLK1,intron_variant,,ENST00000360631,;DCLK1,intron_variant,,ENST00000379892,;"	"-"	"ENSG00000133083"	"ENST00000255448"	"Transcript"	"intron_variant"	"-/5703"	"-/2190"	"-/729"	""	""	""	"1"	NA	-1	"DCLK1"	"HGNC"	2700	"protein_coding"	"YES"	"CCDS9354.1"	"ENSP00000255448"	"O15075"	""	"UPI000002A7C2"	"NM_004734.4"	NA	NA	""	"3/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGG"	"324b0562-06ff-11e6-8ecb-f4299f4bbec8"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0631578947368421	"WGS"	FALSE
"12536"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	55069269	55069269	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"."	14	55	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"bb68c776-06ff-11e6-8ecb-f4299f4bbec8"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175	"WGS"	FALSE
"12537"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	55197956	55197956	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"."	14	57	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"bc39b07a-06ff-11e6-8ecb-f4299f4bbec8"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147368421052632	"WGS"	FALSE
"12538"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	56216080	56216081	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"."	14	66	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"9e65d602-0702-11e6-8ecb-f4299f4bbec8"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"12539"	"PWWP2AP1"	0	"mskcc.org"	"GRCh37"	"13"	81226983	81226990	"+"	"5'Flank"	"DEL"	"CTCCTTTG"	"CTCCTTTG"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"CTCCTTTG"	"CTCCTTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000429776"	""	98	"."	27	65	"."	0	"PWWP2AP1,upstream_gene_variant,,ENST00000429776,;"	"-"	"ENSG00000226683"	"ENST00000429776"	"Transcript"	"upstream_gene_variant"	"-/2273"	""	""	""	""	""	"1"	"1900"	1	"PWWP2AP1"	"HGNC"	39709	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTCCTTTGC"	"76c75460-0700-11e6-8ecb-f4299f4bbec8"	"1620"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275510204081633	"WGS"	FALSE
"12540"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	82174472	82174473	"+"	"IGR"	"INS"	"-"	"-"	"ATATATGTGTATATGTGTATATACAC"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"."	5	72	"."	0	""	"ATATATGTGTATATGTGTATATACAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"5608e01a-0703-11e6-8ecb-f4299f4bbec8"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0458715596330275	"WGS"	FALSE
"12541"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	84354858	84354858	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"."	13	54	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"89b60760-0700-11e6-8ecb-f4299f4bbec8"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1625	"WGS"	FALSE
"12542"	"GPC5"	2262	"mskcc.org"	"GRCh37"	"13"	93037617	93037636	"+"	"Intron"	"DEL"	"ATATATATACATATATACAT"	"ATATATATACATATATACAT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"ATATATATACATATATACAT"	"ATATATATACATATATACAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1561+240382_1561+240401delTACATATATACATATATATA"	""	""	"ENST00000377067"	""	71	"."	6	69	"."	0	"GPC5,intron_variant,,ENST00000377067,NM_004466.4;"	"-"	"ENSG00000179399"	"ENST00000377067"	"Transcript"	"intron_variant"	"-/2889"	"-/1719"	"-/572"	""	""	""	"1"	NA	1	"GPC5"	"HGNC"	4453	"protein_coding"	"YES"	"CCDS9468.1"	"ENSP00000366267"	"P78333"	""	"UPI0000001C85"	"NM_004466.4"	NA	NA	""	"7/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATATATATACATATATACATA"	"c690684c-0700-11e6-8ecb-f4299f4bbec8"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"12543"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	25167017	25167022	"+"	"IGR"	"DEL"	"TTTTTT"	"TTTTTT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TTTTTT"	"TTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"."	6	39	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATTTTTTT"	"d1c0cd8a-06fe-11e6-ae28-eb86a218d149"	"280"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"12544"	"SCFD1"	23256	"mskcc.org"	"GRCh37"	"14"	31145593	31145597	"+"	"Intron"	"DEL"	"AAGTT"	"AAGTT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AAGTT"	"AAGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1242+1324_1242+1328delGTTAA"	""	""	"ENST00000458591"	""	111	"."	14	51	"."	0	"SCFD1,intron_variant,,ENST00000458591,NM_016106.3;SCFD1,intron_variant,,ENST00000544052,NM_182835.2;SCFD1,intron_variant,,ENST00000396629,NM_001257376.1;SCFD1,intron_variant,,ENST00000541123,NM_001283031.1;SCFD1,intron_variant,,ENST00000421551,NM_001283032.1;SCFD1,non_coding_transcript_exon_variant,,ENST00000554486,;SCFD1,intron_variant,,ENST00000554819,;SCFD1,intron_variant,,ENST00000484733,;SCFD1,intron_variant,,ENST00000311943,NM_001283031.1;SCFD1,intron_variant,,ENST00000463622,NM_001283032.1;SCFD1,intron_variant,,ENST00000556768,NM_001283033.1;SCFD1,intron_variant,,ENST00000555259,;SCFD1,downstream_gene_variant,,ENST00000553278,;SCFD1,downstream_gene_variant,,ENST00000555953,;"	"-"	"ENSG00000092108"	"ENST00000458591"	"Transcript"	"intron_variant"	"-/2359"	"-/1929"	"-/642"	""	""	""	"1"	NA	1	"SCFD1"	"HGNC"	20726	"protein_coding"	"YES"	"CCDS9639.1"	"ENSP00000390783"	"Q8WVM8"	"G3V5E2,G3V2M8,B7Z5N7"	"UPI000013C6E3"	"NM_016106.3"	NA	NA	""	"14/24"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAAGTTA"	"f9f87e06-06fe-11e6-ae28-eb86a218d149"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126126126126126	"WGS"	FALSE
"12545"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	40915855	40915859	"+"	"IGR"	"DEL"	"TCAAA"	"TCAAA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TCAAA"	"TCAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"."	16	60	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCAAAG"	"48dfd88e-06ff-11e6-ae28-eb86a218d149"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188235294117647	"WGS"	FALSE
"12546"	"RP11-99L13.2"	0	"mskcc.org"	"GRCh37"	"14"	44863000	44863000	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000557721"	""	81	"."	15	66	"."	0	"RP11-99L13.2,upstream_gene_variant,,ENST00000557721,;RP11-99L13.2,upstream_gene_variant,,ENST00000557506,;"	"-"	"ENSG00000259126"	"ENST00000557721"	"Transcript"	"upstream_gene_variant"	"-/263"	""	""	""	""	""	"1"	"86"	-1	"RP11-99L13.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAC"	"60451502-06ff-11e6-ae28-eb86a218d149"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WGS"	FALSE
"12547"	"ENSR00000417816"	0	"mskcc.org"	"GRCh37"	"14"	53308313	53308313	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000417816"	""	90	"."	16	58	"."	0	""	"-"	""	"ENSR00000417816"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"a1030dce-06ff-11e6-ae28-eb86a218d149"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177777777777778	"WGS"	FALSE
"12548"	"CCDC177"	56936	"mskcc.org"	"GRCh37"	"14"	70044119	70044125	"+"	"5'Flank"	"DEL"	"ATAAAAT"	"ATAAAAT"	"TTCCC"	"novel"	NA	"JHRCC350"	"W0006120F"	"ATAAAAT"	"ATAAAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000599174"	""	82	"."	17	48	"."	0	"CCDC177,upstream_gene_variant,,ENST00000599174,NM_001271507.1;"	"TTCCC"	"ENSG00000267909"	"ENST00000599174"	"Transcript"	"upstream_gene_variant"	"-/2124"	"-/2124"	"-/707"	""	""	""	"1"	"3780"	-1	"CCDC177"	"Uniprot_gn"	23243	"protein_coding"	"YES"	"CCDS59245.1"	"ENSP00000469474"	""	""	"UPI0000D62424"	"NM_001271507.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAATAAAATT"	"3f288384-0701-11e6-ae28-eb86a218d149"	"1020"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207317073170732	"WGS"	FALSE
"12549"	"RP11-173D3.1"	0	"mskcc.org"	"GRCh37"	"15"	20353083	20353084	"+"	"RNA"	"INS"	"-"	"-"	"C"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.123dupG"	""	""	"ENST00000553658"	"1/4"	127	"."	8	73	"."	0	"RP11-173D3.1,non_coding_transcript_exon_variant,,ENST00000553658,;"	"C"	"ENSG00000258410"	"ENST00000553658"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"123-124/572"	""	""	""	""	""	"1"	NA	-1	"RP11-173D3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	"1/4"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"57fb478e-0701-11e6-b64c-fda491d6e046"	"113"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.062992125984252	"WGS"	FALSE
"12550"	"FAM189A1"	23359	"mskcc.org"	"GRCh37"	"15"	29704906	29704906	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.220-30871delA"	""	""	"ENST00000261275"	""	95	"."	24	57	"."	0	"FAM189A1,intron_variant,,ENST00000261275,NM_015307.1;FAM189A1,intron_variant,,ENST00000560082,;FAM189A1,intron_variant,,ENST00000560050,;"	"-"	"ENSG00000104059"	"ENST00000261275"	"Transcript"	"intron_variant"	"-/4705"	"-/1620"	"-/539"	""	""	""	"1"	NA	-1	"FAM189A1"	"HGNC"	29075	"protein_coding"	"YES"	"CCDS45198.1"	"ENSP00000261275"	"O60320"	"H0YKM1"	"UPI0001641C10"	"NM_015307.1"	NA	NA	""	"1/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"10a91a98-06ff-11e6-b64c-fda491d6e046"	"1440"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"12551"	"RYR3"	6263	"mskcc.org"	"GRCh37"	"15"	34061482	34061483	"+"	"Intron"	"DEL"	"AA"	"AA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8816+109_8816+110delAA"	""	""	"ENST00000389232"	""	88	"."	16	61	"."	0	"RYR3,intron_variant,,ENST00000389232,NM_001036.3;RYR3,intron_variant,,ENST00000415757,NM_001243996.1;"	"-"	"ENSG00000198838"	"ENST00000389232"	"Transcript"	"intron_variant"	"-/15559"	"-/14613"	"-/4870"	""	""	""	"1"	NA	1	"RYR3"	"HGNC"	10485	"protein_coding"	"YES"	"CCDS45210.1"	"ENSP00000373884"	"Q15413"	""	"UPI0000E5B01A"	"NM_001036.3"	NA	NA	""	"62/103"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAG"	"353b4e58-06ff-11e6-b64c-fda491d6e046"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"12552"	"C15orf52"	388115	"mskcc.org"	"GRCh37"	"15"	40634454	40634455	"+"	"5'Flank"	"INS"	"-"	"-"	"AGGTC"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000559313"	""	94	"."	18	74	"."	0	"C15orf52,upstream_gene_variant,,ENST00000397536,;C15orf52,upstream_gene_variant,,ENST00000559313,NM_207380.2;C15orf52,upstream_gene_variant,,ENST00000560922,;C15orf52,upstream_gene_variant,,ENST00000558858,;C15orf52,upstream_gene_variant,,ENST00000557973,;C15orf52,upstream_gene_variant,,ENST00000382688,;C15orf52,upstream_gene_variant,,ENST00000558912,;"	"AGGTC"	"ENSG00000188549"	"ENST00000559313"	"Transcript"	"upstream_gene_variant"	"-/3022"	"-/1605"	"-/534"	""	""	""	"1"	"1286"	-1	"C15orf52"	"HGNC"	33488	"protein_coding"	"YES"	"CCDS10055.2"	"ENSP00000453969"	"Q6ZUT6"	"H0YM82,H0YK65"	"UPI00001C0AEA"	"NM_207380.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"02902606-0702-11e6-b64c-fda491d6e046"	"1080"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191489361702128	"WGS"	FALSE
"12553"	"ZNF280D"	54816	"mskcc.org"	"GRCh37"	"15"	56957901	56957902	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAA"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1994+685_1994+691dupTTTTTTT"	""	""	"ENST00000267807"	""	99	"."	5	46	"."	0	"ZNF280D,intron_variant,,ENST00000559237,NM_001002843.1;ZNF280D,intron_variant,,ENST00000559000,;ZNF280D,intron_variant,,ENST00000267807,NM_017661.2,NM_001288588.1;ZNF280D,intron_variant,,ENST00000396245,;ZNF280D,intron_variant,,ENST00000560002,;ZNF280D,intron_variant,,ENST00000558067,;ZNF280D,downstream_gene_variant,,ENST00000558002,;ZNF280D,downstream_gene_variant,,ENST00000560121,;"	"AAAAAAA"	"ENSG00000137871"	"ENST00000267807"	"Transcript"	"intron_variant"	"-/4328"	"-/2940"	"-/979"	""	""	""	"1"	NA	-1	"ZNF280D"	"HGNC"	25953	"protein_coding"	"YES"	"CCDS32245.1"	"ENSP00000267807"	"Q6N043"	"H0YN90"	"UPI00003FF962"	"NM_017661.2,NM_001288588.1"	NA	NA	""	"16/21"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"6b54c192-0702-11e6-b64c-fda491d6e046"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0505050505050505	"WGS"	FALSE
"12554"	"RAB8B"	51762	"mskcc.org"	"GRCh37"	"15"	63478774	63478774	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000321437"	""	117	"."	14	59	"."	0	"RAB8B,upstream_gene_variant,,ENST00000321437,NM_016530.2;RAB8B,upstream_gene_variant,,ENST00000448330,;RAB8B,upstream_gene_variant,,ENST00000559006,;RAB8B,upstream_gene_variant,,ENST00000558119,;RAB8B,upstream_gene_variant,,ENST00000559927,;RAB8B,upstream_gene_variant,,ENST00000558990,;"	"-"	"ENSG00000166128"	"ENST00000321437"	"Transcript"	"upstream_gene_variant"	"-/4943"	"-/624"	"-/207"	""	""	""	"1"	"2894"	1	"RAB8B"	"HGNC"	30273	"protein_coding"	"YES"	"CCDS10183.1"	"ENSP00000312734"	"Q92930"	""	"UPI00000412A7"	"NM_016530.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"0facee16-0700-11e6-b64c-fda491d6e046"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.11965811965812	"WGS"	FALSE
"12555"	"GOLGA2P7"	642423	"mskcc.org"	"GRCh37"	"15"	84883612	84883613	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTT"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.286-9547_286-9542dupAAAAAA"	""	""	"ENST00000316967"	""	80	"."	5	50	"."	0	"GOLGA2P7,intron_variant,,ENST00000559668,;GOLGA2P7,intron_variant,,ENST00000400817,;GOLGA2P7,intron_variant,,ENST00000316967,;GOLGA2P7,intron_variant,,ENST00000559654,;GOLGA2P7,intron_variant,,ENST00000557980,;GOLGA2P7,intron_variant,,ENST00000557881,;"	"TTTTTT"	"ENSG00000225151"	"ENST00000316967"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2525"	""	""	""	""	""	"1"	NA	-1	"GOLGA2P7"	"HGNC"	49516	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"20158562-0703-11e6-b64c-fda491d6e046"	"23"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"12556"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	16651607	16651609	"+"	"IGR"	"DEL"	"AAT"	"AAT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AAT"	"AAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"."	11	42	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAATA"	"325ca916-06ff-11e6-8dff-a211a54676a0"	"357"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115789473684211	"WGS"	FALSE
"12557"	"KIAA0556"	23247	"mskcc.org"	"GRCh37"	"16"	27568771	27568771	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7+7273delG"	""	""	"ENST00000261588"	""	94	"."	5	58	"."	0	"KIAA0556,intron_variant,,ENST00000261588,NM_015202.2;KIAA0556,intron_variant,,ENST00000566023,;"	"-"	"ENSG00000047578"	"ENST00000261588"	"Transcript"	"intron_variant"	"-/6616"	"-/4857"	"-/1618"	""	""	""	"1"	NA	1	"KIAA0556"	"HGNC"	29068	"protein_coding"	"YES"	"CCDS32415.1"	"ENSP00000261588"	"O60303"	"B4DHT8"	"UPI000045693C"	"NM_015202.2"	NA	NA	""	"1/27"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"976789fc-06ff-11e6-8dff-a211a54676a0"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0531914893617021	"WGS"	FALSE
"12558"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	33598096	33598096	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	173	"."	16	121	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCC"	"e4168988-06ff-11e6-8dff-a211a54676a0"	"950"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.092485549132948	"WGS"	FALSE
"12559"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	35285042	35285072	"+"	"IGR"	"DEL"	"CTGCAAGTGGATATATGCAGCGCTTTGAGGC"	"CTGCAAGTGGATATATGCAGCGCTTTGAGGC"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"CTGCAAGTGGATATATGCAGCGCTTTGAGGC"	"CTGCAAGTGGATATATGCAGCGCTTTGAGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"."	15	70	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCTGCAAGTGGATATATGCAGCGCTTTGAGGCC"	"f4971e4e-06ff-11e6-8dff-a211a54676a0"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220588235294118	"WGS"	FALSE
"12560"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	52181636	52181636	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"."	5	67	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTCT"	"c388bfc8-074b-11e6-8dff-a211a54676a0"	"265"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0462962962962963	"WGS"	FALSE
"12561"	"RP11-343H19.1"	0	"mskcc.org"	"GRCh37"	"16"	56756168	56756168	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.463+7250delG"	""	""	"ENST00000561663"	""	84	"."	18	55	"."	0	"RP11-343H19.1,intron_variant,,ENST00000561663,;RP11-343H19.1,intron_variant,,ENST00000564560,;"	"-"	"ENSG00000261302"	"ENST00000561663"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1018"	""	""	""	""	""	"1"	NA	-1	"RP11-343H19.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACC"	"d5fd4c8c-074b-11e6-8dff-a211a54676a0"	"1080"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"12562"	"SLC12A3"	6559	"mskcc.org"	"GRCh37"	"16"	56909452	56909453	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1096-2533_1096-2532delAG"	""	""	"ENST00000438926"	""	77	"."	18	53	"."	0	"SLC12A3,intron_variant,,ENST00000438926,NM_001126108.1,NM_000339.2,NM_001126107.1;SLC12A3,intron_variant,,ENST00000262502,;SLC12A3,intron_variant,,ENST00000563236,;SLC12A3,intron_variant,,ENST00000566786,;"	"-"	"ENSG00000070915"	"ENST00000438926"	"Transcript"	"intron_variant"	"-/5567"	"-/3093"	"-/1030"	""	""	""	"1"	NA	1	"SLC12A3"	"HGNC"	10912	"protein_coding"	"YES"	"CCDS10770.1"	"ENSP00000402152"	"P55017"	""	"UPI00001FF243"	"NM_001126108.1,NM_000339.2,NM_001126107.1"	NA	NA	""	"8/25"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAGA"	"d6f487c2-074b-11e6-8dff-a211a54676a0"	"1080"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233766233766234	"WGS"	FALSE
"12563"	"INTS2"	57508	"mskcc.org"	"GRCh37"	"17"	60002696	60002697	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.318-237dupA"	""	""	"ENST00000444766"	""	94	"."	17	52	"."	0	"INTS2,intron_variant,,ENST00000444766,NM_020748.2;INTS2,intron_variant,,ENST00000251334,;INTS2,downstream_gene_variant,,ENST00000583076,;"	"T"	"ENSG00000108506"	"ENST00000444766"	"Transcript"	"intron_variant"	"-/5878"	"-/3615"	"-/1204"	""	""	""	"1"	NA	-1	"INTS2"	"HGNC"	29241	"protein_coding"	"YES"	"CCDS45750.1"	"ENSP00000414237"	"Q9H0H0"	"J3KRH0,J3KMZ7"	"UPI0000E5A03A"	"NM_020748.2"	NA	NA	""	"2/24"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"52af13ca-0704-11e6-ab32-a5154f5d8b95"	"1020"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180851063829787	"WGS"	FALSE
"12564"	"CACNG5"	27091	"mskcc.org"	"GRCh37"	"17"	64884485	64884485	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000533854"	""	78	"."	17	40	"."	0	"CACNG5,downstream_gene_variant,,ENST00000533854,;CACNG5,downstream_gene_variant,,ENST00000169565,;CACNG5,downstream_gene_variant,,ENST00000307139,NM_145811.2;"	"-"	"ENSG00000075429"	"ENST00000533854"	"Transcript"	"downstream_gene_variant"	"-/1311"	"-/828"	"-/275"	""	""	""	"1"	"2882"	1	"CACNG5"	"HGNC"	1409	"protein_coding"	"YES"	"CCDS11665.1"	"ENSP00000436836"	"Q9UF02"	""	"UPI0000001240"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACC"	"5ee52d6c-0701-11e6-ab32-a5154f5d8b95"	"988"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217948717948718	"WGS"	FALSE
"12565"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	68540951	68540952	"+"	"IGR"	"INS"	"-"	"-"	"AATT"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"."	6	73	"."	0	""	"AATT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"92a2f280-0704-11e6-ab32-a5154f5d8b95"	"340"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0508474576271186	"WGS"	FALSE
"12566"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	27207148	27207148	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"."	23	68	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"44fcde96-0700-11e6-8bea-e538776b18f6"	"1380"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242105263157895	"WGS"	FALSE
"12567"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	40753026	40753026	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"."	15	48	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"774819ec-0700-11e6-8bea-e538776b18f6"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223880597014925	"WGS"	FALSE
"12568"	"LMAN1"	3998	"mskcc.org"	"GRCh37"	"18"	57014553	57014569	"+"	"Intron"	"DEL"	"AAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.822+176_822+192delTTTTTTTTTTTTTTTTT"	""	""	"ENST00000251047"	""	50	"."	8	22	"."	0	"LMAN1,intron_variant,,ENST00000251047,NM_005570.3;LMAN1,intron_variant,,ENST00000587940,;"	"-"	"ENSG00000074695"	"ENST00000251047"	"Transcript"	"intron_variant"	"-/5521"	"-/1533"	"-/510"	""	""	""	"1"	NA	-1	"LMAN1"	"HGNC"	6631	"protein_coding"	"YES"	"CCDS11974.1"	"ENSP00000251047"	"P49257"	""	"UPI000012A0DD"	"NM_005570.3"	NA	NA	""	"7/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCAAAAAAAAAAAAAAAAAA"	"bfc08600-0700-11e6-8bea-e538776b18f6"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WGS"	FALSE
"12569"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	62333919	62333919	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"."	17	78	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"d768e612-0700-11e6-8bea-e538776b18f6"	"1020"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.17	"WGS"	FALSE
"12570"	"GNG7"	2788	"mskcc.org"	"GRCh37"	"19"	2525969	2525970	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTTTTTTTTTTTT"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-37-5247_-37-5246insAAAAAAAAAAAAAAAAAAA"	""	""	"ENST00000382159"	""	84	"."	5	49	"."	0	"GNG7,intron_variant,,ENST00000382159,NM_052847.2;GNG7,intron_variant,,ENST00000587867,;"	"TTTTTTTTTTTTTTTTTTT"	"ENSG00000176533"	"ENST00000382159"	"Transcript"	"intron_variant"	"-/4208"	"-/207"	"-/68"	""	""	""	"1"	NA	-1	"GNG7"	"HGNC"	4410	"protein_coding"	"YES"	"CCDS12091.1"	"ENSP00000371594"	"O60262"	""	"UPI000012B22E"	"NM_052847.2"	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"e7972608-0704-11e6-ae1c-9a96dc32ad00"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0595238095238095	"WGS"	FALSE
"12571"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	8819893	8819913	"+"	"IGR"	"DEL"	"CTATCTATCTATCTATAAGGT"	"CTATCTATCTATCTATAAGGT"	"AAGGTTA"	"novel"	NA	"JHRCC350"	"W0006120F"	"CTATCTATCTATCTATAAGGT"	"CTATCTATCTATCTATAAGGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	10	51	"."	0	""	"AAGGTTA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCTATCTATCTATCTATAAGGTT"	"9c561d66-0704-11e6-ae1c-9a96dc32ad00"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108695652173913	"WGS"	FALSE
"12572"	"ZNF93"	81931	"mskcc.org"	"GRCh37"	"19"	20032607	20032608	"+"	"Intron"	"INS"	"-"	"-"	"GATCTTCCTCCATCCCTTTATTTTGAGCCTATGTGTGTCTCTGCAT"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.226+5145_226+5190dupATCTTCCTCCATCCCTTTATTTTGAGCCTATGTGTGTCTCTGCATG"	""	""	"ENST00000343769"	""	119	"."	10	78	"."	0	"ZNF93,intron_variant,,ENST00000343769,NM_031218.3;ZNF93,intron_variant,,ENST00000592160,;ZNF93,intron_variant,,ENST00000591366,;ZNF93,intron_variant,,ENST00000588146,;AC007204.2,intron_variant,,ENST00000592245,;ZNF93,intron_variant,,ENST00000589903,;ZNF93,intron_variant,,ENST00000586021,;"	"GATCTTCCTCCATCCCTTTATTTTGAGCCTATGTGTGTCTCTGCAT"	"ENSG00000184635"	"ENST00000343769"	"Transcript"	"intron_variant"	"-/2648"	"-/1863"	"-/620"	""	""	""	"1"	NA	1	"ZNF93"	"HGNC"	13169	"protein_coding"	"YES"	"CCDS32973.1"	"ENSP00000342002"	"P35789"	"K7EPV7,B4DJ46"	"UPI00002263B9"	"NM_031218.3"	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"47"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"cc5a0d3c-0705-11e6-ae1c-9a96dc32ad00"	"431"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0840336134453782	"WGS"	FALSE
"12573"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	20226325	20226325	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"."	19	58	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACC"	"22b8a37c-0702-11e6-a06b-c38a9c128b2a"	"1081"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213483146067416	"WGS"	FALSE
"12574"	"ALK"	238	"mskcc.org"	"GRCh37"	"2"	29639217	29639218	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1155-32493dupA"	""	""	"ENST00000389048"	""	104	"."	19	46	"."	0	"ALK,intron_variant,,ENST00000389048,NM_004304.4;ALK,intron_variant,,ENST00000431873,;"	"T"	"ENSG00000171094"	"ENST00000389048"	"Transcript"	"intron_variant"	"-/6220"	"-/4863"	"-/1620"	""	""	""	"1"	NA	-1	"ALK"	"HGNC"	427	"protein_coding"	"YES"	"CCDS33172.1"	"ENSP00000373700"	"Q9UM73"	"Q580I3"	"UPI00001684DA"	"NM_004304.4"	NA	NA	""	"4/28"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"1106036c-0708-11e6-a06b-c38a9c128b2a"	"1140"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182692307692308	"WGS"	TRUE
"12575"	"GALM"	130589	"mskcc.org"	"GRCh37"	"2"	38941345	38941346	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.635-15345dupT"	""	""	"ENST00000272252"	""	117	"."	20	69	"."	0	"GALM,intron_variant,,ENST00000272252,NM_138801.2;GALM,intron_variant,,ENST00000410063,;GALM,intron_variant,,ENST00000434934,;GALM,intron_variant,,ENST00000444351,;"	"T"	"ENSG00000143891"	"ENST00000272252"	"Transcript"	"intron_variant"	"-/2484"	"-/1029"	"-/342"	""	""	""	"1"	NA	1	"GALM"	"HGNC"	24063	"protein_coding"	"YES"	"CCDS1797.1"	"ENSP00000272252"	"Q96C23"	""	"UPI00000702E1"	"NM_138801.2"	NA	NA	""	"4/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"4e938a06-0708-11e6-a06b-c38a9c128b2a"	"1200"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170940170940171	"WGS"	FALSE
"12576"	"ANAPC1P1"	0	"mskcc.org"	"GRCh37"	"2"	87132251	87132252	"+"	"Intron"	"INS"	"-"	"-"	"AAAAT"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1881+564_1881+565insAAATA"	""	""	"ENST00000426186"	""	64	"."	7	36	"."	0	"RGPD1,upstream_gene_variant,,ENST00000409776,;ANAPC1P1,intron_variant,,ENST00000426186,;"	"AAAAT"	"ENSG00000233673"	"ENST00000426186"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2149"	""	""	""	""	""	"1"	NA	1	"ANAPC1P1"	"HGNC"	44150	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"15/16"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"28781a3e-0709-11e6-a06b-c38a9c128b2a"	"353"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109375	"WGS"	FALSE
"12577"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	89178715	89178715	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"."	16	56	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAC"	"acfeab02-0703-11e6-a06b-c38a9c128b2a"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172043010752688	"WGS"	FALSE
"12578"	"MARCO"	8685	"mskcc.org"	"GRCh37"	"2"	119744197	119744248	"+"	"Intron"	"DEL"	"GAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAGGAAGGAAGGAAGGAAG"	"GAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAGGAAGGAAGGAAGGAAG"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"GAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAGGAAGGAAGGAAGGAAG"	"GAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAGGAAGGAAGGAAGGAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1064-3933_1064-3882delGGAAGGAAGGAAGGAAGGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAA"	""	""	"ENST00000327097"	""	77	"."	7	42	"."	0	"MARCO,intron_variant,,ENST00000541757,;MARCO,intron_variant,,ENST00000327097,NM_006770.3;"	"-"	"ENSG00000019169"	"ENST00000327097"	"Transcript"	"intron_variant"	"-/1838"	"-/1563"	"-/520"	""	""	""	"1"	NA	1	"MARCO"	"HGNC"	6895	"protein_coding"	"YES"	"CCDS2124.1"	"ENSP00000318916"	"Q9UEW3"	"Q4ZG40,C9JKT8,B4DW79,B4DLJ6"	"UPI0000000DF8"	"NM_006770.3"	NA	NA	""	"12/16"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"35"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAGGAAGGAAGGAAGGAAGG"	"7387973e-0704-11e6-a06b-c38a9c128b2a"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"12579"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	124057082	124057382	"+"	"IGR"	"DEL"	"TATTTCTATTTTCTTAATATATCAGTTGTTTAATAGAAGTTTATAATTTTAATAAATTATATTATCTATATCACTTTTAGTGTCCTATTTTCTTTTCACTTGAAAGTCTAGGATCATAAATTTATTTTGTGTGGTGTATAGGTATTATGTTATATTCTTGGGCCTACAGAGGCCTGAATGCTTGTACAGAACTGTATGGATGGCCAAGAAATACCTGTTAAAGCTTCAGTCTGACCTCAAGGGCATGTACAATTAGGAAGTGATGGCTAAGGTAGTGTTTTAAACTGCTTGAGCCTTGAAG"	"TATTTCTATTTTCTTAATATATCAGTTGTTTAATAGAAGTTTATAATTTTAATAAATTATATTATCTATATCACTTTTAGTGTCCTATTTTCTTTTCACTTGAAAGTCTAGGATCATAAATTTATTTTGTGTGGTGTATAGGTATTATGTTATATTCTTGGGCCTACAGAGGCCTGAATGCTTGTACAGAACTGTATGGATGGCCAAGAAATACCTGTTAAAGCTTCAGTCTGACCTCAAGGGCATGTACAATTAGGAAGTGATGGCTAAGGTAGTGTTTTAAACTGCTTGAGCCTTGAAG"	"CTTTCTGATCTGTATGT"	"novel"	NA	"JHRCC350"	"W0006120F"	"TATTTCTATTTTCTTAATATATCAGTTGTTTAATAGAAGTTTATAATTTTAATAAATTATATTATCTATATCACTTTTAGTGTCCTATTTTCTTTTCACTTGAAAGTCTAGGATCATAAATTTATTTTGTGTGGTGTATAGGTATTATGTTATATTCTTGGGCCTACAGAGGCCTGAATGCTTGTACAGAACTGTATGGATGGCCAAGAAATACCTGTTAAAGCTTCAGTCTGACCTCAAGGGCATGTACAATTAGGAAGTGATGGCTAAGGTAGTGTTTTAAACTGCTTGAGCCTTGAAG"	"TATTTCTATTTTCTTAATATATCAGTTGTTTAATAGAAGTTTATAATTTTAATAAATTATATTATCTATATCACTTTTAGTGTCCTATTTTCTTTTCACTTGAAAGTCTAGGATCATAAATTTATTTTGTGTGGTGTATAGGTATTATGTTATATTCTTGGGCCTACAGAGGCCTGAATGCTTGTACAGAACTGTATGGATGGCCAAGAAATACCTGTTAAAGCTTCAGTCTGACCTCAAGGGCATGTACAATTAGGAAGTGATGGCTAAGGTAGTGTTTTAAACTGCTTGAGCCTTGAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"."	10	63	"."	0	""	"CTTTCTGATCTGTATGT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATATTTCTATTTTCTTAATATATCAGTTGTTTAATAGAAGTTTATAATTTTAATAAATTATATTATCTATATCACTTTTAGTGTCCTATTTTCTTTTCACTTGAAAGTCTAGGATCATAAATTTATTTTGTGTGGTGTATAGGTATTATGTTATATTCTTGGGCCTACAGAGGCCTGAATGCTTGTACAGAACTGTATGGATGGCCAAGAAATACCTGTTAAAGCTTCAGTCTGACCTCAAGGGCATGTACAATTAGGAAGTGATGGCTAAGGTAGTGTTTTAAACTGCTTGAGCCTTGAAGA"	"56830b48-0707-11e6-a06b-c38a9c128b2a"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"12580"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	126966815	126966815	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"."	17	55	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATT"	"95b1fbf6-0704-11e6-a06b-c38a9c128b2a"	"1020"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197674418604651	"WGS"	FALSE
"12581"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	166085870	166085870	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"."	10	54	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAT"	"63fdc03a-0705-11e6-a06b-c38a9c128b2a"	"600"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128205128205128	"WGS"	FALSE
"12582"	"SCN1A"	6323	"mskcc.org"	"GRCh37"	"2"	166925843	166925850	"+"	"Intron"	"DEL"	"TGCATAGA"	"TGCATAGA"	"GATGGT"	"rs386652344"	NA	"JHRCC350"	"W0006120F"	"TGCATAGA"	"TGCATAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.264+4018_264+4025delTCTATGCAinsACCATC"	""	""	"ENST00000303395"	""	97	"."	32	67	"."	0	"SCN1A,intron_variant,,ENST00000423058,NM_001165963.1,NM_001202435.1;SCN1A,intron_variant,,ENST00000303395,;SCN1A,intron_variant,,ENST00000375405,NM_001165964.1,NM_006920.4;SCN1A,intron_variant,,ENST00000409050,;AC010127.3,intron_variant,,ENST00000595647,;AC010127.3,intron_variant,,ENST00000599041,;SCN1A,downstream_gene_variant,,ENST00000507401,;"	"GATGGT"	"ENSG00000144285"	"ENST00000303395"	"Transcript"	"intron_variant"	"-/8112"	"-/6030"	"-/2009"	""	""	"rs386652344"	"1"	NA	-1	"SCN1A"	"HGNC"	10585	"protein_coding"	"YES"	"CCDS54413.1"	"ENSP00000303540"	"P35498"	"F8T7W7"	"UPI000003C71D"	""	NA	NA	""	"1/25"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GATGCATAGAT"	"6547d29e-0707-11e6-a06b-c38a9c128b2a"	"1920"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329896907216495	"WGS"	FALSE
"12583"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	174642388	174642392	"+"	"IGR"	"DEL"	"ATATG"	"ATATG"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"ATATG"	"ATATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"."	6	26	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATATGA"	"9b7ef15a-0705-11e6-a06b-c38a9c128b2a"	"345"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"12584"	"ABI2"	10152	"mskcc.org"	"GRCh37"	"2"	204260022	204260022	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.708-353delA"	""	""	"ENST00000261017"	""	84	"."	15	66	"."	0	"ABI2,intron_variant,,ENST00000295851,NM_001282925.1;ABI2,intron_variant,,ENST00000261017,NM_005759.4;ABI2,intron_variant,,ENST00000422511,;RAPH1,intron_variant,,ENST00000457812,;ABI2,intron_variant,,ENST00000424558,NM_001282926.1;ABI2,intron_variant,,ENST00000261018,;ABI2,intron_variant,,ENST00000261016,NM_001282927.1;ABI2,intron_variant,,ENST00000430418,;ABI2,intron_variant,,ENST00000417864,;ABI2,intron_variant,,ENST00000454023,;ABI2,intron_variant,,ENST00000451591,;ABI2,intron_variant,,ENST00000430574,;ABI2,intron_variant,,ENST00000411547,;ABI2,intron_variant,,ENST00000416396,;ABI2,intron_variant,,ENST00000422719,;ABI2,intron_variant,,ENST00000441061,;ABI2,intron_variant,,ENST00000416001,;"	"-"	"ENSG00000138443"	"ENST00000261017"	"Transcript"	"intron_variant"	"-/6484"	"-/1428"	"-/475"	""	""	""	"1"	NA	1	"ABI2"	"HGNC"	24011	"protein_coding"	"YES"	"CCDS2358.1"	"ENSP00000261017"	"Q9NYB9"	"Q53SH3,Q53RS4,B7ZAM8"	"UPI0000070712"	"NM_005759.4"	NA	NA	""	"5/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"30f510a2-0706-11e6-a06b-c38a9c128b2a"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"12585"	"WDFY1"	57590	"mskcc.org"	"GRCh37"	"2"	224760872	224760873	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAAAA"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.599-535_599-526dupTTTTTTTTTT"	""	""	"ENST00000233055"	""	109	"."	5	64	"."	0	"WDFY1,intron_variant,,ENST00000233055,NM_020830.3;WDFY1,intron_variant,,ENST00000429915,;WDFY1,intron_variant,,ENST00000493001,;WDFY1,downstream_gene_variant,,ENST00000483061,;WDFY1,upstream_gene_variant,,ENST00000491453,;"	"AAAAAAAAAA"	"ENSG00000085449"	"ENST00000233055"	"Transcript"	"intron_variant"	"-/4660"	"-/1233"	"-/410"	""	""	""	"1"	NA	-1	"WDFY1"	"HGNC"	20451	"protein_coding"	"YES"	"CCDS33387.1"	"ENSP00000233055"	"Q8IWB7"	""	"UPI0000049887"	"NM_020830.3"	NA	NA	""	"6/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"e8a32e82-070b-11e6-a06b-c38a9c128b2a"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0458715596330275	"WGS"	FALSE
"12586"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	228655206	228655207	"+"	"IGR"	"DEL"	"TG"	"TG"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"."	5	49	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGA"	"b4b3c5d2-0706-11e6-a06b-c38a9c128b2a"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0684931506849315	"WGS"	FALSE
"12587"	"AGAP1"	116987	"mskcc.org"	"GRCh37"	"2"	236734772	236734772	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1050+18798delT"	""	""	"ENST00000304032"	""	91	"."	16	56	"."	0	"AGAP1,intron_variant,,ENST00000304032,NM_001037131.2;AGAP1,intron_variant,,ENST00000409538,;AGAP1,intron_variant,,ENST00000336665,NM_014914.4;AGAP1,intron_variant,,ENST00000428334,;AGAP1,intron_variant,,ENST00000409457,NM_001244888.1;"	"-"	"ENSG00000157985"	"ENST00000304032"	"Transcript"	"intron_variant"	"-/10832"	"-/2574"	"-/857"	""	""	""	"1"	NA	1	"AGAP1"	"HGNC"	16922	"protein_coding"	"YES"	"CCDS33408.1"	"ENSP00000307634"	"Q9UPQ3"	"Q53S93,Q4ZG54,Q4ZG22,F5GXM9"	"UPI00005E1AE1"	"NM_001037131.2"	NA	NA	""	"9/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTT"	"e2ed48ec-0706-11e6-a06b-c38a9c128b2a"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175824175824176	"WGS"	FALSE
"12588"	"BOK"	666	"mskcc.org"	"GRCh37"	"2"	242497812	242497812	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000318407"	""	99	"."	20	46	"."	0	"BOK,upstream_gene_variant,,ENST00000318407,NM_032515.4;BOK-AS1,intron_variant,,ENST00000434306,;"	"-"	"ENSG00000176720"	"ENST00000318407"	"Transcript"	"upstream_gene_variant"	"-/2650"	"-/639"	"-/212"	""	""	""	"1"	"324"	1	"BOK"	"HGNC"	1087	"protein_coding"	"YES"	"CCDS2550.1"	"ENSP00000314132"	"Q9UMX3"	"Q53QM7,Q53NU8"	"UPI000006F188"	"NM_032515.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAG"	"fe87b3d0-0706-11e6-a06b-c38a9c128b2a"	"1200"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202020202020202	"WGS"	FALSE
"12589"	"CASC20"	101929244	"mskcc.org"	"GRCh37"	"20"	6513554	6513555	"+"	"3'Flank"	"INS"	"-"	"-"	"GTGA"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000415932"	""	109	"."	19	72	"."	0	"CASC20,downstream_gene_variant,,ENST00000415932,;"	"GTGA"	"ENSG00000229876"	"ENST00000415932"	"Transcript"	"downstream_gene_variant"	"-/1484"	""	""	""	""	""	"1"	"4448"	1	"CASC20"	"HGNC"	49477	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"95a75e5e-0703-11e6-a7e9-9ff3d2dc3d10"	"1140"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174311926605505	"WGS"	FALSE
"12590"	"RP5-988G17.1"	101929312	"mskcc.org"	"GRCh37"	"20"	7349237	7349238	"+"	"3'Flank"	"DEL"	"TA"	"TA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000455299"	""	82	"."	6	55	"."	0	"RP5-988G17.1,downstream_gene_variant,,ENST00000455299,;"	"-"	"ENSG00000224711"	"ENST00000455299"	"Transcript"	"downstream_gene_variant"	"-/748"	""	""	""	""	""	"1"	"958"	1	"RP5-988G17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTAT"	"ece40b06-0701-11e6-a7e9-9ff3d2dc3d10"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"12591"	"CST1"	1469	"mskcc.org"	"GRCh37"	"20"	23724869	23724869	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000304749"	""	88	"."	15	55	"."	0	"CST1,downstream_gene_variant,,ENST00000304749,NM_001898.2;CST1,downstream_gene_variant,,ENST00000398402,;"	"-"	"ENSG00000170373"	"ENST00000304749"	"Transcript"	"downstream_gene_variant"	"-/760"	"-/426"	"-/141"	""	""	""	"1"	"3321"	-1	"CST1"	"HGNC"	2473	"protein_coding"	"YES"	"CCDS13160.1"	"ENSP00000305731"	"P01037"	""	"UPI000013E9BC"	"NM_001898.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAA"	"51831dfe-0702-11e6-a7e9-9ff3d2dc3d10"	"880"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170454545454545	"WGS"	FALSE
"12592"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	23795760	23795764	"+"	"IGR"	"DEL"	"CTGGA"	"CTGGA"	"AATG"	"novel"	NA	"JHRCC350"	"W0006120F"	"CTGGA"	"CTGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"."	9	37	"."	0	""	"AATG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTGGAC"	"4e4ab9ca-0703-11e6-a7e9-9ff3d2dc3d10"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"12593"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	38680435	38680435	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"."	19	57	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"a2ee03b6-0702-11e6-a7e9-9ff3d2dc3d10"	"1140"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"12594"	"STMN3"	50861	"mskcc.org"	"GRCh37"	"20"	62273788	62273815	"+"	"Intron"	"DEL"	"CCGGGACCCCCGGGCGCTGCCCTGGGAA"	"CCGGGACCCCCGGGCGCTGCCCTGGGAA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"CCGGGACCCCCGGGCGCTGCCCTGGGAA"	"CCGGGACCCCCGGGCGCTGCCCTGGGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.292-163_292-136delTTCCCAGGGCAGCGCCCGGGGGTCCCGG"	""	""	"ENST00000370053"	""	74	"."	14	46	"."	0	"STMN3,intron_variant,,ENST00000370053,NM_015894.3;STMN3,intron_variant,,ENST00000540534,NM_001276310.1;"	"-"	"ENSG00000197457"	"ENST00000370053"	"Transcript"	"intron_variant"	"-/2255"	"-/543"	"-/180"	""	""	""	"1"	NA	-1	"STMN3"	"HGNC"	15926	"protein_coding"	"YES"	"CCDS13529.1"	"ENSP00000359070"	"Q9NZ72"	"B7Z5G4"	"UPI000013611C"	"NM_015894.3"	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGCCGGGACCCCCGGGCGCTGCCCTGGGAAC"	"3eec7374-0703-11e6-a7e9-9ff3d2dc3d10"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189189189189189	"WGS"	FALSE
"12595"	"KCNJ6"	3763	"mskcc.org"	"GRCh37"	"21"	39116627	39116627	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.26-29193delT"	""	""	"ENST00000609713"	""	100	"."	16	58	"."	0	"KCNJ6,intron_variant,,ENST00000609713,NM_002240.3;KCNJ6,intron_variant,,ENST00000288309,;"	"-"	"ENSG00000157542"	"ENST00000609713"	"Transcript"	"intron_variant"	"-/19645"	"-/1272"	"-/423"	""	""	""	"1"	NA	-1	"KCNJ6"	"HGNC"	6267	"protein_coding"	"YES"	"CCDS42927.1"	"ENSP00000477437"	""	""	"UPI0000000B10"	"NM_002240.3"	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATAA"	"b1bd367c-0703-11e6-9fdb-9a70624f6b53"	"933"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WGS"	FALSE
"12596"	"ENTPD3-AS1"	285266	"mskcc.org"	"GRCh37"	"3"	40493457	40493460	"+"	"Intron"	"DEL"	"CTCA"	"CTCA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"CTCA"	"CTCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.185-187_185-184delTGAG"	""	""	"ENST00000425156"	""	90	"."	15	47	"."	0	"ENTPD3-AS1,intron_variant,,ENST00000425156,;ENTPD3-AS1,intron_variant,,ENST00000420850,;ENTPD3-AS1,intron_variant,,ENST00000452768,;ENTPD3-AS1,intron_variant,,ENST00000439293,;"	"-"	"ENSG00000223797"	"ENST00000425156"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2036"	""	""	""	""	""	"1"	NA	-1	"ENTPD3-AS1"	"HGNC"	26710	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTCAC"	"138efa08-0703-11e6-aeb5-a1157b258646"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"12597"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	66634920	66634923	"+"	"IGR"	"DEL"	"TTGT"	"TTGT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TTGT"	"TTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"."	14	69	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTGTT"	"801f7ada-0703-11e6-aeb5-a1157b258646"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164705882352941	"WGS"	FALSE
"12598"	"PDZRN3"	23024	"mskcc.org"	"GRCh37"	"3"	73486242	73486243	"+"	"Intron"	"INS"	"-"	"-"	"GGTTATATGG"	"rs145193488"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.919-32697_919-32696insCCATATAACC"	""	""	"ENST00000263666"	""	97	"."	8	50	"."	0	"PDZRN3,intron_variant,,ENST00000263666,NM_015009.1;PDZRN3,intron_variant,,ENST00000462146,;PDZRN3,intron_variant,,ENST00000535920,;PDZRN3,intron_variant,,ENST00000466780,;PDZRN3,intron_variant,,ENST00000492909,;PDZRN3,intron_variant,,ENST00000308537,;PDZRN3,upstream_gene_variant,,ENST00000479530,;PDZRN3,intron_variant,,ENST00000498048,;"	"GGTTATATGG"	"ENSG00000121440"	"ENST00000263666"	"Transcript"	"intron_variant"	"-/4248"	"-/3201"	"-/1066"	""	""	"rs145193488"	"1"	NA	-1	"PDZRN3"	"HGNC"	17704	"protein_coding"	"YES"	"CCDS33789.1"	"ENSP00000263666"	"Q9UPQ7"	"E7ENB6"	"UPI00001C1DE6"	"NM_015009.1"	NA	NA	""	"3/9"	""	"TATATGG:0.0821"	"TATATGG:0.0915"	"TATATGG:0.072"	NA	"TATATGG:0.0913"	"TATATGG:0.0586"	"TATATGG:0.091"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"f372379a-0706-11e6-aeb5-a1157b258646"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0824742268041237	"WGS"	FALSE
"12599"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	110093865	110093866	"+"	"IGR"	"INS"	"-"	"-"	"TTT"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"."	18	77	"."	0	""	"TTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"74b1a7be-0707-11e6-aeb5-a1157b258646"	"1080"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"12600"	"STXBP5L"	9515	"mskcc.org"	"GRCh37"	"3"	121113619	121113619	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2660-12466delT"	""	""	"ENST00000273666"	""	72	"."	16	58	"."	0	"STXBP5L,intron_variant,,ENST00000273666,NM_014980.2;STXBP5L,intron_variant,,ENST00000471454,;STXBP5L,intron_variant,,ENST00000471262,;STXBP5L,intron_variant,,ENST00000492541,;STXBP5L,intron_variant,,ENST00000472879,;STXBP5L,intron_variant,,ENST00000497029,;"	"-"	"ENSG00000145087"	"ENST00000273666"	"Transcript"	"intron_variant"	"-/9496"	"-/3561"	"-/1186"	""	""	""	"1"	NA	1	"STXBP5L"	"HGNC"	30757	"protein_coding"	"YES"	"CCDS43137.1"	"ENSP00000273666"	"Q9Y2K9"	"C9JUZ7"	"UPI00001C1DEA"	"NM_014980.2"	NA	NA	""	"23/27"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"4caec4d4-0704-11e6-aeb5-a1157b258646"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"12601"	"PDIA5"	10954	"mskcc.org"	"GRCh37"	"3"	122820753	122820754	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTT"	"rs71623603"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.258-490_258-484dupTTTTTTT"	""	""	"ENST00000316218"	""	93	"."	7	50	"."	0	"PDIA5,intron_variant,,ENST00000316218,NM_006810.3;PDIA5,intron_variant,,ENST00000484644,;PDIA5,intron_variant,,ENST00000495004,;PDIA5,intron_variant,,ENST00000489923,;"	"TTTTTTT"	"ENSG00000065485"	"ENST00000316218"	"Transcript"	"intron_variant"	"-/1799"	"-/1560"	"-/519"	""	""	"rs71623603"	"1"	NA	1	"PDIA5"	"HGNC"	24811	"protein_coding"	"YES"	"CCDS3020.1"	"ENSP00000323313"	"Q14554"	"C9JY10"	"UPI000013148A"	"NM_006810.3"	NA	NA	""	"3/16"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"21"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"aa2d32aa-0707-11e6-aeb5-a1157b258646"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"12602"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	151406855	151406855	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"."	18	50	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"c648d172-0704-11e6-aeb5-a1157b258646"	"1080"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227848101265823	"WGS"	FALSE
"12603"	"ENSR00001747278"	0	"mskcc.org"	"GRCh37"	"3"	152675256	152675365	"+"	"IGR"	"DEL"	"AAGCAAACATCATTTATCCATTATGTCGCTCATTCTTACCAAGCCCAGAGGAGACCTCAGAATTCTTTTCAACATAGCCTTAAAGCCAGTTACTCCAAAAATTAGAATTG"	"AAGCAAACATCATTTATCCATTATGTCGCTCATTCTTACCAAGCCCAGAGGAGACCTCAGAATTCTTTTCAACATAGCCTTAAAGCCAGTTACTCCAAAAATTAGAATTG"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AAGCAAACATCATTTATCCATTATGTCGCTCATTCTTACCAAGCCCAGAGGAGACCTCAGAATTCTTTTCAACATAGCCTTAAAGCCAGTTACTCCAAAAATTAGAATTG"	"AAGCAAACATCATTTATCCATTATGTCGCTCATTCTTACCAAGCCCAGAGGAGACCTCAGAATTCTTTTCAACATAGCCTTAAAGCCAGTTACTCCAAAAATTAGAATTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001747278"	""	82	"."	19	63	"."	0	""	"-"	""	"ENSR00001747278"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAAAGCAAACATCATTTATCCATTATGTCGCTCATTCTTACCAAGCCCAGAGGAGACCTCAGAATTCTTTTCAACATAGCCTTAAAGCCAGTTACTCCAAAAATTAGAATTGG"	"cad0d028-0704-11e6-aeb5-a1157b258646"	"1140"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231707317073171	"WGS"	FALSE
"12604"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	164099104	164099104	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"."	11	71	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"f377ba96-0704-11e6-aeb5-a1157b258646"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126436781609195	"WGS"	FALSE
"12605"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	165567999	165567999	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"."	15	68	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGT"	"f787c518-0704-11e6-aeb5-a1157b258646"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151515151515152	"WGS"	FALSE
"12606"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	166426288	166426288	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs556411309"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"."	16	74	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs556411309"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	"-:0.0006"	"-:0"	"-:0"	NA	"-:0.002"	"-:0.001"	"-:0"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATT"	"fb5fa110-0704-11e6-aeb5-a1157b258646"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216216216216216	"WGS"	FALSE
"12607"	"EGFEM1P"	93556	"mskcc.org"	"GRCh37"	"3"	168510620	168510623	"+"	"Intron"	"DEL"	"TAAG"	"TAAG"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TAAG"	"TAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.400+514_400+517delGTAA"	""	""	"ENST00000506760"	""	90	"."	20	53	"."	0	"EGFEM1P,intron_variant,,ENST00000506760,;EGFEM1P,intron_variant,,ENST00000510136,;EGFEM1P,intron_variant,,ENST00000431685,;"	"-"	"ENSG00000206120"	"ENST00000506760"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/742"	""	""	""	""	""	"1"	NA	1	"EGFEM1P"	"HGNC"	25149	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"4/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTAAGT"	"02f3d360-0705-11e6-aeb5-a1157b258646"	"1200"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"12608"	"TBL1XR1"	79718	"mskcc.org"	"GRCh37"	"3"	176764099	176764099	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.865-122delA"	""	""	"ENST00000430069"	""	92	"."	19	46	"."	0	"TBL1XR1,intron_variant,,ENST00000430069,;TBL1XR1,intron_variant,,ENST00000457928,NM_024665.4;TBL1XR1,downstream_gene_variant,,ENST00000424913,;TBL1XR1,downstream_gene_variant,,ENST00000428970,;TBL1XR1-AS1,intron_variant,,ENST00000454723,;"	"-"	"ENSG00000177565"	"ENST00000430069"	"Transcript"	"intron_variant"	"-/7948"	"-/1545"	"-/514"	""	""	""	"1"	NA	-1	"TBL1XR1"	"HGNC"	29529	"protein_coding"	"YES"	"CCDS46961.1"	"ENSP00000405574"	"Q9BZK7"	"C9JY82,C9JTW8,C9JLJ1,C9JEC9,C9JCW4,C9JCK0,C9JBN1,C9J903,C9J7E1,C9J3H2,C9IYU9"	"UPI0000136A71"	""	NA	NA	""	"9/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACTT"	"240af268-0705-11e6-aeb5-a1157b258646"	"1140"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206521739130435	"WGS"	TRUE
"12609"	"SOX2-OT"	347689	"mskcc.org"	"GRCh37"	"3"	180966064	180966064	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.448+72693delC"	""	""	"ENST00000597347"	""	92	"."	8	50	"."	0	"SOX2-OT,intron_variant,,ENST00000597347,;SOX2-OT,intron_variant,,ENST00000493521,;SOX2-OT,intron_variant,,ENST00000460739,;SOX2-OT,intron_variant,,ENST00000469278,;SOX2-OT,intron_variant,,ENST00000493116,;"	"-"	"ENSG00000242808"	"ENST00000597347"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1342"	""	""	""	""	""	"1"	NA	1	"SOX2-OT"	"HGNC"	20209	"sense_overlapping"	""	""	""	""	""	""	""	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACT"	"336cd294-0705-11e6-aeb5-a1157b258646"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"12610"	"RP11-751L19.1"	0	"mskcc.org"	"GRCh37"	"4"	9739968	9739979	"+"	"Intron"	"DEL"	"ACATATATATAT"	"ACATATATATAT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"ACATATATATAT"	"ACATATATATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.363-1262_363-1251delCATATATATATA"	""	""	"ENST00000513014"	""	50	"."	9	22	"."	0	"RP11-751L19.1,intron_variant,,ENST00000513014,;"	"-"	"ENSG00000249563"	"ENST00000513014"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/541"	""	""	""	""	""	"1"	NA	1	"RP11-751L19.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCACATATATATATA"	"e5d5b99e-0702-11e6-b179-98a5d20f3cb6"	"519"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.18	"WGS"	FALSE
"12611"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	30119301	30119330	"+"	"IGR"	"DEL"	"TCAATCTACAAAACCTTTCATACTGAAACC"	"TCAATCTACAAAACCTTTCATACTGAAACC"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TCAATCTACAAAACCTTTCATACTGAAACC"	"TCAATCTACAAAACCTTTCATACTGAAACC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"."	13	54	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTCAATCTACAAAACCTTTCATACTGAAACCT"	"6c279ed6-0703-11e6-b179-98a5d20f3cb6"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173333333333333	"WGS"	FALSE
"12612"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	35512269	35512272	"+"	"IGR"	"DEL"	"GTTT"	"GTTT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"GTTT"	"GTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"."	12	59	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGTTTG"	"87ae50dc-0703-11e6-b179-98a5d20f3cb6"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"12613"	"KCTD8"	386617	"mskcc.org"	"GRCh37"	"4"	44319245	44319246	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTT"	"rs760060899"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.961+130326_961+130334dupAAAAAAAAA"	""	""	"ENST00000360029"	""	84	"."	5	51	"."	0	"KCTD8,intron_variant,,ENST00000360029,NM_198353.2;KCTD8,intron_variant,,ENST00000515268,;"	"TTTTTTTTT"	"ENSG00000183783"	"ENST00000360029"	"Transcript"	"intron_variant"	"-/2587"	"-/1422"	"-/473"	""	""	"rs760060899"	"1"	NA	-1	"KCTD8"	"HGNC"	22394	"protein_coding"	"YES"	"CCDS3467.1"	"ENSP00000353129"	"Q6ZWB6"	"B4DQJ9"	"UPI00001C08D6"	"NM_198353.2"	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"04b33c54-070a-11e6-b179-98a5d20f3cb6"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0595238095238095	"WGS"	FALSE
"12614"	"RP11-286E11.1"	101929595	"mskcc.org"	"GRCh37"	"4"	108843753	108843755	"+"	"Intron"	"DEL"	"TAT"	"TAT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TAT"	"TAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.149+9372_149+9374delATA"	""	""	"ENST00000499098"	""	86	"."	23	70	"."	0	"RP11-286E11.1,intron_variant,,ENST00000499098,;RP11-286E11.1,intron_variant,,ENST00000513071,;"	"-"	"ENSG00000245293"	"ENST00000499098"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2810"	""	""	""	""	""	"1"	NA	-1	"RP11-286E11.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTATT"	"070a83d0-0706-11e6-b179-98a5d20f3cb6"	"1380"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267441860465116	"WGS"	FALSE
"12615"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	131700358	131700360	"+"	"IGR"	"DEL"	"AAC"	"AAC"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AAC"	"AAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"."	21	48	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAACA"	"91048aea-0706-11e6-b179-98a5d20f3cb6"	"1180"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265822784810127	"WGS"	FALSE
"12616"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	167083437	167083442	"+"	"IGR"	"DEL"	"CTGTTT"	"CTGTTT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"CTGTTT"	"CTGTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"."	17	61	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACTGTTTT"	"8e2638ae-0707-11e6-b179-98a5d20f3cb6"	"1020"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153153153153153	"WGS"	FALSE
"12617"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	179726906	179726907	"+"	"IGR"	"DEL"	"TT"	"TT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"."	9	67	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTT"	"ec8dc66e-0707-11e6-b179-98a5d20f3cb6"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"12618"	"KIAA1430"	57587	"mskcc.org"	"GRCh37"	"4"	186123716	186123717	"+"	"Intron"	"INS"	"-"	"-"	"AAAA"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17+1332_-17+1335dupTTTT"	""	""	"ENST00000458385"	""	71	"."	8	53	"."	0	"KIAA1430,intron_variant,,ENST00000458385,NM_020827.1;KIAA1430,intron_variant,,ENST00000514798,;KIAA1430,intron_variant,,ENST00000296775,;KIAA1430,intron_variant,,ENST00000503223,;SNX25,upstream_gene_variant,,ENST00000504273,;"	"AAAA"	"ENSG00000164323"	"ENST00000458385"	"Transcript"	"intron_variant"	"-/4852"	"-/1599"	"-/532"	""	""	""	"1"	NA	-1	"KIAA1430"	"HGNC"	29276	"protein_coding"	"YES"	"CCDS47168.1"	"ENSP00000409964"	"Q9P2B7"	"D6RDU8"	"UPI00001971F9"	"NM_020827.1"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"b1384980-070d-11e6-b179-98a5d20f3cb6"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112676056338028	"WGS"	FALSE
"12619"	"AHRR"	57491	"mskcc.org"	"GRCh37"	"5"	338602	338602	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3-5406delA"	""	""	"ENST00000316418"	""	82	"."	16	42	"."	0	"AHRR,intron_variant,,ENST00000316418,NM_020731.4;AHRR,intron_variant,,ENST00000505113,NM_001242412.1;AHRR,intron_variant,,ENST00000512529,;AHRR,intron_variant,,ENST00000510400,;AHRR,intron_variant,,ENST00000514523,;AHRR,intron_variant,,ENST00000515206,;PDCD6,intron_variant,,ENST00000506909,;"	"-"	"ENSG00000063438"	"ENST00000316418"	"Transcript"	"intron_variant"	"-/5661"	"-/2160"	"-/719"	""	""	""	"1"	NA	1	"AHRR"	"HGNC"	346	"protein_coding"	"YES"	"CCDS43297.1"	"ENSP00000323816"	"A9YTQ3"	"E5RGQ2,E5RFG4"	"UPI00004572BE"	"NM_020731.4"	NA	NA	""	"1/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAG"	"9a1a9074-0702-11e6-9ee9-a5cacadd21cd"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195121951219512	"WGS"	FALSE
"12620"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	5815920	5815921	"+"	"IGR"	"DEL"	"AT"	"AT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"."	15	59	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAATT"	"b5b80dfc-0702-11e6-9ee9-a5cacadd21cd"	"755"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WGS"	FALSE
"12621"	"CTNND2"	1501	"mskcc.org"	"GRCh37"	"5"	11043669	11043669	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2789-20578delT"	""	""	"ENST00000304623"	""	87	"."	28	64	"."	0	"CTNND2,intron_variant,,ENST00000304623,NM_001332.2,NM_001288716.1,NM_001288715.1;CTNND2,intron_variant,,ENST00000359640,;CTNND2,intron_variant,,ENST00000511377,;CTNND2,intron_variant,,ENST00000458100,;CTNND2,intron_variant,,ENST00000503622,;CTNND2,intron_variant,,ENST00000495388,;CTNND2,intron_variant,,ENST00000513588,;CTNND2,intron_variant,,ENST00000504499,;"	"-"	"ENSG00000169862"	"ENST00000304623"	"Transcript"	"intron_variant"	"-/5481"	"-/3678"	"-/1225"	""	""	""	"1"	NA	-1	"CTNND2"	"HGNC"	2516	"protein_coding"	"YES"	"CCDS3881.1"	"ENSP00000307134"	"Q9UQB3"	"E7EPC8,D6RF55,D6RBA8,D6R9A8"	"UPI000013E9AB"	"NM_001332.2,NM_001288716.1,NM_001288715.1"	NA	NA	""	"16/21"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGAA"	"cabd6a3a-0702-11e6-9ee9-a5cacadd21cd"	"1680"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32183908045977	"WGS"	FALSE
"12622"	"CDH12"	1010	"mskcc.org"	"GRCh37"	"5"	21754774	21754774	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1885+926delA"	""	""	"ENST00000382254"	""	77	"."	12	34	"."	0	"CDH12,intron_variant,,ENST00000382254,NM_004061.3;CDH12,intron_variant,,ENST00000504376,;CDH12,intron_variant,,ENST00000522262,;RP11-804N13.1,intron_variant,,ENST00000522350,;CDH12,intron_variant,,ENST00000521384,;CDH12,intron_variant,,ENST00000517378,;"	"-"	"ENSG00000154162"	"ENST00000382254"	"Transcript"	"intron_variant"	"-/4164"	"-/2385"	"-/794"	""	""	""	"1"	NA	-1	"CDH12"	"HGNC"	1751	"protein_coding"	"YES"	"CCDS3890.1"	"ENSP00000371689"	"P55289"	"B3KRT0"	"UPI00000622EB"	"NM_004061.3"	NA	NA	""	"14/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"01561164-0703-11e6-9ee9-a5cacadd21cd"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155844155844156	"WGS"	FALSE
"12623"	"PDZD2"	23037	"mskcc.org"	"GRCh37"	"5"	31728121	31728122	"+"	"Intron"	"INS"	"-"	"-"	"G"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-360-70875_-360-70874insG"	""	""	"ENST00000438447"	""	86	"."	8	42	"."	0	"PDZD2,intron_variant,,ENST00000438447,;PDZD2,intron_variant,,ENST00000513910,;PDZD2,intron_variant,,ENST00000502824,;RP11-5N11.1,upstream_gene_variant,,ENST00000504053,;"	"G"	"ENSG00000133401"	"ENST00000438447"	"Transcript"	"intron_variant"	"-/11704"	"-/8520"	"-/2839"	""	""	""	"1"	NA	1	"PDZD2"	"HGNC"	18486	"protein_coding"	"YES"	"CCDS34137.1"	"ENSP00000402033"	"O15018"	"B4DGS3"	"UPI000069648B"	""	NA	NA	""	"1/24"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"a804ca02-0706-11e6-9ee9-a5cacadd21cd"	"480"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"12624"	"MAP3K1"	4214	"mskcc.org"	"GRCh37"	"5"	56119712	56119713	"+"	"Intron"	"DEL"	"GT"	"GT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"GT"	"GT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.482+7836_482+7837delGT"	""	""	"ENST00000399503"	""	103	"."	17	62	"."	0	"MAP3K1,intron_variant,,ENST00000399503,NM_005921.1;"	"-"	"ENSG00000095015"	"ENST00000399503"	"Transcript"	"intron_variant"	"-/7011"	"-/4539"	"-/1512"	""	""	""	"1"	NA	1	"MAP3K1"	"HGNC"	6848	"protein_coding"	"YES"	"CCDS43318.1"	"ENSP00000382423"	"Q13233"	""	"UPI000015153B"	"NM_005921.1"	NA	NA	""	"1/19"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCGTG"	"d698eb8a-0703-11e6-9ee9-a5cacadd21cd"	"1020"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16504854368932	"WGS"	TRUE
"12625"	"MCCC2"	64087	"mskcc.org"	"GRCh37"	"5"	70894002	70894369	"+"	"Intron"	"DEL"	"GATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGATTACAGGTGTGCACCACCATGCCCAGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGCCCAGGATGGTCTCAATCTCTTGACCTCGTGATCTGCCCACCTTGGCCTCCCAAAGTGCCGGGATTACAGGCATGAGCCACCACACCAGCCGATAAGTGAGTGTTTCTAAAGCCTTTAGAAGAGAGCCTGGTATTTGGAAAGGATTTTTATTTTAATTAATTAATTAATTATTTATTTTTTGAGATGGAGTTTTGCCCTGTTGCCCAGGCTGGGGTGCAGTGGCATGATCTCAGCTCACTGAAACCTCTGCCTTCCGGATTCAGGT"	"GATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGATTACAGGTGTGCACCACCATGCCCAGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGCCCAGGATGGTCTCAATCTCTTGACCTCGTGATCTGCCCACCTTGGCCTCCCAAAGTGCCGGGATTACAGGCATGAGCCACCACACCAGCCGATAAGTGAGTGTTTCTAAAGCCTTTAGAAGAGAGCCTGGTATTTGGAAAGGATTTTTATTTTAATTAATTAATTAATTATTTATTTTTTGAGATGGAGTTTTGCCCTGTTGCCCAGGCTGGGGTGCAGTGGCATGATCTCAGCTCACTGAAACCTCTGCCTTCCGGATTCAGGT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"GATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGATTACAGGTGTGCACCACCATGCCCAGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGCCCAGGATGGTCTCAATCTCTTGACCTCGTGATCTGCCCACCTTGGCCTCCCAAAGTGCCGGGATTACAGGCATGAGCCACCACACCAGCCGATAAGTGAGTGTTTCTAAAGCCTTTAGAAGAGAGCCTGGTATTTGGAAAGGATTTTTATTTTAATTAATTAATTAATTATTTATTTTTTGAGATGGAGTTTTGCCCTGTTGCCCAGGCTGGGGTGCAGTGGCATGATCTCAGCTCACTGAAACCTCTGCCTTCCGGATTCAGGT"	"GATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGATTACAGGTGTGCACCACCATGCCCAGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGCCCAGGATGGTCTCAATCTCTTGACCTCGTGATCTGCCCACCTTGGCCTCCCAAAGTGCCGGGATTACAGGCATGAGCCACCACACCAGCCGATAAGTGAGTGTTTCTAAAGCCTTTAGAAGAGAGCCTGGTATTTGGAAAGGATTTTTATTTTAATTAATTAATTAATTATTTATTTTTTGAGATGGAGTTTTGCCCTGTTGCCCAGGCTGGGGTGCAGTGGCATGATCTCAGCTCACTGAAACCTCTGCCTTCCGGATTCAGGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.282-1452_282-1085delATTACAGGTGTGCACCACCATGCCCAGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGCCCAGGATGGTCTCAATCTCTTGACCTCGTGATCTGCCCACCTTGGCCTCCCAAAGTGCCGGGATTACAGGCATGAGCCACCACACCAGCCGATAAGTGAGTGTTTCTAAAGCCTTTAGAAGAGAGCCTGGTATTTGGAAAGGATTTTTATTTTAATTAATTAATTAATTATTTATTTTTTGAGATGGAGTTTTGCCCTGTTGCCCAGGCTGGGGTGCAGTGGCATGATCTCAGCTCACTGAAACCTCTGCCTTCCGGATTCAGGTGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGG"	""	""	"ENST00000340941"	""	97	"."	5	57	"."	0	"MCCC2,intron_variant,,ENST00000340941,NM_022132.4;MCCC2,intron_variant,,ENST00000323375,;MCCC2,intron_variant,,ENST00000509358,;MCCC2,intron_variant,,ENST00000507169,;MCCC2,intron_variant,,ENST00000505787,;MCCC2,upstream_gene_variant,,ENST00000510895,;MCCC2,intron_variant,,ENST00000512218,;"	"-"	"ENSG00000131844"	"ENST00000340941"	"Transcript"	"intron_variant"	"-/3665"	"-/1692"	"-/563"	""	""	""	"1"	NA	1	"MCCC2"	"HGNC"	6937	"protein_coding"	"YES"	"CCDS34184.1"	"ENSP00000343657"	"Q9HCC0"	""	"UPI000012ED69"	"NM_022132.4"	NA	NA	""	"3/16"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"32"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGATTACAGGTGTGCACCACCATGCCCAGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGCCCAGGATGGTCTCAATCTCTTGACCTCGTGATCTGCCCACCTTGGCCTCCCAAAGTGCCGGGATTACAGGCATGAGCCACCACACCAGCCGATAAGTGAGTGTTTCTAAAGCCTTTAGAAGAGAGCCTGGTATTTGGAAAGGATTTTTATTTTAATTAATTAATTAATTATTTATTTTTTGAGATGGAGTTTTGCCCTGTTGCCCAGGCTGGGGTGCAGTGGCATGATCTCAGCTCACTGAAACCTCTGCCTTCCGGATTCAGGTG"	"0ca2dd76-0704-11e6-9ee9-a5cacadd21cd"	"285"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0515463917525773	"WGS"	FALSE
"12626"	"RP11-79P5.5"	0	"mskcc.org"	"GRCh37"	"5"	72763238	72763241	"+"	"Intron"	"DEL"	"ATCT"	"ATCT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"ATCT"	"ATCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.88-1964_88-1961delAGAT"	""	""	"ENST00000506196"	""	86	"."	23	53	"."	0	"RP11-79P5.5,intron_variant,,ENST00000506196,;"	"-"	"ENSG00000251324"	"ENST00000506196"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/440"	""	""	""	""	""	"1"	NA	-1	"RP11-79P5.5"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGATCTA"	"12a69064-0704-11e6-9ee9-a5cacadd21cd"	"1380"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267441860465116	"WGS"	FALSE
"12627"	"ANKRD34B"	340120	"mskcc.org"	"GRCh37"	"5"	79851651	79851652	"+"	"3'Flank"	"INS"	"-"	"-"	"TTTTTTT"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000338682"	""	99	"."	5	58	"."	0	"ANKRD34B,downstream_gene_variant,,ENST00000338682,NM_001004441.2;ANKRD34B,downstream_gene_variant,,ENST00000508916,;"	"TTTTTTT"	"ENSG00000189127"	"ENST00000338682"	"Transcript"	"downstream_gene_variant"	"-/3938"	"-/1545"	"-/514"	""	""	""	"1"	"922"	-1	"ANKRD34B"	"HGNC"	33736	"protein_coding"	"YES"	"CCDS34194.1"	"ENSP00000339802"	"A5PLL1"	""	"UPI00003672FA"	"NM_001004441.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"8ac5b4aa-0707-11e6-9ee9-a5cacadd21cd"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0505050505050505	"WGS"	FALSE
"12628"	"RP11-274E7.2"	0	"mskcc.org"	"GRCh37"	"5"	97552005	97552005	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000442824"	""	99	"."	17	56	"."	0	"RP11-274E7.2,downstream_gene_variant,,ENST00000442824,;"	"-"	"ENSG00000238000"	"ENST00000442824"	"Transcript"	"downstream_gene_variant"	"-/720"	""	""	""	""	""	"1"	"2180"	1	"RP11-274E7.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACC"	"7499ad1a-0704-11e6-9ee9-a5cacadd21cd"	"1020"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171717171717172	"WGS"	FALSE
"12629"	"FSTL4"	23105	"mskcc.org"	"GRCh37"	"5"	132859072	132859072	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.160+43805delC"	""	""	"ENST00000265342"	""	84	"."	21	63	"."	0	"FSTL4,intron_variant,,ENST00000265342,NM_015082.1;FSTL4,intron_variant,,ENST00000510685,;"	"-"	"ENSG00000053108"	"ENST00000265342"	"Transcript"	"intron_variant"	"-/5419"	"-/2529"	"-/842"	""	""	""	"1"	NA	-1	"FSTL4"	"HGNC"	21389	"protein_coding"	"YES"	"CCDS34238.1"	"ENSP00000265342"	"Q6MZW2"	""	"UPI000003AFB0"	"NM_015082.1"	NA	NA	""	"3/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"024017d0-0705-11e6-9ee9-a5cacadd21cd"	"1260"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"12630"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	134817681	134817684	"+"	"IGR"	"DEL"	"TGTT"	"TGTT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TGTT"	"TGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"."	7	44	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTGTTT"	"08010ecc-0705-11e6-9ee9-a5cacadd21cd"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"12631"	"ZNF300"	91975	"mskcc.org"	"GRCh37"	"5"	150287651	150287656	"+"	"5'Flank"	"DEL"	"AATCCT"	"AATCCT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AATCCT"	"AATCCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000446148"	""	90	"."	16	68	"."	0	"ZNF300,upstream_gene_variant,,ENST00000427179,;ZNF300,upstream_gene_variant,,ENST00000446148,NM_001172831.1;ZNF300,upstream_gene_variant,,ENST00000274599,NM_052860.2;ZNF300,upstream_gene_variant,,ENST00000394226,;ZNF300,upstream_gene_variant,,ENST00000418587,NM_001172832.1;"	"-"	"ENSG00000145908"	"ENST00000446148"	"Transcript"	"upstream_gene_variant"	"-/3323"	"-/1863"	"-/620"	""	""	""	"1"	"3106"	-1	"ZNF300"	"HGNC"	13091	"protein_coding"	"YES"	"CCDS54940.1"	"ENSP00000397178"	""	"J3KQF6"	"UPI0001AE74AD"	"NM_001172831.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAAATCCTA"	"484ddd52-0705-11e6-9ee9-a5cacadd21cd"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177777777777778	"WGS"	FALSE
"12632"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	27401694	27401695	"+"	"IGR"	"DEL"	"TC"	"TC"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"."	6	60	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCT"	"8e531f94-0703-11e6-8fd6-8ff9279ab66c"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"12633"	"RN7SL471P"	0	"mskcc.org"	"GRCh37"	"6"	28940368	28940368	"+"	"5'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000580476"	""	96	"."	5	54	"."	0	"RN7SL471P,upstream_gene_variant,,ENST00000580476,;KRT18P1,upstream_gene_variant,,ENST00000452408,;"	"-"	"ENSG00000263426"	"ENST00000580476"	"Transcript"	"upstream_gene_variant"	"-/296"	""	""	""	""	""	"1"	"4884"	1	"RN7SL471P"	"HGNC"	46487	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"9b6e90dc-0703-11e6-8fd6-8ff9279ab66c"	"256"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0520833333333333	"WGS"	FALSE
"12634"	"TRERF1"	55809	"mskcc.org"	"GRCh37"	"6"	42393254	42393577	"+"	"Intron"	"DEL"	"CGGCCCCCTGGGCATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTCTCGCACTGTCGTCAGGGCTGGAATGCAATGGTGCGATCTCAGCTCACTGCAACCTCCACCTCCCAGGTTCAAGCAATTCTCCTGCTTCAGCCTCCCGAGTAGCTGGGATTACAGGTGCCAGCCACCACGCCCAGCTAATTTTTTGTATTTTTAGTAGAGACAGGTTTTCACTATGTTAGCCAGGCTGGTCTCGAACTCCTGACCTCGTGATCCGCCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCAGTGCCCCGC"	"CGGCCCCCTGGGCATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTCTCGCACTGTCGTCAGGGCTGGAATGCAATGGTGCGATCTCAGCTCACTGCAACCTCCACCTCCCAGGTTCAAGCAATTCTCCTGCTTCAGCCTCCCGAGTAGCTGGGATTACAGGTGCCAGCCACCACGCCCAGCTAATTTTTTGTATTTTTAGTAGAGACAGGTTTTCACTATGTTAGCCAGGCTGGTCTCGAACTCCTGACCTCGTGATCCGCCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCAGTGCCCCGC"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"CGGCCCCCTGGGCATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTCTCGCACTGTCGTCAGGGCTGGAATGCAATGGTGCGATCTCAGCTCACTGCAACCTCCACCTCCCAGGTTCAAGCAATTCTCCTGCTTCAGCCTCCCGAGTAGCTGGGATTACAGGTGCCAGCCACCACGCCCAGCTAATTTTTTGTATTTTTAGTAGAGACAGGTTTTCACTATGTTAGCCAGGCTGGTCTCGAACTCCTGACCTCGTGATCCGCCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCAGTGCCCCGC"	"CGGCCCCCTGGGCATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTCTCGCACTGTCGTCAGGGCTGGAATGCAATGGTGCGATCTCAGCTCACTGCAACCTCCACCTCCCAGGTTCAAGCAATTCTCCTGCTTCAGCCTCCCGAGTAGCTGGGATTACAGGTGCCAGCCACCACGCCCAGCTAATTTTTTGTATTTTTAGTAGAGACAGGTTTTCACTATGTTAGCCAGGCTGGTCTCGAACTCCTGACCTCGTGATCCGCCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCAGTGCCCCGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-454+25338_-454+25661delGCGGGGCACTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGCGGATCACGAGGTCAGGAGTTCGAGACCAGCCTGGCTAACATAGTGAAAACCTGTCTCTACTAAAAATACAAAAAATTAGCTGGGCGTGGTGGCTGGCACCTGTAATCCCAGCTACTCGGGAGGCTGAAGCAGGAGAATTGCTTGAACCTGGGAGGTGGAGGTTGCAGTGAGCTGAGATCGCACCATTGCATTCCAGCCCTGACGACAGTGCGAGACTCCATCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATGCCCAGGGGGCCG"	""	""	"ENST00000372922"	""	93	"."	5	47	"."	0	"TRERF1,intron_variant,,ENST00000541110,;TRERF1,intron_variant,,ENST00000372917,;TRERF1,intron_variant,,ENST00000372922,NM_033502.2;TRERF1,intron_variant,,ENST00000340840,;TRERF1,intron_variant,,ENST00000354325,;"	"-"	"ENSG00000124496"	"ENST00000372922"	"Transcript"	"intron_variant"	"-/7286"	"-/3603"	"-/1200"	""	""	""	"1"	NA	-1	"TRERF1"	"HGNC"	18273	"protein_coding"	"YES"	"CCDS4867.1"	"ENSP00000362013"	"Q96PN7"	""	"UPI0000052952"	"NM_033502.2"	NA	NA	""	"2/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACGGCCCCCTGGGCATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTCTCGCACTGTCGTCAGGGCTGGAATGCAATGGTGCGATCTCAGCTCACTGCAACCTCCACCTCCCAGGTTCAAGCAATTCTCCTGCTTCAGCCTCCCGAGTAGCTGGGATTACAGGTGCCAGCCACCACGCCCAGCTAATTTTTTGTATTTTTAGTAGAGACAGGTTTTCACTATGTTAGCCAGGCTGGTCTCGAACTCCTGACCTCGTGATCCGCCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCAGTGCCCCGCC"	"16f5180c-0704-11e6-8fd6-8ff9279ab66c"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0537634408602151	"WGS"	FALSE
"12635"	"HCRTR2"	3062	"mskcc.org"	"GRCh37"	"6"	55072007	55072007	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.223+32401delA"	""	""	"ENST00000370862"	""	87	"."	15	59	"."	0	"HCRTR2,intron_variant,,ENST00000370862,NM_001526.3;"	"-"	"ENSG00000137252"	"ENST00000370862"	"Transcript"	"intron_variant"	"-/1837"	"-/1335"	"-/444"	""	""	""	"1"	NA	1	"HCRTR2"	"HGNC"	4849	"protein_coding"	"YES"	"CCDS4956.1"	"ENSP00000359899"	"O43614"	"S4X0W3,A6N9G8"	"UPI000013D07A"	"NM_001526.3"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"6e6f6c5e-0704-11e6-8fd6-8ff9279ab66c"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WGS"	FALSE
"12636"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	56267675	56267678	"+"	"IGR"	"DEL"	"AGAC"	"AGAC"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AGAC"	"AGAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"."	11	52	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGACA"	"77318ba6-0704-11e6-8fd6-8ff9279ab66c"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"12637"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	67492573	67492723	"+"	"IGR"	"DEL"	"CTATAGATCTATATCTATATATAGATATATATAAACATATTTGTGTATCATACACAAATATGTTCATAATATTTTGATAATGCATTTCAATATAATTGGCCTTTTTGTTTCTGAGAATGTATTTATAGCATTCTGAGATGGTATCCATTTG"	"CTATAGATCTATATCTATATATAGATATATATAAACATATTTGTGTATCATACACAAATATGTTCATAATATTTTGATAATGCATTTCAATATAATTGGCCTTTTTGTTTCTGAGAATGTATTTATAGCATTCTGAGATGGTATCCATTTG"	"AGATCTATCAATGATATATATATATTTCTAATGATATGATATCTAGATCAT"	"novel"	NA	"JHRCC350"	"W0006120F"	"CTATAGATCTATATCTATATATAGATATATATAAACATATTTGTGTATCATACACAAATATGTTCATAATATTTTGATAATGCATTTCAATATAATTGGCCTTTTTGTTTCTGAGAATGTATTTATAGCATTCTGAGATGGTATCCATTTG"	"CTATAGATCTATATCTATATATAGATATATATAAACATATTTGTGTATCATACACAAATATGTTCATAATATTTTGATAATGCATTTCAATATAATTGGCCTTTTTGTTTCTGAGAATGTATTTATAGCATTCTGAGATGGTATCCATTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	45	"."	9	33	"."	0	""	"AGATCTATCAATGATATATATATATTTCTAATGATATGATATCTAGATCAT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATCTATAGATCTATATCTATATATAGATATATATAAACATATTTGTGTATCATACACAAATATGTTCATAATATTTTGATAATGCATTTCAATATAATTGGCCTTTTTGTTTCTGAGAATGTATTTATAGCATTCTGAGATGGTATCCATTTGT"	"df68bc0e-0708-11e6-8fd6-8ff9279ab66c"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"12638"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	74732450	74732451	"+"	"IGR"	"INS"	"-"	"-"	"ATGATGATAGTTTCTTTTGCTGTGCAGAAGCTCTTTGGTTTAATT"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	129	"."	14	80	"."	0	""	"ATGATGATAGTTTCTTTTGCTGTGCAGAAGCTCTTTGGTTTAATT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"72daf5e0-070b-11e6-8fd6-8ff9279ab66c"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108527131782946	"WGS"	FALSE
"12639"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	88472678	88472678	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"."	5	52	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"59b23c36-0706-11e6-8fd6-8ff9279ab66c"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0485436893203883	"WGS"	FALSE
"12640"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	92216907	92216907	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"."	6	63	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAT"	"6f04b5c8-0706-11e6-8fd6-8ff9279ab66c"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.055045871559633	"WGS"	FALSE
"12641"	"SAMD3"	154075	"mskcc.org"	"GRCh37"	"6"	130596887	130596888	"+"	"Intron"	"INS"	"-"	"-"	"TTACATTATTTTCTTCTTTGTATATCATATTCTTTTTATTAT"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-188+37194_-188+37235dupATAATAAAAAGAATATGATATACAAAGAAGAAAATAATGTAA"	""	""	"ENST00000368134"	""	133	"."	11	70	"."	0	"SAMD3,intron_variant,,ENST00000368134,NM_001258275.1;SAMD3,intron_variant,,ENST00000529119,;"	"TTACATTATTTTCTTCTTTGTATATCATATTCTTTTTATTAT"	"ENSG00000164483"	"ENST00000368134"	"Transcript"	"intron_variant"	"-/2377"	"-/1563"	"-/520"	""	""	""	"1"	NA	-1	"SAMD3"	"HGNC"	21574	"protein_coding"	"YES"	"CCDS34539.1"	"ENSP00000357116"	"Q8N6K7"	"E9PS85"	"UPI000006DCE7"	"NM_001258275.1"	NA	NA	""	"2/13"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"bc418360-070c-11e6-8fd6-8ff9279ab66c"	"660"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0827067669172932	"WGS"	FALSE
"12642"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	140950464	140950465	"+"	"IGR"	"INS"	"-"	"-"	"G"	"rs71015682"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	147	"."	9	73	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71015682"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"f9b08066-070c-11e6-8fd6-8ff9279ab66c"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0612244897959184	"WGS"	FALSE
"12643"	"CCR6"	1235	"mskcc.org"	"GRCh37"	"6"	167535274	167535277	"+"	"5'Flank"	"DEL"	"TTTG"	"TTTG"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TTTG"	"TTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000341935"	""	79	"."	14	54	"."	0	"CCR6,intron_variant,,ENST00000400926,NM_004367.5;CCR6,upstream_gene_variant,,ENST00000341935,NM_031409.3;CCR6,upstream_gene_variant,,ENST00000349984,;RP11-517H2.6,intron_variant,,ENST00000609590,;"	"-"	"ENSG00000112486"	"ENST00000341935"	"Transcript"	"upstream_gene_variant"	"-/4018"	"-/1125"	"-/374"	""	""	""	"1"	"980"	1	"CCR6"	"HGNC"	1607	"protein_coding"	"YES"	"CCDS5298.1"	"ENSP00000343952"	"P51684"	""	"UPI00000008CE"	"NM_031409.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCTTTGT"	"4ca7e11a-0708-11e6-8fd6-8ff9279ab66c"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177215189873418	"WGS"	FALSE
"12644"	"FAM220A"	84792	"mskcc.org"	"GRCh37"	"7"	6365700	6365700	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000313324"	""	107	"."	5	53	"."	0	"FAM220A,downstream_gene_variant,,ENST00000313324,NM_001037163.1;FAM220A,downstream_gene_variant,,ENST00000530143,;FAM220A,downstream_gene_variant,,ENST00000524898,;"	"-"	"ENSG00000178397"	"ENST00000313324"	"Transcript"	"downstream_gene_variant"	"-/2214"	"-/780"	"-/259"	""	""	""	"1"	"3340"	-1	"FAM220A"	"HGNC"	22422	"protein_coding"	"YES"	"CCDS34599.1"	"ENSP00000317289"	"Q7Z4H9"	"E9PQY0,E9PQC6"	"UPI000013F4F0"	"NM_001037163.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"0b58e588-0703-11e6-915b-df84af51fe1a"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0467289719626168	"WGS"	FALSE
"12645"	"SCIN"	85477	"mskcc.org"	"GRCh37"	"7"	12666124	12666127	"+"	"Intron"	"DEL"	"CTTA"	"CTTA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"CTTA"	"CTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.982-82_982-79delACTT"	""	""	"ENST00000297029"	""	102	"."	19	74	"."	0	"SCIN,intron_variant,,ENST00000297029,NM_001112706.2;SCIN,intron_variant,,ENST00000519209,NM_033128.3;SCIN,intron_variant,,ENST00000445618,;SCIN,downstream_gene_variant,,ENST00000523729,;SCIN,downstream_gene_variant,,ENST00000518849,;SCIN,intron_variant,,ENST00000473722,;SCIN,downstream_gene_variant,,ENST00000486980,;SCIN,non_coding_transcript_exon_variant,,ENST00000476649,;SCIN,intron_variant,,ENST00000341757,;"	"-"	"ENSG00000006747"	"ENST00000297029"	"Transcript"	"intron_variant"	"-/3137"	"-/2148"	"-/715"	""	""	""	"1"	NA	1	"SCIN"	"HGNC"	21695	"protein_coding"	"YES"	"CCDS47545.1"	"ENSP00000297029"	"Q9Y6U3"	"Q8NBV9,Q75MG0"	"UPI000013C4DF"	"NM_001112706.2"	NA	NA	""	"7/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTAC"	"3a5b8610-0703-11e6-915b-df84af51fe1a"	"1140"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186274509803922	"WGS"	FALSE
"12646"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	84860901	84860911	"+"	"IGR"	"DEL"	"GGACTACAGGC"	"GGACTACAGGC"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"GGACTACAGGC"	"GGACTACAGGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"."	7	51	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGGACTACAGGCG"	"e8384c30-0705-11e6-915b-df84af51fe1a"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"12647"	"FIS1"	51024	"mskcc.org"	"GRCh37"	"7"	100889369	100889370	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000223136"	""	84	"."	16	46	"."	0	"FIS1,intron_variant,,ENST00000474120,;FIS1,intron_variant,,ENST00000435848,;FIS1,upstream_gene_variant,,ENST00000223136,NM_016068.2;FIS1,upstream_gene_variant,,ENST00000442303,;FIS1,upstream_gene_variant,,ENST00000482199,;FIS1,upstream_gene_variant,,ENST00000480497,;FIS1,upstream_gene_variant,,ENST00000463406,;FIS1,intron_variant,,ENST00000473527,;FIS1,upstream_gene_variant,,ENST00000449367,;"	"T"	"ENSG00000214253"	"ENST00000223136"	"Transcript"	"upstream_gene_variant"	"-/734"	"-/459"	"-/152"	""	""	""	"1"	"1003"	-1	"FIS1"	"HGNC"	21689	"protein_coding"	"YES"	"CCDS43626.1"	"ENSP00000223136"	"Q9Y3D6"	""	"UPI000007214F"	"NM_016068.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"3d60a040-070b-11e6-915b-df84af51fe1a"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"12648"	"RPL3P8"	0	"mskcc.org"	"GRCh37"	"7"	109635441	109635441	"+"	"3'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000432928"	""	83	"."	12	74	"."	0	"RPL3P8,downstream_gene_variant,,ENST00000432928,;"	"-"	"ENSG00000232199"	"ENST00000432928"	"Transcript"	"downstream_gene_variant"	"-/1191"	""	""	""	""	""	"1"	"3050"	-1	"RPL3P8"	"HGNC"	35498	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"94451d32-0706-11e6-915b-df84af51fe1a"	"720"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.144578313253012	"WGS"	FALSE
"12649"	"AOC1"	26	"mskcc.org"	"GRCh37"	"7"	150562960	150562960	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000493429"	""	101	"."	15	66	"."	0	"AOC1,downstream_gene_variant,,ENST00000493429,;AOC1,downstream_gene_variant,,ENST00000467291,;AOC1,downstream_gene_variant,,ENST00000360937,NM_001091.3;AOC1,downstream_gene_variant,,ENST00000416793,NM_001272072.1;AOC1,downstream_gene_variant,,ENST00000480582,;"	"-"	"ENSG00000002726"	"ENST00000493429"	"Transcript"	"downstream_gene_variant"	"-/3135"	"-/2256"	"-/751"	""	""	""	"1"	"4368"	1	"AOC1"	"HGNC"	80	"protein_coding"	"YES"	"CCDS43679.1"	"ENSP00000418614"	"P19801"	"C9J2J4,C9J0G8"	"UPI00001AF136"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"b7193af4-0707-11e6-915b-df84af51fe1a"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148514851485149	"WGS"	FALSE
"12650"	"SGCZ"	137868	"mskcc.org"	"GRCh37"	"8"	14638245	14638245	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.40-225810delC"	""	""	"ENST00000382080"	""	94	"."	15	60	"."	0	"SGCZ,intron_variant,,ENST00000382080,NM_139167.2;"	"-"	"ENSG00000185053"	"ENST00000382080"	"Transcript"	"intron_variant"	"-/2234"	"-/939"	"-/312"	""	""	""	"1"	NA	-1	"SGCZ"	"HGNC"	14075	"protein_coding"	"YES"	"CCDS5992.2"	"ENSP00000371512"	"Q96LD1"	""	"UPI00002339F6"	"NM_139167.2"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"f3181470-0703-11e6-8626-fa044ea5222c"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.159574468085106	"WGS"	FALSE
"12651"	"RP11-758M4.3"	0	"mskcc.org"	"GRCh37"	"8"	75719436	75719492	"+"	"5'Flank"	"DEL"	"GTAATTTGGACCTAATATTATTTTCCAGCCTCAATTCCCCATCCTCTCCTCCTCCAT"	"GTAATTTGGACCTAATATTATTTTCCAGCCTCAATTCCCCATCCTCTCCTCCTCCAT"	"ATTTATTATT"	"novel"	NA	"JHRCC350"	"W0006120F"	"GTAATTTGGACCTAATATTATTTTCCAGCCTCAATTCCCCATCCTCTCCTCCTCCAT"	"GTAATTTGGACCTAATATTATTTTCCAGCCTCAATTCCCCATCCTCTCCTCCTCCAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000523157"	""	75	"."	26	51	"."	0	"RP11-758M4.4,intron_variant,,ENST00000523860,;RP11-758M4.1,intron_variant,,ENST00000523442,;RP11-758M4.3,upstream_gene_variant,,ENST00000523157,;"	"ATTTATTAT"	"ENSG00000253777"	"ENST00000523157"	"Transcript"	"upstream_gene_variant"	"-/525"	""	""	""	""	""	"1"	"2390"	-1	"RP11-758M4.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGTAATTTGGACCTAATATTATTTTCCAGCCTCAATTCCCCATCCTCTCCTCCTCCATA"	"cc8be54a-070b-11e6-8626-fa044ea5222c"	"1560"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346666666666667	"WGS"	FALSE
"12652"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	95618763	95618769	"+"	"IGR"	"DEL"	"AGTCATA"	"AGTCATA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AGTCATA"	"AGTCATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"."	24	51	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGTCATAA"	"23bfb9e2-070a-11e6-8626-fa044ea5222c"	"1440"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.201680672268908	"WGS"	FALSE
"12653"	"LAPTM4B"	55353	"mskcc.org"	"GRCh37"	"8"	98789111	98789112	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.372+782dupT"	""	""	"ENST00000445593"	""	97	"."	9	48	"."	0	"LAPTM4B,intron_variant,,ENST00000445593,NM_018407.4;LAPTM4B,intron_variant,,ENST00000521545,;LAPTM4B,intron_variant,,ENST00000517924,;RNU7-177P,downstream_gene_variant,,ENST00000517101,;Y_RNA,downstream_gene_variant,,ENST00000365529,;"	"T"	"ENSG00000104341"	"ENST00000445593"	"Transcript"	"intron_variant"	"-/3173"	"-/954"	"-/317"	""	""	""	"1"	NA	1	"LAPTM4B"	"HGNC"	13646	"protein_coding"	"YES"	"CCDS6275.1"	"ENSP00000402301"	"Q86VI4"	"Q86SJ0"	"UPI000018F5E2"	"NM_018407.4"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"12ca7a6a-070e-11e6-8626-fa044ea5222c"	"540"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0927835051546392	"WGS"	FALSE
"12654"	"CSMD3"	114788	"mskcc.org"	"GRCh37"	"8"	114212256	114212256	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.515-26111delC"	""	""	"ENST00000297405"	""	86	"."	14	61	"."	0	"CSMD3,intron_variant,,ENST00000297405,NM_198123.1;CSMD3,intron_variant,,ENST00000343508,NM_198124.1;CSMD3,intron_variant,,ENST00000352409,;CSMD3,intron_variant,,ENST00000455883,NM_052900.2;CSMD3,intron_variant,,ENST00000497026,;"	"-"	"ENSG00000164796"	"ENST00000297405"	"Transcript"	"intron_variant"	"-/13212"	"-/11124"	"-/3707"	""	""	""	"1"	NA	-1	"CSMD3"	"HGNC"	19291	"protein_coding"	"YES"	"CCDS6315.1"	"ENSP00000297405"	"Q7Z407"	""	"UPI00001E0584"	"NM_198123.1"	NA	NA	""	"3/70"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGC"	"98dd9b4a-070a-11e6-8626-fa044ea5222c"	"840"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162790697674419	"WGS"	FALSE
"12655"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	116333752	116333753	"+"	"IGR"	"INS"	"-"	"-"	"TA"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"."	5	56	"."	0	""	"TA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"573897ae-070e-11e6-8626-fa044ea5222c"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"12656"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	122350062	122350063	"+"	"IGR"	"INS"	"-"	"-"	"TTTTTTTTTTTTT"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"."	5	57	"."	0	""	"TTTTTTTTTTTTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"73ac42be-070e-11e6-8626-fa044ea5222c"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"12657"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	127231237	127231237	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	24	49	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTG"	"d3140786-070a-11e6-8626-fa044ea5222c"	"1440"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"12658"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	138308374	138308400	"+"	"IGR"	"DEL"	"ATTTATTTATTTATTTTCTTTCTCTTT"	"ATTTATTTATTTATTTTCTTTCTCTTT"	"CTTTCTCTTTCTCCT"	"novel"	NA	"JHRCC350"	"W0006120F"	"ATTTATTTATTTATTTTCTTTCTCTTT"	"ATTTATTTATTTATTTTCTTTCTCTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"."	6	54	"."	0	""	"CTTTCTCTTTCTCC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTATTTATTTATTTATTTTCTTTCTCTTTC"	"e0aaaebc-070b-11e6-8626-fa044ea5222c"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"12659"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	138809021	138809022	"+"	"IGR"	"INS"	"-"	"-"	"AAAAAAAAAAAA"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"."	5	68	"."	0	""	"AAAAAAAAAAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"bc3733e0-070e-11e6-8626-fa044ea5222c"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0515463917525773	"WGS"	FALSE
"12660"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	29924890	29924893	"+"	"IGR"	"DEL"	"AATA"	"AATA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AATA"	"AATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"."	18	54	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAATAA"	"7c777a44-0704-11e6-9f48-9ad656ab30dd"	"1080"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162162162162162	"WGS"	FALSE
"12661"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	30207495	30207498	"+"	"IGR"	"DEL"	"ACTC"	"ACTC"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"ACTC"	"ACTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"."	25	57	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTACTCA"	"7e0044fe-0704-11e6-9f48-9ad656ab30dd"	"1500"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245098039215686	"WGS"	FALSE
"12662"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	78461160	78461193	"+"	"IGR"	"DEL"	"TATATATATATATATATATATATATATATATATT"	"TATATATATATATATATATATATATATATATATT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TATATATATATATATATATATATATATATATATT"	"TATATATATATATATATATATATATATATATATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"."	5	30	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATATATATATATATATATATATATATATATATATTT"	"9a14d0fa-0705-11e6-9f48-9ad656ab30dd"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0892857142857143	"WGS"	FALSE
"12663"	"GNAQ"	2776	"mskcc.org"	"GRCh37"	"9"	80535765	80535778	"+"	"Intron"	"DEL"	"AAATGCCTGATTTT"	"AAATGCCTGATTTT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AAATGCCTGATTTT"	"AAATGCCTGATTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.321+1299_321+1312delAAAATCAGGCATTT"	""	""	"ENST00000286548"	""	96	"."	25	74	"."	0	"GNAQ,intron_variant,,ENST00000286548,NM_002072.3;GNAQ,intron_variant,,ENST00000411677,;"	"-"	"ENSG00000156052"	"ENST00000286548"	"Transcript"	"intron_variant"	"-/6539"	"-/1080"	"-/359"	""	""	""	"1"	NA	-1	"GNAQ"	"HGNC"	4390	"protein_coding"	"YES"	"CCDS6658.1"	"ENSP00000286548"	"P50148"	"G3V1P7"	"UPI000006D0FB"	"NM_002072.3"	NA	NA	""	"2/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAAATGCCTGATTTTA"	"aa00c4c4-0705-11e6-9f48-9ad656ab30dd"	"1500"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260416666666667	"WGS"	TRUE
"12664"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	93698322	93698323	"+"	"IGR"	"INS"	"-"	"-"	"AAAAAAAAAAAAAAAAA"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"."	5	73	"."	0	""	"AAAAAAAAAAAAAAAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"8275539e-0709-11e6-9f48-9ad656ab30dd"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0657894736842105	"WGS"	FALSE
"12665"	"CCDC180"	100499483	"mskcc.org"	"GRCh37"	"9"	100080400	100080402	"+"	"Intron"	"DEL"	"AGG"	"AGG"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AGG"	"AGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1092-343_1092-341delGAG"	""	""	"ENST00000375202"	""	92	"."	19	62	"."	0	"CCDC180,intron_variant,,ENST00000375202,;CCDC180,intron_variant,,ENST00000357054,;CCDC180,intron_variant,,ENST00000395220,;CCDC180,intron_variant,,ENST00000529487,NM_020893.2;CCDC180,intron_variant,,ENST00000411667,;RP11-23J9.4,intron_variant,,ENST00000534123,;RP11-23J9.4,intron_variant,,ENST00000375206,;RP11-23J9.4,intron_variant,,ENST00000529787,;RP11-23J9.4,intron_variant,,ENST00000532526,;CCDC180,intron_variant,,ENST00000460482,;CCDC180,intron_variant,,ENST00000494917,;"	"-"	"ENSG00000197816"	"ENST00000375202"	"Transcript"	"intron_variant"	"-/6851"	"-/5106"	"-/1701"	""	""	""	"1"	NA	1	"CCDC180"	"HGNC"	29303	"protein_coding"	"YES"	"CCDS35077.2"	"ENSP00000364348"	"Q9P1Z9"	"B7ZMG3"	"UPI00016277C6"	""	NA	NA	""	"23/50"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTAGGA"	"27065eca-0706-11e6-9f48-9ad656ab30dd"	"1140"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206521739130435	"WGS"	FALSE
"12666"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	105271921	105271934	"+"	"IGR"	"DEL"	"TATATATATATATG"	"TATATATATATATG"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TATATATATATATG"	"TATATATATATATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"."	6	49	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATATATATATATATGT"	"438a2a86-0706-11e6-9f48-9ad656ab30dd"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"12667"	"RP11-202G18.1"	0	"mskcc.org"	"GRCh37"	"9"	114014145	114014280	"+"	"Intron"	"DEL"	"ATACATATATATATGTATATATATTCATATATATATACATATATATATGTATATATATTCATATATATATACATATATATATGTATATATATTCATATATATATACATATATATATGTATATATATTCATATATAT"	"ATACATATATATATGTATATATATTCATATATATATACATATATATATGTATATATATTCATATATATATACATATATATATGTATATATATTCATATATATATACATATATATATGTATATATATTCATATATAT"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"ATACATATATATATGTATATATATTCATATATATATACATATATATATGTATATATATTCATATATATATACATATATATATGTATATATATTCATATATATATACATATATATATGTATATATATTCATATATAT"	"ATACATATATATATGTATATATATTCATATATATATACATATATATATGTATATATATTCATATATATATACATATATATATGTATATATATTCATATATATATACATATATATATGTATATATATTCATATATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.370+20813_370+20948delATATATATGAATATATATACATATATATATGTATATATATATGAATATATATACATATATATATGTATATATATATGAATATATATACATATATATATGTATATATATATGAATATATATACATATATATATGTAT"	""	""	"ENST00000426204"	""	38	"."	5	39	"."	0	"RP11-202G18.1,intron_variant,,ENST00000426204,;"	"-"	"ENSG00000227531"	"ENST00000426204"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/744"	""	""	""	""	""	"1"	NA	-1	"RP11-202G18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATACATATATATATGTATATATATTCATATATATATACATATATATATGTATATATATTCATATATATATACATATATATATGTATATATATTCATATATATATACATATATATATGTATATATATTCATATATATA"	"7e8c5d02-0706-11e6-9f48-9ad656ab30dd"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WGS"	FALSE
"12668"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	123568515	123568842	"+"	"IGR"	"DEL"	"CCGCCTCGGCCTCCCAAAGTGCTGGTATTACAGGCGTGAGCCACTGTGCCTGGCCAGTTTGTTCTTTTATTTTTTATTTTTTATTTTGTTTAATTTTTTTGAGGCAGAGTCTCACTCTGTCACCCAGGCTGGAGTGCAATGGCACGATCTCAGCTCACTGCAAGCTCCGCCTCCCGGGTACCCGCCATTCTCCTGCCTCAGCCTCCCGAGCAGCTGGGACTACAGGCGCCCGCCACCATGCTCAGCTAATTTTTTGTGTATTTTTAGTAGAGATGGGGTTTCACTGTGTTAGCCAGGATGATCTCGATCTCCTGACCTCATGATCCAC"	"CCGCCTCGGCCTCCCAAAGTGCTGGTATTACAGGCGTGAGCCACTGTGCCTGGCCAGTTTGTTCTTTTATTTTTTATTTTTTATTTTGTTTAATTTTTTTGAGGCAGAGTCTCACTCTGTCACCCAGGCTGGAGTGCAATGGCACGATCTCAGCTCACTGCAAGCTCCGCCTCCCGGGTACCCGCCATTCTCCTGCCTCAGCCTCCCGAGCAGCTGGGACTACAGGCGCCCGCCACCATGCTCAGCTAATTTTTTGTGTATTTTTAGTAGAGATGGGGTTTCACTGTGTTAGCCAGGATGATCTCGATCTCCTGACCTCATGATCCAC"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"CCGCCTCGGCCTCCCAAAGTGCTGGTATTACAGGCGTGAGCCACTGTGCCTGGCCAGTTTGTTCTTTTATTTTTTATTTTTTATTTTGTTTAATTTTTTTGAGGCAGAGTCTCACTCTGTCACCCAGGCTGGAGTGCAATGGCACGATCTCAGCTCACTGCAAGCTCCGCCTCCCGGGTACCCGCCATTCTCCTGCCTCAGCCTCCCGAGCAGCTGGGACTACAGGCGCCCGCCACCATGCTCAGCTAATTTTTTGTGTATTTTTAGTAGAGATGGGGTTTCACTGTGTTAGCCAGGATGATCTCGATCTCCTGACCTCATGATCCAC"	"CCGCCTCGGCCTCCCAAAGTGCTGGTATTACAGGCGTGAGCCACTGTGCCTGGCCAGTTTGTTCTTTTATTTTTTATTTTTTATTTTGTTTAATTTTTTTGAGGCAGAGTCTCACTCTGTCACCCAGGCTGGAGTGCAATGGCACGATCTCAGCTCACTGCAAGCTCCGCCTCCCGGGTACCCGCCATTCTCCTGCCTCAGCCTCCCGAGCAGCTGGGACTACAGGCGCCCGCCACCATGCTCAGCTAATTTTTTGTGTATTTTTAGTAGAGATGGGGTTTCACTGTGTTAGCCAGGATGATCTCGATCTCCTGACCTCATGATCCAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"."	6	63	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCCGCCTCGGCCTCCCAAAGTGCTGGTATTACAGGCGTGAGCCACTGTGCCTGGCCAGTTTGTTCTTTTATTTTTTATTTTTTATTTTGTTTAATTTTTTTGAGGCAGAGTCTCACTCTGTCACCCAGGCTGGAGTGCAATGGCACGATCTCAGCTCACTGCAAGCTCCGCCTCCCGGGTACCCGCCATTCTCCTGCCTCAGCCTCCCGAGCAGCTGGGACTACAGGCGCCCGCCACCATGCTCAGCTAATTTTTTGTGTATTTTTAGTAGAGATGGGGTTTCACTGTGTTAGCCAGGATGATCTCGATCTCCTGACCTCATGATCCACC"	"cdf08788-0706-11e6-9f48-9ad656ab30dd"	"360"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"12669"	"MED27"	9442	"mskcc.org"	"GRCh37"	"9"	134819046	134819047	"+"	"Intron"	"INS"	"-"	"-"	"GCG"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.480-4188_480-4186dupCGC"	""	""	"ENST00000292035"	""	107	"."	24	57	"."	0	"MED27,intron_variant,,ENST00000292035,NM_004269.3;MED27,intron_variant,,ENST00000357028,NM_001253881.1;"	"GCG"	"ENSG00000160563"	"ENST00000292035"	"Transcript"	"intron_variant"	"-/1431"	"-/936"	"-/311"	""	""	""	"1"	NA	-1	"MED27"	"HGNC"	2377	"protein_coding"	"YES"	"CCDS6945.1"	"ENSP00000292035"	"Q6P2C8"	"U4Q365"	"UPI0000161234"	"NM_004269.3"	NA	NA	""	"3/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"4af5001c-070a-11e6-9f48-9ad656ab30dd"	"1440"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224299065420561	"WGS"	FALSE
"12670"	"TM4SF2"	0	"mskcc.org"	"GRCh37"	"X"	37370204	37370205	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.171+84957dupT"	""	""	"ENST00000465127"	""	48	"."	15	40	"."	0	"TM4SF2,intron_variant,,ENST00000465127,;"	"T"	"ENSG00000250349"	"ENST00000465127"	"Transcript"	"intron_variant"	"-/954"	"-/840"	"-/279"	""	""	""	"1"	NA	1	"TM4SF2"	"Uniprot_gn"	NA	"protein_coding"	"YES"	""	"ENSP00000417050"	""	"Q7Z2J5,Q7Z2I5,Q7Z2E9,Q7Z2D9,B4E171"	"UPI00017A8803"	""	NA	NA	""	"3/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"04081ab6-0707-11e6-98aa-ef194ed73f41"	"900"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"12671"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	61757191	61757191	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	37	"."	13	25	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"a88380a0-0705-11e6-98aa-ef194ed73f41"	"780"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351351351351351	"WGS"	FALSE
"12672"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	64289731	64289740	"+"	"IGR"	"DEL"	"CTGTATTTTG"	"CTGTATTTTG"	"ATATT"	"novel"	NA	"JHRCC350"	"W0006120F"	"CTGTATTTTG"	"CTGTATTTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	50	"."	25	26	"."	0	""	"ATATT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCCTGTATTTTGT"	"92163aa0-0706-11e6-98aa-ef194ed73f41"	"1500"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WGS"	FALSE
"12673"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	66202680	66202680	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	45	"."	23	38	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTG"	"ace49b70-0705-11e6-98aa-ef194ed73f41"	"1380"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.511111111111111	"WGS"	FALSE
"12674"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	87956195	87956203	"+"	"IGR"	"DEL"	"TACTCCAAT"	"TACTCCAAT"	"GACCTG"	"novel"	NA	"JHRCC350"	"W0006120F"	"TACTCCAAT"	"TACTCCAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	32	"."	16	20	"."	0	""	"GACCTG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGTACTCCAATC"	"9470f2a4-0706-11e6-98aa-ef194ed73f41"	"960"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WGS"	FALSE
"12675"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	98342069	98342069	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	50	"."	17	35	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGG"	"ecfdb4c6-0705-11e6-98aa-ef194ed73f41"	"1020"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34	"WGS"	FALSE
"12676"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	103699471	103699472	"+"	"IGR"	"INS"	"-"	"-"	"GGGAT"	"novel"	NA	"JHRCC350"	"W0006120F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"."	5	43	"."	0	""	"GGGAT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7c9fec74-0707-11e6-98aa-ef194ed73f41"	"67"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087719298245614	"WGS"	FALSE
"12677"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	4446941	4446944	"+"	"IGR"	"DEL"	"TTTG"	"TTTG"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"TTTG"	"TTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	44	"."	12	30	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTGT"	"51ccaf62-0704-11e6-978e-ba218dcac387"	"621"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"12678"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	6063210	6063210	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	46	"."	5	31	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACT"	"533d0ba8-0704-11e6-978e-ba218dcac387"	"300"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108695652173913	"WGS"	FALSE
"12679"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	14168508	14168508	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"."	20	28	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTAA"	"35c867ec-0705-11e6-978e-ba218dcac387"	"1200"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.476190476190476	"WGS"	FALSE
"12680"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	21714749	21714771	"+"	"IGR"	"DEL"	"AAAAAAAAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAAAAAAAA"	"-"	"novel"	NA	"JHRCC350"	"W0006120F"	"AAAAAAAAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"."	7	54	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAAAAAAAAAAAAAAAAAAAAAAAA"	"3b960300-0705-11e6-978e-ba218dcac387"	"420"	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0654205607476635	"WGS"	FALSE
"12681"	"TNFRSF18"	8784	"mskcc.org"	"GRCh37"	"1"	1141989	1141989	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000328596"	""	89	"60"	29	35	"35"	0	"TNFRSF18,5_prime_UTR_variant,,ENST00000379268,NM_004195.2,NM_148902.1;TNFRSF4,downstream_gene_variant,,ENST00000379236,NM_003327.3;TNFRSF18,upstream_gene_variant,,ENST00000328596,NM_148901.1;TNFRSF18,upstream_gene_variant,,ENST00000486728,;TNFRSF18,upstream_gene_variant,,ENST00000379265,;TNFRSF4,downstream_gene_variant,,ENST00000497869,;"	"A"	"ENSG00000186891"	"ENST00000328596"	"Transcript"	"upstream_gene_variant"	"-/851"	"-/768"	"-/255"	""	""	""	"1"	"38"	-1	"TNFRSF18"	"HGNC"	11914	"protein_coding"	"YES"	"CCDS9.1"	"ENSP00000328207"	"Q9Y5U5"	""	"UPI000002B5CE"	"NM_148901.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"222672a4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325842696629214	"WGS"	FALSE
"12682"	"DVL1"	1855	"mskcc.org"	"GRCh37"	"1"	1285386	1285386	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000378891"	""	23	"17"	6	9	"9"	0	"DVL1,upstream_gene_variant,,ENST00000378888,;DVL1,upstream_gene_variant,,ENST00000378891,NM_004421.2;MXRA8,downstream_gene_variant,,ENST00000477278,NM_001282583.1;MXRA8,downstream_gene_variant,,ENST00000309212,NM_032348.2,NM_001282582.1;MXRA8,downstream_gene_variant,,ENST00000445648,NM_001282585.1;MXRA8,downstream_gene_variant,,ENST00000342753,NM_001282584.1;MXRA8,downstream_gene_variant,,ENST00000474033,;MXRA8,downstream_gene_variant,,ENST00000476718,;MXRA8,downstream_gene_variant,,ENST00000473097,;MXRA8,downstream_gene_variant,,ENST00000478517,;DVL1,upstream_gene_variant,,ENST00000472445,;MXRA8,downstream_gene_variant,,ENST00000464351,;"	"T"	"ENSG00000107404"	"ENST00000378891"	"Transcript"	"upstream_gene_variant"	"-/2926"	"-/2013"	"-/670"	""	""	""	"1"	"894"	-1	"DVL1"	"HGNC"	3084	"protein_coding"	"YES"	"CCDS22.1"	"ENSP00000368169"	"O14640"	"Q6PJD6,B7Z6B5,B7Z1E8"	"UPI000013D455"	"NM_004421.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"22268c44-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"12683"	"SSU72"	29101	"mskcc.org"	"GRCh37"	"1"	1493398	1493398	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.224+6755T>C"	""	""	"ENST00000291386"	""	92	"84"	8	43	"43"	0	"SSU72,intron_variant,,ENST00000291386,NM_014188.2;SSU72,downstream_gene_variant,,ENST00000359060,;SSU72,intron_variant,,ENST00000378725,;AL645728.2,downstream_gene_variant,,ENST00000539195,;"	"G"	"ENSG00000160075"	"ENST00000291386"	"Transcript"	"intron_variant"	"-/1290"	"-/585"	"-/194"	""	""	""	"1"	NA	-1	"SSU72"	"HGNC"	25016	"protein_coding"	"YES"	"CCDS32.1"	"ENSP00000291386"	"Q9NP77"	""	"UPI00000437EE"	"NM_014188.2"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"2226bb38-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"12684"	"SLC35E2B"	728661	"mskcc.org"	"GRCh37"	"1"	1605316	1605316	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.586+1586C>G"	""	""	"ENST00000378662"	""	94	"88"	6	35	"35"	0	"SLC35E2B,intron_variant,,ENST00000378662,;SLC35E2B,intron_variant,,ENST00000234800,NM_001110781.1;RP11-345P4.7,downstream_gene_variant,,ENST00000596308,;SLC35E2B,intron_variant,,ENST00000481276,;SLC35E2B,upstream_gene_variant,,ENST00000480991,;RP11-345P4.6,intron_variant,,ENST00000597891,;"	"C"	"ENSG00000189339"	"ENST00000378662"	"Transcript"	"intron_variant"	"-/6261"	"-/1218"	"-/405"	""	""	""	"1"	NA	-1	"SLC35E2B"	"HGNC"	33941	"protein_coding"	"YES"	"CCDS44041.1"	"ENSP00000367931"	"P0CK96"	"B3KRW7"	"UPI00001B6AFE"	""	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"2226e892-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"12685"	"SLC35E2B"	728661	"mskcc.org"	"GRCh37"	"1"	1605320	1605320	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.586+1582T>A"	""	""	"ENST00000378662"	""	94	"87"	7	43	"43"	0	"SLC35E2B,intron_variant,,ENST00000378662,;SLC35E2B,intron_variant,,ENST00000234800,NM_001110781.1;RP11-345P4.7,downstream_gene_variant,,ENST00000596308,;SLC35E2B,intron_variant,,ENST00000481276,;SLC35E2B,upstream_gene_variant,,ENST00000480991,;RP11-345P4.6,intron_variant,,ENST00000597891,;"	"T"	"ENSG00000189339"	"ENST00000378662"	"Transcript"	"intron_variant"	"-/6261"	"-/1218"	"-/405"	""	""	""	"1"	NA	-1	"SLC35E2B"	"HGNC"	33941	"protein_coding"	"YES"	"CCDS44041.1"	"ENSP00000367931"	"P0CK96"	"B3KRW7"	"UPI00001B6AFE"	""	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"2226e978-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"12686"	"TTC34"	100287898	"mskcc.org"	"GRCh37"	"1"	2619477	2619477	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.688-42475G>C"	""	""	"ENST00000401095"	""	52	"47"	5	47	"47"	0	"TTC34,intron_variant,,ENST00000401094,;TTC34,intron_variant,,ENST00000401095,NM_001242672.1;"	"G"	"ENSG00000215912"	"ENST00000401095"	"Transcript"	"intron_variant"	"-/1781"	"-/1701"	"-/566"	""	""	""	"1"	NA	-1	"TTC34"	"HGNC"	34297	"protein_coding"	"YES"	"CCDS55565.1"	"ENSP00000383873"	"A8MYJ7"	"J3KQ58,B7ZC41"	"UPI00017503B1"	"NM_001242672.1"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"22280998-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0961538461538462	"WGS"	FALSE
"12687"	"TTC34"	100287898	"mskcc.org"	"GRCh37"	"1"	2632157	2632157	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.688-55155T>C"	""	""	"ENST00000401095"	""	65	"59"	6	42	"42"	0	"TTC34,intron_variant,,ENST00000401094,;TTC34,intron_variant,,ENST00000401095,NM_001242672.1;"	"G"	"ENSG00000215912"	"ENST00000401095"	"Transcript"	"intron_variant"	"-/1781"	"-/1701"	"-/566"	""	""	""	"1"	NA	-1	"TTC34"	"HGNC"	34297	"protein_coding"	"YES"	"CCDS55565.1"	"ENSP00000383873"	"A8MYJ7"	"J3KQ58,B7ZC41"	"UPI00017503B1"	"NM_001242672.1"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"22285948-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"12688"	"MEGF6"	1953	"mskcc.org"	"GRCh37"	"1"	3489000	3489000	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.481+7389G>A"	""	""	"ENST00000356575"	""	42	"37"	5	13	"13"	0	"MEGF6,intron_variant,,ENST00000356575,NM_001409.3;MEGF6,intron_variant,,ENST00000485002,;"	"T"	"ENSG00000162591"	"ENST00000356575"	"Transcript"	"intron_variant"	"-/5455"	"-/4626"	"-/1541"	""	""	""	"1"	NA	-1	"MEGF6"	"HGNC"	3232	"protein_coding"	"YES"	"CCDS41237.1"	"ENSP00000348982"	"O75095"	""	"UPI0000DACACB"	"NM_001409.3"	""	""	""	"4/36"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"222911c6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"12689"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	4189789	4189789	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"93"	9	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"22296554-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"12690"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	5040986	5040986	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"45"	22	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"2229dae8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.328358208955224	"WGS"	FALSE
"12691"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	5385687	5385687	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"70"	6	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"2229f564-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"12692"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	5393826	5393826	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"81"	28	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"2229f60e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256880733944954	"WGS"	FALSE
"12693"	"CAMTA1"	23261	"mskcc.org"	"GRCh37"	"1"	7142662	7142662	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.235-8702C>A"	""	""	"ENST00000303635"	""	73	"52"	21	46	"46"	0	"CAMTA1,intron_variant,,ENST00000303635,NM_015215.2;CAMTA1,intron_variant,,ENST00000439411,;"	"A"	"ENSG00000171735"	"ENST00000303635"	"Transcript"	"intron_variant"	"-/8444"	"-/5022"	"-/1673"	""	""	""	"1"	NA	1	"CAMTA1"	"HGNC"	18806	"protein_coding"	"YES"	"CCDS30576.1"	"ENSP00000306522"	"Q9Y6Y1"	""	"UPI00001C1D72"	"NM_015215.2"	""	""	""	"3/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"222ac002-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287671232876712	"WGS"	TRUE
"12694"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	8898867	8898867	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"105"	9	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"222b710a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"12695"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	9530037	9530037	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"rs557407087"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"69"	8	41	"41"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs557407087"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"222bb43a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103896103896104	"WGS"	FALSE
"12696"	"UBE4B"	10277	"mskcc.org"	"GRCh37"	"1"	10173154	10173154	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1197-4363C>T"	""	""	"ENST00000343090"	""	92	"59"	33	56	"56"	0	"UBE4B,intron_variant,,ENST00000377157,NM_006048.4;UBE4B,intron_variant,,ENST00000343090,NM_001105562.2;UBE4B,intron_variant,,ENST00000253251,;UBE4B,intron_variant,,ENST00000475795,;"	"T"	"ENSG00000130939"	"ENST00000343090"	"Transcript"	"intron_variant"	"-/5267"	"-/3909"	"-/1302"	""	""	""	"1"	NA	1	"UBE4B"	"HGNC"	12500	"protein_coding"	"YES"	"CCDS41245.1"	"ENSP00000343001"	"O95155"	""	"UPI0000137944"	"NM_001105562.2"	""	""	""	"7/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"222c2ef6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358695652173913	"WGS"	FALSE
"12697"	"UBE4B"	10277	"mskcc.org"	"GRCh37"	"1"	10180746	10180746	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1439+1075A>C"	""	""	"ENST00000343090"	""	71	"63"	8	46	"46"	0	"UBE4B,intron_variant,,ENST00000377157,NM_006048.4;UBE4B,intron_variant,,ENST00000343090,NM_001105562.2;UBE4B,intron_variant,,ENST00000253251,;UBE4B,upstream_gene_variant,,ENST00000470736,;UBE4B,intron_variant,,ENST00000475795,;"	"C"	"ENSG00000130939"	"ENST00000343090"	"Transcript"	"intron_variant"	"-/5267"	"-/3909"	"-/1302"	""	""	""	"1"	NA	1	"UBE4B"	"HGNC"	12500	"protein_coding"	"YES"	"CCDS41245.1"	"ENSP00000343001"	"O95155"	""	"UPI0000137944"	"NM_001105562.2"	""	""	""	"9/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"222c2faa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112676056338028	"WGS"	FALSE
"12698"	"KIF1B"	23095	"mskcc.org"	"GRCh37"	"1"	10436099	10436099	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5271-504G>A"	""	""	"ENST00000263934"	""	86	"79"	7	40	"40"	0	"KIF1B,intron_variant,,ENST00000377086,;KIF1B,intron_variant,,ENST00000377081,;KIF1B,intron_variant,,ENST00000263934,NM_015074.3;"	"A"	"ENSG00000054523"	"ENST00000263934"	"Transcript"	"intron_variant"	"-/6816"	"-/5313"	"-/1770"	""	""	""	"1"	NA	1	"KIF1B"	"HGNC"	16636	"protein_coding"	"YES"	"CCDS111.1"	"ENSP00000263934"	"O60333"	"B4DMF3"	"UPI000013EE7E"	"NM_015074.3"	""	""	""	"46/46"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"222c4c92-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0813953488372093	"WGS"	FALSE
"12699"	"PEX14"	5195	"mskcc.org"	"GRCh37"	"1"	10606843	10606843	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.169+10489G>C"	""	""	"ENST00000356607"	""	73	"65"	8	25	"25"	0	"PEX14,intron_variant,,ENST00000356607,NM_004565.2;PEX14,intron_variant,,ENST00000538836,;PEX14,intron_variant,,ENST00000491661,;"	"C"	"ENSG00000142655"	"ENST00000356607"	"Transcript"	"intron_variant"	"-/1985"	"-/1134"	"-/377"	""	""	""	"1"	NA	1	"PEX14"	"HGNC"	8856	"protein_coding"	"YES"	"CCDS30582.1"	"ENSP00000349016"	"O75381"	"F5H4J2"	"UPI000013170A"	"NM_004565.2"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"222c5ffc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10958904109589	"WGS"	FALSE
"12700"	"CASZ1"	54897	"mskcc.org"	"GRCh37"	"1"	10838249	10838249	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-233-17335C>G"	""	""	"ENST00000377022"	""	87	"80"	7	47	"47"	0	"CASZ1,intron_variant,,ENST00000377022,NM_001079843.2;CASZ1,intron_variant,,ENST00000344008,NM_017766.4;"	"C"	"ENSG00000130940"	"ENST00000377022"	"Transcript"	"intron_variant"	"-/7936"	"-/5280"	"-/1759"	""	""	""	"1"	NA	-1	"CASZ1"	"HGNC"	26002	"protein_coding"	"YES"	"CCDS41246.1"	"ENSP00000366221"	"Q86V15"	""	"UPI0000EBB7D6"	"NM_001079843.2"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"222c79ec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"12701"	"CASZ1"	54897	"mskcc.org"	"GRCh37"	"1"	10838253	10838253	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-233-17339G>T"	""	""	"ENST00000377022"	""	85	"80"	5	46	"46"	0	"CASZ1,intron_variant,,ENST00000377022,NM_001079843.2;CASZ1,intron_variant,,ENST00000344008,NM_017766.4;"	"A"	"ENSG00000130940"	"ENST00000377022"	"Transcript"	"intron_variant"	"-/7936"	"-/5280"	"-/1759"	""	""	""	"1"	NA	-1	"CASZ1"	"HGNC"	26002	"protein_coding"	"YES"	"CCDS41246.1"	"ENSP00000366221"	"Q86V15"	""	"UPI0000EBB7D6"	"NM_001079843.2"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"222c7a96-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"12702"	"CASZ1"	54897	"mskcc.org"	"GRCh37"	"1"	10838254	10838254	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-233-17340T>A"	""	""	"ENST00000377022"	""	83	"77"	6	44	"44"	0	"CASZ1,intron_variant,,ENST00000377022,NM_001079843.2;CASZ1,intron_variant,,ENST00000344008,NM_017766.4;"	"T"	"ENSG00000130940"	"ENST00000377022"	"Transcript"	"intron_variant"	"-/7936"	"-/5280"	"-/1759"	""	""	""	"1"	NA	-1	"CASZ1"	"HGNC"	26002	"protein_coding"	"YES"	"CCDS41246.1"	"ENSP00000366221"	"Q86V15"	""	"UPI0000EBB7D6"	"NM_001079843.2"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"222c7b4a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"12703"	"CASZ1"	54897	"mskcc.org"	"GRCh37"	"1"	10838258	10838258	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-233-17344A>T"	""	""	"ENST00000377022"	""	84	"78"	6	46	"46"	0	"CASZ1,intron_variant,,ENST00000377022,NM_001079843.2;CASZ1,intron_variant,,ENST00000344008,NM_017766.4;"	"A"	"ENSG00000130940"	"ENST00000377022"	"Transcript"	"intron_variant"	"-/7936"	"-/5280"	"-/1759"	""	""	""	"1"	NA	-1	"CASZ1"	"HGNC"	26002	"protein_coding"	"YES"	"CCDS41246.1"	"ENSP00000366221"	"Q86V15"	""	"UPI0000EBB7D6"	"NM_001079843.2"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"222c7c30-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"12704"	"C1orf127"	148345	"mskcc.org"	"GRCh37"	"1"	11028083	11028083	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.248-1544C>T"	""	""	"ENST00000377004"	""	76	"49"	27	43	"43"	0	"C1orf127,intron_variant,,ENST00000377004,NM_001170754.1;C1orf127,intron_variant,,ENST00000377008,;C1orf127,intron_variant,,ENST00000520253,;C1orf127,upstream_gene_variant,,ENST00000418570,;"	"A"	"ENSG00000175262"	"ENST00000377004"	"Transcript"	"intron_variant"	"-/2761"	"-/2472"	"-/823"	""	""	""	"1"	NA	-1	"C1orf127"	"HGNC"	26730	"protein_coding"	"YES"	"CCDS53267.1"	"ENSP00000366203"	""	"G8JLG8,B7ZLG7"	"UPI0001C0B385"	"NM_001170754.1"	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"222c96f2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355263157894737	"WGS"	FALSE
"12705"	"PLOD1"	5351	"mskcc.org"	"GRCh37"	"1"	12029981	12029981	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1756-746T>G"	""	""	"ENST00000196061"	""	83	"74"	9	39	"39"	0	"PLOD1,intron_variant,,ENST00000196061,NM_000302.3;PLOD1,intron_variant,,ENST00000376369,;PLOD1,intron_variant,,ENST00000491536,;PLOD1,upstream_gene_variant,,ENST00000481933,;PLOD1,downstream_gene_variant,,ENST00000470133,;"	"G"	"ENSG00000083444"	"ENST00000196061"	"Transcript"	"intron_variant"	"-/2940"	"-/2184"	"-/727"	""	""	""	"1"	NA	1	"PLOD1"	"HGNC"	9081	"protein_coding"	"YES"	"CCDS142.1"	"ENSP00000196061"	"Q02809"	"Q9UL44"	"UPI000013C611"	"NM_000302.3"	""	""	""	"16/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"222cfd86-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108433734939759	"WGS"	FALSE
"12706"	"TNFRSF1B"	7133	"mskcc.org"	"GRCh37"	"1"	12236268	12236268	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.78+9042C>T"	""	""	"ENST00000376259"	""	88	"58"	30	45	"45"	0	"TNFRSF1B,intron_variant,,ENST00000376259,NM_001066.2;TNFRSF1B,intron_variant,,ENST00000536782,;TNFRSF1B,intron_variant,,ENST00000492361,;"	"T"	"ENSG00000028137"	"ENST00000376259"	"Transcript"	"intron_variant"	"-/3683"	"-/1386"	"-/461"	""	""	""	"1"	NA	1	"TNFRSF1B"	"HGNC"	11917	"protein_coding"	"YES"	"CCDS145.1"	"ENSP00000365435"	"P20333"	"Q9UIH2,Q9UIG9,Q6LBF2"	"UPI000002FAE1"	"NM_001066.2"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"222d0e70-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340909090909091	"WGS"	FALSE
"12707"	"PRAMEF4"	400735	"mskcc.org"	"GRCh37"	"1"	12947640	12947640	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000235349"	""	86	"54"	32	52	"52"	0	"PRAMEF4,upstream_gene_variant,,ENST00000235349,NM_001009611.2;"	"A"	"ENSG00000243073"	"ENST00000235349"	"Transcript"	"upstream_gene_variant"	"-/1828"	"-/1437"	"-/478"	""	""	""	"1"	"1615"	-1	"PRAMEF4"	"HGNC"	31971	"protein_coding"	"YES"	"CCDS30592.1"	"ENSP00000235349"	"O60810"	""	"UPI00001C1DA0"	"NM_001009611.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"222d8e36-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.372093023255814	"WGS"	FALSE
"12708"	"FBXO42"	54455	"mskcc.org"	"GRCh37"	"1"	16603992	16603992	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.502+17286T>C"	""	""	"ENST00000375592"	""	100	"92"	8	41	"41"	0	"FBXO42,intron_variant,,ENST00000375592,NM_018994.1;"	"G"	"ENSG00000037637"	"ENST00000375592"	"Transcript"	"intron_variant"	"-/6202"	"-/2154"	"-/717"	""	""	""	"1"	NA	-1	"FBXO42"	"HGNC"	29249	"protein_coding"	"YES"	"CCDS30613.1"	"ENSP00000364742"	"Q6P3S6"	""	"UPI0000161A51"	"NM_018994.1"	""	""	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"222e8840-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"12709"	"FBXO42"	54455	"mskcc.org"	"GRCh37"	"1"	16671443	16671443	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-18+7307A>T"	""	""	"ENST00000375592"	""	69	"64"	5	29	"29"	0	"FBXO42,intron_variant,,ENST00000375592,NM_018994.1;"	"A"	"ENSG00000037637"	"ENST00000375592"	"Transcript"	"intron_variant"	"-/6202"	"-/2154"	"-/717"	""	""	""	"1"	NA	-1	"FBXO42"	"HGNC"	29249	"protein_coding"	"YES"	"CCDS30613.1"	"ENSP00000364742"	"Q6P3S6"	""	"UPI0000161A51"	"NM_018994.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"222e988a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072463768115942	"WGS"	FALSE
"12710"	"RP4-798A10.7"	0	"mskcc.org"	"GRCh37"	"1"	16839170	16839170	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000562878"	""	201	"173"	28	110	"110"	0	"RP4-798A10.7,upstream_gene_variant,,ENST00000562878,;RNU1-1,downstream_gene_variant,,ENST00000383925,NR_004430.2;"	"A"	"ENSG00000261135"	"ENST00000562878"	"Transcript"	"upstream_gene_variant"	"-/1110"	""	""	""	""	""	"1"	"1970"	1	"RP4-798A10.7"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"222ec36e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.139303482587065	"WGS"	FALSE
"12711"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"1"	17487545	17487545	"+"	"3'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516371"	""	99	"70"	29	46	"46"	0	"Y_RNA,downstream_gene_variant,,ENST00000516371,;"	"T"	"ENSG00000252180"	"ENST00000516371"	"Transcript"	"downstream_gene_variant"	"-/88"	""	""	""	""	""	"1"	"2766"	1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"223002b0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292929292929293	"WGS"	FALSE
"12712"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	17618688	17618688	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"61"	30	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"22300f6c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32967032967033	"WGS"	FALSE
"12713"	"snoU13"	0	"mskcc.org"	"GRCh37"	"1"	19862724	19862724	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000458906"	""	103	"67"	36	46	"46"	0	"snoU13,upstream_gene_variant,,ENST00000458906,;"	"A"	"ENSG00000239027"	"ENST00000458906"	"Transcript"	"upstream_gene_variant"	"-/105"	""	""	""	""	""	"1"	"3956"	-1	"snoU13"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"2230b1c4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349514563106796	"WGS"	FALSE
"12714"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	19863830	19863830	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"64"	7	37	"37"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"2230b322-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0985915492957746	"WGS"	FALSE
"12715"	"MUL1"	79594	"mskcc.org"	"GRCh37"	"1"	20833343	20833343	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.120+1055T>C"	""	""	"ENST00000264198"	""	87	"79"	8	46	"46"	0	"MUL1,intron_variant,,ENST00000264198,NM_024544.2;"	"G"	"ENSG00000090432"	"ENST00000264198"	"Transcript"	"intron_variant"	"-/2436"	"-/1059"	"-/352"	""	""	""	"1"	NA	-1	"MUL1"	"HGNC"	25762	"protein_coding"	"YES"	"CCDS208.1"	"ENSP00000264198"	"Q969V5"	"B7Z8S4"	"UPI00000361FC"	"NM_024544.2"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"2230f4c2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"12716"	"EIF4G3"	8672	"mskcc.org"	"GRCh37"	"1"	21350789	21350789	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-66-21488T>A"	""	""	"ENST00000602326"	""	54	"48"	6	32	"32"	0	"EIF4G3,intron_variant,,ENST00000602326,NM_001198802.1;EIF4G3,intron_variant,,ENST00000400422,NM_001198801.1;EIF4G3,intron_variant,,ENST00000264211,NM_003760.4;EIF4G3,intron_variant,,ENST00000374937,;EIF4G3,intron_variant,,ENST00000374935,;EIF4G3,intron_variant,,ENST00000356916,NM_001198803.1;EIF4G3,intron_variant,,ENST00000374927,;EIF4G3,intron_variant,,ENST00000438975,;EIF4G3,intron_variant,,ENST00000411888,;"	"T"	"ENSG00000075151"	"ENST00000602326"	"Transcript"	"intron_variant"	"-/6196"	"-/4776"	"-/1591"	""	""	""	"1"	NA	-1	"EIF4G3"	"HGNC"	3298	"protein_coding"	"YES"	"CCDS55580.1"	"ENSP00000473510"	"O43432"	"Q59GJ0,F5H564"	"UPI0001639589"	"NM_001198802.1"	""	""	""	"4/34"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"2231364e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"12717"	"ECE1"	1889	"mskcc.org"	"GRCh37"	"1"	21580243	21580243	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1020+2197C>T"	""	""	"ENST00000374893"	""	67	"59"	8	30	"30"	0	"ECE1,intron_variant,,ENST00000415912,NM_001113348.1;ECE1,intron_variant,,ENST00000357071,NM_001113347.1;ECE1,intron_variant,,ENST00000374893,NM_001397.2;ECE1,intron_variant,,ENST00000264205,NM_001113349.1;ECE1,intron_variant,,ENST00000436918,;ECE1,intron_variant,,ENST00000528294,;ECE1,intron_variant,,ENST00000526194,;"	"A"	"ENSG00000117298"	"ENST00000374893"	"Transcript"	"intron_variant"	"-/2484"	"-/2313"	"-/770"	""	""	""	"1"	NA	-1	"ECE1"	"HGNC"	3146	"protein_coding"	"YES"	"CCDS215.1"	"ENSP00000364028"	"P42892"	"E9PN99,E9PJG1"	"UPI0000129B5E"	"NM_001397.2"	""	""	""	"8/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGA"	"22314bde-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119402985074627	"WGS"	FALSE
"12718"	"HTR1D"	3352	"mskcc.org"	"GRCh37"	"1"	23512911	23512911	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000314113"	""	75	"69"	6	32	"32"	0	"HTR1D,downstream_gene_variant,,ENST00000314113,;"	"T"	"ENSG00000179546"	"ENST00000314113"	"Transcript"	"downstream_gene_variant"	"-/1200"	"-/1134"	"-/377"	""	""	""	"1"	"4082"	-1	"HTR1D"	"HGNC"	5289	"protein_coding"	""	"CCDS231.1"	"ENSP00000313661"	"P28221"	""	"UPI00000503DE"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"2231fca0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"12719"	"RP5-1057J7.1"	0	"mskcc.org"	"GRCh37"	"1"	23567538	23567538	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000442089"	""	65	"58"	7	35	"35"	0	"RP5-1057J7.1,upstream_gene_variant,,ENST00000442089,;"	"C"	"ENSG00000215381"	"ENST00000442089"	"Transcript"	"upstream_gene_variant"	"-/460"	""	""	""	""	""	"1"	"3720"	1	"RP5-1057J7.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"22320024-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107692307692308	"WGS"	FALSE
"12720"	"E2F2"	1870	"mskcc.org"	"GRCh37"	"1"	23830194	23830194	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000361729"	""	53	"47"	6	29	"29"	0	"E2F2,downstream_gene_variant,,ENST00000361729,NM_004091.3;"	"G"	"ENSG00000007968"	"ENST00000361729"	"Transcript"	"downstream_gene_variant"	"-/5191"	"-/1314"	"-/437"	""	""	""	"1"	"2728"	-1	"E2F2"	"HGNC"	3114	"protein_coding"	"YES"	"CCDS236.1"	"ENSP00000355249"	"Q14209"	""	"UPI0000129AC1"	"NM_004091.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"22322752-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113207547169811	"WGS"	FALSE
"12721"	"RP11-70P17.1"	0	"mskcc.org"	"GRCh37"	"1"	25918058	25918058	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000412797"	""	80	"71"	9	46	"46"	0	"RP11-70P17.1,downstream_gene_variant,,ENST00000412797,;"	"G"	"ENSG00000225643"	"ENST00000412797"	"Transcript"	"downstream_gene_variant"	"-/483"	""	""	""	""	""	"1"	"1211"	1	"RP11-70P17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"2232cb8a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1125	"WGS"	FALSE
"12722"	"ARID1A"	8289	"mskcc.org"	"GRCh37"	"1"	27032638	27032638	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1137+8607T>C"	""	""	"ENST00000324856"	""	87	"74"	13	41	"41"	0	"ARID1A,intron_variant,,ENST00000324856,NM_006015.4;ARID1A,intron_variant,,ENST00000457599,NM_139135.2;"	"C"	"ENSG00000117713"	"ENST00000324856"	"Transcript"	"intron_variant"	"-/8577"	"-/6858"	"-/2285"	""	""	""	"1"	NA	1	"ARID1A"	"HGNC"	11110	"protein_coding"	"YES"	"CCDS285.1"	"ENSP00000320485"	"O14497"	"Q96T01,Q96SY8,Q96SM7,E9PQW6,C1KEN7,A4FU79"	"UPI0000167B91"	"NM_006015.4"	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"22332a4e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.149425287356322	"WGS"	TRUE
"12723"	"NUDC"	10726	"mskcc.org"	"GRCh37"	"1"	27262607	27262607	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.160-5341C>G"	""	""	"ENST00000321265"	""	37	"32"	5	15	"15"	0	"NUDC,intron_variant,,ENST00000321265,NM_006600.3;NUDC,intron_variant,,ENST00000435827,;NUDC,intron_variant,,ENST00000452707,;"	"G"	"ENSG00000090273"	"ENST00000321265"	"Transcript"	"intron_variant"	"-/1800"	"-/996"	"-/331"	""	""	""	"1"	NA	1	"NUDC"	"HGNC"	8045	"protein_coding"	"YES"	"CCDS292.1"	"ENSP00000319664"	"Q9Y266"	""	"UPI000006D29B"	"NM_006600.3"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"22333cfa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135135135135135	"WGS"	FALSE
"12724"	"NUDC"	10726	"mskcc.org"	"GRCh37"	"1"	27262775	27262775	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.160-5173G>A"	""	""	"ENST00000321265"	""	44	"38"	6	24	"24"	0	"NUDC,intron_variant,,ENST00000321265,NM_006600.3;NUDC,intron_variant,,ENST00000435827,;NUDC,intron_variant,,ENST00000452707,;"	"A"	"ENSG00000090273"	"ENST00000321265"	"Transcript"	"intron_variant"	"-/1800"	"-/996"	"-/331"	""	""	""	"1"	NA	1	"NUDC"	"HGNC"	8045	"protein_coding"	"YES"	"CCDS292.1"	"ENSP00000319664"	"Q9Y266"	""	"UPI000006D29B"	"NM_006600.3"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"22333e62-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"12725"	"NUDC"	10726	"mskcc.org"	"GRCh37"	"1"	27262785	27262785	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.160-5163A>G"	""	""	"ENST00000321265"	""	44	"38"	6	27	"27"	0	"NUDC,intron_variant,,ENST00000321265,NM_006600.3;NUDC,intron_variant,,ENST00000435827,;NUDC,intron_variant,,ENST00000452707,;"	"G"	"ENSG00000090273"	"ENST00000321265"	"Transcript"	"intron_variant"	"-/1800"	"-/996"	"-/331"	""	""	""	"1"	NA	1	"NUDC"	"HGNC"	8045	"protein_coding"	"YES"	"CCDS292.1"	"ENSP00000319664"	"Q9Y266"	""	"UPI000006D29B"	"NM_006600.3"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"22333f20-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"12726"	"NUDC"	10726	"mskcc.org"	"GRCh37"	"1"	27262801	27262801	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.160-5147T>C"	""	""	"ENST00000321265"	""	47	"41"	6	30	"30"	0	"NUDC,intron_variant,,ENST00000321265,NM_006600.3;NUDC,intron_variant,,ENST00000435827,;NUDC,intron_variant,,ENST00000452707,;"	"C"	"ENSG00000090273"	"ENST00000321265"	"Transcript"	"intron_variant"	"-/1800"	"-/996"	"-/331"	""	""	""	"1"	NA	1	"NUDC"	"HGNC"	8045	"protein_coding"	"YES"	"CCDS292.1"	"ENSP00000319664"	"Q9Y266"	""	"UPI000006D29B"	"NM_006600.3"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"22333fde-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127659574468085	"WGS"	FALSE
"12727"	"WASF2"	10163	"mskcc.org"	"GRCh37"	"1"	27768940	27768940	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-43-13497A>T"	""	""	"ENST00000430629"	""	87	"81"	6	42	"42"	0	"WASF2,intron_variant,,ENST00000430629,NM_006990.3,NM_001201404.1;WASF2,intron_variant,,ENST00000536657,;"	"A"	"ENSG00000158195"	"ENST00000430629"	"Transcript"	"intron_variant"	"-/5666"	"-/1497"	"-/498"	""	""	""	"1"	NA	-1	"WASF2"	"HGNC"	12733	"protein_coding"	"YES"	"CCDS304.1"	"ENSP00000396211"	"Q9Y6W5"	"Q8NBU0,B4E3J5"	"UPI0000000D74"	"NM_006990.3,NM_001201404.1"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"22338b56-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"12728"	"IFI6"	2537	"mskcc.org"	"GRCh37"	"1"	28002841	28002841	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000339145"	""	93	"87"	6	57	"57"	0	"IFI6,upstream_gene_variant,,ENST00000361157,NM_002038.3,NM_022872.2,NM_022873.2;IFI6,upstream_gene_variant,,ENST00000362020,;IFI6,upstream_gene_variant,,ENST00000339145,;RNU6-949P,upstream_gene_variant,,ENST00000384040,;"	"G"	"ENSG00000126709"	"ENST00000339145"	"Transcript"	"upstream_gene_variant"	"-/822"	"-/417"	"-/138"	""	""	""	"1"	"4152"	-1	"IFI6"	"HGNC"	4054	"protein_coding"	"YES"	"CCDS308.1"	"ENSP00000342513"	"P09912"	""	"UPI000002ABE5"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"2233ab4a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"12729"	"RNU6-424P"	0	"mskcc.org"	"GRCh37"	"1"	28021253	28021253	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384367"	""	71	"65"	6	27	"27"	0	"RNU6-424P,downstream_gene_variant,,ENST00000384367,;"	"C"	"ENSG00000207095"	"ENST00000384367"	"Transcript"	"downstream_gene_variant"	"-/105"	""	""	""	""	""	"1"	"907"	1	"RNU6-424P"	"HGNC"	47387	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"2233acbc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"12730"	"RPA2"	6118	"mskcc.org"	"GRCh37"	"1"	28242862	28242862	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000373912"	""	58	"53"	5	36	"36"	0	"RPA2,upstream_gene_variant,,ENST00000373912,NM_002946.3;RPA2,upstream_gene_variant,,ENST00000313433,;RPA2,upstream_gene_variant,,ENST00000373909,;RPA2,upstream_gene_variant,,ENST00000444045,;"	"G"	"ENSG00000117748"	"ENST00000373912"	"Transcript"	"upstream_gene_variant"	"-/1752"	"-/813"	"-/270"	""	""	""	"1"	"1608"	-1	"RPA2"	"HGNC"	10290	"protein_coding"	"YES"	"CCDS314.1"	"ENSP00000363021"	"P15927"	"Q5TEJ0,B4DUL2,B4DQD9,B4DL94"	"UPI000013379F"	"NM_002946.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"2233c486-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0862068965517241	"WGS"	FALSE
"12731"	"PHACTR4"	65979	"mskcc.org"	"GRCh37"	"1"	28788478	28788478	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs537101830"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.301+1675G>A"	""	""	"ENST00000373836"	""	92	"68"	24	46	"46"	0	"PHACTR4,intron_variant,,ENST00000373839,NM_001048183.1;PHACTR4,intron_variant,,ENST00000373836,NM_023923.3;PHACTR4,intron_variant,,ENST00000493669,;PHACTR4,intron_variant,,ENST00000463428,;"	"A"	"ENSG00000204138"	"ENST00000373836"	"Transcript"	"intron_variant"	"-/6112"	"-/2139"	"-/712"	""	""	"rs537101830"	"1"	NA	1	"PHACTR4"	"HGNC"	25793	"protein_coding"	"YES"	"CCDS41294.1"	"ENSP00000362942"	"Q8IZ21"	""	"UPI0000374EB3"	"NM_023923.3"	""	""	""	"3/12"	""	"A:0.0004"	"A:0"	"A:0"	NA	"A:0.002"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"223425c0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"12732"	"OPRD1"	4985	"mskcc.org"	"GRCh37"	"1"	29184726	29184726	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.228-740C>A"	""	""	"ENST00000234961"	""	75	"67"	8	27	"27"	0	"OPRD1,intron_variant,,ENST00000234961,NM_000911.3;"	"A"	"ENSG00000116329"	"ENST00000234961"	"Transcript"	"intron_variant"	"-/1774"	"-/1119"	"-/372"	""	""	""	"1"	NA	1	"OPRD1"	"HGNC"	8153	"protein_coding"	"YES"	"CCDS329.1"	"ENSP00000234961"	"P41143"	""	"UPI0000130D94"	"NM_000911.3"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"22346ef4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106666666666667	"WGS"	FALSE
"12733"	"OPRD1"	4985	"mskcc.org"	"GRCh37"	"1"	29184729	29184729	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.228-737C>A"	""	""	"ENST00000234961"	""	74	"67"	7	28	"28"	0	"OPRD1,intron_variant,,ENST00000234961,NM_000911.3;"	"A"	"ENSG00000116329"	"ENST00000234961"	"Transcript"	"intron_variant"	"-/1774"	"-/1119"	"-/372"	""	""	""	"1"	NA	1	"OPRD1"	"HGNC"	8153	"protein_coding"	"YES"	"CCDS329.1"	"ENSP00000234961"	"P41143"	""	"UPI0000130D94"	"NM_000911.3"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"22346f9e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	FALSE
"12734"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	31269279	31269279	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"76"	6	37	"37"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"2234d308-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"12735"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	31605461	31605461	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"82"	10	41	"41"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"2234f4dc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108695652173913	"WGS"	FALSE
"12736"	"HDAC1"	3065	"mskcc.org"	"GRCh37"	"1"	32767296	32767296	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.50-926A>T"	""	""	"ENST00000373548"	""	73	"66"	7	37	"37"	0	"HDAC1,intron_variant,,ENST00000373548,NM_004964.2;HDAC1,intron_variant,,ENST00000373541,;HDAC1,intron_variant,,ENST00000428704,;HDAC1,intron_variant,,ENST00000463172,;HDAC1,intron_variant,,ENST00000481281,;HDAC1,intron_variant,,ENST00000472928,;"	"T"	"ENSG00000116478"	"ENST00000373548"	"Transcript"	"intron_variant"	"-/2124"	"-/1449"	"-/482"	""	""	""	"1"	NA	1	"HDAC1"	"HGNC"	4852	"protein_coding"	"YES"	"CCDS360.1"	"ENSP00000362649"	"Q13547"	"Q6IT96,F5GXM1"	"UPI0000035528"	"NM_004964.2"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"223594be-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"12737"	"CLSPN"	63967	"mskcc.org"	"GRCh37"	"1"	36201132	36201132	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000318121"	""	78	"72"	6	38	"38"	0	"CLSPN,intron_variant,,ENST00000251195,;CLSPN,downstream_gene_variant,,ENST00000318121,NM_022111.3;CLSPN,downstream_gene_variant,,ENST00000520551,;CLSPN,downstream_gene_variant,,ENST00000373220,NM_001190481.1;RP11-435D7.3,upstream_gene_variant,,ENST00000373226,;CLSPN,downstream_gene_variant,,ENST00000466308,;"	"A"	"ENSG00000092853"	"ENST00000318121"	"Transcript"	"downstream_gene_variant"	"-/4169"	"-/4020"	"-/1339"	""	""	""	"1"	"874"	-1	"CLSPN"	"HGNC"	19715	"protein_coding"	"YES"	"CCDS396.1"	"ENSP00000312995"	"Q9HAW4"	""	"UPI0000161087"	"NM_022111.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"22366466-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"12738"	"CLSPN"	63967	"mskcc.org"	"GRCh37"	"1"	36201133	36201133	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000318121"	""	75	"70"	5	40	"40"	0	"CLSPN,intron_variant,,ENST00000251195,;CLSPN,downstream_gene_variant,,ENST00000318121,NM_022111.3;CLSPN,downstream_gene_variant,,ENST00000520551,;CLSPN,downstream_gene_variant,,ENST00000373220,NM_001190481.1;RP11-435D7.3,upstream_gene_variant,,ENST00000373226,;CLSPN,downstream_gene_variant,,ENST00000466308,;"	"A"	"ENSG00000092853"	"ENST00000318121"	"Transcript"	"downstream_gene_variant"	"-/4169"	"-/4020"	"-/1339"	""	""	""	"1"	"873"	-1	"CLSPN"	"HGNC"	19715	"protein_coding"	"YES"	"CCDS396.1"	"ENSP00000312995"	"Q9HAW4"	""	"UPI0000161087"	"NM_022111.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"22366510-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"12739"	"THRAP3"	9967	"mskcc.org"	"GRCh37"	"1"	36695339	36695339	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-135+5233T>C"	""	""	"ENST00000354618"	""	83	"75"	8	47	"47"	0	"THRAP3,intron_variant,,ENST00000354618,NM_005119.3;THRAP3,intron_variant,,ENST00000469141,;THRAP3,intron_variant,,ENST00000478853,;"	"C"	"ENSG00000054118"	"ENST00000354618"	"Transcript"	"intron_variant"	"-/4432"	"-/2868"	"-/955"	""	""	""	"1"	NA	1	"THRAP3"	"HGNC"	22964	"protein_coding"	"YES"	"CCDS405.1"	"ENSP00000346634"	"Q9Y2W1"	"E9PML1"	"UPI0000203F28"	"NM_005119.3"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"2236a160-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0963855421686747	"WGS"	TRUE
"12740"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	37911046	37911046	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"78"	9	33	"33"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"2236e9b8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"12741"	"INPP5B"	3633	"mskcc.org"	"GRCh37"	"1"	38403231	38403231	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.391+3129T>C"	""	""	"ENST00000373024"	""	68	"62"	6	33	"33"	0	"INPP5B,intron_variant,,ENST00000373023,NM_005540.2;INPP5B,intron_variant,,ENST00000373021,;INPP5B,intron_variant,,ENST00000373026,;INPP5B,intron_variant,,ENST00000373024,;INPP5B,downstream_gene_variant,,ENST00000491406,;"	"G"	"ENSG00000204084"	"ENST00000373024"	"Transcript"	"intron_variant"	"-/3060"	"-/2742"	"-/913"	""	""	""	"1"	NA	-1	"INPP5B"	"HGNC"	6077	"protein_coding"	"YES"	"CCDS41306.1"	"ENSP00000362115"	"P32019"	""	"UPI0000458AD7"	""	""	""	""	"6/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"223710be-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"12742"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"1"	39417901	39417901	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384735"	""	68	"62"	6	42	"42"	0	"Y_RNA,upstream_gene_variant,,ENST00000384735,;"	"C"	"ENSG00000207466"	"ENST00000384735"	"Transcript"	"upstream_gene_variant"	"-/101"	""	""	""	""	""	"1"	"1304"	-1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"22374f0c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"12743"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	39481413	39481413	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"91"	6	42	"42"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"22375880-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0618556701030928	"WGS"	FALSE
"12744"	"MACF1"	23499	"mskcc.org"	"GRCh37"	"1"	39683317	39683317	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.221-13537A>G"	""	""	"ENST00000545844"	""	76	"67"	9	42	"42"	0	"MACF1,intron_variant,,ENST00000564288,;MACF1,intron_variant,,ENST00000567887,;MACF1,intron_variant,,ENST00000372915,;MACF1,intron_variant,,ENST00000545844,;MACF1,intron_variant,,ENST00000317713,;MACF1,intron_variant,,ENST00000361689,NM_012090.5;MACF1,intron_variant,,ENST00000539005,;MACF1,intron_variant,,ENST00000524432,;MACF1,intron_variant,,ENST00000536367,;MACF1,intron_variant,,ENST00000494012,;MACF1,intron_variant,,ENST00000480624,;MACF1,intron_variant,,ENST00000469366,;MACF1,intron_variant,,ENST00000467673,;"	"G"	"ENSG00000127603"	"ENST00000545844"	"Transcript"	"intron_variant"	"-/17724"	"-/16293"	"-/5430"	""	""	""	"1"	NA	1	"MACF1"	"HGNC"	13664	"protein_coding"	"YES"	"CCDS435.1"	"ENSP00000439537"	"Q9UPN3"	"Q8WXY4,Q8WXY3,Q8WXY0,Q8WXX9,B4DNC4"	"UPI00001B3DC6"	""	""	""	""	"2/93"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"223770a4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.118421052631579	"WGS"	FALSE
"12745"	"PPIE"	10450	"mskcc.org"	"GRCh37"	"1"	40164399	40164399	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-326+6139C>A"	""	""	"ENST00000470018"	""	87	"57"	30	57	"57"	0	"PPIE,intron_variant,,ENST00000470018,;"	"A"	"ENSG00000084072"	"ENST00000470018"	"Transcript"	"intron_variant"	"-/947"	"-/215"	"-/71"	""	""	""	"1"	NA	1	"PPIE"	"HGNC"	9258	"protein_coding"	""	""	"ENSP00000436689"	""	"E9PIB0"	"UPI0001F77E0B"	""	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"22379c00-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344827586206897	"WGS"	FALSE
"12746"	"ZNF684"	127396	"mskcc.org"	"GRCh37"	"1"	41001961	41001961	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.15+3108T>G"	""	""	"ENST00000372699"	""	76	"69"	7	40	"40"	0	"ZNF684,intron_variant,,ENST00000372699,NM_152373.3;ZNF684,intron_variant,,ENST00000372697,;ZNF684,intron_variant,,ENST00000372696,;ZNF684,intron_variant,,ENST00000493756,;ZNF684,intron_variant,,ENST00000465152,;"	"G"	"ENSG00000117010"	"ENST00000372699"	"Transcript"	"intron_variant"	"-/2097"	"-/1137"	"-/378"	""	""	""	"1"	NA	1	"ZNF684"	"HGNC"	28418	"protein_coding"	"YES"	"CCDS454.1"	"ENSP00000361784"	"Q5T5D7"	""	"UPI00000437E3"	"NM_152373.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"2237d1fc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"12747"	"FOXJ3"	22887	"mskcc.org"	"GRCh37"	"1"	42794001	42794001	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-271-4503G>A"	""	""	"ENST00000372572"	""	83	"54"	29	46	"46"	0	"FOXJ3,intron_variant,,ENST00000372572,NM_001198851.1;FOXJ3,intron_variant,,ENST00000372573,NM_001198850.1;FOXJ3,intron_variant,,ENST00000361346,NM_014947.4;FOXJ3,intron_variant,,ENST00000361776,NM_001198852.1;FOXJ3,intron_variant,,ENST00000445886,;"	"T"	"ENSG00000198815"	"ENST00000372572"	"Transcript"	"intron_variant"	"-/5352"	"-/1869"	"-/622"	""	""	""	"1"	NA	-1	"FOXJ3"	"HGNC"	29178	"protein_coding"	"YES"	"CCDS30689.1"	"ENSP00000361653"	"Q9UPW0"	"F6VXT0,C9JXI1"	"UPI000013D359"	"NM_001198851.1"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"22382d82-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349397590361446	"WGS"	FALSE
"12748"	"CLDN19"	149461	"mskcc.org"	"GRCh37"	"1"	43198796	43198796	"+"	"3'UTR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1961A>T"	""	""	"ENST00000296387"	"5/5"	73	"67"	6	36	"36"	0	"CLDN19,3_prime_UTR_variant,,ENST00000539749,NM_001185117.1;CLDN19,3_prime_UTR_variant,,ENST00000296387,NM_001123395.1,NM_148960.2;CLDN19,downstream_gene_variant,,ENST00000372539,;"	"A"	"ENSG00000164007"	"ENST00000296387"	"Transcript"	"3_prime_UTR_variant"	"2827/2859"	"-/675"	"-/224"	""	""	""	"1"	NA	-1	"CLDN19"	"HGNC"	2040	"protein_coding"	"YES"	"CCDS471.1"	"ENSP00000296387"	"Q8N6F1"	""	"UPI000013E32D"	"NM_001123395.1,NM_148960.2"	""	""	"5/5"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"2238465a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"12749"	"EIF2B3"	8891	"mskcc.org"	"GRCh37"	"1"	45438948	45438948	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.294+5039C>A"	""	""	"ENST00000360403"	""	110	"80"	30	44	"44"	0	"EIF2B3,intron_variant,,ENST00000360403,NM_020365.4,NM_001261418.1;EIF2B3,intron_variant,,ENST00000372183,NM_001166588.2;EIF2B3,intron_variant,,ENST00000372182,;EIF2B3,intron_variant,,ENST00000480675,;EIF2B3,intron_variant,,ENST00000477953,;EIF2B3,intron_variant,,ENST00000487532,;EIF2B3,intron_variant,,ENST00000497010,;"	"T"	"ENSG00000070785"	"ENST00000360403"	"Transcript"	"intron_variant"	"-/1659"	"-/1359"	"-/452"	""	""	""	"1"	NA	-1	"EIF2B3"	"HGNC"	3259	"protein_coding"	"YES"	"CCDS517.1"	"ENSP00000353575"	"Q9NR50"	"Q9HA31"	"UPI0000046983"	"NM_020365.4,NM_001261418.1"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"2238deda-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"12750"	"EIF2B3"	8891	"mskcc.org"	"GRCh37"	"1"	45444775	45444775	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.149-643T>C"	""	""	"ENST00000360403"	""	62	"53"	9	28	"28"	0	"EIF2B3,intron_variant,,ENST00000360403,NM_020365.4,NM_001261418.1;EIF2B3,intron_variant,,ENST00000372183,NM_001166588.2;EIF2B3,intron_variant,,ENST00000372182,;EIF2B3,intron_variant,,ENST00000480675,;EIF2B3,intron_variant,,ENST00000477953,;EIF2B3,intron_variant,,ENST00000487532,;EIF2B3,intron_variant,,ENST00000497010,;"	"G"	"ENSG00000070785"	"ENST00000360403"	"Transcript"	"intron_variant"	"-/1659"	"-/1359"	"-/452"	""	""	""	"1"	NA	-1	"EIF2B3"	"HGNC"	3259	"protein_coding"	"YES"	"CCDS517.1"	"ENSP00000353575"	"Q9NR50"	"Q9HA31"	"UPI0000046983"	"NM_020365.4,NM_001261418.1"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"2238df84-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145161290322581	"WGS"	FALSE
"12751"	"ZSWIM5"	57643	"mskcc.org"	"GRCh37"	"1"	45509840	45509840	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1433-773A>G"	""	""	"ENST00000359600"	""	84	"77"	7	38	"38"	0	"ZSWIM5,intron_variant,,ENST00000359600,NM_020883.1;"	"C"	"ENSG00000162415"	"ENST00000359600"	"Transcript"	"intron_variant"	"-/5819"	"-/3558"	"-/1185"	""	""	""	"1"	NA	-1	"ZSWIM5"	"HGNC"	29299	"protein_coding"	"YES"	"CCDS41319.1"	"ENSP00000352614"	"Q9P217"	""	"UPI00001C1D76"	"NM_020883.1"	""	""	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"2238e31c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"12752"	"TESK2"	10420	"mskcc.org"	"GRCh37"	"1"	45862704	45862704	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.345-11072C>A"	""	""	"ENST00000372086"	""	56	"50"	6	43	"43"	0	"TESK2,intron_variant,,ENST00000372086,NM_007170.2;TESK2,intron_variant,,ENST00000341771,;TESK2,intron_variant,,ENST00000372084,;TESK2,intron_variant,,ENST00000538496,;TESK2,downstream_gene_variant,,ENST00000451835,;TESK2,intron_variant,,ENST00000486676,;TESK2,downstream_gene_variant,,ENST00000493974,;"	"T"	"ENSG00000070759"	"ENST00000372086"	"Transcript"	"intron_variant"	"-/3074"	"-/1716"	"-/571"	""	""	""	"1"	NA	-1	"TESK2"	"HGNC"	11732	"protein_coding"	"YES"	"CCDS41323.1"	"ENSP00000361158"	"Q96S53"	"F5GWP9,D3DPZ7"	"UPI000004073A"	"NM_007170.2"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"2239013a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"12753"	"PIK3R3"	8503	"mskcc.org"	"GRCh37"	"1"	46590639	46590639	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.106+6880A>G"	""	""	"ENST00000262741"	""	75	"68"	7	47	"47"	0	"PIK3R3,intron_variant,,ENST00000262741,NM_003629.3;PIK3R3,intron_variant,,ENST00000420542,NM_001114172.1;PIK3R3,intron_variant,,ENST00000372006,;PIK3R3,intron_variant,,ENST00000354242,;PIK3R3,intron_variant,,ENST00000340332,;PIK3R3,intron_variant,,ENST00000423209,;PIK3R3,intron_variant,,ENST00000540385,;PIK3R3,intron_variant,,ENST00000425892,;PIK3R3,intron_variant,,ENST00000493202,;"	"C"	"ENSG00000117461"	"ENST00000262741"	"Transcript"	"intron_variant"	"-/5609"	"-/1386"	"-/461"	""	""	""	"1"	NA	-1	"PIK3R3"	"HGNC"	8981	"protein_coding"	"YES"	"CCDS529.1"	"ENSP00000262741"	"Q92569"	"Q9UMI3,Q5T4P3"	"UPI000013D318"	"NM_003629.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"22395004-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0933333333333333	"WGS"	FALSE
"12754"	"PIK3R3"	8503	"mskcc.org"	"GRCh37"	"1"	46590644	46590644	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.106+6875T>C"	""	""	"ENST00000262741"	""	75	"68"	7	45	"45"	0	"PIK3R3,intron_variant,,ENST00000262741,NM_003629.3;PIK3R3,intron_variant,,ENST00000420542,NM_001114172.1;PIK3R3,intron_variant,,ENST00000372006,;PIK3R3,intron_variant,,ENST00000354242,;PIK3R3,intron_variant,,ENST00000340332,;PIK3R3,intron_variant,,ENST00000423209,;PIK3R3,intron_variant,,ENST00000540385,;PIK3R3,intron_variant,,ENST00000425892,;PIK3R3,intron_variant,,ENST00000493202,;"	"G"	"ENSG00000117461"	"ENST00000262741"	"Transcript"	"intron_variant"	"-/5609"	"-/1386"	"-/461"	""	""	""	"1"	NA	-1	"PIK3R3"	"HGNC"	8981	"protein_coding"	"YES"	"CCDS529.1"	"ENSP00000262741"	"Q92569"	"Q9UMI3,Q5T4P3"	"UPI000013D318"	"NM_003629.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"223950b8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0933333333333333	"WGS"	FALSE
"12755"	"CYP4X1"	260293	"mskcc.org"	"GRCh37"	"1"	47511248	47511248	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1074-891A>C"	""	""	"ENST00000371901"	""	77	"48"	29	44	"44"	0	"CYP4X1,intron_variant,,ENST00000371901,NM_178033.1;CYP4X1,intron_variant,,ENST00000538609,;"	"C"	"ENSG00000186377"	"ENST00000371901"	"Transcript"	"intron_variant"	"-/2357"	"-/1530"	"-/509"	""	""	""	"1"	NA	1	"CYP4X1"	"HGNC"	20244	"protein_coding"	"YES"	"CCDS544.1"	"ENSP00000360968"	"Q8N118"	""	"UPI000003F043"	"NM_178033.1"	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"2239879a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.376623376623377	"WGS"	FALSE
"12756"	"AGBL4"	84871	"mskcc.org"	"GRCh37"	"1"	49313223	49313223	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.634+19640C>T"	""	""	"ENST00000371839"	""	91	"64"	27	57	"57"	0	"AGBL4,intron_variant,,ENST00000416121,;AGBL4,intron_variant,,ENST00000371839,NM_032785.3;AGBL4,intron_variant,,ENST00000371836,;AGBL4,intron_variant,,ENST00000371838,;"	"A"	"ENSG00000186094"	"ENST00000371839"	"Transcript"	"intron_variant"	"-/2947"	"-/1512"	"-/503"	""	""	""	"1"	NA	-1	"AGBL4"	"HGNC"	25892	"protein_coding"	"YES"	"CCDS44137.1"	"ENSP00000360905"	"Q5VU57"	""	"UPI00002042F9"	"NM_032785.3"	""	""	""	"6/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"2239e000-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296703296703297	"WGS"	FALSE
"12757"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	50773440	50773440	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"40"	26	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"2239fe14-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.393939393939394	"WGS"	FALSE
"12758"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	52568227	52568227	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"45"	34	39	"39"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"223a71e6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.430379746835443	"WGS"	FALSE
"12759"	"LRP8"	7804	"mskcc.org"	"GRCh37"	"1"	53727280	53727280	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1914+460C>T"	""	""	"ENST00000306052"	""	96	"59"	37	47	"47"	0	"LRP8,intron_variant,,ENST00000306052,NM_004631.4;LRP8,intron_variant,,ENST00000371454,NM_001018054.2;LRP8,intron_variant,,ENST00000465675,;LRP8,intron_variant,,ENST00000354412,NM_017522.4;LRP8,intron_variant,,ENST00000347547,NM_033300.3;LRP8,downstream_gene_variant,,ENST00000475501,;LRP8,intron_variant,,ENST00000460214,;LRP8,intron_variant,,ENST00000459674,;LRP8,intron_variant,,ENST00000480045,;LRP8,intron_variant,,ENST00000481431,;LRP8,upstream_gene_variant,,ENST00000529670,;"	"A"	"ENSG00000157193"	"ENST00000306052"	"Transcript"	"intron_variant"	"-/4467"	"-/2892"	"-/963"	""	""	""	"1"	NA	-1	"LRP8"	"HGNC"	6700	"protein_coding"	"YES"	"CCDS578.1"	"ENSP00000303634"	"Q14114"	""	"UPI00001AF338"	"NM_004631.4"	""	""	""	"12/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"223aef9a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.385416666666667	"WGS"	FALSE
"12760"	"DAB1"	1600	"mskcc.org"	"GRCh37"	"1"	58489823	58489823	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-374-139989G>A"	""	""	"ENST00000371234"	""	97	"68"	29	56	"56"	0	"DAB1,intron_variant,,ENST00000371234,NM_021080.3;DAB1,intron_variant,,ENST00000485760,;"	"T"	"ENSG00000173406"	"ENST00000371234"	"Transcript"	"intron_variant"	"-/2580"	"-/1668"	"-/555"	""	""	""	"1"	NA	-1	"DAB1"	"HGNC"	2661	"protein_coding"	""	"CCDS607.1"	"ENSP00000360278"	"O75553"	""	"UPI000013EE33"	"NM_021080.3"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"223bcc12-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298969072164948	"WGS"	FALSE
"12761"	"HOOK1"	51361	"mskcc.org"	"GRCh37"	"1"	60275668	60275668	"+"	"5'Flank"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371208"	""	79	"51"	28	48	"48"	0	"HOOK1,upstream_gene_variant,,ENST00000371208,NM_015888.4;HOOK1,upstream_gene_variant,,ENST00000455990,;"	"G"	"ENSG00000134709"	"ENST00000371208"	"Transcript"	"upstream_gene_variant"	"-/5857"	"-/2187"	"-/728"	""	""	""	"1"	"4865"	1	"HOOK1"	"HGNC"	19884	"protein_coding"	"YES"	"CCDS612.1"	"ENSP00000360252"	"Q9UJC3"	"B1AK95,A8MU44"	"UPI0000071E61"	"NM_015888.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"223c0f6a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354430379746835	"WGS"	FALSE
"12762"	"RP11-776H12.1"	0	"mskcc.org"	"GRCh37"	"1"	61011840	61011840	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1499-3757G>C"	""	""	"ENST00000439156"	""	89	"55"	34	60	"60"	0	"RP11-776H12.1,intron_variant,,ENST00000439156,;"	"G"	"ENSG00000226476"	"ENST00000439156"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1798"	""	""	""	""	""	"1"	NA	-1	"RP11-776H12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"223c27e8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.382022471910112	"WGS"	FALSE
"12763"	"NFIA"	4774	"mskcc.org"	"GRCh37"	"1"	61613025	61613025	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.694+58673G>A"	""	""	"ENST00000371189"	""	76	"53"	23	39	"38"	1	"NFIA,intron_variant,,ENST00000403491,NM_001134673.3,NM_005595.4;NFIA,intron_variant,,ENST00000371187,;NFIA,intron_variant,,ENST00000407417,NM_001145511.1;NFIA,intron_variant,,ENST00000371189,NM_001145512.1;NFIA,intron_variant,,ENST00000371191,;NFIA,intron_variant,,ENST00000371185,;NFIA,intron_variant,,ENST00000485903,;NFIA,intron_variant,,ENST00000371184,;NFIA,intron_variant,,ENST00000476646,;NFIA,intron_variant,,ENST00000479364,;"	"A"	"ENSG00000162599"	"ENST00000371189"	"Transcript"	"intron_variant"	"-/1989"	"-/1665"	"-/554"	""	""	""	"1"	NA	1	"NFIA"	"HGNC"	7784	"protein_coding"	"YES"	"CCDS53322.1"	"ENSP00000360231"	"Q12857"	"S4R3K4"	"UPI000194EC2E"	"NM_001145512.1"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"223c3f8a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302631578947368	"WGS"	FALSE
"12764"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	62825921	62825921	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"86"	7	47	"47"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"223ca42a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"12765"	"CACHD1"	57685	"mskcc.org"	"GRCh37"	"1"	65154653	65154653	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3434-2353T>C"	""	""	"ENST00000290039"	""	82	"45"	37	60	"60"	0	"CACHD1,intron_variant,,ENST00000371073,;CACHD1,intron_variant,,ENST00000290039,NM_020925.2;CACHD1,intron_variant,,ENST00000495994,;CACHD1,intron_variant,,ENST00000470527,;"	"C"	"ENSG00000158966"	"ENST00000290039"	"Transcript"	"intron_variant"	"-/5275"	"-/3672"	"-/1223"	""	""	""	"1"	NA	1	"CACHD1"	"HGNC"	29314	"protein_coding"	"YES"	"CCDS628.2"	"ENSP00000290039"	""	""	"UPI0000458A70"	"NM_020925.2"	""	""	""	"26/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"223d2530-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.451219512195122	"WGS"	FALSE
"12766"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	66112256	66112256	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"34"	20	34	"34"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"223d530c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.37037037037037	"WGS"	FALSE
"12767"	"PDE4B"	5142	"mskcc.org"	"GRCh37"	"1"	66488794	66488794	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.281+104276T>A"	""	""	"ENST00000329654"	""	88	"56"	32	43	"43"	0	"PDE4B,intron_variant,,ENST00000423207,NM_001037340.1;PDE4B,intron_variant,,ENST00000329654,NM_001037341.1;PDE4B,intron_variant,,ENST00000341517,NM_002600.3;PDE4B,intron_variant,,ENST00000371049,;PDE4B,intron_variant,,ENST00000532040,;PDE4B,intron_variant,,ENST00000526666,;PDE4B,intron_variant,,ENST00000531358,;"	"A"	"ENSG00000184588"	"ENST00000329654"	"Transcript"	"intron_variant"	"-/3998"	"-/2211"	"-/736"	""	""	""	"1"	NA	1	"PDE4B"	"HGNC"	8781	"protein_coding"	"YES"	"CCDS632.1"	"ENSP00000332116"	"Q07343"	"E9PR34,E9PNB0,E9PJ03"	"UPI0000127BF6"	"NM_001037341.1"	""	""	""	"3/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"223d6bf8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"12768"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	73643562	73643562	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"83"	6	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"223e54a0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"12769"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	73759323	73759323	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"79"	16	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"223e5e8c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168421052631579	"WGS"	FALSE
"12770"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	75451134	75451134	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"48"	31	45	"44"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"223e866e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.392405063291139	"WGS"	FALSE
"12771"	"ZZZ3"	26009	"mskcc.org"	"GRCh37"	"1"	78119190	78119190	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-402-11850T>C"	""	""	"ENST00000370801"	""	78	"72"	6	40	"40"	0	"ZZZ3,intron_variant,,ENST00000370801,NM_015534.4;ZZZ3,intron_variant,,ENST00000370798,;ZZZ3,intron_variant,,ENST00000433749,;ZZZ3,intron_variant,,ENST00000414381,;ZZZ3,intron_variant,,ENST00000469944,;ZZZ3,intron_variant,,ENST00000463166,;"	"G"	"ENSG00000036549"	"ENST00000370801"	"Transcript"	"intron_variant"	"-/4328"	"-/2712"	"-/903"	""	""	""	"1"	NA	-1	"ZZZ3"	"HGNC"	24523	"protein_coding"	"YES"	"CCDS677.1"	"ENSP00000359837"	"Q8IYH5"	"C9JUA4,C9J283"	"UPI0000074256"	"NM_015534.4"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"223ef4c8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"12772"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	79737016	79737016	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"76"	6	44	"44"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"223f47de-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"12773"	"RP4-601K24.1"	0	"mskcc.org"	"GRCh37"	"1"	83495295	83495295	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1056+32023T>C"	""	""	"ENST00000452901"	""	75	"67"	8	43	"43"	0	"RP4-601K24.1,intron_variant,,ENST00000452901,;"	"C"	"ENSG00000230817"	"ENST00000452901"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1712"	""	""	""	""	""	"1"	NA	1	"RP4-601K24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"223fdb86-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106666666666667	"WGS"	FALSE
"12774"	"LPAR3"	23566	"mskcc.org"	"GRCh37"	"1"	85274719	85274719	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000440886"	""	79	"73"	6	63	"63"	0	"LPAR3,downstream_gene_variant,,ENST00000440886,;LPAR3,downstream_gene_variant,,ENST00000370611,NM_012152.2;LPAR3,downstream_gene_variant,,ENST00000491034,;"	"A"	"ENSG00000171517"	"ENST00000440886"	"Transcript"	"downstream_gene_variant"	"-/3345"	"-/1062"	"-/353"	""	""	""	"1"	"2566"	-1	"LPAR3"	"HGNC"	14298	"protein_coding"	"YES"	"CCDS700.1"	"ENSP00000395389"	"Q9UBY5"	""	"UPI000003CAC0"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"22406790-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"12775"	"ZNHIT6"	54680	"mskcc.org"	"GRCh37"	"1"	86174626	86174626	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000370574"	""	79	"73"	6	38	"38"	0	"ZNHIT6,upstream_gene_variant,,ENST00000431532,NM_001170670.1,NM_017953.3;ZNHIT6,upstream_gene_variant,,ENST00000370574,;"	"A"	"ENSG00000117174"	"ENST00000370574"	"Transcript"	"upstream_gene_variant"	"-/2797"	"-/1413"	"-/470"	""	""	""	"1"	"525"	-1	"ZNHIT6"	"HGNC"	26089	"protein_coding"	"YES"	"CCDS707.1"	"ENSP00000359606"	"Q9NWK9"	""	"UPI000006D8D2"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"22408ec8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"12776"	"COL24A1"	255631	"mskcc.org"	"GRCh37"	"1"	86608972	86608972	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.121+2830A>G"	""	""	"ENST00000370571"	""	78	"54"	24	45	"45"	0	"COL24A1,intron_variant,,ENST00000370571,NM_152890.5;COL24A1,intron_variant,,ENST00000436319,;COL24A1,intron_variant,,ENST00000496682,;COL24A1,intron_variant,,ENST00000426639,;"	"C"	"ENSG00000171502"	"ENST00000370571"	"Transcript"	"intron_variant"	"-/6825"	"-/5145"	"-/1714"	""	""	""	"1"	NA	-1	"COL24A1"	"HGNC"	20821	"protein_coding"	"YES"	"CCDS41353.1"	"ENSP00000359603"	"Q17RW2"	"E9PNK8"	"UPI000013E81F"	"NM_152890.5"	""	""	""	"2/59"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"22409fda-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"12777"	"RP4-665J23.1"	149351	"mskcc.org"	"GRCh37"	"1"	91291954	91291954	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000455680"	""	86	"56"	30	36	"36"	0	"RP4-665J23.1,intron_variant,,ENST00000435649,;RP4-665J23.1,downstream_gene_variant,,ENST00000455680,;RP4-665J23.1,downstream_gene_variant,,ENST00000606660,;"	"T"	"ENSG00000233593"	"ENST00000455680"	"Transcript"	"downstream_gene_variant"	"-/2986"	""	""	""	""	""	"1"	"3150"	-1	"RP4-665J23.1"	"Clone_based_vega_gene"	NA	"retained_intron"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"22412694-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.348837209302326	"WGS"	FALSE
"12778"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	91937485	91937485	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"51"	32	46	"46"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"2241572c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.385542168674699	"WGS"	FALSE
"12779"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	92086009	92086009	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs547692835"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"81"	28	54	"54"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs547692835"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"G:0.0002"	"G:0.0008"	"G:0"	NA	"G:0"	"G:0"	"G:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"22416190-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256880733944954	"WGS"	FALSE
"12780"	"TGFBR3"	7049	"mskcc.org"	"GRCh37"	"1"	92322412	92322412	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.61+4616G>T"	""	""	"ENST00000212355"	""	92	"69"	23	49	"49"	0	"TGFBR3,intron_variant,,ENST00000212355,NM_001195683.1,NM_003243.4;TGFBR3,intron_variant,,ENST00000370399,NM_001195684.1;TGFBR3,intron_variant,,ENST00000525962,;TGFBR3,intron_variant,,ENST00000465892,;TGFBR3,intron_variant,,ENST00000417833,;TGFBR3,intron_variant,,ENST00000533089,;TGFBR3,intron_variant,,ENST00000532540,;"	"A"	"ENSG00000069702"	"ENST00000212355"	"Transcript"	"intron_variant"	"-/6416"	"-/2556"	"-/851"	""	""	""	"1"	NA	-1	"TGFBR3"	"HGNC"	11774	"protein_coding"	"YES"	"CCDS30770.1"	"ENSP00000212355"	"Q03167"	"E9PAW7"	"UPI000049D997"	"NM_001195683.1,NM_003243.4"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"22417536-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"12781"	"UBE2WP1"	0	"mskcc.org"	"GRCh37"	"1"	96881412	96881412	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000362030"	""	66	"61"	5	54	"54"	0	"UBE2WP1,upstream_gene_variant,,ENST00000362030,;"	"T"	"ENSG00000234422"	"ENST00000362030"	"Transcript"	"upstream_gene_variant"	"-/340"	""	""	""	""	""	"1"	"2738"	1	"UBE2WP1"	"HGNC"	32198	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"224258c0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0757575757575758	"WGS"	FALSE
"12782"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	96906050	96906050	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"65"	33	42	"42"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"2242596a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336734693877551	"WGS"	FALSE
"12783"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	98979779	98979779	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"61"	30	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"224298a8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32967032967033	"WGS"	FALSE
"12784"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	105649692	105649692	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"55"	22	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"22436846-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"12785"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	106198254	106198254	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"67"	35	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"2243787c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.343137254901961	"WGS"	FALSE
"12786"	"NTNG1"	22854	"mskcc.org"	"GRCh37"	"1"	107834795	107834795	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.247-32109A>G"	""	""	"ENST00000370068"	""	77	"48"	29	44	"44"	0	"NTNG1,intron_variant,,ENST00000370067,;NTNG1,intron_variant,,ENST00000370068,;NTNG1,intron_variant,,ENST00000370073,NM_001113226.1;NTNG1,intron_variant,,ENST00000370071,NM_001113228.1;NTNG1,intron_variant,,ENST00000370074,NM_014917.2;NTNG1,intron_variant,,ENST00000542803,;NTNG1,intron_variant,,ENST00000370061,;NTNG1,intron_variant,,ENST00000370072,;NTNG1,intron_variant,,ENST00000370070,;NTNG1,intron_variant,,ENST00000370065,;NTNG1,intron_variant,,ENST00000370066,;NTNG1,intron_variant,,ENST00000477948,;NTNG1,intron_variant,,ENST00000294649,;"	"G"	"ENSG00000162631"	"ENST00000370068"	"Transcript"	"intron_variant"	"-/4034"	"-/1620"	"-/539"	""	""	""	"1"	NA	1	"NTNG1"	"HGNC"	23319	"protein_coding"	"YES"	"CCDS44180.1"	"ENSP00000359085"	"Q9Y2I2"	"Q5IEC8"	"UPI0000458A3E"	""	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"2243a9d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.376623376623377	"WGS"	FALSE
"12787"	"SORT1"	6272	"mskcc.org"	"GRCh37"	"1"	109916948	109916948	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.307-4737T>G"	""	""	"ENST00000256637"	""	81	"72"	9	61	"61"	0	"SORT1,intron_variant,,ENST00000256637,NM_002959.5;SORT1,intron_variant,,ENST00000538502,NM_001205228.1;SORT1,intron_variant,,ENST00000482236,;SORT1,intron_variant,,ENST00000493736,;SORT1,intron_variant,,ENST00000471996,;SORT1,upstream_gene_variant,,ENST00000495777,;SORT1,upstream_gene_variant,,ENST00000483508,;"	"C"	"ENSG00000134243"	"ENST00000256637"	"Transcript"	"intron_variant"	"-/7028"	"-/2496"	"-/831"	""	""	""	"1"	NA	-1	"SORT1"	"HGNC"	11186	"protein_coding"	"YES"	"CCDS798.1"	"ENSP00000256637"	"Q99523"	""	"UPI0000074182"	"NM_002959.5"	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"22443a28-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"12788"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	111122031	111122031	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"54"	27	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"22447434-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"12789"	"RP11-284N8.3"	3738	"mskcc.org"	"GRCh37"	"1"	111192855	111192855	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000566942"	""	89	"59"	30	67	"67"	0	"RP11-284N8.3,downstream_gene_variant,,ENST00000566942,;AL365361.1,downstream_gene_variant,,ENST00000408611,;"	"A"	"ENSG00000259834"	"ENST00000566942"	"Transcript"	"downstream_gene_variant"	"-/3481"	""	""	""	""	""	"1"	"3327"	-1	"RP11-284N8.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"22447858-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337078651685393	"WGS"	FALSE
"12790"	"CHIAP1"	0	"mskcc.org"	"GRCh37"	"1"	111802392	111802392	"+"	"3'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000456220"	""	29	"21"	8	19	"18"	1	"CHIAP1,downstream_gene_variant,,ENST00000456220,;"	"G"	"ENSG00000236040"	"ENST00000456220"	"Transcript"	"downstream_gene_variant"	"-/995"	""	""	""	""	""	"1"	"3055"	1	"CHIAP1"	"HGNC"	44462	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"22449392-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275862068965517	"WGS"	FALSE
"12791"	"CTTNBP2NL"	55917	"mskcc.org"	"GRCh37"	"1"	112972917	112972917	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.99+14031A>G"	""	""	"ENST00000271277"	""	82	"74"	8	50	"50"	0	"CTTNBP2NL,intron_variant,,ENST00000271277,NM_018704.2;CTTNBP2NL,intron_variant,,ENST00000441739,;"	"G"	"ENSG00000143079"	"ENST00000271277"	"Transcript"	"intron_variant"	"-/5897"	"-/1920"	"-/639"	""	""	""	"1"	NA	1	"CTTNBP2NL"	"HGNC"	25330	"protein_coding"	"YES"	"CCDS845.1"	"ENSP00000271277"	"Q9P2B4"	"B1AMN7"	"UPI000006ED23"	"NM_018704.2"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"2244aea4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WGS"	FALSE
"12792"	"RP11-426L16.8"	100996702	"mskcc.org"	"GRCh37"	"1"	113386697	113386697	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1062-3495A>G"	""	""	"ENST00000401018"	""	65	"59"	6	29	"29"	0	"RP11-426L16.8,intron_variant,,ENST00000401018,;RP11-426L16.8,intron_variant,,ENST00000433505,;RP11-426L16.8,intron_variant,,ENST00000449572,;"	"C"	"ENSG00000215866"	"ENST00000401018"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1819"	""	""	""	""	""	"1"	NA	-1	"RP11-426L16.8"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"2244d082-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"12793"	"SYT6"	148281	"mskcc.org"	"GRCh37"	"1"	114650734	114650734	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.817-4391A>T"	""	""	"ENST00000609117"	""	93	"61"	32	46	"46"	0	"SYT6,intron_variant,,ENST00000393296,;SYT6,intron_variant,,ENST00000609117,;SYT6,intron_variant,,ENST00000369547,NM_001270805.1;SYT6,intron_variant,,ENST00000607941,NM_205848.3;SYT6,intron_variant,,ENST00000610222,;SYT6,intron_variant,,ENST00000610121,;SYT6,intron_variant,,ENST00000610096,;"	"A"	"ENSG00000134207"	"ENST00000609117"	"Transcript"	"intron_variant"	"-/4424"	"-/1278"	"-/425"	""	""	""	"1"	NA	-1	"SYT6"	"HGNC"	18638	"protein_coding"	"YES"	"CCDS871.1"	"ENSP00000477344"	""	"I6L9C3,B1AMB7,B1AMB6"	"UPI000000DACA"	""	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"2245247e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344086021505376	"WGS"	FALSE
"12794"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	115072379	115072379	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"69"	8	51	"51"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"22453a0e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103896103896104	"WGS"	FALSE
"12795"	"ENSR00000670856"	0	"mskcc.org"	"GRCh37"	"1"	117265398	117265398	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000670856"	""	89	"53"	36	70	"70"	0	""	"A"	""	"ENSR00000670856"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"2245848c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.404494382022472	"WGS"	FALSE
"12796"	"ENSR00001590706"	0	"mskcc.org"	"GRCh37"	"1"	142855642	142855642	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001590706"	""	147	"139"	8	72	"72"	0	""	"G"	""	"ENSR00001590706"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"224a9dc8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.054421768707483	"WGS"	FALSE
"12797"	"RP11-782C8.2"	0	"mskcc.org"	"GRCh37"	"1"	143199483	143199483	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1792-2680G>T"	""	""	"ENST00000412204"	""	114	"78"	36	63	"63"	0	"RP11-782C8.2,intron_variant,,ENST00000412204,;RP11-782C8.1,intron_variant,,ENST00000438000,;RP11-782C8.1,intron_variant,,ENST00000447407,;RP11-782C8.1,intron_variant,,ENST00000428930,;RP11-782C8.2,upstream_gene_variant,,ENST00000447389,;RP11-782C8.2,upstream_gene_variant,,ENST00000413897,;RP11-782C8.2,upstream_gene_variant,,ENST00000422129,;RP11-782C8.2,upstream_gene_variant,,ENST00000435913,;RP11-782C8.2,upstream_gene_variant,,ENST00000452738,;RP11-782C8.2,upstream_gene_variant,,ENST00000420598,;"	"A"	"ENSG00000232274"	"ENST00000412204"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/5783"	""	""	""	""	""	"1"	NA	-1	"RP11-782C8.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"224c960a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WGS"	FALSE
"12798"	"RP11-782C8.1"	0	"mskcc.org"	"GRCh37"	"1"	143223205	143223205	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.147+2484T>C"	""	""	"ENST00000438000"	""	107	"100"	7	55	"55"	0	"RP11-782C8.1,intron_variant,,ENST00000438000,;RP11-782C8.1,intron_variant,,ENST00000447407,;RP11-782C8.1,intron_variant,,ENST00000428930,;RP11-782C8.5,intron_variant,,ENST00000422716,;RP11-782C8.5,intron_variant,,ENST00000435585,;RP11-782C8.5,intron_variant,,ENST00000456937,;RP11-782C8.5,downstream_gene_variant,,ENST00000429121,;RP11-782C8.5,intron_variant,,ENST00000437865,;"	"C"	"ENSG00000230850"	"ENST00000438000"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1786"	""	""	""	""	""	"1"	NA	1	"RP11-782C8.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"224cbe28-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0654205607476635	"WGS"	FALSE
"12799"	"PIAS3"	10401	"mskcc.org"	"GRCh37"	"1"	145581266	145581266	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.984+11G>A"	""	""	"ENST00000393045"	""	84	"51"	33	41	"41"	0	"PIAS3,intron_variant,,ENST00000393045,NM_006099.3;PIAS3,intron_variant,,ENST00000369298,;NUDT17,downstream_gene_variant,,ENST00000334513,NM_001012758.2;PIAS3,downstream_gene_variant,,ENST00000369299,;PIAS3,downstream_gene_variant,,ENST00000393046,;PIAS3,downstream_gene_variant,,ENST00000463514,;PIAS3,intron_variant,,ENST00000475261,;PIAS3,upstream_gene_variant,,ENST00000472114,;PIAS3,downstream_gene_variant,,ENST00000484423,;PIAS3,downstream_gene_variant,,ENST00000498436,;"	"A"	"ENSG00000131788"	"ENST00000393045"	"Transcript"	"intron_variant"	"-/2901"	"-/1887"	"-/628"	""	""	""	"1"	NA	1	"PIAS3"	"HGNC"	16861	"protein_coding"	"YES"	"CCDS920.2"	"ENSP00000376765"	"Q9Y6X2"	"Q6IAR4,E7ESB4,A4CZ08"	"UPI0000150636"	"NM_006099.3"	""	""	""	"8/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"22527c50-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.392857142857143	"WGS"	FALSE
"12800"	"NBPF13P"	728989	"mskcc.org"	"GRCh37"	"1"	146598688	146598688	"+"	"5'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000444082"	""	96	"68"	28	49	"49"	0	"NBPF13P,upstream_gene_variant,,ENST00000444082,;"	"C"	"ENSG00000227242"	"ENST00000444082"	"Transcript"	"upstream_gene_variant"	"-/3808"	""	""	""	""	""	"1"	"2581"	-1	"NBPF13P"	"HGNC"	31995	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"2252f1b2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WGS"	FALSE
"12801"	"AL732363.1"	0	"mskcc.org"	"GRCh37"	"1"	149037433	149037433	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000581702"	""	73	"52"	21	46	"46"	0	"AL732363.1,upstream_gene_variant,,ENST00000581702,;RP11-744H18.1,intron_variant,,ENST00000449715,;"	"C"	"ENSG00000264022"	"ENST00000581702"	"Transcript"	"upstream_gene_variant"	"-/66"	""	""	""	""	""	"1"	"1056"	-1	"AL732363.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"22556a32-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287671232876712	"WGS"	FALSE
"12802"	"ANP32E"	81611	"mskcc.org"	"GRCh37"	"1"	150193682	150193682	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.737-619C>G"	""	""	"ENST00000314136"	""	68	"63"	5	39	"39"	0	"ANP32E,intron_variant,,ENST00000314136,NM_001136478.3,NM_030920.4,NM_001280559.1;ANP32E,intron_variant,,ENST00000369119,NM_001136479.2;ANP32E,intron_variant,,ENST00000369116,;ANP32E,intron_variant,,ENST00000436748,;ANP32E,intron_variant,,ENST00000369114,;ANP32E,intron_variant,,ENST00000533654,NM_001280560.1;ANP32E,intron_variant,,ENST00000369115,;ANP32E,intron_variant,,ENST00000534437,;"	"C"	"ENSG00000143401"	"ENST00000314136"	"Transcript"	"intron_variant"	"-/3453"	"-/807"	"-/268"	""	""	""	"1"	NA	-1	"ANP32E"	"HGNC"	16673	"protein_coding"	"YES"	"CCDS946.1"	"ENSP00000324074"	"Q9BTT0"	"Q53F20"	"UPI0000071679"	"NM_001136478.3,NM_030920.4,NM_001280559.1"	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"2256484e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0735294117647059	"WGS"	FALSE
"12803"	"FLG-AS1"	339400	"mskcc.org"	"GRCh37"	"1"	152168030	152168030	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs113895184"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.158+6046G>A"	""	""	"ENST00000420707"	""	68	"61"	7	56	"56"	0	"FLG-AS1,intron_variant,,ENST00000420707,;FLG-AS1,intron_variant,,ENST00000593011,;"	"A"	"ENSG00000237975"	"ENST00000420707"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/906"	""	""	""	""	"rs113895184"	"1"	NA	1	"FLG-AS1"	"HGNC"	27913	"antisense"	""	""	""	""	""	""	""	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"225744ce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102941176470588	"WGS"	FALSE
"12804"	"FLG-AS1"	339400	"mskcc.org"	"GRCh37"	"1"	152223911	152223911	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.11-218G>A"	""	""	"ENST00000382265"	""	87	"52"	35	46	"46"	0	"FLG-AS1,intron_variant,,ENST00000382265,;FLG-AS1,intron_variant,,ENST00000420707,;FLG-AS1,intron_variant,,ENST00000593011,;"	"A"	"ENSG00000237975"	"ENST00000382265"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1794"	""	""	""	""	""	"1"	NA	1	"FLG-AS1"	"HGNC"	27913	"antisense"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"22575b30-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.402298850574713	"WGS"	FALSE
"12805"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	153624025	153624025	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"66"	7	44	"44"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"2257c3c2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"12806"	"NUP210L"	91181	"mskcc.org"	"GRCh37"	"1"	153961533	153961533	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000368559"	""	82	"73"	9	48	"48"	0	"NUP210L,downstream_gene_variant,,ENST00000368559,NM_207308.2;NUP210L,downstream_gene_variant,,ENST00000271854,NM_001159484.1;NUP210L,downstream_gene_variant,,ENST00000368553,;RAB13,upstream_gene_variant,,ENST00000368575,NM_002870.3;RPS27,upstream_gene_variant,,ENST00000392558,;RPS27,upstream_gene_variant,,ENST00000368567,NM_001030.4;RAB13,upstream_gene_variant,,ENST00000462680,;RAB13,upstream_gene_variant,,ENST00000495720,;RAB13,upstream_gene_variant,,ENST00000484297,;RPS27,upstream_gene_variant,,ENST00000493224,;RPS27,upstream_gene_variant,,ENST00000477151,;"	"C"	"ENSG00000143552"	"ENST00000368559"	"Transcript"	"downstream_gene_variant"	"-/5889"	"-/5667"	"-/1888"	""	""	""	"1"	"3628"	-1	"NUP210L"	"HGNC"	29915	"protein_coding"	"YES"	"CCDS41399.1"	"ENSP00000357547"	"Q5VU65"	""	"UPI000023724F"	"NM_207308.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"2257fc2a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109756097560976	"WGS"	FALSE
"12807"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	154873049	154873049	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"89"	7	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"22584e96-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0729166666666667	"WGS"	FALSE
"12808"	"FAM189B"	10712	"mskcc.org"	"GRCh37"	"1"	155219087	155219087	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1511-823T>C"	""	""	"ENST00000361361"	""	61	"53"	8	27	"27"	0	"FAM189B,intron_variant,,ENST00000361361,NM_006589.2;FAM189B,intron_variant,,ENST00000368368,NM_001267608.1;FAM189B,intron_variant,,ENST00000350210,NM_198264.1;FAM189B,intron_variant,,ENST00000491082,;GBA,upstream_gene_variant,,ENST00000327247,NM_001005742.2,NM_001005741.2;GBA,upstream_gene_variant,,ENST00000428024,NM_001171811.1;GBA,upstream_gene_variant,,ENST00000493842,;FAM189B,downstream_gene_variant,,ENST00000472550,;GBA,upstream_gene_variant,,ENST00000473570,;GBA,upstream_gene_variant,,ENST00000467918,;FAM189B,intron_variant,,ENST00000368366,;FAM189B,intron_variant,,ENST00000487649,;FAM189B,downstream_gene_variant,,ENST00000481822,;FAM189B,downstream_gene_variant,,ENST00000497941,;"	"G"	"ENSG00000160767"	"ENST00000361361"	"Transcript"	"intron_variant"	"-/3082"	"-/2007"	"-/668"	""	""	""	"1"	NA	-1	"FAM189B"	"HGNC"	1233	"protein_coding"	"YES"	"CCDS1103.1"	"ENSP00000354958"	"P81408"	""	"UPI00000710DE"	"NM_006589.2"	""	""	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"22586ce6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131147540983607	"WGS"	FALSE
"12809"	"FAM189B"	10712	"mskcc.org"	"GRCh37"	"1"	155222324	155222324	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.622-628T>G"	""	""	"ENST00000361361"	""	67	"58"	9	27	"27"	0	"FAM189B,intron_variant,,ENST00000361361,NM_006589.2;FAM189B,intron_variant,,ENST00000368368,NM_001267608.1;FAM189B,intron_variant,,ENST00000350210,NM_198264.1;FAM189B,intron_variant,,ENST00000491082,;SCAMP3,downstream_gene_variant,,ENST00000355379,NM_052837.2;SCAMP3,downstream_gene_variant,,ENST00000302631,NM_005698.3;FAM189B,intron_variant,,ENST00000472550,;SCAMP3,downstream_gene_variant,,ENST00000472397,;SCAMP3,downstream_gene_variant,,ENST00000490999,;SCAMP3,downstream_gene_variant,,ENST00000462151,;SCAMP3,downstream_gene_variant,,ENST00000465312,;SCAMP3,downstream_gene_variant,,ENST00000478737,;FAM189B,intron_variant,,ENST00000487649,;FAM189B,downstream_gene_variant,,ENST00000481822,;FAM189B,upstream_gene_variant,,ENST00000368366,;FAM189B,upstream_gene_variant,,ENST00000497941,;"	"C"	"ENSG00000160767"	"ENST00000361361"	"Transcript"	"intron_variant"	"-/3082"	"-/2007"	"-/668"	""	""	""	"1"	NA	-1	"FAM189B"	"HGNC"	1233	"protein_coding"	"YES"	"CCDS1103.1"	"ENSP00000354958"	"P81408"	""	"UPI00000710DE"	"NM_006589.2"	""	""	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"22586d9a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134328358208955	"WGS"	FALSE
"12810"	"HCN3"	57657	"mskcc.org"	"GRCh37"	"1"	155250646	155250646	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.279-1556A>C"	""	""	"ENST00000368358"	""	55	"46"	9	24	"24"	0	"HCN3,intron_variant,,ENST00000368358,NM_020897.2;CLK2,upstream_gene_variant,,ENST00000536801,;HCN3,intron_variant,,ENST00000496230,;HCN3,upstream_gene_variant,,ENST00000467204,;CLK2,upstream_gene_variant,,ENST00000471047,;"	"C"	"ENSG00000143630"	"ENST00000368358"	"Transcript"	"intron_variant"	"-/3718"	"-/2325"	"-/774"	""	""	""	"1"	NA	1	"HCN3"	"HGNC"	19183	"protein_coding"	"YES"	"CCDS1108.1"	"ENSP00000357342"	"Q9P1Z3"	""	"UPI00000559A6"	"NM_020897.2"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"225873b2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163636363636364	"WGS"	FALSE
"12811"	"ASH1L"	55870	"mskcc.org"	"GRCh37"	"1"	155351464	155351464	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6104-1557T>C"	""	""	"ENST00000392403"	""	97	"87"	10	36	"36"	0	"ASH1L,intron_variant,,ENST00000368346,;ASH1L,intron_variant,,ENST00000392403,NM_018489.2;"	"G"	"ENSG00000116539"	"ENST00000392403"	"Transcript"	"intron_variant"	"-/10979"	"-/8895"	"-/2964"	""	""	""	"1"	NA	-1	"ASH1L"	"HGNC"	19088	"protein_coding"	"YES"	"CCDS1113.2"	"ENSP00000376204"	"Q9NR48"	""	"UPI0000DACAC8"	"NM_018489.2"	""	""	""	"7/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"22588b7c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103092783505155	"WGS"	FALSE
"12812"	"ASH1L"	55870	"mskcc.org"	"GRCh37"	"1"	155454122	155454122	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.421-1882T>G"	""	""	"ENST00000392403"	""	69	"62"	7	43	"43"	0	"ASH1L,intron_variant,,ENST00000368346,;ASH1L,intron_variant,,ENST00000392403,NM_018489.2;ASH1L,intron_variant,,ENST00000548830,;"	"C"	"ENSG00000116539"	"ENST00000392403"	"Transcript"	"intron_variant"	"-/10979"	"-/8895"	"-/2964"	""	""	""	"1"	NA	-1	"ASH1L"	"HGNC"	19088	"protein_coding"	"YES"	"CCDS1113.2"	"ENSP00000376204"	"Q9NR48"	""	"UPI0000DACAC8"	"NM_018489.2"	""	""	""	"2/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"225898ce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101449275362319	"WGS"	FALSE
"12813"	"SYT11"	23208	"mskcc.org"	"GRCh37"	"1"	155836379	155836379	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.35-1377T>G"	""	""	"ENST00000368324"	""	105	"91"	14	53	"53"	0	"SYT11,intron_variant,,ENST00000368324,NM_152280.4;SYT11,intron_variant,,ENST00000539162,;"	"G"	"ENSG00000132718"	"ENST00000368324"	"Transcript"	"intron_variant"	"-/5240"	"-/1296"	"-/431"	""	""	""	"1"	NA	1	"SYT11"	"HGNC"	19239	"protein_coding"	"YES"	"CCDS1122.1"	"ENSP00000357307"	"Q9BT88"	"B4DK40"	"UPI00002049CC"	"NM_152280.4"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"2258d32a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"12814"	"LMNA"	4000	"mskcc.org"	"GRCh37"	"1"	156101055	156101055	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.513+491C>T"	""	""	"ENST00000368300"	""	81	"59"	22	41	"41"	0	"LMNA,intron_variant,,ENST00000368300,NM_170707.3;LMNA,intron_variant,,ENST00000347559,NM_170708.3;LMNA,intron_variant,,ENST00000368301,NM_001282625.1;LMNA,intron_variant,,ENST00000368299,NM_001282626.1;LMNA,intron_variant,,ENST00000361308,NM_005572.3;LMNA,intron_variant,,ENST00000473598,;LMNA,intron_variant,,ENST00000448611,NM_001257374.1;LMNA,intron_variant,,ENST00000368297,NM_001282624.1;LMNA,intron_variant,,ENST00000392353,;LMNA,intron_variant,,ENST00000504687,;LMNA,upstream_gene_variant,,ENST00000508500,;LMNA,intron_variant,,ENST00000469565,;LMNA,intron_variant,,ENST00000502751,;LMNA,intron_variant,,ENST00000470199,;LMNA,intron_variant,,ENST00000502357,;LMNA,upstream_gene_variant,,ENST00000496738,;LMNA,intron_variant,,ENST00000515459,;LMNA,upstream_gene_variant,,ENST00000368298,;LMNA,upstream_gene_variant,,ENST00000498722,;LMNA,upstream_gene_variant,,ENST00000515824,;"	"T"	"ENSG00000160789"	"ENST00000368300"	"Transcript"	"intron_variant"	"-/3190"	"-/1995"	"-/664"	""	""	""	"1"	NA	1	"LMNA"	"HGNC"	6636	"protein_coding"	"YES"	"CCDS1129.1"	"ENSP00000357283"	"P02545"	"Q5I6Y5"	"UPI000012E20D"	"NM_170707.3"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"2258f51c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271604938271605	"WGS"	TRUE
"12815"	"PMF1"	11243	"mskcc.org"	"GRCh37"	"1"	156205293	156205293	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.369-847C>T"	""	""	"ENST00000567140"	""	62	"55"	7	24	"24"	0	"PMF1,intron_variant,,ENST00000368277,NM_007221.3;PMF1,intron_variant,,ENST00000368279,NM_001199653.1;PMF1-BGLAP,intron_variant,,ENST00000490491,NM_001199662.1;PMF1,intron_variant,,ENST00000368273,NM_001199654.1;PMF1-BGLAP,intron_variant,,ENST00000368276,NM_001199661.1;PMF1-BGLAP,intron_variant,,ENST00000320139,NM_001199663.1;PMF1,intron_variant,,ENST00000567140,;PMF1,intron_variant,,ENST00000565805,;PMF1,intron_variant,,ENST00000606952,;PMF1,intron_variant,,ENST00000497069,;PMF1,downstream_gene_variant,,ENST00000466489,;"	"T"	"ENSG00000160783"	"ENST00000567140"	"Transcript"	"intron_variant"	"-/672"	"-/663"	"-/220"	""	""	""	"1"	NA	1	"PMF1"	"HGNC"	9112	"protein_coding"	"YES"	"CCDS55650.1"	"ENSP00000458021"	"Q6P1K2"	""	"UPI000046FD0A"	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"2259030e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112903225806452	"WGS"	FALSE
"12816"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	158317497	158317497	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"rs533879519"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"46"	35	47	"47"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs533879519"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"22597352-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.432098765432099	"WGS"	FALSE
"12817"	"SLAMF9"	89886	"mskcc.org"	"GRCh37"	"1"	159926772	159926772	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000368093"	""	83	"61"	22	32	"32"	0	"SLAMF9,upstream_gene_variant,,ENST00000368093,NM_033438.3;SLAMF9,upstream_gene_variant,,ENST00000368092,NM_001146172.1;LINC01133,upstream_gene_variant,,ENST00000423943,;LINC01133,upstream_gene_variant,,ENST00000443364,;SLAMF9,upstream_gene_variant,,ENST00000466773,;SLAMF9,upstream_gene_variant,,ENST00000489098,;"	"A"	"ENSG00000162723"	"ENST00000368093"	"Transcript"	"upstream_gene_variant"	"-/1156"	"-/870"	"-/289"	""	""	""	"1"	"2728"	-1	"SLAMF9"	"HGNC"	18430	"protein_coding"	"YES"	"CCDS1191.1"	"ENSP00000357072"	"Q96A28"	"Q6NSE6"	"UPI000013E1B2"	"NM_033438.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"22599f08-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265060240963855	"WGS"	FALSE
"12818"	"ATP1A2"	477	"mskcc.org"	"GRCh37"	"1"	160109327	160109327	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs752911217"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2841-103G>A"	""	""	"ENST00000361216"	""	97	"73"	24	47	"47"	0	"ATP1A2,intron_variant,,ENST00000361216,NM_000702.3;ATP1A2,intron_variant,,ENST00000447527,;ATP1A2,intron_variant,,ENST00000392233,;ATP1A2,upstream_gene_variant,,ENST00000459972,;ATP1A2,intron_variant,,ENST00000463989,;ATP1A2,downstream_gene_variant,,ENST00000472488,;"	"A"	"ENSG00000018625"	"ENST00000361216"	"Transcript"	"intron_variant"	"-/5421"	"-/3063"	"-/1020"	""	""	"rs752911217"	"1"	NA	1	"ATP1A2"	"HGNC"	800	"protein_coding"	"YES"	"CCDS1196.1"	"ENSP00000354490"	"P50993"	"Q58I22"	"UPI0000124FC1"	"NM_000702.3"	""	""	""	"20/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"2259a494-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247422680412371	"WGS"	FALSE
"12819"	"ITLN2"	142683	"mskcc.org"	"GRCh37"	"1"	160928245	160928245	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000368029"	""	81	"75"	6	40	"40"	0	"ITLN2,upstream_gene_variant,,ENST00000368029,NM_080878.2;"	"G"	"ENSG00000158764"	"ENST00000368029"	"Transcript"	"upstream_gene_variant"	"-/1151"	"-/978"	"-/325"	""	""	""	"1"	"3656"	-1	"ITLN2"	"HGNC"	20599	"protein_coding"	"YES"	"CCDS1212.1"	"ENSP00000357008"	"Q8WWU7"	""	"UPI0000048F3E"	"NM_080878.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"2259d6ee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"12820"	"RP11-466F5.8"	0	"mskcc.org"	"GRCh37"	"1"	165746699	165746699	"+"	"3'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000423121"	""	97	"89"	8	47	"47"	0	"TMCO1,intron_variant,,ENST00000580248,;RP11-466F5.8,downstream_gene_variant,,ENST00000423121,;"	"G"	"ENSG00000224358"	"ENST00000423121"	"Transcript"	"downstream_gene_variant"	"-/2150"	""	""	""	""	""	"1"	"2286"	1	"RP11-466F5.8"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"225b0e4c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0824742268041237	"WGS"	FALSE
"12821"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	166783328	166783328	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"53"	25	53	"53"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"225b2562-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.320512820512821	"WGS"	FALSE
"12822"	"NME7"	29922	"mskcc.org"	"GRCh37"	"1"	169152259	169152259	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.991-13467A>T"	""	""	"ENST00000367811"	""	94	"63"	31	56	"56"	0	"NME7,intron_variant,,ENST00000367811,NM_013330.3;NME7,intron_variant,,ENST00000472647,NM_197972.1;NME7,intron_variant,,ENST00000483228,;NME7,intron_variant,,ENST00000493481,;NME7,intron_variant,,ENST00000530739,;NME7,intron_variant,,ENST00000525440,;"	"A"	"ENSG00000143156"	"ENST00000367811"	"Transcript"	"intron_variant"	"-/1642"	"-/1131"	"-/376"	""	""	""	"1"	NA	-1	"NME7"	"HGNC"	20461	"protein_coding"	"YES"	"CCDS1277.1"	"ENSP00000356785"	"Q9Y5B8"	""	"UPI000012FE8C"	"NM_013330.3"	""	""	""	"10/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"225b82e6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329787234042553	"WGS"	FALSE
"12823"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	170098155	170098155	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"46"	24	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"225badf2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342857142857143	"WGS"	FALSE
"12824"	"RP11-297H3.3"	0	"mskcc.org"	"GRCh37"	"1"	170167457	170167457	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.304+23610T>C"	""	""	"ENST00000439184"	""	92	"63"	29	58	"58"	0	"RP11-297H3.3,intron_variant,,ENST00000439184,;"	"C"	"ENSG00000233985"	"ENST00000439184"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/760"	""	""	""	""	""	"1"	NA	1	"RP11-297H3.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"225baeb0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315217391304348	"WGS"	FALSE
"12825"	"RPL4P3"	0	"mskcc.org"	"GRCh37"	"1"	171650066	171650066	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000428881"	""	67	"61"	6	36	"36"	0	"RPL4P3,downstream_gene_variant,,ENST00000428881,;"	"G"	"ENSG00000230364"	"ENST00000428881"	"Transcript"	"downstream_gene_variant"	"-/1311"	""	""	""	""	""	"1"	"2202"	-1	"RPL4P3"	"HGNC"	35773	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"225bebdc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0895522388059701	"WGS"	FALSE
"12826"	"C1orf105"	92346	"mskcc.org"	"GRCh37"	"1"	172398592	172398592	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.21+8546T>C"	""	""	"ENST00000367727"	""	77	"51"	26	58	"58"	0	"C1orf105,intron_variant,,ENST00000367727,NM_139240.3;C1orf105,intron_variant,,ENST00000460397,;PIGC,intron_variant,,ENST00000484368,;"	"C"	"ENSG00000180999"	"ENST00000367727"	"Transcript"	"intron_variant"	"-/985"	"-/552"	"-/183"	""	""	""	"1"	NA	1	"C1orf105"	"HGNC"	29591	"protein_coding"	"YES"	"CCDS1301.1"	"ENSP00000356700"	"O95561"	""	"UPI000006D456"	"NM_139240.3"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"225c04f0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337662337662338	"WGS"	FALSE
"12827"	"RABGAP1L"	9910	"mskcc.org"	"GRCh37"	"1"	174759572	174759572	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2212-21398A>G"	""	""	"ENST00000251507"	""	67	"59"	8	46	"46"	0	"RABGAP1L,intron_variant,,ENST00000251507,NM_014857.4;RABGAP1L,intron_variant,,ENST00000325589,;RABGAP1L,intron_variant,,ENST00000367687,;RABGAP1L,intron_variant,,ENST00000347255,;RABGAP1L,intron_variant,,ENST00000367686,;RABGAP1L,intron_variant,,ENST00000469553,;"	"G"	"ENSG00000152061"	"ENST00000251507"	"Transcript"	"intron_variant"	"-/2899"	"-/2448"	"-/815"	""	""	""	"1"	NA	1	"RABGAP1L"	"HGNC"	24663	"protein_coding"	"YES"	"CCDS1314.1"	"ENSP00000251507"	"Q5R372"	"F1LJ00"	"UPI0000458A9F"	"NM_014857.4"	""	""	""	"18/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"225c6dc8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119402985074627	"WGS"	FALSE
"12828"	"RABGAP1L"	9910	"mskcc.org"	"GRCh37"	"1"	174762559	174762559	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2212-18411A>G"	""	""	"ENST00000251507"	""	95	"72"	23	49	"49"	0	"RABGAP1L,intron_variant,,ENST00000251507,NM_014857.4;RABGAP1L,intron_variant,,ENST00000325589,;RABGAP1L,intron_variant,,ENST00000367687,;RABGAP1L,intron_variant,,ENST00000347255,;RABGAP1L,intron_variant,,ENST00000367686,;RABGAP1L,intron_variant,,ENST00000469553,;"	"G"	"ENSG00000152061"	"ENST00000251507"	"Transcript"	"intron_variant"	"-/2899"	"-/2448"	"-/815"	""	""	""	"1"	NA	1	"RABGAP1L"	"HGNC"	24663	"protein_coding"	"YES"	"CCDS1314.1"	"ENSP00000251507"	"Q5R372"	"F1LJ00"	"UPI0000458A9F"	"NM_014857.4"	""	""	""	"18/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"225c6e86-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242105263157895	"WGS"	FALSE
"12829"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	175787341	175787341	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"60"	28	37	"37"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"225c9b90-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318181818181818	"WGS"	FALSE
"12830"	"ABL2"	27	"mskcc.org"	"GRCh37"	"1"	179086996	179086996	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1224-345C>T"	""	""	"ENST00000502732"	""	84	"77"	7	48	"48"	0	"ABL2,intron_variant,,ENST00000502732,NM_001168237.1,NM_007314.3,NM_001168238.1,NM_001168236.1;ABL2,intron_variant,,ENST00000408940,NM_001168239.1;ABL2,intron_variant,,ENST00000344730,NM_001136000.2,NM_005158.4;ABL2,intron_variant,,ENST00000512653,;ABL2,intron_variant,,ENST00000367623,;ABL2,intron_variant,,ENST00000511413,;ABL2,intron_variant,,ENST00000507173,;ABL2,intron_variant,,ENST00000504405,;ABL2,intron_variant,,ENST00000392043,NM_001136001.1;ABL2,intron_variant,,ENST00000504324,;ABL2,intron_variant,,ENST00000509520,;"	"A"	"ENSG00000143322"	"ENST00000502732"	"Transcript"	"intron_variant"	"-/12144"	"-/3549"	"-/1182"	""	""	""	"1"	NA	-1	"ABL2"	"HGNC"	77	"protein_coding"	"YES"	"CCDS30947.1"	"ENSP00000427562"	"P42684"	""	"UPI0000125140"	"NM_001168237.1,NM_007314.3,NM_001168238.1,NM_001168236.1"	""	""	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"225d2128-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	TRUE
"12831"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	179250959	179250959	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"66"	6	36	"36"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"225d2ede-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"12832"	"SOAT1"	6646	"mskcc.org"	"GRCh37"	"1"	179294062	179294062	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.177+1432T>C"	""	""	"ENST00000367619"	""	54	"49"	5	32	"32"	0	"SOAT1,intron_variant,,ENST00000367619,NM_003101.5;SOAT1,intron_variant,,ENST00000540564,NM_001252511.1;SOAT1,intron_variant,,ENST00000535686,;SOAT1,intron_variant,,ENST00000539888,NM_001252512.1;SOAT1,intron_variant,,ENST00000426956,;"	"C"	"ENSG00000057252"	"ENST00000367619"	"Transcript"	"intron_variant"	"-/6835"	"-/1653"	"-/550"	""	""	""	"1"	NA	1	"SOAT1"	"HGNC"	11177	"protein_coding"	"YES"	"CCDS1330.1"	"ENSP00000356591"	"P35610"	"B4DFD8,B1APM4"	"UPI0000071233"	"NM_003101.5"	""	""	""	"3/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"225d35dc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0925925925925926	"WGS"	FALSE
"12833"	"AXDND1"	126859	"mskcc.org"	"GRCh37"	"1"	179365674	179365674	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1109+1337T>G"	""	""	"ENST00000367618"	""	73	"66"	7	44	"44"	0	"AXDND1,intron_variant,,ENST00000367618,NM_144696.5;AXDND1,intron_variant,,ENST00000434088,;AXDND1,intron_variant,,ENST00000457238,;AXDND1,intron_variant,,ENST00000461179,;AXDND1,intron_variant,,ENST00000511157,;"	"G"	"ENSG00000162779"	"ENST00000367618"	"Transcript"	"intron_variant"	"-/3642"	"-/3039"	"-/1012"	""	""	""	"1"	NA	1	"AXDND1"	"HGNC"	26564	"protein_coding"	"YES"	"CCDS30948.1"	"ENSP00000356590"	"Q5T1B0"	"D6REE1,D6RDY4,D6RCN1,D6RB87,D6R9B7"	"UPI000022AC91"	"NM_144696.5"	""	""	""	"11/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"225d3da2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"12834"	"AXDND1"	126859	"mskcc.org"	"GRCh37"	"1"	179365678	179365678	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1109+1341G>A"	""	""	"ENST00000367618"	""	77	"70"	7	42	"42"	0	"AXDND1,intron_variant,,ENST00000367618,NM_144696.5;AXDND1,intron_variant,,ENST00000434088,;AXDND1,intron_variant,,ENST00000457238,;AXDND1,intron_variant,,ENST00000461179,;AXDND1,intron_variant,,ENST00000511157,;"	"A"	"ENSG00000162779"	"ENST00000367618"	"Transcript"	"intron_variant"	"-/3642"	"-/3039"	"-/1012"	""	""	""	"1"	NA	1	"AXDND1"	"HGNC"	26564	"protein_coding"	"YES"	"CCDS30948.1"	"ENSP00000356590"	"Q5T1B0"	"D6REE1,D6RDY4,D6RCN1,D6RB87,D6R9B7"	"UPI000022AC91"	"NM_144696.5"	""	""	""	"11/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"225d3e7e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"12835"	"ACBD6"	84320	"mskcc.org"	"GRCh37"	"1"	180373792	180373792	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.574-7052A>G"	""	""	"ENST00000367595"	""	80	"74"	6	40	"40"	0	"ACBD6,intron_variant,,ENST00000367595,NM_032360.3;ACBD6,intron_variant,,ENST00000475338,;ACBD6,intron_variant,,ENST00000496993,;"	"C"	"ENSG00000135847"	"ENST00000367595"	"Transcript"	"intron_variant"	"-/1670"	"-/849"	"-/282"	""	""	""	"1"	NA	-1	"ACBD6"	"HGNC"	23339	"protein_coding"	"YES"	"CCDS1339.1"	"ENSP00000356567"	"Q9BR61"	""	"UPI0000039B39"	"NM_032360.3"	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"225d661a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"12836"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	182940133	182940133	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"95"	8	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"225dd384-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0776699029126214	"WGS"	FALSE
"12837"	"RNF2"	6045	"mskcc.org"	"GRCh37"	"1"	185054842	185054842	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-2-1842A>G"	""	""	"ENST00000367510"	""	76	"69"	7	53	"53"	0	"RNF2,intron_variant,,ENST00000367510,NM_007212.3;RNF2,intron_variant,,ENST00000367509,;RNF2,intron_variant,,ENST00000453650,;RNF2,intron_variant,,ENST00000498201,;"	"G"	"ENSG00000121481"	"ENST00000367510"	"Transcript"	"intron_variant"	"-/3606"	"-/1011"	"-/336"	""	""	""	"1"	NA	1	"RNF2"	"HGNC"	10061	"protein_coding"	"YES"	"CCDS1365.1"	"ENSP00000356480"	"Q99496"	""	"UPI000007131D"	"NM_007212.3"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"225e319e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"12838"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	185608478	185608478	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"63"	20	49	"49"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"225e435a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240963855421687	"WGS"	FALSE
"12839"	"BRINP3"	339479	"mskcc.org"	"GRCh37"	"1"	190108108	190108108	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1184+21690G>C"	""	""	"ENST00000367462"	""	95	"59"	36	54	"54"	0	"BRINP3,intron_variant,,ENST00000367462,NM_199051.1;BRINP3,intron_variant,,ENST00000534846,;"	"G"	"ENSG00000162670"	"ENST00000367462"	"Transcript"	"intron_variant"	"-/2889"	"-/2301"	"-/766"	""	""	""	"1"	NA	-1	"BRINP3"	"HGNC"	22393	"protein_coding"	"YES"	"CCDS1373.1"	"ENSP00000356432"	"Q76B58"	""	"UPI00001C1D9A"	"NM_199051.1"	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"225ed928-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.378947368421053	"WGS"	FALSE
"12840"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	193926384	193926384	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"55"	32	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"225f5c54-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.367816091954023	"WGS"	FALSE
"12841"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	194959783	194959783	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"83"	6	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"225f84ae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"12842"	"ZBTB41"	360023	"mskcc.org"	"GRCh37"	"1"	197142311	197142311	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1986-933A>C"	""	""	"ENST00000367405"	""	94	"66"	28	57	"57"	0	"ZBTB41,intron_variant,,ENST00000367405,NM_194314.2;ZBTB41,intron_variant,,ENST00000467322,;"	"G"	"ENSG00000177888"	"ENST00000367405"	"Transcript"	"intron_variant"	"-/8478"	"-/2730"	"-/909"	""	""	""	"1"	NA	-1	"ZBTB41"	"HGNC"	24819	"protein_coding"	"YES"	"CCDS30960.1"	"ENSP00000356375"	"Q5SVQ8"	"Q8N9U5"	"UPI00001D7DE7"	"NM_194314.2"	""	""	""	"8/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"225fd1ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297872340425532	"WGS"	FALSE
"12843"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	199059712	199059712	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"48"	34	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"226010cc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.414634146341463	"WGS"	FALSE
"12844"	"LMOD1"	25802	"mskcc.org"	"GRCh37"	"1"	201897947	201897947	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.261+17261T>C"	""	""	"ENST00000367288"	""	63	"54"	9	49	"49"	0	"LMOD1,intron_variant,,ENST00000367288,NM_012134.2;"	"G"	"ENSG00000163431"	"ENST00000367288"	"Transcript"	"intron_variant"	"-/3970"	"-/1803"	"-/600"	""	""	""	"1"	NA	-1	"LMOD1"	"HGNC"	6647	"protein_coding"	"YES"	"CCDS53457.1"	"ENSP00000356257"	"P29536"	"B4DIX9"	"UPI00003665F4"	"NM_012134.2"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"2260c3d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"12845"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	202052997	202052997	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"41"	6	19	"19"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"2260dfac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127659574468085	"WGS"	FALSE
"12846"	"KDM5B"	10765	"mskcc.org"	"GRCh37"	"1"	202744830	202744830	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.283-967T>G"	""	""	"ENST00000367265"	""	59	"53"	6	37	"37"	0	"KDM5B,intron_variant,,ENST00000367265,NM_006618.3;KDM5B,intron_variant,,ENST00000367264,;KDM5B,intron_variant,,ENST00000235790,;KDM5B,intron_variant,,ENST00000470573,;KDM5B,intron_variant,,ENST00000467487,;KDM5B,intron_variant,,ENST00000602511,;"	"C"	"ENSG00000117139"	"ENST00000367265"	"Transcript"	"intron_variant"	"-/7438"	"-/4635"	"-/1544"	""	""	""	"1"	NA	-1	"KDM5B"	"HGNC"	18039	"protein_coding"	"YES"	"CCDS30974.1"	"ENSP00000356234"	"Q9UGL1"	"Q9UIW7,Q9UFD3,Q9UFC7,Q9NSZ7,Q6UGB8,B3KV94,B3KMS8,B3KMS2"	"UPI0000032AA2"	"NM_006618.3"	""	""	""	"2/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"22611134-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101694915254237	"WGS"	FALSE
"12847"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	203523813	203523813	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"65"	7	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"226149a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"12848"	"CDK18"	5129	"mskcc.org"	"GRCh37"	"1"	205488465	205488465	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-21-3810C>T"	""	""	"ENST00000506784"	""	93	"66"	27	38	"38"	0	"CDK18,intron_variant,,ENST00000360066,NM_212503.2,NM_002596.3,NM_212502.2;CDK18,intron_variant,,ENST00000506784,;CDK18,intron_variant,,ENST00000429964,;CDK18,intron_variant,,ENST00000419301,;CDK18,intron_variant,,ENST00000478560,;CDK18,intron_variant,,ENST00000443813,;CDK18,intron_variant,,ENST00000506215,;CDK18,intron_variant,,ENST00000509056,;CDK18,intron_variant,,ENST00000507240,;CDK18,intron_variant,,ENST00000507067,;CDK18,upstream_gene_variant,,ENST00000505932,;CDK18,intron_variant,,ENST00000504648,;CDK18,intron_variant,,ENST00000512922,;CDK18,intron_variant,,ENST00000462976,;CDK18,upstream_gene_variant,,ENST00000515494,;CDK18,upstream_gene_variant,,ENST00000476153,;"	"T"	"ENSG00000117266"	"ENST00000506784"	"Transcript"	"intron_variant"	"-/2143"	"-/1515"	"-/504"	""	""	""	"1"	NA	1	"CDK18"	"HGNC"	8751	"protein_coding"	"YES"	"CCDS1454.1"	"ENSP00000423665"	"Q07002"	"Q9BWF9,E9PMF2,D6RGH0,B4DHU6,B3KX76"	"UPI000035030C"	""	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"22621ec6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290322580645161	"WGS"	FALSE
"12849"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	207027388	207027388	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"42"	27	37	"37"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"2262a756-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.391304347826087	"WGS"	FALSE
"12850"	"CR1"	1378	"mskcc.org"	"GRCh37"	"1"	207754258	207754258	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5216+300A>G"	""	""	"ENST00000367049"	""	98	"65"	33	44	"43"	1	"CR1,intron_variant,,ENST00000367049,NM_000651.4;CR1,intron_variant,,ENST00000367051,;CR1,intron_variant,,ENST00000367052,;CR1,intron_variant,,ENST00000367053,;CR1,intron_variant,,ENST00000400960,NM_000573.3;CR1,intron_variant,,ENST00000534202,;CR1,intron_variant,,ENST00000529814,;RP11-78B10.2,intron_variant,,ENST00000597497,;RP11-78B10.2,intron_variant,,ENST00000596003,;"	"G"	"ENSG00000203710"	"ENST00000367049"	"Transcript"	"intron_variant"	"-/7470"	"-/7470"	"-/2489"	""	""	""	"1"	NA	1	"CR1"	"HGNC"	2334	"protein_coding"	"YES"	"CCDS44308.1"	"ENSP00000356016"	""	"Q9UQR7,Q9HB99,E9PDY4,B4DPT3"	"UPI000040E8CF"	"NM_000651.4"	""	""	""	"31/46"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAC"	"2262c9ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336734693877551	"WGS"	FALSE
"12851"	"DIEXF"	27042	"mskcc.org"	"GRCh37"	"1"	210002307	210002307	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.107+792C>T"	""	""	"ENST00000491415"	""	72	"65"	7	44	"44"	0	"DIEXF,intron_variant,,ENST00000491415,NM_014388.6;"	"T"	"ENSG00000117597"	"ENST00000491415"	"Transcript"	"intron_variant"	"-/8446"	"-/2271"	"-/756"	""	""	""	"1"	NA	1	"DIEXF"	"HGNC"	28440	"protein_coding"	"YES"	"CCDS1493.1"	"ENSP00000419005"	"Q68CQ4"	"B3KVX2"	"UPI000006D987"	"NM_014388.6"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"226313a8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"12852"	"RP11-338C15.3"	0	"mskcc.org"	"GRCh37"	"1"	212826764	212826764	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"rs112783510"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000446962"	""	112	"77"	35	57	"57"	0	"RP11-338C15.3,downstream_gene_variant,,ENST00000446962,;"	"T"	"ENSG00000237980"	"ENST00000446962"	"Transcript"	"downstream_gene_variant"	"-/473"	""	""	""	""	"rs112783510"	"1"	"577"	-1	"RP11-338C15.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"2263a890-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"12853"	"C1orf227"	149643	"mskcc.org"	"GRCh37"	"1"	213010732	213010732	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-38-1203A>G"	""	""	"ENST00000332912"	""	97	"79"	18	56	"56"	0	"C1orf227,intron_variant,,ENST00000332912,NM_001024601.2;"	"C"	"ENSG00000185523"	"ENST00000332912"	"Transcript"	"intron_variant"	"-/506"	"-/297"	"-/98"	""	""	""	"1"	NA	-1	"C1orf227"	"HGNC"	33709	"protein_coding"	"YES"	"CCDS31020.1"	"ENSP00000419160"	"Q537H7"	""	"UPI0000160AFB"	"NM_001024601.2"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"2263b862-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185567010309278	"WGS"	FALSE
"12854"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	213099782	213099782	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"51"	18	39	"39"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"2263bdf8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"12855"	"VASH2"	79805	"mskcc.org"	"GRCh37"	"1"	213125278	213125278	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.276+118T>A"	""	""	"ENST00000366965"	""	98	"70"	28	50	"50"	0	"VASH2,intron_variant,,ENST00000366968,NM_001136474.1;VASH2,intron_variant,,ENST00000366965,NM_024749.3;VASH2,intron_variant,,ENST00000366966,;VASH2,intron_variant,,ENST00000366967,NM_001136475.1;VASH2,intron_variant,,ENST00000366964,;VASH2,intron_variant,,ENST00000517399,;VASH2,downstream_gene_variant,,ENST00000490792,;VASH2,intron_variant,,ENST00000271776,;VASH2,intron_variant,,ENST00000493155,;"	"A"	"ENSG00000143494"	"ENST00000366965"	"Transcript"	"intron_variant"	"-/3572"	"-/936"	"-/311"	""	""	""	"1"	NA	1	"VASH2"	"HGNC"	25723	"protein_coding"	"YES"	"CCDS1511.1"	"ENSP00000355932"	"Q86V25"	"C9JY36"	"UPI000019273A"	"NM_024749.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"2263c00a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"12856"	"RPS6KC1"	26750	"mskcc.org"	"GRCh37"	"1"	213398790	213398790	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1045-5050T>A"	""	""	"ENST00000366960"	""	78	"50"	28	39	"39"	0	"RPS6KC1,intron_variant,,ENST00000366960,NM_012424.3,NM_001287221.1;RPS6KC1,intron_variant,,ENST00000366959,NM_001136138.1,NM_001287221.1;RPS6KC1,intron_variant,,ENST00000543470,NM_001287219.1;RPS6KC1,intron_variant,,ENST00000543354,;RPS6KC1,intron_variant,,ENST00000490299,;"	"A"	"ENSG00000136643"	"ENST00000366960"	"Transcript"	"intron_variant"	"-/5490"	"-/3201"	"-/1066"	""	""	""	"1"	NA	1	"RPS6KC1"	"HGNC"	10439	"protein_coding"	"YES"	"CCDS1513.1"	"ENSP00000355927"	"Q96S38"	""	"UPI0000071B8C"	"NM_012424.3,NM_001287221.1"	""	""	""	"8/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"2263cec4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358974358974359	"WGS"	FALSE
"12857"	"ESRRG"	2104	"mskcc.org"	"GRCh37"	"1"	217010934	217010934	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-14+27469G>A"	""	""	"ENST00000361525"	""	78	"50"	28	61	"61"	0	"ESRRG,intron_variant,,ENST00000361525,NM_206594.2,NM_001243505.1;ESRRG,intron_variant,,ENST00000366940,NM_001134285.2;ESRRG,intron_variant,,ENST00000493603,;ESRRG,intron_variant,,ENST00000366938,NM_001243513.1;ESRRG,intron_variant,,ENST00000361395,NM_001243510.1;ESRRG,intron_variant,,ENST00000359162,NM_001243506.1,NM_001243511.1,NM_206595.2;ESRRG,intron_variant,,ENST00000463665,NM_001243507.1;ESRRG,intron_variant,,ENST00000487276,NM_001243512.1;ESRRG,intron_variant,,ENST00000493748,NM_001243509.1;ESRRG,intron_variant,,ENST00000586199,;"	"T"	"ENSG00000196482"	"ENST00000361525"	"Transcript"	"intron_variant"	"-/5352"	"-/1308"	"-/435"	""	""	""	"1"	NA	-1	"ESRRG"	"HGNC"	3474	"protein_coding"	""	"CCDS1517.1"	"ENSP00000355225"	"P62508"	"F1D8R6,C9JU32,C9JNX5,C9J5W9,C9J0E3,B7Z5E9"	"UPI00000040CB"	"NM_206594.2,NM_001243505.1"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"2264548e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358974358974359	"WGS"	FALSE
"12858"	"RRP15"	51018	"mskcc.org"	"GRCh37"	"1"	218476972	218476972	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.405+1071C>G"	""	""	"ENST00000366932"	""	79	"64"	15	55	"55"	0	"RRP15,intron_variant,,ENST00000366932,NM_016052.3;RRP15,downstream_gene_variant,,ENST00000491428,;RP11-224O19.4,upstream_gene_variant,,ENST00000434965,;"	"G"	"ENSG00000067533"	"ENST00000366932"	"Transcript"	"intron_variant"	"-/7771"	"-/849"	"-/282"	""	""	""	"1"	NA	1	"RRP15"	"HGNC"	24255	"protein_coding"	"YES"	"CCDS1520.2"	"ENSP00000355899"	"Q9Y3B9"	""	"UPI0000205BC1"	"NM_016052.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"22647ef0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189873417721519	"WGS"	FALSE
"12859"	"RP11-400N13.1"	0	"mskcc.org"	"GRCh37"	"1"	222414737	222414737	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs114422317"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.168-22906G>A"	""	""	"ENST00000416510"	""	93	"65"	28	54	"54"	0	"RP11-400N13.1,intron_variant,,ENST00000416510,;"	"T"	"ENSG00000236230"	"ENST00000416510"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/675"	""	""	""	""	"rs114422317"	"1"	NA	-1	"RP11-400N13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	"T:0.0034"	"T:0.0113"	"T:0.0029"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"2265088e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301075268817204	"WGS"	FALSE
"12860"	"MIA3"	375056	"mskcc.org"	"GRCh37"	"1"	222819505	222819505	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3609+478C>A"	""	""	"ENST00000344922"	""	80	"74"	6	58	"58"	0	"MIA3,intron_variant,,ENST00000344922,NM_198551.2;MIA3,intron_variant,,ENST00000344441,;MIA3,intron_variant,,ENST00000354906,;MIA3,intron_variant,,ENST00000340535,;MIA3,intron_variant,,ENST00000344507,;MIA3,intron_variant,,ENST00000495210,;MIA3,downstream_gene_variant,,ENST00000470521,;MIA3,upstream_gene_variant,,ENST00000467190,;RP11-378J18.6,upstream_gene_variant,,ENST00000413568,;"	"A"	"ENSG00000154305"	"ENST00000344922"	"Transcript"	"intron_variant"	"-/8142"	"-/5724"	"-/1907"	""	""	""	"1"	NA	1	"MIA3"	"HGNC"	24008	"protein_coding"	"YES"	"CCDS41470.1"	"ENSP00000340900"	"Q5JRA6"	""	"UPI00001D75B3"	"NM_198551.2"	""	""	""	"7/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"22652c92-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"12861"	"MIA3"	375056	"mskcc.org"	"GRCh37"	"1"	222819521	222819521	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3609+494T>G"	""	""	"ENST00000344922"	""	79	"72"	7	55	"55"	0	"MIA3,intron_variant,,ENST00000344922,NM_198551.2;MIA3,intron_variant,,ENST00000344441,;MIA3,intron_variant,,ENST00000354906,;MIA3,intron_variant,,ENST00000340535,;MIA3,intron_variant,,ENST00000344507,;MIA3,intron_variant,,ENST00000495210,;MIA3,downstream_gene_variant,,ENST00000470521,;MIA3,upstream_gene_variant,,ENST00000467190,;RP11-378J18.6,upstream_gene_variant,,ENST00000413568,;"	"G"	"ENSG00000154305"	"ENST00000344922"	"Transcript"	"intron_variant"	"-/8142"	"-/5724"	"-/1907"	""	""	""	"1"	NA	1	"MIA3"	"HGNC"	24008	"protein_coding"	"YES"	"CCDS41470.1"	"ENSP00000340900"	"Q5JRA6"	""	"UPI00001D75B3"	"NM_198551.2"	""	""	""	"7/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"22652d6e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"12862"	"ENAH"	55740	"mskcc.org"	"GRCh37"	"1"	225727050	225727050	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.350-8710T>A"	""	""	"ENST00000366844"	""	89	"59"	30	45	"45"	0	"ENAH,intron_variant,,ENST00000366844,NM_001008493.1,NM_018212.4;ENAH,intron_variant,,ENST00000284563,;ENAH,intron_variant,,ENST00000366843,;ENAH,intron_variant,,ENST00000391874,;ENAH,intron_variant,,ENST00000497899,;"	"T"	"ENSG00000154380"	"ENST00000366844"	"Transcript"	"intron_variant"	"-/13168"	"-/1776"	"-/591"	""	""	""	"1"	NA	-1	"ENAH"	"HGNC"	18271	"protein_coding"	"YES"	"CCDS31041.1"	"ENSP00000355809"	"Q8N8S7"	""	"UPI0000203FDB"	"NM_001008493.1,NM_018212.4"	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"2265f17c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337078651685393	"WGS"	FALSE
"12863"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	227571027	227571027	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	60	"53"	7	39	"39"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"226670a2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116666666666667	"WGS"	FALSE
"12864"	"CTD-2090I13.1"	0	"mskcc.org"	"GRCh37"	"1"	227606375	227606375	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.340+8790C>G"	""	""	"ENST00000445817"	""	66	"61"	5	48	"48"	0	"CTD-2090I13.1,intron_variant,,ENST00000445817,;CTD-2090I13.1,intron_variant,,ENST00000436377,;"	"G"	"ENSG00000234277"	"ENST00000445817"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1971"	""	""	""	""	""	"1"	NA	1	"CTD-2090I13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"22667354-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0757575757575758	"WGS"	FALSE
"12865"	"BX323860.1"	0	"mskcc.org"	"GRCh37"	"1"	230181852	230181852	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390191"	""	88	"56"	32	65	"65"	0	"BX323860.1,downstream_gene_variant,,ENST00000390191,;"	"A"	"ENSG00000211525"	"ENST00000390191"	"Transcript"	"downstream_gene_variant"	"-/69"	""	""	""	""	""	"1"	"3077"	-1	"BX323860.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"226722fe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"12866"	"RP5-858B6.1"	0	"mskcc.org"	"GRCh37"	"1"	230962818	230962818	"+"	"5'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000436739"	""	84	"54"	30	57	"57"	0	"RP5-858B6.1,upstream_gene_variant,,ENST00000436739,;"	"A"	"ENSG00000225656"	"ENST00000436739"	"Transcript"	"upstream_gene_variant"	"-/311"	""	""	""	""	""	"1"	"2365"	-1	"RP5-858B6.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"22674d7e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WGS"	FALSE
"12867"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	232380899	232380899	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"79"	9	47	"47"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"22679c98-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102272727272727	"WGS"	FALSE
"12868"	"RP4-534P7.2"	0	"mskcc.org"	"GRCh37"	"1"	235685739	235685739	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000457471"	""	92	"83"	9	37	"37"	0	"RP4-534P7.2,downstream_gene_variant,,ENST00000457471,;"	"A"	"ENSG00000238236"	"ENST00000457471"	"Transcript"	"downstream_gene_variant"	"-/715"	""	""	""	""	""	"1"	"1756"	1	"RP4-534P7.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"22686fa6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0978260869565217	"WGS"	FALSE
"12869"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	236300104	236300104	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	37	"31"	6	27	"27"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"22689698-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162162162162162	"WGS"	FALSE
"12870"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	236300124	236300124	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs760344092"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	35	"29"	6	21	"21"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs760344092"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"22689800-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171428571428571	"WGS"	FALSE
"12871"	"HEATR1"	55127	"mskcc.org"	"GRCh37"	"1"	236739037	236739037	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3084+482A>T"	""	""	"ENST00000366582"	""	83	"56"	27	49	"49"	0	"HEATR1,intron_variant,,ENST00000366582,NM_018072.5;HEATR1,intron_variant,,ENST00000366581,;HEATR1,upstream_gene_variant,,ENST00000490339,;"	"A"	"ENSG00000119285"	"ENST00000366582"	"Transcript"	"intron_variant"	"-/8447"	"-/6435"	"-/2144"	""	""	""	"1"	NA	-1	"HEATR1"	"HGNC"	25517	"protein_coding"	"YES"	"CCDS31066.1"	"ENSP00000355541"	"Q9H583"	"Q6P664"	"UPI000013D4D4"	"NM_018072.5"	""	""	""	"22/44"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"2268c6c2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325301204819277	"WGS"	FALSE
"12872"	"MT1HL1"	645745	"mskcc.org"	"GRCh37"	"1"	237162696	237162696	"+"	"3'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000464121"	""	98	"57"	41	33	"33"	0	"MT1HL1,downstream_gene_variant,,ENST00000464121,NM_001276687.1;"	"T"	"ENSG00000244020"	"ENST00000464121"	"Transcript"	"downstream_gene_variant"	"-/316"	"-/186"	"-/61"	""	""	""	"1"	"4707"	-1	"MT1HL1"	"HGNC"	31864	"protein_coding"	"YES"	"CCDS31068.1"	"ENSP00000476141"	"P0DM35"	""	"UPI0000072A71"	"NM_001276687.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"2268e184-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.418367346938776	"WGS"	FALSE
"12873"	"RYR2"	6262	"mskcc.org"	"GRCh37"	"1"	237570308	237570308	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.774-10041C>A"	""	""	"ENST00000366574"	""	91	"75"	16	33	"33"	0	"RYR2,intron_variant,,ENST00000366574,NM_001035.2;RYR2,intron_variant,,ENST00000542537,;RYR2,intron_variant,,ENST00000360064,;"	"A"	"ENSG00000198626"	"ENST00000366574"	"Transcript"	"intron_variant"	"-/16562"	"-/14904"	"-/4967"	""	""	""	"1"	NA	1	"RYR2"	"HGNC"	10484	"protein_coding"	"YES"	"CCDS55691.1"	"ENSP00000355533"	"Q92736"	"H0YGL9,D7UNU4,D7UNU3,D7UNU2"	"UPI0000DD0308"	"NM_001035.2"	""	""	""	"10/104"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"2268fb1a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175824175824176	"WGS"	FALSE
"12874"	"RYR2"	6262	"mskcc.org"	"GRCh37"	"1"	237910538	237910538	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.11145+4889C>T"	""	""	"ENST00000366574"	""	90	"70"	20	47	"47"	0	"RYR2,intron_variant,,ENST00000366574,NM_001035.2;RYR2,intron_variant,,ENST00000542537,;RYR2,intron_variant,,ENST00000360064,;RYR2,intron_variant,,ENST00000609119,;"	"T"	"ENSG00000198626"	"ENST00000366574"	"Transcript"	"intron_variant"	"-/16562"	"-/14904"	"-/4967"	""	""	""	"1"	NA	1	"RYR2"	"HGNC"	10484	"protein_coding"	"YES"	"CCDS55691.1"	"ENSP00000355533"	"Q92736"	"H0YGL9,D7UNU4,D7UNU3,D7UNU2"	"UPI0000DD0308"	"NM_001035.2"	""	""	""	"80/104"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"226909e8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"12875"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	239105359	239105359	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs757691204"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"69"	35	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs757691204"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"22693472-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336538461538462	"WGS"	FALSE
"12876"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	239367564	239367564	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"87"	5	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"22693c38-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0543478260869565	"WGS"	FALSE
"12877"	"FMN2"	56776	"mskcc.org"	"GRCh37"	"1"	240405768	240405768	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4066-15477T>A"	""	""	"ENST00000319653"	""	108	"68"	40	35	"35"	0	"FMN2,intron_variant,,ENST00000319653,NM_020066.4;FMN2,upstream_gene_variant,,ENST00000545751,;FMN2,upstream_gene_variant,,ENST00000441342,;FMN2,intron_variant,,ENST00000463398,;"	"A"	"ENSG00000155816"	"ENST00000319653"	"Transcript"	"intron_variant"	"-/6434"	"-/5169"	"-/1722"	""	""	""	"1"	NA	1	"FMN2"	"HGNC"	14074	"protein_coding"	"YES"	"CCDS31069.2"	"ENSP00000318884"	"Q9NZ56"	"Q96L17,B4DN09"	"UPI00015FA087"	"NM_020066.4"	""	""	""	"6/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"22696140-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.37037037037037	"WGS"	FALSE
"12878"	"FMN2"	56776	"mskcc.org"	"GRCh37"	"1"	240495359	240495359	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4584+1310A>T"	""	""	"ENST00000319653"	""	85	"80"	5	56	"56"	0	"FMN2,intron_variant,,ENST00000319653,NM_020066.4;FMN2,intron_variant,,ENST00000545751,;FMN2,downstream_gene_variant,,ENST00000441342,;FMN2,downstream_gene_variant,,ENST00000463398,;"	"T"	"ENSG00000155816"	"ENST00000319653"	"Transcript"	"intron_variant"	"-/6434"	"-/5169"	"-/1722"	""	""	""	"1"	NA	1	"FMN2"	"HGNC"	14074	"protein_coding"	"YES"	"CCDS31069.2"	"ENSP00000318884"	"Q9NZ56"	"Q96L17,B4DN09"	"UPI00015FA087"	"NM_020066.4"	""	""	""	"11/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAA"	"2269678a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"12879"	"FMN2"	56776	"mskcc.org"	"GRCh37"	"1"	240510105	240510105	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4766-9011C>A"	""	""	"ENST00000319653"	""	88	"55"	33	53	"53"	0	"FMN2,intron_variant,,ENST00000319653,NM_020066.4;FMN2,intron_variant,,ENST00000545751,;"	"A"	"ENSG00000155816"	"ENST00000319653"	"Transcript"	"intron_variant"	"-/6434"	"-/5169"	"-/1722"	""	""	""	"1"	NA	1	"FMN2"	"HGNC"	14074	"protein_coding"	"YES"	"CCDS31069.2"	"ENSP00000318884"	"Q9NZ56"	"Q96L17,B4DN09"	"UPI00015FA087"	"NM_020066.4"	""	""	""	"13/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"22696992-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WGS"	FALSE
"12880"	"EXO1"	9156	"mskcc.org"	"GRCh37"	"1"	242021012	242021012	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.543+228G>T"	""	""	"ENST00000366548"	""	94	"61"	33	50	"50"	0	"EXO1,intron_variant,,ENST00000366548,NM_130398.3;EXO1,intron_variant,,ENST00000348581,NM_003686.4,NM_006027.4;EXO1,intron_variant,,ENST00000518483,;EXO1,intron_variant,,ENST00000423131,;EXO1,intron_variant,,ENST00000437497,;EXO1,downstream_gene_variant,,ENST00000523590,;EXO1,downstream_gene_variant,,ENST00000450748,;EXO1,intron_variant,,ENST00000493702,;EXO1,intron_variant,,ENST00000469419,;"	"T"	"ENSG00000174371"	"ENST00000366548"	"Transcript"	"intron_variant"	"-/3473"	"-/2541"	"-/846"	""	""	""	"1"	NA	1	"EXO1"	"HGNC"	3511	"protein_coding"	"YES"	"CCDS1620.1"	"ENSP00000355506"	"Q9UQ84"	"Q5T399"	"UPI000013DDA8"	"NM_130398.3"	""	""	""	"7/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"2269baaa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351063829787234	"WGS"	FALSE
"12881"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	242169022	242169022	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	60	"52"	8	24	"24"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"2269ca22-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"12882"	"PLD5"	200150	"mskcc.org"	"GRCh37"	"1"	242429383	242429383	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.496-633T>G"	""	""	"ENST00000536534"	""	77	"57"	20	62	"62"	0	"PLD5,intron_variant,,ENST00000536534,;PLD5,intron_variant,,ENST00000442594,NM_152666.2;PLD5,intron_variant,,ENST00000427495,NM_001195811.1,NM_001195812.1;PLD5,intron_variant,,ENST00000459864,;PLD5,upstream_gene_variant,,ENST00000474177,;PLD5,intron_variant,,ENST00000314833,;PLD5,intron_variant,,ENST00000366545,;PLD5,intron_variant,,ENST00000467561,;"	"C"	"ENSG00000180287"	"ENST00000536534"	"Transcript"	"intron_variant"	"-/8721"	"-/1611"	"-/536"	""	""	""	"1"	NA	-1	"PLD5"	"HGNC"	26879	"protein_coding"	"YES"	"CCDS1621.2"	"ENSP00000440896"	"Q8N7P1"	"J3KP61"	"UPI000040E1A4"	""	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"2269de0e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25974025974026	"WGS"	FALSE
"12883"	"PLD5"	200150	"mskcc.org"	"GRCh37"	"1"	242626306	242626306	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.189+61084G>A"	""	""	"ENST00000536534"	""	83	"55"	28	55	"55"	0	"PLD5,intron_variant,,ENST00000536534,;PLD5,intron_variant,,ENST00000442594,NM_152666.2;PLD5,intron_variant,,ENST00000366545,;PLD5,intron_variant,,ENST00000467561,;"	"T"	"ENSG00000180287"	"ENST00000536534"	"Transcript"	"intron_variant"	"-/8721"	"-/1611"	"-/536"	""	""	""	"1"	NA	-1	"PLD5"	"HGNC"	26879	"protein_coding"	"YES"	"CCDS1621.2"	"ENSP00000440896"	"Q8N7P1"	"J3KP61"	"UPI000040E1A4"	""	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"2269fb14-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337349397590361	"WGS"	FALSE
"12884"	"SDCCAG8"	10806	"mskcc.org"	"GRCh37"	"1"	243657265	243657265	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs553101871"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2112+4823G>A"	""	""	"ENST00000366541"	""	61	"35"	26	35	"35"	0	"SDCCAG8,intron_variant,,ENST00000366541,NM_006642.3;SDCCAG8,intron_variant,,ENST00000355875,;SDCCAG8,intron_variant,,ENST00000343783,;AKT3,intron_variant,,ENST00000336199,NM_181690.2;SDCCAG8,intron_variant,,ENST00000435549,;SDCCAG8,intron_variant,,ENST00000497459,;"	"A"	"ENSG00000054282"	"ENST00000366541"	"Transcript"	"intron_variant"	"-/2567"	"-/2142"	"-/713"	""	""	"rs553101871"	"1"	NA	1	"SDCCAG8"	"HGNC"	10671	"protein_coding"	"YES"	"CCDS31075.1"	"ENSP00000355499"	"Q86SQ7"	"A6NCS9"	"UPI000000D77E"	"NM_006642.3"	""	""	""	"17/17"	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGG"	"226a528a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.426229508196721	"WGS"	FALSE
"12885"	"EFCAB2"	84288	"mskcc.org"	"GRCh37"	"1"	245244588	245244588	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.184-797T>C"	""	""	"ENST00000366523"	""	89	"81"	8	39	"39"	0	"EFCAB2,intron_variant,,ENST00000366522,;EFCAB2,intron_variant,,ENST00000366523,NM_032328.3;EFCAB2,intron_variant,,ENST00000366521,;EFCAB2,intron_variant,,ENST00000425550,;EFCAB2,intron_variant,,ENST00000447569,NM_001143943.1;EFCAB2,intron_variant,,ENST00000551317,;EFCAB2,upstream_gene_variant,,ENST00000427529,;EFCAB2,intron_variant,,ENST00000487845,;EFCAB2,intron_variant,,ENST00000497591,;EFCAB2,intron_variant,,ENST00000473686,;EFCAB2,intron_variant,,ENST00000495271,;EFCAB2,intron_variant,,ENST00000391837,;EFCAB2,intron_variant,,ENST00000549220,;"	"C"	"ENSG00000203666"	"ENST00000366523"	"Transcript"	"intron_variant"	"-/1231"	"-/489"	"-/162"	""	""	""	"1"	NA	1	"EFCAB2"	"HGNC"	28166	"protein_coding"	"YES"	"CCDS31082.1"	"ENSP00000355480"	"Q5VUJ9"	""	"UPI000006E262"	"NM_032328.3"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"226abe82-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"12886"	"KIF26B"	55083	"mskcc.org"	"GRCh37"	"1"	245446452	245446452	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.466-83684A>G"	""	""	"ENST00000407071"	""	80	"43"	37	43	"43"	0	"KIF26B,intron_variant,,ENST00000407071,NM_018012.3;DNAJC19P8,upstream_gene_variant,,ENST00000452887,;"	"G"	"ENSG00000162849"	"ENST00000407071"	"Transcript"	"intron_variant"	"-/7287"	"-/6327"	"-/2108"	""	""	""	"1"	NA	1	"KIF26B"	"HGNC"	25484	"protein_coding"	"YES"	"CCDS44342.1"	"ENSP00000385545"	"Q2KJY2"	"B4DF75"	"UPI0000695D71"	"NM_018012.3"	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"226ad23c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4625	"WGS"	FALSE
"12887"	"KIF26B"	55083	"mskcc.org"	"GRCh37"	"1"	245873024	245873024	"+"	"3'Flank"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366518"	""	76	"50"	26	38	"38"	0	"KIF26B,downstream_gene_variant,,ENST00000366518,;"	"C"	"ENSG00000162849"	"ENST00000366518"	"Transcript"	"downstream_gene_variant"	"-/12113"	"-/5184"	"-/1727"	""	""	""	"1"	"291"	1	"KIF26B"	"HGNC"	25484	"protein_coding"	""	""	"ENSP00000355475"	""	"B7WPD9"	"UPI000059D0E3"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"226af03c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342105263157895	"WGS"	FALSE
"12888"	"CNST"	163882	"mskcc.org"	"GRCh37"	"1"	246776958	246776958	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.380-7773T>C"	""	""	"ENST00000366513"	""	31	"27"	4	20	"20"	0	"CNST,intron_variant,,ENST00000366513,NM_152609.2;CNST,intron_variant,,ENST00000366512,NM_001139459.1;CNST,intron_variant,,ENST00000366511,;CNST,intron_variant,,ENST00000483271,;"	"C"	"ENSG00000162852"	"ENST00000366513"	"Transcript"	"intron_variant"	"-/5126"	"-/2178"	"-/725"	""	""	""	"1"	NA	1	"CNST"	"HGNC"	26486	"protein_coding"	"YES"	"CCDS1628.1"	"ENSP00000355470"	"Q6PJW8"	""	"UPI000013E1DF"	"NM_152609.2"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"226b417c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"12889"	"ZNF670"	93474	"mskcc.org"	"GRCh37"	"1"	247239640	247239640	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3+2256C>G"	""	""	"ENST00000366503"	""	71	"64"	7	42	"42"	0	"ZNF670,intron_variant,,ENST00000366503,NM_001204220.1,NM_033213.4;ZNF670,intron_variant,,ENST00000474541,;ZNF670,intron_variant,,ENST00000465049,;"	"C"	"ENSG00000135747"	"ENST00000366503"	"Transcript"	"intron_variant"	"-/1994"	"-/1170"	"-/389"	""	""	""	"1"	NA	-1	"ZNF670"	"HGNC"	28167	"protein_coding"	"YES"	"CCDS31087.1"	"ENSP00000355459"	"Q9BS34"	""	"UPI0000070EC3"	"NM_001204220.1,NM_033213.4"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"226b6e40-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0985915492957746	"WGS"	FALSE
"12890"	"DIP2C"	22982	"mskcc.org"	"GRCh37"	"10"	494564	494564	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.269-7628C>A"	""	""	"ENST00000280886"	""	57	"52"	5	15	"15"	0	"DIP2C,intron_variant,,ENST00000280886,NM_014974.2;DIP2C,intron_variant,,ENST00000381496,;DIP2C,intron_variant,,ENST00000423550,;"	"T"	"ENSG00000151240"	"ENST00000280886"	"Transcript"	"intron_variant"	"-/7894"	"-/4671"	"-/1556"	""	""	""	"1"	NA	-1	"DIP2C"	"HGNC"	29150	"protein_coding"	"YES"	"CCDS7054.1"	"ENSP00000280886"	"Q9Y2E4"	""	"UPI00001833B9"	"NM_014974.2"	""	""	""	"3/36"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"226c7a06-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087719298245614	"WGS"	FALSE
"12891"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	783847	783847	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"21"	5	12	"12"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"226cdd66-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WGS"	FALSE
"12892"	"PITRM1"	10531	"mskcc.org"	"GRCh37"	"10"	3183227	3183227	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2649-223C>T"	""	""	"ENST00000380989"	""	93	"68"	25	57	"57"	0	"PITRM1,intron_variant,,ENST00000380989,NM_014889.3,NM_001242307.1;PITRM1,intron_variant,,ENST00000224949,;PITRM1,intron_variant,,ENST00000451104,NM_001242309.1;PITRM1,intron_variant,,ENST00000380994,;PITRM1,intron_variant,,ENST00000455371,;PFKP,downstream_gene_variant,,ENST00000381075,NM_001242339.1;PFKP,downstream_gene_variant,,ENST00000381125,NM_002627.4;PFKP,downstream_gene_variant,,ENST00000381072,;PITRM1,downstream_gene_variant,,ENST00000451454,;PITRM1,downstream_gene_variant,,ENST00000424714,;PFKP,downstream_gene_variant,,ENST00000433193,;PITRM1-AS1,upstream_gene_variant,,ENST00000441377,;PITRM1-AS1,upstream_gene_variant,,ENST00000598280,;PITRM1-AS1,upstream_gene_variant,,ENST00000601046,;PITRM1,intron_variant,,ENST00000464395,;PITRM1,upstream_gene_variant,,ENST00000490510,;PITRM1-AS1,upstream_gene_variant,,ENST00000430356,;"	"A"	"ENSG00000107959"	"ENST00000380989"	"Transcript"	"intron_variant"	"-/3457"	"-/3117"	"-/1038"	""	""	""	"1"	NA	-1	"PITRM1"	"HGNC"	17663	"protein_coding"	"YES"	"CCDS55699.1"	"ENSP00000370377"	"Q5JRX3"	""	"UPI00015E00B2"	"NM_014889.3,NM_001242307.1"	""	""	""	"23/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"226e1af0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"12893"	"ENSR00001601635"	0	"mskcc.org"	"GRCh37"	"10"	4023561	4023561	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001601635"	""	98	"68"	30	49	"49"	0	""	"A"	""	"ENSR00001601635"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"226e982c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306122448979592	"WGS"	FALSE
"12894"	"LINC00704"	100216001	"mskcc.org"	"GRCh37"	"10"	4710877	4710877	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.107-9005A>G"	""	""	"ENST00000430998"	""	83	"54"	29	44	"44"	0	"LINC00704,intron_variant,,ENST00000430998,;LINC00704,intron_variant,,ENST00000449712,;"	"C"	"ENSG00000231298"	"ENST00000430998"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1478"	""	""	""	""	""	"1"	NA	-1	"LINC00704"	"HGNC"	44678	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"226eb8ca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349397590361446	"WGS"	FALSE
"12895"	"GDI2"	2665	"mskcc.org"	"GRCh37"	"10"	5879001	5879001	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-74+5029A>G"	""	""	"ENST00000380127"	""	79	"72"	7	41	"41"	0	"GDI2,intron_variant,,ENST00000380127,;"	"C"	"ENSG00000057608"	"ENST00000380127"	"Transcript"	"intron_variant"	"-/584"	"-/445"	"-/148"	""	""	""	"1"	NA	-1	"GDI2"	"HGNC"	4227	"protein_coding"	""	""	"ENSP00000369470"	""	"Q5SX90"	"UPI0000470211"	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"226f1fae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"12896"	"LINC00707"	100507127	"mskcc.org"	"GRCh37"	"10"	6848381	6848381	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.473+24933T>A"	""	""	"ENST00000436383"	""	97	"92"	5	39	"39"	0	"LINC00707,intron_variant,,ENST00000436383,;"	"A"	"ENSG00000238266"	"ENST00000436383"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3070"	""	""	""	""	""	"1"	NA	1	"LINC00707"	"HGNC"	44691	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"226f637e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0515463917525773	"WGS"	FALSE
"12897"	"RP5-1031D4.2"	0	"mskcc.org"	"GRCh37"	"10"	7516332	7516332	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000420395"	""	93	"68"	25	46	"46"	0	"RP5-1031D4.2,upstream_gene_variant,,ENST00000420395,;"	"A"	"ENSG00000232591"	"ENST00000420395"	"Transcript"	"upstream_gene_variant"	"-/557"	""	""	""	""	""	"1"	"2428"	-1	"RP5-1031D4.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"226fa8a2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"12898"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	10383893	10383893	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"54"	33	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"22704fe6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.379310344827586	"WGS"	FALSE
"12899"	"CELF2"	10659	"mskcc.org"	"GRCh37"	"10"	11345266	11345266	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.977-10836C>G"	""	""	"ENST00000450189"	""	109	"65"	44	60	"60"	0	"CELF2,intron_variant,,ENST00000379261,NM_001025077.2;CELF2,intron_variant,,ENST00000315874,NM_001025076.2,NM_001083591.1;CELF2,intron_variant,,ENST00000427450,;CELF2,intron_variant,,ENST00000450189,NM_006561.3;CELF2,intron_variant,,ENST00000354440,;CELF2,intron_variant,,ENST00000542579,;CELF2,intron_variant,,ENST00000416382,;CELF2,intron_variant,,ENST00000399850,;CELF2,intron_variant,,ENST00000417956,;CELF2,intron_variant,,ENST00000609692,;CELF2,intron_variant,,ENST00000608830,;CELF2,intron_variant,,ENST00000354897,;CELF2,intron_variant,,ENST00000537122,;CELF2,intron_variant,,ENST00000609870,;"	"G"	"ENSG00000048740"	"ENST00000450189"	"Transcript"	"intron_variant"	"-/7982"	"-/1566"	"-/521"	""	""	""	"1"	NA	1	"CELF2"	"HGNC"	2550	"protein_coding"	"YES"	"CCDS44355.1"	"ENSP00000389951"	""	"E9PC62,B4DIB6"	"UPI0000F58F21"	"NM_006561.3"	""	""	""	"9/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"22709050-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.403669724770642	"WGS"	FALSE
"12900"	"CELF2"	10659	"mskcc.org"	"GRCh37"	"10"	11351018	11351018	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.977-5084T>G"	""	""	"ENST00000450189"	""	100	"64"	36	46	"46"	0	"CELF2,intron_variant,,ENST00000379261,NM_001025077.2;CELF2,intron_variant,,ENST00000315874,NM_001025076.2,NM_001083591.1;CELF2,intron_variant,,ENST00000427450,;CELF2,intron_variant,,ENST00000450189,NM_006561.3;CELF2,intron_variant,,ENST00000354440,;CELF2,intron_variant,,ENST00000542579,;CELF2,intron_variant,,ENST00000416382,;CELF2,intron_variant,,ENST00000399850,;CELF2,intron_variant,,ENST00000417956,;CELF2,intron_variant,,ENST00000609692,;CELF2,intron_variant,,ENST00000608830,;CELF2,intron_variant,,ENST00000354897,;CELF2,intron_variant,,ENST00000537122,;CELF2,intron_variant,,ENST00000609870,;"	"G"	"ENSG00000048740"	"ENST00000450189"	"Transcript"	"intron_variant"	"-/7982"	"-/1566"	"-/521"	""	""	""	"1"	NA	1	"CELF2"	"HGNC"	2550	"protein_coding"	"YES"	"CCDS44355.1"	"ENSP00000389951"	""	"E9PC62,B4DIB6"	"UPI0000F58F21"	"NM_006561.3"	""	""	""	"9/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"22709104-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36	"WGS"	FALSE
"12901"	"DHTKD1"	55526	"mskcc.org"	"GRCh37"	"10"	12122693	12122693	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.155-778T>G"	""	""	"ENST00000263035"	""	93	"87"	6	44	"44"	0	"DHTKD1,intron_variant,,ENST00000263035,NM_018706.6;DHTKD1,intron_variant,,ENST00000437298,;DHTKD1,upstream_gene_variant,,ENST00000465617,;"	"G"	"ENSG00000181192"	"ENST00000263035"	"Transcript"	"intron_variant"	"-/5159"	"-/2760"	"-/919"	""	""	""	"1"	NA	1	"DHTKD1"	"HGNC"	23537	"protein_coding"	"YES"	"CCDS7087.1"	"ENSP00000263035"	"Q96HY7"	""	"UPI000013D38C"	"NM_018706.6"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"2270d74a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"12902"	"NUDT5"	11164	"mskcc.org"	"GRCh37"	"10"	12219116	12219116	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.289+676T>C"	""	""	"ENST00000491614"	""	74	"66"	8	47	"47"	0	"NUDT5,intron_variant,,ENST00000491614,;NUDT5,intron_variant,,ENST00000378927,;NUDT5,intron_variant,,ENST00000537776,NM_014142.2;NUDT5,intron_variant,,ENST00000378940,;NUDT5,intron_variant,,ENST00000378937,;NUDT5,downstream_gene_variant,,ENST00000444732,;NUDT5,intron_variant,,ENST00000378952,;NUDT5,upstream_gene_variant,,ENST00000498825,;NUDT5,intron_variant,,ENST00000476462,;"	"G"	"ENSG00000165609"	"ENST00000491614"	"Transcript"	"intron_variant"	"-/3433"	"-/660"	"-/219"	""	""	""	"1"	NA	-1	"NUDT5"	"HGNC"	8052	"protein_coding"	"YES"	"CCDS7089.1"	"ENSP00000419628"	"Q9UKK9"	""	"UPI00001308E1"	""	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"2270e686-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"12903"	"CAMK1D"	57118	"mskcc.org"	"GRCh37"	"10"	12413635	12413635	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.92+21726G>A"	""	""	"ENST00000378847"	""	72	"65"	7	29	"29"	0	"CAMK1D,intron_variant,,ENST00000378847,NM_153498.2;CAMK1D,intron_variant,,ENST00000378845,NM_020397.2;CAMK1D,intron_variant,,ENST00000487696,;"	"A"	"ENSG00000183049"	"ENST00000378847"	"Transcript"	"intron_variant"	"-/8154"	"-/1158"	"-/385"	""	""	""	"1"	NA	1	"CAMK1D"	"HGNC"	19341	"protein_coding"	"YES"	"CCDS7091.1"	"ENSP00000368124"	"Q8IU85"	""	"UPI000003CA33"	"NM_153498.2"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"22710314-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"12904"	"BEND7"	222389	"mskcc.org"	"GRCh37"	"10"	13476618	13476618	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000341083"	""	97	"88"	9	50	"50"	0	"BEND7,downstream_gene_variant,,ENST00000341083,NM_152751.2;BEND7,downstream_gene_variant,,ENST00000396900,;BEND7,downstream_gene_variant,,ENST00000486542,;"	"G"	"ENSG00000165626"	"ENST00000341083"	"Transcript"	"downstream_gene_variant"	"-/2239"	"-/1407"	"-/468"	""	""	""	"1"	"4019"	-1	"BEND7"	"HGNC"	23514	"protein_coding"	"YES"	"CCDS7099.1"	"ENSP00000345773"	"Q8N7W2"	""	"UPI000013FFEA"	"NM_152751.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"22714b12-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0927835051546392	"WGS"	FALSE
"12905"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"10"	13556090	13556090	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"rs372623082"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000365638"	""	72	"66"	6	44	"44"	0	"BEND7,intron_variant,,ENST00000396900,;BEND7,intron_variant,,ENST00000396898,;Y_RNA,upstream_gene_variant,,ENST00000365638,;BEND7,intron_variant,,ENST00000466271,;"	"G"	"ENSG00000202508"	"ENST00000365638"	"Transcript"	"upstream_gene_variant"	"-/108"	""	""	""	""	"rs372623082"	"1"	"2777"	-1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"22714fb8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"12906"	"CACNB2"	783	"mskcc.org"	"GRCh37"	"10"	18782018	18782018	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.334-5266G>A"	""	""	"ENST00000324631"	""	99	"62"	37	55	"55"	0	"CACNB2,intron_variant,,ENST00000396576,NM_000724.3;CACNB2,intron_variant,,ENST00000282343,NM_201571.3,NM_001167945.1;CACNB2,intron_variant,,ENST00000377315,NM_201570.2;CACNB2,intron_variant,,ENST00000324631,NM_201593.2,NM_201596.2;CACNB2,intron_variant,,ENST00000377329,NM_201590.2;CACNB2,intron_variant,,ENST00000377319,;CACNB2,intron_variant,,ENST00000352115,NM_201597.2;CACNB2,intron_variant,,ENST00000377331,NM_201572.3;CACNB2,intron_variant,,ENST00000377328,;CACNB2,intron_variant,,ENST00000498816,;"	"A"	"ENSG00000165995"	"ENST00000324631"	"Transcript"	"intron_variant"	"-/3446"	"-/1983"	"-/660"	""	""	""	"1"	NA	1	"CACNB2"	"HGNC"	1402	"protein_coding"	"YES"	"CCDS7125.1"	"ENSP00000320025"	"Q08289"	""	"UPI00001AEA80"	"NM_201593.2,NM_201596.2"	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"22723e64-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373737373737374	"WGS"	FALSE
"12907"	"MLLT10"	8028	"mskcc.org"	"GRCh37"	"10"	21831990	21831990	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.240+4149T>C"	""	""	"ENST00000307729"	""	92	"84"	8	40	"40"	0	"MLLT10,intron_variant,,ENST00000377072,NM_004641.3;MLLT10,intron_variant,,ENST00000446906,;MLLT10,intron_variant,,ENST00000307729,;MLLT10,intron_variant,,ENST00000377059,NM_001195626.1;MLLT10,intron_variant,,ENST00000377100,NM_001195630.1,NM_001195628.1;MLLT10,intron_variant,,ENST00000377091,NM_001195627.1;MLLT10,intron_variant,,ENST00000430455,;MLLT10,intron_variant,,ENST00000495130,;MLLT10,intron_variant,,ENST00000476557,;MLLT10,intron_variant,,ENST00000462999,;MLLT10,intron_variant,,ENST00000480415,;MLLT10,intron_variant,,ENST00000479634,;MLLT10,downstream_gene_variant,,ENST00000471315,;"	"C"	"ENSG00000078403"	"ENST00000307729"	"Transcript"	"intron_variant"	"-/5032"	"-/3207"	"-/1068"	""	""	""	"1"	NA	1	"MLLT10"	"HGNC"	16063	"protein_coding"	"YES"	"CCDS55708.1"	"ENSP00000307411"	"P55197"	"Q71UR7,B4DVS6"	"UPI00001F8FF7"	""	""	""	""	"3/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"2272ef80-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	TRUE
"12908"	"MLLT10"	8028	"mskcc.org"	"GRCh37"	"10"	21832022	21832022	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.240+4181A>G"	""	""	"ENST00000307729"	""	91	"81"	10	37	"37"	0	"MLLT10,intron_variant,,ENST00000377072,NM_004641.3;MLLT10,intron_variant,,ENST00000446906,;MLLT10,intron_variant,,ENST00000307729,;MLLT10,intron_variant,,ENST00000377059,NM_001195626.1;MLLT10,intron_variant,,ENST00000377100,NM_001195630.1,NM_001195628.1;MLLT10,intron_variant,,ENST00000377091,NM_001195627.1;MLLT10,intron_variant,,ENST00000430455,;MLLT10,intron_variant,,ENST00000495130,;MLLT10,intron_variant,,ENST00000476557,;MLLT10,intron_variant,,ENST00000462999,;MLLT10,intron_variant,,ENST00000480415,;MLLT10,intron_variant,,ENST00000479634,;MLLT10,downstream_gene_variant,,ENST00000471315,;"	"G"	"ENSG00000078403"	"ENST00000307729"	"Transcript"	"intron_variant"	"-/5032"	"-/3207"	"-/1068"	""	""	""	"1"	NA	1	"MLLT10"	"HGNC"	16063	"protein_coding"	"YES"	"CCDS55708.1"	"ENSP00000307411"	"P55197"	"Q71UR7,B4DVS6"	"UPI00001F8FF7"	""	""	""	""	"3/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"2272f02a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10989010989011	"WGS"	TRUE
"12909"	"DNAJC1"	64215	"mskcc.org"	"GRCh37"	"10"	22076880	22076880	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1098+18029G>A"	""	""	"ENST00000376980"	""	88	"59"	29	33	"33"	0	"DNAJC1,intron_variant,,ENST00000376980,NM_022365.3;RN7SKP219,downstream_gene_variant,,ENST00000516825,;DNAJC1,intron_variant,,ENST00000483085,;"	"T"	"ENSG00000136770"	"ENST00000376980"	"Transcript"	"intron_variant"	"-/2106"	"-/1665"	"-/554"	""	""	""	"1"	NA	-1	"DNAJC1"	"HGNC"	20090	"protein_coding"	"YES"	"CCDS7136.1"	"ENSP00000366179"	"Q96KC8"	"Q96NY3"	"UPI0000049FEF"	"NM_022365.3"	""	""	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"22730e5c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329545454545455	"WGS"	FALSE
"12910"	"OTUD1"	220213	"mskcc.org"	"GRCh37"	"10"	23731538	23731538	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000376495"	""	90	"61"	29	46	"46"	0	"OTUD1,downstream_gene_variant,,ENST00000376495,NM_001145373.2;"	"A"	"ENSG00000165312"	"ENST00000376495"	"Transcript"	"downstream_gene_variant"	"-/3111"	"-/1446"	"-/481"	""	""	""	"1"	"230"	1	"OTUD1"	"HGNC"	27346	"protein_coding"	"YES"	"CCDS44366.1"	"ENSP00000365678"	"Q5VV17"	""	"UPI0000458A32"	"NM_001145373.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"22734016-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322222222222222	"WGS"	FALSE
"12911"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	26660637	26660637	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"54"	29	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"2273bc4e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349397590361446	"WGS"	FALSE
"12912"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	29311667	29311667	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"51"	22	35	"35"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"2274669e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301369863013699	"WGS"	FALSE
"12913"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	29371181	29371181	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"51"	27	51	"51"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"22746e5a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"12914"	"SVILP1"	645954	"mskcc.org"	"GRCh37"	"10"	31001225	31001225	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2227-262C>T"	""	""	"ENST00000422642"	""	92	"63"	29	44	"44"	0	"SVILP1,intron_variant,,ENST00000422642,;SVILP1,intron_variant,,ENST00000429171,;"	"T"	"ENSG00000234814"	"ENST00000422642"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2592"	""	""	""	""	""	"1"	NA	1	"SVILP1"	"HGNC"	44959	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"15/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"2274cee0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315217391304348	"WGS"	FALSE
"12915"	"KIF5B"	3799	"mskcc.org"	"GRCh37"	"10"	32313920	32313920	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1726-1956T>C"	""	""	"ENST00000302418"	""	99	"88"	11	47	"47"	0	"KIF5B,intron_variant,,ENST00000302418,NM_004521.2;KIF5B,upstream_gene_variant,,ENST00000493889,;"	"G"	"ENSG00000170759"	"ENST00000302418"	"Transcript"	"intron_variant"	"-/5877"	"-/2892"	"-/963"	""	""	""	"1"	NA	-1	"KIF5B"	"HGNC"	6324	"protein_coding"	"YES"	"CCDS7171.1"	"ENSP00000307078"	"P33176"	"A8K048"	"UPI000012DE68"	"NM_004521.2"	""	""	""	"15/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"22751f8a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	TRUE
"12916"	"EPC1"	80314	"mskcc.org"	"GRCh37"	"10"	32597647	32597647	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.154-2788A>T"	""	""	"ENST00000263062"	""	97	"62"	35	47	"47"	0	"EPC1,intron_variant,,ENST00000319778,NM_001272004.1,NM_001272019.1;EPC1,intron_variant,,ENST00000375110,NM_001282391.1;EPC1,intron_variant,,ENST00000263062,NM_025209.3;EPC1,intron_variant,,ENST00000495790,;"	"A"	"ENSG00000120616"	"ENST00000263062"	"Transcript"	"intron_variant"	"-/2913"	"-/2511"	"-/836"	""	""	""	"1"	NA	-1	"EPC1"	"HGNC"	19876	"protein_coding"	"YES"	"CCDS7172.1"	"ENSP00000263062"	"Q9H2F5"	"Q68DJ2"	"UPI000006F77F"	"NM_025209.3"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"22753ce0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.360824742268041	"WGS"	FALSE
"12917"	"RP11-297A16.2"	0	"mskcc.org"	"GRCh37"	"10"	35391501	35391501	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.149-1513T>C"	""	""	"ENST00000450742"	""	87	"77"	10	34	"34"	0	"RP11-297A16.2,intron_variant,,ENST00000450742,;RP11-297A16.2,intron_variant,,ENST00000457255,;"	"G"	"ENSG00000230534"	"ENST00000450742"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/569"	""	""	""	""	""	"1"	NA	-1	"RP11-297A16.2"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"2275d63c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114942528735632	"WGS"	FALSE
"12918"	"SLC9B1P3"	0	"mskcc.org"	"GRCh37"	"10"	38965094	38965094	"+"	"RNA"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.559G>C"	""	""	"ENST00000452667"	"4/9"	95	"70"	25	42	"42"	0	"SLC9B1P3,non_coding_transcript_exon_variant,,ENST00000452667,;"	"G"	"ENSG00000233867"	"ENST00000452667"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"559/1334"	""	""	""	""	""	"1"	NA	-1	"SLC9B1P3"	"HGNC"	43582	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"4/9"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"22773ae0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"12919"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	43336966	43336966	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"78"	5	46	"46"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"227a31e6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0602409638554217	"WGS"	FALSE
"12920"	"ZNF487"	0	"mskcc.org"	"GRCh37"	"10"	43986083	43986083	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1294-5381A>G"	""	""	"ENST00000431662"	""	63	"57"	6	31	"31"	0	"ZNF487,intron_variant,,ENST00000431662,;"	"G"	"ENSG00000243660"	"ENST00000431662"	"Transcript"	"intron_variant"	"-/1347"	"-/1347"	"-/448"	""	""	""	"1"	NA	1	"ZNF487"	"HGNC"	23488	"protein_coding"	""	""	"ENSP00000388421"	"B1APH4"	""	"UPI000178DF42"	""	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"227a70de-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"12921"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	44994931	44994931	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"61"	27	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"227a9938-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306818181818182	"WGS"	FALSE
"12922"	"RP11-175I17.2"	0	"mskcc.org"	"GRCh37"	"10"	46360786	46360786	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.201-2224C>G"	""	""	"ENST00000440803"	""	22	"18"	4	7	"7"	0	"RP11-175I17.2,intron_variant,,ENST00000440803,;RP11-175I17.2,intron_variant,,ENST00000435772,;"	"C"	"ENSG00000239883"	"ENST00000440803"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/790"	""	""	""	""	""	"1"	NA	-1	"RP11-175I17.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"227acdd6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"12923"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	48613912	48613912	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"65"	30	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"227b62e6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WGS"	FALSE
"12924"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	50775054	50775054	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"65"	29	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"227bc31c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308510638297872	"WGS"	FALSE
"12925"	"CTSLP4"	0	"mskcc.org"	"GRCh37"	"10"	52470727	52470727	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000454614"	""	67	"58"	9	41	"41"	0	"CTSLP4,upstream_gene_variant,,ENST00000454614,;"	"C"	"ENSG00000230011"	"ENST00000454614"	"Transcript"	"upstream_gene_variant"	"-/1002"	""	""	""	""	""	"1"	"2061"	-1	"CTSLP4"	"HGNC"	23645	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"227c1fa6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134328358208955	"WGS"	FALSE
"12926"	"PRKG1"	5592	"mskcc.org"	"GRCh37"	"10"	53802491	53802491	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.763-11753T>A"	""	""	"ENST00000373980"	""	77	"70"	7	44	"44"	0	"PRKG1,intron_variant,,ENST00000373980,NM_006258.3;PRKG1,intron_variant,,ENST00000373985,NM_001098512.2;PRKG1,intron_variant,,ENST00000401604,;PRKG1,intron_variant,,ENST00000373976,;PRKG1,upstream_gene_variant,,ENST00000373975,;"	"A"	"ENSG00000185532"	"ENST00000373980"	"Transcript"	"intron_variant"	"-/6928"	"-/2061"	"-/686"	""	""	""	"1"	NA	1	"PRKG1"	"HGNC"	9414	"protein_coding"	"YES"	"CCDS7244.1"	"ENSP00000363092"	"Q13976"	""	"UPI000012DDCD"	"NM_006258.3"	""	""	""	"5/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTC"	"227c47f6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"12927"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	55300423	55300423	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"52"	28	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"227c8ea0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WGS"	FALSE
"12928"	"RP11-168O22.1"	0	"mskcc.org"	"GRCh37"	"10"	57170888	57170888	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.184-44915C>A"	""	""	"ENST00000457975"	""	81	"76"	5	48	"48"	0	"PCDH15,intron_variant,,ENST00000373957,;RP11-168O22.1,intron_variant,,ENST00000457975,;"	"T"	"ENSG00000236744"	"ENST00000457975"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/439"	""	""	""	""	""	"1"	NA	-1	"RP11-168O22.1"	"Clone_based_vega_gene"	NA	"sense_intronic"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"227cd400-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"12929"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	61169077	61169077	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"56"	31	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"227d6ba4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35632183908046	"WGS"	FALSE
"12930"	"CCDC6"	8030	"mskcc.org"	"GRCh37"	"10"	61668805	61668805	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000263102"	""	79	"50"	29	48	"48"	0	"CCDC6,upstream_gene_variant,,ENST00000263102,NM_005436.4;"	"A"	"ENSG00000108091"	"ENST00000263102"	"Transcript"	"upstream_gene_variant"	"-/5811"	"-/1425"	"-/474"	""	""	""	"1"	"2391"	-1	"CCDC6"	"HGNC"	18782	"protein_coding"	"YES"	"CCDS7257.1"	"ENSP00000263102"	"Q16204"	""	"UPI000035B25A"	"NM_005436.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"227d86a2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.367088607594937	"WGS"	TRUE
"12931"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	63271946	63271946	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"82"	6	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"227dbfaa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"12932"	"JMJD1C"	221037	"mskcc.org"	"GRCh37"	"10"	65038936	65038936	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.334-14412G>C"	""	""	"ENST00000399262"	""	81	"74"	7	41	"41"	0	"JMJD1C,intron_variant,,ENST00000399262,NM_032776.1;JMJD1C,intron_variant,,ENST00000399251,;"	"G"	"ENSG00000171988"	"ENST00000399262"	"Transcript"	"intron_variant"	"-/8666"	"-/7623"	"-/2540"	""	""	""	"1"	NA	-1	"JMJD1C"	"HGNC"	12313	"protein_coding"	"YES"	"CCDS41532.1"	"ENSP00000382204"	"Q15652"	""	"UPI0000198BEF"	"NM_032776.1"	""	""	""	"2/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"227df93e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"12933"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	67228686	67228686	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"64"	26	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"227e394e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288888888888889	"WGS"	FALSE
"12934"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	67239249	67239249	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"60"	22	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"227e3a8e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268292682926829	"WGS"	FALSE
"12935"	"HNRNPH3"	3189	"mskcc.org"	"GRCh37"	"10"	70099793	70099793	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.639+481G>A"	""	""	"ENST00000265866"	""	75	"50"	25	39	"39"	0	"HNRNPH3,intron_variant,,ENST00000265866,NM_012207.2,NM_021644.3;HNRNPH3,intron_variant,,ENST00000354695,;HNRNPH3,intron_variant,,ENST00000441000,;RUFY2,downstream_gene_variant,,ENST00000388768,NM_017987.4;RUFY2,downstream_gene_variant,,ENST00000602465,;RUFY2,downstream_gene_variant,,ENST00000463210,;HNRNPH3,intron_variant,,ENST00000469172,;HNRNPH3,intron_variant,,ENST00000481819,;HNRNPH3,intron_variant,,ENST00000491200,;HNRNPH3,intron_variant,,ENST00000490442,;HNRNPH3,intron_variant,,ENST00000478698,;HNRNPH3,intron_variant,,ENST00000480987,;RUFY2,downstream_gene_variant,,ENST00000484083,;HNRNPH3,downstream_gene_variant,,ENST00000461310,;HNRNPH3,downstream_gene_variant,,ENST00000486854,;HNRNPH3,downstream_gene_variant,,ENST00000467249,;RUFY2,downstream_gene_variant,,ENST00000466187,;RUFY2,downstream_gene_variant,,ENST00000466493,;"	"A"	"ENSG00000096746"	"ENST00000265866"	"Transcript"	"intron_variant"	"-/2339"	"-/1041"	"-/346"	""	""	""	"1"	NA	1	"HNRNPH3"	"HGNC"	5043	"protein_coding"	"YES"	"CCDS7278.1"	"ENSP00000265866"	"P31942"	""	"UPI0000134539"	"NM_012207.2,NM_021644.3"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"227e9600-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"12936"	"VPS26A"	9559	"mskcc.org"	"GRCh37"	"10"	70934371	70934371	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"rs528942494"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000373382"	""	84	"56"	28	27	"27"	0	"VPS26A,downstream_gene_variant,,ENST00000373382,;VPS26A,downstream_gene_variant,,ENST00000263559,NM_004896.3;VPS26A,downstream_gene_variant,,ENST00000395098,NM_001035260.1;VPS26A,downstream_gene_variant,,ENST00000546041,;VPS26A,downstream_gene_variant,,ENST00000541711,;VPS26A,downstream_gene_variant,,ENST00000489794,;VPS26A,downstream_gene_variant,,ENST00000490696,;VPS26A,downstream_gene_variant,,ENST00000497022,;"	"T"	"ENSG00000122958"	"ENST00000373382"	"Transcript"	"downstream_gene_variant"	"-/3229"	"-/984"	"-/327"	""	""	"rs528942494"	"1"	"1754"	1	"VPS26A"	"HGNC"	12711	"protein_coding"	"YES"	"CCDS7286.1"	"ENSP00000362480"	"O75436"	"G3V1N8"	"UPI0000138BC6"	""	""	""	""	""	""	"T:0.0010"	"T:0.0038"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"227f1d00-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"12937"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	72560487	72560487	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"85"	8	42	"42"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"227f7a2a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0860215053763441	"WGS"	FALSE
"12938"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	72560491	72560491	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"85"	8	42	"42"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"227f7ad4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0860215053763441	"WGS"	FALSE
"12939"	"TTC18"	118491	"mskcc.org"	"GRCh37"	"10"	75111001	75111001	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.250+2313A>C"	""	""	"ENST00000310715"	""	37	"33"	4	38	"38"	0	"TTC18,intron_variant,,ENST00000310715,NM_145170.3;TTC18,intron_variant,,ENST00000401621,;TTC18,intron_variant,,ENST00000355577,;TTC18,intron_variant,,ENST00000394865,;TTC18,intron_variant,,ENST00000340329,;Y_RNA,downstream_gene_variant,,ENST00000384742,;TTC18,intron_variant,,ENST00000493787,;"	"G"	"ENSG00000156042"	"ENST00000310715"	"Transcript"	"intron_variant"	"-/3703"	"-/3366"	"-/1121"	""	""	""	"1"	NA	-1	"TTC18"	"HGNC"	30726	"protein_coding"	"YES"	"CCDS7324.3"	"ENSP00000310829"	""	""	"UPI00001AEF7A"	"NM_145170.3"	""	""	""	"3/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"22804ce8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"12940"	"ADK"	132	"mskcc.org"	"GRCh37"	"10"	76122435	76122435	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.274-31464T>C"	""	""	"ENST00000286621"	""	85	"54"	31	45	"45"	0	"ADK,intron_variant,,ENST00000372734,NM_001123.3,NM_001202449.1;ADK,intron_variant,,ENST00000539909,NM_001202450.1;ADK,intron_variant,,ENST00000541550,;ADK,intron_variant,,ENST00000286621,NM_006721.3;"	"C"	"ENSG00000156110"	"ENST00000286621"	"Transcript"	"intron_variant"	"-/1169"	"-/1089"	"-/362"	""	""	""	"1"	NA	1	"ADK"	"HGNC"	257	"protein_coding"	"YES"	"CCDS7343.1"	"ENSP00000286621"	"P55263"	"Q9HB33"	"UPI00001255EA"	"NM_006721.3"	""	""	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTT"	"2280ac06-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364705882352941	"WGS"	FALSE
"12941"	"ADK"	132	"mskcc.org"	"GRCh37"	"10"	76293685	76293685	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.726+8501T>C"	""	""	"ENST00000286621"	""	107	"69"	38	43	"43"	0	"ADK,intron_variant,,ENST00000372734,NM_001123.3,NM_001202449.1;ADK,intron_variant,,ENST00000539909,NM_001202450.1;ADK,intron_variant,,ENST00000541550,;ADK,intron_variant,,ENST00000286621,NM_006721.3;RP11-46O21.2,upstream_gene_variant,,ENST00000448214,;RP11-46O21.2,upstream_gene_variant,,ENST00000595410,;RP11-46O21.2,upstream_gene_variant,,ENST00000609392,;"	"C"	"ENSG00000156110"	"ENST00000286621"	"Transcript"	"intron_variant"	"-/1169"	"-/1089"	"-/362"	""	""	""	"1"	NA	1	"ADK"	"HGNC"	257	"protein_coding"	"YES"	"CCDS7343.1"	"ENSP00000286621"	"P55263"	"Q9HB33"	"UPI00001255EA"	"NM_006721.3"	""	""	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"2280af80-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355140186915888	"WGS"	FALSE
"12942"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	76554191	76554191	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"64"	5	28	"28"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"2280b5ca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072463768115942	"WGS"	FALSE
"12943"	"KCNMA1"	3778	"mskcc.org"	"GRCh37"	"10"	79311383	79311383	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.378+85640A>C"	""	""	"ENST00000404857"	""	98	"58"	40	51	"51"	0	"KCNMA1,intron_variant,,ENST00000286627,NM_002247.3,NM_001271519.1;KCNMA1,intron_variant,,ENST00000286628,NM_001161352.1;KCNMA1,intron_variant,,ENST00000372443,;KCNMA1,intron_variant,,ENST00000372440,;KCNMA1,intron_variant,,ENST00000404771,;KCNMA1,intron_variant,,ENST00000457953,;KCNMA1,intron_variant,,ENST00000372437,;KCNMA1,intron_variant,,ENST00000372421,;KCNMA1,intron_variant,,ENST00000406533,;KCNMA1,intron_variant,,ENST00000354353,;KCNMA1,intron_variant,,ENST00000404857,NM_001161353.1;KCNMA1,intron_variant,,ENST00000372408,;KCNMA1,intron_variant,,ENST00000372403,;"	"G"	"ENSG00000156113"	"ENST00000404857"	"Transcript"	"intron_variant"	"-/3660"	"-/3660"	"-/1219"	""	""	""	"1"	NA	-1	"KCNMA1"	"HGNC"	6284	"protein_coding"	"YES"	"CCDS53545.1"	"ENSP00000385806"	"Q12791"	""	"UPI00003519E8"	"NM_001161353.1"	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"22812ac8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.408163265306122	"WGS"	FALSE
"12944"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	79430907	79430907	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"63"	8	27	"27"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"22813068-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112676056338028	"WGS"	FALSE
"12945"	"AC074323.1"	0	"mskcc.org"	"GRCh37"	"10"	80511465	80511465	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000411311"	""	75	"54"	21	44	"44"	0	"AC074323.1,downstream_gene_variant,,ENST00000411311,;"	"T"	"ENSG00000223243"	"ENST00000411311"	"Transcript"	"downstream_gene_variant"	"-/96"	""	""	""	""	""	"1"	"1011"	1	"AC074323.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"22815278-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"12946"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	83542814	83542814	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"71"	6	41	"41"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"22821a1e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"12947"	"NRG3"	10718	"mskcc.org"	"GRCh37"	"10"	84331045	84331045	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.954-167288G>A"	""	""	"ENST00000372141"	""	88	"50"	38	55	"55"	0	"NRG3,intron_variant,,ENST00000372142,NM_001165973.1;NRG3,intron_variant,,ENST00000404547,;NRG3,intron_variant,,ENST00000372141,NM_001165972.1,NM_001010848.3;NRG3,intron_variant,,ENST00000556918,;NRG3,intron_variant,,ENST00000404576,;NRG3,intron_variant,,ENST00000602794,;NRG3,intron_variant,,ENST00000555784,;"	"A"	"ENSG00000185737"	"ENST00000372141"	"Transcript"	"intron_variant"	"-/2158"	"-/2091"	"-/696"	""	""	""	"1"	NA	1	"NRG3"	"HGNC"	7999	"protein_coding"	"YES"	"CCDS31233.1"	"ENSP00000361214"	"P56975"	"D9ZHQ8"	"UPI00003D64C0"	"NM_001165972.1,NM_001010848.3"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"22823224-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.431818181818182	"WGS"	FALSE
"12948"	"NRG3"	10718	"mskcc.org"	"GRCh37"	"10"	84551575	84551575	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1027+53169G>T"	""	""	"ENST00000372141"	""	96	"90"	6	60	"60"	0	"NRG3,intron_variant,,ENST00000372142,NM_001165973.1;NRG3,intron_variant,,ENST00000404547,;NRG3,intron_variant,,ENST00000372141,NM_001165972.1,NM_001010848.3;NRG3,intron_variant,,ENST00000556918,;NRG3,intron_variant,,ENST00000404576,;NRG3,intron_variant,,ENST00000602794,;NRG3,intron_variant,,ENST00000555784,;"	"T"	"ENSG00000185737"	"ENST00000372141"	"Transcript"	"intron_variant"	"-/2158"	"-/2091"	"-/696"	""	""	""	"1"	NA	1	"NRG3"	"HGNC"	7999	"protein_coding"	"YES"	"CCDS31233.1"	"ENSP00000361214"	"P56975"	"D9ZHQ8"	"UPI00003D64C0"	"NM_001165972.1,NM_001010848.3"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"2282351c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"12949"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	84864676	84864676	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"67"	39	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"22823e90-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.367924528301887	"WGS"	FALSE
"12950"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	85313626	85313626	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"47"	24	34	"34"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"22824c64-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.338028169014085	"WGS"	FALSE
"12951"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	85605139	85605139	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"73"	5	47	"47"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"22825376-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0641025641025641	"WGS"	FALSE
"12952"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	85605155	85605155	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"78"	6	49	"49"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"2282542a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"12953"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	86362260	86362260	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	46	"36"	10	18	"18"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"228271bc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"12954"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	86433652	86433652	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"67"	26	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"22827996-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279569892473118	"WGS"	FALSE
"12955"	"RP11-57C13.6"	0	"mskcc.org"	"GRCh37"	"10"	89413230	89413230	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.109-5030A>T"	""	""	"ENST00000438082"	""	94	"86"	8	53	"53"	0	"RP11-57C13.6,intron_variant,,ENST00000438082,;RP11-57C13.3,intron_variant,,ENST00000354527,;"	"T"	"ENSG00000225913"	"ENST00000438082"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/495"	""	""	""	""	""	"1"	NA	1	"RP11-57C13.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"22830776-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"12956"	"LIPF"	8513	"mskcc.org"	"GRCh37"	"10"	90442662	90442662	"+"	"3'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000394375"	""	91	"54"	37	52	"52"	0	"LIPF,downstream_gene_variant,,ENST00000394375,NM_001198829.1;LIPF,downstream_gene_variant,,ENST00000238983,NM_004190.3;LIPF,downstream_gene_variant,,ENST00000355843,NM_001198830.1;LIPF,downstream_gene_variant,,ENST00000608620,NM_001198828.1;LIPF,downstream_gene_variant,,ENST00000496797,;"	"A"	"ENSG00000182333"	"ENST00000394375"	"Transcript"	"downstream_gene_variant"	"-/1470"	"-/1227"	"-/408"	""	""	""	"1"	"4094"	1	"LIPF"	"HGNC"	6622	"protein_coding"	"YES"	"CCDS55718.1"	"ENSP00000377900"	"P07098"	""	"UPI0001E92A2A"	"NM_001198829.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"22832f58-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.406593406593407	"WGS"	FALSE
"12957"	"HTR7"	3363	"mskcc.org"	"GRCh37"	"10"	92575758	92575758	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.539+41132G>T"	""	""	"ENST00000336152"	""	68	"45"	23	50	"50"	0	"HTR7,intron_variant,,ENST00000371721,;HTR7,intron_variant,,ENST00000336152,NM_019859.3;HTR7,intron_variant,,ENST00000371719,NM_019860.3;HTR7,intron_variant,,ENST00000277874,NM_000872.4;"	"A"	"ENSG00000148680"	"ENST00000336152"	"Transcript"	"intron_variant"	"-/3126"	"-/1440"	"-/479"	""	""	""	"1"	NA	-1	"HTR7"	"HGNC"	5302	"protein_coding"	"YES"	"CCDS7408.1"	"ENSP00000337949"	"P34969"	""	"UPI0000049B68"	"NM_019859.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"2283772e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.338235294117647	"WGS"	FALSE
"12958"	"FRA10AC1"	118924	"mskcc.org"	"GRCh37"	"10"	95449386	95449386	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.466-2180T>A"	""	""	"ENST00000359204"	""	98	"69"	29	53	"53"	0	"FRA10AC1,intron_variant,,ENST00000359204,NM_145246.4;FRA10AC1,intron_variant,,ENST00000536233,;FRA10AC1,intron_variant,,ENST00000371430,;FRA10AC1,intron_variant,,ENST00000394100,;FRA10AC1,upstream_gene_variant,,ENST00000482719,;FRA10AC1,upstream_gene_variant,,ENST00000472153,;"	"T"	"ENSG00000148690"	"ENST00000359204"	"Transcript"	"intron_variant"	"-/3089"	"-/948"	"-/315"	""	""	""	"1"	NA	-1	"FRA10AC1"	"HGNC"	1162	"protein_coding"	"YES"	"CCDS7430.1"	"ENSP00000360488"	"Q70Z53"	""	"UPI000006F7A9"	"NM_145246.4"	""	""	""	"7/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"22841562-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295918367346939	"WGS"	FALSE
"12959"	"HELLS"	3070	"mskcc.org"	"GRCh37"	"10"	96316317	96316317	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.277-1579C>G"	""	""	"ENST00000348459"	""	77	"49"	28	55	"55"	0	"HELLS,intron_variant,,ENST00000348459,NM_018063.3;HELLS,intron_variant,,ENST00000394036,;HELLS,intron_variant,,ENST00000394045,;HELLS,intron_variant,,ENST00000371332,;HELLS,intron_variant,,ENST00000239026,;HELLS,intron_variant,,ENST00000394044,;HELLS,intron_variant,,ENST00000419900,;HELLS,intron_variant,,ENST00000462057,;"	"G"	"ENSG00000119969"	"ENST00000348459"	"Transcript"	"intron_variant"	"-/3099"	"-/2517"	"-/838"	""	""	""	"1"	NA	1	"HELLS"	"HGNC"	4861	"protein_coding"	"YES"	"CCDS7434.1"	"ENSP00000239027"	"Q9NRZ9"	"B1ALG6"	"UPI000006F63A"	"NM_018063.3"	""	""	""	"3/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"22843e66-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"12960"	"RP11-7D5.2"	0	"mskcc.org"	"GRCh37"	"10"	97352014	97352014	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000398190"	""	74	"66"	8	22	"22"	0	"RP11-7D5.2,upstream_gene_variant,,ENST00000398190,;"	"G"	"ENSG00000214362"	"ENST00000398190"	"Transcript"	"upstream_gene_variant"	"-/775"	""	""	""	""	""	"1"	"2341"	1	"RP11-7D5.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"22846210-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"12961"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	98515681	98515681	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"41"	28	35	"35"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"2284a5ae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.405797101449275	"WGS"	FALSE
"12962"	"HPSE2"	60495	"mskcc.org"	"GRCh37"	"10"	100353346	100353346	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1320+21315G>C"	""	""	"ENST00000370552"	""	103	"64"	39	55	"55"	0	"HPSE2,intron_variant,,ENST00000370552,NM_021828.4;HPSE2,intron_variant,,ENST00000370549,NM_001166244.1;HPSE2,intron_variant,,ENST00000370546,NM_001166246.1;HPSE2,intron_variant,,ENST00000404542,NM_001166245.1;"	"G"	"ENSG00000172987"	"ENST00000370552"	"Transcript"	"intron_variant"	"-/2295"	"-/1779"	"-/592"	""	""	""	"1"	NA	-1	"HPSE2"	"HGNC"	18374	"protein_coding"	"YES"	"CCDS7477.1"	"ENSP00000359583"	"Q8WWQ2"	""	"UPI00001AEEC0"	"NM_021828.4"	""	""	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"22851cc8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.378640776699029	"WGS"	FALSE
"12963"	"HPSE2"	60495	"mskcc.org"	"GRCh37"	"10"	100513646	100513646	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.611-9833A>C"	""	""	"ENST00000370552"	""	88	"51"	37	43	"43"	0	"HPSE2,intron_variant,,ENST00000370552,NM_021828.4;HPSE2,intron_variant,,ENST00000370549,NM_001166244.1;HPSE2,intron_variant,,ENST00000370546,NM_001166246.1;HPSE2,intron_variant,,ENST00000404542,NM_001166245.1;"	"G"	"ENSG00000172987"	"ENST00000370552"	"Transcript"	"intron_variant"	"-/2295"	"-/1779"	"-/592"	""	""	""	"1"	NA	-1	"HPSE2"	"HGNC"	18374	"protein_coding"	"YES"	"CCDS7477.1"	"ENSP00000359583"	"Q8WWQ2"	""	"UPI00001AEEC0"	"NM_021828.4"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"228527f4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.420454545454545	"WGS"	FALSE
"12964"	"RP11-302K17.3"	0	"mskcc.org"	"GRCh37"	"10"	103846630	103846630	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000448532"	""	77	"70"	7	25	"25"	0	"RP11-302K17.3,upstream_gene_variant,,ENST00000448532,;RP11-302K17.4,upstream_gene_variant,,ENST00000454105,;"	"G"	"ENSG00000224302"	"ENST00000448532"	"Transcript"	"upstream_gene_variant"	"-/255"	""	""	""	""	""	"1"	"1143"	-1	"RP11-302K17.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"2286011a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"12965"	"CUEDC2"	79004	"mskcc.org"	"GRCh37"	"10"	104190192	104190192	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-11+2091G>A"	""	""	"ENST00000369937"	""	80	"52"	28	54	"54"	0	"CUEDC2,intron_variant,,ENST00000369937,NM_024040.2;CUEDC2,intron_variant,,ENST00000477994,;CUEDC2,intron_variant,,ENST00000486762,;"	"T"	"ENSG00000107874"	"ENST00000369937"	"Transcript"	"intron_variant"	"-/1191"	"-/864"	"-/287"	""	""	""	"1"	NA	-1	"CUEDC2"	"HGNC"	28352	"protein_coding"	"YES"	"CCDS41566.1"	"ENSP00000358953"	"Q9H467"	""	"UPI000006EFB6"	"NM_024040.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"2286237a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WGS"	FALSE
"12966"	"CNNM2"	54805	"mskcc.org"	"GRCh37"	"10"	104802445	104802445	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1622-7019T>C"	""	""	"ENST00000369878"	""	73	"48"	25	45	"45"	0	"CNNM2,intron_variant,,ENST00000369878,NM_017649.4;CNNM2,intron_variant,,ENST00000433628,NM_199076.2;"	"C"	"ENSG00000148842"	"ENST00000369878"	"Transcript"	"intron_variant"	"-/15857"	"-/2628"	"-/875"	""	""	""	"1"	NA	1	"CNNM2"	"HGNC"	103	"protein_coding"	"YES"	"CCDS44474.1"	"ENSP00000358894"	"Q9H8M5"	""	"UPI0000231CA6"	"NM_017649.4"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"22865778-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342465753424658	"WGS"	FALSE
"12967"	"RPEL1"	729020	"mskcc.org"	"GRCh37"	"10"	105003350	105003350	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000441178"	""	80	"52"	28	33	"33"	0	"RPEL1,upstream_gene_variant,,ENST00000441178,NM_001143909.1;"	"A"	"ENSG00000235376"	"ENST00000441178"	"Transcript"	"upstream_gene_variant"	"-/2130"	"-/687"	"-/228"	""	""	""	"1"	"2294"	1	"RPEL1"	"HGNC"	45241	"protein_coding"	"YES"	"CCDS65929.1"	"ENSP00000476672"	""	"Q2QD12"	"UPI00001C1ED0"	"NM_001143909.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"228666dc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WGS"	FALSE
"12968"	"RP11-655H13.2"	0	"mskcc.org"	"GRCh37"	"10"	110489837	110489837	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.18+19544A>C"	""	""	"ENST00000421481"	""	17	"14"	3	9	"9"	0	"RP11-655H13.2,intron_variant,,ENST00000421481,;"	"C"	"ENSG00000223381"	"ENST00000421481"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/480"	""	""	""	""	""	"1"	NA	1	"RP11-655H13.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"22872e32-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"12969"	"TCF7L2"	6934	"mskcc.org"	"GRCh37"	"10"	114845634	114845634	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.552+45749A>T"	""	""	"ENST00000543371"	""	90	"55"	35	63	"63"	0	"TCF7L2,intron_variant,,ENST00000355995,;TCF7L2,intron_variant,,ENST00000545257,;TCF7L2,intron_variant,,ENST00000536810,NM_001146285.1;TCF7L2,intron_variant,,ENST00000543371,NM_001198531.1,NM_001198526.1,NM_001146274.1;TCF7L2,intron_variant,,ENST00000355717,NM_001146286.1,NM_001198530.1,NM_001146283.1;TCF7L2,intron_variant,,ENST00000538897,NM_001146284.1,NM_001198529.1;TCF7L2,intron_variant,,ENST00000369397,NM_030756.4,NM_001198528.1,NM_001198527.1,NM_001198525.1;TCF7L2,intron_variant,,ENST00000534894,;TCF7L2,intron_variant,,ENST00000542695,;TCF7L2,intron_variant,,ENST00000352065,;TCF7L2,intron_variant,,ENST00000349937,;TCF7L2,intron_variant,,ENST00000369395,;TCF7L2,intron_variant,,ENST00000346198,;"	"T"	"ENSG00000148737"	"ENST00000543371"	"Transcript"	"intron_variant"	"-/4022"	"-/1809"	"-/602"	""	""	""	"1"	NA	1	"TCF7L2"	"HGNC"	11641	"protein_coding"	"YES"	"CCDS53577.1"	"ENSP00000444972"	"Q9NQB0"	"E2GH26,C6ZRJ8"	"UPI000002B4A6"	"NM_001198531.1,NM_001198526.1,NM_001146274.1"	""	""	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"2287ccfc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388888888888889	"WGS"	TRUE
"12970"	"TCF7L2"	6934	"mskcc.org"	"GRCh37"	"10"	114857347	114857347	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.553-43596A>G"	""	""	"ENST00000543371"	""	66	"56"	10	33	"33"	0	"TCF7L2,intron_variant,,ENST00000355995,;TCF7L2,intron_variant,,ENST00000545257,;TCF7L2,intron_variant,,ENST00000536810,NM_001146285.1;TCF7L2,intron_variant,,ENST00000543371,NM_001198531.1,NM_001198526.1,NM_001146274.1;TCF7L2,intron_variant,,ENST00000355717,NM_001146286.1,NM_001198530.1,NM_001146283.1;TCF7L2,intron_variant,,ENST00000538897,NM_001146284.1,NM_001198529.1;TCF7L2,intron_variant,,ENST00000369397,NM_030756.4,NM_001198528.1,NM_001198527.1,NM_001198525.1;TCF7L2,intron_variant,,ENST00000534894,;TCF7L2,intron_variant,,ENST00000542695,;TCF7L2,intron_variant,,ENST00000352065,;TCF7L2,intron_variant,,ENST00000349937,;TCF7L2,intron_variant,,ENST00000369395,;TCF7L2,intron_variant,,ENST00000346198,;"	"G"	"ENSG00000148737"	"ENST00000543371"	"Transcript"	"intron_variant"	"-/4022"	"-/1809"	"-/602"	""	""	""	"1"	NA	1	"TCF7L2"	"HGNC"	11641	"protein_coding"	"YES"	"CCDS53577.1"	"ENSP00000444972"	"Q9NQB0"	"E2GH26,C6ZRJ8"	"UPI000002B4A6"	"NM_001198531.1,NM_001198526.1,NM_001146274.1"	""	""	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"2287cdb0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151515151515152	"WGS"	TRUE
"12971"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	114957215	114957215	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"56"	29	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"2287dea4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341176470588235	"WGS"	FALSE
"12972"	"ATRNL1"	26033	"mskcc.org"	"GRCh37"	"10"	117421005	117421005	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3796-65753A>T"	""	""	"ENST00000355044"	""	89	"61"	28	46	"46"	0	"ATRNL1,intron_variant,,ENST00000355044,NM_207303.2;ATRNL1,intron_variant,,ENST00000423111,;ATRNL1,intron_variant,,ENST00000303745,;"	"T"	"ENSG00000107518"	"ENST00000355044"	"Transcript"	"intron_variant"	"-/8479"	"-/4140"	"-/1379"	""	""	""	"1"	NA	1	"ATRNL1"	"HGNC"	29063	"protein_coding"	"YES"	"CCDS7592.1"	"ENSP00000347152"	"Q5VV63"	""	"UPI000021CCF8"	"NM_207303.2"	""	""	""	"26/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"22884b50-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314606741573034	"WGS"	FALSE
"12973"	"PNLIPRP3"	119548	"mskcc.org"	"GRCh37"	"10"	118234789	118234789	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1173-1375C>T"	""	""	"ENST00000369230"	""	97	"71"	26	56	"56"	0	"PNLIPRP3,intron_variant,,ENST00000369230,NM_001011709.2;"	"T"	"ENSG00000203837"	"ENST00000369230"	"Transcript"	"intron_variant"	"-/2354"	"-/1404"	"-/467"	""	""	""	"1"	NA	1	"PNLIPRP3"	"HGNC"	23492	"protein_coding"	"YES"	"CCDS31292.1"	"ENSP00000358232"	"Q17RR3"	""	"UPI000013DB40"	"NM_001011709.2"	""	""	""	"10/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"22886824-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268041237113402	"WGS"	FALSE
"12974"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	120280215	120280215	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"49"	31	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"2288bbee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3875	"WGS"	FALSE
"12975"	"RAD1P1"	0	"mskcc.org"	"GRCh37"	"10"	121384439	121384439	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000231383"	""	49	"43"	6	24	"24"	0	"RAD1P1,downstream_gene_variant,,ENST00000231383,;"	"G"	"ENSG00000234569"	"ENST00000231383"	"Transcript"	"downstream_gene_variant"	"-/813"	""	""	""	""	""	"1"	"3047"	1	"RAD1P1"	"HGNC"	49479	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"2289246c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122448979591837	"WGS"	FALSE
"12976"	"INPP5F"	22876	"mskcc.org"	"GRCh37"	"10"	121506934	121506934	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.98-3654A>T"	""	""	"ENST00000361976"	""	91	"83"	8	44	"44"	0	"INPP5F,intron_variant,,ENST00000361976,NM_014937.3;INPP5F,intron_variant,,ENST00000369083,;"	"T"	"ENSG00000198825"	"ENST00000361976"	"Transcript"	"intron_variant"	"-/4925"	"-/3399"	"-/1132"	""	""	""	"1"	NA	1	"INPP5F"	"HGNC"	17054	"protein_coding"	"YES"	"CCDS7616.1"	"ENSP00000354519"	"Q9Y2H2"	""	"UPI000006FBCA"	"NM_014937.3"	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"2289313c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0879120879120879	"WGS"	FALSE
"12977"	"RP11-95I16.2"	0	"mskcc.org"	"GRCh37"	"10"	122726367	122726367	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.49+13798G>A"	""	""	"ENST00000414774"	""	83	"54"	29	52	"52"	0	"RP11-95I16.2,intron_variant,,ENST00000414774,;"	"T"	"ENSG00000227307"	"ENST00000414774"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/943"	""	""	""	""	""	"1"	NA	-1	"RP11-95I16.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"22896fda-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349397590361446	"WGS"	FALSE
"12978"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	122972611	122972611	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"59"	29	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"228974c6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329545454545455	"WGS"	FALSE
"12979"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	123461011	123461011	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"59"	32	48	"48"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"22898db2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351648351648352	"WGS"	FALSE
"12980"	"ATE1"	11101	"mskcc.org"	"GRCh37"	"10"	123688843	123688843	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000369043"	""	63	"58"	5	37	"37"	0	"ATE1,upstream_gene_variant,,ENST00000369043,NM_007041.2,NM_001288736.1,NM_001288735.1;ATE1,upstream_gene_variant,,ENST00000535655,;ATE1,upstream_gene_variant,,ENST00000224652,NM_001001976.1;ATE1,upstream_gene_variant,,ENST00000423243,;ATE1,upstream_gene_variant,,ENST00000369040,;ATE1,upstream_gene_variant,,ENST00000540606,;ATE1,upstream_gene_variant,,ENST00000543447,;ATE1,upstream_gene_variant,,ENST00000455628,;ATE1-AS1,intron_variant,,ENST00000437593,;"	"G"	"ENSG00000107669"	"ENST00000369043"	"Transcript"	"upstream_gene_variant"	"-/4900"	"-/1557"	"-/518"	""	""	""	"1"	"1292"	-1	"ATE1"	"HGNC"	782	"protein_coding"	"YES"	"CCDS31299.1"	"ENSP00000358039"	"O95260"	"B4E107"	"UPI000002A471"	"NM_007041.2,NM_001288736.1,NM_001288735.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"22899a28-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0793650793650794	"WGS"	FALSE
"12981"	"TACC2"	10579	"mskcc.org"	"GRCh37"	"10"	123785369	123785369	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.33+3840G>T"	""	""	"ENST00000369005"	""	81	"71"	10	41	"41"	0	"TACC2,intron_variant,,ENST00000369005,NM_206862.2;TACC2,intron_variant,,ENST00000334433,;TACC2,intron_variant,,ENST00000515273,;TACC2,intron_variant,,ENST00000515603,;TACC2,intron_variant,,ENST00000453444,;TACC2,intron_variant,,ENST00000513429,NM_206861.1;TACC2,intron_variant,,ENST00000358010,;TACC2,intron_variant,,ENST00000491540,;TACC2,intron_variant,,ENST00000498721,;TACC2,intron_variant,,ENST00000492689,;TACC2,downstream_gene_variant,,ENST00000474014,;TACC2,downstream_gene_variant,,ENST00000489754,;"	"T"	"ENSG00000138162"	"ENST00000369005"	"Transcript"	"intron_variant"	"-/9673"	"-/8847"	"-/2948"	""	""	""	"1"	NA	1	"TACC2"	"HGNC"	11523	"protein_coding"	"YES"	"CCDS7626.1"	"ENSP00000358001"	"O95359"	""	"UPI0000246F6B"	"NM_206862.2"	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"2289a342-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123456790123457	"WGS"	FALSE
"12982"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	124308980	124308980	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"73"	6	45	"45"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"2289c57a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"12983"	"RP11-282I1.1"	0	"mskcc.org"	"GRCh37"	"10"	125271415	125271415	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs535143408"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.747-5725C>T"	""	""	"ENST00000448347"	""	91	"63"	28	50	"50"	0	"RP11-282I1.1,intron_variant,,ENST00000448347,;"	"T"	"ENSG00000230131"	"ENST00000448347"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/831"	""	""	""	""	"rs535143408"	"1"	NA	1	"RP11-282I1.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	"T:0.0026"	"T:0.0091"	"T:0.0014"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"2289fbee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"12984"	"CPXM2"	119587	"mskcc.org"	"GRCh37"	"10"	125702665	125702665	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000368854"	""	81	"57"	24	50	"50"	0	"CPXM2,upstream_gene_variant,,ENST00000368854,;"	"A"	"ENSG00000121898"	"ENST00000368854"	"Transcript"	"upstream_gene_variant"	"-/2648"	""	""	""	""	""	"1"	"2882"	-1	"CPXM2"	"HGNC"	26977	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"228a0bac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"12985"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	126026038	126026038	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"53"	33	36	"36"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"228a1e9e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.383720930232558	"WGS"	FALSE
"12986"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	129966718	129966718	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"62"	22	38	"37"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"228b28ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261904761904762	"WGS"	FALSE
"12987"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	130181096	130181096	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"rs61864237"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"43"	6	20	"20"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs61864237"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0008"	"C:0"	"C:0"	NA	"C:0.004"	"C:0"	"C:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"228b4076-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122448979591837	"WGS"	FALSE
"12988"	"MGMT"	4255	"mskcc.org"	"GRCh37"	"10"	131538172	131538172	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.368-19294T>A"	""	""	"ENST00000306010"	""	58	"54"	4	46	"46"	0	"MGMT,intron_variant,,ENST00000306010,NM_002412.3;"	"A"	"ENSG00000170430"	"ENST00000306010"	"Transcript"	"intron_variant"	"-/1759"	"-/717"	"-/238"	""	""	""	"1"	NA	1	"MGMT"	"HGNC"	7059	"protein_coding"	"YES"	"CCDS7660.2"	"ENSP00000302111"	"P16455"	"Q6LDD1,B4DEE8"	"UPI00017A6D43"	"NM_002412.3"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"228b8770-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"12989"	"TCERG1L"	256536	"mskcc.org"	"GRCh37"	"10"	133028239	133028239	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.856+30283C>T"	""	""	"ENST00000368642"	""	82	"75"	7	51	"51"	0	"TCERG1L,intron_variant,,ENST00000368642,NM_174937.3;TCERG1L,intron_variant,,ENST00000483040,;"	"A"	"ENSG00000176769"	"ENST00000368642"	"Transcript"	"intron_variant"	"-/2618"	"-/1761"	"-/586"	""	""	""	"1"	NA	-1	"TCERG1L"	"HGNC"	23533	"protein_coding"	"YES"	"CCDS7662.2"	"ENSP00000357631"	"Q5VWI1"	""	"UPI00004589C8"	"NM_174937.3"	""	""	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"228c1686-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"12990"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	133577199	133577199	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"rs59115968"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"47"	9	26	"26"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs59115968"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"228c58e4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.160714285714286	"WGS"	FALSE
"12991"	"TTC40"	54777	"mskcc.org"	"GRCh37"	"10"	134677719	134677719	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4890+1810C>T"	""	""	"ENST00000368586"	""	40	"35"	5	16	"16"	0	"TTC40,intron_variant,,ENST00000368586,NM_001200049.2;"	"A"	"ENSG00000171811"	"ENST00000368586"	"Transcript"	"intron_variant"	"-/8278"	"-/8148"	"-/2715"	""	""	""	"1"	NA	-1	"TTC40"	"HGNC"	25247	"protein_coding"	"YES"	"CCDS58101.1"	"ENSP00000357575"	"Q8IYW2"	""	"UPI0001B79116"	"NM_001200049.2"	""	""	""	"35/57"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"228d7e2c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"12992"	"ANO9"	338440	"mskcc.org"	"GRCh37"	"11"	430821	430821	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.540-418G>A"	""	""	"ENST00000332826"	""	22	"17"	5	13	"13"	0	"ANO9,intron_variant,,ENST00000332826,NM_001012302.2;ANO9,intron_variant,,ENST00000532094,;ANO9,intron_variant,,ENST00000528927,;ANO9,upstream_gene_variant,,ENST00000526142,;ANO9,upstream_gene_variant,,ENST00000534161,;ANO9,upstream_gene_variant,,ENST00000525857,;"	"T"	"ENSG00000185101"	"ENST00000332826"	"Transcript"	"intron_variant"	"-/2542"	"-/2349"	"-/782"	""	""	""	"1"	NA	-1	"ANO9"	"HGNC"	20679	"protein_coding"	"YES"	"CCDS31326.1"	"ENSP00000332788"	"A1A5B4"	""	"UPI00001D782B"	"NM_001012302.2"	""	""	""	"7/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"228f7cf4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"12993"	"PTDSS2"	81490	"mskcc.org"	"GRCh37"	"11"	468785	468785	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.285-5110T>A"	""	""	"ENST00000308020"	""	65	"59"	6	29	"29"	0	"PTDSS2,intron_variant,,ENST00000308020,NM_030783.1;RP13-317D12.3,upstream_gene_variant,,ENST00000525893,;PTDSS2,intron_variant,,ENST00000532614,;PTDSS2,intron_variant,,ENST00000526878,;PTDSS2,intron_variant,,ENST00000531520,;PTDSS2,intron_variant,,ENST00000525727,;PTDSS2,intron_variant,,ENST00000527479,;"	"A"	"ENSG00000174915"	"ENST00000308020"	"Transcript"	"intron_variant"	"-/2445"	"-/1464"	"-/487"	""	""	""	"1"	NA	1	"PTDSS2"	"HGNC"	15463	"protein_coding"	"YES"	"CCDS7696.1"	"ENSP00000308258"	"Q9BVG9"	"E9PS47"	"UPI000004124C"	"NM_030783.1"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"228f8302-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"12994"	"LRRC56"	115399	"mskcc.org"	"GRCh37"	"11"	542981	542981	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.265+1357T>A"	""	""	"ENST00000270115"	""	69	"62"	7	42	"42"	0	"LRRC56,intron_variant,,ENST00000270115,NM_198075.3;"	"A"	"ENSG00000161328"	"ENST00000270115"	"Transcript"	"intron_variant"	"-/2769"	"-/1629"	"-/542"	""	""	""	"1"	NA	1	"LRRC56"	"HGNC"	25430	"protein_coding"	"YES"	"CCDS7700.1"	"ENSP00000270115"	"Q8IYG6"	""	"UPI000007425F"	"NM_198075.3"	""	""	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"228fa9f4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101449275362319	"WGS"	FALSE
"12995"	"TALDO1"	6888	"mskcc.org"	"GRCh37"	"11"	744620	744620	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000319006"	""	78	"70"	8	32	"32"	0	"TALDO1,upstream_gene_variant,,ENST00000319006,;TALDO1,upstream_gene_variant,,ENST00000528097,NM_006755.1;TALDO1,upstream_gene_variant,,ENST00000530119,;TALDO1,upstream_gene_variant,,ENST00000528070,;TALDO1,upstream_gene_variant,,ENST00000530440,;TALDO1,upstream_gene_variant,,ENST00000532685,;"	"A"	"ENSG00000177156"	"ENST00000319006"	"Transcript"	"upstream_gene_variant"	"-/1346"	"-/1014"	"-/337"	""	""	""	"1"	"2709"	1	"TALDO1"	"HGNC"	11559	"protein_coding"	"YES"	"CCDS7712.1"	"ENSP00000321259"	"P37837"	"Q9UMF8,B4DID5"	"UPI00001114B0"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"228fd028-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"12996"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	2063079	2063079	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"68"	6	37	"37"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"22911046-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"12997"	"OSBPL5"	114879	"mskcc.org"	"GRCh37"	"11"	3178621	3178621	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-22+7825C>T"	""	""	"ENST00000263650"	""	79	"57"	22	52	"52"	0	"OSBPL5,intron_variant,,ENST00000263650,NM_020896.3;OSBPL5,intron_variant,,ENST00000389989,NM_145638.2,NM_001144063.1;OSBPL5,intron_variant,,ENST00000348039,;OSBPL5,intron_variant,,ENST00000542243,;OSBPL5,intron_variant,,ENST00000533721,;OSBPL5,intron_variant,,ENST00000534157,;OSBPL5,intron_variant,,ENST00000530372,;OSBPL5,intron_variant,,ENST00000533234,;OSBPL5,intron_variant,,ENST00000528124,;OSBPL5,intron_variant,,ENST00000534491,;OSBPL5,intron_variant,,ENST00000471998,;OSBPL5,intron_variant,,ENST00000465323,;"	"A"	"ENSG00000021762"	"ENST00000263650"	"Transcript"	"intron_variant"	"-/3889"	"-/2640"	"-/879"	""	""	""	"1"	NA	-1	"OSBPL5"	"HGNC"	16392	"protein_coding"	"YES"	"CCDS31344.1"	"ENSP00000263650"	"Q9H0X9"	"H0YCD7,E9PQB4,E9PPQ2,E9PNH0,E9PLN3,E9PJE6,E9PIJ6"	"UPI000000D722"	"NM_020896.3"	""	""	""	"1/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"229167a8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278481012658228	"WGS"	FALSE
"12998"	"STIM1"	6786	"mskcc.org"	"GRCh37"	"11"	3873638	3873638	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000300737"	""	95	"87"	8	55	"55"	0	"STIM1,upstream_gene_variant,,ENST00000300737,NM_003156.3,NM_001277961.1,NM_001277962.1;STIM1,upstream_gene_variant,,ENST00000527651,;STIM1,upstream_gene_variant,,ENST00000525403,;MIR4687,upstream_gene_variant,,ENST00000583618,;AC090587.4,upstream_gene_variant,,ENST00000430222,;AC090587.5,downstream_gene_variant,,ENST00000415809,;"	"T"	"ENSG00000167323"	"ENST00000300737"	"Transcript"	"upstream_gene_variant"	"-/4038"	"-/2058"	"-/685"	""	""	""	"1"	"3294"	1	"STIM1"	"HGNC"	11386	"protein_coding"	"YES"	"CCDS7749.1"	"ENSP00000300737"	"Q13586"	"E9PRZ7,E9PRE4,E9PR09,E9PR07,E9PNJ4,E9PMB4,E9PJ19,E9PIQ8"	"UPI00000724B7"	"NM_003156.3,NM_001277961.1,NM_001277962.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"2291d59e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0842105263157895	"WGS"	FALSE
"12999"	"STIM1"	6786	"mskcc.org"	"GRCh37"	"11"	3917030	3917030	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.139+39391C>T"	""	""	"ENST00000300737"	""	44	"32"	12	20	"19"	1	"STIM1,intron_variant,,ENST00000300737,NM_003156.3,NM_001277961.1,NM_001277962.1;STIM1,intron_variant,,ENST00000527651,;STIM1,intron_variant,,ENST00000525403,;STIM1,intron_variant,,ENST00000532919,;STIM1,intron_variant,,ENST00000530554,;STIM1,intron_variant,,ENST00000532610,;STIM1,intron_variant,,ENST00000524822,;AC090804.1,upstream_gene_variant,,ENST00000308739,;AC090804.1,upstream_gene_variant,,ENST00000448870,;"	"T"	"ENSG00000167323"	"ENST00000300737"	"Transcript"	"intron_variant"	"-/4038"	"-/2058"	"-/685"	""	""	""	"1"	NA	1	"STIM1"	"HGNC"	11386	"protein_coding"	"YES"	"CCDS7749.1"	"ENSP00000300737"	"Q13586"	"E9PRZ7,E9PRE4,E9PR09,E9PR07,E9PNJ4,E9PMB4,E9PJ19,E9PIQ8"	"UPI00000724B7"	"NM_003156.3,NM_001277961.1,NM_001277962.1"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"2291db5c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"13000"	"STIM1"	6786	"mskcc.org"	"GRCh37"	"11"	3917034	3917034	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.139+39395C>T"	""	""	"ENST00000300737"	""	46	"33"	13	19	"18"	1	"STIM1,intron_variant,,ENST00000300737,NM_003156.3,NM_001277961.1,NM_001277962.1;STIM1,intron_variant,,ENST00000527651,;STIM1,intron_variant,,ENST00000525403,;STIM1,intron_variant,,ENST00000532919,;STIM1,intron_variant,,ENST00000530554,;STIM1,intron_variant,,ENST00000532610,;STIM1,intron_variant,,ENST00000524822,;AC090804.1,upstream_gene_variant,,ENST00000308739,;AC090804.1,upstream_gene_variant,,ENST00000448870,;"	"T"	"ENSG00000167323"	"ENST00000300737"	"Transcript"	"intron_variant"	"-/4038"	"-/2058"	"-/685"	""	""	""	"1"	NA	1	"STIM1"	"HGNC"	11386	"protein_coding"	"YES"	"CCDS7749.1"	"ENSP00000300737"	"Q13586"	"E9PRZ7,E9PRE4,E9PR09,E9PR07,E9PNJ4,E9PMB4,E9PJ19,E9PIQ8"	"UPI00000724B7"	"NM_003156.3,NM_001277961.1,NM_001277962.1"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"2291dc10-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282608695652174	"WGS"	FALSE
"13001"	"RRM1"	6240	"mskcc.org"	"GRCh37"	"11"	4146152	4146152	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"rs201598738"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1320+1538T>A"	""	""	"ENST00000300738"	""	77	"70"	7	39	"39"	0	"RRM1,intron_variant,,ENST00000300738,NM_001033.3;RRM1,intron_variant,,ENST00000423050,;RRM1,intron_variant,,ENST00000537197,;RRM1,intron_variant,,ENST00000534285,;RRM1,downstream_gene_variant,,ENST00000528470,;RRM1,downstream_gene_variant,,ENST00000526304,;RRM1,intron_variant,,ENST00000532170,;RRM1,intron_variant,,ENST00000533349,;RRM1,intron_variant,,ENST00000533495,;RRM1,intron_variant,,ENST00000531591,;RRM1,intron_variant,,ENST00000529109,;RRM1,downstream_gene_variant,,ENST00000528442,;"	"A"	"ENSG00000167325"	"ENST00000300738"	"Transcript"	"intron_variant"	"-/3076"	"-/2379"	"-/792"	""	""	"rs201598738"	"1"	NA	1	"RRM1"	"HGNC"	10451	"protein_coding"	"YES"	"CCDS7750.1"	"ENSP00000300738"	"P23921"	"F5H861,E9PL69,E9PD78,B4DNN4"	"UPI0000000C7C"	"NM_001033.3"	""	""	""	"12/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"2291e7d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"13002"	"MMP26"	56547	"mskcc.org"	"GRCh37"	"11"	4955980	4955980	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-144-53318G>T"	""	""	"ENST00000380390"	""	77	"49"	28	48	"48"	0	"MMP26,intron_variant,,ENST00000380390,;MMP26,intron_variant,,ENST00000477339,;OR51A3P,downstream_gene_variant,,ENST00000413596,;"	"T"	"ENSG00000167346"	"ENST00000380390"	"Transcript"	"intron_variant"	"-/1189"	"-/786"	"-/261"	""	""	""	"1"	NA	1	"MMP26"	"HGNC"	14249	"protein_coding"	"YES"	"CCDS7752.1"	"ENSP00000369753"	"Q9NRE1"	""	"UPI0000047AFC"	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"22922fb2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"13003"	"ZBED5"	58486	"mskcc.org"	"GRCh37"	"11"	10861982	10861982	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.76-1862T>C"	""	""	"ENST00000525350"	""	69	"56"	13	54	"54"	0	"ZBED5,intron_variant,,ENST00000525350,;"	"G"	"ENSG00000236287"	"ENST00000525350"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3677"	""	""	""	""	""	"1"	NA	-1	"ZBED5"	"HGNC"	30803	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"229360da-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188405797101449	"WGS"	FALSE
"13004"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	11071253	11071253	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"66"	34	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"22936f30-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34	"WGS"	FALSE
"13005"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	14413382	14413382	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"70"	6	40	"40"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"2293f6ee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"13006"	"SOX6"	55553	"mskcc.org"	"GRCh37"	"11"	16561234	16561234	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.143+27640T>C"	""	""	"ENST00000533658"	""	84	"75"	9	46	"46"	0	"SOX6,intron_variant,,ENST00000533658,;SOX6,intron_variant,,ENST00000524520,;SOX6,intron_variant,,ENST00000525835,;SOX6,intron_variant,,ENST00000525259,;SOX6,intron_variant,,ENST00000530378,;"	"G"	"ENSG00000110693"	"ENST00000533658"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1198"	""	""	""	""	""	"1"	NA	-1	"SOX6"	"HGNC"	16421	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"229441f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"13007"	"NUCB2"	4925	"mskcc.org"	"GRCh37"	"11"	17310607	17310607	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1+6117G>C"	""	""	"ENST00000529010"	""	68	"62"	6	33	"33"	0	"NUCB2,intron_variant,,ENST00000529010,NM_005013.2;NUCB2,intron_variant,,ENST00000323688,;NUCB2,intron_variant,,ENST00000530527,;NUCB2,intron_variant,,ENST00000529313,;NUCB2,intron_variant,,ENST00000533738,;NUCB2,intron_variant,,ENST00000528644,;NUCB2,intron_variant,,ENST00000531172,;NUCB2,intron_variant,,ENST00000533926,;NUCB2,intron_variant,,ENST00000526120,;NUCB2,intron_variant,,ENST00000530964,;NUCB2,intron_variant,,ENST00000533773,;NUCB2,intron_variant,,ENST00000533511,;"	"C"	"ENSG00000070081"	"ENST00000529010"	"Transcript"	"intron_variant"	"-/2274"	"-/1263"	"-/420"	""	""	""	"1"	NA	1	"NUCB2"	"HGNC"	8044	"protein_coding"	"YES"	"CCDS41623.1"	"ENSP00000436455"	"P80303"	"E9PRQ3,E9PM22,E9PLR5,E9PLR0,E9PLE9,E9PJP3"	"UPI000013D6B1"	"NM_005013.2"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"22947204-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"13008"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	17697577	17697577	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"52"	31	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"2294883e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373493975903614	"WGS"	FALSE
"13009"	"NAV2-AS5"	100874012	"mskcc.org"	"GRCh37"	"11"	19521454	19521454	"+"	"3'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000528726"	""	79	"48"	31	56	"56"	0	"NAV2,intron_variant,,ENST00000360655,NM_001111018.1;NAV2-AS5,downstream_gene_variant,,ENST00000528726,;NAV2-AS5,downstream_gene_variant,,ENST00000530652,;"	"A"	"ENSG00000255043"	"ENST00000528726"	"Transcript"	"downstream_gene_variant"	"-/3307"	""	""	""	""	""	"1"	"2765"	-1	"NAV2-AS5"	"HGNC"	40740	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"2294f3be-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.392405063291139	"WGS"	FALSE
"13010"	"NELL1"	4745	"mskcc.org"	"GRCh37"	"11"	20724559	20724559	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.184+24953T>C"	""	""	"ENST00000357134"	""	80	"71"	9	43	"43"	0	"NELL1,intron_variant,,ENST00000298925,NM_001288713.1;NELL1,intron_variant,,ENST00000357134,NM_201551.1,NM_006157.3;NELL1,intron_variant,,ENST00000325319,NM_001288714.1;NELL1,intron_variant,,ENST00000532434,;"	"C"	"ENSG00000165973"	"ENST00000357134"	"Transcript"	"intron_variant"	"-/3022"	"-/2433"	"-/810"	""	""	""	"1"	NA	1	"NELL1"	"HGNC"	7750	"protein_coding"	"YES"	"CCDS7855.1"	"ENSP00000349654"	"Q92832"	"K9UUD5"	"UPI000013E53D"	"NM_201551.1,NM_006157.3"	""	""	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"229521c2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1125	"WGS"	FALSE
"13011"	"NELL1"	4745	"mskcc.org"	"GRCh37"	"11"	20907357	20907357	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.603+271T>G"	""	""	"ENST00000357134"	""	79	"72"	7	48	"48"	0	"NELL1,intron_variant,,ENST00000298925,NM_001288713.1;NELL1,intron_variant,,ENST00000357134,NM_201551.1,NM_006157.3;NELL1,intron_variant,,ENST00000325319,NM_001288714.1;NELL1,intron_variant,,ENST00000532434,;NELL1,intron_variant,,ENST00000527873,;NELL1,intron_variant,,ENST00000529595,;NELL1,downstream_gene_variant,,ENST00000524738,;"	"G"	"ENSG00000165973"	"ENST00000357134"	"Transcript"	"intron_variant"	"-/3022"	"-/2433"	"-/810"	""	""	""	"1"	NA	1	"NELL1"	"HGNC"	7750	"protein_coding"	"YES"	"CCDS7855.1"	"ENSP00000349654"	"Q92832"	"K9UUD5"	"UPI000013E53D"	"NM_201551.1,NM_006157.3"	""	""	""	"5/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"22952a8c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"13012"	"CTD-2140G10.1"	0	"mskcc.org"	"GRCh37"	"11"	22510660	22510660	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.105+2801G>A"	""	""	"ENST00000532380"	""	100	"75"	25	46	"46"	0	"CTD-2140G10.1,intron_variant,,ENST00000532380,;RP11-34N19.1,upstream_gene_variant,,ENST00000531858,;"	"T"	"ENSG00000255323"	"ENST00000532380"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/421"	""	""	""	""	""	"1"	NA	-1	"CTD-2140G10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"22956448-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"13013"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	24038462	24038462	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"64"	33	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"2295a282-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34020618556701	"WGS"	FALSE
"13014"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	25834359	25834359	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"66"	26	44	"44"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"22960cf4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282608695652174	"WGS"	FALSE
"13015"	"ANO3"	63982	"mskcc.org"	"GRCh37"	"11"	26676874	26676874	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2577-798C>T"	""	""	"ENST00000256737"	""	96	"53"	43	45	"45"	0	"ANO3,intron_variant,,ENST00000256737,NM_031418.2;ANO3,intron_variant,,ENST00000537978,;ANO3,intron_variant,,ENST00000525139,;ANO3,intron_variant,,ENST00000531568,;"	"T"	"ENSG00000134343"	"ENST00000256737"	"Transcript"	"intron_variant"	"-/6642"	"-/2946"	"-/981"	""	""	""	"1"	NA	1	"ANO3"	"HGNC"	14004	"protein_coding"	"YES"	"CCDS31447.1"	"ENSP00000256737"	"Q9BYT9"	"E9PQ79,B7Z3F5,B7Z3A8"	"UPI00001F9ED8"	"NM_031418.2"	""	""	""	"24/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"22962c5c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.447916666666667	"WGS"	FALSE
"13016"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	26793034	26793034	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"47"	36	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"22962e64-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.433734939759036	"WGS"	FALSE
"13017"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	27321246	27321246	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	24	"15"	9	21	"21"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"22963e4a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WGS"	FALSE
"13018"	"RP11-587D21.4"	0	"mskcc.org"	"GRCh37"	"11"	27886240	27886240	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.147+12809G>T"	""	""	"ENST00000530663"	""	100	"64"	36	42	"42"	0	"RP11-587D21.4,intron_variant,,ENST00000530663,;"	"A"	"ENSG00000255496"	"ENST00000530663"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/358"	""	""	""	""	""	"1"	NA	-1	"RP11-587D21.4"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"22965a1a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36	"WGS"	FALSE
"13019"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	29127596	29127596	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs149940369"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"69"	26	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs149940369"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0074"	"A:0.0197"	"A:0.0072"	NA	"A:0.002"	"A:0.001"	"A:0.0031"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"2296838c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"13020"	"RP1-17K7.1"	0	"mskcc.org"	"GRCh37"	"11"	32084626	32084626	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000533832"	""	84	"52"	32	49	"49"	0	"RCN1,intron_variant,,ENST00000532942,;RCN1,intron_variant,,ENST00000530348,;RP1-17K7.1,upstream_gene_variant,,ENST00000533832,;"	"T"	"ENSG00000254627"	"ENST00000533832"	"Transcript"	"upstream_gene_variant"	"-/326"	""	""	""	""	""	"1"	"1832"	1	"RP1-17K7.1"	"Clone_based_vega_gene"	NA	"sense_intronic"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"2296ea34-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.380952380952381	"WGS"	FALSE
"13021"	"NAT10"	55226	"mskcc.org"	"GRCh37"	"11"	34143355	34143355	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.781-651T>C"	""	""	"ENST00000257829"	""	72	"64"	8	24	"24"	0	"NAT10,intron_variant,,ENST00000257829,NM_024662.2;NAT10,intron_variant,,ENST00000531159,NM_001144030.1;NAT10,intron_variant,,ENST00000527971,;"	"C"	"ENSG00000135372"	"ENST00000257829"	"Transcript"	"intron_variant"	"-/4002"	"-/3078"	"-/1025"	""	""	""	"1"	NA	1	"NAT10"	"HGNC"	29830	"protein_coding"	"YES"	"CCDS7889.1"	"ENSP00000257829"	"Q9H0A0"	"E9PJN6,E7ESU4"	"UPI000013CF8E"	"NM_024662.2"	""	""	""	"8/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"22975078-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"13022"	"ABTB2"	25841	"mskcc.org"	"GRCh37"	"11"	34315303	34315303	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.883+62945G>C"	""	""	"ENST00000435224"	""	70	"63"	7	42	"42"	0	"ABTB2,intron_variant,,ENST00000435224,NM_145804.2;ABTB2,intron_variant,,ENST00000298992,;"	"G"	"ENSG00000166016"	"ENST00000435224"	"Transcript"	"intron_variant"	"-/4902"	"-/3078"	"-/1025"	""	""	""	"1"	NA	-1	"ABTB2"	"HGNC"	23842	"protein_coding"	"YES"	"CCDS7890.2"	"ENSP00000410157"	"Q8N961"	""	"UPI0001DD21BB"	"NM_145804.2"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"22975e9c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"13023"	"PAMR1"	25891	"mskcc.org"	"GRCh37"	"11"	35491377	35491377	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.712+772G>A"	""	""	"ENST00000278360"	""	97	"67"	30	49	"49"	0	"PAMR1,intron_variant,,ENST00000378880,NM_001001991.1;PAMR1,intron_variant,,ENST00000532848,NM_001282675.1;PAMR1,intron_variant,,ENST00000278360,NM_015430.2;PAMR1,intron_variant,,ENST00000527605,;PAMR1,intron_variant,,ENST00000378878,NM_001282676.1;PAMR1,intron_variant,,ENST00000529303,;PAMR1,intron_variant,,ENST00000534803,;"	"T"	"ENSG00000149090"	"ENST00000278360"	"Transcript"	"intron_variant"	"-/2786"	"-/2214"	"-/737"	""	""	""	"1"	NA	-1	"PAMR1"	"HGNC"	24554	"protein_coding"	"YES"	"CCDS7898.1"	"ENSP00000278360"	"Q6UXH9"	"E9PQ70"	"UPI000013DB70"	"NM_015430.2"	""	""	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"229796d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309278350515464	"WGS"	FALSE
"13024"	"ENSR00000561180"	0	"mskcc.org"	"GRCh37"	"11"	35585935	35585935	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000561180"	""	105	"70"	35	59	"59"	0	""	"G"	""	"ENSR00000561180"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"22979aa6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"13025"	"TRIM44"	54765	"mskcc.org"	"GRCh37"	"11"	35774251	35774251	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1007+17258C>A"	""	""	"ENST00000299413"	""	85	"54"	31	52	"52"	0	"TRIM44,intron_variant,,ENST00000299413,NM_017583.4;TRIM44,intron_variant,,ENST00000532066,;"	"A"	"ENSG00000166326"	"ENST00000299413"	"Transcript"	"intron_variant"	"-/3182"	"-/1035"	"-/344"	""	""	""	"1"	NA	1	"TRIM44"	"HGNC"	19016	"protein_coding"	"YES"	"CCDS31461.1"	"ENSP00000299413"	"Q96DX7"	""	"UPI00000725C5"	"NM_017583.4"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"2297a028-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364705882352941	"WGS"	FALSE
"13026"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	38150004	38150004	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"57"	30	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"2297f23a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344827586206897	"WGS"	FALSE
"13027"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	39365036	39365036	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"69"	31	41	"41"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"229822be-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.31	"WGS"	FALSE
"13028"	"LRRC4C"	57689	"mskcc.org"	"GRCh37"	"11"	41198189	41198189	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-327+282792G>A"	""	""	"ENST00000530763"	""	68	"43"	25	38	"38"	0	"LRRC4C,intron_variant,,ENST00000530763,NM_020929.2;LRRC4C,intron_variant,,ENST00000528697,NM_001258419.1;LRRC4C,intron_variant,,ENST00000534577,;"	"T"	"ENSG00000148948"	"ENST00000530763"	"Transcript"	"intron_variant"	"-/2669"	"-/1923"	"-/640"	""	""	""	"1"	NA	-1	"LRRC4C"	"HGNC"	29317	"protein_coding"	""	"CCDS31464.1"	"ENSP00000434761"	"Q9HCJ2"	"E9PLP4"	"UPI000000D9A7"	"NM_020929.2"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"2298890c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.367647058823529	"WGS"	FALSE
"13029"	"CTD-2572N17.1"	0	"mskcc.org"	"GRCh37"	"11"	42239559	42239559	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.355-3023T>A"	""	""	"ENST00000527757"	""	114	"73"	41	56	"56"	0	"CTD-2572N17.1,intron_variant,,ENST00000527757,;CTD-2572N17.1,intron_variant,,ENST00000530387,;CTD-2572N17.1,intron_variant,,ENST00000525641,;"	"T"	"ENSG00000255109"	"ENST00000527757"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/546"	""	""	""	""	""	"1"	NA	-1	"CTD-2572N17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"2298a91e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.359649122807018	"WGS"	FALSE
"13030"	"CTD-2572N17.1"	0	"mskcc.org"	"GRCh37"	"11"	42275104	42275104	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.99+60G>A"	""	""	"ENST00000527757"	""	78	"69"	9	47	"47"	0	"CTD-2572N17.1,intron_variant,,ENST00000527757,;"	"T"	"ENSG00000255109"	"ENST00000527757"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/546"	""	""	""	""	""	"1"	NA	-1	"CTD-2572N17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"2298a9c8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"13031"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	44685123	44685123	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"63"	6	30	"30"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"2298f8ba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"13032"	"MADD"	8567	"mskcc.org"	"GRCh37"	"11"	47321576	47321576	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3759+3970A>G"	""	""	"ENST00000311027"	""	74	"68"	6	53	"53"	0	"MADD,intron_variant,,ENST00000342922,NM_130470.2;MADD,intron_variant,,ENST00000311027,NM_003682.3;MADD,intron_variant,,ENST00000395336,NM_130475.2;MADD,intron_variant,,ENST00000349238,NM_130473.2;MADD,intron_variant,,ENST00000402192,NM_001135943.1,NM_130476.2;MADD,intron_variant,,ENST00000407859,NM_130471.2;MADD,intron_variant,,ENST00000402799,NM_001135944.1,NM_130472.2;MADD,intron_variant,,ENST00000406482,NM_130474.2;MADD,intron_variant,,ENST00000395344,;MADD,intron_variant,,ENST00000405573,;"	"G"	"ENSG00000110514"	"ENST00000311027"	"Transcript"	"intron_variant"	"-/5990"	"-/4944"	"-/1647"	""	""	""	"1"	NA	1	"MADD"	"HGNC"	6766	"protein_coding"	"YES"	"CCDS7930.1"	"ENSP00000310933"	"Q8WXG6"	"Q7KYV8,C9K0L0,C9JM97,C9JLZ9,C9J6B0"	"UPI000013E874"	"NM_003682.3"	""	""	""	"24/35"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"2299ae5e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"13033"	"AGBL2"	79841	"mskcc.org"	"GRCh37"	"11"	47724252	47724252	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.586+1843G>A"	""	""	"ENST00000525123"	""	79	"52"	27	47	"47"	0	"AGBL2,intron_variant,,ENST00000525123,NM_024783.3;AGBL2,intron_variant,,ENST00000357610,;AGBL2,intron_variant,,ENST00000298861,;AGBL2,intron_variant,,ENST00000528244,;AGBL2,intron_variant,,ENST00000532595,;AGBL2,intron_variant,,ENST00000530577,;AGBL2,downstream_gene_variant,,ENST00000529154,;AGBL2,intron_variant,,ENST00000529712,;AGBL2,intron_variant,,ENST00000526331,;AGBL2,downstream_gene_variant,,ENST00000532835,;AGBL2,downstream_gene_variant,,ENST00000528632,;"	"T"	"ENSG00000165923"	"ENST00000525123"	"Transcript"	"intron_variant"	"-/3577"	"-/2709"	"-/902"	""	""	""	"1"	NA	-1	"AGBL2"	"HGNC"	26296	"protein_coding"	"YES"	"CCDS7944.1"	"ENSP00000435582"	"Q5U5Z8"	"E9PJH3,E9PI49"	"UPI00001A95E3"	"NM_024783.3"	""	""	""	"7/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"2299e50e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341772151898734	"WGS"	FALSE
"13034"	"RP11-707M1.1"	440040	"mskcc.org"	"GRCh37"	"11"	49827894	49827894	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1398-1313C>A"	""	""	"ENST00000527477"	""	110	"69"	41	49	"49"	0	"RP11-707M1.1,intron_variant,,ENST00000527477,;RP11-707M1.1,intron_variant,,ENST00000534201,;RP11-707M1.1,intron_variant,,ENST00000530858,;"	"A"	"ENSG00000205035"	"ENST00000527477"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2196"	""	""	""	""	""	"1"	NA	1	"RP11-707M1.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"229a83c4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.372727272727273	"WGS"	FALSE
"13035"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	50196818	50196818	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"81"	8	39	"39"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"229a9242-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"13036"	"RP11-347H15.6"	0	"mskcc.org"	"GRCh37"	"11"	50210204	50210204	"+"	"5'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000529200"	""	78	"52"	26	55	"55"	0	"RP11-347H15.6,upstream_gene_variant,,ENST00000529200,;"	"C"	"ENSG00000236919"	"ENST00000529200"	"Transcript"	"upstream_gene_variant"	"-/490"	""	""	""	""	""	"1"	"3272"	-1	"RP11-347H15.6"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"229a93aa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"13037"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	55665338	55665338	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"66"	33	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"229b6d98-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"13038"	"SERPING1"	710	"mskcc.org"	"GRCh37"	"11"	57382183	57382183	"+"	"3'UTR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*129G>C"	""	""	"ENST00000278407"	"8/8"	74	"69"	5	38	"38"	0	"SERPING1,3_prime_UTR_variant,,ENST00000403558,NM_001032295.1;SERPING1,3_prime_UTR_variant,,ENST00000278407,NM_000062.2;SERPING1,3_prime_UTR_variant,,ENST00000378324,;SERPING1,3_prime_UTR_variant,,ENST00000378323,;SERPING1,3_prime_UTR_variant,,ENST00000340687,;SERPING1,3_prime_UTR_variant,,ENST00000528996,;SERPING1,3_prime_UTR_variant,,ENST00000531797,;SERPING1,downstream_gene_variant,,ENST00000531133,;SERPING1,downstream_gene_variant,,ENST00000530113,;"	"C"	"ENSG00000149131"	"ENST00000278407"	"Transcript"	"3_prime_UTR_variant"	"1859/2002"	"-/1503"	"-/500"	""	""	""	"1"	NA	1	"SERPING1"	"HGNC"	1228	"protein_coding"	"YES"	"CCDS7962.1"	"ENSP00000278407"	"P05155"	"E9KL26,B5MCB9,B4E1H2"	"UPI000000123F"	"NM_000062.2"	""	""	"8/8"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"229bbcee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0675675675675676	"WGS"	FALSE
"13039"	"MED19"	219541	"mskcc.org"	"GRCh37"	"11"	57474071	57474071	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.218-1370A>G"	""	""	"ENST00000337672"	""	78	"71"	7	33	"33"	0	"MED19,intron_variant,,ENST00000337672,NM_153450.1;MED19,intron_variant,,ENST00000431606,;MED19,intron_variant,,ENST00000528205,;MED19,intron_variant,,ENST00000534677,;"	"C"	"ENSG00000156603"	"ENST00000337672"	"Transcript"	"intron_variant"	"-/1515"	"-/585"	"-/194"	""	""	""	"1"	NA	-1	"MED19"	"HGNC"	29600	"protein_coding"	"YES"	"CCDS7966.1"	"ENSP00000337340"	"A0JLT2"	""	"UPI00000746CC"	"NM_153450.1"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"229bcb76-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"13040"	"OR9Q1"	219956	"mskcc.org"	"GRCh37"	"11"	57934059	57934059	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-14-12844G>A"	""	""	"ENST00000335397"	""	83	"57"	26	44	"44"	0	"OR9Q1,intron_variant,,ENST00000335397,NM_001005212.3;OR5BL1P,upstream_gene_variant,,ENST00000608682,;"	"A"	"ENSG00000186509"	"ENST00000335397"	"Transcript"	"intron_variant"	"-/2488"	"-/933"	"-/310"	""	""	""	"1"	NA	1	"OR9Q1"	"HGNC"	14724	"protein_coding"	"YES"	"CCDS31543.1"	"ENSP00000334934"	"Q8NGQ5"	""	"UPI0000041B48"	"NM_001005212.3"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"229be674-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313253012048193	"WGS"	FALSE
"13041"	"ZFP91"	80829	"mskcc.org"	"GRCh37"	"11"	58350861	58350861	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.342-1468A>G"	""	""	"ENST00000316059"	""	93	"64"	29	45	"45"	0	"ZFP91,intron_variant,,ENST00000316059,NM_001197051.1,NM_053023.4;ZFP91-CNTF,intron_variant,,ENST00000389919,;"	"G"	"ENSG00000186660"	"ENST00000316059"	"Transcript"	"intron_variant"	"-/5220"	"-/1713"	"-/570"	""	""	""	"1"	NA	1	"ZFP91"	"HGNC"	14983	"protein_coding"	"YES"	"CCDS31553.1"	"ENSP00000339030"	"Q96JP5"	"B4DIN6"	"UPI0000070D45"	"NM_001197051.1,NM_053023.4"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"229bf89e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311827956989247	"WGS"	FALSE
"13042"	"OR5BR1P"	0	"mskcc.org"	"GRCh37"	"11"	59100836	59100836	"+"	"RNA"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.724C>G"	""	""	"ENST00000524992"	"1/1"	93	"86"	7	33	"33"	0	"OR5BR1P,non_coding_transcript_exon_variant,,ENST00000524992,;"	"C"	"ENSG00000255386"	"ENST00000524992"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"724/1330"	""	""	""	""	""	"1"	NA	-1	"OR5BR1P"	"HGNC"	15279	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"229c07bc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"13043"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	60323772	60323772	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	64	"59"	5	38	"38"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"229c4a9c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.078125	"WGS"	FALSE
"13044"	"RP11-855O10.3"	0	"mskcc.org"	"GRCh37"	"11"	61420643	61420643	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000542121"	""	63	"56"	7	36	"36"	0	"RP11-855O10.3,downstream_gene_variant,,ENST00000542121,;"	"G"	"ENSG00000255947"	"ENST00000542121"	"Transcript"	"downstream_gene_variant"	"-/462"	""	""	""	""	""	"1"	"1494"	-1	"RP11-855O10.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"229c9e0c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"13045"	"RP11-855O10.3"	0	"mskcc.org"	"GRCh37"	"11"	61420655	61420655	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000542121"	""	61	"53"	8	36	"36"	0	"RP11-855O10.3,downstream_gene_variant,,ENST00000542121,;"	"A"	"ENSG00000255947"	"ENST00000542121"	"Transcript"	"downstream_gene_variant"	"-/462"	""	""	""	""	""	"1"	"1482"	-1	"RP11-855O10.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"229c9eb6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131147540983607	"WGS"	FALSE
"13046"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	61431469	61431469	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"77"	8	40	"40"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"229ca17c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"13047"	"RP11-810P12.5"	100507521	"mskcc.org"	"GRCh37"	"11"	61854444	61854444	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000524942"	""	71	"63"	8	38	"38"	0	"RP11-810P12.5,upstream_gene_variant,,ENST00000524942,;"	"T"	"ENSG00000255553"	"ENST00000524942"	"Transcript"	"upstream_gene_variant"	"-/788"	""	""	""	""	""	"1"	"4788"	-1	"RP11-810P12.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"229ccca6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112676056338028	"WGS"	FALSE
"13048"	"RP11-810P12.5"	100507521	"mskcc.org"	"GRCh37"	"11"	61854449	61854449	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000524942"	""	73	"65"	8	37	"37"	0	"RP11-810P12.5,upstream_gene_variant,,ENST00000524942,;"	"G"	"ENSG00000255553"	"ENST00000524942"	"Transcript"	"upstream_gene_variant"	"-/788"	""	""	""	""	""	"1"	"4793"	-1	"RP11-810P12.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"229cce04-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10958904109589	"WGS"	FALSE
"13049"	"TTC9C"	283237	"mskcc.org"	"GRCh37"	"11"	62499663	62499663	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.238+3105T>C"	""	""	"ENST00000316461"	""	91	"80"	11	29	"29"	0	"TTC9C,intron_variant,,ENST00000513247,;TTC9C,intron_variant,,ENST00000316461,NM_173810.3;TTC9C,intron_variant,,ENST00000532583,;TTC9C,intron_variant,,ENST00000530625,;HNRNPUL2,upstream_gene_variant,,ENST00000301785,NM_001079559.2;TTC9C,intron_variant,,ENST00000294161,;HNRNPUL2-BSCL2,upstream_gene_variant,,ENST00000403734,;TTC9C,upstream_gene_variant,,ENST00000532276,;"	"C"	"ENSG00000162222"	"ENST00000316461"	"Transcript"	"intron_variant"	"-/1080"	"-/516"	"-/171"	""	""	""	"1"	NA	1	"TTC9C"	"HGNC"	28432	"protein_coding"	"YES"	"CCDS8033.1"	"ENSP00000325266"	"Q8N5M4"	"H0YDR3,E9PKV8"	"UPI0000035D9B"	"NM_173810.3"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"229d38e4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120879120879121	"WGS"	FALSE
"13050"	"TTC9C"	283237	"mskcc.org"	"GRCh37"	"11"	62501596	62501596	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.239-1258A>C"	""	""	"ENST00000316461"	""	96	"81"	15	44	"44"	0	"TTC9C,intron_variant,,ENST00000513247,;TTC9C,intron_variant,,ENST00000316461,NM_173810.3;TTC9C,intron_variant,,ENST00000532583,;TTC9C,intron_variant,,ENST00000530625,;TTC9C,intron_variant,,ENST00000294161,;TTC9C,upstream_gene_variant,,ENST00000532276,;"	"C"	"ENSG00000162222"	"ENST00000316461"	"Transcript"	"intron_variant"	"-/1080"	"-/516"	"-/171"	""	""	""	"1"	NA	1	"TTC9C"	"HGNC"	28432	"protein_coding"	"YES"	"CCDS8033.1"	"ENSP00000325266"	"Q8N5M4"	"H0YDR3,E9PKV8"	"UPI0000035D9B"	"NM_173810.3"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"229d39ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WGS"	FALSE
"13051"	"WDR74"	54663	"mskcc.org"	"GRCh37"	"11"	62613133	62613133	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000525239"	""	88	"81"	7	32	"32"	0	"WDR74,upstream_gene_variant,,ENST00000525239,;WDR74,upstream_gene_variant,,ENST00000538098,;RNU2-2P,upstream_gene_variant,,ENST00000410396,;"	"C"	"ENSG00000133316"	"ENST00000525239"	"Transcript"	"upstream_gene_variant"	"-/1736"	"-/1158"	"-/385"	""	""	""	"1"	"3852"	-1	"WDR74"	"HGNC"	25529	"protein_coding"	"YES"	"CCDS44630.1"	"ENSP00000432119"	"Q6RFH5"	"F5GYL6,E9PS41"	"UPI000013DB9A"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"229d528e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0795454545454545	"WGS"	FALSE
"13052"	"RNU6-45P"	100873759	"mskcc.org"	"GRCh37"	"11"	63735094	63735094	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384471"	""	61	"53"	8	22	"22"	0	"RNU6-45P,upstream_gene_variant,,ENST00000384471,NR_046496.1;"	"C"	"ENSG00000207200"	"ENST00000384471"	"Transcript"	"upstream_gene_variant"	"-/107"	""	""	""	""	""	"1"	"2848"	1	"RNU6-45P"	"HGNC"	34289	"snRNA"	"YES"	""	""	""	""	""	"NR_046496.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"229db8aa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131147540983607	"WGS"	FALSE
"13053"	"RP11-867G23.8"	0	"mskcc.org"	"GRCh37"	"11"	66115674	66115674	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-13+133C>G"	""	""	"ENST00000531602"	""	89	"79"	10	35	"35"	0	"RP11-867G23.8,intron_variant,,ENST00000531602,;B3GNT1,upstream_gene_variant,,ENST00000311181,NM_006876.2;BRMS1,upstream_gene_variant,,ENST00000359957,NM_015399.3;BRMS1,upstream_gene_variant,,ENST00000425825,NM_001024957.1;BRMS1,upstream_gene_variant,,ENST00000530756,;RP11-867G23.8,intron_variant,,ENST00000581155,;RP11-867G23.8,upstream_gene_variant,,ENST00000580881,;BRMS1,upstream_gene_variant,,ENST00000530238,;BRMS1,upstream_gene_variant,,ENST00000527375,;BRMS1,upstream_gene_variant,,ENST00000534617,;BRMS1,upstream_gene_variant,,ENST00000525127,;BRMS1,upstream_gene_variant,,ENST00000529544,;"	"G"	"ENSG00000255468"	"ENST00000531602"	"Transcript"	"intron_variant"	"-/613"	"-/312"	"-/103"	""	""	""	"1"	NA	1	"RP11-867G23.8"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000435142"	""	"E9PLG1"	"UPI00016377F0"	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"229ee6e4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112359550561798	"WGS"	FALSE
"13054"	"AIP"	9049	"mskcc.org"	"GRCh37"	"11"	67246227	67246227	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000279146"	""	53	"47"	6	14	"14"	0	"AIP,upstream_gene_variant,,ENST00000279146,NM_003977.2;AIP,upstream_gene_variant,,ENST00000528641,;AIP,upstream_gene_variant,,ENST00000529797,;"	"A"	"ENSG00000110711"	"ENST00000279146"	"Transcript"	"upstream_gene_variant"	"-/1221"	"-/993"	"-/330"	""	""	""	"1"	"4285"	1	"AIP"	"HGNC"	358	"protein_coding"	"YES"	"CCDS8168.1"	"ENSP00000279146"	"O00170"	"E5L4L0,B3TMT2,A8BQF1,A7YDK7,A7YDK6,A7YDK2,A7YDK1,A7KS94,A7KS93,A3RDR8"	"UPI000013DBC1"	"NM_003977.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"229f717c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113207547169811	"WGS"	FALSE
"13055"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	67632000	67632000	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"66"	7	38	"38"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"229fad9a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"13056"	"CHKA"	1119	"mskcc.org"	"GRCh37"	"11"	67846526	67846526	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.516+2345C>T"	""	""	"ENST00000265689"	""	78	"69"	9	41	"41"	0	"CHKA,intron_variant,,ENST00000265689,NM_001277.2;CHKA,intron_variant,,ENST00000356135,NM_212469.1;CHKA,intron_variant,,ENST00000531341,;CHKA,intron_variant,,ENST00000530730,;CHKA,intron_variant,,ENST00000528235,;CHKA,intron_variant,,ENST00000533910,;"	"A"	"ENSG00000110721"	"ENST00000265689"	"Transcript"	"intron_variant"	"-/2530"	"-/1374"	"-/457"	""	""	""	"1"	NA	-1	"CHKA"	"HGNC"	1937	"protein_coding"	"YES"	"CCDS8178.1"	"ENSP00000265689"	"P35790"	"E9PM06"	"UPI000013D662"	"NM_001277.2"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"229fc12c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"13057"	"LRP5"	4041	"mskcc.org"	"GRCh37"	"11"	68194698	68194698	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3637+1043C>A"	""	""	"ENST00000294304"	""	87	"58"	29	58	"58"	0	"LRP5,intron_variant,,ENST00000294304,NM_002335.2;LRP5,intron_variant,,ENST00000529993,;"	"A"	"ENSG00000162337"	"ENST00000294304"	"Transcript"	"intron_variant"	"-/5159"	"-/4848"	"-/1615"	""	""	""	"1"	NA	1	"LRP5"	"HGNC"	6697	"protein_coding"	"YES"	"CCDS8181.1"	"ENSP00000294304"	"O75197"	"E9PHY1"	"UPI0000073246"	"NM_002335.2"	""	""	""	"16/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"229fe62a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"13058"	"RP11-757G1.6"	0	"mskcc.org"	"GRCh37"	"11"	68633951	68633951	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000512200"	""	35	"31"	4	15	"15"	0	"RP11-757G1.6,upstream_gene_variant,,ENST00000512200,;"	"C"	"ENSG00000250508"	"ENST00000512200"	"Transcript"	"upstream_gene_variant"	"-/3252"	""	""	""	""	""	"1"	"4181"	1	"RP11-757G1.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"22a004d4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"13059"	"ENSR00001620332"	0	"mskcc.org"	"GRCh37"	"11"	68898634	68898634	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001620332"	""	74	"42"	32	39	"39"	0	""	"T"	""	"ENSR00001620332"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"22a0315c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.432432432432432	"WGS"	FALSE
"13060"	"AP000439.5"	0	"mskcc.org"	"GRCh37"	"11"	69283625	69283625	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.157-341T>C"	""	""	"ENST00000567742"	""	67	"46"	21	33	"33"	0	"AP000439.5,intron_variant,,ENST00000567742,;"	"C"	"ENSG00000261347"	"ENST00000567742"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/664"	""	""	""	""	""	"1"	NA	1	"AP000439.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"22a05164-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313432835820896	"WGS"	FALSE
"13061"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	69599061	69599061	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"80"	6	40	"40"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"22a07ed2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"13062"	"FCHSD2"	9873	"mskcc.org"	"GRCh37"	"11"	72604072	72604072	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.925-3082A>G"	""	""	"ENST00000409418"	""	81	"72"	9	38	"38"	0	"FCHSD2,intron_variant,,ENST00000409314,;FCHSD2,intron_variant,,ENST00000311172,;FCHSD2,intron_variant,,ENST00000409418,NM_014824.2;FCHSD2,intron_variant,,ENST00000458644,;FCHSD2,intron_variant,,ENST00000409853,;"	"C"	"ENSG00000137478"	"ENST00000409418"	"Transcript"	"intron_variant"	"-/3154"	"-/2223"	"-/740"	""	""	""	"1"	NA	-1	"FCHSD2"	"HGNC"	29114	"protein_coding"	"YES"	"CCDS8218.2"	"ENSP00000386722"	"O94868"	"C9JM66"	"UPI0000251F08"	"NM_014824.2"	""	""	""	"10/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"22a1cbde-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"13063"	"FCHSD2"	9873	"mskcc.org"	"GRCh37"	"11"	72604083	72604083	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.925-3093T>C"	""	""	"ENST00000409418"	""	80	"73"	7	34	"34"	0	"FCHSD2,intron_variant,,ENST00000409314,;FCHSD2,intron_variant,,ENST00000311172,;FCHSD2,intron_variant,,ENST00000409418,NM_014824.2;FCHSD2,intron_variant,,ENST00000458644,;FCHSD2,intron_variant,,ENST00000409853,;"	"G"	"ENSG00000137478"	"ENST00000409418"	"Transcript"	"intron_variant"	"-/3154"	"-/2223"	"-/740"	""	""	""	"1"	NA	-1	"FCHSD2"	"HGNC"	29114	"protein_coding"	"YES"	"CCDS8218.2"	"ENSP00000386722"	"O94868"	"C9JM66"	"UPI0000251F08"	"NM_014824.2"	""	""	""	"10/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"22a1cc92-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0875	"WGS"	FALSE
"13064"	"FCHSD2"	9873	"mskcc.org"	"GRCh37"	"11"	72604084	72604084	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.925-3094G>C"	""	""	"ENST00000409418"	""	82	"76"	6	34	"34"	0	"FCHSD2,intron_variant,,ENST00000409314,;FCHSD2,intron_variant,,ENST00000311172,;FCHSD2,intron_variant,,ENST00000409418,NM_014824.2;FCHSD2,intron_variant,,ENST00000458644,;FCHSD2,intron_variant,,ENST00000409853,;"	"G"	"ENSG00000137478"	"ENST00000409418"	"Transcript"	"intron_variant"	"-/3154"	"-/2223"	"-/740"	""	""	""	"1"	NA	-1	"FCHSD2"	"HGNC"	29114	"protein_coding"	"YES"	"CCDS8218.2"	"ENSP00000386722"	"O94868"	"C9JM66"	"UPI0000251F08"	"NM_014824.2"	""	""	""	"10/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"22a1cd46-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"13065"	"FAM168A"	23201	"mskcc.org"	"GRCh37"	"11"	73170168	73170168	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.70+9282T>C"	""	""	"ENST00000356467"	""	71	"65"	6	47	"47"	0	"FAM168A,intron_variant,,ENST00000064778,NM_001286050.1;FAM168A,intron_variant,,ENST00000356467,NM_015159.1;FAM168A,intron_variant,,ENST00000450446,NM_001286051.1;FAM168A,intron_variant,,ENST00000432223,;"	"G"	"ENSG00000054965"	"ENST00000356467"	"Transcript"	"intron_variant"	"-/1767"	"-/708"	"-/235"	""	""	""	"1"	NA	-1	"FAM168A"	"HGNC"	28999	"protein_coding"	"YES"	"CCDS41689.1"	"ENSP00000348852"	"Q92567"	""	"UPI00000EB9DB"	"NM_015159.1"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"22a1e204-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"13066"	"RNF169"	254225	"mskcc.org"	"GRCh37"	"11"	74483979	74483979	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.503-16692A>G"	""	""	"ENST00000299563"	""	97	"68"	29	46	"46"	0	"RNF169,intron_variant,,ENST00000299563,NM_001098638.1;"	"G"	"ENSG00000166439"	"ENST00000299563"	"Transcript"	"intron_variant"	"-/7823"	"-/2127"	"-/708"	""	""	""	"1"	NA	1	"RNF169"	"HGNC"	26961	"protein_coding"	"YES"	"CCDS41691.1"	"ENSP00000299563"	"Q8NCN4"	""	"UPI00001C1F15"	"NM_001098638.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"22a2496a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298969072164948	"WGS"	FALSE
"13067"	"RNF169"	254225	"mskcc.org"	"GRCh37"	"11"	74501533	74501533	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.576+789G>T"	""	""	"ENST00000299563"	""	89	"67"	22	58	"58"	0	"RNF169,intron_variant,,ENST00000299563,NM_001098638.1;"	"T"	"ENSG00000166439"	"ENST00000299563"	"Transcript"	"intron_variant"	"-/7823"	"-/2127"	"-/708"	""	""	""	"1"	NA	1	"RNF169"	"HGNC"	26961	"protein_coding"	"YES"	"CCDS41691.1"	"ENSP00000299563"	"Q8NCN4"	""	"UPI00001C1F15"	"NM_001098638.1"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"22a24ac8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247191011235955	"WGS"	FALSE
"13068"	"TENM4"	26011	"mskcc.org"	"GRCh37"	"11"	78825478	78825478	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-66+34277A>T"	""	""	"ENST00000278550"	""	90	"72"	18	53	"53"	0	"TENM4,intron_variant,,ENST00000278550,NM_001098816.2;TENM4,intron_variant,,ENST00000527736,;TENM4,intron_variant,,ENST00000532654,;"	"A"	"ENSG00000149256"	"ENST00000278550"	"Transcript"	"intron_variant"	"-/14000"	"-/8310"	"-/2769"	""	""	""	"1"	NA	-1	"TENM4"	"HGNC"	29945	"protein_coding"	"YES"	"CCDS44688.1"	"ENSP00000278550"	"Q6N022"	"G3CAT1"	"UPI0000DD8112"	"NM_001098816.2"	""	""	""	"4/33"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"22a34018-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"13069"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	81198873	81198873	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"68"	10	32	"32"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"22a37ae2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128205128205128	"WGS"	FALSE
"13070"	"DLG2"	1740	"mskcc.org"	"GRCh37"	"11"	84470872	84470872	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.358-225098G>T"	""	""	"ENST00000376104"	""	98	"59"	39	48	"48"	0	"DLG2,intron_variant,,ENST00000398309,NM_001364.3;DLG2,intron_variant,,ENST00000376104,NM_001142699.1;DLG2,intron_variant,,ENST00000543673,;DLG2,intron_variant,,ENST00000532653,;DLG2,intron_variant,,ENST00000524982,;DLG2,intron_variant,,ENST00000527088,;CTD-2537O9.1,intron_variant,,ENST00000534275,;DLG2,intron_variant,,ENST00000530589,;DLG2,intron_variant,,ENST00000529111,;"	"A"	"ENSG00000150672"	"ENST00000376104"	"Transcript"	"intron_variant"	"-/5139"	"-/2928"	"-/975"	""	""	""	"1"	NA	-1	"DLG2"	"HGNC"	2901	"protein_coding"	"YES"	"CCDS44690.1"	"ENSP00000365272"	"Q15700"	"F8W750,E9PQT9"	"UPI0000E59399"	"NM_001142699.1"	""	""	""	"6/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"22a3e388-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.397959183673469	"WGS"	FALSE
"13071"	"DLG2"	1740	"mskcc.org"	"GRCh37"	"11"	85293317	85293317	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.40+16384C>T"	""	""	"ENST00000376104"	""	61	"48"	13	41	"41"	0	"DLG2,intron_variant,,ENST00000376104,NM_001142699.1;DLG2,intron_variant,,ENST00000543673,;DLG2,intron_variant,,ENST00000472545,;"	"A"	"ENSG00000150672"	"ENST00000376104"	"Transcript"	"intron_variant"	"-/5139"	"-/2928"	"-/975"	""	""	""	"1"	NA	-1	"DLG2"	"HGNC"	2901	"protein_coding"	"YES"	"CCDS44690.1"	"ENSP00000365272"	"Q15700"	"F8W750,E9PQT9"	"UPI0000E59399"	"NM_001142699.1"	""	""	""	"3/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"22a3f03a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213114754098361	"WGS"	FALSE
"13072"	"RP11-736K20.5"	0	"mskcc.org"	"GRCh37"	"11"	86619592	86619592	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.870-12010C>T"	""	""	"ENST00000528660"	""	79	"53"	26	61	"61"	0	"PRSS23,intron_variant,,ENST00000533902,;RP11-736K20.5,intron_variant,,ENST00000528660,;PRSS23,intron_variant,,ENST00000531475,;PRSS23,intron_variant,,ENST00000533880,;PRSS23,intron_variant,,ENST00000532572,;PRSS23,intron_variant,,ENST00000532234,;"	"A"	"ENSG00000255471"	"ENST00000528660"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1156"	""	""	""	""	""	"1"	NA	-1	"RP11-736K20.5"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"22a42618-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329113924050633	"WGS"	FALSE
"13073"	"TMEM135"	65084	"mskcc.org"	"GRCh37"	"11"	86756086	86756086	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.141+6858T>A"	""	""	"ENST00000305494"	""	81	"75"	6	54	"54"	0	"TMEM135,intron_variant,,ENST00000340353,NM_001168724.1;TMEM135,intron_variant,,ENST00000305494,NM_022918.3;TMEM135,intron_variant,,ENST00000535167,;TMEM135,intron_variant,,ENST00000355734,;TMEM135,intron_variant,,ENST00000532959,;TMEM135,intron_variant,,ENST00000525018,;TMEM135,intron_variant,,ENST00000526733,;TMEM135,intron_variant,,ENST00000529023,;"	"A"	"ENSG00000166575"	"ENST00000305494"	"Transcript"	"intron_variant"	"-/2433"	"-/1377"	"-/458"	""	""	""	"1"	NA	1	"TMEM135"	"HGNC"	26167	"protein_coding"	"YES"	"CCDS8280.1"	"ENSP00000306344"	"Q86UB9"	"Q7Z760,F5H254,B4DKZ1"	"UPI00001FB0C7"	"NM_022918.3"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"22a43356-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"13074"	"GRM5"	2915	"mskcc.org"	"GRCh37"	"11"	88718583	88718583	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.661+61797G>T"	""	""	"ENST00000418177"	""	98	"61"	37	48	"48"	0	"GRM5,intron_variant,,ENST00000418177,;GRM5,intron_variant,,ENST00000455756,NM_000842.3;GRM5,intron_variant,,ENST00000305447,NM_001143831.2;GRM5,intron_variant,,ENST00000305432,;GRM5,intron_variant,,ENST00000393297,;GRM5,intron_variant,,ENST00000393294,;GRM5,intron_variant,,ENST00000449371,;"	"A"	"ENSG00000168959"	"ENST00000418177"	"Transcript"	"intron_variant"	"-/8023"	"-/3639"	"-/1212"	""	""	""	"1"	NA	-1	"GRM5"	"HGNC"	4597	"protein_coding"	"YES"	"CCDS44694.1"	"ENSP00000402912"	"P41594"	""	"UPI000012F081"	""	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"22a488d8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.377551020408163	"WGS"	FALSE
"13075"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	88839538	88839538	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"53"	29	56	"56"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"22a48aea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.353658536585366	"WGS"	FALSE
"13076"	"FAM76B"	143684	"mskcc.org"	"GRCh37"	"11"	95498803	95498803	"+"	"3'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000358780"	""	88	"52"	36	50	"50"	0	"FAM76B,downstream_gene_variant,,ENST00000358780,NM_144664.4;FAM76B,downstream_gene_variant,,ENST00000536839,;FAM76B,downstream_gene_variant,,ENST00000398187,;FAM76B,downstream_gene_variant,,ENST00000543641,;"	"A"	"ENSG00000077458"	"ENST00000358780"	"Transcript"	"downstream_gene_variant"	"-/3952"	"-/1020"	"-/339"	""	""	""	"1"	"3303"	-1	"FAM76B"	"HGNC"	28492	"protein_coding"	"YES"	"CCDS41700.1"	"ENSP00000351631"	"Q5HYJ3"	""	"UPI0000D62675"	"NM_144664.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"22a59782-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.409090909090909	"WGS"	FALSE
"13077"	"ENSR00000567598"	0	"mskcc.org"	"GRCh37"	"11"	97161642	97161642	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000567598"	""	106	"87"	19	41	"41"	0	""	"A"	""	"ENSR00000567598"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"22a5d6c0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179245283018868	"WGS"	FALSE
"13078"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	97253170	97253170	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"61"	33	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"22a5d81e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351063829787234	"WGS"	FALSE
"13079"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	97569751	97569751	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"68"	29	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"22a5e624-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298969072164948	"WGS"	FALSE
"13080"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	98343617	98343617	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"66"	35	63	"63"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"22a5fc04-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346534653465347	"WGS"	FALSE
"13081"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	98401370	98401370	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"67"	8	44	"44"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"22a600d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106666666666667	"WGS"	FALSE
"13082"	"MMP27"	64066	"mskcc.org"	"GRCh37"	"11"	102576511	102576511	"+"	"5'UTR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-66C>T"	""	""	"ENST00000260229"	"1/10"	92	"59"	33	47	"47"	0	"MMP27,5_prime_UTR_variant,,ENST00000260229,NM_022122.2;"	"A"	"ENSG00000137675"	"ENST00000260229"	"Transcript"	"5_prime_UTR_variant"	"27/1913"	"-/1542"	"-/513"	""	""	""	"1"	NA	-1	"MMP27"	"HGNC"	14250	"protein_coding"	"YES"	"CCDS8319.1"	"ENSP00000260229"	"Q9H306"	""	"UPI00001AE7D3"	"NM_022122.2"	""	""	"1/10"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"22a69ac4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358695652173913	"WGS"	FALSE
"13083"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	107138991	107138991	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"75"	8	38	"38"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"22a72110-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0963855421686747	"WGS"	FALSE
"13084"	"EXPH5"	23086	"mskcc.org"	"GRCh37"	"11"	108378696	108378696	"+"	"3'UTR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1568G>C"	""	""	"ENST00000265843"	"6/6"	54	"50"	4	37	"37"	0	"EXPH5,3_prime_UTR_variant,,ENST00000265843,NM_015065.2;EXPH5,3_prime_UTR_variant,,ENST00000428840,;EXPH5,3_prime_UTR_variant,,ENST00000443411,;EXPH5,downstream_gene_variant,,ENST00000525344,;EXPH5,downstream_gene_variant,,ENST00000526312,;EXPH5,downstream_gene_variant,,ENST00000533052,;"	"G"	"ENSG00000110723"	"ENST00000265843"	"Transcript"	"3_prime_UTR_variant"	"7649/10187"	"-/5970"	"-/1989"	""	""	""	"1"	NA	-1	"EXPH5"	"HGNC"	30578	"protein_coding"	"YES"	"CCDS8341.1"	"ENSP00000265843"	"Q8NEV8"	"F5GXG5,E9PPH6,E9PIT1,E9PC93,E7ENT4"	"UPI000013D692"	"NM_015065.2"	""	""	"6/6"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"22a76f8a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"13085"	"ZW10"	9183	"mskcc.org"	"GRCh37"	"11"	113649121	113649121	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000200135"	""	77	"70"	7	54	"54"	0	"ZW10,upstream_gene_variant,,ENST00000200135,NM_004724.3;CLDN25,upstream_gene_variant,,ENST00000453129,NM_001101389.1;ZW10,upstream_gene_variant,,ENST00000535142,;ZW10,upstream_gene_variant,,ENST00000538209,;"	"A"	"ENSG00000086827"	"ENST00000200135"	"Transcript"	"upstream_gene_variant"	"-/2992"	"-/2340"	"-/779"	""	""	""	"1"	"4588"	-1	"ZW10"	"HGNC"	13194	"protein_coding"	"YES"	"CCDS8363.1"	"ENSP00000200135"	"O43264"	"B4E1J7,A1A528"	"UPI000013C491"	"NM_004724.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"22a87eb6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"13086"	"USP28"	57646	"mskcc.org"	"GRCh37"	"11"	113682865	113682865	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1972+133G>A"	""	""	"ENST00000003302"	""	90	"55"	35	51	"51"	0	"USP28,intron_variant,,ENST00000003302,NM_020886.2;USP28,intron_variant,,ENST00000260188,;USP28,intron_variant,,ENST00000544967,;USP28,intron_variant,,ENST00000545540,;USP28,downstream_gene_variant,,ENST00000537706,;USP28,downstream_gene_variant,,ENST00000538475,;USP28,upstream_gene_variant,,ENST00000538224,;USP28,intron_variant,,ENST00000540438,;USP28,downstream_gene_variant,,ENST00000545608,;"	"T"	"ENSG00000048028"	"ENST00000003302"	"Transcript"	"intron_variant"	"-/4669"	"-/3234"	"-/1077"	""	""	""	"1"	NA	-1	"USP28"	"HGNC"	12625	"protein_coding"	"YES"	"CCDS31680.1"	"ENSP00000003302"	"Q96RU2"	"Q96SV4"	"UPI0000137A00"	"NM_020886.2"	""	""	""	"16/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"22a880b4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388888888888889	"WGS"	FALSE
"13087"	"ATP5L"	10632	"mskcc.org"	"GRCh37"	"11"	118282619	118282619	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000300688"	""	103	"96"	7	46	"46"	0	"ATP5L,intron_variant,,ENST00000524422,;ATP5L,downstream_gene_variant,,ENST00000300688,NM_006476.4;RP11-770J1.7,upstream_gene_variant,,ENST00000602598,;ATP5L,downstream_gene_variant,,ENST00000529770,;ATP5L,downstream_gene_variant,,ENST00000529460,;ATP5L,downstream_gene_variant,,ENST00000533172,;ATP5L,downstream_gene_variant,,ENST00000527186,;ATP5L,downstream_gene_variant,,ENST00000529790,;ATP5L,downstream_gene_variant,,ENST00000534385,;"	"G"	"ENSG00000167283"	"ENST00000300688"	"Transcript"	"downstream_gene_variant"	"-/1571"	"-/312"	"-/103"	""	""	""	"1"	"2059"	1	"ATP5L"	"HGNC"	14247	"protein_coding"	"YES"	"CCDS8397.1"	"ENSP00000300688"	"O75964"	""	"UPI000004CF5D"	"NM_006476.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"22a98d9c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0679611650485437	"WGS"	FALSE
"13088"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	121081935	121081935	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"64"	23	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"22aa7798-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264367816091954	"WGS"	FALSE
"13089"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	121649411	121649411	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"52"	31	48	"48"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"22aa8328-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373493975903614	"WGS"	FALSE
"13090"	"CLMP"	79827	"mskcc.org"	"GRCh37"	"11"	122963541	122963541	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.186+4962G>A"	""	""	"ENST00000448775"	""	69	"61"	8	38	"38"	0	"CLMP,intron_variant,,ENST00000448775,NM_024769.2;CLMP,intron_variant,,ENST00000529128,;"	"T"	"ENSG00000166250"	"ENST00000448775"	"Transcript"	"intron_variant"	"-/2610"	"-/1122"	"-/373"	""	""	""	"1"	NA	-1	"CLMP"	"HGNC"	24039	"protein_coding"	"YES"	"CCDS8441.1"	"ENSP00000405577"	"Q9H6B4"	""	"UPI0000047815"	"NM_024769.2"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"22aadc56-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115942028985507	"WGS"	FALSE
"13091"	"PANX3"	116337	"mskcc.org"	"GRCh37"	"11"	124484659	124484659	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.324+1641A>G"	""	""	"ENST00000284288"	""	55	"49"	6	23	"23"	0	"PANX3,intron_variant,,ENST00000284288,NM_052959.2;"	"G"	"ENSG00000154143"	"ENST00000284288"	"Transcript"	"intron_variant"	"-/1667"	"-/1179"	"-/392"	""	""	""	"1"	NA	1	"PANX3"	"HGNC"	20573	"protein_coding"	"YES"	"CCDS8447.1"	"ENSP00000284288"	"Q96QZ0"	""	"UPI0000131264"	"NM_052959.2"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"22ab457e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109090909090909	"WGS"	FALSE
"13092"	"FEZ1"	9638	"mskcc.org"	"GRCh37"	"11"	125324736	125324736	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.940-630A>G"	""	""	"ENST00000278919"	""	86	"77"	9	30	"30"	0	"FEZ1,intron_variant,,ENST00000278919,NM_005103.4;FEZ1,downstream_gene_variant,,ENST00000577924,;FEZ1,intron_variant,,ENST00000527350,;FEZ1,upstream_gene_variant,,ENST00000526507,;FEZ1,upstream_gene_variant,,ENST00000532778,;FEZ1,intron_variant,,ENST00000524427,;FEZ1,upstream_gene_variant,,ENST00000530096,;FEZ1,downstream_gene_variant,,ENST00000392709,;FEZ1,downstream_gene_variant,,ENST00000533294,;FEZ1,upstream_gene_variant,,ENST00000528863,;"	"C"	"ENSG00000149557"	"ENST00000278919"	"Transcript"	"intron_variant"	"-/1748"	"-/1179"	"-/392"	""	""	""	"1"	NA	-1	"FEZ1"	"HGNC"	3659	"protein_coding"	"YES"	"CCDS31716.1"	"ENSP00000278919"	"Q99689"	"E9PNH2"	"UPI000012A6FE"	"NM_005103.4"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"22ab68e2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104651162790698	"WGS"	FALSE
"13093"	"RP11-712L6.5"	0	"mskcc.org"	"GRCh37"	"11"	126168562	126168562	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs576126886"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.59-4065G>A"	""	""	"ENST00000524964"	""	101	"94"	7	58	"58"	0	"RP11-712L6.5,intron_variant,,ENST00000524964,;TIRAP,downstream_gene_variant,,ENST00000392679,;TIRAP,downstream_gene_variant,,ENST00000392680,NM_001039661.1;RP11-712L6.7,upstream_gene_variant,,ENST00000533378,;RP11-712L6.5,upstream_gene_variant,,ENST00000528876,;TIRAP,3_prime_UTR_variant,,ENST00000479770,;"	"T"	"ENSG00000255062"	"ENST00000524964"	"Transcript"	"intron_variant"	"-/416"	"-/192"	"-/63"	""	""	"rs576126886"	"1"	NA	-1	"RP11-712L6.5"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000436320"	""	"E9PPV0"	"UPI0001F77BE8"	""	""	""	""	"1/1"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"22ab95ce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0693069306930693	"WGS"	FALSE
"13094"	"AP004372.1"	0	"mskcc.org"	"GRCh37"	"11"	131752329	131752329	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.85-4331A>G"	""	""	"ENST00000419440"	""	79	"54"	25	54	"54"	0	"NTM,intron_variant,,ENST00000374791,NM_001048209.1;NTM,intron_variant,,ENST00000539799,;NTM,intron_variant,,ENST00000427481,;NTM,intron_variant,,ENST00000550167,;NTM,intron_variant,,ENST00000436745,;AP004372.1,intron_variant,,ENST00000419440,;"	"C"	"ENSG00000238117"	"ENST00000419440"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/509"	""	""	""	""	""	"1"	NA	-1	"AP004372.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"22acc890-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316455696202532	"WGS"	FALSE
"13095"	"OPCML"	4978	"mskcc.org"	"GRCh37"	"11"	133063731	133063731	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.62-250826A>G"	""	""	"ENST00000524381"	""	90	"68"	22	58	"58"	0	"OPCML,intron_variant,,ENST00000524381,NM_001012393.1;OPCML,intron_variant,,ENST00000529038,;"	"C"	"ENSG00000183715"	"ENST00000524381"	"Transcript"	"intron_variant"	"-/6424"	"-/1017"	"-/338"	""	""	""	"1"	NA	-1	"OPCML"	"HGNC"	8143	"protein_coding"	""	"CCDS31722.1"	"ENSP00000434750"	"Q14982"	"B2CZX3"	"UPI00001A9955"	"NM_001012393.1"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"22ad05e4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244444444444444	"WGS"	FALSE
"13096"	"RP11-469N6.2"	0	"mskcc.org"	"GRCh37"	"11"	134582532	134582532	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000529922"	""	66	"53"	13	42	"42"	0	"RP11-469N6.2,upstream_gene_variant,,ENST00000529922,;"	"T"	"ENSG00000255344"	"ENST00000529922"	"Transcript"	"upstream_gene_variant"	"-/455"	""	""	""	""	""	"1"	"1904"	1	"RP11-469N6.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"22ad7d26-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196969696969697	"WGS"	FALSE
"13097"	"CACNA1C"	775	"mskcc.org"	"GRCh37"	"12"	2530844	2530844	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.478-27298C>T"	""	""	"ENST00000347598"	""	87	"51"	36	48	"48"	0	"CACNA1C,intron_variant,,ENST00000399655,NM_001129834.1,NM_001129829.1,NM_000719.6;CACNA1C,intron_variant,,ENST00000399634,NM_001167625.1;CACNA1C,intron_variant,,ENST00000406454,;CACNA1C,intron_variant,,ENST00000399617,NM_001167624.1;CACNA1C,intron_variant,,ENST00000399603,NM_001167623.1;CACNA1C,intron_variant,,ENST00000335762,;CACNA1C,intron_variant,,ENST00000480911,;CACNA1C,intron_variant,,ENST00000347598,NM_199460.2,NM_001129827.1;CACNA1C,intron_variant,,ENST00000344100,;CACNA1C,intron_variant,,ENST00000327702,NM_001129830.1;CACNA1C,intron_variant,,ENST00000399638,NM_001129831.1;CACNA1C,intron_variant,,ENST00000399606,NM_001129832.1;CACNA1C,intron_variant,,ENST00000399621,;CACNA1C,intron_variant,,ENST00000399637,NM_001129835.1;CACNA1C,intron_variant,,ENST00000402845,NM_001129833.1;CACNA1C,intron_variant,,ENST00000399629,NM_001129836.1;CACNA1C,intron_variant,,ENST00000399591,NM_001129838.1,NM_001129846.1;CACNA1C,intron_variant,,ENST00000399595,NM_001129837.1;CACNA1C,intron_variant,,ENST00000399649,NM_001129839.1;CACNA1C,intron_variant,,ENST00000399597,NM_001129844.1,NM_001129842.1;CACNA1C,intron_variant,,ENST00000399601,NM_001129843.1;CACNA1C,intron_variant,,ENST00000399641,NM_001129840.1;CACNA1C,intron_variant,,ENST00000399644,NM_001129841.1;"	"T"	"ENSG00000151067"	"ENST00000347598"	"Transcript"	"intron_variant"	"-/6655"	"-/6561"	"-/2186"	""	""	""	"1"	NA	1	"CACNA1C"	"HGNC"	1390	"protein_coding"	"YES"	"CCDS44788.1"	"ENSP00000266376"	"Q13936"	"Q86XX0,O95234"	"UPI0000E593E5"	"NM_199460.2,NM_001129827.1"	""	""	""	"3/48"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"22aed0ae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.413793103448276	"WGS"	FALSE
"13098"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	3055752	3055752	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs552758039"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"74"	9	32	"32"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs552758039"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0044"	"A:0.0151"	"A:0.0029"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"22af1852-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108433734939759	"WGS"	FALSE
"13099"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	4316576	4316576	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"55"	19	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"22af6fbe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256756756756757	"WGS"	FALSE
"13100"	"CCND2-AS2"	0	"mskcc.org"	"GRCh37"	"12"	4361907	4361907	"+"	"RNA"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.489G>A"	""	""	"ENST00000537370"	"2/2"	74	"52"	22	51	"51"	0	"CCND2-AS2,non_coding_transcript_exon_variant,,ENST00000537370,;CCND2-AS1,intron_variant,,ENST00000539135,;"	"T"	"ENSG00000255920"	"ENST00000537370"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"489/495"	""	""	""	""	""	"1"	NA	-1	"CCND2-AS2"	"HGNC"	49399	"antisense"	"YES"	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"22af75f4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297297297297297	"WGS"	FALSE
"13101"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	5167050	5167050	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"63"	6	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"22af978c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"13102"	"SCNN1A"	6337	"mskcc.org"	"GRCh37"	"12"	6454181	6454181	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000360168"	""	81	"53"	28	40	"40"	0	"SCNN1A,downstream_gene_variant,,ENST00000358945,;SCNN1A,downstream_gene_variant,,ENST00000360168,NM_001159576.1;SCNN1A,downstream_gene_variant,,ENST00000228916,NM_001038.5;SCNN1A,downstream_gene_variant,,ENST00000540037,;SCNN1A,downstream_gene_variant,,ENST00000543768,NM_001159575.1;SCNN1A,downstream_gene_variant,,ENST00000396966,;TNFRSF1A,upstream_gene_variant,,ENST00000162749,NM_001065.3;TNFRSF1A,upstream_gene_variant,,ENST00000540022,;TNFRSF1A,upstream_gene_variant,,ENST00000366159,;TNFRSF1A,upstream_gene_variant,,ENST00000539372,;TNFRSF1A,upstream_gene_variant,,ENST00000440083,;TNFRSF1A,upstream_gene_variant,,ENST00000536194,;RN7SL391P,downstream_gene_variant,,ENST00000582559,;TNFRSF1A,upstream_gene_variant,,ENST00000535958,;TNFRSF1A,upstream_gene_variant,,ENST00000538363,;SCNN1A,downstream_gene_variant,,ENST00000457871,;SCNN1A,downstream_gene_variant,,ENST00000539953,;SCNN1A,downstream_gene_variant,,ENST00000338748,;TNFRSF1A,upstream_gene_variant,,ENST00000534885,;TNFRSF1A,upstream_gene_variant,,ENST00000543995,;TNFRSF1A,upstream_gene_variant,,ENST00000543048,;"	"A"	"ENSG00000111319"	"ENST00000360168"	"Transcript"	"downstream_gene_variant"	"-/3481"	"-/2187"	"-/728"	""	""	""	"1"	"1828"	-1	"SCNN1A"	"HGNC"	10599	"protein_coding"	"YES"	"CCDS53738.1"	"ENSP00000353292"	"P37088"	"Q6UP09,F5GXE6"	"UPI00001B07D7"	"NM_001159576.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGG"	"22aff1b4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.345679012345679	"WGS"	FALSE
"13103"	"NCAPD2"	9918	"mskcc.org"	"GRCh37"	"12"	6625466	6625466	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.988-528G>A"	""	""	"ENST00000315579"	""	62	"55"	7	38	"38"	0	"NCAPD2,intron_variant,,ENST00000315579,NM_014865.3;NCAPD2,intron_variant,,ENST00000545962,;NCAPD2,intron_variant,,ENST00000382457,;NCAPD2,upstream_gene_variant,,ENST00000536090,;NCAPD2,upstream_gene_variant,,ENST00000542472,;NCAPD2,intron_variant,,ENST00000539084,;NCAPD2,intron_variant,,ENST00000545732,;"	"A"	"ENSG00000010292"	"ENST00000315579"	"Transcript"	"intron_variant"	"-/5548"	"-/4206"	"-/1401"	""	""	""	"1"	NA	1	"NCAPD2"	"HGNC"	24305	"protein_coding"	"YES"	"CCDS8548.1"	"ENSP00000325017"	"Q15021"	"F5GZK7"	"UPI000013C8CA"	"NM_014865.3"	""	""	""	"9/31"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"22b00d84-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112903225806452	"WGS"	FALSE
"13104"	"RPL13P5"	283345	"mskcc.org"	"GRCh37"	"12"	6989009	6989009	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs757839706"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.394-2351G>A"	""	""	"ENST00000412023"	""	96	"88"	8	42	"42"	0	"LRRC23,intron_variant,,ENST00000433346,;SPSB2,intron_variant,,ENST00000432205,;RPL13P5,intron_variant,,ENST00000412023,;RPL13P5,intron_variant,,ENST00000421824,;LRRC23,intron_variant,,ENST00000449039,;RPL13P5,intron_variant,,ENST00000451612,;SPSB2,intron_variant,,ENST00000437851,;DSTNP2,upstream_gene_variant,,ENST00000602547,;RPL13P5,downstream_gene_variant,,ENST00000274820,;RPL13P5,upstream_gene_variant,,ENST00000441655,;"	"A"	"ENSG00000240370"	"ENST00000412023"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1438"	""	""	""	""	"rs757839706"	"1"	NA	1	"RPL13P5"	"HGNC"	30363	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"22b0409c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13105"	"GDF3"	9573	"mskcc.org"	"GRCh37"	"12"	7844040	7844040	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.269-740A>G"	""	""	"ENST00000329913"	""	98	"91"	7	35	"35"	0	"GDF3,intron_variant,,ENST00000329913,NM_020634.1;"	"C"	"ENSG00000184344"	"ENST00000329913"	"Transcript"	"intron_variant"	"-/1239"	"-/1095"	"-/364"	""	""	""	"1"	NA	-1	"GDF3"	"HGNC"	4218	"protein_coding"	"YES"	"CCDS8581.1"	"ENSP00000331745"	"Q9NR23"	""	"UPI0000049E0E"	"NM_020634.1"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"22b078b4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"13106"	"SLC2A14"	144195	"mskcc.org"	"GRCh37"	"12"	7970848	7970848	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1141-218G>C"	""	""	"ENST00000543909"	""	105	"66"	39	46	"46"	0	"SLC2A14,intron_variant,,ENST00000543909,NM_001286233.1;SLC2A14,intron_variant,,ENST00000340749,NM_001286235.1;SLC2A14,intron_variant,,ENST00000431042,NM_001286234.1;SLC2A14,intron_variant,,ENST00000396589,NM_153449.2;SLC2A14,intron_variant,,ENST00000539924,NM_001286237.1;SLC2A14,intron_variant,,ENST00000535295,;SLC2A14,intron_variant,,ENST00000542505,;SLC2A14,intron_variant,,ENST00000542546,;"	"G"	"ENSG00000173262"	"ENST00000543909"	"Transcript"	"intron_variant"	"-/4125"	"-/1563"	"-/520"	""	""	""	"1"	NA	-1	"SLC2A14"	"HGNC"	18301	"protein_coding"	"YES"	"CCDS8585.1"	"ENSP00000440480"	"Q8TDB8"	"F5H6F6,F5GXP7"	"UPI000006D325"	"NM_001286233.1"	""	""	""	"14/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"22b08f3e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.371428571428571	"WGS"	FALSE
"13107"	"A2ML1-AS1"	0	"mskcc.org"	"GRCh37"	"12"	8954221	8954221	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.287-25241T>A"	""	""	"ENST00000537288"	""	83	"78"	5	37	"37"	0	"A2ML1-AS1,intron_variant,,ENST00000537288,;"	"T"	"ENSG00000256661"	"ENST00000537288"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/452"	""	""	""	""	""	"1"	NA	-1	"A2ML1-AS1"	"HGNC"	41022	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"22b0e3f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0602409638554217	"WGS"	FALSE
"13108"	"RP11-711K1.7"	0	"mskcc.org"	"GRCh37"	"12"	11615489	11615489	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.214+23494T>G"	""	""	"ENST00000542062"	""	92	"87"	5	48	"48"	0	"RP11-711K1.7,intron_variant,,ENST00000542062,;RP11-711K1.7,intron_variant,,ENST00000538349,;RP11-711K1.7,intron_variant,,ENST00000540635,;PRB2,intron_variant,,ENST00000545829,;"	"C"	"ENSG00000255790"	"ENST00000542062"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/562"	""	""	""	""	""	"1"	NA	-1	"RP11-711K1.7"	"Clone_based_vega_gene"	NA	"sense_intronic"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"22b181d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0543478260869565	"WGS"	FALSE
"13109"	"MANSC1"	54682	"mskcc.org"	"GRCh37"	"12"	12477999	12477999	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000535902"	""	76	"66"	10	37	"37"	0	"MANSC1,downstream_gene_variant,,ENST00000535902,;MANSC1,downstream_gene_variant,,ENST00000396349,NM_018050.2;MANSC1,downstream_gene_variant,,ENST00000545735,;"	"G"	"ENSG00000111261"	"ENST00000535902"	"Transcript"	"downstream_gene_variant"	"-/2623"	"-/1296"	"-/431"	""	""	""	"1"	"4199"	-1	"MANSC1"	"HGNC"	25505	"protein_coding"	"YES"	"CCDS8648.1"	"ENSP00000438205"	"Q9H8J5"	"F5H6G8,F5H3M3"	"UPI0000049E05"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"22b1ba44-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WGS"	FALSE
"13110"	"MANSC1"	54682	"mskcc.org"	"GRCh37"	"12"	12478004	12478004	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000535902"	""	79	"71"	8	38	"38"	0	"MANSC1,downstream_gene_variant,,ENST00000535902,;MANSC1,downstream_gene_variant,,ENST00000396349,NM_018050.2;MANSC1,downstream_gene_variant,,ENST00000545735,;"	"T"	"ENSG00000111261"	"ENST00000535902"	"Transcript"	"downstream_gene_variant"	"-/2623"	"-/1296"	"-/431"	""	""	""	"1"	"4194"	-1	"MANSC1"	"HGNC"	25505	"protein_coding"	"YES"	"CCDS8648.1"	"ENSP00000438205"	"Q9H8J5"	"F5H6G8,F5H3M3"	"UPI0000049E05"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"22b1baf8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10126582278481	"WGS"	FALSE
"13111"	"RP11-239A17.1"	0	"mskcc.org"	"GRCh37"	"12"	16943603	16943603	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000539266"	""	87	"56"	31	55	"55"	0	"RP11-239A17.1,downstream_gene_variant,,ENST00000539266,;"	"T"	"ENSG00000255740"	"ENST00000539266"	"Transcript"	"downstream_gene_variant"	"-/260"	""	""	""	""	""	"1"	"2824"	1	"RP11-239A17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"22b28b0e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35632183908046	"WGS"	FALSE
"13112"	"PIK3C2G"	5288	"mskcc.org"	"GRCh37"	"12"	18712274	18712274	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3468-3363A>T"	""	""	"ENST00000266497"	""	87	"60"	27	46	"46"	0	"PIK3C2G,intron_variant,,ENST00000433979,NM_004570.4;PIK3C2G,intron_variant,,ENST00000266497,;PIK3C2G,intron_variant,,ENST00000538779,NM_001288772.1;PIK3C2G,intron_variant,,ENST00000546003,NM_001288774.1;"	"T"	"ENSG00000139144"	"ENST00000266497"	"Transcript"	"intron_variant"	"-/4754"	"-/4338"	"-/1445"	""	""	""	"1"	NA	1	"PIK3C2G"	"HGNC"	8973	"protein_coding"	""	"CCDS44839.1"	"ENSP00000266497"	"O75747"	""	"UPI000013D6EF"	""	""	""	""	"24/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"22b2c894-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"13113"	"PLEKHA5"	54477	"mskcc.org"	"GRCh37"	"12"	19526249	19526249	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*12-2216A>T"	""	""	"ENST00000429027"	""	56	"52"	4	50	"50"	0	"PLEKHA5,3_prime_UTR_variant,,ENST00000538714,NM_001143821.2;PLEKHA5,intron_variant,,ENST00000429027,NM_001256470.1;PLEKHA5,intron_variant,,ENST00000317589,;PLEKHA5,intron_variant,,ENST00000355397,;PLEKHA5,intron_variant,,ENST00000424268,;PLEKHA5,intron_variant,,ENST00000299275,NM_019012.5;PLEKHA5,intron_variant,,ENST00000359180,;PLEKHA5,intron_variant,,ENST00000543806,NM_001256787.1;PLEKHA5,intron_variant,,ENST00000539256,;PLEKHA5,intron_variant,,ENST00000538972,;"	"T"	"ENSG00000052126"	"ENST00000429027"	"Transcript"	"intron_variant"	"-/4762"	"-/3849"	"-/1282"	""	""	""	"1"	NA	1	"PLEKHA5"	"HGNC"	30036	"protein_coding"	"YES"	"CCDS58213.1"	"ENSP00000404296"	"Q9HAU0"	"F5H1X3,B4DHK5"	"UPI000204ABA8"	"NM_001256470.1"	""	""	""	"31/31"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"22b2f12a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"13114"	"AEBP2"	121536	"mskcc.org"	"GRCh37"	"12"	19560793	19560793	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17+3735A>G"	""	""	"ENST00000541908"	""	79	"72"	7	41	"41"	0	"AEBP2,intron_variant,,ENST00000541908,;AEBP2,intron_variant,,ENST00000538425,;"	"G"	"ENSG00000139154"	"ENST00000541908"	"Transcript"	"intron_variant"	"-/975"	"-/825"	"-/274"	""	""	""	"1"	NA	1	"AEBP2"	"HGNC"	24051	"protein_coding"	""	""	"ENSP00000437983"	""	"G5EA50,F5GZR7"	"UPI00002290BC"	""	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"22b2f684-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"13115"	"AEBP2"	121536	"mskcc.org"	"GRCh37"	"12"	19600366	19600366	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.671+7062A>G"	""	""	"ENST00000398864"	""	97	"66"	31	64	"64"	0	"AEBP2,intron_variant,,ENST00000266508,NM_153207.4;AEBP2,intron_variant,,ENST00000360995,NM_001267043.1;AEBP2,intron_variant,,ENST00000398864,NM_001114176.1;AEBP2,intron_variant,,ENST00000541908,;AEBP2,intron_variant,,ENST00000538425,;RNU6-254P,upstream_gene_variant,,ENST00000363377,;"	"G"	"ENSG00000139154"	"ENST00000398864"	"Transcript"	"intron_variant"	"-/2235"	"-/1554"	"-/517"	""	""	""	"1"	NA	1	"AEBP2"	"HGNC"	24051	"protein_coding"	"YES"	"CCDS44841.1"	"ENSP00000381840"	"Q6ZN18"	"G5EA50,F5GZR7"	"UPI00002290BB"	"NM_001114176.1"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"22b2fb34-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319587628865979	"WGS"	FALSE
"13116"	"AEBP2"	121536	"mskcc.org"	"GRCh37"	"12"	19732832	19732832	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.338+61785A>T"	""	""	"ENST00000512223"	""	99	"59"	40	42	"42"	0	"AEBP2,intron_variant,,ENST00000512223,;"	"T"	"ENSG00000139154"	"ENST00000512223"	"Transcript"	"intron_variant"	"-/507"	"-/393"	"-/130"	""	""	""	"1"	NA	1	"AEBP2"	"HGNC"	24051	"protein_coding"	""	""	"ENSP00000445587"	""	"H0YH08"	"UPI000204ABAD"	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"22b3053e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.404040404040404	"WGS"	FALSE
"13117"	"AEBP2"	121536	"mskcc.org"	"GRCh37"	"12"	19795178	19795178	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.339-78389G>T"	""	""	"ENST00000512223"	""	79	"49"	30	46	"46"	0	"AEBP2,intron_variant,,ENST00000512223,;"	"T"	"ENSG00000139154"	"ENST00000512223"	"Transcript"	"intron_variant"	"-/507"	"-/393"	"-/130"	""	""	""	"1"	NA	1	"AEBP2"	"HGNC"	24051	"protein_coding"	""	""	"ENSP00000445587"	""	"H0YH08"	"UPI000204ABAD"	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"22b30746-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.379746835443038	"WGS"	FALSE
"13118"	"RP11-405A12.2"	0	"mskcc.org"	"GRCh37"	"12"	20117174	20117174	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.378+19696T>A"	""	""	"ENST00000535764"	""	88	"62"	26	37	"37"	0	"RP11-405A12.2,intron_variant,,ENST00000535764,;"	"A"	"ENSG00000255910"	"ENST00000535764"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/718"	""	""	""	""	""	"1"	NA	1	"RP11-405A12.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"22b319a2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295454545454545	"WGS"	FALSE
"13119"	"RP11-664H17.1"	100506393	"mskcc.org"	"GRCh37"	"12"	20243922	20243922	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.315-7764A>C"	""	""	"ENST00000536666"	""	67	"60"	7	49	"49"	0	"RP11-664H17.1,intron_variant,,ENST00000536666,;"	"C"	"ENSG00000256287"	"ENST00000536666"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/431"	""	""	""	""	""	"1"	NA	1	"RP11-664H17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"22b3206e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104477611940299	"WGS"	FALSE
"13120"	"SOX5"	6660	"mskcc.org"	"GRCh37"	"12"	24084546	24084546	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.38+17952C>A"	""	""	"ENST00000451604"	""	92	"60"	32	47	"47"	0	"SOX5,intron_variant,,ENST00000309359,NM_006940.4,NM_152989.3;SOX5,intron_variant,,ENST00000451604,;SOX5,intron_variant,,ENST00000381381,NM_001261414.1;SOX5,intron_variant,,ENST00000537393,;SOX5,intron_variant,,ENST00000545921,NM_001261415.1;SOX5,intron_variant,,ENST00000541847,;SOX5,intron_variant,,ENST00000441133,;SOX5,intron_variant,,ENST00000538083,;SOX5,intron_variant,,ENST00000536850,;SOX5,intron_variant,,ENST00000367206,;"	"T"	"ENSG00000134532"	"ENST00000451604"	"Transcript"	"intron_variant"	"-/4261"	"-/2292"	"-/763"	""	""	""	"1"	NA	-1	"SOX5"	"HGNC"	11201	"protein_coding"	"YES"	"CCDS8699.1"	"ENSP00000398273"	"P35711"	"T2CYZ2,F5GWL1"	"UPI000007405E"	""	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"22b3b858-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347826086956522	"WGS"	FALSE
"13121"	"CASC1"	55259	"mskcc.org"	"GRCh37"	"12"	25314353	25314353	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.22-222C>T"	""	""	"ENST00000395987"	""	95	"60"	35	59	"59"	0	"CASC1,intron_variant,,ENST00000354189,NM_001082972.1;CASC1,intron_variant,,ENST00000395990,NM_001204102.1;CASC1,intron_variant,,ENST00000395987,NM_018272.3;CASC1,intron_variant,,ENST00000320267,NM_001082973.1;CASC1,intron_variant,,ENST00000537577,;CASC1,intron_variant,,ENST00000545133,NM_001204101.1;CASC1,intron_variant,,ENST00000554347,;CASC1,upstream_gene_variant,,ENST00000556006,;CASC1,intron_variant,,ENST00000557684,;CASC1,intron_variant,,ENST00000554533,;CASC1,intron_variant,,ENST00000556547,;CASC1,intron_variant,,ENST00000556467,;CASC1,intron_variant,,ENST00000555240,;"	"A"	"ENSG00000118307"	"ENST00000395987"	"Transcript"	"intron_variant"	"-/2363"	"-/2169"	"-/722"	""	""	""	"1"	NA	-1	"CASC1"	"HGNC"	29599	"protein_coding"	"YES"	"CCDS31759.2"	"ENSP00000379310"	""	"G3V3G6,F8W8F9"	"UPI00001FB7A4"	"NM_018272.3"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"22b3f296-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.368421052631579	"WGS"	FALSE
"13122"	"CASC1"	55259	"mskcc.org"	"GRCh37"	"12"	25314354	25314354	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.22-223C>T"	""	""	"ENST00000395987"	""	92	"57"	35	58	"58"	0	"CASC1,intron_variant,,ENST00000354189,NM_001082972.1;CASC1,intron_variant,,ENST00000395990,NM_001204102.1;CASC1,intron_variant,,ENST00000395987,NM_018272.3;CASC1,intron_variant,,ENST00000320267,NM_001082973.1;CASC1,intron_variant,,ENST00000537577,;CASC1,intron_variant,,ENST00000545133,NM_001204101.1;CASC1,intron_variant,,ENST00000554347,;CASC1,upstream_gene_variant,,ENST00000556006,;CASC1,intron_variant,,ENST00000557684,;CASC1,intron_variant,,ENST00000554533,;CASC1,intron_variant,,ENST00000556547,;CASC1,intron_variant,,ENST00000556467,;CASC1,intron_variant,,ENST00000555240,;"	"A"	"ENSG00000118307"	"ENST00000395987"	"Transcript"	"intron_variant"	"-/2363"	"-/2169"	"-/722"	""	""	""	"1"	NA	-1	"CASC1"	"HGNC"	29599	"protein_coding"	"YES"	"CCDS31759.2"	"ENSP00000379310"	""	"G3V3G6,F8W8F9"	"UPI00001FB7A4"	"NM_018272.3"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"22b3f354-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.380434782608696	"WGS"	FALSE
"13123"	"TSPAN11"	441631	"mskcc.org"	"GRCh37"	"12"	31085055	31085055	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-12+5116C>T"	""	""	"ENST00000261177"	""	87	"55"	32	40	"40"	0	"TSPAN11,intron_variant,,ENST00000261177,NM_001080509.2;TSPAN11,intron_variant,,ENST00000545802,;TSPAN11,intron_variant,,ENST00000546076,;TSPAN11,intron_variant,,ENST00000535215,;TSPAN11,intron_variant,,ENST00000544427,;"	"T"	"ENSG00000110900"	"ENST00000261177"	"Transcript"	"intron_variant"	"-/5505"	"-/762"	"-/253"	""	""	""	"1"	NA	1	"TSPAN11"	"HGNC"	30795	"protein_coding"	"YES"	"CCDS31765.1"	"ENSP00000261177"	"A1L157"	"F5H2P0"	"UPI00001AE7E4"	"NM_001080509.2"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"22b4b7da-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.367816091954023	"WGS"	FALSE
"13124"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	33680871	33680871	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"47"	24	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"22b5889a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.338028169014085	"WGS"	FALSE
"13125"	"SLC2A13"	114134	"mskcc.org"	"GRCh37"	"12"	40379643	40379643	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.926-34476G>C"	""	""	"ENST00000280871"	""	92	"52"	40	52	"52"	0	"SLC2A13,intron_variant,,ENST00000280871,NM_052885.3;SLC2A13,intron_variant,,ENST00000380858,;"	"G"	"ENSG00000151229"	"ENST00000280871"	"Transcript"	"intron_variant"	"-/7003"	"-/1947"	"-/648"	""	""	""	"1"	NA	-1	"SLC2A13"	"HGNC"	15956	"protein_coding"	"YES"	"CCDS8736.2"	"ENSP00000280871"	"Q96QE2"	""	"UPI000066D913"	"NM_052885.3"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"22b6d0ce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.434782608695652	"WGS"	FALSE
"13126"	"MUC19"	283463	"mskcc.org"	"GRCh37"	"12"	40789671	40789671	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-628-2010A>T"	""	""	"ENST00000454784"	""	85	"48"	37	52	"52"	0	"MUC19,intron_variant,,ENST00000454784,;MUC19,intron_variant,,ENST00000425730,;RP11-115F18.1,non_coding_transcript_exon_variant,,ENST00000552757,;"	"T"	"ENSG00000205592"	"ENST00000454784"	"Transcript"	"intron_variant"	"-/19628"	"-/10893"	"-/3630"	""	""	""	"1"	NA	1	"MUC19"	"HGNC"	14362	"protein_coding"	"YES"	""	"ENSP00000476404"	""	"C9JCE7"	"UPI0003B927DE"	""	""	""	""	"1/83"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"22b6dfe2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.435294117647059	"WGS"	FALSE
"13127"	"PPHLN1"	51535	"mskcc.org"	"GRCh37"	"12"	42698131	42698131	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.35-31554G>C"	""	""	"ENST00000549190"	""	87	"79"	8	31	"31"	0	"PPHLN1,intron_variant,,ENST00000549190,;"	"C"	"ENSG00000134283"	"ENST00000549190"	"Transcript"	"intron_variant"	"-/1777"	"-/1158"	"-/385"	""	""	""	"1"	NA	1	"PPHLN1"	"HGNC"	19369	"protein_coding"	""	""	"ENSP00000447168"	""	"F8W0Q9,F8VWU8"	"UPI0000D4D1D1"	""	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"22b7616a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"13128"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	43562960	43562960	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"63"	41	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"22b78816-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.394230769230769	"WGS"	FALSE
"13129"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	50245655	50245655	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"63"	33	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"22b8d0ae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34375	"WGS"	FALSE
"13130"	"DIP2B"	57609	"mskcc.org"	"GRCh37"	"12"	50981900	50981900	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.101-37859A>C"	""	""	"ENST00000301180"	""	114	"68"	46	49	"49"	0	"DIP2B,intron_variant,,ENST00000301180,NM_173602.2;DIP2B,intron_variant,,ENST00000549620,;"	"C"	"ENSG00000066084"	"ENST00000301180"	"Transcript"	"intron_variant"	"-/8593"	"-/4731"	"-/1576"	""	""	""	"1"	NA	1	"DIP2B"	"HGNC"	29284	"protein_coding"	"YES"	"CCDS31799.1"	"ENSP00000301180"	"Q9P265"	"Q96IB4"	"UPI0000406CA1"	"NM_173602.2"	""	""	""	"1/37"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"22b9423c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.403508771929825	"WGS"	FALSE
"13131"	"HIGD1C"	613227	"mskcc.org"	"GRCh37"	"12"	51362876	51362876	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.230-1349G>A"	""	""	"ENST00000398455"	""	59	"51"	8	32	"32"	0	"HIGD1C,intron_variant,,ENST00000398455,NM_001109619.1;"	"A"	"ENSG00000214511"	"ENST00000398455"	"Transcript"	"intron_variant"	"-/371"	"-/294"	"-/97"	""	""	""	"1"	NA	1	"HIGD1C"	"HGNC"	28044	"protein_coding"	"YES"	"CCDS44882.1"	"ENSP00000381473"	"A8MV81"	""	"UPI000045660E"	"NM_001109619.1"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"22b95722-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135593220338983	"WGS"	FALSE
"13132"	"HIGD1C"	613227	"mskcc.org"	"GRCh37"	"12"	51362891	51362891	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.230-1334T>A"	""	""	"ENST00000398455"	""	53	"47"	6	32	"32"	0	"HIGD1C,intron_variant,,ENST00000398455,NM_001109619.1;"	"A"	"ENSG00000214511"	"ENST00000398455"	"Transcript"	"intron_variant"	"-/371"	"-/294"	"-/97"	""	""	""	"1"	NA	1	"HIGD1C"	"HGNC"	28044	"protein_coding"	"YES"	"CCDS44882.1"	"ENSP00000381473"	"A8MV81"	""	"UPI000045660E"	"NM_001109619.1"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"22b9588a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113207547169811	"WGS"	FALSE
"13133"	"SLC11A2"	4891	"mskcc.org"	"GRCh37"	"12"	51424009	51424009	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000394904"	""	102	"96"	6	58	"58"	0	"SLC11A2,upstream_gene_variant,,ENST00000394904,NM_001174125.1;SLC11A2,upstream_gene_variant,,ENST00000262052,NM_001174128.1,NM_000617.2;SLC11A2,upstream_gene_variant,,ENST00000262051,NM_001174127.1,NM_001174126.1;SLC11A2,upstream_gene_variant,,ENST00000547198,;SLC11A2,upstream_gene_variant,,ENST00000541174,NM_001174129.1;SLC11A2,upstream_gene_variant,,ENST00000547688,;SLC11A2,upstream_gene_variant,,ENST00000546743,;SLC11A2,upstream_gene_variant,,ENST00000550714,;SLC11A2,upstream_gene_variant,,ENST00000547579,;SLC11A2,upstream_gene_variant,,ENST00000548193,;SLC11A2,upstream_gene_variant,,ENST00000546488,;SLC11A2,upstream_gene_variant,,ENST00000547732,;SLC11A2,upstream_gene_variant,,ENST00000550995,;SLC11A2,upstream_gene_variant,,ENST00000546636,;SLC11A2,upstream_gene_variant,,ENST00000547510,;SLC11A2,upstream_gene_variant,,ENST00000550329,;SLC11A2,upstream_gene_variant,,ENST00000549625,;"	"C"	"ENSG00000110911"	"ENST00000394904"	"Transcript"	"upstream_gene_variant"	"-/4156"	"-/1773"	"-/590"	""	""	""	"1"	"1951"	-1	"SLC11A2"	"HGNC"	10908	"protein_coding"	"YES"	"CCDS53793.1"	"ENSP00000378364"	"P49281"	"F8W1P7,F8W1F2,F8W154,F8VZL6,F8VWB0,B3KY44"	"UPI00001FC234"	"NM_001174125.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"22b96230-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"13134"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	51974037	51974037	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"68"	36	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"22b999f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"13135"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	53381751	53381751	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"55"	7	41	"41"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"22b9e700-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112903225806452	"WGS"	FALSE
"13136"	"RP11-968A15.8"	0	"mskcc.org"	"GRCh37"	"12"	54706201	54706201	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.546-32645T>C"	""	""	"ENST00000553061"	""	95	"88"	7	36	"36"	0	"COPZ1,intron_variant,,ENST00000552848,;RP11-968A15.8,intron_variant,,ENST00000553061,;COPZ1,intron_variant,,ENST00000548076,;"	"C"	"ENSG00000258344"	"ENST00000553061"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/567"	""	""	""	""	""	"1"	NA	1	"RP11-968A15.8"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"22ba77ba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"13137"	"RP11-968A15.8"	0	"mskcc.org"	"GRCh37"	"12"	54706207	54706207	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.546-32639G>A"	""	""	"ENST00000553061"	""	90	"83"	7	33	"33"	0	"COPZ1,intron_variant,,ENST00000552848,;RP11-968A15.8,intron_variant,,ENST00000553061,;COPZ1,intron_variant,,ENST00000548076,;"	"A"	"ENSG00000258344"	"ENST00000553061"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/567"	""	""	""	""	""	"1"	NA	1	"RP11-968A15.8"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"22ba786e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0777777777777778	"WGS"	FALSE
"13138"	"COPZ1"	22818	"mskcc.org"	"GRCh37"	"12"	54719979	54719979	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"rs562542246"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.18+1014A>C"	""	""	"ENST00000262061"	""	71	"65"	6	33	"33"	0	"COPZ1,intron_variant,,ENST00000262061,NM_001271736.1,NM_016057.2;COPZ1,intron_variant,,ENST00000551779,;COPZ1,intron_variant,,ENST00000549043,;COPZ1,intron_variant,,ENST00000416254,;COPZ1,intron_variant,,ENST00000455864,NM_001271734.1;COPZ1,intron_variant,,ENST00000552218,;COPZ1,intron_variant,,ENST00000548753,;COPZ1,intron_variant,,ENST00000549116,;COPZ1,intron_variant,,ENST00000552362,NM_001271735.1;COPZ1,intron_variant,,ENST00000553231,;COPZ1,intron_variant,,ENST00000552848,;RP11-968A15.8,intron_variant,,ENST00000553061,;COPZ1,intron_variant,,ENST00000548281,;COPZ1,intron_variant,,ENST00000548076,;COPZ1,intron_variant,,ENST00000550171,;COPZ1,intron_variant,,ENST00000551962,;COPZ1,intron_variant,,ENST00000553009,;COPZ1,intron_variant,,ENST00000550027,;COPZ1,intron_variant,,ENST00000551412,;"	"C"	"ENSG00000111481"	"ENST00000262061"	"Transcript"	"intron_variant"	"-/1897"	"-/534"	"-/177"	""	""	"rs562542246"	"1"	NA	1	"COPZ1"	"HGNC"	2243	"protein_coding"	"YES"	"CCDS8877.1"	"ENSP00000262061"	"P61923"	"F8VYZ4,F8VYK5,F8VXB1"	"UPI000000416D"	"NM_001271736.1,NM_016057.2"	""	""	""	"1/8"	""	"C:0.0002"	"C:0"	"C:0"	NA	"C:0"	"C:0.001"	"C:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"22ba7cec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"13139"	"COPZ1"	22818	"mskcc.org"	"GRCh37"	"12"	54719984	54719984	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.18+1019T>C"	""	""	"ENST00000262061"	""	72	"66"	6	35	"35"	0	"COPZ1,intron_variant,,ENST00000262061,NM_001271736.1,NM_016057.2;COPZ1,intron_variant,,ENST00000551779,;COPZ1,intron_variant,,ENST00000549043,;COPZ1,intron_variant,,ENST00000416254,;COPZ1,intron_variant,,ENST00000455864,NM_001271734.1;COPZ1,intron_variant,,ENST00000552218,;COPZ1,intron_variant,,ENST00000548753,;COPZ1,intron_variant,,ENST00000549116,;COPZ1,intron_variant,,ENST00000552362,NM_001271735.1;COPZ1,intron_variant,,ENST00000553231,;COPZ1,intron_variant,,ENST00000552848,;RP11-968A15.8,intron_variant,,ENST00000553061,;COPZ1,intron_variant,,ENST00000548281,;COPZ1,intron_variant,,ENST00000548076,;COPZ1,intron_variant,,ENST00000550171,;COPZ1,intron_variant,,ENST00000551962,;COPZ1,intron_variant,,ENST00000553009,;COPZ1,intron_variant,,ENST00000550027,;COPZ1,intron_variant,,ENST00000551412,;"	"C"	"ENSG00000111481"	"ENST00000262061"	"Transcript"	"intron_variant"	"-/1897"	"-/534"	"-/177"	""	""	""	"1"	NA	1	"COPZ1"	"HGNC"	2243	"protein_coding"	"YES"	"CCDS8877.1"	"ENSP00000262061"	"P61923"	"F8VYZ4,F8VYK5,F8VXB1"	"UPI000000416D"	"NM_001271736.1,NM_016057.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"22ba7da0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13140"	"ITGA5"	3678	"mskcc.org"	"GRCh37"	"12"	54804153	54804153	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.350-772T>C"	""	""	"ENST00000293379"	""	71	"65"	6	35	"35"	0	"ITGA5,intron_variant,,ENST00000293379,NM_002205.2;RP11-753H16.3,intron_variant,,ENST00000550474,;RP11-753H16.5,intron_variant,,ENST00000552785,;ITGA5,downstream_gene_variant,,ENST00000547744,;ITGA5,intron_variant,,ENST00000435631,;ITGA5,intron_variant,,ENST00000553071,;ITGA5,upstream_gene_variant,,ENST00000552564,;"	"G"	"ENSG00000161638"	"ENST00000293379"	"Transcript"	"intron_variant"	"-/4444"	"-/3150"	"-/1049"	""	""	""	"1"	NA	-1	"ITGA5"	"HGNC"	6141	"protein_coding"	"YES"	"CCDS8880.1"	"ENSP00000293379"	"P08648"	""	"UPI000012D9F3"	"NM_002205.2"	""	""	""	"2/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"22ba8b06-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"13141"	"ITGA5"	3678	"mskcc.org"	"GRCh37"	"12"	54804155	54804155	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.350-774C>T"	""	""	"ENST00000293379"	""	76	"69"	7	37	"37"	0	"ITGA5,intron_variant,,ENST00000293379,NM_002205.2;RP11-753H16.3,intron_variant,,ENST00000550474,;RP11-753H16.5,intron_variant,,ENST00000552785,;ITGA5,downstream_gene_variant,,ENST00000547744,;ITGA5,intron_variant,,ENST00000435631,;ITGA5,intron_variant,,ENST00000553071,;ITGA5,upstream_gene_variant,,ENST00000552564,;"	"A"	"ENSG00000161638"	"ENST00000293379"	"Transcript"	"intron_variant"	"-/4444"	"-/3150"	"-/1049"	""	""	""	"1"	NA	-1	"ITGA5"	"HGNC"	6141	"protein_coding"	"YES"	"CCDS8880.1"	"ENSP00000293379"	"P08648"	""	"UPI000012D9F3"	"NM_002205.2"	""	""	""	"2/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"22ba8bba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"13142"	"ITGA5"	3678	"mskcc.org"	"GRCh37"	"12"	54804168	54804168	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.350-787A>G"	""	""	"ENST00000293379"	""	82	"75"	7	37	"37"	0	"ITGA5,intron_variant,,ENST00000293379,NM_002205.2;RP11-753H16.3,intron_variant,,ENST00000550474,;RP11-753H16.5,intron_variant,,ENST00000552785,;ITGA5,downstream_gene_variant,,ENST00000547744,;ITGA5,intron_variant,,ENST00000435631,;ITGA5,intron_variant,,ENST00000553071,;ITGA5,upstream_gene_variant,,ENST00000552564,;"	"C"	"ENSG00000161638"	"ENST00000293379"	"Transcript"	"intron_variant"	"-/4444"	"-/3150"	"-/1049"	""	""	""	"1"	NA	-1	"ITGA5"	"HGNC"	6141	"protein_coding"	"YES"	"CCDS8880.1"	"ENSP00000293379"	"P08648"	""	"UPI000012D9F3"	"NM_002205.2"	""	""	""	"2/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"22ba8c78-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"13143"	"GTSF1"	121355	"mskcc.org"	"GRCh37"	"12"	54844759	54844759	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000552397"	""	83	"77"	6	37	"37"	0	"GTSF1,downstream_gene_variant,,ENST00000552397,;GTSF1,downstream_gene_variant,,ENST00000305879,NM_144594.2;RP11-753H16.3,intron_variant,,ENST00000550474,;RP11-753H16.5,intron_variant,,ENST00000552785,;GTSF1,downstream_gene_variant,,ENST00000552395,;GTSF1,downstream_gene_variant,,ENST00000552336,;GTSF1,downstream_gene_variant,,ENST00000546931,;"	"A"	"ENSG00000170627"	"ENST00000552397"	"Transcript"	"downstream_gene_variant"	"-/1621"	"-/504"	"-/167"	""	""	""	"1"	"4979"	-1	"GTSF1"	"HGNC"	26565	"protein_coding"	"YES"	"CCDS8881.1"	"ENSP00000446485"	"Q8WW33"	""	"UPI0000169CBC"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"22ba90ec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"13144"	"OR6C3"	254786	"mskcc.org"	"GRCh37"	"12"	55724405	55724405	"+"	"5'Flank"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000379667"	""	89	"56"	33	49	"49"	0	"OR6C3,upstream_gene_variant,,ENST00000379667,NM_054104.1;"	"G"	"ENSG00000205329"	"ENST00000379667"	"Transcript"	"upstream_gene_variant"	"-/936"	"-/936"	"-/311"	""	""	""	"1"	"1080"	1	"OR6C3"	"HGNC"	15437	"protein_coding"	"YES"	"CCDS31819.1"	"ENSP00000368989"	"Q9NZP0"	""	"UPI000016150E"	"NM_054104.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"22baad5c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.370786516853933	"WGS"	FALSE
"13145"	"RP11-110A12.2"	0	"mskcc.org"	"GRCh37"	"12"	55833573	55833573	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.179-4658C>A"	""	""	"ENST00000556750"	""	101	"61"	40	51	"51"	0	"RP11-110A12.2,intron_variant,,ENST00000556750,;RP11-110A12.2,intron_variant,,ENST00000555146,;RP11-110A12.2,intron_variant,,ENST00000554049,;RP11-110A12.2,intron_variant,,ENST00000555138,;"	"T"	"ENSG00000258763"	"ENST00000556750"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/555"	""	""	""	""	""	"1"	NA	-1	"RP11-110A12.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"22bab270-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.396039603960396	"WGS"	FALSE
"13146"	"CS"	1431	"mskcc.org"	"GRCh37"	"12"	56681630	56681630	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs561106480"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.43-1201G>A"	""	""	"ENST00000351328"	""	72	"46"	26	42	"42"	0	"CS,intron_variant,,ENST00000548567,;CS,intron_variant,,ENST00000351328,NM_004077.2;CS,intron_variant,,ENST00000542324,;RP11-977G19.10,intron_variant,,ENST00000549318,;CS,intron_variant,,ENST00000551137,;CS,intron_variant,,ENST00000551473,;CS,intron_variant,,ENST00000551430,;CS,intron_variant,,ENST00000550734,;CS,intron_variant,,ENST00000551936,;CS,intron_variant,,ENST00000551253,;CS,intron_variant,,ENST00000547298,;CS,intron_variant,,ENST00000550159,;CS,intron_variant,,ENST00000550655,;CS,intron_variant,,ENST00000552688,;CS,intron_variant,,ENST00000546930,;RP11-977G19.10,intron_variant,,ENST00000547423,;CS,intron_variant,,ENST00000548041,;CS,intron_variant,,ENST00000549221,;CS,intron_variant,,ENST00000551968,;CS,intron_variant,,ENST00000549143,;CS,intron_variant,,ENST00000548849,;CS,intron_variant,,ENST00000550996,;CS,intron_variant,,ENST00000551441,;CS,intron_variant,,ENST00000550700,;CS,intron_variant,,ENST00000551155,;CS,intron_variant,,ENST00000547283,;CS,intron_variant,,ENST00000552222,;CS,intron_variant,,ENST00000550044,;CS,upstream_gene_variant,,ENST00000546621,;CS,upstream_gene_variant,,ENST00000546891,;CS,upstream_gene_variant,,ENST00000547912,;CS,upstream_gene_variant,,ENST00000547449,;"	"T"	"ENSG00000062485"	"ENST00000351328"	"Transcript"	"intron_variant"	"-/2975"	"-/1401"	"-/466"	""	""	"rs561106480"	"1"	NA	-1	"CS"	"HGNC"	2422	"protein_coding"	"YES"	"CCDS8913.1"	"ENSP00000342056"	"O75390"	"Q0QEL2,F8W642,F8W4S1,F8VZK9,F8VX68,F8VX07,F8VRP1,F8VPF9,F8VPA1"	"UPI00000700D6"	"NM_004077.2"	""	""	""	"1/10"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"22bb0ad6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.361111111111111	"WGS"	FALSE
"13147"	"BAZ2A"	11176	"mskcc.org"	"GRCh37"	"12"	57002485	57002485	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2098+1035G>C"	""	""	"ENST00000551812"	""	67	"60"	7	42	"42"	0	"BAZ2A,intron_variant,,ENST00000179765,;BAZ2A,intron_variant,,ENST00000379441,;BAZ2A,intron_variant,,ENST00000551812,NM_013449.3;BAZ2A,intron_variant,,ENST00000549884,;BAZ2A,intron_variant,,ENST00000547650,;BAZ2A,downstream_gene_variant,,ENST00000551996,;BAZ2A,intron_variant,,ENST00000549763,;BAZ2A,downstream_gene_variant,,ENST00000547647,;BAZ2A,downstream_gene_variant,,ENST00000549327,;BAZ2A,upstream_gene_variant,,ENST00000548578,;BAZ2A,upstream_gene_variant,,ENST00000551759,;"	"G"	"ENSG00000076108"	"ENST00000551812"	"Transcript"	"intron_variant"	"-/8600"	"-/5718"	"-/1905"	""	""	""	"1"	NA	-1	"BAZ2A"	"HGNC"	962	"protein_coding"	"YES"	"CCDS44924.1"	"ENSP00000446880"	"Q9UIF9"	"F8W053,F8VWQ3,F8VU39"	"UPI0000D4FED1"	"NM_013449.3"	""	""	""	"10/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"22bb5716-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104477611940299	"WGS"	FALSE
"13148"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	57049005	57049005	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"64"	6	37	"37"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"22bb5a4a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"13149"	"PTGES3"	10728	"mskcc.org"	"GRCh37"	"12"	57085355	57085355	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000262033"	""	58	"53"	5	38	"38"	0	"PTGES3,upstream_gene_variant,,ENST00000262033,NM_006601.5;PTGES3,upstream_gene_variant,,ENST00000414274,NM_001282602.1;PTGES3,upstream_gene_variant,,ENST00000448157,NM_001282601.1;PTGES3,upstream_gene_variant,,ENST00000456859,;PTGES3,upstream_gene_variant,,ENST00000436399,NM_001282603.1;PTGES3,upstream_gene_variant,,ENST00000537473,;"	"G"	"ENSG00000110958"	"ENST00000262033"	"Transcript"	"upstream_gene_variant"	"-/1920"	"-/483"	"-/160"	""	""	""	"1"	"3271"	-1	"PTGES3"	"HGNC"	16049	"protein_coding"	"YES"	"CCDS31836.1"	"ENSP00000262033"	"Q15185"	""	"UPI0000052BAE"	"NM_006601.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"22bb61f2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0862068965517241	"WGS"	FALSE
"13150"	"PTGES3"	10728	"mskcc.org"	"GRCh37"	"12"	57085359	57085359	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000262033"	""	58	"52"	6	37	"37"	0	"PTGES3,upstream_gene_variant,,ENST00000262033,NM_006601.5;PTGES3,upstream_gene_variant,,ENST00000414274,NM_001282602.1;PTGES3,upstream_gene_variant,,ENST00000448157,NM_001282601.1;PTGES3,upstream_gene_variant,,ENST00000456859,;PTGES3,upstream_gene_variant,,ENST00000436399,NM_001282603.1;PTGES3,upstream_gene_variant,,ENST00000537473,;"	"T"	"ENSG00000110958"	"ENST00000262033"	"Transcript"	"upstream_gene_variant"	"-/1920"	"-/483"	"-/160"	""	""	""	"1"	"3275"	-1	"PTGES3"	"HGNC"	16049	"protein_coding"	"YES"	"CCDS31836.1"	"ENSP00000262033"	"Q15185"	""	"UPI0000052BAE"	"NM_006601.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"22bb629c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"13151"	"NACA"	4666	"mskcc.org"	"GRCh37"	"12"	57112315	57112315	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1864+1006C>T"	""	""	"ENST00000550952"	""	42	"37"	5	22	"22"	0	"NACA,missense_variant,p.Pro1000Leu,ENST00000454682,NM_001113203.2;NACA,intron_variant,,ENST00000550952,;NACA,intron_variant,,ENST00000356769,NM_001113202.1;NACA,intron_variant,,ENST00000552540,;NACA,intron_variant,,ENST00000393891,;NACA,intron_variant,,ENST00000548563,;NACA,intron_variant,,ENST00000546392,;NACA,intron_variant,,ENST00000550920,;NACA,intron_variant,,ENST00000549855,;NACA,intron_variant,,ENST00000549259,;NACA,intron_variant,,ENST00000552055,;NACA,intron_variant,,ENST00000546862,;NACA,intron_variant,,ENST00000551793,;NACA,intron_variant,,ENST00000551775,;NACA,upstream_gene_variant,,ENST00000548386,;NACA,upstream_gene_variant,,ENST00000550343,;NACA,intron_variant,,ENST00000551520,;NACA,intron_variant,,ENST00000547914,;NACA,intron_variant,,ENST00000548084,;"	"A"	"ENSG00000196531"	"ENST00000550952"	"Transcript"	"intron_variant"	"-/2922"	"-/2778"	"-/925"	""	""	""	"1"	NA	-1	"NACA"	"HGNC"	7629	"protein_coding"	"YES"	"CCDS44925.2"	"ENSP00000448035"	""	"F8W1N5,F8VZJ2"	"UPI000014145D"	""	""	""	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"22bb7142-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.119047619047619	"WGS"	TRUE
"13152"	"KIF5A"	3798	"mskcc.org"	"GRCh37"	"12"	57949564	57949564	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.129+5381C>T"	""	""	"ENST00000455537"	""	70	"64"	6	34	"34"	0	"KIF5A,intron_variant,,ENST00000455537,NM_004984.2;KIF5A,intron_variant,,ENST00000286452,;"	"T"	"ENSG00000155980"	"ENST00000455537"	"Transcript"	"intron_variant"	"-/5824"	"-/3099"	"-/1032"	""	""	""	"1"	NA	1	"KIF5A"	"HGNC"	6323	"protein_coding"	"YES"	"CCDS8945.1"	"ENSP00000408979"	"Q12840"	""	"UPI000013DE4C"	"NM_004984.2"	""	""	""	"1/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"22bbd272-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"13153"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	60534281	60534281	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"72"	6	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"22bc425c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"13154"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	60781164	60781164	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"37"	33	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"22bc45cc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.471428571428571	"WGS"	FALSE
"13155"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	61457493	61457493	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"57"	26	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"22bc5b52-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313253012048193	"WGS"	FALSE
"13156"	"USP15"	9958	"mskcc.org"	"GRCh37"	"12"	62771785	62771785	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.916-3486T>C"	""	""	"ENST00000280377"	""	93	"85"	8	35	"35"	0	"USP15,intron_variant,,ENST00000280377,NM_001252078.1;USP15,intron_variant,,ENST00000353364,NM_006313.2;USP15,intron_variant,,ENST00000393654,;USP15,intron_variant,,ENST00000547317,;USP15,intron_variant,,ENST00000549268,;"	"C"	"ENSG00000135655"	"ENST00000280377"	"Transcript"	"intron_variant"	"-/4748"	"-/2946"	"-/981"	""	""	""	"1"	NA	1	"USP15"	"HGNC"	12613	"protein_coding"	"YES"	"CCDS58251.1"	"ENSP00000280377"	"Q9Y4E8"	"F8VZG8,F8VVY7"	"UPI00001379F8"	"NM_001252078.1"	""	""	""	"8/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"22bc8d70-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0860215053763441	"WGS"	FALSE
"13157"	"PPM1H"	57460	"mskcc.org"	"GRCh37"	"12"	63332396	63332396	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000228705"	""	52	"47"	5	35	"35"	0	"PPM1H,upstream_gene_variant,,ENST00000228705,NM_020700.1;Y_RNA,downstream_gene_variant,,ENST00000516851,;PPM1H,upstream_gene_variant,,ENST00000548414,;"	"G"	"ENSG00000111110"	"ENST00000228705"	"Transcript"	"upstream_gene_variant"	"-/6353"	"-/1545"	"-/514"	""	""	""	"1"	"3579"	-1	"PPM1H"	"HGNC"	18583	"protein_coding"	"YES"	"CCDS44934.1"	"ENSP00000228705"	"Q9ULR3"	""	"UPI00000557DD"	"NM_020700.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"22bc9f5e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0961538461538462	"WGS"	FALSE
"13158"	"RP11-766N7.3"	400046	"mskcc.org"	"GRCh37"	"12"	65308054	65308054	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.594+13576T>G"	""	""	"ENST00000535058"	""	75	"66"	9	37	"37"	0	"RP11-766N7.3,intron_variant,,ENST00000535058,;RP11-766N7.3,intron_variant,,ENST00000540024,;"	"G"	"ENSG00000255693"	"ENST00000535058"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3546"	""	""	""	""	""	"1"	NA	1	"RP11-766N7.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"22bd0aca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"13159"	"MSRB3"	253827	"mskcc.org"	"GRCh37"	"12"	65791458	65791458	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.313+28652A>C"	""	""	"ENST00000355192"	""	91	"83"	8	59	"59"	0	"MSRB3,intron_variant,,ENST00000308259,NM_001193460.1,NM_001031679.2;MSRB3,intron_variant,,ENST00000355192,NM_198080.3;MSRB3,intron_variant,,ENST00000535664,;MSRB3,intron_variant,,ENST00000540804,;MSRB3,intron_variant,,ENST00000535239,NM_001193461.1;MSRB3,intron_variant,,ENST00000541189,;MSRB3,intron_variant,,ENST00000538045,;MSRB3,intron_variant,,ENST00000446731,;MSRB3,intron_variant,,ENST00000535143,;MSRB3,intron_variant,,ENST00000541897,;"	"C"	"ENSG00000174099"	"ENST00000355192"	"Transcript"	"intron_variant"	"-/4289"	"-/579"	"-/192"	""	""	""	"1"	NA	1	"MSRB3"	"HGNC"	27375	"protein_coding"	"YES"	"CCDS8973.1"	"ENSP00000347324"	"Q8IXL7"	"Q6MZU8"	"UPI0000051E32"	"NM_198080.3"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"22bd1646-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0879120879120879	"WGS"	FALSE
"13160"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	68221519	68221519	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"70"	40	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"22bd6506-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"13161"	"AC139931.1"	0	"mskcc.org"	"GRCh37"	"12"	69510646	69510646	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516738"	""	71	"66"	5	26	"26"	0	"AC139931.1,downstream_gene_variant,,ENST00000516738,;"	"C"	"ENSG00000252547"	"ENST00000516738"	"Transcript"	"downstream_gene_variant"	"-/85"	""	""	""	""	""	"1"	"702"	-1	"AC139931.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"22bdadfe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0704225352112676	"WGS"	FALSE
"13162"	"RP11-611E13.2"	101928086	"mskcc.org"	"GRCh37"	"12"	70493302	70493302	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.144+143275G>A"	""	""	"ENST00000549419"	""	108	"82"	26	53	"53"	0	"RP11-611E13.2,intron_variant,,ENST00000549419,;"	"T"	"ENSG00000257815"	"ENST00000549419"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/531"	""	""	""	""	""	"1"	NA	-1	"RP11-611E13.2"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"22bde454-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240740740740741	"WGS"	FALSE
"13163"	"TPH2"	121278	"mskcc.org"	"GRCh37"	"12"	72434280	72434280	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.120+9109G>A"	""	""	"ENST00000550403"	""	113	"74"	39	50	"50"	0	"TPH2,intron_variant,,ENST00000550403,;TPH2,intron_variant,,ENST00000547348,;TPH2,intron_variant,,ENST00000547278,;TPH2,intron_variant,,ENST00000551074,;"	"A"	"ENSG00000139287"	"ENST00000550403"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1111"	""	""	""	""	""	"1"	NA	1	"TPH2"	"HGNC"	20692	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"22be37ce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.345132743362832	"WGS"	FALSE
"13164"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	73224237	73224237	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"60"	31	44	"43"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"22be4930-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340659340659341	"WGS"	FALSE
"13165"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	74017052	74017052	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"87"	17	63	"63"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"22be69c4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163461538461538	"WGS"	FALSE
"13166"	"ZDHHC17"	23390	"mskcc.org"	"GRCh37"	"12"	77217906	77217906	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.897+1595C>T"	""	""	"ENST00000426126"	""	96	"63"	33	44	"43"	1	"ZDHHC17,intron_variant,,ENST00000426126,NM_015336.2;ZDHHC17,intron_variant,,ENST00000334822,;ZDHHC17,intron_variant,,ENST00000550876,;ZDHHC17,downstream_gene_variant,,ENST00000359019,;ZDHHC17,intron_variant,,ENST00000546778,;ZDHHC17,intron_variant,,ENST00000552453,;ZDHHC17,downstream_gene_variant,,ENST00000549944,;ZDHHC17,downstream_gene_variant,,ENST00000550163,;"	"T"	"ENSG00000186908"	"ENST00000426126"	"Transcript"	"intron_variant"	"-/5259"	"-/1899"	"-/632"	""	""	""	"1"	NA	1	"ZDHHC17"	"HGNC"	18412	"protein_coding"	"YES"	"CCDS44946.1"	"ENSP00000403397"	"Q8IUH5"	"A8KA01"	"UPI0000051F55"	"NM_015336.2"	""	""	""	"8/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"22bef592-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34375	"WGS"	FALSE
"13167"	"SYT1"	6857	"mskcc.org"	"GRCh37"	"12"	79581597	79581597	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17-29686A>G"	""	""	"ENST00000261205"	""	95	"63"	32	44	"44"	0	"SYT1,intron_variant,,ENST00000261205,NM_005639.2;SYT1,intron_variant,,ENST00000457153,;SYT1,intron_variant,,ENST00000393240,NM_001135805.1;SYT1,intron_variant,,ENST00000552744,NM_001135806.1;SYT1,intron_variant,,ENST00000446242,;SYT1,intron_variant,,ENST00000552624,;SYT1,intron_variant,,ENST00000549671,;SYT1,intron_variant,,ENST00000552074,;SYT1,intron_variant,,ENST00000551304,;SYT1,intron_variant,,ENST00000547046,;SYT1,intron_variant,,ENST00000549454,;"	"G"	"ENSG00000067715"	"ENST00000261205"	"Transcript"	"intron_variant"	"-/4808"	"-/1269"	"-/422"	""	""	""	"1"	NA	1	"SYT1"	"HGNC"	11509	"protein_coding"	"YES"	"CCDS9017.1"	"ENSP00000261205"	"P21579"	"F8W1U9,F8VZY3,F8VYH8,F8VP93,C9JX50"	"UPI000013669A"	"NM_005639.2"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"22bf5942-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336842105263158	"WGS"	FALSE
"13168"	"SYT1"	6857	"mskcc.org"	"GRCh37"	"12"	79606340	79606340	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs562948788"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17-4943A>G"	""	""	"ENST00000261205"	""	114	"86"	28	50	"50"	0	"SYT1,intron_variant,,ENST00000261205,NM_005639.2;SYT1,intron_variant,,ENST00000457153,;SYT1,intron_variant,,ENST00000393240,NM_001135805.1;SYT1,intron_variant,,ENST00000552744,NM_001135806.1;SYT1,intron_variant,,ENST00000446242,;SYT1,intron_variant,,ENST00000552624,;SYT1,intron_variant,,ENST00000549671,;SYT1,intron_variant,,ENST00000552074,;SYT1,intron_variant,,ENST00000551304,;SYT1,intron_variant,,ENST00000547046,;SYT1,intron_variant,,ENST00000549454,;"	"G"	"ENSG00000067715"	"ENST00000261205"	"Transcript"	"intron_variant"	"-/4808"	"-/1269"	"-/422"	""	""	"rs562948788"	"1"	NA	1	"SYT1"	"HGNC"	11509	"protein_coding"	"YES"	"CCDS9017.1"	"ENSP00000261205"	"P21579"	"F8W1U9,F8VZY3,F8VYH8,F8VP93,C9JX50"	"UPI000013669A"	"NM_005639.2"	""	""	""	"3/10"	""	"G:0.0002"	"G:0"	"G:0"	NA	"G:0"	"G:0.001"	"G:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"22bf5aa0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245614035087719	"WGS"	FALSE
"13169"	"LIN7A"	8825	"mskcc.org"	"GRCh37"	"12"	81228719	81228719	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.483+10790T>G"	""	""	"ENST00000552864"	""	77	"50"	27	55	"54"	1	"LIN7A,intron_variant,,ENST00000552864,NM_004664.2;MIR617,upstream_gene_variant,,ENST00000385030,;LIN7A,intron_variant,,ENST00000261203,;"	"C"	"ENSG00000111052"	"ENST00000552864"	"Transcript"	"intron_variant"	"-/6112"	"-/702"	"-/233"	""	""	""	"1"	NA	-1	"LIN7A"	"HGNC"	17787	"protein_coding"	"YES"	"CCDS9021.1"	"ENSP00000447488"	"O14910"	""	"UPI0000073ECD"	"NM_004664.2"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"22bfa49c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.350649350649351	"WGS"	FALSE
"13170"	"LIN7A"	8825	"mskcc.org"	"GRCh37"	"12"	81295134	81295134	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.83-11986G>C"	""	""	"ENST00000552864"	""	81	"56"	25	47	"47"	0	"LIN7A,intron_variant,,ENST00000552864,NM_004664.2;LIN7A,intron_variant,,ENST00000549417,;LIN7A,intron_variant,,ENST00000261203,;"	"G"	"ENSG00000111052"	"ENST00000552864"	"Transcript"	"intron_variant"	"-/6112"	"-/702"	"-/233"	""	""	""	"1"	NA	-1	"LIN7A"	"HGNC"	17787	"protein_coding"	"YES"	"CCDS9021.1"	"ENSP00000447488"	"O14910"	""	"UPI0000073ECD"	"NM_004664.2"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"22bfa73a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308641975308642	"WGS"	FALSE
"13171"	"RP11-275O18.1"	0	"mskcc.org"	"GRCh37"	"12"	82259474	82259474	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000548110"	""	85	"60"	25	49	"49"	0	"RP11-275O18.1,upstream_gene_variant,,ENST00000548110,;"	"A"	"ENSG00000257609"	"ENST00000548110"	"Transcript"	"upstream_gene_variant"	"-/679"	""	""	""	""	""	"1"	"2673"	1	"RP11-275O18.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"22bfc224-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"13172"	"ENSR00001465448"	0	"mskcc.org"	"GRCh37"	"12"	85212700	85212700	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs183958838"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001465448"	""	85	"55"	30	53	"53"	0	""	"T"	""	"ENSR00001465448"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs183958838"	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"22c01a1c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WGS"	FALSE
"13173"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	86087866	86087866	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"70"	31	63	"63"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"22c03506-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306930693069307	"WGS"	FALSE
"13174"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	87777947	87777947	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	64	"58"	6	26	"26"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"22c068c8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"13175"	"ENSR00001465548"	0	"mskcc.org"	"GRCh37"	"12"	88322138	88322138	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001465548"	""	110	"100"	10	45	"45"	0	""	"A"	""	"ENSR00001465548"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"22c07bba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"13176"	"RP11-654D12.2"	0	"mskcc.org"	"GRCh37"	"12"	90387897	90387897	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000549551"	""	93	"51"	42	51	"51"	0	"RP11-654D12.2,downstream_gene_variant,,ENST00000549551,;"	"A"	"ENSG00000258216"	"ENST00000549551"	"Transcript"	"downstream_gene_variant"	"-/238"	""	""	""	""	""	"1"	"4831"	1	"RP11-654D12.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"22c0b562-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.451612903225806	"WGS"	FALSE
"13177"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	90412863	90412863	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"85"	7	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"22c0b620-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"13178"	"RP11-753N8.1"	0	"mskcc.org"	"GRCh37"	"12"	90682362	90682362	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.158-2199G>A"	""	""	"ENST00000549313"	""	101	"67"	34	50	"50"	0	"RP11-753N8.1,intron_variant,,ENST00000549313,;RP11-753N8.1,upstream_gene_variant,,ENST00000548172,;RP11-753N8.1,upstream_gene_variant,,ENST00000549470,;"	"A"	"ENSG00000258183"	"ENST00000549313"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/574"	""	""	""	""	""	"1"	NA	1	"RP11-753N8.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"22c0bb48-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336633663366337	"WGS"	FALSE
"13179"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	90980466	90980466	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"57"	34	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"22c0c872-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373626373626374	"WGS"	FALSE
"13180"	"NR2C1"	7181	"mskcc.org"	"GRCh37"	"12"	95426418	95426418	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1254-1154A>T"	""	""	"ENST00000333003"	""	79	"53"	26	45	"45"	0	"NR2C1,intron_variant,,ENST00000333003,NM_003297.3;NR2C1,intron_variant,,ENST00000330677,NM_001127362.1;NR2C1,intron_variant,,ENST00000393101,NM_001032287.2;NR2C1,intron_variant,,ENST00000551647,;NR2C1,intron_variant,,ENST00000545833,;NR2C1,intron_variant,,ENST00000547594,;NR2C1,intron_variant,,ENST00000552861,;NR2C1,intron_variant,,ENST00000546416,;NR2C1,intron_variant,,ENST00000552791,;NR2C1,upstream_gene_variant,,ENST00000552484,;"	"A"	"ENSG00000120798"	"ENST00000333003"	"Transcript"	"intron_variant"	"-/4143"	"-/1812"	"-/603"	""	""	""	"1"	NA	-1	"NR2C1"	"HGNC"	7971	"protein_coding"	"YES"	"CCDS9051.1"	"ENSP00000333275"	"P13056"	"H9NIM2"	"UPI00001AE7E6"	"NM_003297.3"	""	""	""	"10/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"22c1abd4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329113924050633	"WGS"	FALSE
"13181"	"CDK17"	5128	"mskcc.org"	"GRCh37"	"12"	96784462	96784462	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-30+9302C>T"	""	""	"ENST00000261211"	""	69	"62"	7	23	"23"	0	"CDK17,intron_variant,,ENST00000261211,NM_002595.4,NM_001170464.2;CDK17,intron_variant,,ENST00000543119,;CDK17,intron_variant,,ENST00000542666,;CDK17,intron_variant,,ENST00000551816,;CDK17,intron_variant,,ENST00000552496,;CDK17,intron_variant,,ENST00000552262,;RP11-117N2.2,upstream_gene_variant,,ENST00000547580,;"	"A"	"ENSG00000059758"	"ENST00000261211"	"Transcript"	"intron_variant"	"-/4157"	"-/1572"	"-/523"	""	""	""	"1"	NA	-1	"CDK17"	"HGNC"	8750	"protein_coding"	"YES"	"CCDS9061.1"	"ENSP00000261211"	"Q00537"	"F8VZY6,F8VUX2,F8VQZ9"	"UPI000006F45A"	"NM_002595.4,NM_001170464.2"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"22c21fb0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101449275362319	"WGS"	FALSE
"13182"	"RP11-1016B18.1"	643711	"mskcc.org"	"GRCh37"	"12"	98148696	98148696	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.80+1520C>A"	""	""	"ENST00000550548"	""	100	"67"	33	59	"59"	0	"RP11-1016B18.1,intron_variant,,ENST00000550548,;RP11-1016B18.1,upstream_gene_variant,,ENST00000552582,;RP11-1016B18.1,intron_variant,,ENST00000552615,;RP11-1016B18.1,intron_variant,,ENST00000550221,;"	"T"	"ENSG00000257501"	"ENST00000550548"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2945"	""	""	""	""	""	"1"	NA	-1	"RP11-1016B18.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"22c2526e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.33	"WGS"	FALSE
"13183"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	98163115	98163115	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"rs573238519"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"73"	6	40	"40"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs573238519"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0136"	"C:0.0431"	"C:0.0058"	NA	"C:0"	"C:0.007"	"C:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"22c25318-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"13184"	"ANKS1B"	56899	"mskcc.org"	"GRCh37"	"12"	100218292	100218292	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.215+795T>C"	""	""	"ENST00000547776"	""	73	"50"	23	48	"48"	0	"ANKS1B,intron_variant,,ENST00000547776,NM_152788.4;ANKS1B,intron_variant,,ENST00000329257,;ANKS1B,intron_variant,,ENST00000547010,;ANKS1B,intron_variant,,ENST00000549866,;"	"G"	"ENSG00000185046"	"ENST00000547776"	"Transcript"	"intron_variant"	"-/3885"	"-/3747"	"-/1248"	""	""	""	"1"	NA	-1	"ANKS1B"	"HGNC"	24600	"protein_coding"	"YES"	"CCDS55872.1"	"ENSP00000449629"	"Q7Z6G8"	"R4GN73,R4GN70,R4GN07"	"UPI00003FE521"	"NM_152788.4"	""	""	""	"2/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"22c2a5de-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315068493150685	"WGS"	FALSE
"13185"	"ACTR6"	64431	"mskcc.org"	"GRCh37"	"12"	100590509	100590509	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000188312"	""	63	"58"	5	62	"62"	0	"ACTR6,upstream_gene_variant,,ENST00000188312,NM_022496.4;ACTR6,upstream_gene_variant,,ENST00000546902,;ACTR6,upstream_gene_variant,,ENST00000551617,;ACTR6,upstream_gene_variant,,ENST00000552376,;ACTR6,upstream_gene_variant,,ENST00000551652,;RP11-175P13.3,intron_variant,,ENST00000548404,;RP11-175P13.3,intron_variant,,ENST00000550096,;ACTR6,upstream_gene_variant,,ENST00000550813,;ACTR6,upstream_gene_variant,,ENST00000553038,;ACTR6,upstream_gene_variant,,ENST00000548180,;ACTR6,upstream_gene_variant,,ENST00000552064,;ACTR6,upstream_gene_variant,,ENST00000551440,;ACTR6,upstream_gene_variant,,ENST00000547458,;ACTR6,upstream_gene_variant,,ENST00000551517,;ACTR6,upstream_gene_variant,,ENST00000549977,;RP11-175P13.3,intron_variant,,ENST00000548782,;"	"C"	"ENSG00000075089"	"ENST00000188312"	"Transcript"	"upstream_gene_variant"	"-/2464"	"-/1191"	"-/396"	""	""	""	"1"	"3356"	1	"ACTR6"	"HGNC"	24025	"protein_coding"	"YES"	"CCDS9074.1"	"ENSP00000188312"	"Q9GZN1"	"Q7Z4D2,G3V1Y1"	"UPI0000044716"	"NM_022496.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"22c2b498-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0793650793650794	"WGS"	FALSE
"13186"	"ANO4"	121601	"mskcc.org"	"GRCh37"	"12"	101263845	101263845	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-140-31579T>C"	""	""	"ENST00000392979"	""	80	"53"	27	71	"71"	0	"ANO4,intron_variant,,ENST00000392979,NM_178826.3,NM_001286616.1;ANO4,intron_variant,,ENST00000392977,NM_001286615.1;ANO4,intron_variant,,ENST00000299222,;ANO4,intron_variant,,ENST00000538618,;ANO4,intron_variant,,ENST00000546991,;ANO4,intron_variant,,ENST00000551148,;ANO4,intron_variant,,ENST00000549155,;"	"C"	"ENSG00000151572"	"ENST00000392979"	"Transcript"	"intron_variant"	"-/3909"	"-/2763"	"-/920"	""	""	""	"1"	NA	1	"ANO4"	"HGNC"	23837	"protein_coding"	"YES"	"CCDS31884.1"	"ENSP00000376705"	"Q32M45"	""	"UPI0000198E2E"	"NM_178826.3,NM_001286616.1"	""	""	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"22c2cffa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3375	"WGS"	FALSE
"13187"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	103434996	103434996	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"63"	25	39	"39"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"22c32338-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284090909090909	"WGS"	FALSE
"13188"	"TCP11L2"	255394	"mskcc.org"	"GRCh37"	"12"	106741988	106741988	"+"	"3'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000299045"	""	104	"61"	43	48	"48"	0	"TCP11L2,downstream_gene_variant,,ENST00000299045,NM_152772.1;"	"C"	"ENSG00000166046"	"ENST00000299045"	"Transcript"	"downstream_gene_variant"	"-/2219"	"-/1560"	"-/519"	""	""	""	"1"	"1195"	1	"TCP11L2"	"HGNC"	28627	"protein_coding"	"YES"	"CCDS9104.1"	"ENSP00000299045"	"Q8N4U5"	"F8W1M6,F8W0R5,F8VW27,F8VRQ3"	"UPI000006D6D5"	"NM_152772.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"22c3aa38-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.413461538461538	"WGS"	FALSE
"13189"	"BTBD11"	121551	"mskcc.org"	"GRCh37"	"12"	108022339	108022339	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2632-6723T>A"	""	""	"ENST00000280758"	""	80	"49"	31	49	"49"	0	"BTBD11,intron_variant,,ENST00000280758,NM_001018072.1;BTBD11,intron_variant,,ENST00000490090,;BTBD11,intron_variant,,ENST00000357167,NM_001017523.1;BTBD11,intron_variant,,ENST00000420571,;"	"A"	"ENSG00000151136"	"ENST00000280758"	"Transcript"	"intron_variant"	"-/5767"	"-/3315"	"-/1104"	""	""	""	"1"	NA	1	"BTBD11"	"HGNC"	23844	"protein_coding"	"YES"	"CCDS31893.1"	"ENSP00000280758"	"A6QL63"	"B3KY13,B3KXB0"	"UPI000051901E"	"NM_001018072.1"	""	""	""	"11/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"22c3e2be-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3875	"WGS"	FALSE
"13190"	"CUX2"	23316	"mskcc.org"	"GRCh37"	"12"	111497767	111497767	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.63+25723C>T"	""	""	"ENST00000261726"	""	79	"54"	25	57	"57"	0	"CUX2,intron_variant,,ENST00000261726,NM_015267.3;"	"T"	"ENSG00000111249"	"ENST00000261726"	"Transcript"	"intron_variant"	"-/6844"	"-/4461"	"-/1486"	""	""	""	"1"	NA	1	"CUX2"	"HGNC"	19347	"protein_coding"	"YES"	"CCDS41837.1"	"ENSP00000261726"	"O14529"	"Q9BZX3,Q9BZV4"	"UPI00001FBB07"	"NM_015267.3"	""	""	""	"1/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"22c4f2bc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316455696202532	"WGS"	FALSE
"13191"	"ATXN2"	6311	"mskcc.org"	"GRCh37"	"12"	112022574	112022574	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.731+14014T>C"	""	""	"ENST00000377617"	""	80	"74"	6	41	"41"	0	"ATXN2,intron_variant,,ENST00000377617,NM_002973.3;ATXN2,intron_variant,,ENST00000550104,;ATXN2,intron_variant,,ENST00000608853,;ATXN2,intron_variant,,ENST00000389153,;ATXN2,intron_variant,,ENST00000542287,;ATXN2,intron_variant,,ENST00000535949,;ATXN2,intron_variant,,ENST00000548492,;ATXN2,intron_variant,,ENST00000549455,;ATXN2,intron_variant,,ENST00000483311,;ATXN2,intron_variant,,ENST00000392645,;RP11-686G8.1,downstream_gene_variant,,ENST00000423386,;RP11-686G8.1,downstream_gene_variant,,ENST00000549333,;"	"G"	"ENSG00000204842"	"ENST00000377617"	"Transcript"	"intron_variant"	"-/4702"	"-/3942"	"-/1313"	""	""	""	"1"	NA	-1	"ATXN2"	"HGNC"	10555	"protein_coding"	"YES"	"CCDS31902.1"	"ENSP00000366843"	"Q99700"	"D2CTA6,D2CTA5,D2CTA3"	"UPI0000DBEEFC"	"NM_002973.3"	""	""	""	"1/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"22c5226e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"13192"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	112069843	112069843	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"78"	6	26	"26"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"22c52c46-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"13193"	"ALDH2"	217	"mskcc.org"	"GRCh37"	"12"	112230371	112230371	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.899-31C>T"	""	""	"ENST00000261733"	""	93	"63"	30	38	"38"	0	"ALDH2,intron_variant,,ENST00000261733,NM_000690.3;ALDH2,intron_variant,,ENST00000416293,NM_001204889.1;RP11-162P23.2,downstream_gene_variant,,ENST00000546840,;ALDH2,intron_variant,,ENST00000548536,;ALDH2,upstream_gene_variant,,ENST00000549106,;"	"T"	"ENSG00000111275"	"ENST00000261733"	"Transcript"	"intron_variant"	"-/2018"	"-/1554"	"-/517"	""	""	""	"1"	NA	1	"ALDH2"	"HGNC"	404	"protein_coding"	"YES"	"CCDS9155.1"	"ENSP00000261733"	"P05091"	"Q9UN17,B4YAH7,B0LUF9"	"UPI0000129293"	"NM_000690.3"	""	""	""	"8/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"22c53cb8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32258064516129	"WGS"	TRUE
"13194"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	115397912	115397912	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"48"	30	38	"37"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"22c6164c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WGS"	FALSE
"13195"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	115495763	115495763	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"59"	37	53	"53"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"22c61bd8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.385416666666667	"WGS"	FALSE
"13196"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	115791254	115791254	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"67"	26	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"22c62e70-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279569892473118	"WGS"	FALSE
"13197"	"RNFT2"	84900	"mskcc.org"	"GRCh37"	"12"	117231980	117231980	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.882+14827A>G"	""	""	"ENST00000257575"	""	82	"76"	6	47	"47"	0	"RNFT2,intron_variant,,ENST00000257575,;RNFT2,intron_variant,,ENST00000392549,NM_001109903.1;RNFT2,intron_variant,,ENST00000407967,NM_032814.3;RNFT2,intron_variant,,ENST00000319176,;RNFT2,intron_variant,,ENST00000547718,;"	"G"	"ENSG00000135119"	"ENST00000257575"	"Transcript"	"intron_variant"	"-/3882"	"-/1335"	"-/444"	""	""	""	"1"	NA	1	"RNFT2"	"HGNC"	25905	"protein_coding"	"YES"	"CCDS44987.1"	"ENSP00000257575"	"Q96EX2"	""	"UPI00001FBBF4"	""	""	""	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"22c679c0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"13198"	"NOS1"	4842	"mskcc.org"	"GRCh37"	"12"	117767419	117767419	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.725+731G>A"	""	""	"ENST00000338101"	""	77	"46"	31	39	"39"	0	"NOS1,intron_variant,,ENST00000317775,NM_000620.4,NM_001204218.1;NOS1,intron_variant,,ENST00000344089,NM_001204213.1,NM_001204214.1;NOS1,intron_variant,,ENST00000338101,;NOS1,downstream_gene_variant,,ENST00000549189,;"	"T"	"ENSG00000089250"	"ENST00000338101"	"Transcript"	"intron_variant"	"-/4462"	"-/4407"	"-/1468"	""	""	""	"1"	NA	-1	"NOS1"	"HGNC"	7872	"protein_coding"	"YES"	"CCDS55890.1"	"ENSP00000337459"	"P29475"	"A0PJJ7"	"UPI00001FBC10"	""	""	""	""	"1/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"22c6a3d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.402597402597403	"WGS"	FALSE
"13199"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	119167597	119167597	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs547112753"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"92"	13	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs547112753"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"22c72028-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123809523809524	"WGS"	FALSE
"13200"	"SRRM4"	84530	"mskcc.org"	"GRCh37"	"12"	119556396	119556396	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.437+1583T>C"	""	""	"ENST00000267260"	""	77	"58"	19	49	"49"	0	"SRRM4,intron_variant,,ENST00000267260,NM_194286.3;RP11-364C11.2,upstream_gene_variant,,ENST00000537730,;SRRM4,intron_variant,,ENST00000545224,;"	"C"	"ENSG00000139767"	"ENST00000267260"	"Transcript"	"intron_variant"	"-/8477"	"-/1836"	"-/611"	""	""	""	"1"	NA	1	"SRRM4"	"HGNC"	29389	"protein_coding"	"YES"	"CCDS44994.1"	"ENSP00000267260"	"A7MD48"	""	"UPI00001FBC3F"	"NM_194286.3"	""	""	""	"4/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"22c738f6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246753246753247	"WGS"	FALSE
"13201"	"HSPB8"	26353	"mskcc.org"	"GRCh37"	"12"	119643589	119643589	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.155-7893C>T"	""	""	"ENST00000541798"	""	64	"58"	6	35	"35"	0	"HSPB8,intron_variant,,ENST00000541798,;"	"T"	"ENSG00000152137"	"ENST00000541798"	"Transcript"	"intron_variant"	"-/637"	"-/459"	"-/152"	""	""	""	"1"	NA	1	"HSPB8"	"HGNC"	30171	"protein_coding"	""	""	"ENSP00000441541"	""	""	"UPI000204AB80"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"22c73fb8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"13202"	"CIT"	11113	"mskcc.org"	"GRCh37"	"12"	120178666	120178666	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2958+1550A>T"	""	""	"ENST00000392521"	""	95	"71"	24	51	"50"	1	"CIT,intron_variant,,ENST00000392521,NM_001206999.1;CIT,intron_variant,,ENST00000261833,NM_007174.2;CIT,intron_variant,,ENST00000392520,;CIT,intron_variant,,ENST00000546026,;CIT,intron_variant,,ENST00000536325,;CIT,intron_variant,,ENST00000537607,;CIT,intron_variant,,ENST00000545913,;CIT,intron_variant,,ENST00000541841,;"	"A"	"ENSG00000122966"	"ENST00000392521"	"Transcript"	"intron_variant"	"-/8708"	"-/6210"	"-/2069"	""	""	""	"1"	NA	-1	"CIT"	"HGNC"	1985	"protein_coding"	"YES"	"CCDS55891.1"	"ENSP00000376306"	"O14578"	""	"UPI0000683C41"	"NM_001206999.1"	""	""	""	"24/47"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"22c75b24-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"13203"	"CIT"	11113	"mskcc.org"	"GRCh37"	"12"	120310881	120310881	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.96+2996A>G"	""	""	"ENST00000392521"	""	82	"72"	10	52	"52"	0	"CIT,intron_variant,,ENST00000392521,NM_001206999.1;CIT,intron_variant,,ENST00000261833,NM_007174.2;"	"C"	"ENSG00000122966"	"ENST00000392521"	"Transcript"	"intron_variant"	"-/8708"	"-/6210"	"-/2069"	""	""	""	"1"	NA	-1	"CIT"	"HGNC"	1985	"protein_coding"	"YES"	"CCDS55891.1"	"ENSP00000376306"	"O14578"	""	"UPI0000683C41"	"NM_001206999.1"	""	""	""	"2/47"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"22c7615a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WGS"	FALSE
"13204"	"CCDC64"	92558	"mskcc.org"	"GRCh37"	"12"	120464994	120464994	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.645+28454C>A"	""	""	"ENST00000397558"	""	76	"49"	27	39	"39"	0	"CCDC64,intron_variant,,ENST00000397558,NM_207311.2;CCDC64,intron_variant,,ENST00000546420,;"	"A"	"ENSG00000135127"	"ENST00000397558"	"Transcript"	"intron_variant"	"-/3055"	"-/1722"	"-/573"	""	""	""	"1"	NA	1	"CCDC64"	"HGNC"	28095	"protein_coding"	"YES"	"CCDS41845.1"	"ENSP00000380690"	"Q6ZP65"	""	"UPI0000406796"	"NM_207311.2"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"22c776a4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355263157894737	"WGS"	FALSE
"13205"	"SPPL3"	121665	"mskcc.org"	"GRCh37"	"12"	121347095	121347095	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000353487"	""	74	"41"	33	32	"32"	0	"SPPL3,upstream_gene_variant,,ENST00000353487,NM_139015.4;"	"T"	"ENSG00000157837"	"ENST00000353487"	"Transcript"	"upstream_gene_variant"	"-/4148"	"-/1155"	"-/384"	""	""	""	"1"	"4921"	-1	"SPPL3"	"HGNC"	30424	"protein_coding"	"YES"	"CCDS9208.1"	"ENSP00000288680"	"Q8TCT6"	"F5H7J2,F5H6I1,F5H4Y6,F5H4L1,F5H2A2"	"UPI0000013590"	"NM_139015.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"22c7e94a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.445945945945946	"WGS"	FALSE
"13206"	"CDK2AP1"	8099	"mskcc.org"	"GRCh37"	"12"	123760133	123760133	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"rs12825397"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000261692"	""	60	"54"	6	20	"20"	0	"CDK2AP1,upstream_gene_variant,,ENST00000261692,NM_004642.3,NM_001270434.1,NM_001270433.1;CDK2AP1,upstream_gene_variant,,ENST00000535979,;CDK2AP1,upstream_gene_variant,,ENST00000544658,;"	"C"	"ENSG00000111328"	"ENST00000261692"	"Transcript"	"upstream_gene_variant"	"-/1625"	"-/348"	"-/115"	""	""	"rs12825397"	"1"	"3446"	-1	"CDK2AP1"	"HGNC"	14002	"protein_coding"	"YES"	"CCDS9245.1"	"ENSP00000261692"	"O14519"	"F5GZF0"	"UPI000000164E"	"NM_004642.3,NM_001270434.1,NM_001270433.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"22c9498e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"13207"	"ATP6V0A2"	23545	"mskcc.org"	"GRCh37"	"12"	124201198	124201198	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.118-1972T>G"	""	""	"ENST00000330342"	""	73	"67"	6	35	"35"	0	"ATP6V0A2,intron_variant,,ENST00000330342,NM_012463.3;ATP6V0A2,intron_variant,,ENST00000540368,;RPL27P12,downstream_gene_variant,,ENST00000472241,;"	"G"	"ENSG00000185344"	"ENST00000330342"	"Transcript"	"intron_variant"	"-/6542"	"-/2571"	"-/856"	""	""	""	"1"	NA	1	"ATP6V0A2"	"HGNC"	18481	"protein_coding"	"YES"	"CCDS9254.1"	"ENSP00000332247"	"Q9Y487"	"F5H847,F5H5F3,B4DQF7"	"UPI00001AFC09"	"NM_012463.3"	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"22c9924a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"13208"	"FAM101A"	144347	"mskcc.org"	"GRCh37"	"12"	124618416	124618416	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-233-15725A>T"	""	""	"ENST00000540762"	""	74	"66"	8	36	"36"	0	"FAM101A,intron_variant,,ENST00000540762,;FAM101A,intron_variant,,ENST00000545615,;"	"T"	"ENSG00000178882"	"ENST00000540762"	"Transcript"	"intron_variant"	"-/574"	"-/94"	"-/31"	""	""	""	"1"	NA	1	"FAM101A"	"HGNC"	27051	"protein_coding"	""	""	"ENSP00000476717"	""	""	"UPI0003B92896"	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"22c9aca8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"13209"	"FAM101A"	144347	"mskcc.org"	"GRCh37"	"12"	124618429	124618429	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-233-15712C>A"	""	""	"ENST00000540762"	""	77	"69"	8	35	"35"	0	"FAM101A,intron_variant,,ENST00000540762,;FAM101A,intron_variant,,ENST00000545615,;"	"A"	"ENSG00000178882"	"ENST00000540762"	"Transcript"	"intron_variant"	"-/574"	"-/94"	"-/31"	""	""	""	"1"	NA	1	"FAM101A"	"HGNC"	27051	"protein_coding"	""	""	"ENSP00000476717"	""	""	"UPI0003B92896"	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"22c9ad5c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103896103896104	"WGS"	FALSE
"13210"	"FAM101A"	144347	"mskcc.org"	"GRCh37"	"12"	124777891	124777891	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-37+3975G>A"	""	""	"ENST00000324038"	""	98	"61"	37	48	"48"	0	"FAM101A,intron_variant,,ENST00000324038,NM_181709.4;FAM101A,intron_variant,,ENST00000540762,;FAM101A,upstream_gene_variant,,ENST00000389727,;FAM101A,upstream_gene_variant,,ENST00000546355,NM_001204299.1;"	"A"	"ENSG00000178882"	"ENST00000324038"	"Transcript"	"intron_variant"	"-/2148"	"-/408"	"-/135"	""	""	""	"1"	NA	1	"FAM101A"	"HGNC"	27051	"protein_coding"	"YES"	"CCDS9258.1"	"ENSP00000315626"	"Q6ZTI6"	""	"UPI00001FB96E"	"NM_181709.4"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"22c9c0b2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.377551020408163	"WGS"	FALSE
"13211"	"TMEM132B"	114795	"mskcc.org"	"GRCh37"	"12"	125788144	125788144	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.32-45854C>T"	""	""	"ENST00000418253"	""	83	"54"	29	62	"62"	0	"TMEM132B,intron_variant,,ENST00000418253,;"	"T"	"ENSG00000139364"	"ENST00000418253"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/558"	""	""	""	""	""	"1"	NA	1	"TMEM132B"	"HGNC"	29397	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"22ca3c90-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349397590361446	"WGS"	FALSE
"13212"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	126965695	126965695	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs370884760"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"41"	21	35	"35"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs370884760"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0004"	"T:0"	"T:0"	NA	"T:0.001"	"T:0.001"	"T:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"22ca6878-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.338709677419355	"WGS"	FALSE
"13213"	"ENSR00001468324"	0	"mskcc.org"	"GRCh37"	"12"	128135678	128135678	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001468324"	""	85	"60"	25	52	"52"	0	""	"T"	""	"ENSR00001468324"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"22caa1e4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"13214"	"TMEM132C"	92293	"mskcc.org"	"GRCh37"	"12"	129093738	129093738	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"rs185099383"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1122-6959A>T"	""	""	"ENST00000435159"	""	38	"33"	5	19	"19"	0	"TMEM132C,intron_variant,,ENST00000435159,NM_001136103.2;TMEM132C,intron_variant,,ENST00000315208,;"	"T"	"ENSG00000181234"	"ENST00000435159"	"Transcript"	"intron_variant"	"-/4947"	"-/3327"	"-/1108"	""	""	"rs185099383"	"1"	NA	1	"TMEM132C"	"HGNC"	25436	"protein_coding"	"YES"	""	"ENSP00000410852"	"Q8N3T6"	"F5H439,E9PC33"	"UPI0001C0B37C"	"NM_001136103.2"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"22cb0968-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WGS"	FALSE
"13215"	"ENSR00000439312"	0	"mskcc.org"	"GRCh37"	"12"	130482205	130482205	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000439312"	""	80	"53"	27	64	"64"	0	""	"T"	""	"ENSR00000439312"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"22cb8e6a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3375	"WGS"	FALSE
"13216"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	130805594	130805594	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"63"	47	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"22cba9cc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.427272727272727	"WGS"	FALSE
"13217"	"STX2"	2054	"mskcc.org"	"GRCh37"	"12"	131273444	131273444	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000392373"	""	92	"82"	10	61	"61"	0	"STX2,downstream_gene_variant,,ENST00000261653,NM_001980.3;STX2,downstream_gene_variant,,ENST00000392373,NM_194356.2;"	"A"	"ENSG00000111450"	"ENST00000392373"	"Transcript"	"downstream_gene_variant"	"-/2151"	"-/867"	"-/288"	""	""	""	"1"	"1935"	-1	"STX2"	"HGNC"	3403	"protein_coding"	"YES"	"CCDS9270.1"	"ENSP00000376178"	"P32856"	""	"UPI00001D69FD"	"NM_194356.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"22cbeb6c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108695652173913	"WGS"	FALSE
"13218"	"GPR133"	283383	"mskcc.org"	"GRCh37"	"12"	131580327	131580327	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1672-9049G>A"	""	""	"ENST00000261654"	""	85	"54"	31	44	"44"	0	"GPR133,intron_variant,,ENST00000261654,NM_198827.3;GPR133,intron_variant,,ENST00000376682,;GPR133,intron_variant,,ENST00000335486,;GPR133,intron_variant,,ENST00000535015,;GPR133,intron_variant,,ENST00000543617,;GPR133,intron_variant,,ENST00000536988,;GPR133,intron_variant,,ENST00000446583,;"	"A"	"ENSG00000111452"	"ENST00000261654"	"Transcript"	"intron_variant"	"-/5168"	"-/2625"	"-/874"	""	""	""	"1"	NA	1	"GPR133"	"HGNC"	19893	"protein_coding"	"YES"	"CCDS9272.1"	"ENSP00000261654"	"Q6QNK2"	"F5H4Y0,B2CKK9"	"UPI0000241C7A"	"NM_198827.3"	""	""	""	"15/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"22cc1736-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364705882352941	"WGS"	FALSE
"13219"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	132167974	132167974	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"rs555329440"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"55"	25	42	"42"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs555329440"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0002"	"C:0.0008"	"C:0"	NA	"C:0"	"C:0"	"C:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"22cc92ba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"13220"	"GALNT9"	50614	"mskcc.org"	"GRCh37"	"12"	132867161	132867161	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.239-4145A>T"	""	""	"ENST00000328957"	""	69	"64"	5	27	"27"	0	"GALNT9,intron_variant,,ENST00000328957,NM_001122636.1;GALNT9,intron_variant,,ENST00000424720,;GALNT9,upstream_gene_variant,,ENST00000540493,;"	"A"	"ENSG00000182870"	"ENST00000328957"	"Transcript"	"intron_variant"	"-/2410"	"-/1812"	"-/603"	""	""	""	"1"	NA	-1	"GALNT9"	"HGNC"	4131	"protein_coding"	""	""	"ENSP00000329846"	""	"J3KNN1,F5H557,F5H317,B3KP58"	"UPI00004566BE"	"NM_001122636.1"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"22cd11a4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072463768115942	"WGS"	FALSE
"13221"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	132946537	132946537	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"rs547363699"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"51"	32	58	"57"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs547363699"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"22cd41ec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.385542168674699	"WGS"	FALSE
"13222"	"P2RX2"	22953	"mskcc.org"	"GRCh37"	"12"	133192199	133192199	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000343948"	""	67	"59"	8	35	"35"	0	"P2RX2,upstream_gene_variant,,ENST00000389110,NM_170682.2,NM_170683.2,NM_174873.1;P2RX2,upstream_gene_variant,,ENST00000343948,NM_001282165.1;P2RX2,upstream_gene_variant,,ENST00000350048,NM_016318.2;P2RX2,upstream_gene_variant,,ENST00000348800,;P2RX2,upstream_gene_variant,,ENST00000352418,NM_012226.3;P2RX2,upstream_gene_variant,,ENST00000351222,NM_174872.1;P2RX2,upstream_gene_variant,,ENST00000449132,NM_001282164.1;P2RX2,upstream_gene_variant,,ENST00000542301,;P2RX2,upstream_gene_variant,,ENST00000536121,;P2RX2,upstream_gene_variant,,ENST00000535910,;"	"C"	"ENSG00000187848"	"ENST00000343948"	"Transcript"	"upstream_gene_variant"	"-/1494"	"-/1494"	"-/497"	""	""	""	"1"	"3204"	1	"P2RX2"	"HGNC"	15459	"protein_coding"	"YES"	"CCDS31930.1"	"ENSP00000343339"	"Q9UBL9"	""	"UPI000002B04A"	"NM_001282165.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"22cdc590-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119402985074627	"WGS"	FALSE
"13223"	"GJA3"	2700	"mskcc.org"	"GRCh37"	"13"	20730588	20730588	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-18+4441C>G"	""	""	"ENST00000241125"	""	76	"51"	25	38	"38"	0	"GJA3,intron_variant,,ENST00000241125,NM_021954.3;"	"C"	"ENSG00000121743"	"ENST00000241125"	"Transcript"	"intron_variant"	"-/5211"	"-/1308"	"-/435"	""	""	""	"1"	NA	-1	"GJA3"	"HGNC"	4277	"protein_coding"	"YES"	"CCDS9289.1"	"ENSP00000241125"	"Q9Y6H8"	""	"UPI0000052BDE"	"NM_021954.3"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"22cf0482-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.328947368421053	"WGS"	FALSE
"13224"	"CNOT4P1"	0	"mskcc.org"	"GRCh37"	"13"	21496384	21496384	"+"	"RNA"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.618A>C"	""	""	"ENST00000417432"	"2/2"	92	"58"	34	49	"49"	0	"CNOT4P1,non_coding_transcript_exon_variant,,ENST00000417432,;"	"G"	"ENSG00000236704"	"ENST00000417432"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"618/1199"	""	""	""	""	""	"1"	NA	-1	"CNOT4P1"	"HGNC"	39272	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"22cf2566-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.369565217391304	"WGS"	FALSE
"13225"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	21696136	21696136	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"100"	9	38	"38"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"22cf3bfa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0825688073394495	"WGS"	FALSE
"13226"	"MRP63"	78988	"mskcc.org"	"GRCh37"	"13"	21751897	21751897	"+"	"3'UTR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*533T>C"	""	""	"ENST00000309594"	"2/2"	72	"64"	8	33	"33"	0	"MRP63,3_prime_UTR_variant,,ENST00000309594,NM_024026.4;SKA3,upstream_gene_variant,,ENST00000314759,NM_145061.5;SKA3,upstream_gene_variant,,ENST00000400018,NM_001166017.1;SKA3,upstream_gene_variant,,ENST00000298260,;SKA3,upstream_gene_variant,,ENST00000465471,;SKA3,upstream_gene_variant,,ENST00000462482,;SKA3,upstream_gene_variant,,ENST00000475251,;"	"C"	"ENSG00000173141"	"ENST00000309594"	"Transcript"	"3_prime_UTR_variant"	"920/2246"	"-/309"	"-/102"	""	""	""	"1"	NA	1	"MRP63"	"HGNC"	14514	"protein_coding"	"YES"	"CCDS9296.1"	"ENSP00000310726"	"Q9BQC6"	""	"UPI000004C5AC"	"NM_024026.4"	""	""	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"22cf3e16-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"13227"	"MICU2"	221154	"mskcc.org"	"GRCh37"	"13"	22176526	22176526	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.210+1552A>G"	""	""	"ENST00000382374"	""	78	"56"	22	40	"40"	0	"MICU2,intron_variant,,ENST00000382374,NM_152726.2;MICU2,intron_variant,,ENST00000468222,;MICU2,intron_variant,,ENST00000469058,;MICU2,intron_variant,,ENST00000476895,;"	"C"	"ENSG00000165487"	"ENST00000382374"	"Transcript"	"intron_variant"	"-/1920"	"-/1305"	"-/434"	""	""	""	"1"	NA	-1	"MICU2"	"HGNC"	31830	"protein_coding"	"YES"	"CCDS9297.1"	"ENSP00000371811"	"Q8IYU8"	""	"UPI0000035DB8"	"NM_152726.2"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"22cf6b0c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282051282051282	"WGS"	FALSE
"13228"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	23299920	23299920	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"62"	38	40	"39"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"22cf91cc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.38	"WGS"	FALSE
"13229"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	23405474	23405474	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"66"	9	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"22cf97ee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"13230"	"SACS"	26278	"mskcc.org"	"GRCh37"	"13"	23990851	23990851	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-501-4972C>T"	""	""	"ENST00000382298"	""	86	"79"	7	48	"48"	0	"SACS,intron_variant,,ENST00000382298,NM_014363.5;SACS-AS1,upstream_gene_variant,,ENST00000443092,;"	"A"	"ENSG00000151835"	"ENST00000382298"	"Transcript"	"intron_variant"	"-/15639"	"-/13740"	"-/4579"	""	""	""	"1"	NA	-1	"SACS"	"HGNC"	10519	"protein_coding"	"YES"	"CCDS9300.2"	"ENSP00000371735"	"Q9NZJ4"	""	"UPI000047039D"	"NM_014363.5"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"22cfc700-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0813953488372093	"WGS"	FALSE
"13231"	"ATP8A2"	51761	"mskcc.org"	"GRCh37"	"13"	26310884	26310884	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2385-32300G>A"	""	""	"ENST00000381655"	""	85	"62"	23	51	"51"	0	"ATP8A2,intron_variant,,ENST00000381655,NM_016529.4;ATP8A2,intron_variant,,ENST00000255283,;ATP8A2,intron_variant,,ENST00000491840,;ATP8A2,intron_variant,,ENST00000281620,;"	"A"	"ENSG00000132932"	"ENST00000381655"	"Transcript"	"intron_variant"	"-/9575"	"-/3567"	"-/1188"	""	""	""	"1"	NA	1	"ATP8A2"	"HGNC"	13533	"protein_coding"	"YES"	"CCDS41873.1"	"ENSP00000371070"	"Q9NTI2"	""	"UPI0000229592"	"NM_016529.4"	""	""	""	"25/36"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"22d07632-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270588235294118	"WGS"	FALSE
"13232"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	29495327	29495327	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"57"	29	39	"39"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"22d11c18-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337209302325581	"WGS"	FALSE
"13233"	"USPL1"	10208	"mskcc.org"	"GRCh37"	"13"	31203920	31203920	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.229-1052A>G"	""	""	"ENST00000255304"	""	68	"42"	26	30	"30"	0	"USPL1,intron_variant,,ENST00000255304,NM_005800.4;USPL1,intron_variant,,ENST00000465952,;"	"G"	"ENSG00000132952"	"ENST00000255304"	"Transcript"	"intron_variant"	"-/3814"	"-/3279"	"-/1092"	""	""	""	"1"	NA	1	"USPL1"	"HGNC"	20294	"protein_coding"	"YES"	"CCDS9336.1"	"ENSP00000255304"	"Q5W0Q7"	""	"UPI000013CEA3"	"NM_005800.4"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"22d16a06-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.382352941176471	"WGS"	FALSE
"13234"	"ENSR00001508290"	0	"mskcc.org"	"GRCh37"	"13"	31304605	31304605	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001508290"	""	93	"72"	21	52	"52"	0	""	"T"	""	"ENSR00001508290"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"22d16f74-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225806451612903	"WGS"	FALSE
"13235"	"NBEA"	26960	"mskcc.org"	"GRCh37"	"13"	35789795	35789795	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5648+4479G>A"	""	""	"ENST00000400445"	""	103	"76"	27	51	"51"	0	"NBEA,intron_variant,,ENST00000400445,NM_015678.4;NBEA,intron_variant,,ENST00000540320,;NBEA,intron_variant,,ENST00000310336,;NBEA,intron_variant,,ENST00000379939,;"	"A"	"ENSG00000172915"	"ENST00000400445"	"Transcript"	"intron_variant"	"-/11119"	"-/8841"	"-/2946"	""	""	""	"1"	NA	1	"NBEA"	"HGNC"	7648	"protein_coding"	"YES"	"CCDS45026.1"	"ENSP00000383295"	"Q8NFP9"	""	"UPI00004FF92F"	"NM_015678.4"	""	""	""	"33/57"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"22d22e0a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.262135922330097	"WGS"	FALSE
"13236"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	36716756	36716756	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"48"	6	24	"24"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"22d24ba6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"13237"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	37080950	37080950	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"65"	36	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"22d25e0c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.356435643564356	"WGS"	FALSE
"13238"	"TRPC4"	7223	"mskcc.org"	"GRCh37"	"13"	38328007	38328007	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.379-7415A>G"	""	""	"ENST00000379681"	""	74	"53"	21	52	"52"	0	"TRPC4,intron_variant,,ENST00000379705,;TRPC4,intron_variant,,ENST00000379681,NM_001135955.1,NM_016179.2,NM_003306.1;TRPC4,intron_variant,,ENST00000447043,;TRPC4,intron_variant,,ENST00000358477,;TRPC4,intron_variant,,ENST00000338947,NM_001135958.1;TRPC4,intron_variant,,ENST00000355779,NM_001135957.1;TRPC4,intron_variant,,ENST00000379673,NM_001135956.1;TRPC4,intron_variant,,ENST00000426868,;TRPC4,intron_variant,,ENST00000379679,;TRPC4,intron_variant,,ENST00000488717,;"	"C"	"ENSG00000133107"	"ENST00000379681"	"Transcript"	"intron_variant"	"-/3446"	"-/2949"	"-/982"	""	""	""	"1"	NA	-1	"TRPC4"	"HGNC"	12336	"protein_coding"	"YES"	"CCDS45037.1"	"ENSP00000369003"	"Q9UBN4"	""	"UPI000006E5BE"	"NM_001135955.1,NM_016179.2,NM_003306.1"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"22d28288-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283783783783784	"WGS"	FALSE
"13239"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	38982096	38982096	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"64"	25	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"22d29b6a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280898876404494	"WGS"	FALSE
"13240"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	41278425	41278425	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs558745090"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"97"	8	33	"33"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs558745090"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"22d2f38a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0761904761904762	"WGS"	FALSE
"13241"	"ENOX1"	55068	"mskcc.org"	"GRCh37"	"13"	44314616	44314616	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-322+46172T>A"	""	""	"ENST00000261488"	""	102	"93"	9	44	"44"	0	"ENOX1,intron_variant,,ENST00000261488,NM_017993.3,NM_001242863.1;"	"T"	"ENSG00000120658"	"ENST00000261488"	"Transcript"	"intron_variant"	"-/2982"	"-/1932"	"-/643"	""	""	""	"1"	NA	-1	"ENOX1"	"HGNC"	25474	"protein_coding"	"YES"	"CCDS9389.1"	"ENSP00000261488"	"Q8TC92"	""	"UPI0000071D6F"	"NM_017993.3,NM_001242863.1"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"22d372c4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"13242"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	44828245	44828245	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"77"	7	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"22d3849e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13243"	"KCTD4"	386618	"mskcc.org"	"GRCh37"	"13"	45771729	45771729	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-187-2840C>T"	""	""	"ENST00000405872"	""	74	"50"	24	46	"46"	0	"KCTD4,intron_variant,,ENST00000405872,NM_198404.2;GTF2F2,intron_variant,,ENST00000340473,NM_004128.2;KCTD4,upstream_gene_variant,,ENST00000379108,;"	"A"	"ENSG00000180332"	"ENST00000405872"	"Transcript"	"intron_variant"	"-/2115"	"-/780"	"-/259"	""	""	""	"1"	NA	-1	"KCTD4"	"HGNC"	23227	"protein_coding"	"YES"	"CCDS9396.1"	"ENSP00000385144"	"Q8WVF5"	""	"UPI000013F484"	"NM_198404.2"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"22d3b89c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324324324324324	"WGS"	FALSE
"13244"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	46883366	46883366	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"59"	37	33	"33"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"22d40ad6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.385416666666667	"WGS"	FALSE
"13245"	"OR7E101P"	0	"mskcc.org"	"GRCh37"	"13"	47039885	47039885	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000400428"	""	51	"47"	4	20	"20"	0	"RP11-189B4.6,intron_variant,,ENST00000598084,;RP11-189B4.6,intron_variant,,ENST00000599175,;RP11-189B4.6,intron_variant,,ENST00000594153,;RP11-189B4.6,intron_variant,,ENST00000416521,;RP11-189B4.6,intron_variant,,ENST00000594428,;RP11-189B4.6,upstream_gene_variant,,ENST00000593640,;OR7E101P,downstream_gene_variant,,ENST00000400428,;"	"T"	"ENSG00000227019"	"ENST00000400428"	"Transcript"	"downstream_gene_variant"	"-/513"	""	""	""	""	""	"1"	"4629"	1	"OR7E101P"	"HGNC"	15342	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"22d414ea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0784313725490196	"WGS"	FALSE
"13246"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	48328837	48328837	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"49"	26	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"22d46e2c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346666666666667	"WGS"	FALSE
"13247"	"ENSR00001640963"	0	"mskcc.org"	"GRCh37"	"13"	50218323	50218323	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001640963"	""	95	"71"	24	40	"40"	0	""	"C"	""	"ENSR00001640963"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"22d4ba6c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"13248"	"GUCY1B2"	2974	"mskcc.org"	"GRCh37"	"13"	51595923	51595923	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1113-1069C>T"	""	""	"ENST00000493639"	""	79	"55"	24	57	"57"	0	"GUCY1B2,intron_variant,,ENST00000493639,;GUCY1B2,intron_variant,,ENST00000389600,;GUCY1B2,intron_variant,,ENST00000532104,;GUCY1B2,intron_variant,,ENST00000533288,;GUCY1B2,intron_variant,,ENST00000537462,;GUCY1B2,intron_variant,,ENST00000531898,;"	"A"	"ENSG00000123201"	"ENST00000493639"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2871"	""	""	""	""	""	"1"	NA	-1	"GUCY1B2"	"HGNC"	4686	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"9/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"22d50012-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30379746835443	"WGS"	FALSE
"13249"	"RP11-248G5.8"	101930578	"mskcc.org"	"GRCh37"	"13"	52740684	52740684	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000451298"	""	65	"59"	6	47	"47"	0	"RP11-248G5.8,downstream_gene_variant,,ENST00000451298,;MRPS31P5,downstream_gene_variant,,ENST00000416599,;MRPS31P5,downstream_gene_variant,,ENST00000606974,;MRPS31P5,downstream_gene_variant,,ENST00000607588,;"	"T"	"ENSG00000217576"	"ENST00000451298"	"Transcript"	"downstream_gene_variant"	"-/3796"	""	""	""	""	""	"1"	"1160"	-1	"RP11-248G5.8"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"22d5385c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"13250"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	52944278	52944278	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"78"	6	47	"47"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"22d545ea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"13251"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	53952915	53952915	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"52"	23	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"22d5739e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306666666666667	"WGS"	FALSE
"13252"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	54077351	54077351	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"61"	8	40	"40"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"22d57e34-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115942028985507	"WGS"	FALSE
"13253"	"LINC00558"	100861552	"mskcc.org"	"GRCh37"	"13"	54428099	54428099	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.432+9442C>G"	""	""	"ENST00000569422"	""	107	"74"	33	58	"58"	0	"LINC00558,intron_variant,,ENST00000569422,;"	"G"	"ENSG00000261517"	"ENST00000569422"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3163"	""	""	""	""	""	"1"	NA	1	"LINC00558"	"HGNC"	43702	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"22d5891a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308411214953271	"WGS"	FALSE
"13254"	"LINC00558"	100861552	"mskcc.org"	"GRCh37"	"13"	54439549	54439549	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.433-5051G>A"	""	""	"ENST00000569422"	""	87	"62"	25	48	"48"	0	"LINC00558,intron_variant,,ENST00000569422,;"	"A"	"ENSG00000261517"	"ENST00000569422"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3163"	""	""	""	""	""	"1"	NA	1	"LINC00558"	"HGNC"	43702	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"22d589ce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28735632183908	"WGS"	FALSE
"13255"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	55045139	55045139	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"81"	7	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"22d5a0c6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0795454545454545	"WGS"	FALSE
"13256"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	55074534	55074534	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"55"	31	44	"43"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"22d5a17a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36046511627907	"WGS"	FALSE
"13257"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	57008744	57008744	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"54"	44	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"22d5dd34-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.448979591836735	"WGS"	FALSE
"13258"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	57254197	57254197	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"61"	33	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"22d5e57c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351063829787234	"WGS"	FALSE
"13259"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	57922458	57922458	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"46"	20	44	"44"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"22d5f40e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303030303030303	"WGS"	FALSE
"13260"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	58827880	58827880	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"50"	28	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"22d60c6e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358974358974359	"WGS"	FALSE
"13261"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	58836425	58836425	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"66"	19	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"22d60d22-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223529411764706	"WGS"	FALSE
"13262"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	59443682	59443682	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"65"	26	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"22d61f56-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"13263"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	65775982	65775982	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"55"	21	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"22d6eb52-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276315789473684	"WGS"	FALSE
"13264"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	65792968	65792968	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"53"	25	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"22d6ed96-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.320512820512821	"WGS"	FALSE
"13265"	"ENSR00000517141"	0	"mskcc.org"	"GRCh37"	"13"	66833543	66833543	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000517141"	""	97	"53"	44	38	"38"	0	""	"A"	""	"ENSR00000517141"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"22d705e2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.45360824742268	"WGS"	FALSE
"13266"	"OR7E33P"	0	"mskcc.org"	"GRCh37"	"13"	68482728	68482728	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000437705"	""	89	"55"	34	39	"39"	0	"OR7E33P,upstream_gene_variant,,ENST00000437705,;"	"A"	"ENSG00000226537"	"ENST00000437705"	"Transcript"	"upstream_gene_variant"	"-/862"	""	""	""	""	""	"1"	"2491"	1	"OR7E33P"	"HGNC"	8406	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"22d7318e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.382022471910112	"WGS"	FALSE
"13267"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	69553425	69553425	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"45"	30	40	"40"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"22d747a0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WGS"	FALSE
"13268"	"LINC00383"	0	"mskcc.org"	"GRCh37"	"13"	69820651	69820651	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.104-23372T>C"	""	""	"ENST00000433664"	""	86	"72"	14	45	"45"	0	"LINC00383,intron_variant,,ENST00000433664,;"	"C"	"ENSG00000237534"	"ENST00000433664"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/817"	""	""	""	""	""	"1"	NA	1	"LINC00383"	"HGNC"	42710	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"22d75100-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162790697674419	"WGS"	FALSE
"13269"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	71180861	71180861	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"59"	21	61	"60"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"22d77e0a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2625	"WGS"	FALSE
"13270"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	72579815	72579815	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"57"	44	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"22d7a98e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.435643564356436	"WGS"	FALSE
"13271"	"MZT1"	440145	"mskcc.org"	"GRCh37"	"13"	73288626	73288626	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.226-4143C>T"	""	""	"ENST00000377818"	""	88	"80"	8	54	"54"	0	"MZT1,intron_variant,,ENST00000377818,NM_001071775.2;"	"A"	"ENSG00000204899"	"ENST00000377818"	"Transcript"	"intron_variant"	"-/2299"	"-/249"	"-/82"	""	""	""	"1"	NA	-1	"MZT1"	"HGNC"	33830	"protein_coding"	"YES"	"CCDS31990.1"	"ENSP00000367049"	"Q08AG7"	""	"UPI000013D73A"	"NM_001071775.2"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"22d7be38-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"13272"	"LINC00392"	0	"mskcc.org"	"GRCh37"	"13"	74149232	74149232	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.59+10793A>T"	""	""	"ENST00000430033"	""	23	"19"	4	6	"6"	0	"LINC00392,intron_variant,,ENST00000430033,;LINC00393,intron_variant,,ENST00000452852,;"	"T"	"ENSG00000228295"	"ENST00000430033"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/557"	""	""	""	""	""	"1"	NA	1	"LINC00392"	"HGNC"	42720	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"22d7f236-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"13273"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	75319562	75319562	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"52"	29	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"22d8145a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358024691358025	"WGS"	FALSE
"13274"	"RNF219-AS1"	100874222	"mskcc.org"	"GRCh37"	"13"	78715570	78715570	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.231-132818A>T"	""	""	"ENST00000607862"	""	75	"51"	24	52	"51"	1	"RNF219-AS1,intron_variant,,ENST00000607862,;RNF219-AS1,intron_variant,,ENST00000606429,;RNF219-AS1,intron_variant,,ENST00000605996,;RNF219-AS1,intron_variant,,ENST00000444769,;RNF219-AS1,intron_variant,,ENST00000560209,;RNF219-AS1,intron_variant,,ENST00000607860,;RNF219-AS1,intron_variant,,ENST00000607205,;RNF219-AS1,intron_variant,,ENST00000606124,;RNF219-AS1,intron_variant,,ENST00000606376,;RNF219-AS1,intron_variant,,ENST00000606803,;RNF219-AS1,intron_variant,,ENST00000607220,;RNF219-AS1,intron_variant,,ENST00000430549,;RNF219-AS1,intron_variant,,ENST00000606187,;"	"T"	"ENSG00000234377"	"ENST00000607862"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/6001"	""	""	""	""	""	"1"	NA	1	"RNF219-AS1"	"HGNC"	42700	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"22d896a0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32	"WGS"	FALSE
"13275"	"RNF219-AS1"	100874222	"mskcc.org"	"GRCh37"	"13"	78725625	78725625	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.231-122763A>C"	""	""	"ENST00000607862"	""	87	"59"	28	51	"51"	0	"RNF219-AS1,intron_variant,,ENST00000607862,;RNF219-AS1,intron_variant,,ENST00000606429,;RNF219-AS1,intron_variant,,ENST00000605996,;RNF219-AS1,intron_variant,,ENST00000444769,;RNF219-AS1,intron_variant,,ENST00000560209,;RNF219-AS1,intron_variant,,ENST00000607860,;RNF219-AS1,intron_variant,,ENST00000607205,;RNF219-AS1,intron_variant,,ENST00000606124,;RNF219-AS1,intron_variant,,ENST00000606376,;RNF219-AS1,intron_variant,,ENST00000606803,;RNF219-AS1,intron_variant,,ENST00000607220,;RNF219-AS1,intron_variant,,ENST00000430549,;RNF219-AS1,intron_variant,,ENST00000606187,;"	"C"	"ENSG00000234377"	"ENST00000607862"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/6001"	""	""	""	""	""	"1"	NA	1	"RNF219-AS1"	"HGNC"	42700	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"22d89740-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32183908045977	"WGS"	FALSE
"13276"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	82607671	82607671	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"47"	35	36	"36"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"22d955a4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.426829268292683	"WGS"	FALSE
"13277"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	83363414	83363414	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"64"	11	38	"38"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"22d969a4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146666666666667	"WGS"	FALSE
"13278"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	84741347	84741347	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"62"	31	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"22d98ec0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"13279"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	84938376	84938376	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"63"	35	43	"43"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"22d99230-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WGS"	FALSE
"13280"	"MTND5P3"	0	"mskcc.org"	"GRCh37"	"13"	85100418	85100418	"+"	"3'Flank"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000438536"	""	98	"61"	37	49	"49"	0	"MTND5P3,downstream_gene_variant,,ENST00000438536,;MTND4P1,downstream_gene_variant,,ENST00000457501,;"	"G"	"ENSG00000232447"	"ENST00000438536"	"Transcript"	"downstream_gene_variant"	"-/1800"	""	""	""	""	""	"1"	"2368"	1	"MTND5P3"	"HGNC"	42034	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"22d99712-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.377551020408163	"WGS"	FALSE
"13281"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	87390818	87390818	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"61"	34	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"22d9de02-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357894736842105	"WGS"	FALSE
"13282"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	87474083	87474083	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"61"	28	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"22d9e028-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314606741573034	"WGS"	FALSE
"13283"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	87478200	87478200	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"67"	38	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"22d9e0d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.361904761904762	"WGS"	FALSE
"13284"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	87683704	87683704	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"58"	33	43	"43"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"22d9e73a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.362637362637363	"WGS"	FALSE
"13285"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	87891141	87891141	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"79"	13	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"22d9f9d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141304347826087	"WGS"	FALSE
"13286"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	89263210	89263210	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"75"	21	52	"52"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"22da2d80-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WGS"	FALSE
"13287"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	89796131	89796131	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"84"	12	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"22da3c26-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"13288"	"GPC5"	2262	"mskcc.org"	"GRCh37"	"13"	92150355	92150355	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.325+49179C>T"	""	""	"ENST00000377067"	""	56	"32"	24	34	"33"	1	"GPC5,intron_variant,,ENST00000377067,NM_004466.4;"	"T"	"ENSG00000179399"	"ENST00000377067"	"Transcript"	"intron_variant"	"-/2889"	"-/1719"	"-/572"	""	""	""	"1"	NA	1	"GPC5"	"HGNC"	4453	"protein_coding"	"YES"	"CCDS9468.1"	"ENSP00000366267"	"P78333"	""	"UPI0000001C85"	"NM_004466.4"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"22da76dc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WGS"	FALSE
"13289"	"SLC15A1"	6564	"mskcc.org"	"GRCh37"	"13"	99375119	99375119	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs547738930"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.366-962G>A"	""	""	"ENST00000376503"	""	87	"49"	38	54	"54"	0	"SLC15A1,intron_variant,,ENST00000376503,NM_005073.3;SLC15A1,intron_variant,,ENST00000376494,;"	"T"	"ENSG00000088386"	"ENST00000376503"	"Transcript"	"intron_variant"	"-/3106"	"-/2127"	"-/708"	""	""	"rs547738930"	"1"	NA	-1	"SLC15A1"	"HGNC"	10920	"protein_coding"	"YES"	"CCDS9489.1"	"ENSP00000365686"	"P46059"	"B2CQT6"	"UPI000013166F"	"NM_005073.3"	""	""	""	"5/22"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"22dba23c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.436781609195402	"WGS"	FALSE
"13290"	"CLYBL"	171425	"mskcc.org"	"GRCh37"	"13"	100272801	100272801	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.62+13790T>A"	""	""	"ENST00000376360"	""	89	"83"	6	45	"45"	0	"CLYBL,intron_variant,,ENST00000376355,NM_206808.2;CLYBL,intron_variant,,ENST00000376360,;CLYBL,intron_variant,,ENST00000444838,;CLYBL,intron_variant,,ENST00000339105,;CLYBL,intron_variant,,ENST00000376354,;"	"A"	"ENSG00000125246"	"ENST00000376360"	"Transcript"	"intron_variant"	"-/2207"	"-/1023"	"-/340"	""	""	""	"1"	NA	1	"CLYBL"	"HGNC"	18355	"protein_coding"	"YES"	"CCDS32002.1"	"ENSP00000365538"	"Q8N0X4"	"Q5JVC0"	"UPI0000071ADE"	""	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"22dbd1a8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"13291"	"CLYBL"	171425	"mskcc.org"	"GRCh37"	"13"	100493873	100493873	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.250-17242T>C"	""	""	"ENST00000376360"	""	77	"70"	7	45	"45"	0	"CLYBL,intron_variant,,ENST00000376355,NM_206808.2;CLYBL,intron_variant,,ENST00000376360,;CLYBL,intron_variant,,ENST00000444838,;CLYBL,intron_variant,,ENST00000339105,;CLYBL,intron_variant,,ENST00000376354,;"	"C"	"ENSG00000125246"	"ENST00000376360"	"Transcript"	"intron_variant"	"-/2207"	"-/1023"	"-/340"	""	""	""	"1"	NA	1	"CLYBL"	"HGNC"	18355	"protein_coding"	"YES"	"CCDS32002.1"	"ENSP00000365538"	"Q8N0X4"	"Q5JVC0"	"UPI0000071ADE"	""	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"22dbe986-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"13292"	"CLYBL"	171425	"mskcc.org"	"GRCh37"	"13"	100493874	100493874	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.250-17241G>C"	""	""	"ENST00000376360"	""	78	"72"	6	44	"44"	0	"CLYBL,intron_variant,,ENST00000376355,NM_206808.2;CLYBL,intron_variant,,ENST00000376360,;CLYBL,intron_variant,,ENST00000444838,;CLYBL,intron_variant,,ENST00000339105,;CLYBL,intron_variant,,ENST00000376354,;"	"C"	"ENSG00000125246"	"ENST00000376360"	"Transcript"	"intron_variant"	"-/2207"	"-/1023"	"-/340"	""	""	""	"1"	NA	1	"CLYBL"	"HGNC"	18355	"protein_coding"	"YES"	"CCDS32002.1"	"ENSP00000365538"	"Q8N0X4"	"Q5JVC0"	"UPI0000071ADE"	""	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"22dbea3a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"13293"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	105952472	105952472	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	58	"27"	31	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"22dcc388-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.53448275862069	"WGS"	FALSE
"13294"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	106237039	106237039	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"75"	7	37	"37"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"22dcd15c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"13295"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	108662505	108662505	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"70"	32	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"22dd3da4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313725490196078	"WGS"	FALSE
"13296"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	111228648	111228648	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"55"	39	39	"39"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"22ddc4ea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.414893617021277	"WGS"	FALSE
"13297"	"RPL21P107"	0	"mskcc.org"	"GRCh37"	"13"	111419955	111419955	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000411449"	""	73	"59"	14	49	"49"	0	"RPL21P107,upstream_gene_variant,,ENST00000411449,;"	"G"	"ENSG00000225239"	"ENST00000411449"	"Transcript"	"upstream_gene_variant"	"-/460"	""	""	""	""	""	"1"	"4475"	-1	"RPL21P107"	"HGNC"	36313	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"22ddd43a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191780821917808	"WGS"	FALSE
"13298"	"RP11-450H6.3"	0	"mskcc.org"	"GRCh37"	"13"	112742937	112742937	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000567967"	""	95	"63"	32	55	"55"	0	"RP11-450H6.3,downstream_gene_variant,,ENST00000567967,;"	"A"	"ENSG00000260385"	"ENST00000567967"	"Transcript"	"downstream_gene_variant"	"-/1923"	""	""	""	""	""	"1"	"3152"	1	"RP11-450H6.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"22de5bbc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336842105263158	"WGS"	FALSE
"13299"	"LINC01043"	101928752	"mskcc.org"	"GRCh37"	"13"	112972872	112972872	"+"	"RNA"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.5092G>A"	""	""	"ENST00000565936"	"1/2"	22	"18"	4	10	"10"	0	"LINC01043,non_coding_transcript_exon_variant,,ENST00000565936,;LINC01044,downstream_gene_variant,,ENST00000413637,;"	"A"	"ENSG00000260343"	"ENST00000565936"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"5092/6897"	""	""	""	""	""	"1"	NA	1	"LINC01043"	"HGNC"	49031	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"22df01d4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"13300"	"MCF2L"	23263	"mskcc.org"	"GRCh37"	"13"	113680312	113680312	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.278+1240T>G"	""	""	"ENST00000535094"	""	40	"36"	4	10	"10"	0	"MCF2L,intron_variant,,ENST00000397030,;MCF2L,intron_variant,,ENST00000375601,;MCF2L,intron_variant,,ENST00000375604,;MCF2L,intron_variant,,ENST00000535094,NM_001112732.2;MCF2L,intron_variant,,ENST00000375608,;MCF2L,intron_variant,,ENST00000423482,NM_024979.4;MCF2L,intron_variant,,ENST00000434480,;MCF2L,intron_variant,,ENST00000421756,;MCF2L,intron_variant,,ENST00000442652,;MCF2L,intron_variant,,ENST00000375597,;MCF2L,intron_variant,,ENST00000409954,;MCF2L,intron_variant,,ENST00000397024,;MCF2L,intron_variant,,ENST00000473345,;MCF2L,intron_variant,,ENST00000486806,;MCF2L,downstream_gene_variant,,ENST00000433807,;MCF2L,downstream_gene_variant,,ENST00000486210,;"	"G"	"ENSG00000126217"	"ENST00000535094"	"Transcript"	"intron_variant"	"-/3752"	"-/3378"	"-/1125"	""	""	""	"1"	NA	1	"MCF2L"	"HGNC"	14576	"protein_coding"	"YES"	"CCDS45070.2"	"ENSP00000440374"	"O15068"	"B7ZBR9,B7Z9K4"	"UPI0001CE935F"	"NM_001112732.2"	""	""	""	"3/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"22dfadb4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"13301"	"RASA3"	22821	"mskcc.org"	"GRCh37"	"13"	114882456	114882456	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55+15454C>G"	""	""	"ENST00000334062"	""	43	"39"	4	16	"16"	0	"RASA3,intron_variant,,ENST00000334062,NM_007368.2;RASA3,intron_variant,,ENST00000542651,;"	"C"	"ENSG00000185989"	"ENST00000334062"	"Transcript"	"intron_variant"	"-/4191"	"-/2505"	"-/834"	""	""	""	"1"	NA	-1	"RASA3"	"HGNC"	20331	"protein_coding"	"YES"	"CCDS32016.1"	"ENSP00000335029"	"Q14644"	"F8W6X8"	"UPI000000DBC1"	"NM_007368.2"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"22e1336e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"13302"	"RP11-536C10.13"	0	"mskcc.org"	"GRCh37"	"14"	19430373	19430373	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000550518"	""	55	"37"	18	31	"31"	0	"RP11-536C10.13,downstream_gene_variant,,ENST00000550518,;"	"A"	"ENSG00000257644"	"ENST00000550518"	"Transcript"	"downstream_gene_variant"	"-/394"	""	""	""	""	""	"1"	"2930"	1	"RP11-536C10.13"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"22e1df30-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.327272727272727	"WGS"	FALSE
"13303"	"POTEG"	728378	"mskcc.org"	"GRCh37"	"14"	19594378	19594378	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000409832"	""	104	"95"	9	60	"60"	0	"POTEG,downstream_gene_variant,,ENST00000409832,NM_001005356.2;"	"C"	"ENSG00000222036"	"ENST00000409832"	"Transcript"	"downstream_gene_variant"	"-/7062"	"-/1527"	"-/508"	""	""	""	"1"	"4300"	1	"POTEG"	"HGNC"	33896	"protein_coding"	"YES"	"CCDS32018.1"	"ENSP00000386971"	"Q6S5H5"	""	"UPI00004443FE"	"NM_001005356.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"22e22a6c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0865384615384615	"WGS"	FALSE
"13304"	"RP11-244H18.4"	0	"mskcc.org"	"GRCh37"	"14"	20097300	20097300	"+"	"RNA"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.19G>C"	""	""	"ENST00000547023"	"1/1"	148	"122"	26	73	"73"	0	"RP11-597A11.1,intron_variant,,ENST00000548261,;RP11-597A11.1,intron_variant,,ENST00000548217,;RP11-244H18.4,non_coding_transcript_exon_variant,,ENST00000547023,;"	"C"	"ENSG00000257432"	"ENST00000547023"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"19/1335"	""	""	""	""	""	"1"	NA	1	"RP11-244H18.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"22e2ea88-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175675675675676	"WGS"	FALSE
"13305"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"14"	21145718	21145718	"+"	"5'Flank"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000362591"	""	89	"61"	28	54	"54"	0	"Y_RNA,upstream_gene_variant,,ENST00000362591,;"	"C"	"ENSG00000199461"	"ENST00000362591"	"Transcript"	"upstream_gene_variant"	"-/102"	""	""	""	""	""	"1"	"1852"	1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"22e33b46-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314606741573034	"WGS"	FALSE
"13306"	"TMEM253"	643382	"mskcc.org"	"GRCh37"	"14"	21575497	21575497	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000418511"	""	78	"52"	26	55	"55"	0	"ZNF219,upstream_gene_variant,,ENST00000451119,NM_001102454.1;TMEM253,downstream_gene_variant,,ENST00000418511,NM_001146683.1;TMEM253,downstream_gene_variant,,ENST00000556585,;TMEM253,downstream_gene_variant,,ENST00000554329,;ZNF219,upstream_gene_variant,,ENST00000555697,;RP11-998D10.4,upstream_gene_variant,,ENST00000320322,;TMEM253,downstream_gene_variant,,ENST00000555314,;TMEM253,downstream_gene_variant,,ENST00000553744,;RP11-998D10.5,downstream_gene_variant,,ENST00000555477,;"	"T"	"ENSG00000232070"	"ENST00000418511"	"Transcript"	"downstream_gene_variant"	"-/1526"	"-/654"	"-/217"	""	""	""	"1"	"3614"	1	"TMEM253"	"HGNC"	32545	"protein_coding"	"YES"	"CCDS53884.1"	"ENSP00000453962"	"P0C7T8"	""	"UPI0000DD825A"	"NM_001146683.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"22e34dca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"13307"	"NOVA1"	4857	"mskcc.org"	"GRCh37"	"14"	27035560	27035560	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.280+29056G>T"	""	""	"ENST00000539517"	""	112	"70"	42	56	"56"	0	"NOVA1,intron_variant,,ENST00000539517,NM_002515.2;NOVA1,intron_variant,,ENST00000465357,NM_006489.2;NOVA1,intron_variant,,ENST00000267422,;NOVA1,intron_variant,,ENST00000574031,;NOVA1,intron_variant,,ENST00000549571,;NOVA1,intron_variant,,ENST00000449198,;NOVA1,intron_variant,,ENST00000547619,;NOVA1,intron_variant,,ENST00000344429,NM_006491.2;NOVA1,intron_variant,,ENST00000549146,;NOVA1,intron_variant,,ENST00000347476,;NOVA1,intron_variant,,ENST00000551754,;NOVA1,intron_variant,,ENST00000483536,;NOVA1,intron_variant,,ENST00000546546,;NOVA1,intron_variant,,ENST00000547415,;"	"A"	"ENSG00000139910"	"ENST00000539517"	"Transcript"	"intron_variant"	"-/3912"	"-/1524"	"-/507"	""	""	""	"1"	NA	-1	"NOVA1"	"HGNC"	7886	"protein_coding"	"YES"	"CCDS32061.1"	"ENSP00000438875"	"P51513"	"F8VW64,B7Z770"	"UPI000013D74E"	"NM_002515.2"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"22e47bfa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WGS"	FALSE
"13308"	"RP11-384J4.2"	0	"mskcc.org"	"GRCh37"	"14"	27405731	27405731	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.205+92869A>T"	""	""	"ENST00000552303"	""	101	"55"	46	58	"58"	0	"RP11-384J4.2,intron_variant,,ENST00000552303,;RP11-384J4.2,downstream_gene_variant,,ENST00000550024,;"	"T"	"ENSG00000258081"	"ENST00000552303"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/568"	""	""	""	""	""	"1"	NA	1	"RP11-384J4.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"22e48c94-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.455445544554455	"WGS"	FALSE
"13309"	"RP11-384J4.2"	0	"mskcc.org"	"GRCh37"	"14"	27604977	27604977	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.424+1733T>A"	""	""	"ENST00000552303"	""	85	"80"	5	41	"41"	0	"RP11-384J4.2,intron_variant,,ENST00000552303,;"	"A"	"ENSG00000258081"	"ENST00000552303"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/568"	""	""	""	""	""	"1"	NA	1	"RP11-384J4.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"22e49216-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"13310"	"CTD-3006G17.2"	728755	"mskcc.org"	"GRCh37"	"14"	28025598	28025598	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.262+100051T>A"	""	""	"ENST00000553392"	""	100	"94"	6	46	"46"	0	"CTD-3006G17.2,intron_variant,,ENST00000553392,;CTD-3006G17.2,intron_variant,,ENST00000556890,;CTD-3006G17.2,intron_variant,,ENST00000554904,;CTD-3006G17.2,intron_variant,,ENST00000555797,;"	"T"	"ENSG00000258932"	"ENST00000553392"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/674"	""	""	""	""	""	"1"	NA	-1	"CTD-3006G17.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"22e49e5a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.06	"WGS"	FALSE
"13311"	"RP11-148E17.1"	0	"mskcc.org"	"GRCh37"	"14"	29458497	29458497	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.244+2755G>A"	""	""	"ENST00000551227"	""	63	"54"	9	35	"35"	0	"RP11-148E17.1,intron_variant,,ENST00000551227,;"	"A"	"ENSG00000258028"	"ENST00000551227"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/741"	""	""	""	""	""	"1"	NA	1	"RP11-148E17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"22e4e20c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"13312"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	29658277	29658277	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"74"	46	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"22e4eb62-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.383333333333333	"WGS"	FALSE
"13313"	"HECTD1"	25831	"mskcc.org"	"GRCh37"	"14"	31574161	31574161	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7399+428T>C"	""	""	"ENST00000399332"	""	101	"94"	7	49	"49"	0	"HECTD1,intron_variant,,ENST00000399332,NM_015382.2;HECTD1,intron_variant,,ENST00000553700,;HECTD1,intron_variant,,ENST00000554882,;HECTD1,intron_variant,,ENST00000555843,;HECTD1,intron_variant,,ENST00000557695,;HECTD1,upstream_gene_variant,,ENST00000556281,;HECTD1,downstream_gene_variant,,ENST00000555311,;"	"G"	"ENSG00000092148"	"ENST00000399332"	"Transcript"	"intron_variant"	"-/9134"	"-/7833"	"-/2610"	""	""	""	"1"	NA	-1	"HECTD1"	"HGNC"	20157	"protein_coding"	"YES"	"CCDS41939.1"	"ENSP00000382269"	"Q9ULT8"	"G3V4V5"	"UPI0000E8AC98"	"NM_015382.2"	""	""	""	"40/42"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"22e543e6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0693069306930693	"WGS"	FALSE
"13314"	"NPAS3"	64067	"mskcc.org"	"GRCh37"	"14"	34253960	34253960	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1153+6182T>A"	""	""	"ENST00000356141"	""	72	"65"	7	46	"46"	0	"NPAS3,intron_variant,,ENST00000346562,NM_022123.2,NM_173159.2,NM_001164749.1,NM_001165893.1;NPAS3,intron_variant,,ENST00000548645,;NPAS3,intron_variant,,ENST00000551492,;NPAS3,intron_variant,,ENST00000356141,;NPAS3,intron_variant,,ENST00000357798,;NPAS3,intron_variant,,ENST00000551634,;NPAS3,downstream_gene_variant,,ENST00000552874,;"	"A"	"ENSG00000151322"	"ENST00000356141"	"Transcript"	"intron_variant"	"-/2802"	"-/2802"	"-/933"	""	""	""	"1"	NA	1	"NPAS3"	"HGNC"	19311	"protein_coding"	"YES"	"CCDS53891.1"	"ENSP00000348460"	"Q8IXF0"	""	"UPI00000743C2"	""	""	""	""	"9/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"22e5ac82-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"13315"	"NPAS3"	64067	"mskcc.org"	"GRCh37"	"14"	34270552	34270552	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000356141"	""	88	"54"	34	64	"64"	0	"NPAS3,3_prime_UTR_variant,,ENST00000346562,NM_022123.2,NM_173159.2,NM_001164749.1,NM_001165893.1;NPAS3,downstream_gene_variant,,ENST00000548645,;NPAS3,downstream_gene_variant,,ENST00000551492,;NPAS3,downstream_gene_variant,,ENST00000356141,;NPAS3,downstream_gene_variant,,ENST00000357798,;NPAS3,downstream_gene_variant,,ENST00000551634,;"	"T"	"ENSG00000151322"	"ENST00000356141"	"Transcript"	"downstream_gene_variant"	"-/2802"	"-/2802"	"-/933"	""	""	""	"1"	"237"	1	"NPAS3"	"HGNC"	19311	"protein_coding"	"YES"	"CCDS53891.1"	"ENSP00000348460"	"Q8IXF0"	""	"UPI00000743C2"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"22e5ade0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.386363636363636	"WGS"	FALSE
"13316"	"EGLN3"	112399	"mskcc.org"	"GRCh37"	"14"	34864755	34864755	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.59+67167T>C"	""	""	"ENST00000551935"	""	108	"65"	43	47	"47"	0	"EGLN3,intron_variant,,ENST00000551935,;"	"G"	"ENSG00000129521"	"ENST00000551935"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/575"	""	""	""	""	""	"1"	NA	-1	"EGLN3"	"HGNC"	14661	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"22e5c53c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.398148148148148	"WGS"	FALSE
"13317"	"AL356806.3"	0	"mskcc.org"	"GRCh37"	"14"	34881118	34881118	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000422524"	""	86	"80"	6	30	"30"	0	"EGLN3,intron_variant,,ENST00000551935,;AL356806.3,downstream_gene_variant,,ENST00000422524,;"	"T"	"ENSG00000223593"	"ENST00000422524"	"Transcript"	"downstream_gene_variant"	"-/916"	""	""	""	""	""	"1"	"4775"	-1	"AL356806.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"22e5c802-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"13318"	"PPP2R3C"	55012	"mskcc.org"	"GRCh37"	"14"	35589591	35589591	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.58+1517A>G"	""	""	"ENST00000261475"	""	62	"57"	5	35	"35"	0	"PPP2R3C,intron_variant,,ENST00000261475,NM_017917.2;PPP2R3C,intron_variant,,ENST00000555644,;PPP2R3C,intron_variant,,ENST00000557278,;PPP2R3C,intron_variant,,ENST00000554361,;KIAA0391,upstream_gene_variant,,ENST00000250377,NM_014672.3,NM_001256679.1;KIAA0391,upstream_gene_variant,,ENST00000534898,;KIAA0391,upstream_gene_variant,,ENST00000321130,NM_001256678.1;KIAA0391,upstream_gene_variant,,ENST00000603544,;KIAA0391,upstream_gene_variant,,ENST00000604948,;KIAA0391,upstream_gene_variant,,ENST00000605870,NM_001256680.1,NM_001256681.1;KIAA0391,upstream_gene_variant,,ENST00000557404,;KIAA0391,upstream_gene_variant,,ENST00000603611,;KIAA0391,upstream_gene_variant,,ENST00000605201,;KIAA0391,upstream_gene_variant,,ENST00000604073,;KIAA0391,upstream_gene_variant,,ENST00000603588,;PPP2R3C,intron_variant,,ENST00000557217,;PPP2R3C,intron_variant,,ENST00000554222,;PPP2R3C,intron_variant,,ENST00000553273,;PPP2R3C,intron_variant,,ENST00000554265,;PPP2R3C,intron_variant,,ENST00000557773,;PPP2R3C,intron_variant,,ENST00000556254,;PPP2R3C,intron_variant,,ENST00000554899,;PPP2R3C,intron_variant,,ENST00000555630,;PPP2R3C,intron_variant,,ENST00000554488,;PPP2R3C,intron_variant,,ENST00000555726,;PPP2R3C,intron_variant,,ENST00000557288,;PPP2R3C,intron_variant,,ENST00000553282,;PPP2R3C,intron_variant,,ENST00000554563,;KIAA0391,upstream_gene_variant,,ENST00000557565,;"	"C"	"ENSG00000092020"	"ENST00000261475"	"Transcript"	"intron_variant"	"-/1839"	"-/1362"	"-/453"	""	""	""	"1"	NA	-1	"PPP2R3C"	"HGNC"	17485	"protein_coding"	"YES"	"CCDS9654.1"	"ENSP00000261475"	"Q969Q6"	""	"UPI000006E6EC"	"NM_017917.2"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"22e6227a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WGS"	FALSE
"13319"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	36738276	36738276	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"66"	23	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"22e66d98-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258426966292135	"WGS"	FALSE
"13320"	"RP11-407N17.3"	4253	"mskcc.org"	"GRCh37"	"14"	39755998	39755998	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.220-4225A>G"	""	""	"ENST00000603904"	""	69	"60"	9	42	"42"	0	"RP11-407N17.3,intron_variant,,ENST00000553728,;CTAGE5,intron_variant,,ENST00000280083,;CTAGE5,intron_variant,,ENST00000396158,NM_001247989.1,NM_203355.2,NM_001247990.1,NM_005930.3;RP11-407N17.3,intron_variant,,ENST00000603904,NM_203356.2,NM_001247988.1;CTAGE5,intron_variant,,ENST00000553352,;CTAGE5,intron_variant,,ENST00000396165,;CTAGE5,intron_variant,,ENST00000341749,NM_203354.2;CTAGE5,intron_variant,,ENST00000557038,;CTAGE5,intron_variant,,ENST00000348007,;CTAGE5,intron_variant,,ENST00000341502,;CTAGE5,intron_variant,,ENST00000556148,;CTAGE5,intron_variant,,ENST00000555716,;CTAGE5,intron_variant,,ENST00000554392,;CTAGE5,intron_variant,,ENST00000556990,;"	"G"	"ENSG00000258941"	"ENST00000603904"	"Transcript"	"intron_variant"	"-/3511"	"-/2328"	"-/775"	""	""	""	"1"	NA	1	"RP11-407N17.3"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	"CCDS9676.1"	"ENSP00000473943"	""	""	"UPI000034ECC0"	"NM_203356.2,NM_001247988.1"	""	""	""	"4/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"22e6c856-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"13321"	"RP11-407N17.3"	4253	"mskcc.org"	"GRCh37"	"14"	39756014	39756014	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.220-4209C>T"	""	""	"ENST00000603904"	""	67	"59"	8	45	"45"	0	"RP11-407N17.3,intron_variant,,ENST00000553728,;CTAGE5,intron_variant,,ENST00000280083,;CTAGE5,intron_variant,,ENST00000396158,NM_001247989.1,NM_203355.2,NM_001247990.1,NM_005930.3;RP11-407N17.3,intron_variant,,ENST00000603904,NM_203356.2,NM_001247988.1;CTAGE5,intron_variant,,ENST00000553352,;CTAGE5,intron_variant,,ENST00000396165,;CTAGE5,intron_variant,,ENST00000341749,NM_203354.2;CTAGE5,intron_variant,,ENST00000557038,;CTAGE5,intron_variant,,ENST00000348007,;CTAGE5,intron_variant,,ENST00000341502,;CTAGE5,intron_variant,,ENST00000556148,;CTAGE5,intron_variant,,ENST00000555716,;CTAGE5,intron_variant,,ENST00000554392,;CTAGE5,intron_variant,,ENST00000556990,;"	"T"	"ENSG00000258941"	"ENST00000603904"	"Transcript"	"intron_variant"	"-/3511"	"-/2328"	"-/775"	""	""	""	"1"	NA	1	"RP11-407N17.3"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	"CCDS9676.1"	"ENSP00000473943"	""	""	"UPI000034ECC0"	"NM_203356.2,NM_001247988.1"	""	""	""	"4/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"22e6c90a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119402985074627	"WGS"	FALSE
"13322"	"FBXO33"	254170	"mskcc.org"	"GRCh37"	"14"	39874822	39874822	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.600-3107C>G"	""	""	"ENST00000298097"	""	83	"56"	27	44	"44"	0	"FBXO33,intron_variant,,ENST00000298097,NM_203301.3;FBXO33,intron_variant,,ENST00000554190,;"	"C"	"ENSG00000165355"	"ENST00000298097"	"Transcript"	"intron_variant"	"-/3853"	"-/1668"	"-/555"	""	""	""	"1"	NA	-1	"FBXO33"	"HGNC"	19833	"protein_coding"	"YES"	"CCDS9677.1"	"ENSP00000298097"	"Q7Z6M2"	"B4DFK5"	"UPI00001605E2"	"NM_203301.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"22e6cf54-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325301204819277	"WGS"	FALSE
"13323"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	40584684	40584684	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"64"	36	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"22e6e1d8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36	"WGS"	FALSE
"13324"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	42781903	42781903	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"68"	33	52	"52"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"22e71d4c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326732673267327	"WGS"	FALSE
"13325"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	42802714	42802714	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"60"	33	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"22e71e00-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354838709677419	"WGS"	FALSE
"13326"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	43751816	43751816	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"57"	37	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"22e736c4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.393617021276596	"WGS"	FALSE
"13327"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	43803806	43803806	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"91"	8	43	"43"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"22e73818-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0808080808080808	"WGS"	FALSE
"13328"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	43803832	43803832	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"75"	9	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"22e739f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"13329"	"RP11-305B6.3"	0	"mskcc.org"	"GRCh37"	"14"	44805153	44805153	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"rs181946472"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.69+48527T>A"	""	""	"ENST00000553827"	""	77	"71"	6	52	"52"	0	"RP11-305B6.3,intron_variant,,ENST00000553827,;"	"T"	"ENSG00000258969"	"ENST00000553827"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/257"	""	""	""	""	"rs181946472"	"1"	NA	-1	"RP11-305B6.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	"T:0.0062"	"T:0.0189"	"T:0.0014"	NA	"T:0.004"	"T:0"	"T:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"22e754e2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"13330"	"LINC00871"	100506412	"mskcc.org"	"GRCh37"	"14"	46646792	46646792	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.59-33235G>T"	""	""	"ENST00000556886"	""	80	"47"	33	49	"49"	0	"LINC00871,intron_variant,,ENST00000556886,;LINC00871,intron_variant,,ENST00000555246,;"	"T"	"ENSG00000258700"	"ENST00000556886"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/866"	""	""	""	""	""	"1"	NA	1	"LINC00871"	"HGNC"	47038	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"22e79d1c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4125	"WGS"	FALSE
"13331"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	50344043	50344043	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"84"	7	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"22e81954-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"13332"	"ENSR00001646861"	0	"mskcc.org"	"GRCh37"	"14"	54697441	54697441	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001646861"	""	103	"57"	46	49	"49"	0	""	"G"	""	"ENSR00001646861"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"22e90b2a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.446601941747573	"WGS"	FALSE
"13333"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	55952621	55952621	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"66"	5	38	"38"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"22e959ea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0704225352112676	"WGS"	FALSE
"13334"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	55956989	55956989	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"70"	7	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"22e95aa8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"13335"	"OTX2-AS1"	100309464	"mskcc.org"	"GRCh37"	"14"	57517912	57517912	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.345-90800G>A"	""	""	"ENST00000554725"	""	78	"50"	28	42	"42"	0	"OTX2-AS1,intron_variant,,ENST00000554725,;"	"A"	"ENSG00000248550"	"ENST00000554725"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/587"	""	""	""	""	""	"1"	NA	1	"OTX2-AS1"	"HGNC"	43906	"antisense"	""	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"22e99b62-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358974358974359	"WGS"	FALSE
"13336"	"PSMA3"	5684	"mskcc.org"	"GRCh37"	"14"	58723179	58723179	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.229-1284A>C"	""	""	"ENST00000216455"	""	75	"69"	6	28	"28"	0	"PSMA3,intron_variant,,ENST00000216455,NM_152132.2,NM_002788.3;PSMA3,intron_variant,,ENST00000412908,;PSMA3,intron_variant,,ENST00000557508,;PSMA3,upstream_gene_variant,,ENST00000553677,;C14orf37,intron_variant,,ENST00000554218,;PSMA3,intron_variant,,ENST00000554812,;PSMA3,intron_variant,,ENST00000553665,;PSMA3,intron_variant,,ENST00000557087,;PSMA3,intron_variant,,ENST00000555743,;PSMA3,intron_variant,,ENST00000555931,;PSMA3,intron_variant,,ENST00000556321,;"	"C"	"ENSG00000100567"	"ENST00000216455"	"Transcript"	"intron_variant"	"-/970"	"-/768"	"-/255"	""	""	""	"1"	NA	1	"PSMA3"	"HGNC"	9532	"protein_coding"	"YES"	"CCDS9731.1"	"ENSP00000216455"	"P25788"	"G3V4X5"	"UPI000000D961"	"NM_152132.2,NM_002788.3"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"22e9c4ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"13337"	"SLC38A6"	145389	"mskcc.org"	"GRCh37"	"14"	61461062	61461062	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs140055793"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.310+9541G>A"	""	""	"ENST00000354886"	""	70	"63"	7	52	"52"	0	"SLC38A6,intron_variant,,ENST00000354886,NM_001172702.1;SLC38A6,intron_variant,,ENST00000456840,;SLC38A6,intron_variant,,ENST00000267488,NM_153811.2;SLC38A6,intron_variant,,ENST00000451406,;SLC38A6,intron_variant,,ENST00000533744,;SLC38A6,intron_variant,,ENST00000526105,;SLC38A6,intron_variant,,ENST00000554304,;SLC38A6,intron_variant,,ENST00000532148,;SLC38A6,intron_variant,,ENST00000525723,;SLC38A6,intron_variant,,ENST00000491344,;SLC38A6,intron_variant,,ENST00000529345,;SLC38A6,intron_variant,,ENST00000527591,;SLC38A6,intron_variant,,ENST00000524402,;SLC38A6,intron_variant,,ENST00000528350,;SLC38A6,intron_variant,,ENST00000554072,;"	"A"	"ENSG00000139974"	"ENST00000354886"	"Transcript"	"intron_variant"	"-/1750"	"-/1566"	"-/521"	""	""	"rs140055793"	"1"	NA	1	"SLC38A6"	"HGNC"	19863	"protein_coding"	"YES"	"CCDS53900.1"	"ENSP00000346959"	"Q8IZM9"	"G3V3H5"	"UPI000049DDBA"	"NM_001172702.1"	""	""	""	"3/16"	""	"A:0.0036"	"A:0.0136"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"22ea2424-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"13338"	"KCNH5"	27133	"mskcc.org"	"GRCh37"	"14"	63178152	63178152	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2020-2979G>T"	""	""	"ENST00000322893"	""	87	"72"	15	60	"60"	0	"KCNH5,intron_variant,,ENST00000322893,NM_139318.4;KCNH5,intron_variant,,ENST00000420622,NM_172375.2;KCNH5,downstream_gene_variant,,ENST00000394968,;"	"A"	"ENSG00000140015"	"ENST00000322893"	"Transcript"	"intron_variant"	"-/4175"	"-/2967"	"-/988"	""	""	""	"1"	NA	-1	"KCNH5"	"HGNC"	6254	"protein_coding"	"YES"	"CCDS9756.1"	"ENSP00000321427"	"Q8NCM2"	""	"UPI0000039E2D"	"NM_139318.4"	""	""	""	"10/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"22ea5b7e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WGS"	FALSE
"13339"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	63804307	63804307	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"53"	29	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"22ea7212-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.353658536585366	"WGS"	FALSE
"13340"	"ESR2"	2100	"mskcc.org"	"GRCh37"	"14"	64753687	64753687	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-90-3894T>C"	""	""	"ENST00000341099"	""	108	"99"	9	51	"51"	0	"ESR2,intron_variant,,ENST00000554572,;ESR2,intron_variant,,ENST00000542956,;ESR2,intron_variant,,ENST00000556275,;ESR2,intron_variant,,ENST00000353772,NM_001040275.1;ESR2,intron_variant,,ENST00000341099,NM_001437.2;ESR2,intron_variant,,ENST00000357782,;ESR2,intron_variant,,ENST00000358599,;ESR2,intron_variant,,ENST00000267525,NM_001271877.1;ESR2,upstream_gene_variant,,ENST00000557772,NM_001214903.1;ESR2,upstream_gene_variant,,ENST00000555278,NM_001214902.1;ESR2,upstream_gene_variant,,ENST00000553796,NM_001271876.1;ESR2,upstream_gene_variant,,ENST00000555483,;ESR2,upstream_gene_variant,,ENST00000554520,;ESR2,upstream_gene_variant,,ENST00000344288,;"	"G"	"ENSG00000140009"	"ENST00000341099"	"Transcript"	"intron_variant"	"-/2060"	"-/1593"	"-/530"	""	""	""	"1"	NA	-1	"ESR2"	"HGNC"	3468	"protein_coding"	"YES"	"CCDS9762.1"	"ENSP00000343925"	"Q92731"	"Q7LCB3,G3V5S2"	"UPI0000000964"	"NM_001437.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"22eabf10-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13341"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	65794791	65794791	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"67"	27	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"22eb079a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287234042553192	"WGS"	FALSE
"13342"	"CCDC177"	56936	"mskcc.org"	"GRCh37"	"14"	70044432	70044432	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000599174"	""	70	"63"	7	52	"52"	0	"CCDC177,upstream_gene_variant,,ENST00000599174,NM_001271507.1;"	"C"	"ENSG00000267909"	"ENST00000599174"	"Transcript"	"upstream_gene_variant"	"-/2124"	"-/2124"	"-/707"	""	""	""	"1"	"4093"	-1	"CCDC177"	"Uniprot_gn"	23243	"protein_coding"	"YES"	"CCDS59245.1"	"ENSP00000469474"	""	""	"UPI0000D62424"	"NM_001271507.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"22ebd634-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"13343"	"TTC9"	23508	"mskcc.org"	"GRCh37"	"14"	71135790	71135790	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.589+1327T>C"	""	""	"ENST00000256367"	""	61	"52"	9	38	"38"	0	"TTC9,intron_variant,,ENST00000256367,NM_015351.1;"	"C"	"ENSG00000133985"	"ENST00000256367"	"Transcript"	"intron_variant"	"-/5217"	"-/669"	"-/222"	""	""	""	"1"	NA	1	"TTC9"	"HGNC"	20267	"protein_coding"	"YES"	"CCDS45132.1"	"ENSP00000256367"	"Q92623"	""	"UPI00001C1F60"	"NM_015351.1"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"22ec0f6e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147540983606557	"WGS"	FALSE
"13344"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	71733335	71733335	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"61"	28	62	"62"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"22ec2878-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314606741573034	"WGS"	FALSE
"13345"	"SIPA1L1"	26037	"mskcc.org"	"GRCh37"	"14"	71935082	71935082	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-506-44378C>T"	""	""	"ENST00000557151"	""	100	"69"	31	48	"48"	0	"SIPA1L1,intron_variant,,ENST00000557151,;SIPA1L1,intron_variant,,ENST00000557712,;SIPA1L1,intron_variant,,ENST00000556408,;SIPA1L1,intron_variant,,ENST00000556780,;SIPA1L1,intron_variant,,ENST00000554126,;SIPA1L1,intron_variant,,ENST00000555989,;SIPA1L1,intron_variant,,ENST00000554362,;SIPA1L1,intron_variant,,ENST00000553453,;SIPA1L1,intron_variant,,ENST00000555652,;"	"T"	"ENSG00000197555"	"ENST00000557151"	"Transcript"	"intron_variant"	"-/744"	"-/97"	"-/32"	""	""	""	"1"	NA	1	"SIPA1L1"	"HGNC"	20284	"protein_coding"	""	""	"ENSP00000452080"	""	"G3V4Z3"	"UPI00021CF014"	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"22ec344e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.31	"WGS"	FALSE
"13346"	"DCAF4"	26094	"mskcc.org"	"GRCh37"	"14"	73407446	73407446	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.351+361G>C"	""	""	"ENST00000358377"	""	63	"58"	5	40	"40"	0	"DCAF4,intron_variant,,ENST00000553457,;DCAF4,intron_variant,,ENST00000555042,NM_001163508.1;DCAF4,intron_variant,,ENST00000394234,NM_181340.2;DCAF4,intron_variant,,ENST00000358377,NM_001163509.1,NM_015604.3;DCAF4,intron_variant,,ENST00000353777,;DCAF4,intron_variant,,ENST00000509153,NM_181341.2;DCAF4,intron_variant,,ENST00000514486,;DCAF4,intron_variant,,ENST00000508412,;DCAF4,downstream_gene_variant,,ENST00000510612,;DCAF4,upstream_gene_variant,,ENST00000513337,;DCAF4,intron_variant,,ENST00000509320,;DCAF4,intron_variant,,ENST00000505361,;DCAF4,downstream_gene_variant,,ENST00000514191,;DCAF4,upstream_gene_variant,,ENST00000557203,;"	"C"	"ENSG00000119599"	"ENST00000358377"	"Transcript"	"intron_variant"	"-/2024"	"-/1488"	"-/495"	""	""	""	"1"	NA	1	"DCAF4"	"HGNC"	20229	"protein_coding"	"YES"	"CCDS9809.1"	"ENSP00000351147"	"Q8WV16"	""	"UPI000000CBDC"	"NM_001163509.1,NM_015604.3"	""	""	""	"4/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"22ec73f0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0793650793650794	"WGS"	FALSE
"13347"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	73517307	73517307	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"88"	10	39	"39"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"22ec817e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WGS"	FALSE
"13348"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	73517308	73517308	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"88"	10	39	"39"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"22ec8232-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WGS"	FALSE
"13349"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	73517309	73517309	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"88"	11	39	"39"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"22ec82f0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"13350"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	73517329	73517329	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"86"	9	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"22ec83cc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0947368421052632	"WGS"	FALSE
"13351"	"VRTN"	55237	"mskcc.org"	"GRCh37"	"14"	74797650	74797650	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-163-6776C>G"	""	""	"ENST00000557177"	""	81	"75"	6	32	"32"	0	"VRTN,intron_variant,,ENST00000557177,;"	"G"	"ENSG00000133980"	"ENST00000557177"	"Transcript"	"intron_variant"	"-/521"	"-/250"	"-/83"	""	""	""	"1"	NA	1	"VRTN"	"HGNC"	20223	"protein_coding"	""	""	"ENSP00000452158"	""	"G3V537"	"UPI00021CF187"	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"22ed09f0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"13352"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	75092790	75092790	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"64"	8	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"22ed1832-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"13353"	"ADCK1"	57143	"mskcc.org"	"GRCh37"	"14"	78279491	78279491	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-11-5820A>G"	""	""	"ENST00000238561"	""	77	"67"	10	35	"35"	0	"ADCK1,intron_variant,,ENST00000238561,NM_020421.3;ADCK1,intron_variant,,ENST00000341211,NM_001142545.1;ADCK1,intron_variant,,ENST00000557501,;ADCK1,intron_variant,,ENST00000393639,;ADCK1,intron_variant,,ENST00000556048,;"	"G"	"ENSG00000063761"	"ENST00000238561"	"Transcript"	"intron_variant"	"-/2234"	"-/1572"	"-/523"	""	""	""	"1"	NA	1	"ADCK1"	"HGNC"	19038	"protein_coding"	"YES"	"CCDS9869.1"	"ENSP00000238561"	"Q86TW2"	""	"UPI000014035F"	"NM_020421.3"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"22edef3c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12987012987013	"WGS"	FALSE
"13354"	"NRXN3"	9369	"mskcc.org"	"GRCh37"	"14"	79228369	79228369	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.926-41594G>T"	""	""	"ENST00000554719"	""	89	"81"	8	60	"60"	0	"NRXN3,intron_variant,,ENST00000554719,NM_004796.5;NRXN3,intron_variant,,ENST00000335750,;NRXN3,intron_variant,,ENST00000554738,;NRXN3,intron_variant,,ENST00000556496,;"	"T"	"ENSG00000021645"	"ENST00000554719"	"Transcript"	"intron_variant"	"-/4156"	"-/3186"	"-/1061"	""	""	""	"1"	NA	1	"NRXN3"	"HGNC"	8010	"protein_coding"	"YES"	"CCDS9870.1"	"ENSP00000451648"	"Q9Y4C0"	"G3V4R9,G3V247"	"UPI0000167BBA"	"NM_004796.5"	""	""	""	"5/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"22ee1494-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"13355"	"DIO2-AS1"	100628307	"mskcc.org"	"GRCh37"	"14"	80916782	80916782	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1256-4689A>C"	""	""	"ENST00000553979"	""	95	"63"	32	44	"44"	0	"DIO2-AS1,intron_variant,,ENST00000553979,;"	"C"	"ENSG00000258766"	"ENST00000553979"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1597"	""	""	""	""	""	"1"	NA	1	"DIO2-AS1"	"HGNC"	44153	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"22ee4572-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336842105263158	"WGS"	FALSE
"13356"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	83179756	83179756	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"56"	27	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"22eeb552-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325301204819277	"WGS"	FALSE
"13357"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	83625614	83625614	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"64"	27	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"22eebef8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296703296703297	"WGS"	FALSE
"13358"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	85557760	85557760	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"57"	26	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"22ef0c1e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313253012048193	"WGS"	FALSE
"13359"	"RP11-26L16.1"	0	"mskcc.org"	"GRCh37"	"14"	86829803	86829803	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs565643557"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.133+26973G>A"	""	""	"ENST00000553679"	""	90	"57"	33	42	"42"	0	"RP11-26L16.1,intron_variant,,ENST00000553679,;"	"A"	"ENSG00000258994"	"ENST00000553679"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/207"	""	""	""	""	"rs565643557"	"1"	NA	1	"RP11-26L16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	"A:0.0004"	"A:0.0015"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"22ef3ec8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.366666666666667	"WGS"	FALSE
"13360"	"FOXN3"	1112	"mskcc.org"	"GRCh37"	"14"	89869460	89869460	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.543+8818A>G"	""	""	"ENST00000345097"	""	96	"73"	23	57	"57"	0	"FOXN3,intron_variant,,ENST00000345097,NM_001085471.1;FOXN3,intron_variant,,ENST00000261302,;FOXN3,intron_variant,,ENST00000557258,NM_005197.3;FOXN3,intron_variant,,ENST00000555353,;FOXN3,intron_variant,,ENST00000555855,;FOXN3,intron_variant,,ENST00000553840,;FOXN3,intron_variant,,ENST00000556916,;FOXN3,upstream_gene_variant,,ENST00000553353,;RP11-33N16.2,intron_variant,,ENST00000556383,;FOXN3,intron_variant,,ENST00000554005,;FOXN3,intron_variant,,ENST00000557718,;"	"C"	"ENSG00000053254"	"ENST00000345097"	"Transcript"	"intron_variant"	"-/7832"	"-/1473"	"-/490"	""	""	""	"1"	NA	-1	"FOXN3"	"HGNC"	1928	"protein_coding"	"YES"	"CCDS41977.1"	"ENSP00000343288"	"O00409"	"G3V5C7,G3V4N5,G3V3A7"	"UPI000003B451"	"NM_001085471.1"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"22efa854-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239583333333333	"WGS"	FALSE
"13361"	"FOXN3"	1112	"mskcc.org"	"GRCh37"	"14"	90013231	90013231	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-15+72141T>C"	""	""	"ENST00000345097"	""	82	"76"	6	50	"50"	0	"FOXN3,intron_variant,,ENST00000345097,NM_001085471.1;FOXN3,intron_variant,,ENST00000555353,;FOXN3,intron_variant,,ENST00000555855,;RP11-33N16.3,intron_variant,,ENST00000555070,;"	"G"	"ENSG00000053254"	"ENST00000345097"	"Transcript"	"intron_variant"	"-/7832"	"-/1473"	"-/490"	""	""	""	"1"	NA	-1	"FOXN3"	"HGNC"	1928	"protein_coding"	"YES"	"CCDS41977.1"	"ENSP00000343288"	"O00409"	"G3V5C7,G3V4N5,G3V3A7"	"UPI000003B451"	"NM_001085471.1"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"22efb5b0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"13362"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	90711613	90711613	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"51"	6	41	"41"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"22efd734-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"13363"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	90711618	90711618	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"51"	6	45	"45"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"22efd7de-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"13364"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	90711631	90711631	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"62"	7	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"22efd892-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101449275362319	"WGS"	FALSE
"13365"	"C14orf159"	80017	"mskcc.org"	"GRCh37"	"14"	91688567	91688567	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1717-2461G>A"	""	""	"ENST00000518868"	""	80	"56"	24	45	"45"	0	"C14orf159,intron_variant,,ENST00000518868,NM_001286470.1;C14orf159,intron_variant,,ENST00000523771,NM_001286471.1;C14orf159,intron_variant,,ENST00000256324,NM_001102368.1;C14orf159,intron_variant,,ENST00000522322,NM_001102367.1;C14orf159,intron_variant,,ENST00000412671,;C14orf159,intron_variant,,ENST00000523816,NM_001102366.1;C14orf159,intron_variant,,ENST00000521077,NM_001286472.1;C14orf159,intron_variant,,ENST00000520328,NM_001102369.1;C14orf159,intron_variant,,ENST00000428926,NM_024952.6;C14orf159,intron_variant,,ENST00000525393,;C14orf159,downstream_gene_variant,,ENST00000522816,;C14orf159,intron_variant,,ENST00000523576,;C14orf159,intron_variant,,ENST00000523837,;C14orf159,intron_variant,,ENST00000523461,;C14orf159,intron_variant,,ENST00000517306,;"	"A"	"ENSG00000133943"	"ENST00000518868"	"Transcript"	"intron_variant"	"-/3075"	"-/1866"	"-/621"	""	""	""	"1"	NA	1	"C14orf159"	"HGNC"	20498	"protein_coding"	"YES"	"CCDS41979.1"	"ENSP00000428263"	"Q7Z3D6"	"E5RK56,E5RK14,E5RJD1,E5RJ87,E5RJ62,E5RIU5,E5RIL4,E5RHG2,E5RGP9,E5RFT5"	"UPI000000CC60"	"NM_001286470.1"	""	""	""	"16/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"22f00fba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"13366"	"ATXN3"	4287	"mskcc.org"	"GRCh37"	"14"	92555776	92555776	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs369674541"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.388-615C>T"	""	""	"ENST00000393287"	""	78	"72"	6	34	"34"	0	"ATXN3,intron_variant,,ENST00000545170,NM_004993.5,NM_001164776.1,NM_001164778.1,NM_001164774.1,NM_001164777.1;ATXN3,intron_variant,,ENST00000429774,NM_001127696.1,NM_001164779.1,NM_001164782.1;ATXN3,intron_variant,,ENST00000393287,;ATXN3,intron_variant,,ENST00000503767,;ATXN3,intron_variant,,ENST00000502250,NM_001164780.1;ATXN3,intron_variant,,ENST00000340660,NM_030660.4;ATXN3,intron_variant,,ENST00000532032,;ATXN3,intron_variant,,ENST00000554592,;ATXN3,intron_variant,,ENST00000553491,NM_001127697.2;ATXN3,intron_variant,,ENST00000555381,NM_001164781.1;ATXN3,intron_variant,,ENST00000554672,;ATXN3,intron_variant,,ENST00000556220,;ATXN3,intron_variant,,ENST00000506466,;ATXN3,intron_variant,,ENST00000526872,;ATXN3,intron_variant,,ENST00000557311,;ATXN3,intron_variant,,ENST00000554491,;ATXN3,intron_variant,,ENST00000553309,;ATXN3,intron_variant,,ENST00000553498,;ATXN3,intron_variant,,ENST00000553686,;ATXN3,intron_variant,,ENST00000555958,;ATXN3,intron_variant,,ENST00000554214,;ATXN3,intron_variant,,ENST00000553287,;ATXN3,intron_variant,,ENST00000554040,;ATXN3,intron_variant,,ENST00000556339,;ATXN3,intron_variant,,ENST00000556644,;ATXN3,intron_variant,,ENST00000526245,;ATXN3,downstream_gene_variant,,ENST00000511362,;ATXN3,downstream_gene_variant,,ENST00000504047,;ATXN3,intron_variant,,ENST00000359366,;ATXN3,intron_variant,,ENST00000556374,;ATXN3,intron_variant,,ENST00000553488,;ATXN3,intron_variant,,ENST00000556898,;ATXN3,intron_variant,,ENST00000554673,;ATXN3,intron_variant,,ENST00000554350,;ATXN3,intron_variant,,ENST00000556315,;ATXN3,intron_variant,,ENST00000554994,;ATXN3,intron_variant,,ENST00000556671,;ATXN3,intron_variant,,ENST00000556274,;ATXN3,intron_variant,,ENST00000556288,;ATXN3,intron_variant,,ENST00000557030,;ATXN3,intron_variant,,ENST00000556958,;ATXN3,intron_variant,,ENST00000555816,;ATXN3,intron_variant,,ENST00000553570,;ATXN3,intron_variant,,ENST00000556082,;ATXN3,intron_variant,,ENST00000515746,;ATXN3,downstream_gene_variant,,ENST00000507965,;"	"A"	"ENSG00000066427"	"ENST00000393287"	"Transcript"	"intron_variant"	"-/4713"	"-/1086"	"-/361"	""	""	"rs369674541"	"1"	NA	-1	"ATXN3"	"HGNC"	7106	"protein_coding"	"YES"	"CCDS9900.1"	"ENSP00000376965"	"P54252"	"G3V4F4,G3V2G2,D3VVM7,D3VVL3,D3VVJ0,D3VVF1,D3VVD5,D3VVC1"	"UPI000013D23A"	""	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGG"	"22f0430e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"13367"	"ATXN3"	4287	"mskcc.org"	"GRCh37"	"14"	92555783	92555783	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.388-622A>T"	""	""	"ENST00000393287"	""	79	"72"	7	34	"34"	0	"ATXN3,intron_variant,,ENST00000545170,NM_004993.5,NM_001164776.1,NM_001164778.1,NM_001164774.1,NM_001164777.1;ATXN3,intron_variant,,ENST00000429774,NM_001127696.1,NM_001164779.1,NM_001164782.1;ATXN3,intron_variant,,ENST00000393287,;ATXN3,intron_variant,,ENST00000503767,;ATXN3,intron_variant,,ENST00000502250,NM_001164780.1;ATXN3,intron_variant,,ENST00000340660,NM_030660.4;ATXN3,intron_variant,,ENST00000532032,;ATXN3,intron_variant,,ENST00000554592,;ATXN3,intron_variant,,ENST00000553491,NM_001127697.2;ATXN3,intron_variant,,ENST00000555381,NM_001164781.1;ATXN3,intron_variant,,ENST00000554672,;ATXN3,intron_variant,,ENST00000556220,;ATXN3,intron_variant,,ENST00000506466,;ATXN3,intron_variant,,ENST00000526872,;ATXN3,intron_variant,,ENST00000557311,;ATXN3,intron_variant,,ENST00000554491,;ATXN3,intron_variant,,ENST00000553309,;ATXN3,intron_variant,,ENST00000553498,;ATXN3,intron_variant,,ENST00000553686,;ATXN3,intron_variant,,ENST00000555958,;ATXN3,intron_variant,,ENST00000554214,;ATXN3,intron_variant,,ENST00000553287,;ATXN3,intron_variant,,ENST00000554040,;ATXN3,intron_variant,,ENST00000556339,;ATXN3,intron_variant,,ENST00000556644,;ATXN3,intron_variant,,ENST00000526245,;ATXN3,downstream_gene_variant,,ENST00000511362,;ATXN3,downstream_gene_variant,,ENST00000504047,;ATXN3,intron_variant,,ENST00000359366,;ATXN3,intron_variant,,ENST00000556374,;ATXN3,intron_variant,,ENST00000553488,;ATXN3,intron_variant,,ENST00000556898,;ATXN3,intron_variant,,ENST00000554673,;ATXN3,intron_variant,,ENST00000554350,;ATXN3,intron_variant,,ENST00000556315,;ATXN3,intron_variant,,ENST00000554994,;ATXN3,intron_variant,,ENST00000556671,;ATXN3,intron_variant,,ENST00000556274,;ATXN3,intron_variant,,ENST00000556288,;ATXN3,intron_variant,,ENST00000557030,;ATXN3,intron_variant,,ENST00000556958,;ATXN3,intron_variant,,ENST00000555816,;ATXN3,intron_variant,,ENST00000553570,;ATXN3,intron_variant,,ENST00000556082,;ATXN3,intron_variant,,ENST00000515746,;ATXN3,downstream_gene_variant,,ENST00000507965,;"	"A"	"ENSG00000066427"	"ENST00000393287"	"Transcript"	"intron_variant"	"-/4713"	"-/1086"	"-/361"	""	""	""	"1"	NA	-1	"ATXN3"	"HGNC"	7106	"protein_coding"	"YES"	"CCDS9900.1"	"ENSP00000376965"	"P54252"	"G3V4F4,G3V2G2,D3VVM7,D3VVL3,D3VVJ0,D3VVF1,D3VVD5,D3VVC1"	"UPI000013D23A"	""	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"22f043b8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0886075949367089	"WGS"	FALSE
"13368"	"ATXN3"	4287	"mskcc.org"	"GRCh37"	"14"	92555786	92555786	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.388-625G>C"	""	""	"ENST00000393287"	""	80	"72"	8	35	"35"	0	"ATXN3,intron_variant,,ENST00000545170,NM_004993.5,NM_001164776.1,NM_001164778.1,NM_001164774.1,NM_001164777.1;ATXN3,intron_variant,,ENST00000429774,NM_001127696.1,NM_001164779.1,NM_001164782.1;ATXN3,intron_variant,,ENST00000393287,;ATXN3,intron_variant,,ENST00000503767,;ATXN3,intron_variant,,ENST00000502250,NM_001164780.1;ATXN3,intron_variant,,ENST00000340660,NM_030660.4;ATXN3,intron_variant,,ENST00000532032,;ATXN3,intron_variant,,ENST00000554592,;ATXN3,intron_variant,,ENST00000553491,NM_001127697.2;ATXN3,intron_variant,,ENST00000555381,NM_001164781.1;ATXN3,intron_variant,,ENST00000554672,;ATXN3,intron_variant,,ENST00000556220,;ATXN3,intron_variant,,ENST00000506466,;ATXN3,intron_variant,,ENST00000526872,;ATXN3,intron_variant,,ENST00000557311,;ATXN3,intron_variant,,ENST00000554491,;ATXN3,intron_variant,,ENST00000553309,;ATXN3,intron_variant,,ENST00000553498,;ATXN3,intron_variant,,ENST00000553686,;ATXN3,intron_variant,,ENST00000555958,;ATXN3,intron_variant,,ENST00000554214,;ATXN3,intron_variant,,ENST00000553287,;ATXN3,intron_variant,,ENST00000554040,;ATXN3,intron_variant,,ENST00000556339,;ATXN3,intron_variant,,ENST00000556644,;ATXN3,intron_variant,,ENST00000526245,;ATXN3,downstream_gene_variant,,ENST00000511362,;ATXN3,downstream_gene_variant,,ENST00000504047,;ATXN3,intron_variant,,ENST00000359366,;ATXN3,intron_variant,,ENST00000556374,;ATXN3,intron_variant,,ENST00000553488,;ATXN3,intron_variant,,ENST00000556898,;ATXN3,intron_variant,,ENST00000554673,;ATXN3,intron_variant,,ENST00000554350,;ATXN3,intron_variant,,ENST00000556315,;ATXN3,intron_variant,,ENST00000554994,;ATXN3,intron_variant,,ENST00000556671,;ATXN3,intron_variant,,ENST00000556274,;ATXN3,intron_variant,,ENST00000556288,;ATXN3,intron_variant,,ENST00000557030,;ATXN3,intron_variant,,ENST00000556958,;ATXN3,intron_variant,,ENST00000555816,;ATXN3,intron_variant,,ENST00000553570,;ATXN3,intron_variant,,ENST00000556082,;ATXN3,intron_variant,,ENST00000515746,;ATXN3,downstream_gene_variant,,ENST00000507965,;"	"G"	"ENSG00000066427"	"ENST00000393287"	"Transcript"	"intron_variant"	"-/4713"	"-/1086"	"-/361"	""	""	""	"1"	NA	-1	"ATXN3"	"HGNC"	7106	"protein_coding"	"YES"	"CCDS9900.1"	"ENSP00000376965"	"P54252"	"G3V4F4,G3V2G2,D3VVM7,D3VVL3,D3VVJ0,D3VVF1,D3VVD5,D3VVC1"	"UPI000013D23A"	""	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"22f04494-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"13369"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	92660469	92660469	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"63"	5	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"22f05308-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0735294117647059	"WGS"	FALSE
"13370"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	93624771	93624771	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"76"	7	31	"31"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"22f08d96-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"13371"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	94454643	94454643	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	13	"10"	3	10	"10"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"22f0aba0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"13372"	"ENSR00001650455"	0	"mskcc.org"	"GRCh37"	"14"	94873830	94873830	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001650455"	""	90	"59"	31	56	"56"	0	""	"A"	""	"ENSR00001650455"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"22f0c2f2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344444444444444	"WGS"	FALSE
"13373"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	97722695	97722695	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"50"	28	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"22f15ffa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358974358974359	"WGS"	FALSE
"13374"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	98266595	98266595	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"60"	17	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"22f1765c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220779220779221	"WGS"	FALSE
"13375"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	99034103	99034103	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"77"	10	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"22f1963c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114942528735632	"WGS"	FALSE
"13376"	"EVL"	51466	"mskcc.org"	"GRCh37"	"14"	100567381	100567381	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.358+3386G>C"	""	""	"ENST00000392920"	""	94	"54"	40	56	"56"	0	"EVL,intron_variant,,ENST00000544450,;EVL,intron_variant,,ENST00000402714,;EVL,intron_variant,,ENST00000392920,NM_016337.2;EVL,intron_variant,,ENST00000557384,;EVL,intron_variant,,ENST00000557153,;EVL,intron_variant,,ENST00000555706,;EVL,intron_variant,,ENST00000555048,;EVL,intron_variant,,ENST00000556921,;EVL,intron_variant,,ENST00000554460,;EVL,intron_variant,,ENST00000553771,;EVL,intron_variant,,ENST00000554045,;EVL,intron_variant,,ENST00000553875,;EVL,downstream_gene_variant,,ENST00000557637,;"	"C"	"ENSG00000196405"	"ENST00000392920"	"Transcript"	"intron_variant"	"-/1978"	"-/1257"	"-/418"	""	""	""	"1"	NA	1	"EVL"	"HGNC"	20234	"protein_coding"	"YES"	"CCDS9955.1"	"ENSP00000376652"	"Q9UI08"	"Q499Z9,G3V5F7,G3V314,G3V2K5"	"UPI000002A92F"	"NM_016337.2"	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"22f1f9e2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.425531914893617	"WGS"	FALSE
"13377"	"WDR25"	79446	"mskcc.org"	"GRCh37"	"14"	100939322	100939322	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.970+4817G>A"	""	""	"ENST00000335290"	""	78	"52"	26	52	"52"	0	"WDR25,intron_variant,,ENST00000335290,NM_024515.4;WDR25,intron_variant,,ENST00000402312,NM_001161476.1;WDR25,intron_variant,,ENST00000554998,;WDR25,intron_variant,,ENST00000542471,;WDR25,intron_variant,,ENST00000555775,;WDR25,intron_variant,,ENST00000554492,;WDR25,upstream_gene_variant,,ENST00000555865,;WDR25,intron_variant,,ENST00000557710,;"	"A"	"ENSG00000176473"	"ENST00000335290"	"Transcript"	"intron_variant"	"-/2123"	"-/1635"	"-/544"	""	""	""	"1"	NA	1	"WDR25"	"HGNC"	21064	"protein_coding"	"YES"	"CCDS32157.1"	"ENSP00000334148"	"Q64LD2"	"G3V2K8"	"UPI0000D4CFD0"	"NM_024515.4"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"22f21594-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"13378"	"WDR25"	79446	"mskcc.org"	"GRCh37"	"14"	100997133	100997133	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"rs756232069"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000335290"	""	85	"61"	24	51	"51"	0	"WDR25,downstream_gene_variant,,ENST00000335290,NM_024515.4;WDR25,downstream_gene_variant,,ENST00000402312,NM_001161476.1;WDR25,downstream_gene_variant,,ENST00000554998,;WDR25,downstream_gene_variant,,ENST00000542471,;WDR25,downstream_gene_variant,,ENST00000555201,;WDR25,downstream_gene_variant,,ENST00000557502,;WDR25,downstream_gene_variant,,ENST00000555865,;WDR25,downstream_gene_variant,,ENST00000555775,;WDR25,downstream_gene_variant,,ENST00000554492,;WDR25,downstream_gene_variant,,ENST00000557710,;"	"T"	"ENSG00000176473"	"ENST00000335290"	"Transcript"	"downstream_gene_variant"	"-/2123"	"-/1635"	"-/544"	""	""	"rs756232069"	"1"	"493"	1	"WDR25"	"HGNC"	21064	"protein_coding"	"YES"	"CCDS32157.1"	"ENSP00000334148"	"Q64LD2"	"G3V2K8"	"UPI0000D4CFD0"	"NM_024515.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"22f21d00-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282352941176471	"WGS"	FALSE
"13379"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	101762977	101762977	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"50"	25	40	"40"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"22f25bbc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"13380"	"APOPT1"	84334	"mskcc.org"	"GRCh37"	"14"	104044440	104044440	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.424+3933A>T"	""	""	"ENST00000409074"	""	77	"71"	6	46	"46"	0	"APOPT1,intron_variant,,ENST00000409074,NM_032374.3;RP11-73M18.2,intron_variant,,ENST00000472726,;APOPT1,intron_variant,,ENST00000247618,;APOPT1,intron_variant,,ENST00000556253,;APOPT1,intron_variant,,ENST00000440963,;KLC1,intron_variant,,ENST00000557172,;APOPT1,downstream_gene_variant,,ENST00000495778,;AL139300.1,upstream_gene_variant,,ENST00000583855,;APOPT1,intron_variant,,ENST00000477116,;APOPT1,intron_variant,,ENST00000476323,;APOPT1,intron_variant,,ENST00000473127,;APOPT1,intron_variant,,ENST00000474271,;APOPT1,intron_variant,,ENST00000492189,;APOPT1,intron_variant,,ENST00000554876,;APOPT1,downstream_gene_variant,,ENST00000497901,;APOPT1,intron_variant,,ENST00000458117,;APOPT1,intron_variant,,ENST00000489117,;APOPT1,intron_variant,,ENST00000555660,;APOPT1,downstream_gene_variant,,ENST00000554625,;"	"T"	"ENSG00000256053"	"ENST00000409074"	"Transcript"	"intron_variant"	"-/2523"	"-/621"	"-/206"	""	""	""	"1"	NA	1	"APOPT1"	"HGNC"	20492	"protein_coding"	"YES"	"CCDS9983.2"	"ENSP00000386485"	"Q96IL0"	""	"UPI0000EE34A7"	"NM_032374.3"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"22f32f4c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"13381"	"APOPT1"	84334	"mskcc.org"	"GRCh37"	"14"	104054737	104054737	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.515+1036G>C"	""	""	"ENST00000409074"	""	92	"86"	6	36	"36"	0	"APOPT1,intron_variant,,ENST00000409074,NM_032374.3;RP11-73M18.2,intron_variant,,ENST00000472726,;APOPT1,intron_variant,,ENST00000247618,;APOPT1,intron_variant,,ENST00000556253,;APOPT1,intron_variant,,ENST00000440963,;KLC1,intron_variant,,ENST00000557172,;APOPT1,intron_variant,,ENST00000477116,;APOPT1,intron_variant,,ENST00000476323,;APOPT1,intron_variant,,ENST00000473127,;APOPT1,intron_variant,,ENST00000557079,;APOPT1,intron_variant,,ENST00000474271,;APOPT1,intron_variant,,ENST00000492189,;APOPT1,downstream_gene_variant,,ENST00000554876,;APOPT1,intron_variant,,ENST00000458117,;APOPT1,intron_variant,,ENST00000489117,;APOPT1,intron_variant,,ENST00000555660,;"	"C"	"ENSG00000256053"	"ENST00000409074"	"Transcript"	"intron_variant"	"-/2523"	"-/621"	"-/206"	""	""	""	"1"	NA	1	"APOPT1"	"HGNC"	20492	"protein_coding"	"YES"	"CCDS9983.2"	"ENSP00000386485"	"Q96IL0"	""	"UPI0000EE34A7"	"NM_032374.3"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGG"	"22f3324e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"13382"	"PPP1R13B"	23368	"mskcc.org"	"GRCh37"	"14"	104310348	104310348	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9+3288T>A"	""	""	"ENST00000202556"	""	87	"79"	8	49	"49"	0	"PPP1R13B,intron_variant,,ENST00000202556,NM_015316.2;PPP1R13B,intron_variant,,ENST00000553739,;PPP1R13B,intron_variant,,ENST00000555734,;LINC00637,upstream_gene_variant,,ENST00000556586,;PPP1R13B,intron_variant,,ENST00000556325,;PPP1R13B,upstream_gene_variant,,ENST00000554106,;PPP1R13B,intron_variant,,ENST00000557082,;PPP1R13B,intron_variant,,ENST00000554136,;"	"T"	"ENSG00000088808"	"ENST00000202556"	"Transcript"	"intron_variant"	"-/4958"	"-/3273"	"-/1090"	""	""	""	"1"	NA	-1	"PPP1R13B"	"HGNC"	14950	"protein_coding"	"YES"	"CCDS41997.1"	"ENSP00000202556"	"Q96KQ4"	"G3V5J1"	"UPI000049DDC7"	"NM_015316.2"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"22f34cde-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"13383"	"TDRD9"	122402	"mskcc.org"	"GRCh37"	"14"	104418782	104418782	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.216-3219G>A"	""	""	"ENST00000409874"	""	56	"51"	5	37	"37"	0	"TDRD9,intron_variant,,ENST00000409874,NM_153046.2;TDRD9,intron_variant,,ENST00000339063,;TDRD9,intron_variant,,ENST00000554571,;TDRD9,intron_variant,,ENST00000496087,;"	"A"	"ENSG00000156414"	"ENST00000409874"	"Transcript"	"intron_variant"	"-/4782"	"-/4149"	"-/1382"	""	""	""	"1"	NA	1	"TDRD9"	"HGNC"	20122	"protein_coding"	"YES"	"CCDS9987.2"	"ENSP00000387303"	"Q8NDG6"	""	"UPI0001642306"	"NM_153046.2"	""	""	""	"1/35"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"22f36908-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0892857142857143	"WGS"	FALSE
"13384"	"IGHV2-26"	0	"mskcc.org"	"GRCh37"	"14"	106756951	106756951	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390611"	""	82	"54"	28	48	"48"	0	"IGHV2-26,downstream_gene_variant,,ENST00000390611,;"	"T"	"ENSG00000211951"	"ENST00000390611"	"Transcript"	"downstream_gene_variant"	"-/381"	"-/357"	"-/119"	""	""	""	"1"	"699"	-1	"IGHV2-26"	"HGNC"	5575	"IG_V_gene"	"YES"	""	"ENSP00000375020"	""	""	"UPI000011AAD5"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"22f5af60-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341463414634146	"WGS"	FALSE
"13385"	"IGHV3-74"	0	"mskcc.org"	"GRCh37"	"14"	107219741	107219741	"+"	"5'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000424969"	""	83	"49"	34	56	"56"	0	"IGHV3-74,upstream_gene_variant,,ENST00000424969,;"	"A"	"ENSG00000224650"	"ENST00000424969"	"Transcript"	"upstream_gene_variant"	"-/587"	"-/351"	"-/117"	""	""	""	"1"	"376"	-1	"IGHV3-74"	"HGNC"	5624	"IG_V_gene"	"YES"	""	"ENSP00000394447"	""	""	"UPI0000113AD2"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"22f5ff7e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.409638554216867	"WGS"	FALSE
"13386"	"HERC2P3"	283755	"mskcc.org"	"GRCh37"	"15"	20599994	20599994	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.4042-11285T>A"	""	""	"ENST00000428453"	""	371	"346"	25	230	"230"	0	"HERC2P3,intron_variant,,ENST00000428453,;HERC2P3,intron_variant,,ENST00000437318,;HERC2P3,intron_variant,,ENST00000426501,;"	"T"	"ENSG00000180229"	"ENST00000428453"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4383"	""	""	""	""	""	"1"	NA	-1	"HERC2P3"	"HGNC"	4871	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"26/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"22f80e04-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0673854447439353	"WGS"	FALSE
"13387"	"HERC2P3"	283755	"mskcc.org"	"GRCh37"	"15"	20648235	20648235	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2870+389A>G"	""	""	"ENST00000428453"	""	65	"52"	13	46	"46"	0	"HERC2P3,intron_variant,,ENST00000428453,;HERC2P3,intron_variant,,ENST00000430598,;HERC2P3,intron_variant,,ENST00000437318,;HERC2P3,intron_variant,,ENST00000426501,;HERC2P3,downstream_gene_variant,,ENST00000440441,;HERC2P3,downstream_gene_variant,,ENST00000440774,;HERC2P3,intron_variant,,ENST00000424611,;HERC2P3,intron_variant,,ENST00000436934,;HERC2P3,upstream_gene_variant,,ENST00000454045,;HERC2P3,intron_variant,,ENST00000429257,;HERC2P3,intron_variant,,ENST00000545640,;"	"C"	"ENSG00000180229"	"ENST00000428453"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4383"	""	""	""	""	""	"1"	NA	-1	"HERC2P3"	"HGNC"	4871	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"19/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"22f82ac4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"13388"	"RP11-403B2.7"	0	"mskcc.org"	"GRCh37"	"15"	20950970	20950970	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.254+10289G>C"	""	""	"ENST00000564214"	""	154	"138"	16	86	"86"	0	"RP11-403B2.7,intron_variant,,ENST00000564214,;"	"G"	"ENSG00000260409"	"ENST00000564214"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1602"	""	""	""	""	""	"1"	NA	-1	"RP11-403B2.7"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"22f87704-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103896103896104	"WGS"	FALSE
"13389"	"RP11-32B5.1"	646214	"mskcc.org"	"GRCh37"	"15"	21935003	21935003	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000556425"	""	351	"322"	29	224	"224"	0	"RP11-32B5.1,downstream_gene_variant,,ENST00000556425,;RP11-32B5.1,downstream_gene_variant,,ENST00000431494,;"	"T"	"ENSG00000237161"	"ENST00000556425"	"Transcript"	"downstream_gene_variant"	"-/1549"	""	""	""	""	""	"1"	"1560"	-1	"RP11-32B5.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"22f98ea0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0826210826210826	"WGS"	FALSE
"13390"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	22041422	22041422	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	378	"359"	19	194	"194"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"22f9b1a0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0502645502645503	"WGS"	FALSE
"13391"	"GOLGA8I"	728498	"mskcc.org"	"GRCh37"	"15"	23273704	23273704	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000450802"	""	54	"48"	6	20	"20"	0	"GOLGA8I,downstream_gene_variant,,ENST00000450802,;"	"A"	"ENSG00000153666"	"ENST00000450802"	"Transcript"	"downstream_gene_variant"	"-/5264"	"-/1899"	"-/632"	""	""	""	"1"	"4881"	1	"GOLGA8I"	"HGNC"	26660	"protein_coding"	"YES"	""	"ENSP00000399637"	"A6NC78"	""	"UPI0000E59B79"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"22fa971e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"13392"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	23900615	23900615	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"64"	8	53	"53"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"22fb07e4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"13393"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	23900620	23900620	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"68"	6	52	"52"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"22fb088e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"13394"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	24554188	24554188	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"60"	33	40	"40"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"22fb402e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354838709677419	"WGS"	FALSE
"13395"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	24638038	24638038	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"53"	31	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"22fb5320-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.369047619047619	"WGS"	FALSE
"13396"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	24910319	24910319	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"75"	28	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"22fb74b8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271844660194175	"WGS"	FALSE
"13397"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	24939433	24939433	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"56"	7	47	"47"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"22fb7a1c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"13398"	"GABRG3"	2567	"mskcc.org"	"GRCh37"	"15"	27289218	27289218	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.270+17250G>A"	""	""	"ENST00000333743"	""	104	"76"	28	47	"47"	0	"GABRG3,intron_variant,,ENST00000333743,NM_033223.4;GABRG3,intron_variant,,ENST00000555083,NM_001270873.1;"	"A"	"ENSG00000182256"	"ENST00000333743"	"Transcript"	"intron_variant"	"-/2004"	"-/1404"	"-/467"	""	""	""	"1"	NA	1	"GABRG3"	"HGNC"	4088	"protein_coding"	"YES"	"CCDS45195.1"	"ENSP00000331912"	"Q99928"	""	"UPI000012AFCB"	"NM_033223.4"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"22fbe452-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269230769230769	"WGS"	FALSE
"13399"	"GABRG3"	2567	"mskcc.org"	"GRCh37"	"15"	27477124	27477124	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.271-94832A>G"	""	""	"ENST00000333743"	""	95	"69"	26	70	"70"	0	"GABRG3,intron_variant,,ENST00000333743,NM_033223.4;GABRG3,intron_variant,,ENST00000555083,NM_001270873.1;"	"G"	"ENSG00000182256"	"ENST00000333743"	"Transcript"	"intron_variant"	"-/2004"	"-/1404"	"-/467"	""	""	""	"1"	NA	1	"GABRG3"	"HGNC"	4088	"protein_coding"	"YES"	"CCDS45195.1"	"ENSP00000331912"	"Q99928"	""	"UPI000012AFCB"	"NM_033223.4"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"22fbe93e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"13400"	"OCA2"	4948	"mskcc.org"	"GRCh37"	"15"	28132874	28132874	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2080-15806A>T"	""	""	"ENST00000354638"	""	81	"75"	6	46	"46"	0	"OCA2,intron_variant,,ENST00000354638,NM_000275.2;OCA2,intron_variant,,ENST00000353809,;"	"A"	"ENSG00000104044"	"ENST00000354638"	"Transcript"	"intron_variant"	"-/3186"	"-/2517"	"-/838"	""	""	""	"1"	NA	-1	"OCA2"	"HGNC"	8101	"protein_coding"	"YES"	"CCDS10020.1"	"ENSP00000346659"	"Q04671"	"C9JDV3"	"UPI000013D158"	"NM_000275.2"	""	""	""	"19/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"22fc0e82-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"13401"	"RP11-483E23.3"	0	"mskcc.org"	"GRCh37"	"15"	28610103	28610103	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.92+683C>T"	""	""	"ENST00000565703"	""	60	"29"	31	26	"26"	0	"RP11-483E23.3,intron_variant,,ENST00000565703,;"	"A"	"ENSG00000261497"	"ENST00000565703"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/620"	""	""	""	""	""	"1"	NA	-1	"RP11-483E23.3"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"22fc3a2e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.516666666666667	"WGS"	FALSE
"13402"	"AC026150.5"	26082	"mskcc.org"	"GRCh37"	"15"	30509378	30509378	"+"	"3'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000562624"	""	80	"47"	33	52	"52"	0	"AC026150.5,downstream_gene_variant,,ENST00000562624,;"	"G"	"ENSG00000225930"	"ENST00000562624"	"Transcript"	"downstream_gene_variant"	"-/4260"	""	""	""	""	""	"1"	"2635"	1	"AC026150.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"22fcf770-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4125	"WGS"	FALSE
"13403"	"CHRNA7"	89832	"mskcc.org"	"GRCh37"	"15"	32442284	32442284	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs142522457"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.438-3824G>A"	""	""	"ENST00000454250"	""	99	"69"	30	54	"54"	0	"CHRNA7,intron_variant,,ENST00000306901,NM_000746.5;CHRNA7,intron_variant,,ENST00000454250,NM_001190455.2;CHRNA7,intron_variant,,ENST00000455693,;CHRNA7,intron_variant,,ENST00000437966,;"	"A"	"ENSG00000175344"	"ENST00000454250"	"Transcript"	"intron_variant"	"-/2093"	"-/1596"	"-/531"	""	""	"rs142522457"	"1"	NA	1	"CHRNA7"	"HGNC"	1960	"protein_coding"	"YES"	"CCDS53924.1"	"ENSP00000407546"	"P36544"	"Q693P7"	"UPI0000E23BA6"	"NM_001190455.2"	""	""	""	"4/9"	""	"A:0.0136"	"A:0.0484"	"A:0.0043"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"22fd8e7e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303030303030303	"WGS"	FALSE
"13404"	"RP11-720L8.1"	0	"mskcc.org"	"GRCh37"	"15"	37773092	37773092	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.70+9848T>C"	""	""	"ENST00000561054"	""	70	"51"	19	53	"53"	0	"RP11-720L8.1,intron_variant,,ENST00000561054,;"	"G"	"ENSG00000259434"	"ENST00000561054"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/463"	""	""	""	""	""	"1"	NA	-1	"RP11-720L8.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"22fea6ba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271428571428571	"WGS"	FALSE
"13405"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	39108663	39108663	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"47"	29	39	"39"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"22fed0ea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.381578947368421	"WGS"	FALSE
"13406"	"ZFYVE19"	84936	"mskcc.org"	"GRCh37"	"15"	41103679	41103679	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.826+724G>T"	""	""	"ENST00000355341"	""	87	"50"	37	38	"38"	0	"ZFYVE19,intron_variant,,ENST00000355341,NM_001077268.1;ZFYVE19,intron_variant,,ENST00000564258,NM_001258421.1;ZFYVE19,intron_variant,,ENST00000336455,NM_032850.4;ZFYVE19,intron_variant,,ENST00000570108,;ZFYVE19,intron_variant,,ENST00000299173,NM_001258420.1;ZFYVE19,intron_variant,,ENST00000566407,;ZFYVE19,intron_variant,,ENST00000561617,;DNAJC17,upstream_gene_variant,,ENST00000220496,NM_018163.2;PPP1R14D,downstream_gene_variant,,ENST00000299174,NM_017726.7;PPP1R14D,downstream_gene_variant,,ENST00000427255,NM_001130143.1;ZFYVE19,downstream_gene_variant,,ENST00000566767,;ZFYVE19,downstream_gene_variant,,ENST00000563530,;ZFYVE19,intron_variant,,ENST00000560078,;ZFYVE19,intron_variant,,ENST00000561768,;ZFYVE19,intron_variant,,ENST00000569057,;DNAJC17,upstream_gene_variant,,ENST00000559238,;DNAJC17,upstream_gene_variant,,ENST00000560301,;DNAJC17,upstream_gene_variant,,ENST00000560645,;DNAJC17,upstream_gene_variant,,ENST00000561018,;DNAJC17,upstream_gene_variant,,ENST00000559310,;DNAJC17,upstream_gene_variant,,ENST00000560065,;ZFYVE19,downstream_gene_variant,,ENST00000568062,;ZFYVE19,downstream_gene_variant,,ENST00000567756,;ZFYVE19,downstream_gene_variant,,ENST00000570162,;ZFYVE19,upstream_gene_variant,,ENST00000563497,;"	"T"	"ENSG00000166140"	"ENST00000355341"	"Transcript"	"intron_variant"	"-/2260"	"-/1416"	"-/471"	""	""	""	"1"	NA	1	"ZFYVE19"	"HGNC"	20758	"protein_coding"	"YES"	"CCDS42025.1"	"ENSP00000347498"	"Q96K21"	"H3BUW6"	"UPI0000E5924A"	"NM_001077268.1"	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"22ff37a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.425287356321839	"WGS"	FALSE
"13407"	"DLL4"	54567	"mskcc.org"	"GRCh37"	"15"	41225581	41225581	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.850+936C>G"	""	""	"ENST00000249749"	""	90	"51"	39	38	"38"	0	"DLL4,intron_variant,,ENST00000249749,NM_019074.3;DLL4,intron_variant,,ENST00000559440,;DLL4,downstream_gene_variant,,ENST00000557876,;"	"G"	"ENSG00000128917"	"ENST00000249749"	"Transcript"	"intron_variant"	"-/3339"	"-/2058"	"-/685"	""	""	""	"1"	NA	1	"DLL4"	"HGNC"	2910	"protein_coding"	"YES"	"CCDS45232.1"	"ENSP00000249749"	"Q9NR61"	""	"UPI0000047825"	"NM_019074.3"	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"22ff40a2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.433333333333333	"WGS"	FALSE
"13408"	"INO80"	54617	"mskcc.org"	"GRCh37"	"15"	41401426	41401426	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-44+6745G>A"	""	""	"ENST00000361937"	""	95	"88"	7	56	"56"	0	"INO80,intron_variant,,ENST00000361937,;INO80,intron_variant,,ENST00000401393,NM_017553.1;INO80,intron_variant,,ENST00000558357,;CYCSP2,downstream_gene_variant,,ENST00000558168,;"	"T"	"ENSG00000128908"	"ENST00000361937"	"Transcript"	"intron_variant"	"-/6439"	"-/4671"	"-/1556"	""	""	""	"1"	NA	-1	"INO80"	"HGNC"	26956	"protein_coding"	"YES"	"CCDS10071.1"	"ENSP00000355205"	"Q9ULG1"	"Q9NUK2"	"UPI00001B6AFC"	""	""	""	""	"1/35"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"22ff510a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"13409"	"CHP1"	11261	"mskcc.org"	"GRCh37"	"15"	41564191	41564191	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.411+1375T>C"	""	""	"ENST00000334660"	""	86	"77"	9	47	"47"	0	"CHP1,intron_variant,,ENST00000334660,NM_007236.4;CHP1,intron_variant,,ENST00000560397,;CHP1,intron_variant,,ENST00000560965,;CHP1,intron_variant,,ENST00000558351,;CHP1,intron_variant,,ENST00000560633,;CHP1,intron_variant,,ENST00000560411,;CHP1,intron_variant,,ENST00000392151,;CHP1,intron_variant,,ENST00000560784,;"	"C"	"ENSG00000187446"	"ENST00000334660"	"Transcript"	"intron_variant"	"-/3284"	"-/588"	"-/195"	""	""	""	"1"	NA	1	"CHP1"	"HGNC"	17433	"protein_coding"	"YES"	"CCDS10073.1"	"ENSP00000335632"	"Q99653"	""	"UPI000013D461"	"NM_007236.4"	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"22ff6ad2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104651162790698	"WGS"	FALSE
"13410"	"RTF1"	23168	"mskcc.org"	"GRCh37"	"15"	41756700	41756700	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.663-269A>G"	""	""	"ENST00000389629"	""	110	"100"	10	52	"52"	0	"RTF1,intron_variant,,ENST00000389629,NM_015138.4;"	"G"	"ENSG00000137815"	"ENST00000389629"	"Transcript"	"intron_variant"	"-/5021"	"-/2133"	"-/710"	""	""	""	"1"	NA	1	"RTF1"	"HGNC"	28996	"protein_coding"	"YES"	"CCDS32200.2"	"ENSP00000374280"	"Q92541"	"I7GPQ7"	"UPI0000E23C14"	"NM_015138.4"	""	""	""	"4/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"22ff7fd6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"13411"	"RPAP1"	26015	"mskcc.org"	"GRCh37"	"15"	41833925	41833925	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-77+2492C>G"	""	""	"ENST00000304330"	""	75	"67"	8	38	"38"	0	"RPAP1,intron_variant,,ENST00000304330,NM_015540.2;RPAP1,intron_variant,,ENST00000561603,;RPAP1,intron_variant,,ENST00000567866,;RPAP1,intron_variant,,ENST00000566863,;RPAP1,intron_variant,,ENST00000562303,;RPAP1,intron_variant,,ENST00000569829,;"	"C"	"ENSG00000103932"	"ENST00000304330"	"Transcript"	"intron_variant"	"-/4665"	"-/4182"	"-/1393"	""	""	""	"1"	NA	-1	"RPAP1"	"HGNC"	24567	"protein_coding"	"YES"	"CCDS10079.1"	"ENSP00000306123"	"Q9BWH6"	"H3BPY8,H3BPM3"	"UPI000013D465"	"NM_015540.2"	""	""	""	"1/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"22ff8774-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106666666666667	"WGS"	FALSE
"13412"	"CTDSPL2"	51496	"mskcc.org"	"GRCh37"	"15"	44755546	44755546	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.186+4148G>C"	""	""	"ENST00000260327"	""	80	"74"	6	42	"42"	0	"CTDSPL2,intron_variant,,ENST00000260327,NM_016396.2;CTDSPL2,intron_variant,,ENST00000396780,;CTDSPL2,intron_variant,,ENST00000558373,;CTDSPL2,intron_variant,,ENST00000558966,;CTDSPL2,intron_variant,,ENST00000558791,;CTDSPL2,intron_variant,,ENST00000558968,;CTDSPL2,intron_variant,,ENST00000559793,;CTDSPL2,intron_variant,,ENST00000560834,;"	"C"	"ENSG00000137770"	"ENST00000260327"	"Transcript"	"intron_variant"	"-/6828"	"-/1401"	"-/466"	""	""	""	"1"	NA	1	"CTDSPL2"	"HGNC"	26936	"protein_coding"	"YES"	"CCDS10110.1"	"ENSP00000260327"	"Q05D32"	"H0YNW9,H0YNU2,H0YMH7"	"UPI000004A0B3"	"NM_016396.2"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"23004f88-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"13413"	"CTD-2651B20.4"	0	"mskcc.org"	"GRCh37"	"15"	45624941	45624941	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000560646"	""	84	"65"	19	42	"42"	0	"CTD-2651B20.4,upstream_gene_variant,,ENST00000560646,;"	"T"	"ENSG00000259433"	"ENST00000560646"	"Transcript"	"upstream_gene_variant"	"-/2426"	""	""	""	""	""	"1"	"109"	-1	"CTD-2651B20.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"2300819c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226190476190476	"WGS"	FALSE
"13414"	"SLC12A1"	6557	"mskcc.org"	"GRCh37"	"15"	48519665	48519665	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.724+294G>T"	""	""	"ENST00000396577"	""	72	"38"	34	35	"35"	0	"SLC12A1,intron_variant,,ENST00000396577,NM_001184832.1;SLC12A1,intron_variant,,ENST00000380993,NM_000338.2;SLC12A1,intron_variant,,ENST00000558405,;SLC12A1,intron_variant,,ENST00000559641,;SLC12A1,intron_variant,,ENST00000330289,;SLC12A1,intron_variant,,ENST00000559723,;SLC12A1,non_coding_transcript_exon_variant,,ENST00000560692,;SLC12A1,intron_variant,,ENST00000558252,;SLC12A1,intron_variant,,ENST00000561127,;"	"T"	"ENSG00000074803"	"ENST00000396577"	"Transcript"	"intron_variant"	"-/4708"	"-/3300"	"-/1099"	""	""	""	"1"	NA	1	"SLC12A1"	"HGNC"	10910	"protein_coding"	"YES"	"CCDS53940.1"	"ENSP00000379822"	""	"O76030,E9PDW4"	"UPI000013C794"	"NM_001184832.1"	""	""	""	"5/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"2300e682-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.472222222222222	"WGS"	FALSE
"13415"	"FBN1"	2200	"mskcc.org"	"GRCh37"	"15"	48833847	48833847	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.539-3842G>A"	""	""	"ENST00000316623"	""	93	"65"	28	55	"55"	0	"FBN1,intron_variant,,ENST00000316623,NM_000138.4;FBN1,intron_variant,,ENST00000537463,;"	"T"	"ENSG00000166147"	"ENST00000316623"	"Transcript"	"intron_variant"	"-/11756"	"-/8616"	"-/2871"	""	""	""	"1"	NA	-1	"FBN1"	"HGNC"	3603	"protein_coding"	"YES"	"CCDS32232.1"	"ENSP00000325527"	"P35555"	"Q75N89,Q75N88,H0YN80"	"UPI0000163B0B"	"NM_000138.4"	""	""	""	"6/65"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"2300f262-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301075268817204	"WGS"	FALSE
"13416"	"SLC27A2"	11001	"mskcc.org"	"GRCh37"	"15"	50517815	50517815	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1168-370G>A"	""	""	"ENST00000267842"	""	73	"50"	23	63	"63"	0	"SLC27A2,intron_variant,,ENST00000267842,NM_003645.3;SLC27A2,intron_variant,,ENST00000380902,NM_001159629.1;SLC27A2,intron_variant,,ENST00000544960,;Y_RNA,downstream_gene_variant,,ENST00000363735,;SLC27A2,intron_variant,,ENST00000559938,;"	"A"	"ENSG00000140284"	"ENST00000267842"	"Transcript"	"intron_variant"	"-/2394"	"-/1863"	"-/620"	""	""	""	"1"	NA	1	"SLC27A2"	"HGNC"	10996	"protein_coding"	"YES"	"CCDS10133.1"	"ENSP00000267842"	"O14975"	"G3V1R7"	"UPI000013D776"	"NM_003645.3"	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"23011ad0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315068493150685	"WGS"	FALSE
"13417"	"USP8"	9101	"mskcc.org"	"GRCh37"	"15"	50770745	50770745	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1218+1049C>A"	""	""	"ENST00000433963"	""	97	"91"	6	52	"52"	0	"USP8,intron_variant,,ENST00000433963,NM_001128611.1;USP8,intron_variant,,ENST00000396444,NM_001128610.1,NM_005154.3;USP8,intron_variant,,ENST00000307179,;USP8,intron_variant,,ENST00000425032,NM_001283049.1;USP8,intron_variant,,ENST00000559329,;USP8,intron_variant,,ENST00000560730,;USP8,intron_variant,,ENST00000561330,;"	"A"	"ENSG00000138592"	"ENST00000433963"	"Transcript"	"intron_variant"	"-/5848"	"-/3357"	"-/1118"	""	""	""	"1"	NA	1	"USP8"	"HGNC"	12631	"protein_coding"	"YES"	"CCDS10137.1"	"ENSP00000405537"	"P40818"	"H0YNL5,H0YM17,H0YLH2"	"UPI0000030306"	"NM_001128611.1"	""	""	""	"11/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"23012d18-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0618556701030928	"WGS"	TRUE
"13418"	"ARPP19"	10776	"mskcc.org"	"GRCh37"	"15"	52844764	52844764	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.169-463T>C"	""	""	"ENST00000566423"	""	56	"50"	6	27	"27"	0	"ARPP19,intron_variant,,ENST00000566423,;ARPP19,intron_variant,,ENST00000249822,NM_006628.4;ARPP19,intron_variant,,ENST00000561650,;ARPP19,intron_variant,,ENST00000568196,;ARPP19,intron_variant,,ENST00000563277,;ARPP19,intron_variant,,ENST00000561971,;ARPP19,intron_variant,,ENST00000567669,;ARPP19,intron_variant,,ENST00000564163,;ARPP19,intron_variant,,ENST00000569281,;ARPP19,intron_variant,,ENST00000563566,;ARPP19,intron_variant,,ENST00000569723,;ARPP19,intron_variant,,ENST00000567830,;ARPP19,intron_variant,,ENST00000565288,;"	"G"	"ENSG00000128989"	"ENST00000566423"	"Transcript"	"intron_variant"	"-/5362"	"-/339"	"-/112"	""	""	""	"1"	NA	-1	"ARPP19"	"HGNC"	16967	"protein_coding"	"YES"	"CCDS32242.1"	"ENSP00000455625"	"P56211"	"H3BTD3"	"UPI000000030A"	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"2301b210-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"13419"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	53768002	53768002	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"86"	6	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"2301ded4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"13420"	"DYX1C1"	161582	"mskcc.org"	"GRCh37"	"15"	55786484	55786484	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"rs540494914"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.272-3030T>G"	""	""	"ENST00000321149"	""	77	"69"	8	48	"48"	0	"DYX1C1,intron_variant,,ENST00000321149,NM_130810.3;DYX1C1,intron_variant,,ENST00000348518,NM_001033559.2;DYX1C1,intron_variant,,ENST00000380679,NM_001033560.1;DYX1C1,intron_variant,,ENST00000457155,;DYX1C1,intron_variant,,ENST00000448430,;DYX1C1-CCPG1,intron_variant,,ENST00000565113,;DYX1C1-CCPG1,intron_variant,,ENST00000568310,;DYX1C1,intron_variant,,ENST00000524160,;DYX1C1,intron_variant,,ENST00000522437,;DYX1C1,intron_variant,,ENST00000519017,;"	"C"	"ENSG00000256061"	"ENST00000321149"	"Transcript"	"intron_variant"	"-/1993"	"-/1263"	"-/420"	""	""	"rs540494914"	"1"	NA	-1	"DYX1C1"	"HGNC"	21493	"protein_coding"	"YES"	"CCDS10154.1"	"ENSP00000323275"	"Q8WXU2"	""	"UPI000013E5B8"	"NM_130810.3"	""	""	""	"3/9"	""	"C:0.0010"	"C:0"	"C:0"	NA	"C:0.005"	"C:0"	"C:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"2302374e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103896103896104	"WGS"	FALSE
"13421"	"RP11-358M11.3"	0	"mskcc.org"	"GRCh37"	"15"	57616729	57616729	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000564843"	""	24	"21"	3	9	"9"	0	"RP11-358M11.3,downstream_gene_variant,,ENST00000564843,;RP11-358M11.4,downstream_gene_variant,,ENST00000567319,;"	"A"	"ENSG00000260172"	"ENST00000564843"	"Transcript"	"downstream_gene_variant"	"-/772"	""	""	""	""	""	"1"	"623"	1	"RP11-358M11.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"23028a14-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"13422"	"MYO1E"	4643	"mskcc.org"	"GRCh37"	"15"	59476479	59476479	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1904+3838T>A"	""	""	"ENST00000288235"	""	102	"94"	8	50	"50"	0	"MYO1E,intron_variant,,ENST00000288235,NM_004998.3;MYO1E,intron_variant,,ENST00000560749,;MYO1E,intron_variant,,ENST00000559269,;MYO1E,intron_variant,,ENST00000558182,;"	"T"	"ENSG00000157483"	"ENST00000288235"	"Transcript"	"intron_variant"	"-/6193"	"-/3327"	"-/1108"	""	""	""	"1"	NA	-1	"MYO1E"	"HGNC"	7599	"protein_coding"	"YES"	"CCDS32254.1"	"ENSP00000288235"	"Q12965"	"Q4KMR3"	"UPI00001FE590"	"NM_004998.3"	""	""	""	"18/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAA"	"2302e914-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0784313725490196	"WGS"	FALSE
"13423"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	60027662	60027662	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"62"	6	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"23030f84-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"13424"	"RORA"	6095	"mskcc.org"	"GRCh37"	"15"	60788589	60788589	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000261523"	""	94	"61"	33	51	"51"	0	"RORA,3_prime_UTR_variant,,ENST00000335670,NM_134261.2;RORA,downstream_gene_variant,,ENST00000261523,NM_134260.2;RORA,downstream_gene_variant,,ENST00000309157,NM_002943.3;RORA,downstream_gene_variant,,ENST00000449337,NM_134262.2;RP11-219B17.1,intron_variant,,ENST00000558140,;RP11-219B17.1,intron_variant,,ENST00000501579,;RP11-219B17.1,intron_variant,,ENST00000559824,;RP11-219B17.1,intron_variant,,ENST00000558235,;"	"T"	"ENSG00000069667"	"ENST00000261523"	"Transcript"	"downstream_gene_variant"	"-/1951"	"-/1671"	"-/556"	""	""	""	"1"	"874"	-1	"RORA"	"HGNC"	10258	"protein_coding"	"YES"	"CCDS10179.1"	"ENSP00000261523"	"P35398"	""	"UPI0000134548"	"NM_134260.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"23033004-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351063829787234	"WGS"	FALSE
"13425"	"AC007950.1"	0	"mskcc.org"	"GRCh37"	"15"	63749885	63749885	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.92-869C>A"	""	""	"ENST00000560465"	""	74	"53"	21	45	"45"	0	"AC007950.1,intron_variant,,ENST00000560465,;"	"T"	"ENSG00000259268"	"ENST00000560465"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/615"	""	""	""	""	""	"1"	NA	-1	"AC007950.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"2303aaca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283783783783784	"WGS"	FALSE
"13426"	"ZNF609"	23060	"mskcc.org"	"GRCh37"	"15"	64904572	64904572	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.748-10454T>A"	""	""	"ENST00000326648"	""	91	"85"	6	38	"38"	0	"ZNF609,intron_variant,,ENST00000326648,NM_015042.1;ZNF609,intron_variant,,ENST00000558680,;"	"A"	"ENSG00000180357"	"ENST00000326648"	"Transcript"	"intron_variant"	"-/8743"	"-/4236"	"-/1411"	""	""	""	"1"	NA	1	"ZNF609"	"HGNC"	29003	"protein_coding"	"YES"	"CCDS32270.1"	"ENSP00000316527"	"O15014"	""	"UPI00001D7783"	"NM_015042.1"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"23040d3a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"13427"	"ZNF609"	23060	"mskcc.org"	"GRCh37"	"15"	64904578	64904578	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.748-10448G>C"	""	""	"ENST00000326648"	""	91	"84"	7	39	"39"	0	"ZNF609,intron_variant,,ENST00000326648,NM_015042.1;ZNF609,intron_variant,,ENST00000558680,;"	"C"	"ENSG00000180357"	"ENST00000326648"	"Transcript"	"intron_variant"	"-/8743"	"-/4236"	"-/1411"	""	""	""	"1"	NA	1	"ZNF609"	"HGNC"	29003	"protein_coding"	"YES"	"CCDS32270.1"	"ENSP00000316527"	"O15014"	""	"UPI00001D7783"	"NM_015042.1"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"23040df8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"13428"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	65609082	65609082	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"70"	8	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"230478b0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"13429"	"TIPIN"	54962	"mskcc.org"	"GRCh37"	"15"	66651695	66651695	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000261881"	""	99	"72"	27	46	"46"	0	"TIPIN,intron_variant,,ENST00000562124,;TIPIN,intron_variant,,ENST00000570251,;TIPIN,intron_variant,,ENST00000568216,;TIPIN,upstream_gene_variant,,ENST00000261881,NM_017858.2;TIPIN,upstream_gene_variant,,ENST00000367709,;TIPIN,upstream_gene_variant,,ENST00000566524,;"	"A"	"ENSG00000075131"	"ENST00000261881"	"Transcript"	"upstream_gene_variant"	"-/1744"	"-/906"	"-/301"	""	""	""	"1"	"2641"	-1	"TIPIN"	"HGNC"	30750	"protein_coding"	"YES"	"CCDS10215.1"	"ENSP00000261881"	"Q9BVW5"	"H3BVG9,H3BU04,G8JLE5"	"UPI000013D21A"	"NM_017858.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"2304acf4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"13430"	"TIPIN"	54962	"mskcc.org"	"GRCh37"	"15"	66660362	66660362	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-8-15069T>C"	""	""	"ENST00000562124"	""	83	"76"	7	36	"36"	0	"TIPIN,intron_variant,,ENST00000562124,;TIPIN,intron_variant,,ENST00000570251,;TIPIN,intron_variant,,ENST00000568216,;"	"G"	"ENSG00000075131"	"ENST00000562124"	"Transcript"	"intron_variant"	"-/1009"	"-/883"	"-/294"	""	""	""	"1"	NA	-1	"TIPIN"	"HGNC"	30750	"protein_coding"	""	""	"ENSP00000457406"	""	"H3BVG9,H3BU04"	"UPI000246735A"	""	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"2304b564-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"13431"	"RP11-809H16.2"	0	"mskcc.org"	"GRCh37"	"15"	69256920	69256920	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.215-10148G>A"	""	""	"ENST00000557966"	""	36	"30"	6	19	"19"	0	"NOX5,intron_variant,,ENST00000260364,;NOX5,intron_variant,,ENST00000448182,;NOX5,intron_variant,,ENST00000455873,NM_001184780.1;RP11-809H16.2,intron_variant,,ENST00000557966,;"	"A"	"ENSG00000137808"	"ENST00000557966"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1117"	""	""	""	""	""	"1"	NA	1	"RP11-809H16.2"	"Clone_based_vega_gene"	NA	"retained_intron"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"23054056-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"13432"	"THSD4"	79875	"mskcc.org"	"GRCh37"	"15"	71536508	71536508	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.912+1073A>T"	""	""	"ENST00000355327"	""	72	"43"	29	50	"50"	0	"THSD4,intron_variant,,ENST00000355327,;THSD4,intron_variant,,ENST00000261862,NM_024817.2;"	"T"	"ENSG00000187720"	"ENST00000355327"	"Transcript"	"intron_variant"	"-/9200"	"-/3057"	"-/1018"	""	""	""	"1"	NA	1	"THSD4"	"HGNC"	25835	"protein_coding"	"YES"	"CCDS10238.2"	"ENSP00000347484"	"Q6ZMP0"	""	"UPI00001A797D"	""	""	""	""	"5/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"2305b39c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.402777777777778	"WGS"	FALSE
"13433"	"ARIH1"	25820	"mskcc.org"	"GRCh37"	"15"	72827295	72827295	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.444-9866G>A"	""	""	"ENST00000379887"	""	60	"41"	19	26	"26"	0	"ARIH1,intron_variant,,ENST00000379887,NM_005744.3;ARIH1,intron_variant,,ENST00000564062,;ARIH1,intron_variant,,ENST00000567762,;ARIH1,intron_variant,,ENST00000570085,;"	"A"	"ENSG00000166233"	"ENST00000379887"	"Transcript"	"intron_variant"	"-/6047"	"-/1674"	"-/557"	""	""	""	"1"	NA	1	"ARIH1"	"HGNC"	689	"protein_coding"	"YES"	"CCDS10244.1"	"ENSP00000369217"	"Q9Y4X5"	""	"UPI0000033466"	"NM_005744.3"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"230623b8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316666666666667	"WGS"	FALSE
"13434"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	73326665	73326665	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"53"	38	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"2306360a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.417582417582418	"WGS"	FALSE
"13435"	"EDC3"	80153	"mskcc.org"	"GRCh37"	"15"	74993218	74993218	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000315127"	""	86	"81"	5	54	"54"	0	"EDC3,upstream_gene_variant,,ENST00000315127,NM_025083.3,NM_001142444.1;EDC3,upstream_gene_variant,,ENST00000426797,NM_001142443.1;EDC3,upstream_gene_variant,,ENST00000568176,;EDC3,upstream_gene_variant,,ENST00000563009,;EDC3,upstream_gene_variant,,ENST00000566243,;EDC3,upstream_gene_variant,,ENST00000566219,;EDC3,upstream_gene_variant,,ENST00000569561,;EDC3,upstream_gene_variant,,ENST00000566828,;EDC3,upstream_gene_variant,,ENST00000566119,;EDC3,upstream_gene_variant,,ENST00000565602,;EDC3,upstream_gene_variant,,ENST00000569007,;"	"G"	"ENSG00000179151"	"ENST00000315127"	"Transcript"	"upstream_gene_variant"	"-/3763"	"-/1527"	"-/508"	""	""	""	"1"	"4834"	-1	"EDC3"	"HGNC"	26114	"protein_coding"	"YES"	"CCDS10267.1"	"ENSP00000320503"	"Q96F86"	"H3BU87,H3BTH0,H3BTF8,H3BSQ0,H3BQP5,H3BQA1,H3BQ37,H3BPW9,H3BN89,H3BMB8"	"UPI000007309A"	"NM_025083.3,NM_001142444.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"23069136-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0581395348837209	"WGS"	FALSE
"13436"	"SIN3A"	25942	"mskcc.org"	"GRCh37"	"15"	75751500	75751500	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000360439"	""	96	"87"	9	49	"49"	0	"SIN3A,upstream_gene_variant,,ENST00000360439,NM_001145357.1;SIN3A,upstream_gene_variant,,ENST00000564778,;SIN3A,upstream_gene_variant,,ENST00000562776,;SIN3A,upstream_gene_variant,,ENST00000568190,;SIN3A,upstream_gene_variant,,ENST00000568431,;SIN3A,upstream_gene_variant,,ENST00000570115,;SIN3A,upstream_gene_variant,,ENST00000568309,;"	"C"	"ENSG00000169375"	"ENST00000360439"	"Transcript"	"upstream_gene_variant"	"-/5050"	"-/3822"	"-/1273"	""	""	""	"1"	"3376"	-1	"SIN3A"	"HGNC"	19353	"protein_coding"	""	"CCDS10279.1"	"ENSP00000353622"	"Q96ST3"	"H3BT34,H3BQ88,H3BQ76,H3BP90,H3BNZ3,H3BNA0"	"UPI000013EAD4"	"NM_001145357.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"2306e226-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"13437"	"SNUPN"	10073	"mskcc.org"	"GRCh37"	"15"	75921355	75921355	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000564644"	""	83	"75"	8	43	"43"	0	"SNUPN,upstream_gene_variant,,ENST00000371091,;SNUPN,upstream_gene_variant,,ENST00000564644,;SNUPN,upstream_gene_variant,,ENST00000564675,;SNUPN,upstream_gene_variant,,ENST00000567134,NM_001042588.1;SNUPN,upstream_gene_variant,,ENST00000308588,NM_001042581.1,NM_005701.3;SNUPN,upstream_gene_variant,,ENST00000569817,;SNUPN,upstream_gene_variant,,ENST00000568162,;SNUPN,upstream_gene_variant,,ENST00000563793,;SNUPN,upstream_gene_variant,,ENST00000564086,;SNUPN,upstream_gene_variant,,ENST00000563875,;CTD-2026K11.3,downstream_gene_variant,,ENST00000566036,;"	"G"	"ENSG00000169371"	"ENST00000564644"	"Transcript"	"upstream_gene_variant"	"-/1931"	"-/1083"	"-/360"	""	""	""	"1"	"3326"	-1	"SNUPN"	"HGNC"	14245	"protein_coding"	"YES"	"CCDS10281.1"	"ENSP00000454852"	"O95149"	"H3BTA6,H3BSK1,H3BRI5,H3BQR0"	"UPI0000031A89"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"230701f2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0963855421686747	"WGS"	FALSE
"13438"	"CSPG4"	1464	"mskcc.org"	"GRCh37"	"15"	76001846	76001846	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.88+3163G>T"	""	""	"ENST00000308508"	""	84	"76"	8	49	"49"	0	"CSPG4,intron_variant,,ENST00000308508,NM_001897.4;"	"A"	"ENSG00000173546"	"ENST00000308508"	"Transcript"	"intron_variant"	"-/8290"	"-/6969"	"-/2322"	""	""	""	"1"	NA	-1	"CSPG4"	"HGNC"	2466	"protein_coding"	"YES"	"CCDS10284.1"	"ENSP00000312506"	"Q6UVK1"	""	"UPI00001AEEB6"	"NM_001897.4"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"23070b2a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"13439"	"SCAPER"	49855	"mskcc.org"	"GRCh37"	"15"	76960258	76960258	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2509-2128G>C"	""	""	"ENST00000563290"	""	105	"97"	8	41	"41"	0	"SCAPER,intron_variant,,ENST00000538941,NM_001145923.1;SCAPER,intron_variant,,ENST00000563290,;SCAPER,intron_variant,,ENST00000324767,NM_020843.2;SCAPER,intron_variant,,ENST00000303521,;SCAPER,upstream_gene_variant,,ENST00000564757,;"	"G"	"ENSG00000140386"	"ENST00000563290"	"Transcript"	"intron_variant"	"-/4747"	"-/4203"	"-/1400"	""	""	""	"1"	NA	-1	"SCAPER"	"HGNC"	13081	"protein_coding"	"YES"	"CCDS53962.1"	"ENSP00000454973"	"Q9BY12"	"H3BTY2,H3BR40,H3BPB0"	"UPI0000E59CC3"	""	""	""	""	"20/31"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"23073e74-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0761904761904762	"WGS"	FALSE
"13440"	"PEAK1"	79834	"mskcc.org"	"GRCh37"	"15"	77704247	77704247	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-338+8101G>A"	""	""	"ENST00000560626"	""	93	"63"	30	35	"35"	0	"PEAK1,intron_variant,,ENST00000560626,;PEAK1,intron_variant,,ENST00000558305,;PEAK1,intron_variant,,ENST00000564328,;PEAK1,intron_variant,,ENST00000567337,;PEAK1,intron_variant,,ENST00000569159,;PEAK1,intron_variant,,ENST00000567808,;"	"T"	"ENSG00000173517"	"ENST00000560626"	"Transcript"	"intron_variant"	"-/11715"	"-/5241"	"-/1746"	""	""	""	"1"	NA	-1	"PEAK1"	"HGNC"	29431	"protein_coding"	"YES"	"CCDS42062.1"	"ENSP00000452796"	"Q9H792"	"H3BUZ5,H3BUE6"	"UPI00002378D0"	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"2307658e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32258064516129	"WGS"	FALSE
"13441"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	79846179	79846179	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"53"	20	33	"33"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"2307e14e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273972602739726	"WGS"	FALSE
"13442"	"ZFAND6"	54469	"mskcc.org"	"GRCh37"	"15"	80350093	80350093	"+"	"5'Flank"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000261749"	""	86	"53"	33	58	"58"	0	"ZFAND6,upstream_gene_variant,,ENST00000261749,NM_019006.3,NM_001242914.1,NM_001242913.1;ZFAND6,upstream_gene_variant,,ENST00000559157,NM_001242917.1;ZFAND6,upstream_gene_variant,,ENST00000558494,NM_001242911.1;ZFAND6,upstream_gene_variant,,ENST00000561060,;ZFAND6,upstream_gene_variant,,ENST00000561012,;ZFAND6,upstream_gene_variant,,ENST00000564367,;ZFAND6,upstream_gene_variant,,ENST00000560470,;"	"C"	"ENSG00000086666"	"ENST00000261749"	"Transcript"	"upstream_gene_variant"	"-/1814"	"-/627"	"-/208"	""	""	""	"1"	"1817"	1	"ZFAND6"	"HGNC"	30164	"protein_coding"	"YES"	"CCDS10313.1"	"ENSP00000261749"	"Q6FIF0"	"H3BT16,H3BPX9,H3BP46,H3BMJ5,H0YME2"	"UPI0000073A48"	"NM_019006.3,NM_001242914.1,NM_001242913.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"2307f85a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.383720930232558	"WGS"	FALSE
"13443"	"FAH"	2184	"mskcc.org"	"GRCh37"	"15"	80459248	80459248	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.456-1146A>G"	""	""	"ENST00000407106"	""	74	"68"	6	45	"45"	0	"FAH,intron_variant,,ENST00000539156,;FAH,intron_variant,,ENST00000407106,;FAH,intron_variant,,ENST00000561421,NM_000137.2;FAH,intron_variant,,ENST00000261755,;FAH,intron_variant,,ENST00000558022,;RP11-2E17.2,non_coding_transcript_exon_variant,,ENST00000568836,;FAH,intron_variant,,ENST00000558627,;FAH,downstream_gene_variant,,ENST00000558767,;FAH,downstream_gene_variant,,ENST00000537726,;FAH,downstream_gene_variant,,ENST00000561369,;FAH,upstream_gene_variant,,ENST00000558514,;"	"G"	"ENSG00000103876"	"ENST00000407106"	"Transcript"	"intron_variant"	"-/2152"	"-/1260"	"-/419"	""	""	""	"1"	NA	1	"FAH"	"HGNC"	3579	"protein_coding"	"YES"	"CCDS10314.1"	"ENSP00000385080"	"P16930"	"Q53XA7,H0YLC7"	"UPI000012A422"	""	""	""	""	"6/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"2307fe0e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"13444"	"CPEB1"	64506	"mskcc.org"	"GRCh37"	"15"	83248434	83248434	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.191-8152C>T"	""	""	"ENST00000568128"	""	62	"57"	5	40	"40"	0	"CPEB1,intron_variant,,ENST00000563800,;CPEB1,intron_variant,,ENST00000450751,NM_001288819.1;CPEB1,intron_variant,,ENST00000562019,;CPEB1,intron_variant,,ENST00000568757,;CPEB1,intron_variant,,ENST00000568128,NM_030594.3;CPEB1,intron_variant,,ENST00000567678,;CPEB1,intron_variant,,ENST00000569257,;"	"A"	"ENSG00000214575"	"ENST00000568128"	"Transcript"	"intron_variant"	"-/2112"	"-/1686"	"-/561"	""	""	""	"1"	NA	-1	"CPEB1"	"HGNC"	21744	"protein_coding"	"YES"	"CCDS45329.1"	"ENSP00000457881"	"Q9BZB8"	"H3BPD6,H3BNX1,G8JLI7"	"UPI000018CEBD"	"NM_030594.3"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"230845a8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WGS"	FALSE
"13445"	"RP11-752G15.8"	0	"mskcc.org"	"GRCh37"	"15"	83413787	83413787	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.97+716T>A"	""	""	"ENST00000558342"	""	83	"76"	7	43	"43"	0	"RP11-752G15.8,intron_variant,,ENST00000558342,;"	"A"	"ENSG00000259442"	"ENST00000558342"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1091"	""	""	""	""	""	"1"	NA	1	"RP11-752G15.8"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"23085836-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"13446"	"HDGFRP3"	50810	"mskcc.org"	"GRCh37"	"15"	83838158	83838158	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.85-5331G>C"	""	""	"ENST00000299633"	""	35	"31"	4	22	"22"	0	"HDGFRP3,intron_variant,,ENST00000299633,NM_016073.3;HDGFRP3,upstream_gene_variant,,ENST00000562702,;HDGFRP3,intron_variant,,ENST00000563790,;HDGFRP3,intron_variant,,ENST00000563404,;HDGFRP3,intron_variant,,ENST00000568129,;"	"G"	"ENSG00000166503"	"ENST00000299633"	"Transcript"	"intron_variant"	"-/2422"	"-/612"	"-/203"	""	""	""	"1"	NA	-1	"HDGFRP3"	"Uniprot_gn"	NA	"protein_coding"	"YES"	"CCDS32314.1"	"ENSP00000299633"	"Q9Y3E1"	""	"UPI000006D757"	"NM_016073.3"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"23086c36-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"13447"	"AGBL1"	123624	"mskcc.org"	"GRCh37"	"15"	87044093	87044093	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2418-21948A>T"	""	""	"ENST00000441037"	""	91	"52"	39	43	"43"	0	"AGBL1,intron_variant,,ENST00000441037,NM_152336.2;AGBL1,intron_variant,,ENST00000421325,;AGBL1,intron_variant,,ENST00000389298,;"	"T"	"ENSG00000166748"	"ENST00000441037"	"Transcript"	"intron_variant"	"-/3508"	"-/3201"	"-/1066"	""	""	""	"1"	NA	1	"AGBL1"	"HGNC"	26504	"protein_coding"	"YES"	"CCDS58398.1"	"ENSP00000413001"	"Q96MI9"	"J3KQF5"	"UPI0000EC9CE0"	"NM_152336.2"	""	""	""	"17/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"23093850-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WGS"	FALSE
"13448"	"MESP2"	145873	"mskcc.org"	"GRCh37"	"15"	90312339	90312339	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.30+4188G>A"	""	""	"ENST00000560219"	""	95	"57"	38	41	"41"	0	"MESP2,intron_variant,,ENST00000560219,;MESP2,intron_variant,,ENST00000558723,;"	"A"	"ENSG00000188095"	"ENST00000560219"	"Transcript"	"intron_variant"	"-/856"	"-/300"	"-/99"	""	""	""	"1"	NA	1	"MESP2"	"HGNC"	29659	"protein_coding"	""	""	"ENSP00000452998"	""	"H0YKZ5"	"UPI000016163E"	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"2309c9a0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WGS"	FALSE
"13449"	"AP3S2"	10239	"mskcc.org"	"GRCh37"	"15"	90373773	90373773	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000336418"	""	96	"75"	21	44	"44"	0	"AP3S2,downstream_gene_variant,,ENST00000336418,NM_005829.4;C15orf38-AP3S2,downstream_gene_variant,,ENST00000398333,NM_001199058.1;AP3S2,downstream_gene_variant,,ENST00000558011,;AP3S2,downstream_gene_variant,,ENST00000560940,;AP3S2,downstream_gene_variant,,ENST00000423566,;AP3S2,downstream_gene_variant,,ENST00000558926,;"	"T"	"ENSG00000157823"	"ENST00000336418"	"Transcript"	"downstream_gene_variant"	"-/5891"	"-/582"	"-/193"	""	""	""	"1"	"58"	-1	"AP3S2"	"HGNC"	571	"protein_coding"	"YES"	"CCDS10357.1"	"ENSP00000338777"	"P59780"	""	"UPI000002351D"	"NM_005829.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"2309d364-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WGS"	FALSE
"13450"	"SEMA4B"	10509	"mskcc.org"	"GRCh37"	"15"	90741394	90741394	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000411539"	""	86	"81"	5	47	"47"	0	"SEMA4B,intron_variant,,ENST00000332496,NM_020210.3;SEMA4B,intron_variant,,ENST00000379122,;SEMA4B,intron_variant,,ENST00000559792,;SEMA4B,intron_variant,,ENST00000561085,;SEMA4B,intron_variant,,ENST00000559322,;SEMA4B,intron_variant,,ENST00000558895,;SEMA4B,upstream_gene_variant,,ENST00000411539,NM_198925.2;SEMA4B,upstream_gene_variant,,ENST00000558051,;SEMA4B,downstream_gene_variant,,ENST00000560263,;SEMA4B,intron_variant,,ENST00000559300,;SEMA4B,upstream_gene_variant,,ENST00000560089,;"	"G"	"ENSG00000185033"	"ENST00000411539"	"Transcript"	"upstream_gene_variant"	"-/3807"	"-/2514"	"-/837"	""	""	""	"1"	"3157"	1	"SEMA4B"	"HGNC"	10730	"protein_coding"	"YES"	"CCDS45347.1"	"ENSP00000394720"	""	"Q4VBY2,J3KNP4,H0YMR1,H0YMD6,H0YLN3"	"UPI0000197391"	"NM_198925.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"230a0884-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0581395348837209	"WGS"	FALSE
"13451"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	93786873	93786873	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	46	"42"	4	23	"23"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"230ad3fe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"13452"	"RP11-4G2.1"	0	"mskcc.org"	"GRCh37"	"15"	96568433	96568433	"+"	"3'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000561051"	""	104	"69"	35	56	"56"	0	"RP11-4G2.1,downstream_gene_variant,,ENST00000561051,;"	"T"	"ENSG00000259348"	"ENST00000561051"	"Transcript"	"downstream_gene_variant"	"-/561"	""	""	""	""	""	"1"	"2885"	-1	"RP11-4G2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"230b38bc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336538461538462	"WGS"	FALSE
"13453"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	97410152	97410152	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"45"	25	33	"33"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"230b5e6e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WGS"	FALSE
"13454"	"CTD-2147F2.1"	0	"mskcc.org"	"GRCh37"	"15"	97887714	97887714	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.443+48161G>A"	""	""	"ENST00000560314"	""	89	"81"	8	42	"42"	0	"CTD-2147F2.1,intron_variant,,ENST00000560314,;"	"A"	"ENSG00000259485"	"ENST00000560314"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/565"	""	""	""	""	""	"1"	NA	1	"CTD-2147F2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"230b74e4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"13455"	"ADAMTS17"	170691	"mskcc.org"	"GRCh37"	"15"	100685908	100685908	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1473+6909A>C"	""	""	"ENST00000268070"	""	82	"52"	30	56	"56"	0	"ADAMTS17,intron_variant,,ENST00000268070,NM_139057.2;ADAMTS17,intron_variant,,ENST00000378898,;"	"G"	"ENSG00000140470"	"ENST00000268070"	"Transcript"	"intron_variant"	"-/6207"	"-/3288"	"-/1095"	""	""	""	"1"	NA	-1	"ADAMTS17"	"HGNC"	17109	"protein_coding"	"YES"	"CCDS10383.1"	"ENSP00000268070"	"Q8TE56"	""	"UPI00001AE929"	"NM_139057.2"	""	""	""	"10/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"230beea6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.365853658536585	"WGS"	FALSE
"13456"	"ASB7"	140460	"mskcc.org"	"GRCh37"	"15"	101192749	101192749	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000332783"	""	108	"74"	34	50	"50"	0	"ASB7,downstream_gene_variant,,ENST00000332783,NM_198243.2;ASB7,downstream_gene_variant,,ENST00000558747,;"	"A"	"ENSG00000183475"	"ENST00000332783"	"Transcript"	"downstream_gene_variant"	"-/4985"	"-/957"	"-/318"	""	""	""	"1"	"839"	1	"ASB7"	"HGNC"	17182	"protein_coding"	"YES"	"CCDS10387.1"	"ENSP00000328327"	"Q9H672"	""	"UPI00001B3F4D"	"NM_198243.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"230c0c7e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314814814814815	"WGS"	FALSE
"13457"	"UNKL"	64718	"mskcc.org"	"GRCh37"	"16"	1450658	1450658	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.598+911G>T"	""	""	"ENST00000389221"	""	72	"51"	21	45	"45"	0	"UNKL,intron_variant,,ENST00000389221,NM_001193388.3;UNKL,intron_variant,,ENST00000508903,;UNKL,intron_variant,,ENST00000397462,;UNKL,intron_variant,,ENST00000301712,NM_001037125.3;UNKL,downstream_gene_variant,,ENST00000503648,;UNKL,downstream_gene_variant,,ENST00000561783,;UNKL,intron_variant,,ENST00000382757,;UNKL,intron_variant,,ENST00000502438,;UNKL,upstream_gene_variant,,ENST00000509981,;UNKL,downstream_gene_variant,,ENST00000566707,;"	"A"	"ENSG00000059145"	"ENST00000389221"	"Transcript"	"intron_variant"	"-/5078"	"-/2043"	"-/680"	""	""	""	"1"	NA	-1	"UNKL"	"HGNC"	14184	"protein_coding"	"YES"	""	"ENSP00000373873"	"Q9H9P5"	"D6RA68"	"UPI0001AE676E"	"NM_001193388.3"	""	""	""	"4/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"230e871a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WGS"	FALSE
"13458"	"IFT140"	9742	"mskcc.org"	"GRCh37"	"16"	1649456	1649456	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.369+2915C>T"	""	""	"ENST00000426508"	""	22	"18"	4	16	"16"	0	"IFT140,intron_variant,,ENST00000426508,NM_014714.3;IFT140,downstream_gene_variant,,ENST00000569646,;IFT140,downstream_gene_variant,,ENST00000569812,;LA16c-395F10.2,intron_variant,,ENST00000563162,;IFT140,intron_variant,,ENST00000439987,;IFT140,intron_variant,,ENST00000397417,;IFT140,downstream_gene_variant,,ENST00000566052,;"	"A"	"ENSG00000187535"	"ENST00000426508"	"Transcript"	"intron_variant"	"-/5270"	"-/4389"	"-/1462"	""	""	""	"1"	NA	-1	"IFT140"	"HGNC"	29077	"protein_coding"	"YES"	"CCDS10439.1"	"ENSP00000406012"	"Q96RY7"	"Q9UG52,H3BTA5,H3BNC5"	"UPI0000073C64"	"NM_014714.3"	""	""	""	"4/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"230ea628-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"13459"	"MEIOB"	64735	"mskcc.org"	"GRCh37"	"16"	1921564	1921564	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10+430A>G"	""	""	"ENST00000412554"	""	41	"34"	7	21	"21"	0	"MEIOB,intron_variant,,ENST00000412554,NM_001163560.2;MEIOB,intron_variant,,ENST00000470044,;MEIOB,intron_variant,,ENST00000452149,;MEIOB,intron_variant,,ENST00000397344,NM_152764.2;MEIOB,intron_variant,,ENST00000496541,;MEIOB,upstream_gene_variant,,ENST00000325962,;AL499628.1,downstream_gene_variant,,ENST00000584905,;MEIOB,intron_variant,,ENST00000460494,;"	"C"	"ENSG00000162039"	"ENST00000412554"	"Transcript"	"intron_variant"	"-/1884"	"-/1416"	"-/471"	""	""	""	"1"	NA	-1	"MEIOB"	"HGNC"	28569	"protein_coding"	"YES"	"CCDS53983.1"	"ENSP00000390778"	"Q8N635"	"H3BU10,H3BSU6"	"UPI000198C771"	"NM_001163560.2"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"230ecd38-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170731707317073	"WGS"	FALSE
"13460"	"ERVK13-1"	100507321	"mskcc.org"	"GRCh37"	"16"	2726047	2726047	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000568395"	""	120	"91"	29	64	"64"	0	"ERVK13-1,upstream_gene_variant,,ENST00000568395,;ERVK13-1,upstream_gene_variant,,ENST00000569465,;ERVK13-1,upstream_gene_variant,,ENST00000564340,;ERVK13-1,upstream_gene_variant,,ENST00000564160,;ERVK13-1,upstream_gene_variant,,ENST00000562807,;ERVK13-1,upstream_gene_variant,,ENST00000566343,;ERVK13-1,upstream_gene_variant,,ENST00000568970,;"	"A"	"ENSG00000260565"	"ENST00000568395"	"Transcript"	"upstream_gene_variant"	"-/5578"	""	""	""	""	""	"1"	"2605"	-1	"ERVK13-1"	"HGNC"	27548	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"230f3e8a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241666666666667	"WGS"	FALSE
"13461"	"MMP25"	64386	"mskcc.org"	"GRCh37"	"16"	3093345	3093345	"+"	"5'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000336577"	""	76	"42"	34	48	"48"	0	"MMP25,upstream_gene_variant,,ENST00000336577,NM_022468.4;RP11-473M20.5,downstream_gene_variant,,ENST00000382225,;MMP25,upstream_gene_variant,,ENST00000570755,;"	"C"	"ENSG00000008516"	"ENST00000336577"	"Transcript"	"upstream_gene_variant"	"-/3554"	"-/1689"	"-/562"	""	""	""	"1"	"3337"	1	"MMP25"	"HGNC"	14246	"protein_coding"	"YES"	"CCDS10492.1"	"ENSP00000337816"	"Q9NPA2"	""	"UPI000003DC71"	"NM_022468.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"230f63e2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.447368421052632	"WGS"	FALSE
"13462"	"RP11-473M20.16"	0	"mskcc.org"	"GRCh37"	"16"	3206967	3206967	"+"	"RNA"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.518T>A"	""	""	"ENST00000570843"	"1/1"	93	"84"	9	47	"47"	0	"RP11-473M20.16,non_coding_transcript_exon_variant,,ENST00000570843,;"	"T"	"ENSG00000261889"	"ENST00000570843"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"518/748"	""	""	""	""	""	"1"	NA	-1	"RP11-473M20.16"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"230f759e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"13463"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	3963619	3963619	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	27	"22"	5	11	"11"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"230fc5d0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WGS"	FALSE
"13464"	"CORO7"	79585	"mskcc.org"	"GRCh37"	"16"	4457139	4457139	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.487+363C>G"	""	""	"ENST00000251166"	""	70	"63"	7	24	"24"	0	"CORO7,intron_variant,,ENST00000251166,NM_024535.4;CORO7,intron_variant,,ENST00000539968,;CORO7,intron_variant,,ENST00000537233,NM_001201472.1;CORO7-PAM16,intron_variant,,ENST00000572467,NM_001201479.1;CORO7,intron_variant,,ENST00000574025,NM_001201473.1;CORO7,intron_variant,,ENST00000423908,;CORO7,intron_variant,,ENST00000575038,;CORO7,intron_variant,,ENST00000575850,;CORO7,intron_variant,,ENST00000572549,;CORO7,intron_variant,,ENST00000572898,;CORO7,intron_variant,,ENST00000571059,;CORO7,intron_variant,,ENST00000571052,;CORO7,intron_variant,,ENST00000572044,;CORO7,intron_variant,,ENST00000576051,;CORO7,intron_variant,,ENST00000570645,;CORO7,intron_variant,,ENST00000577144,;CORO7,intron_variant,,ENST00000576457,;CORO7,downstream_gene_variant,,ENST00000572026,;CORO7,downstream_gene_variant,,ENST00000572518,;CORO7-PAM16,intron_variant,,ENST00000575334,;CORO7,intron_variant,,ENST00000571227,;CORO7,intron_variant,,ENST00000575714,;CORO7,intron_variant,,ENST00000571756,;CORO7,intron_variant,,ENST00000574311,;CORO7,intron_variant,,ENST00000576437,;CORO7,intron_variant,,ENST00000572153,;CORO7,intron_variant,,ENST00000570928,;"	"C"	"ENSG00000262246"	"ENST00000251166"	"Transcript"	"intron_variant"	"-/3540"	"-/2778"	"-/925"	""	""	""	"1"	NA	-1	"CORO7"	"HGNC"	26161	"protein_coding"	"YES"	"CCDS10513.1"	"ENSP00000251166"	"P57737"	"I3L258,B3KSY4"	"UPI00001FF898"	"NM_024535.4"	""	""	""	"5/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"230fff5a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"13465"	"RP11-420N3.2"	0	"mskcc.org"	"GRCh37"	"16"	5642972	5642972	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.331-5931T>A"	""	""	"ENST00000585867"	""	71	"47"	24	43	"43"	0	"RP11-420N3.2,intron_variant,,ENST00000569895,;RP11-420N3.2,intron_variant,,ENST00000585867,;"	"A"	"ENSG00000260411"	"ENST00000585867"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1580"	""	""	""	""	""	"1"	NA	1	"RP11-420N3.2"	"Clone_based_vega_gene"	NA	"retained_intron"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"231069a4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.338028169014085	"WGS"	FALSE
"13466"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	6074029	6074029	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs538723792"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3+4127G>A"	""	""	"ENST00000547372"	""	76	"69"	7	53	"53"	0	"RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RP11-420N3.2,intron_variant,,ENST00000569895,;RBFOX1,intron_variant,,ENST00000548749,;"	"A"	"ENSG00000078328"	"ENST00000547372"	"Transcript"	"intron_variant"	"-/3524"	"-/1401"	"-/466"	""	""	"rs538723792"	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	""	""	"ENSP00000446842"	""	"Q8TCM0,Q59HD3,F8VZY7,F8VZG9"	"UPI00020CDFAB"	""	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"231085e2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"13467"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	7529171	7529171	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.88-38978G>A"	""	""	"ENST00000311745"	""	79	"48"	31	52	"52"	0	"RBFOX1,intron_variant,,ENST00000340209,;RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000355637,NM_145893.2;RBFOX1,intron_variant,,ENST00000311745,NM_145891.2,NM_145892.2;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RBFOX1,intron_variant,,ENST00000535565,;RBFOX1,intron_variant,,ENST00000436368,;RBFOX1,intron_variant,,ENST00000547338,NM_001142334.1;RBFOX1,intron_variant,,ENST00000552089,;RBFOX1,intron_variant,,ENST00000551752,;RBFOX1,intron_variant,,ENST00000569889,;"	"A"	"ENSG00000078328"	"ENST00000311745"	"Transcript"	"intron_variant"	"-/3268"	"-/1257"	"-/418"	""	""	""	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	"YES"	"CCDS10531.1"	"ENSP00000309117"	"Q9NWB1"	""	"UPI000006E29E"	"NM_145891.2,NM_145892.2"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"2310edd4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.392405063291139	"WGS"	FALSE
"13468"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	8481094	8481094	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"59"	34	41	"40"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"23111106-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.365591397849462	"WGS"	FALSE
"13469"	"GRIN2A"	2903	"mskcc.org"	"GRCh37"	"16"	10254742	10254742	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.414+19113G>A"	""	""	"ENST00000330684"	""	87	"56"	31	52	"52"	0	"GRIN2A,intron_variant,,ENST00000396573,NM_000833.3;GRIN2A,intron_variant,,ENST00000330684,NM_001134407.1;GRIN2A,intron_variant,,ENST00000404927,NM_001134408.1;GRIN2A,intron_variant,,ENST00000562109,;GRIN2A,intron_variant,,ENST00000396575,;"	"T"	"ENSG00000183454"	"ENST00000330684"	"Transcript"	"intron_variant"	"-/5031"	"-/4395"	"-/1464"	""	""	""	"1"	NA	-1	"GRIN2A"	"HGNC"	4585	"protein_coding"	""	"CCDS10539.1"	"ENSP00000332549"	"Q12879"	"Q547U9"	"UPI000000D7AB"	"NM_001134407.1"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"2311b6d8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35632183908046	"WGS"	TRUE
"13470"	"ATF7IP2"	80063	"mskcc.org"	"GRCh37"	"16"	10515805	10515805	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-159-6920A>C"	""	""	"ENST00000396560"	""	76	"49"	27	46	"46"	0	"ATF7IP2,intron_variant,,ENST00000396560,NM_024997.3;ATF7IP2,intron_variant,,ENST00000396559,NM_001256160.1;ATF7IP2,intron_variant,,ENST00000543967,;ATF7IP2,intron_variant,,ENST00000562527,;ATF7IP2,intron_variant,,ENST00000569939,;ATF7IP2,intron_variant,,ENST00000569900,;ATF7IP2,intron_variant,,ENST00000562102,;ATF7IP2,intron_variant,,ENST00000561932,;ATF7IP2,downstream_gene_variant,,ENST00000564797,;ATF7IP2,intron_variant,,ENST00000535850,;"	"C"	"ENSG00000166669"	"ENST00000396560"	"Transcript"	"intron_variant"	"-/3665"	"-/2049"	"-/682"	""	""	""	"1"	NA	1	"ATF7IP2"	"HGNC"	20397	"protein_coding"	"YES"	"CCDS10540.1"	"ENSP00000379808"	"Q5U623"	"H3BUP1,H3BR07,H3BPC9,H3BNE6,B4DKH3"	"UPI00001FEDD8"	"NM_024997.3"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"2311cc7c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355263157894737	"WGS"	FALSE
"13471"	"TVP23A"	780776	"mskcc.org"	"GRCh37"	"16"	10872084	10872084	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.90-3131T>C"	""	""	"ENST00000299866"	""	80	"72"	8	34	"34"	0	"TVP23A,intron_variant,,ENST00000299866,NM_001079512.2;TVP23A,upstream_gene_variant,,ENST00000572428,;TVP23A,upstream_gene_variant,,ENST00000572102,;TVP23A,intron_variant,,ENST00000572980,;TVP23A,intron_variant,,ENST00000573857,;TVP23A,intron_variant,,ENST00000570692,;TVP23A,intron_variant,,ENST00000573360,;TVP23A,intron_variant,,ENST00000575135,;TVP23A,intron_variant,,ENST00000456096,;"	"G"	"ENSG00000166676"	"ENST00000299866"	"Transcript"	"intron_variant"	"-/3360"	"-/642"	"-/213"	""	""	""	"1"	NA	-1	"TVP23A"	"HGNC"	20398	"protein_coding"	"YES"	"CCDS45408.1"	"ENSP00000299866"	"A6NH52"	"I3L3Y3"	"UPI00001D784C"	"NM_001079512.2"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"2311e5d6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"13472"	"MPV17L"	255027	"mskcc.org"	"GRCh37"	"16"	15506012	15506012	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000396385"	""	81	"74"	7	56	"56"	0	"MPV17L,3_prime_UTR_variant,,ENST00000287594,NM_173803.3;RP11-1021N1.1,intron_variant,,ENST00000568766,;MPV17L,downstream_gene_variant,,ENST00000396385,NM_001128423.1;RP11-1021N1.1,intron_variant,,ENST00000568222,;RP11-1021N1.1,intron_variant,,ENST00000567442,;MPV17L,downstream_gene_variant,,ENST00000564148,;"	"G"	"ENSG00000156968"	"ENST00000396385"	"Transcript"	"downstream_gene_variant"	"-/1037"	"-/591"	"-/196"	""	""	""	"1"	"3716"	1	"MPV17L"	"HGNC"	26827	"protein_coding"	"YES"	"CCDS45421.1"	"ENSP00000379669"	"Q2QL34"	""	"UPI000067CA92"	"NM_001128423.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"23137234-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"13473"	"XYLT1"	64131	"mskcc.org"	"GRCh37"	"16"	17439802	17439802	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.402+12067C>A"	""	""	"ENST00000261381"	""	84	"50"	34	46	"46"	0	"XYLT1,intron_variant,,ENST00000261381,NM_022166.3;"	"T"	"ENSG00000103489"	"ENST00000261381"	"Transcript"	"intron_variant"	"-/9891"	"-/2880"	"-/959"	""	""	""	"1"	NA	-1	"XYLT1"	"HGNC"	15516	"protein_coding"	"YES"	"CCDS10569.1"	"ENSP00000261381"	"Q86Y38"	""	"UPI000000DCCE"	"NM_022166.3"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"2314463c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.404761904761905	"WGS"	FALSE
"13474"	"CTA-363E6.2"	0	"mskcc.org"	"GRCh37"	"16"	19389145	19389145	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.694-9946T>C"	""	""	"ENST00000563613"	""	75	"69"	6	33	"33"	0	"CTA-363E6.2,intron_variant,,ENST00000563613,;"	"G"	"ENSG00000259925"	"ENST00000563613"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1937"	""	""	""	""	""	"1"	NA	-1	"CTA-363E6.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"2314d96c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"13475"	"CTA-363E6.2"	0	"mskcc.org"	"GRCh37"	"16"	19389156	19389156	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.694-9957A>G"	""	""	"ENST00000563613"	""	77	"71"	6	30	"30"	0	"CTA-363E6.2,intron_variant,,ENST00000563613,;"	"C"	"ENSG00000259925"	"ENST00000563613"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1937"	""	""	""	""	""	"1"	NA	-1	"CTA-363E6.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"2314da16-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"13476"	"CTA-363E6.2"	0	"mskcc.org"	"GRCh37"	"16"	19389169	19389169	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.694-9970A>G"	""	""	"ENST00000563613"	""	77	"71"	6	27	"27"	0	"CTA-363E6.2,intron_variant,,ENST00000563613,;"	"C"	"ENSG00000259925"	"ENST00000563613"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1937"	""	""	""	""	""	"1"	NA	-1	"CTA-363E6.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"2314daca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"13477"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	20233403	20233403	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"55"	40	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"23151670-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.421052631578947	"WGS"	FALSE
"13478"	"CACNG3"	10368	"mskcc.org"	"GRCh37"	"16"	24265391	24265391	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000005284"	""	80	"44"	36	47	"47"	0	"CACNG3,upstream_gene_variant,,ENST00000005284,NM_006539.3;AC004125.3,downstream_gene_variant,,ENST00000567127,;"	"T"	"ENSG00000006116"	"ENST00000005284"	"Transcript"	"upstream_gene_variant"	"-/3088"	"-/948"	"-/315"	""	""	""	"1"	"1483"	1	"CACNG3"	"HGNC"	1407	"protein_coding"	"YES"	"CCDS10620.1"	"ENSP00000005284"	"O60359"	""	"UPI000000D979"	"NM_006539.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"23164504-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.45	"WGS"	FALSE
"13479"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	24691558	24691558	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"72"	8	29	"29"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"23166070-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"13480"	"ARHGAP17"	55114	"mskcc.org"	"GRCh37"	"16"	24971327	24971327	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"rs369448531"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.574-27A>G"	""	""	"ENST00000289968"	""	98	"69"	29	38	"38"	0	"ARHGAP17,intron_variant,,ENST00000289968,NM_001006634.1;ARHGAP17,intron_variant,,ENST00000441763,;ARHGAP17,intron_variant,,ENST00000303665,NM_018054.4;ARHGAP17,intron_variant,,ENST00000455311,;ARHGAP17,intron_variant,,ENST00000575975,;ARHGAP17,upstream_gene_variant,,ENST00000572314,;ARHGAP17,upstream_gene_variant,,ENST00000575656,;ARHGAP17,downstream_gene_variant,,ENST00000571480,;ARHGAP17,downstream_gene_variant,,ENST00000573625,;ARHGAP17,downstream_gene_variant,,ENST00000571575,;"	"C"	"ENSG00000140750"	"ENST00000289968"	"Transcript"	"intron_variant"	"-/3461"	"-/2646"	"-/881"	""	""	"rs369448531"	"1"	NA	-1	"ARHGAP17"	"HGNC"	18239	"protein_coding"	"YES"	"CCDS32409.1"	"ENSP00000289968"	"Q68EM7"	"I3L4P6"	"UPI00000433FD"	"NM_001006634.1"	""	""	""	"7/19"	""	""	""	""	NA	""	""	""	"C:0.0007"	"C:0.0001"	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	"9.415e-05"	"0.0005573"	"0"	"0"	"0.0001512"	"7.363e-05"	"0"	"0"	NA	"PASS"	"ATT"	"2316850a-0964-11e6-882a-cdd9646fc502"	"."	9.428e-05	"10/106062"	"10/106210"	"5/8972"	"0/11202"	"0/7860"	"1/6612"	"4/54322"	"0/694"	"0/16400"	"PASS"	"FALSE"	0.295918367346939	"WGS"	FALSE
"13481"	"HS3ST4"	9951	"mskcc.org"	"GRCh37"	"16"	26009944	26009944	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.735-136989A>C"	""	""	"ENST00000331351"	""	83	"60"	23	53	"53"	0	"HS3ST4,intron_variant,,ENST00000331351,NM_006040.2;HS3ST4,intron_variant,,ENST00000475436,;"	"C"	"ENSG00000182601"	"ENST00000331351"	"Transcript"	"intron_variant"	"-/3203"	"-/1371"	"-/456"	""	""	""	"1"	NA	1	"HS3ST4"	"HGNC"	5200	"protein_coding"	"YES"	"CCDS53995.1"	"ENSP00000330606"	"Q9Y661"	"A5H458"	"UPI000040938A"	"NM_006040.2"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"2316baa2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27710843373494	"WGS"	FALSE
"13482"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	27028299	27028299	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"60"	26	33	"33"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"2316e798-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302325581395349	"WGS"	FALSE
"13483"	"KIAA0556"	23247	"mskcc.org"	"GRCh37"	"16"	27728289	27728289	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1606-4590C>T"	""	""	"ENST00000261588"	""	85	"54"	31	38	"38"	0	"KIAA0556,intron_variant,,ENST00000261588,NM_015202.2;CTD-2049O4.1,intron_variant,,ENST00000563052,;CTD-2049O4.1,intron_variant,,ENST00000568831,;CTD-2049O4.1,intron_variant,,ENST00000564893,;KIAA0556,intron_variant,,ENST00000567894,;KIAA0556,intron_variant,,ENST00000573850,;"	"T"	"ENSG00000047578"	"ENST00000261588"	"Transcript"	"intron_variant"	"-/6616"	"-/4857"	"-/1618"	""	""	""	"1"	NA	1	"KIAA0556"	"HGNC"	29068	"protein_coding"	"YES"	"CCDS32415.1"	"ENSP00000261588"	"O60303"	"B4DHT8"	"UPI000045693C"	"NM_015202.2"	""	""	""	"13/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"231726b8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364705882352941	"WGS"	FALSE
"13484"	"GSG1L"	146395	"mskcc.org"	"GRCh37"	"16"	27858701	27858701	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.551-2319G>A"	""	""	"ENST00000447459"	""	76	"45"	31	57	"57"	0	"GSG1L,intron_variant,,ENST00000380898,;GSG1L,intron_variant,,ENST00000447459,NM_001109763.1;GSG1L,intron_variant,,ENST00000395724,;GSG1L,intron_variant,,ENST00000380897,NM_144675.2;GSG1L,intron_variant,,ENST00000569166,;GSG1L,intron_variant,,ENST00000562611,;"	"T"	"ENSG00000169181"	"ENST00000447459"	"Transcript"	"intron_variant"	"-/4916"	"-/996"	"-/331"	""	""	""	"1"	NA	-1	"GSG1L"	"HGNC"	28283	"protein_coding"	"YES"	"CCDS45450.1"	"ENSP00000394954"	"Q6UXU4"	""	"UPI0000EE765B"	"NM_001109763.1"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"23172d0c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.407894736842105	"WGS"	FALSE
"13485"	"XPO6"	23214	"mskcc.org"	"GRCh37"	"16"	28149156	28149156	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1335-2511T>C"	""	""	"ENST00000304658"	""	91	"53"	38	44	"44"	0	"XPO6,intron_variant,,ENST00000304658,NM_015171.3;XPO6,intron_variant,,ENST00000565698,NM_001270940.1;XPO6,intron_variant,,ENST00000564337,;XPO6,intron_variant,,ENST00000565284,;XPO6,intron_variant,,ENST00000567842,;XPO6,intron_variant,,ENST00000563138,;XPO6,upstream_gene_variant,,ENST00000564905,;"	"G"	"ENSG00000169180"	"ENST00000304658"	"Transcript"	"intron_variant"	"-/4422"	"-/3378"	"-/1125"	""	""	""	"1"	NA	-1	"XPO6"	"HGNC"	19733	"protein_coding"	"YES"	"CCDS42135.1"	"ENSP00000302790"	"Q96QU8"	"H3BUP8,H3BR41,D3DWF9"	"UPI000006F228"	"NM_015171.3"	""	""	""	"9/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"231742b0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.417582417582418	"WGS"	FALSE
"13486"	"CCDC101"	112869	"mskcc.org"	"GRCh37"	"16"	28587212	28587212	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-15-5164T>G"	""	""	"ENST00000317058"	""	95	"88"	7	34	"34"	0	"CCDC101,intron_variant,,ENST00000317058,NM_138414.2;CCDC101,intron_variant,,ENST00000567564,;CCDC101,intron_variant,,ENST00000564682,;CCDC101,intron_variant,,ENST00000569581,;"	"G"	"ENSG00000176476"	"ENST00000317058"	"Transcript"	"intron_variant"	"-/1153"	"-/882"	"-/293"	""	""	""	"1"	NA	1	"CCDC101"	"HGNC"	25156	"protein_coding"	"YES"	"CCDS10635.1"	"ENSP00000316114"	"Q96ES7"	""	"UPI00000737DC"	"NM_138414.2"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"231778f2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"13487"	"KIF22"	3835	"mskcc.org"	"GRCh37"	"16"	29808952	29808952	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.266+543A>G"	""	""	"ENST00000160827"	""	108	"68"	40	51	"51"	0	"KIF22,intron_variant,,ENST00000561482,NM_001256270.1;KIF22,intron_variant,,ENST00000400751,;KIF22,intron_variant,,ENST00000160827,NM_001256269.1,NM_007317.2;KIF22,intron_variant,,ENST00000569382,;KIF22,intron_variant,,ENST00000400750,;KIF22,intron_variant,,ENST00000569636,;KIF22,upstream_gene_variant,,ENST00000563263,;KIF22,intron_variant,,ENST00000563666,;KIF22,intron_variant,,ENST00000570173,;"	"G"	"ENSG00000079616"	"ENST00000160827"	"Transcript"	"intron_variant"	"-/2113"	"-/1998"	"-/665"	""	""	""	"1"	NA	1	"KIF22"	"HGNC"	6391	"protein_coding"	"YES"	"CCDS10653.1"	"ENSP00000160827"	"Q14807"	"Q14985,H3BTH5,H3BQB9"	"UPI00000012C0"	"NM_001256269.1,NM_007317.2"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"23180196-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.37037037037037	"WGS"	FALSE
"13488"	"MVP"	9961	"mskcc.org"	"GRCh37"	"16"	29839770	29839770	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-35-2066T>G"	""	""	"ENST00000357402"	""	100	"93"	7	43	"43"	0	"MVP,intron_variant,,ENST00000357402,NM_017458.3,NM_005115.4;MVP,intron_variant,,ENST00000395353,;MVP,intron_variant,,ENST00000452209,;MVP,intron_variant,,ENST00000563915,;MVP,intron_variant,,ENST00000570234,;MVP,intron_variant,,ENST00000563558,;MVP,intron_variant,,ENST00000566066,;MVP,intron_variant,,ENST00000565164,;MVP,upstream_gene_variant,,ENST00000566252,;MVP,intron_variant,,ENST00000565830,;MVP,upstream_gene_variant,,ENST00000566554,;MVP,intron_variant,,ENST00000566859,;PAGR1,intron_variant,,ENST00000562285,;MVP,intron_variant,,ENST00000569887,;MVP,intron_variant,,ENST00000563096,;MVP,intron_variant,,ENST00000562463,;MVP,upstream_gene_variant,,ENST00000569612,;"	"G"	"ENSG00000013364"	"ENST00000357402"	"Transcript"	"intron_variant"	"-/2865"	"-/2682"	"-/893"	""	""	""	"1"	NA	1	"MVP"	"HGNC"	7531	"protein_coding"	"YES"	"CCDS10656.1"	"ENSP00000349977"	"Q14764"	"H3BUK7,H3BRL2,H3BQK6,H3BP76,H3BNF2"	"UPI000012FA9C"	"NM_017458.3,NM_005115.4"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"23180682-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.07	"WGS"	FALSE
"13489"	"DOC2A"	8448	"mskcc.org"	"GRCh37"	"16"	30027415	30027415	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-375-2498G>C"	""	""	"ENST00000574405"	""	61	"56"	5	26	"26"	0	"DOC2A,intron_variant,,ENST00000574405,;DOC2A,upstream_gene_variant,,ENST00000564944,;DOC2A,upstream_gene_variant,,ENST00000564979,;DOC2A,upstream_gene_variant,,ENST00000563378,;DOC2A,intron_variant,,ENST00000567824,;DOC2A,intron_variant,,ENST00000570194,;DOC2A,intron_variant,,ENST00000564075,;DOC2A,downstream_gene_variant,,ENST00000572637,;DOC2A,upstream_gene_variant,,ENST00000564233,;"	"G"	"ENSG00000149927"	"ENST00000574405"	"Transcript"	"intron_variant"	"-/527"	"-/39"	"-/13"	""	""	""	"1"	NA	-1	"DOC2A"	"HGNC"	2985	"protein_coding"	""	""	"ENSP00000460622"	""	""	"UPI00025A2F52"	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"23181bea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0819672131147541	"WGS"	FALSE
"13490"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	30152234	30152234	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"84"	6	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"231831f2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"13491"	"ITGAL"	3683	"mskcc.org"	"GRCh37"	"16"	30511243	30511243	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2145+433T>A"	""	""	"ENST00000356798"	""	65	"41"	24	32	"32"	0	"ITGAL,intron_variant,,ENST00000356798,NM_002209.2;ITGAL,intron_variant,,ENST00000358164,NM_001114380.1;ITGAL,intron_variant,,ENST00000433423,;MIR4518,upstream_gene_variant,,ENST00000580665,;RP11-297C4.1,upstream_gene_variant,,ENST00000563751,;ITGAL,downstream_gene_variant,,ENST00000568012,;ITGAL,intron_variant,,ENST00000563615,;ITGAL,intron_variant,,ENST00000568926,;ITGAL,intron_variant,,ENST00000568987,;ITGAL,upstream_gene_variant,,ENST00000562020,;"	"A"	"ENSG00000005844"	"ENST00000356798"	"Transcript"	"intron_variant"	"-/5213"	"-/3513"	"-/1170"	""	""	""	"1"	NA	1	"ITGAL"	"HGNC"	6148	"protein_coding"	"YES"	"CCDS32433.1"	"ENSP00000349252"	"P20701"	"I3L468,H3BNL5"	"UPI000013C4FF"	"NM_002209.2"	""	""	""	"17/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"2318606e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.369230769230769	"WGS"	FALSE
"13492"	"ZNF689"	115509	"mskcc.org"	"GRCh37"	"16"	30615972	30615972	"+"	"Silent"	"SNP"	"G"	"G"	"A"	"rs115586197"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1116C>T"	"p.="	"p.P372P"	"ENST00000287461"	"3/3"	84	"77"	7	35	"35"	0	"ZNF689,synonymous_variant,p.=,ENST00000287461,NM_138447.2;RP11-146F11.5,intron_variant,,ENST00000563540,;ZNF689,non_coding_transcript_exon_variant,,ENST00000566673,;ZNF689,non_coding_transcript_exon_variant,,ENST00000563304,;ZNF689,non_coding_transcript_exon_variant,,ENST00000565440,;ZNF689,downstream_gene_variant,,ENST00000564262,;ZNF689,downstream_gene_variant,,ENST00000565710,;"	"A"	"ENSG00000156853"	"ENST00000287461"	"Transcript"	"synonymous_variant"	"1454/3547"	"1116/1503"	"372/500"	"P"	"ccC/ccT"	"rs115586197"	"1"	NA	-1	"ZNF689"	"HGNC"	25173	"protein_coding"	"YES"	"CCDS10686.1"	"ENSP00000287461"	"Q96CS4"	""	"UPI000006CDAD"	"NM_138447.2"	""	""	"3/3"	""	"PROSITE_profiles:PS50157,hmmpanther:PTHR24375,hmmpanther:PTHR24375:SF23,Gene3D:3.30.160.60,Pfam_domain:PF13465,Superfamily_domains:SSF57667"	"C:0.0002"	"C:0"	"C:0"	NA	"C:0"	"C:0.001"	"C:0"	""	""	NA	NA	NA	""	NA	""	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	"9.417e-06"	"0"	"0"	"0"	"0"	"2.323e-05"	"0"	"0"	NA	"PASS"	"AGG"	"23186dd4-0964-11e6-882a-cdd9646fc502"	"."	1.216e-05	"1/82244"	"1/106186"	"0/6652"	"0/7862"	"0/6254"	"0/3850"	"1/43050"	"0/496"	"0/14080"	"PASS"	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13493"	"RP11-146F11.3"	0	"mskcc.org"	"GRCh37"	"16"	30636691	30636691	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000568120"	""	73	"67"	6	44	"44"	0	"ZNF689,upstream_gene_variant,,ENST00000566673,;ZNF689,upstream_gene_variant,,ENST00000565440,;RP11-146F11.3,upstream_gene_variant,,ENST00000568120,;RP11-146F11.2,upstream_gene_variant,,ENST00000567049,;"	"A"	"ENSG00000261680"	"ENST00000568120"	"Transcript"	"upstream_gene_variant"	"-/430"	""	""	""	""	""	"1"	"656"	-1	"RP11-146F11.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"23187496-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"13494"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	31066484	31066484	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"74"	5	33	"33"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"2318bf28-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0632911392405063	"WGS"	FALSE
"13495"	"KAT8"	84148	"mskcc.org"	"GRCh37"	"16"	31128163	31128163	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000448516"	""	51	"47"	4	24	"24"	0	"KAT8,intron_variant,,ENST00000543774,;BCKDK,downstream_gene_variant,,ENST00000394951,;BCKDK,downstream_gene_variant,,ENST00000219794,NM_005881.3,NM_001122957.2;BCKDK,downstream_gene_variant,,ENST00000394950,;BCKDK,downstream_gene_variant,,ENST00000287507,NM_001271926.1;KAT8,upstream_gene_variant,,ENST00000448516,NM_182958.2;KAT8,upstream_gene_variant,,ENST00000219797,NM_032188.2;BCKDK,downstream_gene_variant,,ENST00000567682,;RP11-196G11.4,upstream_gene_variant,,ENST00000576336,;BCKDK,downstream_gene_variant,,ENST00000566568,;BCKDK,downstream_gene_variant,,ENST00000567530,;KAT8,upstream_gene_variant,,ENST00000539683,;"	"T"	"ENSG00000103510"	"ENST00000448516"	"Transcript"	"upstream_gene_variant"	"-/1789"	"-/1404"	"-/467"	""	""	""	"1"	"822"	1	"KAT8"	"HGNC"	17933	"protein_coding"	"YES"	"CCDS45468.1"	"ENSP00000406037"	"Q9H7Z6"	""	"UPI00001B02B6"	"NM_182958.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"2318d29c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0784313725490196	"WGS"	FALSE
"13496"	"KAT8"	84148	"mskcc.org"	"GRCh37"	"16"	31128175	31128175	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000448516"	""	50	"45"	5	22	"22"	0	"KAT8,intron_variant,,ENST00000543774,;BCKDK,downstream_gene_variant,,ENST00000394951,;BCKDK,downstream_gene_variant,,ENST00000219794,NM_005881.3,NM_001122957.2;BCKDK,downstream_gene_variant,,ENST00000394950,;BCKDK,downstream_gene_variant,,ENST00000287507,NM_001271926.1;KAT8,upstream_gene_variant,,ENST00000448516,NM_182958.2;KAT8,upstream_gene_variant,,ENST00000219797,NM_032188.2;BCKDK,downstream_gene_variant,,ENST00000567682,;RP11-196G11.4,upstream_gene_variant,,ENST00000576336,;BCKDK,downstream_gene_variant,,ENST00000566568,;BCKDK,downstream_gene_variant,,ENST00000567530,;KAT8,upstream_gene_variant,,ENST00000539683,;"	"T"	"ENSG00000103510"	"ENST00000448516"	"Transcript"	"upstream_gene_variant"	"-/1789"	"-/1404"	"-/467"	""	""	""	"1"	"810"	1	"KAT8"	"HGNC"	17933	"protein_coding"	"YES"	"CCDS45468.1"	"ENSP00000406037"	"Q9H7Z6"	""	"UPI00001B02B6"	"NM_182958.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"2318d346-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"13497"	"RP11-1166P10.7"	0	"mskcc.org"	"GRCh37"	"16"	32127370	32127370	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000566120"	""	15	"12"	3	9	"9"	0	"HERC2P4,intron_variant,,ENST00000564145,;RP11-1166P10.7,upstream_gene_variant,,ENST00000566120,;"	"G"	"ENSG00000260584"	"ENST00000566120"	"Transcript"	"upstream_gene_variant"	"-/298"	""	""	""	""	""	"1"	"651"	1	"RP11-1166P10.7"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"231965b8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"13498"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	33868773	33868773	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"15"	3	12	"12"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"231ced96-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"13499"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	34858104	34858104	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	64	"59"	5	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"231db7f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.078125	"WGS"	FALSE
"13500"	"5S_rRNA"	400533	"mskcc.org"	"GRCh37"	"16"	34986059	34986059	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.352+2851G>T"	""	""	"ENST00000566900"	""	74	"68"	6	40	"40"	0	"5S_rRNA,intron_variant,,ENST00000566900,;5S_rRNA,intron_variant,,ENST00000565625,;5S_rRNA,intron_variant,,ENST00000562769,;RNA5SP420,upstream_gene_variant,,ENST00000516997,;5S_rRNA,downstream_gene_variant,,ENST00000516580,;RNA5SP419,upstream_gene_variant,,ENST00000515908,;RNA5SP421,upstream_gene_variant,,ENST00000516864,;5S_rRNA,downstream_gene_variant,,ENST00000516234,;RNA5SP418,upstream_gene_variant,,ENST00000515951,;RNA5SP415,downstream_gene_variant,,ENST00000517246,;RNA5SP422,upstream_gene_variant,,ENST00000516778,;RNA5SP416,downstream_gene_variant,,ENST00000516838,;RNA5SP413,downstream_gene_variant,,ENST00000516373,;RNA5SP423,upstream_gene_variant,,ENST00000517127,;RNA5SP417,upstream_gene_variant,,ENST00000516459,;"	"T"	"ENSG00000261122"	"ENST00000566900"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1489"	""	""	""	""	""	"1"	NA	1	"5S_rRNA"	"RFAM"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"231dc5f4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"13501"	"RP11-42I10.1"	0	"mskcc.org"	"GRCh37"	"16"	48758392	48758392	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.169-16802C>T"	""	""	"ENST00000568150"	""	72	"48"	24	49	"49"	0	"RP11-42I10.1,intron_variant,,ENST00000568150,;"	"T"	"ENSG00000260086"	"ENST00000568150"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/547"	""	""	""	""	""	"1"	NA	1	"RP11-42I10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"231f135a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"13502"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	48788237	48788237	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"66"	23	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"231f1760-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258426966292135	"WGS"	FALSE
"13503"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	50019062	50019062	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"63"	7	30	"30"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"231f5720-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"13504"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	50019066	50019066	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"62"	8	30	"30"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"231f57d4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"13505"	"NOD2"	64127	"mskcc.org"	"GRCh37"	"16"	50732341	50732341	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.74-1058C>A"	""	""	"ENST00000300589"	""	87	"56"	31	57	"57"	0	"NOD2,intron_variant,,ENST00000300589,NM_022162.1;NOD2,intron_variant,,ENST00000531674,;NOD2,intron_variant,,ENST00000526417,;NOD2,intron_variant,,ENST00000532206,;NOD2,intron_variant,,ENST00000527070,;"	"A"	"ENSG00000167207"	"ENST00000300589"	"Transcript"	"intron_variant"	"-/4486"	"-/3123"	"-/1040"	""	""	""	"1"	NA	1	"NOD2"	"HGNC"	5331	"protein_coding"	"YES"	"CCDS10746.1"	"ENSP00000300589"	"Q9HC29"	"Q7Z597,Q7Z596,Q6TDC3,E9PK30,D9N2T7,D6CHF9,B5B2Z6,B5B2Z5,B5B2Z4,B5A7D5,A7KZR0,A7KZQ9,A7J384,A3FA72"	"UPI000005027A"	"NM_022162.1"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"231f8f2e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35632183908046	"WGS"	FALSE
"13506"	"CYLD"	1540	"mskcc.org"	"GRCh37"	"16"	50836838	50836838	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000427738"	""	113	"102"	11	60	"60"	0	"CYLD,downstream_gene_variant,,ENST00000540145,;CYLD,downstream_gene_variant,,ENST00000427738,;CYLD,downstream_gene_variant,,ENST00000311559,NM_015247.2;CYLD,downstream_gene_variant,,ENST00000566024,;RP11-327F22.5,upstream_gene_variant,,ENST00000565327,;RP11-327F22.4,intron_variant,,ENST00000564510,;RP11-327F22.4,upstream_gene_variant,,ENST00000575917,;CYLD,downstream_gene_variant,,ENST00000568744,;"	"A"	"ENSG00000083799"	"ENST00000427738"	"Transcript"	"downstream_gene_variant"	"-/8503"	"-/2871"	"-/956"	""	""	""	"1"	"992"	1	"CYLD"	"HGNC"	2584	"protein_coding"	"YES"	"CCDS45482.1"	"ENSP00000392025"	"Q9NQC7"	"H3BTB8,H3BSW9,H3BPZ5"	"UPI0000073A15"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"231f929e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0973451327433628	"WGS"	TRUE
"13507"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	51699913	51699913	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"69"	37	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"231fb40e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349056603773585	"WGS"	FALSE
"13508"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	54798565	54798565	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"64"	9	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"23204040-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123287671232877	"WGS"	FALSE
"13509"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	54996790	54996790	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"58"	23	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"232045fe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283950617283951	"WGS"	FALSE
"13510"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	56023149	56023149	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	52	"47"	5	36	"36"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"23207fba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0961538461538462	"WGS"	FALSE
"13511"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	57339903	57339903	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"68"	24	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"2320de74-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"13512"	"ENSR00001505697"	0	"mskcc.org"	"GRCh37"	"16"	62290605	62290605	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001505697"	""	93	"84"	9	55	"55"	0	""	"T"	""	"ENSR00001505697"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"2321e1de-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"13513"	"RP11-467L24.1"	0	"mskcc.org"	"GRCh37"	"16"	64604302	64604302	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs569392925"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.440-29740C>T"	""	""	"ENST00000564046"	""	97	"72"	25	43	"43"	0	"RP11-467L24.1,intron_variant,,ENST00000564046,;"	"T"	"ENSG00000259846"	"ENST00000564046"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/548"	""	""	""	""	"rs569392925"	"1"	NA	1	"RP11-467L24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"23223be8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257731958762887	"WGS"	FALSE
"13514"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	64731415	64731415	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"71"	27	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"232240ca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275510204081633	"WGS"	FALSE
"13515"	"LINC00922"	283867	"mskcc.org"	"GRCh37"	"16"	65558087	65558087	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.217+47587G>A"	""	""	"ENST00000569736"	""	81	"43"	38	53	"53"	0	"LINC00922,intron_variant,,ENST00000569736,;LINC00922,intron_variant,,ENST00000564041,;LINC00922,intron_variant,,ENST00000568492,;"	"T"	"ENSG00000261742"	"ENST00000569736"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1760"	""	""	""	""	""	"1"	NA	-1	"LINC00922"	"HGNC"	27545	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"23226a78-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.469135802469136	"WGS"	FALSE
"13516"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	66190153	66190153	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"50"	23	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"23228a44-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315068493150685	"WGS"	FALSE
"13517"	"ENSR00001505924"	0	"mskcc.org"	"GRCh37"	"16"	66223284	66223284	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001505924"	""	83	"57"	26	48	"48"	0	""	"C"	""	"ENSR00001505924"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"23228af8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313253012048193	"WGS"	FALSE
"13518"	"BEAN1"	146227	"mskcc.org"	"GRCh37"	"16"	66468102	66468102	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-82-3396G>T"	""	""	"ENST00000536005"	""	75	"58"	17	47	"47"	0	"BEAN1,intron_variant,,ENST00000299694,NM_001136106.4;BEAN1,intron_variant,,ENST00000536005,NM_001178020.2;BEAN1,intron_variant,,ENST00000561796,NM_001197224.2,NM_001197225.2;BEAN1,intron_variant,,ENST00000562849,;BEAN1,intron_variant,,ENST00000569272,;"	"T"	"ENSG00000166546"	"ENST00000536005"	"Transcript"	"intron_variant"	"-/1988"	"-/780"	"-/259"	""	""	""	"1"	NA	1	"BEAN1"	"HGNC"	24160	"protein_coding"	"YES"	"CCDS54015.1"	"ENSP00000442793"	"Q3B7T3"	""	"UPI000164284B"	"NM_001178020.2"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"232298ea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226666666666667	"WGS"	FALSE
"13519"	"DYNC1LI2"	1783	"mskcc.org"	"GRCh37"	"16"	66778474	66778474	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.299-1903T>C"	""	""	"ENST00000258198"	""	83	"76"	7	46	"46"	0	"DYNC1LI2,intron_variant,,ENST00000258198,NM_006141.2;DYNC1LI2,intron_variant,,ENST00000443351,NM_001286157.1;DYNC1LI2,intron_variant,,ENST00000440564,;DYNC1LI2,intron_variant,,ENST00000379482,;DYNC1LI2,intron_variant,,ENST00000566150,;DYNC1LI2,intron_variant,,ENST00000568180,;DYNC1LI2,intron_variant,,ENST00000564090,;"	"G"	"ENSG00000135720"	"ENST00000258198"	"Transcript"	"intron_variant"	"-/4515"	"-/1479"	"-/492"	""	""	""	"1"	NA	-1	"DYNC1LI2"	"HGNC"	2966	"protein_coding"	"YES"	"CCDS10818.1"	"ENSP00000258198"	"O43237"	""	"UPI0000129A0D"	"NM_006141.2"	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"2322b5b4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"13520"	"NAE1"	8883	"mskcc.org"	"GRCh37"	"16"	66868264	66868264	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000290810"	""	64	"57"	7	29	"29"	0	"NAE1,intron_variant,,ENST00000561579,;NAE1,upstream_gene_variant,,ENST00000379463,NM_001018159.1;NAE1,upstream_gene_variant,,ENST00000290810,;NAE1,upstream_gene_variant,,ENST00000359087,NM_003905.3,NM_001286500.1;NAE1,upstream_gene_variant,,ENST00000394074,NM_001018160.1;NAE1,upstream_gene_variant,,ENST00000566336,;NAE1,upstream_gene_variant,,ENST00000565535,;NAE1,upstream_gene_variant,,ENST00000563185,;NAE1,upstream_gene_variant,,ENST00000564040,;NAE1,upstream_gene_variant,,ENST00000567743,;NAE1,upstream_gene_variant,,ENST00000569963,;NAE1,upstream_gene_variant,,ENST00000563419,;NAE1,upstream_gene_variant,,ENST00000562757,;NAE1,upstream_gene_variant,,ENST00000569348,;NAE1,upstream_gene_variant,,ENST00000563253,;NAE1,upstream_gene_variant,,ENST00000569388,;"	"A"	"ENSG00000159593"	"ENST00000290810"	"Transcript"	"upstream_gene_variant"	"-/1837"	"-/1605"	"-/534"	""	""	""	"1"	"3364"	-1	"NAE1"	"HGNC"	621	"protein_coding"	"YES"	"CCDS10820.1"	"ENSP00000290810"	"Q13564"	"J3QRA5,A8MU28"	"UPI000006EBDC"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"2322c734-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109375	"WGS"	FALSE
"13521"	"SLC9A5"	6553	"mskcc.org"	"GRCh37"	"16"	67301082	67301082	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs571179706"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2218+954C>T"	""	""	"ENST00000299798"	""	62	"38"	24	31	"31"	0	"SLC9A5,intron_variant,,ENST00000299798,NM_004594.2;SLC9A5,intron_variant,,ENST00000566626,;SLC9A5,downstream_gene_variant,,ENST00000567247,;SLC9A5,intron_variant,,ENST00000564704,;SLC9A5,intron_variant,,ENST00000563723,;SLC9A5,intron_variant,,ENST00000564812,;CTC-277H1.7,downstream_gene_variant,,ENST00000573063,;SLC9A5,downstream_gene_variant,,ENST00000566638,;"	"T"	"ENSG00000135740"	"ENST00000299798"	"Transcript"	"intron_variant"	"-/3736"	"-/2691"	"-/896"	""	""	"rs571179706"	"1"	NA	1	"SLC9A5"	"HGNC"	11078	"protein_coding"	"YES"	"CCDS42178.1"	"ENSP00000299798"	"Q14940"	""	"UPI000012FD2D"	"NM_004594.2"	""	""	""	"15/15"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"2322f6dc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.387096774193548	"WGS"	FALSE
"13522"	"CTCF"	10664	"mskcc.org"	"GRCh37"	"16"	67641140	67641140	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-9-3587C>G"	""	""	"ENST00000264010"	""	93	"86"	7	51	"51"	0	"CTCF,intron_variant,,ENST00000264010,NM_006565.3;CTCF,intron_variant,,ENST00000401394,NM_001191022.1;CTCF,intron_variant,,ENST00000566078,;"	"G"	"ENSG00000102974"	"ENST00000264010"	"Transcript"	"intron_variant"	"-/3939"	"-/2184"	"-/727"	""	""	""	"1"	NA	1	"CTCF"	"HGNC"	13723	"protein_coding"	"YES"	"CCDS10841.1"	"ENSP00000264010"	"P49711"	""	"UPI0000000DDE"	"NM_006565.3"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"23230ea6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	TRUE
"13523"	"CTCF"	10664	"mskcc.org"	"GRCh37"	"16"	67641232	67641232	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-9-3495C>A"	""	""	"ENST00000264010"	""	99	"93"	6	47	"47"	0	"CTCF,intron_variant,,ENST00000264010,NM_006565.3;CTCF,intron_variant,,ENST00000401394,NM_001191022.1;CTCF,intron_variant,,ENST00000566078,;"	"A"	"ENSG00000102974"	"ENST00000264010"	"Transcript"	"intron_variant"	"-/3939"	"-/2184"	"-/727"	""	""	""	"1"	NA	1	"CTCF"	"HGNC"	13723	"protein_coding"	"YES"	"CCDS10841.1"	"ENSP00000264010"	"P49711"	""	"UPI0000000DDE"	"NM_006565.3"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"23230f64-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	TRUE
"13524"	"CTCF"	10664	"mskcc.org"	"GRCh37"	"16"	67641236	67641236	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-9-3491T>G"	""	""	"ENST00000264010"	""	103	"96"	7	46	"46"	0	"CTCF,intron_variant,,ENST00000264010,NM_006565.3;CTCF,intron_variant,,ENST00000401394,NM_001191022.1;CTCF,intron_variant,,ENST00000566078,;"	"G"	"ENSG00000102974"	"ENST00000264010"	"Transcript"	"intron_variant"	"-/3939"	"-/2184"	"-/727"	""	""	""	"1"	NA	1	"CTCF"	"HGNC"	13723	"protein_coding"	"YES"	"CCDS10841.1"	"ENSP00000264010"	"P49711"	""	"UPI0000000DDE"	"NM_006565.3"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTC"	"23231018-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0679611650485437	"WGS"	TRUE
"13525"	"CTCF"	10664	"mskcc.org"	"GRCh37"	"16"	67644630	67644630	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-9-97T>C"	""	""	"ENST00000264010"	""	89	"69"	20	51	"51"	0	"CTCF,intron_variant,,ENST00000264010,NM_006565.3;CTCF,intron_variant,,ENST00000401394,NM_001191022.1;AC009095.4,downstream_gene_variant,,ENST00000388909,;CTCF,intron_variant,,ENST00000566078,;"	"C"	"ENSG00000102974"	"ENST00000264010"	"Transcript"	"intron_variant"	"-/3939"	"-/2184"	"-/727"	""	""	""	"1"	NA	1	"CTCF"	"HGNC"	13723	"protein_coding"	"YES"	"CCDS10841.1"	"ENSP00000264010"	"P49711"	""	"UPI0000000DDE"	"NM_006565.3"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"23231180-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224719101123595	"WGS"	TRUE
"13526"	"SMPD3"	55512	"mskcc.org"	"GRCh37"	"16"	68475909	68475909	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-269+6347C>T"	""	""	"ENST00000219334"	""	96	"88"	8	53	"53"	0	"SMPD3,intron_variant,,ENST00000219334,NM_018667.3;SMPD3,intron_variant,,ENST00000561749,;SMPD3,intron_variant,,ENST00000566723,;"	"A"	"ENSG00000103056"	"ENST00000219334"	"Transcript"	"intron_variant"	"-/5450"	"-/1968"	"-/655"	""	""	""	"1"	NA	-1	"SMPD3"	"HGNC"	14240	"protein_coding"	"YES"	"CCDS10867.1"	"ENSP00000219334"	"Q9NY59"	"H3BTM0,D6Q0F1,C8CHW6"	"UPI0000037769"	"NM_018667.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"23236676-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13527"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	68633005	68633005	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"76"	6	47	"47"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"232373c8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"13528"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	69448535	69448535	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"71"	6	30	"30"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"2323d9bc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"13529"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	69535198	69535198	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"66"	8	44	"44"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"2323e1b4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"13530"	"CLEC18C"	497190	"mskcc.org"	"GRCh37"	"16"	70211619	70211619	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.456+236A>G"	""	""	"ENST00000569347"	""	38	"31"	7	22	"22"	0	"CLEC18C,intron_variant,,ENST00000569347,NM_173619.2;CLEC18C,intron_variant,,ENST00000541793,;CLEC18C,intron_variant,,ENST00000314151,;CLEC18C,intron_variant,,ENST00000536907,;CLEC18C,intron_variant,,ENST00000562923,;CLEC18C,downstream_gene_variant,,ENST00000565806,;RP11-296I10.3,upstream_gene_variant,,ENST00000502126,;RP11-296I10.3,upstream_gene_variant,,ENST00000566989,;CLEC18C,intron_variant,,ENST00000561612,;CLEC18C,intron_variant,,ENST00000569201,;CLEC18C,intron_variant,,ENST00000564976,;CLEC18C,intron_variant,,ENST00000569268,;"	"G"	"ENSG00000157335"	"ENST00000569347"	"Transcript"	"intron_variant"	"-/1970"	"-/1341"	"-/446"	""	""	""	"1"	NA	1	"CLEC18C"	"HGNC"	28538	"protein_coding"	"YES"	"CCDS32473.1"	"ENSP00000455920"	"Q8NCF0"	"H3BUD1"	"UPI000013DEE9"	"NM_173619.2"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"232450ae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184210526315789	"WGS"	FALSE
"13531"	"SF3B3"	23450	"mskcc.org"	"GRCh37"	"16"	70562260	70562260	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.71-516A>G"	""	""	"ENST00000302516"	""	71	"63"	8	31	"31"	0	"SF3B3,intron_variant,,ENST00000302516,NM_012426.4;SF3B3,intron_variant,,ENST00000577085,;SF3B3,intron_variant,,ENST00000566095,;SF3B3,intron_variant,,ENST00000567654,;SF3B3,intron_variant,,ENST00000569687,;COG4,upstream_gene_variant,,ENST00000323786,NM_015386.2,NM_001195139.1;COG4,upstream_gene_variant,,ENST00000393612,;COG4,upstream_gene_variant,,ENST00000564653,;SF3B3,downstream_gene_variant,,ENST00000564899,;SNORD111B,upstream_gene_variant,,ENST00000408587,;COG4,upstream_gene_variant,,ENST00000530314,;COG4,upstream_gene_variant,,ENST00000564415,;COG4,upstream_gene_variant,,ENST00000482252,;COG4,upstream_gene_variant,,ENST00000562200,;COG4,upstream_gene_variant,,ENST00000530160,;COG4,upstream_gene_variant,,ENST00000524584,;"	"G"	"ENSG00000189091"	"ENST00000302516"	"Transcript"	"intron_variant"	"-/6969"	"-/3654"	"-/1217"	""	""	""	"1"	NA	1	"SF3B3"	"HGNC"	10770	"protein_coding"	"YES"	"CCDS10894.1"	"ENSP00000305790"	"Q15393"	"J3QRB2,J3QL37,I3L4G7,H3BMB0,B3KM77"	"UPI0000167878"	"NM_012426.4"	""	""	""	"2/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"23248f38-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112676056338028	"WGS"	FALSE
"13532"	"HYDIN"	54768	"mskcc.org"	"GRCh37"	"16"	71254595	71254595	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-24+9870A>G"	""	""	"ENST00000393567"	""	85	"55"	30	44	"44"	0	"HYDIN,intron_variant,,ENST00000393567,NM_001270974.1;HYDIN,intron_variant,,ENST00000448089,;HYDIN,intron_variant,,ENST00000321489,NM_017558.4;HYDIN,intron_variant,,ENST00000448691,;HYDIN,intron_variant,,ENST00000538248,NM_001198542.1;HYDIN,intron_variant,,ENST00000541601,NM_001198543.1;HYDIN,intron_variant,,ENST00000288168,;HYDIN,intron_variant,,ENST00000393550,;HYDIN,intron_variant,,ENST00000539973,;HYDIN,intron_variant,,ENST00000545267,;"	"C"	"ENSG00000157423"	"ENST00000393567"	"Transcript"	"intron_variant"	"-/15719"	"-/15366"	"-/5121"	""	""	""	"1"	NA	-1	"HYDIN"	"HGNC"	19368	"protein_coding"	"YES"	"CCDS59269.1"	"ENSP00000377197"	"Q4G0P3"	"K0A1M3,I1Z9D0,F5H8I6,F5GXK3"	"UPI0001FEF4F9"	"NM_001270974.1"	""	""	""	"1/85"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"2324cb4c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WGS"	FALSE
"13533"	"AP1G1"	164	"mskcc.org"	"GRCh37"	"16"	71816177	71816177	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.201+7005T>G"	""	""	"ENST00000393512"	""	94	"87"	7	39	"39"	0	"AP1G1,intron_variant,,ENST00000299980,NM_001128.5;AP1G1,intron_variant,,ENST00000423132,;AP1G1,intron_variant,,ENST00000569748,;AP1G1,intron_variant,,ENST00000433195,;AP1G1,intron_variant,,ENST00000393512,NM_001030007.1;AP1G1,intron_variant,,ENST00000563104,;AP1G1,intron_variant,,ENST00000563259,;AP1G1,intron_variant,,ENST00000565412,;AP1G1,intron_variant,,ENST00000567583,;AP1G1,intron_variant,,ENST00000569185,;AP1G1,intron_variant,,ENST00000565009,;AP1G1,intron_variant,,ENST00000568327,;AP1G1,intron_variant,,ENST00000450149,;AP1G1,intron_variant,,ENST00000566161,;"	"C"	"ENSG00000166747"	"ENST00000393512"	"Transcript"	"intron_variant"	"-/3593"	"-/2478"	"-/825"	""	""	""	"1"	NA	-1	"AP1G1"	"HGNC"	555	"protein_coding"	"YES"	"CCDS45522.1"	"ENSP00000377148"	"O43747"	"H3BV30,H3BS13,H3BRM7,H3BR36,H3BPN9,H3BN75,H3BN71,B3KNW1"	"UPI000016A4AD"	"NM_001030007.1"	""	""	""	"2/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"2324eb86-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"13534"	"IST1"	9798	"mskcc.org"	"GRCh37"	"16"	71931660	71931660	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.24+2899A>C"	""	""	"ENST00000535424"	""	81	"74"	7	42	"42"	0	"IST1,intron_variant,,ENST00000378799,;IST1,intron_variant,,ENST00000329908,NM_001270975.1,NM_014761.3;IST1,intron_variant,,ENST00000378798,NM_001270977.1;IST1,intron_variant,,ENST00000541571,NM_001270976.1;IST1,intron_variant,,ENST00000544564,;IST1,intron_variant,,ENST00000535424,;IST1,intron_variant,,ENST00000606369,NM_001270979.1;IST1,intron_variant,,ENST00000538850,NM_001270978.1;IST1,intron_variant,,ENST00000541918,;IST1,intron_variant,,ENST00000537613,;IST1,intron_variant,,ENST00000534994,;IST1,intron_variant,,ENST00000539186,;IST1,intron_variant,,ENST00000538104,;IST1,intron_variant,,ENST00000424485,;IST1,intron_variant,,ENST00000568581,;IST1,intron_variant,,ENST00000540296,;IST1,intron_variant,,ENST00000538565,;ZNF821,upstream_gene_variant,,ENST00000561700,;IST1,intron_variant,,ENST00000566536,;"	"C"	"ENSG00000182149"	"ENST00000535424"	"Transcript"	"intron_variant"	"-/1416"	"-/1140"	"-/379"	""	""	""	"1"	NA	1	"IST1"	"HGNC"	28977	"protein_coding"	"YES"	"CCDS59271.1"	"ENSP00000438399"	"P53990"	"J3QLU7,H3BUI0,H3BRE2,H3BQF7,H3BQ38,H3BPP6,H3BMU1,B4DXC9,B4DLP1"	"UPI00001FF5EB"	""	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"2324f31a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"13535"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	73711843	73711843	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"58"	32	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"23256bce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355555555555556	"WGS"	FALSE
"13536"	"AC009120.4"	101928035	"mskcc.org"	"GRCh37"	"16"	74182253	74182253	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.390+57551C>A"	""	""	"ENST00000569389"	""	76	"45"	31	50	"50"	0	"AC009120.4,intron_variant,,ENST00000569389,;"	"T"	"ENSG00000261404"	"ENST00000569389"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/845"	""	""	""	""	""	"1"	NA	-1	"AC009120.4"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"23257e16-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.407894736842105	"WGS"	FALSE
"13537"	"NPIPB15"	440348	"mskcc.org"	"GRCh37"	"16"	74418394	74418394	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.250-846G>C"	""	""	"ENST00000429990"	""	46	"40"	6	19	"19"	0	"NPIPB15,intron_variant,,ENST00000429990,;"	"C"	"ENSG00000196436"	"ENST00000429990"	"Transcript"	"intron_variant"	"-/1428"	"-/1332"	"-/443"	""	""	""	"1"	NA	1	"NPIPB15"	"HGNC"	34409	"protein_coding"	"YES"	""	"ENSP00000411140"	"A6NHN6"	""	"UPI000198C783"	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"23259aea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"13538"	"WDR59"	79726	"mskcc.org"	"GRCh37"	"16"	74966085	74966085	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.651+5963C>G"	""	""	"ENST00000262144"	""	92	"83"	9	32	"32"	0	"WDR59,intron_variant,,ENST00000262144,NM_030581.3;WDR59,intron_variant,,ENST00000568462,;WDR59,intron_variant,,ENST00000536050,;WDR59,upstream_gene_variant,,ENST00000569549,;"	"C"	"ENSG00000103091"	"ENST00000262144"	"Transcript"	"intron_variant"	"-/3695"	"-/2925"	"-/974"	""	""	""	"1"	NA	-1	"WDR59"	"HGNC"	25706	"protein_coding"	"YES"	"CCDS32488.1"	"ENSP00000262144"	"Q6PJI9"	"H3BUE9,H3BR95"	"UPI000019839C"	"NM_030581.3"	""	""	""	"8/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"2325f99a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0978260869565217	"WGS"	FALSE
"13539"	"WDR59"	79726	"mskcc.org"	"GRCh37"	"16"	74966091	74966091	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.651+5957T>G"	""	""	"ENST00000262144"	""	88	"82"	6	29	"29"	0	"WDR59,intron_variant,,ENST00000262144,NM_030581.3;WDR59,intron_variant,,ENST00000568462,;WDR59,intron_variant,,ENST00000536050,;WDR59,upstream_gene_variant,,ENST00000569549,;"	"C"	"ENSG00000103091"	"ENST00000262144"	"Transcript"	"intron_variant"	"-/3695"	"-/2925"	"-/974"	""	""	""	"1"	NA	-1	"WDR59"	"HGNC"	25706	"protein_coding"	"YES"	"CCDS32488.1"	"ENSP00000262144"	"Q6PJI9"	"H3BUE9,H3BR95"	"UPI000019839C"	"NM_030581.3"	""	""	""	"8/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"2325fa4e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"13540"	"RNU6-758P"	0	"mskcc.org"	"GRCh37"	"16"	75318024	75318024	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516292"	""	66	"59"	7	29	"29"	0	"RNU6-758P,downstream_gene_variant,,ENST00000516292,;"	"C"	"ENSG00000252101"	"ENST00000516292"	"Transcript"	"downstream_gene_variant"	"-/87"	""	""	""	""	""	"1"	"2586"	-1	"RNU6-758P"	"HGNC"	47721	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"232620f0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106060606060606	"WGS"	FALSE
"13541"	"CFDP1"	10428	"mskcc.org"	"GRCh37"	"16"	75364040	75364040	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.651-24960C>G"	""	""	"ENST00000283882"	""	103	"69"	34	47	"47"	0	"CFDP1,intron_variant,,ENST00000283882,NM_006324.2;CFDP1,intron_variant,,ENST00000564793,;"	"C"	"ENSG00000153774"	"ENST00000283882"	"Transcript"	"intron_variant"	"-/1275"	"-/900"	"-/299"	""	""	""	"1"	NA	-1	"CFDP1"	"HGNC"	1873	"protein_coding"	"YES"	"CCDS10916.1"	"ENSP00000283882"	"Q9UEE9"	""	"UPI00000713EA"	"NM_006324.2"	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"23262690-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330097087378641	"WGS"	FALSE
"13542"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	79968636	79968636	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs16951679"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"67"	27	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs16951679"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0150"	"A:0.0545"	"A:0.0029"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"232708da-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287234042553192	"WGS"	FALSE
"13543"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	86459303	86459303	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"39"	27	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"2328dba6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.409090909090909	"WGS"	FALSE
"13544"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	87070445	87070445	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"62"	32	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"23291ab2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340425531914894	"WGS"	FALSE
"13545"	"RP11-134D3.1"	440390	"mskcc.org"	"GRCh37"	"16"	87091605	87091605	"+"	"RNA"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.216G>A"	""	""	"ENST00000430050"	"1/3"	74	"52"	22	41	"41"	0	"RP11-134D3.1,non_coding_transcript_exon_variant,,ENST00000430050,;"	"A"	"ENSG00000232190"	"ENST00000430050"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"216/4083"	""	""	""	""	""	"1"	NA	1	"RP11-134D3.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"23291b66-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297297297297297	"WGS"	FALSE
"13546"	"MAP1LC3B"	81631	"mskcc.org"	"GRCh37"	"16"	87434036	87434036	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.96+1560T>C"	""	""	"ENST00000268607"	""	87	"81"	6	37	"37"	0	"MAP1LC3B,intron_variant,,ENST00000268607,NM_022818.4;MAP1LC3B,intron_variant,,ENST00000534986,;MAP1LC3B,intron_variant,,ENST00000565788,;RP11-178L8.3,upstream_gene_variant,,ENST00000569147,;MAP1LC3B,intron_variant,,ENST00000564844,;MAP1LC3B,intron_variant,,ENST00000570189,;MAP1LC3B,downstream_gene_variant,,ENST00000564638,;"	"C"	"ENSG00000140941"	"ENST00000268607"	"Transcript"	"intron_variant"	"-/2688"	"-/378"	"-/125"	""	""	""	"1"	NA	1	"MAP1LC3B"	"HGNC"	13352	"protein_coding"	"YES"	"CCDS10960.1"	"ENSP00000268607"	"Q9GZQ8"	"Q49A36,Q658J6,H6UMI0"	"UPI0000001057"	"NM_022818.4"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"232943e8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"13547"	"RP4-536B24.4"	0	"mskcc.org"	"GRCh37"	"16"	87809422	87809422	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.521+2052T>C"	""	""	"ENST00000563993"	""	85	"78"	7	29	"29"	0	"RP4-536B24.4,intron_variant,,ENST00000563993,;RP4-536B24.4,intron_variant,,ENST00000570159,;RP4-536B24.3,downstream_gene_variant,,ENST00000561567,;"	"G"	"ENSG00000260498"	"ENST00000563993"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/575"	""	""	""	""	""	"1"	NA	-1	"RP4-536B24.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"23297eee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0823529411764706	"WGS"	FALSE
"13548"	"ZC3H18"	124245	"mskcc.org"	"GRCh37"	"16"	88639228	88639228	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-15+2254T>G"	""	""	"ENST00000301011"	""	77	"71"	6	43	"43"	0	"ZC3H18,intron_variant,,ENST00000301011,NM_144604.3;ZC3H18,intron_variant,,ENST00000452588,;ZC3H18,intron_variant,,ENST00000569435,;"	"G"	"ENSG00000158545"	"ENST00000301011"	"Transcript"	"intron_variant"	"-/3729"	"-/2862"	"-/953"	""	""	""	"1"	NA	1	"ZC3H18"	"HGNC"	25091	"protein_coding"	"YES"	"CCDS10967.1"	"ENSP00000301011"	"Q86VM9"	"H3BRH3,B3KRL4"	"UPI00001FF676"	"NM_144604.3"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"232a55f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"13549"	"RP11-46C24.5"	0	"mskcc.org"	"GRCh37"	"16"	89327247	89327247	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.35-3140C>T"	""	""	"ENST00000566427"	""	59	"53"	6	38	"38"	0	"RP11-46C24.5,intron_variant,,ENST00000566427,;"	"A"	"ENSG00000260637"	"ENST00000566427"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/555"	""	""	""	""	""	"1"	NA	-1	"RP11-46C24.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"232af634-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101694915254237	"WGS"	FALSE
"13550"	"TUBB3"	10381	"mskcc.org"	"GRCh37"	"16"	89996778	89996778	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1099-2201A>T"	""	""	"ENST00000556922"	""	68	"62"	6	40	"40"	0	"TUBB3,intron_variant,,ENST00000556922,;TUBB3,intron_variant,,ENST00000554444,NM_001197181.1;TUBB3,intron_variant,,ENST00000315491,NM_006086.3;TUBB3,intron_variant,,ENST00000554336,;TUBB3,intron_variant,,ENST00000555810,;TUBB3,intron_variant,,ENST00000553967,;TUBB3,intron_variant,,ENST00000555576,;TUBB3,intron_variant,,ENST00000556565,;TUBB3,upstream_gene_variant,,ENST00000304984,;TUBB3,intron_variant,,ENST00000554116,;TUBB3,intron_variant,,ENST00000555609,;TUBB3,intron_variant,,ENST00000556536,;TUBB3,intron_variant,,ENST00000557262,;TUBB3,intron_variant,,ENST00000557490,;TUBB3,intron_variant,,ENST00000554927,;TUBB3,intron_variant,,ENST00000553656,;"	"T"	"ENSG00000198211"	"ENST00000556922"	"Transcript"	"intron_variant"	"-/2776"	"-/2394"	"-/797"	""	""	""	"1"	NA	1	"TUBB3"	"HGNC"	20772	"protein_coding"	"YES"	""	"ENSP00000451560"	""	"Q9BV28,Q3ZCR3,G3V542,G3V2A3,A8K854"	"UPI00000718A4"	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"232bb8bc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"13551"	"TUBB3"	10381	"mskcc.org"	"GRCh37"	"16"	89996790	89996790	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1099-2189G>C"	""	""	"ENST00000556922"	""	63	"56"	7	41	"41"	0	"TUBB3,intron_variant,,ENST00000556922,;TUBB3,intron_variant,,ENST00000554444,NM_001197181.1;TUBB3,intron_variant,,ENST00000315491,NM_006086.3;TUBB3,intron_variant,,ENST00000554336,;TUBB3,intron_variant,,ENST00000555810,;TUBB3,intron_variant,,ENST00000553967,;TUBB3,intron_variant,,ENST00000555576,;TUBB3,intron_variant,,ENST00000556565,;TUBB3,upstream_gene_variant,,ENST00000304984,;TUBB3,intron_variant,,ENST00000554116,;TUBB3,intron_variant,,ENST00000555609,;TUBB3,intron_variant,,ENST00000556536,;TUBB3,intron_variant,,ENST00000557262,;TUBB3,intron_variant,,ENST00000557490,;TUBB3,intron_variant,,ENST00000554927,;TUBB3,intron_variant,,ENST00000553656,;"	"C"	"ENSG00000198211"	"ENST00000556922"	"Transcript"	"intron_variant"	"-/2776"	"-/2394"	"-/797"	""	""	""	"1"	NA	1	"TUBB3"	"HGNC"	20772	"protein_coding"	"YES"	""	"ENSP00000451560"	""	"Q9BV28,Q3ZCR3,G3V542,G3V2A3,A8K854"	"UPI00000718A4"	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"232bb970-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"13552"	"VPS53"	55275	"mskcc.org"	"GRCh37"	"17"	481381	481381	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1313+8129A>T"	""	""	"ENST00000437048"	""	76	"69"	7	47	"47"	0	"VPS53,intron_variant,,ENST00000437048,NM_001128159.2;VPS53,intron_variant,,ENST00000446250,;VPS53,intron_variant,,ENST00000291074,NM_018289.3;VPS53,intron_variant,,ENST00000571805,;VPS53,intron_variant,,ENST00000401468,;VPS53,intron_variant,,ENST00000574029,;VPS53,intron_variant,,ENST00000576149,;VPS53,intron_variant,,ENST00000573028,;VPS53,intron_variant,,ENST00000389040,;"	"A"	"ENSG00000141252"	"ENST00000437048"	"Transcript"	"intron_variant"	"-/13106"	"-/2499"	"-/832"	""	""	""	"1"	NA	-1	"VPS53"	"HGNC"	25608	"protein_coding"	"YES"	"CCDS45558.1"	"ENSP00000401435"	"Q5VIR6"	"Q8NCR1,I3L4P9"	"UPI0000DBEF01"	"NM_001128159.2"	""	""	""	"13/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"232c8454-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"13553"	"VPS53"	55275	"mskcc.org"	"GRCh37"	"17"	481650	481650	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1313+7860C>G"	""	""	"ENST00000437048"	""	84	"77"	7	41	"41"	0	"VPS53,intron_variant,,ENST00000437048,NM_001128159.2;VPS53,intron_variant,,ENST00000446250,;VPS53,intron_variant,,ENST00000291074,NM_018289.3;VPS53,intron_variant,,ENST00000571805,;VPS53,intron_variant,,ENST00000401468,;VPS53,intron_variant,,ENST00000574029,;VPS53,intron_variant,,ENST00000576149,;VPS53,intron_variant,,ENST00000573028,;VPS53,intron_variant,,ENST00000389040,;"	"C"	"ENSG00000141252"	"ENST00000437048"	"Transcript"	"intron_variant"	"-/13106"	"-/2499"	"-/832"	""	""	""	"1"	NA	-1	"VPS53"	"HGNC"	25608	"protein_coding"	"YES"	"CCDS45558.1"	"ENSP00000401435"	"Q5VIR6"	"Q8NCR1,I3L4P9"	"UPI0000DBEF01"	"NM_001128159.2"	""	""	""	"13/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"232c8670-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13554"	"VPS53"	55275	"mskcc.org"	"GRCh37"	"17"	625782	625782	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000576019"	""	26	"22"	4	16	"16"	0	"VPS53,upstream_gene_variant,,ENST00000576019,;"	"C"	"ENSG00000141252"	"ENST00000576019"	"Transcript"	"upstream_gene_variant"	"-/613"	"-/204"	"-/68"	""	""	""	"1"	"825"	-1	"VPS53"	"HGNC"	25608	"protein_coding"	""	""	"ENSP00000461429"	""	"I3L4P9"	"UPI00025A2D74"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"232cca04-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"13555"	"NXN"	64359	"mskcc.org"	"GRCh37"	"17"	708264	708264	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1000+44C>T"	""	""	"ENST00000336868"	""	79	"51"	28	39	"39"	0	"NXN,intron_variant,,ENST00000336868,NM_022463.4;NXN,intron_variant,,ENST00000575801,NM_001205319.1;NXN,intron_variant,,ENST00000537628,;NXN,intron_variant,,ENST00000571684,;NXN,intron_variant,,ENST00000538650,;NXN,intron_variant,,ENST00000574018,;NXN,upstream_gene_variant,,ENST00000571281,;"	"A"	"ENSG00000167693"	"ENST00000336868"	"Transcript"	"intron_variant"	"-/3036"	"-/1308"	"-/435"	""	""	""	"1"	NA	-1	"NXN"	"HGNC"	18008	"protein_coding"	"YES"	"CCDS10998.1"	"ENSP00000337443"	"Q6DKJ4"	""	"UPI00001B31EB"	"NM_022463.4"	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"232ce084-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.354430379746835	"WGS"	FALSE
"13556"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	1217748	1217748	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"80"	6	36	"36"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"232d8976-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"13557"	"CRK"	1398	"mskcc.org"	"GRCh37"	"17"	1346483	1346483	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.242-6034T>G"	""	""	"ENST00000300574"	""	79	"70"	9	25	"25"	0	"CRK,intron_variant,,ENST00000300574,NM_016823.3;CRK,intron_variant,,ENST00000398970,NM_005206.4;CRK,intron_variant,,ENST00000574295,;CRK,intron_variant,,ENST00000572145,;"	"C"	"ENSG00000167193"	"ENST00000300574"	"Transcript"	"intron_variant"	"-/3880"	"-/915"	"-/304"	""	""	""	"1"	NA	-1	"CRK"	"HGNC"	2362	"protein_coding"	"YES"	"CCDS11002.1"	"ENSP00000300574"	"P46108"	"L7RT18"	"UPI0000071225"	"NM_016823.3"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"232dacf8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113924050632911	"WGS"	FALSE
"13558"	"SMYD4"	114826	"mskcc.org"	"GRCh37"	"17"	1697454	1697454	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1537+5697T>C"	""	""	"ENST00000305513"	""	42	"35"	7	20	"20"	0	"SMYD4,intron_variant,,ENST00000305513,NM_052928.2;SMYD4,intron_variant,,ENST00000491788,;"	"G"	"ENSG00000186532"	"ENST00000305513"	"Transcript"	"intron_variant"	"-/4384"	"-/2415"	"-/804"	""	""	""	"1"	NA	-1	"SMYD4"	"HGNC"	21067	"protein_coding"	"YES"	"CCDS11013.1"	"ENSP00000304360"	"Q8IYR2"	"I3L496,I3L428,I3L2P4"	"UPI000013EA5C"	"NM_052928.2"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"232df582-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"13559"	"SMYD4"	114826	"mskcc.org"	"GRCh37"	"17"	1697472	1697472	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1537+5679A>G"	""	""	"ENST00000305513"	""	45	"38"	7	18	"18"	0	"SMYD4,intron_variant,,ENST00000305513,NM_052928.2;SMYD4,intron_variant,,ENST00000491788,;"	"C"	"ENSG00000186532"	"ENST00000305513"	"Transcript"	"intron_variant"	"-/4384"	"-/2415"	"-/804"	""	""	""	"1"	NA	-1	"SMYD4"	"HGNC"	21067	"protein_coding"	"YES"	"CCDS11013.1"	"ENSP00000304360"	"Q8IYR2"	"I3L496,I3L428,I3L2P4"	"UPI000013EA5C"	"NM_052928.2"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"232df6d6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155555555555556	"WGS"	FALSE
"13560"	"SMYD4"	114826	"mskcc.org"	"GRCh37"	"17"	1697529	1697529	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1537+5622T>A"	""	""	"ENST00000305513"	""	66	"58"	8	24	"24"	0	"SMYD4,intron_variant,,ENST00000305513,NM_052928.2;SMYD4,intron_variant,,ENST00000491788,;"	"T"	"ENSG00000186532"	"ENST00000305513"	"Transcript"	"intron_variant"	"-/4384"	"-/2415"	"-/804"	""	""	""	"1"	NA	-1	"SMYD4"	"HGNC"	21067	"protein_coding"	"YES"	"CCDS11013.1"	"ENSP00000304360"	"Q8IYR2"	"I3L496,I3L428,I3L2P4"	"UPI000013EA5C"	"NM_052928.2"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"232df7b2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"13561"	"RTN4RL1"	146760	"mskcc.org"	"GRCh37"	"17"	1884033	1884033	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.14-42931G>T"	""	""	"ENST00000331238"	""	84	"78"	6	34	"34"	0	"RTN4RL1,intron_variant,,ENST00000331238,NM_178568.2;"	"A"	"ENSG00000185924"	"ENST00000331238"	"Transcript"	"intron_variant"	"-/3625"	"-/1326"	"-/441"	""	""	""	"1"	NA	-1	"RTN4RL1"	"HGNC"	21329	"protein_coding"	"YES"	"CCDS45569.1"	"ENSP00000330631"	"Q86UN2"	""	"UPI000018CD23"	"NM_178568.2"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"232e11b6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"13562"	"SMG6"	23293	"mskcc.org"	"GRCh37"	"17"	2030113	2030113	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3358-40918A>G"	""	""	"ENST00000263073"	""	88	"74"	14	51	"51"	0	"SMG6,intron_variant,,ENST00000544865,;SMG6,intron_variant,,ENST00000263073,NM_017575.4;SMG6,intron_variant,,ENST00000354901,NM_001256827.1;SMG6,intron_variant,,ENST00000536871,NM_001256828.1;SMG6,intron_variant,,ENST00000575454,;SMG6,intron_variant,,ENST00000570874,;RP11-667K14.8,downstream_gene_variant,,ENST00000573670,;"	"C"	"ENSG00000070366"	"ENST00000263073"	"Transcript"	"intron_variant"	"-/5960"	"-/4260"	"-/1419"	""	""	""	"1"	NA	-1	"SMG6"	"HGNC"	17809	"protein_coding"	"YES"	"CCDS11016.1"	"ENSP00000263073"	"Q86US8"	"K7ENH7,K7ELM2,K7EKV2,I3L421,I3L3A9,I3L355,I3L1W8,I3L176"	"UPI00002005C8"	"NM_017575.4"	""	""	""	"13/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"232e2a20-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.159090909090909	"WGS"	FALSE
"13563"	"SMG6"	23293	"mskcc.org"	"GRCh37"	"17"	2153956	2153956	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2662-5943T>A"	""	""	"ENST00000263073"	""	80	"58"	22	40	"40"	0	"SMG6,intron_variant,,ENST00000544865,;SMG6,intron_variant,,ENST00000263073,NM_017575.4;SMG6,intron_variant,,ENST00000354901,NM_001256827.1;SMG6,intron_variant,,ENST00000570606,;"	"T"	"ENSG00000070366"	"ENST00000263073"	"Transcript"	"intron_variant"	"-/5960"	"-/4260"	"-/1419"	""	""	""	"1"	NA	-1	"SMG6"	"HGNC"	17809	"protein_coding"	"YES"	"CCDS11016.1"	"ENSP00000263073"	"Q86US8"	"K7ENH7,K7ELM2,K7EKV2,I3L421,I3L3A9,I3L355,I3L1W8,I3L176"	"UPI00002005C8"	"NM_017575.4"	""	""	""	"8/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"232e345c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275	"WGS"	FALSE
"13564"	"TSR1"	55720	"mskcc.org"	"GRCh37"	"17"	2231570	2231570	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1903+1067A>C"	""	""	"ENST00000301364"	""	63	"55"	8	38	"38"	0	"TSR1,intron_variant,,ENST00000301364,NM_018128.4;SRR,downstream_gene_variant,,ENST00000344595,NM_021947.1;SRR,downstream_gene_variant,,ENST00000576848,;SNORD91A,downstream_gene_variant,,ENST00000390861,NR_003072.1;SNORD91B,downstream_gene_variant,,ENST00000391250,NR_003073.1;SNORD91A,downstream_gene_variant,,ENST00000609620,;SNORD91B,downstream_gene_variant,,ENST00000608459,;TSR1,intron_variant,,ENST00000575049,;"	"G"	"ENSG00000167721"	"ENST00000301364"	"Transcript"	"intron_variant"	"-/5188"	"-/2415"	"-/804"	""	""	""	"1"	NA	-1	"TSR1"	"HGNC"	25542	"protein_coding"	"YES"	"CCDS32525.1"	"ENSP00000301364"	"Q2NL82"	""	"UPI00002005DF"	"NM_018128.4"	""	""	""	"11/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"232e4082-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126984126984127	"WGS"	FALSE
"13565"	"METTL16"	79066	"mskcc.org"	"GRCh37"	"17"	2350816	2350816	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.729-5963T>A"	""	""	"ENST00000263092"	""	27	"23"	4	18	"18"	0	"METTL16,intron_variant,,ENST00000263092,NM_024086.3;METTL16,intron_variant,,ENST00000538844,;METTL16,intron_variant,,ENST00000571669,;METTL16,intron_variant,,ENST00000576556,;METTL16,intron_variant,,ENST00000574752,;"	"T"	"ENSG00000127804"	"ENST00000263092"	"Transcript"	"intron_variant"	"-/5711"	"-/1689"	"-/562"	""	""	""	"1"	NA	-1	"METTL16"	"HGNC"	28484	"protein_coding"	"YES"	"CCDS42232.1"	"ENSP00000263092"	"Q86W50"	"B7Z3X7"	"UPI0000200607"	"NM_024086.3"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"232e5072-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"13566"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	2447503	2447503	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"76"	8	39	"39"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"232e6530-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"13567"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	2467356	2467356	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	45	"40"	5	13	"13"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"232e6b8e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"13568"	"RAP1GAP2"	23108	"mskcc.org"	"GRCh37"	"17"	2790785	2790785	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.81-17793T>C"	""	""	"ENST00000254695"	""	84	"74"	10	32	"32"	0	"RAP1GAP2,intron_variant,,ENST00000254695,NM_015085.4;RAP1GAP2,intron_variant,,ENST00000366401,NM_001100398.1;RAP1GAP2,intron_variant,,ENST00000540393,;RAP1GAP2,intron_variant,,ENST00000542807,;"	"C"	"ENSG00000132359"	"ENST00000254695"	"Transcript"	"intron_variant"	"-/6661"	"-/2193"	"-/730"	""	""	""	"1"	NA	1	"RAP1GAP2"	"HGNC"	29176	"protein_coding"	"YES"	"CCDS45573.1"	"ENSP00000254695"	"Q684P5"	""	"UPI0000D622A3"	"NM_015085.4"	""	""	""	"2/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"232e9b9a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"13569"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	4287709	4287709	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"62"	6	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"232f4ab8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"13570"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	4287717	4287717	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"66"	6	45	"45"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"232f4c20-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13571"	"ARRB2"	409	"mskcc.org"	"GRCh37"	"17"	4628938	4628938	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000412477"	""	61	"54"	7	48	"48"	0	"ARRB2,downstream_gene_variant,,ENST00000269260,NM_001257328.1,NM_004313.3,NM_001257330.1;ARRB2,downstream_gene_variant,,ENST00000412477,;ARRB2,downstream_gene_variant,,ENST00000346341,NM_199004.1,NM_001257331.1;ARRB2,downstream_gene_variant,,ENST00000572457,;ARRB2,downstream_gene_variant,,ENST00000571206,;ARRB2,downstream_gene_variant,,ENST00000575877,NM_001257329.1;ARRB2,downstream_gene_variant,,ENST00000574954,;ARRB2,downstream_gene_variant,,ENST00000381488,;"	"A"	"ENSG00000141480"	"ENST00000412477"	"Transcript"	"downstream_gene_variant"	"-/1779"	"-/1293"	"-/430"	""	""	""	"1"	"4147"	1	"ARRB2"	"HGNC"	712	"protein_coding"	"YES"	"CCDS58504.1"	"ENSP00000403701"	"P32121"	"Q68DZ5,K7EL17"	"UPI0001AE6690"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"232f8082-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114754098360656	"WGS"	FALSE
"13572"	"ARRB2"	409	"mskcc.org"	"GRCh37"	"17"	4628942	4628942	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000412477"	""	61	"55"	6	48	"48"	0	"ARRB2,downstream_gene_variant,,ENST00000269260,NM_001257328.1,NM_004313.3,NM_001257330.1;ARRB2,downstream_gene_variant,,ENST00000412477,;ARRB2,downstream_gene_variant,,ENST00000346341,NM_199004.1,NM_001257331.1;ARRB2,downstream_gene_variant,,ENST00000572457,;ARRB2,downstream_gene_variant,,ENST00000571206,;ARRB2,downstream_gene_variant,,ENST00000575877,NM_001257329.1;ARRB2,downstream_gene_variant,,ENST00000574954,;ARRB2,downstream_gene_variant,,ENST00000381488,;"	"T"	"ENSG00000141480"	"ENST00000412477"	"Transcript"	"downstream_gene_variant"	"-/1779"	"-/1293"	"-/430"	""	""	""	"1"	"4151"	1	"ARRB2"	"HGNC"	712	"protein_coding"	"YES"	"CCDS58504.1"	"ENSP00000403701"	"P32121"	"Q68DZ5,K7EL17"	"UPI0001AE6690"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"232f8136-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0983606557377049	"WGS"	FALSE
"13573"	"GLTPD2"	388323	"mskcc.org"	"GRCh37"	"17"	4695015	4695015	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000331264"	""	76	"69"	7	52	"52"	0	"GLTPD2,downstream_gene_variant,,ENST00000331264,NM_001014985.2;PSMB6,upstream_gene_variant,,ENST00000270586,NM_002798.2,NM_001270481.1;PSMB6,upstream_gene_variant,,ENST00000571309,;PSMB6,upstream_gene_variant,,ENST00000575079,;"	"C"	"ENSG00000182327"	"ENST00000331264"	"Transcript"	"downstream_gene_variant"	"-/1023"	"-/876"	"-/291"	""	""	""	"1"	"1330"	1	"GLTPD2"	"HGNC"	33756	"protein_coding"	"YES"	"CCDS32534.1"	"ENSP00000328070"	"A6NH11"	""	"UPI0000EE6359"	"NM_001014985.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"232f88fc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"13574"	"GLTPD2"	388323	"mskcc.org"	"GRCh37"	"17"	4695028	4695028	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000331264"	""	75	"69"	6	36	"36"	0	"GLTPD2,downstream_gene_variant,,ENST00000331264,NM_001014985.2;PSMB6,upstream_gene_variant,,ENST00000270586,NM_002798.2,NM_001270481.1;PSMB6,upstream_gene_variant,,ENST00000571309,;PSMB6,upstream_gene_variant,,ENST00000575079,;"	"C"	"ENSG00000182327"	"ENST00000331264"	"Transcript"	"downstream_gene_variant"	"-/1023"	"-/876"	"-/291"	""	""	""	"1"	"1343"	1	"GLTPD2"	"HGNC"	33756	"protein_coding"	"YES"	"CCDS32534.1"	"ENSP00000328070"	"A6NH11"	""	"UPI0000EE6359"	"NM_001014985.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"232f89b0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"13575"	"YBX2"	51087	"mskcc.org"	"GRCh37"	"17"	7201034	7201034	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000007699"	""	62	"56"	6	31	"31"	0	"YBX2,upstream_gene_variant,,ENST00000007699,NM_015982.3;YBX2,upstream_gene_variant,,ENST00000570627,;YBX2,upstream_gene_variant,,ENST00000571485,;YBX2,upstream_gene_variant,,ENST00000571834,;YBX2,upstream_gene_variant,,ENST00000571127,;"	"T"	"ENSG00000006047"	"ENST00000007699"	"Transcript"	"upstream_gene_variant"	"-/1590"	"-/1095"	"-/364"	""	""	""	"1"	"3151"	-1	"YBX2"	"HGNC"	17948	"protein_coding"	"YES"	"CCDS11098.1"	"ENSP00000007699"	"Q9Y2T7"	""	"UPI000006E761"	"NM_015982.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"23308d38-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"13576"	"YBX2"	51087	"mskcc.org"	"GRCh37"	"17"	7201040	7201040	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000007699"	""	58	"52"	6	29	"29"	0	"YBX2,upstream_gene_variant,,ENST00000007699,NM_015982.3;YBX2,upstream_gene_variant,,ENST00000570627,;YBX2,upstream_gene_variant,,ENST00000571485,;YBX2,upstream_gene_variant,,ENST00000571834,;YBX2,upstream_gene_variant,,ENST00000571127,;"	"C"	"ENSG00000006047"	"ENST00000007699"	"Transcript"	"upstream_gene_variant"	"-/1590"	"-/1095"	"-/364"	""	""	""	"1"	"3157"	-1	"YBX2"	"HGNC"	17948	"protein_coding"	"YES"	"CCDS11098.1"	"ENSP00000007699"	"Q9Y2T7"	""	"UPI000006E761"	"NM_015982.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"23308dec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"13577"	"TMEM107"	84314	"mskcc.org"	"GRCh37"	"17"	8082659	8082659	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000316425"	""	68	"63"	5	41	"41"	0	"TMEM107,upstream_gene_variant,,ENST00000532998,;TMEM107,upstream_gene_variant,,ENST00000449985,;TMEM107,upstream_gene_variant,,ENST00000316425,NM_032354.3;TMEM107,upstream_gene_variant,,ENST00000437139,NM_183065.2;TMEM107,upstream_gene_variant,,ENST00000533070,;TMEM107,upstream_gene_variant,,ENST00000431792,;RP11-599B13.7,intron_variant,,ENST00000581248,;TMEM107,upstream_gene_variant,,ENST00000526920,;TMEM107,upstream_gene_variant,,ENST00000529756,;TMEM107,upstream_gene_variant,,ENST00000417073,;"	"G"	"ENSG00000179029"	"ENST00000316425"	"Transcript"	"upstream_gene_variant"	"-/756"	"-/441"	"-/146"	""	""	""	"1"	"2942"	-1	"TMEM107"	"HGNC"	28128	"protein_coding"	"YES"	"CCDS11132.1"	"ENSP00000314116"	"Q6UX40"	""	"UPI00001BBB36"	"NM_032354.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"2330fe6c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0735294117647059	"WGS"	FALSE
"13578"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	9644409	9644409	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"54"	14	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"23319d18-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205882352941176	"WGS"	FALSE
"13579"	"LINC00675"	100289255	"mskcc.org"	"GRCh37"	"17"	10707196	10707196	"+"	"RNA"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.221G>A"	""	""	"ENST00000581851"	"1/2"	92	"65"	27	42	"42"	0	"LINC00675,non_coding_transcript_exon_variant,,ENST00000581851,;CTC-297N7.5,intron_variant,,ENST00000580899,;"	"T"	"ENSG00000263429"	"ENST00000581851"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"221/1530"	""	""	""	""	""	"1"	NA	-1	"LINC00675"	"HGNC"	44356	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"2331d8fa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293478260869565	"WGS"	FALSE
"13580"	"DNAH9"	1770	"mskcc.org"	"GRCh37"	"17"	11654337	11654337	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6611-1813A>T"	""	""	"ENST00000262442"	""	82	"48"	34	61	"61"	0	"DNAH9,intron_variant,,ENST00000262442,NM_001372.3;DNAH9,intron_variant,,ENST00000454412,;"	"T"	"ENSG00000007174"	"ENST00000262442"	"Transcript"	"intron_variant"	"-/13750"	"-/13461"	"-/4486"	""	""	""	"1"	NA	1	"DNAH9"	"HGNC"	2953	"protein_coding"	"YES"	"CCDS11160.1"	"ENSP00000262442"	"Q9NYC9"	"Q92865"	"UPI0000141BA2"	"NM_001372.3"	""	""	""	"32/68"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"23321040-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.414634146341463	"WGS"	FALSE
"13581"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	12208152	12208152	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"57"	34	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"23322f58-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373626373626374	"WGS"	FALSE
"13582"	"ARHGAP44"	9912	"mskcc.org"	"GRCh37"	"17"	12779576	12779576	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.54-18681C>T"	""	""	"ENST00000379672"	""	87	"52"	35	34	"34"	0	"ARHGAP44,intron_variant,,ENST00000379672,NM_014859.4;ARHGAP44,intron_variant,,ENST00000340825,;ARHGAP44,intron_variant,,ENST00000262444,;ARHGAP44,intron_variant,,ENST00000580768,;ARHGAP44,intron_variant,,ENST00000544416,;ARHGAP44,intron_variant,,ENST00000578442,;"	"T"	"ENSG00000006740"	"ENST00000379672"	"Transcript"	"intron_variant"	"-/4228"	"-/2457"	"-/818"	""	""	""	"1"	NA	1	"ARHGAP44"	"HGNC"	29096	"protein_coding"	"YES"	"CCDS45616.1"	"ENSP00000368994"	"Q17R89"	"J3QQU7"	"UPI0000252116"	"NM_014859.4"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"23324fba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.402298850574713	"WGS"	FALSE
"13583"	"HS3ST3A1"	9955	"mskcc.org"	"GRCh37"	"17"	13445270	13445270	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.600-45135G>A"	""	""	"ENST00000284110"	""	94	"64"	30	55	"54"	1	"HS3ST3A1,intron_variant,,ENST00000284110,NM_006042.1;HS3ST3A1,intron_variant,,ENST00000578576,;MIR548H3,downstream_gene_variant,,ENST00000408771,;"	"T"	"ENSG00000153976"	"ENST00000284110"	"Transcript"	"intron_variant"	"-/2527"	"-/1221"	"-/406"	""	""	""	"1"	NA	-1	"HS3ST3A1"	"HGNC"	5196	"protein_coding"	"YES"	"CCDS11165.1"	"ENSP00000284110"	"Q9Y663"	"J3KSX5"	"UPI000000DAA6"	"NM_006042.1"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"2332731e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319148936170213	"WGS"	FALSE
"13584"	"RP11-131K5.1"	0	"mskcc.org"	"GRCh37"	"17"	13865108	13865108	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.75-3514T>G"	""	""	"ENST00000581533"	""	72	"67"	5	46	"46"	0	"RP11-131K5.1,intron_variant,,ENST00000581533,;COX10-AS1,intron_variant,,ENST00000602743,;"	"C"	"ENSG00000266744"	"ENST00000581533"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/511"	""	""	""	""	""	"1"	NA	-1	"RP11-131K5.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"23328e1c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0694444444444444	"WGS"	FALSE
"13585"	"PIGL"	9487	"mskcc.org"	"GRCh37"	"17"	16131092	16131092	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.236-6193C>T"	""	""	"ENST00000225609"	""	63	"37"	26	27	"27"	0	"PIGL,intron_variant,,ENST00000395844,;PIGL,intron_variant,,ENST00000225609,NM_004278.3;PIGL,intron_variant,,ENST00000498772,;PIGL,intron_variant,,ENST00000477745,;PIGL,intron_variant,,ENST00000584797,;PIGL,intron_variant,,ENST00000581006,;PIGL,intron_variant,,ENST00000585034,;PIGL,intron_variant,,ENST00000607144,;PIGL,intron_variant,,ENST00000470116,;PIGL,intron_variant,,ENST00000489009,;"	"T"	"ENSG00000108474"	"ENST00000225609"	"Transcript"	"intron_variant"	"-/1137"	"-/759"	"-/252"	""	""	""	"1"	NA	1	"PIGL"	"HGNC"	8966	"protein_coding"	"YES"	"CCDS11176.1"	"ENSP00000225609"	"Q9Y2B2"	""	"UPI0000131AB3"	"NM_004278.3"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"23331d3c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.412698412698413	"WGS"	FALSE
"13586"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	16406542	16406542	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"49"	28	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"23334afa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"13587"	"FLCN"	201163	"mskcc.org"	"GRCh37"	"17"	17143779	17143779	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000285071"	""	85	"76"	9	42	"42"	0	"FLCN,upstream_gene_variant,,ENST00000285071,NM_144997.5;FLCN,upstream_gene_variant,,ENST00000389169,NM_144606.5;FLCN,upstream_gene_variant,,ENST00000417064,;RP11-45M22.5,upstream_gene_variant,,ENST00000584952,;AC055811.1,upstream_gene_variant,,ENST00000577389,;FLCN,upstream_gene_variant,,ENST00000389171,;RP11-45M22.4,upstream_gene_variant,,ENST00000427497,;AC055811.5,upstream_gene_variant,,ENST00000423783,;"	"C"	"ENSG00000154803"	"ENST00000285071"	"Transcript"	"upstream_gene_variant"	"-/3638"	"-/1740"	"-/579"	""	""	""	"1"	"3326"	-1	"FLCN"	"HGNC"	27310	"protein_coding"	"YES"	"CCDS32579.1"	"ENSP00000285071"	"Q8NFG4"	"J3QQZ7,C9J4C4"	"UPI0000071D7A"	"NM_144997.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"23338290-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105882352941176	"WGS"	TRUE
"13588"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	20505739	20505739	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	53	"48"	5	19	"19"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"2334bc96-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0943396226415094	"WGS"	FALSE
"13589"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	21006755	21006755	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"72"	9	36	"36"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"2334eaf4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"13590"	"RP11-19P22.7"	0	"mskcc.org"	"GRCh37"	"17"	26002156	26002156	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000579001"	""	91	"54"	37	44	"44"	0	"RP11-19P22.7,upstream_gene_variant,,ENST00000579001,;RP11-19P22.6,downstream_gene_variant,,ENST00000579660,;RP11-19P22.10,downstream_gene_variant,,ENST00000577737,;"	"T"	"ENSG00000265041"	"ENST00000579001"	"Transcript"	"upstream_gene_variant"	"-/942"	""	""	""	""	""	"1"	"2327"	-1	"RP11-19P22.7"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"23372594-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.406593406593407	"WGS"	FALSE
"13591"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	27673630	27673630	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"88"	9	35	"35"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"2337ab86-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0927835051546392	"WGS"	FALSE
"13592"	"TAOK1"	57551	"mskcc.org"	"GRCh37"	"17"	27750981	27750981	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-94-27492T>A"	""	""	"ENST00000261716"	""	91	"85"	6	37	"37"	0	"TAOK1,intron_variant,,ENST00000261716,NM_020791.2;TAOK1,intron_variant,,ENST00000536202,NM_025142.1;TAOK1,intron_variant,,ENST00000583121,;RNU6-711P,downstream_gene_variant,,ENST00000517255,;TAOK1,intron_variant,,ENST00000587277,;"	"A"	"ENSG00000160551"	"ENST00000261716"	"Transcript"	"intron_variant"	"-/12407"	"-/3006"	"-/1001"	""	""	""	"1"	NA	1	"TAOK1"	"HGNC"	29259	"protein_coding"	"YES"	"CCDS32601.1"	"ENSP00000261716"	"Q7L7X3"	"J3QS76"	"UPI000004A033"	"NM_020791.2"	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"2337bd74-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"13593"	"NSRP1"	84081	"mskcc.org"	"GRCh37"	"17"	28509477	28509477	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.617+1443T>C"	""	""	"ENST00000247026"	""	90	"81"	9	42	"42"	0	"NSRP1,intron_variant,,ENST00000247026,NM_032141.3,NM_001261467.1;NSRP1,intron_variant,,ENST00000580103,;NSRP1,downstream_gene_variant,,ENST00000585881,;NSRP1,downstream_gene_variant,,ENST00000588614,;NSRP1,intron_variant,,ENST00000540900,;NSRP1,downstream_gene_variant,,ENST00000577289,;NSRP1,downstream_gene_variant,,ENST00000581048,;NSRP1,intron_variant,,ENST00000394826,;NSRP1,intron_variant,,ENST00000475652,;NSRP1,downstream_gene_variant,,ENST00000584154,;NSRP1,downstream_gene_variant,,ENST00000584317,;NSRP1,downstream_gene_variant,,ENST00000589608,;"	"C"	"ENSG00000126653"	"ENST00000247026"	"Transcript"	"intron_variant"	"-/2541"	"-/1677"	"-/558"	""	""	""	"1"	NA	1	"NSRP1"	"HGNC"	25305	"protein_coding"	"YES"	"CCDS11255.1"	"ENSP00000247026"	"Q9H0G5"	"K7ERM9,K7EMD8,K7EK40"	"UPI000006E653"	"NM_032141.3,NM_001261467.1"	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"2338007c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"13594"	"AC005562.1"	0	"mskcc.org"	"GRCh37"	"17"	28997469	28997469	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.378-2012T>C"	""	""	"ENST00000578265"	""	63	"58"	5	32	"32"	0	"AC005562.1,intron_variant,,ENST00000578265,;"	"C"	"ENSG00000214719"	"ENST00000578265"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/704"	""	""	""	""	""	"1"	NA	1	"AC005562.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"23382566-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0793650793650794	"WGS"	FALSE
"13595"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	29020267	29020267	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"91"	6	45	"45"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"23382c50-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0618556701030928	"WGS"	FALSE
"13596"	"ATAD5"	79915	"mskcc.org"	"GRCh37"	"17"	29203112	29203112	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3608-280G>A"	""	""	"ENST00000321990"	""	81	"74"	7	42	"42"	0	"ATAD5,intron_variant,,ENST00000321990,NM_024857.3;ATAD5,intron_variant,,ENST00000578295,;"	"A"	"ENSG00000176208"	"ENST00000321990"	"Transcript"	"intron_variant"	"-/6869"	"-/5535"	"-/1844"	""	""	""	"1"	NA	1	"ATAD5"	"HGNC"	25752	"protein_coding"	"YES"	"CCDS11260.1"	"ENSP00000313171"	"Q96QE3"	""	"UPI0000071E9E"	"NM_024857.3"	""	""	""	"14/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"23384186-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"13597"	"SUZ12"	23512	"mskcc.org"	"GRCh37"	"17"	30268899	30268899	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.386+1394T>C"	""	""	"ENST00000322652"	""	61	"54"	7	35	"35"	0	"SUZ12,intron_variant,,ENST00000322652,NM_015355.2;SUZ12,intron_variant,,ENST00000580398,;"	"C"	"ENSG00000178691"	"ENST00000322652"	"Transcript"	"intron_variant"	"-/4491"	"-/2220"	"-/739"	""	""	""	"1"	NA	1	"SUZ12"	"HGNC"	17101	"protein_coding"	"YES"	"CCDS11270.1"	"ENSP00000316578"	"Q15022"	""	"UPI000006F727"	"NM_015355.2"	""	""	""	"3/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"23389fe6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114754098360656	"WGS"	TRUE
"13598"	"SUZ12"	23512	"mskcc.org"	"GRCh37"	"17"	30291139	30291139	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.456-2027G>A"	""	""	"ENST00000322652"	""	97	"87"	10	52	"52"	0	"SUZ12,intron_variant,,ENST00000322652,NM_015355.2;SUZ12,intron_variant,,ENST00000580398,;RNA5SP437,upstream_gene_variant,,ENST00000517249,;SUZ12,upstream_gene_variant,,ENST00000494429,;"	"A"	"ENSG00000178691"	"ENST00000322652"	"Transcript"	"intron_variant"	"-/4491"	"-/2220"	"-/739"	""	""	""	"1"	NA	1	"SUZ12"	"HGNC"	17101	"protein_coding"	"YES"	"CCDS11270.1"	"ENSP00000316578"	"Q15022"	""	"UPI000006F727"	"NM_015355.2"	""	""	""	"4/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"2338a630-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103092783505155	"WGS"	TRUE
"13599"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	31249346	31249346	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	31	"27"	4	8	"8"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"2339116a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"13600"	"ASIC2"	40	"mskcc.org"	"GRCh37"	"17"	31672878	31672878	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.556-233793G>T"	""	""	"ENST00000359872"	""	87	"62"	25	50	"50"	0	"ASIC2,intron_variant,,ENST00000359872,NM_001094.4;"	"A"	"ENSG00000108684"	"ENST00000359872"	"Transcript"	"intron_variant"	"-/3179"	"-/1539"	"-/512"	""	""	""	"1"	NA	-1	"ASIC2"	"HGNC"	99	"protein_coding"	""	"CCDS42296.1"	"ENSP00000352934"	"Q16515"	""	"UPI00000441F0"	"NM_001094.4"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"2339236c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28735632183908	"WGS"	FALSE
"13601"	"ASIC2"	40	"mskcc.org"	"GRCh37"	"17"	32388358	32388358	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.555+94639G>A"	""	""	"ENST00000359872"	""	77	"51"	26	52	"52"	0	"ASIC2,intron_variant,,ENST00000359872,NM_001094.4;"	"T"	"ENSG00000108684"	"ENST00000359872"	"Transcript"	"intron_variant"	"-/3179"	"-/1539"	"-/512"	""	""	""	"1"	NA	-1	"ASIC2"	"HGNC"	99	"protein_coding"	""	"CCDS42296.1"	"ENSP00000352934"	"Q16515"	""	"UPI00000441F0"	"NM_001094.4"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"23393be0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337662337662338	"WGS"	FALSE
"13602"	"AP2B1"	163	"mskcc.org"	"GRCh37"	"17"	33909470	33909470	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000312678"	""	57	"53"	4	34	"34"	0	"AP2B1,intron_variant,,ENST00000589774,;AP2B1,upstream_gene_variant,,ENST00000262325,NM_001282.2;AP2B1,upstream_gene_variant,,ENST00000312678,NM_001030006.1;AP2B1,upstream_gene_variant,,ENST00000538556,;AP2B1,upstream_gene_variant,,ENST00000592545,;AP2B1,upstream_gene_variant,,ENST00000589344,;PEX12,upstream_gene_variant,,ENST00000225873,NM_000286.2;PEX12,upstream_gene_variant,,ENST00000585380,;AP2B1,upstream_gene_variant,,ENST00000590432,;AP2B1,upstream_gene_variant,,ENST00000592191,;PEX12,upstream_gene_variant,,ENST00000586663,;AP2B1,upstream_gene_variant,,ENST00000590538,;AP2B1,upstream_gene_variant,,ENST00000591610,;"	"A"	"ENSG00000006125"	"ENST00000312678"	"Transcript"	"upstream_gene_variant"	"-/3662"	"-/2856"	"-/951"	""	""	""	"1"	"4871"	1	"AP2B1"	"HGNC"	563	"protein_coding"	"YES"	"CCDS32621.1"	"ENSP00000314414"	"P63010"	"Q96EL6,K7ERB2,K7EN71,K7EJX1"	"UPI000006DD97"	"NM_001030006.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"2339883e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0701754385964912	"WGS"	FALSE
"13603"	"AP2B1"	163	"mskcc.org"	"GRCh37"	"17"	33909478	33909478	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000312678"	""	56	"50"	6	31	"31"	0	"AP2B1,intron_variant,,ENST00000589774,;AP2B1,upstream_gene_variant,,ENST00000262325,NM_001282.2;AP2B1,upstream_gene_variant,,ENST00000312678,NM_001030006.1;AP2B1,upstream_gene_variant,,ENST00000537622,;AP2B1,upstream_gene_variant,,ENST00000538556,;AP2B1,upstream_gene_variant,,ENST00000592545,;AP2B1,upstream_gene_variant,,ENST00000589344,;PEX12,upstream_gene_variant,,ENST00000225873,NM_000286.2;PEX12,upstream_gene_variant,,ENST00000585380,;AP2B1,upstream_gene_variant,,ENST00000590432,;AP2B1,upstream_gene_variant,,ENST00000592191,;PEX12,upstream_gene_variant,,ENST00000586663,;AP2B1,upstream_gene_variant,,ENST00000590538,;AP2B1,upstream_gene_variant,,ENST00000591610,;"	"C"	"ENSG00000006125"	"ENST00000312678"	"Transcript"	"upstream_gene_variant"	"-/3662"	"-/2856"	"-/951"	""	""	""	"1"	"4863"	1	"AP2B1"	"HGNC"	563	"protein_coding"	"YES"	"CCDS32621.1"	"ENSP00000314414"	"P63010"	"Q96EL6,K7ERB2,K7EN71,K7EJX1"	"UPI000006DD97"	"NM_001030006.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"233988fc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"13604"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	35186349	35186349	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"54"	5	32	"32"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"2339dc9e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0847457627118644	"WGS"	FALSE
"13605"	"ACACA"	31	"mskcc.org"	"GRCh37"	"17"	35584538	35584538	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3247-1165A>G"	""	""	"ENST00000353139"	""	84	"61"	23	36	"36"	0	"ACACA,intron_variant,,ENST00000353139,NM_198834.1,NM_198839.1;ACACA,intron_variant,,ENST00000360679,NM_198837.1;ACACA,intron_variant,,ENST00000394406,NM_198836.1;ACACA,intron_variant,,ENST00000335166,NM_198838.1;ACACA,upstream_gene_variant,,ENST00000587720,;ACACA,intron_variant,,ENST00000590888,;"	"C"	"ENSG00000132142"	"ENST00000353139"	"Transcript"	"intron_variant"	"-/9962"	"-/7152"	"-/2383"	""	""	""	"1"	NA	-1	"ACACA"	"HGNC"	84	"protein_coding"	"YES"	"CCDS42302.1"	"ENSP00000344789"	"Q13085"	"Q7Z5W8,K7EII5,K4DID9,B4DWK9,B4DK31,B4DIW1,B2ZZ90,A8MYL5"	"UPI00002263AC"	"NM_198834.1,NM_198839.1"	""	""	""	"25/55"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"2339f15c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273809523809524	"WGS"	FALSE
"13606"	"HNF1B"	6928	"mskcc.org"	"GRCh37"	"17"	36088141	36088141	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1045+3445A>G"	""	""	"ENST00000225893"	""	69	"61"	8	36	"36"	0	"HNF1B,intron_variant,,ENST00000225893,NM_001165923.1,NM_000458.2;HNF1B,intron_variant,,ENST00000561193,;HNF1B,intron_variant,,ENST00000560016,;HNF1B,intron_variant,,ENST00000427275,;HNF1B,downstream_gene_variant,,ENST00000459669,;"	"C"	"ENSG00000108753"	"ENST00000225893"	"Transcript"	"intron_variant"	"-/2976"	"-/1674"	"-/557"	""	""	""	"1"	NA	-1	"HNF1B"	"HGNC"	11630	"protein_coding"	"YES"	"CCDS11324.1"	"ENSP00000225893"	"P35680"	"Q6FHW6"	"UPI000012CA96"	"NM_001165923.1,NM_000458.2"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"233a1998-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115942028985507	"WGS"	FALSE
"13607"	"FBXL20"	84961	"mskcc.org"	"GRCh37"	"17"	37473767	37473767	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.105-13875A>C"	""	""	"ENST00000264658"	""	94	"86"	8	45	"45"	0	"FBXL20,intron_variant,,ENST00000264658,NM_032875.2;FBXL20,intron_variant,,ENST00000394294,NM_001184906.1;FBXL20,intron_variant,,ENST00000583610,;FBXL20,intron_variant,,ENST00000577399,;"	"G"	"ENSG00000108306"	"ENST00000264658"	"Transcript"	"intron_variant"	"-/2445"	"-/1311"	"-/436"	""	""	""	"1"	NA	-1	"FBXL20"	"HGNC"	24679	"protein_coding"	"YES"	"CCDS32640.1"	"ENSP00000264658"	"Q96IG2"	""	"UPI000000D932"	"NM_032875.2"	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"233ab43e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"13608"	"DHX58"	79132	"mskcc.org"	"GRCh37"	"17"	40264254	40264254	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-94-31C>G"	""	""	"ENST00000251642"	""	84	"79"	5	51	"51"	0	"DHX58,5_prime_UTR_variant,,ENST00000413196,;DHX58,intron_variant,,ENST00000251642,NM_024119.2;DHX58,intron_variant,,ENST00000430773,;DHX58,intron_variant,,ENST00000591220,;KAT2A,downstream_gene_variant,,ENST00000225916,NM_021078.2;DHX58,intron_variant,,ENST00000586522,;KAT2A,downstream_gene_variant,,ENST00000465682,;KAT2A,downstream_gene_variant,,ENST00000586972,;DHX58,upstream_gene_variant,,ENST00000590637,;KAT2A,downstream_gene_variant,,ENST00000592310,;KAT2A,downstream_gene_variant,,ENST00000588759,;"	"C"	"ENSG00000108771"	"ENST00000251642"	"Transcript"	"intron_variant"	"-/2617"	"-/2037"	"-/678"	""	""	""	"1"	NA	-1	"DHX58"	"HGNC"	29517	"protein_coding"	"YES"	"CCDS11416.1"	"ENSP00000251642"	"Q96C10"	"K7EMZ5,C9JG98,C9JE76"	"UPI000006ED88"	"NM_024119.2"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"233be4d0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0595238095238095	"WGS"	FALSE
"13609"	"ATP6V0A1"	535	"mskcc.org"	"GRCh37"	"17"	40649822	40649822	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1582-1120A>G"	""	""	"ENST00000264649"	""	108	"99"	9	44	"44"	0	"ATP6V0A1,intron_variant,,ENST00000343619,NM_001130021.1;ATP6V0A1,intron_variant,,ENST00000264649,NM_001130020.1,NM_005177.3;ATP6V0A1,intron_variant,,ENST00000544137,;ATP6V0A1,intron_variant,,ENST00000546249,;ATP6V0A1,intron_variant,,ENST00000393829,;ATP6V0A1,intron_variant,,ENST00000537728,;ATP6V0A1,intron_variant,,ENST00000585525,;ATP6V0A1,upstream_gene_variant,,ENST00000586201,;ATP6V0A1,upstream_gene_variant,,ENST00000588138,;MIR548AT,downstream_gene_variant,,ENST00000578714,;RP11-194N12.2,downstream_gene_variant,,ENST00000591343,;ATP6V0A1,upstream_gene_variant,,ENST00000587510,;ATP6V0A1,downstream_gene_variant,,ENST00000586315,;"	"G"	"ENSG00000033627"	"ENST00000264649"	"Transcript"	"intron_variant"	"-/4110"	"-/2517"	"-/838"	""	""	""	"1"	NA	1	"ATP6V0A1"	"HGNC"	865	"protein_coding"	"YES"	"CCDS45683.1"	"ENSP00000264649"	"Q93050"	"K7EM24,K7ELZ6"	"UPI0000E59F9E"	"NM_001130020.1,NM_005177.3"	""	""	""	"14/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"233c0442-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13610"	"PSME3"	10197	"mskcc.org"	"GRCh37"	"17"	40992184	40992184	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.723+787T>C"	""	""	"ENST00000293362"	""	81	"71"	10	53	"53"	0	"PSME3,intron_variant,,ENST00000293362,NM_176863.2,NM_005789.3;PSME3,intron_variant,,ENST00000545225,;PSME3,intron_variant,,ENST00000441946,;PSME3,intron_variant,,ENST00000541124,NM_001267045.1;PSME3,intron_variant,,ENST00000590720,;PSME3,intron_variant,,ENST00000592169,;AOC2,upstream_gene_variant,,ENST00000253799,NM_009590.2;AOC2,upstream_gene_variant,,ENST00000452774,NM_001158.3;PSME3,downstream_gene_variant,,ENST00000585805,;PSME3,downstream_gene_variant,,ENST00000591152,;PSME3,downstream_gene_variant,,ENST00000589469,;PSME3,downstream_gene_variant,,ENST00000586114,;PSME3,intron_variant,,ENST00000543428,;PSME3,downstream_gene_variant,,ENST00000586312,;PSME3,downstream_gene_variant,,ENST00000593111,;PSME3,downstream_gene_variant,,ENST00000591722,;"	"C"	"ENSG00000131467"	"ENST00000293362"	"Transcript"	"intron_variant"	"-/3144"	"-/804"	"-/267"	""	""	""	"1"	NA	1	"PSME3"	"HGNC"	9570	"protein_coding"	"YES"	"CCDS11442.1"	"ENSP00000293362"	"P61289"	""	"UPI000002B1BA"	"NM_176863.2,NM_005789.3"	""	""	""	"10/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"233c2576-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123456790123457	"WGS"	FALSE
"13611"	"RNU6-470P"	0	"mskcc.org"	"GRCh37"	"17"	41491113	41491113	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000515954"	""	82	"73"	9	36	"36"	0	"RNU6-470P,downstream_gene_variant,,ENST00000515954,;"	"C"	"ENSG00000251763"	"ENST00000515954"	"Transcript"	"downstream_gene_variant"	"-/104"	""	""	""	""	""	"1"	"1215"	1	"RNU6-470P"	"HGNC"	47433	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"233c59ec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109756097560976	"WGS"	FALSE
"13612"	"RP11-392O1.4"	0	"mskcc.org"	"GRCh37"	"17"	41667306	41667306	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.32-150A>G"	""	""	"ENST00000588996"	""	84	"75"	9	48	"48"	0	"RP11-392O1.4,intron_variant,,ENST00000588996,;"	"G"	"ENSG00000267747"	"ENST00000588996"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/561"	""	""	""	""	""	"1"	NA	1	"RP11-392O1.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"233c6cfc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"13613"	"RP11-392O1.4"	0	"mskcc.org"	"GRCh37"	"17"	41690602	41690602	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000588996"	""	87	"76"	11	45	"45"	0	"RP11-392O1.4,downstream_gene_variant,,ENST00000588996,;"	"C"	"ENSG00000267747"	"ENST00000588996"	"Transcript"	"downstream_gene_variant"	"-/561"	""	""	""	""	""	"1"	"2896"	1	"RP11-392O1.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"233c71ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126436781609195	"WGS"	FALSE
"13614"	"GPATCH8"	23131	"mskcc.org"	"GRCh37"	"17"	42519041	42519041	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.194-5128T>C"	""	""	"ENST00000591680"	""	68	"59"	9	27	"27"	0	"GPATCH8,intron_variant,,ENST00000434000,;GPATCH8,intron_variant,,ENST00000591680,NM_001002909.2;GPATCH8,intron_variant,,ENST00000585614,;GPATCH8,intron_variant,,ENST00000586265,;GPATCH8,intron_variant,,ENST00000335500,;GPATCH8,intron_variant,,ENST00000587228,;GPATCH8,intron_variant,,ENST00000590041,;GPATCH8,intron_variant,,ENST00000592746,;GPATCH8,intron_variant,,ENST00000586037,;"	"G"	"ENSG00000186566"	"ENST00000591680"	"Transcript"	"intron_variant"	"-/4692"	"-/4509"	"-/1502"	""	""	""	"1"	NA	-1	"GPATCH8"	"HGNC"	29066	"protein_coding"	"YES"	"CCDS32666.1"	"ENSP00000467556"	"Q9UKJ3"	""	"UPI0000237985"	"NM_001002909.2"	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"233cc9c2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.132352941176471	"WGS"	FALSE
"13615"	"ADAM11"	4185	"mskcc.org"	"GRCh37"	"17"	42860784	42860784	"+"	"3'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000200557"	""	98	"65"	33	49	"49"	0	"ADAM11,downstream_gene_variant,,ENST00000200557,NM_002390.4;ADAM11,downstream_gene_variant,,ENST00000535346,;ADAM11,downstream_gene_variant,,ENST00000355638,;ADAM11,downstream_gene_variant,,ENST00000587773,;"	"T"	"ENSG00000073670"	"ENST00000200557"	"Transcript"	"downstream_gene_variant"	"-/4571"	"-/2310"	"-/769"	""	""	""	"1"	"1570"	1	"ADAM11"	"HGNC"	189	"protein_coding"	"YES"	"CCDS11486.1"	"ENSP00000200557"	"O75078"	""	"UPI000013C629"	"NM_002390.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"233cedd0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336734693877551	"WGS"	FALSE
"13616"	"GJC1"	10052	"mskcc.org"	"GRCh37"	"17"	42876771	42876771	"+"	"3'UTR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*5224T>C"	""	""	"ENST00000426548"	"3/3"	57	"51"	6	37	"37"	0	"GJC1,3_prime_UTR_variant,,ENST00000426548,NM_001080383.1,NM_005497.3;GJC1,3_prime_UTR_variant,,ENST00000587113,;GJC1,downstream_gene_variant,,ENST00000330514,;GJC1,downstream_gene_variant,,ENST00000592524,;GJC1,downstream_gene_variant,,ENST00000590758,;GJC1,downstream_gene_variant,,ENST00000586347,;CTC-296K1.4,upstream_gene_variant,,ENST00000591137,;CTC-296K1.3,downstream_gene_variant,,ENST00000585620,;"	"G"	"ENSG00000182963"	"ENST00000426548"	"Transcript"	"3_prime_UTR_variant"	"6685/7640"	"-/1191"	"-/396"	""	""	""	"1"	NA	-1	"GJC1"	"HGNC"	4280	"protein_coding"	"YES"	"CCDS11487.1"	"ENSP00000411528"	"P36383"	"Q5H9P2,K7EQ14,K7ENT9,K7EM78"	"UPI000013C62A"	"NM_001080383.1,NM_005497.3"	""	""	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"233cf014-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"13617"	"GJC1"	10052	"mskcc.org"	"GRCh37"	"17"	42899880	42899880	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-97+8126T>C"	""	""	"ENST00000426548"	""	90	"83"	7	44	"44"	0	"GJC1,intron_variant,,ENST00000426548,NM_001080383.1,NM_005497.3;GJC1,intron_variant,,ENST00000592524,;GJC1,intron_variant,,ENST00000590758,;GJC1,intron_variant,,ENST00000591424,;GJC1,intron_variant,,ENST00000586267,;"	"G"	"ENSG00000182963"	"ENST00000426548"	"Transcript"	"intron_variant"	"-/7640"	"-/1191"	"-/396"	""	""	""	"1"	NA	-1	"GJC1"	"HGNC"	4280	"protein_coding"	"YES"	"CCDS11487.1"	"ENSP00000411528"	"P36383"	"Q5H9P2,K7EQ14,K7ENT9,K7EM78"	"UPI000013C62A"	"NM_001080383.1,NM_005497.3"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"233cf21c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0777777777777778	"WGS"	FALSE
"13618"	"GJC1"	10052	"mskcc.org"	"GRCh37"	"17"	42899894	42899894	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"rs182451419"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-97+8112A>G"	""	""	"ENST00000426548"	""	84	"77"	7	45	"45"	0	"GJC1,intron_variant,,ENST00000426548,NM_001080383.1,NM_005497.3;GJC1,intron_variant,,ENST00000592524,;GJC1,intron_variant,,ENST00000590758,;GJC1,intron_variant,,ENST00000591424,;GJC1,intron_variant,,ENST00000586267,;"	"C"	"ENSG00000182963"	"ENST00000426548"	"Transcript"	"intron_variant"	"-/7640"	"-/1191"	"-/396"	""	""	"rs182451419"	"1"	NA	-1	"GJC1"	"HGNC"	4280	"protein_coding"	"YES"	"CCDS11487.1"	"ENSP00000411528"	"P36383"	"Q5H9P2,K7EQ14,K7ENT9,K7EM78"	"UPI000013C62A"	"NM_001080383.1,NM_005497.3"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"233cf2c6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13619"	"CTD-2534I21.9"	0	"mskcc.org"	"GRCh37"	"17"	43063640	43063640	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000593177"	""	67	"59"	8	43	"43"	0	"CTD-2534I21.9,downstream_gene_variant,,ENST00000593177,;"	"C"	"ENSG00000267788"	"ENST00000593177"	"Transcript"	"downstream_gene_variant"	"-/259"	""	""	""	""	""	"1"	"3500"	1	"CTD-2534I21.9"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"233d0f0e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119402985074627	"WGS"	FALSE
"13620"	"HEXIM2"	124790	"mskcc.org"	"GRCh37"	"17"	43243606	43243606	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67-2776T>C"	""	""	"ENST00000307275"	""	86	"76"	10	52	"52"	0	"HEXIM2,intron_variant,,ENST00000307275,NM_144608.1;HEXIM2,intron_variant,,ENST00000592695,;HEXIM2,intron_variant,,ENST00000591576,;HEXIM2,intron_variant,,ENST00000585340,;HEXIM2,intron_variant,,ENST00000589230,;HEXIM2,intron_variant,,ENST00000586681,;HEXIM2,intron_variant,,ENST00000593138,;HEXIM2,intron_variant,,ENST00000591070,;RP13-890H12.2,downstream_gene_variant,,ENST00000589796,;AC002117.1,upstream_gene_variant,,ENST00000589950,;RP13-890H12.2,downstream_gene_variant,,ENST00000589451,;"	"C"	"ENSG00000168517"	"ENST00000307275"	"Transcript"	"intron_variant"	"-/1528"	"-/861"	"-/286"	""	""	""	"1"	NA	1	"HEXIM2"	"HGNC"	28591	"protein_coding"	"YES"	"CCDS11496.1"	"ENSP00000302276"	"Q96MH2"	"K7ESM2,K7ELS4,K7EJA3,K7EIM4"	"UPI00000730EA"	"NM_144608.1"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"233d2f66-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116279069767442	"WGS"	FALSE
"13621"	"MAPT"	4137	"mskcc.org"	"GRCh37"	"17"	44029670	44029670	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17-10017G>A"	""	""	"ENST00000344290"	""	78	"49"	29	45	"45"	0	"MAPT,intron_variant,,ENST00000344290,NM_001123066.3;MAPT,intron_variant,,ENST00000262410,NM_016835.4;MAPT,intron_variant,,ENST00000351559,NM_005910.5;MAPT,intron_variant,,ENST00000340799,NM_001123067.3,NM_016834.4;MAPT,intron_variant,,ENST00000535772,NM_001203252.1,NM_001203251.1;MAPT,intron_variant,,ENST00000347967,;MAPT,intron_variant,,ENST00000446361,;MAPT,intron_variant,,ENST00000334239,NM_016841.4;MAPT,intron_variant,,ENST00000570299,;MAPT,intron_variant,,ENST00000571311,;"	"A"	"ENSG00000186868"	"ENST00000344290"	"Transcript"	"intron_variant"	"-/6816"	"-/2331"	"-/776"	""	""	""	"1"	NA	1	"MAPT"	"HGNC"	6893	"protein_coding"	"YES"	"CCDS45715.1"	"ENSP00000340820"	"P10636"	""	"UPI0001AE66E9"	"NM_001123066.3"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"233d8e70-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.371794871794872	"WGS"	FALSE
"13622"	"CDC27"	996	"mskcc.org"	"GRCh37"	"17"	45270758	45270758	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000531206"	""	94	"87"	7	42	"42"	0	"CDC27,upstream_gene_variant,,ENST00000066544,NM_001256.3,NM_001114091.1;CDC27,upstream_gene_variant,,ENST00000531206,;CDC27,upstream_gene_variant,,ENST00000527547,;CDC27,upstream_gene_variant,,ENST00000446365,;CDC27,upstream_gene_variant,,ENST00000575483,;CDC27,upstream_gene_variant,,ENST00000528748,;CDC27,upstream_gene_variant,,ENST00000532575,;CDC27,upstream_gene_variant,,ENST00000533415,;CDC27,upstream_gene_variant,,ENST00000525495,;CDC27,upstream_gene_variant,,ENST00000526866,;CDC27,upstream_gene_variant,,ENST00000532893,;CDC27,upstream_gene_variant,,ENST00000528147,;"	"C"	"ENSG00000004897"	"ENST00000531206"	"Transcript"	"upstream_gene_variant"	"-/3177"	"-/2493"	"-/830"	""	""	""	"1"	"4216"	-1	"CDC27"	"HGNC"	1728	"protein_coding"	"YES"	"CCDS45720.1"	"ENSP00000434614"	"P30260"	"I0EZ72,I0EZ68"	"UPI0000E59FE6"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"233e2b3c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.074468085106383	"WGS"	FALSE
"13623"	"RP11-6N17.2"	0	"mskcc.org"	"GRCh37"	"17"	45963947	45963947	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"rs543922556"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000580282"	""	99	"92"	7	55	"55"	0	"RP11-6N17.2,upstream_gene_variant,,ENST00000580282,;RP11-6N17.4,downstream_gene_variant,,ENST00000582787,;RP11-6N17.4,downstream_gene_variant,,ENST00000577279,;"	"A"	"ENSG00000266821"	"ENST00000580282"	"Transcript"	"upstream_gene_variant"	"-/2927"	""	""	""	""	"rs543922556"	"1"	"4183"	-1	"RP11-6N17.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"A:0.0000"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"233e6872-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0707070707070707	"WGS"	FALSE
"13624"	"RP11-6N17.2"	0	"mskcc.org"	"GRCh37"	"17"	45963951	45963951	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000580282"	""	102	"95"	7	54	"54"	0	"RP11-6N17.2,upstream_gene_variant,,ENST00000580282,;RP11-6N17.4,downstream_gene_variant,,ENST00000582787,;RP11-6N17.4,downstream_gene_variant,,ENST00000577279,;"	"A"	"ENSG00000266821"	"ENST00000580282"	"Transcript"	"upstream_gene_variant"	"-/2927"	""	""	""	""	""	"1"	"4187"	-1	"RP11-6N17.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"233e6926-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0686274509803922	"WGS"	FALSE
"13625"	"RP11-6N17.10"	0	"mskcc.org"	"GRCh37"	"17"	46075277	46075277	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000578239"	""	93	"59"	34	48	"48"	0	"RP11-6N17.10,upstream_gene_variant,,ENST00000578239,;"	"T"	"ENSG00000264701"	"ENST00000578239"	"Transcript"	"upstream_gene_variant"	"-/531"	""	""	""	""	""	"1"	"1715"	-1	"RP11-6N17.10"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"233e7182-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.365591397849462	"WGS"	FALSE
"13626"	"SNX11"	29916	"mskcc.org"	"GRCh37"	"17"	46181857	46181857	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000393405"	""	76	"70"	6	43	"43"	0	"SNX11,intron_variant,,ENST00000581298,;SNX11,upstream_gene_variant,,ENST00000393405,NM_152244.1;CBX1,upstream_gene_variant,,ENST00000393408,NM_006807.4;SNX11,upstream_gene_variant,,ENST00000359238,NM_013323.2;CBX1,upstream_gene_variant,,ENST00000225603,NM_001127228.1;SNX11,upstream_gene_variant,,ENST00000452859,;SNX11,upstream_gene_variant,,ENST00000439357,;SNX11,upstream_gene_variant,,ENST00000582104,;SNX11,upstream_gene_variant,,ENST00000580219,;SNX11,upstream_gene_variant,,ENST00000584335,;CBX1,upstream_gene_variant,,ENST00000581003,;CBX1,upstream_gene_variant,,ENST00000402583,;CBX1,upstream_gene_variant,,ENST00000495350,;CBX1,upstream_gene_variant,,ENST00000444685,;SNX11,upstream_gene_variant,,ENST00000578861,;SNX11,upstream_gene_variant,,ENST00000581705,;SNX11,upstream_gene_variant,,ENST00000583320,;SNX11,upstream_gene_variant,,ENST00000580875,;"	"A"	"ENSG00000002919"	"ENST00000393405"	"Transcript"	"upstream_gene_variant"	"-/2733"	"-/813"	"-/270"	""	""	""	"1"	"3063"	1	"SNX11"	"HGNC"	14975	"protein_coding"	"YES"	"CCDS11526.1"	"ENSP00000377059"	"Q9Y5W9"	"J3QRB9,J3QLV8,J3KTN6,B4DJI7"	"UPI000003E7DA"	"NM_152244.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"233e87bc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"13627"	"SNX11"	29916	"mskcc.org"	"GRCh37"	"17"	46192452	46192452	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.230+1689C>T"	""	""	"ENST00000393405"	""	73	"66"	7	23	"23"	0	"SNX11,intron_variant,,ENST00000393405,NM_152244.1;SNX11,intron_variant,,ENST00000359238,NM_013323.2;SNX11,intron_variant,,ENST00000452859,;SNX11,intron_variant,,ENST00000439357,;SNX11,intron_variant,,ENST00000582104,;SNX11,intron_variant,,ENST00000580219,;SNX11,intron_variant,,ENST00000584335,;SNX11,intron_variant,,ENST00000582481,;SNX11,intron_variant,,ENST00000581298,;SNX11,intron_variant,,ENST00000578861,;SNX11,intron_variant,,ENST00000581705,;SNX11,intron_variant,,ENST00000583320,;SNX11,downstream_gene_variant,,ENST00000580875,;SNX11,downstream_gene_variant,,ENST00000577310,;"	"T"	"ENSG00000002919"	"ENST00000393405"	"Transcript"	"intron_variant"	"-/2733"	"-/813"	"-/270"	""	""	""	"1"	NA	1	"SNX11"	"HGNC"	14975	"protein_coding"	"YES"	"CCDS11526.1"	"ENSP00000377059"	"Q9Y5W9"	"J3QRB9,J3QLV8,J3KTN6,B4DJI7"	"UPI000003E7DA"	"NM_152244.1"	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"233e89d8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"13628"	"HOXB2"	3212	"mskcc.org"	"GRCh37"	"17"	46619169	46619169	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000330070"	""	38	"33"	5	25	"25"	0	"HOXB2,downstream_gene_variant,,ENST00000330070,NM_002145.3;HOXB-AS1,upstream_gene_variant,,ENST00000435312,;HOXB-AS1,upstream_gene_variant,,ENST00000504972,;HOXB-AS1,upstream_gene_variant,,ENST00000502764,;HOXB-AS1,upstream_gene_variant,,ENST00000508688,;HOXB2,intron_variant,,ENST00000504772,;HOXB2,downstream_gene_variant,,ENST00000571287,;HOXB2,downstream_gene_variant,,ENST00000574746,;"	"G"	"ENSG00000173917"	"ENST00000330070"	"Transcript"	"downstream_gene_variant"	"-/2652"	"-/1071"	"-/356"	""	""	""	"1"	"848"	-1	"HOXB2"	"HGNC"	5113	"protein_coding"	"YES"	"CCDS11527.1"	"ENSP00000331741"	"P14652"	"D3DTV2"	"UPI000012CF4C"	"NM_002145.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"233ea22e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WGS"	FALSE
"13629"	"CALCOCO2"	10241	"mskcc.org"	"GRCh37"	"17"	46916814	46916814	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10-2246G>C"	""	""	"ENST00000448105"	""	69	"61"	8	35	"35"	0	"CALCOCO2,5_prime_UTR_variant,,ENST00000570513,;CALCOCO2,intron_variant,,ENST00000258947,NM_001261393.1,NM_001261395.1,NM_001261390.1,NM_001261391.1,NM_005831.4;CALCOCO2,intron_variant,,ENST00000448105,;CALCOCO2,intron_variant,,ENST00000509507,;CALCOCO2,intron_variant,,ENST00000416445,;CALCOCO2,intron_variant,,ENST00000508679,;CALCOCO2,intron_variant,,ENST00000513119,;CALCOCO2,intron_variant,,ENST00000507076,;CALCOCO2,intron_variant,,ENST00000509415,;CALCOCO2,intron_variant,,ENST00000505071,;CALCOCO2,upstream_gene_variant,,ENST00000502761,;CALCOCO2,non_coding_transcript_exon_variant,,ENST00000372317,;CALCOCO2,intron_variant,,ENST00000511697,;CALCOCO2,intron_variant,,ENST00000510356,;CALCOCO2,intron_variant,,ENST00000503463,;CALCOCO2,intron_variant,,ENST00000576582,;CALCOCO2,intron_variant,,ENST00000575560,;"	"C"	"ENSG00000136436"	"ENST00000448105"	"Transcript"	"intron_variant"	"-/1916"	"-/1413"	"-/470"	""	""	""	"1"	NA	1	"CALCOCO2"	"HGNC"	29912	"protein_coding"	"YES"	"CCDS58559.1"	"ENSP00000398523"	"Q13137"	"D6REB0,D6RBF9"	"UPI00017A7779"	""	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"233ec484-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115942028985507	"WGS"	FALSE
"13630"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	47933567	47933567	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"87"	6	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"233f3c98-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"13631"	"ABCC3"	8714	"mskcc.org"	"GRCh37"	"17"	48710168	48710168	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000285238"	""	91	"54"	37	43	"43"	0	"ABCC3,upstream_gene_variant,,ENST00000285238,NM_003786.3;ABCC3,upstream_gene_variant,,ENST00000427699,NM_001144070.1;ABCC3,upstream_gene_variant,,ENST00000515707,;CTB-22K21.2,upstream_gene_variant,,ENST00000502435,;ABCC3,upstream_gene_variant,,ENST00000502426,;ABCC3,upstream_gene_variant,,ENST00000505699,;ABCC3,upstream_gene_variant,,ENST00000513511,;"	"T"	"ENSG00000108846"	"ENST00000285238"	"Transcript"	"upstream_gene_variant"	"-/5716"	"-/4584"	"-/1527"	""	""	""	"1"	"2050"	1	"ABCC3"	"HGNC"	54	"protein_coding"	"YES"	"CCDS32681.1"	"ENSP00000285238"	"O15438"	"Q96QA9,Q2M3C9"	"UPI000004B145"	"NM_003786.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"233f7b40-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.406593406593407	"WGS"	FALSE
"13632"	"RP11-515E23.1"	0	"mskcc.org"	"GRCh37"	"17"	53571127	53571127	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs189539888"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.61-14953G>A"	""	""	"ENST00000577089"	""	61	"31"	30	39	"39"	0	"RP11-515E23.1,intron_variant,,ENST00000577089,;"	"T"	"ENSG00000261873"	"ENST00000577089"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/566"	""	""	""	""	"rs189539888"	"1"	NA	-1	"RP11-515E23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	"T:0.0016"	"T:0"	"T:0"	NA	"T:0.0069"	"T:0"	"T:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"23404ea8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.491803278688525	"WGS"	FALSE
"13633"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	54024653	54024653	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"62"	5	32	"32"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"2340655a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0746268656716418	"WGS"	FALSE
"13634"	"ANKFN1"	162282	"mskcc.org"	"GRCh37"	"17"	54412525	54412525	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.197+8809C>A"	""	""	"ENST00000318698"	""	78	"51"	27	50	"50"	0	"ANKFN1,intron_variant,,ENST00000566473,;ANKFN1,intron_variant,,ENST00000318698,NM_153228.2;ANKFN1,intron_variant,,ENST00000572945,;"	"A"	"ENSG00000153930"	"ENST00000318698"	"Transcript"	"intron_variant"	"-/2426"	"-/2292"	"-/763"	""	""	""	"1"	NA	1	"ANKFN1"	"HGNC"	26766	"protein_coding"	"YES"	"CCDS32686.1"	"ENSP00000321627"	"Q8N957"	""	"UPI000049DE57"	"NM_153228.2"	""	""	""	"3/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"23408774-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"13635"	"C17orf67"	339210	"mskcc.org"	"GRCh37"	"17"	54888883	54888883	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.156+3347C>T"	""	""	"ENST00000397861"	""	95	"75"	20	42	"42"	0	"C17orf67,intron_variant,,ENST00000397861,;C17orf67,intron_variant,,ENST00000575658,NM_001085430.2;C17orf67,intron_variant,,ENST00000397862,;"	"A"	"ENSG00000214226"	"ENST00000397861"	"Transcript"	"intron_variant"	"-/2013"	"-/273"	"-/90"	""	""	""	"1"	NA	-1	"C17orf67"	"HGNC"	27900	"protein_coding"	"YES"	"CCDS42364.2"	"ENSP00000380959"	"Q0P5P2"	""	"UPI000015F12E"	""	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"2340b80c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"13636"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	55111423	55111423	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"76"	7	36	"36"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"2340cafe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"13637"	"TEX14"	56155	"mskcc.org"	"GRCh37"	"17"	56743329	56743329	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1-13966G>C"	""	""	"ENST00000240361"	""	90	"84"	6	33	"33"	0	"TEX14,intron_variant,,ENST00000389934,NM_198393.3,NM_001201457.1;TEX14,intron_variant,,ENST00000240361,;TEX14,intron_variant,,ENST00000349033,NM_031272.4;RNU1-108P,downstream_gene_variant,,ENST00000362556,;TEX14,intron_variant,,ENST00000582740,;CTD-2200P10.1,upstream_gene_variant,,ENST00000583666,;"	"G"	"ENSG00000121101"	"ENST00000240361"	"Transcript"	"intron_variant"	"-/4911"	"-/4494"	"-/1497"	""	""	""	"1"	NA	-1	"TEX14"	"HGNC"	11737	"protein_coding"	"YES"	"CCDS56042.1"	"ENSP00000240361"	"Q8IWB6"	""	"UPI0000DAC9CA"	""	""	""	""	"1/32"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"23412968-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"13638"	"VMP1"	81671	"mskcc.org"	"GRCh37"	"17"	57901909	57901909	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.974+6775C>G"	""	""	"ENST00000262291"	""	70	"64"	6	32	"32"	0	"VMP1,intron_variant,,ENST00000262291,NM_030938.3;VMP1,intron_variant,,ENST00000539763,;VMP1,intron_variant,,ENST00000537567,;VMP1,intron_variant,,ENST00000545362,;VMP1,intron_variant,,ENST00000536180,;VMP1,intron_variant,,ENST00000591877,;VMP1,intron_variant,,ENST00000592619,;"	"G"	"ENSG00000062716"	"ENST00000262291"	"Transcript"	"intron_variant"	"-/2712"	"-/1221"	"-/406"	""	""	""	"1"	NA	1	"VMP1"	"HGNC"	29559	"protein_coding"	"YES"	"CCDS11619.1"	"ENSP00000262291"	"Q96GC9"	"K7ENU2,K7EMI0,K7EM96,K7EK01,D3DU01,B4DVV9"	"UPI0000037791"	"NM_030938.3"	""	""	""	"10/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"234195f6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"13639"	"TUBD1"	51174	"mskcc.org"	"GRCh37"	"17"	57946353	57946353	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.935-2243T>C"	""	""	"ENST00000325752"	""	78	"71"	7	56	"56"	0	"TUBD1,intron_variant,,ENST00000325752,NM_016261.3;TUBD1,intron_variant,,ENST00000340993,NM_001193612.1,NM_001193609.1;TUBD1,intron_variant,,ENST00000394239,NM_001193610.1;TUBD1,intron_variant,,ENST00000346141,;TUBD1,intron_variant,,ENST00000592426,;TUBD1,intron_variant,,ENST00000376094,NM_001193611.1;TUBD1,intron_variant,,ENST00000539018,NM_001193613.1;TUBD1,intron_variant,,ENST00000591548,;TUBD1,intron_variant,,ENST00000588009,;TUBD1,intron_variant,,ENST00000593110,;"	"G"	"ENSG00000108423"	"ENST00000325752"	"Transcript"	"intron_variant"	"-/2472"	"-/1362"	"-/453"	""	""	""	"1"	NA	-1	"TUBD1"	"HGNC"	16811	"protein_coding"	"YES"	"CCDS11620.1"	"ENSP00000320797"	"Q9UJT1"	"K7EMW6,K7EKE2"	"UPI000013D7FA"	"NM_016261.3"	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"23419e52-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"13640"	"BCAS3"	54828	"mskcc.org"	"GRCh37"	"17"	59406732	59406732	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2471-38956C>T"	""	""	"ENST00000390652"	""	61	"55"	6	36	"36"	0	"BCAS3,intron_variant,,ENST00000589222,;BCAS3,intron_variant,,ENST00000588462,;BCAS3,intron_variant,,ENST00000390652,NM_001099432.1;BCAS3,intron_variant,,ENST00000408905,;BCAS3,intron_variant,,ENST00000407086,NM_017679.3;BCAS3,intron_variant,,ENST00000588874,;BCAS3,intron_variant,,ENST00000585744,;BCAS3,intron_variant,,ENST00000587002,;BCAS3,intron_variant,,ENST00000585812,;BCAS3,intron_variant,,ENST00000592702,;BCAS3,intron_variant,,ENST00000587294,;BCAS3,intron_variant,,ENST00000585979,;BCAS3,intron_variant,,ENST00000588569,;"	"T"	"ENSG00000141376"	"ENST00000390652"	"Transcript"	"intron_variant"	"-/3531"	"-/2787"	"-/928"	""	""	""	"1"	NA	1	"BCAS3"	"HGNC"	14347	"protein_coding"	"YES"	"CCDS45749.1"	"ENSP00000375067"	"Q9H6U6"	"K7ESE9,K7EML5,K7EKB0,K7EJU7,K7EJH7"	"UPI00001AE949"	"NM_001099432.1"	""	""	""	"23/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"23421756-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0983606557377049	"WGS"	FALSE
"13641"	"CEP112"	201134	"mskcc.org"	"GRCh37"	"17"	64160811	64160811	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.470+10351A>G"	""	""	"ENST00000392769"	""	97	"88"	9	47	"47"	0	"CEP112,intron_variant,,ENST00000392769,NM_145036.3;CEP112,intron_variant,,ENST00000535342,NM_001199165.1;CEP112,intron_variant,,ENST00000537949,;CEP112,intron_variant,,ENST00000583358,;"	"C"	"ENSG00000154240"	"ENST00000392769"	"Transcript"	"intron_variant"	"-/3517"	"-/2868"	"-/955"	""	""	""	"1"	NA	-1	"CEP112"	"HGNC"	28514	"protein_coding"	"YES"	"CCDS32710.1"	"ENSP00000376522"	"Q8N8E3"	"J3QQV3"	"UPI0000603C26"	"NM_145036.3"	""	""	""	"4/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"2343a8f0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0927835051546392	"WGS"	FALSE
"13642"	"PRKCA"	5578	"mskcc.org"	"GRCh37"	"17"	64496421	64496421	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.288+4020A>T"	""	""	"ENST00000413366"	""	70	"48"	22	56	"56"	0	"PRKCA,intron_variant,,ENST00000413366,NM_002737.2;PRKCA,intron_variant,,ENST00000284384,;PRKCA,intron_variant,,ENST00000578063,;"	"T"	"ENSG00000154229"	"ENST00000413366"	"Transcript"	"intron_variant"	"-/8751"	"-/2019"	"-/672"	""	""	""	"1"	NA	1	"PRKCA"	"HGNC"	9393	"protein_coding"	"YES"	"CCDS11664.1"	"ENSP00000408695"	"P17252"	"L7RSM7"	"UPI000013DD98"	"NM_002737.2"	""	""	""	"3/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"2343c48e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314285714285714	"WGS"	FALSE
"13643"	"PRKCA"	5578	"mskcc.org"	"GRCh37"	"17"	64746394	64746394	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1524+7516A>G"	""	""	"ENST00000413366"	""	65	"40"	25	46	"46"	0	"PRKCA,intron_variant,,ENST00000413366,NM_002737.2;PRKCA,intron_variant,,ENST00000284384,;"	"G"	"ENSG00000154229"	"ENST00000413366"	"Transcript"	"intron_variant"	"-/8751"	"-/2019"	"-/672"	""	""	""	"1"	NA	1	"PRKCA"	"HGNC"	9393	"protein_coding"	"YES"	"CCDS11664.1"	"ENSP00000408695"	"P17252"	"L7RSM7"	"UPI000013DD98"	"NM_002737.2"	""	""	""	"13/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"2343cf06-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WGS"	FALSE
"13644"	"BPTF"	2186	"mskcc.org"	"GRCh37"	"17"	65929961	65929961	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6259+1826A>G"	""	""	"ENST00000306378"	""	93	"87"	6	33	"33"	0	"BPTF,intron_variant,,ENST00000321892,;BPTF,intron_variant,,ENST00000335221,NM_004459.6;BPTF,intron_variant,,ENST00000306378,NM_182641.3;BPTF,intron_variant,,ENST00000424123,;BPTF,intron_variant,,ENST00000544778,;BPTF,intron_variant,,ENST00000582467,;BPTF,upstream_gene_variant,,ENST00000577770,;"	"G"	"ENSG00000171634"	"ENST00000306378"	"Transcript"	"intron_variant"	"-/9688"	"-/8763"	"-/2920"	""	""	""	"1"	NA	1	"BPTF"	"HGNC"	3581	"protein_coding"	"YES"	"CCDS11673.1"	"ENSP00000307208"	"Q12830"	""	"UPI00002263BF"	"NM_182641.3"	""	""	""	"18/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"2344b862-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"13645"	"LRRC37A16P"	0	"mskcc.org"	"GRCh37"	"17"	66117226	66117226	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000586022"	""	55	"50"	5	29	"29"	0	"LRRC37A16P,downstream_gene_variant,,ENST00000586022,;"	"A"	"ENSG00000267023"	"ENST00000586022"	"Transcript"	"downstream_gene_variant"	"-/3725"	""	""	""	""	""	"1"	"4692"	-1	"LRRC37A16P"	"HGNC"	43820	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"2344d626-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"13646"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	69608156	69608156	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"51"	35	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"2345a04c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.406976744186047	"WGS"	FALSE
"13647"	"SDK2"	54549	"mskcc.org"	"GRCh37"	"17"	71576071	71576071	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.64+64093G>A"	""	""	"ENST00000392650"	""	69	"62"	7	33	"33"	0	"SDK2,intron_variant,,ENST00000392650,NM_001144952.1;SDK2,intron_variant,,ENST00000388726,;"	"T"	"ENSG00000069188"	"ENST00000392650"	"Transcript"	"intron_variant"	"-/10723"	"-/6519"	"-/2172"	""	""	""	"1"	NA	-1	"SDK2"	"HGNC"	19308	"protein_coding"	"YES"	"CCDS45769.1"	"ENSP00000376421"	"Q58EX2"	""	"UPI0000E5A088"	"NM_001144952.1"	""	""	""	"1/44"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"234617a2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101449275362319	"WGS"	FALSE
"13648"	"SLC9A3R1"	9368	"mskcc.org"	"GRCh37"	"17"	72752663	72752663	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.442-5488C>T"	""	""	"ENST00000262613"	""	89	"82"	7	47	"47"	0	"SLC9A3R1,intron_variant,,ENST00000262613,NM_004252.4;SLC9A3R1,intron_variant,,ENST00000583369,;"	"T"	"ENSG00000109062"	"ENST00000262613"	"Transcript"	"intron_variant"	"-/1969"	"-/1077"	"-/358"	""	""	""	"1"	NA	1	"SLC9A3R1"	"HGNC"	11075	"protein_coding"	"YES"	"CCDS11705.1"	"ENSP00000262613"	"O14745"	"B3KY21"	"UPI0000072521"	"NM_004252.4"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"2346841c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	FALSE
"13649"	"HN1"	51155	"mskcc.org"	"GRCh37"	"17"	73152657	73152657	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000356033"	""	49	"44"	5	15	"15"	0	"HN1,intron_variant,,ENST00000580380,;HN1,upstream_gene_variant,,ENST00000476258,NM_001288609.1;HN1,upstream_gene_variant,,ENST00000405458,NM_001002033.1;HN1,upstream_gene_variant,,ENST00000482348,NM_001288610.1;HN1,upstream_gene_variant,,ENST00000409753,NM_016185.2,NM_001288611.1;HN1,upstream_gene_variant,,ENST00000356033,NM_001002032.1;HN1,upstream_gene_variant,,ENST00000470924,;HN1,upstream_gene_variant,,ENST00000392566,;HN1,upstream_gene_variant,,ENST00000481647,;HN1,upstream_gene_variant,,ENST00000581874,;HN1,intron_variant,,ENST00000584079,;HN1,upstream_gene_variant,,ENST00000465454,;HN1,upstream_gene_variant,,ENST00000304834,;"	"A"	"ENSG00000189159"	"ENST00000356033"	"Transcript"	"upstream_gene_variant"	"-/1519"	"-/546"	"-/181"	""	""	""	"1"	"1887"	-1	"HN1"	"HGNC"	14569	"protein_coding"	"YES"	"CCDS32729.1"	"ENSP00000348316"	"Q9UK76"	""	"UPI00001B2206"	"NM_001002032.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"2346b874-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WGS"	FALSE
"13650"	"NUP85"	79902	"mskcc.org"	"GRCh37"	"17"	73198710	73198710	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000245544"	""	73	"66"	7	31	"31"	0	"NUP85,upstream_gene_variant,,ENST00000447371,;NUP85,upstream_gene_variant,,ENST00000245544,NM_024844.3;NUP85,upstream_gene_variant,,ENST00000541827,;NUP85,upstream_gene_variant,,ENST00000579324,;NUP85,upstream_gene_variant,,ENST00000579298,;NUP85,upstream_gene_variant,,ENST00000583569,;NUP85,upstream_gene_variant,,ENST00000449421,;NUP85,upstream_gene_variant,,ENST00000583948,;NUP85,upstream_gene_variant,,ENST00000577208,;NUP85,upstream_gene_variant,,ENST00000583548,;NUP85,upstream_gene_variant,,ENST00000582833,;NUP85,upstream_gene_variant,,ENST00000581104,;"	"C"	"ENSG00000125450"	"ENST00000245544"	"Transcript"	"upstream_gene_variant"	"-/2121"	"-/1971"	"-/656"	""	""	""	"1"	"3076"	1	"NUP85"	"HGNC"	8734	"protein_coding"	"YES"	"CCDS32730.1"	"ENSP00000245544"	"Q9BW27"	"J3QL54,J3KSH3,F5H0W7,B4DMQ3"	"UPI00000735DC"	"NM_024844.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"2346cc9c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"13651"	"SLC25A19"	60386	"mskcc.org"	"GRCh37"	"17"	73272623	73272623	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.774+811T>C"	""	""	"ENST00000402418"	""	36	"29"	7	19	"19"	0	"SLC25A19,intron_variant,,ENST00000402418,;SLC25A19,intron_variant,,ENST00000320362,;SLC25A19,intron_variant,,ENST00000416858,NM_001126121.1;SLC25A19,intron_variant,,ENST00000580994,NM_021734.4;SLC25A19,intron_variant,,ENST00000442286,NM_001126122.1;SLC25A19,intron_variant,,ENST00000375261,;SLC25A19,intron_variant,,ENST00000583332,;SLC25A19,intron_variant,,ENST00000582822,;SLC25A19,downstream_gene_variant,,ENST00000580273,;RP11-649A18.12,downstream_gene_variant,,ENST00000585075,;RP11-649A18.12,downstream_gene_variant,,ENST00000582668,;"	"G"	"ENSG00000125454"	"ENST00000402418"	"Transcript"	"intron_variant"	"-/2331"	"-/963"	"-/320"	""	""	""	"1"	NA	-1	"SLC25A19"	"HGNC"	14409	"protein_coding"	"YES"	"CCDS11720.1"	"ENSP00000385312"	"Q9HC21"	"Q5JPC1,J3QS02,J3QLV3,J3QL84,J3KTL0,J3KSI7,J3KS44"	"UPI000012963A"	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"2346da84-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194444444444444	"WGS"	FALSE
"13652"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	73709951	73709951	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"66"	8	28	"28"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"2347159e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"13653"	"AC015815.5"	0	"mskcc.org"	"GRCh37"	"17"	75071847	75071847	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"rs536931970"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366146"	""	63	"54"	9	32	"32"	0	"AC015815.5,downstream_gene_variant,,ENST00000366146,;"	"T"	"ENSG00000203318"	"ENST00000366146"	"Transcript"	"downstream_gene_variant"	"-/132"	""	""	""	""	"rs536931970"	"1"	"4871"	-1	"AC015815.5"	"Clone_based_ensembl_gene"	NA	"pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"2347a324-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"13654"	"AC015815.5"	0	"mskcc.org"	"GRCh37"	"17"	75076906	75076906	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366146"	""	87	"78"	9	46	"46"	0	"AC015815.5,upstream_gene_variant,,ENST00000366146,;AC015815.4,upstream_gene_variant,,ENST00000366145,;"	"C"	"ENSG00000203318"	"ENST00000366146"	"Transcript"	"upstream_gene_variant"	"-/132"	""	""	""	""	""	"1"	"56"	-1	"AC015815.5"	"Clone_based_ensembl_gene"	NA	"pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"2347a5ea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"13655"	"RP11-13K12.1"	100507351	"mskcc.org"	"GRCh37"	"17"	75556385	75556385	"+"	"RNA"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2162G>A"	""	""	"ENST00000591283"	"1/3"	83	"59"	24	42	"42"	0	"RP11-13K12.1,non_coding_transcript_exon_variant,,ENST00000591283,;RP11-13K12.1,intron_variant,,ENST00000590398,;RP11-13K12.5,downstream_gene_variant,,ENST00000585798,;"	"A"	"ENSG00000267506"	"ENST00000591283"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"2162/4902"	""	""	""	""	""	"1"	NA	1	"RP11-13K12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"2347dff6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289156626506024	"WGS"	FALSE
"13656"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	75638724	75638724	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"65"	24	50	"50"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"2347ed7a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269662921348315	"WGS"	FALSE
"13657"	"RBFOX3"	146713	"mskcc.org"	"GRCh37"	"17"	77182709	77182709	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-34+49139C>T"	""	""	"ENST00000415831"	""	84	"49"	35	59	"59"	0	"RBFOX3,intron_variant,,ENST00000583458,;RBFOX3,intron_variant,,ENST00000415831,;RBFOX3,intron_variant,,ENST00000584778,;RBFOX3,intron_variant,,ENST00000453134,;RBFOX3,intron_variant,,ENST00000580155,NM_001082575.2;RBFOX3,intron_variant,,ENST00000582043,;RBFOX3,intron_variant,,ENST00000582139,;RBFOX3,upstream_gene_variant,,ENST00000580508,;"	"A"	"ENSG00000167281"	"ENST00000415831"	"Transcript"	"intron_variant"	"-/2678"	"-/939"	"-/312"	""	""	""	"1"	NA	-1	"RBFOX3"	"HGNC"	27097	"protein_coding"	"YES"	"CCDS45805.1"	"ENSP00000408395"	"A6NFN3"	""	"UPI000020041C"	""	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"2348620a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WGS"	FALSE
"13658"	"BAIAP2"	10458	"mskcc.org"	"GRCh37"	"17"	79051736	79051736	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.218-6896T>A"	""	""	"ENST00000321300"	""	63	"58"	5	25	"25"	0	"BAIAP2,intron_variant,,ENST00000321300,NM_001144888.1,NM_017451.2;BAIAP2,intron_variant,,ENST00000575712,;BAIAP2,intron_variant,,ENST00000575245,;BAIAP2,intron_variant,,ENST00000435091,NM_006340.2;BAIAP2,intron_variant,,ENST00000428708,;BAIAP2,intron_variant,,ENST00000321280,NM_017450.2;BAIAP2,intron_variant,,ENST00000392411,;BAIAP2,intron_variant,,ENST00000572073,;BAIAP2,intron_variant,,ENST00000573677,;BAIAP2,intron_variant,,ENST00000572918,;BAIAP2,intron_variant,,ENST00000571530,;BAIAP2,intron_variant,,ENST00000573659,;BAIAP2,intron_variant,,ENST00000575958,;BAIAP2,intron_variant,,ENST00000575989,;BAIAP2,intron_variant,,ENST00000573894,;BAIAP2,intron_variant,,ENST00000573017,;BAIAP2,intron_variant,,ENST00000576364,;BAIAP2,downstream_gene_variant,,ENST00000570913,;BAIAP2,intron_variant,,ENST00000572329,;BAIAP2,intron_variant,,ENST00000574804,;BAIAP2,intron_variant,,ENST00000576470,;BAIAP2,intron_variant,,ENST00000575750,;"	"A"	"ENSG00000175866"	"ENST00000321300"	"Transcript"	"intron_variant"	"-/2879"	"-/1659"	"-/552"	""	""	""	"1"	NA	1	"BAIAP2"	"HGNC"	947	"protein_coding"	"YES"	"CCDS11775.1"	"ENSP00000316338"	"Q9UQB8"	"I3L526,I3L327,I3L2M4,I3L1C8,I3L125,I3L113,I3L0Y9,I3L0M4"	"UPI000000D762"	"NM_001144888.1,NM_017451.2"	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"23495e9e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0793650793650794	"WGS"	FALSE
"13659"	"RP11-1055B8.3"	0	"mskcc.org"	"GRCh37"	"17"	79348495	79348495	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000596728"	""	76	"70"	6	48	"48"	0	"RP11-1055B8.3,downstream_gene_variant,,ENST00000596728,;RP11-1055B8.3,downstream_gene_variant,,ENST00000572077,;RP11-1055B8.2,downstream_gene_variant,,ENST00000574472,;RP11-1055B8.3,downstream_gene_variant,,ENST00000570301,;RP11-1055B8.3,downstream_gene_variant,,ENST00000574041,;RP11-1055B8.3,downstream_gene_variant,,ENST00000572301,;RP11-1055B8.3,downstream_gene_variant,,ENST00000570929,;"	"C"	"ENSG00000262223"	"ENST00000596728"	"Transcript"	"downstream_gene_variant"	"-/702"	""	""	""	""	""	"1"	"4439"	-1	"RP11-1055B8.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"23498b94-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"13660"	"P4HB"	5034	"mskcc.org"	"GRCh37"	"17"	79814801	79814801	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.353-1339A>C"	""	""	"ENST00000331483"	""	93	"86"	7	42	"42"	0	"P4HB,intron_variant,,ENST00000331483,NM_000918.3;P4HB,intron_variant,,ENST00000439918,;P4HB,intron_variant,,ENST00000576380,;P4HB,intron_variant,,ENST00000573778,;P4HB,intron_variant,,ENST00000574914,;P4HB,intron_variant,,ENST00000576541,;P4HB,intron_variant,,ENST00000576052,;P4HB,intron_variant,,ENST00000571617,;P4HB,intron_variant,,ENST00000576390,;P4HB,intron_variant,,ENST00000570907,;P4HB,intron_variant,,ENST00000472244,;P4HB,intron_variant,,ENST00000467086,;P4HB,intron_variant,,ENST00000471535,;P4HB,intron_variant,,ENST00000575069,;P4HB,intron_variant,,ENST00000574007,;P4HB,upstream_gene_variant,,ENST00000477607,;P4HB,downstream_gene_variant,,ENST00000466567,;P4HB,upstream_gene_variant,,ENST00000478034,;"	"G"	"ENSG00000185624"	"ENST00000331483"	"Transcript"	"intron_variant"	"-/2603"	"-/1527"	"-/508"	""	""	""	"1"	NA	-1	"P4HB"	"HGNC"	8548	"protein_coding"	"YES"	"CCDS11787.1"	"ENSP00000327801"	"P07237"	"B3KTQ9"	"UPI0000000CAA"	"NM_000918.3"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"2349cdb6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"13661"	"PYCR1"	5831	"mskcc.org"	"GRCh37"	"17"	79890689	79890689	"+"	"3'UTR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*401C>A"	""	""	"ENST00000329875"	"7/7"	90	"64"	26	50	"50"	0	"PYCR1,3_prime_UTR_variant,,ENST00000337943,NM_153824.1;PYCR1,3_prime_UTR_variant,,ENST00000329875,NM_006907.2,NM_001282280.1;PYCR1,3_prime_UTR_variant,,ENST00000403172,NM_001282279.1;PYCR1,downstream_gene_variant,,ENST00000402252,NM_001282281.1;PYCR1,downstream_gene_variant,,ENST00000577756,;PYCR1,downstream_gene_variant,,ENST00000584848,;PYCR1,downstream_gene_variant,,ENST00000582198,;PYCR1,downstream_gene_variant,,ENST00000405481,;PYCR1,downstream_gene_variant,,ENST00000585215,;PYCR1,downstream_gene_variant,,ENST00000579366,;PYCR1,downstream_gene_variant,,ENST00000585244,;PYCR1,downstream_gene_variant,,ENST00000579698,;PYCR1,downstream_gene_variant,,ENST00000581271,;PYCR1,downstream_gene_variant,,ENST00000577624,;PYCR1,downstream_gene_variant,,ENST00000583564,;RP11-498C9.13,intron_variant,,ENST00000583521,;MAFG-AS1,downstream_gene_variant,,ENST00000582106,;MAFG-AS1,downstream_gene_variant,,ENST00000583492,;"	"T"	"ENSG00000183010"	"ENST00000329875"	"Transcript"	"3_prime_UTR_variant"	"1426/1855"	"-/960"	"-/319"	""	""	""	"1"	NA	-1	"PYCR1"	"HGNC"	9721	"protein_coding"	"YES"	"CCDS11795.1"	"ENSP00000328858"	"P32322"	"Q8TBX0,J3QRZ0,J3QLK9,J3QL24,J3QKT4,J3QKT3,J3KTA8,J3KSA9,J3KQ22"	"UPI0000163C1F"	"NM_006907.2,NM_001282280.1"	""	""	"7/7"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"2349d8b0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288888888888889	"WGS"	FALSE
"13662"	"DCXR"	51181	"mskcc.org"	"GRCh37"	"17"	79994170	79994170	"+"	"Silent"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.528A>C"	"p.="	"p.A176A"	"ENST00000306869"	"7/8"	87	"78"	9	36	"36"	0	"DCXR,synonymous_variant,p.=,ENST00000306869,NM_016286.3,NM_001195218.1;DCXR,synonymous_variant,p.=,ENST00000581584,;DCXR,synonymous_variant,p.=,ENST00000582900,;DCXR,synonymous_variant,p.=,ENST00000577532,;DCXR,synonymous_variant,p.=,ENST00000577712,;DCXR,synonymous_variant,p.=,ENST00000579004,;RAC3,downstream_gene_variant,,ENST00000306897,NM_005052.2;RAC3,downstream_gene_variant,,ENST00000580965,;RAC3,downstream_gene_variant,,ENST00000584341,;DCXR,downstream_gene_variant,,ENST00000579155,;RP13-650J16.1,upstream_gene_variant,,ENST00000584705,;RP13-650J16.1,upstream_gene_variant,,ENST00000582558,;DCXR,non_coding_transcript_exon_variant,,ENST00000577996,;DCXR,downstream_gene_variant,,ENST00000584318,;DCXR,3_prime_UTR_variant,,ENST00000579821,;DCXR,non_coding_transcript_exon_variant,,ENST00000579334,;DCXR,non_coding_transcript_exon_variant,,ENST00000580750,;DCXR,non_coding_transcript_exon_variant,,ENST00000578885,;DCXR,non_coding_transcript_exon_variant,,ENST00000585085,;DCXR,non_coding_transcript_exon_variant,,ENST00000580320,;DCXR,non_coding_transcript_exon_variant,,ENST00000578273,;DCXR,non_coding_transcript_exon_variant,,ENST00000579842,;DCXR,non_coding_transcript_exon_variant,,ENST00000582074,;DCXR,non_coding_transcript_exon_variant,,ENST00000577286,;RAC3,downstream_gene_variant,,ENST00000585014,;DCXR,downstream_gene_variant,,ENST00000582613,;DCXR,downstream_gene_variant,,ENST00000585164,;"	"G"	"ENSG00000169738"	"ENST00000306869"	"Transcript"	"synonymous_variant"	"578/887"	"528/735"	"176/244"	"A"	"gcA/gcC"	""	"1"	NA	-1	"DCXR"	"HGNC"	18985	"protein_coding"	"YES"	"CCDS11799.1"	"ENSP00000303356"	"Q7Z4W1"	""	"UPI000004C790"	"NM_016286.3,NM_001195218.1"	""	""	"7/8"	""	"hmmpanther:PTHR24311:SF8,hmmpanther:PTHR24311,Gene3D:3.40.50.720,Pfam_domain:PF13561,Superfamily_domains:SSF51735,Prints_domain:PR00081"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"2349e4e0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"13663"	"CCDC57"	284001	"mskcc.org"	"GRCh37"	"17"	80160011	80160011	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-8-183T>C"	""	""	"ENST00000392343"	""	93	"86"	7	44	"44"	0	"CCDC57,intron_variant,,ENST00000389641,;CCDC57,intron_variant,,ENST00000392347,NM_198082.2;CCDC57,intron_variant,,ENST00000392343,;CCDC57,upstream_gene_variant,,ENST00000578910,;CCDC57,upstream_gene_variant,,ENST00000581625,;"	"G"	"ENSG00000176155"	"ENST00000392343"	"Transcript"	"intron_variant"	"-/2896"	"-/2256"	"-/751"	""	""	""	"1"	NA	-1	"CCDC57"	"HGNC"	27564	"protein_coding"	"YES"	""	"ENSP00000376154"	"Q2TAC2"	""	"UPI000022A20F"	""	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"234a06b4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"13664"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	1814525	1814525	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"63"	36	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"234bd03e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"13665"	"DLGAP1"	9229	"mskcc.org"	"GRCh37"	"18"	3532072	3532072	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2479+2120A>T"	""	""	"ENST00000315677"	""	64	"59"	5	36	"36"	0	"DLGAP1,intron_variant,,ENST00000315677,NM_004746.3;DLGAP1,intron_variant,,ENST00000400150,NM_001242763.1;DLGAP1,intron_variant,,ENST00000400147,NM_001003809.2;DLGAP1,intron_variant,,ENST00000400155,NM_001242764.1;DLGAP1,intron_variant,,ENST00000400149,;DLGAP1,intron_variant,,ENST00000581527,NM_001242761.1;DLGAP1,intron_variant,,ENST00000584874,;DLGAP1,intron_variant,,ENST00000515196,;DLGAP1,intron_variant,,ENST00000539435,NM_001242766.1;DLGAP1,intron_variant,,ENST00000534970,NM_001242762.1;DLGAP1,intron_variant,,ENST00000581699,;DLGAP1,intron_variant,,ENST00000400145,NM_001242765.1;"	"A"	"ENSG00000170579"	"ENST00000315677"	"Transcript"	"intron_variant"	"-/6683"	"-/2934"	"-/977"	""	""	""	"1"	NA	-1	"DLGAP1"	"HGNC"	2905	"protein_coding"	"YES"	"CCDS11836.1"	"ENSP00000316377"	"O14490"	""	"UPI0000129490"	"NM_004746.3"	""	""	""	"10/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"234c2a52-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.078125	"WGS"	FALSE
"13666"	"DLGAP1"	9229	"mskcc.org"	"GRCh37"	"18"	3576664	3576664	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1965+5209T>C"	""	""	"ENST00000315677"	""	68	"60"	8	39	"39"	0	"DLGAP1,intron_variant,,ENST00000315677,NM_004746.3;DLGAP1,intron_variant,,ENST00000400150,NM_001242763.1;DLGAP1,intron_variant,,ENST00000400147,NM_001003809.2;DLGAP1,intron_variant,,ENST00000400155,NM_001242764.1;DLGAP1,intron_variant,,ENST00000400149,;DLGAP1,intron_variant,,ENST00000581527,NM_001242761.1;DLGAP1,intron_variant,,ENST00000584874,;DLGAP1,intron_variant,,ENST00000515196,;DLGAP1,intron_variant,,ENST00000539435,NM_001242766.1;DLGAP1,intron_variant,,ENST00000534970,NM_001242762.1;DLGAP1,intron_variant,,ENST00000581699,;DLGAP1,intron_variant,,ENST00000400145,NM_001242765.1;snoU13,upstream_gene_variant,,ENST00000458894,;RP11-710M11.1,upstream_gene_variant,,ENST00000577490,;"	"G"	"ENSG00000170579"	"ENST00000315677"	"Transcript"	"intron_variant"	"-/6683"	"-/2934"	"-/977"	""	""	""	"1"	NA	-1	"DLGAP1"	"HGNC"	2905	"protein_coding"	"YES"	"CCDS11836.1"	"ENSP00000316377"	"O14490"	""	"UPI0000129490"	"NM_004746.3"	""	""	""	"8/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"234c2dcc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"13667"	"EPB41L3"	23136	"mskcc.org"	"GRCh37"	"18"	5627480	5627480	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.70+1441C>A"	""	""	"ENST00000545076"	""	97	"69"	28	45	"45"	0	"EPB41L3,intron_variant,,ENST00000545076,;EPB41L3,intron_variant,,ENST00000578431,;"	"T"	"ENSG00000082397"	"ENST00000545076"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3190"	""	""	""	""	""	"1"	NA	-1	"EPB41L3"	"HGNC"	3380	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"234c8182-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288659793814433	"WGS"	FALSE
"13668"	"EPB41L3"	23136	"mskcc.org"	"GRCh37"	"18"	5627481	5627481	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.70+1440G>A"	""	""	"ENST00000545076"	""	97	"69"	28	46	"46"	0	"EPB41L3,intron_variant,,ENST00000545076,;EPB41L3,intron_variant,,ENST00000578431,;"	"T"	"ENSG00000082397"	"ENST00000545076"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3190"	""	""	""	""	""	"1"	NA	-1	"EPB41L3"	"HGNC"	3380	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"234c8240-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288659793814433	"WGS"	FALSE
"13669"	"L3MBTL4"	91133	"mskcc.org"	"GRCh37"	"18"	5980475	5980475	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1472-10914C>G"	""	""	"ENST00000284898"	""	74	"48"	26	50	"50"	0	"L3MBTL4,intron_variant,,ENST00000284898,NM_173464.3;L3MBTL4,intron_variant,,ENST00000317931,;L3MBTL4,intron_variant,,ENST00000400105,;L3MBTL4,intron_variant,,ENST00000535782,;"	"C"	"ENSG00000154655"	"ENST00000284898"	"Transcript"	"intron_variant"	"-/3586"	"-/1872"	"-/623"	""	""	""	"1"	NA	-1	"L3MBTL4"	"HGNC"	26677	"protein_coding"	"YES"	"CCDS11839.2"	"ENSP00000284898"	"Q8NA19"	"J3QLK8,J3KS41,J3KRN7"	"UPI000013DDC0"	"NM_173464.3"	""	""	""	"17/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"234c89c0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351351351351351	"WGS"	FALSE
"13670"	"L3MBTL4"	91133	"mskcc.org"	"GRCh37"	"18"	6294474	6294474	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.127+7428A>C"	""	""	"ENST00000284898"	""	73	"46"	27	46	"46"	0	"L3MBTL4,intron_variant,,ENST00000400104,;L3MBTL4,intron_variant,,ENST00000284898,NM_173464.3;L3MBTL4,intron_variant,,ENST00000317931,;L3MBTL4,intron_variant,,ENST00000400105,;L3MBTL4,intron_variant,,ENST00000583054,;L3MBTL4,intron_variant,,ENST00000581231,;L3MBTL4,intron_variant,,ENST00000583809,;"	"G"	"ENSG00000154655"	"ENST00000284898"	"Transcript"	"intron_variant"	"-/3586"	"-/1872"	"-/623"	""	""	""	"1"	NA	-1	"L3MBTL4"	"HGNC"	26677	"protein_coding"	"YES"	"CCDS11839.2"	"ENSP00000284898"	"Q8NA19"	"J3QLK8,J3KS41,J3KRN7"	"UPI000013DDC0"	"NM_173464.3"	""	""	""	"4/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"234c967c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36986301369863	"WGS"	FALSE
"13671"	"PTPRM"	5797	"mskcc.org"	"GRCh37"	"18"	8318204	8318204	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2920-972A>T"	""	""	"ENST00000580170"	""	85	"62"	23	61	"60"	1	"PTPRM,intron_variant,,ENST00000332175,NM_002845.3;PTPRM,intron_variant,,ENST00000580170,NM_001105244.1;PTPRM,intron_variant,,ENST00000400053,;PTPRM,intron_variant,,ENST00000444013,;PTPRM,intron_variant,,ENST00000400060,;PTPRM,intron_variant,,ENST00000577827,;"	"T"	"ENSG00000173482"	"ENST00000580170"	"Transcript"	"intron_variant"	"-/5941"	"-/4398"	"-/1465"	""	""	""	"1"	NA	1	"PTPRM"	"HGNC"	9675	"protein_coding"	"YES"	"CCDS58613.1"	"ENSP00000463325"	"P28827"	"Q49AC9"	"UPI00015CFC03"	"NM_001105244.1"	""	""	""	"21/32"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"234cefe6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270588235294118	"WGS"	FALSE
"13672"	"PIEZO2"	63895	"mskcc.org"	"GRCh37"	"18"	10720303	10720303	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"rs546240357"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4856-2046G>C"	""	""	"ENST00000503781"	""	55	"49"	6	32	"32"	0	"PIEZO2,intron_variant,,ENST00000302079,;PIEZO2,intron_variant,,ENST00000580640,;PIEZO2,intron_variant,,ENST00000503781,NM_022068.2;PIEZO2,intron_variant,,ENST00000582913,;RP11-21G15.1,upstream_gene_variant,,ENST00000584346,;"	"G"	"ENSG00000154864"	"ENST00000503781"	"Transcript"	"intron_variant"	"-/8259"	"-/8259"	"-/2752"	""	""	"rs546240357"	"1"	NA	-1	"PIEZO2"	"HGNC"	26270	"protein_coding"	"YES"	""	"ENSP00000421377"	"Q9H5I5"	"J3KSM7"	"UPI0001B3CB29"	"NM_022068.2"	""	""	""	"33/51"	""	"G:0.0024"	"G:0.0045"	"G:0.0058"	NA	"G:0.002"	"G:0"	"G:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"234d69da-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109090909090909	"WGS"	FALSE
"13673"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	11406004	11406004	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"69"	19	34	"34"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"234d7f88-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215909090909091	"WGS"	FALSE
"13674"	"AFG3L2"	10939	"mskcc.org"	"GRCh37"	"18"	12330108	12330108	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2176-326A>G"	""	""	"ENST00000269143"	""	79	"73"	6	33	"33"	0	"AFG3L2,intron_variant,,ENST00000269143,NM_006796.2;TUBB6,intron_variant,,ENST00000590967,;TUBB6,intron_variant,,ENST00000586691,;TUBB6,downstream_gene_variant,,ENST00000317702,;TUBB6,downstream_gene_variant,,ENST00000591208,NM_032525.1;TUBB6,downstream_gene_variant,,ENST00000590103,;TUBB6,downstream_gene_variant,,ENST00000591909,;TUBB6,downstream_gene_variant,,ENST00000586653,;TUBB6,downstream_gene_variant,,ENST00000590693,;TUBB6,downstream_gene_variant,,ENST00000591463,;TUBB6,downstream_gene_variant,,ENST00000592683,;TUBB6,downstream_gene_variant,,ENST00000417736,;TUBB6,downstream_gene_variant,,ENST00000586810,;TUBB6,downstream_gene_variant,,ENST00000590388,;"	"C"	"ENSG00000141385"	"ENST00000269143"	"Transcript"	"intron_variant"	"-/3247"	"-/2394"	"-/797"	""	""	""	"1"	NA	-1	"AFG3L2"	"HGNC"	315	"protein_coding"	"YES"	"CCDS11859.1"	"ENSP00000269143"	"Q9Y4W6"	"D3DUJ0"	"UPI000013D7FF"	"NM_006796.2"	""	""	""	"16/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"234dd3d4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"13675"	"SEH1L"	81929	"mskcc.org"	"GRCh37"	"18"	12980230	12980230	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.761+1339C>G"	""	""	"ENST00000399892"	""	30	"25"	5	18	"18"	0	"SEH1L,intron_variant,,ENST00000262124,NM_031216.3;SEH1L,intron_variant,,ENST00000399892,NM_001013437.1;SEH1L,downstream_gene_variant,,ENST00000587761,;RP11-773H22.4,downstream_gene_variant,,ENST00000588211,;SEH1L,intron_variant,,ENST00000592582,;SEH1L,intron_variant,,ENST00000590843,;SEH1L,intron_variant,,ENST00000590032,;"	"G"	"ENSG00000085415"	"ENST00000399892"	"Transcript"	"intron_variant"	"-/1846"	"-/1266"	"-/421"	""	""	""	"1"	NA	1	"SEH1L"	"HGNC"	30379	"protein_coding"	"YES"	"CCDS32791.1"	"ENSP00000382779"	"Q96EE3"	"K7EPZ5"	"UPI0000070285"	"NM_001013437.1"	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"234dfd3c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"13676"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	15235049	15235049	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"49"	32	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"234ec3a2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.395061728395062	"WGS"	FALSE
"13677"	"ESCO1"	114799	"mskcc.org"	"GRCh37"	"18"	19130832	19130832	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1953+9988G>C"	""	""	"ENST00000269214"	""	104	"97"	7	41	"41"	0	"ESCO1,intron_variant,,ENST00000269214,NM_052911.2;ESCO1,intron_variant,,ENST00000383276,;"	"G"	"ENSG00000141446"	"ENST00000269214"	"Transcript"	"intron_variant"	"-/4523"	"-/2523"	"-/840"	""	""	""	"1"	NA	-1	"ESCO1"	"HGNC"	24645	"protein_coding"	"YES"	"CCDS32800.1"	"ENSP00000269214"	"Q5FWF5"	""	"UPI00001C1FF4"	"NM_052911.2"	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"234f81f2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0673076923076923	"WGS"	FALSE
"13678"	"SNRPD1"	6632	"mskcc.org"	"GRCh37"	"18"	19192471	19192471	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.14+67G>A"	""	""	"ENST00000300413"	""	88	"58"	30	43	"43"	0	"SNRPD1,intron_variant,,ENST00000300413,NM_006938.2;SNRPD1,intron_variant,,ENST00000582475,;SNRPD1,intron_variant,,ENST00000579618,;"	"A"	"ENSG00000167088"	"ENST00000300413"	"Transcript"	"intron_variant"	"-/1841"	"-/360"	"-/119"	""	""	""	"1"	NA	1	"SNRPD1"	"HGNC"	11158	"protein_coding"	"YES"	"CCDS32801.1"	"ENSP00000300413"	"P62314"	"J3QLI9"	"UPI0000006BEC"	"NM_006938.2"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"234f86f2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340909090909091	"WGS"	FALSE
"13679"	"CABLES1"	91768	"mskcc.org"	"GRCh37"	"18"	20810407	20810407	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1089-4165C>A"	""	""	"ENST00000256925"	""	78	"50"	28	43	"43"	0	"CABLES1,intron_variant,,ENST00000256925,NM_001100619.2;CABLES1,intron_variant,,ENST00000420687,NM_138375.2;CABLES1,intron_variant,,ENST00000400473,NM_001256438.1;TMEM241,intron_variant,,ENST00000450466,;TMEM241,intron_variant,,ENST00000578790,;CABLES1,intron_variant,,ENST00000585061,;TMEM241,upstream_gene_variant,,ENST00000584625,;CABLES1,intron_variant,,ENST00000579963,;TMEM241,intron_variant,,ENST00000581444,;"	"A"	"ENSG00000134508"	"ENST00000256925"	"Transcript"	"intron_variant"	"-/5002"	"-/1902"	"-/633"	""	""	""	"1"	NA	1	"CABLES1"	"HGNC"	25097	"protein_coding"	"YES"	"CCDS42417.1"	"ENSP00000256925"	"Q8TDN4"	"A7K6Y5"	"UPI00004C2CAA"	"NM_001100619.2"	""	""	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"234ff57e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358974358974359	"WGS"	FALSE
"13680"	"TMEM241"	85019	"mskcc.org"	"GRCh37"	"18"	21014995	21014995	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.72+2750T>C"	""	""	"ENST00000383233"	""	87	"78"	9	49	"49"	0	"TMEM241,intron_variant,,ENST00000383233,NM_032933.4;TMEM241,intron_variant,,ENST00000450466,;TMEM241,intron_variant,,ENST00000542162,;TMEM241,intron_variant,,ENST00000578520,;TMEM241,intron_variant,,ENST00000582336,;TMEM241,intron_variant,,ENST00000399707,;TMEM241,intron_variant,,ENST00000473688,;TMEM241,intron_variant,,ENST00000477053,;TMEM241,intron_variant,,ENST00000581444,;TMEM241,intron_variant,,ENST00000460322,;TMEM241,intron_variant,,ENST00000497608,;TMEM241,intron_variant,,ENST00000482411,;TMEM241,intron_variant,,ENST00000577531,;TMEM241,intron_variant,,ENST00000580025,;"	"G"	"ENSG00000134490"	"ENST00000383233"	"Transcript"	"intron_variant"	"-/2934"	"-/891"	"-/296"	""	""	""	"1"	NA	-1	"TMEM241"	"HGNC"	31723	"protein_coding"	"YES"	"CCDS11876.2"	"ENSP00000372720"	"Q24JQ0"	""	"UPI000022A6E0"	"NM_032933.4"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"235000aa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"13681"	"LAMA3"	3909	"mskcc.org"	"GRCh37"	"18"	21442883	21442883	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4584+1112C>T"	""	""	"ENST00000313654"	""	65	"44"	21	44	"44"	0	"LAMA3,intron_variant,,ENST00000313654,NM_198129.1;LAMA3,intron_variant,,ENST00000399516,NM_001127717.1;"	"T"	"ENSG00000053747"	"ENST00000313654"	"Transcript"	"intron_variant"	"-/10661"	"-/10002"	"-/3333"	""	""	""	"1"	NA	1	"LAMA3"	"HGNC"	6483	"protein_coding"	"YES"	"CCDS42419.1"	"ENSP00000324532"	"Q16787"	"B0YJ32"	"UPI00001C1222"	"NM_198129.1"	""	""	""	"35/74"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"23501d10-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.323076923076923	"WGS"	FALSE
"13682"	"ENSR00001685053"	0	"mskcc.org"	"GRCh37"	"18"	22114626	22114626	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001685053"	""	81	"53"	28	47	"47"	0	""	"G"	""	"ENSR00001685053"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"23503fe8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.345679012345679	"WGS"	FALSE
"13683"	"ZNF521"	25925	"mskcc.org"	"GRCh37"	"18"	22758485	22758485	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs779603719"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3658+16639G>A"	""	""	"ENST00000361524"	""	85	"72"	13	56	"56"	0	"ZNF521,intron_variant,,ENST00000361524,NM_015461.2;ZNF521,intron_variant,,ENST00000584787,;ZNF521,intron_variant,,ENST00000538137,;ZNF521,intron_variant,,ENST00000577775,;ZNF521,intron_variant,,ENST00000399425,;"	"T"	"ENSG00000198795"	"ENST00000361524"	"Transcript"	"intron_variant"	"-/4871"	"-/3936"	"-/1311"	""	""	"rs779603719"	"1"	NA	-1	"ZNF521"	"HGNC"	24605	"protein_coding"	"YES"	"CCDS32806.1"	"ENSP00000354794"	"Q96K83"	"J3QRW6,J3KTI4,J3KT07,J3KSZ4"	"UPI000006F982"	"NM_015461.2"	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"23505b40-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152941176470588	"WGS"	TRUE
"13684"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	22987319	22987319	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs114231038"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"84"	7	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs114231038"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0034"	"A:0.0129"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"2350682e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"13685"	"RP11-739N10.1"	0	"mskcc.org"	"GRCh37"	"18"	25081229	25081229	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.447+414A>G"	""	""	"ENST00000584546"	""	82	"51"	31	49	"49"	0	"RP11-739N10.1,intron_variant,,ENST00000584546,;"	"C"	"ENSG00000264151"	"ENST00000584546"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1352"	""	""	""	""	""	"1"	NA	-1	"RP11-739N10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"2350b73e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.378048780487805	"WGS"	FALSE
"13686"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	25459414	25459414	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"49"	22	35	"35"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"2350c972-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309859154929577	"WGS"	FALSE
"13687"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	27471827	27471827	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"50"	32	52	"52"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"2350fe24-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.390243902439024	"WGS"	FALSE
"13688"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	27550928	27550928	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"64"	29	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"23510040-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311827956989247	"WGS"	FALSE
"13689"	"DSG1"	1828	"mskcc.org"	"GRCh37"	"18"	28894703	28894703	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000257192"	""	99	"73"	26	58	"58"	0	"DSG1,upstream_gene_variant,,ENST00000257192,NM_001942.2;"	"A"	"ENSG00000134760"	"ENST00000257192"	"Transcript"	"upstream_gene_variant"	"-/5045"	"-/3150"	"-/1049"	""	""	""	"1"	"3349"	1	"DSG1"	"HGNC"	3048	"protein_coding"	"YES"	"CCDS11896.1"	"ENSP00000257192"	"Q02413"	"B7Z845"	"UPI000013CF4C"	"NM_001942.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"235132e0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.262626262626263	"WGS"	FALSE
"13690"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	29363851	29363851	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"66"	31	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"23514690-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319587628865979	"WGS"	FALSE
"13691"	"NOL4"	8715	"mskcc.org"	"GRCh37"	"18"	31582524	31582524	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1056+16758G>A"	""	""	"ENST00000261592"	""	86	"56"	30	58	"58"	0	"NOL4,intron_variant,,ENST00000261592,NM_001198546.1,NM_003787.4;NOL4,intron_variant,,ENST00000269185,NM_001198548.1;NOL4,intron_variant,,ENST00000589544,;NOL4,intron_variant,,ENST00000535475,;NOL4,intron_variant,,ENST00000538587,NM_001198547.1;NOL4,intron_variant,,ENST00000590712,;NOL4,intron_variant,,ENST00000535384,NM_001198549.1;NOL4,intron_variant,,ENST00000586553,;Y_RNA,upstream_gene_variant,,ENST00000362334,;NOL4,intron_variant,,ENST00000586314,;"	"T"	"ENSG00000101746"	"ENST00000261592"	"Transcript"	"intron_variant"	"-/3957"	"-/1917"	"-/638"	""	""	""	"1"	NA	-1	"NOL4"	"HGNC"	7870	"protein_coding"	"YES"	"CCDS11907.2"	"ENSP00000261592"	"O94818"	""	"UPI000059D504"	"NM_001198546.1,NM_003787.4"	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"23519276-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.348837209302326	"WGS"	FALSE
"13692"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	31944056	31944056	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs190279700"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"62"	36	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs190279700"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"23519d98-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36734693877551	"WGS"	FALSE
"13693"	"CELF4"	56853	"mskcc.org"	"GRCh37"	"18"	34837825	34837825	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1333+1319C>T"	""	""	"ENST00000420428"	""	80	"58"	22	55	"55"	0	"CELF4,intron_variant,,ENST00000420428,NM_020180.3;CELF4,intron_variant,,ENST00000412753,NM_001025088.1,NM_001025087.1;CELF4,intron_variant,,ENST00000591287,;CELF4,intron_variant,,ENST00000334919,NM_001025089.1;CELF4,intron_variant,,ENST00000588591,;CELF4,intron_variant,,ENST00000586009,;CELF4,intron_variant,,ENST00000603232,;CELF4,intron_variant,,ENST00000361795,;CELF4,intron_variant,,ENST00000601019,;CELF4,intron_variant,,ENST00000591282,;CELF4,intron_variant,,ENST00000589386,;CELF4,intron_variant,,ENST00000587911,;CELF4,intron_variant,,ENST00000593271,;CELF4,downstream_gene_variant,,ENST00000588597,;CELF4,downstream_gene_variant,,ENST00000587657,;CELF4,upstream_gene_variant,,ENST00000590011,;CELF4,intron_variant,,ENST00000590112,;"	"A"	"ENSG00000101489"	"ENST00000420428"	"Transcript"	"intron_variant"	"-/4052"	"-/1461"	"-/486"	""	""	""	"1"	NA	-1	"CELF4"	"HGNC"	14015	"protein_coding"	"YES"	"CCDS32818.1"	"ENSP00000410584"	"Q9BZC1"	"K7EJK3"	"UPI00000726FC"	"NM_020180.3"	""	""	""	"11/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"23520a44-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275	"WGS"	FALSE
"13694"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	38210958	38210958	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"86"	8	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"23527fb0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"13695"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	38737322	38737322	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"72"	28	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"23528a32-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"13696"	"LINC00907"	284260	"mskcc.org"	"GRCh37"	"18"	39976344	39976344	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.714-57553A>G"	""	""	"ENST00000593234"	""	111	"71"	40	52	"52"	0	"LINC00907,intron_variant,,ENST00000593234,;LINC00907,intron_variant,,ENST00000585627,;LINC00907,intron_variant,,ENST00000589068,;LINC00907,intron_variant,,ENST00000591381,;LINC00907,intron_variant,,ENST00000593051,;LINC00907,intron_variant,,ENST00000585639,;LINC00907,intron_variant,,ENST00000593316,;"	"G"	"ENSG00000267586"	"ENST00000593234"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3376"	""	""	""	""	""	"1"	NA	1	"LINC00907"	"HGNC"	44327	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"2352a864-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36036036036036	"WGS"	FALSE
"13697"	"C18orf25"	147339	"mskcc.org"	"GRCh37"	"18"	43773762	43773762	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-71+19466G>A"	""	""	"ENST00000282059"	""	86	"78"	8	26	"26"	0	"C18orf25,intron_variant,,ENST00000282059,NM_145055.3;C18orf25,intron_variant,,ENST00000321319,NM_001008239.2;C18orf25,intron_variant,,ENST00000587591,;C18orf25,intron_variant,,ENST00000588730,;"	"A"	"ENSG00000152242"	"ENST00000282059"	"Transcript"	"intron_variant"	"-/5454"	"-/1212"	"-/403"	""	""	""	"1"	NA	1	"C18orf25"	"HGNC"	28172	"protein_coding"	"YES"	"CCDS42430.1"	"ENSP00000282059"	"Q96B23"	"Q5BIX2,K7ER64,K7EQH1"	"UPI000013DCB6"	"NM_145055.3"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"23531ae2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"13698"	"HDHD2"	84064	"mskcc.org"	"GRCh37"	"18"	44658551	44658551	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.311-1852G>A"	""	""	"ENST00000300605"	""	81	"53"	28	60	"60"	0	"HDHD2,intron_variant,,ENST00000300605,NM_032124.4;HDHD2,intron_variant,,ENST00000590815,;HDHD2,intron_variant,,ENST00000590481,;HDHD2,intron_variant,,ENST00000591480,;HDHD2,intron_variant,,ENST00000587388,;HDHD2,intron_variant,,ENST00000592591,;HDHD2,intron_variant,,ENST00000588940,;HDHD2,intron_variant,,ENST00000587841,;HDHD2,downstream_gene_variant,,ENST00000591671,;HDHD2,intron_variant,,ENST00000588183,;HDHD2,intron_variant,,ENST00000591268,;HDHD2,intron_variant,,ENST00000586546,;IER3IP1,downstream_gene_variant,,ENST00000588705,;IER3IP1,downstream_gene_variant,,ENST00000602926,;IER3IP1,downstream_gene_variant,,ENST00000602459,;RP11-49K24.5,upstream_gene_variant,,ENST00000588843,;"	"T"	"ENSG00000167220"	"ENST00000300605"	"Transcript"	"intron_variant"	"-/2212"	"-/780"	"-/259"	""	""	""	"1"	NA	-1	"HDHD2"	"HGNC"	25364	"protein_coding"	"YES"	"CCDS32829.1"	"ENSP00000300605"	"Q9H0R4"	"K7ER15,K7EQD2"	"UPI0000037B93"	"NM_032124.4"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"23534d28-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.345679012345679	"WGS"	FALSE
"13699"	"CTD-2130O13.1"	0	"mskcc.org"	"GRCh37"	"18"	44864780	44864780	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.37+52648C>T"	""	""	"ENST00000586905"	""	89	"64"	25	52	"52"	0	"CTD-2130O13.1,intron_variant,,ENST00000586905,;CTD-2130O13.1,intron_variant,,ENST00000598649,;"	"T"	"ENSG00000267761"	"ENST00000586905"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/668"	""	""	""	""	""	"1"	NA	1	"CTD-2130O13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"23535570-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280898876404494	"WGS"	FALSE
"13700"	"DYM"	54808	"mskcc.org"	"GRCh37"	"18"	46838572	46838572	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.763+19662T>A"	""	""	"ENST00000269445"	""	70	"44"	26	49	"49"	0	"DYM,intron_variant,,ENST00000269445,NM_017653.3;DYM,intron_variant,,ENST00000442713,;DYM,intron_variant,,ENST00000583280,;DYM,intron_variant,,ENST00000584983,;DYM,intron_variant,,ENST00000581738,;DYM,intron_variant,,ENST00000583225,;DYM,intron_variant,,ENST00000580615,;DYM,intron_variant,,ENST00000418472,;"	"T"	"ENSG00000141627"	"ENST00000269445"	"Transcript"	"intron_variant"	"-/2703"	"-/2010"	"-/669"	""	""	""	"1"	NA	-1	"DYM"	"HGNC"	21317	"protein_coding"	"YES"	"CCDS11937.1"	"ENSP00000269445"	"Q7RTS9"	"J3QRF2,J3QR81,J3KSF9,J3KRG4"	"UPI00001AE953"	"NM_017653.3"	""	""	""	"8/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"2353c1d6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.371428571428571	"WGS"	FALSE
"13701"	"RPL17-C18orf32"	6139	"mskcc.org"	"GRCh37"	"18"	47010962	47010962	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.508-821A>T"	""	""	"ENST00000584895"	""	93	"85"	8	52	"52"	0	"RPL17-C18orf32,intron_variant,,ENST00000584895,NM_001199355.1;C18orf32,intron_variant,,ENST00000318240,NM_001035005.3;C18orf32,intron_variant,,ENST00000579820,NM_001199346.1;RPL17-C18orf32,intron_variant,,ENST00000332968,NM_001199356.1;C18orf32,intron_variant,,ENST00000582392,;RPL17,downstream_gene_variant,,ENST00000418495,NM_000985.4,NM_001199340.1;RPL17,downstream_gene_variant,,ENST00000579408,;RPL17,downstream_gene_variant,,ENST00000579248,NM_001199341.1,NM_001199342.1,NM_001199344.1;RPL17,downstream_gene_variant,,ENST00000583637,NM_001199343.1;RPL17,downstream_gene_variant,,ENST00000580387,;RPL17,downstream_gene_variant,,ENST00000580210,;RPL17,downstream_gene_variant,,ENST00000578532,;RPL17,downstream_gene_variant,,ENST00000580261,NM_001035006.2;RPL17,downstream_gene_variant,,ENST00000581373,NM_001199345.1;RPL17,downstream_gene_variant,,ENST00000583036,;SNORD58C,downstream_gene_variant,,ENST00000365223,;MIR1539,upstream_gene_variant,,ENST00000410758,;RP11-110H1.4,non_coding_transcript_exon_variant,,ENST00000580150,;MIR1539,upstream_gene_variant,,ENST00000581232,;RPL17,downstream_gene_variant,,ENST00000581091,;RPL17-C18orf32,intron_variant,,ENST00000577910,;RPL17,downstream_gene_variant,,ENST00000581741,;RPL17,downstream_gene_variant,,ENST00000584364,;RPL17,downstream_gene_variant,,ENST00000582588,;"	"A"	"ENSG00000215472"	"ENST00000584895"	"Transcript"	"intron_variant"	"-/1440"	"-/687"	"-/228"	""	""	""	"1"	NA	-1	"RPL17-C18orf32"	"HGNC"	44661	"protein_coding"	"YES"	"CCDS58622.1"	"ENSP00000463379"	""	"J3QS96,J3KSJ0,J3KRB3"	"UPI0000D4CB8E"	"NM_001199355.1"	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"2353c5e6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0860215053763441	"WGS"	FALSE
"13702"	"MAPK4"	5596	"mskcc.org"	"GRCh37"	"18"	48193753	48193753	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.546+2879G>A"	""	""	"ENST00000400384"	""	89	"70"	19	48	"48"	0	"MAPK4,intron_variant,,ENST00000400384,NM_002747.3;MAPK4,intron_variant,,ENST00000592595,;MAPK4,intron_variant,,ENST00000588540,;MAPK4,intron_variant,,ENST00000540640,;MAPK4,intron_variant,,ENST00000587823,;MAPK4,downstream_gene_variant,,ENST00000586735,;RP11-10I6.2,upstream_gene_variant,,ENST00000588916,;"	"A"	"ENSG00000141639"	"ENST00000400384"	"Transcript"	"intron_variant"	"-/4770"	"-/1764"	"-/587"	""	""	""	"1"	NA	1	"MAPK4"	"HGNC"	6878	"protein_coding"	"YES"	"CCDS42437.1"	"ENSP00000383234"	"P31152"	"Q0VG04,B4E104,B4DEW2"	"UPI0000201D20"	"NM_002747.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"23540d9e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213483146067416	"WGS"	FALSE
"13703"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	51447230	51447230	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"62"	8	39	"39"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"23549246-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"13704"	"DYNAP"	284254	"mskcc.org"	"GRCh37"	"18"	52251874	52251874	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000585973"	""	88	"51"	37	46	"46"	0	"DYNAP,upstream_gene_variant,,ENST00000585973,;"	"T"	"ENSG00000178690"	"ENST00000585973"	"Transcript"	"upstream_gene_variant"	"-/1102"	"-/477"	"-/158"	""	""	""	"1"	"3114"	1	"DYNAP"	"HGNC"	26808	"protein_coding"	""	""	"ENSP00000466577"	""	"K7EMN5"	"UPI000047E338"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"2354abe6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.420454545454545	"WGS"	FALSE
"13705"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	55514477	55514477	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"57"	39	42	"42"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"23553098-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.40625	"WGS"	FALSE
"13706"	"ZNF532"	55205	"mskcc.org"	"GRCh37"	"18"	56538929	56538929	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-18+6118A>G"	""	""	"ENST00000336078"	""	79	"73"	6	58	"58"	0	"ZNF532,intron_variant,,ENST00000336078,NM_018181.4;ZNF532,intron_variant,,ENST00000589288,;ZNF532,intron_variant,,ENST00000591083,;ZNF532,intron_variant,,ENST00000591808,;ZNF532,intron_variant,,ENST00000591230,;ZNF532,intron_variant,,ENST00000588601,;ZNF532,intron_variant,,ENST00000589481,;ZNF532,intron_variant,,ENST00000592452,;ZNF532,intron_variant,,ENST00000591049,;ZNF532,intron_variant,,ENST00000588456,;ZNF532,intron_variant,,ENST00000590285,;ZNF532,intron_variant,,ENST00000590287,;ZNF532,intron_variant,,ENST00000587755,;ZNF532,intron_variant,,ENST00000586085,;ZNF532,intron_variant,,ENST00000588543,;"	"G"	"ENSG00000074657"	"ENST00000336078"	"Transcript"	"intron_variant"	"-/6696"	"-/3906"	"-/1301"	""	""	""	"1"	NA	1	"ZNF532"	"HGNC"	30940	"protein_coding"	"YES"	"CCDS11969.1"	"ENSP00000338217"	"Q9HCE3"	"K7ER18,K7EQW7,K7EPI7,K7EP49,K7EMF9,K7ELB7,K7EL14,K7EKV7,K7EJM2,B4DQV3"	"UPI000013D30C"	"NM_018181.4"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"23557d46-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"13707"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	56772833	56772833	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"72"	36	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"23558ca0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"13708"	"RP11-396N11.1"	0	"mskcc.org"	"GRCh37"	"18"	57960121	57960121	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000592121"	""	98	"89"	9	53	"53"	0	"RP11-396N11.1,upstream_gene_variant,,ENST00000592121,;"	"A"	"ENSG00000267401"	"ENST00000592121"	"Transcript"	"upstream_gene_variant"	"-/419"	""	""	""	""	""	"1"	"1263"	1	"RP11-396N11.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"2355ce40-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0918367346938776	"WGS"	FALSE
"13709"	"RP11-879F14.1"	0	"mskcc.org"	"GRCh37"	"18"	59409255	59409255	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.233+6053C>A"	""	""	"ENST00000590968"	""	82	"47"	35	52	"52"	0	"RP11-879F14.1,intron_variant,,ENST00000590968,;RP11-879F14.1,intron_variant,,ENST00000590199,;"	"T"	"ENSG00000267175"	"ENST00000590968"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/566"	""	""	""	""	""	"1"	NA	-1	"RP11-879F14.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"2355f1e0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.426829268292683	"WGS"	FALSE
"13710"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	59980089	59980089	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"61"	28	56	"56"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"23560b4e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314606741573034	"WGS"	FALSE
"13711"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	62868870	62868870	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"41"	28	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"23569c1c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.405797101449275	"WGS"	FALSE
"13712"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	64124024	64124024	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"79"	8	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"2356cef8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"13713"	"RPL31P9"	0	"mskcc.org"	"GRCh37"	"18"	64808135	64808135	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000579952"	""	87	"68"	19	52	"52"	0	"RPL31P9,upstream_gene_variant,,ENST00000579952,;"	"T"	"ENSG00000264054"	"ENST00000579952"	"Transcript"	"upstream_gene_variant"	"-/141"	""	""	""	""	""	"1"	"3147"	-1	"RPL31P9"	"HGNC"	31893	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"2356e3de-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218390804597701	"WGS"	FALSE
"13714"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	67023861	67023861	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	58	"43"	15	37	"37"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"23572a74-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258620689655172	"WGS"	FALSE
"13715"	"DOK6"	220164	"mskcc.org"	"GRCh37"	"18"	67132888	67132888	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.66+64342C>A"	""	""	"ENST00000382713"	""	86	"57"	29	53	"53"	0	"DOK6,intron_variant,,ENST00000382713,NM_152721.5;RP11-465I4.3,upstream_gene_variant,,ENST00000584741,;RP11-465I4.3,upstream_gene_variant,,ENST00000579307,;"	"A"	"ENSG00000206052"	"ENST00000382713"	"Transcript"	"intron_variant"	"-/8890"	"-/996"	"-/331"	""	""	""	"1"	NA	1	"DOK6"	"HGNC"	28301	"protein_coding"	"YES"	"CCDS32841.1"	"ENSP00000372160"	"Q6PKX4"	""	"UPI000035EC7C"	"NM_152721.5"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"23572f74-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337209302325581	"WGS"	FALSE
"13716"	"RTTN"	25914	"mskcc.org"	"GRCh37"	"18"	67876380	67876380	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000255674"	""	99	"68"	31	44	"44"	0	"RTTN,upstream_gene_variant,,ENST00000255674,NM_173630.3;RTTN,upstream_gene_variant,,ENST00000454359,;RTTN,upstream_gene_variant,,ENST00000437017,;RTTN,upstream_gene_variant,,ENST00000581161,;RTTN,upstream_gene_variant,,ENST00000581583,;"	"T"	"ENSG00000176225"	"ENST00000255674"	"Transcript"	"upstream_gene_variant"	"-/7326"	"-/6681"	"-/2226"	""	""	""	"1"	"3199"	-1	"RTTN"	"HGNC"	18654	"protein_coding"	"YES"	"CCDS42443.1"	"ENSP00000255674"	"Q86VV8"	""	"UPI0000201E92"	"NM_173630.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"235747a2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313131313131313	"WGS"	FALSE
"13717"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	69381243	69381243	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"92"	6	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"23578bb8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0612244897959184	"WGS"	FALSE
"13718"	"RP11-169F17.1"	400655	"mskcc.org"	"GRCh37"	"18"	70913580	70913580	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.104+9468G>T"	""	""	"ENST00000581862"	""	93	"66"	27	55	"55"	0	"RP11-169F17.1,intron_variant,,ENST00000581862,;RP11-169F17.1,downstream_gene_variant,,ENST00000582571,;RP11-169F17.1,intron_variant,,ENST00000581011,;RP11-169F17.1,intron_variant,,ENST00000584544,;RP11-169F17.1,intron_variant,,ENST00000583405,;"	"A"	"ENSG00000263711"	"ENST00000581862"	"Transcript"	"intron_variant"	"-/3608"	"-/270"	"-/89"	""	""	""	"1"	NA	-1	"RP11-169F17.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000464611"	""	""	"UPI000015D01A"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"2357c452-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290322580645161	"WGS"	FALSE
"13719"	"ENSR00000528105"	0	"mskcc.org"	"GRCh37"	"18"	71406473	71406473	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000528105"	""	85	"51"	34	61	"61"	0	""	"T"	""	"ENSR00000528105"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"2357d6ae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WGS"	FALSE
"13720"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	73295538	73295538	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"78"	30	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"23582c80-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"13721"	"RP11-94B19.6"	0	"mskcc.org"	"GRCh37"	"18"	73888276	73888276	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.140+1278C>A"	""	""	"ENST00000578035"	""	90	"58"	32	49	"49"	0	"RP11-94B19.6,intron_variant,,ENST00000578035,;"	"T"	"ENSG00000266743"	"ENST00000578035"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/464"	""	""	""	""	""	"1"	NA	-1	"RP11-94B19.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"23583e1e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355555555555556	"WGS"	FALSE
"13722"	"ZNF516"	9658	"mskcc.org"	"GRCh37"	"18"	74114147	74114147	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1811-21888G>A"	""	""	"ENST00000443185"	""	88	"63"	25	36	"36"	0	"ZNF516,intron_variant,,ENST00000443185,NM_014643.3;ZNF516,intron_variant,,ENST00000524431,;"	"T"	"ENSG00000101493"	"ENST00000443185"	"Transcript"	"intron_variant"	"-/8619"	"-/3492"	"-/1163"	""	""	""	"1"	NA	-1	"ZNF516"	"HGNC"	28990	"protein_coding"	"YES"	""	"ENSP00000394757"	"Q92618"	"F5H2K2"	"UPI00001394A1"	"NM_014643.3"	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"23584e72-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284090909090909	"WGS"	FALSE
"13723"	"RP11-176N18.2"	0	"mskcc.org"	"GRCh37"	"18"	75140324	75140324	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.406+6344T>G"	""	""	"ENST00000583629"	""	95	"70"	25	49	"49"	0	"RP11-176N18.2,intron_variant,,ENST00000583629,;SNORA25,downstream_gene_variant,,ENST00000362522,;"	"G"	"ENSG00000264015"	"ENST00000583629"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/562"	""	""	""	""	""	"1"	NA	1	"RP11-176N18.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"2358d57c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"13724"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	75366047	75366047	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs754871269"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"59"	8	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs754871269"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"2358e4e0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119402985074627	"WGS"	FALSE
"13725"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	76593852	76593852	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"74"	27	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"23598378-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267326732673267	"WGS"	FALSE
"13726"	"NFATC1"	4772	"mskcc.org"	"GRCh37"	"18"	77243066	77243066	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2054-3182C>G"	""	""	"ENST00000329101"	""	46	"42"	4	18	"18"	0	"NFATC1,intron_variant,,ENST00000253506,NM_006162.4,NM_001278670.1,NM_001278669.1;NFATC1,intron_variant,,ENST00000329101,NM_172387.2;NFATC1,intron_variant,,ENST00000318065,NM_001278672.1,NM_172389.2;NFATC1,intron_variant,,ENST00000397790,NM_172388.2;NFATC1,intron_variant,,ENST00000427363,;NFATC1,intron_variant,,ENST00000542384,;NFATC1,intron_variant,,ENST00000586434,;NFATC1,intron_variant,,ENST00000545796,NM_001278673.1;NFATC1,intron_variant,,ENST00000590313,;"	"G"	"ENSG00000131196"	"ENST00000329101"	"Transcript"	"intron_variant"	"-/4595"	"-/2793"	"-/930"	""	""	""	"1"	NA	1	"NFATC1"	"HGNC"	7775	"protein_coding"	"YES"	"CCDS32850.1"	"ENSP00000327850"	"O95644"	"F5H4S8"	"UPI000002AF02"	"NM_172387.2"	""	""	""	"8/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"235a2cb0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"13727"	"STK11"	6794	"mskcc.org"	"GRCh37"	"19"	1208863	1208863	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.290+1661A>G"	""	""	"ENST00000326873"	""	65	"58"	7	38	"38"	0	"STK11,intron_variant,,ENST00000326873,NM_000455.4;STK11,intron_variant,,ENST00000585851,;STK11,intron_variant,,ENST00000585748,;STK11,intron_variant,,ENST00000589152,;STK11,intron_variant,,ENST00000593219,;STK11,intron_variant,,ENST00000586358,;"	"G"	"ENSG00000118046"	"ENST00000326873"	"Transcript"	"intron_variant"	"-/3328"	"-/1302"	"-/433"	""	""	""	"1"	NA	1	"STK11"	"HGNC"	11389	"protein_coding"	"YES"	"CCDS45896.1"	"ENSP00000324856"	"Q15831"	"Q9NS52"	"UPI0000136105"	"NM_000455.4"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"235c49a0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107692307692308	"WGS"	TRUE
"13728"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	1893168	1893168	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"82"	8	29	"29"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"235cc3f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"13729"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	1893172	1893172	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"81"	9	30	"30"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"235cc4ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"13730"	"BTBD2"	55643	"mskcc.org"	"GRCh37"	"19"	1992763	1992763	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.684+256T>C"	""	""	"ENST00000255608"	""	90	"82"	8	38	"38"	0	"BTBD2,intron_variant,,ENST00000255608,NM_017797.3;BTBD2,intron_variant,,ENST00000587825,;AC005306.3,downstream_gene_variant,,ENST00000587498,;AC005306.3,downstream_gene_variant,,ENST00000588480,;BTBD2,downstream_gene_variant,,ENST00000590646,;BTBD2,downstream_gene_variant,,ENST00000587742,;BTBD2,downstream_gene_variant,,ENST00000588395,;BTBD2,upstream_gene_variant,,ENST00000592082,;BTBD2,intron_variant,,ENST00000589200,;BTBD2,upstream_gene_variant,,ENST00000592895,;BTBD2,upstream_gene_variant,,ENST00000589685,;BTBD2,upstream_gene_variant,,ENST00000587225,;"	"G"	"ENSG00000133243"	"ENST00000255608"	"Transcript"	"intron_variant"	"-/2635"	"-/1578"	"-/525"	""	""	""	"1"	NA	-1	"BTBD2"	"HGNC"	15504	"protein_coding"	"YES"	"CCDS12078.1"	"ENSP00000255608"	"Q9BX70"	"Q6NT96"	"UPI0000126B02"	"NM_017797.3"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"235cd9d8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"13731"	"AC006277.2"	0	"mskcc.org"	"GRCh37"	"19"	2927890	2927890	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000520090"	""	70	"64"	6	40	"40"	0	"AC006277.2,upstream_gene_variant,,ENST00000520090,;"	"G"	"ENSG00000253392"	"ENST00000520090"	"Transcript"	"upstream_gene_variant"	"-/776"	""	""	""	""	""	"1"	"1085"	-1	"AC006277.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"235dafca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"13732"	"PIP5K1C"	23396	"mskcc.org"	"GRCh37"	"19"	3703766	3703766	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000335312"	""	59	"51"	8	21	"21"	0	"PIP5K1C,upstream_gene_variant,,ENST00000335312,NM_012398.2,NM_001195733.1;TJP3,upstream_gene_variant,,ENST00000541714,NM_001267560.1;PIP5K1C,upstream_gene_variant,,ENST00000537021,;PIP5K1C,upstream_gene_variant,,ENST00000589578,;TJP3,upstream_gene_variant,,ENST00000539908,;PIP5K1C,upstream_gene_variant,,ENST00000539785,;TJP3,upstream_gene_variant,,ENST00000590545,;PIP5K1C,upstream_gene_variant,,ENST00000587482,;"	"G"	"ENSG00000186111"	"ENST00000335312"	"Transcript"	"upstream_gene_variant"	"-/5080"	"-/2007"	"-/668"	""	""	""	"1"	"3289"	-1	"PIP5K1C"	"HGNC"	8996	"protein_coding"	"YES"	"CCDS32872.1"	"ENSP00000335333"	"O60331"	"Q7LE22"	"UPI000019C574"	"NM_012398.2,NM_001195733.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"235e5fe2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135593220338983	"WGS"	FALSE
"13733"	"TICAM1"	148022	"mskcc.org"	"GRCh37"	"19"	4814258	4814258	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000248244"	""	83	"77"	6	39	"39"	0	"TICAM1,downstream_gene_variant,,ENST00000248244,NM_182919.3;"	"T"	"ENSG00000127666"	"ENST00000248244"	"Transcript"	"downstream_gene_variant"	"-/2676"	"-/2139"	"-/712"	""	""	""	"1"	"1686"	-1	"TICAM1"	"HGNC"	18348	"protein_coding"	"YES"	"CCDS12136.1"	"ENSP00000248244"	"Q8IUC6"	""	"UPI000000D72E"	"NM_182919.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAC"	"235f517c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"13734"	"UHRF1"	0	"mskcc.org"	"GRCh37"	"19"	4938951	4938951	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1362-2589A>G"	""	""	"ENST00000592666"	""	72	"62"	10	27	"27"	0	"UHRF1,intron_variant,,ENST00000592666,;UHRF1,intron_variant,,ENST00000398240,;UHRF1,intron_variant,,ENST00000591733,;UHRF1,intron_variant,,ENST00000262952,;UHRF1,intron_variant,,ENST00000591699,;UHRF1,intron_variant,,ENST00000543616,;UHRF1,intron_variant,,ENST00000592200,;UHRF1,intron_variant,,ENST00000587187,;UHRF1,intron_variant,,ENST00000587870,;"	"G"	"ENSG00000034063"	"ENST00000592666"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4308"	""	""	""	""	""	"1"	NA	1	"UHRF1"	"HGNC"	12556	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"5/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"235f72ec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138888888888889	"WGS"	FALSE
"13735"	"KDM4B"	23030	"mskcc.org"	"GRCh37"	"19"	5018091	5018091	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-26+1741C>T"	""	""	"ENST00000159111"	""	112	"104"	8	50	"50"	0	"KDM4B,intron_variant,,ENST00000159111,NM_015015.2;KDM4B,intron_variant,,ENST00000536461,;KDM4B,intron_variant,,ENST00000381759,;KDM4B,intron_variant,,ENST00000588337,;"	"T"	"ENSG00000127663"	"ENST00000159111"	"Transcript"	"intron_variant"	"-/5593"	"-/3291"	"-/1096"	""	""	""	"1"	NA	1	"KDM4B"	"HGNC"	29136	"protein_coding"	"YES"	"CCDS12138.1"	"ENSP00000159111"	"O94953"	"K7ES23"	"UPI00001C202B"	"NM_015015.2"	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"235f7d5a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"13736"	"PTPRS"	5802	"mskcc.org"	"GRCh37"	"19"	5316685	5316685	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-95+23990A>G"	""	""	"ENST00000357368"	""	96	"66"	30	40	"40"	0	"PTPRS,intron_variant,,ENST00000372412,;PTPRS,intron_variant,,ENST00000357368,NM_002850.3;PTPRS,intron_variant,,ENST00000262963,;PTPRS,intron_variant,,ENST00000348075,NM_130854.2;PTPRS,intron_variant,,ENST00000353284,NM_130853.2,NM_130855.2;PTPRS,intron_variant,,ENST00000588552,;"	"C"	"ENSG00000105426"	"ENST00000357368"	"Transcript"	"intron_variant"	"-/7347"	"-/5847"	"-/1948"	""	""	""	"1"	NA	-1	"PTPRS"	"HGNC"	9681	"protein_coding"	"YES"	"CCDS45930.1"	"ENSP00000349932"	"Q13332"	"K7ESP0,K7ERX4"	"UPI000059D63E"	"NM_002850.3"	""	""	""	"1/37"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"235fb360-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"13737"	"CTB-133G6.1"	0	"mskcc.org"	"GRCh37"	"19"	7417533	7417533	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-111+3387C>G"	""	""	"ENST00000576789"	""	51	"47"	4	30	"30"	0	"CTB-133G6.1,intron_variant,,ENST00000576789,;"	"G"	"ENSG00000263264"	"ENST00000576789"	"Transcript"	"intron_variant"	"-/1558"	"-/1149"	"-/382"	""	""	""	"1"	NA	1	"CTB-133G6.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000458866"	"I3L1I5"	""	"UPI00025A2BFA"	""	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"2360fb6c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0784313725490196	"WGS"	FALSE
"13738"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	8355158	8355158	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	28	"24"	4	14	"14"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"2361a706-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"13739"	"DNMT1"	1786	"mskcc.org"	"GRCh37"	"19"	10258706	10258706	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2672+854G>C"	""	""	"ENST00000340748"	""	67	"61"	6	39	"39"	0	"DNMT1,intron_variant,,ENST00000340748,;DNMT1,intron_variant,,ENST00000540357,NM_001379.2;DNMT1,intron_variant,,ENST00000359526,NM_001130823.1;DNMT1,upstream_gene_variant,,ENST00000589538,;DNMT1,intron_variant,,ENST00000592705,;DNMT1,upstream_gene_variant,,ENST00000586588,;DNMT1,downstream_gene_variant,,ENST00000586667,;DNMT1,downstream_gene_variant,,ENST00000586799,;DNMT1,upstream_gene_variant,,ENST00000591239,;"	"G"	"ENSG00000130816"	"ENST00000340748"	"Transcript"	"intron_variant"	"-/5408"	"-/4851"	"-/1616"	""	""	""	"1"	NA	-1	"DNMT1"	"HGNC"	2976	"protein_coding"	""	"CCDS12228.1"	"ENSP00000345739"	"P26358"	"K7ERQ1,K7ENQ6,K7EKC3,B3KVA0"	"UPI0000129694"	""	""	""	""	"26/39"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"236307fe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0895522388059701	"WGS"	FALSE
"13740"	"RAVER1"	125950	"mskcc.org"	"GRCh37"	"19"	10437580	10437580	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.807+1738A>G"	""	""	"ENST00000293677"	""	83	"76"	7	56	"56"	0	"RAVER1,intron_variant,,ENST00000293677,NM_133452.2;RAVER1,intron_variant,,ENST00000592208,;RAVER1,intron_variant,,ENST00000591969,;RAVER1,upstream_gene_variant,,ENST00000593136,;"	"C"	"ENSG00000161847"	"ENST00000293677"	"Transcript"	"intron_variant"	"-/3595"	"-/2271"	"-/756"	""	""	""	"1"	NA	-1	"RAVER1"	"HGNC"	30296	"protein_coding"	"YES"	"CCDS45960.1"	"ENSP00000293677"	""	"K7EQG2,E9PAU2"	"UPI0000E042A4"	"NM_133452.2"	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"236322d4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"13741"	"PDE4A"	5141	"mskcc.org"	"GRCh37"	"19"	10566422	10566422	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.877+824G>T"	""	""	"ENST00000352831"	""	77	"72"	5	46	"46"	0	"PDE4A,intron_variant,,ENST00000380702,;PDE4A,intron_variant,,ENST00000352831,NM_001111307.1;PDE4A,intron_variant,,ENST00000592685,NM_001243121.1;PDE4A,intron_variant,,ENST00000293683,NM_001111308.1;PDE4A,intron_variant,,ENST00000344979,NM_006202.2;PDE4A,intron_variant,,ENST00000440014,NM_001111309.1;PDE4A,intron_variant,,ENST00000591971,;PDE4A,intron_variant,,ENST00000589073,;PDE4A,intron_variant,,ENST00000586275,;PDE4A,upstream_gene_variant,,ENST00000590407,;"	"T"	"ENSG00000065989"	"ENST00000352831"	"Transcript"	"intron_variant"	"-/3643"	"-/2661"	"-/886"	""	""	""	"1"	NA	1	"PDE4A"	"HGNC"	8780	"protein_coding"	"YES"	"CCDS45961.1"	"ENSP00000270474"	"P27815"	"Q86V67"	"UPI0000047003"	"NM_001111307.1"	""	""	""	"7/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"23633be8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0649350649350649	"WGS"	FALSE
"13742"	"PDE4A"	5141	"mskcc.org"	"GRCh37"	"19"	10566430	10566430	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.877+832C>A"	""	""	"ENST00000352831"	""	76	"69"	7	44	"44"	0	"PDE4A,intron_variant,,ENST00000380702,;PDE4A,intron_variant,,ENST00000352831,NM_001111307.1;PDE4A,intron_variant,,ENST00000592685,NM_001243121.1;PDE4A,intron_variant,,ENST00000293683,NM_001111308.1;PDE4A,intron_variant,,ENST00000344979,NM_006202.2;PDE4A,intron_variant,,ENST00000440014,NM_001111309.1;PDE4A,intron_variant,,ENST00000591971,;PDE4A,intron_variant,,ENST00000589073,;PDE4A,intron_variant,,ENST00000586275,;PDE4A,upstream_gene_variant,,ENST00000590407,;"	"A"	"ENSG00000065989"	"ENST00000352831"	"Transcript"	"intron_variant"	"-/3643"	"-/2661"	"-/886"	""	""	""	"1"	NA	1	"PDE4A"	"HGNC"	8780	"protein_coding"	"YES"	"CCDS45961.1"	"ENSP00000270474"	"P27815"	"Q86V67"	"UPI0000047003"	"NM_001111307.1"	""	""	""	"7/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"23633cc4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"13743"	"PDE4A"	5141	"mskcc.org"	"GRCh37"	"19"	10567315	10567315	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.878-1240C>G"	""	""	"ENST00000352831"	""	93	"85"	8	51	"51"	0	"PDE4A,intron_variant,,ENST00000380702,;PDE4A,intron_variant,,ENST00000352831,NM_001111307.1;PDE4A,intron_variant,,ENST00000592685,NM_001243121.1;PDE4A,intron_variant,,ENST00000293683,NM_001111308.1;PDE4A,intron_variant,,ENST00000344979,NM_006202.2;PDE4A,intron_variant,,ENST00000440014,NM_001111309.1;PDE4A,intron_variant,,ENST00000591971,;PDE4A,intron_variant,,ENST00000589073,;PDE4A,intron_variant,,ENST00000586275,;PDE4A,upstream_gene_variant,,ENST00000590407,;"	"G"	"ENSG00000065989"	"ENST00000352831"	"Transcript"	"intron_variant"	"-/3643"	"-/2661"	"-/886"	""	""	""	"1"	NA	1	"PDE4A"	"HGNC"	8780	"protein_coding"	"YES"	"CCDS45961.1"	"ENSP00000270474"	"P27815"	"Q86V67"	"UPI0000047003"	"NM_001111307.1"	""	""	""	"7/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"23633d78-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0860215053763441	"WGS"	FALSE
"13744"	"DOCK6"	57572	"mskcc.org"	"GRCh37"	"19"	11370265	11370265	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.44+2808C>T"	""	""	"ENST00000294618"	""	51	"45"	6	23	"23"	0	"DOCK6,intron_variant,,ENST00000294618,NM_020812.3;DOCK6,intron_variant,,ENST00000585609,;"	"A"	"ENSG00000130158"	"ENST00000294618"	"Transcript"	"intron_variant"	"-/6358"	"-/6144"	"-/2047"	""	""	""	"1"	NA	-1	"DOCK6"	"HGNC"	19189	"protein_coding"	"YES"	"CCDS45975.1"	"ENSP00000294618"	"Q96HP0"	""	"UPI000059D66F"	"NM_020812.3"	""	""	""	"1/47"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"2363cacc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"13745"	"ZNF653"	115950	"mskcc.org"	"GRCh37"	"19"	11599747	11599747	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.560-1029A>G"	""	""	"ENST00000293771"	""	92	"83"	9	46	"46"	0	"ZNF653,intron_variant,,ENST00000293771,NM_138783.3;ZNF653,upstream_gene_variant,,ENST00000590296,;ZNF653,upstream_gene_variant,,ENST00000589051,;ZNF653,upstream_gene_variant,,ENST00000592756,;ZNF653,intron_variant,,ENST00000590548,;CTC-398G3.6,intron_variant,,ENST00000585656,;"	"C"	"ENSG00000161914"	"ENST00000293771"	"Transcript"	"intron_variant"	"-/2240"	"-/1848"	"-/615"	""	""	""	"1"	NA	-1	"ZNF653"	"HGNC"	25196	"protein_coding"	"YES"	"CCDS12261.1"	"ENSP00000293771"	"Q96CK0"	""	"UPI000006FAFC"	"NM_138783.3"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"2363f89e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0978260869565217	"WGS"	FALSE
"13746"	"ZNF653"	115950	"mskcc.org"	"GRCh37"	"19"	11614392	11614392	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.299+1911T>G"	""	""	"ENST00000293771"	""	110	"98"	12	36	"36"	0	"ZNF653,intron_variant,,ENST00000293771,NM_138783.3;ECSIT,downstream_gene_variant,,ENST00000270517,NM_016581.4;ECSIT,downstream_gene_variant,,ENST00000252440,NM_001142464.2;ECSIT,downstream_gene_variant,,ENST00000591104,NM_001243204.1;ECSIT,downstream_gene_variant,,ENST00000592312,;ECSIT,downstream_gene_variant,,ENST00000585318,;ECSIT,downstream_gene_variant,,ENST00000417981,NM_001142465.2;ECSIT,downstream_gene_variant,,ENST00000588998,;ZNF653,intron_variant,,ENST00000593191,;ECSIT,downstream_gene_variant,,ENST00000591352,;ZNF653,intron_variant,,ENST00000590548,;CTC-398G3.6,intron_variant,,ENST00000585656,;ZNF653,intron_variant,,ENST00000588541,;ECSIT,downstream_gene_variant,,ENST00000592571,;ECSIT,downstream_gene_variant,,ENST00000593231,;ECSIT,downstream_gene_variant,,ENST00000585898,;"	"C"	"ENSG00000161914"	"ENST00000293771"	"Transcript"	"intron_variant"	"-/2240"	"-/1848"	"-/615"	""	""	""	"1"	NA	-1	"ZNF653"	"HGNC"	25196	"protein_coding"	"YES"	"CCDS12261.1"	"ENSP00000293771"	"Q96CK0"	""	"UPI000006FAFC"	"NM_138783.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"2363ff6a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109090909090909	"WGS"	FALSE
"13747"	"ZNF823"	55552	"mskcc.org"	"GRCh37"	"19"	11827912	11827912	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000341191"	""	96	"90"	6	35	"35"	0	"ZNF823,downstream_gene_variant,,ENST00000341191,NM_001080493.2;ZNF823,downstream_gene_variant,,ENST00000545749,;ZNF823,downstream_gene_variant,,ENST00000431998,;"	"C"	"ENSG00000197933"	"ENST00000341191"	"Transcript"	"downstream_gene_variant"	"-/2423"	"-/1833"	"-/610"	""	""	""	"1"	"4168"	-1	"ZNF823"	"HGNC"	30936	"protein_coding"	"YES"	"CCDS45981.1"	"ENSP00000340683"	"P16415"	"K7EN93,C9J2N8,B7Z8D4"	"UPI0000203407"	"NM_001080493.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"236416f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"13748"	"ZNF44"	51710	"mskcc.org"	"GRCh37"	"19"	12400059	12400059	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.147+3988C>A"	""	""	"ENST00000356109"	""	100	"71"	29	39	"39"	0	"ZNF44,intron_variant,,ENST00000356109,NM_001164276.1;ZNF44,intron_variant,,ENST00000355684,NM_016264.3;ZNF44,intron_variant,,ENST00000393337,;ZNF44,intron_variant,,ENST00000397742,;ZNF44,intron_variant,,ENST00000600003,;ZNF44,intron_variant,,ENST00000354656,;ZNF44,downstream_gene_variant,,ENST00000483826,;CTD-2666L21.2,downstream_gene_variant,,ENST00000428058,;"	"T"	"ENSG00000197857"	"ENST00000356109"	"Transcript"	"intron_variant"	"-/2706"	"-/1992"	"-/663"	""	""	""	"1"	NA	-1	"ZNF44"	"HGNC"	13110	"protein_coding"	"YES"	"CCDS54223.1"	"ENSP00000348419"	"P15621"	"Q6LDH8,O14858"	"UPI00017A7462"	"NM_001164276.1"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"23644aba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29	"WGS"	FALSE
"13749"	"ZNF709"	163051	"mskcc.org"	"GRCh37"	"19"	12618209	12618209	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4-40545C>A"	""	""	"ENST00000428311"	""	12	"8"	4	10	"10"	0	"ZNF709,intron_variant,,ENST00000428311,;ZNF709,intron_variant,,ENST00000455490,;ZNF709,intron_variant,,ENST00000493776,;CTD-3105H18.11,intron_variant,,ENST00000416987,;CTD-3105H18.8,downstream_gene_variant,,ENST00000436718,;CTD-3105H18.9,downstream_gene_variant,,ENST00000420740,;CTD-3105H18.10,downstream_gene_variant,,ENST00000448269,;PPIAP20,upstream_gene_variant,,ENST00000449839,;"	"T"	"ENSG00000196826"	"ENST00000428311"	"Transcript"	"intron_variant"	"-/4505"	"-/1926"	"-/641"	""	""	""	"1"	NA	-1	"ZNF709"	"Uniprot_gn"	20629	"protein_coding"	"YES"	""	"ENSP00000404127"	""	""	"UPI000006CF50"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"2364786e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"13750"	"ZNF709"	163051	"mskcc.org"	"GRCh37"	"19"	12647037	12647037	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3+15107A>G"	""	""	"ENST00000428311"	""	108	"74"	34	55	"55"	0	"ZNF709,intron_variant,,ENST00000428311,;ZNF564,intron_variant,,ENST00000339282,NM_144976.3;ZNF564,intron_variant,,ENST00000596193,;CTD-2192J16.21,upstream_gene_variant,,ENST00000601420,;CTD-2192J16.20,intron_variant,,ENST00000593682,;ZNF564,intron_variant,,ENST00000427105,;"	"C"	"ENSG00000196826"	"ENST00000428311"	"Transcript"	"intron_variant"	"-/4505"	"-/1926"	"-/641"	""	""	""	"1"	NA	-1	"ZNF709"	"Uniprot_gn"	20629	"protein_coding"	"YES"	""	"ENSP00000404127"	""	""	"UPI000006CF50"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"23647cce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314814814814815	"WGS"	FALSE
"13751"	"ZNF709"	163051	"mskcc.org"	"GRCh37"	"19"	12655810	12655810	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3+6334A>G"	""	""	"ENST00000428311"	""	92	"63"	29	32	"32"	0	"ZNF709,intron_variant,,ENST00000428311,;ZNF564,intron_variant,,ENST00000339282,NM_144976.3;ZNF564,intron_variant,,ENST00000596193,;ZNF564,downstream_gene_variant,,ENST00000416136,;CTD-2192J16.20,intron_variant,,ENST00000593682,;ZNF564,intron_variant,,ENST00000427105,;"	"C"	"ENSG00000196826"	"ENST00000428311"	"Transcript"	"intron_variant"	"-/4505"	"-/1926"	"-/641"	""	""	""	"1"	NA	-1	"ZNF709"	"Uniprot_gn"	20629	"protein_coding"	"YES"	""	"ENSP00000404127"	""	""	"UPI000006CF50"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"23648246-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315217391304348	"WGS"	FALSE
"13752"	"NFIX"	4784	"mskcc.org"	"GRCh37"	"19"	13167072	13167072	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.560-16789G>T"	""	""	"ENST00000397661"	""	85	"59"	26	48	"48"	0	"NFIX,intron_variant,,ENST00000358552,;NFIX,intron_variant,,ENST00000360105,;NFIX,intron_variant,,ENST00000397661,NM_002501.2;NFIX,intron_variant,,ENST00000588228,NM_001271043.1;NFIX,intron_variant,,ENST00000587260,;NFIX,intron_variant,,ENST00000592199,;NFIX,intron_variant,,ENST00000587760,NM_001271044.1;NFIX,intron_variant,,ENST00000585575,;NFIX,intron_variant,,ENST00000586797,;NFIX,intron_variant,,ENST00000585382,;"	"T"	"ENSG00000008441"	"ENST00000397661"	"Transcript"	"intron_variant"	"-/3143"	"-/1326"	"-/441"	""	""	""	"1"	NA	1	"NFIX"	"HGNC"	7788	"protein_coding"	"YES"	"CCDS45996.1"	"ENSP00000380781"	"Q14938"	"K7ESG9,K7EKH0"	"UPI000002AF1D"	"NM_002501.2"	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"2364d390-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305882352941176	"WGS"	FALSE
"13753"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	13288546	13288546	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"76"	10	39	"39"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"2364e506-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116279069767442	"WGS"	FALSE
"13754"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	13288551	13288551	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"77"	12	38	"38"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"2364e5b0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134831460674157	"WGS"	FALSE
"13755"	"CACNA1A"	773	"mskcc.org"	"GRCh37"	"19"	13343339	13343339	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5250-665T>A"	""	""	"ENST00000360228"	""	67	"62"	5	37	"37"	0	"CACNA1A,intron_variant,,ENST00000360228,NM_001127222.1,NM_001174080.1,NM_023035.2,NM_000068.3;CACNA1A,intron_variant,,ENST00000573710,NM_001127221.1;CACNA1A,intron_variant,,ENST00000587525,;CACNA1A,intron_variant,,ENST00000585802,;CACNA1A,intron_variant,,ENST00000574822,;CACNA1A,intron_variant,,ENST00000573891,;CACNA1A,downstream_gene_variant,,ENST00000593267,;"	"T"	"ENSG00000141837"	"ENST00000360228"	"Transcript"	"intron_variant"	"-/8392"	"-/7521"	"-/2506"	""	""	""	"1"	NA	-1	"CACNA1A"	"HGNC"	1388	"protein_coding"	"YES"	"CCDS45998.1"	"ENSP00000353362"	"O00555"	"Q9UN69,Q9UHM9"	"UPI0000141565"	"NM_001127222.1,NM_001174080.1,NM_023035.2,NM_000068.3"	""	""	""	"34/46"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"2364fc44-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0746268656716418	"WGS"	FALSE
"13756"	"CACNA1A"	773	"mskcc.org"	"GRCh37"	"19"	13693967	13693967	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67+16600C>T"	""	""	"ENST00000592864"	""	66	"46"	20	41	"41"	0	"CACNA1A,intron_variant,,ENST00000592864,;CACNA1A,intron_variant,,ENST00000574974,;"	"A"	"ENSG00000141837"	"ENST00000592864"	"Transcript"	"intron_variant"	"-/744"	"-/108"	"-/35"	""	""	""	"1"	NA	-1	"CACNA1A"	"HGNC"	1388	"protein_coding"	""	""	"ENSP00000464729"	""	"K7EIF8"	"UPI0002840ACD"	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"23652598-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303030303030303	"WGS"	FALSE
"13757"	"BRD4"	23476	"mskcc.org"	"GRCh37"	"19"	15443065	15443065	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-35+36C>T"	""	""	"ENST00000360016"	""	42	"29"	13	30	"30"	0	"BRD4,intron_variant,,ENST00000360016,;BRD4,upstream_gene_variant,,ENST00000594841,;BRD4,upstream_gene_variant,,ENST00000601941,;BRD4,intron_variant,,ENST00000597315,;"	"A"	"ENSG00000141867"	"ENST00000360016"	"Transcript"	"intron_variant"	"-/3240"	"-/2385"	"-/794"	""	""	""	"1"	NA	-1	"BRD4"	"HGNC"	13575	"protein_coding"	""	""	"ENSP00000353112"	"O60885"	"M0R0H4,M0QZD9"	"UPI00001AFFBD"	""	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"23662e48-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30952380952381	"WGS"	TRUE
"13758"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	15912174	15912174	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	64	"51"	13	26	"26"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"23666a7a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203125	"WGS"	FALSE
"13759"	"ENSR00000344283"	0	"mskcc.org"	"GRCh37"	"19"	16447758	16447758	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000344283"	""	94	"86"	8	34	"34"	0	""	"A"	""	"ENSR00000344283"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"2366c420-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"13760"	"TMEM38A"	79041	"mskcc.org"	"GRCh37"	"19"	16779105	16779105	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.124+6953C>T"	""	""	"ENST00000187762"	""	100	"67"	33	45	"45"	0	"TMEM38A,intron_variant,,ENST00000187762,NM_024074.1;TMEM38A,intron_variant,,ENST00000599479,;TMEM38A,intron_variant,,ENST00000595452,;"	"T"	"ENSG00000072954"	"ENST00000187762"	"Transcript"	"intron_variant"	"-/2649"	"-/900"	"-/299"	""	""	""	"1"	NA	1	"TMEM38A"	"HGNC"	28462	"protein_coding"	"YES"	"CCDS12349.1"	"ENSP00000187762"	"Q9H6F2"	""	"UPI000006E0B9"	"NM_024074.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"2366e40a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.33	"WGS"	FALSE
"13761"	"NWD1"	284434	"mskcc.org"	"GRCh37"	"19"	16898468	16898468	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2732-1325T>C"	""	""	"ENST00000524140"	""	86	"75"	11	32	"32"	0	"NWD1,intron_variant,,ENST00000524140,NM_001007525.3;NWD1,intron_variant,,ENST00000552788,;NWD1,intron_variant,,ENST00000549814,;NWD1,intron_variant,,ENST00000523826,;NWD1,intron_variant,,ENST00000379808,;NWD1,intron_variant,,ENST00000339803,;NWD1,intron_variant,,ENST00000518676,;NWD1,intron_variant,,ENST00000438489,;"	"C"	"ENSG00000188039"	"ENST00000524140"	"Transcript"	"intron_variant"	"-/7641"	"-/4299"	"-/1432"	""	""	""	"1"	NA	1	"NWD1"	"HGNC"	27619	"protein_coding"	"YES"	"CCDS32945.2"	"ENSP00000428579"	"Q149M9"	""	"UPI0000D6173E"	"NM_001007525.3"	""	""	""	"12/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"2366fdc8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127906976744186	"WGS"	FALSE
"13762"	"OCEL1"	79629	"mskcc.org"	"GRCh37"	"19"	17336034	17336034	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000215061"	""	80	"74"	6	33	"33"	0	"OCEL1,upstream_gene_variant,,ENST00000598068,;OCEL1,upstream_gene_variant,,ENST00000215061,NM_024578.1;OCEL1,upstream_gene_variant,,ENST00000597836,;OCEL1,upstream_gene_variant,,ENST00000601529,;OCEL1,upstream_gene_variant,,ENST00000600232,;OCEL1,upstream_gene_variant,,ENST00000595573,;OCEL1,upstream_gene_variant,,ENST00000600826,;OCEL1,upstream_gene_variant,,ENST00000601576,;OCEL1,upstream_gene_variant,,ENST00000602236,;OCEL1,upstream_gene_variant,,ENST00000599588,;OCEL1,upstream_gene_variant,,ENST00000594283,;OCEL1,upstream_gene_variant,,ENST00000596279,;OCEL1,upstream_gene_variant,,ENST00000598172,;OCEL1,upstream_gene_variant,,ENST00000595769,;OCEL1,upstream_gene_variant,,ENST00000599286,;"	"C"	"ENSG00000099330"	"ENST00000215061"	"Transcript"	"upstream_gene_variant"	"-/1133"	"-/795"	"-/264"	""	""	""	"1"	"979"	1	"OCEL1"	"HGNC"	26221	"protein_coding"	"YES"	"CCDS12351.1"	"ENSP00000215061"	"Q9H607"	"M0QZ36"	"UPI000006D43F"	"NM_024578.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"23673ab8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"13763"	"B3GNT3"	10331	"mskcc.org"	"GRCh37"	"19"	17912158	17912158	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-51+6143T>C"	""	""	"ENST00000318683"	""	80	"71"	9	38	"38"	0	"B3GNT3,intron_variant,,ENST00000318683,NM_014256.3;B3GNT3,intron_variant,,ENST00000595387,;B3GNT3,intron_variant,,ENST00000599265,;B3GNT3,intron_variant,,ENST00000600777,;"	"C"	"ENSG00000179913"	"ENST00000318683"	"Transcript"	"intron_variant"	"-/2226"	"-/1119"	"-/372"	""	""	""	"1"	NA	1	"B3GNT3"	"HGNC"	13528	"protein_coding"	"YES"	"CCDS12364.1"	"ENSP00000321874"	"Q9Y2A9"	"M0R199,M0QX58"	"UPI000007021E"	"NM_014256.3"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"2367a5fc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1125	"WGS"	FALSE
"13764"	"IFI30"	10437	"mskcc.org"	"GRCh37"	"19"	18292546	18292546	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000407280"	""	79	"73"	6	34	"34"	0	"IFI30,downstream_gene_variant,,ENST00000407280,NM_006332.4;PIK3R2,downstream_gene_variant,,ENST00000593731,;IFI30,downstream_gene_variant,,ENST00000600463,;"	"C"	"ENSG00000216490"	"ENST00000407280"	"Transcript"	"downstream_gene_variant"	"-/1134"	"-/753"	"-/250"	""	""	""	"1"	"3619"	1	"IFI30"	"HGNC"	5398	"protein_coding"	"YES"	"CCDS46015.1"	"ENSP00000384886"	"P13284"	"M0QZG3"	"UPI0000072A2B"	"NM_006332.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"2367ec1a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"13765"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	18295788	18295788	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"92"	7	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"2367ecce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0707070707070707	"WGS"	FALSE
"13766"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	18661362	18661362	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	33	"29"	4	19	"19"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"23682766-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"13767"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	18661367	18661367	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	34	"30"	4	20	"20"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"2368281a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"13768"	"CRTC1"	23373	"mskcc.org"	"GRCh37"	"19"	18862594	18862594	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs180996744"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.587-1716C>T"	""	""	"ENST00000338797"	""	74	"68"	6	58	"58"	0	"CRTC1,intron_variant,,ENST00000338797,NM_001098482.1;CRTC1,intron_variant,,ENST00000321949,NM_015321.2;CRTC1,intron_variant,,ENST00000594658,;CRTC1,intron_variant,,ENST00000601916,;"	"T"	"ENSG00000105662"	"ENST00000338797"	"Transcript"	"intron_variant"	"-/6790"	"-/1953"	"-/650"	""	""	"rs180996744"	"1"	NA	1	"CRTC1"	"HGNC"	16062	"protein_coding"	"YES"	"CCDS42525.1"	"ENSP00000345001"	"Q6UUV9"	""	"UPI00001D9A88"	"NM_001098482.1"	""	""	""	"6/14"	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"23683be8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	TRUE
"13769"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	18930445	18930445	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"96"	7	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"236845ca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0679611650485437	"WGS"	FALSE
"13770"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	18930461	18930461	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"96"	11	46	"46"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"2368473c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102803738317757	"WGS"	FALSE
"13771"	"TMEM161A"	54929	"mskcc.org"	"GRCh37"	"19"	19236451	19236451	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.596-3823G>C"	""	""	"ENST00000162044"	""	76	"71"	5	39	"39"	0	"TMEM161A,intron_variant,,ENST00000450333,NM_001256766.1;TMEM161A,intron_variant,,ENST00000162044,NM_017814.2;TMEM161A,intron_variant,,ENST00000587583,;TMEM161A,intron_variant,,ENST00000587096,;TMEM161A,intron_variant,,ENST00000587925,;TMEM161A,downstream_gene_variant,,ENST00000587915,;TMEM161A,downstream_gene_variant,,ENST00000592369,;TMEM161A,intron_variant,,ENST00000587406,;TMEM161A,intron_variant,,ENST00000589448,;TMEM161A,intron_variant,,ENST00000587985,;TMEM161A,intron_variant,,ENST00000590216,;TMEM161A,intron_variant,,ENST00000591031,;TMEM161A,upstream_gene_variant,,ENST00000591443,;"	"G"	"ENSG00000064545"	"ENST00000162044"	"Transcript"	"intron_variant"	"-/1820"	"-/1440"	"-/479"	""	""	""	"1"	NA	-1	"TMEM161A"	"HGNC"	26020	"protein_coding"	"YES"	"CCDS12393.1"	"ENSP00000162044"	"Q9NX61"	"K7EQE7,K7EQ34"	"UPI00000373EF"	"NM_017814.2"	""	""	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"23687c34-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0657894736842105	"WGS"	FALSE
"13772"	"NCAN"	1463	"mskcc.org"	"GRCh37"	"19"	19336646	19336646	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs764029024"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1072+567C>T"	""	""	"ENST00000252575"	""	73	"46"	27	42	"42"	0	"NCAN,intron_variant,,ENST00000252575,NM_004386.2;NCAN,upstream_gene_variant,,ENST00000538881,;NCAN,upstream_gene_variant,,ENST00000590187,;"	"T"	"ENSG00000130287"	"ENST00000252575"	"Transcript"	"intron_variant"	"-/6387"	"-/3966"	"-/1321"	""	""	"rs764029024"	"1"	NA	1	"NCAN"	"HGNC"	2465	"protein_coding"	"YES"	"CCDS12397.1"	"ENSP00000252575"	"O14594"	"Q4LE67,F5H7X3"	"UPI000013CD70"	"NM_004386.2"	""	""	""	"6/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"23688922-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36986301369863	"WGS"	FALSE
"13773"	"ZNF101"	94039	"mskcc.org"	"GRCh37"	"19"	19796191	19796191	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000592502"	""	82	"73"	9	34	"34"	0	"ZNF101,downstream_gene_variant,,ENST00000592502,;ZNF101,downstream_gene_variant,,ENST00000586745,;ZNF101,downstream_gene_variant,,ENST00000318110,;ZNF101,downstream_gene_variant,,ENST00000585565,;"	"C"	"ENSG00000181896"	"ENST00000592502"	"Transcript"	"downstream_gene_variant"	"-/4627"	"-/1311"	"-/436"	""	""	""	"1"	"1876"	1	"ZNF101"	"HGNC"	12881	"protein_coding"	"YES"	"CCDS32971.1"	"ENSP00000468049"	"Q8IZC7"	"Q96F93,Q0VDG9,K7ENV8"	"UPI0000074138"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"2368bf64-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109756097560976	"WGS"	FALSE
"13774"	"ZNF66"	0	"mskcc.org"	"GRCh37"	"19"	20964148	20964148	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3+4892A>C"	""	""	"ENST00000344519"	""	98	"69"	29	48	"47"	1	"ZNF66,intron_variant,,ENST00000344519,;ZNF66,intron_variant,,ENST00000360204,;ZNF66,intron_variant,,ENST00000594534,;CTD-2626G11.3,downstream_gene_variant,,ENST00000593398,;"	"C"	"ENSG00000160229"	"ENST00000344519"	"Transcript"	"intron_variant"	"-/1745"	"-/1722"	"-/573"	""	""	""	"1"	NA	1	"ZNF66"	"HGNC"	13135	"protein_coding"	"YES"	""	"ENSP00000461425"	"Q6ZN08"	""	"UPI00025A2C0A"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"23691504-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.295918367346939	"WGS"	FALSE
"13775"	"ZNF738"	0	"mskcc.org"	"GRCh37"	"19"	21566738	21566738	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000311015"	""	72	"66"	6	42	"42"	0	"ZNF738,downstream_gene_variant,,ENST00000311015,;ZNF738,downstream_gene_variant,,ENST00000380870,;CTD-2561J22.2,non_coding_transcript_exon_variant,,ENST00000594254,;CTD-2561J22.2,non_coding_transcript_exon_variant,,ENST00000433190,;CTD-2561J22.1,upstream_gene_variant,,ENST00000597319,;"	"C"	"ENSG00000172687"	"ENST00000311015"	"Transcript"	"downstream_gene_variant"	"-/2442"	"-/414"	"-/137"	""	""	""	"1"	"4636"	1	"ZNF738"	"HGNC"	32469	"protein_coding"	"YES"	""	"ENSP00000311957"	"Q8NE65"	""	"UPI000006D73F"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"23696824-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13776"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	22394980	22394980	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	61	"56"	5	40	"40"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"2369b4e6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0819672131147541	"WGS"	FALSE
"13777"	"ZNF729"	100287226	"mskcc.org"	"GRCh37"	"19"	22498352	22498352	"+"	"Silent"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2133C>G"	"p.="	"p.P711P"	"ENST00000601693"	"4/4"	100	"93"	7	44	"44"	0	"ZNF729,synonymous_variant,p.=,ENST00000601693,;ZNF729,synonymous_variant,p.=,ENST00000357491,NM_001242680.1;"	"G"	"ENSG00000196350"	"ENST00000601693"	"Transcript"	"synonymous_variant"	"2251/3877"	"2133/3759"	"711/1252"	"P"	"ccC/ccG"	""	"1"	NA	1	"ZNF729"	"HGNC"	32464	"protein_coding"	"YES"	"CCDS59368.1"	"ENSP00000469582"	""	"M0QY45"	"UPI000042600C"	""	""	""	"4/4"	""	"PROSITE_profiles:PS50157,hmmpanther:PTHR24375:SF102,hmmpanther:PTHR24375,Gene3D:3.30.160.60,Pfam_domain:PF13465,Superfamily_domains:SSF57667,Superfamily_domains:SSF57667"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"2369c12a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.07	"WGS"	FALSE
"13778"	"ZNF492"	57615	"mskcc.org"	"GRCh37"	"19"	22822220	22822220	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-94+4944A>T"	""	""	"ENST00000456783"	""	79	"49"	30	50	"50"	0	"ZNF492,intron_variant,,ENST00000456783,NM_020855.2;"	"T"	"ENSG00000229676"	"ENST00000456783"	"Transcript"	"intron_variant"	"-/4245"	"-/1596"	"-/531"	""	""	""	"1"	NA	1	"ZNF492"	"HGNC"	23707	"protein_coding"	"YES"	"CCDS46032.1"	"ENSP00000413660"	"Q9P255"	""	"UPI00001C200B"	"NM_020855.2"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"2369d9ee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.379746835443038	"WGS"	FALSE
"13779"	"CTD-2579N5.4"	0	"mskcc.org"	"GRCh37"	"19"	23109047	23109047	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000598203"	""	15	"11"	4	8	"8"	0	"CTD-2579N5.4,downstream_gene_variant,,ENST00000598203,;"	"A"	"ENSG00000269458"	"ENST00000598203"	"Transcript"	"downstream_gene_variant"	"-/171"	""	""	""	""	""	"1"	"698"	1	"CTD-2579N5.4"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"2369eefc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"13780"	"ZNF675"	171392	"mskcc.org"	"GRCh37"	"19"	23756664	23756664	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.227-45848A>C"	""	""	"ENST00000601935"	""	93	"67"	26	46	"46"	0	"ZNF675,intron_variant,,ENST00000601935,;ZNF675,intron_variant,,ENST00000600313,;ZNF675,downstream_gene_variant,,ENST00000596211,;"	"G"	"ENSG00000197372"	"ENST00000601935"	"Transcript"	"intron_variant"	"-/1444"	"-/354"	"-/117"	""	""	""	"1"	NA	-1	"ZNF675"	"HGNC"	30768	"protein_coding"	""	""	"ENSP00000469379"	""	"M0QXU1"	"UPI0000D49DDE"	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"236a24ee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279569892473118	"WGS"	FALSE
"13781"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	30251488	30251488	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"60"	27	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"236bef72-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"13782"	"ENSR00001418763"	0	"mskcc.org"	"GRCh37"	"19"	32206118	32206118	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001418763"	""	73	"67"	6	53	"53"	0	""	"A"	""	"ENSR00001418763"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"236c715e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"13783"	"AC011518.1"	101927411	"mskcc.org"	"GRCh37"	"19"	32596536	32596536	"+"	"RNA"	"SNP"	"G"	"A"	"A"	"rs752021304"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.287C>T"	""	""	"ENST00000591212"	"1/4"	89	"59"	30	49	"49"	0	"AC011518.1,non_coding_transcript_exon_variant,,ENST00000591212,;AC011518.2,intron_variant,,ENST00000591232,;AC011518.2,downstream_gene_variant,,ENST00000593038,;AC011518.2,downstream_gene_variant,,ENST00000592668,;"	"A"	"ENSG00000267204"	"ENST00000591212"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"287/2908"	""	""	""	""	"rs752021304"	"1"	NA	-1	"AC011518.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"236c841e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337078651685393	"WGS"	FALSE
"13784"	"NUDT19"	390916	"mskcc.org"	"GRCh37"	"19"	33203519	33203519	"+"	"3'UTR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*656G>A"	""	""	"ENST00000397061"	"3/3"	87	"72"	15	45	"45"	0	"NUDT19,3_prime_UTR_variant,,ENST00000397061,NM_001105570.1;"	"A"	"ENSG00000213965"	"ENST00000397061"	"Transcript"	"3_prime_UTR_variant"	"1784/2967"	"-/1128"	"-/375"	""	""	""	"1"	NA	1	"NUDT19"	"HGNC"	32036	"protein_coding"	"YES"	"CCDS42543.1"	"ENSP00000380251"	"A8MXV4"	""	"UPI00001D819F"	"NM_001105570.1"	""	""	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"236cde5a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WGS"	FALSE
"13785"	"RHPN2"	85415	"mskcc.org"	"GRCh37"	"19"	33548560	33548560	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.69+7130A>G"	""	""	"ENST00000254260"	""	69	"62"	7	30	"30"	0	"RHPN2,intron_variant,,ENST00000254260,NM_033103.4;RHPN2,intron_variant,,ENST00000400226,;RHPN2,intron_variant,,ENST00000588388,;"	"C"	"ENSG00000131941"	"ENST00000254260"	"Transcript"	"intron_variant"	"-/3500"	"-/2061"	"-/686"	""	""	""	"1"	NA	-1	"RHPN2"	"HGNC"	19974	"protein_coding"	"YES"	"CCDS12427.1"	"ENSP00000254260"	"Q8IUC4"	"B4DUS7,B3KX27"	"UPI00000747A3"	"NM_033103.4"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"236d0fa6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101449275362319	"WGS"	FALSE
"13786"	"GPI"	2821	"mskcc.org"	"GRCh37"	"19"	34877281	34877281	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.837+4857C>G"	""	""	"ENST00000415930"	""	66	"59"	7	43	"43"	0	"GPI,intron_variant,,ENST00000415930,NM_001184722.1;GPI,intron_variant,,ENST00000356487,NM_000175.3;GPI,intron_variant,,ENST00000588991,;GPI,intron_variant,,ENST00000586425,;"	"G"	"ENSG00000105220"	"ENST00000415930"	"Transcript"	"intron_variant"	"-/4000"	"-/1710"	"-/569"	""	""	""	"1"	NA	1	"GPI"	"HGNC"	4458	"protein_coding"	"YES"	"CCDS54246.1"	"ENSP00000405573"	"P06744"	"K7EPY4,K7ERK8,K7ELR7,K7EIL4,B4DE36"	"UPI00017A6DE4"	"NM_001184722.1"	""	""	""	"9/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"236d82ce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106060606060606	"WGS"	FALSE
"13787"	"ENSR00001692743"	0	"mskcc.org"	"GRCh37"	"19"	35701953	35701953	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001692743"	""	91	"63"	28	55	"55"	0	""	"T"	""	"ENSR00001692743"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"236dc04a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"13788"	"AC002511.1"	100128682	"mskcc.org"	"GRCh37"	"19"	35885913	35885913	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000601669"	""	78	"70"	8	39	"39"	0	"AC002511.1,upstream_gene_variant,,ENST00000601669,;AC002511.1,upstream_gene_variant,,ENST00000602653,;AC002511.1,upstream_gene_variant,,ENST00000602796,;AC002511.1,upstream_gene_variant,,ENST00000602468,;AC002511.1,upstream_gene_variant,,ENST00000441942,;"	"C"	"ENSG00000205786"	"ENST00000601669"	"Transcript"	"upstream_gene_variant"	"-/912"	""	""	""	""	""	"1"	"4520"	1	"AC002511.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"236dd116-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"13789"	"ENSR00001418976"	0	"mskcc.org"	"GRCh37"	"19"	36624940	36624940	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001418976"	""	73	"63"	10	29	"29"	0	""	"C"	""	"ENSR00001418976"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"236e276a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136986301369863	"WGS"	FALSE
"13790"	"ZNF565"	147929	"mskcc.org"	"GRCh37"	"19"	36691038	36691038	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9+1841C>G"	""	""	"ENST00000392173"	""	94	"86"	8	46	"46"	0	"ZNF565,intron_variant,,ENST00000355114,;ZNF565,intron_variant,,ENST00000392173,NM_001042474.1;ZNF565,intron_variant,,ENST00000304116,NM_152477.3;ZNF565,intron_variant,,ENST00000591473,;ZNF565,intron_variant,,ENST00000585994,;Y_RNA,downstream_gene_variant,,ENST00000363309,;ZNF565,intron_variant,,ENST00000587803,;ZNF565,intron_variant,,ENST00000586648,;"	"C"	"ENSG00000196357"	"ENST00000392173"	"Transcript"	"intron_variant"	"-/1931"	"-/1500"	"-/499"	""	""	""	"1"	NA	-1	"ZNF565"	"HGNC"	26726	"protein_coding"	"YES"	"CCDS12491.1"	"ENSP00000376013"	"Q8N9K5"	"K7ESE2,K7EL42"	"UPI000006E728"	"NM_001042474.1"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"236e34ee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"13791"	"SPINT2"	10653	"mskcc.org"	"GRCh37"	"19"	38762798	38762798	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.106+7160A>G"	""	""	"ENST00000301244"	""	84	"75"	9	48	"48"	0	"SPINT2,intron_variant,,ENST00000301244,NM_021102.3;SPINT2,intron_variant,,ENST00000454580,NM_001166103.1;SPINT2,intron_variant,,ENST00000587090,;SPINT2,intron_variant,,ENST00000587516,;SPINT2,intron_variant,,ENST00000592007,;SPINT2,intron_variant,,ENST00000590510,;SPINT2,intron_variant,,ENST00000590210,;"	"G"	"ENSG00000167642"	"ENST00000301244"	"Transcript"	"intron_variant"	"-/1802"	"-/759"	"-/252"	""	""	""	"1"	NA	1	"SPINT2"	"HGNC"	11247	"protein_coding"	"YES"	"CCDS12510.1"	"ENSP00000301244"	"O43291"	"K7EM91,K7EKC8,K7EJS4"	"UPI0000135E8E"	"NM_021102.3"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"236f6238-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"13792"	"SPINT2"	10653	"mskcc.org"	"GRCh37"	"19"	38762807	38762807	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.106+7169C>G"	""	""	"ENST00000301244"	""	88	"79"	9	51	"51"	0	"SPINT2,intron_variant,,ENST00000301244,NM_021102.3;SPINT2,intron_variant,,ENST00000454580,NM_001166103.1;SPINT2,intron_variant,,ENST00000587090,;SPINT2,intron_variant,,ENST00000587516,;SPINT2,intron_variant,,ENST00000592007,;SPINT2,intron_variant,,ENST00000590510,;SPINT2,intron_variant,,ENST00000590210,;"	"G"	"ENSG00000167642"	"ENST00000301244"	"Transcript"	"intron_variant"	"-/1802"	"-/759"	"-/252"	""	""	""	"1"	NA	1	"SPINT2"	"HGNC"	11247	"protein_coding"	"YES"	"CCDS12510.1"	"ENSP00000301244"	"O43291"	"K7EM91,K7EKC8,K7EJS4"	"UPI0000135E8E"	"NM_021102.3"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"236f638c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102272727272727	"WGS"	FALSE
"13793"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	39776268	39776268	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"63"	31	39	"39"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"236fec62-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329787234042553	"WGS"	FALSE
"13794"	"CTB-60E11.11"	0	"mskcc.org"	"GRCh37"	"19"	40048925	40048925	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000600089"	""	103	"94"	9	41	"41"	0	"CTB-60E11.11,downstream_gene_variant,,ENST00000600089,;"	"G"	"ENSG00000269588"	"ENST00000600089"	"Transcript"	"downstream_gene_variant"	"-/440"	""	""	""	""	""	"1"	"2929"	1	"CTB-60E11.11"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"23700bfc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087378640776699	"WGS"	FALSE
"13795"	"AKT2"	208	"mskcc.org"	"GRCh37"	"19"	40756248	40756248	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.287+4817A>T"	""	""	"ENST00000392038"	""	82	"75"	7	36	"36"	0	"AKT2,intron_variant,,ENST00000392038,NM_001626.4,NM_001243027.1,NM_001243028.1;AKT2,intron_variant,,ENST00000579047,;AKT2,intron_variant,,ENST00000424901,;AKT2,intron_variant,,ENST00000311278,;AKT2,intron_variant,,ENST00000416362,;AKT2,intron_variant,,ENST00000441941,;AKT2,intron_variant,,ENST00000423127,;AKT2,intron_variant,,ENST00000392037,;AKT2,intron_variant,,ENST00000486368,;AKT2,intron_variant,,ENST00000596634,;AKT2,intron_variant,,ENST00000456441,;AKT2,intron_variant,,ENST00000452077,;AKT2,intron_variant,,ENST00000583859,;AKT2,intron_variant,,ENST00000578123,;AKT2,intron_variant,,ENST00000358335,;AKT2,intron_variant,,ENST00000580747,;AKT2,downstream_gene_variant,,ENST00000416994,;AKT2,downstream_gene_variant,,ENST00000427375,;AKT2,intron_variant,,ENST00000391844,;AKT2,intron_variant,,ENST00000584288,;AKT2,intron_variant,,ENST00000537834,;AKT2,intron_variant,,ENST00000487537,;AKT2,intron_variant,,ENST00000492463,;AKT2,intron_variant,,ENST00000491778,;AKT2,intron_variant,,ENST00000601166,;"	"A"	"ENSG00000105221"	"ENST00000392038"	"Transcript"	"intron_variant"	"-/5300"	"-/1446"	"-/481"	""	""	""	"1"	NA	-1	"AKT2"	"HGNC"	392	"protein_coding"	"YES"	"CCDS12552.1"	"ENSP00000375892"	"P31751"	"Q05BV0,M0QZK3,J3QQM6,J3QLS6,J3QL45,J3KSY8,J3KRI8,E7EVP8,C9JIJ1,C9JIF6,C9JHS6,C9JC83,C9J258,B4DG79,B3KP61,A8MX96"	"UPI0000049EDB"	"NM_001626.4,NM_001243027.1,NM_001243028.1"	""	""	""	"4/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"237045cc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	TRUE
"13796"	"PLD3"	23646	"mskcc.org"	"GRCh37"	"19"	40860930	40860930	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-314+6255C>G"	""	""	"ENST00000409587"	""	81	"74"	7	34	"34"	0	"PLD3,intron_variant,,ENST00000409587,;PLD3,intron_variant,,ENST00000409735,NM_012268.2;PLD3,intron_variant,,ENST00000409419,;PLD3,intron_variant,,ENST00000356508,NM_001031696.2;PLD3,intron_variant,,ENST00000392032,;PLD3,intron_variant,,ENST00000594908,;PLD3,intron_variant,,ENST00000598962,;PLD3,intron_variant,,ENST00000599685,;PLD3,intron_variant,,ENST00000600948,;PLD3,intron_variant,,ENST00000602131,;PLD3,intron_variant,,ENST00000596682,;PLD3,upstream_gene_variant,,ENST00000409281,;PLD3,intron_variant,,ENST00000594085,;PLD3,intron_variant,,ENST00000600479,;"	"G"	"ENSG00000105223"	"ENST00000409587"	"Transcript"	"intron_variant"	"-/2180"	"-/1473"	"-/490"	""	""	""	"1"	NA	1	"PLD3"	"HGNC"	17158	"protein_coding"	"YES"	"CCDS33027.1"	"ENSP00000387050"	"Q8IV08"	"M0R2E7,M0R1F7,M0QZK2,M0QY94,M0QX99,M0QX50,E2QRG1,E2QRD3"	"UPI000004FA75"	""	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"23705594-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"13797"	"BLVRB"	645	"mskcc.org"	"GRCh37"	"19"	40956179	40956179	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.463+1092C>T"	""	""	"ENST00000263368"	""	33	"28"	5	17	"17"	0	"BLVRB,intron_variant,,ENST00000263368,NM_000713.2;BLVRB,intron_variant,,ENST00000595483,;BLVRB,intron_variant,,ENST00000597870,;BLVRB,intron_variant,,ENST00000601346,;"	"A"	"ENSG00000090013"	"ENST00000263368"	"Transcript"	"intron_variant"	"-/873"	"-/621"	"-/206"	""	""	""	"1"	NA	-1	"BLVRB"	"HGNC"	1063	"protein_coding"	"YES"	"CCDS33029.1"	"ENSP00000263368"	"P30043"	""	"UPI0000111B1A"	"NM_000713.2"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"23706b92-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151515151515152	"WGS"	FALSE
"13798"	"RAB4B"	53916	"mskcc.org"	"GRCh37"	"19"	41293854	41293854	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*15+971A>G"	""	""	"ENST00000594800"	""	65	"60"	5	23	"23"	0	"RAB4B,intron_variant,,ENST00000594800,;RAB4B,intron_variant,,ENST00000357052,NM_016154.4;RAB4B,intron_variant,,ENST00000595728,;RAB4B,downstream_gene_variant,,ENST00000602173,;RAB4B-EGLN2,intron_variant,,ENST00000601949,;RAB4B,downstream_gene_variant,,ENST00000602069,;RAB4B-EGLN2,intron_variant,,ENST00000594136,;RAB4B,intron_variant,,ENST00000597476,;RAB4B,intron_variant,,ENST00000598430,;RAB4B,intron_variant,,ENST00000378307,;RAB4B-EGLN2,intron_variant,,ENST00000596216,;MIA-RAB4B,downstream_gene_variant,,ENST00000600729,;RAB4B,downstream_gene_variant,,ENST00000600078,;"	"G"	"ENSG00000167578"	"ENST00000594800"	"Transcript"	"intron_variant"	"-/1173"	"-/642"	"-/213"	""	""	""	"1"	NA	1	"RAB4B"	"HGNC"	9782	"protein_coding"	"YES"	"CCDS33030.1"	"ENSP00000470246"	"P61018"	""	"UPI000000125C"	""	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"237094f0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"13799"	"MEGF8"	1954	"mskcc.org"	"GRCh37"	"19"	42877516	42877516	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7068+1882C>T"	""	""	"ENST00000334370"	""	87	"77"	10	60	"60"	0	"MEGF8,intron_variant,,ENST00000334370,NM_001410.2,NM_001271938.1;MEGF8,intron_variant,,ENST00000251268,;MEGF8,intron_variant,,ENST00000593647,;MEGF8,intron_variant,,ENST00000378073,;MEGF8,intron_variant,,ENST00000598762,;MEGF8,intron_variant,,ENST00000599787,;"	"T"	"ENSG00000105429"	"ENST00000334370"	"Transcript"	"intron_variant"	"-/10966"	"-/8337"	"-/2778"	""	""	""	"1"	NA	1	"MEGF8"	"HGNC"	3233	"protein_coding"	"YES"	"CCDS12604.2"	"ENSP00000334219"	"Q7Z7M0"	""	"UPI00003CF1A7"	"NM_001410.2,NM_001271938.1"	""	""	""	"40/40"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"237156a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114942528735632	"WGS"	FALSE
"13800"	"LIPE-AS1"	101928003	"mskcc.org"	"GRCh37"	"19"	42966765	42966765	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.937-22483G>T"	""	""	"ENST00000457234"	""	92	"60"	32	49	"49"	0	"LIPE-AS1,intron_variant,,ENST00000594688,;LIPE-AS1,intron_variant,,ENST00000457234,;LIPE-AS1,intron_variant,,ENST00000594624,;LIPE-AS1,intron_variant,,ENST00000593740,;LIPE-AS1,intron_variant,,ENST00000596116,;LIPE-AS1,intron_variant,,ENST00000597203,;"	"T"	"ENSG00000213904"	"ENST00000457234"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1501"	""	""	""	""	""	"1"	NA	1	"LIPE-AS1"	"HGNC"	48589	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"23715d86-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347826086956522	"WGS"	FALSE
"13801"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	45336154	45336154	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"71"	5	38	"38"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"237262d0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0657894736842105	"WGS"	FALSE
"13802"	"AC006126.3"	0	"mskcc.org"	"GRCh37"	"19"	45703161	45703161	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-35-2503T>C"	""	""	"ENST00000591569"	""	77	"70"	7	37	"37"	0	"MARK4,intron_variant,,ENST00000587566,;AC006126.3,intron_variant,,ENST00000591569,;AC005779.2,intron_variant,,ENST00000593083,;"	"C"	"ENSG00000266958"	"ENST00000591569"	"Transcript"	"intron_variant"	"-/540"	"-/285"	"-/94"	""	""	""	"1"	NA	1	"AC006126.3"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000465536"	""	"K7EKA7"	"UPI0002840C3A"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"2372a722-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"13803"	"MARK4"	57787	"mskcc.org"	"GRCh37"	"19"	45792900	45792900	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs566117025"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1494+1978C>T"	""	""	"ENST00000262891"	""	70	"63"	7	22	"22"	0	"MARK4,intron_variant,,ENST00000300843,NM_031417.3;MARK4,intron_variant,,ENST00000262891,NM_001199867.1;MARK4,downstream_gene_variant,,ENST00000588621,;MARK4,downstream_gene_variant,,ENST00000592207,;MARK4,downstream_gene_variant,,ENST00000590897,;"	"T"	"ENSG00000007047"	"ENST00000262891"	"Transcript"	"intron_variant"	"-/3573"	"-/2259"	"-/752"	""	""	"rs566117025"	"1"	NA	1	"MARK4"	"HGNC"	13538	"protein_coding"	"YES"	"CCDS56097.1"	"ENSP00000262891"	"Q96L34"	"Q96GZ3,K7EKG8,K7EK17"	"UPI0000044D47"	"NM_001199867.1"	""	""	""	"13/16"	""	"T:0.0022"	"T:0"	"T:0.0029"	NA	"T:0.0089"	"T:0"	"T:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"2372b708-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"13804"	"PPP1R13L"	10848	"mskcc.org"	"GRCh37"	"19"	45902258	45902258	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-21-661C>T"	""	""	"ENST00000418234"	""	61	"55"	6	29	"29"	0	"PPP1R13L,intron_variant,,ENST00000418234,NM_001142502.1;PPP1R13L,intron_variant,,ENST00000360957,NM_006663.3;PPP1R13L,intron_variant,,ENST00000593226,;PPP1R13L,intron_variant,,ENST00000592134,;PPP1R13L,intron_variant,,ENST00000585905,;"	"A"	"ENSG00000104881"	"ENST00000418234"	"Transcript"	"intron_variant"	"-/3118"	"-/2487"	"-/828"	""	""	""	"1"	NA	-1	"PPP1R13L"	"HGNC"	18838	"protein_coding"	"YES"	"CCDS33050.1"	"ENSP00000403902"	"Q8WUF5"	"K7EPP1,K7EN03"	"UPI00001400F1"	"NM_001142502.1"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"2372c87e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0983606557377049	"WGS"	FALSE
"13805"	"AC006262.4"	0	"mskcc.org"	"GRCh37"	"19"	46677844	46677844	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.96-535C>T"	""	""	"ENST00000599127"	""	85	"60"	25	48	"48"	0	"AC006262.4,intron_variant,,ENST00000599127,;AC007193.6,intron_variant,,ENST00000597989,;AC006262.4,upstream_gene_variant,,ENST00000600152,;"	"A"	"ENSG00000269729"	"ENST00000599127"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/612"	""	""	""	""	""	"1"	NA	-1	"AC006262.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"237322ec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"13806"	"PPP5C"	5536	"mskcc.org"	"GRCh37"	"19"	46873040	46873040	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.364-5821A>G"	""	""	"ENST00000012443"	""	90	"81"	9	41	"41"	0	"PPP5C,intron_variant,,ENST00000012443,NM_006247.3;PPP5C,intron_variant,,ENST00000391919,NM_001204284.1;PPP5C,intron_variant,,ENST00000478046,;"	"G"	"ENSG00000011485"	"ENST00000012443"	"Transcript"	"intron_variant"	"-/2109"	"-/1500"	"-/499"	""	""	""	"1"	NA	1	"PPP5C"	"HGNC"	9322	"protein_coding"	"YES"	"CCDS12684.1"	"ENSP00000012443"	"P53041"	"B4DDZ8"	"UPI0000041859"	"NM_006247.3"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"23733aac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"13807"	"PPP5C"	5536	"mskcc.org"	"GRCh37"	"19"	46873063	46873063	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.364-5798A>G"	""	""	"ENST00000012443"	""	80	"69"	11	38	"38"	0	"PPP5C,intron_variant,,ENST00000012443,NM_006247.3;PPP5C,intron_variant,,ENST00000391919,NM_001204284.1;PPP5C,intron_variant,,ENST00000478046,;"	"G"	"ENSG00000011485"	"ENST00000012443"	"Transcript"	"intron_variant"	"-/2109"	"-/1500"	"-/499"	""	""	""	"1"	NA	1	"PPP5C"	"HGNC"	9322	"protein_coding"	"YES"	"CCDS12684.1"	"ENSP00000012443"	"P53041"	"B4DDZ8"	"UPI0000041859"	"NM_006247.3"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"23733c0a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1375	"WGS"	FALSE
"13808"	"PRKD2"	25865	"mskcc.org"	"GRCh37"	"19"	47197663	47197663	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1318-273G>C"	""	""	"ENST00000433867"	""	72	"67"	5	46	"46"	0	"PRKD2,intron_variant,,ENST00000433867,NM_001079881.1,NM_016457.4,NM_001079880.1;PRKD2,intron_variant,,ENST00000291281,;PRKD2,intron_variant,,ENST00000595515,;PRKD2,intron_variant,,ENST00000600194,NM_001079882.1;PRKD2,intron_variant,,ENST00000601806,;PRKD2,downstream_gene_variant,,ENST00000601605,;PRKD2,intron_variant,,ENST00000599019,;PRKD2,intron_variant,,ENST00000597589,;PRKD2,upstream_gene_variant,,ENST00000597390,;PRKD2,upstream_gene_variant,,ENST00000602155,;PRKD2,upstream_gene_variant,,ENST00000599464,;"	"G"	"ENSG00000105287"	"ENST00000433867"	"Transcript"	"intron_variant"	"-/3321"	"-/2637"	"-/878"	""	""	""	"1"	NA	-1	"PRKD2"	"HGNC"	17293	"protein_coding"	"YES"	"CCDS12689.1"	"ENSP00000393978"	"Q9BZL6"	"M0R346,M0R2R2,M0R012"	"UPI000013E03A"	"NM_001079881.1,NM_016457.4,NM_001079880.1"	""	""	""	"10/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"237362b6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0694444444444444	"WGS"	FALSE
"13809"	"C5AR2"	27202	"mskcc.org"	"GRCh37"	"19"	47842024	47842024	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-15-2018A>T"	""	""	"ENST00000595464"	""	89	"82"	7	32	"32"	0	"C5AR2,intron_variant,,ENST00000595464,NM_001271749.1;C5AR2,intron_variant,,ENST00000600626,NM_018485.2,NM_001271750.1;C5AR2,upstream_gene_variant,,ENST00000257267,;"	"T"	"ENSG00000134830"	"ENST00000595464"	"Transcript"	"intron_variant"	"-/2768"	"-/1014"	"-/337"	""	""	""	"1"	NA	1	"C5AR2"	"HGNC"	4527	"protein_coding"	"YES"	"CCDS12699.1"	"ENSP00000472620"	"Q9P296"	""	"UPI000003BCC8"	"NM_001271749.1"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"2373c670-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	FALSE
"13810"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	48096352	48096352	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	60	"55"	5	27	"27"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"2373e9ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13811"	"SLC6A21P"	0	"mskcc.org"	"GRCh37"	"19"	49757699	49757699	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000599458"	""	85	"77"	8	46	"46"	0	"SLC6A21P,downstream_gene_variant,,ENST00000599458,;"	"T"	"ENSG00000269009"	"ENST00000599458"	"Transcript"	"downstream_gene_variant"	"-/369"	""	""	""	""	""	"1"	"1030"	-1	"SLC6A21P"	"HGNC"	31400	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"2375487e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"13812"	"PRR12"	57479	"mskcc.org"	"GRCh37"	"19"	50109950	50109950	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4773+4775C>G"	""	""	"ENST00000418929"	""	73	"65"	8	36	"36"	0	"PRR12,intron_variant,,ENST00000418929,NM_020719.1;"	"G"	"ENSG00000126464"	"ENST00000418929"	"Transcript"	"intron_variant"	"-/6955"	"-/6111"	"-/2036"	""	""	""	"1"	NA	1	"PRR12"	"HGNC"	29217	"protein_coding"	"YES"	"CCDS46143.1"	"ENSP00000394510"	"Q9ULL5"	""	"UPI0001596889"	"NM_020719.1"	""	""	""	"6/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"237587ee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10958904109589	"WGS"	FALSE
"13813"	"PRR12"	57479	"mskcc.org"	"GRCh37"	"19"	50109965	50109965	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4773+4790A>G"	""	""	"ENST00000418929"	""	76	"69"	7	39	"39"	0	"PRR12,intron_variant,,ENST00000418929,NM_020719.1;"	"G"	"ENSG00000126464"	"ENST00000418929"	"Transcript"	"intron_variant"	"-/6955"	"-/6111"	"-/2036"	""	""	""	"1"	NA	1	"PRR12"	"HGNC"	29217	"protein_coding"	"YES"	"CCDS46143.1"	"ENSP00000394510"	"Q9ULL5"	""	"UPI0001596889"	"NM_020719.1"	""	""	""	"6/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"237588a2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"13814"	"ETFB"	2109	"mskcc.org"	"GRCh37"	"19"	51858403	51858403	"+"	"5'UTR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-511T>A"	""	""	"ENST00000354232"	"1/5"	83	"60"	23	36	"36"	0	"ETFB,5_prime_UTR_variant,,ENST00000354232,NM_001014763.1;ETFB,intron_variant,,ENST00000309244,NM_001985.2;ETFB,intron_variant,,ENST00000596253,;CTD-2616J11.9,downstream_gene_variant,,ENST00000600974,;ETFB,intron_variant,,ENST00000593992,;CTD-2616J11.11,intron_variant,,ENST00000600067,;"	"T"	"ENSG00000105379"	"ENST00000354232"	"Transcript"	"5_prime_UTR_variant"	"1958/3551"	"-/1041"	"-/346"	""	""	""	"1"	NA	-1	"ETFB"	"HGNC"	3482	"protein_coding"	"YES"	"CCDS33085.1"	"ENSP00000346173"	"P38117"	""	"UPI00001A8223"	"NM_001014763.1"	""	""	"1/5"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAC"	"2376863a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27710843373494	"WGS"	FALSE
"13815"	"ZNF331"	55422	"mskcc.org"	"GRCh37"	"19"	54042326	54042326	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-204-144G>T"	""	""	"ENST00000253144"	""	85	"72"	13	40	"40"	0	"ZNF331,intron_variant,,ENST00000253144,NM_018555.5,NM_001253801.1;ZNF331,intron_variant,,ENST00000449416,;ZNF331,intron_variant,,ENST00000411977,NM_001079906.1;ZNF331,intron_variant,,ENST00000511154,;ZNF331,intron_variant,,ENST00000511593,;ZNF331,intron_variant,,ENST00000513999,NM_001253800.1;ZNF331,intron_variant,,ENST00000502248,;ZNF331,intron_variant,,ENST00000509047,NM_001253799.1;ZNF331,intron_variant,,ENST00000514374,;ZNF331,intron_variant,,ENST00000509585,NM_001253798.1;ZNF331,intron_variant,,ENST00000504033,;ZNF331,intron_variant,,ENST00000509069,;ZNF331,intron_variant,,ENST00000504940,;"	"T"	"ENSG00000130844"	"ENST00000253144"	"Transcript"	"intron_variant"	"-/5042"	"-/1392"	"-/463"	""	""	""	"1"	NA	1	"ZNF331"	"HGNC"	15489	"protein_coding"	"YES"	"CCDS33102.1"	"ENSP00000253144"	"Q9NQX6"	"Q8NBU2,Q71QC9,Q71QC6,Q71QC5,Q71QC3,Q6PK05,E7EWU7,E7EV14,E7ETJ5,E7ERM8,E7EPT0,E7EPG5,E7ENR0,D6RH27"	"UPI0000039DC3"	"NM_018555.5,NM_001253801.1"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"23774e8a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152941176470588	"WGS"	TRUE
"13816"	"MIR498"	574460	"mskcc.org"	"GRCh37"	"19"	54173403	54173403	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000385134"	""	73	"67"	6	42	"42"	0	"MIR498,upstream_gene_variant,,ENST00000385134,;MIR512-2,downstream_gene_variant,,ENST00000384912,;MIR512-1,downstream_gene_variant,,ENST00000384913,;MIR1323,upstream_gene_variant,,ENST00000408090,;"	"A"	"ENSG00000207869"	"ENST00000385134"	"Transcript"	"upstream_gene_variant"	"-/124"	""	""	""	""	""	"1"	"4048"	1	"MIR498"	"HGNC"	32092	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"23776938-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"13817"	"KIR2DL1"	3802	"mskcc.org"	"GRCh37"	"19"	55288228	55288228	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.664+1318G>A"	""	""	"ENST00000336077"	""	84	"77"	7	46	"46"	0	"KIR3DL1,intron_variant,,ENST00000538269,;KIR3DL1,intron_variant,,ENST00000541392,;KIR3DL1,intron_variant,,ENST00000402254,;KIR2DL1,intron_variant,,ENST00000336077,NM_014218.2;KIR2DL4,intron_variant,,ENST00000396284,;KIR2DL3,intron_variant,,ENST00000434419,;KIR2DL1,intron_variant,,ENST00000291633,;CTB-61M7.1,intron_variant,,ENST00000400864,;"	"A"	"ENSG00000125498"	"ENST00000336077"	"Transcript"	"intron_variant"	"-/1596"	"-/1047"	"-/348"	""	""	""	"1"	NA	1	"KIR2DL1"	"HGNC"	6329	"protein_coding"	"YES"	"CCDS12904.1"	"ENSP00000336769"	"P43626"	"Q6H2H4,Q6H2H3,K7R1R8"	"UPI00001195F7"	"NM_014218.2"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"2378591a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13818"	"RDH13"	112724	"mskcc.org"	"GRCh37"	"19"	55564313	55564313	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.340+3708T>G"	""	""	"ENST00000415061"	""	81	"76"	5	37	"37"	0	"RDH13,intron_variant,,ENST00000396247,NM_138412.3;RDH13,intron_variant,,ENST00000415061,NM_001145971.1;RDH13,downstream_gene_variant,,ENST00000586945,;CTC-550B14.7,downstream_gene_variant,,ENST00000593060,;CTC-550B14.6,intron_variant,,ENST00000585492,;RDH13,intron_variant,,ENST00000589605,;RDH13,intron_variant,,ENST00000589305,;RDH13,intron_variant,,ENST00000291892,;RDH13,intron_variant,,ENST00000592573,;RDH13,intron_variant,,ENST00000591960,;RDH13,intron_variant,,ENST00000587721,;"	"C"	"ENSG00000160439"	"ENST00000415061"	"Transcript"	"intron_variant"	"-/1871"	"-/996"	"-/331"	""	""	""	"1"	NA	-1	"RDH13"	"HGNC"	19978	"protein_coding"	"YES"	"CCDS54320.1"	"ENSP00000391121"	"Q8NBN7"	"K7EQB5,K7EMY5,G8JLA1"	"UPI000003F042"	"NM_001145971.1"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"23788534-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"13819"	"SUV420H2"	84787	"mskcc.org"	"GRCh37"	"19"	55847004	55847004	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000255613"	""	86	"78"	8	38	"38"	0	"SUV420H2,upstream_gene_variant,,ENST00000255613,NM_032701.3;AC020922.1,upstream_gene_variant,,ENST00000539076,;SUV420H2,upstream_gene_variant,,ENST00000402499,;SUV420H2,upstream_gene_variant,,ENST00000445196,;SUV420H2,upstream_gene_variant,,ENST00000589338,;TMEM150B,upstream_gene_variant,,ENST00000592891,;SUV420H2,upstream_gene_variant,,ENST00000498738,;"	"T"	"ENSG00000133247"	"ENST00000255613"	"Transcript"	"upstream_gene_variant"	"-/2308"	"-/1389"	"-/462"	""	""	""	"1"	"4217"	1	"SUV420H2"	"HGNC"	28405	"protein_coding"	"YES"	"CCDS12922.1"	"ENSP00000255613"	"Q86Y97"	""	"UPI000000DABC"	"NM_032701.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"2378c4d6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"13820"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	56070644	56070644	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"66"	6	45	"45"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"2378fa14-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13821"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	57531128	57531128	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"86"	9	34	"34"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"2379cab6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0947368421052632	"WGS"	FALSE
"13822"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	57531147	57531147	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"81"	10	37	"37"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"2379cb60-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10989010989011	"WGS"	FALSE
"13823"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	57531156	57531156	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"79"	10	38	"38"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"2379cd04-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112359550561798	"WGS"	FALSE
"13824"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	57531410	57531410	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"52"	4	37	"37"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"2379cdb8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"13825"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	57531438	57531438	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"55"	8	43	"43"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"2379ce6c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126984126984127	"WGS"	FALSE
"13826"	"ZNF586"	54807	"mskcc.org"	"GRCh37"	"19"	58294069	58294069	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000396154"	""	40	"34"	6	14	"14"	0	"ZNF586,intron_variant,,ENST00000598183,;ZNF586,intron_variant,,ENST00000599802,;ZNF586,intron_variant,,ENST00000598885,;ZNF586,downstream_gene_variant,,ENST00000391702,NM_001204814.1;ZNF586,downstream_gene_variant,,ENST00000396154,NM_017652.3;ZNF586,downstream_gene_variant,,ENST00000396150,NM_001077426.2;"	"G"	"ENSG00000083828"	"ENST00000396154"	"Transcript"	"downstream_gene_variant"	"-/2163"	"-/1209"	"-/402"	""	""	""	"1"	"2124"	1	"ZNF586"	"HGNC"	25949	"protein_coding"	"YES"	"CCDS42640.1"	"ENSP00000379458"	"Q9NXT0"	""	"UPI0000202D48"	"NM_017652.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"237a1b7e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WGS"	FALSE
"13827"	"ZNF587"	84914	"mskcc.org"	"GRCh37"	"19"	58364408	58364408	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.33+2969T>A"	""	""	"ENST00000339656"	""	74	"69"	5	30	"30"	0	"ZNF587,intron_variant,,ENST00000339656,NM_032828.3,NM_001204817.1;ZNF814,intron_variant,,ENST00000597832,;ZNF587,intron_variant,,ENST00000423137,;ZNF587B,intron_variant,,ENST00000316462,;CTD-2583A14.10,intron_variant,,ENST00000596498,;ZNF814,intron_variant,,ENST00000597342,;CTD-2583A14.10,intron_variant,,ENST00000598031,;CTD-2583A14.10,intron_variant,,ENST00000603271,;CTD-2583A14.10,intron_variant,,ENST00000593873,;CTD-2583A14.10,intron_variant,,ENST00000597134,;ZNF814,intron_variant,,ENST00000596604,;ZNF587,upstream_gene_variant,,ENST00000419854,;ZNF814,intron_variant,,ENST00000597652,;ZNF587,intron_variant,,ENST00000484707,;ZNF814,intron_variant,,ENST00000595894,;CTD-2583A14.10,intron_variant,,ENST00000604231,;"	"A"	"ENSG00000198466"	"ENST00000339656"	"Transcript"	"intron_variant"	"-/6882"	"-/1728"	"-/575"	""	""	""	"1"	NA	1	"ZNF587"	"HGNC"	30955	"protein_coding"	"YES"	"CCDS12964.1"	"ENSP00000345479"	"Q96SQ5"	"M0R2A6,M0R178,M0R0V5,M0R0M6,M0QXF5,E7EP41"	"UPI0000073916"	"NM_032828.3,NM_001204817.1"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"237a23da-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0675675675675676	"WGS"	FALSE
"13828"	"ZNF417"	147687	"mskcc.org"	"GRCh37"	"19"	58427484	58427484	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.33+263C>T"	""	""	"ENST00000312026"	""	85	"57"	28	44	"44"	0	"ZNF417,intron_variant,,ENST00000312026,NM_152475.2;ZNF417,intron_variant,,ENST00000536263,;ZNF417,intron_variant,,ENST00000595559,;ZNF417,intron_variant,,ENST00000598526,;ZNF417,intron_variant,,ENST00000597515,;ZNF417,intron_variant,,ENST00000599251,;ZNF417,intron_variant,,ENST00000598629,;ZNF417,upstream_gene_variant,,ENST00000594396,;CTD-2583A14.9,intron_variant,,ENST00000602124,;"	"A"	"ENSG00000173480"	"ENST00000312026"	"Transcript"	"intron_variant"	"-/3597"	"-/1728"	"-/575"	""	""	""	"1"	NA	-1	"ZNF417"	"HGNC"	20646	"protein_coding"	"YES"	"CCDS12965.1"	"ENSP00000311319"	"Q8TAU3"	"M0R2A6,M0R178,M0R0V5,M0R0M6,M0R082,M0QXF5,B4DEU1"	"UPI000013F249"	"NM_152475.2"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"237a2d30-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329411764705882	"WGS"	FALSE
"13829"	"SH3YL1"	26751	"mskcc.org"	"GRCh37"	"2"	216896	216896	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000356150"	""	80	"53"	27	56	"56"	0	"SH3YL1,downstream_gene_variant,,ENST00000403657,;SH3YL1,downstream_gene_variant,,ENST00000405430,;SH3YL1,downstream_gene_variant,,ENST00000356150,NM_015677.2;SH3YL1,downstream_gene_variant,,ENST00000403712,NM_001159597.1;SH3YL1,downstream_gene_variant,,ENST00000415006,NM_001282687.1;SH3YL1,downstream_gene_variant,,ENST00000403658,;SH3YL1,downstream_gene_variant,,ENST00000451005,;SH3YL1,downstream_gene_variant,,ENST00000468321,;SH3YL1,downstream_gene_variant,,ENST00000473104,;SH3YL1,downstream_gene_variant,,ENST00000463865,;SH3YL1,downstream_gene_variant,,ENST00000460974,;SH3YL1,downstream_gene_variant,,ENST00000479739,;"	"A"	"ENSG00000035115"	"ENST00000356150"	"Transcript"	"downstream_gene_variant"	"-/1763"	"-/1029"	"-/342"	""	""	""	"1"	"1262"	-1	"SH3YL1"	"HGNC"	29546	"protein_coding"	"YES"	"CCDS42646.2"	"ENSP00000348471"	"Q96HL8"	"C9J4Z8"	"UPI0000072FAE"	"NM_015677.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"237ac574-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3375	"WGS"	FALSE
"13830"	"SNTG2"	54221	"mskcc.org"	"GRCh37"	"2"	1291945	1291945	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1285-20321T>G"	""	""	"ENST00000308624"	""	84	"54"	30	62	"62"	0	"SNTG2,intron_variant,,ENST00000308624,NM_018968.3;SNTG2,intron_variant,,ENST00000407292,;SNTG2,intron_variant,,ENST00000471239,;"	"G"	"ENSG00000172554"	"ENST00000308624"	"Transcript"	"intron_variant"	"-/1888"	"-/1620"	"-/539"	""	""	""	"1"	NA	1	"SNTG2"	"HGNC"	13741	"protein_coding"	"YES"	"CCDS46220.1"	"ENSP00000311837"	"Q9NY99"	""	"UPI0000456D73"	"NM_018968.3"	""	""	""	"14/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"237bc1b8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WGS"	FALSE
"13831"	"TPO"	7173	"mskcc.org"	"GRCh37"	"2"	1529064	1529064	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2618+8310A>G"	""	""	"ENST00000345913"	""	37	"33"	4	26	"26"	0	"TPO,intron_variant,,ENST00000422464,;TPO,intron_variant,,ENST00000345913,NM_000547.5;TPO,intron_variant,,ENST00000329066,NM_001206744.1;TPO,intron_variant,,ENST00000337415,;TPO,intron_variant,,ENST00000346956,NM_175721.3;TPO,intron_variant,,ENST00000382201,NM_001206745.1,NM_175719.3;TPO,intron_variant,,ENST00000349624,;TPO,intron_variant,,ENST00000382198,NM_175722.3;TPO,intron_variant,,ENST00000446278,;TPO,intron_variant,,ENST00000469607,;TPO,intron_variant,,ENST00000425083,;TPO,intron_variant,,ENST00000497517,;TPO,intron_variant,,ENST00000479902,;"	"G"	"ENSG00000115705"	"ENST00000345913"	"Transcript"	"intron_variant"	"-/3145"	"-/2802"	"-/933"	""	""	""	"1"	NA	1	"TPO"	"HGNC"	12015	"protein_coding"	"YES"	"CCDS1643.1"	"ENSP00000318820"	"P07202"	"Q53QT2,C9J511"	"UPI000013D480"	"NM_000547.5"	""	""	""	"15/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAC"	"237c054c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"13832"	"PXDN"	7837	"mskcc.org"	"GRCh37"	"2"	1715457	1715457	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.201-18551G>A"	""	""	"ENST00000252804"	""	90	"59"	31	41	"41"	0	"PXDN,intron_variant,,ENST00000252804,NM_012293.1;PXDN,intron_variant,,ENST00000433670,;PXDN,intron_variant,,ENST00000425171,;PXDN,intron_variant,,ENST00000485177,;"	"T"	"ENSG00000130508"	"ENST00000252804"	"Transcript"	"intron_variant"	"-/6808"	"-/4440"	"-/1479"	""	""	""	"1"	NA	-1	"PXDN"	"HGNC"	14966	"protein_coding"	"YES"	"CCDS46221.1"	"ENSP00000252804"	"Q92626"	""	"UPI00001C1DC2"	"NM_012293.1"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"237c5150-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344444444444444	"WGS"	FALSE
"13833"	"MYT1L"	23040	"mskcc.org"	"GRCh37"	"2"	1988409	1988409	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1-4860C>T"	""	""	"ENST00000428368"	""	57	"41"	16	36	"36"	0	"MYT1L,intron_variant,,ENST00000399161,NM_015025.2;MYT1L,intron_variant,,ENST00000428368,;"	"A"	"ENSG00000186487"	"ENST00000428368"	"Transcript"	"intron_variant"	"-/4850"	"-/3555"	"-/1184"	""	""	""	"1"	NA	-1	"MYT1L"	"HGNC"	7623	"protein_coding"	"YES"	"CCDS46222.1"	"ENSP00000396103"	"Q9UL68"	""	"UPI00004E55EA"	""	""	""	""	"5/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"237c8076-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280701754385965	"WGS"	FALSE
"13834"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	2491269	2491269	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"67"	17	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"237cc6bc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202380952380952	"WGS"	FALSE
"13835"	"AC012445.1"	0	"mskcc.org"	"GRCh37"	"2"	4191888	4191888	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000442831"	""	56	"41"	15	39	"38"	1	"AC012445.1,upstream_gene_variant,,ENST00000442831,;"	"C"	"ENSG00000229550"	"ENST00000442831"	"Transcript"	"upstream_gene_variant"	"-/607"	""	""	""	""	""	"1"	"3567"	-1	"AC012445.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"237db0cc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267857142857143	"WGS"	FALSE
"13836"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	4540243	4540243	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"57"	33	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"237dbedc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.366666666666667	"WGS"	FALSE
"13837"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	6195553	6195553	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"69"	35	40	"40"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"237e0cd4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336538461538462	"WGS"	FALSE
"13838"	"AC092635.1"	0	"mskcc.org"	"GRCh37"	"2"	13674987	13674987	"+"	"5'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000434509"	""	88	"53"	35	53	"53"	0	"AC092635.1,upstream_gene_variant,,ENST00000434509,;"	"G"	"ENSG00000229370"	"ENST00000434509"	"Transcript"	"upstream_gene_variant"	"-/455"	""	""	""	""	""	"1"	"2811"	1	"AC092635.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"237fdc9e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.397727272727273	"WGS"	FALSE
"13839"	"AC092635.1"	0	"mskcc.org"	"GRCh37"	"2"	13740018	13740018	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.343-9163C>A"	""	""	"ENST00000434509"	""	76	"57"	19	50	"50"	0	"AC092635.1,intron_variant,,ENST00000434509,;"	"A"	"ENSG00000229370"	"ENST00000434509"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/455"	""	""	""	""	""	"1"	NA	1	"AC092635.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"237fdfdc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"13840"	"LINC00276"	100499171	"mskcc.org"	"GRCh37"	"2"	14021381	14021381	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.257-39642G>A"	""	""	"ENST00000417751"	""	90	"60"	30	62	"62"	0	"LINC00276,intron_variant,,ENST00000417751,;"	"T"	"ENSG00000230448"	"ENST00000417751"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/596"	""	""	""	""	""	"1"	NA	-1	"LINC00276"	"HGNC"	38663	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"237fe360-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"13841"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	14817554	14817554	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"69"	26	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"238005f2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"13842"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	16390907	16390907	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs765667985"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"71"	24	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs765667985"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"238051f6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"13843"	"AC092594.1"	0	"mskcc.org"	"GRCh37"	"2"	19237047	19237047	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.468-10587A>T"	""	""	"ENST00000432142"	""	88	"82"	6	50	"50"	0	"AC092594.1,intron_variant,,ENST00000432142,;AC092594.1,intron_variant,,ENST00000418165,;"	"A"	"ENSG00000236204"	"ENST00000432142"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/571"	""	""	""	""	""	"1"	NA	-1	"AC092594.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"23809a44-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"13844"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	19925326	19925326	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"56"	21	38	"38"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"2380aae8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"13845"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	20004341	20004341	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"68"	31	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"2380adae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313131313131313	"WGS"	FALSE
"13846"	"RP11-531P14.1"	0	"mskcc.org"	"GRCh37"	"2"	21586075	21586075	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.198+625G>A"	""	""	"ENST00000604593"	""	98	"71"	27	43	"43"	0	"AC011752.1,intron_variant,,ENST00000451476,;AC067959.1,intron_variant,,ENST00000435237,;RP11-531P14.1,intron_variant,,ENST00000604593,;"	"T"	"ENSG00000270654"	"ENST00000604593"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/363"	""	""	""	""	""	"1"	NA	-1	"RP11-531P14.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"2380e6f2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275510204081633	"WGS"	FALSE
"13847"	"AC009411.2"	0	"mskcc.org"	"GRCh37"	"2"	21852187	21852187	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000458359"	""	107	"72"	35	58	"58"	0	"AC067959.1,intron_variant,,ENST00000435237,;AC009411.2,downstream_gene_variant,,ENST00000458359,;"	"A"	"ENSG00000235537"	"ENST00000458359"	"Transcript"	"downstream_gene_variant"	"-/539"	""	""	""	""	""	"1"	"1233"	-1	"AC009411.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"2380ee72-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.327102803738318	"WGS"	FALSE
"13848"	"AC009411.2"	0	"mskcc.org"	"GRCh37"	"2"	21852188	21852188	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000458359"	""	106	"71"	35	56	"56"	0	"AC067959.1,intron_variant,,ENST00000435237,;AC009411.2,downstream_gene_variant,,ENST00000458359,;"	"A"	"ENSG00000235537"	"ENST00000458359"	"Transcript"	"downstream_gene_variant"	"-/539"	""	""	""	""	""	"1"	"1232"	-1	"AC009411.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"2380ef1c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330188679245283	"WGS"	FALSE
"13849"	"ENSR00000586899"	0	"mskcc.org"	"GRCh37"	"2"	26226576	26226576	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000586899"	""	84	"77"	7	45	"45"	0	""	"G"	""	"ENSR00000586899"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"2381e3ea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13850"	"OTOF"	9381	"mskcc.org"	"GRCh37"	"2"	26690938	26690938	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"rs553980013"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4090+338T>C"	""	""	"ENST00000272371"	""	105	"73"	32	53	"53"	0	"OTOF,intron_variant,,ENST00000272371,NM_194248.2;OTOF,intron_variant,,ENST00000403946,NM_001287489.1;OTOF,intron_variant,,ENST00000402415,NM_194322.2;OTOF,intron_variant,,ENST00000338581,NM_004802.3;OTOF,intron_variant,,ENST00000339598,NM_194323.2;OTOF,downstream_gene_variant,,ENST00000426958,;OTOF,upstream_gene_variant,,ENST00000464574,;"	"G"	"ENSG00000115155"	"ENST00000272371"	"Transcript"	"intron_variant"	"-/7156"	"-/5994"	"-/1997"	""	""	"rs553980013"	"1"	NA	-1	"OTOF"	"HGNC"	8515	"protein_coding"	"YES"	"CCDS1725.1"	"ENSP00000272371"	"Q9HC10"	""	"UPI000013D94D"	"NM_194248.2"	""	""	""	"33/46"	""	"G:0.0002"	"G:0"	"G:0"	NA	"G:0"	"G:0"	"G:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"23821202-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304761904761905	"WGS"	FALSE
"13851"	"AC109829.1"	0	"mskcc.org"	"GRCh37"	"2"	27763187	27763187	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.144+2750C>T"	""	""	"ENST00000447166"	""	27	"23"	4	7	"7"	0	"AC109829.1,intron_variant,,ENST00000447166,;"	"T"	"ENSG00000233438"	"ENST00000447166"	"Transcript"	"intron_variant"	"-/825"	"-/784"	"-/261"	""	""	""	"1"	NA	1	"AC109829.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000403181"	""	"C9JG08"	"UPI000173A56C"	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"23825a14-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"13852"	"AC109829.1"	0	"mskcc.org"	"GRCh37"	"2"	27763198	27763198	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.144+2761C>T"	""	""	"ENST00000447166"	""	29	"25"	4	8	"8"	0	"AC109829.1,intron_variant,,ENST00000447166,;"	"T"	"ENSG00000233438"	"ENST00000447166"	"Transcript"	"intron_variant"	"-/825"	"-/784"	"-/261"	""	""	""	"1"	NA	1	"AC109829.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000403181"	""	"C9JG08"	"UPI000173A56C"	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"23825ad2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WGS"	FALSE
"13853"	"AC109829.1"	0	"mskcc.org"	"GRCh37"	"2"	27763202	27763202	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.144+2765T>A"	""	""	"ENST00000447166"	""	25	"21"	4	7	"7"	0	"AC109829.1,intron_variant,,ENST00000447166,;"	"A"	"ENSG00000233438"	"ENST00000447166"	"Transcript"	"intron_variant"	"-/825"	"-/784"	"-/261"	""	""	""	"1"	NA	1	"AC109829.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000403181"	""	"C9JG08"	"UPI000173A56C"	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"23825b86-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WGS"	FALSE
"13854"	"BRE"	9577	"mskcc.org"	"GRCh37"	"2"	28318067	28318067	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.571-34071G>T"	""	""	"ENST00000344773"	""	102	"75"	27	38	"38"	0	"BRE,intron_variant,,ENST00000344773,NM_004899.4;BRE,intron_variant,,ENST00000379632,NM_199193.2;BRE,intron_variant,,ENST00000361704,NM_199192.2;BRE,intron_variant,,ENST00000342045,NM_199194.2;BRE,intron_variant,,ENST00000379624,NM_001261840.1,NM_199191.2;BRE,intron_variant,,ENST00000379629,;"	"T"	"ENSG00000158019"	"ENST00000344773"	"Transcript"	"intron_variant"	"-/1852"	"-/1248"	"-/415"	""	""	""	"1"	NA	1	"BRE"	"HGNC"	1106	"protein_coding"	"YES"	"CCDS1764.1"	"ENSP00000343412"	"Q9NXR7"	"C9J2G0"	"UPI0000072A9C"	"NM_004899.4"	""	""	""	"6/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"238278aa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264705882352941	"WGS"	FALSE
"13855"	"FOSL2"	2355	"mskcc.org"	"GRCh37"	"2"	28632467	28632467	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.462+734G>T"	""	""	"ENST00000264716"	""	92	"56"	36	38	"37"	1	"FOSL2,intron_variant,,ENST00000264716,NM_005253.3;FOSL2,intron_variant,,ENST00000379619,;FOSL2,intron_variant,,ENST00000545753,;FOSL2,intron_variant,,ENST00000436647,;FOSL2,downstream_gene_variant,,ENST00000460736,;"	"T"	"ENSG00000075426"	"ENST00000264716"	"Transcript"	"intron_variant"	"-/6708"	"-/981"	"-/326"	""	""	""	"1"	NA	1	"FOSL2"	"HGNC"	3798	"protein_coding"	"YES"	"CCDS1766.1"	"ENSP00000264716"	"P15408"	"C9JCN8"	"UPI000004F8AB"	"NM_005253.3"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"23828f0c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.391304347826087	"WGS"	FALSE
"13856"	"SNRPGP7"	0	"mskcc.org"	"GRCh37"	"2"	28678614	28678614	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000469016"	""	71	"66"	5	57	"57"	0	"PLB1,upstream_gene_variant,,ENST00000416713,;SNRPGP7,downstream_gene_variant,,ENST00000469016,;"	"G"	"ENSG00000242915"	"ENST00000469016"	"Transcript"	"downstream_gene_variant"	"-/106"	""	""	""	""	""	"1"	"4509"	-1	"SNRPGP7"	"HGNC"	39326	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"238291d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0704225352112676	"WGS"	FALSE
"13857"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	29102475	29102475	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"67"	6	32	"32"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"2382a956-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"13858"	"ENSR00001699029"	0	"mskcc.org"	"GRCh37"	"2"	30239256	30239256	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001699029"	""	93	"86"	7	37	"37"	0	""	"T"	""	"ENSR00001699029"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"2382e998-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"13859"	"LBH"	81606	"mskcc.org"	"GRCh37"	"2"	30484424	30484424	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000395323"	""	103	"96"	7	49	"49"	0	"LBH,intron_variant,,ENST00000404397,;LBH,downstream_gene_variant,,ENST00000395323,NM_030915.3;LBH,downstream_gene_variant,,ENST00000407930,;LBH,downstream_gene_variant,,ENST00000406087,;LBH,downstream_gene_variant,,ENST00000401506,;LBH,downstream_gene_variant,,ENST00000467242,;LBH,downstream_gene_variant,,ENST00000484150,;LBH,downstream_gene_variant,,ENST00000464412,;LBH,downstream_gene_variant,,ENST00000412933,;AC104698.1,downstream_gene_variant,,ENST00000541067,;"	"G"	"ENSG00000213626"	"ENST00000395323"	"Transcript"	"downstream_gene_variant"	"-/2933"	"-/318"	"-/105"	""	""	""	"1"	"1530"	1	"LBH"	"HGNC"	29532	"protein_coding"	"YES"	"CCDS33173.1"	"ENSP00000378733"	"Q53QV2"	"F8WC18,B5MBX5"	"UPI0000034E08"	"NM_030915.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"2382f00a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0679611650485437	"WGS"	FALSE
"13860"	"SPAST"	6683	"mskcc.org"	"GRCh37"	"2"	32300997	32300997	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.416-11564T>C"	""	""	"ENST00000315285"	""	34	"29"	5	21	"21"	0	"SPAST,intron_variant,,ENST00000315285,NM_014946.3;SPAST,intron_variant,,ENST00000345662,NM_199436.1;"	"C"	"ENSG00000021574"	"ENST00000315285"	"Transcript"	"intron_variant"	"-/5117"	"-/1851"	"-/616"	""	""	""	"1"	NA	1	"SPAST"	"HGNC"	11233	"protein_coding"	"YES"	"CCDS1778.1"	"ENSP00000320885"	"Q9UBP0"	"E5KRP5"	"UPI0000038A6B"	"NM_014946.3"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTC"	"23833510-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"13861"	"YIPF4"	84272	"mskcc.org"	"GRCh37"	"2"	32537349	32537349	"+"	"3'UTR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*6654A>G"	""	""	"ENST00000238831"	"6/6"	81	"74"	7	34	"34"	0	"YIPF4,3_prime_UTR_variant,,ENST00000238831,NM_032312.3;YIPF4,downstream_gene_variant,,ENST00000441084,;"	"G"	"ENSG00000119820"	"ENST00000238831"	"Transcript"	"3_prime_UTR_variant"	"7635/11949"	"-/735"	"-/244"	""	""	""	"1"	NA	1	"YIPF4"	"HGNC"	28145	"protein_coding"	"YES"	"CCDS1781.1"	"ENSP00000238831"	"Q9BSR8"	""	"UPI0000073BBE"	"NM_032312.3"	""	""	"6/6"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"2383450a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"13862"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	32554678	32554678	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"80"	7	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"2383487a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"13863"	"STRN"	6801	"mskcc.org"	"GRCh37"	"2"	37198101	37198101	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000263918"	""	62	"54"	8	30	"30"	0	"HEATR5B,intron_variant,,ENST00000425467,;STRN,upstream_gene_variant,,ENST00000263918,NM_003162.3;STRN,upstream_gene_variant,,ENST00000379213,;"	"G"	"ENSG00000115808"	"ENST00000263918"	"Transcript"	"upstream_gene_variant"	"-/8168"	"-/2343"	"-/780"	""	""	""	"1"	"4486"	-1	"STRN"	"HGNC"	11424	"protein_coding"	"YES"	"CCDS1784.1"	"ENSP00000263918"	"O43815"	""	"UPI000013D48A"	"NM_003162.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"23842434-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	TRUE
"13864"	"RNU6-951P"	0	"mskcc.org"	"GRCh37"	"2"	38372431	38372431	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000362733"	""	84	"59"	25	45	"45"	0	"RNU6-951P,upstream_gene_variant,,ENST00000362733,;CYP1B1-AS1,intron_variant,,ENST00000413828,;"	"A"	"ENSG00000199603"	"ENST00000362733"	"Transcript"	"upstream_gene_variant"	"-/107"	""	""	""	""	""	"1"	"2126"	1	"RNU6-951P"	"HGNC"	47914	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"23844e50-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297619047619048	"WGS"	FALSE
"13865"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	41307140	41307140	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"89"	7	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"2384c9c0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0729166666666667	"WGS"	FALSE
"13866"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	42004063	42004063	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"61"	23	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"2384d9a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273809523809524	"WGS"	FALSE
"13867"	"MTA3"	57504	"mskcc.org"	"GRCh37"	"2"	42833515	42833515	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.191-3083T>A"	""	""	"ENST00000407270"	""	39	"34"	5	16	"16"	0	"MTA3,intron_variant,,ENST00000405592,NM_001282755.1;MTA3,intron_variant,,ENST00000406652,NM_001282756.1;MTA3,intron_variant,,ENST00000407270,NM_020744.2;MTA3,intron_variant,,ENST00000406911,;MTA3,intron_variant,,ENST00000405094,;MTA3,intron_variant,,ENST00000433553,;MTA3,intron_variant,,ENST00000484780,;MTA3,intron_variant,,ENST00000461256,;MTA3,intron_variant,,ENST00000493983,;MTA3,intron_variant,,ENST00000409019,;MTA3,intron_variant,,ENST00000454356,;MTA3,intron_variant,,ENST00000430763,;"	"A"	"ENSG00000057935"	"ENST00000407270"	"Transcript"	"intron_variant"	"-/2202"	"-/1548"	"-/515"	""	""	""	"1"	NA	1	"MTA3"	"HGNC"	23784	"protein_coding"	"YES"	"CCDS46267.1"	"ENSP00000385045"	"Q9BTC8"	"Q53SC0,Q53RX8,Q53QZ9"	"UPI000002AE6A"	"NM_020744.2"	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"2385287a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128205128205128	"WGS"	FALSE
"13868"	"AC098824.6"	0	"mskcc.org"	"GRCh37"	"2"	43052529	43052529	"+"	"3'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000453565"	""	81	"76"	5	29	"29"	0	"AC098824.6,downstream_gene_variant,,ENST00000453565,;"	"G"	"ENSG00000232202"	"ENST00000453565"	"Transcript"	"downstream_gene_variant"	"-/980"	""	""	""	""	""	"1"	"933"	-1	"AC098824.6"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"23854184-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"13869"	"PLEKHH2"	130271	"mskcc.org"	"GRCh37"	"2"	43863809	43863809	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000282406"	""	74	"64"	10	30	"30"	0	"PLEKHH2,upstream_gene_variant,,ENST00000282406,NM_172069.3;PLEKHH2,upstream_gene_variant,,ENST00000405000,;PLEKHH2,upstream_gene_variant,,ENST00000405223,;PLEKHH2,upstream_gene_variant,,ENST00000491692,;"	"G"	"ENSG00000152527"	"ENST00000282406"	"Transcript"	"upstream_gene_variant"	"-/6981"	"-/4482"	"-/1493"	""	""	""	"1"	"603"	1	"PLEKHH2"	"HGNC"	30506	"protein_coding"	"YES"	"CCDS1812.1"	"ENSP00000282406"	"Q8IVE3"	""	"UPI000016021B"	"NM_172069.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"23857370-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135135135135135	"WGS"	FALSE
"13870"	"PLEKHH2"	130271	"mskcc.org"	"GRCh37"	"2"	43863814	43863814	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000282406"	""	78	"69"	9	30	"30"	0	"PLEKHH2,upstream_gene_variant,,ENST00000282406,NM_172069.3;PLEKHH2,upstream_gene_variant,,ENST00000405000,;PLEKHH2,upstream_gene_variant,,ENST00000405223,;PLEKHH2,upstream_gene_variant,,ENST00000491692,;"	"A"	"ENSG00000152527"	"ENST00000282406"	"Transcript"	"upstream_gene_variant"	"-/6981"	"-/4482"	"-/1493"	""	""	""	"1"	"598"	1	"PLEKHH2"	"HGNC"	30506	"protein_coding"	"YES"	"CCDS1812.1"	"ENSP00000282406"	"Q8IVE3"	""	"UPI000016021B"	"NM_172069.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"238574a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"13871"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	44352712	44352712	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	64	"60"	4	30	"30"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"238597a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"13872"	"LINC01121"	400952	"mskcc.org"	"GRCh37"	"2"	45493318	45493318	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.614+34805G>A"	""	""	"ENST00000430650"	""	92	"65"	27	45	"45"	0	"LINC01121,intron_variant,,ENST00000430650,;"	"T"	"ENSG00000205054"	"ENST00000430650"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/721"	""	""	""	""	""	"1"	NA	-1	"LINC01121"	"HGNC"	49266	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"2385cdac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293478260869565	"WGS"	FALSE
"13873"	"PIGF"	5281	"mskcc.org"	"GRCh37"	"2"	46838738	46838738	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"rs779908575"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.437+629A>G"	""	""	"ENST00000281382"	""	87	"54"	33	64	"64"	0	"PIGF,intron_variant,,ENST00000281382,NM_002643.3;PIGF,intron_variant,,ENST00000306465,NM_173074.2;PIGF,downstream_gene_variant,,ENST00000474980,;PIGF,downstream_gene_variant,,ENST00000495933,;CRIPT,upstream_gene_variant,,ENST00000486447,;PIGF,intron_variant,,ENST00000412717,;PIGF,intron_variant,,ENST00000420164,;"	"C"	"ENSG00000151665"	"ENST00000281382"	"Transcript"	"intron_variant"	"-/1372"	"-/660"	"-/219"	""	""	"rs779908575"	"1"	NA	-1	"PIGF"	"HGNC"	8962	"protein_coding"	"YES"	"CCDS1827.1"	"ENSP00000281382"	"Q07326"	"Q6IB04,E5RIN5"	"UPI0000030AE2"	"NM_002643.3"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"2386089e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.379310344827586	"WGS"	FALSE
"13874"	"EPCAM"	4072	"mskcc.org"	"GRCh37"	"2"	47603352	47603352	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.492-801A>G"	""	""	"ENST00000263735"	""	94	"59"	35	60	"60"	0	"EPCAM,intron_variant,,ENST00000263735,NM_002354.2;EPCAM,intron_variant,,ENST00000405271,;EPCAM,downstream_gene_variant,,ENST00000419334,;MIR559,upstream_gene_variant,,ENST00000385188,;EPCAM,intron_variant,,ENST00000456133,;EPCAM,intron_variant,,ENST00000490733,;EPCAM,downstream_gene_variant,,ENST00000474691,;"	"G"	"ENSG00000119888"	"ENST00000263735"	"Transcript"	"intron_variant"	"-/1724"	"-/945"	"-/314"	""	""	""	"1"	NA	1	"EPCAM"	"HGNC"	11529	"protein_coding"	"YES"	"CCDS1833.1"	"ENSP00000263735"	"P16422"	""	"UPI000013D450"	"NM_002354.2"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"23862900-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.372340425531915	"WGS"	FALSE
"13875"	"MSH2"	4436	"mskcc.org"	"GRCh37"	"2"	47705976	47705976	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2458+318C>G"	""	""	"ENST00000233146"	""	89	"57"	32	51	"51"	0	"MSH2,intron_variant,,ENST00000406134,;MSH2,intron_variant,,ENST00000233146,NM_000251.2;MSH2,intron_variant,,ENST00000543555,NM_001258281.1;MSH2,upstream_gene_variant,,ENST00000461394,;"	"G"	"ENSG00000095002"	"ENST00000233146"	"Transcript"	"intron_variant"	"-/3307"	"-/2805"	"-/934"	""	""	""	"1"	NA	1	"MSH2"	"HGNC"	7325	"protein_coding"	"YES"	"CCDS1834.1"	"ENSP00000233146"	"P43246"	"Q53RU4,C9J809,B4DL39"	"UPI00000405F6"	"NM_000251.2"	""	""	""	"14/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"23863382-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.359550561797753	"WGS"	TRUE
"13876"	"KCNK12"	56660	"mskcc.org"	"GRCh37"	"2"	47764090	47764090	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.392-15143C>T"	""	""	"ENST00000327876"	""	83	"68"	15	51	"51"	0	"KCNK12,intron_variant,,ENST00000327876,NM_022055.1;AC138655.4,downstream_gene_variant,,ENST00000439182,;MSH2,intron_variant,,ENST00000461394,;"	"A"	"ENSG00000184261"	"ENST00000327876"	"Transcript"	"intron_variant"	"-/6227"	"-/1293"	"-/430"	""	""	""	"1"	NA	-1	"KCNK12"	"HGNC"	6274	"protein_coding"	"YES"	"CCDS1835.1"	"ENSP00000327611"	"Q9HB15"	""	"UPI000000DC4C"	"NM_022055.1"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"238639d6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180722891566265	"WGS"	FALSE
"13877"	"AC079807.4"	0	"mskcc.org"	"GRCh37"	"2"	48383424	48383424	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.240+8603G>A"	""	""	"ENST00000447571"	""	81	"62"	19	48	"48"	0	"AC079807.4,intron_variant,,ENST00000447571,;AC079807.4,intron_variant,,ENST00000587616,;"	"T"	"ENSG00000230773"	"ENST00000447571"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1808"	""	""	""	""	""	"1"	NA	-1	"AC079807.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"23865114-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234567901234568	"WGS"	FALSE
"13878"	"NRXN1"	9378	"mskcc.org"	"GRCh37"	"2"	50384089	50384089	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3667-65457A>T"	""	""	"ENST00000404971"	""	101	"66"	35	55	"55"	0	"NRXN1,intron_variant,,ENST00000404971,NM_001135659.1;NRXN1,intron_variant,,ENST00000406316,NM_004801.4;NRXN1,intron_variant,,ENST00000401669,;NRXN1,intron_variant,,ENST00000405472,;NRXN1,intron_variant,,ENST00000342183,NM_138735.2;NRXN1,intron_variant,,ENST00000402717,;NRXN1,intron_variant,,ENST00000406859,;NRXN1,intron_variant,,ENST00000401710,;"	"A"	"ENSG00000179915"	"ENST00000404971"	"Transcript"	"intron_variant"	"-/7578"	"-/4644"	"-/1547"	""	""	""	"1"	NA	-1	"NRXN1"	"HGNC"	8008	"protein_coding"	"YES"	"CCDS46282.1"	"ENSP00000385142"	"Q9ULB1"	"Q08AH0"	"UPI00015A218A"	"NM_001135659.1"	""	""	""	"19/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"2386a75e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346534653465347	"WGS"	FALSE
"13879"	"NRXN1"	9378	"mskcc.org"	"GRCh37"	"2"	50956934	50956934	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.932-106181A>T"	""	""	"ENST00000404971"	""	90	"61"	29	42	"42"	0	"NRXN1,intron_variant,,ENST00000404971,NM_001135659.1;NRXN1,intron_variant,,ENST00000406316,NM_004801.4;NRXN1,intron_variant,,ENST00000401669,;NRXN1,intron_variant,,ENST00000405472,;NRXN1,intron_variant,,ENST00000402717,;NRXN1,intron_variant,,ENST00000406859,;"	"A"	"ENSG00000179915"	"ENST00000404971"	"Transcript"	"intron_variant"	"-/7578"	"-/4644"	"-/1547"	""	""	""	"1"	NA	-1	"NRXN1"	"HGNC"	8008	"protein_coding"	"YES"	"CCDS46282.1"	"ENSP00000385142"	"Q9ULB1"	"Q08AH0"	"UPI00015A218A"	"NM_001135659.1"	""	""	""	"6/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"2386b618-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322222222222222	"WGS"	FALSE
"13880"	"AC007682.1"	730100	"mskcc.org"	"GRCh37"	"2"	52238126	52238126	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.879+149500C>T"	""	""	"ENST00000440698"	""	89	"61"	28	51	"51"	0	"AC007682.1,intron_variant,,ENST00000440698,;"	"T"	"ENSG00000231918"	"ENST00000440698"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3939"	""	""	""	""	""	"1"	NA	1	"AC007682.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"2386d8b4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314606741573034	"WGS"	FALSE
"13881"	"GPR75-ASB3"	51130	"mskcc.org"	"GRCh37"	"2"	53996407	53996407	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.102-3685C>T"	""	""	"ENST00000352846"	""	93	"64"	29	52	"52"	0	"GPR75-ASB3,intron_variant,,ENST00000263634,NM_016115.4;GPR75-ASB3,intron_variant,,ENST00000406687,NM_001201965.1;ASB3,intron_variant,,ENST00000406625,;GPR75-ASB3,intron_variant,,ENST00000352846,NM_001164165.1;GPR75-ASB3,intron_variant,,ENST00000394717,NM_145863.2;CHAC2,intron_variant,,ENST00000295304,NM_001008708.2;GPR75-ASB3,upstream_gene_variant,,ENST00000406053,;ASB3,intron_variant,,ENST00000498475,;GPR75-ASB3,intron_variant,,ENST00000470916,;ASB3,intron_variant,,ENST00000459916,;GPR75-ASB3,intron_variant,,ENST00000414369,;GPR75-ASB3,upstream_gene_variant,,ENST00000482829,;GPR75-ASB3,upstream_gene_variant,,ENST00000482134,;GPR75-ASB3,upstream_gene_variant,,ENST00000480522,;GPR75-ASB3,upstream_gene_variant,,ENST00000489508,;"	"A"	"ENSG00000115239"	"ENST00000352846"	"Transcript"	"intron_variant"	"-/1960"	"-/1671"	"-/556"	""	""	""	"1"	NA	-1	"GPR75-ASB3"	"HGNC"	40043	"protein_coding"	"YES"	"CCDS54361.1"	"ENSP00000313756"	"Q9Y575"	""	"UPI0000E07423"	"NM_001164165.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"23871464-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311827956989247	"WGS"	FALSE
"13882"	"CCDC88A"	55704	"mskcc.org"	"GRCh37"	"2"	55604563	55604563	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.274-2544G>C"	""	""	"ENST00000336838"	""	81	"74"	7	29	"29"	0	"CCDC88A,intron_variant,,ENST00000436346,NM_001135597.1,NM_001254943.1;CCDC88A,intron_variant,,ENST00000263630,NM_018084.4;CCDC88A,intron_variant,,ENST00000336838,;CCDC88A,intron_variant,,ENST00000413716,;CCDC88A,intron_variant,,ENST00000430086,;"	"G"	"ENSG00000115355"	"ENST00000336838"	"Transcript"	"intron_variant"	"-/9505"	"-/5613"	"-/1870"	""	""	""	"1"	NA	-1	"CCDC88A"	"HGNC"	25523	"protein_coding"	"YES"	"CCDS46288.1"	"ENSP00000338728"	"Q3V6T2"	"C9J225,B4DSN0"	"UPI00005B7220"	""	""	""	""	"3/32"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"23876928-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"13883"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	56053330	56053330	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"74"	6	37	"37"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"238790ce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"13884"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	56885235	56885235	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"58"	34	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"2387a03c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.369565217391304	"WGS"	FALSE
"13885"	"VRK2"	7444	"mskcc.org"	"GRCh37"	"2"	58331879	58331879	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.543+15021A>G"	""	""	"ENST00000435505"	""	74	"38"	36	51	"51"	0	"VRK2,intron_variant,,ENST00000435505,NM_001288837.1;VRK2,intron_variant,,ENST00000417641,NM_001288838.1;VRK2,intron_variant,,ENST00000412104,NM_001130483.2;VRK2,intron_variant,,ENST00000340157,NM_001130481.2,NM_006296.6,NM_001130480.2;VRK2,intron_variant,,ENST00000440705,NM_001130482.2;VRK2,intron_variant,,ENST00000432057,NM_001288836.1;"	"G"	"ENSG00000028116"	"ENST00000435505"	"Transcript"	"intron_variant"	"-/2446"	"-/1527"	"-/508"	""	""	""	"1"	NA	1	"VRK2"	"HGNC"	12719	"protein_coding"	"YES"	"CCDS1859.1"	"ENSP00000408002"	"Q86Y07"	""	"UPI000013D498"	"NM_001288837.1"	""	""	""	"10/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"2387c3be-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.486486486486487	"WGS"	FALSE
"13886"	"C2orf74"	339804	"mskcc.org"	"GRCh37"	"2"	61392809	61392809	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000432605"	""	106	"95"	11	43	"43"	0	"C2orf74,downstream_gene_variant,,ENST00000432605,NM_001143959.1;C2orf74,downstream_gene_variant,,ENST00000426997,NM_001143960.1;RP11-493E12.1,upstream_gene_variant,,ENST00000605902,;RP11-493E12.1,upstream_gene_variant,,ENST00000607743,;RP11-493E12.1,upstream_gene_variant,,ENST00000606876,;KIAA1841,downstream_gene_variant,,ENST00000462959,;KIAA1841,downstream_gene_variant,,ENST00000488469,;KIAA1841,downstream_gene_variant,,ENST00000464909,;KIAA1841,downstream_gene_variant,,ENST00000489686,;KIAA1841,downstream_gene_variant,,ENST00000398622,;"	"C"	"ENSG00000237651"	"ENST00000432605"	"Transcript"	"downstream_gene_variant"	"-/887"	"-/585"	"-/194"	""	""	""	"1"	"845"	1	"C2orf74"	"HGNC"	34439	"protein_coding"	"YES"	""	"ENSP00000402915"	"A8MZ97"	"C9JBF1"	"UPI00018E24F1"	"NM_001143959.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"23883a9c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10377358490566	"WGS"	FALSE
"13887"	"USP34"	9736	"mskcc.org"	"GRCh37"	"2"	61625266	61625266	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.553-2898A>T"	""	""	"ENST00000398571"	""	86	"79"	7	50	"50"	0	"USP34,intron_variant,,ENST00000398571,NM_014709.3;USP34,intron_variant,,ENST00000453133,;"	"A"	"ENSG00000115464"	"ENST00000398571"	"Transcript"	"intron_variant"	"-/11357"	"-/10641"	"-/3546"	""	""	""	"1"	NA	-1	"USP34"	"HGNC"	20066	"protein_coding"	"YES"	"CCDS42686.1"	"ENSP00000381577"	"Q70CQ2"	""	"UPI0000410E09"	"NM_014709.3"	""	""	""	"3/79"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"238846e0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0813953488372093	"WGS"	FALSE
"13888"	"ARHGAP25"	9938	"mskcc.org"	"GRCh37"	"2"	68996700	68996700	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.62-5653A>T"	""	""	"ENST00000409202"	""	84	"49"	35	56	"56"	0	"ARHGAP25,intron_variant,,ENST00000295381,NM_001007231.2;ARHGAP25,intron_variant,,ENST00000409202,;ARHGAP25,intron_variant,,ENST00000467265,NM_001166277.1;ARHGAP25,intron_variant,,ENST00000544262,;ARHGAP25,intron_variant,,ENST00000456116,;ARHGAP25,intron_variant,,ENST00000481684,;ARHGAP25,intron_variant,,ENST00000485700,;ARHGAP25,intron_variant,,ENST00000485573,;ARHGAP25,intron_variant,,ENST00000491237,;ARHGAP25,intron_variant,,ENST00000496266,;ARHGAP25,intron_variant,,ENST00000463061,;ARHGAP25,intron_variant,,ENST00000463483,;ARHGAP25,intron_variant,,ENST00000488795,;"	"T"	"ENSG00000163219"	"ENST00000409202"	"Transcript"	"intron_variant"	"-/2945"	"-/1941"	"-/646"	""	""	""	"1"	NA	1	"ARHGAP25"	"HGNC"	28951	"protein_coding"	"YES"	"CCDS33214.2"	"ENSP00000386911"	"P42331"	"C9JB56"	"UPI0000251EDD"	""	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"2389afb2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WGS"	FALSE
"13889"	"ANXA4"	307	"mskcc.org"	"GRCh37"	"2"	69998951	69998951	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-46-9701T>G"	""	""	"ENST00000394295"	""	85	"61"	24	56	"56"	0	"ANXA4,intron_variant,,ENST00000394295,NM_001153.3;ANXA4,intron_variant,,ENST00000536030,;ANXA4,intron_variant,,ENST00000409920,;ANXA4,intron_variant,,ENST00000418066,;ANXA4,intron_variant,,ENST00000460942,;ANXA4,intron_variant,,ENST00000487351,;ANXA4,intron_variant,,ENST00000460439,;ANXA4,intron_variant,,ENST00000477632,;"	"G"	"ENSG00000196975"	"ENST00000394295"	"Transcript"	"intron_variant"	"-/2163"	"-/966"	"-/321"	""	""	""	"1"	NA	1	"ANXA4"	"HGNC"	542	"protein_coding"	"YES"	"CCDS1894.1"	"ENSP00000377833"	"P09525"	"Q6MZI0,Q6LES2,B4DDF9"	"UPI000013D51A"	"NM_001153.3"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"2389e4aa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282352941176471	"WGS"	FALSE
"13890"	"C2orf42"	54980	"mskcc.org"	"GRCh37"	"2"	70386251	70386251	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1516+1506G>T"	""	""	"ENST00000264434"	""	54	"50"	4	39	"39"	0	"C2orf42,intron_variant,,ENST00000264434,NM_017880.1;C2orf42,intron_variant,,ENST00000420306,;"	"A"	"ENSG00000115998"	"ENST00000264434"	"Transcript"	"intron_variant"	"-/2581"	"-/1725"	"-/574"	""	""	""	"1"	NA	-1	"C2orf42"	"HGNC"	26056	"protein_coding"	"YES"	"CCDS1899.1"	"ENSP00000264434"	"Q9NWW7"	"C9JZF3,C9JV10,C9JS43,C9JKD5,C9JK51,C9JJF4,C9J5U1,C9J4L7"	"UPI0000037CF2"	"NM_017880.1"	""	""	""	"9/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"238a041c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"13891"	"C2orf42"	54980	"mskcc.org"	"GRCh37"	"2"	70399547	70399547	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1040-2754A>G"	""	""	"ENST00000264434"	""	108	"99"	9	31	"31"	0	"C2orf42,intron_variant,,ENST00000264434,NM_017880.1;C2orf42,intron_variant,,ENST00000420306,;"	"C"	"ENSG00000115998"	"ENST00000264434"	"Transcript"	"intron_variant"	"-/2581"	"-/1725"	"-/574"	""	""	""	"1"	NA	-1	"C2orf42"	"HGNC"	26056	"protein_coding"	"YES"	"CCDS1899.1"	"ENSP00000264434"	"Q9NWW7"	"C9JZF3,C9JV10,C9JS43,C9JKD5,C9JK51,C9JJF4,C9J5U1,C9J4L7"	"UPI0000037CF2"	"NM_017880.1"	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"238a096c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13892"	"C2orf42"	54980	"mskcc.org"	"GRCh37"	"2"	70399559	70399559	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1040-2766A>G"	""	""	"ENST00000264434"	""	109	"101"	8	31	"31"	0	"C2orf42,intron_variant,,ENST00000264434,NM_017880.1;C2orf42,intron_variant,,ENST00000420306,;"	"C"	"ENSG00000115998"	"ENST00000264434"	"Transcript"	"intron_variant"	"-/2581"	"-/1725"	"-/574"	""	""	""	"1"	NA	-1	"C2orf42"	"HGNC"	26056	"protein_coding"	"YES"	"CCDS1899.1"	"ENSP00000264434"	"Q9NWW7"	"C9JZF3,C9JV10,C9JS43,C9JKD5,C9JK51,C9JJF4,C9J5U1,C9J4L7"	"UPI0000037CF2"	"NM_017880.1"	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"238a0a16-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.073394495412844	"WGS"	FALSE
"13893"	"C2orf42"	54980	"mskcc.org"	"GRCh37"	"2"	70399590	70399590	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1040-2797A>T"	""	""	"ENST00000264434"	""	105	"98"	7	34	"34"	0	"C2orf42,intron_variant,,ENST00000264434,NM_017880.1;C2orf42,intron_variant,,ENST00000420306,;"	"A"	"ENSG00000115998"	"ENST00000264434"	"Transcript"	"intron_variant"	"-/2581"	"-/1725"	"-/574"	""	""	""	"1"	NA	-1	"C2orf42"	"HGNC"	26056	"protein_coding"	"YES"	"CCDS1899.1"	"ENSP00000264434"	"Q9NWW7"	"C9JZF3,C9JV10,C9JS43,C9JKD5,C9JK51,C9JJF4,C9J5U1,C9J4L7"	"UPI0000037CF2"	"NM_017880.1"	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"238a0aca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"13894"	"C2orf42"	54980	"mskcc.org"	"GRCh37"	"2"	70414893	70414893	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-282+3212G>C"	""	""	"ENST00000264434"	""	94	"86"	8	57	"57"	0	"C2orf42,intron_variant,,ENST00000264434,NM_017880.1;C2orf42,intron_variant,,ENST00000457952,;C2orf42,intron_variant,,ENST00000428751,;C2orf42,intron_variant,,ENST00000425268,;C2orf42,intron_variant,,ENST00000417865,;C2orf42,intron_variant,,ENST00000447804,;C2orf42,intron_variant,,ENST00000417203,;C2orf42,intron_variant,,ENST00000428010,;C2orf42,upstream_gene_variant,,ENST00000419381,;C2orf42,intron_variant,,ENST00000470096,;C2orf42,intron_variant,,ENST00000487560,;C2orf42,intron_variant,,ENST00000495353,;C2orf42,intron_variant,,ENST00000464505,;"	"G"	"ENSG00000115998"	"ENST00000264434"	"Transcript"	"intron_variant"	"-/2581"	"-/1725"	"-/574"	""	""	""	"1"	NA	-1	"C2orf42"	"HGNC"	26056	"protein_coding"	"YES"	"CCDS1899.1"	"ENSP00000264434"	"Q9NWW7"	"C9JZF3,C9JV10,C9JS43,C9JKD5,C9JK51,C9JJF4,C9J5U1,C9J4L7"	"UPI0000037CF2"	"NM_017880.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"238a0c28-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"13895"	"TIA1"	7072	"mskcc.org"	"GRCh37"	"2"	70459502	70459502	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.124-1516C>T"	""	""	"ENST00000433529"	""	56	"50"	6	44	"44"	0	"TIA1,intron_variant,,ENST00000433529,NM_022173.2;TIA1,intron_variant,,ENST00000415783,NM_022037.2;TIA1,intron_variant,,ENST00000282574,;TIA1,intron_variant,,ENST00000445587,;TIA1,intron_variant,,ENST00000416149,;TIA1,intron_variant,,ENST00000361692,;TIA1,upstream_gene_variant,,ENST00000454815,;C2orf42,intron_variant,,ENST00000470096,;TIA1,intron_variant,,ENST00000474809,;TIA1,intron_variant,,ENST00000477044,;TIA1,intron_variant,,ENST00000496452,;TIA1,intron_variant,,ENST00000481650,;TIA1,upstream_gene_variant,,ENST00000496096,;TIA1,upstream_gene_variant,,ENST00000477415,;"	"A"	"ENSG00000116001"	"ENST00000433529"	"Transcript"	"intron_variant"	"-/4647"	"-/1161"	"-/386"	""	""	""	"1"	NA	-1	"TIA1"	"HGNC"	11802	"protein_coding"	"YES"	"CCDS1901.1"	"ENSP00000401371"	"P31483"	"F8WE16"	"UPI0000410EF5"	"NM_022173.2"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"238a140c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"13896"	"TGFA"	7039	"mskcc.org"	"GRCh37"	"2"	70770063	70770063	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.40+10797A>G"	""	""	"ENST00000295400"	""	89	"78"	11	37	"37"	0	"TGFA,intron_variant,,ENST00000295400,NM_001099691.2,NM_003236.3;TGFA,intron_variant,,ENST00000418333,;TGFA,intron_variant,,ENST00000444975,;TGFA,intron_variant,,ENST00000450929,;TGFA,intron_variant,,ENST00000445399,;TGFA,intron_variant,,ENST00000394241,;TGFA,intron_variant,,ENST00000460808,;TGFA,intron_variant,,ENST00000474101,;"	"C"	"ENSG00000163235"	"ENST00000295400"	"Transcript"	"intron_variant"	"-/4310"	"-/483"	"-/160"	""	""	""	"1"	NA	-1	"TGFA"	"HGNC"	11765	"protein_coding"	"YES"	"CCDS1905.1"	"ENSP00000295400"	"P01135"	"Q9UQ91,Q9UIS3,Q6QBS1"	"UPI0000006BEF"	"NM_001099691.2,NM_003236.3"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"238a3f36-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123595505617978	"WGS"	FALSE
"13897"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	71108587	71108587	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"58"	33	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"238a46d4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.362637362637363	"WGS"	FALSE
"13898"	"VAX2"	25806	"mskcc.org"	"GRCh37"	"2"	71142626	71142626	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.248-5602C>T"	""	""	"ENST00000234392"	""	77	"51"	26	43	"43"	0	"VAX2,intron_variant,,ENST00000234392,NM_012476.2;"	"T"	"ENSG00000116035"	"ENST00000234392"	"Transcript"	"intron_variant"	"-/1147"	"-/873"	"-/290"	""	""	""	"1"	NA	1	"VAX2"	"HGNC"	12661	"protein_coding"	"YES"	"CCDS1911.1"	"ENSP00000234392"	"Q9UIW0"	"F1T0K5"	"UPI0000138215"	"NM_012476.2"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"238a48f0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337662337662338	"WGS"	FALSE
"13899"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	72242516	72242516	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	46	"41"	5	35	"35"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"238aafde-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108695652173913	"WGS"	FALSE
"13900"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	76076624	76076624	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"57"	38	51	"51"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"238b2cfc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WGS"	FALSE
"13901"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	76813592	76813592	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"54"	44	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"238b379c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.448979591836735	"WGS"	FALSE
"13902"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	76903568	76903568	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"83"	10	45	"45"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"238b3b5c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10752688172043	"WGS"	FALSE
"13903"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	76961294	76961294	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"60"	33	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"238b3c1a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354838709677419	"WGS"	FALSE
"13904"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	78608469	78608469	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"84"	31	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"238b5a92-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269565217391304	"WGS"	FALSE
"13905"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	78688475	78688475	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"62"	29	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"238b5c18-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318681318681319	"WGS"	FALSE
"13906"	"CTNNA2"	1496	"mskcc.org"	"GRCh37"	"2"	79687357	79687357	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-134-44823T>A"	""	""	"ENST00000466387"	""	97	"67"	30	63	"63"	0	"CTNNA2,intron_variant,,ENST00000466387,;"	"A"	"ENSG00000066032"	"ENST00000466387"	"Transcript"	"intron_variant"	"-/4349"	"-/2718"	"-/905"	""	""	""	"1"	NA	1	"CTNNA2"	"HGNC"	2510	"protein_coding"	"YES"	"CCDS42703.2"	"ENSP00000418191"	"P26232"	"F6KRI5,C9J144,C9IZ88"	"UPI00001A3E86"	""	""	""	""	"4/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"238b787e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309278350515464	"WGS"	FALSE
"13907"	"ENSR00001703768"	0	"mskcc.org"	"GRCh37"	"2"	81708488	81708488	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001703768"	""	76	"57"	19	46	"46"	0	""	"A"	""	"ENSR00001703768"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"238baf56-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"13908"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	82776277	82776277	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"65"	30	46	"46"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"238bccf2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WGS"	FALSE
"13909"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	85155418	85155418	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"51"	25	31	"31"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"238c2fda-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.328947368421053	"WGS"	FALSE
"13910"	"REEP1"	65055	"mskcc.org"	"GRCh37"	"2"	86493973	86493973	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.127-2809C>T"	""	""	"ENST00000538924"	""	75	"69"	6	29	"29"	0	"REEP1,intron_variant,,ENST00000165698,NM_022912.2;REEP1,intron_variant,,ENST00000535845,NM_001164731.1;REEP1,intron_variant,,ENST00000538924,NM_001164730.1;REEP1,intron_variant,,ENST00000541910,NM_001164732.1;REEP1,intron_variant,,ENST00000540790,;REEP1,intron_variant,,ENST00000489855,;REEP1,intron_variant,,ENST00000453231,;REEP1,intron_variant,,ENST00000428491,;REEP1,intron_variant,,ENST00000437769,;REEP1,intron_variant,,ENST00000473407,;REEP1,intron_variant,,ENST00000475475,;"	"A"	"ENSG00000068615"	"ENST00000538924"	"Transcript"	"intron_variant"	"-/3735"	"-/627"	"-/208"	""	""	""	"1"	NA	-1	"REEP1"	"HGNC"	25786	"protein_coding"	"YES"	"CCDS54374.1"	"ENSP00000438346"	"Q9H902"	"E7EUF7"	"UPI0001914DEC"	"NM_001164730.1"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"238c97e0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"13911"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	87626836	87626836	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"87"	6	38	"38"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"238d7700-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"13912"	"SMYD1"	150572	"mskcc.org"	"GRCh37"	"2"	88364851	88364851	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000419482"	""	43	"37"	6	19	"19"	0	"SMYD1,upstream_gene_variant,,ENST00000419482,NM_198274.3;SMYD1,upstream_gene_variant,,ENST00000444564,;SMYD1,upstream_gene_variant,,ENST00000438570,;"	"A"	"ENSG00000115593"	"ENST00000419482"	"Transcript"	"upstream_gene_variant"	"-/4433"	"-/1473"	"-/490"	""	""	""	"1"	"2448"	1	"SMYD1"	"HGNC"	20986	"protein_coding"	"YES"	"CCDS33240.1"	"ENSP00000393453"	"Q8NB12"	"Q5GJ33"	"UPI000006EB68"	"NM_198274.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"238e1c78-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"13913"	"IGKV1-8"	0	"mskcc.org"	"GRCh37"	"2"	89292476	89292476	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000495489"	""	35	"31"	4	14	"14"	0	"IGKV1-8,upstream_gene_variant,,ENST00000495489,;"	"A"	"ENSG00000240671"	"ENST00000495489"	"Transcript"	"upstream_gene_variant"	"-/398"	"-/345"	"-/115"	""	""	""	"1"	"26"	-1	"IGKV1-8"	"HGNC"	5743	"IG_V_gene"	"YES"	""	"ENSP00000419211"	""	""	"UPI00001148EE"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"238e4eb4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"13914"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	96498040	96498040	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"77"	6	31	"31"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"23922426-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"13915"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	96664447	96664447	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"60"	16	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"23925ee6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"13916"	"FAM178B"	51252	"mskcc.org"	"GRCh37"	"2"	97664915	97664915	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.272+9819C>T"	""	""	"ENST00000417561"	""	63	"55"	8	28	"28"	0	"FAM178B,intron_variant,,ENST00000417561,;"	"A"	"ENSG00000168754"	"ENST00000417561"	"Transcript"	"intron_variant"	"-/2877"	"-/2484"	"-/827"	""	""	""	"1"	NA	-1	"FAM178B"	"HGNC"	28036	"protein_coding"	""	""	"ENSP00000413245"	"Q8IXR5"	"F8W6I6,B3KV66"	"UPI0001642915"	""	""	""	""	"2/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"2392c30e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126984126984127	"WGS"	FALSE
"13917"	"ANKRD36"	375248	"mskcc.org"	"GRCh37"	"2"	97932656	97932656	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000420699"	""	30	"26"	4	16	"16"	0	"ANKRD36,downstream_gene_variant,,ENST00000420699,NM_001164315.1;"	"A"	"ENSG00000135976"	"ENST00000420699"	"Transcript"	"downstream_gene_variant"	"-/6269"	"-/5826"	"-/1941"	""	""	""	"1"	"2398"	1	"ANKRD36"	"HGNC"	24079	"protein_coding"	"YES"	"CCDS54379.1"	"ENSP00000391950"	"A6QL64"	""	"UPI0001B23BB4"	"NM_001164315.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"2392f45a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"13918"	"PDCL3"	79031	"mskcc.org"	"GRCh37"	"2"	101182000	101182000	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7-965T>A"	""	""	"ENST00000264254"	""	70	"65"	5	36	"36"	0	"PDCL3,intron_variant,,ENST00000264254,NM_024065.4;PDCL3,intron_variant,,ENST00000416255,;PDCL3,upstream_gene_variant,,ENST00000450127,;"	"A"	"ENSG00000115539"	"ENST00000264254"	"Transcript"	"intron_variant"	"-/1337"	"-/720"	"-/239"	""	""	""	"1"	NA	1	"PDCL3"	"HGNC"	28860	"protein_coding"	"YES"	"CCDS33261.1"	"ENSP00000264254"	"Q9H2J4"	"C9JST4"	"UPI00000372D0"	"NM_024065.4"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"239376e6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"13919"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	104842785	104842785	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"59"	26	54	"53"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"239436a8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305882352941176	"WGS"	FALSE
"13920"	"RGPD4"	285190	"mskcc.org"	"GRCh37"	"2"	108465885	108465885	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.978+893C>T"	""	""	"ENST00000408999"	""	54	"47"	7	22	"22"	0	"RGPD4,intron_variant,,ENST00000408999,NM_182588.2;RGPD4,intron_variant,,ENST00000354986,;"	"T"	"ENSG00000196862"	"ENST00000408999"	"Transcript"	"intron_variant"	"-/5464"	"-/5277"	"-/1758"	""	""	""	"1"	NA	1	"RGPD4"	"HGNC"	32417	"protein_coding"	"YES"	"CCDS46381.1"	"ENSP00000386810"	"Q7Z3J3"	"I1Z9D1"	"UPI0000418FF7"	"NM_182588.2"	""	""	""	"7/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"2394e5e4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12962962962963	"WGS"	FALSE
"13921"	"CCDC138"	165055	"mskcc.org"	"GRCh37"	"2"	109426238	109426238	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.856-2849G>A"	""	""	"ENST00000295124"	""	88	"59"	29	54	"54"	0	"CCDC138,intron_variant,,ENST00000295124,NM_144978.1;CCDC138,intron_variant,,ENST00000412964,;CCDC138,intron_variant,,ENST00000456512,;CCDC138,intron_variant,,ENST00000409529,;"	"A"	"ENSG00000163006"	"ENST00000295124"	"Transcript"	"intron_variant"	"-/2383"	"-/1998"	"-/665"	""	""	""	"1"	NA	1	"CCDC138"	"HGNC"	26531	"protein_coding"	"YES"	"CCDS2080.1"	"ENSP00000295124"	"Q96M89"	""	"UPI000006E2CB"	"NM_144978.1"	""	""	""	"7/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"23951ea6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329545454545455	"WGS"	FALSE
"13922"	"DPP10"	57628	"mskcc.org"	"GRCh37"	"2"	115562568	115562568	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs182563897"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.60+362153C>T"	""	""	"ENST00000410059"	""	71	"44"	27	44	"44"	0	"DPP10,intron_variant,,ENST00000410059,NM_001178037.1,NM_020868.3;DPP10,intron_variant,,ENST00000409163,NM_001178036.1;DPP10,intron_variant,,ENST00000436732,;DPP10,intron_variant,,ENST00000461250,;"	"T"	"ENSG00000175497"	"ENST00000410059"	"Transcript"	"intron_variant"	"-/6278"	"-/2391"	"-/796"	""	""	"rs182563897"	"1"	NA	1	"DPP10"	"HGNC"	20823	"protein_coding"	""	"CCDS46400.1"	"ENSP00000386565"	"Q8N608"	"Q53TB1,J3KQK8,C9J4M8"	"UPI00001AEF55"	"NM_001178037.1,NM_020868.3"	""	""	""	"1/25"	""	"T:0.0006"	"T:0"	"T:0"	NA	"T:0"	"T:0.002"	"T:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"2397322c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.380281690140845	"WGS"	FALSE
"13923"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	117125759	117125759	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"51"	35	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"239777d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.406976744186047	"WGS"	FALSE
"13924"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	117699191	117699191	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"77"	6	42	"42"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"23978ee8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"13925"	"EPB41L5"	57669	"mskcc.org"	"GRCh37"	"2"	120917976	120917976	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1794-481A>T"	""	""	"ENST00000263713"	""	96	"62"	34	46	"46"	0	"EPB41L5,intron_variant,,ENST00000263713,NM_020909.3;EPB41L5,intron_variant,,ENST00000452780,;EPB41L5,intron_variant,,ENST00000443902,NM_001184937.1;EPB41L5,upstream_gene_variant,,ENST00000488691,;"	"T"	"ENSG00000115109"	"ENST00000263713"	"Transcript"	"intron_variant"	"-/6628"	"-/2202"	"-/733"	""	""	""	"1"	NA	1	"EPB41L5"	"HGNC"	19819	"protein_coding"	"YES"	"CCDS2130.1"	"ENSP00000263713"	"Q9HCM4"	"Q53RT1,Q4ZG32"	"UPI00001B078A"	"NM_020909.3"	""	""	""	"20/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"23980c24-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354166666666667	"WGS"	FALSE
"13926"	"CLASP1"	23332	"mskcc.org"	"GRCh37"	"2"	122345346	122345346	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.195+17931T>C"	""	""	"ENST00000263710"	""	72	"66"	6	37	"37"	0	"CLASP1,intron_variant,,ENST00000263710,NM_015282.2;CLASP1,intron_variant,,ENST00000409078,;CLASP1,intron_variant,,ENST00000455322,;CLASP1,intron_variant,,ENST00000397587,NM_001142274.1,NM_001142273.1;CLASP1,intron_variant,,ENST00000541377,NM_001207051.1;"	"G"	"ENSG00000074054"	"ENST00000263710"	"Transcript"	"intron_variant"	"-/8090"	"-/4617"	"-/1538"	""	""	""	"1"	NA	-1	"CLASP1"	"HGNC"	17088	"protein_coding"	"YES"	""	"ENSP00000263710"	"Q7Z460"	"C9JP76,C9J151"	"UPI00001A8BFF"	"NM_015282.2"	""	""	""	"2/39"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"23987ea2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13927"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	125960239	125960239	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"64"	38	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"2399395a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.372549019607843	"WGS"	FALSE
"13928"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	130395761	130395761	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"86"	8	50	"50"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"239a1a64-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"13929"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	130716621	130716621	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"60"	32	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"239a329c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347826086956522	"WGS"	FALSE
"13930"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	131426966	131426966	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"66"	9	37	"37"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"239a72de-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"13931"	"RP11-629P16.1"	0	"mskcc.org"	"GRCh37"	"2"	132833424	132833424	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000603823"	""	63	"56"	7	37	"37"	0	"RP11-629P16.1,downstream_gene_variant,,ENST00000603823,;"	"C"	"ENSG00000271179"	"ENST00000603823"	"Transcript"	"downstream_gene_variant"	"-/466"	""	""	""	""	""	"1"	"4439"	-1	"RP11-629P16.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"239b2a4e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"13932"	"NCKAP5"	344148	"mskcc.org"	"GRCh37"	"2"	133676050	133676050	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.580-39561A>C"	""	""	"ENST00000409261"	""	93	"84"	9	46	"46"	0	"NCKAP5,intron_variant,,ENST00000409261,NM_207363.2;NCKAP5,intron_variant,,ENST00000317721,;NCKAP5,intron_variant,,ENST00000409213,NM_207481.3;NCKAP5,intron_variant,,ENST00000405974,;AC016909.1,intron_variant,,ENST00000424510,;"	"G"	"ENSG00000176771"	"ENST00000409261"	"Transcript"	"intron_variant"	"-/7592"	"-/5730"	"-/1909"	""	""	""	"1"	NA	-1	"NCKAP5"	"HGNC"	29847	"protein_coding"	"YES"	"CCDS46418.1"	"ENSP00000387128"	"O14513"	"C9JYL7"	"UPI0000E07A3F"	"NM_207363.2"	""	""	""	"8/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"239b8c46-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"13933"	"NCKAP5"	344148	"mskcc.org"	"GRCh37"	"2"	134049860	134049860	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.143+10749T>G"	""	""	"ENST00000409261"	""	94	"66"	28	48	"48"	0	"NCKAP5,intron_variant,,ENST00000409261,NM_207363.2;NCKAP5,intron_variant,,ENST00000317721,;NCKAP5,intron_variant,,ENST00000409213,NM_207481.3;NCKAP5,intron_variant,,ENST00000427594,;NCKAP5,intron_variant,,ENST00000405974,;NCKAP5,intron_variant,,ENST00000358991,;"	"C"	"ENSG00000176771"	"ENST00000409261"	"Transcript"	"intron_variant"	"-/7592"	"-/5730"	"-/1909"	""	""	""	"1"	NA	-1	"NCKAP5"	"HGNC"	29847	"protein_coding"	"YES"	"CCDS46418.1"	"ENSP00000387128"	"O14513"	"C9JYL7"	"UPI0000E07A3F"	"NM_207363.2"	""	""	""	"4/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"239b948e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297872340425532	"WGS"	FALSE
"13934"	"TMEM163"	81615	"mskcc.org"	"GRCh37"	"2"	135420128	135420128	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.322+50642T>A"	""	""	"ENST00000281924"	""	98	"93"	5	55	"55"	0	"TMEM163,intron_variant,,ENST00000281924,NM_030923.4;"	"T"	"ENSG00000152128"	"ENST00000281924"	"Transcript"	"intron_variant"	"-/1892"	"-/870"	"-/289"	""	""	""	"1"	NA	-1	"TMEM163"	"HGNC"	25380	"protein_coding"	"YES"	"CCDS2172.1"	"ENSP00000281924"	"Q8TC26"	""	"UPI000007217C"	"NM_030923.4"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"239bcff8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0510204081632653	"WGS"	FALSE
"13935"	"MAP3K19"	80122	"mskcc.org"	"GRCh37"	"2"	135790885	135790885	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs562261950"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-63+7048C>T"	""	""	"ENST00000414343"	""	28	"22"	6	13	"13"	0	"MAP3K19,intron_variant,,ENST00000414343,;MAP3K19,intron_variant,,ENST00000486077,;MAP3K19,intron_variant,,ENST00000468155,;"	"A"	"ENSG00000176601"	"ENST00000414343"	"Transcript"	"intron_variant"	"-/541"	"-/65"	"-/21"	""	""	"rs562261950"	"1"	NA	-1	"MAP3K19"	"HGNC"	26249	"protein_coding"	""	""	"ENSP00000416345"	""	"C9JGQ2"	"UPI000198C60B"	""	""	""	""	"2/3"	""	"A:0.0012"	"A:0.0038"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"239bdd86-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"13936"	"MAP3K19"	80122	"mskcc.org"	"GRCh37"	"2"	135791053	135791053	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-63+6880A>C"	""	""	"ENST00000414343"	""	19	"15"	4	5	"5"	0	"MAP3K19,intron_variant,,ENST00000414343,;MAP3K19,intron_variant,,ENST00000486077,;MAP3K19,intron_variant,,ENST00000468155,;"	"G"	"ENSG00000176601"	"ENST00000414343"	"Transcript"	"intron_variant"	"-/541"	"-/65"	"-/21"	""	""	""	"1"	NA	-1	"MAP3K19"	"HGNC"	26249	"protein_coding"	""	""	"ENSP00000416345"	""	"C9JGQ2"	"UPI000198C60B"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"239bdee4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"13937"	"MAP3K19"	80122	"mskcc.org"	"GRCh37"	"2"	135791055	135791055	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-63+6878C>G"	""	""	"ENST00000414343"	""	23	"20"	3	5	"5"	0	"MAP3K19,intron_variant,,ENST00000414343,;MAP3K19,intron_variant,,ENST00000486077,;MAP3K19,intron_variant,,ENST00000468155,;"	"C"	"ENSG00000176601"	"ENST00000414343"	"Transcript"	"intron_variant"	"-/541"	"-/65"	"-/21"	""	""	""	"1"	NA	-1	"MAP3K19"	"HGNC"	26249	"protein_coding"	""	""	"ENSP00000416345"	""	"C9JGQ2"	"UPI000198C60B"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"239bdf8e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"13938"	"MAP3K19"	80122	"mskcc.org"	"GRCh37"	"2"	135791057	135791057	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-63+6876G>C"	""	""	"ENST00000414343"	""	21	"18"	3	5	"5"	0	"MAP3K19,intron_variant,,ENST00000414343,;MAP3K19,intron_variant,,ENST00000486077,;MAP3K19,intron_variant,,ENST00000468155,;"	"G"	"ENSG00000176601"	"ENST00000414343"	"Transcript"	"intron_variant"	"-/541"	"-/65"	"-/21"	""	""	""	"1"	NA	-1	"MAP3K19"	"HGNC"	26249	"protein_coding"	""	""	"ENSP00000416345"	""	"C9JGQ2"	"UPI000198C60B"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"239be042-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"13939"	"MAP3K19"	80122	"mskcc.org"	"GRCh37"	"2"	135791060	135791060	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-63+6873C>G"	""	""	"ENST00000414343"	""	23	"20"	3	5	"5"	0	"MAP3K19,intron_variant,,ENST00000414343,;MAP3K19,intron_variant,,ENST00000486077,;MAP3K19,intron_variant,,ENST00000468155,;"	"C"	"ENSG00000176601"	"ENST00000414343"	"Transcript"	"intron_variant"	"-/541"	"-/65"	"-/21"	""	""	""	"1"	NA	-1	"MAP3K19"	"HGNC"	26249	"protein_coding"	""	""	"ENSP00000416345"	""	"C9JGQ2"	"UPI000198C60B"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"239be0f6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"13940"	"MAP3K19"	80122	"mskcc.org"	"GRCh37"	"2"	135791061	135791061	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-63+6872G>T"	""	""	"ENST00000414343"	""	24	"21"	3	5	"5"	0	"MAP3K19,intron_variant,,ENST00000414343,;MAP3K19,intron_variant,,ENST00000486077,;MAP3K19,intron_variant,,ENST00000468155,;"	"A"	"ENSG00000176601"	"ENST00000414343"	"Transcript"	"intron_variant"	"-/541"	"-/65"	"-/21"	""	""	""	"1"	NA	-1	"MAP3K19"	"HGNC"	26249	"protein_coding"	""	""	"ENSP00000416345"	""	"C9JGQ2"	"UPI000198C60B"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"239be1aa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"13941"	"MAP3K19"	80122	"mskcc.org"	"GRCh37"	"2"	135791074	135791074	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-63+6859G>T"	""	""	"ENST00000414343"	""	23	"20"	3	5	"5"	0	"MAP3K19,intron_variant,,ENST00000414343,;MAP3K19,intron_variant,,ENST00000486077,;MAP3K19,intron_variant,,ENST00000468155,;"	"A"	"ENSG00000176601"	"ENST00000414343"	"Transcript"	"intron_variant"	"-/541"	"-/65"	"-/21"	""	""	""	"1"	NA	-1	"MAP3K19"	"HGNC"	26249	"protein_coding"	""	""	"ENSP00000416345"	""	"C9JGQ2"	"UPI000198C60B"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"239be254-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"13942"	"MAP3K19"	80122	"mskcc.org"	"GRCh37"	"2"	135791092	135791092	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-63+6841C>G"	""	""	"ENST00000414343"	""	22	"19"	3	7	"7"	0	"MAP3K19,intron_variant,,ENST00000414343,;MAP3K19,intron_variant,,ENST00000486077,;MAP3K19,intron_variant,,ENST00000468155,;"	"C"	"ENSG00000176601"	"ENST00000414343"	"Transcript"	"intron_variant"	"-/541"	"-/65"	"-/21"	""	""	""	"1"	NA	-1	"MAP3K19"	"HGNC"	26249	"protein_coding"	""	""	"ENSP00000416345"	""	"C9JGQ2"	"UPI000198C60B"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"239be3b2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"13943"	"MAP3K19"	80122	"mskcc.org"	"GRCh37"	"2"	135791097	135791097	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-63+6836C>G"	""	""	"ENST00000414343"	""	23	"20"	3	7	"7"	0	"MAP3K19,intron_variant,,ENST00000414343,;MAP3K19,intron_variant,,ENST00000486077,;MAP3K19,intron_variant,,ENST00000468155,;"	"C"	"ENSG00000176601"	"ENST00000414343"	"Transcript"	"intron_variant"	"-/541"	"-/65"	"-/21"	""	""	""	"1"	NA	-1	"MAP3K19"	"HGNC"	26249	"protein_coding"	""	""	"ENSP00000416345"	""	"C9JGQ2"	"UPI000198C60B"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"239be51a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"13944"	"MAP3K19"	80122	"mskcc.org"	"GRCh37"	"2"	135791098	135791098	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-63+6835G>T"	""	""	"ENST00000414343"	""	24	"21"	3	7	"7"	0	"MAP3K19,intron_variant,,ENST00000414343,;MAP3K19,intron_variant,,ENST00000486077,;MAP3K19,intron_variant,,ENST00000468155,;"	"A"	"ENSG00000176601"	"ENST00000414343"	"Transcript"	"intron_variant"	"-/541"	"-/65"	"-/21"	""	""	""	"1"	NA	-1	"MAP3K19"	"HGNC"	26249	"protein_coding"	""	""	"ENSP00000416345"	""	"C9JGQ2"	"UPI000198C60B"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"239be5ce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"13945"	"MAP3K19"	80122	"mskcc.org"	"GRCh37"	"2"	135791103	135791103	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-63+6830C>G"	""	""	"ENST00000414343"	""	25	"22"	3	7	"7"	0	"MAP3K19,intron_variant,,ENST00000414343,;MAP3K19,intron_variant,,ENST00000486077,;MAP3K19,intron_variant,,ENST00000468155,;"	"C"	"ENSG00000176601"	"ENST00000414343"	"Transcript"	"intron_variant"	"-/541"	"-/65"	"-/21"	""	""	""	"1"	NA	-1	"MAP3K19"	"HGNC"	26249	"protein_coding"	""	""	"ENSP00000416345"	""	"C9JGQ2"	"UPI000198C60B"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"239be704-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"13946"	"MAP3K19"	80122	"mskcc.org"	"GRCh37"	"2"	135791121	135791121	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-63+6812T>G"	""	""	"ENST00000414343"	""	21	"17"	4	7	"7"	0	"MAP3K19,intron_variant,,ENST00000414343,;MAP3K19,intron_variant,,ENST00000486077,;MAP3K19,intron_variant,,ENST00000468155,;"	"C"	"ENSG00000176601"	"ENST00000414343"	"Transcript"	"intron_variant"	"-/541"	"-/65"	"-/21"	""	""	""	"1"	NA	-1	"MAP3K19"	"HGNC"	26249	"protein_coding"	""	""	"ENSP00000416345"	""	"C9JGQ2"	"UPI000198C60B"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"239be9ca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"13947"	"MAP3K19"	80122	"mskcc.org"	"GRCh37"	"2"	135791126	135791126	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-63+6807C>G"	""	""	"ENST00000414343"	""	26	"23"	3	9	"9"	0	"MAP3K19,intron_variant,,ENST00000414343,;MAP3K19,intron_variant,,ENST00000486077,;MAP3K19,intron_variant,,ENST00000468155,;"	"C"	"ENSG00000176601"	"ENST00000414343"	"Transcript"	"intron_variant"	"-/541"	"-/65"	"-/21"	""	""	""	"1"	NA	-1	"MAP3K19"	"HGNC"	26249	"protein_coding"	""	""	"ENSP00000416345"	""	"C9JGQ2"	"UPI000198C60B"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"239bea74-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"13948"	"MAP3K19"	80122	"mskcc.org"	"GRCh37"	"2"	135791127	135791127	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-63+6806G>C"	""	""	"ENST00000414343"	""	26	"23"	3	9	"9"	0	"MAP3K19,intron_variant,,ENST00000414343,;MAP3K19,intron_variant,,ENST00000486077,;MAP3K19,intron_variant,,ENST00000468155,;"	"G"	"ENSG00000176601"	"ENST00000414343"	"Transcript"	"intron_variant"	"-/541"	"-/65"	"-/21"	""	""	""	"1"	NA	-1	"MAP3K19"	"HGNC"	26249	"protein_coding"	""	""	"ENSP00000416345"	""	"C9JGQ2"	"UPI000198C60B"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"239beb28-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"13949"	"MAP3K19"	80122	"mskcc.org"	"GRCh37"	"2"	135791129	135791129	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-63+6804C>G"	""	""	"ENST00000414343"	""	26	"23"	3	9	"9"	0	"MAP3K19,intron_variant,,ENST00000414343,;MAP3K19,intron_variant,,ENST00000486077,;MAP3K19,intron_variant,,ENST00000468155,;"	"C"	"ENSG00000176601"	"ENST00000414343"	"Transcript"	"intron_variant"	"-/541"	"-/65"	"-/21"	""	""	""	"1"	NA	-1	"MAP3K19"	"HGNC"	26249	"protein_coding"	""	""	"ENSP00000416345"	""	"C9JGQ2"	"UPI000198C60B"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"239bebd2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"13950"	"THSD7B"	80731	"mskcc.org"	"GRCh37"	"2"	137661490	137661490	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"rs200206840"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.139+21603T>G"	""	""	"ENST00000272643"	""	46	"39"	7	23	"23"	0	"THSD7B,intron_variant,,ENST00000409968,;THSD7B,intron_variant,,ENST00000272643,;THSD7B,intron_variant,,ENST00000472720,;"	"G"	"ENSG00000144229"	"ENST00000272643"	"Transcript"	"intron_variant"	"-/5942"	"-/4830"	"-/1609"	""	""	"rs200206840"	"1"	NA	1	"THSD7B"	"HGNC"	29348	"protein_coding"	"YES"	""	"ENSP00000272643"	"Q9C0I4"	""	"UPI00015E0A18"	""	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"239c57ca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152173913043478	"WGS"	FALSE
"13951"	"THSD7B"	80731	"mskcc.org"	"GRCh37"	"2"	137833549	137833549	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.950+18749G>T"	""	""	"ENST00000272643"	""	70	"44"	26	46	"46"	0	"THSD7B,intron_variant,,ENST00000409968,;THSD7B,intron_variant,,ENST00000272643,;THSD7B,intron_variant,,ENST00000413152,NM_001080427.1;THSD7B,intron_variant,,ENST00000543459,;"	"T"	"ENSG00000144229"	"ENST00000272643"	"Transcript"	"intron_variant"	"-/5942"	"-/4830"	"-/1609"	""	""	""	"1"	NA	1	"THSD7B"	"HGNC"	29348	"protein_coding"	"YES"	""	"ENSP00000272643"	"Q9C0I4"	""	"UPI00015E0A18"	""	""	""	""	"2/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"239c5ee6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.371428571428571	"WGS"	FALSE
"13952"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	138940015	138940015	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"63"	27	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"239c8c68-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"13953"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	142980646	142980646	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"74"	37	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"239d1d9a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"13954"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	143418361	143418361	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"47"	28	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"239d2646-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373333333333333	"WGS"	FALSE
"13955"	"ARHGAP15"	55843	"mskcc.org"	"GRCh37"	"2"	144286251	144286251	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.925+9318A>T"	""	""	"ENST00000295095"	""	69	"39"	30	41	"41"	0	"ARHGAP15,intron_variant,,ENST00000295095,NM_018460.3;RP11-570L15.1,intron_variant,,ENST00000553076,;RP11-570L15.2,intron_variant,,ENST00000546678,;ARHGAP15,intron_variant,,ENST00000548242,;ARHGAP15,intron_variant,,ENST00000549436,;"	"T"	"ENSG00000075884"	"ENST00000295095"	"Transcript"	"intron_variant"	"-/1775"	"-/1428"	"-/475"	""	""	""	"1"	NA	1	"ARHGAP15"	"HGNC"	21030	"protein_coding"	"YES"	"CCDS2184.1"	"ENSP00000295095"	"Q53QZ3"	""	"UPI0000035D98"	"NM_018460.3"	""	""	""	"10/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"239d35a0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.434782608695652	"WGS"	FALSE
"13956"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	144671512	144671512	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"64"	35	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"239d4158-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.353535353535354	"WGS"	FALSE
"13957"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	145095275	145095275	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"52"	21	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"239d4d06-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287671232876712	"WGS"	FALSE
"13958"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	146205866	146205866	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"43"	33	59	"59"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"239d6b92-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.434210526315789	"WGS"	FALSE
"13959"	"ACVR2A"	92	"mskcc.org"	"GRCh37"	"2"	148649756	148649756	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.56-4114G>T"	""	""	"ENST00000241416"	""	88	"60"	28	53	"53"	0	"ACVR2A,intron_variant,,ENST00000241416,NM_001616.4,NM_001278579.1;ACVR2A,intron_variant,,ENST00000404590,;ACVR2A,intron_variant,,ENST00000535787,NM_001278580.1;ACVR2A,intron_variant,,ENST00000462659,;ACVR2A,intron_variant,,ENST00000487959,;ACVR2A,intron_variant,,ENST00000465329,;"	"T"	"ENSG00000121989"	"ENST00000241416"	"Transcript"	"intron_variant"	"-/5728"	"-/1542"	"-/513"	""	""	""	"1"	NA	1	"ACVR2A"	"HGNC"	173	"protein_coding"	"YES"	"CCDS33301.1"	"ENSP00000241416"	"P27037"	"B4DWQ2"	"UPI0000126673"	"NM_001616.4,NM_001278579.1"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"239db3a4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318181818181818	"WGS"	FALSE
"13960"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	151697209	151697209	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"60"	27	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"239e17b8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"13961"	"CACNB4"	785	"mskcc.org"	"GRCh37"	"2"	152941484	152941484	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.147+13360T>A"	""	""	"ENST00000539935"	""	76	"60"	16	43	"43"	0	"CACNB4,intron_variant,,ENST00000539935,NM_001145798.1,NM_000726.3;CACNB4,intron_variant,,ENST00000439467,;CACNB4,intron_variant,,ENST00000427385,NM_001005746.2;CACNB4,intron_variant,,ENST00000201943,;"	"T"	"ENSG00000182389"	"ENST00000539935"	"Transcript"	"intron_variant"	"-/7974"	"-/1563"	"-/520"	""	""	""	"1"	NA	-1	"CACNB4"	"HGNC"	1404	"protein_coding"	"YES"	"CCDS46426.1"	"ENSP00000438949"	"O00305"	"Q9NZA2,Q580I4,Q53S65"	"UPI0000208F1E"	"NM_001145798.1,NM_000726.3"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"239e5156-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"13962"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	157662647	157662647	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs759816957"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"63"	13	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs759816957"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"239ee7a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171052631578947	"WGS"	FALSE
"13963"	"CYTIP"	9595	"mskcc.org"	"GRCh37"	"2"	158318054	158318054	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-145+3394G>T"	""	""	"ENST00000540637"	""	85	"78"	7	56	"56"	0	"CYTIP,intron_variant,,ENST00000540637,;CYTIP,intron_variant,,ENST00000435117,;CYTIP,intron_variant,,ENST00000439355,;CYTIP,intron_variant,,ENST00000497432,;"	"A"	"ENSG00000115165"	"ENST00000540637"	"Transcript"	"intron_variant"	"-/1464"	"-/762"	"-/253"	""	""	""	"1"	NA	-1	"CYTIP"	"HGNC"	9506	"protein_coding"	""	""	"ENSP00000440801"	""	"C9JSM2,B4DWH9"	"UPI00017A805F"	""	""	""	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"239ef958-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0823529411764706	"WGS"	FALSE
"13964"	"BAZ2B"	29994	"mskcc.org"	"GRCh37"	"2"	160450842	160450842	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-46+21911G>A"	""	""	"ENST00000392783"	""	102	"65"	37	52	"52"	0	"BAZ2B,intron_variant,,ENST00000392783,NM_013450.2;BAZ2B,intron_variant,,ENST00000392782,;BAZ2B,intron_variant,,ENST00000355831,;BAZ2B,intron_variant,,ENST00000343439,;BAZ2B,intron_variant,,ENST00000437839,;BAZ2B,intron_variant,,ENST00000541068,;BAZ2B,intron_variant,,ENST00000483316,;BAZ2B,intron_variant,,ENST00000552327,;"	"T"	"ENSG00000123636"	"ENST00000392783"	"Transcript"	"intron_variant"	"-/8289"	"-/6507"	"-/2168"	""	""	""	"1"	NA	-1	"BAZ2B"	"HGNC"	963	"protein_coding"	"YES"	"CCDS2209.2"	"ENSP00000376534"	"Q9UIF8"	"Q8NC87,Q53TG3,C9JCA6"	"UPI0000D74C4A"	"NM_013450.2"	""	""	""	"1/36"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"239f466a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.362745098039216	"WGS"	FALSE
"13965"	"PLA2R1"	22925	"mskcc.org"	"GRCh37"	"2"	160804635	160804635	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3710-565G>T"	""	""	"ENST00000283243"	""	87	"79"	8	57	"57"	0	"PLA2R1,intron_variant,,ENST00000283243,NM_001195641.1,NM_007366.4;PLA2R1,intron_variant,,ENST00000392771,NM_001007267.2;PLA2R1,upstream_gene_variant,,ENST00000460710,;"	"A"	"ENSG00000153246"	"ENST00000283243"	"Transcript"	"intron_variant"	"-/8526"	"-/4392"	"-/1463"	""	""	""	"1"	NA	-1	"PLA2R1"	"HGNC"	9042	"protein_coding"	"YES"	"CCDS33309.1"	"ENSP00000283243"	"Q13018"	""	"UPI00001AEA9D"	"NM_001195641.1,NM_007366.4"	""	""	""	"25/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"239f58c6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"13966"	"AHCTF1P1"	285116	"mskcc.org"	"GRCh37"	"2"	162360697	162360697	"+"	"RNA"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.3520C>T"	""	""	"ENST00000420969"	"1/1"	76	"70"	6	41	"41"	0	"SLC4A10,intron_variant,,ENST00000605990,;SLC4A10,intron_variant,,ENST00000482861,;SLC4A10,intron_variant,,ENST00000606386,;AHCTF1P1,non_coding_transcript_exon_variant,,ENST00000420969,;AHCTF1P1,downstream_gene_variant,,ENST00000435109,;"	"A"	"ENSG00000226121"	"ENST00000420969"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"3520/6821"	""	""	""	""	""	"1"	NA	-1	"AHCTF1P1"	"HGNC"	24620	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"239f8ce2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"13967"	"AC092684.1"	0	"mskcc.org"	"GRCh37"	"2"	164680552	164680552	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs542058285"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.379+45107C>T"	""	""	"ENST00000429636"	""	82	"76"	6	51	"51"	0	"AC092684.1,intron_variant,,ENST00000429636,;"	"A"	"ENSG00000237844"	"ENST00000429636"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/714"	""	""	""	""	"rs542058285"	"1"	NA	-1	"AC092684.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"239fc0c2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"13968"	"AC092684.1"	0	"mskcc.org"	"GRCh37"	"2"	164869108	164869108	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.197-62339T>A"	""	""	"ENST00000429636"	""	89	"83"	6	70	"70"	0	"AC092684.1,intron_variant,,ENST00000429636,;"	"T"	"ENSG00000237844"	"ENST00000429636"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/714"	""	""	""	""	""	"1"	NA	-1	"AC092684.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"239fc590-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"13969"	"AC074363.1"	0	"mskcc.org"	"GRCh37"	"2"	168198023	168198023	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.164+48179T>A"	""	""	"ENST00000442316"	""	82	"72"	10	50	"50"	0	"AC074363.1,intron_variant,,ENST00000442316,;"	"A"	"ENSG00000228222"	"ENST00000442316"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/462"	""	""	""	""	""	"1"	NA	1	"AC074363.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"23a03bec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WGS"	FALSE
"13970"	"MYO3B"	140469	"mskcc.org"	"GRCh37"	"2"	171260377	171260377	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2278-380C>A"	""	""	"ENST00000408978"	""	80	"45"	35	52	"52"	0	"MYO3B,intron_variant,,ENST00000334231,;MYO3B,intron_variant,,ENST00000408978,NM_138995.4;MYO3B,intron_variant,,ENST00000409044,NM_001083615.3;MYO3B,intron_variant,,ENST00000484338,;MYO3B,intron_variant,,ENST00000602629,;MYO3B,intron_variant,,ENST00000438642,;MYO3B,upstream_gene_variant,,ENST00000469359,;MYO3B,intron_variant,,ENST00000317935,;MYO3B,intron_variant,,ENST00000409940,;"	"A"	"ENSG00000071909"	"ENST00000408978"	"Transcript"	"intron_variant"	"-/5529"	"-/4026"	"-/1341"	""	""	""	"1"	NA	1	"MYO3B"	"HGNC"	15576	"protein_coding"	"YES"	"CCDS42773.1"	"ENSP00000386213"	"Q8WXR4"	""	"UPI000020907B"	"NM_138995.4"	""	""	""	"19/34"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"23a0bcc0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4375	"WGS"	FALSE
"13971"	"HAT1"	8520	"mskcc.org"	"GRCh37"	"2"	172837050	172837050	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.824-4046T>G"	""	""	"ENST00000264108"	""	91	"84"	7	49	"49"	0	"HAT1,intron_variant,,ENST00000264108,NM_003642.3;HAT1,intron_variant,,ENST00000392584,;SLC25A12,intron_variant,,ENST00000472748,;SLC25A12,intron_variant,,ENST00000484227,;SLC25A12,intron_variant,,ENST00000464063,;HAT1,intron_variant,,ENST00000494601,;HAT1,intron_variant,,ENST00000477327,;HAT1,intron_variant,,ENST00000457761,;HAT1,intron_variant,,ENST00000412731,;"	"G"	"ENSG00000128708"	"ENST00000264108"	"Transcript"	"intron_variant"	"-/1626"	"-/1260"	"-/419"	""	""	""	"1"	NA	1	"HAT1"	"HGNC"	4821	"protein_coding"	"YES"	"CCDS2245.1"	"ENSP00000264108"	"O14929"	""	"UPI000012C0B2"	"NM_003642.3"	""	""	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"23a10f36-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"13972"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	174380440	174380440	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"68"	36	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"23a1450a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"13973"	"MTX2"	10651	"mskcc.org"	"GRCh37"	"2"	177184098	177184098	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.136-4022T>C"	""	""	"ENST00000249442"	""	99	"64"	35	49	"49"	0	"MTX2,intron_variant,,ENST00000392529,;MTX2,intron_variant,,ENST00000249442,NM_006554.4;MTX2,intron_variant,,ENST00000452865,;MTX2,intron_variant,,ENST00000443241,;MTX2,intron_variant,,ENST00000420864,;MTX2,intron_variant,,ENST00000423461,;"	"C"	"ENSG00000128654"	"ENST00000249442"	"Transcript"	"intron_variant"	"-/1364"	"-/792"	"-/263"	""	""	""	"1"	NA	1	"MTX2"	"HGNC"	7506	"protein_coding"	"YES"	"CCDS2272.1"	"ENSP00000249442"	"O75431"	"F8WE26"	"UPI000012F88B"	"NM_006554.4"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"23a1a464-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.353535353535354	"WGS"	FALSE
"13974"	"CCDC141"	285025	"mskcc.org"	"GRCh37"	"2"	179903378	179903378	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.225+8633T>A"	""	""	"ENST00000420890"	""	98	"91"	7	44	"44"	0	"CCDC141,intron_variant,,ENST00000420890,NM_173648.3;CCDC141,intron_variant,,ENST00000409284,;CCDC141,intron_variant,,ENST00000443758,;CCDC141,intron_variant,,ENST00000446116,;"	"T"	"ENSG00000163492"	"ENST00000420890"	"Transcript"	"intron_variant"	"-/9127"	"-/4593"	"-/1530"	""	""	""	"1"	NA	-1	"CCDC141"	"HGNC"	26821	"protein_coding"	"YES"	""	"ENSP00000395995"	""	"H7C0P1,E7ERF0"	"UPI0000EE2F1C"	"NM_173648.3"	""	""	""	"2/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"23a2068e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"13975"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	180177857	180177857	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"64"	27	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"23a20f80-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296703296703297	"WGS"	FALSE
"13976"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	180950890	180950890	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs563370680"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"60"	27	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs563370680"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"23a22e8e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"13977"	"ENSR00000603884"	0	"mskcc.org"	"GRCh37"	"2"	187747494	187747494	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000603884"	""	83	"53"	30	50	"49"	1	""	"T"	""	"ENSR00000603884"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"23a2f94a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36144578313253	"WGS"	FALSE
"13978"	"CALCRL"	10203	"mskcc.org"	"GRCh37"	"2"	188292668	188292668	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-293+3356T>C"	""	""	"ENST00000409998"	""	78	"47"	31	53	"53"	0	"CALCRL,intron_variant,,ENST00000409998,;CALCRL,intron_variant,,ENST00000392370,NM_005795.5;CALCRL,intron_variant,,ENST00000410068,NM_001271751.1;CALCRL,intron_variant,,ENST00000447403,;CALCRL,intron_variant,,ENST00000410102,;AC007319.1,intron_variant,,ENST00000412276,;AC007319.1,intron_variant,,ENST00000453517,;CALCRL,intron_variant,,ENST00000474212,;CALCRL,intron_variant,,ENST00000461244,;CALCRL,downstream_gene_variant,,ENST00000479784,;CALCRL,intron_variant,,ENST00000485973,;"	"G"	"ENSG00000064989"	"ENST00000409998"	"Transcript"	"intron_variant"	"-/5223"	"-/1386"	"-/461"	""	""	""	"1"	NA	-1	"CALCRL"	"HGNC"	16709	"protein_coding"	"YES"	"CCDS2293.1"	"ENSP00000386972"	"Q16602"	"E7EN01,B8ZZJ4"	"UPI000013D4CD"	""	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"23a30de0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.397435897435897	"WGS"	FALSE
"13979"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	190492296	190492296	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"83"	6	45	"45"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"23a34a30-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"13980"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	192607195	192607195	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"13"	3	11	"11"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"23a39530-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"13981"	"TMEFF2"	23671	"mskcc.org"	"GRCh37"	"2"	192838922	192838922	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"rs766489473"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.746-17818T>A"	""	""	"ENST00000272771"	""	96	"59"	37	53	"53"	0	"TMEFF2,intron_variant,,ENST00000392314,;TMEFF2,intron_variant,,ENST00000272771,NM_016192.2;AC098617.1,intron_variant,,ENST00000428980,;AC098617.1,intron_variant,,ENST00000424116,;"	"T"	"ENSG00000144339"	"ENST00000272771"	"Transcript"	"intron_variant"	"-/2604"	"-/1125"	"-/374"	""	""	"rs766489473"	"1"	NA	-1	"TMEFF2"	"HGNC"	11867	"protein_coding"	"YES"	"CCDS2314.1"	"ENSP00000272771"	"Q9UIK5"	""	"UPI0000048F19"	"NM_016192.2"	""	""	""	"7/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"23a39bde-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.385416666666667	"WGS"	FALSE
"13982"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	193269836	193269836	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"76"	21	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"23a3af84-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216494845360825	"WGS"	FALSE
"13983"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	194507713	194507713	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"63"	36	43	"43"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"23a3d5d6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"13984"	"AOX1"	316	"mskcc.org"	"GRCh37"	"2"	201515417	201515417	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2848-280C>T"	""	""	"ENST00000374700"	""	90	"63"	27	48	"48"	0	"AOX1,intron_variant,,ENST00000374700,NM_001159.3;AOX1,intron_variant,,ENST00000485106,;AOX1,intron_variant,,ENST00000465297,;"	"T"	"ENSG00000138356"	"ENST00000374700"	"Transcript"	"intron_variant"	"-/5070"	"-/4017"	"-/1338"	""	""	""	"1"	NA	1	"AOX1"	"HGNC"	553	"protein_coding"	"YES"	"CCDS33360.1"	"ENSP00000363832"	"Q06278"	"C9J244,B4DNI5"	"UPI0000071863"	"NM_001159.3"	""	""	""	"25/34"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"23a4cc66-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"13985"	"AC079354.1"	100652824	"mskcc.org"	"GRCh37"	"2"	203052585	203052585	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1126-290C>T"	""	""	"ENST00000498697"	""	87	"48"	39	47	"47"	0	"AC079354.1,intron_variant,,ENST00000498697,;AC079354.1,intron_variant,,ENST00000469462,;"	"T"	"ENSG00000182329"	"ENST00000498697"	"Transcript"	"intron_variant"	"-/1925"	"-/1925"	"-/641"	""	""	""	"1"	NA	1	"AC079354.1"	"Clone_based_vega_gene"	NA	"protein_coding"	""	""	"ENSP00000419834"	""	"H7C5G6"	"UPI0001B798AC"	""	""	""	""	"10/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"23a5224c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.448275862068966	"WGS"	FALSE
"13986"	"ICA1L"	130026	"mskcc.org"	"GRCh37"	"2"	203733810	203733810	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-8+1443A>G"	""	""	"ENST00000392237"	""	78	"72"	6	42	"42"	0	"ICA1L,intron_variant,,ENST00000392237,NM_138468.4,NM_001288623.1,NM_001288622.1;ICA1L,intron_variant,,ENST00000358299,;ICA1L,intron_variant,,ENST00000421334,;ICA1L,intron_variant,,ENST00000454326,;ICA1L,intron_variant,,ENST00000432273,;ICA1L,intron_variant,,ENST00000418208,;ICA1L,intron_variant,,ENST00000412210,;ICA1L,intron_variant,,ENST00000450143,;ICA1L,intron_variant,,ENST00000420558,;ICA1L,intron_variant,,ENST00000419460,;ICA1L,intron_variant,,ENST00000416760,;ICA1L,intron_variant,,ENST00000457524,;ICA1L,intron_variant,,ENST00000411681,;ICA1L,intron_variant,,ENST00000441547,;ICA1L,intron_variant,,ENST00000435143,;ICA1L,intron_variant,,ENST00000438804,;ICA1L,intron_variant,,ENST00000484561,;ICA1L,intron_variant,,ENST00000437978,;"	"C"	"ENSG00000163596"	"ENST00000392237"	"Transcript"	"intron_variant"	"-/5173"	"-/1449"	"-/482"	""	""	""	"1"	NA	-1	"ICA1L"	"HGNC"	14442	"protein_coding"	"YES"	"CCDS2354.1"	"ENSP00000376070"	"Q8NDH6"	"C9JRB6,C9JP49,C9JEP0,C9JEN4,C9JDM8,C9JDK6,C9JAQ4,C9J9Z8,C9J5Z0,C9J1M7"	"UPI000007263F"	"NM_138468.4,NM_001288623.1,NM_001288622.1"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"23a57846-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"13987"	"NBEAL1"	65065	"mskcc.org"	"GRCh37"	"2"	203998287	203998287	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3726+418C>A"	""	""	"ENST00000449802"	""	91	"59"	32	43	"43"	0	"NBEAL1,intron_variant,,ENST00000449802,NM_001114132.1;"	"A"	"ENSG00000144426"	"ENST00000449802"	"Transcript"	"intron_variant"	"-/10938"	"-/8085"	"-/2694"	""	""	""	"1"	NA	1	"NBEAL1"	"HGNC"	20681	"protein_coding"	"YES"	"CCDS46495.1"	"ENSP00000399903"	"Q6ZS30"	""	"UPI000194EC27"	"NM_001114132.1"	""	""	""	"26/54"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"23a58ade-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351648351648352	"WGS"	FALSE
"13988"	"NBEAL1"	65065	"mskcc.org"	"GRCh37"	"2"	203998288	203998288	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3726+419T>G"	""	""	"ENST00000449802"	""	91	"59"	32	42	"42"	0	"NBEAL1,intron_variant,,ENST00000449802,NM_001114132.1;"	"G"	"ENSG00000144426"	"ENST00000449802"	"Transcript"	"intron_variant"	"-/10938"	"-/8085"	"-/2694"	""	""	""	"1"	NA	1	"NBEAL1"	"HGNC"	20681	"protein_coding"	"YES"	"CCDS46495.1"	"ENSP00000399903"	"Q6ZS30"	""	"UPI000194EC27"	"NM_001114132.1"	""	""	""	"26/54"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"23a58b92-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351648351648352	"WGS"	FALSE
"13989"	"CYP20A1"	57404	"mskcc.org"	"GRCh37"	"2"	204159439	204159439	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1149-1758C>G"	""	""	"ENST00000356079"	""	71	"65"	6	37	"37"	0	"CYP20A1,intron_variant,,ENST00000356079,NM_177538.2;CYP20A1,intron_variant,,ENST00000429815,;CYP20A1,intron_variant,,ENST00000461371,;CYP20A1,intron_variant,,ENST00000431118,;CYP20A1,intron_variant,,ENST00000449301,;"	"G"	"ENSG00000119004"	"ENST00000356079"	"Transcript"	"intron_variant"	"-/1949"	"-/1389"	"-/462"	""	""	""	"1"	NA	1	"CYP20A1"	"HGNC"	20576	"protein_coding"	"YES"	"CCDS2357.1"	"ENSP00000348380"	"Q6UW02"	"Q8WZ13,Q53RS5"	"UPI0000048EFF"	"NM_177538.2"	""	""	""	"11/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"23a59c0e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"13990"	"PARD3B"	117583	"mskcc.org"	"GRCh37"	"2"	205503689	205503689	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.121-47215A>C"	""	""	"ENST00000358768"	""	76	"53"	23	44	"44"	0	"PARD3B,intron_variant,,ENST00000406610,NM_205863.3,NM_057177.6,NM_152526.5;PARD3B,intron_variant,,ENST00000358768,;PARD3B,intron_variant,,ENST00000351153,;PARD3B,intron_variant,,ENST00000349953,;PARD3B,intron_variant,,ENST00000462231,;PARD3B,intron_variant,,ENST00000415947,;"	"C"	"ENSG00000116117"	"ENST00000358768"	"Transcript"	"intron_variant"	"-/3432"	"-/3432"	"-/1143"	""	""	""	"1"	NA	1	"PARD3B"	"HGNC"	14446	"protein_coding"	"YES"	"CCDS42806.1"	"ENSP00000351618"	"Q8TEW8"	"Q587I4,Q53TQ6,Q53TP8,Q53TL6,Q53TI4,Q53T65,Q53SN0,Q4ZG80"	"UPI000007201E"	""	""	""	""	"1/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"23a5d7be-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302631578947368	"WGS"	FALSE
"13991"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	208565256	208565256	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"83"	8	34	"34"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"23a66666-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0879120879120879	"WGS"	FALSE
"13992"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	208660144	208660144	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"77"	7	30	"30"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"23a66dfa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"13993"	"AC012668.2"	0	"mskcc.org"	"GRCh37"	"2"	216435452	216435452	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.216+24316C>T"	""	""	"ENST00000417485"	""	81	"56"	25	47	"47"	0	"AC012668.2,intron_variant,,ENST00000417485,;AC012668.2,intron_variant,,ENST00000422353,;"	"T"	"ENSG00000237525"	"ENST00000417485"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1642"	""	""	""	""	""	"1"	NA	1	"AC012668.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"23a7828a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308641975308642	"WGS"	FALSE
"13994"	"AC122136.2"	0	"mskcc.org"	"GRCh37"	"2"	216738120	216738120	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000443971"	""	84	"59"	25	52	"52"	0	"AC122136.2,downstream_gene_variant,,ENST00000443971,;"	"T"	"ENSG00000227824"	"ENST00000443971"	"Transcript"	"downstream_gene_variant"	"-/478"	""	""	""	""	""	"1"	"2879"	1	"AC122136.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"23a78f1e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297619047619048	"WGS"	FALSE
"13995"	"PECR"	55825	"mskcc.org"	"GRCh37"	"2"	216907548	216907548	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.826+1079A>G"	""	""	"ENST00000265322"	""	86	"77"	9	46	"46"	0	"PECR,intron_variant,,ENST00000265322,NM_018441.5;PECR,downstream_gene_variant,,ENST00000464737,;PECR,intron_variant,,ENST00000442122,;PECR,intron_variant,,ENST00000461330,;"	"C"	"ENSG00000115425"	"ENST00000265322"	"Transcript"	"intron_variant"	"-/1853"	"-/912"	"-/303"	""	""	""	"1"	NA	-1	"PECR"	"HGNC"	18281	"protein_coding"	"YES"	"CCDS33375.1"	"ENSP00000265322"	"Q9BY49"	""	"UPI000004C794"	"NM_018441.5"	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"23a79dd8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104651162790698	"WGS"	FALSE
"13996"	"TMEM169"	92691	"mskcc.org"	"GRCh37"	"2"	216950337	216950337	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-127+3382T>G"	""	""	"ENST00000454545"	""	73	"67"	6	45	"45"	0	"TMEM169,intron_variant,,ENST00000454545,NM_001142310.1;TMEM169,intron_variant,,ENST00000295658,NM_001142311.1,NM_001142312.1,NM_138390.3;TMEM169,intron_variant,,ENST00000406027,;TMEM169,intron_variant,,ENST00000437356,;TMEM169,intron_variant,,ENST00000433112,;TMEM169,intron_variant,,ENST00000455479,;PECR,upstream_gene_variant,,ENST00000265322,NM_018441.5;PECR,upstream_gene_variant,,ENST00000497889,;PECR,upstream_gene_variant,,ENST00000487318,;PECR,upstream_gene_variant,,ENST00000464722,;PECR,upstream_gene_variant,,ENST00000442122,;PECR,upstream_gene_variant,,ENST00000474093,;"	"G"	"ENSG00000163449"	"ENST00000454545"	"Transcript"	"intron_variant"	"-/3460"	"-/894"	"-/297"	""	""	""	"1"	NA	1	"TMEM169"	"HGNC"	25130	"protein_coding"	"YES"	"CCDS2401.1"	"ENSP00000412524"	"Q96HH4"	"C9JZB1,C9J1P0"	"UPI0000070E77"	"NM_001142310.1"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"23a7a35a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"13997"	"IGFBP2"	3485	"mskcc.org"	"GRCh37"	"2"	217518082	217518082	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs562715359"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.443-7198G>A"	""	""	"ENST00000233809"	""	93	"77"	16	43	"43"	0	"IGFBP2,intron_variant,,ENST00000233809,NM_000597.2;IGFBP2,intron_variant,,ENST00000434997,;IGFBP2,intron_variant,,ENST00000490362,;"	"A"	"ENSG00000115457"	"ENST00000233809"	"Transcript"	"intron_variant"	"-/1439"	"-/978"	"-/325"	""	""	"rs562715359"	"1"	NA	1	"IGFBP2"	"HGNC"	5471	"protein_coding"	"YES"	"CCDS42815.1"	"ENSP00000233809"	"P18065"	"C9JW52"	"UPI000013C98D"	"NM_000597.2"	""	""	""	"1/3"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"23a7bffc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172043010752688	"WGS"	FALSE
"13998"	"AC007563.5"	0	"mskcc.org"	"GRCh37"	"2"	217566334	217566334	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.298+6850C>T"	""	""	"ENST00000447289"	""	82	"55"	27	44	"44"	0	"AC007563.5,intron_variant,,ENST00000447289,;"	"T"	"ENSG00000236886"	"ENST00000447289"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/552"	""	""	""	""	""	"1"	NA	1	"AC007563.5"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"23a7c2ae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329268292682927	"WGS"	FALSE
"13999"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	218134720	218134720	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"53"	35	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"23a7dc12-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.397727272727273	"WGS"	FALSE
"14000"	"DIRC3"	729582	"mskcc.org"	"GRCh37"	"2"	218605973	218605973	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.113-1675G>T"	""	""	"ENST00000423123"	""	78	"56"	22	45	"45"	0	"DIRC3,intron_variant,,ENST00000423123,;DIRC3,intron_variant,,ENST00000486365,;"	"A"	"ENSG00000231672"	"ENST00000423123"	"Transcript"	"intron_variant"	"-/552"	"-/396"	"-/131"	""	""	""	"1"	NA	-1	"DIRC3"	"HGNC"	17805	"protein_coding"	"YES"	""	"ENSP00000389455"	""	"C9JPN6"	"UPI0001662136"	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"23a7ecca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282051282051282	"WGS"	FALSE
"14001"	"RUFY4"	285180	"mskcc.org"	"GRCh37"	"2"	218959466	218959466	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000374155"	""	74	"61"	13	51	"51"	0	"RUFY4,downstream_gene_variant,,ENST00000374155,;RUFY4,downstream_gene_variant,,ENST00000344321,NM_198483.3;RUFY4,downstream_gene_variant,,ENST00000441828,;RUFY4,downstream_gene_variant,,ENST00000457754,;"	"A"	"ENSG00000188282"	"ENST00000374155"	"Transcript"	"downstream_gene_variant"	"-/2977"	"-/1824"	"-/607"	""	""	""	"1"	"4163"	1	"RUFY4"	"HGNC"	24804	"protein_coding"	"YES"	""	"ENSP00000363270"	""	"C9J235"	"UPI000035E73D"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"23a8078c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175675675675676	"WGS"	FALSE
"14002"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	223668573	223668573	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"47"	40	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"23a918c0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.459770114942529	"WGS"	FALSE
"14003"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	225620513	225620513	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs144111361"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	61	"51"	10	37	"37"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs144111361"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0010"	"A:0.0023"	"A:0.0029"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"23a96cd0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163934426229508	"WGS"	FALSE
"14004"	"AGFG1"	3267	"mskcc.org"	"GRCh37"	"2"	228391499	228391499	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.694+1868T>A"	""	""	"ENST00000409979"	""	73	"66"	7	40	"40"	0	"AGFG1,intron_variant,,ENST00000310078,NM_004504.4,NM_001135188.1,NM_001135189.1;AGFG1,intron_variant,,ENST00000409315,;AGFG1,intron_variant,,ENST00000409979,NM_001135187.1;AGFG1,intron_variant,,ENST00000409171,;AGFG1,intron_variant,,ENST00000373671,;AGFG1,intron_variant,,ENST00000456594,;AGFG1,downstream_gene_variant,,ENST00000486932,;"	"A"	"ENSG00000173744"	"ENST00000409979"	"Transcript"	"intron_variant"	"-/2089"	"-/1755"	"-/584"	""	""	""	"1"	NA	1	"AGFG1"	"HGNC"	5175	"protein_coding"	"YES"	"CCDS46533.1"	"ENSP00000387282"	""	""	"UPI0001814801"	"NM_001135187.1"	""	""	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"23a9df76-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"14005"	"PID1"	55022	"mskcc.org"	"GRCh37"	"2"	230119218	230119218	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.123+8181T>C"	""	""	"ENST00000392054"	""	78	"55"	23	52	"52"	0	"PID1,intron_variant,,ENST00000392054,NM_017933.4;PID1,intron_variant,,ENST00000392055,NM_001100818.1;PID1,intron_variant,,ENST00000409462,;PID1,intron_variant,,ENST00000534952,;"	"G"	"ENSG00000153823"	"ENST00000392054"	"Transcript"	"intron_variant"	"-/2745"	"-/747"	"-/248"	""	""	""	"1"	NA	-1	"PID1"	"HGNC"	26084	"protein_coding"	"YES"	"CCDS2471.1"	"ENSP00000375907"	"Q7Z2X4"	"Q4ZG81"	"UPI00001C0AF7"	"NM_017933.4"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"23aa37aa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294871794871795	"WGS"	FALSE
"14006"	"SP100"	6672	"mskcc.org"	"GRCh37"	"2"	231311764	231311764	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.523+147C>T"	""	""	"ENST00000340126"	""	96	"61"	35	50	"50"	0	"SP100,intron_variant,,ENST00000264052,NM_003113.3;SP100,intron_variant,,ENST00000340126,NM_001080391.1;SP100,intron_variant,,ENST00000409112,NM_001206701.1;SP100,intron_variant,,ENST00000409897,NM_001206704.1;SP100,intron_variant,,ENST00000409341,NM_001206702.1;SP100,intron_variant,,ENST00000427101,NM_001206703.1;SP100,intron_variant,,ENST00000409824,;SP100,intron_variant,,ENST00000341950,;SP100,intron_variant,,ENST00000432979,;SP100,upstream_gene_variant,,ENST00000466710,;SP100,upstream_gene_variant,,ENST00000470940,;"	"T"	"ENSG00000067066"	"ENST00000340126"	"Transcript"	"intron_variant"	"-/2926"	"-/2658"	"-/885"	""	""	""	"1"	NA	1	"SP100"	"HGNC"	11206	"protein_coding"	"YES"	"CCDS42832.1"	"ENSP00000343023"	"P23497"	"Q4ZG64"	"UPI000013DD6A"	"NM_001080391.1"	""	""	""	"5/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"23aa7d6e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364583333333333	"WGS"	FALSE
"14007"	"CAB39"	51719	"mskcc.org"	"GRCh37"	"2"	231575483	231575483	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000258418"	""	98	"90"	8	33	"33"	0	"CAB39,upstream_gene_variant,,ENST00000258418,NM_016289.3;CAB39,upstream_gene_variant,,ENST00000409788,NM_001130849.1;CAB39,upstream_gene_variant,,ENST00000410084,NM_001130850.1;"	"A"	"ENSG00000135932"	"ENST00000258418"	"Transcript"	"upstream_gene_variant"	"-/3826"	"-/1026"	"-/341"	""	""	""	"1"	"2077"	1	"CAB39"	"HGNC"	20292	"protein_coding"	"YES"	"CCDS2478.1"	"ENSP00000258418"	"Q9Y376"	"Q53RN7,A8K8L7"	"UPI000003622D"	"NM_016289.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"23aa89bc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WGS"	FALSE
"14008"	"ARMC9"	80210	"mskcc.org"	"GRCh37"	"2"	232128995	232128995	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1119+1884A>G"	""	""	"ENST00000349938"	""	93	"80"	13	55	"55"	0	"ARMC9,intron_variant,,ENST00000349938,NM_025139.4,NM_001271466.1;ARMC9,intron_variant,,ENST00000436339,;ARMC9,intron_variant,,ENST00000424740,;ARMC9,intron_variant,,ENST00000483477,;ARMC9,intron_variant,,ENST00000467698,;"	"G"	"ENSG00000135931"	"ENST00000349938"	"Transcript"	"intron_variant"	"-/2300"	"-/1998"	"-/665"	""	""	""	"1"	NA	1	"ARMC9"	"HGNC"	20730	"protein_coding"	"YES"	"CCDS2484.1"	"ENSP00000258417"	"Q7Z3E5"	"C9JW07"	"UPI00001AE7AC"	"NM_025139.4,NM_001271466.1"	""	""	""	"12/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"23aabae0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.139784946236559	"WGS"	FALSE
"14009"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	232696095	232696095	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	17	"12"	5	15	"15"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"23ab1724-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"14010"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	232697551	232697551	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	46	"41"	5	32	"32"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"23ab192c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108695652173913	"WGS"	FALSE
"14011"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	232702711	232702711	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	58	"52"	6	26	"26"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"23ab243a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"14012"	"EIF4E2"	9470	"mskcc.org"	"GRCh37"	"2"	233417096	233417096	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.20+1642T>A"	""	""	"ENST00000258416"	""	78	"56"	22	38	"38"	0	"EIF4E2,intron_variant,,ENST00000409514,NM_001282958.1;EIF4E2,intron_variant,,ENST00000409098,NM_001276337.1,NM_001276336.1;EIF4E2,intron_variant,,ENST00000258416,NM_004846.2;EIF4E2,intron_variant,,ENST00000409167,;EIF4E2,intron_variant,,ENST00000454501,;EIF4E2,intron_variant,,ENST00000409495,;EIF4E2,intron_variant,,ENST00000409322,;EIF4E2,intron_variant,,ENST00000409394,;TIGD1,upstream_gene_variant,,ENST00000408957,NM_145702.1;MIR5001,upstream_gene_variant,,ENST00000580185,;EIF4E2,intron_variant,,ENST00000479834,;EIF4E2,intron_variant,,ENST00000498242,;EIF4E2,intron_variant,,ENST00000463074,;"	"A"	"ENSG00000135930"	"ENST00000258416"	"Transcript"	"intron_variant"	"-/1604"	"-/738"	"-/245"	""	""	""	"1"	NA	1	"EIF4E2"	"HGNC"	3293	"protein_coding"	"YES"	"CCDS2496.1"	"ENSP00000258416"	"O60573"	"Q53RG0"	"UPI0000073BFD"	"NM_004846.2"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"23ab6e0e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282051282051282	"WGS"	FALSE
"14013"	"EFHD1"	80303	"mskcc.org"	"GRCh37"	"2"	233515494	233515494	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.303-12018A>G"	""	""	"ENST00000264059"	""	55	"49"	6	37	"37"	0	"EFHD1,intron_variant,,ENST00000264059,NM_025202.3;EFHD1,intron_variant,,ENST00000409708,;EFHD1,intron_variant,,ENST00000409613,NM_001243252.1;RN7SL359P,downstream_gene_variant,,ENST00000473502,;EFHD1,intron_variant,,ENST00000442845,;"	"G"	"ENSG00000115468"	"ENST00000264059"	"Transcript"	"intron_variant"	"-/2259"	"-/720"	"-/239"	""	""	""	"1"	NA	1	"EFHD1"	"HGNC"	29556	"protein_coding"	"YES"	"CCDS2497.1"	"ENSP00000264059"	"Q9BUP0"	"Q8WYH2,Q53SA2,Q53S38,C9JTV4,B4DEE0"	"UPI00001362A7"	"NM_025202.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"23ab79ee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109090909090909	"WGS"	FALSE
"14014"	"COL6A3"	1293	"mskcc.org"	"GRCh37"	"2"	238297076	238297076	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.710-249G>A"	""	""	"ENST00000295550"	""	75	"52"	23	37	"37"	0	"COL6A3,intron_variant,,ENST00000295550,NM_004369.3;COL6A3,intron_variant,,ENST00000347401,;COL6A3,intron_variant,,ENST00000353578,NM_057167.3;COL6A3,intron_variant,,ENST00000346358,;COL6A3,intron_variant,,ENST00000409809,;COL6A3,intron_variant,,ENST00000472056,NM_057166.4;COL6A3,intron_variant,,ENST00000392004,NM_057165.4;COL6A3,intron_variant,,ENST00000392003,NM_057164.4;COL6A3,intron_variant,,ENST00000433762,;COL6A3,upstream_gene_variant,,ENST00000491233,;"	"T"	"ENSG00000163359"	"ENST00000295550"	"Transcript"	"intron_variant"	"-/10749"	"-/9534"	"-/3177"	""	""	""	"1"	NA	-1	"COL6A3"	"HGNC"	2213	"protein_coding"	"YES"	"CCDS33412.1"	"ENSP00000295550"	"P12111"	"Q8N4Z1,D9ZGF2"	"UPI0000456F39"	"NM_004369.3"	""	""	""	"3/43"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"23acb57a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306666666666667	"WGS"	FALSE
"14015"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	239680821	239680821	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"59"	26	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"23ad2186-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305882352941176	"WGS"	FALSE
"14016"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	241271508	241271508	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"61"	20	63	"63"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"23adf016-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246913580246914	"WGS"	FALSE
"14017"	"SNED1"	25992	"mskcc.org"	"GRCh37"	"2"	242018446	242018446	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3917-2646T>A"	""	""	"ENST00000310397"	""	70	"62"	8	39	"39"	0	"SNED1,intron_variant,,ENST00000310397,NM_001080437.1;SNED1,intron_variant,,ENST00000405547,;SNED1,intron_variant,,ENST00000342631,;MTERFD2,intron_variant,,ENST00000464344,;MTERFD2,intron_variant,,ENST00000496878,;SNED1,intron_variant,,ENST00000466618,;SNED1,downstream_gene_variant,,ENST00000491761,;"	"A"	"ENSG00000162804"	"ENST00000310397"	"Transcript"	"intron_variant"	"-/8174"	"-/4242"	"-/1413"	""	""	""	"1"	NA	1	"SNED1"	"HGNC"	24696	"protein_coding"	"YES"	"CCDS46562.1"	"ENSP00000308893"	"Q8TER0"	""	"UPI0000DD7AB0"	"NM_001080437.1"	""	""	""	"27/31"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"23ae4f84-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"14018"	"FARP2"	9855	"mskcc.org"	"GRCh37"	"2"	242375616	242375616	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1101-280G>C"	""	""	"ENST00000264042"	""	73	"66"	7	63	"63"	0	"FARP2,intron_variant,,ENST00000413432,;FARP2,intron_variant,,ENST00000264042,NM_014808.2;FARP2,intron_variant,,ENST00000373287,NM_001282983.1;FARP2,intron_variant,,ENST00000545004,NM_001282984.1;FARP2,downstream_gene_variant,,ENST00000471447,;FARP2,downstream_gene_variant,,ENST00000485051,;"	"C"	"ENSG00000006607"	"ENST00000264042"	"Transcript"	"intron_variant"	"-/4051"	"-/3165"	"-/1054"	""	""	""	"1"	NA	1	"FARP2"	"HGNC"	16460	"protein_coding"	"YES"	"CCDS33424.1"	"ENSP00000264042"	"O94887"	"C9JWM9,C9JVQ5"	"UPI0000073D5B"	"NM_014808.2"	""	""	""	"11/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"23ae6a32-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"14019"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	613000	613000	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"71"	7	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"23af6482-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"14020"	"SIRPG"	55423	"mskcc.org"	"GRCh37"	"20"	1629247	1629247	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.430+451A>G"	""	""	"ENST00000303415"	""	97	"59"	38	54	"54"	0	"SIRPG,intron_variant,,ENST00000381580,;SIRPG,intron_variant,,ENST00000303415,NM_018556.3;SIRPG,intron_variant,,ENST00000381583,NM_001039508.1;SIRPG,intron_variant,,ENST00000344103,NM_080816.2;SIRPG,intron_variant,,ENST00000216927,;RP11-77C3.3,downstream_gene_variant,,ENST00000456177,;"	"C"	"ENSG00000089012"	"ENST00000303415"	"Transcript"	"intron_variant"	"-/1716"	"-/1164"	"-/387"	""	""	""	"1"	NA	-1	"SIRPG"	"HGNC"	15757	"protein_coding"	"YES"	"CCDS13020.2"	"ENSP00000305529"	"Q9P1W8"	""	"UPI00001AE5FD"	"NM_018556.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"23af9a6a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.391752577319588	"WGS"	FALSE
"14021"	"RN7SL561P"	0	"mskcc.org"	"GRCh37"	"20"	1651803	1651803	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000488553"	""	85	"55"	30	47	"47"	0	"RN7SL561P,downstream_gene_variant,,ENST00000488553,;SIRPB3P,non_coding_transcript_exon_variant,,ENST00000340424,;"	"T"	"ENSG00000242348"	"ENST00000488553"	"Transcript"	"downstream_gene_variant"	"-/279"	""	""	""	""	""	"1"	"4519"	1	"RN7SL561P"	"HGNC"	46577	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"23af9bc8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WGS"	FALSE
"14022"	"CPXM1"	56265	"mskcc.org"	"GRCh37"	"20"	2770892	2770892	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000380605"	""	72	"65"	7	48	"48"	0	"CPXM1,downstream_gene_variant,,ENST00000380605,NM_001184699.1,NM_019609.4;"	"A"	"ENSG00000088882"	"ENST00000380605"	"Transcript"	"downstream_gene_variant"	"-/2391"	"-/2205"	"-/734"	""	""	""	"1"	"3823"	-1	"CPXM1"	"HGNC"	15771	"protein_coding"	"YES"	"CCDS13033.1"	"ENSP00000369979"	"Q96SM3"	"Q8N2F1,B4DZY4"	"UPI0000039DD0"	"NM_001184699.1,NM_019609.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"23afe696-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"14023"	"PCED1A"	64773	"mskcc.org"	"GRCh37"	"20"	2811122	2811122	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000360652"	""	76	"70"	6	52	"52"	0	"PCED1A,downstream_gene_variant,,ENST00000360652,NM_022760.4;PCED1A,downstream_gene_variant,,ENST00000356872,NM_001271168.1;PCED1A,downstream_gene_variant,,ENST00000474714,;PCED1A,downstream_gene_variant,,ENST00000487501,;"	"A"	"ENSG00000132635"	"ENST00000360652"	"Transcript"	"downstream_gene_variant"	"-/2016"	"-/1365"	"-/454"	""	""	""	"1"	"4838"	-1	"PCED1A"	"HGNC"	16212	"protein_coding"	"YES"	"CCDS13035.1"	"ENSP00000353868"	"Q9H1Q7"	""	"UPI00001285EE"	"NM_022760.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"23afe8a8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"14024"	"ENSR00001718861"	0	"mskcc.org"	"GRCh37"	"20"	4019108	4019108	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001718861"	""	107	"63"	44	46	"46"	0	""	"C"	""	"ENSR00001718861"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"23b0676a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411214953271028	"WGS"	FALSE
"14025"	"RASSF2"	9770	"mskcc.org"	"GRCh37"	"20"	4804427	4804427	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000379400"	""	75	"54"	21	37	"37"	0	"RASSF2,upstream_gene_variant,,ENST00000379400,NM_014737.2;"	"A"	"ENSG00000101265"	"ENST00000379400"	"Transcript"	"upstream_gene_variant"	"-/5427"	"-/981"	"-/326"	""	""	""	"1"	"136"	-1	"RASSF2"	"HGNC"	9883	"protein_coding"	"YES"	"CCDS13083.1"	"ENSP00000368710"	"P50749"	""	"UPI0000001C0A"	"NM_014737.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"23b090e6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"14026"	"TMEM230"	29058	"mskcc.org"	"GRCh37"	"20"	5078875	5078875	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000342308"	""	70	"65"	5	36	"36"	0	"TMEM230,downstream_gene_variant,,ENST00000379286,NM_001009924.1;TMEM230,downstream_gene_variant,,ENST00000379283,;TMEM230,downstream_gene_variant,,ENST00000379299,NM_014145.4;TMEM230,downstream_gene_variant,,ENST00000379279,;TMEM230,downstream_gene_variant,,ENST00000342308,NM_001009923.1;TMEM230,downstream_gene_variant,,ENST00000379277,;TMEM230,downstream_gene_variant,,ENST00000202834,NM_001009925.1;RNA5SP474,downstream_gene_variant,,ENST00000391234,;TMEM230,downstream_gene_variant,,ENST00000492419,;"	"C"	"ENSG00000089063"	"ENST00000342308"	"Transcript"	"downstream_gene_variant"	"-/1562"	"-/552"	"-/183"	""	""	""	"1"	"1611"	-1	"TMEM230"	"HGNC"	15876	"protein_coding"	"YES"	"CCDS33438.1"	"ENSP00000341364"	"Q96A57"	"Q5JWB9"	"UPI0000470ABB"	"NM_001009923.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"23b0aca2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"14027"	"C20orf196"	149840	"mskcc.org"	"GRCh37"	"20"	5739975	5739975	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-5+8850A>T"	""	""	"ENST00000303142"	""	91	"82"	9	44	"44"	0	"C20orf196,intron_variant,,ENST00000303142,NM_152504.2;C20orf196,intron_variant,,ENST00000442185,;C20orf196,intron_variant,,ENST00000378979,;C20orf196,intron_variant,,ENST00000445603,;"	"T"	"ENSG00000171984"	"ENST00000303142"	"Transcript"	"intron_variant"	"-/1154"	"-/618"	"-/205"	""	""	""	"1"	NA	1	"C20orf196"	"HGNC"	26318	"protein_coding"	"YES"	"CCDS13091.1"	"ENSP00000305875"	"Q8IYI0"	""	"UPI0000074251"	"NM_152504.2"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"23b0cf8e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0989010989010989	"WGS"	FALSE
"14028"	"RP11-19D2.2"	101929288	"mskcc.org"	"GRCh37"	"20"	7278463	7278463	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000569178"	""	103	"79"	24	54	"54"	0	"RP11-19D2.2,downstream_gene_variant,,ENST00000569178,;"	"T"	"ENSG00000261249"	"ENST00000569178"	"Transcript"	"downstream_gene_variant"	"-/1770"	""	""	""	""	""	"1"	"4240"	-1	"RP11-19D2.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"23b12bd2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233009708737864	"WGS"	FALSE
"14029"	"ESF1"	51575	"mskcc.org"	"GRCh37"	"20"	13729004	13729004	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1828+11335G>C"	""	""	"ENST00000202816"	""	73	"50"	23	37	"37"	0	"ESF1,intron_variant,,ENST00000202816,NM_001276380.1,NM_016649.3;"	"G"	"ENSG00000089048"	"ENST00000202816"	"Transcript"	"intron_variant"	"-/3216"	"-/2556"	"-/851"	""	""	""	"1"	NA	-1	"ESF1"	"HGNC"	15898	"protein_coding"	"YES"	"CCDS13117.1"	"ENSP00000202816"	"Q9H501"	""	"UPI00001285C8"	"NM_001276380.1,NM_016649.3"	""	""	""	"9/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"23b200de-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315068493150685	"WGS"	FALSE
"14030"	"RP5-905G11.3"	0	"mskcc.org"	"GRCh37"	"20"	17870829	17870829	"+"	"5'Flank"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000425405"	""	86	"60"	26	59	"59"	0	"RP5-905G11.3,upstream_gene_variant,,ENST00000425405,;"	"G"	"ENSG00000233625"	"ENST00000425405"	"Transcript"	"upstream_gene_variant"	"-/632"	""	""	""	""	""	"1"	"2025"	-1	"RP5-905G11.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"23b29d5a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302325581395349	"WGS"	FALSE
"14031"	"C20orf26"	26074	"mskcc.org"	"GRCh37"	"20"	20102170	20102170	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.860-21331G>C"	""	""	"ENST00000245957"	""	75	"69"	6	46	"46"	0	"C20orf26,intron_variant,,ENST00000245957,NM_015585.3;C20orf26,intron_variant,,ENST00000377309,;C20orf26,intron_variant,,ENST00000389656,;C20orf26,intron_variant,,ENST00000377306,;C20orf26,intron_variant,,ENST00000451767,NM_001167816.1;C20orf26,intron_variant,,ENST00000340348,;C20orf26,intron_variant,,ENST00000442372,;"	"C"	"ENSG00000089101"	"ENST00000245957"	"Transcript"	"intron_variant"	"-/4082"	"-/3714"	"-/1237"	""	""	""	"1"	NA	1	"C20orf26"	"HGNC"	15872	"protein_coding"	"YES"	"CCDS33447.1"	"ENSP00000245957"	"Q8NHU2"	"C9JMV0,C9JHE8,C9J610"	"UPI0000206AE4"	"NM_015585.3"	""	""	""	"8/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"23b31352-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"14032"	"XRN2"	22803	"mskcc.org"	"GRCh37"	"20"	21339914	21339914	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2255+1484A>G"	""	""	"ENST00000377191"	""	86	"62"	24	49	"49"	0	"XRN2,intron_variant,,ENST00000377191,NM_012255.3;XRN2,intron_variant,,ENST00000539513,;XRN2,intron_variant,,ENST00000430571,;"	"G"	"ENSG00000088930"	"ENST00000377191"	"Transcript"	"intron_variant"	"-/3435"	"-/2853"	"-/950"	""	""	""	"1"	NA	1	"XRN2"	"HGNC"	12836	"protein_coding"	"YES"	"CCDS13144.1"	"ENSP00000366396"	"Q9H0D6"	"B4DZC3"	"UPI0000037D02"	"NM_012255.3"	""	""	""	"24/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"23b352cc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27906976744186	"WGS"	FALSE
"14033"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	24397920	24397920	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"59"	25	38	"38"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"23b3cc5c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297619047619048	"WGS"	FALSE
"14034"	"SYNDIG1"	79953	"mskcc.org"	"GRCh37"	"20"	24562467	24562467	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.481-3025C>T"	""	""	"ENST00000376862"	""	57	"38"	19	36	"36"	0	"SYNDIG1,intron_variant,,ENST00000376862,NM_024893.2;SYNDIG1,upstream_gene_variant,,ENST00000482637,;"	"T"	"ENSG00000101463"	"ENST00000376862"	"Transcript"	"intron_variant"	"-/2522"	"-/777"	"-/258"	""	""	""	"1"	NA	1	"SYNDIG1"	"HGNC"	15885	"protein_coding"	"YES"	"CCDS13164.1"	"ENSP00000366058"	"Q9H7V2"	""	"UPI00001285DC"	"NM_024893.2"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"23b3df76-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14035"	"SYNDIG1"	79953	"mskcc.org"	"GRCh37"	"20"	24628613	24628613	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs752702560"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.619-17369C>T"	""	""	"ENST00000376862"	""	99	"84"	15	46	"46"	0	"SYNDIG1,intron_variant,,ENST00000376862,NM_024893.2;"	"T"	"ENSG00000101463"	"ENST00000376862"	"Transcript"	"intron_variant"	"-/2522"	"-/777"	"-/258"	""	""	"rs752702560"	"1"	NA	1	"SYNDIG1"	"HGNC"	15885	"protein_coding"	"YES"	"CCDS13164.1"	"ENSP00000366058"	"Q9H7V2"	""	"UPI00001285DC"	"NM_024893.2"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"23b3e4ee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151515151515152	"WGS"	FALSE
"14036"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	25093351	25093351	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"15"	4	15	"15"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"23b400aa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"14037"	"DEFB115"	245929	"mskcc.org"	"GRCh37"	"20"	29852069	29852069	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000400552"	""	112	"92"	20	57	"57"	0	"DEFB115,downstream_gene_variant,,ENST00000400552,NM_001037730.1;"	"T"	"ENSG00000215547"	"ENST00000400552"	"Transcript"	"downstream_gene_variant"	"-/267"	"-/267"	"-/88"	""	""	""	"1"	"4634"	1	"DEFB115"	"HGNC"	18096	"protein_coding"	"YES"	"CCDS42859.1"	"ENSP00000383398"	"Q30KQ5"	""	"UPI00005E4A74"	"NM_001037730.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"23b5cec6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"14038"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	30022821	30022821	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"76"	9	37	"37"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"23b5d858-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105882352941176	"WGS"	FALSE
"14039"	"C20orf203"	0	"mskcc.org"	"GRCh37"	"20"	31224906	31224906	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2458-2834C>T"	""	""	"ENST00000608990"	""	86	"65"	21	41	"41"	0	"C20orf203,intron_variant,,ENST00000608990,;C20orf203,intron_variant,,ENST00000360785,;"	"A"	"ENSG00000198547"	"ENST00000608990"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/5076"	""	""	""	""	""	"1"	NA	-1	"C20orf203"	"HGNC"	26592	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"23b64d92-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244186046511628	"WGS"	FALSE
"14040"	"CBFA2T2"	9139	"mskcc.org"	"GRCh37"	"20"	32170421	32170421	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.61+8354G>T"	""	""	"ENST00000346541"	""	89	"54"	35	39	"39"	0	"CBFA2T2,intron_variant,,ENST00000492345,;CBFA2T2,intron_variant,,ENST00000346541,NM_005093.3;CBFA2T2,intron_variant,,ENST00000375279,;CBFA2T2,intron_variant,,ENST00000397800,NM_001039709.1;CBFA2T2,intron_variant,,ENST00000342704,NM_001032999.2;CBFA2T2,intron_variant,,ENST00000397798,;CBFA2T2,intron_variant,,ENST00000344201,;CBFA2T2,intron_variant,,ENST00000471007,;"	"T"	"ENSG00000078699"	"ENST00000346541"	"Transcript"	"intron_variant"	"-/7737"	"-/1815"	"-/604"	""	""	""	"1"	NA	1	"CBFA2T2"	"HGNC"	1536	"protein_coding"	"YES"	"CCDS13221.1"	"ENSP00000262653"	"O43439"	"Q68DC6,D1LYX4,B4DFM9,A2A2D9"	"UPI0000073E07"	"NM_005093.3"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"23b69c20-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.393258426966292	"WGS"	FALSE
"14041"	"UQCC1"	55245	"mskcc.org"	"GRCh37"	"20"	33941341	33941341	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.465-6266G>A"	""	""	"ENST00000374385"	""	82	"73"	9	47	"47"	0	"UQCC1,intron_variant,,ENST00000397554,;UQCC1,intron_variant,,ENST00000374385,NM_018244.4;UQCC1,intron_variant,,ENST00000374384,NM_199487.2;UQCC1,intron_variant,,ENST00000349714,;UQCC1,intron_variant,,ENST00000374380,NM_001184977.1;UQCC1,intron_variant,,ENST00000359226,;UQCC1,intron_variant,,ENST00000374377,;UQCC1,intron_variant,,ENST00000397556,;UQCC1,intron_variant,,ENST00000407996,;UQCC1,intron_variant,,ENST00000540457,;UQCC1,intron_variant,,ENST00000542501,;UQCC1,intron_variant,,ENST00000424405,;UQCC1,intron_variant,,ENST00000438533,;UQCC1,intron_variant,,ENST00000491125,;UQCC1,intron_variant,,ENST00000374394,;UQCC1,intron_variant,,ENST00000457259,;UQCC1,intron_variant,,ENST00000453855,;UQCC1,intron_variant,,ENST00000491040,;UQCC1,intron_variant,,ENST00000443429,;UQCC1,intron_variant,,ENST00000397553,;"	"T"	"ENSG00000101019"	"ENST00000374385"	"Transcript"	"intron_variant"	"-/2447"	"-/900"	"-/299"	""	""	""	"1"	NA	-1	"UQCC1"	"HGNC"	15891	"protein_coding"	"YES"	"CCDS13252.1"	"ENSP00000363506"	"Q9NVA1"	"Q3KRB6,B7Z314,B7Z1C6"	"UPI0000206264"	"NM_018244.4"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"23b7339c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109756097560976	"WGS"	FALSE
"14042"	"DLGAP4"	22839	"mskcc.org"	"GRCh37"	"20"	34990442	34990442	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-303-5006C>G"	""	""	"ENST00000373913"	""	85	"78"	7	41	"41"	0	"DLGAP4,intron_variant,,ENST00000373913,;"	"G"	"ENSG00000080845"	"ENST00000373913"	"Transcript"	"intron_variant"	"-/5056"	"-/2970"	"-/989"	""	""	""	"1"	NA	1	"DLGAP4"	"HGNC"	24476	"protein_coding"	"YES"	"CCDS13274.1"	"ENSP00000363023"	"Q9Y2H0"	""	"UPI000013D34B"	""	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"23b79ac6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0823529411764706	"WGS"	FALSE
"14043"	"DLGAP4"	22839	"mskcc.org"	"GRCh37"	"20"	35062613	35062613	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.999+1494T>A"	""	""	"ENST00000373913"	""	95	"88"	7	46	"46"	0	"DLGAP4,intron_variant,,ENST00000373913,;DLGAP4,intron_variant,,ENST00000401952,NM_014902.4;DLGAP4,intron_variant,,ENST00000339266,;DLGAP4,intron_variant,,ENST00000373907,;"	"A"	"ENSG00000080845"	"ENST00000373913"	"Transcript"	"intron_variant"	"-/5056"	"-/2970"	"-/989"	""	""	""	"1"	NA	1	"DLGAP4"	"HGNC"	24476	"protein_coding"	"YES"	"CCDS13274.1"	"ENSP00000363023"	"Q9Y2H0"	""	"UPI000013D34B"	""	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"23b7a480-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"14044"	"RBL1"	5933	"mskcc.org"	"GRCh37"	"20"	35671304	35671304	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1770+1185G>C"	""	""	"ENST00000373664"	""	70	"64"	6	39	"39"	0	"RBL1,intron_variant,,ENST00000373664,NM_002895.3;RBL1,intron_variant,,ENST00000344359,NM_183404.2;"	"G"	"ENSG00000080839"	"ENST00000373664"	"Transcript"	"intron_variant"	"-/5684"	"-/3207"	"-/1068"	""	""	""	"1"	NA	-1	"RBL1"	"HGNC"	9893	"protein_coding"	"YES"	"CCDS13289.1"	"ENSP00000362768"	"P28749"	""	"UPI000013D34E"	"NM_002895.3"	""	""	""	"13/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"23b7f462-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"14045"	"RP4-564F22.5"	0	"mskcc.org"	"GRCh37"	"20"	37040999	37040999	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1692+2754G>A"	""	""	"ENST00000422519"	""	94	"68"	26	53	"53"	0	"RP4-564F22.5,intron_variant,,ENST00000422519,;"	"T"	"ENSG00000224635"	"ENST00000422519"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2004"	""	""	""	""	""	"1"	NA	-1	"RP4-564F22.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"23b84bf6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276595744680851	"WGS"	FALSE
"14046"	"PPP1R16B"	26051	"mskcc.org"	"GRCh37"	"20"	37479438	37479438	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.250+14620T>A"	""	""	"ENST00000299824"	""	69	"63"	6	44	"44"	0	"PPP1R16B,intron_variant,,ENST00000299824,NM_015568.2;PPP1R16B,intron_variant,,ENST00000373331,NM_001172735.1;PPP1R16B,intron_variant,,ENST00000468265,;PPP1R16B,intron_variant,,ENST00000463749,;"	"A"	"ENSG00000101445"	"ENST00000299824"	"Transcript"	"intron_variant"	"-/6251"	"-/1704"	"-/567"	""	""	""	"1"	NA	1	"PPP1R16B"	"HGNC"	15850	"protein_coding"	"YES"	"CCDS13309.1"	"ENSP00000299824"	"Q96T49"	""	"UPI0000132059"	"NM_015568.2"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"23b86604-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"14047"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	38075083	38075083	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"39"	27	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"23b87892-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.409090909090909	"WGS"	FALSE
"14048"	"PTPRT"	11122	"mskcc.org"	"GRCh37"	"20"	40783234	40783234	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2739+6758C>A"	""	""	"ENST00000373198"	""	93	"87"	6	53	"53"	0	"PTPRT,intron_variant,,ENST00000373198,NM_133170.3;PTPRT,intron_variant,,ENST00000373201,;PTPRT,intron_variant,,ENST00000373193,NM_007050.5;PTPRT,intron_variant,,ENST00000373190,;PTPRT,intron_variant,,ENST00000373184,;PTPRT,intron_variant,,ENST00000356100,;PTPRT,intron_variant,,ENST00000373187,;"	"T"	"ENSG00000196090"	"ENST00000373198"	"Transcript"	"intron_variant"	"-/12746"	"-/4383"	"-/1460"	""	""	""	"1"	NA	-1	"PTPRT"	"HGNC"	9682	"protein_coding"	""	"CCDS68127.1"	"ENSP00000362294"	"O14522"	""	"UPI00001AF6FA"	"NM_133170.3"	""	""	""	"18/31"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"23b8c414-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"14049"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	41866909	41866909	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"62"	43	32	"32"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"23b8ecc8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.40952380952381	"WGS"	FALSE
"14050"	"MYBL2"	4605	"mskcc.org"	"GRCh37"	"20"	42327516	42327516	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.664-881T>A"	""	""	"ENST00000217026"	""	39	"33"	6	27	"27"	0	"MYBL2,intron_variant,,ENST00000217026,NM_002466.3;MYBL2,intron_variant,,ENST00000396863,NM_001278610.1;"	"A"	"ENSG00000101057"	"ENST00000217026"	"Transcript"	"intron_variant"	"-/2639"	"-/2103"	"-/700"	""	""	""	"1"	NA	1	"MYBL2"	"HGNC"	7548	"protein_coding"	"YES"	"CCDS13322.1"	"ENSP00000217026"	"P10244"	""	"UPI000012FAE1"	"NM_002466.3"	""	""	""	"6/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"23b91342-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"14051"	"STK4"	6789	"mskcc.org"	"GRCh37"	"20"	43606595	43606595	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.117-489G>A"	""	""	"ENST00000372806"	""	111	"104"	7	51	"51"	0	"STK4,intron_variant,,ENST00000372806,NM_006282.2;STK4,intron_variant,,ENST00000499879,;STK4,intron_variant,,ENST00000372801,;STK4,intron_variant,,ENST00000396731,;STK4,intron_variant,,ENST00000474717,;STK4,downstream_gene_variant,,ENST00000487587,;STK4,downstream_gene_variant,,ENST00000480745,;"	"A"	"ENSG00000101109"	"ENST00000372806"	"Transcript"	"intron_variant"	"-/6342"	"-/1464"	"-/487"	""	""	""	"1"	NA	1	"STK4"	"HGNC"	11408	"protein_coding"	"YES"	"CCDS13341.1"	"ENSP00000361892"	"Q13043"	"Q9BS84"	"UPI00001360FF"	"NM_006282.2"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"23b95db6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0630630630630631	"WGS"	FALSE
"14052"	"MATN4"	8785	"mskcc.org"	"GRCh37"	"20"	43934463	43934463	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-34-207T>A"	""	""	"ENST00000537548"	""	40	"35"	5	24	"24"	0	"MATN4,intron_variant,,ENST00000537548,NM_003833.4;MATN4,intron_variant,,ENST00000342716,;MATN4,intron_variant,,ENST00000360607,NM_030590.3;MATN4,intron_variant,,ENST00000353917,NM_030592.3;MATN4,intron_variant,,ENST00000372751,;MATN4,upstream_gene_variant,,ENST00000372754,;MATN4,upstream_gene_variant,,ENST00000372756,;RBPJL,upstream_gene_variant,,ENST00000343694,NM_001281449.1,NM_014276.3,NM_001281448.1;RBPJL,upstream_gene_variant,,ENST00000372741,;RBPJL,upstream_gene_variant,,ENST00000372743,;"	"T"	"ENSG00000124159"	"ENST00000537548"	"Transcript"	"intron_variant"	"-/2282"	"-/1746"	"-/581"	""	""	""	"1"	NA	-1	"MATN4"	"HGNC"	6910	"protein_coding"	"YES"	"CCDS13348.1"	"ENSP00000440328"	"O95460"	""	"UPI000016054E"	"NM_003833.4"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"23b972b0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"14053"	"WFDC11"	259239	"mskcc.org"	"GRCh37"	"20"	44274336	44274336	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000356562"	""	30	"26"	4	11	"11"	0	"WFDC11,downstream_gene_variant,,ENST00000356562,;WFDC11,downstream_gene_variant,,ENST00000324384,NM_147197.2;RPS2P7,upstream_gene_variant,,ENST00000447334,;RPS2P7,upstream_gene_variant,,ENST00000395947,;"	"A"	"ENSG00000180083"	"ENST00000356562"	"Transcript"	"downstream_gene_variant"	"-/642"	"-/264"	"-/87"	""	""	""	"1"	"2866"	-1	"WFDC11"	"HGNC"	20478	"protein_coding"	"YES"	"CCDS13364.1"	"ENSP00000348968"	"Q8NEX6"	""	"UPI0000138EA6"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"23b98692-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"14054"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	47088849	47088849	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"68"	25	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"23ba5ebe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"14055"	"DDX27"	55661	"mskcc.org"	"GRCh37"	"20"	47844446	47844446	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.800-806T>C"	""	""	"ENST00000371764"	""	77	"71"	6	35	"35"	0	"DDX27,intron_variant,,ENST00000371764,NM_017895.7;DDX27,intron_variant,,ENST00000484427,;DDX27,intron_variant,,ENST00000493252,;DDX27,downstream_gene_variant,,ENST00000462328,;"	"C"	"ENSG00000124228"	"ENST00000371764"	"Transcript"	"intron_variant"	"-/2643"	"-/2391"	"-/796"	""	""	""	"1"	NA	1	"DDX27"	"HGNC"	15837	"protein_coding"	"YES"	"CCDS13416.1"	"ENSP00000360828"	"Q96GQ7"	"B7Z6D5"	"UPI0000140DCA"	"NM_017895.7"	""	""	""	"7/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"23bab62a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"14056"	"RP11-112L6.2"	0	"mskcc.org"	"GRCh37"	"20"	48784316	48784316	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.275+1143G>A"	""	""	"ENST00000444478"	""	77	"69"	8	40	"40"	0	"RP11-112L6.2,intron_variant,,ENST00000444478,;RP11-112L6.3,upstream_gene_variant,,ENST00000435301,;RP11-112L6.4,upstream_gene_variant,,ENST00000411453,;RP11-112L6.4,upstream_gene_variant,,ENST00000427333,;RP11-112L6.2,upstream_gene_variant,,ENST00000451960,;"	"A"	"ENSG00000234698"	"ENST00000444478"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/425"	""	""	""	""	""	"1"	NA	1	"RP11-112L6.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"23bb0120-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103896103896104	"WGS"	FALSE
"14057"	"FAM65C"	140876	"mskcc.org"	"GRCh37"	"20"	49304516	49304516	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10+3147G>T"	""	""	"ENST00000327979"	""	96	"57"	39	56	"56"	0	"FAM65C,intron_variant,,ENST00000327979,;FAM65C,intron_variant,,ENST00000535356,;"	"A"	"ENSG00000042062"	"ENST00000327979"	"Transcript"	"intron_variant"	"-/4377"	"-/2841"	"-/946"	""	""	""	"1"	NA	-1	"FAM65C"	"HGNC"	16168	"protein_coding"	"YES"	"CCDS13431.2"	"ENSP00000332663"	"Q96MK2"	""	"UPI0000DA5AF4"	""	""	""	""	"1/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"23bb2c68-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.40625	"WGS"	FALSE
"14058"	"BCAS4"	55653	"mskcc.org"	"GRCh37"	"20"	49473927	49473927	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.489+15490C>T"	""	""	"ENST00000358791"	""	96	"61"	35	42	"42"	0	"BCAS4,intron_variant,,ENST00000358791,NM_017843.3;BCAS4,intron_variant,,ENST00000371608,NM_198799.2;BCAS4,intron_variant,,ENST00000262591,NM_001010974.1;BCAS4,intron_variant,,ENST00000609336,;BCAS4,intron_variant,,ENST00000445038,;AL133228.1,upstream_gene_variant,,ENST00000582676,;BCAS4,intron_variant,,ENST00000463943,;"	"T"	"ENSG00000124243"	"ENST00000358791"	"Transcript"	"intron_variant"	"-/1378"	"-/636"	"-/211"	""	""	""	"1"	NA	1	"BCAS4"	"HGNC"	14367	"protein_coding"	"YES"	"CCDS33487.1"	"ENSP00000351642"	"Q8TDM0"	""	"UPI0000070BBB"	"NM_017843.3"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"23bb427a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364583333333333	"WGS"	FALSE
"14059"	"NFATC2"	4773	"mskcc.org"	"GRCh37"	"20"	50148370	50148370	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.131-7721G>T"	""	""	"ENST00000396009"	""	78	"72"	6	67	"67"	0	"NFATC2,intron_variant,,ENST00000371564,NM_012340.4,NM_001258296.1;NFATC2,intron_variant,,ENST00000396009,NM_001258297.1,NM_173091.3;NFATC2,intron_variant,,ENST00000609943,NM_001258295.1,NM_001258292.1,NM_001136021.2;NFATC2,intron_variant,,ENST00000414705,;NFATC2,intron_variant,,ENST00000610033,;NFATC2,intron_variant,,ENST00000609507,NM_001258294.1;"	"A"	"ENSG00000101096"	"ENST00000396009"	"Transcript"	"intron_variant"	"-/7437"	"-/2778"	"-/925"	""	""	""	"1"	NA	-1	"NFATC2"	"HGNC"	7776	"protein_coding"	"YES"	"CCDS13437.1"	"ENSP00000379330"	"Q13469"	"B5B2P4,B5B2P3"	"UPI0000167D0F"	"NM_001258297.1,NM_173091.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"23bb65b6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	TRUE
"14060"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	50655042	50655042	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"57"	10	28	"28"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"23bbb020-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.149253731343284	"WGS"	FALSE
"14061"	"AC005808.3"	0	"mskcc.org"	"GRCh37"	"20"	52231395	52231395	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.159-2981G>C"	""	""	"ENST00000444112"	""	75	"67"	8	39	"39"	0	"AC005808.3,intron_variant,,ENST00000444112,;ZNF217,upstream_gene_variant,,ENST00000540425,;"	"C"	"ENSG00000235415"	"ENST00000444112"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/381"	""	""	""	""	""	"1"	NA	1	"AC005808.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"23bc1fe2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106666666666667	"WGS"	FALSE
"14062"	"AC005808.3"	0	"mskcc.org"	"GRCh37"	"20"	52231411	52231411	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.159-2965C>G"	""	""	"ENST00000444112"	""	68	"61"	7	42	"42"	0	"AC005808.3,intron_variant,,ENST00000444112,;ZNF217,upstream_gene_variant,,ENST00000540425,;"	"G"	"ENSG00000235415"	"ENST00000444112"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/381"	""	""	""	""	""	"1"	NA	1	"AC005808.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"23bc214a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102941176470588	"WGS"	FALSE
"14063"	"AC005808.3"	0	"mskcc.org"	"GRCh37"	"20"	52231412	52231412	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.159-2964A>G"	""	""	"ENST00000444112"	""	70	"63"	7	43	"43"	0	"AC005808.3,intron_variant,,ENST00000444112,;ZNF217,upstream_gene_variant,,ENST00000540425,;"	"G"	"ENSG00000235415"	"ENST00000444112"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/381"	""	""	""	""	""	"1"	NA	1	"AC005808.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"23bc228a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"14064"	"AC005808.3"	0	"mskcc.org"	"GRCh37"	"20"	52235727	52235727	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.320+1190A>G"	""	""	"ENST00000444112"	""	90	"84"	6	50	"50"	0	"AC005808.3,intron_variant,,ENST00000444112,;"	"G"	"ENSG00000235415"	"ENST00000444112"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/381"	""	""	""	""	""	"1"	NA	1	"AC005808.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"23bc280c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"14065"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	53515221	53515221	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"65"	5	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"23bc8644-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"14066"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	56315187	56315187	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"64"	43	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"23bd13a2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.401869158878505	"WGS"	FALSE
"14067"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	57866866	57866866	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"68"	6	41	"41"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"23bd7a4a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"14068"	"ENSR00000403788"	0	"mskcc.org"	"GRCh37"	"20"	58100350	58100350	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000403788"	""	93	"61"	32	44	"44"	0	""	"C"	""	"ENSR00000403788"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"23bd84a4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344086021505376	"WGS"	FALSE
"14069"	"TCFL5"	10732	"mskcc.org"	"GRCh37"	"20"	61487399	61487399	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs150903037"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1238+1348C>T"	""	""	"ENST00000335351"	""	84	"76"	8	47	"47"	0	"TCFL5,intron_variant,,ENST00000335351,NM_006602.2;TCFL5,intron_variant,,ENST00000217162,;"	"A"	"ENSG00000101190"	"ENST00000335351"	"Transcript"	"intron_variant"	"-/2456"	"-/1503"	"-/500"	""	""	"rs150903037"	"1"	NA	-1	"TCFL5"	"HGNC"	11646	"protein_coding"	"YES"	"CCDS13506.1"	"ENSP00000334294"	"Q9UL49"	""	"UPI0000206389"	"NM_006602.2"	""	""	""	"4/5"	""	"A:0.0194"	"A:0.0681"	"A:0.0101"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"23bf1864-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"14070"	"TCFL5"	10732	"mskcc.org"	"GRCh37"	"20"	61487406	61487406	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1238+1341T>A"	""	""	"ENST00000335351"	""	84	"77"	7	46	"46"	0	"TCFL5,intron_variant,,ENST00000335351,NM_006602.2;TCFL5,intron_variant,,ENST00000217162,;"	"T"	"ENSG00000101190"	"ENST00000335351"	"Transcript"	"intron_variant"	"-/2456"	"-/1503"	"-/500"	""	""	""	"1"	NA	-1	"TCFL5"	"HGNC"	11646	"protein_coding"	"YES"	"CCDS13506.1"	"ENSP00000334294"	"Q9UL49"	""	"UPI0000206389"	"NM_006602.2"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"23bf1918-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"14071"	"DIDO1"	11083	"mskcc.org"	"GRCh37"	"20"	61567967	61567967	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-200+1181G>C"	""	""	"ENST00000266070"	""	84	"77"	7	49	"49"	0	"DIDO1,intron_variant,,ENST00000266070,NM_033081.2;DIDO1,intron_variant,,ENST00000395335,NM_080797.3;DIDO1,intron_variant,,ENST00000370371,NM_022105.4;DIDO1,intron_variant,,ENST00000266071,;GID8,upstream_gene_variant,,ENST00000266069,NM_017896.2;GID8,upstream_gene_variant,,ENST00000497101,;"	"G"	"ENSG00000101191"	"ENST00000266070"	"Transcript"	"intron_variant"	"-/8544"	"-/6723"	"-/2240"	""	""	""	"1"	NA	-1	"DIDO1"	"HGNC"	2680	"protein_coding"	"YES"	"CCDS33506.1"	"ENSP00000266070"	"Q9BTC0"	""	"UPI0000206380"	"NM_033081.2"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"23bf1f08-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"14072"	"RTEL1"	51750	"mskcc.org"	"GRCh37"	"20"	62287710	62287710	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000508582"	""	83	"77"	6	43	"43"	0	"RTEL1,upstream_gene_variant,,ENST00000318100,;RTEL1,upstream_gene_variant,,ENST00000370018,NM_032957.4,NM_016434.3;RTEL1,upstream_gene_variant,,ENST00000360203,NM_001283009.1;RTEL1,upstream_gene_variant,,ENST00000508582,;STMN3,upstream_gene_variant,,ENST00000370053,NM_015894.3;RTEL1,upstream_gene_variant,,ENST00000356810,;STMN3,upstream_gene_variant,,ENST00000540534,NM_001276310.1;RTEL1,upstream_gene_variant,,ENST00000488316,;RTEL1,upstream_gene_variant,,ENST00000469728,;RTEL1-TNFRSF6B,upstream_gene_variant,,ENST00000482936,;RTEL1-TNFRSF6B,upstream_gene_variant,,ENST00000492259,;"	"T"	"ENSG00000258366"	"ENST00000508582"	"Transcript"	"upstream_gene_variant"	"-/4273"	"-/3732"	"-/1243"	""	""	""	"1"	"1934"	1	"RTEL1"	"HGNC"	15888	"protein_coding"	"YES"	"CCDS13530.3"	"ENSP00000424307"	"Q9NZ71"	""	"UPI00019B2219"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"23bfe69a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"14073"	"ZBTB46"	140685	"mskcc.org"	"GRCh37"	"20"	62412017	62412017	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.938-4702A>G"	""	""	"ENST00000245663"	""	69	"63"	6	35	"35"	0	"ZBTB46,intron_variant,,ENST00000245663,NM_025224.3;ZBTB46,intron_variant,,ENST00000395104,;ZBTB46,intron_variant,,ENST00000302995,;ZBTB46,upstream_gene_variant,,ENST00000460757,;"	"C"	"ENSG00000130584"	"ENST00000245663"	"Transcript"	"intron_variant"	"-/5185"	"-/1770"	"-/589"	""	""	""	"1"	NA	-1	"ZBTB46"	"HGNC"	16094	"protein_coding"	"YES"	"CCDS13538.1"	"ENSP00000245663"	"Q86UZ6"	""	"UPI0000206406"	"NM_025224.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"23c00ad0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"14074"	"ZNF512B"	57473	"mskcc.org"	"GRCh37"	"20"	62602849	62602849	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-5-3541C>G"	""	""	"ENST00000450537"	""	61	"56"	5	35	"35"	0	"ZNF512B,intron_variant,,ENST00000450537,;ZNF512B,intron_variant,,ENST00000217130,;ZNF512B,upstream_gene_variant,,ENST00000369888,NM_020713.2;SAMD10,downstream_gene_variant,,ENST00000369886,NM_080621.4;SAMD10,downstream_gene_variant,,ENST00000498830,;SAMD10,downstream_gene_variant,,ENST00000478694,;"	"C"	"ENSG00000196700"	"ENST00000450537"	"Transcript"	"intron_variant"	"-/5926"	"-/2679"	"-/892"	""	""	""	"1"	NA	-1	"ZNF512B"	"HGNC"	29212	"protein_coding"	"YES"	"CCDS13548.1"	"ENSP00000393795"	"Q96KM6"	""	"UPI000013A290"	""	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"23c02b50-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0819672131147541	"WGS"	FALSE
"14075"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	10124579	10124579	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"16"	22	21	"21"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"23c410d0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.578947368421053	"WGS"	FALSE
"14076"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	10531498	10531498	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	259	"240"	19	149	"149"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"23c51b92-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0733590733590734	"WGS"	FALSE
"14077"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	14503231	14503231	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	44	"38"	6	26	"26"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"23cc0e34-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"14078"	"ANKRD20A11P"	391267	"mskcc.org"	"GRCh37"	"21"	15331866	15331866	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.831+1264C>G"	""	""	"ENST00000451663"	""	73	"48"	25	43	"43"	0	"ANKRD20A11P,intron_variant,,ENST00000344693,;ANKRD20A11P,intron_variant,,ENST00000429521,;ANKRD20A11P,intron_variant,,ENST00000428576,;ANKRD20A11P,intron_variant,,ENST00000432875,;ANKRD20A11P,intron_variant,,ENST00000451663,;"	"C"	"ENSG00000215559"	"ENST00000451663"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3717"	""	""	""	""	""	"1"	NA	-1	"ANKRD20A11P"	"HGNC"	42024	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"7/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"23cc7a2c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342465753424658	"WGS"	FALSE
"14079"	"AJ006998.2"	0	"mskcc.org"	"GRCh37"	"21"	16756933	16756933	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.610+5964G>A"	""	""	"ENST00000449602"	""	89	"57"	32	55	"55"	0	"AJ006998.2,intron_variant,,ENST00000449602,;"	"T"	"ENSG00000229425"	"ENST00000449602"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1000"	""	""	""	""	""	"1"	NA	-1	"AJ006998.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"23ccacc2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.359550561797753	"WGS"	FALSE
"14080"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	16805262	16805262	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"64"	24	53	"53"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"23ccaede-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"14081"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	18722091	18722091	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"49"	34	73	"72"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"23ccfc68-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.409638554216867	"WGS"	FALSE
"14082"	"CHODL"	140578	"mskcc.org"	"GRCh37"	"21"	19290261	19290261	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-45+544G>T"	""	""	"ENST00000400128"	""	90	"58"	32	51	"51"	0	"CHODL,intron_variant,,ENST00000400128,;CHODL,intron_variant,,ENST00000400127,NM_001204176.1;CHODL,intron_variant,,ENST00000400135,NM_001204178.1;CHODL,intron_variant,,ENST00000400131,NM_001204177.1;"	"T"	"ENSG00000154645"	"ENST00000400128"	"Transcript"	"intron_variant"	"-/2421"	"-/699"	"-/232"	""	""	""	"1"	NA	1	"CHODL"	"HGNC"	17807	"protein_coding"	""	"CCDS56209.1"	"ENSP00000382993"	"Q9H9P2"	""	"UPI000015F4C4"	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"23cd1978-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355555555555556	"WGS"	FALSE
"14083"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	21525211	21525211	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"45"	32	40	"40"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"23cd730a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.415584415584416	"WGS"	FALSE
"14084"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	21967451	21967451	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"63"	23	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"23cd8534-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267441860465116	"WGS"	FALSE
"14085"	"NCAM2"	4685	"mskcc.org"	"GRCh37"	"21"	22614290	22614290	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.56-38608A>G"	""	""	"ENST00000400546"	""	97	"79"	18	58	"58"	0	"NCAM2,intron_variant,,ENST00000400546,NM_004540.3;NCAM2,intron_variant,,ENST00000284894,;NCAM2,intron_variant,,ENST00000535285,;NCAM2,intron_variant,,ENST00000486367,;"	"G"	"ENSG00000154654"	"ENST00000400546"	"Transcript"	"intron_variant"	"-/8135"	"-/2514"	"-/837"	""	""	""	"1"	NA	1	"NCAM2"	"HGNC"	7657	"protein_coding"	"YES"	"CCDS42910.1"	"ENSP00000383392"	"O15394"	"D3DSC5"	"UPI00001A3703"	"NM_004540.3"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"23cd9ec0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185567010309278	"WGS"	FALSE
"14086"	"AP000476.1"	0	"mskcc.org"	"GRCh37"	"21"	25914488	25914488	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.229-3821G>A"	""	""	"ENST00000415182"	""	81	"47"	34	48	"48"	0	"AP000476.1,intron_variant,,ENST00000415182,;"	"A"	"ENSG00000237484"	"ENST00000415182"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2176"	""	""	""	""	""	"1"	NA	1	"AP000476.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"23ce1d14-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.419753086419753	"WGS"	FALSE
"14087"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	25980071	25980071	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"73"	14	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"23ce1fda-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.160919540229885	"WGS"	FALSE
"14088"	"LINC00314"	246705	"mskcc.org"	"GRCh37"	"21"	29381828	29381828	"+"	"5'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000324988"	""	119	"80"	39	60	"60"	0	"LINC00314,upstream_gene_variant,,ENST00000324988,;"	"A"	"ENSG00000178457"	"ENST00000324988"	"Transcript"	"upstream_gene_variant"	"-/607"	""	""	""	""	""	"1"	"3854"	1	"LINC00314"	"HGNC"	16622	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"23ceb68e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.327731092436975	"WGS"	FALSE
"14089"	"LTN1"	26046	"mskcc.org"	"GRCh37"	"21"	30367392	30367392	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000389194"	""	88	"82"	6	45	"45"	0	"LTN1,upstream_gene_variant,,ENST00000389194,NM_015565.2;LTN1,upstream_gene_variant,,ENST00000361371,;LTN1,upstream_gene_variant,,ENST00000389195,;RPL23P2,downstream_gene_variant,,ENST00000320371,;"	"A"	"ENSG00000198862"	"ENST00000389194"	"Transcript"	"upstream_gene_variant"	"-/7749"	"-/5439"	"-/1812"	""	""	""	"1"	"2122"	-1	"LTN1"	"HGNC"	13082	"protein_coding"	"YES"	"CCDS33527.2"	"ENSP00000373846"	"O94822"	"G1UI34"	"UPI000049DF6C"	"NM_015565.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"23cedc4a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"14090"	"HUNK"	30811	"mskcc.org"	"GRCh37"	"21"	33348872	33348872	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1173+1843A>G"	""	""	"ENST00000270112"	""	67	"61"	6	27	"27"	0	"HUNK,intron_variant,,ENST00000270112,NM_014586.1;HUNK,intron_variant,,ENST00000439107,;HUNK,intron_variant,,ENST00000465574,;"	"G"	"ENSG00000142149"	"ENST00000270112"	"Transcript"	"intron_variant"	"-/7385"	"-/2145"	"-/714"	""	""	""	"1"	NA	1	"HUNK"	"HGNC"	13326	"protein_coding"	"YES"	"CCDS13610.1"	"ENSP00000270112"	"P57058"	""	"UPI0000035B66"	"NM_014586.1"	""	""	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"23cfa44a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0895522388059701	"WGS"	FALSE
"14091"	"MRAP"	56246	"mskcc.org"	"GRCh37"	"21"	33679778	33679778	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.206+728C>T"	""	""	"ENST00000399784"	""	78	"51"	27	52	"52"	0	"MRAP,intron_variant,,ENST00000399784,NM_178817.3;MRAP,intron_variant,,ENST00000303645,;MRAP,intron_variant,,ENST00000399786,NM_206898.1;MRAP,intron_variant,,ENST00000339944,;URB1,downstream_gene_variant,,ENST00000382751,NM_014825.2;AP000266.7,intron_variant,,ENST00000450936,;MRAP,intron_variant,,ENST00000497833,;"	"T"	"ENSG00000170262"	"ENST00000399784"	"Transcript"	"intron_variant"	"-/1000"	"-/519"	"-/172"	""	""	""	"1"	NA	1	"MRAP"	"HGNC"	1304	"protein_coding"	"YES"	"CCDS13613.1"	"ENSP00000382684"	"Q8TCY5"	""	"UPI000013E8CC"	"NM_178817.3"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"23cfb78c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"14092"	"RUNX1"	861	"mskcc.org"	"GRCh37"	"21"	36183180	36183180	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.806-11421G>A"	""	""	"ENST00000300305"	""	84	"54"	30	41	"41"	0	"RUNX1,intron_variant,,ENST00000344691,NM_001001890.2;RUNX1,intron_variant,,ENST00000300305,;RUNX1,intron_variant,,ENST00000437180,NM_001754.4;RUNX1,intron_variant,,ENST00000325074,;RUNX1,intron_variant,,ENST00000399240,;RUNX1,intron_variant,,ENST00000482318,;"	"T"	"ENSG00000159216"	"ENST00000300305"	"Transcript"	"intron_variant"	"-/6222"	"-/1443"	"-/480"	""	""	""	"1"	NA	-1	"RUNX1"	"HGNC"	10471	"protein_coding"	"YES"	"CCDS13639.1"	"ENSP00000300305"	"Q01196"	""	"UPI000015FE6A"	""	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"23d04792-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WGS"	TRUE
"14093"	"FKSG68"	0	"mskcc.org"	"GRCh37"	"21"	37270311	37270311	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000599809"	""	61	"55"	6	35	"35"	0	"RUNX1,intron_variant,,ENST00000475045,;FKSG68,downstream_gene_variant,,ENST00000599809,;"	"T"	"ENSG00000267812"	"ENST00000599809"	"Transcript"	"downstream_gene_variant"	"-/375"	"-/375"	"-/124"	""	""	""	"1"	"42"	-1	"FKSG68"	"Uniprot_gn"	NA	"protein_coding"	"YES"	""	"ENSP00000469572"	""	"Q9BZ56"	"UPI000006F77A"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"23d070be-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0983606557377049	"WGS"	FALSE
"14094"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	38042605	38042605	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"65"	35	45	"45"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"23d0b6f0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WGS"	FALSE
"14095"	"KCNJ6"	3763	"mskcc.org"	"GRCh37"	"21"	39147179	39147179	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.26-59745C>T"	""	""	"ENST00000609713"	""	78	"72"	6	42	"42"	0	"KCNJ6,intron_variant,,ENST00000609713,NM_002240.3;KCNJ6,intron_variant,,ENST00000288309,;"	"A"	"ENSG00000157542"	"ENST00000609713"	"Transcript"	"intron_variant"	"-/19645"	"-/1272"	"-/423"	""	""	""	"1"	NA	-1	"KCNJ6"	"HGNC"	6267	"protein_coding"	"YES"	"CCDS42927.1"	"ENSP00000477437"	""	""	"UPI0000000B10"	"NM_002240.3"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGG"	"23d0f75a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"14096"	"BRWD1"	54014	"mskcc.org"	"GRCh37"	"21"	40612903	40612903	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2482-2404A>G"	""	""	"ENST00000333229"	""	65	"38"	27	32	"32"	0	"BRWD1,intron_variant,,ENST00000342449,NM_033656.3;BRWD1,intron_variant,,ENST00000333229,NM_018963.4;BRWD1,intron_variant,,ENST00000380800,;BRWD1,intron_variant,,ENST00000455867,;BRWD1,intron_variant,,ENST00000446924,;BRWD1,intron_variant,,ENST00000412604,;BRWD1,intron_variant,,ENST00000445245,;BRWD1,intron_variant,,ENST00000430093,;BRWD1,intron_variant,,ENST00000445668,;METTL21AP1,upstream_gene_variant,,ENST00000438852,;"	"C"	"ENSG00000185658"	"ENST00000333229"	"Transcript"	"intron_variant"	"-/10141"	"-/6963"	"-/2320"	""	""	""	"1"	NA	-1	"BRWD1"	"HGNC"	12760	"protein_coding"	"YES"	"CCDS13662.1"	"ENSP00000330753"	"Q9NSI6"	""	"UPI0000163C12"	"NM_018963.4"	""	""	""	"21/41"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"23d1368e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.415384615384615	"WGS"	FALSE
"14097"	"U2AF1"	7307	"mskcc.org"	"GRCh37"	"21"	44512059	44512059	"+"	"3'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000291552"	""	87	"56"	31	45	"45"	0	"U2AF1,downstream_gene_variant,,ENST00000459639,;U2AF1,downstream_gene_variant,,ENST00000398137,NM_001025204.1;U2AF1,downstream_gene_variant,,ENST00000291552,NM_006758.2;U2AF1,downstream_gene_variant,,ENST00000380276,NM_001025203.1;U2AF1,downstream_gene_variant,,ENST00000486519,;U2AF1,downstream_gene_variant,,ENST00000475639,;U2AF1,downstream_gene_variant,,ENST00000478282,;U2AF1,downstream_gene_variant,,ENST00000471250,;U2AF1,downstream_gene_variant,,ENST00000464750,;U2AF1,downstream_gene_variant,,ENST00000463599,;"	"A"	"ENSG00000160201"	"ENST00000291552"	"Transcript"	"downstream_gene_variant"	"-/962"	"-/723"	"-/240"	""	""	""	"1"	"1007"	-1	"U2AF1"	"HGNC"	12453	"protein_coding"	"YES"	"CCDS13694.1"	"ENSP00000291552"	"Q01081"	""	"UPI0000000C26"	"NM_006758.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"23d2751c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35632183908046	"WGS"	TRUE
"14098"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	45688640	45688640	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"65"	25	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"23d2e6c8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"14099"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	45690562	45690562	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"71"	10	29	"29"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"23d2e830-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123456790123457	"WGS"	FALSE
"14100"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	46245032	46245032	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	44	"39"	5	15	"15"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"23d338da-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WGS"	FALSE
"14101"	"MCM3AP"	8888	"mskcc.org"	"GRCh37"	"21"	47683198	47683198	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"rs542519451"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3335+833A>G"	""	""	"ENST00000397708"	""	88	"82"	6	31	"31"	0	"MCM3AP,intron_variant,,ENST00000397708,;MCM3AP,intron_variant,,ENST00000291688,NM_003906.3;MCM3AP-AS1,downstream_gene_variant,,ENST00000590829,;MCM3AP,upstream_gene_variant,,ENST00000467026,;MCM3AP,intron_variant,,ENST00000486937,;MCM3AP,intron_variant,,ENST00000496607,;MCM3AP,upstream_gene_variant,,ENST00000494755,;"	"C"	"ENSG00000160294"	"ENST00000397708"	"Transcript"	"intron_variant"	"-/6333"	"-/5943"	"-/1980"	""	""	"rs542519451"	"1"	NA	-1	"MCM3AP"	"HGNC"	6946	"protein_coding"	"YES"	"CCDS13734.1"	"ENSP00000380820"	"O60318"	"N0GVG8,B3KWZ4"	"UPI000012ED4A"	""	""	""	""	"14/28"	""	"C:0.0080"	"C:0.0287"	"C:0.0029"	NA	"C:0"	"C:0"	"C:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"23d4922a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"14102"	"BNIP3P2"	0	"mskcc.org"	"GRCh37"	"22"	16627731	16627731	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000441221"	""	88	"53"	35	43	"43"	0	"BNIP3P2,downstream_gene_variant,,ENST00000441221,;"	"T"	"ENSG00000236097"	"ENST00000441221"	"Transcript"	"downstream_gene_variant"	"-/577"	""	""	""	""	""	"1"	"189"	-1	"BNIP3P2"	"HGNC"	39655	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"23d5da18-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.397727272727273	"WGS"	FALSE
"14103"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	17036319	17036319	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"82"	8	56	"56"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"23d66ce4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"14104"	"IL17RA"	23765	"mskcc.org"	"GRCh37"	"22"	17591152	17591152	"+"	"3'UTR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*442C>G"	""	""	"ENST00000319363"	"13/13"	72	"67"	5	37	"37"	0	"IL17RA,3_prime_UTR_variant,,ENST00000319363,NM_014339.6;"	"G"	"ENSG00000177663"	"ENST00000319363"	"Transcript"	"3_prime_UTR_variant"	"3176/8607"	"-/2601"	"-/866"	""	""	""	"1"	NA	1	"IL17RA"	"HGNC"	5985	"protein_coding"	"YES"	"CCDS13739.1"	"ENSP00000320936"	"Q96F46"	"F1JZ08"	"UPI000005031F"	"NM_014339.6"	""	""	"13/13"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"23d712de-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0694444444444444	"WGS"	FALSE
"14105"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	17752722	17752722	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"88"	8	51	"51"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"23d73606-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"14106"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	17755220	17755220	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	46	"40"	6	18	"18"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"23d736ec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"14107"	"MICAL3"	57553	"mskcc.org"	"GRCh37"	"22"	18477661	18477661	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-75+29386C>T"	""	""	"ENST00000441493"	""	87	"55"	32	41	"41"	0	"MICAL3,intron_variant,,ENST00000441493,NM_015241.2;MICAL3,intron_variant,,ENST00000429452,NM_001136004.1;MICAL3,intron_variant,,ENST00000444520,NM_001122731.1;MICAL3,intron_variant,,ENST00000207726,;MICAL3,intron_variant,,ENST00000424046,;MICAL3,intron_variant,,ENST00000495076,;"	"A"	"ENSG00000243156"	"ENST00000441493"	"Transcript"	"intron_variant"	"-/9445"	"-/6009"	"-/2002"	""	""	""	"1"	NA	-1	"MICAL3"	"HGNC"	24694	"protein_coding"	"YES"	"CCDS46659.1"	"ENSP00000416015"	"Q7RTP6"	"C9J922,A8K0E1"	"UPI0001823FDE"	"NM_015241.2"	""	""	""	"1/31"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"23d7a17c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.367816091954023	"WGS"	FALSE
"14108"	"DGCR2"	9993	"mskcc.org"	"GRCh37"	"22"	19105674	19105674	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.79+3967C>G"	""	""	"ENST00000263196"	""	57	"39"	18	52	"52"	0	"DGCR2,intron_variant,,ENST00000545799,;DGCR2,intron_variant,,ENST00000263196,NM_001184781.1,NM_005137.2;DGCR2,intron_variant,,ENST00000537045,NM_001173533.1,NM_001173534.1;AC004471.9,upstream_gene_variant,,ENST00000456035,;DGCR2,intron_variant,,ENST00000389262,;"	"C"	"ENSG00000070413"	"ENST00000263196"	"Transcript"	"intron_variant"	"-/4480"	"-/1653"	"-/550"	""	""	""	"1"	NA	-1	"DGCR2"	"HGNC"	2845	"protein_coding"	"YES"	"CCDS33598.1"	"ENSP00000263196"	"P98153"	"B7Z8B7,B7Z3C4"	"UPI0000001613"	"NM_001184781.1,NM_005137.2"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"23d81062-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WGS"	FALSE
"14109"	"DGCR14"	8220	"mskcc.org"	"GRCh37"	"22"	19120970	19120970	"+"	"3'UTR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*739T>C"	""	""	"ENST00000252137"	"10/10"	61	"47"	14	43	"43"	0	"DGCR14,3_prime_UTR_variant,,ENST00000252137,NM_022719.2;TSSK2,downstream_gene_variant,,ENST00000399635,NM_053006.4;DGCR14,downstream_gene_variant,,ENST00000472073,;DGCR14,downstream_gene_variant,,ENST00000434568,;"	"G"	"ENSG00000100056"	"ENST00000252137"	"Transcript"	"3_prime_UTR_variant"	"2214/5392"	"-/1431"	"-/476"	""	""	""	"1"	NA	-1	"DGCR14"	"HGNC"	16817	"protein_coding"	"YES"	"CCDS13756.1"	"ENSP00000252137"	"Q96DF8"	""	"UPI0000129227"	"NM_022719.2"	""	""	"10/10"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"23d813a0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229508196721311	"WGS"	FALSE
"14110"	"TXNRD2"	10587	"mskcc.org"	"GRCh37"	"22"	19894698	19894698	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.662+4202G>A"	""	""	"ENST00000400521"	""	27	"22"	5	12	"12"	0	"TXNRD2,intron_variant,,ENST00000400519,;TXNRD2,intron_variant,,ENST00000535882,;TXNRD2,intron_variant,,ENST00000400518,;TXNRD2,intron_variant,,ENST00000400521,NM_006440.3;TXNRD2,intron_variant,,ENST00000334363,NM_001282512.1;TXNRD2,intron_variant,,ENST00000542719,;TXNRD2,intron_variant,,ENST00000491939,;TXNRD2,intron_variant,,ENST00000474308,;TXNRD2,downstream_gene_variant,,ENST00000484672,;TXNRD2,intron_variant,,ENST00000494454,;TXNRD2,intron_variant,,ENST00000400525,;TXNRD2,downstream_gene_variant,,ENST00000471835,;"	"T"	"ENSG00000184470"	"ENST00000400521"	"Transcript"	"intron_variant"	"-/1933"	"-/1575"	"-/524"	""	""	""	"1"	NA	-1	"TXNRD2"	"HGNC"	18155	"protein_coding"	"YES"	"CCDS42981.1"	"ENSP00000383365"	"Q9NNW7"	""	"UPI0000167BDD"	"NM_006440.3"	""	""	""	"8/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"23d85162-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WGS"	FALSE
"14111"	"AC006547.13"	0	"mskcc.org"	"GRCh37"	"22"	20062529	20062529	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000601746"	""	64	"56"	8	32	"32"	0	"AC006547.13,upstream_gene_variant,,ENST00000601746,;AC006547.13,upstream_gene_variant,,ENST00000600617,;AC006547.13,upstream_gene_variant,,ENST00000609191,;AC006547.13,upstream_gene_variant,,ENST00000598339,;AC006547.13,upstream_gene_variant,,ENST00000596334,;AC006547.13,upstream_gene_variant,,ENST00000595864,;"	"C"	"ENSG00000236540"	"ENST00000601746"	"Transcript"	"upstream_gene_variant"	"-/930"	""	""	""	""	""	"1"	"4506"	-1	"AC006547.13"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"23d86170-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"14112"	"AC006547.13"	0	"mskcc.org"	"GRCh37"	"22"	20062537	20062537	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"rs374654342"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000601746"	""	62	"55"	7	34	"34"	0	"AC006547.13,upstream_gene_variant,,ENST00000601746,;AC006547.13,upstream_gene_variant,,ENST00000600617,;AC006547.13,upstream_gene_variant,,ENST00000609191,;AC006547.13,upstream_gene_variant,,ENST00000598339,;AC006547.13,upstream_gene_variant,,ENST00000596334,;AC006547.13,upstream_gene_variant,,ENST00000595864,;"	"G"	"ENSG00000236540"	"ENST00000601746"	"Transcript"	"upstream_gene_variant"	"-/930"	""	""	""	""	"rs374654342"	"1"	"4514"	-1	"AC006547.13"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"23d8621a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112903225806452	"WGS"	FALSE
"14113"	"AC006547.13"	0	"mskcc.org"	"GRCh37"	"22"	20062553	20062553	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"rs371517238"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000601746"	""	58	"52"	6	32	"32"	0	"AC006547.13,upstream_gene_variant,,ENST00000601746,;AC006547.13,upstream_gene_variant,,ENST00000600617,;AC006547.13,upstream_gene_variant,,ENST00000609191,;AC006547.13,upstream_gene_variant,,ENST00000598339,;AC006547.13,upstream_gene_variant,,ENST00000596334,;AC006547.13,upstream_gene_variant,,ENST00000595864,;"	"G"	"ENSG00000236540"	"ENST00000601746"	"Transcript"	"upstream_gene_variant"	"-/930"	""	""	""	""	"rs371517238"	"1"	"4530"	-1	"AC006547.13"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"23d862d8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"14114"	"FAM230A"	101927859	"mskcc.org"	"GRCh37"	"22"	20711241	20711241	"+"	"3'UTR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*255G>C"	""	""	"ENST00000434783"	"8/8"	54	"48"	6	32	"32"	0	"FAM230A,3_prime_UTR_variant,,ENST00000434783,;USP41,intron_variant,,ENST00000454608,;FAM230A,downstream_gene_variant,,ENST00000583722,;USP41,intron_variant,,ENST00000486536,;"	"C"	"ENSG00000188280"	"ENST00000434783"	"Transcript"	"3_prime_UTR_variant"	"3157/8854"	"-/2718"	"-/905"	""	""	""	"1"	NA	1	"FAM230A"	"HGNC"	45045	"protein_coding"	"YES"	""	"ENSP00000463576"	""	"J3QLJ4"	"UPI000268B488"	""	""	""	"8/8"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"23d8b922-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"14115"	"FAM230A"	101927859	"mskcc.org"	"GRCh37"	"22"	20713486	20713486	"+"	"3'UTR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*2500C>G"	""	""	"ENST00000434783"	"8/8"	39	"34"	5	17	"17"	0	"FAM230A,3_prime_UTR_variant,,ENST00000434783,;USP41,intron_variant,,ENST00000454608,;USP41,downstream_gene_variant,,ENST00000292729,;USP41,intron_variant,,ENST00000486536,;USP41,downstream_gene_variant,,ENST00000470202,;"	"G"	"ENSG00000188280"	"ENST00000434783"	"Transcript"	"3_prime_UTR_variant"	"5402/8854"	"-/2718"	"-/905"	""	""	""	"1"	NA	1	"FAM230A"	"HGNC"	45045	"protein_coding"	"YES"	""	"ENSP00000463576"	""	"J3QLJ4"	"UPI000268B488"	""	""	""	"8/8"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"23d8cc96-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128205128205128	"WGS"	FALSE
"14116"	"FAM230A"	101927859	"mskcc.org"	"GRCh37"	"22"	20713936	20713936	"+"	"3'UTR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*2950T>C"	""	""	"ENST00000434783"	"8/8"	18	"13"	5	9	"9"	0	"FAM230A,3_prime_UTR_variant,,ENST00000434783,;USP41,intron_variant,,ENST00000454608,;USP41,downstream_gene_variant,,ENST00000292729,;USP41,intron_variant,,ENST00000486536,;USP41,downstream_gene_variant,,ENST00000470202,;"	"C"	"ENSG00000188280"	"ENST00000434783"	"Transcript"	"3_prime_UTR_variant"	"5852/8854"	"-/2718"	"-/905"	""	""	""	"1"	NA	1	"FAM230A"	"HGNC"	45045	"protein_coding"	"YES"	""	"ENSP00000463576"	""	"J3QLJ4"	"UPI000268B488"	""	""	""	"8/8"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"23d8cdea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"14117"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	21440890	21440890	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"69"	10	36	"36"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"23d93668-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126582278481013	"WGS"	FALSE
"14118"	"CABIN1"	23523	"mskcc.org"	"GRCh37"	"22"	24461463	24461463	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2037+813T>C"	""	""	"ENST00000398319"	""	34	"30"	4	15	"15"	0	"CABIN1,intron_variant,,ENST00000398319,NM_001199281.1;CABIN1,intron_variant,,ENST00000263119,NM_012295.3,NM_001201429.1;CABIN1,intron_variant,,ENST00000405822,;CABIN1,upstream_gene_variant,,ENST00000484593,;"	"C"	"ENSG00000099991"	"ENST00000398319"	"Transcript"	"intron_variant"	"-/7480"	"-/6663"	"-/2220"	""	""	""	"1"	NA	1	"CABIN1"	"HGNC"	24187	"protein_coding"	"YES"	"CCDS13823.1"	"ENSP00000381364"	"Q9Y6J0"	""	"UPI0000126D6C"	"NM_001199281.1"	""	""	""	"15/36"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"23da8b80-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"14119"	"PIWIL3"	440822	"mskcc.org"	"GRCh37"	"22"	25158886	25158886	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-22-398T>C"	""	""	"ENST00000332271"	""	83	"53"	30	38	"38"	0	"PIWIL3,intron_variant,,ENST00000332271,NM_001255975.1,NM_001008496.3;PIWIL3,intron_variant,,ENST00000533313,;PIWIL3,intron_variant,,ENST00000527701,;PIWIL3,intron_variant,,ENST00000532537,;"	"G"	"ENSG00000184571"	"ENST00000332271"	"Transcript"	"intron_variant"	"-/3504"	"-/2649"	"-/882"	""	""	""	"1"	NA	-1	"PIWIL3"	"HGNC"	18443	"protein_coding"	"YES"	"CCDS33623.1"	"ENSP00000330031"	"Q7Z3Z3"	""	"UPI00002073D6"	"NM_001255975.1,NM_001008496.3"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"23daea1c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36144578313253	"WGS"	FALSE
"14120"	"KIAA1671"	85379	"mskcc.org"	"GRCh37"	"22"	25396423	25396423	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs113553040"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-344-13974G>A"	""	""	"ENST00000406486"	""	29	"24"	5	19	"19"	0	"KIAA1671,intron_variant,,ENST00000406486,;"	"A"	"ENSG00000197077"	"ENST00000406486"	"Transcript"	"intron_variant"	"-/7864"	"-/5421"	"-/1806"	""	""	"rs113553040"	"1"	NA	1	"KIAA1671"	"HGNC"	29345	"protein_coding"	""	"CCDS46676.1"	"ENSP00000385152"	"Q9BY89"	""	"UPI00002073DC"	""	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"23db0948-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WGS"	FALSE
"14121"	"KIAA1671"	85379	"mskcc.org"	"GRCh37"	"22"	25396439	25396439	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs113950137"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-344-13958C>T"	""	""	"ENST00000406486"	""	34	"30"	4	17	"17"	0	"KIAA1671,intron_variant,,ENST00000406486,;"	"T"	"ENSG00000197077"	"ENST00000406486"	"Transcript"	"intron_variant"	"-/7864"	"-/5421"	"-/1806"	""	""	"rs113950137"	"1"	NA	1	"KIAA1671"	"HGNC"	29345	"protein_coding"	""	"CCDS46676.1"	"ENSP00000385152"	"Q9BY89"	""	"UPI00002073DC"	""	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"23db09f2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"14122"	"KIAA1671"	85379	"mskcc.org"	"GRCh37"	"22"	25396449	25396449	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs185402268"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-344-13948C>T"	""	""	"ENST00000406486"	""	34	"30"	4	18	"18"	0	"KIAA1671,intron_variant,,ENST00000406486,;"	"T"	"ENSG00000197077"	"ENST00000406486"	"Transcript"	"intron_variant"	"-/7864"	"-/5421"	"-/1806"	""	""	"rs185402268"	"1"	NA	1	"KIAA1671"	"HGNC"	29345	"protein_coding"	""	"CCDS46676.1"	"ENSP00000385152"	"Q9BY89"	""	"UPI00002073DC"	""	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"23db0aa6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"14123"	"KIAA1671"	85379	"mskcc.org"	"GRCh37"	"22"	25396452	25396452	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"rs189999577"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-344-13945G>T"	""	""	"ENST00000406486"	""	33	"29"	4	17	"17"	0	"KIAA1671,intron_variant,,ENST00000406486,;"	"T"	"ENSG00000197077"	"ENST00000406486"	"Transcript"	"intron_variant"	"-/7864"	"-/5421"	"-/1806"	""	""	"rs189999577"	"1"	NA	1	"KIAA1671"	"HGNC"	29345	"protein_coding"	""	"CCDS46676.1"	"ENSP00000385152"	"Q9BY89"	""	"UPI00002073DC"	""	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"23db0b5a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"14124"	"CHEK2"	11200	"mskcc.org"	"GRCh37"	"22"	29097390	29097390	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.909-1465C>G"	""	""	"ENST00000328354"	""	62	"57"	5	42	"42"	0	"CHEK2,intron_variant,,ENST00000544772,NM_001257387.1;CHEK2,intron_variant,,ENST00000382580,NM_001005735.1;CHEK2,intron_variant,,ENST00000405598,;CHEK2,intron_variant,,ENST00000328354,NM_007194.3;CHEK2,intron_variant,,ENST00000382566,;CHEK2,intron_variant,,ENST00000404276,;CHEK2,intron_variant,,ENST00000348295,NM_145862.2;CHEK2,intron_variant,,ENST00000382578,;CHEK2,intron_variant,,ENST00000402731,;CHEK2,intron_variant,,ENST00000403642,;CHEK2,intron_variant,,ENST00000434810,;CHEK2,intron_variant,,ENST00000447421,;CHEK2,intron_variant,,ENST00000425190,;CHEK2,intron_variant,,ENST00000382565,;CHEK2,intron_variant,,ENST00000456369,;CHEK2,intron_variant,,ENST00000464581,;CHEK2,intron_variant,,ENST00000416671,;CHEK2,intron_variant,,ENST00000433728,;CHEK2,intron_variant,,ENST00000417588,;CHEK2,intron_variant,,ENST00000448511,;CHEK2,intron_variant,,ENST00000433028,;CHEK2,intron_variant,,ENST00000491919,;CHEK2,intron_variant,,ENST00000439346,;"	"C"	"ENSG00000183765"	"ENST00000328354"	"Transcript"	"intron_variant"	"-/1867"	"-/1632"	"-/543"	""	""	""	"1"	NA	-1	"CHEK2"	"HGNC"	16627	"protein_coding"	""	"CCDS13843.1"	"ENSP00000329178"	"O96017"	"B7ZBF2"	"UPI00000316FF"	"NM_007194.3"	""	""	""	"8/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"23dbe4bc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WGS"	TRUE
"14125"	"KREMEN1"	83999	"mskcc.org"	"GRCh37"	"22"	29473269	29473269	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.97+4054A>C"	""	""	"ENST00000327813"	""	77	"49"	28	49	"49"	0	"KREMEN1,intron_variant,,ENST00000400338,;KREMEN1,intron_variant,,ENST00000400335,NM_001039570.2;KREMEN1,intron_variant,,ENST00000327813,NM_032045.4;KREMEN1,intron_variant,,ENST00000407188,;"	"C"	"ENSG00000183762"	"ENST00000327813"	"Transcript"	"intron_variant"	"-/2719"	"-/1479"	"-/492"	""	""	""	"1"	NA	1	"KREMEN1"	"HGNC"	17550	"protein_coding"	"YES"	"CCDS13849.1"	"ENSP00000331242"	"Q96MU8"	""	"UPI000002AD01"	"NM_032045.4"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"23dc08ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"14126"	"EIF4ENIF1"	56478	"mskcc.org"	"GRCh37"	"22"	31881804	31881804	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.96+2805A>T"	""	""	"ENST00000397525"	""	77	"71"	6	44	"44"	0	"EIF4ENIF1,intron_variant,,ENST00000397525,NM_001164501.1;EIF4ENIF1,intron_variant,,ENST00000330125,NM_019843.3;EIF4ENIF1,intron_variant,,ENST00000397523,;EIF4ENIF1,intron_variant,,ENST00000344710,NM_001164502.1;EIF4ENIF1,intron_variant,,ENST00000423097,;EIF4ENIF1,intron_variant,,ENST00000397520,;EIF4ENIF1,intron_variant,,ENST00000397518,;SFI1,upstream_gene_variant,,ENST00000465646,;DRG1,intron_variant,,ENST00000548143,;"	"A"	"ENSG00000184708"	"ENST00000397525"	"Transcript"	"intron_variant"	"-/3695"	"-/2958"	"-/985"	""	""	""	"1"	NA	-1	"EIF4ENIF1"	"HGNC"	16687	"protein_coding"	"YES"	"CCDS13898.1"	"ENSP00000380659"	"Q9NRA8"	"B1AKL6,B1AKL5"	"UPI0000124F14"	"NM_001164501.1"	""	""	""	"2/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"23dcea24-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"14127"	"PISD"	23761	"mskcc.org"	"GRCh37"	"22"	32048790	32048790	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.66-2026A>G"	""	""	"ENST00000439502"	""	76	"69"	7	37	"37"	0	"PISD,intron_variant,,ENST00000439502,;PISD,intron_variant,,ENST00000336566,;PISD,intron_variant,,ENST00000435900,;PISD,intron_variant,,ENST00000460723,;PISD,intron_variant,,ENST00000437808,;PISD,intron_variant,,ENST00000474017,;"	"C"	"ENSG00000241878"	"ENST00000439502"	"Transcript"	"intron_variant"	"-/1963"	"-/1230"	"-/409"	""	""	""	"1"	NA	-1	"PISD"	"HGNC"	8999	"protein_coding"	""	""	"ENSP00000391739"	"Q9UG56"	""	"UPI0000207594"	""	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"23dcfc94-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"14128"	"PRR14L"	253143	"mskcc.org"	"GRCh37"	"22"	32141750	32141750	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-52+4229A>T"	""	""	"ENST00000327423"	""	92	"86"	6	47	"47"	0	"PRR14L,intron_variant,,ENST00000327423,NM_173566.2;PRR14L,intron_variant,,ENST00000434485,;PRR14L,intron_variant,,ENST00000397493,;PRR14L,intron_variant,,ENST00000412743,;PRR14L,intron_variant,,ENST00000461722,;"	"A"	"ENSG00000183530"	"ENST00000327423"	"Transcript"	"intron_variant"	"-/10826"	"-/6456"	"-/2151"	""	""	""	"1"	NA	-1	"PRR14L"	"HGNC"	28738	"protein_coding"	"YES"	"CCDS13900.2"	"ENSP00000331845"	"Q5THK1"	"C9J9V0"	"UPI0000207582"	"NM_173566.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"23dd0608-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"14129"	"AP1B1P1"	23782	"mskcc.org"	"GRCh37"	"22"	32530743	32530743	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000432373"	""	92	"85"	7	49	"49"	0	"AP1B1P1,downstream_gene_variant,,ENST00000432373,;RP1-127L4.10,downstream_gene_variant,,ENST00000423412,;AP1B1P1,downstream_gene_variant,,ENST00000448124,;AP1B1P2,downstream_gene_variant,,ENST00000416196,;"	"G"	"ENSG00000234479"	"ENST00000432373"	"Transcript"	"downstream_gene_variant"	"-/827"	""	""	""	""	""	"1"	"1287"	1	"AP1B1P1"	"HGNC"	297	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"23dd21d8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"14130"	"AP1B1P1"	23782	"mskcc.org"	"GRCh37"	"22"	32530751	32530751	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000432373"	""	92	"84"	8	50	"50"	0	"AP1B1P1,downstream_gene_variant,,ENST00000432373,;RP1-127L4.10,downstream_gene_variant,,ENST00000423412,;AP1B1P1,downstream_gene_variant,,ENST00000448124,;AP1B1P2,downstream_gene_variant,,ENST00000416196,;"	"C"	"ENSG00000234479"	"ENST00000432373"	"Transcript"	"downstream_gene_variant"	"-/827"	""	""	""	""	""	"1"	"1295"	1	"AP1B1P1"	"HGNC"	297	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"23dd2296-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"14131"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	34956964	34956964	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"57"	6	37	"37"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"23dd9424-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"14132"	"APOL5"	80831	"mskcc.org"	"GRCh37"	"22"	36113182	36113182	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000249044"	""	69	"60"	9	40	"40"	0	"APOL5,upstream_gene_variant,,ENST00000249044,NM_030642.1;"	"C"	"ENSG00000128313"	"ENST00000249044"	"Transcript"	"upstream_gene_variant"	"-/1438"	"-/1302"	"-/433"	""	""	""	"1"	"737"	1	"APOL5"	"HGNC"	14869	"protein_coding"	"YES"	"CCDS13920.1"	"ENSP00000249044"	"Q9BWW9"	""	"UPI0000125C99"	"NM_030642.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"23ddefaa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"14133"	"APOL5"	80831	"mskcc.org"	"GRCh37"	"22"	36113192	36113192	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000249044"	""	68	"61"	7	41	"41"	0	"APOL5,upstream_gene_variant,,ENST00000249044,NM_030642.1;"	"A"	"ENSG00000128313"	"ENST00000249044"	"Transcript"	"upstream_gene_variant"	"-/1438"	"-/1302"	"-/433"	""	""	""	"1"	"727"	1	"APOL5"	"HGNC"	14869	"protein_coding"	"YES"	"CCDS13920.1"	"ENSP00000249044"	"Q9BWW9"	""	"UPI0000125C99"	"NM_030642.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"23ddf05e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102941176470588	"WGS"	FALSE
"14134"	"RBFOX2"	23543	"mskcc.org"	"GRCh37"	"22"	36428079	36428079	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000438146"	""	74	"45"	29	43	"43"	0	"RBFOX2,upstream_gene_variant,,ENST00000438146,NM_001082578.1,NM_001082579.1;"	"A"	"ENSG00000100320"	"ENST00000438146"	"Transcript"	"upstream_gene_variant"	"-/1356"	"-/1356"	"-/451"	""	""	""	"1"	"3606"	-1	"RBFOX2"	"HGNC"	9906	"protein_coding"	"YES"	"CCDS43013.1"	"ENSP00000413035"	"O43251"	""	"UPI00015DF7D4"	"NM_001082578.1,NM_001082579.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"23de0198-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.391891891891892	"WGS"	FALSE
"14135"	"MYH9"	4627	"mskcc.org"	"GRCh37"	"22"	36781288	36781288	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-20+2564T>A"	""	""	"ENST00000216181"	""	76	"39"	37	53	"52"	1	"MYH9,intron_variant,,ENST00000216181,NM_002473.4;RP4-633O19__A.1,upstream_gene_variant,,ENST00000424761,;"	"T"	"ENSG00000100345"	"ENST00000216181"	"Transcript"	"intron_variant"	"-/7501"	"-/5883"	"-/1960"	""	""	""	"1"	NA	-1	"MYH9"	"HGNC"	7579	"protein_coding"	"YES"	"CCDS13927.1"	"ENSP00000216181"	"P35579"	"Q9UMJ0,B1AH99"	"UPI000012FB80"	"NM_002473.4"	""	""	""	"1/40"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"23de1264-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.486842105263158	"WGS"	TRUE
"14136"	"RP1-63G5.5"	101927035	"mskcc.org"	"GRCh37"	"22"	37735797	37735797	"+"	"RNA"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1797C>T"	""	""	"ENST00000430883"	"3/3"	90	"67"	23	53	"53"	0	"RP1-63G5.5,non_coding_transcript_exon_variant,,ENST00000430883,;RP1-63G5.5,downstream_gene_variant,,ENST00000452946,;"	"A"	"ENSG00000243902"	"ENST00000430883"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1797/1970"	""	""	""	""	""	"1"	NA	-1	"RP1-63G5.5"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"23de64c6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255555555555556	"WGS"	FALSE
"14137"	"RP1-63G5.7"	100506271	"mskcc.org"	"GRCh37"	"22"	37745495	37745495	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000445088"	""	99	"65"	34	57	"57"	0	"RP1-63G5.7,downstream_gene_variant,,ENST00000445088,;RP1-63G5.5,intron_variant,,ENST00000430883,;RP1-63G5.5,intron_variant,,ENST00000452946,;"	"A"	"ENSG00000237862"	"ENST00000445088"	"Transcript"	"downstream_gene_variant"	"-/1965"	""	""	""	""	""	"1"	"2735"	-1	"RP1-63G5.7"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"23de661a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.343434343434343	"WGS"	FALSE
"14138"	"TRIOBP"	11078	"mskcc.org"	"GRCh37"	"22"	38104189	38104189	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.115-2245C>G"	""	""	"ENST00000406386"	""	68	"60"	8	36	"36"	0	"TRIOBP,intron_variant,,ENST00000406386,NM_001039141.2;NOL12,intron_variant,,ENST00000455236,;TRIOBP,intron_variant,,ENST00000344404,;TRIOBP,intron_variant,,ENST00000492485,;"	"G"	"ENSG00000100106"	"ENST00000406386"	"Transcript"	"intron_variant"	"-/10129"	"-/7098"	"-/2365"	""	""	""	"1"	NA	1	"TRIOBP"	"HGNC"	17009	"protein_coding"	"YES"	"CCDS43015.1"	"ENSP00000384312"	"Q9H2D6"	"F6WYE2,F6WMF4"	"UPI000067CB88"	"NM_001039141.2"	""	""	""	"3/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"23dea03a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"14139"	"TRIOBP"	11078	"mskcc.org"	"GRCh37"	"22"	38170575	38170575	"+"	"3'UTR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*788T>A"	""	""	"ENST00000406386"	"24/24"	90	"53"	37	59	"59"	0	"TRIOBP,3_prime_UTR_variant,,ENST00000406386,NM_001039141.2;TRIOBP,downstream_gene_variant,,ENST00000403663,NM_007032.5;NOL12,downstream_gene_variant,,ENST00000455236,;TRIOBP,downstream_gene_variant,,ENST00000344404,;"	"A"	"ENSG00000100106"	"ENST00000406386"	"Transcript"	"3_prime_UTR_variant"	"8141/10129"	"-/7098"	"-/2365"	""	""	""	"1"	NA	1	"TRIOBP"	"HGNC"	17009	"protein_coding"	"YES"	"CCDS43015.1"	"ENSP00000384312"	"Q9H2D6"	"F6WYE2,F6WMF4"	"UPI000067CB88"	"NM_001039141.2"	""	""	"24/24"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"23deab3e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411111111111111	"WGS"	FALSE
"14140"	"ENSR00000618386"	0	"mskcc.org"	"GRCh37"	"22"	39698636	39698636	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000618386"	""	74	"55"	19	52	"52"	0	""	"A"	""	"ENSR00000618386"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"23df611e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256756756756757	"WGS"	FALSE
"14141"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	40109747	40109747	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"58"	24	40	"40"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"23df8806-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292682926829268	"WGS"	FALSE
"14142"	"MKL1"	57591	"mskcc.org"	"GRCh37"	"22"	40903945	40903945	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-60+44165T>G"	""	""	"ENST00000355630"	""	59	"53"	6	32	"32"	0	"MKL1,intron_variant,,ENST00000396617,NM_001282662.1;MKL1,intron_variant,,ENST00000355630,NM_020831.3;MKL1,intron_variant,,ENST00000402042,NM_001282661.1;MKL1,intron_variant,,ENST00000422851,;MKL1,intron_variant,,ENST00000463769,;"	"C"	"ENSG00000196588"	"ENST00000355630"	"Transcript"	"intron_variant"	"-/4496"	"-/2796"	"-/931"	""	""	""	"1"	NA	-1	"MKL1"	"HGNC"	14334	"protein_coding"	"YES"	"CCDS14003.1"	"ENSP00000347847"	"Q969V6"	"Q29R68"	"UPI000007311D"	"NM_020831.3"	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAA"	"23dfc212-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101694915254237	"WGS"	TRUE
"14143"	"ZC3H7B"	23264	"mskcc.org"	"GRCh37"	"22"	41710717	41710717	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-6-5942G>A"	""	""	"ENST00000352645"	""	57	"52"	5	31	"31"	0	"ZC3H7B,intron_variant,,ENST00000352645,NM_017590.5;ZC3H7B,intron_variant,,ENST00000486331,;"	"A"	"ENSG00000100403"	"ENST00000352645"	"Transcript"	"intron_variant"	"-/5909"	"-/2934"	"-/977"	""	""	""	"1"	NA	1	"ZC3H7B"	"HGNC"	30869	"protein_coding"	"YES"	"CCDS14013.1"	"ENSP00000345793"	"Q9UGR2"	""	"UPI000002B2AD"	"NM_017590.5"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"23e027a2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087719298245614	"WGS"	FALSE
"14144"	"ZC3H7B"	23264	"mskcc.org"	"GRCh37"	"22"	41737563	41737563	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1197+413C>T"	""	""	"ENST00000352645"	""	77	"70"	7	38	"38"	0	"ZC3H7B,intron_variant,,ENST00000352645,NM_017590.5;ZC3H7B,intron_variant,,ENST00000351589,;ZC3H7B,downstream_gene_variant,,ENST00000486331,;"	"T"	"ENSG00000100403"	"ENST00000352645"	"Transcript"	"intron_variant"	"-/5909"	"-/2934"	"-/977"	""	""	""	"1"	NA	1	"ZC3H7B"	"HGNC"	30869	"protein_coding"	"YES"	"CCDS14013.1"	"ENSP00000345793"	"Q9UGR2"	""	"UPI000002B2AD"	"NM_017590.5"	""	""	""	"11/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"23e02f40-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"14145"	"ZC3H7B"	23264	"mskcc.org"	"GRCh37"	"22"	41737569	41737569	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1197+419A>T"	""	""	"ENST00000352645"	""	77	"65"	12	36	"36"	0	"ZC3H7B,intron_variant,,ENST00000352645,NM_017590.5;ZC3H7B,intron_variant,,ENST00000351589,;ZC3H7B,downstream_gene_variant,,ENST00000486331,;"	"T"	"ENSG00000100403"	"ENST00000352645"	"Transcript"	"intron_variant"	"-/5909"	"-/2934"	"-/977"	""	""	""	"1"	NA	1	"ZC3H7B"	"HGNC"	30869	"protein_coding"	"YES"	"CCDS14013.1"	"ENSP00000345793"	"Q9UGR2"	""	"UPI000002B2AD"	"NM_017590.5"	""	""	""	"11/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"23e0309e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155844155844156	"WGS"	FALSE
"14146"	"MEI1"	150365	"mskcc.org"	"GRCh37"	"22"	42117938	42117938	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.734-2009T>C"	""	""	"ENST00000401548"	""	87	"79"	8	34	"34"	0	"MEI1,intron_variant,,ENST00000401548,NM_152513.3;MEI1,intron_variant,,ENST00000400107,;MEI1,intron_variant,,ENST00000300398,;MEI1,intron_variant,,ENST00000540833,;RNU6ATAC22P,downstream_gene_variant,,ENST00000516794,;"	"C"	"ENSG00000167077"	"ENST00000401548"	"Transcript"	"intron_variant"	"-/4020"	"-/3825"	"-/1274"	""	""	""	"1"	NA	1	"MEI1"	"HGNC"	28613	"protein_coding"	"YES"	"CCDS46718.1"	"ENSP00000384115"	"Q5TIA1"	""	"UPI00006E232C"	"NM_152513.3"	""	""	""	"6/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"23e068ca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"14147"	"MEI1"	150365	"mskcc.org"	"GRCh37"	"22"	42117942	42117942	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.734-2005G>C"	""	""	"ENST00000401548"	""	86	"80"	6	32	"32"	0	"MEI1,intron_variant,,ENST00000401548,NM_152513.3;MEI1,intron_variant,,ENST00000400107,;MEI1,intron_variant,,ENST00000300398,;MEI1,intron_variant,,ENST00000540833,;RNU6ATAC22P,downstream_gene_variant,,ENST00000516794,;"	"C"	"ENSG00000167077"	"ENST00000401548"	"Transcript"	"intron_variant"	"-/4020"	"-/3825"	"-/1274"	""	""	""	"1"	NA	1	"MEI1"	"HGNC"	28613	"protein_coding"	"YES"	"CCDS46718.1"	"ENSP00000384115"	"Q5TIA1"	""	"UPI00006E232C"	"NM_152513.3"	""	""	""	"6/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"23e0697e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"14148"	"SREBF2"	6721	"mskcc.org"	"GRCh37"	"22"	42260022	42260022	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.89-2813G>T"	""	""	"ENST00000361204"	""	76	"69"	7	39	"39"	0	"SREBF2,intron_variant,,ENST00000361204,NM_004599.3;SREBF2,intron_variant,,ENST00000424354,;"	"T"	"ENSG00000198911"	"ENST00000361204"	"Transcript"	"intron_variant"	"-/5240"	"-/3426"	"-/1141"	""	""	""	"1"	NA	1	"SREBF2"	"HGNC"	11290	"protein_coding"	"YES"	"CCDS14023.1"	"ENSP00000354476"	"Q12772"	"Q8NCY3"	"UPI00001678D0"	"NM_004599.3"	""	""	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"23e0743c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"14149"	"SREBF2"	6721	"mskcc.org"	"GRCh37"	"22"	42260034	42260034	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.89-2801A>G"	""	""	"ENST00000361204"	""	75	"68"	7	41	"41"	0	"SREBF2,intron_variant,,ENST00000361204,NM_004599.3;SREBF2,intron_variant,,ENST00000424354,;"	"G"	"ENSG00000198911"	"ENST00000361204"	"Transcript"	"intron_variant"	"-/5240"	"-/3426"	"-/1141"	""	""	""	"1"	NA	1	"SREBF2"	"HGNC"	11290	"protein_coding"	"YES"	"CCDS14023.1"	"ENSP00000354476"	"Q12772"	"Q8NCY3"	"UPI00001678D0"	"NM_004599.3"	""	""	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"23e0759a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0933333333333333	"WGS"	FALSE
"14150"	"SREBF2"	6721	"mskcc.org"	"GRCh37"	"22"	42260045	42260045	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.89-2790T>C"	""	""	"ENST00000361204"	""	68	"62"	6	44	"44"	0	"SREBF2,intron_variant,,ENST00000361204,NM_004599.3;SREBF2,intron_variant,,ENST00000424354,;"	"C"	"ENSG00000198911"	"ENST00000361204"	"Transcript"	"intron_variant"	"-/5240"	"-/3426"	"-/1141"	""	""	""	"1"	NA	1	"SREBF2"	"HGNC"	11290	"protein_coding"	"YES"	"CCDS14023.1"	"ENSP00000354476"	"Q12772"	"Q8NCY3"	"UPI00001678D0"	"NM_004599.3"	""	""	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"23e0764e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"14151"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	42884578	42884578	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"80"	5	36	"36"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"23e0c3f6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"14152"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	42884610	42884610	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"80"	6	39	"39"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"23e0c4aa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"14153"	"TTLL1"	25809	"mskcc.org"	"GRCh37"	"22"	43473942	43473942	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-5+1966T>C"	""	""	"ENST00000266254"	""	85	"78"	7	38	"38"	0	"TTLL1,intron_variant,,ENST00000331018,;TTLL1,intron_variant,,ENST00000266254,NM_012263.4;TTLL1,intron_variant,,ENST00000445824,;TTLL1,intron_variant,,ENST00000440761,;TTLL1,intron_variant,,ENST00000439248,;"	"G"	"ENSG00000100271"	"ENST00000266254"	"Transcript"	"intron_variant"	"-/1645"	"-/1272"	"-/423"	""	""	""	"1"	NA	-1	"TTLL1"	"HGNC"	1312	"protein_coding"	"YES"	"CCDS14043.1"	"ENSP00000266254"	"O95922"	""	"UPI00001377A7"	"NM_012263.4"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"23e11ac2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0823529411764706	"WGS"	FALSE
"14154"	"RP1-102D24.5"	0	"mskcc.org"	"GRCh37"	"22"	45843234	45843234	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.373+1018A>G"	""	""	"ENST00000454439"	""	63	"57"	6	33	"33"	0	"RP1-102D24.5,intron_variant,,ENST00000454439,;"	"C"	"ENSG00000232363"	"ENST00000454439"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/545"	""	""	""	""	""	"1"	NA	-1	"RP1-102D24.5"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"23e24c12-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"14155"	"CELSR1"	9620	"mskcc.org"	"GRCh37"	"22"	46799683	46799683	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5227-3884A>T"	""	""	"ENST00000262738"	""	59	"51"	8	25	"25"	0	"CELSR1,intron_variant,,ENST00000262738,NM_014246.1;"	"A"	"ENSG00000075275"	"ENST00000262738"	"Transcript"	"intron_variant"	"-/11389"	"-/9045"	"-/3014"	""	""	""	"1"	NA	-1	"CELSR1"	"HGNC"	1850	"protein_coding"	"YES"	"CCDS14076.1"	"ENSP00000262738"	"Q9NYQ6"	"Q8NDT0"	"UPI0000040648"	"NM_014246.1"	""	""	""	"9/34"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"23e28fba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135593220338983	"WGS"	FALSE
"14156"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	47996573	47996573	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	23	"19"	4	8	"8"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"23e34f9a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"14157"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	48583285	48583285	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"57"	27	45	"45"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"23e37678-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.321428571428571	"WGS"	FALSE
"14158"	"ALG12"	79087	"mskcc.org"	"GRCh37"	"22"	50296486	50296486	"+"	"3'UTR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1000T>G"	""	""	"ENST00000330817"	"10/10"	21	"15"	6	7	"7"	0	"ALG12,3_prime_UTR_variant,,ENST00000330817,NM_024105.3;ALG12,downstream_gene_variant,,ENST00000486602,;CITF22-1A6.3,non_coding_transcript_exon_variant,,ENST00000610245,;ALG12,downstream_gene_variant,,ENST00000492791,;"	"C"	"ENSG00000182858"	"ENST00000330817"	"Transcript"	"3_prime_UTR_variant"	"2741/5350"	"-/1467"	"-/488"	""	""	""	"1"	NA	-1	"ALG12"	"HGNC"	19358	"protein_coding"	"YES"	"CCDS14081.1"	"ENSP00000333813"	"Q9BV10"	""	"UPI000006D8F9"	"NM_024105.3"	""	""	"10/10"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"23e45688-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"14159"	"CPT1B"	1375	"mskcc.org"	"GRCh37"	"22"	51005445	51005445	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000360719"	""	76	"69"	7	40	"40"	0	"CPT1B,downstream_gene_variant,,ENST00000360719,NM_001145135.1,NM_152245.2;CPT1B,downstream_gene_variant,,ENST00000434492,;CPT1B,downstream_gene_variant,,ENST00000395650,NM_004377.3;CPT1B,downstream_gene_variant,,ENST00000405237,NM_001145137.1;CPT1B,downstream_gene_variant,,ENST00000312108,NM_152246.2;CPT1B,downstream_gene_variant,,ENST00000457250,NM_001145134.1;CPT1B,downstream_gene_variant,,ENST00000440709,NM_001145136.1;SYCE3,upstream_gene_variant,,ENST00000406915,NM_001123225.1;CHKB-CPT1B,downstream_gene_variant,,ENST00000492556,;CHKB-CPT1B,downstream_gene_variant,,ENST00000453634,;CPT1B,downstream_gene_variant,,ENST00000497224,;CPT1B,downstream_gene_variant,,ENST00000475238,;"	"G"	"ENSG00000205560"	"ENST00000360719"	"Transcript"	"downstream_gene_variant"	"-/2933"	"-/2319"	"-/772"	""	""	""	"1"	"1846"	-1	"CPT1B"	"HGNC"	2329	"protein_coding"	"YES"	"CCDS14098.1"	"ENSP00000353945"	"Q92523"	"C9J7C3"	"UPI0000128314"	"NM_001145135.1,NM_152245.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"23e4fb42-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"14160"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"22"	51106317	51106317	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000391267"	""	71	"64"	7	32	"32"	0	"Y_RNA,upstream_gene_variant,,ENST00000391267,;"	"C"	"ENSG00000212569"	"ENST00000391267"	"Transcript"	"upstream_gene_variant"	"-/98"	""	""	""	""	""	"1"	"1915"	1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"23e5142e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0985915492957746	"WGS"	FALSE
"14161"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	1584916	1584916	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"58"	38	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"23e5cd74-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.395833333333333	"WGS"	FALSE
"14162"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	3674420	3674420	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"51"	35	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"23e613e2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.406976744186047	"WGS"	FALSE
"14163"	"SUMF1"	285362	"mskcc.org"	"GRCh37"	"3"	4035165	4035165	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1191+75088T>G"	""	""	"ENST00000534863"	""	89	"58"	31	39	"39"	0	"SUMF1,intron_variant,,ENST00000534863,;SUMF1,intron_variant,,ENST00000448413,;"	"C"	"ENSG00000144455"	"ENST00000534863"	"Transcript"	"intron_variant"	"-/1281"	"-/1281"	"-/426"	""	""	""	"1"	NA	-1	"SUMF1"	"HGNC"	20376	"protein_coding"	""	""	"ENSP00000440421"	""	"F5GXA0"	"UPI0000D61AB6"	""	""	""	""	"9/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"23e62c92-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.348314606741573	"WGS"	FALSE
"14164"	"SUMF1"	285362	"mskcc.org"	"GRCh37"	"3"	4203413	4203413	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1015-92984T>G"	""	""	"ENST00000534863"	""	84	"59"	25	52	"52"	0	"SUMF1,intron_variant,,ENST00000534863,;SUMF1,intron_variant,,ENST00000448413,;"	"C"	"ENSG00000144455"	"ENST00000534863"	"Transcript"	"intron_variant"	"-/1281"	"-/1281"	"-/426"	""	""	""	"1"	NA	-1	"SUMF1"	"HGNC"	20376	"protein_coding"	""	""	"ENSP00000440421"	""	"F5GXA0"	"UPI0000D61AB6"	""	""	""	""	"8/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAA"	"23e62dfa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297619047619048	"WGS"	FALSE
"14165"	"ARL8B"	55207	"mskcc.org"	"GRCh37"	"3"	5177269	5177269	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.123+12996A>G"	""	""	"ENST00000256496"	""	90	"82"	8	47	"47"	0	"ARL8B,intron_variant,,ENST00000256496,NM_018184.2;ARL8B,intron_variant,,ENST00000419534,;ARL8B,intron_variant,,ENST00000455168,;ARL8B,intron_variant,,ENST00000444332,;ARL8B,intron_variant,,ENST00000429403,;"	"G"	"ENSG00000134108"	"ENST00000256496"	"Transcript"	"intron_variant"	"-/3005"	"-/561"	"-/186"	""	""	""	"1"	NA	1	"ARL8B"	"HGNC"	25564	"protein_coding"	"YES"	"CCDS2566.1"	"ENSP00000256496"	"Q9NVJ2"	"B4E1J8,B4DQT8"	"UPI00000233C0"	"NM_018184.2"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"23e6677a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"14166"	"SSUH2"	51066	"mskcc.org"	"GRCh37"	"3"	8720755	8720755	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-901+636G>C"	""	""	"ENST00000317371"	""	27	"23"	4	18	"18"	0	"SSUH2,intron_variant,,ENST00000317371,;SSUH2,intron_variant,,ENST00000470009,;SSUH2,upstream_gene_variant,,ENST00000464494,;SSUH2,upstream_gene_variant,,ENST00000466215,;SSUH2,intron_variant,,ENST00000435138,;SSUH2,upstream_gene_variant,,ENST00000455157,;"	"G"	"ENSG00000125046"	"ENST00000317371"	"Transcript"	"intron_variant"	"-/2561"	"-/1062"	"-/353"	""	""	""	"1"	NA	-1	"SSUH2"	"HGNC"	24809	"protein_coding"	""	"CCDS2568.1"	"ENSP00000324551"	"Q9Y2M2"	""	"UPI000006F08D"	""	""	""	""	"2/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"23e6e92a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"14167"	"SRGAP3"	9901	"mskcc.org"	"GRCh37"	"3"	9129092	9129092	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.424-7321A>G"	""	""	"ENST00000383836"	""	74	"67"	7	54	"54"	0	"SRGAP3,intron_variant,,ENST00000383836,NM_014850.3;SRGAP3,intron_variant,,ENST00000360413,NM_001033117.2;SRGAP3,intron_variant,,ENST00000433332,;SRGAP3,intron_variant,,ENST00000470951,;"	"C"	"ENSG00000196220"	"ENST00000383836"	"Transcript"	"intron_variant"	"-/8656"	"-/3300"	"-/1099"	""	""	""	"1"	NA	-1	"SRGAP3"	"HGNC"	19744	"protein_coding"	"YES"	"CCDS2572.1"	"ENSP00000373347"	"O43295"	""	"UPI0000074099"	"NM_014850.3"	""	""	""	"3/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"23e6f866-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	TRUE
"14168"	"SETD5"	55209	"mskcc.org"	"GRCh37"	"3"	9459844	9459844	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-176-6307C>G"	""	""	"ENST00000402198"	""	76	"71"	5	52	"52"	0	"SETD5,intron_variant,,ENST00000402466,;SETD5,intron_variant,,ENST00000402198,NM_001080517.1;SETD5,intron_variant,,ENST00000406341,;SETD5,intron_variant,,ENST00000450326,;SETD5,intron_variant,,ENST00000478475,;SETD5,intron_variant,,ENST00000443339,;SETD5,intron_variant,,ENST00000431285,;SETD5,intron_variant,,ENST00000463180,;SETD5,intron_variant,,ENST00000415650,;"	"G"	"ENSG00000168137"	"ENST00000402198"	"Transcript"	"intron_variant"	"-/6827"	"-/4329"	"-/1442"	""	""	""	"1"	NA	1	"SETD5"	"HGNC"	25566	"protein_coding"	"YES"	"CCDS46741.1"	"ENSP00000385852"	"Q9C0A6"	"C9JLM1,C9JLA7,A8K0G4"	"UPI0000411FEE"	"NM_001080517.1"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"23e70266-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0657894736842105	"WGS"	FALSE
"14169"	"SLC6A1"	6529	"mskcc.org"	"GRCh37"	"3"	11039432	11039432	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-216+4817G>A"	""	""	"ENST00000287766"	""	80	"63"	17	48	"48"	0	"SLC6A1,intron_variant,,ENST00000287766,NM_003042.3;SLC6A1,intron_variant,,ENST00000425938,;SLC6A1,intron_variant,,ENST00000462473,;"	"A"	"ENSG00000157103"	"ENST00000287766"	"Transcript"	"intron_variant"	"-/4502"	"-/1800"	"-/599"	""	""	""	"1"	NA	1	"SLC6A1"	"HGNC"	11042	"protein_coding"	"YES"	"CCDS2603.1"	"ENSP00000287766"	"P30531"	"C9J5P8,B7Z3C5"	"UPI000013DECF"	"NM_003042.3"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"23e7a040-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2125	"WGS"	FALSE
"14170"	"CAND2"	23066	"mskcc.org"	"GRCh37"	"3"	12835160	12835160	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000456430"	""	76	"69"	7	35	"35"	0	"CAND2,upstream_gene_variant,,ENST00000456430,NM_001162499.1;CAND2,upstream_gene_variant,,ENST00000295989,NM_012298.2;CAND2,upstream_gene_variant,,ENST00000446928,;KRT18P17,upstream_gene_variant,,ENST00000396959,;"	"G"	"ENSG00000144712"	"ENST00000456430"	"Transcript"	"upstream_gene_variant"	"-/4573"	"-/3711"	"-/1236"	""	""	""	"1"	"3019"	1	"CAND2"	"HGNC"	30689	"protein_coding"	"YES"	"CCDS54554.1"	"ENSP00000387641"	"O75155"	""	"UPI00005795FA"	"NM_001162499.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"23e81ef8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"14171"	"ENSR00001357871"	0	"mskcc.org"	"GRCh37"	"3"	13349838	13349838	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001357871"	""	101	"92"	9	53	"53"	0	""	"T"	""	"ENSR00001357871"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"23e8367c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0891089108910891	"WGS"	FALSE
"14172"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	13826295	13826295	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"52"	23	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"23e861ec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306666666666667	"WGS"	FALSE
"14173"	"WNT7A"	7476	"mskcc.org"	"GRCh37"	"3"	13910784	13910784	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.298+5660T>C"	""	""	"ENST00000285018"	""	30	"23"	7	34	"33"	1	"WNT7A,intron_variant,,ENST00000285018,NM_004625.3;WNT7A,intron_variant,,ENST00000489346,;"	"G"	"ENSG00000154764"	"ENST00000285018"	"Transcript"	"intron_variant"	"-/4041"	"-/1050"	"-/349"	""	""	""	"1"	NA	-1	"WNT7A"	"HGNC"	12786	"protein_coding"	"YES"	"CCDS2616.1"	"ENSP00000285018"	"O00755"	""	"UPI0000033777"	"NM_004625.3"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"23e86a2a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WGS"	FALSE
"14174"	"KCNH8"	131096	"mskcc.org"	"GRCh37"	"3"	19475363	19475363	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1178-4293C>T"	""	""	"ENST00000328405"	""	93	"83"	10	62	"62"	0	"KCNH8,intron_variant,,ENST00000328405,NM_144633.2;KCNH8,intron_variant,,ENST00000537696,;KCNH8,intron_variant,,ENST00000452398,;"	"T"	"ENSG00000183960"	"ENST00000328405"	"Transcript"	"intron_variant"	"-/5137"	"-/3324"	"-/1107"	""	""	""	"1"	NA	1	"KCNH8"	"HGNC"	18864	"protein_coding"	"YES"	"CCDS2632.1"	"ENSP00000328813"	"Q96L42"	""	"UPI0000167D12"	"NM_144633.2"	""	""	""	"7/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"23e934dc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10752688172043	"WGS"	FALSE
"14175"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	19623487	19623487	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"49"	24	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"23e936c6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.328767123287671	"WGS"	FALSE
"14176"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	19673748	19673748	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"57"	33	46	"46"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"23e9377a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.366666666666667	"WGS"	FALSE
"14177"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	22550546	22550546	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"57"	31	50	"50"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"23e99cce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352272727272727	"WGS"	FALSE
"14178"	"AC099535.4"	0	"mskcc.org"	"GRCh37"	"3"	27524653	27524653	"+"	"5'Flank"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408928"	""	80	"55"	25	42	"42"	0	"SLC4A7,intron_variant,,ENST00000454389,;SLC4A7,intron_variant,,ENST00000440156,;SLC4A7,intron_variant,,ENST00000445684,;SLC4A7,intron_variant,,ENST00000388777,;SLC4A7,intron_variant,,ENST00000446700,;SLC4A7,intron_variant,,ENST00000425128,;SLC4A7,intron_variant,,ENST00000435667,;SLC4A7,intron_variant,,ENST00000455077,NM_001258379.1;SLC4A7,intron_variant,,ENST00000437179,;SLC4A7,intron_variant,,ENST00000438530,;SLC4A7,intron_variant,,ENST00000457377,;SLC4A7,intron_variant,,ENST00000437266,;SLC4A7,intron_variant,,ENST00000428005,;AC099535.4,upstream_gene_variant,,ENST00000408928,;"	"C"	"ENSG00000230807"	"ENST00000408928"	"Transcript"	"upstream_gene_variant"	"-/371"	""	""	""	""	""	"1"	"3085"	1	"AC099535.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"23ea32ec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"14179"	"CMC1"	152100	"mskcc.org"	"GRCh37"	"3"	28284783	28284783	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.19+1480G>T"	""	""	"ENST00000466830"	""	69	"55"	14	55	"55"	0	"CMC1,intron_variant,,ENST00000466830,NM_182523.1;CMC1,intron_variant,,ENST00000423894,;CMC1,intron_variant,,ENST00000477739,;CMC1,intron_variant,,ENST00000334841,;"	"T"	"ENSG00000187118"	"ENST00000466830"	"Transcript"	"intron_variant"	"-/6033"	"-/321"	"-/106"	""	""	""	"1"	NA	1	"CMC1"	"HGNC"	28783	"protein_coding"	"YES"	"CCDS33722.1"	"ENSP00000418348"	"Q7Z7K0"	""	"UPI0000161ABD"	"NM_182523.1"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"23ea568c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202898550724638	"WGS"	FALSE
"14180"	"LINC00693"	645206	"mskcc.org"	"GRCh37"	"3"	28674589	28674589	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.809+56602C>T"	""	""	"ENST00000432518"	""	107	"76"	31	46	"46"	0	"LINC00693,intron_variant,,ENST00000432518,;LINC00693,intron_variant,,ENST00000443912,;LINC00693,intron_variant,,ENST00000445077,;"	"T"	"ENSG00000228214"	"ENST00000432518"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2144"	""	""	""	""	""	"1"	NA	1	"LINC00693"	"HGNC"	44526	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"23ea630c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289719626168224	"WGS"	FALSE
"14181"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	33497853	33497853	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"65"	8	51	"51"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"23eb2aee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10958904109589	"WGS"	FALSE
"14182"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	33497855	33497855	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"65"	7	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"23eb2b98-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"14183"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	35881117	35881117	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"52"	24	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"23eb6e1e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WGS"	FALSE
"14184"	"TRANK1"	9881	"mskcc.org"	"GRCh37"	"3"	36988982	36988982	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000429976"	""	105	"73"	32	56	"56"	0	"TRANK1,upstream_gene_variant,,ENST00000301807,NM_014831.2;TRANK1,upstream_gene_variant,,ENST00000429976,;TRANK1,upstream_gene_variant,,ENST00000511973,;"	"T"	"ENSG00000168016"	"ENST00000429976"	"Transcript"	"upstream_gene_variant"	"-/10481"	"-/8778"	"-/2925"	""	""	""	"1"	"2434"	-1	"TRANK1"	"HGNC"	29011	"protein_coding"	"YES"	"CCDS46789.2"	"ENSP00000416168"	"O15050"	"B7WP88"	"UPI00017BE82B"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"23eb934e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304761904761905	"WGS"	FALSE
"14185"	"XYLB"	9942	"mskcc.org"	"GRCh37"	"3"	38419700	38419700	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1195-1037G>A"	""	""	"ENST00000207870"	""	94	"64"	30	45	"45"	0	"XYLB,intron_variant,,ENST00000207870,NM_005108.3;XYLB,intron_variant,,ENST00000542835,;XYLB,intron_variant,,ENST00000472721,;XYLB,intron_variant,,ENST00000424034,;"	"A"	"ENSG00000093217"	"ENST00000207870"	"Transcript"	"intron_variant"	"-/3664"	"-/1611"	"-/536"	""	""	""	"1"	NA	1	"XYLB"	"HGNC"	12839	"protein_coding"	"YES"	"CCDS2678.1"	"ENSP00000207870"	"O75191"	"B4DDT2,B3KM56"	"UPI0000160544"	"NM_005108.3"	""	""	""	"14/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"23ebe5ec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319148936170213	"WGS"	FALSE
"14186"	"RP11-391M1.4"	0	"mskcc.org"	"GRCh37"	"3"	40510661	40510661	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000607057"	""	69	"59"	10	34	"34"	0	"RP11-391M1.4,downstream_gene_variant,,ENST00000607057,;"	"C"	"ENSG00000272452"	"ENST00000607057"	"Transcript"	"downstream_gene_variant"	"-/2122"	""	""	""	""	""	"1"	"583"	1	"RP11-391M1.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"23ec3100-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.144927536231884	"WGS"	FALSE
"14187"	"ZNF621"	285268	"mskcc.org"	"GRCh37"	"3"	40621055	40621055	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000490457"	""	71	"63"	8	46	"46"	0	"ZNF621,downstream_gene_variant,,ENST00000490457,;"	"G"	"ENSG00000172888"	"ENST00000490457"	"Transcript"	"downstream_gene_variant"	"-/916"	""	""	""	""	""	"1"	"4879"	1	"ZNF621"	"HGNC"	24787	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"23ec35a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112676056338028	"WGS"	FALSE
"14188"	"RP11-761N21.1"	0	"mskcc.org"	"GRCh37"	"3"	40908748	40908748	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000412811"	""	74	"68"	6	54	"54"	0	"RP11-761N21.1,downstream_gene_variant,,ENST00000412811,;"	"T"	"ENSG00000231873"	"ENST00000412811"	"Transcript"	"downstream_gene_variant"	"-/500"	""	""	""	""	""	"1"	"4631"	1	"RP11-761N21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"23ec3bf0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"14189"	"ZNF197"	10168	"mskcc.org"	"GRCh37"	"3"	44673249	44673249	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.551-348A>G"	""	""	"ENST00000396058"	""	61	"55"	6	31	"31"	0	"ZNF197,intron_variant,,ENST00000396058,;ZNF197,intron_variant,,ENST00000344387,NM_006991.3;ZNF197,intron_variant,,ENST00000383745,NM_001024855.1;ZNF197,intron_variant,,ENST00000383744,;ZNF197,downstream_gene_variant,,ENST00000412641,;RP11-944L7.4,intron_variant,,ENST00000457331,;ZNF197,intron_variant,,ENST00000334075,;"	"G"	"ENSG00000186448"	"ENST00000396058"	"Transcript"	"intron_variant"	"-/4299"	"-/3090"	"-/1029"	""	""	""	"1"	NA	1	"ZNF197"	"HGNC"	12988	"protein_coding"	"YES"	"CCDS2717.1"	"ENSP00000379370"	"O14709"	"C9JQH5"	"UPI000013C317"	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"23ecf996-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0983606557377049	"WGS"	FALSE
"14190"	"RP11-24F11.2"	0	"mskcc.org"	"GRCh37"	"3"	46424734	46424734	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.391+9582A>T"	""	""	"ENST00000451485"	""	75	"66"	9	54	"54"	0	"RP11-24F11.2,intron_variant,,ENST00000451485,;"	"A"	"ENSG00000223552"	"ENST00000451485"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/656"	""	""	""	""	""	"1"	NA	-1	"RP11-24F11.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"23ed4518-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"14191"	"CCDC12"	151903	"mskcc.org"	"GRCh37"	"3"	46996398	46996398	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.136-13843C>T"	""	""	"ENST00000425441"	""	82	"48"	34	62	"62"	0	"CCDC12,intron_variant,,ENST00000425441,NM_144716.5;CCDC12,intron_variant,,ENST00000292314,NM_001277074.1;CCDC12,intron_variant,,ENST00000546280,;CCDC12,intron_variant,,ENST00000446836,;CCDC12,intron_variant,,ENST00000605875,;CCDC12,intron_variant,,ENST00000605358,;CCDC12,intron_variant,,ENST00000488069,;CCDC12,intron_variant,,ENST00000494655,;CCDC12,intron_variant,,ENST00000460035,;CCDC12,intron_variant,,ENST00000603885,;CCDC12,intron_variant,,ENST00000604181,;CCDC12,intron_variant,,ENST00000604164,;"	"A"	"ENSG00000160799"	"ENST00000425441"	"Transcript"	"intron_variant"	"-/1097"	"-/540"	"-/179"	""	""	""	"1"	NA	-1	"CCDC12"	"HGNC"	28332	"protein_coding"	"YES"	"CCDS63612.1"	"ENSP00000416263"	""	"S4R331,J3KR35,C9JUN5"	"UPI000042234D"	"NM_144716.5"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"23ed54d6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.414634146341463	"WGS"	FALSE
"14192"	"KIF9-AS1"	285352	"mskcc.org"	"GRCh37"	"3"	47219965	47219965	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.329+9079A>T"	""	""	"ENST00000429315"	""	78	"72"	6	32	"32"	0	"KIF9-AS1,intron_variant,,ENST00000429315,;"	"T"	"ENSG00000227398"	"ENST00000429315"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4898"	""	""	""	""	""	"1"	NA	1	"KIF9-AS1"	"HGNC"	26822	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"23ed6638-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"14193"	"MAP4"	4134	"mskcc.org"	"GRCh37"	"3"	48113450	48113450	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-20+16813A>G"	""	""	"ENST00000360240"	""	92	"83"	9	38	"38"	0	"MAP4,intron_variant,,ENST00000426837,;MAP4,intron_variant,,ENST00000395734,NM_001134364.1;MAP4,intron_variant,,ENST00000383737,;MAP4,intron_variant,,ENST00000360240,NM_002375.4;MAP4,intron_variant,,ENST00000439356,NM_030885.3;MAP4,intron_variant,,ENST00000468075,;"	"C"	"ENSG00000047849"	"ENST00000360240"	"Transcript"	"intron_variant"	"-/5142"	"-/3459"	"-/1152"	""	""	""	"1"	NA	-1	"MAP4"	"HGNC"	6862	"protein_coding"	"YES"	"CCDS33750.1"	"ENSP00000353375"	"P27816"	""	"UPI000020A6A4"	"NM_002375.4"	""	""	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"23edcf4c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0978260869565217	"WGS"	FALSE
"14194"	"SLC25A20"	788	"mskcc.org"	"GRCh37"	"3"	48928297	48928297	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.198+1116G>A"	""	""	"ENST00000319017"	""	78	"71"	7	29	"29"	0	"SLC25A20,intron_variant,,ENST00000319017,NM_000387.5;SLC25A20,intron_variant,,ENST00000430379,;SLC25A20,intron_variant,,ENST00000544097,;SLC25A20,intron_variant,,ENST00000440964,;"	"T"	"ENSG00000178537"	"ENST00000319017"	"Transcript"	"intron_variant"	"-/1879"	"-/906"	"-/301"	""	""	""	"1"	NA	-1	"SLC25A20"	"HGNC"	1421	"protein_coding"	"YES"	"CCDS2779.1"	"ENSP00000326305"	"O43772"	"B4DWZ5"	"UPI000012ED5E"	"NM_000387.5"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"23ee253c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"14195"	"USP4"	7375	"mskcc.org"	"GRCh37"	"3"	49368285	49368285	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.230-3036A>T"	""	""	"ENST00000265560"	""	43	"39"	4	37	"37"	0	"USP4,intron_variant,,ENST00000351842,NM_199443.2;USP4,intron_variant,,ENST00000265560,NM_003363.3;USP4,intron_variant,,ENST00000416417,NM_001251877.1;USP4,intron_variant,,ENST00000415188,;USP4,intron_variant,,ENST00000491791,;USP4,intron_variant,,ENST00000486549,;USP4,intron_variant,,ENST00000464168,;"	"A"	"ENSG00000114316"	"ENST00000265560"	"Transcript"	"intron_variant"	"-/3126"	"-/2892"	"-/963"	""	""	""	"1"	NA	-1	"USP4"	"HGNC"	12627	"protein_coding"	"YES"	"CCDS2793.1"	"ENSP00000265560"	"Q13107"	""	"UPI000013D63C"	"NM_003363.3"	""	""	""	"2/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"23ee71d6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"14196"	"IP6K1"	9807	"mskcc.org"	"GRCh37"	"3"	49815179	49815179	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-129+8608G>C"	""	""	"ENST00000321599"	""	76	"67"	9	30	"30"	0	"IP6K1,intron_variant,,ENST00000321599,NM_153273.3,NM_001242829.1;IP6K1,intron_variant,,ENST00000395238,NM_001006115.2;IP6K1,intron_variant,,ENST00000468463,;IP6K1,intron_variant,,ENST00000460540,;IP6K1,intron_variant,,ENST00000498149,;RP13-1056D16.2,downstream_gene_variant,,ENST00000463176,;"	"G"	"ENSG00000176095"	"ENST00000321599"	"Transcript"	"intron_variant"	"-/4456"	"-/1326"	"-/441"	""	""	""	"1"	NA	-1	"IP6K1"	"HGNC"	18360	"protein_coding"	"YES"	"CCDS33760.1"	"ENSP00000323780"	"Q92551"	""	"UPI0000163944"	"NM_153273.3,NM_001242829.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"23eeb132-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.118421052631579	"WGS"	FALSE
"14197"	"RBM6"	10180	"mskcc.org"	"GRCh37"	"3"	49976777	49976777	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000266022"	""	41	"35"	6	21	"21"	0	"RBM6,upstream_gene_variant,,ENST00000443081,;RBM6,upstream_gene_variant,,ENST00000266022,NM_005777.2;RBM6,upstream_gene_variant,,ENST00000422955,;RBM6,upstream_gene_variant,,ENST00000442092,NM_001167582.1;RBM6,upstream_gene_variant,,ENST00000539992,;RBM6,upstream_gene_variant,,ENST00000433811,;RBM6,upstream_gene_variant,,ENST00000441115,;RBM6,upstream_gene_variant,,ENST00000488807,;RBM6,upstream_gene_variant,,ENST00000491874,;RBM6,upstream_gene_variant,,ENST00000454079,;RBM6,upstream_gene_variant,,ENST00000434592,;RBM6,upstream_gene_variant,,ENST00000419610,;RBM6,upstream_gene_variant,,ENST00000425608,;RBM6,upstream_gene_variant,,ENST00000493652,;"	"C"	"ENSG00000004534"	"ENST00000266022"	"Transcript"	"upstream_gene_variant"	"-/3748"	"-/3372"	"-/1123"	""	""	""	"1"	"689"	1	"RBM6"	"HGNC"	9903	"protein_coding"	"YES"	"CCDS2809.1"	"ENSP00000266022"	"P78332"	"E9PGM9,C9JSL1,C9JMC8,C9JII0,B4DNY1"	"UPI000013D6C0"	"NM_005777.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"23eec244-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146341463414634	"WGS"	FALSE
"14198"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	50702067	50702067	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"69"	6	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"23eef944-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"14199"	"VPRBP"	9730	"mskcc.org"	"GRCh37"	"3"	51490114	51490114	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.375+7016G>T"	""	""	"ENST00000335891"	""	75	"47"	28	48	"48"	0	"VPRBP,intron_variant,,ENST00000335891,;VPRBP,intron_variant,,ENST00000504652,;"	"A"	"ENSG00000145041"	"ENST00000335891"	"Transcript"	"intron_variant"	"-/4114"	"-/3177"	"-/1058"	""	""	""	"1"	NA	-1	"VPRBP"	"HGNC"	30911	"protein_coding"	""	""	"ENSP00000338857"	"Q9Y4B6"	""	"UPI0000073EC9"	""	""	""	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"23ef1e7e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373333333333333	"WGS"	FALSE
"14200"	"PBRM1"	55193	"mskcc.org"	"GRCh37"	"3"	52645118	52645118	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1925-1147T>G"	""	""	"ENST00000394830"	""	86	"75"	11	47	"47"	0	"PBRM1,intron_variant,,ENST00000356770,;PBRM1,intron_variant,,ENST00000296302,;PBRM1,intron_variant,,ENST00000394830,NM_018313.4;PBRM1,intron_variant,,ENST00000409114,;PBRM1,intron_variant,,ENST00000409057,;PBRM1,intron_variant,,ENST00000410007,;PBRM1,intron_variant,,ENST00000409767,;PBRM1,intron_variant,,ENST00000337303,;PBRM1,intron_variant,,ENST00000423351,;PBRM1,intron_variant,,ENST00000446103,;PBRM1,intron_variant,,ENST00000412587,;PBRM1,intron_variant,,ENST00000480064,;PBRM1,upstream_gene_variant,,ENST00000462207,;"	"C"	"ENSG00000163939"	"ENST00000394830"	"Transcript"	"intron_variant"	"-/5071"	"-/4749"	"-/1582"	""	""	""	"1"	NA	-1	"PBRM1"	"HGNC"	30064	"protein_coding"	"YES"	"CCDS43099.1"	"ENSP00000378307"	"Q86U86"	"C9JQF1,C9JPI5,C9JCJ2,C9J9L6,C9J409,C9J053"	"UPI000013E31E"	"NM_018313.4"	""	""	""	"16/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"23ef872e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127906976744186	"WGS"	TRUE
"14201"	"ITIH1"	3697	"mskcc.org"	"GRCh37"	"3"	52823900	52823900	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2321+30G>T"	""	""	"ENST00000273283"	""	82	"53"	29	51	"51"	0	"ITIH1,intron_variant,,ENST00000273283,NM_002215.3;ITIH1,intron_variant,,ENST00000542827,;ITIH1,intron_variant,,ENST00000540715,NM_001166434.2;ITIH1,intron_variant,,ENST00000537050,NM_001166436.2,NM_001166435.2;ITIH1,intron_variant,,ENST00000428133,;ITIH1,intron_variant,,ENST00000405128,;ITIH3,upstream_gene_variant,,ENST00000449956,NM_002217.3;ITIH3,upstream_gene_variant,,ENST00000416872,;ITIH1,non_coding_transcript_exon_variant,,ENST00000482836,;ITIH1,upstream_gene_variant,,ENST00000494705,;ITIH3,upstream_gene_variant,,ENST00000467268,;ITIH1,downstream_gene_variant,,ENST00000484844,;"	"T"	"ENSG00000055957"	"ENST00000273283"	"Transcript"	"intron_variant"	"-/2911"	"-/2736"	"-/911"	""	""	""	"1"	NA	1	"ITIH1"	"HGNC"	6166	"protein_coding"	"YES"	"CCDS2864.1"	"ENSP00000273283"	"P19827"	""	"UPI000012DA1C"	"NM_002215.3"	""	""	""	"19/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"23ef93f4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.353658536585366	"WGS"	FALSE
"14202"	"DCP1A"	55802	"mskcc.org"	"GRCh37"	"3"	53337516	53337516	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.624+691T>A"	""	""	"ENST00000607628"	""	89	"83"	6	39	"39"	0	"DCP1A,intron_variant,,ENST00000607628,NM_018403.5;DCP1A,intron_variant,,ENST00000294241,;DCP1A,intron_variant,,ENST00000606822,;DCP1A,intron_variant,,ENST00000480258,;DCP1A,intron_variant,,ENST00000494659,;DCP1A,intron_variant,,ENST00000560624,;DCP1A,downstream_gene_variant,,ENST00000560076,;DCP1A,downstream_gene_variant,,ENST00000559748,;"	"T"	"ENSG00000162290"	"ENST00000607628"	"Transcript"	"intron_variant"	"-/6016"	"-/1755"	"-/584"	""	""	""	"1"	NA	-1	"DCP1A"	"HGNC"	18714	"protein_coding"	"YES"	""	"ENSP00000475920"	""	"U3KQI9"	"UPI00001AEBBA"	"NM_018403.5"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"23efba14-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"14203"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	56549512	56549512	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"68"	5	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"23f03048-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0684931506849315	"WGS"	FALSE
"14204"	"IL17RD"	54756	"mskcc.org"	"GRCh37"	"3"	57120972	57120972	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000296318"	""	108	"79"	29	43	"43"	0	"IL17RD,downstream_gene_variant,,ENST00000296318,NM_017563.3;"	"A"	"ENSG00000144730"	"ENST00000296318"	"Transcript"	"downstream_gene_variant"	"-/8720"	"-/2220"	"-/739"	""	""	""	"1"	"3038"	-1	"IL17RD"	"HGNC"	17616	"protein_coding"	"YES"	"CCDS2880.2"	"ENSP00000296318"	"Q8NFM7"	"C9J6R0"	"UPI0000047CC3"	"NM_017563.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"23f050aa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268518518518519	"WGS"	FALSE
"14205"	"ARF4"	378	"mskcc.org"	"GRCh37"	"3"	57575957	57575957	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.68-5766A>T"	""	""	"ENST00000303436"	""	108	"101"	7	57	"57"	0	"ARF4,intron_variant,,ENST00000303436,NM_001660.3;ARF4,intron_variant,,ENST00000496292,;ARF4,intron_variant,,ENST00000489843,;ARF4,intron_variant,,ENST00000463880,;ARF4,intron_variant,,ENST00000493378,;ARF4,intron_variant,,ENST00000483848,;ARF4,intron_variant,,ENST00000486310,;"	"A"	"ENSG00000168374"	"ENST00000303436"	"Transcript"	"intron_variant"	"-/1660"	"-/543"	"-/180"	""	""	""	"1"	NA	-1	"ARF4"	"HGNC"	655	"protein_coding"	"YES"	"CCDS2884.1"	"ENSP00000306010"	"P18085"	"U3KQF2,C9JPM4,C9J6P1"	"UPI000013E89E"	"NM_001660.3"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"23f07a44-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0648148148148148	"WGS"	FALSE
"14206"	"ARF4"	378	"mskcc.org"	"GRCh37"	"3"	57575979	57575979	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.68-5788A>G"	""	""	"ENST00000303436"	""	98	"90"	8	52	"52"	0	"ARF4,intron_variant,,ENST00000303436,NM_001660.3;ARF4,intron_variant,,ENST00000496292,;ARF4,intron_variant,,ENST00000489843,;ARF4,intron_variant,,ENST00000463880,;ARF4,intron_variant,,ENST00000493378,;ARF4,intron_variant,,ENST00000483848,;ARF4,intron_variant,,ENST00000486310,;"	"C"	"ENSG00000168374"	"ENST00000303436"	"Transcript"	"intron_variant"	"-/1660"	"-/543"	"-/180"	""	""	""	"1"	NA	-1	"ARF4"	"HGNC"	655	"protein_coding"	"YES"	"CCDS2884.1"	"ENSP00000306010"	"P18085"	"U3KQF2,C9JPM4,C9J6P1"	"UPI000013E89E"	"NM_001660.3"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"23f07af8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WGS"	FALSE
"14207"	"ABHD6"	57406	"mskcc.org"	"GRCh37"	"3"	58276128	58276128	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.838-3188T>A"	""	""	"ENST00000478253"	""	22	"18"	4	7	"7"	0	"ABHD6,intron_variant,,ENST00000478253,;ABHD6,intron_variant,,ENST00000295962,NM_020676.5;ABHD6,upstream_gene_variant,,ENST00000480457,;ABHD6,intron_variant,,ENST00000470440,;"	"A"	"ENSG00000163686"	"ENST00000478253"	"Transcript"	"intron_variant"	"-/2482"	"-/1014"	"-/337"	""	""	""	"1"	NA	1	"ABHD6"	"HGNC"	21398	"protein_coding"	"YES"	"CCDS2887.1"	"ENSP00000420315"	"Q9BV23"	"C9JNE7,C9J010"	"UPI000003AF8F"	""	""	""	""	"9/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"23f0a866-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"14208"	"PXK"	54899	"mskcc.org"	"GRCh37"	"3"	58354301	58354301	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.154-857A>T"	""	""	"ENST00000356151"	""	86	"81"	5	28	"28"	0	"PXK,intron_variant,,ENST00000463280,;PXK,intron_variant,,ENST00000479241,;PXK,intron_variant,,ENST00000356151,NM_017771.3;PXK,intron_variant,,ENST00000484288,;PXK,intron_variant,,ENST00000302779,;PXK,intron_variant,,ENST00000383716,;PXK,intron_variant,,ENST00000383715,;PXK,intron_variant,,ENST00000536660,;PXK,intron_variant,,ENST00000491164,;PXK,intron_variant,,ENST00000468776,;PXK,intron_variant,,ENST00000477308,;"	"T"	"ENSG00000168297"	"ENST00000356151"	"Transcript"	"intron_variant"	"-/2037"	"-/1737"	"-/578"	""	""	""	"1"	NA	1	"PXK"	"HGNC"	23326	"protein_coding"	"YES"	"CCDS2889.1"	"ENSP00000348472"	"Q7Z7A4"	"U3KQS4"	"UPI000004A035"	"NM_017771.3"	""	""	""	"2/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"23f0b14e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0581395348837209	"WGS"	FALSE
"14209"	"RP11-719N22.2"	0	"mskcc.org"	"GRCh37"	"3"	59453364	59453364	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.288-2898G>T"	""	""	"ENST00000486137"	""	77	"72"	5	45	"45"	0	"RP11-719N22.2,intron_variant,,ENST00000486137,;"	"A"	"ENSG00000242545"	"ENST00000486137"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/698"	""	""	""	""	""	"1"	NA	-1	"RP11-719N22.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"23f0ded0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0649350649350649	"WGS"	FALSE
"14210"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	61420283	61420283	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	27	"23"	4	13	"13"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"23f1275a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"14211"	"CADPS"	8618	"mskcc.org"	"GRCh37"	"3"	62488611	62488611	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2600-3668G>T"	""	""	"ENST00000383710"	""	67	"43"	24	42	"42"	0	"CADPS,intron_variant,,ENST00000383710,NM_003716.3;CADPS,intron_variant,,ENST00000357948,NM_183393.2;CADPS,intron_variant,,ENST00000283269,NM_183394.2;CADPS,intron_variant,,ENST00000491424,;CADPS,upstream_gene_variant,,ENST00000478570,;"	"A"	"ENSG00000163618"	"ENST00000383710"	"Transcript"	"intron_variant"	"-/5471"	"-/4062"	"-/1353"	""	""	""	"1"	NA	-1	"CADPS"	"HGNC"	1426	"protein_coding"	"YES"	"CCDS46858.1"	"ENSP00000373215"	"Q9ULU8"	""	"UPI00001C036A"	"NM_003716.3"	""	""	""	"17/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"23f15a54-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358208955223881	"WGS"	FALSE
"14212"	"ADAMTS9"	56999	"mskcc.org"	"GRCh37"	"3"	64557113	64557113	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4357-2902G>A"	""	""	"ENST00000498707"	""	81	"52"	29	45	"45"	0	"ADAMTS9,intron_variant,,ENST00000498707,NM_182920.1;ADAMTS9,intron_variant,,ENST00000295903,;ADAMTS9,intron_variant,,ENST00000481060,;ADAMTS9-AS1,intron_variant,,ENST00000594810,;ADAMTS9-AS1,intron_variant,,ENST00000470447,;ADAMTS9-AS1,intron_variant,,ENST00000493124,;ADAMTS9-AS1,intron_variant,,ENST00000474313,;ADAMTS9-AS1,downstream_gene_variant,,ENST00000492209,;ADAMTS9,intron_variant,,ENST00000482490,;"	"T"	"ENSG00000163638"	"ENST00000498707"	"Transcript"	"intron_variant"	"-/7464"	"-/5808"	"-/1935"	""	""	""	"1"	NA	-1	"ADAMTS9"	"HGNC"	13202	"protein_coding"	"YES"	"CCDS2903.1"	"ENSP00000418735"	"Q9P2N4"	"B4E0E4"	"UPI00000463F0"	"NM_182920.1"	""	""	""	"28/39"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"23f1af9a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358024691358025	"WGS"	FALSE
"14213"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	65203279	65203279	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"68"	6	41	"41"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"23f1c7dc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"14214"	"LRIG1"	26018	"mskcc.org"	"GRCh37"	"3"	66502973	66502973	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.291-916C>A"	""	""	"ENST00000273261"	""	92	"60"	32	51	"51"	0	"LRIG1,intron_variant,,ENST00000383703,;LRIG1,intron_variant,,ENST00000273261,NM_015541.2;LRIG1,intron_variant,,ENST00000498287,;LRIG1,intron_variant,,ENST00000475366,;LRIG1,intron_variant,,ENST00000495671,;"	"T"	"ENSG00000144749"	"ENST00000273261"	"Transcript"	"intron_variant"	"-/5273"	"-/3282"	"-/1093"	""	""	""	"1"	NA	-1	"LRIG1"	"HGNC"	17360	"protein_coding"	"YES"	"CCDS33783.1"	"ENSP00000273261"	"Q96JA1"	""	"UPI000004C5BE"	"NM_015541.2"	""	""	""	"2/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"23f1faf4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347826086956522	"WGS"	FALSE
"14215"	"FAM19A1"	407738	"mskcc.org"	"GRCh37"	"3"	68185826	68185826	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.118+129939G>A"	""	""	"ENST00000478136"	""	102	"67"	35	67	"67"	0	"FAM19A1,intron_variant,,ENST00000478136,NM_213609.3;FAM19A1,intron_variant,,ENST00000496687,;"	"A"	"ENSG00000183662"	"ENST00000478136"	"Transcript"	"intron_variant"	"-/2014"	"-/402"	"-/133"	""	""	""	"1"	NA	1	"FAM19A1"	"HGNC"	21587	"protein_coding"	"YES"	"CCDS54606.1"	"ENSP00000418575"	"Q7Z5A9"	""	"UPI00001B3DB2"	"NM_213609.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"23f2210a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.343137254901961	"WGS"	FALSE
"14216"	"FAM19A1"	407738	"mskcc.org"	"GRCh37"	"3"	68247851	68247851	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.118+191964G>T"	""	""	"ENST00000478136"	""	99	"61"	38	66	"66"	0	"FAM19A1,intron_variant,,ENST00000478136,NM_213609.3;FAM19A1,intron_variant,,ENST00000496687,;"	"T"	"ENSG00000183662"	"ENST00000478136"	"Transcript"	"intron_variant"	"-/2014"	"-/402"	"-/133"	""	""	""	"1"	NA	1	"FAM19A1"	"HGNC"	21587	"protein_coding"	"YES"	"CCDS54606.1"	"ENSP00000418575"	"Q7Z5A9"	""	"UPI00001B3DB2"	"NM_213609.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"23f22268-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.383838383838384	"WGS"	FALSE
"14217"	"FOXP1"	27086	"mskcc.org"	"GRCh37"	"3"	71509435	71509435	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-168+33142T>C"	""	""	"ENST00000318789"	""	78	"66"	12	45	"45"	0	"FOXP1,intron_variant,,ENST00000318789,NM_032682.5,NM_001244810.1,NM_001244813.1;FOXP1,intron_variant,,ENST00000475937,NM_001244816.1;FOXP1,intron_variant,,ENST00000493089,NM_001244808.1;FOXP1,intron_variant,,ENST00000318779,NM_001012505.1;FOXP1,intron_variant,,ENST00000327590,;"	"G"	"ENSG00000114861"	"ENST00000318789"	"Transcript"	"intron_variant"	"-/7114"	"-/2034"	"-/677"	""	""	""	"1"	NA	-1	"FOXP1"	"HGNC"	3823	"protein_coding"	""	"CCDS2914.1"	"ENSP00000318902"	"Q9H334"	"Q8IXF4,Q548T7,C9J5T4,C9IYY1,B4DMV4"	"UPI0000001041"	"NM_032682.5,NM_001244810.1,NM_001244813.1"	""	""	""	"3/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"23f2a77e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	TRUE
"14218"	"FOXP1"	27086	"mskcc.org"	"GRCh37"	"3"	71541193	71541193	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-168+1384A>G"	""	""	"ENST00000318789"	""	90	"57"	33	47	"47"	0	"FOXP1,intron_variant,,ENST00000318789,NM_032682.5,NM_001244810.1,NM_001244813.1;FOXP1,intron_variant,,ENST00000475937,NM_001244816.1;FOXP1,intron_variant,,ENST00000493089,NM_001244808.1;FOXP1,intron_variant,,ENST00000318779,NM_001012505.1;FOXP1,downstream_gene_variant,,ENST00000498154,;FOXP1,downstream_gene_variant,,ENST00000471386,;FOXP1,intron_variant,,ENST00000327590,;"	"C"	"ENSG00000114861"	"ENST00000318789"	"Transcript"	"intron_variant"	"-/7114"	"-/2034"	"-/677"	""	""	""	"1"	NA	-1	"FOXP1"	"HGNC"	3823	"protein_coding"	""	"CCDS2914.1"	"ENSP00000318902"	"Q9H334"	"Q8IXF4,Q548T7,C9J5T4,C9IYY1,B4DMV4"	"UPI0000001041"	"NM_032682.5,NM_001244810.1,NM_001244813.1"	""	""	""	"3/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"23f2a99a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.366666666666667	"WGS"	TRUE
"14219"	"SHQ1"	55164	"mskcc.org"	"GRCh37"	"3"	72826496	72826496	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1181+15571T>A"	""	""	"ENST00000325599"	""	95	"63"	32	65	"65"	0	"SHQ1,intron_variant,,ENST00000325599,NM_018130.2;SHQ1,intron_variant,,ENST00000463369,;SHQ1,intron_variant,,ENST00000468371,;SHQ1,intron_variant,,ENST00000444040,;RP11-624D20.1,downstream_gene_variant,,ENST00000495088,;"	"T"	"ENSG00000144736"	"ENST00000325599"	"Transcript"	"intron_variant"	"-/2879"	"-/1734"	"-/577"	""	""	""	"1"	NA	-1	"SHQ1"	"HGNC"	25543	"protein_coding"	"YES"	"CCDS33788.1"	"ENSP00000315182"	"Q6PI26"	"C9J6N3"	"UPI00001416C5"	"NM_018130.2"	""	""	""	"10/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"23f2d8ca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336842105263158	"WGS"	FALSE
"14220"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	74202877	74202877	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"63"	38	43	"43"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"23f31952-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.376237623762376	"WGS"	FALSE
"14221"	"ROBO1"	6091	"mskcc.org"	"GRCh37"	"3"	78767556	78767556	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.658-523A>G"	""	""	"ENST00000464233"	""	108	"76"	32	45	"45"	0	"ROBO1,intron_variant,,ENST00000436010,;ROBO1,intron_variant,,ENST00000464233,NM_002941.3;ROBO1,intron_variant,,ENST00000495273,NM_001145845.1,NM_133631.3;ROBO1,intron_variant,,ENST00000467549,;ROBO1,upstream_gene_variant,,ENST00000484514,;ROBO1,upstream_gene_variant,,ENST00000488735,;"	"C"	"ENSG00000169855"	"ENST00000464233"	"Transcript"	"intron_variant"	"-/6742"	"-/4956"	"-/1651"	""	""	""	"1"	NA	-1	"ROBO1"	"HGNC"	10249	"protein_coding"	"YES"	"CCDS54611.1"	"ENSP00000420321"	"Q9Y6N7"	""	"UPI00000713D9"	"NM_002941.3"	""	""	""	"5/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"23f423e2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"14222"	"ROBO1"	6091	"mskcc.org"	"GRCh37"	"3"	79055559	79055559	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.173-67482C>T"	""	""	"ENST00000464233"	""	77	"48"	29	54	"54"	0	"ROBO1,intron_variant,,ENST00000436010,;ROBO1,intron_variant,,ENST00000464233,NM_002941.3;ROBO1,intron_variant,,ENST00000495273,NM_001145845.1,NM_133631.3;ROBO1,intron_variant,,ENST00000467549,;"	"A"	"ENSG00000169855"	"ENST00000464233"	"Transcript"	"intron_variant"	"-/6742"	"-/4956"	"-/1651"	""	""	""	"1"	NA	-1	"ROBO1"	"HGNC"	10249	"protein_coding"	"YES"	"CCDS54611.1"	"ENSP00000420321"	"Q9Y6N7"	""	"UPI00000713D9"	"NM_002941.3"	""	""	""	"3/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"23f433be-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.376623376623377	"WGS"	FALSE
"14223"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	80319410	80319410	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"51"	39	56	"56"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"23f44fca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.433333333333333	"WGS"	FALSE
"14224"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	80728591	80728591	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"57"	5	37	"37"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"23f45b32-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WGS"	FALSE
"14225"	"RP11-520D19.2"	0	"mskcc.org"	"GRCh37"	"3"	81327311	81327311	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.250+9919A>G"	""	""	"ENST00000464131"	""	85	"54"	31	39	"38"	1	"RP11-520D19.2,intron_variant,,ENST00000464131,;"	"C"	"ENSG00000241593"	"ENST00000464131"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1014"	""	""	""	""	""	"1"	NA	-1	"RP11-520D19.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"23f46cda-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364705882352941	"WGS"	FALSE
"14226"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	82723253	82723253	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"71"	33	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"23f4900c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317307692307692	"WGS"	FALSE
"14227"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	84352881	84352881	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"61"	27	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"23f4c0f4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306818181818182	"WGS"	FALSE
"14228"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	86927340	86927340	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"68"	18	75	"75"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"23f50f28-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209302325581395	"WGS"	FALSE
"14229"	"EPHA3"	2042	"mskcc.org"	"GRCh37"	"3"	89221190	89221190	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.154-37820T>G"	""	""	"ENST00000336596"	""	90	"61"	29	56	"56"	0	"EPHA3,intron_variant,,ENST00000336596,NM_005233.5;EPHA3,intron_variant,,ENST00000494014,;EPHA3,intron_variant,,ENST00000452448,NM_182644.2;"	"G"	"ENSG00000044524"	"ENST00000336596"	"Transcript"	"intron_variant"	"-/5809"	"-/2952"	"-/983"	""	""	""	"1"	NA	1	"EPHA3"	"HGNC"	3387	"protein_coding"	"YES"	"CCDS2922.1"	"ENSP00000337451"	"P29320"	""	"UPI0000163BE4"	"NM_005233.5"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"23f56180-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322222222222222	"WGS"	FALSE
"14230"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	95365163	95365163	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"42"	32	43	"43"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"23f6154e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.432432432432432	"WGS"	FALSE
"14231"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	98393285	98393285	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"49"	33	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"23f666c0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.402439024390244	"WGS"	FALSE
"14232"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	101270730	101270730	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"63"	7	42	"42"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"23f6c034-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"14233"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	102812702	102812702	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	52	"34"	18	33	"33"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"23f706c0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"14234"	"CBLB"	868	"mskcc.org"	"GRCh37"	"3"	105450478	105450478	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1203+2375T>A"	""	""	"ENST00000264122"	""	98	"64"	34	50	"50"	0	"CBLB,intron_variant,,ENST00000264122,NM_170662.3;CBLB,intron_variant,,ENST00000394027,;CBLB,intron_variant,,ENST00000403724,;CBLB,intron_variant,,ENST00000405772,;CBLB,intron_variant,,ENST00000545639,;"	"T"	"ENSG00000114423"	"ENST00000264122"	"Transcript"	"intron_variant"	"-/6780"	"-/2949"	"-/982"	""	""	""	"1"	NA	-1	"CBLB"	"HGNC"	1542	"protein_coding"	"YES"	"CCDS2948.1"	"ENSP00000264122"	"Q13191"	"C9JU85,B5MC15"	"UPI00001AE89F"	"NM_170662.3"	""	""	""	"9/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"23f75fda-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346938775510204	"WGS"	TRUE
"14235"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	105883667	105883667	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs779650731"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"78"	7	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs779650731"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"23f76f70-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0823529411764706	"WGS"	FALSE
"14236"	"HHLA2"	11148	"mskcc.org"	"GRCh37"	"3"	108061619	108061619	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-26-9016G>A"	""	""	"ENST00000357759"	""	85	"65"	20	50	"50"	0	"HHLA2,intron_variant,,ENST00000357759,NM_007072.2;HHLA2,intron_variant,,ENST00000489514,NM_001282557.1;HHLA2,intron_variant,,ENST00000467761,NM_001282556.1;HHLA2,intron_variant,,ENST00000467562,NM_001282559.1;HHLA2,intron_variant,,ENST00000491820,NM_001282558.1;HHLA2,intron_variant,,ENST00000463019,;HHLA2,intron_variant,,ENST00000462629,;HHLA2,intron_variant,,ENST00000482430,;HHLA2,intron_variant,,ENST00000467282,;"	"A"	"ENSG00000114455"	"ENST00000357759"	"Transcript"	"intron_variant"	"-/2666"	"-/1245"	"-/414"	""	""	""	"1"	NA	1	"HHLA2"	"HGNC"	4905	"protein_coding"	"YES"	"CCDS46883.1"	"ENSP00000350402"	"Q9UM44"	"C9JY43,C9JY13,C9JD07,C9J8J7"	"UPI0000073CD9"	"NM_007072.2"	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"23f7ac24-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"14237"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	109253147	109253147	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"41"	22	34	"34"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"23f7e39c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.349206349206349	"WGS"	FALSE
"14238"	"RP11-457K10.1"	0	"mskcc.org"	"GRCh37"	"3"	109494589	109494589	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.30-29040G>T"	""	""	"ENST00000485384"	""	93	"57"	36	46	"44"	2	"RP11-457K10.1,intron_variant,,ENST00000485384,;"	"T"	"ENSG00000242029"	"ENST00000485384"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/262"	""	""	""	""	""	"1"	NA	1	"RP11-457K10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"23f7f210-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.387096774193548	"WGS"	FALSE
"14239"	"CD200R1"	131450	"mskcc.org"	"GRCh37"	"3"	112669787	112669787	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.68-3016T>A"	""	""	"ENST00000308611"	""	98	"88"	10	48	"48"	0	"CD200R1,intron_variant,,ENST00000471858,NM_170780.2;CD200R1,intron_variant,,ENST00000308611,NM_138806.3;CD200R1,intron_variant,,ENST00000295863,;CD200R1,intron_variant,,ENST00000440122,NM_138939.2;CD200R1,intron_variant,,ENST00000490004,NM_138940.2;"	"T"	"ENSG00000163606"	"ENST00000308611"	"Transcript"	"intron_variant"	"-/2299"	"-/1047"	"-/348"	""	""	""	"1"	NA	-1	"CD200R1"	"HGNC"	24235	"protein_coding"	"YES"	"CCDS2969.1"	"ENSP00000311035"	"Q8TD46"	""	"UPI000013E2BD"	"NM_138806.3"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"23f85908-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WGS"	FALSE
"14240"	"RP11-384F7.1"	0	"mskcc.org"	"GRCh37"	"3"	118010746	118010746	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.233-204399C>G"	""	""	"ENST00000482142"	""	94	"61"	33	59	"59"	0	"RP11-384F7.1,intron_variant,,ENST00000482142,;"	"C"	"ENSG00000243276"	"ENST00000482142"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/787"	""	""	""	""	""	"1"	NA	-1	"RP11-384F7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"23f8f804-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351063829787234	"WGS"	FALSE
"14241"	"STXBP5L"	9515	"mskcc.org"	"GRCh37"	"3"	121112584	121112584	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2659+12205G>T"	""	""	"ENST00000273666"	""	96	"66"	30	52	"52"	0	"STXBP5L,intron_variant,,ENST00000273666,NM_014980.2;STXBP5L,intron_variant,,ENST00000471454,;STXBP5L,intron_variant,,ENST00000471262,;STXBP5L,intron_variant,,ENST00000492541,;STXBP5L,intron_variant,,ENST00000472879,;STXBP5L,intron_variant,,ENST00000497029,;"	"T"	"ENSG00000145087"	"ENST00000273666"	"Transcript"	"intron_variant"	"-/9496"	"-/3561"	"-/1186"	""	""	""	"1"	NA	1	"STXBP5L"	"HGNC"	30757	"protein_coding"	"YES"	"CCDS43137.1"	"ENSP00000273666"	"Q9Y2K9"	"C9JUZ7"	"UPI00001C1DEA"	"NM_014980.2"	""	""	""	"23/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"23f96cf8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"14242"	"CD86"	942	"mskcc.org"	"GRCh37"	"3"	121776097	121776097	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.14+1747G>A"	""	""	"ENST00000330540"	""	99	"91"	8	55	"55"	0	"CD86,intron_variant,,ENST00000330540,NM_175862.4;CD86,intron_variant,,ENST00000264468,;CD86,intron_variant,,ENST00000469710,NM_001206925.1;CD86,intron_variant,,ENST00000493101,NM_001206924.1;CD86,intron_variant,,ENST00000478390,;"	"A"	"ENSG00000114013"	"ENST00000330540"	"Transcript"	"intron_variant"	"-/2708"	"-/990"	"-/329"	""	""	""	"1"	NA	1	"CD86"	"HGNC"	1705	"protein_coding"	"YES"	"CCDS3009.1"	"ENSP00000332049"	"P42081"	"C9JXS1"	"UPI00001AFC7C"	"NM_175862.4"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"23f99bce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0808080808080808	"WGS"	FALSE
"14243"	"ADCY5"	111	"mskcc.org"	"GRCh37"	"3"	123169623	123169623	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000462833"	""	82	"53"	29	38	"38"	0	"ADCY5,upstream_gene_variant,,ENST00000462833,NM_183357.2;"	"A"	"ENSG00000173175"	"ENST00000462833"	"Transcript"	"upstream_gene_variant"	"-/7311"	"-/3786"	"-/1261"	""	""	""	"1"	"1018"	-1	"ADCY5"	"HGNC"	236	"protein_coding"	"YES"	"CCDS3022.1"	"ENSP00000419361"	"O95622"	"C9JRT8,C9JQ38,B7Z801,B7Z2C7"	"UPI000015E262"	"NM_183357.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"23f9e660-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.353658536585366	"WGS"	FALSE
"14244"	"SNX4"	8723	"mskcc.org"	"GRCh37"	"3"	125170988	125170988	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1191-725T>A"	""	""	"ENST00000251775"	""	91	"85"	6	43	"43"	0	"SNX4,intron_variant,,ENST00000251775,NM_003794.3;SNX4,intron_variant,,ENST00000536067,;SNX4,intron_variant,,ENST00000482965,;SNX4,intron_variant,,ENST00000471751,;"	"T"	"ENSG00000114520"	"ENST00000251775"	"Transcript"	"intron_variant"	"-/2506"	"-/1353"	"-/450"	""	""	""	"1"	NA	-1	"SNX4"	"HGNC"	11175	"protein_coding"	"YES"	"CCDS3032.1"	"ENSP00000251775"	"O95219"	"Q9H398,B4DQV4"	"UPI000003586D"	"NM_003794.3"	""	""	""	"12/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"23fa4010-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"14245"	"CHCHD6"	84303	"mskcc.org"	"GRCh37"	"3"	126577034	126577034	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.495+5461A>G"	""	""	"ENST00000290913"	""	70	"49"	21	40	"40"	0	"CHCHD6,intron_variant,,ENST00000508789,;CHCHD6,intron_variant,,ENST00000290913,NM_032343.2;CHCHD6,intron_variant,,ENST00000513253,;CHCHD6,intron_variant,,ENST00000515867,;CHCHD6,intron_variant,,ENST00000514908,;CHCHD6,intron_variant,,ENST00000503119,;"	"G"	"ENSG00000159685"	"ENST00000290913"	"Transcript"	"intron_variant"	"-/1006"	"-/708"	"-/235"	""	""	""	"1"	NA	1	"CHCHD6"	"HGNC"	28184	"protein_coding"	"YES"	"CCDS3041.1"	"ENSP00000290913"	"Q9BRQ6"	""	"UPI0000034DFB"	"NM_032343.2"	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"23fa8be2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"14246"	"RNU6-1047P"	0	"mskcc.org"	"GRCh37"	"3"	126960904	126960904	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000364418"	""	93	"59"	34	44	"44"	0	"RNU6-1047P,upstream_gene_variant,,ENST00000364418,;"	"T"	"ENSG00000201288"	"ENST00000364418"	"Transcript"	"upstream_gene_variant"	"-/107"	""	""	""	""	""	"1"	"987"	-1	"RNU6-1047P"	"HGNC"	48010	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"23faaa5a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.365591397849462	"WGS"	FALSE
"14247"	"ISY1-RAB43"	100534599	"mskcc.org"	"GRCh37"	"3"	128814882	128814882	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.852-870G>C"	""	""	"ENST00000418265"	""	80	"55"	25	42	"42"	0	"ISY1-RAB43,intron_variant,,ENST00000418265,NM_001204890.1;RAB43,intron_variant,,ENST00000315150,NM_198490.2,NM_001204888.1;RAB43,intron_variant,,ENST00000393304,NM_001204886.1;RAB43,intron_variant,,ENST00000393305,NM_001204883.1;RAB43,intron_variant,,ENST00000393307,NM_001204884.1;RAB43,intron_variant,,ENST00000393308,NM_001204885.1;RAB43,intron_variant,,ENST00000476465,NM_001204887.1;RAB43,intron_variant,,ENST00000457077,;"	"G"	"ENSG00000261796"	"ENST00000418265"	"Transcript"	"intron_variant"	"-/4868"	"-/996"	"-/331"	""	""	""	"1"	NA	-1	"ISY1-RAB43"	"HGNC"	42969	"protein_coding"	"YES"	"CCDS56276.1"	"ENSP00000411822"	""	"H9XFA1"	"UPI00005A60DB"	"NM_001204890.1"	""	""	""	"11/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"23fb0720-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"14248"	"TMCC1"	23023	"mskcc.org"	"GRCh37"	"3"	129490803	129490803	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.576+55843C>T"	""	""	"ENST00000393238"	""	92	"65"	27	58	"58"	0	"TMCC1,intron_variant,,ENST00000393238,NM_001017395.3;TMCC1,intron_variant,,ENST00000426664,NM_001128224.2;TMCC1,intron_variant,,ENST00000329333,;TMCC1,intron_variant,,ENST00000505616,;"	"A"	"ENSG00000172765"	"ENST00000393238"	"Transcript"	"intron_variant"	"-/5992"	"-/1962"	"-/653"	""	""	""	"1"	NA	-1	"TMCC1"	"HGNC"	29116	"protein_coding"	"YES"	"CCDS33855.1"	"ENSP00000376930"	"O94876"	"Q8N4H2,Q6N039,E9PC87,D6RBT7"	"UPI0000197B80"	"NM_001017395.3"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"23fb41cc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293478260869565	"WGS"	FALSE
"14249"	"COL6A4P2"	0	"mskcc.org"	"GRCh37"	"3"	129944472	129944472	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.325-2387C>A"	""	""	"ENST00000504443"	""	78	"53"	25	53	"53"	0	"COL6A4P2,intron_variant,,ENST00000507516,;COL6A4P2,intron_variant,,ENST00000504443,;"	"A"	"ENSG00000228252"	"ENST00000504443"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2612"	""	""	""	""	""	"1"	NA	1	"COL6A4P2"	"HGNC"	38501	"unitary_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"6/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"23fb6cec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.320512820512821	"WGS"	FALSE
"14250"	"ATP2C1"	27032	"mskcc.org"	"GRCh37"	"3"	130587666	130587666	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.108+17894C>T"	""	""	"ENST00000393221"	""	48	"40"	8	23	"23"	0	"ATP2C1,intron_variant,,ENST00000505330,NM_001199181.1;ATP2C1,intron_variant,,ENST00000507488,NM_001199180.1;ATP2C1,intron_variant,,ENST00000504381,NM_001199182.1;ATP2C1,intron_variant,,ENST00000393221,;ATP2C1,intron_variant,,ENST00000533801,;"	"T"	"ENSG00000017260"	"ENST00000393221"	"Transcript"	"intron_variant"	"-/3446"	"-/2922"	"-/973"	""	""	""	"1"	NA	1	"ATP2C1"	"HGNC"	13211	"protein_coding"	"YES"	"CCDS56278.1"	"ENSP00000376914"	"P98194"	"D6RGE9,D6R9U9"	"UPI0000EE224C"	""	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"23fb82ae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"14251"	"ATP2C1"	27032	"mskcc.org"	"GRCh37"	"3"	130587680	130587680	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.108+17908A>G"	""	""	"ENST00000393221"	""	53	"45"	8	21	"21"	0	"ATP2C1,intron_variant,,ENST00000505330,NM_001199181.1;ATP2C1,intron_variant,,ENST00000507488,NM_001199180.1;ATP2C1,intron_variant,,ENST00000504381,NM_001199182.1;ATP2C1,intron_variant,,ENST00000393221,;ATP2C1,intron_variant,,ENST00000533801,;"	"G"	"ENSG00000017260"	"ENST00000393221"	"Transcript"	"intron_variant"	"-/3446"	"-/2922"	"-/973"	""	""	""	"1"	NA	1	"ATP2C1"	"HGNC"	13211	"protein_coding"	"YES"	"CCDS56278.1"	"ENSP00000376914"	"P98194"	"D6RGE9,D6R9U9"	"UPI0000EE224C"	""	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"23fb838a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.150943396226415	"WGS"	FALSE
"14252"	"NUDT16"	131870	"mskcc.org"	"GRCh37"	"3"	131107232	131107232	"+"	"3'Flank"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000502852"	""	79	"51"	28	50	"50"	0	"NUDT16,3_prime_UTR_variant,,ENST00000359850,NM_152395.2;NUDT16,3_prime_UTR_variant,,ENST00000521288,;NUDT16,3_prime_UTR_variant,,ENST00000537561,NM_001171905.1;NUDT16,downstream_gene_variant,,ENST00000502852,NM_001171906.1;"	"C"	"ENSG00000198585"	"ENST00000502852"	"Transcript"	"downstream_gene_variant"	"-/1552"	"-/684"	"-/227"	""	""	""	"1"	"4949"	1	"NUDT16"	"HGNC"	26442	"protein_coding"	"YES"	"CCDS54640.1"	"ENSP00000422375"	"Q96DE0"	""	"UPI0000E5A96C"	"NM_001171906.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"23fb95dc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354430379746835	"WGS"	FALSE
"14253"	"SLCO2A1"	6578	"mskcc.org"	"GRCh37"	"3"	133681539	133681539	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.398-7502A>G"	""	""	"ENST00000310926"	""	76	"70"	6	45	"45"	0	"SLCO2A1,intron_variant,,ENST00000310926,NM_005630.2;SLCO2A1,intron_variant,,ENST00000493729,;SLCO2A1,intron_variant,,ENST00000478651,;SLCO2A1,intron_variant,,ENST00000481359,;SLCO2A1,intron_variant,,ENST00000462770,;SLCO2A1,intron_variant,,ENST00000464676,;"	"C"	"ENSG00000174640"	"ENST00000310926"	"Transcript"	"intron_variant"	"-/4223"	"-/1932"	"-/643"	""	""	""	"1"	NA	-1	"SLCO2A1"	"HGNC"	10955	"protein_coding"	"YES"	"CCDS3084.1"	"ENSP00000311291"	"Q92959"	"Q4LEJ9"	"UPI000013F0AD"	"NM_005630.2"	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"23fc0152-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"14254"	"SLCO2A1"	6578	"mskcc.org"	"GRCh37"	"3"	133759556	133759556	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.94+11379G>A"	""	""	"ENST00000478662"	""	92	"55"	37	47	"47"	0	"SLCO2A1,intron_variant,,ENST00000478662,;"	"T"	"ENSG00000174640"	"ENST00000478662"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/166"	""	""	""	""	""	"1"	NA	-1	"SLCO2A1"	"HGNC"	10955	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"23fc06d4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.402173913043478	"WGS"	FALSE
"14255"	"PCCB"	5096	"mskcc.org"	"GRCh37"	"3"	135986284	135986284	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.603+5377C>T"	""	""	"ENST00000469217"	""	92	"75"	17	40	"40"	0	"PCCB,intron_variant,,ENST00000471595,;PCCB,intron_variant,,ENST00000478469,;PCCB,intron_variant,,ENST00000468777,;PCCB,intron_variant,,ENST00000466072,;PCCB,intron_variant,,ENST00000469217,NM_001178014.1;PCCB,intron_variant,,ENST00000251654,NM_000532.4;PCCB,intron_variant,,ENST00000483687,;PCCB,intron_variant,,ENST00000462637,;PCCB,intron_variant,,ENST00000490504,;PCCB,intron_variant,,ENST00000482086,;PCCB,intron_variant,,ENST00000459873,;PCCB,intron_variant,,ENST00000462542,;PCCB,intron_variant,,ENST00000474833,;PCCB,intron_variant,,ENST00000465176,;PCCB,intron_variant,,ENST00000473073,;PCCB,intron_variant,,ENST00000484181,;PCCB,intron_variant,,ENST00000475214,;"	"T"	"ENSG00000114054"	"ENST00000469217"	"Transcript"	"intron_variant"	"-/1841"	"-/1680"	"-/559"	""	""	""	"1"	NA	1	"PCCB"	"HGNC"	8654	"protein_coding"	"YES"	"CCDS54643.1"	"ENSP00000419027"	"P05166"	"Q8WVH4"	"UPI000020A2DD"	"NM_001178014.1"	""	""	""	"6/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"23fc614c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184782608695652	"WGS"	FALSE
"14256"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	136488585	136488585	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"70"	5	39	"39"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"23fc9806-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"14257"	"PIK3CB"	5291	"mskcc.org"	"GRCh37"	"3"	138458800	138458800	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.622-2072A>G"	""	""	"ENST00000289153"	""	80	"73"	7	50	"50"	0	"PIK3CB,intron_variant,,ENST00000477593,;PIK3CB,intron_variant,,ENST00000289153,NM_006219.2;PIK3CB,intron_variant,,ENST00000462294,;PIK3CB,intron_variant,,ENST00000462898,;"	"C"	"ENSG00000051382"	"ENST00000289153"	"Transcript"	"intron_variant"	"-/3213"	"-/3213"	"-/1070"	""	""	""	"1"	NA	-1	"PIK3CB"	"HGNC"	8976	"protein_coding"	""	"CCDS3104.1"	"ENSP00000289153"	"P42338"	"Q9BTS4,Q6PJ60,C9JYX0,C9JNF6,C9J345"	"UPI0000046842"	"NM_006219.2"	""	""	""	"3/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"23fd02dc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0875	"WGS"	FALSE
"14258"	"PIK3CB"	5291	"mskcc.org"	"GRCh37"	"3"	138458802	138458802	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.622-2074G>A"	""	""	"ENST00000289153"	""	81	"75"	6	50	"50"	0	"PIK3CB,intron_variant,,ENST00000477593,;PIK3CB,intron_variant,,ENST00000289153,NM_006219.2;PIK3CB,intron_variant,,ENST00000462294,;PIK3CB,intron_variant,,ENST00000462898,;"	"T"	"ENSG00000051382"	"ENST00000289153"	"Transcript"	"intron_variant"	"-/3213"	"-/3213"	"-/1070"	""	""	""	"1"	NA	-1	"PIK3CB"	"HGNC"	8976	"protein_coding"	""	"CCDS3104.1"	"ENSP00000289153"	"P42338"	"Q9BTS4,Q6PJ60,C9JYX0,C9JNF6,C9J345"	"UPI0000046842"	"NM_006219.2"	""	""	""	"3/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"23fd0390-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"14259"	"PIK3CB"	5291	"mskcc.org"	"GRCh37"	"3"	138528326	138528326	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17+25211T>A"	""	""	"ENST00000477593"	""	75	"68"	7	39	"39"	0	"PIK3CB,intron_variant,,ENST00000477593,;PIK3CB,intron_variant,,ENST00000483968,;PIK3CB,intron_variant,,ENST00000461451,;PIK3CB,intron_variant,,ENST00000462898,;"	"T"	"ENSG00000051382"	"ENST00000477593"	"Transcript"	"intron_variant"	"-/4658"	"-/3213"	"-/1070"	""	""	""	"1"	NA	-1	"PIK3CB"	"HGNC"	8976	"protein_coding"	"YES"	"CCDS3104.1"	"ENSP00000418143"	"P42338"	"Q9BTS4,Q6PJ60,C9JYX0,C9JNF6,C9J345"	"UPI0000046842"	""	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"23fd1128-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0933333333333333	"WGS"	FALSE
"14260"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	141343323	141343323	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"60"	23	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"23fd7686-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27710843373494	"WGS"	FALSE
"14261"	"RNA5SP143"	0	"mskcc.org"	"GRCh37"	"3"	142315262	142315262	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516936"	""	88	"65"	23	55	"55"	0	"PLS1,5_prime_UTR_variant,,ENST00000457734,NM_001145319.1;PLS1,5_prime_UTR_variant,,ENST00000483373,;PLS1,5_prime_UTR_variant,,ENST00000475296,;PLS1,upstream_gene_variant,,ENST00000476044,;PLS1,upstream_gene_variant,,ENST00000495744,;PLS1,upstream_gene_variant,,ENST00000461644,;PLS1,upstream_gene_variant,,ENST00000464320,;RNA5SP143,upstream_gene_variant,,ENST00000516936,;"	"T"	"ENSG00000252745"	"ENST00000516936"	"Transcript"	"upstream_gene_variant"	"-/115"	""	""	""	""	""	"1"	"4629"	-1	"RNA5SP143"	"HGNC"	43043	"rRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"23fdbf24-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261363636363636	"WGS"	FALSE
"14262"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	144770087	144770087	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"51"	20	25	"25"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"23fe09ca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28169014084507	"WGS"	FALSE
"14263"	"PLOD2"	5352	"mskcc.org"	"GRCh37"	"3"	145834145	145834145	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.338+4754A>C"	""	""	"ENST00000282903"	""	84	"61"	23	50	"50"	0	"PLOD2,intron_variant,,ENST00000282903,NM_182943.2;PLOD2,intron_variant,,ENST00000360060,NM_000935.2;PLOD2,intron_variant,,ENST00000494950,;PLOD2,intron_variant,,ENST00000469350,;PLOD2,intron_variant,,ENST00000480704,;"	"G"	"ENSG00000152952"	"ENST00000282903"	"Transcript"	"intron_variant"	"-/3732"	"-/2277"	"-/758"	""	""	""	"1"	NA	-1	"PLOD2"	"HGNC"	9082	"protein_coding"	"YES"	"CCDS3132.1"	"ENSP00000282903"	"O00469"	"Q9Y6D3,Q96QU5,Q96AR9,E7ETU9"	"UPI0000049C44"	"NM_182943.2"	""	""	""	"3/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"23fe2a18-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273809523809524	"WGS"	FALSE
"14264"	"RP11-78O22.1"	0	"mskcc.org"	"GRCh37"	"3"	147568742	147568742	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000470739"	""	78	"60"	18	46	"46"	0	"RP11-78O22.1,upstream_gene_variant,,ENST00000470739,;"	"A"	"ENSG00000239661"	"ENST00000470739"	"Transcript"	"upstream_gene_variant"	"-/493"	""	""	""	""	""	"1"	"4298"	-1	"RP11-78O22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"23fe59fc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"14265"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	152614889	152614889	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"77"	8	53	"53"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"23ff20f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"14266"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	152865140	152865140	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"63"	7	39	"39"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"23ff3a3e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"14267"	"VEPH1"	79674	"mskcc.org"	"GRCh37"	"3"	157039084	157039084	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1736-4094A>G"	""	""	"ENST00000362010"	""	108	"70"	38	48	"48"	0	"VEPH1,intron_variant,,ENST00000362010,NM_001167912.1;VEPH1,intron_variant,,ENST00000543418,NM_024621.2;VEPH1,intron_variant,,ENST00000392833,NM_001167911.1;VEPH1,intron_variant,,ENST00000392832,;RP11-550I24.2,intron_variant,,ENST00000487238,;"	"C"	"ENSG00000197415"	"ENST00000362010"	"Transcript"	"intron_variant"	"-/4202"	"-/2502"	"-/833"	""	""	""	"1"	NA	-1	"VEPH1"	"HGNC"	25735	"protein_coding"	"YES"	"CCDS3179.1"	"ENSP00000354919"	"Q14D04"	"C9JRT0,C9J4U8,C9J379,C9IZY4"	"UPI000013F6EE"	"NM_001167912.1"	""	""	""	"9/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"23ffe506-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351851851851852	"WGS"	FALSE
"14268"	"VEPH1"	79674	"mskcc.org"	"GRCh37"	"3"	157063330	157063330	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1735+17823T>C"	""	""	"ENST00000362010"	""	86	"56"	30	42	"42"	0	"VEPH1,intron_variant,,ENST00000362010,NM_001167912.1;VEPH1,intron_variant,,ENST00000543418,NM_024621.2;VEPH1,intron_variant,,ENST00000392833,NM_001167911.1;VEPH1,intron_variant,,ENST00000392832,;RP11-550I24.2,intron_variant,,ENST00000487238,;"	"G"	"ENSG00000197415"	"ENST00000362010"	"Transcript"	"intron_variant"	"-/4202"	"-/2502"	"-/833"	""	""	""	"1"	NA	-1	"VEPH1"	"HGNC"	25735	"protein_coding"	"YES"	"CCDS3179.1"	"ENSP00000354919"	"Q14D04"	"C9JRT0,C9J4U8,C9J379,C9IZY4"	"UPI000013F6EE"	"NM_001167912.1"	""	""	""	"9/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"23ffe61e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.348837209302326	"WGS"	FALSE
"14269"	"IQCJ-SCHIP1"	29970	"mskcc.org"	"GRCh37"	"3"	158812558	158812558	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9+25328G>C"	""	""	"ENST00000485419"	""	87	"63"	24	64	"64"	0	"IQCJ-SCHIP1,intron_variant,,ENST00000485419,NM_001197113.1;IQCJ-SCHIP1,intron_variant,,ENST00000476809,NM_001197114.1;IQCJ,intron_variant,,ENST00000397832,NM_001042706.2;IQCJ,intron_variant,,ENST00000482126,NM_001197100.1;IQCJ,intron_variant,,ENST00000451172,NM_001042705.2;IQCJ-SCHIP1,intron_variant,,ENST00000483486,;IQCJ-SCHIP1,intron_variant,,ENST00000481715,;IQCJ-SCHIP1,intron_variant,,ENST00000488898,;IQCJ-SCHIP1,intron_variant,,ENST00000471575,;IQCJ,intron_variant,,ENST00000481796,;IQCJ-SCHIP1,intron_variant,,ENST00000467442,;"	"C"	"ENSG00000250588"	"ENST00000485419"	"Transcript"	"intron_variant"	"-/2445"	"-/1692"	"-/563"	""	""	""	"1"	NA	1	"IQCJ-SCHIP1"	"HGNC"	38842	"protein_coding"	"YES"	"CCDS56289.1"	"ENSP00000420182"	""	"C9JMW4,C9J630,C9J615"	"UPI0000E5AA62"	"NM_001197113.1"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"24001f58-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275862068965517	"WGS"	FALSE
"14270"	"IQCJ-SCHIP1"	29970	"mskcc.org"	"GRCh37"	"3"	158818047	158818047	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9+30817T>C"	""	""	"ENST00000485419"	""	18	"12"	6	8	"8"	0	"IQCJ-SCHIP1,intron_variant,,ENST00000485419,NM_001197113.1;IQCJ-SCHIP1,intron_variant,,ENST00000476809,NM_001197114.1;IQCJ,intron_variant,,ENST00000397832,NM_001042706.2;IQCJ,intron_variant,,ENST00000482126,NM_001197100.1;IQCJ,intron_variant,,ENST00000451172,NM_001042705.2;IQCJ-SCHIP1,intron_variant,,ENST00000483486,;IQCJ-SCHIP1,intron_variant,,ENST00000481715,;IQCJ-SCHIP1,intron_variant,,ENST00000488898,;IQCJ-SCHIP1,intron_variant,,ENST00000471575,;IQCJ,intron_variant,,ENST00000481796,;IQCJ-SCHIP1,intron_variant,,ENST00000467442,;"	"C"	"ENSG00000250588"	"ENST00000485419"	"Transcript"	"intron_variant"	"-/2445"	"-/1692"	"-/563"	""	""	""	"1"	NA	1	"IQCJ-SCHIP1"	"HGNC"	38842	"protein_coding"	"YES"	"CCDS56289.1"	"ENSP00000420182"	""	"C9JMW4,C9J630,C9J615"	"UPI0000E5AA62"	"NM_001197113.1"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"24002002-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14271"	"ENSR00001378365"	0	"mskcc.org"	"GRCh37"	"3"	162118709	162118709	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001378365"	""	112	"73"	39	46	"45"	1	""	"A"	""	"ENSR00001378365"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"2400b026-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.348214285714286	"WGS"	FALSE
"14272"	"CT64"	647107	"mskcc.org"	"GRCh37"	"3"	162999424	162999424	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.65-3033T>A"	""	""	"ENST00000470546"	""	77	"45"	32	46	"46"	0	"CT64,intron_variant,,ENST00000470546,;CT64,intron_variant,,ENST00000492553,;CT64,intron_variant,,ENST00000489012,;CT64,intron_variant,,ENST00000494897,;CT64,intron_variant,,ENST00000493473,;CT64,intron_variant,,ENST00000488173,;CT64,upstream_gene_variant,,ENST00000462928,;"	"T"	"ENSG00000241369"	"ENST00000470546"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1519"	""	""	""	""	""	"1"	NA	-1	"CT64"	"HGNC"	37197	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"2400cc1e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.415584415584416	"WGS"	FALSE
"14273"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	163140029	163140029	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"64"	22	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"2400d1e6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255813953488372	"WGS"	FALSE
"14274"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	165925701	165925701	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"56"	32	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"24011da4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"14275"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	167148783	167148783	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"59"	4	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"24013f8c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0634920634920635	"WGS"	FALSE
"14276"	"PLD1"	5337	"mskcc.org"	"GRCh37"	"3"	171422178	171422178	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1145+4367G>C"	""	""	"ENST00000351298"	""	82	"45"	37	43	"43"	0	"PLD1,intron_variant,,ENST00000356327,NM_001130081.2;PLD1,intron_variant,,ENST00000351298,NM_002662.4;PLD1,intron_variant,,ENST00000342215,;PLD1,intron_variant,,ENST00000340989,;PLD1,intron_variant,,ENST00000481505,;"	"G"	"ENSG00000075651"	"ENST00000351298"	"Transcript"	"intron_variant"	"-/5604"	"-/3225"	"-/1074"	""	""	""	"1"	NA	-1	"PLD1"	"HGNC"	9067	"protein_coding"	"YES"	"CCDS3216.1"	"ENSP00000342793"	"Q13393"	"C9IY79"	"UPI0000131BDC"	"NM_002662.4"	""	""	""	"11/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"240200a2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.451219512195122	"WGS"	FALSE
"14277"	"FNDC3B"	64778	"mskcc.org"	"GRCh37"	"3"	171905925	171905925	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.188-38736A>T"	""	""	"ENST00000336824"	""	72	"67"	5	44	"44"	0	"FNDC3B,intron_variant,,ENST00000336824,NM_001135095.1;FNDC3B,intron_variant,,ENST00000415807,NM_022763.3;FNDC3B,intron_variant,,ENST00000416957,;FNDC3B,intron_variant,,ENST00000443501,;FNDC3B,downstream_gene_variant,,ENST00000421757,;FNDC3B,downstream_gene_variant,,ENST00000423424,;FNDC3B,downstream_gene_variant,,ENST00000476794,;FNDC3B,intron_variant,,ENST00000469491,;FNDC3B,intron_variant,,ENST00000478016,;"	"T"	"ENSG00000075420"	"ENST00000336824"	"Transcript"	"intron_variant"	"-/7904"	"-/3615"	"-/1204"	""	""	""	"1"	NA	1	"FNDC3B"	"HGNC"	24670	"protein_coding"	"YES"	"CCDS3217.1"	"ENSP00000338523"	"Q53EP0"	""	"UPI00001AE8B2"	"NM_001135095.1"	""	""	""	"3/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"24021cea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0694444444444444	"WGS"	FALSE
"14278"	"FNDC3B"	64778	"mskcc.org"	"GRCh37"	"3"	171905932	171905932	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.188-38729T>G"	""	""	"ENST00000336824"	""	70	"65"	5	43	"43"	0	"FNDC3B,intron_variant,,ENST00000336824,NM_001135095.1;FNDC3B,intron_variant,,ENST00000415807,NM_022763.3;FNDC3B,intron_variant,,ENST00000416957,;FNDC3B,intron_variant,,ENST00000443501,;FNDC3B,downstream_gene_variant,,ENST00000421757,;FNDC3B,downstream_gene_variant,,ENST00000423424,;FNDC3B,downstream_gene_variant,,ENST00000476794,;FNDC3B,intron_variant,,ENST00000469491,;FNDC3B,intron_variant,,ENST00000478016,;"	"G"	"ENSG00000075420"	"ENST00000336824"	"Transcript"	"intron_variant"	"-/7904"	"-/3615"	"-/1204"	""	""	""	"1"	NA	1	"FNDC3B"	"HGNC"	24670	"protein_coding"	"YES"	"CCDS3217.1"	"ENSP00000338523"	"Q53EP0"	""	"UPI00001AE8B2"	"NM_001135095.1"	""	""	""	"3/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"24021d9e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"14279"	"SPATA16"	83893	"mskcc.org"	"GRCh37"	"3"	172709550	172709550	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.849-14708C>G"	""	""	"ENST00000351008"	""	87	"55"	32	53	"53"	0	"SPATA16,intron_variant,,ENST00000351008,NM_031955.5;"	"C"	"ENSG00000144962"	"ENST00000351008"	"Transcript"	"intron_variant"	"-/2106"	"-/1710"	"-/569"	""	""	""	"1"	NA	-1	"SPATA16"	"HGNC"	29935	"protein_coding"	"YES"	"CCDS3221.1"	"ENSP00000341765"	"Q9BXB7"	""	"UPI000013D9BF"	"NM_031955.5"	""	""	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"240240e4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.367816091954023	"WGS"	FALSE
"14280"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	176998439	176998439	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"87"	11	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"2402efa8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112244897959184	"WGS"	FALSE
"14281"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	177084218	177084218	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"49"	5	28	"28"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"2402fa02-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0925925925925926	"WGS"	FALSE
"14282"	"PIK3CA"	5290	"mskcc.org"	"GRCh37"	"3"	178909029	178909029	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-76-7509A>G"	""	""	"ENST00000263967"	""	80	"59"	21	42	"42"	0	"PIK3CA,intron_variant,,ENST00000263967,NM_006218.2;PIK3CA,intron_variant,,ENST00000468036,;PIK3CA,intron_variant,,ENST00000477735,;"	"G"	"ENSG00000121879"	"ENST00000263967"	"Transcript"	"intron_variant"	"-/9093"	"-/3207"	"-/1068"	""	""	""	"1"	NA	1	"PIK3CA"	"HGNC"	8975	"protein_coding"	"YES"	"CCDS43171.1"	"ENSP00000263967"	"P42336"	"Q4LE51,C9JAM9,C9J951"	"UPI000013D494"	"NM_006218.2"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"24034822-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2625	"WGS"	TRUE
"14283"	"MCCC1"	56922	"mskcc.org"	"GRCh37"	"3"	182754435	182754435	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1594+571G>A"	""	""	"ENST00000265594"	""	75	"49"	26	38	"38"	0	"MCCC1,intron_variant,,ENST00000492597,;MCCC1,intron_variant,,ENST00000265594,NM_020166.3;MCCC1,intron_variant,,ENST00000476176,;MCCC1,intron_variant,,ENST00000539926,;MCCC1,intron_variant,,ENST00000489909,;MCCC1,intron_variant,,ENST00000497959,;MCCC1,intron_variant,,ENST00000497830,;MCCC1,intron_variant,,ENST00000495767,;"	"T"	"ENSG00000078070"	"ENST00000265594"	"Transcript"	"intron_variant"	"-/2545"	"-/2178"	"-/725"	""	""	""	"1"	NA	-1	"MCCC1"	"HGNC"	6936	"protein_coding"	"YES"	"CCDS3241.1"	"ENSP00000265594"	"Q96RQ3"	"F5GYT8,F2Z3E2,E9PHF7"	"UPI000013D646"	"NM_020166.3"	""	""	""	"13/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"2403faec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346666666666667	"WGS"	FALSE
"14284"	"MCCC1"	56922	"mskcc.org"	"GRCh37"	"3"	182771935	182771935	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.874-1907G>C"	""	""	"ENST00000265594"	""	62	"57"	5	33	"33"	0	"MCCC1,intron_variant,,ENST00000492597,;MCCC1,intron_variant,,ENST00000265594,NM_020166.3;MCCC1,intron_variant,,ENST00000476176,;MCCC1,intron_variant,,ENST00000539926,;MCCC1,intron_variant,,ENST00000497959,;MCCC1,intron_variant,,ENST00000497830,;MCCC1,intron_variant,,ENST00000495767,;"	"G"	"ENSG00000078070"	"ENST00000265594"	"Transcript"	"intron_variant"	"-/2545"	"-/2178"	"-/725"	""	""	""	"1"	NA	-1	"MCCC1"	"HGNC"	6936	"protein_coding"	"YES"	"CCDS3241.1"	"ENSP00000265594"	"Q96RQ3"	"F5GYT8,F2Z3E2,E9PHF7"	"UPI000013D646"	"NM_020166.3"	""	""	""	"8/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"2403fcfe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WGS"	FALSE
"14285"	"MCCC1"	56922	"mskcc.org"	"GRCh37"	"3"	182828146	182828146	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-102+5116G>A"	""	""	"ENST00000492597"	""	85	"79"	6	45	"45"	0	"MCCC1,intron_variant,,ENST00000492597,;"	"T"	"ENSG00000078070"	"ENST00000492597"	"Transcript"	"intron_variant"	"-/2774"	"-/1851"	"-/616"	""	""	""	"1"	NA	-1	"MCCC1"	"HGNC"	6936	"protein_coding"	""	""	"ENSP00000419898"	""	"F5GYT8,E9PHF7"	"UPI0000E5AAED"	""	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"2403ff10-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0705882352941176	"WGS"	FALSE
"14286"	"YEATS2"	55689	"mskcc.org"	"GRCh37"	"3"	183522925	183522925	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3784+949T>C"	""	""	"ENST00000305135"	""	85	"79"	6	49	"49"	0	"YEATS2,intron_variant,,ENST00000305135,NM_018023.4;AC131160.1,upstream_gene_variant,,ENST00000401347,;YEATS2-AS1,downstream_gene_variant,,ENST00000425008,;YEATS2-AS1,downstream_gene_variant,,ENST00000609195,;YEATS2-AS1,downstream_gene_variant,,ENST00000609871,;YEATS2,intron_variant,,ENST00000472593,;YEATS2,upstream_gene_variant,,ENST00000468850,;YEATS2,downstream_gene_variant,,ENST00000497765,;YEATS2,upstream_gene_variant,,ENST00000481343,;"	"C"	"ENSG00000163872"	"ENST00000305135"	"Transcript"	"intron_variant"	"-/6506"	"-/4269"	"-/1422"	""	""	""	"1"	NA	1	"YEATS2"	"HGNC"	25489	"protein_coding"	"YES"	"CCDS43175.1"	"ENSP00000306983"	"Q9ULM3"	""	"UPI00001BB2B9"	"NM_018023.4"	""	""	""	"27/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"240429ea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0705882352941176	"WGS"	FALSE
"14287"	"PARL"	55486	"mskcc.org"	"GRCh37"	"3"	183551834	183551834	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs577319006"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.829-221G>A"	""	""	"ENST00000317096"	""	77	"51"	26	49	"49"	0	"PARL,intron_variant,,ENST00000317096,NM_018622.5;PARL,intron_variant,,ENST00000311101,NM_001037639.1;PARL,intron_variant,,ENST00000435888,;PARL,intron_variant,,ENST00000417784,;PARL,intron_variant,,ENST00000418450,;PARL,intron_variant,,ENST00000450375,;PARL,intron_variant,,ENST00000449306,;PARL,intron_variant,,ENST00000421484,;"	"T"	"ENSG00000175193"	"ENST00000317096"	"Transcript"	"intron_variant"	"-/1414"	"-/1140"	"-/379"	""	""	"rs577319006"	"1"	NA	-1	"PARL"	"HGNC"	18253	"protein_coding"	"YES"	"CCDS3248.1"	"ENSP00000325421"	"Q9H300"	""	"UPI00000711C6"	"NM_018622.5"	""	""	""	"7/9"	""	"T:0.0004"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"24042bfc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337662337662338	"WGS"	FALSE
"14288"	"VPS8"	23355	"mskcc.org"	"GRCh37"	"3"	184651016	184651016	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2898+2660G>A"	""	""	"ENST00000437079"	""	81	"57"	24	49	"49"	0	"VPS8,intron_variant,,ENST00000287546,NM_015303.3;VPS8,intron_variant,,ENST00000437079,NM_001009921.2;VPS8,intron_variant,,ENST00000436792,;VPS8,intron_variant,,ENST00000446204,;VPS8,downstream_gene_variant,,ENST00000463687,;VPS8,intron_variant,,ENST00000492449,;"	"A"	"ENSG00000156931"	"ENST00000437079"	"Transcript"	"intron_variant"	"-/5047"	"-/4287"	"-/1428"	""	""	""	"1"	NA	1	"VPS8"	"HGNC"	29122	"protein_coding"	"YES"	"CCDS46971.1"	"ENSP00000397879"	"Q8N3P4"	"C9JPI1,C9JKL0,C9JIA0"	"UPI0000160BDC"	"NM_001009921.2"	""	""	""	"34/47"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"2404a1ae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"14289"	"ST6GAL1"	6480	"mskcc.org"	"GRCh37"	"3"	186715832	186715832	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-183+34118A>T"	""	""	"ENST00000169298"	""	104	"97"	7	48	"48"	0	"ST6GAL1,intron_variant,,ENST00000169298,NM_173216.2;ST6GAL1,intron_variant,,ENST00000457772,NM_173217.2;ST6GAL1,intron_variant,,ENST00000448408,;ST6GAL1,intron_variant,,ENST00000417392,;ST6GAL1,intron_variant,,ENST00000438590,;ST6GAL1,intron_variant,,ENST00000455441,;ST6GAL1,intron_variant,,ENST00000427315,;ST6GAL1,intron_variant,,ENST00000458216,;ST6GAL1,intron_variant,,ENST00000430309,;ST6GAL1,intron_variant,,ENST00000485105,;"	"T"	"ENSG00000073849"	"ENST00000169298"	"Transcript"	"intron_variant"	"-/4645"	"-/1221"	"-/406"	""	""	""	"1"	NA	1	"ST6GAL1"	"HGNC"	10860	"protein_coding"	"YES"	"CCDS3285.1"	"ENSP00000169298"	"P15907"	"C9K0R8,C9JVK7,C9JTR0,C9JR47,C9JPG6,C9JKG0,C9JI90,C9JH16,C9JFM4,C9JAT4,C9J6X5,C9IYS8,B2R513"	"UPI000000D97B"	"NM_173216.2"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"24053efc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0673076923076923	"WGS"	FALSE
"14290"	"RPL39L"	116832	"mskcc.org"	"GRCh37"	"3"	186870023	186870023	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-93+21381C>A"	""	""	"ENST00000433055"	""	69	"61"	8	49	"49"	0	"RPL39L,intron_variant,,ENST00000433055,;"	"T"	"ENSG00000163923"	"ENST00000433055"	"Transcript"	"intron_variant"	"-/749"	"-/156"	"-/51"	""	""	""	"1"	NA	-1	"RPL39L"	"HGNC"	17094	"protein_coding"	""	"CCDS3286.1"	"ENSP00000389356"	"Q96EH5"	""	"UPI0000001BE0"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"240543d4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115942028985507	"WGS"	FALSE
"14291"	"ACAP2"	23527	"mskcc.org"	"GRCh37"	"3"	195014656	195014656	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1765+792T>A"	""	""	"ENST00000326793"	""	67	"62"	5	32	"32"	0	"ACAP2,intron_variant,,ENST00000326793,NM_012287.5;ACAP2,intron_variant,,ENST00000450200,;ACAP2,downstream_gene_variant,,ENST00000475905,;ACAP2,downstream_gene_variant,,ENST00000484296,;ACAP2,upstream_gene_variant,,ENST00000466876,;"	"T"	"ENSG00000114331"	"ENST00000326793"	"Transcript"	"intron_variant"	"-/7160"	"-/2337"	"-/778"	""	""	""	"1"	NA	-1	"ACAP2"	"HGNC"	16469	"protein_coding"	"YES"	"CCDS33924.1"	"ENSP00000324287"	"Q15057"	"C9J8L1"	"UPI0000141A1A"	"NM_012287.5"	""	""	""	"18/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"2406b73c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0746268656716418	"WGS"	FALSE
"14292"	"ACAP2"	23527	"mskcc.org"	"GRCh37"	"3"	195014658	195014658	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1765+790A>G"	""	""	"ENST00000326793"	""	67	"60"	7	31	"31"	0	"ACAP2,intron_variant,,ENST00000326793,NM_012287.5;ACAP2,intron_variant,,ENST00000450200,;ACAP2,downstream_gene_variant,,ENST00000475905,;ACAP2,downstream_gene_variant,,ENST00000484296,;ACAP2,upstream_gene_variant,,ENST00000466876,;"	"C"	"ENSG00000114331"	"ENST00000326793"	"Transcript"	"intron_variant"	"-/7160"	"-/2337"	"-/778"	""	""	""	"1"	NA	-1	"ACAP2"	"HGNC"	16469	"protein_coding"	"YES"	"CCDS33924.1"	"ENSP00000324287"	"Q15057"	"C9J8L1"	"UPI0000141A1A"	"NM_012287.5"	""	""	""	"18/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"2406b85e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104477611940299	"WGS"	FALSE
"14293"	"MUC4"	4585	"mskcc.org"	"GRCh37"	"3"	195513477	195513477	"+"	"Silent"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4974C>T"	"p.="	"p.S1658S"	"ENST00000463781"	"2/25"	36	"31"	5	16	"16"	0	"MUC4,synonymous_variant,p.=,ENST00000463781,NM_018406.6;MUC4,synonymous_variant,p.=,ENST00000475231,;MUC4,intron_variant,,ENST00000346145,NM_004532.5;MUC4,intron_variant,,ENST00000349607,NM_138297.4;MUC4,synonymous_variant,p.=,ENST00000478156,;MUC4,synonymous_variant,p.=,ENST00000466475,;MUC4,synonymous_variant,p.=,ENST00000477756,;MUC4,synonymous_variant,p.=,ENST00000477086,;MUC4,synonymous_variant,p.=,ENST00000480843,;MUC4,synonymous_variant,p.=,ENST00000462323,;MUC4,synonymous_variant,p.=,ENST00000470451,;MUC4,synonymous_variant,p.=,ENST00000479406,;"	"A"	"ENSG00000145113"	"ENST00000463781"	"Transcript"	"synonymous_variant"	"5434/17110"	"4974/16239"	"1658/5412"	"S"	"tcC/tcT"	""	"1"	NA	-1	"MUC4"	"HGNC"	7514	"protein_coding"	"YES"	"CCDS54700.1"	"ENSP00000417498"	""	"O75456,E9PDY6"	"UPI0001B3CB30"	"NM_018406.6"	""	""	"2/25"	""	"hmmpanther:PTHR13802,hmmpanther:PTHR13802:SF41"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"2407e170-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138888888888889	"WGS"	FALSE
"14294"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	195895027	195895027	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"57"	6	31	"31"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"24088b5c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"14295"	"PCYT1A"	5130	"mskcc.org"	"GRCh37"	"3"	195993101	195993101	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.117+4185A>G"	""	""	"ENST00000292823"	""	88	"80"	8	32	"32"	0	"PCYT1A,intron_variant,,ENST00000292823,NM_005017.2;PCYT1A,intron_variant,,ENST00000431016,;PCYT1A,intron_variant,,ENST00000419333,;PCYT1A,intron_variant,,ENST00000411591,;PCYT1A,intron_variant,,ENST00000441879,;PCYT1A,intron_variant,,ENST00000443555,;PCYT1A,intron_variant,,ENST00000412869,;PCYT1A,intron_variant,,ENST00000491544,;PCYT1A,intron_variant,,ENST00000473978,;PCYT1A,intron_variant,,ENST00000460677,;PCYT1A,intron_variant,,ENST00000444822,;RP11-447L10.1,intron_variant,,ENST00000431391,;PCYT1A,intron_variant,,ENST00000438634,;"	"C"	"ENSG00000161217"	"ENST00000292823"	"Transcript"	"intron_variant"	"-/5597"	"-/1104"	"-/367"	""	""	""	"1"	NA	-1	"PCYT1A"	"HGNC"	8754	"protein_coding"	"YES"	"CCDS3315.1"	"ENSP00000292823"	"P49585"	"C9JVS0,C9JPY0,C9J050"	"UPI000000DB72"	"NM_005017.2"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"24089b92-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"14296"	"PCYT1A"	5130	"mskcc.org"	"GRCh37"	"3"	196012715	196012715	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-75+1771G>T"	""	""	"ENST00000292823"	""	93	"86"	7	46	"46"	0	"PCYT1A,intron_variant,,ENST00000292823,NM_005017.2;PCYT1A,intron_variant,,ENST00000431016,;PCYT1A,intron_variant,,ENST00000411591,;PCYT1A,intron_variant,,ENST00000441879,;PCYT1A,intron_variant,,ENST00000443555,;PCYT1A,intron_variant,,ENST00000412869,;PCYT1A,intron_variant,,ENST00000491544,;PCYT1A,intron_variant,,ENST00000473978,;PCYT1A,intron_variant,,ENST00000460677,;PCYT1A,intron_variant,,ENST00000444822,;RP11-447L10.1,intron_variant,,ENST00000431391,;PCYT1A,intron_variant,,ENST00000438634,;"	"A"	"ENSG00000161217"	"ENST00000292823"	"Transcript"	"intron_variant"	"-/5597"	"-/1104"	"-/367"	""	""	""	"1"	NA	-1	"PCYT1A"	"HGNC"	8754	"protein_coding"	"YES"	"CCDS3315.1"	"ENSP00000292823"	"P49585"	"C9JVS0,C9JPY0,C9J050"	"UPI000000DB72"	"NM_005017.2"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"2408a1f0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"14297"	"NRROS"	375387	"mskcc.org"	"GRCh37"	"3"	196382063	196382063	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.108+545G>A"	""	""	"ENST00000328557"	""	70	"61"	9	41	"41"	0	"NRROS,intron_variant,,ENST00000328557,NM_198565.1;PIGX,intron_variant,,ENST00000426755,;NRROS,downstream_gene_variant,,ENST00000461791,;"	"A"	"ENSG00000174004"	"ENST00000328557"	"Transcript"	"intron_variant"	"-/2564"	"-/2079"	"-/692"	""	""	""	"1"	NA	1	"NRROS"	"HGNC"	24613	"protein_coding"	"YES"	"CCDS3319.1"	"ENSP00000328625"	"Q86YC3"	""	"UPI000000DA7E"	"NM_198565.1"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"2408da6c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128571428571429	"WGS"	FALSE
"14298"	"PIGX"	54965	"mskcc.org"	"GRCh37"	"3"	196411624	196411624	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-12+30106T>G"	""	""	"ENST00000426755"	""	106	"98"	8	56	"56"	0	"PIGX,intron_variant,,ENST00000426755,;"	"G"	"ENSG00000163964"	"ENST00000426755"	"Transcript"	"intron_variant"	"-/744"	"-/511"	"-/170"	""	""	""	"1"	NA	1	"PIGX"	"HGNC"	26046	"protein_coding"	""	""	"ENSP00000409073"	""	"C9JLT7,C9JF71"	"UPI000198CC79"	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"2408deb8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0754716981132075	"WGS"	FALSE
"14299"	"KIAA0226"	9711	"mskcc.org"	"GRCh37"	"3"	197441260	197441260	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.219+3588A>T"	""	""	"ENST00000296343"	""	93	"86"	7	48	"48"	0	"KIAA0226,intron_variant,,ENST00000273582,NM_001145642.2;KIAA0226,intron_variant,,ENST00000413360,;KIAA0226,intron_variant,,ENST00000389665,;KIAA0226,intron_variant,,ENST00000296343,NM_014687.1;KIAA0226,intron_variant,,ENST00000449205,;KIAA0226,intron_variant,,ENST00000467303,;KIAA0226,intron_variant,,ENST00000474214,;"	"A"	"ENSG00000145016"	"ENST00000296343"	"Transcript"	"intron_variant"	"-/2919"	"-/2919"	"-/972"	""	""	""	"1"	NA	-1	"KIAA0226"	"HGNC"	28991	"protein_coding"	"YES"	"CCDS43195.1"	"ENSP00000296343"	"Q92622"	"B4DIJ0"	"UPI00001C1DE4"	"NM_014687.1"	""	""	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"2409bf72-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"14300"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	557950	557950	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"52"	4	32	"32"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"240adb8c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"14301"	"MAEA"	10296	"mskcc.org"	"GRCh37"	"4"	1289566	1289566	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs112613444"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.69+5796C>T"	""	""	"ENST00000303400"	""	43	"35"	8	23	"23"	0	"MAEA,intron_variant,,ENST00000303400,NM_001017405.1;MAEA,intron_variant,,ENST00000264750,NM_005882.3;MAEA,intron_variant,,ENST00000514708,;MAEA,intron_variant,,ENST00000505177,;MAEA,intron_variant,,ENST00000452175,;MAEA,intron_variant,,ENST00000503653,;MAEA,intron_variant,,ENST00000502558,;MAEA,intron_variant,,ENST00000503693,;MAEA,upstream_gene_variant,,ENST00000510862,;MAEA,intron_variant,,ENST00000509531,;MAEA,intron_variant,,ENST00000512308,;MAEA,intron_variant,,ENST00000508634,;MAEA,intron_variant,,ENST00000509254,;MAEA,intron_variant,,ENST00000513301,;"	"T"	"ENSG00000090316"	"ENST00000303400"	"Transcript"	"intron_variant"	"-/2222"	"-/1191"	"-/396"	""	""	"rs112613444"	"1"	NA	1	"MAEA"	"HGNC"	13731	"protein_coding"	"YES"	"CCDS33936.1"	"ENSP00000302830"	"Q7L5Y9"	"D6RID6,D3DVP1,B4DQT1,B3KXS8"	"UPI00000343F4"	"NM_001017405.1"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"240b8f50-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186046511627907	"WGS"	FALSE
"14302"	"RP11-503N18.3"	0	"mskcc.org"	"GRCh37"	"4"	2458035	2458035	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.397-2415T>C"	""	""	"ENST00000506607"	""	78	"70"	8	53	"53"	0	"RP11-503N18.3,intron_variant,,ENST00000506607,;"	"C"	"ENSG00000249428"	"ENST00000506607"	"Transcript"	"intron_variant"	"-/1398"	"-/1380"	"-/459"	""	""	""	"1"	NA	1	"RP11-503N18.3"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000425050"	""	"D6REC4"	"UPI0001662080"	""	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"240c47c4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"14303"	"RP11-503N18.3"	0	"mskcc.org"	"GRCh37"	"4"	2458042	2458042	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.397-2408A>G"	""	""	"ENST00000506607"	""	76	"69"	7	47	"47"	0	"RP11-503N18.3,intron_variant,,ENST00000506607,;"	"G"	"ENSG00000249428"	"ENST00000506607"	"Transcript"	"intron_variant"	"-/1398"	"-/1380"	"-/459"	""	""	""	"1"	NA	1	"RP11-503N18.3"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000425050"	""	"D6REC4"	"UPI0001662080"	""	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"240c486e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"14304"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	5006116	5006116	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"64"	8	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"240d73d8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"14305"	"AFAP1"	60312	"mskcc.org"	"GRCh37"	"4"	7927445	7927445	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-3+13938C>T"	""	""	"ENST00000420658"	""	98	"87"	11	46	"46"	0	"AFAP1,intron_variant,,ENST00000420658,NM_001134647.1;AFAP1,intron_variant,,ENST00000358461,NM_198595.2;"	"A"	"ENSG00000196526"	"ENST00000420658"	"Transcript"	"intron_variant"	"-/7768"	"-/2445"	"-/814"	""	""	""	"1"	NA	-1	"AFAP1"	"HGNC"	24017	"protein_coding"	"YES"	"CCDS47010.1"	"ENSP00000410689"	"Q8N556"	""	"UPI000048041E"	"NM_001134647.1"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"240eb55e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112244897959184	"WGS"	FALSE
"14306"	"CPZ"	8532	"mskcc.org"	"GRCh37"	"4"	8602780	8602780	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs559575419"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.122-70C>T"	""	""	"ENST00000360986"	""	104	"72"	32	28	"28"	0	"CPZ,5_prime_UTR_variant,,ENST00000382480,NM_001014448.2;CPZ,intron_variant,,ENST00000360986,NM_001014447.2;CPZ,intron_variant,,ENST00000315782,NM_003652.3;CPZ,upstream_gene_variant,,ENST00000429646,;CPZ,intron_variant,,ENST00000506287,;CPZ,intron_variant,,ENST00000504070,;CPZ,3_prime_UTR_variant,,ENST00000515606,;CPZ,non_coding_transcript_exon_variant,,ENST00000514602,;GPR78,intron_variant,,ENST00000514302,;GPR78,upstream_gene_variant,,ENST00000513120,;CPZ,downstream_gene_variant,,ENST00000514875,;"	"T"	"ENSG00000109625"	"ENST00000360986"	"Transcript"	"intron_variant"	"-/2267"	"-/1959"	"-/652"	""	""	"rs559575419"	"1"	NA	1	"CPZ"	"HGNC"	2333	"protein_coding"	"YES"	"CCDS33953.1"	"ENSP00000354255"	"Q66K79"	""	"UPI000020BCC5"	"NM_001014447.2"	""	""	""	"2/10"	""	"T:0.0016"	"T:0.0061"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"240ee114-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"14307"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	10861612	10861612	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"64"	33	62	"62"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"240f9dfc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34020618556701	"WGS"	FALSE
"14308"	"RP11-1J7.1"	0	"mskcc.org"	"GRCh37"	"4"	11924722	11924722	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000514103"	""	72	"43"	29	51	"51"	0	"RP11-1J7.1,downstream_gene_variant,,ENST00000514103,;"	"T"	"ENSG00000248262"	"ENST00000514103"	"Transcript"	"downstream_gene_variant"	"-/423"	""	""	""	""	""	"1"	"3410"	1	"RP11-1J7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"240fc566-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.402777777777778	"WGS"	FALSE
"14309"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	12337187	12337187	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs561064610"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"50"	26	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs561064610"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"240fdcfe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342105263157895	"WGS"	FALSE
"14310"	"PROM1"	8842	"mskcc.org"	"GRCh37"	"4"	16082019	16082019	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-213+3269G>T"	""	""	"ENST00000510224"	""	62	"54"	8	46	"46"	0	"PROM1,intron_variant,,ENST00000505450,NM_001145848.1;PROM1,intron_variant,,ENST00000508167,NM_001145847.1;PROM1,intron_variant,,ENST00000510224,;PROM1,intron_variant,,ENST00000543373,;PROM1,intron_variant,,ENST00000514967,;PROM1,intron_variant,,ENST00000508940,;PROM1,intron_variant,,ENST00000508322,;PROM1,upstream_gene_variant,,ENST00000447510,NM_006017.2;PROM1,upstream_gene_variant,,ENST00000540805,NM_001145849.1,NM_001145851.1;PROM1,upstream_gene_variant,,ENST00000539194,NM_001145850.1,NM_001145852.1;PROM1,intron_variant,,ENST00000502501,;PROM1,intron_variant,,ENST00000513108,;PROM1,intron_variant,,ENST00000512304,;PROM1,intron_variant,,ENST00000514693,;PROM1,intron_variant,,ENST00000504842,;PROM1,upstream_gene_variant,,ENST00000511153,;"	"A"	"ENSG00000007062"	"ENST00000510224"	"Transcript"	"intron_variant"	"-/4006"	"-/2598"	"-/865"	""	""	""	"1"	NA	-1	"PROM1"	"HGNC"	9454	"protein_coding"	"YES"	"CCDS47029.1"	"ENSP00000426809"	"O43490"	"D6RIF3,D6RBI0"	"UPI000004ECD6"	""	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"2410581e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"14311"	"LDB2"	9079	"mskcc.org"	"GRCh37"	"4"	16500458	16500458	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000304523"	""	70	"59"	11	40	"40"	0	"LDB2,downstream_gene_variant,,ENST00000502640,;LDB2,downstream_gene_variant,,ENST00000304523,NM_001290.3;LDB2,downstream_gene_variant,,ENST00000441778,NM_001130834.1;LDB2,downstream_gene_variant,,ENST00000515064,;LDB2,downstream_gene_variant,,ENST00000507464,;LDB2,downstream_gene_variant,,ENST00000503178,;RP11-446J8.1,intron_variant,,ENST00000512370,;LDB2,downstream_gene_variant,,ENST00000509803,;LDB2,downstream_gene_variant,,ENST00000508918,;"	"A"	"ENSG00000169744"	"ENST00000304523"	"Transcript"	"downstream_gene_variant"	"-/2548"	"-/1122"	"-/373"	""	""	""	"1"	"2706"	-1	"LDB2"	"HGNC"	6533	"protein_coding"	"YES"	"CCDS3420.1"	"ENSP00000306772"	"O43679"	"Q4W5E7,D6RAT1"	"UPI0000073D86"	"NM_001290.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"24106476-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157142857142857	"WGS"	FALSE
"14312"	"ENSR00001237505"	0	"mskcc.org"	"GRCh37"	"4"	17349039	17349039	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001237505"	""	68	"40"	28	42	"42"	0	""	"T"	""	"ENSR00001237505"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"24108c62-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411764705882353	"WGS"	FALSE
"14313"	"SLIT2"	9353	"mskcc.org"	"GRCh37"	"4"	20367119	20367119	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.395+96615G>A"	""	""	"ENST00000504154"	""	89	"63"	26	49	"49"	0	"SLIT2,intron_variant,,ENST00000504154,NM_004787.1;SLIT2,intron_variant,,ENST00000503823,;SLIT2,intron_variant,,ENST00000273739,;SLIT2,intron_variant,,ENST00000503837,;SLIT2,intron_variant,,ENST00000508824,;"	"A"	"ENSG00000145147"	"ENST00000504154"	"Transcript"	"intron_variant"	"-/6390"	"-/4590"	"-/1529"	""	""	""	"1"	NA	1	"SLIT2"	"HGNC"	11086	"protein_coding"	"YES"	"CCDS3426.1"	"ENSP00000422591"	"O94813"	"Q4W5N0,Q4W5K2,B3KNE2"	"UPI00000747E4"	"NM_004787.1"	""	""	""	"4/36"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"24110ba6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292134831460674	"WGS"	FALSE
"14314"	"RP11-412P11.1"	0	"mskcc.org"	"GRCh37"	"4"	22996379	22996379	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000511453"	""	97	"90"	7	54	"54"	0	"RP11-412P11.1,upstream_gene_variant,,ENST00000511453,;RP11-412P11.1,upstream_gene_variant,,ENST00000503017,;"	"A"	"ENSG00000248837"	"ENST00000511453"	"Transcript"	"upstream_gene_variant"	"-/1309"	""	""	""	""	""	"1"	"2795"	1	"RP11-412P11.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"24114f4e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0721649484536082	"WGS"	FALSE
"14315"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	25555923	25555923	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"69"	34	43	"43"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"2411ba1a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330097087378641	"WGS"	FALSE
"14316"	"RP13-494C23.1"	0	"mskcc.org"	"GRCh37"	"4"	25873463	25873463	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000503085"	""	68	"62"	6	38	"38"	0	"RP13-494C23.1,upstream_gene_variant,,ENST00000503085,;SMIM20,intron_variant,,ENST00000515764,;"	"T"	"ENSG00000251009"	"ENST00000503085"	"Transcript"	"upstream_gene_variant"	"-/762"	""	""	""	""	""	"1"	"2291"	-1	"RP13-494C23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"2411d112-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"14317"	"ENSR00001430292"	0	"mskcc.org"	"GRCh37"	"4"	26031472	26031472	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001430292"	""	89	"60"	29	55	"55"	0	""	"T"	""	"ENSR00001430292"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"2411dfa4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325842696629214	"WGS"	FALSE
"14318"	"STIM2"	57620	"mskcc.org"	"GRCh37"	"4"	26879503	26879503	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.151+16512T>A"	""	""	"ENST00000465503"	""	73	"54"	19	50	"50"	0	"STIM2,intron_variant,,ENST00000382009,NM_001169118.1;STIM2,intron_variant,,ENST00000237364,;STIM2,intron_variant,,ENST00000467087,NM_020860.3;STIM2,intron_variant,,ENST00000467011,NM_001169117.1;STIM2,intron_variant,,ENST00000412829,;STIM2,intron_variant,,ENST00000465503,;STIM2,intron_variant,,ENST00000463501,;STIM2,intron_variant,,ENST00000494628,;STIM2,intron_variant,,ENST00000478049,;RP11-293A21.2,upstream_gene_variant,,ENST00000511723,;"	"A"	"ENSG00000109689"	"ENST00000465503"	"Transcript"	"intron_variant"	"-/3613"	"-/2265"	"-/754"	""	""	""	"1"	NA	1	"STIM2"	"HGNC"	19205	"protein_coding"	"YES"	"CCDS54751.1"	"ENSP00000417569"	""	"R4GNC5,R4GN82,R4GMP0,Q05BJ5,H0Y860"	"UPI0001B79443"	""	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"24121492-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26027397260274	"WGS"	FALSE
"14319"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	27065913	27065913	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"63"	51	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"24121c76-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.447368421052632	"WGS"	FALSE
"14320"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	27574432	27574432	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"90"	13	60	"60"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"24123116-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12621359223301	"WGS"	FALSE
"14321"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	28166067	28166067	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"64"	41	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"24124be2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.39047619047619	"WGS"	FALSE
"14322"	"RP11-180C1.1"	0	"mskcc.org"	"GRCh37"	"4"	28364932	28364932	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.212-718A>T"	""	""	"ENST00000507759"	""	96	"61"	35	60	"60"	0	"RP11-180C1.1,intron_variant,,ENST00000507759,;"	"A"	"ENSG00000250038"	"ENST00000507759"	"Transcript"	"intron_variant"	"-/726"	"-/309"	"-/102"	""	""	""	"1"	NA	-1	"RP11-180C1.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000426781"	""	"D6REK9"	"UPI0000161302"	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"241252f4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364583333333333	"WGS"	FALSE
"14323"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	28871234	28871234	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	55	"49"	6	28	"28"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"24126ac8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109090909090909	"WGS"	FALSE
"14324"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	28957486	28957486	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"63"	28	52	"52"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"241271c6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"14325"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	30526251	30526251	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"66"	6	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"24129a16-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"14326"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	35045147	35045147	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"67"	27	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"241308ca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287234042553192	"WGS"	FALSE
"14327"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	36814038	36814038	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"rs760775467"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"57"	44	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs760775467"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"241335ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.435643564356436	"WGS"	FALSE
"14328"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	40015806	40015806	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"72"	8	29	"29"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"24141c60-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"14329"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	40016115	40016115	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"107"	10	38	"38"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"24141dbe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0854700854700855	"WGS"	FALSE
"14330"	"RP11-333E13.4"	344967	"mskcc.org"	"GRCh37"	"4"	40041159	40041159	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000381811"	""	99	"91"	8	33	"33"	0	"RP11-333E13.4,downstream_gene_variant,,ENST00000381811,;RP11-333E13.4,downstream_gene_variant,,ENST00000507914,;"	"G"	"ENSG00000205794"	"ENST00000381811"	"Transcript"	"downstream_gene_variant"	"-/1613"	""	""	""	""	""	"1"	"3378"	-1	"RP11-333E13.4"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"2414249e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0808080808080808	"WGS"	FALSE
"14331"	"RBM47"	54502	"mskcc.org"	"GRCh37"	"4"	40502262	40502262	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-155+14271C>G"	""	""	"ENST00000381793"	""	90	"81"	9	41	"41"	0	"RBM47,intron_variant,,ENST00000319592,;RBM47,intron_variant,,ENST00000381793,;RBM47,intron_variant,,ENST00000381795,NM_019027.3;RBM47,intron_variant,,ENST00000295971,NM_001098634.1;RBM47,intron_variant,,ENST00000514014,;RBM47,intron_variant,,ENST00000515053,;RBM47,intron_variant,,ENST00000513473,;RBM47,intron_variant,,ENST00000505414,;RBM47,intron_variant,,ENST00000511598,;RBM47,intron_variant,,ENST00000514782,;RBM47,intron_variant,,ENST00000505220,;RBM47,intron_variant,,ENST00000511902,;MIR4802,downstream_gene_variant,,ENST00000581881,;RBM47,intron_variant,,ENST00000510871,;"	"C"	"ENSG00000163694"	"ENST00000381793"	"Transcript"	"intron_variant"	"-/4816"	"-/1782"	"-/593"	""	""	""	"1"	NA	-1	"RBM47"	"HGNC"	30358	"protein_coding"	"YES"	"CCDS43223.1"	"ENSP00000371212"	"A0AV96"	"D6RFL5,D6REZ6,D6RCT1,D6RBS9,D6RBP6,D6RA49,D6R9M7,B7Z8Z7"	"UPI000020BBEC"	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"241440e6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"14332"	"KCTD8"	386617	"mskcc.org"	"GRCh37"	"4"	44305660	44305660	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.962-128393G>C"	""	""	"ENST00000360029"	""	81	"76"	5	40	"40"	0	"KCTD8,intron_variant,,ENST00000360029,NM_198353.2;KCTD8,intron_variant,,ENST00000515268,;"	"G"	"ENSG00000183783"	"ENST00000360029"	"Transcript"	"intron_variant"	"-/2587"	"-/1422"	"-/473"	""	""	""	"1"	NA	-1	"KCTD8"	"HGNC"	22394	"protein_coding"	"YES"	"CCDS3467.1"	"ENSP00000353129"	"Q6ZWB6"	"B4DQJ9"	"UPI00001C08D6"	"NM_198353.2"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"2414f3ec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"14333"	"TEC"	7006	"mskcc.org"	"GRCh37"	"4"	48183595	48183595	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.139-5392G>T"	""	""	"ENST00000381501"	""	79	"47"	32	55	"54"	1	"TEC,intron_variant,,ENST00000381501,NM_003215.2;TEC,intron_variant,,ENST00000505452,;"	"A"	"ENSG00000135605"	"ENST00000381501"	"Transcript"	"intron_variant"	"-/3687"	"-/1896"	"-/631"	""	""	""	"1"	NA	-1	"TEC"	"HGNC"	11719	"protein_coding"	"YES"	"CCDS3481.1"	"ENSP00000370912"	"P42680"	"Q14219"	"UPI000013CFAE"	"NM_003215.2"	""	""	""	"2/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"24157268-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.40506329113924	"WGS"	FALSE
"14334"	"DCUN1D4"	23142	"mskcc.org"	"GRCh37"	"4"	52768036	52768036	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.615+2492G>C"	""	""	"ENST00000334635"	""	125	"84"	41	54	"54"	0	"DCUN1D4,intron_variant,,ENST00000334635,NM_001040402.1,NM_001287757.1,NM_001287755.1;DCUN1D4,intron_variant,,ENST00000381441,NM_015115.2;DCUN1D4,intron_variant,,ENST00000381437,;DCUN1D4,intron_variant,,ENST00000451288,;DCUN1D4,intron_variant,,ENST00000510808,;DCUN1D4,intron_variant,,ENST00000507659,;DCUN1D4,intron_variant,,ENST00000510587,;DCUN1D4,intron_variant,,ENST00000477560,;DCUN1D4,intron_variant,,ENST00000509376,;DCUN1D4,intron_variant,,ENST00000507741,;DCUN1D4,intron_variant,,ENST00000505634,;DCUN1D4,intron_variant,,ENST00000512199,;"	"C"	"ENSG00000109184"	"ENST00000334635"	"Transcript"	"intron_variant"	"-/4312"	"-/879"	"-/292"	""	""	""	"1"	NA	1	"DCUN1D4"	"HGNC"	28998	"protein_coding"	"YES"	"CCDS33982.1"	"ENSP00000334625"	"Q92564"	"B4DH26"	"UPI00001C1E10"	"NM_001040402.1,NM_001287757.1,NM_001287755.1"	""	""	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"241d848a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.328	"WGS"	FALSE
"14335"	"FIP1L1"	81608	"mskcc.org"	"GRCh37"	"4"	54652067	54652067	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1017+359935C>G"	""	""	"ENST00000507166"	""	96	"69"	27	51	"51"	0	"FIP1L1,intron_variant,,ENST00000507166,;"	"G"	"ENSG00000145216"	"ENST00000507166"	"Transcript"	"intron_variant"	"-/2550"	"-/2550"	"-/849"	""	""	""	"1"	NA	1	"FIP1L1"	"HGNC"	19124	"protein_coding"	""	""	"ENSP00000423325"	"Q6UN15"	""	"UPI00001AA722"	""	""	""	""	"12/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"241dea42-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28125	"WGS"	TRUE
"14336"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	57644362	57644362	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"61"	6	23	"23"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"241e78cc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0895522388059701	"WGS"	FALSE
"14337"	"IGFBP7-AS1"	255130	"mskcc.org"	"GRCh37"	"4"	58031765	58031765	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.210-22571C>A"	""	""	"ENST00000499667"	""	92	"71"	21	58	"58"	0	"IGFBP7-AS1,intron_variant,,ENST00000499667,;IGFBP7-AS1,intron_variant,,ENST00000508328,;"	"A"	"ENSG00000245067"	"ENST00000499667"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1389"	""	""	""	""	""	"1"	NA	1	"IGFBP7-AS1"	"HGNC"	40296	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"241e9e60-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228260869565217	"WGS"	FALSE
"14338"	"ENSR00001241787"	0	"mskcc.org"	"GRCh37"	"4"	58271236	58271236	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001241787"	""	93	"63"	30	67	"67"	0	""	"A"	""	"ENSR00001241787"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"241eabf8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32258064516129	"WGS"	FALSE
"14339"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	60581665	60581665	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"79"	18	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"241ef8ba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185567010309278	"WGS"	FALSE
"14340"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	60706570	60706570	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"47"	21	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"241efc3e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308823529411765	"WGS"	FALSE
"14341"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	64720310	64720310	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"51"	27	38	"38"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"241f710a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"14342"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	66117674	66117674	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"100"	6	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"241fb390-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0566037735849057	"WGS"	FALSE
"14343"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	67395097	67395097	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"70"	26	31	"31"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"241fd78a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270833333333333	"WGS"	FALSE
"14344"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	67632226	67632226	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"56"	38	47	"46"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"241fdbae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.404255319148936	"WGS"	FALSE
"14345"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	73101403	73101403	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs766619023"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"58"	33	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs766619023"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"2420a32c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.362637362637363	"WGS"	FALSE
"14346"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	74430528	74430528	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	65	"35"	30	35	"35"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"2420d388-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.461538461538462	"WGS"	FALSE
"14347"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	75779749	75779749	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"59"	24	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"2420ff66-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289156626506024	"WGS"	FALSE
"14348"	"CDKL2"	8999	"mskcc.org"	"GRCh37"	"4"	76528435	76528435	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.795+566G>A"	""	""	"ENST00000429927"	""	62	"56"	6	32	"32"	0	"CDKL2,intron_variant,,ENST00000429927,NM_003948.3;CDKL2,intron_variant,,ENST00000307465,;CDKL2,intron_variant,,ENST00000506234,;"	"T"	"ENSG00000138769"	"ENST00000429927"	"Transcript"	"intron_variant"	"-/3383"	"-/1482"	"-/493"	""	""	""	"1"	NA	-1	"CDKL2"	"HGNC"	1782	"protein_coding"	"YES"	"CCDS3570.1"	"ENSP00000412365"	"Q92772"	""	"UPI000006D070"	"NM_003948.3"	""	""	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"242122ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"14349"	"G3BP2"	9908	"mskcc.org"	"GRCh37"	"4"	76625849	76625849	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-25+23611A>T"	""	""	"ENST00000511868"	""	64	"60"	4	33	"33"	0	"G3BP2,intron_variant,,ENST00000511868,;G3BP2,intron_variant,,ENST00000509561,;G3BP2,intron_variant,,ENST00000508510,;G3BP2,intron_variant,,ENST00000499709,;"	"A"	"ENSG00000138757"	"ENST00000511868"	"Transcript"	"intron_variant"	"-/573"	"-/299"	"-/99"	""	""	""	"1"	NA	-1	"G3BP2"	"HGNC"	30291	"protein_coding"	""	""	"ENSP00000421621"	""	"D6REX8,D6RBM9,D6R9X5,D6R9A4"	"UPI0001D3B4BD"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"24212de2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"14350"	"SHROOM3"	57619	"mskcc.org"	"GRCh37"	"4"	77628012	77628012	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.324-3297C>A"	""	""	"ENST00000296043"	""	86	"50"	36	48	"48"	0	"SHROOM3,intron_variant,,ENST00000296043,NM_020859.3;SHROOM3,intron_variant,,ENST00000469923,;SHROOM3,intron_variant,,ENST00000481002,;SHROOM3,upstream_gene_variant,,ENST00000473602,;SHROOM3,intron_variant,,ENST00000486758,;"	"A"	"ENSG00000138771"	"ENST00000296043"	"Transcript"	"intron_variant"	"-/11020"	"-/5991"	"-/1996"	""	""	""	"1"	NA	1	"SHROOM3"	"HGNC"	30422	"protein_coding"	"YES"	"CCDS3579.2"	"ENSP00000296043"	"Q8TF72"	""	"UPI0000E5AC1C"	"NM_020859.3"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"24215f92-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.418604651162791	"WGS"	FALSE
"14351"	"CNOT6L"	246175	"mskcc.org"	"GRCh37"	"4"	78721257	78721257	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5+19201G>A"	""	""	"ENST00000264903"	""	85	"56"	29	56	"56"	0	"CNOT6L,intron_variant,,ENST00000504123,NM_001286790.1;CNOT6L,intron_variant,,ENST00000264903,NM_144571.2;CNOT6L,intron_variant,,ENST00000515506,;CNOT6L,intron_variant,,ENST00000512485,;CNOT6L,intron_variant,,ENST00000515441,;CNOT6L,intron_variant,,ENST00000506166,;CNOT6L,intron_variant,,ENST00000504804,;"	"T"	"ENSG00000138767"	"ENST00000264903"	"Transcript"	"intron_variant"	"-/8794"	"-/1668"	"-/555"	""	""	""	"1"	NA	-1	"CNOT6L"	"HGNC"	18042	"protein_coding"	"YES"	"CCDS47082.1"	"ENSP00000264903"	"Q96LI5"	"D6RGK9"	"UPI0000E445DF"	"NM_144571.2"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"24218652-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341176470588235	"WGS"	FALSE
"14352"	"LINC01094"	100505702	"mskcc.org"	"GRCh37"	"4"	79567244	79567244	"+"	"5'Flank"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000503539"	""	84	"52"	32	52	"52"	0	"LINC01094,non_coding_transcript_exon_variant,,ENST00000503259,;LINC01094,non_coding_transcript_exon_variant,,ENST00000514130,;LINC01094,non_coding_transcript_exon_variant,,ENST00000507802,;LINC01094,upstream_gene_variant,,ENST00000503539,;LINC01094,upstream_gene_variant,,ENST00000512322,;LINC01094,upstream_gene_variant,,ENST00000504675,;HIGD1AP13,downstream_gene_variant,,ENST00000509878,;"	"C"	"ENSG00000251442"	"ENST00000503539"	"Transcript"	"upstream_gene_variant"	"-/2186"	""	""	""	""	""	"1"	"94"	1	"LINC01094"	"HGNC"	49219	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"2421a448-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.380952380952381	"WGS"	FALSE
"14353"	"PCAT4"	118425	"mskcc.org"	"GRCh37"	"4"	80768605	80768605	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.134-13839A>T"	""	""	"ENST00000504263"	""	83	"63"	20	63	"63"	0	"PCAT4,intron_variant,,ENST00000504263,;PCAT4,intron_variant,,ENST00000514836,;SNORA75,downstream_gene_variant,,ENST00000391318,;"	"T"	"ENSG00000251321"	"ENST00000504263"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2091"	""	""	""	""	""	"1"	NA	1	"PCAT4"	"HGNC"	24853	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"2421cdc4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240963855421687	"WGS"	FALSE
"14354"	"HELQ"	113510	"mskcc.org"	"GRCh37"	"4"	84329661	84329661	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3199-948G>C"	""	""	"ENST00000295488"	""	115	"74"	41	46	"46"	0	"HELQ,intron_variant,,ENST00000295488,NM_133636.2;HELQ,intron_variant,,ENST00000510985,;HELQ,intron_variant,,ENST00000512539,;HELQ,intron_variant,,ENST00000508591,;"	"G"	"ENSG00000163312"	"ENST00000295488"	"Transcript"	"intron_variant"	"-/3579"	"-/3306"	"-/1101"	""	""	""	"1"	NA	-1	"HELQ"	"HGNC"	18536	"protein_coding"	"YES"	"CCDS3603.1"	"ENSP00000295488"	"Q8TDG4"	""	"UPI000013E25F"	"NM_133636.2"	""	""	""	"17/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"2422628e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.356521739130435	"WGS"	FALSE
"14355"	"RP11-742B18.1"	0	"mskcc.org"	"GRCh37"	"4"	88506162	88506162	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.323-16477G>T"	""	""	"ENST00000506480"	""	75	"54"	21	49	"49"	0	"RP11-742B18.1,intron_variant,,ENST00000506480,;"	"A"	"ENSG00000249001"	"ENST00000506480"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/821"	""	""	""	""	""	"1"	NA	-1	"RP11-742B18.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"24230568-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"14356"	"PKD2"	5311	"mskcc.org"	"GRCh37"	"4"	88954421	88954421	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.710-2951A>C"	""	""	"ENST00000237596"	""	87	"56"	31	54	"53"	1	"PKD2,intron_variant,,ENST00000237596,NM_000297.3;PKD2,intron_variant,,ENST00000506727,;PKD2,upstream_gene_variant,,ENST00000506367,;"	"C"	"ENSG00000118762"	"ENST00000237596"	"Transcript"	"intron_variant"	"-/5056"	"-/2907"	"-/968"	""	""	""	"1"	NA	1	"PKD2"	"HGNC"	9009	"protein_coding"	"YES"	"CCDS3627.1"	"ENSP00000237596"	"Q13563"	"Q9UEU6,B7Z2D4,B4DFN3,B4DE45"	"UPI000013CA1D"	"NM_000297.3"	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"24231800-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35632183908046	"WGS"	FALSE
"14357"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	89170538	89170538	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"82"	7	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"2423248a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	FALSE
"14358"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	89170548	89170548	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"81"	7	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"24232534-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0795454545454545	"WGS"	FALSE
"14359"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	89170553	89170553	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"83"	7	45	"45"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"242325de-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0777777777777778	"WGS"	FALSE
"14360"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	92620404	92620404	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"59"	17	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"242399d8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223684210526316	"WGS"	FALSE
"14361"	"SMARCAD1"	56916	"mskcc.org"	"GRCh37"	"4"	95133429	95133429	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.190+3694G>A"	""	""	"ENST00000359052"	""	96	"88"	8	49	"49"	0	"SMARCAD1,intron_variant,,ENST00000359052,NM_001128430.1;SMARCAD1,intron_variant,,ENST00000354268,;SMARCAD1,intron_variant,,ENST00000457823,NM_001128429.2,NM_020159.4;RP11-363G15.2,upstream_gene_variant,,ENST00000501965,;SMARCAD1,intron_variant,,ENST00000394961,;SMARCAD1,intron_variant,,ENST00000510105,;"	"A"	"ENSG00000163104"	"ENST00000359052"	"Transcript"	"intron_variant"	"-/5017"	"-/3087"	"-/1028"	""	""	""	"1"	NA	1	"SMARCAD1"	"HGNC"	18398	"protein_coding"	"YES"	"CCDS47101.1"	"ENSP00000351947"	"Q9H4L7"	""	"UPI000020B1CF"	"NM_001128430.1"	""	""	""	"2/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"2423e794-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"14362"	"SMARCAD1"	56916	"mskcc.org"	"GRCh37"	"4"	95133451	95133451	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.190+3716G>A"	""	""	"ENST00000359052"	""	93	"84"	9	51	"51"	0	"SMARCAD1,intron_variant,,ENST00000359052,NM_001128430.1;SMARCAD1,intron_variant,,ENST00000354268,;SMARCAD1,intron_variant,,ENST00000457823,NM_001128429.2,NM_020159.4;RP11-363G15.2,upstream_gene_variant,,ENST00000501965,;SMARCAD1,intron_variant,,ENST00000394961,;SMARCAD1,intron_variant,,ENST00000510105,;"	"A"	"ENSG00000163104"	"ENST00000359052"	"Transcript"	"intron_variant"	"-/5017"	"-/3087"	"-/1028"	""	""	""	"1"	NA	1	"SMARCAD1"	"HGNC"	18398	"protein_coding"	"YES"	"CCDS47101.1"	"ENSP00000351947"	"Q9H4L7"	""	"UPI000020B1CF"	"NM_001128430.1"	""	""	""	"2/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGA"	"2423e9a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"14363"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	97906067	97906067	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"64"	35	66	"66"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"24243f32-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.353535353535354	"WGS"	FALSE
"14364"	"STPG2"	285555	"mskcc.org"	"GRCh37"	"4"	98581931	98581931	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs542581877"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1320+51919G>A"	""	""	"ENST00000295268"	""	79	"52"	27	55	"55"	0	"STPG2,intron_variant,,ENST00000522676,;STPG2,intron_variant,,ENST00000295268,NM_174952.2;STPG2,intron_variant,,ENST00000506482,;"	"T"	"ENSG00000163116"	"ENST00000295268"	"Transcript"	"intron_variant"	"-/1652"	"-/1380"	"-/459"	""	""	"rs542581877"	"1"	NA	-1	"STPG2"	"HGNC"	28712	"protein_coding"	"YES"	"CCDS3645.1"	"ENSP00000295268"	"Q8N412"	""	"UPI00000734EC"	"NM_174952.2"	""	""	""	"10/10"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"24244dba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341772151898734	"WGS"	FALSE
"14365"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	100720451	100720451	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs779015294"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"55"	38	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs779015294"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"2424a27e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.408602150537634	"WGS"	FALSE
"14366"	"DAPP1"	27071	"mskcc.org"	"GRCh37"	"4"	100779819	100779819	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.490-2916G>T"	""	""	"ENST00000512369"	""	91	"72"	19	56	"56"	0	"DAPP1,intron_variant,,ENST00000296414,;DAPP1,intron_variant,,ENST00000512369,NM_014395.2;DAPP1,intron_variant,,ENST00000507994,;"	"T"	"ENSG00000070190"	"ENST00000512369"	"Transcript"	"intron_variant"	"-/1440"	"-/843"	"-/280"	""	""	""	"1"	NA	1	"DAPP1"	"HGNC"	16500	"protein_coding"	"YES"	"CCDS47112.1"	"ENSP00000423602"	"Q9UN19"	""	"UPI0000037612"	"NM_014395.2"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"2424a486-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208791208791209	"WGS"	FALSE
"14367"	"AC121157.1"	0	"mskcc.org"	"GRCh37"	"4"	101052338	101052338	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000410264"	""	79	"55"	24	58	"58"	0	"AC121157.1,upstream_gene_variant,,ENST00000410264,;RP11-15B17.1,intron_variant,,ENST00000515026,;"	"A"	"ENSG00000222196"	"ENST00000410264"	"Transcript"	"upstream_gene_variant"	"-/91"	""	""	""	""	""	"1"	"1146"	-1	"AC121157.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"2424b1ce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30379746835443	"WGS"	FALSE
"14368"	"MANBA"	4126	"mskcc.org"	"GRCh37"	"4"	103589790	103589790	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1317+330C>T"	""	""	"ENST00000226578"	""	95	"58"	37	55	"55"	0	"MANBA,intron_variant,,ENST00000226578,NM_005908.3;MANBA,intron_variant,,ENST00000505239,;MANBA,non_coding_transcript_exon_variant,,ENST00000514430,;"	"A"	"ENSG00000109323"	"ENST00000226578"	"Transcript"	"intron_variant"	"-/2904"	"-/2640"	"-/879"	""	""	""	"1"	NA	-1	"MANBA"	"HGNC"	6831	"protein_coding"	"YES"	"CCDS3658.1"	"ENSP00000226578"	"O00462"	""	"UPI000013C8A2"	"NM_005908.3"	""	""	""	"10/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"2424f1ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.389473684210526	"WGS"	FALSE
"14369"	"RP11-710F7.3"	101929577	"mskcc.org"	"GRCh37"	"4"	106933973	106933973	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2886+1372T>C"	""	""	"ENST00000513220"	""	67	"60"	7	28	"28"	0	"RP11-710F7.3,intron_variant,,ENST00000513220,;"	"G"	"ENSG00000249635"	"ENST00000513220"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3526"	""	""	""	""	""	"1"	NA	-1	"RP11-710F7.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"2425825c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104477611940299	"WGS"	FALSE
"14370"	"COL25A1"	84570	"mskcc.org"	"GRCh37"	"4"	109952607	109952607	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs548224003"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.420+16717G>A"	""	""	"ENST00000399132"	""	79	"54"	25	41	"41"	0	"COL25A1,intron_variant,,ENST00000399132,NM_198721.2;COL25A1,intron_variant,,ENST00000399126,NM_032518.2;COL25A1,intron_variant,,ENST00000399127,NM_001256074.1;COL25A1,intron_variant,,ENST00000494183,;"	"T"	"ENSG00000188517"	"ENST00000399132"	"Transcript"	"intron_variant"	"-/2724"	"-/1965"	"-/654"	""	""	"rs548224003"	"1"	NA	-1	"COL25A1"	"HGNC"	18603	"protein_coding"	"YES"	"CCDS43258.1"	"ENSP00000382083"	"Q9BXS0"	"D6R8Y2"	"UPI0000225CD2"	"NM_198721.2"	""	""	""	"5/37"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"2425eff8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316455696202532	"WGS"	FALSE
"14371"	"EGF"	1950	"mskcc.org"	"GRCh37"	"4"	110873026	110873026	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.940+6595A>T"	""	""	"ENST00000265171"	""	92	"63"	29	59	"59"	0	"EGF,intron_variant,,ENST00000265171,NM_001963.4,NM_001178130.1;EGF,intron_variant,,ENST00000509793,NM_001178131.1;EGF,intron_variant,,ENST00000503392,;"	"T"	"ENSG00000138798"	"ENST00000265171"	"Transcript"	"intron_variant"	"-/4880"	"-/3624"	"-/1207"	""	""	""	"1"	NA	1	"EGF"	"HGNC"	3229	"protein_coding"	"YES"	"CCDS3689.1"	"ENSP00000265171"	"P01133"	"Q6QBS2"	"UPI000013D5C8"	"NM_001963.4,NM_001178130.1"	""	""	""	"5/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"242624d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315217391304348	"WGS"	FALSE
"14372"	"EGF"	1950	"mskcc.org"	"GRCh37"	"4"	110873032	110873032	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.940+6601G>T"	""	""	"ENST00000265171"	""	94	"63"	31	60	"59"	1	"EGF,intron_variant,,ENST00000265171,NM_001963.4,NM_001178130.1;EGF,intron_variant,,ENST00000509793,NM_001178131.1;EGF,intron_variant,,ENST00000503392,;"	"T"	"ENSG00000138798"	"ENST00000265171"	"Transcript"	"intron_variant"	"-/4880"	"-/3624"	"-/1207"	""	""	""	"1"	NA	1	"EGF"	"HGNC"	3229	"protein_coding"	"YES"	"CCDS3689.1"	"ENSP00000265171"	"P01133"	"Q6QBS2"	"UPI000013D5C8"	"NM_001963.4,NM_001178130.1"	""	""	""	"5/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"2426257c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329787234042553	"WGS"	FALSE
"14373"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	112311863	112311863	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"92"	6	67	"67"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"24265bdc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0612244897959184	"WGS"	FALSE
"14374"	"ENSR00001247428"	0	"mskcc.org"	"GRCh37"	"4"	112433420	112433420	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs545463779"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001247428"	""	108	"65"	43	40	"40"	0	""	"A"	""	"ENSR00001247428"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs545463779"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"242662c6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.398148148148148	"WGS"	FALSE
"14375"	"ANK2"	287	"mskcc.org"	"GRCh37"	"4"	113871228	113871228	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.21+45558A>G"	""	""	"ENST00000506722"	""	83	"51"	32	56	"56"	0	"ANK2,intron_variant,,ENST00000506722,NM_001127493.1;ANK2,intron_variant,,ENST00000503423,;ANK2,intron_variant,,ENST00000503271,;"	"G"	"ENSG00000145362"	"ENST00000506722"	"Transcript"	"intron_variant"	"-/8051"	"-/5592"	"-/1863"	""	""	""	"1"	NA	1	"ANK2"	"HGNC"	493	"protein_coding"	""	"CCDS54796.1"	"ENSP00000421067"	"Q01484"	"D6RHC5"	"UPI0000E5AC38"	"NM_001127493.1"	""	""	""	"2/46"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"2426ab50-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.385542168674699	"WGS"	FALSE
"14376"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	116418908	116418908	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"rs559167371"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"70"	29	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs559167371"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0002"	"C:0"	"C:0"	NA	"C:0.001"	"C:0"	"C:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"2426fe52-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292929292929293	"WGS"	FALSE
"14377"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	117848018	117848018	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"60"	22	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"24271982-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268292682926829	"WGS"	FALSE
"14378"	"NDST3"	9348	"mskcc.org"	"GRCh37"	"4"	119006213	119006213	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.982-19960G>A"	""	""	"ENST00000296499"	""	101	"68"	33	57	"57"	0	"NDST3,intron_variant,,ENST00000296499,NM_004784.2;NDST3,intron_variant,,ENST00000433996,;"	"A"	"ENSG00000164100"	"ENST00000296499"	"Transcript"	"intron_variant"	"-/5961"	"-/2622"	"-/873"	""	""	""	"1"	NA	1	"NDST3"	"HGNC"	7682	"protein_coding"	"YES"	"CCDS3708.1"	"ENSP00000296499"	"O95803"	""	"UPI0000071C44"	"NM_004784.2"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"24273b24-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326732673267327	"WGS"	FALSE
"14379"	"CEP170P1"	645455	"mskcc.org"	"GRCh37"	"4"	119434714	119434714	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000412784"	""	86	"66"	20	52	"52"	0	"CEP170P1,upstream_gene_variant,,ENST00000412784,;CEP170P1,non_coding_transcript_exon_variant,,ENST00000502249,;CEP170P1,upstream_gene_variant,,ENST00000450306,;"	"T"	"ENSG00000154608"	"ENST00000412784"	"Transcript"	"upstream_gene_variant"	"-/1070"	""	""	""	""	""	"1"	"2781"	1	"CEP170P1"	"HGNC"	28364	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"24275a46-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232558139534884	"WGS"	FALSE
"14380"	"CICP16"	0	"mskcc.org"	"GRCh37"	"4"	119563004	119563004	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000502609"	""	101	"70"	31	43	"43"	0	"CICP16,upstream_gene_variant,,ENST00000502609,;RP11-384K6.4,downstream_gene_variant,,ENST00000513445,;"	"T"	"ENSG00000248213"	"ENST00000502609"	"Transcript"	"upstream_gene_variant"	"-/2813"	""	""	""	""	""	"1"	"3067"	-1	"CICP16"	"HGNC"	38550	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"24277f80-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306930693069307	"WGS"	FALSE
"14381"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	120731068	120731068	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	28	"23"	5	13	"13"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"2427b91e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"14382"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	121395644	121395644	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs766278105"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"48"	27	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs766278105"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"2427cbde-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36	"WGS"	FALSE
"14383"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	127038478	127038478	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"64"	28	41	"41"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"242889ca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WGS"	FALSE
"14384"	"RP11-125O18.1"	0	"mskcc.org"	"GRCh37"	"4"	128394934	128394934	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000504050"	""	95	"73"	22	44	"44"	0	"RP11-125O18.1,upstream_gene_variant,,ENST00000504050,;RP11-125O18.1,upstream_gene_variant,,ENST00000509671,;"	"A"	"ENSG00000248491"	"ENST00000504050"	"Transcript"	"upstream_gene_variant"	"-/645"	""	""	""	""	""	"1"	"3227"	-1	"RP11-125O18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"2428b1ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231578947368421	"WGS"	FALSE
"14385"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	129711670	129711670	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"73"	6	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"242906b6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"14386"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	133064634	133064634	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"94"	8	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"2429dc30-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0784313725490196	"WGS"	FALSE
"14387"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	133325001	133325001	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"67"	8	38	"38"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"2429dfa0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106666666666667	"WGS"	FALSE
"14388"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	133393372	133393372	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"68"	27	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"2429e054-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284210526315789	"WGS"	FALSE
"14389"	"RP11-9G1.3"	101927359	"mskcc.org"	"GRCh37"	"4"	134003759	134003759	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.158-4142C>G"	""	""	"ENST00000506897"	""	93	"72"	21	51	"51"	0	"RP11-9G1.3,intron_variant,,ENST00000506897,;"	"C"	"ENSG00000250241"	"ENST00000506897"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/498"	""	""	""	""	""	"1"	NA	-1	"RP11-9G1.3"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"2429f68e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225806451612903	"WGS"	FALSE
"14390"	"RP11-371F15.3"	0	"mskcc.org"	"GRCh37"	"4"	139922583	139922583	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.53-5409A>G"	""	""	"ENST00000511951"	""	102	"93"	9	51	"51"	0	"RP11-371F15.3,intron_variant,,ENST00000511951,;"	"C"	"ENSG00000250195"	"ENST00000511951"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/282"	""	""	""	""	""	"1"	NA	-1	"RP11-371F15.3"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"242a8e46-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"14391"	"NDUFC1"	4717	"mskcc.org"	"GRCh37"	"4"	140207840	140207840	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"rs567186990"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000544855"	""	82	"50"	32	59	"59"	0	"NDUFC1,downstream_gene_variant,,ENST00000544855,NM_001184986.1;NDUFC1,downstream_gene_variant,,ENST00000539002,NM_001184991.1;NDUFC1,downstream_gene_variant,,ENST00000505036,NM_002494.3;NDUFC1,downstream_gene_variant,,ENST00000394228,NM_001184988.1;NDUFC1,downstream_gene_variant,,ENST00000539387,NM_001184987.1,NM_001184990.1,NM_001184989.1;NDUFC1,downstream_gene_variant,,ENST00000394223,;NDUFC1,downstream_gene_variant,,ENST00000265500,;NDUFC1,downstream_gene_variant,,ENST00000503453,;NDUFC1,downstream_gene_variant,,ENST00000394225,;NDUFC1,intron_variant,,ENST00000503997,;"	"T"	"ENSG00000109390"	"ENST00000544855"	"Transcript"	"downstream_gene_variant"	"-/1257"	"-/231"	"-/76"	""	""	"rs567186990"	"1"	"3231"	-1	"NDUFC1"	"HGNC"	7705	"protein_coding"	"YES"	"CCDS3746.1"	"ENSP00000441126"	"O43677"	"Q4W5J3"	"UPI000013017E"	"NM_001184986.1"	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0.0014"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"242aae9e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.390243902439024	"WGS"	FALSE
"14392"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	145833264	145833264	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"79"	5	34	"34"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"242b9444-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0595238095238095	"WGS"	FALSE
"14393"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	145833288	145833288	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"79"	6	30	"30"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"242b94f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0705882352941176	"WGS"	FALSE
"14394"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	146119893	146119893	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"67"	6	46	"46"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"242b9f3e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"14395"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	146229683	146229683	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"70"	29	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"242ba5b0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292929292929293	"WGS"	FALSE
"14396"	"C4orf51"	646603	"mskcc.org"	"GRCh37"	"4"	146615888	146615888	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.234-1823C>G"	""	""	"ENST00000438731"	""	61	"55"	6	30	"30"	0	"C4orf51,intron_variant,,ENST00000438731,NM_001080531.1;C4orf51,intron_variant,,ENST00000511965,;"	"G"	"ENSG00000237136"	"ENST00000438731"	"Transcript"	"intron_variant"	"-/846"	"-/609"	"-/202"	""	""	""	"1"	NA	1	"C4orf51"	"HGNC"	37264	"protein_coding"	"YES"	"CCDS47140.1"	"ENSP00000391404"	"C9J302"	""	"UPI0000DD7C19"	"NM_001080531.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"242bb636-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0983606557377049	"WGS"	FALSE
"14397"	"C4orf51"	646603	"mskcc.org"	"GRCh37"	"4"	146615889	146615889	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.234-1822C>T"	""	""	"ENST00000438731"	""	64	"58"	6	31	"31"	0	"C4orf51,intron_variant,,ENST00000438731,NM_001080531.1;C4orf51,intron_variant,,ENST00000511965,;"	"T"	"ENSG00000237136"	"ENST00000438731"	"Transcript"	"intron_variant"	"-/846"	"-/609"	"-/202"	""	""	""	"1"	NA	1	"C4orf51"	"HGNC"	37264	"protein_coding"	"YES"	"CCDS47140.1"	"ENSP00000391404"	"C9J302"	""	"UPI0000DD7C19"	"NM_001080531.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"242bb6ea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"14398"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	152004211	152004211	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"70"	6	25	"25"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"242c8912-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"14399"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	155861362	155861362	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"68"	34	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"242d2be2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14400"	"TDO2"	6999	"mskcc.org"	"GRCh37"	"4"	156817072	156817072	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-286-8098A>T"	""	""	"ENST00000506072"	""	85	"61"	24	45	"45"	0	"TDO2,intron_variant,,ENST00000506072,;TDO2,intron_variant,,ENST00000507590,;TDO2,intron_variant,,ENST00000503634,;"	"T"	"ENSG00000151790"	"ENST00000506072"	"Transcript"	"intron_variant"	"-/665"	"-/196"	"-/65"	""	""	""	"1"	NA	1	"TDO2"	"HGNC"	11708	"protein_coding"	""	""	"ENSP00000423394"	""	"D6RB68,D6RA50"	"UPI0001D3B9B3"	""	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"242d464a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282352941176471	"WGS"	FALSE
"14401"	"ENSR00001760586"	0	"mskcc.org"	"GRCh37"	"4"	157034760	157034760	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001760586"	""	91	"56"	35	63	"63"	0	""	"A"	""	"ENSR00001760586"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"242d55d6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WGS"	FALSE
"14402"	"GRIA2"	2891	"mskcc.org"	"GRCh37"	"4"	158249095	158249095	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.883-4876G>A"	""	""	"ENST00000296526"	""	86	"51"	35	60	"60"	0	"GRIA2,intron_variant,,ENST00000296526,NM_000826.3;GRIA2,intron_variant,,ENST00000393815,NM_001083620.1;GRIA2,intron_variant,,ENST00000449365,;GRIA2,intron_variant,,ENST00000264426,NM_001083619.1;GRIA2,intron_variant,,ENST00000507898,;GRIA2,intron_variant,,ENST00000471736,;GRIA2,intron_variant,,ENST00000323661,;"	"A"	"ENSG00000120251"	"ENST00000296526"	"Transcript"	"intron_variant"	"-/5621"	"-/2652"	"-/883"	""	""	""	"1"	NA	1	"GRIA2"	"HGNC"	4572	"protein_coding"	"YES"	"CCDS3797.1"	"ENSP00000296526"	"P42262"	"D6RFM6,D6REK8,D6RDX5,D6RBV7,D6R9Z0,A8MT92"	"UPI000002AA8D"	"NM_000826.3"	""	""	""	"6/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"242d7c00-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.406976744186047	"WGS"	FALSE
"14403"	"ENSR00001436918"	0	"mskcc.org"	"GRCh37"	"4"	160888257	160888257	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001436918"	""	94	"57"	37	38	"38"	0	""	"A"	""	"ENSR00001436918"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"242de03c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.393617021276596	"WGS"	FALSE
"14404"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	161805736	161805736	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"73"	5	42	"42"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"242e03f0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0641025641025641	"WGS"	FALSE
"14405"	"AC106860.1"	0	"mskcc.org"	"GRCh37"	"4"	161926555	161926555	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408435"	""	95	"56"	39	42	"42"	0	"AC106860.1,upstream_gene_variant,,ENST00000408435,;"	"T"	"ENSG00000221362"	"ENST00000408435"	"Transcript"	"upstream_gene_variant"	"-/82"	""	""	""	""	""	"1"	"1445"	-1	"AC106860.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"242e0850-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.410526315789474	"WGS"	FALSE
"14406"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	161966566	161966566	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"74"	32	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"242e0d8c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30188679245283	"WGS"	FALSE
"14407"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	163891864	163891864	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"62"	30	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"242e5576-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326086956521739	"WGS"	FALSE
"14408"	"MARCH1"	55016	"mskcc.org"	"GRCh37"	"4"	164615020	164615020	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs142207513"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.162+6945G>A"	""	""	"ENST00000503008"	""	74	"54"	20	60	"60"	0	"MARCH1,intron_variant,,ENST00000503008,NM_001166373.1;MARCH1,intron_variant,,ENST00000274056,;MARCH1,intron_variant,,ENST00000514618,;MARCH1,intron_variant,,ENST00000507270,;MARCH1,intron_variant,,ENST00000510696,;"	"T"	"ENSG00000145416"	"ENST00000503008"	"Transcript"	"intron_variant"	"-/5877"	"-/870"	"-/289"	""	""	"rs142207513"	"1"	NA	-1	"MARCH1"	"HGNC"	26077	"protein_coding"	"YES"	"CCDS54814.1"	"ENSP00000427223"	"Q8TCQ1"	"D6REN1"	"UPI0000037BB3"	"NM_001166373.1"	""	""	""	"4/7"	""	"T:0.0008"	"T:0.003"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"242e6ac0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27027027027027	"WGS"	FALSE
"14409"	"MARCH1"	55016	"mskcc.org"	"GRCh37"	"4"	165281966	165281966	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-114+22373C>T"	""	""	"ENST00000503008"	""	88	"59"	29	56	"56"	0	"MARCH1,intron_variant,,ENST00000503008,NM_001166373.1;MARCH1,intron_variant,,ENST00000514618,;MARCH1,intron_variant,,ENST00000507270,;MARCH1,intron_variant,,ENST00000508725,;MARCH1,intron_variant,,ENST00000515471,;MARCH1,intron_variant,,ENST00000510075,;MARCH1,intron_variant,,ENST00000505391,;"	"A"	"ENSG00000145416"	"ENST00000503008"	"Transcript"	"intron_variant"	"-/5877"	"-/870"	"-/289"	""	""	""	"1"	NA	-1	"MARCH1"	"HGNC"	26077	"protein_coding"	"YES"	"CCDS54814.1"	"ENSP00000427223"	"Q8TCQ1"	"D6REN1"	"UPI0000037BB3"	"NM_001166373.1"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"242e8686-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329545454545455	"WGS"	FALSE
"14410"	"TLL1"	7092	"mskcc.org"	"GRCh37"	"4"	166858127	166858127	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.170-52406C>A"	""	""	"ENST00000061240"	""	104	"76"	28	61	"61"	0	"TLL1,intron_variant,,ENST00000061240,NM_012464.4;TLL1,intron_variant,,ENST00000507499,;TLL1,intron_variant,,ENST00000513213,NM_001204760.1;TLL1,intron_variant,,ENST00000506144,;TLL1,intron_variant,,ENST00000509505,;TLL1,intron_variant,,ENST00000504560,;"	"A"	"ENSG00000038295"	"ENST00000061240"	"Transcript"	"intron_variant"	"-/6708"	"-/3042"	"-/1013"	""	""	""	"1"	NA	1	"TLL1"	"HGNC"	11843	"protein_coding"	"YES"	"CCDS3811.1"	"ENSP00000061240"	"O43897"	"D6RCE0"	"UPI0000072EED"	"NM_012464.4"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"242edcf8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269230769230769	"WGS"	FALSE
"14411"	"PALLD"	23022	"mskcc.org"	"GRCh37"	"4"	169707290	169707290	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1964+74216C>A"	""	""	"ENST00000505667"	""	77	"72"	5	46	"46"	0	"PALLD,intron_variant,,ENST00000335742,;PALLD,intron_variant,,ENST00000261509,NM_001166108.1,NM_016081.3;PALLD,intron_variant,,ENST00000505667,;PALLD,intron_variant,,ENST00000512127,NM_001166109.1;PALLD,intron_variant,,ENST00000510998,;"	"A"	"ENSG00000129116"	"ENST00000505667"	"Transcript"	"intron_variant"	"-/3637"	"-/3372"	"-/1123"	""	""	""	"1"	NA	1	"PALLD"	"HGNC"	17068	"protein_coding"	"YES"	"CCDS54818.1"	"ENSP00000425556"	"Q8WX93"	"Q4W5A6,D6RBH5,D6RBB1,D6R9Z5,D6R948"	"UPI000189A85C"	""	""	""	""	"10/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"242f3b6c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0649350649350649	"WGS"	FALSE
"14412"	"SH3RF1"	57630	"mskcc.org"	"GRCh37"	"4"	170030963	170030963	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2140-2607G>C"	""	""	"ENST00000284637"	""	81	"76"	5	40	"40"	0	"SH3RF1,intron_variant,,ENST00000284637,NM_020870.3;"	"G"	"ENSG00000154447"	"ENST00000284637"	"Transcript"	"intron_variant"	"-/5272"	"-/2667"	"-/888"	""	""	""	"1"	NA	-1	"SH3RF1"	"HGNC"	17650	"protein_coding"	"YES"	"CCDS34099.1"	"ENSP00000284637"	"Q7Z6J0"	"D6RHX5,D6RAL3"	"UPI0000160033"	"NM_020870.3"	""	""	""	"10/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"242f505c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"14413"	"NEK1"	4750	"mskcc.org"	"GRCh37"	"4"	170456820	170456820	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1665+2140T>A"	""	""	"ENST00000507142"	""	91	"85"	6	47	"47"	0	"NEK1,intron_variant,,ENST00000439128,NM_012224.2;NEK1,intron_variant,,ENST00000507142,NM_001199397.1;NEK1,intron_variant,,ENST00000511633,NM_001199398.1;NEK1,intron_variant,,ENST00000510533,NM_001199400.1;NEK1,intron_variant,,ENST00000512193,NM_001199399.1;"	"T"	"ENSG00000137601"	"ENST00000507142"	"Transcript"	"intron_variant"	"-/5556"	"-/3861"	"-/1286"	""	""	""	"1"	NA	-1	"NEK1"	"HGNC"	7744	"protein_coding"	"YES"	"CCDS56351.1"	"ENSP00000424757"	"Q96PY6"	"Q5JXL9"	"UPI00001D76CA"	"NM_001199397.1"	""	""	""	"19/35"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"242f6434-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"14414"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	171362779	171362779	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs535850430"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"42"	25	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs535850430"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"242f935a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373134328358209	"WGS"	FALSE
"14415"	"GALNTL6"	442117	"mskcc.org"	"GRCh37"	"4"	173846953	173846953	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1042-5359C>A"	""	""	"ENST00000506823"	""	68	"63"	5	55	"55"	0	"GALNTL6,intron_variant,,ENST00000506823,NM_001034845.2;GALNTL6,intron_variant,,ENST00000508122,;"	"A"	"ENSG00000174473"	"ENST00000506823"	"Transcript"	"intron_variant"	"-/3922"	"-/1806"	"-/601"	""	""	""	"1"	NA	1	"GALNTL6"	"HGNC"	33844	"protein_coding"	"YES"	"CCDS34104.1"	"ENSP00000423313"	"Q49A17"	"E5D8G0"	"UPI000058EB5C"	"NM_001034845.2"	""	""	""	"8/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"242fcdde-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0735294117647059	"WGS"	FALSE
"14416"	"FBXO8"	26269	"mskcc.org"	"GRCh37"	"4"	175190708	175190708	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-8-6457G>A"	""	""	"ENST00000393674"	""	73	"45"	28	41	"41"	0	"FBXO8,intron_variant,,ENST00000393674,NM_012180.2;FBXO8,intron_variant,,ENST00000503293,;FBXO8,intron_variant,,ENST00000513696,;FBXO8,intron_variant,,ENST00000515664,;"	"T"	"ENSG00000164117"	"ENST00000393674"	"Transcript"	"intron_variant"	"-/2577"	"-/960"	"-/319"	""	""	""	"1"	NA	-1	"FBXO8"	"HGNC"	13587	"protein_coding"	"YES"	"CCDS3820.1"	"ENSP00000377280"	"Q9NRD0"	"D6RIC0"	"UPI000012A588"	"NM_012180.2"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"242ff35e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.383561643835616	"WGS"	FALSE
"14417"	"VEGFC"	7424	"mskcc.org"	"GRCh37"	"4"	177613331	177613331	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.705-4250C>A"	""	""	"ENST00000280193"	""	71	"65"	6	39	"39"	0	"VEGFC,intron_variant,,ENST00000280193,NM_005429.3;RP11-313E19.2,intron_variant,,ENST00000509194,;RP11-313E19.2,intron_variant,,ENST00000504017,;VEGFC,intron_variant,,ENST00000507638,;"	"T"	"ENSG00000150630"	"ENST00000280193"	"Transcript"	"intron_variant"	"-/2067"	"-/1263"	"-/420"	""	""	""	"1"	NA	-1	"VEGFC"	"HGNC"	12682	"protein_coding"	"YES"	"CCDS43285.1"	"ENSP00000280193"	"P49767"	""	"UPI000020B749"	"NM_005429.3"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGA"	"24304336-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"14418"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	177847275	177847275	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"61"	28	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"24304ade-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.314606741573034	"WGS"	FALSE
"14419"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	179374412	179374412	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"95"	8	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"243087a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0776699029126214	"WGS"	FALSE
"14420"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	179958378	179958378	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"45"	24	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"24309c6e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347826086956522	"WGS"	FALSE
"14421"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	181106581	181106581	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"59"	34	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"2430c1f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.365591397849462	"WGS"	FALSE
"14422"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	182379414	182379414	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"63"	36	46	"46"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"243102ee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"14423"	"TENM3"	55714	"mskcc.org"	"GRCh37"	"4"	183235558	183235558	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-75-9541A>G"	""	""	"ENST00000511685"	""	94	"59"	35	55	"55"	0	"TENM3,intron_variant,,ENST00000511685,;TENM3,intron_variant,,ENST00000512480,;TENM3,intron_variant,,ENST00000513201,;"	"G"	"ENSG00000218336"	"ENST00000511685"	"Transcript"	"intron_variant"	"-/10896"	"-/8100"	"-/2699"	""	""	""	"1"	NA	1	"TENM3"	"HGNC"	29944	"protein_coding"	"YES"	"CCDS47165.1"	"ENSP00000424226"	"Q9P273"	"G3CAS9,D6RGC5"	"UPI00006C0820"	""	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAG"	"243134ee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.372340425531915	"WGS"	FALSE
"14424"	"TENM3"	55714	"mskcc.org"	"GRCh37"	"4"	183347927	183347927	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.511+79845C>A"	""	""	"ENST00000511685"	""	96	"64"	32	65	"64"	1	"TENM3,intron_variant,,ENST00000511685,;TENM3,intron_variant,,ENST00000406950,NM_001080477.1;"	"A"	"ENSG00000218336"	"ENST00000511685"	"Transcript"	"intron_variant"	"-/10896"	"-/8100"	"-/2699"	""	""	""	"1"	NA	1	"TENM3"	"HGNC"	29944	"protein_coding"	"YES"	"CCDS47165.1"	"ENSP00000424226"	"Q9P273"	"G3CAS9,D6RGC5"	"UPI00006C0820"	""	""	""	""	"3/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"24313e26-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14425"	"TENM3"	55714	"mskcc.org"	"GRCh37"	"4"	183468510	183468510	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.512-53567G>A"	""	""	"ENST00000511685"	""	105	"73"	32	52	"52"	0	"TENM3,intron_variant,,ENST00000511685,;TENM3,intron_variant,,ENST00000406950,NM_001080477.1;TENM3,intron_variant,,ENST00000510504,;RNU2-34P,upstream_gene_variant,,ENST00000516534,;"	"A"	"ENSG00000218336"	"ENST00000511685"	"Transcript"	"intron_variant"	"-/10896"	"-/8100"	"-/2699"	""	""	""	"1"	NA	1	"TENM3"	"HGNC"	29944	"protein_coding"	"YES"	"CCDS47165.1"	"ENSP00000424226"	"Q9P273"	"G3CAS9,D6RGC5"	"UPI00006C0820"	""	""	""	""	"3/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"24314510-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304761904761905	"WGS"	FALSE
"14426"	"TENM3"	55714	"mskcc.org"	"GRCh37"	"4"	183609772	183609772	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2221+268A>G"	""	""	"ENST00000511685"	""	80	"50"	30	68	"68"	0	"TENM3,intron_variant,,ENST00000511685,;TENM3,intron_variant,,ENST00000406950,NM_001080477.1;TENM3,intron_variant,,ENST00000502950,;"	"G"	"ENSG00000218336"	"ENST00000511685"	"Transcript"	"intron_variant"	"-/10896"	"-/8100"	"-/2699"	""	""	""	"1"	NA	1	"TENM3"	"HGNC"	29944	"protein_coding"	"YES"	"CCDS47165.1"	"ENSP00000424226"	"Q9P273"	"G3CAS9,D6RGC5"	"UPI00006C0820"	""	""	""	""	"12/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"24314934-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WGS"	FALSE
"14427"	"RP11-335L23.2"	0	"mskcc.org"	"GRCh37"	"4"	183949624	183949624	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000506678"	""	83	"75"	8	41	"41"	0	"RP11-335L23.2,downstream_gene_variant,,ENST00000506678,;"	"T"	"ENSG00000250636"	"ENST00000506678"	"Transcript"	"downstream_gene_variant"	"-/823"	""	""	""	""	""	"1"	"130"	-1	"RP11-335L23.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"2431672a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0963855421686747	"WGS"	FALSE
"14428"	"ENPP6"	133121	"mskcc.org"	"GRCh37"	"4"	185088694	185088694	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.242-13808C>A"	""	""	"ENST00000296741"	""	91	"82"	9	51	"51"	0	"ENPP6,intron_variant,,ENST00000296741,NM_153343.3;ENPP6,intron_variant,,ENST00000512353,;"	"T"	"ENSG00000164303"	"ENST00000296741"	"Transcript"	"intron_variant"	"-/3936"	"-/1323"	"-/440"	""	""	""	"1"	NA	-1	"ENPP6"	"HGNC"	23409	"protein_coding"	"YES"	"CCDS3834.1"	"ENSP00000296741"	"Q6UWR7"	"D6R9P1"	"UPI0000073C89"	"NM_153343.3"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"2431b70c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0989010989010989	"WGS"	FALSE
"14429"	"RP11-290F5.2"	728175	"mskcc.org"	"GRCh37"	"4"	185263357	185263357	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.856-151G>T"	""	""	"ENST00000317596"	""	85	"53"	32	52	"52"	0	"RP11-290F5.2,intron_variant,,ENST00000317596,;RP11-290F5.2,intron_variant,,ENST00000511465,;"	"A"	"ENSG00000180712"	"ENST00000317596"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2153"	""	""	""	""	""	"1"	NA	-1	"RP11-290F5.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"2431c0e4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.376470588235294	"WGS"	FALSE
"14430"	"SORBS2"	8470	"mskcc.org"	"GRCh37"	"4"	186598259	186598259	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.255+1318C>T"	""	""	"ENST00000355634"	""	88	"74"	14	59	"59"	0	"SORBS2,synonymous_variant,p.=,ENST00000437304,NM_001145673.1;SORBS2,intron_variant,,ENST00000431808,;SORBS2,intron_variant,,ENST00000284776,NM_021069.4;SORBS2,intron_variant,,ENST00000355634,NM_001270771.1;SORBS2,intron_variant,,ENST00000448662,NM_001145672.1;SORBS2,intron_variant,,ENST00000449407,NM_001145670.1;SORBS2,intron_variant,,ENST00000393528,NM_003603.6;SORBS2,intron_variant,,ENST00000319471,NM_001145671.2;SORBS2,intron_variant,,ENST00000319454,;SORBS2,intron_variant,,ENST00000393523,;SORBS2,intron_variant,,ENST00000419063,;SORBS2,intron_variant,,ENST00000444771,;SORBS2,intron_variant,,ENST00000425679,;SORBS2,intron_variant,,ENST00000415274,;SORBS2,intron_variant,,ENST00000444781,;SORBS2,intron_variant,,ENST00000451958,;SORBS2,intron_variant,,ENST00000414724,;SORBS2,intron_variant,,ENST00000432655,;SORBS2,intron_variant,,ENST00000451701,;SORBS2,intron_variant,,ENST00000445115,;SORBS2,intron_variant,,ENST00000456596,;SORBS2,intron_variant,,ENST00000457247,;SORBS2,intron_variant,,ENST00000420158,;SORBS2,intron_variant,,ENST00000421639,;SORBS2,intron_variant,,ENST00000450341,;SORBS2,intron_variant,,ENST00000439914,;SORBS2,intron_variant,,ENST00000431902,;SORBS2,intron_variant,,ENST00000457934,;SORBS2,intron_variant,,ENST00000439049,;SORBS2,intron_variant,,ENST00000445343,;SORBS2,intron_variant,,ENST00000428330,;SORBS2,intron_variant,,ENST00000430503,;SORBS2,intron_variant,,ENST00000435480,;SORBS2,downstream_gene_variant,,ENST00000421420,;SORBS2,downstream_gene_variant,,ENST00000452351,;SORBS2,downstream_gene_variant,,ENST00000429056,;RP11-626E13.1,downstream_gene_variant,,ENST00000447277,;SORBS2,intron_variant,,ENST00000493709,;SORBS2,downstream_gene_variant,,ENST00000478249,;SORBS2,downstream_gene_variant,,ENST00000463104,;SORBS2,downstream_gene_variant,,ENST00000464975,;SORBS2,downstream_gene_variant,,ENST00000464819,;SORBS2,intron_variant,,ENST00000470685,;"	"A"	"ENSG00000154556"	"ENST00000355634"	"Transcript"	"intron_variant"	"-/4622"	"-/3603"	"-/1200"	""	""	""	"1"	NA	-1	"SORBS2"	"HGNC"	24098	"protein_coding"	"YES"	"CCDS59482.1"	"ENSP00000347852"	"O94875"	"C9JZ60,C9JN77,C9JL62,C9JI79,C9JDX2,C9JBR8,C9JBB0,C9J8E3,C9J7Q5,C9J4Z9,C9J4K2,C9J3W4,C9J372,C9IZT7,C9IZ89"	"UPI000198C7F0"	"NM_001270771.1"	""	""	""	"7/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"2432219c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.159090909090909	"WGS"	FALSE
"14431"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	188070375	188070375	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"51"	24	63	"63"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"2432dd1c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32	"WGS"	FALSE
"14432"	"ENSR00001438337"	0	"mskcc.org"	"GRCh37"	"4"	188272956	188272956	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001438337"	""	82	"72"	10	48	"48"	0	""	"A"	""	"ENSR00001438337"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"2432e56e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WGS"	FALSE
"14433"	"RP11-706F1.1"	0	"mskcc.org"	"GRCh37"	"4"	190111029	190111029	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000514966"	""	85	"79"	6	44	"44"	0	"RP11-706F1.1,upstream_gene_variant,,ENST00000514966,;"	"T"	"ENSG00000251310"	"ENST00000514966"	"Transcript"	"upstream_gene_variant"	"-/412"	""	""	""	""	""	"1"	"3225"	1	"RP11-706F1.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"2433acc4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0705882352941176	"WGS"	FALSE
"14434"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	190253410	190253410	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"54"	23	49	"48"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"2433cd3a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298701298701299	"WGS"	FALSE
"14435"	"AF146191.4"	728339	"mskcc.org"	"GRCh37"	"4"	190770260	190770260	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs377593902"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.425+15488G>A"	""	""	"ENST00000511785"	""	15	"11"	4	11	"11"	0	"AF146191.4,intron_variant,,ENST00000511785,;AF146191.4,intron_variant,,ENST00000506276,;AF146191.4,intron_variant,,ENST00000508156,;"	"T"	"ENSG00000245685"	"ENST00000511785"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/979"	""	""	""	""	"rs377593902"	"1"	NA	-1	"AF146191.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"24348cf2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"14436"	"PDCD6"	10016	"mskcc.org"	"GRCh37"	"5"	282327	282327	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.163+9440A>G"	""	""	"ENST00000264933"	""	51	"44"	7	30	"30"	0	"PDCD6,intron_variant,,ENST00000264933,NM_001267556.1,NM_001267558.1,NM_013232.3;PDCD6,intron_variant,,ENST00000507528,;PDCD6,intron_variant,,ENST00000505221,NM_001267559.1;PDCD6,intron_variant,,ENST00000507473,;PDCD6,intron_variant,,ENST00000513582,;PDCD6,intron_variant,,ENST00000505526,;PDCD6,intron_variant,,ENST00000506909,;"	"G"	"ENSG00000249915"	"ENST00000264933"	"Transcript"	"intron_variant"	"-/1135"	"-/576"	"-/191"	""	""	""	"1"	NA	1	"PDCD6"	"HGNC"	8765	"protein_coding"	"YES"	"CCDS3854.1"	"ENSP00000264933"	"O75340"	"Q86W51"	"UPI00001313D9"	"NM_001267556.1,NM_001267558.1,NM_013232.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"24357798-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137254901960784	"WGS"	FALSE
"14437"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	1192843	1192843	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	15	"11"	4	8	"8"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"2436e72c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"14438"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	1872480	1872480	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	48	"27"	21	23	"23"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"2438026a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4375	"WGS"	FALSE
"14439"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	2068557	2068557	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs773057794"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"77"	6	37	"37"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs773057794"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"24381fca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"14440"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	2367841	2367841	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs184176370"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"62"	24	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs184176370"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"24385bfc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27906976744186	"WGS"	FALSE
"14441"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	2897793	2897793	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"92"	6	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"24389e64-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0612244897959184	"WGS"	FALSE
"14442"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	3203948	3203948	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"58"	33	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"2438b6ce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.362637362637363	"WGS"	FALSE
"14443"	"RP11-122F24.1"	0	"mskcc.org"	"GRCh37"	"5"	7143090	7143090	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.155-5791C>T"	""	""	"ENST00000512838"	""	80	"49"	31	49	"49"	0	"RP11-122F24.1,intron_variant,,ENST00000512838,;"	"T"	"ENSG00000250974"	"ENST00000512838"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/568"	""	""	""	""	""	"1"	NA	1	"RP11-122F24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"2439ac8c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3875	"WGS"	FALSE
"14444"	"RP11-122F24.1"	0	"mskcc.org"	"GRCh37"	"5"	7189930	7189930	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.538-965C>A"	""	""	"ENST00000512838"	""	96	"66"	30	57	"57"	0	"RP11-122F24.1,intron_variant,,ENST00000512838,;"	"A"	"ENSG00000250974"	"ENST00000512838"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/568"	""	""	""	""	""	"1"	NA	1	"RP11-122F24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"2439ae9e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"14445"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	10326223	10326223	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"57"	6	45	"45"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"243a3f1c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"14446"	"RP11-1C1.5"	0	"mskcc.org"	"GRCh37"	"5"	10518043	10518043	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.329+3825C>G"	""	""	"ENST00000504650"	""	92	"60"	32	50	"50"	0	"RP11-1C1.5,intron_variant,,ENST00000504650,;"	"C"	"ENSG00000249160"	"ENST00000504650"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/518"	""	""	""	""	""	"1"	NA	-1	"RP11-1C1.5"	"Clone_based_vega_gene"	NA	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"243a466a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347826086956522	"WGS"	FALSE
"14447"	"DNAH5"	1767	"mskcc.org"	"GRCh37"	"5"	13732842	13732842	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.11761+2398G>T"	""	""	"ENST00000265104"	""	88	"59"	29	38	"38"	0	"DNAH5,intron_variant,,ENST00000265104,NM_001369.2;"	"A"	"ENSG00000039139"	"ENST00000265104"	"Transcript"	"intron_variant"	"-/15633"	"-/13875"	"-/4624"	""	""	""	"1"	NA	-1	"DNAH5"	"HGNC"	2950	"protein_coding"	"YES"	"CCDS3882.1"	"ENSP00000265104"	"Q8TE73"	"O95496"	"UPI0000110101"	"NM_001369.2"	""	""	""	"68/78"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"243ad684-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329545454545455	"WGS"	FALSE
"14448"	"FBXL7"	23194	"mskcc.org"	"GRCh37"	"5"	15621558	15621558	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.127+5377A>C"	""	""	"ENST00000504595"	""	81	"63"	18	58	"58"	0	"FBXL7,intron_variant,,ENST00000504595,NM_012304.4;FBXL7,intron_variant,,ENST00000510662,NM_001278317.1;FBXL7,intron_variant,,ENST00000329673,;"	"C"	"ENSG00000183580"	"ENST00000504595"	"Transcript"	"intron_variant"	"-/4562"	"-/1476"	"-/491"	""	""	""	"1"	NA	1	"FBXL7"	"HGNC"	13604	"protein_coding"	"YES"	"CCDS54833.1"	"ENSP00000423630"	"Q9UJT9"	"J3KNM9,D6RDY7"	"UPI00000724E0"	"NM_012304.4"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"243b1bd0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"14449"	"MYO10"	4651	"mskcc.org"	"GRCh37"	"5"	16877035	16877035	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.120+683C>A"	""	""	"ENST00000513610"	""	90	"60"	30	49	"49"	0	"MYO10,intron_variant,,ENST00000513610,NM_012334.2;MYO10,intron_variant,,ENST00000513882,;MYO10,intron_variant,,ENST00000507288,;MYO10,intron_variant,,ENST00000502436,;"	"T"	"ENSG00000145555"	"ENST00000513610"	"Transcript"	"intron_variant"	"-/8038"	"-/6177"	"-/2058"	""	""	""	"1"	NA	-1	"MYO10"	"HGNC"	7593	"protein_coding"	"YES"	"CCDS54834.1"	"ENSP00000421280"	"Q9HD67"	"E9PEW5,E7EPL7,B4E0P0"	"UPI0001597062"	"NM_012334.2"	""	""	""	"2/40"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"243b5ca8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14450"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	16998632	16998632	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"80"	7	42	"42"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"243b8dea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"14451"	"RP11-454P21.1"	646241	"mskcc.org"	"GRCh37"	"5"	17747403	17747403	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.105-21600G>A"	""	""	"ENST00000511596"	""	82	"53"	29	41	"41"	0	"RP11-454P21.1,intron_variant,,ENST00000511596,;"	"A"	"ENSG00000249937"	"ENST00000511596"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/578"	""	""	""	""	""	"1"	NA	1	"RP11-454P21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"243c016c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.353658536585366	"WGS"	FALSE
"14452"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	18306701	18306701	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"60"	32	39	"39"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"243c10f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347826086956522	"WGS"	FALSE
"14453"	"CDH18"	1016	"mskcc.org"	"GRCh37"	"5"	20441140	20441140	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-580+134431T>A"	""	""	"ENST00000507958"	""	77	"55"	22	47	"47"	0	"CDH18,intron_variant,,ENST00000507958,;CDH18,intron_variant,,ENST00000507632,;"	"T"	"ENSG00000145526"	"ENST00000507958"	"Transcript"	"intron_variant"	"-/3542"	"-/2373"	"-/790"	""	""	""	"1"	NA	-1	"CDH18"	"HGNC"	1757	"protein_coding"	"YES"	"CCDS3889.1"	"ENSP00000425093"	"Q13634"	""	"UPI0000126DBD"	""	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"243c5fea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"14454"	"GUSBP1"	728411	"mskcc.org"	"GRCh37"	"5"	21582640	21582640	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.315-2999T>C"	""	""	"ENST00000607545"	""	90	"55"	35	35	"35"	0	"GUSBP1,intron_variant,,ENST00000607545,;"	"C"	"ENSG00000183666"	"ENST00000607545"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4157"	""	""	""	""	""	"1"	NA	1	"GUSBP1"	"HGNC"	13670	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"243ceaa0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388888888888889	"WGS"	FALSE
"14455"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	23624525	23624525	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs184266093"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"63"	32	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs184266093"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"243d2c86-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336842105263158	"WGS"	FALSE
"14456"	"C5orf17"	0	"mskcc.org"	"GRCh37"	"5"	24159751	24159751	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*856-18195A>C"	""	""	"ENST00000512559"	""	97	"67"	30	41	"41"	0	"C5orf17,intron_variant,,ENST00000512559,;"	"C"	"ENSG00000248874"	"ENST00000512559"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/1984"	"-/486"	"-/161"	""	""	""	"1"	NA	1	"C5orf17"	"HGNC"	26630	"nonsense_mediated_decay"	"YES"	""	"ENSP00000423422"	"Q8NAS9"	""	"UPI000007184B"	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"243d3d7a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309278350515464	"WGS"	FALSE
"14457"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	24243110	24243110	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"64"	36	40	"40"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"243d4252-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36	"WGS"	FALSE
"14458"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	26153587	26153587	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs186882777"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"60"	26	45	"44"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs186882777"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"243d7e02-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302325581395349	"WGS"	FALSE
"14459"	"CDH9"	1007	"mskcc.org"	"GRCh37"	"5"	27054231	27054231	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-49-65742A>T"	""	""	"ENST00000513289"	""	75	"67"	8	35	"35"	0	"CDH9,intron_variant,,ENST00000513289,;"	"A"	"ENSG00000113100"	"ENST00000513289"	"Transcript"	"intron_variant"	"-/556"	"-/398"	"-/132"	""	""	""	"1"	NA	-1	"CDH9"	"HGNC"	1768	"protein_coding"	""	""	"ENSP00000426239"	""	"E7EPN0,D6RBT9"	"UPI0001D3B0FC"	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"243da940-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106666666666667	"WGS"	FALSE
"14460"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	27155101	27155101	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"59"	24	51	"51"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"243db2e6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289156626506024	"WGS"	FALSE
"14461"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	27676691	27676691	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"88"	11	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"243dbf70-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"14462"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	28256583	28256583	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"70"	7	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"243dd794-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"14463"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	28814608	28814608	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"81"	6	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"243dec98-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"14464"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	30348141	30348141	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"52"	26	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"243e2ece-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14465"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	30348142	30348142	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"52"	26	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"243e2f78-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14466"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	30559345	30559345	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"48"	8	27	"27"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"243e424c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"14467"	"PDZD2"	23037	"mskcc.org"	"GRCh37"	"5"	31959113	31959113	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.477-24148T>A"	""	""	"ENST00000438447"	""	84	"79"	5	56	"56"	0	"PDZD2,intron_variant,,ENST00000438447,;PDZD2,intron_variant,,ENST00000282493,NM_178140.2;PDZD2,intron_variant,,ENST00000513852,;PDZD2,intron_variant,,ENST00000502489,;"	"A"	"ENSG00000133401"	"ENST00000438447"	"Transcript"	"intron_variant"	"-/11704"	"-/8520"	"-/2839"	""	""	""	"1"	NA	1	"PDZD2"	"HGNC"	18486	"protein_coding"	"YES"	"CCDS34137.1"	"ENSP00000402033"	"O15018"	"B4DGS3"	"UPI000069648B"	""	""	""	""	"2/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"243e8afe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0595238095238095	"WGS"	FALSE
"14468"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	33366979	33366979	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"82"	8	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"243ee166-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"14469"	"RP11-1084J3.4"	0	"mskcc.org"	"GRCh37"	"5"	34059415	34059415	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.37-23552G>C"	""	""	"ENST00000382079"	""	80	"51"	29	55	"55"	0	"RP11-1084J3.4,intron_variant,,ENST00000382079,;"	"G"	"ENSG00000273294"	"ENST00000382079"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/3424"	"-/855"	"-/284"	""	""	""	"1"	NA	-1	"RP11-1084J3.4"	"Clone_based_vega_gene"	NA	"nonsense_mediated_decay"	"YES"	""	"ENSP00000371511"	""	"Q59G48,E9PGA6"	"UPI000153D419"	""	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"243ef782-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3625	"WGS"	FALSE
"14470"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	34546891	34546891	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"49"	30	62	"61"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"243f315c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.379746835443038	"WGS"	FALSE
"14471"	"LIFR"	3977	"mskcc.org"	"GRCh37"	"5"	38582419	38582419	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-20+12944T>A"	""	""	"ENST00000263409"	""	80	"52"	28	38	"38"	0	"LIFR,intron_variant,,ENST00000263409,NM_002310.5;LIFR-AS1,intron_variant,,ENST00000500733,;LIFR-AS1,intron_variant,,ENST00000500817,;LIFR-AS1,downstream_gene_variant,,ENST00000514291,;LIFR,intron_variant,,ENST00000503088,;"	"T"	"ENSG00000113594"	"ENST00000263409"	"Transcript"	"intron_variant"	"-/10089"	"-/3294"	"-/1097"	""	""	""	"1"	NA	-1	"LIFR"	"HGNC"	6597	"protein_coding"	"YES"	"CCDS3927.1"	"ENSP00000263409"	"P42702"	"D6RJ94,D6RF33"	"UPI000004CAC2"	"NM_002310.5"	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"243fd4d6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WGS"	TRUE
"14472"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	39649638	39649638	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"48"	8	29	"29"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"24400104-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"14473"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	39649648	39649648	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"50"	6	29	"29"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"244001ae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"14474"	"HCN1"	348980	"mskcc.org"	"GRCh37"	"5"	45640475	45640475	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.849+4812C>G"	""	""	"ENST00000303230"	""	70	"42"	28	61	"61"	0	"HCN1,intron_variant,,ENST00000303230,NM_021072.3;"	"C"	"ENSG00000164588"	"ENST00000303230"	"Transcript"	"intron_variant"	"-/5405"	"-/2673"	"-/890"	""	""	""	"1"	NA	-1	"HCN1"	"HGNC"	4845	"protein_coding"	"YES"	"CCDS3952.1"	"ENSP00000307342"	"O60741"	""	"UPI00001AED69"	"NM_021072.3"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"2440ea4c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WGS"	FALSE
"14475"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	50316951	50316951	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"52"	32	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"24427cea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.380952380952381	"WGS"	FALSE
"14476"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	53013999	53013999	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"44"	30	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"2442d672-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.405405405405405	"WGS"	FALSE
"14477"	"CTD-2313F11.2"	0	"mskcc.org"	"GRCh37"	"5"	54353051	54353051	"+"	"3'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000512349"	""	93	"68"	25	55	"55"	0	"CTD-2313F11.2,downstream_gene_variant,,ENST00000512349,;"	"G"	"ENSG00000251376"	"ENST00000512349"	"Transcript"	"downstream_gene_variant"	"-/591"	""	""	""	""	""	"1"	"2083"	1	"CTD-2313F11.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"24430bec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"14478"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	55313079	55313079	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"64"	7	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"2443449a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0985915492957746	"WGS"	FALSE
"14479"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	56458426	56458426	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"93"	6	40	"40"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"24437b40-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"14480"	"MIR548AE2"	100616339	"mskcc.org"	"GRCh37"	"5"	57825307	57825307	"+"	"3'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000583456"	""	84	"49"	35	54	"54"	0	"MIR548AE2,downstream_gene_variant,,ENST00000583456,;"	"T"	"ENSG00000265699"	"ENST00000583456"	"Transcript"	"downstream_gene_variant"	"-/67"	""	""	""	""	""	"1"	"563"	-1	"MIR548AE2"	"HGNC"	41831	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"2443ad90-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.416666666666667	"WGS"	FALSE
"14481"	"RAB3C"	115827	"mskcc.org"	"GRCh37"	"5"	58159901	58159901	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000282878"	""	105	"66"	39	60	"59"	1	"RAB3C,downstream_gene_variant,,ENST00000282878,NM_138453.2;CTD-2176I21.2,upstream_gene_variant,,ENST00000510198,;"	"T"	"ENSG00000152932"	"ENST00000282878"	"Transcript"	"downstream_gene_variant"	"-/8888"	"-/684"	"-/227"	""	""	""	"1"	"4688"	1	"RAB3C"	"HGNC"	30269	"protein_coding"	"YES"	"CCDS3976.1"	"ENSP00000282878"	"Q96E17"	""	"UPI0000133178"	"NM_138453.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"2443bcc2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.371428571428571	"WGS"	FALSE
"14482"	"C5orf64"	285668	"mskcc.org"	"GRCh37"	"5"	60958018	60958018	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.37+18791G>T"	""	""	"ENST00000505642"	""	84	"58"	26	48	"48"	0	"C5orf64,intron_variant,,ENST00000505642,NM_173667.2;C5orf64,intron_variant,,ENST00000313303,;RNU6-913P,downstream_gene_variant,,ENST00000390913,;RP11-2O17.2,intron_variant,,ENST00000505623,;RP11-2O17.2,downstream_gene_variant,,ENST00000513386,;RP11-2O17.2,downstream_gene_variant,,ENST00000507264,;C5orf64,intron_variant,,ENST00000510414,;C5orf64,intron_variant,,ENST00000511407,;C5orf64,intron_variant,,ENST00000507461,;"	"T"	"ENSG00000178722"	"ENST00000505642"	"Transcript"	"intron_variant"	"-/2970"	"-/393"	"-/130"	""	""	""	"1"	NA	1	"C5orf64"	"HGNC"	26744	"protein_coding"	"YES"	"CCDS54860.1"	"ENSP00000423157"	"Q2M2E5"	""	"UPI0000073E1D"	"NM_173667.2"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"24441a6e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30952380952381	"WGS"	FALSE
"14483"	"ADAMTS6"	11174	"mskcc.org"	"GRCh37"	"5"	64636141	64636141	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1074-6229G>A"	""	""	"ENST00000381055"	""	99	"63"	36	53	"53"	0	"ADAMTS6,intron_variant,,ENST00000381055,NM_197941.2;ADAMTS6,intron_variant,,ENST00000464680,;ADAMTS6,intron_variant,,ENST00000536360,;ADAMTS6,intron_variant,,ENST00000381052,;ADAMTS6,intron_variant,,ENST00000470597,;"	"T"	"ENSG00000049192"	"ENST00000381055"	"Transcript"	"intron_variant"	"-/7311"	"-/3354"	"-/1117"	""	""	""	"1"	NA	-1	"ADAMTS6"	"HGNC"	222	"protein_coding"	"YES"	"CCDS3983.2"	"ENSP00000370443"	"Q9UKP5"	"Q5IR90"	"UPI000050D3F1"	"NM_197941.2"	""	""	""	"7/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"2444b80c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"14484"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	66575629	66575629	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"50"	26	37	"37"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"24451284-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342105263157895	"WGS"	FALSE
"14485"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	68351157	68351157	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"48"	9	22	"22"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"244568a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"14486"	"BDP1"	55814	"mskcc.org"	"GRCh37"	"5"	70775521	70775521	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1015-4148C>G"	""	""	"ENST00000358731"	""	61	"55"	6	42	"42"	0	"BDP1,intron_variant,,ENST00000358731,NM_018429.2;BDP1,intron_variant,,ENST00000380675,;BDP1,intron_variant,,ENST00000508917,;RP11-1174L13.2,upstream_gene_variant,,ENST00000522871,;"	"G"	"ENSG00000145734"	"ENST00000358731"	"Transcript"	"intron_variant"	"-/11073"	"-/7875"	"-/2624"	""	""	""	"1"	NA	1	"BDP1"	"HGNC"	13652	"protein_coding"	"YES"	"CCDS43328.1"	"ENSP00000351575"	"A6H8Y1"	""	"UPI000020CA90"	"NM_018429.2"	""	""	""	"7/38"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"244621e2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0983606557377049	"WGS"	FALSE
"14487"	"RP11-79P5.3"	0	"mskcc.org"	"GRCh37"	"5"	72705446	72705446	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.429-438T>C"	""	""	"ENST00000505955"	""	81	"74"	7	46	"46"	0	"RP11-79P5.3,intron_variant,,ENST00000505955,;RP11-79P5.3,upstream_gene_variant,,ENST00000514718,;"	"C"	"ENSG00000249149"	"ENST00000505955"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/881"	""	""	""	""	""	"1"	NA	1	"RP11-79P5.3"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"24467584-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"14488"	"ENSR00001767478"	0	"mskcc.org"	"GRCh37"	"5"	72778547	72778547	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001767478"	""	82	"59"	23	55	"55"	0	""	"T"	""	"ENSR00001767478"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"244681fa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280487804878049	"WGS"	FALSE
"14489"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	73843912	73843912	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs537729894"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"91"	15	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs537729894"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0006"	"A:0.0023"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"24469cbc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141509433962264	"WGS"	FALSE
"14490"	"S100Z"	170591	"mskcc.org"	"GRCh37"	"5"	76198266	76198266	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*3-18276C>T"	""	""	"ENST00000317593"	""	80	"53"	27	44	"44"	0	"S100Z,intron_variant,,ENST00000317593,NM_130772.3;"	"T"	"ENSG00000171643"	"ENST00000317593"	"Transcript"	"intron_variant"	"-/1468"	"-/300"	"-/99"	""	""	""	"1"	NA	1	"S100Z"	"HGNC"	30367	"protein_coding"	"YES"	"CCDS43333.1"	"ENSP00000320430"	"Q8WXG8"	""	"UPI00001400D0"	"NM_130772.3"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"24472100-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3375	"WGS"	FALSE
"14491"	"ZBED3-AS1"	0	"mskcc.org"	"GRCh37"	"5"	76399023	76399023	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.663+2807G>C"	""	""	"ENST00000513591"	""	97	"67"	30	67	"67"	0	"ZBED3-AS1,intron_variant,,ENST00000513591,;ZBED3-AS1,intron_variant,,ENST00000512001,;ZBED3-AS1,intron_variant,,ENST00000514640,;ZBED3-AS1,intron_variant,,ENST00000514905,;ZBED3-AS1,intron_variant,,ENST00000503969,;ZBED3-AS1,intron_variant,,ENST00000504506,;ZBED3-AS1,intron_variant,,ENST00000512213,;ZBED3-AS1,intron_variant,,ENST00000502433,;ZBED3-AS1,intron_variant,,ENST00000514288,;ZBED3-AS1,intron_variant,,ENST00000515419,;ZBED3-AS1,intron_variant,,ENST00000507749,;ZBED3-AS1,intron_variant,,ENST00000514114,;"	"C"	"ENSG00000250802"	"ENST00000513591"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1737"	""	""	""	""	""	"1"	NA	1	"ZBED3-AS1"	"HGNC"	44188	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"24472c7c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309278350515464	"WGS"	FALSE
"14492"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	76955703	76955703	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"63"	35	43	"43"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"24474838-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WGS"	FALSE
"14493"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	77282850	77282850	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"49"	24	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"24474fc2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.328767123287671	"WGS"	FALSE
"14494"	"ZFYVE16"	9765	"mskcc.org"	"GRCh37"	"5"	79703014	79703014	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000338008"	""	73	"67"	6	35	"35"	0	"ZFYVE16,upstream_gene_variant,,ENST00000338008,NM_014733.3,NM_001284236.1;ZFYVE16,upstream_gene_variant,,ENST00000510158,NM_001105251.1;ZFYVE16,upstream_gene_variant,,ENST00000505560,;ZFYVE16,upstream_gene_variant,,ENST00000512442,;ZFYVE16,upstream_gene_variant,,ENST00000512558,;ZFYVE16,upstream_gene_variant,,ENST00000510995,;ZFYVE16,upstream_gene_variant,,ENST00000509562,;"	"C"	"ENSG00000039319"	"ENST00000338008"	"Transcript"	"upstream_gene_variant"	"-/6773"	"-/4620"	"-/1539"	""	""	""	"1"	"818"	1	"ZFYVE16"	"HGNC"	20756	"protein_coding"	"YES"	"CCDS4050.1"	"ENSP00000337159"	"Q7Z3T8"	"B3KXA7"	"UPI000013F4A0"	"NM_014733.3,NM_001284236.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"2447e5ea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"14495"	"ANKRD34B"	340120	"mskcc.org"	"GRCh37"	"5"	79852017	79852017	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000338682"	""	63	"58"	5	47	"47"	0	"ANKRD34B,downstream_gene_variant,,ENST00000338682,NM_001004441.2;ANKRD34B,downstream_gene_variant,,ENST00000508916,;"	"C"	"ENSG00000189127"	"ENST00000338682"	"Transcript"	"downstream_gene_variant"	"-/3938"	"-/1545"	"-/514"	""	""	""	"1"	"557"	-1	"ANKRD34B"	"HGNC"	33736	"protein_coding"	"YES"	"CCDS34194.1"	"ENSP00000339802"	"A5PLL1"	""	"UPI00003672FA"	"NM_001004441.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"2447fc10-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0793650793650794	"WGS"	FALSE
"14496"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	81971973	81971973	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"78"	35	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"24485c46-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309734513274336	"WGS"	FALSE
"14497"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	85014596	85014596	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"63"	33	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"2448c76c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34375	"WGS"	FALSE
"14498"	"RP11-72L22.1"	0	"mskcc.org"	"GRCh37"	"5"	86345632	86345632	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.220-55600T>A"	""	""	"ENST00000503349"	""	107	"66"	41	37	"37"	0	"RP11-72L22.1,intron_variant,,ENST00000503349,;"	"A"	"ENSG00000249061"	"ENST00000503349"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/602"	""	""	""	""	""	"1"	NA	1	"RP11-72L22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"2448fc8c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.383177570093458	"WGS"	FALSE
"14499"	"GPR98"	84059	"mskcc.org"	"GRCh37"	"5"	90326333	90326333	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.18153-41931A>G"	""	""	"ENST00000405460"	""	105	"66"	39	49	"49"	0	"GPR98,intron_variant,,ENST00000405460,NM_032119.3;GPR98,intron_variant,,ENST00000425867,;CTD-2266L18.1,downstream_gene_variant,,ENST00000503717,;"	"G"	"ENSG00000164199"	"ENST00000405460"	"Transcript"	"intron_variant"	"-/19338"	"-/18921"	"-/6306"	""	""	""	"1"	NA	1	"GPR98"	"HGNC"	17416	"protein_coding"	"YES"	"CCDS47246.1"	"ENSP00000384582"	"Q8WXG9"	""	"UPI00002127A7"	"NM_032119.3"	""	""	""	"85/89"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"24498364-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.371428571428571	"WGS"	FALSE
"14500"	"MCTP1"	79772	"mskcc.org"	"GRCh37"	"5"	94256420	94256420	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1273-2742G>T"	""	""	"ENST00000515393"	""	69	"40"	29	37	"37"	0	"MCTP1,intron_variant,,ENST00000515393,NM_024717.4;MCTP1,intron_variant,,ENST00000429576,;MCTP1,intron_variant,,ENST00000505078,;MCTP1,intron_variant,,ENST00000506568,;MCTP1,intron_variant,,ENST00000312216,NM_001002796.2;MCTP1,intron_variant,,ENST00000508509,;MCTP1,intron_variant,,ENST00000505208,;MCTP1,intron_variant,,ENST00000512425,;MCTP1,intron_variant,,ENST00000503301,;MCTP1,intron_variant,,ENST00000507214,;"	"A"	"ENSG00000175471"	"ENST00000515393"	"Transcript"	"intron_variant"	"-/5396"	"-/3000"	"-/999"	""	""	""	"1"	NA	-1	"MCTP1"	"HGNC"	26183	"protein_coding"	"YES"	"CCDS34203.1"	"ENSP00000424126"	"Q6DN14"	"E5RJR1"	"UPI0000D6165C"	"NM_024717.4"	""	""	""	"7/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"244a01c2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.420289855072464	"WGS"	FALSE
"14501"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	96405761	96405761	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"54"	26	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"244a3dae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325	"WGS"	FALSE
"14502"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	98002567	98002567	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"52"	34	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"244a7256-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.395348837209302	"WGS"	FALSE
"14503"	"CTD-2007H13.3"	0	"mskcc.org"	"GRCh37"	"5"	98314913	98314913	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.271+2309A>G"	""	""	"ENST00000513175"	""	47	"40"	7	30	"30"	0	"CTD-2007H13.3,intron_variant,,ENST00000513175,;"	"G"	"ENSG00000248489"	"ENST00000513175"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/478"	""	""	""	""	""	"1"	NA	1	"CTD-2007H13.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"244a7bf2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148936170212766	"WGS"	FALSE
"14504"	"CTD-2007H13.3"	0	"mskcc.org"	"GRCh37"	"5"	98314914	98314914	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.271+2310A>G"	""	""	"ENST00000513175"	""	47	"40"	7	30	"30"	0	"CTD-2007H13.3,intron_variant,,ENST00000513175,;"	"G"	"ENSG00000248489"	"ENST00000513175"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/478"	""	""	""	""	""	"1"	NA	1	"CTD-2007H13.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"244a7ca6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148936170212766	"WGS"	FALSE
"14505"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	100581413	100581413	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"72"	30	37	"37"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"244b0a7c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"14506"	"SLCO4C1"	353189	"mskcc.org"	"GRCh37"	"5"	101585296	101585296	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1620+46T>C"	""	""	"ENST00000310954"	""	98	"89"	9	56	"56"	0	"SLCO4C1,intron_variant,,ENST00000310954,NM_180991.4;"	"G"	"ENSG00000173930"	"ENST00000310954"	"Transcript"	"intron_variant"	"-/5334"	"-/2175"	"-/724"	""	""	""	"1"	NA	-1	"SLCO4C1"	"HGNC"	23612	"protein_coding"	"YES"	"CCDS34205.1"	"ENSP00000309741"	"Q6ZQN7"	"Q63HP3"	"UPI00001C10B6"	"NM_180991.4"	""	""	""	"9/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"244b2c00-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0918367346938776	"WGS"	FALSE
"14507"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	103022205	103022205	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"16"	3	5	"5"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"244b57ca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"14508"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	103507984	103507984	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"93"	5	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"244b71ba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0510204081632653	"WGS"	FALSE
"14509"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	105196678	105196678	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"73"	24	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"244bab58-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247422680412371	"WGS"	FALSE
"14510"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	106002829	106002829	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"63"	24	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"244bc1c4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275862068965517	"WGS"	FALSE
"14511"	"ENSR00001287249"	0	"mskcc.org"	"GRCh37"	"5"	109390716	109390716	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001287249"	""	90	"59"	31	52	"52"	0	""	"C"	""	"ENSR00001287249"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"244c1e44-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344444444444444	"WGS"	FALSE
"14512"	"SRP19"	6728	"mskcc.org"	"GRCh37"	"5"	112195137	112195137	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000505459"	""	80	"51"	29	53	"53"	0	"SRP19,upstream_gene_variant,,ENST00000505459,NM_001204193.1,NM_003135.2;SRP19,upstream_gene_variant,,ENST00000282999,;SRP19,upstream_gene_variant,,ENST00000515463,NM_001204196.1;CTC-487M23.8,upstream_gene_variant,,ENST00000512790,;CTC-487M23.8,upstream_gene_variant,,ENST00000503445,;CTC-554D6.1,intron_variant,,ENST00000520401,;CTC-487M23.8,upstream_gene_variant,,ENST00000506997,;SRP19,upstream_gene_variant,,ENST00000445150,;SRP19,upstream_gene_variant,,ENST00000506987,;SRP19,upstream_gene_variant,,ENST00000515755,;CTC-487M23.8,upstream_gene_variant,,ENST00000509024,;"	"T"	"ENSG00000153037"	"ENST00000505459"	"Transcript"	"upstream_gene_variant"	"-/2841"	"-/435"	"-/144"	""	""	""	"1"	"1782"	1	"SRP19"	"HGNC"	11300	"protein_coding"	"YES"	"CCDS4108.1"	"ENSP00000424870"	"P09132"	""	"UPI000013DD11"	"NM_001204193.1,NM_003135.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"244c6e80-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3625	"WGS"	FALSE
"14513"	"RP11-492A10.1"	0	"mskcc.org"	"GRCh37"	"5"	113968714	113968714	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.331+34592A>T"	""	""	"ENST00000514115"	""	91	"60"	31	45	"45"	0	"RP11-492A10.1,intron_variant,,ENST00000514115,;"	"A"	"ENSG00000246316"	"ENST00000514115"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/443"	""	""	""	""	""	"1"	NA	-1	"RP11-492A10.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"244cab16-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340659340659341	"WGS"	FALSE
"14514"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	116177693	116177693	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"66"	5	39	"39"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"244ce78e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0704225352112676	"WGS"	FALSE
"14515"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	119236890	119236890	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"56"	22	47	"47"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"244d4c38-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282051282051282	"WGS"	FALSE
"14516"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	119546068	119546068	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"54"	27	38	"37"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"244d596c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14517"	"CTC-546K23.1"	102467226	"mskcc.org"	"GRCh37"	"5"	120685717	120685717	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.228+2156G>A"	""	""	"ENST00000597452"	""	109	"80"	29	50	"50"	0	"CTC-546K23.1,non_coding_transcript_exon_variant,,ENST00000594690,;CTC-546K23.1,intron_variant,,ENST00000597452,;"	"A"	"ENSG00000229855"	"ENST00000597452"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/821"	""	""	""	""	""	"1"	NA	1	"CTC-546K23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"244d7406-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26605504587156	"WGS"	FALSE
"14518"	"SNCAIP"	9627	"mskcc.org"	"GRCh37"	"5"	121706878	121706878	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-46-19906T>C"	""	""	"ENST00000261368"	""	75	"57"	18	48	"48"	0	"SNCAIP,intron_variant,,ENST00000261367,;SNCAIP,intron_variant,,ENST00000379533,;SNCAIP,intron_variant,,ENST00000261368,NM_005460.2;SNCAIP,intron_variant,,ENST00000379536,;SNCAIP,intron_variant,,ENST00000509154,;SNCAIP,intron_variant,,ENST00000379538,NM_001242935.1;SNCAIP,intron_variant,,ENST00000542191,;SNCAIP,intron_variant,,ENST00000414317,;SNCAIP,intron_variant,,ENST00000514467,;SNCAIP,intron_variant,,ENST00000506272,;SNCAIP,intron_variant,,ENST00000509652,;SNCAIP,intron_variant,,ENST00000514497,;SNCAIP,intron_variant,,ENST00000508681,;CTD-2280E9.1,intron_variant,,ENST00000507143,;SNCAIP,intron_variant,,ENST00000512385,;SNCAIP,intron_variant,,ENST00000508017,;SNCAIP,intron_variant,,ENST00000510658,;SNCAIP,intron_variant,,ENST00000510003,;SNCAIP,intron_variant,,ENST00000509023,;"	"C"	"ENSG00000064692"	"ENST00000261368"	"Transcript"	"intron_variant"	"-/3745"	"-/2760"	"-/919"	""	""	""	"1"	NA	1	"SNCAIP"	"HGNC"	11139	"protein_coding"	"YES"	"CCDS4131.1"	"ENSP00000261368"	"Q9Y6H5"	"D6RD29,D6RBR2,B7Z616"	"UPI000006D872"	"NM_005460.2"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"244d9b0c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WGS"	FALSE
"14519"	"SNCAIP"	9627	"mskcc.org"	"GRCh37"	"5"	121719161	121719161	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-46-7623G>T"	""	""	"ENST00000261368"	""	84	"72"	12	51	"51"	0	"SNCAIP,intron_variant,,ENST00000261367,;SNCAIP,intron_variant,,ENST00000379533,;SNCAIP,intron_variant,,ENST00000261368,NM_005460.2;SNCAIP,intron_variant,,ENST00000379536,;SNCAIP,intron_variant,,ENST00000509154,;SNCAIP,intron_variant,,ENST00000379538,NM_001242935.1;SNCAIP,intron_variant,,ENST00000542191,;SNCAIP,intron_variant,,ENST00000414317,;SNCAIP,intron_variant,,ENST00000514467,;SNCAIP,intron_variant,,ENST00000506272,;SNCAIP,intron_variant,,ENST00000509652,;SNCAIP,intron_variant,,ENST00000514497,;SNCAIP,intron_variant,,ENST00000508681,;CTD-2280E9.1,splice_region_variant,,ENST00000507143,;SNCAIP,intron_variant,,ENST00000512385,;SNCAIP,intron_variant,,ENST00000508017,;SNCAIP,intron_variant,,ENST00000510658,;SNCAIP,intron_variant,,ENST00000510003,;SNCAIP,intron_variant,,ENST00000509023,;"	"T"	"ENSG00000064692"	"ENST00000261368"	"Transcript"	"intron_variant"	"-/3745"	"-/2760"	"-/919"	""	""	""	"1"	NA	1	"SNCAIP"	"HGNC"	11139	"protein_coding"	"YES"	"CCDS4131.1"	"ENSP00000261368"	"Q9Y6H5"	"D6RD29,D6RBR2,B7Z616"	"UPI000006D872"	"NM_005460.2"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"244d9eae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"14520"	"RP11-166A12.1"	101927379	"mskcc.org"	"GRCh37"	"5"	122061452	122061452	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.250+189T>G"	""	""	"ENST00000511194"	""	64	"59"	5	45	"45"	0	"RP11-166A12.1,intron_variant,,ENST00000511194,;RP11-166A12.1,downstream_gene_variant,,ENST00000508992,;"	"C"	"ENSG00000251538"	"ENST00000511194"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1651"	""	""	""	""	""	"1"	NA	-1	"RP11-166A12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"244db25e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.078125	"WGS"	FALSE
"14521"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	123413498	123413498	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	48	"42"	6	24	"24"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"244df1ce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"14522"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	123413516	123413516	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	52	"46"	6	24	"24"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"244dfc5a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"14523"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	123413520	123413520	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"45"	6	25	"25"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"244dfe6c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"14524"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	123413534	123413534	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"43"	6	25	"25"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"244e05f6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122448979591837	"WGS"	FALSE
"14525"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	123413536	123413536	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	50	"44"	6	25	"25"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"244e0754-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"14526"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	124094790	124094790	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs575017673"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"74"	7	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs575017673"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"244e2108-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"14527"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	124107682	124107682	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"69"	30	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"244e23c4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303030303030303	"WGS"	FALSE
"14528"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	125392259	125392259	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"59"	32	56	"55"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"244e5592-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351648351648352	"WGS"	FALSE
"14529"	"FBN2"	2201	"mskcc.org"	"GRCh37"	"5"	127680544	127680544	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3218-342G>A"	""	""	"ENST00000508053"	""	103	"95"	8	59	"59"	0	"FBN2,intron_variant,,ENST00000508053,;FBN2,intron_variant,,ENST00000262464,NM_001999.3;FBN2,intron_variant,,ENST00000508989,;"	"T"	"ENSG00000138829"	"ENST00000508053"	"Transcript"	"intron_variant"	"-/11132"	"-/8739"	"-/2912"	""	""	""	"1"	NA	-1	"FBN2"	"HGNC"	3604	"protein_coding"	"YES"	"CCDS34222.1"	"ENSP00000424571"	"P35556"	""	"UPI0000519468"	""	""	""	""	"30/70"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"244ed148-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0776699029126214	"WGS"	FALSE
"14530"	"ADAMTS19"	171019	"mskcc.org"	"GRCh37"	"5"	128804171	128804171	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.729+6721T>G"	""	""	"ENST00000274487"	""	81	"74"	7	49	"49"	0	"ADAMTS19,intron_variant,,ENST00000274487,NM_133638.3;ADAMTS19,intron_variant,,ENST00000505791,;ADAMTS19,intron_variant,,ENST00000502709,;"	"G"	"ENSG00000145808"	"ENST00000274487"	"Transcript"	"intron_variant"	"-/5234"	"-/3624"	"-/1207"	""	""	""	"1"	NA	1	"ADAMTS19"	"HGNC"	17111	"protein_coding"	"YES"	"CCDS4146.1"	"ENSP00000274487"	"Q8TE59"	""	"UPI000013DA0D"	"NM_133638.3"	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"244eefd4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"14531"	"ADAMTS19"	171019	"mskcc.org"	"GRCh37"	"5"	128914844	128914844	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1355-17408G>T"	""	""	"ENST00000274487"	""	99	"69"	30	49	"49"	0	"ADAMTS19,intron_variant,,ENST00000274487,NM_133638.3;CTC-575N7.1,intron_variant,,ENST00000503616,;"	"T"	"ENSG00000145808"	"ENST00000274487"	"Transcript"	"intron_variant"	"-/5234"	"-/3624"	"-/1207"	""	""	""	"1"	NA	1	"ADAMTS19"	"HGNC"	17111	"protein_coding"	"YES"	"CCDS4146.1"	"ENSP00000274487"	"Q8TE59"	""	"UPI000013DA0D"	"NM_133638.3"	""	""	""	"7/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"244ef3f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303030303030303	"WGS"	FALSE
"14532"	"CDC42SE2"	56990	"mskcc.org"	"GRCh37"	"5"	130618402	130618402	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-455+18543A>G"	""	""	"ENST00000505065"	""	87	"79"	8	34	"34"	0	"CDC42SE2,intron_variant,,ENST00000505065,;CDC42SE2,intron_variant,,ENST00000360515,NM_020240.2;CDC42SE2,intron_variant,,ENST00000395246,NM_001038702.1;CDC42SE2,intron_variant,,ENST00000503291,;CDC42SE2,intron_variant,,ENST00000504701,;CDC42SE2,intron_variant,,ENST00000502840,;CDC42SE2,intron_variant,,ENST00000506419,;CDC42SE2,intron_variant,,ENST00000511432,;"	"G"	"ENSG00000158985"	"ENST00000505065"	"Transcript"	"intron_variant"	"-/4352"	"-/255"	"-/84"	""	""	""	"1"	NA	1	"CDC42SE2"	"HGNC"	18547	"protein_coding"	"YES"	"CCDS34224.1"	"ENSP00000427421"	"Q9NRR3"	"D6REL0"	"UPI000002503B"	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"244f3250-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"14533"	"RAPGEF6"	51735	"mskcc.org"	"GRCh37"	"5"	130763577	130763577	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4805-593C>T"	""	""	"ENST00000296859"	""	81	"49"	32	55	"55"	0	"RAPGEF6,intron_variant,,ENST00000509018,NM_016340.5,NM_001164386.1;RAPGEF6,intron_variant,,ENST00000307984,NM_001164387.1;CTC-432M15.3,intron_variant,,ENST00000514667,;RAPGEF6,intron_variant,,ENST00000507093,NM_001164388.1;RAPGEF6,intron_variant,,ENST00000296859,;RAPGEF6,intron_variant,,ENST00000512611,;"	"A"	"ENSG00000158987"	"ENST00000296859"	"Transcript"	"intron_variant"	"-/5618"	"-/4830"	"-/1609"	""	""	""	"1"	NA	-1	"RAPGEF6"	"HGNC"	20655	"protein_coding"	"YES"	"CCDS54900.1"	"ENSP00000296859"	"Q8TEU7"	"D6RB02"	"UPI000189A836"	""	""	""	""	"28/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"244f42cc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.395061728395062	"WGS"	FALSE
"14534"	"AFF4"	27125	"mskcc.org"	"GRCh37"	"5"	132302568	132302568	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000265343"	""	99	"92"	7	34	"34"	0	"AFF4,upstream_gene_variant,,ENST00000265343,NM_014423.3;AFF4,upstream_gene_variant,,ENST00000378595,;CTC-350I8.1,downstream_gene_variant,,ENST00000607688,;AFF4,upstream_gene_variant,,ENST00000491831,;AFF4,upstream_gene_variant,,ENST00000465484,;"	"C"	"ENSG00000072364"	"ENST00000265343"	"Transcript"	"upstream_gene_variant"	"-/9552"	"-/3492"	"-/1163"	""	""	""	"1"	"3242"	-1	"AFF4"	"HGNC"	17869	"protein_coding"	"YES"	"CCDS4164.1"	"ENSP00000265343"	"Q9UHB7"	"C9JCE0"	"UPI000006F558"	"NM_014423.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTT"	"244f94d4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0707070707070707	"WGS"	TRUE
"14535"	"SEC24A"	10802	"mskcc.org"	"GRCh37"	"5"	133988152	133988152	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.97+3289A>T"	""	""	"ENST00000398844"	""	79	"73"	6	26	"26"	0	"SEC24A,intron_variant,,ENST00000398844,NM_021982.2;SEC24A,intron_variant,,ENST00000322887,NM_001252231.1;SAR1B,upstream_gene_variant,,ENST00000507419,;"	"T"	"ENSG00000113615"	"ENST00000398844"	"Transcript"	"intron_variant"	"-/6299"	"-/3282"	"-/1093"	""	""	""	"1"	NA	1	"SEC24A"	"HGNC"	10703	"protein_coding"	"YES"	"CCDS43363.1"	"ENSP00000381823"	"O95486"	""	"UPI0000185FF9"	"NM_021982.2"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"244ffd52-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"14536"	"SEC24A"	10802	"mskcc.org"	"GRCh37"	"5"	134003719	134003719	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.739+1033C>G"	""	""	"ENST00000398844"	""	109	"101"	8	38	"38"	0	"SEC24A,intron_variant,,ENST00000398844,NM_021982.2;SEC24A,intron_variant,,ENST00000322887,NM_001252231.1;"	"G"	"ENSG00000113615"	"ENST00000398844"	"Transcript"	"intron_variant"	"-/6299"	"-/3282"	"-/1093"	""	""	""	"1"	NA	1	"SEC24A"	"HGNC"	10703	"protein_coding"	"YES"	"CCDS43363.1"	"ENSP00000381823"	"O95486"	""	"UPI0000185FF9"	"NM_021982.2"	""	""	""	"3/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"244ffe10-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.073394495412844	"WGS"	FALSE
"14537"	"SEC24A"	10802	"mskcc.org"	"GRCh37"	"5"	134003732	134003732	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.739+1046T>C"	""	""	"ENST00000398844"	""	108	"100"	8	39	"39"	0	"SEC24A,intron_variant,,ENST00000398844,NM_021982.2;SEC24A,intron_variant,,ENST00000322887,NM_001252231.1;"	"C"	"ENSG00000113615"	"ENST00000398844"	"Transcript"	"intron_variant"	"-/6299"	"-/3282"	"-/1093"	""	""	""	"1"	NA	1	"SEC24A"	"HGNC"	10703	"protein_coding"	"YES"	"CCDS43363.1"	"ENSP00000381823"	"O95486"	""	"UPI0000185FF9"	"NM_021982.2"	""	""	""	"3/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"244fff78-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"14538"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	135431821	135431821	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"55"	27	58	"58"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"245040dc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329268292682927	"WGS"	FALSE
"14539"	"SPOCK1"	6695	"mskcc.org"	"GRCh37"	"5"	136653816	136653816	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.187-51072A>T"	""	""	"ENST00000394945"	""	96	"57"	39	54	"54"	0	"SPOCK1,intron_variant,,ENST00000394945,NM_004598.3;SPOCK1,intron_variant,,ENST00000282223,;SPOCK1,intron_variant,,ENST00000510689,;SPOCK1,intron_variant,,ENST00000505690,;SPOCK1,upstream_gene_variant,,ENST00000510405,;SPOCK1,intron_variant,,ENST00000509293,;SPOCK1,intron_variant,,ENST00000503916,;"	"A"	"ENSG00000152377"	"ENST00000394945"	"Transcript"	"intron_variant"	"-/4846"	"-/1320"	"-/439"	""	""	""	"1"	NA	-1	"SPOCK1"	"HGNC"	11251	"protein_coding"	"YES"	"CCDS4191.1"	"ENSP00000378401"	"Q08629"	"D6RB21,D6RAM7,D3DQB3"	"UPI0000136F50"	"NM_004598.3"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"2450626a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.40625	"WGS"	FALSE
"14540"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	137441287	137441287	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"62"	10	45	"45"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"24508a60-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138888888888889	"WGS"	FALSE
"14541"	"CDC23"	8697	"mskcc.org"	"GRCh37"	"5"	137540625	137540625	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.372+1611T>C"	""	""	"ENST00000394886"	""	86	"54"	32	45	"45"	0	"CDC23,intron_variant,,ENST00000394886,NM_004661.3;CDC23,downstream_gene_variant,,ENST00000394884,;CDC23,downstream_gene_variant,,ENST00000505120,;CDC23,intron_variant,,ENST00000482948,;CDC23,intron_variant,,ENST00000511383,;CDC23,intron_variant,,ENST00000483961,;"	"G"	"ENSG00000094880"	"ENST00000394886"	"Transcript"	"intron_variant"	"-/3153"	"-/1794"	"-/597"	""	""	""	"1"	NA	-1	"CDC23"	"HGNC"	1724	"protein_coding"	"YES"	"CCDS4200.2"	"ENSP00000378350"	"Q9UJX2"	""	"UPI000020C69D"	"NM_004661.3"	""	""	""	"3/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"2450949c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.372093023255814	"WGS"	FALSE
"14542"	"DNAJC18"	202052	"mskcc.org"	"GRCh37"	"5"	138757106	138757106	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.780-1192A>G"	""	""	"ENST00000302060"	""	89	"79"	10	51	"51"	0	"DNAJC18,intron_variant,,ENST00000302060,NM_152686.3;DNAJC18,intron_variant,,ENST00000508445,;DNAJC18,intron_variant,,ENST00000514052,;DNAJC18,downstream_gene_variant,,ENST00000515581,;DNAJC18,downstream_gene_variant,,ENST00000515277,;DNAJC18,intron_variant,,ENST00000507405,;DNAJC18,downstream_gene_variant,,ENST00000505568,;DNAJC18,downstream_gene_variant,,ENST00000506870,;DNAJC18,upstream_gene_variant,,ENST00000510770,;"	"C"	"ENSG00000170464"	"ENST00000302060"	"Transcript"	"intron_variant"	"-/5103"	"-/1077"	"-/358"	""	""	""	"1"	NA	-1	"DNAJC18"	"HGNC"	28429	"protein_coding"	"YES"	"CCDS4214.1"	"ENSP00000302843"	"Q9H819"	"D6REJ9,D6RCS7,D6RB03"	"UPI00000375B2"	"NM_152686.3"	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"24510742-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112359550561798	"WGS"	FALSE
"14543"	"CTB-35F21.1"	0	"mskcc.org"	"GRCh37"	"5"	139108832	139108832	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.246+7280G>T"	""	""	"ENST00000515296"	""	67	"41"	26	34	"34"	0	"CTB-35F21.1,intron_variant,,ENST00000515296,;"	"T"	"ENSG00000249526"	"ENST00000515296"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/568"	""	""	""	""	""	"1"	NA	1	"CTB-35F21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"24513212-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388059701492537	"WGS"	FALSE
"14544"	"CYSTM1"	84418	"mskcc.org"	"GRCh37"	"5"	139567094	139567094	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-20-6937G>T"	""	""	"ENST00000261811"	""	87	"51"	36	46	"46"	0	"CYSTM1,intron_variant,,ENST00000261811,NM_032412.3;CYSTM1,intron_variant,,ENST00000509789,;CYSTM1,intron_variant,,ENST00000509589,;CYSTM1,intron_variant,,ENST00000504227,;"	"T"	"ENSG00000120306"	"ENST00000261811"	"Transcript"	"intron_variant"	"-/1334"	"-/294"	"-/97"	""	""	""	"1"	NA	1	"CYSTM1"	"HGNC"	30239	"protein_coding"	"YES"	"CCDS4221.1"	"ENSP00000261811"	"Q9H1C7"	""	"UPI000004A7BE"	"NM_032412.3"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"2451463a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.413793103448276	"WGS"	FALSE
"14545"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	148169339	148169339	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"57"	28	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"2452b9f2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329411764705882	"WGS"	FALSE
"14546"	"ABLIM3"	22885	"mskcc.org"	"GRCh37"	"5"	148516094	148516094	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000309868"	""	78	"44"	34	59	"59"	0	"ABLIM3,upstream_gene_variant,,ENST00000309868,NM_014945.2;ABLIM3,upstream_gene_variant,,ENST00000326685,;ABLIM3,upstream_gene_variant,,ENST00000356541,;"	"T"	"ENSG00000173210"	"ENST00000309868"	"Transcript"	"upstream_gene_variant"	"-/4326"	"-/2052"	"-/683"	""	""	""	"1"	"4972"	1	"ABLIM3"	"HGNC"	29132	"protein_coding"	""	"CCDS4294.1"	"ENSP00000310309"	"O94929"	""	"UPI0000071FF7"	"NM_014945.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"2452c41a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.435897435897436	"WGS"	FALSE
"14547"	"G3BP1"	10146	"mskcc.org"	"GRCh37"	"5"	151182098	151182098	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1195-1348G>T"	""	""	"ENST00000394123"	""	106	"70"	36	51	"51"	0	"G3BP1,intron_variant,,ENST00000394123,;G3BP1,intron_variant,,ENST00000356245,NM_005754.2,NM_198395.1;G3BP1,intron_variant,,ENST00000543466,;G3BP1,intron_variant,,ENST00000520177,;G3BP1,intron_variant,,ENST00000522761,;"	"T"	"ENSG00000145907"	"ENST00000394123"	"Transcript"	"intron_variant"	"-/10240"	"-/1401"	"-/466"	""	""	""	"1"	NA	1	"G3BP1"	"HGNC"	30292	"protein_coding"	"YES"	"CCDS4319.1"	"ENSP00000377681"	"Q13283"	"Q5U0Q1,F5H4D6,E5RIF8,E5RI46,E5RH42"	"UPI0000030309"	""	""	""	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"24534778-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.339622641509434	"WGS"	FALSE
"14548"	"GLRA1"	2741	"mskcc.org"	"GRCh37"	"5"	151224330	151224330	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.912+6621C>A"	""	""	"ENST00000455880"	""	110	"74"	36	52	"52"	0	"GLRA1,intron_variant,,ENST00000274576,NM_001146040.1,NM_000171.3;GLRA1,intron_variant,,ENST00000455880,;GLRA1,intron_variant,,ENST00000545569,;GLRA1,downstream_gene_variant,,ENST00000471351,;GLRA1,intron_variant,,ENST00000462581,;RP11-54C4.2,upstream_gene_variant,,ENST00000603996,;"	"T"	"ENSG00000145888"	"ENST00000455880"	"Transcript"	"intron_variant"	"-/1707"	"-/1374"	"-/457"	""	""	""	"1"	NA	-1	"GLRA1"	"HGNC"	4326	"protein_coding"	"YES"	"CCDS54942.1"	"ENSP00000411593"	"P23415"	""	"UPI0000DA6BF2"	""	""	""	""	"7/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"24534b10-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.327272727272727	"WGS"	FALSE
"14549"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	151821885	151821885	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"74"	28	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"24535998-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274509803921569	"WGS"	FALSE
"14550"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	153316146	153316146	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"80"	5	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"245392b4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"14551"	"CNOT8"	9337	"mskcc.org"	"GRCh37"	"5"	154247876	154247876	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.312-2345A>T"	""	""	"ENST00000517876"	""	58	"53"	5	39	"39"	0	"CNOT8,intron_variant,,ENST00000517876,;CNOT8,intron_variant,,ENST00000403027,NM_004779.4;CNOT8,intron_variant,,ENST00000285896,;CNOT8,intron_variant,,ENST00000521450,;CNOT8,intron_variant,,ENST00000521583,;CNOT8,intron_variant,,ENST00000519404,;CNOT8,intron_variant,,ENST00000520671,;CNOT8,intron_variant,,ENST00000518775,;CNOT8,intron_variant,,ENST00000520472,;CNOT8,intron_variant,,ENST00000524105,;CNOT8,intron_variant,,ENST00000523698,;CNOT8,intron_variant,,ENST00000517568,;CNOT8,intron_variant,,ENST00000519903,;CNOT8,intron_variant,,ENST00000522458,;CNOT8,intron_variant,,ENST00000519211,;CNOT8,downstream_gene_variant,,ENST00000519430,;CNOT8,downstream_gene_variant,,ENST00000518028,;CNOT8,downstream_gene_variant,,ENST00000519394,;CNOT8,downstream_gene_variant,,ENST00000521402,;CNOT8,intron_variant,,ENST00000521729,;CNOT8,intron_variant,,ENST00000522644,;CNOT8,upstream_gene_variant,,ENST00000522139,;"	"T"	"ENSG00000155508"	"ENST00000517876"	"Transcript"	"intron_variant"	"-/2708"	"-/879"	"-/292"	""	""	""	"1"	NA	1	"CNOT8"	"HGNC"	9207	"protein_coding"	"YES"	"CCDS4329.1"	"ENSP00000430493"	"Q9UFF9"	"E5RK92,E5RJC5,E5RIU0,E5RHG0,E5RGE4,E5RFJ4,B7Z9U0,B7Z5Z0,B0AZS3"	"UPI0000000E08"	""	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"2453c70c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0862068965517241	"WGS"	FALSE
"14552"	"PTTG1"	9232	"mskcc.org"	"GRCh37"	"5"	159849982	159849982	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.276+82G>A"	""	""	"ENST00000393964"	""	97	"75"	22	44	"44"	0	"PTTG1,intron_variant,,ENST00000393964,NM_001282382.1;PTTG1,intron_variant,,ENST00000520452,NM_001282383.1;PTTG1,intron_variant,,ENST00000352433,NM_004219.2;PTTG1,intron_variant,,ENST00000517480,;SLU7,upstream_gene_variant,,ENST00000297151,NM_006425.4;SLU7,upstream_gene_variant,,ENST00000520664,;SLU7,upstream_gene_variant,,ENST00000519349,;SLU7,upstream_gene_variant,,ENST00000521826,;PTTG1,intron_variant,,ENST00000519287,;PTTG1,non_coding_transcript_exon_variant,,ENST00000524244,;PTTG1,intron_variant,,ENST00000523659,;SLU7,upstream_gene_variant,,ENST00000518268,;SLU7,upstream_gene_variant,,ENST00000521190,;"	"A"	"ENSG00000164611"	"ENST00000393964"	"Transcript"	"intron_variant"	"-/1070"	"-/609"	"-/202"	""	""	""	"1"	NA	1	"PTTG1"	"HGNC"	9690	"protein_coding"	"YES"	"CCDS4353.1"	"ENSP00000377536"	"O95997"	"Q6IAL9,Q2VPE7,C4TNW4"	"UPI0000044DCB"	"NM_001282382.1"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"2454ac80-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22680412371134	"WGS"	FALSE
"14553"	"RP11-541P9.3"	0	"mskcc.org"	"GRCh37"	"5"	162574533	162574533	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.118-58181C>G"	""	""	"ENST00000509211"	""	88	"74"	14	46	"46"	0	"RP11-541P9.3,intron_variant,,ENST00000509211,;RP11-541P9.3,intron_variant,,ENST00000458002,;"	"C"	"ENSG00000250061"	"ENST00000509211"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/630"	""	""	""	""	""	"1"	NA	-1	"RP11-541P9.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"24550ef0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.159090909090909	"WGS"	FALSE
"14554"	"TENM2"	57451	"mskcc.org"	"GRCh37"	"5"	167586901	167586901	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2423-2715T>C"	""	""	"ENST00000518659"	""	75	"49"	26	48	"48"	0	"TENM2,intron_variant,,ENST00000519204,;TENM2,intron_variant,,ENST00000403607,;TENM2,intron_variant,,ENST00000518659,NM_001122679.1;TENM2,intron_variant,,ENST00000545108,;TENM2,intron_variant,,ENST00000520394,;CTB-178M22.1,intron_variant,,ENST00000517408,;TENM2,upstream_gene_variant,,ENST00000521126,;"	"C"	"ENSG00000145934"	"ENST00000518659"	"Transcript"	"intron_variant"	"-/8550"	"-/8325"	"-/2774"	""	""	""	"1"	NA	1	"TENM2"	"HGNC"	29943	"protein_coding"	"YES"	""	"ENSP00000429430"	"Q9NT68"	"G8BLJ6,G3CAS7"	"UPI0001C48FC2"	"NM_001122679.1"	""	""	""	"12/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"2455d466-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346666666666667	"WGS"	FALSE
"14555"	"WWC1"	23286	"mskcc.org"	"GRCh37"	"5"	167870053	167870053	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2433+1214G>T"	""	""	"ENST00000521089"	""	66	"48"	18	45	"45"	0	"WWC1,intron_variant,,ENST00000265293,NM_001161662.1,NM_001161661.1,NM_015238.2;WWC1,intron_variant,,ENST00000393895,;WWC1,intron_variant,,ENST00000521089,;WWC1,intron_variant,,ENST00000524228,;WWC1,intron_variant,,ENST00000524038,;WWC1,intron_variant,,ENST00000522140,;WWC1,intron_variant,,ENST00000524093,;"	"T"	"ENSG00000113645"	"ENST00000521089"	"Transcript"	"intron_variant"	"-/3562"	"-/3360"	"-/1119"	""	""	""	"1"	NA	1	"WWC1"	"HGNC"	29435	"protein_coding"	"YES"	"CCDS54945.1"	"ENSP00000427772"	"Q8IX03"	""	"UPI00017A7149"	""	""	""	""	"16/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"2455dcd6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"14556"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	167907453	167907453	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"76"	5	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"2455e0be-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"14557"	"CTC-575D19.1"	0	"mskcc.org"	"GRCh37"	"5"	168041016	168041016	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000406049"	""	90	"67"	23	54	"54"	0	"CTC-575D19.1,upstream_gene_variant,,ENST00000406049,;CTC-575D19.1,upstream_gene_variant,,ENST00000522551,;"	"A"	"ENSG00000233913"	"ENST00000406049"	"Transcript"	"upstream_gene_variant"	"-/743"	""	""	""	""	""	"1"	"2301"	1	"CTC-575D19.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"2455e7c6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255555555555556	"WGS"	FALSE
"14558"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	170805770	170805770	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"98"	8	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"24565d64-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0754716981132075	"WGS"	FALSE
"14559"	"NSG2"	51617	"mskcc.org"	"GRCh37"	"5"	173648485	173648485	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*18+16178C>T"	""	""	"ENST00000521585"	""	74	"68"	6	55	"55"	0	"NSG2,intron_variant,,ENST00000521585,;"	"T"	"ENSG00000170091"	"ENST00000521585"	"Transcript"	"intron_variant"	"-/1260"	"-/300"	"-/99"	""	""	""	"1"	NA	1	"NSG2"	"Uniprot_gn"	NA	"protein_coding"	""	""	"ENSP00000429863"	""	"E5RH73"	"UPI0001E8F2B0"	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"24572460-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"14560"	"RP11-1101H11.1"	0	"mskcc.org"	"GRCh37"	"5"	177137333	177137333	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.258+3447G>C"	""	""	"ENST00000509363"	""	70	"65"	5	42	"42"	0	"RP11-1101H11.1,intron_variant,,ENST00000509363,;FAM153A,intron_variant,,ENST00000506011,;FAM153A,downstream_gene_variant,,ENST00000509607,;FAM153A,downstream_gene_variant,,ENST00000514899,;FAM153A,downstream_gene_variant,,ENST00000360669,;"	"C"	"ENSG00000249849"	"ENST00000509363"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/431"	""	""	""	""	""	"1"	NA	1	"RP11-1101H11.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"24584d5e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"14561"	"CNOT6"	57472	"mskcc.org"	"GRCh37"	"5"	179982491	179982491	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.385+2020T>A"	""	""	"ENST00000393356"	""	82	"58"	24	52	"52"	0	"CNOT6,intron_variant,,ENST00000393356,;CNOT6,intron_variant,,ENST00000261951,NM_015455.3;CNOT6,intron_variant,,ENST00000504343,;CNOT6,intron_variant,,ENST00000502447,;"	"A"	"ENSG00000113300"	"ENST00000393356"	"Transcript"	"intron_variant"	"-/6303"	"-/1674"	"-/557"	""	""	""	"1"	NA	1	"CNOT6"	"HGNC"	14099	"protein_coding"	"YES"	"CCDS4455.1"	"ENSP00000377024"	"Q9ULM6"	""	"UPI000013D22B"	""	""	""	""	"6/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"2459dc0a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292682926829268	"WGS"	FALSE
"14562"	"CNOT6"	57472	"mskcc.org"	"GRCh37"	"5"	179982492	179982492	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.385+2021G>C"	""	""	"ENST00000393356"	""	80	"56"	24	50	"50"	0	"CNOT6,intron_variant,,ENST00000393356,;CNOT6,intron_variant,,ENST00000261951,NM_015455.3;CNOT6,intron_variant,,ENST00000504343,;CNOT6,intron_variant,,ENST00000502447,;"	"C"	"ENSG00000113300"	"ENST00000393356"	"Transcript"	"intron_variant"	"-/6303"	"-/1674"	"-/557"	""	""	""	"1"	NA	1	"CNOT6"	"HGNC"	14099	"protein_coding"	"YES"	"CCDS4455.1"	"ENSP00000377024"	"Q9ULM6"	""	"UPI000013D22B"	""	""	""	""	"6/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"2459dcbe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"14563"	"CNOT6"	57472	"mskcc.org"	"GRCh37"	"5"	179982493	179982493	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.385+2022C>T"	""	""	"ENST00000393356"	""	83	"59"	24	52	"52"	0	"CNOT6,intron_variant,,ENST00000393356,;CNOT6,intron_variant,,ENST00000261951,NM_015455.3;CNOT6,intron_variant,,ENST00000504343,;CNOT6,intron_variant,,ENST00000502447,;"	"T"	"ENSG00000113300"	"ENST00000393356"	"Transcript"	"intron_variant"	"-/6303"	"-/1674"	"-/557"	""	""	""	"1"	NA	1	"CNOT6"	"HGNC"	14099	"protein_coding"	"YES"	"CCDS4455.1"	"ENSP00000377024"	"Q9ULM6"	""	"UPI000013D22B"	""	""	""	""	"6/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"2459dd72-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289156626506024	"WGS"	FALSE
"14564"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	1000704	1000704	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"60"	30	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"245aa3e2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14565"	"GMDS"	2762	"mskcc.org"	"GRCh37"	"6"	1821992	1821992	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.772-79172C>A"	""	""	"ENST00000380815"	""	79	"45"	34	55	"55"	0	"GMDS,intron_variant,,ENST00000380815,NM_001500.3;GMDS,intron_variant,,ENST00000530927,NM_001253846.1;GMDS,intron_variant,,ENST00000531690,;GMDS,intron_variant,,ENST00000380805,;"	"T"	"ENSG00000112699"	"ENST00000380815"	"Transcript"	"intron_variant"	"-/1752"	"-/1119"	"-/372"	""	""	""	"1"	NA	-1	"GMDS"	"HGNC"	4369	"protein_coding"	"YES"	"CCDS4474.1"	"ENSP00000370194"	"O60547"	""	"UPI000012B8AA"	"NM_001500.3"	""	""	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"245ad9ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.430379746835443	"WGS"	FALSE
"14566"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	4505360	4505360	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"65"	7	39	"39"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"245b5b98-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"14567"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	7065370	7065370	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	50	"43"	7	19	"19"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"245beb80-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.14	"WGS"	FALSE
"14568"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	8829222	8829222	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"50"	24	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"245c4454-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324324324324324	"WGS"	FALSE
"14569"	"MAK"	4117	"mskcc.org"	"GRCh37"	"6"	10823530	10823530	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.102-4357T>A"	""	""	"ENST00000313243"	""	87	"55"	32	56	"56"	0	"MAK,intron_variant,,ENST00000313243,;MAK,intron_variant,,ENST00000474039,NM_001242957.1,NM_001242385.1,NM_005906.4;MAK,intron_variant,,ENST00000354489,;MAK,intron_variant,,ENST00000538030,;MAK,intron_variant,,ENST00000536370,;SYCP2L,intron_variant,,ENST00000543878,;TMEM14B,intron_variant,,ENST00000489137,;TMEM14B,intron_variant,,ENST00000463448,;RP11-637O19.3,intron_variant,,ENST00000480294,;TMEM14B,intron_variant,,ENST00000473166,;TMEM14B,intron_variant,,ENST00000460341,;TMEM14B,intron_variant,,ENST00000463100,;TMEM14B,intron_variant,,ENST00000467229,;"	"T"	"ENSG00000111837"	"ENST00000313243"	"Transcript"	"intron_variant"	"-/3984"	"-/1872"	"-/623"	""	""	""	"1"	NA	-1	"MAK"	"HGNC"	6816	"protein_coding"	"YES"	"CCDS4516.1"	"ENSP00000313021"	"P20794"	""	"UPI0000001BCD"	""	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"245cae58-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.367816091954023	"WGS"	FALSE
"14570"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	13846708	13846708	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"93"	8	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"245d3058-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0792079207920792	"WGS"	FALSE
"14571"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	14971941	14971941	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"61"	5	40	"40"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"245d644c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0757575757575758	"WGS"	FALSE
"14572"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	14971945	14971945	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"58"	5	39	"39"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"245d6500-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0793650793650794	"WGS"	FALSE
"14573"	"ENSR00001211926"	0	"mskcc.org"	"GRCh37"	"6"	15206147	15206147	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs758723506"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001211926"	""	87	"80"	7	35	"35"	0	""	"A"	""	"ENSR00001211926"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs758723506"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"245d854e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"14574"	"RP1-151F17.2"	0	"mskcc.org"	"GRCh37"	"6"	16771095	16771095	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000606924"	""	88	"81"	7	49	"49"	0	"RP1-151F17.2,downstream_gene_variant,,ENST00000606924,;"	"T"	"ENSG00000272341"	"ENST00000606924"	"Transcript"	"downstream_gene_variant"	"-/2538"	""	""	""	""	""	"1"	"3981"	1	"RP1-151F17.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"245dd5b2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0795454545454545	"WGS"	FALSE
"14575"	"CAP2"	10486	"mskcc.org"	"GRCh37"	"6"	17543835	17543835	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1209+461G>A"	""	""	"ENST00000229922"	""	73	"65"	8	33	"33"	0	"CAP2,intron_variant,,ENST00000229922,NM_006366.2;CAP2,intron_variant,,ENST00000378990,;CAP2,intron_variant,,ENST00000489374,;CAP2,intron_variant,,ENST00000465994,;CAP2,intron_variant,,ENST00000493172,;CAP2,intron_variant,,ENST00000479291,;CAP2,downstream_gene_variant,,ENST00000476263,;"	"A"	"ENSG00000112186"	"ENST00000229922"	"Transcript"	"intron_variant"	"-/3316"	"-/1434"	"-/477"	""	""	""	"1"	NA	1	"CAP2"	"HGNC"	20039	"protein_coding"	"YES"	"CCDS4539.1"	"ENSP00000229922"	"P40123"	""	"UPI0000126EC6"	"NM_006366.2"	""	""	""	"11/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"245dfd8a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10958904109589	"WGS"	FALSE
"14576"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"6"	18273152	18273152	"+"	"3'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000362845"	""	80	"52"	28	45	"45"	0	"Y_RNA,downstream_gene_variant,,ENST00000362845,;"	"C"	"ENSG00000199715"	"ENST00000362845"	"Transcript"	"downstream_gene_variant"	"-/102"	""	""	""	""	""	"1"	"244"	-1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"245e3d9a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WGS"	FALSE
"14577"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	18556488	18556488	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	16	"12"	4	6	"6"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"245e5140-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"14578"	"ENSR00001493784"	0	"mskcc.org"	"GRCh37"	"6"	19257925	19257925	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001493784"	""	100	"73"	27	60	"60"	0	""	"C"	""	"ENSR00001493784"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"245e70c6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27	"WGS"	FALSE
"14579"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	19963734	19963734	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"69"	30	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"245e95d8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303030303030303	"WGS"	FALSE
"14580"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	21428315	21428315	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"55"	7	45	"45"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"245ede1c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112903225806452	"WGS"	FALSE
"14581"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	21428327	21428327	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"57"	5	49	"49"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"245edec6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WGS"	FALSE
"14582"	"CASC15"	401237	"mskcc.org"	"GRCh37"	"6"	21672953	21672953	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.455+3823T>A"	""	""	"ENST00000606851"	""	87	"81"	6	40	"40"	0	"CASC15,intron_variant,,ENST00000606851,;CASC15,intron_variant,,ENST00000607048,;CASC15,intron_variant,,ENST00000606336,;"	"A"	"ENSG00000272168"	"ENST00000606851"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1889"	""	""	""	""	""	"1"	NA	1	"CASC15"	"HGNC"	28245	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"245ef6b8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"14583"	"CASC15"	401237	"mskcc.org"	"GRCh37"	"6"	21672954	21672954	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.455+3824G>C"	""	""	"ENST00000606851"	""	88	"81"	7	40	"40"	0	"CASC15,intron_variant,,ENST00000606851,;CASC15,intron_variant,,ENST00000607048,;CASC15,intron_variant,,ENST00000606336,;"	"C"	"ENSG00000272168"	"ENST00000606851"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1889"	""	""	""	""	""	"1"	NA	1	"CASC15"	"HGNC"	28245	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"245ef762-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0795454545454545	"WGS"	FALSE
"14584"	"CASC15"	401237	"mskcc.org"	"GRCh37"	"6"	21672971	21672971	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs552167648"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.455+3841A>G"	""	""	"ENST00000606851"	""	93	"85"	8	44	"44"	0	"CASC15,intron_variant,,ENST00000606851,;CASC15,intron_variant,,ENST00000607048,;CASC15,intron_variant,,ENST00000606336,;"	"G"	"ENSG00000272168"	"ENST00000606851"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1889"	""	""	""	""	"rs552167648"	"1"	NA	1	"CASC15"	"HGNC"	28245	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/11"	""	"G:0.0004"	"G:0.0015"	"G:0"	NA	"G:0"	"G:0"	"G:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"245ef848-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0860215053763441	"WGS"	FALSE
"14585"	"CASC15"	401237	"mskcc.org"	"GRCh37"	"6"	21678108	21678108	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.455+8978T>C"	""	""	"ENST00000606851"	""	77	"69"	8	45	"45"	0	"CASC15,intron_variant,,ENST00000606851,;CASC15,intron_variant,,ENST00000607048,;CASC15,intron_variant,,ENST00000606336,;"	"C"	"ENSG00000272168"	"ENST00000606851"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1889"	""	""	""	""	""	"1"	NA	1	"CASC15"	"HGNC"	28245	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"245efb04-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103896103896104	"WGS"	FALSE
"14586"	"KIAA0319"	9856	"mskcc.org"	"GRCh37"	"6"	24575660	24575660	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1734+936G>A"	""	""	"ENST00000378214"	""	87	"63"	24	40	"40"	0	"KIAA0319,intron_variant,,ENST00000535378,NM_001168374.1;KIAA0319,intron_variant,,ENST00000378214,NM_014809.3,NM_001168375.1;KIAA0319,intron_variant,,ENST00000537886,NM_001168377.1;KIAA0319,intron_variant,,ENST00000430948,NM_001168376.1;KIAA0319,intron_variant,,ENST00000543707,;"	"T"	"ENSG00000137261"	"ENST00000378214"	"Transcript"	"intron_variant"	"-/6802"	"-/3219"	"-/1072"	""	""	""	"1"	NA	-1	"KIAA0319"	"HGNC"	21580	"protein_coding"	"YES"	"CCDS34348.1"	"ENSP00000367459"	"Q5VV43"	""	"UPI000020D61A"	"NM_014809.3,NM_001168375.1"	""	""	""	"10/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"245f950a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275862068965517	"WGS"	FALSE
"14587"	"RP11-191A15.4"	0	"mskcc.org"	"GRCh37"	"6"	25217690	25217690	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000401481"	""	79	"54"	25	44	"44"	0	"RP11-191A15.4,upstream_gene_variant,,ENST00000401481,;"	"A"	"ENSG00000219681"	"ENST00000401481"	"Transcript"	"upstream_gene_variant"	"-/382"	""	""	""	""	""	"1"	"1226"	1	"RP11-191A15.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"245fb814-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316455696202532	"WGS"	FALSE
"14588"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	27555610	27555610	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"74"	6	38	"38"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"246044a0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"14589"	"HCG14"	414760	"mskcc.org"	"GRCh37"	"6"	28862607	28862607	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000444986"	""	78	"71"	7	54	"54"	0	"HCG14,upstream_gene_variant,,ENST00000444986,;ZNF90P2,upstream_gene_variant,,ENST00000419323,;"	"T"	"ENSG00000224157"	"ENST00000444986"	"Transcript"	"upstream_gene_variant"	"-/413"	""	""	""	""	""	"1"	"1700"	1	"HCG14"	"HGNC"	18323	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"2460981a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"14590"	"HCG17"	414778	"mskcc.org"	"GRCh37"	"6"	30208249	30208249	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.409+1675G>C"	""	""	"ENST00000453558"	""	84	"78"	6	34	"34"	0	"HCG17,intron_variant,,ENST00000453558,;TRIM26BP,intron_variant,,ENST00000427723,;"	"G"	"ENSG00000270604"	"ENST00000453558"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/732"	""	""	""	""	""	"1"	NA	-1	"HCG17"	"HGNC"	31339	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"2460dfaa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"14591"	"HCG17"	414778	"mskcc.org"	"GRCh37"	"6"	30208252	30208252	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.409+1672A>C"	""	""	"ENST00000453558"	""	87	"81"	6	36	"36"	0	"HCG17,intron_variant,,ENST00000453558,;TRIM26BP,intron_variant,,ENST00000427723,;"	"G"	"ENSG00000270604"	"ENST00000453558"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/732"	""	""	""	""	""	"1"	NA	-1	"HCG17"	"HGNC"	31339	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"2460e054-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"14592"	"DHX16"	8449	"mskcc.org"	"GRCh37"	"6"	30636817	30636817	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.666+1370T>C"	""	""	"ENST00000376442"	""	76	"68"	8	54	"54"	0	"DHX16,intron_variant,,ENST00000376442,NM_001164239.1,NM_003587.4;DHX16,intron_variant,,ENST00000415603,;"	"G"	"ENSG00000204560"	"ENST00000376442"	"Transcript"	"intron_variant"	"-/3445"	"-/3126"	"-/1041"	""	""	""	"1"	NA	-1	"DHX16"	"HGNC"	2739	"protein_coding"	"YES"	"CCDS4685.1"	"ENSP00000365625"	"O60231"	"Q5SQH4"	"UPI000000D73D"	"NM_001164239.1,NM_003587.4"	""	""	""	"4/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"2460f8a0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"14593"	"PPP1R18"	170954	"mskcc.org"	"GRCh37"	"6"	30645970	30645970	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1823-905C>A"	""	""	"ENST00000274853"	""	56	"38"	18	46	"46"	0	"PPP1R18,intron_variant,,ENST00000274853,NM_133471.3;PPP1R18,intron_variant,,ENST00000399199,NM_001134870.1;PPP1R18,intron_variant,,ENST00000488324,;PPP1R18,intron_variant,,ENST00000467662,;"	"T"	"ENSG00000146112"	"ENST00000274853"	"Transcript"	"intron_variant"	"-/4599"	"-/1842"	"-/613"	""	""	""	"1"	NA	-1	"PPP1R18"	"HGNC"	29413	"protein_coding"	"YES"	"CCDS43444.1"	"ENSP00000274853"	"Q6NYC8"	""	"UPI00001C1E5E"	"NM_133471.3"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"2460faa8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.321428571428571	"WGS"	FALSE
"14594"	"NCR3"	259197	"mskcc.org"	"GRCh37"	"6"	31565392	31565392	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000340027"	""	76	"68"	8	38	"38"	0	"NCR3,upstream_gene_variant,,ENST00000376073,NM_001145466.1;NCR3,upstream_gene_variant,,ENST00000340027,NM_147130.2;NCR3,upstream_gene_variant,,ENST00000376072,NM_001145467.1;NCR3,upstream_gene_variant,,ENST00000376071,;NCR3,upstream_gene_variant,,ENST00000491161,;NCR3,upstream_gene_variant,,ENST00000495600,;"	"G"	"ENSG00000204475"	"ENST00000340027"	"Transcript"	"upstream_gene_variant"	"-/1042"	"-/606"	"-/201"	""	""	""	"1"	"4630"	-1	"NCR3"	"HGNC"	19077	"protein_coding"	"YES"	"CCDS34397.1"	"ENSP00000342156"	"O14931"	""	"UPI0000073DEE"	"NM_147130.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"2461d61c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"14595"	"UQCRHP1"	0	"mskcc.org"	"GRCh37"	"6"	31576352	31576352	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000424609"	""	64	"58"	6	38	"38"	0	"UQCRHP1,downstream_gene_variant,,ENST00000424609,;"	"C"	"ENSG00000230622"	"ENST00000424609"	"Transcript"	"downstream_gene_variant"	"-/274"	""	""	""	""	""	"1"	"2508"	-1	"UQCRHP1"	"HGNC"	31341	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"2461da36-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"14596"	"XXbac-BPG154L12.4"	0	"mskcc.org"	"GRCh37"	"6"	32234419	32234419	"+"	"3'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000425033"	""	78	"70"	8	42	"42"	0	"XXbac-BPG154L12.4,downstream_gene_variant,,ENST00000425033,;"	"G"	"ENSG00000225914"	"ENST00000425033"	"Transcript"	"downstream_gene_variant"	"-/3458"	""	""	""	""	""	"1"	"804"	1	"XXbac-BPG154L12.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"2462209a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"14597"	"HLA-DRB1"	3123	"mskcc.org"	"GRCh37"	"6"	32545989	32545989	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000360004"	""	24	"20"	4	20	"20"	0	"HLA-DRB1,downstream_gene_variant,,ENST00000360004,NM_002124.3;"	"G"	"ENSG00000196126"	"ENST00000360004"	"Transcript"	"downstream_gene_variant"	"-/1229"	"-/801"	"-/266"	""	""	""	"1"	"557"	-1	"HLA-DRB1"	"HGNC"	4948	"protein_coding"	"YES"	"CCDS47409.1"	"ENSP00000353099"	"Q9GIY3,P04229,Q29974,P01911"	"M9PAL6,M9PAH4,M9PAH2,M9PA34,M9P9N9,M9P9N6,M9P978,M9P8M8,M9P8M7,Q9TQ40,Q9MYD9,Q95HN3,Q8WMA1,Q8MGY6,Q8HWN3,Q860S9,Q5Y7C5,Q3LTJ8,Q1G100,Q1G0Z8,Q06653,I6NVX3,I6M556,H8WV95,H6A2E5,H2BDR9,G9I2P4,G9HW13,G1EMX6,G1EMX4,G1CD91,G0ZMM9,G0ZMM8,G0ZDX1,F8R8N1,F8R8N0,F4YZX5,F4YZX4,F4YZX3,F4YZX2,F4YZX1,F4YZW3,F4YUA8,F2X654,F2VNW9,F2VNV6,F2VNV5,F2QL89,F1CCP7,F1CCN5,F1CCN2,F1CCL9,F0V6B9,E7BYD5,E3SWP0,E3SWN9,E3SWN8,E0X9M7,D9IFQ2,D7RIH8,D7NR21,D6MJL2,D6MJC0,D6BPR2,D5M8A0,D5M899,D5G2K8,D5FZP5,D5FZP4,D5FIF2,D5FIE9,D5FIE8,D5FIE7,D5FIE6,D5FIE4,D5FID9,D5FID8,D5FID7,D5FID6,D5FID2,D5FID0,D5FIC9,D5FIC8,D3U4F4,C8CJD1,B7VU65,A1Z0K9,A0N0W0"	"UPI000008A1F7"	"NM_002124.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"246469ae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"14598"	"MTCO3P1"	0	"mskcc.org"	"GRCh37"	"6"	32671972	32671972	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"rs6907732"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000422088"	""	56	"49"	7	25	"25"	0	"MTCO3P1,downstream_gene_variant,,ENST00000422088,;"	"A"	"ENSG00000235040"	"ENST00000422088"	"Transcript"	"downstream_gene_variant"	"-/832"	""	""	""	""	"rs6907732"	"1"	"1929"	-1	"MTCO3P1"	"HGNC"	31342	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"2464c462-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"14599"	"MTCO3P1"	0	"mskcc.org"	"GRCh37"	"6"	32671974	32671974	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"rs9275458"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000422088"	""	56	"49"	7	27	"27"	0	"MTCO3P1,downstream_gene_variant,,ENST00000422088,;"	"G"	"ENSG00000235040"	"ENST00000422088"	"Transcript"	"downstream_gene_variant"	"-/832"	""	""	""	""	"rs9275458"	"1"	"1927"	-1	"MTCO3P1"	"HGNC"	31342	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"2464c516-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"14600"	"ENSR00001780353"	0	"mskcc.org"	"GRCh37"	"6"	33724757	33724757	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001780353"	""	77	"53"	24	47	"47"	0	""	"T"	""	"ENSR00001780353"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"24652dee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311688311688312	"WGS"	FALSE
"14601"	"RPS10-NUDT3"	100529239	"mskcc.org"	"GRCh37"	"6"	34372263	34372263	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.456+13883C>T"	""	""	"ENST00000605528"	""	78	"72"	6	36	"36"	0	"RPS10-NUDT3,intron_variant,,ENST00000605528,NM_001202470.2;"	"A"	"ENSG00000270800"	"ENST00000605528"	"Transcript"	"intron_variant"	"-/876"	"-/859"	"-/286"	""	""	""	"1"	NA	-1	"RPS10-NUDT3"	"HGNC"	49181	"protein_coding"	"YES"	""	"ENSP00000475027"	""	"S4R435"	"UPI0003335061"	"NM_001202470.2"	""	""	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"24655c88-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"14602"	"RPS10-NUDT3"	100529239	"mskcc.org"	"GRCh37"	"6"	34397807	34397807	"+"	"5'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000605528"	""	84	"59"	25	49	"49"	0	"RPS10-NUDT3,upstream_gene_variant,,ENST00000605528,NM_001202470.2;RPS10,upstream_gene_variant,,ENST00000344700,;RPS10,upstream_gene_variant,,ENST00000326199,NM_001014.4,NM_001204091.1,NM_001203245.2;RPS10,upstream_gene_variant,,ENST00000494077,;RPS10,upstream_gene_variant,,ENST00000467531,;RPS10,upstream_gene_variant,,ENST00000480942,;RPS10,upstream_gene_variant,,ENST00000464218,;"	"G"	"ENSG00000270800"	"ENST00000605528"	"Transcript"	"upstream_gene_variant"	"-/876"	"-/859"	"-/286"	""	""	""	"1"	"3982"	-1	"RPS10-NUDT3"	"HGNC"	49181	"protein_coding"	"YES"	""	"ENSP00000475027"	""	"S4R435"	"UPI0003335061"	"NM_001202470.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"2465649e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297619047619048	"WGS"	FALSE
"14603"	"TULP1"	7287	"mskcc.org"	"GRCh37"	"6"	35483450	35483450	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000229771"	""	72	"63"	9	43	"43"	0	"TULP1,upstream_gene_variant,,ENST00000229771,NM_003322.3;TULP1,upstream_gene_variant,,ENST00000322263,;TULP1,upstream_gene_variant,,ENST00000428978,;TULP1,upstream_gene_variant,,ENST00000373892,;TULP1,upstream_gene_variant,,ENST00000448446,;"	"T"	"ENSG00000112041"	"ENST00000229771"	"Transcript"	"upstream_gene_variant"	"-/2162"	"-/1629"	"-/542"	""	""	""	"1"	"2735"	-1	"TULP1"	"HGNC"	12423	"protein_coding"	"YES"	"CCDS4807.1"	"ENSP00000229771"	"O00294"	"Q0QD38"	"UPI000045742A"	"NM_003322.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"2465b8e0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"14604"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	35724623	35724623	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs145149681"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"69"	8	37	"37"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145149681"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"G:0.0008"	"G:0.0008"	"G:0"	NA	"G:0"	"G:0.003"	"G:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"2465c75e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103896103896104	"WGS"	FALSE
"14605"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	36314860	36314860	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"48"	34	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"2465e7e8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.414634146341463	"WGS"	FALSE
"14606"	"PPIL1"	51645	"mskcc.org"	"GRCh37"	"6"	36823166	36823166	"+"	"3'UTR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*423C>A"	""	""	"ENST00000373699"	"4/4"	101	"64"	37	59	"59"	0	"PPIL1,3_prime_UTR_variant,,ENST00000373699,NM_016059.4;PPIL1,non_coding_transcript_exon_variant,,ENST00000483552,;"	"T"	"ENSG00000137168"	"ENST00000373699"	"Transcript"	"3_prime_UTR_variant"	"1176/1739"	"-/501"	"-/166"	""	""	""	"1"	NA	-1	"PPIL1"	"HGNC"	9260	"protein_coding"	"YES"	"CCDS4826.1"	"ENSP00000362803"	"Q9Y3C6"	""	"UPI000004C600"	"NM_016059.4"	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"24660f02-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.366336633663366	"WGS"	FALSE
"14607"	"BTBD9"	114781	"mskcc.org"	"GRCh37"	"6"	38589040	38589040	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-28+18536G>C"	""	""	"ENST00000481247"	""	78	"56"	22	59	"59"	0	"BTBD9,intron_variant,,ENST00000481247,NM_052893.1,NM_001099272.1;BTBD9,intron_variant,,ENST00000497373,;BTBD9,intron_variant,,ENST00000498633,;"	"G"	"ENSG00000183826"	"ENST00000481247"	"Transcript"	"intron_variant"	"-/8525"	"-/1839"	"-/612"	""	""	""	"1"	NA	-1	"BTBD9"	"HGNC"	21228	"protein_coding"	"YES"	"CCDS47418.1"	"ENSP00000418751"	"Q96Q07"	"Q8N299,C9JVC1,C9J8E4"	"UPI00001C040E"	"NM_052893.1,NM_001099272.1"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"24667abe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282051282051282	"WGS"	FALSE
"14608"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	39229798	39229798	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"79"	7	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"24669a94-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0813953488372093	"WGS"	FALSE
"14609"	"GLTSCR1L"	23506	"mskcc.org"	"GRCh37"	"6"	42801776	42801776	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1839+3866G>C"	""	""	"ENST00000314073"	""	76	"69"	7	25	"25"	0	"GLTSCR1L,intron_variant,,ENST00000314073,;GLTSCR1L,intron_variant,,ENST00000394168,NM_015349.1;"	"C"	"ENSG00000112624"	"ENST00000314073"	"Transcript"	"intron_variant"	"-/6530"	"-/3240"	"-/1079"	""	""	""	"1"	NA	1	"GLTSCR1L"	"HGNC"	21111	"protein_coding"	"YES"	"CCDS34451.1"	"ENSP00000313933"	"Q6AI39"	""	"UPI0000161939"	""	""	""	""	"6/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"24676b9a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"14610"	"GLTSCR1L"	23506	"mskcc.org"	"GRCh37"	"6"	42801781	42801781	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1839+3871G>A"	""	""	"ENST00000314073"	""	75	"68"	7	28	"28"	0	"GLTSCR1L,intron_variant,,ENST00000314073,;GLTSCR1L,intron_variant,,ENST00000394168,NM_015349.1;"	"A"	"ENSG00000112624"	"ENST00000314073"	"Transcript"	"intron_variant"	"-/6530"	"-/3240"	"-/1079"	""	""	""	"1"	NA	1	"GLTSCR1L"	"HGNC"	21111	"protein_coding"	"YES"	"CCDS34451.1"	"ENSP00000313933"	"Q6AI39"	""	"UPI0000161939"	""	""	""	""	"6/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"24676c4e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0933333333333333	"WGS"	FALSE
"14611"	"KLC4"	89953	"mskcc.org"	"GRCh37"	"6"	43035617	43035617	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.933+796G>A"	""	""	"ENST00000259708"	""	50	"44"	6	15	"15"	0	"KLC4,intron_variant,,ENST00000394056,;KLC4,intron_variant,,ENST00000259708,NM_201523.1;KLC4,intron_variant,,ENST00000479388,;KLC4,intron_variant,,ENST00000394058,NM_201522.1;KLC4,intron_variant,,ENST00000347162,NM_201521.1;KLC4,intron_variant,,ENST00000453940,;KLC4,intron_variant,,ENST00000470728,;KLC4,downstream_gene_variant,,ENST00000458460,NM_138343.2;KLC4,downstream_gene_variant,,ENST00000481888,;KLC4,downstream_gene_variant,,ENST00000479632,;KLC4,intron_variant,,ENST00000467906,;KLC4,intron_variant,,ENST00000469987,;KLC4,downstream_gene_variant,,ENST00000481499,;KLC4,upstream_gene_variant,,ENST00000463063,;KLC4,downstream_gene_variant,,ENST00000472172,;KLC4,downstream_gene_variant,,ENST00000468114,;"	"A"	"ENSG00000137171"	"ENST00000259708"	"Transcript"	"intron_variant"	"-/2688"	"-/1914"	"-/637"	""	""	""	"1"	NA	1	"KLC4"	"HGNC"	21624	"protein_coding"	"YES"	"CCDS4882.1"	"ENSP00000259708"	"Q9NSK0"	"C9K0D5,C9JZE5,C9JXT5,C9JQU1"	"UPI000023C3DA"	"NM_201523.1"	""	""	""	"6/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"2467867a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"14612"	"PTK7"	5754	"mskcc.org"	"GRCh37"	"6"	43133450	43133450	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000481273"	""	65	"58"	7	32	"32"	0	"PTK7,downstream_gene_variant,,ENST00000230419,NM_002821.4;PTK7,downstream_gene_variant,,ENST00000345201,NM_152880.3;PTK7,downstream_gene_variant,,ENST00000352931,NM_152882.3;PTK7,downstream_gene_variant,,ENST00000349241,NM_152881.3;PTK7,downstream_gene_variant,,ENST00000481273,NM_001270398.1;PTK7,downstream_gene_variant,,ENST00000489707,;PTK7,downstream_gene_variant,,ENST00000487673,;PTK7,downstream_gene_variant,,ENST00000470019,;PTK7,downstream_gene_variant,,ENST00000230418,;PTK7,downstream_gene_variant,,ENST00000461389,;"	"C"	"ENSG00000112655"	"ENST00000481273"	"Transcript"	"downstream_gene_variant"	"-/3436"	"-/3237"	"-/1078"	""	""	""	"1"	"4702"	1	"PTK7"	"HGNC"	9618	"protein_coding"	"YES"	"CCDS59021.1"	"ENSP00000418754"	"Q13308"	""	"UPI0001B79423"	"NM_001270398.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"24679390-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107692307692308	"WGS"	FALSE
"14613"	"RSPH9"	221421	"mskcc.org"	"GRCh37"	"6"	43617114	43617114	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.228-998A>T"	""	""	"ENST00000372165"	""	81	"49"	32	36	"36"	0	"RSPH9,intron_variant,,ENST00000372165,NM_001193341.1;RSPH9,intron_variant,,ENST00000372163,NM_152732.4;"	"T"	"ENSG00000172426"	"ENST00000372165"	"Transcript"	"intron_variant"	"-/2586"	"-/921"	"-/306"	""	""	""	"1"	NA	1	"RSPH9"	"HGNC"	21057	"protein_coding"	"YES"	"CCDS55005.1"	"ENSP00000361238"	"Q9H1X1"	""	"UPI0000073514"	"NM_001193341.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"2467b636-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.395061728395062	"WGS"	FALSE
"14614"	"ENSR00001495629"	0	"mskcc.org"	"GRCh37"	"6"	45659111	45659111	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001495629"	""	72	"49"	23	43	"43"	0	""	"T"	""	"ENSR00001495629"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"24683caa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319444444444444	"WGS"	FALSE
"14615"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	45688636	45688636	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"71"	33	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"24683d5e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317307692307692	"WGS"	FALSE
"14616"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	45734032	45734032	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"68"	10	52	"52"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"2468401a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128205128205128	"WGS"	FALSE
"14617"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	46742740	46742740	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"77"	7	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"24685f5a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"14618"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	48091287	48091287	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"71"	21	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"246886d8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228260869565217	"WGS"	FALSE
"14619"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	48222990	48222990	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"49"	34	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"24688d0e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.409638554216867	"WGS"	FALSE
"14620"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	48405721	48405721	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"64"	27	34	"34"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"24689290-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296703296703297	"WGS"	FALSE
"14621"	"PKHD1"	5314	"mskcc.org"	"GRCh37"	"6"	51821922	51821922	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5908+2746A>T"	""	""	"ENST00000371117"	""	86	"53"	33	59	"59"	0	"PKHD1,intron_variant,,ENST00000371117,NM_138694.3;PKHD1,intron_variant,,ENST00000340994,NM_170724.2;"	"A"	"ENSG00000170927"	"ENST00000371117"	"Transcript"	"intron_variant"	"-/16282"	"-/12225"	"-/4074"	""	""	""	"1"	NA	-1	"PKHD1"	"HGNC"	9016	"protein_coding"	"YES"	"CCDS4935.1"	"ENSP00000360158"	"P08F94"	""	"UPI000013C4C0"	"NM_138694.3"	""	""	""	"36/66"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"2468e7d6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.383720930232558	"WGS"	FALSE
"14622"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	52827368	52827368	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"53"	33	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"24691a6c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.383720930232558	"WGS"	FALSE
"14623"	"COL21A1"	81578	"mskcc.org"	"GRCh37"	"6"	55962744	55962744	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1812+3526A>T"	""	""	"ENST00000244728"	""	19	"16"	3	18	"18"	0	"COL21A1,intron_variant,,ENST00000244728,NM_030820.3;COL21A1,intron_variant,,ENST00000535941,;COL21A1,intron_variant,,ENST00000370819,;COL21A1,intron_variant,,ENST00000488912,;"	"A"	"ENSG00000124749"	"ENST00000244728"	"Transcript"	"intron_variant"	"-/4339"	"-/2874"	"-/957"	""	""	""	"1"	NA	-1	"COL21A1"	"HGNC"	17025	"protein_coding"	"YES"	"CCDS55025.1"	"ENSP00000244728"	"Q96P44"	"A6PVD9"	"UPI0000071DFE"	"NM_030820.3"	""	""	""	"17/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"246987fe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"14624"	"COL21A1"	81578	"mskcc.org"	"GRCh37"	"6"	55962746	55962746	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1812+3524T>A"	""	""	"ENST00000244728"	""	18	"15"	3	18	"18"	0	"COL21A1,intron_variant,,ENST00000244728,NM_030820.3;COL21A1,intron_variant,,ENST00000535941,;COL21A1,intron_variant,,ENST00000370819,;COL21A1,intron_variant,,ENST00000488912,;"	"T"	"ENSG00000124749"	"ENST00000244728"	"Transcript"	"intron_variant"	"-/4339"	"-/2874"	"-/957"	""	""	""	"1"	NA	-1	"COL21A1"	"HGNC"	17025	"protein_coding"	"YES"	"CCDS55025.1"	"ENSP00000244728"	"Q96P44"	"A6PVD9"	"UPI0000071DFE"	"NM_030820.3"	""	""	""	"17/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"246988da-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"14625"	"COL21A1"	81578	"mskcc.org"	"GRCh37"	"6"	56090778	56090778	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-39+21407G>A"	""	""	"ENST00000244728"	""	111	"77"	34	53	"53"	0	"COL21A1,intron_variant,,ENST00000244728,NM_030820.3;COL21A1,intron_variant,,ENST00000535941,;COL21A1,intron_variant,,ENST00000370819,;COL21A1,intron_variant,,ENST00000370817,;"	"T"	"ENSG00000124749"	"ENST00000244728"	"Transcript"	"intron_variant"	"-/4339"	"-/2874"	"-/957"	""	""	""	"1"	NA	-1	"COL21A1"	"HGNC"	17025	"protein_coding"	"YES"	"CCDS55025.1"	"ENSP00000244728"	"Q96P44"	"A6PVD9"	"UPI0000071DFE"	"NM_030820.3"	""	""	""	"1/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"24698ee8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306306306306306	"WGS"	FALSE
"14626"	"DST"	667	"mskcc.org"	"GRCh37"	"6"	56624292	56624292	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.626-24205G>T"	""	""	"ENST00000370754"	""	105	"66"	39	52	"52"	0	"DST,intron_variant,,ENST00000370754,;DST,intron_variant,,ENST00000370769,;DST,intron_variant,,ENST00000312431,;DST,intron_variant,,ENST00000361203,;DST,intron_variant,,ENST00000370788,NM_001144769.2,NM_183380.3,NM_001144770.1;DST,intron_variant,,ENST00000421834,;DST,intron_variant,,ENST00000520645,;DST,intron_variant,,ENST00000449297,;DST,intron_variant,,ENST00000522538,;DST,intron_variant,,ENST00000523817,;DST,intron_variant,,ENST00000523967,;DST,intron_variant,,ENST00000521821,;DST,intron_variant,,ENST00000517937,;"	"A"	"ENSG00000151914"	"ENST00000370754"	"Transcript"	"intron_variant"	"-/24269"	"-/23253"	"-/7750"	""	""	""	"1"	NA	-1	"DST"	"HGNC"	1090	"protein_coding"	""	""	"ENSP00000359790"	""	"Q8WXY3,Q5T0V7,E9PEB9,E7ESK0"	"UPI0002065B99"	""	""	""	""	"4/101"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"24699d84-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.371428571428571	"WGS"	FALSE
"14627"	"ZNF451"	26036	"mskcc.org"	"GRCh37"	"6"	56988441	56988441	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.187-1091A>T"	""	""	"ENST00000370706"	""	101	"70"	31	41	"41"	0	"ZNF451,intron_variant,,ENST00000370706,NM_001031623.2;ZNF451,intron_variant,,ENST00000357489,NM_015555.2;ZNF451,intron_variant,,ENST00000491832,;ZNF451,intron_variant,,ENST00000510483,;ZNF451,intron_variant,,ENST00000515290,;ZNF451,intron_variant,,ENST00000370702,;RP11-203B9.4,intron_variant,,ENST00000416069,;RP11-203B9.4,intron_variant,,ENST00000586432,;RP11-203B9.4,intron_variant,,ENST00000592038,;RP11-203B9.4,intron_variant,,ENST00000588811,;RP11-203B9.4,intron_variant,,ENST00000586053,;RP11-203B9.4,intron_variant,,ENST00000586668,;RP11-203B9.4,intron_variant,,ENST00000591553,;RP11-203B9.4,intron_variant,,ENST00000587815,;RP11-203B9.4,intron_variant,,ENST00000585792,;RP11-203B9.4,intron_variant,,ENST00000592500,;ZNF451,intron_variant,,ENST00000509251,;ZNF451,intron_variant,,ENST00000509071,;ZNF451,intron_variant,,ENST00000444273,;ZNF451,intron_variant,,ENST00000502749,;ZNF451,intron_variant,,ENST00000370711,;ZNF451,intron_variant,,ENST00000504603,;"	"T"	"ENSG00000112200"	"ENST00000370706"	"Transcript"	"intron_variant"	"-/5268"	"-/3186"	"-/1061"	""	""	""	"1"	NA	1	"ZNF451"	"HGNC"	21091	"protein_coding"	"YES"	"CCDS43477.1"	"ENSP00000359740"	"Q9Y4E5"	"Q96JY2,D6RAV4"	"UPI000004A571"	"NM_001031623.2"	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"2469b72e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306930693069307	"WGS"	FALSE
"14628"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	57899998	57899998	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"56"	36	36	"36"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"246a4478-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.391304347826087	"WGS"	FALSE
"14629"	"RP11-278J20.2"	0	"mskcc.org"	"GRCh37"	"6"	58396988	58396988	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000404226"	""	102	"94"	8	52	"52"	0	"RP11-278J20.2,downstream_gene_variant,,ENST00000404226,;"	"T"	"ENSG00000216687"	"ENST00000404226"	"Transcript"	"downstream_gene_variant"	"-/1415"	""	""	""	""	""	"1"	"1010"	-1	"RP11-278J20.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"246a7434-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0784313725490196	"WGS"	FALSE
"14630"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	58567714	58567714	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"51"	28	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"246a80c8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354430379746835	"WGS"	FALSE
"14631"	"KHDRBS2"	202559	"mskcc.org"	"GRCh37"	"6"	62574733	62574733	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.810+29807C>A"	""	""	"ENST00000281156"	""	85	"75"	10	41	"41"	0	"KHDRBS2,intron_variant,,ENST00000281156,NM_152688.2;"	"T"	"ENSG00000112232"	"ENST00000281156"	"Transcript"	"intron_variant"	"-/2332"	"-/1050"	"-/349"	""	""	""	"1"	NA	-1	"KHDRBS2"	"HGNC"	18114	"protein_coding"	"YES"	"CCDS4963.1"	"ENSP00000281156"	"Q5VWX1"	""	"UPI000004D256"	"NM_152688.2"	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"246aa97c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"14632"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	63979587	63979587	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"60"	33	47	"47"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"246adeb0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354838709677419	"WGS"	FALSE
"14633"	"RP3-407E4.3"	0	"mskcc.org"	"GRCh37"	"6"	64109443	64109443	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000403446"	""	69	"62"	7	30	"30"	0	"RP3-407E4.3,upstream_gene_variant,,ENST00000403446,;"	"G"	"ENSG00000218274"	"ENST00000403446"	"Transcript"	"upstream_gene_variant"	"-/1548"	""	""	""	""	""	"1"	"2432"	-1	"RP3-407E4.3"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"246ae43c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101449275362319	"WGS"	FALSE
"14634"	"PHF3"	23469	"mskcc.org"	"GRCh37"	"6"	64409027	64409027	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2982+532T>G"	""	""	"ENST00000262043"	""	86	"62"	24	47	"47"	0	"PHF3,intron_variant,,ENST00000262043,;PHF3,intron_variant,,ENST00000393387,NM_015153.2;PHF3,intron_variant,,ENST00000506783,;PHF3,intron_variant,,ENST00000515594,;PHF3,downstream_gene_variant,,ENST00000494284,;PHF3,downstream_gene_variant,,ENST00000481385,;PHF3,upstream_gene_variant,,ENST00000503248,;PHF3,intron_variant,,ENST00000509876,;"	"G"	"ENSG00000118482"	"ENST00000262043"	"Transcript"	"intron_variant"	"-/8233"	"-/6120"	"-/2039"	""	""	""	"1"	NA	1	"PHF3"	"HGNC"	8921	"protein_coding"	"YES"	"CCDS4966.1"	"ENSP00000262043"	"Q92576"	"E9PE34,E7EVH3,E7ER40,B3KP41"	"UPI000007154D"	""	""	""	""	"8/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"246afcf6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27906976744186	"WGS"	FALSE
"14635"	"EYS"	346007	"mskcc.org"	"GRCh37"	"6"	64899204	64899204	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6424+41281T>G"	""	""	"ENST00000503581"	""	114	"75"	39	53	"53"	0	"EYS,intron_variant,,ENST00000503581,NM_001142800.1;EYS,intron_variant,,ENST00000370621,;EYS,intron_variant,,ENST00000370616,;"	"C"	"ENSG00000188107"	"ENST00000503581"	"Transcript"	"intron_variant"	"-/10589"	"-/9435"	"-/3144"	""	""	""	"1"	NA	-1	"EYS"	"HGNC"	21555	"protein_coding"	"YES"	"CCDS47445.1"	"ENSP00000424243"	"Q5T1H1"	""	"UPI000188F466"	"NM_001142800.1"	""	""	""	"31/42"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"246b0750-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342105263157895	"WGS"	FALSE
"14636"	"EYS"	346007	"mskcc.org"	"GRCh37"	"6"	64926516	64926516	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6424+13969C>T"	""	""	"ENST00000503581"	""	93	"60"	33	55	"55"	0	"EYS,intron_variant,,ENST00000503581,NM_001142800.1;EYS,intron_variant,,ENST00000370621,;EYS,intron_variant,,ENST00000370616,;"	"A"	"ENSG00000188107"	"ENST00000503581"	"Transcript"	"intron_variant"	"-/10589"	"-/9435"	"-/3144"	""	""	""	"1"	NA	-1	"EYS"	"HGNC"	21555	"protein_coding"	"YES"	"CCDS47445.1"	"ENSP00000424243"	"Q5T1H1"	""	"UPI000188F466"	"NM_001142800.1"	""	""	""	"31/42"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"246b0804-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354838709677419	"WGS"	FALSE
"14637"	"EYS"	346007	"mskcc.org"	"GRCh37"	"6"	65539862	65539862	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2993-7147A>T"	""	""	"ENST00000503581"	""	86	"65"	21	50	"50"	0	"EYS,intron_variant,,ENST00000503581,NM_001142800.1;EYS,intron_variant,,ENST00000370621,;EYS,intron_variant,,ENST00000370616,;"	"A"	"ENSG00000188107"	"ENST00000503581"	"Transcript"	"intron_variant"	"-/10589"	"-/9435"	"-/3144"	""	""	""	"1"	NA	-1	"EYS"	"HGNC"	21555	"protein_coding"	"YES"	"CCDS47445.1"	"ENSP00000424243"	"Q5T1H1"	""	"UPI000188F466"	"NM_001142800.1"	""	""	""	"19/42"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTG"	"246b1d76-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244186046511628	"WGS"	FALSE
"14638"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	66512781	66512781	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"52"	30	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"246b3950-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.365853658536585	"WGS"	FALSE
"14639"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	66814954	66814954	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"75"	7	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"246b46de-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"14640"	"RP11-301G19.1"	0	"mskcc.org"	"GRCh37"	"6"	68604218	68604218	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000412872"	""	88	"58"	30	58	"58"	0	"RP11-301G19.1,upstream_gene_variant,,ENST00000412872,;"	"A"	"ENSG00000227706"	"ENST00000412872"	"Transcript"	"upstream_gene_variant"	"-/1605"	""	""	""	""	""	"1"	"4987"	-1	"RP11-301G19.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"246b7f6e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340909090909091	"WGS"	FALSE
"14641"	"BAI3"	577	"mskcc.org"	"GRCh37"	"6"	69795474	69795474	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"rs567251451"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2480+9544A>G"	""	""	"ENST00000370598"	""	93	"62"	31	50	"50"	0	"BAI3,intron_variant,,ENST00000370598,NM_001704.2;"	"G"	"ENSG00000135298"	"ENST00000370598"	"Transcript"	"intron_variant"	"-/6010"	"-/4569"	"-/1522"	""	""	"rs567251451"	"1"	NA	1	"BAI3"	"HGNC"	945	"protein_coding"	"YES"	"CCDS4968.1"	"ENSP00000359630"	"O60242"	"S4R3D0,B7Z1K0"	"UPI00001AE6A9"	"NM_001704.2"	""	""	""	"17/31"	""	"G:0.0002"	"G:0"	"G:0"	NA	"G:0.001"	"G:0"	"G:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"246b9ff8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14642"	"RP11-154D6.1"	0	"mskcc.org"	"GRCh37"	"6"	71951851	71951851	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.74-8491G>A"	""	""	"ENST00000602418"	""	85	"58"	27	34	"34"	0	"RP11-154D6.1,intron_variant,,ENST00000602418,;"	"T"	"ENSG00000232295"	"ENST00000602418"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/488"	""	""	""	""	""	"1"	NA	-1	"RP11-154D6.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"246bebca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317647058823529	"WGS"	FALSE
"14643"	"RP11-257K9.8"	0	"mskcc.org"	"GRCh37"	"6"	73918244	73918244	"+"	"3'Flank"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000423730"	""	94	"62"	32	61	"61"	0	"RP11-257K9.8,downstream_gene_variant,,ENST00000423730,;KHDC1P1,downstream_gene_variant,,ENST00000511053,;"	"C"	"ENSG00000243501"	"ENST00000423730"	"Transcript"	"downstream_gene_variant"	"-/1636"	"-/516"	"-/171"	""	""	""	"1"	"1225"	-1	"RP11-257K9.8"	"Clone_based_vega_gene"	NA	"nonsense_mediated_decay"	"YES"	""	"ENSP00000457270"	""	"F5H697,A6PVU5"	"UPI0001890E64"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"246c31d4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340425531914894	"WGS"	FALSE
"14644"	"KHDC3L"	154288	"mskcc.org"	"GRCh37"	"6"	74070127	74070127	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000370367"	""	61	"52"	9	37	"37"	0	"KHDC3L,upstream_gene_variant,,ENST00000370367,NM_001017361.2;"	"G"	"ENSG00000203908"	"ENST00000370367"	"Transcript"	"upstream_gene_variant"	"-/1018"	"-/654"	"-/217"	""	""	""	"1"	"2273"	1	"KHDC3L"	"HGNC"	33699	"protein_coding"	"YES"	"CCDS34484.1"	"ENSP00000359392"	"Q587J8"	""	"UPI00001D8131"	"NM_001017361.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"246c450c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147540983606557	"WGS"	FALSE
"14645"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	75658618	75658618	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"50"	35	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"246c9b74-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411764705882353	"WGS"	FALSE
"14646"	"COL12A1"	1303	"mskcc.org"	"GRCh37"	"6"	75795499	75795499	"+"	"3'UTR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*764C>T"	""	""	"ENST00000322507"	"66/66"	75	"48"	27	61	"61"	0	"COL12A1,3_prime_UTR_variant,,ENST00000322507,NM_004370.5;COL12A1,intron_variant,,ENST00000425443,;COL12A1,downstream_gene_variant,,ENST00000483888,;COL12A1,downstream_gene_variant,,ENST00000416123,;COL12A1,downstream_gene_variant,,ENST00000345356,NM_080645.2;COL12A1,downstream_gene_variant,,ENST00000511023,;"	"A"	"ENSG00000111799"	"ENST00000322507"	"Transcript"	"3_prime_UTR_variant"	"10266/11723"	"-/9192"	"-/3063"	""	""	""	"1"	NA	-1	"COL12A1"	"HGNC"	2188	"protein_coding"	"YES"	"CCDS43482.1"	"ENSP00000325146"	"Q99715"	""	"UPI000045890B"	"NM_004370.5"	""	""	"66/66"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGT"	"246c9e3a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36	"WGS"	FALSE
"14647"	"COL12A1"	1303	"mskcc.org"	"GRCh37"	"6"	75859820	75859820	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4147+1037T>A"	""	""	"ENST00000322507"	""	95	"62"	33	45	"45"	0	"COL12A1,intron_variant,,ENST00000322507,NM_004370.5;COL12A1,intron_variant,,ENST00000483888,;COL12A1,intron_variant,,ENST00000416123,;COL12A1,intron_variant,,ENST00000345356,NM_080645.2;COL12A1,intron_variant,,ENST00000419671,;COL12A1,upstream_gene_variant,,ENST00000474564,;"	"T"	"ENSG00000111799"	"ENST00000322507"	"Transcript"	"intron_variant"	"-/11723"	"-/9192"	"-/3063"	""	""	""	"1"	NA	-1	"COL12A1"	"HGNC"	2188	"protein_coding"	"YES"	"CCDS43482.1"	"ENSP00000325146"	"Q99715"	""	"UPI000045890B"	"NM_004370.5"	""	""	""	"21/65"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"246c9f98-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347368421052632	"WGS"	FALSE
"14648"	"IMPG1"	3617	"mskcc.org"	"GRCh37"	"6"	76741807	76741807	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.497+2225G>A"	""	""	"ENST00000369950"	""	108	"71"	37	53	"53"	0	"IMPG1,intron_variant,,ENST00000369963,;IMPG1,intron_variant,,ENST00000369950,NM_001563.2,NM_001282368.1;"	"T"	"ENSG00000112706"	"ENST00000369950"	"Transcript"	"intron_variant"	"-/3558"	"-/2394"	"-/797"	""	""	""	"1"	NA	-1	"IMPG1"	"HGNC"	6055	"protein_coding"	"YES"	"CCDS4985.1"	"ENSP00000358966"	"Q17R60"	"H0UI08"	"UPI0000073F12"	"NM_001563.2,NM_001282368.1"	""	""	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"246cc55e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342592592592593	"WGS"	FALSE
"14649"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	77164156	77164156	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"67"	28	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"246cd260-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294736842105263	"WGS"	FALSE
"14650"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	78276776	78276776	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"57"	26	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"246cee08-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313253012048193	"WGS"	FALSE
"14651"	"MEI4"	101928601	"mskcc.org"	"GRCh37"	"6"	78505975	78505975	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.769-32673G>T"	""	""	"ENST00000602452"	""	78	"72"	6	54	"54"	0	"MEI4,intron_variant,,ENST00000602452,NM_001282136.1;"	"T"	"ENSG00000269964"	"ENST00000602452"	"Transcript"	"intron_variant"	"-/4800"	"-/1158"	"-/385"	""	""	""	"1"	NA	1	"MEI4"	"HGNC"	43638	"protein_coding"	"YES"	"CCDS64463.1"	"ENSP00000473370"	"A8MW99"	""	"UPI0002B831F8"	"NM_001282136.1"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"246cf8f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"14652"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	79050492	79050492	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"62"	35	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"246d1540-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.360824742268041	"WGS"	FALSE
"14653"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	80288241	80288241	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"52"	25	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"246d3e8a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324675324675325	"WGS"	FALSE
"14654"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	81789583	81789583	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"56"	30	46	"46"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"246d729c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.348837209302326	"WGS"	FALSE
"14655"	"FAM46A"	55603	"mskcc.org"	"GRCh37"	"6"	82415100	82415100	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.223+46207G>A"	""	""	"ENST00000412306"	""	86	"51"	35	51	"51"	0	"FAM46A,intron_variant,,ENST00000412306,;"	"T"	"ENSG00000112773"	"ENST00000412306"	"Transcript"	"intron_variant"	"-/546"	"-/267"	"-/88"	""	""	""	"1"	NA	-1	"FAM46A"	"HGNC"	18345	"protein_coding"	""	""	"ENSP00000401884"	""	""	"UPI000059D8F8"	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"246d880e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.406976744186047	"WGS"	FALSE
"14656"	"PRSS35"	167681	"mskcc.org"	"GRCh37"	"6"	84220353	84220353	"+"	"5'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000536636"	""	102	"71"	31	44	"44"	0	"PRSS35,upstream_gene_variant,,ENST00000536636,NM_001170423.1;PRSS35,upstream_gene_variant,,ENST00000369700,NM_153362.2;"	"T"	"ENSG00000146250"	"ENST00000536636"	"Transcript"	"upstream_gene_variant"	"-/2604"	"-/1242"	"-/413"	""	""	""	"1"	"1841"	1	"PRSS35"	"HGNC"	21387	"protein_coding"	"YES"	"CCDS4999.1"	"ENSP00000440870"	"Q8N3Z0"	""	"UPI000006D2C7"	"NM_001170423.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"246dba40-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303921568627451	"WGS"	FALSE
"14657"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	85887497	85887497	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"58"	35	43	"42"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"246deac4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.376344086021505	"WGS"	FALSE
"14658"	"SNHG5"	692088	"mskcc.org"	"GRCh37"	"6"	86390713	86390713	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000587692"	""	47	"41"	6	24	"24"	0	"SNHG5,upstream_gene_variant,,ENST00000587692,;SNHG5,upstream_gene_variant,,ENST00000369605,;SNHG5,upstream_gene_variant,,ENST00000435947,;SNHG5,upstream_gene_variant,,ENST00000428833,;SNHG5,upstream_gene_variant,,ENST00000589187,;SNHG5,upstream_gene_variant,,ENST00000414002,;SNHG5,upstream_gene_variant,,ENST00000453754,;SNHG5,upstream_gene_variant,,ENST00000433843,;SNHG5,upstream_gene_variant,,ENST00000384338,NR_002743.2;SNHG5,upstream_gene_variant,,ENST00000364995,NR_003044.3;SNHG5,upstream_gene_variant,,ENST00000420199,;SNHG5,upstream_gene_variant,,ENST00000431043,;SNHG5,upstream_gene_variant,,ENST00000427501,;SNHG5,upstream_gene_variant,,ENST00000425170,;"	"T"	"ENSG00000203875"	"ENST00000587692"	"Transcript"	"upstream_gene_variant"	"-/1029"	""	""	""	""	""	"1"	"2275"	-1	"SNHG5"	"HGNC"	21026	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"246dfe74-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127659574468085	"WGS"	FALSE
"14659"	"AL391417.1"	0	"mskcc.org"	"GRCh37"	"6"	87188293	87188293	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408174"	""	87	"79"	8	34	"34"	0	"AL391417.1,upstream_gene_variant,,ENST00000408174,;"	"G"	"ENSG00000221101"	"ENST00000408174"	"Transcript"	"upstream_gene_variant"	"-/109"	""	""	""	""	""	"1"	"4980"	-1	"AL391417.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"246e167a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"14660"	"ZNF292"	23036	"mskcc.org"	"GRCh37"	"6"	87977737	87977737	"+"	"3'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000369577"	""	81	"50"	31	41	"41"	0	"ZNF292,downstream_gene_variant,,ENST00000369577,NM_015021.1;"	"A"	"ENSG00000188994"	"ENST00000369577"	"Transcript"	"downstream_gene_variant"	"-/10610"	"-/8172"	"-/2723"	""	""	""	"1"	"3823"	1	"ZNF292"	"HGNC"	18410	"protein_coding"	"YES"	"CCDS47457.1"	"ENSP00000358590"	"O60281"	"Q6ZS01,Q6P495,Q3MN16"	"UPI000020D2CC"	"NM_015021.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"246e3d62-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.382716049382716	"WGS"	FALSE
"14661"	"C6ORF165"	154313	"mskcc.org"	"GRCh37"	"6"	88155699	88155699	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1494+10928T>A"	""	""	"ENST00000369562"	""	92	"68"	24	64	"64"	0	"C6ORF165,intron_variant,,ENST00000369562,NM_001031743.2;C6orf165,intron_variant,,ENST00000506888,;C6orf165,intron_variant,,ENST00000513191,;C6orf165,intron_variant,,ENST00000507897,;C6ORF165,intron_variant,,ENST00000489338,;RP3-382I10.3,upstream_gene_variant,,ENST00000406493,;ST13P16,upstream_gene_variant,,ENST00000401760,;"	"A"	"ENSG00000272514"	"ENST00000369562"	"Transcript"	"intron_variant"	"-/2196"	"-/1869"	"-/622"	""	""	""	"1"	NA	1	"C6ORF165"	"Uniprot_gn"	NA	"protein_coding"	"YES"	"CCDS34498.1"	"ENSP00000358575"	""	"Q8N771,H0UI21,D6RBZ4"	"UPI00001A3AA5"	"NM_001031743.2"	""	""	""	"11/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"246e4604-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"14662"	"RNGTT"	8732	"mskcc.org"	"GRCh37"	"6"	89665255	89665255	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.64+7810A>G"	""	""	"ENST00000369485"	""	52	"46"	6	28	"28"	0	"RNGTT,intron_variant,,ENST00000369485,NM_003800.3;RNGTT,intron_variant,,ENST00000265607,NM_001286428.1,NM_001286426.1;RNGTT,intron_variant,,ENST00000538899,;RNGTT,intron_variant,,ENST00000369475,;"	"C"	"ENSG00000111880"	"ENST00000369485"	"Transcript"	"intron_variant"	"-/4434"	"-/1794"	"-/597"	""	""	""	"1"	NA	-1	"RNGTT"	"HGNC"	10073	"protein_coding"	"YES"	"CCDS5017.1"	"ENSP00000358497"	"O60942"	"Q7Z3R6,B4DIQ0"	"UPI000012ED6E"	"NM_003800.3"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"246e8718-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"14663"	"ANKRD6"	22881	"mskcc.org"	"GRCh37"	"6"	90182641	90182641	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-144+39547G>T"	""	""	"ENST00000369408"	""	90	"64"	26	52	"52"	0	"ANKRD6,intron_variant,,ENST00000369408,NM_001242813.1;ANKRD6,intron_variant,,ENST00000339746,NM_001242809.1;ANKRD6,intron_variant,,ENST00000447838,NM_014942.4;ANKRD6,intron_variant,,ENST00000520886,;"	"T"	"ENSG00000135299"	"ENST00000369408"	"Transcript"	"intron_variant"	"-/5258"	"-/2079"	"-/692"	""	""	""	"1"	NA	1	"ANKRD6"	"HGNC"	17280	"protein_coding"	""	"CCDS56442.1"	"ENSP00000358416"	"Q9Y2G4"	"E5RJR9,E5RJ45,E5RIS1,E5RIJ4"	"UPI00004236DF"	"NM_001242813.1"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"246eb1de-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288888888888889	"WGS"	FALSE
"14664"	"ANKRD6"	22881	"mskcc.org"	"GRCh37"	"6"	90249415	90249415	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-143-27138T>G"	""	""	"ENST00000369408"	""	79	"55"	24	38	"38"	0	"ANKRD6,intron_variant,,ENST00000369408,NM_001242813.1;ANKRD6,intron_variant,,ENST00000339746,NM_001242809.1;ANKRD6,intron_variant,,ENST00000447838,NM_014942.4;ANKRD6,intron_variant,,ENST00000465722,;ANKRD6,intron_variant,,ENST00000523798,;ANKRD6,intron_variant,,ENST00000520458,;ANKRD6,intron_variant,,ENST00000520886,;"	"G"	"ENSG00000135299"	"ENST00000369408"	"Transcript"	"intron_variant"	"-/5258"	"-/2079"	"-/692"	""	""	""	"1"	NA	1	"ANKRD6"	"HGNC"	17280	"protein_coding"	""	"CCDS56442.1"	"ENSP00000358416"	"Q9Y2G4"	"E5RJR9,E5RJ45,E5RIS1,E5RIJ4"	"UPI00004236DF"	"NM_001242813.1"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"246eb3e6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30379746835443	"WGS"	FALSE
"14665"	"MDN1"	23195	"mskcc.org"	"GRCh37"	"6"	90457541	90457541	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"rs745463467"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3763-352C>G"	""	""	"ENST00000369393"	""	67	"62"	5	30	"30"	0	"MDN1,intron_variant,,ENST00000369393,;MDN1,intron_variant,,ENST00000428876,NM_014611.1;MDN1,downstream_gene_variant,,ENST00000439638,;"	"C"	"ENSG00000112159"	"ENST00000369393"	"Transcript"	"intron_variant"	"-/18413"	"-/16791"	"-/5596"	""	""	"rs745463467"	"1"	NA	-1	"MDN1"	"HGNC"	18302	"protein_coding"	"YES"	"CCDS5024.1"	"ENSP00000358400"	"Q9NU22"	"M0QXR3"	"UPI000013C4B8"	""	""	""	""	"26/101"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"246ec76e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0746268656716418	"WGS"	FALSE
"14666"	"CASP8AP2"	0	"mskcc.org"	"GRCh37"	"6"	90579280	90579280	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.7229+479T>A"	""	""	"ENST00000551025"	""	71	"66"	5	29	"29"	0	"CASP8AP2,intron_variant,,ENST00000551025,;CASP8AP2,intron_variant,,ENST00000237177,;CASP8AP2,intron_variant,,ENST00000548224,;"	"A"	"ENSG00000118412"	"ENST00000551025"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/7344"	""	""	""	""	""	"1"	NA	1	"CASP8AP2"	"HGNC"	1510	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"246ed10a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0704225352112676	"WGS"	FALSE
"14667"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	92203012	92203012	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"21"	5	11	"11"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"246f080a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WGS"	FALSE
"14668"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	92238779	92238779	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"75"	8	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"246f0a26-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0963855421686747	"WGS"	FALSE
"14669"	"FUT9"	10690	"mskcc.org"	"GRCh37"	"6"	96569955	96569955	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-9+7952G>A"	""	""	"ENST00000302103"	""	82	"55"	27	57	"57"	0	"FUT9,intron_variant,,ENST00000302103,NM_006581.3;"	"A"	"ENSG00000172461"	"ENST00000302103"	"Transcript"	"intron_variant"	"-/12783"	"-/1080"	"-/359"	""	""	""	"1"	NA	1	"FUT9"	"HGNC"	4020	"protein_coding"	"YES"	"CCDS5033.1"	"ENSP00000302599"	"Q9Y231"	""	"UPI000013E792"	"NM_006581.3"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"246f81a4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329268292682927	"WGS"	FALSE
"14670"	"FHL5"	9457	"mskcc.org"	"GRCh37"	"6"	97023830	97023830	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-13+12599T>C"	""	""	"ENST00000326771"	""	83	"55"	28	36	"36"	0	"FHL5,intron_variant,,ENST00000326771,NM_020482.4;FHL5,intron_variant,,ENST00000541107,NM_001170807.1;FHL5,intron_variant,,ENST00000450218,;"	"C"	"ENSG00000112214"	"ENST00000326771"	"Transcript"	"intron_variant"	"-/2031"	"-/855"	"-/284"	""	""	""	"1"	NA	1	"FHL5"	"HGNC"	17371	"protein_coding"	"YES"	"CCDS5035.1"	"ENSP00000326022"	"Q5TD97"	""	"UPI000006F158"	"NM_020482.4"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"246f8b36-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337349397590361	"WGS"	FALSE
"14671"	"RNU4-70P"	0	"mskcc.org"	"GRCh37"	"6"	97098727	97098727	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384579"	""	71	"65"	6	40	"40"	0	"RNU4-70P,upstream_gene_variant,,ENST00000384579,;RP11-304C16.2,upstream_gene_variant,,ENST00000407851,;RPS7P8,upstream_gene_variant,,ENST00000418311,;"	"T"	"ENSG00000207309"	"ENST00000384579"	"Transcript"	"upstream_gene_variant"	"-/139"	""	""	""	""	""	"1"	"1260"	-1	"RNU4-70P"	"HGNC"	47006	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"246f8bea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"14672"	"RP11-436D23.1"	0	"mskcc.org"	"GRCh37"	"6"	98620037	98620037	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs550239986"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.352+72891G>A"	""	""	"ENST00000607823"	""	61	"53"	8	36	"36"	0	"RP11-436D23.1,intron_variant,,ENST00000607823,;RP11-436D23.1,intron_variant,,ENST00000607032,;RP11-436D23.1,intron_variant,,ENST00000606913,;"	"A"	"ENSG00000271860"	"ENST00000607823"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1962"	""	""	""	""	"rs550239986"	"1"	NA	1	"RP11-436D23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/6"	""	"A:0.0004"	"A:0.0008"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"246fb552-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131147540983607	"WGS"	FALSE
"14673"	"RP11-436D23.1"	0	"mskcc.org"	"GRCh37"	"6"	98769710	98769710	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.560+41975T>A"	""	""	"ENST00000607823"	""	83	"62"	21	53	"53"	0	"RP11-436D23.1,intron_variant,,ENST00000607823,;RP11-436D23.1,intron_variant,,ENST00000607032,;RP11-436D23.1,intron_variant,,ENST00000606913,;"	"A"	"ENSG00000271860"	"ENST00000607823"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1962"	""	""	""	""	""	"1"	NA	1	"RP11-436D23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"246fbb4c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253012048192771	"WGS"	FALSE
"14674"	"FBXL4"	26235	"mskcc.org"	"GRCh37"	"6"	99329033	99329033	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1318-533T>A"	""	""	"ENST00000369244"	""	85	"54"	31	40	"40"	0	"FBXL4,intron_variant,,ENST00000369244,;FBXL4,intron_variant,,ENST00000229971,NM_012160.4,NM_001278716.1;"	"T"	"ENSG00000112234"	"ENST00000369244"	"Transcript"	"intron_variant"	"-/8029"	"-/1866"	"-/621"	""	""	""	"1"	NA	-1	"FBXL4"	"HGNC"	13601	"protein_coding"	"YES"	"CCDS5041.1"	"ENSP00000358247"	"Q9UKA2"	""	"UPI000012ADE3"	""	""	""	""	"7/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"246fd1fe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364705882352941	"WGS"	FALSE
"14675"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	106358924	106358924	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"67"	33	40	"40"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"2470b826-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.33	"WGS"	FALSE
"14676"	"C6orf203"	51250	"mskcc.org"	"GRCh37"	"6"	107376405	107376405	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000443043"	""	92	"83"	9	46	"46"	0	"C6orf203,downstream_gene_variant,,ENST00000443043,NM_001142470.1;C6orf203,downstream_gene_variant,,ENST00000405204,NM_001142468.1;C6orf203,downstream_gene_variant,,ENST00000311381,NM_016487.3;"	"C"	"ENSG00000130349"	"ENST00000443043"	"Transcript"	"downstream_gene_variant"	"-/1517"	"-/738"	"-/245"	""	""	""	"1"	"3861"	1	"C6orf203"	"HGNC"	17971	"protein_coding"	"YES"	"CCDS55046.1"	"ENSP00000390153"	""	"J3KQ88"	"UPI0000D4EA45"	"NM_001142470.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"2470ee5e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0978260869565217	"WGS"	FALSE
"14677"	"C6orf203"	51250	"mskcc.org"	"GRCh37"	"6"	107376417	107376417	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"rs778853738"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000443043"	""	88	"80"	8	41	"41"	0	"C6orf203,downstream_gene_variant,,ENST00000443043,NM_001142470.1;C6orf203,downstream_gene_variant,,ENST00000405204,NM_001142468.1;C6orf203,downstream_gene_variant,,ENST00000311381,NM_016487.3;"	"T"	"ENSG00000130349"	"ENST00000443043"	"Transcript"	"downstream_gene_variant"	"-/1517"	"-/738"	"-/245"	""	""	"rs778853738"	"1"	"3873"	1	"C6orf203"	"HGNC"	17971	"protein_coding"	"YES"	"CCDS55046.1"	"ENSP00000390153"	""	"J3KQ88"	"UPI0000D4EA45"	"NM_001142470.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"2470ef12-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"14678"	"AK9"	221264	"mskcc.org"	"GRCh37"	"6"	109935794	109935794	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1400-111C>T"	""	""	"ENST00000424296"	""	98	"59"	39	57	"57"	0	"AK9,intron_variant,,ENST00000424296,NM_001145128.2;AK9,intron_variant,,ENST00000341338,;AK9,intron_variant,,ENST00000368948,;AK9,intron_variant,,ENST00000466992,;"	"A"	"ENSG00000155085"	"ENST00000424296"	"Transcript"	"intron_variant"	"-/6326"	"-/5736"	"-/1911"	""	""	""	"1"	NA	-1	"AK9"	"HGNC"	33814	"protein_coding"	"YES"	"CCDS55048.1"	"ENSP00000410186"	"Q5TCS8"	"E9PPU7,E9PPM3"	"UPI0001A48FC8"	"NM_001145128.2"	""	""	""	"13/40"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"24719408-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.397959183673469	"WGS"	FALSE
"14679"	"FIG4"	9896	"mskcc.org"	"GRCh37"	"6"	110031738	110031738	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67-4543A>T"	""	""	"ENST00000230124"	""	82	"61"	21	60	"60"	0	"FIG4,intron_variant,,ENST00000230124,NM_014845.5;FIG4,intron_variant,,ENST00000441478,;FIG4,intron_variant,,ENST00000454215,;"	"T"	"ENSG00000112367"	"ENST00000230124"	"Transcript"	"intron_variant"	"-/3011"	"-/2724"	"-/907"	""	""	""	"1"	NA	1	"FIG4"	"HGNC"	16873	"protein_coding"	"YES"	"CCDS5078.1"	"ENSP00000230124"	"Q92562"	"Q5TCS4,Q5JRV4"	"UPI000000D9A3"	"NM_014845.5"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAG"	"2471a678-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25609756097561	"WGS"	FALSE
"14680"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	110170997	110170997	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"67"	19	41	"41"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"2471a894-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22093023255814	"WGS"	FALSE
"14681"	"CDK19"	23097	"mskcc.org"	"GRCh37"	"6"	111027687	111027687	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.205-35943T>A"	""	""	"ENST00000368911"	""	60	"54"	6	18	"18"	0	"CDK19,intron_variant,,ENST00000368911,NM_015076.3;CDK19,intron_variant,,ENST00000323817,;CDK19,intron_variant,,ENST00000457688,;CDK19,intron_variant,,ENST00000460913,;CDK19,intron_variant,,ENST00000463016,;RP11-569A2.2,intron_variant,,ENST00000401964,;"	"T"	"ENSG00000155111"	"ENST00000368911"	"Transcript"	"intron_variant"	"-/6246"	"-/1509"	"-/502"	""	""	""	"1"	NA	-1	"CDK19"	"HGNC"	19338	"protein_coding"	"YES"	"CCDS5085.1"	"ENSP00000357907"	"Q9BWU1"	"Q5JQZ9"	"UPI0000070643"	"NM_015076.3"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"2471c7ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"14682"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	111159397	111159397	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"90"	8	40	"40"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"2471d4f4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WGS"	FALSE
"14683"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	112910023	112910023	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"76"	34	53	"53"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"24722c92-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309090909090909	"WGS"	FALSE
"14684"	"SOCS5P5"	0	"mskcc.org"	"GRCh37"	"6"	113548177	113548177	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000402732"	""	72	"44"	28	40	"40"	0	"SOCS5P5,downstream_gene_variant,,ENST00000402732,;"	"A"	"ENSG00000216904"	"ENST00000402732"	"Transcript"	"downstream_gene_variant"	"-/1586"	""	""	""	""	""	"1"	"2903"	1	"SOCS5P5"	"HGNC"	44601	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"24723f52-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.388888888888889	"WGS"	FALSE
"14685"	"RP3-399L15.3"	101927794	"mskcc.org"	"GRCh37"	"6"	114716531	114716531	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.393-11276A>T"	""	""	"ENST00000518470"	""	96	"90"	6	53	"53"	0	"RP3-399L15.3,intron_variant,,ENST00000518470,;"	"T"	"ENSG00000228624"	"ENST00000518470"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/563"	""	""	""	""	""	"1"	NA	1	"RP3-399L15.3"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"24727206-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"14686"	"RP3-399L15.3"	101927794	"mskcc.org"	"GRCh37"	"6"	114716542	114716542	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.393-11265G>C"	""	""	"ENST00000518470"	""	97	"90"	7	50	"50"	0	"RP3-399L15.3,intron_variant,,ENST00000518470,;"	"C"	"ENSG00000228624"	"ENST00000518470"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/563"	""	""	""	""	""	"1"	NA	1	"RP3-399L15.3"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"247272ba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0721649484536082	"WGS"	FALSE
"14687"	"RNU6-475P"	0	"mskcc.org"	"GRCh37"	"6"	115184884	115184884	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516073"	""	111	"83"	28	58	"58"	0	"RNU6-475P,downstream_gene_variant,,ENST00000516073,;"	"A"	"ENSG00000251882"	"ENST00000516073"	"Transcript"	"downstream_gene_variant"	"-/104"	""	""	""	""	""	"1"	"3153"	-1	"RNU6-475P"	"HGNC"	47438	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"247285ca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252252252252252	"WGS"	FALSE
"14688"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	115273340	115273340	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"55"	24	36	"36"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"247287dc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30379746835443	"WGS"	FALSE
"14689"	"GOPC"	57120	"mskcc.org"	"GRCh37"	"6"	117786129	117786129	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.547+101888T>C"	""	""	"ENST00000467125"	""	85	"51"	34	44	"44"	0	"GOPC,intron_variant,,ENST00000467125,;DCBLD1,intron_variant,,ENST00000528138,;DCBLD1,intron_variant,,ENST00000525483,;DCBLD1,intron_variant,,ENST00000533950,;"	"G"	"ENSG00000047932"	"ENST00000467125"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/930"	""	""	""	""	""	"1"	NA	-1	"GOPC"	"HGNC"	17643	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"2472c76a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WGS"	TRUE
"14690"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	119063206	119063206	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"72"	9	39	"39"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"2472f406-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"14691"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	119063208	119063208	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"74"	8	39	"39"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"2472f4c4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WGS"	FALSE
"14692"	"MCM9"	254394	"mskcc.org"	"GRCh37"	"6"	119193371	119193371	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1151-15663A>G"	""	""	"ENST00000316316"	""	87	"80"	7	38	"38"	0	"MCM9,intron_variant,,ENST00000316316,NM_017696.2;MCM9,intron_variant,,ENST00000505485,;MCM9,intron_variant,,ENST00000368478,;"	"C"	"ENSG00000111877"	"ENST00000316316"	"Transcript"	"intron_variant"	"-/5101"	"-/3432"	"-/1143"	""	""	""	"1"	NA	-1	"MCM9"	"HGNC"	21484	"protein_coding"	"YES"	"CCDS56447.1"	"ENSP00000314505"	"Q9NXL9"	"D6RHY8,D6RE85"	"UPI0001AE7302"	"NM_017696.2"	""	""	""	"7/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"2472fff0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0804597701149425	"WGS"	FALSE
"14693"	"FAM184A"	79632	"mskcc.org"	"GRCh37"	"6"	119310448	119310448	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2089-8933T>G"	""	""	"ENST00000338891"	""	91	"83"	8	36	"36"	0	"FAM184A,intron_variant,,ENST00000338891,NM_024581.4;FAM184A,intron_variant,,ENST00000352896,NM_001100411.1;FAM184A,intron_variant,,ENST00000368475,NM_001288576.1;FAM184A,intron_variant,,ENST00000521531,;RP11-351A11.1,intron_variant,,ENST00000518570,;"	"C"	"ENSG00000111879"	"ENST00000338891"	"Transcript"	"intron_variant"	"-/4141"	"-/3423"	"-/1140"	""	""	""	"1"	NA	-1	"FAM184A"	"HGNC"	20991	"protein_coding"	"YES"	"CCDS43499.1"	"ENSP00000342604"	"Q8NB25"	""	"UPI0000470B36"	"NM_024581.4"	""	""	""	"9/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"2473028e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0879120879120879	"WGS"	FALSE
"14694"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	121043474	121043474	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"64"	20	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"24732c1e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WGS"	FALSE
"14695"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	121131096	121131096	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"62"	41	38	"38"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"24732e3a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.398058252427184	"WGS"	FALSE
"14696"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	121954581	121954581	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"58"	36	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"247354c8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.382978723404255	"WGS"	FALSE
"14697"	"RN7SL564P"	0	"mskcc.org"	"GRCh37"	"6"	123061910	123061910	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000496309"	""	75	"52"	23	56	"56"	0	"RN7SL564P,upstream_gene_variant,,ENST00000496309,;"	"T"	"ENSG00000240606"	"ENST00000496309"	"Transcript"	"upstream_gene_variant"	"-/275"	""	""	""	""	""	"1"	"4509"	1	"RN7SL564P"	"HGNC"	46580	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"247375f2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306666666666667	"WGS"	FALSE
"14698"	"NKAIN2"	154215	"mskcc.org"	"GRCh37"	"6"	124684081	124684081	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.273+7588A>C"	""	""	"ENST00000368417"	""	89	"63"	26	47	"47"	0	"NKAIN2,intron_variant,,ENST00000368417,NM_001040214.1;NKAIN2,intron_variant,,ENST00000368416,;NKAIN2,intron_variant,,ENST00000545433,;NKAIN2,intron_variant,,ENST00000546092,;NKAIN2,intron_variant,,ENST00000476571,;"	"C"	"ENSG00000188580"	"ENST00000368417"	"Transcript"	"intron_variant"	"-/3115"	"-/627"	"-/208"	""	""	""	"1"	NA	1	"NKAIN2"	"HGNC"	16443	"protein_coding"	"YES"	"CCDS34526.1"	"ENSP00000357402"	"Q5VXU1"	"B3KNZ0,B0AZU5"	"UPI0000458919"	"NM_001040214.1"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"247398d4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292134831460674	"WGS"	FALSE
"14699"	"NKAIN2"	154215	"mskcc.org"	"GRCh37"	"6"	125050938	125050938	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.475-61547T>C"	""	""	"ENST00000368417"	""	63	"58"	5	45	"45"	0	"NKAIN2,intron_variant,,ENST00000368417,NM_001040214.1;NKAIN2,intron_variant,,ENST00000545433,;NKAIN2,intron_variant,,ENST00000546092,;"	"C"	"ENSG00000188580"	"ENST00000368417"	"Transcript"	"intron_variant"	"-/3115"	"-/627"	"-/208"	""	""	""	"1"	NA	1	"NKAIN2"	"HGNC"	16443	"protein_coding"	"YES"	"CCDS34526.1"	"ENSP00000357402"	"Q5VXU1"	"B3KNZ0,B0AZU5"	"UPI0000458919"	"NM_001040214.1"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"2473a34c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0793650793650794	"WGS"	FALSE
"14700"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	129026558	129026558	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"55"	37	36	"36"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"24740d0a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.402173913043478	"WGS"	FALSE
"14701"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	130315419	130315419	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"53"	21	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"2474423e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283783783783784	"WGS"	FALSE
"14702"	"ENPP3"	5169	"mskcc.org"	"GRCh37"	"6"	131960453	131960453	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.78+1851C>A"	""	""	"ENST00000414305"	""	71	"63"	8	42	"42"	0	"ENPP3,intron_variant,,ENST00000414305,;ENPP3,intron_variant,,ENST00000357639,NM_005021.3;ENPP3,intron_variant,,ENST00000358229,;ENPP3,intron_variant,,ENST00000543135,;ENPP3,intron_variant,,ENST00000427148,;RNU4-18P,downstream_gene_variant,,ENST00000516751,;ENPP3,upstream_gene_variant,,ENST00000470930,;ENPP3,intron_variant,,ENST00000427707,;ENPP3,intron_variant,,ENST00000423831,;"	"A"	"ENSG00000154269"	"ENST00000414305"	"Transcript"	"intron_variant"	"-/3413"	"-/2628"	"-/875"	""	""	""	"1"	NA	1	"ENPP3"	"HGNC"	3358	"protein_coding"	"YES"	"CCDS5148.1"	"ENSP00000406261"	"O14638"	"Q9UNI4,Q9NQM9,Q9H515,F5GY67"	"UPI000013DD9F"	""	""	""	""	"2/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"24748258-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112676056338028	"WGS"	FALSE
"14703"	"RP4-662A9.2"	154089	"mskcc.org"	"GRCh37"	"6"	134144302	134144302	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.589+1429C>A"	""	""	"ENST00000456347"	""	73	"49"	24	56	"56"	0	"RP4-662A9.2,intron_variant,,ENST00000456347,;RP3-323P13.2,intron_variant,,ENST00000607033,;RP3-323P13.2,intron_variant,,ENST00000606544,;RP3-323P13.2,intron_variant,,ENST00000607573,;RP3-323P13.2,intron_variant,,ENST00000419627,;"	"A"	"ENSG00000223586"	"ENST00000456347"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/813"	""	""	""	""	""	"1"	NA	1	"RP4-662A9.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"2474e482-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.328767123287671	"WGS"	FALSE
"14704"	"IL20RA"	53832	"mskcc.org"	"GRCh37"	"6"	137345185	137345185	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.89-6945G>A"	""	""	"ENST00000316649"	""	94	"57"	37	51	"51"	0	"IL20RA,intron_variant,,ENST00000367748,NM_001278723.1,NM_001278724.1;IL20RA,intron_variant,,ENST00000316649,NM_014432.3;IL20RA,intron_variant,,ENST00000541547,NM_001278722.1;IL20RA,intron_variant,,ENST00000367746,;IL20RA,intron_variant,,ENST00000468393,;"	"T"	"ENSG00000016402"	"ENST00000316649"	"Transcript"	"intron_variant"	"-/3485"	"-/1662"	"-/553"	""	""	""	"1"	NA	-1	"IL20RA"	"HGNC"	6003	"protein_coding"	"YES"	"CCDS5181.1"	"ENSP00000314976"	"Q9UHF4"	"F5H675"	"UPI000006FA41"	"NM_014432.3"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"24756d6c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.393617021276596	"WGS"	FALSE
"14705"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	137838293	137838293	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"60"	31	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"24757956-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340659340659341	"WGS"	FALSE
"14706"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	140247643	140247643	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"59"	23	45	"45"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"2475e47c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280487804878049	"WGS"	FALSE
"14707"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	141740959	141740959	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"85"	6	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"24762090-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"14708"	"PEX3"	8504	"mskcc.org"	"GRCh37"	"6"	143791374	143791374	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.332-724C>T"	""	""	"ENST00000367591"	""	84	"51"	33	52	"52"	0	"PEX3,intron_variant,,ENST00000367591,NM_003630.2;PEX3,intron_variant,,ENST00000367592,;"	"T"	"ENSG00000034693"	"ENST00000367591"	"Transcript"	"intron_variant"	"-/1969"	"-/1122"	"-/373"	""	""	""	"1"	NA	1	"PEX3"	"HGNC"	8858	"protein_coding"	"YES"	"CCDS5199.1"	"ENSP00000356563"	"P56589"	""	"UPI00001316E1"	"NM_003630.2"	""	""	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"2476868e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.392857142857143	"WGS"	FALSE
"14709"	"SAMD5"	389432	"mskcc.org"	"GRCh37"	"6"	147853375	147853375	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs577641624"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.459+22852C>T"	""	""	"ENST00000367474"	""	95	"61"	34	50	"50"	0	"SAMD5,intron_variant,,ENST00000367474,NM_001030060.2;SAMD5,intron_variant,,ENST00000566741,;"	"T"	"ENSG00000203727"	"ENST00000367474"	"Transcript"	"intron_variant"	"-/6089"	"-/522"	"-/173"	""	""	"rs577641624"	"1"	NA	1	"SAMD5"	"HGNC"	21180	"protein_coding"	"YES"	"CCDS34548.1"	"ENSP00000356444"	"Q5TGI4"	""	"UPI000022CCF8"	"NM_001030060.2"	""	""	""	"1/1"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"24770e60-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357894736842105	"WGS"	FALSE
"14710"	"LATS1"	9113	"mskcc.org"	"GRCh37"	"6"	149978395	149978395	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000253339"	""	93	"62"	31	48	"47"	1	"LATS1,downstream_gene_variant,,ENST00000543571,NM_004690.3;LATS1,downstream_gene_variant,,ENST00000253339,;LATS1,downstream_gene_variant,,ENST00000441107,;"	"A"	"ENSG00000131023"	"ENST00000253339"	"Transcript"	"downstream_gene_variant"	"-/4256"	"-/3393"	"-/1130"	""	""	""	"1"	"3835"	-1	"LATS1"	"HGNC"	6514	"protein_coding"	""	"CCDS34551.1"	"ENSP00000253339"	"O95835"	""	"UPI0000073DC2"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"247774cc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14711"	"MTHFD1L"	25902	"mskcc.org"	"GRCh37"	"6"	151189058	151189058	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.227+1873C>T"	""	""	"ENST00000367321"	""	85	"77"	8	46	"46"	0	"MTHFD1L,intron_variant,,ENST00000367321,NM_001242768.1,NM_015440.4,NM_001242767.1;MTHFD1L,intron_variant,,ENST00000441122,;MTHFD1L,intron_variant,,ENST00000367307,NM_001242769.1;MTHFD1L,intron_variant,,ENST00000367308,;MTHFD1L,intron_variant,,ENST00000423867,;"	"T"	"ENSG00000120254"	"ENST00000367321"	"Transcript"	"intron_variant"	"-/3604"	"-/2937"	"-/978"	""	""	""	"1"	NA	1	"MTHFD1L"	"HGNC"	21055	"protein_coding"	"YES"	"CCDS5228.1"	"ENSP00000356290"	"Q6UB35"	"Q5JYA8,Q5JYA3,B7ZM99,B2RD24"	"UPI00001CE513"	"NM_001242768.1,NM_015440.4,NM_001242767.1"	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"2477cfda-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"14712"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	153095542	153095542	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"62"	6	44	"44"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"247856b2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"14713"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	154250750	154250750	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"45"	31	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"24787dd6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.407894736842105	"WGS"	FALSE
"14714"	"CNKSR3"	154043	"mskcc.org"	"GRCh37"	"6"	154831803	154831803	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000607772"	""	86	"79"	7	43	"43"	0	"CNKSR3,upstream_gene_variant,,ENST00000607772,NM_173515.2;"	"A"	"ENSG00000153721"	"ENST00000607772"	"Transcript"	"upstream_gene_variant"	"-/21063"	"-/1668"	"-/555"	""	""	""	"1"	"10"	-1	"CNKSR3"	"HGNC"	23034	"protein_coding"	"YES"	"CCDS5246.1"	"ENSP00000475915"	"Q6P9H4"	"C9JN62,C9IZX4"	"UPI000020D0EA"	"NM_173515.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"24789ab4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0813953488372093	"WGS"	FALSE
"14715"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	157071374	157071374	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"42"	5	18	"18"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"2479310e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106382978723404	"WGS"	FALSE
"14716"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	157071375	157071375	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"44"	5	21	"21"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"24793230-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WGS"	FALSE
"14717"	"ZDHHC14"	79683	"mskcc.org"	"GRCh37"	"6"	157806364	157806364	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.245+3066T>C"	""	""	"ENST00000359775"	""	86	"78"	8	40	"40"	0	"ZDHHC14,intron_variant,,ENST00000359775,;ZDHHC14,intron_variant,,ENST00000414563,NM_153746.1,NM_024630.2;"	"C"	"ENSG00000175048"	"ENST00000359775"	"Transcript"	"intron_variant"	"-/7380"	"-/1467"	"-/488"	""	""	""	"1"	NA	1	"ZDHHC14"	"HGNC"	20341	"protein_coding"	"YES"	"CCDS5252.1"	"ENSP00000352821"	"Q8IZN3"	"B3KRY1"	"UPI00000740DB"	""	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"2479a4d6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"14718"	"ZDHHC14"	79683	"mskcc.org"	"GRCh37"	"6"	157869401	157869401	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs752905501"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.245+66103G>A"	""	""	"ENST00000359775"	""	78	"47"	31	49	"49"	0	"ZDHHC14,intron_variant,,ENST00000359775,;ZDHHC14,intron_variant,,ENST00000414563,NM_153746.1,NM_024630.2;"	"A"	"ENSG00000175048"	"ENST00000359775"	"Transcript"	"intron_variant"	"-/7380"	"-/1467"	"-/488"	""	""	"rs752905501"	"1"	NA	1	"ZDHHC14"	"HGNC"	20341	"protein_coding"	"YES"	"CCDS5252.1"	"ENSP00000352821"	"Q8IZN3"	"B3KRY1"	"UPI00000740DB"	""	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"2479a9ae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.397435897435897	"WGS"	FALSE
"14719"	"TULP4"	56995	"mskcc.org"	"GRCh37"	"6"	158846428	158846428	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.382-4340C>G"	""	""	"ENST00000367097"	""	58	"52"	6	31	"31"	0	"TULP4,intron_variant,,ENST00000367097,NM_020245.4;TULP4,intron_variant,,ENST00000367094,NM_001007466.2;"	"G"	"ENSG00000130338"	"ENST00000367097"	"Transcript"	"intron_variant"	"-/11123"	"-/4632"	"-/1543"	""	""	""	"1"	NA	1	"TULP4"	"HGNC"	15530	"protein_coding"	"YES"	"CCDS34561.1"	"ENSP00000356064"	"Q9NRJ4"	""	"UPI000013CD76"	"NM_020245.4"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"2479e734-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"14720"	"TULP4"	56995	"mskcc.org"	"GRCh37"	"6"	158876357	158876357	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.859+3057C>G"	""	""	"ENST00000367097"	""	59	"53"	6	27	"27"	0	"TULP4,intron_variant,,ENST00000367097,NM_020245.4;TULP4,intron_variant,,ENST00000367094,NM_001007466.2;"	"G"	"ENSG00000130338"	"ENST00000367097"	"Transcript"	"intron_variant"	"-/11123"	"-/4632"	"-/1543"	""	""	""	"1"	NA	1	"TULP4"	"HGNC"	15530	"protein_coding"	"YES"	"CCDS34561.1"	"ENSP00000356064"	"Q9NRJ4"	""	"UPI000013CD76"	"NM_020245.4"	""	""	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"2479eaae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101694915254237	"WGS"	FALSE
"14721"	"PACRG"	135138	"mskcc.org"	"GRCh37"	"6"	163182983	163182983	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.156+33560A>G"	""	""	"ENST00000337019"	""	68	"61"	7	36	"36"	0	"PACRG,intron_variant,,ENST00000337019,NM_152410.2;PACRG,intron_variant,,ENST00000366889,NM_001080378.1;PACRG,intron_variant,,ENST00000366888,NM_001080379.1;PACRG,intron_variant,,ENST00000542669,;PACRG,intron_variant,,ENST00000544266,;"	"G"	"ENSG00000112530"	"ENST00000337019"	"Transcript"	"intron_variant"	"-/1619"	"-/891"	"-/296"	""	""	""	"1"	NA	1	"PACRG"	"HGNC"	19152	"protein_coding"	"YES"	"CCDS5284.1"	"ENSP00000337946"	"Q96M98"	""	"UPI00001AE671"	"NM_152410.2"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"247ae210-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102941176470588	"WGS"	FALSE
"14722"	"RP1-230L10.1"	0	"mskcc.org"	"GRCh37"	"6"	164155373	164155373	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.103-24884G>A"	""	""	"ENST00000452944"	""	88	"61"	27	56	"56"	0	"RP1-230L10.1,intron_variant,,ENST00000452944,;"	"A"	"ENSG00000235538"	"ENST00000452944"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/719"	""	""	""	""	""	"1"	NA	1	"RP1-230L10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"247b13de-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306818181818182	"WGS"	FALSE
"14723"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	164861707	164861707	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"49"	36	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"247b330a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.423529411764706	"WGS"	FALSE
"14724"	"ENSR00001502543"	0	"mskcc.org"	"GRCh37"	"6"	165594895	165594895	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001502543"	""	90	"83"	7	44	"44"	0	""	"C"	""	"ENSR00001502543"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"247b5074-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0777777777777778	"WGS"	FALSE
"14725"	"RP11-252P19.1"	0	"mskcc.org"	"GRCh37"	"6"	166178430	166178430	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.195-9911G>T"	""	""	"ENST00000435810"	""	72	"51"	21	48	"48"	0	"RP11-252P19.1,intron_variant,,ENST00000435810,;PDE10A,intron_variant,,ENST00000580695,;"	"T"	"ENSG00000236627"	"ENST00000435810"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1122"	""	""	""	""	""	"1"	NA	1	"RP11-252P19.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"247b7f0e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WGS"	FALSE
"14726"	"RP11-514O12.4"	0	"mskcc.org"	"GRCh37"	"6"	167314876	167314876	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.434+32703A>G"	""	""	"ENST00000507747"	""	79	"69"	10	46	"46"	0	"RP11-514O12.4,intron_variant,,ENST00000507747,;RPS6KA2,intron_variant,,ENST00000512860,;RPS6KA2-AS1,upstream_gene_variant,,ENST00000455390,;"	"C"	"ENSG00000249141"	"ENST00000507747"	"Transcript"	"intron_variant"	"-/600"	"-/558"	"-/185"	""	""	""	"1"	NA	-1	"RP11-514O12.4"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000426906"	""	""	"UPI0001D3BD06"	""	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"247bd058-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126582278481013	"WGS"	FALSE
"14727"	"RP1-125N5.2"	0	"mskcc.org"	"GRCh37"	"6"	169123249	169123249	"+"	"RNA"	"SNP"	"T"	"T"	"C"	"rs752017728"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.202T>C"	""	""	"ENST00000436492"	"3/3"	94	"86"	8	44	"44"	0	"RP1-125N5.2,non_coding_transcript_exon_variant,,ENST00000436492,;"	"C"	"ENSG00000235815"	"ENST00000436492"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"202/557"	""	""	""	""	"rs752017728"	"1"	NA	1	"RP1-125N5.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"247d108a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"14728"	"XX-C2158C12.2"	0	"mskcc.org"	"GRCh37"	"6"	171029602	171029602	"+"	"5'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000438217"	""	12	"8"	4	8	"8"	0	"XX-C2158C12.2,upstream_gene_variant,,ENST00000438217,;"	"G"	"ENSG00000213863"	"ENST00000438217"	"Transcript"	"upstream_gene_variant"	"-/758"	""	""	""	""	""	"1"	"4683"	1	"XX-C2158C12.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"247e8a8c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14729"	"XX-C2158C12.2"	0	"mskcc.org"	"GRCh37"	"6"	171029604	171029604	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000438217"	""	13	"10"	3	9	"9"	0	"XX-C2158C12.2,upstream_gene_variant,,ENST00000438217,;"	"G"	"ENSG00000213863"	"ENST00000438217"	"Transcript"	"upstream_gene_variant"	"-/758"	""	""	""	""	""	"1"	"4681"	1	"XX-C2158C12.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"247e8b36-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"14730"	"FAM20C"	56975	"mskcc.org"	"GRCh37"	"7"	298056	298056	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1446-556T>A"	""	""	"ENST00000313766"	""	21	"18"	3	8	"8"	0	"FAM20C,intron_variant,,ENST00000313766,NM_020223.3;AC187652.1,upstream_gene_variant,,ENST00000599994,;FAM20C,intron_variant,,ENST00000515795,;FAM20C,downstream_gene_variant,,ENST00000512382,;"	"A"	"ENSG00000177706"	"ENST00000313766"	"Transcript"	"intron_variant"	"-/2751"	"-/1755"	"-/584"	""	""	""	"1"	NA	1	"FAM20C"	"HGNC"	22140	"protein_coding"	"YES"	"CCDS47522.1"	"ENSP00000322323"	"Q8IXL6"	""	"UPI00001B5C04"	"NM_020223.3"	""	""	""	"8/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"247ec542-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"14731"	"SDK1"	221935	"mskcc.org"	"GRCh37"	"7"	4061166	4061166	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2602+4182G>A"	""	""	"ENST00000404826"	""	97	"55"	42	53	"53"	0	"SDK1,intron_variant,,ENST00000404826,NM_152744.3;SDK1,intron_variant,,ENST00000389531,;"	"A"	"ENSG00000146555"	"ENST00000404826"	"Transcript"	"intron_variant"	"-/10397"	"-/6642"	"-/2213"	""	""	""	"1"	NA	1	"SDK1"	"HGNC"	19307	"protein_coding"	"YES"	"CCDS34590.1"	"ENSP00000385899"	"Q7Z5N4"	""	"UPI0000DBEEC4"	"NM_152744.3"	""	""	""	"17/44"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"24816220-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.43298969072165	"WGS"	FALSE
"14732"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	5829489	5829489	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"83"	11	46	"46"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"248223f4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117021276595745	"WGS"	FALSE
"14733"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	5831408	5831408	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	33	"30"	3	16	"16"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"24822552-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"14734"	"ZNF815P"	0	"mskcc.org"	"GRCh37"	"7"	5867971	5867971	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.367+4814G>A"	""	""	"ENST00000427985"	""	72	"66"	6	26	"26"	0	"ZNF815P,intron_variant,,ENST00000421890,;ZNF815P,intron_variant,,ENST00000442665,;ZNF815P,intron_variant,,ENST00000430530,;ZNF815P,intron_variant,,ENST00000427985,;ZNF815P,intron_variant,,ENST00000434898,;"	"A"	"ENSG00000235944"	"ENST00000427985"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2750"	""	""	""	""	""	"1"	NA	1	"ZNF815P"	"HGNC"	22029	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"24822db8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"14735"	"RSPH10B"	222967	"mskcc.org"	"GRCh37"	"7"	5980865	5980865	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1758+2090A>C"	""	""	"ENST00000405415"	""	112	"103"	9	49	"49"	0	"RSPH10B,intron_variant,,ENST00000405415,;RSPH10B,intron_variant,,ENST00000404406,NM_173565.3;RSPH10B,intron_variant,,ENST00000337579,;RSPH10B,intron_variant,,ENST00000539903,;RSPH10B,intron_variant,,ENST00000441023,;RSPH10B,intron_variant,,ENST00000535104,;"	"G"	"ENSG00000155026"	"ENST00000405415"	"Transcript"	"intron_variant"	"-/3222"	"-/2613"	"-/870"	""	""	""	"1"	NA	-1	"RSPH10B"	"HGNC"	27362	"protein_coding"	"YES"	"CCDS34598.1"	"ENSP00000385443"	"P0C881"	"C9JJN2"	"UPI000020EAA5"	""	""	""	""	"14/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"24823ac4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0803571428571429	"WGS"	FALSE
"14736"	"RSPH10B"	222967	"mskcc.org"	"GRCh37"	"7"	5997375	5997375	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.780+163G>A"	""	""	"ENST00000405415"	""	49	"42"	7	19	"19"	0	"RSPH10B,intron_variant,,ENST00000405415,;RSPH10B,intron_variant,,ENST00000404406,NM_173565.3;RSPH10B,intron_variant,,ENST00000337579,;RSPH10B,intron_variant,,ENST00000539903,;RSPH10B,intron_variant,,ENST00000441023,;RSPH10B,intron_variant,,ENST00000535104,;RSPH10B,intron_variant,,ENST00000541997,;RSPH10B,intron_variant,,ENST00000539630,;RSPH10B,upstream_gene_variant,,ENST00000477641,;"	"T"	"ENSG00000155026"	"ENST00000405415"	"Transcript"	"intron_variant"	"-/3222"	"-/2613"	"-/870"	""	""	""	"1"	NA	-1	"RSPH10B"	"HGNC"	27362	"protein_coding"	"YES"	"CCDS34598.1"	"ENSP00000385443"	"P0C881"	"C9JJN2"	"UPI000020EAA5"	""	""	""	""	"7/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"24823b78-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"14737"	"RSPH10B"	222967	"mskcc.org"	"GRCh37"	"7"	5997376	5997376	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.780+162T>C"	""	""	"ENST00000405415"	""	50	"43"	7	20	"20"	0	"RSPH10B,intron_variant,,ENST00000405415,;RSPH10B,intron_variant,,ENST00000404406,NM_173565.3;RSPH10B,intron_variant,,ENST00000337579,;RSPH10B,intron_variant,,ENST00000539903,;RSPH10B,intron_variant,,ENST00000441023,;RSPH10B,intron_variant,,ENST00000535104,;RSPH10B,intron_variant,,ENST00000541997,;RSPH10B,intron_variant,,ENST00000539630,;RSPH10B,upstream_gene_variant,,ENST00000477641,;"	"G"	"ENSG00000155026"	"ENST00000405415"	"Transcript"	"intron_variant"	"-/3222"	"-/2613"	"-/870"	""	""	""	"1"	NA	-1	"RSPH10B"	"HGNC"	27362	"protein_coding"	"YES"	"CCDS34598.1"	"ENSP00000385443"	"P0C881"	"C9JJN2"	"UPI000020EAA5"	""	""	""	""	"7/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"24823c2c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.14	"WGS"	FALSE
"14738"	"RSPH10B"	222967	"mskcc.org"	"GRCh37"	"7"	5997382	5997382	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.780+156C>G"	""	""	"ENST00000405415"	""	50	"45"	5	21	"21"	0	"RSPH10B,intron_variant,,ENST00000405415,;RSPH10B,intron_variant,,ENST00000404406,NM_173565.3;RSPH10B,intron_variant,,ENST00000337579,;RSPH10B,intron_variant,,ENST00000539903,;RSPH10B,intron_variant,,ENST00000441023,;RSPH10B,intron_variant,,ENST00000535104,;RSPH10B,intron_variant,,ENST00000541997,;RSPH10B,intron_variant,,ENST00000539630,;RSPH10B,upstream_gene_variant,,ENST00000477641,;"	"C"	"ENSG00000155026"	"ENST00000405415"	"Transcript"	"intron_variant"	"-/3222"	"-/2613"	"-/870"	""	""	""	"1"	NA	-1	"RSPH10B"	"HGNC"	27362	"protein_coding"	"YES"	"CCDS34598.1"	"ENSP00000385443"	"P0C881"	"C9JJN2"	"UPI000020EAA5"	""	""	""	""	"7/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"24823df8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"14739"	"RSPH10B"	222967	"mskcc.org"	"GRCh37"	"7"	5997383	5997383	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.780+155G>A"	""	""	"ENST00000405415"	""	52	"45"	7	21	"21"	0	"RSPH10B,intron_variant,,ENST00000405415,;RSPH10B,intron_variant,,ENST00000404406,NM_173565.3;RSPH10B,intron_variant,,ENST00000337579,;RSPH10B,intron_variant,,ENST00000539903,;RSPH10B,intron_variant,,ENST00000441023,;RSPH10B,intron_variant,,ENST00000535104,;RSPH10B,intron_variant,,ENST00000541997,;RSPH10B,intron_variant,,ENST00000539630,;RSPH10B,upstream_gene_variant,,ENST00000477641,;"	"T"	"ENSG00000155026"	"ENST00000405415"	"Transcript"	"intron_variant"	"-/3222"	"-/2613"	"-/870"	""	""	""	"1"	NA	-1	"RSPH10B"	"HGNC"	27362	"protein_coding"	"YES"	"CCDS34598.1"	"ENSP00000385443"	"P0C881"	"C9JJN2"	"UPI000020EAA5"	""	""	""	""	"7/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"24823eac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134615384615385	"WGS"	FALSE
"14740"	"RSPH10B"	222967	"mskcc.org"	"GRCh37"	"7"	5997388	5997388	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.780+150C>G"	""	""	"ENST00000405415"	""	55	"49"	6	20	"20"	0	"RSPH10B,intron_variant,,ENST00000405415,;RSPH10B,intron_variant,,ENST00000404406,NM_173565.3;RSPH10B,intron_variant,,ENST00000337579,;RSPH10B,intron_variant,,ENST00000539903,;RSPH10B,intron_variant,,ENST00000441023,;RSPH10B,intron_variant,,ENST00000535104,;RSPH10B,intron_variant,,ENST00000541997,;RSPH10B,intron_variant,,ENST00000539630,;RSPH10B,upstream_gene_variant,,ENST00000477641,;"	"C"	"ENSG00000155026"	"ENST00000405415"	"Transcript"	"intron_variant"	"-/3222"	"-/2613"	"-/870"	""	""	""	"1"	NA	-1	"RSPH10B"	"HGNC"	27362	"protein_coding"	"YES"	"CCDS34598.1"	"ENSP00000385443"	"P0C881"	"C9JJN2"	"UPI000020EAA5"	""	""	""	""	"7/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"24823f60-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109090909090909	"WGS"	FALSE
"14741"	"AC004895.4"	0	"mskcc.org"	"GRCh37"	"7"	6129836	6129836	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.523+1305A>C"	""	""	"ENST00000435547"	""	59	"54"	5	42	"42"	0	"AC004895.4,intron_variant,,ENST00000435547,;AC004895.4,intron_variant,,ENST00000428901,;AC004895.4,downstream_gene_variant,,ENST00000436915,;"	"C"	"ENSG00000231704"	"ENST00000435547"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/547"	""	""	""	""	""	"1"	NA	1	"AC004895.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"24825b80-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0847457627118644	"WGS"	FALSE
"14742"	"AC004895.4"	0	"mskcc.org"	"GRCh37"	"7"	6129852	6129852	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.523+1321A>G"	""	""	"ENST00000435547"	""	53	"47"	6	40	"40"	0	"AC004895.4,intron_variant,,ENST00000435547,;AC004895.4,intron_variant,,ENST00000428901,;AC004895.4,downstream_gene_variant,,ENST00000436915,;"	"G"	"ENSG00000231704"	"ENST00000435547"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/547"	""	""	""	""	""	"1"	NA	1	"AC004895.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"24825c2a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113207547169811	"WGS"	FALSE
"14743"	"USP42"	84132	"mskcc.org"	"GRCh37"	"7"	6149255	6149255	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-9-1501A>C"	""	""	"ENST00000306177"	""	81	"72"	9	42	"42"	0	"USP42,intron_variant,,ENST00000306177,NM_032172.2;USP42,intron_variant,,ENST00000465073,;USP42,intron_variant,,ENST00000521713,;USP42,intron_variant,,ENST00000479544,;USP42,intron_variant,,ENST00000404008,;USP42,intron_variant,,ENST00000451154,;"	"C"	"ENSG00000106346"	"ENST00000306177"	"Transcript"	"intron_variant"	"-/5155"	"-/3951"	"-/1316"	""	""	""	"1"	NA	1	"USP42"	"HGNC"	20068	"protein_coding"	"YES"	"CCDS47535.1"	"ENSP00000301962"	"Q9H9J4"	"E5RJP3,C9JPC9"	"UPI0000416754"	"NM_032172.2"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"24825e46-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"14744"	"RAC1"	5879	"mskcc.org"	"GRCh37"	"7"	6428793	6428793	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.107+1879A>T"	""	""	"ENST00000356142"	""	86	"80"	6	32	"32"	0	"RAC1,intron_variant,,ENST00000348035,NM_006908.4;RAC1,intron_variant,,ENST00000356142,NM_018890.3;RAC1,intron_variant,,ENST00000488373,;RAC1,upstream_gene_variant,,ENST00000497741,;"	"T"	"ENSG00000136238"	"ENST00000356142"	"Transcript"	"intron_variant"	"-/907"	"-/636"	"-/211"	""	""	""	"1"	NA	1	"RAC1"	"HGNC"	9801	"protein_coding"	"YES"	"CCDS5349.1"	"ENSP00000348461"	"P63000"	"A4D2P0"	"UPI000002B20E"	"NM_018890.3"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"248295b4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	TRUE
"14745"	"RAC1"	5879	"mskcc.org"	"GRCh37"	"7"	6428801	6428801	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.107+1887T>C"	""	""	"ENST00000356142"	""	86	"78"	8	32	"32"	0	"RAC1,intron_variant,,ENST00000348035,NM_006908.4;RAC1,intron_variant,,ENST00000356142,NM_018890.3;RAC1,intron_variant,,ENST00000488373,;RAC1,upstream_gene_variant,,ENST00000497741,;"	"C"	"ENSG00000136238"	"ENST00000356142"	"Transcript"	"intron_variant"	"-/907"	"-/636"	"-/211"	""	""	""	"1"	NA	1	"RAC1"	"HGNC"	9801	"protein_coding"	"YES"	"CCDS5349.1"	"ENSP00000348461"	"P63000"	"A4D2P0"	"UPI000002B20E"	"NM_018890.3"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"2482965e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	TRUE
"14746"	"C7orf26"	79034	"mskcc.org"	"GRCh37"	"7"	6641492	6641492	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1109-240T>C"	""	""	"ENST00000344417"	""	82	"75"	7	32	"32"	0	"C7orf26,intron_variant,,ENST00000344417,NM_024067.2;C7orf26,intron_variant,,ENST00000359073,;C7orf26,intron_variant,,ENST00000445375,;C7orf26,intron_variant,,ENST00000472693,;C7orf26,intron_variant,,ENST00000477298,;C7orf26,intron_variant,,ENST00000440409,;"	"C"	"ENSG00000146576"	"ENST00000344417"	"Transcript"	"intron_variant"	"-/2182"	"-/1350"	"-/449"	""	""	""	"1"	NA	1	"C7orf26"	"HGNC"	21702	"protein_coding"	"YES"	"CCDS5353.1"	"ENSP00000340220"	"Q96N11"	""	"UPI000003ED42"	"NM_024067.2"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"2482b274-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"14747"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	7020582	7020582	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"67"	5	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"2482e2c6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0694444444444444	"WGS"	FALSE
"14748"	"COL28A1"	340267	"mskcc.org"	"GRCh37"	"7"	7554331	7554331	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.882+1114A>G"	""	""	"ENST00000399429"	""	95	"88"	7	50	"50"	0	"COL28A1,intron_variant,,ENST00000399429,NM_001037763.2;COL28A1,intron_variant,,ENST00000444268,;"	"C"	"ENSG00000215018"	"ENST00000399429"	"Transcript"	"intron_variant"	"-/4277"	"-/3378"	"-/1125"	""	""	""	"1"	NA	-1	"COL28A1"	"HGNC"	22442	"protein_coding"	"YES"	"CCDS43553.1"	"ENSP00000382356"	"Q2UY09"	"H7C3P2,H7BZU0"	"UPI000155D64E"	"NM_001037763.2"	""	""	""	"8/34"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"2482fc3e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0736842105263158	"WGS"	FALSE
"14749"	"NXPH1"	30010	"mskcc.org"	"GRCh37"	"7"	8584411	8584411	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.54+109014T>C"	""	""	"ENST00000405863"	""	106	"75"	31	70	"70"	0	"NXPH1,intron_variant,,ENST00000405863,NM_152745.2;NXPH1,intron_variant,,ENST00000602349,;NXPH1,intron_variant,,ENST00000429542,;NXPH1,intron_variant,,ENST00000438764,;"	"C"	"ENSG00000122584"	"ENST00000405863"	"Transcript"	"intron_variant"	"-/2921"	"-/816"	"-/271"	""	""	""	"1"	NA	1	"NXPH1"	"HGNC"	20693	"protein_coding"	"YES"	"CCDS47540.1"	"ENSP00000384551"	"P58417"	"Q3LID8,C9JPD0,C9JE46,B4DJV1"	"UPI000000DC02"	"NM_152745.2"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"248325a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292452830188679	"WGS"	FALSE
"14750"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	8864176	8864176	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"56"	29	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"24832c7c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341176470588235	"WGS"	FALSE
"14751"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	9447095	9447095	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"58"	19	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"24833ae6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246753246753247	"WGS"	FALSE
"14752"	"AC005281.1"	0	"mskcc.org"	"GRCh37"	"7"	12573170	12573170	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.519+2452T>A"	""	""	"ENST00000418428"	""	70	"64"	6	35	"35"	0	"AC005281.1,intron_variant,,ENST00000418428,;AC005281.1,intron_variant,,ENST00000424453,;AC005281.1,downstream_gene_variant,,ENST00000443874,;"	"A"	"ENSG00000226690"	"ENST00000418428"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1094"	""	""	""	""	""	"1"	NA	1	"AC005281.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"24839e46-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"14753"	"SCIN"	85477	"mskcc.org"	"GRCh37"	"7"	12684830	12684830	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1881+500G>A"	""	""	"ENST00000297029"	""	72	"51"	21	38	"38"	0	"SCIN,intron_variant,,ENST00000297029,NM_001112706.2;SCIN,intron_variant,,ENST00000519209,NM_033128.3;SCIN,intron_variant,,ENST00000445618,;SCIN,intron_variant,,ENST00000341757,;"	"A"	"ENSG00000006747"	"ENST00000297029"	"Transcript"	"intron_variant"	"-/3137"	"-/2148"	"-/715"	""	""	""	"1"	NA	1	"SCIN"	"HGNC"	21695	"protein_coding"	"YES"	"CCDS47545.1"	"ENSP00000297029"	"Q9Y6U3"	"Q8NBV9,Q75MG0"	"UPI000013C4DF"	"NM_001112706.2"	""	""	""	"13/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"2483a166-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.291666666666667	"WGS"	FALSE
"14754"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	12788665	12788665	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"73"	41	45	"45"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"2483a6e8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.359649122807018	"WGS"	FALSE
"14755"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	14156717	14156717	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"58"	32	54	"53"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"2483d9b0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.355555555555556	"WGS"	FALSE
"14756"	"DGKB"	1607	"mskcc.org"	"GRCh37"	"7"	14699117	14699117	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1134+13437G>A"	""	""	"ENST00000403951"	""	85	"60"	25	52	"52"	0	"DGKB,intron_variant,,ENST00000403951,;DGKB,intron_variant,,ENST00000258767,;DGKB,intron_variant,,ENST00000399322,NM_004080.2;DGKB,intron_variant,,ENST00000402815,;DGKB,intron_variant,,ENST00000407950,;DGKB,intron_variant,,ENST00000444700,;DGKB,intron_variant,,ENST00000406247,NM_145695.2;DGKB,intron_variant,,ENST00000403963,;DGKB,intron_variant,,ENST00000471732,;DGKB,intron_variant,,ENST00000477401,;"	"T"	"ENSG00000136267"	"ENST00000403951"	"Transcript"	"intron_variant"	"-/6917"	"-/2415"	"-/804"	""	""	""	"1"	NA	-1	"DGKB"	"HGNC"	2850	"protein_coding"	"YES"	"CCDS47547.1"	"ENSP00000385780"	"Q9Y6T7"	"C9JA18,B7Z3B3"	"UPI0000033B9B"	""	""	""	""	"13/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"2483ec52-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"14757"	"ISPD"	729920	"mskcc.org"	"GRCh37"	"7"	16377749	16377749	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.685-29497G>T"	""	""	"ENST00000407010"	""	93	"64"	29	53	"53"	0	"ISPD,intron_variant,,ENST00000407010,NM_001101426.3;ISPD,intron_variant,,ENST00000399310,NM_001101417.3;"	"A"	"ENSG00000214960"	"ENST00000407010"	"Transcript"	"intron_variant"	"-/1859"	"-/1356"	"-/451"	""	""	""	"1"	NA	-1	"ISPD"	"HGNC"	37276	"protein_coding"	"YES"	""	"ENSP00000385478"	"A4D126"	""	"UPI00015CFC06"	"NM_001101426.3"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"2484271c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311827956989247	"WGS"	FALSE
"14758"	"ENSR00001557594"	0	"mskcc.org"	"GRCh37"	"7"	17223573	17223573	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001557594"	""	87	"58"	29	54	"54"	0	""	"T"	""	"ENSR00001557594"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"248449c2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14759"	"HDAC9"	9734	"mskcc.org"	"GRCh37"	"7"	18142170	18142170	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-97+15334A>C"	""	""	"ENST00000417496"	""	98	"67"	31	49	"49"	0	"HDAC9,intron_variant,,ENST00000417496,NM_001204144.1;HDAC9,intron_variant,,ENST00000455069,;"	"C"	"ENSG00000048052"	"ENST00000417496"	"Transcript"	"intron_variant"	"-/2524"	"-/1767"	"-/588"	""	""	""	"1"	NA	1	"HDAC9"	"HGNC"	14065	"protein_coding"	""	"CCDS56465.1"	"ENSP00000401669"	"Q9UKV0"	"Q75N08,C9JLX1,C9JD56"	"UPI00019154CE"	"NM_001204144.1"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"24846a24-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316326530612245	"WGS"	FALSE
"14760"	"HDAC9"	9734	"mskcc.org"	"GRCh37"	"7"	18590533	18590533	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.23-34371C>A"	""	""	"ENST00000441542"	""	68	"44"	24	47	"47"	0	"HDAC9,intron_variant,,ENST00000406451,NM_178423.1;HDAC9,intron_variant,,ENST00000405010,NM_014707.1;HDAC9,intron_variant,,ENST00000406072,;HDAC9,intron_variant,,ENST00000401921,;HDAC9,intron_variant,,ENST00000441542,NM_178425.2;HDAC9,intron_variant,,ENST00000432645,NM_058176.2;HDAC9,intron_variant,,ENST00000417496,NM_001204144.1;HDAC9,intron_variant,,ENST00000428307,NM_001204145.1,NM_001204146.1;HDAC9,intron_variant,,ENST00000456174,NM_001204148.1;HDAC9,intron_variant,,ENST00000524023,NM_001204147.1;HDAC9,intron_variant,,ENST00000413380,;HDAC9,intron_variant,,ENST00000433709,;HDAC9,intron_variant,,ENST00000441986,;HDAC9,intron_variant,,ENST00000413509,;HDAC9,intron_variant,,ENST00000430454,;HDAC9,intron_variant,,ENST00000476135,;HDAC9,intron_variant,,ENST00000523867,;HDAC9,intron_variant,,ENST00000461159,;HDAC9,intron_variant,,ENST00000446646,;"	"A"	"ENSG00000048052"	"ENST00000441542"	"Transcript"	"intron_variant"	"-/3210"	"-/3210"	"-/1069"	""	""	""	"1"	NA	1	"HDAC9"	"HGNC"	14065	"protein_coding"	"YES"	"CCDS47553.1"	"ENSP00000408617"	"Q9UKV0"	"Q8N926,Q75N15,Q75N14,Q75N10,C9JLX1,C9J835,C9J1W4,C9IZS0"	"UPI000019AB75"	"NM_178425.2"	""	""	""	"1/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"248483b0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352941176470588	"WGS"	FALSE
"14761"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	19870466	19870466	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"54"	27	53	"53"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"2484bc86-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14762"	"AC005062.2"	101927668	"mskcc.org"	"GRCh37"	"7"	20057441	20057441	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.183+11101G>A"	""	""	"ENST00000415499"	""	36	"31"	5	23	"23"	0	"AC005062.2,intron_variant,,ENST00000415499,;AC005062.2,intron_variant,,ENST00000418442,;AC005062.2,intron_variant,,ENST00000437191,;AC005062.2,intron_variant,,ENST00000435968,;"	"T"	"ENSG00000243004"	"ENST00000415499"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/743"	""	""	""	""	""	"1"	NA	-1	"AC005062.2"	"Clone_based_vega_gene"	NA	"sense_overlapping"	""	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"2484c2bc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138888888888889	"WGS"	FALSE
"14763"	"LINC01162"	0	"mskcc.org"	"GRCh37"	"7"	21005969	21005969	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.152-54518G>T"	""	""	"ENST00000447262"	""	81	"75"	6	62	"62"	0	"LINC01162,intron_variant,,ENST00000447262,;"	"T"	"ENSG00000232790"	"ENST00000447262"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/447"	""	""	""	""	""	"1"	NA	1	"LINC01162"	"HGNC"	49528	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"2484e5bc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"14764"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	21577377	21577377	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"77"	6	40	"40"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"2484f4b2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"14765"	"DNAH11"	8701	"mskcc.org"	"GRCh37"	"7"	21606960	21606960	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1195-2727T>G"	""	""	"ENST00000328843"	""	101	"60"	41	51	"51"	0	"DNAH11,intron_variant,,ENST00000328843,;DNAH11,intron_variant,,ENST00000409508,NM_001277115.1;DNAH11,intron_variant,,ENST00000496218,;"	"G"	"ENSG00000105877"	"ENST00000328843"	"Transcript"	"intron_variant"	"-/14188"	"-/13572"	"-/4523"	""	""	""	"1"	NA	1	"DNAH11"	"HGNC"	2942	"protein_coding"	"YES"	""	"ENSP00000330671"	"Q96DT5"	"Q75MY1,Q75KM7,O95705,O43352,O15433"	"UPI000041AC4D"	""	""	""	""	"6/82"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"2484f778-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.405940594059406	"WGS"	FALSE
"14766"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	22015184	22015184	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"56"	31	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"24850b14-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35632183908046	"WGS"	FALSE
"14767"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	22018029	22018029	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"65"	29	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"24850bc8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308510638297872	"WGS"	FALSE
"14768"	"RAPGEF5"	9771	"mskcc.org"	"GRCh37"	"7"	22166668	22166668	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2023-1392A>C"	""	""	"ENST00000344041"	""	77	"67"	10	43	"43"	0	"RAPGEF5,intron_variant,,ENST00000344041,NM_012294.3;RAPGEF5,intron_variant,,ENST00000401957,;RAPGEF5,intron_variant,,ENST00000488366,;"	"G"	"ENSG00000136237"	"ENST00000344041"	"Transcript"	"intron_variant"	"-/6621"	"-/2193"	"-/730"	""	""	""	"1"	NA	-1	"RAPGEF5"	"HGNC"	16862	"protein_coding"	"YES"	"CCDS55093.1"	"ENSP00000343656"	""	"C9JBS6,A8MQ07"	"UPI0000EA87E4"	"NM_012294.3"	""	""	""	"24/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"248512a8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12987012987013	"WGS"	FALSE
"14769"	"RAPGEF5"	9771	"mskcc.org"	"GRCh37"	"7"	22166679	22166679	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2023-1403A>G"	""	""	"ENST00000344041"	""	74	"68"	6	46	"46"	0	"RAPGEF5,intron_variant,,ENST00000344041,NM_012294.3;RAPGEF5,intron_variant,,ENST00000401957,;RAPGEF5,intron_variant,,ENST00000488366,;"	"C"	"ENSG00000136237"	"ENST00000344041"	"Transcript"	"intron_variant"	"-/6621"	"-/2193"	"-/730"	""	""	""	"1"	NA	-1	"RAPGEF5"	"HGNC"	16862	"protein_coding"	"YES"	"CCDS55093.1"	"ENSP00000343656"	""	"C9JBS6,A8MQ07"	"UPI0000EA87E4"	"NM_012294.3"	""	""	""	"24/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"2485135c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"14770"	"AC006026.12"	0	"mskcc.org"	"GRCh37"	"7"	23695431	23695431	"+"	"RNA"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.131A>C"	""	""	"ENST00000457376"	"1/1"	77	"53"	24	50	"49"	1	"AC006026.12,non_coding_transcript_exon_variant,,ENST00000457376,;"	"C"	"ENSG00000228953"	"ENST00000457376"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"131/180"	""	""	""	""	""	"1"	NA	1	"AC006026.12"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"24856e56-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311688311688312	"WGS"	FALSE
"14771"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	24585881	24585881	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"60"	6	31	"31"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"24858544-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"14772"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	25377202	25377202	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"54"	22	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"2485aa92-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289473684210526	"WGS"	FALSE
"14773"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	26290329	26290329	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"62"	6	37	"37"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"2485d36e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"14774"	"NHP2P2"	0	"mskcc.org"	"GRCh37"	"7"	27084955	27084955	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000396362"	""	34	"30"	4	18	"18"	0	"NHP2P2,upstream_gene_variant,,ENST00000396362,;"	"T"	"ENSG00000213786"	"ENST00000396362"	"Transcript"	"upstream_gene_variant"	"-/460"	""	""	""	""	""	"1"	"2833"	1	"NHP2P2"	"HGNC"	22797	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"2485f34e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"14775"	"CHN2"	644086	"mskcc.org"	"GRCh37"	"7"	29484866	29484866	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.577-35029C>T"	""	""	"ENST00000222792"	""	105	"63"	42	40	"40"	0	"CHN2,intron_variant,,ENST00000222792,NM_004067.2;CHN2,intron_variant,,ENST00000435288,;CHN2,intron_variant,,ENST00000546235,;CHN2,intron_variant,,ENST00000539406,;CHN2,intron_variant,,ENST00000495789,;CHN2,intron_variant,,ENST00000539389,;CHN2,intron_variant,,ENST00000446446,;CHN2,intron_variant,,ENST00000474070,;"	"T"	"ENSG00000106069"	"ENST00000222792"	"Transcript"	"intron_variant"	"-/3530"	"-/1407"	"-/468"	""	""	""	"1"	NA	1	"CHN2"	"HGNC"	1944	"protein_coding"	"YES"	"CCDS5420.1"	"ENSP00000222792"	"P52757"	"A4D1A2"	"UPI000012781F"	"NM_004067.2"	""	""	""	"6/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"248666ee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WGS"	FALSE
"14776"	"AC006978.6"	222161	"mskcc.org"	"GRCh37"	"7"	30413509	30413509	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000496846"	""	60	"50"	10	26	"26"	0	"ZNRF2,intron_variant,,ENST00000442800,;AC006978.6,downstream_gene_variant,,ENST00000496846,;AC006978.6,downstream_gene_variant,,ENST00000541071,;"	"C"	"ENSG00000235859"	"ENST00000496846"	"Transcript"	"downstream_gene_variant"	"-/1234"	""	""	""	""	""	"1"	"1152"	1	"AC006978.6"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"248690f6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"14777"	"AQP1"	0	"mskcc.org"	"GRCh37"	"7"	30942646	30942646	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.615-8962C>T"	""	""	"ENST00000509504"	""	82	"46"	36	51	"51"	0	"AQP1,intron_variant,,ENST00000434909,;AQP1,intron_variant,,ENST00000509504,;"	"T"	"ENSG00000250424"	"ENST00000509504"	"Transcript"	"intron_variant"	"-/1524"	"-/1341"	"-/446"	""	""	""	"1"	NA	1	"AQP1"	"Uniprot_gn"	633	"protein_coding"	"YES"	""	"ENSP00000421315"	""	"K7N7A8,Q6JSD7,B4E220"	"UPI0001D3B48B"	""	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"2486aa5a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.439024390243902	"WGS"	FALSE
"14778"	"GHRHR"	2692	"mskcc.org"	"GRCh37"	"7"	30975912	30975912	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000466427"	""	108	"78"	30	39	"39"	0	"GHRHR,upstream_gene_variant,,ENST00000466427,;"	"G"	"ENSG00000106128"	"ENST00000466427"	"Transcript"	"upstream_gene_variant"	"-/330"	""	""	""	""	""	"1"	"2372"	1	"GHRHR"	"HGNC"	4266	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"2486abae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"14779"	"BBS9"	27241	"mskcc.org"	"GRCh37"	"7"	33254128	33254128	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.442+36925T>G"	""	""	"ENST00000242067"	""	92	"57"	35	49	"49"	0	"BBS9,intron_variant,,ENST00000242067,NM_198428.2;BBS9,intron_variant,,ENST00000355070,NM_001033605.1;BBS9,intron_variant,,ENST00000354265,;BBS9,intron_variant,,ENST00000396127,NM_001033604.1;BBS9,intron_variant,,ENST00000350941,NM_014451.3;BBS9,intron_variant,,ENST00000425508,;BBS9,intron_variant,,ENST00000442858,;BBS9,intron_variant,,ENST00000433714,;"	"G"	"ENSG00000122507"	"ENST00000242067"	"Transcript"	"intron_variant"	"-/4027"	"-/2664"	"-/887"	""	""	""	"1"	NA	1	"BBS9"	"HGNC"	30000	"protein_coding"	"YES"	"CCDS43566.1"	"ENSP00000242067"	"Q3SYG4"	"C9JRR5,C9JJ08"	"UPI000020ED57"	"NM_198428.2"	""	""	""	"5/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"248768f0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.380434782608696	"WGS"	FALSE
"14780"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	38984491	38984491	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"rs374114853"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	34	"29"	5	23	"23"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs374114853"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"2488538c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"14781"	"RALA"	5898	"mskcc.org"	"GRCh37"	"7"	39743990	39743990	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.499-1732A>G"	""	""	"ENST00000005257"	""	77	"70"	7	38	"38"	0	"RALA,intron_variant,,ENST00000005257,NM_005402.3;AC004837.5,upstream_gene_variant,,ENST00000435766,;RALA,intron_variant,,ENST00000468201,;RALA,intron_variant,,ENST00000466491,;RALA,intron_variant,,ENST00000434466,;"	"G"	"ENSG00000006451"	"ENST00000005257"	"Transcript"	"intron_variant"	"-/2880"	"-/621"	"-/206"	""	""	""	"1"	NA	1	"RALA"	"HGNC"	9839	"protein_coding"	"YES"	"CCDS5460.1"	"ENSP00000005257"	"P11233"	"C9JPE8"	"UPI0000001C8F"	"NM_005402.3"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"24887a7e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"14782"	"LINC00265"	349114	"mskcc.org"	"GRCh37"	"7"	39823714	39823714	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1328+1316T>G"	""	""	"ENST00000340510"	""	89	"65"	24	46	"46"	0	"LINC00265,intron_variant,,ENST00000340510,;LINC00265,intron_variant,,ENST00000448955,;RP5-1173I20.1,downstream_gene_variant,,ENST00000603383,;"	"G"	"ENSG00000188185"	"ENST00000340510"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3049"	""	""	""	""	""	"1"	NA	1	"LINC00265"	"HGNC"	28019	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"248880b4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269662921348315	"WGS"	FALSE
"14783"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	39979540	39979540	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs771260464"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"57"	13	21	"21"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs771260464"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"24888eba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185714285714286	"WGS"	FALSE
"14784"	"SUGCT"	79783	"mskcc.org"	"GRCh37"	"7"	40247839	40247839	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.505+13180G>A"	""	""	"ENST00000309930"	""	90	"60"	30	43	"43"	0	"SUGCT,intron_variant,,ENST00000309930,NM_024728.2,NM_001193311.1;SUGCT,intron_variant,,ENST00000335693,NM_001193313.1;SUGCT,intron_variant,,ENST00000416370,;SUGCT,intron_variant,,ENST00000401647,NM_001193312.1;SUGCT,intron_variant,,ENST00000540834,;"	"A"	"ENSG00000175600"	"ENST00000309930"	"Transcript"	"intron_variant"	"-/1719"	"-/1416"	"-/471"	""	""	""	"1"	NA	1	"SUGCT"	"HGNC"	16001	"protein_coding"	"YES"	"CCDS55104.1"	"ENSP00000312054"	"Q9HAC7"	"Q9Y6U8,Q75MU8,Q75MS9,Q75MI5"	"UPI000013EF6B"	"NM_024728.2,NM_001193311.1"	""	""	""	"6/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"2488a4c2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14785"	"SUGCT"	79783	"mskcc.org"	"GRCh37"	"7"	40255922	40255922	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.505+21263G>C"	""	""	"ENST00000309930"	""	57	"50"	7	38	"38"	0	"SUGCT,intron_variant,,ENST00000309930,NM_024728.2,NM_001193311.1;SUGCT,intron_variant,,ENST00000335693,NM_001193313.1;SUGCT,intron_variant,,ENST00000416370,;SUGCT,intron_variant,,ENST00000401647,NM_001193312.1;SUGCT,intron_variant,,ENST00000540834,;"	"C"	"ENSG00000175600"	"ENST00000309930"	"Transcript"	"intron_variant"	"-/1719"	"-/1416"	"-/471"	""	""	""	"1"	NA	1	"SUGCT"	"HGNC"	16001	"protein_coding"	"YES"	"CCDS55104.1"	"ENSP00000312054"	"Q9HAC7"	"Q9Y6U8,Q75MU8,Q75MS9,Q75MI5"	"UPI000013EF6B"	"NM_024728.2,NM_001193311.1"	""	""	""	"6/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"2488a576-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12280701754386	"WGS"	FALSE
"14786"	"HECW1"	23072	"mskcc.org"	"GRCh37"	"7"	43212304	43212304	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-32+58314C>T"	""	""	"ENST00000395891"	""	83	"61"	22	44	"44"	0	"HECW1,intron_variant,,ENST00000395891,NM_015052.3;HECW1,intron_variant,,ENST00000453890,NM_001287059.1;HECW1,intron_variant,,ENST00000492310,;HECW1,intron_variant,,ENST00000490954,;"	"T"	"ENSG00000002746"	"ENST00000395891"	"Transcript"	"intron_variant"	"-/9501"	"-/4821"	"-/1606"	""	""	""	"1"	NA	1	"HECW1"	"HGNC"	22195	"protein_coding"	"YES"	"CCDS5469.2"	"ENSP00000379228"	"Q76N89"	"A4D1V5"	"UPI0000D74C41"	"NM_015052.3"	""	""	""	"2/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"24891290-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265060240963855	"WGS"	FALSE
"14787"	"CCM2"	83605	"mskcc.org"	"GRCh37"	"7"	45035854	45035854	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000258781"	""	84	"78"	6	40	"40"	0	"CCM2,upstream_gene_variant,,ENST00000258781,NM_031443.3;CCM2,upstream_gene_variant,,ENST00000541586,NM_001167934.1;CCM2,upstream_gene_variant,,ENST00000544363,NM_001167935.1;CCM2,upstream_gene_variant,,ENST00000461377,;CCM2,upstream_gene_variant,,ENST00000478582,;CCM2,upstream_gene_variant,,ENST00000488727,;"	"T"	"ENSG00000136280"	"ENST00000258781"	"Transcript"	"upstream_gene_variant"	"-/1894"	"-/1335"	"-/444"	""	""	""	"1"	"3930"	1	"CCM2"	"HGNC"	21708	"protein_coding"	""	"CCDS5500.1"	"ENSP00000258781"	"Q9BSQ5"	""	"UPI000006CE51"	"NM_031443.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"2489b100-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"14788"	"CCM2"	83605	"mskcc.org"	"GRCh37"	"7"	45051571	45051571	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.30+11609A>G"	""	""	"ENST00000258781"	""	105	"97"	8	37	"37"	0	"CCM2,intron_variant,,ENST00000258781,NM_031443.3;CCM2,intron_variant,,ENST00000541586,NM_001167934.1;CCM2,intron_variant,,ENST00000544363,NM_001167935.1;CCM2,intron_variant,,ENST00000461377,;CCM2,intron_variant,,ENST00000478582,;CCM2,intron_variant,,ENST00000488727,;"	"G"	"ENSG00000136280"	"ENST00000258781"	"Transcript"	"intron_variant"	"-/1894"	"-/1335"	"-/444"	""	""	""	"1"	NA	1	"CCM2"	"HGNC"	21708	"protein_coding"	""	"CCDS5500.1"	"ENSP00000258781"	"Q9BSQ5"	""	"UPI000006CE51"	"NM_031443.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"2489b268-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0761904761904762	"WGS"	FALSE
"14789"	"AC095067.1"	101929086	"mskcc.org"	"GRCh37"	"7"	47671417	47671417	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000429010"	""	75	"44"	31	57	"57"	0	"AC095067.1,downstream_gene_variant,,ENST00000429010,;"	"T"	"ENSG00000236078"	"ENST00000429010"	"Transcript"	"downstream_gene_variant"	"-/2761"	""	""	""	""	""	"1"	"1926"	1	"AC095067.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"248a23f6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.413333333333333	"WGS"	FALSE
"14790"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	52114646	52114646	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"66"	6	44	"44"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"248abd98-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"14791"	"ENSR00000626632"	0	"mskcc.org"	"GRCh37"	"7"	53670544	53670544	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000626632"	""	78	"43"	35	37	"37"	0	""	"C"	""	"ENSR00000626632"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"248af718-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.448717948717949	"WGS"	FALSE
"14792"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	55047143	55047143	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"62"	30	67	"67"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"248b274c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326086956521739	"WGS"	FALSE
"14793"	"LANCL2"	55915	"mskcc.org"	"GRCh37"	"7"	55429220	55429220	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000254770"	""	79	"49"	30	53	"53"	0	"LANCL2,upstream_gene_variant,,ENST00000254770,NM_018697.3;LANCL2,upstream_gene_variant,,ENST00000452107,;"	"A"	"ENSG00000132434"	"ENST00000254770"	"Transcript"	"upstream_gene_variant"	"-/4353"	"-/1353"	"-/450"	""	""	""	"1"	"3921"	1	"LANCL2"	"HGNC"	6509	"protein_coding"	"YES"	"CCDS5517.1"	"ENSP00000254770"	"Q9NS86"	"B4DWZ7"	"UPI000006F7D0"	"NM_018697.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"248b3ff2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.379746835443038	"WGS"	FALSE
"14794"	"ENSR00001560221"	0	"mskcc.org"	"GRCh37"	"7"	55766963	55766963	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001560221"	""	69	"50"	19	41	"41"	0	"FKBP9L,intron_variant,,ENST00000441699,;"	"T"	""	"ENSR00001560221"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"248b4e98-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27536231884058	"WGS"	FALSE
"14795"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	55826859	55826859	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"78"	7	41	"41"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"248b5a50-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0823529411764706	"WGS"	FALSE
"14796"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	55826860	55826860	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"76"	8	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"248b5afa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"14797"	"SEPT14"	346288	"mskcc.org"	"GRCh37"	"7"	55928558	55928558	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.54+1078G>A"	""	""	"ENST00000388975"	""	75	"49"	26	39	"39"	0	"SEPT14,intron_variant,,ENST00000388975,NM_207366.2;SEPT14,intron_variant,,ENST00000477628,;"	"T"	"ENSG00000154997"	"ENST00000388975"	"Transcript"	"intron_variant"	"-/3785"	"-/1299"	"-/432"	""	""	""	"1"	NA	-1	"SEPT14"	"HGNC"	33280	"protein_coding"	"YES"	"CCDS5519.2"	"ENSP00000373627"	"Q6ZU15"	""	"UPI0000E0AB69"	"NM_207366.2"	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"248b6810-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346666666666667	"WGS"	FALSE
"14798"	"MRPS17"	51373	"mskcc.org"	"GRCh37"	"7"	56015638	56015638	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.269-5234T>C"	""	""	"ENST00000426595"	""	72	"63"	9	38	"38"	0	"MRPS17,intron_variant,,ENST00000426595,;MRPS17,upstream_gene_variant,,ENST00000285298,NM_015969.2;MRPS17,upstream_gene_variant,,ENST00000443449,;GBAS,upstream_gene_variant,,ENST00000446692,;"	"C"	"ENSG00000249773"	"ENST00000426595"	"Transcript"	"intron_variant"	"-/1732"	"-/678"	"-/225"	""	""	""	"1"	NA	1	"MRPS17"	"Uniprot_gn"	14047	"protein_coding"	"YES"	""	"ENSP00000390331"	""	"Q96Q59,I3L0E3,E9PE17"	"UPI000020FC5A"	""	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"248b715c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"14799"	"MRPS17"	51373	"mskcc.org"	"GRCh37"	"7"	56015640	56015640	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"rs199681243"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.269-5232T>C"	""	""	"ENST00000426595"	""	71	"62"	9	39	"39"	0	"MRPS17,intron_variant,,ENST00000426595,;MRPS17,upstream_gene_variant,,ENST00000285298,NM_015969.2;MRPS17,upstream_gene_variant,,ENST00000443449,;GBAS,upstream_gene_variant,,ENST00000446692,;"	"C"	"ENSG00000249773"	"ENST00000426595"	"Transcript"	"intron_variant"	"-/1732"	"-/678"	"-/225"	""	""	"rs199681243"	"1"	NA	1	"MRPS17"	"Uniprot_gn"	14047	"protein_coding"	"YES"	""	"ENSP00000390331"	""	"Q96Q59,I3L0E3,E9PE17"	"UPI000020FC5A"	""	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"248b7210-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126760563380282	"WGS"	FALSE
"14800"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	56278758	56278758	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	52	"46"	6	32	"32"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"248b9a2e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"14801"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	56911112	56911112	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"60"	30	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"248be54c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14802"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	57449094	57449094	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"64"	29	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"248c3bd2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311827956989247	"WGS"	FALSE
"14803"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	57755138	57755138	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"79"	29	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"248cd06a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268518518518519	"WGS"	FALSE
"14804"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	57862707	57862707	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"64"	31	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"248ce05a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326315789473684	"WGS"	FALSE
"14805"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	62059773	62059773	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"54"	24	30	"30"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"248e5714-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"14806"	"RP5-905H7.3"	0	"mskcc.org"	"GRCh37"	"7"	62693503	62693503	"+"	"RNA"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.341G>T"	""	""	"ENST00000451381"	"3/3"	101	"61"	40	48	"48"	0	"RP5-905H7.3,non_coding_transcript_exon_variant,,ENST00000451381,;PHKG1P1,non_coding_transcript_exon_variant,,ENST00000442924,;"	"A"	"ENSG00000244550"	"ENST00000451381"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"341/351"	""	""	""	""	""	"1"	NA	-1	"RP5-905H7.3"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"248e79a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.396039603960396	"WGS"	FALSE
"14807"	"INTS4L2"	0	"mskcc.org"	"GRCh37"	"7"	65176515	65176515	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1390-4108G>C"	""	""	"ENST00000430126"	""	78	"54"	24	43	"43"	0	"INTS4L2,intron_variant,,ENST00000430126,;"	"C"	"ENSG00000232270"	"ENST00000430126"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1403"	""	""	""	""	""	"1"	NA	1	"INTS4L2"	"HGNC"	22351	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"10/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"248f9ad4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"14808"	"RP5-1132H15.3"	0	"mskcc.org"	"GRCh37"	"7"	65493981	65493981	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.42-337T>G"	""	""	"ENST00000411872"	""	90	"82"	8	31	"31"	0	"RP5-1132H15.3,intron_variant,,ENST00000411872,;"	"C"	"ENSG00000229886"	"ENST00000411872"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/306"	""	""	""	""	""	"1"	NA	-1	"RP5-1132H15.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"248fc464-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"14809"	"AC068533.1"	0	"mskcc.org"	"GRCh37"	"7"	65517598	65517598	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"rs139895582"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000517188"	""	107	"101"	6	66	"66"	0	"AC068533.1,downstream_gene_variant,,ENST00000517188,;"	"T"	"ENSG00000252997"	"ENST00000517188"	"Transcript"	"downstream_gene_variant"	"-/85"	""	""	""	""	"rs139895582"	"1"	"3623"	-1	"AC068533.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"A:0.0030"	"A:0.0113"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"248fc90a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0560747663551402	"WGS"	FALSE
"14810"	"GS1-124K5.2"	0	"mskcc.org"	"GRCh37"	"7"	65890474	65890474	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.826+2462G>A"	""	""	"ENST00000442578"	""	95	"64"	31	43	"43"	0	"GS1-124K5.2,intron_variant,,ENST00000442578,;TPST1,downstream_gene_variant,,ENST00000490159,;GS1-124K5.2,downstream_gene_variant,,ENST00000411606,;SKP1P1,upstream_gene_variant,,ENST00000438081,;SKP1P1,upstream_gene_variant,,ENST00000433793,;"	"T"	"ENSG00000230189"	"ENST00000442578"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1016"	""	""	""	""	""	"1"	NA	-1	"GS1-124K5.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"10/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"248ffa88-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326315789473684	"WGS"	FALSE
"14811"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	68386444	68386444	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"42"	25	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"249106bc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373134328358209	"WGS"	FALSE
"14812"	"AUTS2"	26053	"mskcc.org"	"GRCh37"	"7"	69676583	69676583	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs541014807"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.660+77026C>T"	""	""	"ENST00000342771"	""	81	"74"	7	40	"40"	0	"AUTS2,intron_variant,,ENST00000342771,NM_015570.2;AUTS2,intron_variant,,ENST00000406775,NM_001127231.1;AUTS2,intron_variant,,ENST00000403018,NM_001127232.1;"	"T"	"ENSG00000158321"	"ENST00000342771"	"Transcript"	"intron_variant"	"-/6173"	"-/3780"	"-/1259"	""	""	"rs541014807"	"1"	NA	1	"AUTS2"	"HGNC"	14262	"protein_coding"	"YES"	"CCDS5539.1"	"ENSP00000344087"	"Q8WXX7"	"Q75MQ7,Q75MQ4,Q75MQ3,Q75MD7"	"UPI0000126665"	"NM_015570.2"	""	""	""	"4/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"24914fdc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"14813"	"AUTS2"	26053	"mskcc.org"	"GRCh37"	"7"	69676590	69676590	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.660+77033G>T"	""	""	"ENST00000342771"	""	77	"71"	6	37	"37"	0	"AUTS2,intron_variant,,ENST00000342771,NM_015570.2;AUTS2,intron_variant,,ENST00000406775,NM_001127231.1;AUTS2,intron_variant,,ENST00000403018,NM_001127232.1;"	"T"	"ENSG00000158321"	"ENST00000342771"	"Transcript"	"intron_variant"	"-/6173"	"-/3780"	"-/1259"	""	""	""	"1"	NA	1	"AUTS2"	"HGNC"	14262	"protein_coding"	"YES"	"CCDS5539.1"	"ENSP00000344087"	"Q8WXX7"	"Q75MQ7,Q75MQ4,Q75MQ3,Q75MD7"	"UPI0000126665"	"NM_015570.2"	""	""	""	"4/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"24915090-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"14814"	"NSUN5"	55695	"mskcc.org"	"GRCh37"	"7"	72720295	72720295	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.500+1096A>G"	""	""	"ENST00000310326"	""	72	"66"	6	30	"30"	0	"NSUN5,intron_variant,,ENST00000428206,NM_001168348.2;NSUN5,intron_variant,,ENST00000252594,;NSUN5,intron_variant,,ENST00000438747,NM_001168347.2,NM_148956.3,NM_018044.4;NSUN5,intron_variant,,ENST00000310326,;NSUN5,intron_variant,,ENST00000471461,;NSUN5,intron_variant,,ENST00000455763,;NSUN5,upstream_gene_variant,,ENST00000478977,;POM121B,downstream_gene_variant,,ENST00000411631,;"	"C"	"ENSG00000130305"	"ENST00000310326"	"Transcript"	"intron_variant"	"-/1602"	"-/1413"	"-/470"	""	""	""	"1"	NA	-1	"NSUN5"	"HGNC"	16385	"protein_coding"	"YES"	"CCDS55119.1"	"ENSP00000309126"	"Q96P11"	""	"UPI00017A7817"	""	""	""	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"24923e42-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"14815"	"MLXIPL"	51085	"mskcc.org"	"GRCh37"	"7"	73026038	73026038	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.401-4036A>T"	""	""	"ENST00000313375"	""	86	"80"	6	49	"49"	0	"MLXIPL,intron_variant,,ENST00000313375,NM_032953.2,NM_032951.2;MLXIPL,intron_variant,,ENST00000434326,;MLXIPL,intron_variant,,ENST00000414749,;MLXIPL,intron_variant,,ENST00000354613,NM_032954.2,NM_032952.2;MLXIPL,intron_variant,,ENST00000429400,;MLXIPL,intron_variant,,ENST00000395189,;MLXIPL,intron_variant,,ENST00000456640,;MLXIPL,intron_variant,,ENST00000453275,;MLXIPL,intron_variant,,ENST00000345114,;MLXIPL,upstream_gene_variant,,ENST00000476404,;MLXIPL,upstream_gene_variant,,ENST00000488212,;"	"A"	"ENSG00000009950"	"ENST00000313375"	"Transcript"	"intron_variant"	"-/3278"	"-/2559"	"-/852"	""	""	""	"1"	NA	-1	"MLXIPL"	"HGNC"	12744	"protein_coding"	"YES"	"CCDS5553.1"	"ENSP00000320886"	"Q9NP71"	"S5LSP3"	"UPI0000138F98"	"NM_032953.2,NM_032951.2"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"249268d6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"14816"	"CLIP2"	7461	"mskcc.org"	"GRCh37"	"7"	73716740	73716740	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-68+12676T>A"	""	""	"ENST00000223398"	""	74	"67"	7	34	"34"	0	"CLIP2,intron_variant,,ENST00000223398,NM_003388.4;CLIP2,intron_variant,,ENST00000361545,NM_032421.2;"	"A"	"ENSG00000106665"	"ENST00000223398"	"Transcript"	"intron_variant"	"-/5563"	"-/3141"	"-/1046"	""	""	""	"1"	NA	1	"CLIP2"	"HGNC"	2586	"protein_coding"	"YES"	"CCDS5569.1"	"ENSP00000223398"	"Q9UDT6"	"Q7Z5B7"	"UPI000007061E"	"NM_003388.4"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTC"	"2492d7b2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	FALSE
"14817"	"GTF2IRD1"	9569	"mskcc.org"	"GRCh37"	"7"	73953772	73953772	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1625-437T>C"	""	""	"ENST00000455841"	""	92	"85"	7	30	"30"	0	"GTF2IRD1,intron_variant,,ENST00000476977,;GTF2IRD1,intron_variant,,ENST00000265755,NM_005685.3,NM_016328.2;GTF2IRD1,intron_variant,,ENST00000455841,NM_001199207.1;GTF2IRD1,intron_variant,,ENST00000424337,;GTF2IRD1,intron_variant,,ENST00000489094,;"	"C"	"ENSG00000006704"	"ENST00000455841"	"Transcript"	"intron_variant"	"-/3315"	"-/2931"	"-/976"	""	""	""	"1"	NA	1	"GTF2IRD1"	"HGNC"	4661	"protein_coding"	"YES"	"CCDS56492.1"	"ENSP00000397566"	"Q9UHL9"	""	"UPI00003BF92B"	"NM_001199207.1"	""	""	""	"13/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"2492feea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"14818"	"HIP1"	3092	"mskcc.org"	"GRCh37"	"7"	75175102	75175102	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2560-616G>C"	""	""	"ENST00000336926"	""	69	"63"	6	46	"46"	0	"HIP1,intron_variant,,ENST00000336926,NM_005338.6;HIP1,intron_variant,,ENST00000434438,NM_001243198.2;"	"G"	"ENSG00000127946"	"ENST00000336926"	"Transcript"	"intron_variant"	"-/8013"	"-/3114"	"-/1037"	""	""	""	"1"	NA	-1	"HIP1"	"HGNC"	4913	"protein_coding"	"YES"	"CCDS34669.1"	"ENSP00000336747"	"O00291"	"Q8TDA4,B4DYD7,B4DK46"	"UPI000013D65F"	"NM_005338.6"	""	""	""	"25/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"24938e1e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	TRUE
"14819"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	75523425	75523425	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"45"	28	37	"37"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"2493f778-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.383561643835616	"WGS"	FALSE
"14820"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	77138613	77138613	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	30	"26"	4	12	"12"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"2494d2ce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"14821"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	79606394	79606394	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"51"	34	45	"45"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"2495434e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WGS"	FALSE
"14822"	"CD36"	948	"mskcc.org"	"GRCh37"	"7"	80226481	80226481	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-183-48923C>T"	""	""	"ENST00000435819"	""	98	"58"	40	48	"48"	0	"CD36,intron_variant,,ENST00000435819,;CD36,upstream_gene_variant,,ENST00000309881,NM_001001547.2;CD36,upstream_gene_variant,,ENST00000480599,;"	"T"	"ENSG00000135218"	"ENST00000435819"	"Transcript"	"intron_variant"	"-/2365"	"-/1419"	"-/472"	""	""	""	"1"	NA	1	"CD36"	"HGNC"	1663	"protein_coding"	"YES"	"CCDS34673.1"	"ENSP00000399421"	"P16671"	"Q9BZN6,Q9BZN2,Q9BZM9,Q9BQA7,E9PLT1,E9PJX8,E9PC45,E7EX47,E7EWI4,E7EU05,E7ERZ9,A4D1B1"	"UPI0000000C91"	""	""	""	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"24955546-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.408163265306122	"WGS"	FALSE
"14823"	"AC006145.1"	0	"mskcc.org"	"GRCh37"	"7"	81554128	81554128	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000579035"	""	93	"65"	28	52	"52"	0	"AC006145.1,upstream_gene_variant,,ENST00000579035,;"	"A"	"ENSG00000263416"	"ENST00000579035"	"Transcript"	"upstream_gene_variant"	"-/68"	""	""	""	""	""	"1"	"4542"	-1	"AC006145.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"24958016-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301075268817204	"WGS"	FALSE
"14824"	"PCLO"	27445	"mskcc.org"	"GRCh37"	"7"	82686701	82686701	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3300+76865T>C"	""	""	"ENST00000333891"	""	15	"11"	4	15	"15"	0	"PCLO,intron_variant,,ENST00000333891,NM_033026.5;PCLO,intron_variant,,ENST00000423517,NM_014510.2;PCLO,intron_variant,,ENST00000461143,;"	"G"	"ENSG00000186472"	"ENST00000333891"	"Transcript"	"intron_variant"	"-/20329"	"-/15429"	"-/5142"	""	""	""	"1"	NA	-1	"PCLO"	"HGNC"	13406	"protein_coding"	"YES"	"CCDS47630.1"	"ENSP00000334319"	"Q9Y6V0"	""	"UPI0001573469"	"NM_033026.5"	""	""	""	"3/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"2495a438-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"14825"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	82860704	82860704	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"62"	27	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"2495af6e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303370786516854	"WGS"	FALSE
"14826"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	83379684	83379684	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"71"	25	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"2495befa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260416666666667	"WGS"	FALSE
"14827"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	85186627	85186627	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"67"	25	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"2495fff0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"14828"	"ZNF804B"	219578	"mskcc.org"	"GRCh37"	"7"	88645688	88645688	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.109-201781G>T"	""	""	"ENST00000333190"	""	82	"75"	7	38	"38"	0	"ZNF804B,intron_variant,,ENST00000333190,NM_181646.2;"	"T"	"ENSG00000182348"	"ENST00000333190"	"Transcript"	"intron_variant"	"-/4659"	"-/4050"	"-/1349"	""	""	""	"1"	NA	1	"ZNF804B"	"HGNC"	21958	"protein_coding"	"YES"	"CCDS5613.1"	"ENSP00000329638"	"A4D1E1"	""	"UPI00001A92D2"	"NM_181646.2"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"249678ae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"14829"	"STEAP2-AS1"	100874100	"mskcc.org"	"GRCh37"	"7"	89686380	89686380	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.424+152785C>T"	""	""	"ENST00000478318"	""	86	"53"	33	48	"48"	0	"STEAP2-AS1,intron_variant,,ENST00000478318,;"	"A"	"ENSG00000227646"	"ENST00000478318"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/627"	""	""	""	""	""	"1"	NA	-1	"STEAP2-AS1"	"HGNC"	40820	"antisense"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"24969e4c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.383720930232558	"WGS"	FALSE
"14830"	"CTB-13L3.1"	0	"mskcc.org"	"GRCh37"	"7"	90134679	90134679	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.258-7913A>G"	""	""	"ENST00000480135"	""	80	"51"	29	47	"47"	0	"CDK14,intron_variant,,ENST00000449528,;CLDN12,intron_variant,,ENST00000451941,;CLDN12,intron_variant,,ENST00000476475,;CTB-13L3.1,intron_variant,,ENST00000480135,;CLDN12,intron_variant,,ENST00000483862,;CLDN12,intron_variant,,ENST00000485696,;"	"G"	"ENSG00000273299"	"ENST00000480135"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/371"	""	""	""	""	""	"1"	NA	1	"CTB-13L3.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"2496babc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3625	"WGS"	FALSE
"14831"	"GNGT1"	2792	"mskcc.org"	"GRCh37"	"7"	93310459	93310459	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-56+89376G>T"	""	""	"ENST00000455502"	""	83	"77"	6	42	"42"	0	"GNGT1,intron_variant,,ENST00000455502,;"	"T"	"ENSG00000127928"	"ENST00000455502"	"Transcript"	"intron_variant"	"-/1943"	"-/141"	"-/46"	""	""	""	"1"	NA	1	"GNGT1"	"HGNC"	4411	"protein_coding"	""	""	"ENSP00000395857"	""	"C9JGI9"	"UPI000048D1B3"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"24972966-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"14832"	"SLC25A13"	10165	"mskcc.org"	"GRCh37"	"7"	95861595	95861595	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.328+2519T>C"	""	""	"ENST00000416240"	""	100	"68"	32	59	"59"	0	"SLC25A13,intron_variant,,ENST00000416240,NM_014251.2,NM_001160210.1;SLC25A13,intron_variant,,ENST00000265631,;SLC25A13,intron_variant,,ENST00000542654,;SLC25A13,intron_variant,,ENST00000472162,;"	"G"	"ENSG00000004864"	"ENST00000416240"	"Transcript"	"intron_variant"	"-/3192"	"-/2031"	"-/676"	""	""	""	"1"	NA	-1	"SLC25A13"	"HGNC"	10983	"protein_coding"	"YES"	"CCDS55130.1"	"ENSP00000400101"	"Q9UJS0"	"Q75KX8"	"UPI0000001663"	"NM_014251.2,NM_001160210.1"	""	""	""	"4/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"2497871c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.32	"WGS"	FALSE
"14833"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	96061591	96061591	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs145509425"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"53"	19	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145509425"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"24979298-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263888888888889	"WGS"	FALSE
"14834"	"RP11-682N22.1"	100506136	"mskcc.org"	"GRCh37"	"7"	96257623	96257623	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.591-5668G>C"	""	""	"ENST00000606019"	""	92	"62"	30	50	"50"	0	"SHFM1,intron_variant,,ENST00000417009,;RP11-682N22.1,intron_variant,,ENST00000606019,;SHFM1,intron_variant,,ENST00000466986,;"	"G"	"ENSG00000272377"	"ENST00000606019"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1228"	""	""	""	""	""	"1"	NA	-1	"RP11-682N22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"24979a54-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326086956521739	"WGS"	FALSE
"14835"	"BRI3"	25798	"mskcc.org"	"GRCh37"	"7"	97902347	97902347	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.151-9316A>T"	""	""	"ENST00000456357"	""	81	"74"	7	37	"37"	0	"BRI3,intron_variant,,ENST00000456357,;"	"T"	"ENSG00000164713"	"ENST00000456357"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/667"	""	""	""	""	""	"1"	NA	1	"BRI3"	"HGNC"	1109	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"24980598-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"14836"	"BAIAP2L1"	55971	"mskcc.org"	"GRCh37"	"7"	97946805	97946805	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-137A>G"	""	""	"ENST00000005260"	""	98	"90"	8	37	"37"	0	"BAIAP2L1,intron_variant,,ENST00000005260,NM_018842.4;BAIAP2L1,intron_variant,,ENST00000462558,;BAIAP2L1,intron_variant,,ENST00000473569,;"	"C"	"ENSG00000006453"	"ENST00000005260"	"Transcript"	"intron_variant"	"-/3622"	"-/1536"	"-/511"	""	""	""	"1"	NA	-1	"BAIAP2L1"	"HGNC"	21649	"protein_coding"	"YES"	"CCDS34687.1"	"ENSP00000005260"	"Q9UHR4"	""	"UPI0000035DA9"	"NM_018842.4"	""	""	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"249808fe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WGS"	FALSE
"14837"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	98387177	98387177	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	35	"29"	6	17	"17"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"24983b6c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171428571428571	"WGS"	FALSE
"14838"	"MYH16"	84176	"mskcc.org"	"GRCh37"	"7"	98873041	98873041	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2520+1995C>G"	""	""	"ENST00000439784"	""	110	"67"	43	33	"33"	0	"MYH16,downstream_gene_variant,,ENST00000425880,;MYH16,intron_variant,,ENST00000439784,;MYH16,intron_variant,,ENST00000330888,;"	"G"	"ENSG00000002079"	"ENST00000439784"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/6294"	""	""	""	""	""	"1"	NA	1	"MYH16"	"HGNC"	31038	"unitary_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"20/42"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"24987406-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.390909090909091	"WGS"	FALSE
"14839"	"ZNF655"	79027	"mskcc.org"	"GRCh37"	"7"	99172650	99172650	"+"	"3'UTR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1443G>A"	""	""	"ENST00000424881"	"4/4"	86	"57"	29	66	"66"	0	"ZNF655,3_prime_UTR_variant,,ENST00000424881,NM_001085368.1,NM_001083956.1;ZNF655,3_prime_UTR_variant,,ENST00000425063,;ZNF655,3_prime_UTR_variant,,ENST00000394163,NM_001009960.1,NM_138494.2;ZNF655,downstream_gene_variant,,ENST00000252713,;ZNF655,downstream_gene_variant,,ENST00000493277,;ZNF655,downstream_gene_variant,,ENST00000422164,;ZNF655,downstream_gene_variant,,ENST00000422647,;ZNF655,downstream_gene_variant,,ENST00000454654,;ZNF655,downstream_gene_variant,,ENST00000427931,;ZNF655,downstream_gene_variant,,ENST00000449244,;ZNF655,non_coding_transcript_exon_variant,,ENST00000419215,;GS1-259H13.10,intron_variant,,ENST00000486324,;ZNF655,non_coding_transcript_exon_variant,,ENST00000494357,;GS1-259H13.10,intron_variant,,ENST00000455905,;ZNF655,downstream_gene_variant,,ENST00000412636,;ZNF655,downstream_gene_variant,,ENST00000493947,;"	"A"	"ENSG00000197343"	"ENST00000424881"	"Transcript"	"3_prime_UTR_variant"	"3244/4666"	"-/1581"	"-/526"	""	""	""	"1"	NA	1	"ZNF655"	"HGNC"	30899	"protein_coding"	"YES"	"CCDS47655.1"	"ENSP00000393876"	"Q8N720"	"Q68DU4,F8WEB1,C9JUB9,C9JS03,C9IYG2"	"UPI000020F66D"	"NM_001085368.1,NM_001083956.1"	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"24988fb8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337209302325581	"WGS"	FALSE
"14840"	"AC005020.1"	0	"mskcc.org"	"GRCh37"	"7"	99180215	99180215	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000584735"	""	67	"60"	7	50	"50"	0	"AC005020.1,upstream_gene_variant,,ENST00000584735,;GS1-259H13.10,intron_variant,,ENST00000486324,;GS1-259H13.10,intron_variant,,ENST00000455905,;"	"G"	"ENSG00000265324"	"ENST00000584735"	"Transcript"	"upstream_gene_variant"	"-/85"	""	""	""	""	""	"1"	"4323"	1	"AC005020.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"2498906c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104477611940299	"WGS"	FALSE
"14841"	"ZKSCAN1"	7586	"mskcc.org"	"GRCh37"	"7"	99617102	99617102	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-89+3753T>G"	""	""	"ENST00000324306"	""	84	"78"	6	49	"49"	0	"ZKSCAN1,intron_variant,,ENST00000324306,NM_003439.1,NM_001287055.1;ZKSCAN1,intron_variant,,ENST00000535170,;ZKSCAN1,intron_variant,,ENST00000426572,NM_001287054.1;ZKSCAN1,intron_variant,,ENST00000432317,;ZKSCAN1,intron_variant,,ENST00000482979,;"	"G"	"ENSG00000106261"	"ENST00000324306"	"Transcript"	"intron_variant"	"-/9418"	"-/1692"	"-/563"	""	""	""	"1"	NA	1	"ZKSCAN1"	"HGNC"	13101	"protein_coding"	"YES"	"CCDS34698.1"	"ENSP00000323148"	"P17029"	"E9PC66,C9JRM9,B3KRF7"	"UPI00000726DD"	"NM_003439.1,NM_001287055.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"2498a458-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"14842"	"RN7SL416P"	0	"mskcc.org"	"GRCh37"	"7"	100126797	100126797	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000494042"	""	77	"71"	6	34	"34"	0	"RN7SL416P,downstream_gene_variant,,ENST00000494042,;"	"C"	"ENSG00000242101"	"ENST00000494042"	"Transcript"	"downstream_gene_variant"	"-/296"	""	""	""	""	""	"1"	"1190"	-1	"RN7SL416P"	"HGNC"	46432	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"2498e5f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"14843"	"RN7SL549P"	0	"mskcc.org"	"GRCh37"	"7"	100499606	100499606	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000478997"	""	108	"102"	6	38	"38"	0	"RN7SL549P,downstream_gene_variant,,ENST00000478997,;"	"G"	"ENSG00000239825"	"ENST00000478997"	"Transcript"	"downstream_gene_variant"	"-/279"	""	""	""	""	""	"1"	"4313"	-1	"RN7SL549P"	"HGNC"	46565	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"249914b0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"14844"	"MUC3A"	57876	"mskcc.org"	"GRCh37"	"7"	100608933	100608933	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2270+42A>C"	""	""	"ENST00000319509"	""	78	"69"	9	31	"31"	0	"MUC3A,intron_variant,,ENST00000319509,;MUC3A,intron_variant,,ENST00000422757,;MUC12,upstream_gene_variant,,ENST00000379442,;MUC12,upstream_gene_variant,,ENST00000536621,NM_001164462.1;RP11-395B7.2,intron_variant,,ENST00000420080,;RP11-395B7.2,upstream_gene_variant,,ENST00000434775,;RP11-395B7.2,non_coding_transcript_exon_variant,,ENST00000438198,;MUC3A,intron_variant,,ENST00000483133,;MUC3A,intron_variant,,ENST00000414964,;MUC3A,upstream_gene_variant,,ENST00000480291,;"	"C"	"ENSG00000169894"	"ENST00000319509"	"Transcript"	"intron_variant"	"-/3338"	"-/2631"	"-/876"	""	""	""	"1"	NA	1	"MUC3A"	"HGNC"	7513	"protein_coding"	"YES"	""	"ENSP00000324834"	""	"J3QST7,I0CMK2,H9XFA8"	"UPI000198CE7F"	""	""	""	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"24992798-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"14845"	"MUC12"	10071	"mskcc.org"	"GRCh37"	"7"	100628862	100628862	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.68-5050A>G"	""	""	"ENST00000536621"	""	87	"57"	30	43	"43"	0	"MUC12,intron_variant,,ENST00000379442,;MUC12,intron_variant,,ENST00000536621,NM_001164462.1;"	"G"	"ENSG00000205277"	"ENST00000536621"	"Transcript"	"intron_variant"	"-/16321"	"-/16008"	"-/5335"	""	""	""	"1"	NA	1	"MUC12"	"HGNC"	7510	"protein_coding"	"YES"	"CCDS55139.1"	"ENSP00000441929"	""	"F5GWV9"	"UPI0001B25898"	"NM_001164462.1"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"24992a54-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344827586206897	"WGS"	FALSE
"14846"	"LHFPL3"	375612	"mskcc.org"	"GRCh37"	"7"	104388628	104388628	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"rs146868908"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.682+11270C>A"	""	""	"ENST00000535008"	""	65	"45"	20	36	"36"	0	"LHFPL3,intron_variant,,ENST00000535008,;LHFPL3,intron_variant,,ENST00000424859,NM_199000.2;LHFPL3,intron_variant,,ENST00000543266,;LHFPL3,intron_variant,,ENST00000401970,;LHFPL3-AS1,intron_variant,,ENST00000449764,;LHFPL3-AS1,intron_variant,,ENST00000433514,;"	"A"	"ENSG00000187416"	"ENST00000535008"	"Transcript"	"intron_variant"	"-/3174"	"-/711"	"-/236"	""	""	"rs146868908"	"1"	NA	1	"LHFPL3"	"HGNC"	6589	"protein_coding"	"YES"	""	"ENSP00000444350"	""	"F5GZM2"	"UPI0002065540"	""	""	""	""	"4/4"	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"249a6612-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"14847"	"SNORD112"	0	"mskcc.org"	"GRCh37"	"7"	104615312	104615312	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"rs55990706"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516102"	""	67	"63"	4	17	"17"	0	"SNORD112,downstream_gene_variant,,ENST00000516102,;LINC01004,intron_variant,,ENST00000450686,;"	"T"	"ENSG00000251911"	"ENST00000516102"	"Transcript"	"downstream_gene_variant"	"-/72"	""	""	""	""	"rs55990706"	"1"	"3507"	1	"SNORD112"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"T:0.0142"	"T:0.0333"	"T:0.0014"	NA	"T:0.0248"	"T:0"	"T:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"249a7300-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0597014925373134	"WGS"	FALSE
"14848"	"KMT2E"	55904	"mskcc.org"	"GRCh37"	"7"	104660993	104660993	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-189+6011G>C"	""	""	"ENST00000311117"	""	100	"94"	6	57	"57"	0	"KMT2E,intron_variant,,ENST00000334877,;KMT2E,intron_variant,,ENST00000311117,NM_182931.2;KMT2E,intron_variant,,ENST00000257745,NM_018682.3;KMT2E,intron_variant,,ENST00000334914,;KMT2E,intron_variant,,ENST00000476671,;KMT2E,intron_variant,,ENST00000478990,;KMT2E,intron_variant,,ENST00000495267,;KMT2E,intron_variant,,ENST00000474203,;KMT2E,intron_variant,,ENST00000480368,;KMT2E,intron_variant,,ENST00000334884,;"	"C"	"ENSG00000005483"	"ENST00000311117"	"Transcript"	"intron_variant"	"-/6874"	"-/5577"	"-/1858"	""	""	""	"1"	NA	1	"KMT2E"	"HGNC"	18541	"protein_coding"	"YES"	"CCDS34723.1"	"ENSP00000312379"	"Q8IZD2"	"O95038,C9JQ68,C9JNE1"	"UPI0000074133"	"NM_182931.2"	""	""	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"249a7724-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.06	"WGS"	FALSE
"14849"	"SRPK2"	6733	"mskcc.org"	"GRCh37"	"7"	104859301	104859301	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.72-15069G>A"	""	""	"ENST00000393651"	""	105	"70"	35	68	"68"	0	"SRPK2,intron_variant,,ENST00000357311,NM_182691.2;SRPK2,intron_variant,,ENST00000393651,NM_182692.2;SRPK2,intron_variant,,ENST00000489828,NM_001278273.1;SRPK2,intron_variant,,ENST00000482897,;SRPK2,intron_variant,,ENST00000460391,;SRPK2,intron_variant,,ENST00000462282,;SRPK2,intron_variant,,ENST00000482862,;SRPK2,intron_variant,,ENST00000465112,;"	"T"	"ENSG00000135250"	"ENST00000393651"	"Transcript"	"intron_variant"	"-/3650"	"-/2100"	"-/699"	""	""	""	"1"	NA	-1	"SRPK2"	"HGNC"	11306	"protein_coding"	"YES"	"CCDS34724.1"	"ENSP00000377262"	"P78362"	""	"UPI00001A4785"	"NM_182692.2"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"249a8520-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14850"	"PUS7"	54517	"mskcc.org"	"GRCh37"	"7"	105109548	105109548	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1399-638A>G"	""	""	"ENST00000356362"	""	79	"69"	10	31	"31"	0	"PUS7,intron_variant,,ENST00000356362,NM_019042.3;PUS7,intron_variant,,ENST00000469408,;PUS7,intron_variant,,ENST00000481939,;PUS7,downstream_gene_variant,,ENST00000478208,;"	"C"	"ENSG00000091127"	"ENST00000356362"	"Transcript"	"intron_variant"	"-/3480"	"-/1986"	"-/661"	""	""	""	"1"	NA	-1	"PUS7"	"HGNC"	26033	"protein_coding"	"YES"	"CCDS34725.1"	"ENSP00000348722"	"Q96PZ0"	"A3R6R7"	"UPI00001D483E"	"NM_019042.3"	""	""	""	"11/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"249aa38e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126582278481013	"WGS"	FALSE
"14851"	"CTB-111H14.1"	0	"mskcc.org"	"GRCh37"	"7"	106062564	106062564	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.388-49680G>A"	""	""	"ENST00000490856"	""	85	"53"	32	47	"47"	0	"CTB-111H14.1,intron_variant,,ENST00000490856,;"	"T"	"ENSG00000243797"	"ENST00000490856"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/575"	""	""	""	""	""	"1"	NA	-1	"CTB-111H14.1"	"Clone_based_vega_gene"	NA	"sense_overlapping"	""	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"249ada0c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.376470588235294	"WGS"	FALSE
"14852"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	108482340	108482340	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"86"	5	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"249b51d0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0549450549450549	"WGS"	FALSE
"14853"	"IMMP2L"	83943	"mskcc.org"	"GRCh37"	"7"	111179260	111179260	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-2-17755T>C"	""	""	"ENST00000405709"	""	30	"24"	6	8	"8"	0	"IMMP2L,intron_variant,,ENST00000405709,NM_032549.3;IMMP2L,intron_variant,,ENST00000331762,NM_001244606.1;IMMP2L,intron_variant,,ENST00000447215,;IMMP2L,intron_variant,,ENST00000452895,;IMMP2L,intron_variant,,ENST00000452753,;IMMP2L,intron_variant,,ENST00000492938,;"	"G"	"ENSG00000184903"	"ENST00000405709"	"Transcript"	"intron_variant"	"-/1519"	"-/528"	"-/175"	""	""	""	"1"	NA	-1	"IMMP2L"	"HGNC"	14598	"protein_coding"	"YES"	"CCDS5753.1"	"ENSP00000384966"	"Q96T52"	"C9JVB0,A4D0S9"	"UPI000006D162"	"NM_032549.3"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"249ba842-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"14854"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	114432899	114432899	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"61"	29	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"249c1ec6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.322222222222222	"WGS"	FALSE
"14855"	"RP11-458K10.1"	0	"mskcc.org"	"GRCh37"	"7"	115292858	115292858	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.211-4817T>C"	""	""	"ENST00000471672"	""	113	"74"	39	48	"47"	1	"RP11-458K10.1,intron_variant,,ENST00000471672,;"	"G"	"ENSG00000242072"	"ENST00000471672"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/737"	""	""	""	""	""	"1"	NA	-1	"RP11-458K10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"249c418a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.345132743362832	"WGS"	FALSE
"14856"	"ST7"	93655	"mskcc.org"	"GRCh37"	"7"	116822308	116822308	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1079-7067G>A"	""	""	"ENST00000265437"	""	93	"60"	33	59	"59"	0	"ST7,intron_variant,,ENST00000265437,NM_021908.2;ST7,intron_variant,,ENST00000393443,;ST7,intron_variant,,ENST00000393447,;ST7,intron_variant,,ENST00000323984,;ST7,intron_variant,,ENST00000393449,;ST7,intron_variant,,ENST00000393446,;ST7,intron_variant,,ENST00000393444,;ST7,intron_variant,,ENST00000393451,NM_018412.3;ST7,intron_variant,,ENST00000432298,;ST7,intron_variant,,ENST00000422922,;ST7,intron_variant,,ENST00000446490,;ST7,intron_variant,,ENST00000490039,;ST7,intron_variant,,ENST00000487459,;ST7,intron_variant,,ENST00000489293,;ST7,intron_variant,,ENST00000485394,;ST7,upstream_gene_variant,,ENST00000543837,;ST7,upstream_gene_variant,,ENST00000465641,;ST7,intron_variant,,ENST00000443979,;"	"A"	"ENSG00000004866"	"ENST00000265437"	"Transcript"	"intron_variant"	"-/2899"	"-/1758"	"-/585"	""	""	""	"1"	NA	1	"ST7"	"HGNC"	11351	"protein_coding"	"YES"	"CCDS5770.1"	"ENSP00000265437"	"Q9NRC1"	"Q9NRC0,C9JZV9,C9JX79,C9JRQ0,C9JCI7"	"UPI00000702A3"	"NM_021908.2"	""	""	""	"10/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"249c67a0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.354838709677419	"WGS"	FALSE
"14857"	"CTTNBP2"	83992	"mskcc.org"	"GRCh37"	"7"	117464913	117464913	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.190-13870A>G"	""	""	"ENST00000160373"	""	92	"70"	22	67	"66"	1	"CTTNBP2,intron_variant,,ENST00000160373,NM_033427.2;CTTNBP2,intron_variant,,ENST00000434890,;CTTNBP2,intron_variant,,ENST00000454375,;CTTNBP2,intron_variant,,ENST00000412853,;CTTNBP2,intron_variant,,ENST00000441556,;"	"C"	"ENSG00000077063"	"ENST00000160373"	"Transcript"	"intron_variant"	"-/5970"	"-/4992"	"-/1663"	""	""	""	"1"	NA	-1	"CTTNBP2"	"HGNC"	15679	"protein_coding"	"YES"	"CCDS5774.1"	"ENSP00000160373"	"Q8WZ74"	"Q20BG9,Q20BG7,C9JVQ6,C9JFC9,C9J720"	"UPI000006E94A"	"NM_033427.2"	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"249c7cb8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239130434782609	"WGS"	FALSE
"14858"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	119251642	119251642	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"50"	19	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"249ca01c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27536231884058	"WGS"	FALSE
"14859"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	119576017	119576017	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs112561604"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"59"	33	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs112561604"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0010"	"A:0.003"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"249ca440-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358695652173913	"WGS"	FALSE
"14860"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	119724880	119724880	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"73"	32	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"249ca7f6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304761904761905	"WGS"	FALSE
"14861"	"TSPAN12"	23554	"mskcc.org"	"GRCh37"	"7"	120491166	120491166	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.66+5586A>T"	""	""	"ENST00000222747"	""	92	"62"	30	57	"57"	0	"TSPAN12,intron_variant,,ENST00000222747,NM_012338.3;TSPAN12,intron_variant,,ENST00000415871,;TSPAN12,intron_variant,,ENST00000430985,;TSPAN12,intron_variant,,ENST00000424710,;TSPAN12,intron_variant,,ENST00000433758,;TSPAN12,intron_variant,,ENST00000441017,;"	"A"	"ENSG00000106025"	"ENST00000222747"	"Transcript"	"intron_variant"	"-/2796"	"-/918"	"-/305"	""	""	""	"1"	NA	-1	"TSPAN12"	"HGNC"	21641	"protein_coding"	"YES"	"CCDS5777.1"	"ENSP00000222747"	"O95859"	"C9JQM0,C9JC05,C9J9U1,C9IZ82"	"UPI00000389F8"	"NM_012338.3"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"249cb9bc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326086956521739	"WGS"	FALSE
"14862"	"ASB15"	142685	"mskcc.org"	"GRCh37"	"7"	123221660	123221660	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-443+14518A>C"	""	""	"ENST00000451558"	""	77	"52"	25	41	"41"	0	"ASB15,intron_variant,,ENST00000451558,;RP11-390E23.3,downstream_gene_variant,,ENST00000422401,;"	"C"	"ENSG00000146809"	"ENST00000451558"	"Transcript"	"intron_variant"	"-/3204"	"-/1767"	"-/588"	""	""	""	"1"	NA	1	"ASB15"	"HGNC"	19767	"protein_coding"	"YES"	"CCDS34742.1"	"ENSP00000397655"	"Q8WXK1"	"C9J956"	"UPI000022D0FF"	""	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"249d14de-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324675324675325	"WGS"	FALSE
"14863"	"ASB15"	142685	"mskcc.org"	"GRCh37"	"7"	123239039	123239039	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-442-5047A>T"	""	""	"ENST00000451558"	""	80	"55"	25	44	"44"	0	"ASB15,intron_variant,,ENST00000451558,;ASB15,upstream_gene_variant,,ENST00000451215,;ASB15,upstream_gene_variant,,ENST00000434204,;ASB15,upstream_gene_variant,,ENST00000437535,;RP11-390E23.3,intron_variant,,ENST00000422401,;"	"T"	"ENSG00000146809"	"ENST00000451558"	"Transcript"	"intron_variant"	"-/3204"	"-/1767"	"-/588"	""	""	""	"1"	NA	1	"ASB15"	"HGNC"	19767	"protein_coding"	"YES"	"CCDS34742.1"	"ENSP00000397655"	"Q8WXK1"	"C9J956"	"UPI000022D0FF"	""	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"249d1588-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3125	"WGS"	FALSE
"14864"	"ASB15"	142685	"mskcc.org"	"GRCh37"	"7"	123255259	123255259	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.107+596A>G"	""	""	"ENST00000451558"	""	103	"70"	33	54	"54"	0	"ASB15,intron_variant,,ENST00000451558,;ASB15,intron_variant,,ENST00000451215,;ASB15,intron_variant,,ENST00000434204,;ASB15,intron_variant,,ENST00000540573,;ASB15,intron_variant,,ENST00000275699,NM_080928.3;ASB15,intron_variant,,ENST00000447789,;ASB15,intron_variant,,ENST00000437535,;RP11-390E23.3,intron_variant,,ENST00000440504,;RP11-390E23.3,intron_variant,,ENST00000422401,;RP11-390E23.3,downstream_gene_variant,,ENST00000429396,;RP11-390E23.3,downstream_gene_variant,,ENST00000418409,;"	"G"	"ENSG00000146809"	"ENST00000451558"	"Transcript"	"intron_variant"	"-/3204"	"-/1767"	"-/588"	""	""	""	"1"	NA	1	"ASB15"	"HGNC"	19767	"protein_coding"	"YES"	"CCDS34742.1"	"ENSP00000397655"	"Q8WXK1"	"C9J956"	"UPI000022D0FF"	""	""	""	""	"6/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"249d16f0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.320388349514563	"WGS"	FALSE
"14865"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	123440821	123440821	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"75"	6	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"249d1f4c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"14866"	"HYALP1"	26062	"mskcc.org"	"GRCh37"	"7"	123456556	123456556	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.893+1471T>A"	""	""	"ENST00000417674"	""	104	"59"	45	49	"49"	0	"HYALP1,intron_variant,,ENST00000417674,;"	"A"	"ENSG00000228211"	"ENST00000417674"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1279"	""	""	""	""	""	"1"	NA	1	"HYALP1"	"HGNC"	5324	"unitary_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"249d2000-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.432692307692308	"WGS"	FALSE
"14867"	"RP5-921G16.1"	0	"mskcc.org"	"GRCh37"	"7"	123839233	123839233	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.168+149955G>A"	""	""	"ENST00000484322"	""	78	"48"	30	56	"56"	0	"RP5-921G16.1,intron_variant,,ENST00000484322,;"	"A"	"ENSG00000242593"	"ENST00000484322"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4310"	""	""	""	""	""	"1"	NA	1	"RP5-921G16.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"249d2d0c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.384615384615385	"WGS"	FALSE
"14868"	"RP5-921G16.1"	0	"mskcc.org"	"GRCh37"	"7"	123863297	123863297	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.169-129573A>T"	""	""	"ENST00000484322"	""	103	"64"	39	50	"50"	0	"RP5-921G16.1,intron_variant,,ENST00000484322,;"	"T"	"ENSG00000242593"	"ENST00000484322"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4310"	""	""	""	""	""	"1"	NA	1	"RP5-921G16.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"249d2db6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.378640776699029	"WGS"	FALSE
"14869"	"AHCYL2"	23382	"mskcc.org"	"GRCh37"	"7"	129036314	129036314	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.721-749G>C"	""	""	"ENST00000325006"	""	90	"81"	9	37	"37"	0	"AHCYL2,intron_variant,,ENST00000325006,NM_001130720.2,NM_015328.3;AHCYL2,intron_variant,,ENST00000446212,NM_001130723.2;AHCYL2,intron_variant,,ENST00000446544,;AHCYL2,intron_variant,,ENST00000531335,;AHCYL2,intron_variant,,ENST00000474594,;AHCYL2,intron_variant,,ENST00000490911,NM_001130722.2;AHCYL2,intron_variant,,ENST00000466924,;AHCYL2,intron_variant,,ENST00000466993,;AHCYL2,intron_variant,,ENST00000472554,;AHCYL2,intron_variant,,ENST00000461161,;AHCYL2,intron_variant,,ENST00000491079,;AHCYL2,upstream_gene_variant,,ENST00000492628,;"	"C"	"ENSG00000158467"	"ENST00000325006"	"Transcript"	"intron_variant"	"-/5056"	"-/1836"	"-/611"	""	""	""	"1"	NA	1	"AHCYL2"	"HGNC"	22204	"protein_coding"	"YES"	"CCDS5812.1"	"ENSP00000315931"	"Q96HN2"	""	"UPI00001354E4"	"NM_001130720.2,NM_015328.3"	""	""	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"249e07ae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"14870"	"NRF1"	4899	"mskcc.org"	"GRCh37"	"7"	129331009	129331009	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.606+623A>G"	""	""	"ENST00000393232"	""	74	"67"	7	44	"44"	0	"NRF1,intron_variant,,ENST00000393232,NM_005011.3;NRF1,intron_variant,,ENST00000393230,NM_001040110.1;NRF1,intron_variant,,ENST00000353868,;NRF1,intron_variant,,ENST00000311967,;NRF1,intron_variant,,ENST00000223190,;NRF1,intron_variant,,ENST00000393231,;NRF1,intron_variant,,ENST00000539636,;NRF1,intron_variant,,ENST00000454688,;"	"G"	"ENSG00000106459"	"ENST00000393232"	"Transcript"	"intron_variant"	"-/3528"	"-/1512"	"-/503"	""	""	""	"1"	NA	1	"NRF1"	"HGNC"	7996	"protein_coding"	"YES"	"CCDS5813.2"	"ENSP00000376924"	"Q16656"	"C9JP85,B4DDV6"	"UPI000003BB3B"	"NM_005011.3"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"249e1b0e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	FALSE
"14871"	"AC073320.1"	0	"mskcc.org"	"GRCh37"	"7"	129625572	129625572	"+"	"RNA"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.16T>G"	""	""	"ENST00000577493"	"1/1"	62	"54"	8	34	"34"	0	"AC073320.1,mature_miRNA_variant,,ENST00000577493,;RP11-306G20.1,intron_variant,,ENST00000587038,;"	"C"	"ENSG00000263557"	"ENST00000577493"	"Transcript"	"mature_miRNA_variant"	"16/101"	""	""	""	""	""	"1"	NA	-1	"AC073320.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"249e3382-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"14872"	"AC073320.1"	0	"mskcc.org"	"GRCh37"	"7"	129625573	129625573	"+"	"RNA"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.15T>C"	""	""	"ENST00000577493"	"1/1"	63	"56"	7	34	"34"	0	"AC073320.1,mature_miRNA_variant,,ENST00000577493,;RP11-306G20.1,intron_variant,,ENST00000587038,;"	"G"	"ENSG00000263557"	"ENST00000577493"	"Transcript"	"mature_miRNA_variant"	"15/101"	""	""	""	""	""	"1"	NA	-1	"AC073320.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"249e3436-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"14873"	"RP11-2E11.5"	0	"mskcc.org"	"GRCh37"	"7"	130116468	130116468	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000562524"	""	88	"61"	27	47	"47"	0	"RP11-2E11.5,downstream_gene_variant,,ENST00000562524,;"	"T"	"ENSG00000259920"	"ENST00000562524"	"Transcript"	"downstream_gene_variant"	"-/2902"	""	""	""	""	""	"1"	"4864"	-1	"RP11-2E11.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"249e5c2c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306818181818182	"WGS"	FALSE
"14874"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	131757309	131757309	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"51"	35	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"249ed0c6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.406976744186047	"WGS"	FALSE
"14875"	"EXOC4"	60412	"mskcc.org"	"GRCh37"	"7"	133282618	133282618	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1418-32180T>A"	""	""	"ENST00000253861"	""	70	"65"	5	28	"28"	0	"EXOC4,intron_variant,,ENST00000253861,NM_021807.3;EXOC4,intron_variant,,ENST00000545148,;EXOC4,intron_variant,,ENST00000539845,;EXOC4,intron_variant,,ENST00000469115,;EXOC4,intron_variant,,ENST00000482089,;EXOC4,intron_variant,,ENST00000486409,;EXOC4,intron_variant,,ENST00000489931,;EXOC4,intron_variant,,ENST00000483800,;EXOC4,intron_variant,,ENST00000479839,;EXOC4,upstream_gene_variant,,ENST00000460346,;EXOC4,intron_variant,,ENST00000486013,;"	"A"	"ENSG00000131558"	"ENST00000253861"	"Transcript"	"intron_variant"	"-/4185"	"-/2925"	"-/974"	""	""	""	"1"	NA	1	"EXOC4"	"HGNC"	30389	"protein_coding"	"YES"	"CCDS5829.1"	"ENSP00000253861"	"Q96A65"	"B7Z4J9,B7Z321"	"UPI0000135758"	"NM_021807.3"	""	""	""	"9/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"249f1dd8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"14876"	"C7orf73"	647087	"mskcc.org"	"GRCh37"	"7"	135351122	135351122	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.15+3780C>A"	""	""	"ENST00000507606"	""	103	"95"	8	52	"52"	0	"C7orf73,intron_variant,,ENST00000507606,NM_001130929.1;RNU6-1154P,upstream_gene_variant,,ENST00000391001,;C7orf73,intron_variant,,ENST00000422968,;C7orf73,intron_variant,,ENST00000509448,;C7orf73,intron_variant,,ENST00000515197,;"	"A"	"ENSG00000243317"	"ENST00000507606"	"Transcript"	"intron_variant"	"-/1262"	"-/144"	"-/47"	""	""	""	"1"	NA	1	"C7orf73"	"HGNC"	41909	"protein_coding"	"YES"	"CCDS55168.1"	"ENSP00000425996"	"E0CX11"	""	"UPI000020FB70"	"NM_001130929.1"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"249f735a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0776699029126214	"WGS"	FALSE
"14877"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	138074520	138074520	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"73"	9	26	"26"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"249ff79e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109756097560976	"WGS"	FALSE
"14878"	"TBXAS1"	6916	"mskcc.org"	"GRCh37"	"7"	139691256	139691256	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1276-15635A>C"	""	""	"ENST00000416849"	""	78	"55"	23	40	"40"	0	"TBXAS1,intron_variant,,ENST00000263552,NM_001130966.2;TBXAS1,intron_variant,,ENST00000416849,NM_001166253.1;TBXAS1,intron_variant,,ENST00000336425,;TBXAS1,intron_variant,,ENST00000425687,NM_001166254.1;TBXAS1,intron_variant,,ENST00000436047,NM_001061.4;TBXAS1,intron_variant,,ENST00000458722,;TBXAS1,intron_variant,,ENST00000448866,;TBXAS1,intron_variant,,ENST00000414508,NM_030984.3;TBXAS1,intron_variant,,ENST00000411653,;TBXAS1,intron_variant,,ENST00000462275,;TBXAS1,intron_variant,,ENST00000422328,;"	"C"	"ENSG00000059377"	"ENST00000416849"	"Transcript"	"intron_variant"	"-/2202"	"-/1743"	"-/580"	""	""	""	"1"	NA	1	"TBXAS1"	"HGNC"	11609	"protein_coding"	"YES"	"CCDS55174.1"	"ENSP00000389414"	""	"F8WD37,E7EP08,C9JS68,C9J8N6"	"UPI0001AE7134"	"NM_001166253.1"	""	""	""	"10/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"24a09410-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294871794871795	"WGS"	FALSE
"14879"	"TBXAS1"	6916	"mskcc.org"	"GRCh37"	"7"	139691257	139691257	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1276-15634G>C"	""	""	"ENST00000416849"	""	79	"55"	24	40	"40"	0	"TBXAS1,intron_variant,,ENST00000263552,NM_001130966.2;TBXAS1,intron_variant,,ENST00000416849,NM_001166253.1;TBXAS1,intron_variant,,ENST00000336425,;TBXAS1,intron_variant,,ENST00000425687,NM_001166254.1;TBXAS1,intron_variant,,ENST00000436047,NM_001061.4;TBXAS1,intron_variant,,ENST00000458722,;TBXAS1,intron_variant,,ENST00000448866,;TBXAS1,intron_variant,,ENST00000414508,NM_030984.3;TBXAS1,intron_variant,,ENST00000411653,;TBXAS1,intron_variant,,ENST00000462275,;TBXAS1,intron_variant,,ENST00000422328,;"	"C"	"ENSG00000059377"	"ENST00000416849"	"Transcript"	"intron_variant"	"-/2202"	"-/1743"	"-/580"	""	""	""	"1"	NA	1	"TBXAS1"	"HGNC"	11609	"protein_coding"	"YES"	"CCDS55174.1"	"ENSP00000389414"	""	"F8WD37,E7EP08,C9JS68,C9J8N6"	"UPI0001AE7134"	"NM_001166253.1"	""	""	""	"10/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"24a094c4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30379746835443	"WGS"	FALSE
"14880"	"RAB19"	401409	"mskcc.org"	"GRCh37"	"7"	140123768	140123768	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.386-1914C>T"	""	""	"ENST00000537763"	""	88	"80"	8	23	"23"	0	"RAB19,intron_variant,,ENST00000275874,;RAB19,intron_variant,,ENST00000537763,NM_001008749.2;RAB19,intron_variant,,ENST00000356407,;RAB19,intron_variant,,ENST00000495590,;"	"T"	"ENSG00000146955"	"ENST00000537763"	"Transcript"	"intron_variant"	"-/952"	"-/654"	"-/217"	""	""	""	"1"	NA	1	"RAB19"	"HGNC"	19982	"protein_coding"	"YES"	"CCDS34762.2"	"ENSP00000440167"	"A4D1S5"	"C9JJQ5"	"UPI000013DA89"	"NM_001008749.2"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"24a0bdfa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"14881"	"RAB19"	401409	"mskcc.org"	"GRCh37"	"7"	140124043	140124043	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.386-1639T>C"	""	""	"ENST00000537763"	""	84	"77"	7	40	"40"	0	"RAB19,intron_variant,,ENST00000275874,;RAB19,intron_variant,,ENST00000537763,NM_001008749.2;RAB19,intron_variant,,ENST00000356407,;RAB19,intron_variant,,ENST00000495590,;"	"C"	"ENSG00000146955"	"ENST00000537763"	"Transcript"	"intron_variant"	"-/952"	"-/654"	"-/217"	""	""	""	"1"	NA	1	"RAB19"	"HGNC"	19982	"protein_coding"	"YES"	"CCDS34762.2"	"ENSP00000440167"	"A4D1S5"	"C9JJQ5"	"UPI000013DA89"	"NM_001008749.2"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"24a0bf8a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"14882"	"MKRN1"	23608	"mskcc.org"	"GRCh37"	"7"	140170303	140170303	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.314+1380A>G"	""	""	"ENST00000255977"	""	99	"90"	9	33	"33"	0	"MKRN1,intron_variant,,ENST00000255977,NM_013446.3;MKRN1,intron_variant,,ENST00000474576,;MKRN1,intron_variant,,ENST00000443720,NM_001145125.1;MKRN1,intron_variant,,ENST00000437223,;MKRN1,intron_variant,,ENST00000467513,;MKRN1,intron_variant,,ENST00000471104,;MKRN1,intron_variant,,ENST00000480552,;MKRN1,intron_variant,,ENST00000494939,;MKRN1,intron_variant,,ENST00000473444,;MKRN1,intron_variant,,ENST00000481705,;MKRN1,intron_variant,,ENST00000475010,;MKRN1,intron_variant,,ENST00000496169,;MKRN1,intron_variant,,ENST00000495305,;MKRN1,intron_variant,,ENST00000498535,;MKRN1,intron_variant,,ENST00000475180,;"	"C"	"ENSG00000133606"	"ENST00000255977"	"Transcript"	"intron_variant"	"-/3151"	"-/1449"	"-/482"	""	""	""	"1"	NA	-1	"MKRN1"	"HGNC"	7112	"protein_coding"	"YES"	"CCDS5860.1"	"ENSP00000255977"	"Q9UHC7"	"F5H0I9,C9JYX8,C9J031,C9IY57"	"UPI0000001C5F"	"NM_013446.3"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"24a0c96c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"14883"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	140199819	140199819	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	65	"59"	6	26	"26"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"24a0d16e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"14884"	"TMEM178B"	100507421	"mskcc.org"	"GRCh37"	"7"	141173439	141173439	"+"	"3'UTR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*2853G>A"	""	""	"ENST00000565468"	"4/4"	95	"71"	24	54	"54"	0	"TMEM178B,3_prime_UTR_variant,,ENST00000565468,NM_001195278.1;"	"A"	"ENSG00000261115"	"ENST00000565468"	"Transcript"	"3_prime_UTR_variant"	"3817/10558"	"-/885"	"-/294"	""	""	""	"1"	NA	1	"TMEM178B"	"HGNC"	44112	"protein_coding"	"YES"	"CCDS59086.1"	"ENSP00000456594"	"H3BS89"	""	"UPI0000E217DE"	"NM_001195278.1"	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"24a10986-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252631578947368	"WGS"	FALSE
"14885"	"RP4-545C24.1"	101928605	"mskcc.org"	"GRCh37"	"7"	143904054	143904054	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.390-732A>C"	""	""	"ENST00000498693"	""	83	"64"	19	40	"40"	0	"ARHGEF35,intron_variant,,ENST00000543357,;RP4-545C24.1,intron_variant,,ENST00000498693,;RP4-545C24.1,intron_variant,,ENST00000464929,;RP4-545C24.1,intron_variant,,ENST00000474656,;RP4-545C24.1,intron_variant,,ENST00000460955,;RP4-545C24.1,intron_variant,,ENST00000480074,;RP4-545C24.1,intron_variant,,ENST00000493248,;RP4-545C24.1,upstream_gene_variant,,ENST00000489077,;RP4-545C24.1,upstream_gene_variant,,ENST00000477797,;"	"C"	"ENSG00000244198"	"ENST00000498693"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/856"	""	""	""	""	""	"1"	NA	1	"RP4-545C24.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"24a15ea4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228915662650602	"WGS"	FALSE
"14886"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	144615184	144615184	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"97"	6	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"24a19126-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.058252427184466	"WGS"	FALSE
"14887"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	144615190	144615190	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"97"	7	43	"43"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"24a191da-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0673076923076923	"WGS"	FALSE
"14888"	"CNTNAP2"	26047	"mskcc.org"	"GRCh37"	"7"	146485175	146485175	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.208+13702C>T"	""	""	"ENST00000361727"	""	80	"54"	26	42	"42"	0	"CNTNAP2,intron_variant,,ENST00000361727,NM_014141.5;"	"T"	"ENSG00000174469"	"ENST00000361727"	"Transcript"	"intron_variant"	"-/9894"	"-/3996"	"-/1331"	""	""	""	"1"	NA	1	"CNTNAP2"	"HGNC"	13830	"protein_coding"	"YES"	"CCDS5889.1"	"ENSP00000354778"	"Q9UHC6"	"Q9UDV4,Q96T77,Q86UL9,Q86UL6,Q86UL4,Q86UJ1,Q86UI8,Q75MQ9,Q75MF8,Q75MF6,Q75MD4,Q75MA1,Q75M92,Q75LG9,O75852,B7Z1Y6"	"UPI00001285FA"	"NM_014141.5"	""	""	""	"2/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"24a1d1ea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325	"WGS"	FALSE
"14889"	"CNTNAP2"	26047	"mskcc.org"	"GRCh37"	"7"	147366761	147366761	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2098+30363G>A"	""	""	"ENST00000361727"	""	88	"59"	29	56	"56"	0	"CNTNAP2,intron_variant,,ENST00000361727,NM_014141.5;CNTNAP2,intron_variant,,ENST00000455301,;AC005518.2,upstream_gene_variant,,ENST00000448131,;"	"A"	"ENSG00000174469"	"ENST00000361727"	"Transcript"	"intron_variant"	"-/9894"	"-/3996"	"-/1331"	""	""	""	"1"	NA	1	"CNTNAP2"	"HGNC"	13830	"protein_coding"	"YES"	"CCDS5889.1"	"ENSP00000354778"	"Q9UHC6"	"Q9UDV4,Q96T77,Q86UL9,Q86UL6,Q86UL4,Q86UJ1,Q86UI8,Q75MQ9,Q75MF8,Q75MF6,Q75MD4,Q75MA1,Q75M92,Q75LG9,O75852,B7Z1Y6"	"UPI00001285FA"	"NM_014141.5"	""	""	""	"13/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"24a1f6b6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329545454545455	"WGS"	FALSE
"14890"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	148194843	148194843	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"59"	33	32	"32"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"24a21c5e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.358695652173913	"WGS"	FALSE
"14891"	"RNY3"	6085	"mskcc.org"	"GRCh37"	"7"	148677628	148677628	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000365484"	""	81	"72"	9	40	"40"	0	"RNY3,upstream_gene_variant,,ENST00000365484,NR_004392.1;"	"C"	"ENSG00000202354"	"ENST00000365484"	"Transcript"	"upstream_gene_variant"	"-/102"	""	""	""	""	""	"1"	"3219"	1	"RNY3"	"HGNC"	10243	"misc_RNA"	"YES"	""	""	""	""	""	"NR_004392.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"24a2346e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"14892"	"SSPO"	0	"mskcc.org"	"GRCh37"	"7"	149527399	149527399	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.15143-825T>A"	""	""	"ENST00000378016"	""	25	"21"	4	19	"19"	0	"SSPO,intron_variant,,ENST00000378016,;SSPO,intron_variant,,ENST00000493567,;SSPO,downstream_gene_variant,,ENST00000492965,;SSPO,downstream_gene_variant,,ENST00000488835,;SSPO,downstream_gene_variant,,ENST00000461331,;SSPO,intron_variant,,ENST00000465639,;SSPO,intron_variant,,ENST00000472850,;"	"A"	"ENSG00000197558"	"ENST00000378016"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/15583"	""	""	""	""	""	"1"	NA	1	"SSPO"	"HGNC"	21998	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"106/108"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"24a27de8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WGS"	FALSE
"14893"	"CDK5"	1020	"mskcc.org"	"GRCh37"	"7"	150753943	150753943	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.194+52G>C"	""	""	"ENST00000485972"	""	84	"52"	32	59	"59"	0	"CDK5,intron_variant,,ENST00000485972,NM_004935.3;CDK5,intron_variant,,ENST00000297518,NM_001164410.1;SLC4A2,upstream_gene_variant,,ENST00000485713,NM_001199692.1;SLC4A2,upstream_gene_variant,,ENST00000413384,NM_003040.3;SLC4A2,upstream_gene_variant,,ENST00000310317,;ASIC3,downstream_gene_variant,,ENST00000357922,NM_020322.3;ASIC3,downstream_gene_variant,,ENST00000349064,NM_004769.3,NM_020321.3;ASIC3,downstream_gene_variant,,ENST00000297512,;SLC4A2,upstream_gene_variant,,ENST00000463414,;SLC4A2,upstream_gene_variant,,ENST00000490898,;SLC4A2,upstream_gene_variant,,ENST00000488420,;SLC4A2,upstream_gene_variant,,ENST00000483786,;ASIC3,downstream_gene_variant,,ENST00000490540,;ASIC3,downstream_gene_variant,,ENST00000485929,;SLC4A2,upstream_gene_variant,,ENST00000482950,;SLC4A2,upstream_gene_variant,,ENST00000466368,;CDK5,non_coding_transcript_exon_variant,,ENST00000469108,;CDK5,intron_variant,,ENST00000487703,;ASIC3,downstream_gene_variant,,ENST00000377904,;ASIC3,downstream_gene_variant,,ENST00000468325,;ASIC3,downstream_gene_variant,,ENST00000498105,;SLC4A2,upstream_gene_variant,,ENST00000494125,;CDK5,upstream_gene_variant,,ENST00000476691,;"	"G"	"ENSG00000164885"	"ENST00000485972"	"Transcript"	"intron_variant"	"-/1758"	"-/879"	"-/292"	""	""	""	"1"	NA	-1	"CDK5"	"HGNC"	1774	"protein_coding"	"YES"	"CCDS47748.1"	"ENSP00000419782"	"Q00535"	""	"UPI0000113588"	"NM_004935.3"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"24a2f64c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.380952380952381	"WGS"	FALSE
"14894"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	152378543	152378543	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"75"	7	28	"28"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"24a40f3c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"14895"	"DPP6"	1804	"mskcc.org"	"GRCh37"	"7"	153977827	153977827	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.244-165472C>T"	""	""	"ENST00000377770"	""	81	"59"	22	57	"57"	0	"DPP6,intron_variant,,ENST00000404039,NM_130797.2,NM_001936.3,NM_001039350.1;DPP6,intron_variant,,ENST00000377770,;DPP6,intron_variant,,ENST00000406326,;"	"T"	"ENSG00000130226"	"ENST00000377770"	"Transcript"	"intron_variant"	"-/3710"	"-/2598"	"-/865"	""	""	""	"1"	NA	1	"DPP6"	"HGNC"	3010	"protein_coding"	"YES"	""	"ENSP00000367001"	"P42658"	"Q75MI8,Q75MI7,Q75MF0"	"UPI00001AE746"	""	""	""	""	"1/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"24a4a49c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271604938271605	"WGS"	FALSE
"14896"	"DPP6"	1804	"mskcc.org"	"GRCh37"	"7"	154055310	154055310	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.244-87989A>G"	""	""	"ENST00000377770"	""	83	"55"	28	47	"47"	0	"DPP6,intron_variant,,ENST00000404039,NM_130797.2,NM_001936.3,NM_001039350.1;DPP6,intron_variant,,ENST00000332007,;DPP6,intron_variant,,ENST00000377770,;DPP6,intron_variant,,ENST00000427557,;DPP6,intron_variant,,ENST00000406326,;DPP6,intron_variant,,ENST00000496611,;DPP6,intron_variant,,ENST00000462622,;"	"G"	"ENSG00000130226"	"ENST00000377770"	"Transcript"	"intron_variant"	"-/3710"	"-/2598"	"-/865"	""	""	""	"1"	NA	1	"DPP6"	"HGNC"	3010	"protein_coding"	"YES"	""	"ENSP00000367001"	"P42658"	"Q75MI8,Q75MI7,Q75MF0"	"UPI00001AE746"	""	""	""	""	"1/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"24a4a80c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337349397590361	"WGS"	FALSE
"14897"	"DNAJB6"	10049	"mskcc.org"	"GRCh37"	"7"	157196287	157196287	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.692-6202T>C"	""	""	"ENST00000262177"	""	108	"99"	9	43	"43"	0	"DNAJB6,intron_variant,,ENST00000262177,NM_058246.3;DNAJB6,intron_variant,,ENST00000452797,;DNAJB6,intron_variant,,ENST00000443280,;DNAJB6,intron_variant,,ENST00000465908,;DNAJB6,intron_variant,,ENST00000459889,;"	"C"	"ENSG00000105993"	"ENST00000262177"	"Transcript"	"intron_variant"	"-/2527"	"-/981"	"-/326"	""	""	""	"1"	NA	1	"DNAJB6"	"HGNC"	14888	"protein_coding"	"YES"	"CCDS5946.1"	"ENSP00000262177"	"O75190"	"Q75MP3,C9JN01,C9JDX6,C9JDR7,C9JB42,C9J2P2,C9J2C4"	"UPI0000129436"	"NM_058246.3"	""	""	""	"8/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"24a5c30e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"14898"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	157542011	157542011	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1789-66382G>C"	""	""	"ENST00000389418"	""	25	"21"	4	15	"15"	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"G"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	""	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	""	""	""	"12/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"24a63ae6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WGS"	FALSE
"14899"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	157880432	157880432	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1644-6363A>G"	""	""	"ENST00000389418"	""	13	"9"	4	7	"7"	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"C"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	""	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	""	""	""	"10/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"24a6c380-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"14900"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	158178856	158178856	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.164-69232G>A"	""	""	"ENST00000389418"	""	72	"65"	7	44	"44"	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"T"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	""	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"24a7701e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"14901"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	158244777	158244777	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.163+37650C>A"	""	""	"ENST00000389418"	""	82	"49"	33	47	"47"	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"T"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	""	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	""	""	""	"2/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"24a7ae08-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.402439024390244	"WGS"	FALSE
"14902"	"CTD-2281E23.2"	0	"mskcc.org"	"GRCh37"	"8"	1205105	1205105	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.201-3746T>A"	""	""	"ENST00000522989"	""	53	"49"	4	21	"21"	0	"CTD-2281E23.2,intron_variant,,ENST00000522989,;CTD-2281E23.2,intron_variant,,ENST00000520524,;CTD-2281E23.2,upstream_gene_variant,,ENST00000522626,;"	"A"	"ENSG00000254269"	"ENST00000522989"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/539"	""	""	""	""	""	"1"	NA	1	"CTD-2281E23.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"24a9d138-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0754716981132075	"WGS"	FALSE
"14903"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	1363785	1363785	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"58"	28	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"24aa4b90-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325581395348837	"WGS"	FALSE
"14904"	"ARHGEF10"	9639	"mskcc.org"	"GRCh37"	"8"	1801984	1801984	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.38-4142C>T"	""	""	"ENST00000349830"	""	88	"61"	27	31	"31"	0	"ARHGEF10,intron_variant,,ENST00000518288,;ARHGEF10,intron_variant,,ENST00000349830,NM_014629.2;ARHGEF10,intron_variant,,ENST00000398564,;ARHGEF10,intron_variant,,ENST00000520359,;ARHGEF10,intron_variant,,ENST00000262112,;ARHGEF10,intron_variant,,ENST00000398560,;ARHGEF10,upstream_gene_variant,,ENST00000382795,;"	"T"	"ENSG00000104728"	"ENST00000349830"	"Transcript"	"intron_variant"	"-/5590"	"-/4035"	"-/1344"	""	""	""	"1"	NA	1	"ARHGEF10"	"HGNC"	14103	"protein_coding"	"YES"	"CCDS34794.1"	"ENSP00000340297"	"O15013"	""	"UPI00005054FE"	"NM_014629.2"	""	""	""	"2/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"24aae820-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306818181818182	"WGS"	FALSE
"14905"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	4072704	4072704	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.416-183083C>G"	""	""	"ENST00000537824"	""	89	"82"	7	59	"59"	0	"CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;"	"C"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	""	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	""	""	""	"3/69"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"24abda82-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	FALSE
"14906"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	4122686	4122686	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.415+154789T>A"	""	""	"ENST00000537824"	""	86	"55"	31	43	"43"	0	"CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;"	"T"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	""	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	""	""	""	"3/69"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"24abddfc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36046511627907	"WGS"	FALSE
"14907"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	4616324	4616324	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.86-121244G>T"	""	""	"ENST00000537824"	""	88	"68"	20	55	"55"	0	"CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;"	"A"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	""	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	""	""	""	"1/69"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"24abf418-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"14908"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	6127159	6127159	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"77"	6	38	"38"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"24ac352c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072289156626506	"WGS"	FALSE
"14909"	"PPP1R3B"	79660	"mskcc.org"	"GRCh37"	"8"	8992310	8992310	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000310455"	""	90	"53"	37	51	"51"	0	"PPP1R3B,downstream_gene_variant,,ENST00000310455,NM_024607.3,NM_001201329.1;PPP1R3B,downstream_gene_variant,,ENST00000519699,;"	"T"	"ENSG00000173281"	"ENST00000310455"	"Transcript"	"downstream_gene_variant"	"-/5548"	"-/858"	"-/285"	""	""	""	"1"	"1455"	-1	"PPP1R3B"	"HGNC"	14942	"protein_coding"	"YES"	"CCDS5973.1"	"ENSP00000308318"	"Q86XI6"	""	"UPI000000DA40"	"NM_024607.3,NM_001201329.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"24adcbbc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.411111111111111	"WGS"	FALSE
"14910"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	9839276	9839276	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"64"	29	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"24adf952-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311827956989247	"WGS"	FALSE
"14911"	"LINC00529"	0	"mskcc.org"	"GRCh37"	"8"	11121688	11121688	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.77+3610G>A"	""	""	"ENST00000443854"	""	101	"67"	34	48	"48"	0	"LINC00529,intron_variant,,ENST00000443854,;"	"T"	"ENSG00000236827"	"ENST00000443854"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/241"	""	""	""	""	""	"1"	NA	-1	"LINC00529"	"HGNC"	15544	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"24ae367e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336633663366337	"WGS"	FALSE
"14912"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	12709360	12709360	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"48"	43	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"24af16b6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.472527472527473	"WGS"	FALSE
"14913"	"SGCZ"	137868	"mskcc.org"	"GRCh37"	"8"	14624869	14624869	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs186125200"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.40-212434C>T"	""	""	"ENST00000382080"	""	89	"55"	34	58	"58"	0	"SGCZ,intron_variant,,ENST00000382080,NM_139167.2;"	"A"	"ENSG00000185053"	"ENST00000382080"	"Transcript"	"intron_variant"	"-/2234"	"-/939"	"-/312"	""	""	"rs186125200"	"1"	NA	-1	"SGCZ"	"HGNC"	14075	"protein_coding"	"YES"	"CCDS5992.2"	"ENSP00000371512"	"Q96LD1"	""	"UPI00002339F6"	"NM_139167.2"	""	""	""	"1/7"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"24af5d24-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.382022471910112	"WGS"	FALSE
"14914"	"ZDHHC2"	51201	"mskcc.org"	"GRCh37"	"8"	17034093	17034093	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.131-8205T>G"	""	""	"ENST00000262096"	""	83	"59"	24	57	"57"	0	"ZDHHC2,intron_variant,,ENST00000262096,NM_016353.4;ZDHHC2,intron_variant,,ENST00000522184,;ZDHHC2,intron_variant,,ENST00000523132,;"	"G"	"ENSG00000104219"	"ENST00000262096"	"Transcript"	"intron_variant"	"-/6377"	"-/1104"	"-/367"	""	""	""	"1"	NA	1	"ZDHHC2"	"HGNC"	18469	"protein_coding"	"YES"	"CCDS47810.1"	"ENSP00000262096"	"Q9UIJ5"	"E5RFZ7,B3KMD6"	"UPI000004A02F"	"NM_016353.4"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"24afae96-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.289156626506024	"WGS"	FALSE
"14915"	"MTUS1"	57509	"mskcc.org"	"GRCh37"	"8"	17654756	17654756	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-155+3351A>G"	""	""	"ENST00000262102"	""	74	"66"	8	45	"45"	0	"MTUS1,intron_variant,,ENST00000381869,NM_001001925.2;MTUS1,intron_variant,,ENST00000262102,NM_001001924.2;MTUS1,intron_variant,,ENST00000381862,;RP11-156K13.1,upstream_gene_variant,,ENST00000522768,;MTUS1,intron_variant,,ENST00000523718,;"	"C"	"ENSG00000129422"	"ENST00000262102"	"Transcript"	"intron_variant"	"-/6160"	"-/3813"	"-/1270"	""	""	""	"1"	NA	-1	"MTUS1"	"HGNC"	29789	"protein_coding"	"YES"	"CCDS43717.1"	"ENSP00000262102"	"Q9ULD2"	""	"UPI000003FF3C"	"NM_001001924.2"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"24afc53e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"14916"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	21086593	21086593	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"53"	27	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"24b035c8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3375	"WGS"	FALSE
"14917"	"PPP3CC"	5533	"mskcc.org"	"GRCh37"	"8"	22393566	22393566	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1348+3035G>T"	""	""	"ENST00000397775"	""	95	"69"	26	47	"47"	0	"PPP3CC,intron_variant,,ENST00000240139,NM_005605.4;PPP3CC,intron_variant,,ENST00000289963,NM_001243975.1;PPP3CC,intron_variant,,ENST00000397775,NM_001243974.1;RP11-582J16.4,downstream_gene_variant,,ENST00000514980,;"	"T"	"ENSG00000120910"	"ENST00000397775"	"Transcript"	"intron_variant"	"-/2094"	"-/1566"	"-/521"	""	""	""	"1"	NA	1	"PPP3CC"	"HGNC"	9316	"protein_coding"	"YES"	"CCDS59093.1"	"ENSP00000380878"	"P48454"	"E5RJH4"	"UPI00017A7ABA"	"NM_001243974.1"	""	""	""	"13/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"24b08956-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"14918"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	23843659	23843659	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"72"	10	32	"32"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"24b0e0c2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WGS"	FALSE
"14919"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	25929547	25929547	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"59"	31	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"24b12bc2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.344444444444444	"WGS"	FALSE
"14920"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	26531463	26531463	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	48	"43"	5	25	"25"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"24b17af0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104166666666667	"WGS"	FALSE
"14921"	"FBXO16"	157574	"mskcc.org"	"GRCh37"	"8"	28284724	28284724	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000380254"	""	99	"89"	10	52	"52"	0	"FBXO16,downstream_gene_variant,,ENST00000380254,NM_172366.3,NM_001258211.1;FBXO16,downstream_gene_variant,,ENST00000346498,;FBXO16,downstream_gene_variant,,ENST00000518734,;FBXO16,downstream_gene_variant,,ENST00000518248,;FBXO16,intron_variant,,ENST00000521548,;FBXO16,downstream_gene_variant,,ENST00000522609,;"	"A"	"ENSG00000214050"	"ENST00000380254"	"Transcript"	"downstream_gene_variant"	"-/1343"	"-/879"	"-/292"	""	""	""	"1"	"1205"	-1	"FBXO16"	"HGNC"	13618	"protein_coding"	"YES"	"CCDS6068.1"	"ENSP00000369604"	"Q8IX29"	""	"UPI0000074424"	"NM_172366.3,NM_001258211.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"24b1cc08-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101010101010101	"WGS"	FALSE
"14922"	"AC084262.3"	0	"mskcc.org"	"GRCh37"	"8"	29179374	29179374	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000577225"	""	72	"67"	5	49	"49"	0	"AC084262.3,downstream_gene_variant,,ENST00000577225,;"	"C"	"ENSG00000266476"	"ENST00000577225"	"Transcript"	"downstream_gene_variant"	"-/93"	""	""	""	""	""	"1"	"1407"	-1	"AC084262.3"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"24b203ee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0694444444444444	"WGS"	FALSE
"14923"	"RP11-94H18.1"	101929470	"mskcc.org"	"GRCh37"	"8"	29716561	29716561	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000517356"	""	82	"59"	23	41	"41"	0	"RP11-94H18.1,upstream_gene_variant,,ENST00000517356,;"	"A"	"ENSG00000248964"	"ENST00000517356"	"Transcript"	"upstream_gene_variant"	"-/1496"	""	""	""	""	""	"1"	"4502"	-1	"RP11-94H18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"24b21bc2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280487804878049	"WGS"	FALSE
"14924"	"FAM183CP"	286135	"mskcc.org"	"GRCh37"	"8"	29782027	29782027	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1116+1190G>T"	""	""	"ENST00000521245"	""	103	"90"	13	56	"56"	0	"FAM183CP,intron_variant,,ENST00000521245,;FAM183CP,intron_variant,,ENST00000524059,;AC131254.1,upstream_gene_variant,,ENST00000408076,;"	"T"	"ENSG00000253279"	"ENST00000521245"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2651"	""	""	""	""	""	"1"	NA	1	"FAM183CP"	"HGNC"	27827	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"24b21dd4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12621359223301	"WGS"	FALSE
"14925"	"UBXN8"	0	"mskcc.org"	"GRCh37"	"8"	30596342	30596342	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs566695470"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.125-5503G>A"	""	""	"ENST00000522735"	""	65	"59"	6	38	"38"	0	"UBXN8,intron_variant,,ENST00000522735,;UBXN8,intron_variant,,ENST00000522968,;"	"A"	"ENSG00000104691"	"ENST00000522735"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/813"	""	""	""	""	"rs566695470"	"1"	NA	1	"UBXN8"	"HGNC"	30307	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/7"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"24b24d86-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"14926"	"RP1-273G13.2"	0	"mskcc.org"	"GRCh37"	"8"	33825515	33825515	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000341045"	""	98	"73"	25	52	"52"	0	"RP11-317N12.1,intron_variant,,ENST00000523063,;RP1-273G13.2,downstream_gene_variant,,ENST00000341045,;RP1-273G13.2,downstream_gene_variant,,ENST00000523393,;"	"A"	"ENSG00000188512"	"ENST00000341045"	"Transcript"	"downstream_gene_variant"	"-/318"	""	""	""	""	""	"1"	"1564"	-1	"RP1-273G13.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"24b2e534-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255102040816327	"WGS"	FALSE
"14927"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	34552388	34552388	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"43"	4	35	"35"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"24b2fbfa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"14928"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	34882963	34882963	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"66"	27	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"24b30b18-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290322580645161	"WGS"	FALSE
"14929"	"UNC5D"	137970	"mskcc.org"	"GRCh37"	"8"	35335897	35335897	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.104-70913C>A"	""	""	"ENST00000404895"	""	80	"70"	10	59	"59"	0	"UNC5D,intron_variant,,ENST00000287272,;UNC5D,intron_variant,,ENST00000416672,;UNC5D,intron_variant,,ENST00000404895,NM_080872.2;UNC5D,intron_variant,,ENST00000420357,;"	"A"	"ENSG00000156687"	"ENST00000404895"	"Transcript"	"intron_variant"	"-/3252"	"-/2862"	"-/953"	""	""	""	"1"	NA	1	"UNC5D"	"HGNC"	18634	"protein_coding"	"YES"	"CCDS6093.2"	"ENSP00000385143"	"Q6UXZ4"	""	"UPI00001D6915"	"NM_080872.2"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"24b31bda-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"14930"	"C8orf86"	389649	"mskcc.org"	"GRCh37"	"8"	38381728	38381728	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs758218914"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.315+4113G>A"	""	""	"ENST00000358138"	""	91	"80"	11	57	"57"	0	"C8orf86,intron_variant,,ENST00000358138,NM_207412.1;C8orf86,intron_variant,,ENST00000437935,;"	"T"	"ENSG00000196166"	"ENST00000358138"	"Transcript"	"intron_variant"	"-/2250"	"-/672"	"-/223"	""	""	"rs758218914"	"1"	NA	-1	"C8orf86"	"HGNC"	33774	"protein_coding"	"YES"	"CCDS6108.1"	"ENSP00000350856"	"Q6ZUL3"	""	"UPI00001C0B34"	"NM_207412.1"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"24b3baf4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120879120879121	"WGS"	FALSE
"14931"	"HTRA4"	203100	"mskcc.org"	"GRCh37"	"8"	38839757	38839757	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1115-260C>A"	""	""	"ENST00000302495"	""	97	"64"	33	51	"51"	0	"HTRA4,intron_variant,,ENST00000302495,NM_153692.3;"	"A"	"ENSG00000169495"	"ENST00000302495"	"Transcript"	"intron_variant"	"-/2095"	"-/1431"	"-/476"	""	""	""	"1"	NA	1	"HTRA4"	"HGNC"	26909	"protein_coding"	"YES"	"CCDS6110.1"	"ENSP00000305919"	"P83105"	"B4DTF7"	"UPI0000001BEC"	"NM_153692.3"	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"24b3d444-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34020618556701	"WGS"	FALSE
"14932"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	41245556	41245556	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"36"	38	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"24b4444c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.513513513513513	"WGS"	FALSE
"14933"	"RNF170"	81790	"mskcc.org"	"GRCh37"	"8"	42732252	42732252	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.138-3103C>G"	""	""	"ENST00000534961"	""	85	"77"	8	28	"28"	0	"RNF170,intron_variant,,ENST00000534961,NM_001160223.1;RNF170,intron_variant,,ENST00000527424,NM_030954.3;RNF170,intron_variant,,ENST00000319073,;RNF170,intron_variant,,ENST00000319104,NM_001160224.1;RNF170,intron_variant,,ENST00000526349,NM_001160225.1;RNF170,intron_variant,,ENST00000531440,;RN7SL806P,upstream_gene_variant,,ENST00000467399,;RNF170,intron_variant,,ENST00000240159,;RNF170,intron_variant,,ENST00000528318,;"	"C"	"ENSG00000120925"	"ENST00000534961"	"Transcript"	"intron_variant"	"-/4116"	"-/777"	"-/258"	""	""	""	"1"	NA	-1	"RNF170"	"HGNC"	25358	"protein_coding"	"YES"	"CCDS6138.1"	"ENSP00000445725"	"Q96K19"	"E9PP55,E9PNG8"	"UPI000013CAA2"	"NM_001160223.1"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"24b4afe0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"14934"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	49389053	49389053	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"67"	25	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"24b7b3de-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"14935"	"RP11-738G5.2"	0	"mskcc.org"	"GRCh37"	"8"	50456242	50456242	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67+768G>A"	""	""	"ENST00000520800"	""	92	"83"	9	58	"58"	0	"RP11-738G5.2,intron_variant,,ENST00000520800,;"	"T"	"ENSG00000253206"	"ENST00000520800"	"Transcript"	"intron_variant"	"-/407"	"-/198"	"-/65"	""	""	""	"1"	NA	-1	"RP11-738G5.2"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000429424"	""	"E5RIJ9"	"UPI0001E8F1F2"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"24b7cc98-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0978260869565217	"WGS"	FALSE
"14936"	"SNTG1"	54212	"mskcc.org"	"GRCh37"	"8"	51126874	51126874	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-28+41679C>T"	""	""	"ENST00000522124"	""	64	"42"	22	36	"36"	0	"SNTG1,intron_variant,,ENST00000522124,NM_018967.2,NM_001287813.1;SNTG1,intron_variant,,ENST00000518864,;SNTG1,intron_variant,,ENST00000517473,NM_001287814.1;SNTG1,intron_variant,,ENST00000523085,;SNTG1,intron_variant,,ENST00000521316,;SNTG1,intron_variant,,ENST00000520825,;"	"T"	"ENSG00000147481"	"ENST00000522124"	"Transcript"	"intron_variant"	"-/3504"	"-/1554"	"-/517"	""	""	""	"1"	NA	1	"SNTG1"	"HGNC"	13740	"protein_coding"	"YES"	"CCDS6147.1"	"ENSP00000429842"	"Q9NSN8"	"E5RIN0"	"UPI000004A0DD"	"NM_018967.2,NM_001287813.1"	""	""	""	"2/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"24b7dbac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34375	"WGS"	FALSE
"14937"	"PXDNL"	137902	"mskcc.org"	"GRCh37"	"8"	52329649	52329649	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1796-3831G>C"	""	""	"ENST00000356297"	""	103	"75"	28	54	"54"	0	"PXDNL,intron_variant,,ENST00000356297,NM_144651.4;PXDNL,intron_variant,,ENST00000543296,;"	"G"	"ENSG00000147485"	"ENST00000356297"	"Transcript"	"intron_variant"	"-/4805"	"-/4392"	"-/1463"	""	""	""	"1"	NA	-1	"PXDNL"	"HGNC"	26359	"protein_coding"	"YES"	"CCDS47855.1"	"ENSP00000348645"	"A1KZ92"	""	"UPI0001AE6ED6"	"NM_144651.4"	""	""	""	"14/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"24b80096-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271844660194175	"WGS"	FALSE
"14938"	"RGS20"	8601	"mskcc.org"	"GRCh37"	"8"	54864526	54864526	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs768573420"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.744-2110G>A"	""	""	"ENST00000297313"	""	69	"63"	6	42	"42"	0	"RGS20,intron_variant,,ENST00000297313,NM_170587.2;RGS20,intron_variant,,ENST00000344277,NM_001286673.1;RGS20,intron_variant,,ENST00000276500,NM_003702.3;RGS20,intron_variant,,ENST00000522225,;RGS20,intron_variant,,ENST00000517405,;RGS20,intron_variant,,ENST00000523414,;RGS20,intron_variant,,ENST00000518286,;RGS20,intron_variant,,ENST00000517659,NM_001286675.1;RGS20,intron_variant,,ENST00000523280,NM_001286674.1;"	"A"	"ENSG00000147509"	"ENST00000297313"	"Transcript"	"intron_variant"	"-/2104"	"-/1167"	"-/388"	""	""	"rs768573420"	"1"	NA	1	"RGS20"	"HGNC"	14600	"protein_coding"	"YES"	"CCDS6155.1"	"ENSP00000297313"	"O76081"	"B3KSW4"	"UPI000013383C"	"NM_170587.2"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"24b86b1c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"14939"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	55380899	55380899	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"94"	7	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"24b88f0c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0693069306930693	"WGS"	FALSE
"14940"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	56595539	56595539	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"80"	17	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"24b8c616-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175257731958763	"WGS"	FALSE
"14941"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	56744186	56744186	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"98"	9	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"24b8cfb2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0841121495327103	"WGS"	FALSE
"14942"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	56746511	56746511	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"76"	8	38	"38"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"24b8d1ba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"14943"	"LYN"	4067	"mskcc.org"	"GRCh37"	"8"	56837051	56837051	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-5-17363G>A"	""	""	"ENST00000519728"	""	107	"99"	8	43	"43"	0	"LYN,intron_variant,,ENST00000520220,NM_001111097.2;LYN,intron_variant,,ENST00000519728,NM_002350.3;"	"A"	"ENSG00000254087"	"ENST00000519728"	"Transcript"	"intron_variant"	"-/2297"	"-/1539"	"-/512"	""	""	""	"1"	NA	1	"LYN"	"HGNC"	6735	"protein_coding"	"YES"	"CCDS6162.1"	"ENSP00000428924"	"P07948"	"E5RJ37,B4DQ79"	"UPI000013DACD"	"NM_002350.3"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"24b8d890-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0747663551401869	"WGS"	FALSE
"14944"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	59605014	59605014	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"74"	9	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"24b93a6a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108433734939759	"WGS"	FALSE
"14945"	"TOX"	9760	"mskcc.org"	"GRCh37"	"8"	59833124	59833124	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.411+18737C>T"	""	""	"ENST00000361421"	""	38	"17"	21	28	"28"	0	"TOX,intron_variant,,ENST00000361421,NM_014729.2;"	"A"	"ENSG00000198846"	"ENST00000361421"	"Transcript"	"intron_variant"	"-/4131"	"-/1581"	"-/526"	""	""	""	"1"	NA	-1	"TOX"	"HGNC"	18988	"protein_coding"	"YES"	"CCDS34897.1"	"ENSP00000354842"	"O94900"	"B4DYA1"	"UPI0000070A73"	"NM_014729.2"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"24b942e4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.552631578947368	"WGS"	FALSE
"14946"	"TOX"	9760	"mskcc.org"	"GRCh37"	"8"	59833125	59833125	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.411+18736C>A"	""	""	"ENST00000361421"	""	38	"18"	20	28	"28"	0	"TOX,intron_variant,,ENST00000361421,NM_014729.2;"	"T"	"ENSG00000198846"	"ENST00000361421"	"Transcript"	"intron_variant"	"-/4131"	"-/1581"	"-/526"	""	""	""	"1"	NA	-1	"TOX"	"HGNC"	18988	"protein_coding"	"YES"	"CCDS34897.1"	"ENSP00000354842"	"O94900"	"B4DYA1"	"UPI0000070A73"	"NM_014729.2"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"24b943fc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.526315789473684	"WGS"	FALSE
"14947"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	61026147	61026147	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"45"	25	32	"32"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"24b9674c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.357142857142857	"WGS"	FALSE
"14948"	"CYP7B1"	9420	"mskcc.org"	"GRCh37"	"8"	65577280	65577280	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.123-40184T>G"	""	""	"ENST00000310193"	""	102	"92"	10	58	"58"	0	"CYP7B1,intron_variant,,ENST00000310193,NM_004820.3;"	"C"	"ENSG00000172817"	"ENST00000310193"	"Transcript"	"intron_variant"	"-/2202"	"-/1521"	"-/506"	""	""	""	"1"	NA	-1	"CYP7B1"	"HGNC"	2652	"protein_coding"	"YES"	"CCDS6180.1"	"ENSP00000310721"	"O75881"	""	"UPI0000128218"	"NM_004820.3"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"24b9f2e8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0980392156862745	"WGS"	FALSE
"14949"	"PPP1R42"	286187	"mskcc.org"	"GRCh37"	"8"	67931129	67931129	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-84-1063T>C"	""	""	"ENST00000324682"	""	52	"44"	8	34	"34"	0	"PPP1R42,intron_variant,,ENST00000522909,;PPP1R42,intron_variant,,ENST00000324682,NM_001013626.2;PPP1R42,intron_variant,,ENST00000517834,;PPP1R42,intron_variant,,ENST00000521581,;PPP1R42,intron_variant,,ENST00000523545,;PPP1R42,intron_variant,,ENST00000520633,;PPP1R42,upstream_gene_variant,,ENST00000521040,;PPP1R42,upstream_gene_variant,,ENST00000519919,;"	"G"	"ENSG00000178125"	"ENST00000324682"	"Transcript"	"intron_variant"	"-/1084"	"-/687"	"-/228"	""	""	""	"1"	NA	-1	"PPP1R42"	"HGNC"	33732	"protein_coding"	"YES"	"CCDS34902.1"	"ENSP00000315035"	"Q7Z4L9"	""	"UPI00001B5D21"	"NM_001013626.2"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"24ba70e2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"14950"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	70275979	70275979	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"62"	31	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"24bae6bc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14951"	"NCOA2"	10499	"mskcc.org"	"GRCh37"	"8"	71276617	71276617	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-77+39318A>G"	""	""	"ENST00000452400"	""	102	"68"	34	50	"50"	0	"NCOA2,intron_variant,,ENST00000452400,NM_006540.2;NCOA2,intron_variant,,ENST00000520416,;NCOA2,intron_variant,,ENST00000518287,;"	"C"	"ENSG00000140396"	"ENST00000452400"	"Transcript"	"intron_variant"	"-/8447"	"-/4395"	"-/1464"	""	""	""	"1"	NA	-1	"NCOA2"	"HGNC"	7669	"protein_coding"	"YES"	"CCDS47872.1"	"ENSP00000399968"	"Q15596"	""	"UPI000012FE42"	"NM_006540.2"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"24bb19ca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	TRUE
"14952"	"RP11-382J12.1"	0	"mskcc.org"	"GRCh37"	"8"	71537483	71537483	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-742+16415T>G"	""	""	"ENST00000499227"	""	82	"54"	28	46	"46"	0	"RP11-382J12.1,intron_variant,,ENST00000499227,;RP11-382J12.1,intron_variant,,ENST00000518553,;RP11-382J12.1,intron_variant,,ENST00000519167,;RP11-382J12.1,intron_variant,,ENST00000519358,;RP11-382J12.1,intron_variant,,ENST00000518152,;"	"G"	"ENSG00000246366"	"ENST00000499227"	"Transcript"	"intron_variant"	"-/3716"	"-/633"	"-/210"	""	""	""	"1"	NA	1	"RP11-382J12.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000428148"	""	"E5RJX1"	"UPI000013F5EF"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"24bb253c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341463414634146	"WGS"	FALSE
"14953"	"SBSPON"	157869	"mskcc.org"	"GRCh37"	"8"	73981406	73981406	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.677+634G>A"	""	""	"ENST00000297354"	""	90	"57"	33	50	"50"	0	"SBSPON,intron_variant,,ENST00000297354,NM_153225.3;SBSPON,intron_variant,,ENST00000519697,;"	"T"	"ENSG00000164764"	"ENST00000297354"	"Transcript"	"intron_variant"	"-/3801"	"-/795"	"-/264"	""	""	""	"1"	NA	-1	"SBSPON"	"HGNC"	30362	"protein_coding"	"YES"	"CCDS43747.2"	"ENSP00000297354"	"Q8IVN8"	""	"UPI0000D47CF3"	"NM_153225.3"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"24bb7834-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.366666666666667	"WGS"	FALSE
"14954"	"UBE2W"	55284	"mskcc.org"	"GRCh37"	"8"	74715177	74715177	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.562+2709C>G"	""	""	"ENST00000419880"	""	118	"99"	19	54	"54"	0	"UBE2W,intron_variant,,ENST00000517608,NM_018299.4;UBE2W,intron_variant,,ENST00000602969,;UBE2W,intron_variant,,ENST00000602593,;UBE2W,intron_variant,,ENST00000419880,NM_001001481.2;UBE2W,intron_variant,,ENST00000453587,NM_001271015.1;UBE2W,intron_variant,,ENST00000523278,;UBE2W,intron_variant,,ENST00000422906,;RP11-463D19.2,intron_variant,,ENST00000358757,;UBE2W,intron_variant,,ENST00000519277,;UBE2W,intron_variant,,ENST00000519255,;"	"C"	"ENSG00000104343"	"ENST00000419880"	"Transcript"	"intron_variant"	"-/2315"	"-/576"	"-/191"	""	""	""	"1"	NA	-1	"UBE2W"	"HGNC"	25616	"protein_coding"	"YES"	"CCDS47875.2"	"ENSP00000397453"	""	""	"UPI00027B2CEB"	"NM_001001481.2"	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"24bb9c2e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161016949152542	"WGS"	FALSE
"14955"	"GDAP1"	54332	"mskcc.org"	"GRCh37"	"8"	75276491	75276491	"+"	"Silent"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.966G>T"	"p.="	"p.T322T"	"ENST00000220822"	"6/6"	93	"83"	10	48	"48"	0	"GDAP1,synonymous_variant,p.=,ENST00000220822,NM_001040875.2,NM_018972.2;GDAP1,synonymous_variant,p.=,ENST00000434412,;GDAP1,non_coding_transcript_exon_variant,,ENST00000521096,;GDAP1,non_coding_transcript_exon_variant,,ENST00000520797,;GDAP1,intron_variant,,ENST00000524195,;GDAP1,downstream_gene_variant,,ENST00000524366,;GDAP1,downstream_gene_variant,,ENST00000523640,;GDAP1,3_prime_UTR_variant,,ENST00000522568,;"	"T"	"ENSG00000104381"	"ENST00000220822"	"Transcript"	"synonymous_variant"	"1046/3666"	"966/1077"	"322/358"	"T"	"acG/acT"	""	"1"	NA	1	"GDAP1"	"HGNC"	15968	"protein_coding"	"YES"	"CCDS34911.1"	"ENSP00000220822"	"Q8TB36"	"B4DIH2"	"UPI00001AE62B"	"NM_001040875.2,NM_018972.2"	""	""	"6/6"	""	"hmmpanther:PTHR11260,hmmpanther:PTHR11260:SF127,Low_complexity_(Seg):seg,Transmembrane_helices:TMhelix"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGA"	"24bbbd44-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10752688172043	"WGS"	FALSE
"14956"	"ZFHX4"	79776	"mskcc.org"	"GRCh37"	"8"	77711276	77711276	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3325+20601C>T"	""	""	"ENST00000521891"	""	78	"43"	35	47	"47"	0	"ZFHX4,intron_variant,,ENST00000521891,NM_024721.4;ZFHX4,intron_variant,,ENST00000455469,;ZFHX4,intron_variant,,ENST00000518282,;ZFHX4,intron_variant,,ENST00000050961,;ZFHX4,intron_variant,,ENST00000523625,;ZFHX4,intron_variant,,ENST00000519536,;ZFHX4,intron_variant,,ENST00000524290,;"	"T"	"ENSG00000091656"	"ENST00000521891"	"Transcript"	"intron_variant"	"-/14019"	"-/10851"	"-/3616"	""	""	""	"1"	NA	1	"ZFHX4"	"HGNC"	30939	"protein_coding"	"YES"	"CCDS47878.2"	"ENSP00000430497"	""	"Q9H7F3,Q86WW5,Q6DK57,G3V138,E5RI93,E5RHS1,E5RGK3,E5RG79"	"UPI0000424CC7"	"NM_024721.4"	""	""	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"24bc1a46-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.448717948717949	"WGS"	FALSE
"14957"	"RP11-594N15.2"	101927003	"mskcc.org"	"GRCh37"	"8"	79392934	79392934	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs547326617"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.172-364G>A"	""	""	"ENST00000522807"	""	78	"45"	33	44	"44"	0	"RP11-594N15.2,intron_variant,,ENST00000522807,;"	"T"	"ENSG00000254266"	"ENST00000522807"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/692"	""	""	""	""	"rs547326617"	"1"	NA	-1	"RP11-594N15.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/4"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"24bc4408-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.423076923076923	"WGS"	FALSE
"14958"	"TPD52"	7163	"mskcc.org"	"GRCh37"	"8"	81123095	81123095	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.235+7609T>C"	""	""	"ENST00000519250"	""	61	"54"	7	29	"29"	0	"TPD52,intron_variant,,ENST00000519250,;TPD52,intron_variant,,ENST00000523564,;TPD52,intron_variant,,ENST00000520035,;TPD52,intron_variant,,ENST00000602950,;"	"G"	"ENSG00000076554"	"ENST00000519250"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/585"	""	""	""	""	""	"1"	NA	-1	"TPD52"	"HGNC"	12005	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"24bc786a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114754098360656	"WGS"	FALSE
"14959"	"RP11-775E10.1"	0	"mskcc.org"	"GRCh37"	"8"	81267596	81267596	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000520293"	""	84	"78"	6	52	"52"	0	"RP11-775E10.1,downstream_gene_variant,,ENST00000520293,;"	"G"	"ENSG00000253237"	"ENST00000520293"	"Transcript"	"downstream_gene_variant"	"-/285"	""	""	""	""	""	"1"	"3945"	1	"RP11-775E10.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"24bc85b2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"14960"	"ZBTB10"	65986	"mskcc.org"	"GRCh37"	"8"	81421446	81421446	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1862-4699A>G"	""	""	"ENST00000430430"	""	83	"70"	13	55	"55"	0	"ZBTB10,intron_variant,,ENST00000430430,;ZBTB10,intron_variant,,ENST00000426744,NM_023929.4;ZBTB10,intron_variant,,ENST00000455036,NM_001105539.2;ZBTB10,intron_variant,,ENST00000379091,NM_001277145.1;"	"G"	"ENSG00000205189"	"ENST00000430430"	"Transcript"	"intron_variant"	"-/10132"	"-/2616"	"-/871"	""	""	""	"1"	NA	1	"ZBTB10"	"HGNC"	30953	"protein_coding"	"YES"	"CCDS47880.1"	"ENSP00000387462"	"Q96DT7"	""	"UPI0000E5AEF3"	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"24bc935e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.156626506024096	"WGS"	FALSE
"14961"	"RP11-122C21.1"	0	"mskcc.org"	"GRCh37"	"8"	92581085	92581085	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.416-3716T>C"	""	""	"ENST00000518416"	""	80	"64"	16	55	"55"	0	"RP11-122C21.1,intron_variant,,ENST00000518416,;RP11-122C21.1,intron_variant,,ENST00000521199,;"	"G"	"ENSG00000253901"	"ENST00000518416"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/577"	""	""	""	""	""	"1"	NA	-1	"RP11-122C21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"24be6d6e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"14962"	"RAD54B"	25788	"mskcc.org"	"GRCh37"	"8"	95471916	95471916	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.136-1252G>C"	""	""	"ENST00000336148"	""	39	"33"	6	28	"28"	0	"RAD54B,intron_variant,,ENST00000336148,NM_012415.3;RAD54B,intron_variant,,ENST00000297592,NM_001205262.2;RAD54B,intron_variant,,ENST00000523839,;RAD54B,intron_variant,,ENST00000463267,;RAD54B,intron_variant,,ENST00000518998,;"	"G"	"ENSG00000197275"	"ENST00000336148"	"Transcript"	"intron_variant"	"-/3068"	"-/2733"	"-/910"	""	""	""	"1"	NA	-1	"RAD54B"	"HGNC"	17228	"protein_coding"	"YES"	"CCDS6262.1"	"ENSP00000336606"	"Q9Y620"	"E5RHN9"	"UPI0000070088"	"NM_012415.3"	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"24becc5a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"14963"	"KB-1047C11.2"	100616530	"mskcc.org"	"GRCh37"	"8"	96344935	96344935	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.126+31515C>A"	""	""	"ENST00000521905"	""	83	"50"	33	56	"56"	0	"KB-1047C11.2,intron_variant,,ENST00000521905,;KB-1047C11.2,intron_variant,,ENST00000517655,;"	"A"	"ENSG00000253773"	"ENST00000521905"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/617"	""	""	""	""	""	"1"	NA	1	"KB-1047C11.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"24befb8a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.397590361445783	"WGS"	FALSE
"14964"	"ENSR00001396788"	0	"mskcc.org"	"GRCh37"	"8"	97115503	97115503	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001396788"	""	73	"51"	22	54	"54"	0	""	"T"	""	"ENSR00001396788"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"24bf1e44-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301369863013699	"WGS"	FALSE
"14965"	"KCNS2"	3788	"mskcc.org"	"GRCh37"	"8"	99443643	99443643	"+"	"3'UTR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*2002A>C"	""	""	"ENST00000287042"	"2/2"	98	"60"	38	53	"53"	0	"KCNS2,3_prime_UTR_variant,,ENST00000287042,NM_020697.2;KCNS2,3_prime_UTR_variant,,ENST00000521839,;STK3,intron_variant,,ENST00000517832,;"	"C"	"ENSG00000156486"	"ENST00000287042"	"Transcript"	"3_prime_UTR_variant"	"3786/5219"	"-/1434"	"-/477"	""	""	""	"1"	NA	1	"KCNS2"	"HGNC"	6301	"protein_coding"	"YES"	"CCDS6279.1"	"ENSP00000287042"	"Q9ULS6"	""	"UPI0000001653"	"NM_020697.2"	""	""	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"24bf9068-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.387755102040816	"WGS"	FALSE
"14966"	"RIMS2"	9699	"mskcc.org"	"GRCh37"	"8"	104583520	104583520	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.176+70230C>T"	""	""	"ENST00000406091"	""	99	"76"	23	48	"48"	0	"RIMS2,intron_variant,,ENST00000406091,NM_001100117.2;RIMS2,intron_variant,,ENST00000504942,;RP11-5A11.2,upstream_gene_variant,,ENST00000529260,;"	"T"	"ENSG00000176406"	"ENST00000406091"	"Transcript"	"intron_variant"	"-/4050"	"-/4050"	"-/1349"	""	""	""	"1"	NA	1	"RIMS2"	"HGNC"	17283	"protein_coding"	"YES"	"CCDS55269.1"	"ENSP00000384892"	"Q9UQ26"	"E9PFB6"	"UPI0001597063"	"NM_001100117.2"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"24c096e8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232323232323232	"WGS"	FALSE
"14967"	"RIMS2"	9699	"mskcc.org"	"GRCh37"	"8"	105028421	105028421	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3334+1578C>T"	""	""	"ENST00000406091"	""	84	"58"	26	47	"47"	0	"RIMS2,intron_variant,,ENST00000507740,NM_014677.4;RIMS2,intron_variant,,ENST00000436393,;RIMS2,intron_variant,,ENST00000406091,NM_001100117.2;RIMS2,intron_variant,,ENST00000408894,;RIMS2,intron_variant,,ENST00000262231,NM_001282881.1;RIMS2,downstream_gene_variant,,ENST00000504942,;"	"T"	"ENSG00000176406"	"ENST00000406091"	"Transcript"	"intron_variant"	"-/4050"	"-/4050"	"-/1349"	""	""	""	"1"	NA	1	"RIMS2"	"HGNC"	17283	"protein_coding"	"YES"	"CCDS55269.1"	"ENSP00000384892"	"Q9UQ26"	"E9PFB6"	"UPI0001597063"	"NM_001100117.2"	""	""	""	"19/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"24c0a818-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30952380952381	"WGS"	FALSE
"14968"	"RP11-152P17.2"	0	"mskcc.org"	"GRCh37"	"8"	106937132	106937132	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.154-126462T>C"	""	""	"ENST00000524045"	""	78	"51"	27	49	"49"	0	"RP11-152P17.2,intron_variant,,ENST00000524045,;RP11-152P17.2,intron_variant,,ENST00000520433,;RP11-152P17.2,intron_variant,,ENST00000520594,;RP11-152P17.2,intron_variant,,ENST00000509144,;RP11-152P17.2,intron_variant,,ENST00000521622,;Y_RNA,downstream_gene_variant,,ENST00000364757,;RP11-152P17.2,intron_variant,,ENST00000520078,;"	"G"	"ENSG00000251003"	"ENST00000524045"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/987"	""	""	""	""	""	"1"	NA	-1	"RP11-152P17.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"24c0e350-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"14969"	"RP11-152P17.2"	0	"mskcc.org"	"GRCh37"	"8"	107025751	107025751	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.153+45558G>T"	""	""	"ENST00000524045"	""	85	"54"	31	55	"55"	0	"RP11-152P17.2,intron_variant,,ENST00000524045,;RP11-152P17.2,intron_variant,,ENST00000520433,;RP11-152P17.2,intron_variant,,ENST00000520594,;RP11-152P17.2,intron_variant,,ENST00000509144,;RP11-152P17.2,intron_variant,,ENST00000521622,;RP11-152P17.2,intron_variant,,ENST00000520078,;"	"A"	"ENSG00000251003"	"ENST00000524045"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/987"	""	""	""	""	""	"1"	NA	-1	"RP11-152P17.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"24c0e7ec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.364705882352941	"WGS"	FALSE
"14970"	"NUDCD1"	84955	"mskcc.org"	"GRCh37"	"8"	110318738	110318738	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.274-9940T>A"	""	""	"ENST00000239690"	""	74	"44"	30	43	"43"	0	"NUDCD1,intron_variant,,ENST00000239690,NM_032869.3;NUDCD1,intron_variant,,ENST00000427660,NM_001128211.1;RP11-122A21.2,intron_variant,,ENST00000504175,;NUDCD1,intron_variant,,ENST00000519607,;NUDCD1,intron_variant,,ENST00000521439,;"	"T"	"ENSG00000120526"	"ENST00000239690"	"Transcript"	"intron_variant"	"-/4217"	"-/1752"	"-/583"	""	""	""	"1"	NA	-1	"NUDCD1"	"HGNC"	24306	"protein_coding"	"YES"	"CCDS6312.1"	"ENSP00000239690"	"Q96RS6"	""	"UPI000021048A"	"NM_032869.3"	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"24c14520-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.405405405405405	"WGS"	FALSE
"14971"	"PKHD1L1"	93035	"mskcc.org"	"GRCh37"	"8"	110415891	110415891	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1374-892T>G"	""	""	"ENST00000378402"	""	100	"94"	6	48	"48"	0	"PKHD1L1,intron_variant,,ENST00000378402,NM_177531.4;"	"G"	"ENSG00000205038"	"ENST00000378402"	"Transcript"	"intron_variant"	"-/13076"	"-/12732"	"-/4243"	""	""	""	"1"	NA	1	"PKHD1L1"	"HGNC"	20313	"protein_coding"	"YES"	"CCDS47911.1"	"ENSP00000367655"	"Q86WI1"	""	"UPI0000E5B020"	"NM_177531.4"	""	""	""	"14/77"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"24c14818-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.06	"WGS"	FALSE
"14972"	"PKHD1L1"	93035	"mskcc.org"	"GRCh37"	"8"	110431890	110431890	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2524+401T>A"	""	""	"ENST00000378402"	""	90	"51"	39	52	"52"	0	"PKHD1L1,intron_variant,,ENST00000378402,NM_177531.4;"	"A"	"ENSG00000205038"	"ENST00000378402"	"Transcript"	"intron_variant"	"-/13076"	"-/12732"	"-/4243"	""	""	""	"1"	NA	1	"PKHD1L1"	"HGNC"	20313	"protein_coding"	"YES"	"CCDS47911.1"	"ENSP00000367655"	"Q86WI1"	""	"UPI0000E5B020"	"NM_177531.4"	""	""	""	"22/77"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"24c148c2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.433333333333333	"WGS"	FALSE
"14973"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	111240752	111240752	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"57"	34	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"24c15952-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.373626373626374	"WGS"	FALSE
"14974"	"CSMD3"	114788	"mskcc.org"	"GRCh37"	"8"	113559591	113559591	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs747433434"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4564+3309C>T"	""	""	"ENST00000297405"	""	86	"80"	6	44	"44"	0	"CSMD3,intron_variant,,ENST00000297405,NM_198123.1;CSMD3,intron_variant,,ENST00000343508,NM_198124.1;CSMD3,intron_variant,,ENST00000352409,;CSMD3,intron_variant,,ENST00000455883,NM_052900.2;CSMD3,intron_variant,,ENST00000339701,;"	"A"	"ENSG00000164796"	"ENST00000297405"	"Transcript"	"intron_variant"	"-/13212"	"-/11124"	"-/3707"	""	""	"rs747433434"	"1"	NA	-1	"CSMD3"	"HGNC"	19291	"protein_coding"	"YES"	"CCDS6315.1"	"ENSP00000297405"	"Q7Z407"	""	"UPI00001E0584"	"NM_198123.1"	""	""	""	"27/70"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"24c1a0ce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"14975"	"CSMD3"	114788	"mskcc.org"	"GRCh37"	"8"	113863803	113863803	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1755+7571C>T"	""	""	"ENST00000297405"	""	89	"66"	23	36	"36"	0	"CSMD3,intron_variant,,ENST00000297405,NM_198123.1;CSMD3,intron_variant,,ENST00000343508,NM_198124.1;CSMD3,intron_variant,,ENST00000352409,;CSMD3,intron_variant,,ENST00000455883,NM_052900.2;"	"A"	"ENSG00000164796"	"ENST00000297405"	"Transcript"	"intron_variant"	"-/13212"	"-/11124"	"-/3707"	""	""	""	"1"	NA	-1	"CSMD3"	"HGNC"	19291	"protein_coding"	"YES"	"CCDS6315.1"	"ENSP00000297405"	"Q7Z407"	""	"UPI00001E0584"	"NM_198123.1"	""	""	""	"11/70"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"24c1a4e8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258426966292135	"WGS"	FALSE
"14976"	"CSMD3"	114788	"mskcc.org"	"GRCh37"	"8"	113933937	113933937	"+"	"Silent"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1552C>T"	"p.="	"p.L518L"	"ENST00000297405"	"10/71"	90	"51"	39	47	"46"	1	"CSMD3,synonymous_variant,p.=,ENST00000297405,NM_198123.1;CSMD3,synonymous_variant,p.=,ENST00000343508,NM_198124.1;CSMD3,synonymous_variant,p.=,ENST00000352409,;CSMD3,synonymous_variant,p.=,ENST00000455883,NM_052900.2;"	"A"	"ENSG00000164796"	"ENST00000297405"	"Transcript"	"synonymous_variant"	"1797/13212"	"1552/11124"	"518/3707"	"L"	"Cta/Tta"	""	"1"	NA	-1	"CSMD3"	"HGNC"	19291	"protein_coding"	"YES"	"CCDS6315.1"	"ENSP00000297405"	"Q7Z407"	""	"UPI00001E0584"	"NM_198123.1"	""	""	"10/71"	""	"Gene3D:2.10.70.10,Pfam_domain:PF00084,PROSITE_profiles:PS50923,SMART_domains:SM00032,Superfamily_domains:SSF57535"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"24c1a858-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.433333333333333	"WGS"	FALSE
"14977"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	114502543	114502543	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"61"	26	67	"67"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"24c1c838-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298850574712644	"WGS"	FALSE
"14978"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	117894583	117894583	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"55"	27	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"24c23b10-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329268292682927	"WGS"	FALSE
"14979"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	119813763	119813763	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	65	"43"	22	43	"43"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"24c27008-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.338461538461538	"WGS"	FALSE
"14980"	"ENPP2"	5168	"mskcc.org"	"GRCh37"	"8"	120587794	120587794	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1936+4562A>C"	""	""	"ENST00000259486"	""	87	"64"	23	36	"36"	0	"ENPP2,intron_variant,,ENST00000427067,;ENPP2,intron_variant,,ENST00000259486,NM_006209.4;ENPP2,intron_variant,,ENST00000522826,NM_001130863.2;ENPP2,intron_variant,,ENST00000075322,NM_001040092.2;ENPP2,intron_variant,,ENST00000522167,;ENPP2,intron_variant,,ENST00000518109,;ENPP2,intron_variant,,ENST00000523861,;"	"G"	"ENSG00000136960"	"ENST00000259486"	"Transcript"	"intron_variant"	"-/3233"	"-/2748"	"-/915"	""	""	""	"1"	NA	-1	"ENPP2"	"HGNC"	3357	"protein_coding"	"YES"	"CCDS6329.1"	"ENSP00000259486"	"Q13822"	""	"UPI000013C57A"	"NM_006209.4"	""	""	""	"20/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"24c28f52-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264367816091954	"WGS"	FALSE
"14981"	"RP11-369K17.1"	0	"mskcc.org"	"GRCh37"	"8"	122058627	122058627	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.188+2912G>A"	""	""	"ENST00000517739"	""	86	"55"	31	52	"52"	0	"RP11-369K17.1,intron_variant,,ENST00000517739,;"	"A"	"ENSG00000253619"	"ENST00000517739"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/776"	""	""	""	""	""	"1"	NA	1	"RP11-369K17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"24c2c2b0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36046511627907	"WGS"	FALSE
"14982"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	123236847	123236847	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"58"	34	40	"40"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"24c2f5dc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.369565217391304	"WGS"	FALSE
"14983"	"ZHX1"	11244	"mskcc.org"	"GRCh37"	"8"	124272795	124272795	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-225-4384T>C"	""	""	"ENST00000395571"	""	84	"76"	8	48	"48"	0	"ZHX1,intron_variant,,ENST00000395571,NM_007222.4,NM_001017926.2;ZHX1,intron_variant,,ENST00000297857,;ZHX1,intron_variant,,ENST00000522655,;ZHX1-C8ORF76,intron_variant,,ENST00000357082,NM_001204180.1;RNU6-628P,upstream_gene_variant,,ENST00000410675,;ZHX1,intron_variant,,ENST00000522595,;ZHX1,intron_variant,,ENST00000517516,;ZHX1,intron_variant,,ENST00000524267,;ZHX1,intron_variant,,ENST00000480132,;"	"G"	"ENSG00000165156"	"ENST00000395571"	"Transcript"	"intron_variant"	"-/5108"	"-/2622"	"-/873"	""	""	""	"1"	NA	-1	"ZHX1"	"HGNC"	12871	"protein_coding"	"YES"	"CCDS6342.1"	"ENSP00000378938"	"Q9UKY1"	""	"UPI000007404F"	"NM_007222.4,NM_001017926.2"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"24c31b3e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"14984"	"ATAD2"	29028	"mskcc.org"	"GRCh37"	"8"	124377748	124377748	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1049+3550T>A"	""	""	"ENST00000287394"	""	82	"56"	26	35	"35"	0	"ATAD2,intron_variant,,ENST00000287394,NM_014109.3;ATAD2,intron_variant,,ENST00000521903,;ATAD2,intron_variant,,ENST00000534257,;ATAD2,intron_variant,,ENST00000517666,;ATAD2,intron_variant,,ENST00000519124,;ATAD2,intron_variant,,ENST00000521496,;"	"T"	"ENSG00000156802"	"ENST00000287394"	"Transcript"	"intron_variant"	"-/5565"	"-/4173"	"-/1390"	""	""	""	"1"	NA	-1	"ATAD2"	"HGNC"	30123	"protein_coding"	"YES"	"CCDS6343.1"	"ENSP00000287394"	"Q6PL18"	""	"UPI0000052A8C"	"NM_014109.3"	""	""	""	"8/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"24c321a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317073170731707	"WGS"	FALSE
"14985"	"RP11-37N22.1"	101927588	"mskcc.org"	"GRCh37"	"8"	125260772	125260772	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000523703"	""	72	"53"	19	55	"55"	0	"RP11-37N22.1,upstream_gene_variant,,ENST00000523703,;"	"A"	"ENSG00000214803"	"ENST00000523703"	"Transcript"	"upstream_gene_variant"	"-/1195"	""	""	""	""	""	"1"	"1133"	-1	"RP11-37N22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"24c34b7c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263888888888889	"WGS"	FALSE
"14986"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	127275079	127275079	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	64	"40"	24	46	"46"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"24c3b09e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.375	"WGS"	FALSE
"14987"	"CASC11"	100270680	"mskcc.org"	"GRCh37"	"8"	128733141	128733141	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.143+12930G>C"	""	""	"ENST00000502463"	""	87	"79"	8	51	"51"	0	"CASC11,intron_variant,,ENST00000502463,;CASC11,intron_variant,,ENST00000519071,;"	"G"	"ENSG00000249375"	"ENST00000502463"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3301"	""	""	""	""	""	"1"	NA	-1	"CASC11"	"HGNC"	48939	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"24c3edd4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"14988"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	132896412	132896412	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"52"	26	56	"55"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"24c49e78-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14989"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	132896414	132896414	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"52"	26	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"24c49f22-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"14990"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	135834603	135834603	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"79"	40	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"24c54026-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.336134453781513	"WGS"	FALSE
"14991"	"RP11-431D12.1"	0	"mskcc.org"	"GRCh37"	"8"	137543002	137543002	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000523232"	""	77	"49"	28	38	"38"	0	"RP11-30J20.1,upstream_gene_variant,,ENST00000524346,;RP11-30J20.1,upstream_gene_variant,,ENST00000520060,;RP11-431D12.1,downstream_gene_variant,,ENST00000523232,;"	"A"	"ENSG00000253839"	"ENST00000523232"	"Transcript"	"downstream_gene_variant"	"-/564"	""	""	""	""	""	"1"	"883"	1	"RP11-431D12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"24c57cd0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.363636363636364	"WGS"	FALSE
"14992"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	138534284	138534284	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"59"	25	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"24c59e90-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297619047619048	"WGS"	FALSE
"14993"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	138646455	138646455	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"46"	38	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"24c5a6ce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.452380952380952	"WGS"	FALSE
"14994"	"RP11-238K6.1"	401478	"mskcc.org"	"GRCh37"	"8"	139067902	139067902	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.514+27398C>G"	""	""	"ENST00000518973"	""	79	"53"	26	56	"56"	0	"RP11-238K6.1,intron_variant,,ENST00000518973,;"	"C"	"ENSG00000253288"	"ENST00000518973"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4171"	""	""	""	""	""	"1"	NA	-1	"RP11-238K6.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"24c5b2a4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.329113924050633	"WGS"	FALSE
"14995"	"TRAPPC9"	83696	"mskcc.org"	"GRCh37"	"8"	141078989	141078989	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2851-44813A>G"	""	""	"ENST00000389328"	""	93	"56"	37	59	"59"	0	"TRAPPC9,intron_variant,,ENST00000389328,NM_031466.5;TRAPPC9,intron_variant,,ENST00000438773,NM_001160372.1;TRAPPC9,intron_variant,,ENST00000389327,;TRAPPC9,intron_variant,,ENST00000520857,;TRAPPC9,intron_variant,,ENST00000521667,;TRAPPC9,intron_variant,,ENST00000523777,;TRAPPC9,intron_variant,,ENST00000520532,;TRAPPC9,intron_variant,,ENST00000517667,;"	"C"	"ENSG00000167632"	"ENST00000389328"	"Transcript"	"intron_variant"	"-/4474"	"-/3741"	"-/1246"	""	""	""	"1"	NA	-1	"TRAPPC9"	"HGNC"	30832	"protein_coding"	"YES"	"CCDS34946.1"	"ENSP00000373979"	"Q96Q05"	""	"UPI0000DBEF2B"	"NM_031466.5"	""	""	""	"17/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"24c64142-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.397849462365591	"WGS"	FALSE
"14996"	"GPIHBP1"	338328	"mskcc.org"	"GRCh37"	"8"	144298487	144298487	"+"	"3'UTR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1094C>T"	""	""	"ENST00000330824"	"4/4"	60	"39"	21	41	"41"	0	"GPIHBP1,3_prime_UTR_variant,,ENST00000330824,NM_178172.3;"	"T"	"ENSG00000182851"	"ENST00000330824"	"Transcript"	"3_prime_UTR_variant"	"1724/2281"	"-/555"	"-/184"	""	""	""	"1"	NA	1	"GPIHBP1"	"HGNC"	24945	"protein_coding"	"YES"	"CCDS34954.1"	"ENSP00000329266"	"Q8IV16"	""	"UPI00001867E1"	"NM_178172.3"	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"24c87c82-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WGS"	FALSE
"14997"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	144323626	144323626	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"75"	19	38	"38"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"24c88150-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202127659574468	"WGS"	FALSE
"14998"	"ZFP41"	286128	"mskcc.org"	"GRCh37"	"8"	144346151	144346151	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*901-10723C>G"	""	""	"ENST00000522452"	""	89	"53"	36	47	"47"	0	"ZFP41,intron_variant,,ENST00000522452,;ZFP41,downstream_gene_variant,,ENST00000330701,NM_173832.4;GLI4,upstream_gene_variant,,ENST00000340042,NM_138465.3;GLI4,upstream_gene_variant,,ENST00000521682,;GLI4,upstream_gene_variant,,ENST00000519876,;GLI4,upstream_gene_variant,,ENST00000522479,;"	"G"	"ENSG00000264668"	"ENST00000522452"	"Transcript"	"intron_variant"	"-/2897"	"-/597"	"-/198"	""	""	""	"1"	NA	1	"ZFP41"	"Uniprot_gn"	26786	"protein_coding"	"YES"	"CCDS6397.1"	"ENSP00000428966"	""	""	"UPI0000070522"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"24c884c0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.404494382022472	"WGS"	FALSE
"14999"	"GPAA1"	8733	"mskcc.org"	"GRCh37"	"8"	145141479	145141479	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000355091"	""	92	"65"	27	52	"52"	0	"GPAA1,downstream_gene_variant,,ENST00000355091,NM_003801.3;GPAA1,downstream_gene_variant,,ENST00000361036,;GPAA1,downstream_gene_variant,,ENST00000525087,;GPAA1,downstream_gene_variant,,ENST00000524418,;GPAA1,downstream_gene_variant,,ENST00000530258,;GPAA1,downstream_gene_variant,,ENST00000527144,;GPAA1,downstream_gene_variant,,ENST00000526341,;GPAA1,downstream_gene_variant,,ENST00000526233,;GPAA1,downstream_gene_variant,,ENST00000529638,;GPAA1,downstream_gene_variant,,ENST00000534072,;GPAA1,downstream_gene_variant,,ENST00000532758,;GPAA1,downstream_gene_variant,,ENST00000528073,;GPAA1,downstream_gene_variant,,ENST00000530796,;GPAA1,downstream_gene_variant,,ENST00000525308,;GPAA1,downstream_gene_variant,,ENST00000529503,;GPAA1,downstream_gene_variant,,ENST00000527653,;GPAA1,downstream_gene_variant,,ENST00000530633,;GPAA1,downstream_gene_variant,,ENST00000531593,;"	"T"	"ENSG00000197858"	"ENST00000355091"	"Transcript"	"downstream_gene_variant"	"-/2078"	"-/1866"	"-/621"	""	""	""	"1"	"360"	1	"GPAA1"	"HGNC"	4446	"protein_coding"	"YES"	"CCDS43776.1"	"ENSP00000347206"	"O43292"	"E9PLG8"	"UPI0000073ECC"	"NM_003801.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"24c8de3e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293478260869565	"WGS"	FALSE
"15000"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	145187450	145187450	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"67"	7	35	"35"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"24c8e758-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	FALSE
"15001"	"AF186192.6"	0	"mskcc.org"	"GRCh37"	"8"	145941089	145941089	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000583427"	""	77	"52"	25	39	"39"	0	"AF186192.6,downstream_gene_variant,,ENST00000583427,;"	"A"	"ENSG00000263612"	"ENST00000583427"	"Transcript"	"downstream_gene_variant"	"-/947"	""	""	""	""	""	"1"	"859"	1	"AF186192.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"24c95c24-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.324675324675325	"WGS"	FALSE
"15002"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	146192742	146192742	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"65"	34	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"24c98442-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.343434343434343	"WGS"	FALSE
"15003"	"RP11-143M1.2"	0	"mskcc.org"	"GRCh37"	"9"	88594	88594	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.310-148T>A"	""	""	"ENST00000429980"	""	88	"53"	35	43	"43"	0	"RP11-143M1.2,intron_variant,,ENST00000429980,;"	"A"	"ENSG00000225655"	"ENST00000429980"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/394"	""	""	""	""	""	"1"	NA	1	"RP11-143M1.2"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"24c9b67e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.397727272727273	"WGS"	FALSE
"15004"	"DOCK8"	81704	"mskcc.org"	"GRCh37"	"9"	443743	443743	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5580+227G>A"	""	""	"ENST00000453981"	""	79	"52"	27	50	"50"	0	"DOCK8,intron_variant,,ENST00000432829,NM_203447.3;DOCK8,intron_variant,,ENST00000453981,;DOCK8,intron_variant,,ENST00000469391,NM_001190458.1,NM_001193536.1;DOCK8,intron_variant,,ENST00000382329,;DOCK8,intron_variant,,ENST00000495184,;"	"A"	"ENSG00000107099"	"ENST00000453981"	"Transcript"	"intron_variant"	"-/7448"	"-/6300"	"-/2099"	""	""	""	"1"	NA	1	"DOCK8"	"HGNC"	19191	"protein_coding"	"YES"	"CCDS6440.2"	"ENSP00000408464"	"Q8NF50"	"E2J6M5,C9J7A3,C9J613"	"UPI0000E0B9E5"	""	""	""	""	"43/47"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"24c9ea22-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341772151898734	"WGS"	FALSE
"15005"	"KANK1"	23189	"mskcc.org"	"GRCh37"	"9"	680363	680363	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.37+3354T>C"	""	""	"ENST00000382303"	""	88	"49"	39	33	"33"	0	"KANK1,intron_variant,,ENST00000382303,NM_001256876.1;KANK1,intron_variant,,ENST00000382297,NM_001256877.1,NM_015158.3;RP11-130C19.3,intron_variant,,ENST00000421645,;RP11-130C19.3,upstream_gene_variant,,ENST00000608097,;KANK1,intron_variant,,ENST00000489369,;KANK1,intron_variant,,ENST00000354485,;"	"C"	"ENSG00000107104"	"ENST00000382303"	"Transcript"	"intron_variant"	"-/5581"	"-/4059"	"-/1352"	""	""	""	"1"	NA	1	"KANK1"	"HGNC"	19309	"protein_coding"	"YES"	"CCDS34976.1"	"ENSP00000371740"	"Q14678"	"Q8WUM7,Q53U93"	"UPI00001AF26E"	"NM_001256876.1"	""	""	""	"6/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"24c9f3c8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.443181818181818	"WGS"	FALSE
"15006"	"RP11-147I11.1"	0	"mskcc.org"	"GRCh37"	"9"	1016718	1016718	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000437555"	""	86	"80"	6	39	"39"	0	"RP11-147I11.1,downstream_gene_variant,,ENST00000437555,;"	"C"	"ENSG00000228783"	"ENST00000437555"	"Transcript"	"downstream_gene_variant"	"-/392"	""	""	""	""	""	"1"	"4919"	1	"RP11-147I11.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"24ca087c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"15007"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	2665212	2665212	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"88"	29	53	"52"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"24ca377a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247863247863248	"WGS"	FALSE
"15008"	"RP11-358M14.2"	101929330	"mskcc.org"	"GRCh37"	"9"	4306772	4306772	"+"	"3'Flank"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000440674"	""	99	"57"	42	59	"59"	0	"RP11-358M14.2,downstream_gene_variant,,ENST00000440674,;GLIS3,intron_variant,,ENST00000471664,;"	"G"	"ENSG00000228322"	"ENST00000440674"	"Transcript"	"downstream_gene_variant"	"-/873"	""	""	""	""	""	"1"	"726"	1	"RP11-358M14.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"24ca70f0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.424242424242424	"WGS"	FALSE
"15009"	"KIAA1432"	57589	"mskcc.org"	"GRCh37"	"9"	5695533	5695533	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.332+5495T>A"	""	""	"ENST00000414202"	""	77	"59"	18	44	"44"	0	"KIAA1432,intron_variant,,ENST00000414202,NM_001206557.1,NM_020829.3;KIAA1432,intron_variant,,ENST00000418622,;KIAA1432,intron_variant,,ENST00000251879,NM_001135920.2;KIAA1432,intron_variant,,ENST00000449720,;KIAA1432,intron_variant,,ENST00000545641,;KIAA1432,intron_variant,,ENST00000381532,;"	"A"	"ENSG00000107036"	"ENST00000414202"	"Transcript"	"intron_variant"	"-/6774"	"-/4272"	"-/1423"	""	""	""	"1"	NA	1	"KIAA1432"	"HGNC"	17686	"protein_coding"	"YES"	"CCDS34982.2"	"ENSP00000416696"	"Q4ADV7"	""	"UPI00002110DE"	"NM_001206557.1,NM_020829.3"	""	""	""	"3/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"24cab128-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233766233766234	"WGS"	FALSE
"15010"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	6115653	6115653	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"61"	23	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"24cabfa6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273809523809524	"WGS"	FALSE
"15011"	"RP11-390F4.2"	0	"mskcc.org"	"GRCh37"	"9"	6676078	6676078	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000427308"	""	87	"79"	8	36	"36"	0	"RP11-390F4.2,downstream_gene_variant,,ENST00000427308,;"	"T"	"ENSG00000232946"	"ENST00000427308"	"Transcript"	"downstream_gene_variant"	"-/331"	""	""	""	""	""	"1"	"464"	1	"RP11-390F4.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"24cae59e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"15012"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	7979352	7979352	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"64"	5	40	"40"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"24cb15fa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072463768115942	"WGS"	FALSE
"15013"	"PTPRD"	5789	"mskcc.org"	"GRCh37"	"9"	8414857	8414857	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs780787948"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4087-10197C>T"	""	""	"ENST00000356435"	""	48	"27"	21	35	"35"	0	"PTPRD,intron_variant,,ENST00000381196,NM_002839.3;PTPRD,intron_variant,,ENST00000356435,;PTPRD,intron_variant,,ENST00000360074,;PTPRD,intron_variant,,ENST00000358503,;PTPRD,intron_variant,,ENST00000355233,NM_130393.3,NM_130392.3,NM_130391.3;PTPRD,intron_variant,,ENST00000397617,;PTPRD,intron_variant,,ENST00000397611,NM_001040712.2;PTPRD,intron_variant,,ENST00000537002,;PTPRD,intron_variant,,ENST00000540109,;PTPRD,intron_variant,,ENST00000486161,;PTPRD,intron_variant,,ENST00000397606,NM_001171025.1;"	"A"	"ENSG00000153707"	"ENST00000356435"	"Transcript"	"intron_variant"	"-/9472"	"-/5739"	"-/1912"	""	""	"rs780787948"	"1"	NA	-1	"PTPRD"	"HGNC"	9668	"protein_coding"	""	"CCDS43786.1"	"ENSP00000348812"	"P23468"	"C9J6E4,B4DK48"	"UPI0000132990"	""	""	""	""	"24/34"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"24cb1e38-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4375	"WGS"	FALSE
"15014"	"PTPRD"	5789	"mskcc.org"	"GRCh37"	"9"	9219418	9219418	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-202-36055A>T"	""	""	"ENST00000381196"	""	85	"79"	6	60	"60"	0	"PTPRD,intron_variant,,ENST00000381196,NM_002839.3;PTPRD,intron_variant,,ENST00000463477,;"	"A"	"ENSG00000153707"	"ENST00000381196"	"Transcript"	"intron_variant"	"-/9911"	"-/5739"	"-/1912"	""	""	""	"1"	NA	-1	"PTPRD"	"HGNC"	9668	"protein_coding"	"YES"	"CCDS43786.1"	"ENSP00000370593"	"P23468"	"C9J6E4,B4DK48"	"UPI0000132990"	"NM_002839.3"	""	""	""	"6/42"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"24cb4728-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0705882352941176	"WGS"	FALSE
"15015"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	10666451	10666451	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"37"	32	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"24cb8198-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.463768115942029	"WGS"	FALSE
"15016"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	12309048	12309048	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"66"	37	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"24cbb870-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.359223300970874	"WGS"	FALSE
"15017"	"LINC00583"	100113404	"mskcc.org"	"GRCh37"	"9"	13950383	13950383	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000381010"	""	79	"54"	25	46	"46"	0	"LINC00583,downstream_gene_variant,,ENST00000381010,;"	"T"	"ENSG00000205636"	"ENST00000381010"	"Transcript"	"downstream_gene_variant"	"-/387"	""	""	""	""	""	"1"	"4774"	1	"LINC00583"	"HGNC"	31437	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"24cbe976-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.316455696202532	"WGS"	FALSE
"15018"	"BNC2"	54796	"mskcc.org"	"GRCh37"	"9"	16449883	16449883	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.670-12361A>C"	""	""	"ENST00000380672"	""	88	"54"	34	57	"56"	1	"BNC2,intron_variant,,ENST00000380672,NM_017637.5;BNC2,intron_variant,,ENST00000418777,;BNC2,intron_variant,,ENST00000380667,;BNC2,intron_variant,,ENST00000545497,;BNC2,intron_variant,,ENST00000380666,;BNC2,intron_variant,,ENST00000603713,;BNC2,intron_variant,,ENST00000484726,;"	"G"	"ENSG00000173068"	"ENST00000380672"	"Transcript"	"intron_variant"	"-/12844"	"-/3300"	"-/1099"	""	""	""	"1"	NA	-1	"BNC2"	"HGNC"	30988	"protein_coding"	"YES"	"CCDS6482.2"	"ENSP00000370047"	"Q6ZN30"	"S4R351,Q06HC7,Q06HC2,Q06HB9,D3DRJ1"	"UPI000035E7B0"	"NM_017637.5"	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"24cc46d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.386363636363636	"WGS"	FALSE
"15019"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	16905886	16905886	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"70"	6	40	"40"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"24cc5a46-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"15020"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	16940201	16940201	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"67"	6	32	"32"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"24cc619e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"15021"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	18009358	18009358	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"55"	31	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"24cc885e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36046511627907	"WGS"	FALSE
"15022"	"PLIN2"	123	"mskcc.org"	"GRCh37"	"9"	19152847	19152847	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000434144"	""	59	"51"	8	22	"22"	0	"PLIN2,upstream_gene_variant,,ENST00000434144,;PLIN2,upstream_gene_variant,,ENST00000494753,;"	"T"	"ENSG00000147872"	"ENST00000434144"	"Transcript"	"upstream_gene_variant"	"-/623"	"-/375"	"-/125"	""	""	""	"1"	"3571"	-1	"PLIN2"	"HGNC"	248	"protein_coding"	""	""	"ENSP00000403421"	""	"Q5SYF5"	"UPI00004701C5"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"24cccbb6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135593220338983	"WGS"	FALSE
"15023"	"DENND4C"	55667	"mskcc.org"	"GRCh37"	"9"	19226212	19226212	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000602925"	""	92	"70"	22	47	"47"	0	"DENND4C,upstream_gene_variant,,ENST00000602925,NM_017925.5;DENND4C,upstream_gene_variant,,ENST00000434457,;DENND4C,upstream_gene_variant,,ENST00000602708,;"	"C"	"ENSG00000137145"	"ENST00000602925"	"Transcript"	"upstream_gene_variant"	"-/6831"	"-/5730"	"-/1909"	""	""	""	"1"	"4221"	1	"DENND4C"	"HGNC"	26079	"protein_coding"	"YES"	"CCDS6491.3"	"ENSP00000473565"	""	"R4GNB2"	"UPI0000EE421F"	"NM_017925.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"24ccd6ec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239130434782609	"WGS"	FALSE
"15024"	"SLC24A2"	25769	"mskcc.org"	"GRCh37"	"9"	19561072	19561072	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1348-10806T>A"	""	""	"ENST00000341998"	""	78	"72"	6	43	"43"	0	"SLC24A2,intron_variant,,ENST00000341998,NM_001193288.2,NM_020344.3;SLC24A2,intron_variant,,ENST00000286344,;"	"T"	"ENSG00000155886"	"ENST00000341998"	"Transcript"	"intron_variant"	"-/10749"	"-/1986"	"-/661"	""	""	""	"1"	NA	-1	"SLC24A2"	"HGNC"	10976	"protein_coding"	"YES"	"CCDS6493.1"	"ENSP00000344801"	"Q9UI40"	""	"UPI000004FA46"	"NM_001193288.2,NM_020344.3"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"24ccf762-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"15025"	"FOCAD"	54914	"mskcc.org"	"GRCh37"	"9"	20974803	20974803	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4133-1616T>C"	""	""	"ENST00000380249"	""	76	"69"	7	39	"39"	0	"FOCAD,intron_variant,,ENST00000380249,NM_017794.3;FOCAD,intron_variant,,ENST00000338382,;FOCAD,intron_variant,,ENST00000605086,;FOCAD,intron_variant,,ENST00000603631,;"	"C"	"ENSG00000188352"	"ENST00000380249"	"Transcript"	"intron_variant"	"-/6096"	"-/5406"	"-/1801"	""	""	""	"1"	NA	1	"FOCAD"	"HGNC"	23377	"protein_coding"	"YES"	"CCDS34993.1"	"ENSP00000369599"	"Q5VW36"	"S4R450,S4R400,S4R3S9"	"UPI00002111D4"	"NM_017794.3"	""	""	""	"37/45"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"24cd2e8a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"15026"	"ENSR00001301531"	0	"mskcc.org"	"GRCh37"	"9"	22257520	22257520	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001301531"	""	85	"78"	7	46	"46"	0	""	"G"	""	"ENSR00001301531"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"24cd61d4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0823529411764706	"WGS"	FALSE
"15027"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	23250800	23250800	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"49"	22	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"24cd81b4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.309859154929577	"WGS"	FALSE
"15028"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	23535779	23535779	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"68"	36	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"24cd889e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.346153846153846	"WGS"	FALSE
"15029"	"ELAVL2"	1993	"mskcc.org"	"GRCh37"	"9"	23728112	23728112	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.333+2908A>C"	""	""	"ENST00000397312"	""	90	"82"	8	39	"39"	0	"ELAVL2,intron_variant,,ENST00000397312,NM_004432.3;ELAVL2,intron_variant,,ENST00000544538,NM_001171195.1;ELAVL2,intron_variant,,ENST00000223951,NM_001171197.1;ELAVL2,intron_variant,,ENST00000380110,;ELAVL2,intron_variant,,ENST00000380117,;ELAVL2,intron_variant,,ENST00000423281,;ELAVL2,intron_variant,,ENST00000440102,;"	"G"	"ENSG00000107105"	"ENST00000397312"	"Transcript"	"intron_variant"	"-/3805"	"-/1080"	"-/359"	""	""	""	"1"	NA	-1	"ELAVL2"	"HGNC"	3313	"protein_coding"	"YES"	"CCDS6515.1"	"ENSP00000380479"	"Q12926"	"C9JB16,B1AM48"	"UPI000013C83F"	"NM_004432.3"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"24cd8e20-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"15030"	"ELAVL2"	1993	"mskcc.org"	"GRCh37"	"9"	23728113	23728113	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.333+2907C>T"	""	""	"ENST00000397312"	""	86	"78"	8	39	"39"	0	"ELAVL2,intron_variant,,ENST00000397312,NM_004432.3;ELAVL2,intron_variant,,ENST00000544538,NM_001171195.1;ELAVL2,intron_variant,,ENST00000223951,NM_001171197.1;ELAVL2,intron_variant,,ENST00000380110,;ELAVL2,intron_variant,,ENST00000380117,;ELAVL2,intron_variant,,ENST00000423281,;ELAVL2,intron_variant,,ENST00000440102,;"	"A"	"ENSG00000107105"	"ENST00000397312"	"Transcript"	"intron_variant"	"-/3805"	"-/1080"	"-/359"	""	""	""	"1"	NA	-1	"ELAVL2"	"HGNC"	3313	"protein_coding"	"YES"	"CCDS6515.1"	"ENSP00000380479"	"Q12926"	"C9JB16,B1AM48"	"UPI000013C83F"	"NM_004432.3"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"24cd8ed4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"15031"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	26739124	26739124	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"44"	25	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"24cdeb4a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36231884057971	"WGS"	FALSE
"15032"	"LINGO2"	158038	"mskcc.org"	"GRCh37"	"9"	28014569	28014569	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"rs200620404"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-86-2166T>A"	""	""	"ENST00000379992"	""	40	"36"	4	15	"15"	0	"LINGO2,intron_variant,,ENST00000379992,NM_152570.2;LINGO2,intron_variant,,ENST00000308675,;"	"T"	"ENSG00000174482"	"ENST00000379992"	"Transcript"	"intron_variant"	"-/3044"	"-/1821"	"-/606"	""	""	"rs200620404"	"1"	NA	-1	"LINGO2"	"HGNC"	21207	"protein_coding"	"YES"	"CCDS6524.1"	"ENSP00000369328"	"Q7L985"	""	"UPI000004C7CD"	"NM_152570.2"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"24ce166a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"15033"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	31717604	31717604	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs75390201"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"60"	27	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs75390201"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0391"	"T:0.0023"	"T:0.0029"	NA	"T:0.121"	"T:0"	"T:0.0706"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"24cebeda-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"15034"	"NFX1"	4799	"mskcc.org"	"GRCh37"	"9"	33338213	33338213	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2036-295T>C"	""	""	"ENST00000379540"	""	77	"68"	9	37	"37"	0	"NFX1,intron_variant,,ENST00000379540,NM_002504.4;NFX1,intron_variant,,ENST00000379521,NM_147133.2;NFX1,intron_variant,,ENST00000318524,NM_147134.2;NFX1,upstream_gene_variant,,ENST00000466971,;"	"C"	"ENSG00000086102"	"ENST00000379540"	"Transcript"	"intron_variant"	"-/4604"	"-/3363"	"-/1120"	""	""	""	"1"	NA	1	"NFX1"	"HGNC"	7803	"protein_coding"	"YES"	"CCDS6538.1"	"ENSP00000368856"	"Q12986"	""	"UPI0000072140"	"NM_002504.4"	""	""	""	"11/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"24cf0db8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116883116883117	"WGS"	FALSE
"15035"	"RP11-311H10.4"	0	"mskcc.org"	"GRCh37"	"9"	33412979	33412979	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000450864"	""	71	"65"	6	38	"38"	0	"RP11-311H10.4,downstream_gene_variant,,ENST00000450864,;"	"C"	"ENSG00000223678"	"ENST00000450864"	"Transcript"	"downstream_gene_variant"	"-/353"	""	""	""	""	""	"1"	"3033"	1	"RP11-311H10.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"24cf11d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"15036"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	33479414	33479414	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"66"	10	38	"38"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"24cf1a06-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WGS"	FALSE
"15037"	"ANKRD18B"	441459	"mskcc.org"	"GRCh37"	"9"	33523626	33523626	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000290943"	""	92	"86"	6	47	"47"	0	"ANKRD18B,upstream_gene_variant,,ENST00000290943,NM_001244752.1;"	"C"	"ENSG00000230453"	"ENST00000290943"	"Transcript"	"upstream_gene_variant"	"-/3773"	"-/3036"	"-/1011"	""	""	""	"1"	"766"	1	"ANKRD18B"	"HGNC"	23644	"protein_coding"	"YES"	""	"ENSP00000290943"	"A2A2Z9"	""	"UPI0000EE047B"	"NM_001244752.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"24cf1c22-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"15038"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	33744594	33744594	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"79"	5	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"24cf250a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0595238095238095	"WGS"	FALSE
"15039"	"UBAP1"	51271	"mskcc.org"	"GRCh37"	"9"	34229798	34229798	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.227-4416A>T"	""	""	"ENST00000545103"	""	73	"67"	6	47	"47"	0	"UBAP1,intron_variant,,ENST00000536252,NM_001171203.2;UBAP1,intron_variant,,ENST00000540348,NM_001171204.2;UBAP1,intron_variant,,ENST00000297661,NM_016525.4;UBAP1,intron_variant,,ENST00000545103,NM_001171201.1;UBAP1,intron_variant,,ENST00000543944,NM_001171202.1;UBAP1,intron_variant,,ENST00000359544,;UBAP1,intron_variant,,ENST00000379186,;"	"T"	"ENSG00000165006"	"ENST00000545103"	"Transcript"	"intron_variant"	"-/2702"	"-/1701"	"-/566"	""	""	""	"1"	NA	1	"UBAP1"	"HGNC"	12461	"protein_coding"	"YES"	"CCDS55303.1"	"ENSP00000441024"	"Q9NZ09"	""	"UPI0001C2BF9D"	"NM_001171201.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"24cf6682-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"15040"	"KIF24"	347240	"mskcc.org"	"GRCh37"	"9"	34302502	34302502	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.813+3748A>G"	""	""	"ENST00000379166"	""	74	"67"	7	41	"41"	0	"KIF24,intron_variant,,ENST00000379166,NM_194313.2;KIF24,intron_variant,,ENST00000402558,;KIF24,intron_variant,,ENST00000345050,;KIF24,intron_variant,,ENST00000379174,;"	"C"	"ENSG00000186638"	"ENST00000379166"	"Transcript"	"intron_variant"	"-/6226"	"-/4107"	"-/1368"	""	""	""	"1"	NA	-1	"KIF24"	"HGNC"	19916	"protein_coding"	"YES"	"CCDS6551.2"	"ENSP00000368464"	"Q5T7B8"	""	"UPI00004F9D23"	"NM_194313.2"	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"24cf6e84-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	FALSE
"15041"	"PIGO"	84720	"mskcc.org"	"GRCh37"	"9"	35086667	35086667	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000378617"	""	100	"71"	29	56	"56"	0	"PIGO,downstream_gene_variant,,ENST00000378617,NM_032634.3;PIGO,downstream_gene_variant,,ENST00000341666,;PIGO,downstream_gene_variant,,ENST00000298004,NM_001201484.1;PIGO,downstream_gene_variant,,ENST00000361778,NM_152850.3;PIGO,downstream_gene_variant,,ENST00000491687,;PIGO,downstream_gene_variant,,ENST00000474436,;PIGO,downstream_gene_variant,,ENST00000465745,;"	"T"	"ENSG00000165282"	"ENST00000378617"	"Transcript"	"downstream_gene_variant"	"-/4066"	"-/3270"	"-/1089"	""	""	""	"1"	"2021"	-1	"PIGO"	"HGNC"	23215	"protein_coding"	"YES"	"CCDS6575.1"	"ENSP00000367880"	"Q8TEQ8"	""	"UPI0000048EF6"	"NM_032634.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"24cf997c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29	"WGS"	FALSE
"15042"	"STOML2"	30968	"mskcc.org"	"GRCh37"	"9"	35102523	35102523	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.183+160T>A"	""	""	"ENST00000356493"	""	103	"69"	34	47	"47"	0	"STOML2,intron_variant,,ENST00000356493,NM_013442.1,NM_001287032.1;STOML2,intron_variant,,ENST00000452248,NM_001287031.1;FAM214B,downstream_gene_variant,,ENST00000378561,;FAM214B,downstream_gene_variant,,ENST00000603301,;FAM214B,downstream_gene_variant,,ENST00000378557,;FAM214B,downstream_gene_variant,,ENST00000322813,NM_025182.2;FAM214B,downstream_gene_variant,,ENST00000605244,;FAM214B,downstream_gene_variant,,ENST00000488109,;FAM214B,downstream_gene_variant,,ENST00000378566,;FAM214B,downstream_gene_variant,,ENST00000378554,;RP11-182N22.8,downstream_gene_variant,,ENST00000431804,;STOML2,upstream_gene_variant,,ENST00000487490,;STOML2,upstream_gene_variant,,ENST00000488050,;"	"T"	"ENSG00000165283"	"ENST00000356493"	"Transcript"	"intron_variant"	"-/1278"	"-/1071"	"-/356"	""	""	""	"1"	NA	-1	"STOML2"	"HGNC"	14559	"protein_coding"	"YES"	"CCDS6577.1"	"ENSP00000348886"	"Q9UJZ1"	""	"UPI000006E47E"	"NM_013442.1,NM_001287032.1"	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"24cf9b8e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330097087378641	"WGS"	FALSE
"15043"	"UNC13B"	10497	"mskcc.org"	"GRCh37"	"9"	35160567	35160567	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000378495"	""	65	"60"	5	45	"45"	0	"UNC13B,upstream_gene_variant,,ENST00000378495,NM_006377.3;UNC13B,upstream_gene_variant,,ENST00000396787,;UNC13B,upstream_gene_variant,,ENST00000378496,;"	"G"	"ENSG00000198722"	"ENST00000378495"	"Transcript"	"upstream_gene_variant"	"-/6303"	"-/4776"	"-/1591"	""	""	""	"1"	"1492"	1	"UNC13B"	"HGNC"	12566	"protein_coding"	"YES"	"CCDS6579.1"	"ENSP00000367756"	"O14795"	""	"UPI0000211336"	"NM_006377.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"24cfa390-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"15044"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	36720745	36720745	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"71"	6	30	"30"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"24d00452-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"15045"	"ZCCHC7"	84186	"mskcc.org"	"GRCh37"	"9"	37306501	37306501	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.951+790T>C"	""	""	"ENST00000336755"	""	92	"85"	7	47	"47"	0	"ZCCHC7,intron_variant,,ENST00000336755,NM_032226.2;ZCCHC7,intron_variant,,ENST00000534928,;ZCCHC7,intron_variant,,ENST00000461038,;ZCCHC7,intron_variant,,ENST00000488607,;ZCCHC7,intron_variant,,ENST00000463625,;"	"C"	"ENSG00000147905"	"ENST00000336755"	"Transcript"	"intron_variant"	"-/2619"	"-/1632"	"-/543"	""	""	""	"1"	NA	1	"ZCCHC7"	"HGNC"	26209	"protein_coding"	"YES"	"CCDS6608.2"	"ENSP00000337839"	"Q8N3Z6"	"B4E024"	"UPI0000036027"	"NM_032226.2"	""	""	""	"5/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"24d021ee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"15046"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	38789785	38789785	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"41"	21	34	"34"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"24d07388-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.338709677419355	"WGS"	FALSE
"15047"	"CNTNAP3"	79937	"mskcc.org"	"GRCh37"	"9"	39109466	39109466	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2238-182C>T"	""	""	"ENST00000297668"	""	78	"58"	20	55	"55"	0	"CNTNAP3,intron_variant,,ENST00000297668,NM_033655.3;CNTNAP3,intron_variant,,ENST00000358144,;CNTNAP3,intron_variant,,ENST00000377656,;CNTNAP3,intron_variant,,ENST00000448573,;CNTNAP3,upstream_gene_variant,,ENST00000495573,;CNTNAP3,intron_variant,,ENST00000443583,;"	"A"	"ENSG00000106714"	"ENST00000297668"	"Transcript"	"intron_variant"	"-/5064"	"-/3867"	"-/1288"	""	""	""	"1"	NA	-1	"CNTNAP3"	"HGNC"	13834	"protein_coding"	"YES"	"CCDS6616.1"	"ENSP00000297668"	"Q9BZ76"	""	"UPI000013E43B"	"NM_033655.3"	""	""	""	"14/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"24d0c6d0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256410256410256	"WGS"	FALSE
"15048"	"RP11-292B8.1"	0	"mskcc.org"	"GRCh37"	"9"	40566756	40566756	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.390+15495G>T"	""	""	"ENST00000399669"	""	52	"41"	11	37	"37"	0	"RP11-292B8.1,intron_variant,,ENST00000399669,;"	"A"	"ENSG00000215142"	"ENST00000399669"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1477"	""	""	""	""	""	"1"	NA	-1	"RP11-292B8.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"24d123d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211538461538462	"WGS"	FALSE
"15049"	"RP11-395E19.7"	0	"mskcc.org"	"GRCh37"	"9"	40742934	40742934	"+"	"5'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000445963"	""	109	"73"	36	56	"56"	0	"RP11-395E19.7,upstream_gene_variant,,ENST00000445963,;"	"C"	"ENSG00000236361"	"ENST00000445963"	"Transcript"	"upstream_gene_variant"	"-/847"	""	""	""	""	""	"1"	"487"	-1	"RP11-395E19.7"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"24d13a52-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.330275229357798	"WGS"	FALSE
"15050"	"ZNF658"	26149	"mskcc.org"	"GRCh37"	"9"	40823129	40823129	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-202+13251C>T"	""	""	"ENST00000479710"	""	69	"42"	27	29	"29"	0	"ZNF658,intron_variant,,ENST00000479710,;"	"A"	"ENSG00000196409"	"ENST00000479710"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/2262"	"-/1854"	"-/617"	""	""	""	"1"	NA	-1	"ZNF658"	"HGNC"	25226	"nonsense_mediated_decay"	""	""	"ENSP00000434029"	"Q5TYW1"	""	"UPI000066DA4F"	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"24d141e6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.391304347826087	"WGS"	FALSE
"15051"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	44754620	44754620	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"67"	7	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"24d2638c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	FALSE
"15052"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	44754629	44754629	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"69"	7	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"24d26436-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0921052631578947	"WGS"	FALSE
"15053"	"RP11-318K12.2"	0	"mskcc.org"	"GRCh37"	"9"	66750440	66750440	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.186-1599T>A"	""	""	"ENST00000446288"	""	180	"151"	29	93	"93"	0	"RP11-318K12.2,intron_variant,,ENST00000446288,;RP11-318K12.2,intron_variant,,ENST00000439342,;"	"A"	"ENSG00000230857"	"ENST00000446288"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/507"	""	""	""	""	""	"1"	NA	1	"RP11-318K12.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"24d5c2d4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161111111111111	"WGS"	FALSE
"15054"	"PGM5"	5239	"mskcc.org"	"GRCh37"	"9"	70953320	70953320	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.453-859A>T"	""	""	"ENST00000604870"	""	97	"60"	37	45	"45"	0	"PGM5,intron_variant,,ENST00000604870,;"	"T"	"ENSG00000154330"	"ENST00000604870"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1699"	""	""	""	""	""	"1"	NA	1	"PGM5"	"HGNC"	8908	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"24db398a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.381443298969072	"WGS"	FALSE
"15055"	"C9orf85"	138241	"mskcc.org"	"GRCh37"	"9"	74584580	74584580	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.210-1841A>G"	""	""	"ENST00000334731"	""	108	"71"	37	44	"44"	0	"C9orf85,intron_variant,,ENST00000486911,;C9orf85,intron_variant,,ENST00000334731,NM_182505.3;C9orf85,intron_variant,,ENST00000377031,;C9orf85,intron_variant,,ENST00000479413,;C9orf85,intron_variant,,ENST00000473252,;C9orf85,intron_variant,,ENST00000377027,;"	"G"	"ENSG00000155621"	"ENST00000334731"	"Transcript"	"intron_variant"	"-/1279"	"-/474"	"-/157"	""	""	""	"1"	NA	1	"C9orf85"	"HGNC"	28784	"protein_coding"	"YES"	"CCDS6639.1"	"ENSP00000334289"	"Q96MD7"	"F6X0R3"	"UPI0000197C73"	"NM_182505.3"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"24dc3826-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342592592592593	"WGS"	FALSE
"15056"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	75040438	75040438	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"63"	7	31	"31"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"24dc5a18-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"15057"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	75040751	75040751	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	34	"30"	4	14	"14"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"24dc5ac2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"15058"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	75466125	75466125	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs567560079"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	27	"23"	4	15	"15"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs567560079"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"24dc730e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"15059"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	76207653	76207653	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"56"	19	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"24dc8434-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253333333333333	"WGS"	FALSE
"15060"	"TLE4"	7091	"mskcc.org"	"GRCh37"	"9"	82197007	82197007	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.252+5915G>A"	""	""	"ENST00000376552"	""	81	"54"	27	58	"58"	0	"TLE4,intron_variant,,ENST00000376520,;TLE4,intron_variant,,ENST00000376544,NM_001282753.1;TLE4,intron_variant,,ENST00000376552,NM_007005.3;TLE4,intron_variant,,ENST00000376534,;TLE4,intron_variant,,ENST00000376537,NM_001282748.1;TLE4,intron_variant,,ENST00000265284,NM_001282749.1;TLE4,intron_variant,,ENST00000428713,;TLE4,intron_variant,,ENST00000435650,;TLE4,intron_variant,,ENST00000425506,;TLE4,intron_variant,,ENST00000414465,;TLE4,intron_variant,,ENST00000455913,;TLE4,intron_variant,,ENST00000496853,;TLE4,intron_variant,,ENST00000474519,;TLE4,intron_variant,,ENST00000483597,;TLE4,downstream_gene_variant,,ENST00000476523,;TLE4,downstream_gene_variant,,ENST00000376524,;TLE4,intron_variant,,ENST00000470872,;TLE4,intron_variant,,ENST00000462803,;TLE4,intron_variant,,ENST00000485159,;TLE4,intron_variant,,ENST00000466428,;"	"A"	"ENSG00000106829"	"ENST00000376552"	"Transcript"	"intron_variant"	"-/3695"	"-/2322"	"-/773"	""	""	""	"1"	NA	1	"TLE4"	"HGNC"	11840	"protein_coding"	"YES"	"CCDS43837.1"	"ENSP00000365735"	"Q04727"	"B3KQ29"	"UPI00001CE3BA"	"NM_007005.3"	""	""	""	"4/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"24dd8078-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"15061"	"NPAP1P6"	0	"mskcc.org"	"GRCh37"	"9"	82480366	82480366	"+"	"RNA"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2433A>T"	""	""	"ENST00000440671"	"1/2"	80	"73"	7	35	"35"	0	"NPAP1P6,non_coding_transcript_exon_variant,,ENST00000440671,;"	"T"	"ENSG00000238002"	"ENST00000440671"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"2433/3484"	""	""	""	""	""	"1"	NA	1	"NPAP1P6"	"HGNC"	45023	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"24dd89a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0875	"WGS"	FALSE
"15062"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	82809546	82809546	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"69"	12	27	"27"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"24dd9eaa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"15063"	"RNA5SP287"	0	"mskcc.org"	"GRCh37"	"9"	84499794	84499794	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516358"	""	96	"88"	8	48	"48"	0	"RNA5SP287,upstream_gene_variant,,ENST00000516358,;SNORD95,upstream_gene_variant,,ENST00000364099,;"	"A"	"ENSG00000252167"	"ENST00000516358"	"Transcript"	"upstream_gene_variant"	"-/103"	""	""	""	""	""	"1"	"617"	1	"RNA5SP287"	"HGNC"	43187	"rRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"24ddfb34-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"15064"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	84520317	84520317	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"58"	27	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"24ddfeae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317647058823529	"WGS"	FALSE
"15065"	"ENSR00001471948"	0	"mskcc.org"	"GRCh37"	"9"	85549591	85549591	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001471948"	""	84	"53"	31	57	"57"	0	""	"A"	""	"ENSR00001471948"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"24de273a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.369047619047619	"WGS"	FALSE
"15066"	"AGTPBP1"	23287	"mskcc.org"	"GRCh37"	"9"	88273998	88273998	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.701-1440T>A"	""	""	"ENST00000376083"	""	90	"65"	25	55	"55"	0	"AGTPBP1,intron_variant,,ENST00000357081,NM_001286715.1;AGTPBP1,intron_variant,,ENST00000337006,;AGTPBP1,intron_variant,,ENST00000376109,NM_001286717.1;AGTPBP1,intron_variant,,ENST00000376083,NM_015239.2;AGTPBP1,intron_variant,,ENST00000432218,;AGTPBP1,intron_variant,,ENST00000376081,;AGTPBP1,intron_variant,,ENST00000376080,;AGTPBP1,intron_variant,,ENST00000491784,;"	"T"	"ENSG00000135049"	"ENST00000376083"	"Transcript"	"intron_variant"	"-/4205"	"-/3561"	"-/1186"	""	""	""	"1"	NA	-1	"AGTPBP1"	"HGNC"	17258	"protein_coding"	"YES"	"CCDS6672.1"	"ENSP00000365251"	"Q9UPW5"	""	"UPI000013CF66"	"NM_015239.2"	""	""	""	"9/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"24de98fa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"15067"	"SNORA26"	0	"mskcc.org"	"GRCh37"	"9"	89879917	89879917	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000391119"	""	73	"66"	7	41	"41"	0	"SNORA26,downstream_gene_variant,,ENST00000391119,;"	"A"	"ENSG00000212421"	"ENST00000391119"	"Transcript"	"downstream_gene_variant"	"-/136"	""	""	""	""	""	"1"	"4417"	1	"SNORA26"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"24dee8e6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"15068"	"SPIN1"	10927	"mskcc.org"	"GRCh37"	"9"	91023749	91023749	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-158-17548T>C"	""	""	"ENST00000375859"	""	65	"57"	8	37	"37"	0	"SPIN1,intron_variant,,ENST00000375859,NM_006717.2;SPIN1,intron_variant,,ENST00000541629,;SPIN1,intron_variant,,ENST00000469017,;SPIN1,intron_variant,,ENST00000485804,;SPIN1,intron_variant,,ENST00000485565,;SPIN1,intron_variant,,ENST00000483785,;SPIN1,intron_variant,,ENST00000462844,;HNRNPA1P14,downstream_gene_variant,,ENST00000440352,;"	"C"	"ENSG00000106723"	"ENST00000375859"	"Transcript"	"intron_variant"	"-/4484"	"-/789"	"-/262"	""	""	""	"1"	NA	1	"SPIN1"	"HGNC"	11243	"protein_coding"	"YES"	"CCDS43843.1"	"ENSP00000365019"	"Q9Y657"	""	"UPI000006DD5B"	"NM_006717.2"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"24df47dc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123076923076923	"WGS"	FALSE
"15069"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	91520970	91520970	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"51"	31	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"24df6816-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.378048780487805	"WGS"	FALSE
"15070"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	92187202	92187202	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"65"	37	39	"39"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"24df8f12-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.362745098039216	"WGS"	FALSE
"15071"	"ALOX15P2"	0	"mskcc.org"	"GRCh37"	"9"	95670798	95670798	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000340858"	""	86	"53"	33	46	"46"	0	"ALOX15P2,upstream_gene_variant,,ENST00000340858,;"	"A"	"ENSG00000188101"	"ENST00000340858"	"Transcript"	"upstream_gene_variant"	"-/1897"	""	""	""	""	""	"1"	"4640"	1	"ALOX15P2"	"HGNC"	39027	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"24e036ec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.383720930232558	"WGS"	FALSE
"15072"	"PHF2"	5253	"mskcc.org"	"GRCh37"	"9"	96402397	96402397	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.299+3590T>C"	""	""	"ENST00000359246"	""	82	"50"	32	50	"50"	0	"PHF2,intron_variant,,ENST00000359246,NM_005392.3;PHF2,intron_variant,,ENST00000375376,;"	"C"	"ENSG00000197724"	"ENST00000359246"	"Transcript"	"intron_variant"	"-/5565"	"-/3291"	"-/1096"	""	""	""	"1"	NA	1	"PHF2"	"HGNC"	8920	"protein_coding"	"YES"	"CCDS35069.1"	"ENSP00000352185"	"O75151"	""	"UPI0000211A97"	"NM_005392.3"	""	""	""	"3/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"24e063a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.390243902439024	"WGS"	FALSE
"15073"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	97290806	97290806	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"59"	21	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"24e0a50a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2625	"WGS"	FALSE
"15074"	"SLC35D2"	11046	"mskcc.org"	"GRCh37"	"9"	99136772	99136772	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.159-6185A>G"	""	""	"ENST00000253270"	""	71	"61"	10	29	"29"	0	"SLC35D2,intron_variant,,ENST00000253270,NM_007001.2;SLC35D2,intron_variant,,ENST00000375259,NM_001286990.1;SLC35D2,intron_variant,,ENST00000375257,;SLC35D2,intron_variant,,ENST00000482643,;"	"C"	"ENSG00000130958"	"ENST00000253270"	"Transcript"	"intron_variant"	"-/1613"	"-/1014"	"-/337"	""	""	""	"1"	NA	-1	"SLC35D2"	"HGNC"	20799	"protein_coding"	"YES"	"CCDS6717.1"	"ENSP00000253270"	"Q76EJ3"	"Q5VZJ2"	"UPI000003778E"	"NM_007001.2"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"24e103a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.140845070422535	"WGS"	FALSE
"15075"	"RP11-535M15.1"	100996557	"mskcc.org"	"GRCh37"	"9"	99446626	99446626	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000423924"	""	80	"73"	7	41	"41"	0	"RP11-535M15.1,upstream_gene_variant,,ENST00000423924,;"	"T"	"ENSG00000224848"	"ENST00000423924"	"Transcript"	"upstream_gene_variant"	"-/425"	""	""	""	""	""	"1"	"2712"	1	"RP11-535M15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"24e12110-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0875	"WGS"	FALSE
"15076"	"CCDC180"	100499483	"mskcc.org"	"GRCh37"	"9"	100017292	100017292	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1122+3453A>G"	""	""	"ENST00000375202"	""	76	"45"	31	35	"35"	0	"CCDC180,intron_variant,,ENST00000375202,;CCDC180,intron_variant,,ENST00000357054,;CCDC180,intron_variant,,ENST00000395220,;CCDC180,intron_variant,,ENST00000411667,;CCDC180,intron_variant,,ENST00000375205,;RP11-23J9.4,intron_variant,,ENST00000534123,;RP11-23J9.4,intron_variant,,ENST00000375206,;RP11-23J9.4,intron_variant,,ENST00000532526,;RP11-23J9.5,intron_variant,,ENST00000375204,;RP11-23J9.5,intron_variant,,ENST00000527128,;"	"G"	"ENSG00000197816"	"ENST00000375202"	"Transcript"	"intron_variant"	"-/6851"	"-/5106"	"-/1701"	""	""	""	"1"	NA	1	"CCDC180"	"HGNC"	29303	"protein_coding"	"YES"	"CCDS35077.2"	"ENSP00000364348"	"Q9P1Z9"	"B7ZMG3"	"UPI00016277C6"	""	""	""	""	"4/50"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"24e14d8e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.407894736842105	"WGS"	FALSE
"15077"	"TDRD7"	23424	"mskcc.org"	"GRCh37"	"9"	100196837	100196837	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.563+2317C>T"	""	""	"ENST00000355295"	""	86	"57"	29	61	"61"	0	"TDRD7,intron_variant,,ENST00000355295,NM_014290.2;TDRD7,intron_variant,,ENST00000422139,;"	"T"	"ENSG00000196116"	"ENST00000355295"	"Transcript"	"intron_variant"	"-/3834"	"-/3297"	"-/1098"	""	""	""	"1"	NA	1	"TDRD7"	"HGNC"	30831	"protein_coding"	"YES"	"CCDS6725.1"	"ENSP00000347444"	"Q8NHU6"	""	"UPI00002114B5"	"NM_014290.2"	""	""	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"24e15586-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337209302325581	"WGS"	FALSE
"15078"	"GABBR2"	9568	"mskcc.org"	"GRCh37"	"9"	101425577	101425577	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.321+45122C>A"	""	""	"ENST00000259455"	""	78	"56"	22	46	"46"	0	"GABBR2,intron_variant,,ENST00000259455,NM_005458.7;"	"T"	"ENSG00000136928"	"ENST00000259455"	"Transcript"	"intron_variant"	"-/5761"	"-/2826"	"-/941"	""	""	""	"1"	NA	-1	"GABBR2"	"HGNC"	4507	"protein_coding"	"YES"	"CCDS6736.1"	"ENSP00000259455"	"O75899"	"H9NIL8"	"UPI0000035832"	"NM_005458.7"	""	""	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"24e18c7c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282051282051282	"WGS"	FALSE
"15079"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	105240440	105240440	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"52"	40	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"24e21642-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.434782608695652	"WGS"	FALSE
"15080"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	109908073	109908073	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"72"	28	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"24e2b174-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"15081"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	111024323	111024323	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"58"	25	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"24e2f3b4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301204819277108	"WGS"	FALSE
"15082"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	111272584	111272584	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"75"	8	40	"40"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"24e2f936-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0963855421686747	"WGS"	FALSE
"15083"	"MUSK"	4593	"mskcc.org"	"GRCh37"	"9"	113465428	113465428	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.628+5682C>G"	""	""	"ENST00000374448"	""	89	"65"	24	59	"59"	0	"MUSK,intron_variant,,ENST00000416899,;MUSK,intron_variant,,ENST00000189978,;MUSK,intron_variant,,ENST00000374448,NM_005592.3,NM_001166281.1;MUSK,intron_variant,,ENST00000374440,;MUSK,intron_variant,,ENST00000374439,;"	"G"	"ENSG00000030304"	"ENST00000374448"	"Transcript"	"intron_variant"	"-/2754"	"-/2610"	"-/869"	""	""	""	"1"	NA	1	"MUSK"	"HGNC"	7525	"protein_coding"	"YES"	"CCDS48005.1"	"ENSP00000363571"	"O15146"	""	"UPI000006D2F7"	"NM_005592.3,NM_001166281.1"	""	""	""	"5/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"24e3463e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269662921348315	"WGS"	FALSE
"15084"	"SUSD1"	64420	"mskcc.org"	"GRCh37"	"9"	114827016	114827016	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1754-1703G>T"	""	""	"ENST00000374270"	""	79	"47"	32	35	"35"	0	"SUSD1,intron_variant,,ENST00000374270,NM_022486.3;SUSD1,intron_variant,,ENST00000374263,NM_001282643.1;SUSD1,intron_variant,,ENST00000355396,;SUSD1,intron_variant,,ENST00000374264,NM_001282640.1;"	"A"	"ENSG00000106868"	"ENST00000374270"	"Transcript"	"intron_variant"	"-/3124"	"-/2244"	"-/747"	""	""	""	"1"	NA	-1	"SUSD1"	"HGNC"	25413	"protein_coding"	"YES"	"CCDS6783.1"	"ENSP00000363388"	"Q6UWL2"	""	"UPI0000049E0D"	"NM_022486.3"	""	""	""	"12/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"24e38f4a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.40506329113924	"WGS"	FALSE
"15085"	"HSDL2"	84263	"mskcc.org"	"GRCh37"	"9"	115150634	115150634	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs111623750"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.17+8174G>A"	""	""	"ENST00000398805"	""	89	"82"	7	48	"48"	0	"HSDL2,intron_variant,,ENST00000398805,NM_032303.4;HSDL2,intron_variant,,ENST00000398803,NM_001195822.1;HSDL2,intron_variant,,ENST00000262542,;HSDL2,intron_variant,,ENST00000539114,;HSDL2,intron_variant,,ENST00000488101,;HSDL2,intron_variant,,ENST00000467434,;"	"A"	"ENSG00000119471"	"ENST00000398805"	"Transcript"	"intron_variant"	"-/3350"	"-/1257"	"-/418"	""	""	"rs111623750"	"1"	NA	1	"HSDL2"	"HGNC"	18572	"protein_coding"	"YES"	"CCDS43864.1"	"ENSP00000381785"	"Q6YN16"	"B4E136,B4DWC7"	"UPI0000039E52"	"NM_032303.4"	""	""	""	"1/10"	""	"A:0.0270"	"A:0.003"	"A:0.0447"	NA	"A:0.0942"	"A:0"	"A:0.0051"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"24e3a53e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0786516853932584	"WGS"	FALSE
"15086"	"DENND1A"	57706	"mskcc.org"	"GRCh37"	"9"	126680172	126680172	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.17+11996T>C"	""	""	"ENST00000373624"	""	80	"72"	8	47	"47"	0	"DENND1A,intron_variant,,ENST00000373624,NM_020946.1;DENND1A,intron_variant,,ENST00000373620,NM_024820.2;DENND1A,intron_variant,,ENST00000394219,;DENND1A,intron_variant,,ENST00000373618,;DENND1A,intron_variant,,ENST00000394215,;"	"G"	"ENSG00000119522"	"ENST00000373624"	"Transcript"	"intron_variant"	"-/5010"	"-/3030"	"-/1009"	""	""	""	"1"	NA	-1	"DENND1A"	"HGNC"	29324	"protein_coding"	"YES"	"CCDS35133.1"	"ENSP00000362727"	"Q8TEH3"	""	"UPI00004589D2"	"NM_020946.1"	""	""	""	"1/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"24e58192-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"15087"	"MAPKAP1"	79109	"mskcc.org"	"GRCh37"	"9"	128440703	128440703	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-69-5781T>C"	""	""	"ENST00000265960"	""	76	"52"	24	27	"27"	0	"MAPKAP1,intron_variant,,ENST00000265960,NM_001006617.1;MAPKAP1,intron_variant,,ENST00000350766,NM_024117.3;MAPKAP1,intron_variant,,ENST00000373511,NM_001006619.1;MAPKAP1,intron_variant,,ENST00000373503,NM_001006620.1;MAPKAP1,intron_variant,,ENST00000394063,NM_001006621.1;MAPKAP1,intron_variant,,ENST00000394060,NM_001006618.1;MAPKAP1,intron_variant,,ENST00000427078,;MAPKAP1,intron_variant,,ENST00000433483,;MAPKAP1,intron_variant,,ENST00000373496,;"	"G"	"ENSG00000119487"	"ENST00000265960"	"Transcript"	"intron_variant"	"-/3395"	"-/1569"	"-/522"	""	""	""	"1"	NA	-1	"MAPKAP1"	"HGNC"	18752	"protein_coding"	"YES"	"CCDS35140.1"	"ENSP00000265960"	"Q9BPZ7"	"B1AMB1,B1AMA6"	"UPI00000372F6"	"NM_001006617.1"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"24e60b62-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315789473684211	"WGS"	FALSE
"15088"	"MAPKAP1"	79109	"mskcc.org"	"GRCh37"	"9"	128464869	128464869	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-70+4381G>C"	""	""	"ENST00000265960"	""	74	"69"	5	46	"46"	0	"MAPKAP1,intron_variant,,ENST00000265960,NM_001006617.1;MAPKAP1,intron_variant,,ENST00000350766,NM_024117.3;MAPKAP1,intron_variant,,ENST00000373511,NM_001006619.1;MAPKAP1,intron_variant,,ENST00000373503,NM_001006620.1;MAPKAP1,intron_variant,,ENST00000394063,NM_001006621.1;MAPKAP1,intron_variant,,ENST00000394060,NM_001006618.1;MAPKAP1,intron_variant,,ENST00000427078,;MAPKAP1,intron_variant,,ENST00000433483,;MAPKAP1,intron_variant,,ENST00000373496,;"	"G"	"ENSG00000119487"	"ENST00000265960"	"Transcript"	"intron_variant"	"-/3395"	"-/1569"	"-/522"	""	""	""	"1"	NA	-1	"MAPKAP1"	"HGNC"	18752	"protein_coding"	"YES"	"CCDS35140.1"	"ENSP00000265960"	"Q9BPZ7"	"B1AMB1,B1AMA6"	"UPI00000372F6"	"NM_001006617.1"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"24e60cfc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0675675675675676	"WGS"	FALSE
"15089"	"ST6GALNAC6"	30815	"mskcc.org"	"GRCh37"	"9"	130653715	130653715	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.298-393A>T"	""	""	"ENST00000373146"	""	58	"54"	4	39	"39"	0	"ST6GALNAC6,intron_variant,,ENST00000373146,;ST6GALNAC6,intron_variant,,ENST00000373142,NM_013443.3,NM_001286999.1;ST6GALNAC6,intron_variant,,ENST00000373141,NM_001287002.1,NM_001287001.1;ST6GALNAC6,intron_variant,,ENST00000373144,NM_001287000.1;ST6GALNAC6,intron_variant,,ENST00000291839,;ST6GALNAC6,intron_variant,,ENST00000542456,;ST6GALNAC6,intron_variant,,ENST00000447681,;ST6GALNAC6,intron_variant,,ENST00000485320,;ST6GALNAC6,intron_variant,,ENST00000480417,;ST6GALNAC6,intron_variant,,ENST00000494541,;ST6GALNAC6,intron_variant,,ENST00000463086,;RP11-203J24.9,upstream_gene_variant,,ENST00000476274,;ST6GALNAC6,downstream_gene_variant,,ENST00000494611,;ST6GALNAC6,downstream_gene_variant,,ENST00000481355,;ST6GALNAC6,downstream_gene_variant,,ENST00000478319,;"	"A"	"ENSG00000160408"	"ENST00000373146"	"Transcript"	"intron_variant"	"-/2460"	"-/1002"	"-/333"	""	""	""	"1"	NA	-1	"ST6GALNAC6"	"HGNC"	23364	"protein_coding"	"YES"	"CCDS6882.1"	"ENSP00000362239"	"Q969X2"	""	"UPI0000073734"	""	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"24e6938e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"15090"	"SLC27A4"	10999	"mskcc.org"	"GRCh37"	"9"	131128420	131128420	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000300456"	""	78	"70"	8	28	"28"	0	"SLC27A4,downstream_gene_variant,,ENST00000300456,NM_005094.3;SLC27A4,downstream_gene_variant,,ENST00000372870,;"	"C"	"ENSG00000167114"	"ENST00000300456"	"Transcript"	"downstream_gene_variant"	"-/3028"	"-/1932"	"-/643"	""	""	""	"1"	"4671"	1	"SLC27A4"	"HGNC"	10998	"protein_coding"	"YES"	"CCDS6899.1"	"ENSP00000300456"	"Q6P1M0"	""	"UPI0000038E80"	"NM_005094.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"24e6d9d4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"15091"	"RP11-339B21.8"	0	"mskcc.org"	"GRCh37"	"9"	131210449	131210449	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000449048"	""	98	"88"	10	41	"41"	0	"RP11-339B21.8,downstream_gene_variant,,ENST00000449048,;"	"G"	"ENSG00000228510"	"ENST00000449048"	"Transcript"	"downstream_gene_variant"	"-/1734"	""	""	""	""	""	"1"	"1542"	1	"RP11-339B21.8"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"24e6e58c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WGS"	FALSE
"15092"	"WDR34"	89891	"mskcc.org"	"GRCh37"	"9"	131417549	131417549	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"rs539553060"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.186+1271G>T"	""	""	"ENST00000372715"	""	69	"64"	5	35	"35"	0	"WDR34,intron_variant,,ENST00000372715,NM_052844.3;WDR34,intron_variant,,ENST00000451652,;WDR34,intron_variant,,ENST00000419989,;WDR34,intron_variant,,ENST00000480613,;VTI1BP4,downstream_gene_variant,,ENST00000427516,;"	"A"	"ENSG00000119333"	"ENST00000372715"	"Transcript"	"intron_variant"	"-/1755"	"-/1611"	"-/536"	""	""	"rs539553060"	"1"	NA	-1	"WDR34"	"HGNC"	28296	"protein_coding"	"YES"	"CCDS6906.2"	"ENSP00000361800"	"Q96EX3"	""	"UPI000045894D"	"NM_052844.3"	""	""	""	"1/8"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"24e705f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072463768115942	"WGS"	FALSE
"15093"	"ZER1"	10444	"mskcc.org"	"GRCh37"	"9"	131536420	131536420	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000291900"	""	87	"79"	8	48	"48"	0	"ZER1,upstream_gene_variant,,ENST00000291900,NM_006336.3;ZER1,upstream_gene_variant,,ENST00000414921,;ZER1,upstream_gene_variant,,ENST00000427848,;ZER1,upstream_gene_variant,,ENST00000494461,;"	"A"	"ENSG00000160445"	"ENST00000291900"	"Transcript"	"upstream_gene_variant"	"-/4259"	"-/2301"	"-/766"	""	""	""	"1"	"2248"	-1	"ZER1"	"HGNC"	30960	"protein_coding"	"YES"	"CCDS6910.1"	"ENSP00000291900"	"Q7Z7L7"	"Q05BR7"	"UPI000013E085"	"NM_006336.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"24e71a34-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0919540229885057	"WGS"	FALSE
"15094"	"PRRX2"	51450	"mskcc.org"	"GRCh37"	"9"	132462777	132462777	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.260-18733T>G"	""	""	"ENST00000372469"	""	84	"68"	16	52	"52"	0	"PRRX2,intron_variant,,ENST00000372469,NM_016307.3;"	"G"	"ENSG00000167157"	"ENST00000372469"	"Transcript"	"intron_variant"	"-/1233"	"-/762"	"-/253"	""	""	""	"1"	NA	1	"PRRX2"	"HGNC"	21338	"protein_coding"	"YES"	"CCDS6926.1"	"ENSP00000361547"	"Q99811"	""	"UPI0000131D13"	"NM_016307.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"24e78f1e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"15095"	"GPR107"	57720	"mskcc.org"	"GRCh37"	"9"	132863196	132863196	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"rs568270425"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1014-189C>G"	""	""	"ENST00000372406"	""	95	"62"	33	35	"35"	0	"GPR107,intron_variant,,ENST00000372406,NM_001136557.1;GPR107,intron_variant,,ENST00000347136,NM_020960.4;GPR107,intron_variant,,ENST00000372410,NM_001136558.1;GPR107,intron_variant,,ENST00000493417,NM_001287346.1;"	"G"	"ENSG00000148358"	"ENST00000372406"	"Transcript"	"intron_variant"	"-/7353"	"-/1803"	"-/600"	""	""	"rs568270425"	"1"	NA	1	"GPR107"	"HGNC"	17830	"protein_coding"	"YES"	"CCDS48041.1"	"ENSP00000361483"	"Q5VW38"	"B7ZL93"	"UPI00004589E0"	"NM_001136557.1"	""	""	""	"11/19"	""	"G:0.0004"	"G:0"	"G:0"	NA	"G:0.001"	"G:0"	"G:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"24e7bcf0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347368421052632	"WGS"	FALSE
"15096"	"NCS1"	23413	"mskcc.org"	"GRCh37"	"9"	132983489	132983489	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.307+1407A>G"	""	""	"ENST00000372398"	""	85	"77"	8	30	"30"	0	"NCS1,intron_variant,,ENST00000372398,NM_014286.3;NCS1,intron_variant,,ENST00000458469,NM_001128826.1;NCS1,downstream_gene_variant,,ENST00000493042,;"	"G"	"ENSG00000107130"	"ENST00000372398"	"Transcript"	"intron_variant"	"-/4991"	"-/573"	"-/190"	""	""	""	"1"	NA	1	"NCS1"	"HGNC"	3953	"protein_coding"	"YES"	"CCDS6932.1"	"ENSP00000361475"	"P62166"	""	"UPI00000000FB"	"NM_014286.3"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"24e7c998-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0941176470588235	"WGS"	FALSE
"15097"	"PRDM12"	59335	"mskcc.org"	"GRCh37"	"9"	133536090	133536090	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000253008"	""	83	"53"	30	42	"42"	0	"PRDM12,upstream_gene_variant,,ENST00000253008,NM_021619.2;"	"A"	"ENSG00000130711"	"ENST00000253008"	"Transcript"	"upstream_gene_variant"	"-/2476"	"-/1104"	"-/367"	""	""	""	"1"	"3891"	1	"PRDM12"	"HGNC"	13997	"protein_coding"	"YES"	"CCDS6934.1"	"ENSP00000253008"	"Q9H4Q4"	""	"UPI0000132184"	"NM_021619.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"24e8025a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.36144578313253	"WGS"	FALSE
"15098"	"ABL1"	25	"mskcc.org"	"GRCh37"	"9"	133605657	133605657	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.136+15815A>G"	""	""	"ENST00000372348"	""	62	"53"	9	29	"29"	0	"ABL1,intron_variant,,ENST00000372348,NM_007313.2;ABL1,intron_variant,,ENST00000393293,;"	"G"	"ENSG00000097007"	"ENST00000372348"	"Transcript"	"intron_variant"	"-/3824"	"-/3450"	"-/1149"	""	""	""	"1"	NA	1	"ABL1"	"HGNC"	76	"protein_coding"	"YES"	"CCDS35165.1"	"ENSP00000361423"	"P00519"	"Q59FK4"	"UPI000013E4DE"	"NM_007313.2"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"24e80d40-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145161290322581	"WGS"	TRUE
"15099"	"PRRC2B"	84726	"mskcc.org"	"GRCh37"	"9"	134318791	134318791	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.470-781G>A"	""	""	"ENST00000357304"	""	82	"76"	6	33	"33"	0	"PRRC2B,intron_variant,,ENST00000357304,NM_013318.3;PRRC2B,intron_variant,,ENST00000405995,;PRRC2B,intron_variant,,ENST00000458550,;PRRC2B,upstream_gene_variant,,ENST00000372249,;PRRC2B,upstream_gene_variant,,ENST00000489593,;"	"A"	"ENSG00000130723"	"ENST00000357304"	"Transcript"	"intron_variant"	"-/11042"	"-/6690"	"-/2229"	""	""	""	"1"	NA	1	"PRRC2B"	"HGNC"	28121	"protein_coding"	"YES"	"CCDS48044.1"	"ENSP00000349856"	"Q5JSZ5"	"Q5JSZ9,B4E3S7"	"UPI00002374A3"	"NM_013318.3"	""	""	""	"4/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"24e87226-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"15100"	"RAPGEF1"	2889	"mskcc.org"	"GRCh37"	"9"	134457698	134457698	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3008+294T>C"	""	""	"ENST00000372190"	""	92	"82"	10	49	"49"	0	"RAPGEF1,intron_variant,,ENST00000372195,;RAPGEF1,intron_variant,,ENST00000372190,NM_198679.1;RAPGEF1,intron_variant,,ENST00000372189,NM_005312.2;"	"G"	"ENSG00000107263"	"ENST00000372190"	"Transcript"	"intron_variant"	"-/6173"	"-/3288"	"-/1095"	""	""	""	"1"	NA	-1	"RAPGEF1"	"HGNC"	4568	"protein_coding"	"YES"	"CCDS48048.1"	"ENSP00000361264"	"Q13905"	"Q5JUE5"	"UPI0000074689"	"NM_198679.1"	""	""	""	"22/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"24e8891e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108695652173913	"WGS"	FALSE
"15101"	"RALGDS"	5900	"mskcc.org"	"GRCh37"	"9"	136012153	136012153	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.18+12197T>C"	""	""	"ENST00000393160"	""	81	"75"	6	41	"41"	0	"RALGDS,intron_variant,,ENST00000393160,NM_001042368.2;RALGDS,intron_variant,,ENST00000542690,;"	"G"	"ENSG00000160271"	"ENST00000393160"	"Transcript"	"intron_variant"	"-/3801"	"-/2580"	"-/859"	""	""	""	"1"	NA	-1	"RALGDS"	"HGNC"	9842	"protein_coding"	""	"CCDS43897.1"	"ENSP00000376867"	"Q12967"	"Q9HAY0,Q9HAX9,Q9HAX8,Q8WU11,Q8N4Y1"	"UPI00003775F5"	"NM_001042368.2"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"24e8fa3e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	TRUE
"15102"	"SLC2A6"	11182	"mskcc.org"	"GRCh37"	"9"	136346589	136346589	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371899"	""	70	"65"	5	45	"45"	0	"SLC2A6,upstream_gene_variant,,ENST00000371899,NM_017585.3;SLC2A6,upstream_gene_variant,,ENST00000371897,NM_001145099.1;SLC2A6,upstream_gene_variant,,ENST00000432868,;SLC2A6,upstream_gene_variant,,ENST00000414172,;SLC2A6,upstream_gene_variant,,ENST00000485978,;"	"G"	"ENSG00000160326"	"ENST00000371899"	"Transcript"	"upstream_gene_variant"	"-/2528"	"-/1524"	"-/507"	""	""	""	"1"	"2330"	-1	"SLC2A6"	"HGNC"	11011	"protein_coding"	"YES"	"CCDS6975.1"	"ENSP00000360966"	"Q9UGQ3"	""	"UPI0000001BE8"	"NM_017585.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"24e928a6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"15103"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	137507002	137507002	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"67"	21	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"24e9c0a4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238636363636364	"WGS"	FALSE
"15104"	"ABCA2"	20	"mskcc.org"	"GRCh37"	"9"	139902324	139902324	"+"	"3'UTR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*57G>T"	""	""	"ENST00000341511"	"49/49"	97	"70"	27	47	"47"	0	"ABCA2,3_prime_UTR_variant,,ENST00000265662,;ABCA2,3_prime_UTR_variant,,ENST00000371605,;ABCA2,3_prime_UTR_variant,,ENST00000341511,NM_212533.2,NM_001606.4;ABCA2,3_prime_UTR_variant,,ENST00000490486,;ABCA2,downstream_gene_variant,,ENST00000448336,;ABCA2,downstream_gene_variant,,ENST00000437791,;ABCA2,downstream_gene_variant,,ENST00000463603,;ABCA2,downstream_gene_variant,,ENST00000464157,;ABCA2,3_prime_UTR_variant,,ENST00000459850,;ABCA2,3_prime_UTR_variant,,ENST00000487109,;ABCA2,3_prime_UTR_variant,,ENST00000479446,;ABCA2,non_coding_transcript_exon_variant,,ENST00000464520,;ABCA2,downstream_gene_variant,,ENST00000488535,;ABCA2,downstream_gene_variant,,ENST00000431584,;"	"A"	"ENSG00000107331"	"ENST00000341511"	"Transcript"	"3_prime_UTR_variant"	"7418/8056"	"-/7311"	"-/2436"	""	""	""	"1"	NA	-1	"ABCA2"	"HGNC"	32	"protein_coding"	"YES"	"CCDS43909.1"	"ENSP00000344155"	"Q9BZC7"	"Q9UPU0,B4DI99"	"UPI00015E02DC"	"NM_212533.2,NM_001606.4"	""	""	"49/49"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"24eb48fc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278350515463918	"WGS"	FALSE
"15105"	"snoU13"	0	"mskcc.org"	"GRCh37"	"9"	140020022	140020022	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000459401"	""	89	"79"	10	32	"32"	0	"snoU13,upstream_gene_variant,,ENST00000459401,;"	"G"	"ENSG00000238824"	"ENST00000459401"	"Transcript"	"upstream_gene_variant"	"-/100"	""	""	""	""	""	"1"	"1962"	-1	"snoU13"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"24eb5aa4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112359550561798	"WGS"	FALSE
"15106"	"snoU13"	0	"mskcc.org"	"GRCh37"	"9"	140020032	140020032	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000459401"	""	92	"82"	10	37	"37"	0	"snoU13,upstream_gene_variant,,ENST00000459401,;"	"G"	"ENSG00000238824"	"ENST00000459401"	"Transcript"	"upstream_gene_variant"	"-/100"	""	""	""	""	""	"1"	"1972"	-1	"snoU13"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"24eb5b4e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108695652173913	"WGS"	FALSE
"15107"	"ARRDC1"	92714	"mskcc.org"	"GRCh37"	"9"	140496429	140496429	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371421"	""	102	"96"	6	49	"49"	0	"ARRDC1,upstream_gene_variant,,ENST00000371421,NM_152285.2;ARRDC1,upstream_gene_variant,,ENST00000419386,;ARRDC1,upstream_gene_variant,,ENST00000431925,;ARRDC1,upstream_gene_variant,,ENST00000466367,;ARRDC1,upstream_gene_variant,,ENST00000495220,;ARRDC1,upstream_gene_variant,,ENST00000483563,;ARRDC1,upstream_gene_variant,,ENST00000471125,;ARRDC1,upstream_gene_variant,,ENST00000461627,;"	"T"	"ENSG00000197070"	"ENST00000371421"	"Transcript"	"upstream_gene_variant"	"-/1586"	"-/1302"	"-/433"	""	""	""	"1"	"3677"	1	"ARRDC1"	"HGNC"	28633	"protein_coding"	"YES"	"CCDS7049.1"	"ENSP00000360475"	"Q8N5I2"	""	"UPI0000072A1F"	"NM_152285.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"24ebf0d6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"15108"	"EHMT1"	79813	"mskcc.org"	"GRCh37"	"9"	140594207	140594207	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.22-11212G>T"	""	""	"ENST00000460843"	""	91	"59"	32	49	"49"	0	"EHMT1,intron_variant,,ENST00000460843,NM_024757.4;EHMT1,intron_variant,,ENST00000462484,NM_001145527.1;EHMT1,intron_variant,,ENST00000334856,;EHMT1,intron_variant,,ENST00000371394,;EHMT1,intron_variant,,ENST00000460486,;EHMT1,intron_variant,,ENST00000492232,;"	"T"	"ENSG00000181090"	"ENST00000460843"	"Transcript"	"intron_variant"	"-/5095"	"-/3897"	"-/1298"	""	""	""	"1"	NA	1	"EHMT1"	"HGNC"	24650	"protein_coding"	"YES"	"CCDS7050.2"	"ENSP00000417980"	"Q9H9B1"	"Q71M33,A0PJE0"	"UPI000194EC2D"	"NM_024757.4"	""	""	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"24ebfd10-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.351648351648352	"WGS"	FALSE
"15109"	"PPP2R3B"	28227	"mskcc.org"	"GRCh37"	"X"	350441	350441	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390665"	""	74	"67"	7	42	"42"	0	"PPP2R3B,upstream_gene_variant,,ENST00000390665,NM_013239.4;PPP2R3B,upstream_gene_variant,,ENST00000445792,;"	"T"	"ENSG00000167393"	"ENST00000390665"	"Transcript"	"upstream_gene_variant"	"-/2151"	"-/1728"	"-/575"	""	""	""	"1"	"2996"	-1	"PPP2R3B"	"HGNC"	13417	"protein_coding"	"YES"	"CCDS14104.1"	"ENSP00000375080"	"Q9Y5P8"	"Q96FD8"	"UPI00001BB8B8"	"NM_013239.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"24ed4030-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0945945945945946	"WGS"	FALSE
"15110"	"SHOX"	6473	"mskcc.org"	"GRCh37"	"X"	615890	615890	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"rs752404736"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.634-3630A>T"	""	""	"ENST00000334060"	""	64	"60"	4	44	"44"	0	"SHOX,intron_variant,,ENST00000334060,NM_006883.2;SHOX,intron_variant,,ENST00000381575,;"	"T"	"ENSG00000185960"	"ENST00000334060"	"Transcript"	"intron_variant"	"-/1951"	"-/678"	"-/225"	""	""	"rs752404736"	"1"	NA	1	"SHOX"	"HGNC"	10853	"protein_coding"	""	"CCDS14106.1"	"ENSP00000335505"	"O15266"	""	"UPI000002B3A4"	"NM_006883.2"	""	""	""	"5/5"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"24ee11ea-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"15111"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	670269	670269	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs373150161"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"62"	6	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs373150161"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"24ee412e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"15112"	"IL3RA"	3563	"mskcc.org"	"GRCh37"	"X"	1484167	1484167	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"rs185400450"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.874+22C>A"	""	""	"ENST00000331035"	""	76	"68"	8	42	"42"	0	"IL3RA,intron_variant,,ENST00000331035,NM_002183.3,NM_001267713.1;IL3RA,intron_variant,,ENST00000381469,;"	"A"	"ENSG00000185291"	"ENST00000331035"	"Transcript"	"intron_variant"	"-/1706"	"-/1137"	"-/378"	""	""	"rs185400450"	"1"	NA	1	"IL3RA"	"HGNC"	6012	"protein_coding"	"YES"	"CCDS14113.1"	"ENSP00000327890"	"P26951"	"Q9UEH7"	"UPI0000001C31"	"NM_002183.3,NM_001267713.1"	""	""	""	"9/11"	""	"A:0.0182"	""	""	NA	""	""	""	"A:0.0579"	"A:0.0001"	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	"0.001756"	"0.01895"	"0.001085"	"0"	"0"	"0.0001127"	"0"	"0.0002449"	NA	"common_variant"	"GCG"	"24f0999c-0964-11e6-882a-cdd9646fc502"	"."	0.001643	"170/103496"	"185/105358"	"148/7812"	"12/11064"	"0/7788"	"0/6550"	"6/53262"	"0/686"	"4/16334"	"PASS"	"FALSE"	0.105263157894737	"WGS"	FALSE
"15113"	"ASMTL"	8623	"mskcc.org"	"GRCh37"	"X"	1570699	1570699	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.93+942A>T"	""	""	"ENST00000381317"	""	46	"40"	6	21	"21"	0	"ASMTL,intron_variant,,ENST00000534940,NM_001173473.1;ASMTL,intron_variant,,ENST00000381333,NM_001173474.1;ASMTL,intron_variant,,ENST00000381317,NM_004192.3;ASMTL,intron_variant,,ENST00000416733,;ASMTL,intron_variant,,ENST00000474865,;"	"A"	"ENSG00000169093"	"ENST00000381317"	"Transcript"	"intron_variant"	"-/2027"	"-/1866"	"-/621"	""	""	""	"1"	NA	-1	"ASMTL"	"HGNC"	751	"protein_coding"	"YES"	"CCDS43917.1"	"ENSP00000370718"	"O95671"	""	"UPI0000141AF9"	"NM_004192.3"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"24f0d506-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"15114"	"MA0079.3"	0	"mskcc.org"	"GRCh37"	"X"	1780031	1780031	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"MA0079.3"	""	112	"104"	8	54	"54"	0	""	"T"	""	"MA0079.3"	"MotifFeature"	"TF_binding_site_variant"	""	""	""	""	""	""	"1"	NA	1	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	"SP1:MA0079.3"	"10"	"N"	"-0.015"	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"24f15bca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"15115"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1786110	1786110	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"101"	7	48	"48"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"24f166ce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0648148148148148	"WGS"	FALSE
"15116"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1786114	1786114	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"96"	9	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"24f16782-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"15117"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1840493	1840493	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"108"	6	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"24f183ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0526315789473684	"WGS"	FALSE
"15118"	"DHRSX"	207063	"mskcc.org"	"GRCh37"	"X"	2133942	2133942	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"rs747944746"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000334651"	""	112	"101"	11	32	"32"	0	"DHRSX,downstream_gene_variant,,ENST00000334651,NM_145177.2;"	"T"	"ENSG00000169084"	"ENST00000334651"	"Transcript"	"downstream_gene_variant"	"-/2571"	"-/993"	"-/330"	""	""	"rs747944746"	"1"	"3615"	-1	"DHRSX"	"HGNC"	18399	"protein_coding"	"YES"	"CCDS35195.1"	"ENSP00000334113"	"Q8N5I4"	"C9JRH1"	"UPI0000D61D1C"	"NM_145177.2"	""	""	""	""	""	"T:0.0004"	"T:0"	"T:0.0014"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"24f21b50-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0982142857142857	"WGS"	FALSE
"15119"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	2469924	2469924	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"85"	6	39	"39"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"24f29760-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"15120"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	2906625	2906625	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	39	"35"	4	25	"25"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"24f2c3ca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"15121"	"MXRA5"	25878	"mskcc.org"	"GRCh37"	"X"	3232781	3232781	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6578+2363T>C"	""	""	"ENST00000217939"	""	44	"39"	5	20	"20"	0	"MXRA5,intron_variant,,ENST00000217939,NM_015419.3;"	"G"	"ENSG00000101825"	"ENST00000217939"	"Transcript"	"intron_variant"	"-/9793"	"-/8487"	"-/2828"	""	""	""	"1"	NA	-1	"MXRA5"	"HGNC"	7539	"protein_coding"	"YES"	"CCDS14124.1"	"ENSP00000217939"	"Q9NR99"	""	"UPI000013C73B"	"NM_015419.3"	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"24f2ceba-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WGS"	FALSE
"15122"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	3642300	3642300	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	30	"25"	5	18	"18"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"24f2f58e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"15123"	"RP11-706O15.1"	101930102	"mskcc.org"	"GRCh37"	"X"	3756453	3756453	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.142+4929A>C"	""	""	"ENST00000425492"	""	38	"33"	5	13	"13"	0	"RP11-706O15.1,intron_variant,,ENST00000425492,;RP11-706O15.1,intron_variant,,ENST00000490920,;"	"G"	"ENSG00000205664"	"ENST00000425492"	"Transcript"	"intron_variant"	"-/856"	"-/234"	"-/77"	""	""	""	"1"	NA	-1	"RP11-706O15.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000409862"	""	"B1B108"	"UPI000059DAB6"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"24f2f9b2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WGS"	FALSE
"15124"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	4984846	4984846	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"37"	5	23	"23"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"24f3034e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"15125"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	7943548	7943548	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	55	"23"	32	21	"21"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"24f33594-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.581818181818182	"WGS"	FALSE
"15126"	"RP11-66N5.2"	0	"mskcc.org"	"GRCh37"	"X"	8952933	8952933	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000436419"	""	41	"37"	4	31	"31"	0	"RP11-66N5.2,upstream_gene_variant,,ENST00000436419,;"	"T"	"ENSG00000225271"	"ENST00000436419"	"Transcript"	"upstream_gene_variant"	"-/2081"	""	""	""	""	""	"1"	"2387"	-1	"RP11-66N5.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"24f34746-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WGS"	FALSE
"15127"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	9322246	9322246	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"37"	5	28	"28"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"24f34d72-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"15128"	"RP11-1L9.1"	0	"mskcc.org"	"GRCh37"	"X"	13411229	13411229	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.149-9605A>G"	""	""	"ENST00000446964"	""	46	"41"	5	24	"24"	0	"RP11-1L9.1,intron_variant,,ENST00000446964,;RP11-1L9.1,upstream_gene_variant,,ENST00000420403,;"	"G"	"ENSG00000226434"	"ENST00000446964"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/453"	""	""	""	""	""	"1"	NA	1	"RP11-1L9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"24f3b118-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108695652173913	"WGS"	FALSE
"15129"	"SYAP1"	94056	"mskcc.org"	"GRCh37"	"X"	16786583	16786583	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000380155"	""	40	"34"	6	19	"19"	0	"SYAP1,downstream_gene_variant,,ENST00000380155,NM_032796.3;RNU7-56P,downstream_gene_variant,,ENST00000458744,;"	"A"	"ENSG00000169895"	"ENST00000380155"	"Transcript"	"downstream_gene_variant"	"-/6129"	"-/1059"	"-/352"	""	""	""	"1"	"3124"	1	"SYAP1"	"HGNC"	16273	"protein_coding"	"YES"	"CCDS14177.1"	"ENSP00000369500"	"Q96A49"	"B4DHY7"	"UPI000006E658"	"NM_032796.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"24f3e6ec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WGS"	FALSE
"15130"	"PDHA1"	5160	"mskcc.org"	"GRCh37"	"X"	19370620	19370620	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.533-580T>C"	""	""	"ENST00000379806"	""	45	"37"	8	28	"28"	0	"PDHA1,intron_variant,,ENST00000379806,NM_001173454.1;PDHA1,intron_variant,,ENST00000545074,NM_000284.3,NM_001173455.1;PDHA1,intron_variant,,ENST00000422285,;PDHA1,intron_variant,,ENST00000540249,NM_001173456.1;PDHA1,intron_variant,,ENST00000379805,;PDHA1,intron_variant,,ENST00000423505,;PDHA1,intron_variant,,ENST00000355808,;PDHA1,upstream_gene_variant,,ENST00000379804,;PDHA1,downstream_gene_variant,,ENST00000417819,;PDHA1,upstream_gene_variant,,ENST00000478795,;PDHA1,downstream_gene_variant,,ENST00000492364,;PDHA1,upstream_gene_variant,,ENST00000479146,;PDHA1,upstream_gene_variant,,ENST00000481733,;"	"C"	"ENSG00000131828"	"ENST00000379806"	"Transcript"	"intron_variant"	"-/3484"	"-/1287"	"-/428"	""	""	""	"1"	NA	1	"PDHA1"	"HGNC"	8806	"protein_coding"	"YES"	"CCDS55380.1"	"ENSP00000369134"	"P08559"	"Q9UNV7,Q6LCA3,Q5JPU3,Q5JPU1,A5YPB6"	"UPI0000D4E0D1"	"NM_001173454.1"	""	""	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTT"	"24f41e32-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177777777777778	"WGS"	FALSE
"15131"	"MAP7D2"	256714	"mskcc.org"	"GRCh37"	"X"	20035960	20035960	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1413-1517G>A"	""	""	"ENST00000379643"	""	44	"39"	5	28	"28"	0	"MAP7D2,intron_variant,,ENST00000379651,NM_152780.3;MAP7D2,intron_variant,,ENST00000379643,NM_001168465.1;MAP7D2,intron_variant,,ENST00000543767,;MAP7D2,intron_variant,,ENST00000443379,NM_001168466.1;MAP7D2,intron_variant,,ENST00000452324,NM_001168467.1;MIR23C,upstream_gene_variant,,ENST00000579846,;MAP7D2,downstream_gene_variant,,ENST00000466145,;MAP7D2,intron_variant,,ENST00000485173,;"	"T"	"ENSG00000184368"	"ENST00000379643"	"Transcript"	"intron_variant"	"-/3918"	"-/2322"	"-/773"	""	""	""	"1"	NA	-1	"MAP7D2"	"HGNC"	25899	"protein_coding"	"YES"	"CCDS55386.1"	"ENSP00000368964"	"Q96T17"	""	"UPI00015E039B"	"NM_001168465.1"	""	""	""	"10/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"24f43520-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WGS"	FALSE
"15132"	"APOO"	79135	"mskcc.org"	"GRCh37"	"X"	23847744	23847744	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000379226"	""	25	"22"	3	9	"9"	0	"APOO,downstream_gene_variant,,ENST00000379226,NM_024122.4;APOO,downstream_gene_variant,,ENST00000379220,;APOO,downstream_gene_variant,,ENST00000439528,;APOO,downstream_gene_variant,,ENST00000476598,;APOO,downstream_gene_variant,,ENST00000490078,;"	"C"	"ENSG00000184831"	"ENST00000379226"	"Transcript"	"downstream_gene_variant"	"-/1118"	"-/597"	"-/198"	""	""	""	"1"	"3726"	-1	"APOO"	"HGNC"	28727	"protein_coding"	"YES"	"CCDS14208.1"	"ENSP00000368528"	"Q9BUR5"	"H7C1U8"	"UPI0000035987"	"NM_024122.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"24f46fae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"15133"	"PDK3"	5165	"mskcc.org"	"GRCh37"	"X"	24502335	24502335	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.107-10524T>G"	""	""	"ENST00000441463"	""	34	"30"	4	14	"14"	0	"PDK3,intron_variant,,ENST00000441463,NM_001142386.2;PDK3,intron_variant,,ENST00000379162,NM_005391.4;"	"G"	"ENSG00000067992"	"ENST00000441463"	"Transcript"	"intron_variant"	"-/1921"	"-/1248"	"-/415"	""	""	""	"1"	NA	1	"PDK3"	"HGNC"	8811	"protein_coding"	"YES"	"CCDS48088.1"	"ENSP00000387536"	"Q15120"	""	"UPI00002124D4"	"NM_001142386.2"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"24f4899e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"15134"	"POLA1"	5422	"mskcc.org"	"GRCh37"	"X"	24742821	24742821	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1299+253C>A"	""	""	"ENST00000379059"	""	40	"14"	26	36	"36"	0	"POLA1,intron_variant,,ENST00000379068,;POLA1,intron_variant,,ENST00000379059,NM_016937.3;POLA1,upstream_gene_variant,,ENST00000493342,;"	"A"	"ENSG00000101868"	"ENST00000379059"	"Transcript"	"intron_variant"	"-/5440"	"-/4389"	"-/1462"	""	""	""	"1"	NA	1	"POLA1"	"HGNC"	9173	"protein_coding"	"YES"	"CCDS14214.1"	"ENSP00000368349"	"P09884"	""	"UPI000014D383"	"NM_016937.3"	""	""	""	"12/36"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"24f49376-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.65	"WGS"	FALSE
"15135"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	28322414	28322414	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"rs114902151"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	37	"33"	4	14	"14"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs114902151"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"24f4bc98-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"15136"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	30767898	30767898	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"14"	40	25	"25"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"24f4f046-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.740740740740741	"WGS"	FALSE
"15137"	"TAB3"	257397	"mskcc.org"	"GRCh37"	"X"	30867803	30867803	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1711-3042C>T"	""	""	"ENST00000378933"	""	40	"10"	30	30	"30"	0	"TAB3,intron_variant,,ENST00000378933,NM_152787.3;TAB3,intron_variant,,ENST00000378930,;TAB3,intron_variant,,ENST00000288422,;TAB3,intron_variant,,ENST00000378932,;TAB3,intron_variant,,ENST00000378928,;TAB3-AS2,upstream_gene_variant,,ENST00000445240,;TAB3,intron_variant,,ENST00000467136,;"	"A"	"ENSG00000157625"	"ENST00000378933"	"Transcript"	"intron_variant"	"-/6302"	"-/2139"	"-/712"	""	""	""	"1"	NA	-1	"TAB3"	"HGNC"	30681	"protein_coding"	"YES"	"CCDS14226.1"	"ENSP00000368215"	"Q8N5C8"	""	"UPI000013DF10"	"NM_152787.3"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"24f5037e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.75	"WGS"	FALSE
"15138"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	34516725	34516725	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	40	"17"	23	15	"15"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"24f52afc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.575	"WGS"	FALSE
"15139"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	34516726	34516726	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	40	"17"	23	15	"15"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"24f52bb0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.575	"WGS"	FALSE
"15140"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	34620884	34620884	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"17"	32	26	"26"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"24f52d4a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.653061224489796	"WGS"	FALSE
"15141"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	34720712	34720712	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	58	"53"	5	17	"17"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"24f52ea8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0862068965517241	"WGS"	FALSE
"15142"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	35139208	35139208	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	44	"40"	4	28	"28"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"24f53498-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"15143"	"CXorf22"	170063	"mskcc.org"	"GRCh37"	"X"	35999380	35999380	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2713+5350C>T"	""	""	"ENST00000297866"	""	43	"14"	29	21	"21"	0	"CXorf22,intron_variant,,ENST00000297866,NM_152632.3;CXorf22,intron_variant,,ENST00000493930,;"	"T"	"ENSG00000165164"	"ENST00000297866"	"Transcript"	"intron_variant"	"-/3608"	"-/2931"	"-/976"	""	""	""	"1"	NA	1	"CXorf22"	"HGNC"	28546	"protein_coding"	"YES"	"CCDS14237.2"	"ENSP00000297866"	"Q6ZTR5"	""	"UPI000022DD27"	"NM_152632.3"	""	""	""	"15/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"24f54258-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.674418604651163	"WGS"	FALSE
"15144"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	39837136	39837136	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	34	"30"	4	17	"17"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"24f5749e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"15145"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	40196391	40196391	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	52	"47"	5	32	"32"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"24f583c6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0961538461538462	"WGS"	FALSE
"15146"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	40924924	40924924	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"42"	7	10	"10"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"24f59b54-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"15147"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	41252506	41252506	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	32	"28"	4	18	"18"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"24f5a860-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"15148"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	44319340	44319340	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"49"	5	24	"24"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"24f5e5d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0925925925925926	"WGS"	FALSE
"15149"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	44686771	44686771	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	43	"39"	4	9	"9"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"24f5f676-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"15150"	"RP1-192P9.1"	0	"mskcc.org"	"GRCh37"	"X"	45244810	45244810	"+"	"5'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000534915"	""	47	"16"	31	28	"28"	0	"RP1-192P9.1,upstream_gene_variant,,ENST00000534915,;RP1-192P9.1,upstream_gene_variant,,ENST00000422979,;"	"C"	"ENSG00000237782"	"ENST00000534915"	"Transcript"	"upstream_gene_variant"	"-/513"	""	""	""	""	""	"1"	"3485"	-1	"RP1-192P9.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"24f602e2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.659574468085106	"WGS"	FALSE
"15151"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	45798133	45798133	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"45"	6	21	"21"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"24f60a80-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"15152"	"JADE3"	9767	"mskcc.org"	"GRCh37"	"X"	46912216	46912216	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.973-1344G>A"	""	""	"ENST00000218343"	""	46	"38"	8	21	"21"	0	"JADE3,intron_variant,,ENST00000218343,NM_014735.3;JADE3,intron_variant,,ENST00000397189,NM_001077445.1;"	"A"	"ENSG00000102221"	"ENST00000218343"	"Transcript"	"intron_variant"	"-/4931"	"-/2472"	"-/823"	""	""	""	"1"	NA	1	"JADE3"	"HGNC"	22982	"protein_coding"	"YES"	"CCDS14271.1"	"ENSP00000218343"	"Q92613"	"F2Z3N8,F2Z2B6"	"UPI0000073DE6"	"NM_014735.3"	""	""	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"24f6295c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"15153"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	47290714	47290714	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	32	"27"	5	18	"18"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"24f63f6e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WGS"	FALSE
"15154"	"ZNF41"	7592	"mskcc.org"	"GRCh37"	"X"	47334048	47334048	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-279-6889C>A"	""	""	"ENST00000377065"	""	34	"30"	4	22	"22"	0	"ZNF41,intron_variant,,ENST00000377065,NM_153380.2;ZNF41,intron_variant,,ENST00000397050,NM_007130.2;ZNF41,intron_variant,,ENST00000313116,;"	"T"	"ENSG00000147124"	"ENST00000377065"	"Transcript"	"intron_variant"	"-/4531"	"-/2340"	"-/779"	""	""	""	"1"	NA	-1	"ZNF41"	"HGNC"	13107	"protein_coding"	"YES"	"CCDS14279.1"	"ENSP00000366265"	"P51814"	""	"UPI0000001C0E"	"NM_153380.2"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"24f64392-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"15155"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	48480788	48480788	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	32	"28"	4	11	"11"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"24f65f08-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"15156"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	48705406	48705406	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	45	"38"	7	18	"18"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"24f669c6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155555555555556	"WGS"	FALSE
"15157"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	50988900	50988900	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	52	"24"	28	24	"24"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"24f699fa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.538461538461538	"WGS"	FALSE
"15158"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	51839202	51839202	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"33"	5	14	"14"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"24f6af80-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WGS"	FALSE
"15159"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	53382174	53382174	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	39	"35"	4	17	"17"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"24f6c8f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"15160"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	53466328	53466328	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"34"	7	15	"15"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"24f6cb0a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170731707317073	"WGS"	FALSE
"15161"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	53466330	53466330	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"35"	7	17	"17"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"24f6cbbe-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"15162"	"FAM120C"	54954	"mskcc.org"	"GRCh37"	"X"	54106587	54106587	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3036+78C>T"	""	""	"ENST00000375180"	""	34	"14"	20	24	"24"	0	"FAM120C,intron_variant,,ENST00000375180,NM_017848.4;FAM120C,intron_variant,,ENST00000328235,;"	"A"	"ENSG00000184083"	"ENST00000375180"	"Transcript"	"intron_variant"	"-/8057"	"-/3291"	"-/1096"	""	""	""	"1"	NA	-1	"FAM120C"	"HGNC"	16949	"protein_coding"	"YES"	"CCDS14356.1"	"ENSP00000364324"	"Q9NX05"	""	"UPI000022DC3D"	"NM_017848.4"	""	""	""	"15/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"24f6dcee-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.588235294117647	"WGS"	FALSE
"15163"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	55899374	55899374	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	53	"18"	35	32	"31"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"24f704e4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.660377358490566	"WGS"	FALSE
"15164"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	55899375	55899375	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"18"	36	30	"30"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"24f705c0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WGS"	FALSE
"15165"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	66390007	66390007	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	23	"19"	4	15	"15"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"24f8c996-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"15166"	"OPHN1"	4983	"mskcc.org"	"GRCh37"	"X"	67449869	67449869	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.486+4460C>A"	""	""	"ENST00000355520"	""	39	"9"	30	26	"26"	0	"OPHN1,intron_variant,,ENST00000355520,NM_002547.2;OPHN1,intron_variant,,ENST00000540071,;"	"T"	"ENSG00000079482"	"ENST00000355520"	"Transcript"	"intron_variant"	"-/7879"	"-/2409"	"-/802"	""	""	""	"1"	NA	-1	"OPHN1"	"HGNC"	8148	"protein_coding"	"YES"	"CCDS14388.1"	"ENSP00000347710"	"O60890"	"Q7Z2H1"	"UPI000003319E"	"NM_002547.2"	""	""	""	"6/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGA"	"24f8d9c2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.769230769230769	"WGS"	FALSE
"15167"	"RP11-351K23.3"	0	"mskcc.org"	"GRCh37"	"X"	69337372	69337372	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000438855"	""	40	"11"	29	20	"20"	0	"RP11-351K23.3,downstream_gene_variant,,ENST00000438855,;"	"T"	"ENSG00000226579"	"ENST00000438855"	"Transcript"	"downstream_gene_variant"	"-/1122"	""	""	""	""	""	"1"	"2831"	-1	"RP11-351K23.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"24f905be-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.725	"WGS"	FALSE
"15168"	"ARR3"	407	"mskcc.org"	"GRCh37"	"X"	69495984	69495984	"+"	"Silent"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.198G>A"	"p.="	"p.V66V"	"ENST00000307959"	"6/17"	34	"15"	19	24	"24"	0	"ARR3,synonymous_variant,p.=,ENST00000374495,;ARR3,synonymous_variant,p.=,ENST00000307959,NM_004312.2;ARR3,synonymous_variant,p.=,ENST00000480877,;"	"A"	"ENSG00000120500"	"ENST00000307959"	"Transcript"	"synonymous_variant"	"249/1292"	"198/1167"	"66/388"	"V"	"gtG/gtA"	""	"1"	NA	1	"ARR3"	"HGNC"	710	"protein_coding"	"YES"	"CCDS14399.1"	"ENSP00000311538"	"P36575"	"D6RCT3"	"UPI0000457850"	"NM_004312.2"	""	""	"6/17"	""	"hmmpanther:PTHR11792,hmmpanther:PTHR11792:SF19,PROSITE_patterns:PS00295,Gene3D:1g4mA01,Pfam_domain:PF00339,Superfamily_domains:SSF81296,Prints_domain:PR00309"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"24f907c6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.558823529411765	"WGS"	FALSE
"15169"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	70297722	70297722	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"42"	5	24	"24"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"24f91e50-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106382978723404	"WGS"	FALSE
"15170"	"AL590762.6"	0	"mskcc.org"	"GRCh37"	"X"	70530956	70530956	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000436372"	""	41	"36"	5	15	"15"	0	"AL590762.6,downstream_gene_variant,,ENST00000436372,;"	"G"	"ENSG00000224208"	"ENST00000436372"	"Transcript"	"downstream_gene_variant"	"-/640"	""	""	""	""	""	"1"	"3806"	-1	"AL590762.6"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"24f9238c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WGS"	FALSE
"15171"	"PIN4"	5303	"mskcc.org"	"GRCh37"	"X"	71411091	71411091	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.192+4707G>T"	""	""	"ENST00000373669"	""	45	"18"	27	21	"21"	0	"PIN4,intron_variant,,ENST00000218432,;PIN4,intron_variant,,ENST00000423432,NM_001170747.1;PIN4,intron_variant,,ENST00000373669,NM_006223.3;PIN4,intron_variant,,ENST00000446576,;PIN4,intron_variant,,ENST00000496835,;PIN4,intron_variant,,ENST00000373662,;PIN4,intron_variant,,ENST00000439980,;"	"T"	"ENSG00000102309"	"ENST00000373669"	"Transcript"	"intron_variant"	"-/1321"	"-/471"	"-/156"	""	""	""	"1"	NA	1	"PIN4"	"HGNC"	8992	"protein_coding"	"YES"	"CCDS14417.1"	"ENSP00000362773"	"Q9Y237"	"A8E0G8"	"UPI00002263A9"	"NM_006223.3"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"24f94f6a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WGS"	FALSE
"15172"	"ENSR00000479673"	0	"mskcc.org"	"GRCh37"	"X"	73157689	73157689	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000479673"	""	41	"36"	5	23	"23"	0	""	"C"	""	"ENSR00000479673"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"24f97364-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WGS"	FALSE
"15173"	"DDX3YP1"	0	"mskcc.org"	"GRCh37"	"X"	73340735	73340735	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000418231"	""	29	"23"	6	12	"12"	0	"FTX,intron_variant,,ENST00000602812,;FTX,intron_variant,,ENST00000603672,;FTX,intron_variant,,ENST00000602420,;DDX3YP1,upstream_gene_variant,,ENST00000418231,;"	"C"	"ENSG00000232928"	"ENST00000418231"	"Transcript"	"upstream_gene_variant"	"-/1950"	""	""	""	""	""	"1"	"112"	1	"DDX3YP1"	"HGNC"	42171	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"24f97760-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206896551724138	"WGS"	FALSE
"15174"	"FTX"	100302692	"mskcc.org"	"GRCh37"	"X"	73371600	73371600	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.696-119925A>C"	""	""	"ENST00000602812"	""	44	"40"	4	19	"19"	0	"FTX,intron_variant,,ENST00000602812,;FTX,intron_variant,,ENST00000603672,;FTX,intron_variant,,ENST00000602420,;"	"G"	"ENSG00000230590"	"ENST00000602812"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2356"	""	""	""	""	""	"1"	NA	-1	"FTX"	"HGNC"	37190	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"24f9797c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"15175"	"RP3-368A4.5"	0	"mskcc.org"	"GRCh37"	"X"	73443626	73443626	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.216+18142T>A"	""	""	"ENST00000603037"	""	33	"29"	4	20	"20"	0	"FTX,intron_variant,,ENST00000602812,;FTX,intron_variant,,ENST00000603672,;FTX,intron_variant,,ENST00000602420,;RP3-368A4.5,intron_variant,,ENST00000603037,;"	"T"	"ENSG00000271430"	"ENST00000603037"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3897"	""	""	""	""	""	"1"	NA	-1	"RP3-368A4.5"	"Clone_based_vega_gene"	NA	"sense_intronic"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"24f97da0-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"15176"	"ZDHHC15"	158866	"mskcc.org"	"GRCh37"	"X"	74634861	74634861	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.967+2061T>C"	""	""	"ENST00000373367"	""	40	"35"	5	24	"24"	0	"ZDHHC15,intron_variant,,ENST00000541184,NM_001146256.1;ZDHHC15,intron_variant,,ENST00000373367,NM_144969.2;ZDHHC15,intron_variant,,ENST00000373361,;"	"G"	"ENSG00000102383"	"ENST00000373367"	"Transcript"	"intron_variant"	"-/5796"	"-/1014"	"-/337"	""	""	""	"1"	NA	-1	"ZDHHC15"	"HGNC"	20342	"protein_coding"	"YES"	"CCDS14430.1"	"ENSP00000362465"	"Q96MV8"	""	"UPI000006DB5A"	"NM_144969.2"	""	""	""	"10/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"24f998b2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"15177"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	83053504	83053504	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	48	"16"	32	22	"22"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"24fa0ab8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WGS"	FALSE
"15178"	"DACH2"	117154	"mskcc.org"	"GRCh37"	"X"	85873437	85873437	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.641-32602A>T"	""	""	"ENST00000373125"	""	50	"23"	27	24	"24"	0	"DACH2,intron_variant,,ENST00000373131,NM_001139514.1;DACH2,intron_variant,,ENST00000373125,NM_053281.3;DACH2,intron_variant,,ENST00000508860,NM_001139515.1;DACH2,intron_variant,,ENST00000510272,;DACH2,intron_variant,,ENST00000461604,;DACH2,intron_variant,,ENST00000506327,;"	"T"	"ENSG00000126733"	"ENST00000373125"	"Transcript"	"intron_variant"	"-/2232"	"-/1800"	"-/599"	""	""	""	"1"	NA	1	"DACH2"	"HGNC"	16814	"protein_coding"	"YES"	"CCDS14455.1"	"ENSP00000362217"	"Q96NX9"	""	"UPI00000717B4"	"NM_053281.3"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"24fa2598-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.54	"WGS"	FALSE
"15179"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	86491013	86491013	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	39	"11"	28	20	"20"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"24fa2fd4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.717948717948718	"WGS"	FALSE
"15180"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	88740227	88740227	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"47"	7	16	"16"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"24fab486-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12962962962963	"WGS"	FALSE
"15181"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	90736355	90736355	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	31	"9"	22	18	"18"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"24fac7d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.709677419354839	"WGS"	FALSE
"15182"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	92531326	92531326	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"11"	38	39	"39"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"24fae88e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.775510204081633	"WGS"	FALSE
"15183"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	94829793	94829793	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"14"	27	25	"25"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"24fb126e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.658536585365854	"WGS"	FALSE
"15184"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	99257706	99257706	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	43	"13"	30	36	"36"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"24fb452c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.697674418604651	"WGS"	FALSE
"15185"	"TRMT2B"	79979	"mskcc.org"	"GRCh37"	"X"	100299029	100299029	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-23-1728C>G"	""	""	"ENST00000372936"	""	47	"41"	6	25	"25"	0	"TRMT2B,intron_variant,,ENST00000338687,;TRMT2B,intron_variant,,ENST00000372936,NM_024917.5;TRMT2B,intron_variant,,ENST00000545398,NM_001167972.1;TRMT2B,intron_variant,,ENST00000372939,NM_001167971.1;TRMT2B,intron_variant,,ENST00000372935,NM_001167970.1;TRMT2B,intron_variant,,ENST00000372931,;TRMT2B-AS1,intron_variant,,ENST00000443801,;TRMT2B,intron_variant,,ENST00000478422,;"	"C"	"ENSG00000188917"	"ENST00000372936"	"Transcript"	"intron_variant"	"-/3327"	"-/1515"	"-/504"	""	""	""	"1"	NA	-1	"TRMT2B"	"HGNC"	25748	"protein_coding"	"YES"	"CCDS14477.1"	"ENSP00000362027"	"Q96GJ1"	""	"UPI0000070468"	"NM_024917.5"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"24fb5ae4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127659574468085	"WGS"	FALSE
"15186"	"IL1RAPL2"	26280	"mskcc.org"	"GRCh37"	"X"	104554269	104554269	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.697+42045T>C"	""	""	"ENST00000372582"	""	35	"31"	4	19	"19"	0	"IL1RAPL2,intron_variant,,ENST00000372582,NM_017416.1;IL1RAPL2,intron_variant,,ENST00000344799,;"	"C"	"ENSG00000189108"	"ENST00000372582"	"Transcript"	"intron_variant"	"-/2985"	"-/2061"	"-/686"	""	""	""	"1"	NA	1	"IL1RAPL2"	"HGNC"	5997	"protein_coding"	"YES"	"CCDS14517.1"	"ENSP00000361663"	"Q9NP60"	""	"UPI0000073DF7"	"NM_017416.1"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"24fbcdf8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"15187"	"MYCLP1"	0	"mskcc.org"	"GRCh37"	"X"	106511728	106511728	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000372451"	""	37	"33"	4	18	"18"	0	"MYCLP1,upstream_gene_variant,,ENST00000372451,;MYCLP1,upstream_gene_variant,,ENST00000544793,;"	"C"	"ENSG00000204053"	"ENST00000372451"	"Transcript"	"upstream_gene_variant"	"-/1075"	""	""	""	""	""	"1"	"4084"	1	"MYCLP1"	"HGNC"	7556	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"24fc0502-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"15188"	"PRPS1"	5631	"mskcc.org"	"GRCh37"	"X"	106869519	106869519	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000372435"	""	29	"23"	6	16	"16"	0	"PRPS1,upstream_gene_variant,,ENST00000372435,NM_002764.3;PRPS1,upstream_gene_variant,,ENST00000372428,;PRPS1,upstream_gene_variant,,ENST00000543248,;PRPS1,upstream_gene_variant,,ENST00000372419,;"	"G"	"ENSG00000147224"	"ENST00000372435"	"Transcript"	"upstream_gene_variant"	"-/2073"	"-/957"	"-/318"	""	""	""	"1"	"2218"	1	"PRPS1"	"HGNC"	9462	"protein_coding"	"YES"	"CCDS14529.1"	"ENSP00000361512"	"P60891"	"Q15244,B7ZB02,B4DNL6"	"UPI00000000A5"	"NM_002764.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAC"	"24fc0bec-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206896551724138	"WGS"	FALSE
"15189"	"RP11-441A11.1"	0	"mskcc.org"	"GRCh37"	"X"	109878177	109878177	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000436086"	""	42	"38"	4	19	"19"	0	"RP11-441A11.1,upstream_gene_variant,,ENST00000436086,;"	"A"	"ENSG00000228042"	"ENST00000436086"	"Transcript"	"upstream_gene_variant"	"-/832"	""	""	""	""	""	"1"	"1892"	1	"RP11-441A11.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"24fc336a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"15190"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	110047925	110047925	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"14"	35	24	"24"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"24fc34be-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.714285714285714	"WGS"	FALSE
"15191"	"TRPC5"	7224	"mskcc.org"	"GRCh37"	"X"	111236304	111236304	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-21-40635C>G"	""	""	"ENST00000262839"	""	24	"20"	4	11	"11"	0	"TRPC5,intron_variant,,ENST00000262839,NM_012471.2;"	"C"	"ENSG00000072315"	"ENST00000262839"	"Transcript"	"intron_variant"	"-/5839"	"-/2922"	"-/973"	""	""	""	"1"	NA	-1	"TRPC5"	"HGNC"	12337	"protein_coding"	"YES"	"CCDS14561.1"	"ENSP00000262839"	"Q9UL62"	""	"UPI00001374B6"	"NM_012471.2"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"24fc48aa-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"15192"	"snoU13"	0	"mskcc.org"	"GRCh37"	"X"	112240839	112240839	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000459560"	""	51	"46"	5	20	"20"	0	"snoU13,downstream_gene_variant,,ENST00000459560,;"	"A"	"ENSG00000238811"	"ENST00000459560"	"Transcript"	"downstream_gene_variant"	"-/110"	""	""	""	""	""	"1"	"3408"	-1	"snoU13"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"24fc5728-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0980392156862745	"WGS"	FALSE
"15193"	"RP5-878I13.1"	0	"mskcc.org"	"GRCh37"	"X"	114658759	114658759	"+"	"RNA"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.940G>A"	""	""	"ENST00000450104"	"2/2"	47	"20"	27	27	"27"	0	"RP5-878I13.1,non_coding_transcript_exon_variant,,ENST00000450104,;"	"T"	"ENSG00000237332"	"ENST00000450104"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"940/1123"	""	""	""	""	""	"1"	NA	-1	"RP5-878I13.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"24fc8770-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.574468085106383	"WGS"	FALSE
"15194"	"RP1-93I3.1"	101927352	"mskcc.org"	"GRCh37"	"X"	114786792	114786792	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.233+9939G>T"	""	""	"ENST00000607680"	""	52	"45"	7	22	"22"	0	"RP1-93I3.1,intron_variant,,ENST00000607680,;RP1-93I3.1,intron_variant,,ENST00000606397,;"	"A"	"ENSG00000271826"	"ENST00000607680"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1763"	""	""	""	""	""	"1"	NA	-1	"RP1-93I3.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"24fc8c3e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134615384615385	"WGS"	FALSE
"15195"	"RP1-241P17.7"	0	"mskcc.org"	"GRCh37"	"X"	114890643	114890643	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000605468"	""	41	"37"	4	32	"32"	0	"RP1-241P17.7,upstream_gene_variant,,ENST00000605468,;"	"A"	"ENSG00000270431"	"ENST00000605468"	"Transcript"	"upstream_gene_variant"	"-/310"	""	""	""	""	""	"1"	"3390"	1	"RP1-241P17.7"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"24fc9346-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WGS"	FALSE
"15196"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	115890255	115890255	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	31	"10"	21	18	"18"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"24fca7d2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.67741935483871	"WGS"	FALSE
"15197"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	116668654	116668654	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	35	"31"	4	25	"25"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"24fcb902-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"15198"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	116668657	116668657	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	36	"31"	5	26	"26"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"24fcb9ac-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138888888888889	"WGS"	FALSE
"15199"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	118845546	118845546	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	46	"40"	6	17	"17"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"24fd0ccc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"15200"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	118845558	118845558	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	48	"43"	5	18	"18"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"24fd0d76-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104166666666667	"WGS"	FALSE
"15201"	"NKAP"	79576	"mskcc.org"	"GRCh37"	"X"	119058935	119058935	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371410"	""	68	"63"	5	24	"24"	0	"NKAP,downstream_gene_variant,,ENST00000371410,NM_024528.3;AKAP14,downstream_gene_variant,,ENST00000371431,NM_178813.5;AKAP14,downstream_gene_variant,,ENST00000371423,;AKAP14,downstream_gene_variant,,ENST00000371425,NM_001008534.1;AKAP14,downstream_gene_variant,,ENST00000334356,;AC002477.1,upstream_gene_variant,,ENST00000581061,;RP3-327A19.5,upstream_gene_variant,,ENST00000455986,;NKAP,downstream_gene_variant,,ENST00000477789,;AKAP14,downstream_gene_variant,,ENST00000491105,;"	"C"	"ENSG00000101882"	"ENST00000371410"	"Transcript"	"downstream_gene_variant"	"-/1580"	"-/1248"	"-/415"	""	""	""	"1"	"83"	-1	"NKAP"	"HGNC"	29873	"protein_coding"	"YES"	"CCDS14592.1"	"ENSP00000360464"	"Q8N5F7"	""	"UPI000004A07B"	"NM_024528.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"24fd1e60-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0735294117647059	"WGS"	FALSE
"15202"	"STAG2"	10735	"mskcc.org"	"GRCh37"	"X"	123107565	123107565	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-163+12849A>G"	""	""	"ENST00000218089"	""	37	"28"	9	22	"22"	0	"STAG2,intron_variant,,ENST00000371160,NM_001282418.1;STAG2,intron_variant,,ENST00000371157,NM_006603.4;STAG2,intron_variant,,ENST00000218089,NM_001042749.1;STAG2,intron_variant,,ENST00000371145,NM_001042750.1;STAG2,intron_variant,,ENST00000371144,NM_001042751.1;STAG2,intron_variant,,ENST00000354548,;STAG2,intron_variant,,ENST00000455404,;STAG2,intron_variant,,ENST00000435215,;STAG2,intron_variant,,ENST00000435103,;STAG2,intron_variant,,ENST00000428941,;STAG2,intron_variant,,ENST00000394478,;STAG2,intron_variant,,ENST00000394477,;STAG2,intron_variant,,ENST00000458700,;STAG2,intron_variant,,ENST00000469481,;STAG2,intron_variant,,ENST00000466748,;STAG2,intron_variant,,ENST00000483575,;STAG2,intron_variant,,ENST00000471107,;STAG2,intron_variant,,ENST00000458176,;"	"G"	"ENSG00000101972"	"ENST00000218089"	"Transcript"	"intron_variant"	"-/5218"	"-/3807"	"-/1268"	""	""	""	"1"	NA	1	"STAG2"	"HGNC"	11355	"protein_coding"	"YES"	"CCDS43990.1"	"ENSP00000218089"	"Q8N3U4"	"B1AMT4,B1AMT3,B1AMT2,B1AMT1,B1AMT0,B1AMS9,B1AMS8"	"UPI00004A3A8A"	"NM_001042749.1"	""	""	""	"1/34"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"24fd53b2-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.243243243243243	"WGS"	TRUE
"15203"	"DCAF12L2"	340578	"mskcc.org"	"GRCh37"	"X"	125295550	125295550	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000538699"	""	42	"37"	5	13	"13"	0	"DCAF12L2,downstream_gene_variant,,ENST00000538699,NM_001013628.2;DCAF12L2,downstream_gene_variant,,ENST00000360028,;"	"G"	"ENSG00000198354"	"ENST00000538699"	"Transcript"	"downstream_gene_variant"	"-/1652"	"-/1392"	"-/463"	""	""	""	"1"	"2787"	-1	"DCAF12L2"	"HGNC"	32950	"protein_coding"	"YES"	"CCDS43991.1"	"ENSP00000441489"	"Q5VW00"	""	"UPI0000197594"	"NM_001013628.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"24fd8738-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"15204"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	125997954	125997954	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	39	"14"	25	18	"18"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"24fd91c4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.641025641025641	"WGS"	FALSE
"15205"	"ZNF280C"	55609	"mskcc.org"	"GRCh37"	"X"	129394204	129394204	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.31+189A>G"	""	""	"ENST00000370978"	""	45	"39"	6	23	"23"	0	"ZNF280C,intron_variant,,ENST00000370978,NM_017666.4;ZNF280C,intron_variant,,ENST00000447817,;"	"C"	"ENSG00000056277"	"ENST00000370978"	"Transcript"	"intron_variant"	"-/4634"	"-/2214"	"-/737"	""	""	""	"1"	NA	-1	"ZNF280C"	"HGNC"	25955	"protein_coding"	"YES"	"CCDS14622.1"	"ENSP00000360017"	"Q8ND82"	""	"UPI0000071981"	"NM_017666.4"	""	""	""	"2/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"24fdd1ca-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"15206"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	132406121	132406121	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	25	"21"	4	17	"17"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"24fe0320-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WGS"	FALSE
"15207"	"HPRT1"	3251	"mskcc.org"	"GRCh37"	"X"	133602659	133602659	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.28-4730T>C"	""	""	"ENST00000298556"	""	29	"25"	4	24	"24"	0	"HPRT1,intron_variant,,ENST00000298556,NM_000194.2;HPRT1,intron_variant,,ENST00000462974,;HPRT1,upstream_gene_variant,,ENST00000475720,;"	"C"	"ENSG00000165704"	"ENST00000298556"	"Transcript"	"intron_variant"	"-/1407"	"-/657"	"-/218"	""	""	""	"1"	NA	1	"HPRT1"	"HGNC"	5157	"protein_coding"	"YES"	"CCDS14641.1"	"ENSP00000298556"	"P00492"	""	"UPI00000004D7"	"NM_000194.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTC"	"24fe193c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WGS"	FALSE
"15208"	"RP11-274K13.5"	0	"mskcc.org"	"GRCh37"	"X"	135182096	135182096	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000468625"	""	43	"37"	6	23	"23"	0	"RP11-274K13.5,upstream_gene_variant,,ENST00000468625,;"	"G"	"ENSG00000231513"	"ENST00000468625"	"Transcript"	"upstream_gene_variant"	"-/514"	""	""	""	""	""	"1"	"1589"	-1	"RP11-274K13.5"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"24fe3b06-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"15209"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	139243050	139243050	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	53	"25"	28	28	"28"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"24fe8bce-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.528301886792453	"WGS"	FALSE
"15210"	"RP3-507I15.2"	0	"mskcc.org"	"GRCh37"	"X"	140262569	140262569	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"rs782382211"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000566241"	""	37	"13"	24	16	"16"	0	"RP3-507I15.2,downstream_gene_variant,,ENST00000566241,;"	"A"	"ENSG00000261212"	"ENST00000566241"	"Transcript"	"downstream_gene_variant"	"-/354"	""	""	""	""	"rs782382211"	"1"	"4851"	-1	"RP3-507I15.2"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"A:0.0011"	"A:0"	"A:0.0043"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"24fea1a4-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.648648648648649	"WGS"	FALSE
"15211"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	142003723	142003723	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	40	"15"	25	22	"22"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"24fec2f6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.625	"WGS"	FALSE
"15212"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	143073440	143073440	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	32	"28"	4	16	"16"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"24fecc24-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"15213"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	143467460	143467460	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	44	"40"	4	27	"27"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"24fed30e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"15214"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	148466170	148466170	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs782487244"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	53	"45"	8	31	"31"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs782487244"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0003"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"24ff2c32-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.150943396226415	"WGS"	FALSE
"15215"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	148508190	148508190	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"11"	36	26	"26"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"24ff310a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.765957446808511	"WGS"	FALSE
"15216"	"MAMLD1"	10046	"mskcc.org"	"GRCh37"	"X"	149684659	149684659	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000432680"	""	37	"31"	6	25	"25"	0	"MAMLD1,downstream_gene_variant,,ENST00000370401,;MAMLD1,downstream_gene_variant,,ENST00000262858,NM_005491.3;MAMLD1,downstream_gene_variant,,ENST00000426613,NM_001177466.1;MAMLD1,downstream_gene_variant,,ENST00000432680,NM_001177465.2;MAMLD1,downstream_gene_variant,,ENST00000455522,;MAMLD1,downstream_gene_variant,,ENST00000464149,;"	"G"	"ENSG00000013619"	"ENST00000432680"	"Transcript"	"downstream_gene_variant"	"-/3224"	"-/2997"	"-/998"	""	""	""	"1"	"3264"	1	"MAMLD1"	"HGNC"	2568	"protein_coding"	"YES"	"CCDS55526.1"	"ENSP00000414517"	"Q13495"	"Q6ZUZ1"	"UPI00017A6EBC"	"NM_001177465.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAC"	"24ff3e2a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162162162162162	"WGS"	FALSE
"15217"	"CD99L2"	83692	"mskcc.org"	"GRCh37"	"X"	150051008	150051008	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67+15987C>T"	""	""	"ENST00000370377"	""	40	"35"	5	18	"18"	0	"CD99L2,intron_variant,,ENST00000370377,NM_031462.3,NM_001242614.1;CD99L2,intron_variant,,ENST00000355149,NM_134445.3,NM_134446.3;CD99L2,intron_variant,,ENST00000437787,NM_001184808.1;CD99L2,intron_variant,,ENST00000466436,;CD99L2,intron_variant,,ENST00000320893,;CD99L2,intron_variant,,ENST00000346693,;CD99L2,intron_variant,,ENST00000491877,;"	"A"	"ENSG00000102181"	"ENST00000370377"	"Transcript"	"intron_variant"	"-/3604"	"-/789"	"-/262"	""	""	""	"1"	NA	-1	"CD99L2"	"HGNC"	18237	"protein_coding"	"YES"	"CCDS35427.1"	"ENSP00000359403"	"Q8TCZ2"	""	"UPI0000034CC0"	"NM_031462.3,NM_001242614.1"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"24ff42f8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"15218"	"NSDHL"	50814	"mskcc.org"	"GRCh37"	"X"	152008655	152008655	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-43-6171G>A"	""	""	"ENST00000370274"	""	49	"17"	32	27	"27"	0	"NSDHL,intron_variant,,ENST00000370274,NM_015922.2;NSDHL,intron_variant,,ENST00000440023,NM_001129765.1;NSDHL,intron_variant,,ENST00000432467,;"	"A"	"ENSG00000147383"	"ENST00000370274"	"Transcript"	"intron_variant"	"-/1929"	"-/1122"	"-/373"	""	""	""	"1"	NA	1	"NSDHL"	"HGNC"	13398	"protein_coding"	"YES"	"CCDS14717.1"	"ENSP00000359297"	"Q15738"	"C9JDR0"	"UPI0000000C8A"	"NM_015922.2"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"24ff6c42-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.653061224489796	"WGS"	FALSE
"15219"	"FAM3A"	60343	"mskcc.org"	"GRCh37"	"X"	153743375	153743375	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.13+709A>G"	""	""	"ENST00000447601"	""	43	"36"	7	19	"19"	0	"FAM3A,intron_variant,,ENST00000434658,NM_001171134.1;FAM3A,intron_variant,,ENST00000447601,NM_021806.2;FAM3A,intron_variant,,ENST00000359889,NM_001171132.1;FAM3A,intron_variant,,ENST00000369643,NM_001282312.1;FAM3A,intron_variant,,ENST00000369641,;FAM3A,intron_variant,,ENST00000393572,NM_001171133.1;FAM3A,intron_variant,,ENST00000426266,;FAM3A,intron_variant,,ENST00000442929,;WI2-89031B12.1,downstream_gene_variant,,ENST00000567614,;FAM3A,intron_variant,,ENST00000492763,;FAM3A,intron_variant,,ENST00000497506,;FAM3A,intron_variant,,ENST00000322269,NM_001282311.1;FAM3A,intron_variant,,ENST00000419205,;FAM3A,intron_variant,,ENST00000416319,;FAM3A,intron_variant,,ENST00000449971,;FAM3A,intron_variant,,ENST00000457212,;FAM3A,intron_variant,,ENST00000421517,;FAM3A,intron_variant,,ENST00000412894,;FAM3A,intron_variant,,ENST00000433619,;FAM3A,intron_variant,,ENST00000440318,;FAM3A,upstream_gene_variant,,ENST00000469041,;"	"C"	"ENSG00000071889"	"ENST00000447601"	"Transcript"	"intron_variant"	"-/1800"	"-/693"	"-/230"	""	""	""	"1"	NA	-1	"FAM3A"	"HGNC"	13749	"protein_coding"	"YES"	"CCDS35453.1"	"ENSP00000416146"	"P98173"	""	"UPI0000169ECD"	"NM_021806.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"24ffa310-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162790697674419	"WGS"	FALSE
"15220"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	4199207	4199207	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	25	"10"	15	19	"19"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"2500072e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.6	"WGS"	FALSE
"15221"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	4816054	4816054	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	30	"14"	16	19	"19"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"2500143a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.533333333333333	"WGS"	FALSE
"15222"	"PCDH11Y"	83259	"mskcc.org"	"GRCh37"	"Y"	5502125	5502125	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3287+52286G>T"	""	""	"ENST00000400457"	""	25	"22"	3	17	"17"	0	"PCDH11Y,intron_variant,,ENST00000400457,NM_032973.2;PCDH11Y,intron_variant,,ENST00000215473,;"	"T"	"ENSG00000099715"	"ENST00000400457"	"Transcript"	"intron_variant"	"-/8240"	"-/3960"	"-/1319"	""	""	""	"1"	NA	1	"PCDH11Y"	"HGNC"	15813	"protein_coding"	""	""	"ENSP00000383306"	""	"Q70LR5,Q70LR4"	"UPI000059DC01"	"NM_032973.2"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"25002998-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"15223"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	7870628	7870628	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"52"	5	23	"23"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"2500959a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087719298245614	"WGS"	FALSE
"15224"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	8707624	8707624	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	53	"16"	37	20	"20"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"25009ce8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.69811320754717	"WGS"	FALSE
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"15226"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	13218496	13218496	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	37	"7"	30	26	"26"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"25015e94-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.810810810810811	"WGS"	FALSE
"15227"	"DUX4L16"	0	"mskcc.org"	"GRCh37"	"Y"	13459570	13459570	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000555130"	""	50	"45"	5	16	"16"	0	"DUX4L16,upstream_gene_variant,,ENST00000555130,;"	"G"	"ENSG00000258567"	"ENST00000555130"	"Transcript"	"upstream_gene_variant"	"-/1264"	""	""	""	""	""	"1"	"3024"	1	"DUX4L16"	"HGNC"	37719	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"25033c5a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"15228"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	13977250	13977250	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	28	"23"	5	21	"21"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"25082d14-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"15229"	"KALP"	0	"mskcc.org"	"GRCh37"	"Y"	16017816	16017816	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1394+85G>T"	""	""	"ENST00000472227"	""	44	"36"	8	24	"24"	0	"KALP,intron_variant,,ENST00000472227,;"	"T"	"ENSG00000241859"	"ENST00000472227"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1816"	""	""	""	""	""	"1"	NA	1	"KALP"	"HGNC"	6214	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"25085a64-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"15230"	"KALP"	0	"mskcc.org"	"GRCh37"	"Y"	16022610	16022610	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1757+2417G>A"	""	""	"ENST00000472227"	""	39	"13"	26	31	"31"	0	"KALP,intron_variant,,ENST00000472227,;"	"A"	"ENSG00000241859"	"ENST00000472227"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1816"	""	""	""	""	""	"1"	NA	1	"KALP"	"HGNC"	6214	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"10/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"25085bae-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.666666666666667	"WGS"	FALSE
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"15232"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22077035	22077035	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	44	"38"	6	19	"19"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"25089146-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"15233"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22222572	22222572	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	34	"29"	5	23	"23"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"2508961e-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"15234"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22228391	22228391	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs372754548"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"36"	6	21	"21"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs372754548"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"2508a00a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"15235"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22263232	22263232	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	37	"31"	6	17	"17"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"2508ced6-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162162162162162	"WGS"	FALSE
"15236"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22272332	22272332	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"50"	6	20	"20"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"2508d782-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"15237"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22273113	22273113	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	55	"49"	6	27	"27"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"2508dafc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109090909090909	"WGS"	FALSE
"15238"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22296801	22296801	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"rs80163517"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	23	"18"	5	8	"8"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs80163517"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"2508f992-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"15239"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22317038	22317038	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"46"	26	48	"46"	2	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"25091c24-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.361111111111111	"WGS"	FALSE
"15240"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22422556	22422556	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	26	"21"	5	11	"11"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"25094820-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WGS"	FALSE
"15241"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22445718	22445718	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"41"	8	38	"38"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"2509a27a-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163265306122449	"WGS"	FALSE
"15242"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22461588	22461588	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"52"	4	23	"23"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"2509c322-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"15243"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	22461722	22461722	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs199862352"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	52	"43"	9	23	"23"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs199862352"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"2509c3cc-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173076923076923	"WGS"	FALSE
"15244"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	24002966	24002966	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	36	"15"	21	19	"19"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"250a5c4c-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.583333333333333	"WGS"	FALSE
"15245"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	24407289	24407289	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	33	"29"	4	16	"16"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"250a6282-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"15246"	"RNU6-1314P"	0	"mskcc.org"	"GRCh37"	"Y"	28508566	28508566	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000517139"	""	49	"42"	7	28	"28"	0	"RNU6-1314P,downstream_gene_variant,,ENST00000517139,;"	"T"	"ENSG00000252948"	"ENST00000517139"	"Transcript"	"downstream_gene_variant"	"-/104"	""	""	""	""	""	"1"	"1327"	1	"RNU6-1314P"	"HGNC"	48277	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"250a75d8-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"15247"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	58987385	58987385	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"rs77276126"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"37"	5	18	"18"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs77276126"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"250fb692-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"15248"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	58987701	58987701	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"rs78235995"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	39	"34"	5	23	"23"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs78235995"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	""	NA	""	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"250fb746-0964-11e6-882a-cdd9646fc502"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128205128205128	"WGS"	FALSE
"15249"	"PRDM2"	7799	"mskcc.org"	"GRCh37"	"1"	14083946	14083947	"+"	"Intron"	"DEL"	"CT"	"CT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"CT"	"CT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.511+7966_511+7967delCT"	""	""	"ENST00000235372"	""	102	"."	18	52	"."	0	"PRDM2,intron_variant,,ENST00000235372,NM_012231.4;PRDM2,intron_variant,,ENST00000311066,NM_015866.4;PRDM2,intron_variant,,ENST00000413440,NM_001007257.2;PRDM2,intron_variant,,ENST00000343137,;PRDM2,intron_variant,,ENST00000376048,NM_001135610.1;PRDM2,intron_variant,,ENST00000503842,;PRDM2,intron_variant,,ENST00000505823,;PRDM2,intron_variant,,ENST00000407521,;PRDM2,intron_variant,,ENST00000502727,;PRDM2,intron_variant,,ENST00000502724,;PRDM2,intron_variant,,ENST00000491134,;PRDM2,intron_variant,,ENST00000491815,;"	"-"	"ENSG00000116731"	"ENST00000235372"	"Transcript"	"intron_variant"	"-/7957"	"-/5157"	"-/1718"	""	""	""	"1"	NA	1	"PRDM2"	"HGNC"	9347	"protein_coding"	"YES"	"CCDS150.1"	"ENSP00000235372"	"Q13029"	"S4R3F7,D6RJM6"	"UPI000013C9CD"	"NM_012231.4"	NA	NA	""	"6/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCTC"	"79022bf8-06e5-11e6-a4ec-ee80b88faac7"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.176470588235294	"WGS"	FALSE
"15250"	"RP11-439L8.3"	149086	"mskcc.org"	"GRCh37"	"1"	31972851	31972852	"+"	"Intron"	"DEL"	"AA"	"AA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.168-184_168-183delAA"	""	""	"ENST00000418618"	""	82	"."	15	50	"."	0	"RP11-439L8.3,intron_variant,,ENST00000418618,;RNU6-40P,upstream_gene_variant,,ENST00000384254,;"	"-"	"ENSG00000228682"	"ENST00000418618"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1166"	""	""	""	""	""	"1"	NA	1	"RP11-439L8.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAAG"	"1293c538-06e6-11e6-a4ec-ee80b88faac7"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.182926829268293	"WGS"	FALSE
"15251"	"THRAP3"	9967	"mskcc.org"	"GRCh37"	"1"	36757858	36757861	"+"	"Intron"	"DEL"	"TTTG"	"TTTG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTTG"	"TTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1919-338_1919-335delGTTT"	""	""	"ENST00000354618"	""	83	"."	9	31	"."	0	"THRAP3,intron_variant,,ENST00000354618,NM_005119.3;THRAP3,intron_variant,,ENST00000469141,;THRAP3,intron_variant,,ENST00000466743,;"	"-"	"ENSG00000054118"	"ENST00000354618"	"Transcript"	"intron_variant"	"-/4432"	"-/2868"	"-/955"	""	""	""	"1"	NA	1	"THRAP3"	"HGNC"	22964	"protein_coding"	"YES"	"CCDS405.1"	"ENSP00000346634"	"Q9Y2W1"	"E9PML1"	"UPI0000203F28"	"NM_005119.3"	NA	NA	""	"6/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTGT"	"2d862d04-06e6-11e6-a4ec-ee80b88faac7"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.108433734939759	"WGS"	TRUE
"15252"	"PIK3R3"	8503	"mskcc.org"	"GRCh37"	"1"	46628291	46628294	"+"	"Intron"	"DEL"	"TTTA"	"TTTA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTTA"	"TTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.244+13606_244+13609delTAAA"	""	""	"ENST00000540385"	""	98	"."	15	58	"."	0	"PIK3R3,intron_variant,,ENST00000540385,;"	"-"	"ENSG00000117461"	"ENST00000540385"	"Transcript"	"intron_variant"	"-/1553"	"-/1524"	"-/507"	""	""	""	"1"	NA	-1	"PIK3R3"	"HGNC"	8981	"protein_coding"	""	""	"ENSP00000439913"	""	"Q9UMI3,F6TDL0"	"UPI0001AE78AF"	""	NA	NA	""	"1/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTTAT"	"6ef1a9e4-06e6-11e6-a4ec-ee80b88faac7"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.153061224489796	"WGS"	FALSE
"15253"	"CYP4Z2P"	163720	"mskcc.org"	"GRCh37"	"1"	47333392	47333393	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAAAAAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1067+215_1067+226dupTTTTTTTTTTTT"	""	""	"ENST00000423332"	""	86	"."	6	47	"."	0	"CYP4Z2P,intron_variant,,ENST00000505841,;CYP4Z2P,intron_variant,,ENST00000423332,;"	"AAAAAAAAAAAA"	"ENSG00000154198"	"ENST00000423332"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1512"	""	""	""	""	""	"1"	NA	-1	"CYP4Z2P"	"HGNC"	24426	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"8/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"23b37366-06ed-11e6-a4ec-ee80b88faac7"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0697674418604651	"WGS"	FALSE
"15254"	"TTC39A"	22996	"mskcc.org"	"GRCh37"	"1"	51794674	51794674	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.54-7177delC"	""	""	"ENST00000413473"	""	93	"."	24	43	"."	0	"TTC39A,intron_variant,,ENST00000262676,;TTC39A,intron_variant,,ENST00000413473,NM_001144832.1;TTC39A,intron_variant,,ENST00000262675,;TTC39A,intron_variant,,ENST00000451380,;TTC39A,intron_variant,,ENST00000371747,;TTC39A,intron_variant,,ENST00000439482,;TTC39A,intron_variant,,ENST00000411642,;TTC39A,intron_variant,,ENST00000380849,;TTC39A,intron_variant,,ENST00000527205,;TTC39A,intron_variant,,ENST00000401051,;TTC39A,upstream_gene_variant,,ENST00000422925,;TTC39A,upstream_gene_variant,,ENST00000532836,;RP11-275F13.1,upstream_gene_variant,,ENST00000564479,;RP11-275F13.1,upstream_gene_variant,,ENST00000568425,;"	"-"	"ENSG00000085831"	"ENST00000413473"	"Transcript"	"intron_variant"	"-/2718"	"-/1746"	"-/581"	""	""	""	"1"	NA	-1	"TTC39A"	"HGNC"	18657	"protein_coding"	"YES"	"CCDS44143.1"	"ENSP00000406144"	"Q5SRH9"	"E9PHX9,E9PAZ4,D3DQ30"	"UPI0000252149"	"NM_001144832.1"	NA	NA	""	"1/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGT"	"85df4706-06e6-11e6-a4ec-ee80b88faac7"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.258064516129032	"WGS"	FALSE
"15255"	"MROH7"	374977	"mskcc.org"	"GRCh37"	"1"	55156138	55156138	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2712-1959delA"	""	""	"ENST00000421030"	""	74	"."	7	52	"."	0	"MROH7,intron_variant,,ENST00000421030,NM_001039464.2;MROH7,intron_variant,,ENST00000339553,;MROH7,intron_variant,,ENST00000395690,;MROH7,intron_variant,,ENST00000409996,;MROH7,intron_variant,,ENST00000454855,;MROH7,intron_variant,,ENST00000545244,;MROH7-TTC4,intron_variant,,ENST00000425300,;MROH7-TTC4,intron_variant,,ENST00000414150,;MROH7-TTC4,intron_variant,,ENST00000606515,;MROH7,intron_variant,,ENST00000413188,;MROH7,intron_variant,,ENST00000422659,;MROH7,intron_variant,,ENST00000440047,;MROH7,intron_variant,,ENST00000438846,;MROH7,intron_variant,,ENST00000440217,;MROH7,intron_variant,,ENST00000493533,;"	"-"	"ENSG00000184313"	"ENST00000421030"	"Transcript"	"intron_variant"	"-/4329"	"-/3972"	"-/1323"	""	""	""	"1"	NA	1	"MROH7"	"HGNC"	24802	"protein_coding"	"YES"	"CCDS41342.2"	"ENSP00000396622"	"Q68CQ1"	"C9K0L2,B7ZBM2"	"UPI000198C4E2"	"NM_001039464.2"	NA	NA	""	"15/23"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAG"	"997305f0-06e6-11e6-a4ec-ee80b88faac7"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0945945945945946	"WGS"	FALSE
"15256"	"TTC4"	7268	"mskcc.org"	"GRCh37"	"1"	55208424	55208427	"+"	"3'Flank"	"DEL"	"CGAG"	"CGAG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"CGAG"	"CGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371281"	""	81	"."	19	50	"."	0	"TTC4,downstream_gene_variant,,ENST00000371281,NM_004623.4;TTC4,downstream_gene_variant,,ENST00000371284,;MROH7-TTC4,downstream_gene_variant,,ENST00000425300,;MROH7-TTC4,downstream_gene_variant,,ENST00000414150,;MROH7-TTC4,downstream_gene_variant,,ENST00000606515,;MROH7-TTC4,downstream_gene_variant,,ENST00000460155,;TTC4,downstream_gene_variant,,ENST00000486091,;"	"-"	"ENSG00000243725"	"ENST00000371281"	"Transcript"	"downstream_gene_variant"	"-/2395"	"-/1164"	"-/387"	""	""	""	"1"	"94"	1	"TTC4"	"HGNC"	12394	"protein_coding"	"YES"	"CCDS596.1"	"ENSP00000360329"	"O95801"	""	"UPI000013E156"	"NM_004623.4"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCGAGA"	"99dfa71e-06e6-11e6-a4ec-ee80b88faac7"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.234567901234568	"WGS"	FALSE
"15257"	"DNAJC6"	9829	"mskcc.org"	"GRCh37"	"1"	65728906	65728907	"+"	"Intron"	"DEL"	"AA"	"AA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.115+8575_115+8576delAA"	""	""	"ENST00000494710"	""	86	"."	14	50	"."	0	"DNAJC6,intron_variant,,ENST00000494710,;DNAJC6,upstream_gene_variant,,ENST00000395325,NM_014787.3;DNAJC6,upstream_gene_variant,,ENST00000263441,NM_001256865.1;DNAJC6,intron_variant,,ENST00000463018,;DNAJC6,upstream_gene_variant,,ENST00000483402,;"	"-"	"ENSG00000116675"	"ENST00000494710"	"Transcript"	"intron_variant"	"-/1621"	"-/1548"	"-/516"	""	""	""	"1"	NA	1	"DNAJC6"	"HGNC"	15469	"protein_coding"	""	""	"ENSP00000473821"	""	"S4R305"	"UPI0003335192"	""	NA	NA	""	"1/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTAAA"	"dce9f032-06e6-11e6-a4ec-ee80b88faac7"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.162790697674419	"WGS"	FALSE
"15258"	"LPHN2"	23266	"mskcc.org"	"GRCh37"	"1"	82178464	82178466	"+"	"Intron"	"DEL"	"TTG"	"TTG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTG"	"TTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-142-49032_-142-49030delTTG"	""	""	"ENST00000370728"	""	73	"."	5	35	"."	0	"LPHN2,intron_variant,,ENST00000370728,;LPHN2,intron_variant,,ENST00000370730,;LPHN2,intron_variant,,ENST00000370725,;LPHN2,intron_variant,,ENST00000370723,;LPHN2,intron_variant,,ENST00000370727,;LPHN2,intron_variant,,ENST00000370721,;LPHN2,intron_variant,,ENST00000359929,;LPHN2,intron_variant,,ENST00000469377,;LPHN2,intron_variant,,ENST00000473719,;"	"-"	"ENSG00000117114"	"ENST00000370728"	"Transcript"	"intron_variant"	"-/6302"	"-/4380"	"-/1459"	""	""	""	"1"	NA	1	"LPHN2"	"HGNC"	18582	"protein_coding"	""	""	"ENSP00000359763"	"O95490"	"Q9UJ49"	"UPI00003588C3"	""	NA	NA	""	"3/24"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTGA"	"410fb434-06e7-11e6-a4ec-ee80b88faac7"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0684931506849315	"WGS"	FALSE
"15259"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	94428536	94428539	"+"	"IGR"	"DEL"	"TCTT"	"TCTT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TCTT"	"TCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"."	16	53	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTCTTT"	"8f989bd4-06e7-11e6-a4ec-ee80b88faac7"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.197530864197531	"WGS"	FALSE
"15260"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	105827512	105827548	"+"	"IGR"	"DEL"	"TTTAAATCACTAAATTGTGGTGGCTTAAATAGTTTTG"	"TTTAAATCACTAAATTGTGGTGGCTTAAATAGTTTTG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTTAAATCACTAAATTGTGGTGGCTTAAATAGTTTTG"	"TTTAAATCACTAAATTGTGGTGGCTTAAATAGTTTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"."	14	47	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTAAATCACTAAATTGTGGTGGCTTAAATAGTTTTGC"	"d7f0596c-06e7-11e6-a4ec-ee80b88faac7"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.191780821917808	"WGS"	FALSE
"15261"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	105833523	105833523	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	25	35	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGT"	"d809f430-06e7-11e6-a4ec-ee80b88faac7"	"1500"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.271739130434783	"WGS"	FALSE
"15262"	"FAM102B"	284611	"mskcc.org"	"GRCh37"	"1"	109121612	109121612	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.137+18428delA"	""	""	"ENST00000370035"	""	103	"."	5	71	"."	0	"FAM102B,intron_variant,,ENST00000370035,NM_001010883.2;FAM102B,intron_variant,,ENST00000405454,;"	"-"	"ENSG00000162636"	"ENST00000370035"	"Transcript"	"intron_variant"	"-/5600"	"-/1083"	"-/360"	""	""	""	"1"	NA	1	"FAM102B"	"HGNC"	27637	"protein_coding"	"YES"	"CCDS30786.2"	"ENSP00000359052"	"Q5T8I3"	""	"UPI00001D7585"	"NM_001010883.2"	NA	NA	""	"1/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAA"	"eb7e65e6-06e7-11e6-a4ec-ee80b88faac7"	"61"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0485436893203883	"WGS"	FALSE
"15263"	"RP3-522D1.1"	0	"mskcc.org"	"GRCh37"	"1"	113419113	113419114	"+"	"Intron"	"INS"	"-"	"-"	"TG"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.401-446_401-445dupTG"	""	""	"ENST00000456651"	""	114	"."	28	54	"."	0	"RP3-522D1.1,intron_variant,,ENST00000456651,;RP3-522D1.1,intron_variant,,ENST00000422022,;"	"TG"	"ENSG00000224167"	"ENST00000456651"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/587"	""	""	""	""	""	"1"	NA	1	"RP3-522D1.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"f58493ac-06ed-11e6-a4ec-ee80b88faac7"	"1680"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.245614035087719	"WGS"	FALSE
"15264"	"RNF115"	27246	"mskcc.org"	"GRCh37"	"1"	145682491	145682500	"+"	"Intron"	"DEL"	"AAAAAAAAAG"	"AAAAAAAAAG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AAAAAAAAAG"	"AAAAAAAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.500+398_500+407delAAAAAAAAGA"	""	""	"ENST00000369291"	""	84	"."	5	48	"."	0	"RNF115,intron_variant,,ENST00000369291,NM_014455.3;RNF115,intron_variant,,ENST00000539368,;"	"-"	"ENSG00000121848"	"ENST00000369291"	"Transcript"	"intron_variant"	"-/9117"	"-/915"	"-/304"	""	""	""	"1"	NA	1	"RNF115"	"HGNC"	18154	"protein_coding"	"YES"	"CCDS922.1"	"ENSP00000358297"	"Q9Y4L5"	""	"UPI00001B061B"	"NM_014455.3"	NA	NA	""	"5/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAAAAAAGA"	"0e2db834-06e9-11e6-a4ec-ee80b88faac7"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0595238095238095	"WGS"	FALSE
"15265"	"ASH1L"	55870	"mskcc.org"	"GRCh37"	"1"	155460760	155460776	"+"	"Intron"	"DEL"	"AAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.421-8536_421-8520delTTTTTTTTTTTTTTTTT"	""	""	"ENST00000392403"	""	87	"."	5	42	"."	0	"ASH1L,intron_variant,,ENST00000368346,;ASH1L,intron_variant,,ENST00000392403,NM_018489.2;ASH1L,intron_variant,,ENST00000548830,;"	"-"	"ENSG00000116539"	"ENST00000392403"	"Transcript"	"intron_variant"	"-/10979"	"-/8895"	"-/2964"	""	""	""	"1"	NA	-1	"ASH1L"	"HGNC"	19088	"protein_coding"	"YES"	"CCDS1113.2"	"ENSP00000376204"	"Q9NR48"	""	"UPI0000DACAC8"	"NM_018489.2"	NA	NA	""	"2/27"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAAAAAAAAAAAAAAAAAA"	"7147f95c-06e9-11e6-a4ec-ee80b88faac7"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0574712643678161	"WGS"	FALSE
"15266"	"ATF6"	22926	"mskcc.org"	"GRCh37"	"1"	161908947	161908950	"+"	"Intron"	"DEL"	"TTTA"	"TTTA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTTA"	"TTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1805-19285_1805-19282delTTTA"	""	""	"ENST00000367942"	""	71	"."	23	48	"."	0	"ATF6,intron_variant,,ENST00000367942,NM_007348.3;"	"-"	"ENSG00000118217"	"ENST00000367942"	"Transcript"	"intron_variant"	"-/7496"	"-/2013"	"-/670"	""	""	""	"1"	NA	1	"ATF6"	"HGNC"	791	"protein_coding"	"YES"	"CCDS1235.1"	"ENSP00000356919"	"P18850"	""	"UPI000013D3E4"	"NM_007348.3"	NA	NA	""	"15/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTTTAT"	"b8cf7598-06e9-11e6-a4ec-ee80b88faac7"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.323943661971831	"WGS"	FALSE
"15267"	"POU2F1"	5451	"mskcc.org"	"GRCh37"	"1"	167364708	167364708	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.988-812delA"	""	""	"ENST00000367866"	""	108	"."	24	55	"."	0	"POU2F1,intron_variant,,ENST00000367862,NM_001198783.1;POU2F1,intron_variant,,ENST00000367866,NM_002697.3,NM_001198786.1;POU2F1,intron_variant,,ENST00000541643,;POU2F1,intron_variant,,ENST00000429375,;POU2F1,intron_variant,,ENST00000420254,;POU2F1,intron_variant,,ENST00000443275,;POU2F1,intron_variant,,ENST00000452019,;POU2F1,intron_variant,,ENST00000367865,;POU2F1,intron_variant,,ENST00000559648,;POU2F1,intron_variant,,ENST00000271411,;POU2F1,intron_variant,,ENST00000557874,;POU2F1,intron_variant,,ENST00000560232,;"	"-"	"ENSG00000143190"	"ENST00000367866"	"Transcript"	"intron_variant"	"-/13905"	"-/2301"	"-/766"	""	""	""	"1"	NA	1	"POU2F1"	"HGNC"	9212	"protein_coding"	"YES"	"CCDS1259.2"	"ENSP00000356840"	""	"J3KP77"	"UPI0000EE3C74"	"NM_002697.3,NM_001198786.1"	NA	NA	""	"9/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"df4b9832-06e9-11e6-a4ec-ee80b88faac7"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.222222222222222	"WGS"	FALSE
"15268"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	171594978	171594980	"+"	"IGR"	"DEL"	"ACT"	"ACT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"ACT"	"ACT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	17	32	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAACTA"	"fd0e01ac-06e9-11e6-a4ec-ee80b88faac7"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.184782608695652	"WGS"	FALSE
"15269"	"SLC9C2"	284525	"mskcc.org"	"GRCh37"	"1"	173490645	173490646	"+"	"Intron"	"INS"	"-"	"-"	"ATGATTTTATTA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2641-108_2641-107insTAATAAAATCAT"	""	""	"ENST00000367714"	""	84	"."	5	46	"."	0	"SLC9C2,intron_variant,,ENST00000367714,NM_178527.3;SLC9C2,downstream_gene_variant,,ENST00000536496,;SLC9C2,intron_variant,,ENST00000466087,;"	"ATGATTTTATTA"	"ENSG00000162753"	"ENST00000367714"	"Transcript"	"intron_variant"	"-/4428"	"-/3375"	"-/1124"	""	""	""	"1"	NA	-1	"SLC9C2"	"HGNC"	28664	"protein_coding"	"YES"	"CCDS1308.1"	"ENSP00000356687"	"Q5TAH2"	"F5H342"	"UPI0000197379"	"NM_178527.3"	NA	NA	""	"21/27"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"aea10b54-06ee-11e6-a4ec-ee80b88faac7"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0595238095238095	"WGS"	FALSE
"15270"	"PAPPA2"	60676	"mskcc.org"	"GRCh37"	"1"	176765823	176765823	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5130+3018delC"	""	""	"ENST00000367662"	""	97	"."	7	49	"."	0	"PAPPA2,intron_variant,,ENST00000367662,NM_020318.2;PAPPA2,intron_variant,,ENST00000479836,;"	"-"	"ENSG00000116183"	"ENST00000367662"	"Transcript"	"intron_variant"	"-/9685"	"-/5376"	"-/1791"	""	""	""	"1"	NA	1	"PAPPA2"	"HGNC"	14615	"protein_coding"	"YES"	"CCDS41438.1"	"ENSP00000356634"	"Q9BXP8"	""	"UPI000004A835"	"NM_020318.2"	NA	NA	""	"20/22"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCT"	"190915d6-06ea-11e6-a4ec-ee80b88faac7"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0721649484536082	"WGS"	FALSE
"15271"	"RP11-382E9.1"	400800	"mskcc.org"	"GRCh37"	"1"	199311795	199311795	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.310-48654delC"	""	""	"ENST00000452199"	""	90	"."	12	45	"."	0	"RP11-382E9.1,intron_variant,,ENST00000452199,;"	"-"	"ENSG00000231718"	"ENST00000452199"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2296"	""	""	""	""	""	"1"	NA	1	"RP11-382E9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCA"	"9eadb4c6-06ea-11e6-a4ec-ee80b88faac7"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.133333333333333	"WGS"	FALSE
"15272"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	200271392	200271392	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"."	19	44	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"a5b8b612-06ea-11e6-a4ec-ee80b88faac7"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.283582089552239	"WGS"	FALSE
"15273"	"SDCCAG8"	10806	"mskcc.org"	"GRCh37"	"1"	243459837	243459838	"+"	"Intron"	"INS"	"-"	"-"	"TTTTT"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.675+3337_675+3341dupTTTTT"	""	""	"ENST00000366541"	""	116	"."	8	39	"."	0	"SDCCAG8,intron_variant,,ENST00000366541,NM_006642.3;SDCCAG8,intron_variant,,ENST00000355875,;SDCCAG8,intron_variant,,ENST00000343783,;SDCCAG8,intron_variant,,ENST00000476722,;SDCCAG8,intron_variant,,ENST00000435549,;SDCCAG8,intron_variant,,ENST00000391846,;SDCCAG8,intron_variant,,ENST00000496361,;SDCCAG8,intron_variant,,ENST00000482234,;"	"TTTTT"	"ENSG00000054282"	"ENST00000366541"	"Transcript"	"intron_variant"	"-/2567"	"-/2142"	"-/713"	""	""	""	"1"	NA	1	"SDCCAG8"	"HGNC"	10671	"protein_coding"	"YES"	"CCDS31075.1"	"ENSP00000355499"	"Q86SQ7"	"A6NCS9"	"UPI000000D77E"	"NM_006642.3"	NA	NA	""	"6/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"25"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"a080e87c-06ef-11e6-a4ec-ee80b88faac7"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0689655172413793	"WGS"	FALSE
"15274"	"RP11-278H7.4"	0	"mskcc.org"	"GRCh37"	"1"	244236783	244236784	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTT"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.360+341_360+349dupAAAAAAAAA"	""	""	"ENST00000441338"	""	98	"."	6	55	"."	0	"RP11-278H7.4,intron_variant,,ENST00000441338,;"	"TTTTTTTTT"	"ENSG00000229960"	"ENST00000441338"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/468"	""	""	""	""	""	"1"	NA	-1	"RP11-278H7.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"a30d362c-06ef-11e6-a4ec-ee80b88faac7"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0612244897959184	"WGS"	FALSE
"15275"	"KIF26B"	55083	"mskcc.org"	"GRCh37"	"1"	245425745	245425748	"+"	"Intron"	"DEL"	"TTTA"	"TTTA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTTA"	"TTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.466-104388_466-104385delATTT"	""	""	"ENST00000407071"	""	94	"."	11	51	"."	0	"KIF26B,intron_variant,,ENST00000407071,NM_018012.3;"	"-"	"ENSG00000162849"	"ENST00000407071"	"Transcript"	"intron_variant"	"-/7287"	"-/6327"	"-/2108"	""	""	""	"1"	NA	1	"KIF26B"	"HGNC"	25484	"protein_coding"	"YES"	"CCDS44342.1"	"ENSP00000385545"	"Q2KJY2"	"B4DF75"	"UPI0000695D71"	"NM_018012.3"	NA	NA	""	"2/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTTAT"	"d16fca60-06eb-11e6-a4ec-ee80b88faac7"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.117021276595745	"WGS"	FALSE
"15276"	"LINC00708"	100507143	"mskcc.org"	"GRCh37"	"10"	8296317	8296318	"+"	"3'Flank"	"INS"	"-"	"-"	"ATATATATGAGAGTAT"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000428165"	""	112	"."	6	53	"."	0	"LINC00708,downstream_gene_variant,,ENST00000428165,;LINC00708,downstream_gene_variant,,ENST00000454056,;"	"ATATATATGAGAGTAT"	"ENSG00000232170"	"ENST00000428165"	"Transcript"	"downstream_gene_variant"	"-/916"	""	""	""	""	""	"1"	"4976"	-1	"LINC00708"	"HGNC"	44694	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"8c055078-06e9-11e6-b34b-c271330e85f9"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0535714285714286	"WGS"	FALSE
"15277"	"CELF2"	10659	"mskcc.org"	"GRCh37"	"10"	11063051	11063051	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.74+2926delC"	""	""	"ENST00000450189"	""	65	"."	9	45	"."	0	"CELF2,intron_variant,,ENST00000379261,NM_001025077.2;CELF2,intron_variant,,ENST00000450189,NM_006561.3;CELF2,intron_variant,,ENST00000542579,;CELF2,intron_variant,,ENST00000416382,;CELF2,intron_variant,,ENST00000399850,;CELF2,intron_variant,,ENST00000417956,;"	"-"	"ENSG00000048740"	"ENST00000450189"	"Transcript"	"intron_variant"	"-/7982"	"-/1566"	"-/521"	""	""	""	"1"	NA	1	"CELF2"	"HGNC"	2550	"protein_coding"	"YES"	"CCDS44355.1"	"ENSP00000389951"	""	"E9PC62,B4DIB6"	"UPI0000F58F21"	"NM_006561.3"	NA	NA	""	"1/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"7ab0eef8-06e5-11e6-b34b-c271330e85f9"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.138461538461538	"WGS"	FALSE
"15278"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	22472273	22472281	"+"	"IGR"	"DEL"	"TAGTCTATG"	"TAGTCTATG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TAGTCTATG"	"TAGTCTATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"."	21	42	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTAGTCTATGA"	"d96320ce-06e5-11e6-b34b-c271330e85f9"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.21875	"WGS"	FALSE
"15279"	"CTNNA3"	29119	"mskcc.org"	"GRCh37"	"10"	69262625	69262630	"+"	"Intron"	"DEL"	"TGAGAA"	"TGAGAA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TGAGAA"	"TGAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.579+18970_579+18975delTTCTCA"	""	""	"ENST00000433211"	""	96	"."	19	44	"."	0	"CTNNA3,intron_variant,,ENST00000433211,NM_013266.2;CTNNA3,intron_variant,,ENST00000373744,NM_001127384.1;CTNNA3,intron_variant,,ENST00000545309,;"	"-"	"ENSG00000183230"	"ENST00000433211"	"Transcript"	"intron_variant"	"-/10675"	"-/2688"	"-/895"	""	""	""	"1"	NA	-1	"CTNNA3"	"HGNC"	2511	"protein_coding"	"YES"	"CCDS7269.1"	"ENSP00000389714"	"Q9UI47"	"Q5SW23,A6NKP0"	"UPI000004A0E6"	"NM_013266.2"	NA	NA	""	"5/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGTGAGAAT"	"3bdad62e-06e7-11e6-b34b-c271330e85f9"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.197916666666667	"WGS"	FALSE
"15280"	"ENSR00000357119"	0	"mskcc.org"	"GRCh37"	"10"	75654218	75654218	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000357119"	""	84	"."	18	51	"."	0	""	"-"	""	"ENSR00000357119"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCC"	"6c20c4ec-06e7-11e6-b34b-c271330e85f9"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.214285714285714	"WGS"	FALSE
"15281"	"RN7SL644P"	0	"mskcc.org"	"GRCh37"	"10"	94423682	94423682	"+"	"3'Flank"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000577919"	""	98	"."	23	51	"."	0	"RN7SL644P,downstream_gene_variant,,ENST00000577919,;EIF2S2P3,downstream_gene_variant,,ENST00000428356,;EIF2S2P3,downstream_gene_variant,,ENST00000439671,;"	"-"	"ENSG00000264313"	"ENST00000577919"	"Transcript"	"downstream_gene_variant"	"-/255"	""	""	""	""	""	"1"	"4627"	1	"RN7SL644P"	"HGNC"	46660	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"dbc03080-06e7-11e6-b34b-c271330e85f9"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.23469387755102	"WGS"	FALSE
"15282"	"EXOC6"	54536	"mskcc.org"	"GRCh37"	"10"	94655880	94655881	"+"	"Intron"	"INS"	"-"	"-"	"TGTATATATGTGTATATATA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.412+1106_412+1107insATATATGTGTATATATATGT"	""	""	"ENST00000260762"	""	74	"."	5	48	"."	0	"EXOC6,intron_variant,,ENST00000371552,NM_001013848.2;EXOC6,intron_variant,,ENST00000260762,NM_019053.4;EXOC6,intron_variant,,ENST00000443748,;EXOC6,intron_variant,,ENST00000371547,;EXOC6,intron_variant,,ENST00000371543,;"	"TGTATATATGTGTATATATA"	"ENSG00000138190"	"ENST00000260762"	"Transcript"	"intron_variant"	"-/3564"	"-/2415"	"-/804"	""	""	""	"1"	NA	1	"EXOC6"	"HGNC"	23196	"protein_coding"	"YES"	"CCDS7424.2"	"ENSP00000260762"	"Q8TAG9"	"Q9NTA6,H0Y5J8,B1AP46"	"UPI0000141914"	"NM_019053.4"	NA	NA	""	"4/21"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"98c9abfe-06eb-11e6-b34b-c271330e85f9"	"262"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0675675675675676	"WGS"	FALSE
"15283"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	94893558	94893558	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"."	25	50	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATT"	"df8801ac-06e7-11e6-b34b-c271330e85f9"	"1500"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.247524752475248	"WGS"	FALSE
"15284"	"FAM178A"	55719	"mskcc.org"	"GRCh37"	"10"	102668936	102668936	"+"	"5'Flank"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000370269"	""	94	"."	22	45	"."	0	"FAM178A,upstream_gene_variant,,ENST00000238961,NM_018121.3;FAM178A,upstream_gene_variant,,ENST00000370269,NM_001136123.1;FAM178A,upstream_gene_variant,,ENST00000370271,;FAM178A,upstream_gene_variant,,ENST00000609386,NM_001243770.1;RP11-179B2.2,downstream_gene_variant,,ENST00000608554,;Y_RNA,upstream_gene_variant,,ENST00000410140,;"	"-"	"ENSG00000119906"	"ENST00000370269"	"Transcript"	"upstream_gene_variant"	"-/3712"	"-/3561"	"-/1186"	""	""	""	"1"	"3800"	1	"FAM178A"	"HGNC"	17814	"protein_coding"	"YES"	"CCDS44470.1"	"ENSP00000359292"	"Q8IX21"	""	"UPI0000458847"	"NM_001136123.1"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACT"	"1769c02e-06e8-11e6-b34b-c271330e85f9"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.234042553191489	"WGS"	FALSE
"15285"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	105714639	105714640	"+"	"IGR"	"INS"	"-"	"-"	"TA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	23	52	"."	0	""	"TA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"e283ae16-06eb-11e6-b34b-c271330e85f9"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.25	"WGS"	FALSE
"15286"	"TACC2"	10579	"mskcc.org"	"GRCh37"	"10"	123803982	123803982	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.34-5970delC"	""	""	"ENST00000369005"	""	96	"."	22	50	"."	0	"TACC2,intron_variant,,ENST00000369005,NM_206862.2;TACC2,intron_variant,,ENST00000334433,;TACC2,intron_variant,,ENST00000515273,;TACC2,intron_variant,,ENST00000515603,;TACC2,intron_variant,,ENST00000453444,;TACC2,intron_variant,,ENST00000513429,NM_206861.1;TACC2,intron_variant,,ENST00000358010,;TACC2,intron_variant,,ENST00000491540,;TACC2,intron_variant,,ENST00000498721,;TACC2,intron_variant,,ENST00000492689,;"	"-"	"ENSG00000138162"	"ENST00000369005"	"Transcript"	"intron_variant"	"-/9673"	"-/8847"	"-/2948"	""	""	""	"1"	NA	1	"TACC2"	"HGNC"	11523	"protein_coding"	"YES"	"CCDS7626.1"	"ENSP00000358001"	"O95359"	""	"UPI0000246F6B"	"NM_206862.2"	NA	NA	""	"2/22"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATCC"	"aba87f78-06e8-11e6-b34b-c271330e85f9"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.229166666666667	"WGS"	FALSE
"15287"	"RP11-298J20.4"	0	"mskcc.org"	"GRCh37"	"10"	126608445	126608758	"+"	"Intron"	"DEL"	"GCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCCCCCCCCCCCCTTTTTTTTTTTTTGAGACCTTGTCTCATCACTGTGTTGCCCAGGCTGGAGTGCCGTGGCATGATCTCGGTTCACTACAACCTCCGCCTCCCGGGTTCAAGCGATTCTTCTGCCTCAGTCTCTCGAGTAGCTGCTGGGATTACAGGCGCGTGCCACCACGCCTGGCTAATTTTTGTATTTTTAGTAGAGACAGGGTTTCACCATGTTGGCTAGGCTGGTCTCGAACTCCTGACCTCAGATGATCATCTGCCTGCCTCGGCCTCCCAGAG"	"GCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCCCCCCCCCCCCTTTTTTTTTTTTTGAGACCTTGTCTCATCACTGTGTTGCCCAGGCTGGAGTGCCGTGGCATGATCTCGGTTCACTACAACCTCCGCCTCCCGGGTTCAAGCGATTCTTCTGCCTCAGTCTCTCGAGTAGCTGCTGGGATTACAGGCGCGTGCCACCACGCCTGGCTAATTTTTGTATTTTTAGTAGAGACAGGGTTTCACCATGTTGGCTAGGCTGGTCTCGAACTCCTGACCTCAGATGATCATCTGCCTGCCTCGGCCTCCCAGAG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"GCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCCCCCCCCCCCCTTTTTTTTTTTTTGAGACCTTGTCTCATCACTGTGTTGCCCAGGCTGGAGTGCCGTGGCATGATCTCGGTTCACTACAACCTCCGCCTCCCGGGTTCAAGCGATTCTTCTGCCTCAGTCTCTCGAGTAGCTGCTGGGATTACAGGCGCGTGCCACCACGCCTGGCTAATTTTTGTATTTTTAGTAGAGACAGGGTTTCACCATGTTGGCTAGGCTGGTCTCGAACTCCTGACCTCAGATGATCATCTGCCTGCCTCGGCCTCCCAGAG"	"GCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCCCCCCCCCCCCTTTTTTTTTTTTTGAGACCTTGTCTCATCACTGTGTTGCCCAGGCTGGAGTGCCGTGGCATGATCTCGGTTCACTACAACCTCCGCCTCCCGGGTTCAAGCGATTCTTCTGCCTCAGTCTCTCGAGTAGCTGCTGGGATTACAGGCGCGTGCCACCACGCCTGGCTAATTTTTGTATTTTTAGTAGAGACAGGGTTTCACCATGTTGGCTAGGCTGGTCTCGAACTCCTGACCTCAGATGATCATCTGCCTGCCTCGGCCTCCCAGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.130+2631_130+2944delGCCCGGCCCCCCCCCCCCCTTTTTTTTTTTTTGAGACCTTGTCTCATCACTGTGTTGCCCAGGCTGGAGTGCCGTGGCATGATCTCGGTTCACTACAACCTCCGCCTCCCGGGTTCAAGCGATTCTTCTGCCTCAGTCTCTCGAGTAGCTGCTGGGATTACAGGCGCGTGCCACCACGCCTGGCTAATTTTTGTATTTTTAGTAGAGACAGGGTTTCACCATGTTGGCTAGGCTGGTCTCGAACTCCTGACCTCAGATGATCATCTGCCTGCCTCGGCCTCCCAGAGGCTGGGATTACAGGCGTGAGCCACCGC"	""	""	"ENST00000508096"	""	87	"."	5	25	"."	0	"RP11-298J20.4,intron_variant,,ENST00000508096,;"	"-"	"ENSG00000249456"	"ENST00000508096"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/555"	""	""	""	""	""	"1"	NA	1	"RP11-298J20.4"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"27"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCCCCCCCCCCCCTTTTTTTTTTTTTGAGACCTTGTCTCATCACTGTGTTGCCCAGGCTGGAGTGCCGTGGCATGATCTCGGTTCACTACAACCTCCGCCTCCCGGGTTCAAGCGATTCTTCTGCCTCAGTCTCTCGAGTAGCTGCTGGGATTACAGGCGCGTGCCACCACGCCTGGCTAATTTTTGTATTTTTAGTAGAGACAGGGTTTCACCATGTTGGCTAGGCTGGTCTCGAACTCCTGACCTCAGATGATCATCTGCCTGCCTCGGCCTCCCAGAGG"	"bd19a44e-06e8-11e6-b34b-c271330e85f9"	"262"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0574712643678161	"WGS"	FALSE
"15288"	"NELL1"	4745	"mskcc.org"	"GRCh37"	"11"	20907350	20907351	"+"	"Intron"	"INS"	"-"	"-"	"TCAC"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.603+267_603+270dupACTC"	""	""	"ENST00000357134"	""	87	"."	5	50	"."	0	"NELL1,intron_variant,,ENST00000298925,NM_001288713.1;NELL1,intron_variant,,ENST00000357134,NM_201551.1,NM_006157.3;NELL1,intron_variant,,ENST00000325319,NM_001288714.1;NELL1,intron_variant,,ENST00000532434,;NELL1,intron_variant,,ENST00000527873,;NELL1,intron_variant,,ENST00000529595,;NELL1,downstream_gene_variant,,ENST00000524738,;"	"TCAC"	"ENSG00000165973"	"ENST00000357134"	"Transcript"	"intron_variant"	"-/3022"	"-/2433"	"-/810"	""	""	""	"1"	NA	1	"NELL1"	"HGNC"	7750	"protein_coding"	"YES"	"CCDS7855.1"	"ENSP00000349654"	"Q92832"	"K9UUD5"	"UPI000013E53D"	"NM_201551.1,NM_006157.3"	NA	NA	""	"5/19"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"5944dc9e-06e9-11e6-b3b3-eb2eb0f6b27b"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0574712643678161	"WGS"	FALSE
"15289"	"GAS2"	2620	"mskcc.org"	"GRCh37"	"11"	22658760	22658790	"+"	"Intron"	"DEL"	"TTAATAGTATACTAATATAATATTAATTATA"	"TTAATAGTATACTAATATAATATTAATTATA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTAATAGTATACTAATATAATATTAATTATA"	"TTAATAGTATACTAATATAATATTAATTATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-21+11420_-21+11450delATATTAATTATATTAATAGTATACTAATATA"	""	""	"ENST00000528582"	""	51	"."	5	16	"."	0	"GAS2,intron_variant,,ENST00000528582,;"	"-"	"ENSG00000148935"	"ENST00000528582"	"Transcript"	"intron_variant"	"-/736"	"-/544"	"-/181"	""	""	""	"1"	NA	1	"GAS2"	"HGNC"	4167	"protein_coding"	""	""	"ENSP00000432584"	""	"E9PQ74,E9PQ37,E9PM28"	"UPI0001F780FB"	""	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"19"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTAATAGTATACTAATATAATATTAATTATAT"	"c3a1d10e-06e5-11e6-b3b3-eb2eb0f6b27b"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0980392156862745	"WGS"	FALSE
"15290"	"AGBL2"	79841	"mskcc.org"	"GRCh37"	"11"	47699261	47699769	"+"	"Intron"	"DEL"	"TCCCAAAGTGCTGGGATTACAGGCGTGAGCCATCATGCCTGGCCCATTTTATTTATTCATCAAATATTTACTAAGTATATGCTGAAAGGCATTTTATTTATTGCTGGGAACACAAAGATGAATAACCTGCACCCCTGCTAGTAAGGACATGTTAACAGAAAATTACATGAGCGGGAGGAACAAATAGAAATTTTTTTAGGGCAGAACATCAGTGAGCACTGCTCTAGCCACTTTTCTCTGACTAGAGCCAACTTCTTCTTTTTTATTTTTTTTTGAGACAGAGTCTTGCTCTGTCTCCAGGCTGGAGTACAGTGGCGTGATCTTGGCTCACTGCAACCTCCGCCCCCTGGGTTCAAGCCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGCGCACACCACCACGCCCAGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACCACGTTGGCCAGGATGGTCTCGAACTCCTGACCTCGTGATCTGCCCGCCTTGGCC"	"TCCCAAAGTGCTGGGATTACAGGCGTGAGCCATCATGCCTGGCCCATTTTATTTATTCATCAAATATTTACTAAGTATATGCTGAAAGGCATTTTATTTATTGCTGGGAACACAAAGATGAATAACCTGCACCCCTGCTAGTAAGGACATGTTAACAGAAAATTACATGAGCGGGAGGAACAAATAGAAATTTTTTTAGGGCAGAACATCAGTGAGCACTGCTCTAGCCACTTTTCTCTGACTAGAGCCAACTTCTTCTTTTTTATTTTTTTTTGAGACAGAGTCTTGCTCTGTCTCCAGGCTGGAGTACAGTGGCGTGATCTTGGCTCACTGCAACCTCCGCCCCCTGGGTTCAAGCCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGCGCACACCACCACGCCCAGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACCACGTTGGCCAGGATGGTCTCGAACTCCTGACCTCGTGATCTGCCCGCCTTGGCC"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TCCCAAAGTGCTGGGATTACAGGCGTGAGCCATCATGCCTGGCCCATTTTATTTATTCATCAAATATTTACTAAGTATATGCTGAAAGGCATTTTATTTATTGCTGGGAACACAAAGATGAATAACCTGCACCCCTGCTAGTAAGGACATGTTAACAGAAAATTACATGAGCGGGAGGAACAAATAGAAATTTTTTTAGGGCAGAACATCAGTGAGCACTGCTCTAGCCACTTTTCTCTGACTAGAGCCAACTTCTTCTTTTTTATTTTTTTTTGAGACAGAGTCTTGCTCTGTCTCCAGGCTGGAGTACAGTGGCGTGATCTTGGCTCACTGCAACCTCCGCCCCCTGGGTTCAAGCCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGCGCACACCACCACGCCCAGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACCACGTTGGCCAGGATGGTCTCGAACTCCTGACCTCGTGATCTGCCCGCCTTGGCC"	"TCCCAAAGTGCTGGGATTACAGGCGTGAGCCATCATGCCTGGCCCATTTTATTTATTCATCAAATATTTACTAAGTATATGCTGAAAGGCATTTTATTTATTGCTGGGAACACAAAGATGAATAACCTGCACCCCTGCTAGTAAGGACATGTTAACAGAAAATTACATGAGCGGGAGGAACAAATAGAAATTTTTTTAGGGCAGAACATCAGTGAGCACTGCTCTAGCCACTTTTCTCTGACTAGAGCCAACTTCTTCTTTTTTATTTTTTTTTGAGACAGAGTCTTGCTCTGTCTCCAGGCTGGAGTACAGTGGCGTGATCTTGGCTCACTGCAACCTCCGCCCCCTGGGTTCAAGCCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGCGCACACCACCACGCCCAGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACCACGTTGGCCAGGATGGTCTCGAACTCCTGACCTCGTGATCTGCCCGCCTTGGCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2017-816_2017-308delGGCCAAGGCGGGCAGATCACGAGGTCAGGAGTTCGAGACCATCCTGGCCAACGTGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCTGGGCGTGGTGGTGTGCGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATGGCTTGAACCCAGGGGGCGGAGGTTGCAGTGAGCCAAGATCACGCCACTGTACTCCAGCCTGGAGACAGAGCAAGACTCTGTCTCAAAAAAAAATAAAAAAGAAGAAGTTGGCTCTAGTCAGAGAAAAGTGGCTAGAGCAGTGCTCACTGATGTTCTGCCCTAAAAAAATTTCTATTTGTTCCTCCCGCTCATGTAATTTTCTGTTAACATGTCCTTACTAGCAGGGGTGCAGGTTATTCATCTTTGTGTTCCCAGCAATAAATAAAATGCCTTTCAGCATATACTTAGTAAATATTTGATGAATAAATAAAATGGGCCAGGCATGATGGCTCACGCCTGTAATCCCAGCACTTTGGGA"	""	""	"ENST00000525123"	""	90	"."	5	46	"."	0	"AGBL2,intron_variant,,ENST00000525123,NM_024783.3;AGBL2,intron_variant,,ENST00000357610,;AGBL2,intron_variant,,ENST00000298861,;AGBL2,intron_variant,,ENST00000528244,;AGBL2,intron_variant,,ENST00000529712,;AGBL2,intron_variant,,ENST00000528609,;"	"-"	"ENSG00000165923"	"ENST00000525123"	"Transcript"	"intron_variant"	"-/3577"	"-/2709"	"-/902"	""	""	""	"1"	NA	-1	"AGBL2"	"HGNC"	26296	"protein_coding"	"YES"	"CCDS7944.1"	"ENSP00000435582"	"Q5U5Z8"	"E9PJH3,E9PI49"	"UPI00001A95E3"	"NM_024783.3"	NA	NA	""	"13/18"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTCCCAAAGTGCTGGGATTACAGGCGTGAGCCATCATGCCTGGCCCATTTTATTTATTCATCAAATATTTACTAAGTATATGCTGAAAGGCATTTTATTTATTGCTGGGAACACAAAGATGAATAACCTGCACCCCTGCTAGTAAGGACATGTTAACAGAAAATTACATGAGCGGGAGGAACAAATAGAAATTTTTTTAGGGCAGAACATCAGTGAGCACTGCTCTAGCCACTTTTCTCTGACTAGAGCCAACTTCTTCTTTTTTATTTTTTTTTGAGACAGAGTCTTGCTCTGTCTCCAGGCTGGAGTACAGTGGCGTGATCTTGGCTCACTGCAACCTCCGCCCCCTGGGTTCAAGCCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGCGCACACCACCACGCCCAGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACCACGTTGGCCAGGATGGTCTCGAACTCCTGACCTCGTGATCTGCCCGCCTTGGCCT"	"75344456-06e6-11e6-b3b3-eb2eb0f6b27b"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0555555555555556	"WGS"	FALSE
"15291"	"RP11-163O19.1"	0	"mskcc.org"	"GRCh37"	"11"	49886138	49886150	"+"	"3'Flank"	"DEL"	"AAAAAAAAAAAAC"	"AAAAAAAAAAAAC"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AAAAAAAAAAAAC"	"AAAAAAAAAAAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000534129"	""	111	"."	7	78	"."	0	"RP11-163O19.1,downstream_gene_variant,,ENST00000534129,;"	"-"	"ENSG00000254714"	"ENST00000534129"	"Transcript"	"downstream_gene_variant"	"-/1502"	""	""	""	""	""	"1"	"2058"	1	"RP11-163O19.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAAAAAAAAACA"	"86f0ee92-06e6-11e6-b3b3-eb2eb0f6b27b"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0630630630630631	"WGS"	FALSE
"15292"	"FAM86C2P"	645332	"mskcc.org"	"GRCh37"	"11"	67562855	67562856	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.986+1291_986+1299dupTTTTTTTTT"	""	""	"ENST00000528089"	""	99	"."	6	36	"."	0	"FAM86C2P,intron_variant,,ENST00000528089,;FAM86C2P,intron_variant,,ENST00000529253,;FAM86C2P,intron_variant,,ENST00000531806,;FAM86C2P,downstream_gene_variant,,ENST00000525180,;FAM86C2P,intron_variant,,ENST00000528684,;ALG1L8P,downstream_gene_variant,,ENST00000533887,;"	"AAAAAAAAA"	"ENSG00000160172"	"ENST00000528089"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2496"	""	""	""	""	""	"1"	NA	-1	"FAM86C2P"	"HGNC"	42392	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"65c57f0e-06ea-11e6-b3b3-eb2eb0f6b27b"	"244"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0606060606060606	"WGS"	FALSE
"15293"	"RP11-179A16.1"	101928989	"mskcc.org"	"GRCh37"	"11"	82177250	82177251	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.441-109581_441-109580delCA"	""	""	"ENST00000532217"	""	91	"."	5	43	"."	0	"RP11-179A16.1,intron_variant,,ENST00000532217,;"	"-"	"ENSG00000245832"	"ENST00000532217"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/572"	""	""	""	""	""	"1"	NA	-1	"RP11-179A16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGA"	"49f12876-06e7-11e6-b3b3-eb2eb0f6b27b"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0549450549450549	"WGS"	FALSE
"15294"	"DYNC2H1"	79659	"mskcc.org"	"GRCh37"	"11"	103073556	103073557	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8198-834dupT"	""	""	"ENST00000398093"	""	91	"."	16	59	"."	0	"DYNC2H1,intron_variant,,ENST00000375735,NM_001080463.1,NM_001377.2;DYNC2H1,intron_variant,,ENST00000398093,;DYNC2H1,intron_variant,,ENST00000334267,;DYNC2H1,upstream_gene_variant,,ENST00000533027,;"	"T"	"ENSG00000187240"	"ENST00000398093"	"Transcript"	"intron_variant"	"-/12945"	"-/12945"	"-/4314"	""	""	""	"1"	NA	1	"DYNC2H1"	"HGNC"	2962	"protein_coding"	"YES"	"CCDS44717.1"	"ENSP00000381167"	"Q8NCM8"	""	"UPI0000481AC7"	""	NA	NA	""	"50/89"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"393b5714-06eb-11e6-b3b3-eb2eb0f6b27b"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.175824175824176	"WGS"	FALSE
"15295"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	10721024	10721029	"+"	"IGR"	"DEL"	"TACAGG"	"TACAGG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TACAGG"	"TACAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"."	12	41	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTACAGGC"	"74b4f3fa-06e5-11e6-a4cc-998677c09994"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.244897959183673	"WGS"	FALSE
"15296"	"RP11-59N23.3"	0	"mskcc.org"	"GRCh37"	"12"	21892771	21892771	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.460-20074delT"	""	""	"ENST00000541860"	""	104	"."	16	48	"."	0	"LDHB,intron_variant,,ENST00000539782,;RP11-59N23.3,intron_variant,,ENST00000541860,;LDHB,intron_variant,,ENST00000535112,;"	"-"	"ENSG00000256615"	"ENST00000541860"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/578"	""	""	""	""	""	"1"	NA	1	"RP11-59N23.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTT"	"cc273b5c-06e5-11e6-a4cc-998677c09994"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.153846153846154	"WGS"	FALSE
"15297"	"ENSR00000429079"	0	"mskcc.org"	"GRCh37"	"12"	39516937	39516938	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000429079"	""	108	"."	25	44	"."	0	""	"A"	""	"ENSR00000429079"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"05b183ba-06ea-11e6-a4cc-998677c09994"	"1500"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.231481481481481	"WGS"	FALSE
"15298"	"CNTN1"	1272	"mskcc.org"	"GRCh37"	"12"	41218424	41218425	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-76-83732dupT"	""	""	"ENST00000551295"	""	86	"."	7	46	"."	0	"CNTN1,intron_variant,,ENST00000551295,NM_001843.3;CNTN1,intron_variant,,ENST00000547702,NM_001256063.1;CNTN1,intron_variant,,ENST00000551424,;CNTN1,intron_variant,,ENST00000548005,;CNTN1,intron_variant,,ENST00000552248,;CNTN1,upstream_gene_variant,,ENST00000547849,NM_001256064.1;CNTN1,upstream_gene_variant,,ENST00000552913,;"	"T"	"ENSG00000018236"	"ENST00000551295"	"Transcript"	"intron_variant"	"-/5557"	"-/3057"	"-/1018"	""	""	""	"1"	NA	1	"CNTN1"	"HGNC"	2171	"protein_coding"	"YES"	"CCDS8737.1"	"ENSP00000447006"	"Q12860"	"F8VX96,F8VUI9,F8VUI8,F8VQW3"	"UPI0000127EBA"	"NM_001843.3"	NA	NA	""	"1/23"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"0ff88c1a-06ea-11e6-a4cc-998677c09994"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0813953488372093	"WGS"	FALSE
"15299"	"RP11-478B9.1"	0	"mskcc.org"	"GRCh37"	"12"	45501066	45501068	"+"	"3'Flank"	"DEL"	"TGT"	"TGT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TGT"	"TGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000548424"	""	86	"."	17	36	"."	0	"RP11-478B9.1,downstream_gene_variant,,ENST00000548424,;"	"-"	"ENSG00000257319"	"ENST00000548424"	"Transcript"	"downstream_gene_variant"	"-/499"	""	""	""	""	""	"1"	"4176"	1	"RP11-478B9.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCTGTT"	"5a40c0e8-06e6-11e6-a4cc-998677c09994"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.197674418604651	"WGS"	FALSE
"15300"	"VDR"	7421	"mskcc.org"	"GRCh37"	"12"	48294404	48294405	"+"	"Intron"	"DEL"	"GA"	"GA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"GA"	"GA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67+3942_67+3943delTC"	""	""	"ENST00000550325"	""	78	"."	24	58	"."	0	"VDR,intron_variant,,ENST00000229022,NM_001017535.1;VDR,intron_variant,,ENST00000395324,;VDR,intron_variant,,ENST00000550325,NM_001017536.1;VDR,intron_variant,,ENST00000549336,NM_000376.2;VDR,intron_variant,,ENST00000535672,;VDR,intron_variant,,ENST00000546653,;VDR,intron_variant,,ENST00000548664,;RP11-89H19.1,intron_variant,,ENST00000380601,;VDR,intron_variant,,ENST00000547065,;"	"-"	"ENSG00000111424"	"ENST00000550325"	"Transcript"	"intron_variant"	"-/3925"	"-/1434"	"-/477"	""	""	""	"1"	NA	-1	"VDR"	"HGNC"	12679	"protein_coding"	"YES"	"CCDS55820.1"	"ENSP00000447173"	"P11473"	"T1WSQ6,Q6T928,F8VXQ9,F8VVY8,F8VRJ4,F8VPF8,F1D8P8"	"UPI000015B2DC"	"NM_001017536.1"	NA	NA	""	"1/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTGAG"	"69f18306-06e6-11e6-a4cc-998677c09994"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.307692307692308	"WGS"	FALSE
"15301"	"DGKA"	1606	"mskcc.org"	"GRCh37"	"12"	56338917	56338942	"+"	"Intron"	"DEL"	"GAGGAAGACCAGTTTAAGGAAGAAAA"	"GAGGAAGACCAGTTTAAGGAAGAAAA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"GAGGAAGACCAGTTTAAGGAAGAAAA"	"GAGGAAGACCAGTTTAAGGAAGAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1426+2870_1426+2895delGAGGAAGACCAGTTTAAGGAAGAAAA"	""	""	"ENST00000331886"	""	68	"."	23	45	"."	0	"DGKA,intron_variant,,ENST00000331886,NM_001345.4;DGKA,intron_variant,,ENST00000394147,NM_201445.1,NM_201444.2,NM_201554.1;DGKA,intron_variant,,ENST00000551156,;DGKA,intron_variant,,ENST00000555218,;DGKA,intron_variant,,ENST00000552903,;DGKA,intron_variant,,ENST00000549079,;DGKA,intron_variant,,ENST00000552478,;DGKA,intron_variant,,ENST00000551739,;DGKA,intron_variant,,ENST00000551296,;DGKA,intron_variant,,ENST00000402956,;DGKA,intron_variant,,ENST00000553084,;DGKA,intron_variant,,ENST00000551585,;DGKA,downstream_gene_variant,,ENST00000548047,;DGKA,downstream_gene_variant,,ENST00000547358,;DGKA,downstream_gene_variant,,ENST00000552652,;DGKA,downstream_gene_variant,,ENST00000552335,;DGKA,downstream_gene_variant,,ENST00000554434,;DGKA,downstream_gene_variant,,ENST00000557180,;DGKA,downstream_gene_variant,,ENST00000549986,;DGKA,downstream_gene_variant,,ENST00000550484,;"	"-"	"ENSG00000065357"	"ENST00000331886"	"Transcript"	"intron_variant"	"-/2909"	"-/2208"	"-/735"	""	""	""	"1"	NA	1	"DGKA"	"HGNC"	2849	"protein_coding"	"YES"	"CCDS8896.1"	"ENSP00000328405"	"P23743"	"G3V4I3,G3V327,F8W1M3,F8W1H7,F8VWX8,F8VNZ9,C9JM35"	"UPI000007417B"	"NM_001345.4"	NA	NA	""	"17/23"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGAGGAAGACCAGTTTAAGGAAGAAAAA"	"a4a9d5c0-06e6-11e6-a4cc-998677c09994"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.338235294117647	"WGS"	FALSE
"15302"	"DPY19L2"	283417	"mskcc.org"	"GRCh37"	"12"	63986814	63986814	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1580+1053delT"	""	""	"ENST00000324472"	""	118	"."	5	62	"."	0	"DPY19L2,intron_variant,,ENST00000324472,NM_173812.4;DPY19L2,downstream_gene_variant,,ENST00000541083,;DPY19L2,intron_variant,,ENST00000439061,;DPY19L2,downstream_gene_variant,,ENST00000306389,;"	"-"	"ENSG00000177990"	"ENST00000324472"	"Transcript"	"intron_variant"	"-/4060"	"-/2277"	"-/758"	""	""	""	"1"	NA	-1	"DPY19L2"	"HGNC"	19414	"protein_coding"	"YES"	"CCDS31851.1"	"ENSP00000315988"	"Q6NUT2"	"F5H4G6,F5H1L7,B4E191"	"UPI000006EC0C"	"NM_173812.4"	NA	NA	""	"16/21"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGAA"	"d9d01cf0-06e6-11e6-a4cc-998677c09994"	"67"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0423728813559322	"WGS"	FALSE
"15303"	"GRIP1"	23426	"mskcc.org"	"GRCh37"	"12"	66758069	66758071	"+"	"Intron"	"DEL"	"AAG"	"AAG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AAG"	"AAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2856+7403_2856+7405delCTT"	""	""	"ENST00000398016"	""	96	"."	6	39	"."	0	"GRIP1,intron_variant,,ENST00000359742,;GRIP1,intron_variant,,ENST00000286445,;GRIP1,intron_variant,,ENST00000398016,NM_021150.3;GRIP1,intron_variant,,ENST00000538211,NM_001178074.1;GRIP1,intron_variant,,ENST00000538164,;GRIP1,intron_variant,,ENST00000540854,;GRIP1,intron_variant,,ENST00000535323,;"	"-"	"ENSG00000155974"	"ENST00000398016"	"Transcript"	"intron_variant"	"-/4888"	"-/3231"	"-/1076"	""	""	""	"1"	NA	-1	"GRIP1"	"HGNC"	18708	"protein_coding"	"YES"	"CCDS41807.1"	"ENSP00000381098"	"Q9Y3R0"	"F5H5I0,F5H4P8,F5H424"	"UPI0000DD8148"	"NM_021150.3"	NA	NA	""	"22/23"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAAAGA"	"ecec9264-06e6-11e6-a4cc-998677c09994"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0625	"WGS"	FALSE
"15304"	"RP11-12K6.2"	0	"mskcc.org"	"GRCh37"	"12"	73126715	73126716	"+"	"5'Flank"	"INS"	"-"	"-"	"TA"	"rs762293677"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000547563"	""	89	"."	9	42	"."	0	"RP11-12K6.2,upstream_gene_variant,,ENST00000547563,;"	"TA"	"ENSG00000258235"	"ENST00000547563"	"Transcript"	"upstream_gene_variant"	"-/381"	""	""	""	""	"rs762293677"	"1"	"4091"	-1	"RP11-12K6.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"c7b5d66e-06ea-11e6-a4cc-998677c09994"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.101123595505618	"WGS"	FALSE
"15305"	"SYT1"	6857	"mskcc.org"	"GRCh37"	"12"	79840148	79840148	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1062+2164delA"	""	""	"ENST00000261205"	""	73	"."	12	55	"."	0	"SYT1,intron_variant,,ENST00000261205,NM_005639.2;SYT1,intron_variant,,ENST00000457153,;SYT1,intron_variant,,ENST00000393240,NM_001135805.1;SYT1,intron_variant,,ENST00000552744,NM_001135806.1;RP1-78O14.1,intron_variant,,ENST00000550268,;RP1-78O14.1,intron_variant,,ENST00000553165,;RP1-78O14.1,intron_variant,,ENST00000549527,;"	"-"	"ENSG00000067715"	"ENST00000261205"	"Transcript"	"intron_variant"	"-/4808"	"-/1269"	"-/422"	""	""	""	"1"	NA	1	"SYT1"	"HGNC"	11509	"protein_coding"	"YES"	"CCDS9017.1"	"ENSP00000261205"	"P21579"	"F8W1U9,F8VZY3,F8VYH8,F8VP93,C9JX50"	"UPI000013669A"	"NM_005639.2"	NA	NA	""	"10/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"3fade412-06e7-11e6-a4cc-998677c09994"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.164383561643836	"WGS"	FALSE
"15306"	"TMTC2"	160335	"mskcc.org"	"GRCh37"	"12"	83102375	83102375	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.83+20928delG"	""	""	"ENST00000321196"	""	88	"."	22	51	"."	0	"TMTC2,intron_variant,,ENST00000321196,NM_152588.1;TMTC2,intron_variant,,ENST00000548305,;TMTC2,intron_variant,,ENST00000546590,;TMTC2,intron_variant,,ENST00000551915,;"	"-"	"ENSG00000179104"	"ENST00000321196"	"Transcript"	"intron_variant"	"-/5681"	"-/2511"	"-/836"	""	""	""	"1"	NA	1	"TMTC2"	"HGNC"	25440	"protein_coding"	"YES"	"CCDS9025.1"	"ENSP00000322300"	"Q8N394"	""	"UPI0000073F0F"	"NM_152588.1"	NA	NA	""	"1/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"516805b6-06e7-11e6-a4cc-998677c09994"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.25	"WGS"	FALSE
"15307"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	84334600	84334603	"+"	"IGR"	"DEL"	"TTTC"	"TTTC"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTTC"	"TTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"."	7	53	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTCT"	"58729650-06e7-11e6-a4cc-998677c09994"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0583333333333333	"WGS"	FALSE
"15308"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	95263960	95263961	"+"	"IGR"	"INS"	"-"	"-"	"AAATAC"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"."	5	44	"."	0	""	"AAATAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"3dbce8d4-06eb-11e6-a4cc-998677c09994"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0675675675675676	"WGS"	FALSE
"15309"	"RBM19"	9904	"mskcc.org"	"GRCh37"	"12"	114265330	114265331	"+"	"Intron"	"INS"	"-"	"-"	"G"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2786-4205dupC"	""	""	"ENST00000545145"	""	155	"."	16	51	"."	0	"RBM19,intron_variant,,ENST00000545145,NM_001146699.1;RBM19,intron_variant,,ENST00000261741,NM_016196.3;RBM19,intron_variant,,ENST00000392561,NM_001146698.1;RBM19,intron_variant,,ENST00000552384,;"	"G"	"ENSG00000122965"	"ENST00000545145"	"Transcript"	"intron_variant"	"-/4422"	"-/2883"	"-/960"	""	""	""	"1"	NA	-1	"RBM19"	"HGNC"	29098	"protein_coding"	"YES"	"CCDS9172.1"	"ENSP00000442053"	"Q9Y4C8"	""	"UPI000013D1EC"	"NM_001146699.1"	NA	NA	""	"23/24"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"a4e90628-06eb-11e6-a4cc-998677c09994"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.103225806451613	"WGS"	FALSE
"15310"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	115683902	115683902	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"."	15	68	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGC"	"1c7598d6-06e8-11e6-a4cc-998677c09994"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.182926829268293	"WGS"	FALSE
"15311"	"RP11-110L15.1"	0	"mskcc.org"	"GRCh37"	"12"	116203054	116203062	"+"	"Intron"	"DEL"	"TTTTTTTTT"	"TTTTTTTTT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTTTTTTTT"	"TTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.130-175_130-167delTTTTTTTTT"	""	""	"ENST00000549163"	""	82	"."	5	45	"."	0	"RP11-110L15.1,intron_variant,,ENST00000549163,;"	"-"	"ENSG00000257781"	"ENST00000549163"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/441"	""	""	""	""	""	"1"	NA	1	"RP11-110L15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"30"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTTTTTTTT"	"20823862-06e8-11e6-a4cc-998677c09994"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0609756097560976	"WGS"	FALSE
"15312"	"ANKRD20A9P"	0	"mskcc.org"	"GRCh37"	"13"	19428598	19428598	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.479+319delC"	""	""	"ENST00000457997"	""	66	"."	7	52	"."	0	"ANKRD20A9P,intron_variant,,ENST00000457997,;"	"-"	"ENSG00000206192"	"ENST00000457997"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2978"	""	""	""	""	""	"1"	NA	-1	"ANKRD20A9P"	"HGNC"	42023	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"6/18"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"1ffff008-06e5-11e6-b21f-967789837276"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.106060606060606	"WGS"	FALSE
"15313"	"TPTE2"	93492	"mskcc.org"	"GRCh37"	"13"	20068503	20068504	"+"	"Intron"	"DEL"	"TT"	"TT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.12-863_12-862delAA"	""	""	"ENST00000400230"	""	65	"."	7	38	"."	0	"TPTE2,intron_variant,,ENST00000400230,;TPTE2,intron_variant,,ENST00000382977,NM_199254.2;TPTE2,intron_variant,,ENST00000382978,;TPTE2,intron_variant,,ENST00000382975,;TPTE2,intron_variant,,ENST00000400103,NM_001141968.1;TPTE2,intron_variant,,ENST00000255310,;TPTE2,intron_variant,,ENST00000390680,NM_130785.3;TPTE2,intron_variant,,ENST00000457266,;TPTE2,intron_variant,,ENST00000462409,;"	"-"	"ENSG00000132958"	"ENST00000400230"	"Transcript"	"intron_variant"	"-/1793"	"-/1569"	"-/522"	""	""	""	"1"	NA	-1	"TPTE2"	"HGNC"	17299	"protein_coding"	"YES"	"CCDS45014.1"	"ENSP00000383089"	"Q6XPS3"	""	"UPI000040738D"	""	NA	NA	""	"1/19"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTT"	"2858806c-06e5-11e6-b21f-967789837276"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.107692307692308	"WGS"	FALSE
"15314"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	23506182	23506183	"+"	"IGR"	"INS"	"-"	"-"	"AA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"."	13	55	"."	0	""	"AA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"2bf444ba-06e8-11e6-b21f-967789837276"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.154761904761905	"WGS"	FALSE
"15315"	"NBEA"	26960	"mskcc.org"	"GRCh37"	"13"	36038393	36038394	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6449-8143dupT"	""	""	"ENST00000400445"	""	81	"."	14	47	"."	0	"NBEA,intron_variant,,ENST00000400445,NM_015678.4;NBEA,intron_variant,,ENST00000540320,;NBEA,intron_variant,,ENST00000310336,;NBEA,intron_variant,,ENST00000379939,;"	"T"	"ENSG00000172915"	"ENST00000400445"	"Transcript"	"intron_variant"	"-/11119"	"-/8841"	"-/2946"	""	""	""	"1"	NA	1	"NBEA"	"HGNC"	7648	"protein_coding"	"YES"	"CCDS45026.1"	"ENSP00000383295"	"Q8NFP9"	""	"UPI00004FF92F"	"NM_015678.4"	NA	NA	""	"40/57"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"88950c54-06e8-11e6-b21f-967789837276"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.172839506172839	"WGS"	FALSE
"15316"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	39629394	39629394	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"."	23	58	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"cb2561de-06e5-11e6-b21f-967789837276"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.232323232323232	"WGS"	FALSE
"15317"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	43437584	43437584	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"."	21	40	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGCC"	"e8c29342-06e5-11e6-b21f-967789837276"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.247058823529412	"WGS"	FALSE
"15318"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	53490706	53490707	"+"	"IGR"	"DEL"	"TA"	"TA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"."	5	34	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTAA"	"262a4a54-06e6-11e6-b21f-967789837276"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0694444444444444	"WGS"	FALSE
"15319"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	53955653	53955654	"+"	"IGR"	"DEL"	"TT"	"TT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"."	16	52	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTT"	"28953b82-06e6-11e6-b21f-967789837276"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.175824175824176	"WGS"	FALSE
"15320"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	54848309	54848310	"+"	"IGR"	"INS"	"-"	"-"	"TATATATG"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"."	5	33	"."	0	""	"TATATATG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"fd4ae730-06e8-11e6-b21f-967789837276"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0694444444444444	"WGS"	FALSE
"15321"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	57140483	57140484	"+"	"IGR"	"INS"	"-"	"-"	"TA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"."	25	65	"."	0	""	"TA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"0ca3ac3a-06e9-11e6-b21f-967789837276"	"1500"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.245098039215686	"WGS"	FALSE
"15322"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	57142962	57142963	"+"	"IGR"	"DEL"	"TG"	"TG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"."	29	41	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATGT"	"3c89c09a-06e6-11e6-b21f-967789837276"	"1740"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.325842696629214	"WGS"	FALSE
"15323"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	58648078	58648078	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"."	26	54	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACGT"	"4673d410-06e6-11e6-b21f-967789837276"	"1560"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.279569892473118	"WGS"	FALSE
"15324"	"PCDH9"	5101	"mskcc.org"	"GRCh37"	"13"	67808246	67808247	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000544246"	""	91	"."	16	77	"."	0	"PCDH9,upstream_gene_variant,,ENST00000544246,NM_203487.2;PCDH9,upstream_gene_variant,,ENST00000456367,NM_020403.4;PCDH9,upstream_gene_variant,,ENST00000377861,;"	"A"	"ENSG00000184226"	"ENST00000544246"	"Transcript"	"upstream_gene_variant"	"-/6226"	"-/3714"	"-/1237"	""	""	""	"1"	"3778"	-1	"PCDH9"	"HGNC"	8661	"protein_coding"	"YES"	"CCDS9444.1"	"ENSP00000442186"	"Q9HC56"	""	"UPI00001FCE90"	"NM_203487.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"4e7fabe0-06e9-11e6-b21f-967789837276"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.175824175824176	"WGS"	FALSE
"15325"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	68807816	68807817	"+"	"IGR"	"INS"	"-"	"-"	"ATATATATATACACACACATATTATACACACAC"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	58	"."	5	38	"."	0	""	"ATATATATATACACACACATATTATACACACAC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"540b8fd4-06e9-11e6-b21f-967789837276"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0862068965517241	"WGS"	FALSE
"15326"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	83552612	83552616	"+"	"IGR"	"DEL"	"TTATT"	"TTATT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTATT"	"TTATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"."	15	53	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATTATTA"	"edc9aa64-06e6-11e6-b21f-967789837276"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.185185185185185	"WGS"	FALSE
"15327"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	84813890	84814077	"+"	"IGR"	"DEL"	"TATATATATACTTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATAAGTGTATATATATAAGTATATATGTAAGTGTATATATA"	"TATATATATACTTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATAAGTGTATATATATAAGTATATATGTAAGTGTATATATA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TATATATATACTTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATAAGTGTATATATATAAGTATATATGTAAGTGTATATATA"	"TATATATATACTTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATAAGTGTATATATATAAGTATATATGTAAGTGTATATATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	130	"."	9	57	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTATATATATACTTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATATAAGTGTATATATATAAGTATATATAAGTGTATATATATAAGTATATATGTAAGTGTATATATAT"	"f4f80880-06e6-11e6-b21f-967789837276"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0692307692307692	"WGS"	FALSE
"15328"	"DOCK9"	23348	"mskcc.org"	"GRCh37"	"13"	99452134	99452135	"+"	"Intron"	"INS"	"-"	"-"	"ATTA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5958+404_5958+407dupTAAT"	""	""	"ENST00000376460"	""	111	"."	6	50	"."	0	"DOCK9,intron_variant,,ENST00000376460,NM_015296.2,NM_001130048.1;DOCK9,intron_variant,,ENST00000339416,;DOCK9,intron_variant,,ENST00000400228,;DOCK9,downstream_gene_variant,,ENST00000419908,;"	"ATTA"	"ENSG00000088387"	"ENST00000376460"	"Transcript"	"intron_variant"	"-/7549"	"-/6207"	"-/2068"	""	""	""	"1"	NA	-1	"DOCK9"	"HGNC"	14132	"protein_coding"	"YES"	"CCDS45062.1"	"ENSP00000365643"	"Q9BZ29"	""	"UPI000046FD7F"	"NM_015296.2,NM_001130048.1"	NA	NA	""	"53/56"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"1073e130-06ea-11e6-b21f-967789837276"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0540540540540541	"WGS"	FALSE
"15329"	"IRF9"	10379	"mskcc.org"	"GRCh37"	"14"	24630644	24630645	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-2+97_-2+98delTG"	""	""	"ENST00000396864"	""	95	"."	19	47	"."	0	"IRF9,intron_variant,,ENST00000396864,NM_006084.4;IRF9,intron_variant,,ENST00000557894,;IRF9,intron_variant,,ENST00000560275,;IRF9,intron_variant,,ENST00000559284,;RNF31,downstream_gene_variant,,ENST00000324103,NM_017999.4;RNF31,downstream_gene_variant,,ENST00000559275,;RNF31,downstream_gene_variant,,ENST00000382687,;RNF31,downstream_gene_variant,,ENST00000560787,;IRF9,upstream_gene_variant,,ENST00000324076,;RNF31,downstream_gene_variant,,ENST00000560754,;RNF31,downstream_gene_variant,,ENST00000559719,;RNA5SP383,downstream_gene_variant,,ENST00000362934,;RP11-468E2.4,intron_variant,,ENST00000558468,;IRF9,intron_variant,,ENST00000561415,;IRF9,intron_variant,,ENST00000561342,;IRF9,intron_variant,,ENST00000560852,;IRF9,intron_variant,,ENST00000560365,;IRF9,intron_variant,,ENST00000561412,;IRF9,intron_variant,,ENST00000561009,;RNF31,downstream_gene_variant,,ENST00000559071,;RNF31,downstream_gene_variant,,ENST00000491351,;IRF9,upstream_gene_variant,,ENST00000560542,;RNF31,downstream_gene_variant,,ENST00000559449,;RNF31,downstream_gene_variant,,ENST00000483895,;IRF9,upstream_gene_variant,,ENST00000560311,;RNF31,downstream_gene_variant,,ENST00000558452,;IRF9,upstream_gene_variant,,ENST00000559863,;IRF9,upstream_gene_variant,,ENST00000559229,;RNF31,downstream_gene_variant,,ENST00000559491,;RNF31,downstream_gene_variant,,ENST00000560631,;"	"-"	"ENSG00000213928"	"ENST00000396864"	"Transcript"	"intron_variant"	"-/1838"	"-/1182"	"-/393"	""	""	""	"1"	NA	1	"IRF9"	"HGNC"	6131	"protein_coding"	"YES"	"CCDS9615.1"	"ENSP00000380073"	"Q00978"	""	"UPI000012D8C2"	"NM_006084.4"	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTGA"	"58337454-06e5-11e6-9915-ce7a3b42fd6d"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.2	"WGS"	FALSE
"15330"	"MIPOL1"	145282	"mskcc.org"	"GRCh37"	"14"	38014905	38014905	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1263-1205delC"	""	""	"ENST00000327441"	""	102	"."	24	50	"."	0	"MIPOL1,3_prime_UTR_variant,,ENST00000556451,;MIPOL1,3_prime_UTR_variant,,ENST00000545536,;MIPOL1,intron_variant,,ENST00000327441,NM_138731.6,NM_001195297.1,NM_001195296.1;MIPOL1,intron_variant,,ENST00000539062,;MIPOL1,intron_variant,,ENST00000537471,;MIPOL1,intron_variant,,ENST00000396294,;MIPOL1,intron_variant,,ENST00000536774,;"	"-"	"ENSG00000151338"	"ENST00000327441"	"Transcript"	"intron_variant"	"-/7185"	"-/1329"	"-/442"	""	""	""	"1"	NA	1	"MIPOL1"	"HGNC"	21460	"protein_coding"	"YES"	"CCDS9664.1"	"ENSP00000333539"	"Q8TD10"	"G5EA54,G3V3K8,G3V2C4"	"UPI00000701B8"	"NM_138731.6,NM_001195297.1,NM_001195296.1"	NA	NA	""	"13/13"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCA"	"b2ee1476-06e5-11e6-9915-ce7a3b42fd6d"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.235294117647059	"WGS"	FALSE
"15331"	"SAMD4A"	23034	"mskcc.org"	"GRCh37"	"14"	55261268	55261269	"+"	"3'Flank"	"DEL"	"AA"	"AA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000392067"	""	59	"."	16	50	"."	0	"SAMD4A,downstream_gene_variant,,ENST00000251091,NM_001161576.2;SAMD4A,downstream_gene_variant,,ENST00000392067,NM_015589.5;SAMD4A,downstream_gene_variant,,ENST00000357634,;"	"-"	"ENSG00000020577"	"ENST00000392067"	"Transcript"	"downstream_gene_variant"	"-/6528"	"-/2157"	"-/718"	""	""	""	"1"	"1235"	1	"SAMD4A"	"HGNC"	23023	"protein_coding"	"YES"	"CCDS32084.2"	"ENSP00000375919"	"Q9UPU9"	"J3QSW1"	"UPI0000229786"	"NM_015589.5"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAA"	"25cb70b0-06e6-11e6-9915-ce7a3b42fd6d"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.271186440677966	"WGS"	FALSE
"15332"	"FBXO34"	55030	"mskcc.org"	"GRCh37"	"14"	55804766	55804767	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTTTTTTTT"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10-12328_-10-12314dupTTTTTTTTTTTTTTT"	""	""	"ENST00000313833"	""	80	"."	7	47	"."	0	"FBXO34,intron_variant,,ENST00000313833,NM_017943.3;FBXO34,intron_variant,,ENST00000440021,NM_152231.1;RP11-665C16.5,intron_variant,,ENST00000555514,;FBXO34,intron_variant,,ENST00000555087,;FBXO34,intron_variant,,ENST00000554940,;FBXO34,intron_variant,,ENST00000557647,;"	"TTTTTTTTTTTTTTT"	"ENSG00000178974"	"ENST00000313833"	"Transcript"	"intron_variant"	"-/3464"	"-/2136"	"-/711"	""	""	""	"1"	NA	1	"FBXO34"	"HGNC"	20201	"protein_coding"	"YES"	"CCDS32086.1"	"ENSP00000313159"	"Q9NWN3"	"G3V2U9"	"UPI00001FD5AD"	"NM_017943.3"	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"19"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"abb89f84-06e8-11e6-9915-ce7a3b42fd6d"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0875	"WGS"	FALSE
"15333"	"PELI2"	57161	"mskcc.org"	"GRCh37"	"14"	56627293	56627297	"+"	"Intron"	"DEL"	"AAGAT"	"AAGAT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AAGAT"	"AAGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.78-17756_78-17752delTAAGA"	""	""	"ENST00000267460"	""	104	"."	12	42	"."	0	"PELI2,intron_variant,,ENST00000267460,NM_021255.2;PELI2,intron_variant,,ENST00000559044,;PELI2,intron_variant,,ENST00000561019,;"	"-"	"ENSG00000139946"	"ENST00000267460"	"Transcript"	"intron_variant"	"-/5909"	"-/1263"	"-/420"	""	""	""	"1"	NA	1	"PELI2"	"HGNC"	8828	"protein_coding"	"YES"	"CCDS9726.1"	"ENSP00000267460"	"Q9HAT8"	"Q659D8,H0YNF4,H0YK56"	"UPI0000062262"	"NM_021255.2"	NA	NA	""	"1/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAGATA"	"2f293c1e-06e6-11e6-9915-ce7a3b42fd6d"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.115384615384615	"WGS"	FALSE
"15334"	"TMED10"	10972	"mskcc.org"	"GRCh37"	"14"	75641427	75641429	"+"	"Intron"	"DEL"	"TTA"	"TTA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTA"	"TTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.225+1629_225+1631delTAA"	""	""	"ENST00000303575"	""	114	"."	17	48	"."	0	"TMED10,intron_variant,,ENST00000303575,NM_006827.5;TMED10,intron_variant,,ENST00000555873,;TMED10,intron_variant,,ENST00000555085,;"	"-"	"ENSG00000170348"	"ENST00000303575"	"Transcript"	"intron_variant"	"-/4127"	"-/660"	"-/219"	""	""	""	"1"	NA	-1	"TMED10"	"HGNC"	16998	"protein_coding"	"YES"	"CCDS9840.1"	"ENSP00000303145"	"P49755"	"B4DZH3"	"UPI0000137068"	"NM_006827.5"	NA	NA	""	"1/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTAT"	"aeb7e372-06e6-11e6-9915-ce7a3b42fd6d"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.149122807017544	"WGS"	FALSE
"15335"	"CIPC"	85457	"mskcc.org"	"GRCh37"	"14"	77561163	77561182	"+"	"5'Flank"	"DEL"	"ACATTCGCAAGTCCCTAAAT"	"ACATTCGCAAGTCCCTAAAT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"ACATTCGCAAGTCCCTAAAT"	"ACATTCGCAAGTCCCTAAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000361786"	""	87	"."	14	66	"."	0	"CIPC,upstream_gene_variant,,ENST00000361786,NM_033426.2;CIPC,upstream_gene_variant,,ENST00000557115,;CIPC,upstream_gene_variant,,ENST00000555611,;CIPC,upstream_gene_variant,,ENST00000554447,;CIPC,upstream_gene_variant,,ENST00000554658,;CIPC,upstream_gene_variant,,ENST00000555200,;CIPC,upstream_gene_variant,,ENST00000555437,;RP11-463C8.4,upstream_gene_variant,,ENST00000557752,;CIPC,upstream_gene_variant,,ENST00000556863,;"	"-"	"ENSG00000198894"	"ENST00000361786"	"Transcript"	"upstream_gene_variant"	"-/4486"	"-/1200"	"-/399"	""	""	""	"1"	"3258"	1	"CIPC"	"HGNC"	20365	"protein_coding"	"YES"	"CCDS9855.1"	"ENSP00000355319"	"Q9C0C6"	"G3V5Y7,G3V5J4,G3V405,G3V3Y7"	"UPI0000073FD0"	"NM_033426.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAACATTCGCAAGTCCCTAAATG"	"be8425ea-06e6-11e6-9915-ce7a3b42fd6d"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.160919540229885	"WGS"	FALSE
"15336"	"RPL15P2"	0	"mskcc.org"	"GRCh37"	"14"	95271592	95271608	"+"	"5'Flank"	"DEL"	"TCTCTGTGGTTTTTTTT"	"TCTCTGTGGTTTTTTTT"	"CTTTTTCTCTGTG"	"novel"	NA	"JHRCC396"	"W0006118F"	"TCTCTGTGGTTTTTTTT"	"TCTCTGTGGTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000490252"	""	92	"."	6	53	"."	0	"RPL15P2,upstream_gene_variant,,ENST00000490252,;"	"CTTTTTCTCTGTG"	"ENSG00000240914"	"ENST00000490252"	"Transcript"	"upstream_gene_variant"	"-/615"	""	""	""	""	""	"1"	"3792"	-1	"RPL15P2"	"HGNC"	19803	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCTCTGTGGTTTTTTTTT"	"b09ae51c-06e7-11e6-9915-ce7a3b42fd6d"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0652173913043478	"WGS"	FALSE
"15337"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	97496534	97496534	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"."	22	53	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTT"	"4516c8e2-06e7-11e6-9915-ce7a3b42fd6d"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.278481012658228	"WGS"	FALSE
"15338"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	20320825	20320825	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	149	"."	5	87	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGA"	"227583a2-06e5-11e6-9ce1-d92b03d06990"	"97"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0335570469798658	"WGS"	FALSE
"15339"	"ENSR00001652344"	0	"mskcc.org"	"GRCh37"	"15"	22553396	22553462	"+"	"IGR"	"DEL"	"TGTGTTTCCTTTCTGTGTAAGGCTGGTCCCTCACCGCTGGTTTGATCACAGCCCTCTGTTTCCTCAG"	"TGTGTTTCCTTTCTGTGTAAGGCTGGTCCCTCACCGCTGGTTTGATCACAGCCCTCTGTTTCCTCAG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TGTGTTTCCTTTCTGTGTAAGGCTGGTCCCTCACCGCTGGTTTGATCACAGCCCTCTGTTTCCTCAG"	"TGTGTTTCCTTTCTGTGTAAGGCTGGTCCCTCACCGCTGGTTTGATCACAGCCCTCTGTTTCCTCAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001652344"	""	210	"."	22	103	"."	0	""	"-"	""	"ENSR00001652344"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTGTGTTTCCTTTCTGTGTAAGGCTGGTCCCTCACCGCTGGTTTGATCACAGCCCTCTGTTTCCTCAGG"	"79e3bff0-06e5-11e6-9ce1-d92b03d06990"	"1254"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.104761904761905	"WGS"	FALSE
"15340"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	27203658	27203663	"+"	"IGR"	"DEL"	"TTTTTG"	"TTTTTG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTTTTG"	"TTTTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"."	7	37	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTTTGA"	"a7bec4ec-06e5-11e6-9ce1-d92b03d06990"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0769230769230769	"WGS"	FALSE
"15341"	"HNRNPLP2"	0	"mskcc.org"	"GRCh37"	"15"	34781379	34781382	"+"	"RNA"	"DEL"	"AGAT"	"AGAT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AGAT"	"AGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1391_1394delATCT"	""	""	"ENST00000568980"	"1/1"	72	"."	9	47	"."	0	"GOLGA8A,intron_variant,,ENST00000543376,;HNRNPLP2,non_coding_transcript_exon_variant,,ENST00000568980,;"	"-"	"ENSG00000259917"	"ENST00000568980"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1391-1394/1570"	""	""	""	""	""	"1"	NA	-1	"HNRNPLP2"	"HGNC"	48747	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	"1/1"	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAGATG"	"e862d4fc-06e5-11e6-9ce1-d92b03d06990"	"504"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.125	"WGS"	FALSE
"15342"	"INO80"	54617	"mskcc.org"	"GRCh37"	"15"	41291219	41291253	"+"	"Intron"	"DEL"	"AATAAGGGCTCAGTTTGGTGCTTTAGATGGCATTA"	"AATAAGGGCTCAGTTTGGTGCTTTAGATGGCATTA"	"CACACAAATAAGGGCTCAGTTTGGTGCTTT"	"novel"	NA	"JHRCC396"	"W0006118F"	"AATAAGGGCTCAGTTTGGTGCTTTAGATGGCATTA"	"AATAAGGGCTCAGTTTGGTGCTTTAGATGGCATTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3498-1454_3498-1420delTAATGCCATCTAAAGCACCAAACTGAGCCCTTATTinsAAAGCACCAAACTGAGCCCTTATTTGTGTG"	""	""	"ENST00000361937"	""	105	"."	6	42	"."	0	"INO80,intron_variant,,ENST00000361937,;INO80,intron_variant,,ENST00000401393,NM_017553.1;RP11-540O11.6,upstream_gene_variant,,ENST00000561388,;INO80,intron_variant,,ENST00000561244,;INO80,intron_variant,,ENST00000558357,;INO80,intron_variant,,ENST00000557849,;INO80,upstream_gene_variant,,ENST00000560799,;"	"CACACAAATAAGGGCTCAGTTTGGTGCTTT"	"ENSG00000128908"	"ENST00000361937"	"Transcript"	"intron_variant"	"-/6439"	"-/4671"	"-/1556"	""	""	""	"1"	NA	-1	"INO80"	"HGNC"	26956	"protein_coding"	"YES"	"CCDS10071.1"	"ENSP00000355205"	"Q9ULG1"	"Q9NUK2"	"UPI00001B6AFC"	""	NA	NA	""	"28/35"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAAATAAGGGCTCAGTTTGGTGCTTTAGATGGCATTAA"	"ff70c328-06e7-11e6-9ce1-d92b03d06990"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0571428571428571	"WGS"	FALSE
"15343"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	45637475	45637476	"+"	"IGR"	"INS"	"-"	"-"	"CTCTCTCTCTCTCTCG"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"."	5	44	"."	0	""	"CTCTCTCTCTCTCTCG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"01b3436c-06e9-11e6-9ce1-d92b03d06990"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0649350649350649	"WGS"	FALSE
"15344"	"FAM227B"	196951	"mskcc.org"	"GRCh37"	"15"	49857890	49857894	"+"	"Intron"	"DEL"	"TTACC"	"TTACC"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTACC"	"TTACC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.747+2548_747+2552delGGTAA"	""	""	"ENST00000299338"	""	78	"."	15	50	"."	0	"FAM227B,intron_variant,,ENST00000299338,NM_152647.2;FAM227B,intron_variant,,ENST00000561064,;"	"-"	"ENSG00000166262"	"ENST00000299338"	"Transcript"	"intron_variant"	"-/2008"	"-/1527"	"-/508"	""	""	""	"1"	NA	-1	"FAM227B"	"HGNC"	26543	"protein_coding"	"YES"	"CCDS32237.1"	"ENSP00000299338"	"Q96M60"	"H0YLX5"	"UPI0000D6133A"	"NM_152647.2"	NA	NA	""	"9/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTACCT"	"5331cb12-06e6-11e6-9ce1-d92b03d06990"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.192307692307692	"WGS"	FALSE
"15345"	"TIPIN"	54962	"mskcc.org"	"GRCh37"	"15"	66651688	66651688	"+"	"5'Flank"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000261881"	""	106	"."	15	47	"."	0	"TIPIN,intron_variant,,ENST00000562124,;TIPIN,intron_variant,,ENST00000570251,;TIPIN,intron_variant,,ENST00000568216,;TIPIN,upstream_gene_variant,,ENST00000261881,NM_017858.2;TIPIN,upstream_gene_variant,,ENST00000367709,;TIPIN,upstream_gene_variant,,ENST00000566524,;"	"-"	"ENSG00000075131"	"ENST00000261881"	"Transcript"	"upstream_gene_variant"	"-/1744"	"-/906"	"-/301"	""	""	""	"1"	"2634"	-1	"TIPIN"	"HGNC"	30750	"protein_coding"	"YES"	"CCDS10215.1"	"ENSP00000261881"	"Q9BVW5"	"H3BVG9,H3BU04,G8JLE5"	"UPI000013D21A"	"NM_017858.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTT"	"d5bc5e26-06e6-11e6-9ce1-d92b03d06990"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.141509433962264	"WGS"	FALSE
"15346"	"CRTC3"	64784	"mskcc.org"	"GRCh37"	"15"	91146790	91146791	"+"	"Intron"	"DEL"	"TT"	"TT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.414-826_414-825delTT"	""	""	"ENST00000268184"	""	112	"."	21	53	"."	0	"CRTC3,intron_variant,,ENST00000420329,NM_022769.4,NM_001042574.2;CRTC3,intron_variant,,ENST00000268184,;CRTC3,intron_variant,,ENST00000558005,;CRTC3,downstream_gene_variant,,ENST00000560098,;CTD-3065B20.3,downstream_gene_variant,,ENST00000559839,;CRTC3,intron_variant,,ENST00000558619,;CRTC3,intron_variant,,ENST00000558496,;CRTC3,intron_variant,,ENST00000561255,;CRTC3,downstream_gene_variant,,ENST00000561218,;CRTC3,downstream_gene_variant,,ENST00000561290,;CRTC3,intron_variant,,ENST00000561119,;"	"-"	"ENSG00000140577"	"ENST00000268184"	"Transcript"	"intron_variant"	"-/2537"	"-/1860"	"-/619"	""	""	""	"1"	NA	1	"CRTC3"	"HGNC"	26148	"protein_coding"	"YES"	"CCDS32331.1"	"ENSP00000268184"	"Q6UUV7"	""	"UPI00001FEB98"	""	NA	NA	""	"4/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTT"	"83e6ad44-06e7-11e6-9ce1-d92b03d06990"	"1220"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.1875	"WGS"	TRUE
"15347"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	94687670	94687671	"+"	"IGR"	"INS"	"-"	"-"	"TGTTCCCAATGTTAAAGGTGGGTCCTAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"."	20	69	"."	0	""	"TGTTCCCAATGTTAAAGGTGGGTCCTAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"37df7932-06ea-11e6-9ce1-d92b03d06990"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.186915887850467	"WGS"	FALSE
"15348"	"ZNF598"	90850	"mskcc.org"	"GRCh37"	"16"	2060881	2060882	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000431526"	""	82	"."	13	53	"."	0	"NPW,intron_variant,,ENST00000567649,;ZNF598,upstream_gene_variant,,ENST00000563630,NM_178167.3;ZNF598,upstream_gene_variant,,ENST00000431526,;ZNF598,upstream_gene_variant,,ENST00000562103,;RN7SL219P,upstream_gene_variant,,ENST00000582872,;ZNF598,upstream_gene_variant,,ENST00000565396,;ZNF598,upstream_gene_variant,,ENST00000562988,;ZNF598,upstream_gene_variant,,ENST00000564824,;"	"A"	"ENSG00000167962"	"ENST00000431526"	"Transcript"	"upstream_gene_variant"	"-/3195"	"-/2715"	"-/904"	""	""	""	"1"	"1118"	-1	"ZNF598"	"HGNC"	28079	"protein_coding"	"YES"	""	"ENSP00000411409"	"Q86UK7"	"H3BQQ2"	"UPI0001AE67A3"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"c799ec36-073c-11e6-8ed4-eb4fd29102b7"	"773"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.158536585365854	"WGS"	FALSE
"15349"	"CTA-481E9.3"	0	"mskcc.org"	"GRCh37"	"16"	18152787	18152814	"+"	"Intron"	"DEL"	"GGTTTATGTGTCTGTTAATAGGTTGCAT"	"GGTTTATGTGTCTGTTAATAGGTTGCAT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"GGTTTATGTGTCTGTTAATAGGTTGCAT"	"GGTTTATGTGTCTGTTAATAGGTTGCAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.49-55509_49-55482delATGCAACCTATTAACAGACACATAAACC"	""	""	"ENST00000563866"	""	76	"."	16	42	"."	0	"CTA-481E9.3,intron_variant,,ENST00000563866,;CTA-481E9.4,intron_variant,,ENST00000567304,;"	"-"	"ENSG00000260242"	"ENST00000563866"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/691"	""	""	""	""	""	"1"	NA	-1	"CTA-481E9.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGGTTTATGTGTCTGTTAATAGGTTGCATG"	"b0335b56-06e5-11e6-8ed4-eb4fd29102b7"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.210526315789474	"WGS"	FALSE
"15350"	"RABEP2"	79874	"mskcc.org"	"GRCh37"	"16"	28940621	28940622	"+"	"5'Flank"	"DEL"	"TG"	"TG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000358201"	""	90	"."	6	32	"."	0	"RABEP2,intron_variant,,ENST00000566762,;RABEP2,upstream_gene_variant,,ENST00000358201,NM_024816.2;RABEP2,upstream_gene_variant,,ENST00000357573,;CD19,upstream_gene_variant,,ENST00000538922,NM_001178098.1,NM_001770.5;CD19,upstream_gene_variant,,ENST00000324662,;CD19,upstream_gene_variant,,ENST00000567541,;RABEP2,upstream_gene_variant,,ENST00000544477,;RABEP2,upstream_gene_variant,,ENST00000568703,;RABEP2,upstream_gene_variant,,ENST00000567483,;RABEP2,upstream_gene_variant,,ENST00000561803,;RABEP2,upstream_gene_variant,,ENST00000562475,;RABEP2,upstream_gene_variant,,ENST00000564473,;CD19,upstream_gene_variant,,ENST00000565089,;RABEP2,upstream_gene_variant,,ENST00000562590,;CD19,upstream_gene_variant,,ENST00000566890,;RABEP2,upstream_gene_variant,,ENST00000563577,;RABEP2,upstream_gene_variant,,ENST00000570030,;RABEP2,upstream_gene_variant,,ENST00000564579,;"	"-"	"ENSG00000177548"	"ENST00000358201"	"Transcript"	"upstream_gene_variant"	"-/2821"	"-/1710"	"-/569"	""	""	""	"1"	"3548"	-1	"RABEP2"	"HGNC"	24817	"protein_coding"	"YES"	"CCDS42140.1"	"ENSP00000350934"	"Q9H5N1"	"H3BU67,H3BNR8,H3BNR2"	"UPI0000367822"	"NM_024816.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGA"	"083bd4fe-06e6-11e6-8ed4-eb4fd29102b7"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0666666666666667	"WGS"	FALSE
"15351"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	46409833	46409835	"+"	"IGR"	"DEL"	"GAT"	"GAT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"GAT"	"GAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	139	"."	28	52	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACGATG"	"b2ef2e04-072d-11e6-8ed4-eb4fd29102b7"	"1640"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.201438848920863	"WGS"	FALSE
"15352"	"PAPD5"	64282	"mskcc.org"	"GRCh37"	"16"	50207191	50207192	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.593+19024_593+19025dupTA"	""	""	"ENST00000436909"	""	97	"."	27	56	"."	0	"PAPD5,intron_variant,,ENST00000357464,;PAPD5,intron_variant,,ENST00000436909,NM_001040285.2,NM_001040284.2;PAPD5,intron_variant,,ENST00000561678,;PAPD5,intron_variant,,ENST00000562717,;"	"TA"	"ENSG00000121274"	"ENST00000436909"	"Transcript"	"intron_variant"	"-/4635"	"-/2097"	"-/698"	""	""	""	"1"	NA	1	"PAPD5"	"HGNC"	30758	"protein_coding"	"YES"	"CCDS54006.1"	"ENSP00000396995"	"Q8NDF8"	"Q5EBM7,G4U4J3,B7ZLC1,B4DRJ7"	"UPI00017A7DC6"	"NM_001040285.2,NM_001040284.2"	NA	NA	""	"2/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"60e8e902-0745-11e6-8ed4-eb4fd29102b7"	"1620"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.278350515463918	"WGS"	FALSE
"15353"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	54618715	54618716	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	55	"."	5	46	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"7986da46-0745-11e6-8ed4-eb4fd29102b7"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0909090909090909	"WGS"	FALSE
"15354"	"SLC12A3"	6559	"mskcc.org"	"GRCh37"	"16"	56944018	56944020	"+"	"Intron"	"DEL"	"TAA"	"TAA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TAA"	"TAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2952-3154_2952-3152delAAT"	""	""	"ENST00000438926"	""	97	"."	12	39	"."	0	"SLC12A3,intron_variant,,ENST00000438926,NM_001126108.1,NM_000339.2,NM_001126107.1;SLC12A3,intron_variant,,ENST00000262502,;SLC12A3,intron_variant,,ENST00000563236,;SLC12A3,intron_variant,,ENST00000566786,;SLC12A3,intron_variant,,ENST00000563352,;RPS24P17,downstream_gene_variant,,ENST00000479895,;"	"-"	"ENSG00000070915"	"ENST00000438926"	"Transcript"	"intron_variant"	"-/5567"	"-/3093"	"-/1030"	""	""	""	"1"	NA	1	"SLC12A3"	"HGNC"	10912	"protein_coding"	"YES"	"CCDS10770.1"	"ENSP00000402152"	"P55017"	""	"UPI00001FF243"	"NM_001126108.1,NM_000339.2,NM_001126107.1"	NA	NA	""	"25/25"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGTAAT"	"17c6a7b8-0732-11e6-8ed4-eb4fd29102b7"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.123711340206186	"WGS"	FALSE
"15355"	"GINS3"	64785	"mskcc.org"	"GRCh37"	"16"	58432656	58432656	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.303+3535delG"	""	""	"ENST00000426538"	""	101	"."	22	51	"."	0	"GINS3,intron_variant,,ENST00000318129,NM_022770.3;GINS3,intron_variant,,ENST00000328514,NM_001126130.1;GINS3,intron_variant,,ENST00000426538,NM_001126129.1;GINS3,upstream_gene_variant,,ENST00000567143,;"	"-"	"ENSG00000181938"	"ENST00000426538"	"Transcript"	"intron_variant"	"-/1728"	"-/768"	"-/255"	""	""	""	"1"	NA	1	"GINS3"	"HGNC"	25851	"protein_coding"	"YES"	"CCDS45498.1"	"ENSP00000401018"	"Q9BRX5"	""	"UPI00001FF2F1"	"NM_001126129.1"	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGG"	"1f47a47e-0732-11e6-8ed4-eb4fd29102b7"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.217821782178218	"WGS"	FALSE
"15356"	"TANGO6"	79613	"mskcc.org"	"GRCh37"	"16"	69114160	69114160	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3109-3228delG"	""	""	"ENST00000261778"	""	114	"."	24	60	"."	0	"TANGO6,intron_variant,,ENST00000261778,NM_024562.1;TANGO6,intron_variant,,ENST00000561931,;TANGO6,intron_variant,,ENST00000562000,;TANGO6,intron_variant,,ENST00000568361,;"	"-"	"ENSG00000103047"	"ENST00000261778"	"Transcript"	"intron_variant"	"-/4816"	"-/3285"	"-/1094"	""	""	""	"1"	NA	1	"TANGO6"	"HGNC"	25749	"protein_coding"	"YES"	"CCDS45516.1"	"ENSP00000261778"	"Q9C0B7"	"B3KTB6"	"UPI00001FF4A8"	"NM_024562.1"	NA	NA	""	"17/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGC"	"43ba4212-0732-11e6-8ed4-eb4fd29102b7"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.210526315789474	"WGS"	FALSE
"15357"	"SNTB2"	6645	"mskcc.org"	"GRCh37"	"16"	69326448	69326448	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1346-7044delA"	""	""	"ENST00000336278"	""	74	"."	18	30	"."	0	"SNTB2,intron_variant,,ENST00000336278,NM_006750.3;SNTB2,intron_variant,,ENST00000467311,;"	"-"	"ENSG00000168807"	"ENST00000336278"	"Transcript"	"intron_variant"	"-/9789"	"-/1623"	"-/540"	""	""	""	"1"	NA	1	"SNTB2"	"HGNC"	11169	"protein_coding"	"YES"	"CCDS10873.1"	"ENSP00000338191"	"Q13425"	""	"UPI0000135B21"	"NM_006750.3"	NA	NA	""	"5/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAA"	"44180410-0732-11e6-8ed4-eb4fd29102b7"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.243243243243243	"WGS"	FALSE
"15358"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	84716012	84716012	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"."	8	42	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"8722cdee-0732-11e6-8ed4-eb4fd29102b7"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0909090909090909	"WGS"	FALSE
"15359"	"USP10"	9100	"mskcc.org"	"GRCh37"	"16"	84755323	84755323	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.22-11718delG"	""	""	"ENST00000219473"	""	76	"."	14	52	"."	0	"USP10,intron_variant,,ENST00000219473,NM_005153.2;USP10,intron_variant,,ENST00000570191,NM_001272075.1;USP10,intron_variant,,ENST00000569038,;USP10,intron_variant,,ENST00000563892,;USP10,intron_variant,,ENST00000562283,;USP10,intron_variant,,ENST00000570053,;USP10,intron_variant,,ENST00000562743,;USP10,intron_variant,,ENST00000569511,;USP10,intron_variant,,ENST00000562092,;USP10,intron_variant,,ENST00000540269,;USP10,intron_variant,,ENST00000563048,;USP10,intron_variant,,ENST00000563386,;"	"-"	"ENSG00000103194"	"ENST00000219473"	"Transcript"	"intron_variant"	"-/3009"	"-/2397"	"-/798"	""	""	""	"1"	NA	1	"USP10"	"HGNC"	12608	"protein_coding"	"YES"	"CCDS45537.1"	"ENSP00000219473"	"Q14694"	"Q6P2I0"	"UPI00001379EB"	"NM_005153.2"	NA	NA	""	"1/13"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGA"	"87405878-0732-11e6-8ed4-eb4fd29102b7"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.184210526315789	"WGS"	FALSE
"15360"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	89097096	89097149	"+"	"IGR"	"DEL"	"GACTTTATCAATACAGGAGTAAAGGGGACTTTATATTAATTCATGAGTAAAGCA"	"GACTTTATCAATACAGGAGTAAAGGGGACTTTATATTAATTCATGAGTAAAGCA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"GACTTTATCAATACAGGAGTAAAGGGGACTTTATATTAATTCATGAGTAAAGCA"	"GACTTTATCAATACAGGAGTAAAGGGGACTTTATATTAATTCATGAGTAAAGCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"."	6	30	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGACTTTATCAATACAGGAGTAAAGGGGACTTTATATTAATTCATGAGTAAAGCAG"	"99273d9a-0732-11e6-8ed4-eb4fd29102b7"	"318"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0845070422535211	"WGS"	FALSE
"15361"	"NXN"	64359	"mskcc.org"	"GRCh37"	"17"	753231	753231	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.361-23913delC"	""	""	"ENST00000336868"	""	83	"."	20	45	"."	0	"NXN,intron_variant,,ENST00000336868,NM_022463.4;NXN,intron_variant,,ENST00000575801,NM_001205319.1;NXN,intron_variant,,ENST00000537628,;NXN,intron_variant,,ENST00000577098,;NXN,intron_variant,,ENST00000571338,;NXN,intron_variant,,ENST00000575455,;NXN,intron_variant,,ENST00000575171,;"	"-"	"ENSG00000167693"	"ENST00000336868"	"Transcript"	"intron_variant"	"-/3036"	"-/1308"	"-/435"	""	""	""	"1"	NA	-1	"NXN"	"HGNC"	18008	"protein_coding"	"YES"	"CCDS10998.1"	"ENSP00000337443"	"Q6DKJ4"	""	"UPI00001B31EB"	"NM_022463.4"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGG"	"22d99c48-06e5-11e6-a843-ee14cc58f2e0"	"1188"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.240963855421687	"WGS"	FALSE
"15362"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	7271358	7271359	"+"	"IGR"	"INS"	"-"	"-"	"AAAAAAAAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"."	13	51	"."	0	""	"AAAAAAAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c4248f74-06e8-11e6-a843-ee14cc58f2e0"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.13	"WGS"	FALSE
"15363"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	8597916	8597933	"+"	"IGR"	"DEL"	"TTTTTTTTTTTTTTTTTT"	"TTTTTTTTTTTTTTTTTT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTTTTTTTTTTTTTTTTT"	"TTTTTTTTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"."	8	46	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTTTTTTTTTTTTTTTTT"	"765fec82-06e5-11e6-a843-ee14cc58f2e0"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0963855421686747	"WGS"	FALSE
"15364"	"CTC-297N7.5"	101101775	"mskcc.org"	"GRCh37"	"17"	10683424	10683427	"+"	"Intron"	"DEL"	"TTCT"	"TTCT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTCT"	"TTCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.106-22286_106-22283delCTTT"	""	""	"ENST00000580899"	""	90	"."	13	54	"."	0	"CTC-297N7.5,intron_variant,,ENST00000580899,;"	"-"	"ENSG00000263400"	"ENST00000580899"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/561"	""	""	""	""	""	"1"	NA	1	"CTC-297N7.5"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTTCTT"	"8a67ab8e-06e5-11e6-a843-ee14cc58f2e0"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.144444444444444	"WGS"	FALSE
"15365"	"AP2B1"	163	"mskcc.org"	"GRCh37"	"17"	34021446	34021447	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2454+11609dupT"	""	""	"ENST00000312678"	""	82	"."	8	25	"."	0	"AP2B1,intron_variant,,ENST00000262325,NM_001282.2;AP2B1,intron_variant,,ENST00000312678,NM_001030006.1;AP2B1,intron_variant,,ENST00000537622,;AP2B1,intron_variant,,ENST00000538556,;AP2B1,intron_variant,,ENST00000592545,;AP2B1,intron_variant,,ENST00000589344,;AP2B1,intron_variant,,ENST00000545922,;AP2B1,intron_variant,,ENST00000592191,;"	"T"	"ENSG00000006125"	"ENST00000312678"	"Transcript"	"intron_variant"	"-/3662"	"-/2856"	"-/951"	""	""	""	"1"	NA	1	"AP2B1"	"HGNC"	563	"protein_coding"	"YES"	"CCDS32621.1"	"ENSP00000314414"	"P63010"	"Q96EL6,K7ERB2,K7EN71,K7EJX1"	"UPI000006DD97"	"NM_001030006.1"	NA	NA	""	"18/21"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"6c4d2a8a-06e9-11e6-a843-ee14cc58f2e0"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0975609756097561	"WGS"	FALSE
"15366"	"ADAM11"	4185	"mskcc.org"	"GRCh37"	"17"	42852407	42852407	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1221-170delG"	""	""	"ENST00000200557"	""	81	"."	14	50	"."	0	"ADAM11,intron_variant,,ENST00000200557,NM_002390.4;ADAM11,intron_variant,,ENST00000535346,;ADAM11,intron_variant,,ENST00000355638,;ADAM11,intron_variant,,ENST00000587773,;ADAM11,upstream_gene_variant,,ENST00000588363,;"	"-"	"ENSG00000073670"	"ENST00000200557"	"Transcript"	"intron_variant"	"-/4571"	"-/2310"	"-/769"	""	""	""	"1"	NA	1	"ADAM11"	"HGNC"	189	"protein_coding"	"YES"	"CCDS11486.1"	"ENSP00000200557"	"O75078"	""	"UPI000013C629"	"NM_002390.4"	NA	NA	""	"14/26"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGG"	"cca3d0e4-06e6-11e6-a843-ee14cc58f2e0"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.172839506172839	"WGS"	FALSE
"15367"	"MYOM1"	8736	"mskcc.org"	"GRCh37"	"18"	3072348	3072349	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTT"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4709-470_4709-462dupAAAAAAAAA"	""	""	"ENST00000356443"	""	97	"."	5	50	"."	0	"MYOM1,intron_variant,,ENST00000356443,NM_019856.1,NM_003803.3;MYOM1,intron_variant,,ENST00000400569,;MYOM1,intron_variant,,ENST00000261606,;MYOM1,intron_variant,,ENST00000581804,;MYOM1,downstream_gene_variant,,ENST00000581075,;"	"TTTTTTTTT"	"ENSG00000101605"	"ENST00000356443"	"Transcript"	"intron_variant"	"-/5847"	"-/5058"	"-/1685"	""	""	""	"1"	NA	-1	"MYOM1"	"HGNC"	7613	"protein_coding"	"YES"	"CCDS45824.1"	"ENSP00000348821"	"P52179"	""	"UPI000022A657"	"NM_019856.1,NM_003803.3"	NA	NA	""	"36/37"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"d0e0b716-06e7-11e6-aa06-d8e65716bf98"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0515463917525773	"WGS"	FALSE
"15368"	"L3MBTL4"	91133	"mskcc.org"	"GRCh37"	"18"	6198704	6198704	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.981+14444delT"	""	""	"ENST00000284898"	""	95	"."	5	57	"."	0	"L3MBTL4,intron_variant,,ENST00000400104,;L3MBTL4,intron_variant,,ENST00000284898,NM_173464.3;L3MBTL4,intron_variant,,ENST00000317931,;L3MBTL4,intron_variant,,ENST00000400105,;L3MBTL4,intron_variant,,ENST00000535782,;"	"-"	"ENSG00000154655"	"ENST00000284898"	"Transcript"	"intron_variant"	"-/3586"	"-/1872"	"-/623"	""	""	""	"1"	NA	-1	"L3MBTL4"	"HGNC"	26677	"protein_coding"	"YES"	"CCDS11839.2"	"ENSP00000284898"	"Q8NA19"	"J3QLK8,J3KS41,J3KRN7"	"UPI000013DDC0"	"NM_173464.3"	NA	NA	""	"12/19"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"6d227f04-06e5-11e6-aa06-d8e65716bf98"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0526315789473684	"WGS"	FALSE
"15369"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	10647427	10647428	"+"	"IGR"	"INS"	"-"	"-"	"GC"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"."	31	70	"."	0	""	"GC"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"032be36c-06e8-11e6-aa06-d8e65716bf98"	"1709"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.326315789473684	"WGS"	FALSE
"15370"	"MPPE1"	65258	"mskcc.org"	"GRCh37"	"18"	11909527	11909529	"+"	"5'Flank"	"DEL"	"TTA"	"TTA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTA"	"TTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000588072"	""	83	"."	20	52	"."	0	"MPPE1,upstream_gene_variant,,ENST00000588072,NM_023075.5;MPPE1,upstream_gene_variant,,ENST00000317235,;MPPE1,upstream_gene_variant,,ENST00000344987,;MPPE1,upstream_gene_variant,,ENST00000399978,;MPPE1,upstream_gene_variant,,ENST00000309976,NM_001242904.1;MPPE1,upstream_gene_variant,,ENST00000588191,;MPPE1,upstream_gene_variant,,ENST00000588186,;MPPE1,upstream_gene_variant,,ENST00000592977,;MPPE1,upstream_gene_variant,,ENST00000589267,;MPPE1,upstream_gene_variant,,ENST00000590501,;MPPE1,upstream_gene_variant,,ENST00000588103,;MPPE1,upstream_gene_variant,,ENST00000586844,;RP11-820I16.1,downstream_gene_variant,,ENST00000590055,;RP11-820I16.4,downstream_gene_variant,,ENST00000609611,;MPPE1,upstream_gene_variant,,ENST00000589829,;MPPE1,upstream_gene_variant,,ENST00000591667,;MPPE1,upstream_gene_variant,,ENST00000590302,;MPPE1,upstream_gene_variant,,ENST00000586204,;MPPE1,upstream_gene_variant,,ENST00000587381,;MPPE1,upstream_gene_variant,,ENST00000496196,;MPPE1,upstream_gene_variant,,ENST00000317251,;MPPE1,upstream_gene_variant,,ENST00000589731,;MPPE1,upstream_gene_variant,,ENST00000588939,;MPPE1,upstream_gene_variant,,ENST00000593001,;"	"-"	"ENSG00000154889"	"ENST00000588072"	"Transcript"	"upstream_gene_variant"	"-/4236"	"-/1191"	"-/396"	""	""	""	"1"	"305"	-1	"MPPE1"	"HGNC"	15988	"protein_coding"	"YES"	"CCDS11853.1"	"ENSP00000465894"	"Q53F39"	"K7ESB8,K7ES91,K7ERI3,K7ER13,K7EQV4,K7EQ74,K7EQ70,K7EJU0"	"UPI000013DDD8"	"NM_023075.5"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTTAT"	"94d268e8-06e5-11e6-aa06-d8e65716bf98"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.240963855421687	"WGS"	FALSE
"15371"	"SETBP1"	26040	"mskcc.org"	"GRCh37"	"18"	42378967	42378970	"+"	"Intron"	"DEL"	"AATC"	"AATC"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AATC"	"AATC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.487-70221_487-70218delCAAT"	""	""	"ENST00000282030"	""	83	"."	16	52	"."	0	"SETBP1,intron_variant,,ENST00000282030,NM_015559.2;SETBP1,intron_variant,,ENST00000426838,NM_001130110.1;"	"-"	"ENSG00000152217"	"ENST00000282030"	"Transcript"	"intron_variant"	"-/9899"	"-/4791"	"-/1596"	""	""	""	"1"	NA	1	"SETBP1"	"HGNC"	15573	"protein_coding"	"YES"	"CCDS11923.2"	"ENSP00000282030"	"Q9Y6X0"	"K7ES17"	"UPI0000201C54"	"NM_015559.2"	NA	NA	""	"2/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGAATCA"	"3c85d160-06e6-11e6-aa06-d8e65716bf98"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.192771084337349	"WGS"	TRUE
"15372"	"LOXHD1"	125336	"mskcc.org"	"GRCh37"	"18"	44130542	44130543	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAAAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.18-3531_18-3522dupTTTTTTTTTT"	""	""	"ENST00000300591"	""	94	"."	9	55	"."	0	"LOXHD1,intron_variant,,ENST00000536736,NM_144612.6;LOXHD1,intron_variant,,ENST00000441551,;LOXHD1,intron_variant,,ENST00000398722,;LOXHD1,intron_variant,,ENST00000300591,NM_001145472.2;LOXHD1,intron_variant,,ENST00000441893,;LOXHD1,intron_variant,,ENST00000582408,;LOXHD1,intron_variant,,ENST00000579038,;LOXHD1,intron_variant,,ENST00000419859,;LOXHD1,intron_variant,,ENST00000335730,;LOXHD1,intron_variant,,ENST00000536111,;"	"AAAAAAAAAA"	"ENSG00000167210"	"ENST00000300591"	"Transcript"	"intron_variant"	"-/3970"	"-/3345"	"-/1114"	""	""	""	"1"	NA	-1	"LOXHD1"	"HGNC"	26521	"protein_coding"	"YES"	"CCDS45861.1"	"ENSP00000300591"	"Q8IVV2"	"C9J269,C9IYQ1"	"UPI0000456B8D"	"NM_001145472.2"	NA	NA	""	"3/23"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"b61ff6a2-06e8-11e6-aa06-d8e65716bf98"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0957446808510638	"WGS"	FALSE
"15373"	"CTIF"	9811	"mskcc.org"	"GRCh37"	"18"	46276806	46276809	"+"	"Intron"	"DEL"	"AGAT"	"AGAT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AGAT"	"AGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.585-7484_585-7481delAGAT"	""	""	"ENST00000382998"	""	89	"."	23	52	"."	0	"CTIF,intron_variant,,ENST00000256413,NM_014772.2;CTIF,intron_variant,,ENST00000382998,NM_001142397.1;CTIF,intron_variant,,ENST00000587752,;CTIF,intron_variant,,ENST00000587769,;"	"-"	"ENSG00000134030"	"ENST00000382998"	"Transcript"	"intron_variant"	"-/4407"	"-/1803"	"-/600"	""	""	""	"1"	NA	1	"CTIF"	"HGNC"	23925	"protein_coding"	"YES"	"CCDS45864.1"	"ENSP00000372459"	"O43310"	"K7EQS5,K7EPK6,K7EK08"	"UPI0000074650"	"NM_001142397.1"	NA	NA	""	"8/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAAGATG"	"70418ada-06e6-11e6-aa06-d8e65716bf98"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.258426966292135	"WGS"	FALSE
"15374"	"SMAD7"	4092	"mskcc.org"	"GRCh37"	"18"	46441256	46441256	"+"	"3'Flank"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000262158"	""	101	"."	18	51	"."	0	"SMAD7,downstream_gene_variant,,ENST00000262158,NM_001190821.1,NM_005904.3;"	"-"	"ENSG00000101665"	"ENST00000262158"	"Transcript"	"downstream_gene_variant"	"-/3087"	"-/1281"	"-/426"	""	""	""	"1"	"4967"	-1	"SMAD7"	"HGNC"	6773	"protein_coding"	"YES"	"CCDS11936.1"	"ENSP00000262158"	"O15105"	"K7EKF0"	"UPI0000135A83"	"NM_001190821.1,NM_005904.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACTT"	"713964b2-06e6-11e6-aa06-d8e65716bf98"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.178217821782178	"WGS"	FALSE
"15375"	"CCDC102B"	79839	"mskcc.org"	"GRCh37"	"18"	66524343	66524441	"+"	"Intron"	"DEL"	"TATATATAAATATATTTATATATTTTTATATATTATATATAAATATATTTATATATTTTTATATAATATATAAAAATATATTTATATATTTTTATATAA"	"TATATATAAATATATTTATATATTTTTATATATTATATATAAATATATTTATATATTTTTATATAATATATAAAAATATATTTATATATTTTTATATAA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TATATATAAATATATTTATATATTTTTATATATTATATATAAATATATTTATATATTTTTATATAATATATAAAAATATATTTATATATTTTTATATAA"	"TATATATAAATATATTTATATATTTTTATATATTATATATAAATATATTTATATATTTTTATATAATATATAAAAATATATTTATATATTTTTATATAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.936+10691_936+10789delTAAATATATTTATATATTTTTATATATTATATATAAATATATTTATATATTTTTATATAATATATAAAAATATATTTATATATTTTTATATAATATATA"	""	""	"ENST00000360242"	""	36	"."	6	22	"."	0	"CCDC102B,intron_variant,,ENST00000360242,NM_024781.2;CCDC102B,intron_variant,,ENST00000319445,NM_001093729.1;CCDC102B,intron_variant,,ENST00000584156,;CCDC102B,intron_variant,,ENST00000358653,;CCDC102B,intron_variant,,ENST00000584775,;RNU6-39P,upstream_gene_variant,,ENST00000384344,NR_046495.1;CCDC102B,intron_variant,,ENST00000577772,;CCDC102B,intron_variant,,ENST00000577800,;CCDC102B,intron_variant,,ENST00000581103,;"	"-"	"ENSG00000150636"	"ENST00000360242"	"Transcript"	"intron_variant"	"-/2711"	"-/1542"	"-/513"	""	""	""	"1"	NA	1	"CCDC102B"	"HGNC"	26295	"protein_coding"	"YES"	"CCDS11996.2"	"ENSP00000353377"	"Q68D86"	"J3QLG6,J3QL62,J3KRT2,J3KRG3,A1A4H1"	"UPI0000201E87"	"NM_024781.2"	NA	NA	""	"4/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTATATATAAATATATTTATATATTTTTATATATTATATATAAATATATTTATATATTTTTATATAATATATAAAAATATATTTATATATTTTTATATAAT"	"05a47222-06e7-11e6-aa06-d8e65716bf98"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.166666666666667	"WGS"	FALSE
"15376"	"ASNA1"	439	"mskcc.org"	"GRCh37"	"19"	12847074	12847379	"+"	"5'Flank"	"DEL"	"GGATTACAGGCGTGAGCCAACGCGCCCAGCCTATTTTATTTATTTATTTAGAGACGGAGTTTCACTCTTTCACCCAGGCTGGAGTGGAGTGAAGTGGCGCAATCTCGGCTCGCTGCAACCTCTGCCCTCCGGGTTCAAGCGATTCTCCTGCTTCAGCCTCCTAAGTAGCTGGGATTACAGGCGCGTGCCACCACGCCCGGCTAATTTTTGTATTTTTAGTAGAGACAGGTTTTCACCATCTTGGCCAGGCTGGTCCCGAACTCTTGACCTCAGGTGATCCACCCGCCTCAACCTCCCAAAGTGGTA"	"GGATTACAGGCGTGAGCCAACGCGCCCAGCCTATTTTATTTATTTATTTAGAGACGGAGTTTCACTCTTTCACCCAGGCTGGAGTGGAGTGAAGTGGCGCAATCTCGGCTCGCTGCAACCTCTGCCCTCCGGGTTCAAGCGATTCTCCTGCTTCAGCCTCCTAAGTAGCTGGGATTACAGGCGCGTGCCACCACGCCCGGCTAATTTTTGTATTTTTAGTAGAGACAGGTTTTCACCATCTTGGCCAGGCTGGTCCCGAACTCTTGACCTCAGGTGATCCACCCGCCTCAACCTCCCAAAGTGGTA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"GGATTACAGGCGTGAGCCAACGCGCCCAGCCTATTTTATTTATTTATTTAGAGACGGAGTTTCACTCTTTCACCCAGGCTGGAGTGGAGTGAAGTGGCGCAATCTCGGCTCGCTGCAACCTCTGCCCTCCGGGTTCAAGCGATTCTCCTGCTTCAGCCTCCTAAGTAGCTGGGATTACAGGCGCGTGCCACCACGCCCGGCTAATTTTTGTATTTTTAGTAGAGACAGGTTTTCACCATCTTGGCCAGGCTGGTCCCGAACTCTTGACCTCAGGTGATCCACCCGCCTCAACCTCCCAAAGTGGTA"	"GGATTACAGGCGTGAGCCAACGCGCCCAGCCTATTTTATTTATTTATTTAGAGACGGAGTTTCACTCTTTCACCCAGGCTGGAGTGGAGTGAAGTGGCGCAATCTCGGCTCGCTGCAACCTCTGCCCTCCGGGTTCAAGCGATTCTCCTGCTTCAGCCTCCTAAGTAGCTGGGATTACAGGCGCGTGCCACCACGCCCGGCTAATTTTTGTATTTTTAGTAGAGACAGGTTTTCACCATCTTGGCCAGGCTGGTCCCGAACTCTTGACCTCAGGTGATCCACCCGCCTCAACCTCCCAAAGTGGTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000591090"	""	100	"."	7	35	"."	0	"ASNA1,upstream_gene_variant,,ENST00000591090,;ASNA1,upstream_gene_variant,,ENST00000357332,NM_004317.2;C19orf43,upstream_gene_variant,,ENST00000242784,NM_024038.2;ASNA1,upstream_gene_variant,,ENST00000586561,;C19orf43,upstream_gene_variant,,ENST00000588213,;C19orf43,upstream_gene_variant,,ENST00000592273,;C19orf43,upstream_gene_variant,,ENST00000591254,;C19orf43,upstream_gene_variant,,ENST00000589590,;ASNA1,upstream_gene_variant,,ENST00000590633,;"	"-"	"ENSG00000198356"	"ENST00000591090"	"Transcript"	"upstream_gene_variant"	"-/1368"	"-/1047"	"-/348"	""	""	""	"1"	"574"	1	"ASNA1"	"HGNC"	752	"protein_coding"	"YES"	"CCDS32920.1"	"ENSP00000466379"	"O43681"	"K7ERW9"	"UPI0000126095"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGGGATTACAGGCGTGAGCCAACGCGCCCAGCCTATTTTATTTATTTATTTAGAGACGGAGTTTCACTCTTTCACCCAGGCTGGAGTGGAGTGAAGTGGCGCAATCTCGGCTCGCTGCAACCTCTGCCCTCCGGGTTCAAGCGATTCTCCTGCTTCAGCCTCCTAAGTAGCTGGGATTACAGGCGCGTGCCACCACGCCCGGCTAATTTTTGTATTTTTAGTAGAGACAGGTTTTCACCATCTTGGCCAGGCTGGTCCCGAACTCTTGACCTCAGGTGATCCACCCGCCTCAACCTCCCAAAGTGGTAG"	"e78111ac-06e5-11e6-bc51-9ece7a355181"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.07	"WGS"	FALSE
"15377"	"PGLYRP2"	114770	"mskcc.org"	"GRCh37"	"19"	15605594	15605901	"+"	"Intron"	"DEL"	"GCCTCGGCCTCCCAAAGTGCTGTGATTACAGACATAAGCCACTGCGCCTGGCCCGTTTATTTATTTTTATTTATTTATTTATTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCTGGCATGCAGTGGCATGATCTCGGCTCACTGCAACCTCTGCCTTCCGGGTCCAAGCAATTCTCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCGCACCACCTCGGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACCATCTTGGCTAGTCTGGTCTTGAACTCCTGACCTCGTGATCCACCC"	"GCCTCGGCCTCCCAAAGTGCTGTGATTACAGACATAAGCCACTGCGCCTGGCCCGTTTATTTATTTTTATTTATTTATTTATTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCTGGCATGCAGTGGCATGATCTCGGCTCACTGCAACCTCTGCCTTCCGGGTCCAAGCAATTCTCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCGCACCACCTCGGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACCATCTTGGCTAGTCTGGTCTTGAACTCCTGACCTCGTGATCCACCC"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"GCCTCGGCCTCCCAAAGTGCTGTGATTACAGACATAAGCCACTGCGCCTGGCCCGTTTATTTATTTTTATTTATTTATTTATTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCTGGCATGCAGTGGCATGATCTCGGCTCACTGCAACCTCTGCCTTCCGGGTCCAAGCAATTCTCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCGCACCACCTCGGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACCATCTTGGCTAGTCTGGTCTTGAACTCCTGACCTCGTGATCCACCC"	"GCCTCGGCCTCCCAAAGTGCTGTGATTACAGACATAAGCCACTGCGCCTGGCCCGTTTATTTATTTTTATTTATTTATTTATTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCTGGCATGCAGTGGCATGATCTCGGCTCACTGCAACCTCTGCCTTCCGGGTCCAAGCAATTCTCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCGCACCACCTCGGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACCATCTTGGCTAGTCTGGTCTTGAACTCCTGACCTCGTGATCCACCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10+3841_-10+4148delGGGTGGATCACGAGGTCAGGAGTTCAAGACCAGACTAGCCAAGATGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCCGAGGTGGTGCGCACCTGTAGTCCCAGCTACTCAGGAGGCTGAGGCAGAGAATTGCTTGGACCCGGAAGGCAGAGGTTGCAGTGAGCCGAGATCATGCCACTGCATGCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAATAAATAAATAAATAAAAATAAATAAACGGGCCAGGCGCAGTGGCTTATGTCTGTAATCACAGCACTTTGGGAGGCCGAGGC"	""	""	"ENST00000601792"	""	96	"."	5	44	"."	0	"PGLYRP2,intron_variant,,ENST00000601792,;"	"-"	"ENSG00000161031"	"ENST00000601792"	"Transcript"	"intron_variant"	"-/578"	"-/543"	"-/181"	""	""	""	"1"	NA	-1	"PGLYRP2"	"HGNC"	30013	"protein_coding"	""	""	"ENSP00000472856"	""	"M0R2W8,M0QYW3"	"UPI0003B928E2"	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGGCCTCGGCCTCCCAAAGTGCTGTGATTACAGACATAAGCCACTGCGCCTGGCCCGTTTATTTATTTTTATTTATTTATTTATTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCTGGCATGCAGTGGCATGATCTCGGCTCACTGCAACCTCTGCCTTCCGGGTCCAAGCAATTCTCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCGCACCACCTCGGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACCATCTTGGCTAGTCTGGTCTTGAACTCCTGACCTCGTGATCCACCCG"	"04a3eef8-06e6-11e6-bc51-9ece7a355181"	"285"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0520833333333333	"WGS"	FALSE
"15378"	"ZNF114"	163071	"mskcc.org"	"GRCh37"	"19"	48781920	48781925	"+"	"Intron"	"DEL"	"CCAGGT"	"CCAGGT"	"TATTA"	"rs386810027"	NA	"JHRCC396"	"W0006118F"	"CCAGGT"	"CCAGGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-69-1068_-69-1063delCCAGGTinsTATTA"	""	""	"ENST00000595607"	""	79	"."	6	32	"."	0	"ZNF114,intron_variant,,ENST00000595607,;ZNF114,intron_variant,,ENST00000315849,NM_153608.1;ZNF114,intron_variant,,ENST00000597695,;ZNF114,intron_variant,,ENST00000600687,;ZNF114,intron_variant,,ENST00000595408,;ZNF114,intron_variant,,ENST00000594024,;ZNF114,intron_variant,,ENST00000601320,;ZNF114,upstream_gene_variant,,ENST00000598898,;"	"TATTA"	"ENSG00000178150"	"ENST00000595607"	"Transcript"	"intron_variant"	"-/2478"	"-/1254"	"-/417"	""	""	"rs386810027"	"1"	NA	1	"ZNF114"	"HGNC"	12894	"protein_coding"	"YES"	"CCDS12713.1"	"ENSP00000469998"	"Q8NC26"	"Q8N4J1"	"UPI000007282E"	""	NA	NA	""	"3/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCCAGGTG"	"4507ce4a-06e8-11e6-bc51-9ece7a355181"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0759493670886076	"WGS"	FALSE
"15379"	"ZNF114"	163071	"mskcc.org"	"GRCh37"	"19"	48781920	48781925	"+"	"Intron"	"DEL"	"CCAGGT"	"CCAGGT"	"TATTA"	"rs386810027"	NA	"JHRCC396"	"W0006118F"	"CCAGGT"	"CCAGGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-69-1068_-69-1063delCCAGGTinsTATTA"	""	""	"ENST00000595607"	""	79	"."	12	32	"."	0	"ZNF114,intron_variant,,ENST00000595607,;ZNF114,intron_variant,,ENST00000315849,NM_153608.1;ZNF114,intron_variant,,ENST00000597695,;ZNF114,intron_variant,,ENST00000600687,;ZNF114,intron_variant,,ENST00000595408,;ZNF114,intron_variant,,ENST00000594024,;ZNF114,intron_variant,,ENST00000601320,;ZNF114,upstream_gene_variant,,ENST00000598898,;"	"TATTA"	"ENSG00000178150"	"ENST00000595607"	"Transcript"	"intron_variant"	"-/2478"	"-/1254"	"-/417"	""	""	"rs386810027"	"1"	NA	1	"ZNF114"	"HGNC"	12894	"protein_coding"	"YES"	"CCDS12713.1"	"ENSP00000469998"	"Q8NC26"	"Q8N4J1"	"UPI000007282E"	""	NA	NA	""	"3/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCCAGGTG"	"450f4bca-06e8-11e6-bc51-9ece7a355181"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.151898734177215	"WGS"	FALSE
"15380"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	51087799	51088124	"+"	"IGR"	"DEL"	"GCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCTTCTGTGCCCGGCCCTGCCATATTATTATTATTATTATTTTGAGACAGAGTCTTGCTCTGTCACCCAGGCTGGAGTGCAGTGGCACAATCTCAGCTCACTGCAATTTCCACCTCCTGAGTTCAAGAAATCCTCCCACCTCAGCCTCCTGAGTAGCTGGGACTACAGGCGCCTGCCACCACGCCCAGCTTATTTTTGTATTTTTTTGTAGAGATGGGGTTTTGTCATGTTTGCCCTGGCTGGTCTCAAACTCTTGGGCTCAAGCCCCCTGGGCTCAAGTGATCCAGCCGCCTTG"	"GCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCTTCTGTGCCCGGCCCTGCCATATTATTATTATTATTATTTTGAGACAGAGTCTTGCTCTGTCACCCAGGCTGGAGTGCAGTGGCACAATCTCAGCTCACTGCAATTTCCACCTCCTGAGTTCAAGAAATCCTCCCACCTCAGCCTCCTGAGTAGCTGGGACTACAGGCGCCTGCCACCACGCCCAGCTTATTTTTGTATTTTTTTGTAGAGATGGGGTTTTGTCATGTTTGCCCTGGCTGGTCTCAAACTCTTGGGCTCAAGCCCCCTGGGCTCAAGTGATCCAGCCGCCTTG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"GCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCTTCTGTGCCCGGCCCTGCCATATTATTATTATTATTATTTTGAGACAGAGTCTTGCTCTGTCACCCAGGCTGGAGTGCAGTGGCACAATCTCAGCTCACTGCAATTTCCACCTCCTGAGTTCAAGAAATCCTCCCACCTCAGCCTCCTGAGTAGCTGGGACTACAGGCGCCTGCCACCACGCCCAGCTTATTTTTGTATTTTTTTGTAGAGATGGGGTTTTGTCATGTTTGCCCTGGCTGGTCTCAAACTCTTGGGCTCAAGCCCCCTGGGCTCAAGTGATCCAGCCGCCTTG"	"GCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCTTCTGTGCCCGGCCCTGCCATATTATTATTATTATTATTTTGAGACAGAGTCTTGCTCTGTCACCCAGGCTGGAGTGCAGTGGCACAATCTCAGCTCACTGCAATTTCCACCTCCTGAGTTCAAGAAATCCTCCCACCTCAGCCTCCTGAGTAGCTGGGACTACAGGCGCCTGCCACCACGCCCAGCTTATTTTTGTATTTTTTTGTAGAGATGGGGTTTTGTCATGTTTGCCCTGGCTGGTCTCAAACTCTTGGGCTCAAGCCCCCTGGGCTCAAGTGATCCAGCCGCCTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"."	7	47	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCTTCTGTGCCCGGCCCTGCCATATTATTATTATTATTATTTTGAGACAGAGTCTTGCTCTGTCACCCAGGCTGGAGTGCAGTGGCACAATCTCAGCTCACTGCAATTTCCACCTCCTGAGTTCAAGAAATCCTCCCACCTCAGCCTCCTGAGTAGCTGGGACTACAGGCGCCTGCCACCACGCCCAGCTTATTTTTGTATTTTTTTGTAGAGATGGGGTTTTGTCATGTTTGCCCTGGCTGGTCTCAAACTCTTGGGCTCAAGCCCCCTGGGCTCAAGTGATCCAGCCGCCTTGG"	"cc16c57c-06e7-11e6-bc51-9ece7a355181"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0886075949367089	"WGS"	FALSE
"15381"	"ZNF28"	7576	"mskcc.org"	"GRCh37"	"19"	53315014	53315014	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.16-3628delG"	""	""	"ENST00000457749"	""	91	"."	5	30	"."	0	"ZNF28,intron_variant,,ENST00000457749,NM_006969.3;ZNF28,intron_variant,,ENST00000414252,;ZNF28,intron_variant,,ENST00000391783,;ZNF28,intron_variant,,ENST00000594602,;ZNF28,intron_variant,,ENST00000596559,;ZNF28,upstream_gene_variant,,ENST00000360272,;ZNF28,upstream_gene_variant,,ENST00000339844,;ZNF28,intron_variant,,ENST00000464469,;ZNF28,downstream_gene_variant,,ENST00000542421,;CTD-2102P23.1,downstream_gene_variant,,ENST00000536597,;"	"-"	"ENSG00000198538"	"ENST00000457749"	"Transcript"	"intron_variant"	"-/4556"	"-/2157"	"-/718"	""	""	""	"1"	NA	-1	"ZNF28"	"HGNC"	13073	"protein_coding"	"YES"	"CCDS33093.2"	"ENSP00000397693"	"P17035"	"C9K0H3"	"UPI00001D8190"	"NM_006969.3"	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTCG"	"e023d7f8-06e7-11e6-bc51-9ece7a355181"	"128"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0549450549450549	"WGS"	FALSE
"15382"	"PPP1R12C"	54776	"mskcc.org"	"GRCh37"	"19"	55628351	55628352	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.321+239dupT"	""	""	"ENST00000263433"	""	94	"."	18	43	"."	0	"PPP1R12C,intron_variant,,ENST00000263433,NM_017607.3,NM_001271618.1;PPP1R12C,intron_variant,,ENST00000376393,;PPP1R12C,intron_variant,,ENST00000592993,;PPP1R12C,upstream_gene_variant,,ENST00000435544,;PPP1R12C,upstream_gene_variant,,ENST00000586992,;CTD-2587H24.1,downstream_gene_variant,,ENST00000587647,;"	"A"	"ENSG00000125503"	"ENST00000263433"	"Transcript"	"intron_variant"	"-/2924"	"-/2349"	"-/782"	""	""	""	"1"	NA	-1	"PPP1R12C"	"HGNC"	14947	"protein_coding"	"YES"	"CCDS12916.1"	"ENSP00000263433"	"Q9BZL4"	""	"UPI000006FEE1"	"NM_017607.3,NM_001271618.1"	NA	NA	""	"1/21"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"1109445a-06ea-11e6-bc51-9ece7a355181"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.191489361702128	"WGS"	FALSE
"15383"	"KLF11"	8462	"mskcc.org"	"GRCh37"	"2"	10191019	10191020	"+"	"Intron"	"INS"	"-"	"-"	"TTTTT"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1259-1312_1259-1308dupTTTTT"	""	""	"ENST00000305883"	""	108	"."	7	44	"."	0	"KLF11,intron_variant,,ENST00000535335,NM_001177718.1;KLF11,intron_variant,,ENST00000305883,NM_003597.4;KLF11,intron_variant,,ENST00000540845,NM_001177716.1;KLF11,downstream_gene_variant,,ENST00000440320,;KLF11,downstream_gene_variant,,ENST00000401510,;KLF11,downstream_gene_variant,,ENST00000448523,;RP11-254F7.3,downstream_gene_variant,,ENST00000607181,;"	"TTTTT"	"ENSG00000172059"	"ENST00000305883"	"Transcript"	"intron_variant"	"-/4030"	"-/1539"	"-/512"	""	""	""	"1"	NA	1	"KLF11"	"HGNC"	11811	"protein_coding"	"YES"	"CCDS1668.1"	"ENSP00000307023"	"O14901"	"Q53QU8,E7EX78,C9JM94,B5MCC4"	"UPI000012DEDA"	"NM_003597.4"	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"27"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"659e681e-06eb-11e6-9711-e4334d2abde1"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0648148148148148	"WGS"	FALSE
"15384"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	19620682	19620685	"+"	"IGR"	"DEL"	"TGTT"	"TGTT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TGTT"	"TGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"."	19	56	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTGTTT"	"a15e3cae-06e5-11e6-9711-e4334d2abde1"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.2	"WGS"	FALSE
"15385"	"VIT"	5212	"mskcc.org"	"GRCh37"	"2"	37004231	37004232	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAAAAAAAAAAAAAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.802+2028_802+2029insAAAAAAAAAAAAAAAAAAAA"	""	""	"ENST00000379242"	""	95	"."	8	52	"."	0	"VIT,intron_variant,,ENST00000379242,NM_053276.3;VIT,intron_variant,,ENST00000389975,NM_001177970.1,NM_001177969.1;VIT,intron_variant,,ENST00000497382,;VIT,intron_variant,,ENST00000379241,NM_001177971.1;VIT,intron_variant,,ENST00000404084,;VIT,intron_variant,,ENST00000401530,;VIT,intron_variant,,ENST00000464309,;"	"AAAAAAAAAAAAAAAAAAAA"	"ENSG00000205221"	"ENST00000379242"	"Transcript"	"intron_variant"	"-/2810"	"-/2082"	"-/693"	""	""	""	"1"	NA	1	"VIT"	"HGNC"	12697	"protein_coding"	"YES"	"CCDS33180.1"	"ENSP00000368544"	"Q6UXI7"	"C9J6F5"	"UPI000006E0F8"	"NM_053276.3"	NA	NA	""	"9/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"d4ee0396-06eb-11e6-9711-e4334d2abde1"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0842105263157895	"WGS"	FALSE
"15386"	"HEATR5B"	54497	"mskcc.org"	"GRCh37"	"2"	37286601	37286607	"+"	"Intron"	"DEL"	"ATATATA"	"ATATATA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"ATATATA"	"ATATATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1850-477_1850-471delTATATAT"	""	""	"ENST00000233099"	""	95	"."	5	50	"."	0	"HEATR5B,intron_variant,,ENST00000233099,NM_019024.1;HEATR5B,intron_variant,,ENST00000354531,;HEATR5B,upstream_gene_variant,,ENST00000467978,;"	"-"	"ENSG00000008869"	"ENST00000233099"	"Transcript"	"intron_variant"	"-/6905"	"-/6216"	"-/2071"	""	""	""	"1"	NA	-1	"HEATR5B"	"HGNC"	29273	"protein_coding"	"YES"	"CCDS33181.1"	"ENSP00000233099"	"Q9P2D3"	""	"UPI0000160DCD"	"NM_019024.1"	NA	NA	""	"12/35"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATATATAT"	"171368b6-06e6-11e6-9711-e4334d2abde1"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0526315789473684	"WGS"	FALSE
"15387"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	61966707	61966708	"+"	"IGR"	"INS"	"-"	"-"	"AAAAAAAAAAAA"	"rs767305142"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"."	10	51	"."	0	""	"AAAAAAAAAAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs767305142"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"2b8304f4-06ec-11e6-9711-e4334d2abde1"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0925925925925926	"WGS"	FALSE
"15388"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	67014406	67014406	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"."	21	33	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCT"	"db25e418-06e6-11e6-9711-e4334d2abde1"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.21875	"WGS"	FALSE
"15389"	"LRRTM4"	80059	"mskcc.org"	"GRCh37"	"2"	77300835	77300837	"+"	"Intron"	"DEL"	"TGT"	"TGT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TGT"	"TGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1552-324795_1552-324793delACA"	""	""	"ENST00000409093"	""	92	"."	8	48	"."	0	"LRRTM4,intron_variant,,ENST00000409911,NM_001282924.1,NM_001134745.1;LRRTM4,intron_variant,,ENST00000409093,;LRRTM4,intron_variant,,ENST00000409884,;"	"-"	"ENSG00000176204"	"ENST00000409093"	"Transcript"	"intron_variant"	"-/2247"	"-/1773"	"-/590"	""	""	""	"1"	NA	-1	"LRRTM4"	"HGNC"	19411	"protein_coding"	"YES"	"CCDS46346.1"	"ENSP00000386357"	"Q86VH4"	"C9JM64"	"UPI0000047808"	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATGTT"	"19010786-06e7-11e6-9711-e4334d2abde1"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0869565217391304	"WGS"	FALSE
"15390"	"AC104395.1"	0	"mskcc.org"	"GRCh37"	"2"	84110607	84110608	"+"	"5'Flank"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000431592"	""	78	"."	21	60	"."	0	"AC104395.1,upstream_gene_variant,,ENST00000431592,;"	"T"	"ENSG00000223700"	"ENST00000431592"	"Transcript"	"upstream_gene_variant"	"-/555"	""	""	""	""	""	"1"	"4930"	-1	"AC104395.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"73c2c6c8-06ec-11e6-9711-e4334d2abde1"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.269230769230769	"WGS"	FALSE
"15391"	"LRP1B"	53353	"mskcc.org"	"GRCh37"	"2"	142575632	142575635	"+"	"Intron"	"DEL"	"TATT"	"TATT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TATT"	"TATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.83-7665_83-7662delAATA"	""	""	"ENST00000389484"	""	97	"."	18	43	"."	0	"LRP1B,intron_variant,,ENST00000389484,NM_018557.2;LRP1B,intron_variant,,ENST00000434794,;"	"-"	"ENSG00000168702"	"ENST00000389484"	"Transcript"	"intron_variant"	"-/16535"	"-/13800"	"-/4599"	""	""	""	"1"	NA	-1	"LRP1B"	"HGNC"	6693	"protein_coding"	"YES"	"CCDS2182.1"	"ENSP00000374135"	"Q9NZR2"	"Q8WY27,Q8WY26,Q580W7,Q53TB8,Q53S76,Q53S73,Q53S26,Q53RL0,Q53RG4,Q53RA0,Q53QP5,Q53QM8,Q4ZG53,Q4ZFV5"	"UPI00001B045B"	"NM_018557.2"	NA	NA	""	"1/90"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATATTT"	"df8245e0-06e8-11e6-9711-e4334d2abde1"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.185567010309278	"WGS"	FALSE
"15392"	"MBD5"	55777	"mskcc.org"	"GRCh37"	"2"	148917577	148917577	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-924-18690delA"	""	""	"ENST00000407073"	""	86	"."	16	50	"."	0	"MBD5,intron_variant,,ENST00000407073,NM_018328.4;MBD5,intron_variant,,ENST00000478804,;MBD5,intron_variant,,ENST00000488372,;MBD5,intron_variant,,ENST00000496158,;MBD5,intron_variant,,ENST00000473478,;MBD5,intron_variant,,ENST00000470063,;"	"-"	"ENSG00000204406"	"ENST00000407073"	"Transcript"	"intron_variant"	"-/5992"	"-/4485"	"-/1494"	""	""	""	"1"	NA	1	"MBD5"	"HGNC"	20444	"protein_coding"	"YES"	"CCDS33302.1"	"ENSP00000386049"	"Q9P267"	""	"UPI0000208C40"	"NM_018328.4"	NA	NA	""	"2/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGAA"	"ff9ceeb6-06e8-11e6-9711-e4334d2abde1"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.186046511627907	"WGS"	FALSE
"15393"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	151257925	151257925	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"."	19	56	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"0c4350c4-06e9-11e6-9711-e4334d2abde1"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.182692307692308	"WGS"	FALSE
"15394"	"AC092684.1"	0	"mskcc.org"	"GRCh37"	"2"	164928213	164928214	"+"	"Intron"	"INS"	"-"	"-"	"GTTC"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.197-121448_197-121445dupGAAC"	""	""	"ENST00000429636"	""	84	"."	27	58	"."	0	"AC092684.1,intron_variant,,ENST00000429636,;"	"GTTC"	"ENSG00000237844"	"ENST00000429636"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/714"	""	""	""	""	""	"1"	NA	-1	"AC092684.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"8f992b16-06ed-11e6-9711-e4334d2abde1"	"1620"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.321428571428571	"WGS"	FALSE
"15395"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	180245509	180245510	"+"	"IGR"	"INS"	"-"	"-"	"AAAAAAAAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	46	"."	5	15	"."	0	""	"AAAAAAAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"c5e2fbca-06ed-11e6-9711-e4334d2abde1"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.108695652173913	"WGS"	FALSE
"15396"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	184956149	184956150	"+"	"IGR"	"INS"	"-"	"-"	"TTAGAGCCTGGATACCAGGTCTGGTTTTTGTTACACAGTGGTCCAGGATGTAGTT"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"."	6	63	"."	0	""	"TTAGAGCCTGGATACCAGGTCTGGTTTTTGTTACACAGTGGTCCAGGATGTAGTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"d5e21b46-06ed-11e6-9711-e4334d2abde1"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0560747663551402	"WGS"	FALSE
"15397"	"AC097500.2"	101927217	"mskcc.org"	"GRCh37"	"2"	186932966	186932966	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.167+13091delC"	""	""	"ENST00000456653"	""	78	"."	15	53	"."	0	"AC097500.2,intron_variant,,ENST00000456653,;AC097500.2,intron_variant,,ENST00000427108,;AC097500.2,intron_variant,,ENST00000419719,;"	"-"	"ENSG00000237877"	"ENST00000456653"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1079"	""	""	""	""	""	"1"	NA	-1	"AC097500.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACGT"	"e4f5a872-06e9-11e6-9711-e4334d2abde1"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.192307692307692	"WGS"	FALSE
"15398"	"NBEAL1"	65065	"mskcc.org"	"GRCh37"	"2"	203998284	203998288	"+"	"Intron"	"DEL"	"TAACT"	"TAACT"	"AG"	"novel"	NA	"JHRCC396"	"W0006118F"	"TAACT"	"TAACT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3726+415_3726+419delTAACTinsAG"	""	""	"ENST00000449802"	""	97	"."	28	42	"."	0	"NBEAL1,intron_variant,,ENST00000449802,NM_001114132.1;"	"AG"	"ENSG00000144426"	"ENST00000449802"	"Transcript"	"intron_variant"	"-/10938"	"-/8085"	"-/2694"	""	""	""	"1"	NA	1	"NBEAL1"	"HGNC"	20681	"protein_coding"	"YES"	"CCDS46495.1"	"ENSP00000399903"	"Q6ZS30"	""	"UPI000194EC27"	"NM_001114132.1"	NA	NA	""	"26/54"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTAACTA"	"363cad74-06eb-11e6-9711-e4334d2abde1"	"1680"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.288659793814433	"WGS"	FALSE
"15399"	"PARD3B"	117583	"mskcc.org"	"GRCh37"	"2"	205778059	205778064	"+"	"Intron"	"DEL"	"AAGTGC"	"AAGTGC"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AAGTGC"	"AAGTGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.223-51816_223-51811delAAGTGC"	""	""	"ENST00000358768"	""	95	"."	17	55	"."	0	"PARD3B,intron_variant,,ENST00000406610,NM_205863.3,NM_057177.6,NM_152526.5;PARD3B,intron_variant,,ENST00000358768,;PARD3B,intron_variant,,ENST00000351153,;PARD3B,intron_variant,,ENST00000349953,;PARD3B,intron_variant,,ENST00000462231,;PARD3B,intron_variant,,ENST00000415947,;"	"-"	"ENSG00000116117"	"ENST00000358768"	"Transcript"	"intron_variant"	"-/3432"	"-/3432"	"-/1143"	""	""	""	"1"	NA	1	"PARD3B"	"HGNC"	14446	"protein_coding"	"YES"	"CCDS42806.1"	"ENSP00000351618"	"Q8TEW8"	"Q587I4,Q53TQ6,Q53TP8,Q53TL6,Q53TI4,Q53T65,Q53SN0,Q4ZG80"	"UPI000007201E"	""	NA	NA	""	"2/21"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAAGTGCT"	"4addae32-06ea-11e6-9711-e4334d2abde1"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.178947368421053	"WGS"	FALSE
"15400"	"ERBB4"	2066	"mskcc.org"	"GRCh37"	"2"	212472069	212472071	"+"	"Intron"	"DEL"	"CTC"	"CTC"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"CTC"	"CTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2301+11831_2301+11833delGAG"	""	""	"ENST00000342788"	""	77	"."	18	58	"."	0	"ERBB4,intron_variant,,ENST00000342788,NM_005235.2;ERBB4,intron_variant,,ENST00000436443,NM_001042599.1;ERBB4,intron_variant,,ENST00000402597,;ERBB4,intron_variant,,ENST00000484594,;"	"-"	"ENSG00000178568"	"ENST00000342788"	"Transcript"	"intron_variant"	"-/12132"	"-/3927"	"-/1308"	""	""	""	"1"	NA	-1	"ERBB4"	"HGNC"	3432	"protein_coding"	"YES"	"CCDS2394.1"	"ENSP00000342235"	"Q15303"	"Q580Q7,Q53T57,Q53R48,Q53R25,Q53QS8,Q4ZG14,E9PDR1"	"UPI00000499DF"	"NM_005235.2"	NA	NA	""	"19/27"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AACTCC"	"66941350-06ea-11e6-9711-e4334d2abde1"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.233766233766234	"WGS"	TRUE
"15401"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	235099215	235099216	"+"	"IGR"	"INS"	"-"	"-"	"CAAGCAACATTTTCAGAAATAACCCTGATAAGCAGAAATACAAAGACTTTCACAATA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	136	"."	8	77	"."	0	""	"CAAGCAACATTTTCAGAAATAACCCTGATAAGCAGAAATACAAAGACTTTCACAATA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"8e6e45f4-06ee-11e6-9711-e4334d2abde1"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0588235294117647	"WGS"	FALSE
"15402"	"AC010148.1"	101927896	"mskcc.org"	"GRCh37"	"2"	235792846	235792849	"+"	"Intron"	"DEL"	"AGAT"	"AGAT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AGAT"	"AGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.452+495_452+498delATCT"	""	""	"ENST00000413842"	""	82	"."	15	49	"."	0	"AC010148.1,intron_variant,,ENST00000413842,;AC010148.1,intron_variant,,ENST00000427619,;AC010148.1,intron_variant,,ENST00000435896,;AC010148.1,downstream_gene_variant,,ENST00000434572,;"	"-"	"ENSG00000235726"	"ENST00000413842"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1652"	""	""	""	""	""	"1"	NA	-1	"AC010148.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAGATA"	"d1169176-06ea-11e6-9711-e4334d2abde1"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.182926829268293	"WGS"	FALSE
"15403"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	236321099	236321100	"+"	"IGR"	"DEL"	"AT"	"AT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"."	12	36	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCATA"	"d2e7913a-06ea-11e6-9711-e4334d2abde1"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.171428571428571	"WGS"	FALSE
"15404"	"GPCPD1"	56261	"mskcc.org"	"GRCh37"	"20"	5571188	5571189	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAAAAAAAAAAAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.231+2784_231+2785insTTTTTTTTTTTTTTTTTT"	""	""	"ENST00000379019"	""	73	"."	7	44	"."	0	"GPCPD1,intron_variant,,ENST00000379019,NM_019593.3;GPCPD1,intron_variant,,ENST00000481690,;GPCPD1,upstream_gene_variant,,ENST00000481038,;"	"AAAAAAAAAAAAAAAAAA"	"ENSG00000125772"	"ENST00000379019"	"Transcript"	"intron_variant"	"-/5454"	"-/2019"	"-/672"	""	""	""	"1"	NA	-1	"GPCPD1"	"HGNC"	26957	"protein_coding"	"YES"	"CCDS13090.1"	"ENSP00000368305"	"Q9NPB8"	"D3DW07"	"UPI0000062241"	"NM_019593.3"	NA	NA	""	"4/19"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"eff1a580-06e6-11e6-91cd-a2756fa7da23"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0958904109589041	"WGS"	FALSE
"15405"	"RP4-764O22.2"	101929265	"mskcc.org"	"GRCh37"	"20"	7137450	7137450	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.299-8604delT"	""	""	"ENST00000449581"	""	90	"."	26	59	"."	0	"RP4-764O22.2,intron_variant,,ENST00000449581,;"	"-"	"ENSG00000228888"	"ENST00000449581"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/874"	""	""	""	""	""	"1"	NA	-1	"RP4-764O22.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"5/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"586aa3de-06e5-11e6-91cd-a2756fa7da23"	"1560"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.288888888888889	"WGS"	FALSE
"15406"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	7932260	7932261	"+"	"IGR"	"INS"	"-"	"-"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"."	18	49	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"01a6ef88-06e7-11e6-91cd-a2756fa7da23"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.253521126760563	"WGS"	FALSE
"15407"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	11054787	11054790	"+"	"IGR"	"DEL"	"TAAG"	"TAAG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TAAG"	"TAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"."	22	57	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATAAGT"	"700c5910-06e5-11e6-91cd-a2756fa7da23"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.247191011235955	"WGS"	FALSE
"15408"	"ASXL1"	171023	"mskcc.org"	"GRCh37"	"20"	31006613	31006624	"+"	"Intron"	"DEL"	"TTTTTTTTTTTT"	"TTTTTTTTTTTT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTTTTTTTTTTT"	"TTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.253-9289_253-9278delTTTTTTTTTTTT"	""	""	"ENST00000375687"	""	116	"."	8	44	"."	0	"ASXL1,intron_variant,,ENST00000375687,NM_015338.5;ASXL1,intron_variant,,ENST00000306058,;ASXL1,intron_variant,,ENST00000542461,;ASXL1,intron_variant,,ENST00000470145,;"	"-"	"ENSG00000171456"	"ENST00000375687"	"Transcript"	"intron_variant"	"-/7031"	"-/4626"	"-/1541"	""	""	""	"1"	NA	1	"ASXL1"	"HGNC"	18318	"protein_coding"	"YES"	"CCDS13201.1"	"ENSP00000364839"	"Q8IXJ9"	""	"UPI000036702C"	"NM_015338.5"	NA	NA	""	"4/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"29"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTTTTTTTTTTTTT"	"e061e2e8-06e5-11e6-91cd-a2756fa7da23"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0689655172413793	"WGS"	TRUE
"15409"	"RP5-823G15.5"	0	"mskcc.org"	"GRCh37"	"20"	52118048	52118071	"+"	"Intron"	"DEL"	"AAAAAAAAAAAAAAAAAAATATAT"	"AAAAAAAAAAAAAAAAAAATATAT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AAAAAAAAAAAAAAAAAAATATAT"	"AAAAAAAAAAAAAAAAAAATATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.206+2577_206+2600delATATATTTTTTTTTTTTTTTTTTT"	""	""	"ENST00000558738"	""	206	"."	7	114	"."	0	"RP5-823G15.5,intron_variant,,ENST00000558738,;"	"-"	"ENSG00000259723"	"ENST00000558738"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/542"	""	""	""	""	""	"1"	NA	-1	"RP5-823G15.5"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAAAAAAAAAAAAAAAATATATA"	"67c2cf86-06e6-11e6-91cd-a2756fa7da23"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0339805825242718	"WGS"	FALSE
"15410"	"CDH26"	60437	"mskcc.org"	"GRCh37"	"20"	58595621	58595622	"+"	"Intron"	"DEL"	"CA"	"CA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2173-10665_2173-10664delCA"	""	""	"ENST00000244047"	""	90	"."	16	53	"."	0	"CDH26,intron_variant,,ENST00000244047,;CDH26,intron_variant,,ENST00000370991,;"	"-"	"ENSG00000124215"	"ENST00000244047"	"Transcript"	"intron_variant"	"-/2870"	"-/2559"	"-/852"	""	""	""	"1"	NA	1	"CDH26"	"HGNC"	15902	"protein_coding"	""	""	"ENSP00000244047"	"Q8IXH8"	""	"UPI000156542B"	""	NA	NA	""	"15/16"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCAG"	"90378d58-06e6-11e6-91cd-a2756fa7da23"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.177777777777778	"WGS"	FALSE
"15411"	"LINC00478"	388815	"mskcc.org"	"GRCh37"	"21"	17545252	17545263	"+"	"Intron"	"DEL"	"TTTTTTTTTTTT"	"TTTTTTTTTTTT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTTTTTTTTTTT"	"TTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.313-8631_313-8620delTTTTTTTTTTTT"	""	""	"ENST00000458468"	""	123	"."	6	62	"."	0	"LINC00478,intron_variant,,ENST00000458468,;LINC00478,intron_variant,,ENST00000400178,;LINC00478,intron_variant,,ENST00000456342,;LINC00478,intron_variant,,ENST00000602580,;LINC00478,intron_variant,,ENST00000602935,;"	"-"	"ENSG00000215386"	"ENST00000458468"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3475"	""	""	""	""	""	"1"	NA	1	"LINC00478"	"HGNC"	1274	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"2/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"28"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTTTTTTTTTTTT"	"fa8f1b18-06e5-11e6-9cae-e5e5bb8bcd45"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0487804878048781	"WGS"	FALSE
"15412"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	24414946	24414946	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"rs34869337"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"."	5	40	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs34869337"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"3208553c-06e6-11e6-9cae-e5e5bb8bcd45"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0609756097560976	"WGS"	FALSE
"15413"	"MORC3"	23515	"mskcc.org"	"GRCh37"	"21"	37719325	37719325	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1005+1996delC"	""	""	"ENST00000400485"	""	78	"."	11	57	"."	0	"MORC3,intron_variant,,ENST00000400485,NM_015358.2;MORC3,intron_variant,,ENST00000487909,;MORC3,upstream_gene_variant,,ENST00000485299,;"	"-"	"ENSG00000159256"	"ENST00000400485"	"Transcript"	"intron_variant"	"-/4246"	"-/2820"	"-/939"	""	""	""	"1"	NA	1	"MORC3"	"HGNC"	23572	"protein_coding"	"YES"	"CCDS42924.1"	"ENSP00000383333"	"Q14149"	"Q86YD6,H0YHQ4,B4DHJ4,A2RU29"	"UPI0000167F94"	"NM_015358.2"	NA	NA	""	"8/16"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACA"	"98c63348-06e6-11e6-9cae-e5e5bb8bcd45"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.141025641025641	"WGS"	FALSE
"15414"	"SLC5A1"	6523	"mskcc.org"	"GRCh37"	"22"	32509620	32509620	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000266088"	""	81	"."	10	46	"."	0	"SLC5A1,downstream_gene_variant,,ENST00000266088,NM_000343.3;SLC5A1,downstream_gene_variant,,ENST00000543737,NM_001256314.1;"	"-"	"ENSG00000100170"	"ENST00000266088"	"Transcript"	"downstream_gene_variant"	"-/5061"	"-/1995"	"-/664"	""	""	""	"1"	"604"	1	"SLC5A1"	"HGNC"	11036	"protein_coding"	"YES"	"CCDS13902.1"	"ENSP00000266088"	"P13866"	"A4QPH0"	"UPI00001359EA"	"NM_000343.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAGG"	"a65d17fc-06e5-11e6-92ab-8efb11f18322"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.123456790123457	"WGS"	FALSE
"15415"	"RTCB"	51493	"mskcc.org"	"GRCh37"	"22"	32788114	32788116	"+"	"Intron"	"DEL"	"AAT"	"AAT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AAT"	"AAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1410+111_1410+113delATT"	""	""	"ENST00000216038"	""	94	"."	23	47	"."	0	"RTCB,intron_variant,,ENST00000216038,NM_014306.4;RTCB,intron_variant,,ENST00000451746,;"	"-"	"ENSG00000100220"	"ENST00000216038"	"Transcript"	"intron_variant"	"-/2027"	"-/1518"	"-/505"	""	""	""	"1"	NA	-1	"RTCB"	"HGNC"	26935	"protein_coding"	"YES"	"CCDS13905.1"	"ENSP00000216038"	"Q9Y3I0"	""	"UPI000006E0DE"	"NM_014306.4"	NA	NA	""	"11/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAATA"	"a8417f22-06e5-11e6-92ab-8efb11f18322"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.24468085106383	"WGS"	FALSE
"15416"	"ENSR00001356089"	0	"mskcc.org"	"GRCh37"	"3"	1874758	1874758	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001356089"	""	96	"."	23	46	"."	0	""	"-"	""	"ENSR00001356089"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAA"	"2d42d6b8-06e5-11e6-ad33-c86a37bfdf18"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.239583333333333	"WGS"	FALSE
"15417"	"TPRXL"	0	"mskcc.org"	"GRCh37"	"3"	14045189	14045192	"+"	"Intron"	"DEL"	"TTTA"	"TTTA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTTA"	"TTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-282-59684_-282-59681delTATT"	""	""	"ENST00000326972"	""	84	"."	17	51	"."	0	"TPRXL,intron_variant,,ENST00000326972,;TPRXL,intron_variant,,ENST00000532880,;TPRXL,intron_variant,,ENST00000528312,;TPRXL,intron_variant,,ENST00000524375,;TPRXL,intron_variant,,ENST00000529129,;TPRXL,intron_variant,,ENST00000530586,;TPRXL,intron_variant,,ENST00000532753,;"	"-"	"ENSG00000180438"	"ENST00000326972"	"Transcript"	"intron_variant"	"-/2164"	"-/759"	"-/252"	""	""	""	"1"	NA	1	"TPRXL"	"HGNC"	32178	"protein_coding"	""	""	"ENSP00000322097"	""	"I3L0F9,E9PPR8,E9PPI8,E9PNC5,E9PLC2,E9PLB7,E9PK92,E9PJS2"	"UPI0000141A8E"	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTTTAT"	"8d190814-06e5-11e6-ad33-c86a37bfdf18"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.202380952380952	"WGS"	FALSE
"15418"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	28952746	28952746	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"."	24	58	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGAA"	"daf31d18-06e5-11e6-ad33-c86a37bfdf18"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.269662921348315	"WGS"	FALSE
"15419"	"UQCRC2P1"	0	"mskcc.org"	"GRCh37"	"3"	46357877	46357880	"+"	"5'Flank"	"DEL"	"TGCT"	"TGCT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TGCT"	"TGCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000417777"	""	96	"."	19	58	"."	0	"UQCRC2P1,upstream_gene_variant,,ENST00000417777,;"	"-"	"ENSG00000236736"	"ENST00000417777"	"Transcript"	"upstream_gene_variant"	"-/1332"	""	""	""	""	""	"1"	"4464"	-1	"UQCRC2P1"	"HGNC"	44309	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATGCTT"	"443f6ef2-06e6-11e6-ad33-c86a37bfdf18"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.197916666666667	"WGS"	FALSE
"15420"	"ERC2"	26059	"mskcc.org"	"GRCh37"	"3"	56297221	56297225	"+"	"Intron"	"DEL"	"AATAT"	"AATAT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AATAT"	"AATAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1074+32822_1074+32826delATATT"	""	""	"ENST00000288221"	""	73	"."	20	56	"."	0	"ERC2,intron_variant,,ENST00000288221,NM_015576.1;ERC2,intron_variant,,ENST00000460849,;"	"-"	"ENSG00000187672"	"ENST00000288221"	"Transcript"	"intron_variant"	"-/6138"	"-/2874"	"-/957"	""	""	""	"1"	NA	-1	"ERC2"	"HGNC"	31922	"protein_coding"	"YES"	"CCDS46851.1"	"ENSP00000288221"	"O15083"	""	"UPI00001C1572"	"NM_015576.1"	NA	NA	""	"3/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAAATATA"	"8b9b2fca-06e6-11e6-ad33-c86a37bfdf18"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.273972602739726	"WGS"	FALSE
"15421"	"CADPS"	8618	"mskcc.org"	"GRCh37"	"3"	62847937	62847956	"+"	"Intron"	"DEL"	"TCTGGGGTGCTGTGATGCTA"	"TCTGGGGTGCTGTGATGCTA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TCTGGGGTGCTGTGATGCTA"	"TCTGGGGTGCTGTGATGCTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.441+12308_441+12327delTAGCATCACAGCACCCCAGA"	""	""	"ENST00000383710"	""	78	"."	19	44	"."	0	"CADPS,intron_variant,,ENST00000383710,NM_003716.3;CADPS,intron_variant,,ENST00000357948,NM_183393.2;CADPS,intron_variant,,ENST00000283269,NM_183394.2;CADPS,intron_variant,,ENST00000490353,;"	"-"	"ENSG00000163618"	"ENST00000383710"	"Transcript"	"intron_variant"	"-/5471"	"-/4062"	"-/1353"	""	""	""	"1"	NA	-1	"CADPS"	"HGNC"	1426	"protein_coding"	"YES"	"CCDS46858.1"	"ENSP00000373215"	"Q9ULU8"	""	"UPI00001C036A"	"NM_003716.3"	NA	NA	""	"1/29"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTCTGGGGTGCTGTGATGCTAT"	"c00781c8-06e6-11e6-ad33-c86a37bfdf18"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.243589743589744	"WGS"	FALSE
"15422"	"RP11-314M24.1"	0	"mskcc.org"	"GRCh37"	"3"	78312548	78312549	"+"	"5'Flank"	"DEL"	"AG"	"AG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000484679"	""	90	"."	24	57	"."	0	"RP11-314M24.1,upstream_gene_variant,,ENST00000484679,;RP11-314M24.1,upstream_gene_variant,,ENST00000461528,;RP11-314M24.1,upstream_gene_variant,,ENST00000496674,;"	"-"	"ENSG00000240241"	"ENST00000484679"	"Transcript"	"upstream_gene_variant"	"-/576"	""	""	""	""	""	"1"	"3541"	1	"RP11-314M24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAGA"	"209a38be-06e7-11e6-ad33-c86a37bfdf18"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.266666666666667	"WGS"	FALSE
"15423"	"GBE1"	2632	"mskcc.org"	"GRCh37"	"3"	81618962	81618966	"+"	"Intron"	"DEL"	"TTATT"	"TTATT"	"-"	"rs535034492"	NA	"JHRCC396"	"W0006118F"	"TTATT"	"TTATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1618+8110_1618+8114delAATAA"	""	""	"ENST00000429644"	""	91	"."	18	60	"."	0	"GBE1,intron_variant,,ENST00000429644,NM_000158.3;GBE1,intron_variant,,ENST00000489715,;GBE1,intron_variant,,ENST00000484687,;"	"-"	"ENSG00000114480"	"ENST00000429644"	"Transcript"	"intron_variant"	"-/3461"	"-/2109"	"-/702"	""	""	"rs535034492"	"1"	NA	-1	"GBE1"	"HGNC"	4180	"protein_coding"	"YES"	"CCDS54612.1"	"ENSP00000410833"	"Q04446"	""	"UPI0000209A24"	"NM_000158.3"	NA	NA	""	"12/15"	""	"-:0.0008"	"-:0.0023"	"-:0"	NA	"-:0"	"-:0"	"-:0.001"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACTTATTT"	"33d240b6-06e7-11e6-ad33-c86a37bfdf18"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.197802197802198	"WGS"	FALSE
"15424"	"EPHA6"	285220	"mskcc.org"	"GRCh37"	"3"	97140158	97140158	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1731+16040delG"	""	""	"ENST00000389672"	""	110	"."	25	71	"."	0	"EPHA6,intron_variant,,ENST00000389672,NM_001080448.2;"	"-"	"ENSG00000080224"	"ENST00000389672"	"Transcript"	"intron_variant"	"-/3971"	"-/3393"	"-/1130"	""	""	""	"1"	NA	1	"EPHA6"	"HGNC"	19296	"protein_coding"	"YES"	"CCDS46876.1"	"ENSP00000374323"	""	"H0Y8K5"	"UPI000004BB12"	"NM_001080448.2"	NA	NA	""	"6/17"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGT"	"6d0afdbe-06e7-11e6-ad33-c86a37bfdf18"	"1500"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.227272727272727	"WGS"	FALSE
"15425"	"FILIP1L"	11259	"mskcc.org"	"GRCh37"	"3"	99576814	99576814	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.606-6900delT"	""	""	"ENST00000354552"	""	58	"."	10	45	"."	0	"FILIP1L,intron_variant,,ENST00000331335,NM_001042459.1;FILIP1L,intron_variant,,ENST00000354552,NM_182909.2;FILIP1L,intron_variant,,ENST00000383694,NM_014890.2;FILIP1L,intron_variant,,ENST00000495625,;FILIP1L,intron_variant,,ENST00000471562,NM_001282794.1;CMSS1,intron_variant,,ENST00000421999,NM_032359.3;CMSS1,intron_variant,,ENST00000463526,;CMSS1,intron_variant,,ENST00000496116,;FILIP1L,intron_variant,,ENST00000476723,;CMSS1,intron_variant,,ENST00000491299,;"	"-"	"ENSG00000168386"	"ENST00000354552"	"Transcript"	"intron_variant"	"-/3970"	"-/3408"	"-/1135"	""	""	""	"1"	NA	-1	"FILIP1L"	"HGNC"	24589	"protein_coding"	"YES"	"CCDS43117.1"	"ENSP00000346560"	"Q4L180"	"C9JYJ6"	"UPI00001B24B2"	"NM_182909.2"	NA	NA	""	"4/5"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"7542269c-06e7-11e6-ad33-c86a37bfdf18"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.172413793103448	"WGS"	FALSE
"15426"	"GSK3B"	2932	"mskcc.org"	"GRCh37"	"3"	119588070	119588071	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAA"	"rs544175713"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.910-2601_910-2596dupTTTTTT"	""	""	"ENST00000316626"	""	104	"."	5	53	"."	0	"GSK3B,intron_variant,,ENST00000264235,NM_001146156.1,NM_002093.3;GSK3B,intron_variant,,ENST00000316626,;GSK3B,intron_variant,,ENST00000473886,;"	"AAAAAA"	"ENSG00000082701"	"ENST00000316626"	"Transcript"	"intron_variant"	"-/1636"	"-/1302"	"-/433"	""	""	"rs544175713"	"1"	NA	-1	"GSK3B"	"HGNC"	4617	"protein_coding"	"YES"	"CCDS2996.1"	"ENSP00000324806"	"P49841"	""	"UPI000002ACBB"	""	NA	NA	""	"8/11"	""	"-:0.1743"	"AAAAAA:0.6551"	"AAAAAA:0.9135"	NA	"AAAAAA:0.8581"	"AAAAAA:0.9264"	"AAAAAA:0.8569"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"d4cb467c-06ea-11e6-ad33-c86a37bfdf18"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0480769230769231	"WGS"	FALSE
"15427"	"ZNF148"	7707	"mskcc.org"	"GRCh37"	"3"	124942601	124942602	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000360647"	""	91	"."	27	43	"."	0	"SLC12A8,intron_variant,,ENST00000423114,;ZNF148,downstream_gene_variant,,ENST00000360647,NM_021964.2;"	"A"	"ENSG00000163848"	"ENST00000360647"	"Transcript"	"downstream_gene_variant"	"-/9651"	"-/2385"	"-/794"	""	""	""	"1"	"1803"	-1	"ZNF148"	"HGNC"	12933	"protein_coding"	"YES"	"CCDS3031.1"	"ENSP00000353863"	"Q9UQR1"	"C9K0U4,C9JRX0,C9J6Y6"	"UPI000013C2FF"	"NM_021964.2"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"e7b2fa64-06ea-11e6-ad33-c86a37bfdf18"	"1620"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.296703296703297	"WGS"	FALSE
"15428"	"RP11-77P16.1"	0	"mskcc.org"	"GRCh37"	"3"	130014734	130014744	"+"	"3'Flank"	"DEL"	"ACCTTACACAA"	"ACCTTACACAA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"ACCTTACACAA"	"ACCTTACACAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000508850"	""	93	"."	22	64	"."	0	"RP11-77P16.1,downstream_gene_variant,,ENST00000508850,;"	"-"	"ENSG00000249253"	"ENST00000508850"	"Transcript"	"downstream_gene_variant"	"-/424"	""	""	""	""	""	"1"	"2131"	1	"RP11-77P16.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACACCTTACACAAA"	"f28ed816-06e7-11e6-ad33-c86a37bfdf18"	"1283"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.236559139784946	"WGS"	FALSE
"15429"	"ENSR00001485338"	0	"mskcc.org"	"GRCh37"	"3"	156345979	156345980	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001485338"	""	67	"."	16	49	"."	0	""	"A"	""	"ENSR00001485338"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"506c0a14-06eb-11e6-ad33-c86a37bfdf18"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.238805970149254	"WGS"	FALSE
"15430"	"EGFEM1P"	93556	"mskcc.org"	"GRCh37"	"3"	168433214	168433215	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.280+6041dupT"	""	""	"ENST00000506760"	""	103	"."	22	46	"."	0	"EGFEM1P,intron_variant,,ENST00000506760,;EGFEM1P,intron_variant,,ENST00000431685,;"	"T"	"ENSG00000206120"	"ENST00000506760"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/742"	""	""	""	""	""	"1"	NA	1	"EGFEM1P"	"HGNC"	25149	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"3/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76aaa988-06eb-11e6-ad33-c86a37bfdf18"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.213592233009709	"WGS"	FALSE
"15431"	"NAALADL2"	254827	"mskcc.org"	"GRCh37"	"3"	175001434	175001467	"+"	"Intron"	"DEL"	"ATACAACAAAGCAGAAATAACAGTAGCTTTTCTT"	"ATACAACAAAGCAGAAATAACAGTAGCTTTTCTT"	"TATGGA"	"novel"	NA	"JHRCC396"	"W0006118F"	"ATACAACAAAGCAGAAATAACAGTAGCTTTTCTT"	"ATACAACAAAGCAGAAATAACAGTAGCTTTTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.939+27115_939+27148delATACAACAAAGCAGAAATAACAGTAGCTTTTCTTinsTATGGA"	""	""	"ENST00000454872"	""	89	"."	26	50	"."	0	"NAALADL2,intron_variant,,ENST00000454872,NM_207015.2;NAALADL2,intron_variant,,ENST00000473253,;NAALADL2,intron_variant,,ENST00000489299,;NAALADL2,intron_variant,,ENST00000414826,;"	"TATGGA"	"ENSG00000177694"	"ENST00000454872"	"Transcript"	"intron_variant"	"-/4953"	"-/2388"	"-/795"	""	""	""	"1"	NA	1	"NAALADL2"	"HGNC"	23219	"protein_coding"	"YES"	"CCDS46960.1"	"ENSP00000404705"	"Q58DX5"	"C9JQ86"	"UPI0000161608"	"NM_207015.2"	NA	NA	""	"4/13"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCATACAACAAAGCAGAAATAACAGTAGCTTTTCTTA"	"2b0cda20-06e9-11e6-ad33-c86a37bfdf18"	"1560"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.292134831460674	"WGS"	FALSE
"15432"	"MAP6D1"	79929	"mskcc.org"	"GRCh37"	"3"	183542687	183542689	"+"	"Intron"	"DEL"	"GCA"	"GCA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"GCA"	"GCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.401+246_401+248delTGC"	""	""	"ENST00000318631"	""	80	"."	18	41	"."	0	"MAP6D1,intron_variant,,ENST00000318631,NM_024871.2;MAP6D1,intron_variant,,ENST00000431348,;PARL,downstream_gene_variant,,ENST00000317096,NM_018622.5;PARL,downstream_gene_variant,,ENST00000311101,NM_001037639.1;PARL,downstream_gene_variant,,ENST00000435888,;PARL,downstream_gene_variant,,ENST00000417784,;PARL,downstream_gene_variant,,ENST00000418450,;PARL,downstream_gene_variant,,ENST00000450375,;MAP6D1,intron_variant,,ENST00000463801,;MAP6D1,intron_variant,,ENST00000445426,;PARL,downstream_gene_variant,,ENST00000421484,;"	"-"	"ENSG00000180834"	"ENST00000318631"	"Transcript"	"intron_variant"	"-/2111"	"-/600"	"-/199"	""	""	""	"1"	NA	-1	"MAP6D1"	"HGNC"	25753	"protein_coding"	"YES"	"CCDS3247.1"	"ENSP00000314560"	"Q9H9H5"	""	"UPI000007273D"	"NM_024871.2"	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGCAG"	"b79c5fc0-06e8-11e6-ad33-c86a37bfdf18"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.225	"WGS"	FALSE
"15433"	"ATP13A4"	84239	"mskcc.org"	"GRCh37"	"3"	193207869	193207871	"+"	"Intron"	"DEL"	"GTT"	"GTT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"GTT"	"GTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.604-218_604-216delAAC"	""	""	"ENST00000342695"	""	93	"."	30	43	"."	0	"ATP13A4,intron_variant,,ENST00000342695,NM_032279.2;ATP13A4,intron_variant,,ENST00000392443,;ATP13A4,intron_variant,,ENST00000295548,;ATP13A4,intron_variant,,ENST00000450950,;ATP13A4,intron_variant,,ENST00000490925,;"	"-"	"ENSG00000127249"	"ENST00000342695"	"Transcript"	"intron_variant"	"-/4208"	"-/3591"	"-/1196"	""	""	""	"1"	NA	-1	"ATP13A4"	"HGNC"	25422	"protein_coding"	"YES"	"CCDS3304.2"	"ENSP00000339182"	"Q4VNC1"	""	"UPI0000520D50"	"NM_032279.2"	NA	NA	""	"6/29"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGTTG"	"e39e52cc-06e8-11e6-ad33-c86a37bfdf18"	"1800"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.32258064516129	"WGS"	FALSE
"15434"	"RP11-513G11.4"	100505920	"mskcc.org"	"GRCh37"	"3"	193961778	193961778	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.98+6067delC"	""	""	"ENST00000415869"	""	97	"."	19	59	"."	0	"RP11-513G11.4,intron_variant,,ENST00000415869,;RP11-513G11.3,upstream_gene_variant,,ENST00000455821,;"	"-"	"ENSG00000225742"	"ENST00000415869"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/910"	""	""	""	""	""	"1"	NA	-1	"RP11-513G11.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGG"	"e65ae426-06e8-11e6-ad33-c86a37bfdf18"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.195876288659794	"WGS"	FALSE
"15435"	"SDHAP2"	0	"mskcc.org"	"GRCh37"	"3"	195401875	195401876	"+"	"Intron"	"INS"	"-"	"-"	"TGG"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1435+1021_1435+1023dupTGG"	""	""	"ENST00000455183"	""	198	"."	17	110	"."	0	"LINC00969,intron_variant,,ENST00000445430,;LINC00969,intron_variant,,ENST00000414625,;LINC00969,intron_variant,,ENST00000429897,;LINC00969,intron_variant,,ENST00000446521,;LINC00969,downstream_gene_variant,,ENST00000453324,;LINC00969,downstream_gene_variant,,ENST00000539717,;LINC00969,downstream_gene_variant,,ENST00000539252,;LINC00969,upstream_gene_variant,,ENST00000600527,;SDHAP2,intron_variant,,ENST00000455183,;"	"TGG"	"ENSG00000215837"	"ENST00000455183"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2001"	""	""	""	""	""	"1"	NA	1	"SDHAP2"	"HGNC"	27408	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"10/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"df1efb86-06eb-11e6-ad33-c86a37bfdf18"	"967"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0858585858585859	"WGS"	FALSE
"15436"	"ABCA11P"	79963	"mskcc.org"	"GRCh37"	"4"	416517	416520	"+"	"3'Flank"	"DEL"	"TAAA"	"TAAA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TAAA"	"TAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000451020"	""	91	"."	19	39	"."	0	"ZNF721,downstream_gene_variant,,ENST00000506646,;ABCA11P,downstream_gene_variant,,ENST00000451020,;ABCA11P,downstream_gene_variant,,ENST00000507854,;ABCA11P,downstream_gene_variant,,ENST00000514396,;ZNF721,downstream_gene_variant,,ENST00000515578,;ABCA11P,downstream_gene_variant,,ENST00000504019,;"	"-"	"ENSG00000251595"	"ENST00000451020"	"Transcript"	"downstream_gene_variant"	"-/1815"	""	""	""	""	""	"1"	"2704"	-1	"ABCA11P"	"HGNC"	31	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTAAAT"	"28c76202-06e5-11e6-ad1c-90d551efea0d"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.208791208791209	"WGS"	FALSE
"15437"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	17568370	17568370	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"."	21	44	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAT"	"b9b82c9c-06e5-11e6-ad1c-90d551efea0d"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.223404255319149	"WGS"	FALSE
"15438"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	49632222	49632222	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"rs71193024"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	61	"."	6	23	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs71193024"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATA"	"1ea80be4-06e7-11e6-ad1c-90d551efea0d"	"64"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0983606557377049	"WGS"	FALSE
"15439"	"KIAA1211"	57482	"mskcc.org"	"GRCh37"	"4"	57150458	57150459	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-17+11820_-17+11826dupAAAAAAA"	""	""	"ENST00000504228"	""	123	"."	6	49	"."	0	"KIAA1211,intron_variant,,ENST00000504228,;KIAA1211,intron_variant,,ENST00000541073,;KIAA1211,intron_variant,,ENST00000264229,NM_020722.1;RNU6-197P,downstream_gene_variant,,ENST00000516680,;KIAA1211,intron_variant,,ENST00000503618,;"	"AAAAAAA"	"ENSG00000109265"	"ENST00000504228"	"Transcript"	"intron_variant"	"-/4628"	"-/3702"	"-/1233"	""	""	""	"1"	NA	1	"KIAA1211"	"HGNC"	29219	"protein_coding"	"YES"	"CCDS43230.1"	"ENSP00000423366"	"Q6ZU35"	""	"UPI0000237309"	""	NA	NA	""	"1/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"26"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"f2bf7098-06ec-11e6-ad1c-90d551efea0d"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0487804878048781	"WGS"	FALSE
"15440"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	65077169	65077172	"+"	"IGR"	"DEL"	"TTAA"	"TTAA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTAA"	"TTAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"."	26	56	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTAAT"	"a6d158f4-06e7-11e6-ad1c-90d551efea0d"	"1560"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.298850574712644	"WGS"	FALSE
"15441"	"TMPRSS11A"	339967	"mskcc.org"	"GRCh37"	"4"	68834540	68834541	"+"	"5'Flank"	"INS"	"-"	"-"	"TAGTATAGT"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000334830"	""	141	"."	5	59	"."	0	"TMPRSS11A,upstream_gene_variant,,ENST00000334830,;UBA6-AS1,intron_variant,,ENST00000500538,;"	"TAGTATAGT"	"ENSG00000187054"	"ENST00000334830"	"Transcript"	"upstream_gene_variant"	"-/3054"	"-/1266"	"-/421"	""	""	""	"1"	"4682"	-1	"TMPRSS11A"	"HGNC"	27954	"protein_coding"	"YES"	"CCDS3519.1"	"ENSP00000334611"	"Q6ZMR5"	""	"UPI0000457217"	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"3dac891a-06ed-11e6-ad1c-90d551efea0d"	"85"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0354609929078014	"WGS"	FALSE
"15442"	"SLC4A4"	8671	"mskcc.org"	"GRCh37"	"4"	72287908	72287909	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.808-18422_808-18421delGA"	""	""	"ENST00000425175"	""	124	"."	5	59	"."	0	"SLC4A4,intron_variant,,ENST00000340595,NM_003759.3;SLC4A4,intron_variant,,ENST00000425175,NM_001134742.1;SLC4A4,intron_variant,,ENST00000264485,NM_001098484.2;SLC4A4,intron_variant,,ENST00000351898,;SLC4A4,intron_variant,,ENST00000512686,;SLC4A4,intron_variant,,ENST00000514331,;"	"-"	"ENSG00000080493"	"ENST00000425175"	"Transcript"	"intron_variant"	"-/7596"	"-/3285"	"-/1094"	""	""	""	"1"	NA	1	"SLC4A4"	"HGNC"	11030	"protein_coding"	"YES"	"CCDS47071.1"	"ENSP00000393557"	"Q9Y6R1"	"A5JJ20"	"UPI000152897D"	"NM_001134742.1"	NA	NA	""	"7/24"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCAGA"	"de238c8c-06e7-11e6-ad1c-90d551efea0d"	"71"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0403225806451613	"WGS"	FALSE
"15443"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	73720983	73720984	"+"	"IGR"	"DEL"	"AA"	"AA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"."	20	42	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAAG"	"e9bc4282-06e7-11e6-ad1c-90d551efea0d"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.240963855421687	"WGS"	FALSE
"15444"	"ANTXR2"	118429	"mskcc.org"	"GRCh37"	"4"	81046770	81046771	"+"	"5'Flank"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000506286"	""	85	"."	17	51	"."	0	"ANTXR2,upstream_gene_variant,,ENST00000506286,;"	"A"	"ENSG00000163297"	"ENST00000506286"	"Transcript"	"upstream_gene_variant"	"-/773"	""	""	""	""	""	"1"	"162"	-1	"ANTXR2"	"HGNC"	21732	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"845d0c40-06ed-11e6-ad1c-90d551efea0d"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.2	"WGS"	FALSE
"15445"	"RP11-8L2.1"	101928978	"mskcc.org"	"GRCh37"	"4"	84941009	84941009	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.702-7737delT"	""	""	"ENST00000508406"	""	105	"."	22	50	"."	0	"RP11-8L2.1,intron_variant,,ENST00000508406,;RP11-8L2.1,intron_variant,,ENST00000513489,;"	"-"	"ENSG00000250546"	"ENST00000508406"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2795"	""	""	""	""	""	"1"	NA	-1	"RP11-8L2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"6/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"335d9f08-06e8-11e6-ad1c-90d551efea0d"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.20952380952381	"WGS"	FALSE
"15446"	"ENSR00001432792"	0	"mskcc.org"	"GRCh37"	"4"	86323547	86323547	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001432792"	""	73	"."	14	63	"."	0	""	"-"	""	"ENSR00001432792"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"3b51f588-06e8-11e6-ad1c-90d551efea0d"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.191780821917808	"WGS"	FALSE
"15447"	"STPG2"	285555	"mskcc.org"	"GRCh37"	"4"	98181558	98181559	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.463-72580_463-72575dupTTTTTT"	""	""	"ENST00000522676"	""	115	"."	6	44	"."	0	"STPG2,intron_variant,,ENST00000522676,;STPG2,intron_variant,,ENST00000506482,;"	"AAAAAA"	"ENSG00000163116"	"ENST00000522676"	"Transcript"	"intron_variant"	"-/4203"	"-/561"	"-/186"	""	""	""	"1"	NA	-1	"STPG2"	"HGNC"	28712	"protein_coding"	""	""	"ENSP00000428346"	""	"H0YAZ7"	"UPI00005A935C"	""	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"dee87aa0-06ed-11e6-ad1c-90d551efea0d"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0521739130434783	"WGS"	FALSE
"15448"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	104697083	104697083	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"."	24	59	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"a8d72826-06e8-11e6-ad1c-90d551efea0d"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.230769230769231	"WGS"	FALSE
"15449"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	116046907	116046911	"+"	"IGR"	"DEL"	"AAAAA"	"AAAAA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AAAAA"	"AAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	31	"."	5	29	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAAAAA"	"e8e22ce0-06e8-11e6-ad1c-90d551efea0d"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.161290322580645	"WGS"	FALSE
"15450"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	126866542	126866542	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"."	19	42	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAA"	"345878be-06e9-11e6-ad1c-90d551efea0d"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.2	"WGS"	FALSE
"15451"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	179551028	179551028	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"."	19	63	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACA"	"ad8cd85a-06ea-11e6-ad1c-90d551efea0d"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.171171171171171	"WGS"	FALSE
"15452"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	34418233	34418234	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"."	5	47	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"36fc409e-06eb-11e6-b11b-a16aa3388d6b"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0462962962962963	"WGS"	FALSE
"15453"	"TTC33"	23548	"mskcc.org"	"GRCh37"	"5"	40728383	40728384	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAAAAAAAAAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.435+63_435+64insTTTTTTTTTTTTTTTT"	""	""	"ENST00000337702"	""	102	"."	7	49	"."	0	"TTC33,intron_variant,,ENST00000337702,NM_012382.2;TTC33,intron_variant,,ENST00000503936,;TTC33,intron_variant,,ENST00000504251,;TTC33,intron_variant,,ENST00000511730,;"	"AAAAAAAAAAAAAAAA"	"ENSG00000113638"	"ENST00000337702"	"Transcript"	"intron_variant"	"-/2612"	"-/789"	"-/262"	""	""	""	"1"	NA	-1	"TTC33"	"HGNC"	29959	"protein_coding"	"YES"	"CCDS3931.1"	"ENSP00000338533"	"Q6PID6"	""	"UPI000006D413"	"NM_012382.2"	NA	NA	""	"4/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"5db1b73c-06eb-11e6-b11b-a16aa3388d6b"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0686274509803922	"WGS"	FALSE
"15454"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	46303050	46303053	"+"	"IGR"	"DEL"	"ATAC"	"ATAC"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"ATAC"	"ATAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"."	18	51	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTATACA"	"656ee2b0-06e6-11e6-b11b-a16aa3388d6b"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.193548387096774	"WGS"	FALSE
"15455"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	54509971	54509972	"+"	"IGR"	"INS"	"-"	"-"	"AAAAAAAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"."	5	63	"."	0	""	"AAAAAAAA"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"9478745e-06eb-11e6-b11b-a16aa3388d6b"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0515463917525773	"WGS"	FALSE
"15456"	"PDE4D"	5144	"mskcc.org"	"GRCh37"	"5"	59035248	59035250	"+"	"Intron"	"DEL"	"AAC"	"AAC"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AAC"	"AAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.455+153745_455+153747delGTT"	""	""	"ENST00000340635"	""	98	"."	19	55	"."	0	"PDE4D,intron_variant,,ENST00000340635,NM_001104631.1;PDE4D,intron_variant,,ENST00000507116,NM_001197218.1;PDE4D,intron_variant,,ENST00000502484,NM_001165899.1;PDE4D,intron_variant,,ENST00000546160,;PDE4D,intron_variant,,ENST00000502575,;PDE4D,intron_variant,,ENST00000512069,;PDE4D,intron_variant,,ENST00000405053,;PDE4D,intron_variant,,ENST00000309641,;PDE4D,intron_variant,,ENST00000514231,;"	"-"	"ENSG00000113448"	"ENST00000340635"	"Transcript"	"intron_variant"	"-/8232"	"-/2430"	"-/809"	""	""	""	"1"	NA	-1	"PDE4D"	"HGNC"	8783	"protein_coding"	"YES"	"CCDS47213.1"	"ENSP00000345502"	"Q08499"	"D6RHE0"	"UPI0000050EB1"	"NM_001104631.1"	NA	NA	""	"1/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAAACA"	"102cbc4a-06e7-11e6-b11b-a16aa3388d6b"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.193877551020408	"WGS"	FALSE
"15457"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	64340652	64340652	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"."	5	23	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAC"	"2dd26dc6-06e7-11e6-b11b-a16aa3388d6b"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0657894736842105	"WGS"	FALSE
"15458"	"ZBED3-AS1"	0	"mskcc.org"	"GRCh37"	"5"	76397813	76397827	"+"	"Intron"	"DEL"	"AAATTGTCCACCTAA"	"AAATTGTCCACCTAA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AAATTGTCCACCTAA"	"AAATTGTCCACCTAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.663+1600_663+1614delTTGTCCACCTAAAAA"	""	""	"ENST00000513591"	""	89	"."	15	40	"."	0	"ZBED3-AS1,intron_variant,,ENST00000513591,;ZBED3-AS1,intron_variant,,ENST00000512001,;ZBED3-AS1,intron_variant,,ENST00000514640,;ZBED3-AS1,intron_variant,,ENST00000514905,;ZBED3-AS1,intron_variant,,ENST00000503969,;ZBED3-AS1,intron_variant,,ENST00000504506,;ZBED3-AS1,intron_variant,,ENST00000512213,;ZBED3-AS1,intron_variant,,ENST00000502433,;ZBED3-AS1,intron_variant,,ENST00000514288,;ZBED3-AS1,intron_variant,,ENST00000515419,;ZBED3-AS1,intron_variant,,ENST00000507749,;ZBED3-AS1,intron_variant,,ENST00000514114,;"	"-"	"ENSG00000250802"	"ENST00000513591"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1737"	""	""	""	""	""	"1"	NA	1	"ZBED3-AS1"	"HGNC"	44188	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAAATTGTCCACCTAAA"	"7b7cbe64-06e7-11e6-b11b-a16aa3388d6b"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.168539325842697	"WGS"	FALSE
"15459"	"ZBED3-AS1"	0	"mskcc.org"	"GRCh37"	"5"	76398682	76398682	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.663+2466delG"	""	""	"ENST00000513591"	""	91	"."	21	53	"."	0	"ZBED3-AS1,intron_variant,,ENST00000513591,;ZBED3-AS1,intron_variant,,ENST00000512001,;ZBED3-AS1,intron_variant,,ENST00000514640,;ZBED3-AS1,intron_variant,,ENST00000514905,;ZBED3-AS1,intron_variant,,ENST00000503969,;ZBED3-AS1,intron_variant,,ENST00000504506,;ZBED3-AS1,intron_variant,,ENST00000512213,;ZBED3-AS1,intron_variant,,ENST00000502433,;ZBED3-AS1,intron_variant,,ENST00000514288,;ZBED3-AS1,intron_variant,,ENST00000515419,;ZBED3-AS1,intron_variant,,ENST00000507749,;ZBED3-AS1,intron_variant,,ENST00000514114,;"	"-"	"ENSG00000250802"	"ENST00000513591"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1737"	""	""	""	""	""	"1"	NA	1	"ZBED3-AS1"	"HGNC"	44188	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGA"	"7b882b00-06e7-11e6-b11b-a16aa3388d6b"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.230769230769231	"WGS"	FALSE
"15460"	"SSBP2"	23635	"mskcc.org"	"GRCh37"	"5"	80782014	80782014	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.432+3055delT"	""	""	"ENST00000320672"	""	80	"."	26	47	"."	0	"SSBP2,intron_variant,,ENST00000320672,NM_001256732.1,NM_001256733.1,NM_012446.3;SSBP2,intron_variant,,ENST00000514493,NM_001256735.1,NM_001256734.1;SSBP2,intron_variant,,ENST00000509053,NM_001256736.1;SSBP2,intron_variant,,ENST00000505980,;SSBP2,intron_variant,,ENST00000515395,;SSBP2,intron_variant,,ENST00000504985,;SSBP2,intron_variant,,ENST00000512923,;SSBP2,intron_variant,,ENST00000509013,;SSBP2,intron_variant,,ENST00000507655,;SSBP2,intron_variant,,ENST00000509743,;SSBP2,intron_variant,,ENST00000504174,;SSBP2,intron_variant,,ENST00000507472,;SSBP2,intron_variant,,ENST00000512098,;"	"-"	"ENSG00000145687"	"ENST00000320672"	"Transcript"	"intron_variant"	"-/8780"	"-/1086"	"-/361"	""	""	""	"1"	NA	-1	"SSBP2"	"HGNC"	15831	"protein_coding"	"YES"	"CCDS4056.1"	"ENSP00000322977"	"P81877"	""	"UPI000003DBBE"	"NM_001256732.1,NM_001256733.1,NM_012446.3"	NA	NA	""	"6/16"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"9ce57028-06e7-11e6-b11b-a16aa3388d6b"	"1528"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.325	"WGS"	FALSE
"15461"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	85892912	85892915	"+"	"IGR"	"DEL"	"CAGT"	"CAGT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"CAGT"	"CAGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"."	19	48	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GACAGTC"	"bed95744-06e7-11e6-b11b-a16aa3388d6b"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.215909090909091	"WGS"	FALSE
"15462"	"ARRDC3"	57561	"mskcc.org"	"GRCh37"	"5"	90675129	90675129	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.281-537delC"	""	""	"ENST00000265138"	""	100	"."	5	48	"."	0	"ARRDC3,intron_variant,,ENST00000265138,NM_020801.2;ARRDC3,intron_variant,,ENST00000503192,;ARRDC3,intron_variant,,ENST00000508948,;ARRDC3,intron_variant,,ENST00000514284,;ARRDC3,intron_variant,,ENST00000507075,;ARRDC3,upstream_gene_variant,,ENST00000505631,;"	"-"	"ENSG00000113369"	"ENST00000265138"	"Transcript"	"intron_variant"	"-/4188"	"-/1245"	"-/414"	""	""	""	"1"	NA	-1	"ARRDC3"	"HGNC"	29263	"protein_coding"	"YES"	"CCDS34202.1"	"ENSP00000265138"	"Q96B67"	""	"UPI000006F2E2"	"NM_020801.2"	NA	NA	""	"1/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGC"	"d2516550-06e7-11e6-b11b-a16aa3388d6b"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.05	"WGS"	FALSE
"15463"	"FER"	2241	"mskcc.org"	"GRCh37"	"5"	108423918	108423920	"+"	"Intron"	"DEL"	"TTC"	"TTC"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTC"	"TTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1925-12174_1925-12172delCTT"	""	""	"ENST00000281092"	""	85	"."	14	63	"."	0	"FER,intron_variant,,ENST00000281092,NM_005246.2;FER,intron_variant,,ENST00000438717,;FER,intron_variant,,ENST00000504143,;"	"-"	"ENSG00000151422"	"ENST00000281092"	"Transcript"	"intron_variant"	"-/12119"	"-/2469"	"-/822"	""	""	""	"1"	NA	1	"FER"	"HGNC"	3655	"protein_coding"	"YES"	"CCDS4098.1"	"ENSP00000281092"	"P16591"	""	"UPI000013DC55"	"NM_005246.2"	NA	NA	""	"16/19"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTTCT"	"37e0f23c-06e8-11e6-b11b-a16aa3388d6b"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.164705882352941	"WGS"	FALSE
"15464"	"TMEM232"	642987	"mskcc.org"	"GRCh37"	"5"	109635438	109635445	"+"	"Intron"	"DEL"	"ATGAATAC"	"ATGAATAC"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"ATGAATAC"	"ATGAATAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1413-10304_1413-10297delGTATTCAT"	""	""	"ENST00000507188"	""	97	"."	24	61	"."	0	"TMEM232,intron_variant,,ENST00000507188,;"	"-"	"ENSG00000186952"	"ENST00000507188"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1620"	""	""	""	""	""	"1"	NA	-1	"TMEM232"	"HGNC"	37270	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"8/8"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAATGAATACA"	"3d28088e-06e8-11e6-b11b-a16aa3388d6b"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.247422680412371	"WGS"	FALSE
"15465"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	114146335	114146335	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"."	20	40	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAT"	"536a8d88-06e8-11e6-b11b-a16aa3388d6b"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.222222222222222	"WGS"	FALSE
"15466"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	116445727	116445727	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"."	25	53	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"62868664-06e8-11e6-b11b-a16aa3388d6b"	"1500"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.255102040816327	"WGS"	FALSE
"15467"	"SRFBP1"	153443	"mskcc.org"	"GRCh37"	"5"	121355381	121355381	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.352+348delA"	""	""	"ENST00000339397"	""	96	"."	14	52	"."	0	"SRFBP1,intron_variant,,ENST00000339397,NM_152546.2;SRFBP1,upstream_gene_variant,,ENST00000504881,;"	"-"	"ENSG00000151304"	"ENST00000339397"	"Transcript"	"intron_variant"	"-/2855"	"-/1290"	"-/429"	""	""	""	"1"	NA	1	"SRFBP1"	"HGNC"	26333	"protein_coding"	"YES"	"CCDS43354.1"	"ENSP00000341324"	"Q8NEF9"	""	"UPI000006DEC3"	"NM_152546.2"	NA	NA	""	"5/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"808552ee-06e8-11e6-b11b-a16aa3388d6b"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.145833333333333	"WGS"	FALSE
"15468"	"ZCCHC10"	54819	"mskcc.org"	"GRCh37"	"5"	132340735	132341047	"+"	"Intron"	"DEL"	"TAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCATGAGGTCAGGAGATCGAGACCATCCTGGCTAACATGGTGAAACCCAGTCTCTACTAAAAATACAAAAAATTAGCCAGGTGTTGTTGCACGCACCTATACTCCCAGCTACTCCGGAGGCTGAGGCACAATCACATGAACCTGGGAAGCAGAGGTCGAAGTGAGCTGAGATCGCACCACTGCACTCCAGCCTGGGTGACAGAGCAAGACTCTGTCTCAAAAAAAAAATTTTTTACTCTAAAAAATTATGGCCAGCTGGGCATGGTGGCTCATGCCTA"	"TAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCATGAGGTCAGGAGATCGAGACCATCCTGGCTAACATGGTGAAACCCAGTCTCTACTAAAAATACAAAAAATTAGCCAGGTGTTGTTGCACGCACCTATACTCCCAGCTACTCCGGAGGCTGAGGCACAATCACATGAACCTGGGAAGCAGAGGTCGAAGTGAGCTGAGATCGCACCACTGCACTCCAGCCTGGGTGACAGAGCAAGACTCTGTCTCAAAAAAAAAATTTTTTACTCTAAAAAATTATGGCCAGCTGGGCATGGTGGCTCATGCCTA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCATGAGGTCAGGAGATCGAGACCATCCTGGCTAACATGGTGAAACCCAGTCTCTACTAAAAATACAAAAAATTAGCCAGGTGTTGTTGCACGCACCTATACTCCCAGCTACTCCGGAGGCTGAGGCACAATCACATGAACCTGGGAAGCAGAGGTCGAAGTGAGCTGAGATCGCACCACTGCACTCCAGCCTGGGTGACAGAGCAAGACTCTGTCTCAAAAAAAAAATTTTTTACTCTAAAAAATTATGGCCAGCTGGGCATGGTGGCTCATGCCTA"	"TAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCATGAGGTCAGGAGATCGAGACCATCCTGGCTAACATGGTGAAACCCAGTCTCTACTAAAAATACAAAAAATTAGCCAGGTGTTGTTGCACGCACCTATACTCCCAGCTACTCCGGAGGCTGAGGCACAATCACATGAACCTGGGAAGCAGAGGTCGAAGTGAGCTGAGATCGCACCACTGCACTCCAGCCTGGGTGACAGAGCAAGACTCTGTCTCAAAAAAAAAATTTTTTACTCTAAAAAATTATGGCCAGCTGGGCATGGTGGCTCATGCCTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.203+1404_203+1716delTAGGCATGAGCCACCATGCCCAGCTGGCCATAATTTTTTAGAGTAAAAAATTTTTTTTTTGAGACAGAGTCTTGCTCTGTCACCCAGGCTGGAGTGCAGTGGTGCGATCTCAGCTCACTTCGACCTCTGCTTCCCAGGTTCATGTGATTGTGCCTCAGCCTCCGGAGTAGCTGGGAGTATAGGTGCGTGCAACAACACCTGGCTAATTTTTTGTATTTTTAGTAGAGACTGGGTTTCACCATGTTAGCCAGGATGGTCTCGATCTCCTGACCTCATGATCTGCCCGCCTCGGCCTCCCAAAGTGCTGGGATTA"	""	""	"ENST00000324170"	""	90	"."	5	45	"."	0	"ZCCHC10,intron_variant,,ENST00000324170,NM_017665.1;ZCCHC10,intron_variant,,ENST00000355372,;ZCCHC10,intron_variant,,ENST00000509437,;ZCCHC10,intron_variant,,ENST00000513848,;ZCCHC10,intron_variant,,ENST00000513541,;ZCCHC10,intron_variant,,ENST00000509008,;ZCCHC10,intron_variant,,ENST00000508080,;ZCCHC10,intron_variant,,ENST00000506403,;ZCCHC10,intron_variant,,ENST00000511440,;RP11-485M7.1,downstream_gene_variant,,ENST00000505029,;"	"-"	"ENSG00000155329"	"ENST00000324170"	"Transcript"	"intron_variant"	"-/2178"	"-/513"	"-/170"	""	""	""	"1"	NA	-1	"ZCCHC10"	"HGNC"	25954	"protein_coding"	"YES"	"CCDS4165.1"	"ENSP00000324274"	"Q8TBK6"	""	"UPI0000073DBB"	"NM_017665.1"	NA	NA	""	"2/3"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCATGAGGTCAGGAGATCGAGACCATCCTGGCTAACATGGTGAAACCCAGTCTCTACTAAAAATACAAAAAATTAGCCAGGTGTTGTTGCACGCACCTATACTCCCAGCTACTCCGGAGGCTGAGGCACAATCACATGAACCTGGGAAGCAGAGGTCGAAGTGAGCTGAGATCGCACCACTGCACTCCAGCCTGGGTGACAGAGCAAGACTCTGTCTCAAAAAAAAAATTTTTTACTCTAAAAAATTATGGCCAGCTGGGCATGGTGGCTCATGCCTAT"	"c2e6016a-06e8-11e6-b11b-a16aa3388d6b"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0555555555555556	"WGS"	FALSE
"15469"	"ANKHD1"	54882	"mskcc.org"	"GRCh37"	"5"	139852629	139852629	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1782+8268delG"	""	""	"ENST00000297183"	""	97	"."	5	47	"."	0	"ANKHD1,intron_variant,,ENST00000297183,NM_020690.5;ANKHD1-EIF4EBP3,intron_variant,,ENST00000532219,;ANKHD1,intron_variant,,ENST00000360839,NM_017747.2;ANKHD1,intron_variant,,ENST00000421134,;ANKHD1,intron_variant,,ENST00000246149,;ANKHD1,downstream_gene_variant,,ENST00000394723,NM_024668.3,NM_001197030.1;ANKHD1,downstream_gene_variant,,ENST00000394722,NM_017978.2;"	"-"	"ENSG00000131503"	"ENST00000297183"	"Transcript"	"intron_variant"	"-/8319"	"-/7854"	"-/2617"	""	""	""	"1"	NA	1	"ANKHD1"	"HGNC"	24714	"protein_coding"	"YES"	"CCDS4224.1"	"ENSP00000297183"	"Q8IWZ3"	""	"UPI0000074448"	"NM_020690.5"	NA	NA	""	"10/35"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"ee67ffaa-06e8-11e6-b11b-a16aa3388d6b"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0515463917525773	"WGS"	FALSE
"15470"	"HAVCR1"	26762	"mskcc.org"	"GRCh37"	"5"	156471507	156471508	"+"	"Intron"	"INS"	"-"	"-"	"AAGGAAGGAAGGAGAAAGAAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.782-1815_782-1814insTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTTCTTTCTCCTTCCTTCCTT"	""	""	"ENST00000339252"	""	72	"."	5	35	"."	0	"HAVCR1,intron_variant,,ENST00000339252,NM_012206.2;HAVCR1,intron_variant,,ENST00000425854,;HAVCR1,intron_variant,,ENST00000522693,;HAVCR1,intron_variant,,ENST00000544197,NM_001099414.1;HAVCR1,intron_variant,,ENST00000523175,NM_001173393.1;HAVCR1,intron_variant,,ENST00000517644,;"	"AAGGAAGGAAGGAGAAAGAAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGA"	"ENSG00000113249"	"ENST00000339252"	"Transcript"	"intron_variant"	"-/1845"	"-/1095"	"-/364"	""	""	""	"1"	NA	-1	"HAVCR1"	"HGNC"	17866	"protein_coding"	"YES"	"CCDS43392.1"	"ENSP00000344844"	"Q96D42"	"E5RIF6"	"UPI000006EEEC"	"NM_012206.2"	NA	NA	""	"4/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"a173786e-06ed-11e6-b11b-a16aa3388d6b"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0694444444444444	"WGS"	FALSE
"15471"	"ENSR00001415818"	0	"mskcc.org"	"GRCh37"	"5"	157833708	157833708	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001415818"	""	89	"."	15	35	"."	0	""	"-"	""	"ENSR00001415818"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAG"	"55dd0978-06e9-11e6-b11b-a16aa3388d6b"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.168539325842697	"WGS"	FALSE
"15472"	"FABP6"	2172	"mskcc.org"	"GRCh37"	"5"	159624208	159624208	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-58-1846delG"	""	""	"ENST00000393980"	""	72	"."	16	38	"."	0	"FABP6,intron_variant,,ENST00000393980,NM_001130958.1;FABP6,upstream_gene_variant,,ENST00000393982,NM_001040442.1;CTB-127C13.1,non_coding_transcript_exon_variant,,ENST00000501818,;CTB-127C13.1,intron_variant,,ENST00000524005,;"	"-"	"ENSG00000170231"	"ENST00000393980"	"Transcript"	"intron_variant"	"-/756"	"-/534"	"-/177"	""	""	""	"1"	NA	1	"FABP6"	"HGNC"	3561	"protein_coding"	"YES"	"CCDS43393.1"	"ENSP00000377549"	"P51161"	"Q8IUB1"	"UPI000020C072"	"NM_001130958.1"	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGG"	"610bac3c-06e9-11e6-b11b-a16aa3388d6b"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.222222222222222	"WGS"	FALSE
"15473"	"GCNT2"	2651	"mskcc.org"	"GRCh37"	"6"	10560147	10560148	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.925+30081dupA"	""	""	"ENST00000379597"	""	98	"."	18	51	"."	0	"GCNT2,intron_variant,,ENST00000379597,;GCNT2,intron_variant,,ENST00000316170,NM_001491.2;GCNT2,intron_variant,,ENST00000495262,NM_145649.4;GCNT2,intron_variant,,ENST00000410107,;GCNT2,intron_variant,,ENST00000397423,;GCNT2,intron_variant,,ENST00000489225,;GCNT2,intron_variant,,ENST00000459872,;GCNT2,intron_variant,,ENST00000485764,;GCNT2,intron_variant,,ENST00000474518,;GCNT2,intron_variant,,ENST00000475577,;GCNT2,intron_variant,,ENST00000489819,;GCNT2,intron_variant,,ENST00000461400,;"	"A"	"ENSG00000111846"	"ENST00000379597"	"Transcript"	"intron_variant"	"-/4525"	"-/1209"	"-/402"	""	""	""	"1"	NA	1	"GCNT2"	"HGNC"	4204	"protein_coding"	"YES"	"CCDS34338.1"	"ENSP00000368917"	"Q8N0V5"	"Q8N7N7,Q08M29"	"UPI000006E705"	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"3d98284a-06ec-11e6-a413-8129402c1020"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.183673469387755	"WGS"	FALSE
"15474"	"TMEM170B"	100113407	"mskcc.org"	"GRCh37"	"6"	11561466	11561470	"+"	"Intron"	"DEL"	"TTTGT"	"TTTGT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTTGT"	"TTTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.98-4428_98-4424delTTTGT"	""	""	"ENST00000379426"	""	106	"."	18	54	"."	0	"TMEM170B,intron_variant,,ENST00000379426,NM_001100829.2;TMEM170B,intron_variant,,ENST00000543875,;"	"-"	"ENSG00000205269"	"ENST00000379426"	"Transcript"	"intron_variant"	"-/8362"	"-/399"	"-/132"	""	""	""	"1"	NA	1	"TMEM170B"	"HGNC"	34244	"protein_coding"	"YES"	"CCDS43425.1"	"ENSP00000368737"	"Q5T4T1"	""	"UPI000046FF52"	"NM_001100829.2"	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTTGTT"	"78eb8326-06e5-11e6-a413-8129402c1020"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.169811320754717	"WGS"	FALSE
"15475"	"CAP2"	10486	"mskcc.org"	"GRCh37"	"6"	17542914	17542915	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1003-153dupA"	""	""	"ENST00000229922"	""	99	"."	20	53	"."	0	"CAP2,intron_variant,,ENST00000229922,NM_006366.2;CAP2,intron_variant,,ENST00000378990,;CAP2,intron_variant,,ENST00000489374,;CAP2,intron_variant,,ENST00000465994,;CAP2,intron_variant,,ENST00000493172,;CAP2,intron_variant,,ENST00000479291,;CAP2,downstream_gene_variant,,ENST00000476263,;"	"A"	"ENSG00000112186"	"ENST00000229922"	"Transcript"	"intron_variant"	"-/3316"	"-/1434"	"-/477"	""	""	""	"1"	NA	1	"CAP2"	"HGNC"	20039	"protein_coding"	"YES"	"CCDS4539.1"	"ENSP00000229922"	"P40123"	""	"UPI0000126EC6"	"NM_006366.2"	NA	NA	""	"9/12"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"6b338ac4-06ec-11e6-a413-8129402c1020"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.202020202020202	"WGS"	FALSE
"15476"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	23441606	23441607	"+"	"IGR"	"INS"	"-"	"-"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"."	5	39	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"967e0eb6-06ec-11e6-a413-8129402c1020"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0735294117647059	"WGS"	FALSE
"15477"	"DCDC2"	51473	"mskcc.org"	"GRCh37"	"6"	24259809	24259813	"+"	"Intron"	"DEL"	"ATTAA"	"ATTAA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"ATTAA"	"ATTAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.922+18464_922+18468delTTAAT"	""	""	"ENST00000378454"	""	73	"."	17	53	"."	0	"DCDC2,intron_variant,,ENST00000378454,NM_001195610.1,NM_016356.4;"	"-"	"ENSG00000146038"	"ENST00000378454"	"Transcript"	"intron_variant"	"-/4707"	"-/1431"	"-/476"	""	""	""	"1"	NA	-1	"DCDC2"	"HGNC"	18141	"protein_coding"	"YES"	"CCDS4550.1"	"ENSP00000367715"	"Q9UHG0"	""	"UPI000013DA24"	"NM_001195610.1,NM_016356.4"	NA	NA	""	"7/9"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATATTAAA"	"dbf23ed8-06e5-11e6-a413-8129402c1020"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.232876712328767	"WGS"	FALSE
"15478"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	42737063	42737063	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"."	25	49	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTC"	"8af2e3a6-06e6-11e6-a413-8129402c1020"	"1500"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.308641975308642	"WGS"	FALSE
"15479"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	106841980	106841980	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"."	17	43	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCAT"	"ba4de7f6-06e9-11e6-a413-8129402c1020"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.204819277108434	"WGS"	FALSE
"15480"	"SLC35F1"	222553	"mskcc.org"	"GRCh37"	"6"	118496368	118496372	"+"	"Intron"	"DEL"	"TAAAG"	"TAAAG"	"-"	"rs771709709"	NA	"JHRCC396"	"W0006118F"	"TAAAG"	"TAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349+20591_349+20595delAAAGT"	""	""	"ENST00000360388"	""	95	"."	21	60	"."	0	"SLC35F1,intron_variant,,ENST00000360388,NM_001029858.3;"	"-"	"ENSG00000196376"	"ENST00000360388"	"Transcript"	"intron_variant"	"-/4852"	"-/1227"	"-/408"	""	""	"rs771709709"	"1"	NA	1	"SLC35F1"	"HGNC"	21483	"protein_coding"	"YES"	"CCDS34524.1"	"ENSP00000353557"	"Q5T1Q4"	"B4DJ02,B3KY53"	"UPI00001609C1"	"NM_001029858.3"	NA	NA	""	"2/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"6"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTAAAGT"	"00befab8-06ea-11e6-a413-8129402c1020"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.221052631578947	"WGS"	FALSE
"15481"	"TIAM2"	26230	"mskcc.org"	"GRCh37"	"6"	155265811	155265811	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-209+471delG"	""	""	"ENST00000461783"	""	115	"."	28	52	"."	0	"TIAM2,intron_variant,,ENST00000461783,;TIAM2,intron_variant,,ENST00000535064,;"	"-"	"ENSG00000146426"	"ENST00000461783"	"Transcript"	"intron_variant"	"-/6981"	"-/5106"	"-/1701"	""	""	""	"1"	NA	1	"TIAM2"	"HGNC"	11806	"protein_coding"	"YES"	"CCDS34558.1"	"ENSP00000437188"	"Q8IVF5"	"F5H8H5,F5H6W6,F5H6R0,F5H1M3,E9PMZ8"	"UPI00004DF8BE"	""	NA	NA	""	"3/28"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGT"	"d14eb1be-06ea-11e6-a413-8129402c1020"	"1680"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.243478260869565	"WGS"	FALSE
"15482"	"AC011288.2"	0	"mskcc.org"	"GRCh37"	"7"	13629377	13629378	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTT"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.352-46880_352-46872dupTTTTTTTTT"	""	""	"ENST00000411542"	""	80	"."	5	35	"."	0	"AC011288.2,intron_variant,,ENST00000411542,;"	"TTTTTTTTT"	"ENSG00000229618"	"ENST00000411542"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/526"	""	""	""	""	""	"1"	NA	1	"AC011288.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"22"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"359e9522-06ea-11e6-982c-ec0940ad6167"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0625	"WGS"	FALSE
"15483"	"ETV1"	2115	"mskcc.org"	"GRCh37"	"7"	13967948	13967948	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.802+3179delT"	""	""	"ENST00000405192"	""	121	"."	20	58	"."	0	"ETV1,intron_variant,,ENST00000343495,;ETV1,intron_variant,,ENST00000430479,NM_004956.4;ETV1,intron_variant,,ENST00000242066,NM_001163148.1;ETV1,intron_variant,,ENST00000420159,NM_001163151.1;ETV1,intron_variant,,ENST00000399357,NM_001163152.1;ETV1,intron_variant,,ENST00000405192,NM_001163147.1;ETV1,intron_variant,,ENST00000405358,;ETV1,intron_variant,,ENST00000405218,;ETV1,intron_variant,,ENST00000403527,NM_001163150.1;ETV1,intron_variant,,ENST00000403685,NM_001163149.1;ETV1,intron_variant,,ENST00000438956,;ETV1,intron_variant,,ENST00000443608,;ETV1,intron_variant,,ENST00000476720,;ETV1,downstream_gene_variant,,ENST00000497115,;ETV1,intron_variant,,ENST00000443137,;ETV1,intron_variant,,ENST00000472931,;"	"-"	"ENSG00000006468"	"ENST00000405192"	"Transcript"	"intron_variant"	"-/4402"	"-/1365"	"-/454"	""	""	""	"1"	NA	-1	"ETV1"	"HGNC"	3490	"protein_coding"	""	"CCDS55087.1"	"ENSP00000385381"	"P50549"	"C9J9L1,C9J4P4,C9J0B7"	"UPI00001695A0"	"NM_001163147.1"	NA	NA	""	"8/11"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGAA"	"926aefb2-06e5-11e6-982c-ec0940ad6167"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.165289256198347	"WGS"	TRUE
"15484"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	25124274	25124274	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"."	17	58	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"dfa28556-06e5-11e6-982c-ec0940ad6167"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.182795698924731	"WGS"	FALSE
"15485"	"SUGCT"	79783	"mskcc.org"	"GRCh37"	"7"	40584360	40584387	"+"	"Intron"	"DEL"	"AGTATACTGTTATTAATTTGGTTTAGAA"	"AGTATACTGTTATTAATTTGGTTTAGAA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AGTATACTGTTATTAATTTGGTTTAGAA"	"AGTATACTGTTATTAATTTGGTTTAGAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1110+48376_1110+48403delGTATACTGTTATTAATTTGGTTTAGAAA"	""	""	"ENST00000309930"	""	90	"."	22	60	"."	0	"SUGCT,intron_variant,,ENST00000309930,NM_024728.2,NM_001193311.1;SUGCT,intron_variant,,ENST00000335693,NM_001193313.1;SUGCT,intron_variant,,ENST00000401647,NM_001193312.1;AC004988.1,intron_variant,,ENST00000415237,;"	"-"	"ENSG00000175600"	"ENST00000309930"	"Transcript"	"intron_variant"	"-/1719"	"-/1416"	"-/471"	""	""	""	"1"	NA	1	"SUGCT"	"HGNC"	16001	"protein_coding"	"YES"	"CCDS55104.1"	"ENSP00000312054"	"Q9HAC7"	"Q9Y6U8,Q75MU8,Q75MS9,Q75MI5"	"UPI000013EF6B"	"NM_024728.2,NM_001193311.1"	NA	NA	""	"12/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTAGTATACTGTTATTAATTTGGTTTAGAAA"	"4041aaae-06e6-11e6-982c-ec0940ad6167"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.244444444444444	"WGS"	FALSE
"15486"	"SEPT7P2"	641977	"mskcc.org"	"GRCh37"	"7"	45808908	45809176	"+"	"5'Flank"	"DEL"	"GGCCGAGGCGGGAGGACCCTTCAGGCCAAGAGCAGCCTAGCAACATGGCGCAACCCCATCTCTGTAGTCCTACCTCAGACCCCCAGCTACTTGAACCCAAAGGTTCAAGGCTCCAGTGAGCTATGATCCCACCACAGCATTCCAGCCTGCGAGATTGAGGTAAACCCTGTCTAAAAAAATTAAAAATCTATCCAAGTGTGCAACAGGGAGGGACTACTAAATAAAACATGAGGCTGGCTGGGCCCTACTGTAATCCCAGCACTTTGGGA"	"GGCCGAGGCGGGAGGACCCTTCAGGCCAAGAGCAGCCTAGCAACATGGCGCAACCCCATCTCTGTAGTCCTACCTCAGACCCCCAGCTACTTGAACCCAAAGGTTCAAGGCTCCAGTGAGCTATGATCCCACCACAGCATTCCAGCCTGCGAGATTGAGGTAAACCCTGTCTAAAAAAATTAAAAATCTATCCAAGTGTGCAACAGGGAGGGACTACTAAATAAAACATGAGGCTGGCTGGGCCCTACTGTAATCCCAGCACTTTGGGA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"GGCCGAGGCGGGAGGACCCTTCAGGCCAAGAGCAGCCTAGCAACATGGCGCAACCCCATCTCTGTAGTCCTACCTCAGACCCCCAGCTACTTGAACCCAAAGGTTCAAGGCTCCAGTGAGCTATGATCCCACCACAGCATTCCAGCCTGCGAGATTGAGGTAAACCCTGTCTAAAAAAATTAAAAATCTATCCAAGTGTGCAACAGGGAGGGACTACTAAATAAAACATGAGGCTGGCTGGGCCCTACTGTAATCCCAGCACTTTGGGA"	"GGCCGAGGCGGGAGGACCCTTCAGGCCAAGAGCAGCCTAGCAACATGGCGCAACCCCATCTCTGTAGTCCTACCTCAGACCCCCAGCTACTTGAACCCAAAGGTTCAAGGCTCCAGTGAGCTATGATCCCACCACAGCATTCCAGCCTGCGAGATTGAGGTAAACCCTGTCTAAAAAAATTAAAAATCTATCCAAGTGTGCAACAGGGAGGGACTACTAAATAAAACATGAGGCTGGCTGGGCCCTACTGTAATCCCAGCACTTTGGGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000429741"	""	91	"."	5	56	"."	0	"SEPT7P2,upstream_gene_variant,,ENST00000429741,;SEPT7P2,upstream_gene_variant,,ENST00000428414,;SEPT7P2,upstream_gene_variant,,ENST00000450436,;SEPT7P2,upstream_gene_variant,,ENST00000443269,;SEPT7P2,upstream_gene_variant,,ENST00000417129,;SEPT7P2,upstream_gene_variant,,ENST00000398921,;AC096582.7,upstream_gene_variant,,ENST00000438487,;"	"-"	"ENSG00000214765"	"ENST00000429741"	"Transcript"	"upstream_gene_variant"	"-/3006"	""	""	""	""	""	"1"	"355"	-1	"SEPT7P2"	"HGNC"	32339	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTGGCCGAGGCGGGAGGACCCTTCAGGCCAAGAGCAGCCTAGCAACATGGCGCAACCCCATCTCTGTAGTCCTACCTCAGACCCCCAGCTACTTGAACCCAAAGGTTCAAGGCTCCAGTGAGCTATGATCCCACCACAGCATTCCAGCCTGCGAGATTGAGGTAAACCCTGTCTAAAAAAATTAAAAATCTATCCAAGTGTGCAACAGGGAGGGACTACTAAATAAAACATGAGGCTGGCTGGGCCCTACTGTAATCCCAGCACTTTGGGAG"	"5bf13148-06e6-11e6-982c-ec0940ad6167"	"43"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0549450549450549	"WGS"	FALSE
"15487"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	54067285	54067286	"+"	"IGR"	"INS"	"-"	"-"	"TTTTTTTTTTTTT"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"."	6	42	"."	0	""	"TTTTTTTTTTTTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"2127cf18-06eb-11e6-982c-ec0940ad6167"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0560747663551402	"WGS"	FALSE
"15488"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	57721640	57721659	"+"	"IGR"	"DEL"	"CTTATATTTATATATATGAT"	"CTTATATTTATATATATGAT"	"TTTATATTTATATATG"	"novel"	NA	"JHRCC396"	"W0006118F"	"CTTATATTTATATATATGAT"	"CTTATATTTATATATATGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"."	6	54	"."	0	""	"TTTATATTTATATATG"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CACTTATATTTATATATATGATA"	"a6d66ae0-06e9-11e6-982c-ec0940ad6167"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0588235294117647	"WGS"	FALSE
"15489"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	67532254	67532274	"+"	"IGR"	"DEL"	"TTTTTTTTTTTTTTTTTTTTT"	"TTTTTTTTTTTTTTTTTTTTT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TTTTTTTTTTTTTTTTTTTTT"	"TTTTTTTTTTTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"."	7	57	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTTTTTTTTTTTTTTTTTTTT"	"1dcdca42-06e7-11e6-982c-ec0940ad6167"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0813953488372093	"WGS"	FALSE
"15490"	"CCDC146"	57639	"mskcc.org"	"GRCh37"	"7"	76920056	76920057	"+"	"Intron"	"DEL"	"AG"	"AG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2416-2211_2416-2210delAG"	""	""	"ENST00000285871"	""	80	"."	11	51	"."	0	"CCDC146,intron_variant,,ENST00000285871,NM_020879.2;CCDC146,intron_variant,,ENST00000431197,;CCDC146,intron_variant,,ENST00000415740,;CCDC146,upstream_gene_variant,,ENST00000488998,;CCDC146,intron_variant,,ENST00000461259,;CCDC146,intron_variant,,ENST00000478101,;CCDC146,intron_variant,,ENST00000474733,;CCDC146,downstream_gene_variant,,ENST00000464021,;"	"-"	"ENSG00000135205"	"ENST00000285871"	"Transcript"	"intron_variant"	"-/3333"	"-/2868"	"-/955"	""	""	""	"1"	NA	1	"CCDC146"	"HGNC"	29296	"protein_coding"	"YES"	"CCDS34671.1"	"ENSP00000285871"	"Q8IYE0"	"Q7Z4Q3"	"UPI000020F44F"	"NM_020879.2"	NA	NA	""	"17/18"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAAGA"	"6b250cc4-06e7-11e6-982c-ec0940ad6167"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.1375	"WGS"	FALSE
"15491"	"RN7SL7P"	0	"mskcc.org"	"GRCh37"	"7"	92605462	92605464	"+"	"5'Flank"	"DEL"	"CTC"	"CTC"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"CTC"	"CTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000467823"	""	83	"."	16	48	"."	0	"RN7SL7P,upstream_gene_variant,,ENST00000467823,;"	"-"	"ENSG00000266794"	"ENST00000467823"	"Transcript"	"upstream_gene_variant"	"-/296"	""	""	""	""	""	"1"	"4849"	-1	"RN7SL7P"	"HGNC"	10042	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCTCC"	"d10fafd0-06e7-11e6-982c-ec0940ad6167"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.192771084337349	"WGS"	FALSE
"15492"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	119315053	119315053	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"."	7	47	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"7d5596ec-06e8-11e6-982c-ec0940ad6167"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0843373493975904	"WGS"	FALSE
"15493"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	131484090	131484091	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"."	27	66	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"ef4a829a-06ec-11e6-982c-ec0940ad6167"	"1620"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.267326732673267	"WGS"	FALSE
"15494"	"TRBV8-1"	0	"mskcc.org"	"GRCh37"	"7"	142274301	142274302	"+"	"5'Flank"	"INS"	"-"	"-"	"C"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000481590"	""	106	"."	31	58	"."	0	"TRBV8-1,upstream_gene_variant,,ENST00000481590,;"	"C"	"ENSG00000243889"	"ENST00000481590"	"Transcript"	"upstream_gene_variant"	"-/279"	""	""	""	""	""	"1"	"967"	-1	"TRBV8-1"	"HGNC"	12244	"TR_V_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"2f8f75fe-06ed-11e6-982c-ec0940ad6167"	"1860"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.292452830188679	"WGS"	FALSE
"15495"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	145206845	145206849	"+"	"IGR"	"DEL"	"TAATT"	"TAATT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TAATT"	"TAATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"."	20	39	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTAATTT"	"241205b0-06e9-11e6-982c-ec0940ad6167"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.208333333333333	"WGS"	FALSE
"15496"	"CNTNAP2"	26047	"mskcc.org"	"GRCh37"	"7"	146181574	146181576	"+"	"Intron"	"DEL"	"TCA"	"TCA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TCA"	"TCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.98-289786_98-289784delTCA"	""	""	"ENST00000361727"	""	100	"."	22	57	"."	0	"CNTNAP2,intron_variant,,ENST00000361727,NM_014141.5;"	"-"	"ENSG00000174469"	"ENST00000361727"	"Transcript"	"intron_variant"	"-/9894"	"-/3996"	"-/1331"	""	""	""	"1"	NA	1	"CNTNAP2"	"HGNC"	13830	"protein_coding"	"YES"	"CCDS5889.1"	"ENSP00000354778"	"Q9UHC6"	"Q9UDV4,Q96T77,Q86UL9,Q86UL6,Q86UL4,Q86UJ1,Q86UI8,Q75MQ9,Q75MF8,Q75MF6,Q75MD4,Q75MA1,Q75M92,Q75LG9,O75852,B7Z1Y6"	"UPI00001285FA"	"NM_014141.5"	NA	NA	""	"1/23"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATTCAT"	"29fbacce-06e9-11e6-982c-ec0940ad6167"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.22	"WGS"	FALSE
"15497"	"EZH2"	2146	"mskcc.org"	"GRCh37"	"7"	148563648	148563649	"+"	"Intron"	"INS"	"-"	"-"	"TATATACATATATATACG"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-8+17590_-8+17607dupCGTATATATATGTATATA"	""	""	"ENST00000320356"	""	112	"."	6	46	"."	0	"EZH2,intron_variant,,ENST00000320356,NM_004456.4,NM_001203248.1,NM_001203247.1;EZH2,intron_variant,,ENST00000460911,;EZH2,intron_variant,,ENST00000476773,NM_001203249.1;EZH2,intron_variant,,ENST00000478654,;EZH2,intron_variant,,ENST00000350995,NM_152998.2;EZH2,intron_variant,,ENST00000541220,;EZH2,intron_variant,,ENST00000483967,;EZH2,intron_variant,,ENST00000536783,;EZH2,intron_variant,,ENST00000492143,;EZH2,intron_variant,,ENST00000498186,;EZH2,intron_variant,,ENST00000483012,;"	"TATATACATATATATACG"	"ENSG00000106462"	"ENST00000320356"	"Transcript"	"intron_variant"	"-/2639"	"-/2256"	"-/751"	""	""	""	"1"	NA	-1	"EZH2"	"HGNC"	3527	"protein_coding"	"YES"	"CCDS5891.1"	"ENSP00000320147"	"Q15910"	"Q75MQ0,Q6R125"	"UPI000006D77C"	"NM_004456.4,NM_001203248.1,NM_001203247.1"	NA	NA	""	"1/19"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"51d6b3ac-06ed-11e6-982c-ec0940ad6167"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0535714285714286	"WGS"	TRUE
"15498"	"TUSC3"	7991	"mskcc.org"	"GRCh37"	"8"	15506234	15506235	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.309-1948_309-1941dupAAAAAAAA"	""	""	"ENST00000503731"	""	110	"."	5	47	"."	0	"TUSC3,intron_variant,,ENST00000382020,NM_178234.2;TUSC3,intron_variant,,ENST00000506802,;TUSC3,intron_variant,,ENST00000503731,NM_006765.3;TUSC3,intron_variant,,ENST00000509380,;TUSC3,intron_variant,,ENST00000511783,;TUSC3,intron_variant,,ENST00000503191,;TUSC3,intron_variant,,ENST00000507400,;TUSC3,intron_variant,,ENST00000515859,;TUSC3,intron_variant,,ENST00000510836,;TUSC3,intron_variant,,ENST00000509177,;"	"AAAAAAAA"	"ENSG00000104723"	"ENST00000503731"	"Transcript"	"intron_variant"	"-/1498"	"-/1047"	"-/348"	""	""	""	"1"	NA	1	"TUSC3"	"HGNC"	30242	"protein_coding"	"YES"	"CCDS5994.1"	"ENSP00000424544"	"Q13454"	"Q6Q320"	"UPI000012FC21"	"NM_006765.3"	NA	NA	""	"2/10"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"31"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"2d6cf4e2-06f0-11e6-bcc1-f387f1e9c59c"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0454545454545455	"WGS"	FALSE
"15499"	"UNC5D"	137970	"mskcc.org"	"GRCh37"	"8"	35128910	35128946	"+"	"Intron"	"DEL"	"TGCACGTGTGTATGTATATGTATACACACACATATGT"	"TGCACGTGTGTATGTATATGTATACACACACATATGT"	"CGTGCACGTGTGTATGTATATGTACACACATGCAC"	"novel"	NA	"JHRCC396"	"W0006118F"	"TGCACGTGTGTATGTATATGTATACACACACATATGT"	"TGCACGTGTGTATGTATATGTATACACACACATATGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103+35505_103+35541delTGCACGTGTGTATGTATATGTATACACACACATATGTinsCGTGCACGTGTGTATGTATATGTACACACATGCAC"	""	""	"ENST00000404895"	""	51	"."	5	24	"."	0	"UNC5D,intron_variant,,ENST00000287272,;UNC5D,intron_variant,,ENST00000416672,;UNC5D,intron_variant,,ENST00000404895,NM_080872.2;UNC5D,intron_variant,,ENST00000420357,;"	"CGTGCACGTGTGTATGTATATGTACACACATGCAC"	"ENSG00000156687"	"ENST00000404895"	"Transcript"	"intron_variant"	"-/3252"	"-/2862"	"-/953"	""	""	""	"1"	NA	1	"UNC5D"	"HGNC"	18634	"protein_coding"	"YES"	"CCDS6093.2"	"ENSP00000385143"	"Q6UXZ4"	""	"UPI00001D6915"	"NM_080872.2"	NA	NA	""	"1/16"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATGCACGTGTGTATGTATATGTATACACACACATATGTG"	"4876e168-06ef-11e6-bcc1-f387f1e9c59c"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0980392156862745	"WGS"	FALSE
"15500"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	47926674	47926692	"+"	"IGR"	"DEL"	"AAAAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAAAA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AAAAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"."	5	36	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAAAAAAAAAAAAAAAAAAAA"	"6c6a210e-06ed-11e6-bcc1-f387f1e9c59c"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0602409638554217	"WGS"	FALSE
"15501"	"TGS1"	96764	"mskcc.org"	"GRCh37"	"8"	56721086	56721086	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"rs544818153"	NA	"JHRCC396"	"W0006118F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2144-2354delG"	""	""	"ENST00000260129"	""	99	"."	6	39	"."	0	"TGS1,intron_variant,,ENST00000260129,NM_024831.6;TGS1,intron_variant,,ENST00000523948,;"	"-"	"ENSG00000137574"	"ENST00000260129"	"Transcript"	"intron_variant"	"-/3782"	"-/2562"	"-/853"	""	""	"rs544818153"	"1"	NA	1	"TGS1"	"HGNC"	17843	"protein_coding"	"YES"	"CCDS34894.1"	"ENSP00000260129"	"Q96RS0"	""	"UPI0000DBEF24"	"NM_024831.6"	NA	NA	""	"10/12"	""	"-:0.0006"	"-:0"	"-:0"	NA	"-:0.001"	"-:0"	"-:0.002"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"8fbbd472-06ed-11e6-bcc1-f387f1e9c59c"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0606060606060606	"WGS"	FALSE
"15502"	"RP11-159H10.3"	101929759	"mskcc.org"	"GRCh37"	"8"	70763490	70763498	"+"	"Intron"	"DEL"	"CTTAAACAA"	"CTTAAACAA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"CTTAAACAA"	"CTTAAACAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.272+947_272+955delTTAAACAAC"	""	""	"ENST00000530194"	""	73	"."	10	53	"."	0	"RP11-159H10.3,intron_variant,,ENST00000530194,;RP11-159H10.3,downstream_gene_variant,,ENST00000533300,;"	"-"	"ENSG00000246528"	"ENST00000530194"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/572"	""	""	""	""	""	"1"	NA	1	"RP11-159H10.3"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"2/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCTTAAACAAC"	"ce7345d8-06ed-11e6-bcc1-f387f1e9c59c"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.136986301369863	"WGS"	FALSE
"15503"	"UBE2W"	55284	"mskcc.org"	"GRCh37"	"8"	74717707	74717708	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAAAAAAACAAACAAAAAAAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.562+178_562+179insTTTTTTTTGTTTGTTTTTTTTTTTTT"	""	""	"ENST00000419880"	""	71	"."	5	44	"."	0	"UBE2W,intron_variant,,ENST00000517608,NM_018299.4;UBE2W,intron_variant,,ENST00000602969,;UBE2W,intron_variant,,ENST00000602593,;UBE2W,intron_variant,,ENST00000419880,NM_001001481.2;UBE2W,intron_variant,,ENST00000453587,NM_001271015.1;UBE2W,intron_variant,,ENST00000523278,;UBE2W,intron_variant,,ENST00000422906,;RP11-463D19.2,intron_variant,,ENST00000358757,;UBE2W,intron_variant,,ENST00000519277,;UBE2W,intron_variant,,ENST00000519255,;"	"AAAAAAAAAAAAACAAACAAAAAAAA"	"ENSG00000104343"	"ENST00000419880"	"Transcript"	"intron_variant"	"-/2315"	"-/576"	"-/191"	""	""	""	"1"	NA	-1	"UBE2W"	"HGNC"	25616	"protein_coding"	"YES"	"CCDS47875.2"	"ENSP00000397453"	""	""	"UPI00027B2CEB"	"NM_001001481.2"	NA	NA	""	"6/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"52903e72-06f1-11e6-bcc1-f387f1e9c59c"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0704225352112676	"WGS"	FALSE
"15504"	"CA3"	761	"mskcc.org"	"GRCh37"	"8"	86356904	86356905	"+"	"Intron"	"DEL"	"AT"	"AT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.445-480_445-479delTA"	""	""	"ENST00000285381"	""	100	"."	15	50	"."	0	"CA3,intron_variant,,ENST00000285381,NM_005181.3;CA3,downstream_gene_variant,,ENST00000520921,;RP11-317J10.2,intron_variant,,ENST00000521761,;RP11-317J10.2,intron_variant,,ENST00000517697,;CA3,downstream_gene_variant,,ENST00000522207,;"	"-"	"ENSG00000164879"	"ENST00000285381"	"Transcript"	"intron_variant"	"-/1753"	"-/783"	"-/260"	""	""	""	"1"	NA	1	"CA3"	"HGNC"	1374	"protein_coding"	"YES"	"CCDS6238.1"	"ENSP00000285381"	"P07451"	"E5RHI4"	"UPI0000049C1A"	"NM_005181.3"	NA	NA	""	"4/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATA"	"1798ac76-06ee-11e6-bcc1-f387f1e9c59c"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.15	"WGS"	FALSE
"15505"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	98453091	98453091	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"."	10	59	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAA"	"5167778e-06ee-11e6-bcc1-f387f1e9c59c"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.108695652173913	"WGS"	FALSE
"15506"	"OXR1"	55074	"mskcc.org"	"GRCh37"	"8"	107569822	107569823	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.223+38457dupA"	""	""	"ENST00000442977"	""	93	"."	20	60	"."	0	"OXR1,intron_variant,,ENST00000445937,NM_018002.3;OXR1,intron_variant,,ENST00000517566,NM_001198533.1;OXR1,intron_variant,,ENST00000452423,;OXR1,intron_variant,,ENST00000531443,;OXR1,intron_variant,,ENST00000442977,NM_001198532.1;RP11-649G15.2,intron_variant,,ENST00000518591,;"	"A"	"ENSG00000164830"	"ENST00000442977"	"Transcript"	"intron_variant"	"-/2956"	"-/2625"	"-/874"	""	""	""	"1"	NA	1	"OXR1"	"HGNC"	15822	"protein_coding"	"YES"	"CCDS56548.1"	"ENSP00000405424"	"Q8N573"	"E9PLW2"	"UPI0001914BEA"	"NM_001198532.1"	NA	NA	""	"2/15"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"d35a86a2-06f1-11e6-bcc1-f387f1e9c59c"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.21505376344086	"WGS"	FALSE
"15507"	"FER1L6"	654463	"mskcc.org"	"GRCh37"	"8"	124986899	124986900	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.527-473_527-468dupAAAAAA"	""	""	"ENST00000522917"	""	110	"."	8	55	"."	0	"FER1L6,intron_variant,,ENST00000522917,NM_001039112.2;FER1L6,intron_variant,,ENST00000399018,;"	"AAAAAA"	"ENSG00000214814"	"ENST00000522917"	"Transcript"	"intron_variant"	"-/6051"	"-/5574"	"-/1857"	""	""	""	"1"	NA	1	"FER1L6"	"HGNC"	28065	"protein_coding"	"YES"	"CCDS43767.1"	"ENSP00000428280"	"Q2WGJ9"	""	"UPI0000E9B4AA"	"NM_001039112.2"	NA	NA	""	"7/40"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"23"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"1704ad10-06f2-11e6-bcc1-f387f1e9c59c"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0727272727272727	"WGS"	FALSE
"15508"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	144191000	144191001	"+"	"IGR"	"DEL"	"AG"	"AG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AG"	"AG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	64	"."	6	35	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAGG"	"2a3304de-06ef-11e6-bcc1-f387f1e9c59c"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.09375	"WGS"	FALSE
"15509"	"TSTA3"	7264	"mskcc.org"	"GRCh37"	"8"	144701317	144701318	"+"	"5'Flank"	"INS"	"-"	"-"	"AAAAAAAAAAAAAAAAAAAAAAAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000425753"	""	87	"."	6	41	"."	0	"TSTA3,upstream_gene_variant,,ENST00000425753,NM_003313.3;TSTA3,upstream_gene_variant,,ENST00000529064,;TSTA3,upstream_gene_variant,,ENST00000533817,;TSTA3,upstream_gene_variant,,ENST00000529048,;TSTA3,upstream_gene_variant,,ENST00000526290,;TSTA3,upstream_gene_variant,,ENST00000527006,;TSTA3,upstream_gene_variant,,ENST00000531473,;TSTA3,upstream_gene_variant,,ENST00000528920,;TSTA3,upstream_gene_variant,,ENST00000532308,;TSTA3,upstream_gene_variant,,ENST00000531006,;TSTA3,upstream_gene_variant,,ENST00000530474,;TSTA3,upstream_gene_variant,,ENST00000525274,;TSTA3,upstream_gene_variant,,ENST00000527549,;TSTA3,upstream_gene_variant,,ENST00000529899,;"	"AAAAAAAAAAAAAAAAAAAAAAAA"	"ENSG00000104522"	"ENST00000425753"	"Transcript"	"upstream_gene_variant"	"-/1362"	"-/966"	"-/321"	""	""	""	"1"	"1581"	-1	"TSTA3"	"HGNC"	12390	"protein_coding"	"YES"	"CCDS6408.1"	"ENSP00000398803"	"Q13630"	"E9PP14,E9PLH9,E9PKL9"	"UPI000012A5A5"	"NM_003313.3"	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"65fc1c8c-06f2-11e6-bcc1-f387f1e9c59c"	"356"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0689655172413793	"WGS"	FALSE
"15510"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	12045062	12045063	"+"	"IGR"	"DEL"	"TA"	"TA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"."	5	56	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTAT"	"77683b48-06e5-11e6-a293-dce09ae89ce5"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0595238095238095	"WGS"	FALSE
"15511"	"ADAMTSL1"	92949	"mskcc.org"	"GRCh37"	"9"	18655826	18655836	"+"	"Intron"	"DEL"	"AAAAAAAAAAG"	"AAAAAAAAAAG"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AAAAAAAAAAG"	"AAAAAAAAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.835-1809_835-1799delAAAAAAAAGAA"	""	""	"ENST00000380548"	""	91	"."	5	59	"."	0	"ADAMTSL1,intron_variant,,ENST00000380548,NM_001040272.5;ADAMTSL1,intron_variant,,ENST00000276935,;ADAMTSL1,intron_variant,,ENST00000380566,;ADAMTSL1,intron_variant,,ENST00000327883,NM_052866.4;RN7SKP258,downstream_gene_variant,,ENST00000517151,;ADAMTSL1,upstream_gene_variant,,ENST00000546040,;"	"-"	"ENSG00000178031"	"ENST00000380548"	"Transcript"	"intron_variant"	"-/8030"	"-/5289"	"-/1762"	""	""	""	"1"	NA	1	"ADAMTSL1"	"HGNC"	14632	"protein_coding"	"YES"	"CCDS47954.1"	"ENSP00000369921"	"Q8N6G6"	"H7BYE3"	"UPI000004FD83"	"NM_001040272.5"	NA	NA	""	"7/28"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAAAAAAAGA"	"a88dd804-06e5-11e6-a293-dce09ae89ce5"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0549450549450549	"WGS"	FALSE
"15512"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	22295636	22295683	"+"	"IGR"	"DEL"	"AAGATGCTTGATATTATTTAAATTTTTTGAATGTTTTAAGGCTTGTTT"	"AAGATGCTTGATATTATTTAAATTTTTTGAATGTTTTAAGGCTTGTTT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AAGATGCTTGATATTATTTAAATTTTTTGAATGTTTTAAGGCTTGTTT"	"AAGATGCTTGATATTATTTAAATTTTTTGAATGTTTTAAGGCTTGTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"."	18	52	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAGATGCTTGATATTATTTAAATTTTTTGAATGTTTTAAGGCTTGTTTT"	"c0e69986-06e5-11e6-a293-dce09ae89ce5"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.2	"WGS"	FALSE
"15513"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"9"	67765517	67765519	"+"	"3'Flank"	"DEL"	"CTT"	"CTT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"CTT"	"CTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000362562"	""	83	"."	6	41	"."	0	"Y_RNA,downstream_gene_variant,,ENST00000362562,;"	"-"	"ENSG00000199432"	"ENST00000362562"	"Transcript"	"downstream_gene_variant"	"-/112"	""	""	""	""	""	"1"	"884"	1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACCTTC"	"999c4136-06e6-11e6-a293-dce09ae89ce5"	"100"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.072289156626506	"WGS"	FALSE
"15514"	"CBWD6"	644019	"mskcc.org"	"GRCh37"	"9"	69254217	69254223	"+"	"Intron"	"DEL"	"GTATATC"	"GTATATC"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"GTATATC"	"GTATATC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.430+1381_430+1387delGATATAC"	""	""	"ENST00000377457"	""	130	"."	11	79	"."	0	"CBWD6,intron_variant,,ENST00000377457,NM_001085457.1;CBWD6,intron_variant,,ENST00000377449,;CBWD6,intron_variant,,ENST00000382399,;BX255923.1,downstream_gene_variant,,ENST00000354995,;CBWD6,downstream_gene_variant,,ENST00000377441,;CBWD6,downstream_gene_variant,,ENST00000377439,;CBWD6,intron_variant,,ENST00000495626,;CBWD6,intron_variant,,ENST00000466320,;CBWD6,intron_variant,,ENST00000476973,;CBWD6,upstream_gene_variant,,ENST00000461037,;CBWD6,upstream_gene_variant,,ENST00000468763,;CBWD6,downstream_gene_variant,,ENST00000470192,;CBWD6,downstream_gene_variant,,ENST00000480351,;CBWD6,intron_variant,,ENST00000377445,;"	"-"	"ENSG00000204790"	"ENST00000377457"	"Transcript"	"intron_variant"	"-/1719"	"-/1188"	"-/395"	""	""	""	"1"	NA	-1	"CBWD6"	"HGNC"	31978	"protein_coding"	"YES"	"CCDS43827.1"	"ENSP00000366677"	"Q4V339"	"S4R432,Q9HAZ6,Q5RIB5"	"UPI0000519163"	"NM_001085457.1"	NA	NA	""	"4/14"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGTATATCA"	"b802adea-06e6-11e6-a293-dce09ae89ce5"	"298"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0846153846153846	"WGS"	FALSE
"15515"	"GNA14"	9630	"mskcc.org"	"GRCh37"	"9"	80108372	80108373	"+"	"Intron"	"INS"	"-"	"-"	"TA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.309+35611_309+35612dupTA"	""	""	"ENST00000341700"	""	97	"."	23	48	"."	0	"GNA14,intron_variant,,ENST00000341700,NM_004297.3;RP11-466A17.1,intron_variant,,ENST00000439145,;"	"TA"	"ENSG00000156049"	"ENST00000341700"	"Transcript"	"intron_variant"	"-/2482"	"-/1068"	"-/355"	""	""	""	"1"	NA	-1	"GNA14"	"HGNC"	4382	"protein_coding"	"YES"	"CCDS6657.1"	"ENSP00000365807"	"O95837"	"B1ALW3"	"UPI000004D20C"	"NM_004297.3"	NA	NA	""	"2/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"eb779c4a-06ea-11e6-a293-dce09ae89ce5"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.237113402061856	"WGS"	FALSE
"15516"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	82113299	82113300	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"."	5	55	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"f92a711e-06ea-11e6-a293-dce09ae89ce5"	"57"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0476190476190476	"WGS"	FALSE
"15517"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	87738403	87738404	"+"	"IGR"	"DEL"	"AT"	"AT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"AT"	"AT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"."	28	74	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATA"	"4f380e76-06e7-11e6-a293-dce09ae89ce5"	"1680"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.259259259259259	"WGS"	FALSE
"15518"	"RP11-436F21.1"	0	"mskcc.org"	"GRCh37"	"9"	106152491	106152516	"+"	"Intron"	"DEL"	"ATGTATATGTATATATATACACACAT"	"ATGTATATGTATATATATACACACAT"	"-"	"rs201615044"	NA	"JHRCC396"	"W0006118F"	"ATGTATATGTATATATATACACACAT"	"ATGTATATGTATATATATACACACAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.111-25172_111-25147delATGTGTGTATATATATACATATACAT"	""	""	"ENST00000421507"	""	103	"."	7	51	"."	0	"RP11-436F21.1,intron_variant,,ENST00000421507,;"	"-"	"ENSG00000226566"	"ENST00000421507"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/526"	""	""	""	""	"rs201615044"	"1"	NA	-1	"RP11-436F21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACATGTATATGTATATATATACACACATG"	"cf390166-06e7-11e6-a293-dce09ae89ce5"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0679611650485437	"WGS"	FALSE
"15519"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	120499295	120499296	"+"	"IGR"	"DEL"	"TT"	"TT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	61	"."	8	45	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTTT"	"3f7c5360-06e8-11e6-a293-dce09ae89ce5"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.131147540983607	"WGS"	FALSE
"15520"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	122913723	122913725	"+"	"IGR"	"DEL"	"TAT"	"TAT"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TAT"	"TAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"."	16	57	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATATG"	"4f7921f8-06e8-11e6-a293-dce09ae89ce5"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.170212765957447	"WGS"	FALSE
"15521"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	126875059	126875075	"+"	"IGR"	"DEL"	"AAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAA"	"-"	"rs538356010"	NA	"JHRCC396"	"W0006118F"	"AAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"."	6	33	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs538356010"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAAAAAAAAAAAAAAAAA"	"69c4dc50-06e8-11e6-a293-dce09ae89ce5"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0869565217391304	"WGS"	FALSE
"15522"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	138038442	138038442	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"."	8	39	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGCC"	"cd4b63f2-06e8-11e6-a293-dce09ae89ce5"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.115942028985507	"WGS"	FALSE
"15523"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1728626	1728694	"+"	"IGR"	"DEL"	"TGTCCCCTACTCCAGCCAAAGCTCCAGGCCGCCCCTGCCCCTACTCCAGCCAAAGCTCCAGGCCACCCC"	"TGTCCCCTACTCCAGCCAAAGCTCCAGGCCGCCCCTGCCCCTACTCCAGCCAAAGCTCCAGGCCACCCC"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"TGTCCCCTACTCCAGCCAAAGCTCCAGGCCGCCCCTGCCCCTACTCCAGCCAAAGCTCCAGGCCACCCC"	"TGTCCCCTACTCCAGCCAAAGCTCCAGGCCGCCCCTGCCCCTACTCCAGCCAAAGCTCCAGGCCACCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	31	"."	5	11	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGTGTCCCCTACTCCAGCCAAAGCTCCAGGCCGCCCCTGCCCCTACTCCAGCCAAAGCTCCAGGCCACCCCT"	"3a8abde0-06e5-11e6-9650-cf08805f2622"	"236"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.161290322580645	"WGS"	FALSE
"15524"	"GPM6B"	2824	"mskcc.org"	"GRCh37"	"X"	13805160	13805161	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAA"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.182-1240_182-1234dupTTTTTTT"	""	""	"ENST00000316715"	""	66	"."	5	31	"."	0	"GPM6B,intron_variant,,ENST00000454189,NM_001001994.1;GPM6B,intron_variant,,ENST00000316715,NM_001001995.1;GPM6B,intron_variant,,ENST00000356942,NM_005278.3;GPM6B,intron_variant,,ENST00000355135,NM_001001996.1;GPM6B,intron_variant,,ENST00000493677,;GPM6B,intron_variant,,ENST00000398361,;GPM6B,intron_variant,,ENST00000475307,;GPM6B,intron_variant,,ENST00000468080,;GPM6B,intron_variant,,ENST00000493085,;GPM6B,upstream_gene_variant,,ENST00000495211,;"	"AAAAAAA"	"ENSG00000046653"	"ENST00000316715"	"Transcript"	"intron_variant"	"-/3275"	"-/987"	"-/328"	""	""	""	"1"	NA	-1	"GPM6B"	"HGNC"	4461	"protein_coding"	"YES"	"CCDS35206.1"	"ENSP00000316861"	"Q13491"	"C9JZE8,C9J8H8,B7Z613"	"UPI00000721CA"	"NM_001001995.1"	NA	NA	""	"2/7"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"00841748-06e7-11e6-9650-cf08805f2622"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0757575757575758	"WGS"	FALSE
"15525"	"MUM1L1"	139221	"mskcc.org"	"GRCh37"	"X"	105435624	105435625	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-400-12352dupA"	""	""	"ENST00000337685"	""	50	"."	5	33	"."	0	"MUM1L1,intron_variant,,ENST00000337685,NM_152423.4;MUM1L1,intron_variant,,ENST00000357175,NM_001171020.1;"	"A"	"ENSG00000157502"	"ENST00000337685"	"Transcript"	"intron_variant"	"-/4308"	"-/2091"	"-/696"	""	""	""	"1"	NA	1	"MUM1L1"	"HGNC"	26583	"protein_coding"	"YES"	"CCDS55469.1"	"ENSP00000338641"	"Q5H9M0"	""	"UPI0000212206"	"NM_152423.4"	NA	NA	""	"3/4"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"6a23f54c-06e7-11e6-9650-cf08805f2622"	"56"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.1	"WGS"	FALSE
"15526"	"XIAP"	331	"mskcc.org"	"GRCh37"	"X"	123006109	123006111	"+"	"Intron"	"DEL"	"GAA"	"GAA"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"GAA"	"GAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-33+11714_-33+11716delGAA"	""	""	"ENST00000355640"	""	48	"."	22	24	"."	0	"XIAP,intron_variant,,ENST00000371199,NM_001167.3;XIAP,intron_variant,,ENST00000355640,;XIAP,intron_variant,,ENST00000434753,NM_001204401.1;XIAP,intron_variant,,ENST00000430625,;XIAP,intron_variant,,ENST00000422098,;RNU6-122P,upstream_gene_variant,,ENST00000516818,;XIAP-AS1,downstream_gene_variant,,ENST00000458331,;XIAP,intron_variant,,ENST00000468691,;XIAP,intron_variant,,ENST00000481776,;XIAP,intron_variant,,ENST00000497640,;XIAP,intron_variant,,ENST00000497906,;XIAP,intron_variant,,ENST00000468503,;"	"-"	"ENSG00000101966"	"ENST00000355640"	"Transcript"	"intron_variant"	"-/8584"	"-/1494"	"-/497"	""	""	""	"1"	NA	1	"XIAP"	"HGNC"	592	"protein_coding"	""	"CCDS14606.1"	"ENSP00000347858"	"P98170"	"B1AKU2"	"UPI000000162A"	""	NA	NA	""	"1/6"	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATGAAC"	"8e394ca8-06e6-11e6-9650-cf08805f2622"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.458333333333333	"WGS"	FALSE
"15527"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	125798880	125798881	"+"	"IGR"	"INS"	"-"	"-"	"TTTTTTTTT"	"novel"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	50	"."	5	23	"."	0	""	"TTTTTTTTT"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"83c9a384-06e7-11e6-9650-cf08805f2622"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.1	"WGS"	FALSE
"15528"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	136531410	136531410	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"JHRCC396"	"W0006118F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"."	11	27	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTC"	"a04e54f6-06e6-11e6-9650-cf08805f2622"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.289473684210526	"WGS"	FALSE
"15529"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	13289268	13289269	"+"	"IGR"	"INS"	"-"	"-"	"C"	"rs375732634"	NA	"JHRCC396"	"W0006118F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"."	5	22	"."	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs375732634"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	""	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"2a379a9a-06e9-11e6-b8a7-a1a210b9e1be"	"173"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.102040816326531	"WGS"	FALSE
"15530"	"C1orf159"	54991	"mskcc.org"	"GRCh37"	"1"	1032964	1032964	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-135-5481T>A"	""	""	"ENST00000421241"	""	62	"57"	5	41	"41"	0	"C1orf159,intron_variant,,ENST00000448924,;C1orf159,intron_variant,,ENST00000294576,;C1orf159,intron_variant,,ENST00000379339,;C1orf159,intron_variant,,ENST00000421241,NM_017891.4;C1orf159,intron_variant,,ENST00000379319,;C1orf159,intron_variant,,ENST00000437760,;C1orf159,intron_variant,,ENST00000434641,;C1orf159,intron_variant,,ENST00000462097,;C1orf159,intron_variant,,ENST00000475119,;C1orf159,intron_variant,,ENST00000480643,;C1orf159,upstream_gene_variant,,ENST00000427787,;C1orf159,upstream_gene_variant,,ENST00000442117,;C1orf159,intron_variant,,ENST00000482816,;C1orf159,intron_variant,,ENST00000477196,;C1orf159,intron_variant,,ENST00000467751,;C1orf159,intron_variant,,ENST00000379325,;C1orf159,intron_variant,,ENST00000472741,;"	"T"	"ENSG00000131591"	"ENST00000421241"	"Transcript"	"intron_variant"	"-/1841"	"-/597"	"-/198"	""	""	""	"1"	NA	-1	"C1orf159"	"HGNC"	26062	"protein_coding"	"YES"	"CCDS7.2"	"ENSP00000400736"	"Q96HA4"	"J3QRL0,J3KSJ6,B2REC4"	"UPI0000049DAC"	"NM_017891.4"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"756c3666-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WGS"	FALSE
"15531"	"ATAD3C"	219293	"mskcc.org"	"GRCh37"	"1"	1386162	1386162	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.75+24G>T"	""	""	"ENST00000378785"	""	66	"58"	8	49	"49"	0	"ATAD3C,intron_variant,,ENST00000378785,NM_001039211.2;ATAD3C,intron_variant,,ENST00000475091,;"	"T"	"ENSG00000215915"	"ENST00000378785"	"Transcript"	"intron_variant"	"-/3859"	"-/1236"	"-/411"	""	""	""	"1"	NA	1	"ATAD3C"	"HGNC"	32151	"protein_coding"	"YES"	"CCDS44039.1"	"ENSP00000368062"	"Q5T2N8"	""	"UPI00001619C0"	"NM_001039211.2"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"756c61cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"15532"	"GNB1"	2782	"mskcc.org"	"GRCh37"	"1"	1718489	1718489	"+"	"3'UTR"	"SNP"	"C"	"C"	"T"	"rs551941917"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*13G>A"	""	""	"ENST00000378609"	"12/12"	65	"59"	6	56	"56"	0	"GNB1,3_prime_UTR_variant,,ENST00000378609,NM_002074.3,NM_001282539.1;GNB1,downstream_gene_variant,,ENST00000439272,;GNB1,downstream_gene_variant,,ENST00000461893,;GNB1,downstream_gene_variant,,ENST00000471354,;"	"T"	"ENSG00000078369"	"ENST00000378609"	"Transcript"	"3_prime_UTR_variant"	"1368/3128"	"-/1023"	"-/340"	""	""	"rs551941917"	"1"	NA	-1	"GNB1"	"HGNC"	4396	"protein_coding"	"YES"	"CCDS34.1"	"ENSP00000367872"	"P62873"	"Q71UM7,Q71UM6,F6UT28,B3KVK2,B1AKQ8"	"UPI00000230B3"	"NM_002074.3,NM_001282539.1"	""	""	"12/12"	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"756c80ee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"15533"	"MEGF6"	1953	"mskcc.org"	"GRCh37"	"1"	3503313	3503313	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.377-6820G>A"	""	""	"ENST00000356575"	""	93	"70"	23	65	"65"	0	"MEGF6,intron_variant,,ENST00000356575,NM_001409.3;MEGF6,intron_variant,,ENST00000485002,;"	"T"	"ENSG00000162591"	"ENST00000356575"	"Transcript"	"intron_variant"	"-/5455"	"-/4626"	"-/1541"	""	""	""	"1"	NA	-1	"MEGF6"	"HGNC"	3232	"protein_coding"	"YES"	"CCDS41237.1"	"ENSP00000348982"	"O75095"	""	"UPI0000DACACB"	"NM_001409.3"	""	""	""	"3/36"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"756db446-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247311827956989	"WGS"	FALSE
"15534"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	4266502	4266502	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"97"	8	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"756dff32-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0761904761904762	"WGS"	FALSE
"15535"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	4379013	4379013	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"52"	19	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"756e043c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267605633802817	"WGS"	FALSE
"15536"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	4892653	4892653	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"79"	16	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"756e2bba-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168421052631579	"WGS"	FALSE
"15537"	"NPHP4"	261734	"mskcc.org"	"GRCh37"	"1"	6018432	6018432	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.673+3422C>T"	""	""	"ENST00000378156"	""	80	"58"	22	54	"54"	0	"NPHP4,intron_variant,,ENST00000378156,NM_015102.3;NPHP4,intron_variant,,ENST00000478423,;NPHP4,intron_variant,,ENST00000489180,;NPHP4,intron_variant,,ENST00000378169,;"	"A"	"ENSG00000131697"	"ENST00000378156"	"Transcript"	"intron_variant"	"-/4994"	"-/4281"	"-/1426"	""	""	""	"1"	NA	-1	"NPHP4"	"HGNC"	19104	"protein_coding"	"YES"	"CCDS44052.1"	"ENSP00000367398"	"O75161"	""	"UPI00001303E5"	"NM_015102.3"	""	""	""	"6/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"756eadc4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275	"WGS"	FALSE
"15538"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	6827325	6827325	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	53	"49"	4	32	"32"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"756ed3a8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0754716981132075	"WGS"	FALSE
"15539"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	6827329	6827329	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"49"	5	33	"33"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"756ed416-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0925925925925926	"WGS"	FALSE
"15540"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	7946248	7946248	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"35"	14	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"756f1d40-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"15541"	"PIK3CD"	5293	"mskcc.org"	"GRCh37"	"1"	9772100	9772100	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs547085349"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.141+1446G>A"	""	""	"ENST00000377346"	""	51	"46"	5	50	"50"	0	"PIK3CD,intron_variant,,ENST00000536656,;PIK3CD,intron_variant,,ENST00000377346,NM_005026.3;PIK3CD,intron_variant,,ENST00000361110,;PIK3CD,upstream_gene_variant,,ENST00000479223,;PIK3CD,upstream_gene_variant,,ENST00000481137,;"	"A"	"ENSG00000171608"	"ENST00000377346"	"Transcript"	"intron_variant"	"-/5203"	"-/3135"	"-/1044"	""	""	"rs547085349"	"1"	NA	1	"PIK3CD"	"HGNC"	8977	"protein_coding"	"YES"	"CCDS104.1"	"ENSP00000366563"	"O00329"	"B7ZM44"	"UPI000013E807"	"NM_005026.3"	""	""	""	"3/23"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"756f8dca-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0980392156862745	"WGS"	FALSE
"15542"	"CTNNBIP1"	56998	"mskcc.org"	"GRCh37"	"1"	9915574	9915574	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.188-4740C>T"	""	""	"ENST00000377263"	""	62	"51"	11	63	"63"	0	"CTNNBIP1,intron_variant,,ENST00000377263,NM_001012329.1,NM_020248.2;CTNNBIP1,intron_variant,,ENST00000537447,;CTNNBIP1,intron_variant,,ENST00000400904,;CTNNBIP1,intron_variant,,ENST00000377258,;CTNNBIP1,intron_variant,,ENST00000377256,;"	"A"	"ENSG00000178585"	"ENST00000377263"	"Transcript"	"intron_variant"	"-/3000"	"-/246"	"-/81"	""	""	""	"1"	NA	-1	"CTNNBIP1"	"HGNC"	16913	"protein_coding"	"YES"	"CCDS106.1"	"ENSP00000366474"	"Q9NSA3"	""	"UPI0000073A39"	"NM_001012329.1,NM_020248.2"	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"756f97ac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.17741935483871	"WGS"	FALSE
"15543"	"MTOR"	2475	"mskcc.org"	"GRCh37"	"1"	11169524	11169524	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7448-97C>T"	""	""	"ENST00000361445"	""	58	"44"	14	45	"45"	0	"MTOR,intron_variant,,ENST00000361445,NM_004958.3;MTOR,intron_variant,,ENST00000376838,;MTOR,intron_variant,,ENST00000455339,;MTOR,intron_variant,,ENST00000490931,;MTOR,intron_variant,,ENST00000473471,;"	"A"	"ENSG00000198793"	"ENST00000361445"	"Transcript"	"intron_variant"	"-/8677"	"-/7650"	"-/2549"	""	""	""	"1"	NA	-1	"MTOR"	"HGNC"	3942	"protein_coding"	"YES"	"CCDS127.1"	"ENSP00000354558"	"P42345"	"Q96QW8,B1AKQ2,B1AKP8"	"UPI000012ABD3"	"NM_004958.3"	""	""	""	"55/57"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"756fc5e2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241379310344828	"WGS"	TRUE
"15544"	"PRAMEF2"	65122	"mskcc.org"	"GRCh37"	"1"	12923341	12923341	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000240189"	""	69	"60"	9	61	"61"	0	"PRAMEF2,downstream_gene_variant,,ENST00000240189,NM_023014.1;"	"A"	"ENSG00000120952"	"ENST00000240189"	"Transcript"	"downstream_gene_variant"	"-/1642"	"-/1425"	"-/474"	""	""	""	"1"	"1577"	1	"PRAMEF2"	"HGNC"	28841	"protein_coding"	"YES"	"CCDS149.1"	"ENSP00000240189"	"O60811"	""	"UPI0000139EF9"	"NM_023014.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75702564-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"15545"	"ENSR00000669059"	0	"mskcc.org"	"GRCh37"	"1"	16409501	16409501	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000669059"	""	72	"56"	16	56	"56"	0	""	"G"	""	"ENSR00000669059"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7570965c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"15546"	"RNU1-2"	6060	"mskcc.org"	"GRCh37"	"1"	17222214	17222214	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384278"	""	51	"46"	5	22	"22"	0	"RNU1-2,upstream_gene_variant,,ENST00000384278,NR_004427.1;CROCC,intron_variant,,ENST00000466256,;"	"A"	"ENSG00000207005"	"ENST00000384278"	"Transcript"	"upstream_gene_variant"	"-/164"	""	""	""	""	""	"1"	"261"	1	"RNU1-2"	"HGNC"	10123	"snRNA"	"YES"	""	""	""	""	""	"NR_004427.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7572542e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0980392156862745	"WGS"	FALSE
"15547"	"RP11-108M9.6"	0	"mskcc.org"	"GRCh37"	"1"	17231690	17231690	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000606899"	""	109	"96"	13	69	"69"	0	"RP11-108M9.6,upstream_gene_variant,,ENST00000606899,;CROCC,intron_variant,,ENST00000466256,;"	"T"	"ENSG00000272426"	"ENST00000606899"	"Transcript"	"upstream_gene_variant"	"-/438"	""	""	""	""	""	"1"	"419"	-1	"RP11-108M9.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"757267a2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119266055045872	"WGS"	FALSE
"15548"	"MFAP2"	4237	"mskcc.org"	"GRCh37"	"1"	17301657	17301657	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.448+107C>T"	""	""	"ENST00000375535"	""	78	"70"	8	50	"50"	0	"MFAP2,intron_variant,,ENST00000375535,;MFAP2,intron_variant,,ENST00000438542,NM_002403.3,NM_001135248.1;MFAP2,intron_variant,,ENST00000375534,NM_001135247.1,NM_017459.2;CROCC,downstream_gene_variant,,ENST00000375541,NM_014675.3;RP1-37C10.3,upstream_gene_variant,,ENST00000446261,;MFAP2,intron_variant,,ENST00000490075,;CROCC,downstream_gene_variant,,ENST00000465021,;CROCC,downstream_gene_variant,,ENST00000465291,;MFAP2,downstream_gene_variant,,ENST00000492598,;MFAP2,downstream_gene_variant,,ENST00000478684,;MFAP2,downstream_gene_variant,,ENST00000476788,;"	"A"	"ENSG00000117122"	"ENST00000375535"	"Transcript"	"intron_variant"	"-/1260"	"-/552"	"-/183"	""	""	""	"1"	NA	-1	"MFAP2"	"HGNC"	7033	"protein_coding"	"YES"	"CCDS174.1"	"ENSP00000364685"	"P55001"	""	"UPI000012F02C"	""	""	""	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"75727db4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"15549"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	20194465	20194465	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"56"	20	40	"40"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7572f4ec-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"15550"	"ENSR00000532324"	0	"mskcc.org"	"GRCh37"	"1"	22292163	22292163	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000532324"	""	42	"37"	5	35	"35"	0	""	"G"	""	"ENSR00000532324"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"75733e52-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"15551"	"RP1-224A6.3"	101928043	"mskcc.org"	"GRCh37"	"1"	22346314	22346314	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"rs367871705"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000455966"	""	43	"39"	4	37	"37"	0	"RP1-224A6.3,downstream_gene_variant,,ENST00000455966,;"	"C"	"ENSG00000228397"	"ENST00000455966"	"Transcript"	"downstream_gene_variant"	"-/615"	""	""	""	""	"rs367871705"	"1"	"4173"	-1	"RP1-224A6.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"757346e0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"15552"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	23986830	23986830	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	45	"39"	6	31	"31"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75737f3e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"15553"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	23989904	23989904	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"47"	4	32	"32"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75738010-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0784313725490196	"WGS"	FALSE
"15554"	"RHCE"	6007	"mskcc.org"	"GRCh37"	"1"	25726650	25726650	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.486+2437A>C"	""	""	"ENST00000294413"	""	68	"59"	9	44	"44"	0	"RHCE,intron_variant,,ENST00000349320,;RHCE,intron_variant,,ENST00000294413,NM_020485.4;RHCE,intron_variant,,ENST00000243186,;RHCE,intron_variant,,ENST00000374352,;RHCE,intron_variant,,ENST00000413854,;RHCE,intron_variant,,ENST00000425135,;RHCE,intron_variant,,ENST00000455194,;RHCE,intron_variant,,ENST00000349438,NM_138618.3;RHCE,intron_variant,,ENST00000340849,NM_138617.3;RHCE,intron_variant,,ENST00000346452,NM_138616.3;RHCE,intron_variant,,ENST00000527747,;RHCE,downstream_gene_variant,,ENST00000495048,;RHCE,intron_variant,,ENST00000527187,;RHCE,intron_variant,,ENST00000533771,;RP3-469D22.1,downstream_gene_variant,,ENST00000541879,;RP3-469D22.1,downstream_gene_variant,,ENST00000419297,;"	"G"	"ENSG00000188672"	"ENST00000294413"	"Transcript"	"intron_variant"	"-/1591"	"-/1254"	"-/417"	""	""	""	"1"	NA	-1	"RHCE"	"HGNC"	10008	"protein_coding"	"YES"	"CCDS30635.1"	"ENSP00000294413"	"P18577"	"Q9UP89,Q9UEC6,Q8NDV4,Q5UD29,D0AB04,D0AB03,B6ZCF8,B6ZCF7,A8YPS4"	"UPI00001D9627"	"NM_020485.4"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"7573d4a2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.132352941176471	"WGS"	FALSE
"15555"	"DNAJC8"	22826	"mskcc.org"	"GRCh37"	"1"	28547651	28547651	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.181-6144G>C"	""	""	"ENST00000263697"	""	44	"37"	7	34	"34"	0	"DNAJC8,intron_variant,,ENST00000263697,NM_014280.2;DNAJC8,intron_variant,,ENST00000489277,;DNAJC8,intron_variant,,ENST00000488868,;DNAJC8,intron_variant,,ENST00000482674,;"	"G"	"ENSG00000126698"	"ENST00000263697"	"Transcript"	"intron_variant"	"-/1480"	"-/762"	"-/253"	""	""	""	"1"	NA	-1	"DNAJC8"	"HGNC"	15470	"protein_coding"	"YES"	"CCDS41292.1"	"ENSP00000263697"	"O75937"	""	"UPI0000072BF3"	"NM_014280.2"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"75745d00-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.159090909090909	"WGS"	FALSE
"15556"	"RP5-1092A3.5"	0	"mskcc.org"	"GRCh37"	"1"	28578937	28578937	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000605846"	""	43	"33"	10	43	"43"	0	"RP5-1092A3.5,downstream_gene_variant,,ENST00000605846,;"	"A"	"ENSG00000271398"	"ENST00000605846"	"Transcript"	"downstream_gene_variant"	"-/425"	""	""	""	""	""	"1"	"4858"	1	"RP5-1092A3.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"75745d82-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232558139534884	"WGS"	FALSE
"15557"	"RP5-1092A3.5"	0	"mskcc.org"	"GRCh37"	"1"	28578938	28578938	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000605846"	""	45	"35"	10	43	"43"	0	"RP5-1092A3.5,downstream_gene_variant,,ENST00000605846,;"	"T"	"ENSG00000271398"	"ENST00000605846"	"Transcript"	"downstream_gene_variant"	"-/425"	""	""	""	""	""	"1"	"4859"	1	"RP5-1092A3.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75745e40-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"15558"	"ENSR00000533479"	0	"mskcc.org"	"GRCh37"	"1"	28641537	28641537	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000533479"	""	31	"24"	7	27	"27"	0	""	"A"	""	"ENSR00000533479"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"75745f80-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225806451612903	"WGS"	FALSE
"15559"	"SRSF4"	6429	"mskcc.org"	"GRCh37"	"1"	29492980	29492980	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.108-5951G>C"	""	""	"ENST00000373795"	""	75	"65"	10	36	"36"	0	"SRSF4,intron_variant,,ENST00000373795,NM_005626.4;SRSF4,intron_variant,,ENST00000546138,;SRSF4,intron_variant,,ENST00000466448,;SRSF4,intron_variant,,ENST00000472353,;SRSF4,intron_variant,,ENST00000605204,;"	"G"	"ENSG00000116350"	"ENST00000373795"	"Transcript"	"intron_variant"	"-/2387"	"-/1485"	"-/494"	""	""	""	"1"	NA	-1	"SRSF4"	"HGNC"	10786	"protein_coding"	"YES"	"CCDS333.1"	"ENSP00000362900"	"Q08170"	""	"UPI00001358BF"	"NM_005626.4"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"75747baa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"15560"	"RP11-810H18.1"	0	"mskcc.org"	"GRCh37"	"1"	29816633	29816633	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.157-1736G>A"	""	""	"ENST00000515851"	""	81	"60"	21	48	"48"	0	"RP11-810H18.1,intron_variant,,ENST00000515851,;"	"T"	"ENSG00000225011"	"ENST00000515851"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/349"	""	""	""	""	""	"1"	NA	-1	"RP11-810H18.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"757485fa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259259259259259	"WGS"	FALSE
"15561"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	30900251	30900251	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"57"	24	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"7574ac6a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"15562"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	31131706	31131706	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"64"	13	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"7574c38a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168831168831169	"WGS"	FALSE
"15563"	"RP11-277A4.4"	0	"mskcc.org"	"GRCh37"	"1"	32515460	32515460	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000366152"	""	61	"56"	5	46	"46"	0	"RP11-277A4.4,downstream_gene_variant,,ENST00000366152,;KHDRBS1,intron_variant,,ENST00000484270,;"	"T"	"ENSG00000203325"	"ENST00000366152"	"Transcript"	"downstream_gene_variant"	"-/624"	""	""	""	""	""	"1"	"2432"	-1	"RP11-277A4.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"7575034a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0819672131147541	"WGS"	FALSE
"15564"	"AK2"	204	"mskcc.org"	"GRCh37"	"1"	33504097	33504097	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"rs577420645"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000354858"	""	47	"40"	7	43	"43"	0	"AK2,upstream_gene_variant,,ENST00000373449,NM_001199199.1,NM_013411.4;AK2,upstream_gene_variant,,ENST00000354858,NM_001625.3;AK2,upstream_gene_variant,,ENST00000548033,;AK2,upstream_gene_variant,,ENST00000487289,;AK2,upstream_gene_variant,,ENST00000467905,;AK2,upstream_gene_variant,,ENST00000480134,;AK2,intron_variant,,ENST00000548559,;AK2,upstream_gene_variant,,ENST00000550338,;AK2,upstream_gene_variant,,ENST00000551979,;"	"A"	"ENSG00000004455"	"ENST00000354858"	"Transcript"	"upstream_gene_variant"	"-/1021"	"-/720"	"-/239"	""	""	"rs577420645"	"1"	"1504"	-1	"AK2"	"HGNC"	362	"protein_coding"	"YES"	"CCDS374.1"	"ENSP00000346921"	"P54819"	"F8W1A4"	"UPI000016781E"	"NM_001625.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"75752802-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148936170212766	"WGS"	FALSE
"15565"	"CSMD2"	114784	"mskcc.org"	"GRCh37"	"1"	34205161	34205161	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2054-226A>T"	""	""	"ENST00000241312"	""	92	"74"	18	76	"76"	0	"CSMD2,intron_variant,,ENST00000373381,NM_052896.3,NM_001281956.1;CSMD2,intron_variant,,ENST00000241312,;"	"A"	"ENSG00000121904"	"ENST00000241312"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/13108"	"-/10464"	"-/3487"	""	""	""	"1"	NA	-1	"CSMD2"	"HGNC"	19290	"nonsense_mediated_decay"	"YES"	"CCDS380.1"	"ENSP00000241312"	"Q7Z408"	""	"UPI00004561AB"	""	""	""	""	"14/69"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75756d12-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195652173913043	"WGS"	FALSE
"15566"	"CSMD2"	114784	"mskcc.org"	"GRCh37"	"1"	34403077	34403077	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.398-1522C>T"	""	""	"ENST00000241312"	""	105	"84"	21	65	"65"	0	"CSMD2,intron_variant,,ENST00000373381,NM_052896.3,NM_001281956.1;CSMD2,intron_variant,,ENST00000241312,;"	"A"	"ENSG00000121904"	"ENST00000241312"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/13108"	"-/10464"	"-/3487"	""	""	""	"1"	NA	-1	"CSMD2"	"HGNC"	19290	"nonsense_mediated_decay"	"YES"	"CCDS380.1"	"ENSP00000241312"	"Q7Z408"	""	"UPI00004561AB"	""	""	""	""	"3/69"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"757573ac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"15567"	"DLGAP3"	58512	"mskcc.org"	"GRCh37"	"1"	35335145	35335145	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2001-455G>T"	""	""	"ENST00000373347"	""	72	"54"	18	48	"48"	0	"DLGAP3,intron_variant,,ENST00000373347,;DLGAP3,intron_variant,,ENST00000235180,NM_001080418.1;"	"A"	"ENSG00000116544"	"ENST00000373347"	"Transcript"	"intron_variant"	"-/3856"	"-/2940"	"-/979"	""	""	""	"1"	NA	-1	"DLGAP3"	"HGNC"	30368	"protein_coding"	"YES"	"CCDS30670.1"	"ENSP00000362444"	"O95886"	"B4DH33"	"UPI00003D4D81"	""	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"75759792-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"15568"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	35615141	35615141	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	43	"38"	5	34	"34"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"7575a02a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116279069767442	"WGS"	FALSE
"15569"	"COL8A2"	1296	"mskcc.org"	"GRCh37"	"1"	36570010	36570010	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-16-4151A>T"	""	""	"ENST00000397799"	""	62	"57"	5	61	"61"	0	"COL8A2,intron_variant,,ENST00000397799,;COL8A2,upstream_gene_variant,,ENST00000303143,NM_005202.2;COL8A2,upstream_gene_variant,,ENST00000481785,;"	"A"	"ENSG00000171812"	"ENST00000397799"	"Transcript"	"intron_variant"	"-/4670"	"-/2112"	"-/703"	""	""	""	"1"	NA	-1	"COL8A2"	"HGNC"	2216	"protein_coding"	"YES"	"CCDS403.1"	"ENSP00000380901"	"P25067"	"R9UH34,Q4VAQ1,E9PP49"	"UPI00001B2F2D"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"7575bd94-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WGS"	FALSE
"15570"	"GRIK3"	2899	"mskcc.org"	"GRCh37"	"1"	37387421	37387421	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.116-30724G>A"	""	""	"ENST00000373091"	""	89	"71"	18	52	"52"	0	"GRIK3,intron_variant,,ENST00000373091,NM_000831.3;GRIK3,intron_variant,,ENST00000373093,;"	"T"	"ENSG00000163873"	"ENST00000373091"	"Transcript"	"intron_variant"	"-/9101"	"-/2760"	"-/919"	""	""	""	"1"	NA	-1	"GRIK3"	"HGNC"	4581	"protein_coding"	"YES"	"CCDS416.1"	"ENSP00000362183"	"Q13003"	"Q96SC0"	"UPI000013E311"	"NM_000831.3"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7575e102-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202247191011236	"WGS"	FALSE
"15571"	"NT5C1A"	84618	"mskcc.org"	"GRCh37"	"1"	40132626	40132626	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.136-718G>A"	""	""	"ENST00000235628"	""	77	"58"	19	52	"52"	0	"NT5C1A,intron_variant,,ENST00000235628,NM_032526.1;"	"T"	"ENSG00000116981"	"ENST00000235628"	"Transcript"	"intron_variant"	"-/1107"	"-/1107"	"-/368"	""	""	""	"1"	NA	-1	"NT5C1A"	"HGNC"	17819	"protein_coding"	"YES"	"CCDS440.1"	"ENSP00000235628"	"Q9BXI3"	""	"UPI000004978A"	"NM_032526.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"757642dc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246753246753247	"WGS"	FALSE
"15572"	"WDR65"	149465	"mskcc.org"	"GRCh37"	"1"	43721398	43721398	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000372492"	""	82	"62"	20	63	"63"	0	"WDR65,downstream_gene_variant,,ENST00000372492,NM_001195831.2;EBNA1BP2,intron_variant,,ENST00000461557,;EBNA1BP2,intron_variant,,ENST00000466927,;"	"T"	"ENSG00000243710"	"ENST00000372492"	"Transcript"	"downstream_gene_variant"	"-/4244"	"-/3753"	"-/1250"	""	""	""	"1"	"1369"	1	"WDR65"	"HGNC"	26485	"protein_coding"	""	""	"ENSP00000361570"	"Q96MR6"	"E9PRV3"	"UPI0001D89705"	"NM_001195831.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"7576b9f6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24390243902439	"WGS"	FALSE
"15573"	"MPL"	4352	"mskcc.org"	"GRCh37"	"1"	43800988	43800988	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000372470"	""	65	"54"	11	42	"42"	0	"MPL,upstream_gene_variant,,ENST00000372470,NM_005373.2;MPL,upstream_gene_variant,,ENST00000413998,;"	"A"	"ENSG00000117400"	"ENST00000372470"	"Transcript"	"upstream_gene_variant"	"-/1950"	"-/1908"	"-/635"	""	""	""	"1"	"2490"	1	"MPL"	"HGNC"	7217	"protein_coding"	"YES"	"CCDS483.1"	"ENSP00000361548"	"P40238"	""	"UPI000002DB88"	"NM_005373.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"7576bcee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.169230769230769	"WGS"	TRUE
"15574"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	43981879	43981879	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"71"	17	70	"70"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"7576c612-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193181818181818	"WGS"	FALSE
"15575"	"RP11-8J9.5"	0	"mskcc.org"	"GRCh37"	"1"	47212254	47212254	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"rs143370990"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000419949"	""	97	"87"	10	65	"65"	0	"RP11-8J9.5,downstream_gene_variant,,ENST00000419949,;"	"T"	"ENSG00000236476"	"ENST00000419949"	"Transcript"	"downstream_gene_variant"	"-/805"	""	""	""	""	"rs143370990"	"1"	"3449"	1	"RP11-8J9.5"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"T:0.0028"	"T:0"	"T:0"	NA	"T:0"	"T:0.002"	"T:0.0123"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75776270-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103092783505155	"WGS"	FALSE
"15576"	"ENSR00001583842"	0	"mskcc.org"	"GRCh37"	"1"	48049150	48049150	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001583842"	""	92	"76"	16	64	"64"	0	""	"T"	""	"ENSR00001583842"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"757777d8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"15577"	"SCP2"	6342	"mskcc.org"	"GRCh37"	"1"	53475119	53475119	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1082-5443G>A"	""	""	"ENST00000371514"	""	80	"65"	15	42	"42"	0	"SCP2,intron_variant,,ENST00000371514,NM_002979.4;SCP2,intron_variant,,ENST00000407246,NM_001193599.1;SCP2,intron_variant,,ENST00000528311,NM_001193617.1;SCP2,intron_variant,,ENST00000371509,NM_001193600.1;SCP2,intron_variant,,ENST00000478631,;"	"A"	"ENSG00000116171"	"ENST00000371514"	"Transcript"	"intron_variant"	"-/2811"	"-/1644"	"-/547"	""	""	""	"1"	NA	1	"SCP2"	"HGNC"	10606	"protein_coding"	"YES"	"CCDS572.1"	"ENSP00000360569"	"P22307"	""	"UPI0000130258"	"NM_002979.4"	""	""	""	"11/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"75781af8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"15578"	"SCP2"	6342	"mskcc.org"	"GRCh37"	"1"	53521944	53521944	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371514"	""	100	"80"	20	61	"61"	0	"SCP2,downstream_gene_variant,,ENST00000488965,;SCP2,downstream_gene_variant,,ENST00000371514,NM_002979.4;SCP2,downstream_gene_variant,,ENST00000408941,NM_001007250.2;SCP2,downstream_gene_variant,,ENST00000478631,;"	"T"	"ENSG00000116171"	"ENST00000371514"	"Transcript"	"downstream_gene_variant"	"-/2811"	"-/1644"	"-/547"	""	""	""	"1"	"4569"	1	"SCP2"	"HGNC"	10606	"protein_coding"	"YES"	"CCDS572.1"	"ENSP00000360569"	"P22307"	""	"UPI0000130258"	"NM_002979.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"75781bca-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"15579"	"PODN"	127435	"mskcc.org"	"GRCh37"	"1"	53530667	53530667	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.89+2687C>T"	""	""	"ENST00000312553"	""	89	"83"	6	60	"60"	0	"PODN,intron_variant,,ENST00000371500,NM_001199080.1;PODN,intron_variant,,ENST00000312553,NM_001199081.1,NM_153703.4;PODN,intron_variant,,ENST00000395871,NM_001199082.1;RP11-334A14.5,downstream_gene_variant,,ENST00000447867,;"	"T"	"ENSG00000174348"	"ENST00000312553"	"Transcript"	"intron_variant"	"-/3010"	"-/1986"	"-/661"	""	""	""	"1"	NA	1	"PODN"	"HGNC"	23174	"protein_coding"	"YES"	"CCDS573.1"	"ENSP00000308315"	"Q7Z5L7"	""	"UPI000034ECE9"	"NM_001199081.1,NM_153703.4"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75781c9c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"15580"	"GLIS1"	148979	"mskcc.org"	"GRCh37"	"1"	54052073	54052073	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.795+7708C>T"	""	""	"ENST00000312233"	""	113	"102"	11	64	"64"	0	"GLIS1,intron_variant,,ENST00000312233,NM_147193.2;"	"A"	"ENSG00000174332"	"ENST00000312233"	"Transcript"	"intron_variant"	"-/2812"	"-/1863"	"-/620"	""	""	""	"1"	NA	-1	"GLIS1"	"HGNC"	29525	"protein_coding"	"YES"	"CCDS582.1"	"ENSP00000309653"	"Q8NBF1"	""	"UPI000013F293"	"NM_147193.2"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75783bc8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0973451327433628	"WGS"	FALSE
"15581"	"MROH7"	374977	"mskcc.org"	"GRCh37"	"1"	55110044	55110044	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-110+2403C>A"	""	""	"ENST00000421030"	""	54	"42"	12	43	"43"	0	"MROH7,intron_variant,,ENST00000421030,NM_001039464.2;MROH7,intron_variant,,ENST00000339553,;MROH7,intron_variant,,ENST00000395690,;MROH7,intron_variant,,ENST00000409996,;MROH7,intron_variant,,ENST00000454855,;MROH7,intron_variant,,ENST00000545244,;MROH7,intron_variant,,ENST00000472987,;MROH7,intron_variant,,ENST00000478097,;MROH7-TTC4,intron_variant,,ENST00000425300,;MROH7-TTC4,intron_variant,,ENST00000414150,;MROH7-TTC4,intron_variant,,ENST00000606515,;MROH7,intron_variant,,ENST00000440047,;"	"A"	"ENSG00000184313"	"ENST00000421030"	"Transcript"	"intron_variant"	"-/4329"	"-/3972"	"-/1323"	""	""	""	"1"	NA	1	"MROH7"	"HGNC"	24802	"protein_coding"	"YES"	"CCDS41342.2"	"ENSP00000396622"	"Q68CQ1"	"C9K0L2,B7ZBM2"	"UPI000198C4E2"	"NM_001039464.2"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7578596e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"15582"	"DAB1"	1600	"mskcc.org"	"GRCh37"	"1"	58198966	58198966	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-210-83629A>G"	""	""	"ENST00000371234"	""	87	"66"	21	55	"55"	0	"DAB1,intron_variant,,ENST00000371234,NM_021080.3;DAB1,intron_variant,,ENST00000485760,;"	"C"	"ENSG00000173406"	"ENST00000371234"	"Transcript"	"intron_variant"	"-/2580"	"-/1668"	"-/555"	""	""	""	"1"	NA	-1	"DAB1"	"HGNC"	2661	"protein_coding"	""	"CCDS607.1"	"ENSP00000360278"	"O75553"	""	"UPI000013EE33"	"NM_021080.3"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7578bee0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241379310344828	"WGS"	FALSE
"15583"	"RP11-230B22.1"	400756	"mskcc.org"	"GRCh37"	"1"	63160991	63160991	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.171+6668G>T"	""	""	"ENST00000453229"	""	86	"69"	17	48	"48"	0	"RP11-230B22.1,intron_variant,,ENST00000453229,;"	"T"	"ENSG00000235545"	"ENST00000453229"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1228"	""	""	""	""	""	"1"	NA	1	"RP11-230B22.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"757967e6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197674418604651	"WGS"	FALSE
"15584"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	64201994	64201994	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"69"	21	67	"67"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75798370-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WGS"	FALSE
"15585"	"ROR1"	4919	"mskcc.org"	"GRCh37"	"1"	64372972	64372972	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.92-102005G>A"	""	""	"ENST00000371079"	""	104	"81"	23	61	"61"	0	"ROR1,intron_variant,,ENST00000371079,NM_005012.3;ROR1,intron_variant,,ENST00000371080,NM_001083592.1;ROR1,intron_variant,,ENST00000482426,;"	"A"	"ENSG00000185483"	"ENST00000371079"	"Transcript"	"intron_variant"	"-/5832"	"-/2814"	"-/937"	""	""	""	"1"	NA	1	"ROR1"	"HGNC"	10256	"protein_coding"	"YES"	"CCDS626.1"	"ENSP00000360120"	"Q01973"	""	"UPI00001AF82C"	"NM_005012.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"75798c8a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221153846153846	"WGS"	FALSE
"15586"	"LRRC7"	57554	"mskcc.org"	"GRCh37"	"1"	70298339	70298339	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.387-2124A>C"	""	""	"ENST00000035383"	""	122	"91"	31	54	"53"	1	"LRRC7,intron_variant,,ENST00000310961,;LRRC7,intron_variant,,ENST00000035383,NM_020794.2;LRRC7,intron_variant,,ENST00000415775,;LRRC7,intron_variant,,ENST00000370958,;"	"C"	"ENSG00000033122"	"ENST00000035383"	"Transcript"	"intron_variant"	"-/5000"	"-/4614"	"-/1537"	""	""	""	"1"	NA	1	"LRRC7"	"HGNC"	18531	"protein_coding"	"YES"	"CCDS645.1"	"ENSP00000035383"	"Q96NW7"	""	"UPI000006F29B"	"NM_020794.2"	""	""	""	"3/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"757a4152-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254098360655738	"WGS"	FALSE
"15587"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	73050833	73050833	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"86"	5	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"757a988c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0549450549450549	"WGS"	FALSE
"15588"	"RP4-660H19.1"	0	"mskcc.org"	"GRCh37"	"1"	73288861	73288861	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.280+27572A>G"	""	""	"ENST00000445976"	""	126	"102"	24	70	"70"	0	"RP4-660H19.1,intron_variant,,ENST00000445976,;"	"C"	"ENSG00000225087"	"ENST00000445976"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/499"	""	""	""	""	""	"1"	NA	-1	"RP4-660H19.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"757a9c38-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"15589"	"SLC44A5"	204962	"mskcc.org"	"GRCh37"	"1"	75965670	75965670	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.13+41450G>T"	""	""	"ENST00000370855"	""	89	"75"	14	64	"64"	0	"SLC44A5,intron_variant,,ENST00000370855,NM_152697.4;SLC44A5,intron_variant,,ENST00000370859,NM_001130058.1;SLC44A5,intron_variant,,ENST00000469525,;"	"A"	"ENSG00000137968"	"ENST00000370855"	"Transcript"	"intron_variant"	"-/4406"	"-/2160"	"-/719"	""	""	""	"1"	NA	-1	"SLC44A5"	"HGNC"	28524	"protein_coding"	"YES"	"CCDS667.1"	"ENSP00000359892"	"Q8NCS7"	"B7Z473"	"UPI000013E195"	"NM_152697.4"	""	""	""	"2/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"757aeb70-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157303370786517	"WGS"	FALSE
"15590"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	76095563	76095563	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"82"	21	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"757af41c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203883495145631	"WGS"	FALSE
"15591"	"AK5"	26289	"mskcc.org"	"GRCh37"	"1"	77827615	77827615	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.891+21362C>G"	""	""	"ENST00000354567"	""	87	"66"	21	47	"47"	0	"AK5,intron_variant,,ENST00000344720,NM_012093.3;AK5,intron_variant,,ENST00000354567,NM_174858.2;AK5,intron_variant,,ENST00000465146,;"	"G"	"ENSG00000154027"	"ENST00000354567"	"Transcript"	"intron_variant"	"-/3248"	"-/1689"	"-/562"	""	""	""	"1"	NA	1	"AK5"	"HGNC"	365	"protein_coding"	"YES"	"CCDS675.1"	"ENSP00000346577"	"Q9Y6K8"	"E9PQQ8,E9PIS7"	"UPI0000167E20"	"NM_174858.2"	""	""	""	"6/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"757b2946-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241379310344828	"WGS"	FALSE
"15592"	"FAM73A"	374986	"mskcc.org"	"GRCh37"	"1"	78346163	78346163	"+"	"3'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000370791"	""	73	"55"	18	38	"38"	0	"FAM73A,downstream_gene_variant,,ENST00000370791,NM_001270384.1,NM_198549.3;NEXN-AS1,downstream_gene_variant,,ENST00000421331,;NEXN-AS1,downstream_gene_variant,,ENST00000597757,;"	"C"	"ENSG00000180488"	"ENST00000370791"	"Transcript"	"downstream_gene_variant"	"-/5288"	"-/1899"	"-/632"	""	""	""	"1"	"2057"	1	"FAM73A"	"HGNC"	24741	"protein_coding"	"YES"	"CCDS681.1"	"ENSP00000359827"	"Q8NAN2"	"R4GMP2,B7ZLZ8"	"UPI00000722C6"	"NM_001270384.1,NM_198549.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"757b3f6c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246575342465753	"WGS"	FALSE
"15593"	"NEXN"	91624	"mskcc.org"	"GRCh37"	"1"	78363461	78363461	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-53+9017A>C"	""	""	"ENST00000334785"	""	72	"68"	4	54	"54"	0	"NEXN,intron_variant,,ENST00000330010,NM_001172309.1;NEXN,intron_variant,,ENST00000334785,NM_144573.3;NEXN,intron_variant,,ENST00000457030,;NEXN,intron_variant,,ENST00000440324,;NEXN,intron_variant,,ENST00000401035,;NEXN,intron_variant,,ENST00000294624,;"	"C"	"ENSG00000162614"	"ENST00000334785"	"Transcript"	"intron_variant"	"-/2607"	"-/2028"	"-/675"	""	""	""	"1"	NA	1	"NEXN"	"HGNC"	29557	"protein_coding"	"YES"	"CCDS41351.1"	"ENSP00000333938"	"Q0ZGT2"	"B4DDI0"	"UPI000022ABDC"	"NM_144573.3"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"757b40ac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"15594"	"ELTD1"	64123	"mskcc.org"	"GRCh37"	"1"	79419553	79419553	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.173-7442C>T"	""	""	"ENST00000370742"	""	137	"110"	27	79	"79"	0	"ELTD1,intron_variant,,ENST00000370742,NM_022159.3;"	"A"	"ENSG00000162618"	"ENST00000370742"	"Transcript"	"intron_variant"	"-/3527"	"-/2073"	"-/690"	""	""	""	"1"	NA	-1	"ELTD1"	"HGNC"	20822	"protein_coding"	"YES"	"CCDS41352.1"	"ENSP00000359778"	"Q9HBW9"	""	"UPI00004561FF"	"NM_022159.3"	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"757b5d94-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197080291970803	"WGS"	FALSE
"15595"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	80671729	80671729	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"109"	7	77	"77"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"757b8094-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0603448275862069	"WGS"	FALSE
"15596"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	83311299	83311299	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	135	"117"	18	95	"95"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"757be020-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"15597"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	83839026	83839026	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"91"	9	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"757c021c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09	"WGS"	FALSE
"15598"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	88255308	88255308	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	135	"125"	10	71	"71"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"757c83cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"15599"	"PKN2"	5586	"mskcc.org"	"GRCh37"	"1"	89223287	89223287	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.350-2618C>T"	""	""	"ENST00000370521"	""	98	"81"	17	43	"43"	0	"PKN2,intron_variant,,ENST00000370521,NM_006256.2;PKN2,intron_variant,,ENST00000370505,;PKN2,intron_variant,,ENST00000370513,;PKN2,intron_variant,,ENST00000316005,;"	"T"	"ENSG00000065243"	"ENST00000370521"	"Transcript"	"intron_variant"	"-/6121"	"-/2955"	"-/984"	""	""	""	"1"	NA	1	"PKN2"	"HGNC"	9406	"protein_coding"	"YES"	"CCDS714.1"	"ENSP00000359552"	"Q16513"	"Q6P5W9"	"UPI000004D291"	"NM_006256.2"	""	""	""	"2/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"757c9b14-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173469387755102	"WGS"	FALSE
"15600"	"RP5-1007M22.2"	400761	"mskcc.org"	"GRCh37"	"1"	90073033	90073033	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.177-9270C>G"	""	""	"ENST00000443562"	""	119	"94"	25	89	"89"	0	"RP5-1007M22.2,intron_variant,,ENST00000443562,;"	"C"	"ENSG00000231999"	"ENST00000443562"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/770"	""	""	""	""	""	"1"	NA	-1	"RP5-1007M22.2"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"757cb180-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210084033613445	"WGS"	FALSE
"15601"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	90546498	90546498	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"76"	21	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"757cbec8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216494845360825	"WGS"	FALSE
"15602"	"GLMN"	11146	"mskcc.org"	"GRCh37"	"1"	92753013	92753013	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.633-864T>A"	""	""	"ENST00000370360"	""	89	"84"	5	44	"44"	0	"GLMN,intron_variant,,ENST00000370360,NM_053274.2;GLMN,intron_variant,,ENST00000534881,;GLMN,upstream_gene_variant,,ENST00000495852,;GLMN,upstream_gene_variant,,ENST00000463560,;GLMN,intron_variant,,ENST00000495106,;"	"T"	"ENSG00000174842"	"ENST00000370360"	"Transcript"	"intron_variant"	"-/1995"	"-/1785"	"-/594"	""	""	""	"1"	NA	-1	"GLMN"	"HGNC"	14373	"protein_coding"	"YES"	"CCDS738.1"	"ENSP00000359385"	"Q92990"	""	"UPI0000040A53"	"NM_053274.2"	""	""	""	"6/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"757d0e78-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0561797752808989	"WGS"	FALSE
"15603"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	97319740	97319740	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"72"	19	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"757d9a64-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208791208791209	"WGS"	FALSE
"15604"	"DPYD"	1806	"mskcc.org"	"GRCh37"	"1"	97806837	97806837	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs180939177"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2058+32280C>T"	""	""	"ENST00000370192"	""	98	"74"	24	64	"64"	0	"DPYD,intron_variant,,ENST00000370192,NM_000110.3;"	"A"	"ENSG00000188641"	"ENST00000370192"	"Transcript"	"intron_variant"	"-/4412"	"-/3078"	"-/1025"	""	""	"rs180939177"	"1"	NA	-1	"DPYD"	"HGNC"	3012	"protein_coding"	"YES"	"CCDS30777.1"	"ENSP00000359211"	"Q12882"	""	"UPI0000458949"	"NM_000110.3"	""	""	""	"16/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGG"	"757daafe-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244897959183673	"WGS"	FALSE
"15605"	"AL451051.1"	0	"mskcc.org"	"GRCh37"	"1"	100292982	100292982	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516417"	""	85	"60"	25	49	"49"	0	"AL451051.1,upstream_gene_variant,,ENST00000516417,;"	"A"	"ENSG00000252226"	"ENST00000516417"	"Transcript"	"upstream_gene_variant"	"-/73"	""	""	""	""	""	"1"	"2039"	1	"AL451051.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"757e21aa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"15606"	"RTCA"	8634	"mskcc.org"	"GRCh37"	"1"	100730398	100730398	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"rs536290870"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000260563"	""	86	"71"	15	61	"61"	0	"RTCA,upstream_gene_variant,,ENST00000370128,NM_003729.3;RTCA,upstream_gene_variant,,ENST00000260563,NM_001130841.1;RTCA,upstream_gene_variant,,ENST00000370126,;RP11-305E17.6,intron_variant,,ENST00000421185,;RTCA,upstream_gene_variant,,ENST00000498617,;RTCA,upstream_gene_variant,,ENST00000483474,;"	"C"	"ENSG00000137996"	"ENST00000260563"	"Transcript"	"upstream_gene_variant"	"-/1534"	"-/1140"	"-/379"	""	""	"rs536290870"	"1"	"1407"	1	"RTCA"	"HGNC"	17981	"protein_coding"	"YES"	"CCDS44178.1"	"ENSP00000260563"	"O00442"	""	"UPI000002B2DC"	"NM_001130841.1"	""	""	""	""	""	"C:0.0004"	"C:0"	"C:0"	NA	"C:0.001"	"C:0.001"	"C:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"757e2c0e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174418604651163	"WGS"	FALSE
"15607"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	101308334	101308334	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"68"	25	64	"64"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"757e37ee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"15608"	"SLC30A7"	148867	"mskcc.org"	"GRCh37"	"1"	101390428	101390428	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.842+3031A>G"	""	""	"ENST00000370112"	""	105	"98"	7	70	"70"	0	"SLC30A7,intron_variant,,ENST00000370112,NM_133496.4,NM_001144884.1;SLC30A7,intron_variant,,ENST00000357650,;"	"G"	"ENSG00000162695"	"ENST00000370112"	"Transcript"	"intron_variant"	"-/7898"	"-/1131"	"-/376"	""	""	""	"1"	NA	1	"SLC30A7"	"HGNC"	19306	"protein_coding"	"YES"	"CCDS776.1"	"ENSP00000359130"	"Q8NEW0"	""	"UPI0000050F45"	"NM_133496.4,NM_001144884.1"	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"757e3a6e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"15609"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	101608081	101608081	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"75"	14	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"757e3db6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157303370786517	"WGS"	FALSE
"15610"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	106069078	106069078	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"87"	23	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"757ebfc0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209090909090909	"WGS"	FALSE
"15611"	"NTNG1"	22854	"mskcc.org"	"GRCh37"	"1"	107931522	107931522	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.888-6254T>G"	""	""	"ENST00000370068"	""	122	"94"	28	76	"76"	0	"NTNG1,intron_variant,,ENST00000370067,;NTNG1,intron_variant,,ENST00000370068,;NTNG1,intron_variant,,ENST00000370073,NM_001113226.1;NTNG1,intron_variant,,ENST00000370071,NM_001113228.1;NTNG1,intron_variant,,ENST00000370074,NM_014917.2;NTNG1,intron_variant,,ENST00000542803,;NTNG1,intron_variant,,ENST00000370061,;NTNG1,intron_variant,,ENST00000370072,;NTNG1,intron_variant,,ENST00000370070,;NTNG1,intron_variant,,ENST00000370065,;NTNG1,intron_variant,,ENST00000370066,;NTNG1,intron_variant,,ENST00000294649,;"	"G"	"ENSG00000162631"	"ENST00000370068"	"Transcript"	"intron_variant"	"-/4034"	"-/1620"	"-/539"	""	""	""	"1"	NA	1	"NTNG1"	"HGNC"	23319	"protein_coding"	"YES"	"CCDS44180.1"	"ENSP00000359085"	"Q9Y2I2"	"Q5IEC8"	"UPI0000458A3E"	""	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"757f01a6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229508196721311	"WGS"	FALSE
"15612"	"VAV3"	10451	"mskcc.org"	"GRCh37"	"1"	108266520	108266520	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1503-18837A>G"	""	""	"ENST00000370056"	""	110	"83"	27	53	"53"	0	"VAV3,intron_variant,,ENST00000370056,NM_006113.4;VAV3,intron_variant,,ENST00000527011,;VAV3,intron_variant,,ENST00000371846,;VAV3,intron_variant,,ENST00000490388,;VAV3,intron_variant,,ENST00000529809,;VAV3,intron_variant,,ENST00000343258,;VAV3,intron_variant,,ENST00000469325,;"	"C"	"ENSG00000134215"	"ENST00000370056"	"Transcript"	"intron_variant"	"-/4990"	"-/2544"	"-/847"	""	""	""	"1"	NA	-1	"VAV3"	"HGNC"	12659	"protein_coding"	"YES"	"CCDS785.1"	"ENSP00000359073"	"Q9UKW4"	"F5GXH7"	"UPI0000138212"	"NM_006113.4"	""	""	""	"15/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"757f0962-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245454545454545	"WGS"	FALSE
"15613"	"SLC25A24P1"	0	"mskcc.org"	"GRCh37"	"1"	108904056	108904056	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.165-11665C>T"	""	""	"ENST00000450435"	""	99	"80"	19	48	"48"	0	"SLC25A24P1,intron_variant,,ENST00000450435,;"	"T"	"ENSG00000241361"	"ENST00000450435"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/393"	""	""	""	""	""	"1"	NA	1	"SLC25A24P1"	"HGNC"	48933	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"757f19fc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191919191919192	"WGS"	FALSE
"15614"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	111314499	111314499	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"72"	25	63	"62"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"757f6452-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257731958762887	"WGS"	FALSE
"15615"	"LRIG2"	9860	"mskcc.org"	"GRCh37"	"1"	113623058	113623058	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.239+6791G>A"	""	""	"ENST00000361127"	""	60	"54"	6	42	"42"	0	"LRIG2,intron_variant,,ENST00000361127,NM_014813.1;"	"A"	"ENSG00000198799"	"ENST00000361127"	"Transcript"	"intron_variant"	"-/11555"	"-/3198"	"-/1065"	""	""	""	"1"	NA	1	"LRIG2"	"HGNC"	20889	"protein_coding"	"YES"	"CCDS30808.1"	"ENSP00000355396"	"O94898"	""	"UPI000006F613"	"NM_014813.1"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"757fb286-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"15616"	"LRIG2"	9860	"mskcc.org"	"GRCh37"	"1"	113623068	113623068	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.239+6801C>G"	""	""	"ENST00000361127"	""	57	"53"	4	42	"42"	0	"LRIG2,intron_variant,,ENST00000361127,NM_014813.1;"	"G"	"ENSG00000198799"	"ENST00000361127"	"Transcript"	"intron_variant"	"-/11555"	"-/3198"	"-/1065"	""	""	""	"1"	NA	1	"LRIG2"	"HGNC"	20889	"protein_coding"	"YES"	"CCDS30808.1"	"ENSP00000355396"	"O94898"	""	"UPI000006F613"	"NM_014813.1"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"757fb3d0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0701754385964912	"WGS"	FALSE
"15617"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	113836848	113836848	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"81"	8	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"757fb9fc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"15618"	"SYT6"	148281	"mskcc.org"	"GRCh37"	"1"	114651549	114651549	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.817-5206G>T"	""	""	"ENST00000609117"	""	113	"92"	21	80	"80"	0	"SYT6,intron_variant,,ENST00000393296,;SYT6,intron_variant,,ENST00000609117,;SYT6,intron_variant,,ENST00000369547,NM_001270805.1;SYT6,intron_variant,,ENST00000607941,NM_205848.3;SYT6,intron_variant,,ENST00000610222,;SYT6,intron_variant,,ENST00000610121,;SYT6,intron_variant,,ENST00000610096,;"	"A"	"ENSG00000134207"	"ENST00000609117"	"Transcript"	"intron_variant"	"-/4424"	"-/1278"	"-/425"	""	""	""	"1"	NA	-1	"SYT6"	"HGNC"	18638	"protein_coding"	"YES"	"CCDS871.1"	"ENSP00000477344"	""	"I6L9C3,B1AMB7,B1AMB6"	"UPI000000DACA"	""	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"757fd09a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185840707964602	"WGS"	FALSE
"15619"	"WARS2"	10352	"mskcc.org"	"GRCh37"	"1"	119661530	119661530	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.90+21648C>A"	""	""	"ENST00000235521"	""	97	"76"	21	72	"72"	0	"WARS2,intron_variant,,ENST00000369426,;WARS2,intron_variant,,ENST00000235521,NM_201263.2,NM_015836.3;WARS2,intron_variant,,ENST00000537870,;WARS2,intron_variant,,ENST00000495746,;"	"T"	"ENSG00000116874"	"ENST00000235521"	"Transcript"	"intron_variant"	"-/2800"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"WARS2"	"HGNC"	12730	"protein_coding"	"YES"	"CCDS900.1"	"ENSP00000235521"	"Q9UGM6"	"B7Z5X7"	"UPI000004A002"	"NM_201263.2,NM_015836.3"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75805b8c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216494845360825	"WGS"	FALSE
"15620"	"NBPF13P"	728989	"mskcc.org"	"GRCh37"	"1"	146542353	146542353	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1846-14198G>T"	""	""	"ENST00000444082"	""	84	"69"	15	68	"68"	0	"NBPF13P,intron_variant,,ENST00000444082,;"	"A"	"ENSG00000227242"	"ENST00000444082"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3808"	""	""	""	""	""	"1"	NA	-1	"NBPF13P"	"HGNC"	31995	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"14/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"75892c08-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"15621"	"GPR89B"	653519	"mskcc.org"	"GRCh37"	"1"	147397170	147397170	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000314163"	""	95	"85"	10	50	"50"	0	"GPR89B,upstream_gene_variant,,ENST00000314163,NM_016334.3;GPR89B,upstream_gene_variant,,ENST00000468618,;GPR89B,upstream_gene_variant,,ENST00000478307,;GPR89B,upstream_gene_variant,,ENST00000488165,;"	"A"	"ENSG00000188092"	"ENST00000314163"	"Transcript"	"upstream_gene_variant"	"-/1934"	"-/1368"	"-/455"	""	""	""	"1"	"3336"	1	"GPR89B"	"HGNC"	13840	"protein_coding"	"YES"	"CCDS930.1"	"ENSP00000358233"	"P0CG08"	""	"UPI00000389CC"	"NM_016334.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"7589456c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"15622"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	150175794	150175794	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	61	"50"	11	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"758be27c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180327868852459	"WGS"	FALSE
"15623"	"TARS2"	80222	"mskcc.org"	"GRCh37"	"1"	150480011	150480011	"+"	"3'UTR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*471C>G"	""	""	"ENST00000369064"	"18/18"	61	"57"	4	46	"46"	0	"TARS2,3_prime_UTR_variant,,ENST00000369064,NM_025150.4;TARS2,downstream_gene_variant,,ENST00000606933,NM_001271895.1;ECM1,upstream_gene_variant,,ENST00000369047,NM_004425.3;TARS2,downstream_gene_variant,,ENST00000369054,NM_001271896.1;ECM1,upstream_gene_variant,,ENST00000369049,NM_001202858.1;ECM1,upstream_gene_variant,,ENST00000346569,NM_022664.2;ECM1,upstream_gene_variant,,ENST00000470432,;ECM1,upstream_gene_variant,,ENST00000496744,;ECM1,upstream_gene_variant,,ENST00000498579,;TARS2,downstream_gene_variant,,ENST00000463555,;TARS2,downstream_gene_variant,,ENST00000480070,;ECM1,upstream_gene_variant,,ENST00000490346,;TARS2,downstream_gene_variant,,ENST00000483046,;TARS2,3_prime_UTR_variant,,ENST00000369051,;TARS2,downstream_gene_variant,,ENST00000467982,;"	"G"	"ENSG00000143374"	"ENST00000369064"	"Transcript"	"3_prime_UTR_variant"	"2662/2729"	"-/2157"	"-/718"	""	""	""	"1"	NA	1	"TARS2"	"HGNC"	30740	"protein_coding"	"YES"	"CCDS952.1"	"ENSP00000358060"	"Q9BW92"	"Q9H045"	"UPI00000492D1"	"NM_025150.4"	""	""	"18/18"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"758becea-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0655737704918033	"WGS"	FALSE
"15624"	"PIP5K1A"	8394	"mskcc.org"	"GRCh37"	"1"	151199184	151199184	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.157-612T>G"	""	""	"ENST00000368888"	""	38	"29"	9	26	"26"	0	"PIP5K1A,intron_variant,,ENST00000349792,NM_003557.2;PIP5K1A,intron_variant,,ENST00000409426,;PIP5K1A,intron_variant,,ENST00000368890,NM_001135637.1;PIP5K1A,intron_variant,,ENST00000441902,NM_001135636.1;PIP5K1A,intron_variant,,ENST00000368888,NM_001135638.1;PIP5K1A,intron_variant,,ENST00000447555,;PIP5K1A,intron_variant,,ENST00000418435,;PIP5K1A,intron_variant,,ENST00000468772,;PIP5K1A,intron_variant,,ENST00000454769,;PIP5K1A,intron_variant,,ENST00000461816,;PIP5K1A,upstream_gene_variant,,ENST00000481713,;"	"G"	"ENSG00000143398"	"ENST00000368888"	"Transcript"	"intron_variant"	"-/2134"	"-/1689"	"-/562"	""	""	""	"1"	NA	1	"PIP5K1A"	"HGNC"	8994	"protein_coding"	"YES"	"CCDS44219.1"	"ENSP00000357883"	"Q99755"	"P78517,A6PW58"	"UPI000006F821"	"NM_001135638.1"	""	""	""	"3/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"758c0860-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236842105263158	"WGS"	FALSE
"15625"	"SPRR3"	6707	"mskcc.org"	"GRCh37"	"1"	152972315	152972315	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000331860"	""	100	"95"	5	67	"67"	0	"SPRR3,upstream_gene_variant,,ENST00000331860,NM_005416.2;SPRR3,upstream_gene_variant,,ENST00000295367,NM_001097589.1;SPRR3,upstream_gene_variant,,ENST00000443178,;SPRR3,upstream_gene_variant,,ENST00000542696,;SPRR3,upstream_gene_variant,,ENST00000495845,;"	"C"	"ENSG00000163209"	"ENST00000331860"	"Transcript"	"upstream_gene_variant"	"-/985"	"-/510"	"-/169"	""	""	""	"1"	"1908"	1	"SPRR3"	"HGNC"	11268	"protein_coding"	"YES"	"CCDS1033.1"	"ENSP00000330391"	"Q9UBC9"	"B1AN48"	"UPI0000127F1F"	"NM_005416.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"758c73c2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.05	"WGS"	FALSE
"15626"	"RPS27"	6232	"mskcc.org"	"GRCh37"	"1"	153963933	153963933	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.116-109C>A"	""	""	"ENST00000368567"	""	55	"42"	13	50	"50"	0	"RPS27,3_prime_UTR_variant,,ENST00000392558,;RPS27,intron_variant,,ENST00000368567,NM_001030.4;NUP210L,downstream_gene_variant,,ENST00000368559,NM_207308.2;NUP210L,downstream_gene_variant,,ENST00000271854,NM_001159484.1;NUP210L,downstream_gene_variant,,ENST00000368553,;RPS27,intron_variant,,ENST00000493224,;RPS27,intron_variant,,ENST00000477151,;RP11-422P24.9,upstream_gene_variant,,ENST00000431295,;"	"A"	"ENSG00000177954"	"ENST00000368567"	"Transcript"	"intron_variant"	"-/350"	"-/255"	"-/84"	""	""	""	"1"	NA	1	"RPS27"	"HGNC"	10416	"protein_coding"	"YES"	"CCDS1059.1"	"ENSP00000357555"	"P42677"	"C9J1C5"	"UPI0000001359"	"NM_001030.4"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"758c97b2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236363636363636	"WGS"	FALSE
"15627"	"ASH1L"	55870	"mskcc.org"	"GRCh37"	"1"	155349153	155349153	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6177+681A>G"	""	""	"ENST00000392403"	""	65	"50"	15	42	"42"	0	"ASH1L,intron_variant,,ENST00000368346,;ASH1L,intron_variant,,ENST00000392403,NM_018489.2;"	"C"	"ENSG00000116539"	"ENST00000392403"	"Transcript"	"intron_variant"	"-/10979"	"-/8895"	"-/2964"	""	""	""	"1"	NA	-1	"ASH1L"	"HGNC"	19088	"protein_coding"	"YES"	"CCDS1113.2"	"ENSP00000376204"	"Q9NR48"	""	"UPI0000DACAC8"	"NM_018489.2"	""	""	""	"8/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"758ccbec-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"15628"	"FCRL1"	115350	"mskcc.org"	"GRCh37"	"1"	157783271	157783271	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.32-6359G>T"	""	""	"ENST00000368176"	""	119	"89"	30	64	"64"	0	"FCRL1,intron_variant,,ENST00000358292,NM_001159397.1;FCRL1,intron_variant,,ENST00000368176,NM_001159398.1,NM_052938.4;FCRL1,intron_variant,,ENST00000491942,;FCRL1,intron_variant,,ENST00000368175,;FCRL1,intron_variant,,ENST00000480310,;"	"A"	"ENSG00000163534"	"ENST00000368176"	"Transcript"	"intron_variant"	"-/2596"	"-/1290"	"-/429"	""	""	""	"1"	NA	-1	"FCRL1"	"HGNC"	18509	"protein_coding"	"YES"	"CCDS1170.1"	"ENSP00000357158"	"Q96LA6"	""	"UPI000006E5BD"	"NM_001159398.1,NM_052938.4"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"758d28a8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252100840336134	"WGS"	FALSE
"15629"	"OR10K1"	391109	"mskcc.org"	"GRCh37"	"1"	158439361	158439361	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000289451"	""	120	"91"	29	94	"94"	0	"OR10K1,downstream_gene_variant,,ENST00000289451,NM_001004473.1;RP11-144L1.4,downstream_gene_variant,,ENST00000419738,;RP11-144L1.4,downstream_gene_variant,,ENST00000426251,;"	"A"	"ENSG00000173285"	"ENST00000289451"	"Transcript"	"downstream_gene_variant"	"-/1073"	"-/942"	"-/313"	""	""	""	"1"	"3017"	1	"OR10K1"	"HGNC"	14693	"protein_coding"	"YES"	"CCDS30897.1"	"ENSP00000289451"	"Q8NGX5"	""	"UPI0000041B19"	"NM_001004473.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"758d3c44-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241666666666667	"WGS"	FALSE
"15630"	"RGS5"	8490	"mskcc.org"	"GRCh37"	"1"	163124974	163124974	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.218-2468G>A"	""	""	"ENST00000530507"	""	117	"90"	27	68	"68"	0	"RGS5,intron_variant,,ENST00000313961,NM_003617.3,NM_001254749.1;RGS5,intron_variant,,ENST00000367903,;RGS5,intron_variant,,ENST00000530507,;RGS5,intron_variant,,ENST00000527988,NM_001195303.2,NM_001254748.1;RGS5,intron_variant,,ENST00000531476,;RGS5,intron_variant,,ENST00000534288,;RGS5,intron_variant,,ENST00000531954,;RGS5,intron_variant,,ENST00000530241,;RGS5,upstream_gene_variant,,ENST00000469495,;RGS5,intron_variant,,ENST00000525894,;"	"T"	"ENSG00000143248"	"ENST00000530507"	"Transcript"	"intron_variant"	"-/851"	"-/558"	"-/185"	""	""	""	"1"	NA	-1	"RGS5"	"HGNC"	10001	"protein_coding"	"YES"	"CCDS58041.1"	"ENSP00000433001"	"O15539"	""	"UPI0001F78466"	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"758e08f4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"15631"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	163627763	163627763	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"74"	22	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"758e2190-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229166666666667	"WGS"	FALSE
"15632"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	166157006	166157006	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"78"	24	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"758e76f4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"15633"	"KIFAP3"	22920	"mskcc.org"	"GRCh37"	"1"	170059176	170059176	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000490550"	""	90	"71"	19	69	"69"	0	"KIFAP3,upstream_gene_variant,,ENST00000490550,;"	"A"	"ENSG00000075945"	"ENST00000490550"	"Transcript"	"upstream_gene_variant"	"-/704"	""	""	""	""	""	"1"	"4827"	-1	"KIFAP3"	"HGNC"	17060	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"758eecb0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211111111111111	"WGS"	FALSE
"15634"	"FASLG"	356	"mskcc.org"	"GRCh37"	"1"	172623621	172623621	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000367721"	""	105	"97"	8	54	"54"	0	"FASLG,upstream_gene_variant,,ENST00000367721,NM_000639.1;FASLG,upstream_gene_variant,,ENST00000340030,;"	"T"	"ENSG00000117560"	"ENST00000367721"	"Transcript"	"upstream_gene_variant"	"-/1888"	"-/846"	"-/281"	""	""	""	"1"	"4537"	1	"FASLG"	"HGNC"	11936	"protein_coding"	"YES"	"CCDS1304.1"	"ENSP00000356694"	"P48023"	"Q53ZZ1"	"UPI000000D91A"	"NM_000639.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"758f3530-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0761904761904762	"WGS"	FALSE
"15635"	"RP1-15D23.2"	0	"mskcc.org"	"GRCh37"	"1"	172957621	172957621	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.224-15801A>G"	""	""	"ENST00000432694"	""	81	"76"	5	67	"67"	0	"RP1-15D23.2,intron_variant,,ENST00000432694,;"	"G"	"ENSG00000224228"	"ENST00000432694"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/808"	""	""	""	""	""	"1"	NA	1	"RP1-15D23.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"758f4304-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"15636"	"TNR"	7143	"mskcc.org"	"GRCh37"	"1"	175625170	175625170	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-165+87192C>T"	""	""	"ENST00000367674"	""	96	"74"	22	85	"85"	0	"TNR,intron_variant,,ENST00000367674,;TNR,intron_variant,,ENST00000263525,NM_003285.2;"	"A"	"ENSG00000116147"	"ENST00000367674"	"Transcript"	"intron_variant"	"-/12949"	"-/4077"	"-/1358"	""	""	""	"1"	NA	-1	"TNR"	"HGNC"	11953	"protein_coding"	"YES"	"CCDS1318.1"	"ENSP00000356646"	"Q92752"	"A1L306"	"UPI000013D41C"	""	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"758fc4f0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229166666666667	"WGS"	FALSE
"15637"	"TNR"	7143	"mskcc.org"	"GRCh37"	"1"	175637258	175637258	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-165+75104C>T"	""	""	"ENST00000367674"	""	118	"85"	33	79	"79"	0	"TNR,intron_variant,,ENST00000367674,;TNR,intron_variant,,ENST00000263525,NM_003285.2;"	"A"	"ENSG00000116147"	"ENST00000367674"	"Transcript"	"intron_variant"	"-/12949"	"-/4077"	"-/1358"	""	""	""	"1"	NA	-1	"TNR"	"HGNC"	11953	"protein_coding"	"YES"	"CCDS1318.1"	"ENSP00000356646"	"Q92752"	"A1L306"	"UPI000013D41C"	""	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"758fc702-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279661016949153	"WGS"	FALSE
"15638"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	176398159	176398159	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"84"	22	67	"67"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"758fe930-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207547169811321	"WGS"	FALSE
"15639"	"ABL2"	27	"mskcc.org"	"GRCh37"	"1"	179078801	179078801	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1826-225G>A"	""	""	"ENST00000502732"	""	53	"39"	14	43	"43"	0	"ABL2,intron_variant,,ENST00000502732,NM_001168237.1,NM_007314.3,NM_001168238.1,NM_001168236.1;ABL2,intron_variant,,ENST00000408940,NM_001168239.1;ABL2,intron_variant,,ENST00000344730,NM_001136000.2,NM_005158.4;ABL2,intron_variant,,ENST00000512653,;ABL2,intron_variant,,ENST00000367623,;ABL2,intron_variant,,ENST00000511413,;ABL2,intron_variant,,ENST00000507173,;ABL2,intron_variant,,ENST00000504405,;ABL2,downstream_gene_variant,,ENST00000392043,NM_001136001.1;"	"T"	"ENSG00000143322"	"ENST00000502732"	"Transcript"	"intron_variant"	"-/12144"	"-/3549"	"-/1182"	""	""	""	"1"	NA	-1	"ABL2"	"HGNC"	77	"protein_coding"	"YES"	"CCDS30947.1"	"ENSP00000427562"	"P42684"	""	"UPI0000125140"	"NM_001168237.1,NM_007314.3,NM_001168238.1,NM_001168236.1"	""	""	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75904308-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264150943396226	"WGS"	TRUE
"15640"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	182081104	182081104	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"93"	6	53	"53"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"7590a2bc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"15641"	"RP1-223H12.5"	0	"mskcc.org"	"GRCh37"	"1"	182398486	182398486	"+"	"3'Flank"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000605228"	""	81	"62"	19	56	"56"	0	"RP1-223H12.5,downstream_gene_variant,,ENST00000605228,;"	"G"	"ENSG00000270443"	"ENST00000605228"	"Transcript"	"downstream_gene_variant"	"-/195"	""	""	""	""	""	"1"	"4542"	-1	"RP1-223H12.5"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7590ab0e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234567901234568	"WGS"	FALSE
"15642"	"NMNAT2"	23057	"mskcc.org"	"GRCh37"	"1"	183232589	183232589	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.652-2151C>T"	""	""	"ENST00000287713"	""	66	"51"	15	45	"45"	0	"NMNAT2,intron_variant,,ENST00000287713,NM_015039.3;NMNAT2,intron_variant,,ENST00000294868,NM_170706.3;NMNAT2,intron_variant,,ENST00000464047,;RP11-548N1.1,upstream_gene_variant,,ENST00000454879,;"	"A"	"ENSG00000157064"	"ENST00000287713"	"Transcript"	"intron_variant"	"-/5663"	"-/924"	"-/307"	""	""	""	"1"	NA	-1	"NMNAT2"	"HGNC"	16789	"protein_coding"	"YES"	"CCDS1353.1"	"ENSP00000287713"	"Q9BZQ4"	""	"UPI00000706AB"	"NM_015039.3"	""	""	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7590c6fc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"15643"	"GS1-279B7.1"	100288079	"mskcc.org"	"GRCh37"	"1"	185297051	185297051	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.453-3891T>A"	""	""	"ENST00000563533"	""	92	"87"	5	56	"56"	0	"GS1-279B7.1,intron_variant,,ENST00000563533,;GS1-279B7.1,intron_variant,,ENST00000562817,;GS1-279B7.1,downstream_gene_variant,,ENST00000565520,;"	"T"	"ENSG00000261024"	"ENST00000563533"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/635"	""	""	""	""	""	"1"	NA	-1	"GS1-279B7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"75910176-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0543478260869565	"WGS"	FALSE
"15644"	"PTGS2"	5743	"mskcc.org"	"GRCh37"	"1"	186646452	186646452	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.639+329C>A"	""	""	"ENST00000367468"	""	99	"72"	27	58	"58"	0	"PTGS2,intron_variant,,ENST00000367468,NM_000963.2;RP5-973M2.2,upstream_gene_variant,,ENST00000608917,;PTGS2,intron_variant,,ENST00000490885,;PTGS2,upstream_gene_variant,,ENST00000466691,;PTGS2,downstream_gene_variant,,ENST00000559800,;PTGS2,intron_variant,,ENST00000559627,;"	"T"	"ENSG00000073756"	"ENST00000367468"	"Transcript"	"intron_variant"	"-/4514"	"-/1815"	"-/604"	""	""	""	"1"	NA	-1	"PTGS2"	"HGNC"	9605	"protein_coding"	"YES"	"CCDS1371.1"	"ENSP00000356438"	"P35354"	"D9MWI3"	"UPI000000D926"	"NM_000963.2"	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75913010-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"15645"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	188091645	188091645	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	130	"109"	21	80	"80"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"75916e54-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161538461538462	"WGS"	FALSE
"15646"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	188418008	188418008	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"97"	24	69	"69"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"759181c8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.198347107438017	"WGS"	FALSE
"15647"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	189924724	189924724	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	151	"122"	29	77	"77"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7591c1f6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19205298013245	"WGS"	FALSE
"15648"	"BRINP3"	339479	"mskcc.org"	"GRCh37"	"1"	190370227	190370227	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.236+53558G>T"	""	""	"ENST00000367462"	""	128	"103"	25	71	"71"	0	"BRINP3,intron_variant,,ENST00000367462,NM_199051.1;BRINP3,intron_variant,,ENST00000534846,;"	"A"	"ENSG00000162670"	"ENST00000367462"	"Transcript"	"intron_variant"	"-/2889"	"-/2301"	"-/766"	""	""	""	"1"	NA	-1	"BRINP3"	"HGNC"	22393	"protein_coding"	"YES"	"CCDS1373.1"	"ENSP00000356432"	"Q76B58"	""	"UPI00001C1D9A"	"NM_199051.1"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7591ce58-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1953125	"WGS"	FALSE
"15649"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	191598001	191598001	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	130	"122"	8	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"759200f8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0615384615384615	"WGS"	FALSE
"15650"	"RGS18"	64407	"mskcc.org"	"GRCh37"	"1"	192137660	192137660	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.283+8091C>T"	""	""	"ENST00000367460"	""	117	"110"	7	81	"81"	0	"RGS18,intron_variant,,ENST00000367460,NM_130782.2;RGS18,intron_variant,,ENST00000492967,;RGS18,downstream_gene_variant,,ENST00000481707,;"	"T"	"ENSG00000150681"	"ENST00000367460"	"Transcript"	"intron_variant"	"-/2150"	"-/708"	"-/235"	""	""	""	"1"	NA	1	"RGS18"	"HGNC"	14261	"protein_coding"	"YES"	"CCDS1374.1"	"ENSP00000356430"	"Q9NS28"	""	"UPI0000044571"	"NM_130782.2"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"75921778-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0598290598290598	"WGS"	FALSE
"15651"	"RP11-142L4.3"	0	"mskcc.org"	"GRCh37"	"1"	192220555	192220555	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000431492"	""	116	"108"	8	72	"72"	0	"RP11-142L4.3,upstream_gene_variant,,ENST00000431492,;RP11-142L4.2,downstream_gene_variant,,ENST00000422071,;"	"T"	"ENSG00000226723"	"ENST00000431492"	"Transcript"	"upstream_gene_variant"	"-/780"	""	""	""	""	""	"1"	"3938"	-1	"RP11-142L4.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"759221be-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"15652"	"RGS21"	431704	"mskcc.org"	"GRCh37"	"1"	192288939	192288939	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-61+2704C>T"	""	""	"ENST00000417209"	""	128	"98"	30	58	"58"	0	"RGS21,intron_variant,,ENST00000417209,NM_001039152.3;"	"T"	"ENSG00000253148"	"ENST00000417209"	"Transcript"	"intron_variant"	"-/1794"	"-/459"	"-/152"	""	""	""	"1"	NA	1	"RGS21"	"HGNC"	26839	"protein_coding"	"YES"	"CCDS41448.1"	"ENSP00000428343"	"Q2M5E4"	""	"UPI0000682FB1"	"NM_001039152.3"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"759225e2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234375	"WGS"	FALSE
"15653"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	193484905	193484905	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"98"	19	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"75924f7c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162393162393162	"WGS"	FALSE
"15654"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	195352936	195352936	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"103"	10	56	"56"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"75929748-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0884955752212389	"WGS"	FALSE
"15655"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	195853768	195853768	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	130	"105"	25	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7592a418-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WGS"	FALSE
"15656"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	196989798	196989798	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"87"	19	75	"75"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7592e658-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179245283018868	"WGS"	FALSE
"15657"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	198584275	198584275	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"79"	17	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"759322e4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177083333333333	"WGS"	FALSE
"15658"	"LINC00862"	554279	"mskcc.org"	"GRCh37"	"1"	200314314	200314314	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs189681328"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.551-1776G>A"	""	""	"ENST00000367355"	""	35	"27"	8	35	"35"	0	"LINC00862,intron_variant,,ENST00000367355,;LINC00862,intron_variant,,ENST00000367356,;"	"T"	"ENSG00000203721"	"ENST00000367355"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1417"	""	""	""	""	"rs189681328"	"1"	NA	-1	"LINC00862"	"HGNC"	21901	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7593548a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228571428571429	"WGS"	FALSE
"15659"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	200697173	200697173	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"68"	22	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"7593609c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244444444444444	"WGS"	FALSE
"15660"	"PTPRVP"	148713	"mskcc.org"	"GRCh37"	"1"	202142127	202142127	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1709+759A>G"	""	""	"ENST00000490225"	""	51	"46"	5	20	"20"	0	"PTPRVP,intron_variant,,ENST00000482597,;PTPRVP,intron_variant,,ENST00000490225,;"	"G"	"ENSG00000243323"	"ENST00000490225"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/5067"	""	""	""	""	""	"1"	NA	1	"PTPRVP"	"HGNC"	13421	"unitary_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"8/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"7593a9e4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0980392156862745	"WGS"	FALSE
"15661"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	202945207	202945207	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	53	"39"	14	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7593d400-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264150943396226	"WGS"	FALSE
"15662"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	203386570	203386570	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"71"	16	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"7593e396-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.183908045977011	"WGS"	FALSE
"15663"	"AC096645.1"	0	"mskcc.org"	"GRCh37"	"1"	203967370	203967370	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"rs769793072"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390128"	""	61	"50"	11	52	"52"	0	"AC096645.1,downstream_gene_variant,,ENST00000390128,;"	"A"	"ENSG00000211554"	"ENST00000390128"	"Transcript"	"downstream_gene_variant"	"-/99"	""	""	""	""	"rs769793072"	"1"	"1003"	-1	"AC096645.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"7594043e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180327868852459	"WGS"	FALSE
"15664"	"PLEKHA6"	22874	"mskcc.org"	"GRCh37"	"1"	204286284	204286284	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-94-42347A>G"	""	""	"ENST00000272203"	""	96	"86"	10	59	"59"	0	"PLEKHA6,intron_variant,,ENST00000272203,NM_014935.4;PLEKHA6,intron_variant,,ENST00000414478,;PLEKHA6,intron_variant,,ENST00000564627,;"	"C"	"ENSG00000143850"	"ENST00000272203"	"Transcript"	"intron_variant"	"-/7401"	"-/3147"	"-/1048"	""	""	""	"1"	NA	-1	"PLEKHA6"	"HGNC"	17053	"protein_coding"	"YES"	"CCDS1444.1"	"ENSP00000272203"	"Q9Y2H5"	""	"UPI000013D935"	"NM_014935.4"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"759416c2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104166666666667	"WGS"	FALSE
"15665"	"PM20D1"	148811	"mskcc.org"	"GRCh37"	"1"	205821197	205821197	"+"	"5'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000367136"	""	101	"78"	23	71	"71"	0	"PM20D1,upstream_gene_variant,,ENST00000367136,NM_152491.4;PM20D1,upstream_gene_variant,,ENST00000460624,;"	"G"	"ENSG00000162877"	"ENST00000367136"	"Transcript"	"upstream_gene_variant"	"-/2152"	"-/1509"	"-/502"	""	""	""	"1"	"1952"	-1	"PM20D1"	"HGNC"	26518	"protein_coding"	"YES"	"CCDS1460.1"	"ENSP00000356104"	"Q6GTS8"	""	"UPI00003665FD"	"NM_152491.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"75945150-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227722772277228	"WGS"	FALSE
"15666"	"PLXNA2"	5362	"mskcc.org"	"GRCh37"	"1"	208399421	208399421	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-80-8074G>T"	""	""	"ENST00000367033"	""	109	"89"	20	72	"72"	0	"PLXNA2,intron_variant,,ENST00000367033,NM_025179.3;PLXNA2,downstream_gene_variant,,ENST00000486969,;"	"A"	"ENSG00000076356"	"ENST00000367033"	"Transcript"	"intron_variant"	"-/11444"	"-/5685"	"-/1894"	""	""	""	"1"	NA	-1	"PLXNA2"	"HGNC"	9100	"protein_coding"	"YES"	"CCDS31013.1"	"ENSP00000356000"	"O75051"	""	"UPI000022B239"	"NM_025179.3"	""	""	""	"1/31"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"7594cbee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.18348623853211	"WGS"	FALSE
"15667"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	208636640	208636640	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"98"	7	84	"84"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"7594d378-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"15668"	"RP11-565N2.2"	0	"mskcc.org"	"GRCh37"	"1"	208798434	208798434	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000567538"	""	96	"69"	27	74	"73"	1	"RP11-565N2.2,downstream_gene_variant,,ENST00000567538,;"	"T"	"ENSG00000259815"	"ENST00000567538"	"Transcript"	"downstream_gene_variant"	"-/285"	""	""	""	""	""	"1"	"1652"	-1	"RP11-565N2.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7594d72e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28125	"WGS"	FALSE
"15669"	"RP11-61J19.4"	0	"mskcc.org"	"GRCh37"	"1"	212734897	212734897	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000564287"	""	104	"71"	33	59	"59"	0	"ATF3,upstream_gene_variant,,ENST00000366987,NM_001030287.3;ATF3,upstream_gene_variant,,ENST00000366981,;RP11-61J19.4,downstream_gene_variant,,ENST00000564287,;"	"A"	"ENSG00000260805"	"ENST00000564287"	"Transcript"	"downstream_gene_variant"	"-/1899"	""	""	""	""	""	"1"	"1824"	1	"RP11-61J19.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75955c26-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317307692307692	"WGS"	FALSE
"15670"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	212813608	212813608	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"56"	14	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"75955ee2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"15671"	"RP11-554K11.2"	0	"mskcc.org"	"GRCh37"	"1"	213685621	213685621	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.275+19703G>A"	""	""	"ENST00000417161"	""	104	"79"	25	65	"64"	1	"RP11-554K11.2,intron_variant,,ENST00000417161,;"	"A"	"ENSG00000225233"	"ENST00000417161"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/440"	""	""	""	""	""	"1"	NA	1	"RP11-554K11.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"75957e36-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240384615384615	"WGS"	FALSE
"15672"	"USH2A"	7399	"mskcc.org"	"GRCh37"	"1"	216298080	216298080	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4628-27525G>A"	""	""	"ENST00000307340"	""	128	"94"	34	51	"51"	0	"USH2A,intron_variant,,ENST00000366943,;USH2A,intron_variant,,ENST00000307340,NM_206933.2;"	"T"	"ENSG00000042781"	"ENST00000307340"	"Transcript"	"intron_variant"	"-/18883"	"-/15609"	"-/5202"	""	""	""	"1"	NA	-1	"USH2A"	"HGNC"	12601	"protein_coding"	"YES"	"CCDS31025.1"	"ENSP00000305941"	"O75445"	""	"UPI000034E5B6"	"NM_206933.2"	""	""	""	"21/71"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"7595cac6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265625	"WGS"	FALSE
"15673"	"RP11-400N13.1"	0	"mskcc.org"	"GRCh37"	"1"	222340982	222340982	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.278+50739T>A"	""	""	"ENST00000416510"	""	101	"82"	19	55	"55"	0	"RP11-400N13.1,intron_variant,,ENST00000416510,;"	"T"	"ENSG00000236230"	"ENST00000416510"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/675"	""	""	""	""	""	"1"	NA	-1	"RP11-400N13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"75968b50-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188118811881188	"WGS"	FALSE
"15674"	"RP11-504P24.2"	0	"mskcc.org"	"GRCh37"	"1"	224171533	224171533	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.177-546C>T"	""	""	"ENST00000431663"	""	47	"39"	8	39	"39"	0	"RP11-504P24.2,intron_variant,,ENST00000431663,;"	"A"	"ENSG00000232372"	"ENST00000431663"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/360"	""	""	""	""	""	"1"	NA	-1	"RP11-504P24.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7596f9b4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170212765957447	"WGS"	FALSE
"15675"	"RP11-504P24.2"	0	"mskcc.org"	"GRCh37"	"1"	224171565	224171565	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.177-578G>A"	""	""	"ENST00000431663"	""	40	"32"	8	35	"35"	0	"RP11-504P24.2,intron_variant,,ENST00000431663,;"	"T"	"ENSG00000232372"	"ENST00000431663"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/360"	""	""	""	""	""	"1"	NA	-1	"RP11-504P24.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7596fa22-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"15676"	"TMEM78"	0	"mskcc.org"	"GRCh37"	"1"	229381033	229381033	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000323223"	""	81	"64"	17	50	"50"	0	"TMEM78,upstream_gene_variant,,ENST00000323223,;"	"C"	"ENSG00000177800"	"ENST00000323223"	"Transcript"	"upstream_gene_variant"	"-/2175"	"-/411"	"-/136"	""	""	""	"1"	"4350"	1	"TMEM78"	"HGNC"	32307	"protein_coding"	"YES"	""	"ENSP00000324799"	"Q5T7P6"	""	"UPI0000141045"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7597ce0c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209876543209877	"WGS"	FALSE
"15677"	"RN7SKP276"	0	"mskcc.org"	"GRCh37"	"1"	229549493	229549493	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516242"	""	68	"54"	14	56	"56"	0	"RN7SKP276,upstream_gene_variant,,ENST00000516242,;"	"A"	"ENSG00000252051"	"ENST00000516242"	"Transcript"	"upstream_gene_variant"	"-/268"	""	""	""	""	""	"1"	"2979"	-1	"RN7SKP276"	"HGNC"	46000	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7597d082-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205882352941176	"WGS"	FALSE
"15678"	"SIPA1L2"	57568	"mskcc.org"	"GRCh37"	"1"	232552810	232552810	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4631-1439G>C"	""	""	"ENST00000366630"	""	104	"79"	25	62	"62"	0	"SIPA1L2,intron_variant,,ENST00000366630,;SIPA1L2,intron_variant,,ENST00000262861,NM_020808.3;SIPA1L2,intron_variant,,ENST00000308942,;SIPA1L2,upstream_gene_variant,,ENST00000495863,;"	"G"	"ENSG00000116991"	"ENST00000366630"	"Transcript"	"intron_variant"	"-/6690"	"-/5169"	"-/1722"	""	""	""	"1"	NA	-1	"SIPA1L2"	"HGNC"	23800	"protein_coding"	"YES"	"CCDS41474.1"	"ENSP00000355589"	"Q9P2F8"	""	"UPI00001D7D6A"	""	""	""	""	"17/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7598458a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240384615384615	"WGS"	FALSE
"15679"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	233920386	233920386	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"73"	10	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7598724e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120481927710843	"WGS"	FALSE
"15680"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	238199685	238199685	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	53	"35"	18	52	"52"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"75994598-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.339622641509434	"WGS"	FALSE
"15681"	"RP11-177F15.1"	0	"mskcc.org"	"GRCh37"	"1"	238705085	238705085	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000442726"	""	77	"69"	8	33	"33"	0	"RP11-177F15.1,downstream_gene_variant,,ENST00000442726,;"	"T"	"ENSG00000231877"	"ENST00000442726"	"Transcript"	"downstream_gene_variant"	"-/2900"	""	""	""	""	""	"1"	"3480"	1	"RP11-177F15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7599563c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103896103896104	"WGS"	FALSE
"15682"	"MIPEPP2"	0	"mskcc.org"	"GRCh37"	"1"	238940928	238940928	"+"	"RNA"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1240G>A"	""	""	"ENST00000422560"	"2/2"	136	"100"	36	67	"67"	0	"MIPEPP2,non_coding_transcript_exon_variant,,ENST00000422560,;"	"T"	"ENSG00000224783"	"ENST00000422560"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1240/1819"	""	""	""	""	""	"1"	NA	-1	"MIPEPP2"	"HGNC"	39457	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"75996320-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264705882352941	"WGS"	FALSE
"15683"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	239042268	239042268	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"69"	24	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"75996668-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258064516129032	"WGS"	FALSE
"15684"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	239326480	239326480	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"86"	7	68	"68"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"75996eec-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"15685"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	240088311	240088311	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs770430702"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"75"	15	73	"73"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs770430702"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"75998558-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"15686"	"FMN2"	56776	"mskcc.org"	"GRCh37"	"1"	240322173	240322173	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1783-19048T>A"	""	""	"ENST00000319653"	""	97	"79"	18	50	"50"	0	"FMN2,intron_variant,,ENST00000319653,NM_020066.4;FMN2,intron_variant,,ENST00000447095,;Y_RNA,upstream_gene_variant,,ENST00000365171,;"	"A"	"ENSG00000155816"	"ENST00000319653"	"Transcript"	"intron_variant"	"-/6434"	"-/5169"	"-/1722"	""	""	""	"1"	NA	1	"FMN2"	"HGNC"	14074	"protein_coding"	"YES"	"CCDS31069.2"	"ENSP00000318884"	"Q9NZ56"	"Q96L17,B4DN09"	"UPI00015FA087"	"NM_020066.4"	""	""	""	"2/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTT"	"75998ef4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185567010309278	"WGS"	FALSE
"15687"	"AL646016.1"	0	"mskcc.org"	"GRCh37"	"1"	240645580	240645580	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000596886"	""	89	"73"	16	60	"60"	0	"AL646016.1,upstream_gene_variant,,ENST00000596886,;"	"A"	"ENSG00000268365"	"ENST00000596886"	"Transcript"	"upstream_gene_variant"	"-/69"	"-/69"	"-/23"	""	""	""	"1"	"2076"	-1	"AL646016.1"	"Clone_based_ensembl_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000472840"	""	"M0R2V9"	"UPI00015E0D50"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7599a600-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179775280898876	"WGS"	FALSE
"15688"	"RGS7"	6000	"mskcc.org"	"GRCh37"	"1"	241309994	241309994	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.79-47932T>A"	""	""	"ENST00000366565"	""	88	"67"	21	62	"62"	0	"RGS7,intron_variant,,ENST00000366565,NM_002924.4;RGS7,intron_variant,,ENST00000366564,NM_001282778.1;RGS7,intron_variant,,ENST00000446183,;RGS7,intron_variant,,ENST00000366563,NM_001282775.1;RGS7,intron_variant,,ENST00000348120,NM_001282773.1;RGS7,intron_variant,,ENST00000407727,;RGS7,intron_variant,,ENST00000366562,;RGS7,intron_variant,,ENST00000401882,;RGS7,upstream_gene_variant,,ENST00000331110,;"	"T"	"ENSG00000182901"	"ENST00000366565"	"Transcript"	"intron_variant"	"-/2494"	"-/1464"	"-/487"	""	""	""	"1"	NA	-1	"RGS7"	"HGNC"	10003	"protein_coding"	"YES"	"CCDS31071.1"	"ENSP00000355523"	"P49802"	""	"UPI000040E182"	"NM_002924.4"	""	""	""	"2/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7599bfb4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238636363636364	"WGS"	FALSE
"15689"	"PLD5"	200150	"mskcc.org"	"GRCh37"	"1"	242616903	242616903	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.189+70487C>A"	""	""	"ENST00000536534"	""	105	"78"	27	52	"51"	1	"PLD5,intron_variant,,ENST00000536534,;PLD5,intron_variant,,ENST00000442594,NM_152666.2;PLD5,upstream_gene_variant,,ENST00000427495,NM_001195811.1,NM_001195812.1;PLD5,upstream_gene_variant,,ENST00000459864,;PLD5,intron_variant,,ENST00000366545,;PLD5,intron_variant,,ENST00000467561,;PLD5,upstream_gene_variant,,ENST00000314833,;"	"T"	"ENSG00000180287"	"ENST00000536534"	"Transcript"	"intron_variant"	"-/8721"	"-/1611"	"-/536"	""	""	""	"1"	NA	-1	"PLD5"	"HGNC"	26879	"protein_coding"	"YES"	"CCDS1621.2"	"ENSP00000440896"	"Q8N7P1"	"J3KP61"	"UPI000040E1A4"	""	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"7599f272-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257142857142857	"WGS"	FALSE
"15690"	"SDCCAG8"	10806	"mskcc.org"	"GRCh37"	"1"	243602847	243602847	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1985+12987A>C"	""	""	"ENST00000366541"	""	104	"86"	18	52	"52"	0	"SDCCAG8,intron_variant,,ENST00000366541,NM_006642.3;SDCCAG8,intron_variant,,ENST00000355875,;SDCCAG8,intron_variant,,ENST00000343783,;SDCCAG8,intron_variant,,ENST00000435549,;SDCCAG8,intron_variant,,ENST00000463042,;"	"C"	"ENSG00000054282"	"ENST00000366541"	"Transcript"	"intron_variant"	"-/2567"	"-/2142"	"-/713"	""	""	""	"1"	NA	1	"SDCCAG8"	"HGNC"	10671	"protein_coding"	"YES"	"CCDS31075.1"	"ENSP00000355499"	"Q86SQ7"	"A6NCS9"	"UPI000000D77E"	"NM_006642.3"	""	""	""	"16/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAA"	"759a2936-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173076923076923	"WGS"	FALSE
"15691"	"AKT3"	10000	"mskcc.org"	"GRCh37"	"1"	243751044	243751044	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.697-14694A>G"	""	""	"ENST00000263826"	""	87	"78"	9	66	"66"	0	"AKT3,intron_variant,,ENST00000366539,;AKT3,intron_variant,,ENST00000263826,NM_005465.4;AKT3,intron_variant,,ENST00000336199,NM_181690.2;AKT3,intron_variant,,ENST00000366540,NM_001206729.1;"	"C"	"ENSG00000117020"	"ENST00000263826"	"Transcript"	"intron_variant"	"-/3588"	"-/1440"	"-/479"	""	""	""	"1"	NA	-1	"AKT3"	"HGNC"	393	"protein_coding"	""	"CCDS31077.1"	"ENSP00000263826"	"Q9Y243"	"F8VS91"	"UPI00000335E8"	"NM_005465.4"	""	""	""	"7/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"759a2b48-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"15692"	"SMYD3"	64754	"mskcc.org"	"GRCh37"	"1"	246555309	246555309	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.165-36913T>C"	""	""	"ENST00000388985"	""	83	"64"	19	47	"47"	0	"SMYD3,intron_variant,,ENST00000490107,NM_001167740.1;SMYD3,intron_variant,,ENST00000541742,NM_022743.2;SMYD3,intron_variant,,ENST00000388985,;SMYD3,intron_variant,,ENST00000403792,;SMYD3,intron_variant,,ENST00000455277,;SMYD3,intron_variant,,ENST00000470863,;SMYD3,intron_variant,,ENST00000462422,;"	"G"	"ENSG00000185420"	"ENST00000388985"	"Transcript"	"intron_variant"	"-/1287"	"-/1287"	"-/428"	""	""	""	"1"	NA	-1	"SMYD3"	"HGNC"	15513	"protein_coding"	"YES"	"CCDS53486.1"	"ENSP00000373637"	"Q9H7B4"	"B3KN46,B0QZA0,B0QZ99,A8MXR1"	"UPI000022AFDA"	""	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"759ab446-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228915662650602	"WGS"	FALSE
"15693"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	247442162	247442162	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"65"	7	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"759ae678-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0972222222222222	"WGS"	FALSE
"15694"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	247442176	247442176	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"67"	4	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"759ae74a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0563380281690141	"WGS"	FALSE
"15695"	"OR2L13"	284521	"mskcc.org"	"GRCh37"	"1"	248234776	248234776	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-143-27177T>A"	""	""	"ENST00000366478"	""	102	"82"	20	46	"46"	0	"OR2L13,intron_variant,,ENST00000366478,NM_175911.2;"	"A"	"ENSG00000196071"	"ENST00000366478"	"Transcript"	"intron_variant"	"-/1883"	"-/939"	"-/312"	""	""	""	"1"	NA	1	"OR2L13"	"HGNC"	19578	"protein_coding"	"YES"	"CCDS1637.1"	"ENSP00000355434"	"Q8N349"	""	"UPI0000043517"	"NM_175911.2"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"759b0a86-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196078431372549	"WGS"	FALSE
"15696"	"DIP2C"	22982	"mskcc.org"	"GRCh37"	"10"	422514	422514	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1991+6073A>T"	""	""	"ENST00000280886"	""	87	"81"	6	47	"47"	0	"DIP2C,intron_variant,,ENST00000280886,NM_014974.2;DIP2C,intron_variant,,ENST00000381496,;DIP2C,intron_variant,,ENST00000421992,;DIP2C,upstream_gene_variant,,ENST00000540204,;"	"A"	"ENSG00000151240"	"ENST00000280886"	"Transcript"	"intron_variant"	"-/7894"	"-/4671"	"-/1556"	""	""	""	"1"	NA	-1	"DIP2C"	"HGNC"	29150	"protein_coding"	"YES"	"CCDS7054.1"	"ENSP00000280886"	"Q9Y2E4"	""	"UPI00001833B9"	"NM_014974.2"	""	""	""	"17/36"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"759bba3a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"15697"	"DIP2C"	22982	"mskcc.org"	"GRCh37"	"10"	703405	703405	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.85+32029C>G"	""	""	"ENST00000280886"	""	14	"11"	3	9	"9"	0	"DIP2C,intron_variant,,ENST00000280886,NM_014974.2;PRR26,intron_variant,,ENST00000381489,;DIP2C,intron_variant,,ENST00000423550,;PRR26,downstream_gene_variant,,ENST00000441152,;"	"C"	"ENSG00000151240"	"ENST00000280886"	"Transcript"	"intron_variant"	"-/7894"	"-/4671"	"-/1556"	""	""	""	"1"	NA	-1	"DIP2C"	"HGNC"	29150	"protein_coding"	"YES"	"CCDS7054.1"	"ENSP00000280886"	"Q9Y2E4"	""	"UPI00001833B9"	"NM_014974.2"	""	""	""	"1/36"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"759c1f70-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"15698"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	826787	826787	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"73"	7	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"759c3dde-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0875	"WGS"	FALSE
"15699"	"AKR1E2"	83592	"mskcc.org"	"GRCh37"	"10"	4843694	4843694	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-27+14742G>C"	""	""	"ENST00000533295"	""	85	"61"	24	63	"63"	0	"AKR1E2,intron_variant,,ENST00000533295,;AKR1E2,intron_variant,,ENST00000462718,;"	"C"	"ENSG00000165568"	"ENST00000533295"	"Transcript"	"intron_variant"	"-/754"	"-/596"	"-/198"	""	""	""	"1"	NA	1	"AKR1E2"	"HGNC"	23437	"protein_coding"	""	""	"ENSP00000435436"	""	"E9PK93"	"UPI0001F77F33"	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"759daebc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282352941176471	"WGS"	FALSE
"15700"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	6721396	6721396	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"83"	17	76	"76"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"759e1262-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.17	"WGS"	FALSE
"15701"	"CACNB2"	783	"mskcc.org"	"GRCh37"	"10"	18785258	18785258	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.334-2026C>T"	""	""	"ENST00000324631"	""	71	"65"	6	67	"67"	0	"CACNB2,intron_variant,,ENST00000396576,NM_000724.3;CACNB2,intron_variant,,ENST00000282343,NM_201571.3,NM_001167945.1;CACNB2,intron_variant,,ENST00000377315,NM_201570.2;CACNB2,intron_variant,,ENST00000324631,NM_201593.2,NM_201596.2;CACNB2,intron_variant,,ENST00000377329,NM_201590.2;CACNB2,intron_variant,,ENST00000377319,;CACNB2,intron_variant,,ENST00000352115,NM_201597.2;CACNB2,intron_variant,,ENST00000377331,NM_201572.3;CACNB2,intron_variant,,ENST00000377328,;CACNB2,intron_variant,,ENST00000498816,;"	"T"	"ENSG00000165995"	"ENST00000324631"	"Transcript"	"intron_variant"	"-/3446"	"-/1983"	"-/660"	""	""	""	"1"	NA	1	"CACNB2"	"HGNC"	1402	"protein_coding"	"YES"	"CCDS7125.1"	"ENSP00000320025"	"Q08289"	""	"UPI00001AEA80"	"NM_201593.2,NM_201596.2"	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"759fef9c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"15702"	"AIFM1P1"	0	"mskcc.org"	"GRCh37"	"10"	19027402	19027402	"+"	"RNA"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1683G>A"	""	""	"ENST00000413342"	"2/2"	85	"74"	11	41	"41"	0	"AIFM1P1,non_coding_transcript_exon_variant,,ENST00000413342,;"	"A"	"ENSG00000225509"	"ENST00000413342"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1683/1841"	""	""	""	""	""	"1"	NA	1	"AIFM1P1"	"HGNC"	44884	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"759ffa3c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129411764705882	"WGS"	FALSE
"15703"	"MALRD1"	0	"mskcc.org"	"GRCh37"	"10"	19506701	19506701	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.918+8092C>T"	""	""	"ENST00000377266"	""	92	"85"	7	55	"55"	0	"MALRD1,intron_variant,,ENST00000454679,;MALRD1,intron_variant,,ENST00000377266,;"	"T"	"ENSG00000204740"	"ENST00000377266"	"Transcript"	"intron_variant"	"-/4461"	"-/4461"	"-/1486"	""	""	""	"1"	NA	1	"MALRD1"	"HGNC"	24331	"protein_coding"	"YES"	""	"ENSP00000366477"	""	"U5GXS0"	"UPI000191551D"	""	""	""	""	"4/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75a01328-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"15704"	"PIP4K2A"	5305	"mskcc.org"	"GRCh37"	"10"	22992464	22992464	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.144+10648A>G"	""	""	"ENST00000376573"	""	109	"79"	30	68	"68"	0	"PIP4K2A,intron_variant,,ENST00000376573,NM_005028.4;PIP4K2A,intron_variant,,ENST00000545335,;"	"C"	"ENSG00000150867"	"ENST00000376573"	"Transcript"	"intron_variant"	"-/3802"	"-/1221"	"-/406"	""	""	""	"1"	NA	-1	"PIP4K2A"	"HGNC"	8997	"protein_coding"	"YES"	"CCDS7141.1"	"ENSP00000365757"	"P48426"	"S4R320,B4DGX2"	"UPI0000001052"	"NM_005028.4"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"75a08286-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275229357798165	"WGS"	FALSE
"15705"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	23771650	23771650	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"36"	13	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75a09d20-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26530612244898	"WGS"	FALSE
"15706"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	23836604	23836604	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"73"	21	44	"44"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"75a09df2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223404255319149	"WGS"	FALSE
"15707"	"KIAA1217"	56243	"mskcc.org"	"GRCh37"	"10"	24601726	24601726	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.355-68072C>G"	""	""	"ENST00000376454"	""	69	"61"	8	59	"59"	0	"KIAA1217,intron_variant,,ENST00000376454,NM_019590.3;KIAA1217,intron_variant,,ENST00000376462,NM_001098500.1;KIAA1217,intron_variant,,ENST00000458595,NM_001098501.1,NM_001282768.1;KIAA1217,intron_variant,,ENST00000376452,NM_001282767.1;KIAA1217,intron_variant,,ENST00000376456,;KIAA1217,intron_variant,,ENST00000438429,;KIAA1217,intron_variant,,ENST00000430453,;"	"G"	"ENSG00000120549"	"ENST00000376454"	"Transcript"	"intron_variant"	"-/7381"	"-/5832"	"-/1943"	""	""	""	"1"	NA	1	"KIAA1217"	"HGNC"	25428	"protein_coding"	"YES"	"CCDS31165.1"	"ENSP00000365637"	"Q5T5P2"	""	"UPI000013EC2A"	"NM_019590.3"	""	""	""	"2/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"75a0b238-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115942028985507	"WGS"	FALSE
"15708"	"GPR158"	57512	"mskcc.org"	"GRCh37"	"10"	25589470	25589470	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1008+79384T>C"	""	""	"ENST00000376351"	""	125	"94"	31	52	"52"	0	"GPR158,intron_variant,,ENST00000376351,NM_020752.2;"	"C"	"ENSG00000151025"	"ENST00000376351"	"Transcript"	"intron_variant"	"-/6959"	"-/3648"	"-/1215"	""	""	""	"1"	NA	1	"GPR158"	"HGNC"	23689	"protein_coding"	"YES"	"CCDS31166.1"	"ENSP00000365529"	"Q5T848"	""	"UPI0000199875"	"NM_020752.2"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75a0ccc8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.248	"WGS"	FALSE
"15709"	"ZNF438"	220929	"mskcc.org"	"GRCh37"	"10"	31224206	31224206	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-244+6298C>A"	""	""	"ENST00000436087"	""	103	"74"	29	60	"60"	0	"ZNF438,intron_variant,,ENST00000452305,NM_001143770.1;ZNF438,intron_variant,,ENST00000436087,NM_001143766.1;ZNF438,intron_variant,,ENST00000538351,NM_001143769.1;ZNF438,intron_variant,,ENST00000442986,NM_182755.2,NM_001143768.1;ZNF438,intron_variant,,ENST00000331737,NM_001143771.1;ZNF438,intron_variant,,ENST00000361310,;ZNF438,intron_variant,,ENST00000413025,NM_001143767.1;ZNF438,intron_variant,,ENST00000375311,;"	"T"	"ENSG00000183621"	"ENST00000436087"	"Transcript"	"intron_variant"	"-/3293"	"-/2487"	"-/828"	""	""	""	"1"	NA	-1	"ZNF438"	"HGNC"	21029	"protein_coding"	"YES"	"CCDS7168.1"	"ENSP00000406934"	"Q7Z4V0"	"Q5T427"	"UPI00001B3D8F"	"NM_001143766.1"	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"75a1bcb4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.281553398058252	"WGS"	FALSE
"15710"	"ARHGAP12"	94134	"mskcc.org"	"GRCh37"	"10"	32172094	32172094	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.685-21508T>C"	""	""	"ENST00000344936"	""	76	"70"	6	52	"52"	0	"ARHGAP12,intron_variant,,ENST00000375250,NM_001270696.1,NM_001270698.1;ARHGAP12,intron_variant,,ENST00000311380,NM_001270699.1;ARHGAP12,intron_variant,,ENST00000344936,NM_001270697.1,NM_018287.6;ARHGAP12,intron_variant,,ENST00000396144,NM_001270695.1;ARHGAP12,intron_variant,,ENST00000375245,;"	"G"	"ENSG00000165322"	"ENST00000344936"	"Transcript"	"intron_variant"	"-/4128"	"-/2541"	"-/846"	""	""	""	"1"	NA	-1	"ARHGAP12"	"HGNC"	16348	"protein_coding"	"YES"	"CCDS7170.1"	"ENSP00000345808"	"Q8IWW6"	"D3DRX4"	"UPI000007445E"	"NM_001270697.1,NM_018287.6"	""	""	""	"3/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"75a1da50-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"15711"	"ARHGAP12"	94134	"mskcc.org"	"GRCh37"	"10"	32172116	32172116	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.685-21530G>C"	""	""	"ENST00000344936"	""	68	"63"	5	57	"57"	0	"ARHGAP12,intron_variant,,ENST00000375250,NM_001270696.1,NM_001270698.1;ARHGAP12,intron_variant,,ENST00000311380,NM_001270699.1;ARHGAP12,intron_variant,,ENST00000344936,NM_001270697.1,NM_018287.6;ARHGAP12,intron_variant,,ENST00000396144,NM_001270695.1;ARHGAP12,intron_variant,,ENST00000375245,;"	"G"	"ENSG00000165322"	"ENST00000344936"	"Transcript"	"intron_variant"	"-/4128"	"-/2541"	"-/846"	""	""	""	"1"	NA	-1	"ARHGAP12"	"HGNC"	16348	"protein_coding"	"YES"	"CCDS7170.1"	"ENSP00000345808"	"Q8IWW6"	"D3DRX4"	"UPI000007445E"	"NM_001270697.1,NM_018287.6"	""	""	""	"3/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"75a1dab4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0735294117647059	"WGS"	FALSE
"15712"	"C10ORF68"	79741	"mskcc.org"	"GRCh37"	"10"	32968097	32968097	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.44-6801A>G"	""	""	"ENST00000302316"	""	91	"68"	23	65	"65"	0	"C10ORF68,intron_variant,,ENST00000375030,;C10ORF68,intron_variant,,ENST00000375028,;C10ORF68,intron_variant,,ENST00000375025,;C10ORF68,intron_variant,,ENST00000302316,NM_024688.2;"	"G"	"ENSG00000150076"	"ENST00000302316"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/2729"	"-/1887"	"-/628"	""	""	""	"1"	NA	1	"C10ORF68"	"Uniprot_gn"	NA	"nonsense_mediated_decay"	"YES"	"CCDS31177.1"	"ENSP00000303710"	"Q9H943"	""	"UPI000049DCE8"	"NM_024688.2"	""	""	""	"3/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"75a1f490-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252747252747253	"WGS"	FALSE
"15713"	"ENSR00001604351"	0	"mskcc.org"	"GRCh37"	"10"	33773080	33773080	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001604351"	""	80	"65"	15	49	"49"	0	""	"A"	""	"ENSR00001604351"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75a20926-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"15714"	"PARD3"	56288	"mskcc.org"	"GRCh37"	"10"	34951611	34951611	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.222+33635G>T"	""	""	"ENST00000374789"	""	72	"55"	17	60	"59"	1	"PARD3,intron_variant,,ENST00000374789,NM_019619.3;PARD3,intron_variant,,ENST00000374788,NM_001184785.1;PARD3,intron_variant,,ENST00000545693,NM_001184786.1;PARD3,intron_variant,,ENST00000346874,NM_001184787.1;PARD3,intron_variant,,ENST00000350537,NM_001184788.1,NM_001184789.1;PARD3,intron_variant,,ENST00000374790,;PARD3,intron_variant,,ENST00000545260,NM_001184790.1;PARD3,intron_variant,,ENST00000374794,NM_001184791.1;PARD3,intron_variant,,ENST00000340077,NM_001184792.1;PARD3,intron_variant,,ENST00000374773,NM_001184793.1;PARD3,intron_variant,,ENST00000374776,NM_001184794.1;RP11-8L18.3,downstream_gene_variant,,ENST00000411602,;"	"A"	"ENSG00000148498"	"ENST00000374789"	"Transcript"	"intron_variant"	"-/6005"	"-/4071"	"-/1356"	""	""	""	"1"	NA	-1	"PARD3"	"HGNC"	16051	"protein_coding"	"YES"	"CCDS7178.1"	"ENSP00000363921"	"Q8TEW0"	""	"UPI0000073A9F"	"NM_019619.3"	""	""	""	"2/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"75a228c0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236111111111111	"WGS"	FALSE
"15715"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	35223794	35223794	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	36	"31"	5	29	"29"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"75a2355e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138888888888889	"WGS"	FALSE
"15716"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	37959370	37959370	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"91"	13	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"75a2a052-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"15717"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	38211080	38211080	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs755070595"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"62"	13	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs755070595"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75a2a782-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173333333333333	"WGS"	FALSE
"15718"	"RP11-313J2.1"	441666	"mskcc.org"	"GRCh37"	"10"	42842330	42842330	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.160-6326C>A"	""	""	"ENST00000609841"	""	93	"75"	18	63	"63"	0	"RP11-313J2.1,intron_variant,,ENST00000609841,;RP11-313J2.1,intron_variant,,ENST00000609034,;RP11-313J2.1,intron_variant,,ENST00000423987,;"	"T"	"ENSG00000215146"	"ENST00000609841"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/6590"	""	""	""	""	""	"1"	NA	-1	"RP11-313J2.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"75a41ea0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193548387096774	"WGS"	FALSE
"15719"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	45243418	45243418	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"65"	19	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75a46950-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226190476190476	"WGS"	FALSE
"15720"	"MARCH8"	220972	"mskcc.org"	"GRCh37"	"10"	45972262	45972262	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.154-12487A>C"	""	""	"ENST00000395771"	""	101	"78"	23	60	"60"	0	"MARCH8,intron_variant,,ENST00000453424,NM_001282866.1;MARCH8,intron_variant,,ENST00000395771,NM_001002265.1;MARCH8,intron_variant,,ENST00000319836,NM_145021.4;MARCH8,intron_variant,,ENST00000395769,NM_001002266.1;MARCH8,intron_variant,,ENST00000453980,;MARCH8,intron_variant,,ENST00000602712,;"	"G"	"ENSG00000165406"	"ENST00000395771"	"Transcript"	"intron_variant"	"-/2589"	"-/876"	"-/291"	""	""	""	"1"	NA	-1	"MARCH8"	"HGNC"	23356	"protein_coding"	"YES"	"CCDS7213.1"	"ENSP00000379118"	"Q5T0T0"	""	"UPI000013E4A0"	"NM_001002265.1"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75a481ba-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227722772277228	"WGS"	FALSE
"15721"	"AGAP4"	119016	"mskcc.org"	"GRCh37"	"10"	46330115	46330115	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.328-551A>G"	""	""	"ENST00000448048"	""	13	"9"	4	11	"11"	0	"AGAP4,intron_variant,,ENST00000448048,NM_133446.2;AGAP4,intron_variant,,ENST00000492347,;AGAP4,intron_variant,,ENST00000430779,;"	"C"	"ENSG00000188234"	"ENST00000448048"	"Transcript"	"intron_variant"	"-/2439"	"-/1992"	"-/663"	""	""	""	"1"	NA	-1	"AGAP4"	"HGNC"	23459	"protein_coding"	"YES"	"CCDS7215.1"	"ENSP00000392513"	"Q96P64"	""	"UPI000013ED67"	"NM_133446.2"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"75a49150-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"15722"	"MAPK8"	5599	"mskcc.org"	"GRCh37"	"10"	49612147	49612147	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.123-748G>A"	""	""	"ENST00000374189"	""	90	"70"	20	58	"58"	0	"MAPK8,intron_variant,,ENST00000374189,;MAPK8,intron_variant,,ENST00000374182,NM_002750.3,NM_139049.2;MAPK8,intron_variant,,ENST00000374179,NM_139046.2,NM_001278547.1;MAPK8,intron_variant,,ENST00000374176,;MAPK8,intron_variant,,ENST00000360332,;MAPK8,intron_variant,,ENST00000395611,NM_001278548.1;MAPK8,intron_variant,,ENST00000432379,;MAPK8,intron_variant,,ENST00000426557,;MAPK8,intron_variant,,ENST00000374174,;MAPK8,intron_variant,,ENST00000429041,;MAPK8,intron_variant,,ENST00000476134,;"	"A"	"ENSG00000107643"	"ENST00000374189"	"Transcript"	"intron_variant"	"-/5796"	"-/1284"	"-/427"	""	""	""	"1"	NA	1	"MAPK8"	"HGNC"	6881	"protein_coding"	"YES"	"CCDS7224.1"	"ENSP00000363304"	"P45983"	"C9J762"	"UPI000012F17A"	""	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75a524da-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"15723"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	54564667	54564667	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"113"	7	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"75a5c20a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0583333333333333	"WGS"	FALSE
"15724"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	57461122	57461122	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"89"	29	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75a6305a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245762711864407	"WGS"	FALSE
"15725"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	57660782	57660782	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"59"	21	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"75a63622-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2625	"WGS"	FALSE
"15726"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	57927708	57927708	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"103"	8	74	"74"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"75a63de8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0720720720720721	"WGS"	FALSE
"15727"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	58950081	58950081	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"93"	21	75	"75"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"75a65d8c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184210526315789	"WGS"	FALSE
"15728"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	59629769	59629769	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"81"	35	74	"74"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"75a67858-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301724137931034	"WGS"	FALSE
"15729"	"IPMK"	253430	"mskcc.org"	"GRCh37"	"10"	59970954	59970954	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.546+4952A>C"	""	""	"ENST00000373935"	""	82	"74"	8	49	"49"	0	"IPMK,intron_variant,,ENST00000373935,NM_152230.4;TPT1P10,downstream_gene_variant,,ENST00000312966,;"	"G"	"ENSG00000151151"	"ENST00000373935"	"Transcript"	"intron_variant"	"-/6133"	"-/1251"	"-/416"	""	""	""	"1"	NA	-1	"IPMK"	"HGNC"	20739	"protein_coding"	"YES"	"CCDS7250.1"	"ENSP00000363046"	"Q8NFU5"	""	"UPI000006FB8E"	"NM_152230.4"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75a687bc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WGS"	FALSE
"15730"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	63299252	63299252	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"96"	25	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75a6f990-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206611570247934	"WGS"	FALSE
"15731"	"JMJD1C"	221037	"mskcc.org"	"GRCh37"	"10"	65008164	65008164	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.447+16247G>A"	""	""	"ENST00000399262"	""	83	"74"	9	63	"63"	0	"JMJD1C,intron_variant,,ENST00000399262,NM_032776.1;JMJD1C,intron_variant,,ENST00000399251,;JMJD1C,intron_variant,,ENST00000402544,NM_004241.2;JMJD1C,intron_variant,,ENST00000542921,NM_001282948.1;JMJD1C,intron_variant,,ENST00000489372,;JMJD1C,intron_variant,,ENST00000469152,;"	"T"	"ENSG00000171988"	"ENST00000399262"	"Transcript"	"intron_variant"	"-/8666"	"-/7623"	"-/2540"	""	""	""	"1"	NA	-1	"JMJD1C"	"HGNC"	12313	"protein_coding"	"YES"	"CCDS41532.1"	"ENSP00000382204"	"Q15652"	""	"UPI0000198BEF"	"NM_032776.1"	""	""	""	"3/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"75a72f6e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108433734939759	"WGS"	FALSE
"15732"	"RP11-170M17.1"	0	"mskcc.org"	"GRCh37"	"10"	65686205	65686205	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.495-63824C>T"	""	""	"ENST00000444770"	""	126	"104"	22	62	"62"	0	"RP11-170M17.1,intron_variant,,ENST00000444770,;"	"T"	"ENSG00000228566"	"ENST00000444770"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/794"	""	""	""	""	""	"1"	NA	1	"RP11-170M17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"75a7481e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174603174603175	"WGS"	FALSE
"15733"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	66785451	66785451	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"85"	26	77	"77"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"75a766a0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234234234234234	"WGS"	FALSE
"15734"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	67022346	67022346	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"75"	13	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"75a76f6a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147727272727273	"WGS"	FALSE
"15735"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	67654488	67654488	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"94"	12	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"75a780c2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113207547169811	"WGS"	FALSE
"15736"	"HERC4"	26091	"mskcc.org"	"GRCh37"	"10"	69690722	69690722	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2862+1632T>G"	""	""	"ENST00000395198"	""	74	"64"	10	40	"40"	0	"HERC4,intron_variant,,ENST00000395198,NM_022079.2;HERC4,intron_variant,,ENST00000277817,;HERC4,intron_variant,,ENST00000412272,NM_001278185.1;HERC4,intron_variant,,ENST00000373700,NM_015601.3,NM_001278186.1;HERC4,intron_variant,,ENST00000395187,;HERC4,intron_variant,,ENST00000427635,;HERC4,intron_variant,,ENST00000473533,;"	"C"	"ENSG00000148634"	"ENST00000395198"	"Transcript"	"intron_variant"	"-/4445"	"-/3174"	"-/1057"	""	""	""	"1"	NA	-1	"HERC4"	"HGNC"	24521	"protein_coding"	"YES"	"CCDS41533.1"	"ENSP00000378624"	"Q5GLZ8"	"D6RFK9"	"UPI00004C6F56"	"NM_022079.2"	""	""	""	"24/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"75a7bccc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135135135135135	"WGS"	FALSE
"15737"	"RUFY2"	55680	"mskcc.org"	"GRCh37"	"10"	70115607	70115607	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"rs202026747"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1656-449G>C"	""	""	"ENST00000388768"	""	41	"37"	4	37	"37"	0	"RUFY2,intron_variant,,ENST00000388768,NM_017987.4;RUFY2,intron_variant,,ENST00000602465,;RUFY2,intron_variant,,ENST00000265865,;RUFY2,intron_variant,,ENST00000463210,;RUFY2,intron_variant,,ENST00000484083,;RUFY2,upstream_gene_variant,,ENST00000473398,;RUFY2,intron_variant,,ENST00000466493,;"	"G"	"ENSG00000204130"	"ENST00000388768"	"Transcript"	"intron_variant"	"-/4512"	"-/1926"	"-/641"	""	""	"rs202026747"	"1"	NA	-1	"RUFY2"	"HGNC"	19761	"protein_coding"	"YES"	"CCDS41534.1"	"ENSP00000373420"	"Q8WXA3"	""	"UPI000046FD20"	"NM_017987.4"	""	""	""	"15/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"75a7cad2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WGS"	FALSE
"15738"	"snoU13"	0	"mskcc.org"	"GRCh37"	"10"	70467804	70467804	"+"	"5'Flank"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000516117"	""	51	"37"	14	31	"31"	0	"snoU13,upstream_gene_variant,,ENST00000516117,;"	"G"	"ENSG00000251926"	"ENST00000516117"	"Transcript"	"upstream_gene_variant"	"-/121"	""	""	""	""	""	"1"	"4911"	1	"snoU13"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"75a7d95a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274509803921569	"WGS"	FALSE
"15739"	"CHST3"	9469	"mskcc.org"	"GRCh37"	"10"	73753168	73753168	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-107-12326T>G"	""	""	"ENST00000373115"	""	85	"59"	26	50	"50"	0	"CHST3,intron_variant,,ENST00000373115,NM_004273.4;"	"G"	"ENSG00000122863"	"ENST00000373115"	"Transcript"	"intron_variant"	"-/6970"	"-/1440"	"-/479"	""	""	""	"1"	NA	1	"CHST3"	"HGNC"	1971	"protein_coding"	"YES"	"CCDS7312.1"	"ENSP00000362207"	"Q7LGC8"	""	"UPI000013CB04"	"NM_004273.4"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"75a84a16-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.305882352941176	"WGS"	FALSE
"15740"	"AP3M1"	26985	"mskcc.org"	"GRCh37"	"10"	75904416	75904416	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-4+6097C>T"	""	""	"ENST00000355264"	""	72	"56"	16	45	"45"	0	"AP3M1,intron_variant,,ENST00000355264,NM_012095.4;AP3M1,intron_variant,,ENST00000372745,NM_207012.2;AP3M1,intron_variant,,ENST00000487653,;"	"A"	"ENSG00000185009"	"ENST00000355264"	"Transcript"	"intron_variant"	"-/3613"	"-/1257"	"-/418"	""	""	""	"1"	NA	-1	"AP3M1"	"HGNC"	569	"protein_coding"	"YES"	"CCDS7342.1"	"ENSP00000347408"	"Q9Y2T2"	"Q8NDP0"	"UPI00000012A0"	"NM_012095.4"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75a89f98-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"15741"	"LINC00595"	414243	"mskcc.org"	"GRCh37"	"10"	80054843	80054843	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.109-6265C>A"	""	""	"ENST00000461034"	""	107	"79"	28	73	"73"	0	"LINC00595,intron_variant,,ENST00000461034,;LINC00856,intron_variant,,ENST00000432742,;LINC00595,intron_variant,,ENST00000459633,;RP11-90J7.2,intron_variant,,ENST00000434440,;"	"A"	"ENSG00000227136"	"ENST00000461034"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/804"	""	""	""	""	""	"1"	NA	1	"LINC00595"	"HGNC"	31430	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"75a91450-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261682242990654	"WGS"	FALSE
"15742"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	82467990	82467990	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"87"	25	65	"65"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"75a99664-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223214285714286	"WGS"	FALSE
"15743"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	83287437	83287437	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs569972461"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"80"	12	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs569972461"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75a9afc8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"15744"	"RP11-344L13.1"	0	"mskcc.org"	"GRCh37"	"10"	85491938	85491938	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000446320"	""	101	"80"	21	66	"66"	0	"RP11-344L13.1,upstream_gene_variant,,ENST00000446320,;"	"A"	"ENSG00000223565"	"ENST00000446320"	"Transcript"	"upstream_gene_variant"	"-/988"	""	""	""	""	""	"1"	"3324"	1	"RP11-344L13.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75a9f014-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207920792079208	"WGS"	FALSE
"15745"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	85800793	85800793	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"70"	10	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"75a9f640-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"15746"	"C10orf99"	387695	"mskcc.org"	"GRCh37"	"10"	85929471	85929471	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000372126"	""	110	"88"	22	75	"75"	0	"C10orf99,upstream_gene_variant,,ENST00000372126,NM_207373.2;"	"A"	"ENSG00000188373"	"ENST00000372126"	"Transcript"	"upstream_gene_variant"	"-/888"	"-/246"	"-/81"	""	""	""	"1"	"4023"	1	"C10orf99"	"HGNC"	31428	"protein_coding"	"YES"	"CCDS7371.1"	"ENSP00000361199"	"Q6UWK7"	""	"UPI0000046D02"	"NM_207373.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"75a9fa6e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"15747"	"ENSR00001425529"	0	"mskcc.org"	"GRCh37"	"10"	88171266	88171266	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001425529"	""	67	"62"	5	40	"40"	0	""	"G"	""	"ENSR00001425529"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"75aa429e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0746268656716418	"WGS"	FALSE
"15748"	"BMPR1A"	657	"mskcc.org"	"GRCh37"	"10"	88654289	88654289	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.333+2303C>T"	""	""	"ENST00000372037"	""	92	"67"	25	55	"55"	0	"BMPR1A,intron_variant,,ENST00000372037,NM_004329.2;RNU1-19P,downstream_gene_variant,,ENST00000363306,;BMPR1A,downstream_gene_variant,,ENST00000480152,;"	"T"	"ENSG00000107779"	"ENST00000372037"	"Transcript"	"intron_variant"	"-/11255"	"-/1599"	"-/532"	""	""	""	"1"	NA	1	"BMPR1A"	"HGNC"	1076	"protein_coding"	"YES"	"CCDS7378.1"	"ENSP00000361107"	"P36894"	""	"UPI000006EB08"	"NM_004329.2"	""	""	""	"5/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"75aa4fa0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	TRUE
"15749"	"IFIT1B"	439996	"mskcc.org"	"GRCh37"	"10"	91133889	91133889	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371809"	""	93	"82"	11	55	"55"	0	"LIPA,intron_variant,,ENST00000371837,;IFIT1B,upstream_gene_variant,,ENST00000371809,NM_001010987.2;"	"G"	"ENSG00000204010"	"ENST00000371809"	"Transcript"	"upstream_gene_variant"	"-/1972"	"-/1425"	"-/474"	""	""	""	"1"	"3924"	1	"IFIT1B"	"HGNC"	23442	"protein_coding"	"YES"	"CCDS31242.1"	"ENSP00000360874"	"Q5T764"	""	"UPI00001D8055"	"NM_001010987.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75aaa14e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.118279569892473	"WGS"	FALSE
"15750"	"RP11-94M14.2"	0	"mskcc.org"	"GRCh37"	"10"	92222401	92222401	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.146+8329G>A"	""	""	"ENST00000422206"	""	88	"72"	16	64	"64"	0	"RP11-94M14.2,intron_variant,,ENST00000422206,;RP11-15K3.1,intron_variant,,ENST00000418379,;RP11-94M14.2,intron_variant,,ENST00000414903,;RP11-94M14.2,downstream_gene_variant,,ENST00000453889,;RP11-94M14.3,upstream_gene_variant,,ENST00000425365,;"	"A"	"ENSG00000224750"	"ENST00000422206"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2368"	""	""	""	""	""	"1"	NA	1	"RP11-94M14.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75aabf6c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"15751"	"FGFBP3"	143282	"mskcc.org"	"GRCh37"	"10"	93663462	93663462	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000311575"	""	49	"45"	4	48	"48"	0	"FGFBP3,downstream_gene_variant,,ENST00000311575,NM_152429.4;RP11-402D21.2,upstream_gene_variant,,ENST00000610263,;"	"C"	"ENSG00000174721"	"ENST00000311575"	"Transcript"	"downstream_gene_variant"	"-/2545"	"-/777"	"-/258"	""	""	""	"1"	"2884"	-1	"FGFBP3"	"HGNC"	23428	"protein_coding"	"YES"	"CCDS7418.1"	"ENSP00000339067"	"Q8TAT2"	""	"UPI000007169B"	"NM_152429.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"75aae3f2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WGS"	FALSE
"15752"	"CPEB3"	22849	"mskcc.org"	"GRCh37"	"10"	93921085	93921085	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1223-16243T>C"	""	""	"ENST00000265997"	""	83	"75"	8	42	"42"	0	"CPEB3,intron_variant,,ENST00000412050,NM_001178137.1;CPEB3,intron_variant,,ENST00000265997,NM_014912.4;AL158040.1,downstream_gene_variant,,ENST00000583870,;"	"G"	"ENSG00000107864"	"ENST00000265997"	"Transcript"	"intron_variant"	"-/4851"	"-/2097"	"-/698"	""	""	""	"1"	NA	-1	"CPEB3"	"HGNC"	21746	"protein_coding"	"YES"	"CCDS31246.1"	"ENSP00000265997"	"Q8NE35"	""	"UPI000013F7DE"	"NM_014912.4"	""	""	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75aaea1e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0963855421686747	"WGS"	FALSE
"15753"	"CPEB3"	22849	"mskcc.org"	"GRCh37"	"10"	93945384	93945384	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1166-4608C>G"	""	""	"ENST00000265997"	""	60	"43"	17	50	"49"	1	"CPEB3,intron_variant,,ENST00000412050,NM_001178137.1;CPEB3,intron_variant,,ENST00000265997,NM_014912.4;"	"C"	"ENSG00000107864"	"ENST00000265997"	"Transcript"	"intron_variant"	"-/4851"	"-/2097"	"-/698"	""	""	""	"1"	NA	-1	"CPEB3"	"HGNC"	21746	"protein_coding"	"YES"	"CCDS31246.1"	"ENSP00000265997"	"Q8NE35"	""	"UPI000013F7DE"	"NM_014912.4"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75aaeb54-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283333333333333	"WGS"	FALSE
"15754"	"FRA10AC1"	118924	"mskcc.org"	"GRCh37"	"10"	95429904	95429904	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.906-279T>G"	""	""	"ENST00000359204"	""	103	"78"	25	58	"58"	0	"FRA10AC1,intron_variant,,ENST00000359204,NM_145246.4;FRA10AC1,intron_variant,,ENST00000536233,;PDE6C,downstream_gene_variant,,ENST00000371447,NM_006204.3;FRA10AC1,downstream_gene_variant,,ENST00000371430,;FRA10AC1,downstream_gene_variant,,ENST00000394100,;FRA10AC1,intron_variant,,ENST00000460752,;FRA10AC1,intron_variant,,ENST00000483229,;FRA10AC1,downstream_gene_variant,,ENST00000462771,;PDE6C,downstream_gene_variant,,ENST00000475427,;"	"C"	"ENSG00000148690"	"ENST00000359204"	"Transcript"	"intron_variant"	"-/3089"	"-/948"	"-/315"	""	""	""	"1"	NA	-1	"FRA10AC1"	"HGNC"	1162	"protein_coding"	"YES"	"CCDS7430.1"	"ENSP00000360488"	"Q70Z53"	""	"UPI000006F7A9"	"NM_145246.4"	""	""	""	"13/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"75ab18cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242718446601942	"WGS"	FALSE
"15755"	"C10orf131"	100127889	"mskcc.org"	"GRCh37"	"10"	97674186	97674186	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.12+992G>T"	""	""	"ENST00000423344"	""	93	"68"	25	57	"57"	0	"C10orf131,intron_variant,,ENST00000423344,NM_001130446.2;C10orf131,intron_variant,,ENST00000602648,;ENTPD1-AS1,intron_variant,,ENST00000416301,;ENTPD1-AS1,intron_variant,,ENST00000452728,;ENTPD1-AS1,intron_variant,,ENST00000451364,;ENTPD1-AS1,downstream_gene_variant,,ENST00000454638,;RP11-248J23.7,intron_variant,,ENST00000491114,;"	"T"	"ENSG00000173088"	"ENST00000423344"	"Transcript"	"intron_variant"	"-/1241"	"-/531"	"-/176"	""	""	""	"1"	NA	1	"C10orf131"	"HGNC"	31667	"protein_coding"	"YES"	"CCDS58090.1"	"ENSP00000411850"	"A6NCD4"	"R4GN90"	"UPI0001662670"	"NM_001130446.2"	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75ab5bac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.268817204301075	"WGS"	FALSE
"15756"	"ARHGAP19-SLIT1"	84986	"mskcc.org"	"GRCh37"	"10"	98997653	98997653	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1186-2581G>T"	""	""	"ENST00000453547"	""	70	"52"	18	56	"56"	0	"ARHGAP19-SLIT1,intron_variant,,ENST00000453547,;ARHGAP19,intron_variant,,ENST00000358531,NM_001204300.1,NM_032900.5;ARHGAP19,intron_variant,,ENST00000371027,NM_001256423.1;ARHGAP19-SLIT1,intron_variant,,ENST00000316676,;ARHGAP19,intron_variant,,ENST00000355366,;ARHGAP19-SLIT1,intron_variant,,ENST00000358308,;ARHGAP19,intron_variant,,ENST00000487035,;ARHGAP19,intron_variant,,ENST00000492211,;ARHGAP19-SLIT1,intron_variant,,ENST00000479633,;"	"A"	"ENSG00000269891"	"ENST00000453547"	"Transcript"	"intron_variant"	"-/8956"	"-/1554"	"-/517"	""	""	""	"1"	NA	-1	"ARHGAP19-SLIT1"	"HGNC"	48348	"protein_coding"	"YES"	""	"ENSP00000414774"	""	""	"UPI0000D60FAD"	""	""	""	""	"8/46"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"75ab880c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257142857142857	"WGS"	FALSE
"15757"	"ENTPD7"	57089	"mskcc.org"	"GRCh37"	"10"	101424476	101424476	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.191+3091A>G"	""	""	"ENST00000370489"	""	63	"57"	6	57	"57"	0	"ENTPD7,intron_variant,,ENST00000370489,NM_020354.3;"	"G"	"ENSG00000198018"	"ENST00000370489"	"Transcript"	"intron_variant"	"-/3550"	"-/1815"	"-/604"	""	""	""	"1"	NA	1	"ENTPD7"	"HGNC"	19745	"protein_coding"	"YES"	"CCDS7480.1"	"ENSP00000359520"	"Q9NQZ7"	""	"UPI0000047E1C"	"NM_020354.3"	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"75abddc0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"15758"	"ABCC2"	1244	"mskcc.org"	"GRCh37"	"10"	101599056	101599056	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3615-2668C>G"	""	""	"ENST00000370449"	""	11	"8"	3	16	"16"	0	"ABCC2,intron_variant,,ENST00000370449,NM_000392.3;"	"G"	"ENSG00000023839"	"ENST00000370449"	"Transcript"	"intron_variant"	"-/5312"	"-/4638"	"-/1545"	""	""	""	"1"	NA	1	"ABCC2"	"HGNC"	53	"protein_coding"	"YES"	"CCDS7484.1"	"ENSP00000359478"	"Q92887"	""	"UPI000013D6CA"	"NM_000392.3"	""	""	""	"25/31"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"75abebf8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"15759"	"TLX1"	3195	"mskcc.org"	"GRCh37"	"10"	102896743	102896743	"+"	"3'UTR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*73C>T"	""	""	"ENST00000370196"	"3/3"	63	"53"	10	56	"56"	0	"TLX1,3_prime_UTR_variant,,ENST00000370196,;TLX1,3_prime_UTR_variant,,ENST00000467928,NM_005521.3,NM_001195517.1;TLX1,downstream_gene_variant,,ENST00000463716,;RP11-31L23.3,intron_variant,,ENST00000411459,;TLX1,downstream_gene_variant,,ENST00000533319,;TLX1,downstream_gene_variant,,ENST00000525019,;"	"T"	"ENSG00000107807"	"ENST00000370196"	"Transcript"	"3_prime_UTR_variant"	"3108/3910"	"-/993"	"-/330"	""	""	""	"1"	NA	1	"TLX1"	"HGNC"	5056	"protein_coding"	"YES"	"CCDS7510.1"	"ENSP00000359215"	"P31314"	""	"UPI000013705F"	""	""	""	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"75ac1a06-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.158730158730159	"WGS"	TRUE
"15760"	"BTRC"	8945	"mskcc.org"	"GRCh37"	"10"	103127373	103127373	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.48+13388T>G"	""	""	"ENST00000370187"	""	86	"60"	26	44	"44"	0	"BTRC,intron_variant,,ENST00000370187,NM_033637.3;BTRC,intron_variant,,ENST00000393441,NM_001256856.1;BTRC,intron_variant,,ENST00000408038,NM_003939.4;BTRC,intron_variant,,ENST00000370183,;RNU2-59P,upstream_gene_variant,,ENST00000410482,;snoU13,downstream_gene_variant,,ENST00000459510,;BTRC,intron_variant,,ENST00000465182,;BTRC,intron_variant,,ENST00000475200,;"	"G"	"ENSG00000166167"	"ENST00000370187"	"Transcript"	"intron_variant"	"-/6134"	"-/1818"	"-/605"	""	""	""	"1"	NA	1	"BTRC"	"HGNC"	1144	"protein_coding"	"YES"	"CCDS7512.1"	"ENSP00000359206"	"Q9Y297"	"Q5T1W7"	"UPI00000012B5"	"NM_033637.3"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"75ac2320-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302325581395349	"WGS"	FALSE
"15761"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	106296283	106296283	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs150376676"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"63"	16	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs150376676"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0058"	"T:0.0204"	"T:0.0014"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"75ac9666-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.20253164556962	"WGS"	FALSE
"15762"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	106346618	106346618	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"79"	26	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75ac98c8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247619047619048	"WGS"	FALSE
"15763"	"SORCS3"	22986	"mskcc.org"	"GRCh37"	"10"	106649917	106649917	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.696-25674G>T"	""	""	"ENST00000369701"	""	127	"98"	29	76	"76"	0	"SORCS3,intron_variant,,ENST00000369701,NM_014978.1;"	"T"	"ENSG00000156395"	"ENST00000369701"	"Transcript"	"intron_variant"	"-/5757"	"-/3669"	"-/1222"	""	""	""	"1"	NA	1	"SORCS3"	"HGNC"	16699	"protein_coding"	"YES"	"CCDS7558.1"	"ENSP00000358715"	"Q9UPU3"	"B7Z891"	"UPI0000135CE1"	"NM_014978.1"	""	""	""	"2/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75ac9f26-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228346456692913	"WGS"	FALSE
"15764"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	108218316	108218316	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"84"	33	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"75acc9d8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282051282051282	"WGS"	FALSE
"15765"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	111072886	111072886	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	130	"99"	31	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"75ad22fc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238461538461538	"WGS"	FALSE
"15766"	"ENSR00000361626"	0	"mskcc.org"	"GRCh37"	"10"	112139812	112139812	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000361626"	""	72	"67"	5	61	"61"	0	""	"A"	""	"ENSR00000361626"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"75ad407a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0694444444444444	"WGS"	FALSE
"15767"	"ENSR00000361749"	0	"mskcc.org"	"GRCh37"	"10"	112611525	112611525	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000361749"	""	121	"94"	27	51	"51"	0	""	"C"	""	"ENSR00000361749"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75ad53e4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223140495867769	"WGS"	FALSE
"15768"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	113122440	113122440	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"96"	25	73	"73"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75ad5f92-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206611570247934	"WGS"	FALSE
"15769"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	113122441	113122441	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	123	"97"	26	74	"74"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"75ad5ff6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211382113821138	"WGS"	FALSE
"15770"	"TCF7L2"	6934	"mskcc.org"	"GRCh37"	"10"	114721592	114721592	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.382-2723G>T"	""	""	"ENST00000543371"	""	77	"62"	15	42	"42"	0	"TCF7L2,intron_variant,,ENST00000355995,;TCF7L2,intron_variant,,ENST00000545257,;TCF7L2,intron_variant,,ENST00000536810,NM_001146285.1;TCF7L2,intron_variant,,ENST00000543371,NM_001198531.1,NM_001198526.1,NM_001146274.1;TCF7L2,intron_variant,,ENST00000355717,NM_001146286.1,NM_001198530.1,NM_001146283.1;TCF7L2,intron_variant,,ENST00000538897,NM_001146284.1,NM_001198529.1;TCF7L2,intron_variant,,ENST00000369397,NM_030756.4,NM_001198528.1,NM_001198527.1,NM_001198525.1;TCF7L2,intron_variant,,ENST00000534894,;TCF7L2,intron_variant,,ENST00000542695,;TCF7L2,intron_variant,,ENST00000352065,;TCF7L2,intron_variant,,ENST00000349937,;TCF7L2,intron_variant,,ENST00000369395,;TCF7L2,intron_variant,,ENST00000346198,;"	"T"	"ENSG00000148737"	"ENST00000543371"	"Transcript"	"intron_variant"	"-/4022"	"-/1809"	"-/602"	""	""	""	"1"	NA	1	"TCF7L2"	"HGNC"	11641	"protein_coding"	"YES"	"CCDS53577.1"	"ENSP00000444972"	"Q9NQB0"	"E2GH26,C6ZRJ8"	"UPI000002B4A6"	"NM_001198531.1,NM_001198526.1,NM_001146274.1"	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"75ad964c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194805194805195	"WGS"	TRUE
"15771"	"TCF7L2"	6934	"mskcc.org"	"GRCh37"	"10"	114929468	114929468	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000543371"	""	95	"77"	18	64	"64"	0	"TCF7L2,downstream_gene_variant,,ENST00000355995,;TCF7L2,downstream_gene_variant,,ENST00000545257,;TCF7L2,downstream_gene_variant,,ENST00000536810,NM_001146285.1;TCF7L2,downstream_gene_variant,,ENST00000543371,NM_001198531.1,NM_001198526.1,NM_001146274.1;TCF7L2,downstream_gene_variant,,ENST00000355717,NM_001146286.1,NM_001198530.1,NM_001146283.1;TCF7L2,downstream_gene_variant,,ENST00000538897,NM_001146284.1,NM_001198529.1;TCF7L2,downstream_gene_variant,,ENST00000369397,NM_030756.4,NM_001198528.1,NM_001198527.1,NM_001198525.1;TCF7L2,downstream_gene_variant,,ENST00000542695,;TCF7L2,downstream_gene_variant,,ENST00000352065,;TCF7L2,downstream_gene_variant,,ENST00000369386,;TCF7L2,downstream_gene_variant,,ENST00000369389,;TCF7L2,downstream_gene_variant,,ENST00000277945,;TCF7L2,downstream_gene_variant,,ENST00000466338,;TCF7L2,downstream_gene_variant,,ENST00000476887,;TCF7L2,downstream_gene_variant,,ENST00000494353,;TCF7L2,downstream_gene_variant,,ENST00000471569,;TCF7L2,downstream_gene_variant,,ENST00000480888,;TCF7L2,downstream_gene_variant,,ENST00000470254,;"	"A"	"ENSG00000148737"	"ENST00000543371"	"Transcript"	"downstream_gene_variant"	"-/4022"	"-/1809"	"-/602"	""	""	""	"1"	"2031"	1	"TCF7L2"	"HGNC"	11641	"protein_coding"	"YES"	"CCDS53577.1"	"ENSP00000444972"	"Q9NQB0"	"E2GH26,C6ZRJ8"	"UPI000002B4A6"	"NM_001198531.1,NM_001198526.1,NM_001146274.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"75ad9dae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189473684210526	"WGS"	TRUE
"15772"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	115764319	115764319	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"74"	13	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75adb8ca-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.149425287356322	"WGS"	FALSE
"15773"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	115764320	115764320	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"74"	15	43	"43"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"75adb92e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168539325842697	"WGS"	FALSE
"15774"	"VWA2"	340706	"mskcc.org"	"GRCh37"	"10"	116008202	116008202	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-10-261T>C"	""	""	"ENST00000603594"	""	74	"58"	16	59	"59"	0	"VWA2,intron_variant,,ENST00000603594,;VWA2,intron_variant,,ENST00000392982,NM_001272046.1;VWA2,intron_variant,,ENST00000298715,;CTB-1144G6.5,downstream_gene_variant,,ENST00000454983,;"	"C"	"ENSG00000165816"	"ENST00000603594"	"Transcript"	"intron_variant"	"-/2946"	"-/2178"	"-/725"	""	""	""	"1"	NA	1	"VWA2"	"HGNC"	24709	"protein_coding"	"YES"	""	"ENSP00000473752"	"Q5GFL6"	""	"UPI00001C0885"	""	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"75adc36a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216216216216216	"WGS"	FALSE
"15775"	"ATRNL1"	26033	"mskcc.org"	"GRCh37"	"10"	117522991	117522991	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3903+36126A>G"	""	""	"ENST00000355044"	""	115	"84"	31	74	"74"	0	"ATRNL1,intron_variant,,ENST00000355044,NM_207303.2;ATRNL1,intron_variant,,ENST00000423111,;ATRNL1,intron_variant,,ENST00000303745,;"	"G"	"ENSG00000107518"	"ENST00000355044"	"Transcript"	"intron_variant"	"-/8479"	"-/4140"	"-/1379"	""	""	""	"1"	NA	1	"ATRNL1"	"HGNC"	29063	"protein_coding"	"YES"	"CCDS7592.1"	"ENSP00000347152"	"Q5VV63"	""	"UPI000021CCF8"	"NM_207303.2"	""	""	""	"27/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"75adfd44-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269565217391304	"WGS"	FALSE
"15776"	"GFRA1"	2674	"mskcc.org"	"GRCh37"	"10"	117900081	117900081	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.434-15013C>G"	""	""	"ENST00000355422"	""	126	"94"	32	71	"71"	0	"GFRA1,intron_variant,,ENST00000439649,NM_001145453.1;GFRA1,intron_variant,,ENST00000369236,NM_145793.3;GFRA1,intron_variant,,ENST00000355422,NM_005264.4;GFRA1,intron_variant,,ENST00000369234,;GFRA1,intron_variant,,ENST00000544592,;"	"C"	"ENSG00000151892"	"ENST00000355422"	"Transcript"	"intron_variant"	"-/2583"	"-/1398"	"-/465"	""	""	""	"1"	NA	-1	"GFRA1"	"HGNC"	4243	"protein_coding"	"YES"	"CCDS44481.1"	"ENSP00000347591"	"P56159"	""	"UPI000012B3A8"	"NM_005264.4"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"75ae064a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253968253968254	"WGS"	FALSE
"15777"	"CCDC172"	374355	"mskcc.org"	"GRCh37"	"10"	118143140	118143140	"+"	"3'Flank"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000333254"	""	130	"94"	36	64	"64"	0	"CCDC172,downstream_gene_variant,,ENST00000333254,NM_198515.2;"	"C"	"ENSG00000182645"	"ENST00000333254"	"Transcript"	"downstream_gene_variant"	"-/1699"	"-/777"	"-/258"	""	""	""	"1"	"3599"	1	"CCDC172"	"HGNC"	30524	"protein_coding"	"YES"	"CCDS31291.1"	"ENSP00000329860"	"P0C7W6"	""	"UPI000000DAB5"	"NM_198515.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"75ae0d02-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276923076923077	"WGS"	FALSE
"15778"	"GRK5"	2869	"mskcc.org"	"GRCh37"	"10"	121179354	121179354	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.340-3324C>A"	""	""	"ENST00000392870"	""	84	"67"	17	63	"63"	0	"GRK5,intron_variant,,ENST00000392870,NM_005308.2;GRK5,intron_variant,,ENST00000369108,;"	"A"	"ENSG00000198873"	"ENST00000392870"	"Transcript"	"intron_variant"	"-/2654"	"-/1773"	"-/590"	""	""	""	"1"	NA	1	"GRK5"	"HGNC"	4544	"protein_coding"	"YES"	"CCDS7612.1"	"ENSP00000376609"	"P34947"	"Q24JT8,G8JLE8"	"UPI0000049BF9"	"NM_005308.2"	""	""	""	"4/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75ae8d7c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202380952380952	"WGS"	FALSE
"15779"	"BAG3"	9531	"mskcc.org"	"GRCh37"	"10"	121436831	121436831	"+"	"3'UTR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*37G>T"	""	""	"ENST00000369085"	"4/4"	71	"57"	14	54	"54"	0	"BAG3,3_prime_UTR_variant,,ENST00000369085,NM_004281.3;BAG3,downstream_gene_variant,,ENST00000450186,;"	"T"	"ENSG00000151929"	"ENST00000369085"	"Transcript"	"3_prime_UTR_variant"	"2071/2571"	"-/1728"	"-/575"	""	""	""	"1"	NA	1	"BAG3"	"HGNC"	939	"protein_coding"	"YES"	"CCDS7615.1"	"ENSP00000358081"	"O95817"	""	"UPI0000000C7A"	"NM_004281.3"	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"75ae9eb6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197183098591549	"WGS"	FALSE
"15780"	"ATE1"	11101	"mskcc.org"	"GRCh37"	"10"	123608143	123608143	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.976-7365C>T"	""	""	"ENST00000369043"	""	73	"67"	6	49	"49"	0	"ATE1,intron_variant,,ENST00000369043,NM_007041.2,NM_001288736.1,NM_001288735.1;ATE1,intron_variant,,ENST00000535655,;ATE1,intron_variant,,ENST00000224652,NM_001001976.1;ATE1,intron_variant,,ENST00000423243,;ATE1,intron_variant,,ENST00000369040,;ATE1,intron_variant,,ENST00000540606,;ATE1,intron_variant,,ENST00000543447,;Y_RNA,downstream_gene_variant,,ENST00000365014,;ATE1,intron_variant,,ENST00000481784,;"	"A"	"ENSG00000107669"	"ENST00000369043"	"Transcript"	"intron_variant"	"-/4900"	"-/1557"	"-/518"	""	""	""	"1"	NA	-1	"ATE1"	"HGNC"	782	"protein_coding"	"YES"	"CCDS31299.1"	"ENSP00000358039"	"O95260"	"B4E107"	"UPI000002A471"	"NM_007041.2,NM_001288736.1,NM_001288735.1"	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75aee556-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"15781"	"TACC2"	10579	"mskcc.org"	"GRCh37"	"10"	123955570	123955570	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs542014537"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5971+879C>T"	""	""	"ENST00000369005"	""	77	"58"	19	65	"65"	0	"TACC2,intron_variant,,ENST00000369005,NM_206862.2;TACC2,intron_variant,,ENST00000334433,;TACC2,intron_variant,,ENST00000515273,;TACC2,intron_variant,,ENST00000515603,;TACC2,intron_variant,,ENST00000453444,;TACC2,intron_variant,,ENST00000513429,NM_206861.1;TACC2,intron_variant,,ENST00000360561,NM_206860.1;TACC2,intron_variant,,ENST00000368999,;TACC2,intron_variant,,ENST00000358010,;TACC2,intron_variant,,ENST00000369000,;TACC2,intron_variant,,ENST00000369001,;TACC2,intron_variant,,ENST00000369004,;TACC2,intron_variant,,ENST00000260733,NM_006997.2;TACC2,intron_variant,,ENST00000514539,;TACC2,intron_variant,,ENST00000493951,;TACC2,intron_variant,,ENST00000492237,;"	"T"	"ENSG00000138162"	"ENST00000369005"	"Transcript"	"intron_variant"	"-/9673"	"-/8847"	"-/2948"	""	""	"rs542014537"	"1"	NA	1	"TACC2"	"HGNC"	11523	"protein_coding"	"YES"	"CCDS7626.1"	"ENSP00000358001"	"O95359"	""	"UPI0000246F6B"	"NM_206862.2"	""	""	""	"8/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"75aef0fa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246753246753247	"WGS"	FALSE
"15782"	"DMBT1"	1755	"mskcc.org"	"GRCh37"	"10"	124337073	124337073	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.608-254G>C"	""	""	"ENST00000368909"	""	93	"72"	21	58	"58"	0	"DMBT1,intron_variant,,ENST00000338354,;DMBT1,intron_variant,,ENST00000368909,NM_007329.2;DMBT1,intron_variant,,ENST00000344338,;DMBT1,intron_variant,,ENST00000368955,NM_017579.2;DMBT1,intron_variant,,ENST00000330163,;DMBT1,intron_variant,,ENST00000368956,NM_004406.2;DMBT1,intron_variant,,ENST00000359586,;"	"C"	"ENSG00000187908"	"ENST00000368909"	"Transcript"	"intron_variant"	"-/7686"	"-/7242"	"-/2413"	""	""	""	"1"	NA	1	"DMBT1"	"HGNC"	2926	"protein_coding"	"YES"	"CCDS44490.1"	"ENSP00000357905"	"Q9UGM3"	"B6V682"	"UPI000047021C"	"NM_007329.2"	""	""	""	"7/52"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"75af01da-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225806451612903	"WGS"	FALSE
"15783"	"OAT"	4942	"mskcc.org"	"GRCh37"	"10"	126092832	126092832	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.649-343A>T"	""	""	"ENST00000368845"	""	58	"48"	10	28	"28"	0	"OAT,intron_variant,,ENST00000368845,NM_000274.3;OAT,intron_variant,,ENST00000539214,NM_001171814.1;OAT,intron_variant,,ENST00000467675,;OAT,intron_variant,,ENST00000483711,;OAT,upstream_gene_variant,,ENST00000471127,;OAT,downstream_gene_variant,,ENST00000476917,;OAT,downstream_gene_variant,,ENST00000492376,;OAT,downstream_gene_variant,,ENST00000490096,;"	"A"	"ENSG00000065154"	"ENST00000368845"	"Transcript"	"intron_variant"	"-/2048"	"-/1320"	"-/439"	""	""	""	"1"	NA	-1	"OAT"	"HGNC"	8091	"protein_coding"	"YES"	"CCDS7639.1"	"ENSP00000357838"	"P04181"	""	"UPI0000000C1B"	"NM_000274.3"	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"75af531a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WGS"	FALSE
"15784"	"ADAM12"	8038	"mskcc.org"	"GRCh37"	"10"	127824734	127824734	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.349-505C>T"	""	""	"ENST00000368679"	""	117	"91"	26	68	"68"	0	"ADAM12,intron_variant,,ENST00000368679,NM_003474.4;ADAM12,intron_variant,,ENST00000368676,NM_021641.3;ADAM12,intron_variant,,ENST00000448723,;ADAM12,intron_variant,,ENST00000494661,;"	"A"	"ENSG00000148848"	"ENST00000368679"	"Transcript"	"intron_variant"	"-/7938"	"-/2730"	"-/909"	""	""	""	"1"	NA	-1	"ADAM12"	"HGNC"	190	"protein_coding"	"YES"	"CCDS7653.1"	"ENSP00000357668"	"O43184"	""	"UPI000036672C"	"NM_003474.4"	""	""	""	"4/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"75afa608-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"15785"	"ADAM12"	8038	"mskcc.org"	"GRCh37"	"10"	127883054	127883054	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.261-39180G>T"	""	""	"ENST00000368679"	""	101	"86"	15	68	"68"	0	"ADAM12,intron_variant,,ENST00000368679,NM_003474.4;ADAM12,intron_variant,,ENST00000368676,NM_021641.3;ADAM12,intron_variant,,ENST00000448723,;"	"A"	"ENSG00000148848"	"ENST00000368679"	"Transcript"	"intron_variant"	"-/7938"	"-/2730"	"-/909"	""	""	""	"1"	NA	-1	"ADAM12"	"HGNC"	190	"protein_coding"	"YES"	"CCDS7653.1"	"ENSP00000357668"	"O43184"	""	"UPI000036672C"	"NM_003474.4"	""	""	""	"3/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"75afaad6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148514851485149	"WGS"	FALSE
"15786"	"PTPRE"	5791	"mskcc.org"	"GRCh37"	"10"	129707507	129707507	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-31+1934T>A"	""	""	"ENST00000254667"	""	91	"67"	24	58	"58"	0	"PTPRE,intron_variant,,ENST00000254667,NM_006504.4;PTPRE,intron_variant,,ENST00000442830,;"	"A"	"ENSG00000132334"	"ENST00000254667"	"Transcript"	"intron_variant"	"-/5331"	"-/2103"	"-/700"	""	""	""	"1"	NA	1	"PTPRE"	"HGNC"	9669	"protein_coding"	"YES"	"CCDS7657.1"	"ENSP00000254667"	"P23469"	"Q96P81,Q69YS2,Q5VWH6,Q5VWH5"	"UPI0000132991"	"NM_006504.4"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"75aff964-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263736263736264	"WGS"	FALSE
"15787"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	131159198	131159198	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"94"	13	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75b02e2a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121495327102804	"WGS"	FALSE
"15788"	"INPP5A"	3632	"mskcc.org"	"GRCh37"	"10"	134363954	134363954	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.75+12279C>A"	""	""	"ENST00000368594"	""	83	"76"	7	67	"67"	0	"INPP5A,intron_variant,,ENST00000368594,NM_005539.3;INPP5A,intron_variant,,ENST00000368593,;INPP5A,intron_variant,,ENST00000423490,;"	"A"	"ENSG00000068383"	"ENST00000368594"	"Transcript"	"intron_variant"	"-/2962"	"-/1239"	"-/412"	""	""	""	"1"	NA	1	"INPP5A"	"HGNC"	6076	"protein_coding"	"YES"	"CCDS7669.2"	"ENSP00000357583"	"Q14642"	"Q4VAR4,Q149S6"	"UPI000012D085"	"NM_005539.3"	""	""	""	"1/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"75b11420-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"15789"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	2260816	2260816	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"66"	19	72	"72"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75b39330-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223529411764706	"WGS"	FALSE
"15790"	"RP13-726E6.1"	0	"mskcc.org"	"GRCh37"	"11"	3505085	3505085	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.210+873C>T"	""	""	"ENST00000534291"	""	71	"65"	6	45	"45"	0	"RP13-726E6.1,intron_variant,,ENST00000534291,;RP13-726E6.2,intron_variant,,ENST00000527970,;"	"T"	"ENSG00000254757"	"ENST00000534291"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/450"	""	""	""	""	""	"1"	NA	1	"RP13-726E6.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"75b3ccf6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"15791"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	4371456	4371456	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"57"	19	61	"60"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75b40fe0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"15792"	"OR56A3"	390083	"mskcc.org"	"GRCh37"	"11"	5970004	5970004	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000329564"	""	115	"95"	20	61	"61"	0	"OR56A3,downstream_gene_variant,,ENST00000329564,NM_001003443.2;AC025016.1,downstream_gene_variant,,ENST00000528915,;"	"C"	"ENSG00000184478"	"ENST00000329564"	"Transcript"	"downstream_gene_variant"	"-/1022"	"-/948"	"-/315"	""	""	""	"1"	"413"	1	"OR56A3"	"HGNC"	14786	"protein_coding"	"YES"	"CCDS41614.1"	"ENSP00000331572"	"Q8NH54"	""	"UPI0000041BF7"	"NM_001003443.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"75b445d2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"15793"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	5977615	5977615	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"103"	9	70	"70"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"75b4462c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0803571428571429	"WGS"	FALSE
"15794"	"OR2AG1"	144125	"mskcc.org"	"GRCh37"	"11"	6802081	6802081	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000307401"	""	106	"87"	19	60	"60"	0	"OR2AG1,upstream_gene_variant,,ENST00000307401,NM_001004489.2;"	"T"	"ENSG00000170803"	"ENST00000307401"	"Transcript"	"upstream_gene_variant"	"-/998"	"-/951"	"-/316"	""	""	""	"1"	"4167"	1	"OR2AG1"	"HGNC"	15142	"protein_coding"	"YES"	"CCDS31414.1"	"ENSP00000307447"	"Q9H205"	""	"UPI00000015AF"	"NM_001004489.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"75b45a18-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179245283018868	"WGS"	FALSE
"15795"	"RP11-35J10.5"	0	"mskcc.org"	"GRCh37"	"11"	7859678	7859678	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.542+40876G>A"	""	""	"ENST00000527565"	""	106	"88"	18	51	"51"	0	"RP11-35J10.5,intron_variant,,ENST00000527565,;RP11-494M8.4,intron_variant,,ENST00000529488,;"	"T"	"ENSG00000271758"	"ENST00000527565"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/589"	""	""	""	""	""	"1"	NA	-1	"RP11-35J10.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"75b473cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.169811320754717	"WGS"	FALSE
"15796"	"IPO7"	10527	"mskcc.org"	"GRCh37"	"11"	9437653	9437653	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.637-953G>A"	""	""	"ENST00000379719"	""	63	"50"	13	42	"42"	0	"IPO7,intron_variant,,ENST00000379719,NM_006391.2;IPO7,downstream_gene_variant,,ENST00000527431,;IPO7,downstream_gene_variant,,ENST00000528833,;IPO7,upstream_gene_variant,,ENST00000531235,;"	"A"	"ENSG00000205339"	"ENST00000379719"	"Transcript"	"intron_variant"	"-/6191"	"-/3117"	"-/1038"	""	""	""	"1"	NA	1	"IPO7"	"HGNC"	9852	"protein_coding"	"YES"	"CCDS31425.1"	"ENSP00000369042"	"O95373"	"E9PLB2,B3KQG6,B3KNG9"	"UPI0000072C06"	"NM_006391.2"	""	""	""	"5/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75b4a5ea-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206349206349206	"WGS"	FALSE
"15797"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	9557746	9557746	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"37"	5	37	"37"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"75b4a9a0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"15798"	"MRVI1"	10335	"mskcc.org"	"GRCh37"	"11"	10691217	10691217	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.68-17488A>G"	""	""	"ENST00000423302"	""	93	"86"	7	72	"72"	0	"MRVI1,intron_variant,,ENST00000547195,NM_001100163.2,NM_001206881.1;MRVI1,intron_variant,,ENST00000423302,NM_130385.3,NM_001206880.1;MRVI1,intron_variant,,ENST00000558540,NM_001100167.2;MRVI1,intron_variant,,ENST00000527509,;MRVI1,intron_variant,,ENST00000541483,;MRVI1,intron_variant,,ENST00000529547,;MRVI1,intron_variant,,ENST00000532037,;MRVI1,intron_variant,,ENST00000531786,;MRVI1,intron_variant,,ENST00000529448,;MRVI1,intron_variant,,ENST00000526414,;MRVI1,intron_variant,,ENST00000531308,;MRVI1,intron_variant,,ENST00000529068,;"	"C"	"ENSG00000072952"	"ENST00000423302"	"Transcript"	"intron_variant"	"-/6126"	"-/2739"	"-/912"	""	""	""	"1"	NA	-1	"MRVI1"	"HGNC"	7237	"protein_coding"	"YES"	"CCDS55746.1"	"ENSP00000412130"	"Q9Y6F6"	"H0YI08,E9PRG4"	"UPI0001F78343"	"NM_130385.3,NM_001206880.1"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"75b4c7dc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"15799"	"RP11-98J9.1"	0	"mskcc.org"	"GRCh37"	"11"	13819578	13819578	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.188+11918C>A"	""	""	"ENST00000531749"	""	74	"64"	10	53	"53"	0	"RP11-98J9.1,intron_variant,,ENST00000531749,;"	"A"	"ENSG00000255411"	"ENST00000531749"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/484"	""	""	""	""	""	"1"	NA	1	"RP11-98J9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"75b52632-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135135135135135	"WGS"	FALSE
"15800"	"SPON1"	10418	"mskcc.org"	"GRCh37"	"11"	14055755	14055755	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.884-7313A>G"	""	""	"ENST00000310358"	""	73	"57"	16	77	"77"	0	"SPON1,intron_variant,,ENST00000310358,;SPON1,intron_variant,,ENST00000533633,;"	"G"	"ENSG00000152268"	"ENST00000310358"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/5372"	""	""	""	""	""	"1"	NA	1	"SPON1"	"HGNC"	11252	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"75b528a8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219178082191781	"WGS"	FALSE
"15801"	"NELL1"	4745	"mskcc.org"	"GRCh37"	"11"	20753672	20753672	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"rs760935271"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.185-51554G>T"	""	""	"ENST00000357134"	""	93	"71"	22	64	"63"	1	"NELL1,intron_variant,,ENST00000298925,NM_001288713.1;NELL1,intron_variant,,ENST00000357134,NM_201551.1,NM_006157.3;NELL1,intron_variant,,ENST00000325319,NM_001288714.1;NELL1,intron_variant,,ENST00000532434,;"	"T"	"ENSG00000165973"	"ENST00000357134"	"Transcript"	"intron_variant"	"-/3022"	"-/2433"	"-/810"	""	""	"rs760935271"	"1"	NA	1	"NELL1"	"HGNC"	7750	"protein_coding"	"YES"	"CCDS7855.1"	"ENSP00000349654"	"Q92832"	"K9UUD5"	"UPI000013E53D"	"NM_201551.1,NM_006157.3"	""	""	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"75b5c970-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236559139784946	"WGS"	FALSE
"15802"	"NELL1"	4745	"mskcc.org"	"GRCh37"	"11"	21356629	21356629	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1550-35770A>T"	""	""	"ENST00000357134"	""	118	"83"	35	91	"90"	1	"NELL1,intron_variant,,ENST00000298925,NM_001288713.1;NELL1,intron_variant,,ENST00000357134,NM_201551.1,NM_006157.3;NELL1,intron_variant,,ENST00000325319,NM_001288714.1;NELL1,intron_variant,,ENST00000532434,;NELL1,intron_variant,,ENST00000529218,;NELL1,intron_variant,,ENST00000534263,;CTD-2302A16.2,intron_variant,,ENST00000444420,;"	"T"	"ENSG00000165973"	"ENST00000357134"	"Transcript"	"intron_variant"	"-/3022"	"-/2433"	"-/810"	""	""	""	"1"	NA	1	"NELL1"	"HGNC"	7750	"protein_coding"	"YES"	"CCDS7855.1"	"ENSP00000349654"	"Q92832"	"K9UUD5"	"UPI000013E53D"	"NM_201551.1,NM_006157.3"	""	""	""	"14/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"75b5d898-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296610169491525	"WGS"	FALSE
"15803"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	23473363	23473363	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"64"	23	60	"59"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"75b6147a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264367816091954	"WGS"	FALSE
"15804"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	24149167	24149167	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"86"	28	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75b627f8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245614035087719	"WGS"	FALSE
"15805"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	24461916	24461916	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"103"	24	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75b6332e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188976377952756	"WGS"	FALSE
"15806"	"LUZP2"	338645	"mskcc.org"	"GRCh37"	"11"	24952485	24952485	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.522+16401C>A"	""	""	"ENST00000336930"	""	92	"74"	18	63	"63"	0	"LUZP2,intron_variant,,ENST00000533227,NM_001009909.3,NM_001252008.1;LUZP2,intron_variant,,ENST00000336930,;LUZP2,intron_variant,,ENST00000529015,;"	"A"	"ENSG00000187398"	"ENST00000336930"	"Transcript"	"intron_variant"	"-/3553"	"-/1041"	"-/346"	""	""	""	"1"	NA	1	"LUZP2"	"HGNC"	23206	"protein_coding"	"YES"	"CCDS31446.1"	"ENSP00000336817"	"Q86TE4"	""	"UPI000019816C"	""	""	""	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"75b6558e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195652173913043	"WGS"	FALSE
"15807"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	25281789	25281789	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"111"	8	70	"70"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75b66718-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0672268907563025	"WGS"	FALSE
"15808"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	26938846	26938846	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	133	"100"	33	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75b69dd2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24812030075188	"WGS"	FALSE
"15809"	"RP11-460B17.3"	0	"mskcc.org"	"GRCh37"	"11"	29539945	29539945	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.153+12890A>T"	""	""	"ENST00000525097"	""	118	"94"	24	73	"73"	0	"RP11-460B17.3,intron_variant,,ENST00000525097,;CTD-3012A18.1,upstream_gene_variant,,ENST00000530389,;"	"A"	"ENSG00000254530"	"ENST00000525097"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/448"	""	""	""	""	""	"1"	NA	-1	"RP11-460B17.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"75b6df86-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203389830508475	"WGS"	FALSE
"15810"	"PAMR1"	25891	"mskcc.org"	"GRCh37"	"11"	35506127	35506127	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.379+7466G>T"	""	""	"ENST00000278360"	""	91	"68"	23	69	"69"	0	"PAMR1,intron_variant,,ENST00000378880,NM_001001991.1;PAMR1,intron_variant,,ENST00000532848,NM_001282675.1;PAMR1,intron_variant,,ENST00000278360,NM_015430.2;PAMR1,intron_variant,,ENST00000527605,;PAMR1,intron_variant,,ENST00000378878,NM_001282676.1;PAMR1,intron_variant,,ENST00000529303,;PAMR1,intron_variant,,ENST00000534803,;"	"A"	"ENSG00000149090"	"ENST00000278360"	"Transcript"	"intron_variant"	"-/2786"	"-/2214"	"-/737"	""	""	""	"1"	NA	-1	"PAMR1"	"HGNC"	24554	"protein_coding"	"YES"	"CCDS7898.1"	"ENSP00000278360"	"Q6UXH9"	"E9PQ70"	"UPI000013DB70"	"NM_015430.2"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"75b77798-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252747252747253	"WGS"	FALSE
"15811"	"LDLRAD3"	143458	"mskcc.org"	"GRCh37"	"11"	36176204	36176204	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.454+56193A>G"	""	""	"ENST00000315571"	""	90	"74"	16	56	"56"	0	"LDLRAD3,intron_variant,,ENST00000315571,NM_174902.2;LDLRAD3,intron_variant,,ENST00000524419,;LDLRAD3,intron_variant,,ENST00000528989,;LDLRAD3,intron_variant,,ENST00000534091,;LDLRAD3,intron_variant,,ENST00000532490,;"	"G"	"ENSG00000179241"	"ENST00000315571"	"Transcript"	"intron_variant"	"-/3798"	"-/1038"	"-/345"	""	""	""	"1"	NA	1	"LDLRAD3"	"HGNC"	27046	"protein_coding"	"YES"	"CCDS31462.1"	"ENSP00000318607"	"Q86YD5"	""	"UPI000003B0FB"	"NM_174902.2"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"75b78472-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177777777777778	"WGS"	FALSE
"15812"	"LDLRAD3"	143458	"mskcc.org"	"GRCh37"	"11"	36177820	36177820	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.454+57809T>G"	""	""	"ENST00000315571"	""	88	"72"	16	62	"62"	0	"LDLRAD3,intron_variant,,ENST00000315571,NM_174902.2;LDLRAD3,intron_variant,,ENST00000524419,;LDLRAD3,intron_variant,,ENST00000528989,;LDLRAD3,intron_variant,,ENST00000534091,;LDLRAD3,intron_variant,,ENST00000532490,;"	"G"	"ENSG00000179241"	"ENST00000315571"	"Transcript"	"intron_variant"	"-/3798"	"-/1038"	"-/345"	""	""	""	"1"	NA	1	"LDLRAD3"	"HGNC"	27046	"protein_coding"	"YES"	"CCDS31462.1"	"ENSP00000318607"	"Q86YD5"	""	"UPI000003B0FB"	"NM_174902.2"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"75b7853a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"15813"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	38289671	38289671	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"62"	7	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75b7bf78-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101449275362319	"WGS"	FALSE
"15814"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	38725482	38725482	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	134	"125"	9	79	"79"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"75b7c7f2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0671641791044776	"WGS"	FALSE
"15815"	"AC027806.1"	0	"mskcc.org"	"GRCh37"	"11"	39755177	39755177	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408499"	""	112	"88"	24	56	"56"	0	"AC027806.1,downstream_gene_variant,,ENST00000408499,;"	"G"	"ENSG00000264020"	"ENST00000408499"	"Transcript"	"downstream_gene_variant"	"-/95"	""	""	""	""	""	"1"	"2724"	1	"AC027806.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75b7ec8c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"15816"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	40028368	40028368	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"68"	33	44	"44"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75b7f7ae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326732673267327	"WGS"	FALSE
"15817"	"LRRC4C"	57689	"mskcc.org"	"GRCh37"	"11"	40754874	40754874	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-326-85046G>A"	""	""	"ENST00000530763"	""	77	"67"	10	59	"59"	0	"LRRC4C,intron_variant,,ENST00000530763,NM_020929.2;LRRC4C,intron_variant,,ENST00000528697,NM_001258419.1;LRRC4C,intron_variant,,ENST00000534577,;"	"T"	"ENSG00000148948"	"ENST00000530763"	"Transcript"	"intron_variant"	"-/2669"	"-/1923"	"-/640"	""	""	""	"1"	NA	-1	"LRRC4C"	"HGNC"	29317	"protein_coding"	""	"CCDS31464.1"	"ENSP00000434761"	"Q9HCJ2"	"E9PLP4"	"UPI000000D9A7"	"NM_020929.2"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"75b8099c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12987012987013	"WGS"	FALSE
"15818"	"RP11-124G5.3"	0	"mskcc.org"	"GRCh37"	"11"	41589662	41589662	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.519+21307C>T"	""	""	"ENST00000526978"	""	91	"85"	6	53	"53"	0	"RP11-124G5.3,intron_variant,,ENST00000526978,;"	"A"	"ENSG00000255388"	"ENST00000526978"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/859"	""	""	""	""	""	"1"	NA	-1	"RP11-124G5.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"75b81d42-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0659340659340659	"WGS"	FALSE
"15819"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	42896894	42896894	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"61"	23	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75b840b0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273809523809524	"WGS"	FALSE
"15820"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	43562127	43562127	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"76"	5	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75b85456-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"15821"	"HSD17B12"	51144	"mskcc.org"	"GRCh37"	"11"	43575546	43575546	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000526615"	""	83	"66"	17	56	"56"	0	"HSD17B12,upstream_gene_variant,,ENST00000526615,;MIR670HG,upstream_gene_variant,,ENST00000446181,;"	"T"	"ENSG00000149084"	"ENST00000526615"	"Transcript"	"upstream_gene_variant"	"-/558"	""	""	""	""	""	"1"	"2440"	1	"HSD17B12"	"HGNC"	18646	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"75b8555a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204819277108434	"WGS"	FALSE
"15822"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	44440081	44440081	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"71"	27	67	"67"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75b8686a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275510204081633	"WGS"	FALSE
"15823"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	44684923	44684923	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"rs190380409"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	29	"23"	6	35	"35"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs190380409"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"75b86f40-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206896551724138	"WGS"	FALSE
"15824"	"SLC35C1"	55343	"mskcc.org"	"GRCh37"	"11"	45836707	45836707	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000314134"	""	77	"58"	19	53	"53"	0	"SLC35C1,downstream_gene_variant,,ENST00000314134,NM_018389.4;SLC35C1,downstream_gene_variant,,ENST00000456334,NM_001145266.1,NM_001145265.1;SLC35C1,downstream_gene_variant,,ENST00000442528,;CTD-2210P24.6,intron_variant,,ENST00000534128,;"	"A"	"ENSG00000181830"	"ENST00000314134"	"Transcript"	"downstream_gene_variant"	"-/4171"	"-/1095"	"-/364"	""	""	""	"1"	"2141"	1	"SLC35C1"	"HGNC"	20197	"protein_coding"	"YES"	"CCDS7914.1"	"ENSP00000313318"	"Q96A29"	"Q96K20,E9PS26,E9PPI4,B3KQH0"	"UPI000012A5BB"	"NM_018389.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"75b88f0c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246753246753247	"WGS"	FALSE
"15825"	"FNBP4"	23360	"mskcc.org"	"GRCh37"	"11"	47756923	47756923	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1582-1242T>G"	""	""	"ENST00000263773"	""	53	"44"	9	35	"35"	0	"FNBP4,intron_variant,,ENST00000263773,NM_015308.2;FNBP4,intron_variant,,ENST00000534003,;FNBP4,intron_variant,,ENST00000528388,;FNBP4,intron_variant,,ENST00000527894,;FNBP4,upstream_gene_variant,,ENST00000525792,;FNBP4,upstream_gene_variant,,ENST00000531394,;FNBP4,upstream_gene_variant,,ENST00000524696,;FNBP4,upstream_gene_variant,,ENST00000525316,;FNBP4,upstream_gene_variant,,ENST00000529156,;"	"C"	"ENSG00000109920"	"ENST00000263773"	"Transcript"	"intron_variant"	"-/3969"	"-/3054"	"-/1017"	""	""	""	"1"	NA	-1	"FNBP4"	"HGNC"	19752	"protein_coding"	"YES"	"CCDS41644.1"	"ENSP00000263773"	"Q8N3X1"	""	"UPI0000DBEF37"	"NM_015308.2"	""	""	""	"9/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"75b8c6a2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.169811320754717	"WGS"	FALSE
"15826"	"OR4A40P"	0	"mskcc.org"	"GRCh37"	"11"	48529323	48529323	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000533878"	""	105	"79"	26	78	"78"	0	"OR4A40P,upstream_gene_variant,,ENST00000533878,;"	"T"	"ENSG00000254832"	"ENST00000533878"	"Transcript"	"upstream_gene_variant"	"-/948"	""	""	""	""	""	"1"	"4502"	1	"OR4A40P"	"HGNC"	31259	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75b8df5c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247619047619048	"WGS"	FALSE
"15827"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	56422648	56422648	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs193231736"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"74"	12	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs193231736"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0032"	"A:0.0113"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"75b994c4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"15828"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	56884897	56884897	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"81"	13	76	"76"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"75b99f50-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138297872340426	"WGS"	FALSE
"15829"	"OR5BA1P"	0	"mskcc.org"	"GRCh37"	"11"	57628846	57628846	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"rs774323357"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000529722"	""	60	"44"	16	52	"52"	0	"OR5BA1P,downstream_gene_variant,,ENST00000529722,;"	"T"	"ENSG00000255303"	"ENST00000529722"	"Transcript"	"downstream_gene_variant"	"-/982"	""	""	""	""	"rs774323357"	"1"	"4924"	-1	"OR5BA1P"	"HGNC"	15270	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"75b9b418-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"15830"	"PLA2G16"	11145	"mskcc.org"	"GRCh37"	"11"	63362755	63362755	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.118+2778A>C"	""	""	"ENST00000323646"	""	42	"31"	11	29	"29"	0	"PLA2G16,intron_variant,,ENST00000323646,NM_007069.3;PLA2G16,intron_variant,,ENST00000415826,NM_001128203.1;PLA2G16,intron_variant,,ENST00000540943,;PLA2G16,intron_variant,,ENST00000394613,;PLA2G16,intron_variant,,ENST00000544269,;"	"G"	"ENSG00000176485"	"ENST00000323646"	"Transcript"	"intron_variant"	"-/2594"	"-/489"	"-/162"	""	""	""	"1"	NA	-1	"PLA2G16"	"HGNC"	17825	"protein_coding"	"YES"	"CCDS8047.1"	"ENSP00000320337"	"P53816"	"F5H7E5"	"UPI000012CBE4"	"NM_007069.3"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"75ba53c8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261904761904762	"WGS"	FALSE
"15831"	"AP003774.4"	0	"mskcc.org"	"GRCh37"	"11"	64214780	64214780	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000316124"	""	84	"79"	5	49	"49"	0	"AP003774.4,upstream_gene_variant,,ENST00000316124,;"	"G"	"ENSG00000181908"	"ENST00000316124"	"Transcript"	"upstream_gene_variant"	"-/2337"	"-/384"	"-/127"	""	""	""	"1"	"1766"	1	"AP003774.4"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000325219"	""	"Q8N9J4"	"UPI00000717E6"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"75ba824e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0595238095238095	"WGS"	FALSE
"15832"	"EHD1"	10938	"mskcc.org"	"GRCh37"	"11"	64646228	64646228	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"rs375096469"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000320631"	""	61	"54"	7	61	"61"	0	"EHD1,intron_variant,,ENST00000359393,NM_001282444.1;EHD1,intron_variant,,ENST00000433803,;EHD1,intron_variant,,ENST00000411683,;EHD1,intron_variant,,ENST00000457202,;EHD1,upstream_gene_variant,,ENST00000320631,NM_006795.2,NM_001282445.1;EHD1,upstream_gene_variant,,ENST00000421510,;EHD1,upstream_gene_variant,,ENST00000455148,;EHD1,non_coding_transcript_exon_variant,,ENST00000489379,;EHD1,upstream_gene_variant,,ENST00000466015,;AP001187.11,upstream_gene_variant,,ENST00000428947,;"	"T"	"ENSG00000110047"	"ENST00000320631"	"Transcript"	"upstream_gene_variant"	"-/4551"	"-/1605"	"-/534"	""	""	"rs375096469"	"1"	"37"	-1	"EHD1"	"HGNC"	3242	"protein_coding"	"YES"	"CCDS8084.1"	"ENSP00000320516"	"Q9H4M9"	"C9JIJ3,C9JDQ8,C9J2Z4,C9IZH1,B2R5U3"	"UPI0000129E22"	"NM_006795.2,NM_001282445.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"75ba9a72-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114754098360656	"WGS"	FALSE
"15833"	"RIN1"	9610	"mskcc.org"	"GRCh37"	"11"	66104636	66104636	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000311320"	""	76	"71"	5	53	"53"	0	"RIN1,upstream_gene_variant,,ENST00000311320,NM_004292.2;RIN1,upstream_gene_variant,,ENST00000530056,;RIN1,upstream_gene_variant,,ENST00000424433,;BRMS1,downstream_gene_variant,,ENST00000359957,NM_015399.3;BRMS1,downstream_gene_variant,,ENST00000425825,NM_001024957.1;BRMS1,downstream_gene_variant,,ENST00000524699,;BRMS1,downstream_gene_variant,,ENST00000530756,;RP11-867G23.12,intron_variant,,ENST00000526655,;RIN1,upstream_gene_variant,,ENST00000524804,;RIN1,upstream_gene_variant,,ENST00000526246,;RIN1,upstream_gene_variant,,ENST00000530745,;RIN1,upstream_gene_variant,,ENST00000534824,;BRMS1,downstream_gene_variant,,ENST00000530238,;BRMS1,downstream_gene_variant,,ENST00000527375,;BRMS1,downstream_gene_variant,,ENST00000534617,;BRMS1,downstream_gene_variant,,ENST00000525127,;RIN1,upstream_gene_variant,,ENST00000528006,;BRMS1,downstream_gene_variant,,ENST00000529544,;"	"C"	"ENSG00000174791"	"ENST00000311320"	"Transcript"	"upstream_gene_variant"	"-/2693"	"-/2352"	"-/783"	""	""	""	"1"	"636"	-1	"RIN1"	"HGNC"	18749	"protein_coding"	"YES"	"CCDS31614.1"	"ENSP00000310406"	"Q13671"	""	"UPI000013F14D"	"NM_004292.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"75babce6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0657894736842105	"WGS"	FALSE
"15834"	"RP11-655M14.6"	0	"mskcc.org"	"GRCh37"	"11"	67492645	67492645	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000524910"	""	76	"71"	5	52	"52"	0	"RP11-655M14.6,upstream_gene_variant,,ENST00000524910,;"	"G"	"ENSG00000235855"	"ENST00000524910"	"Transcript"	"upstream_gene_variant"	"-/973"	""	""	""	""	""	"1"	"1719"	-1	"RP11-655M14.6"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75bae82e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0657894736842105	"WGS"	FALSE
"15835"	"LRP5"	4041	"mskcc.org"	"GRCh37"	"11"	68183130	68183130	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"rs12290878"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2828-666T>G"	""	""	"ENST00000294304"	""	33	"29"	4	20	"20"	0	"LRP5,intron_variant,,ENST00000294304,NM_002335.2;LRP5,downstream_gene_variant,,ENST00000528714,;LRP5,intron_variant,,ENST00000529993,;"	"G"	"ENSG00000162337"	"ENST00000294304"	"Transcript"	"intron_variant"	"-/5159"	"-/4848"	"-/1615"	""	""	"rs12290878"	"1"	NA	1	"LRP5"	"HGNC"	6697	"protein_coding"	"YES"	"CCDS8181.1"	"ENSP00000294304"	"O75197"	"E9PHY1"	"UPI0000073246"	"NM_002335.2"	""	""	""	"12/22"	""	"T:0.4093"	"G:0.2678"	"G:0.621"	NA	"G:0.6974"	"G:0.672"	"G:0.8119"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"75bb0a8e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"15836"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	70074527	70074527	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs61885556"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	29	"24"	5	24	"24"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs61885556"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"75bb8216-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WGS"	FALSE
"15837"	"SHANK2"	22941	"mskcc.org"	"GRCh37"	"11"	70367270	70367270	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2065-18234A>T"	""	""	"ENST00000338508"	""	81	"56"	25	81	"81"	0	"SHANK2,intron_variant,,ENST00000338508,;SHANK2,intron_variant,,ENST00000449833,NM_133266.3;SHANK2,intron_variant,,ENST00000423696,;SHANK2,intron_variant,,ENST00000409161,;SHANK2,intron_variant,,ENST00000294018,;SHANK2,intron_variant,,ENST00000409530,;SHANK2,intron_variant,,ENST00000412252,;SHANK2,intron_variant,,ENST00000449116,;SHANK2,intron_variant,,ENST00000357171,;SHANK2,intron_variant,,ENST00000426687,;"	"A"	"ENSG00000162105"	"ENST00000338508"	"Transcript"	"intron_variant"	"-/8987"	"-/5553"	"-/1850"	""	""	""	"1"	NA	-1	"SHANK2"	"HGNC"	14295	"protein_coding"	"YES"	""	"ENSP00000345193"	""	"C9JFP8,A6NHU9"	"UPI00020653A9"	""	""	""	""	"23/32"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"75bb8acc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308641975308642	"WGS"	FALSE
"15838"	"SHANK2"	22941	"mskcc.org"	"GRCh37"	"11"	70968509	70968509	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000413503"	""	72	"67"	5	45	"45"	0	"SHANK2,upstream_gene_variant,,ENST00000413503,;"	"T"	"ENSG00000162105"	"ENST00000413503"	"Transcript"	"upstream_gene_variant"	"-/1282"	"-/912"	"-/304"	""	""	""	"1"	"4886"	-1	"SHANK2"	"HGNC"	14295	"protein_coding"	""	""	"ENSP00000390735"	""	"C9JFP8"	"UPI0000E59382"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"75bbb48e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0694444444444444	"WGS"	FALSE
"15839"	"ARAP1"	116985	"mskcc.org"	"GRCh37"	"11"	72463481	72463481	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000393609"	""	51	"42"	9	49	"49"	0	"ARAP1,intron_variant,,ENST00000359373,;ARAP1,upstream_gene_variant,,ENST00000393609,NM_001040118.2;STARD10,downstream_gene_variant,,ENST00000334805,NM_006645.2;STARD10,downstream_gene_variant,,ENST00000538536,;STARD10,downstream_gene_variant,,ENST00000543304,;STARD10,downstream_gene_variant,,ENST00000537947,;STARD10,downstream_gene_variant,,ENST00000545082,;STARD10,downstream_gene_variant,,ENST00000400925,;STARD10,downstream_gene_variant,,ENST00000544767,;STARD10,downstream_gene_variant,,ENST00000536728,;STARD10,downstream_gene_variant,,ENST00000537351,;STARD10,downstream_gene_variant,,ENST00000538437,;STARD10,downstream_gene_variant,,ENST00000535075,;STARD10,downstream_gene_variant,,ENST00000543089,;"	"A"	"ENSG00000186635"	"ENST00000393609"	"Transcript"	"upstream_gene_variant"	"-/5145"	"-/4353"	"-/1450"	""	""	""	"1"	"33"	-1	"ARAP1"	"HGNC"	16925	"protein_coding"	"YES"	"CCDS41687.1"	"ENSP00000377233"	"Q96P48"	"F8WBT0,F5GWN4"	"UPI000053F81B"	"NM_001040118.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"75bbf9e4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"15840"	"PGM2L1"	283209	"mskcc.org"	"GRCh37"	"11"	74106359	74106359	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.111+2737A>T"	""	""	"ENST00000298198"	""	93	"77"	16	52	"52"	0	"PGM2L1,intron_variant,,ENST00000298198,NM_173582.3;MIR548AL,upstream_gene_variant,,ENST00000578416,;RP11-702H23.4,upstream_gene_variant,,ENST00000531906,;RP11-702H23.4,upstream_gene_variant,,ENST00000533008,;"	"A"	"ENSG00000165434"	"ENST00000298198"	"Transcript"	"intron_variant"	"-/8515"	"-/1869"	"-/622"	""	""	""	"1"	NA	-1	"PGM2L1"	"HGNC"	20898	"protein_coding"	"YES"	"CCDS8231.1"	"ENSP00000298198"	"Q6PCE3"	""	"UPI0000072053"	"NM_173582.3"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"75bc25fe-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172043010752688	"WGS"	FALSE
"15841"	"UVRAG"	7405	"mskcc.org"	"GRCh37"	"11"	75668599	75668599	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.594-3889C>T"	""	""	"ENST00000356136"	""	103	"84"	19	65	"65"	0	"UVRAG,intron_variant,,ENST00000356136,NM_003369.3;UVRAG,intron_variant,,ENST00000528420,;UVRAG,intron_variant,,ENST00000533454,;UVRAG,intron_variant,,ENST00000528264,;UVRAG,upstream_gene_variant,,ENST00000530501,;"	"T"	"ENSG00000198382"	"ENST00000356136"	"Transcript"	"intron_variant"	"-/4123"	"-/2100"	"-/699"	""	""	""	"1"	NA	1	"UVRAG"	"HGNC"	12640	"protein_coding"	"YES"	"CCDS8241.1"	"ENSP00000348455"	"Q9P2Y5"	"E9PR71,E9PK00,B3KTC1"	"UPI0000137F03"	"NM_003369.3"	""	""	""	"6/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"75bc5678-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184466019417476	"WGS"	FALSE
"15842"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	79368843	79368843	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"98"	8	78	"78"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75bcc86a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0754716981132075	"WGS"	FALSE
"15843"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	79759507	79759507	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs542027579"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"94"	10	83	"83"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs542027579"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"75bccdce-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0961538461538462	"WGS"	FALSE
"15844"	"RAB30"	27314	"mskcc.org"	"GRCh37"	"11"	82747604	82747604	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-109-2290G>T"	""	""	"ENST00000533486"	""	68	"56"	12	52	"52"	0	"RAB30,intron_variant,,ENST00000533486,NM_014488.3,NM_001286060.1,NM_001286059.1,NM_001286061.1;RAB30,intron_variant,,ENST00000534141,;RAB30,intron_variant,,ENST00000527633,;RAB30,intron_variant,,ENST00000526205,;RAB30,intron_variant,,ENST00000533276,;RAB30,intron_variant,,ENST00000524635,;RAB30,upstream_gene_variant,,ENST00000260056,;RAB30,upstream_gene_variant,,ENST00000534103,;RAB30,upstream_gene_variant,,ENST00000531021,;RAB30,upstream_gene_variant,,ENST00000530224,;RAB30,upstream_gene_variant,,ENST00000528379,;SNORA70E,downstream_gene_variant,,ENST00000384492,NR_033347.1;RP11-659G9.3,intron_variant,,ENST00000527550,;RP11-113K21.1,downstream_gene_variant,,ENST00000530976,;"	"A"	"ENSG00000137502"	"ENST00000533486"	"Transcript"	"intron_variant"	"-/9929"	"-/612"	"-/203"	""	""	""	"1"	NA	-1	"RAB30"	"HGNC"	9770	"protein_coding"	"YES"	"CCDS8264.1"	"ENSP00000435189"	"Q15771"	"E9PS06,E9PRX0,E9PRF7,E9PQ07,E9PMJ1,E9PJQ5,E9PI18,A8K5R1"	"UPI000002356C"	"NM_014488.3,NM_001286060.1,NM_001286059.1,NM_001286061.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"75bd2080-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"15845"	"DLG2"	1740	"mskcc.org"	"GRCh37"	"11"	83289241	83289241	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1941-36340C>A"	""	""	"ENST00000376104"	""	94	"68"	26	57	"57"	0	"DLG2,intron_variant,,ENST00000398309,NM_001364.3;DLG2,intron_variant,,ENST00000426717,NM_001142702.1;DLG2,intron_variant,,ENST00000376104,NM_001142699.1;DLG2,intron_variant,,ENST00000543673,;DLG2,intron_variant,,ENST00000280241,NM_001206769.1;DLG2,intron_variant,,ENST00000418306,NM_001142700.1;DLG2,intron_variant,,ENST00000531015,;DLG2,intron_variant,,ENST00000532653,;DLG2,intron_variant,,ENST00000524982,;DLG2,intron_variant,,ENST00000537455,;DLG2,intron_variant,,ENST00000330014,;DLG2,intron_variant,,ENST00000376106,;DLG2,intron_variant,,ENST00000404783,;DLG2,intron_variant,,ENST00000420775,;DLG2,intron_variant,,ENST00000398304,;DLG2,intron_variant,,ENST00000530800,;DLG2,intron_variant,,ENST00000529399,;DLG2,intron_variant,,ENST00000524601,;DLG2,intron_variant,,ENST00000434967,;"	"T"	"ENSG00000150672"	"ENST00000376104"	"Transcript"	"intron_variant"	"-/5139"	"-/2928"	"-/975"	""	""	""	"1"	NA	-1	"DLG2"	"HGNC"	2901	"protein_coding"	"YES"	"CCDS44690.1"	"ENSP00000365272"	"Q15700"	"F8W750,E9PQT9"	"UPI0000E59399"	"NM_001142699.1"	""	""	""	"19/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"75bd2d0a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276595744680851	"WGS"	FALSE
"15846"	"DLG2"	1740	"mskcc.org"	"GRCh37"	"11"	83494202	83494202	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1825+3531G>A"	""	""	"ENST00000376104"	""	113	"100"	13	68	"68"	0	"DLG2,intron_variant,,ENST00000398309,NM_001364.3;DLG2,intron_variant,,ENST00000376104,NM_001142699.1;DLG2,intron_variant,,ENST00000543673,;DLG2,intron_variant,,ENST00000280241,NM_001206769.1;DLG2,intron_variant,,ENST00000418306,NM_001142700.1;DLG2,intron_variant,,ENST00000531015,;DLG2,intron_variant,,ENST00000532653,;DLG2,intron_variant,,ENST00000524982,;DLG2,intron_variant,,ENST00000537455,;DLG2,intron_variant,,ENST00000330014,;DLG2,intron_variant,,ENST00000376106,;DLG2,downstream_gene_variant,,ENST00000398301,;DLG2,intron_variant,,ENST00000529111,;"	"T"	"ENSG00000150672"	"ENST00000376104"	"Transcript"	"intron_variant"	"-/5139"	"-/2928"	"-/975"	""	""	""	"1"	NA	-1	"DLG2"	"HGNC"	2901	"protein_coding"	"YES"	"CCDS44690.1"	"ENSP00000365272"	"Q15700"	"F8W750,E9PQT9"	"UPI0000E59399"	"NM_001142699.1"	""	""	""	"18/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"75bd3444-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115044247787611	"WGS"	FALSE
"15847"	"DLG2"	1740	"mskcc.org"	"GRCh37"	"11"	84621754	84621754	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.357+200951G>A"	""	""	"ENST00000376104"	""	120	"86"	34	69	"69"	0	"DLG2,intron_variant,,ENST00000398309,NM_001364.3;DLG2,intron_variant,,ENST00000376104,NM_001142699.1;DLG2,intron_variant,,ENST00000543673,;DLG2,intron_variant,,ENST00000532653,;DLG2,intron_variant,,ENST00000524982,;DLG2,intron_variant,,ENST00000527088,;DLG2,intron_variant,,ENST00000530589,;DLG2,intron_variant,,ENST00000529111,;"	"T"	"ENSG00000150672"	"ENST00000376104"	"Transcript"	"intron_variant"	"-/5139"	"-/2928"	"-/975"	""	""	""	"1"	NA	-1	"DLG2"	"HGNC"	2901	"protein_coding"	"YES"	"CCDS44690.1"	"ENSP00000365272"	"Q15700"	"F8W750,E9PQT9"	"UPI0000E59399"	"NM_001142699.1"	""	""	""	"6/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"75bd5582-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283333333333333	"WGS"	FALSE
"15848"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	85821876	85821876	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	18	"13"	5	23	"23"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"75bd7346-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"15849"	"C11orf73"	51501	"mskcc.org"	"GRCh37"	"11"	86030493	86030493	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.268+12969T>C"	""	""	"ENST00000278483"	""	50	"44"	6	38	"38"	0	"C11orf73,intron_variant,,ENST00000533986,;C11orf73,intron_variant,,ENST00000278483,NM_016401.3;RN7SL225P,downstream_gene_variant,,ENST00000464648,;C11orf73,intron_variant,,ENST00000530208,;C11orf73,intron_variant,,ENST00000532270,;C11orf73,intron_variant,,ENST00000531485,;C11orf73,intron_variant,,ENST00000528004,;"	"C"	"ENSG00000149196"	"ENST00000278483"	"Transcript"	"intron_variant"	"-/1109"	"-/594"	"-/197"	""	""	""	"1"	NA	1	"C11orf73"	"HGNC"	26938	"protein_coding"	"YES"	"CCDS8275.1"	"ENSP00000278483"	"Q53FT3"	""	"UPI000006CF46"	"NM_016401.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75bd7ac6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"15850"	"RP11-81M19.1"	0	"mskcc.org"	"GRCh37"	"11"	89633035	89633035	"+"	"RNA"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.583C>A"	""	""	"ENST00000531260"	"1/2"	221	"211"	10	130	"130"	0	"RP11-81M19.1,non_coding_transcript_exon_variant,,ENST00000531260,;"	"T"	"ENSG00000254785"	"ENST00000531260"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"583/3198"	""	""	""	""	""	"1"	NA	-1	"RP11-81M19.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"75bde04c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0452488687782805	"WGS"	FALSE
"15851"	"NAALAD2"	10003	"mskcc.org"	"GRCh37"	"11"	89912733	89912733	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1858+1448T>G"	""	""	"ENST00000534061"	""	115	"89"	26	63	"63"	0	"NAALAD2,intron_variant,,ENST00000534061,NM_005467.3;NAALAD2,intron_variant,,ENST00000321955,;NAALAD2,intron_variant,,ENST00000375944,;"	"G"	"ENSG00000077616"	"ENST00000534061"	"Transcript"	"intron_variant"	"-/3600"	"-/2223"	"-/740"	""	""	""	"1"	NA	1	"NAALAD2"	"HGNC"	14526	"protein_coding"	"YES"	"CCDS8288.1"	"ENSP00000432481"	"Q9Y3Q0"	"E9PJ53,E9PII2"	"UPI0000031A85"	"NM_005467.3"	""	""	""	"16/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"75bde90c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226086956521739	"WGS"	FALSE
"15852"	"OSBPL9P2"	0	"mskcc.org"	"GRCh37"	"11"	90848844	90848844	"+"	"RNA"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.276C>T"	""	""	"ENST00000526582"	"1/1"	114	"93"	21	73	"73"	0	"OSBPL9P2,non_coding_transcript_exon_variant,,ENST00000526582,;OSBPL9P3,upstream_gene_variant,,ENST00000534523,;"	"A"	"ENSG00000254677"	"ENST00000526582"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"276/1228"	""	""	""	""	""	"1"	NA	-1	"OSBPL9P2"	"HGNC"	48732	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75be0e32-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184210526315789	"WGS"	FALSE
"15853"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	91930087	91930087	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"103"	9	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75be2fc0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0803571428571429	"WGS"	FALSE
"15854"	"RP11-712B9.4"	0	"mskcc.org"	"GRCh37"	"11"	94877182	94877182	"+"	"RNA"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.382C>T"	""	""	"ENST00000603676"	"1/1"	112	"87"	25	64	"64"	0	"RP11-712B9.4,non_coding_transcript_exon_variant,,ENST00000603676,;RP11-712B9.5,upstream_gene_variant,,ENST00000604432,;"	"T"	"ENSG00000270689"	"ENST00000603676"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"382/1489"	""	""	""	""	""	"1"	NA	1	"RP11-712B9.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"75be6d32-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223214285714286	"WGS"	FALSE
"15855"	"MAML2"	84441	"mskcc.org"	"GRCh37"	"11"	95818330	95818330	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs201615301"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2139+6726C>T"	""	""	"ENST00000524717"	""	75	"68"	7	29	"29"	0	"MAML2,intron_variant,,ENST00000524717,NM_032427.1;"	"A"	"ENSG00000184384"	"ENST00000524717"	"Transcript"	"intron_variant"	"-/7106"	"-/3471"	"-/1156"	""	""	"rs201615301"	"1"	NA	-1	"MAML2"	"HGNC"	16259	"protein_coding"	"YES"	"CCDS44714.1"	"ENSP00000434552"	"Q8IZL2"	""	"UPI00001B4EFC"	"NM_032427.1"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"75be87a4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0933333333333333	"WGS"	TRUE
"15856"	"ENSR00000567586"	0	"mskcc.org"	"GRCh37"	"11"	96688446	96688446	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000567586"	""	109	"102"	7	60	"60"	0	""	"A"	""	"ENSR00000567586"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"75be9a64-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0642201834862385	"WGS"	FALSE
"15857"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	97378517	97378517	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	128	"121"	7	85	"85"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"75bead92-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0546875	"WGS"	FALSE
"15858"	"CNTN5"	53942	"mskcc.org"	"GRCh37"	"11"	99528796	99528796	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55+101796C>G"	""	""	"ENST00000524871"	""	118	"88"	30	62	"62"	0	"CNTN5,intron_variant,,ENST00000524871,NM_014361.3;CNTN5,intron_variant,,ENST00000527185,NM_001243271.1;CNTN5,intron_variant,,ENST00000528682,NM_001243270.1;CNTN5,intron_variant,,ENST00000418526,NM_175566.2;CNTN5,intron_variant,,ENST00000279463,;CNTN5,intron_variant,,ENST00000528727,;"	"G"	"ENSG00000149972"	"ENST00000524871"	"Transcript"	"intron_variant"	"-/6258"	"-/3303"	"-/1100"	""	""	""	"1"	NA	1	"CNTN5"	"HGNC"	2175	"protein_coding"	"YES"	"CCDS53696.1"	"ENSP00000435637"	"O94779"	"B4DGP0"	"UPI000006DAB0"	"NM_014361.3"	""	""	""	"3/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"75bef1ee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254237288135593	"WGS"	FALSE
"15859"	"ENSR00000567729"	0	"mskcc.org"	"GRCh37"	"11"	100351888	100351888	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000567729"	""	64	"50"	14	41	"41"	0	""	"C"	""	"ENSR00000567729"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"75bf0832-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WGS"	FALSE
"15860"	"TRPC6"	7225	"mskcc.org"	"GRCh37"	"11"	101327702	101327702	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2485-1870C>T"	""	""	"ENST00000344327"	""	146	"138"	8	63	"63"	0	"TRPC6,intron_variant,,ENST00000344327,NM_004621.5;TRPC6,intron_variant,,ENST00000532133,;TRPC6,intron_variant,,ENST00000360497,;TRPC6,intron_variant,,ENST00000348423,;TRPC6,upstream_gene_variant,,ENST00000532184,;"	"A"	"ENSG00000137672"	"ENST00000344327"	"Transcript"	"intron_variant"	"-/4612"	"-/2796"	"-/931"	""	""	""	"1"	NA	-1	"TRPC6"	"HGNC"	12338	"protein_coding"	"YES"	"CCDS8311.1"	"ENSP00000340913"	"Q9Y210"	"B3KNL3"	"UPI00001374BA"	"NM_004621.5"	""	""	""	"10/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"75bf210a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0547945205479452	"WGS"	FALSE
"15861"	"RP11-748H22.2"	0	"mskcc.org"	"GRCh37"	"11"	101632657	101632657	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000530032"	""	102	"94"	8	63	"63"	0	"TRPC6,intron_variant,,ENST00000526713,;RP11-748H22.2,downstream_gene_variant,,ENST00000530032,;"	"A"	"ENSG00000254534"	"ENST00000530032"	"Transcript"	"downstream_gene_variant"	"-/1663"	""	""	""	""	""	"1"	"4009"	-1	"RP11-748H22.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"75bf3154-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0784313725490196	"WGS"	FALSE
"15862"	"DYNC2H1"	79659	"mskcc.org"	"GRCh37"	"11"	103194709	103194709	"+"	"Silent"	"SNP"	"C"	"A"	"A"	"rs755670853"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.12051C>A"	"p.="	"p.I4017I"	"ENST00000398093"	"83/90"	100	"75"	25	59	"59"	0	"DYNC2H1,synonymous_variant,p.=,ENST00000375735,NM_001080463.1,NM_001377.2;DYNC2H1,synonymous_variant,p.=,ENST00000398093,;DYNC2H1,intron_variant,,ENST00000334267,;DYNC2H1,3_prime_UTR_variant,,ENST00000528670,;"	"A"	"ENSG00000187240"	"ENST00000398093"	"Transcript"	"synonymous_variant"	"12051/12945"	"12051/12945"	"4017/4314"	"I"	"atC/atA"	"rs755670853"	"1"	NA	1	"DYNC2H1"	"HGNC"	2962	"protein_coding"	"YES"	"CCDS44717.1"	"ENSP00000381167"	"Q8NCM8"	""	"UPI0000481AC7"	""	""	""	"83/90"	""	"Pfam_domain:PF03028,hmmpanther:PTHR10676,hmmpanther:PTHR10676:SF34"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	"1.893e-05"	"0"	"0"	"0"	"0"	"0"	"0"	"0.0001253"	"1"	"PASS"	"TCA"	"75bf5b66-0003-11e6-8a0f-c369372d9a03"	"."	1.943e-05	"2/102914"	"2/105626"	"0/7926"	"0/10920"	"0/7708"	"0/6522"	"0/53218"	"0/662"	"2/15958"	"PASS"	"FALSE"	0.25	"WGS"	FALSE
"15863"	"CASP12"	100506742	"mskcc.org"	"GRCh37"	"11"	104764379	104764379	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.260-1149C>T"	""	""	"ENST00000422698"	""	132	"111"	21	57	"57"	0	"CASP12,intron_variant,,ENST00000422698,NM_001191016.1;CASP12,intron_variant,,ENST00000375726,;CASP12,intron_variant,,ENST00000446862,;CASP12,intron_variant,,ENST00000441710,;CASP12,intron_variant,,ENST00000448103,;CASP12,intron_variant,,ENST00000494737,;CASP12,intron_variant,,ENST00000447913,;CASP12,intron_variant,,ENST00000508062,;CASP12,intron_variant,,ENST00000433738,;CASP12,intron_variant,,ENST00000417998,;CASP12,intron_variant,,ENST00000458137,;"	"A"	"ENSG00000204403"	"ENST00000422698"	"Transcript"	"intron_variant"	"-/1451"	"-/1026"	"-/341"	""	""	""	"1"	NA	-1	"CASP12"	"HGNC"	19004	"protein_coding"	"YES"	"CCDS55785.1"	"ENSP00000427128"	"Q6UXS9"	""	"UPI000040532B"	"NM_001191016.1"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75bf85f0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.159090909090909	"WGS"	FALSE
"15864"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	106218318	106218318	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"77"	17	75	"75"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"75bfa684-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180851063829787	"WGS"	FALSE
"15865"	"CWF19L2"	143884	"mskcc.org"	"GRCh37"	"11"	107220649	107220649	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2086-870A>G"	""	""	"ENST00000282251"	""	86	"62"	24	59	"59"	0	"CWF19L2,intron_variant,,ENST00000282251,NM_152434.2;CWF19L2,intron_variant,,ENST00000433523,;CWF19L2,intron_variant,,ENST00000431778,;CWF19L2,intron_variant,,ENST00000532251,;CWF19L2,intron_variant,,ENST00000462890,;"	"C"	"ENSG00000152404"	"ENST00000282251"	"Transcript"	"intron_variant"	"-/3278"	"-/2685"	"-/894"	""	""	""	"1"	NA	-1	"CWF19L2"	"HGNC"	26508	"protein_coding"	"YES"	"CCDS8336.2"	"ENSP00000282251"	"Q2TBE0"	"Q6PIV4"	"UPI00005A81B4"	"NM_152434.2"	""	""	""	"13/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75bfb41c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27906976744186	"WGS"	FALSE
"15866"	"ALKBH8"	91801	"mskcc.org"	"GRCh37"	"11"	107441019	107441019	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000428149"	""	81	"67"	14	56	"56"	0	"ALKBH8,upstream_gene_variant,,ENST00000428149,NM_138775.2;ALKBH8,upstream_gene_variant,,ENST00000389568,;ALKBH8,upstream_gene_variant,,ENST00000429370,;ALKBH8,upstream_gene_variant,,ENST00000417449,;ALKBH8,upstream_gene_variant,,ENST00000530933,;ALKBH8,upstream_gene_variant,,ENST00000260318,;ALKBH8,upstream_gene_variant,,ENST00000393100,;"	"T"	"ENSG00000137760"	"ENST00000428149"	"Transcript"	"upstream_gene_variant"	"-/4079"	"-/1995"	"-/664"	""	""	""	"1"	"4547"	-1	"ALKBH8"	"HGNC"	25189	"protein_coding"	"YES"	"CCDS8337.2"	"ENSP00000415885"	"Q96BT7"	""	"UPI0000EE3A38"	"NM_138775.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"75bfb890-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172839506172839	"WGS"	FALSE
"15867"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	108916191	108916191	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"68"	18	56	"56"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75bfe568-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209302325581395	"WGS"	FALSE
"15868"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	111105011	111105011	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"77"	22	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"75c01a24-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"15869"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	113355485	113355485	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"67"	15	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"75c05822-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182926829268293	"WGS"	FALSE
"15870"	"ENSR00001623863"	0	"mskcc.org"	"GRCh37"	"11"	113518495	113518495	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs550929981"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001623863"	""	74	"56"	18	73	"73"	0	""	"T"	""	"ENSR00001623863"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs550929981"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75c06092-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.243243243243243	"WGS"	FALSE
"15871"	"ENSR00000569247"	0	"mskcc.org"	"GRCh37"	"11"	114480138	114480138	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000569247"	""	110	"99"	11	59	"59"	0	""	"G"	""	"ENSR00000569247"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75c086c6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"15872"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	114924416	114924416	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"87"	6	64	"64"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"75c098be-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"15873"	"AP000797.3"	0	"mskcc.org"	"GRCh37"	"11"	115635222	115635222	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.164-78232C>G"	""	""	"ENST00000539305"	""	90	"85"	5	72	"72"	0	"AP000797.3,intron_variant,,ENST00000539305,;LINC00900,upstream_gene_variant,,ENST00000499809,;LINC00900,upstream_gene_variant,,ENST00000514294,;LINC00900,upstream_gene_variant,,ENST00000501294,;LINC00900,upstream_gene_variant,,ENST00000537070,;LINC00900,upstream_gene_variant,,ENST00000535683,;"	"G"	"ENSG00000256717"	"ENST00000539305"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/574"	""	""	""	""	""	"1"	NA	1	"AP000797.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"75c0abc4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"15874"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	115963242	115963242	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"70"	31	64	"63"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"75c0b36c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306930693069307	"WGS"	FALSE
"15875"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	115977416	115977416	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"79"	22	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75c0b42a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217821782178218	"WGS"	FALSE
"15876"	"PCSK7"	9159	"mskcc.org"	"GRCh37"	"11"	117098923	117098923	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.603+9C>T"	""	""	"ENST00000320934"	""	70	"56"	14	50	"50"	0	"PCSK7,intron_variant,,ENST00000320934,NM_004716.2;PCSK7,intron_variant,,ENST00000525027,;PCSK7,upstream_gene_variant,,ENST00000540028,;RNF214,upstream_gene_variant,,ENST00000531452,NM_001077239.1;RNF214,upstream_gene_variant,,ENST00000531287,NM_001278249.1;PCSK7,downstream_gene_variant,,ENST00000530269,;PCSK7,downstream_gene_variant,,ENST00000524507,;PCSK7,downstream_gene_variant,,ENST00000532301,;RNF214,upstream_gene_variant,,ENST00000534428,;PCSK7,upstream_gene_variant,,ENST00000534529,;RNF214,upstream_gene_variant,,ENST00000529869,;"	"A"	"ENSG00000160613"	"ENST00000320934"	"Transcript"	"intron_variant"	"-/4649"	"-/2358"	"-/785"	""	""	""	"1"	NA	-1	"PCSK7"	"HGNC"	8748	"protein_coding"	"YES"	"CCDS8382.1"	"ENSP00000325917"	"Q16549"	"E9PMC0,E9PLM0,E9PIW7,B3KUH2"	"UPI0000070E4E"	"NM_004716.2"	""	""	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"75c0d608-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	TRUE
"15877"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	118052880	118052880	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"59"	22	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"75c11730-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271604938271605	"WGS"	FALSE
"15878"	"SORL1"	6653	"mskcc.org"	"GRCh37"	"11"	121431327	121431327	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"rs17125462"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3049+961A>G"	""	""	"ENST00000260197"	""	126	"92"	34	65	"65"	0	"SORL1,intron_variant,,ENST00000260197,NM_003105.5;SORL1,downstream_gene_variant,,ENST00000529445,;SORL1,downstream_gene_variant,,ENST00000524873,;"	"G"	"ENSG00000137642"	"ENST00000260197"	"Transcript"	"intron_variant"	"-/10904"	"-/6645"	"-/2214"	""	""	"rs17125462"	"1"	NA	1	"SORL1"	"HGNC"	11185	"protein_coding"	"YES"	"CCDS8436.1"	"ENSP00000260197"	"Q92673"	"E9PS32,E9PPB3"	"UPI000013D0B1"	"NM_003105.5"	""	""	""	"21/47"	""	"G:0.0140"	"G:0.0507"	"G:0.0029"	NA	"G:0"	"G:0.001"	"G:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"75c18396-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26984126984127	"WGS"	FALSE
"15879"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	122898444	122898444	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"45"	12	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"75c1cafe-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"15880"	"RP11-109E10.1"	0	"mskcc.org"	"GRCh37"	"11"	123182818	123182818	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000527774"	""	95	"80"	15	40	"40"	0	"RP11-109E10.1,downstream_gene_variant,,ENST00000527774,;RP11-109E10.1,downstream_gene_variant,,ENST00000527533,;"	"A"	"ENSG00000254823"	"ENST00000527774"	"Transcript"	"downstream_gene_variant"	"-/445"	""	""	""	""	""	"1"	"1593"	-1	"RP11-109E10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75c1cf22-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"15881"	"STT3A"	3703	"mskcc.org"	"GRCh37"	"11"	125461386	125461386	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000392708"	""	66	"61"	5	42	"42"	0	"STT3A,upstream_gene_variant,,ENST00000392708,NM_001278503.1,NM_152713.4,NM_001278504.1;STT3A,upstream_gene_variant,,ENST00000529196,;STT3A,upstream_gene_variant,,ENST00000531491,;STT3A,upstream_gene_variant,,ENST00000525652,;STT3A,upstream_gene_variant,,ENST00000527606,;STT3A,upstream_gene_variant,,ENST00000529886,;STT3A-AS1,intron_variant,,ENST00000530526,;STT3A-AS1,intron_variant,,ENST00000532714,;STT3A,upstream_gene_variant,,ENST00000534472,;"	"C"	"ENSG00000134910"	"ENST00000392708"	"Transcript"	"upstream_gene_variant"	"-/4558"	"-/2118"	"-/705"	""	""	""	"1"	"1304"	1	"STT3A"	"HGNC"	6172	"protein_coding"	"YES"	"CCDS8458.1"	"ENSP00000376472"	"P46977"	"E9PNQ1,E9PN73,E9PIJ8,E9PI32"	"UPI0000071627"	"NM_001278503.1,NM_152713.4,NM_001278504.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"75c21c02-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0757575757575758	"WGS"	FALSE
"15882"	"RP11-480C22.1"	101929497	"mskcc.org"	"GRCh37"	"11"	127203037	127203037	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.113-1882G>A"	""	""	"ENST00000608214"	""	133	"125"	8	76	"76"	0	"RP11-480C22.1,intron_variant,,ENST00000608214,;"	"A"	"ENSG00000273409"	"ENST00000608214"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/503"	""	""	""	""	""	"1"	NA	1	"RP11-480C22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75c2573a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0601503759398496	"WGS"	FALSE
"15883"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	127491771	127491771	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"79"	21	77	"77"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"75c25d98-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21	"WGS"	FALSE
"15884"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	127587329	127587329	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"97"	19	73	"73"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"75c25e4c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163793103448276	"WGS"	FALSE
"15885"	"RP11-744N12.3"	101929538	"mskcc.org"	"GRCh37"	"11"	128507794	128507794	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.421-8126C>T"	""	""	"ENST00000572256"	""	91	"78"	13	67	"67"	0	"RP11-744N12.3,intron_variant,,ENST00000572256,;"	"A"	"ENSG00000245008"	"ENST00000572256"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/541"	""	""	""	""	""	"1"	NA	-1	"RP11-744N12.3"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"75c27e04-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"15886"	"FLI1"	2313	"mskcc.org"	"GRCh37"	"11"	128628117	128628117	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"rs779389569"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.126C>T"	"p.="	"p.Y42Y"	"ENST00000527786"	"2/9"	85	"71"	14	67	"67"	0	"FLI1,synonymous_variant,p.=,ENST00000527786,NM_001271010.1,NM_002017.4;FLI1,synonymous_variant,p.=,ENST00000344954,;FLI1,synonymous_variant,p.=,ENST00000534087,NM_001167681.2;FLI1,synonymous_variant,p.=,ENST00000527767,;FLI1,5_prime_UTR_variant,,ENST00000525560,NM_001271012.1;FLI1,synonymous_variant,p.=,ENST00000429175,;FLI1,synonymous_variant,p.=,ENST00000608303,;FLI1,non_coding_transcript_exon_variant,,ENST00000608055,;"	"T"	"ENSG00000151702"	"ENST00000527786"	"Transcript"	"synonymous_variant"	"615/4127"	"126/1359"	"42/452"	"Y"	"taC/taT"	"rs779389569"	"1"	NA	1	"FLI1"	"HGNC"	3749	"protein_coding"	"YES"	"CCDS44768.1"	"ENSP00000433488"	""	""	"UPI000012A972"	"NM_001271010.1,NM_002017.4"	""	""	"2/9"	""	"hmmpanther:PTHR11849,hmmpanther:PTHR11849:SF180"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	"9.444e-06"	"0"	"0"	"0"	"0"	"0"	"0"	"6.703e-05"	"1"	"PASS"	"ACG"	"75c28246-0003-11e6-8a0f-c369372d9a03"	"."	1.027e-05	"1/97394"	"1/105886"	"0/7462"	"0/10324"	"0/7328"	"0/6004"	"0/50720"	"0/638"	"1/14918"	"PASS"	"FALSE"	0.164705882352941	"WGS"	TRUE
"15887"	"ARHGAP32"	9743	"mskcc.org"	"GRCh37"	"11"	128937937	128937937	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.490-1174A>T"	""	""	"ENST00000310343"	""	96	"74"	22	63	"63"	0	"ARHGAP32,intron_variant,,ENST00000310343,NM_001142685.1;ARHGAP32,intron_variant,,ENST00000524655,;ARHGAP32,intron_variant,,ENST00000525234,;ARHGAP32,upstream_gene_variant,,ENST00000533509,;"	"A"	"ENSG00000134909"	"ENST00000310343"	"Transcript"	"intron_variant"	"-/10111"	"-/6264"	"-/2087"	""	""	""	"1"	NA	-1	"ARHGAP32"	"HGNC"	17399	"protein_coding"	"YES"	"CCDS44769.1"	"ENSP00000310561"	"A7KAX9"	"I7H0B0"	"UPI000159C61F"	"NM_001142685.1"	""	""	""	"5/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75c28890-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229166666666667	"WGS"	FALSE
"15888"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	129222430	129222430	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"61"	6	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"75c292cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0895522388059701	"WGS"	FALSE
"15889"	"NTM"	50863	"mskcc.org"	"GRCh37"	"11"	131623695	131623695	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.83-157763A>G"	""	""	"ENST00000374791"	""	74	"68"	6	52	"52"	0	"NTM,intron_variant,,ENST00000374791,NM_001048209.1;NTM,intron_variant,,ENST00000539799,;NTM,intron_variant,,ENST00000427481,;NTM,intron_variant,,ENST00000550167,;NTM,intron_variant,,ENST00000436745,;"	"G"	"ENSG00000182667"	"ENST00000374791"	"Transcript"	"intron_variant"	"-/3040"	"-/1035"	"-/344"	""	""	""	"1"	NA	1	"NTM"	"HGNC"	17941	"protein_coding"	""	"CCDS41733.1"	"ENSP00000363923"	"Q9P121"	""	"UPI0000047814"	"NM_001048209.1"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75c2d840-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"15890"	"NTM"	50863	"mskcc.org"	"GRCh37"	"11"	131623752	131623752	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.83-157706A>G"	""	""	"ENST00000374791"	""	62	"56"	6	58	"58"	0	"NTM,intron_variant,,ENST00000374791,NM_001048209.1;NTM,intron_variant,,ENST00000539799,;NTM,intron_variant,,ENST00000427481,;NTM,intron_variant,,ENST00000550167,;NTM,intron_variant,,ENST00000436745,;"	"G"	"ENSG00000182667"	"ENST00000374791"	"Transcript"	"intron_variant"	"-/3040"	"-/1035"	"-/344"	""	""	""	"1"	NA	1	"NTM"	"HGNC"	17941	"protein_coding"	""	"CCDS41733.1"	"ENSP00000363923"	"Q9P121"	""	"UPI0000047814"	"NM_001048209.1"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"75c2d944-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"15891"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	133583422	133583422	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"93"	10	79	"79"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"75c3291c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0970873786407767	"WGS"	FALSE
"15892"	"ENSR00000571914"	0	"mskcc.org"	"GRCh37"	"11"	134903370	134903370	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000571914"	""	104	"81"	23	68	"68"	0	""	"T"	""	"ENSR00000571914"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"75c3a7ca-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221153846153846	"WGS"	FALSE
"15893"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	1782714	1782714	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	61	"55"	6	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"75c43d70-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0983606557377049	"WGS"	FALSE
"15894"	"CACNA1C"	775	"mskcc.org"	"GRCh37"	"12"	2180889	2180889	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.49+18112C>A"	""	""	"ENST00000347598"	""	91	"73"	18	66	"66"	0	"CACNA1C,intron_variant,,ENST00000399655,NM_001129834.1,NM_001129829.1,NM_000719.6;CACNA1C,intron_variant,,ENST00000399634,NM_001167625.1;CACNA1C,intron_variant,,ENST00000406454,;CACNA1C,intron_variant,,ENST00000399617,NM_001167624.1;CACNA1C,intron_variant,,ENST00000399603,NM_001167623.1;CACNA1C,intron_variant,,ENST00000335762,;CACNA1C,intron_variant,,ENST00000480911,;CACNA1C,intron_variant,,ENST00000347598,NM_199460.2,NM_001129827.1;CACNA1C,intron_variant,,ENST00000344100,;CACNA1C,intron_variant,,ENST00000327702,NM_001129830.1;CACNA1C,intron_variant,,ENST00000399638,NM_001129831.1;CACNA1C,intron_variant,,ENST00000399606,NM_001129832.1;CACNA1C,intron_variant,,ENST00000399621,;CACNA1C,intron_variant,,ENST00000399637,NM_001129835.1;CACNA1C,intron_variant,,ENST00000402845,NM_001129833.1;CACNA1C,intron_variant,,ENST00000399629,NM_001129836.1;CACNA1C,intron_variant,,ENST00000399591,NM_001129838.1,NM_001129846.1;CACNA1C,intron_variant,,ENST00000399595,NM_001129837.1;CACNA1C,intron_variant,,ENST00000399649,NM_001129839.1;CACNA1C,intron_variant,,ENST00000399597,NM_001129844.1,NM_001129842.1;CACNA1C,intron_variant,,ENST00000399601,NM_001129843.1;CACNA1C,intron_variant,,ENST00000399641,NM_001129840.1;CACNA1C,intron_variant,,ENST00000399644,NM_001129841.1;CACNA1C,intron_variant,,ENST00000543114,;"	"A"	"ENSG00000151067"	"ENST00000347598"	"Transcript"	"intron_variant"	"-/6655"	"-/6561"	"-/2186"	""	""	""	"1"	NA	1	"CACNA1C"	"HGNC"	1390	"protein_coding"	"YES"	"CCDS44788.1"	"ENSP00000266376"	"Q13936"	"Q86XX0,O95234"	"UPI0000E593E5"	"NM_199460.2,NM_001129827.1"	""	""	""	"1/48"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"75c447f2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197802197802198	"WGS"	FALSE
"15895"	"PRMT8"	56341	"mskcc.org"	"GRCh37"	"12"	3487949	3487949	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000452611"	""	96	"90"	6	47	"47"	0	"PRMT8,upstream_gene_variant,,ENST00000452611,NM_001256536.1;"	"C"	"ENSG00000111218"	"ENST00000452611"	"Transcript"	"upstream_gene_variant"	"-/1204"	"-/1158"	"-/385"	""	""	""	"1"	"2566"	1	"PRMT8"	"HGNC"	5188	"protein_coding"	""	"CCDS58200.1"	"ENSP00000414507"	"Q9NR22"	""	"UPI0000E22F84"	"NM_001256536.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"75c49068-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"15896"	"CCND2"	894	"mskcc.org"	"GRCh37"	"12"	4397979	4397979	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.572-29C>T"	""	""	"ENST00000261254"	""	89	"72"	17	47	"47"	0	"CCND2,intron_variant,,ENST00000261254,NM_001759.3;CCND2,intron_variant,,ENST00000536537,;CCND2,downstream_gene_variant,,ENST00000541542,;CCND2,intron_variant,,ENST00000536795,;"	"T"	"ENSG00000118971"	"ENST00000261254"	"Transcript"	"intron_variant"	"-/6480"	"-/870"	"-/289"	""	""	""	"1"	NA	1	"CCND2"	"HGNC"	1583	"protein_coding"	"YES"	"CCDS8524.1"	"ENSP00000261254"	"P30279"	""	"UPI00001275C5"	"NM_001759.3"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"75c4b17e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191011235955056	"WGS"	TRUE
"15897"	"NTF3"	4908	"mskcc.org"	"GRCh37"	"12"	5563490	5563490	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.18+21982C>T"	""	""	"ENST00000423158"	""	105	"94"	11	62	"62"	0	"NTF3,intron_variant,,ENST00000423158,NM_001102654.1;NTF3,intron_variant,,ENST00000535299,;NTF3,intron_variant,,ENST00000543548,;"	"T"	"ENSG00000185652"	"ENST00000423158"	"Transcript"	"intron_variant"	"-/1336"	"-/813"	"-/270"	""	""	""	"1"	NA	1	"NTF3"	"HGNC"	8023	"protein_coding"	"YES"	"CCDS44806.1"	"ENSP00000397297"	"P20783"	""	"UPI0000D4F126"	"NM_001102654.1"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75c4cb5a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104761904761905	"WGS"	FALSE
"15898"	"NANOG"	79923	"mskcc.org"	"GRCh37"	"12"	7941884	7941884	"+"	"5'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000229307"	""	51	"35"	16	48	"48"	0	"NANOG,intron_variant,,ENST00000541267,;NANOG,upstream_gene_variant,,ENST00000229307,NM_024865.2;NANOG,upstream_gene_variant,,ENST00000526286,;Y_RNA,upstream_gene_variant,,ENST00000364679,;NANOG,upstream_gene_variant,,ENST00000526434,;"	"A"	"ENSG00000111704"	"ENST00000229307"	"Transcript"	"upstream_gene_variant"	"-/2101"	"-/918"	"-/305"	""	""	""	"1"	"108"	1	"NANOG"	"HGNC"	20857	"protein_coding"	"YES"	"CCDS31736.1"	"ENSP00000229307"	"Q9H9S0"	"J7H4F6,F5GZI2"	"UPI000013C8F5"	"NM_024865.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75c52ec4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313725490196078	"WGS"	FALSE
"15899"	"LINC00937"	389634	"mskcc.org"	"GRCh37"	"12"	8493391	8493391	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1082-24256T>C"	""	""	"ENST00000544461"	""	70	"58"	12	54	"54"	0	"LINC00937,intron_variant,,ENST00000544461,;RP11-113C12.4,intron_variant,,ENST00000537764,;"	"G"	"ENSG00000226091"	"ENST00000544461"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3033"	""	""	""	""	""	"1"	NA	-1	"LINC00937"	"HGNC"	48629	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"75c558ae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171428571428571	"WGS"	FALSE
"15900"	"TAS2R14"	50840	"mskcc.org"	"GRCh37"	"12"	11274084	11274084	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.152+49937A>T"	""	""	"ENST00000381852"	""	97	"76"	21	64	"64"	0	"TAS2R14,intron_variant,,ENST00000381852,;PRR4,intron_variant,,ENST00000536668,;PRR4,intron_variant,,ENST00000535024,;PRR4,intron_variant,,ENST00000546265,;PRR4,intron_variant,,ENST00000541977,;PRR4,intron_variant,,ENST00000541175,;"	"A"	"ENSG00000212127"	"ENST00000381852"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1662"	""	""	""	""	""	"1"	NA	-1	"TAS2R14"	"HGNC"	14920	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"75c5b9de-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216494845360825	"WGS"	FALSE
"15901"	"DUSP16"	80824	"mskcc.org"	"GRCh37"	"12"	12686081	12686081	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-365-11684A>G"	""	""	"ENST00000228862"	""	99	"80"	19	66	"66"	0	"DUSP16,intron_variant,,ENST00000228862,NM_030640.2;DUSP16,intron_variant,,ENST00000541207,;DUSP16,intron_variant,,ENST00000539940,;DUSP16,intron_variant,,ENST00000536236,;"	"C"	"ENSG00000111266"	"ENST00000228862"	"Transcript"	"intron_variant"	"-/3568"	"-/1998"	"-/665"	""	""	""	"1"	NA	-1	"DUSP16"	"HGNC"	17909	"protein_coding"	"YES"	"CCDS8650.1"	"ENSP00000228862"	"Q9BY84"	"Q8IVT8,F5H5X4"	"UPI0000001BCE"	"NM_030640.2"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"75c5e936-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191919191919192	"WGS"	FALSE
"15902"	"APOLD1"	81575	"mskcc.org"	"GRCh37"	"12"	12910123	12910123	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.97-29720G>A"	""	""	"ENST00000326765"	""	47	"41"	6	56	"56"	0	"APOLD1,intron_variant,,ENST00000326765,NM_001130415.1;APOLD1,intron_variant,,ENST00000534843,;APOLD1,intron_variant,,ENST00000540583,;APOLD1,intron_variant,,ENST00000588943,;"	"A"	"ENSG00000178878"	"ENST00000326765"	"Transcript"	"intron_variant"	"-/4640"	"-/840"	"-/279"	""	""	""	"1"	NA	1	"APOLD1"	"HGNC"	25268	"protein_coding"	"YES"	"CCDS44833.1"	"ENSP00000324277"	"Q96LR9"	""	"UPI0000D4A841"	"NM_001130415.1"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"75c5f0de-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127659574468085	"WGS"	FALSE
"15903"	"PTPRO"	5800	"mskcc.org"	"GRCh37"	"12"	15631683	15631683	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.76-5225G>C"	""	""	"ENST00000281171"	""	80	"71"	9	66	"66"	0	"PTPRO,intron_variant,,ENST00000281171,NM_030667.2;PTPRO,intron_variant,,ENST00000348962,NM_002848.3;PTPRO,intron_variant,,ENST00000543886,;"	"C"	"ENSG00000151490"	"ENST00000281171"	"Transcript"	"intron_variant"	"-/5301"	"-/3651"	"-/1216"	""	""	""	"1"	NA	1	"PTPRO"	"HGNC"	9678	"protein_coding"	"YES"	"CCDS8675.1"	"ENSP00000281171"	"Q16827"	"B4DS16"	"UPI000013DC62"	"NM_030667.2"	""	""	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"75c63d0a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1125	"WGS"	FALSE
"15904"	"EPS8"	2059	"mskcc.org"	"GRCh37"	"12"	15855187	15855187	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-21-19281G>A"	""	""	"ENST00000281172"	""	107	"96"	11	51	"51"	0	"EPS8,intron_variant,,ENST00000281172,NM_004447.5;EPS8,intron_variant,,ENST00000543523,;EPS8,intron_variant,,ENST00000543612,;EPS8,intron_variant,,ENST00000544064,;EPS8,intron_variant,,ENST00000536793,;EPS8,intron_variant,,ENST00000535752,;EPS8,intron_variant,,ENST00000546311,;EPS8,intron_variant,,ENST00000543363,;EPS8,intron_variant,,ENST00000543468,;EPS8,intron_variant,,ENST00000536956,;"	"T"	"ENSG00000151491"	"ENST00000281172"	"Transcript"	"intron_variant"	"-/4061"	"-/2469"	"-/822"	""	""	""	"1"	NA	-1	"EPS8"	"HGNC"	3420	"protein_coding"	"YES"	"CCDS31753.1"	"ENSP00000281172"	"Q12929"	"F5H3Q6,F5H2B8,F5H1B5,F5GYM8,B4DX66"	"UPI000012A0BC"	"NM_004447.5"	""	""	""	"1/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"75c6405c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102803738317757	"WGS"	FALSE
"15905"	"DERA"	51071	"mskcc.org"	"GRCh37"	"12"	16074658	16074658	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.31+10310C>G"	""	""	"ENST00000428559"	""	86	"67"	19	56	"56"	0	"DERA,intron_variant,,ENST00000428559,NM_015954.2;DERA,intron_variant,,ENST00000532964,;DERA,intron_variant,,ENST00000524480,;DERA,intron_variant,,ENST00000531803,;DERA,intron_variant,,ENST00000528821,;DERA,intron_variant,,ENST00000526521,;"	"G"	"ENSG00000023697"	"ENST00000428559"	"Transcript"	"intron_variant"	"-/1709"	"-/957"	"-/318"	""	""	""	"1"	NA	1	"DERA"	"HGNC"	24269	"protein_coding"	"YES"	"CCDS44838.1"	"ENSP00000416583"	"Q9Y315"	"G3V158,E9PPK3"	"UPI00001291A2"	"NM_015954.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"75c64390-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22093023255814	"WGS"	FALSE
"15906"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	16881743	16881743	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"99"	28	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"75c656b4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220472440944882	"WGS"	FALSE
"15907"	"PLEKHA5"	54477	"mskcc.org"	"GRCh37"	"12"	19507451	19507451	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3138+515C>G"	""	""	"ENST00000429027"	""	30	"26"	4	31	"31"	0	"PLEKHA5,intron_variant,,ENST00000538714,NM_001143821.2;PLEKHA5,intron_variant,,ENST00000429027,NM_001256470.1;PLEKHA5,intron_variant,,ENST00000317589,;PLEKHA5,intron_variant,,ENST00000355397,;PLEKHA5,intron_variant,,ENST00000424268,;PLEKHA5,intron_variant,,ENST00000299275,NM_019012.5;PLEKHA5,intron_variant,,ENST00000359180,;PLEKHA5,intron_variant,,ENST00000543806,NM_001256787.1;PLEKHA5,intron_variant,,ENST00000539256,;PLEKHA5,intron_variant,,ENST00000536974,;PLEKHA5,intron_variant,,ENST00000538972,;"	"G"	"ENSG00000052126"	"ENST00000429027"	"Transcript"	"intron_variant"	"-/4762"	"-/3849"	"-/1282"	""	""	""	"1"	NA	1	"PLEKHA5"	"HGNC"	30036	"protein_coding"	"YES"	"CCDS58213.1"	"ENSP00000404296"	"Q9HAU0"	"F5H1X3,B4DHK5"	"UPI000204ABA8"	"NM_001256470.1"	""	""	""	"26/31"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"75c6a8a8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"15908"	"PLEKHA5"	54477	"mskcc.org"	"GRCh37"	"12"	19507458	19507458	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3138+522G>A"	""	""	"ENST00000429027"	""	28	"24"	4	31	"31"	0	"PLEKHA5,intron_variant,,ENST00000538714,NM_001143821.2;PLEKHA5,intron_variant,,ENST00000429027,NM_001256470.1;PLEKHA5,intron_variant,,ENST00000317589,;PLEKHA5,intron_variant,,ENST00000355397,;PLEKHA5,intron_variant,,ENST00000424268,;PLEKHA5,intron_variant,,ENST00000299275,NM_019012.5;PLEKHA5,intron_variant,,ENST00000359180,;PLEKHA5,intron_variant,,ENST00000543806,NM_001256787.1;PLEKHA5,intron_variant,,ENST00000539256,;PLEKHA5,intron_variant,,ENST00000536974,;PLEKHA5,intron_variant,,ENST00000538972,;"	"A"	"ENSG00000052126"	"ENST00000429027"	"Transcript"	"intron_variant"	"-/4762"	"-/3849"	"-/1282"	""	""	""	"1"	NA	1	"PLEKHA5"	"HGNC"	30036	"protein_coding"	"YES"	"CCDS58213.1"	"ENSP00000404296"	"Q9HAU0"	"F5H1X3,B4DHK5"	"UPI000204ABA8"	"NM_001256470.1"	""	""	""	"26/31"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75c6a95c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"15909"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	23433045	23433045	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"88"	12	62	"62"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"75c72a1c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"15910"	"C12orf77"	196415	"mskcc.org"	"GRCh37"	"12"	25151742	25151742	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000549828"	""	88	"71"	17	49	"49"	0	"C12orf77,upstream_gene_variant,,ENST00000549828,NM_001101339.1;C12orf77,upstream_gene_variant,,ENST00000549262,;C12orf77,upstream_gene_variant,,ENST00000434912,;"	"A"	"ENSG00000226397"	"ENST00000549828"	"Transcript"	"upstream_gene_variant"	"-/1516"	"-/438"	"-/145"	""	""	""	"1"	"1369"	-1	"C12orf77"	"HGNC"	27282	"protein_coding"	"YES"	"CCDS44846.1"	"ENSP00000447146"	"C9JDV5"	""	"UPI000016134F"	"NM_001101339.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75c753a2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193181818181818	"WGS"	FALSE
"15911"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	25973461	25973461	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"77"	16	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75c764a0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172043010752688	"WGS"	FALSE
"15912"	"FAR2"	55711	"mskcc.org"	"GRCh37"	"12"	29422430	29422430	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs550815865"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-38-915C>T"	""	""	"ENST00000536681"	""	110	"96"	14	64	"64"	0	"FAR2,intron_variant,,ENST00000536681,NM_001271783.1;FAR2,intron_variant,,ENST00000182377,NM_018099.4;FAR2,intron_variant,,ENST00000547116,NM_001271784.1;FAR2,intron_variant,,ENST00000551451,;FAR2,intron_variant,,ENST00000547411,;FAR2,upstream_gene_variant,,ENST00000552137,;"	"T"	"ENSG00000064763"	"ENST00000536681"	"Transcript"	"intron_variant"	"-/3616"	"-/1548"	"-/515"	""	""	"rs550815865"	"1"	NA	1	"FAR2"	"HGNC"	25531	"protein_coding"	"YES"	"CCDS8717.1"	"ENSP00000443291"	"Q96K12"	"F8VV73,F8VPF2"	"UPI0000041260"	"NM_001271783.1"	""	""	""	"1/11"	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"75c7bec8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127272727272727	"WGS"	FALSE
"15913"	"TMTC1"	83857	"mskcc.org"	"GRCh37"	"12"	29766751	29766751	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs192061369"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1129-9519G>A"	""	""	"ENST00000539277"	""	91	"80"	11	64	"64"	0	"TMTC1,intron_variant,,ENST00000256062,NM_175861.3;TMTC1,intron_variant,,ENST00000551659,;TMTC1,intron_variant,,ENST00000552618,;TMTC1,intron_variant,,ENST00000539277,NM_001193451.1;TMTC1,intron_variant,,ENST00000381224,;TMTC1,intron_variant,,ENST00000319685,;TMTC1,upstream_gene_variant,,ENST00000546582,;TMTC1,intron_variant,,ENST00000553189,;"	"T"	"ENSG00000133687"	"ENST00000539277"	"Transcript"	"intron_variant"	"-/2758"	"-/2649"	"-/882"	""	""	"rs192061369"	"1"	NA	-1	"TMTC1"	"HGNC"	24099	"protein_coding"	"YES"	"CCDS53772.1"	"ENSP00000442046"	"Q8IUR5"	"B3KVW1"	"UPI0001DD37FA"	"NM_001193451.1"	""	""	""	"6/17"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"75c7c346-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120879120879121	"WGS"	FALSE
"15914"	"RP11-551L14.4"	0	"mskcc.org"	"GRCh37"	"12"	31157928	31157928	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.207+804T>A"	""	""	"ENST00000222396"	""	93	"78"	15	47	"47"	0	"RP11-551L14.4,intron_variant,,ENST00000222396,;RP11-551L14.4,intron_variant,,ENST00000544329,;RP11-551L14.4,intron_variant,,ENST00000418254,;"	"T"	"ENSG00000226472"	"ENST00000222396"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/616"	""	""	""	""	""	"1"	NA	-1	"RP11-551L14.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"75c7df8e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161290322580645	"WGS"	FALSE
"15915"	"BICD1"	636	"mskcc.org"	"GRCh37"	"12"	32498910	32498910	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2764+6997A>C"	""	""	"ENST00000281474"	""	57	"52"	5	44	"44"	0	"BICD1,intron_variant,,ENST00000548411,NM_001003398.1;BICD1,intron_variant,,ENST00000281474,NM_001714.2;BICD1,intron_variant,,ENST00000395758,;"	"C"	"ENSG00000151746"	"ENST00000281474"	"Transcript"	"intron_variant"	"-/3281"	"-/2928"	"-/975"	""	""	""	"1"	NA	1	"BICD1"	"HGNC"	1049	"protein_coding"	"YES"	"CCDS8726.1"	"ENSP00000281474"	"Q96G01"	""	"UPI00001AEA67"	"NM_001714.2"	""	""	""	"8/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"75c81a76-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087719298245614	"WGS"	FALSE
"15916"	"BICD1"	636	"mskcc.org"	"GRCh37"	"12"	32498925	32498925	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2764+7012A>C"	""	""	"ENST00000281474"	""	59	"54"	5	45	"45"	0	"BICD1,intron_variant,,ENST00000548411,NM_001003398.1;BICD1,intron_variant,,ENST00000281474,NM_001714.2;BICD1,intron_variant,,ENST00000395758,;"	"C"	"ENSG00000151746"	"ENST00000281474"	"Transcript"	"intron_variant"	"-/3281"	"-/2928"	"-/975"	""	""	""	"1"	NA	1	"BICD1"	"HGNC"	1049	"protein_coding"	"YES"	"CCDS8726.1"	"ENSP00000281474"	"Q96G01"	""	"UPI00001AEA67"	"NM_001714.2"	""	""	""	"8/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75c81ac6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0847457627118644	"WGS"	FALSE
"15917"	"RP11-266O15.4"	0	"mskcc.org"	"GRCh37"	"12"	38602919	38602919	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000548633"	""	97	"70"	27	73	"73"	0	"RP11-266O15.4,upstream_gene_variant,,ENST00000548633,;RP11-266O15.3,upstream_gene_variant,,ENST00000549593,;"	"T"	"ENSG00000257292"	"ENST00000548633"	"Transcript"	"upstream_gene_variant"	"-/627"	""	""	""	""	""	"1"	"3105"	-1	"RP11-266O15.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"75c8958c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278350515463918	"WGS"	FALSE
"15918"	"KIF21A"	55605	"mskcc.org"	"GRCh37"	"12"	39714275	39714275	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3672-460T>G"	""	""	"ENST00000361418"	""	116	"110"	6	64	"64"	0	"KIF21A,intron_variant,,ENST00000395670,;KIF21A,intron_variant,,ENST00000361961,NM_017641.3,NM_001173464.1;KIF21A,intron_variant,,ENST00000361418,;KIF21A,intron_variant,,ENST00000544797,NM_001173463.1;KIF21A,intron_variant,,ENST00000541463,NM_001173465.1;KIF21A,intron_variant,,ENST00000552961,;KIF21A,intron_variant,,ENST00000551264,;KIF21A,intron_variant,,ENST00000547745,;KIF21A,intron_variant,,ENST00000552475,;KIF21A,intron_variant,,ENST00000547108,;"	"C"	"ENSG00000139116"	"ENST00000361418"	"Transcript"	"intron_variant"	"-/5044"	"-/5025"	"-/1674"	""	""	""	"1"	NA	-1	"KIF21A"	"HGNC"	19349	"protein_coding"	"YES"	"CCDS53776.1"	"ENSP00000354878"	"Q7Z4S6"	""	"UPI0000212ED9"	""	""	""	""	"27/37"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"75c8b030-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0517241379310345	"WGS"	FALSE
"15919"	"SLC2A13"	114134	"mskcc.org"	"GRCh37"	"12"	40225455	40225455	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1320-1425T>A"	""	""	"ENST00000280871"	""	115	"106"	9	56	"56"	0	"SLC2A13,intron_variant,,ENST00000280871,NM_052885.3;C12orf40,intron_variant,,ENST00000468200,;SLC2A13,intron_variant,,ENST00000465517,;SLC2A13,intron_variant,,ENST00000505338,;"	"T"	"ENSG00000151229"	"ENST00000280871"	"Transcript"	"intron_variant"	"-/7003"	"-/1947"	"-/648"	""	""	""	"1"	NA	-1	"SLC2A13"	"HGNC"	15956	"protein_coding"	"YES"	"CCDS8736.2"	"ENSP00000280871"	"Q96QE2"	""	"UPI000066D913"	"NM_052885.3"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"75c8c0ac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0782608695652174	"WGS"	FALSE
"15920"	"PDZRN4"	29951	"mskcc.org"	"GRCh37"	"12"	41718432	41718432	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.843+130442T>C"	""	""	"ENST00000402685"	""	109	"87"	22	71	"71"	0	"PDZRN4,intron_variant,,ENST00000402685,NM_001164595.1;"	"C"	"ENSG00000165966"	"ENST00000402685"	"Transcript"	"intron_variant"	"-/3347"	"-/3111"	"-/1036"	""	""	""	"1"	NA	1	"PDZRN4"	"HGNC"	30552	"protein_coding"	"YES"	"CCDS53777.1"	"ENSP00000384197"	"Q6ZMN7"	"B3KT02"	"UPI0000D621D0"	"NM_001164595.1"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"75c90be8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.201834862385321	"WGS"	FALSE
"15921"	"PDZRN4"	29951	"mskcc.org"	"GRCh37"	"12"	41743659	41743659	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.843+155669A>T"	""	""	"ENST00000402685"	""	50	"44"	6	33	"33"	0	"PDZRN4,intron_variant,,ENST00000402685,NM_001164595.1;"	"T"	"ENSG00000165966"	"ENST00000402685"	"Transcript"	"intron_variant"	"-/3347"	"-/3111"	"-/1036"	""	""	""	"1"	NA	1	"PDZRN4"	"HGNC"	30552	"protein_coding"	"YES"	"CCDS53777.1"	"ENSP00000384197"	"Q6ZMN7"	"B3KT02"	"UPI0000D621D0"	"NM_001164595.1"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"75c90d46-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"15922"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	43425993	43425993	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"92"	28	68	"68"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75c93dd4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WGS"	FALSE
"15923"	"NELL2"	4753	"mskcc.org"	"GRCh37"	"12"	44931634	44931634	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1814-5130A>C"	""	""	"ENST00000437801"	""	153	"114"	39	61	"61"	0	"NELL2,intron_variant,,ENST00000429094,NM_001145108.1;NELL2,intron_variant,,ENST00000437801,NM_001145107.1;NELL2,intron_variant,,ENST00000395487,NM_001145109.1;NELL2,intron_variant,,ENST00000452445,NM_006159.2;NELL2,intron_variant,,ENST00000551601,;NELL2,intron_variant,,ENST00000549027,;NELL2,intron_variant,,ENST00000333837,NM_001145110.1;NELL2,intron_variant,,ENST00000549668,;"	"G"	"ENSG00000184613"	"ENST00000437801"	"Transcript"	"intron_variant"	"-/3279"	"-/2601"	"-/866"	""	""	""	"1"	NA	-1	"NELL2"	"HGNC"	7751	"protein_coding"	"YES"	"CCDS44863.1"	"ENSP00000416341"	"Q99435"	"F8W1I8,F8W1A2,F8VRQ0"	"UPI000191537D"	"NM_001145107.1"	""	""	""	"16/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"75c95b3e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254901960784314	"WGS"	FALSE
"15924"	"RP11-446N19.1"	0	"mskcc.org"	"GRCh37"	"12"	47006572	47006572	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.288-39601C>T"	""	""	"ENST00000607353"	""	96	"76"	20	46	"46"	0	"RP11-446N19.1,intron_variant,,ENST00000607353,;"	"T"	"ENSG00000272369"	"ENST00000607353"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/448"	""	""	""	""	""	"1"	NA	1	"RP11-446N19.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"75c99388-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WGS"	FALSE
"15925"	"RNU6-600P"	0	"mskcc.org"	"GRCh37"	"12"	49281613	49281613	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000362524"	""	44	"39"	5	44	"44"	0	"RNU6-600P,downstream_gene_variant,,ENST00000362524,;"	"T"	"ENSG00000199394"	"ENST00000362524"	"Transcript"	"downstream_gene_variant"	"-/99"	""	""	""	""	""	"1"	"4300"	-1	"RNU6-600P"	"HGNC"	47563	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"75c9d1cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WGS"	FALSE
"15926"	"PRKAG1"	5571	"mskcc.org"	"GRCh37"	"12"	49405607	49405607	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"rs566358576"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.58+1238A>T"	""	""	"ENST00000316299"	""	66	"60"	6	52	"52"	0	"PRKAG1,intron_variant,,ENST00000548065,;PRKAG1,intron_variant,,ENST00000395170,NM_002733.4;PRKAG1,intron_variant,,ENST00000316299,NM_001206709.1;PRKAG1,intron_variant,,ENST00000547306,;PRKAG1,intron_variant,,ENST00000552212,NM_001206710.1;PRKAG1,intron_variant,,ENST00000552463,;PRKAG1,intron_variant,,ENST00000551696,;PRKAG1,intron_variant,,ENST00000548950,;PRKAG1,intron_variant,,ENST00000551121,;PRKAG1,intron_variant,,ENST00000547082,;PRKAG1,intron_variant,,ENST00000548605,;PRKAG1,intron_variant,,ENST00000548857,;PRKAG1,intron_variant,,ENST00000547125,;RP11-386G11.5,intron_variant,,ENST00000547866,;RP11-386G11.5,intron_variant,,ENST00000552933,;RP11-386G11.5,intron_variant,,ENST00000552284,;RP11-386G11.5,intron_variant,,ENST00000547395,;PRKAG1,intron_variant,,ENST00000546531,;PRKAG1,intron_variant,,ENST00000550448,;PRKAG1,intron_variant,,ENST00000549726,;PRKAG1,intron_variant,,ENST00000550125,;PRKAG1,downstream_gene_variant,,ENST00000552657,;"	"A"	"ENSG00000181929"	"ENST00000316299"	"Transcript"	"intron_variant"	"-/1683"	"-/1023"	"-/340"	""	""	"rs566358576"	"1"	NA	-1	"PRKAG1"	"HGNC"	9385	"protein_coding"	"YES"	"CCDS55825.1"	"ENSP00000323867"	"P54619"	"F8W9D1,F8VYZ8,F8VPF5"	"UPI000007202F"	"NM_001206709.1"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75c9d62c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"15927"	"PRKAG1"	5571	"mskcc.org"	"GRCh37"	"12"	49405611	49405611	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.58+1234C>G"	""	""	"ENST00000316299"	""	67	"61"	6	51	"51"	0	"PRKAG1,intron_variant,,ENST00000548065,;PRKAG1,intron_variant,,ENST00000395170,NM_002733.4;PRKAG1,intron_variant,,ENST00000316299,NM_001206709.1;PRKAG1,intron_variant,,ENST00000547306,;PRKAG1,intron_variant,,ENST00000552212,NM_001206710.1;PRKAG1,intron_variant,,ENST00000552463,;PRKAG1,intron_variant,,ENST00000551696,;PRKAG1,intron_variant,,ENST00000548950,;PRKAG1,intron_variant,,ENST00000551121,;PRKAG1,intron_variant,,ENST00000547082,;PRKAG1,intron_variant,,ENST00000548605,;PRKAG1,intron_variant,,ENST00000548857,;PRKAG1,intron_variant,,ENST00000547125,;RP11-386G11.5,intron_variant,,ENST00000547866,;RP11-386G11.5,intron_variant,,ENST00000552933,;RP11-386G11.5,intron_variant,,ENST00000552284,;RP11-386G11.5,intron_variant,,ENST00000547395,;PRKAG1,intron_variant,,ENST00000546531,;PRKAG1,intron_variant,,ENST00000550448,;PRKAG1,intron_variant,,ENST00000549726,;PRKAG1,intron_variant,,ENST00000550125,;PRKAG1,downstream_gene_variant,,ENST00000552657,;"	"C"	"ENSG00000181929"	"ENST00000316299"	"Transcript"	"intron_variant"	"-/1683"	"-/1023"	"-/340"	""	""	""	"1"	NA	-1	"PRKAG1"	"HGNC"	9385	"protein_coding"	"YES"	"CCDS55825.1"	"ENSP00000323867"	"P54619"	"F8W9D1,F8VYZ8,F8VPF5"	"UPI000007202F"	"NM_001206709.1"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"75c9d67c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0895522388059701	"WGS"	FALSE
"15928"	"PRKAG1"	5571	"mskcc.org"	"GRCh37"	"12"	49405617	49405617	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.58+1228A>T"	""	""	"ENST00000316299"	""	68	"64"	4	52	"52"	0	"PRKAG1,intron_variant,,ENST00000548065,;PRKAG1,intron_variant,,ENST00000395170,NM_002733.4;PRKAG1,intron_variant,,ENST00000316299,NM_001206709.1;PRKAG1,intron_variant,,ENST00000547306,;PRKAG1,intron_variant,,ENST00000552212,NM_001206710.1;PRKAG1,intron_variant,,ENST00000552463,;PRKAG1,intron_variant,,ENST00000551696,;PRKAG1,intron_variant,,ENST00000548950,;PRKAG1,intron_variant,,ENST00000551121,;PRKAG1,intron_variant,,ENST00000547082,;PRKAG1,intron_variant,,ENST00000548605,;PRKAG1,intron_variant,,ENST00000548857,;PRKAG1,intron_variant,,ENST00000547125,;RP11-386G11.5,intron_variant,,ENST00000547866,;RP11-386G11.5,intron_variant,,ENST00000552933,;RP11-386G11.5,intron_variant,,ENST00000552284,;RP11-386G11.5,intron_variant,,ENST00000547395,;PRKAG1,intron_variant,,ENST00000546531,;PRKAG1,intron_variant,,ENST00000550448,;PRKAG1,intron_variant,,ENST00000549726,;PRKAG1,intron_variant,,ENST00000550125,;PRKAG1,downstream_gene_variant,,ENST00000552657,;"	"A"	"ENSG00000181929"	"ENST00000316299"	"Transcript"	"intron_variant"	"-/1683"	"-/1023"	"-/340"	""	""	""	"1"	NA	-1	"PRKAG1"	"HGNC"	9385	"protein_coding"	"YES"	"CCDS55825.1"	"ENSP00000323867"	"P54619"	"F8W9D1,F8VYZ8,F8VPF5"	"UPI000007202F"	"NM_001206709.1"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75c9d6d6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"15929"	"SPATS2"	65244	"mskcc.org"	"GRCh37"	"12"	49830396	49830396	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-243-24157C>T"	""	""	"ENST00000553127"	""	18	"14"	4	11	"11"	0	"SPATS2,intron_variant,,ENST00000553127,;SPATS2,intron_variant,,ENST00000321898,;SPATS2,intron_variant,,ENST00000552918,NM_023071.3;SPATS2,intron_variant,,ENST00000547865,;SPATS2,intron_variant,,ENST00000551540,;SPATS2,intron_variant,,ENST00000550997,;SPATS2,intron_variant,,ENST00000549298,;SPATS2,intron_variant,,ENST00000549179,;SPATS2,intron_variant,,ENST00000549538,;SPATS2,intron_variant,,ENST00000548710,;SPATS2,intron_variant,,ENST00000548377,;SPATS2,intron_variant,,ENST00000548654,;SPATS2,intron_variant,,ENST00000550643,;SPATS2,intron_variant,,ENST00000548777,;SPATS2,intron_variant,,ENST00000552171,;SPATS2,intron_variant,,ENST00000549412,;SPATS2,intron_variant,,ENST00000549375,;SPATS2,intron_variant,,ENST00000548388,;"	"T"	"ENSG00000123352"	"ENST00000553127"	"Transcript"	"intron_variant"	"-/3318"	"-/1638"	"-/545"	""	""	""	"1"	NA	1	"SPATS2"	"HGNC"	18650	"protein_coding"	"YES"	"CCDS31794.1"	"ENSP00000448228"	"Q86XZ4"	"F8W128,F8VZS5,F8VXP9,F8VXB3,F8VX46,F8VRH4"	"UPI0000171C5F"	""	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75c9e734-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"15930"	"BIN2"	51411	"mskcc.org"	"GRCh37"	"12"	51701336	51701336	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.163-4411A>G"	""	""	"ENST00000267012"	""	47	"42"	5	46	"46"	0	"BIN2,intron_variant,,ENST00000267012,NM_016293.2;BIN2,intron_variant,,ENST00000452142,;BIN2,intron_variant,,ENST00000604560,;BIN2,intron_variant,,ENST00000544402,;BIN2,intron_variant,,ENST00000605039,;BIN2,intron_variant,,ENST00000605423,;"	"C"	"ENSG00000110934"	"ENST00000267012"	"Transcript"	"intron_variant"	"-/2221"	"-/1698"	"-/565"	""	""	""	"1"	NA	-1	"BIN2"	"HGNC"	1053	"protein_coding"	"YES"	"CCDS8811.1"	"ENSP00000267012"	"Q9UBW5"	""	"UPI000013D71F"	"NM_016293.2"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"75ca23de-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106382978723404	"WGS"	FALSE
"15931"	"RP11-1020M18.10"	0	"mskcc.org"	"GRCh37"	"12"	52806942	52806942	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.291+590G>A"	""	""	"ENST00000548135"	""	102	"81"	21	67	"67"	0	"RP11-1020M18.10,intron_variant,,ENST00000548135,;KRT124P,downstream_gene_variant,,ENST00000549264,;"	"A"	"ENSG00000257500"	"ENST00000548135"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/629"	""	""	""	""	""	"1"	NA	1	"RP11-1020M18.10"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"75ca4710-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205882352941176	"WGS"	FALSE
"15932"	"ATF7"	11016	"mskcc.org"	"GRCh37"	"12"	53974219	53974219	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs368007797"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.48+20518G>A"	""	""	"ENST00000420353"	""	39	"34"	5	39	"39"	0	"ATF7,intron_variant,,ENST00000420353,NM_006856.2;ATF7,intron_variant,,ENST00000415113,NM_001130060.1;ATF7,intron_variant,,ENST00000328463,;ATF7,intron_variant,,ENST00000456903,;ATF7,intron_variant,,ENST00000548446,;RP11-793H13.10,intron_variant,,ENST00000591834,;ATF7,intron_variant,,ENST00000591397,NM_001206682.1;ATF7,intron_variant,,ENST00000548118,NM_001206683.1;ATF7,intron_variant,,ENST00000588078,;ATF7,intron_variant,,ENST00000588232,;ATF7,intron_variant,,ENST00000551480,;"	"T"	"ENSG00000170653"	"ENST00000420353"	"Transcript"	"intron_variant"	"-/6680"	"-/1452"	"-/483"	""	""	"rs368007797"	"1"	NA	-1	"ATF7"	"HGNC"	792	"protein_coding"	"YES"	"CCDS44906.1"	"ENSP00000399465"	"P17544"	"K7EKZ7,F8VWG7"	"UPI0000161877"	"NM_006856.2"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"75ca6f6a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128205128205128	"WGS"	FALSE
"15933"	"RNU6-950P"	0	"mskcc.org"	"GRCh37"	"12"	54713304	54713304	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384651"	""	57	"51"	6	34	"34"	0	"COPZ1,intron_variant,,ENST00000552848,;RNU6-950P,upstream_gene_variant,,ENST00000384651,;RP11-968A15.8,intron_variant,,ENST00000553061,;COPZ1,intron_variant,,ENST00000548076,;"	"G"	"ENSG00000207381"	"ENST00000384651"	"Transcript"	"upstream_gene_variant"	"-/107"	""	""	""	""	""	"1"	"1633"	-1	"RNU6-950P"	"HGNC"	47913	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"75ca93aa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"15934"	"SLC39A5"	283375	"mskcc.org"	"GRCh37"	"12"	56626155	56626155	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.288-318G>A"	""	""	"ENST00000266980"	""	47	"42"	5	48	"48"	0	"SLC39A5,intron_variant,,ENST00000266980,NM_001135195.1;SLC39A5,intron_variant,,ENST00000454355,NM_173596.2;SLC39A5,intron_variant,,ENST00000436633,;SLC39A5,intron_variant,,ENST00000419753,;SLC39A5,intron_variant,,ENST00000437277,;SLC39A5,intron_variant,,ENST00000417965,;SLC39A5,intron_variant,,ENST00000424625,;NABP2,downstream_gene_variant,,ENST00000380198,;NABP2,downstream_gene_variant,,ENST00000267023,NM_024068.3;NABP2,downstream_gene_variant,,ENST00000341463,;NABP2,downstream_gene_variant,,ENST00000399713,;SLC39A5,upstream_gene_variant,,ENST00000419232,;SLC39A5,upstream_gene_variant,,ENST00000447080,;SLC39A5,intron_variant,,ENST00000481103,;SLC39A5,downstream_gene_variant,,ENST00000493574,;"	"A"	"ENSG00000139540"	"ENST00000266980"	"Transcript"	"intron_variant"	"-/2031"	"-/1623"	"-/540"	""	""	""	"1"	NA	1	"SLC39A5"	"HGNC"	20502	"protein_coding"	"YES"	"CCDS8912.2"	"ENSP00000266980"	"Q6ZMH5"	"C9JVC6,C9JPS6,C9JPS5,C9JIB2"	"UPI000035E86A"	"NM_001135195.1"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75cacc08-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106382978723404	"WGS"	FALSE
"15935"	"SLC39A5"	283375	"mskcc.org"	"GRCh37"	"12"	56626157	56626157	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.288-316T>C"	""	""	"ENST00000266980"	""	46	"42"	4	48	"48"	0	"SLC39A5,intron_variant,,ENST00000266980,NM_001135195.1;SLC39A5,intron_variant,,ENST00000454355,NM_173596.2;SLC39A5,intron_variant,,ENST00000436633,;SLC39A5,intron_variant,,ENST00000419753,;SLC39A5,intron_variant,,ENST00000437277,;SLC39A5,intron_variant,,ENST00000417965,;SLC39A5,intron_variant,,ENST00000424625,;NABP2,downstream_gene_variant,,ENST00000380198,;NABP2,downstream_gene_variant,,ENST00000267023,NM_024068.3;NABP2,downstream_gene_variant,,ENST00000341463,;NABP2,downstream_gene_variant,,ENST00000399713,;SLC39A5,upstream_gene_variant,,ENST00000419232,;SLC39A5,upstream_gene_variant,,ENST00000447080,;SLC39A5,intron_variant,,ENST00000481103,;SLC39A5,downstream_gene_variant,,ENST00000493574,;"	"C"	"ENSG00000139540"	"ENST00000266980"	"Transcript"	"intron_variant"	"-/2031"	"-/1623"	"-/540"	""	""	""	"1"	NA	1	"SLC39A5"	"HGNC"	20502	"protein_coding"	"YES"	"CCDS8912.2"	"ENSP00000266980"	"Q6ZMH5"	"C9JVC6,C9JPS6,C9JPS5,C9JIB2"	"UPI000035E86A"	"NM_001135195.1"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"75cacc62-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"15936"	"SLC39A5"	283375	"mskcc.org"	"GRCh37"	"12"	56626162	56626162	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.288-311C>A"	""	""	"ENST00000266980"	""	50	"46"	4	50	"50"	0	"SLC39A5,intron_variant,,ENST00000266980,NM_001135195.1;SLC39A5,intron_variant,,ENST00000454355,NM_173596.2;SLC39A5,intron_variant,,ENST00000436633,;SLC39A5,intron_variant,,ENST00000419753,;SLC39A5,intron_variant,,ENST00000437277,;SLC39A5,intron_variant,,ENST00000417965,;SLC39A5,intron_variant,,ENST00000424625,;NABP2,downstream_gene_variant,,ENST00000380198,;NABP2,downstream_gene_variant,,ENST00000267023,NM_024068.3;NABP2,downstream_gene_variant,,ENST00000341463,;NABP2,downstream_gene_variant,,ENST00000399713,;SLC39A5,upstream_gene_variant,,ENST00000419232,;SLC39A5,upstream_gene_variant,,ENST00000447080,;SLC39A5,intron_variant,,ENST00000481103,;SLC39A5,downstream_gene_variant,,ENST00000493574,;"	"A"	"ENSG00000139540"	"ENST00000266980"	"Transcript"	"intron_variant"	"-/2031"	"-/1623"	"-/540"	""	""	""	"1"	NA	1	"SLC39A5"	"HGNC"	20502	"protein_coding"	"YES"	"CCDS8912.2"	"ENSP00000266980"	"Q6ZMH5"	"C9JVC6,C9JPS6,C9JPS5,C9JIB2"	"UPI000035E86A"	"NM_001135195.1"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"75caccb2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"15937"	"STAT2"	6773	"mskcc.org"	"GRCh37"	"12"	56758034	56758034	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000314128"	""	56	"38"	18	38	"38"	0	"STAT2,upstream_gene_variant,,ENST00000314128,;STAT2,upstream_gene_variant,,ENST00000557235,NM_005419.3,NM_198332.1;APOF,upstream_gene_variant,,ENST00000398189,NM_001638.2;APOF,upstream_gene_variant,,ENST00000541105,;STAT2,upstream_gene_variant,,ENST00000418572,;STAT2,upstream_gene_variant,,ENST00000556140,;STAT2,upstream_gene_variant,,ENST00000557417,;STAT2,upstream_gene_variant,,ENST00000555646,;"	"T"	"ENSG00000170581"	"ENST00000314128"	"Transcript"	"upstream_gene_variant"	"-/3259"	"-/2556"	"-/851"	""	""	""	"1"	"4176"	-1	"STAT2"	"HGNC"	11363	"protein_coding"	"YES"	"CCDS8917.1"	"ENSP00000315768"	"P52630"	"R9QG81,R9QE65,Q6LD48"	"UPI00000473FC"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"75cad018-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.321428571428571	"WGS"	FALSE
"15938"	"AC108721.1"	0	"mskcc.org"	"GRCh37"	"12"	59924490	59924490	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000578302"	""	106	"96"	10	65	"65"	0	"AC108721.1,upstream_gene_variant,,ENST00000578302,;AC108721.2,upstream_gene_variant,,ENST00000580442,;"	"G"	"ENSG00000265430"	"ENST00000578302"	"Transcript"	"upstream_gene_variant"	"-/92"	""	""	""	""	""	"1"	"2441"	-1	"AC108721.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"75cb2a40-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0943396226415094	"WGS"	FALSE
"15939"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	60249349	60249349	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"108"	8	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"75cb3bde-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"15940"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	60829683	60829683	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	140	"133"	7	81	"81"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"75cb49bc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.05	"WGS"	FALSE
"15941"	"SRGAP1"	57522	"mskcc.org"	"GRCh37"	"12"	64440090	64440090	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.801+2735G>T"	""	""	"ENST00000355086"	""	90	"71"	19	52	"52"	0	"SRGAP1,intron_variant,,ENST00000355086,NM_020762.2;SRGAP1,intron_variant,,ENST00000357825,;SRGAP1,intron_variant,,ENST00000543397,;RP11-196H14.2,intron_variant,,ENST00000535594,;SRGAP1,intron_variant,,ENST00000537556,;SRGAP1,downstream_gene_variant,,ENST00000542381,;"	"T"	"ENSG00000196935"	"ENST00000355086"	"Transcript"	"intron_variant"	"-/8943"	"-/3258"	"-/1085"	""	""	""	"1"	NA	1	"SRGAP1"	"HGNC"	17382	"protein_coding"	"YES"	"CCDS8967.1"	"ENSP00000347198"	"Q7Z6B7"	""	"UPI00001A9CB9"	"NM_020762.2"	""	""	""	"6/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75cbab00-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211111111111111	"WGS"	FALSE
"15942"	"C12orf56"	115749	"mskcc.org"	"GRCh37"	"12"	64785527	64785527	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000333722"	""	75	"54"	21	53	"52"	1	"C12orf56,upstream_gene_variant,,ENST00000543942,NM_001170633.1;C12orf56,upstream_gene_variant,,ENST00000333722,NM_001099676.2;C12orf56,upstream_gene_variant,,ENST00000543259,;RPS11P6,intron_variant,,ENST00000535684,;RPS11P6,intron_variant,,ENST00000488306,;RPS11P6,intron_variant,,ENST00000482431,;RPS11P6,upstream_gene_variant,,ENST00000483430,;"	"A"	"ENSG00000185306"	"ENST00000333722"	"Transcript"	"upstream_gene_variant"	"-/1712"	"-/1389"	"-/462"	""	""	""	"1"	"1056"	-1	"C12orf56"	"HGNC"	26967	"protein_coding"	"YES"	"CCDS44935.1"	"ENSP00000329698"	"Q8IXR9"	""	"UPI00001D7985"	"NM_001099676.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"75cbb8fc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"15943"	"RP11-338E21.1"	0	"mskcc.org"	"GRCh37"	"12"	64998829	64998829	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.115+4296G>C"	""	""	"ENST00000546135"	""	62	"56"	6	45	"45"	0	"RP11-338E21.1,intron_variant,,ENST00000546135,;"	"G"	"ENSG00000256670"	"ENST00000546135"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/254"	""	""	""	""	""	"1"	NA	-1	"RP11-338E21.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"75cbc00e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"15944"	"RP11-766N7.3"	400046	"mskcc.org"	"GRCh37"	"12"	65353639	65353639	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.595-14712A>T"	""	""	"ENST00000535058"	""	89	"63"	26	50	"50"	0	"RP11-766N7.3,intron_variant,,ENST00000535058,;RP11-766N7.3,intron_variant,,ENST00000540024,;RP11-766N7.4,intron_variant,,ENST00000510459,;"	"T"	"ENSG00000255693"	"ENST00000535058"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3546"	""	""	""	""	""	"1"	NA	1	"RP11-766N7.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"75cbc658-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292134831460674	"WGS"	FALSE
"15945"	"TMBIM4"	51643	"mskcc.org"	"GRCh37"	"12"	66561219	66561219	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.97+2416C>T"	""	""	"ENST00000358230"	""	100	"70"	30	78	"78"	0	"TMBIM4,intron_variant,,ENST00000358230,NM_016056.2;TMBIM4,intron_variant,,ENST00000544599,;TMBIM4,intron_variant,,ENST00000286424,NM_001282606.1;TMBIM4,intron_variant,,ENST00000556010,;TMBIM4,intron_variant,,ENST00000542724,;TMBIM4,intron_variant,,ENST00000398033,;TMBIM4,intron_variant,,ENST00000542072,;TMBIM4,downstream_gene_variant,,ENST00000535812,;TMBIM4,intron_variant,,ENST00000545407,;TMBIM4,intron_variant,,ENST00000539652,;TMBIM4,intron_variant,,ENST00000534930,;TMBIM4,intron_variant,,ENST00000545504,;"	"A"	"ENSG00000155957"	"ENST00000358230"	"Transcript"	"intron_variant"	"-/2952"	"-/717"	"-/238"	""	""	""	"1"	NA	-1	"TMBIM4"	"HGNC"	24257	"protein_coding"	"YES"	"CCDS41805.1"	"ENSP00000350965"	"Q9HC24"	"G3V1R8"	"UPI00001FC6E2"	"NM_016056.2"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"75cbed18-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"15946"	"IRAK3"	11213	"mskcc.org"	"GRCh37"	"12"	66647224	66647224	"+"	"3'UTR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*5273C>T"	""	""	"ENST00000261233"	"12/12"	118	"95"	23	56	"56"	0	"IRAK3,3_prime_UTR_variant,,ENST00000261233,NM_007199.2;RP11-335I12.2,intron_variant,,ENST00000536412,;"	"T"	"ENSG00000090376"	"ENST00000261233"	"Transcript"	"3_prime_UTR_variant"	"7485/8663"	"-/1791"	"-/596"	""	""	""	"1"	NA	1	"IRAK3"	"HGNC"	17020	"protein_coding"	"YES"	"CCDS8975.1"	"ENSP00000261233"	"Q9Y616"	""	"UPI000013D14A"	"NM_007199.2"	""	""	"12/12"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"75cbefca-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194915254237288	"WGS"	FALSE
"15947"	"RP11-123O10.3"	0	"mskcc.org"	"GRCh37"	"12"	67493503	67493503	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000535917"	""	92	"76"	16	65	"65"	0	"RP11-123O10.3,upstream_gene_variant,,ENST00000535917,;RP11-123O10.3,upstream_gene_variant,,ENST00000538008,;RP11-123O10.3,upstream_gene_variant,,ENST00000502700,;"	"T"	"ENSG00000257083"	"ENST00000535917"	"Transcript"	"upstream_gene_variant"	"-/775"	""	""	""	""	""	"1"	"3317"	-1	"RP11-123O10.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"75cc0906-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"15948"	"PTPRR"	5801	"mskcc.org"	"GRCh37"	"12"	71075924	71075924	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1497+1983G>A"	""	""	"ENST00000283228"	""	53	"46"	7	44	"44"	0	"PTPRR,intron_variant,,ENST00000283228,NM_002849.3;PTPRR,intron_variant,,ENST00000440835,NM_130846.2;PTPRR,intron_variant,,ENST00000378778,NM_001207016.1;PTPRR,intron_variant,,ENST00000342084,NM_001207015.1;PTPRR,intron_variant,,ENST00000549308,;PTPRR,downstream_gene_variant,,ENST00000550661,;PTPRR,intron_variant,,ENST00000548220,;PTPRR,intron_variant,,ENST00000549107,;PTPRR,intron_variant,,ENST00000551219,;"	"T"	"ENSG00000153233"	"ENST00000283228"	"Transcript"	"intron_variant"	"-/3529"	"-/1974"	"-/657"	""	""	""	"1"	NA	-1	"PTPRR"	"HGNC"	9680	"protein_coding"	"YES"	"CCDS8998.1"	"ENSP00000283228"	"Q15256"	"Q68CP6,F8VVE9"	"UPI000013DD2F"	"NM_002849.3"	""	""	""	"10/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75cc7a6c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.132075471698113	"WGS"	FALSE
"15949"	"TRHDE"	29953	"mskcc.org"	"GRCh37"	"12"	72848484	72848484	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1181-15054G>C"	""	""	"ENST00000261180"	""	120	"113"	7	71	"71"	0	"TRHDE,intron_variant,,ENST00000261180,NM_013381.2;TRHDE,intron_variant,,ENST00000547300,;TRHDE,intron_variant,,ENST00000548156,;"	"C"	"ENSG00000072657"	"ENST00000261180"	"Transcript"	"intron_variant"	"-/5618"	"-/3075"	"-/1024"	""	""	""	"1"	NA	1	"TRHDE"	"HGNC"	30748	"protein_coding"	"YES"	"CCDS9004.1"	"ENSP00000261180"	"Q9UKU6"	""	"UPI0000136D52"	"NM_013381.2"	""	""	""	"3/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"75cca3e8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0583333333333333	"WGS"	FALSE
"15950"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	73144731	73144731	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"93"	7	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"75ccafaa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.07	"WGS"	FALSE
"15951"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	73669858	73669858	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"85"	9	91	"91"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"75ccbb1c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0957446808510638	"WGS"	FALSE
"15952"	"RP11-166B14.1"	0	"mskcc.org"	"GRCh37"	"12"	74043051	74043051	"+"	"3'Flank"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000474343"	""	133	"102"	31	82	"82"	0	"RP11-166B14.1,downstream_gene_variant,,ENST00000474343,;"	"C"	"ENSG00000243164"	"ENST00000474343"	"Transcript"	"downstream_gene_variant"	"-/374"	""	""	""	""	""	"1"	"232"	1	"RP11-166B14.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"75ccc6a2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233082706766917	"WGS"	FALSE
"15953"	"RP11-81H3.2"	100507377	"mskcc.org"	"GRCh37"	"12"	74592586	74592586	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000515416"	""	131	"124"	7	82	"82"	0	"RP11-81H3.2,intron_variant,,ENST00000549905,;RP11-81H3.2,downstream_gene_variant,,ENST00000515416,;"	"T"	"ENSG00000251138"	"ENST00000515416"	"Transcript"	"downstream_gene_variant"	"-/966"	""	""	""	""	""	"1"	"766"	-1	"RP11-81H3.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"75ccd7f0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0534351145038168	"WGS"	FALSE
"15954"	"KCNC2"	3747	"mskcc.org"	"GRCh37"	"12"	75476030	75476030	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.688-30933C>T"	""	""	"ENST00000549446"	""	130	"100"	30	80	"80"	0	"KCNC2,intron_variant,,ENST00000549446,NM_001260497.1,NM_139137.3;KCNC2,intron_variant,,ENST00000298972,NM_139136.3;KCNC2,intron_variant,,ENST00000341669,NM_001260498.1;KCNC2,intron_variant,,ENST00000350228,NM_001260499.1,NM_153748.2;KCNC2,intron_variant,,ENST00000548513,;KCNC2,intron_variant,,ENST00000550433,;KCNC2,intron_variant,,ENST00000393288,;KCNC2,intron_variant,,ENST00000540018,;KCNC2,intron_variant,,ENST00000546456,;"	"A"	"ENSG00000166006"	"ENST00000549446"	"Transcript"	"intron_variant"	"-/5625"	"-/1917"	"-/638"	""	""	""	"1"	NA	-1	"KCNC2"	"HGNC"	6234	"protein_coding"	"YES"	"CCDS9007.1"	"ENSP00000449253"	"Q96PR1"	""	"UPI000004DB9B"	"NM_001260497.1,NM_139137.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"75cd04c8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"15955"	"OSBPL8"	114882	"mskcc.org"	"GRCh37"	"12"	76918928	76918928	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"rs575220072"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-68+34249A>G"	""	""	"ENST00000261183"	""	92	"72"	20	70	"70"	0	"OSBPL8,intron_variant,,ENST00000261183,NM_020841.4;OSBPL8,intron_variant,,ENST00000393249,;OSBPL8,intron_variant,,ENST00000393250,NM_001003712.1;OSBPL8,intron_variant,,ENST00000547540,;OSBPL8,intron_variant,,ENST00000553139,;OSBPL8,intron_variant,,ENST00000549570,;OSBPL8,intron_variant,,ENST00000549646,;OSBPL8,intron_variant,,ENST00000550628,;OSBPL8,intron_variant,,ENST00000551927,;OSBPL8,intron_variant,,ENST00000547544,;OSBPL8,intron_variant,,ENST00000552178,;"	"C"	"ENSG00000091039"	"ENST00000261183"	"Transcript"	"intron_variant"	"-/7239"	"-/2670"	"-/889"	""	""	"rs575220072"	"1"	NA	-1	"OSBPL8"	"HGNC"	16396	"protein_coding"	"YES"	"CCDS31862.1"	"ENSP00000261183"	"Q9BZF1"	"Q96E43,Q6ZME5,F8VZB8,F8VVE7,F8VVD3,F8VQX7"	"UPI000006ECD1"	"NM_020841.4"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"75cd2930-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"15956"	"RP11-20E24.1"	0	"mskcc.org"	"GRCh37"	"12"	77004262	77004262	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.122-4821C>T"	""	""	"ENST00000551082"	""	92	"64"	28	53	"53"	0	"RP11-20E24.1,intron_variant,,ENST00000551082,;"	"T"	"ENSG00000257526"	"ENST00000551082"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/250"	""	""	""	""	""	"1"	NA	1	"RP11-20E24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"75cd2b2e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WGS"	FALSE
"15957"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	78213232	78213232	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"86"	18	60	"60"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75cd4c58-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173076923076923	"WGS"	FALSE
"15958"	"ENSR00000433420"	0	"mskcc.org"	"GRCh37"	"12"	78687161	78687161	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000433420"	""	101	"88"	13	56	"56"	0	""	"A"	""	"ENSR00000433420"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"75cd59a0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128712871287129	"WGS"	FALSE
"15959"	"RP11-754N21.1"	0	"mskcc.org"	"GRCh37"	"12"	78871814	78871814	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.668+545A>T"	""	""	"ENST00000548963"	""	109	"103"	6	60	"60"	0	"RP11-754N21.1,intron_variant,,ENST00000548963,;RP11-171L9.1,intron_variant,,ENST00000546865,;RP11-754N21.1,intron_variant,,ENST00000552230,;"	"T"	"ENSG00000258084"	"ENST00000548963"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/693"	""	""	""	""	""	"1"	NA	1	"RP11-754N21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"75cd6184-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.055045871559633	"WGS"	FALSE
"15960"	"PPFIA2"	8499	"mskcc.org"	"GRCh37"	"12"	81826616	81826616	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.645+7135G>A"	""	""	"ENST00000549396"	""	122	"102"	20	73	"73"	0	"PPFIA2,intron_variant,,ENST00000550584,NM_001220473.1;PPFIA2,intron_variant,,ENST00000549396,NM_003625.3,NM_001220476.1,NM_001282536.1;PPFIA2,intron_variant,,ENST00000549325,NM_001220474.1;PPFIA2,intron_variant,,ENST00000548586,;PPFIA2,intron_variant,,ENST00000552948,NM_001220475.1;PPFIA2,intron_variant,,ENST00000407050,NM_001220477.1;PPFIA2,intron_variant,,ENST00000550359,;PPFIA2,intron_variant,,ENST00000443686,NM_001220478.1;PPFIA2,intron_variant,,ENST00000333447,;PPFIA2,intron_variant,,ENST00000548790,;RP11-315E17.1,intron_variant,,ENST00000550272,;RP11-315E17.1,downstream_gene_variant,,ENST00000546936,;PPFIA2,intron_variant,,ENST00000545296,;PPFIA2,intron_variant,,ENST00000548453,;"	"T"	"ENSG00000139220"	"ENST00000549396"	"Transcript"	"intron_variant"	"-/5363"	"-/3774"	"-/1257"	""	""	""	"1"	NA	-1	"PPFIA2"	"HGNC"	9246	"protein_coding"	"YES"	"CCDS55857.1"	"ENSP00000450337"	"O75334"	"H0YHK3,F8W1Y8,F8VU88"	"UPI0000168655"	"NM_003625.3,NM_001220476.1,NM_001282536.1"	""	""	""	"7/32"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"75cdcaca-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163934426229508	"WGS"	FALSE
"15961"	"PPFIA2"	8499	"mskcc.org"	"GRCh37"	"12"	81890744	81890744	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.304-39099A>T"	""	""	"ENST00000549396"	""	100	"77"	23	61	"60"	1	"PPFIA2,intron_variant,,ENST00000550584,NM_001220473.1;PPFIA2,intron_variant,,ENST00000549396,NM_003625.3,NM_001220476.1,NM_001282536.1;PPFIA2,intron_variant,,ENST00000549325,NM_001220474.1;PPFIA2,intron_variant,,ENST00000548586,;PPFIA2,intron_variant,,ENST00000552948,NM_001220475.1;PPFIA2,intron_variant,,ENST00000407050,NM_001220477.1;PPFIA2,intron_variant,,ENST00000550359,;PPFIA2,intron_variant,,ENST00000443686,NM_001220478.1;PPFIA2,intron_variant,,ENST00000333447,;PPFIA2,intron_variant,,ENST00000551442,;PPFIA2,intron_variant,,ENST00000547623,;PPFIA2,intron_variant,,ENST00000545296,;PPFIA2,intron_variant,,ENST00000548453,;PPFIA2,intron_variant,,ENST00000552020,;"	"A"	"ENSG00000139220"	"ENST00000549396"	"Transcript"	"intron_variant"	"-/5363"	"-/3774"	"-/1257"	""	""	""	"1"	NA	-1	"PPFIA2"	"HGNC"	9246	"protein_coding"	"YES"	"CCDS55857.1"	"ENSP00000450337"	"O75334"	"H0YHK3,F8W1Y8,F8VU88"	"UPI0000168655"	"NM_003625.3,NM_001220476.1,NM_001282536.1"	""	""	""	"4/32"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75cdcc78-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23	"WGS"	FALSE
"15962"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	82337066	82337066	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"86"	20	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"75cdd66e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188679245283019	"WGS"	FALSE
"15963"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	83775711	83775711	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"85"	26	71	"71"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"75cdf8a6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234234234234234	"WGS"	FALSE
"15964"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	83799133	83799133	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"85"	16	76	"76"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"75cdf95a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.158415841584158	"WGS"	FALSE
"15965"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	83832714	83832714	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"78"	22	67	"67"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75cdf9b4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22	"WGS"	FALSE
"15966"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	84940081	84940081	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"93"	21	74	"74"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75ce193a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184210526315789	"WGS"	FALSE
"15967"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	85393979	85393979	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"101"	7	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75ce29f2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0648148148148148	"WGS"	FALSE
"15968"	"LRRIQ1"	84125	"mskcc.org"	"GRCh37"	"12"	85586911	85586911	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4822+32419T>A"	""	""	"ENST00000393217"	""	46	"40"	6	36	"36"	0	"LRRIQ1,intron_variant,,ENST00000393217,NM_001079910.1;LRRIQ1,intron_variant,,ENST00000526363,;LRRIQ1,intron_variant,,ENST00000528777,;"	"A"	"ENSG00000133640"	"ENST00000393217"	"Transcript"	"intron_variant"	"-/5394"	"-/5169"	"-/1722"	""	""	""	"1"	NA	1	"LRRIQ1"	"HGNC"	25708	"protein_coding"	"YES"	"CCDS41816.1"	"ENSP00000376910"	"Q96JM4"	"A8MY60"	"UPI0000ED4E82"	"NM_001079910.1"	""	""	""	"24/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75ce2c54-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"15969"	"ALX1"	8092	"mskcc.org"	"GRCh37"	"12"	85669264	85669264	"+"	"5'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000316824"	""	149	"108"	41	88	"88"	0	"ALX1,upstream_gene_variant,,ENST00000316824,NM_006982.2;"	"G"	"ENSG00000180318"	"ENST00000316824"	"Transcript"	"upstream_gene_variant"	"-/1445"	"-/981"	"-/326"	""	""	""	"1"	"4621"	1	"ALX1"	"HGNC"	1494	"protein_coding"	"YES"	"CCDS9028.1"	"ENSP00000315417"	"Q15699"	""	"UPI000013FEBD"	"NM_006982.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAG"	"75ce2f10-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275167785234899	"WGS"	FALSE
"15970"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	86110923	86110923	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"87"	26	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"75ce3a0a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230088495575221	"WGS"	FALSE
"15971"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	88671174	88671174	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"97"	30	74	"74"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75ce7c90-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236220472440945	"WGS"	FALSE
"15972"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	91233675	91233675	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"75"	31	69	"69"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"75ced19a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292452830188679	"WGS"	FALSE
"15973"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	91279141	91279141	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"101"	12	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"75ced410-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106194690265487	"WGS"	FALSE
"15974"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	92742986	92742986	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"79"	34	68	"68"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"75cefc38-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.300884955752212	"WGS"	FALSE
"15975"	"ENSR00001465912"	0	"mskcc.org"	"GRCh37"	"12"	92910287	92910287	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001465912"	""	95	"83"	12	59	"59"	0	""	"T"	""	"ENSR00001465912"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"75ceffb2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126315789473684	"WGS"	FALSE
"15976"	"ENSR00001465927"	0	"mskcc.org"	"GRCh37"	"12"	93009405	93009405	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001465927"	""	139	"112"	27	66	"66"	0	""	"T"	""	"ENSR00001465927"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"75cf03ae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194244604316547	"WGS"	FALSE
"15977"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	94040460	94040460	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs376521565"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"64"	27	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs376521565"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75cf283e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296703296703297	"WGS"	FALSE
"15978"	"PLXNC1"	10154	"mskcc.org"	"GRCh37"	"12"	94575880	94575880	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1338+524C>A"	""	""	"ENST00000258526"	""	99	"78"	21	61	"61"	0	"PLXNC1,intron_variant,,ENST00000258526,NM_005761.2;PLXNC1,intron_variant,,ENST00000551850,;RP11-74K11.2,intron_variant,,ENST00000550759,;PLXNC1,intron_variant,,ENST00000546733,;"	"A"	"ENSG00000136040"	"ENST00000258526"	"Transcript"	"intron_variant"	"-/7346"	"-/4707"	"-/1568"	""	""	""	"1"	NA	1	"PLXNC1"	"HGNC"	9106	"protein_coding"	"YES"	"CCDS9049.1"	"ENSP00000258526"	"O60486"	"F8VUW4,F5H3A2"	"UPI0000038AF4"	"NM_005761.2"	""	""	""	"3/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"75cf35e0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212121212121212	"WGS"	FALSE
"15979"	"CCDC41"	51134	"mskcc.org"	"GRCh37"	"12"	94776417	94776417	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.550-3599C>A"	""	""	"ENST00000397809"	""	98	"75"	23	64	"64"	0	"CCDC41,intron_variant,,ENST00000397809,NM_016122.2;CCDC41,intron_variant,,ENST00000339839,NM_001042399.1;CCDC41,intron_variant,,ENST00000547575,;CCDC41,intron_variant,,ENST00000397807,;CCDC41,intron_variant,,ENST00000549352,;CCDC41,intron_variant,,ENST00000551250,;CCDC41,intron_variant,,ENST00000547232,;"	"T"	"ENSG00000173588"	"ENST00000397809"	"Transcript"	"intron_variant"	"-/3773"	"-/2106"	"-/701"	""	""	""	"1"	NA	-1	"CCDC41"	"HGNC"	17966	"protein_coding"	"YES"	"CCDS41820.1"	"ENSP00000380911"	""	"J3KNW7,H0YHH5"	"UPI0000D4BD6F"	"NM_016122.2"	""	""	""	"6/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"75cf3b4e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23469387755102	"WGS"	FALSE
"15980"	"HAL"	3034	"mskcc.org"	"GRCh37"	"12"	96366318	96366318	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000261208"	""	103	"95"	8	70	"70"	0	"HAL,downstream_gene_variant,,ENST00000261208,NM_002108.3;HAL,downstream_gene_variant,,ENST00000541929,NM_001258333.1;HAL,downstream_gene_variant,,ENST00000538703,NM_001258334.1;AMDHD1,downstream_gene_variant,,ENST00000266736,NM_152435.2;HAL,downstream_gene_variant,,ENST00000548808,;HAL,downstream_gene_variant,,ENST00000544080,;HAL,downstream_gene_variant,,ENST00000546999,;AMDHD1,downstream_gene_variant,,ENST00000548310,;"	"A"	"ENSG00000084110"	"ENST00000261208"	"Transcript"	"downstream_gene_variant"	"-/3913"	"-/1974"	"-/657"	""	""	""	"1"	"122"	-1	"HAL"	"HGNC"	4806	"protein_coding"	"YES"	"CCDS9058.1"	"ENSP00000261208"	"P42357"	"Q2PH61,Q2PH60,Q2PH56"	"UPI000012CE8E"	"NM_002108.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"75cf7cf8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0776699029126214	"WGS"	FALSE
"15981"	"ENSR00000245628"	0	"mskcc.org"	"GRCh37"	"12"	96477379	96477379	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000245628"	""	67	"52"	15	47	"47"	0	""	"C"	""	"ENSR00000245628"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"75cf7ef6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223880597014925	"WGS"	FALSE
"15982"	"CDK17"	5128	"mskcc.org"	"GRCh37"	"12"	96784642	96784642	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-30+9122A>T"	""	""	"ENST00000261211"	""	68	"62"	6	43	"43"	0	"CDK17,intron_variant,,ENST00000261211,NM_002595.4,NM_001170464.2;CDK17,intron_variant,,ENST00000543119,;CDK17,intron_variant,,ENST00000542666,;CDK17,intron_variant,,ENST00000551816,;CDK17,intron_variant,,ENST00000552496,;CDK17,intron_variant,,ENST00000552262,;RP11-117N2.2,upstream_gene_variant,,ENST00000547580,;"	"A"	"ENSG00000059758"	"ENST00000261211"	"Transcript"	"intron_variant"	"-/4157"	"-/1572"	"-/523"	""	""	""	"1"	NA	-1	"CDK17"	"HGNC"	8750	"protein_coding"	"YES"	"CCDS9061.1"	"ENSP00000261211"	"Q00537"	"F8VZY6,F8VUX2,F8VQZ9"	"UPI000006F45A"	"NM_002595.4,NM_001170464.2"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"75cf8b8a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0882352941176471	"WGS"	FALSE
"15983"	"RP11-1016B18.1"	643711	"mskcc.org"	"GRCh37"	"12"	98159682	98159682	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000552615"	""	107	"85"	22	71	"71"	0	"RP11-1016B18.1,upstream_gene_variant,,ENST00000552615,;"	"T"	"ENSG00000257501"	"ENST00000552615"	"Transcript"	"upstream_gene_variant"	"-/579"	""	""	""	""	""	"1"	"4045"	-1	"RP11-1016B18.1"	"Clone_based_vega_gene"	NA	"retained_intron"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"75cfd590-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205607476635514	"WGS"	FALSE
"15984"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	98498379	98498379	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	125	"112"	13	67	"67"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75cfe2a6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104	"WGS"	FALSE
"15985"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	102948898	102948898	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"95"	6	75	"75"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"75d04d40-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0594059405940594	"WGS"	FALSE
"15986"	"CHST11"	50515	"mskcc.org"	"GRCh37"	"12"	105027985	105027985	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.204+32216G>T"	""	""	"ENST00000303694"	""	84	"65"	19	68	"68"	0	"CHST11,intron_variant,,ENST00000303694,NM_018413.5;CHST11,intron_variant,,ENST00000549260,NM_001173982.1;CHST11,intron_variant,,ENST00000549016,;"	"T"	"ENSG00000171310"	"ENST00000303694"	"Transcript"	"intron_variant"	"-/5709"	"-/1059"	"-/352"	""	""	""	"1"	NA	1	"CHST11"	"HGNC"	17422	"protein_coding"	"YES"	"CCDS9099.1"	"ENSP00000305725"	"Q9NPF2"	"F8VXK3"	"UPI000004A091"	"NM_018413.5"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"75d087ba-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226190476190476	"WGS"	FALSE
"15987"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	106281461	106281461	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"73"	16	82	"82"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75d0a2c2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179775280898876	"WGS"	FALSE
"15988"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	107543176	107543176	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"65"	29	79	"79"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"75d0beec-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308510638297872	"WGS"	FALSE
"15989"	"RP11-554D14.6"	0	"mskcc.org"	"GRCh37"	"12"	108255412	108255412	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.243-1134G>T"	""	""	"ENST00000547452"	""	83	"78"	5	44	"44"	0	"RP11-554D14.6,intron_variant,,ENST00000547452,;RP11-554D14.6,intron_variant,,ENST00000551629,;"	"A"	"ENSG00000257398"	"ENST00000547452"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/731"	""	""	""	""	""	"1"	NA	-1	"RP11-554D14.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"75d0d0da-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0602409638554217	"WGS"	FALSE
"15990"	"CMKLR1"	1240	"mskcc.org"	"GRCh37"	"12"	108684857	108684857	"+"	"3'UTR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*761G>T"	""	""	"ENST00000312143"	"3/3"	87	"70"	17	63	"63"	0	"CMKLR1,3_prime_UTR_variant,,ENST00000312143,NM_001142344.1,NM_004072.2;CMKLR1,3_prime_UTR_variant,,ENST00000397688,NM_004072.2;CMKLR1,3_prime_UTR_variant,,ENST00000412676,NM_001142345.1,NM_001142343.1,NM_004072.2;CMKLR1,downstream_gene_variant,,ENST00000550402,;CMKLR1,downstream_gene_variant,,ENST00000552995,;CMKLR1,downstream_gene_variant,,ENST00000550573,;CMKLR1,downstream_gene_variant,,ENST00000549466,;"	"A"	"ENSG00000174600"	"ENST00000312143"	"Transcript"	"3_prime_UTR_variant"	"2247/5283"	"-/1122"	"-/373"	""	""	""	"1"	NA	-1	"CMKLR1"	"HGNC"	2121	"protein_coding"	"YES"	"CCDS44965.1"	"ENSP00000311733"	"Q99788"	"F8VYN7,F8VSC8"	"UPI0000127BD4"	"NM_001142344.1,NM_004072.2"	""	""	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"75d0de4a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195402298850575	"WGS"	FALSE
"15991"	"ACACB"	32	"mskcc.org"	"GRCh37"	"12"	109638434	109638434	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2779-938A>G"	""	""	"ENST00000338432"	""	78	"58"	20	49	"49"	0	"ACACB,intron_variant,,ENST00000338432,;ACACB,intron_variant,,ENST00000377848,NM_001093.3;ACACB,intron_variant,,ENST00000377854,;"	"G"	"ENSG00000076555"	"ENST00000338432"	"Transcript"	"intron_variant"	"-/9360"	"-/7377"	"-/2458"	""	""	""	"1"	NA	1	"ACACB"	"HGNC"	85	"protein_coding"	"YES"	"CCDS31898.1"	"ENSP00000341044"	"O00763"	"F5H5C3,E9PEW7"	"UPI0000DBEEFB"	""	""	""	""	"18/52"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75d101b8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256410256410256	"WGS"	FALSE
"15992"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	109758408	109758408	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"49"	7	41	"41"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"75d10474-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"15993"	"RP3-473L9.4"	0	"mskcc.org"	"GRCh37"	"12"	111826894	111826894	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.142-14048T>C"	""	""	"ENST00000552663"	""	56	"46"	10	43	"43"	0	"RP3-473L9.4,intron_variant,,ENST00000552663,;HSPA8P14,downstream_gene_variant,,ENST00000552265,;"	"C"	"ENSG00000257595"	"ENST00000552663"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/314"	""	""	""	""	""	"1"	NA	1	"RP3-473L9.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75d14024-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"15994"	"PLBD2"	196463	"mskcc.org"	"GRCh37"	"12"	113804553	113804553	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.291-2368A>T"	""	""	"ENST00000280800"	""	46	"40"	6	37	"37"	0	"PLBD2,intron_variant,,ENST00000280800,NM_173542.3;PLBD2,intron_variant,,ENST00000545182,NM_001159727.1;PLBD2,intron_variant,,ENST00000548997,;"	"T"	"ENSG00000151176"	"ENST00000280800"	"Transcript"	"intron_variant"	"-/2573"	"-/1770"	"-/589"	""	""	""	"1"	NA	1	"PLBD2"	"HGNC"	27283	"protein_coding"	"YES"	"CCDS9168.1"	"ENSP00000280800"	"Q8NHP8"	""	"UPI000013DC40"	"NM_173542.3"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"75d17030-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"15995"	"RBM19"	9904	"mskcc.org"	"GRCh37"	"12"	114377398	114377398	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1938+367A>G"	""	""	"ENST00000545145"	""	64	"58"	6	40	"40"	0	"RBM19,intron_variant,,ENST00000545145,NM_001146699.1;RBM19,intron_variant,,ENST00000261741,NM_016196.3;RBM19,intron_variant,,ENST00000392561,NM_001146698.1;RP11-780K2.1,downstream_gene_variant,,ENST00000550206,;"	"C"	"ENSG00000122965"	"ENST00000545145"	"Transcript"	"intron_variant"	"-/4422"	"-/2883"	"-/960"	""	""	""	"1"	NA	-1	"RBM19"	"HGNC"	29098	"protein_coding"	"YES"	"CCDS9172.1"	"ENSP00000442053"	"Q9Y4C8"	""	"UPI000013D1EC"	"NM_001146699.1"	""	""	""	"15/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"75d18278-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"15996"	"VSIG10"	54621	"mskcc.org"	"GRCh37"	"12"	118556255	118556255	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.479-568A>G"	""	""	"ENST00000539956"	""	41	"37"	4	27	"27"	0	"VSIG10,intron_variant,,ENST00000539956,;VSIG10,intron_variant,,ENST00000542011,;VSIG10,intron_variant,,ENST00000321694,;"	"C"	"ENSG00000176834"	"ENST00000539956"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/694"	""	""	""	""	""	"1"	NA	-1	"VSIG10"	"HGNC"	26078	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75d2018a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WGS"	FALSE
"15997"	"VSIG10"	54621	"mskcc.org"	"GRCh37"	"12"	118556268	118556268	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.479-581A>G"	""	""	"ENST00000539956"	""	43	"37"	6	28	"28"	0	"VSIG10,intron_variant,,ENST00000539956,;VSIG10,intron_variant,,ENST00000542011,;VSIG10,intron_variant,,ENST00000321694,;"	"C"	"ENSG00000176834"	"ENST00000539956"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/694"	""	""	""	""	""	"1"	NA	-1	"VSIG10"	"HGNC"	26078	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75d201da-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"15998"	"VSIG10"	54621	"mskcc.org"	"GRCh37"	"12"	118556279	118556279	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.479-592A>G"	""	""	"ENST00000539956"	""	42	"36"	6	29	"29"	0	"VSIG10,intron_variant,,ENST00000539956,;VSIG10,intron_variant,,ENST00000542011,;VSIG10,intron_variant,,ENST00000321694,;"	"C"	"ENSG00000176834"	"ENST00000539956"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/694"	""	""	""	""	""	"1"	NA	-1	"VSIG10"	"HGNC"	26078	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75d20248-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"15999"	"HSPB8"	26353	"mskcc.org"	"GRCh37"	"12"	119643626	119643626	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.155-7856T>C"	""	""	"ENST00000541798"	""	67	"60"	7	38	"38"	0	"HSPB8,intron_variant,,ENST00000541798,;"	"C"	"ENSG00000152137"	"ENST00000541798"	"Transcript"	"intron_variant"	"-/637"	"-/459"	"-/152"	""	""	""	"1"	NA	1	"HSPB8"	"HGNC"	30171	"protein_coding"	""	""	"ENSP00000441541"	""	""	"UPI000204AB80"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTC"	"75d22606-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104477611940299	"WGS"	FALSE
"16000"	"MPHOSPH9"	10198	"mskcc.org"	"GRCh37"	"12"	123695588	123695588	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.632-879T>C"	""	""	"ENST00000392425"	""	28	"23"	5	37	"37"	0	"MPHOSPH9,intron_variant,,ENST00000606320,NM_022782.3;MPHOSPH9,intron_variant,,ENST00000541076,;MPHOSPH9,intron_variant,,ENST00000392425,;MPHOSPH9,intron_variant,,ENST00000302349,;MPHOSPH9,intron_variant,,ENST00000539336,;MPHOSPH9,intron_variant,,ENST00000545556,;MPHOSPH9,intron_variant,,ENST00000539024,;MPHOSPH9,intron_variant,,ENST00000302373,;"	"G"	"ENSG00000051825"	"ENST00000392425"	"Transcript"	"intron_variant"	"-/3609"	"-/3096"	"-/1031"	""	""	""	"1"	NA	-1	"MPHOSPH9"	"HGNC"	7215	"protein_coding"	"YES"	""	"ENSP00000376220"	"Q99550"	""	"UPI00001D62B9"	""	""	""	""	"3/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75d28998-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"16001"	"SETD8"	387893	"mskcc.org"	"GRCh37"	"12"	123879901	123879901	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.509+88T>A"	""	""	"ENST00000330479"	""	40	"34"	6	47	"47"	0	"SETD8,intron_variant,,ENST00000402868,;SETD8,intron_variant,,ENST00000330479,NM_020382.3;SETD8,intron_variant,,ENST00000437502,;SETD8,intron_variant,,ENST00000478781,;SETD8,intron_variant,,ENST00000485469,;SETD8,intron_variant,,ENST00000437519,;SETD8,intron_variant,,ENST00000461103,;SETD8,downstream_gene_variant,,ENST00000462311,;"	"A"	"ENSG00000183955"	"ENST00000330479"	"Transcript"	"intron_variant"	"-/3069"	"-/1059"	"-/352"	""	""	""	"1"	NA	1	"SETD8"	"HGNC"	29489	"protein_coding"	""	"CCDS9247.1"	"ENSP00000332995"	"Q9NQR1"	""	"UPI000002B371"	"NM_020382.3"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"75d28e16-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WGS"	FALSE
"16002"	"FAM101A"	144347	"mskcc.org"	"GRCh37"	"12"	124618039	124618039	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-233-16102C>G"	""	""	"ENST00000540762"	""	56	"51"	5	39	"39"	0	"FAM101A,intron_variant,,ENST00000540762,;FAM101A,intron_variant,,ENST00000545615,;"	"G"	"ENSG00000178882"	"ENST00000540762"	"Transcript"	"intron_variant"	"-/574"	"-/94"	"-/31"	""	""	""	"1"	NA	1	"FAM101A"	"HGNC"	27051	"protein_coding"	""	""	"ENSP00000476717"	""	""	"UPI0003B92896"	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"75d2a0a4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0892857142857143	"WGS"	FALSE
"16003"	"FAM101A"	144347	"mskcc.org"	"GRCh37"	"12"	124724165	124724165	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-36-72199G>A"	""	""	"ENST00000540762"	""	91	"76"	15	60	"60"	0	"FAM101A,intron_variant,,ENST00000540762,;FAM101A,downstream_gene_variant,,ENST00000545615,;"	"A"	"ENSG00000178882"	"ENST00000540762"	"Transcript"	"intron_variant"	"-/574"	"-/94"	"-/31"	""	""	""	"1"	NA	1	"FAM101A"	"HGNC"	27051	"protein_coding"	""	""	"ENSP00000476717"	""	""	"UPI0003B92896"	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75d2a45a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164835164835165	"WGS"	FALSE
"16004"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	127386779	127386779	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"80"	12	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"75d30846-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"16005"	"TMEM132C"	92293	"mskcc.org"	"GRCh37"	"12"	128979801	128979801	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.975-48701C>A"	""	""	"ENST00000435159"	""	87	"68"	19	67	"67"	0	"TMEM132C,intron_variant,,ENST00000435159,NM_001136103.2;"	"A"	"ENSG00000181234"	"ENST00000435159"	"Transcript"	"intron_variant"	"-/4947"	"-/3327"	"-/1108"	""	""	""	"1"	NA	1	"TMEM132C"	"HGNC"	25436	"protein_coding"	"YES"	""	"ENSP00000410852"	"Q8N3T6"	"F5H439,E9PC33"	"UPI0001C0B37C"	"NM_001136103.2"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"75d359e0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218390804597701	"WGS"	FALSE
"16006"	"ENSR00000439247"	0	"mskcc.org"	"GRCh37"	"12"	129325464	129325464	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs555647750"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000439247"	""	62	"54"	8	43	"43"	0	""	"T"	""	"ENSR00000439247"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs555647750"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75d38190-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"16007"	"TMEM132D"	121256	"mskcc.org"	"GRCh37"	"12"	129867947	129867947	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1116-45585T>A"	""	""	"ENST00000422113"	""	106	"74"	32	62	"62"	0	"TMEM132D,intron_variant,,ENST00000422113,NM_133448.2;"	"T"	"ENSG00000151952"	"ENST00000422113"	"Transcript"	"intron_variant"	"-/5776"	"-/3300"	"-/1099"	""	""	""	"1"	NA	-1	"TMEM132D"	"HGNC"	29411	"protein_coding"	"YES"	"CCDS9266.1"	"ENSP00000408581"	"Q14C87"	""	"UPI000023759C"	"NM_133448.2"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"75d398ce-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.30188679245283	"WGS"	FALSE
"16008"	"RP11-662M24.2"	0	"mskcc.org"	"GRCh37"	"12"	131152276	131152276	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs546117479"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.61-39275C>T"	""	""	"ENST00000544034"	""	84	"68"	16	49	"49"	0	"RIMBP2,intron_variant,,ENST00000536002,;RP11-662M24.1,intron_variant,,ENST00000591364,;RP11-662M24.1,intron_variant,,ENST00000585405,;RP11-662M24.2,intron_variant,,ENST00000544034,;"	"A"	"ENSG00000256725"	"ENST00000544034"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/201"	""	""	""	""	"rs546117479"	"1"	NA	-1	"RP11-662M24.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	"A:0.0012"	"A:0.0038"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"75d3f166-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"16009"	"GPR133"	283383	"mskcc.org"	"GRCh37"	"12"	131480975	131480975	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.967-3953C>T"	""	""	"ENST00000261654"	""	23	"18"	5	24	"23"	1	"GPR133,intron_variant,,ENST00000261654,NM_198827.3;GPR133,intron_variant,,ENST00000535015,;GPR133,intron_variant,,ENST00000545900,;GPR133,intron_variant,,ENST00000544673,;GPR133,downstream_gene_variant,,ENST00000542091,;GPR133,downstream_gene_variant,,ENST00000537600,;RP11-76C10.5,upstream_gene_variant,,ENST00000542980,;RP11-76C10.5,upstream_gene_variant,,ENST00000536673,;"	"T"	"ENSG00000111452"	"ENST00000261654"	"Transcript"	"intron_variant"	"-/5168"	"-/2625"	"-/874"	""	""	""	"1"	NA	1	"GPR133"	"HGNC"	19893	"protein_coding"	"YES"	"CCDS9272.1"	"ENSP00000261654"	"Q6QNK2"	"F5H4Y0,B2CKK9"	"UPI0000241C7A"	"NM_198827.3"	""	""	""	"8/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75d4012e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"16010"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	19490465	19490465	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"85"	25	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"75d5306c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"16011"	"PHF2P2"	0	"mskcc.org"	"GRCh37"	"13"	19539378	19539378	"+"	"RNA"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1021G>T"	""	""	"ENST00000444553"	"8/20"	90	"70"	20	60	"60"	0	"PHF2P2,non_coding_transcript_exon_variant,,ENST00000444553,;"	"A"	"ENSG00000226057"	"ENST00000444553"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1021/2865"	""	""	""	""	""	"1"	NA	-1	"PHF2P2"	"HGNC"	38808	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"8/20"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"75d5331e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"16012"	"LINC00421"	100287114	"mskcc.org"	"GRCh37"	"13"	19914229	19914229	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000413833"	""	114	"85"	29	57	"57"	0	"LINC00421,upstream_gene_variant,,ENST00000413833,;ANKRD26P3,intron_variant,,ENST00000454044,;"	"A"	"ENSG00000236834"	"ENST00000413833"	"Transcript"	"upstream_gene_variant"	"-/1054"	""	""	""	""	""	"1"	"4960"	1	"LINC00421"	"HGNC"	42755	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"75d53a6c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254385964912281	"WGS"	FALSE
"16013"	"LINC01046"	0	"mskcc.org"	"GRCh37"	"13"	21810991	21810991	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000443719"	""	93	"74"	19	63	"63"	0	"LINC01046,downstream_gene_variant,,ENST00000443719,;"	"A"	"ENSG00000233405"	"ENST00000443719"	"Transcript"	"downstream_gene_variant"	"-/405"	""	""	""	""	""	"1"	"1648"	1	"LINC01046"	"HGNC"	49040	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"75d579be-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204301075268817	"WGS"	FALSE
"16014"	"ATP8A2"	51761	"mskcc.org"	"GRCh37"	"13"	26391092	26391092	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2680-11164T>A"	""	""	"ENST00000381655"	""	112	"91"	21	62	"62"	0	"ATP8A2,intron_variant,,ENST00000381655,NM_016529.4;ATP8A2,intron_variant,,ENST00000255283,;ATP8A2,intron_variant,,ENST00000491840,;ATP8A2,intron_variant,,ENST00000281620,;"	"A"	"ENSG00000132932"	"ENST00000381655"	"Transcript"	"intron_variant"	"-/9575"	"-/3567"	"-/1188"	""	""	""	"1"	NA	1	"ATP8A2"	"HGNC"	13533	"protein_coding"	"YES"	"CCDS41873.1"	"ENSP00000371070"	"Q9NTI2"	""	"UPI0000229592"	"NM_016529.4"	""	""	""	"27/36"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTA"	"75d63836-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"16015"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	27036665	27036665	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"62"	25	49	"48"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"75d646a0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28735632183908	"WGS"	FALSE
"16016"	"MTUS2"	23281	"mskcc.org"	"GRCh37"	"13"	29638986	29638986	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2476+30724G>A"	""	""	"ENST00000431530"	""	97	"74"	23	62	"62"	0	"MTUS2,intron_variant,,ENST00000431530,NM_001033602.2;"	"A"	"ENSG00000132938"	"ENST00000431530"	"Transcript"	"intron_variant"	"-/4747"	"-/4140"	"-/1379"	""	""	""	"1"	NA	1	"MTUS2"	"HGNC"	20595	"protein_coding"	"YES"	"CCDS45022.1"	"ENSP00000392057"	""	"J3KQA9,B4DWQ4"	"UPI0000F734AC"	"NM_001033602.2"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75d6885e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.237113402061856	"WGS"	FALSE
"16017"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	31354769	31354769	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"70"	10	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"75d6b77a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"16018"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	31598776	31598776	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"82"	21	73	"73"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"75d6c936-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203883495145631	"WGS"	FALSE
"16019"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	32167581	32167581	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"72"	19	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"75d6db42-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208791208791209	"WGS"	FALSE
"16020"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	34286239	34286239	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs764874933"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"58"	24	75	"75"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs764874933"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75d71bac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292682926829268	"WGS"	FALSE
"16021"	"RFC3"	5983	"mskcc.org"	"GRCh37"	"13"	34394967	34394967	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.88-302T>C"	""	""	"ENST00000380071"	""	91	"72"	19	63	"63"	0	"RFC3,intron_variant,,ENST00000380071,NM_002915.3;RFC3,intron_variant,,ENST00000434425,NM_181558.2;"	"C"	"ENSG00000133119"	"ENST00000380071"	"Transcript"	"intron_variant"	"-/2402"	"-/1071"	"-/356"	""	""	""	"1"	NA	1	"RFC3"	"HGNC"	9971	"protein_coding"	"YES"	"CCDS9352.1"	"ENSP00000369411"	"P40938"	""	"UPI0000125168"	"NM_002915.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75d71eae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208791208791209	"WGS"	FALSE
"16022"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	35324605	35324605	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"77"	32	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75d7347a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293577981651376	"WGS"	FALSE
"16023"	"NBEA"	26960	"mskcc.org"	"GRCh37"	"13"	36145885	36145885	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7035+4731A>T"	""	""	"ENST00000400445"	""	128	"121"	7	74	"74"	0	"NBEA,intron_variant,,ENST00000400445,NM_015678.4;NBEA,intron_variant,,ENST00000540320,;NBEA,intron_variant,,ENST00000310336,;NBEA,intron_variant,,ENST00000379939,;NBEA,intron_variant,,ENST00000537702,NM_001204197.1;"	"T"	"ENSG00000172915"	"ENST00000400445"	"Transcript"	"intron_variant"	"-/11119"	"-/8841"	"-/2946"	""	""	""	"1"	NA	1	"NBEA"	"HGNC"	7648	"protein_coding"	"YES"	"CCDS45026.1"	"ENSP00000383295"	"Q8NFP9"	""	"UPI00004FF92F"	"NM_015678.4"	""	""	""	"45/57"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75d75310-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0546875	"WGS"	FALSE
"16024"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	38200623	38200623	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs185595752"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"91"	29	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs185595752"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75d78c54-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241666666666667	"WGS"	FALSE
"16025"	"LHFP"	10186	"mskcc.org"	"GRCh37"	"13"	40042178	40042178	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.386-89515C>G"	""	""	"ENST00000379589"	""	116	"97"	19	70	"70"	0	"LHFP,intron_variant,,ENST00000379589,NM_005780.2;"	"C"	"ENSG00000183722"	"ENST00000379589"	"Transcript"	"intron_variant"	"-/2110"	"-/603"	"-/200"	""	""	""	"1"	NA	-1	"LHFP"	"HGNC"	6586	"protein_coding"	"YES"	"CCDS9369.1"	"ENSP00000368908"	"Q9Y693"	""	"UPI000006D140"	"NM_005780.2"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75d7b918-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163793103448276	"WGS"	TRUE
"16026"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	40569540	40569540	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"86"	6	65	"65"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"75d7c6e2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"16027"	"DGKH"	160851	"mskcc.org"	"GRCh37"	"13"	42764424	42764424	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1913-115G>T"	""	""	"ENST00000337343"	""	96	"74"	22	51	"51"	0	"DGKH,intron_variant,,ENST00000261491,NM_152910.4;DGKH,intron_variant,,ENST00000379274,;DGKH,intron_variant,,ENST00000337343,NM_178009.3;DGKH,intron_variant,,ENST00000540693,NM_001204504.1;DGKH,intron_variant,,ENST00000536612,NM_001204506.1,NM_001204505.1;DGKH,intron_variant,,ENST00000538674,;DGKH,intron_variant,,ENST00000498255,;"	"T"	"ENSG00000102780"	"ENST00000337343"	"Transcript"	"intron_variant"	"-/4246"	"-/3663"	"-/1220"	""	""	""	"1"	NA	1	"DGKH"	"HGNC"	2854	"protein_coding"	"YES"	"CCDS9381.1"	"ENSP00000337572"	"Q86XP1"	""	"UPI000017DA47"	"NM_178009.3"	""	""	""	"15/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75d808dc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229166666666667	"WGS"	FALSE
"16028"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	43340058	43340058	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"74"	22	71	"71"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"75d81a5c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229166666666667	"WGS"	FALSE
"16029"	"LINC00428"	0	"mskcc.org"	"GRCh37"	"13"	43421750	43421750	"+"	"5'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000415620"	""	105	"73"	32	66	"66"	0	"LINC00428,upstream_gene_variant,,ENST00000415620,;"	"G"	"ENSG00000229546"	"ENST00000415620"	"Transcript"	"upstream_gene_variant"	"-/227"	""	""	""	""	""	"1"	"4727"	-1	"LINC00428"	"HGNC"	42763	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"75d81c5a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304761904761905	"WGS"	FALSE
"16030"	"TSC22D1"	8848	"mskcc.org"	"GRCh37"	"13"	45138628	45138628	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2912+8671G>A"	""	""	"ENST00000458659"	""	105	"84"	21	59	"59"	0	"TSC22D1,intron_variant,,ENST00000458659,NM_183422.3;TSC22D1,intron_variant,,ENST00000501704,NM_001243799.1;TSC22D1,intron_variant,,ENST00000460842,;TSC22D1,intron_variant,,ENST00000486464,;"	"T"	"ENSG00000102804"	"ENST00000458659"	"Transcript"	"intron_variant"	"-/4820"	"-/3222"	"-/1073"	""	""	""	"1"	NA	-1	"TSC22D1"	"HGNC"	16826	"protein_coding"	"YES"	"CCDS31966.1"	"ENSP00000397435"	"Q15714"	"C9IZ15"	"UPI0000D61A6B"	"NM_183422.3"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"75d857c4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16031"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	54971995	54971995	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	130	"118"	12	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"75d97352-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"16032"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	55532237	55532237	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"86"	29	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"75d98068-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252173913043478	"WGS"	FALSE
"16033"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	55723443	55723443	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"75"	19	74	"74"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75d985d6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202127659574468	"WGS"	FALSE
"16034"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	56024583	56024583	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"93"	24	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75d98b8a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205128205128205	"WGS"	FALSE
"16035"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	56468183	56468183	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"89"	29	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"75d9a1e2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245762711864407	"WGS"	FALSE
"16036"	"RNA5SP30"	0	"mskcc.org"	"GRCh37"	"13"	58567931	58567931	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000365552"	""	127	"118"	9	58	"58"	0	"RNA5SP30,downstream_gene_variant,,ENST00000365552,;"	"A"	"ENSG00000202422"	"ENST00000365552"	"Transcript"	"downstream_gene_variant"	"-/115"	""	""	""	""	""	"1"	"2333"	1	"RNA5SP30"	"HGNC"	42606	"rRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"75d9d4aa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0708661417322835	"WGS"	FALSE
"16037"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	59184117	59184117	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"99"	9	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"75d9eec2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"16038"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	61801396	61801396	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"88"	21	63	"63"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"75da68ac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192660550458716	"WGS"	FALSE
"16039"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	65425707	65425707	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"90"	5	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"75dad418-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0526315789473684	"WGS"	FALSE
"16040"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	65969199	65969199	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	122	"105"	17	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"75dae228-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.139344262295082	"WGS"	FALSE
"16041"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	69104932	69104932	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"101"	10	59	"59"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"75db2efe-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0900900900900901	"WGS"	FALSE
"16042"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	70081032	70081032	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"92"	21	65	"65"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"75db4aa6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185840707964602	"WGS"	FALSE
"16043"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	73191839	73191839	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"80"	8	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"75dbb73e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"16044"	"PIBF1"	10464	"mskcc.org"	"GRCh37"	"13"	73492946	73492946	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1730+1642A>G"	""	""	"ENST00000326291"	""	72	"66"	6	45	"45"	0	"PIBF1,intron_variant,,ENST00000326291,NM_006346.2;"	"G"	"ENSG00000083535"	"ENST00000326291"	"Transcript"	"intron_variant"	"-/3146"	"-/2274"	"-/757"	""	""	""	"1"	NA	1	"PIBF1"	"HGNC"	23352	"protein_coding"	"YES"	"CCDS31991.1"	"ENSP00000317144"	"Q8WXW3"	""	"UPI00001418B9"	"NM_006346.2"	""	""	""	"13/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75dbbe50-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"16045"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	74740700	74740700	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"63"	12	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"75dbdd9a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WGS"	FALSE
"16046"	"RIOK3P1"	0	"mskcc.org"	"GRCh37"	"13"	75404860	75404860	"+"	"3'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000418778"	""	102	"77"	25	91	"91"	0	"RIOK3P1,downstream_gene_variant,,ENST00000418778,;"	"G"	"ENSG00000225944"	"ENST00000418778"	"Transcript"	"downstream_gene_variant"	"-/1528"	""	""	""	""	""	"1"	"643"	1	"RIOK3P1"	"HGNC"	39714	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"75dbec22-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245098039215686	"WGS"	FALSE
"16047"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	76795555	76795555	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"103"	7	75	"75"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"75dc0c0c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0636363636363636	"WGS"	FALSE
"16048"	"SCEL"	8796	"mskcc.org"	"GRCh37"	"13"	78171224	78171224	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.753-456T>C"	""	""	"ENST00000349847"	""	105	"80"	25	50	"50"	0	"SCEL,intron_variant,,ENST00000535157,NM_001160706.1;SCEL,intron_variant,,ENST00000377246,NM_003843.3;SCEL,intron_variant,,ENST00000349847,NM_144777.2;SCEL-AS1,downstream_gene_variant,,ENST00000456280,;SCEL-AS1,downstream_gene_variant,,ENST00000457528,;SCEL,non_coding_transcript_exon_variant,,ENST00000469982,;SCEL,intron_variant,,ENST00000471491,;"	"C"	"ENSG00000136155"	"ENST00000349847"	"Transcript"	"intron_variant"	"-/2386"	"-/2067"	"-/688"	""	""	""	"1"	NA	1	"SCEL"	"HGNC"	10573	"protein_coding"	"YES"	"CCDS9459.1"	"ENSP00000302579"	"O95171"	""	"UPI000013CFF1"	"NM_144777.2"	""	""	""	"12/32"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"75dc306a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WGS"	FALSE
"16049"	"RNF219-AS1"	100874222	"mskcc.org"	"GRCh37"	"13"	79131405	79131405	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.316-21207G>A"	""	""	"ENST00000607862"	""	135	"102"	33	76	"76"	0	"RNF219-AS1,intron_variant,,ENST00000607862,;RNF219-AS1,intron_variant,,ENST00000606429,;RNF219-AS1,intron_variant,,ENST00000605996,;RNF219-AS1,intron_variant,,ENST00000444769,;RNF219-AS1,intron_variant,,ENST00000560209,;RNF219-AS1,intron_variant,,ENST00000607860,;RNF219-AS1,intron_variant,,ENST00000607205,;RNF219-AS1,intron_variant,,ENST00000606124,;RNF219-AS1,intron_variant,,ENST00000606376,;RNF219-AS1,intron_variant,,ENST00000606803,;RNF219-AS1,intron_variant,,ENST00000607220,;RNF219-AS1,intron_variant,,ENST00000430549,;"	"A"	"ENSG00000234377"	"ENST00000607862"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/6001"	""	""	""	""	""	"1"	NA	1	"RNF219-AS1"	"HGNC"	42700	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"75dc4a3c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244444444444444	"WGS"	FALSE
"16050"	"LINC01068"	0	"mskcc.org"	"GRCh37"	"13"	80143370	80143370	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.63-1328A>G"	""	""	"ENST00000450187"	""	102	"81"	21	50	"50"	0	"LINC01068,intron_variant,,ENST00000450187,;"	"G"	"ENSG00000227676"	"ENST00000450187"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/348"	""	""	""	""	""	"1"	NA	1	"LINC01068"	"HGNC"	49106	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"75dc674c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205882352941176	"WGS"	FALSE
"16051"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	80419214	80419214	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"80"	10	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"75dc6bf2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"16052"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	82191751	82191751	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	124	"100"	24	43	"43"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"75dca964-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193548387096774	"WGS"	FALSE
"16053"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	83503682	83503682	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"79"	21	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"75dcc930-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21	"WGS"	FALSE
"16054"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	84220809	84220809	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"93"	22	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"75dcda74-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191304347826087	"WGS"	FALSE
"16055"	"ENSR00000056254"	0	"mskcc.org"	"GRCh37"	"13"	85470199	85470199	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs569435153"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000056254"	""	83	"65"	18	55	"55"	0	""	"A"	""	"ENSR00000056254"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs569435153"	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"75dcf98c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216867469879518	"WGS"	FALSE
"16056"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	86307754	86307754	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	133	"118"	15	73	"73"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"75dd1656-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112781954887218	"WGS"	FALSE
"16057"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	87219790	87219790	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"103"	15	84	"84"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"75dd2fe2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127118644067797	"WGS"	FALSE
"16058"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	87278218	87278218	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"91"	12	68	"68"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"75dd303c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116504854368932	"WGS"	FALSE
"16059"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	88021267	88021267	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"70"	28	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"75dd48f6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"16060"	"RP11-545P6.2"	0	"mskcc.org"	"GRCh37"	"13"	88838501	88838501	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.235-26095C>A"	""	""	"ENST00000430214"	""	107	"84"	23	66	"66"	0	"RP11-545P6.2,intron_variant,,ENST00000430214,;AL354896.1,downstream_gene_variant,,ENST00000411127,;"	"A"	"ENSG00000231019"	"ENST00000430214"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/561"	""	""	""	""	""	"1"	NA	1	"RP11-545P6.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"75dd6e8a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214953271028037	"WGS"	FALSE
"16061"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	89817517	89817517	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"85"	19	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"75dd957c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182692307692308	"WGS"	FALSE
"16062"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	89820043	89820043	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"107"	5	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"75dd95cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0446428571428571	"WGS"	FALSE
"16063"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	90926000	90926000	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"82"	14	75	"75"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"75ddb4d0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145833333333333	"WGS"	FALSE
"16064"	"GPC5"	2262	"mskcc.org"	"GRCh37"	"13"	92623635	92623635	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs181822793"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1401+63324C>T"	""	""	"ENST00000377067"	""	82	"63"	19	60	"60"	0	"GPC5,intron_variant,,ENST00000377067,NM_004466.4;"	"T"	"ENSG00000179399"	"ENST00000377067"	"Transcript"	"intron_variant"	"-/2889"	"-/1719"	"-/572"	""	""	"rs181822793"	"1"	NA	1	"GPC5"	"HGNC"	4453	"protein_coding"	"YES"	"CCDS9468.1"	"ENSP00000366267"	"P78333"	""	"UPI0000001C85"	"NM_004466.4"	""	""	""	"6/7"	""	"T:0.0148"	"T:0.056"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"75dddaf0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231707317073171	"WGS"	FALSE
"16065"	"GPC5"	2262	"mskcc.org"	"GRCh37"	"13"	93144773	93144773	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1561+347531A>C"	""	""	"ENST00000377067"	""	125	"102"	23	63	"63"	0	"GPC5,intron_variant,,ENST00000377067,NM_004466.4;MIR548AS,downstream_gene_variant,,ENST00000579177,;GPC5-IT1,intron_variant,,ENST00000416664,;"	"C"	"ENSG00000179399"	"ENST00000377067"	"Transcript"	"intron_variant"	"-/2889"	"-/1719"	"-/572"	""	""	""	"1"	NA	1	"GPC5"	"HGNC"	4453	"protein_coding"	"YES"	"CCDS9468.1"	"ENSP00000366267"	"P78333"	""	"UPI0000001C85"	"NM_004466.4"	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"75ddeab8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184	"WGS"	FALSE
"16066"	"GPC6"	10082	"mskcc.org"	"GRCh37"	"13"	94615763	94615763	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.712-64220G>T"	""	""	"ENST00000377047"	""	134	"101"	33	86	"86"	0	"GPC6,intron_variant,,ENST00000377047,NM_005708.3;"	"T"	"ENSG00000183098"	"ENST00000377047"	"Transcript"	"intron_variant"	"-/6467"	"-/1668"	"-/555"	""	""	""	"1"	NA	1	"GPC6"	"HGNC"	4454	"protein_coding"	"YES"	"CCDS9469.1"	"ENSP00000366246"	"Q9Y625"	""	"UPI0000032F5B"	"NM_005708.3"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGA"	"75de16e6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246268656716418	"WGS"	FALSE
"16067"	"CLDN10-AS1"	100874194	"mskcc.org"	"GRCh37"	"13"	96158311	96158311	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.310-8932C>T"	""	""	"ENST00000416909"	""	83	"65"	18	48	"48"	0	"CLDN10,intron_variant,,ENST00000376873,NM_182848.3,NM_001160100.1;CLDN10-AS1,intron_variant,,ENST00000416909,;"	"A"	"ENSG00000223392"	"ENST00000416909"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/895"	""	""	""	""	""	"1"	NA	-1	"CLDN10-AS1"	"HGNC"	39907	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"75de413e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216867469879518	"WGS"	FALSE
"16068"	"HS6ST3"	266722	"mskcc.org"	"GRCh37"	"13"	97187798	97187798	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.708-296946C>T"	""	""	"ENST00000376705"	""	69	"55"	14	41	"41"	0	"HS6ST3,intron_variant,,ENST00000376705,NM_153456.3;"	"T"	"ENSG00000185352"	"ENST00000376705"	"Transcript"	"intron_variant"	"-/1659"	"-/1416"	"-/471"	""	""	""	"1"	NA	1	"HS6ST3"	"HGNC"	19134	"protein_coding"	"YES"	"CCDS9481.1"	"ENSP00000365895"	"Q8IZP7"	"B3KX95"	"UPI00001AF933"	"NM_153456.3"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"75de5d22-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202898550724638	"WGS"	FALSE
"16069"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	97784330	97784330	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"71"	19	43	"43"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"75de64fc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211111111111111	"WGS"	FALSE
"16070"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	97861866	97861866	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"84"	24	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"75de68da-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"16071"	"MBNL2"	10150	"mskcc.org"	"GRCh37"	"13"	97883539	97883539	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-605+8754C>T"	""	""	"ENST00000345429"	""	139	"102"	37	70	"70"	0	"MBNL2,intron_variant,,ENST00000345429,NM_144778.3;MBNL2,intron_variant,,ENST00000376673,;MBNL2,intron_variant,,ENST00000343600,NM_207304.2;MBNL2,intron_variant,,ENST00000397601,;MBNL2,intron_variant,,ENST00000469707,;"	"T"	"ENSG00000139793"	"ENST00000345429"	"Transcript"	"intron_variant"	"-/4669"	"-/1104"	"-/367"	""	""	""	"1"	NA	1	"MBNL2"	"HGNC"	16746	"protein_coding"	"YES"	"CCDS9484.1"	"ENSP00000267287"	"Q5VZF2"	"A0PJJ3"	"UPI000013F22B"	"NM_144778.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"75de6a38-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266187050359712	"WGS"	FALSE
"16072"	"FARP1"	10160	"mskcc.org"	"GRCh37"	"13"	99013878	99013878	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.277-3771T>A"	""	""	"ENST00000319562"	""	72	"57"	15	49	"49"	0	"FARP1,intron_variant,,ENST00000376586,;FARP1,intron_variant,,ENST00000595437,NM_001286839.1;FARP1,intron_variant,,ENST00000319562,NM_005766.2;FARP1,intron_variant,,ENST00000598389,;FARP1,intron_variant,,ENST00000599040,;FARP1,intron_variant,,ENST00000602263,;FARP1,intron_variant,,ENST00000596613,;FARP1,intron_variant,,ENST00000600032,;FARP1,intron_variant,,ENST00000595817,;FARP1,intron_variant,,ENST00000601853,;FARP1,intron_variant,,ENST00000595380,;FARP1,intron_variant,,ENST00000596467,;"	"A"	"ENSG00000152767"	"ENST00000319562"	"Transcript"	"intron_variant"	"-/4855"	"-/3138"	"-/1045"	""	""	""	"1"	NA	1	"FARP1"	"HGNC"	3591	"protein_coding"	"YES"	"CCDS9487.1"	"ENSP00000322926"	"Q9Y4F1"	"M0QYB0"	"UPI000007052C"	"NM_005766.2"	""	""	""	"3/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"75de8310-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WGS"	FALSE
"16073"	"DOCK9"	23348	"mskcc.org"	"GRCh37"	"13"	99478764	99478764	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4954+320C>A"	""	""	"ENST00000376460"	""	99	"73"	26	93	"93"	0	"DOCK9,intron_variant,,ENST00000376460,NM_015296.2,NM_001130048.1;DOCK9,intron_variant,,ENST00000339416,;DOCK9,intron_variant,,ENST00000448493,;DOCK9,intron_variant,,ENST00000400228,;DOCK9,intron_variant,,ENST00000340449,;DOCK9,intron_variant,,ENST00000419908,;DOCK9,intron_variant,,ENST00000451563,;DOCK9,downstream_gene_variant,,ENST00000449796,;DOCK9,intron_variant,,ENST00000481051,;"	"T"	"ENSG00000088387"	"ENST00000376460"	"Transcript"	"intron_variant"	"-/7549"	"-/6207"	"-/2068"	""	""	""	"1"	NA	-1	"DOCK9"	"HGNC"	14132	"protein_coding"	"YES"	"CCDS45062.1"	"ENSP00000365643"	"Q9BZ29"	""	"UPI000046FD7F"	"NM_015296.2,NM_001130048.1"	""	""	""	"44/56"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75deb15a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.262626262626263	"WGS"	FALSE
"16074"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	100051893	100051893	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"44"	19	49	"48"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"75debe2a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.301587301587302	"WGS"	FALSE
"16075"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	104188407	104188407	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"78"	25	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"75df2a40-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242718446601942	"WGS"	FALSE
"16076"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	104904072	104904072	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	134	"104"	30	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75df434a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223880597014925	"WGS"	FALSE
"16077"	"ENSR00001512230"	0	"mskcc.org"	"GRCh37"	"13"	110079972	110079972	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs192316074"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001512230"	""	110	"87"	23	62	"62"	0	""	"A"	""	"ENSR00001512230"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs192316074"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0012"	"A:0.003"	"A:0"	NA	"A:0.002"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"75dfdd82-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209090909090909	"WGS"	FALSE
"16078"	"ENSR00001643769"	0	"mskcc.org"	"GRCh37"	"13"	110651919	110651919	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001643769"	""	113	"85"	28	78	"78"	0	""	"A"	""	"ENSR00001643769"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"75dff006-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247787610619469	"WGS"	FALSE
"16079"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	110721574	110721574	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"61"	20	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75dff376-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246913580246914	"WGS"	FALSE
"16080"	"C13orf35"	400165	"mskcc.org"	"GRCh37"	"13"	113303546	113303546	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-204+1634T>A"	""	""	"ENST00000356049"	""	64	"54"	10	56	"56"	0	"C13orf35,intron_variant,,ENST00000356049,NM_207440.1;"	"A"	"ENSG00000197595"	"ENST00000356049"	"Transcript"	"intron_variant"	"-/2241"	"-/366"	"-/121"	""	""	""	"1"	NA	1	"C13orf35"	"HGNC"	33793	"protein_coding"	"YES"	"CCDS9526.1"	"ENSP00000348337"	"Q6ZP68"	""	"UPI00001C1118"	"NM_207440.1"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"75e1168e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WGS"	FALSE
"16081"	"ATP11A"	23250	"mskcc.org"	"GRCh37"	"13"	113356408	113356408	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.39+11639C>G"	""	""	"ENST00000487903"	""	90	"84"	6	64	"64"	0	"ATP11A,intron_variant,,ENST00000487903,;ATP11A,intron_variant,,ENST00000375645,NM_015205.2;ATP11A,intron_variant,,ENST00000375630,NM_032189.3;ATP11A,intron_variant,,ENST00000283558,;ATP11A,intron_variant,,ENST00000419448,;ATP11A,upstream_gene_variant,,ENST00000466946,;"	"G"	"ENSG00000068650"	"ENST00000487903"	"Transcript"	"intron_variant"	"-/8858"	"-/3405"	"-/1134"	""	""	""	"1"	NA	1	"ATP11A"	"HGNC"	13552	"protein_coding"	"YES"	"CCDS32011.1"	"ENSP00000420387"	"P98196"	""	"UPI00001FCB27"	""	""	""	""	"1/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"75e11e4a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"16082"	"MCF2L"	23263	"mskcc.org"	"GRCh37"	"13"	113734130	113734130	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1808+1077A>T"	""	""	"ENST00000535094"	""	26	"22"	4	16	"16"	0	"MCF2L,intron_variant,,ENST00000397030,;MCF2L,intron_variant,,ENST00000375601,;MCF2L,intron_variant,,ENST00000375604,;MCF2L,intron_variant,,ENST00000397017,;MCF2L,intron_variant,,ENST00000535094,NM_001112732.2;MCF2L,intron_variant,,ENST00000375608,;MCF2L,intron_variant,,ENST00000423482,NM_024979.4;MCF2L,intron_variant,,ENST00000434480,;MCF2L,intron_variant,,ENST00000421756,;MCF2L,intron_variant,,ENST00000442652,;MCF2L,intron_variant,,ENST00000375597,;MCF2L,downstream_gene_variant,,ENST00000475524,;MCF2L,upstream_gene_variant,,ENST00000487354,;"	"T"	"ENSG00000126217"	"ENST00000535094"	"Transcript"	"intron_variant"	"-/3752"	"-/3378"	"-/1125"	""	""	""	"1"	NA	1	"MCF2L"	"HGNC"	14576	"protein_coding"	"YES"	"CCDS45070.2"	"ENSP00000440374"	"O15068"	"B7ZBR9,B7Z9K4"	"UPI0001CE935F"	"NM_001112732.2"	""	""	""	"15/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"75e16d1e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"16083"	"RP11-754I20.1"	0	"mskcc.org"	"GRCh37"	"14"	19112250	19112250	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.175+1873A>T"	""	""	"ENST00000514609"	""	199	"171"	28	109	"109"	0	"RP11-754I20.1,intron_variant,,ENST00000553170,;RP11-754I20.1,intron_variant,,ENST00000514609,;"	"T"	"ENSG00000215398"	"ENST00000514609"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/734"	""	""	""	""	""	"1"	NA	1	"RP11-754I20.1"	"Clone_based_vega_gene"	NA	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"75e22c4a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.14070351758794	"WGS"	FALSE
"16084"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	19165608	19165608	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"92"	17	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"75e22d58-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155963302752294	"WGS"	FALSE
"16085"	"RAB2B"	84932	"mskcc.org"	"GRCh37"	"14"	21925585	21925585	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000397762"	""	43	"38"	5	24	"24"	0	"CHD8,upstream_gene_variant,,ENST00000557364,;RAB2B,downstream_gene_variant,,ENST00000397762,NM_032846.3,NM_001163380.1;RAB2B,downstream_gene_variant,,ENST00000461909,;CHD8,upstream_gene_variant,,ENST00000556833,;RAB2B,downstream_gene_variant,,ENST00000417141,;"	"C"	"ENSG00000129472"	"ENST00000397762"	"Transcript"	"downstream_gene_variant"	"-/2928"	"-/651"	"-/216"	""	""	""	"1"	"1594"	-1	"RAB2B"	"HGNC"	20246	"protein_coding"	"YES"	"CCDS9570.1"	"ENSP00000380869"	"Q8WUD1"	"Q9UL31,E9PE37,B4DUD4"	"UPI000013316C"	"NM_032846.3,NM_001163380.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75e58782-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116279069767442	"WGS"	FALSE
"16086"	"TOX4"	9878	"mskcc.org"	"GRCh37"	"14"	21960573	21960573	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.891+38A>G"	""	""	"ENST00000405508"	""	70	"65"	5	49	"49"	0	"TOX4,intron_variant,,ENST00000405508,;TOX4,intron_variant,,ENST00000262709,NM_014828.2;TOX4,intron_variant,,ENST00000448790,;TOX4,downstream_gene_variant,,ENST00000416256,;TOX4,downstream_gene_variant,,ENST00000457430,;TOX4,downstream_gene_variant,,ENST00000494242,;TOX4,intron_variant,,ENST00000476180,;TOX4,intron_variant,,ENST00000455393,;TOX4,intron_variant,,ENST00000473176,;TOX4,intron_variant,,ENST00000463119,;TOX4,downstream_gene_variant,,ENST00000447695,;TOX4,downstream_gene_variant,,ENST00000455138,;TOX4,downstream_gene_variant,,ENST00000487242,;"	"G"	"ENSG00000092203"	"ENST00000405508"	"Transcript"	"intron_variant"	"-/4697"	"-/1866"	"-/621"	""	""	""	"1"	NA	1	"TOX4"	"HGNC"	20161	"protein_coding"	"YES"	"CCDS32043.1"	"ENSP00000385102"	"O94842"	""	"UPI000006EA81"	""	""	""	""	"7/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"75e588d6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"16087"	"TRAV13-1"	0	"mskcc.org"	"GRCh37"	"14"	22339083	22339083	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000390436"	""	112	"85"	27	75	"75"	0	"TRAV13-1,downstream_gene_variant,,ENST00000390436,;"	"T"	"ENSG00000211788"	"ENST00000390436"	"Transcript"	"downstream_gene_variant"	"-/360"	"-/337"	"-/112"	""	""	""	"1"	"1537"	1	"TRAV13-1"	"HGNC"	12108	"TR_V_gene"	"YES"	""	"ENSP00000441696"	""	""	"UPI000011C70B"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"75e59308-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241071428571429	"WGS"	FALSE
"16088"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	25237641	25237641	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"85"	12	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"75e5dcdc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123711340206186	"WGS"	FALSE
"16089"	"RP11-314P15.2"	0	"mskcc.org"	"GRCh37"	"14"	26459876	26459876	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.258+135487A>T"	""	""	"ENST00000546412"	""	123	"84"	39	63	"63"	0	"RP11-314P15.2,intron_variant,,ENST00000546412,;"	"A"	"ENSG00000257986"	"ENST00000546412"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/529"	""	""	""	""	""	"1"	NA	-1	"RP11-314P15.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"75e5fe06-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317073170731707	"WGS"	FALSE
"16090"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	28686276	28686276	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"105"	10	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75e65018-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"16091"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	28751155	28751155	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"88"	17	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75e65180-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161904761904762	"WGS"	FALSE
"16092"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	30003865	30003865	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"79"	25	67	"67"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"75e67098-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240384615384615	"WGS"	FALSE
"16093"	"PRKD1"	5587	"mskcc.org"	"GRCh37"	"14"	30496650	30496650	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.33+20266C>A"	""	""	"ENST00000549503"	""	114	"95"	19	82	"82"	0	"PRKD1,intron_variant,,ENST00000549503,;CTD-2251F13.1,intron_variant,,ENST00000549360,;"	"T"	"ENSG00000184304"	"ENST00000549503"	"Transcript"	"intron_variant"	"-/582"	"-/352"	"-/117"	""	""	""	"1"	NA	-1	"PRKD1"	"HGNC"	9407	"protein_coding"	""	""	"ENSP00000446866"	""	"F8VZ98"	"UPI00020CDFDD"	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"75e67d7c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"16094"	"AKAP6"	9472	"mskcc.org"	"GRCh37"	"14"	33250147	33250147	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3588+7048G>T"	""	""	"ENST00000280979"	""	92	"71"	21	46	"46"	0	"AKAP6,intron_variant,,ENST00000280979,NM_004274.4;AKAP6,intron_variant,,ENST00000557272,;"	"T"	"ENSG00000151320"	"ENST00000280979"	"Transcript"	"intron_variant"	"-/8686"	"-/6960"	"-/2319"	""	""	""	"1"	NA	1	"AKAP6"	"HGNC"	376	"protein_coding"	"YES"	"CCDS9644.1"	"ENSP00000280979"	"Q13023"	"G3V569,G3V3H6,G3V3H2,G3V3B5,D3DS91"	"UPI000013DC48"	"NM_004274.4"	""	""	""	"12/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"75e6c71e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228260869565217	"WGS"	FALSE
"16095"	"NPAS3"	64067	"mskcc.org"	"GRCh37"	"14"	33972747	33972747	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.469-56580G>T"	""	""	"ENST00000356141"	""	125	"110"	15	71	"71"	0	"NPAS3,intron_variant,,ENST00000346562,NM_022123.2,NM_173159.2,NM_001164749.1,NM_001165893.1;NPAS3,intron_variant,,ENST00000548645,;NPAS3,intron_variant,,ENST00000551492,;NPAS3,intron_variant,,ENST00000356141,;NPAS3,intron_variant,,ENST00000357798,;NPAS3,intron_variant,,ENST00000551634,;NPAS3,intron_variant,,ENST00000547068,;NPAS3,intron_variant,,ENST00000551008,;NPAS3,intron_variant,,ENST00000341321,;NPAS3,intron_variant,,ENST00000546849,;NPAS3,intron_variant,,ENST00000549770,;"	"T"	"ENSG00000151322"	"ENST00000356141"	"Transcript"	"intron_variant"	"-/2802"	"-/2802"	"-/933"	""	""	""	"1"	NA	1	"NPAS3"	"HGNC"	19311	"protein_coding"	"YES"	"CCDS53891.1"	"ENSP00000348460"	"Q8IXF0"	""	"UPI00000743C2"	""	""	""	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75e6d948-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"16096"	"FAM177A1"	283635	"mskcc.org"	"GRCh37"	"14"	35532739	35532739	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.339+10082C>G"	""	""	"ENST00000280987"	""	57	"53"	4	42	"42"	0	"FAM177A1,intron_variant,,ENST00000396472,NM_001079519.1;FAM177A1,intron_variant,,ENST00000280987,NM_173607.3;FAM177A1,intron_variant,,ENST00000382406,;FAM177A1,intron_variant,,ENST00000554794,;FAM177A1,intron_variant,,ENST00000553955,;"	"G"	"ENSG00000151327"	"ENST00000280987"	"Transcript"	"intron_variant"	"-/2927"	"-/711"	"-/236"	""	""	""	"1"	NA	1	"FAM177A1"	"HGNC"	19829	"protein_coding"	"YES"	"CCDS9653.2"	"ENSP00000280987"	"Q8N128"	"G3V583,G3V3Z5"	"UPI00005A8F3C"	"NM_173607.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75e70c74-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0701754385964912	"WGS"	FALSE
"16097"	"KIAA0391"	9692	"mskcc.org"	"GRCh37"	"14"	35600379	35600379	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1167+3562C>G"	""	""	"ENST00000534898"	""	62	"57"	5	40	"40"	0	"KIAA0391,intron_variant,,ENST00000250377,NM_014672.3,NM_001256679.1;KIAA0391,intron_variant,,ENST00000534898,;KIAA0391,intron_variant,,ENST00000321130,NM_001256678.1;KIAA0391,intron_variant,,ENST00000603544,;KIAA0391,intron_variant,,ENST00000604948,;KIAA0391,intron_variant,,ENST00000605870,NM_001256680.1,NM_001256681.1;KIAA0391,intron_variant,,ENST00000557404,;KIAA0391,downstream_gene_variant,,ENST00000603588,;KIAA0391,intron_variant,,ENST00000557565,;"	"G"	"ENSG00000100890"	"ENST00000534898"	"Transcript"	"intron_variant"	"-/2611"	"-/1752"	"-/583"	""	""	""	"1"	NA	1	"KIAA0391"	"HGNC"	19958	"protein_coding"	"YES"	"CCDS32063.1"	"ENSP00000440915"	"O15091"	"S4R416,S4R3T4,S4R3S1"	"UPI000000CC23"	""	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"75e70e90-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WGS"	FALSE
"16098"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	40955456	40955456	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	122	"100"	22	80	"80"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"75e79086-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180327868852459	"WGS"	FALSE
"16099"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	41064244	41064244	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	160	"123"	37	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75e79392-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23125	"WGS"	FALSE
"16100"	"LRFN5"	145581	"mskcc.org"	"GRCh37"	"14"	42281318	42281318	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-21+45086C>G"	""	""	"ENST00000298119"	""	132	"119"	13	71	"71"	0	"LRFN5,intron_variant,,ENST00000554171,;LRFN5,intron_variant,,ENST00000298119,NM_152447.3;LRFN5,intron_variant,,ENST00000554120,;"	"G"	"ENSG00000165379"	"ENST00000298119"	"Transcript"	"intron_variant"	"-/3723"	"-/2160"	"-/719"	""	""	""	"1"	NA	1	"LRFN5"	"HGNC"	20360	"protein_coding"	"YES"	"CCDS9678.1"	"ENSP00000298119"	"Q96NI6"	""	"UPI000000DA1E"	"NM_152447.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"75e7b930-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0984848484848485	"WGS"	FALSE
"16101"	"CTD-2307P3.1"	0	"mskcc.org"	"GRCh37"	"14"	43005358	43005358	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.166+141063T>G"	""	""	"ENST00000557251"	""	138	"115"	23	73	"73"	0	"CTD-2307P3.1,intron_variant,,ENST00000557251,;"	"G"	"ENSG00000258394"	"ENST00000557251"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/515"	""	""	""	""	""	"1"	NA	1	"CTD-2307P3.1"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"75e7ce70-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"16102"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	44317963	44317963	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs531420088"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"81"	18	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs531420088"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"75e7ed42-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"16103"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	44443208	44443208	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"73"	17	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"75e7f0a8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188888888888889	"WGS"	FALSE
"16104"	"RP11-305B6.3"	0	"mskcc.org"	"GRCh37"	"14"	44566253	44566253	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.70-47543G>A"	""	""	"ENST00000553827"	""	130	"99"	31	67	"67"	0	"RP11-305B6.3,intron_variant,,ENST00000553827,;"	"T"	"ENSG00000258969"	"ENST00000553827"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/257"	""	""	""	""	""	"1"	NA	-1	"RP11-305B6.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"75e7f5b2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238461538461538	"WGS"	FALSE
"16105"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	46018378	46018378	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs561774170"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"61"	16	68	"68"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs561774170"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"G:0.0004"	"G:0.0015"	"G:0"	NA	"G:0"	"G:0"	"G:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75e814ac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207792207792208	"WGS"	FALSE
"16106"	"LINC00871"	100506412	"mskcc.org"	"GRCh37"	"14"	46872396	46872396	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.233-34988A>T"	""	""	"ENST00000556886"	""	143	"109"	34	82	"82"	0	"LINC00871,intron_variant,,ENST00000556886,;LINC00871,intron_variant,,ENST00000555246,;"	"T"	"ENSG00000258700"	"ENST00000556886"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/866"	""	""	""	""	""	"1"	NA	1	"LINC00871"	"HGNC"	47038	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"75e82488-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.237762237762238	"WGS"	FALSE
"16107"	"MDGA2"	161357	"mskcc.org"	"GRCh37"	"14"	47366022	47366022	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1345-14598T>A"	""	""	"ENST00000426342"	""	129	"104"	25	37	"37"	0	"MDGA2,intron_variant,,ENST00000426342,NM_182830.4;MDGA2,intron_variant,,ENST00000399232,NM_001113498.2;MDGA2,intron_variant,,ENST00000439988,;MDGA2,intron_variant,,ENST00000357362,;MDGA2,intron_variant,,ENST00000557238,;MDGA2,intron_variant,,ENST00000555521,;"	"T"	"ENSG00000139915"	"ENST00000426342"	"Transcript"	"intron_variant"	"-/5239"	"-/2184"	"-/727"	""	""	""	"1"	NA	-1	"MDGA2"	"HGNC"	19835	"protein_coding"	"YES"	"CCDS41948.1"	"ENSP00000405456"	"Q7Z553"	"F8WE89"	"UPI0000213DB6"	"NM_182830.4"	""	""	""	"10/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"75e831b2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193798449612403	"WGS"	FALSE
"16108"	"MDGA2"	161357	"mskcc.org"	"GRCh37"	"14"	47403202	47403202	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1196-13839G>T"	""	""	"ENST00000426342"	""	121	"88"	33	74	"74"	0	"MDGA2,intron_variant,,ENST00000426342,NM_182830.4;MDGA2,intron_variant,,ENST00000399232,NM_001113498.2;MDGA2,intron_variant,,ENST00000439988,;MDGA2,intron_variant,,ENST00000357362,;MDGA2,intron_variant,,ENST00000557238,;"	"A"	"ENSG00000139915"	"ENST00000426342"	"Transcript"	"intron_variant"	"-/5239"	"-/2184"	"-/727"	""	""	""	"1"	NA	-1	"MDGA2"	"HGNC"	19835	"protein_coding"	"YES"	"CCDS41948.1"	"ENSP00000405456"	"Q7Z553"	"F8WE89"	"UPI0000213DB6"	"NM_182830.4"	""	""	""	"9/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"75e8325c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"16109"	"MDGA2"	161357	"mskcc.org"	"GRCh37"	"14"	47560459	47560459	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.301+5598C>A"	""	""	"ENST00000426342"	""	119	"94"	25	70	"70"	0	"MDGA2,intron_variant,,ENST00000426342,NM_182830.4;MDGA2,intron_variant,,ENST00000399232,NM_001113498.2;MDGA2,intron_variant,,ENST00000439988,;MDGA2,intron_variant,,ENST00000357362,;MDGA2,intron_variant,,ENST00000554762,;MDGA2,intron_variant,,ENST00000557238,;MDGA2,intron_variant,,ENST00000482848,;"	"T"	"ENSG00000139915"	"ENST00000426342"	"Transcript"	"intron_variant"	"-/5239"	"-/2184"	"-/727"	""	""	""	"1"	NA	-1	"MDGA2"	"HGNC"	19835	"protein_coding"	"YES"	"CCDS41948.1"	"ENSP00000405456"	"Q7Z553"	"F8WE89"	"UPI0000213DB6"	"NM_182830.4"	""	""	""	"6/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75e8355e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210084033613445	"WGS"	FALSE
"16110"	"MDGA2"	161357	"mskcc.org"	"GRCh37"	"14"	47683999	47683999	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-300+3225C>T"	""	""	"ENST00000426342"	""	115	"107"	8	74	"74"	0	"MDGA2,intron_variant,,ENST00000426342,NM_182830.4;MDGA2,intron_variant,,ENST00000399232,NM_001113498.2;MDGA2,intron_variant,,ENST00000439988,;MDGA2,intron_variant,,ENST00000357362,;MDGA2,downstream_gene_variant,,ENST00000486952,;MDGA2,intron_variant,,ENST00000557238,;MDGA2,intron_variant,,ENST00000482848,;"	"A"	"ENSG00000139915"	"ENST00000426342"	"Transcript"	"intron_variant"	"-/5239"	"-/2184"	"-/727"	""	""	""	"1"	NA	-1	"MDGA2"	"HGNC"	19835	"protein_coding"	"YES"	"CCDS41948.1"	"ENSP00000405456"	"Q7Z553"	"F8WE89"	"UPI0000213DB6"	"NM_182830.4"	""	""	""	"3/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75e8398c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0695652173913043	"WGS"	FALSE
"16111"	"MDGA2"	161357	"mskcc.org"	"GRCh37"	"14"	47805363	47805363	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-610+6938C>A"	""	""	"ENST00000426342"	""	96	"77"	19	54	"54"	0	"MDGA2,intron_variant,,ENST00000426342,NM_182830.4;MDGA2,intron_variant,,ENST00000399232,NM_001113498.2;MDGA2,intron_variant,,ENST00000439988,;MDGA2,intron_variant,,ENST00000357362,;MDGA2,intron_variant,,ENST00000486952,;MDGA2,intron_variant,,ENST00000472499,;MDGA2,intron_variant,,ENST00000557238,;MDGA2,intron_variant,,ENST00000482848,;"	"T"	"ENSG00000139915"	"ENST00000426342"	"Transcript"	"intron_variant"	"-/5239"	"-/2184"	"-/727"	""	""	""	"1"	NA	-1	"MDGA2"	"HGNC"	19835	"protein_coding"	"YES"	"CCDS41948.1"	"ENSP00000405456"	"Q7Z553"	"F8WE89"	"UPI0000213DB6"	"NM_182830.4"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"75e83e3c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197916666666667	"WGS"	FALSE
"16112"	"MDGA2"	161357	"mskcc.org"	"GRCh37"	"14"	47805365	47805365	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-610+6936G>T"	""	""	"ENST00000426342"	""	98	"79"	19	54	"54"	0	"MDGA2,intron_variant,,ENST00000426342,NM_182830.4;MDGA2,intron_variant,,ENST00000399232,NM_001113498.2;MDGA2,intron_variant,,ENST00000439988,;MDGA2,intron_variant,,ENST00000357362,;MDGA2,intron_variant,,ENST00000486952,;MDGA2,intron_variant,,ENST00000472499,;MDGA2,intron_variant,,ENST00000557238,;MDGA2,intron_variant,,ENST00000482848,;"	"A"	"ENSG00000139915"	"ENST00000426342"	"Transcript"	"intron_variant"	"-/5239"	"-/2184"	"-/727"	""	""	""	"1"	NA	-1	"MDGA2"	"HGNC"	19835	"protein_coding"	"YES"	"CCDS41948.1"	"ENSP00000405456"	"Q7Z553"	"F8WE89"	"UPI0000213DB6"	"NM_182830.4"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"75e83e96-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193877551020408	"WGS"	FALSE
"16113"	"MDGA2"	161357	"mskcc.org"	"GRCh37"	"14"	47890436	47890436	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.281-119683C>T"	""	""	"ENST00000439988"	""	108	"96"	12	72	"72"	0	"MDGA2,intron_variant,,ENST00000399232,NM_001113498.2;MDGA2,intron_variant,,ENST00000439988,;MDGA2,intron_variant,,ENST00000557238,;"	"A"	"ENSG00000272781"	"ENST00000439988"	"Transcript"	"intron_variant"	"-/3078"	"-/3078"	"-/1025"	""	""	""	"1"	NA	-1	"MDGA2"	"Uniprot_gn"	19835	"protein_coding"	"YES"	""	"ENSP00000400011"	"Q7Z553"	"F8WE89"	"UPI0001DD21C1"	""	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"75e84008-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"16114"	"RP11-589M4.3"	0	"mskcc.org"	"GRCh37"	"14"	53270997	53270997	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.111-11319T>A"	""	""	"ENST00000554548"	""	69	"63"	6	38	"38"	0	"RP11-589M4.3,intron_variant,,ENST00000554548,;"	"T"	"ENSG00000258698"	"ENST00000554548"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/196"	""	""	""	""	""	"1"	NA	-1	"RP11-589M4.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"75e8c7bc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"16115"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	54223902	54223902	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"80"	27	71	"71"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75e8de78-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252336448598131	"WGS"	FALSE
"16116"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	54398911	54398911	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"85"	20	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"75e8e328-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"16117"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	56938787	56938787	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"65"	13	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75e929b4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"16118"	"OTX2"	5015	"mskcc.org"	"GRCh37"	"14"	57279273	57279273	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000339475"	""	89	"71"	18	61	"61"	0	"OTX2,upstream_gene_variant,,ENST00000339475,NM_001270524.1,NM_021728.3,NM_001270523.1,NM_001270525.1;OTX2,upstream_gene_variant,,ENST00000555006,;OTX2,upstream_gene_variant,,ENST00000555804,;OTX2,upstream_gene_variant,,ENST00000554559,;OTX2-AS1,upstream_gene_variant,,ENST00000534909,;OTX2-AS1,upstream_gene_variant,,ENST00000554725,;OTX2-AS1,upstream_gene_variant,,ENST00000554358,;OTX2-AS1,upstream_gene_variant,,ENST00000554428,;"	"C"	"ENSG00000165588"	"ENST00000339475"	"Transcript"	"upstream_gene_variant"	"-/2199"	"-/894"	"-/297"	""	""	""	"1"	"2086"	-1	"OTX2"	"HGNC"	8522	"protein_coding"	"YES"	"CCDS9728.1"	"ENSP00000343819"	"P32243"	"G3V3P9,F1T0D1"	"UPI000000161B"	"NM_001270524.1,NM_021728.3,NM_001270523.1,NM_001270525.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"75e936d4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202247191011236	"WGS"	FALSE
"16119"	"AL159140.1"	0	"mskcc.org"	"GRCh37"	"14"	59863002	59863002	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"rs199822089"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000517060"	""	14	"11"	3	13	"13"	0	"AL159140.1,upstream_gene_variant,,ENST00000517060,;"	"A"	"ENSG00000252869"	"ENST00000517060"	"Transcript"	"upstream_gene_variant"	"-/129"	""	""	""	""	"rs199822089"	"1"	"3739"	1	"AL159140.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75e98094-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"16120"	"CTD-2277K2.1"	0	"mskcc.org"	"GRCh37"	"14"	62435908	62435908	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.483-942C>T"	""	""	"ENST00000554436"	""	134	"117"	17	83	"83"	0	"CTD-2277K2.1,intron_variant,,ENST00000554436,;CTD-2277K2.1,intron_variant,,ENST00000554138,;"	"T"	"ENSG00000258882"	"ENST00000554436"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/664"	""	""	""	""	""	"1"	NA	1	"CTD-2277K2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"75e9bc9e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126865671641791	"WGS"	FALSE
"16121"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	63043436	63043436	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	128	"102"	26	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"75e9ccde-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203125	"WGS"	FALSE
"16122"	"MTHFD1"	4522	"mskcc.org"	"GRCh37"	"14"	64863737	64863737	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.42-3774G>C"	""	""	"ENST00000216605"	""	32	"28"	4	15	"15"	0	"MTHFD1,intron_variant,,ENST00000545908,;MTHFD1,intron_variant,,ENST00000216605,NM_005956.3;MTHFD1,intron_variant,,ENST00000555709,;MTHFD1,intron_variant,,ENST00000554739,;MTHFD1,intron_variant,,ENST00000554768,;MTHFD1,intron_variant,,ENST00000557539,;MTHFD1,intron_variant,,ENST00000555252,;"	"C"	"ENSG00000100714"	"ENST00000216605"	"Transcript"	"intron_variant"	"-/3135"	"-/2808"	"-/935"	""	""	""	"1"	NA	1	"MTHFD1"	"HGNC"	7432	"protein_coding"	"YES"	"CCDS9763.1"	"ENSP00000216605"	"P11586"	""	"UPI000013C6FA"	"NM_005956.3"	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"75e9f2f4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"16123"	"FUT8"	2530	"mskcc.org"	"GRCh37"	"14"	65908779	65908779	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-325-13560G>A"	""	""	"ENST00000360689"	""	74	"52"	22	60	"60"	0	"FUT8,intron_variant,,ENST00000360689,NM_178155.2,NM_004480.4;FUT8,intron_variant,,ENST00000394586,NM_178156.2;FUT8,intron_variant,,ENST00000394585,;FUT8,intron_variant,,ENST00000358307,;FUT8,intron_variant,,ENST00000557164,;FUT8,intron_variant,,ENST00000557338,;FUT8,intron_variant,,ENST00000553924,;FUT8,intron_variant,,ENST00000556518,;FUT8,intron_variant,,ENST00000555559,;FUT8,intron_variant,,ENST00000554610,;FUT8,intron_variant,,ENST00000556292,;FUT8,intron_variant,,ENST00000549235,;FUT8,intron_variant,,ENST00000342677,;"	"A"	"ENSG00000033170"	"ENST00000360689"	"Transcript"	"intron_variant"	"-/5166"	"-/1728"	"-/575"	""	""	""	"1"	NA	1	"FUT8"	"HGNC"	4019	"protein_coding"	"YES"	"CCDS9775.1"	"ENSP00000353910"	"Q9BYC5"	"Q546E0,G3V5Z4,G3V5E3,G3V530,G3V509,G3V4A8"	"UPI000000DCC9"	"NM_178155.2,NM_004480.4"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"75ea0db6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297297297297297	"WGS"	FALSE
"16124"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	66328548	66328548	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"63"	5	37	"37"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"75ea18b0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0735294117647059	"WGS"	FALSE
"16125"	"RGS6"	9628	"mskcc.org"	"GRCh37"	"14"	72656940	72656940	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.85-161863T>A"	""	""	"ENST00000553525"	""	93	"86"	7	63	"63"	0	"RGS6,intron_variant,,ENST00000553530,NM_004296.5,NM_001204422.1,NM_001204421.1,NM_001204418.1,NM_001204417.1,NM_001204420.1;RGS6,intron_variant,,ENST00000553525,NM_001204424.1;RGS6,intron_variant,,ENST00000555571,;RGS6,intron_variant,,ENST00000556437,NM_001204416.1;RGS6,intron_variant,,ENST00000355512,;RGS6,intron_variant,,ENST00000404301,;RGS6,intron_variant,,ENST00000407322,;RGS6,intron_variant,,ENST00000406236,;RGS6,intron_variant,,ENST00000402788,NM_001204423.1;RGS6,intron_variant,,ENST00000343854,NM_001204419.1;RGS6,intron_variant,,ENST00000554474,;"	"A"	"ENSG00000182732"	"ENST00000553525"	"Transcript"	"intron_variant"	"-/2005"	"-/1473"	"-/490"	""	""	""	"1"	NA	1	"RGS6"	"HGNC"	10002	"protein_coding"	"YES"	"CCDS55924.1"	"ENSP00000451030"	"P49758"	"Q59FJ8"	"UPI00001698D0"	"NM_001204424.1"	""	""	""	"2/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"75eaa94c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"16126"	"PAPLN"	89932	"mskcc.org"	"GRCh37"	"14"	73737161	73737161	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3586+1730C>A"	""	""	"ENST00000340738"	""	63	"49"	14	47	"47"	0	"PAPLN,intron_variant,,ENST00000427855,;PAPLN,intron_variant,,ENST00000340738,NM_173462.3;PAPLN,intron_variant,,ENST00000381166,;PAPLN,intron_variant,,ENST00000555445,;PAPLN,intron_variant,,ENST00000554301,;PAPLN,intron_variant,,ENST00000559759,;NUMB,downstream_gene_variant,,ENST00000556772,;NUMB,downstream_gene_variant,,ENST00000554546,NM_001005745.1;NUMB,downstream_gene_variant,,ENST00000355058,;NUMB,downstream_gene_variant,,ENST00000555238,NM_001005743.1;NUMB,downstream_gene_variant,,ENST00000359560,;NUMB,downstream_gene_variant,,ENST00000557597,NM_003744.5;NUMB,downstream_gene_variant,,ENST00000356296,;RP4-647C14.3,downstream_gene_variant,,ENST00000556578,;PAPLN,intron_variant,,ENST00000555700,;PAPLN,intron_variant,,ENST00000216658,;PAPLN,intron_variant,,ENST00000555123,;PAPLN,intron_variant,,ENST00000557061,;PAPLN,intron_variant,,ENST00000554527,;"	"A"	"ENSG00000100767"	"ENST00000340738"	"Transcript"	"intron_variant"	"-/5834"	"-/3756"	"-/1251"	""	""	""	"1"	NA	1	"PAPLN"	"HGNC"	19262	"protein_coding"	"YES"	"CCDS32114.1"	"ENSP00000345395"	"O95428"	"B3KXI1"	"UPI0000D6242C"	"NM_173462.3"	""	""	""	"25/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75eac918-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"16127"	"ENTPD5"	957	"mskcc.org"	"GRCh37"	"14"	74446300	74446300	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.442-2223C>G"	""	""	"ENST00000334696"	""	59	"55"	4	45	"45"	0	"ENTPD5,intron_variant,,ENST00000334696,NM_001249.2;ENTPD5,intron_variant,,ENST00000557325,;ENTPD5,intron_variant,,ENST00000553284,;"	"C"	"ENSG00000187097"	"ENST00000334696"	"Transcript"	"intron_variant"	"-/5842"	"-/1287"	"-/428"	""	""	""	"1"	NA	-1	"ENTPD5"	"HGNC"	3367	"protein_coding"	"YES"	"CCDS9825.1"	"ENSP00000335246"	"O75356"	"G3V450"	"UPI0000052B69"	"NM_001249.2"	""	""	""	"6/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"75eadde0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0677966101694915	"WGS"	FALSE
"16128"	"ALDH6A1"	4329	"mskcc.org"	"GRCh37"	"14"	74535378	74535378	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.852+185T>C"	""	""	"ENST00000553458"	""	65	"60"	5	38	"38"	0	"ALDH6A1,intron_variant,,ENST00000553458,NM_001278593.1,NM_005589.3,NM_001278594.1;ALDH6A1,intron_variant,,ENST00000350259,;CCDC176,intron_variant,,ENST00000553773,;ALDH6A1,intron_variant,,ENST00000555126,;CCDC176,downstream_gene_variant,,ENST00000394009,NM_025057.2;AC005484.5,intron_variant,,ENST00000492026,;ALDH6A1,downstream_gene_variant,,ENST00000556852,;ALDH6A1,downstream_gene_variant,,ENST00000553814,;ALDH6A1,intron_variant,,ENST00000554501,;ALDH6A1,downstream_gene_variant,,ENST00000554231,;"	"G"	"ENSG00000119711"	"ENST00000553458"	"Transcript"	"intron_variant"	"-/5499"	"-/1608"	"-/535"	""	""	""	"1"	NA	-1	"ALDH6A1"	"HGNC"	7179	"protein_coding"	"YES"	"CCDS9826.1"	"ENSP00000450436"	"Q02252"	"G3V4Z4"	"UPI0000001610"	"NM_001278593.1,NM_005589.3,NM_001278594.1"	""	""	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"75eae092-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"16129"	"LIN52"	91750	"mskcc.org"	"GRCh37"	"14"	74627934	74627934	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.296-37691T>G"	""	""	"ENST00000555028"	""	71	"66"	5	54	"54"	0	"LIN52,intron_variant,,ENST00000555028,NM_001024674.2;LIN52,intron_variant,,ENST00000554938,;LIN52,intron_variant,,ENST00000553404,;"	"G"	"ENSG00000205659"	"ENST00000555028"	"Transcript"	"intron_variant"	"-/2774"	"-/351"	"-/116"	""	""	""	"1"	NA	1	"LIN52"	"HGNC"	19856	"protein_coding"	"YES"	"CCDS32120.1"	"ENSP00000451812"	"Q52LA3"	"B3KN83"	"UPI00000E9291"	"NM_001024674.2"	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75eae1e6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0704225352112676	"WGS"	FALSE
"16130"	"ENSR00001458805"	0	"mskcc.org"	"GRCh37"	"14"	75099361	75099361	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001458805"	""	78	"65"	13	41	"41"	0	""	"A"	""	"ENSR00001458805"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"75eaeec0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"16131"	"NEK9"	91754	"mskcc.org"	"GRCh37"	"14"	75555939	75555939	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2443-595T>A"	""	""	"ENST00000238616"	""	80	"75"	5	48	"48"	0	"NEK9,intron_variant,,ENST00000238616,NM_033116.4;NEK9,upstream_gene_variant,,ENST00000555763,;NEK9,intron_variant,,ENST00000557026,;NEK9,intron_variant,,ENST00000556170,;NEK9,intron_variant,,ENST00000555405,;"	"T"	"ENSG00000119638"	"ENST00000238616"	"Transcript"	"intron_variant"	"-/5544"	"-/2940"	"-/979"	""	""	""	"1"	NA	-1	"NEK9"	"HGNC"	18591	"protein_coding"	"YES"	"CCDS9839.1"	"ENSP00000238616"	"Q8TD19"	"G3V5V0,G3V2Z5"	"UPI00001FD89B"	"NM_033116.4"	""	""	""	"19/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75eaff14-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"16132"	"NEK9"	91754	"mskcc.org"	"GRCh37"	"14"	75555942	75555942	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2443-598T>A"	""	""	"ENST00000238616"	""	79	"73"	6	47	"47"	0	"NEK9,intron_variant,,ENST00000238616,NM_033116.4;NEK9,upstream_gene_variant,,ENST00000555763,;NEK9,intron_variant,,ENST00000557026,;NEK9,intron_variant,,ENST00000556170,;NEK9,intron_variant,,ENST00000555405,;"	"T"	"ENSG00000119638"	"ENST00000238616"	"Transcript"	"intron_variant"	"-/5544"	"-/2940"	"-/979"	""	""	""	"1"	NA	-1	"NEK9"	"HGNC"	18591	"protein_coding"	"YES"	"CCDS9839.1"	"ENSP00000238616"	"Q8TD19"	"G3V5V0,G3V2Z5"	"UPI00001FD89B"	"NM_033116.4"	""	""	""	"19/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75eaff64-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"16133"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	78681989	78681989	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"77"	17	72	"72"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"75eb4cee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180851063829787	"WGS"	FALSE
"16134"	"NRXN3"	9369	"mskcc.org"	"GRCh37"	"14"	79019538	79019538	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-362-91925G>A"	""	""	"ENST00000554719"	""	81	"70"	11	71	"71"	0	"NRXN3,intron_variant,,ENST00000554719,NM_004796.5;NRXN3,intron_variant,,ENST00000553363,;NRXN3,intron_variant,,ENST00000553631,;NRXN3,intron_variant,,ENST00000554738,;NRXN3,intron_variant,,ENST00000556088,;"	"A"	"ENSG00000021645"	"ENST00000554719"	"Transcript"	"intron_variant"	"-/4156"	"-/3186"	"-/1061"	""	""	""	"1"	NA	1	"NRXN3"	"HGNC"	8010	"protein_coding"	"YES"	"CCDS9870.1"	"ENSP00000451648"	"Q9Y4C0"	"G3V4R9,G3V247"	"UPI0000167BBA"	"NM_004796.5"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"75eb56d0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135802469135802	"WGS"	FALSE
"16135"	"NRXN3"	9369	"mskcc.org"	"GRCh37"	"14"	80318216	80318216	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2885-9790C>T"	""	""	"ENST00000554719"	""	123	"108"	15	67	"67"	0	"NRXN3,intron_variant,,ENST00000281127,NM_138970.4,NM_001272020.1;NRXN3,intron_variant,,ENST00000428277,NM_001105250.2;NRXN3,intron_variant,,ENST00000554719,NM_004796.5;NRXN3,intron_variant,,ENST00000335750,;NRXN3,intron_variant,,ENST00000557594,;NRXN3,intron_variant,,ENST00000556003,;NRXN3,intron_variant,,ENST00000554738,;NRXN3,intron_variant,,ENST00000555387,;"	"T"	"ENSG00000021645"	"ENST00000554719"	"Transcript"	"intron_variant"	"-/4156"	"-/3186"	"-/1061"	""	""	""	"1"	NA	1	"NRXN3"	"HGNC"	8010	"protein_coding"	"YES"	"CCDS9870.1"	"ENSP00000451648"	"Q9Y4C0"	"G3V4R9,G3V247"	"UPI0000167BBA"	"NM_004796.5"	""	""	""	"16/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"75eb8466-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WGS"	FALSE
"16136"	"RP11-666E17.1"	0	"mskcc.org"	"GRCh37"	"14"	82351486	82351486	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.315+57241C>G"	""	""	"ENST00000554814"	""	104	"87"	17	64	"64"	0	"RP11-666E17.1,intron_variant,,ENST00000554814,;"	"G"	"ENSG00000259035"	"ENST00000554814"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/559"	""	""	""	""	""	"1"	NA	1	"RP11-666E17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"75ebb1de-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163461538461538	"WGS"	FALSE
"16137"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	82859106	82859106	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"80"	31	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"75ebb9ea-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279279279279279	"WGS"	FALSE
"16138"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	83389079	83389079	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"91"	19	80	"80"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"75ebdc4a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172727272727273	"WGS"	FALSE
"16139"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	83427002	83427002	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"94"	24	77	"77"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75ebdea2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203389830508475	"WGS"	FALSE
"16140"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	84035231	84035231	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	133	"107"	26	67	"67"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75ebf1d0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195488721804511	"WGS"	FALSE
"16141"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	84583492	84583492	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"83"	22	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75ebff54-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.20952380952381	"WGS"	FALSE
"16142"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	84827014	84827014	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"89"	26	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75ec0ab2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226086956521739	"WGS"	FALSE
"16143"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	85366720	85366720	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"102"	9	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"75ec1a98-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"16144"	"FLRT2"	23768	"mskcc.org"	"GRCh37"	"14"	86075046	86075046	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-376-12437G>A"	""	""	"ENST00000330753"	""	97	"78"	19	71	"71"	0	"FLRT2,intron_variant,,ENST00000330753,NM_013231.4;FLRT2,intron_variant,,ENST00000554746,;"	"A"	"ENSG00000185070"	"ENST00000330753"	"Transcript"	"intron_variant"	"-/7943"	"-/1983"	"-/660"	""	""	""	"1"	NA	1	"FLRT2"	"HGNC"	3761	"protein_coding"	"YES"	"CCDS9877.1"	"ENSP00000332879"	"O43155"	"B4DM15"	"UPI0000049E10"	"NM_013231.4"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"75ec2d12-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195876288659794	"WGS"	FALSE
"16145"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	86662199	86662199	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"73"	23	63	"63"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"75ec40cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239583333333333	"WGS"	FALSE
"16146"	"ZC3H14"	79882	"mskcc.org"	"GRCh37"	"14"	89042560	89042560	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1123+276G>T"	""	""	"ENST00000251038"	""	84	"68"	16	56	"56"	0	"ZC3H14,intron_variant,,ENST00000251038,NM_024824.4,NM_001160103.1,NM_001160104.1;ZC3H14,intron_variant,,ENST00000359301,;ZC3H14,intron_variant,,ENST00000302216,NM_207660.3;ZC3H14,intron_variant,,ENST00000555755,;ZC3H14,intron_variant,,ENST00000393514,;ZC3H14,intron_variant,,ENST00000556000,;ZC3H14,intron_variant,,ENST00000556945,;ZC3H14,intron_variant,,ENST00000336693,NM_207661.2;ZC3H14,intron_variant,,ENST00000557607,;ZC3H14,downstream_gene_variant,,ENST00000556158,;ZC3H14,downstream_gene_variant,,ENST00000555799,;ZC3H14,downstream_gene_variant,,ENST00000554602,;ZC3H14,downstream_gene_variant,,ENST00000557693,;ZC3H14,downstream_gene_variant,,ENST00000555120,;ZC3H14,intron_variant,,ENST00000557605,;ZC3H14,intron_variant,,ENST00000557047,;ZC3H14,intron_variant,,ENST00000556110,;ZC3H14,downstream_gene_variant,,ENST00000553495,;"	"T"	"ENSG00000100722"	"ENST00000251038"	"Transcript"	"intron_variant"	"-/4194"	"-/2211"	"-/736"	""	""	""	"1"	NA	1	"ZC3H14"	"HGNC"	20509	"protein_coding"	"YES"	"CCDS32133.1"	"ENSP00000251038"	"Q6PJT7"	"G3V572,G3V473,G3V3Y4,G3V2X4,G3V240"	"UPI00001BDB9B"	"NM_024824.4,NM_001160103.1,NM_001160104.1"	""	""	""	"8/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"75ec78f8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"16147"	"ENSR00000422444"	0	"mskcc.org"	"GRCh37"	"14"	90968655	90968655	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000422444"	""	55	"43"	12	56	"56"	0	""	"G"	""	"ENSR00000422444"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"75ecb106-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218181818181818	"WGS"	FALSE
"16148"	"UNC79"	57578	"mskcc.org"	"GRCh37"	"14"	94015265	94015265	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1224+6223A>G"	""	""	"ENST00000256339"	""	114	"95"	19	70	"70"	0	"UNC79,intron_variant,,ENST00000553484,;UNC79,intron_variant,,ENST00000555664,;UNC79,intron_variant,,ENST00000256339,NM_020818.3;UNC79,intron_variant,,ENST00000393151,;"	"G"	"ENSG00000133958"	"ENST00000256339"	"Transcript"	"intron_variant"	"-/8400"	"-/7377"	"-/2458"	""	""	""	"1"	NA	1	"UNC79"	"HGNC"	19966	"protein_coding"	"YES"	"CCDS9911.2"	"ENSP00000256339"	"Q9P2D8"	""	"UPI0000D62441"	"NM_020818.3"	""	""	""	"14/49"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75ed02d2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"16149"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	99193348	99193348	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"87"	8	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"75edd176-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0842105263157895	"WGS"	FALSE
"16150"	"SETD3"	84193	"mskcc.org"	"GRCh37"	"14"	99925700	99925700	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.346-178T>G"	""	""	"ENST00000331768"	""	115	"90"	25	59	"59"	0	"SETD3,intron_variant,,ENST00000331768,NM_032233.2;SETD3,intron_variant,,ENST00000436070,;SETD3,intron_variant,,ENST00000329331,NM_199123.1;SETD3,intron_variant,,ENST00000453938,;SETD3,intron_variant,,ENST00000357563,;SETD3,intron_variant,,ENST00000446066,;SETD3,intron_variant,,ENST00000453764,;"	"C"	"ENSG00000183576"	"ENST00000331768"	"Transcript"	"intron_variant"	"-/2878"	"-/1785"	"-/594"	""	""	""	"1"	NA	-1	"SETD3"	"HGNC"	20493	"protein_coding"	"YES"	"CCDS9951.1"	"ENSP00000327436"	"Q86TU7"	""	"UPI000000CC6D"	"NM_032233.2"	""	""	""	"4/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"75edeabc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"16151"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	101840222	101840222	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"58"	23	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"75ee38a0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283950617283951	"WGS"	FALSE
"16152"	"TRAF3"	7187	"mskcc.org"	"GRCh37"	"14"	103262421	103262421	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-18+18409T>G"	""	""	"ENST00000560371"	""	52	"48"	4	44	"44"	0	"TRAF3,intron_variant,,ENST00000560371,NM_145725.2,NM_003300.3;TRAF3,intron_variant,,ENST00000347662,NM_145726.2;TRAF3,intron_variant,,ENST00000392745,;TRAF3,intron_variant,,ENST00000539721,NM_001199427.1;TRAF3,intron_variant,,ENST00000560463,;"	"G"	"ENSG00000131323"	"ENST00000560371"	"Transcript"	"intron_variant"	"-/7640"	"-/1707"	"-/568"	""	""	""	"1"	NA	1	"TRAF3"	"HGNC"	12033	"protein_coding"	"YES"	"CCDS9975.1"	"ENSP00000454207"	"Q13114"	"H0YMI8"	"UPI000000CBF9"	"NM_145725.2,NM_003300.3"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTC"	"75ee6d66-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"16153"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	103645301	103645301	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"77"	22	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"75ee7c7a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"16154"	"LINC00605"	100131366	"mskcc.org"	"GRCh37"	"14"	103655915	103655915	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000514902"	""	66	"54"	12	47	"47"	0	"LINC00605,upstream_gene_variant,,ENST00000514902,;GCSHP2,downstream_gene_variant,,ENST00000560971,;"	"T"	"ENSG00000251533"	"ENST00000514902"	"Transcript"	"upstream_gene_variant"	"-/1558"	""	""	""	""	""	"1"	"550"	-1	"LINC00605"	"HGNC"	43928	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"75ee7d42-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"16155"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	103689621	103689621	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	76	"72"	4	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"75ee7e96-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0526315789473684	"WGS"	FALSE
"16156"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	103689649	103689649	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"66"	5	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"75ee7f9a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0704225352112676	"WGS"	FALSE
"16157"	"RP11-260M19.2"	0	"mskcc.org"	"GRCh37"	"14"	104690818	104690818	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs149576786"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.203+665G>A"	""	""	"ENST00000555282"	""	88	"68"	20	62	"62"	0	"RP11-260M19.2,intron_variant,,ENST00000555282,;RP11-260M19.2,intron_variant,,ENST00000553757,;RP11-260M19.2,intron_variant,,ENST00000556528,;"	"A"	"ENSG00000258913"	"ENST00000555282"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/854"	""	""	""	""	"rs149576786"	"1"	NA	1	"RP11-260M19.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	"A:0.0006"	"A:0"	"A:0"	NA	"A:0.003"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"75eea89e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"16158"	"ELK2AP"	0	"mskcc.org"	"GRCh37"	"14"	106144162	106144162	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000392510"	""	36	"32"	4	28	"28"	0	"ELK2AP,upstream_gene_variant,,ENST00000392510,;"	"T"	"ENSG00000213140"	"ENST00000392510"	"Transcript"	"upstream_gene_variant"	"-/1007"	""	""	""	""	""	"1"	"4511"	-1	"ELK2AP"	"HGNC"	3323	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"75ef58b6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"16159"	"IGHV3-22"	0	"mskcc.org"	"GRCh37"	"14"	106710433	106710433	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000520721"	""	113	"90"	23	47	"47"	0	"IGHV3-22,downstream_gene_variant,,ENST00000520721,;"	"C"	"ENSG00000253957"	"ENST00000520721"	"Transcript"	"downstream_gene_variant"	"-/359"	""	""	""	""	""	"1"	"3927"	-1	"IGHV3-22"	"HGNC"	5587	"IG_V_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75efb6c6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.20353982300885	"WGS"	FALSE
"16160"	"HERC2P3"	283755	"mskcc.org"	"GRCh37"	"15"	20586921	20586921	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000428453"	""	158	"134"	24	82	"82"	0	"HERC2P3,downstream_gene_variant,,ENST00000428453,;HERC2P3,downstream_gene_variant,,ENST00000437318,;HERC2P3,downstream_gene_variant,,ENST00000426501,;"	"A"	"ENSG00000180229"	"ENST00000428453"	"Transcript"	"downstream_gene_variant"	"-/4383"	""	""	""	""	""	"1"	"1447"	-1	"HERC2P3"	"HGNC"	4871	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75f06134-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151898734177215	"WGS"	FALSE
"16161"	"RP11-69H14.6"	101927079	"mskcc.org"	"GRCh37"	"15"	22316882	22316882	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.100-1995C>A"	""	""	"ENST00000558896"	""	246	"226"	20	170	"170"	0	"RP11-69H14.6,intron_variant,,ENST00000558896,;RP11-69H14.6,intron_variant,,ENST00000558312,;RP11-69H14.6,intron_variant,,ENST00000560134,;RP11-69H14.6,intron_variant,,ENST00000560193,;RP11-69H14.6,intron_variant,,ENST00000557817,;RP11-69H14.6,intron_variant,,ENST00000558798,;RP11-69H14.6,intron_variant,,ENST00000560625,;RP11-69H14.6,intron_variant,,ENST00000557855,;RP11-69H14.6,intron_variant,,ENST00000559392,;OR11K1P,downstream_gene_variant,,ENST00000558299,;"	"A"	"ENSG00000259176"	"ENST00000558896"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2317"	""	""	""	""	""	"1"	NA	1	"RP11-69H14.6"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"75f0f1c6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0813008130081301	"WGS"	FALSE
"16162"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	22806591	22806591	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"52"	7	43	"43"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75f13eec-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.11864406779661	"WGS"	FALSE
"16163"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	24359450	24359450	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"79"	18	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"75f19536-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185567010309278	"WGS"	FALSE
"16164"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	24615743	24615743	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"112"	8	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"75f1bd7c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"16165"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	26134570	26134570	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"59"	8	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"75f20822-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119402985074627	"WGS"	FALSE
"16166"	"GABRG3"	2567	"mskcc.org"	"GRCh37"	"15"	27414680	27414680	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.270+142712C>T"	""	""	"ENST00000333743"	""	85	"71"	14	61	"61"	0	"GABRG3,intron_variant,,ENST00000333743,NM_033223.4;GABRG3,intron_variant,,ENST00000555083,NM_001270873.1;"	"T"	"ENSG00000182256"	"ENST00000333743"	"Transcript"	"intron_variant"	"-/2004"	"-/1404"	"-/467"	""	""	""	"1"	NA	1	"GABRG3"	"HGNC"	4088	"protein_coding"	"YES"	"CCDS45195.1"	"ENSP00000331912"	"Q99928"	""	"UPI000012AFCB"	"NM_033223.4"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"75f23018-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164705882352941	"WGS"	FALSE
"16167"	"GABRG3"	2567	"mskcc.org"	"GRCh37"	"15"	27667409	27667409	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.575-58387A>T"	""	""	"ENST00000333743"	""	105	"89"	16	78	"78"	0	"GABRG3,intron_variant,,ENST00000333743,NM_033223.4;GABRG3,intron_variant,,ENST00000555083,NM_001270873.1;GABRG3,intron_variant,,ENST00000554696,;RP11-100M12.1,upstream_gene_variant,,ENST00000557025,;RP11-100M12.2,upstream_gene_variant,,ENST00000553919,;"	"T"	"ENSG00000182256"	"ENST00000333743"	"Transcript"	"intron_variant"	"-/2004"	"-/1404"	"-/467"	""	""	""	"1"	NA	1	"GABRG3"	"HGNC"	4088	"protein_coding"	"YES"	"CCDS45195.1"	"ENSP00000331912"	"Q99928"	""	"UPI000012AFCB"	"NM_033223.4"	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"75f23a0e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152380952380952	"WGS"	FALSE
"16168"	"RP11-143J24.1"	0	"mskcc.org"	"GRCh37"	"15"	30337091	30337091	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.138+823C>G"	""	""	"ENST00000561392"	""	63	"56"	7	54	"54"	0	"RP11-143J24.1,intron_variant,,ENST00000561392,;CTD-2022H16.3,non_coding_transcript_exon_variant,,ENST00000569699,;"	"C"	"ENSG00000259647"	"ENST00000561392"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/485"	""	""	""	""	""	"1"	NA	-1	"RP11-143J24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"75f2dc20-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"16169"	"HERC2P10"	390561	"mskcc.org"	"GRCh37"	"15"	31130902	31130902	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2185+728G>A"	""	""	"ENST00000570209"	""	54	"45"	9	39	"39"	0	"HERC2P10,intron_variant,,ENST00000570209,;"	"A"	"ENSG00000259845"	"ENST00000570209"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2393"	""	""	""	""	""	"1"	NA	1	"HERC2P10"	"HGNC"	39056	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"15/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"75f318d4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"16170"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	36595423	36595423	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	143	"123"	20	76	"76"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"75f3e9da-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13986013986014	"WGS"	FALSE
"16171"	"ENSR00001653634"	0	"mskcc.org"	"GRCh37"	"15"	38037276	38037276	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001653634"	""	99	"82"	17	51	"51"	0	""	"A"	""	"ENSR00001653634"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"75f41ce8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171717171717172	"WGS"	FALSE
"16172"	"RP11-275I4.2"	0	"mskcc.org"	"GRCh37"	"15"	38972723	38972723	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000557946"	""	99	"76"	23	70	"70"	0	"RP11-275I4.2,intron_variant,,ENST00000560203,;RP11-275I4.2,downstream_gene_variant,,ENST00000557946,;"	"T"	"ENSG00000259747"	"ENST00000557946"	"Transcript"	"downstream_gene_variant"	"-/509"	""	""	""	""	""	"1"	"2514"	1	"RP11-275I4.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"75f43b60-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232323232323232	"WGS"	FALSE
"16173"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	39781270	39781270	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"99"	28	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"75f44e70-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220472440944882	"WGS"	FALSE
"16174"	"CHP1"	11261	"mskcc.org"	"GRCh37"	"15"	41572916	41572916	"+"	"3'UTR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1329G>A"	""	""	"ENST00000334660"	"7/7"	34	"30"	4	28	"28"	0	"CHP1,3_prime_UTR_variant,,ENST00000334660,NM_007236.4;CHP1,downstream_gene_variant,,ENST00000560397,;OIP5-AS1,upstream_gene_variant,,ENST00000500949,;OIP5-AS1,upstream_gene_variant,,ENST00000501665,;OIP5-AS1,upstream_gene_variant,,ENST00000558945,;OIP5-AS1,upstream_gene_variant,,ENST00000557993,;OIP5-AS1,upstream_gene_variant,,ENST00000561275,;OIP5-AS1,upstream_gene_variant,,ENST00000561226,;OIP5-AS1,upstream_gene_variant,,ENST00000559368,;OIP5-AS1,upstream_gene_variant,,ENST00000560706,;CHP1,downstream_gene_variant,,ENST00000558351,;CHP1,downstream_gene_variant,,ENST00000560411,;CHP1,downstream_gene_variant,,ENST00000392151,;CHP1,downstream_gene_variant,,ENST00000560784,;OIP5-AS1,upstream_gene_variant,,ENST00000558457,;OIP5-AS1,upstream_gene_variant,,ENST00000560545,;"	"A"	"ENSG00000187446"	"ENST00000334660"	"Transcript"	"3_prime_UTR_variant"	"2157/3284"	"-/588"	"-/195"	""	""	""	"1"	NA	1	"CHP1"	"HGNC"	17433	"protein_coding"	"YES"	"CCDS10073.1"	"ENSP00000335632"	"Q99653"	""	"UPI000013D461"	"NM_007236.4"	""	""	"7/7"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75f47f8a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"16175"	"CHP1"	11261	"mskcc.org"	"GRCh37"	"15"	41572923	41572923	"+"	"3'UTR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1336C>A"	""	""	"ENST00000334660"	"7/7"	34	"30"	4	29	"29"	0	"CHP1,3_prime_UTR_variant,,ENST00000334660,NM_007236.4;CHP1,downstream_gene_variant,,ENST00000560397,;OIP5-AS1,upstream_gene_variant,,ENST00000500949,;OIP5-AS1,upstream_gene_variant,,ENST00000501665,;OIP5-AS1,upstream_gene_variant,,ENST00000558945,;OIP5-AS1,upstream_gene_variant,,ENST00000557993,;OIP5-AS1,upstream_gene_variant,,ENST00000561275,;OIP5-AS1,upstream_gene_variant,,ENST00000561226,;OIP5-AS1,upstream_gene_variant,,ENST00000559368,;OIP5-AS1,upstream_gene_variant,,ENST00000560706,;CHP1,downstream_gene_variant,,ENST00000558351,;CHP1,downstream_gene_variant,,ENST00000560411,;CHP1,downstream_gene_variant,,ENST00000392151,;CHP1,downstream_gene_variant,,ENST00000560784,;OIP5-AS1,upstream_gene_variant,,ENST00000558457,;OIP5-AS1,upstream_gene_variant,,ENST00000560545,;"	"A"	"ENSG00000187446"	"ENST00000334660"	"Transcript"	"3_prime_UTR_variant"	"2164/3284"	"-/588"	"-/195"	""	""	""	"1"	NA	1	"CHP1"	"HGNC"	17433	"protein_coding"	"YES"	"CCDS10073.1"	"ENSP00000335632"	"Q99653"	""	"UPI000013D461"	"NM_007236.4"	""	""	"7/7"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"75f47fda-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"16176"	"CHP1"	11261	"mskcc.org"	"GRCh37"	"15"	41572933	41572933	"+"	"3'UTR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*1346A>T"	""	""	"ENST00000334660"	"7/7"	32	"28"	4	26	"26"	0	"CHP1,3_prime_UTR_variant,,ENST00000334660,NM_007236.4;CHP1,downstream_gene_variant,,ENST00000560397,;OIP5-AS1,upstream_gene_variant,,ENST00000500949,;OIP5-AS1,upstream_gene_variant,,ENST00000501665,;OIP5-AS1,upstream_gene_variant,,ENST00000558945,;OIP5-AS1,upstream_gene_variant,,ENST00000557993,;OIP5-AS1,upstream_gene_variant,,ENST00000561275,;OIP5-AS1,upstream_gene_variant,,ENST00000561226,;OIP5-AS1,upstream_gene_variant,,ENST00000559368,;OIP5-AS1,upstream_gene_variant,,ENST00000560706,;CHP1,downstream_gene_variant,,ENST00000558351,;CHP1,downstream_gene_variant,,ENST00000560411,;CHP1,downstream_gene_variant,,ENST00000392151,;CHP1,downstream_gene_variant,,ENST00000560784,;OIP5-AS1,upstream_gene_variant,,ENST00000558457,;OIP5-AS1,upstream_gene_variant,,ENST00000560545,;"	"T"	"ENSG00000187446"	"ENST00000334660"	"Transcript"	"3_prime_UTR_variant"	"2174/3284"	"-/588"	"-/195"	""	""	""	"1"	NA	1	"CHP1"	"HGNC"	17433	"protein_coding"	"YES"	"CCDS10073.1"	"ENSP00000335632"	"Q99653"	""	"UPI000013D461"	"NM_007236.4"	""	""	"7/7"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"75f48048-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"16177"	"MAPKBP1"	23005	"mskcc.org"	"GRCh37"	"15"	42098226	42098226	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.207-4855G>T"	""	""	"ENST00000456763"	""	73	"64"	9	49	"49"	0	"MAPKBP1,intron_variant,,ENST00000457542,NM_014994.2;MAPKBP1,intron_variant,,ENST00000456763,NM_001128608.1;MAPKBP1,intron_variant,,ENST00000221214,;MAPKBP1,intron_variant,,ENST00000514566,NM_001265611.1;MAPKBP1,intron_variant,,ENST00000260357,;MAPKBP1,intron_variant,,ENST00000510535,;MAPKBP1,intron_variant,,ENST00000507762,;MAPKBP1,intron_variant,,ENST00000505061,;MAPKBP1,intron_variant,,ENST00000512970,;MAPKBP1,intron_variant,,ENST00000505373,;MAPKBP1,intron_variant,,ENST00000502292,;MAPKBP1,upstream_gene_variant,,ENST00000515164,;MAPKBP1,upstream_gene_variant,,ENST00000507147,;"	"T"	"ENSG00000137802"	"ENST00000456763"	"Transcript"	"intron_variant"	"-/7158"	"-/4545"	"-/1514"	""	""	""	"1"	NA	1	"MAPKBP1"	"HGNC"	29536	"protein_coding"	"YES"	"CCDS45239.1"	"ENSP00000393099"	"O60336"	"D6R9F7"	"UPI00002375CB"	"NM_001128608.1"	""	""	""	"3/31"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"75f48ffc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123287671232877	"WGS"	FALSE
"16178"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	42412389	42412389	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"64"	16	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"75f4974a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16179"	"TMEM62"	80021	"mskcc.org"	"GRCh37"	"15"	43435016	43435016	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.477-3675A>T"	""	""	"ENST00000260403"	""	65	"61"	4	38	"38"	0	"TMEM62,intron_variant,,ENST00000260403,NM_024956.3;TMEM62,intron_variant,,ENST00000564494,;TMEM62,intron_variant,,ENST00000564698,;TMEM62,intron_variant,,ENST00000565291,;EPB42,intron_variant,,ENST00000570199,;TMEM62,intron_variant,,ENST00000567441,;TMEM62,intron_variant,,ENST00000569535,;TMEM62,intron_variant,,ENST00000569926,;TMEM62,intron_variant,,ENST00000568182,;TMEM62,intron_variant,,ENST00000568197,;TMEM62,upstream_gene_variant,,ENST00000569897,;"	"T"	"ENSG00000137842"	"ENST00000260403"	"Transcript"	"intron_variant"	"-/2771"	"-/1932"	"-/643"	""	""	""	"1"	NA	1	"TMEM62"	"HGNC"	26269	"protein_coding"	"YES"	"CCDS32210.1"	"ENSP00000260403"	"Q0P6H9"	"H3BTT1,H3BPV2"	"UPI00004443FD"	"NM_024956.3"	""	""	""	"4/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"75f4c224-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0615384615384615	"WGS"	FALSE
"16180"	"TMEM62"	80021	"mskcc.org"	"GRCh37"	"15"	43459637	43459637	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1297-2154T>A"	""	""	"ENST00000260403"	""	53	"49"	4	32	"32"	0	"TMEM62,intron_variant,,ENST00000260403,NM_024956.3;TMEM62,intron_variant,,ENST00000564494,;EPB42,intron_variant,,ENST00000570199,;TMEM62,upstream_gene_variant,,ENST00000569369,;TMEM62,intron_variant,,ENST00000563859,;TMEM62,intron_variant,,ENST00000566308,;"	"A"	"ENSG00000137842"	"ENST00000260403"	"Transcript"	"intron_variant"	"-/2771"	"-/1932"	"-/643"	""	""	""	"1"	NA	1	"TMEM62"	"HGNC"	26269	"protein_coding"	"YES"	"CCDS32210.1"	"ENSP00000260403"	"Q0P6H9"	"H3BTT1,H3BPV2"	"UPI00004443FD"	"NM_024956.3"	""	""	""	"10/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"75f4c2ce-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0754716981132075	"WGS"	FALSE
"16181"	"B2M"	567	"mskcc.org"	"GRCh37"	"15"	45015154	45015154	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"rs371966769"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000558401"	""	67	"51"	16	47	"47"	0	"B2M,downstream_gene_variant,,ENST00000558401,NM_004048.2;B2M,downstream_gene_variant,,ENST00000559220,;B2M,downstream_gene_variant,,ENST00000349264,;B2M,downstream_gene_variant,,ENST00000561139,;B2M,downstream_gene_variant,,ENST00000561424,;"	"T"	"ENSG00000166710"	"ENST00000558401"	"Transcript"	"downstream_gene_variant"	"-/1715"	"-/360"	"-/119"	""	""	"rs371966769"	"1"	"4079"	1	"B2M"	"HGNC"	914	"protein_coding"	"YES"	"CCDS10113.1"	"ENSP00000452780"	"P61769"	"Q9UM88,H0YLF3,A6XND9"	"UPI000000D892"	"NM_004048.2"	""	""	""	""	""	"T:0.0004"	"T:0.0015"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCG"	"75f4e5c4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238805970149254	"WGS"	FALSE
"16182"	"HMGN2P46"	283651	"mskcc.org"	"GRCh37"	"15"	45823557	45823557	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.442-4726C>T"	""	""	"ENST00000396645"	""	53	"39"	14	40	"40"	0	"HMGN2P46,intron_variant,,ENST00000409454,;HMGN2P46,intron_variant,,ENST00000396645,;HMGN2P46,intron_variant,,ENST00000396644,;HMGN2P46,intron_variant,,ENST00000313559,;HMGN2P46,intron_variant,,ENST00000564594,;HMGN2P46,intron_variant,,ENST00000568669,;"	"T"	"ENSG00000179362"	"ENST00000396645"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1284"	""	""	""	""	""	"1"	NA	1	"HMGN2P46"	"HGNC"	26817	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"75f4fbcc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264150943396226	"WGS"	TRUE
"16183"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	46236815	46236815	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"63"	17	47	"47"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"75f50464-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2125	"WGS"	FALSE
"16184"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	47296179	47296179	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs766607866"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"62"	29	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs766607866"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"75f51abc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.318681318681319	"WGS"	FALSE
"16185"	"SEMA6D"	80031	"mskcc.org"	"GRCh37"	"15"	47932170	47932170	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-55+39077G>A"	""	""	"ENST00000558014"	""	129	"102"	27	61	"61"	0	"SEMA6D,intron_variant,,ENST00000558014,NM_001198999.1;SEMA6D,intron_variant,,ENST00000537942,;SEMA6D,intron_variant,,ENST00000559184,;SEMA6D,intron_variant,,ENST00000560636,;"	"A"	"ENSG00000137872"	"ENST00000558014"	"Transcript"	"intron_variant"	"-/6028"	"-/3036"	"-/1011"	""	""	""	"1"	NA	1	"SEMA6D"	"HGNC"	16770	"protein_coding"	""	"CCDS32224.1"	"ENSP00000452815"	"Q8NFY4"	"Q9HAH9,H0YMV0,H0YMA6,H0YL82"	"UPI0000071E59"	"NM_001198999.1"	""	""	""	"4/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"75f528e0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209302325581395	"WGS"	FALSE
"16186"	"ENSR00000407480"	0	"mskcc.org"	"GRCh37"	"15"	48165842	48165842	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000407480"	""	105	"91"	14	83	"83"	0	""	"G"	""	"ENSR00000407480"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"75f52de0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"16187"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	50069117	50069117	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"72"	18	79	"79"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"75f55568-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16188"	"SLC27A2"	11001	"mskcc.org"	"GRCh37"	"15"	50492712	50492712	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.689-1972G>T"	""	""	"ENST00000267842"	""	94	"60"	34	58	"58"	0	"SLC27A2,intron_variant,,ENST00000267842,NM_003645.3;SLC27A2,intron_variant,,ENST00000380902,NM_001159629.1;SLC27A2,intron_variant,,ENST00000544960,;SLC27A2,upstream_gene_variant,,ENST00000559938,;"	"T"	"ENSG00000140284"	"ENST00000267842"	"Transcript"	"intron_variant"	"-/2394"	"-/1863"	"-/620"	""	""	""	"1"	NA	1	"SLC27A2"	"HGNC"	10996	"protein_coding"	"YES"	"CCDS10133.1"	"ENSP00000267842"	"O14975"	"G3V1R7"	"UPI000013D776"	"NM_003645.3"	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75f5608a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.361702127659574	"WGS"	FALSE
"16189"	"USP50"	373509	"mskcc.org"	"GRCh37"	"15"	50843158	50843158	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000532404"	""	54	"44"	10	43	"43"	0	"USP50,upstream_gene_variant,,ENST00000532404,NM_203494.4;TRPM7,downstream_gene_variant,,ENST00000561267,;USP50,upstream_gene_variant,,ENST00000530218,;USP50,upstream_gene_variant,,ENST00000559105,;"	"G"	"ENSG00000170236"	"ENST00000532404"	"Transcript"	"upstream_gene_variant"	"-/1386"	"-/1005"	"-/334"	""	""	""	"1"	"4262"	-1	"USP50"	"HGNC"	20079	"protein_coding"	"YES"	"CCDS53944.1"	"ENSP00000434676"	""	"E9PP86"	"UPI0001CB7F8F"	"NM_203494.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"75f56904-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WGS"	FALSE
"16190"	"CYP19A1"	1588	"mskcc.org"	"GRCh37"	"15"	51606525	51606525	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-39+24167A>G"	""	""	"ENST00000396402"	""	78	"72"	6	66	"66"	0	"CYP19A1,intron_variant,,ENST00000396402,NM_000103.3;CYP19A1,intron_variant,,ENST00000260433,;CYP19A1,intron_variant,,ENST00000396404,NM_031226.2;CYP19A1,intron_variant,,ENST00000453807,;CYP19A1,intron_variant,,ENST00000558328,;CYP19A1,intron_variant,,ENST00000559980,;CYP19A1,intron_variant,,ENST00000561075,;CYP19A1,intron_variant,,ENST00000557858,;CYP19A1,intron_variant,,ENST00000405011,;CYP19A1,intron_variant,,ENST00000559646,;RP11-108K3.2,upstream_gene_variant,,ENST00000559672,;CYP19A1,intron_variant,,ENST00000492852,;CYP19A1,intron_variant,,ENST00000439712,;CYP19A1,intron_variant,,ENST00000557934,;"	"C"	"ENSG00000137869"	"ENST00000396402"	"Transcript"	"intron_variant"	"-/4417"	"-/1512"	"-/503"	""	""	""	"1"	NA	-1	"CYP19A1"	"HGNC"	2594	"protein_coding"	"YES"	"CCDS10139.1"	"ENSP00000379683"	"P11511"	"Q16449,H0YLS2,H0YLP1,H0YKN1,E9PGZ6,E7EQ08,E7EPL6"	"UPI000013D0D7"	"NM_000103.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"75f57ade-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"16191"	"MYO5C"	55930	"mskcc.org"	"GRCh37"	"15"	52501624	52501624	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4297-784G>A"	""	""	"ENST00000261839"	""	85	"70"	15	52	"52"	0	"MYO5C,intron_variant,,ENST00000261839,NM_018728.3;RP11-430B1.2,downstream_gene_variant,,ENST00000560518,;RP11-430B1.2,downstream_gene_variant,,ENST00000559779,;MYO5C,intron_variant,,ENST00000560809,;MYO5C,intron_variant,,ENST00000559696,;"	"T"	"ENSG00000128833"	"ENST00000261839"	"Transcript"	"intron_variant"	"-/6971"	"-/5229"	"-/1742"	""	""	""	"1"	NA	-1	"MYO5C"	"HGNC"	7604	"protein_coding"	"YES"	"CCDS42036.1"	"ENSP00000261839"	"Q9NQX4"	"Q14783,H0YM93"	"UPI000013D20E"	"NM_018728.3"	""	""	""	"35/40"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"75f5937a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"16192"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	55143428	55143428	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"67"	4	43	"43"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75f5e0fa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0563380281690141	"WGS"	FALSE
"16193"	"ENSR00001655855"	0	"mskcc.org"	"GRCh37"	"15"	56816309	56816309	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001655855"	""	111	"102"	9	62	"62"	0	""	"C"	""	"ENSR00001655855"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"75f616ce-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"16194"	"ZNF280D"	54816	"mskcc.org"	"GRCh37"	"15"	57101308	57101308	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-262-2688A>G"	""	""	"ENST00000559000"	""	107	"85"	22	71	"71"	0	"ZNF280D,intron_variant,,ENST00000559000,;"	"C"	"ENSG00000137871"	"ENST00000559000"	"Transcript"	"intron_variant"	"-/4726"	"-/2244"	"-/747"	""	""	""	"1"	NA	-1	"ZNF280D"	"HGNC"	25953	"protein_coding"	""	""	"ENSP00000453045"	""	"H0YL38"	"UPI0000E01FB5"	""	""	""	""	"5/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"75f61e9e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205607476635514	"WGS"	FALSE
"16195"	"MYO1E"	4643	"mskcc.org"	"GRCh37"	"15"	59596476	59596476	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4-31828G>T"	""	""	"ENST00000288235"	""	66	"54"	12	59	"59"	0	"MYO1E,intron_variant,,ENST00000288235,NM_004998.3;MYO1E,intron_variant,,ENST00000558646,;MYO1E,intron_variant,,ENST00000558571,;"	"A"	"ENSG00000157483"	"ENST00000288235"	"Transcript"	"intron_variant"	"-/6193"	"-/3327"	"-/1108"	""	""	""	"1"	NA	-1	"MYO1E"	"HGNC"	7599	"protein_coding"	"YES"	"CCDS32254.1"	"ENSP00000288235"	"Q12965"	"Q4KMR3"	"UPI00001FE590"	"NM_004998.3"	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"75f65cf6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"16196"	"ENSR00000409011"	0	"mskcc.org"	"GRCh37"	"15"	60702316	60702316	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs201190557"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000409011"	""	61	"52"	9	44	"44"	0	""	"A"	""	"ENSR00000409011"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs201190557"	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0034"	"A:0"	"A:0.0014"	NA	"A:0.0149"	"A:0"	"A:0.001"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"75f67998-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147540983606557	"WGS"	FALSE
"16197"	"AC018618.1"	0	"mskcc.org"	"GRCh37"	"15"	62032210	62032210	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000578388"	""	104	"91"	13	74	"74"	0	"AC018618.1,upstream_gene_variant,,ENST00000578388,;"	"C"	"ENSG00000266349"	"ENST00000578388"	"Transcript"	"upstream_gene_variant"	"-/79"	""	""	""	""	""	"1"	"3930"	1	"AC018618.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"75f69cde-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"16198"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	62504517	62504517	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"104"	8	58	"58"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"75f6aa94-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"16199"	"USP3"	9960	"mskcc.org"	"GRCh37"	"15"	63886646	63886646	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000380324"	""	95	"78"	17	48	"48"	0	"USP3,downstream_gene_variant,,ENST00000268049,;USP3,downstream_gene_variant,,ENST00000380324,NM_006537.3;USP3,downstream_gene_variant,,ENST00000540797,NM_001256702.1;USP3,downstream_gene_variant,,ENST00000558285,;USP3,downstream_gene_variant,,ENST00000559711,;FBXL22,upstream_gene_variant,,ENST00000360587,NM_203373.2;USP3,downstream_gene_variant,,ENST00000539772,;FBXL22,upstream_gene_variant,,ENST00000539570,;FBXL22,upstream_gene_variant,,ENST00000534939,;FBXL22,upstream_gene_variant,,ENST00000560325,;USP3-AS1,intron_variant,,ENST00000560962,;USP3-AS1,intron_variant,,ENST00000558831,;USP3-AS1,intron_variant,,ENST00000559737,;USP3-AS1,intron_variant,,ENST00000559861,;USP3-AS1,intron_variant,,ENST00000561191,;USP3-AS1,intron_variant,,ENST00000561256,;USP3-AS1,intron_variant,,ENST00000560622,;USP3,downstream_gene_variant,,ENST00000558218,;USP3,3_prime_UTR_variant,,ENST00000559192,;USP3,3_prime_UTR_variant,,ENST00000559257,;USP3,3_prime_UTR_variant,,ENST00000560202,;USP3,downstream_gene_variant,,ENST00000558157,;USP3,downstream_gene_variant,,ENST00000538686,;USP3,downstream_gene_variant,,ENST00000561381,;USP3,downstream_gene_variant,,ENST00000559718,;"	"T"	"ENSG00000140455"	"ENST00000380324"	"Transcript"	"downstream_gene_variant"	"-/2333"	"-/1563"	"-/520"	""	""	""	"1"	"2980"	1	"USP3"	"HGNC"	12626	"protein_coding"	"YES"	"CCDS32265.1"	"ENSP00000369681"	"Q9Y6I4"	"Q9Y2R8,H0YM72,B4DWJ6"	"UPI0000071F2D"	"NM_006537.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"75f6cd1c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178947368421053	"WGS"	FALSE
"16200"	"CTD-2116N17.1"	0	"mskcc.org"	"GRCh37"	"15"	64665115	64665115	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-598+782T>C"	""	""	"ENST00000606793"	""	59	"53"	6	41	"41"	0	"CTD-2116N17.1,intron_variant,,ENST00000606793,;CTD-2116N17.1,intron_variant,,ENST00000561349,;KIAA0101,intron_variant,,ENST00000300035,NM_014736.4;KIAA0101,intron_variant,,ENST00000380258,NM_001029989.2;KIAA0101,intron_variant,,ENST00000558008,;KIAA0101,intron_variant,,ENST00000559519,;CTD-2116N17.1,intron_variant,,ENST00000560278,;KIAA0101,intron_variant,,ENST00000559280,;CTD-2116N17.1,intron_variant,,ENST00000558783,;KIAA0101,intron_variant,,ENST00000560234,;KIAA0101,intron_variant,,ENST00000558043,;"	"G"	"ENSG00000259316"	"ENST00000606793"	"Transcript"	"intron_variant"	"-/1908"	"-/1215"	"-/404"	""	""	""	"1"	NA	-1	"CTD-2116N17.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000475686"	""	"U3KQA5"	"UPI00024CEA40"	""	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"75f6df46-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101694915254237	"WGS"	FALSE
"16201"	"SPG21"	51324	"mskcc.org"	"GRCh37"	"15"	65258617	65258617	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.670-816G>T"	""	""	"ENST00000204566"	""	47	"37"	10	52	"52"	0	"SPG21,intron_variant,,ENST00000559199,;SPG21,intron_variant,,ENST00000204566,NM_016630.3;SPG21,intron_variant,,ENST00000433215,NM_001127889.1;SPG21,intron_variant,,ENST00000416889,NM_001127890.1;SPG21,intron_variant,,ENST00000561078,;"	"A"	"ENSG00000090487"	"ENST00000204566"	"Transcript"	"intron_variant"	"-/1822"	"-/927"	"-/308"	""	""	""	"1"	NA	-1	"SPG21"	"HGNC"	20373	"protein_coding"	"YES"	"CCDS10198.1"	"ENSP00000204566"	"Q9NZD8"	"H3BRR0,H0YML6,H0YMB7,H0YLW1,H0YLT5,H0YLD7,H0YKB0"	"UPI0000074012"	"NM_016630.3"	""	""	""	"7/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"75f6fbe8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212765957446809	"WGS"	FALSE
"16202"	"CLPX"	10845	"mskcc.org"	"GRCh37"	"15"	65469986	65469986	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.358+1286T>A"	""	""	"ENST00000300107"	""	66	"55"	11	39	"39"	0	"CLPX,intron_variant,,ENST00000300107,NM_006660.3;CLPX,intron_variant,,ENST00000559218,;CLPX,intron_variant,,ENST00000559152,;CLPX,intron_variant,,ENST00000558958,;"	"T"	"ENSG00000166855"	"ENST00000300107"	"Transcript"	"intron_variant"	"-/4695"	"-/1902"	"-/633"	""	""	""	"1"	NA	-1	"CLPX"	"HGNC"	2088	"protein_coding"	"YES"	"CCDS10202.1"	"ENSP00000300107"	"O76031"	"H0YK07"	"UPI0000127B73"	"NM_006660.3"	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"75f702c8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"16203"	"RP11-798K3.3"	0	"mskcc.org"	"GRCh37"	"15"	67243658	67243658	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.179+5020C>A"	""	""	"ENST00000558436"	""	90	"67"	23	62	"62"	0	"RP11-798K3.3,intron_variant,,ENST00000558436,;"	"T"	"ENSG00000259289"	"ENST00000558436"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/709"	""	""	""	""	""	"1"	NA	-1	"RP11-798K3.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"75f731f8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255555555555556	"WGS"	FALSE
"16204"	"RP11-34F13.3"	0	"mskcc.org"	"GRCh37"	"15"	68147724	68147724	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.177-18311G>A"	""	""	"ENST00000560577"	""	38	"34"	4	32	"32"	0	"RP11-34F13.3,intron_variant,,ENST00000558889,;RP11-34F13.3,intron_variant,,ENST00000560577,;"	"A"	"ENSG00000259410"	"ENST00000560577"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/346"	""	""	""	""	""	"1"	NA	1	"RP11-34F13.3"	"Clone_based_vega_gene"	NA	"retained_intron"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75f74d3c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"16205"	"PAQR5"	54852	"mskcc.org"	"GRCh37"	"15"	69596329	69596329	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-277+4934C>T"	""	""	"ENST00000395407"	""	75	"54"	21	53	"52"	1	"PAQR5,intron_variant,,ENST00000395407,NM_017705.3;PAQR5,intron_variant,,ENST00000558684,;"	"T"	"ENSG00000137819"	"ENST00000395407"	"Transcript"	"intron_variant"	"-/5337"	"-/993"	"-/330"	""	""	""	"1"	NA	1	"PAQR5"	"HGNC"	29645	"protein_coding"	""	"CCDS10232.1"	"ENSP00000378803"	"Q9NXK6"	"H0YL06"	"UPI000013D0D0"	"NM_017705.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"75f77686-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"16206"	"PAQR5"	54852	"mskcc.org"	"GRCh37"	"15"	69600867	69600867	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-277+9472A>G"	""	""	"ENST00000395407"	""	75	"61"	14	51	"51"	0	"PAQR5,intron_variant,,ENST00000395407,NM_017705.3;PAQR5,intron_variant,,ENST00000558684,;"	"G"	"ENSG00000137819"	"ENST00000395407"	"Transcript"	"intron_variant"	"-/5337"	"-/993"	"-/330"	""	""	""	"1"	NA	1	"PAQR5"	"HGNC"	29645	"protein_coding"	""	"CCDS10232.1"	"ENSP00000378803"	"Q9NXK6"	"H0YL06"	"UPI000013D0D0"	"NM_017705.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"75f7773a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186666666666667	"WGS"	FALSE
"16207"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	70238599	70238599	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"75"	29	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"75f787a2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278846153846154	"WGS"	FALSE
"16208"	"TLE3"	7090	"mskcc.org"	"GRCh37"	"15"	70359028	70359028	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.373-471C>T"	""	""	"ENST00000558939"	""	93	"76"	17	68	"68"	0	"TLE3,intron_variant,,ENST00000558939,NM_001282979.1;TLE3,intron_variant,,ENST00000442299,;TLE3,intron_variant,,ENST00000317509,NM_005078.2,NM_001105192.1,NM_020908.1;TLE3,intron_variant,,ENST00000557997,;TLE3,intron_variant,,ENST00000560589,;TLE3,intron_variant,,ENST00000559929,;TLE3,intron_variant,,ENST00000560939,;TLE3,intron_variant,,ENST00000559048,;TLE3,intron_variant,,ENST00000558201,;TLE3,intron_variant,,ENST00000440567,NM_001282981.1;TLE3,intron_variant,,ENST00000539550,;TLE3,intron_variant,,ENST00000451782,;TLE3,intron_variant,,ENST00000558379,NM_001282980.1;TLE3,intron_variant,,ENST00000557907,;TLE3,intron_variant,,ENST00000559191,;TLE3,intron_variant,,ENST00000560996,;TLE3,intron_variant,,ENST00000557984,;TLE3,3_prime_UTR_variant,,ENST00000537387,;TLE3,intron_variant,,ENST00000557919,;TLE3,intron_variant,,ENST00000561453,;TLE3,intron_variant,,ENST00000560525,;"	"A"	"ENSG00000140332"	"ENST00000558939"	"Transcript"	"intron_variant"	"-/6004"	"-/2319"	"-/772"	""	""	""	"1"	NA	-1	"TLE3"	"HGNC"	11839	"protein_coding"	"YES"	"CCDS45293.1"	"ENSP00000452871"	"Q04726"	"H0YNT2"	"UPI000013703A"	"NM_001282979.1"	""	""	""	"6/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75f78aae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182795698924731	"WGS"	FALSE
"16209"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	73605007	73605007	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"55"	11	29	"29"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"75f7fdea-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"16210"	"SIN3A"	25942	"mskcc.org"	"GRCh37"	"15"	75705917	75705917	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.474-531A>G"	""	""	"ENST00000394947"	""	47	"42"	5	50	"50"	0	"SIN3A,intron_variant,,ENST00000394947,NM_001145358.1;SIN3A,intron_variant,,ENST00000360439,NM_001145357.1;SIN3A,intron_variant,,ENST00000394949,NM_015477.2;SIN3A,intron_variant,,ENST00000564778,;SIN3A,downstream_gene_variant,,ENST00000562776,;SIN3A,downstream_gene_variant,,ENST00000568431,;CTD-2562G15.2,upstream_gene_variant,,ENST00000569073,;"	"C"	"ENSG00000169375"	"ENST00000394947"	"Transcript"	"intron_variant"	"-/6737"	"-/3822"	"-/1273"	""	""	""	"1"	NA	-1	"SIN3A"	"HGNC"	19353	"protein_coding"	"YES"	"CCDS10279.1"	"ENSP00000378402"	"Q96ST3"	"H3BT34,H3BQ88,H3BQ76,H3BP90,H3BNZ3,H3BNA0"	"UPI000013EAD4"	"NM_001145358.1"	""	""	""	"4/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75f83b3e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106382978723404	"WGS"	FALSE
"16211"	"PEAK1"	79834	"mskcc.org"	"GRCh37"	"15"	77671271	77671271	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-337-13704C>T"	""	""	"ENST00000560626"	""	112	"104"	8	64	"64"	0	"PEAK1,intron_variant,,ENST00000560626,;PEAK1,intron_variant,,ENST00000558305,;PEAK1,intron_variant,,ENST00000564328,;PEAK1,intron_variant,,ENST00000567337,;PEAK1,intron_variant,,ENST00000569159,;PEAK1,intron_variant,,ENST00000567808,;"	"A"	"ENSG00000173517"	"ENST00000560626"	"Transcript"	"intron_variant"	"-/11715"	"-/5241"	"-/1746"	""	""	""	"1"	NA	-1	"PEAK1"	"HGNC"	29431	"protein_coding"	"YES"	"CCDS42062.1"	"ENSP00000452796"	"Q9H792"	"H3BUZ5,H3BUE6"	"UPI00002378D0"	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75f8732e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"16212"	"RP11-307C19.2"	0	"mskcc.org"	"GRCh37"	"15"	77866082	77866082	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.577+1001G>A"	""	""	"ENST00000561123"	""	86	"67"	19	63	"63"	0	"RP11-307C19.2,intron_variant,,ENST00000561123,;RP11-307C19.2,downstream_gene_variant,,ENST00000560590,;"	"A"	"ENSG00000259420"	"ENST00000561123"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/719"	""	""	""	""	""	"1"	NA	1	"RP11-307C19.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"75f87950-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22093023255814	"WGS"	FALSE
"16213"	"LINGO1"	84894	"mskcc.org"	"GRCh37"	"15"	77912879	77912879	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7-4637C>T"	""	""	"ENST00000355300"	""	85	"76"	9	72	"72"	0	"LINGO1,intron_variant,,ENST00000355300,NM_032808.5;LINGO1,intron_variant,,ENST00000561030,;LINGO1,intron_variant,,ENST00000557798,;LINGO1,intron_variant,,ENST00000561686,;LINGO1,intron_variant,,ENST00000566711,;LINGO1,intron_variant,,ENST00000567726,;LINGO1,intron_variant,,ENST00000570216,;LINGO1,intron_variant,,ENST00000562933,;LINGO1,intron_variant,,ENST00000563316,;LINGO1,intron_variant,,ENST00000559893,;LINGO1,intron_variant,,ENST00000564472,;"	"A"	"ENSG00000169783"	"ENST00000355300"	"Transcript"	"intron_variant"	"-/3055"	"-/1863"	"-/620"	""	""	""	"1"	NA	-1	"LINGO1"	"HGNC"	21205	"protein_coding"	"YES"	"CCDS45313.1"	"ENSP00000347451"	"Q96FE5"	"H3BQ49,H3BN48,H3BMW2,H3BMN3,H3BM59,H0YNK7"	"UPI00000377A0"	"NM_032808.5"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75f87bb2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105882352941176	"WGS"	FALSE
"16214"	"LINGO1"	84894	"mskcc.org"	"GRCh37"	"15"	77967877	77967877	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-13+1554A>G"	""	""	"ENST00000561030"	""	98	"80"	18	62	"62"	0	"LINGO1,intron_variant,,ENST00000561030,;LINGO1,intron_variant,,ENST00000561686,;LINGO1,intron_variant,,ENST00000566711,;LINGO1,intron_variant,,ENST00000567726,;LINGO1,intron_variant,,ENST00000570216,;LINGO1,intron_variant,,ENST00000562933,;LINGO1,intron_variant,,ENST00000563316,;LINGO1,intron_variant,,ENST00000559893,;LINGO1,intron_variant,,ENST00000564472,;LINGO1,downstream_gene_variant,,ENST00000567605,;LINGO1,downstream_gene_variant,,ENST00000564066,;LINGO1,downstream_gene_variant,,ENST00000568951,;"	"C"	"ENSG00000169783"	"ENST00000561030"	"Transcript"	"intron_variant"	"-/2677"	"-/1845"	"-/614"	""	""	""	"1"	NA	-1	"LINGO1"	"HGNC"	21205	"protein_coding"	""	""	"ENSP00000453853"	"Q96FE5"	"H3BQ49,H3BN48,H3BMW2,H3BMN3,H3BM59,H0YNK7"	"UPI000004C7CE"	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"75f87e0a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.183673469387755	"WGS"	FALSE
"16215"	"FAM154B"	283726	"mskcc.org"	"GRCh37"	"15"	82556325	82556325	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.53+1052A>G"	""	""	"ENST00000339465"	""	125	"108"	17	64	"64"	0	"FAM154B,intron_variant,,ENST00000339465,NM_001008226.1;FAM154B,intron_variant,,ENST00000427381,;FAM154B,intron_variant,,ENST00000565432,;FAM154B,intron_variant,,ENST00000569120,;FAM154B,intron_variant,,ENST00000566861,;FAM154B,intron_variant,,ENST00000566205,;EFTUD1,upstream_gene_variant,,ENST00000268206,NM_024580.5;EFTUD1,upstream_gene_variant,,ENST00000359445,NM_001040610.2;EFTUD1,upstream_gene_variant,,ENST00000558974,;EFTUD1,upstream_gene_variant,,ENST00000557844,;FAM154B,intron_variant,,ENST00000565501,;FAM154B,intron_variant,,ENST00000562097,;FAM154B,intron_variant,,ENST00000565006,;EFTUD1,upstream_gene_variant,,ENST00000561389,;"	"G"	"ENSG00000188659"	"ENST00000339465"	"Transcript"	"intron_variant"	"-/3134"	"-/1197"	"-/398"	""	""	""	"1"	NA	1	"FAM154B"	"HGNC"	33727	"protein_coding"	"YES"	"CCDS32310.1"	"ENSP00000340445"	"Q658L1"	""	"UPI00001D779A"	"NM_001008226.1"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"75f90816-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136	"WGS"	FALSE
"16216"	"CPEB1"	64506	"mskcc.org"	"GRCh37"	"15"	83253288	83253288	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.191-13006C>T"	""	""	"ENST00000568128"	""	64	"50"	14	51	"51"	0	"CPEB1,intron_variant,,ENST00000563800,;CPEB1,intron_variant,,ENST00000450751,NM_001288819.1;CPEB1,intron_variant,,ENST00000562019,;CPEB1,intron_variant,,ENST00000568757,;CPEB1,intron_variant,,ENST00000568128,NM_030594.3;CPEB1,intron_variant,,ENST00000567678,;CPEB1,intron_variant,,ENST00000569257,;"	"A"	"ENSG00000214575"	"ENST00000568128"	"Transcript"	"intron_variant"	"-/2112"	"-/1686"	"-/561"	""	""	""	"1"	NA	-1	"CPEB1"	"HGNC"	21744	"protein_coding"	"YES"	"CCDS45329.1"	"ENSP00000457881"	"Q9BZB8"	"H3BPD6,H3BNX1,G8JLI7"	"UPI000018CEBD"	"NM_030594.3"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"75f90e6a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WGS"	FALSE
"16217"	"ADAMTSL3"	57188	"mskcc.org"	"GRCh37"	"15"	84445195	84445195	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.317+2793C>T"	""	""	"ENST00000286744"	""	74	"53"	21	53	"53"	0	"ADAMTSL3,intron_variant,,ENST00000286744,NM_207517.2;ADAMTSL3,intron_variant,,ENST00000567476,;ADAMTSL3,intron_variant,,ENST00000565653,;ADAMTSL3,intron_variant,,ENST00000561483,;ADAMTSL3,intron_variant,,ENST00000569510,;"	"T"	"ENSG00000156218"	"ENST00000286744"	"Transcript"	"intron_variant"	"-/7336"	"-/5076"	"-/1691"	""	""	""	"1"	NA	1	"ADAMTSL3"	"HGNC"	14633	"protein_coding"	"YES"	"CCDS10326.1"	"ENSP00000286744"	"P82987"	""	"UPI00001615A5"	"NM_207517.2"	""	""	""	"4/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"75f92ecc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283783783783784	"WGS"	FALSE
"16218"	"SEC11A"	23478	"mskcc.org"	"GRCh37"	"15"	85254226	85254226	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.51+5030C>T"	""	""	"ENST00000268220"	""	58	"48"	10	37	"37"	0	"SEC11A,intron_variant,,ENST00000268220,NM_014300.3;SEC11A,intron_variant,,ENST00000455959,NM_001271918.1;SEC11A,intron_variant,,ENST00000560266,NM_001271920.1;SEC11A,intron_variant,,ENST00000558134,NM_001271922.1;SEC11A,intron_variant,,ENST00000558217,NM_001271919.1;SEC11A,intron_variant,,ENST00000558196,;SEC11A,intron_variant,,ENST00000559729,;SEC11A,intron_variant,,ENST00000560409,;"	"A"	"ENSG00000140612"	"ENST00000268220"	"Transcript"	"intron_variant"	"-/1656"	"-/540"	"-/179"	""	""	""	"1"	NA	-1	"SEC11A"	"HGNC"	17718	"protein_coding"	"YES"	"CCDS45340.1"	"ENSP00000268220"	"P67812"	"H0YNX5,B4DUL4"	"UPI0000049B6F"	"NM_014300.3"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"75f94ec0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WGS"	FALSE
"16219"	"ACAN"	176	"mskcc.org"	"GRCh37"	"15"	89387178	89387178	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1051+299C>T"	""	""	"ENST00000439576"	""	89	"83"	6	45	"45"	0	"ACAN,intron_variant,,ENST00000439576,NM_013227.3;ACAN,intron_variant,,ENST00000559004,;ACAN,intron_variant,,ENST00000561243,;ACAN,intron_variant,,ENST00000352105,NM_001135.3;ACAN,intron_variant,,ENST00000558207,;"	"T"	"ENSG00000157766"	"ENST00000439576"	"Transcript"	"intron_variant"	"-/8840"	"-/7593"	"-/2530"	""	""	""	"1"	NA	1	"ACAN"	"HGNC"	319	"protein_coding"	"YES"	"CCDS53970.1"	"ENSP00000387356"	""	"Q6LE94,E7EX88"	"UPI0001B23381"	"NM_013227.3"	""	""	""	"6/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"75f9c332-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0674157303370786	"WGS"	FALSE
"16220"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	92236899	92236899	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"85"	23	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"75fa2462-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212962962962963	"WGS"	FALSE
"16221"	"CTD-2643K12.3"	101927112	"mskcc.org"	"GRCh37"	"15"	94624655	94624655	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1141+849C>T"	""	""	"ENST00000558874"	""	98	"75"	23	73	"72"	1	"CTD-2643K12.3,intron_variant,,ENST00000558874,;CTD-2643K12.3,downstream_gene_variant,,ENST00000556357,;AC080032.1,upstream_gene_variant,,ENST00000390733,;"	"A"	"ENSG00000259724"	"ENST00000558874"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3173"	""	""	""	""	""	"1"	NA	-1	"CTD-2643K12.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"75fa6fee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23469387755102	"WGS"	FALSE
"16222"	"ENSR00001455375"	0	"mskcc.org"	"GRCh37"	"15"	95808501	95808501	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001455375"	""	112	"93"	19	61	"61"	0	""	"T"	""	"ENSR00001455375"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"75fa93de-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.169642857142857	"WGS"	FALSE
"16223"	"NR2F2-AS1"	644192	"mskcc.org"	"GRCh37"	"15"	96674787	96674787	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.504+264G>T"	""	""	"ENST00000560800"	""	100	"85"	15	69	"69"	0	"NR2F2-AS1,intron_variant,,ENST00000560800,;"	"A"	"ENSG00000247809"	"ENST00000560800"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/549"	""	""	""	""	""	"1"	NA	-1	"NR2F2-AS1"	"HGNC"	44222	"antisense"	""	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"75faa8b0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WGS"	FALSE
"16224"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	97472730	97472730	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"82"	27	68	"68"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"75fac2e6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247706422018349	"WGS"	FALSE
"16225"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	97797728	97797728	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"80"	19	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"75facbe2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191919191919192	"WGS"	FALSE
"16226"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	98167185	98167185	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"80"	12	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"75fad556-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"16227"	"RP11-168G16.2"	0	"mskcc.org"	"GRCh37"	"15"	100914355	100914355	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.54+1158C>T"	""	""	"ENST00000560718"	""	31	"25"	6	19	"19"	0	"RP11-168G16.2,intron_variant,,ENST00000560718,;"	"T"	"ENSG00000259430"	"ENST00000560718"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/432"	""	""	""	""	""	"1"	NA	1	"RP11-168G16.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"75fb0e9a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193548387096774	"WGS"	FALSE
"16228"	"DNM1P47"	0	"mskcc.org"	"GRCh37"	"15"	102303308	102303308	"+"	"RNA"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.11354T>C"	""	""	"ENST00000561463"	"2/4"	21	"17"	4	16	"16"	0	"DNM1P47,non_coding_transcript_exon_variant,,ENST00000561463,;DNM1P47,non_coding_transcript_exon_variant,,ENST00000571780,;"	"C"	"ENSG00000259660"	"ENST00000561463"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"11354/15043"	""	""	""	""	""	"1"	NA	1	"DNM1P47"	"HGNC"	35200	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"75fb6426-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"16229"	"ENSR00001662566"	0	"mskcc.org"	"GRCh37"	"16"	1080906	1080906	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001662566"	""	62	"50"	12	62	"62"	0	""	"A"	""	"ENSR00001662566"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75fc37de-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193548387096774	"WGS"	FALSE
"16230"	"C16orf91"	283951	"mskcc.org"	"GRCh37"	"16"	1471627	1471627	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.504-1014T>C"	""	""	"ENST00000310355"	""	39	"33"	6	46	"46"	0	"C16orf91,intron_variant,,ENST00000310355,;C16orf91,upstream_gene_variant,,ENST00000563974,;C16orf91,upstream_gene_variant,,ENST00000442039,NM_001272051.1;"	"G"	"ENSG00000174109"	"ENST00000310355"	"Transcript"	"intron_variant"	"-/1071"	"-/1071"	"-/356"	""	""	""	"1"	NA	-1	"C16orf91"	"HGNC"	27558	"protein_coding"	"YES"	""	"ENSP00000311390"	"Q4G0I0"	""	"UPI000006E51C"	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"75fc69e8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"16231"	"C16orf91"	283951	"mskcc.org"	"GRCh37"	"16"	1471632	1471632	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.504-1019T>C"	""	""	"ENST00000310355"	""	38	"32"	6	44	"44"	0	"C16orf91,intron_variant,,ENST00000310355,;C16orf91,upstream_gene_variant,,ENST00000563974,;C16orf91,upstream_gene_variant,,ENST00000442039,NM_001272051.1;"	"G"	"ENSG00000174109"	"ENST00000310355"	"Transcript"	"intron_variant"	"-/1071"	"-/1071"	"-/356"	""	""	""	"1"	NA	-1	"C16orf91"	"HGNC"	27558	"protein_coding"	"YES"	""	"ENSP00000311390"	"Q4G0I0"	""	"UPI000006E51C"	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"75fc6a42-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"16232"	"MEFV"	4210	"mskcc.org"	"GRCh37"	"16"	3306163	3306163	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.277+148G>A"	""	""	"ENST00000219596"	""	56	"46"	10	64	"64"	0	"MEFV,intron_variant,,ENST00000219596,NM_000243.2;MEFV,intron_variant,,ENST00000339854,;MEFV,intron_variant,,ENST00000541159,NM_001198536.1;MEFV,intron_variant,,ENST00000536379,;MEFV,intron_variant,,ENST00000542898,;MEFV,intron_variant,,ENST00000537682,;MEFV,intron_variant,,ENST00000538326,;MEFV,intron_variant,,ENST00000536980,;MEFV,intron_variant,,ENST00000570511,;MEFV,intron_variant,,ENST00000539145,;MEFV,intron_variant,,ENST00000576315,;MEFV,intron_variant,,ENST00000574583,;MEFV,intron_variant,,ENST00000572244,;"	"T"	"ENSG00000103313"	"ENST00000219596"	"Transcript"	"intron_variant"	"-/3499"	"-/2346"	"-/781"	""	""	""	"1"	NA	-1	"MEFV"	"HGNC"	6998	"protein_coding"	"YES"	"CCDS10498.1"	"ENSP00000219596"	"O15553"	""	"UPI000004C0CA"	"NM_000243.2"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACG"	"75fcbe5c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"16233"	"SLX4"	84464	"mskcc.org"	"GRCh37"	"16"	3656169	3656169	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.760+306A>C"	""	""	"ENST00000294008"	""	45	"38"	7	31	"31"	0	"SLX4,intron_variant,,ENST00000294008,NM_032444.2;SLX4,intron_variant,,ENST00000466154,;SLX4,intron_variant,,ENST00000486524,;"	"G"	"ENSG00000188827"	"ENST00000294008"	"Transcript"	"intron_variant"	"-/7307"	"-/5505"	"-/1834"	""	""	""	"1"	NA	-1	"SLX4"	"HGNC"	23845	"protein_coding"	"YES"	"CCDS10506.2"	"ENSP00000294008"	"Q8IY92"	""	"UPI000050D2C5"	"NM_032444.2"	""	""	""	"3/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"75fcc910-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155555555555556	"WGS"	FALSE
"16234"	"ROGDI"	79641	"mskcc.org"	"GRCh37"	"16"	4846610	4846610	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000322048"	""	48	"35"	13	44	"44"	0	"ROGDI,downstream_gene_variant,,ENST00000322048,NM_024589.2;SMIM22,downstream_gene_variant,,ENST00000589721,NM_001253790.1;ROGDI,downstream_gene_variant,,ENST00000591392,;ROGDI,downstream_gene_variant,,ENST00000586504,;SMIM22,downstream_gene_variant,,ENST00000589327,NM_001253791.1;ROGDI,downstream_gene_variant,,ENST00000587711,;SMIM22,downstream_gene_variant,,ENST00000586440,NM_001253794.1;SMIM22,downstream_gene_variant,,ENST00000588500,;ROGDI,downstream_gene_variant,,ENST00000586153,;SMIM22,downstream_gene_variant,,ENST00000588606,NM_001253793.1;ROGDI,downstream_gene_variant,,ENST00000592019,;SMIM22,downstream_gene_variant,,ENST00000586005,;SMIM22,downstream_gene_variant,,ENST00000591870,;RP11-127I20.5,upstream_gene_variant,,ENST00000592465,;ROGDI,downstream_gene_variant,,ENST00000586336,;ROGDI,downstream_gene_variant,,ENST00000591292,;ROGDI,downstream_gene_variant,,ENST00000588201,;ROGDI,downstream_gene_variant,,ENST00000587377,;ROGDI,downstream_gene_variant,,ENST00000587843,;ROGDI,downstream_gene_variant,,ENST00000585871,;SMIM22,downstream_gene_variant,,ENST00000591004,;ROGDI,downstream_gene_variant,,ENST00000585653,;ROGDI,downstream_gene_variant,,ENST00000589543,;SMIM22,downstream_gene_variant,,ENST00000588894,;ROGDI,downstream_gene_variant,,ENST00000590198,;"	"A"	"ENSG00000067836"	"ENST00000322048"	"Transcript"	"downstream_gene_variant"	"-/1735"	"-/864"	"-/287"	""	""	""	"1"	"359"	-1	"ROGDI"	"HGNC"	29478	"protein_coding"	"YES"	"CCDS10523.1"	"ENSP00000322832"	"Q9GZN7"	"D3DUE5"	"UPI0000037B8E"	"NM_024589.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"75fce94a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270833333333333	"WGS"	FALSE
"16235"	"RP11-420N3.2"	0	"mskcc.org"	"GRCh37"	"16"	5703514	5703514	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs367792341"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.403+54552C>T"	""	""	"ENST00000569895"	""	80	"74"	6	46	"46"	0	"RP11-420N3.2,intron_variant,,ENST00000569895,;"	"T"	"ENSG00000260411"	"ENST00000569895"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/829"	""	""	""	""	"rs367792341"	"1"	NA	1	"RP11-420N3.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"75fd0cb8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"16236"	"RP11-420N3.2"	0	"mskcc.org"	"GRCh37"	"16"	5740730	5740730	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.403+91768G>A"	""	""	"ENST00000569895"	""	118	"93"	25	75	"75"	0	"RP11-420N3.2,intron_variant,,ENST00000569895,;"	"A"	"ENSG00000260411"	"ENST00000569895"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/829"	""	""	""	""	""	"1"	NA	1	"RP11-420N3.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"75fd0e5c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211864406779661	"WGS"	FALSE
"16237"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	7190082	7190082	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.156+87983G>A"	""	""	"ENST00000547372"	""	70	"52"	18	55	"55"	0	"RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RBFOX1,intron_variant,,ENST00000535565,;RBFOX1,intron_variant,,ENST00000547338,NM_001142334.1;RBFOX1,intron_variant,,ENST00000552089,;RBFOX1,intron_variant,,ENST00000551752,;RBFOX1,intron_variant,,ENST00000547427,;"	"A"	"ENSG00000078328"	"ENST00000547372"	"Transcript"	"intron_variant"	"-/3524"	"-/1401"	"-/466"	""	""	""	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	""	""	"ENSP00000446842"	""	"Q8TCM0,Q59HD3,F8VZY7,F8VZG9"	"UPI00020CDFAB"	""	""	""	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"75fd4a7a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257142857142857	"WGS"	FALSE
"16238"	"RBFOX1"	54715	"mskcc.org"	"GRCh37"	"16"	7575295	7575295	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.330+6904G>T"	""	""	"ENST00000311745"	""	103	"79"	24	54	"54"	0	"RBFOX1,intron_variant,,ENST00000340209,;RBFOX1,intron_variant,,ENST00000547372,;RBFOX1,intron_variant,,ENST00000355637,NM_145893.2;RBFOX1,intron_variant,,ENST00000311745,NM_145891.2,NM_145892.2;RBFOX1,intron_variant,,ENST00000550418,NM_018723.3;RBFOX1,intron_variant,,ENST00000553186,NM_001142333.1;RBFOX1,intron_variant,,ENST00000547605,;RBFOX1,intron_variant,,ENST00000422070,;RBFOX1,intron_variant,,ENST00000535565,;RBFOX1,intron_variant,,ENST00000436368,;RBFOX1,intron_variant,,ENST00000547338,NM_001142334.1;RBFOX1,intron_variant,,ENST00000552089,;RBFOX1,intron_variant,,ENST00000551752,;RBFOX1,intron_variant,,ENST00000570626,;RBFOX1,intron_variant,,ENST00000569889,;"	"T"	"ENSG00000078328"	"ENST00000311745"	"Transcript"	"intron_variant"	"-/3268"	"-/1257"	"-/418"	""	""	""	"1"	NA	1	"RBFOX1"	"HGNC"	18222	"protein_coding"	"YES"	"CCDS10531.1"	"ENSP00000309117"	"Q9NWB1"	""	"UPI000006E29E"	"NM_145891.2,NM_145892.2"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"75fd5b32-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233009708737864	"WGS"	FALSE
"16239"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	8268945	8268945	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"67"	24	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"75fd7018-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263736263736264	"WGS"	FALSE
"16240"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	9089356	9089356	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	31	"27"	4	33	"33"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"75fd9598-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"16241"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	9089357	9089357	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	32	"28"	4	33	"33"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"75fd95f2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"16242"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	9356576	9356576	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"88"	8	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"75fda010-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"16243"	"GRIN2A"	2903	"mskcc.org"	"GRCh37"	"16"	10008098	10008098	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1008-23141G>A"	""	""	"ENST00000330684"	""	114	"86"	28	67	"67"	0	"GRIN2A,intron_variant,,ENST00000396573,NM_000833.3;GRIN2A,intron_variant,,ENST00000330684,NM_001134407.1;GRIN2A,intron_variant,,ENST00000404927,NM_001134408.1;GRIN2A,intron_variant,,ENST00000562109,;GRIN2A,intron_variant,,ENST00000396575,;GRIN2A,intron_variant,,ENST00000535259,;GRIN2A,intron_variant,,ENST00000566683,;"	"T"	"ENSG00000183454"	"ENST00000330684"	"Transcript"	"intron_variant"	"-/5031"	"-/4395"	"-/1464"	""	""	""	"1"	NA	-1	"GRIN2A"	"HGNC"	4585	"protein_coding"	""	"CCDS10539.1"	"ENSP00000332549"	"Q12879"	"Q547U9"	"UPI000000D7AB"	"NM_001134407.1"	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"75fdbbb8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245614035087719	"WGS"	TRUE
"16244"	"ATF7IP2"	80063	"mskcc.org"	"GRCh37"	"16"	10508818	10508818	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-159-13907A>T"	""	""	"ENST00000396560"	""	68	"57"	11	52	"52"	0	"ATF7IP2,intron_variant,,ENST00000396560,NM_024997.3;ATF7IP2,intron_variant,,ENST00000396559,NM_001256160.1;ATF7IP2,intron_variant,,ENST00000543967,;ATF7IP2,intron_variant,,ENST00000562527,;ATF7IP2,intron_variant,,ENST00000569939,;ATF7IP2,intron_variant,,ENST00000569900,;ATF7IP2,intron_variant,,ENST00000562102,;ATF7IP2,intron_variant,,ENST00000561932,;ATF7IP2,intron_variant,,ENST00000564797,;ATF7IP2,intron_variant,,ENST00000535850,;"	"T"	"ENSG00000166669"	"ENST00000396560"	"Transcript"	"intron_variant"	"-/3665"	"-/2049"	"-/682"	""	""	""	"1"	NA	1	"ATF7IP2"	"HGNC"	20397	"protein_coding"	"YES"	"CCDS10540.1"	"ENSP00000379808"	"Q5U623"	"H3BUP1,H3BR07,H3BPC9,H3BNE6,B4DKH3"	"UPI00001FEDD8"	"NM_024997.3"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"75fdc9be-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161764705882353	"WGS"	FALSE
"16245"	"RMI2"	116028	"mskcc.org"	"GRCh37"	"16"	11438774	11438774	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000312499"	""	43	"39"	4	55	"55"	0	"RMI2,intron_variant,,ENST00000572173,;RMI2,intron_variant,,ENST00000381820,;RMI2,upstream_gene_variant,,ENST00000312499,NM_152308.1;RMI2,upstream_gene_variant,,ENST00000576027,;AC009121.1,upstream_gene_variant,,ENST00000458885,;RP11-485G7.5,intron_variant,,ENST00000572913,;RP11-485G7.5,intron_variant,,ENST00000572706,;RP11-485G7.6,downstream_gene_variant,,ENST00000574681,;"	"G"	"ENSG00000175643"	"ENST00000312499"	"Transcript"	"upstream_gene_variant"	"-/1457"	"-/444"	"-/147"	""	""	""	"1"	"514"	1	"RMI2"	"HGNC"	28349	"protein_coding"	"YES"	"CCDS10548.1"	"ENSP00000310356"	"Q96E14"	""	"UPI000006EA0A"	"NM_152308.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"75fde7f0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	TRUE
"16246"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	11752194	11752194	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"33"	16	34	"34"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"75fdee4e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.326530612244898	"WGS"	FALSE
"16247"	"RP11-166B2.1"	0	"mskcc.org"	"GRCh37"	"16"	12026837	12026837	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.488+537C>G"	""	""	"ENST00000399147"	""	43	"31"	12	40	"40"	0	"RP11-166B2.1,intron_variant,,ENST00000399147,;RP11-166B2.1,intron_variant,,ENST00000547494,;RP11-166B2.1,intron_variant,,ENST00000538896,;RP11-166B2.1,downstream_gene_variant,,ENST00000532936,;RP11-166B2.1,upstream_gene_variant,,ENST00000356023,;RP11-166B2.1,upstream_gene_variant,,ENST00000540412,;"	"C"	"ENSG00000234719"	"ENST00000399147"	"Transcript"	"intron_variant"	"-/1194"	"-/1194"	"-/397"	""	""	""	"1"	NA	-1	"RP11-166B2.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000382101"	"A6NJ64"	"F5H898"	"UPI000204A8FF"	""	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"75fdf51a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27906976744186	"WGS"	FALSE
"16248"	"CPPED1"	55313	"mskcc.org"	"GRCh37"	"16"	12791079	12791079	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.715+7402A>T"	""	""	"ENST00000381774"	""	73	"69"	4	44	"44"	0	"CPPED1,intron_variant,,ENST00000381774,NM_018340.2;CPPED1,intron_variant,,ENST00000433677,NM_001099455.1;CPPED1,intron_variant,,ENST00000261660,;"	"A"	"ENSG00000103381"	"ENST00000381774"	"Transcript"	"intron_variant"	"-/3010"	"-/945"	"-/314"	""	""	""	"1"	NA	-1	"CPPED1"	"HGNC"	25632	"protein_coding"	"YES"	"CCDS42120.1"	"ENSP00000371193"	"Q9BRF8"	""	"UPI000013D1D1"	"NM_018340.2"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"75fe164e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0547945205479452	"WGS"	FALSE
"16249"	"AC092287.1"	0	"mskcc.org"	"GRCh37"	"16"	18946346	18946346	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000580939"	""	32	"29"	3	26	"26"	0	"AC092287.1,upstream_gene_variant,,ENST00000580939,;CTD-2288F12.1,intron_variant,,ENST00000565782,;"	"T"	"ENSG00000265515"	"ENST00000580939"	"Transcript"	"upstream_gene_variant"	"-/87"	""	""	""	""	""	"1"	"4742"	-1	"AC092287.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"75feef88-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"16250"	"DCUN1D3"	123879	"mskcc.org"	"GRCh37"	"16"	20910863	20910863	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-106+663T>G"	""	""	"ENST00000324344"	""	80	"67"	13	59	"59"	0	"DCUN1D3,intron_variant,,ENST00000324344,NM_173475.2;ERI2,intron_variant,,ENST00000564349,;LYRM1,upstream_gene_variant,,ENST00000396052,;LYRM1,upstream_gene_variant,,ENST00000219168,NM_001128301.1;LYRM1,upstream_gene_variant,,ENST00000439021,NM_020424.3;LYRM1,upstream_gene_variant,,ENST00000412082,;LYRM1,upstream_gene_variant,,ENST00000562740,;LYRM1,upstream_gene_variant,,ENST00000568663,;LYRM1,upstream_gene_variant,,ENST00000569023,;LYRM1,upstream_gene_variant,,ENST00000567954,;LYRM1,upstream_gene_variant,,ENST00000564457,;LYRM1,upstream_gene_variant,,ENST00000568820,;LYRM1,upstream_gene_variant,,ENST00000567165,;"	"C"	"ENSG00000188215"	"ENST00000324344"	"Transcript"	"intron_variant"	"-/6162"	"-/915"	"-/304"	""	""	""	"1"	NA	-1	"DCUN1D3"	"HGNC"	28734	"protein_coding"	"YES"	"CCDS10592.1"	"ENSP00000319482"	"Q8IWE4"	""	"UPI000005032C"	"NM_173475.2"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"75ff1d3c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1625	"WGS"	FALSE
"16251"	"USP31"	57478	"mskcc.org"	"GRCh37"	"16"	23104312	23104312	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1235-2187C>T"	""	""	"ENST00000219689"	""	125	"110"	15	51	"51"	0	"USP31,intron_variant,,ENST00000219689,NM_020718.3;"	"A"	"ENSG00000103404"	"ENST00000219689"	"Transcript"	"intron_variant"	"-/10699"	"-/4059"	"-/1352"	""	""	""	"1"	NA	-1	"USP31"	"HGNC"	20060	"protein_coding"	"YES"	"CCDS10607.1"	"ENSP00000219689"	"Q70CQ4"	""	"UPI0000366B06"	"NM_020718.3"	""	""	""	"6/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"75ff6508-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"16252"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	23736966	23736966	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	29	"21"	8	26	"25"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"75ff7976-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275862068965517	"WGS"	FALSE
"16253"	"LCMT1"	51451	"mskcc.org"	"GRCh37"	"16"	25153878	25153878	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.404+2310T>A"	""	""	"ENST00000399069"	""	80	"66"	14	52	"52"	0	"LCMT1,intron_variant,,ENST00000399069,NM_016309.2;LCMT1,intron_variant,,ENST00000380966,NM_001032391.1;LCMT1,downstream_gene_variant,,ENST00000570981,;RP11-266L9.2,non_coding_transcript_exon_variant,,ENST00000565214,;RP11-266L9.2,intron_variant,,ENST00000562280,;LCMT1,intron_variant,,ENST00000577157,;LCMT1,intron_variant,,ENST00000380962,;LCMT1,intron_variant,,ENST00000564011,;LCMT1,intron_variant,,ENST00000576625,;LCMT1,intron_variant,,ENST00000576382,;"	"A"	"ENSG00000205629"	"ENST00000399069"	"Transcript"	"intron_variant"	"-/1368"	"-/1005"	"-/334"	""	""	""	"1"	NA	1	"LCMT1"	"HGNC"	17557	"protein_coding"	"YES"	"CCDS45445.1"	"ENSP00000382021"	"Q9UIC8"	"I3L2Q8"	"UPI0000000C29"	"NM_016309.2"	""	""	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"75ffa3b0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175	"WGS"	FALSE
"16254"	"IL21R"	50615	"mskcc.org"	"GRCh37"	"16"	27439918	27439918	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-16-1459G>A"	""	""	"ENST00000337929"	""	68	"48"	20	69	"69"	0	"IL21R,intron_variant,,ENST00000337929,NM_181078.2;IL21R,intron_variant,,ENST00000395755,;IL21R,intron_variant,,ENST00000564089,NM_181079.4;IL21R,intron_variant,,ENST00000395754,NM_021798.3;"	"A"	"ENSG00000103522"	"ENST00000337929"	"Transcript"	"intron_variant"	"-/3365"	"-/1617"	"-/538"	""	""	""	"1"	NA	1	"IL21R"	"HGNC"	6006	"protein_coding"	"YES"	"CCDS10630.1"	"ENSP00000338010"	"Q9HBE5"	""	"UPI0000043CF0"	"NM_181078.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"75fff252-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	TRUE
"16255"	"RP11-426C22.5"	0	"mskcc.org"	"GRCh37"	"16"	29213626	29213626	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.201-15176C>T"	""	""	"ENST00000562902"	""	76	"59"	17	68	"68"	0	"RP11-426C22.5,intron_variant,,ENST00000562902,;RP11-426C22.5,intron_variant,,ENST00000563477,;"	"T"	"ENSG00000260517"	"ENST00000562902"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/580"	""	""	""	""	""	"1"	NA	1	"RP11-426C22.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"7600286c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223684210526316	"WGS"	FALSE
"16256"	"ALDOA"	226	"mskcc.org"	"GRCh37"	"16"	30085836	30085836	"+"	"3'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000395248"	""	32	"23"	9	34	"34"	0	"ALDOA,downstream_gene_variant,,ENST00000566897,;ALDOA,downstream_gene_variant,,ENST00000395248,;ALDOA,downstream_gene_variant,,ENST00000338110,NM_000034.3;ALDOA,downstream_gene_variant,,ENST00000564546,;ALDOA,downstream_gene_variant,,ENST00000564595,NM_001243177.1;ALDOA,downstream_gene_variant,,ENST00000412304,NM_001127617.2;ALDOA,downstream_gene_variant,,ENST00000563060,NM_184043.2;ALDOA,downstream_gene_variant,,ENST00000569798,;ALDOA,downstream_gene_variant,,ENST00000395240,NM_184041.2;PPP4C,upstream_gene_variant,,ENST00000279387,NM_002720.1;ALDOA,downstream_gene_variant,,ENST00000569545,;PPP4C,upstream_gene_variant,,ENST00000561610,;PPP4C,upstream_gene_variant,,ENST00000562664,;ALDOA,downstream_gene_variant,,ENST00000562679,;PPP4C,upstream_gene_variant,,ENST00000562222,;ALDOA,downstream_gene_variant,,ENST00000564688,;ALDOA,downstream_gene_variant,,ENST00000565355,;ALDOA,downstream_gene_variant,,ENST00000564521,;PPP4C,upstream_gene_variant,,ENST00000566749,;PPP4C,upstream_gene_variant,,ENST00000563200,;PPP4C,upstream_gene_variant,,ENST00000564966,;PPP4C,upstream_gene_variant,,ENST00000568810,;PPP4C,upstream_gene_variant,,ENST00000567040,;PPP4C,upstream_gene_variant,,ENST00000563732,;PPP4C,upstream_gene_variant,,ENST00000563597,;ALDOA,downstream_gene_variant,,ENST00000566130,;PPP4C,upstream_gene_variant,,ENST00000567828,;PPP4C,upstream_gene_variant,,ENST00000567642,;ALDOA,downstream_gene_variant,,ENST00000566146,;"	"C"	"ENSG00000149925"	"ENST00000395248"	"Transcript"	"downstream_gene_variant"	"-/2447"	"-/1257"	"-/418"	""	""	""	"1"	"4095"	1	"ALDOA"	"HGNC"	414	"protein_coding"	"YES"	"CCDS58450.1"	"ENSP00000378669"	"P04075"	"H3BUH7,H3BPS8,A4UCS9"	"UPI0000E59D76"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"76004bf8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28125	"WGS"	FALSE
"16257"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	31642281	31642281	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"62"	4	38	"38"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"760078ee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"16258"	"RP11-56L13.1"	100507221	"mskcc.org"	"GRCh37"	"16"	32276827	32276827	"+"	"RNA"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.9A>G"	""	""	"ENST00000566232"	"1/2"	186	"162"	24	87	"87"	0	"RP11-56L13.1,non_coding_transcript_exon_variant,,ENST00000566232,;RP11-56L13.1,upstream_gene_variant,,ENST00000568730,;"	"C"	"ENSG00000260402"	"ENST00000566232"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"9/2484"	""	""	""	""	""	"1"	NA	-1	"RP11-56L13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7600def6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"16259"	"RP11-42I10.1"	0	"mskcc.org"	"GRCh37"	"16"	48696422	48696422	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.158-9389A>C"	""	""	"ENST00000564212"	""	60	"55"	5	51	"51"	0	"RP11-42I10.1,intron_variant,,ENST00000564212,;RP11-42I10.1,intron_variant,,ENST00000565072,;RP11-42I10.1,intron_variant,,ENST00000568150,;snoU13,upstream_gene_variant,,ENST00000458973,;"	"C"	"ENSG00000260086"	"ENST00000564212"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/854"	""	""	""	""	""	"1"	NA	1	"RP11-42I10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"76038e26-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"16260"	"KLF8P1"	0	"mskcc.org"	"GRCh37"	"16"	48747780	48747780	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000566880"	""	63	"57"	6	55	"55"	0	"RP11-42I10.1,intron_variant,,ENST00000568150,;KLF8P1,upstream_gene_variant,,ENST00000566880,;"	"C"	"ENSG00000260726"	"ENST00000566880"	"Transcript"	"upstream_gene_variant"	"-/1061"	""	""	""	""	""	"1"	"4214"	1	"KLF8P1"	"HGNC"	41520	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"76038f2a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"16261"	"SALL1"	6299	"mskcc.org"	"GRCh37"	"16"	51187096	51187096	"+"	"5'Flank"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000251020"	""	91	"69"	22	56	"56"	0	"SALL1,upstream_gene_variant,,ENST00000440970,NM_001127892.1;SALL1,upstream_gene_variant,,ENST00000251020,NM_002968.2;SALL1,upstream_gene_variant,,ENST00000570206,;SALL1,upstream_gene_variant,,ENST00000541611,;SALL1,upstream_gene_variant,,ENST00000566102,;AC009166.5,downstream_gene_variant,,ENST00000570060,;SALL1,upstream_gene_variant,,ENST00000562674,;"	"C"	"ENSG00000103449"	"ENST00000251020"	"Transcript"	"upstream_gene_variant"	"-/5146"	"-/3975"	"-/1324"	""	""	""	"1"	"1910"	-1	"SALL1"	"HGNC"	10524	"protein_coding"	"YES"	"CCDS10747.1"	"ENSP00000251020"	"Q9NSC2"	"H3BSM9"	"UPI000013CCD8"	"NM_002968.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"7603e5a6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241758241758242	"WGS"	FALSE
"16262"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	52756412	52756412	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"58"	22	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76040e8c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275	"WGS"	FALSE
"16263"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	55067398	55067398	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"68"	17	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"76045806-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16264"	"ENSR00001035354"	0	"mskcc.org"	"GRCh37"	"16"	56565222	56565222	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001035354"	""	77	"64"	13	47	"47"	0	""	"A"	""	"ENSR00001035354"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"76048f92-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168831168831169	"WGS"	FALSE
"16265"	"SLC12A3"	6559	"mskcc.org"	"GRCh37"	"16"	56940492	56940492	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2951+2118G>A"	""	""	"ENST00000438926"	""	91	"68"	23	50	"50"	0	"SLC12A3,intron_variant,,ENST00000438926,NM_001126108.1,NM_000339.2,NM_001126107.1;SLC12A3,intron_variant,,ENST00000262502,;SLC12A3,intron_variant,,ENST00000563236,;SLC12A3,intron_variant,,ENST00000566786,;SLC12A3,upstream_gene_variant,,ENST00000563352,;SLC12A3,downstream_gene_variant,,ENST00000569002,;RPS24P17,non_coding_transcript_exon_variant,,ENST00000479895,;"	"A"	"ENSG00000070915"	"ENST00000438926"	"Transcript"	"intron_variant"	"-/5567"	"-/3093"	"-/1030"	""	""	""	"1"	NA	1	"SLC12A3"	"HGNC"	10912	"protein_coding"	"YES"	"CCDS10770.1"	"ENSP00000402152"	"P55017"	""	"UPI00001FF243"	"NM_001126108.1,NM_000339.2,NM_001126107.1"	""	""	""	"25/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"76049c30-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252747252747253	"WGS"	FALSE
"16266"	"KIFC3"	3801	"mskcc.org"	"GRCh37"	"16"	57878182	57878182	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.108+18451T>A"	""	""	"ENST00000563028"	""	52	"48"	4	38	"38"	0	"KIFC3,intron_variant,,ENST00000563028,;KIFC3,intron_variant,,ENST00000565684,;"	"T"	"ENSG00000140859"	"ENST00000563028"	"Transcript"	"intron_variant"	"-/681"	"-/464"	"-/154"	""	""	""	"1"	NA	-1	"KIFC3"	"HGNC"	6326	"protein_coding"	""	""	"ENSP00000456354"	""	"H3BRQ1,H3BNZ0"	"UPI0002466F76"	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7604b710-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"16267"	"ZNF319"	57567	"mskcc.org"	"GRCh37"	"16"	58025828	58025828	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000299237"	""	68	"51"	17	66	"66"	0	"ZNF319,downstream_gene_variant,,ENST00000299237,NM_020807.1;TEPP,downstream_gene_variant,,ENST00000290871,NM_199046.2;TEPP,downstream_gene_variant,,ENST00000441824,NM_199456.2;TEPP,downstream_gene_variant,,ENST00000569996,;TEPP,downstream_gene_variant,,ENST00000562915,;"	"T"	"ENSG00000166188"	"ENST00000299237"	"Transcript"	"downstream_gene_variant"	"-/4221"	"-/1749"	"-/582"	""	""	""	"1"	"2744"	-1	"ZNF319"	"HGNC"	13644	"protein_coding"	"YES"	"CCDS32462.1"	"ENSP00000299237"	"Q9P2F9"	"H3BT69"	"UPI000013C357"	"NM_020807.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7604ba26-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"16268"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	58693609	58693609	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	32	"28"	4	36	"36"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"7604ce44-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"16269"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	59263071	59263071	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"72"	8	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7604d8b2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"16270"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	60183110	60183110	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"62"	23	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7604f52c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270588235294118	"WGS"	FALSE
"16271"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	61045816	61045816	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"87"	26	75	"75"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"76051a8e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230088495575221	"WGS"	FALSE
"16272"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	61098936	61098936	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"103"	16	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"76051d40-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134453781512605	"WGS"	FALSE
"16273"	"CDH8"	1006	"mskcc.org"	"GRCh37"	"16"	61874447	61874447	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.668-15364A>T"	""	""	"ENST00000577390"	""	132	"102"	30	79	"79"	0	"CDH8,intron_variant,,ENST00000577390,NM_001796.4;CDH8,intron_variant,,ENST00000577730,;CDH8,intron_variant,,ENST00000584337,;CDH8,intron_variant,,ENST00000299345,;CDH8,intron_variant,,ENST00000583382,;CDH8,intron_variant,,ENST00000585315,;"	"A"	"ENSG00000150394"	"ENST00000577390"	"Transcript"	"intron_variant"	"-/9721"	"-/2400"	"-/799"	""	""	""	"1"	NA	-1	"CDH8"	"HGNC"	1767	"protein_coding"	"YES"	"CCDS10802.1"	"ENSP00000462701"	"P55286"	"J3KTG8,J3KT81"	"UPI0000126D9F"	"NM_001796.4"	""	""	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"76053974-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"16274"	"RP11-50O21.1"	0	"mskcc.org"	"GRCh37"	"16"	62838685	62838685	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000569391"	""	126	"104"	22	55	"55"	0	"RP11-50O21.1,downstream_gene_variant,,ENST00000569391,;"	"T"	"ENSG00000260332"	"ENST00000569391"	"Transcript"	"downstream_gene_variant"	"-/485"	""	""	""	""	""	"1"	"3441"	-1	"RP11-50O21.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"76055756-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174603174603175	"WGS"	FALSE
"16275"	"CDH11"	1009	"mskcc.org"	"GRCh37"	"16"	65120572	65120572	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-297-32741C>T"	""	""	"ENST00000268603"	""	116	"106"	10	62	"62"	0	"CDH11,intron_variant,,ENST00000394156,;CDH11,intron_variant,,ENST00000268603,NM_001797.2;CDH11,intron_variant,,ENST00000566827,;CDH11,intron_variant,,ENST00000562325,;CDH11,intron_variant,,ENST00000562998,;CDH11,intron_variant,,ENST00000564317,;CDH11,intron_variant,,ENST00000569624,;CDH11,intron_variant,,ENST00000563255,;CDH11,intron_variant,,ENST00000565210,;CDH11,intron_variant,,ENST00000568340,;CDH11,intron_variant,,ENST00000563492,;"	"A"	"ENSG00000140937"	"ENST00000268603"	"Transcript"	"intron_variant"	"-/6857"	"-/2391"	"-/796"	""	""	""	"1"	NA	-1	"CDH11"	"HGNC"	1750	"protein_coding"	"YES"	"CCDS10803.1"	"ENSP00000268603"	"P55287"	"H3BUU9,H3BSM4,H3BR78,H3BQH2,H3BQB5,H3BPQ2,H3BP26"	"UPI000013D7C5"	"NM_001797.2"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"76059450-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0862068965517241	"WGS"	TRUE
"16276"	"LINC00922"	283867	"mskcc.org"	"GRCh37"	"16"	65374655	65374655	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs544390153"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.685+13491C>T"	""	""	"ENST00000569736"	""	92	"74"	18	54	"54"	0	"LINC00922,intron_variant,,ENST00000569736,;LINC00922,intron_variant,,ENST00000564041,;LINC00922,intron_variant,,ENST00000568492,;RP11-256I9.3,intron_variant,,ENST00000562656,;"	"A"	"ENSG00000261742"	"ENST00000569736"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1760"	""	""	""	""	"rs544390153"	"1"	NA	-1	"LINC00922"	"HGNC"	27545	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"7/8"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"76059b62-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195652173913043	"WGS"	FALSE
"16277"	"ENSR00000508699"	0	"mskcc.org"	"GRCh37"	"16"	65747514	65747514	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000508699"	""	97	"73"	24	68	"68"	0	""	"T"	""	"ENSR00000508699"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7605a742-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247422680412371	"WGS"	FALSE
"16278"	"CMTM4"	146223	"mskcc.org"	"GRCh37"	"16"	66670880	66670880	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.187-396G>A"	""	""	"ENST00000330687"	""	76	"68"	8	46	"46"	0	"CMTM4,intron_variant,,ENST00000330687,NM_181521.2,NM_178818.2;CMTM4,intron_variant,,ENST00000394106,;CMTM4,intron_variant,,ENST00000563952,;CMTM4,upstream_gene_variant,,ENST00000561680,;"	"T"	"ENSG00000183723"	"ENST00000330687"	"Transcript"	"intron_variant"	"-/3414"	"-/705"	"-/234"	""	""	""	"1"	NA	-1	"CMTM4"	"HGNC"	19175	"protein_coding"	"YES"	"CCDS10817.1"	"ENSP00000333833"	"Q8IZR5"	"J3QRP2"	"UPI00000740BD"	"NM_181521.2,NM_178818.2"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7605c312-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"16279"	"CMTM4"	146223	"mskcc.org"	"GRCh37"	"16"	66700249	66700249	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.187-29765T>C"	""	""	"ENST00000330687"	""	43	"37"	6	38	"38"	0	"CMTM4,intron_variant,,ENST00000330687,NM_181521.2,NM_178818.2;CMTM4,intron_variant,,ENST00000394106,;CMTM4,intron_variant,,ENST00000563952,;"	"G"	"ENSG00000183723"	"ENST00000330687"	"Transcript"	"intron_variant"	"-/3414"	"-/705"	"-/234"	""	""	""	"1"	NA	-1	"CMTM4"	"HGNC"	19175	"protein_coding"	"YES"	"CCDS10817.1"	"ENSP00000333833"	"Q8IZR5"	"J3QRP2"	"UPI00000740BD"	"NM_181521.2,NM_178818.2"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"7605c3c6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"16280"	"CMTM4"	146223	"mskcc.org"	"GRCh37"	"16"	66700257	66700257	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.187-29773C>G"	""	""	"ENST00000330687"	""	41	"37"	4	40	"40"	0	"CMTM4,intron_variant,,ENST00000330687,NM_181521.2,NM_178818.2;CMTM4,intron_variant,,ENST00000394106,;CMTM4,intron_variant,,ENST00000563952,;"	"C"	"ENSG00000183723"	"ENST00000330687"	"Transcript"	"intron_variant"	"-/3414"	"-/705"	"-/234"	""	""	""	"1"	NA	-1	"CMTM4"	"HGNC"	19175	"protein_coding"	"YES"	"CCDS10817.1"	"ENSP00000333833"	"Q8IZR5"	"J3QRP2"	"UPI00000740BD"	"NM_181521.2,NM_178818.2"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7605c416-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0975609756097561	"WGS"	FALSE
"16281"	"CTD-2012K14.6"	0	"mskcc.org"	"GRCh37"	"16"	67590169	67590169	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.665-6919T>G"	""	""	"ENST00000605277"	""	54	"38"	16	44	"44"	0	"CTD-2012K14.6,intron_variant,,ENST00000605277,;"	"C"	"ENSG00000261386"	"ENST00000605277"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/798"	""	""	""	""	""	"1"	NA	-1	"CTD-2012K14.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"7605deb0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.296296296296296	"WGS"	FALSE
"16282"	"PRMT7"	54496	"mskcc.org"	"GRCh37"	"16"	68361411	68361411	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.283-1558G>A"	""	""	"ENST00000339507"	""	67	"56"	11	37	"37"	0	"PRMT7,intron_variant,,ENST00000339507,;PRMT7,intron_variant,,ENST00000441236,;PRMT7,intron_variant,,ENST00000348497,;PRMT7,intron_variant,,ENST00000449359,NM_019023.2,NM_001184824.1;PRMT7,intron_variant,,ENST00000569571,;PRMT7,intron_variant,,ENST00000569047,;PRMT7,downstream_gene_variant,,ENST00000566657,;PRMT7,downstream_gene_variant,,ENST00000565745,;RNU4-30P,downstream_gene_variant,,ENST00000410245,;PRMT7,intron_variant,,ENST00000564441,;PRMT7,intron_variant,,ENST00000564050,;PRMT7,intron_variant,,ENST00000563520,;PRMT7,intron_variant,,ENST00000565761,;PRMT7,intron_variant,,ENST00000563443,;PRMT7,intron_variant,,ENST00000563562,;PRMT7,intron_variant,,ENST00000567542,;PRMT7,intron_variant,,ENST00000568975,;PRMT7,intron_variant,,ENST00000565356,;PRMT7,intron_variant,,ENST00000562050,;PRMT7,intron_variant,,ENST00000562381,;PRMT7,intron_variant,,ENST00000566341,;PRMT7,intron_variant,,ENST00000561806,;PRMT7,downstream_gene_variant,,ENST00000562456,;"	"A"	"ENSG00000132600"	"ENST00000339507"	"Transcript"	"intron_variant"	"-/4238"	"-/2079"	"-/692"	""	""	""	"1"	NA	1	"PRMT7"	"HGNC"	25557	"protein_coding"	"YES"	"CCDS10866.1"	"ENSP00000343103"	"Q9NVM4"	"H3BSS9,H3BRQ9,H3BRD3,H3BPZ8,H3BNS2"	"UPI0000041857"	""	""	""	""	"5/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7605ed9c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164179104477612	"WGS"	FALSE
"16283"	"PDPR"	55066	"mskcc.org"	"GRCh37"	"16"	70164955	70164955	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.730-250T>C"	""	""	"ENST00000288050"	""	131	"111"	20	72	"72"	0	"PDPR,intron_variant,,ENST00000288050,NM_017990.3;PDPR,intron_variant,,ENST00000568530,;PDPR,intron_variant,,ENST00000398122,;PDPR,upstream_gene_variant,,ENST00000562100,;PDPR,intron_variant,,ENST00000565186,;PDPR,intron_variant,,ENST00000561920,;"	"C"	"ENSG00000090857"	"ENST00000288050"	"Transcript"	"intron_variant"	"-/7999"	"-/2640"	"-/879"	""	""	""	"1"	NA	1	"PDPR"	"HGNC"	30264	"protein_coding"	"YES"	"CCDS45520.1"	"ENSP00000288050"	"Q8NCN5"	"H3BV59,H3BU60,B7ZAR9,B3KSE1,A8MT40"	"UPI00001FF513"	"NM_017990.3"	""	""	""	"7/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"760626cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152671755725191	"WGS"	FALSE
"16284"	"VAC14"	55697	"mskcc.org"	"GRCh37"	"16"	70771627	70771627	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1529-6097G>A"	""	""	"ENST00000261776"	""	70	"53"	17	64	"64"	0	"VAC14,intron_variant,,ENST00000261776,NM_018052.3;VAC14,intron_variant,,ENST00000566416,;VAC14,intron_variant,,ENST00000561879,;VAC14,intron_variant,,ENST00000568548,;VAC14,intron_variant,,ENST00000568886,;VAC14,intron_variant,,ENST00000564685,;VAC14,intron_variant,,ENST00000563662,;"	"T"	"ENSG00000103043"	"ENST00000261776"	"Transcript"	"intron_variant"	"-/3099"	"-/2349"	"-/782"	""	""	""	"1"	NA	-1	"VAC14"	"HGNC"	25507	"protein_coding"	"YES"	"CCDS10896.1"	"ENSP00000261776"	"Q08AM6"	"Q9NTB8,B3KSM8"	"UPI00001A832B"	"NM_018052.3"	""	""	""	"13/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"760640e4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242857142857143	"WGS"	FALSE
"16285"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	73709397	73709397	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"66"	19	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7606a188-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223529411764706	"WGS"	FALSE
"16286"	"RP11-252A24.2"	0	"mskcc.org"	"GRCh37"	"16"	74381267	74381267	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1086+1498A>G"	""	""	"ENST00000429810"	""	55	"48"	7	39	"39"	0	"RP11-252A24.2,intron_variant,,ENST00000429810,;RP11-252A24.2,intron_variant,,ENST00000566802,;RP11-252A24.2,upstream_gene_variant,,ENST00000565724,;RP11-252A24.2,intron_variant,,ENST00000563377,;"	"C"	"ENSG00000214331"	"ENST00000429810"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2355"	""	""	""	""	""	"1"	NA	-1	"RP11-252A24.2"	"Clone_based_vega_gene"	NA	"retained_intron"	"YES"	""	""	""	""	""	""	""	""	""	"7/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"7606b63c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127272727272727	"WGS"	FALSE
"16287"	"CTD-2336H13.2"	0	"mskcc.org"	"GRCh37"	"16"	76825994	76825994	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.138+55618C>G"	""	""	"ENST00000567777"	""	135	"103"	32	78	"78"	0	"CTD-2336H13.2,intron_variant,,ENST00000567777,;"	"G"	"ENSG00000259995"	"ENST00000567777"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/466"	""	""	""	""	""	"1"	NA	1	"CTD-2336H13.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"76070a24-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.237037037037037	"WGS"	FALSE
"16288"	"RP11-571O6.1"	0	"mskcc.org"	"GRCh37"	"16"	77630247	77630247	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.116-2735C>T"	""	""	"ENST00000563289"	""	105	"82"	23	65	"65"	0	"RP11-571O6.1,intron_variant,,ENST00000563289,;"	"T"	"ENSG00000261154"	"ENST00000563289"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/419"	""	""	""	""	""	"1"	NA	1	"RP11-571O6.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"7607207c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219047619047619	"WGS"	FALSE
"16289"	"VAT1L"	57687	"mskcc.org"	"GRCh37"	"16"	77977015	77977015	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1078-28732T>A"	""	""	"ENST00000302536"	""	69	"61"	8	41	"41"	0	"VAT1L,intron_variant,,ENST00000302536,NM_020927.1;"	"A"	"ENSG00000171724"	"ENST00000302536"	"Transcript"	"intron_variant"	"-/3825"	"-/1260"	"-/419"	""	""	""	"1"	NA	1	"VAT1L"	"HGNC"	29315	"protein_coding"	"YES"	"CCDS32492.1"	"ENSP00000303129"	"Q9HCJ6"	"Q8NDE0"	"UPI00000741CE"	"NM_020927.1"	""	""	""	"7/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"760729f0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115942028985507	"WGS"	FALSE
"16290"	"WWOX"	51741	"mskcc.org"	"GRCh37"	"16"	78529421	78529421	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1056+62772T>G"	""	""	"ENST00000566780"	""	65	"61"	4	69	"69"	0	"WWOX,intron_variant,,ENST00000566780,NM_016373.2;WWOX,intron_variant,,ENST00000406884,;WWOX,intron_variant,,ENST00000539474,;WWOX,intron_variant,,ENST00000402655,;WWOX,intron_variant,,ENST00000408984,;RP11-264L1.4,downstream_gene_variant,,ENST00000563408,;WWOX,intron_variant,,ENST00000569332,;"	"G"	"ENSG00000186153"	"ENST00000566780"	"Transcript"	"intron_variant"	"-/2482"	"-/1245"	"-/414"	""	""	""	"1"	NA	1	"WWOX"	"HGNC"	12799	"protein_coding"	"YES"	"CCDS42196.1"	"ENSP00000457230"	"Q9NZC7"	""	"UPI000004C797"	"NM_016373.2"	""	""	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"76073d8c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0615384615384615	"WGS"	FALSE
"16291"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	79410226	79410226	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"102"	7	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7607563c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0642201834862385	"WGS"	FALSE
"16292"	"RP11-525K10.1"	0	"mskcc.org"	"GRCh37"	"16"	80170621	80170621	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.406-19501G>T"	""	""	"ENST00000567851"	""	82	"58"	24	53	"53"	0	"RP11-525K10.1,intron_variant,,ENST00000567851,;RP11-525K10.1,intron_variant,,ENST00000563397,;"	"T"	"ENSG00000260706"	"ENST00000567851"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/581"	""	""	""	""	""	"1"	NA	1	"RP11-525K10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"76076c9e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.292682926829268	"WGS"	FALSE
"16293"	"HSD17B2"	3294	"mskcc.org"	"GRCh37"	"16"	82126711	82126711	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.802+2067C>G"	""	""	"ENST00000199936"	""	128	"120"	8	66	"66"	0	"HSD17B2,intron_variant,,ENST00000199936,NM_002153.2;HSD17B2,intron_variant,,ENST00000568090,;HSD17B2,downstream_gene_variant,,ENST00000566838,;RP11-510J16.5,intron_variant,,ENST00000567021,;"	"G"	"ENSG00000086696"	"ENST00000199936"	"Transcript"	"intron_variant"	"-/1455"	"-/1164"	"-/387"	""	""	""	"1"	NA	1	"HSD17B2"	"HGNC"	5211	"protein_coding"	"YES"	"CCDS10936.1"	"ENSP00000199936"	"P37059"	"H3BS44,H3BQY3"	"UPI000004C78E"	"NM_002153.2"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"7607b186-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"16294"	"ZCCHC14"	23174	"mskcc.org"	"GRCh37"	"16"	87520112	87520112	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.159+5163C>T"	""	""	"ENST00000268616"	""	69	"50"	19	42	"42"	0	"ZCCHC14,intron_variant,,ENST00000268616,NM_015144.2;ZCCHC14,intron_variant,,ENST00000568020,;"	"A"	"ENSG00000140948"	"ENST00000268616"	"Transcript"	"intron_variant"	"-/7102"	"-/2850"	"-/949"	""	""	""	"1"	NA	-1	"ZCCHC14"	"HGNC"	24134	"protein_coding"	"YES"	"CCDS10961.1"	"ENSP00000268616"	"Q8WYQ9"	""	"UPI00000705C4"	"NM_015144.2"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"7608be78-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27536231884058	"WGS"	FALSE
"16295"	"Unknown"	0	"mskcc.org"	"GRCh37"	"16"	89307491	89307491	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	24	"21"	3	16	"16"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"76098d9e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"16296"	"VPS53"	55275	"mskcc.org"	"GRCh37"	"17"	484183	484183	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1313+5327T>A"	""	""	"ENST00000437048"	""	66	"61"	5	54	"54"	0	"VPS53,intron_variant,,ENST00000437048,NM_001128159.2;VPS53,intron_variant,,ENST00000446250,;VPS53,intron_variant,,ENST00000291074,NM_018289.3;VPS53,intron_variant,,ENST00000571805,;VPS53,intron_variant,,ENST00000401468,;VPS53,intron_variant,,ENST00000574029,;VPS53,intron_variant,,ENST00000576149,;VPS53,intron_variant,,ENST00000573028,;VPS53,intron_variant,,ENST00000389040,;"	"T"	"ENSG00000141252"	"ENST00000437048"	"Transcript"	"intron_variant"	"-/13106"	"-/2499"	"-/832"	""	""	""	"1"	NA	-1	"VPS53"	"HGNC"	25608	"protein_coding"	"YES"	"CCDS45558.1"	"ENSP00000401435"	"Q5VIR6"	"Q8NCR1,I3L4P9"	"UPI0000DBEF01"	"NM_001128159.2"	""	""	""	"13/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"760a5576-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0757575757575758	"WGS"	FALSE
"16297"	"NXN"	64359	"mskcc.org"	"GRCh37"	"17"	790708	790708	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.361-61390G>A"	""	""	"ENST00000336868"	""	45	"34"	11	46	"45"	1	"NXN,intron_variant,,ENST00000336868,NM_022463.4;NXN,intron_variant,,ENST00000577098,;NXN,intron_variant,,ENST00000571338,;NXN,intron_variant,,ENST00000575455,;NXN,intron_variant,,ENST00000575171,;"	"T"	"ENSG00000167693"	"ENST00000336868"	"Transcript"	"intron_variant"	"-/3036"	"-/1308"	"-/435"	""	""	""	"1"	NA	-1	"NXN"	"HGNC"	18008	"protein_coding"	"YES"	"CCDS10998.1"	"ENSP00000337443"	"Q6DKJ4"	""	"UPI00001B31EB"	"NM_022463.4"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"760ab02a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244444444444444	"WGS"	FALSE
"16298"	"SLC52A1"	55065	"mskcc.org"	"GRCh37"	"17"	4951380	4951380	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-108+2620A>C"	""	""	"ENST00000512825"	""	48	"42"	6	38	"38"	0	"SLC52A1,intron_variant,,ENST00000512825,;"	"G"	"ENSG00000132517"	"ENST00000512825"	"Transcript"	"intron_variant"	"-/2989"	"-/1053"	"-/350"	""	""	""	"1"	NA	-1	"SLC52A1"	"HGNC"	30225	"protein_coding"	""	""	"ENSP00000443026"	""	"F5H5Y1"	"UPI0002064FB0"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"760b76b8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"16299"	"DHX33"	56919	"mskcc.org"	"GRCh37"	"17"	5368942	5368942	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.290-1933C>T"	""	""	"ENST00000225296"	""	68	"47"	21	41	"41"	0	"DHX33,intron_variant,,ENST00000225296,NM_001199699.1,NM_020162.3;DHX33,intron_variant,,ENST00000572490,;DHX33,intron_variant,,ENST00000433302,;CTC-524C5.5,upstream_gene_variant,,ENST00000571506,;DHX33,intron_variant,,ENST00000574023,;DHX33,upstream_gene_variant,,ENST00000575153,;"	"A"	"ENSG00000005100"	"ENST00000225296"	"Transcript"	"intron_variant"	"-/5618"	"-/2124"	"-/707"	""	""	""	"1"	NA	-1	"DHX33"	"HGNC"	16718	"protein_coding"	"YES"	"CCDS11072.1"	"ENSP00000225296"	"Q9H6R0"	""	"UPI000013C861"	"NM_001199699.1,NM_020162.3"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"760b8ac2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308823529411765	"WGS"	FALSE
"16300"	"NLRP1"	22861	"mskcc.org"	"GRCh37"	"17"	5431310	5431310	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3520+2491G>A"	""	""	"ENST00000572272"	""	60	"52"	8	50	"50"	0	"NLRP1,intron_variant,,ENST00000345221,NM_033004.3,NM_014922.4,NM_033007.3;NLRP1,intron_variant,,ENST00000262467,NM_001033053.2;NLRP1,intron_variant,,ENST00000269280,;NLRP1,intron_variant,,ENST00000572272,;NLRP1,intron_variant,,ENST00000354411,NM_033006.3;NLRP1,intron_variant,,ENST00000577119,;NLRP1,downstream_gene_variant,,ENST00000571307,;NLRP1,intron_variant,,ENST00000571451,;NLRP1,intron_variant,,ENST00000544378,;"	"T"	"ENSG00000091592"	"ENST00000572272"	"Transcript"	"intron_variant"	"-/4422"	"-/4422"	"-/1473"	""	""	""	"1"	NA	-1	"NLRP1"	"HGNC"	14374	"protein_coding"	"YES"	"CCDS42246.1"	"ENSP00000460475"	"Q9C000"	"I3L2G5,I3L0S2"	"UPI0000038309"	""	""	""	""	"12/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"760b8c16-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"16301"	"PIK3R5"	23533	"mskcc.org"	"GRCh37"	"17"	8840071	8840071	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-13-25247A>T"	""	""	"ENST00000447110"	""	93	"73"	20	68	"68"	0	"PIK3R5,intron_variant,,ENST00000447110,NM_001251855.1,NM_001142633.2,NM_001251852.1,NM_001251853.1,NM_001251851.1;PIK3R5,intron_variant,,ENST00000583222,;PIK3R5,intron_variant,,ENST00000580959,;PIK3R5,intron_variant,,ENST00000577981,;PIK3R5,intron_variant,,ENST00000269300,;PIK3R5,intron_variant,,ENST00000578515,;"	"A"	"ENSG00000141506"	"ENST00000447110"	"Transcript"	"intron_variant"	"-/4488"	"-/2643"	"-/880"	""	""	""	"1"	NA	-1	"PIK3R5"	"HGNC"	30035	"protein_coding"	"YES"	"CCDS11147.1"	"ENSP00000392812"	"Q8WYR1"	"L7RT34,J3KT66,J3KRE9"	"UPI0000071DB4"	"NM_001251855.1,NM_001142633.2,NM_001251852.1,NM_001251853.1,NM_001251851.1"	""	""	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"760bf426-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21505376344086	"WGS"	FALSE
"16302"	"NTN1"	9423	"mskcc.org"	"GRCh37"	"17"	8942643	8942643	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1018+15935G>A"	""	""	"ENST00000173229"	""	90	"72"	18	43	"43"	0	"NTN1,intron_variant,,ENST00000173229,NM_004822.2;NTN1,intron_variant,,ENST00000538852,;NTN1,intron_variant,,ENST00000546090,;"	"A"	"ENSG00000065320"	"ENST00000173229"	"Transcript"	"intron_variant"	"-/5954"	"-/1815"	"-/604"	""	""	""	"1"	NA	1	"NTN1"	"HGNC"	8029	"protein_coding"	"YES"	"CCDS11148.1"	"ENSP00000173229"	"O95631"	""	"UPI000013C5C7"	"NM_004822.2"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"760bf67e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16303"	"TMEM220"	388335	"mskcc.org"	"GRCh37"	"17"	10623473	10623473	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.347+3114A>T"	""	""	"ENST00000341871"	""	79	"64"	15	50	"50"	0	"TMEM220,intron_variant,,ENST00000341871,NM_001004313.1;TMEM220,intron_variant,,ENST00000455996,;TMEM220,intron_variant,,ENST00000578345,;TMEM220,intron_variant,,ENST00000580787,;TMEM220,intron_variant,,ENST00000581949,;TMEM220,intron_variant,,ENST00000580186,;MAGOH2,upstream_gene_variant,,ENST00000584384,;MAGOH2,upstream_gene_variant,,ENST00000580926,;"	"A"	"ENSG00000187824"	"ENST00000341871"	"Transcript"	"intron_variant"	"-/3106"	"-/483"	"-/160"	""	""	""	"1"	NA	-1	"TMEM220"	"HGNC"	33757	"protein_coding"	"YES"	"CCDS32567.1"	"ENSP00000339830"	"Q6QAJ8"	""	"UPI00001D79BC"	"NM_001004313.1"	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"760c2e82-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189873417721519	"WGS"	FALSE
"16304"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	11482113	11482113	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"rs12938465"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	65	"57"	8	29	"29"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs12938465"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"760c4e80-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.123076923076923	"WGS"	FALSE
"16305"	"COX10"	1352	"mskcc.org"	"GRCh37"	"17"	14025407	14025407	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.624+19848C>G"	""	""	"ENST00000261643"	""	127	"100"	27	90	"90"	0	"COX10,intron_variant,,ENST00000261643,NM_001303.3;COX10,intron_variant,,ENST00000536205,;COX10,intron_variant,,ENST00000537334,;COX10,intron_variant,,ENST00000581931,;COX10,intron_variant,,ENST00000580561,;"	"G"	"ENSG00000006695"	"ENST00000261643"	"Transcript"	"intron_variant"	"-/2873"	"-/1332"	"-/443"	""	""	""	"1"	NA	1	"COX10"	"HGNC"	2260	"protein_coding"	"YES"	"CCDS11166.1"	"ENSP00000261643"	"Q12887"	"B4DFR1"	"UPI000013D1C8"	"NM_001303.3"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"760ca678-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21259842519685	"WGS"	FALSE
"16306"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	15084598	15084598	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"63"	15	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"760cc4fa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WGS"	FALSE
"16307"	"RP11-385D13.1"	0	"mskcc.org"	"GRCh37"	"17"	15504159	15504159	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2364-2192A>G"	""	""	"ENST00000455584"	""	66	"60"	6	46	"46"	0	"RP11-385D13.1,intron_variant,,ENST00000455584,;CDRT1,intron_variant,,ENST00000395906,NM_006382.3;CDRT1,upstream_gene_variant,,ENST00000354433,;CDRT1,downstream_gene_variant,,ENST00000261644,;CDRT1,upstream_gene_variant,,ENST00000583965,;CDRT1,upstream_gene_variant,,ENST00000571263,;CDRT1,upstream_gene_variant,,ENST00000475944,;"	"C"	"ENSG00000251537"	"ENST00000455584"	"Transcript"	"intron_variant"	"-/5514"	"-/2862"	"-/953"	""	""	""	"1"	NA	-1	"RP11-385D13.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000402644"	""	"H0Y626,J3QKY5"	"UPI000268AF94"	""	""	""	""	"13/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"760cd62a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"16308"	"TBC1D27"	0	"mskcc.org"	"GRCh37"	"17"	16835709	16835709	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1899+35G>A"	""	""	"ENST00000261651"	""	81	"63"	18	61	"61"	0	"TNFRSF13B,intron_variant,,ENST00000437538,;TNFRSF13B,downstream_gene_variant,,ENST00000579315,;TBC1D27,intron_variant,,ENST00000261651,;TBC1D27,intron_variant,,ENST00000582764,;TNFRSF13B,intron_variant,,ENST00000584950,;TNFRSF13B,downstream_gene_variant,,ENST00000582931,;TBC1D27,intron_variant,,ENST00000424239,;"	"T"	"ENSG00000128438"	"ENST00000261651"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4838"	""	""	""	""	""	"1"	NA	-1	"TBC1D27"	"HGNC"	28104	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"4/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"760d091a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"16309"	"LGALS9C"	654346	"mskcc.org"	"GRCh37"	"17"	18379686	18379686	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000328114"	""	68	"61"	7	46	"46"	0	"LGALS9C,upstream_gene_variant,,ENST00000328114,NM_001040078.2;LGALS9C,upstream_gene_variant,,ENST00000583322,;LGALS9C,upstream_gene_variant,,ENST00000581545,;LGALS9C,upstream_gene_variant,,ENST00000412421,;LGALS9C,upstream_gene_variant,,ENST00000584941,;LGALS9C,upstream_gene_variant,,ENST00000582333,;LGALS9C,upstream_gene_variant,,ENST00000578983,;KRT16P4,downstream_gene_variant,,ENST00000580052,;LGALS9C,upstream_gene_variant,,ENST00000580674,;LGALS9C,upstream_gene_variant,,ENST00000577691,;LGALS9C,upstream_gene_variant,,ENST00000579773,;LGALS9C,upstream_gene_variant,,ENST00000582928,;"	"T"	"ENSG00000171916"	"ENST00000328114"	"Transcript"	"upstream_gene_variant"	"-/1730"	"-/1071"	"-/356"	""	""	""	"1"	"402"	1	"LGALS9C"	"HGNC"	33874	"protein_coding"	"YES"	"CCDS32587.1"	"ENSP00000329932"	"Q6DKI2"	"C9JHN9"	"UPI00006C1768"	"NM_001040078.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"760d4f2e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102941176470588	"WGS"	FALSE
"16310"	"AKAP10"	11216	"mskcc.org"	"GRCh37"	"17"	19837920	19837920	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1467+1679T>A"	""	""	"ENST00000225737"	""	66	"60"	6	35	"35"	0	"AKAP10,intron_variant,,ENST00000225737,NM_007202.3;AKAP10,intron_variant,,ENST00000395536,;AKAP10,upstream_gene_variant,,ENST00000583951,;RP11-209D14.4,upstream_gene_variant,,ENST00000583067,;AKAP10,downstream_gene_variant,,ENST00000460046,;AKAP10,upstream_gene_variant,,ENST00000578898,;"	"T"	"ENSG00000108599"	"ENST00000225737"	"Transcript"	"intron_variant"	"-/4072"	"-/1989"	"-/662"	""	""	""	"1"	NA	-1	"AKAP10"	"HGNC"	368	"protein_coding"	"YES"	"CCDS11214.1"	"ENSP00000225737"	"O43572"	""	"UPI000006E08E"	"NM_007202.3"	""	""	""	"9/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"760d87e6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"16311"	"RP11-209D14.2"	0	"mskcc.org"	"GRCh37"	"17"	19912215	19912215	"+"	"RNA"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.333C>T"	""	""	"ENST00000564549"	"1/1"	49	"35"	14	48	"48"	0	"SPECC1,upstream_gene_variant,,ENST00000395527,NM_001243439.1;SPECC1,upstream_gene_variant,,ENST00000583463,;SPECC1,upstream_gene_variant,,ENST00000583528,;SPECC1,upstream_gene_variant,,ENST00000583482,;SPECC1,upstream_gene_variant,,ENST00000578321,;RP11-209D14.2,non_coding_transcript_exon_variant,,ENST00000564549,;SPECC1,upstream_gene_variant,,ENST00000472876,;"	"A"	"ENSG00000261033"	"ENST00000564549"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"333/1184"	""	""	""	""	""	"1"	NA	-1	"RP11-209D14.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"760d8994-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"16312"	"FAM106B"	80039	"mskcc.org"	"GRCh37"	"17"	20321960	20321960	"+"	"RNA"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1220C>T"	""	""	"ENST00000379228"	"1/1"	66	"56"	10	35	"35"	0	"USP32P3,intron_variant,,ENST00000583574,;USP32P3,intron_variant,,ENST00000602334,;FAM106B,non_coding_transcript_exon_variant,,ENST00000379228,;FAM106B,downstream_gene_variant,,ENST00000583615,;SRP68P3,upstream_gene_variant,,ENST00000416871,;"	"T"	"ENSG00000205217"	"ENST00000379228"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1220/1623"	""	""	""	""	""	"1"	NA	1	"FAM106B"	"HGNC"	32450	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"760d9b3c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151515151515152	"WGS"	FALSE
"16313"	"ZSWIM5P2"	0	"mskcc.org"	"GRCh37"	"17"	20496539	20496539	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000420212"	""	74	"58"	16	69	"69"	0	"ZSWIM5P2,upstream_gene_variant,,ENST00000420212,;MEIS3P2,downstream_gene_variant,,ENST00000340731,;MEIS3P2,downstream_gene_variant,,ENST00000418141,;AC087499.4,upstream_gene_variant,,ENST00000448505,;"	"T"	"ENSG00000231258"	"ENST00000420212"	"Transcript"	"upstream_gene_variant"	"-/2038"	""	""	""	""	""	"1"	"2046"	-1	"ZSWIM5P2"	"HGNC"	43769	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"760daeb0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216216216216216	"WGS"	FALSE
"16314"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	26050141	26050141	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"52"	19	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"760edd3a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.267605633802817	"WGS"	FALSE
"16315"	"SARM1"	23098	"mskcc.org"	"GRCh37"	"17"	26728019	26728019	"+"	"3'UTR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*4714G>C"	""	""	"ENST00000457710"	"9/9"	81	"69"	12	55	"55"	0	"SARM1,3_prime_UTR_variant,,ENST00000457710,NM_015077.3;SLC46A1,intron_variant,,ENST00000440501,NM_080669.4;SLC46A1,intron_variant,,ENST00000321666,NM_001242366.1;SLC46A1,intron_variant,,ENST00000582735,;SARM1,downstream_gene_variant,,ENST00000579593,;SLC46A1,downstream_gene_variant,,ENST00000584995,;SARM1,downstream_gene_variant,,ENST00000578128,;SLC46A1,downstream_gene_variant,,ENST00000581516,;SLC46A1,downstream_gene_variant,,ENST00000584426,;CTD-2350C19.1,upstream_gene_variant,,ENST00000583956,;CTD-2350C19.2,upstream_gene_variant,,ENST00000580714,;SLC46A1,intron_variant,,ENST00000584729,;SLC46A1,intron_variant,,ENST00000583295,;SARM1,downstream_gene_variant,,ENST00000379061,;SLC46A1,downstream_gene_variant,,ENST00000578217,;SLC46A1,non_coding_transcript_exon_variant,,ENST00000582345,;SARM1,downstream_gene_variant,,ENST00000003834,;SLC46A1,downstream_gene_variant,,ENST00000582590,;SARM1,downstream_gene_variant,,ENST00000577870,;"	"C"	"ENSG00000004139"	"ENST00000457710"	"Transcript"	"3_prime_UTR_variant"	"7258/7304"	"-/2073"	"-/690"	""	""	""	"1"	NA	1	"SARM1"	"HGNC"	17074	"protein_coding"	"YES"	""	"ENSP00000406738"	""	""	"UPI0000042801"	"NM_015077.3"	""	""	"9/9"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"760ef14e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"16316"	"SUZ12P"	0	"mskcc.org"	"GRCh37"	"17"	29065044	29065044	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.946+2929C>T"	""	""	"ENST00000582557"	""	71	"65"	6	40	"40"	0	"SUZ12P,intron_variant,,ENST00000582557,;SUZ12P,intron_variant,,ENST00000578070,;SUZ12P,intron_variant,,ENST00000497969,;SUZ12P,intron_variant,,ENST00000579526,;SUZ12P,intron_variant,,ENST00000578195,;"	"T"	"ENSG00000264538"	"ENST00000582557"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1560"	""	""	""	""	""	"1"	NA	1	"SUZ12P"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"760f443c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"16317"	"SUZ12P"	0	"mskcc.org"	"GRCh37"	"17"	29065045	29065045	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.946+2930A>G"	""	""	"ENST00000582557"	""	73	"67"	6	40	"40"	0	"SUZ12P,intron_variant,,ENST00000582557,;SUZ12P,intron_variant,,ENST00000578070,;SUZ12P,intron_variant,,ENST00000497969,;SUZ12P,intron_variant,,ENST00000579526,;SUZ12P,intron_variant,,ENST00000578195,;"	"G"	"ENSG00000264538"	"ENST00000582557"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1560"	""	""	""	""	""	"1"	NA	1	"SUZ12P"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"760f4496-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"16318"	"SUZ12P"	0	"mskcc.org"	"GRCh37"	"17"	29065053	29065053	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.946+2938A>G"	""	""	"ENST00000582557"	""	71	"65"	6	39	"39"	0	"SUZ12P,intron_variant,,ENST00000582557,;SUZ12P,intron_variant,,ENST00000578070,;SUZ12P,intron_variant,,ENST00000497969,;SUZ12P,intron_variant,,ENST00000579526,;SUZ12P,intron_variant,,ENST00000578195,;"	"G"	"ENSG00000264538"	"ENST00000582557"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1560"	""	""	""	""	""	"1"	NA	1	"SUZ12P"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"760f4504-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"16319"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	32532237	32532237	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs191404322"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"71"	16	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs191404322"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"760fa94a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.183908045977011	"WGS"	FALSE
"16320"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	33079785	33079785	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"77"	21	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"760fb908-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"16321"	"RAD51L3-RFFL"	0	"mskcc.org"	"GRCh37"	"17"	33424989	33424989	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.426+3231C>T"	""	""	"ENST00000593039"	""	69	"54"	15	41	"41"	0	"RAD51L3-RFFL,intron_variant,,ENST00000593039,;RAD51L3-RFFL,intron_variant,,ENST00000592181,;RAD51L3-RFFL,intron_variant,,ENST00000591723,;RAD51D,downstream_gene_variant,,ENST00000345365,NM_002878.3;RAD51D,downstream_gene_variant,,ENST00000394589,;RAD51D,downstream_gene_variant,,ENST00000360276,;RAD51D,downstream_gene_variant,,ENST00000590016,NM_001142571.1;RAD51D,downstream_gene_variant,,ENST00000335858,NM_133629.2;RAD51D,downstream_gene_variant,,ENST00000460118,;RAD51D,downstream_gene_variant,,ENST00000592577,;RAD51D,downstream_gene_variant,,ENST00000587405,;RNU6-840P,downstream_gene_variant,,ENST00000517275,;Vault,upstream_gene_variant,,ENST00000516519,;RAD51D,downstream_gene_variant,,ENST00000590380,;RAD51D,downstream_gene_variant,,ENST00000588372,;RAD51D,downstream_gene_variant,,ENST00000587977,;RAD51D,downstream_gene_variant,,ENST00000586044,;RAD51D,downstream_gene_variant,,ENST00000588594,;RAD51D,downstream_gene_variant,,ENST00000586210,;"	"A"	"ENSG00000267618"	"ENST00000593039"	"Transcript"	"intron_variant"	"-/1638"	"-/819"	"-/272"	""	""	""	"1"	NA	-1	"RAD51L3-RFFL"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000466834"	""	"K7EQU8,K7EN88,K7EJ58"	"UPI00003733EF"	""	""	""	""	"5/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"760fbeda-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"16322"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	35094377	35094377	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"49"	8	48	"48"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"760ff7ec-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.140350877192982	"WGS"	FALSE
"16323"	"MRPL45"	84311	"mskcc.org"	"GRCh37"	"17"	36470109	36470109	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.462-4477A>G"	""	""	"ENST00000312513"	""	30	"26"	4	28	"28"	0	"MRPL45,intron_variant,,ENST00000312513,NM_001278279.1,NM_032351.4;MRPL45,intron_variant,,ENST00000582535,;MRPL45,intron_variant,,ENST00000579911,;MRPL45,intron_variant,,ENST00000580762,;"	"G"	"ENSG00000174100"	"ENST00000312513"	"Transcript"	"intron_variant"	"-/1705"	"-/921"	"-/306"	""	""	""	"1"	NA	1	"MRPL45"	"HGNC"	16651	"protein_coding"	"YES"	"CCDS11326.1"	"ENSP00000308901"	"Q9BRJ2"	""	"UPI000013FDDF"	"NM_001278279.1,NM_032351.4"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"76103482-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"16324"	"RPL23"	9349	"mskcc.org"	"GRCh37"	"17"	37012700	37012700	"+"	"5'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000479035"	""	57	"51"	6	47	"47"	0	"RPL23,upstream_gene_variant,,ENST00000479035,NM_000978.3;RPL23,upstream_gene_variant,,ENST00000394332,;RPL23,upstream_gene_variant,,ENST00000577407,;RPL23,upstream_gene_variant,,ENST00000245857,;RPL23,upstream_gene_variant,,ENST00000394333,;RPL23,upstream_gene_variant,,ENST00000378096,;RPL23,upstream_gene_variant,,ENST00000470646,;SNORA21,upstream_gene_variant,,ENST00000516890,;SNORA21,upstream_gene_variant,,ENST00000362423,NR_002576.1;RPL23,upstream_gene_variant,,ENST00000577760,;RPL23,upstream_gene_variant,,ENST00000584912,;RPL23,upstream_gene_variant,,ENST00000584056,;RPS20P35,downstream_gene_variant,,ENST00000462007,;"	"G"	"ENSG00000125691"	"ENST00000479035"	"Transcript"	"upstream_gene_variant"	"-/2821"	"-/423"	"-/140"	""	""	""	"1"	"2604"	-1	"RPL23"	"HGNC"	10316	"protein_coding"	"YES"	"CCDS11330.1"	"ENSP00000420311"	"P62829"	"Q9BTQ7,J3QQT9,J3KTJ3"	"UPI0000006BF5"	"NM_000978.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"761044f4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"16325"	"KRTAP9-2"	83899	"mskcc.org"	"GRCh37"	"17"	39388362	39388362	"+"	"3'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000377721"	""	71	"55"	16	51	"51"	0	"KRTAP9-2,downstream_gene_variant,,ENST00000377721,NM_031961.2;KRTAP9-3,upstream_gene_variant,,ENST00000411528,NM_031962.2;KRTAP9-2,downstream_gene_variant,,ENST00000455970,;"	"G"	"ENSG00000239886"	"ENST00000377721"	"Transcript"	"downstream_gene_variant"	"-/1005"	"-/525"	"-/174"	""	""	""	"1"	"4458"	1	"KRTAP9-2"	"HGNC"	16926	"protein_coding"	"YES"	"CCDS32651.1"	"ENSP00000366950"	"Q9BYQ4"	"Q6ISF6"	"UPI000013CE13"	"NM_031961.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"761091ca-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225352112676056	"WGS"	FALSE
"16326"	"KRTAP9-8"	83901	"mskcc.org"	"GRCh37"	"17"	39395119	39395119	"+"	"3'UTR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*336T>A"	""	""	"ENST00000254072"	"1/1"	15	"12"	3	8	"8"	0	"KRTAP9-8,3_prime_UTR_variant,,ENST00000254072,NM_031963.2;"	"A"	"ENSG00000187272"	"ENST00000254072"	"Transcript"	"3_prime_UTR_variant"	"823/960"	"-/480"	"-/159"	""	""	""	"1"	NA	1	"KRTAP9-8"	"HGNC"	17231	"protein_coding"	"YES"	"CCDS42334.1"	"ENSP00000254072"	"Q9BYQ0"	""	"UPI000013CE12"	"NM_031963.2"	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7610942c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16327"	"KRTAP9-8"	83901	"mskcc.org"	"GRCh37"	"17"	39395120	39395120	"+"	"3'UTR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*337T>C"	""	""	"ENST00000254072"	"1/1"	15	"12"	3	8	"8"	0	"KRTAP9-8,3_prime_UTR_variant,,ENST00000254072,NM_031963.2;"	"C"	"ENSG00000187272"	"ENST00000254072"	"Transcript"	"3_prime_UTR_variant"	"824/960"	"-/480"	"-/159"	""	""	""	"1"	NA	1	"KRTAP9-8"	"HGNC"	17231	"protein_coding"	"YES"	"CCDS42334.1"	"ENSP00000254072"	"Q9BYQ0"	""	"UPI000013CE12"	"NM_031963.2"	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"76109486-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16328"	"KRTAP9-8"	83901	"mskcc.org"	"GRCh37"	"17"	39395121	39395121	"+"	"3'UTR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*338T>A"	""	""	"ENST00000254072"	"1/1"	15	"12"	3	8	"8"	0	"KRTAP9-8,3_prime_UTR_variant,,ENST00000254072,NM_031963.2;"	"A"	"ENSG00000187272"	"ENST00000254072"	"Transcript"	"3_prime_UTR_variant"	"825/960"	"-/480"	"-/159"	""	""	""	"1"	NA	1	"KRTAP9-8"	"HGNC"	17231	"protein_coding"	"YES"	"CCDS42334.1"	"ENSP00000254072"	"Q9BYQ0"	""	"UPI000013CE12"	"NM_031963.2"	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"761094e0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16329"	"ACLY"	47	"mskcc.org"	"GRCh37"	"17"	40023334	40023334	"+"	"3'UTR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*729A>G"	""	""	"ENST00000352035"	"29/29"	59	"44"	15	61	"61"	0	"ACLY,3_prime_UTR_variant,,ENST00000352035,NM_001096.2;ACLY,3_prime_UTR_variant,,ENST00000353196,NM_198830.1;ACLY,3_prime_UTR_variant,,ENST00000590151,;ACLY,downstream_gene_variant,,ENST00000393896,;ACLY,downstream_gene_variant,,ENST00000537919,;KLHL11,upstream_gene_variant,,ENST00000319121,NM_018143.1;ACLY,downstream_gene_variant,,ENST00000588779,;"	"C"	"ENSG00000131473"	"ENST00000352035"	"Transcript"	"3_prime_UTR_variant"	"4166/4339"	"-/3306"	"-/1101"	""	""	""	"1"	NA	-1	"ACLY"	"HGNC"	115	"protein_coding"	"YES"	"CCDS11412.1"	"ENSP00000253792"	"P53396"	"Q4LE36,K7ESG8,K7EIE7"	"UPI000013CDF3"	"NM_001096.2"	""	""	"29/29"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7610b39e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254237288135593	"WGS"	FALSE
"16330"	"C17orf53"	78995	"mskcc.org"	"GRCh37"	"17"	42217030	42217030	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000319977"	""	36	"31"	5	35	"35"	0	"C17orf53,upstream_gene_variant,,ENST00000319977,NM_024032.3,NM_001171251.1;C17orf53,upstream_gene_variant,,ENST00000585683,;C17orf53,upstream_gene_variant,,ENST00000245382,;RNU6-131P,upstream_gene_variant,,ENST00000391144,;"	"T"	"ENSG00000125319"	"ENST00000319977"	"Transcript"	"upstream_gene_variant"	"-/2725"	"-/1944"	"-/647"	""	""	""	"1"	"2244"	1	"C17orf53"	"HGNC"	28460	"protein_coding"	"YES"	"CCDS11477.1"	"ENSP00000313500"	"Q8N3J3"	""	"UPI0000073E49"	"NM_024032.3,NM_001171251.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"7610eed6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138888888888889	"WGS"	FALSE
"16331"	"TMUB2"	79089	"mskcc.org"	"GRCh37"	"17"	42267257	42267257	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs570872064"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.602+301C>T"	""	""	"ENST00000587989"	""	63	"58"	5	58	"58"	0	"TMUB2,3_prime_UTR_variant,,ENST00000589856,;TMUB2,intron_variant,,ENST00000319511,NM_177441.2;TMUB2,intron_variant,,ENST00000592825,;TMUB2,intron_variant,,ENST00000587989,;TMUB2,intron_variant,,ENST00000538716,NM_001076674.1;TMUB2,intron_variant,,ENST00000357984,NM_024107.2;TMUB2,intron_variant,,ENST00000589785,;TMUB2,intron_variant,,ENST00000589184,;TMUB2,intron_variant,,ENST00000587172,;TMUB2,intron_variant,,ENST00000446571,;TMUB2,intron_variant,,ENST00000590235,;TMUB2,intron_variant,,ENST00000587630,;ATXN7L3,downstream_gene_variant,,ENST00000389384,NM_001098833.1;ATXN7L3,downstream_gene_variant,,ENST00000454077,NM_020218.1;ATXN7L3,downstream_gene_variant,,ENST00000591295,;ATXN7L3,downstream_gene_variant,,ENST00000587097,;ATXN7L3,downstream_gene_variant,,ENST00000590537,;ASB16-AS1,upstream_gene_variant,,ENST00000585457,;ASB16-AS1,upstream_gene_variant,,ENST00000591166,;ASB16-AS1,upstream_gene_variant,,ENST00000588785,;ASB16-AS1,upstream_gene_variant,,ENST00000592897,;ATXN7L3,downstream_gene_variant,,ENST00000593073,;TMUB2,intron_variant,,ENST00000587326,;TMUB2,intron_variant,,ENST00000588413,;TMUB2,intron_variant,,ENST00000587775,;ATXN7L3,downstream_gene_variant,,ENST00000589607,;ATXN7L3,downstream_gene_variant,,ENST00000591807,;ATXN7L3,downstream_gene_variant,,ENST00000586688,;"	"T"	"ENSG00000168591"	"ENST00000587989"	"Transcript"	"intron_variant"	"-/1969"	"-/966"	"-/321"	""	""	"rs570872064"	"1"	NA	1	"TMUB2"	"HGNC"	28459	"protein_coding"	"YES"	"CCDS54134.1"	"ENSP00000466971"	"Q71RG4"	""	"UPI0000201381"	""	""	""	""	"3/3"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"7610f084-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0793650793650794	"WGS"	FALSE
"16332"	"GPATCH8"	23131	"mskcc.org"	"GRCh37"	"17"	42526945	42526945	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.194-13032G>A"	""	""	"ENST00000591680"	""	58	"39"	19	37	"37"	0	"GPATCH8,intron_variant,,ENST00000434000,;GPATCH8,intron_variant,,ENST00000591680,NM_001002909.2;GPATCH8,intron_variant,,ENST00000585614,;GPATCH8,upstream_gene_variant,,ENST00000586265,;GPATCH8,intron_variant,,ENST00000335500,;GPATCH8,intron_variant,,ENST00000587228,;GPATCH8,intron_variant,,ENST00000590041,;GPATCH8,intron_variant,,ENST00000592746,;GPATCH8,intron_variant,,ENST00000586037,;"	"T"	"ENSG00000186566"	"ENST00000591680"	"Transcript"	"intron_variant"	"-/4692"	"-/4509"	"-/1502"	""	""	""	"1"	NA	-1	"GPATCH8"	"HGNC"	29066	"protein_coding"	"YES"	"CCDS32666.1"	"ENSP00000467556"	"Q9UKJ3"	""	"UPI0000237985"	"NM_001002909.2"	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"7610f5ac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.327586206896552	"WGS"	FALSE
"16333"	"ARL17B"	51326	"mskcc.org"	"GRCh37"	"17"	44355687	44355687	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*22-2903T>A"	""	""	"ENST00000570618"	""	115	"102"	13	90	"90"	0	"ARL17B,intron_variant,,ENST00000570618,;"	"T"	"ENSG00000228696"	"ENST00000570618"	"Transcript"	"intron_variant"	"-/1140"	"-/378"	"-/125"	""	""	""	"1"	NA	-1	"ARL17B"	"HGNC"	32387	"protein_coding"	""	"CCDS54137.1"	"ENSP00000459151"	"Q8IVW1"	""	"UPI000006D6C2"	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"76113620-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.11304347826087	"WGS"	FALSE
"16334"	"TBX21"	30009	"mskcc.org"	"GRCh37"	"17"	45806886	45806886	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000177694"	""	69	"57"	12	57	"57"	0	"TBX21,upstream_gene_variant,,ENST00000177694,NM_013351.1;TBX21,upstream_gene_variant,,ENST00000581328,;"	"A"	"ENSG00000073861"	"ENST00000177694"	"Transcript"	"upstream_gene_variant"	"-/2572"	"-/1608"	"-/535"	""	""	""	"1"	"3724"	1	"TBX21"	"HGNC"	11599	"protein_coding"	"YES"	"CCDS11514.1"	"ENSP00000177694"	"Q9UL17"	""	"UPI0000001C88"	"NM_013351.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"76115754-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"16335"	"SP2"	6668	"mskcc.org"	"GRCh37"	"17"	45990031	45990031	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8-2647A>T"	""	""	"ENST00000376741"	""	73	"67"	6	40	"40"	0	"SP2,intron_variant,,ENST00000376741,NM_003110.5;AC003665.1,intron_variant,,ENST00000411573,;AC003665.1,intron_variant,,ENST00000451140,;AC003665.1,intron_variant,,ENST00000433001,;AC003665.1,intron_variant,,ENST00000585280,;"	"T"	"ENSG00000167182"	"ENST00000376741"	"Transcript"	"intron_variant"	"-/3112"	"-/1842"	"-/613"	""	""	""	"1"	NA	1	"SP2"	"HGNC"	11207	"protein_coding"	"YES"	"CCDS11521.2"	"ENSP00000365931"	"Q02086"	""	"UPI00005A7765"	"NM_003110.5"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"76115b5a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0821917808219178	"WGS"	FALSE
"16336"	"SKAP1"	8631	"mskcc.org"	"GRCh37"	"17"	46481246	46481246	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.47-7099A>G"	""	""	"ENST00000336915"	""	71	"65"	6	49	"49"	0	"SKAP1,intron_variant,,ENST00000336915,NM_003726.3,NM_001075099.1;SKAP1,intron_variant,,ENST00000584924,;SKAP1,intron_variant,,ENST00000584709,;"	"C"	"ENSG00000141293"	"ENST00000336915"	"Transcript"	"intron_variant"	"-/1534"	"-/1080"	"-/359"	""	""	""	"1"	NA	-1	"SKAP1"	"HGNC"	15605	"protein_coding"	"YES"	"CCDS32674.1"	"ENSP00000338171"	"Q86WV1"	"J3QS38,J3QRG3"	"UPI0000200EFD"	"NM_003726.3,NM_001075099.1"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"76116b22-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"16337"	"SPAG9"	9043	"mskcc.org"	"GRCh37"	"17"	49116958	49116958	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.741+1904A>G"	""	""	"ENST00000262013"	""	88	"67"	21	51	"51"	0	"SPAG9,intron_variant,,ENST00000262013,NM_001130528.2;SPAG9,intron_variant,,ENST00000510283,NM_001251971.1;SPAG9,intron_variant,,ENST00000357122,NM_003971.5;SPAG9,intron_variant,,ENST00000505279,NM_001130527.2;SPAG9,intron_variant,,ENST00000510855,;RP11-481C4.1,upstream_gene_variant,,ENST00000509833,;SPAG9,intron_variant,,ENST00000576492,;SPAG9,intron_variant,,ENST00000514613,;SPAG9,intron_variant,,ENST00000505173,;SPAG9,intron_variant,,ENST00000511987,;SPAG9,intron_variant,,ENST00000502329,;"	"C"	"ENSG00000008294"	"ENST00000262013"	"Transcript"	"intron_variant"	"-/8273"	"-/3966"	"-/1321"	""	""	""	"1"	NA	-1	"SPAG9"	"HGNC"	14524	"protein_coding"	"YES"	"CCDS45740.1"	"ENSP00000262013"	"O60271"	"H0Y981"	"UPI0000D60DF7"	"NM_001130528.2"	""	""	""	"5/29"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"7611c176-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238636363636364	"WGS"	FALSE
"16338"	"RN7SL699P"	0	"mskcc.org"	"GRCh37"	"17"	49677735	49677735	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000579661"	""	106	"76"	30	60	"60"	0	"RN7SL699P,upstream_gene_variant,,ENST00000579661,;"	"T"	"ENSG00000265171"	"ENST00000579661"	"Transcript"	"upstream_gene_variant"	"-/252"	""	""	""	""	""	"1"	"4617"	-1	"RN7SL699P"	"HGNC"	46715	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7611d0f8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283018867924528	"WGS"	FALSE
"16339"	"CA10"	56934	"mskcc.org"	"GRCh37"	"17"	50192947	50192947	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"rs201620570"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.61+42139T>A"	""	""	"ENST00000451037"	""	92	"85"	7	65	"65"	0	"CA10,intron_variant,,ENST00000451037,NM_020178.4;CA10,intron_variant,,ENST00000442502,NM_001082534.1;CA10,intron_variant,,ENST00000285273,NM_001082533.1;CA10,intron_variant,,ENST00000340813,;CA10,intron_variant,,ENST00000570565,;CA10,intron_variant,,ENST00000575181,;CA10,intron_variant,,ENST00000573294,;CA10,intron_variant,,ENST00000571371,;"	"T"	"ENSG00000154975"	"ENST00000451037"	"Transcript"	"intron_variant"	"-/3189"	"-/987"	"-/328"	""	""	"rs201620570"	"1"	NA	-1	"CA10"	"HGNC"	1369	"protein_coding"	"YES"	"CCDS32684.1"	"ENSP00000405388"	"Q9NS85"	"I3L375,B4DGL6"	"UPI000000167C"	"NM_020178.4"	""	""	""	"1/8"	""	"A:0.3097"	"T:0.6853"	"T:0.7017"	NA	"T:0.6419"	"T:0.7207"	"T:0.7076"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7611dc2e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"16340"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	51081819	51081819	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"102"	16	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"7611f128-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135593220338983	"WGS"	FALSE
"16341"	"MSI2"	124540	"mskcc.org"	"GRCh37"	"17"	55380283	55380283	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.312+40730C>T"	""	""	"ENST00000284073"	""	70	"50"	20	66	"66"	0	"MSI2,intron_variant,,ENST00000284073,NM_138962.2;MSI2,intron_variant,,ENST00000322684,NM_170721.1;MSI2,intron_variant,,ENST00000416426,;MSI2,intron_variant,,ENST00000579180,;MSI2,intron_variant,,ENST00000442934,;MSI2,intron_variant,,ENST00000579590,;MSI2,intron_variant,,ENST00000582453,;MSI2,intron_variant,,ENST00000581776,;"	"T"	"ENSG00000153944"	"ENST00000284073"	"Transcript"	"intron_variant"	"-/6364"	"-/987"	"-/328"	""	""	""	"1"	NA	1	"MSI2"	"HGNC"	18585	"protein_coding"	"YES"	"CCDS11596.1"	"ENSP00000284073"	"Q96DH6"	""	"UPI0000070D73"	"NM_138962.2"	""	""	""	"5/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"761269a0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	TRUE
"16342"	"DHX40"	79665	"mskcc.org"	"GRCh37"	"17"	57670039	57670039	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1582+4625A>T"	""	""	"ENST00000251241"	""	38	"34"	4	21	"21"	0	"DHX40,intron_variant,,ENST00000451169,;DHX40,intron_variant,,ENST00000251241,NM_024612.4;DHX40,intron_variant,,ENST00000425628,NM_001166301.1;DHX40,intron_variant,,ENST00000538926,;DHX40,intron_variant,,ENST00000583439,;"	"T"	"ENSG00000108406"	"ENST00000251241"	"Transcript"	"intron_variant"	"-/3660"	"-/2340"	"-/779"	""	""	""	"1"	NA	1	"DHX40"	"HGNC"	18018	"protein_coding"	"YES"	"CCDS11617.1"	"ENSP00000251241"	"Q8IX18"	""	"UPI000006E150"	"NM_024612.4"	""	""	""	"12/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"7612ac6c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"16343"	"RP11-15E18.4"	0	"mskcc.org"	"GRCh37"	"17"	58664703	58664703	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"rs539587469"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000592917"	""	56	"45"	11	43	"43"	0	"RP11-15E18.4,downstream_gene_variant,,ENST00000592917,;"	"A"	"ENSG00000267772"	"ENST00000592917"	"Transcript"	"downstream_gene_variant"	"-/646"	"-/276"	"-/91"	""	""	"rs539587469"	"1"	"719"	1	"RP11-15E18.4"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000468052"	""	"K7ER01"	"UPI0000198305"	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"7612d6a6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196428571428571	"WGS"	FALSE
"16344"	"RP11-15E18.4"	0	"mskcc.org"	"GRCh37"	"17"	58666485	58666485	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000592917"	""	56	"51"	5	55	"55"	0	"RP11-15E18.4,downstream_gene_variant,,ENST00000592917,;"	"G"	"ENSG00000267772"	"ENST00000592917"	"Transcript"	"downstream_gene_variant"	"-/646"	"-/276"	"-/91"	""	""	""	"1"	"2501"	1	"RP11-15E18.4"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000468052"	""	"K7ER01"	"UPI0000198305"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"7612d700-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0892857142857143	"WGS"	FALSE
"16345"	"SMURF2"	64750	"mskcc.org"	"GRCh37"	"17"	62647084	62647084	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.52+10863G>T"	""	""	"ENST00000262435"	""	60	"56"	4	48	"48"	0	"SMURF2,intron_variant,,ENST00000262435,NM_022739.3;SMURF2,intron_variant,,ENST00000585301,;SMURF2,intron_variant,,ENST00000578200,;SMURF2,intron_variant,,ENST00000582081,;SMURF2,intron_variant,,ENST00000578386,;"	"A"	"ENSG00000108854"	"ENST00000262435"	"Transcript"	"intron_variant"	"-/2918"	"-/2247"	"-/748"	""	""	""	"1"	NA	-1	"SMURF2"	"HGNC"	16809	"protein_coding"	"YES"	"CCDS32707.1"	"ENSP00000262435"	"Q9HAU4"	"Q96DE7"	"UPI00001361C5"	"NM_022739.3"	""	""	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76134492-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"16346"	"CACNG5"	27091	"mskcc.org"	"GRCh37"	"17"	64876285	64876285	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.284-389C>T"	""	""	"ENST00000533854"	""	96	"87"	9	65	"65"	0	"CACNG5,intron_variant,,ENST00000533854,;CACNG5,intron_variant,,ENST00000169565,;CACNG5,intron_variant,,ENST00000307139,NM_145811.2;"	"T"	"ENSG00000075429"	"ENST00000533854"	"Transcript"	"intron_variant"	"-/1311"	"-/828"	"-/275"	""	""	""	"1"	NA	1	"CACNG5"	"HGNC"	1409	"protein_coding"	"YES"	"CCDS11665.1"	"ENSP00000436836"	"Q9UF02"	""	"UPI0000001240"	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"7613e096-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"16347"	"SNORA8"	0	"mskcc.org"	"GRCh37"	"17"	65271892	65271892	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384679"	""	58	"53"	5	24	"24"	0	"SNORA8,downstream_gene_variant,,ENST00000384679,;RP11-401F2.2,downstream_gene_variant,,ENST00000582714,;"	"C"	"ENSG00000207410"	"ENST00000384679"	"Transcript"	"downstream_gene_variant"	"-/139"	""	""	""	""	""	"1"	"4169"	1	"SNORA8"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7613eea6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0862068965517241	"WGS"	FALSE
"16348"	"PITPNC1"	26207	"mskcc.org"	"GRCh37"	"17"	65464599	65464599	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.49-64319G>C"	""	""	"ENST00000581322"	""	43	"38"	5	26	"26"	0	"PITPNC1,intron_variant,,ENST00000580974,NM_012417.3,NM_181671.2;PITPNC1,intron_variant,,ENST00000299954,;PITPNC1,intron_variant,,ENST00000335257,;PITPNC1,intron_variant,,ENST00000581322,;PITPNC1,intron_variant,,ENST00000584554,;PITPNC1,intron_variant,,ENST00000584471,;MIR548AA2,upstream_gene_variant,,ENST00000384955,;"	"C"	"ENSG00000154217"	"ENST00000581322"	"Transcript"	"intron_variant"	"-/1124"	"-/999"	"-/332"	""	""	""	"1"	NA	1	"PITPNC1"	"HGNC"	21045	"protein_coding"	"YES"	"CCDS58588.1"	"ENSP00000464006"	""	"J3QS95,J3QRS7,J3QR20"	"UPI00001AE46B"	""	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"7613f324-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116279069767442	"WGS"	FALSE
"16349"	"PITPNC1"	26207	"mskcc.org"	"GRCh37"	"17"	65667213	65667213	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.618+1434G>T"	""	""	"ENST00000581322"	""	53	"40"	13	29	"29"	0	"PITPNC1,intron_variant,,ENST00000580974,NM_012417.3,NM_181671.2;PITPNC1,intron_variant,,ENST00000299954,;PITPNC1,intron_variant,,ENST00000335257,;PITPNC1,intron_variant,,ENST00000581322,;PITPNC1,intron_variant,,ENST00000578527,;"	"T"	"ENSG00000154217"	"ENST00000581322"	"Transcript"	"intron_variant"	"-/1124"	"-/999"	"-/332"	""	""	""	"1"	NA	1	"PITPNC1"	"HGNC"	21045	"protein_coding"	"YES"	"CCDS58588.1"	"ENSP00000464006"	""	"J3QS95,J3QRS7,J3QR20"	"UPI00001AE46B"	""	""	""	""	"7/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7613fb6c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245283018867925	"WGS"	FALSE
"16350"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	65756588	65756588	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"50"	4	41	"41"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"7613feb4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"16351"	"LRRC37A16P"	0	"mskcc.org"	"GRCh37"	"17"	66134055	66134055	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs182736654"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1887+2706G>A"	""	""	"ENST00000586022"	""	69	"52"	17	55	"55"	0	"LRRC37A16P,intron_variant,,ENST00000590019,;LRRC37A16P,intron_variant,,ENST00000585915,;LRRC37A16P,intron_variant,,ENST00000586022,;SH3GL1P3,upstream_gene_variant,,ENST00000590010,;"	"T"	"ENSG00000267023"	"ENST00000586022"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3725"	""	""	""	""	"rs182736654"	"1"	NA	-1	"LRRC37A16P"	"HGNC"	43820	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"9/14"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"76140bf2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246376811594203	"WGS"	FALSE
"16352"	"ABCA5"	23461	"mskcc.org"	"GRCh37"	"17"	67287327	67287327	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1606+30C>A"	""	""	"ENST00000392676"	""	103	"97"	6	58	"58"	0	"ABCA5,intron_variant,,ENST00000392676,;ABCA5,intron_variant,,ENST00000392677,NM_172232.2;ABCA5,intron_variant,,ENST00000588877,NM_018672.3;ABCA5,intron_variant,,ENST00000593153,;ABCA5,intron_variant,,ENST00000586995,;ABCA5,upstream_gene_variant,,ENST00000591234,;"	"T"	"ENSG00000154265"	"ENST00000392676"	"Transcript"	"intron_variant"	"-/8220"	"-/4929"	"-/1642"	""	""	""	"1"	NA	-1	"ABCA5"	"HGNC"	35	"protein_coding"	"YES"	"CCDS11685.1"	"ENSP00000376443"	"Q8WWZ7"	"K7EQ50,K7EPM3,K7EMV2,K7EJW6"	"UPI000013DD9E"	""	""	""	""	"12/38"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"761428c6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.058252427184466	"WGS"	FALSE
"16353"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	68568018	68568018	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"79"	22	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"7614556c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217821782178218	"WGS"	FALSE
"16354"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	69690074	69690074	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	129	"101"	28	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"76148564-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217054263565891	"WGS"	FALSE
"16355"	"SLC39A11"	201266	"mskcc.org"	"GRCh37"	"17"	70869293	70869293	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.452-23350G>A"	""	""	"ENST00000542342"	""	82	"62"	20	60	"60"	0	"SLC39A11,intron_variant,,ENST00000542342,NM_001159770.1;SLC39A11,intron_variant,,ENST00000255559,NM_139177.3;SLC39A11,intron_variant,,ENST00000579732,;SLC39A11,intron_variant,,ENST00000580557,;SLC39A11,intron_variant,,ENST00000582769,;SLC39A11,intron_variant,,ENST00000583146,;SLC39A11,intron_variant,,ENST00000579491,;SLC39A11,intron_variant,,ENST00000584129,;"	"T"	"ENSG00000133195"	"ENST00000542342"	"Transcript"	"intron_variant"	"-/2752"	"-/1029"	"-/342"	""	""	""	"1"	NA	-1	"SLC39A11"	"HGNC"	14463	"protein_coding"	"YES"	"CCDS54160.1"	"ENSP00000445829"	"Q8N1S5"	"J3QLA9,J3KT59,J3KRI1"	"UPI000020017B"	"NM_001159770.1"	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7614ada0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24390243902439	"WGS"	FALSE
"16356"	"SDK2"	54549	"mskcc.org"	"GRCh37"	"17"	71454229	71454229	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs760297364"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.332-2037G>A"	""	""	"ENST00000392650"	""	78	"62"	16	71	"71"	0	"SDK2,intron_variant,,ENST00000392650,NM_001144952.1;SDK2,intron_variant,,ENST00000388726,;"	"T"	"ENSG00000069188"	"ENST00000392650"	"Transcript"	"intron_variant"	"-/10723"	"-/6519"	"-/2172"	""	""	"rs760297364"	"1"	NA	-1	"SDK2"	"HGNC"	19308	"protein_coding"	"YES"	"CCDS45769.1"	"ENSP00000376421"	"Q58EX2"	""	"UPI0000E5A088"	"NM_001144952.1"	""	""	""	"3/44"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7614c0a6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205128205128205	"WGS"	FALSE
"16357"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	72494977	72494977	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"49"	8	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"7614e428-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.140350877192982	"WGS"	FALSE
"16358"	"CD300C"	10871	"mskcc.org"	"GRCh37"	"17"	72545403	72545403	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000330793"	""	74	"58"	16	58	"58"	0	"CD300C,upstream_gene_variant,,ENST00000330793,NM_006678.4;AC079325.5,downstream_gene_variant,,ENST00000430386,;"	"A"	"ENSG00000167850"	"ENST00000330793"	"Transcript"	"upstream_gene_variant"	"-/1517"	"-/675"	"-/224"	""	""	""	"1"	"3121"	-1	"CD300C"	"HGNC"	19320	"protein_coding"	"YES"	"CCDS11701.1"	"ENSP00000329507"	"Q08708"	""	"UPI0000127BB8"	"NM_006678.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7614e680-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216216216216216	"WGS"	FALSE
"16359"	"HID1"	283987	"mskcc.org"	"GRCh37"	"17"	72964485	72964485	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67-3758G>A"	""	""	"ENST00000425042"	""	62	"50"	12	45	"45"	0	"HID1,intron_variant,,ENST00000425042,NM_030630.2;HID1,intron_variant,,ENST00000530857,;HID1,intron_variant,,ENST00000581676,;RP11-309N17.4,upstream_gene_variant,,ENST00000577295,;HID1,intron_variant,,ENST00000532900,;HID1,intron_variant,,ENST00000579818,;HID1,intron_variant,,ENST00000530904,;HID1,intron_variant,,ENST00000534480,;HID1,intron_variant,,ENST00000528902,;HID1,intron_variant,,ENST00000525128,;"	"T"	"ENSG00000167861"	"ENST00000425042"	"Transcript"	"intron_variant"	"-/3271"	"-/2367"	"-/788"	""	""	""	"1"	NA	-1	"HID1"	"HGNC"	15736	"protein_coding"	"YES"	"CCDS32726.1"	"ENSP00000413520"	"Q8IV36"	"Q8NC03,B4E226"	"UPI00000746AC"	"NM_030630.2"	""	""	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7614f788-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193548387096774	"WGS"	FALSE
"16360"	"SLC16A5"	9121	"mskcc.org"	"GRCh37"	"17"	73081311	73081311	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000450736"	""	50	"42"	8	28	"28"	0	"SLC16A5,upstream_gene_variant,,ENST00000450736,;SLC16A5,upstream_gene_variant,,ENST00000580123,NM_001271765.1;SLC16A5,upstream_gene_variant,,ENST00000329783,NM_004695.3;SLC16A5,upstream_gene_variant,,ENST00000578376,;SLC16A5,upstream_gene_variant,,ENST00000584207,;SLC16A5,upstream_gene_variant,,ENST00000578847,;Y_RNA,downstream_gene_variant,,ENST00000383986,;SLC16A5,upstream_gene_variant,,ENST00000585293,;SLC16A5,upstream_gene_variant,,ENST00000582048,;"	"A"	"ENSG00000170190"	"ENST00000450736"	"Transcript"	"upstream_gene_variant"	"-/2051"	"-/1518"	"-/505"	""	""	""	"1"	"3722"	1	"SLC16A5"	"HGNC"	10926	"protein_coding"	"YES"	"CCDS11713.1"	"ENSP00000390564"	"O15375"	"J3QQW5,J3QL40,J3KT93"	"UPI0000000DC7"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7614fa58-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WGS"	FALSE
"16361"	"KIAA0195"	9772	"mskcc.org"	"GRCh37"	"17"	73439654	73439654	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-107+2330A>T"	""	""	"ENST00000577380"	""	32	"28"	4	29	"29"	0	"KIAA0195,intron_variant,,ENST00000577380,;"	"T"	"ENSG00000177728"	"ENST00000577380"	"Transcript"	"intron_variant"	"-/554"	"-/363"	"-/121"	""	""	""	"1"	NA	1	"KIAA0195"	"HGNC"	28983	"protein_coding"	""	""	"ENSP00000464479"	""	"J3QS17,J3KT63,J3KRU7"	"UPI000268B317"	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"76150df4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"16362"	"MYO15B"	80022	"mskcc.org"	"GRCh37"	"17"	73596768	73596768	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000583560"	""	55	"46"	9	48	"48"	0	"MYO15B,splice_region_variant,,ENST00000584762,;MYO15B,upstream_gene_variant,,ENST00000583560,;MYO15B,intron_variant,,ENST00000578382,;MYO15B,intron_variant,,ENST00000584516,;MYO15B,upstream_gene_variant,,ENST00000584323,;MYO15B,upstream_gene_variant,,ENST00000582012,;"	"G"	"ENSG00000266714"	"ENST00000583560"	"Transcript"	"upstream_gene_variant"	"-/769"	"-/769"	"-/256"	""	""	""	"1"	"1830"	1	"MYO15B"	"HGNC"	14083	"protein_coding"	"YES"	""	"ENSP00000463645"	"Q96JP2"	"J3QLP5"	"UPI000268B34F"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"761512d6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163636363636364	"WGS"	FALSE
"16363"	"C17orf99"	100141515	"mskcc.org"	"GRCh37"	"17"	76144861	76144861	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.70+1869G>A"	""	""	"ENST00000340363"	""	38	"28"	10	38	"38"	0	"C17orf99,intron_variant,,ENST00000340363,NM_001163075.1;C17orf99,intron_variant,,ENST00000591995,;C17orf99,intron_variant,,ENST00000586999,;"	"A"	"ENSG00000187997"	"ENST00000340363"	"Transcript"	"intron_variant"	"-/984"	"-/798"	"-/265"	""	""	""	"1"	NA	1	"C17orf99"	"HGNC"	34490	"protein_coding"	"YES"	"CCDS54171.1"	"ENSP00000343493"	"Q6UX52"	""	"UPI000049DE67"	"NM_001163075.1"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"761571f4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"16364"	"PGS1"	9489	"mskcc.org"	"GRCh37"	"17"	76419546	76419546	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*11-596C>T"	""	""	"ENST00000262764"	""	75	"56"	19	68	"67"	1	"PGS1,intron_variant,,ENST00000262764,NM_024419.3;PGS1,intron_variant,,ENST00000329897,;DNAH17,downstream_gene_variant,,ENST00000389840,;DNAH17,downstream_gene_variant,,ENST00000585328,NM_173628.3;PGS1,downstream_gene_variant,,ENST00000586355,;PGS1,downstream_gene_variant,,ENST00000586019,;AC061992.1,upstream_gene_variant,,ENST00000600087,;PGS1,intron_variant,,ENST00000588281,;PGS1,intron_variant,,ENST00000586880,;DNAH17,downstream_gene_variant,,ENST00000586052,;PGS1,downstream_gene_variant,,ENST00000585521,;DNAH17,downstream_gene_variant,,ENST00000586850,;DNAH17,downstream_gene_variant,,ENST00000592192,;PGS1,intron_variant,,ENST00000589426,;PGS1,intron_variant,,ENST00000589425,;PGS1,intron_variant,,ENST00000588169,;DNAH17,downstream_gene_variant,,ENST00000591369,;DNAH17,downstream_gene_variant,,ENST00000590227,;PGS1,downstream_gene_variant,,ENST00000591996,;DNAH17,downstream_gene_variant,,ENST00000591647,;"	"T"	"ENSG00000087157"	"ENST00000262764"	"Transcript"	"intron_variant"	"-/2201"	"-/1671"	"-/556"	""	""	""	"1"	NA	1	"PGS1"	"HGNC"	30029	"protein_coding"	"YES"	"CCDS42391.1"	"ENSP00000262764"	"Q32NB8"	""	"UPI00000435E5"	"NM_024419.3"	""	""	""	"9/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"76157974-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253333333333333	"WGS"	FALSE
"16365"	"RBFOX3"	146713	"mskcc.org"	"GRCh37"	"17"	77133635	77133635	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-33-21805G>A"	""	""	"ENST00000415831"	""	78	"62"	16	65	"65"	0	"RBFOX3,intron_variant,,ENST00000583458,;RBFOX3,intron_variant,,ENST00000415831,;RBFOX3,intron_variant,,ENST00000584778,;RBFOX3,intron_variant,,ENST00000453134,;RBFOX3,intron_variant,,ENST00000580155,NM_001082575.2;RBFOX3,intron_variant,,ENST00000582043,;RBFOX3,intron_variant,,ENST00000580508,;RBFOX3,intron_variant,,ENST00000582139,;RP11-398J5.1,downstream_gene_variant,,ENST00000583980,;"	"T"	"ENSG00000167281"	"ENST00000415831"	"Transcript"	"intron_variant"	"-/2678"	"-/939"	"-/312"	""	""	""	"1"	NA	-1	"RBFOX3"	"HGNC"	27097	"protein_coding"	"YES"	"CCDS45805.1"	"ENSP00000408395"	"A6NFN3"	""	"UPI000020041C"	""	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76158b62-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205128205128205	"WGS"	FALSE
"16366"	"AATK-AS1"	388428	"mskcc.org"	"GRCh37"	"17"	79149400	79149400	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.410-3318G>T"	""	""	"ENST00000414089"	""	81	"76"	5	51	"51"	0	"AATK-AS1,intron_variant,,ENST00000414089,;AATK-AS1,intron_variant,,ENST00000571031,;"	"T"	"ENSG00000225180"	"ENST00000414089"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1577"	""	""	""	""	""	"1"	NA	1	"AATK-AS1"	"HGNC"	40053	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"76161cda-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"16367"	"ENTHD2"	146705	"mskcc.org"	"GRCh37"	"17"	79209426	79209426	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.307+1082C>G"	""	""	"ENST00000300714"	""	83	"64"	19	53	"53"	0	"ENTHD2,intron_variant,,ENST00000374769,;ENTHD2,intron_variant,,ENST00000300714,NM_144679.2;ENTHD2,intron_variant,,ENST00000571094,;C17orf89,upstream_gene_variant,,ENST00000431388,NM_001086521.1;C17orf89,upstream_gene_variant,,ENST00000576002,;AC027601.1,downstream_gene_variant,,ENST00000575922,;AC027601.1,downstream_gene_variant,,ENST00000569559,;C17orf89,upstream_gene_variant,,ENST00000573173,;ENTHD2,downstream_gene_variant,,ENST00000575961,;ENTHD2,downstream_gene_variant,,ENST00000575891,;C17orf89,upstream_gene_variant,,ENST00000575067,;ENTHD2,intron_variant,,ENST00000576090,;ENTHD2,intron_variant,,ENST00000573295,;ENTHD2,intron_variant,,ENST00000570854,;ENTHD2,upstream_gene_variant,,ENST00000574944,;C17orf89,upstream_gene_variant,,ENST00000573090,;ENTHD2,downstream_gene_variant,,ENST00000571601,;ENTHD2,downstream_gene_variant,,ENST00000572050,;ENTHD2,downstream_gene_variant,,ENST00000574517,;ENTHD2,upstream_gene_variant,,ENST00000571115,;C17orf89,upstream_gene_variant,,ENST00000577158,;"	"C"	"ENSG00000167302"	"ENST00000300714"	"Transcript"	"intron_variant"	"-/2287"	"-/1578"	"-/525"	""	""	""	"1"	NA	-1	"ENTHD2"	"HGNC"	26458	"protein_coding"	"YES"	"CCDS11779.1"	"ENSP00000300714"	"Q96N21"	""	"UPI0000071221"	"NM_144679.2"	""	""	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76161f64-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228915662650602	"WGS"	FALSE
"16368"	"P4HB"	5034	"mskcc.org"	"GRCh37"	"17"	79819754	79819754	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000331483"	""	54	"48"	6	48	"48"	0	"P4HB,upstream_gene_variant,,ENST00000331483,NM_000918.3;P4HB,upstream_gene_variant,,ENST00000439918,;P4HB,upstream_gene_variant,,ENST00000576380,;P4HB,upstream_gene_variant,,ENST00000573778,;P4HB,upstream_gene_variant,,ENST00000574914,;P4HB,upstream_gene_variant,,ENST00000576541,;P4HB,upstream_gene_variant,,ENST00000576052,;P4HB,upstream_gene_variant,,ENST00000571617,;P4HB,upstream_gene_variant,,ENST00000576390,;P4HB,upstream_gene_variant,,ENST00000570907,;P4HB,upstream_gene_variant,,ENST00000472244,;P4HB,upstream_gene_variant,,ENST00000467086,;P4HB,upstream_gene_variant,,ENST00000471535,;P4HB,upstream_gene_variant,,ENST00000575069,;P4HB,upstream_gene_variant,,ENST00000574007,;P4HB,upstream_gene_variant,,ENST00000466567,;"	"A"	"ENSG00000185624"	"ENST00000331483"	"Transcript"	"upstream_gene_variant"	"-/2603"	"-/1527"	"-/508"	""	""	""	"1"	"1184"	-1	"P4HB"	"HGNC"	8548	"protein_coding"	"YES"	"CCDS11787.1"	"ENSP00000327801"	"P07237"	"B3KTQ9"	"UPI0000000CAA"	"NM_000918.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTA"	"76164ad4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"16369"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	80663490	80663490	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	58	"45"	13	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"76167b9e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224137931034483	"WGS"	FALSE
"16370"	"TBCD"	6904	"mskcc.org"	"GRCh37"	"17"	80828522	80828522	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1475+266A>T"	""	""	"ENST00000355528"	""	101	"80"	21	62	"62"	0	"TBCD,intron_variant,,ENST00000355528,NM_005993.4;TBCD,intron_variant,,ENST00000539345,;TBCD,intron_variant,,ENST00000397466,;TBCD,intron_variant,,ENST00000576160,;TBCD,intron_variant,,ENST00000571712,;TBCD,intron_variant,,ENST00000576996,;TBCD,intron_variant,,ENST00000574801,;"	"T"	"ENSG00000141556"	"ENST00000355528"	"Transcript"	"intron_variant"	"-/4094"	"-/3579"	"-/1192"	""	""	""	"1"	NA	1	"TBCD"	"HGNC"	11581	"protein_coding"	"YES"	"CCDS45818.1"	"ENSP00000347719"	"Q9BTW9"	"I3L4D2,I3L439,I3L3H4,I3L1S3,I3L163,I3L131"	"UPI000020053F"	"NM_005993.4"	""	""	""	"14/38"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"761689e0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207920792079208	"WGS"	FALSE
"16371"	"EMILIN2"	84034	"mskcc.org"	"GRCh37"	"18"	2845356	2845356	"+"	"5'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000254528"	""	66	"48"	18	48	"48"	0	"EMILIN2,upstream_gene_variant,,ENST00000254528,NM_032048.2;"	"G"	"ENSG00000132205"	"ENST00000254528"	"Transcript"	"upstream_gene_variant"	"-/5910"	"-/3162"	"-/1053"	""	""	""	"1"	"1672"	1	"EMILIN2"	"HGNC"	19881	"protein_coding"	"YES"	"CCDS11828.1"	"ENSP00000254528"	"Q9BXX0"	""	"UPI000013CE3E"	"NM_032048.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"761770ee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"16372"	"EMILIN2"	84034	"mskcc.org"	"GRCh37"	"18"	2845501	2845501	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000254528"	""	74	"61"	13	38	"38"	0	"EMILIN2,upstream_gene_variant,,ENST00000254528,NM_032048.2;"	"A"	"ENSG00000132205"	"ENST00000254528"	"Transcript"	"upstream_gene_variant"	"-/5910"	"-/3162"	"-/1053"	""	""	""	"1"	"1527"	1	"EMILIN2"	"HGNC"	19881	"protein_coding"	"YES"	"CCDS11828.1"	"ENSP00000254528"	"Q9BXX0"	""	"UPI000013CE3E"	"NM_032048.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"76177148-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175675675675676	"WGS"	FALSE
"16373"	"MYL12B"	103910	"mskcc.org"	"GRCh37"	"18"	3261976	3261976	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000581193"	""	66	"56"	10	59	"59"	0	"MYL12B,5_prime_UTR_variant,,ENST00000237500,NM_033546.3;MYL12B,upstream_gene_variant,,ENST00000581193,NM_001144945.1;MYL12B,upstream_gene_variant,,ENST00000584539,;MYL12B,upstream_gene_variant,,ENST00000400175,NM_001144944.1;RP13-270P17.1,upstream_gene_variant,,ENST00000578800,;RP13-270P17.1,upstream_gene_variant,,ENST00000581905,;"	"A"	"ENSG00000118680"	"ENST00000581193"	"Transcript"	"upstream_gene_variant"	"-/1249"	"-/519"	"-/172"	""	""	""	"1"	"439"	1	"MYL12B"	"HGNC"	29827	"protein_coding"	"YES"	"CCDS11831.1"	"ENSP00000463559"	"O14950"	""	"UPI0000024704"	"NM_001144945.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"76177904-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.151515151515152	"WGS"	FALSE
"16374"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	5264026	5264026	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"90"	8	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"7617bf2c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WGS"	FALSE
"16375"	"LAMA1"	284217	"mskcc.org"	"GRCh37"	"18"	7050961	7050961	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.346-26G>A"	""	""	"ENST00000389658"	""	73	"54"	19	50	"50"	0	"LAMA1,intron_variant,,ENST00000389658,NM_005559.3;LAMA1,intron_variant,,ENST00000579014,;"	"T"	"ENSG00000101680"	"ENST00000389658"	"Transcript"	"intron_variant"	"-/9657"	"-/9228"	"-/3075"	""	""	""	"1"	NA	-1	"LAMA1"	"HGNC"	6481	"protein_coding"	"YES"	"CCDS32787.1"	"ENSP00000374309"	"P25391"	"Q7Z5W6,Q6P6D3"	"UPI00001C1FF9"	"NM_005559.3"	""	""	""	"3/62"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"7617e4ca-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26027397260274	"WGS"	FALSE
"16376"	"APCDD1"	147495	"mskcc.org"	"GRCh37"	"18"	10470041	10470041	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.242+1392G>A"	""	""	"ENST00000355285"	""	114	"82"	32	69	"69"	0	"APCDD1,intron_variant,,ENST00000355285,NM_153000.4;APCDD1,intron_variant,,ENST00000578882,;APCDD1,upstream_gene_variant,,ENST00000584596,;APCDD1,intron_variant,,ENST00000423585,;APCDD1,intron_variant,,ENST00000582723,;APCDD1,upstream_gene_variant,,ENST00000579685,;"	"A"	"ENSG00000154856"	"ENST00000355285"	"Transcript"	"intron_variant"	"-/3809"	"-/1545"	"-/514"	""	""	""	"1"	NA	1	"APCDD1"	"HGNC"	15718	"protein_coding"	"YES"	"CCDS11849.1"	"ENSP00000347433"	"Q8J025"	""	"UPI000000D766"	"NM_153000.4"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"76183966-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280701754385965	"WGS"	FALSE
"16377"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	11281725	11281725	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs61341669"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"81"	26	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs61341669"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.1416"	"T:0.2375"	"T:0.0447"	NA	"T:0.2401"	"T:0.0258"	"T:0.0982"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"7618502c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242990654205607	"WGS"	FALSE
"16378"	"RP11-93H10.1"	0	"mskcc.org"	"GRCh37"	"18"	11328656	11328656	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1563-91C>A"	""	""	"ENST00000580702"	""	95	"89"	6	66	"66"	0	"RP11-93H10.1,intron_variant,,ENST00000580702,;"	"A"	"ENSG00000263682"	"ENST00000580702"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1647"	""	""	""	""	""	"1"	NA	1	"RP11-93H10.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76185252-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0631578947368421	"WGS"	FALSE
"16379"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	11952995	11952995	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	52	"45"	7	33	"33"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"7618617a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134615384615385	"WGS"	FALSE
"16380"	"CEP192"	55125	"mskcc.org"	"GRCh37"	"18"	13120232	13120232	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7475+2590C>T"	""	""	"ENST00000506447"	""	84	"68"	16	67	"67"	0	"CEP192,intron_variant,,ENST00000506447,NM_032142.3;CEP192,intron_variant,,ENST00000325971,;CEP192,intron_variant,,ENST00000430049,;CEP192,intron_variant,,ENST00000511820,;CEP192,intron_variant,,ENST00000540847,;CEP192,intron_variant,,ENST00000513183,;CEP192,downstream_gene_variant,,ENST00000508539,;CEP192,intron_variant,,ENST00000513432,;CEP192,intron_variant,,ENST00000510237,;CEP192,intron_variant,,ENST00000589993,;"	"T"	"ENSG00000101639"	"ENST00000506447"	"Transcript"	"intron_variant"	"-/7960"	"-/7614"	"-/2537"	""	""	""	"1"	NA	1	"CEP192"	"HGNC"	25515	"protein_coding"	"YES"	"CCDS32792.2"	"ENSP00000427550"	""	"E9PF99"	"UPI0001B09235"	"NM_032142.3"	""	""	""	"44/44"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"7618892a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"16381"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	14278249	14278249	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"65"	18	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7618c872-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216867469879518	"WGS"	FALSE
"16382"	"RP11-454P7.3"	0	"mskcc.org"	"GRCh37"	"18"	15192825	15192825	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000581666"	""	131	"102"	29	65	"65"	0	"RP11-454P7.3,downstream_gene_variant,,ENST00000581666,;RP11-454P7.3,downstream_gene_variant,,ENST00000581653,;"	"T"	"ENSG00000265015"	"ENST00000581666"	"Transcript"	"downstream_gene_variant"	"-/415"	""	""	""	""	""	"1"	"4173"	-1	"RP11-454P7.3"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"761914a8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221374045801527	"WGS"	FALSE
"16383"	"SS18"	6760	"mskcc.org"	"GRCh37"	"18"	23647599	23647599	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.232-9893C>T"	""	""	"ENST00000415083"	""	92	"71"	21	52	"52"	0	"SS18,intron_variant,,ENST00000415083,NM_001007559.1,NM_005637.2;SS18,intron_variant,,ENST00000542420,;SS18,intron_variant,,ENST00000269137,;SS18,intron_variant,,ENST00000542743,;SS18,intron_variant,,ENST00000539849,;SS18,intron_variant,,ENST00000545952,;SS18,intron_variant,,ENST00000584083,;SS18,intron_variant,,ENST00000579061,;SS18,intron_variant,,ENST00000581021,;SS18,intron_variant,,ENST00000585241,;SS18,intron_variant,,ENST00000577751,;SS18,intron_variant,,ENST00000579640,;SS18,intron_variant,,ENST00000269138,;SS18,intron_variant,,ENST00000585121,;SS18,intron_variant,,ENST00000539244,;SS18,intron_variant,,ENST00000578954,;SS18,intron_variant,,ENST00000582448,;SS18,intron_variant,,ENST00000577636,;SS18,intron_variant,,ENST00000578700,;SS18,intron_variant,,ENST00000581570,;SS18,intron_variant,,ENST00000582792,;SS18,intron_variant,,ENST00000577572,;SS18,downstream_gene_variant,,ENST00000580003,;"	"A"	"ENSG00000141380"	"ENST00000415083"	"Transcript"	"intron_variant"	"-/3053"	"-/1257"	"-/418"	""	""	""	"1"	NA	-1	"SS18"	"HGNC"	11340	"protein_coding"	"YES"	"CCDS32807.1"	"ENSP00000414516"	"Q15532"	"J3QQX5,J3QLJ7,J3KT22,B4DR34,B4DLD3"	"UPI0000136056"	"NM_001007559.1,NM_005637.2"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"7619d974-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228260869565217	"WGS"	TRUE
"16384"	"RP11-57J16.1"	0	"mskcc.org"	"GRCh37"	"18"	24810193	24810193	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.220+4268C>G"	""	""	"ENST00000583148"	""	93	"86"	7	64	"64"	0	"RP11-57J16.1,intron_variant,,ENST00000583148,;"	"G"	"ENSG00000265374"	"ENST00000583148"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/555"	""	""	""	""	""	"1"	NA	1	"RP11-57J16.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7619feae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0752688172043011	"WGS"	FALSE
"16385"	"RP11-612A1.1"	0	"mskcc.org"	"GRCh37"	"18"	24981560	24981560	"+"	"RNA"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.131C>A"	""	""	"ENST00000584566"	"2/2"	95	"79"	16	65	"65"	0	"RP11-612A1.1,non_coding_transcript_exon_variant,,ENST00000584566,;RP11-739N10.1,intron_variant,,ENST00000584546,;"	"A"	"ENSG00000263611"	"ENST00000584566"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"131/439"	""	""	""	""	""	"1"	NA	1	"RP11-612A1.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"761a064c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168421052631579	"WGS"	FALSE
"16386"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	25804293	25804293	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"74"	18	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"761a1fd8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195652173913043	"WGS"	FALSE
"16387"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	26524991	26524991	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"89"	25	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"761a364e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219298245614035	"WGS"	FALSE
"16388"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	26798417	26798417	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"67"	26	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"761a3d56-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279569892473118	"WGS"	FALSE
"16389"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	26798908	26798908	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"72"	31	66	"64"	2	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"761a3db0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.300970873786408	"WGS"	FALSE
"16390"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	26798988	26798988	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"86"	21	64	"64"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"761a3e0a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196261682242991	"WGS"	FALSE
"16391"	"RP11-25I11.1"	0	"mskcc.org"	"GRCh37"	"18"	28534951	28534951	"+"	"RNA"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.222C>T"	""	""	"ENST00000583580"	"3/3"	115	"79"	36	78	"78"	0	"RP11-25I11.1,non_coding_transcript_exon_variant,,ENST00000583580,;"	"A"	"ENSG00000265670"	"ENST00000583580"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"222/387"	""	""	""	""	""	"1"	NA	-1	"RP11-25I11.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"761a6a60-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.31304347826087	"WGS"	FALSE
"16392"	"RP11-905K4.1"	0	"mskcc.org"	"GRCh37"	"18"	33545442	33545442	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.374+266G>T"	""	""	"ENST00000589074"	""	68	"57"	11	36	"36"	0	"RP11-905K4.1,intron_variant,,ENST00000589074,;RP11-905K4.1,intron_variant,,ENST00000586982,;"	"A"	"ENSG00000267627"	"ENST00000589074"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/609"	""	""	""	""	""	"1"	NA	-1	"RP11-905K4.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"761af0fc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161764705882353	"WGS"	FALSE
"16393"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	33662974	33662974	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"54"	12	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"761af520-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.181818181818182	"WGS"	FALSE
"16394"	"CELF4"	56853	"mskcc.org"	"GRCh37"	"18"	34878931	34878931	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.448+22835T>C"	""	""	"ENST00000420428"	""	96	"74"	22	68	"68"	0	"CELF4,intron_variant,,ENST00000420428,NM_020180.3;CELF4,intron_variant,,ENST00000412753,NM_001025088.1,NM_001025087.1;CELF4,intron_variant,,ENST00000591287,;CELF4,intron_variant,,ENST00000334919,NM_001025089.1;CELF4,intron_variant,,ENST00000603232,;CELF4,intron_variant,,ENST00000361795,;CELF4,intron_variant,,ENST00000601019,;CELF4,intron_variant,,ENST00000591282,;CELF4,intron_variant,,ENST00000588597,;CELF4,intron_variant,,ENST00000601392,;CELF4,intron_variant,,ENST00000587819,;CELF4,intron_variant,,ENST00000589229,;CELF4,intron_variant,,ENST00000587924,;CELF4,intron_variant,,ENST00000590112,;"	"G"	"ENSG00000101489"	"ENST00000420428"	"Transcript"	"intron_variant"	"-/4052"	"-/1461"	"-/486"	""	""	""	"1"	NA	-1	"CELF4"	"HGNC"	14015	"protein_coding"	"YES"	"CCDS32818.1"	"ENSP00000410584"	"Q9BZC1"	"K7EJK3"	"UPI00000726FC"	"NM_020180.3"	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"761b1686-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229166666666667	"WGS"	FALSE
"16395"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	35924577	35924577	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs76853878"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"80"	25	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs76853878"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0004"	"T:0"	"T:0"	NA	"T:0.002"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"761b3b48-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WGS"	FALSE
"16396"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	36354463	36354463	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"83"	27	79	"79"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"761b47d2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245454545454545	"WGS"	FALSE
"16397"	"LINC00669"	647946	"mskcc.org"	"GRCh37"	"18"	36880535	36880535	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.441-91782G>A"	""	""	"ENST00000591629"	""	107	"97"	10	62	"62"	0	"LINC00669,intron_variant,,ENST00000591629,;LINC00669,intron_variant,,ENST00000591469,;"	"T"	"ENSG00000267374"	"ENST00000591629"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2306"	""	""	""	""	""	"1"	NA	-1	"LINC00669"	"HGNC"	44332	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"761b589e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0934579439252336	"WGS"	FALSE
"16398"	"LINC00669"	647946	"mskcc.org"	"GRCh37"	"18"	37299433	37299433	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.282+31860G>T"	""	""	"ENST00000591629"	""	110	"78"	32	74	"74"	0	"LINC00669,intron_variant,,ENST00000591629,;"	"A"	"ENSG00000267374"	"ENST00000591629"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2306"	""	""	""	""	""	"1"	NA	-1	"LINC00669"	"HGNC"	44332	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"761b6dde-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290909090909091	"WGS"	FALSE
"16399"	"RIT2"	6014	"mskcc.org"	"GRCh37"	"18"	40377237	40377237	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.427-53552T>C"	""	""	"ENST00000326695"	""	106	"94"	12	72	"72"	0	"RIT2,intron_variant,,ENST00000589109,NM_001272077.1;RIT2,intron_variant,,ENST00000326695,NM_002930.3;RIT2,intron_variant,,ENST00000590910,;"	"G"	"ENSG00000152214"	"ENST00000326695"	"Transcript"	"intron_variant"	"-/1092"	"-/654"	"-/217"	""	""	""	"1"	NA	-1	"RIT2"	"HGNC"	10017	"protein_coding"	"YES"	"CCDS11921.1"	"ENSP00000321805"	"Q99578"	""	"UPI0000073E97"	"NM_002930.3"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"761bbf96-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113207547169811	"WGS"	FALSE
"16400"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	41234660	41234660	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"88"	18	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"761bd206-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.169811320754717	"WGS"	FALSE
"16401"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	42773332	42773332	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	132	"94"	38	86	"86"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"761bf1f0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.287878787878788	"WGS"	FALSE
"16402"	"ZBTB7C"	201501	"mskcc.org"	"GRCh37"	"18"	45716315	45716315	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-78-3949G>A"	""	""	"ENST00000590800"	""	78	"66"	12	72	"72"	0	"ZBTB7C,intron_variant,,ENST00000590800,;ZBTB7C,intron_variant,,ENST00000589170,;ZBTB7C,intron_variant,,ENST00000589194,;ZBTB7C,intron_variant,,ENST00000587107,;ZBTB7C,intron_variant,,ENST00000592656,;ZBTB7C,intron_variant,,ENST00000590374,;ZBTB7C,intron_variant,,ENST00000585404,;ZBTB7C,intron_variant,,ENST00000588970,;ZBTB7C,intron_variant,,ENST00000588053,;ZBTB7C,intron_variant,,ENST00000590178,;ZBTB7C,intron_variant,,ENST00000590855,;ZBTB7C,intron_variant,,ENST00000589619,;ZBTB7C,intron_variant,,ENST00000586743,;ZBTB7C,intron_variant,,ENST00000593159,;ZBTB7C,intron_variant,,ENST00000588028,;ZBTB7C,intron_variant,,ENST00000588149,;ZBTB7C,intron_variant,,ENST00000591526,;ZBTB7C,intron_variant,,ENST00000591279,;ZBTB7C,intron_variant,,ENST00000588566,;ZBTB7C,intron_variant,,ENST00000589077,;ZBTB7C,intron_variant,,ENST00000591405,;ZBTB7C,intron_variant,,ENST00000592387,;ZBTB7C,intron_variant,,ENST00000586525,;ZBTB7C,intron_variant,,ENST00000586047,;"	"T"	"ENSG00000184828"	"ENST00000590800"	"Transcript"	"intron_variant"	"-/4947"	"-/1860"	"-/619"	""	""	""	"1"	NA	-1	"ZBTB7C"	"HGNC"	31700	"protein_coding"	""	"CCDS32830.1"	"ENSP00000467877"	"A1YPR0"	"B2RGG0,B2RG63,B2RG49"	"UPI0000073FE3"	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"761c49a2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"16403"	"SMAD7"	4092	"mskcc.org"	"GRCh37"	"18"	46473786	46473786	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.667+968A>C"	""	""	"ENST00000262158"	""	97	"73"	24	69	"68"	1	"SMAD7,intron_variant,,ENST00000262158,NM_001190821.1,NM_005904.3;SMAD7,intron_variant,,ENST00000589634,;SMAD7,intron_variant,,ENST00000591805,NM_001190822.1;SMAD7,intron_variant,,ENST00000586093,;SMAD7,upstream_gene_variant,,ENST00000585986,;SMAD7,upstream_gene_variant,,ENST00000545051,;"	"G"	"ENSG00000101665"	"ENST00000262158"	"Transcript"	"intron_variant"	"-/3087"	"-/1281"	"-/426"	""	""	""	"1"	NA	-1	"SMAD7"	"HGNC"	6773	"protein_coding"	"YES"	"CCDS11936.1"	"ENSP00000262158"	"O15105"	"K7EKF0"	"UPI0000135A83"	"NM_001190821.1,NM_005904.3"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTC"	"761c6450-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247422680412371	"WGS"	FALSE
"16404"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	46507431	46507431	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"55"	7	43	"43"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"761c6554-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112903225806452	"WGS"	FALSE
"16405"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	49832596	49832596	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"105"	7	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"761cc04e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"16406"	"DCC"	1630	"mskcc.org"	"GRCh37"	"18"	50693291	50693291	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1418+9409A>G"	""	""	"ENST00000442544"	""	91	"83"	8	65	"65"	0	"DCC,intron_variant,,ENST00000442544,NM_005215.3;DCC,intron_variant,,ENST00000581580,;DCC,intron_variant,,ENST00000412726,;DCC,intron_variant,,ENST00000304775,;"	"G"	"ENSG00000187323"	"ENST00000442544"	"Transcript"	"intron_variant"	"-/5721"	"-/4344"	"-/1447"	""	""	""	"1"	NA	1	"DCC"	"HGNC"	2701	"protein_coding"	"YES"	"CCDS11952.1"	"ENSP00000389140"	"P43146"	"J3QQJ6"	"UPI00001AEDC6"	"NM_005215.3"	""	""	""	"8/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"761cd8cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0879120879120879	"WGS"	FALSE
"16407"	"MBD2"	8932	"mskcc.org"	"GRCh37"	"18"	51709827	51709827	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.840+5417T>C"	""	""	"ENST00000256429"	""	101	"77"	24	59	"59"	0	"MBD2,intron_variant,,ENST00000256429,NM_003927.4;MBD2,intron_variant,,ENST00000578272,;"	"G"	"ENSG00000134046"	"ENST00000256429"	"Transcript"	"intron_variant"	"-/4080"	"-/1236"	"-/411"	""	""	""	"1"	NA	-1	"MBD2"	"HGNC"	6917	"protein_coding"	"YES"	"CCDS11953.1"	"ENSP00000256429"	"Q9UBB5"	"Q69YZ5,O60535"	"UPI000003166A"	"NM_003927.4"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"761cf9b0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.237623762376238	"WGS"	FALSE
"16408"	"RP11-397A16.3"	0	"mskcc.org"	"GRCh37"	"18"	53491975	53491975	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000585985"	""	128	"96"	32	82	"82"	0	"RP11-397A16.3,downstream_gene_variant,,ENST00000585985,;"	"T"	"ENSG00000267172"	"ENST00000585985"	"Transcript"	"downstream_gene_variant"	"-/2593"	""	""	""	""	""	"1"	"4985"	1	"RP11-397A16.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"761d232c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"16409"	"GRP"	2922	"mskcc.org"	"GRCh37"	"18"	56901820	56901820	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"rs368306698"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000256857"	""	16	"12"	4	8	"8"	0	"GRP,downstream_gene_variant,,ENST00000256857,NM_001012512.1,NM_002091.3;GRP,downstream_gene_variant,,ENST00000529320,NM_001012513.1;GRP,downstream_gene_variant,,ENST00000456142,;GRP,downstream_gene_variant,,ENST00000420468,;GRP,downstream_gene_variant,,ENST00000530323,;"	"T"	"ENSG00000134443"	"ENST00000256857"	"Transcript"	"downstream_gene_variant"	"-/848"	"-/447"	"-/148"	""	""	"rs368306698"	"1"	"3817"	1	"GRP"	"HGNC"	4605	"protein_coding"	"YES"	"CCDS11971.1"	"ENSP00000256857"	"P07492"	""	"UPI000013CF31"	"NM_001012512.1,NM_002091.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"761d9852-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"16410"	"CCBE1"	147372	"mskcc.org"	"GRCh37"	"18"	57259879	57259879	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.212+103982C>T"	""	""	"ENST00000439986"	""	94	"71"	23	77	"77"	0	"CCBE1,intron_variant,,ENST00000439986,NM_133459.3;CCBE1,intron_variant,,ENST00000589419,;"	"A"	"ENSG00000183287"	"ENST00000439986"	"Transcript"	"intron_variant"	"-/6227"	"-/1221"	"-/406"	""	""	""	"1"	NA	-1	"CCBE1"	"HGNC"	29426	"protein_coding"	"YES"	"CCDS32838.1"	"ENSP00000404464"	"Q6UXH8"	"K7EQ81"	"UPI000004C616"	"NM_133459.3"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"761da6a8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24468085106383	"WGS"	FALSE
"16411"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	58771160	58771160	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"87"	27	83	"83"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"761dc9f8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236842105263158	"WGS"	FALSE
"16412"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	58785683	58785683	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"102"	25	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"761dcafc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196850393700787	"WGS"	FALSE
"16413"	"CDH7"	1005	"mskcc.org"	"GRCh37"	"18"	63454889	63454889	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.211-22051T>A"	""	""	"ENST00000397968"	""	95	"75"	20	64	"64"	0	"CDH7,intron_variant,,ENST00000536984,;CDH7,intron_variant,,ENST00000397968,NM_004361.2;CDH7,intron_variant,,ENST00000323011,NM_033646.1;CDH7,intron_variant,,ENST00000581601,;"	"A"	"ENSG00000081138"	"ENST00000397968"	"Transcript"	"intron_variant"	"-/3292"	"-/2358"	"-/785"	""	""	""	"1"	NA	1	"CDH7"	"HGNC"	1766	"protein_coding"	"YES"	"CCDS11993.1"	"ENSP00000381058"	"Q9ULB5"	""	"UPI000013D269"	"NM_004361.2"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"761e5f12-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"16414"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	64393907	64393907	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs377566717"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"83"	18	69	"69"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs377566717"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"761e7b96-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178217821782178	"WGS"	FALSE
"16415"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	65117745	65117745	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"74"	18	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"761e9838-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195652173913043	"WGS"	FALSE
"16416"	"GTSCR1"	220158	"mskcc.org"	"GRCh37"	"18"	68317402	68317402	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.102+444C>T"	""	""	"ENST00000582578"	""	70	"50"	20	48	"48"	0	"GTSCR1,intron_variant,,ENST00000582578,NM_001278515.1;GTSCR1,intron_variant,,ENST00000594039,;"	"A"	"ENSG00000263417"	"ENST00000582578"	"Transcript"	"intron_variant"	"-/485"	"-/411"	"-/136"	""	""	""	"1"	NA	-1	"GTSCR1"	"HGNC"	18406	"protein_coding"	"YES"	"CCDS62462.1"	"ENSP00000462690"	""	"J3KSW9"	"UPI0000161AEF"	"NM_001278515.1"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"761efe86-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"16417"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	70655562	70655562	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	129	"104"	25	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"761f462a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193798449612403	"WGS"	FALSE
"16418"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	70686635	70686635	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"64"	17	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"761f4684-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209876543209877	"WGS"	FALSE
"16419"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	71108199	71108199	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"92"	6	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"761f54bc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0612244897959184	"WGS"	FALSE
"16420"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	71494475	71494475	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs189405058"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"85"	27	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs189405058"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0004"	"T:0"	"T:0"	NA	"T:0.002"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"761f5e62-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241071428571429	"WGS"	FALSE
"16421"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	72786416	72786416	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"75"	17	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"761f901c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184782608695652	"WGS"	FALSE
"16422"	"ARL2BPP1"	0	"mskcc.org"	"GRCh37"	"18"	74418888	74418888	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000584870"	""	95	"75"	20	53	"53"	0	"ARL2BPP1,upstream_gene_variant,,ENST00000584870,;"	"T"	"ENSG00000265934"	"ENST00000584870"	"Transcript"	"upstream_gene_variant"	"-/478"	""	""	""	""	""	"1"	"2678"	-1	"ARL2BPP1"	"HGNC"	17742	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"761fc62c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"16423"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	75493971	75493971	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"80"	22	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"762021b2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215686274509804	"WGS"	FALSE
"16424"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	76508930	76508930	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"87"	27	80	"80"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"76208d82-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236842105263158	"WGS"	FALSE
"16425"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	76593195	76593195	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"87"	22	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"76209aac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.201834862385321	"WGS"	FALSE
"16426"	"RP11-154H12.3"	0	"mskcc.org"	"GRCh37"	"18"	77569542	77569542	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.77-6537C>T"	""	""	"ENST00000592499"	""	70	"61"	9	34	"34"	0	"RP11-154H12.3,intron_variant,,ENST00000592499,;"	"T"	"ENSG00000267780"	"ENST00000592499"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/363"	""	""	""	""	""	"1"	NA	1	"RP11-154H12.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"76214862-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128571428571429	"WGS"	FALSE
"16427"	"MUM1"	84939	"mskcc.org"	"GRCh37"	"19"	1335319	1335319	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-69-21001A>T"	""	""	"ENST00000344663"	""	51	"47"	4	41	"41"	0	"MUM1,intron_variant,,ENST00000344663,;"	"T"	"ENSG00000160953"	"ENST00000344663"	"Transcript"	"intron_variant"	"-/4092"	"-/2136"	"-/711"	""	""	""	"1"	NA	1	"MUM1"	"HGNC"	29641	"protein_coding"	"YES"	"CCDS12062.1"	"ENSP00000345789"	""	"K7EP97,K7END0,J3KNX4"	"UPI00001A95DB"	""	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"7621fadc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0784313725490196	"WGS"	FALSE
"16428"	"TMPRSS9"	360200	"mskcc.org"	"GRCh37"	"19"	2418371	2418371	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2052+235C>T"	""	""	"ENST00000332578"	""	17	"13"	4	7	"7"	0	"TMPRSS9,intron_variant,,ENST00000332578,NM_182973.1;TMPRSS9,downstream_gene_variant,,ENST00000395264,;TMPRSS9,downstream_gene_variant,,ENST00000587863,;"	"T"	"ENSG00000178297"	"ENST00000332578"	"Transcript"	"intron_variant"	"-/3331"	"-/3180"	"-/1059"	""	""	""	"1"	NA	1	"TMPRSS9"	"HGNC"	30079	"protein_coding"	"YES"	"CCDS12088.1"	"ENSP00000330264"	"Q7Z410"	""	"UPI00001B4EC6"	"NM_182973.1"	""	""	""	"12/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76223380-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"16429"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	2970722	2970722	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	39	"35"	4	39	"39"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"76224a0a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"16430"	"PIP5K1C"	23396	"mskcc.org"	"GRCh37"	"19"	3655067	3655067	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.621+1336T>G"	""	""	"ENST00000335312"	""	50	"44"	6	42	"42"	0	"PIP5K1C,intron_variant,,ENST00000335312,NM_012398.2,NM_001195733.1;PIP5K1C,intron_variant,,ENST00000537021,;PIP5K1C,intron_variant,,ENST00000589578,;PIP5K1C,intron_variant,,ENST00000539785,;PIP5K1C,intron_variant,,ENST00000587482,;"	"C"	"ENSG00000186111"	"ENST00000335312"	"Transcript"	"intron_variant"	"-/5080"	"-/2007"	"-/668"	""	""	""	"1"	NA	-1	"PIP5K1C"	"HGNC"	8996	"protein_coding"	"YES"	"CCDS32872.1"	"ENSP00000335333"	"O60331"	"Q7LE22"	"UPI000019C574"	"NM_012398.2,NM_001195733.1"	""	""	""	"6/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"76226cce-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"16431"	"TJP3"	27134	"mskcc.org"	"GRCh37"	"19"	3719563	3719563	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000589378"	""	40	"35"	5	29	"29"	0	"TJP3,intron_variant,,ENST00000541714,NM_001267560.1;TJP3,intron_variant,,ENST00000539908,;TJP3,intron_variant,,ENST00000590545,;TJP3,upstream_gene_variant,,ENST00000382008,;TJP3,upstream_gene_variant,,ENST00000589378,NM_001267561.1;TJP3,upstream_gene_variant,,ENST00000587912,;"	"G"	"ENSG00000105289"	"ENST00000589378"	"Transcript"	"upstream_gene_variant"	"-/3068"	"-/2787"	"-/928"	""	""	""	"1"	"2172"	1	"TJP3"	"HGNC"	11829	"protein_coding"	"YES"	"CCDS59332.1"	"ENSP00000465419"	"O95049"	"F5H4S9,F5H2X0"	"UPI00003E3015"	"NM_001267561.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"76227002-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"16432"	"ANKRD24"	170961	"mskcc.org"	"GRCh37"	"19"	4188445	4188445	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.36+1987A>G"	""	""	"ENST00000600132"	""	32	"27"	5	29	"29"	0	"ANKRD24,intron_variant,,ENST00000600132,NM_133475.1;ANKRD24,intron_variant,,ENST00000318934,;ANKRD24,intron_variant,,ENST00000597689,;"	"G"	"ENSG00000089847"	"ENST00000600132"	"Transcript"	"intron_variant"	"-/4026"	"-/3441"	"-/1146"	""	""	""	"1"	NA	1	"ANKRD24"	"HGNC"	29424	"protein_coding"	"YES"	"CCDS45925.1"	"ENSP00000471252"	"Q8TF21"	""	"UPI000041F5A9"	"NM_133475.1"	""	""	""	"2/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7622856a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WGS"	FALSE
"16433"	"FSD1"	79187	"mskcc.org"	"GRCh37"	"19"	4316481	4316481	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.701-698G>A"	""	""	"ENST00000221856"	""	45	"36"	9	50	"50"	0	"FSD1,intron_variant,,ENST00000221856,NM_024333.2;FSD1,intron_variant,,ENST00000597590,;FSD1,intron_variant,,ENST00000597480,;FSD1,intron_variant,,ENST00000601006,;FSD1,intron_variant,,ENST00000598010,;FSD1,intron_variant,,ENST00000598179,;FSD1,downstream_gene_variant,,ENST00000601678,;"	"A"	"ENSG00000105255"	"ENST00000221856"	"Transcript"	"intron_variant"	"-/1831"	"-/1491"	"-/496"	""	""	""	"1"	NA	1	"FSD1"	"HGNC"	13745	"protein_coding"	"YES"	"CCDS12127.1"	"ENSP00000221856"	"Q9BTV5"	""	"UPI000007168A"	"NM_024333.2"	""	""	""	"7/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"76228934-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16434"	"KDM4B"	23030	"mskcc.org"	"GRCh37"	"19"	5074706	5074706	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.677-2672C>T"	""	""	"ENST00000159111"	""	79	"57"	22	60	"60"	0	"KDM4B,intron_variant,,ENST00000159111,NM_015015.2;KDM4B,intron_variant,,ENST00000536461,;KDM4B,intron_variant,,ENST00000381759,;KDM4B,intron_variant,,ENST00000592175,;KDM4B,intron_variant,,ENST00000589104,;"	"T"	"ENSG00000127663"	"ENST00000159111"	"Transcript"	"intron_variant"	"-/5593"	"-/3291"	"-/1096"	""	""	""	"1"	NA	1	"KDM4B"	"HGNC"	29136	"protein_coding"	"YES"	"CCDS12138.1"	"ENSP00000159111"	"O94953"	"K7ES23"	"UPI00001C202B"	"NM_015015.2"	""	""	""	"7/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7622af54-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278481012658228	"WGS"	FALSE
"16435"	"RPL36"	25873	"mskcc.org"	"GRCh37"	"19"	5690093	5690093	"+"	"5'UTR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-248G>A"	""	""	"ENST00000577222"	"3/6"	77	"60"	17	40	"40"	0	"RPL36,5_prime_UTR_variant,,ENST00000577222,;RPL36,intron_variant,,ENST00000579649,;LONP1,downstream_gene_variant,,ENST00000360614,NM_004793.3;LONP1,downstream_gene_variant,,ENST00000540670,NM_001276480.1;LONP1,downstream_gene_variant,,ENST00000593119,NM_001276479.1;LONP1,downstream_gene_variant,,ENST00000585374,;LONP1,downstream_gene_variant,,ENST00000590729,;HSD11B1L,downstream_gene_variant,,ENST00000581521,;HSD11B1L,downstream_gene_variant,,ENST00000581773,NM_001267868.1;HSD11B1L,downstream_gene_variant,,ENST00000339423,NM_198706.2;HSD11B1L,downstream_gene_variant,,ENST00000342970,NM_198707.2;HSD11B1L,downstream_gene_variant,,ENST00000577917,NM_198705.2,NM_001267871.1,NM_198708.2;HSD11B1L,downstream_gene_variant,,ENST00000581893,NM_001267869.1;HSD11B1L,downstream_gene_variant,,ENST00000423665,NM_198533.2;HSD11B1L,downstream_gene_variant,,ENST00000301382,;HSD11B1L,downstream_gene_variant,,ENST00000411793,NM_198704.2;HSD11B1L,downstream_gene_variant,,ENST00000583928,;HSD11B1L,downstream_gene_variant,,ENST00000577257,;HSD11B1L,downstream_gene_variant,,ENST00000578046,;LONP1,downstream_gene_variant,,ENST00000589473,;HSD11B1L,downstream_gene_variant,,ENST00000422535,;RPL36,upstream_gene_variant,,ENST00000347512,NM_033643.2;HSD11B1L,downstream_gene_variant,,ENST00000579559,;RPL36,upstream_gene_variant,,ENST00000394580,NM_015414.3;RPL36,upstream_gene_variant,,ENST00000579446,;RPL36,upstream_gene_variant,,ENST00000582463,;RPL36,non_coding_transcript_exon_variant,,ENST00000582380,;HSD11B1L,downstream_gene_variant,,ENST00000577701,;LONP1,downstream_gene_variant,,ENST00000590558,;LONP1,downstream_gene_variant,,ENST00000587552,;HSD11B1L,downstream_gene_variant,,ENST00000578167,;HSD11B1L,downstream_gene_variant,,ENST00000579562,;HSD11B1L,downstream_gene_variant,,ENST00000577920,;RPL36,upstream_gene_variant,,ENST00000590786,;HSD11B1L,downstream_gene_variant,,ENST00000582346,;HSD11B1L,downstream_gene_variant,,ENST00000584904,;HSD11B1L,downstream_gene_variant,,ENST00000581423,;HSD11B1L,downstream_gene_variant,,ENST00000578832,;"	"A"	"ENSG00000130255"	"ENST00000577222"	"Transcript"	"5_prime_UTR_variant"	"297/874"	"-/318"	"-/105"	""	""	""	"1"	NA	1	"RPL36"	"HGNC"	13631	"protein_coding"	"YES"	"CCDS12147.1"	"ENSP00000464342"	"Q9Y3U8"	"Q9BYF3"	"UPI00000019AB"	""	""	""	"3/6"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7622c48a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220779220779221	"WGS"	FALSE
"16436"	"RFX2"	5990	"mskcc.org"	"GRCh37"	"19"	6100940	6100940	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-9+9464G>A"	""	""	"ENST00000303657"	""	86	"62"	24	63	"62"	1	"RFX2,intron_variant,,ENST00000303657,NM_000635.3;RFX2,intron_variant,,ENST00000592546,NM_134433.2;RFX2,intron_variant,,ENST00000592883,;RFX2,intron_variant,,ENST00000592473,;RFX2,intron_variant,,ENST00000586302,;RFX2,intron_variant,,ENST00000589742,;RFX2,intron_variant,,ENST00000586806,;RFX2,intron_variant,,ENST00000593241,;RFX2,intron_variant,,ENST00000587181,;RFX2,intron_variant,,ENST00000587321,;RFX2,intron_variant,,ENST00000586940,;RFX2,intron_variant,,ENST00000592172,;RFX2,intron_variant,,ENST00000590822,;"	"T"	"ENSG00000087903"	"ENST00000303657"	"Transcript"	"intron_variant"	"-/3993"	"-/2172"	"-/723"	""	""	""	"1"	NA	-1	"RFX2"	"HGNC"	9983	"protein_coding"	"YES"	"CCDS12157.1"	"ENSP00000306335"	"P48378"	"Q75MR3,K7ES56,K7EQY9,K7EQA0,K7ENC9,K7EJE4,K7EJD4,K7EIN5"	"UPI000013D4B1"	"NM_000635.3"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7622d8b2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27906976744186	"WGS"	FALSE
"16437"	"ELAVL1"	1994	"mskcc.org"	"GRCh37"	"19"	8055458	8055458	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.172+1070G>C"	""	""	"ENST00000407627"	""	60	"56"	4	45	"45"	0	"ELAVL1,intron_variant,,ENST00000407627,NM_001419.2;ELAVL1,intron_variant,,ENST00000351593,;ELAVL1,intron_variant,,ENST00000596459,;ELAVL1,intron_variant,,ENST00000593807,;"	"G"	"ENSG00000066044"	"ENST00000407627"	"Transcript"	"intron_variant"	"-/6015"	"-/981"	"-/326"	""	""	""	"1"	NA	-1	"ELAVL1"	"HGNC"	3312	"protein_coding"	"YES"	"CCDS12193.1"	"ENSP00000385269"	"Q15717"	""	"UPI0000129E74"	"NM_001419.2"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"76232696-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"16438"	"MUC16"	94025	"mskcc.org"	"GRCh37"	"19"	9093340	9093340	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000397910"	""	67	"53"	14	47	"47"	0	"MUC16,upstream_gene_variant,,ENST00000397910,NM_024690.2;"	"T"	"ENSG00000181143"	"ENST00000397910"	"Transcript"	"upstream_gene_variant"	"-/43816"	"-/43524"	"-/14507"	""	""	""	"1"	"1322"	-1	"MUC16"	"HGNC"	15582	"protein_coding"	"YES"	"CCDS54212.1"	"ENSP00000381008"	""	"F8WE81,B5ME49"	"UPI000065CA24"	"NM_024690.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"76235d1e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208955223880597	"WGS"	FALSE
"16439"	"OR7G2"	390882	"mskcc.org"	"GRCh37"	"19"	9214767	9214767	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000305456"	""	53	"48"	5	32	"32"	0	"OR7G2,upstream_gene_variant,,ENST00000305456,NM_001005193.1;"	"T"	"ENSG00000170923"	"ENST00000305456"	"Transcript"	"upstream_gene_variant"	"-/1038"	"-/1038"	"-/345"	""	""	""	"1"	"785"	-1	"OR7G2"	"HGNC"	8466	"protein_coding"	"YES"	"CCDS32897.1"	"ENSP00000303822"	"Q8NG99"	""	"UPI00000472B7"	"NM_001005193.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"7623649e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0943396226415094	"WGS"	FALSE
"16440"	"ZNF562"	54811	"mskcc.org"	"GRCh37"	"19"	9780511	9780511	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-78+5180C>T"	""	""	"ENST00000448622"	""	55	"39"	16	52	"51"	1	"ZNF562,intron_variant,,ENST00000448622,NM_001130032.1,NM_001130031.1;ZNF562,intron_variant,,ENST00000293648,NM_017656.3;ZNF562,intron_variant,,ENST00000453372,;ZNF562,intron_variant,,ENST00000541032,;ZNF562,intron_variant,,ENST00000590155,;ZNF562,intron_variant,,ENST00000537617,;ZNF562,intron_variant,,ENST00000453792,;ZNF562,intron_variant,,ENST00000588653,;ZNF562,intron_variant,,ENST00000587392,;ZNF562,intron_variant,,ENST00000585350,;ZNF562,intron_variant,,ENST00000589542,;ZNF562,intron_variant,,ENST00000585688,;"	"A"	"ENSG00000171466"	"ENST00000448622"	"Transcript"	"intron_variant"	"-/5706"	"-/1281"	"-/426"	""	""	""	"1"	NA	-1	"ZNF562"	"HGNC"	25950	"protein_coding"	"YES"	"CCDS45956.1"	"ENSP00000411784"	"Q6V9R5"	"K7ELE4,B4E2P7"	"UPI000067CA26"	"NM_001130032.1,NM_001130031.1"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"76237240-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290909090909091	"WGS"	FALSE
"16441"	"ZNF562"	54811	"mskcc.org"	"GRCh37"	"19"	9789723	9789723	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"rs187319332"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000448622"	""	65	"52"	13	47	"47"	0	"ZNF562,upstream_gene_variant,,ENST00000448622,NM_001130032.1,NM_001130031.1;ZNF562,upstream_gene_variant,,ENST00000293648,NM_017656.3;ZNF562,upstream_gene_variant,,ENST00000453372,;ZNF562,upstream_gene_variant,,ENST00000541032,;ZNF562,upstream_gene_variant,,ENST00000590155,;ZNF562,upstream_gene_variant,,ENST00000537617,;ZNF562,upstream_gene_variant,,ENST00000453792,;ZNF562,upstream_gene_variant,,ENST00000588653,;ZNF562,upstream_gene_variant,,ENST00000587392,;ZNF562,upstream_gene_variant,,ENST00000585350,;ZNF562,upstream_gene_variant,,ENST00000589542,;ZNF562,upstream_gene_variant,,ENST00000585688,;RPS4XP22,downstream_gene_variant,,ENST00000480755,;"	"T"	"ENSG00000171466"	"ENST00000448622"	"Transcript"	"upstream_gene_variant"	"-/5706"	"-/1281"	"-/426"	""	""	"rs187319332"	"1"	"3947"	-1	"ZNF562"	"HGNC"	25950	"protein_coding"	"YES"	"CCDS45956.1"	"ENSP00000411784"	"Q6V9R5"	"K7ELE4,B4E2P7"	"UPI000067CA26"	"NM_001130032.1,NM_001130031.1"	""	""	""	""	""	"T:0.0004"	"T:0"	"T:0.0029"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"762372ea-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16442"	"MRPL4"	51073	"mskcc.org"	"GRCh37"	"19"	10371649	10371649	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000253099"	""	35	"32"	3	29	"29"	0	"MRPL4,downstream_gene_variant,,ENST00000393733,;MRPL4,downstream_gene_variant,,ENST00000253099,NM_146388.1,NM_015956.2;MRPL4,downstream_gene_variant,,ENST00000590669,;MRPL4,downstream_gene_variant,,ENST00000307422,NM_146387.1;MRPL4,downstream_gene_variant,,ENST00000592514,;MRPL4,downstream_gene_variant,,ENST00000590702,;MRPL4,downstream_gene_variant,,ENST00000588502,;MRPL4,downstream_gene_variant,,ENST00000590150,;CTD-2369P2.5,intron_variant,,ENST00000592893,;CTD-2369P2.4,upstream_gene_variant,,ENST00000587088,;MRPL4,downstream_gene_variant,,ENST00000591054,;"	"A"	"ENSG00000105364"	"ENST00000253099"	"Transcript"	"downstream_gene_variant"	"-/1455"	"-/936"	"-/311"	""	""	""	"1"	"928"	1	"MRPL4"	"HGNC"	14276	"protein_coding"	"YES"	"CCDS12230.1"	"ENSP00000253099"	"Q9BYD3"	"K7ES61,K7EJ73"	"UPI0000072264"	"NM_146388.1,NM_015956.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"762383c0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0857142857142857	"WGS"	FALSE
"16443"	"CTD-2192J16.11"	0	"mskcc.org"	"GRCh37"	"19"	12667493	12667493	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000414548"	""	45	"39"	6	41	"41"	0	"CTD-2192J16.11,downstream_gene_variant,,ENST00000414548,;CTD-2192J16.20,intron_variant,,ENST00000593682,;PGK1P2,upstream_gene_variant,,ENST00000431702,;"	"T"	"ENSG00000230310"	"ENST00000414548"	"Transcript"	"downstream_gene_variant"	"-/543"	""	""	""	""	""	"1"	"3035"	1	"CTD-2192J16.11"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"7623c1d2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"16444"	"BRD4"	23476	"mskcc.org"	"GRCh37"	"19"	15424021	15424021	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-35+19080G>T"	""	""	"ENST00000360016"	""	47	"42"	5	37	"37"	0	"BRD4,intron_variant,,ENST00000360016,;BRD4,intron_variant,,ENST00000594841,;BRD4,intron_variant,,ENST00000601941,;BRD4,intron_variant,,ENST00000597315,;"	"A"	"ENSG00000141867"	"ENST00000360016"	"Transcript"	"intron_variant"	"-/3240"	"-/2385"	"-/794"	""	""	""	"1"	NA	-1	"BRD4"	"HGNC"	13575	"protein_coding"	""	""	"ENSP00000353112"	"O60885"	"M0R0H4,M0QZD9"	"UPI00001AFFBD"	""	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"762416f0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106382978723404	"WGS"	TRUE
"16445"	"MYO9B"	4650	"mskcc.org"	"GRCh37"	"19"	17211197	17211197	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-58-1273T>C"	""	""	"ENST00000595618"	""	46	"38"	8	32	"32"	0	"MYO9B,intron_variant,,ENST00000595618,NM_001130065.1,NM_004145.3;MYO9B,intron_variant,,ENST00000594824,;MYO9B,upstream_gene_variant,,ENST00000397274,;MYO9B,upstream_gene_variant,,ENST00000595641,;CTD-2528A14.5,upstream_gene_variant,,ENST00000597045,;MYO9B,upstream_gene_variant,,ENST00000593411,;"	"C"	"ENSG00000099331"	"ENST00000595618"	"Transcript"	"intron_variant"	"-/7623"	"-/6069"	"-/2022"	""	""	""	"1"	NA	1	"MYO9B"	"HGNC"	7609	"protein_coding"	"YES"	"CCDS46010.1"	"ENSP00000471457"	"Q13459"	"Q4LE74"	"UPI000020367C"	"NM_001130065.1,NM_004145.3"	""	""	""	"1/39"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"762457b4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173913043478261	"WGS"	FALSE
"16446"	"SLC27A1"	376497	"mskcc.org"	"GRCh37"	"19"	17588542	17588542	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.167+7026T>G"	""	""	"ENST00000252595"	""	46	"41"	5	36	"36"	0	"SLC27A1,intron_variant,,ENST00000252595,NM_198580.1;SLC27A1,intron_variant,,ENST00000598424,;SLC27A1,intron_variant,,ENST00000442725,;SLC27A1,intron_variant,,ENST00000599380,;SLC27A1,intron_variant,,ENST00000600277,;SLC27A1,intron_variant,,ENST00000600297,;"	"G"	"ENSG00000130304"	"ENST00000252595"	"Transcript"	"intron_variant"	"-/3594"	"-/1941"	"-/646"	""	""	""	"1"	NA	1	"SLC27A1"	"HGNC"	10995	"protein_coding"	"YES"	"CCDS32953.1"	"ENSP00000252595"	"Q6PCB7"	""	"UPI0000038E7F"	"NM_198580.1"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"76246326-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108695652173913	"WGS"	FALSE
"16447"	"FCHO1"	23149	"mskcc.org"	"GRCh37"	"19"	17861468	17861468	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-183+2845A>G"	""	""	"ENST00000594202"	""	55	"49"	6	36	"36"	0	"FCHO1,intron_variant,,ENST00000594202,NM_001161357.1;FCHO1,intron_variant,,ENST00000252771,;FCHO1,intron_variant,,ENST00000389133,;FCHO1,intron_variant,,ENST00000600676,NM_001161358.1;FCHO1,intron_variant,,ENST00000600209,;FCHO1,intron_variant,,ENST00000596309,;FCHO1,intron_variant,,ENST00000593833,;FCHO1,intron_variant,,ENST00000593385,;FCHO1,intron_variant,,ENST00000597474,;FCHO1,intron_variant,,ENST00000598539,;FCHO1,intron_variant,,ENST00000598067,;FCHO1,upstream_gene_variant,,ENST00000596536,NM_015122.2;FCHO1,upstream_gene_variant,,ENST00000539407,;FCHO1,upstream_gene_variant,,ENST00000596951,;FCHO1,upstream_gene_variant,,ENST00000595033,NM_001161359.1;FCHO1,upstream_gene_variant,,ENST00000595023,;FCHO1,upstream_gene_variant,,ENST00000596507,;FCHO1,upstream_gene_variant,,ENST00000597718,;FCHO1,upstream_gene_variant,,ENST00000594068,;FCHO1,upstream_gene_variant,,ENST00000595549,;FCHO1,upstream_gene_variant,,ENST00000596865,;FCHO1,upstream_gene_variant,,ENST00000598932,;FCHO1,upstream_gene_variant,,ENST00000593870,;FCHO1,upstream_gene_variant,,ENST00000596462,;FCHO1,upstream_gene_variant,,ENST00000598086,;FCHO1,upstream_gene_variant,,ENST00000598960,;FCHO1,intron_variant,,ENST00000599236,;FCHO1,intron_variant,,ENST00000601247,;FCHO1,upstream_gene_variant,,ENST00000595749,;FCHO1,intron_variant,,ENST00000600201,;"	"G"	"ENSG00000130475"	"ENST00000594202"	"Transcript"	"intron_variant"	"-/3214"	"-/2676"	"-/891"	""	""	""	"1"	NA	1	"FCHO1"	"HGNC"	29002	"protein_coding"	"YES"	"CCDS59365.1"	"ENSP00000473001"	"O14526"	"M0R3E5,M0R2J7,M0R1K4,M0R107,M0QZS1,M0QZF0,M0QZE1,M0QYT8,M0QYN8,M0QYA9,M0QY09,M0QXY1,M0QXW2,M0QXD1"	"UPI000059D6B0"	"NM_001161357.1"	""	""	""	"1/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"76246dd0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.109090909090909	"WGS"	FALSE
"16448"	"IL12RB1"	3594	"mskcc.org"	"GRCh37"	"19"	18172079	18172079	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1716-72A>G"	""	""	"ENST00000600835"	""	35	"31"	4	32	"32"	0	"IL12RB1,intron_variant,,ENST00000600835,;IL12RB1,intron_variant,,ENST00000593993,NM_005535.1;"	"C"	"ENSG00000096996"	"ENST00000600835"	"Transcript"	"intron_variant"	"-/2901"	"-/1989"	"-/662"	""	""	""	"1"	NA	-1	"IL12RB1"	"HGNC"	5971	"protein_coding"	"YES"	"CCDS54232.1"	"ENSP00000470788"	"P42701"	"M0R382,M0QX06"	"UPI00000502CE"	""	""	""	""	"15/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"76247640-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"16449"	"PDE4C"	729966	"mskcc.org"	"GRCh37"	"19"	18353320	18353320	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-413-5449T>A"	""	""	"ENST00000355502"	""	42	"37"	5	23	"23"	0	"PDE4C,intron_variant,,ENST00000355502,;PDE4C,intron_variant,,ENST00000594617,NM_000923.4;"	"T"	"ENSG00000105650"	"ENST00000355502"	"Transcript"	"intron_variant"	"-/5979"	"-/2139"	"-/712"	""	""	""	"1"	NA	-1	"PDE4C"	"HGNC"	8782	"protein_coding"	"YES"	"CCDS12373.1"	"ENSP00000347689"	"Q08493"	"Q9UPJ5,Q9P1U3,Q32MM7,O76105,M0R1P5,B7Z2S3"	"UPI0000127BF8"	""	""	""	""	"3/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"762479ba-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"16450"	"HAPLN4"	404037	"mskcc.org"	"GRCh37"	"19"	19369366	19369366	"+"	"Silent"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.783C>T"	"p.="	"p.R261R"	"ENST00000291481"	"4/5"	56	"50"	6	47	"47"	0	"HAPLN4,synonymous_variant,p.=,ENST00000291481,NM_023002.2;AC138430.4,non_coding_transcript_exon_variant,,ENST00000586064,;HAPLN4,downstream_gene_variant,,ENST00000592862,;"	"A"	"ENSG00000187664"	"ENST00000291481"	"Transcript"	"synonymous_variant"	"847/3449"	"783/1209"	"261/402"	"R"	"cgC/cgT"	""	"1"	NA	-1	"HAPLN4"	"HGNC"	31357	"protein_coding"	"YES"	"CCDS12398.1"	"ENSP00000291481"	"Q86UW8"	""	"UPI00000496C7"	"NM_023002.2"	""	""	"4/5"	""	"PROSITE_profiles:PS50963,hmmpanther:PTHR22804,hmmpanther:PTHR22804:SF11,Pfam_domain:PF00193,Gene3D:3.10.100.10,SMART_domains:SM00445,Superfamily_domains:SSF56436"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"76249cc4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"16451"	"CILP2"	148113	"mskcc.org"	"GRCh37"	"19"	19660879	19660879	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000291495"	""	59	"45"	14	42	"42"	0	"CILP2,downstream_gene_variant,,ENST00000586018,;CILP2,downstream_gene_variant,,ENST00000291495,NM_153221.2;"	"A"	"ENSG00000160161"	"ENST00000291495"	"Transcript"	"downstream_gene_variant"	"-/4199"	"-/3471"	"-/1156"	""	""	""	"1"	"3411"	1	"CILP2"	"HGNC"	24213	"protein_coding"	"YES"	"CCDS12405.1"	"ENSP00000291495"	"Q8IUL8"	""	"UPI000013E04D"	"NM_153221.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"7624a232-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23728813559322	"WGS"	FALSE
"16452"	"RP11-157B13.8"	0	"mskcc.org"	"GRCh37"	"19"	22440987	22440987	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000601905"	""	85	"81"	4	50	"50"	0	"RP11-157B13.8,upstream_gene_variant,,ENST00000601905,;"	"A"	"ENSG00000268597"	"ENST00000601905"	"Transcript"	"upstream_gene_variant"	"-/386"	""	""	""	""	""	"1"	"1508"	1	"RP11-157B13.8"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"76251730-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0470588235294118	"WGS"	FALSE
"16453"	"AC025811.3"	0	"mskcc.org"	"GRCh37"	"19"	22634202	22634202	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000604312"	""	71	"57"	14	42	"42"	0	"ZNF98,intron_variant,,ENST00000593802,;AC025811.3,upstream_gene_variant,,ENST00000604312,;ZNF98,intron_variant,,ENST00000599879,;AC025811.2,upstream_gene_variant,,ENST00000600015,;"	"G"	"ENSG00000270947"	"ENST00000604312"	"Transcript"	"upstream_gene_variant"	"-/472"	""	""	""	""	""	"1"	"4588"	1	"AC025811.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"76251e2e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197183098591549	"WGS"	FALSE
"16454"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	23054142	23054142	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"rs530190172"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"52"	4	49	"49"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs530190172"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0018"	"C:0.0015"	"C:0.0043"	NA	"C:0.004"	"C:0"	"C:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"76252e1e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"16455"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	23054180	23054180	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"59"	4	39	"39"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76252e78-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0634920634920635	"WGS"	FALSE
"16456"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	24161121	24161121	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"88"	28	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"762554fc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241379310344828	"WGS"	FALSE
"16457"	"CTC-525D6.1"	284395	"mskcc.org"	"GRCh37"	"19"	29881967	29881967	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2030+361C>T"	""	""	"ENST00000582581"	""	66	"57"	9	54	"54"	0	"CTC-525D6.1,intron_variant,,ENST00000582581,;"	"A"	"ENSG00000264515"	"ENST00000582581"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2582"	""	""	""	""	""	"1"	NA	-1	"CTC-525D6.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"9/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7625c89c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"16458"	"ZNF536"	9745	"mskcc.org"	"GRCh37"	"19"	30895206	30895206	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-3+31743G>T"	""	""	"ENST00000355537"	""	77	"60"	17	43	"43"	0	"ZNF536,intron_variant,,ENST00000355537,NM_014717.1;ZNF536,intron_variant,,ENST00000585628,;ZNF536,intron_variant,,ENST00000591488,;"	"T"	"ENSG00000198597"	"ENST00000355537"	"Transcript"	"intron_variant"	"-/4945"	"-/3903"	"-/1300"	""	""	""	"1"	NA	1	"ZNF536"	"HGNC"	29025	"protein_coding"	"YES"	"CCDS32984.1"	"ENSP00000347730"	"O15090"	"K7EKT4,K7EJP8"	"UPI000006ED3E"	"NM_014717.1"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"76260212-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220779220779221	"WGS"	FALSE
"16459"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	31500777	31500777	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"87"	15	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76261928-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"16460"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	32670898	32670898	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"64"	8	48	"48"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"76264178-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"16461"	"ANKRD27"	84079	"mskcc.org"	"GRCh37"	"19"	33133143	33133143	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.783-92A>G"	""	""	"ENST00000306065"	""	62	"57"	5	38	"38"	0	"ANKRD27,intron_variant,,ENST00000306065,NM_032139.2;ANKRD27,intron_variant,,ENST00000587352,;ANKRD27,intron_variant,,ENST00000591100,;ANKRD27,downstream_gene_variant,,ENST00000590519,;ANKRD27,downstream_gene_variant,,ENST00000586463,;ANKRD27,downstream_gene_variant,,ENST00000586693,;ANKRD27,downstream_gene_variant,,ENST00000588700,;ANKRD27,downstream_gene_variant,,ENST00000593232,;"	"C"	"ENSG00000105186"	"ENST00000306065"	"Transcript"	"intron_variant"	"-/4450"	"-/3153"	"-/1050"	""	""	""	"1"	NA	-1	"ANKRD27"	"HGNC"	25310	"protein_coding"	"YES"	"CCDS32986.1"	"ENSP00000304292"	"Q96NW4"	"K7EPM2,K7EIN0,K7EIH4"	"UPI000004FDE9"	"NM_032139.2"	""	""	""	"9/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"76264eac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WGS"	FALSE
"16462"	"TDRD12"	91646	"mskcc.org"	"GRCh37"	"19"	33218762	33218762	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.25-3869C>T"	""	""	"ENST00000421545"	""	46	"37"	9	38	"38"	0	"TDRD12,intron_variant,,ENST00000444215,;TDRD12,intron_variant,,ENST00000421545,NM_001110822.1;"	"T"	"ENSG00000173809"	"ENST00000421545"	"Transcript"	"intron_variant"	"-/1317"	"-/1188"	"-/395"	""	""	""	"1"	NA	1	"TDRD12"	"HGNC"	25044	"protein_coding"	"YES"	"CCDS46038.1"	"ENSP00000390621"	"Q587J7"	""	"UPI0000202021"	"NM_001110822.1"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7626519a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195652173913043	"WGS"	FALSE
"16463"	"RHPN2"	85415	"mskcc.org"	"GRCh37"	"19"	33533741	33533741	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.185+1414G>T"	""	""	"ENST00000254260"	""	42	"38"	4	23	"23"	0	"RHPN2,intron_variant,,ENST00000254260,NM_033103.4;RHPN2,intron_variant,,ENST00000400226,;RHPN2,intron_variant,,ENST00000588388,;"	"A"	"ENSG00000131941"	"ENST00000254260"	"Transcript"	"intron_variant"	"-/3500"	"-/2061"	"-/686"	""	""	""	"1"	NA	-1	"RHPN2"	"HGNC"	19974	"protein_coding"	"YES"	"CCDS12427.1"	"ENSP00000254260"	"Q8IUC4"	"B4DUS7,B3KX27"	"UPI00000747A3"	"NM_033103.4"	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76265eb0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"16464"	"LRP3"	4037	"mskcc.org"	"GRCh37"	"19"	33694456	33694456	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.260+564G>A"	""	""	"ENST00000253193"	""	74	"62"	12	57	"57"	0	"LRP3,intron_variant,,ENST00000253193,NM_002333.3;LRP3,intron_variant,,ENST00000592484,;CTD-2540B15.13,upstream_gene_variant,,ENST00000609744,;LRP3,intron_variant,,ENST00000590275,;LRP3,upstream_gene_variant,,ENST00000590278,;"	"A"	"ENSG00000130881"	"ENST00000253193"	"Transcript"	"intron_variant"	"-/2728"	"-/2313"	"-/770"	""	""	""	"1"	NA	1	"LRP3"	"HGNC"	6695	"protein_coding"	"YES"	"CCDS12430.1"	"ENSP00000253193"	"O75074"	""	"UPI0000047A9C"	"NM_002333.3"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"762663c4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162162162162162	"WGS"	FALSE
"16465"	"Unknown"	0	"mskcc.org"	"GRCh37"	"19"	34086188	34086188	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"78"	13	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"762670da-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"16466"	"UBA2"	10054	"mskcc.org"	"GRCh37"	"19"	34940240	34940240	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.772-930T>G"	""	""	"ENST00000246548"	""	64	"60"	4	53	"53"	0	"UBA2,intron_variant,,ENST00000439527,;UBA2,intron_variant,,ENST00000246548,NM_005499.2;UBA2,intron_variant,,ENST00000590048,;UBA2,upstream_gene_variant,,ENST00000591016,;UBA2,intron_variant,,ENST00000586313,;"	"G"	"ENSG00000126261"	"ENST00000246548"	"Transcript"	"intron_variant"	"-/2720"	"-/1923"	"-/640"	""	""	""	"1"	NA	1	"UBA2"	"HGNC"	30661	"protein_coding"	"YES"	"CCDS12439.1"	"ENSP00000246548"	"Q9UBT2"	"U3KQ93,B3KWB9"	"UPI000004F09F"	"NM_005499.2"	""	""	""	"8/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7626896c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"16467"	"ZNF567"	163081	"mskcc.org"	"GRCh37"	"19"	37203578	37203578	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.44-105G>T"	""	""	"ENST00000585696"	""	68	"58"	10	43	"43"	0	"ZNF567,intron_variant,,ENST00000585696,;ZNF567,intron_variant,,ENST00000536254,;ZNF567,intron_variant,,ENST00000360729,NM_152603.2;ZNF567,intron_variant,,ENST00000588311,;ZNF567,intron_variant,,ENST00000392163,;ZNF567,intron_variant,,ENST00000589264,;ZNF850,downstream_gene_variant,,ENST00000589390,;ZNF567,non_coding_transcript_exon_variant,,ENST00000590392,;ZNF567,intron_variant,,ENST00000591308,;"	"T"	"ENSG00000189042"	"ENST00000585696"	"Transcript"	"intron_variant"	"-/3734"	"-/1851"	"-/616"	""	""	""	"1"	NA	1	"ZNF567"	"HGNC"	28696	"protein_coding"	"YES"	"CCDS12495.1"	"ENSP00000467379"	"Q8N184"	""	"UPI00001BBFD4"	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7626e0e2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"16468"	"KCNK6"	9424	"mskcc.org"	"GRCh37"	"19"	38814513	38814513	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.323-2720T>A"	""	""	"ENST00000263372"	""	47	"43"	4	49	"49"	0	"KCNK6,intron_variant,,ENST00000263372,NM_004823.1;KCNK6,intron_variant,,ENST00000588137,;"	"A"	"ENSG00000099337"	"ENST00000263372"	"Transcript"	"intron_variant"	"-/2666"	"-/942"	"-/313"	""	""	""	"1"	NA	1	"KCNK6"	"HGNC"	6281	"protein_coding"	"YES"	"CCDS12513.1"	"ENSP00000263372"	"Q9Y257"	"B2RDS2"	"UPI0000030CB7"	"NM_004823.1"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"76273132-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"16469"	"ENSR00000044342"	0	"mskcc.org"	"GRCh37"	"19"	40309489	40309489	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000044342"	""	77	"62"	15	62	"62"	0	""	"C"	""	"ENSR00000044342"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"762760ee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194805194805195	"WGS"	FALSE
"16470"	"CTC-490E21.12"	0	"mskcc.org"	"GRCh37"	"19"	41362640	41362640	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.120-35256G>C"	""	""	"ENST00000601627"	""	57	"52"	5	41	"41"	0	"CTC-490E21.12,intron_variant,,ENST00000601627,;"	"C"	"ENSG00000268797"	"ENST00000601627"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/575"	"-/201"	"-/66"	""	""	""	"1"	NA	1	"CTC-490E21.12"	"Clone_based_vega_gene"	NA	"nonsense_mediated_decay"	"YES"	""	"ENSP00000469533"	""	""	"UPI0002A475C6"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7627852e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087719298245614	"WGS"	FALSE
"16471"	"EML2"	24139	"mskcc.org"	"GRCh37"	"19"	46113562	46113562	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2428-516C>A"	""	""	"ENST00000587152"	""	47	"43"	4	33	"33"	0	"EML2,intron_variant,,ENST00000536630,NM_001193269.1;EML2,intron_variant,,ENST00000587152,NM_001193268.1;EML2,intron_variant,,ENST00000589876,;EML2,intron_variant,,ENST00000245925,NM_012155.2;EML2,intron_variant,,ENST00000588308,;EML2,intron_variant,,ENST00000586195,;EML2,intron_variant,,ENST00000592433,;EML2,intron_variant,,ENST00000586405,;"	"T"	"ENSG00000125746"	"ENST00000587152"	"Transcript"	"intron_variant"	"-/2763"	"-/2553"	"-/850"	""	""	""	"1"	NA	-1	"EML2"	"HGNC"	18035	"protein_coding"	"YES"	"CCDS59399.1"	"ENSP00000468312"	"O95834"	"K7ESL7,K7ERY9,K7ERR2,K7EQR0,K7EKU5,K7EIM1"	"UPI0001DD21BF"	"NM_001193268.1"	""	""	""	"21/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76285800-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"16472"	"AC007193.6"	0	"mskcc.org"	"GRCh37"	"19"	46641769	46641769	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.16+37374G>A"	""	""	"ENST00000597989"	""	96	"75"	21	65	"65"	0	"AC007193.6,intron_variant,,ENST00000597989,;IGFL2,upstream_gene_variant,,ENST00000600243,;TGIF1P1,upstream_gene_variant,,ENST00000558095,;"	"A"	"ENSG00000267922"	"ENST00000597989"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/332"	""	""	""	""	""	"1"	NA	1	"AC007193.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7628641c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WGS"	FALSE
"16473"	"AC006262.4"	0	"mskcc.org"	"GRCh37"	"19"	46670206	46670206	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.215-2298G>A"	""	""	"ENST00000599127"	""	96	"74"	22	56	"56"	0	"AC006262.4,intron_variant,,ENST00000599127,;AC007193.6,intron_variant,,ENST00000597989,;"	"T"	"ENSG00000269729"	"ENST00000599127"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/612"	""	""	""	""	""	"1"	NA	-1	"AC006262.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7628657a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229166666666667	"WGS"	FALSE
"16474"	"CRX"	1406	"mskcc.org"	"GRCh37"	"19"	48335597	48335597	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-35-2069T>A"	""	""	"ENST00000221996"	""	50	"45"	5	19	"19"	0	"CRX,intron_variant,,ENST00000221996,NM_000554.4;CRX,intron_variant,,ENST00000539067,;CRX,intron_variant,,ENST00000566686,;TPRX2P,upstream_gene_variant,,ENST00000535362,;CRX,intron_variant,,ENST00000556527,;"	"A"	"ENSG00000105392"	"ENST00000221996"	"Transcript"	"intron_variant"	"-/4469"	"-/900"	"-/299"	""	""	""	"1"	NA	1	"CRX"	"HGNC"	2383	"protein_coding"	"YES"	"CCDS12706.1"	"ENSP00000221996"	"O43186"	"Q0QD45,H3BUU7,A4GUB7"	"UPI00001284E0"	"NM_000554.4"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"7628978e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"16475"	"PLA2G4C"	8605	"mskcc.org"	"GRCh37"	"19"	48586116	48586116	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.874+2200C>G"	""	""	"ENST00000599111"	""	41	"36"	5	25	"25"	0	"PLA2G4C,intron_variant,,ENST00000354276,NM_001159323.1;PLA2G4C,intron_variant,,ENST00000599111,NM_003706.2,NM_001159322.1;PLA2G4C,intron_variant,,ENST00000599921,;PLA2G4C,intron_variant,,ENST00000413144,;PLA2G4C,intron_variant,,ENST00000599300,;PLA2G4C,intron_variant,,ENST00000601946,;PLA2G4C,intron_variant,,ENST00000599239,;PLA2G4C,intron_variant,,ENST00000593765,;PLA2G4C,intron_variant,,ENST00000598185,;"	"C"	"ENSG00000105499"	"ENST00000599111"	"Transcript"	"intron_variant"	"-/2458"	"-/1656"	"-/551"	""	""	""	"1"	NA	-1	"PLA2G4C"	"HGNC"	9037	"protein_coding"	"YES"	"CCDS59403.1"	"ENSP00000472546"	"Q9UP65"	"Q76EZ0,Q76EY9,M0R1B4"	"UPI00019A89DE"	"NM_003706.2,NM_001159322.1"	""	""	""	"10/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7628b00c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WGS"	FALSE
"16476"	"ZNF114"	163071	"mskcc.org"	"GRCh37"	"19"	48781116	48781116	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-69-1872T>A"	""	""	"ENST00000595607"	""	43	"32"	11	39	"39"	0	"ZNF114,intron_variant,,ENST00000595607,;ZNF114,intron_variant,,ENST00000315849,NM_153608.1;ZNF114,intron_variant,,ENST00000597695,;ZNF114,intron_variant,,ENST00000600687,;ZNF114,intron_variant,,ENST00000595408,;ZNF114,intron_variant,,ENST00000594024,;ZNF114,intron_variant,,ENST00000601320,;ZNF114,upstream_gene_variant,,ENST00000598898,;"	"A"	"ENSG00000178150"	"ENST00000595607"	"Transcript"	"intron_variant"	"-/2478"	"-/1254"	"-/417"	""	""	""	"1"	NA	1	"ZNF114"	"HGNC"	12894	"protein_coding"	"YES"	"CCDS12713.1"	"ENSP00000469998"	"Q8NC26"	"Q8N4J1"	"UPI000007282E"	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"7628b552-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255813953488372	"WGS"	FALSE
"16477"	"KDELR1"	10945	"mskcc.org"	"GRCh37"	"19"	48889799	48889799	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.352-2060C>A"	""	""	"ENST00000330720"	""	48	"44"	4	39	"39"	0	"KDELR1,intron_variant,,ENST00000597017,;KDELR1,intron_variant,,ENST00000330720,NM_006801.2;KDELR1,intron_variant,,ENST00000600980,;KDELR1,downstream_gene_variant,,ENST00000599084,;KDELR1,downstream_gene_variant,,ENST00000594643,;"	"T"	"ENSG00000105438"	"ENST00000330720"	"Transcript"	"intron_variant"	"-/1557"	"-/639"	"-/212"	""	""	""	"1"	NA	-1	"KDELR1"	"HGNC"	6304	"protein_coding"	"YES"	"CCDS12718.1"	"ENSP00000329471"	"P24390"	"Q8NBW7"	"UPI000012A0CA"	"NM_006801.2"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7628b9da-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"16478"	"GRIN2D"	2906	"mskcc.org"	"GRCh37"	"19"	48939362	48939362	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2253-5664C>T"	""	""	"ENST00000263269"	""	39	"28"	11	41	"41"	0	"GRIN2D,intron_variant,,ENST00000263269,NM_000836.2;"	"T"	"ENSG00000105464"	"ENST00000263269"	"Transcript"	"intron_variant"	"-/5093"	"-/4011"	"-/1336"	""	""	""	"1"	NA	1	"GRIN2D"	"HGNC"	4588	"protein_coding"	"YES"	"CCDS12719.1"	"ENSP00000263269"	"O15399"	""	"UPI000013D3DA"	"NM_000836.2"	""	""	""	"10/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7628bb38-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282051282051282	"WGS"	FALSE
"16479"	"KLK4"	9622	"mskcc.org"	"GRCh37"	"19"	51415933	51415933	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000324041"	""	46	"35"	11	40	"40"	0	"KLK4,upstream_gene_variant,,ENST00000324041,NM_004917.3;KLK4,upstream_gene_variant,,ENST00000431178,;KLK4,upstream_gene_variant,,ENST00000596876,;KLK4,upstream_gene_variant,,ENST00000598305,;KLK4,upstream_gene_variant,,ENST00000602148,;KLK4,upstream_gene_variant,,ENST00000599865,;KLK4,upstream_gene_variant,,ENST00000593885,;"	"T"	"ENSG00000167749"	"ENST00000324041"	"Transcript"	"upstream_gene_variant"	"-/1347"	"-/765"	"-/254"	""	""	""	"1"	"1939"	-1	"KLK4"	"HGNC"	6365	"protein_coding"	"YES"	"CCDS12809.1"	"ENSP00000326159"	"Q9Y5K2"	"Q96RU5,Q96PT1,Q96JD9"	"UPI0000037168"	"NM_004917.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGA"	"7629337e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239130434782609	"WGS"	FALSE
"16480"	"KLK5"	25818	"mskcc.org"	"GRCh37"	"19"	51448850	51448850	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.727-1808T>C"	""	""	"ENST00000336334"	""	52	"46"	6	44	"44"	0	"KLK5,intron_variant,,ENST00000336334,NM_012427.4;KLK5,intron_variant,,ENST00000391809,NM_001077491.1;KLK5,intron_variant,,ENST00000593428,NM_001077492.1;KLK5,downstream_gene_variant,,ENST00000594846,;CTB-147C22.8,upstream_gene_variant,,ENST00000601506,;CTB-147C22.8,upstream_gene_variant,,ENST00000594939,;KLK5,intron_variant,,ENST00000595585,;"	"G"	"ENSG00000167754"	"ENST00000336334"	"Transcript"	"intron_variant"	"-/1563"	"-/882"	"-/293"	""	""	""	"1"	NA	-1	"KLK5"	"HGNC"	6366	"protein_coding"	"YES"	"CCDS12810.1"	"ENSP00000337733"	"Q9Y337"	"M0QXX2"	"UPI000013E718"	"NM_012427.4"	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"76293432-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"16481"	"ZNF586"	54807	"mskcc.org"	"GRCh37"	"19"	58294069	58294069	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000396154"	""	20	"16"	4	25	"25"	0	"ZNF586,intron_variant,,ENST00000598183,;ZNF586,intron_variant,,ENST00000599802,;ZNF586,intron_variant,,ENST00000598885,;ZNF586,downstream_gene_variant,,ENST00000391702,NM_001204814.1;ZNF586,downstream_gene_variant,,ENST00000396154,NM_017652.3;ZNF586,downstream_gene_variant,,ENST00000396150,NM_001077426.2;"	"G"	"ENSG00000083828"	"ENST00000396154"	"Transcript"	"downstream_gene_variant"	"-/2163"	"-/1209"	"-/402"	""	""	""	"1"	"2124"	1	"ZNF586"	"HGNC"	25949	"protein_coding"	"YES"	"CCDS42640.1"	"ENSP00000379458"	"Q9NXT0"	""	"UPI0000202D48"	"NM_017652.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"762a7af4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16482"	"ZNF544"	27300	"mskcc.org"	"GRCh37"	"19"	58750108	58750108	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-59-5223G>T"	""	""	"ENST00000269829"	""	55	"40"	15	47	"47"	0	"ZNF544,intron_variant,,ENST00000599227,;ZNF544,intron_variant,,ENST00000596825,;ZNF544,intron_variant,,ENST00000269829,NM_014480.2;ZNF544,intron_variant,,ENST00000600220,;ZNF544,intron_variant,,ENST00000596652,;ZNF544,intron_variant,,ENST00000600044,;ZNF544,intron_variant,,ENST00000599953,;ZNF544,intron_variant,,ENST00000333581,;ZNF544,intron_variant,,ENST00000595981,;ZNF544,intron_variant,,ENST00000594384,;ZNF544,intron_variant,,ENST00000597240,;ZNF544,intron_variant,,ENST00000596929,;ZNF544,intron_variant,,ENST00000596597,;ZNF544,intron_variant,,ENST00000598880,;ZNF544,intron_variant,,ENST00000600775,;ZNF544,intron_variant,,ENST00000596677,;CTD-3138B18.4,intron_variant,,ENST00000600029,;"	"T"	"ENSG00000198131"	"ENST00000269829"	"Transcript"	"intron_variant"	"-/3512"	"-/2148"	"-/715"	""	""	""	"1"	NA	1	"ZNF544"	"HGNC"	16759	"protein_coding"	"YES"	"CCDS12973.1"	"ENSP00000269829"	"Q6NX49"	"O14844,M0QY11"	"UPI000013D856"	"NM_014480.2"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"762a867a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"16483"	"SLC27A5"	10998	"mskcc.org"	"GRCh37"	"19"	59008922	59008922	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000263093"	""	51	"34"	17	47	"47"	0	"SLC27A5,downstream_gene_variant,,ENST00000263093,NM_012254.2;SLC27A5,downstream_gene_variant,,ENST00000601355,;SLC27A5,downstream_gene_variant,,ENST00000594786,;SLC27A5,downstream_gene_variant,,ENST00000599700,;SLC27A5,intron_variant,,ENST00000595851,;SLC27A5,downstream_gene_variant,,ENST00000601997,;SLC27A5,downstream_gene_variant,,ENST00000594683,;"	"T"	"ENSG00000083807"	"ENST00000263093"	"Transcript"	"downstream_gene_variant"	"-/2361"	"-/2073"	"-/690"	""	""	""	"1"	"782"	-1	"SLC27A5"	"HGNC"	10999	"protein_coding"	"YES"	"CCDS12983.1"	"ENSP00000263093"	"Q9Y2P5"	"M0R075"	"UPI0000072ECE"	"NM_012254.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"762a923c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"16484"	"AC079779.5"	0	"mskcc.org"	"GRCh37"	"2"	308882	308882	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000588842"	""	32	"27"	5	8	"8"	0	"AC079779.5,non_coding_transcript_exon_variant,,ENST00000589588,;AC079779.5,non_coding_transcript_exon_variant,,ENST00000586235,;AC079779.5,intron_variant,,ENST00000586311,;AC079779.5,intron_variant,,ENST00000592553,;AC079779.5,intron_variant,,ENST00000587796,;AC079779.5,intron_variant,,ENST00000590678,;AC079779.5,intron_variant,,ENST00000586673,;AC079779.5,intron_variant,,ENST00000416685,;AC079779.5,upstream_gene_variant,,ENST00000588842,;AC079779.5,downstream_gene_variant,,ENST00000592366,;AC079779.5,downstream_gene_variant,,ENST00000609984,;AC079779.5,downstream_gene_variant,,ENST00000591927,;AC079779.5,downstream_gene_variant,,ENST00000591122,;AC079779.5,downstream_gene_variant,,ENST00000589124,;AC079779.5,downstream_gene_variant,,ENST00000591015,;AC079779.5,downstream_gene_variant,,ENST00000586772,;AC079779.5,upstream_gene_variant,,ENST00000590255,;AC079779.5,downstream_gene_variant,,ENST00000591244,;AC079779.5,upstream_gene_variant,,ENST00000585703,;AC079779.5,downstream_gene_variant,,ENST00000586715,;AC079779.5,upstream_gene_variant,,ENST00000588334,;AC079779.5,downstream_gene_variant,,ENST00000585783,;AC079779.5,upstream_gene_variant,,ENST00000591178,;AC079779.5,downstream_gene_variant,,ENST00000592687,;AC079779.5,upstream_gene_variant,,ENST00000592090,;AC079779.5,downstream_gene_variant,,ENST00000589936,;AC079779.5,upstream_gene_variant,,ENST00000457938,;AC079779.5,upstream_gene_variant,,ENST00000591158,;AC079779.5,upstream_gene_variant,,ENST00000587073,;"	"T"	"ENSG00000235779"	"ENST00000588842"	"Transcript"	"upstream_gene_variant"	"-/1200"	""	""	""	""	""	"1"	"1702"	-1	"AC079779.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"762acb8a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WGS"	FALSE
"16485"	"AC093326.3"	0	"mskcc.org"	"GRCh37"	"2"	562840	562840	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.618+2315G>T"	""	""	"ENST00000444079"	""	71	"46"	25	54	"54"	0	"AC093326.3,intron_variant,,ENST00000444079,;"	"T"	"ENSG00000233633"	"ENST00000444079"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/762"	""	""	""	""	""	"1"	NA	1	"AC093326.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"762afa56-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.352112676056338	"WGS"	FALSE
"16486"	"TPO"	7173	"mskcc.org"	"GRCh37"	"2"	1510485	1510485	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2518+2634C>T"	""	""	"ENST00000345913"	""	63	"46"	17	54	"53"	1	"TPO,intron_variant,,ENST00000422464,;TPO,intron_variant,,ENST00000345913,NM_000547.5;TPO,intron_variant,,ENST00000329066,NM_001206744.1;TPO,intron_variant,,ENST00000337415,;TPO,intron_variant,,ENST00000346956,NM_175721.3;TPO,intron_variant,,ENST00000382201,NM_001206745.1,NM_175719.3;TPO,intron_variant,,ENST00000349624,;TPO,intron_variant,,ENST00000382198,NM_175722.3;TPO,intron_variant,,ENST00000446278,;TPO,intron_variant,,ENST00000469607,;TPO,intron_variant,,ENST00000425083,;TPO,intron_variant,,ENST00000497517,;TPO,intron_variant,,ENST00000462973,;"	"T"	"ENSG00000115705"	"ENST00000345913"	"Transcript"	"intron_variant"	"-/3145"	"-/2802"	"-/933"	""	""	""	"1"	NA	1	"TPO"	"HGNC"	12015	"protein_coding"	"YES"	"CCDS1643.1"	"ENSP00000318820"	"P07202"	"Q53QT2,C9J511"	"UPI000013D480"	"NM_000547.5"	""	""	""	"14/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"762b98b2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26984126984127	"WGS"	FALSE
"16487"	"MYT1L"	23040	"mskcc.org"	"GRCh37"	"2"	1955753	1955753	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.153-8647G>C"	""	""	"ENST00000428368"	""	106	"88"	18	65	"65"	0	"MYT1L,intron_variant,,ENST00000399161,NM_015025.2;MYT1L,intron_variant,,ENST00000428368,;"	"G"	"ENSG00000186487"	"ENST00000428368"	"Transcript"	"intron_variant"	"-/4850"	"-/3555"	"-/1184"	""	""	""	"1"	NA	-1	"MYT1L"	"HGNC"	7623	"protein_coding"	"YES"	"CCDS46222.1"	"ENSP00000396103"	"Q9UL68"	""	"UPI00004E55EA"	""	""	""	""	"8/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"762be01a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.169811320754717	"WGS"	FALSE
"16488"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	2396086	2396086	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"90"	16	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"762c0446-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.150943396226415	"WGS"	FALSE
"16489"	"COLEC11"	78989	"mskcc.org"	"GRCh37"	"2"	3686300	3686300	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.316+1106A>C"	""	""	"ENST00000418971"	""	71	"59"	12	65	"65"	0	"COLEC11,intron_variant,,ENST00000403096,NM_001255986.1;COLEC11,intron_variant,,ENST00000236693,NM_199235.2;COLEC11,intron_variant,,ENST00000382062,NM_001255983.1,NM_001255982.1;COLEC11,intron_variant,,ENST00000418971,NM_001255985.1;COLEC11,intron_variant,,ENST00000349077,NM_024027.4;COLEC11,intron_variant,,ENST00000402794,NM_001255987.1;COLEC11,intron_variant,,ENST00000402922,NM_001255988.1;COLEC11,intron_variant,,ENST00000404205,NM_001255989.1;COLEC11,intron_variant,,ENST00000438814,;COLEC11,intron_variant,,ENST00000487365,;COLEC11,intron_variant,,ENST00000460971,;COLEC11,intron_variant,,ENST00000416132,;"	"C"	"ENSG00000118004"	"ENST00000418971"	"Transcript"	"intron_variant"	"-/1303"	"-/858"	"-/285"	""	""	""	"1"	NA	1	"COLEC11"	"HGNC"	17213	"protein_coding"	"YES"	"CCDS58689.1"	"ENSP00000411770"	"Q9BWP8"	"C9JWT5"	"UPI0001AE7699"	"NM_001255985.1"	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAG"	"762c9488-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.169014084507042	"WGS"	FALSE
"16490"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	4760884	4760884	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"101"	5	74	"74"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"762ccae8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0471698113207547	"WGS"	FALSE
"16491"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	6474219	6474219	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"rs189204813"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"75"	12	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs189204813"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0008"	"C:0"	"C:0.0029"	NA	"C:0"	"C:0.002"	"C:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"762d1bd8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WGS"	FALSE
"16492"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	6484763	6484763	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"rs183059222"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"110"	17	63	"63"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs183059222"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"G:0.0008"	"G:0"	"G:0.0029"	NA	"G:0"	"G:0.002"	"G:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"762d1ce6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133858267716535	"WGS"	FALSE
"16493"	"AC021021.2"	0	"mskcc.org"	"GRCh37"	"2"	6636351	6636351	"+"	"RNA"	"SNP"	"C"	"C"	"G"	"rs191712456"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.217C>G"	""	""	"ENST00000436082"	"1/3"	117	"100"	17	54	"54"	0	"AC021021.2,non_coding_transcript_exon_variant,,ENST00000436082,;AC021021.1,non_coding_transcript_exon_variant,,ENST00000454229,;"	"G"	"ENSG00000226488"	"ENST00000436082"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"217/528"	""	""	""	""	"rs191712456"	"1"	NA	1	"AC021021.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/3"	""	""	"G:0.0002"	"G:0"	"G:0.0014"	NA	"G:0"	"G:0"	"G:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"762d4d74-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145299145299145	"WGS"	FALSE
"16494"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	6695221	6695221	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs764727356"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"105"	14	73	"73"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs764727356"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"762d508a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"16495"	"hsa-mir-7515"	102466235	"mskcc.org"	"GRCh37"	"2"	6785105	6785105	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.142+5133A>G"	""	""	"ENST00000591018"	""	124	"114"	10	74	"74"	0	"hsa-mir-7515,intron_variant,,ENST00000591018,;hsa-mir-7515,intron_variant,,ENST00000591400,;hsa-mir-7515,intron_variant,,ENST00000588330,;hsa-mir-7515,intron_variant,,ENST00000590006,;hsa-mir-7515,intron_variant,,ENST00000592365,;hsa-mir-7515,intron_variant,,ENST00000587748,;hsa-mir-7515,intron_variant,,ENST00000591731,;hsa-mir-7515,intron_variant,,ENST00000586893,;hsa-mir-7515,intron_variant,,ENST00000591129,;hsa-mir-7515,intron_variant,,ENST00000591093,;hsa-mir-7515,intron_variant,,ENST00000590971,;hsa-mir-7515,intron_variant,,ENST00000588145,;hsa-mir-7515,intron_variant,,ENST00000588051,;hsa-mir-7515,intron_variant,,ENST00000591575,;hsa-mir-7515,intron_variant,,ENST00000587316,;hsa-mir-7515,intron_variant,,ENST00000592229,;hsa-mir-7515,intron_variant,,ENST00000587162,;hsa-mir-7515,intron_variant,,ENST00000593277,;hsa-mir-7515,intron_variant,,ENST00000586129,;hsa-mir-7515,intron_variant,,ENST00000585781,;hsa-mir-7515,intron_variant,,ENST00000588220,;hsa-mir-7515,intron_variant,,ENST00000585789,;hsa-mir-7515,intron_variant,,ENST00000431336,;hsa-mir-7515,downstream_gene_variant,,ENST00000592730,;hsa-mir-7515,downstream_gene_variant,,ENST00000415657,;hsa-mir-7515,downstream_gene_variant,,ENST00000585810,;hsa-mir-7515,downstream_gene_variant,,ENST00000592816,;hsa-mir-7515,downstream_gene_variant,,ENST00000587050,;hsa-mir-7515,downstream_gene_variant,,ENST00000425711,;hsa-mir-7515,downstream_gene_variant,,ENST00000585767,;hsa-mir-7515,downstream_gene_variant,,ENST00000450467,;"	"C"	"ENSG00000236172"	"ENST00000591018"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1240"	""	""	""	""	""	"1"	NA	-1	"hsa-mir-7515"	"miRBase"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"762d5ab2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WGS"	FALSE
"16496"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	6826101	6826101	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs576349557"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"105"	13	76	"76"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs576349557"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0012"	"A:0"	"A:0.0058"	NA	"A:0"	"A:0.002"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"762d63cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.110169491525424	"WGS"	FALSE
"16497"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	6855617	6855617	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"rs186180343"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"108"	10	71	"71"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs186180343"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0002"	"C:0"	"C:0.0014"	NA	"C:0"	"C:0"	"C:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"762d66a6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0847457627118644	"WGS"	FALSE
"16498"	"RP11-434B12.1"	0	"mskcc.org"	"GRCh37"	"2"	8857770	8857770	"+"	"3'Flank"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000569008"	""	107	"80"	27	65	"65"	0	"RP11-434B12.1,downstream_gene_variant,,ENST00000569008,;"	"C"	"ENSG00000260837"	"ENST00000569008"	"Transcript"	"downstream_gene_variant"	"-/1553"	""	""	""	""	""	"1"	"3494"	-1	"RP11-434B12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"762daea4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252336448598131	"WGS"	FALSE
"16499"	"AC096559.1"	100506457	"mskcc.org"	"GRCh37"	"2"	12390487	12390487	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs555166228"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.316-58327A>G"	""	""	"ENST00000412294"	""	101	"93"	8	63	"63"	0	"AC096559.1,intron_variant,,ENST00000412294,;AC096559.1,intron_variant,,ENST00000438292,;"	"G"	"ENSG00000224184"	"ENST00000412294"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2183"	""	""	""	""	"rs555166228"	"1"	NA	1	"AC096559.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/5"	""	"G:0.0008"	"G:0.0008"	"G:0"	NA	"G:0"	"G:0"	"G:0.0031"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"762e7c1c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0792079207920792	"WGS"	FALSE
"16500"	"NBAS"	51594	"mskcc.org"	"GRCh37"	"2"	15568961	15568961	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2340-1043T>C"	""	""	"ENST00000281513"	""	106	"98"	8	63	"63"	0	"NBAS,intron_variant,,ENST00000281513,NM_015909.3;NBAS,intron_variant,,ENST00000441750,;NBAS,upstream_gene_variant,,ENST00000442506,;NBAS,upstream_gene_variant,,ENST00000441755,;"	"G"	"ENSG00000151779"	"ENST00000281513"	"Transcript"	"intron_variant"	"-/7281"	"-/7116"	"-/2371"	""	""	""	"1"	NA	-1	"NBAS"	"HGNC"	15625	"protein_coding"	"YES"	"CCDS1685.1"	"ENSP00000281513"	"A2RRP1"	"Q4ZG05,H7C007"	"UPI00001AEA68"	"NM_015909.3"	""	""	""	"21/51"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"762ee4ea-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0754716981132075	"WGS"	FALSE
"16501"	"NBAS"	51594	"mskcc.org"	"GRCh37"	"2"	15624523	15624523	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1083+4495A>G"	""	""	"ENST00000281513"	""	106	"97"	9	55	"55"	0	"NBAS,intron_variant,,ENST00000281513,NM_015909.3;NBAS,intron_variant,,ENST00000441750,;NBAS,intron_variant,,ENST00000427792,;"	"C"	"ENSG00000151779"	"ENST00000281513"	"Transcript"	"intron_variant"	"-/7281"	"-/7116"	"-/2371"	""	""	""	"1"	NA	-1	"NBAS"	"HGNC"	15625	"protein_coding"	"YES"	"CCDS1685.1"	"ENSP00000281513"	"A2RRP1"	"Q4ZG05,H7C007"	"UPI00001AEA68"	"NM_015909.3"	""	""	""	"12/51"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATC"	"762ee6a2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0849056603773585	"WGS"	FALSE
"16502"	"AC008278.2"	0	"mskcc.org"	"GRCh37"	"2"	15707735	15707735	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.239+2413A>G"	""	""	"ENST00000438178"	""	103	"90"	13	54	"54"	0	"AC008278.2,intron_variant,,ENST00000438178,;"	"G"	"ENSG00000234022"	"ENST00000438178"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/409"	""	""	""	""	""	"1"	NA	1	"AC008278.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"762eea94-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12621359223301	"WGS"	FALSE
"16503"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	15903766	15903766	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs752203610"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"93"	17	74	"74"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs752203610"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"762ef502-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.154545454545455	"WGS"	FALSE
"16504"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	15915088	15915088	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"89"	20	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"762ef890-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.18348623853211	"WGS"	FALSE
"16505"	"AC130710.1"	0	"mskcc.org"	"GRCh37"	"2"	16211361	16211361	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs552140841"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.252-2065G>A"	""	""	"ENST00000426539"	""	102	"91"	11	54	"54"	0	"AC130710.1,intron_variant,,ENST00000426539,;AC130710.1,upstream_gene_variant,,ENST00000442387,;"	"A"	"ENSG00000236289"	"ENST00000426539"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1096"	""	""	""	""	"rs552140841"	"1"	NA	1	"AC130710.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	"A:0.0002"	"A:0"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"762f13d4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107843137254902	"WGS"	FALSE
"16506"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	16364591	16364591	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"77"	12	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"762f23e2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134831460674157	"WGS"	FALSE
"16507"	"SNORA40"	0	"mskcc.org"	"GRCh37"	"2"	16378040	16378040	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000515895"	""	89	"79"	10	59	"59"	0	"SNORA40,upstream_gene_variant,,ENST00000515895,;"	"G"	"ENSG00000251704"	"ENST00000515895"	"Transcript"	"upstream_gene_variant"	"-/93"	""	""	""	""	""	"1"	"2431"	1	"SNORA40"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"762f2716-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112359550561798	"WGS"	FALSE
"16508"	"AC010880.1"	0	"mskcc.org"	"GRCh37"	"2"	16605545	16605545	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"rs191163905"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.158-7454T>A"	""	""	"ENST00000427950"	""	125	"118"	7	78	"78"	0	"AC010880.1,intron_variant,,ENST00000427950,;AC010880.1,intron_variant,,ENST00000425176,;"	"A"	"ENSG00000224400"	"ENST00000427950"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/432"	""	""	""	""	"rs191163905"	"1"	NA	1	"AC010880.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	"A:0.0088"	"A:0.0008"	"A:0.0274"	NA	"A:0"	"A:0.002"	"A:0.0225"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"762f3954-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.056	"WGS"	FALSE
"16509"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	16620134	16620134	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	135	"110"	25	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"762f39ae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WGS"	FALSE
"16510"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	16634716	16634716	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"rs184480678"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	126	"105"	21	80	"80"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs184480678"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"C:0.0012"	"C:0"	"C:0.0029"	NA	"C:0.001"	"C:0.002"	"C:0.001"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"762f3a08-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"16511"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	16658467	16658467	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs145226976"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	132	"117"	15	70	"70"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs145226976"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"G:0.0060"	"G:0"	"G:0.0043"	NA	"G:0.001"	"G:0.002"	"G:0.0245"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"762f3b16-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WGS"	FALSE
"16512"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	16688548	16688548	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"rs149574660"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	136	"125"	11	71	"71"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs149574660"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"G:0.0060"	"G:0"	"G:0.0043"	NA	"G:0.001"	"G:0.002"	"G:0.0245"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"762f3c24-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0808823529411765	"WGS"	FALSE
"16513"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	16690795	16690795	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"116"	11	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"762f3c7e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0866141732283465	"WGS"	FALSE
"16514"	"KCNS3"	3790	"mskcc.org"	"GRCh37"	"2"	18300732	18300732	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.306-50924G>T"	""	""	"ENST00000465292"	""	91	"69"	22	71	"71"	0	"KCNS3,intron_variant,,ENST00000465292,;"	"T"	"ENSG00000170745"	"ENST00000465292"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/585"	""	""	""	""	""	"1"	NA	1	"KCNS3"	"HGNC"	6302	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"762f68fc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241758241758242	"WGS"	FALSE
"16515"	"AC092594.1"	0	"mskcc.org"	"GRCh37"	"2"	19246340	19246340	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.481-1573C>T"	""	""	"ENST00000449124"	""	110	"86"	24	68	"68"	0	"AC092594.1,intron_variant,,ENST00000449124,;AC092594.1,intron_variant,,ENST00000432142,;AC092594.1,intron_variant,,ENST00000418165,;"	"A"	"ENSG00000236204"	"ENST00000449124"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/626"	""	""	""	""	""	"1"	NA	-1	"AC092594.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"762f7c98-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218181818181818	"WGS"	FALSE
"16516"	"ENSR00001540202"	0	"mskcc.org"	"GRCh37"	"2"	20637228	20637228	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001540202"	""	82	"59"	23	49	"49"	0	""	"G"	""	"ENSR00001540202"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"762fa056-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280487804878049	"WGS"	FALSE
"16517"	"ENSR00001540216"	0	"mskcc.org"	"GRCh37"	"2"	20751874	20751874	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001540216"	""	108	"100"	8	64	"64"	0	""	"T"	""	"ENSR00001540216"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"762fa38a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"16518"	"AC068490.2"	0	"mskcc.org"	"GRCh37"	"2"	22479197	22479197	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.71-45331G>T"	""	""	"ENST00000450551"	""	127	"107"	20	67	"67"	0	"AC068490.2,intron_variant,,ENST00000450551,;"	"A"	"ENSG00000231200"	"ENST00000450551"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/636"	""	""	""	""	""	"1"	NA	-1	"AC068490.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"762fc70c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15748031496063	"WGS"	FALSE
"16519"	"DTNB"	1838	"mskcc.org"	"GRCh37"	"2"	25758599	25758599	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.877-4133A>T"	""	""	"ENST00000406818"	""	38	"32"	6	26	"26"	0	"DTNB,intron_variant,,ENST00000406818,NM_001256303.1,NM_021907.4;DTNB,intron_variant,,ENST00000407661,NM_183360.2,NM_001256304.1;DTNB,intron_variant,,ENST00000404103,NM_033147.3;DTNB,intron_variant,,ENST00000288642,;DTNB,intron_variant,,ENST00000496972,NM_001256308.1;DTNB,intron_variant,,ENST00000407038,NM_033148.3;DTNB,intron_variant,,ENST00000407186,;DTNB,intron_variant,,ENST00000405222,NM_183361.2;DTNB,intron_variant,,ENST00000545439,;DTNB,intron_variant,,ENST00000398951,;DTNB,intron_variant,,ENST00000485845,;DTNB,intron_variant,,ENST00000356599,;"	"A"	"ENSG00000138101"	"ENST00000406818"	"Transcript"	"intron_variant"	"-/2474"	"-/1884"	"-/627"	""	""	""	"1"	NA	-1	"DTNB"	"HGNC"	3058	"protein_coding"	"YES"	"CCDS46237.1"	"ENSP00000384084"	"O60941"	"Q53TC8,Q53T51,Q53SF9,Q53QV1,F8W9U0,E9PE76,E7ES64"	"UPI0000129949"	"NM_001256303.1,NM_021907.4"	""	""	""	"8/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"763023d2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"16520"	"ALK"	238	"mskcc.org"	"GRCh37"	"2"	29579855	29579855	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1282+26743T>A"	""	""	"ENST00000389048"	""	88	"69"	19	64	"64"	0	"ALK,intron_variant,,ENST00000389048,NM_004304.4;ALK,intron_variant,,ENST00000431873,;"	"T"	"ENSG00000171094"	"ENST00000389048"	"Transcript"	"intron_variant"	"-/6220"	"-/4863"	"-/1620"	""	""	""	"1"	NA	-1	"ALK"	"HGNC"	427	"protein_coding"	"YES"	"CCDS33172.1"	"ENSP00000373700"	"Q9UM73"	"Q580I3"	"UPI00001684DA"	"NM_004304.4"	""	""	""	"5/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAC"	"76309344-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215909090909091	"WGS"	TRUE
"16521"	"AC016907.3"	101930384	"mskcc.org"	"GRCh37"	"2"	30271262	30271262	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000453606"	""	106	"84"	22	63	"63"	0	"AC016907.3,downstream_gene_variant,,ENST00000453606,;"	"A"	"ENSG00000233862"	"ENST00000453606"	"Transcript"	"downstream_gene_variant"	"-/352"	""	""	""	""	""	"1"	"2670"	-1	"AC016907.3"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7630a6f4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207547169811321	"WGS"	FALSE
"16522"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	30598163	30598163	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"57"	13	50	"50"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7630b158-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185714285714286	"WGS"	FALSE
"16523"	"AL133247.2"	0	"mskcc.org"	"GRCh37"	"2"	31776789	31776789	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.256-11355C>T"	""	""	"ENST00000435713"	""	100	"78"	22	72	"72"	0	"AL133247.2,intron_variant,,ENST00000435713,;SRD5A2,intron_variant,,ENST00000405650,;SRD5A2,intron_variant,,ENST00000233139,;"	"T"	"ENSG00000228563"	"ENST00000435713"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/646"	""	""	""	""	""	"1"	NA	1	"AL133247.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7630ccb0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22	"WGS"	FALSE
"16524"	"NLRC4"	58484	"mskcc.org"	"GRCh37"	"2"	32468799	32468799	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2258-2605C>T"	""	""	"ENST00000404025"	""	46	"40"	6	52	"52"	0	"NLRC4,intron_variant,,ENST00000404025,;NLRC4,intron_variant,,ENST00000360906,NM_001199139.1,NM_021209.4;NLRC4,intron_variant,,ENST00000402280,NM_001199138.1;NLRC4,intron_variant,,ENST00000342905,;"	"A"	"ENSG00000091106"	"ENST00000404025"	"Transcript"	"intron_variant"	"-/3581"	"-/3075"	"-/1024"	""	""	""	"1"	NA	-1	"NLRC4"	"HGNC"	16412	"protein_coding"	"YES"	"CCDS33174.1"	"ENSP00000385090"	"Q9NPP4"	""	"UPI0000126FAD"	""	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"7630e074-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130434782608696	"WGS"	FALSE
"16525"	"NLRC4"	58484	"mskcc.org"	"GRCh37"	"2"	32468801	32468801	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2258-2607G>T"	""	""	"ENST00000404025"	""	42	"38"	4	52	"52"	0	"NLRC4,intron_variant,,ENST00000404025,;NLRC4,intron_variant,,ENST00000360906,NM_001199139.1,NM_021209.4;NLRC4,intron_variant,,ENST00000402280,NM_001199138.1;NLRC4,intron_variant,,ENST00000342905,;"	"A"	"ENSG00000091106"	"ENST00000404025"	"Transcript"	"intron_variant"	"-/3581"	"-/3075"	"-/1024"	""	""	""	"1"	NA	-1	"NLRC4"	"HGNC"	16412	"protein_coding"	"YES"	"CCDS33174.1"	"ENSP00000385090"	"Q9NPP4"	""	"UPI0000126FAD"	""	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"7630e0c4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"16526"	"BIRC6"	57448	"mskcc.org"	"GRCh37"	"2"	32705139	32705139	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7408+454C>T"	""	""	"ENST00000421745"	""	100	"94"	6	54	"54"	0	"BIRC6,intron_variant,,ENST00000421745,NM_016252.3;BIRC6,downstream_gene_variant,,ENST00000462504,;"	"T"	"ENSG00000115760"	"ENST00000421745"	"Transcript"	"intron_variant"	"-/15703"	"-/14574"	"-/4857"	""	""	""	"1"	NA	1	"BIRC6"	"HGNC"	13516	"protein_coding"	"YES"	"CCDS33175.2"	"ENSP00000393596"	"Q9NR09"	""	"UPI0001611442"	"NM_016252.3"	""	""	""	"37/73"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"7630e880-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.06	"WGS"	FALSE
"16527"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33169874	33169874	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"rs57256384"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000404816"	""	91	"81"	10	52	"52"	0	"LTBP1,upstream_gene_variant,,ENST00000404816,;LTBP1,upstream_gene_variant,,ENST00000354476,NM_206943.2;Y_RNA,downstream_gene_variant,,ENST00000384224,;"	"T"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"upstream_gene_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs57256384"	"1"	"2165"	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	""	""	"T:0.0224"	"T:0.0809"	"T:0.0058"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7630f9e2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10989010989011	"WGS"	FALSE
"16528"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33170608	33170608	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"rs189688721"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000404816"	""	79	"65"	14	65	"65"	0	"LTBP1,upstream_gene_variant,,ENST00000404816,;LTBP1,upstream_gene_variant,,ENST00000354476,NM_206943.2;Y_RNA,upstream_gene_variant,,ENST00000384224,;"	"T"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"upstream_gene_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs189688721"	"1"	"1431"	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	""	""	"T:0.0016"	"T:0.0061"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7630fa32-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177215189873418	"WGS"	FALSE
"16529"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33176261	33176261	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.565+2249A>C"	""	""	"ENST00000404816"	""	98	"89"	9	47	"47"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;"	"C"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	""	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"2/33"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"7630fa8c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0918367346938776	"WGS"	FALSE
"16530"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33177501	33177501	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"rs116593141"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.565+3489T>C"	""	""	"ENST00000404816"	""	98	"89"	9	71	"71"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;"	"C"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs116593141"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"2/33"	""	"C:0.0194"	"C:0.0688"	"C:0.0072"	NA	"C:0"	"C:0"	"C:0.001"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"7630fae6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0918367346938776	"WGS"	FALSE
"16531"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33211497	33211497	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs143555903"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.566-34479G>A"	""	""	"ENST00000404816"	""	122	"114"	8	59	"59"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;SNORD112,downstream_gene_variant,,ENST00000516693,;"	"A"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs143555903"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"2/33"	""	"A:0.0010"	"A:0.0038"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7631011c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0655737704918033	"WGS"	FALSE
"16532"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33223469	33223469	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs186332951"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.566-22507G>A"	""	""	"ENST00000404816"	""	83	"73"	10	42	"42"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;"	"A"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs186332951"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"2/33"	""	"A:0.0010"	"A:0.0038"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"76310176-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120481927710843	"WGS"	FALSE
"16533"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33225661	33225661	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.566-20315T>C"	""	""	"ENST00000404816"	""	50	"36"	14	32	"32"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;"	"C"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	""	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"2/33"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"76310220-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"16534"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33246450	33246450	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.863+177A>C"	""	""	"ENST00000404816"	""	104	"79"	25	76	"76"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;"	"C"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	""	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"3/33"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"763102d4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240384615384615	"WGS"	FALSE
"16535"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33249104	33249104	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs1454313"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.863+2831G>A"	""	""	"ENST00000404816"	""	114	"99"	15	76	"76"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;"	"A"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs1454313"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"3/33"	""	"A:0.0004"	"A:0.0015"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7631032e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WGS"	FALSE
"16536"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33258775	33258775	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs80152417"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.863+12502C>T"	""	""	"ENST00000404816"	""	105	"93"	12	49	"49"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;"	"T"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs80152417"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"3/33"	""	"T:0.0084"	"T:0.0257"	"T:0"	NA	"T:0.001"	"T:0"	"T:0.0072"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"763103a6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"16537"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33273763	33273763	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs114848119"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.863+27490G>A"	""	""	"ENST00000404816"	""	95	"85"	10	48	"48"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;"	"A"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs114848119"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"3/33"	""	"A:0.0198"	"A:0.0643"	"A:0.0058"	NA	"A:0.001"	"A:0"	"A:0.0092"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"76310400-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"16538"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33286950	33286950	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs148085573"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.863+40677A>G"	""	""	"ENST00000404816"	""	102	"92"	10	65	"65"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;AL133244.1,intron_variant,,ENST00000456007,;"	"G"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs148085573"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"3/33"	""	"G:0.0094"	"G:0.028"	"G:0"	NA	"G:0.001"	"G:0"	"G:0.0092"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"7631045a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0980392156862745	"WGS"	FALSE
"16539"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33295434	33295434	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs374231667"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.864-40215C>T"	""	""	"ENST00000404816"	""	111	"102"	9	71	"71"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;"	"T"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs374231667"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"3/33"	""	"T:0.0018"	"T:0.0068"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"76310504-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"16540"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33305358	33305358	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs146602723"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.864-30291G>A"	""	""	"ENST00000404816"	""	96	"90"	6	58	"58"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;"	"A"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs146602723"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"3/33"	""	"A:0.0202"	"A:0.0658"	"A:0.0058"	NA	"A:0.001"	"A:0"	"A:0.0092"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"76310680-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"16541"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33314790	33314790	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"rs78718170"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.864-20859C>A"	""	""	"ENST00000404816"	""	120	"107"	13	80	"80"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;"	"A"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs78718170"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"3/33"	""	"A:0.0194"	"A:0.0628"	"A:0.0058"	NA	"A:0.001"	"A:0"	"A:0.0092"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"76310734-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108333333333333	"WGS"	FALSE
"16542"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33314810	33314810	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"rs77301263"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.864-20839C>A"	""	""	"ENST00000404816"	""	117	"105"	12	80	"80"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;"	"A"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs77301263"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"3/33"	""	"A:0.0194"	"A:0.0628"	"A:0.0058"	NA	"A:0.001"	"A:0"	"A:0.0092"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7631078e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"16543"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33331485	33331485	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.864-4164G>T"	""	""	"ENST00000404816"	""	111	"73"	38	69	"69"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;"	"T"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	""	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"3/33"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"763109b4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.342342342342342	"WGS"	FALSE
"16544"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33363869	33363869	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs114567306"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1201+3842A>G"	""	""	"ENST00000404816"	""	114	"99"	15	60	"60"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;LTBP1,intron_variant,,ENST00000390003,NM_000627.3;LTBP1,intron_variant,,ENST00000418533,NM_001166266.1,NM_001166264.1;LTBP1,intron_variant,,ENST00000404525,NM_001166265.1;LTBP1,intron_variant,,ENST00000407925,;LTBP1,intron_variant,,ENST00000402934,;LTBP1,intron_variant,,ENST00000432635,;"	"G"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs114567306"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"5/33"	""	"G:0.0206"	"G:0.0734"	"G:0.0086"	NA	"G:0"	"G:0"	"G:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76310b80-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WGS"	FALSE
"16545"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33411367	33411367	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"rs7569883"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1202-556T>C"	""	""	"ENST00000404816"	""	109	"97"	12	59	"59"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;LTBP1,intron_variant,,ENST00000390003,NM_000627.3;LTBP1,intron_variant,,ENST00000418533,NM_001166266.1,NM_001166264.1;LTBP1,intron_variant,,ENST00000404525,NM_001166265.1;LTBP1,intron_variant,,ENST00000407925,;LTBP1,intron_variant,,ENST00000402934,;LTBP1,intron_variant,,ENST00000432635,;"	"C"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs7569883"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"5/33"	""	"C:0.0240"	"C:0.0855"	"C:0.0101"	NA	"C:0"	"C:0"	"C:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"76310da6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.110091743119266	"WGS"	FALSE
"16546"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33454843	33454843	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs114212609"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1876+7625C>T"	""	""	"ENST00000404816"	""	105	"91"	14	55	"55"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;LTBP1,intron_variant,,ENST00000390003,NM_000627.3;LTBP1,intron_variant,,ENST00000418533,NM_001166266.1,NM_001166264.1;LTBP1,intron_variant,,ENST00000404525,NM_001166265.1;LTBP1,intron_variant,,ENST00000407925,;LTBP1,intron_variant,,ENST00000402934,;"	"T"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs114212609"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"9/33"	""	"T:0.0118"	"T:0.0401"	"T:0.0043"	NA	"T:0"	"T:0.001"	"T:0.002"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"76311198-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"16547"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33494528	33494528	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"rs2603360"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2618-4195A>C"	""	""	"ENST00000404816"	""	115	"98"	17	56	"56"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;LTBP1,intron_variant,,ENST00000390003,NM_000627.3;LTBP1,intron_variant,,ENST00000418533,NM_001166266.1,NM_001166264.1;LTBP1,intron_variant,,ENST00000404525,NM_001166265.1;LTBP1,intron_variant,,ENST00000407925,;LTBP1,intron_variant,,ENST00000402934,;LTBP1,intron_variant,,ENST00000413303,;LTBP1,intron_variant,,ENST00000468091,;"	"C"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs2603360"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"15/33"	""	"C:0.0096"	"C:0.0333"	"C:0.0058"	NA	"C:0"	"C:0"	"C:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"76311760-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147826086956522	"WGS"	FALSE
"16548"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33619045	33619045	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs192387750"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4835-3155G>A"	""	""	"ENST00000404816"	""	51	"41"	10	38	"38"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;LTBP1,intron_variant,,ENST00000390003,NM_000627.3;LTBP1,intron_variant,,ENST00000418533,NM_001166266.1,NM_001166264.1;LTBP1,intron_variant,,ENST00000404525,NM_001166265.1;LTBP1,intron_variant,,ENST00000407925,;LTBP1,intron_variant,,ENST00000402934,;LTBP1,intron_variant,,ENST00000272273,;"	"A"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs192387750"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"32/33"	""	"A:0.0190"	"A:0.062"	"A:0.0115"	NA	"A:0"	"A:0.005"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76311d8c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196078431372549	"WGS"	FALSE
"16549"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33622676	33622676	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs111497574"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4984+327G>A"	""	""	"ENST00000404816"	""	77	"60"	17	41	"41"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;LTBP1,intron_variant,,ENST00000390003,NM_000627.3;LTBP1,intron_variant,,ENST00000418533,NM_001166266.1,NM_001166264.1;LTBP1,intron_variant,,ENST00000404525,NM_001166265.1;LTBP1,intron_variant,,ENST00000407925,;LTBP1,intron_variant,,ENST00000402934,;LTBP1,intron_variant,,ENST00000272273,;"	"A"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs111497574"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"33/33"	""	"A:0.0186"	"A:0.0598"	"A:0.0115"	NA	"A:0"	"A:0.005"	"A:0.001"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"76311e9a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220779220779221	"WGS"	FALSE
"16550"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33622977	33622977	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"rs76996893"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4985-454C>G"	""	""	"ENST00000404816"	""	68	"56"	12	52	"52"	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;LTBP1,intron_variant,,ENST00000390003,NM_000627.3;LTBP1,intron_variant,,ENST00000418533,NM_001166266.1,NM_001166264.1;LTBP1,intron_variant,,ENST00000404525,NM_001166265.1;LTBP1,intron_variant,,ENST00000407925,;LTBP1,intron_variant,,ENST00000402934,;LTBP1,intron_variant,,ENST00000272273,;"	"G"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs76996893"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	"33/33"	""	"G:0.0184"	"G:0.0598"	"G:0.0115"	NA	"G:0"	"G:0.005"	"G:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"76311eea-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"16551"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33625145	33625145	"+"	"3'Flank"	"SNP"	"T"	"C"	"C"	"rs77997631"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000404816"	""	55	"40"	15	34	"33"	1	"LTBP1,downstream_gene_variant,,ENST00000404816,;LTBP1,downstream_gene_variant,,ENST00000354476,NM_206943.2;LTBP1,downstream_gene_variant,,ENST00000390003,NM_000627.3;LTBP1,downstream_gene_variant,,ENST00000418533,NM_001166266.1,NM_001166264.1;LTBP1,downstream_gene_variant,,ENST00000404525,NM_001166265.1;LTBP1,downstream_gene_variant,,ENST00000407925,;LTBP1,downstream_gene_variant,,ENST00000402934,;LTBP1,downstream_gene_variant,,ENST00000272273,;"	"C"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"downstream_gene_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs77997631"	"1"	"719"	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	""	""	"C:0.0186"	"C:0.0605"	"C:0.0115"	NA	"C:0"	"C:0.005"	"C:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"76311f44-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"16552"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33626077	33626077	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"rs112189329"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000404816"	""	74	"68"	6	39	"39"	0	"LTBP1,downstream_gene_variant,,ENST00000404816,;LTBP1,downstream_gene_variant,,ENST00000354476,NM_206943.2;LTBP1,downstream_gene_variant,,ENST00000390003,NM_000627.3;LTBP1,downstream_gene_variant,,ENST00000418533,NM_001166266.1,NM_001166264.1;LTBP1,downstream_gene_variant,,ENST00000404525,NM_001166265.1;LTBP1,downstream_gene_variant,,ENST00000407925,;LTBP1,downstream_gene_variant,,ENST00000402934,;LTBP1,downstream_gene_variant,,ENST00000272273,;"	"T"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"downstream_gene_variant"	"-/6333"	"-/5166"	"-/1721"	""	""	"rs112189329"	"1"	"1651"	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	""	""	""	""	""	"T:0.0186"	"T:0.0598"	"T:0.0115"	NA	"T:0"	"T:0.006"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"76312052-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"16553"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	33633343	33633343	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"rs113318019"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"82"	8	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs113318019"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0026"	"A:0.0061"	"A:0.0043"	NA	"A:0"	"A:0.002"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"76312322-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"16554"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	35530078	35530078	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"90"	28	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76316a1c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23728813559322	"WGS"	FALSE
"16555"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	35583166	35583166	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	132	"109"	23	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"76316cd8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174242424242424	"WGS"	FALSE
"16556"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	41704511	41704511	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	132	"99"	33	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"76321afc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"16557"	"MTA3"	57504	"mskcc.org"	"GRCh37"	"2"	42833039	42833039	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"rs375924573"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.191-3559T>C"	""	""	"ENST00000407270"	""	20	"15"	5	8	"8"	0	"MTA3,intron_variant,,ENST00000405592,NM_001282755.1;MTA3,intron_variant,,ENST00000406652,NM_001282756.1;MTA3,intron_variant,,ENST00000407270,NM_020744.2;MTA3,intron_variant,,ENST00000406911,;MTA3,intron_variant,,ENST00000405094,;MTA3,intron_variant,,ENST00000433553,;MTA3,intron_variant,,ENST00000484780,;MTA3,intron_variant,,ENST00000461256,;MTA3,intron_variant,,ENST00000493983,;MTA3,intron_variant,,ENST00000409019,;MTA3,intron_variant,,ENST00000454356,;MTA3,intron_variant,,ENST00000430763,;"	"C"	"ENSG00000057935"	"ENST00000407270"	"Transcript"	"intron_variant"	"-/2202"	"-/1548"	"-/515"	""	""	"rs375924573"	"1"	NA	1	"MTA3"	"HGNC"	23784	"protein_coding"	"YES"	"CCDS46267.1"	"ENSP00000385045"	"Q9BTC8"	"Q53SC0,Q53RX8,Q53QZ9"	"UPI000002AE6A"	"NM_020744.2"	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"76324b30-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"16558"	"MSH2"	4436	"mskcc.org"	"GRCh37"	"2"	47659031	47659031	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1276+1951T>A"	""	""	"ENST00000233146"	""	49	"44"	5	30	"30"	0	"MSH2,intron_variant,,ENST00000406134,;MSH2,intron_variant,,ENST00000233146,NM_000251.2;MSH2,intron_variant,,ENST00000543555,NM_001258281.1;"	"A"	"ENSG00000095002"	"ENST00000233146"	"Transcript"	"intron_variant"	"-/3307"	"-/2805"	"-/934"	""	""	""	"1"	NA	1	"MSH2"	"HGNC"	7325	"protein_coding"	"YES"	"CCDS1834.1"	"ENSP00000233146"	"P43246"	"Q53RU4,C9J809,B4DL39"	"UPI00000405F6"	"NM_000251.2"	""	""	""	"7/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"7632dd98-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WGS"	TRUE
"16559"	"AC079807.4"	0	"mskcc.org"	"GRCh37"	"2"	48460390	48460390	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.56+7677G>A"	""	""	"ENST00000447571"	""	74	"57"	17	68	"68"	0	"AC079807.4,intron_variant,,ENST00000447571,;"	"T"	"ENSG00000230773"	"ENST00000447571"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1808"	""	""	""	""	""	"1"	NA	-1	"AC079807.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"7632f508-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22972972972973	"WGS"	FALSE
"16560"	"STON1-GTF2A1L"	286749	"mskcc.org"	"GRCh37"	"2"	48841765	48841765	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2134-6225C>T"	""	""	"ENST00000394754"	""	67	"48"	19	46	"46"	0	"STON1-GTF2A1L,intron_variant,,ENST00000394754,NM_172311.2;STON1-GTF2A1L,intron_variant,,ENST00000405008,;STON1-GTF2A1L,intron_variant,,ENST00000402114,NM_001198593.1;STON1-GTF2A1L,intron_variant,,ENST00000309827,;STON1-GTF2A1L,intron_variant,,ENST00000394751,NM_001198594.1;GTF2A1L,upstream_gene_variant,,ENST00000403751,NM_006872.3;GTF2A1L,upstream_gene_variant,,ENST00000430487,NM_001193487.1;GTF2A1L,upstream_gene_variant,,ENST00000437125,;GTF2A1L,upstream_gene_variant,,ENST00000448460,;GTF2A1L,upstream_gene_variant,,ENST00000468326,;GTF2A1L,upstream_gene_variant,,ENST00000423675,;"	"T"	"ENSG00000068781"	"ENST00000394754"	"Transcript"	"intron_variant"	"-/3824"	"-/3549"	"-/1182"	""	""	""	"1"	NA	1	"STON1-GTF2A1L"	"HGNC"	30651	"protein_coding"	"YES"	"CCDS1840.1"	"ENSP00000378236"	""	"Q53S48"	"UPI000013C976"	"NM_172311.2"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7632ffe4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283582089552239	"WGS"	FALSE
"16561"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	50051574	50051574	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"90"	29	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"76331ede-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.243697478991597	"WGS"	FALSE
"16562"	"NRXN1"	9378	"mskcc.org"	"GRCh37"	"2"	50243780	50243780	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4248+36629C>T"	""	""	"ENST00000404971"	""	106	"82"	24	48	"48"	0	"NRXN1,intron_variant,,ENST00000404971,NM_001135659.1;NRXN1,intron_variant,,ENST00000406316,NM_004801.4;NRXN1,intron_variant,,ENST00000401669,;NRXN1,intron_variant,,ENST00000405472,;NRXN1,intron_variant,,ENST00000342183,NM_138735.2;NRXN1,intron_variant,,ENST00000402717,;NRXN1,intron_variant,,ENST00000406859,;NRXN1,intron_variant,,ENST00000401710,;NRXN1,intron_variant,,ENST00000378262,;"	"A"	"ENSG00000179915"	"ENST00000404971"	"Transcript"	"intron_variant"	"-/7578"	"-/4644"	"-/1547"	""	""	""	"1"	NA	-1	"NRXN1"	"HGNC"	8008	"protein_coding"	"YES"	"CCDS46282.1"	"ENSP00000385142"	"Q9ULB1"	"Q08AH0"	"UPI00015A218A"	"NM_001135659.1"	""	""	""	"22/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"7633241a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226415094339623	"WGS"	FALSE
"16563"	"AC007682.1"	730100	"mskcc.org"	"GRCh37"	"2"	52076936	52076936	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.840-11651T>G"	""	""	"ENST00000440698"	""	108	"101"	7	74	"74"	0	"AC007682.1,intron_variant,,ENST00000440698,;"	"G"	"ENSG00000231918"	"ENST00000440698"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3939"	""	""	""	""	""	"1"	NA	1	"AC007682.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"76334d78-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0648148148148148	"WGS"	FALSE
"16564"	"RNU6-634P"	0	"mskcc.org"	"GRCh37"	"2"	55723408	55723408	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000459134"	""	70	"63"	7	41	"41"	0	"RNU6-634P,upstream_gene_variant,,ENST00000459134,;"	"G"	"ENSG00000239189"	"ENST00000459134"	"Transcript"	"upstream_gene_variant"	"-/106"	""	""	""	""	""	"1"	"3678"	1	"RNU6-634P"	"HGNC"	47597	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"7633af0c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"16565"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	60529423	60529423	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"88"	18	77	"77"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"76343562-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.169811320754717	"WGS"	FALSE
"16566"	"PEX13"	5194	"mskcc.org"	"GRCh37"	"2"	61252303	61252303	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.93-6251A>G"	""	""	"ENST00000295030"	""	66	"58"	8	44	"44"	0	"PEX13,intron_variant,,ENST00000295030,NM_002618.3;PEX13,intron_variant,,ENST00000472678,;"	"G"	"ENSG00000162928"	"ENST00000295030"	"Transcript"	"intron_variant"	"-/4470"	"-/1212"	"-/403"	""	""	""	"1"	NA	1	"PEX13"	"HGNC"	8855	"protein_coding"	"YES"	"CCDS1866.1"	"ENSP00000295030"	"Q92968"	""	"UPI0000131707"	"NM_002618.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAA"	"763452cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"16567"	"AC018462.2"	0	"mskcc.org"	"GRCh37"	"2"	62375484	62375484	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000425966"	""	81	"68"	13	49	"49"	0	"COMMD1,downstream_gene_variant,,ENST00000427417,;COMMD1,downstream_gene_variant,,ENST00000458337,;COMMD1,downstream_gene_variant,,ENST00000444166,;AC018462.2,upstream_gene_variant,,ENST00000425966,;AC018462.2,upstream_gene_variant,,ENST00000421323,;AC018462.3,downstream_gene_variant,,ENST00000442699,;"	"T"	"ENSG00000229839"	"ENST00000425966"	"Transcript"	"upstream_gene_variant"	"-/1684"	""	""	""	""	""	"1"	"1468"	-1	"AC018462.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"76347392-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.160493827160494	"WGS"	FALSE
"16568"	"EHBP1"	23301	"mskcc.org"	"GRCh37"	"2"	63260853	63260853	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3317-3817A>G"	""	""	"ENST00000263991"	""	110	"102"	8	61	"61"	0	"EHBP1,intron_variant,,ENST00000263991,NM_015252.3;EHBP1,intron_variant,,ENST00000431489,NM_001142616.1;EHBP1,intron_variant,,ENST00000354487,NM_001142614.1;EHBP1,intron_variant,,ENST00000405015,NM_001142615.2;EHBP1,intron_variant,,ENST00000405289,;EHBP1,intron_variant,,ENST00000496857,;"	"G"	"ENSG00000115504"	"ENST00000263991"	"Transcript"	"intron_variant"	"-/5165"	"-/3696"	"-/1231"	""	""	""	"1"	NA	1	"EHBP1"	"HGNC"	29144	"protein_coding"	"YES"	"CCDS1872.1"	"ENSP00000263991"	"Q8NDI1"	"C9K0H9,C9JEP1,C9J268,B3KM32"	"UPI000013D49A"	"NM_015252.3"	""	""	""	"21/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAA"	"763486d4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0727272727272727	"WGS"	FALSE
"16569"	"AC012368.1"	0	"mskcc.org"	"GRCh37"	"2"	64313389	64313389	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000423539"	""	95	"80"	15	63	"63"	0	"AC012368.1,downstream_gene_variant,,ENST00000423539,;"	"C"	"ENSG00000228079"	"ENST00000423539"	"Transcript"	"downstream_gene_variant"	"-/563"	""	""	""	""	""	"1"	"95"	-1	"AC012368.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7634a2d6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"16570"	"AC074289.1"	0	"mskcc.org"	"GRCh37"	"2"	64470664	64470664	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.200-7589A>G"	""	""	"ENST00000451350"	""	109	"90"	19	58	"58"	0	"AC074289.1,intron_variant,,ENST00000451350,;AC074289.1,intron_variant,,ENST00000449678,;AC074289.1,intron_variant,,ENST00000436950,;AC074289.1,intron_variant,,ENST00000413030,;AC074289.1,intron_variant,,ENST00000426365,;"	"G"	"ENSG00000225889"	"ENST00000451350"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1504"	""	""	""	""	""	"1"	NA	1	"AC074289.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"7634a72c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174311926605505	"WGS"	FALSE
"16571"	"AC074391.1"	101927533	"mskcc.org"	"GRCh37"	"2"	65736727	65736727	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.862+8446G>A"	""	""	"ENST00000377977"	""	86	"75"	11	66	"66"	0	"AC074391.1,intron_variant,,ENST00000377977,;AC074391.1,intron_variant,,ENST00000606978,;AC007389.2,downstream_gene_variant,,ENST00000434630,;"	"A"	"ENSG00000204929"	"ENST00000377977"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1266"	""	""	""	""	""	"1"	NA	1	"AC074391.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7634cf0e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127906976744186	"WGS"	FALSE
"16572"	"PPP3R1"	5534	"mskcc.org"	"GRCh37"	"2"	68426225	68426225	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.44-10403T>C"	""	""	"ENST00000234310"	""	94	"72"	22	52	"52"	0	"PPP3R1,intron_variant,,ENST00000234310,NM_000945.3;PPP3R1,intron_variant,,ENST00000409752,;PPP3R1,intron_variant,,ENST00000409377,;RP11-474G23.1,intron_variant,,ENST00000406334,;"	"G"	"ENSG00000221823"	"ENST00000234310"	"Transcript"	"intron_variant"	"-/3023"	"-/513"	"-/170"	""	""	""	"1"	NA	-1	"PPP3R1"	"HGNC"	9317	"protein_coding"	"YES"	"CCDS46310.1"	"ENSP00000234310"	"P63098"	"F6U1T9"	"UPI00000012AE"	"NM_000945.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"7635268e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234042553191489	"WGS"	FALSE
"16573"	"GMCL1"	64395	"mskcc.org"	"GRCh37"	"2"	70087689	70087689	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1073-721G>T"	""	""	"ENST00000282570"	""	80	"61"	19	48	"48"	0	"GMCL1,intron_variant,,ENST00000282570,NM_178439.3;"	"T"	"ENSG00000087338"	"ENST00000282570"	"Transcript"	"intron_variant"	"-/4191"	"-/1548"	"-/515"	""	""	""	"1"	NA	1	"GMCL1"	"HGNC"	23843	"protein_coding"	"YES"	"CCDS1895.1"	"ENSP00000282570"	"Q96IK5"	"Q53SE7"	"UPI00000704BE"	"NM_178439.3"	""	""	""	"9/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"763552c6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2375	"WGS"	FALSE
"16574"	"PCBP1-AS1"	400960	"mskcc.org"	"GRCh37"	"2"	70281759	70281759	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.292-3322C>A"	""	""	"ENST00000416395"	""	50	"41"	9	42	"42"	0	"PCBP1-AS1,intron_variant,,ENST00000416395,;PCBP1-AS1,intron_variant,,ENST00000435880,;PCBP1-AS1,intron_variant,,ENST00000439670,;PCBP1-AS1,intron_variant,,ENST00000458698,;PCBP1-AS1,intron_variant,,ENST00000442040,;PCBP1-AS1,intron_variant,,ENST00000429599,;PCBP1-AS1,intron_variant,,ENST00000458686,;PCBP1-AS1,intron_variant,,ENST00000602091,;PCBP1-AS1,intron_variant,,ENST00000366234,;PCBP1-AS1,intron_variant,,ENST00000456161,;PCBP1-AS1,intron_variant,,ENST00000600002,;PCBP1-AS1,intron_variant,,ENST00000596028,;PCBP1-AS1,intron_variant,,ENST00000596573,;PCBP1-AS1,intron_variant,,ENST00000413791,;PCBP1-AS1,intron_variant,,ENST00000421255,;PCBP1-AS1,intron_variant,,ENST00000594548,;PCBP1-AS1,intron_variant,,ENST00000601396,;PCBP1-AS1,intron_variant,,ENST00000599673,;PCBP1-AS1,intron_variant,,ENST00000421843,;PCBP1-AS1,intron_variant,,ENST00000599427,;PCBP1-AS1,intron_variant,,ENST00000603347,;PCBP1-AS1,intron_variant,,ENST00000595459,;PCBP1-AS1,intron_variant,,ENST00000601395,;PCBP1-AS1,intron_variant,,ENST00000413436,;PCBP1-AS1,intron_variant,,ENST00000597318,;PCBP1-AS1,intron_variant,,ENST00000422515,;PCBP1-AS1,intron_variant,,ENST00000437456,;PCBP1-AS1,intron_variant,,ENST00000444320,;PCBP1-AS1,intron_variant,,ENST00000420309,;PCBP1-AS1,intron_variant,,ENST00000432604,;PCBP1-AS1,intron_variant,,ENST00000418308,;PCBP1-AS1,intron_variant,,ENST00000434781,;PCBP1-AS1,intron_variant,,ENST00000415742,;PCBP1-AS1,intron_variant,,ENST00000419963,;PCBP1-AS1,intron_variant,,ENST00000413069,;PCBP1-AS1,intron_variant,,ENST00000416068,;PCBP1-AS1,intron_variant,,ENST00000444410,;PCBP1-AS1,intron_variant,,ENST00000423402,;PCBP1-AS1,intron_variant,,ENST00000411429,;PCBP1-AS1,intron_variant,,ENST00000418564,;PCBP1-AS1,intron_variant,,ENST00000457770,;PCBP1-AS1,intron_variant,,ENST00000425333,;PCBP1-AS1,intron_variant,,ENST00000425601,;PCBP1-AS1,intron_variant,,ENST00000416506,;PCBP1-AS1,intron_variant,,ENST00000452431,;PCBP1-AS1,intron_variant,,ENST00000457076,;PCBP1-AS1,intron_variant,,ENST00000449178,;PCBP1-AS1,intron_variant,,ENST00000415060,;PCBP1-AS1,intron_variant,,ENST00000415222,;PCBP1-AS1,intron_variant,,ENST00000601431,;PCBP1-AS1,intron_variant,,ENST00000609543,;PCBP1-AS1,upstream_gene_variant,,ENST00000594376,;PCBP1-AS1,upstream_gene_variant,,ENST00000601494,;PCBP1-AS1,downstream_gene_variant,,ENST00000596665,;PCBP1-AS1,upstream_gene_variant,,ENST00000604346,;PCBP1-AS1,downstream_gene_variant,,ENST00000439892,;"	"T"	"ENSG00000179818"	"ENST00000416395"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2451"	""	""	""	""	""	"1"	NA	-1	"PCBP1-AS1"	"HGNC"	42948	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7635585c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.18	"WGS"	FALSE
"16575"	"C2orf42"	54980	"mskcc.org"	"GRCh37"	"2"	70376165	70376165	"+"	"3'Flank"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000264434"	""	45	"39"	6	42	"42"	0	"C2orf42,downstream_gene_variant,,ENST00000264434,NM_017880.1;C2orf42,downstream_gene_variant,,ENST00000420306,;"	"G"	"ENSG00000115998"	"ENST00000264434"	"Transcript"	"downstream_gene_variant"	"-/2581"	"-/1725"	"-/574"	""	""	""	"1"	"847"	-1	"C2orf42"	"HGNC"	26056	"protein_coding"	"YES"	"CCDS1899.1"	"ENSP00000264434"	"Q9NWW7"	"C9JZF3,C9JV10,C9JS43,C9JKD5,C9JK51,C9JJF4,C9J5U1,C9J4L7"	"UPI0000037CF2"	"NM_017880.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"76355a1e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"16576"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	72099842	72099842	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"76"	7	67	"67"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"763598c6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0843373493975904	"WGS"	FALSE
"16577"	"SPR"	6697	"mskcc.org"	"GRCh37"	"2"	73111405	73111405	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000234454"	""	74	"70"	4	63	"63"	0	"SPR,upstream_gene_variant,,ENST00000234454,NM_003124.4;SPR,upstream_gene_variant,,ENST00000498749,;"	"A"	"ENSG00000116096"	"ENST00000234454"	"Transcript"	"upstream_gene_variant"	"-/1480"	"-/786"	"-/261"	""	""	""	"1"	"3084"	1	"SPR"	"HGNC"	11257	"protein_coding"	"YES"	"CCDS1920.1"	"ENSP00000234454"	"P35270"	"Q9UEC5,Q93041"	"UPI000004C79D"	"NM_003124.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"7635b5f4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0540540540540541	"WGS"	FALSE
"16578"	"ENSR00001703452"	0	"mskcc.org"	"GRCh37"	"2"	74675829	74675829	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001703452"	""	71	"65"	6	61	"61"	0	""	"G"	""	"ENSR00001703452"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7635ec0e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"16579"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	76070907	76070907	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"78"	23	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"763612f6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227722772277228	"WGS"	FALSE
"16580"	"LRRTM4"	80059	"mskcc.org"	"GRCh37"	"2"	77260467	77260467	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1552-284425T>A"	""	""	"ENST00000409093"	""	136	"127"	9	53	"53"	0	"LRRTM4,intron_variant,,ENST00000409911,NM_001282924.1,NM_001134745.1;LRRTM4,intron_variant,,ENST00000409093,;LRRTM4,intron_variant,,ENST00000409884,;"	"T"	"ENSG00000176204"	"ENST00000409093"	"Transcript"	"intron_variant"	"-/2247"	"-/1773"	"-/590"	""	""	""	"1"	NA	-1	"LRRTM4"	"HGNC"	19411	"protein_coding"	"YES"	"CCDS46346.1"	"ENSP00000386357"	"Q86VH4"	"C9JM64"	"UPI0000047808"	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"76364050-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0661764705882353	"WGS"	FALSE
"16581"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	78486026	78486026	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"98"	6	69	"69"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"7636621a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0576923076923077	"WGS"	FALSE
"16582"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	78850714	78850714	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"78"	23	82	"82"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"76366e40-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227722772277228	"WGS"	FALSE
"16583"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	79041504	79041504	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"81"	30	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"763671f6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27027027027027	"WGS"	FALSE
"16584"	"CTNNA2"	1496	"mskcc.org"	"GRCh37"	"2"	80789151	80789151	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1741+6133A>T"	""	""	"ENST00000466387"	""	95	"72"	23	56	"56"	0	"CTNNA2,intron_variant,,ENST00000466387,;CTNNA2,intron_variant,,ENST00000496558,NM_001164883.1,NM_004389.3,NM_001282598.1;CTNNA2,intron_variant,,ENST00000402739,NM_001282597.1;CTNNA2,intron_variant,,ENST00000541047,;CTNNA2,intron_variant,,ENST00000343114,NM_001282600.1,NM_001282599.1;CTNNA2,intron_variant,,ENST00000361291,;CTNNA2,intron_variant,,ENST00000540488,;"	"T"	"ENSG00000066032"	"ENST00000466387"	"Transcript"	"intron_variant"	"-/4349"	"-/2718"	"-/905"	""	""	""	"1"	NA	1	"CTNNA2"	"HGNC"	2510	"protein_coding"	"YES"	"CCDS42703.2"	"ENSP00000418191"	"P26232"	"F6KRI5,C9J144,C9IZ88"	"UPI00001A3E86"	""	""	""	""	"16/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"76369cda-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242105263157895	"WGS"	FALSE
"16585"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	81261380	81261380	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	122	"92"	30	86	"86"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7636a82e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245901639344262	"WGS"	FALSE
"16586"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	82097939	82097939	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"86"	6	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7636bdf0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"16587"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	82106346	82106346	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"100"	7	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"7636be40-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0654205607476635	"WGS"	FALSE
"16588"	"AC079896.1"	0	"mskcc.org"	"GRCh37"	"2"	82206410	82206410	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000455845"	""	117	"111"	6	62	"62"	0	"AC079896.1,downstream_gene_variant,,ENST00000455845,;"	"A"	"ENSG00000231781"	"ENST00000455845"	"Transcript"	"downstream_gene_variant"	"-/488"	""	""	""	""	""	"1"	"3986"	-1	"AC079896.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"7636bfee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0512820512820513	"WGS"	FALSE
"16589"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	82591933	82591933	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"106"	9	64	"64"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7636ca0c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0782608695652174	"WGS"	FALSE
"16590"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	83658110	83658110	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"104"	7	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"7636e064-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0630630630630631	"WGS"	FALSE
"16591"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	83805246	83805246	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	133	"126"	7	82	"82"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"7636e5fa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0526315789473684	"WGS"	FALSE
"16592"	"AC022210.1"	0	"mskcc.org"	"GRCh37"	"2"	85119036	85119036	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000595179"	""	73	"54"	19	44	"44"	0	"AC022210.1,downstream_gene_variant,,ENST00000595179,;TRABD2A,intron_variant,,ENST00000474298,;"	"A"	"ENSG00000269417"	"ENST00000595179"	"Transcript"	"downstream_gene_variant"	"-/54"	"-/54"	"-/18"	""	""	""	"1"	"3173"	-1	"AC022210.1"	"Clone_based_ensembl_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000472076"	""	""	"UPI00015E09A4"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"76370288-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26027397260274	"WGS"	FALSE
"16593"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	85967551	85967551	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"64"	18	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"76375e22-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219512195121951	"WGS"	FALSE
"16594"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	88626740	88626740	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"61"	19	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"763824ce-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2375	"WGS"	FALSE
"16595"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	88653393	88653393	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"57"	5	42	"42"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"7638253c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0806451612903226	"WGS"	FALSE
"16596"	"AC012671.2"	0	"mskcc.org"	"GRCh37"	"2"	88725448	88725448	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000451912"	""	57	"46"	11	51	"51"	0	"AC012671.2,upstream_gene_variant,,ENST00000451912,;"	"G"	"ENSG00000224291"	"ENST00000451912"	"Transcript"	"upstream_gene_variant"	"-/203"	""	""	""	""	""	"1"	"2149"	1	"AC012671.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"763826f4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192982456140351	"WGS"	FALSE
"16597"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	88806808	88806808	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"rs202182346"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	58	"48"	10	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs202182346"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0032"	"T:0.0076"	"T:0.0043"	NA	"T:0.002"	"T:0.001"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76382802-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172413793103448	"WGS"	FALSE
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"16599"	"IGKV2-30"	0	"mskcc.org"	"GRCh37"	"2"	89548443	89548443	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000468494"	""	67	"56"	11	56	"56"	0	"IGKV2-30,upstream_gene_variant,,ENST00000468494,;IGKV3-31,downstream_gene_variant,,ENST00000523109,;IGKV1-32,downstream_gene_variant,,ENST00000519290,;"	"T"	"ENSG00000243238"	"ENST00000468494"	"Transcript"	"upstream_gene_variant"	"-/390"	"-/360"	"-/120"	""	""	""	"1"	"3364"	-1	"IGKV2-30"	"HGNC"	5785	"IG_V_gene"	"YES"	""	"ENSP00000418138"	""	""	"UPI0000176EB9"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"7638426a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164179104477612	"WGS"	FALSE
"16600"	"CNNM4"	26504	"mskcc.org"	"GRCh37"	"2"	97455816	97455816	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1403-6933T>G"	""	""	"ENST00000377075"	""	30	"25"	5	23	"23"	0	"CNNM4,intron_variant,,ENST00000377075,NM_020184.3;CNNM4,intron_variant,,ENST00000540067,;CNNM4,intron_variant,,ENST00000496186,;CNNM4,intron_variant,,ENST00000493384,;CNNM4,intron_variant,,ENST00000482716,;"	"G"	"ENSG00000158158"	"ENST00000377075"	"Transcript"	"intron_variant"	"-/4800"	"-/2328"	"-/775"	""	""	""	"1"	NA	1	"CNNM4"	"HGNC"	105	"protein_coding"	"YES"	"CCDS2024.2"	"ENSP00000366275"	"Q6P4Q7"	""	"UPI0000207C95"	"NM_020184.3"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"763ae506-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"16601"	"FAM178B"	51252	"mskcc.org"	"GRCh37"	"2"	97664995	97664995	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.272+9739G>A"	""	""	"ENST00000417561"	""	55	"44"	11	42	"42"	0	"FAM178B,intron_variant,,ENST00000417561,;"	"T"	"ENSG00000168754"	"ENST00000417561"	"Transcript"	"intron_variant"	"-/2877"	"-/2484"	"-/827"	""	""	""	"1"	NA	-1	"FAM178B"	"HGNC"	28036	"protein_coding"	""	""	"ENSP00000413245"	"Q8IXR5"	"F8W6I6,B3KV66"	"UPI0001642915"	""	""	""	""	"2/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"763aed6c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16602"	"VWA3B"	200403	"mskcc.org"	"GRCh37"	"2"	98734053	98734053	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.291+1844G>T"	""	""	"ENST00000477737"	""	88	"63"	25	56	"56"	0	"VWA3B,intron_variant,,ENST00000477737,NM_144992.4;VWA3B,intron_variant,,ENST00000435344,;VWA3B,intron_variant,,ENST00000451075,;VWA3B,intron_variant,,ENST00000484571,;VWA3B,intron_variant,,ENST00000448079,;VWA3B,intron_variant,,ENST00000483669,;VWA3B,upstream_gene_variant,,ENST00000463635,;VWA3B,intron_variant,,ENST00000432242,;VWA3B,intron_variant,,ENST00000409460,;VWA3B,intron_variant,,ENST00000416277,;VWA3B,intron_variant,,ENST00000433678,;VWA3B,intron_variant,,ENST00000448638,;VWA3B,intron_variant,,ENST00000422503,;"	"T"	"ENSG00000168658"	"ENST00000477737"	"Transcript"	"intron_variant"	"-/4454"	"-/3885"	"-/1294"	""	""	""	"1"	NA	1	"VWA3B"	"HGNC"	28385	"protein_coding"	"YES"	"CCDS42718.1"	"ENSP00000417955"	"Q502W6"	"Q53RD3"	"UPI0000E9B173"	"NM_144992.4"	""	""	""	"3/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"763b10f8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284090909090909	"WGS"	FALSE
"16603"	"AFF3"	3899	"mskcc.org"	"GRCh37"	"2"	100498051	100498051	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.949-44065T>G"	""	""	"ENST00000356421"	""	125	"99"	26	82	"82"	0	"AFF3,intron_variant,,ENST00000409236,;AFF3,intron_variant,,ENST00000317233,NM_002285.2;AFF3,intron_variant,,ENST00000356421,NM_001025108.1;AFF3,intron_variant,,ENST00000409579,;AFF3,intron_variant,,ENST00000430789,;"	"C"	"ENSG00000144218"	"ENST00000356421"	"Transcript"	"intron_variant"	"-/8118"	"-/3756"	"-/1251"	""	""	""	"1"	NA	-1	"AFF3"	"HGNC"	6473	"protein_coding"	"YES"	"CCDS33258.1"	"ENSP00000348793"	"P51826"	""	"UPI000041098C"	"NM_001025108.1"	""	""	""	"6/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"763b3da8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208	"WGS"	TRUE
"16604"	"NCK2"	8440	"mskcc.org"	"GRCh37"	"2"	106458778	106458778	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-16-12726G>C"	""	""	"ENST00000233154"	""	97	"89"	8	57	"57"	0	"NCK2,intron_variant,,ENST00000233154,NM_003581.4;NCK2,intron_variant,,ENST00000451463,NM_001004722.3;NCK2,intron_variant,,ENST00000393348,;NCK2,intron_variant,,ENST00000522586,;AC009505.2,downstream_gene_variant,,ENST00000596418,;"	"C"	"ENSG00000071051"	"ENST00000233154"	"Transcript"	"intron_variant"	"-/2683"	"-/1143"	"-/380"	""	""	""	"1"	NA	1	"NCK2"	"HGNC"	7665	"protein_coding"	"YES"	"CCDS33266.1"	"ENSP00000233154"	"O43639"	"Q53TG4,Q53T91,E9PEE2,E7EPF5"	"UPI000012FE3F"	"NM_003581.4"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"763be636-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0824742268041237	"WGS"	FALSE
"16605"	"AC096669.2"	0	"mskcc.org"	"GRCh37"	"2"	108143060	108143060	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.295+2177C>T"	""	""	"ENST00000414300"	""	131	"101"	30	70	"70"	0	"AC096669.2,intron_variant,,ENST00000414300,;AC096669.3,upstream_gene_variant,,ENST00000443205,;"	"A"	"ENSG00000237880"	"ENST00000414300"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/609"	""	""	""	""	""	"1"	NA	-1	"AC096669.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"763c19ee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229007633587786	"WGS"	FALSE
"16606"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	108264985	108264985	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"55"	26	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"763c2038-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.320987654320988	"WGS"	FALSE
"16607"	"LIMS1"	3987	"mskcc.org"	"GRCh37"	"2"	109169344	109169344	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.32+18294A>T"	""	""	"ENST00000544547"	""	73	"50"	23	46	"46"	0	"LIMS1,intron_variant,,ENST00000544547,NM_001193483.2;LIMS1,intron_variant,,ENST00000428064,;"	"T"	"ENSG00000169756"	"ENST00000544547"	"Transcript"	"intron_variant"	"-/1767"	"-/1014"	"-/337"	""	""	""	"1"	NA	1	"LIMS1"	"HGNC"	6616	"protein_coding"	""	"CCDS54382.1"	"ENSP00000437912"	"P48059"	"F8WB59,C9JF46"	"UPI0000D4B476"	"NM_001193483.2"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"763c3dca-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.315068493150685	"WGS"	FALSE
"16608"	"SH3RF3"	344558	"mskcc.org"	"GRCh37"	"2"	109870250	109870250	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.574-93880G>T"	""	""	"ENST00000309415"	""	93	"83"	10	63	"63"	0	"SH3RF3,intron_variant,,ENST00000309415,NM_001099289.1;SH3RF3,intron_variant,,ENST00000418513,;SNRPGP9,downstream_gene_variant,,ENST00000456025,;"	"T"	"ENSG00000172985"	"ENST00000309415"	"Transcript"	"intron_variant"	"-/2649"	"-/2649"	"-/882"	""	""	""	"1"	NA	1	"SH3RF3"	"HGNC"	24699	"protein_coding"	"YES"	""	"ENSP00000309186"	"Q8TEJ3"	"C9JNJ4"	"UPI0000DD7AEA"	"NM_001099289.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"763c4f54-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10752688172043	"WGS"	FALSE
"16609"	"SH3RF3"	344558	"mskcc.org"	"GRCh37"	"2"	110027053	110027053	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1300-8942G>A"	""	""	"ENST00000309415"	""	86	"67"	19	83	"83"	0	"SH3RF3,intron_variant,,ENST00000309415,NM_001099289.1;SH3RF3,intron_variant,,ENST00000418513,;"	"A"	"ENSG00000172985"	"ENST00000309415"	"Transcript"	"intron_variant"	"-/2649"	"-/2649"	"-/882"	""	""	""	"1"	NA	1	"SH3RF3"	"HGNC"	24699	"protein_coding"	"YES"	""	"ENSP00000309186"	"Q8TEJ3"	"C9JNJ4"	"UPI0000DD7AEA"	"NM_001099289.1"	""	""	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"763c54d6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22093023255814	"WGS"	FALSE
"16610"	"SH3RF3"	344558	"mskcc.org"	"GRCh37"	"2"	110047396	110047396	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1404-1561C>T"	""	""	"ENST00000309415"	""	94	"88"	6	77	"77"	0	"SH3RF3,intron_variant,,ENST00000309415,NM_001099289.1;SH3RF3,intron_variant,,ENST00000418513,;"	"T"	"ENSG00000172985"	"ENST00000309415"	"Transcript"	"intron_variant"	"-/2649"	"-/2649"	"-/882"	""	""	""	"1"	NA	1	"SH3RF3"	"HGNC"	24699	"protein_coding"	"YES"	""	"ENSP00000309186"	"Q8TEJ3"	"C9JNJ4"	"UPI0000DD7AEA"	"NM_001099289.1"	""	""	""	"5/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"763c558a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0638297872340425	"WGS"	FALSE
"16611"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	111441879	111441879	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"100"	17	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"763c761e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.145299145299145	"WGS"	FALSE
"16612"	"IL36G"	56300	"mskcc.org"	"GRCh37"	"2"	113735383	113735383	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000259205"	""	107	"82"	25	51	"50"	1	"IL36G,intron_variant,,ENST00000447128,;IL36G,upstream_gene_variant,,ENST00000259205,NM_019618.3;IL36G,upstream_gene_variant,,ENST00000376489,NM_001278568.1;HMGN2P23,downstream_gene_variant,,ENST00000456759,;"	"A"	"ENSG00000136688"	"ENST00000259205"	"Transcript"	"upstream_gene_variant"	"-/1195"	"-/510"	"-/169"	""	""	""	"1"	"223"	1	"IL36G"	"HGNC"	15741	"protein_coding"	"YES"	"CCDS2108.1"	"ENSP00000259205"	"Q9NZH8"	"C9J681"	"UPI0000038BF0"	"NM_019618.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"763ceacc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233644859813084	"WGS"	FALSE
"16613"	"IL1F10"	84639	"mskcc.org"	"GRCh37"	"2"	113830414	113830414	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.32+67C>T"	""	""	"ENST00000393197"	""	109	"88"	21	73	"73"	0	"IL1F10,intron_variant,,ENST00000393197,NM_032556.5;IL1F10,intron_variant,,ENST00000337569,;IL1F10,intron_variant,,ENST00000341010,NM_173161.2;IL1F10,upstream_gene_variant,,ENST00000496265,;"	"T"	"ENSG00000136697"	"ENST00000393197"	"Transcript"	"intron_variant"	"-/1366"	"-/459"	"-/152"	""	""	""	"1"	NA	1	"IL1F10"	"HGNC"	15552	"protein_coding"	"YES"	"CCDS2112.1"	"ENSP00000376893"	"Q8WWZ1"	""	"UPI000003C9C3"	"NM_032556.5"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"763cec34-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192660550458716	"WGS"	FALSE
"16614"	"RABL2A"	11159	"mskcc.org"	"GRCh37"	"2"	114383130	114383130	"+"	"5'Flank"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000393167"	""	81	"56"	25	59	"59"	0	"RABL2A,upstream_gene_variant,,ENST00000409875,;RABL2A,upstream_gene_variant,,ENST00000393167,NM_013412.2;RABL2A,upstream_gene_variant,,ENST00000409842,;RABL2A,upstream_gene_variant,,ENST00000393165,NM_007082.3;RABL2A,upstream_gene_variant,,ENST00000393166,;RABL2A,upstream_gene_variant,,ENST00000376439,;RABL2A,upstream_gene_variant,,ENST00000413545,;RPL23AP7,intron_variant,,ENST00000416673,;RPL23AP7,intron_variant,,ENST00000391616,;RABL2A,upstream_gene_variant,,ENST00000465711,;RABL2A,upstream_gene_variant,,ENST00000409121,;RABL2A,upstream_gene_variant,,ENST00000450954,;RABL2A,upstream_gene_variant,,ENST00000452831,;RABL2A,upstream_gene_variant,,ENST00000476236,;RABL2A,upstream_gene_variant,,ENST00000467600,;RABL2A,upstream_gene_variant,,ENST00000493876,;"	"G"	"ENSG00000144134"	"ENST00000393167"	"Transcript"	"upstream_gene_variant"	"-/2179"	"-/687"	"-/228"	""	""	""	"1"	"1676"	1	"RABL2A"	"HGNC"	9799	"protein_coding"	"YES"	"CCDS2118.1"	"ENSP00000376872"	"Q9UBK7"	"C9JFZ0,B7ZBD4"	"UPI00001331E4"	"NM_013412.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"763d6f10-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.308641975308642	"WGS"	FALSE
"16615"	"DPP10"	57628	"mskcc.org"	"GRCh37"	"2"	115678727	115678727	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.61-388088T>A"	""	""	"ENST00000410059"	""	102	"76"	26	51	"50"	1	"DPP10,intron_variant,,ENST00000410059,NM_001178037.1,NM_020868.3;DPP10,intron_variant,,ENST00000409163,NM_001178036.1;DPP10,intron_variant,,ENST00000436732,;DPP10,intron_variant,,ENST00000461250,;"	"A"	"ENSG00000175497"	"ENST00000410059"	"Transcript"	"intron_variant"	"-/6278"	"-/2391"	"-/796"	""	""	""	"1"	NA	1	"DPP10"	"HGNC"	20823	"protein_coding"	""	"CCDS46400.1"	"ENSP00000386565"	"Q8N608"	"Q53TB1,J3KQK8,C9J4M8"	"UPI00001AEF55"	"NM_001178037.1,NM_020868.3"	""	""	""	"1/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"763d9a1c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254901960784314	"WGS"	FALSE
"16616"	"DPP10"	57628	"mskcc.org"	"GRCh37"	"2"	115745660	115745660	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.61-321155C>T"	""	""	"ENST00000410059"	""	86	"74"	12	67	"67"	0	"DPP10,intron_variant,,ENST00000410059,NM_001178037.1,NM_020868.3;DPP10,intron_variant,,ENST00000409163,NM_001178036.1;DPP10,intron_variant,,ENST00000436732,;DPP10,intron_variant,,ENST00000461250,;"	"T"	"ENSG00000175497"	"ENST00000410059"	"Transcript"	"intron_variant"	"-/6278"	"-/2391"	"-/796"	""	""	""	"1"	NA	1	"DPP10"	"HGNC"	20823	"protein_coding"	""	"CCDS46400.1"	"ENSP00000386565"	"Q8N608"	"Q53TB1,J3KQK8,C9J4M8"	"UPI00001AEF55"	"NM_001178037.1,NM_020868.3"	""	""	""	"1/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"763d9be8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"16617"	"DPP10"	57628	"mskcc.org"	"GRCh37"	"2"	115846594	115846594	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.61-220221T>C"	""	""	"ENST00000410059"	""	88	"67"	21	63	"63"	0	"DPP10,intron_variant,,ENST00000410059,NM_001178037.1,NM_020868.3;DPP10,intron_variant,,ENST00000409163,NM_001178036.1;DPP10,intron_variant,,ENST00000436732,;DPP10,intron_variant,,ENST00000393146,;DPP10,intron_variant,,ENST00000461250,;"	"C"	"ENSG00000175497"	"ENST00000410059"	"Transcript"	"intron_variant"	"-/6278"	"-/2391"	"-/796"	""	""	""	"1"	NA	1	"DPP10"	"HGNC"	20823	"protein_coding"	""	"CCDS46400.1"	"ENSP00000386565"	"Q8N608"	"Q53TB1,J3KQK8,C9J4M8"	"UPI00001AEF55"	"NM_001178037.1,NM_020868.3"	""	""	""	"1/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"763da21e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238636363636364	"WGS"	FALSE
"16618"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	117092020	117092020	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"89"	19	59	"59"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"763dcc3a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175925925925926	"WGS"	FALSE
"16619"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	117630689	117630689	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"73"	21	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"763dd6bc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223404255319149	"WGS"	FALSE
"16620"	"PCDP1"	200373	"mskcc.org"	"GRCh37"	"2"	120311481	120311481	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.240+4720G>T"	""	""	"ENST00000413369"	""	82	"65"	17	59	"59"	0	"PCDP1,intron_variant,,ENST00000602047,;PCDP1,intron_variant,,ENST00000413369,NM_001271049.1;PCDP1,intron_variant,,ENST00000598644,;PCDP1,intron_variant,,ENST00000594371,;PCDP1,intron_variant,,ENST00000442513,;PCDP1,intron_variant,,ENST00000295220,;PCDP1,intron_variant,,ENST00000413057,;PCDP1,intron_variant,,ENST00000594033,;PCDP1,intron_variant,,ENST00000463985,;"	"T"	"ENSG00000163075"	"ENST00000413369"	"Transcript"	"intron_variant"	"-/2801"	"-/2523"	"-/840"	""	""	""	"1"	NA	1	"PCDP1"	"Uniprot_gn"	NA	"protein_coding"	"YES"	"CCDS33282.2"	"ENSP00000393222"	"Q4G0U5"	""	"UPI0001D322F9"	"NM_001271049.1"	""	""	""	"3/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"763e31b6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207317073170732	"WGS"	FALSE
"16621"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	121340915	121340915	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"75"	22	69	"69"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"763e5268-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22680412371134	"WGS"	FALSE
"16622"	"TFCP2L1"	29842	"mskcc.org"	"GRCh37"	"2"	122037887	122037887	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.214+809C>T"	""	""	"ENST00000263707"	""	70	"54"	16	53	"53"	0	"TFCP2L1,intron_variant,,ENST00000263707,NM_014553.2;"	"A"	"ENSG00000115112"	"ENST00000263707"	"Transcript"	"intron_variant"	"-/9292"	"-/1440"	"-/479"	""	""	""	"1"	NA	-1	"TFCP2L1"	"HGNC"	17925	"protein_coding"	"YES"	"CCDS2134.1"	"ENSP00000263707"	"Q9NZI6"	"Q5JV87,Q53RS7"	"UPI0000072817"	"NM_014553.2"	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"763e6906-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228571428571429	"WGS"	FALSE
"16623"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	124350919	124350919	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	148	"120"	28	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"763ea376-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189189189189189	"WGS"	FALSE
"16624"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	124544426	124544426	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"93"	23	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"763eac36-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.198275862068966	"WGS"	FALSE
"16625"	"CNTNAP5"	129684	"mskcc.org"	"GRCh37"	"2"	124782907	124782907	"+"	"5'UTR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-321C>A"	""	""	"ENST00000431078"	"1/24"	98	"91"	7	62	"62"	0	"CNTNAP5,5_prime_UTR_variant,,ENST00000431078,NM_130773.3;AC079154.1,upstream_gene_variant,,ENST00000438816,;CNTNAP5,non_coding_transcript_exon_variant,,ENST00000423939,;"	"A"	"ENSG00000155052"	"ENST00000431078"	"Transcript"	"5_prime_UTR_variant"	"44/5284"	"-/3921"	"-/1306"	""	""	""	"1"	NA	1	"CNTNAP5"	"HGNC"	18748	"protein_coding"	"YES"	"CCDS46401.1"	"ENSP00000399013"	"Q8WYK1"	""	"UPI0000071988"	"NM_130773.3"	""	""	"1/24"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"763eb3f2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"16626"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	127525020	127525020	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"60"	27	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"763f0d52-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"16627"	"AC110926.4"	0	"mskcc.org"	"GRCh37"	"2"	128004667	128004667	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000412499"	""	68	"49"	19	49	"49"	0	"AC110926.4,upstream_gene_variant,,ENST00000412499,;"	"T"	"ENSG00000226789"	"ENST00000412499"	"Transcript"	"upstream_gene_variant"	"-/2825"	""	""	""	""	""	"1"	"167"	1	"AC110926.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"763f2120-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279411764705882	"WGS"	FALSE
"16628"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	131494791	131494791	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"56"	13	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"763fc0da-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188405797101449	"WGS"	FALSE
"16629"	"PLEKHB2"	55041	"mskcc.org"	"GRCh37"	"2"	132034121	132034121	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.424-76472T>C"	""	""	"ENST00000404460"	""	51	"45"	6	41	"41"	0	"PLEKHB2,intron_variant,,ENST00000404460,;PLEKHB2,intron_variant,,ENST00000303908,;"	"C"	"ENSG00000115762"	"ENST00000404460"	"Transcript"	"intron_variant"	"-/1167"	"-/930"	"-/309"	""	""	""	"1"	NA	1	"PLEKHB2"	"HGNC"	19236	"protein_coding"	""	""	"ENSP00000385609"	""	"B7WPA5"	"UPI00001AED93"	""	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"763fdf16-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"16630"	"CCDC74A"	90557	"mskcc.org"	"GRCh37"	"2"	132293475	132293475	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000295171"	""	78	"69"	9	60	"60"	0	"CCDC74A,downstream_gene_variant,,ENST00000467992,;CCDC74A,downstream_gene_variant,,ENST00000295171,NM_138770.2,NM_001258305.1,NM_001258304.1;CCDC74A,downstream_gene_variant,,ENST00000409856,NM_001258306.1;CCDC74A,downstream_gene_variant,,ENST00000434330,;MED15P4,intron_variant,,ENST00000417579,;"	"A"	"ENSG00000163040"	"ENST00000295171"	"Transcript"	"downstream_gene_variant"	"-/1543"	"-/1137"	"-/378"	""	""	""	"1"	"2236"	1	"CCDC74A"	"HGNC"	25197	"protein_coding"	"YES"	"CCDS2167.1"	"ENSP00000295171"	"Q96AQ1"	""	"UPI000006E43A"	"NM_138770.2,NM_001258305.1,NM_001258304.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"763ff76c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"16631"	"NCKAP5"	344148	"mskcc.org"	"GRCh37"	"2"	134264444	134264444	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.69+10585T>A"	""	""	"ENST00000409261"	""	103	"85"	18	62	"62"	0	"NCKAP5,intron_variant,,ENST00000409261,NM_207363.2;NCKAP5,intron_variant,,ENST00000317721,;NCKAP5,intron_variant,,ENST00000409213,NM_207481.3;NCKAP5,intron_variant,,ENST00000427594,;NCKAP5,intron_variant,,ENST00000405974,;NCKAP5,intron_variant,,ENST00000358991,;"	"T"	"ENSG00000176771"	"ENST00000409261"	"Transcript"	"intron_variant"	"-/7592"	"-/5730"	"-/1909"	""	""	""	"1"	NA	-1	"NCKAP5"	"HGNC"	29847	"protein_coding"	"YES"	"CCDS46418.1"	"ENSP00000387128"	"O14513"	"C9JYL7"	"UPI0000E07A3F"	"NM_207363.2"	""	""	""	"3/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"76407016-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174757281553398	"WGS"	FALSE
"16632"	"TMEM163"	81615	"mskcc.org"	"GRCh37"	"2"	135299104	135299104	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.458+9037A>G"	""	""	"ENST00000281924"	""	97	"76"	21	70	"70"	0	"TMEM163,intron_variant,,ENST00000281924,NM_030923.4;"	"C"	"ENSG00000152128"	"ENST00000281924"	"Transcript"	"intron_variant"	"-/1892"	"-/870"	"-/289"	""	""	""	"1"	NA	-1	"TMEM163"	"HGNC"	25380	"protein_coding"	"YES"	"CCDS2172.1"	"ENSP00000281924"	"Q8TC26"	""	"UPI000007217C"	"NM_030923.4"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"76409230-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216494845360825	"WGS"	FALSE
"16633"	"R3HDM1"	23518	"mskcc.org"	"GRCh37"	"2"	136430760	136430760	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2048-2142G>A"	""	""	"ENST00000264160"	""	67	"46"	21	53	"53"	0	"R3HDM1,intron_variant,,ENST00000264160,NM_015361.2;R3HDM1,intron_variant,,ENST00000410054,NM_001282800.1;R3HDM1,intron_variant,,ENST00000409478,NM_001282799.1;R3HDM1,intron_variant,,ENST00000329971,;R3HDM1,intron_variant,,ENST00000409606,NM_001282798.1;R3HDM1,intron_variant,,ENST00000429703,;R3HDM1,upstream_gene_variant,,ENST00000445855,;"	"A"	"ENSG00000048991"	"ENST00000264160"	"Transcript"	"intron_variant"	"-/4648"	"-/3300"	"-/1099"	""	""	""	"1"	NA	1	"R3HDM1"	"HGNC"	9757	"protein_coding"	"YES"	"CCDS2177.1"	"ENSP00000264160"	"Q15032"	"Q53SQ1,Q4ZG59"	"UPI000007456C"	"NM_015361.2"	""	""	""	"18/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7640c1f6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313432835820896	"WGS"	FALSE
"16634"	"LCT"	3938	"mskcc.org"	"GRCh37"	"2"	136577190	136577190	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.987-1559G>T"	""	""	"ENST00000264162"	""	59	"46"	13	44	"44"	0	"LCT,intron_variant,,ENST00000264162,NM_002299.2;AC011893.3,upstream_gene_variant,,ENST00000437007,;"	"A"	"ENSG00000115850"	"ENST00000264162"	"Transcript"	"intron_variant"	"-/6279"	"-/5784"	"-/1927"	""	""	""	"1"	NA	-1	"LCT"	"HGNC"	6530	"protein_coding"	"YES"	"CCDS2178.1"	"ENSP00000264162"	"P09848"	""	"UPI000013D4D2"	"NM_002299.2"	""	""	""	"5/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"7640c35e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220338983050847	"WGS"	FALSE
"16635"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	140337181	140337181	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"106"	8	65	"65"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"76412466-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0701754385964912	"WGS"	FALSE
"16636"	"LRP1B"	53353	"mskcc.org"	"GRCh37"	"2"	141823362	141823362	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1014-3520T>G"	""	""	"ENST00000389484"	""	111	"98"	13	66	"66"	0	"LRP1B,intron_variant,,ENST00000389484,NM_018557.2;LRP1B,intron_variant,,ENST00000434794,;"	"C"	"ENSG00000168702"	"ENST00000389484"	"Transcript"	"intron_variant"	"-/16535"	"-/13800"	"-/4599"	""	""	""	"1"	NA	-1	"LRP1B"	"HGNC"	6693	"protein_coding"	"YES"	"CCDS2182.1"	"ENSP00000374135"	"Q9NZR2"	"Q8WY27,Q8WY26,Q580W7,Q53TB8,Q53S76,Q53S73,Q53S26,Q53RL0,Q53RG4,Q53RA0,Q53QP5,Q53QM8,Q4ZG53,Q4ZFV5"	"UPI00001B045B"	"NM_018557.2"	""	""	""	"7/90"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"76414e50-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117117117117117	"WGS"	FALSE
"16637"	"ENSR00001709522"	0	"mskcc.org"	"GRCh37"	"2"	145401621	145401621	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001709522"	""	128	"95"	33	59	"59"	0	""	"C"	""	"ENSR00001709522"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7641ac88-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2578125	"WGS"	FALSE
"16638"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	148071695	148071695	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	135	"128"	7	98	"98"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7641f062-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0518518518518519	"WGS"	FALSE
"16639"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	148488390	148488390	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	60	"52"	8	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7641f8c8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"16640"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	151541860	151541860	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"88"	20	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76424af8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WGS"	FALSE
"16641"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	153652790	153652790	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"91"	26	64	"63"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"76428018-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"16642"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	156508349	156508349	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	131	"125"	6	79	"79"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7642d428-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0458015267175573	"WGS"	FALSE
"16643"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	158227187	158227187	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"65"	10	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"764300b0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"16644"	"SLC4A10"	57282	"mskcc.org"	"GRCh37"	"2"	162470017	162470017	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.345-7408A>T"	""	""	"ENST00000605990"	""	143	"101"	42	62	"62"	0	"SLC4A10,intron_variant,,ENST00000605990,;SLC4A10,intron_variant,,ENST00000482861,;SLC4A10,intron_variant,,ENST00000606386,;"	"T"	"ENSG00000144290"	"ENST00000605990"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/897"	""	""	""	""	""	"1"	NA	1	"SLC4A10"	"HGNC"	13811	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"76437216-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293706293706294	"WGS"	FALSE
"16645"	"SLC4A10"	57282	"mskcc.org"	"GRCh37"	"2"	162611304	162611304	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.49-16179T>A"	""	""	"ENST00000446997"	""	110	"89"	21	60	"60"	0	"SLC4A10,intron_variant,,ENST00000375514,NM_001178016.1;SLC4A10,intron_variant,,ENST00000415876,NM_022058.3;SLC4A10,intron_variant,,ENST00000446997,NM_001178015.1;SLC4A10,intron_variant,,ENST00000272716,;SLC4A10,intron_variant,,ENST00000421911,;SLC4A10,intron_variant,,ENST00000535165,;SLC4A10,intron_variant,,ENST00000493021,;SLC4A10,intron_variant,,ENST00000461456,;SLC4A10,intron_variant,,ENST00000481721,;SLC4A10,intron_variant,,ENST00000482861,;SLC4A10,intron_variant,,ENST00000446228,;"	"A"	"ENSG00000144290"	"ENST00000446997"	"Transcript"	"intron_variant"	"-/5551"	"-/3357"	"-/1118"	""	""	""	"1"	NA	1	"SLC4A10"	"HGNC"	13811	"protein_coding"	"YES"	"CCDS54411.1"	"ENSP00000393066"	"Q6U841"	""	"UPI00001D4707"	"NM_001178015.1"	""	""	""	"1/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"76437324-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.190909090909091	"WGS"	FALSE
"16646"	"FIGN"	55137	"mskcc.org"	"GRCh37"	"2"	164562866	164562866	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.25+28547T>G"	""	""	"ENST00000333129"	""	120	"105"	15	71	"71"	0	"FIGN,intron_variant,,ENST00000333129,NM_018086.2;FIGN,intron_variant,,ENST00000409634,;FIGN,intron_variant,,ENST00000482917,;"	"C"	"ENSG00000182263"	"ENST00000333129"	"Transcript"	"intron_variant"	"-/9536"	"-/2280"	"-/759"	""	""	""	"1"	NA	-1	"FIGN"	"HGNC"	13285	"protein_coding"	"YES"	"CCDS2221.2"	"ENSP00000333836"	"Q5HY92"	""	"UPI000022BD13"	"NM_018086.2"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"76439e26-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"16647"	"AC092684.1"	0	"mskcc.org"	"GRCh37"	"2"	164945718	164945718	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.197-138949C>T"	""	""	"ENST00000429636"	""	120	"97"	23	77	"77"	0	"AC092684.1,intron_variant,,ENST00000429636,;"	"A"	"ENSG00000237844"	"ENST00000429636"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/714"	""	""	""	""	""	"1"	NA	-1	"AC092684.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7643ac54-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191666666666667	"WGS"	FALSE
"16648"	"XIRP2"	129446	"mskcc.org"	"GRCh37"	"2"	168089777	168089777	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.859-6588G>A"	""	""	"ENST00000409195"	""	140	"113"	27	74	"74"	0	"XIRP2,intron_variant,,ENST00000409195,NM_152381.5;XIRP2,intron_variant,,ENST00000295237,;XIRP2,intron_variant,,ENST00000409273,NM_001199144.1;XIRP2,intron_variant,,ENST00000409728,NM_001199143.1;XIRP2,intron_variant,,ENST00000409043,NM_001079810.3;XIRP2,intron_variant,,ENST00000409756,;XIRP2,intron_variant,,ENST00000420519,;XIRP2,intron_variant,,ENST00000409605,NM_001199145.1;"	"A"	"ENSG00000163092"	"ENST00000409195"	"Transcript"	"intron_variant"	"-/12675"	"-/10650"	"-/3549"	""	""	""	"1"	NA	1	"XIRP2"	"HGNC"	14303	"protein_coding"	"YES"	"CCDS42769.1"	"ENSP00000386840"	""	"J3KNB1"	"UPI0000E9BBED"	"NM_152381.5"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"764408ca-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192857142857143	"WGS"	FALSE
"16649"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	168608322	168608322	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"84"	29	73	"73"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"76441a9a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256637168141593	"WGS"	FALSE
"16650"	"ABCB11"	8647	"mskcc.org"	"GRCh37"	"2"	169777928	169777928	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000263817"	""	97	"89"	8	83	"83"	0	"ABCB11,downstream_gene_variant,,ENST00000263817,NM_003742.2;ABCB11,downstream_gene_variant,,ENST00000439188,;"	"G"	"ENSG00000073734"	"ENST00000263817"	"Transcript"	"downstream_gene_variant"	"-/4775"	"-/3966"	"-/1321"	""	""	""	"1"	"1520"	-1	"ABCB11"	"HGNC"	42	"protein_coding"	"YES"	"CCDS46444.1"	"ENSP00000263817"	"O95342"	"Q9UIL3,Q53S60,B4DYQ0"	"UPI0000163BFA"	"NM_003742.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"764439ee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0824742268041237	"WGS"	FALSE
"16651"	"HAT1"	8520	"mskcc.org"	"GRCh37"	"2"	172842476	172842476	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.975+1229A>T"	""	""	"ENST00000264108"	""	21	"17"	4	19	"19"	0	"HAT1,intron_variant,,ENST00000264108,NM_003642.3;HAT1,intron_variant,,ENST00000392584,;SLC25A12,intron_variant,,ENST00000472748,;SLC25A12,intron_variant,,ENST00000484227,;SLC25A12,intron_variant,,ENST00000464063,;HAT1,intron_variant,,ENST00000494601,;HAT1,intron_variant,,ENST00000477327,;HAT1,intron_variant,,ENST00000457761,;HAT1,intron_variant,,ENST00000412731,;"	"T"	"ENSG00000128708"	"ENST00000264108"	"Transcript"	"intron_variant"	"-/1626"	"-/1260"	"-/419"	""	""	""	"1"	NA	1	"HAT1"	"HGNC"	4821	"protein_coding"	"YES"	"CCDS2245.1"	"ENSP00000264108"	"O14929"	""	"UPI000012C0B2"	"NM_003642.3"	""	""	""	"9/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76449812-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"16652"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	174179773	174179773	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"74"	7	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"7644cb2a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0864197530864197	"WGS"	FALSE
"16653"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	174281816	174281816	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"58"	13	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"7644cf6c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.183098591549296	"WGS"	FALSE
"16654"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	174312670	174312670	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"65"	19	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7644d020-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226190476190476	"WGS"	FALSE
"16655"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	174329494	174329494	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"72"	20	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7644d138-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"16656"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	177561381	177561381	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	122	"113"	9	66	"66"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7645235e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0737704918032787	"WGS"	FALSE
"16657"	"TTN"	7273	"mskcc.org"	"GRCh37"	"2"	179596377	179596377	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.17182+43C>G"	""	""	"ENST00000589042"	""	122	"94"	28	66	"66"	0	"TTN,intron_variant,,ENST00000589042,NM_001267550.1;TTN,intron_variant,,ENST00000591111,;TTN,intron_variant,,ENST00000342992,NM_133378.4,NM_001256850.1;TTN,intron_variant,,ENST00000342175,NM_133437.3;TTN,intron_variant,,ENST00000359218,NM_133432.3;TTN,intron_variant,,ENST00000460472,NM_003319.4;TTN-AS1,intron_variant,,ENST00000585451,;RP11-171I2.1,downstream_gene_variant,,ENST00000590024,;TTN-AS1,upstream_gene_variant,,ENST00000582847,;"	"C"	"ENSG00000155657"	"ENST00000589042"	"Transcript"	"intron_variant"	"-/109224"	"-/107976"	"-/35991"	""	""	""	"1"	NA	-1	"TTN"	"HGNC"	12403	"protein_coding"	"YES"	"CCDS59435.1"	"ENSP00000467141"	"Q8WZ42"	"C9JQJ2,A2TKE6"	"UPI000264F4A1"	"NM_001267550.1"	""	""	""	"58/362"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"76455a0e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229508196721311	"WGS"	FALSE
"16658"	"AC009478.1"	0	"mskcc.org"	"GRCh37"	"2"	181459341	181459341	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.442+6120C>T"	""	""	"ENST00000429816"	""	95	"86"	9	72	"72"	0	"AC009478.1,intron_variant,,ENST00000429816,;"	"A"	"ENSG00000225258"	"ENST00000429816"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/562"	""	""	""	""	""	"1"	NA	-1	"AC009478.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"76458e02-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0947368421052632	"WGS"	FALSE
"16659"	"AC009478.1"	0	"mskcc.org"	"GRCh37"	"2"	181474076	181474076	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.226-6878C>A"	""	""	"ENST00000429816"	""	134	"106"	28	76	"76"	0	"AC009478.1,intron_variant,,ENST00000429816,;"	"T"	"ENSG00000225258"	"ENST00000429816"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/562"	""	""	""	""	""	"1"	NA	-1	"AC009478.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"76458e66-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208955223880597	"WGS"	FALSE
"16660"	"AC104820.2"	101927156	"mskcc.org"	"GRCh37"	"2"	182179492	182179492	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.359-47922A>G"	""	""	"ENST00000435411"	""	126	"108"	18	53	"53"	0	"AC104820.2,intron_variant,,ENST00000435411,;AC104820.2,intron_variant,,ENST00000424170,;AC104820.2,intron_variant,,ENST00000428474,;AC104820.2,intron_variant,,ENST00000424655,;"	"G"	"ENSG00000234663"	"ENST00000435411"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1771"	""	""	""	""	""	"1"	NA	1	"AC104820.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"7645a59a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"16661"	"AC064871.3"	0	"mskcc.org"	"GRCh37"	"2"	183975288	183975288	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000444562"	""	60	"50"	10	39	"39"	0	"AC064871.3,upstream_gene_variant,,ENST00000444562,;AC064871.3,upstream_gene_variant,,ENST00000413954,;"	"A"	"ENSG00000224643"	"ENST00000444562"	"Transcript"	"upstream_gene_variant"	"-/427"	""	""	""	""	""	"1"	"2041"	-1	"AC064871.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7645d312-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"16662"	"ZNF804A"	91752	"mskcc.org"	"GRCh37"	"2"	185643390	185643390	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.112-87706C>T"	""	""	"ENST00000302277"	""	146	"113"	33	75	"75"	0	"ZNF804A,intron_variant,,ENST00000302277,NM_194250.1;"	"T"	"ENSG00000170396"	"ENST00000302277"	"Transcript"	"intron_variant"	"-/4690"	"-/3630"	"-/1209"	""	""	""	"1"	NA	1	"ZNF804A"	"HGNC"	21711	"protein_coding"	"YES"	"CCDS2291.1"	"ENSP00000303252"	"Q7Z570"	""	"UPI00001B4B18"	"NM_194250.1"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7645fe5a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226027397260274	"WGS"	FALSE
"16663"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	194809696	194809696	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	129	"107"	22	83	"83"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76470516-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170542635658915	"WGS"	FALSE
"16664"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	195188826	195188826	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	123	"118"	5	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7647102e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.040650406504065	"WGS"	FALSE
"16665"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	195793184	195793184	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	126	"101"	25	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"76472064-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.198412698412698	"WGS"	FALSE
"16666"	"MOB4"	25843	"mskcc.org"	"GRCh37"	"2"	198396833	198396833	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.124-3421A>C"	""	""	"ENST00000323303"	""	58	"52"	6	40	"40"	0	"MOB4,intron_variant,,ENST00000323303,NM_015387.4;MOB4,intron_variant,,ENST00000233892,NM_199482.3;MOB4,intron_variant,,ENST00000409360,NM_001204094.1;MOB4,intron_variant,,ENST00000448447,NM_001100819.2;HSPE1-MOB4,intron_variant,,ENST00000604458,NM_001202485.1;MOB4,intron_variant,,ENST00000409916,;MOB4,intron_variant,,ENST00000497443,;MOB4,intron_variant,,ENST00000417097,;MOB4,intron_variant,,ENST00000409355,;AC020550.7,upstream_gene_variant,,ENST00000447385,;"	"C"	"ENSG00000115540"	"ENST00000323303"	"Transcript"	"intron_variant"	"-/3986"	"-/678"	"-/225"	""	""	""	"1"	NA	1	"MOB4"	"HGNC"	17261	"protein_coding"	"YES"	"CCDS2321.1"	"ENSP00000315702"	"Q9Y3A3"	"B4DM50"	"UPI000002276F"	"NM_015387.4"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"764764a2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"16667"	"BOLL"	66037	"mskcc.org"	"GRCh37"	"2"	198609762	198609762	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.766-1879C>T"	""	""	"ENST00000321801"	""	89	"80"	9	57	"57"	0	"BOLL,intron_variant,,ENST00000321801,NM_197970.2;BOLL,intron_variant,,ENST00000430004,NM_001284361.1;BOLL,intron_variant,,ENST00000392296,NM_033030.5;BOLL,intron_variant,,ENST00000282278,NM_001284358.1;BOLL,intron_variant,,ENST00000433157,;AC011997.1,intron_variant,,ENST00000409845,;BOLL,intron_variant,,ENST00000468827,;BOLL,intron_variant,,ENST00000434976,;"	"A"	"ENSG00000152430"	"ENST00000321801"	"Transcript"	"intron_variant"	"-/3135"	"-/888"	"-/295"	""	""	""	"1"	NA	-1	"BOLL"	"HGNC"	14273	"protein_coding"	"YES"	"CCDS2324.1"	"ENSP00000314792"	"Q8N9W6"	""	"UPI00001D69F3"	"NM_197970.2"	""	""	""	"9/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"76476be6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101123595505618	"WGS"	FALSE
"16668"	"PLCL1"	5334	"mskcc.org"	"GRCh37"	"2"	198666638	198666638	"+"	"5'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000428675"	""	126	"97"	29	74	"74"	0	"PLCL1,upstream_gene_variant,,ENST00000428675,NM_006226.3;PLCL1,upstream_gene_variant,,ENST00000435320,;"	"A"	"ENSG00000115896"	"ENST00000428675"	"Transcript"	"upstream_gene_variant"	"-/5125"	"-/3288"	"-/1095"	""	""	""	"1"	"2788"	1	"PLCL1"	"HGNC"	9063	"protein_coding"	"YES"	"CCDS2326.2"	"ENSP00000402861"	"Q15111"	""	"UPI000165BCF5"	"NM_006226.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"76476c9a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23015873015873	"WGS"	FALSE
"16669"	"NBEAL1"	65065	"mskcc.org"	"GRCh37"	"2"	204017664	204017664	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5500+1352A>G"	""	""	"ENST00000449802"	""	75	"69"	6	36	"36"	0	"NBEAL1,intron_variant,,ENST00000449802,NM_001114132.1;"	"G"	"ENSG00000144426"	"ENST00000449802"	"Transcript"	"intron_variant"	"-/10938"	"-/8085"	"-/2694"	""	""	""	"1"	NA	1	"NBEAL1"	"HGNC"	20681	"protein_coding"	"YES"	"CCDS46495.1"	"ENSP00000399903"	"Q6ZS30"	""	"UPI000194EC27"	"NM_001114132.1"	""	""	""	"34/54"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"7647eea4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"16670"	"CD28"	940	"mskcc.org"	"GRCh37"	"2"	204608038	204608038	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000324106"	""	78	"74"	4	70	"70"	0	"CD28,downstream_gene_variant,,ENST00000324106,NM_006139.3,NM_001243077.1;"	"A"	"ENSG00000178562"	"ENST00000324106"	"Transcript"	"downstream_gene_variant"	"-/4812"	"-/663"	"-/220"	""	""	""	"1"	"4403"	1	"CD28"	"HGNC"	1653	"protein_coding"	"YES"	"CCDS2361.1"	"ENSP00000324890"	"P10747"	""	"UPI0000043F4D"	"NM_006139.3,NM_001243077.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"76480204-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0512820512820513	"WGS"	FALSE
"16671"	"CTLA4"	1493	"mskcc.org"	"GRCh37"	"2"	204737673	204737673	"+"	"3'UTR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*138G>A"	""	""	"ENST00000302823"	"4/4"	126	"101"	25	74	"74"	0	"CTLA4,3_prime_UTR_variant,,ENST00000302823,NM_005214.4;CTLA4,3_prime_UTR_variant,,ENST00000427473,;CTLA4,downstream_gene_variant,,ENST00000295854,NM_001037631.2;CTLA4,downstream_gene_variant,,ENST00000472206,;CTLA4,downstream_gene_variant,,ENST00000487393,;"	"A"	"ENSG00000163599"	"ENST00000302823"	"Transcript"	"3_prime_UTR_variant"	"967/1977"	"-/672"	"-/223"	""	""	""	"1"	NA	1	"CTLA4"	"HGNC"	2505	"protein_coding"	"YES"	"CCDS2362.1"	"ENSP00000303939"	"P16410"	"Q9BZK2,Q8TDA6,Q0Q5F1,E9L3G3,E9L3G1,E9L3G0"	"UPI0000031FDF"	"NM_005214.4"	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGG"	"7648042a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.198412698412698	"WGS"	FALSE
"16672"	"AC007879.5"	101927887	"mskcc.org"	"GRCh37"	"2"	208383740	208383740	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.178-1318A>T"	""	""	"ENST00000418850"	""	93	"84"	9	52	"52"	0	"AC007879.5,intron_variant,,ENST00000418850,;AC007879.5,intron_variant,,ENST00000412387,;"	"A"	"ENSG00000223725"	"ENST00000418850"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/741"	""	""	""	""	""	"1"	NA	-1	"AC007879.5"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"76486e38-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"16673"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	209792477	209792477	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"76"	20	50	"50"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"76488c92-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WGS"	FALSE
"16674"	"UNC80"	285175	"mskcc.org"	"GRCh37"	"2"	210834106	210834106	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs570218474"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7809-386G>A"	""	""	"ENST00000439458"	""	122	"92"	30	63	"63"	0	"UNC80,intron_variant,,ENST00000439458,NM_032504.1;UNC80,intron_variant,,ENST00000272845,NM_182587.3;UNC80,intron_variant,,ENST00000333907,;UNC80,intron_variant,,ENST00000539183,;UNC80,intron_variant,,ENST00000477924,;UNC80,non_coding_transcript_exon_variant,,ENST00000489023,;"	"A"	"ENSG00000144406"	"ENST00000439458"	"Transcript"	"intron_variant"	"-/13562"	"-/9777"	"-/3258"	""	""	"rs570218474"	"1"	NA	1	"UNC80"	"HGNC"	26582	"protein_coding"	"YES"	"CCDS46504.1"	"ENSP00000391088"	"Q8N2C7"	""	"UPI00017E10C9"	"NM_032504.1"	""	""	""	"51/63"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7648a6dc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245901639344262	"WGS"	FALSE
"16675"	"ERBB4"	2066	"mskcc.org"	"GRCh37"	"2"	212792835	212792835	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.421+19320G>A"	""	""	"ENST00000342788"	""	95	"73"	22	62	"62"	0	"ERBB4,intron_variant,,ENST00000342788,NM_005235.2;ERBB4,intron_variant,,ENST00000436443,NM_001042599.1;ERBB4,intron_variant,,ENST00000402597,;ERBB4,intron_variant,,ENST00000260943,;ERBB4,intron_variant,,ENST00000435846,;ERBB4,intron_variant,,ENST00000484474,;ERBB4,intron_variant,,ENST00000484594,;"	"T"	"ENSG00000178568"	"ENST00000342788"	"Transcript"	"intron_variant"	"-/12132"	"-/3927"	"-/1308"	""	""	""	"1"	NA	-1	"ERBB4"	"HGNC"	3432	"protein_coding"	"YES"	"CCDS2394.1"	"ENSP00000342235"	"Q15303"	"Q580Q7,Q53T57,Q53R48,Q53R25,Q53QS8,Q4ZG14,E9PDR1"	"UPI00000499DF"	"NM_005235.2"	""	""	""	"3/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"7648d99a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231578947368421	"WGS"	TRUE
"16676"	"AC079610.1"	0	"mskcc.org"	"GRCh37"	"2"	213717185	213717185	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.381+40224C>A"	""	""	"ENST00000415387"	""	92	"85"	7	52	"52"	0	"AC079610.1,intron_variant,,ENST00000415387,;"	"T"	"ENSG00000273118"	"ENST00000415387"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/433"	""	""	""	""	""	"1"	NA	-1	"AC079610.1"	"Clone_based_vega_gene"	NA	"sense_overlapping"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7648ebba-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"16677"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	217979129	217979129	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"119"	8	80	"80"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"7649722e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.062992125984252	"WGS"	FALSE
"16678"	"RQCD1"	9125	"mskcc.org"	"GRCh37"	"2"	219439551	219439551	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.25-5733G>T"	""	""	"ENST00000273064"	""	99	"76"	23	65	"65"	0	"RQCD1,intron_variant,,ENST00000273064,NM_005444.2;RQCD1,intron_variant,,ENST00000542068,;RQCD1,intron_variant,,ENST00000509807,NM_001271634.1;RQCD1,intron_variant,,ENST00000295701,NM_001271635.1;RQCD1,downstream_gene_variant,,ENST00000489687,;RQCD1,intron_variant,,ENST00000432877,;RQCD1,intron_variant,,ENST00000433439,;"	"T"	"ENSG00000144580"	"ENST00000273064"	"Transcript"	"intron_variant"	"-/4079"	"-/900"	"-/299"	""	""	""	"1"	NA	1	"RQCD1"	"HGNC"	10445	"protein_coding"	"YES"	"CCDS33379.1"	"ENSP00000273064"	"Q92600"	"D5MQE1,B4DJE1"	"UPI0000052E10"	"NM_005444.2"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7649a78a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232323232323232	"WGS"	FALSE
"16679"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	220670841	220670841	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"66"	16	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"7649ccce-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195121951219512	"WGS"	FALSE
"16680"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	220670842	220670842	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"65"	16	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7649cd28-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197530864197531	"WGS"	FALSE
"16681"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	221586787	221586787	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"69"	17	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"7649e6d2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197674418604651	"WGS"	FALSE
"16682"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	222740656	222740656	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"72"	24	74	"74"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"764a0f2c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"16683"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	223645215	223645215	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"58"	9	49	"49"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"764a28d6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134328358208955	"WGS"	FALSE
"16684"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	226864175	226864175	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"84"	26	61	"61"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"764a7dc2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236363636363636	"WGS"	FALSE
"16685"	"SPHKAP"	80309	"mskcc.org"	"GRCh37"	"2"	228962323	228962323	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.246+11225G>A"	""	""	"ENST00000392056"	""	95	"75"	20	55	"55"	0	"SPHKAP,intron_variant,,ENST00000392056,NM_001142644.1;SPHKAP,intron_variant,,ENST00000344657,NM_030623.3;"	"T"	"ENSG00000153820"	"ENST00000392056"	"Transcript"	"intron_variant"	"-/6917"	"-/5103"	"-/1700"	""	""	""	"1"	NA	-1	"SPHKAP"	"HGNC"	30619	"protein_coding"	"YES"	"CCDS46537.1"	"ENSP00000375909"	"Q2M3C7"	""	"UPI0000411D7E"	"NM_001142644.1"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"764ab620-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"16686"	"PID1"	55022	"mskcc.org"	"GRCh37"	"2"	229815448	229815448	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.357-100084C>A"	""	""	"ENST00000482518"	""	103	"86"	17	84	"84"	0	"PID1,intron_variant,,ENST00000482518,;"	"T"	"ENSG00000153823"	"ENST00000482518"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/479"	""	""	""	""	""	"1"	NA	-1	"PID1"	"HGNC"	26084	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"764ace62-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16504854368932	"WGS"	FALSE
"16687"	"GIGYF2"	26058	"mskcc.org"	"GRCh37"	"2"	233570634	233570634	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-44+2435G>C"	""	""	"ENST00000409451"	""	62	"55"	7	35	"35"	0	"GIGYF2,intron_variant,,ENST00000373566,;GIGYF2,intron_variant,,ENST00000409547,NM_015575.3;GIGYF2,intron_variant,,ENST00000409480,NM_001103147.1;GIGYF2,intron_variant,,ENST00000409451,;GIGYF2,intron_variant,,ENST00000373563,NM_001103146.1;GIGYF2,intron_variant,,ENST00000409196,NM_001103148.1;GIGYF2,intron_variant,,ENST00000440945,;GIGYF2,intron_variant,,ENST00000423659,;GIGYF2,intron_variant,,ENST00000429187,;GIGYF2,intron_variant,,ENST00000425040,;GIGYF2,intron_variant,,ENST00000421433,;GIGYF2,intron_variant,,ENST00000430720,;GIGYF2,intron_variant,,ENST00000428883,;GIGYF2,intron_variant,,ENST00000427233,;GIGYF2,intron_variant,,ENST00000456491,;GIGYF2,non_coding_transcript_exon_variant,,ENST00000474465,;GIGYF2,intron_variant,,ENST00000482666,;GIGYF2,intron_variant,,ENST00000464805,;GIGYF2,intron_variant,,ENST00000489328,;GIGYF2,intron_variant,,ENST00000463554,;GIGYF2,intron_variant,,ENST00000490229,;GIGYF2,intron_variant,,ENST00000475359,;GIGYF2,intron_variant,,ENST00000488734,;GIGYF2,intron_variant,,ENST00000476995,;GIGYF2,intron_variant,,ENST00000492910,;GIGYF2,intron_variant,,ENST00000483164,;GIGYF2,intron_variant,,ENST00000490612,;GIGYF2,intron_variant,,ENST00000464402,;GIGYF2,intron_variant,,ENST00000424038,;GIGYF2,intron_variant,,ENST00000488629,;GIGYF2,intron_variant,,ENST00000484409,;"	"C"	"ENSG00000204120"	"ENST00000409451"	"Transcript"	"intron_variant"	"-/5937"	"-/3963"	"-/1320"	""	""	""	"1"	NA	1	"GIGYF2"	"HGNC"	11960	"protein_coding"	"YES"	"CCDS46542.1"	"ENSP00000387170"	"Q6Y7W6"	"C9JZC0,C9JXQ0,C9JRZ2,C9JPV7,C9JHT0,C9JH18,C9J1A6,C9J0V6"	"UPI00003FEC8F"	""	""	""	""	"3/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"764b79a2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112903225806452	"WGS"	FALSE
"16688"	"USP40"	55230	"mskcc.org"	"GRCh37"	"2"	234441757	234441757	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1504+368G>T"	""	""	"ENST00000450966"	""	104	"90"	14	66	"66"	0	"USP40,intron_variant,,ENST00000251722,;USP40,intron_variant,,ENST00000450966,NM_018218.2;USP40,intron_variant,,ENST00000427112,;USP40,intron_variant,,ENST00000485943,;"	"A"	"ENSG00000085982"	"ENST00000450966"	"Transcript"	"intron_variant"	"-/5616"	"-/3744"	"-/1247"	""	""	""	"1"	NA	-1	"USP40"	"HGNC"	20069	"protein_coding"	"YES"	"CCDS46547.1"	"ENSP00000415434"	"Q9NVE5"	""	"UPI0000232F06"	"NM_018218.2"	""	""	""	"10/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"764b946e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134615384615385	"WGS"	FALSE
"16689"	"UGT1A9"	54600	"mskcc.org"	"GRCh37"	"2"	234594363	234594363	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.855+12928G>A"	""	""	"ENST00000354728"	""	106	"87"	19	83	"83"	0	"UGT1A9,intron_variant,,ENST00000354728,;UGT1A10,intron_variant,,ENST00000344644,NM_019075.2;UGT1A8,intron_variant,,ENST00000373450,NM_019076.4;UGT1A8,intron_variant,,ENST00000609637,NM_021027.2;UGT1A7,intron_variant,,ENST00000373426,NM_019077.2;UGT1A7,intron_variant,,ENST00000485022,;UGT1A10,intron_variant,,ENST00000373445,;"	"A"	"ENSG00000241119"	"ENST00000354728"	"Transcript"	"intron_variant"	"-/2416"	"-/1593"	"-/530"	""	""	""	"1"	NA	1	"UGT1A9"	"HGNC"	12541	"protein_coding"	"YES"	"CCDS2505.1"	"ENSP00000346768"	"O60656"	"Q5DSZ5,Q53E75,A9UKF4"	"UPI0000044213"	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"764b9b12-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179245283018868	"WGS"	FALSE
"16690"	"COL6A3"	1293	"mskcc.org"	"GRCh37"	"2"	238256185	238256185	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7029+265C>G"	""	""	"ENST00000295550"	""	87	"70"	17	73	"73"	0	"COL6A3,intron_variant,,ENST00000295550,NM_004369.3;COL6A3,intron_variant,,ENST00000347401,;COL6A3,intron_variant,,ENST00000353578,NM_057167.3;COL6A3,intron_variant,,ENST00000346358,;COL6A3,intron_variant,,ENST00000409809,;COL6A3,intron_variant,,ENST00000472056,NM_057166.4;COL6A3,intron_variant,,ENST00000491769,;"	"C"	"ENSG00000163359"	"ENST00000295550"	"Transcript"	"intron_variant"	"-/10749"	"-/9534"	"-/3177"	""	""	""	"1"	NA	-1	"COL6A3"	"HGNC"	2213	"protein_coding"	"YES"	"CCDS33412.1"	"ENSP00000295550"	"P12111"	"Q8N4Z1,D9ZGF2"	"UPI0000456F39"	"NM_004369.3"	""	""	""	"31/43"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"764c2e74-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195402298850575	"WGS"	FALSE
"16691"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	238379686	238379686	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"81"	8	78	"78"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"764c3194-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0898876404494382	"WGS"	FALSE
"16692"	"OR5S1P"	0	"mskcc.org"	"GRCh37"	"2"	241045048	241045048	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000453063"	""	66	"52"	14	50	"50"	0	"OR5S1P,upstream_gene_variant,,ENST00000453063,;"	"T"	"ENSG00000213048"	"ENST00000453063"	"Transcript"	"upstream_gene_variant"	"-/951"	""	""	""	""	""	"1"	"3471"	1	"OR5S1P"	"HGNC"	15040	"unitary_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"764cf246-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212121212121212	"WGS"	FALSE
"16693"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	241098423	241098423	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	28	"24"	4	24	"24"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"764cf7fa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"16694"	"PASK"	23178	"mskcc.org"	"GRCh37"	"2"	242043376	242043376	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000358649"	""	54	"47"	7	39	"39"	0	"PASK,downstream_gene_variant,,ENST00000405260,NM_001252120.1;PASK,downstream_gene_variant,,ENST00000234040,NM_001252119.1,NM_001252122.1,NM_015148.3;PASK,downstream_gene_variant,,ENST00000358649,;PASK,downstream_gene_variant,,ENST00000544142,;PASK,downstream_gene_variant,,ENST00000539818,;MTERFD2,upstream_gene_variant,,ENST00000391980,NM_182501.3;MTERFD2,upstream_gene_variant,,ENST00000495694,;MTERFD2,upstream_gene_variant,,ENST00000406593,;MTERFD2,upstream_gene_variant,,ENST00000407095,;MTERFD2,upstream_gene_variant,,ENST00000424798,;MTERFD2,upstream_gene_variant,,ENST00000439144,;MTERFD2,upstream_gene_variant,,ENST00000401626,;MTERFD2,upstream_gene_variant,,ENST00000434791,;MTERFD2,upstream_gene_variant,,ENST00000414146,;MTERFD2,upstream_gene_variant,,ENST00000464344,;MTERFD2,upstream_gene_variant,,ENST00000455202,;PASK,downstream_gene_variant,,ENST00000475666,;MTERFD2,upstream_gene_variant,,ENST00000480298,;MTERFD2,upstream_gene_variant,,ENST00000493169,;MTERFD2,upstream_gene_variant,,ENST00000241527,;PASK,downstream_gene_variant,,ENST00000472072,;MTERFD2,upstream_gene_variant,,ENST00000475860,;PASK,downstream_gene_variant,,ENST00000489256,;MTERFD2,upstream_gene_variant,,ENST00000476564,;MTERFD2,upstream_gene_variant,,ENST00000460915,;"	"C"	"ENSG00000115687"	"ENST00000358649"	"Transcript"	"downstream_gene_variant"	"-/4326"	"-/3993"	"-/1330"	""	""	""	"1"	"2336"	-1	"PASK"	"HGNC"	17270	"protein_coding"	"YES"	"CCDS58759.1"	"ENSP00000351475"	"Q96RG2"	"Q14148,C9J4R3,C9J1Z3"	"UPI0000456F4C"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"764d4232-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12962962962963	"WGS"	FALSE
"16695"	"SIRPA"	140885	"mskcc.org"	"GRCh37"	"20"	1873974	1873974	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000358771"	""	87	"78"	9	76	"76"	0	"SIRPA,upstream_gene_variant,,ENST00000358771,NM_001040023.1;SIRPA,upstream_gene_variant,,ENST00000400068,NM_001040022.1;SIRPA,upstream_gene_variant,,ENST00000356025,NM_080792.2;"	"G"	"ENSG00000198053"	"ENST00000358771"	"Transcript"	"upstream_gene_variant"	"-/3996"	"-/1515"	"-/504"	""	""	""	"1"	"1968"	1	"SIRPA"	"HGNC"	9662	"protein_coding"	"YES"	"CCDS13022.1"	"ENSP00000351621"	"P78324"	"B4DP97"	"UPI0000073ADE"	"NM_001040023.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"764e1e96-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"16696"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	2173086	2173086	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"56"	14	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"764e2378-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16697"	"TMC2"	117532	"mskcc.org"	"GRCh37"	"20"	2532002	2532002	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.83-7100C>T"	""	""	"ENST00000358864"	""	67	"60"	7	41	"41"	0	"TMC2,intron_variant,,ENST00000358864,NM_080751.2;"	"T"	"ENSG00000149488"	"ENST00000358864"	"Transcript"	"intron_variant"	"-/3169"	"-/2721"	"-/906"	""	""	""	"1"	NA	1	"TMC2"	"HGNC"	16527	"protein_coding"	"YES"	"CCDS13029.2"	"ENSP00000351732"	"Q8TDI7"	""	"UPI0000246C98"	"NM_080751.2"	""	""	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"764e2f80-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104477611940299	"WGS"	FALSE
"16698"	"SMOX"	54498	"mskcc.org"	"GRCh37"	"20"	4147357	4147357	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-26-8320C>A"	""	""	"ENST00000305958"	""	81	"66"	15	55	"55"	0	"SMOX,intron_variant,,ENST00000305958,NM_175839.2;SMOX,intron_variant,,ENST00000278795,NM_175842.2,NM_001270691.1;SMOX,intron_variant,,ENST00000339123,NM_175840.2;SMOX,intron_variant,,ENST00000346595,NM_175841.2;SMOX,upstream_gene_variant,,ENST00000379460,;SMOX,intron_variant,,ENST00000484515,;SMOX,intron_variant,,ENST00000493223,;SMOX,upstream_gene_variant,,ENST00000602910,;"	"A"	"ENSG00000088826"	"ENST00000305958"	"Transcript"	"intron_variant"	"-/2233"	"-/1668"	"-/555"	""	""	""	"1"	NA	1	"SMOX"	"HGNC"	15862	"protein_coding"	"YES"	"CCDS13075.1"	"ENSP00000307252"	"Q9NWM0"	""	"UPI000006CE86"	"NM_175839.2"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"764e67b6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WGS"	FALSE
"16699"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	4658283	4658283	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	85	"67"	18	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"764e7292-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211764705882353	"WGS"	FALSE
"16700"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	5382483	5382483	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"58"	4	36	"36"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"764e816a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"16701"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	5850484	5850484	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"64"	14	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"764e8bc4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179487179487179	"WGS"	FALSE
"16702"	"JAG1"	182	"mskcc.org"	"GRCh37"	"20"	10644724	10644724	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.388-62G>T"	""	""	"ENST00000254958"	""	94	"72"	22	83	"83"	0	"JAG1,intron_variant,,ENST00000254958,NM_000214.2;JAG1,upstream_gene_variant,,ENST00000423891,;"	"A"	"ENSG00000101384"	"ENST00000254958"	"Transcript"	"intron_variant"	"-/5987"	"-/3657"	"-/1218"	""	""	""	"1"	NA	-1	"JAG1"	"HGNC"	6188	"protein_coding"	"YES"	"CCDS13112.1"	"ENSP00000254958"	"P78504"	"B7U6M8,B4DYR1"	"UPI00000498B5"	"NM_000214.2"	""	""	""	"2/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"764f0860-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234042553191489	"WGS"	FALSE
"16703"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	12623953	12623953	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"90"	31	67	"67"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"764f36aa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256198347107438	"WGS"	FALSE
"16704"	"MACROD2"	140733	"mskcc.org"	"GRCh37"	"20"	15570476	15570476	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.645+89984C>G"	""	""	"ENST00000217246"	""	120	"100"	20	87	"87"	0	"MACROD2,intron_variant,,ENST00000217246,NM_080676.5;MACROD2,intron_variant,,ENST00000402914,NM_001033087.1;MACROD2,intron_variant,,ENST00000310348,;"	"G"	"ENSG00000172264"	"ENST00000217246"	"Transcript"	"intron_variant"	"-/4994"	"-/1278"	"-/425"	""	""	""	"1"	NA	1	"MACROD2"	"HGNC"	16126	"protein_coding"	"YES"	"CCDS13120.2"	"ENSP00000217246"	"A1Z1Q3"	""	"UPI00005B2E12"	"NM_080676.5"	""	""	""	"8/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"764f9816-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"16705"	"OTOR"	56914	"mskcc.org"	"GRCh37"	"20"	16736924	16736924	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000246081"	""	107	"79"	28	73	"72"	1	"OTOR,downstream_gene_variant,,ENST00000246081,NM_020157.3;OTOR,intron_variant,,ENST00000490148,;OTOR,downstream_gene_variant,,ENST00000486129,;"	"T"	"ENSG00000125879"	"ENST00000246081"	"Transcript"	"downstream_gene_variant"	"-/1477"	"-/387"	"-/128"	""	""	""	"1"	"4115"	1	"OTOR"	"HGNC"	8517	"protein_coding"	"YES"	"CCDS13124.1"	"ENSP00000246081"	"Q9NRC9"	""	"UPI0000047809"	"NM_020157.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"764fb3d2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261682242990654	"WGS"	FALSE
"16706"	"SEC23B"	10483	"mskcc.org"	"GRCh37"	"20"	18543302	18543302	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000336714"	""	65	"60"	5	51	"51"	0	"SEC23B,downstream_gene_variant,,ENST00000336714,NM_032985.4,NM_032986.3,NM_006363.4;SEC23B,downstream_gene_variant,,ENST00000377475,NM_001172746.1;SEC23B,downstream_gene_variant,,ENST00000377465,NM_001172745.1;SEC23B,downstream_gene_variant,,ENST00000262544,;SEC23B,downstream_gene_variant,,ENST00000422877,;LINC00493,upstream_gene_variant,,ENST00000608034,;LINC00493,upstream_gene_variant,,ENST00000411646,;LINC00493,upstream_gene_variant,,ENST00000435844,;"	"C"	"ENSG00000101310"	"ENST00000336714"	"Transcript"	"downstream_gene_variant"	"-/3411"	"-/2304"	"-/767"	""	""	""	"1"	"1243"	1	"SEC23B"	"HGNC"	10702	"protein_coding"	"YES"	"CCDS13137.1"	"ENSP00000338844"	"Q15437"	"Q5QPE2,B4DS04"	"UPI0000135455"	"NM_032985.4,NM_032986.3,NM_006363.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"764feb68-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"16707"	"SLC24A3"	57419	"mskcc.org"	"GRCh37"	"20"	19244919	19244919	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.143-16684C>T"	""	""	"ENST00000328041"	""	94	"69"	25	48	"48"	0	"SLC24A3,intron_variant,,ENST00000328041,NM_020689.3;RP5-1027G4.3,intron_variant,,ENST00000319682,;"	"T"	"ENSG00000185052"	"ENST00000328041"	"Transcript"	"intron_variant"	"-/3929"	"-/1935"	"-/644"	""	""	""	"1"	NA	1	"SLC24A3"	"HGNC"	10977	"protein_coding"	"YES"	"CCDS13140.1"	"ENSP00000333519"	"Q9HC58"	""	"UPI00001A8BFD"	"NM_020689.3"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"764ff892-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265957446808511	"WGS"	FALSE
"16708"	"SLC24A3"	57419	"mskcc.org"	"GRCh37"	"20"	19350794	19350794	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.271+89063G>T"	""	""	"ENST00000328041"	""	126	"113"	13	84	"84"	0	"SLC24A3,intron_variant,,ENST00000328041,NM_020689.3;"	"T"	"ENSG00000185052"	"ENST00000328041"	"Transcript"	"intron_variant"	"-/3929"	"-/1935"	"-/644"	""	""	""	"1"	NA	1	"SLC24A3"	"HGNC"	10977	"protein_coding"	"YES"	"CCDS13140.1"	"ENSP00000333519"	"Q9HC58"	""	"UPI00001A8BFD"	"NM_020689.3"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"764ffb6c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103174603174603	"WGS"	FALSE
"16709"	"C20orf26"	26074	"mskcc.org"	"GRCh37"	"20"	20342286	20342286	"+"	"3'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000245957"	""	84	"63"	21	47	"47"	0	"C20orf26,downstream_gene_variant,,ENST00000245957,NM_015585.3;C20orf26,downstream_gene_variant,,ENST00000377309,;C20orf26,downstream_gene_variant,,ENST00000377308,;"	"T"	"ENSG00000089101"	"ENST00000245957"	"Transcript"	"downstream_gene_variant"	"-/4082"	"-/3714"	"-/1237"	""	""	""	"1"	"940"	1	"C20orf26"	"HGNC"	15872	"protein_coding"	"YES"	"CCDS33447.1"	"ENSP00000245957"	"Q8NHU2"	"C9JMV0,C9JHE8,C9J610"	"UPI0000206AE4"	"NM_015585.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76501c8c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"16710"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	21773574	21773574	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"95"	18	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76504ad6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15929203539823	"WGS"	FALSE
"16711"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	23756398	23756398	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs750444288"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"56"	19	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs750444288"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"76507e48-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253333333333333	"WGS"	FALSE
"16712"	"NINL"	22981	"mskcc.org"	"GRCh37"	"20"	25476726	25476726	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1310+573C>T"	""	""	"ENST00000278886"	""	93	"84"	9	63	"63"	0	"NINL,intron_variant,,ENST00000278886,NM_025176.4;NINL,intron_variant,,ENST00000422516,;NINL,intron_variant,,ENST00000461642,;NINL,upstream_gene_variant,,ENST00000489780,;"	"A"	"ENSG00000101004"	"ENST00000278886"	"Transcript"	"intron_variant"	"-/4969"	"-/4149"	"-/1382"	""	""	""	"1"	NA	-1	"NINL"	"HGNC"	29163	"protein_coding"	"YES"	"CCDS33452.1"	"ENSP00000278886"	"Q9Y2I6"	""	"UPI0000206B64"	"NM_025176.4"	""	""	""	"10/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7650b84a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"16713"	"ZNF337-AS1"	0	"mskcc.org"	"GRCh37"	"20"	25648416	25648416	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.444-6072T>A"	""	""	"ENST00000414393"	""	49	"44"	5	40	"40"	0	"ZNF337-AS1,intron_variant,,ENST00000414393,;ZNF337-AS1,intron_variant,,ENST00000439498,;ZNF337-AS1,intron_variant,,ENST00000428254,;ZNF337-AS1,intron_variant,,ENST00000420803,;ZNF337-AS1,intron_variant,,ENST00000455791,;ZNF337-AS1,intron_variant,,ENST00000421829,;MED28P7,downstream_gene_variant,,ENST00000456611,;"	"A"	"ENSG00000213742"	"ENST00000414393"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4666"	""	""	""	""	""	"1"	NA	1	"ZNF337-AS1"	"HGNC"	40759	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"7650c0f6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WGS"	FALSE
"16714"	"RP5-854E16.2"	0	"mskcc.org"	"GRCh37"	"20"	29877102	29877102	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000445194"	""	83	"73"	10	62	"62"	0	"RP5-854E16.2,upstream_gene_variant,,ENST00000445194,;"	"A"	"ENSG00000224628"	"ENST00000445194"	"Transcript"	"upstream_gene_variant"	"-/1519"	""	""	""	""	""	"1"	"2464"	-1	"RP5-854E16.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7651b2cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120481927710843	"WGS"	FALSE
"16715"	"BPIFA3"	128861	"mskcc.org"	"GRCh37"	"20"	31816952	31816952	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000375454"	""	92	"68"	24	69	"69"	0	"BPIFA3,downstream_gene_variant,,ENST00000375454,NM_178466.3;BPIFA3,downstream_gene_variant,,ENST00000375452,NM_001042439.1;BPIFA3,downstream_gene_variant,,ENST00000490499,;BPIFA3,downstream_gene_variant,,ENST00000471233,;"	"A"	"ENSG00000131059"	"ENST00000375454"	"Transcript"	"downstream_gene_variant"	"-/1116"	"-/765"	"-/254"	""	""	""	"1"	"1388"	1	"BPIFA3"	"HGNC"	16204	"protein_coding"	"YES"	"CCDS13216.2"	"ENSP00000364603"	"Q9BQP9"	""	"UPI00003E72D6"	"NM_178466.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7651f3a4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"16716"	"ACSS2"	55902	"mskcc.org"	"GRCh37"	"20"	33472735	33472735	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.374+1943C>G"	""	""	"ENST00000253382"	""	77	"71"	6	51	"51"	0	"ACSS2,intron_variant,,ENST00000360596,NM_018677.3;ACSS2,intron_variant,,ENST00000253382,NM_001076552.2;ACSS2,intron_variant,,ENST00000336325,NM_001242393.1;ACSS2,intron_variant,,ENST00000473172,;ACSS2,intron_variant,,ENST00000488172,;ACSS2,intron_variant,,ENST00000493805,;ACSS2,intron_variant,,ENST00000484354,;ACSS2,intron_variant,,ENST00000476922,;ACSS2,intron_variant,,ENST00000497927,;ACSS2,intron_variant,,ENST00000481971,;ACSS2,intron_variant,,ENST00000467019,;ACSS2,intron_variant,,ENST00000464399,;ACSS2,downstream_gene_variant,,ENST00000490046,;ACSS2,downstream_gene_variant,,ENST00000461051,;ACSS2,intron_variant,,ENST00000481284,;ACSS2,intron_variant,,ENST00000477932,;ACSS2,intron_variant,,ENST00000480978,;ACSS2,intron_variant,,ENST00000480274,;ACSS2,intron_variant,,ENST00000475459,;"	"G"	"ENSG00000131069"	"ENST00000253382"	"Transcript"	"intron_variant"	"-/2925"	"-/2145"	"-/714"	""	""	""	"1"	NA	1	"ACSS2"	"HGNC"	15814	"protein_coding"	"YES"	"CCDS42868.2"	"ENSP00000253382"	"Q9NR19"	"F8WCJ4,B3KUV2"	"UPI00004709E0"	"NM_001076552.2"	""	""	""	"2/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"76521bae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0779220779220779	"WGS"	FALSE
"16717"	"C20orf173"	140873	"mskcc.org"	"GRCh37"	"20"	34121554	34121554	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000444723"	""	43	"37"	6	41	"41"	0	"C20orf173,upstream_gene_variant,,ENST00000444723,NM_001145350.1;C20orf173,upstream_gene_variant,,ENST00000246199,;C20orf173,upstream_gene_variant,,ENST00000374345,;C20orf173,upstream_gene_variant,,ENST00000424444,;RP3-477O4.5,upstream_gene_variant,,ENST00000419294,;"	"C"	"ENSG00000125975"	"ENST00000444723"	"Transcript"	"upstream_gene_variant"	"-/1059"	"-/609"	"-/202"	""	""	""	"1"	"4073"	-1	"C20orf173"	"HGNC"	16166	"protein_coding"	"YES"	"CCDS46594.1"	"ENSP00000403566"	"Q96LM9"	"Q4VXS0,Q4VXR9"	"UPI0001948489"	"NM_001145350.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"765231c0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"16718"	"RP5-1121H13.4"	0	"mskcc.org"	"GRCh37"	"20"	40667412	40667412	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.132-24735G>A"	""	""	"ENST00000431589"	""	98	"77"	21	63	"63"	0	"RP5-1121H13.4,intron_variant,,ENST00000431589,;"	"A"	"ENSG00000225458"	"ENST00000431589"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/594"	""	""	""	""	""	"1"	NA	1	"RP5-1121H13.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7652d1f2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"16719"	"SLC13A3"	64849	"mskcc.org"	"GRCh37"	"20"	45301383	45301383	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-128+920G>T"	""	""	"ENST00000468915"	""	85	"63"	22	64	"64"	0	"SLC13A3,intron_variant,,ENST00000468915,;SLC13A3,upstream_gene_variant,,ENST00000290317,NM_001011554.2;SLC13A3,upstream_gene_variant,,ENST00000472148,NM_001193340.1;SLC13A3,upstream_gene_variant,,ENST00000417157,;"	"A"	"ENSG00000158296"	"ENST00000468915"	"Transcript"	"intron_variant"	"-/1597"	"-/1226"	"-/408"	""	""	""	"1"	NA	-1	"SLC13A3"	"HGNC"	14430	"protein_coding"	""	""	"ENSP00000417784"	""	"C9J7L4"	"UPI0001B79075"	""	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76535064-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258823529411765	"WGS"	FALSE
"16720"	"NCOA3"	8202	"mskcc.org"	"GRCh37"	"20"	46138757	46138757	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-99+7994C>T"	""	""	"ENST00000371998"	""	56	"40"	16	47	"47"	0	"NCOA3,intron_variant,,ENST00000372004,NM_006534.3,NM_181659.2,NM_001174088.1,NM_001174087.1;NCOA3,intron_variant,,ENST00000341724,;NCOA3,intron_variant,,ENST00000371997,;NCOA3,intron_variant,,ENST00000371998,;"	"T"	"ENSG00000124151"	"ENST00000371998"	"Transcript"	"intron_variant"	"-/4668"	"-/4275"	"-/1424"	""	""	""	"1"	NA	1	"NCOA3"	"HGNC"	7670	"protein_coding"	"YES"	"CCDS13407.1"	"ENSP00000361066"	"Q9Y6Q9"	"Q569F6,B4DYT5"	"UPI000012FE45"	""	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7653690a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"16721"	"KCNB1"	3745	"mskcc.org"	"GRCh37"	"20"	48029660	48029660	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.568-38131C>T"	""	""	"ENST00000371741"	""	79	"58"	21	64	"64"	0	"KCNB1,intron_variant,,ENST00000371741,NM_004975.2;"	"A"	"ENSG00000158445"	"ENST00000371741"	"Transcript"	"intron_variant"	"-/11850"	"-/2577"	"-/858"	""	""	""	"1"	NA	-1	"KCNB1"	"HGNC"	6231	"protein_coding"	"YES"	"CCDS13418.1"	"ENSP00000360806"	"Q14721"	""	"UPI000012DC80"	"NM_004975.2"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGG"	"7653bd24-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265822784810127	"WGS"	FALSE
"16722"	"B4GALT5"	9334	"mskcc.org"	"GRCh37"	"20"	48244845	48244845	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000371711"	""	64	"58"	6	40	"40"	0	"B4GALT5,downstream_gene_variant,,ENST00000371711,NM_004776.3;"	"C"	"ENSG00000158470"	"ENST00000371711"	"Transcript"	"downstream_gene_variant"	"-/4722"	"-/1167"	"-/388"	""	""	""	"1"	"4637"	-1	"B4GALT5"	"HGNC"	928	"protein_coding"	"YES"	"CCDS13420.1"	"ENSP00000360776"	"O43286"	"Q7LFU8"	"UPI0000126720"	"NM_004776.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"7653c292-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"16723"	"RN7SL197P"	0	"mskcc.org"	"GRCh37"	"20"	48339274	48339274	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000466981"	""	50	"44"	6	32	"32"	0	"RN7SL197P,downstream_gene_variant,,ENST00000466981,;"	"G"	"ENSG00000264946"	"ENST00000466981"	"Transcript"	"downstream_gene_variant"	"-/297"	""	""	""	""	""	"1"	"492"	1	"RN7SL197P"	"HGNC"	46213	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"7653c5bc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"16724"	"RP4-723E3.1"	101927700	"mskcc.org"	"GRCh37"	"20"	51167437	51167437	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.493+771C>T"	""	""	"ENST00000454600"	""	75	"62"	13	60	"60"	0	"RP4-723E3.1,intron_variant,,ENST00000454600,;"	"T"	"ENSG00000234948"	"ENST00000454600"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/745"	""	""	""	""	""	"1"	NA	1	"RP4-723E3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"76542eee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173333333333333	"WGS"	FALSE
"16725"	"ENSR00000403016"	0	"mskcc.org"	"GRCh37"	"20"	51512144	51512144	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs574069682"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000403016"	""	99	"75"	24	69	"69"	0	""	"A"	""	"ENSR00000403016"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	"rs574069682"	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76543740-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242424242424242	"WGS"	FALSE
"16726"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	54234542	54234542	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"75"	34	62	"62"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7654a0f4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311926605504587	"WGS"	FALSE
"16727"	"TFAP2C"	7022	"mskcc.org"	"GRCh37"	"20"	55219296	55219296	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000201031"	""	63	"59"	4	34	"34"	0	"TFAP2C,downstream_gene_variant,,ENST00000201031,NM_003222.3;"	"C"	"ENSG00000087510"	"ENST00000201031"	"Transcript"	"downstream_gene_variant"	"-/2866"	"-/1353"	"-/450"	""	""	""	"1"	"4957"	1	"TFAP2C"	"HGNC"	11744	"protein_coding"	"YES"	"CCDS13454.1"	"ENSP00000201031"	"Q92754"	"B4DWK3"	"UPI0000125BC8"	"NM_003222.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"7654b850-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0634920634920635	"WGS"	FALSE
"16728"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	55673460	55673460	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	87	"60"	27	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7654cb88-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.310344827586207	"WGS"	FALSE
"16729"	"CDH4"	1002	"mskcc.org"	"GRCh37"	"20"	60300309	60300309	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.170-18310C>T"	""	""	"ENST00000360469"	""	86	"66"	20	54	"54"	0	"CDH4,intron_variant,,ENST00000360469,NM_001794.3;CDH4,intron_variant,,ENST00000543233,NM_001252339.1,NM_001252338.1;"	"T"	"ENSG00000179242"	"ENST00000360469"	"Transcript"	"intron_variant"	"-/6511"	"-/2751"	"-/916"	""	""	""	"1"	NA	1	"CDH4"	"HGNC"	1763	"protein_coding"	"YES"	"CCDS13488.1"	"ENSP00000353656"	"P55283"	"Q8ND09"	"UPI000015FE86"	"NM_001794.3"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7655c290-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232558139534884	"WGS"	FALSE
"16730"	"CDH4"	1002	"mskcc.org"	"GRCh37"	"20"	60519912	60519912	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000360469"	""	18	"14"	4	9	"9"	0	"CDH4,downstream_gene_variant,,ENST00000360469,NM_001794.3;"	"A"	"ENSG00000179242"	"ENST00000360469"	"Transcript"	"downstream_gene_variant"	"-/6511"	"-/2751"	"-/916"	""	""	""	"1"	"4239"	1	"CDH4"	"HGNC"	1763	"protein_coding"	"YES"	"CCDS13488.1"	"ENSP00000353656"	"P55283"	"Q8ND09"	"UPI000015FE86"	"NM_001794.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"765603ae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"16731"	"LINC00029"	0	"mskcc.org"	"GRCh37"	"20"	61667682	61667682	"+"	"RNA"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.699G>A"	""	""	"ENST00000370341"	"1/3"	71	"62"	9	65	"65"	0	"LINC00029,non_coding_transcript_exon_variant,,ENST00000370341,;LINC00029,non_coding_transcript_exon_variant,,ENST00000414668,;LINC00029,non_coding_transcript_exon_variant,,ENST00000456634,;RP11-305P22.9,intron_variant,,ENST00000607802,;RP11-305P22.9,intron_variant,,ENST00000606208,;LINC01056,upstream_gene_variant,,ENST00000455711,;"	"T"	"ENSG00000125514"	"ENST00000370341"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"699/1631"	""	""	""	""	""	"1"	NA	-1	"LINC00029"	"HGNC"	16184	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76564eae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126760563380282	"WGS"	FALSE
"16732"	"RP5-963E22.4"	0	"mskcc.org"	"GRCh37"	"20"	61816938	61816938	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000423020"	""	84	"77"	7	57	"57"	0	"RP5-963E22.4,upstream_gene_variant,,ENST00000423020,;"	"T"	"ENSG00000231977"	"ENST00000423020"	"Transcript"	"upstream_gene_variant"	"-/542"	""	""	""	""	""	"1"	"4683"	-1	"RP5-963E22.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"765664a2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0833333333333333	"WGS"	FALSE
"16733"	"Unknown"	0	"mskcc.org"	"GRCh37"	"20"	62758886	62758886	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	27	"23"	4	9	"9"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"7656e792-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"16734"	"TEKT4P2"	727764	"mskcc.org"	"GRCh37"	"21"	9946614	9946614	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.129+19708G>C"	""	""	"ENST00000416067"	""	13	"10"	3	7	"7"	0	"TEKT4P2,intron_variant,,ENST00000416067,;TEKT4P2,intron_variant,,ENST00000400754,;"	"G"	"ENSG00000188681"	"ENST00000416067"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1599"	""	""	""	""	""	"1"	NA	-1	"TEKT4P2"	"HGNC"	40046	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"7658b234-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"16735"	"TEKT4P2"	727764	"mskcc.org"	"GRCh37"	"21"	9946615	9946615	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.129+19707A>G"	""	""	"ENST00000416067"	""	13	"10"	3	7	"7"	0	"TEKT4P2,intron_variant,,ENST00000416067,;TEKT4P2,intron_variant,,ENST00000400754,;"	"C"	"ENSG00000188681"	"ENST00000416067"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1599"	""	""	""	""	""	"1"	NA	-1	"TEKT4P2"	"HGNC"	40046	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"7658b28e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"16736"	"TEKT4P2"	727764	"mskcc.org"	"GRCh37"	"21"	9946620	9946620	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.129+19702A>G"	""	""	"ENST00000416067"	""	16	"12"	4	8	"8"	0	"TEKT4P2,intron_variant,,ENST00000416067,;TEKT4P2,intron_variant,,ENST00000400754,;"	"C"	"ENSG00000188681"	"ENST00000416067"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1599"	""	""	""	""	""	"1"	NA	-1	"TEKT4P2"	"HGNC"	40046	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"7658b2e8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"16737"	"ENSR00001726235"	0	"mskcc.org"	"GRCh37"	"21"	10450852	10450852	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001726235"	""	274	"245"	29	140	"140"	0	""	"G"	""	"ENSR00001726235"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"76596e40-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105839416058394	"WGS"	FALSE
"16738"	"AF254982.2"	0	"mskcc.org"	"GRCh37"	"21"	10869311	10869311	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000411878"	""	193	"180"	13	132	"132"	0	"AF254982.2,upstream_gene_variant,,ENST00000411878,;"	"A"	"ENSG00000235476"	"ENST00000411878"	"Transcript"	"upstream_gene_variant"	"-/311"	""	""	""	""	""	"1"	"2808"	1	"AF254982.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"765a14ee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0673575129533679	"WGS"	FALSE
"16739"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	11162979	11162979	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	307	"283"	24	190	"190"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"765c257c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0781758957654723	"WGS"	FALSE
"16740"	"ENSR00001565530"	0	"mskcc.org"	"GRCh37"	"21"	16789130	16789130	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001565530"	""	141	"112"	29	74	"74"	0	""	"C"	""	"ENSR00001565530"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"765cface-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205673758865248	"WGS"	FALSE
"16741"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	19102642	19102642	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"rs75227782"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	35	"29"	6	25	"25"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs75227782"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"765d364c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171428571428571	"WGS"	FALSE
"16742"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	19102643	19102643	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs79608003"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	36	"30"	6	26	"26"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs79608003"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"765d36a6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"16743"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	19102645	19102645	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"rs76795379"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	36	"30"	6	26	"26"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs76795379"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"765d3700-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"16744"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	19102648	19102648	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs74903539"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	35	"29"	6	26	"26"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs74903539"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"765d375a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171428571428571	"WGS"	FALSE
"16745"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	19102658	19102658	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs243636"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	32	"26"	6	26	"26"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs243636"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"765d37aa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"16746"	"LINC00320"	387486	"mskcc.org"	"GRCh37"	"21"	22172131	22172131	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.104+3182G>T"	""	""	"ENST00000437238"	""	92	"86"	6	66	"66"	0	"LINC00320,intron_variant,,ENST00000437238,;LINC00320,intron_variant,,ENST00000416768,;LINC00320,intron_variant,,ENST00000452561,;LINC00320,intron_variant,,ENST00000435279,;LINC00320,intron_variant,,ENST00000419299,;"	"A"	"ENSG00000224924"	"ENST00000437238"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2004"	""	""	""	""	""	"1"	NA	-1	"LINC00320"	"HGNC"	19690	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"765d99c0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"16747"	"AF241725.6"	0	"mskcc.org"	"GRCh37"	"21"	23061214	23061214	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000416182"	""	101	"81"	20	65	"65"	0	"AF241725.6,upstream_gene_variant,,ENST00000416182,;"	"A"	"ENSG00000237527"	"ENST00000416182"	"Transcript"	"upstream_gene_variant"	"-/480"	""	""	""	""	""	"1"	"2565"	-1	"AF241725.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"765db694-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.198019801980198	"WGS"	FALSE
"16748"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	24156909	24156909	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"101"	7	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"765dd7b4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0648148148148148	"WGS"	FALSE
"16749"	"AP000470.2"	0	"mskcc.org"	"GRCh37"	"21"	25559514	25559514	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs768245981"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.133+70G>A"	""	""	"ENST00000448063"	""	91	"68"	23	56	"56"	0	"AP000470.2,intron_variant,,ENST00000448063,;"	"T"	"ENSG00000224018"	"ENST00000448063"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/693"	""	""	""	""	"rs768245981"	"1"	NA	-1	"AP000470.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"765e0f9a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252747252747253	"WGS"	FALSE
"16750"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	25614641	25614641	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"82"	11	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"765e1260-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.118279569892473	"WGS"	FALSE
"16751"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	26060583	26060583	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"85"	14	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"765e1fd0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141414141414141	"WGS"	FALSE
"16752"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	26489249	26489249	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs561516761"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	133	"115"	18	67	"67"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs561516761"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0010"	"T:0.0038"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"765e2ae8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135338345864662	"WGS"	FALSE
"16753"	"APP"	351	"mskcc.org"	"GRCh37"	"21"	27545444	27545444	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000346798"	""	68	"63"	5	36	"36"	0	"APP,upstream_gene_variant,,ENST00000358918,NM_001204302.1,NM_001204301.1;APP,upstream_gene_variant,,ENST00000357903,NM_201413.2;APP,upstream_gene_variant,,ENST00000346798,NM_000484.3;APP,upstream_gene_variant,,ENST00000359726,;APP,upstream_gene_variant,,ENST00000348990,NM_001204303.1,NM_201414.2;APP,upstream_gene_variant,,ENST00000354192,NM_001136129.2;APP,upstream_gene_variant,,ENST00000448388,NM_001136131.2;APP,upstream_gene_variant,,ENST00000439274,NM_001136130.2;AP000230.1,intron_variant,,ENST00000608591,;AP000230.1,intron_variant,,ENST00000609365,;AP001439.2,intron_variant,,ENST00000455275,;APP,upstream_gene_variant,,ENST00000474136,;APP,upstream_gene_variant,,ENST00000466453,;"	"T"	"ENSG00000142192"	"ENST00000346798"	"Transcript"	"upstream_gene_variant"	"-/3467"	"-/2313"	"-/770"	""	""	""	"1"	"2472"	-1	"APP"	"HGNC"	620	"protein_coding"	"YES"	"CCDS13576.1"	"ENSP00000284981"	"P05067"	"L7XE61,L7XCZ9,B7Z313"	"UPI000002DB1C"	"NM_000484.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"765e455a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0735294117647059	"WGS"	FALSE
"16754"	"AF131217.1"	0	"mskcc.org"	"GRCh37"	"21"	29986641	29986641	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.294+12266A>G"	""	""	"ENST00000433310"	""	100	"76"	24	63	"63"	0	"AF131217.1,intron_variant,,ENST00000433310,;AF131217.1,intron_variant,,ENST00000430247,;"	"C"	"ENSG00000232855"	"ENST00000433310"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/6103"	""	""	""	""	""	"1"	NA	-1	"AF131217.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"765e9a28-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24	"WGS"	FALSE
"16755"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	31437407	31437407	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"110"	6	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"765ebc6a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0517241379310345	"WGS"	FALSE
"16756"	"AF096876.1"	0	"mskcc.org"	"GRCh37"	"21"	31471975	31471975	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000565564"	""	119	"97"	22	69	"69"	0	"AF096876.1,downstream_gene_variant,,ENST00000565564,;"	"C"	"ENSG00000259981"	"ENST00000565564"	"Transcript"	"downstream_gene_variant"	"-/444"	""	""	""	""	""	"1"	"1821"	1	"AF096876.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"765ebd78-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184873949579832	"WGS"	FALSE
"16757"	"KRTAP21-4P"	0	"mskcc.org"	"GRCh37"	"21"	32111248	32111248	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000454921"	""	111	"99"	12	60	"60"	0	"KRTAP21-4P,downstream_gene_variant,,ENST00000454921,;"	"G"	"ENSG00000236400"	"ENST00000454921"	"Transcript"	"downstream_gene_variant"	"-/816"	""	""	""	""	""	"1"	"2850"	-1	"KRTAP21-4P"	"HGNC"	18954	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"765ec962-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"16758"	"ITSN1"	6453	"mskcc.org"	"GRCh37"	"21"	35212702	35212702	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3661+3766C>G"	""	""	"ENST00000381318"	""	85	"68"	17	53	"53"	0	"ITSN1,intron_variant,,ENST00000381318,NM_003024.2;ITSN1,intron_variant,,ENST00000381285,;ITSN1,intron_variant,,ENST00000399367,;ITSN1,intron_variant,,ENST00000399326,;ITSN1,intron_variant,,ENST00000437442,;AP000304.12,intron_variant,,ENST00000429238,;ITSN1,downstream_gene_variant,,ENST00000381291,NM_001001132.1;ITSN1,downstream_gene_variant,,ENST00000399352,;ITSN1,downstream_gene_variant,,ENST00000399349,;ITSN1,downstream_gene_variant,,ENST00000399355,;ITSN1,downstream_gene_variant,,ENST00000399353,;ITSN1,downstream_gene_variant,,ENST00000379960,;ITSN1,intron_variant,,ENST00000495656,;ITSN1,downstream_gene_variant,,ENST00000479424,;ITSN1,downstream_gene_variant,,ENST00000472548,;ITSN1,intron_variant,,ENST00000489261,;ITSN1,intron_variant,,ENST00000475422,;ITSN1,downstream_gene_variant,,ENST00000462212,;"	"G"	"ENSG00000205726"	"ENST00000381318"	"Transcript"	"intron_variant"	"-/17015"	"-/5166"	"-/1721"	""	""	""	"1"	NA	1	"ITSN1"	"HGNC"	6183	"protein_coding"	"YES"	"CCDS33545.1"	"ENSP00000370719"	"Q15811"	"D6PAW2,C9JXS9,C9J1A4"	"UPI00001403C6"	"NM_003024.2"	""	""	""	"29/39"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"765f5490-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16759"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	38652497	38652497	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"58"	16	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"765fbd7c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216216216216216	"WGS"	FALSE
"16760"	"DSCAM"	1826	"mskcc.org"	"GRCh37"	"21"	41658775	41658775	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"rs62223769"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2182+9207T>A"	""	""	"ENST00000400454"	""	55	"51"	4	41	"41"	0	"DSCAM,intron_variant,,ENST00000400454,NM_001271534.1,NM_001389.3;DSCAM,intron_variant,,ENST00000404019,;"	"T"	"ENSG00000171587"	"ENST00000400454"	"Transcript"	"intron_variant"	"-/8552"	"-/6039"	"-/2012"	""	""	"rs62223769"	"1"	NA	-1	"DSCAM"	"HGNC"	3039	"protein_coding"	"YES"	"CCDS42929.1"	"ENSP00000383303"	"O60469"	""	"UPI00000422DF"	"NM_001271534.1,NM_001389.3"	""	""	""	"10/32"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"76602d0c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0727272727272727	"WGS"	FALSE
"16761"	"HSF2BP"	11077	"mskcc.org"	"GRCh37"	"21"	44973048	44973048	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.797-23206G>C"	""	""	"ENST00000291560"	""	99	"93"	6	52	"52"	0	"HSF2BP,intron_variant,,ENST00000291560,NM_007031.1;HSF2BP,intron_variant,,ENST00000542962,;RPL31P1,downstream_gene_variant,,ENST00000398116,;"	"G"	"ENSG00000160207"	"ENST00000291560"	"Transcript"	"intron_variant"	"-/1899"	"-/1005"	"-/334"	""	""	""	"1"	NA	-1	"HSF2BP"	"HGNC"	5226	"protein_coding"	"YES"	"CCDS13697.1"	"ENSP00000291560"	"O75031"	"Q6IAT7,B4DX36"	"UPI000012C321"	"NM_007031.1"	""	""	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7660e684-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"16762"	"PDXK"	8566	"mskcc.org"	"GRCh37"	"21"	45169412	45169412	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"rs774764711"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.464+451G>C"	""	""	"ENST00000291565"	""	75	"58"	17	55	"55"	0	"PDXK,intron_variant,,ENST00000291565,NM_003681.4;PDXK,intron_variant,,ENST00000468090,;PDXK,intron_variant,,ENST00000467908,;PDXK,intron_variant,,ENST00000343528,;PDXK,intron_variant,,ENST00000468392,;PDXK,intron_variant,,ENST00000398078,;PDXK,intron_variant,,ENST00000498040,;PDXK,intron_variant,,ENST00000398085,;PDXK,intron_variant,,ENST00000481512,;PDXK,intron_variant,,ENST00000490666,;PDXK,upstream_gene_variant,,ENST00000461123,;PDXK,downstream_gene_variant,,ENST00000470029,;PDXK,downstream_gene_variant,,ENST00000472777,;"	"C"	"ENSG00000160209"	"ENST00000291565"	"Transcript"	"intron_variant"	"-/7366"	"-/939"	"-/312"	""	""	"rs774764711"	"1"	NA	1	"PDXK"	"HGNC"	8819	"protein_coding"	"YES"	"CCDS13699.1"	"ENSP00000291565"	"O00764"	"G1UI32"	"UPI0000131524"	"NM_003681.4"	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7660eecc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226666666666667	"WGS"	FALSE
"16763"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	16564121	16564121	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"52"	5	35	"35"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"76639f00-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087719298245614	"WGS"	FALSE
"16764"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	16564125	16564125	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"54"	5	36	"36"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76639f5a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0847457627118644	"WGS"	FALSE
"16765"	"CECR2"	27443	"mskcc.org"	"GRCh37"	"22"	17960920	17960920	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.98+4196C>T"	""	""	"ENST00000262608"	""	78	"71"	7	28	"28"	0	"CECR2,intron_variant,,ENST00000400573,;CECR2,intron_variant,,ENST00000262608,NM_031413.3;CECR2,intron_variant,,ENST00000400585,;CECR2,intron_variant,,ENST00000342247,;CECR2,intron_variant,,ENST00000497534,;"	"T"	"ENSG00000099954"	"ENST00000262608"	"Transcript"	"intron_variant"	"-/5637"	"-/4332"	"-/1443"	""	""	""	"1"	NA	1	"CECR2"	"HGNC"	1840	"protein_coding"	"YES"	""	"ENSP00000262608"	"Q9BXF3"	""	"UPI0001AE62C8"	"NM_031413.3"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"76647f74-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0897435897435897	"WGS"	FALSE
"16766"	"CECR2"	27443	"mskcc.org"	"GRCh37"	"22"	18005261	18005261	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1045+1904T>C"	""	""	"ENST00000262608"	""	34	"30"	4	42	"42"	0	"CECR2,intron_variant,,ENST00000400573,;CECR2,intron_variant,,ENST00000262608,NM_031413.3;CECR2,intron_variant,,ENST00000400585,;CECR2,intron_variant,,ENST00000342247,;"	"C"	"ENSG00000099954"	"ENST00000262608"	"Transcript"	"intron_variant"	"-/5637"	"-/4332"	"-/1443"	""	""	""	"1"	NA	1	"CECR2"	"HGNC"	1840	"protein_coding"	"YES"	""	"ENSP00000262608"	"Q9BXF3"	""	"UPI0001AE62C8"	"NM_031413.3"	""	""	""	"8/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"766480dc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"16767"	"SEPT5"	5413	"mskcc.org"	"GRCh37"	"22"	19712892	19712892	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000455784"	""	46	"42"	4	48	"48"	0	"SEPT5,downstream_gene_variant,,ENST00000438754,NM_001009939.2;SEPT5,downstream_gene_variant,,ENST00000455784,NM_002688.5;SEPT5,downstream_gene_variant,,ENST00000406395,;SEPT5,downstream_gene_variant,,ENST00000383045,;GP1BB,downstream_gene_variant,,ENST00000366425,NM_000407.4;SEPT5,downstream_gene_variant,,ENST00000412544,;SEPT5,downstream_gene_variant,,ENST00000431124,;SEPT5,downstream_gene_variant,,ENST00000395109,;SEPT5,downstream_gene_variant,,ENST00000413258,;SEPT5,downstream_gene_variant,,ENST00000455843,;SEPT5,downstream_gene_variant,,ENST00000431044,;SEPT5,downstream_gene_variant,,ENST00000470814,;SEPT5,downstream_gene_variant,,ENST00000406172,;SEPT5,downstream_gene_variant,,ENST00000480423,;"	"C"	"ENSG00000184702"	"ENST00000455784"	"Transcript"	"downstream_gene_variant"	"-/2070"	"-/1110"	"-/369"	""	""	""	"1"	"2050"	1	"SEPT5"	"HGNC"	9164	"protein_coding"	"YES"	"CCDS13764.1"	"ENSP00000391311"	"Q99719"	"F8W9E5,C9JM82,B4DJ62"	"UPI000000127F"	"NM_002688.5"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"76654ed6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	TRUE
"16768"	"TXNRD2"	10587	"mskcc.org"	"GRCh37"	"22"	19874878	19874878	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.950-3894C>T"	""	""	"ENST00000400521"	""	73	"66"	7	61	"61"	0	"TXNRD2,intron_variant,,ENST00000400519,;TXNRD2,intron_variant,,ENST00000535882,;TXNRD2,intron_variant,,ENST00000400518,;TXNRD2,intron_variant,,ENST00000400521,NM_006440.3;TXNRD2,intron_variant,,ENST00000542719,;TXNRD2,intron_variant,,ENST00000474308,;TXNRD2,intron_variant,,ENST00000494454,;TXNRD2,intron_variant,,ENST00000400525,;TXNRD2,upstream_gene_variant,,ENST00000487165,;AC000078.5,non_coding_transcript_exon_variant,,ENST00000420617,;"	"A"	"ENSG00000184470"	"ENST00000400521"	"Transcript"	"intron_variant"	"-/1933"	"-/1575"	"-/524"	""	""	""	"1"	NA	-1	"TXNRD2"	"HGNC"	18155	"protein_coding"	"YES"	"CCDS42981.1"	"ENSP00000383365"	"Q9NNW7"	""	"UPI0000167BDD"	"NM_006440.3"	""	""	""	"11/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"76655430-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"16769"	"AC002472.13"	400891	"mskcc.org"	"GRCh37"	"22"	21408841	21408841	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.849-546G>T"	""	""	"ENST00000342608"	""	47	"41"	6	49	"49"	0	"AC002472.13,intron_variant,,ENST00000342608,;AC002472.13,intron_variant,,ENST00000543388,;AC002472.13,intron_variant,,ENST00000442047,;AC002472.13,intron_variant,,ENST00000497328,;AC002472.13,intron_variant,,ENST00000473769,;AC002472.13,upstream_gene_variant,,ENST00000469766,;"	"T"	"ENSG00000187905"	"ENST00000342608"	"Transcript"	"intron_variant"	"-/3693"	"-/1176"	"-/391"	""	""	""	"1"	NA	1	"AC002472.13"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000341179"	"Q6ZQY2"	""	"UPI0001642928"	""	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7665bdc6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127659574468085	"WGS"	FALSE
"16770"	"MAPK1"	5594	"mskcc.org"	"GRCh37"	"22"	22143541	22143541	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.610-444G>A"	""	""	"ENST00000215832"	""	40	"35"	5	33	"33"	0	"MAPK1,intron_variant,,ENST00000215832,NM_002745.4;MAPK1,intron_variant,,ENST00000398822,NM_138957.2;MAPK1,intron_variant,,ENST00000544786,;RNA5SP493,upstream_gene_variant,,ENST00000364115,;"	"T"	"ENSG00000100030"	"ENST00000215832"	"Transcript"	"intron_variant"	"-/11022"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"MAPK1"	"HGNC"	6871	"protein_coding"	"YES"	"CCDS13795.1"	"ENSP00000215832"	"P28482"	"Q1HBJ4,B4DHN0"	"UPI000000104F"	"NM_002745.4"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"76662388-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"16771"	"MAPK1"	5594	"mskcc.org"	"GRCh37"	"22"	22207012	22207012	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.119+14600G>A"	""	""	"ENST00000215832"	""	52	"46"	6	35	"35"	0	"MAPK1,intron_variant,,ENST00000215832,NM_002745.4;MAPK1,intron_variant,,ENST00000398822,NM_138957.2;MAPK1,intron_variant,,ENST00000544786,;"	"T"	"ENSG00000100030"	"ENST00000215832"	"Transcript"	"intron_variant"	"-/11022"	"-/1083"	"-/360"	""	""	""	"1"	NA	-1	"MAPK1"	"HGNC"	6871	"protein_coding"	"YES"	"CCDS13795.1"	"ENSP00000215832"	"P28482"	"Q1HBJ4,B4DHN0"	"UPI000000104F"	"NM_002745.4"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"766625cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"16772"	"ZNF280B"	140883	"mskcc.org"	"GRCh37"	"22"	22837554	22837554	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000360412"	""	68	"53"	15	56	"56"	0	"ZNF280B,downstream_gene_variant,,ENST00000360412,NM_080764.2;ZNF280B,downstream_gene_variant,,ENST00000406426,;"	"T"	"ENSG00000198477"	"ENST00000360412"	"Transcript"	"downstream_gene_variant"	"-/5726"	"-/1632"	"-/543"	""	""	""	"1"	"1220"	-1	"ZNF280B"	"HGNC"	23022	"protein_coding"	"YES"	"CCDS13799.1"	"ENSP00000353586"	"Q86YH2"	""	"UPI000013FF86"	"NM_080764.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"76664cbe-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220588235294118	"WGS"	FALSE
"16773"	"RP1-90L6.3"	0	"mskcc.org"	"GRCh37"	"22"	27294882	27294882	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000438113"	""	86	"78"	8	72	"72"	0	"RP1-90L6.3,upstream_gene_variant,,ENST00000438113,;RP1-90L6.3,upstream_gene_variant,,ENST00000447149,;"	"G"	"ENSG00000235271"	"ENST00000438113"	"Transcript"	"upstream_gene_variant"	"-/517"	""	""	""	""	""	"1"	"4421"	1	"RP1-90L6.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76670c30-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0930232558139535	"WGS"	FALSE
"16774"	"ENSR00001731555"	0	"mskcc.org"	"GRCh37"	"22"	27789836	27789836	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001731555"	""	85	"66"	19	61	"61"	0	""	"T"	""	"ENSR00001731555"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"76672e68-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223529411764706	"WGS"	FALSE
"16775"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	28133238	28133238	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"83"	9	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76674092-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0978260869565217	"WGS"	FALSE
"16776"	"NIPSNAP1"	8508	"mskcc.org"	"GRCh37"	"22"	29973778	29973778	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.98+3196C>T"	""	""	"ENST00000216121"	""	44	"39"	5	43	"43"	0	"NIPSNAP1,intron_variant,,ENST00000216121,NM_001202502.1,NM_003634.3;NIPSNAP1,intron_variant,,ENST00000415100,;NIPSNAP1,intron_variant,,ENST00000437094,;NIPSNAP1,downstream_gene_variant,,ENST00000494966,;NIPSNAP1,intron_variant,,ENST00000455496,;NIPSNAP1,intron_variant,,ENST00000496944,;"	"A"	"ENSG00000184117"	"ENST00000216121"	"Transcript"	"intron_variant"	"-/2237"	"-/855"	"-/284"	""	""	""	"1"	NA	-1	"NIPSNAP1"	"HGNC"	7827	"protein_coding"	"YES"	"CCDS13860.1"	"ENSP00000216121"	"Q9BPW8"	"C9JDV8"	"UPI00001303FF"	"NM_001202502.1,NM_003634.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"766775c6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WGS"	FALSE
"16777"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	36458603	36458603	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"41"	6	40	"40"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"7668460e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127659574468085	"WGS"	FALSE
"16778"	"CYTH4"	27128	"mskcc.org"	"GRCh37"	"22"	37678004	37678004	"+"	"5'Flank"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000248901"	""	73	"57"	16	56	"56"	0	"CYTH4,upstream_gene_variant,,ENST00000248901,NM_013385.3;CYTH4,upstream_gene_variant,,ENST00000457992,;CYTH4,upstream_gene_variant,,ENST00000405206,;CYTH4,upstream_gene_variant,,ENST00000402997,;CYTH4,upstream_gene_variant,,ENST00000439667,;CYTH4,upstream_gene_variant,,ENST00000462927,;CYTH4,upstream_gene_variant,,ENST00000469886,;CYTH4,upstream_gene_variant,,ENST00000480510,;"	"C"	"ENSG00000100055"	"ENST00000248901"	"Transcript"	"upstream_gene_variant"	"-/3202"	"-/1185"	"-/394"	""	""	""	"1"	"420"	1	"CYTH4"	"HGNC"	9505	"protein_coding"	"YES"	"CCDS13946.1"	"ENSP00000248901"	"Q9UIA0"	"Q8WWE8,B4E2V8,B1AHH4"	"UPI000000D99D"	"NM_013385.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"7668838a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219178082191781	"WGS"	FALSE
"16779"	"GRAP2"	9402	"mskcc.org"	"GRCh37"	"22"	40355068	40355068	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs542389732"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.171-991G>A"	""	""	"ENST00000344138"	""	77	"58"	19	44	"44"	0	"GRAP2,intron_variant,,ENST00000344138,NM_004810.2;GRAP2,intron_variant,,ENST00000544756,;GRAP2,intron_variant,,ENST00000407075,;GRAP2,intron_variant,,ENST00000540310,;GRAP2,intron_variant,,ENST00000543252,;GRAP2,intron_variant,,ENST00000399090,;GRAP2,intron_variant,,ENST00000420971,;RP3-370M22.8,upstream_gene_variant,,ENST00000424496,;GRAP2,intron_variant,,ENST00000478445,;"	"A"	"ENSG00000100351"	"ENST00000344138"	"Transcript"	"intron_variant"	"-/3893"	"-/993"	"-/330"	""	""	"rs542389732"	"1"	NA	1	"GRAP2"	"HGNC"	4563	"protein_coding"	"YES"	"CCDS13999.1"	"ENSP00000339186"	"O75791"	"Q6FI14,B7Z8E3,B1AH86"	"UPI000012BB02"	"NM_004810.2"	""	""	""	"3/7"	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7668e55a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246753246753247	"WGS"	FALSE
"16780"	"GRAP2"	9402	"mskcc.org"	"GRCh37"	"22"	40367760	40367760	"+"	"3'UTR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*672G>C"	""	""	"ENST00000344138"	"8/8"	85	"67"	18	44	"44"	0	"GRAP2,3_prime_UTR_variant,,ENST00000344138,NM_004810.2;GRAP2,downstream_gene_variant,,ENST00000544756,;GRAP2,downstream_gene_variant,,ENST00000407075,;GRAP2,downstream_gene_variant,,ENST00000540310,;GRAP2,downstream_gene_variant,,ENST00000543252,;GRAP2,downstream_gene_variant,,ENST00000399090,;GRAP2,downstream_gene_variant,,ENST00000481263,;GRAP2,downstream_gene_variant,,ENST00000460449,;"	"C"	"ENSG00000100351"	"ENST00000344138"	"Transcript"	"3_prime_UTR_variant"	"1928/3893"	"-/993"	"-/330"	""	""	""	"1"	NA	1	"GRAP2"	"HGNC"	4563	"protein_coding"	"YES"	"CCDS13999.1"	"ENSP00000339186"	"O75791"	"Q6FI14,B7Z8E3,B1AH86"	"UPI000012BB02"	"NM_004810.2"	""	""	"8/8"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7668e5b4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211764705882353	"WGS"	FALSE
"16781"	"XPNPEP3"	63929	"mskcc.org"	"GRCh37"	"22"	41326187	41326187	"+"	"3'UTR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*3748G>A"	""	""	"ENST00000357137"	"10/10"	62	"56"	6	30	"30"	0	"XPNPEP3,3_prime_UTR_variant,,ENST00000357137,NM_022098.3;XPNPEP3,intron_variant,,ENST00000544094,;XPNPEP3,downstream_gene_variant,,ENST00000428799,;"	"A"	"ENSG00000196236"	"ENST00000357137"	"Transcript"	"3_prime_UTR_variant"	"5356/7988"	"-/1524"	"-/507"	""	""	""	"1"	NA	1	"XPNPEP3"	"HGNC"	28052	"protein_coding"	"YES"	"CCDS14007.1"	"ENSP00000349658"	"Q9NQH7"	"B7ZBB4"	"UPI00000401E0"	"NM_022098.3"	""	""	"10/10"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGC"	"7669081e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"16782"	"TCF20"	6942	"mskcc.org"	"GRCh37"	"22"	42598988	42598988	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5655+6669C>T"	""	""	"ENST00000359486"	""	81	"68"	13	46	"46"	0	"TCF20,intron_variant,,ENST00000359486,NM_005650.2;TCF20,intron_variant,,ENST00000335626,NM_181492.2;TCF20,intron_variant,,ENST00000404876,;"	"A"	"ENSG00000100207"	"ENST00000359486"	"Transcript"	"intron_variant"	"-/7410"	"-/5883"	"-/1960"	""	""	""	"1"	NA	-1	"TCF20"	"HGNC"	11631	"protein_coding"	"YES"	"CCDS14033.1"	"ENSP00000352463"	"Q9UGU0"	"I3L1M7"	"UPI00001A95D9"	"NM_005650.2"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"766932b2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.160493827160494	"WGS"	FALSE
"16783"	"SERHL2"	253190	"mskcc.org"	"GRCh37"	"22"	42956600	42956600	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.613+329G>A"	""	""	"ENST00000327678"	""	72	"64"	8	53	"53"	0	"SERHL2,intron_variant,,ENST00000327678,NM_014509.3;SERHL2,intron_variant,,ENST00000340239,;SERHL2,intron_variant,,ENST00000335879,NM_001284334.1;SERHL2,intron_variant,,ENST00000407614,;SERHL2,downstream_gene_variant,,ENST00000447870,;RN7SKP80,downstream_gene_variant,,ENST00000365188,;RRP7B,intron_variant,,ENST00000357802,;SERHL2,intron_variant,,ENST00000477564,;SERHL2,intron_variant,,ENST00000527167,;SERHL2,intron_variant,,ENST00000416156,;SERHL2,intron_variant,,ENST00000534080,;SERHL2,downstream_gene_variant,,ENST00000472589,;"	"A"	"ENSG00000183569"	"ENST00000327678"	"Transcript"	"intron_variant"	"-/1374"	"-/945"	"-/314"	""	""	""	"1"	NA	1	"SERHL2"	"HGNC"	29446	"protein_coding"	"YES"	"CCDS14037.1"	"ENSP00000331376"	"Q9H4I8"	"E9PMQ2"	"UPI0000135810"	"NM_014509.3"	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"76693f46-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"16784"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	43134524	43134524	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	34	"30"	4	38	"38"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"766944fa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"16785"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	44953186	44953186	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs139639301"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	53	"43"	10	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139639301"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0074"	"T:0.0272"	"T:0"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7669b1e2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188679245283019	"WGS"	FALSE
"16786"	"PRR5"	55615	"mskcc.org"	"GRCh37"	"22"	45080686	45080686	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.86+4921C>G"	""	""	"ENST00000403581"	""	70	"52"	18	50	"50"	0	"PRR5,intron_variant,,ENST00000403581,NM_001198721.1;PRR5,intron_variant,,ENST00000006251,NM_015366.3,NM_001017530.1;PRR5,intron_variant,,ENST00000432186,NM_001017528.2;PRR5,intron_variant,,ENST00000492475,;PRR5,intron_variant,,ENST00000492289,;PRR5,intron_variant,,ENST00000459857,;"	"G"	"ENSG00000186654"	"ENST00000403581"	"Transcript"	"intron_variant"	"-/2279"	"-/1236"	"-/411"	""	""	""	"1"	NA	1	"PRR5"	"HGNC"	31682	"protein_coding"	"YES"	"CCDS56232.1"	"ENSP00000384848"	"P85299"	"B1AHG4,B1AHG3"	"UPI00002327F8"	"NM_001198721.1"	""	""	""	"2/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7669bbf6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257142857142857	"WGS"	FALSE
"16787"	"CELSR1"	9620	"mskcc.org"	"GRCh37"	"22"	46918663	46918663	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3544+10861G>A"	""	""	"ENST00000262738"	""	75	"60"	15	48	"48"	0	"CELSR1,intron_variant,,ENST00000262738,NM_014246.1;CELSR1,intron_variant,,ENST00000395964,;CELSR1,intron_variant,,ENST00000454637,;"	"T"	"ENSG00000075275"	"ENST00000262738"	"Transcript"	"intron_variant"	"-/11389"	"-/9045"	"-/3014"	""	""	""	"1"	NA	-1	"CELSR1"	"HGNC"	1850	"protein_coding"	"YES"	"CCDS14076.1"	"ENSP00000262738"	"Q9NYQ6"	"Q8NDT0"	"UPI0000040648"	"NM_014246.1"	""	""	""	"1/34"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCC"	"766a125e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16788"	"TBC1D22A"	25771	"mskcc.org"	"GRCh37"	"22"	47337177	47337177	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1015+29093A>G"	""	""	"ENST00000337137"	""	113	"106"	7	57	"57"	0	"TBC1D22A,intron_variant,,ENST00000337137,NM_014346.2,NM_001284304.1;TBC1D22A,intron_variant,,ENST00000406733,NM_001284305.1;TBC1D22A,intron_variant,,ENST00000407381,;TBC1D22A,intron_variant,,ENST00000355704,NM_001284303.1;TBC1D22A,intron_variant,,ENST00000441162,;TBC1D22A,intron_variant,,ENST00000394449,;"	"G"	"ENSG00000054611"	"ENST00000337137"	"Transcript"	"intron_variant"	"-/3787"	"-/1554"	"-/517"	""	""	""	"1"	NA	1	"TBC1D22A"	"HGNC"	1309	"protein_coding"	"YES"	"CCDS14078.1"	"ENSP00000336724"	"Q8WUA7"	"B9A6M3,B0QYI3"	"UPI0000128722"	"NM_014346.2,NM_001284304.1"	""	""	""	"8/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"766a3626-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0619469026548673	"WGS"	FALSE
"16789"	"C22orf34"	0	"mskcc.org"	"GRCh37"	"22"	49983844	49983844	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55+67209C>T"	""	""	"ENST00000414287"	""	85	"65"	20	63	"63"	0	"C22orf34,intron_variant,,ENST00000414287,;C22orf34,intron_variant,,ENST00000416411,;"	"A"	"ENSG00000188511"	"ENST00000414287"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/2194"	"-/180"	"-/59"	""	""	""	"1"	NA	-1	"C22orf34"	"HGNC"	28010	"nonsense_mediated_decay"	""	""	"ENSP00000394865"	""	"F2Z342"	"UPI00004105EF"	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"766b0c18-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"16790"	"ZBED4"	9889	"mskcc.org"	"GRCh37"	"22"	50274447	50274447	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-329-2535T>C"	""	""	"ENST00000216268"	""	68	"52"	16	49	"49"	0	"ZBED4,intron_variant,,ENST00000216268,NM_014838.2;"	"C"	"ENSG00000100426"	"ENST00000216268"	"Transcript"	"intron_variant"	"-/6893"	"-/3516"	"-/1171"	""	""	""	"1"	NA	1	"ZBED4"	"HGNC"	20721	"protein_coding"	"YES"	"CCDS33677.1"	"ENSP00000216268"	"O75132"	""	"UPI000013C6DB"	"NM_014838.2"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"766b2c2a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"16791"	"MOV10L1"	54456	"mskcc.org"	"GRCh37"	"22"	50526731	50526731	"+"	"5'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000262794"	""	46	"32"	14	39	"39"	0	"MOV10L1,upstream_gene_variant,,ENST00000262794,NM_018995.2;MOV10L1,upstream_gene_variant,,ENST00000540615,NM_001164105.1;MLC1,upstream_gene_variant,,ENST00000311597,NM_015166.3;MOV10L1,upstream_gene_variant,,ENST00000545383,;MOV10L1,upstream_gene_variant,,ENST00000395858,NM_001164104.1;MLC1,upstream_gene_variant,,ENST00000395876,NM_139202.2;MOV10L1,upstream_gene_variant,,ENST00000395843,;MLC1,upstream_gene_variant,,ENST00000538737,;MLC1,upstream_gene_variant,,ENST00000431262,;MLC1,upstream_gene_variant,,ENST00000535444,;MLC1,upstream_gene_variant,,ENST00000450140,;MLC1,upstream_gene_variant,,ENST00000442311,;MOV10L1,upstream_gene_variant,,ENST00000475190,;MOV10L1,upstream_gene_variant,,ENST00000419054,;MOV10L1,upstream_gene_variant,,ENST00000395854,;"	"T"	"ENSG00000073146"	"ENST00000262794"	"Transcript"	"upstream_gene_variant"	"-/3960"	"-/3636"	"-/1211"	""	""	""	"1"	"1704"	1	"MOV10L1"	"HGNC"	7201	"protein_coding"	"YES"	"CCDS14084.1"	"ENSP00000262794"	"Q9BXT6"	""	"UPI00000421FB"	"NM_018995.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"766b3e86-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.304347826086957	"WGS"	FALSE
"16792"	"AC002056.3"	0	"mskcc.org"	"GRCh37"	"22"	51195263	51195263	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"rs528641977"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000514936"	""	73	"68"	5	49	"49"	0	"RPL23AP82,upstream_gene_variant,,ENST00000496652,;AC002056.3,upstream_gene_variant,,ENST00000514936,;AC002056.3,upstream_gene_variant,,ENST00000395613,;"	"G"	"ENSG00000213683"	"ENST00000514936"	"Transcript"	"upstream_gene_variant"	"-/762"	""	""	""	""	"rs528641977"	"1"	"1402"	-1	"AC002056.3"	"Clone_based_vega_gene"	NA	"pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	"G:0.0002"	"G:0.0008"	"G:0"	NA	"G:0"	"G:0"	"G:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"766b8116-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0684931506849315	"WGS"	FALSE
"16793"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	1027898	1027898	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"91"	15	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"766be4d0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141509433962264	"WGS"	FALSE
"16794"	"CNTN4"	152330	"mskcc.org"	"GRCh37"	"3"	2565670	2565670	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs185817989"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-88-47430G>A"	""	""	"ENST00000397461"	""	113	"79"	34	67	"67"	0	"CNTN4,intron_variant,,ENST00000397461,NM_001206955.1;CNTN4,intron_variant,,ENST00000418658,NM_175607.2;CNTN4,intron_variant,,ENST00000422330,;CNTN4,intron_variant,,ENST00000455083,;CNTN4,intron_variant,,ENST00000434053,;CNTN4,intron_variant,,ENST00000427741,;CNTN4,intron_variant,,ENST00000430505,;CNTN4,intron_variant,,ENST00000438282,;"	"A"	"ENSG00000144619"	"ENST00000397461"	"Transcript"	"intron_variant"	"-/5198"	"-/3081"	"-/1026"	""	""	"rs185817989"	"1"	NA	1	"CNTN4"	"HGNC"	2174	"protein_coding"	"YES"	"CCDS43041.1"	"ENSP00000380602"	"Q8IWV2"	"G3XAD4,C9JMQ2,C9JGK9"	"UPI000007446C"	"NM_001206955.1"	""	""	""	"2/23"	""	"A:0.0006"	"A:0.0023"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"766c19d2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.300884955752212	"WGS"	FALSE
"16795"	"SUMF1"	285362	"mskcc.org"	"GRCh37"	"3"	4415005	4415005	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1014+3009G>A"	""	""	"ENST00000272902"	""	94	"83"	11	60	"60"	0	"SUMF1,intron_variant,,ENST00000272902,NM_182760.3;SUMF1,intron_variant,,ENST00000383843,NM_001164674.1;SUMF1,intron_variant,,ENST00000534863,;SUMF1,intron_variant,,ENST00000405420,NM_001164675.1;SUMF1,intron_variant,,ENST00000458465,;SUMF1,intron_variant,,ENST00000448413,;"	"T"	"ENSG00000144455"	"ENST00000272902"	"Transcript"	"intron_variant"	"-/2159"	"-/1125"	"-/374"	""	""	""	"1"	NA	-1	"SUMF1"	"HGNC"	20376	"protein_coding"	"YES"	"CCDS2564.1"	"ENSP00000272902"	"Q8NBK3"	""	"UPI0000040734"	"NM_182760.3"	""	""	""	"8/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"766c52ee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117021276595745	"WGS"	FALSE
"16796"	"RAD18"	56852	"mskcc.org"	"GRCh37"	"3"	8852651	8852651	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.295-35301A>T"	""	""	"ENST00000427329"	""	81	"63"	18	72	"72"	0	"RAD18,intron_variant,,ENST00000427329,;CAV3,intron_variant,,ENST00000472766,;"	"A"	"ENSG00000070950"	"ENST00000427329"	"Transcript"	"intron_variant"	"-/557"	"-/396"	"-/131"	""	""	""	"1"	NA	-1	"RAD18"	"HGNC"	18278	"protein_coding"	""	""	"ENSP00000412054"	""	"H7C0A5"	"UPI000198C8EC"	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"766cea10-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"16797"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	11028360	11028360	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"74"	21	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"766d2994-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221052631578947	"WGS"	FALSE
"16798"	"HRH1"	3269	"mskcc.org"	"GRCh37"	"3"	11180520	11180520	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-36+1435C>A"	""	""	"ENST00000438284"	""	63	"47"	16	51	"51"	0	"HRH1,intron_variant,,ENST00000438284,;"	"A"	"ENSG00000196639"	"ENST00000438284"	"Transcript"	"intron_variant"	"-/2080"	"-/1464"	"-/487"	""	""	""	"1"	NA	1	"HRH1"	"HGNC"	5182	"protein_coding"	""	"CCDS2604.1"	"ENSP00000406705"	"P35367"	""	"UPI0000050401"	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"766d2c8c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253968253968254	"WGS"	FALSE
"16799"	"ATG7"	10533	"mskcc.org"	"GRCh37"	"3"	11589804	11589804	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2080-6481T>A"	""	""	"ENST00000354449"	""	97	"92"	5	63	"63"	0	"ATG7,intron_variant,,ENST00000354449,NM_006395.2;ATG7,intron_variant,,ENST00000354956,NM_001136031.2;ATG7,intron_variant,,ENST00000446450,NM_001144912.1;"	"A"	"ENSG00000197548"	"ENST00000354449"	"Transcript"	"intron_variant"	"-/4959"	"-/2112"	"-/703"	""	""	""	"1"	NA	1	"ATG7"	"HGNC"	16935	"protein_coding"	"YES"	"CCDS2605.1"	"ENSP00000346437"	"O95352"	"H7C059,C9JNU2,C9JKA3,C9JGL2,C9JFF4,C9JE55"	"UPI00000705C7"	"NM_006395.2"	""	""	""	"18/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"766d3916-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0515463917525773	"WGS"	FALSE
"16800"	"SYN2"	0	"mskcc.org"	"GRCh37"	"3"	12187403	12187403	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.856+68C>A"	""	""	"ENST00000432424"	""	100	"75"	25	60	"60"	0	"SYN2,intron_variant,,ENST00000432424,;SYN2,intron_variant,,ENST00000426379,;SYN2,intron_variant,,ENST00000424884,;SYN2,upstream_gene_variant,,ENST00000439861,;"	"A"	"ENSG00000157152"	"ENST00000432424"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3897"	""	""	""	""	""	"1"	NA	1	"SYN2"	"HGNC"	11495	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"766d4c30-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"16801"	"HDAC11"	79885	"mskcc.org"	"GRCh37"	"3"	13543216	13543216	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs753442985"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.490-155G>A"	""	""	"ENST00000295757"	""	57	"50"	7	59	"59"	0	"HDAC11,intron_variant,,ENST00000295757,NM_024827.3;HDAC11,intron_variant,,ENST00000437379,;HDAC11,intron_variant,,ENST00000433119,;HDAC11,intron_variant,,ENST00000522202,NM_001136041.2;HDAC11,intron_variant,,ENST00000446613,;HDAC11,intron_variant,,ENST00000402271,;HDAC11,intron_variant,,ENST00000402259,;HDAC11,intron_variant,,ENST00000404040,;HDAC11,intron_variant,,ENST00000405478,;HDAC11,intron_variant,,ENST00000455904,;HDAC11,intron_variant,,ENST00000404548,;HDAC11,intron_variant,,ENST00000405025,;HDAC11,intron_variant,,ENST00000434848,;HDAC11,downstream_gene_variant,,ENST00000416248,;HDAC11,downstream_gene_variant,,ENST00000418189,;HDAC11,downstream_gene_variant,,ENST00000458642,;HDAC11,intron_variant,,ENST00000495099,;HDAC11,intron_variant,,ENST00000475818,;HDAC11,intron_variant,,ENST00000425430,;HDAC11,intron_variant,,ENST00000487585,;HDAC11,intron_variant,,ENST00000498532,;"	"A"	"ENSG00000163517"	"ENST00000295757"	"Transcript"	"intron_variant"	"-/2960"	"-/1044"	"-/347"	""	""	"rs753442985"	"1"	NA	1	"HDAC11"	"HGNC"	19086	"protein_coding"	"YES"	"CCDS2615.1"	"ENSP00000295757"	"Q96DB2"	"Q6IA14,F5H6R5,E7ETT9,C9JMH0,C9JEC8,B5MCV5"	"UPI000012C3A7"	"NM_024827.3"	""	""	""	"6/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"766d732c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12280701754386	"WGS"	FALSE
"16802"	"C3orf20"	84077	"mskcc.org"	"GRCh37"	"3"	14762201	14762201	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1435-959C>T"	""	""	"ENST00000253697"	""	88	"67"	21	43	"43"	0	"C3orf20,intron_variant,,ENST00000253697,NM_032137.4;C3orf20,intron_variant,,ENST00000435614,NM_001184958.1;C3orf20,intron_variant,,ENST00000412910,NM_001184957.1;C3orf20,intron_variant,,ENST00000495387,;"	"T"	"ENSG00000131379"	"ENST00000253697"	"Transcript"	"intron_variant"	"-/3326"	"-/2715"	"-/904"	""	""	""	"1"	NA	1	"C3orf20"	"HGNC"	25320	"protein_coding"	"YES"	"CCDS33706.1"	"ENSP00000253697"	"Q8ND61"	""	"UPI000013CDE9"	"NM_032137.4"	""	""	""	"9/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"766d99ec-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238636363636364	"WGS"	FALSE
"16803"	"DAZL"	1618	"mskcc.org"	"GRCh37"	"3"	16631773	16631773	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.895-1553G>A"	""	""	"ENST00000250863"	""	67	"62"	5	24	"24"	0	"DAZL,intron_variant,,ENST00000250863,NM_001190811.1;DAZL,intron_variant,,ENST00000399444,NM_001351.3;"	"T"	"ENSG00000092345"	"ENST00000250863"	"Transcript"	"intron_variant"	"-/3104"	"-/948"	"-/315"	""	""	""	"1"	NA	-1	"DAZL"	"HGNC"	2685	"protein_coding"	"YES"	"CCDS54556.1"	"ENSP00000250863"	"Q92904"	""	"UPI0000412129"	"NM_001190811.1"	""	""	""	"10/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"766de2e4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0746268656716418	"WGS"	FALSE
"16804"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	20062183	20062183	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	55	"50"	5	49	"49"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"766e420c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"16805"	"ZNF385D"	79750	"mskcc.org"	"GRCh37"	"3"	21803821	21803821	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.466+87327G>T"	""	""	"ENST00000494118"	""	100	"95"	5	66	"66"	0	"ZNF385D,intron_variant,,ENST00000494118,;ZNF385D,intron_variant,,ENST00000494108,;ZNF385D,intron_variant,,ENST00000478967,;"	"A"	"ENSG00000151789"	"ENST00000494118"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1050"	""	""	""	""	""	"1"	NA	-1	"ZNF385D"	"HGNC"	26191	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"766e73da-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.05	"WGS"	FALSE
"16806"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	22865205	22865205	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"72"	22	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"766e9086-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234042553191489	"WGS"	FALSE
"16807"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	27723196	27723196	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"53"	19	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"766f0930-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263888888888889	"WGS"	FALSE
"16808"	"RBMS3"	27303	"mskcc.org"	"GRCh37"	"3"	29411513	29411513	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.76-64721C>T"	""	""	"ENST00000383767"	""	96	"67"	29	60	"60"	0	"RBMS3,intron_variant,,ENST00000434693,NM_001003793.2;RBMS3,intron_variant,,ENST00000396583,NM_001177711.1;RBMS3,intron_variant,,ENST00000383766,NM_001003792.2;RBMS3,intron_variant,,ENST00000383767,;RBMS3,intron_variant,,ENST00000273139,NM_014483.3;RBMS3,intron_variant,,ENST00000452462,;RBMS3,intron_variant,,ENST00000456853,NM_001177712.1;RBMS3,intron_variant,,ENST00000445033,;AC098650.1,upstream_gene_variant,,ENST00000401350,;RBMS3,intron_variant,,ENST00000471426,;"	"T"	"ENSG00000144642"	"ENST00000383767"	"Transcript"	"intron_variant"	"-/1864"	"-/1314"	"-/437"	""	""	""	"1"	NA	1	"RBMS3"	"HGNC"	13427	"protein_coding"	"YES"	"CCDS33724.1"	"ENSP00000373277"	"Q6XE24"	"C9J9B2"	"UPI000023FE75"	""	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"766f3374-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302083333333333	"WGS"	FALSE
"16809"	"RBMS3"	27303	"mskcc.org"	"GRCh37"	"3"	29523249	29523249	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.249-6683A>C"	""	""	"ENST00000383767"	""	109	"79"	30	49	"49"	0	"RBMS3,intron_variant,,ENST00000434693,NM_001003793.2;RBMS3,intron_variant,,ENST00000396583,NM_001177711.1;RBMS3,intron_variant,,ENST00000383766,NM_001003792.2;RBMS3,intron_variant,,ENST00000383767,;RBMS3,intron_variant,,ENST00000273139,NM_014483.3;RBMS3,intron_variant,,ENST00000452462,;RBMS3,intron_variant,,ENST00000456853,NM_001177712.1;RBMS3,intron_variant,,ENST00000445033,;RBMS3,intron_variant,,ENST00000497205,;"	"C"	"ENSG00000144642"	"ENST00000383767"	"Transcript"	"intron_variant"	"-/1864"	"-/1314"	"-/437"	""	""	""	"1"	NA	1	"RBMS3"	"HGNC"	13427	"protein_coding"	"YES"	"CCDS33724.1"	"ENSP00000373277"	"Q6XE24"	"C9J9B2"	"UPI000023FE75"	""	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"766f35cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275229357798165	"WGS"	FALSE
"16810"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	31149627	31149627	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"92"	15	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"766f609c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.14018691588785	"WGS"	FALSE
"16811"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	31162260	31162260	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"85"	13	67	"67"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"766f6132-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13265306122449	"WGS"	FALSE
"16812"	"CLASP2"	23122	"mskcc.org"	"GRCh37"	"3"	33694573	33694573	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.716-8178G>T"	""	""	"ENST00000468888"	""	93	"71"	22	65	"64"	1	"CLASP2,intron_variant,,ENST00000399362,NM_015097.2;CLASP2,intron_variant,,ENST00000307312,;CLASP2,intron_variant,,ENST00000359576,;CLASP2,intron_variant,,ENST00000468888,;CLASP2,intron_variant,,ENST00000480013,NM_001207044.1;CLASP2,intron_variant,,ENST00000461133,;CLASP2,intron_variant,,ENST00000496954,;CLASP2,intron_variant,,ENST00000482896,;CLASP2,intron_variant,,ENST00000498331,;CLASP2,intron_variant,,ENST00000486796,;"	"A"	"ENSG00000163539"	"ENST00000468888"	"Transcript"	"intron_variant"	"-/6978"	"-/4545"	"-/1514"	""	""	""	"1"	NA	-1	"CLASP2"	"HGNC"	17078	"protein_coding"	"YES"	""	"ENSP00000419974"	""	"Q6N029,Q07A20,E7EW49,B2RTR1"	"UPI0001B7944B"	""	""	""	""	"7/38"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"766fa638-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236559139784946	"WGS"	FALSE
"16813"	"AC018359.1"	101929859	"mskcc.org"	"GRCh37"	"3"	34360764	34360764	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.226+20353G>A"	""	""	"ENST00000424786"	""	86	"66"	20	70	"70"	0	"AC018359.1,intron_variant,,ENST00000424786,;AC018359.1,intron_variant,,ENST00000415991,;"	"A"	"ENSG00000226320"	"ENST00000424786"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/787"	""	""	""	""	""	"1"	NA	1	"AC018359.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"766fbbd2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232558139534884	"WGS"	FALSE
"16814"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	35291491	35291491	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"61"	27	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"766fd5f4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.306818181818182	"WGS"	FALSE
"16815"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	35846326	35846326	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	128	"99"	29	101	"101"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"766fe7d8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2265625	"WGS"	FALSE
"16816"	"SCN11A"	11280	"mskcc.org"	"GRCh37"	"3"	38940921	38940921	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2022+464T>C"	""	""	"ENST00000302328"	""	102	"79"	23	61	"61"	0	"SCN11A,intron_variant,,ENST00000302328,NM_014139.2,NM_001287223.1;SCN11A,intron_variant,,ENST00000450244,NM_001287223.1;SCN11A,intron_variant,,ENST00000444237,;SCN11A,intron_variant,,ENST00000456224,;"	"G"	"ENSG00000168356"	"ENST00000302328"	"Transcript"	"intron_variant"	"-/6500"	"-/5376"	"-/1791"	""	""	""	"1"	NA	-1	"SCN11A"	"HGNC"	10583	"protein_coding"	"YES"	"CCDS33737.1"	"ENSP00000307599"	"Q9UI33"	""	"UPI000006CCD7"	"NM_014139.2,NM_001287223.1"	""	""	""	"13/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAC"	"76704d68-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225490196078431	"WGS"	FALSE
"16817"	"SEC22C"	9117	"mskcc.org"	"GRCh37"	"3"	42613447	42613447	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-27-2882A>T"	""	""	"ENST00000264454"	""	88	"81"	7	49	"49"	0	"SEC22C,intron_variant,,ENST00000273156,NM_032970.3,NM_004206.3;SEC22C,intron_variant,,ENST00000417572,NM_001201572.1;SEC22C,intron_variant,,ENST00000423701,NM_001201584.1;SEC22C,intron_variant,,ENST00000536332,;SEC22C,intron_variant,,ENST00000264454,;SEC22C,intron_variant,,ENST00000456515,;SEC22C,intron_variant,,ENST00000450981,;SEC22C,intron_variant,,ENST00000420163,;SEC22C,intron_variant,,ENST00000416880,;SEC22C,intron_variant,,ENST00000493107,;SEC22C,intron_variant,,ENST00000456222,;SEC22C,intron_variant,,ENST00000449617,;SEC22C,intron_variant,,ENST00000445388,;SEC22C,intron_variant,,ENST00000454141,;SEC22C,intron_variant,,ENST00000383750,;"	"A"	"ENSG00000093183"	"ENST00000264454"	"Transcript"	"intron_variant"	"-/1380"	"-/912"	"-/303"	""	""	""	"1"	NA	-1	"SEC22C"	"HGNC"	16828	"protein_coding"	"YES"	"CCDS2700.1"	"ENSP00000264454"	"Q9BRL7"	"C9J9A4,C9J448,C9J2R1"	"UPI000006D0A7"	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"7670a984-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0795454545454545	"WGS"	FALSE
"16818"	"LIMD1"	8994	"mskcc.org"	"GRCh37"	"3"	45657599	45657599	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1408+19820C>G"	""	""	"ENST00000273317"	""	66	"51"	15	42	"42"	0	"LIMD1,intron_variant,,ENST00000273317,NM_014240.2;LIMD1,intron_variant,,ENST00000440097,;LIMD1,intron_variant,,ENST00000465039,;"	"G"	"ENSG00000144791"	"ENST00000273317"	"Transcript"	"intron_variant"	"-/11331"	"-/2031"	"-/676"	""	""	""	"1"	NA	1	"LIMD1"	"HGNC"	6612	"protein_coding"	"YES"	"CCDS2729.1"	"ENSP00000273317"	"Q9UGP4"	""	"UPI0000043C33"	"NM_014240.2"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7670f344-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"16819"	"PRSS50"	29122	"mskcc.org"	"GRCh37"	"3"	46813499	46813499	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1318-15380A>T"	""	""	"ENST00000460241"	""	49	"45"	4	41	"41"	0	"PRSS50,intron_variant,,ENST00000460241,;PRSS45,intron_variant,,ENST00000423292,;"	"A"	"ENSG00000206549"	"ENST00000460241"	"Transcript"	"intron_variant"	"-/2958"	"-/1158"	"-/385"	""	""	""	"1"	NA	-1	"PRSS50"	"HGNC"	17910	"protein_coding"	"YES"	"CCDS2745.1"	"ENSP00000418875"	"Q9UI38"	"B3KUP4"	"UPI0000037465"	""	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"76710b90-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0816326530612245	"WGS"	FALSE
"16820"	"PTH1R"	5745	"mskcc.org"	"GRCh37"	"3"	46921929	46921929	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000313049"	""	75	"69"	6	61	"61"	0	"PTH1R,intron_variant,,ENST00000449590,NM_000316.2;PTH1R,intron_variant,,ENST00000418619,;MYL3,intron_variant,,ENST00000431168,;PTH1R,upstream_gene_variant,,ENST00000313049,;PTH1R,upstream_gene_variant,,ENST00000430002,NM_001184744.1;PTH1R,upstream_gene_variant,,ENST00000427125,;PTH1R,upstream_gene_variant,,ENST00000428220,;"	"T"	"ENSG00000160801"	"ENST00000313049"	"Transcript"	"upstream_gene_variant"	"-/2123"	"-/1782"	"-/593"	""	""	""	"1"	"2918"	1	"PTH1R"	"HGNC"	9608	"protein_coding"	"YES"	"CCDS2747.1"	"ENSP00000321999"	"Q03431"	"Q71UK6,E7EWE7"	"UPI000005041F"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"76710eb0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.08	"WGS"	FALSE
"16821"	"DHX30"	22907	"mskcc.org"	"GRCh37"	"3"	47847687	47847687	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-28+777G>A"	""	""	"ENST00000445061"	""	38	"34"	4	32	"32"	0	"DHX30,intron_variant,,ENST00000446256,NM_014966.3;DHX30,intron_variant,,ENST00000445061,NM_138615.2;DHX30,intron_variant,,ENST00000348968,;DHX30,intron_variant,,ENST00000476446,;DHX30,intron_variant,,ENST00000492893,;DHX30,intron_variant,,ENST00000395745,;DHX30,intron_variant,,ENST00000441384,;DHX30,intron_variant,,ENST00000472718,;DHX30,intron_variant,,ENST00000415400,;"	"A"	"ENSG00000132153"	"ENST00000445061"	"Transcript"	"intron_variant"	"-/4065"	"-/3585"	"-/1194"	""	""	""	"1"	NA	1	"DHX30"	"HGNC"	16716	"protein_coding"	"YES"	"CCDS2759.1"	"ENSP00000405620"	"Q7L2E3"	"H7BXY3"	"UPI000007112B"	"NM_138615.2"	""	""	""	"2/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"76712422-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"16822"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	48942004	48942004	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	35	"30"	5	26	"26"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"767147ae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"16823"	"LSMEM2"	132228	"mskcc.org"	"GRCh37"	"3"	50320552	50320552	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.59-3350G>C"	""	""	"ENST00000316436"	""	54	"50"	4	38	"38"	0	"LSMEM2,intron_variant,,ENST00000316436,NM_153215.1;IFRD2,downstream_gene_variant,,ENST00000436390,;IFRD2,downstream_gene_variant,,ENST00000336089,;IFRD2,downstream_gene_variant,,ENST00000417626,NM_006764.4;IFRD2,downstream_gene_variant,,ENST00000429673,;IFRD2,downstream_gene_variant,,ENST00000426499,;IFRD2,downstream_gene_variant,,ENST00000474556,;"	"C"	"ENSG00000179564"	"ENST00000316436"	"Transcript"	"intron_variant"	"-/1494"	"-/495"	"-/164"	""	""	""	"1"	NA	1	"LSMEM2"	"HGNC"	26781	"protein_coding"	"YES"	"CCDS2814.1"	"ENSP00000315081"	"Q8N112"	""	"UPI000006DE81"	"NM_153215.1"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"7671776a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"16824"	"SELK"	58515	"mskcc.org"	"GRCh37"	"3"	53930980	53930980	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000495461"	""	94	"59"	35	39	"39"	0	"SELK,upstream_gene_variant,,ENST00000495461,;SELK,upstream_gene_variant,,ENST00000541726,NM_021237.3;"	"A"	"ENSG00000113811"	"ENST00000495461"	"Transcript"	"upstream_gene_variant"	"-/1633"	"-/285"	"-/94"	""	""	""	"1"	"4965"	-1	"SELK"	"Uniprot_gn"	NA	"protein_coding"	"YES"	"CCDS54597.1"	"ENSP00000418813"	"Q9Y6D0"	"A8K0M9"	"UPI0000163E13"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7671cd0a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.372340425531915	"WGS"	FALSE
"16825"	"ERC2"	26059	"mskcc.org"	"GRCh37"	"3"	56437115	56437115	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.657+31264A>G"	""	""	"ENST00000288221"	""	84	"65"	19	64	"64"	0	"ERC2,intron_variant,,ENST00000288221,NM_015576.1;ERC2,intron_variant,,ENST00000460849,;"	"C"	"ENSG00000187672"	"ENST00000288221"	"Transcript"	"intron_variant"	"-/6138"	"-/2874"	"-/957"	""	""	""	"1"	NA	-1	"ERC2"	"HGNC"	31922	"protein_coding"	"YES"	"CCDS46851.1"	"ENSP00000288221"	"O15083"	""	"UPI00001C1572"	"NM_015576.1"	""	""	""	"2/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"767211ac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226190476190476	"WGS"	FALSE
"16826"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	56509925	56509925	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"70"	24	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"7672130a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25531914893617	"WGS"	FALSE
"16827"	"DENND6A"	201627	"mskcc.org"	"GRCh37"	"3"	57655282	57655282	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.319+2701T>G"	""	""	"ENST00000311128"	""	50	"44"	6	38	"38"	0	"DENND6A,intron_variant,,ENST00000311128,NM_152678.2;DENND6A,intron_variant,,ENST00000464875,;DENND6A,upstream_gene_variant,,ENST00000487662,;"	"C"	"ENSG00000174839"	"ENST00000311128"	"Transcript"	"intron_variant"	"-/4655"	"-/1827"	"-/608"	""	""	""	"1"	NA	-1	"DENND6A"	"HGNC"	26635	"protein_coding"	"YES"	"CCDS33773.1"	"ENSP00000311401"	"Q8IWF6"	""	"UPI00000744F6"	"NM_152678.2"	""	""	""	"3/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"76723286-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"16828"	"SLMAP"	7871	"mskcc.org"	"GRCh37"	"3"	57853097	57853097	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1135+2654G>T"	""	""	"ENST00000295951"	""	85	"69"	16	54	"54"	0	"SLMAP,intron_variant,,ENST00000383718,;SLMAP,intron_variant,,ENST00000295951,;SLMAP,intron_variant,,ENST00000295952,NM_007159.2;SLMAP,intron_variant,,ENST00000428312,;SLMAP,intron_variant,,ENST00000449503,;SLMAP,intron_variant,,ENST00000416870,;SLMAP,intron_variant,,ENST00000416658,;SLMAP,intron_variant,,ENST00000465203,;SLMAP,intron_variant,,ENST00000475055,;SLMAP,intron_variant,,ENST00000467901,;"	"T"	"ENSG00000163681"	"ENST00000295951"	"Transcript"	"intron_variant"	"-/5433"	"-/2436"	"-/811"	""	""	""	"1"	NA	1	"SLMAP"	"HGNC"	16643	"protein_coding"	"YES"	"CCDS33774.1"	"ENSP00000295951"	"Q14BN4"	"C9JA20,B7Z964"	"UPI000022C0E3"	""	""	""	""	"11/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGT"	"76723948-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188235294117647	"WGS"	FALSE
"16829"	"FLNB"	2317	"mskcc.org"	"GRCh37"	"3"	58041017	58041017	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.293-21756G>T"	""	""	"ENST00000490882"	""	78	"53"	25	44	"44"	0	"FLNB,intron_variant,,ENST00000357272,;FLNB,intron_variant,,ENST00000295956,NM_001457.3;FLNB,intron_variant,,ENST00000429972,NM_001164318.1;FLNB,intron_variant,,ENST00000358537,NM_001164319.1;FLNB,intron_variant,,ENST00000348383,;FLNB,intron_variant,,ENST00000490882,NM_001164317.1;"	"T"	"ENSG00000136068"	"ENST00000490882"	"Transcript"	"intron_variant"	"-/8079"	"-/7902"	"-/2633"	""	""	""	"1"	NA	1	"FLNB"	"HGNC"	3755	"protein_coding"	"YES"	"CCDS54599.1"	"ENSP00000420213"	"O75369"	""	"UPI0001765F91"	"NM_001164317.1"	""	""	""	"1/46"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"76723e16-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.320512820512821	"WGS"	FALSE
"16830"	"SYNPR"	132204	"mskcc.org"	"GRCh37"	"3"	63224972	63224972	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.66+10916A>T"	""	""	"ENST00000478456"	""	106	"92"	14	77	"77"	0	"SYNPR,intron_variant,,ENST00000478456,;"	"T"	"ENSG00000163630"	"ENST00000478456"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/566"	""	""	""	""	""	"1"	NA	1	"SYNPR"	"HGNC"	16507	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"7672c2f0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.132075471698113	"WGS"	FALSE
"16831"	"SLC25A26"	115286	"mskcc.org"	"GRCh37"	"3"	66285431	66285431	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.34-1537A>G"	""	""	"ENST00000354883"	""	85	"73"	12	79	"79"	0	"SLC25A26,intron_variant,,ENST00000536651,;SLC25A26,intron_variant,,ENST00000354883,NM_173471.3_dupl9;SLC25A26,intron_variant,,ENST00000336733,NM_001164796.1_dupl9;SLC25A26,intron_variant,,ENST00000464350,;"	"G"	"ENSG00000144741"	"ENST00000354883"	"Transcript"	"intron_variant"	"-/2673"	"-/825"	"-/274"	""	""	""	"1"	NA	1	"SLC25A26"	"HGNC"	20661	"protein_coding"	"YES"	"CCDS2905.2"	"ENSP00000346955"	""	"F8WAB8"	"UPI000003615A"	"NM_173471.3_dupl9"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"76732736-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141176470588235	"WGS"	FALSE
"16832"	"ENSR00001366513"	0	"mskcc.org"	"GRCh37"	"3"	66851535	66851535	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001366513"	""	108	"81"	27	65	"65"	0	""	"C"	""	"ENSR00001366513"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"767335aa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"16833"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	69009316	69009316	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"84"	7	51	"51"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"76735d3c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"16834"	"FOXP1"	27086	"mskcc.org"	"GRCh37"	"3"	71022345	71022345	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1531-518C>T"	""	""	"ENST00000318789"	""	110	"83"	27	60	"60"	0	"FOXP1,intron_variant,,ENST00000318789,NM_032682.5,NM_001244810.1,NM_001244813.1;FOXP1,intron_variant,,ENST00000475937,NM_001244816.1;FOXP1,intron_variant,,ENST00000493089,NM_001244808.1;FOXP1,intron_variant,,ENST00000498215,NM_001244814.1;FOXP1,intron_variant,,ENST00000491238,NM_001244815.1;FOXP1,intron_variant,,ENST00000484350,NM_001244812.1;FOXP1,intron_variant,,ENST00000468577,;FOXP1,intron_variant,,ENST00000497355,;FOXP1,intron_variant,,ENST00000327590,;"	"A"	"ENSG00000114861"	"ENST00000318789"	"Transcript"	"intron_variant"	"-/7114"	"-/2034"	"-/677"	""	""	""	"1"	NA	-1	"FOXP1"	"HGNC"	3823	"protein_coding"	""	"CCDS2914.1"	"ENSP00000318902"	"Q9H334"	"Q8IXF4,Q548T7,C9J5T4,C9IYY1,B4DMV4"	"UPI0000001041"	"NM_032682.5,NM_001244810.1,NM_001244813.1"	""	""	""	"17/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"767394f0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245454545454545	"WGS"	TRUE
"16835"	"FOXP1"	27086	"mskcc.org"	"GRCh37"	"3"	71516478	71516478	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-168+26099A>T"	""	""	"ENST00000318789"	""	106	"81"	25	58	"58"	0	"FOXP1,intron_variant,,ENST00000318789,NM_032682.5,NM_001244810.1,NM_001244813.1;FOXP1,intron_variant,,ENST00000475937,NM_001244816.1;FOXP1,intron_variant,,ENST00000493089,NM_001244808.1;FOXP1,intron_variant,,ENST00000318779,NM_001012505.1;FOXP1,intron_variant,,ENST00000327590,;"	"A"	"ENSG00000114861"	"ENST00000318789"	"Transcript"	"intron_variant"	"-/7114"	"-/2034"	"-/677"	""	""	""	"1"	NA	-1	"FOXP1"	"HGNC"	3823	"protein_coding"	""	"CCDS2914.1"	"ENSP00000318902"	"Q9H334"	"Q8IXF4,Q548T7,C9J5T4,C9IYY1,B4DMV4"	"UPI0000001041"	"NM_032682.5,NM_001244810.1,NM_001244813.1"	""	""	""	"3/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTA"	"7673aaf8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235849056603774	"WGS"	TRUE
"16836"	"PROK2"	60675	"mskcc.org"	"GRCh37"	"3"	71823168	71823168	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.285+428C>T"	""	""	"ENST00000295619"	""	90	"71"	19	54	"54"	0	"PROK2,intron_variant,,ENST00000353065,NM_021935.3;PROK2,intron_variant,,ENST00000295619,NM_001126128.1;"	"A"	"ENSG00000163421"	"ENST00000295619"	"Transcript"	"intron_variant"	"-/1022"	"-/390"	"-/129"	""	""	""	"1"	NA	-1	"PROK2"	"HGNC"	18455	"protein_coding"	"YES"	"CCDS46868.1"	"ENSP00000295619"	"Q9HC23"	""	"UPI0000132219"	"NM_001126128.1"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"7673b976-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211111111111111	"WGS"	FALSE
"16837"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	72763961	72763961	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"55"	23	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7673d000-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294871794871795	"WGS"	FALSE
"16838"	"SHQ1"	55164	"mskcc.org"	"GRCh37"	"3"	72846455	72846455	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1061-4268T>G"	""	""	"ENST00000325599"	""	107	"89"	18	61	"61"	0	"SHQ1,intron_variant,,ENST00000325599,NM_018130.2;SHQ1,intron_variant,,ENST00000463369,;SHQ1,upstream_gene_variant,,ENST00000468371,;SHQ1,intron_variant,,ENST00000444040,;"	"C"	"ENSG00000144736"	"ENST00000325599"	"Transcript"	"intron_variant"	"-/2879"	"-/1734"	"-/577"	""	""	""	"1"	NA	-1	"SHQ1"	"HGNC"	25543	"protein_coding"	"YES"	"CCDS33788.1"	"ENSP00000315182"	"Q6PI26"	"C9J6N3"	"UPI00001416C5"	"NM_018130.2"	""	""	""	"9/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7673d2d0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168224299065421	"WGS"	FALSE
"16839"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	74139831	74139831	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"96"	8	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7673fa76-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"16840"	"CNTN3"	5067	"mskcc.org"	"GRCh37"	"3"	74379261	74379261	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1668+4625G>A"	""	""	"ENST00000263665"	""	101	"93"	8	63	"63"	0	"CNTN3,intron_variant,,ENST00000263665,NM_020872.1;"	"T"	"ENSG00000113805"	"ENST00000263665"	"Transcript"	"intron_variant"	"-/4948"	"-/3087"	"-/1028"	""	""	""	"1"	NA	-1	"CNTN3"	"HGNC"	2173	"protein_coding"	"YES"	"CCDS33790.1"	"ENSP00000263665"	"Q9P232"	""	"UPI00001A7974"	"NM_020872.1"	""	""	""	"12/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76740066-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0792079207920792	"WGS"	FALSE
"16841"	"CNTN3"	5067	"mskcc.org"	"GRCh37"	"3"	74456574	74456574	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.454+17422G>T"	""	""	"ENST00000263665"	""	105	"85"	20	63	"63"	0	"CNTN3,intron_variant,,ENST00000263665,NM_020872.1;"	"A"	"ENSG00000113805"	"ENST00000263665"	"Transcript"	"intron_variant"	"-/4948"	"-/3087"	"-/1028"	""	""	""	"1"	NA	-1	"CNTN3"	"HGNC"	2173	"protein_coding"	"YES"	"CCDS33790.1"	"ENSP00000263665"	"Q9P232"	""	"UPI00001A7974"	"NM_020872.1"	""	""	""	"4/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"76740228-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"16842"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	75038743	75038743	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"77"	15	58	"58"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"76740d86-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16304347826087	"WGS"	FALSE
"16843"	"ROBO2"	6092	"mskcc.org"	"GRCh37"	"3"	76391743	76391743	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.109+404990C>T"	""	""	"ENST00000487694"	""	108	"90"	18	64	"64"	0	"ROBO2,intron_variant,,ENST00000487694,NM_001128929.2;ROBO2,intron_variant,,ENST00000602589,;ROBO2,intron_variant,,ENST00000475034,;"	"T"	"ENSG00000185008"	"ENST00000487694"	"Transcript"	"intron_variant"	"-/5919"	"-/4185"	"-/1394"	""	""	""	"1"	NA	1	"ROBO2"	"HGNC"	10250	"protein_coding"	"YES"	"CCDS54609.1"	"ENSP00000417335"	"Q9HCK4"	"H9XFA4"	"UPI0000D891EC"	"NM_001128929.2"	""	""	""	"2/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"767487ac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"16844"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	77996492	77996492	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	136	"127"	9	71	"71"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"7674fb92-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0661764705882353	"WGS"	FALSE
"16845"	"ROBO1"	6091	"mskcc.org"	"GRCh37"	"3"	78764744	78764744	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.918-1070G>T"	""	""	"ENST00000464233"	""	104	"85"	19	52	"52"	0	"ROBO1,intron_variant,,ENST00000436010,;ROBO1,intron_variant,,ENST00000464233,NM_002941.3;ROBO1,intron_variant,,ENST00000495273,NM_001145845.1,NM_133631.3;ROBO1,intron_variant,,ENST00000467549,;ROBO1,upstream_gene_variant,,ENST00000484514,;ROBO1,upstream_gene_variant,,ENST00000488735,;"	"A"	"ENSG00000169855"	"ENST00000464233"	"Transcript"	"intron_variant"	"-/6742"	"-/4956"	"-/1651"	""	""	""	"1"	NA	-1	"ROBO1"	"HGNC"	10249	"protein_coding"	"YES"	"CCDS54611.1"	"ENSP00000420321"	"Q9Y6N7"	""	"UPI00000713D9"	"NM_002941.3"	""	""	""	"7/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"76751258-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182692307692308	"WGS"	FALSE
"16846"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	80307619	80307619	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"104"	8	74	"74"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"76754048-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"16847"	"RP11-260O18.1"	0	"mskcc.org"	"GRCh37"	"3"	82165314	82165314	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.245-69189C>T"	""	""	"ENST00000470263"	""	97	"75"	22	55	"55"	0	"RP11-260O18.1,intron_variant,,ENST00000470263,;RP11-260O18.1,intron_variant,,ENST00000494340,;"	"T"	"ENSG00000239440"	"ENST00000470263"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1951"	""	""	""	""	""	"1"	NA	1	"RP11-260O18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76756f50-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22680412371134	"WGS"	FALSE
"16848"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	82910006	82910006	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"86"	8	58	"58"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"76757e64-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0851063829787234	"WGS"	FALSE
"16849"	"CADM2"	253559	"mskcc.org"	"GRCh37"	"3"	85468729	85468729	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.62-306943C>A"	""	""	"ENST00000383699"	""	110	"87"	23	66	"66"	0	"CADM2,intron_variant,,ENST00000383699,NM_001167675.1,NM_001256504.1,NM_001256505.1;CADM2,intron_variant,,ENST00000407528,NM_001167674.1;"	"A"	"ENSG00000175161"	"ENST00000383699"	"Transcript"	"intron_variant"	"-/9488"	"-/1215"	"-/404"	""	""	""	"1"	NA	1	"CADM2"	"HGNC"	29849	"protein_coding"	""	"CCDS54613.1"	"ENSP00000373200"	"Q8N3J6"	"G3XHN7,G3XHN4"	"UPI0000035DF5"	"NM_001167675.1,NM_001256504.1,NM_001256505.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"7675c3ce-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209090909090909	"WGS"	FALSE
"16850"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	86697383	86697383	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"89"	20	74	"74"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7675eb38-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.18348623853211	"WGS"	FALSE
"16851"	"VGLL3"	389136	"mskcc.org"	"GRCh37"	"3"	87032934	87032934	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.127-4982T>C"	""	""	"ENST00000398399"	""	119	"91"	28	76	"76"	0	"VGLL3,intron_variant,,ENST00000398399,NM_016206.2;VGLL3,intron_variant,,ENST00000383698,;VGLL3,intron_variant,,ENST00000494229,;"	"G"	"ENSG00000206538"	"ENST00000398399"	"Transcript"	"intron_variant"	"-/10400"	"-/981"	"-/326"	""	""	""	"1"	NA	-1	"VGLL3"	"HGNC"	24327	"protein_coding"	"YES"	"CCDS43110.1"	"ENSP00000381436"	"A8MV65"	""	"UPI0000197E88"	"NM_016206.2"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"7675f114-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"16852"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	87714618	87714618	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	140	"114"	26	74	"74"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"76760028-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185714285714286	"WGS"	FALSE
"16853"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	87976005	87976005	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"54"	19	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"76760c3a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26027397260274	"WGS"	FALSE
"16854"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	93967854	93967854	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	125	"103"	22	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"767670e4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176	"WGS"	FALSE
"16855"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	96015443	96015443	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"89"	21	78	"78"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7676a690-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.190909090909091	"WGS"	FALSE
"16856"	"EPHA6"	285220	"mskcc.org"	"GRCh37"	"3"	97057251	97057251	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1607-66743C>T"	""	""	"ENST00000389672"	""	106	"81"	25	63	"63"	0	"EPHA6,intron_variant,,ENST00000389672,NM_001080448.2;"	"T"	"ENSG00000080224"	"ENST00000389672"	"Transcript"	"intron_variant"	"-/3971"	"-/3393"	"-/1130"	""	""	""	"1"	NA	1	"EPHA6"	"HGNC"	19296	"protein_coding"	"YES"	"CCDS46876.1"	"ENSP00000374323"	""	"H0Y8K5"	"UPI000004BB12"	"NM_001080448.2"	""	""	""	"5/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7676c63e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235849056603774	"WGS"	FALSE
"16857"	"CTD-2021J15.1"	0	"mskcc.org"	"GRCh37"	"3"	98679206	98679206	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.196+55368G>A"	""	""	"ENST00000474798"	""	93	"72"	21	55	"55"	0	"CTD-2021J15.1,intron_variant,,ENST00000474798,;"	"A"	"ENSG00000239462"	"ENST00000474798"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/395"	""	""	""	""	""	"1"	NA	1	"CTD-2021J15.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7676ef2e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225806451612903	"WGS"	FALSE
"16858"	"AC078828.1"	0	"mskcc.org"	"GRCh37"	"3"	99086976	99086976	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000581307"	""	108	"98"	10	64	"64"	0	"AC078828.1,upstream_gene_variant,,ENST00000581307,;"	"T"	"ENSG00000266030"	"ENST00000581307"	"Transcript"	"upstream_gene_variant"	"-/89"	""	""	""	""	""	"1"	"1243"	-1	"AC078828.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7676fb22-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0925925925925926	"WGS"	FALSE
"16859"	"ABI3BP"	25890	"mskcc.org"	"GRCh37"	"3"	100665376	100665376	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.101-20051A>G"	""	""	"ENST00000284322"	""	109	"101"	8	56	"56"	0	"ABI3BP,intron_variant,,ENST00000471714,;ABI3BP,intron_variant,,ENST00000284322,NM_015429.3;ABI3BP,intron_variant,,ENST00000495063,;ABI3BP,intron_variant,,ENST00000530539,;ABI3BP,intron_variant,,ENST00000475896,;ABI3BP,intron_variant,,ENST00000530236,;"	"C"	"ENSG00000154175"	"ENST00000284322"	"Transcript"	"intron_variant"	"-/4498"	"-/3228"	"-/1075"	""	""	""	"1"	NA	-1	"ABI3BP"	"HGNC"	17265	"protein_coding"	"YES"	"CCDS46880.1"	"ENSP00000284322"	"Q7Z7G0"	""	"UPI000011C136"	"NM_015429.3"	""	""	""	"1/34"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"76771f8a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.073394495412844	"WGS"	FALSE
"16860"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	103959990	103959990	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	138	"129"	9	67	"67"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"76778646-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"16861"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	104883942	104883942	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	126	"86"	40	59	"59"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"76779b36-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317460317460317	"WGS"	FALSE
"16862"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	110146607	110146607	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	139	"113"	26	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"76783bf4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.18705035971223	"WGS"	FALSE
"16863"	"PVRL3-AS1"	100506555	"mskcc.org"	"GRCh37"	"3"	110636804	110636804	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.503-24127G>A"	""	""	"ENST00000476301"	""	99	"76"	23	62	"62"	0	"PVRL3-AS1,intron_variant,,ENST00000476301,;PVRL3-AS1,intron_variant,,ENST00000474769,;"	"T"	"ENSG00000242242"	"ENST00000476301"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/568"	""	""	""	""	""	"1"	NA	-1	"PVRL3-AS1"	"HGNC"	40813	"antisense"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"76784c8e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.232323232323232	"WGS"	FALSE
"16864"	"CD96"	10225	"mskcc.org"	"GRCh37"	"3"	111347969	111347969	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1369+4718C>T"	""	""	"ENST00000283285"	""	96	"73"	23	55	"55"	0	"CD96,intron_variant,,ENST00000352690,NM_005816.4;CD96,intron_variant,,ENST00000283285,NM_198196.2;CD96,intron_variant,,ENST00000494798,;RP11-402J7.2,upstream_gene_variant,,ENST00000489836,;"	"T"	"ENSG00000153283"	"ENST00000283285"	"Transcript"	"intron_variant"	"-/4324"	"-/1758"	"-/585"	""	""	""	"1"	NA	1	"CD96"	"HGNC"	16892	"protein_coding"	"YES"	"CCDS2959.1"	"ENSP00000283285"	"P40200"	"U3KPT0"	"UPI000013DD36"	"NM_198196.2"	""	""	""	"11/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"76785eea-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239583333333333	"WGS"	FALSE
"16865"	"SIDT1"	54847	"mskcc.org"	"GRCh37"	"3"	113289574	113289574	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.515+3017C>T"	""	""	"ENST00000264852"	""	87	"77"	10	59	"59"	0	"SIDT1,intron_variant,,ENST00000264852,NM_017699.2;SIDT1,intron_variant,,ENST00000393830,;SIDT1,intron_variant,,ENST00000491730,;SIDT1,downstream_gene_variant,,ENST00000483946,;"	"T"	"ENSG00000072858"	"ENST00000264852"	"Transcript"	"intron_variant"	"-/5080"	"-/2484"	"-/827"	""	""	""	"1"	NA	1	"SIDT1"	"HGNC"	25967	"protein_coding"	"YES"	"CCDS2974.1"	"ENSP00000264852"	"Q9NXL6"	"B4E0H9"	"UPI000013D581"	"NM_017699.2"	""	""	""	"3/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"767897a2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114942528735632	"WGS"	FALSE
"16866"	"KIAA1407"	57577	"mskcc.org"	"GRCh37"	"3"	113702031	113702031	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2164-2391C>G"	""	""	"ENST00000295878"	""	85	"73"	12	63	"63"	0	"KIAA1407,intron_variant,,ENST00000295878,NM_020817.1;KIAA1407,intron_variant,,ENST00000545063,;KIAA1407,intron_variant,,ENST00000460813,;KIAA1407,intron_variant,,ENST00000527855,;RP11-255E6.5,upstream_gene_variant,,ENST00000605304,;"	"C"	"ENSG00000163617"	"ENST00000295878"	"Transcript"	"intron_variant"	"-/3976"	"-/2811"	"-/936"	""	""	""	"1"	NA	-1	"KIAA1407"	"HGNC"	29272	"protein_coding"	"YES"	"CCDS2977.1"	"ENSP00000295878"	"Q8NCU4"	""	"UPI00000732E9"	"NM_020817.1"	""	""	""	"13/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7678a580-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141176470588235	"WGS"	FALSE
"16867"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	115446190	115446190	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"63"	20	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7678ce02-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240963855421687	"WGS"	FALSE
"16868"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	118504559	118504559	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"94"	24	67	"67"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"76791b5a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203389830508475	"WGS"	FALSE
"16869"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	118599418	118599418	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"70"	22	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"76791de4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239130434782609	"WGS"	FALSE
"16870"	"GSK3B"	2932	"mskcc.org"	"GRCh37"	"3"	119622100	119622100	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.813+2502C>T"	""	""	"ENST00000316626"	""	117	"92"	25	66	"66"	0	"GSK3B,intron_variant,,ENST00000264235,NM_001146156.1,NM_002093.3;GSK3B,intron_variant,,ENST00000316626,;"	"A"	"ENSG00000082701"	"ENST00000316626"	"Transcript"	"intron_variant"	"-/1636"	"-/1302"	"-/433"	""	""	""	"1"	NA	-1	"GSK3B"	"HGNC"	4617	"protein_coding"	"YES"	"CCDS2996.1"	"ENSP00000324806"	"P49841"	""	"UPI000002ACBB"	""	""	""	""	"7/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7679378e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213675213675214	"WGS"	FALSE
"16871"	"GSK3B"	2932	"mskcc.org"	"GRCh37"	"3"	119737522	119737522	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.89-16436C>T"	""	""	"ENST00000316626"	""	102	"76"	26	63	"63"	0	"GSK3B,intron_variant,,ENST00000264235,NM_001146156.1,NM_002093.3;GSK3B,intron_variant,,ENST00000316626,;"	"A"	"ENSG00000082701"	"ENST00000316626"	"Transcript"	"intron_variant"	"-/1636"	"-/1302"	"-/433"	""	""	""	"1"	NA	-1	"GSK3B"	"HGNC"	4617	"protein_coding"	"YES"	"CCDS2996.1"	"ENSP00000324806"	"P49841"	""	"UPI000002ACBB"	""	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"76793acc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254901960784314	"WGS"	FALSE
"16872"	"RABL3"	285282	"mskcc.org"	"GRCh37"	"3"	120403294	120403294	"+"	"3'Flank"	"SNP"	"A"	"A"	"T"	"rs529191259"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000273375"	""	110	"105"	5	58	"58"	0	"RABL3,downstream_gene_variant,,ENST00000273375,NM_173825.3;HGD,upstream_gene_variant,,ENST00000283871,NM_000187.3;HGD,upstream_gene_variant,,ENST00000476082,;HGD,upstream_gene_variant,,ENST00000488183,;HGD,upstream_gene_variant,,ENST00000485313,;RABL3,downstream_gene_variant,,ENST00000473654,;RABL3,downstream_gene_variant,,ENST00000485161,;RABL3,downstream_gene_variant,,ENST00000481015,;HGD,upstream_gene_variant,,ENST00000480862,;HGD,upstream_gene_variant,,ENST00000466528,;"	"T"	"ENSG00000144840"	"ENST00000273375"	"Transcript"	"downstream_gene_variant"	"-/3883"	"-/711"	"-/236"	""	""	"rs529191259"	"1"	"2234"	-1	"RABL3"	"HGNC"	18072	"protein_coding"	"YES"	"CCDS3001.1"	"ENSP00000273375"	"Q5HYI8"	"F8WF50"	"UPI000004C815"	"NM_173825.3"	""	""	""	""	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76794b98-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0454545454545455	"WGS"	FALSE
"16873"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	122372018	122372018	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	65	"45"	20	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"76798612-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.307692307692308	"WGS"	FALSE
"16874"	"RP11-379B18.6"	0	"mskcc.org"	"GRCh37"	"3"	125504891	125504891	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.194+11141T>G"	""	""	"ENST00000610060"	""	87	"82"	5	50	"50"	0	"RP11-379B18.6,intron_variant,,ENST00000610060,;MIR548I1,downstream_gene_variant,,ENST00000408810,;RP11-379B18.1,downstream_gene_variant,,ENST00000486999,;"	"G"	"ENSG00000272840"	"ENST00000610060"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/373"	""	""	""	""	""	"1"	NA	1	"RP11-379B18.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"7679e440-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0574712643678161	"WGS"	FALSE
"16875"	"TMCC1"	23023	"mskcc.org"	"GRCh37"	"3"	129465202	129465202	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.577-75095A>T"	""	""	"ENST00000393238"	""	65	"59"	6	60	"60"	0	"TMCC1,intron_variant,,ENST00000393238,NM_001017395.3;TMCC1,intron_variant,,ENST00000426664,NM_001128224.2;TMCC1,intron_variant,,ENST00000329333,;TMCC1,intron_variant,,ENST00000505616,;"	"A"	"ENSG00000172765"	"ENST00000393238"	"Transcript"	"intron_variant"	"-/5992"	"-/1962"	"-/653"	""	""	""	"1"	NA	-1	"TMCC1"	"HGNC"	29116	"protein_coding"	"YES"	"CCDS33855.1"	"ENSP00000376930"	"O94876"	"Q8N4H2,Q6N039,E9PC87,D6RBT7"	"UPI0000197B80"	"NM_001017395.3"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"767a877e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"16876"	"SLCO2A1"	6578	"mskcc.org"	"GRCh37"	"3"	133761441	133761441	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.94+9494A>G"	""	""	"ENST00000478662"	""	100	"83"	17	56	"56"	0	"SLCO2A1,intron_variant,,ENST00000478662,;"	"C"	"ENSG00000174640"	"ENST00000478662"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/166"	""	""	""	""	""	"1"	NA	-1	"SLCO2A1"	"HGNC"	10955	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTG"	"767b143c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.17	"WGS"	FALSE
"16877"	"RP11-657O9.1"	0	"mskcc.org"	"GRCh37"	"3"	135138614	135138614	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.67+19984G>A"	""	""	"ENST00000459861"	""	111	"82"	29	68	"68"	0	"RP11-657O9.1,intron_variant,,ENST00000459861,;RP11-657O9.1,intron_variant,,ENST00000466206,;RP11-657O9.1,intron_variant,,ENST00000473001,;"	"T"	"ENSG00000240086"	"ENST00000459861"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/827"	""	""	""	""	""	"1"	NA	-1	"RP11-657O9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"767b3d72-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261261261261261	"WGS"	FALSE
"16878"	"STAG1"	10274	"mskcc.org"	"GRCh37"	"3"	136111399	136111399	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2277+6192G>C"	""	""	"ENST00000383202"	""	68	"64"	4	46	"46"	0	"STAG1,intron_variant,,ENST00000383202,NM_005862.2;STAG1,intron_variant,,ENST00000236698,;STAG1,intron_variant,,ENST00000434713,;STAG1,intron_variant,,ENST00000536929,;STAG1,intron_variant,,ENST00000483235,;"	"G"	"ENSG00000118007"	"ENST00000383202"	"Transcript"	"intron_variant"	"-/6053"	"-/3777"	"-/1258"	""	""	""	"1"	NA	-1	"STAG1"	"HGNC"	11354	"protein_coding"	"YES"	"CCDS3090.1"	"ENSP00000372689"	"Q8WVM7"	"Q4LE48"	"UPI000020A2DE"	"NM_005862.2"	""	""	""	"22/33"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"767b5c30-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0588235294117647	"WGS"	FALSE
"16879"	"STAG1"	10274	"mskcc.org"	"GRCh37"	"3"	136246597	136246597	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.472-6338C>A"	""	""	"ENST00000383202"	""	67	"53"	14	43	"43"	0	"STAG1,intron_variant,,ENST00000383202,NM_005862.2;STAG1,intron_variant,,ENST00000236698,;STAG1,intron_variant,,ENST00000434713,;STAG1,intron_variant,,ENST00000480733,;STAG1,intron_variant,,ENST00000483235,;STAG1,intron_variant,,ENST00000487065,;STAG1,intron_variant,,ENST00000462818,;"	"T"	"ENSG00000118007"	"ENST00000383202"	"Transcript"	"intron_variant"	"-/6053"	"-/3777"	"-/1258"	""	""	""	"1"	NA	-1	"STAG1"	"HGNC"	11354	"protein_coding"	"YES"	"CCDS3090.1"	"ENSP00000372689"	"Q8WVM7"	"Q4LE48"	"UPI000020A2DE"	"NM_005862.2"	""	""	""	"6/33"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"767b611c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208955223880597	"WGS"	FALSE
"16880"	"CLSTN2"	64084	"mskcc.org"	"GRCh37"	"3"	139846956	139846956	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.110-47837C>G"	""	""	"ENST00000458420"	""	153	"125"	28	82	"82"	0	"CLSTN2,intron_variant,,ENST00000458420,NM_022131.2;CLSTN2,intron_variant,,ENST00000511524,;"	"G"	"ENSG00000158258"	"ENST00000458420"	"Transcript"	"intron_variant"	"-/14202"	"-/2868"	"-/955"	""	""	""	"1"	NA	1	"CLSTN2"	"HGNC"	17448	"protein_coding"	"YES"	"CCDS3112.1"	"ENSP00000402460"	"Q9H4D0"	"B3KUA5,B3KU27"	"UPI00001B0051"	"NM_022131.2"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"767bb5d6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.183006535947712	"WGS"	FALSE
"16881"	"CLSTN2"	64084	"mskcc.org"	"GRCh37"	"3"	140231502	140231502	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1345-19664G>A"	""	""	"ENST00000458420"	""	108	"83"	25	72	"72"	0	"CLSTN2,intron_variant,,ENST00000458420,NM_022131.2;CLSTN2-AS1,upstream_gene_variant,,ENST00000513309,;CLSTN2,intron_variant,,ENST00000511524,;"	"A"	"ENSG00000158258"	"ENST00000458420"	"Transcript"	"intron_variant"	"-/14202"	"-/2868"	"-/955"	""	""	""	"1"	NA	1	"CLSTN2"	"HGNC"	17448	"protein_coding"	"YES"	"CCDS3112.1"	"ENSP00000402460"	"Q9H4D0"	"B3KUA5,B3KU27"	"UPI00001B0051"	"NM_022131.2"	""	""	""	"8/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"767bbc5c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231481481481481	"WGS"	FALSE
"16882"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	141563449	141563449	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	61	"51"	10	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"767bde44-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163934426229508	"WGS"	FALSE
"16883"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	142962303	142962303	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"85"	7	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"767c06c6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0760869565217391	"WGS"	FALSE
"16884"	"SLC9A9"	285195	"mskcc.org"	"GRCh37"	"3"	143356369	143356369	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.755+14728G>A"	""	""	"ENST00000316549"	""	130	"97"	33	79	"79"	0	"SLC9A9,intron_variant,,ENST00000316549,NM_173653.3;SLC9A9,intron_variant,,ENST00000483124,;"	"T"	"ENSG00000181804"	"ENST00000316549"	"Transcript"	"intron_variant"	"-/3627"	"-/1938"	"-/645"	""	""	""	"1"	NA	-1	"SLC9A9"	"HGNC"	20653	"protein_coding"	"YES"	"CCDS33872.1"	"ENSP00000320246"	"Q8IVB4"	""	"UPI0000074664"	"NM_173653.3"	""	""	""	"6/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"767c0cd4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253846153846154	"WGS"	FALSE
"16885"	"SLC9A9"	285195	"mskcc.org"	"GRCh37"	"3"	143570077	143570077	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000316549"	""	107	"100"	7	62	"62"	0	"SLC9A9,upstream_gene_variant,,ENST00000316549,NM_173653.3;SLC9A9,upstream_gene_variant,,ENST00000474151,;SLC9A9,upstream_gene_variant,,ENST00000498717,;SLC9A9,upstream_gene_variant,,ENST00000474727,;RP11-8J23.1,downstream_gene_variant,,ENST00000392125,;RP11-8J23.1,downstream_gene_variant,,ENST00000477300,;"	"G"	"ENSG00000181804"	"ENST00000316549"	"Transcript"	"upstream_gene_variant"	"-/3627"	"-/1938"	"-/645"	""	""	""	"1"	"2704"	-1	"SLC9A9"	"HGNC"	20653	"protein_coding"	"YES"	"CCDS33872.1"	"ENSP00000320246"	"Q8IVB4"	""	"UPI0000074664"	"NM_173653.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"767c1184-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0654205607476635	"WGS"	FALSE
"16886"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	144776293	144776293	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"85"	24	78	"78"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"767c2f70-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220183486238532	"WGS"	FALSE
"16887"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	144900208	144900208	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	123	"104"	19	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"767c3560-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.154471544715447	"WGS"	FALSE
"16888"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	145289394	145289394	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"117"	10	83	"83"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"767c419a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.078740157480315	"WGS"	FALSE
"16889"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	147321117	147321117	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"73"	26	71	"71"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"767c7750-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.262626262626263	"WGS"	FALSE
"16890"	"RP11-501O2.1"	0	"mskcc.org"	"GRCh37"	"3"	147815346	147815346	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.33+4352T>A"	""	""	"ENST00000476987"	""	146	"109"	37	75	"75"	0	"RP11-501O2.1,intron_variant,,ENST00000476987,;"	"A"	"ENSG00000241792"	"ENST00000476987"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/492"	""	""	""	""	""	"1"	NA	1	"RP11-501O2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"767c7fb6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253424657534247	"WGS"	FALSE
"16891"	"RP11-501O2.4"	0	"mskcc.org"	"GRCh37"	"3"	147915907	147915907	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.574-2286G>T"	""	""	"ENST00000460324"	""	109	"102"	7	51	"51"	0	"RP11-501O2.4,intron_variant,,ENST00000460324,;RP11-501O2.3,intron_variant,,ENST00000477153,;RP11-501O2.3,intron_variant,,ENST00000470219,;"	"A"	"ENSG00000243347"	"ENST00000460324"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/679"	""	""	""	""	""	"1"	NA	-1	"RP11-501O2.4"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"767c8286-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0642201834862385	"WGS"	FALSE
"16892"	"RP11-501O2.5"	0	"mskcc.org"	"GRCh37"	"3"	148040797	148040797	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.106+10758G>A"	""	""	"ENST00000481334"	""	99	"77"	22	60	"60"	0	"RP11-501O2.5,intron_variant,,ENST00000481334,;"	"A"	"ENSG00000242440"	"ENST00000481334"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/390"	""	""	""	""	""	"1"	NA	1	"RP11-501O2.5"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"767c8556-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"16893"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	148288109	148288109	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"73"	24	63	"63"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"767c8de4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247422680412371	"WGS"	FALSE
"16894"	"CPHL1P"	0	"mskcc.org"	"GRCh37"	"3"	148994558	148994558	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000461341"	""	110	"86"	24	59	"59"	0	"CPHL1P,non_coding_transcript_exon_variant,,ENST00000482639,;CPHL1P,upstream_gene_variant,,ENST00000461341,;"	"A"	"ENSG00000240216"	"ENST00000461341"	"Transcript"	"upstream_gene_variant"	"-/3407"	""	""	""	""	""	"1"	"107"	-1	"CPHL1P"	"HGNC"	31714	"unitary_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"767cacfc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218181818181818	"WGS"	FALSE
"16895"	"CPHL1P"	0	"mskcc.org"	"GRCh37"	"3"	148994561	148994561	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000461341"	""	111	"88"	23	61	"61"	0	"CPHL1P,non_coding_transcript_exon_variant,,ENST00000482639,;CPHL1P,upstream_gene_variant,,ENST00000461341,;"	"C"	"ENSG00000240216"	"ENST00000461341"	"Transcript"	"upstream_gene_variant"	"-/3407"	""	""	""	""	""	"1"	"110"	-1	"CPHL1P"	"HGNC"	31714	"unitary_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"767cad56-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207207207207207	"WGS"	FALSE
"16896"	"TM4SF4"	7104	"mskcc.org"	"GRCh37"	"3"	149196096	149196096	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.264+2397C>T"	""	""	"ENST00000305354"	""	68	"57"	11	44	"44"	0	"TM4SF4,intron_variant,,ENST00000305354,NM_004617.3;TM4SF4,intron_variant,,ENST00000465758,;TM4SF4,intron_variant,,ENST00000463068,;"	"T"	"ENSG00000169903"	"ENST00000305354"	"Transcript"	"intron_variant"	"-/2101"	"-/609"	"-/202"	""	""	""	"1"	NA	1	"TM4SF4"	"HGNC"	11856	"protein_coding"	"YES"	"CCDS46932.1"	"ENSP00000305852"	"P48230"	""	"UPI000013683D"	"NM_004617.3"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"767cb418-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161764705882353	"WGS"	FALSE
"16897"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	151781608	151781608	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"74"	18	72	"72"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"767cf2d4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.195652173913043	"WGS"	FALSE
"16898"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	153030472	153030472	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs566860359"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"58"	5	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs566860359"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0022"	"A:0.0053"	"A:0.0043"	NA	"A:0"	"A:0.001"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"767d1110-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0793650793650794	"WGS"	FALSE
"16899"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	154292915	154292915	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"102"	9	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"767d2b64-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0810810810810811	"WGS"	FALSE
"16900"	"KCNAB1"	7881	"mskcc.org"	"GRCh37"	"3"	156016448	156016448	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.276-122957A>C"	""	""	"ENST00000490337"	""	120	"111"	9	77	"77"	0	"KCNAB1,intron_variant,,ENST00000302490,NM_172159.3;KCNAB1,intron_variant,,ENST00000471742,NM_003471.3;KCNAB1,intron_variant,,ENST00000490337,NM_172160.2;KCNAB1,intron_variant,,ENST00000389636,;KCNAB1,intron_variant,,ENST00000389634,;KCNAB1,intron_variant,,ENST00000475456,;KCNAB1,intron_variant,,ENST00000472028,;KCNAB1,intron_variant,,ENST00000477912,;KCNAB1,intron_variant,,ENST00000478609,;KCNAB1,intron_variant,,ENST00000489036,;"	"C"	"ENSG00000169282"	"ENST00000490337"	"Transcript"	"intron_variant"	"-/3122"	"-/1260"	"-/419"	""	""	""	"1"	NA	1	"KCNAB1"	"HGNC"	6228	"protein_coding"	"YES"	"CCDS3174.1"	"ENSP00000419952"	"Q14722"	"B7Z435"	"UPI000012E169"	"NM_172160.2"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"767d5a26-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"16901"	"VEPH1"	79674	"mskcc.org"	"GRCh37"	"3"	157233939	157233939	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-158+17363A>G"	""	""	"ENST00000487753"	""	118	"85"	33	61	"61"	0	"VEPH1,intron_variant,,ENST00000487753,;VEPH1,intron_variant,,ENST00000461299,;VEPH1,intron_variant,,ENST00000479987,;VEPH1,intron_variant,,ENST00000489602,;VEPH1,intron_variant,,ENST00000473907,;VEPH1,intron_variant,,ENST00000475050,;"	"C"	"ENSG00000197415"	"ENST00000487753"	"Transcript"	"intron_variant"	"-/746"	"-/495"	"-/165"	""	""	""	"1"	NA	-1	"VEPH1"	"HGNC"	25735	"protein_coding"	""	""	"ENSP00000420097"	""	"C9JRT0,C9J4U8,C9J379"	"UPI0001B7967B"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"767d77b8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.279661016949153	"WGS"	FALSE
"16902"	"VEPH1"	79674	"mskcc.org"	"GRCh37"	"3"	157233940	157233940	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-158+17362G>T"	""	""	"ENST00000487753"	""	119	"84"	35	62	"62"	0	"VEPH1,intron_variant,,ENST00000487753,;VEPH1,intron_variant,,ENST00000461299,;VEPH1,intron_variant,,ENST00000479987,;VEPH1,intron_variant,,ENST00000489602,;VEPH1,intron_variant,,ENST00000473907,;VEPH1,intron_variant,,ENST00000475050,;"	"A"	"ENSG00000197415"	"ENST00000487753"	"Transcript"	"intron_variant"	"-/746"	"-/495"	"-/165"	""	""	""	"1"	NA	-1	"VEPH1"	"HGNC"	25735	"protein_coding"	""	""	"ENSP00000420097"	""	"C9JRT0,C9J4U8,C9J379"	"UPI0001B7967B"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"767d7812-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294117647058824	"WGS"	FALSE
"16903"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	157616150	157616150	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"87"	20	64	"64"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"767d7de4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186915887850467	"WGS"	FALSE
"16904"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	160404212	160404212	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs769397876"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"64"	32	52	"51"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs769397876"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"767dc0ba-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"16905"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	161589633	161589633	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	122	"102"	20	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"767ddef6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.163934426229508	"WGS"	FALSE
"16906"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	161731228	161731228	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	131	"95"	36	59	"59"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"767de112-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274809160305344	"WGS"	FALSE
"16907"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	162067614	162067614	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"84"	34	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"767dead6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.288135593220339	"WGS"	FALSE
"16908"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	162525046	162525046	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	137	"125"	12	74	"74"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"767dfac6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0875912408759124	"WGS"	FALSE
"16909"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	163314046	163314046	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"80"	29	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"767e1808-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26605504587156	"WGS"	FALSE
"16910"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	163398768	163398768	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	124	"94"	30	60	"60"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"767e1970-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241935483870968	"WGS"	FALSE
"16911"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	163608347	163608347	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"102"	18	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"767e1e2a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WGS"	FALSE
"16912"	"RP11-208P4.1"	0	"mskcc.org"	"GRCh37"	"3"	163719781	163719781	"+"	"RNA"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.473C>A"	""	""	"ENST00000483240"	"1/1"	93	"69"	24	68	"68"	0	"RP11-208P4.1,non_coding_transcript_exon_variant,,ENST00000483240,;"	"T"	"ENSG00000214210"	"ENST00000483240"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"473/860"	""	""	""	""	""	"1"	NA	-1	"RP11-208P4.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"767e2302-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258064516129032	"WGS"	FALSE
"16913"	"RP11-71H9.1"	0	"mskcc.org"	"GRCh37"	"3"	164534390	164534390	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.67+14812T>C"	""	""	"ENST00000497379"	""	109	"82"	27	74	"74"	0	"RP11-71H9.1,intron_variant,,ENST00000497379,;"	"G"	"ENSG00000241767"	"ENST00000497379"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/838"	""	""	""	""	""	"1"	NA	-1	"RP11-71H9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"767e3b9e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247706422018349	"WGS"	FALSE
"16914"	"RP11-85M11.2"	0	"mskcc.org"	"GRCh37"	"3"	165276764	165276764	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.312+9827G>T"	""	""	"ENST00000496693"	""	117	"83"	34	69	"69"	0	"RP11-85M11.2,intron_variant,,ENST00000496693,;RP11-85M11.2,intron_variant,,ENST00000470138,;"	"T"	"ENSG00000244128"	"ENST00000496693"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1075"	""	""	""	""	""	"1"	NA	1	"RP11-85M11.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"767e52d2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290598290598291	"WGS"	FALSE
"16915"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	165890553	165890553	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	126	"100"	26	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"767e679a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206349206349206	"WGS"	FALSE
"16916"	"CBX1P5"	0	"mskcc.org"	"GRCh37"	"3"	166533932	166533932	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000475330"	""	115	"96"	19	44	"44"	0	"CBX1P5,downstream_gene_variant,,ENST00000475330,;"	"C"	"ENSG00000231516"	"ENST00000475330"	"Transcript"	"downstream_gene_variant"	"-/559"	""	""	""	""	""	"1"	"4577"	1	"CBX1P5"	"HGNC"	21006	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"767e7550-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.165217391304348	"WGS"	FALSE
"16917"	"RPL21P43"	0	"mskcc.org"	"GRCh37"	"3"	168577964	168577964	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000425440"	""	104	"82"	22	68	"68"	0	"RPL21P43,upstream_gene_variant,,ENST00000425440,;"	"T"	"ENSG00000231688"	"ENST00000425440"	"Transcript"	"upstream_gene_variant"	"-/472"	""	""	""	""	""	"1"	"1046"	-1	"RPL21P43"	"HGNC"	36008	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"767ea9a8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211538461538462	"WGS"	FALSE
"16918"	"TNIK"	23043	"mskcc.org"	"GRCh37"	"3"	171008567	171008567	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.124-62557A>C"	""	""	"ENST00000436636"	""	103	"79"	24	64	"64"	0	"TNIK,intron_variant,,ENST00000436636,NM_015028.2;TNIK,intron_variant,,ENST00000369326,NM_001161560.1,NM_001161566.1,NM_001161562.1,NM_001161561.1;TNIK,intron_variant,,ENST00000538048,NM_001161564.1,NM_001161563.1;TNIK,intron_variant,,ENST00000341852,NM_001161565.1;TNIK,intron_variant,,ENST00000284483,;TNIK,intron_variant,,ENST00000357327,;TNIK,intron_variant,,ENST00000470834,;TNIK,intron_variant,,ENST00000488470,;TNIK,intron_variant,,ENST00000460047,;TNIK,intron_variant,,ENST00000475336,;"	"G"	"ENSG00000154310"	"ENST00000436636"	"Transcript"	"intron_variant"	"-/6970"	"-/4083"	"-/1360"	""	""	""	"1"	NA	-1	"TNIK"	"HGNC"	30765	"protein_coding"	"YES"	"CCDS46956.1"	"ENSP00000399511"	"Q9UKE5"	""	"UPI000003ABDF"	"NM_015028.2"	""	""	""	"2/32"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"767ef34a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233009708737864	"WGS"	FALSE
"16919"	"NLGN1"	22871	"mskcc.org"	"GRCh37"	"3"	173987677	173987677	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.647-5428G>C"	""	""	"ENST00000457714"	""	124	"103"	21	71	"71"	0	"NLGN1,intron_variant,,ENST00000457714,NM_014932.3;NLGN1,intron_variant,,ENST00000361589,;NLGN1,intron_variant,,ENST00000545397,;NLGN1,intron_variant,,ENST00000401917,;NLGN1,intron_variant,,ENST00000415045,;NLGN1,intron_variant,,ENST00000466350,;NLGN1,intron_variant,,ENST00000469727,;NLGN1,intron_variant,,ENST00000469564,;NLGN1,intron_variant,,ENST00000490929,;"	"C"	"ENSG00000169760"	"ENST00000457714"	"Transcript"	"intron_variant"	"-/8242"	"-/2472"	"-/823"	""	""	""	"1"	NA	1	"NLGN1"	"HGNC"	14291	"protein_coding"	"YES"	"CCDS3222.1"	"ENSP00000392500"	"Q8N2Q7"	""	"UPI0000072F54"	"NM_014932.3"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"767f46ec-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.169354838709677	"WGS"	FALSE
"16920"	"LINC00578"	100505566	"mskcc.org"	"GRCh37"	"3"	177308788	177308788	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.290-38417C>T"	""	""	"ENST00000442937"	""	95	"74"	21	63	"63"	0	"LINC00578,intron_variant,,ENST00000442937,;LINC00578,intron_variant,,ENST00000439009,;"	"T"	"ENSG00000228221"	"ENST00000442937"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/612"	""	""	""	""	""	"1"	NA	1	"LINC00578"	"HGNC"	43807	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"767facb8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221052631578947	"WGS"	FALSE
"16921"	"PEX5L"	51555	"mskcc.org"	"GRCh37"	"3"	179725045	179725045	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.21+29322G>A"	""	""	"ENST00000467460"	""	78	"61"	17	74	"74"	0	"PEX5L,intron_variant,,ENST00000467460,NM_001256751.1,NM_016559.2;PEX5L,intron_variant,,ENST00000485199,NM_001256752.1;PEX5L,intron_variant,,ENST00000263962,NM_001256750.1;PEX5L,intron_variant,,ENST00000472994,NM_001256753.1;PEX5L,intron_variant,,ENST00000465751,;PEX5L,intron_variant,,ENST00000474909,;"	"T"	"ENSG00000114757"	"ENST00000467460"	"Transcript"	"intron_variant"	"-/9082"	"-/1881"	"-/626"	""	""	""	"1"	NA	-1	"PEX5L"	"HGNC"	30024	"protein_coding"	"YES"	"CCDS3236.1"	"ENSP00000419975"	"Q8IYB4"	"C9JZE2,C9IZ09"	"UPI0000049CE2"	"NM_001256751.1,NM_016559.2"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"767ff376-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217948717948718	"WGS"	FALSE
"16922"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	182313796	182313796	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"68"	24	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76803980-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260869565217391	"WGS"	FALSE
"16923"	"ENSR00001749130"	0	"mskcc.org"	"GRCh37"	"3"	183154245	183154245	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001749130"	""	80	"75"	5	53	"53"	0	""	"T"	""	"ENSR00001749130"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"76805ad2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"16924"	"EHHADH"	1962	"mskcc.org"	"GRCh37"	"3"	184976561	184976561	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000231887"	""	73	"68"	5	44	"44"	0	"EHHADH,upstream_gene_variant,,ENST00000231887,NM_001166415.1,NM_001966.3;EHHADH,upstream_gene_variant,,ENST00000456310,;EHHADH,upstream_gene_variant,,ENST00000440662,;EHHADH,intron_variant,,ENST00000465178,;EHHADH,upstream_gene_variant,,ENST00000475987,;"	"C"	"ENSG00000113790"	"ENST00000231887"	"Transcript"	"upstream_gene_variant"	"-/3850"	"-/2172"	"-/723"	""	""	""	"1"	"4675"	-1	"EHHADH"	"HGNC"	3247	"protein_coding"	"YES"	"CCDS33901.1"	"ENSP00000231887"	"Q08426"	""	"UPI000013C959"	"NM_001166415.1,NM_001966.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTT"	"76809e0c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0684931506849315	"WGS"	FALSE
"16925"	"DGKG"	1608	"mskcc.org"	"GRCh37"	"3"	185854973	185854973	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.131+24419T>C"	""	""	"ENST00000447054"	""	69	"61"	8	44	"44"	0	"DGKG,intron_variant,,ENST00000447054,;"	"G"	"ENSG00000058866"	"ENST00000447054"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/295"	""	""	""	""	""	"1"	NA	-1	"DGKG"	"HGNC"	2853	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"7680d03e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115942028985507	"WGS"	FALSE
"16926"	"DGKG"	1608	"mskcc.org"	"GRCh37"	"3"	185974305	185974305	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1510+1338G>T"	""	""	"ENST00000265022"	""	98	"78"	20	79	"79"	0	"DGKG,intron_variant,,ENST00000265022,NM_001080744.1,NM_001346.2,NM_001080745.1;DGKG,intron_variant,,ENST00000344484,;DGKG,intron_variant,,ENST00000544847,;DGKG,intron_variant,,ENST00000382164,;DGKG,intron_variant,,ENST00000480809,;DGKG,downstream_gene_variant,,ENST00000480933,;"	"A"	"ENSG00000058866"	"ENST00000265022"	"Transcript"	"intron_variant"	"-/5805"	"-/2376"	"-/791"	""	""	""	"1"	NA	-1	"DGKG"	"HGNC"	2853	"protein_coding"	"YES"	"CCDS3274.1"	"ENSP00000265022"	"P49619"	""	"UPI000013D5AB"	"NM_001080744.1,NM_001346.2,NM_001080745.1"	""	""	""	"17/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7680d200-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204081632653061	"WGS"	FALSE
"16927"	"RP11-48F14.1"	253573	"mskcc.org"	"GRCh37"	"3"	186172884	186172884	"+"	"RNA"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2181A>T"	""	""	"ENST00000427914"	"8/8"	78	"67"	11	51	"51"	0	"RP11-48F14.1,non_coding_transcript_exon_variant,,ENST00000427914,;RP11-48F14.1,non_coding_transcript_exon_variant,,ENST00000427474,;RP11-48F14.1,downstream_gene_variant,,ENST00000441169,;RP11-48F14.1,downstream_gene_variant,,ENST00000458099,;RP11-78H24.1,downstream_gene_variant,,ENST00000434896,;"	"A"	"ENSG00000224406"	"ENST00000427914"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"2181/2285"	""	""	""	""	""	"1"	NA	-1	"RP11-48F14.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"8/8"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"7680d6a6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141025641025641	"WGS"	FALSE
"16928"	"AC090505.1"	0	"mskcc.org"	"GRCh37"	"3"	194556862	194556862	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000427064"	""	90	"72"	18	69	"69"	0	"AC090505.1,downstream_gene_variant,,ENST00000427064,;"	"A"	"ENSG00000238031"	"ENST00000427064"	"Transcript"	"downstream_gene_variant"	"-/464"	""	""	""	""	""	"1"	"3541"	1	"AC090505.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"7681cd5e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16929"	"PPP1R2"	5504	"mskcc.org"	"GRCh37"	"3"	195263708	195263708	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.122+6019G>A"	""	""	"ENST00000328432"	""	92	"72"	20	62	"62"	0	"PPP1R2,intron_variant,,ENST00000328432,NM_006241.4;PPP1R2,intron_variant,,ENST00000438848,;PPP1R2,intron_variant,,ENST00000462906,;PPP1R2,intron_variant,,ENST00000413183,;"	"T"	"ENSG00000184203"	"ENST00000328432"	"Transcript"	"intron_variant"	"-/3452"	"-/618"	"-/205"	""	""	""	"1"	NA	-1	"PPP1R2"	"HGNC"	9288	"protein_coding"	"YES"	"CCDS3309.1"	"ENSP00000328178"	"P41236"	""	"UPI0000049C96"	"NM_006241.4"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7682515c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"16930"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	196168987	196168987	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"32"	6	31	"31"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76832014-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"16931"	"PIGX"	54965	"mskcc.org"	"GRCh37"	"3"	196411624	196411624	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-12+30106T>G"	""	""	"ENST00000426755"	""	71	"63"	8	36	"36"	0	"PIGX,intron_variant,,ENST00000426755,;"	"G"	"ENSG00000163964"	"ENST00000426755"	"Transcript"	"intron_variant"	"-/744"	"-/511"	"-/170"	""	""	""	"1"	NA	1	"PIGX"	"HGNC"	26046	"protein_coding"	""	""	"ENSP00000409073"	""	"C9JLT7,C9JF71"	"UPI000198CC79"	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"76832f28-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112676056338028	"WGS"	FALSE
"16932"	"PIGX"	54965	"mskcc.org"	"GRCh37"	"3"	196411628	196411628	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-12+30110C>T"	""	""	"ENST00000426755"	""	76	"68"	8	37	"37"	0	"PIGX,intron_variant,,ENST00000426755,;"	"T"	"ENSG00000163964"	"ENST00000426755"	"Transcript"	"intron_variant"	"-/744"	"-/511"	"-/170"	""	""	""	"1"	NA	1	"PIGX"	"HGNC"	26046	"protein_coding"	""	""	"ENSP00000409073"	""	"C9JLT7,C9JF71"	"UPI000198CC79"	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"76832f82-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"16933"	"RP11-496H1.1"	0	"mskcc.org"	"GRCh37"	"3"	197364858	197364858	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"rs76614132"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000507981"	""	52	"48"	4	33	"33"	0	"RP11-496H1.1,downstream_gene_variant,,ENST00000507981,;"	"G"	"ENSG00000249626"	"ENST00000507981"	"Transcript"	"downstream_gene_variant"	"-/1497"	""	""	""	""	"rs76614132"	"1"	"2176"	1	"RP11-496H1.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"768390bc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0769230769230769	"WGS"	FALSE
"16934"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	556512	556512	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	61	"57"	4	41	"41"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7684aa9c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0655737704918033	"WGS"	FALSE
"16935"	"PDE6B"	5158	"mskcc.org"	"GRCh37"	"4"	664470	664470	"+"	"3'UTR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*574A>C"	""	""	"ENST00000496514"	"22/22"	90	"72"	18	54	"54"	0	"PDE6B,3_prime_UTR_variant,,ENST00000255622,NM_000283.3,NM_001145291.1;PDE6B,3_prime_UTR_variant,,ENST00000496514,;MYL5,upstream_gene_variant,,ENST00000506838,;PDE6B,downstream_gene_variant,,ENST00000429163,NM_001145292.1;MYL5,upstream_gene_variant,,ENST00000511290,;MYL5,upstream_gene_variant,,ENST00000505477,;PDE6B,downstream_gene_variant,,ENST00000471824,;PDE6B,downstream_gene_variant,,ENST00000461490,;ATP5I,downstream_gene_variant,,ENST00000304312,NM_007100.3;ATP5I,downstream_gene_variant,,ENST00000506525,;ATP5I,downstream_gene_variant,,ENST00000505852,;MYL5,upstream_gene_variant,,ENST00000503300,;MYL5,upstream_gene_variant,,ENST00000502720,;ATP5I,downstream_gene_variant,,ENST00000515202,;ATP5I,downstream_gene_variant,,ENST00000515116,;"	"C"	"ENSG00000133256"	"ENST00000496514"	"Transcript"	"3_prime_UTR_variant"	"3160/3232"	"-/2565"	"-/854"	""	""	""	"1"	NA	1	"PDE6B"	"HGNC"	8786	"protein_coding"	"YES"	"CCDS33932.1"	"ENSP00000420295"	"P35913"	"H7C4P9,C9J628"	"UPI0000DBEE72"	""	""	""	"22/22"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"7684b6cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16936"	"MAEA"	10296	"mskcc.org"	"GRCh37"	"4"	1317728	1317728	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.579+1437G>C"	""	""	"ENST00000303400"	""	75	"70"	5	59	"59"	0	"MAEA,intron_variant,,ENST00000303400,NM_001017405.1;MAEA,intron_variant,,ENST00000264750,NM_005882.3;MAEA,intron_variant,,ENST00000514708,;MAEA,intron_variant,,ENST00000510794,;MAEA,intron_variant,,ENST00000505839,;MAEA,intron_variant,,ENST00000505177,;MAEA,intron_variant,,ENST00000452175,;MAEA,intron_variant,,ENST00000503653,;MAEA,intron_variant,,ENST00000502558,;MAEA,downstream_gene_variant,,ENST00000512842,;MAEA,intron_variant,,ENST00000503693,;MAEA,intron_variant,,ENST00000509531,;MAEA,intron_variant,,ENST00000512308,;MAEA,intron_variant,,ENST00000509254,;MAEA,downstream_gene_variant,,ENST00000513301,;"	"C"	"ENSG00000090316"	"ENST00000303400"	"Transcript"	"intron_variant"	"-/2222"	"-/1191"	"-/396"	""	""	""	"1"	NA	1	"MAEA"	"HGNC"	13731	"protein_coding"	"YES"	"CCDS33936.1"	"ENSP00000302830"	"Q7L5Y9"	"D6RID6,D3DVP1,B4DQT1,B3KXS8"	"UPI00000343F4"	"NM_001017405.1"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"768503d4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0666666666666667	"WGS"	FALSE
"16937"	"ENSR00001751331"	0	"mskcc.org"	"GRCh37"	"4"	1785557	1785557	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001751331"	""	86	"79"	7	56	"56"	0	""	"T"	""	"ENSR00001751331"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7685564a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0813953488372093	"WGS"	FALSE
"16938"	"POLN"	353497	"mskcc.org"	"GRCh37"	"4"	2191568	2191568	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1021+3363G>A"	""	""	"ENST00000511885"	""	50	"45"	5	47	"47"	0	"POLN,intron_variant,,ENST00000511885,;POLN,intron_variant,,ENST00000382865,NM_181808.2;POLN,intron_variant,,ENST00000515357,;POLN,intron_variant,,ENST00000514858,;"	"T"	"ENSG00000130997"	"ENST00000511885"	"Transcript"	"intron_variant"	"-/3253"	"-/2703"	"-/900"	""	""	""	"1"	NA	-1	"POLN"	"HGNC"	18870	"protein_coding"	"YES"	"CCDS3360.1"	"ENSP00000435506"	"Q7Z5Q5"	""	"UPI0000246FC3"	""	""	""	""	"7/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"7685618a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"16939"	"RGS12"	6002	"mskcc.org"	"GRCh37"	"4"	3388314	3388314	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2020+150G>T"	""	""	"ENST00000344733"	""	71	"65"	6	70	"70"	0	"RGS12,intron_variant,,ENST00000336727,NM_002926.3;RGS12,intron_variant,,ENST00000382788,;RGS12,intron_variant,,ENST00000344733,NM_198229.2;RGS12,intron_variant,,ENST00000338806,NM_198227.1;RGS12,intron_variant,,ENST00000543385,;RGS12,intron_variant,,ENST00000538395,;RGS12,intron_variant,,ENST00000306648,;RGS12,intron_variant,,ENST00000508158,;RGS12,intron_variant,,ENST00000513784,;RGS12,intron_variant,,ENST00000503041,;RGS12,intron_variant,,ENST00000512990,;RGS12,intron_variant,,ENST00000505570,;RGS12,intron_variant,,ENST00000504194,;RGS12,intron_variant,,ENST00000514268,;RGS12,intron_variant,,ENST00000506998,;RGS12,intron_variant,,ENST00000506631,;"	"T"	"ENSG00000159788"	"ENST00000344733"	"Transcript"	"intron_variant"	"-/5469"	"-/4344"	"-/1447"	""	""	""	"1"	NA	1	"RGS12"	"HGNC"	9994	"protein_coding"	"YES"	"CCDS3366.1"	"ENSP00000339381"	"O14924"	"Q69YN1,Q56A82,E9PBG5"	"UPI0000133830"	"NM_198229.2"	""	""	""	"4/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"768594ac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"16940"	"ENSR00001751679"	0	"mskcc.org"	"GRCh37"	"4"	3734083	3734083	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001751679"	""	91	"65"	26	69	"69"	0	""	"A"	""	"ENSR00001751679"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"7685deee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"16941"	"C4orf50"	389197	"mskcc.org"	"GRCh37"	"4"	5991926	5991926	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"rs147789151"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000531445"	""	74	"56"	18	58	"58"	0	"C4orf50,upstream_gene_variant,,ENST00000531445,;C4orf50,upstream_gene_variant,,ENST00000324058,;"	"T"	"ENSG00000181215"	"ENST00000531445"	"Transcript"	"upstream_gene_variant"	"-/4557"	"-/2253"	"-/750"	""	""	"rs147789151"	"1"	"381"	-1	"C4orf50"	"HGNC"	33766	"protein_coding"	"YES"	""	"ENSP00000437121"	""	"E9PNW5"	"UPI0001F7863C"	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"768656b2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.243243243243243	"WGS"	FALSE
"16942"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	11572080	11572080	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"76"	20	83	"83"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"7687a530-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WGS"	FALSE
"16943"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	12329754	12329754	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs139078370"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	122	"103"	19	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139078370"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7687c10a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155737704918033	"WGS"	FALSE
"16944"	"RP11-341G5.1"	101929071	"mskcc.org"	"GRCh37"	"4"	13727809	13727809	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.281+68331A>G"	""	""	"ENST00000510907"	""	101	"89"	12	49	"49"	0	"RP11-341G5.1,intron_variant,,ENST00000510907,;"	"G"	"ENSG00000250634"	"ENST00000510907"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2228"	""	""	""	""	""	"1"	NA	1	"RP11-341G5.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"7687e7fc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.118811881188119	"WGS"	FALSE
"16945"	"CPEB2"	132864	"mskcc.org"	"GRCh37"	"4"	15046159	15046159	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2200+4048T>C"	""	""	"ENST00000538197"	""	124	"99"	25	72	"72"	0	"CPEB2,intron_variant,,ENST00000538197,NM_001177382.1;CPEB2,intron_variant,,ENST00000541112,NM_182485.2;CPEB2,intron_variant,,ENST00000442003,NM_001177381.1,NM_001177383.1;CPEB2,intron_variant,,ENST00000259997,;CPEB2,intron_variant,,ENST00000382395,;CPEB2,intron_variant,,ENST00000382401,NM_001177384.1,NM_182646.2;CPEB2,intron_variant,,ENST00000507071,;CPEB2,intron_variant,,ENST00000345451,;RP11-665G4.1,intron_variant,,ENST00000502344,;RP11-665G4.1,intron_variant,,ENST00000513384,;"	"C"	"ENSG00000137449"	"ENST00000538197"	"Transcript"	"intron_variant"	"-/6878"	"-/3105"	"-/1034"	""	""	""	"1"	NA	1	"CPEB2"	"HGNC"	21745	"protein_coding"	"YES"	"CCDS56325.1"	"ENSP00000443985"	""	"J3KN18,H0Y9D9,F5H160"	"UPI0001D0434B"	"NM_001177382.1"	""	""	""	"6/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"76881524-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.201612903225806	"WGS"	FALSE
"16946"	"LDB2"	9079	"mskcc.org"	"GRCh37"	"4"	16878905	16878905	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.132+21072C>A"	""	""	"ENST00000304523"	""	98	"73"	25	74	"74"	0	"LDB2,intron_variant,,ENST00000502640,;LDB2,intron_variant,,ENST00000304523,NM_001290.3;LDB2,intron_variant,,ENST00000441778,NM_001130834.1;LDB2,intron_variant,,ENST00000515064,;LDB2,intron_variant,,ENST00000506732,;LDB2,intron_variant,,ENST00000510825,;LDB2,intron_variant,,ENST00000504189,;LDB2,intron_variant,,ENST00000508918,;LDB2,intron_variant,,ENST00000512345,;"	"T"	"ENSG00000169744"	"ENST00000304523"	"Transcript"	"intron_variant"	"-/2548"	"-/1122"	"-/373"	""	""	""	"1"	NA	-1	"LDB2"	"HGNC"	6533	"protein_coding"	"YES"	"CCDS3420.1"	"ENSP00000306772"	"O43679"	"Q4W5E7,D6RAT1"	"UPI0000073D86"	"NM_001290.3"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"76884288-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255102040816327	"WGS"	FALSE
"16947"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	17331479	17331479	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"90"	22	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76884d64-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196428571428571	"WGS"	FALSE
"16948"	"RP11-608O21.1"	0	"mskcc.org"	"GRCh37"	"4"	19875759	19875759	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.408+17741T>A"	""	""	"ENST00000511431"	""	107	"95"	12	77	"77"	0	"RP11-608O21.1,intron_variant,,ENST00000511431,;"	"A"	"ENSG00000248515"	"ENST00000511431"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/889"	""	""	""	""	""	"1"	NA	1	"RP11-608O21.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"76888a86-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.11214953271028	"WGS"	FALSE
"16949"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	20692535	20692535	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"76"	5	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"7688a0ac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"16950"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	23164288	23164288	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"88"	32	61	"61"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"7688e31e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"16951"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	24632253	24632253	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"73"	19	71	"71"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"76891064-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206521739130435	"WGS"	FALSE
"16952"	"STIM2"	57620	"mskcc.org"	"GRCh37"	"4"	26880852	26880852	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.151+17861T>C"	""	""	"ENST00000465503"	""	99	"77"	22	67	"67"	0	"STIM2,intron_variant,,ENST00000382009,NM_001169118.1;STIM2,intron_variant,,ENST00000237364,;STIM2,intron_variant,,ENST00000467087,NM_020860.3;STIM2,intron_variant,,ENST00000467011,NM_001169117.1;STIM2,intron_variant,,ENST00000412829,;STIM2,intron_variant,,ENST00000465503,;STIM2,intron_variant,,ENST00000463501,;STIM2,intron_variant,,ENST00000494628,;STIM2,intron_variant,,ENST00000478049,;RP11-293A21.2,upstream_gene_variant,,ENST00000511723,;"	"C"	"ENSG00000109689"	"ENST00000465503"	"Transcript"	"intron_variant"	"-/3613"	"-/2265"	"-/754"	""	""	""	"1"	NA	1	"STIM2"	"HGNC"	19205	"protein_coding"	"YES"	"CCDS54751.1"	"ENSP00000417569"	""	"R4GNC5,R4GN82,R4GMP0,Q05BJ5,H0Y860"	"UPI0001B79443"	""	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"76895d3a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"16953"	"RP11-123O22.1"	0	"mskcc.org"	"GRCh37"	"4"	28583976	28583976	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs184480396"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.483+4358C>T"	""	""	"ENST00000509416"	""	129	"98"	31	76	"76"	0	"RP11-123O22.1,intron_variant,,ENST00000509416,;"	"T"	"ENSG00000250064"	"ENST00000509416"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/712"	""	""	""	""	"rs184480396"	"1"	NA	1	"RP11-123O22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	"T:0.0026"	"T:0.0091"	"T:0"	NA	"T:0"	"T:0"	"T:0.001"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"7689955c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24031007751938	"WGS"	FALSE
"16954"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	28861323	28861323	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"86"	16	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"768999e4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.156862745098039	"WGS"	FALSE
"16955"	"RP11-472K22.1"	0	"mskcc.org"	"GRCh37"	"4"	29121057	29121057	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.468+573T>A"	""	""	"ENST00000503299"	""	132	"97"	35	68	"68"	0	"RP11-472K22.1,intron_variant,,ENST00000503299,;"	"A"	"ENSG00000248176"	"ENST00000503299"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/758"	""	""	""	""	""	"1"	NA	1	"RP11-472K22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7689a0ec-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265151515151515	"WGS"	FALSE
"16956"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	29253112	29253112	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"107"	14	70	"70"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"7689a7f4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115702479338843	"WGS"	FALSE
"16957"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	29308584	29308584	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"85"	27	74	"74"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7689abb4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241071428571429	"WGS"	FALSE
"16958"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	29692421	29692421	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	55	"43"	12	34	"34"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7689b794-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218181818181818	"WGS"	FALSE
"16959"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	29797335	29797335	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"77"	15	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7689b9a6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16304347826087	"WGS"	FALSE
"16960"	"PCDH7"	5099	"mskcc.org"	"GRCh37"	"4"	31138002	31138002	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3392-6093G>A"	""	""	"ENST00000543491"	""	119	"111"	8	54	"54"	0	"PCDH7,intron_variant,,ENST00000511884,NM_001173523.1,NM_032457.3;PCDH7,intron_variant,,ENST00000543491,;PCDH7,intron_variant,,ENST00000509759,;"	"A"	"ENSG00000169851"	"ENST00000543491"	"Transcript"	"intron_variant"	"-/3768"	"-/3768"	"-/1255"	""	""	""	"1"	NA	1	"PCDH7"	"HGNC"	8659	"protein_coding"	"YES"	"CCDS54753.1"	"ENSP00000441802"	""	"F5GWJ1"	"UPI0001CB27C3"	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7689daa8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0672268907563025	"WGS"	FALSE
"16961"	"RP11-734I18.1"	0	"mskcc.org"	"GRCh37"	"4"	32110215	32110215	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.427-37460C>G"	""	""	"ENST00000513211"	""	108	"102"	6	72	"72"	0	"RP11-734I18.1,intron_variant,,ENST00000513211,;"	"G"	"ENSG00000251129"	"ENST00000513211"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/734"	""	""	""	""	""	"1"	NA	1	"RP11-734I18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7689fbaa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"16962"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	32563503	32563503	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	130	"122"	8	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"768a050a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0615384615384615	"WGS"	FALSE
"16963"	"RP11-79E3.3"	101928622	"mskcc.org"	"GRCh37"	"4"	33908632	33908632	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.424-8691C>G"	""	""	"ENST00000505018"	""	134	"112"	22	62	"62"	0	"RP11-79E3.3,intron_variant,,ENST00000505018,;RP11-79E3.2,intron_variant,,ENST00000506650,;RP11-79E3.2,intron_variant,,ENST00000505326,;RP11-79E3.3,intron_variant,,ENST00000512581,;RP11-79E3.2,intron_variant,,ENST00000515733,;"	"C"	"ENSG00000250954"	"ENST00000505018"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2404"	""	""	""	""	""	"1"	NA	-1	"RP11-79E3.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"768a294a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164179104477612	"WGS"	FALSE
"16964"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	35154284	35154284	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs10025866"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"84"	21	74	"74"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs10025866"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"768a448e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"16965"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	37212780	37212780	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"80"	26	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"768a7ddc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245283018867925	"WGS"	FALSE
"16966"	"KIAA1239"	57495	"mskcc.org"	"GRCh37"	"4"	37364443	37364443	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.357+6339A>T"	""	""	"ENST00000309447"	""	119	"93"	26	65	"65"	0	"KIAA1239,intron_variant,,ENST00000309447,NM_001144990.1;"	"T"	"ENSG00000174145"	"ENST00000309447"	"Transcript"	"intron_variant"	"-/8325"	"-/5229"	"-/1742"	""	""	""	"1"	NA	1	"KIAA1239"	"HGNC"	29229	"protein_coding"	"YES"	"CCDS47040.1"	"ENSP00000309501"	"Q9ULI1"	""	"UPI00006C0875"	"NM_001144990.1"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"768a800c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218487394957983	"WGS"	FALSE
"16967"	"N4BP2"	55728	"mskcc.org"	"GRCh37"	"4"	40058272	40058272	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000261435"	""	32	"27"	5	25	"25"	0	"N4BP2,upstream_gene_variant,,ENST00000261435,NM_018177.4;N4BP2,upstream_gene_variant,,ENST00000515550,;RP11-333E13.4,intron_variant,,ENST00000381811,;N4BP2,upstream_gene_variant,,ENST00000511480,;"	"A"	"ENSG00000078177"	"ENST00000261435"	"Transcript"	"upstream_gene_variant"	"-/9744"	"-/5313"	"-/1770"	""	""	""	"1"	"174"	1	"N4BP2"	"HGNC"	29851	"protein_coding"	"YES"	"CCDS3457.1"	"ENSP00000261435"	"Q86UW6"	"D6R9J2"	"UPI00001A962C"	"NM_018177.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"768ada66-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15625	"WGS"	FALSE
"16968"	"RP11-227F19.1"	0	"mskcc.org"	"GRCh37"	"4"	41827664	41827664	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000508038"	""	82	"63"	19	73	"73"	0	"RP11-227F19.1,downstream_gene_variant,,ENST00000508038,;"	"A"	"ENSG00000250467"	"ENST00000508038"	"Transcript"	"downstream_gene_variant"	"-/907"	""	""	""	""	""	"1"	"1528"	1	"RP11-227F19.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"768b14a4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231707317073171	"WGS"	FALSE
"16969"	"RP11-63A11.1"	0	"mskcc.org"	"GRCh37"	"4"	42380087	42380087	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.59+13105A>T"	""	""	"ENST00000503321"	""	81	"62"	19	46	"46"	0	"RP11-63A11.1,intron_variant,,ENST00000503321,;RP11-63A11.1,intron_variant,,ENST00000515392,;RP11-63A11.1,intron_variant,,ENST00000508911,;"	"A"	"ENSG00000250781"	"ENST00000503321"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/598"	""	""	""	""	""	"1"	NA	-1	"RP11-63A11.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"768b2656-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234567901234568	"WGS"	FALSE
"16970"	"ATP8A1"	10396	"mskcc.org"	"GRCh37"	"4"	42514198	42514198	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs570534775"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1948-5027C>T"	""	""	"ENST00000381668"	""	133	"98"	35	83	"83"	0	"ATP8A1,intron_variant,,ENST00000381668,NM_006095.2;ATP8A1,intron_variant,,ENST00000264449,NM_001105529.1;"	"A"	"ENSG00000124406"	"ENST00000381668"	"Transcript"	"intron_variant"	"-/8270"	"-/3495"	"-/1164"	""	""	"rs570534775"	"1"	NA	-1	"ATP8A1"	"HGNC"	13531	"protein_coding"	"YES"	"CCDS3466.1"	"ENSP00000371084"	"Q9Y2Q0"	"H0YAJ4"	"UPI0000125063"	"NM_006095.2"	""	""	""	"22/36"	""	"A:0.0002"	"A:0"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"768b2c96-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"16971"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	42789918	42789918	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"86"	22	76	"76"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"768b365a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203703703703704	"WGS"	FALSE
"16972"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	43424265	43424265	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"93"	13	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"768b4910-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122641509433962	"WGS"	FALSE
"16973"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	43752894	43752894	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	104	"79"	25	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"768b4f00-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240384615384615	"WGS"	FALSE
"16974"	"RP11-328N19.1"	100506827	"mskcc.org"	"GRCh37"	"4"	44017179	44017179	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000512678"	""	115	"107"	8	63	"63"	0	"RP11-328N19.1,upstream_gene_variant,,ENST00000512678,;RP11-328N19.1,upstream_gene_variant,,ENST00000507639,;"	"T"	"ENSG00000251350"	"ENST00000512678"	"Transcript"	"upstream_gene_variant"	"-/2622"	""	""	""	""	""	"1"	"1900"	1	"RP11-328N19.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"768b5842-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0695652173913043	"WGS"	FALSE
"16975"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	45407255	45407255	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"93"	6	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"768b7d68-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"16976"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	45730805	45730805	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"83"	27	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"768b8416-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245454545454545	"WGS"	FALSE
"16977"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	45897079	45897079	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"84"	18	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"768b87a4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"16978"	"GABRA2"	2555	"mskcc.org"	"GRCh37"	"4"	46361270	46361270	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.188-26571G>T"	""	""	"ENST00000510861"	""	129	"96"	33	56	"56"	0	"GABRA2,intron_variant,,ENST00000510861,;GABRA2,intron_variant,,ENST00000514090,;GABRA2,intron_variant,,ENST00000356504,NM_001114175.1;GABRA2,intron_variant,,ENST00000381620,NM_000807.2;GABRA2,intron_variant,,ENST00000515082,;GABRA2,intron_variant,,ENST00000540012,NM_001286827.1;GABRA2,intron_variant,,ENST00000507069,;GABRA2,intron_variant,,ENST00000503806,;GABRA2,intron_variant,,ENST00000506961,;GABRA2,downstream_gene_variant,,ENST00000507460,;GABRA2,intron_variant,,ENST00000510233,;GABRA2,intron_variant,,ENST00000513005,;GABRA2,intron_variant,,ENST00000514193,;"	"A"	"ENSG00000151834"	"ENST00000510861"	"Transcript"	"intron_variant"	"-/3411"	"-/1356"	"-/451"	""	""	""	"1"	NA	-1	"GABRA2"	"HGNC"	4076	"protein_coding"	"YES"	"CCDS3471.1"	"ENSP00000421828"	"P47869"	"Q4W5L8,D6RBL7,D6RBK9,D6RB77"	"UPI000013DC88"	""	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"768b9352-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255813953488372	"WGS"	FALSE
"16979"	"GABRB1"	2560	"mskcc.org"	"GRCh37"	"4"	47100519	47100519	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.241-62747C>A"	""	""	"ENST00000295454"	""	130	"97"	33	73	"73"	0	"GABRB1,intron_variant,,ENST00000295454,NM_000812.3;GABRB1,intron_variant,,ENST00000538619,;GABRB1,intron_variant,,ENST00000513567,;GABRB1,intron_variant,,ENST00000510909,;"	"A"	"ENSG00000163288"	"ENST00000295454"	"Transcript"	"intron_variant"	"-/2143"	"-/1425"	"-/474"	""	""	""	"1"	NA	1	"GABRB1"	"HGNC"	4081	"protein_coding"	"YES"	"CCDS3474.1"	"ENSP00000295454"	"P18505"	"D6REM0"	"UPI000012AFAC"	"NM_000812.3"	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"768ba34c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253846153846154	"WGS"	FALSE
"16980"	"GABRB1"	2560	"mskcc.org"	"GRCh37"	"4"	47321684	47321684	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.462-460C>T"	""	""	"ENST00000295454"	""	107	"81"	26	39	"39"	0	"GABRB1,intron_variant,,ENST00000295454,NM_000812.3;GABRB1,intron_variant,,ENST00000538619,;GABRB1,intron_variant,,ENST00000510909,;"	"T"	"ENSG00000163288"	"ENST00000295454"	"Transcript"	"intron_variant"	"-/2143"	"-/1425"	"-/474"	""	""	""	"1"	NA	1	"GABRB1"	"HGNC"	4081	"protein_coding"	"YES"	"CCDS3474.1"	"ENSP00000295454"	"P18505"	"D6REM0"	"UPI000012AFAC"	"NM_000812.3"	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"768ba9a0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.242990654205607	"WGS"	FALSE
"16981"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	53268359	53268359	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"59"	4	39	"39"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"768ef95c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0634920634920635	"WGS"	FALSE
"16982"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	53268371	53268371	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	71	"67"	4	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"768efa24-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0563380281690141	"WGS"	FALSE
"16983"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	55376160	55376160	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"69"	5	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"768f34c6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0675675675675676	"WGS"	FALSE
"16984"	"SRD5A3"	79644	"mskcc.org"	"GRCh37"	"4"	56227839	56227839	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs185482418"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.364+2184C>T"	""	""	"ENST00000264228"	""	67	"48"	19	54	"54"	0	"SRD5A3,intron_variant,,ENST00000264228,NM_024592.4;SRD5A3,intron_variant,,ENST00000505210,;SRD5A3-AS1,downstream_gene_variant,,ENST00000433175,;SRD5A3-AS1,downstream_gene_variant,,ENST00000510637,;SRD5A3,intron_variant,,ENST00000514398,;"	"T"	"ENSG00000128039"	"ENST00000264228"	"Transcript"	"intron_variant"	"-/4190"	"-/957"	"-/318"	""	""	"rs185482418"	"1"	NA	1	"SRD5A3"	"HGNC"	25812	"protein_coding"	"YES"	"CCDS3498.1"	"ENSP00000264228"	"Q9H8P0"	""	"UPI0000043F70"	"NM_024592.4"	""	""	""	"2/4"	""	"T:0.0026"	"T:0"	"T:0.0014"	NA	"T:0.0109"	"T:0.001"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCG"	"768f4b5a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.283582089552239	"WGS"	FALSE
"16985"	"KIAA1211"	57482	"mskcc.org"	"GRCh37"	"4"	57115529	57115529	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-188-22958T>G"	""	""	"ENST00000264229"	""	67	"62"	5	35	"35"	0	"KIAA1211,intron_variant,,ENST00000264229,NM_020722.1;KIAA1211,intron_variant,,ENST00000503618,;"	"G"	"ENSG00000109265"	"ENST00000264229"	"Transcript"	"intron_variant"	"-/4109"	"-/3702"	"-/1233"	""	""	""	"1"	NA	1	"KIAA1211"	"HGNC"	29219	"protein_coding"	""	"CCDS43230.1"	"ENSP00000264229"	"Q6ZU35"	""	"UPI0000237309"	"NM_020722.1"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"768f627a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0746268656716418	"WGS"	FALSE
"16986"	"RP11-506N2.1"	0	"mskcc.org"	"GRCh37"	"4"	59642778	59642778	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000513551"	""	126	"101"	25	74	"74"	0	"RP11-506N2.1,downstream_gene_variant,,ENST00000513551,;"	"T"	"ENSG00000251339"	"ENST00000513551"	"Transcript"	"downstream_gene_variant"	"-/1061"	""	""	""	""	""	"1"	"4013"	-1	"RP11-506N2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"768fa820-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.198412698412698	"WGS"	FALSE
"16987"	"RP11-725D20.1"	0	"mskcc.org"	"GRCh37"	"4"	60416564	60416564	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000504537"	""	106	"100"	6	73	"73"	0	"RP11-725D20.1,downstream_gene_variant,,ENST00000504537,;"	"T"	"ENSG00000249392"	"ENST00000504537"	"Transcript"	"downstream_gene_variant"	"-/558"	""	""	""	""	""	"1"	"296"	-1	"RP11-725D20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"768fc026-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0566037735849057	"WGS"	FALSE
"16988"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	60671422	60671422	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"98"	8	79	"79"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"768fc986-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0754716981132075	"WGS"	FALSE
"16989"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	61896737	61896737	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"78"	6	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"768fe880-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"16990"	"LPHN3"	23284	"mskcc.org"	"GRCh37"	"4"	62740448	62740448	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1277-17926G>A"	""	""	"ENST00000514591"	""	84	"72"	12	90	"90"	0	"LPHN3,intron_variant,,ENST00000512091,;LPHN3,intron_variant,,ENST00000514591,;LPHN3,intron_variant,,ENST00000545650,NM_015236.4;LPHN3,intron_variant,,ENST00000509896,;LPHN3,intron_variant,,ENST00000511324,;LPHN3,intron_variant,,ENST00000508693,;LPHN3,intron_variant,,ENST00000507164,;LPHN3,intron_variant,,ENST00000506720,;LPHN3,intron_variant,,ENST00000506746,;LPHN3,intron_variant,,ENST00000507625,;LPHN3,intron_variant,,ENST00000506700,;LPHN3,intron_variant,,ENST00000504896,;LPHN3,intron_variant,,ENST00000514157,;LPHN3,intron_variant,,ENST00000508946,;LPHN3,intron_variant,,ENST00000514996,;"	"A"	"ENSG00000150471"	"ENST00000514591"	"Transcript"	"intron_variant"	"-/6297"	"-/4410"	"-/1469"	""	""	""	"1"	NA	1	"LPHN3"	"HGNC"	20974	"protein_coding"	"YES"	"CCDS54768.1"	"ENSP00000422533"	""	"Q4W5J9,E9PE04"	"UPI00016278EF"	""	""	""	""	"8/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"768ffe7e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"16991"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	64143637	64143637	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"rs370305222"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"112"	6	76	"76"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs370305222"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"76901c1a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0508474576271186	"WGS"	FALSE
"16992"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	64925527	64925527	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"83"	22	74	"74"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"76903592-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.20952380952381	"WGS"	FALSE
"16993"	"TECRL"	253017	"mskcc.org"	"GRCh37"	"4"	65227072	65227072	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.286+13818C>A"	""	""	"ENST00000381210"	""	107	"93"	14	78	"78"	0	"TECRL,intron_variant,,ENST00000381210,NM_001010874.4;TECRL,intron_variant,,ENST00000507440,;TECRL,intron_variant,,ENST00000509536,;TECRL,intron_variant,,ENST00000511356,;"	"T"	"ENSG00000205678"	"ENST00000381210"	"Transcript"	"intron_variant"	"-/3573"	"-/1092"	"-/363"	""	""	""	"1"	NA	-1	"TECRL"	"HGNC"	27365	"protein_coding"	"YES"	"CCDS33990.1"	"ENSP00000370607"	"Q5HYJ1"	"D6RBZ3"	"UPI0000141A54"	"NM_001010874.4"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"76904410-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130841121495327	"WGS"	FALSE
"16994"	"RP11-707A18.1"	401134	"mskcc.org"	"GRCh37"	"4"	65819867	65819867	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.240-14113G>T"	""	""	"ENST00000509932"	""	164	"134"	30	78	"78"	0	"RP11-707A18.1,intron_variant,,ENST00000509932,;"	"A"	"ENSG00000250125"	"ENST00000509932"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4079"	""	""	""	""	""	"1"	NA	-1	"RP11-707A18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76905cde-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182926829268293	"WGS"	FALSE
"16995"	"RP11-707A18.1"	401134	"mskcc.org"	"GRCh37"	"4"	65859327	65859327	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.98+10794A>T"	""	""	"ENST00000509932"	""	82	"70"	12	52	"52"	0	"RP11-707A18.1,intron_variant,,ENST00000509932,;"	"A"	"ENSG00000250125"	"ENST00000509932"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/4079"	""	""	""	""	""	"1"	NA	-1	"RP11-707A18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"76905de2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146341463414634	"WGS"	FALSE
"16996"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	66777949	66777949	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"83"	36	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"76907ca0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302521008403361	"WGS"	FALSE
"16997"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	66779562	66779562	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"109"	12	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"76907cfa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0991735537190083	"WGS"	FALSE
"16998"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	67672831	67672831	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	134	"125"	9	75	"75"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"76909028-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0671641791044776	"WGS"	FALSE
"16999"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	67885095	67885095	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	128	"102"	26	66	"66"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76909528-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203125	"WGS"	FALSE
"17000"	"SLC4A4"	8671	"mskcc.org"	"GRCh37"	"4"	72415939	72415939	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2694+2502C>A"	""	""	"ENST00000425175"	""	125	"101"	24	75	"75"	0	"SLC4A4,intron_variant,,ENST00000340595,NM_003759.3;SLC4A4,intron_variant,,ENST00000425175,NM_001134742.1;SLC4A4,intron_variant,,ENST00000264485,NM_001098484.2;SLC4A4,intron_variant,,ENST00000351898,;"	"A"	"ENSG00000080493"	"ENST00000425175"	"Transcript"	"intron_variant"	"-/7596"	"-/3285"	"-/1094"	""	""	""	"1"	NA	1	"SLC4A4"	"HGNC"	11030	"protein_coding"	"YES"	"CCDS47071.1"	"ENSP00000393557"	"Q9Y6R1"	"A5JJ20"	"UPI000152897D"	"NM_001134742.1"	""	""	""	"20/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"76911c0a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192	"WGS"	FALSE
"17001"	"PARM1"	25849	"mskcc.org"	"GRCh37"	"4"	75967997	75967997	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.849-3376G>T"	""	""	"ENST00000307428"	""	93	"76"	17	70	"70"	0	"PARM1,intron_variant,,ENST00000307428,NM_015393.3;PARM1,intron_variant,,ENST00000513238,;"	"T"	"ENSG00000169116"	"ENST00000307428"	"Transcript"	"intron_variant"	"-/5011"	"-/933"	"-/310"	""	""	""	"1"	NA	1	"PARM1"	"HGNC"	24536	"protein_coding"	"YES"	"CCDS47077.1"	"ENSP00000370224"	"Q6UWI2"	""	"UPI000004457B"	"NM_015393.3"	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"76917768-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182795698924731	"WGS"	FALSE
"17002"	"RP11-542G1.1"	0	"mskcc.org"	"GRCh37"	"4"	76193869	76193869	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000505930"	""	55	"34"	21	53	"53"	0	"RP11-542G1.1,downstream_gene_variant,,ENST00000505930,;"	"T"	"ENSG00000251185"	"ENST00000505930"	"Transcript"	"downstream_gene_variant"	"-/469"	""	""	""	""	""	"1"	"409"	-1	"RP11-542G1.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"76917c04-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.381818181818182	"WGS"	FALSE
"17003"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	80306186	80306186	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs149917554"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	126	"119"	7	69	"69"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs149917554"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0.0014"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7691f134-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0555555555555556	"WGS"	FALSE
"17004"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	84093954	84093954	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"73"	6	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"76925e08-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0759493670886076	"WGS"	FALSE
"17005"	"ARHGAP24"	83478	"mskcc.org"	"GRCh37"	"4"	86740684	86740684	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.268+97559G>C"	""	""	"ENST00000395184"	""	112	"89"	23	95	"95"	0	"ARHGAP24,intron_variant,,ENST00000395184,NM_001025616.2,NM_001287805.1;ARHGAP24,intron_variant,,ENST00000395183,NM_001042669.1;ARHGAP24,intron_variant,,ENST00000503995,;ARHGAP24,intron_variant,,ENST00000512201,;"	"C"	"ENSG00000138639"	"ENST00000395184"	"Transcript"	"intron_variant"	"-/4661"	"-/2247"	"-/748"	""	""	""	"1"	NA	1	"ARHGAP24"	"HGNC"	25361	"protein_coding"	"YES"	"CCDS34025.1"	"ENSP00000378611"	"Q8N264"	"D6RHH1,B3KUX7"	"UPI00001AF1D9"	"NM_001025616.2,NM_001287805.1"	""	""	""	"3/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"7692a2a0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205357142857143	"WGS"	FALSE
"17006"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	96798787	96798787	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	149	"117"	32	66	"66"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"7693ac2c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214765100671141	"WGS"	FALSE
"17007"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	96921730	96921730	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"88"	25	71	"71"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"7693aea2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221238938053097	"WGS"	FALSE
"17008"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	97990508	97990508	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"106"	10	78	"78"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"7693bcd0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0862068965517241	"WGS"	FALSE
"17009"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	99113836	99113836	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"95"	8	50	"50"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"7693d44a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0776699029126214	"WGS"	FALSE
"17010"	"RP11-556I14.2"	0	"mskcc.org"	"GRCh37"	"4"	105855803	105855803	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.249-6534G>A"	""	""	"ENST00000515127"	""	102	"85"	17	76	"76"	0	"RP11-556I14.2,intron_variant,,ENST00000515127,;RP11-556I14.1,intron_variant,,ENST00000506148,;RP11-556I14.1,intron_variant,,ENST00000515649,;"	"T"	"ENSG00000248242"	"ENST00000515127"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/575"	""	""	""	""	""	"1"	NA	-1	"RP11-556I14.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7694cae4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"17011"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	107545334	107545334	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"76"	19	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"76950ef0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"17012"	"RP11-286E11.1"	101929595	"mskcc.org"	"GRCh37"	"4"	108846232	108846232	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.149+6895C>A"	""	""	"ENST00000499098"	""	73	"68"	5	53	"53"	0	"RP11-286E11.1,intron_variant,,ENST00000499098,;RP11-286E11.1,intron_variant,,ENST00000513071,;"	"T"	"ENSG00000245293"	"ENST00000499098"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2810"	""	""	""	""	""	"1"	NA	-1	"RP11-286E11.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76954b68-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0684931506849315	"WGS"	FALSE
"17013"	"ELOVL6"	79071	"mskcc.org"	"GRCh37"	"4"	110989016	110989016	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.222-8106A>T"	""	""	"ENST00000394607"	""	94	"73"	21	74	"74"	0	"ELOVL6,intron_variant,,ENST00000394607,;ELOVL6,intron_variant,,ENST00000302274,NM_001130721.1,NM_024090.2;ELOVL6,intron_variant,,ENST00000506625,;ELOVL6,intron_variant,,ENST00000503885,;ELOVL6,intron_variant,,ENST00000506461,;ELOVL6,intron_variant,,ENST00000514184,;"	"A"	"ENSG00000170522"	"ENST00000394607"	"Transcript"	"intron_variant"	"-/6454"	"-/798"	"-/265"	""	""	""	"1"	NA	-1	"ELOVL6"	"HGNC"	15829	"protein_coding"	"YES"	"CCDS3690.1"	"ENSP00000378105"	"Q9H5J4"	"D6RHI2,D6RCU0"	"UPI00000343F5"	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"7695c5e8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223404255319149	"WGS"	FALSE
"17014"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	111495296	111495296	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"88"	26	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"76962c22-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228070175438596	"WGS"	FALSE
"17015"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	112226026	112226026	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"77"	22	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"769649d2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"17016"	"C4orf21"	55345	"mskcc.org"	"GRCh37"	"4"	113537043	113537043	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2602+1553A>C"	""	""	"ENST00000505019"	""	66	"60"	6	39	"39"	0	"C4orf21,intron_variant,,ENST00000505019,NM_018392.4;C4orf21,intron_variant,,ENST00000445203,;C4orf21,intron_variant,,ENST00000309071,;C4orf21,downstream_gene_variant,,ENST00000503172,;C4orf21,intron_variant,,ENST00000473015,;C4orf21,intron_variant,,ENST00000264370,;C4orf21,intron_variant,,ENST00000514770,;C4orf21,downstream_gene_variant,,ENST00000502805,;C4orf21,downstream_gene_variant,,ENST00000512075,;"	"G"	"ENSG00000138658"	"ENST00000505019"	"Transcript"	"intron_variant"	"-/6652"	"-/6315"	"-/2104"	""	""	""	"1"	NA	-1	"C4orf21"	"HGNC"	25654	"protein_coding"	"YES"	"CCDS3700.2"	"ENSP00000424737"	"Q86YA3"	"I3L0G6,D6REN9"	"UPI0000EE2F8F"	"NM_018392.4"	""	""	""	"6/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7696998c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"17017"	"CAMK2D"	817	"mskcc.org"	"GRCh37"	"4"	114685791	114685791	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000342666"	""	100	"81"	19	55	"55"	0	"CAMK2D,upstream_gene_variant,,ENST00000454265,;CAMK2D,upstream_gene_variant,,ENST00000429180,;CAMK2D,upstream_gene_variant,,ENST00000418639,;CAMK2D,upstream_gene_variant,,ENST00000394526,NM_001221.3;CAMK2D,upstream_gene_variant,,ENST00000296402,NM_172128.2,NM_172127.2;CAMK2D,upstream_gene_variant,,ENST00000394524,;CAMK2D,upstream_gene_variant,,ENST00000394522,NM_172114.1;CAMK2D,upstream_gene_variant,,ENST00000511664,;CAMK2D,upstream_gene_variant,,ENST00000342666,;CAMK2D,upstream_gene_variant,,ENST00000505990,;CAMK2D,upstream_gene_variant,,ENST00000379773,NM_172115.2;CAMK2D,upstream_gene_variant,,ENST00000515496,;CAMK2D,upstream_gene_variant,,ENST00000514328,;CAMK2D,upstream_gene_variant,,ENST00000508738,NM_172129.1;CAMK2D,upstream_gene_variant,,ENST00000509907,;CAMK2D,upstream_gene_variant,,ENST00000505132,;"	"T"	"ENSG00000145349"	"ENST00000342666"	"Transcript"	"upstream_gene_variant"	"-/1940"	"-/1500"	"-/499"	""	""	""	"1"	"3567"	-1	"CAMK2D"	"HGNC"	1462	"protein_coding"	"YES"	"CCDS3703.1"	"ENSP00000339740"	"Q13557"	""	"UPI000013FFDA"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"7696d1ae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19	"WGS"	FALSE
"17018"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	116814607	116814607	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"98"	13	70	"70"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"76975192-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117117117117117	"WGS"	FALSE
"17019"	"RP11-659O3.1"	0	"mskcc.org"	"GRCh37"	"4"	116893886	116893886	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.337-50595A>T"	""	""	"ENST00000508414"	""	113	"108"	5	80	"80"	0	"RP11-659O3.1,intron_variant,,ENST00000508414,;"	"A"	"ENSG00000248173"	"ENST00000508414"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/457"	""	""	""	""	""	"1"	NA	-1	"RP11-659O3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"769754e4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0442477876106195	"WGS"	FALSE
"17020"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	117939196	117939196	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"110"	9	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"76978766-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0756302521008403	"WGS"	FALSE
"17021"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	118187343	118187343	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs543740685"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"89"	28	97	"97"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs543740685"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"76978c5c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239316239316239	"WGS"	FALSE
"17022"	"AC113617.1"	0	"mskcc.org"	"GRCh37"	"4"	118284076	118284076	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.158+1414A>G"	""	""	"ENST00000448804"	""	122	"101"	21	74	"74"	0	"AC113617.1,intron_variant,,ENST00000448804,;AC113617.1,intron_variant,,ENST00000420701,;AC113617.1,intron_variant,,ENST00000426240,;AC113617.1,intron_variant,,ENST00000419264,;AC107399.2,upstream_gene_variant,,ENST00000416680,;"	"G"	"ENSG00000228358"	"ENST00000448804"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/601"	""	""	""	""	""	"1"	NA	1	"AC113617.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"7697949a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172131147540984	"WGS"	FALSE
"17023"	"AC092661.1"	0	"mskcc.org"	"GRCh37"	"4"	118540901	118540901	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"rs561665557"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.160-35061T>C"	""	""	"ENST00000422145"	""	114	"88"	26	77	"77"	0	"AC092661.1,intron_variant,,ENST00000422145,;AC092661.1,intron_variant,,ENST00000600624,;"	"C"	"ENSG00000236922"	"ENST00000422145"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2516"	""	""	""	""	"rs561665557"	"1"	NA	1	"AC092661.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	"C:0.0010"	"C:0.0008"	"C:0.0014"	NA	"C:0"	"C:0.002"	"C:0.001"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"76979cc4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228070175438596	"WGS"	FALSE
"17024"	"CEP170P1"	645455	"mskcc.org"	"GRCh37"	"4"	119461861	119461861	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.441+317G>A"	""	""	"ENST00000412784"	""	112	"100"	12	54	"54"	0	"CEP170P1,intron_variant,,ENST00000412784,;CEP170P1,intron_variant,,ENST00000502249,;CEP170P1,intron_variant,,ENST00000450306,;"	"A"	"ENSG00000154608"	"ENST00000412784"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1070"	""	""	""	""	""	"1"	NA	1	"CEP170P1"	"HGNC"	28364	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7697daae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	FALSE
"17025"	"MYOZ2"	51778	"mskcc.org"	"GRCh37"	"4"	120066856	120066856	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.77-5171C>A"	""	""	"ENST00000307128"	""	93	"75"	18	57	"57"	0	"MYOZ2,intron_variant,,ENST00000307128,NM_016599.4;"	"A"	"ENSG00000172399"	"ENST00000307128"	"Transcript"	"intron_variant"	"-/2597"	"-/795"	"-/264"	""	""	""	"1"	NA	1	"MYOZ2"	"HGNC"	1330	"protein_coding"	"YES"	"CCDS3711.1"	"ENSP00000306997"	"Q9NPC6"	""	"UPI000004665D"	"NM_016599.4"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"769820ea-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193548387096774	"WGS"	FALSE
"17026"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	125195081	125195081	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"56"	13	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76990884-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188405797101449	"WGS"	FALSE
"17027"	"ENSR00001758780"	0	"mskcc.org"	"GRCh37"	"4"	125997252	125997252	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001758780"	""	111	"82"	29	74	"74"	0	""	"T"	""	"ENSR00001758780"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"76993192-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261261261261261	"WGS"	FALSE
"17028"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	127040415	127040415	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"77"	32	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"76996c16-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293577981651376	"WGS"	FALSE
"17029"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	127312843	127312843	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	134	"107"	27	78	"78"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7699742c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.201492537313433	"WGS"	FALSE
"17030"	"LARP1B"	55132	"mskcc.org"	"GRCh37"	"4"	129041838	129041838	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1162-1143A>T"	""	""	"ENST00000326639"	""	71	"65"	6	50	"50"	0	"LARP1B,intron_variant,,ENST00000326639,NM_018078.3;LARP1B,intron_variant,,ENST00000441387,;LARP1B,intron_variant,,ENST00000264584,;LARP1B,intron_variant,,ENST00000512292,;LARP1B,intron_variant,,ENST00000354456,;LARP1B,intron_variant,,ENST00000508819,;LARP1B,intron_variant,,ENST00000427266,NM_178043.2;LARP1B,intron_variant,,ENST00000507377,;LARP1B,upstream_gene_variant,,ENST00000507259,;"	"T"	"ENSG00000138709"	"ENST00000326639"	"Transcript"	"intron_variant"	"-/4891"	"-/2745"	"-/914"	""	""	""	"1"	NA	1	"LARP1B"	"HGNC"	24704	"protein_coding"	"YES"	"CCDS3738.1"	"ENSP00000321997"	"Q659C4"	""	"UPI0000190831"	"NM_018078.3"	""	""	""	"10/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"7699c6c0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0845070422535211	"WGS"	FALSE
"17031"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	130307087	130307087	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	139	"116"	23	89	"89"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"769a031a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.165467625899281	"WGS"	FALSE
"17032"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	131458159	131458159	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	145	"113"	32	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"769a35b0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220689655172414	"WGS"	FALSE
"17033"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	132139470	132139470	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"92"	10	46	"46"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"769a4f32-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0980392156862745	"WGS"	FALSE
"17034"	"RPL7AP28"	0	"mskcc.org"	"GRCh37"	"4"	132778328	132778328	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000464513"	""	124	"116"	8	85	"85"	0	"RPL7AP28,downstream_gene_variant,,ENST00000464513,;"	"T"	"ENSG00000184139"	"ENST00000464513"	"Transcript"	"downstream_gene_variant"	"-/571"	""	""	""	""	""	"1"	"170"	-1	"RPL7AP28"	"HGNC"	35656	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"769af504-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0645161290322581	"WGS"	FALSE
"17035"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	133106206	133106206	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"86"	27	84	"84"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"769b0f3a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238938053097345	"WGS"	FALSE
"17036"	"RP11-427M20.1"	0	"mskcc.org"	"GRCh37"	"4"	134807936	134807936	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.224-15140G>A"	""	""	"ENST00000507844"	""	149	"137"	12	71	"71"	0	"RP11-427M20.1,intron_variant,,ENST00000507844,;"	"T"	"ENSG00000251388"	"ENST00000507844"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/619"	""	""	""	""	""	"1"	NA	-1	"RP11-427M20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"769b6e6c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0805369127516778	"WGS"	FALSE
"17037"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	135625457	135625457	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"90"	28	74	"74"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"769b9ce8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23728813559322	"WGS"	FALSE
"17038"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	138548560	138548560	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"111"	10	88	"88"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"769c2a5a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0826446280991736	"WGS"	FALSE
"17039"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	138843175	138843175	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	97	"89"	8	55	"55"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"769c35e0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0824742268041237	"WGS"	FALSE
"17040"	"RP11-371F15.3"	0	"mskcc.org"	"GRCh37"	"4"	139904294	139904294	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.161+12772A>G"	""	""	"ENST00000511951"	""	57	"52"	5	40	"40"	0	"RP11-371F15.3,intron_variant,,ENST00000511951,;"	"C"	"ENSG00000250195"	"ENST00000511951"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/282"	""	""	""	""	""	"1"	NA	-1	"RP11-371F15.3"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"769c74ce-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087719298245614	"WGS"	FALSE
"17041"	"MAML3"	55534	"mskcc.org"	"GRCh37"	"4"	140787804	140787804	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2079+22707G>T"	""	""	"ENST00000509479"	""	83	"60"	23	54	"54"	0	"MAML3,intron_variant,,ENST00000509479,NM_018717.4;MAML3,intron_variant,,ENST00000502696,;"	"A"	"ENSG00000196782"	"ENST00000509479"	"Transcript"	"intron_variant"	"-/6844"	"-/3417"	"-/1138"	""	""	""	"1"	NA	-1	"MAML3"	"HGNC"	16272	"protein_coding"	"YES"	"CCDS54805.1"	"ENSP00000421180"	"Q96JK9"	"Q9NPV6,E7EVW8"	"UPI00001C1E1E"	"NM_018717.4"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"769caf16-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27710843373494	"WGS"	FALSE
"17042"	"RNF150"	57484	"mskcc.org"	"GRCh37"	"4"	141840413	141840413	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs536893027"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.987+6718C>T"	""	""	"ENST00000515673"	""	64	"52"	12	48	"48"	0	"RNF150,intron_variant,,ENST00000515673,;RNF150,intron_variant,,ENST00000306799,NM_020724.1;RNF150,intron_variant,,ENST00000420921,;RNF150,intron_variant,,ENST00000379512,;RNF150,intron_variant,,ENST00000507500,;RNF150,intron_variant,,ENST00000506101,;"	"A"	"ENSG00000170153"	"ENST00000515673"	"Transcript"	"intron_variant"	"-/9805"	"-/1317"	"-/438"	""	""	"rs536893027"	"1"	NA	-1	"RNF150"	"HGNC"	23138	"protein_coding"	"YES"	"CCDS34065.1"	"ENSP00000425840"	"Q9ULK6"	"D6RIE5"	"UPI00004C9B0C"	""	""	""	""	"5/6"	""	"A:0.0004"	"A:0"	"A:0"	NA	"A:0.002"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"769cde50-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"17043"	"RP11-362F19.1"	100507639	"mskcc.org"	"GRCh37"	"4"	142246289	142246289	"+"	"RNA"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.873G>A"	""	""	"ENST00000509161"	"1/2"	136	"100"	36	63	"63"	0	"RP11-362F19.1,non_coding_transcript_exon_variant,,ENST00000509161,;RP11-362F19.1,intron_variant,,ENST00000511213,;RP11-362F19.1,upstream_gene_variant,,ENST00000506645,;"	"T"	"ENSG00000248810"	"ENST00000509161"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"873/2839"	""	""	""	""	""	"1"	NA	-1	"RP11-362F19.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"769cf016-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264705882352941	"WGS"	FALSE
"17044"	"GAB1"	2549	"mskcc.org"	"GRCh37"	"4"	144255305	144255305	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000262995"	""	67	"61"	6	77	"77"	0	"GAB1,upstream_gene_variant,,ENST00000262995,NM_207123.2;GAB1,upstream_gene_variant,,ENST00000262994,NM_002039.3;GAB1,upstream_gene_variant,,ENST00000514639,;RP11-364L4.3,downstream_gene_variant,,ENST00000512715,;AC097658.1,downstream_gene_variant,,ENST00000317872,;"	"T"	"ENSG00000109458"	"ENST00000262995"	"Transcript"	"upstream_gene_variant"	"-/7981"	"-/2175"	"-/724"	""	""	""	"1"	"2610"	1	"GAB1"	"HGNC"	4066	"protein_coding"	"YES"	"CCDS3760.1"	"ENSP00000262995"	"Q13480"	"D6RF42"	"UPI0000232A33"	"NM_207123.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"769d49c6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0895522388059701	"WGS"	FALSE
"17045"	"FREM3"	166752	"mskcc.org"	"GRCh37"	"4"	144622098	144622098	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000329798"	""	91	"66"	25	66	"66"	0	"FREM3,upstream_gene_variant,,ENST00000329798,NM_001168235.1;RP13-578N3.3,intron_variant,,ENST00000499587,;"	"A"	"ENSG00000183090"	"ENST00000329798"	"Transcript"	"upstream_gene_variant"	"-/6729"	"-/6420"	"-/2139"	""	""	""	"1"	"270"	-1	"FREM3"	"HGNC"	25172	"protein_coding"	"YES"	"CCDS54808.1"	"ENSP00000332886"	"P0C091"	""	"UPI0000D615C2"	"NM_001168235.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"769d551a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274725274725275	"WGS"	FALSE
"17046"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	146310822	146310822	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"76"	26	55	"55"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"769dcbee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254901960784314	"WGS"	FALSE
"17047"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	148334527	148334527	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs577546519"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"63"	19	69	"69"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs577546519"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0.0008"	"T:0"	NA	"T:0"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"769e39e4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231707317073171	"WGS"	FALSE
"17048"	"EDNRA"	1909	"mskcc.org"	"GRCh37"	"4"	148429463	148429463	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.421-11540G>T"	""	""	"ENST00000324300"	""	115	"83"	32	61	"61"	0	"EDNRA,intron_variant,,ENST00000324300,NM_001957.3;EDNRA,intron_variant,,ENST00000339690,;EDNRA,intron_variant,,ENST00000358556,NM_001166055.1;EDNRA,intron_variant,,ENST00000511804,NM_001256283.1;EDNRA,intron_variant,,ENST00000506066,;EDNRA,intron_variant,,ENST00000514245,;EDNRA,intron_variant,,ENST00000510697,;GTF2F2P1,downstream_gene_variant,,ENST00000511083,;"	"T"	"ENSG00000151617"	"ENST00000324300"	"Transcript"	"intron_variant"	"-/4135"	"-/1284"	"-/427"	""	""	""	"1"	NA	1	"EDNRA"	"HGNC"	3179	"protein_coding"	"YES"	"CCDS3769.1"	"ENSP00000315011"	"P25101"	""	"UPI00000503F9"	"NM_001957.3"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"769e4862-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278260869565217	"WGS"	FALSE
"17049"	"RP11-563M4.1"	0	"mskcc.org"	"GRCh37"	"4"	149986334	149986334	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000507849"	""	79	"64"	15	58	"58"	0	"RP11-563M4.1,upstream_gene_variant,,ENST00000507849,;"	"C"	"ENSG00000249752"	"ENST00000507849"	"Transcript"	"upstream_gene_variant"	"-/481"	""	""	""	""	""	"1"	"2660"	-1	"RP11-563M4.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"769e8f70-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189873417721519	"WGS"	FALSE
"17050"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	150942369	150942369	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"58"	16	40	"40"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"769eae56-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216216216216216	"WGS"	FALSE
"17051"	"LRBA"	987	"mskcc.org"	"GRCh37"	"4"	151282145	151282145	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7228-10834C>A"	""	""	"ENST00000357115"	""	121	"97"	24	64	"64"	0	"LRBA,intron_variant,,ENST00000535741,;LRBA,intron_variant,,ENST00000510413,NM_001199282.2;LRBA,intron_variant,,ENST00000357115,NM_006726.4;LRBA,intron_variant,,ENST00000507224,;LRBA,intron_variant,,ENST00000509835,;LRBA,intron_variant,,ENST00000503716,;"	"T"	"ENSG00000198589"	"ENST00000357115"	"Transcript"	"intron_variant"	"-/9899"	"-/8592"	"-/2863"	""	""	""	"1"	NA	-1	"LRBA"	"HGNC"	1742	"protein_coding"	"YES"	"CCDS3773.1"	"ENSP00000349629"	"P50851"	"Q7KZN3"	"UPI000013E35C"	"NM_006726.4"	""	""	""	"48/57"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGC"	"769ec2f6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.198347107438017	"WGS"	FALSE
"17052"	"SH3D19"	152503	"mskcc.org"	"GRCh37"	"4"	152235640	152235640	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.392+10753C>T"	""	""	"ENST00000604030"	""	64	"55"	9	57	"57"	0	"SH3D19,intron_variant,,ENST00000604030,;"	"A"	"ENSG00000109686"	"ENST00000604030"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/984"	""	""	""	""	""	"1"	NA	-1	"SH3D19"	"HGNC"	30418	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"769efa00-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.140625	"WGS"	FALSE
"17053"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	154729074	154729074	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"95"	6	66	"66"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"769f6cd8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0594059405940594	"WGS"	FALSE
"17054"	"DCHS2"	54798	"mskcc.org"	"GRCh37"	"4"	155261965	155261965	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.979+2655G>A"	""	""	"ENST00000357232"	""	103	"77"	26	68	"68"	0	"DCHS2,intron_variant,,ENST00000357232,NM_017639.3;DCHS2,intron_variant,,ENST00000339452,NM_001142552.1;DCHS2,intron_variant,,ENST00000507542,;DCHS2,intron_variant,,ENST00000504580,;"	"T"	"ENSG00000197410"	"ENST00000357232"	"Transcript"	"intron_variant"	"-/11040"	"-/8751"	"-/2916"	""	""	""	"1"	NA	-1	"DCHS2"	"HGNC"	23111	"protein_coding"	"YES"	"CCDS3785.1"	"ENSP00000349768"	"Q6V1P9"	"B3KT73"	"UPI000035B018"	"NM_017639.3"	""	""	""	"7/24"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"769f8cae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252427184466019	"WGS"	FALSE
"17055"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	157209435	157209435	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"66"	12	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"769fea50-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"17056"	"RP11-364P22.2"	0	"mskcc.org"	"GRCh37"	"4"	158558439	158558439	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000507296"	""	25	"20"	5	21	"21"	0	"RP11-364P22.2,upstream_gene_variant,,ENST00000507296,;"	"T"	"ENSG00000249275"	"ENST00000507296"	"Transcript"	"upstream_gene_variant"	"-/812"	""	""	""	""	""	"1"	"400"	1	"RP11-364P22.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"76a03668-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"17057"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	158866415	158866415	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"94"	24	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"76a040e0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203389830508475	"WGS"	FALSE
"17058"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	159580755	159580755	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs553316536"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"95"	7	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs553316536"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"76a0783a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0686274509803922	"WGS"	FALSE
"17059"	"FSTL5"	56884	"mskcc.org"	"GRCh37"	"4"	162424583	162424583	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1340-3297G>A"	""	""	"ENST00000306100"	""	108	"82"	26	76	"76"	0	"FSTL5,intron_variant,,ENST00000306100,NM_001128427.2,NM_020116.4;FSTL5,intron_variant,,ENST00000379164,;FSTL5,intron_variant,,ENST00000427802,NM_001128428.2;FSTL5,intron_variant,,ENST00000536695,;FSTL5,upstream_gene_variant,,ENST00000511999,;"	"T"	"ENSG00000168843"	"ENST00000306100"	"Transcript"	"intron_variant"	"-/4831"	"-/2544"	"-/847"	""	""	""	"1"	NA	-1	"FSTL5"	"HGNC"	21386	"protein_coding"	"YES"	"CCDS3802.1"	"ENSP00000305334"	"Q8N475"	"Q4W5Q0,Q4W5K3,Q4W5F8"	"UPI000020B66B"	"NM_001128427.2,NM_020116.4"	""	""	""	"11/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"76a11d26-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240740740740741	"WGS"	FALSE
"17060"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	163333151	163333151	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"rs546092876"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"86"	16	70	"70"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs546092876"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0006"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.0031"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"76a1514c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.156862745098039	"WGS"	FALSE
"17061"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	163673130	163673130	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"109"	7	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"76a169de-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0603448275862069	"WGS"	FALSE
"17062"	"MARCH1"	55016	"mskcc.org"	"GRCh37"	"4"	164619684	164619684	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.162+2281T>C"	""	""	"ENST00000503008"	""	126	"96"	30	53	"53"	0	"MARCH1,intron_variant,,ENST00000503008,NM_001166373.1;MARCH1,intron_variant,,ENST00000274056,;MARCH1,intron_variant,,ENST00000514618,;MARCH1,intron_variant,,ENST00000507270,;MARCH1,downstream_gene_variant,,ENST00000503104,;MARCH1,intron_variant,,ENST00000510696,;"	"G"	"ENSG00000145416"	"ENST00000503008"	"Transcript"	"intron_variant"	"-/5877"	"-/870"	"-/289"	""	""	""	"1"	NA	-1	"MARCH1"	"HGNC"	26077	"protein_coding"	"YES"	"CCDS54814.1"	"ENSP00000427223"	"Q8TCQ1"	"D6REN1"	"UPI0000037BB3"	"NM_001166373.1"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76a1951c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WGS"	FALSE
"17063"	"RNU6-284P"	0	"mskcc.org"	"GRCh37"	"4"	165539020	165539020	"+"	"5'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000411105"	""	120	"89"	31	71	"71"	0	"RNU6-284P,upstream_gene_variant,,ENST00000411105,;"	"A"	"ENSG00000223037"	"ENST00000411105"	"Transcript"	"upstream_gene_variant"	"-/106"	""	""	""	""	""	"1"	"2864"	1	"RNU6-284P"	"HGNC"	47247	"snRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"76a1c334-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258333333333333	"WGS"	FALSE
"17064"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	165830106	165830106	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"26"	15	37	"37"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"76a1d8d8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.365853658536585	"WGS"	FALSE
"17065"	"SPOCK3"	50859	"mskcc.org"	"GRCh37"	"4"	168027215	168027215	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.190-22818T>A"	""	""	"ENST00000357154"	""	111	"106"	5	57	"57"	0	"SPOCK3,intron_variant,,ENST00000357154,NM_016950.2;SPOCK3,intron_variant,,ENST00000506886,;SPOCK3,intron_variant,,ENST00000357545,NM_001204354.1,NM_001204352.1,NM_001040159.1;SPOCK3,intron_variant,,ENST00000511531,;SPOCK3,intron_variant,,ENST00000504953,;SPOCK3,intron_variant,,ENST00000502330,;SPOCK3,intron_variant,,ENST00000510741,NM_001204356.1;SPOCK3,intron_variant,,ENST00000511269,;SPOCK3,intron_variant,,ENST00000421836,;SPOCK3,intron_variant,,ENST00000541354,NM_001204353.1;SPOCK3,intron_variant,,ENST00000512681,NM_001251967.1;SPOCK3,intron_variant,,ENST00000512648,NM_001204358.1;SPOCK3,intron_variant,,ENST00000535728,;SPOCK3,intron_variant,,ENST00000534949,NM_001204355.1;SPOCK3,intron_variant,,ENST00000541637,;SPOCK3,intron_variant,,ENST00000510403,;SPOCK3,intron_variant,,ENST00000509854,;SPOCK3,intron_variant,,ENST00000506697,;SPOCK3,intron_variant,,ENST00000512042,;SPOCK3,upstream_gene_variant,,ENST00000507137,;SPOCK3,intron_variant,,ENST00000502821,;SPOCK3,intron_variant,,ENST00000511905,;SPOCK3,intron_variant,,ENST00000505187,;SPOCK3,intron_variant,,ENST00000507370,;SPOCK3,intron_variant,,ENST00000502741,;SPOCK3,intron_variant,,ENST00000507086,;SPOCK3,intron_variant,,ENST00000511226,;SPOCK3,intron_variant,,ENST00000515143,;SPOCK3,intron_variant,,ENST00000515316,;"	"T"	"ENSG00000196104"	"ENST00000357154"	"Transcript"	"intron_variant"	"-/2986"	"-/1311"	"-/436"	""	""	""	"1"	NA	-1	"SPOCK3"	"HGNC"	13565	"protein_coding"	"YES"	"CCDS54817.1"	"ENSP00000349677"	"Q9BQ16"	"Q4W5S3,Q4W5E2,E7EMP8"	"UPI000004BA60"	"NM_016950.2"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"76a2709a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.045045045045045	"WGS"	FALSE
"17066"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	168390226	168390226	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	129	"119"	10	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"76a29368-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0775193798449612	"WGS"	FALSE
"17067"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	168413857	168413857	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"102"	10	73	"73"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"76a2957a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0892857142857143	"WGS"	FALSE
"17068"	"PALLD"	23022	"mskcc.org"	"GRCh37"	"4"	169682530	169682530	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1964+49456C>T"	""	""	"ENST00000505667"	""	96	"75"	21	47	"47"	0	"PALLD,intron_variant,,ENST00000335742,;PALLD,intron_variant,,ENST00000261509,NM_001166108.1,NM_016081.3;PALLD,intron_variant,,ENST00000505667,;PALLD,intron_variant,,ENST00000512127,NM_001166109.1;PALLD,intron_variant,,ENST00000510998,;RPL9P16,downstream_gene_variant,,ENST00000491923,;"	"T"	"ENSG00000129116"	"ENST00000505667"	"Transcript"	"intron_variant"	"-/3637"	"-/3372"	"-/1123"	""	""	""	"1"	NA	1	"PALLD"	"HGNC"	17068	"protein_coding"	"YES"	"CCDS54818.1"	"ENSP00000425556"	"Q8WX93"	"Q4W5A6,D6RBH5,D6RBB1,D6R9Z5,D6R948"	"UPI000189A85C"	""	""	""	""	"10/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"76a2e2a0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WGS"	FALSE
"17069"	"NEK1"	4750	"mskcc.org"	"GRCh37"	"4"	170491794	170491794	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1020+6285G>C"	""	""	"ENST00000507142"	""	67	"62"	5	61	"61"	0	"NEK1,intron_variant,,ENST00000439128,NM_012224.2;NEK1,intron_variant,,ENST00000507142,NM_001199397.1;NEK1,intron_variant,,ENST00000511633,NM_001199398.1;NEK1,intron_variant,,ENST00000510533,NM_001199400.1;NEK1,intron_variant,,ENST00000512193,NM_001199399.1;NEK1,intron_variant,,ENST00000509912,;"	"G"	"ENSG00000137601"	"ENST00000507142"	"Transcript"	"intron_variant"	"-/5556"	"-/3861"	"-/1286"	""	""	""	"1"	NA	-1	"NEK1"	"HGNC"	7744	"protein_coding"	"YES"	"CCDS56351.1"	"ENSP00000424757"	"Q96PY6"	"Q5JXL9"	"UPI00001D76CA"	"NM_001199397.1"	""	""	""	"12/35"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"76a30834-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0746268656716418	"WGS"	FALSE
"17070"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	170743630	170743630	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	81	"69"	12	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"76a31716-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"17071"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	172409573	172409573	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"74"	17	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"76a3609a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186813186813187	"WGS"	FALSE
"17072"	"GALNTL6"	442117	"mskcc.org"	"GRCh37"	"4"	173693331	173693331	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.554-37181C>T"	""	""	"ENST00000506823"	""	108	"92"	16	71	"71"	0	"GALNTL6,intron_variant,,ENST00000506823,NM_001034845.2;GALNTL6,intron_variant,,ENST00000508122,;"	"T"	"ENSG00000174473"	"ENST00000506823"	"Transcript"	"intron_variant"	"-/3922"	"-/1806"	"-/601"	""	""	""	"1"	NA	1	"GALNTL6"	"HGNC"	33844	"protein_coding"	"YES"	"CCDS34104.1"	"ENSP00000423313"	"Q49A17"	"E5D8G0"	"UPI000058EB5C"	"NM_001034845.2"	""	""	""	"5/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76a3a500-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148148148148148	"WGS"	FALSE
"17073"	"GALNT7"	51809	"mskcc.org"	"GRCh37"	"4"	174214527	174214527	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.754+1102C>A"	""	""	"ENST00000265000"	""	111	"83"	28	71	"71"	0	"GALNT7,intron_variant,,ENST00000265000,NM_017423.2;GALNT7,intron_variant,,ENST00000505308,;GALNT7,intron_variant,,ENST00000512285,;GALNT7,intron_variant,,ENST00000502407,;GALNT7,upstream_gene_variant,,ENST00000506317,;"	"A"	"ENSG00000109586"	"ENST00000265000"	"Transcript"	"intron_variant"	"-/4307"	"-/1974"	"-/657"	""	""	""	"1"	NA	1	"GALNT7"	"HGNC"	4129	"protein_coding"	"YES"	"CCDS3815.1"	"ENSP00000265000"	"Q86SF2"	"Q4W5F7"	"UPI000000DB3C"	"NM_017423.2"	""	""	""	"3/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"76a3bb8a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252252252252252	"WGS"	FALSE
"17074"	"RP11-287F9.2"	0	"mskcc.org"	"GRCh37"	"4"	176307670	176307670	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.140+16452C>A"	""	""	"ENST00000502661"	""	80	"75"	5	51	"51"	0	"RP11-287F9.2,intron_variant,,ENST00000502661,;"	"T"	"ENSG00000248551"	"ENST00000502661"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/905"	""	""	""	""	""	"1"	NA	-1	"RP11-287F9.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76a41da0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"17075"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	177529984	177529984	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"82"	6	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"76a45bbc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"17076"	"RP11-130F10.1"	0	"mskcc.org"	"GRCh37"	"4"	178518044	178518044	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs774522819"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.727+359C>T"	""	""	"ENST00000507023"	""	106	"80"	26	57	"56"	1	"RP11-130F10.1,intron_variant,,ENST00000507023,;"	"T"	"ENSG00000250131"	"ENST00000507023"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2161"	""	""	""	""	"rs774522819"	"1"	NA	1	"RP11-130F10.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"76a48f7e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245283018867925	"WGS"	FALSE
"17077"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	179071801	179071801	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	143	"133"	10	71	"71"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76a4a8e2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0699300699300699	"WGS"	FALSE
"17078"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	180101689	180101689	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	133	"97"	36	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"76a4e834-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.270676691729323	"WGS"	FALSE
"17079"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	180738568	180738568	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	123	"97"	26	70	"70"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"76a50bca-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211382113821138	"WGS"	FALSE
"17080"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	181126162	181126162	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	126	"97"	29	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"76a521a0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23015873015873	"WGS"	FALSE
"17081"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	181796743	181796743	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"76"	25	59	"59"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"76a55aee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247524752475248	"WGS"	FALSE
"17082"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	181918264	181918264	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"83"	8	49	"49"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"76a562dc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0879120879120879	"WGS"	FALSE
"17083"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	182653486	182653486	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	125	"120"	5	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76a5a184-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.04	"WGS"	FALSE
"17084"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	184326829	184326829	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"47"	7	24	"24"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"76a6058e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12962962962963	"WGS"	FALSE
"17085"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	187483551	187483551	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	37	"33"	4	29	"29"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"76a782ec-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"17086"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	187483558	187483558	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"34"	4	31	"31"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"76a78396-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"17087"	"ENSR00001256298"	0	"mskcc.org"	"GRCh37"	"4"	188936108	188936108	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001256298"	""	66	"52"	14	57	"57"	0	""	"G"	""	"ENSR00001256298"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"76a7de90-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212121212121212	"WGS"	FALSE
"17088"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	190443898	190443898	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"88"	25	83	"83"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"76a8e2e0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221238938053097	"WGS"	FALSE
"17089"	"AHRR"	57491	"mskcc.org"	"GRCh37"	"5"	338227	338227	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3-5781C>A"	""	""	"ENST00000316418"	""	70	"59"	11	73	"73"	0	"AHRR,intron_variant,,ENST00000316418,NM_020731.4;AHRR,intron_variant,,ENST00000505113,NM_001242412.1;AHRR,intron_variant,,ENST00000512529,;AHRR,intron_variant,,ENST00000510400,;AHRR,intron_variant,,ENST00000514523,;AHRR,intron_variant,,ENST00000515206,;PDCD6,intron_variant,,ENST00000506909,;"	"A"	"ENSG00000063438"	"ENST00000316418"	"Transcript"	"intron_variant"	"-/5661"	"-/2160"	"-/719"	""	""	""	"1"	NA	1	"AHRR"	"HGNC"	346	"protein_coding"	"YES"	"CCDS43297.1"	"ENSP00000323816"	"A9YTQ3"	"E5RGQ2,E5RFG4"	"UPI00004572BE"	"NM_020731.4"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"76ab0c8c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157142857142857	"WGS"	FALSE
"17090"	"SLC9A3"	6550	"mskcc.org"	"GRCh37"	"5"	492242	492242	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.212-56T>A"	""	""	"ENST00000264938"	""	18	"14"	4	12	"12"	0	"SLC9A3,intron_variant,,ENST00000264938,NM_004174.2;SLC9A3,intron_variant,,ENST00000514375,NM_001284351.1;"	"T"	"ENSG00000066230"	"ENST00000264938"	"Transcript"	"intron_variant"	"-/2584"	"-/2505"	"-/834"	""	""	""	"1"	NA	-1	"SLC9A3"	"HGNC"	11073	"protein_coding"	"YES"	"CCDS3855.1"	"ENSP00000264938"	"P48764"	""	"UPI000013D597"	"NM_004174.2"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"76ab381a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"17091"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	3155996	3155996	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"91"	8	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76ade5f6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0808080808080808	"WGS"	FALSE
"17092"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	4026178	4026178	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	128	"101"	27	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"76ae872c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2109375	"WGS"	FALSE
"17093"	"CTD-2383I20.1"	0	"mskcc.org"	"GRCh37"	"5"	4046574	4046574	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000506305"	""	103	"87"	16	60	"60"	0	"CTD-2383I20.1,upstream_gene_variant,,ENST00000506305,;"	"A"	"ENSG00000249994"	"ENST00000506305"	"Transcript"	"upstream_gene_variant"	"-/686"	""	""	""	""	""	"1"	"4697"	-1	"CTD-2383I20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76ae888a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155339805825243	"WGS"	FALSE
"17094"	"CTC-471C19.1"	0	"mskcc.org"	"GRCh37"	"5"	6020458	6020458	"+"	"RNA"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1939G>T"	""	""	"ENST00000564741"	"1/1"	116	"102"	14	71	"71"	0	"CTC-471C19.1,non_coding_transcript_exon_variant,,ENST00000564741,;"	"A"	"ENSG00000261037"	"ENST00000564741"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1939/3255"	""	""	""	""	""	"1"	NA	-1	"CTC-471C19.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"76af06fc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.120689655172414	"WGS"	FALSE
"17095"	"CTC-471C19.1"	0	"mskcc.org"	"GRCh37"	"5"	6020459	6020459	"+"	"RNA"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1938G>T"	""	""	"ENST00000564741"	"1/1"	115	"101"	14	71	"71"	0	"CTC-471C19.1,non_coding_transcript_exon_variant,,ENST00000564741,;"	"A"	"ENSG00000261037"	"ENST00000564741"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1938/3255"	""	""	""	""	""	"1"	NA	-1	"CTC-471C19.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76af079c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121739130434783	"WGS"	FALSE
"17096"	"SRD5A1"	6715	"mskcc.org"	"GRCh37"	"5"	6670528	6670528	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000274192"	""	78	"58"	20	54	"54"	0	"SRD5A1,downstream_gene_variant,,ENST00000274192,NM_001047.2;SRD5A1,downstream_gene_variant,,ENST00000537411,;SRD5A1,downstream_gene_variant,,ENST00000538824,;CTD-2044J15.2,upstream_gene_variant,,ENST00000606434,;SRD5A1,downstream_gene_variant,,ENST00000510531,;SRD5A1,downstream_gene_variant,,ENST00000513117,;"	"T"	"ENSG00000145545"	"ENST00000274192"	"Transcript"	"downstream_gene_variant"	"-/2308"	"-/780"	"-/259"	""	""	""	"1"	"853"	1	"SRD5A1"	"HGNC"	11284	"protein_coding"	"YES"	"CCDS3870.1"	"ENSP00000274192"	"P18405"	""	"UPI00000534C8"	"NM_001047.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76af31f4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256410256410256	"WGS"	FALSE
"17097"	"RP11-122F24.1"	0	"mskcc.org"	"GRCh37"	"5"	7065078	7065078	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.154+28400C>A"	""	""	"ENST00000512838"	""	78	"60"	18	56	"56"	0	"RP11-122F24.1,intron_variant,,ENST00000512838,;"	"A"	"ENSG00000250974"	"ENST00000512838"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/568"	""	""	""	""	""	"1"	NA	1	"RP11-122F24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"76af3d5c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"17098"	"RP11-122F24.1"	0	"mskcc.org"	"GRCh37"	"5"	7184455	7184455	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.537+5240C>T"	""	""	"ENST00000512838"	""	80	"58"	22	60	"60"	0	"RP11-122F24.1,intron_variant,,ENST00000512838,;"	"T"	"ENSG00000250974"	"ENST00000512838"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/568"	""	""	""	""	""	"1"	NA	1	"RP11-122F24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"76af43f6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275	"WGS"	FALSE
"17099"	"SEMA5A"	9037	"mskcc.org"	"GRCh37"	"5"	9206603	9206603	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.647-4251G>A"	""	""	"ENST00000382496"	""	126	"97"	29	49	"49"	0	"SEMA5A,intron_variant,,ENST00000382496,NM_003966.2;SEMA5A,intron_variant,,ENST00000513968,;SEMA5A,intron_variant,,ENST00000514923,;"	"T"	"ENSG00000112902"	"ENST00000382496"	"Transcript"	"intron_variant"	"-/11762"	"-/3225"	"-/1074"	""	""	""	"1"	NA	-1	"SEMA5A"	"HGNC"	10736	"protein_coding"	"YES"	"CCDS3875.1"	"ENSP00000371936"	"Q13591"	"D6RAF4,B4DE33"	"UPI000004F25D"	"NM_003966.2"	""	""	""	"8/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"76afe34c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23015873015873	"WGS"	FALSE
"17100"	"CTD-2143L24.1"	285692	"mskcc.org"	"GRCh37"	"5"	9848215	9848215	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.521+35230G>A"	""	""	"ENST00000511616"	""	99	"79"	20	60	"60"	0	"CTD-2143L24.1,intron_variant,,ENST00000511616,;"	"T"	"ENSG00000249781"	"ENST00000511616"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1847"	""	""	""	""	""	"1"	NA	-1	"CTD-2143L24.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76b01146-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202020202020202	"WGS"	FALSE
"17101"	"CTNND2"	1501	"mskcc.org"	"GRCh37"	"5"	11455336	11455336	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.288-43155C>G"	""	""	"ENST00000304623"	""	73	"57"	16	47	"47"	0	"CTNND2,intron_variant,,ENST00000304623,NM_001332.2,NM_001288716.1,NM_001288715.1;CTNND2,intron_variant,,ENST00000359640,;CTNND2,intron_variant,,ENST00000511377,;CTNND2,intron_variant,,ENST00000458100,;CTNND2,intron_variant,,ENST00000503622,;CTNND2,intron_variant,,ENST00000508761,;CTNND2,intron_variant,,ENST00000513598,;CTNND2,intron_variant,,ENST00000502551,;CTNND2,intron_variant,,ENST00000504354,;CTNND2,intron_variant,,ENST00000511278,;CTNND2,intron_variant,,ENST00000513588,;CTNND2,intron_variant,,ENST00000504499,;"	"C"	"ENSG00000169862"	"ENST00000304623"	"Transcript"	"intron_variant"	"-/5481"	"-/3678"	"-/1225"	""	""	""	"1"	NA	-1	"CTNND2"	"HGNC"	2516	"protein_coding"	"YES"	"CCDS3881.1"	"ENSP00000307134"	"Q9UQB3"	"E7EPC8,D6RF55,D6RBA8,D6R9A8"	"UPI000013E9AB"	"NM_001332.2,NM_001288716.1,NM_001288715.1"	""	""	""	"3/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"76b08536-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219178082191781	"WGS"	FALSE
"17102"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	12239779	12239779	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	128	"100"	28	77	"77"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"76b09f6c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WGS"	FALSE
"17103"	"RP11-419C19.2"	0	"mskcc.org"	"GRCh37"	"5"	13001615	13001615	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.166+30508A>G"	""	""	"ENST00000510065"	""	89	"76"	13	66	"66"	0	"RP11-419C19.2,intron_variant,,ENST00000510065,;"	"C"	"ENSG00000248457"	"ENST00000510065"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/270"	""	""	""	""	""	"1"	NA	-1	"RP11-419C19.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"76b0cfd2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146067415730337	"WGS"	FALSE
"17104"	"FBXL7"	23194	"mskcc.org"	"GRCh37"	"5"	15829613	15829613	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.128-98386C>T"	""	""	"ENST00000504595"	""	125	"97"	28	56	"56"	0	"FBXL7,intron_variant,,ENST00000504595,NM_012304.4;FBXL7,intron_variant,,ENST00000510662,NM_001278317.1;FBXL7,intron_variant,,ENST00000329673,;"	"T"	"ENSG00000183580"	"ENST00000504595"	"Transcript"	"intron_variant"	"-/4562"	"-/1476"	"-/491"	""	""	""	"1"	NA	1	"FBXL7"	"HGNC"	13604	"protein_coding"	"YES"	"CCDS54833.1"	"ENSP00000423630"	"Q9UJT9"	"J3KNM9,D6RDY7"	"UPI00000724E0"	"NM_012304.4"	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"76b18b98-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224	"WGS"	FALSE
"17105"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	18212489	18212489	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"108"	11	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"76b254c4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.092436974789916	"WGS"	FALSE
"17106"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	18324886	18324886	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"87"	21	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76b2582a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194444444444444	"WGS"	FALSE
"17107"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	18365083	18365083	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"82"	9	53	"53"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"76b25bb8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0989010989010989	"WGS"	FALSE
"17108"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	18447677	18447677	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"98"	5	59	"59"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"76b265ae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0485436893203883	"WGS"	FALSE
"17109"	"RP11-124N3.3"	0	"mskcc.org"	"GRCh37"	"5"	19010486	19010486	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.290-44146C>T"	""	""	"ENST00000504827"	""	100	"84"	16	71	"71"	0	"RP11-124N3.3,intron_variant,,ENST00000504827,;"	"A"	"ENSG00000249174"	"ENST00000504827"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/660"	""	""	""	""	""	"1"	NA	-1	"RP11-124N3.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"76b29074-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.16	"WGS"	FALSE
"17110"	"CDH18"	1016	"mskcc.org"	"GRCh37"	"5"	19640112	19640112	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.644-27402G>T"	""	""	"ENST00000507958"	""	119	"90"	29	78	"77"	1	"CDH18,intron_variant,,ENST00000507958,;CDH18,intron_variant,,ENST00000382275,NM_004934.3,NM_001167667.1;CDH18,intron_variant,,ENST00000274170,;CDH18,intron_variant,,ENST00000506372,;CDH18,intron_variant,,ENST00000502796,;CDH18,intron_variant,,ENST00000511273,;CDH18,intron_variant,,ENST00000515257,;"	"A"	"ENSG00000145526"	"ENST00000507958"	"Transcript"	"intron_variant"	"-/3542"	"-/2373"	"-/790"	""	""	""	"1"	NA	-1	"CDH18"	"HGNC"	1757	"protein_coding"	"YES"	"CCDS3889.1"	"ENSP00000425093"	"Q13634"	""	"UPI0000126DBD"	""	""	""	""	"7/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"76b2b810-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.243697478991597	"WGS"	FALSE
"17111"	"CDH18"	1016	"mskcc.org"	"GRCh37"	"5"	19640180	19640180	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.644-27470A>T"	""	""	"ENST00000507958"	""	116	"87"	29	73	"73"	0	"CDH18,intron_variant,,ENST00000507958,;CDH18,intron_variant,,ENST00000382275,NM_004934.3,NM_001167667.1;CDH18,intron_variant,,ENST00000274170,;CDH18,intron_variant,,ENST00000506372,;CDH18,intron_variant,,ENST00000502796,;CDH18,intron_variant,,ENST00000511273,;CDH18,intron_variant,,ENST00000515257,;"	"A"	"ENSG00000145526"	"ENST00000507958"	"Transcript"	"intron_variant"	"-/3542"	"-/2373"	"-/790"	""	""	""	"1"	NA	-1	"CDH18"	"HGNC"	1757	"protein_coding"	"YES"	"CCDS3889.1"	"ENSP00000425093"	"Q13634"	""	"UPI0000126DBD"	""	""	""	""	"7/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"76b2b8ba-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"17112"	"CDH18"	1016	"mskcc.org"	"GRCh37"	"5"	19977489	19977489	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-257+3680A>T"	""	""	"ENST00000507958"	""	125	"116"	9	60	"60"	0	"CDH18,intron_variant,,ENST00000507958,;CDH18,intron_variant,,ENST00000382275,NM_004934.3,NM_001167667.1;CDH18,intron_variant,,ENST00000502796,;CDH18,intron_variant,,ENST00000511273,;CDH18,intron_variant,,ENST00000507632,;CDH18,intron_variant,,ENST00000511423,;CDH18,intron_variant,,ENST00000503132,;"	"A"	"ENSG00000145526"	"ENST00000507958"	"Transcript"	"intron_variant"	"-/3542"	"-/2373"	"-/790"	""	""	""	"1"	NA	-1	"CDH18"	"HGNC"	1757	"protein_coding"	"YES"	"CCDS3889.1"	"ENSP00000425093"	"Q13634"	""	"UPI0000126DBD"	""	""	""	""	"4/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"76b2cb66-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.072	"WGS"	FALSE
"17113"	"CDH18"	1016	"mskcc.org"	"GRCh37"	"5"	20040738	20040738	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-517-48615T>C"	""	""	"ENST00000507958"	""	123	"91"	32	75	"75"	0	"CDH18,intron_variant,,ENST00000507958,;CDH18,intron_variant,,ENST00000507632,;"	"G"	"ENSG00000145526"	"ENST00000507958"	"Transcript"	"intron_variant"	"-/3542"	"-/2373"	"-/790"	""	""	""	"1"	NA	-1	"CDH18"	"HGNC"	1757	"protein_coding"	"YES"	"CCDS3889.1"	"ENSP00000425093"	"Q13634"	""	"UPI0000126DBD"	""	""	""	""	"2/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76b2ce18-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.260162601626016	"WGS"	FALSE
"17114"	"CDH12"	1010	"mskcc.org"	"GRCh37"	"5"	21959140	21959140	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.526+16060G>T"	""	""	"ENST00000382254"	""	102	"81"	21	55	"55"	0	"CDH12,intron_variant,,ENST00000382254,NM_004061.3;CDH12,intron_variant,,ENST00000504376,;CDH12,intron_variant,,ENST00000522262,;CDH12,intron_variant,,ENST00000517378,;"	"A"	"ENSG00000154162"	"ENST00000382254"	"Transcript"	"intron_variant"	"-/4164"	"-/2385"	"-/794"	""	""	""	"1"	NA	-1	"CDH12"	"HGNC"	1751	"protein_coding"	"YES"	"CCDS3890.1"	"ENSP00000371689"	"P55289"	"B3KRT0"	"UPI00000622EB"	"NM_004061.3"	""	""	""	"6/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76b3a2a2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205882352941176	"WGS"	FALSE
"17115"	"CDH12"	1010	"mskcc.org"	"GRCh37"	"5"	22126472	22126472	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-186-47501G>T"	""	""	"ENST00000382254"	""	109	"99"	10	63	"63"	0	"CDH12,intron_variant,,ENST00000382254,NM_004061.3;CDH12,intron_variant,,ENST00000504376,;CDH12,intron_variant,,ENST00000522262,;CDH12,intron_variant,,ENST00000518209,;CDH12,intron_variant,,ENST00000521745,;CDH12,intron_variant,,ENST00000517378,;"	"A"	"ENSG00000154162"	"ENST00000382254"	"Transcript"	"intron_variant"	"-/4164"	"-/2385"	"-/794"	""	""	""	"1"	NA	-1	"CDH12"	"HGNC"	1751	"protein_coding"	"YES"	"CCDS3890.1"	"ENSP00000371689"	"P55289"	"B3KRT0"	"UPI00000622EB"	"NM_004061.3"	""	""	""	"4/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"76b3afc2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0917431192660551	"WGS"	FALSE
"17116"	"CTD-2272G21.3"	0	"mskcc.org"	"GRCh37"	"5"	23261849	23261849	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000509054"	""	136	"120"	16	66	"66"	0	"CTD-2272G21.3,downstream_gene_variant,,ENST00000509054,;"	"A"	"ENSG00000250319"	"ENST00000509054"	"Transcript"	"downstream_gene_variant"	"-/677"	""	""	""	""	""	"1"	"419"	-1	"CTD-2272G21.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"76b3f1c6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"17117"	"CTD-2272G21.2"	0	"mskcc.org"	"GRCh37"	"5"	23306986	23306986	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000511359"	""	114	"105"	9	73	"73"	0	"CTD-2272G21.2,upstream_gene_variant,,ENST00000511359,;"	"A"	"ENSG00000250332"	"ENST00000511359"	"Transcript"	"upstream_gene_variant"	"-/1579"	""	""	""	""	""	"1"	"1734"	-1	"CTD-2272G21.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"76b3f270-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0789473684210526	"WGS"	FALSE
"17118"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	23447447	23447447	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"84"	26	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"76b3f900-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236363636363636	"WGS"	FALSE
"17119"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	23912171	23912171	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"67"	21	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"76b41d36-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238636363636364	"WGS"	FALSE
"17120"	"C5orf17"	0	"mskcc.org"	"GRCh37"	"5"	24163866	24163866	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*856-14080T>A"	""	""	"ENST00000512559"	""	126	"121"	5	53	"53"	0	"C5orf17,intron_variant,,ENST00000512559,;"	"A"	"ENSG00000248874"	"ENST00000512559"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/1984"	"-/486"	"-/161"	""	""	""	"1"	NA	1	"C5orf17"	"HGNC"	26630	"nonsense_mediated_decay"	"YES"	""	"ENSP00000423422"	"Q8NAS9"	""	"UPI000007184B"	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"76b431e0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0396825396825397	"WGS"	FALSE
"17121"	"C5orf17"	0	"mskcc.org"	"GRCh37"	"5"	24163878	24163878	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*856-14068A>T"	""	""	"ENST00000512559"	""	121	"116"	5	51	"51"	0	"C5orf17,intron_variant,,ENST00000512559,;"	"T"	"ENSG00000248874"	"ENST00000512559"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/1984"	"-/486"	"-/161"	""	""	""	"1"	NA	1	"C5orf17"	"HGNC"	26630	"nonsense_mediated_decay"	"YES"	""	"ENSP00000423422"	"Q8NAS9"	""	"UPI000007184B"	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"76b4328a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0413223140495868	"WGS"	FALSE
"17122"	"C5orf17"	0	"mskcc.org"	"GRCh37"	"5"	24163928	24163928	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*856-14018A>G"	""	""	"ENST00000512559"	""	115	"108"	7	58	"58"	0	"C5orf17,intron_variant,,ENST00000512559,;"	"G"	"ENSG00000248874"	"ENST00000512559"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/1984"	"-/486"	"-/161"	""	""	""	"1"	NA	1	"C5orf17"	"HGNC"	26630	"nonsense_mediated_decay"	"YES"	""	"ENSP00000423422"	"Q8NAS9"	""	"UPI000007184B"	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76b43334-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0608695652173913	"WGS"	FALSE
"17123"	"CTD-2074D8.1"	0	"mskcc.org"	"GRCh37"	"5"	24351396	24351396	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000507526"	""	103	"84"	19	49	"49"	0	"CTD-2074D8.1,downstream_gene_variant,,ENST00000507526,;"	"A"	"ENSG00000250694"	"ENST00000507526"	"Transcript"	"downstream_gene_variant"	"-/487"	""	""	""	""	""	"1"	"1022"	-1	"CTD-2074D8.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"76b4409a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184466019417476	"WGS"	FALSE
"17124"	"CDH10"	1008	"mskcc.org"	"GRCh37"	"5"	24563871	24563871	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.232-26088G>T"	""	""	"ENST00000264463"	""	81	"76"	5	59	"59"	0	"CDH10,intron_variant,,ENST00000264463,NM_006727.3;RP11-116O11.1,intron_variant,,ENST00000510391,;CDH10,intron_variant,,ENST00000510477,;"	"A"	"ENSG00000040731"	"ENST00000264463"	"Transcript"	"intron_variant"	"-/3438"	"-/2367"	"-/788"	""	""	""	"1"	NA	-1	"CDH10"	"HGNC"	1749	"protein_coding"	"YES"	"CCDS3892.1"	"ENSP00000264463"	"Q9Y6N8"	""	"UPI0000167B7B"	"NM_006727.3"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"76b44cc0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0617283950617284	"WGS"	FALSE
"17125"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	24687168	24687168	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"97"	10	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76b45620-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0934579439252336	"WGS"	FALSE
"17126"	"RP11-549K20.1"	0	"mskcc.org"	"GRCh37"	"5"	25123747	25123747	"+"	"3'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000507600"	""	99	"68"	31	67	"67"	0	"RP11-549K20.1,downstream_gene_variant,,ENST00000507600,;"	"A"	"ENSG00000251273"	"ENST00000507600"	"Transcript"	"downstream_gene_variant"	"-/534"	""	""	""	""	""	"1"	"2667"	-1	"RP11-549K20.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"76b46d2c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.313131313131313	"WGS"	FALSE
"17127"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	25565761	25565761	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs541220588"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"76"	19	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs541220588"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0004"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.002"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"76b48956-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"17128"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	25982725	25982725	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"98"	19	71	"71"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"76b49a36-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162393162393162	"WGS"	FALSE
"17129"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	26279996	26279996	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"80"	30	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"76b4b8a4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"17130"	"CDH9"	1007	"mskcc.org"	"GRCh37"	"5"	26956413	26956413	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.228+31800G>A"	""	""	"ENST00000231021"	""	104	"83"	21	51	"51"	0	"CDH9,intron_variant,,ENST00000231021,NM_016279.3;CDH9,intron_variant,,ENST00000513289,;CDH9,intron_variant,,ENST00000511822,;CDH9,intron_variant,,ENST00000505045,;"	"T"	"ENSG00000113100"	"ENST00000231021"	"Transcript"	"intron_variant"	"-/3079"	"-/2370"	"-/789"	""	""	""	"1"	NA	-1	"CDH9"	"HGNC"	1768	"protein_coding"	"YES"	"CCDS3893.1"	"ENSP00000231021"	"Q9ULB4"	"E7EPN0,D6RBT9"	"UPI000013C945"	"NM_016279.3"	""	""	""	"2/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"76b4d3ac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.201923076923077	"WGS"	FALSE
"17131"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	29841032	29841032	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"96"	13	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76b593be-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119266055045872	"WGS"	FALSE
"17132"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	30233361	30233361	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"83"	8	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"76b5aaac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0879120879120879	"WGS"	FALSE
"17133"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	30511645	30511645	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	130	"99"	31	64	"63"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"76b5cece-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238461538461538	"WGS"	FALSE
"17134"	"DROSHA"	29102	"mskcc.org"	"GRCh37"	"5"	31406027	31406027	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3948-197C>A"	""	""	"ENST00000344624"	""	86	"71"	15	59	"59"	0	"DROSHA,intron_variant,,ENST00000511367,NM_013235.4;DROSHA,intron_variant,,ENST00000344624,;DROSHA,intron_variant,,ENST00000442743,;DROSHA,intron_variant,,ENST00000513349,NM_001100412.1;DROSHA,intron_variant,,ENST00000511778,;DROSHA,intron_variant,,ENST00000514927,;DROSHA,intron_variant,,ENST00000512166,;DROSHA,downstream_gene_variant,,ENST00000509067,;"	"T"	"ENSG00000113360"	"ENST00000344624"	"Transcript"	"intron_variant"	"-/5102"	"-/4125"	"-/1374"	""	""	""	"1"	NA	-1	"DROSHA"	"HGNC"	17904	"protein_coding"	""	"CCDS47195.1"	"ENSP00000339845"	"Q9NRR4"	"E5RHD1"	"UPI0000134351"	""	""	""	""	"31/32"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76b60650-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174418604651163	"WGS"	FALSE
"17135"	"C5orf42"	65250	"mskcc.org"	"GRCh37"	"5"	37175681	37175681	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5978+330T>A"	""	""	"ENST00000425232"	""	90	"66"	24	47	"47"	0	"C5orf42,intron_variant,,ENST00000274258,;C5orf42,intron_variant,,ENST00000425232,NM_023073.3;C5orf42,intron_variant,,ENST00000508244,;C5orf42,intron_variant,,ENST00000514429,;C5orf42,intron_variant,,ENST00000509849,;C5orf42,intron_variant,,ENST00000511781,;"	"T"	"ENSG00000197603"	"ENST00000425232"	"Transcript"	"intron_variant"	"-/11199"	"-/9594"	"-/3197"	""	""	""	"1"	NA	-1	"C5orf42"	"HGNC"	25801	"protein_coding"	"YES"	"CCDS34146.2"	"ENSP00000389014"	"Q9H799"	""	"UPI0001AAB3EA"	"NM_023073.3"	""	""	""	"31/51"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"76b75bae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"17136"	"WDR70"	55100	"mskcc.org"	"GRCh37"	"5"	37522559	37522559	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.917+5867T>A"	""	""	"ENST00000265107"	""	44	"37"	7	35	"35"	0	"WDR70,intron_variant,,ENST00000265107,NM_018034.2;WDR70,intron_variant,,ENST00000504564,;WDR70,intron_variant,,ENST00000510699,;WDR70,intron_variant,,ENST00000511906,;"	"A"	"ENSG00000082068"	"ENST00000265107"	"Transcript"	"intron_variant"	"-/2983"	"-/1965"	"-/654"	""	""	""	"1"	NA	1	"WDR70"	"HGNC"	25495	"protein_coding"	"YES"	"CCDS34147.1"	"ENSP00000265107"	"Q9NW82"	""	"UPI0000049FC2"	"NM_018034.2"	""	""	""	"9/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"76b76f54-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.159090909090909	"WGS"	FALSE
"17137"	"ENSR00001278626"	0	"mskcc.org"	"GRCh37"	"5"	39081054	39081054	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001278626"	""	88	"68"	20	59	"59"	0	""	"G"	""	"ENSR00001278626"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76b7ba04-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"17138"	"C9"	735	"mskcc.org"	"GRCh37"	"5"	39296951	39296951	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1417-7898C>T"	""	""	"ENST00000263408"	""	91	"69"	22	65	"65"	0	"C9,intron_variant,,ENST00000263408,NM_001737.3;"	"A"	"ENSG00000113600"	"ENST00000263408"	"Transcript"	"intron_variant"	"-/2713"	"-/1680"	"-/559"	""	""	""	"1"	NA	-1	"C9"	"HGNC"	1358	"protein_coding"	"YES"	"CCDS3929.1"	"ENSP00000263408"	"P02748"	"Q9UGI4"	"UPI0000001065"	"NM_001737.3"	""	""	""	"9/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGC"	"76b7c22e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241758241758242	"WGS"	FALSE
"17139"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	39822738	39822738	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs180961991"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"80"	34	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs180961991"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0"	"A:0"	NA	"A:0.001"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"76b7dd2c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.298245614035088	"WGS"	FALSE
"17140"	"CTD-2122P11.1"	0	"mskcc.org"	"GRCh37"	"5"	41591384	41591384	"+"	"5'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000504215"	""	115	"89"	26	70	"70"	0	"CTD-2122P11.1,upstream_gene_variant,,ENST00000504215,;"	"A"	"ENSG00000251478"	"ENST00000504215"	"Transcript"	"upstream_gene_variant"	"-/1562"	""	""	""	""	""	"1"	"3495"	-1	"CTD-2122P11.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"76b82bba-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226086956521739	"WGS"	FALSE
"17141"	"NIM1K"	167359	"mskcc.org"	"GRCh37"	"5"	43215693	43215693	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs777191124"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-695+21935G>A"	""	""	"ENST00000512796"	""	49	"36"	13	49	"49"	0	"NIM1K,intron_variant,,ENST00000512796,;NIM1K,intron_variant,,ENST00000326035,NM_153361.3;NIM1K,intron_variant,,ENST00000509362,;NIM1K,intron_variant,,ENST00000513797,;NIM1K,intron_variant,,ENST00000440285,;"	"A"	"ENSG00000177453"	"ENST00000512796"	"Transcript"	"intron_variant"	"-/2929"	"-/1311"	"-/436"	""	""	"rs777191124"	"1"	NA	1	"NIM1K"	"HGNC"	28646	"protein_coding"	"YES"	"CCDS3943.1"	"ENSP00000420849"	"Q8IY84"	""	"UPI0000035B5F"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76b8799e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26530612244898	"WGS"	FALSE
"17142"	"NIM1K"	167359	"mskcc.org"	"GRCh37"	"5"	43263138	43263138	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.293-14021C>T"	""	""	"ENST00000512796"	""	67	"51"	16	58	"58"	0	"NIM1K,intron_variant,,ENST00000512796,;NIM1K,intron_variant,,ENST00000326035,NM_153361.3;"	"T"	"ENSG00000177453"	"ENST00000512796"	"Transcript"	"intron_variant"	"-/2929"	"-/1311"	"-/436"	""	""	""	"1"	NA	1	"NIM1K"	"HGNC"	28646	"protein_coding"	"YES"	"CCDS3943.1"	"ENSP00000420849"	"Q8IY84"	""	"UPI0000035B5F"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"76b87ae8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238805970149254	"WGS"	FALSE
"17143"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	43330591	43330591	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"62"	20	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"76b87ef8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24390243902439	"WGS"	FALSE
"17144"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	45027522	45027522	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"91"	29	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"76b8c2fa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241666666666667	"WGS"	FALSE
"17145"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	50383385	50383385	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"86"	16	63	"63"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"76ba318a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.156862745098039	"WGS"	FALSE
"17146"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	50438493	50438493	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"65"	8	50	"50"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76ba35d6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10958904109589	"WGS"	FALSE
"17147"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	50501204	50501204	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	140	"107"	33	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"76ba372a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235714285714286	"WGS"	FALSE
"17148"	"HMGB1P47"	0	"mskcc.org"	"GRCh37"	"5"	50704066	50704066	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000511281"	""	112	"89"	23	68	"68"	0	"HMGB1P47,downstream_gene_variant,,ENST00000511281,;"	"T"	"ENSG00000249338"	"ENST00000511281"	"Transcript"	"downstream_gene_variant"	"-/589"	""	""	""	""	""	"1"	"1385"	-1	"HMGB1P47"	"HGNC"	39280	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"76ba486e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205357142857143	"WGS"	FALSE
"17149"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	50900836	50900836	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs765515052"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"85"	32	79	"79"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs765515052"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"76ba4f30-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273504273504274	"WGS"	FALSE
"17150"	"CTD-2203A3.1"	0	"mskcc.org"	"GRCh37"	"5"	51334985	51334985	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.25+27549G>A"	""	""	"ENST00000510583"	""	137	"104"	33	84	"84"	0	"CTD-2203A3.1,intron_variant,,ENST00000510583,;CTD-2203A3.1,intron_variant,,ENST00000505899,;"	"A"	"ENSG00000248789"	"ENST00000510583"	"Transcript"	"intron_variant"	"-/419"	"-/252"	"-/83"	""	""	""	"1"	NA	1	"CTD-2203A3.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000421473"	""	"D6RFH9"	"UPI0000E09549"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"76ba69de-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240875912408759	"WGS"	FALSE
"17151"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	51448958	51448958	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"92"	23	71	"71"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76ba6c90-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"17152"	"SLC38A9"	153129	"mskcc.org"	"GRCh37"	"5"	54922769	54922769	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1521-282G>A"	""	""	"ENST00000396865"	""	72	"67"	5	54	"54"	0	"SLC38A9,intron_variant,,ENST00000539768,;SLC38A9,intron_variant,,ENST00000396865,NM_173514.3;SLC38A9,intron_variant,,ENST00000515629,NM_001258286.1;SLC38A9,intron_variant,,ENST00000318672,;SLC38A9,intron_variant,,ENST00000416547,;SLC38A9,intron_variant,,ENST00000512595,NM_001258287.1;SLC38A9,intron_variant,,ENST00000511233,;SLC38A9,intron_variant,,ENST00000515159,;SLC38A9,intron_variant,,ENST00000508124,NM_001282429.1;SLC38A9,intron_variant,,ENST00000505708,;"	"T"	"ENSG00000177058"	"ENST00000396865"	"Transcript"	"intron_variant"	"-/2927"	"-/1686"	"-/561"	""	""	""	"1"	NA	-1	"SLC38A9"	"HGNC"	26907	"protein_coding"	"YES"	"CCDS3968.1"	"ENSP00000380074"	"Q8NBW4"	"E7ESU6,D6RIW7,D6RHW0,D6RG31,D6RER8,D6RDH2,D6R9X0,B3KVK8"	"UPI00001403C2"	"NM_173514.3"	""	""	""	"15/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"76bb1b40-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0694444444444444	"WGS"	FALSE
"17153"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	55344808	55344808	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"rs750203660"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"57"	6	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs750203660"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"76bb39e0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"17154"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	56959666	56959666	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	126	"97"	29	75	"75"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"76bb81ca-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23015873015873	"WGS"	FALSE
"17155"	"PDE4D"	5144	"mskcc.org"	"GRCh37"	"5"	59499037	59499037	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-89-17523T>A"	""	""	"ENST00000502484"	""	148	"117"	31	75	"75"	0	"PDE4D,intron_variant,,ENST00000502484,NM_001165899.1;PDE4D,intron_variant,,ENST00000505507,;PDE4D,intron_variant,,ENST00000514552,;PDE4D,intron_variant,,ENST00000509368,;PDE4D,intron_variant,,ENST00000509355,;PDE4D,intron_variant,,ENST00000506024,;PDE4D,intron_variant,,ENST00000515835,;PDE4D,intron_variant,,ENST00000511382,;PDE4D,intron_variant,,ENST00000506510,;"	"T"	"ENSG00000113448"	"ENST00000502484"	"Transcript"	"intron_variant"	"-/2478"	"-/2247"	"-/748"	""	""	""	"1"	NA	-1	"PDE4D"	"HGNC"	8783	"protein_coding"	""	"CCDS54859.1"	"ENSP00000423094"	"Q08499"	"D6RIG1,D6RHE0,D6RAQ0"	"UPI0000074652"	"NM_001165899.1"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAT"	"76bc012c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209459459459459	"WGS"	FALSE
"17156"	"FKSG52"	0	"mskcc.org"	"GRCh37"	"5"	59726473	59726473	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000412930"	""	78	"74"	4	58	"58"	0	"PDE4D,intron_variant,,ENST00000502484,NM_001165899.1;PDE4D,intron_variant,,ENST00000505507,;FKSG52,upstream_gene_variant,,ENST00000412930,;PDE4D,intron_variant,,ENST00000509355,;PDE4D,intron_variant,,ENST00000506024,;PDE4D,intron_variant,,ENST00000515835,;PDE4D,intron_variant,,ENST00000511382,;PDE4D,intron_variant,,ENST00000506510,;RP11-546M4.1,upstream_gene_variant,,ENST00000486833,;"	"T"	"ENSG00000224838"	"ENST00000412930"	"Transcript"	"upstream_gene_variant"	"-/375"	"-/375"	"-/124"	""	""	""	"1"	"92"	1	"FKSG52"	"Uniprot_gn"	NA	"protein_coding"	"YES"	""	"ENSP00000402962"	""	"Q9BXE3"	"UPI0000072879"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"76bc0564-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0512820512820513	"WGS"	FALSE
"17157"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	63050968	63050968	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	116	"88"	28	62	"61"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"76bcb1d0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241379310344828	"WGS"	FALSE
"17158"	"RNF180"	285671	"mskcc.org"	"GRCh37"	"5"	63464290	63464290	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-1+2510T>C"	""	""	"ENST00000389100"	""	146	"110"	36	69	"69"	0	"RNF180,intron_variant,,ENST00000389100,NM_001113561.1;RNF180,intron_variant,,ENST00000296615,NM_178532.3;RNF180,intron_variant,,ENST00000381081,;RNF180,intron_variant,,ENST00000504296,;"	"C"	"ENSG00000164197"	"ENST00000389100"	"Transcript"	"intron_variant"	"-/4906"	"-/1779"	"-/592"	""	""	""	"1"	NA	1	"RNF180"	"HGNC"	27752	"protein_coding"	"YES"	"CCDS47219.1"	"ENSP00000373752"	"Q86T96"	"D6RE88"	"UPI0000141201"	"NM_001113561.1"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"76bcbf9a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246575342465753	"WGS"	FALSE
"17159"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	65414177	65414177	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"41"	16	60	"59"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"76bd3254-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280701754385965	"WGS"	FALSE
"17160"	"RP11-434D9.1"	101928858	"mskcc.org"	"GRCh37"	"5"	66753740	66753740	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.251+78284T>C"	""	""	"ENST00000503106"	""	116	"86"	30	69	"68"	1	"RP11-434D9.1,intron_variant,,ENST00000503106,;"	"C"	"ENSG00000249364"	"ENST00000503106"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/557"	""	""	""	""	""	"1"	NA	1	"RP11-434D9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"76bd6d32-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258620689655172	"WGS"	FALSE
"17161"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	67293734	67293734	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"96"	16	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"76bd8aec-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"17162"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	67637131	67637131	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"96"	7	76	"76"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"76bdad10-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0679611650485437	"WGS"	FALSE
"17163"	"MCCC2"	64087	"mskcc.org"	"GRCh37"	"5"	70887819	70887819	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.130-934T>C"	""	""	"ENST00000340941"	""	74	"54"	20	38	"38"	0	"MCCC2,intron_variant,,ENST00000340941,NM_022132.4;MCCC2,intron_variant,,ENST00000323375,;MCCC2,intron_variant,,ENST00000509358,;MCCC2,upstream_gene_variant,,ENST00000507169,;MCCC2,upstream_gene_variant,,ENST00000505787,;MCCC2,intron_variant,,ENST00000512218,;"	"C"	"ENSG00000131844"	"ENST00000340941"	"Transcript"	"intron_variant"	"-/3665"	"-/1692"	"-/563"	""	""	""	"1"	NA	1	"MCCC2"	"HGNC"	6937	"protein_coding"	"YES"	"CCDS34184.1"	"ENSP00000343657"	"Q9HCC0"	""	"UPI000012ED69"	"NM_022132.4"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"76be5d00-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.27027027027027	"WGS"	FALSE
"17164"	"ENSR00001410719"	0	"mskcc.org"	"GRCh37"	"5"	73657558	73657558	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001410719"	""	84	"79"	5	51	"51"	0	""	"T"	""	"ENSR00001410719"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"76bed7f8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0595238095238095	"WGS"	FALSE
"17165"	"GCNT4"	51301	"mskcc.org"	"GRCh37"	"5"	74318601	74318601	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000322348"	""	85	"78"	7	53	"53"	0	"GCNT4,downstream_gene_variant,,ENST00000322348,NM_016591.2;CTD-2503O16.4,intron_variant,,ENST00000505200,;"	"T"	"ENSG00000176928"	"ENST00000322348"	"Transcript"	"downstream_gene_variant"	"-/3436"	"-/1362"	"-/453"	""	""	""	"1"	"4688"	-1	"GCNT4"	"HGNC"	17973	"protein_coding"	"YES"	"CCDS4026.1"	"ENSP00000317027"	"Q9P109"	""	"UPI00000380F7"	"NM_016591.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76beff76-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0823529411764706	"WGS"	FALSE
"17166"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	75195539	75195539	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"68"	15	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76bf2302-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180722891566265	"WGS"	FALSE
"17167"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	75349447	75349447	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"97"	21	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"76bf3194-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177966101694915	"WGS"	FALSE
"17168"	"F2RL1"	2150	"mskcc.org"	"GRCh37"	"5"	76131442	76131442	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000296677"	""	67	"63"	4	55	"55"	0	"F2RL1,downstream_gene_variant,,ENST00000296677,NM_005242.4;F2RL1,downstream_gene_variant,,ENST00000514165,;RN7SL208P,downstream_gene_variant,,ENST00000577964,;"	"T"	"ENSG00000164251"	"ENST00000296677"	"Transcript"	"downstream_gene_variant"	"-/2914"	"-/1194"	"-/397"	""	""	""	"1"	"302"	1	"F2RL1"	"HGNC"	3538	"protein_coding"	"YES"	"CCDS4033.1"	"ENSP00000296677"	"P55085"	"D6RJH3"	"UPI000013E36E"	"NM_005242.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"76bf6790-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0597014925373134	"WGS"	FALSE
"17169"	"SCAMP1"	9522	"mskcc.org"	"GRCh37"	"5"	77687011	77687011	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.135+2273G>C"	""	""	"ENST00000538629"	""	81	"75"	6	62	"62"	0	"SCAMP1,intron_variant,,ENST00000538629,NM_004866.4;SCAMP1,intron_variant,,ENST00000339292,;SCAMP1,intron_variant,,ENST00000508822,;SCAMP1,intron_variant,,ENST00000509998,;SCAMP1,intron_variant,,ENST00000511551,;SCAMP1,intron_variant,,ENST00000510030,;"	"C"	"ENSG00000085365"	"ENST00000538629"	"Transcript"	"intron_variant"	"-/6245"	"-/1017"	"-/338"	""	""	""	"1"	NA	1	"SCAMP1"	"HGNC"	10563	"protein_coding"	"YES"	""	"ENSP00000475496"	""	"U3KQ30"	"UPI00001B94D7"	"NM_004866.4"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"76bfb1fa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"17170"	"ATP6AP1L"	92270	"mskcc.org"	"GRCh37"	"5"	81673879	81673879	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2003-6335C>T"	""	""	"ENST00000508366"	""	113	"87"	26	65	"65"	0	"ATP6AP1L,intron_variant,,ENST00000508366,;ATP6AP1L,upstream_gene_variant,,ENST00000502523,;"	"T"	"ENSG00000205464"	"ENST00000508366"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3524"	""	""	""	""	""	"1"	NA	1	"ATP6AP1L"	"HGNC"	28091	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"6/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76c08dfa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230088495575221	"WGS"	FALSE
"17171"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	81808001	81808001	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"84"	29	84	"84"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"76c0a542-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256637168141593	"WGS"	FALSE
"17172"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	84076568	84076568	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"109"	6	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"76c11892-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0521739130434783	"WGS"	FALSE
"17173"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	84190901	84190901	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"79"	16	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"76c11df6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168421052631579	"WGS"	FALSE
"17174"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	84239359	84239359	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"81"	9	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"76c11ff4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"17175"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	86131889	86131889	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"83"	24	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"76c1951a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224299065420561	"WGS"	FALSE
"17176"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	89259584	89259584	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	134	"106"	28	90	"90"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"76c23416-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208955223880597	"WGS"	FALSE
"17177"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	90616815	90616815	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	61	"55"	6	28	"28"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"76c26684-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0983606557377049	"WGS"	FALSE
"17178"	"RP11-254I22.3"	0	"mskcc.org"	"GRCh37"	"5"	95549086	95549086	"+"	"RNA"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.616T>C"	""	""	"ENST00000502437"	"2/2"	119	"107"	12	87	"87"	0	"RP11-254I22.3,non_coding_transcript_exon_variant,,ENST00000502437,;RP11-254I22.1,intron_variant,,ENST00000507997,;RNU6-524P,upstream_gene_variant,,ENST00000384270,;CTD-2337A12.1,intron_variant,,ENST00000511775,;CTD-2337A12.1,intron_variant,,ENST00000502645,;"	"G"	"ENSG00000249746"	"ENST00000502437"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"616/652"	""	""	""	""	""	"1"	NA	-1	"RP11-254I22.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76c35846-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.100840336134454	"WGS"	FALSE
"17179"	"LNPEP"	4012	"mskcc.org"	"GRCh37"	"5"	96330783	96330783	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1407+1108G>A"	""	""	"ENST00000231368"	""	102	"75"	27	62	"62"	0	"LNPEP,intron_variant,,ENST00000231368,NM_005575.2;LNPEP,intron_variant,,ENST00000395770,NM_175920.3;LNPEP,upstream_gene_variant,,ENST00000473914,;LNPEP,upstream_gene_variant,,ENST00000474122,;"	"A"	"ENSG00000113441"	"ENST00000231368"	"Transcript"	"intron_variant"	"-/12752"	"-/3078"	"-/1025"	""	""	""	"1"	NA	1	"LNPEP"	"HGNC"	6656	"protein_coding"	"YES"	"CCDS4087.1"	"ENSP00000231368"	"Q9UIQ6"	""	"UPI000013C94B"	"NM_005575.2"	""	""	""	"6/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76c382bc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264705882352941	"WGS"	FALSE
"17180"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	100024184	100024184	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"92"	7	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"76c485cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0707070707070707	"WGS"	FALSE
"17181"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	102668420	102668420	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"68"	23	75	"75"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"76c506b4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252747252747253	"WGS"	FALSE
"17182"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	106591418	106591418	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs565641234"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"61"	25	72	"72"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs565641234"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"G:0.0002"	"G:0.0008"	"G:0"	NA	"G:0"	"G:0"	"G:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"76c5eb10-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.290697674418605	"WGS"	FALSE
"17183"	"FBXL17"	64839	"mskcc.org"	"GRCh37"	"5"	107257334	107257334	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1823-40454G>C"	""	""	"ENST00000542267"	""	124	"97"	27	67	"67"	0	"FBXL17,intron_variant,,ENST00000542267,NM_001163315.2;FBXL17,intron_variant,,ENST00000359660,;FBXL17,intron_variant,,ENST00000496714,;"	"G"	"ENSG00000145743"	"ENST00000542267"	"Transcript"	"intron_variant"	"-/5188"	"-/2106"	"-/701"	""	""	""	"1"	NA	-1	"FBXL17"	"HGNC"	13615	"protein_coding"	"YES"	"CCDS54886.1"	"ENSP00000437464"	"Q9UF56"	""	"UPI00019B21FB"	"NM_001163315.2"	""	""	""	"7/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"76c60eb0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217741935483871	"WGS"	FALSE
"17184"	"TMEM232"	642987	"mskcc.org"	"GRCh37"	"5"	109904416	109904416	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1277-90T>C"	""	""	"ENST00000455884"	""	138	"110"	28	82	"82"	0	"TMEM232,intron_variant,,ENST00000429839,NM_001039763.3;TMEM232,intron_variant,,ENST00000455884,;TMEM232,intron_variant,,ENST00000515518,;TMEM232,intron_variant,,ENST00000515363,;TMEM232,intron_variant,,ENST00000508571,;TMEM232,intron_variant,,ENST00000512003,;"	"G"	"ENSG00000186952"	"ENST00000455884"	"Transcript"	"intron_variant"	"-/2501"	"-/1974"	"-/657"	""	""	""	"1"	NA	-1	"TMEM232"	"HGNC"	37270	"protein_coding"	"YES"	"CCDS47253.2"	"ENSP00000401477"	"C9JQI7"	"D6REY3,D6RC30"	"UPI00017A7675"	""	""	""	""	"10/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76c6a0aa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202898550724638	"WGS"	FALSE
"17185"	"STARD4-AS1"	100505678	"mskcc.org"	"GRCh37"	"5"	110902916	110902916	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.283+54710T>A"	""	""	"ENST00000500779"	""	100	"81"	19	74	"74"	0	"STARD4-AS1,intron_variant,,ENST00000500779,;HMGN1P13,downstream_gene_variant,,ENST00000505795,;"	"A"	"ENSG00000246859"	"ENST00000500779"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/5525"	""	""	""	""	""	"1"	NA	1	"STARD4-AS1"	"HGNC"	44117	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"76c6d160-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19	"WGS"	FALSE
"17186"	"EPB41L4A"	64097	"mskcc.org"	"GRCh37"	"5"	111736989	111736989	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.99+17649C>T"	""	""	"ENST00000261486"	""	99	"93"	6	77	"77"	0	"EPB41L4A,intron_variant,,ENST00000261486,NM_022140.3;EPB41L4A,intron_variant,,ENST00000305368,;"	"A"	"ENSG00000129595"	"ENST00000261486"	"Transcript"	"intron_variant"	"-/4707"	"-/2061"	"-/686"	""	""	""	"1"	NA	-1	"EPB41L4A"	"HGNC"	13278	"protein_coding"	"YES"	"CCDS43350.1"	"ENSP00000261486"	"Q9HCS5"	"Q8NEH8"	"UPI000020C3F8"	"NM_022140.3"	""	""	""	"1/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"76c6f88e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"17187"	"ENSR00001287558"	0	"mskcc.org"	"GRCh37"	"5"	111808176	111808176	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001287558"	""	103	"89"	14	51	"51"	0	""	"A"	""	"ENSR00001287558"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"76c6fa96-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135922330097087	"WGS"	FALSE
"17188"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	112280187	112280187	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"48"	6	49	"49"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"76c70d10-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"17189"	"RP11-492A10.1"	0	"mskcc.org"	"GRCh37"	"5"	113839465	113839465	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.332-7590T>C"	""	""	"ENST00000514115"	""	127	"120"	7	59	"59"	0	"RP11-492A10.1,intron_variant,,ENST00000514115,;"	"G"	"ENSG00000246316"	"ENST00000514115"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/443"	""	""	""	""	""	"1"	NA	-1	"RP11-492A10.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"76c75964-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0551181102362205	"WGS"	FALSE
"17190"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	114326208	114326208	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"85"	23	83	"83"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"76c76648-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212962962962963	"WGS"	FALSE
"17191"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	114343022	114343022	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	130	"116"	14	49	"49"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"76c767ce-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107692307692308	"WGS"	FALSE
"17192"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	116891852	116891852	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	125	"90"	35	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"76c80328-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"17193"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	116988593	116988593	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"89"	19	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"76c80ae4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175925925925926	"WGS"	FALSE
"17194"	"DMXL1"	1657	"mskcc.org"	"GRCh37"	"5"	118502905	118502905	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5137-393T>A"	""	""	"ENST00000311085"	""	107	"79"	28	50	"50"	0	"DMXL1,intron_variant,,ENST00000311085,NM_005509.4;DMXL1,intron_variant,,ENST00000539542,;DMXL1,upstream_gene_variant,,ENST00000507552,;DMXL1,upstream_gene_variant,,ENST00000504497,;"	"A"	"ENSG00000172869"	"ENST00000311085"	"Transcript"	"intron_variant"	"-/11072"	"-/9084"	"-/3027"	""	""	""	"1"	NA	1	"DMXL1"	"HGNC"	2937	"protein_coding"	"YES"	"CCDS4125.1"	"ENSP00000309690"	"Q9Y485"	"F1T0K4,E7EMZ0"	"UPI000013F0EC"	"NM_005509.4"	""	""	""	"22/42"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"76c85486-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261682242990654	"WGS"	FALSE
"17195"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	119031055	119031055	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"85"	10	66	"66"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"76c880dc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"17196"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	119441166	119441166	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"80"	29	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"76c88bea-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26605504587156	"WGS"	FALSE
"17197"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	120926924	120926924	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	119	"93"	26	61	"61"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"76c8d91a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.218487394957983	"WGS"	FALSE
"17198"	"RP11-166A12.1"	101927379	"mskcc.org"	"GRCh37"	"5"	122019092	122019092	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.921+13774A>C"	""	""	"ENST00000511194"	""	82	"76"	6	50	"50"	0	"RP11-166A12.1,intron_variant,,ENST00000511194,;"	"G"	"ENSG00000251538"	"ENST00000511194"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1651"	""	""	""	""	""	"1"	NA	-1	"RP11-166A12.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"8/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"76c912cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"17199"	"PRDM6"	93166	"mskcc.org"	"GRCh37"	"5"	122493751	122493751	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1029-1457C>T"	""	""	"ENST00000407847"	""	152	"116"	36	73	"73"	0	"PRDM6,intron_variant,,ENST00000407847,NM_001136239.1;PRDM6,intron_variant,,ENST00000464424,;PRDM6,intron_variant,,ENST00000434521,;"	"T"	"ENSG00000061455"	"ENST00000407847"	"Transcript"	"intron_variant"	"-/9267"	"-/1788"	"-/595"	""	""	""	"1"	NA	1	"PRDM6"	"HGNC"	9350	"protein_coding"	"YES"	"CCDS47259.1"	"ENSP00000384725"	"Q9NQX0"	""	"UPI0001610E83"	"NM_001136239.1"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"76c92be0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236842105263158	"WGS"	FALSE
"17200"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	125085339	125085339	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"71"	20	65	"64"	1	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"76c9b254-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21978021978022	"WGS"	FALSE
"17201"	"CTXN3"	613212	"mskcc.org"	"GRCh37"	"5"	126979766	126979766	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000379445"	""	129	"107"	22	62	"62"	0	"CTXN3,upstream_gene_variant,,ENST00000379445,NM_001048252.2;"	"T"	"ENSG00000205279"	"ENST00000379445"	"Transcript"	"upstream_gene_variant"	"-/1660"	"-/246"	"-/81"	""	""	""	"1"	"4970"	1	"CTXN3"	"HGNC"	31110	"protein_coding"	"YES"	"CCDS34221.1"	"ENSP00000368758"	"Q4LDR2"	""	"UPI000003ED31"	"NM_001048252.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"76ca1186-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170542635658915	"WGS"	FALSE
"17202"	"AC005741.2"	0	"mskcc.org"	"GRCh37"	"5"	129932214	129932214	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000511094"	""	105	"95"	10	51	"51"	0	"AC005741.2,upstream_gene_variant,,ENST00000511094,;"	"T"	"ENSG00000249418"	"ENST00000511094"	"Transcript"	"upstream_gene_variant"	"-/432"	""	""	""	""	""	"1"	"1827"	1	"AC005741.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"76ca92e6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"17203"	"LYRM7"	90624	"mskcc.org"	"GRCh37"	"5"	130519194	130519194	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.162+1202A>C"	""	""	"ENST00000379380"	""	85	"64"	21	59	"59"	0	"LYRM7,intron_variant,,ENST00000379380,NM_181705.2;LYRM7,intron_variant,,ENST00000510516,;LYRM7,intron_variant,,ENST00000507584,;"	"C"	"ENSG00000186687"	"ENST00000379380"	"Transcript"	"intron_variant"	"-/6351"	"-/315"	"-/104"	""	""	""	"1"	NA	1	"LYRM7"	"HGNC"	28072	"protein_coding"	"YES"	"CCDS4148.1"	"ENSP00000368688"	"Q5U5X0"	""	"UPI000013FEB8"	"NM_181705.2"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"76caaa24-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247058823529412	"WGS"	FALSE
"17204"	"FSTL4"	23105	"mskcc.org"	"GRCh37"	"5"	132781768	132781768	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.161-45090G>A"	""	""	"ENST00000265342"	""	107	"87"	20	74	"74"	0	"FSTL4,intron_variant,,ENST00000265342,NM_015082.1;FSTL4,intron_variant,,ENST00000510685,;"	"T"	"ENSG00000053108"	"ENST00000265342"	"Transcript"	"intron_variant"	"-/5419"	"-/2529"	"-/842"	""	""	""	"1"	NA	-1	"FSTL4"	"HGNC"	21389	"protein_coding"	"YES"	"CCDS34238.1"	"ENSP00000265342"	"Q6MZW2"	""	"UPI000003AFB0"	"NM_015082.1"	""	""	""	"3/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"76cb0a78-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186915887850467	"WGS"	FALSE
"17205"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	133197743	133197743	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"90"	6	68	"68"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"76cb1d38-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"17206"	"CTD-2410N18.4"	0	"mskcc.org"	"GRCh37"	"5"	133608416	133608416	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1226+29865C>G"	""	""	"ENST00000520515"	""	54	"50"	4	47	"47"	0	"CDKL3,intron_variant,,ENST00000609654,;CDKL3,intron_variant,,ENST00000609383,;CTD-2410N18.4,intron_variant,,ENST00000518409,;CTD-2410N18.4,intron_variant,,ENST00000520515,;CTD-2410N18.1,downstream_gene_variant,,ENST00000498563,;"	"C"	"ENSG00000273345"	"ENST00000520515"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1744"	""	""	""	""	""	"1"	NA	-1	"CTD-2410N18.4"	"Clone_based_vega_gene"	NA	"retained_intron"	"YES"	""	""	""	""	""	""	""	""	""	"9/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"76cb4074-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"17207"	"TXNDC15"	79770	"mskcc.org"	"GRCh37"	"5"	134211897	134211897	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.103+1677A>T"	""	""	"ENST00000358387"	""	39	"35"	4	40	"40"	0	"TXNDC15,intron_variant,,ENST00000358387,NM_024715.3;TXNDC15,intron_variant,,ENST00000508779,;TXNDC15,intron_variant,,ENST00000546290,;TXNDC15,intron_variant,,ENST00000508810,;TXNDC15,intron_variant,,ENST00000506916,;TXNDC15,intron_variant,,ENST00000507024,;TXNDC15,intron_variant,,ENST00000511070,;"	"T"	"ENSG00000113621"	"ENST00000358387"	"Transcript"	"intron_variant"	"-/3548"	"-/1083"	"-/360"	""	""	""	"1"	NA	1	"TXNDC15"	"HGNC"	20652	"protein_coding"	"YES"	"CCDS4180.1"	"ENSP00000351157"	"Q96J42"	""	"UPI00000359EE"	"NM_024715.3"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"76cb6c52-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"17208"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	134975707	134975707	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	132	"99"	33	89	"89"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"76cb887c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"17209"	"SPOCK1"	6695	"mskcc.org"	"GRCh37"	"5"	136578937	136578937	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs368115318"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.232+23762G>A"	""	""	"ENST00000394945"	""	131	"100"	31	72	"72"	0	"SPOCK1,intron_variant,,ENST00000394945,NM_004598.3;SPOCK1,intron_variant,,ENST00000282223,;SPOCK1,intron_variant,,ENST00000510689,;SPOCK1,intron_variant,,ENST00000505690,;SPOCK1,intron_variant,,ENST00000510405,;SPOCK1,intron_variant,,ENST00000503916,;"	"T"	"ENSG00000152377"	"ENST00000394945"	"Transcript"	"intron_variant"	"-/4846"	"-/1320"	"-/439"	""	""	"rs368115318"	"1"	NA	-1	"SPOCK1"	"HGNC"	11251	"protein_coding"	"YES"	"CCDS4191.1"	"ENSP00000378401"	"Q08629"	"D6RB21,D6RAM7,D3DQB3"	"UPI0000136F50"	"NM_004598.3"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"76cbd638-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236641221374046	"WGS"	FALSE
"17210"	"NME5"	8382	"mskcc.org"	"GRCh37"	"5"	137453917	137453917	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.555+590G>A"	""	""	"ENST00000265191"	""	35	"31"	4	29	"29"	0	"NME5,intron_variant,,ENST00000265191,NM_003551.2;RNU6-460P,downstream_gene_variant,,ENST00000391158,;snoU13,upstream_gene_variant,,ENST00000459094,;RNU6-888P,downstream_gene_variant,,ENST00000363010,;NME5,upstream_gene_variant,,ENST00000514481,;NME5,intron_variant,,ENST00000506657,;"	"T"	"ENSG00000112981"	"ENST00000265191"	"Transcript"	"intron_variant"	"-/1193"	"-/639"	"-/212"	""	""	""	"1"	NA	-1	"NME5"	"HGNC"	7853	"protein_coding"	"YES"	"CCDS4197.1"	"ENSP00000265191"	"P56597"	""	"UPI000000129C"	"NM_003551.2"	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"76cc0a18-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"17211"	"FAM53C"	51307	"mskcc.org"	"GRCh37"	"5"	137678317	137678317	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.136+762G>A"	""	""	"ENST00000239906"	""	81	"75"	6	37	"37"	0	"FAM53C,intron_variant,,ENST00000239906,NM_016605.2;FAM53C,intron_variant,,ENST00000434981,NM_001135647.1;FAM53C,intron_variant,,ENST00000513056,;FAM53C,intron_variant,,ENST00000511276,;CDC25C,upstream_gene_variant,,ENST00000513970,NM_001287583.1;CDC25C,upstream_gene_variant,,ENST00000510119,;RP11-256P1.1,downstream_gene_variant,,ENST00000504539,;FAM53C,intron_variant,,ENST00000507506,;FAM53C,intron_variant,,ENST00000505768,;FAM53C,intron_variant,,ENST00000505136,;FAM53C,intron_variant,,ENST00000512180,;FAM53C,non_coding_transcript_exon_variant,,ENST00000511024,;"	"A"	"ENSG00000120709"	"ENST00000239906"	"Transcript"	"intron_variant"	"-/4375"	"-/1179"	"-/392"	""	""	""	"1"	NA	1	"FAM53C"	"HGNC"	1336	"protein_coding"	"YES"	"CCDS4204.1"	"ENSP00000239906"	"Q9NYF3"	""	"UPI000006DF45"	"NM_016605.2"	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"76cc179c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0740740740740741	"WGS"	FALSE
"17212"	"ETF1"	2107	"mskcc.org"	"GRCh37"	"5"	137859148	137859148	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.87-4592C>T"	""	""	"ENST00000360541"	""	58	"47"	11	44	"44"	0	"ETF1,intron_variant,,ENST00000499810,NM_001282185.1,NM_001256302.1;ETF1,intron_variant,,ENST00000360541,NM_004730.3;ETF1,intron_variant,,ENST00000503014,;ETF1,intron_variant,,ENST00000572514,;ETF1,intron_variant,,ENST00000507939,;ETF1,intron_variant,,ENST00000514005,;ETF1,intron_variant,,ENST00000512198,;"	"A"	"ENSG00000120705"	"ENST00000360541"	"Transcript"	"intron_variant"	"-/3742"	"-/1314"	"-/437"	""	""	""	"1"	NA	-1	"ETF1"	"HGNC"	3477	"protein_coding"	"YES"	"CCDS4207.1"	"ENSP00000353741"	"P62495"	"Q96CG1,I3L492,D6RJE8"	"UPI00001110CB"	"NM_004730.3"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"76cc1f94-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189655172413793	"WGS"	FALSE
"17213"	"CTC-329D1.2"	0	"mskcc.org"	"GRCh37"	"5"	139765655	139765655	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.258-14888T>C"	""	""	"ENST00000507521"	""	56	"51"	5	46	"46"	0	"CTC-329D1.2,intron_variant,,ENST00000507521,;"	"G"	"ENSG00000249637"	"ENST00000507521"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/549"	""	""	""	""	""	"1"	NA	-1	"CTC-329D1.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"76cc82ea-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0892857142857143	"WGS"	FALSE
"17214"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	141470637	141470637	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"53"	19	54	"54"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76cce474-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263888888888889	"WGS"	FALSE
"17215"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	144019761	144019761	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"67"	25	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"76cd5292-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"17216"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	145279982	145279982	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	88	"82"	6	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"76cd948c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0681818181818182	"WGS"	FALSE
"17217"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	145906490	145906490	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	80	"64"	16	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"76cde23e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"17218"	"SH3TC2"	79628	"mskcc.org"	"GRCh37"	"5"	148376421	148376421	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.231+10023C>A"	""	""	"ENST00000510350"	""	96	"72"	24	73	"73"	0	"SH3TC2,intron_variant,,ENST00000510350,;SH3TC2,intron_variant,,ENST00000504690,;SH3TC2,downstream_gene_variant,,ENST00000323829,;"	"T"	"ENSG00000169247"	"ENST00000510350"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/316"	""	""	""	""	""	"1"	NA	-1	"SH3TC2"	"HGNC"	29427	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"76ce613c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"17219"	"CTC-529P8.1"	0	"mskcc.org"	"GRCh37"	"5"	148473461	148473461	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.330-15565C>T"	""	""	"ENST00000509139"	""	78	"59"	19	57	"57"	0	"CTC-529P8.1,intron_variant,,ENST00000509139,;CTC-529P8.1,intron_variant,,ENST00000507373,;CTC-529P8.1,downstream_gene_variant,,ENST00000512007,;"	"T"	"ENSG00000250072"	"ENST00000509139"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/654"	""	""	""	""	""	"1"	NA	1	"CTC-529P8.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"76ce67c2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.243589743589744	"WGS"	FALSE
"17220"	"MIR143HG"	728264	"mskcc.org"	"GRCh37"	"5"	148785193	148785193	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000602964"	""	69	"52"	17	60	"60"	0	"MIR143HG,upstream_gene_variant,,ENST00000602964,;AC131025.8,upstream_gene_variant,,ENST00000518014,;MIR143HG,upstream_gene_variant,,ENST00000505254,;MIR143HG,upstream_gene_variant,,ENST00000519898,;MIR143HG,upstream_gene_variant,,ENST00000505340,;MIR143HG,upstream_gene_variant,,ENST00000512096,;MIR143HG,upstream_gene_variant,,ENST00000509909,;IL17B,upstream_gene_variant,,ENST00000505432,;MIR143HG,upstream_gene_variant,,ENST00000522358,;MIR143HG,upstream_gene_variant,,ENST00000524265,;MIR143HG,upstream_gene_variant,,ENST00000523269,;"	"T"	"ENSG00000249669"	"ENST00000602964"	"Transcript"	"upstream_gene_variant"	"-/8398"	""	""	""	""	""	"1"	"1249"	1	"MIR143HG"	"HGNC"	42872	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"76ce774e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246376811594203	"WGS"	FALSE
"17221"	"CD74"	972	"mskcc.org"	"GRCh37"	"5"	149794254	149794254	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"rs201491747"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000009530"	""	56	"50"	6	47	"47"	0	"CD74,upstream_gene_variant,,ENST00000518797,;CD74,upstream_gene_variant,,ENST00000353334,NM_001025159.2,NM_004355.3;CD74,upstream_gene_variant,,ENST00000377795,NM_001025158.2;CD74,upstream_gene_variant,,ENST00000009530,;CD74,upstream_gene_variant,,ENST00000524315,;CD74,upstream_gene_variant,,ENST00000517791,;CD74,upstream_gene_variant,,ENST00000517752,;CD74,upstream_gene_variant,,ENST00000523208,;CD74,upstream_gene_variant,,ENST00000523836,;CD74,upstream_gene_variant,,ENST00000522246,;CD74,upstream_gene_variant,,ENST00000522153,;CD74,upstream_gene_variant,,ENST00000523813,;"	"T"	"ENSG00000019582"	"ENST00000009530"	"Transcript"	"upstream_gene_variant"	"-/981"	"-/891"	"-/296"	""	""	"rs201491747"	"1"	"1940"	-1	"CD74"	"HGNC"	1697	"protein_coding"	"YES"	"CCDS47309.1"	"ENSP00000009530"	"P04233"	"O78208,O19685"	"UPI000012C6BB"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"76ceaa20-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107142857142857	"WGS"	TRUE
"17222"	"CCDC69"	26112	"mskcc.org"	"GRCh37"	"5"	150582576	150582576	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.125-1327G>A"	""	""	"ENST00000355417"	""	78	"61"	17	45	"45"	0	"CCDC69,intron_variant,,ENST00000355417,NM_015621.2;CCDC69,intron_variant,,ENST00000521308,;CCDC69,downstream_gene_variant,,ENST00000522179,;CCDC69,intron_variant,,ENST00000518189,;CCDC69,intron_variant,,ENST00000522964,;CCDC69,intron_variant,,ENST00000524344,;"	"T"	"ENSG00000198624"	"ENST00000355417"	"Transcript"	"intron_variant"	"-/3451"	"-/891"	"-/296"	""	""	""	"1"	NA	-1	"CCDC69"	"HGNC"	24487	"protein_coding"	"YES"	"CCDS4312.1"	"ENSP00000347586"	"A6NI79"	""	"UPI000020CFF2"	"NM_015621.2"	""	""	""	"2/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76ced234-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217948717948718	"WGS"	FALSE
"17223"	"AC091969.1"	101927134	"mskcc.org"	"GRCh37"	"5"	152213244	152213244	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.179-13384C>T"	""	""	"ENST00000522300"	""	104	"91"	13	68	"68"	0	"AC091969.1,intron_variant,,ENST00000522300,;AC091969.1,intron_variant,,ENST00000503048,;"	"A"	"ENSG00000249484"	"ENST00000522300"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2108"	""	""	""	""	""	"1"	NA	-1	"AC091969.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76cf264e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"17224"	"GRIA1"	2890	"mskcc.org"	"GRCh37"	"5"	152994292	152994292	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.251-32196T>C"	""	""	"ENST00000518783"	""	132	"111"	21	73	"73"	0	"GRIA1,intron_variant,,ENST00000285900,NM_000827.3,NM_001258019.1;GRIA1,intron_variant,,ENST00000518783,NM_001258021.1;GRIA1,intron_variant,,ENST00000340592,NM_001258020.1,NM_001114183.1;GRIA1,intron_variant,,ENST00000521843,NM_001258023.1;GRIA1,intron_variant,,ENST00000448073,NM_001258022.1;GRIA1,intron_variant,,ENST00000518142,;GRIA1,intron_variant,,ENST00000518862,;GRIA1,intron_variant,,ENST00000520966,;GRIA1,intron_variant,,ENST00000481559,;"	"C"	"ENSG00000155511"	"ENST00000518783"	"Transcript"	"intron_variant"	"-/5233"	"-/2751"	"-/916"	""	""	""	"1"	NA	1	"GRIA1"	"HGNC"	4571	"protein_coding"	"YES"	"CCDS58987.1"	"ENSP00000428994"	"P42261"	""	"UPI0001E8F433"	"NM_001258021.1"	""	""	""	"2/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"76cf5330-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.159090909090909	"WGS"	FALSE
"17225"	"CLINT1"	9685	"mskcc.org"	"GRCh37"	"5"	157216196	157216196	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1585+175T>C"	""	""	"ENST00000523908"	""	99	"92"	7	52	"52"	0	"CLINT1,intron_variant,,ENST00000523094,NM_001195556.1,NM_001195555.1;CLINT1,intron_variant,,ENST00000296951,;CLINT1,intron_variant,,ENST00000411809,NM_014666.3;CLINT1,intron_variant,,ENST00000530742,;CLINT1,intron_variant,,ENST00000523908,;CLINT1,intron_variant,,ENST00000522381,;CLINT1,downstream_gene_variant,,ENST00000521615,;CLINT1,intron_variant,,ENST00000518855,;CLINT1,intron_variant,,ENST00000524306,;CLINT1,intron_variant,,ENST00000521047,;CLINT1,downstream_gene_variant,,ENST00000530302,;"	"G"	"ENSG00000113282"	"ENST00000523908"	"Transcript"	"intron_variant"	"-/2346"	"-/1932"	"-/643"	""	""	""	"1"	NA	-1	"CLINT1"	"HGNC"	23186	"protein_coding"	"YES"	"CCDS56389.1"	"ENSP00000429824"	"Q14677"	""	"UPI00003E6460"	""	""	""	""	"11/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76d01a40-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0707070707070707	"WGS"	FALSE
"17226"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	159570756	159570756	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"38"	3	45	"45"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"76d09344-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"17227"	"ATP10B"	23120	"mskcc.org"	"GRCh37"	"5"	160211776	160211776	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-331+790G>T"	""	""	"ENST00000327245"	""	134	"119"	15	69	"69"	0	"ATP10B,intron_variant,,ENST00000327245,NM_025153.2;ATP10B,intron_variant,,ENST00000518411,;ATP10B,intron_variant,,ENST00000520098,;ATP10B,intron_variant,,ENST00000520975,;ATP10B,intron_variant,,ENST00000517802,;ATP10B,intron_variant,,ENST00000521033,;"	"A"	"ENSG00000118322"	"ENST00000327245"	"Transcript"	"intron_variant"	"-/7566"	"-/4386"	"-/1461"	""	""	""	"1"	NA	-1	"ATP10B"	"HGNC"	13543	"protein_coding"	"YES"	"CCDS43394.1"	"ENSP00000313600"	"O94823"	""	"UPI0000191DAE"	"NM_025153.2"	""	""	""	"2/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76d0b694-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111940298507463	"WGS"	FALSE
"17228"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	160317369	160317369	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"91"	8	70	"70"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76d0ba9a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0808080808080808	"WGS"	FALSE
"17229"	"GABRA6"	2559	"mskcc.org"	"GRCh37"	"5"	161049665	161049665	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.42-9053A>G"	""	""	"ENST00000522269"	""	97	"75"	22	61	"61"	0	"GABRA6,intron_variant,,ENST00000522269,;"	"G"	"ENSG00000145863"	"ENST00000522269"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/584"	""	""	""	""	""	"1"	NA	1	"GABRA6"	"HGNC"	4080	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"76d0e3d0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22680412371134	"WGS"	FALSE
"17230"	"GABRG2"	2566	"mskcc.org"	"GRCh37"	"5"	161559557	161559557	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.890-9613G>A"	""	""	"ENST00000414552"	""	131	"99"	32	74	"74"	0	"GABRG2,intron_variant,,ENST00000356592,NM_198904.2,NM_000816.3;GABRG2,intron_variant,,ENST00000414552,NM_198903.2;GABRG2,intron_variant,,ENST00000393933,;GABRG2,intron_variant,,ENST00000361925,;GABRG2,intron_variant,,ENST00000522053,;GABRG2,intron_variant,,ENST00000522990,;GABRG2,intron_variant,,ENST00000523372,;"	"A"	"ENSG00000113327"	"ENST00000414552"	"Transcript"	"intron_variant"	"-/3927"	"-/1548"	"-/515"	""	""	""	"1"	NA	1	"GABRG2"	"HGNC"	4087	"protein_coding"	"YES"	"CCDS47333.1"	"ENSP00000410732"	"P18507"	""	"UPI00017503BD"	"NM_198903.2"	""	""	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"76d0fb18-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244274809160305	"WGS"	FALSE
"17231"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	161939968	161939968	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"75"	21	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"76d11396-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21875	"WGS"	FALSE
"17232"	"RP11-541P9.3"	0	"mskcc.org"	"GRCh37"	"5"	162522957	162522957	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.118-6605C>T"	""	""	"ENST00000509211"	""	114	"90"	24	57	"57"	0	"RP11-541P9.3,intron_variant,,ENST00000509211,;RP11-541P9.3,intron_variant,,ENST00000458002,;"	"A"	"ENSG00000250061"	"ENST00000509211"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/630"	""	""	""	""	""	"1"	NA	-1	"RP11-541P9.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76d13114-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"17233"	"CTC-207P7.1"	0	"mskcc.org"	"GRCh37"	"5"	163570216	163570216	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.496-23934G>A"	""	""	"ENST00000521805"	""	87	"75"	12	45	"45"	0	"CTC-207P7.1,intron_variant,,ENST00000521805,;"	"T"	"ENSG00000253331"	"ENST00000521805"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/674"	""	""	""	""	""	"1"	NA	-1	"CTC-207P7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"76d16378-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WGS"	FALSE
"17234"	"CTC-207P7.1"	0	"mskcc.org"	"GRCh37"	"5"	163582585	163582585	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.496-36303G>T"	""	""	"ENST00000521805"	""	96	"74"	22	74	"73"	1	"CTC-207P7.1,intron_variant,,ENST00000521805,;"	"A"	"ENSG00000253331"	"ENST00000521805"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/674"	""	""	""	""	""	"1"	NA	-1	"CTC-207P7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"76d1656c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229166666666667	"WGS"	FALSE
"17235"	"CTD-2313P7.1"	101927835	"mskcc.org"	"GRCh37"	"5"	163872759	163872759	"+"	"3'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000519929"	""	117	"98"	19	84	"84"	0	"CTD-2313P7.1,downstream_gene_variant,,ENST00000519929,;CTC-340A15.2,intron_variant,,ENST00000486913,;CTC-340A15.2,intron_variant,,ENST00000524297,;CTC-340A15.2,intron_variant,,ENST00000517508,;CTC-340A15.2,intron_variant,,ENST00000522686,;CTC-340A15.2,intron_variant,,ENST00000523648,;CTC-340A15.2,intron_variant,,ENST00000519570,;CTC-340A15.2,intron_variant,,ENST00000522646,;CTC-340A15.2,intron_variant,,ENST00000519329,;CTC-340A15.2,intron_variant,,ENST00000522303,;CTC-340A15.2,intron_variant,,ENST00000523704,;"	"A"	"ENSG00000253236"	"ENST00000519929"	"Transcript"	"downstream_gene_variant"	"-/520"	""	""	""	""	""	"1"	"2669"	-1	"CTD-2313P7.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"76d1721e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162393162393162	"WGS"	FALSE
"17236"	"CTC-340A15.2"	102546299	"mskcc.org"	"GRCh37"	"5"	164318030	164318030	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs544448412"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.347-29111C>T"	""	""	"ENST00000519570"	""	124	"90"	34	66	"66"	0	"CTC-340A15.2,intron_variant,,ENST00000519570,;CTC-340A15.2,intron_variant,,ENST00000522646,;CTC-340A15.2,intron_variant,,ENST00000522303,;"	"T"	"ENSG00000241956"	"ENST00000519570"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/717"	""	""	""	""	"rs544448412"	"1"	NA	1	"CTC-340A15.2"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"3/5"	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"76d18c72-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274193548387097	"WGS"	FALSE
"17237"	"CTC-535M15.2"	0	"mskcc.org"	"GRCh37"	"5"	164800277	164800277	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.21+24221A>G"	""	""	"ENST00000522189"	""	92	"67"	25	48	"48"	0	"CTC-535M15.2,intron_variant,,ENST00000522189,;"	"G"	"ENSG00000253693"	"ENST00000522189"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/734"	""	""	""	""	""	"1"	NA	1	"CTC-535M15.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"76d1b936-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271739130434783	"WGS"	FALSE
"17238"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	166120109	166120109	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"79"	21	56	"56"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"76d202ba-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21	"WGS"	FALSE
"17239"	"TENM2"	57451	"mskcc.org"	"GRCh37"	"5"	166930522	166930522	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.502+128044C>T"	""	""	"ENST00000518659"	""	112	"105"	7	75	"75"	0	"TENM2,intron_variant,,ENST00000518659,NM_001122679.1;TENM2,intron_variant,,ENST00000545108,;"	"T"	"ENSG00000145934"	"ENST00000518659"	"Transcript"	"intron_variant"	"-/8550"	"-/8325"	"-/2774"	""	""	""	"1"	NA	1	"TENM2"	"HGNC"	29943	"protein_coding"	"YES"	""	"ENSP00000429430"	"Q9NT68"	"G8BLJ6,G3CAS7"	"UPI0001C48FC2"	"NM_001122679.1"	""	""	""	"2/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76d244f0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0625	"WGS"	FALSE
"17240"	"SLIT3"	6586	"mskcc.org"	"GRCh37"	"5"	168160273	168160273	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2271-8784T>G"	""	""	"ENST00000519560"	""	93	"88"	5	48	"48"	0	"SLIT3,intron_variant,,ENST00000519560,NM_003062.3,NM_001271946.1;SLIT3,intron_variant,,ENST00000332966,;SLIT3,intron_variant,,ENST00000404867,;"	"C"	"ENSG00000184347"	"ENST00000519560"	"Transcript"	"intron_variant"	"-/9706"	"-/4572"	"-/1523"	""	""	""	"1"	NA	-1	"SLIT3"	"HGNC"	11087	"protein_coding"	"YES"	"CCDS4369.1"	"ENSP00000430333"	"O75094"	""	"UPI00001B0229"	"NM_003062.3,NM_001271946.1"	""	""	""	"20/35"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76d28802-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0537634408602151	"WGS"	FALSE
"17241"	"SLIT3"	6586	"mskcc.org"	"GRCh37"	"5"	168257377	168257377	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"rs778876422"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.558-7041G>C"	""	""	"ENST00000519560"	""	99	"78"	21	69	"69"	0	"SLIT3,intron_variant,,ENST00000519560,NM_003062.3,NM_001271946.1;SLIT3,intron_variant,,ENST00000332966,;SLIT3,intron_variant,,ENST00000404867,;SLIT3,intron_variant,,ENST00000518140,;SLIT3,intron_variant,,ENST00000521150,;"	"G"	"ENSG00000184347"	"ENST00000519560"	"Transcript"	"intron_variant"	"-/9706"	"-/4572"	"-/1523"	""	""	"rs778876422"	"1"	NA	-1	"SLIT3"	"HGNC"	11087	"protein_coding"	"YES"	"CCDS4369.1"	"ENSP00000430333"	"O75094"	""	"UPI00001B0229"	"NM_003062.3,NM_001271946.1"	""	""	""	"6/35"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"76d28eba-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212121212121212	"WGS"	FALSE
"17242"	"DOCK2"	1794	"mskcc.org"	"GRCh37"	"5"	169328589	169328589	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2799+60733G>A"	""	""	"ENST00000256935"	""	96	"69"	27	69	"69"	0	"DOCK2,intron_variant,,ENST00000256935,NM_004946.2;DOCK2,intron_variant,,ENST00000520908,;DOCK2,intron_variant,,ENST00000540750,;FAM196B,intron_variant,,ENST00000377365,NM_001129891.1;DOCK2,intron_variant,,ENST00000519628,;DOCK2,intron_variant,,ENST00000523351,;FAM196B,intron_variant,,ENST00000523970,;DOCK2,intron_variant,,ENST00000524185,;"	"A"	"ENSG00000134516"	"ENST00000256935"	"Transcript"	"intron_variant"	"-/6097"	"-/5493"	"-/1830"	""	""	""	"1"	NA	1	"DOCK2"	"HGNC"	2988	"protein_coding"	"YES"	"CCDS4371.1"	"ENSP00000256935"	"Q92608"	"Q5XG91,B3KXW9"	"UPI00001A38CC"	"NM_004946.2"	""	""	""	"27/51"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"76d2c808-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28125	"WGS"	FALSE
"17243"	"FBXW11"	23291	"mskcc.org"	"GRCh37"	"5"	171341195	171341195	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.148-3394A>G"	""	""	"ENST00000265094"	""	90	"76"	14	51	"51"	0	"FBXW11,intron_variant,,ENST00000296933,NM_033645.2,NM_033644.2;FBXW11,intron_variant,,ENST00000265094,NM_012300.2;FBXW11,intron_variant,,ENST00000393802,;FBXW11,intron_variant,,ENST00000425623,;FBXW11,intron_variant,,ENST00000517395,;FBXW11,intron_variant,,ENST00000518752,;FBXW11,intron_variant,,ENST00000522507,;FBXW11,intron_variant,,ENST00000523843,;FBXW11,intron_variant,,ENST00000519693,;FBXW11,intron_variant,,ENST00000520376,;"	"C"	"ENSG00000072803"	"ENST00000265094"	"Transcript"	"intron_variant"	"-/4342"	"-/1629"	"-/542"	""	""	""	"1"	NA	-1	"FBXW11"	"HGNC"	13607	"protein_coding"	"YES"	"CCDS34289.1"	"ENSP00000265094"	"Q9UKB1"	""	"UPI000012ADB8"	"NM_012300.2"	""	""	""	"2/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"76d34fda-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155555555555556	"WGS"	FALSE
"17244"	"RP11-267A15.1"	0	"mskcc.org"	"GRCh37"	"5"	173780848	173780848	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.82+17269A>G"	""	""	"ENST00000510234"	""	69	"63"	6	48	"48"	0	"RP11-267A15.1,intron_variant,,ENST00000510234,;RP11-267A15.1,intron_variant,,ENST00000507361,;RP11-267A15.1,intron_variant,,ENST00000515513,;"	"G"	"ENSG00000249306"	"ENST00000510234"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/844"	""	""	""	""	""	"1"	NA	1	"RP11-267A15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"76d3d7f2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"17245"	"CTD-2532K18.1"	0	"mskcc.org"	"GRCh37"	"5"	174191574	174191574	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.50+13218C>T"	""	""	"ENST00000502684"	""	61	"42"	19	46	"46"	0	"CTD-2532K18.1,intron_variant,,ENST00000502684,;"	"T"	"ENSG00000251670"	"ENST00000502684"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/457"	""	""	""	""	""	"1"	NA	1	"CTD-2532K18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"76d3fce6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.311475409836066	"WGS"	FALSE
"17246"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	4230047	4230047	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"62"	17	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76d7f85a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215189873417722	"WGS"	FALSE
"17247"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	9468916	9468916	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	130	"100"	30	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"76d94fac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"17248"	"OFCC1"	266553	"mskcc.org"	"GRCh37"	"6"	9800232	9800232	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.481+9578C>A"	""	""	"ENST00000460363"	""	122	"107"	15	65	"65"	0	"OFCC1,intron_variant,,ENST00000460363,;OFCC1,intron_variant,,ENST00000492169,;OFCC1,intron_variant,,ENST00000460066,;OFCC1,intron_variant,,ENST00000492094,;OFCC1,intron_variant,,ENST00000487015,;"	"T"	"ENSG00000181355"	"ENST00000460363"	"Transcript"	"intron_variant"	"-/919"	"-/900"	"-/300"	""	""	""	"1"	NA	-1	"OFCC1"	"HGNC"	21017	"protein_coding"	"YES"	""	"ENSP00000419718"	""	"Q8IZS0"	"UPI00000740B8"	""	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"76d9660e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122950819672131	"WGS"	FALSE
"17249"	"OFCC1"	266553	"mskcc.org"	"GRCh37"	"6"	10166039	10166039	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-101-6307T>A"	""	""	"ENST00000481704"	""	118	"112"	6	67	"67"	0	"OFCC1,intron_variant,,ENST00000481704,;OFCC1,intron_variant,,ENST00000462111,;"	"T"	"ENSG00000181355"	"ENST00000481704"	"Transcript"	"intron_variant"	"-/398"	"-/66"	"-/22"	""	""	""	"1"	NA	-1	"OFCC1"	"HGNC"	21017	"protein_coding"	""	""	"ENSP00000418286"	""	"Q8IZS4"	"UPI00000740B4"	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"76d9798c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0508474576271186	"WGS"	FALSE
"17250"	"NEDD9"	4739	"mskcc.org"	"GRCh37"	"6"	11234727	11234727	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000379446"	""	95	"77"	18	61	"61"	0	"NEDD9,intron_variant,,ENST00000504387,NM_001142393.1;NEDD9,intron_variant,,ENST00000513989,;NEDD9,intron_variant,,ENST00000508546,;NEDD9,intron_variant,,ENST00000397378,;NEDD9,upstream_gene_variant,,ENST00000379446,NM_001271033.1,NM_006403.3;NEDD9,upstream_gene_variant,,ENST00000379433,NM_182966.3;RP3-510L9.1,intron_variant,,ENST00000500636,;NEDD9,intron_variant,,ENST00000448183,;"	"A"	"ENSG00000111859"	"ENST00000379446"	"Transcript"	"upstream_gene_variant"	"-/4536"	"-/2505"	"-/834"	""	""	""	"1"	"1812"	-1	"NEDD9"	"HGNC"	7733	"protein_coding"	"YES"	"CCDS4520.1"	"ENSP00000368759"	"Q14511"	"D6RGD7"	"UPI000000D981"	"NM_001271033.1,NM_006403.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"76d9baf0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189473684210526	"WGS"	FALSE
"17251"	"RANBP9"	10048	"mskcc.org"	"GRCh37"	"6"	13682298	13682298	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.683+14719A>G"	""	""	"ENST00000011619"	""	83	"67"	16	49	"49"	0	"RANBP9,intron_variant,,ENST00000011619,NM_005493.2;RANBP9,intron_variant,,ENST00000539980,;RNU7-91P,downstream_gene_variant,,ENST00000517157,;"	"C"	"ENSG00000010017"	"ENST00000011619"	"Transcript"	"intron_variant"	"-/3113"	"-/2190"	"-/729"	""	""	""	"1"	NA	-1	"RANBP9"	"HGNC"	13727	"protein_coding"	"YES"	"CCDS4529.1"	"ENSP00000011619"	"Q96S59"	"B2R8E1"	"UPI000006ED83"	"NM_005493.2"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"76da5604-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192771084337349	"WGS"	FALSE
"17252"	"RP11-146I2.1"	0	"mskcc.org"	"GRCh37"	"6"	15024385	15024385	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.427-26679A>G"	""	""	"ENST00000437648"	""	32	"26"	6	37	"37"	0	"RP11-146I2.1,intron_variant,,ENST00000437648,;"	"C"	"ENSG00000234261"	"ENST00000437648"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1017"	""	""	""	""	""	"1"	NA	-1	"RP11-146I2.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"76daa17c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"17253"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"6"	16233356	16233356	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000384464"	""	83	"69"	14	47	"47"	0	"Y_RNA,upstream_gene_variant,,ENST00000384464,;"	"T"	"ENSG00000207193"	"ENST00000384464"	"Transcript"	"upstream_gene_variant"	"-/100"	""	""	""	""	""	"1"	"795"	-1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76dad9d0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168674698795181	"WGS"	FALSE
"17254"	"Y_RNA"	0	"mskcc.org"	"GRCh37"	"6"	17736568	17736568	"+"	"3'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000364572"	""	48	"39"	9	38	"38"	0	"Y_RNA,downstream_gene_variant,,ENST00000364572,;"	"C"	"ENSG00000201442"	"ENST00000364572"	"Transcript"	"downstream_gene_variant"	"-/102"	""	""	""	""	""	"1"	"1121"	-1	"Y_RNA"	"RFAM"	NA	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"76db29bc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"17255"	"ENSR00001212700"	0	"mskcc.org"	"GRCh37"	"6"	17998978	17998978	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001212700"	""	68	"50"	18	52	"52"	0	""	"T"	""	"ENSR00001212700"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"76db354c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.264705882352941	"WGS"	FALSE
"17256"	"TRIM38"	10475	"mskcc.org"	"GRCh37"	"6"	25978858	25978858	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.875-4534T>A"	""	""	"ENST00000357085"	""	87	"82"	5	56	"56"	0	"TRIM38,intron_variant,,ENST00000357085,NM_006355.3;TRIM38,intron_variant,,ENST00000349458,;"	"A"	"ENSG00000112343"	"ENST00000357085"	"Transcript"	"intron_variant"	"-/5343"	"-/1398"	"-/465"	""	""	""	"1"	NA	1	"TRIM38"	"HGNC"	10059	"protein_coding"	"YES"	"CCDS4568.1"	"ENSP00000349596"	"O00635"	""	"UPI000013431A"	"NM_006355.3"	""	""	""	"7/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"76dd0dc2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0574712643678161	"WGS"	FALSE
"17257"	"HNRNPA1P1"	0	"mskcc.org"	"GRCh37"	"6"	27487225	27487225	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000401954"	""	70	"62"	8	56	"56"	0	"HNRNPA1P1,upstream_gene_variant,,ENST00000401954,;XXbac-BPGBPG34I8.1,upstream_gene_variant,,ENST00000603933,;"	"A"	"ENSG00000218347"	"ENST00000401954"	"Transcript"	"upstream_gene_variant"	"-/944"	""	""	""	""	""	"1"	"3630"	1	"HNRNPA1P1"	"HGNC"	13957	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"76dd90da-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114285714285714	"WGS"	FALSE
"17258"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	29311554	29311554	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"76"	25	52	"52"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"76de0e34-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247524752475248	"WGS"	FALSE
"17259"	"TAP2"	6891	"mskcc.org"	"GRCh37"	"6"	32787720	32787720	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000374899"	""	101	"85"	16	61	"61"	0	"TAP2,intron_variant,,ENST00000452392,;TAP2,downstream_gene_variant,,ENST00000374899,NM_018833.2;HLA-DOB,upstream_gene_variant,,ENST00000438763,NM_002120.3;HLA-DOB,upstream_gene_variant,,ENST00000447394,;HLA-DOB,upstream_gene_variant,,ENST00000475235,;HLA-DOB,upstream_gene_variant,,ENST00000488325,;"	"G"	"ENSG00000204267"	"ENST00000374899"	"Transcript"	"downstream_gene_variant"	"-/2497"	"-/1962"	"-/653"	""	""	""	"1"	"1890"	-1	"TAP2"	"HGNC"	44	"protein_coding"	"YES"	"CCDS4755.1"	"ENSP00000364034"	"Q03519"	"Q9UP03,B6VNV2"	"UPI000006E66B"	"NM_018833.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"76e07ce6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.158415841584158	"WGS"	FALSE
"17260"	"KIFC1"	3833	"mskcc.org"	"GRCh37"	"6"	33369115	33369115	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.251-1976A>G"	""	""	"ENST00000428849"	""	59	"52"	7	46	"46"	0	"KIFC1,intron_variant,,ENST00000428849,NM_002263.3;KIFC1,intron_variant,,ENST00000450504,;KIFC1,intron_variant,,ENST00000486695,;KIFC1,upstream_gene_variant,,ENST00000494554,;RPL12P1,upstream_gene_variant,,ENST00000374520,;"	"G"	"ENSG00000237649"	"ENST00000428849"	"Transcript"	"intron_variant"	"-/2706"	"-/2022"	"-/673"	""	""	""	"1"	NA	1	"KIFC1"	"HGNC"	6389	"protein_coding"	"YES"	"CCDS34430.1"	"ENSP00000393963"	"Q9BW19"	""	"UPI000012DDB8"	"NM_002263.3"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76e09c58-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.11864406779661	"WGS"	FALSE
"17261"	"ZNF76"	7629	"mskcc.org"	"GRCh37"	"6"	35249357	35249357	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.73+356A>T"	""	""	"ENST00000373953"	""	61	"49"	12	51	"51"	0	"ZNF76,intron_variant,,ENST00000373953,NM_003427.3;ZNF76,intron_variant,,ENST00000440666,;ZNF76,intron_variant,,ENST00000339411,;ZNF76,intron_variant,,ENST00000469195,;ZNF76,downstream_gene_variant,,ENST00000482946,;ZNF76,intron_variant,,ENST00000229405,;ZNF76,intron_variant,,ENST00000486891,;ZNF76,intron_variant,,ENST00000491400,;ZNF76,intron_variant,,ENST00000484932,;ZNF76,intron_variant,,ENST00000460229,;RP3-329A5.1,upstream_gene_variant,,ENST00000402490,;"	"T"	"ENSG00000065029"	"ENST00000373953"	"Transcript"	"intron_variant"	"-/2716"	"-/1713"	"-/570"	""	""	""	"1"	NA	1	"ZNF76"	"HGNC"	13149	"protein_coding"	"YES"	"CCDS4801.1"	"ENSP00000363064"	"P36508"	"E7EX64"	"UPI000013C41C"	"NM_003427.3"	""	""	""	"2/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76e12da8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19672131147541	"WGS"	FALSE
"17262"	"SRPK1"	6732	"mskcc.org"	"GRCh37"	"6"	35811739	35811739	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1621-1358G>C"	""	""	"ENST00000373825"	""	29	"25"	4	23	"23"	0	"SRPK1,intron_variant,,ENST00000373825,;SRPK1,intron_variant,,ENST00000373822,;SRPK1,intron_variant,,ENST00000423325,NM_003137.4;SRPK1,intron_variant,,ENST00000361690,;SRPK1,intron_variant,,ENST00000346162,;"	"G"	"ENSG00000096063"	"ENST00000373825"	"Transcript"	"intron_variant"	"-/4592"	"-/1968"	"-/655"	""	""	""	"1"	NA	-1	"SRPK1"	"HGNC"	11305	"protein_coding"	"YES"	"CCDS47415.1"	"ENSP00000362931"	"Q96SB4"	"D6RBF8"	"UPI000020DBDD"	""	""	""	""	"13/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"76e14ed2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WGS"	FALSE
"17263"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	37713295	37713295	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"47"	9	30	"30"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"76e1b566-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.160714285714286	"WGS"	FALSE
"17264"	"ENSR00001215952"	0	"mskcc.org"	"GRCh37"	"6"	37755574	37755574	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001215952"	""	63	"47"	16	47	"47"	0	""	"T"	""	"ENSR00001215952"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"76e1b99e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253968253968254	"WGS"	FALSE
"17265"	"ZFAND3"	60685	"mskcc.org"	"GRCh37"	"6"	37814848	37814848	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.71+27056T>C"	""	""	"ENST00000287218"	""	78	"57"	21	59	"58"	1	"ZFAND3,intron_variant,,ENST00000287218,NM_021943.2;ZFAND3,intron_variant,,ENST00000373391,;ZFAND3,intron_variant,,ENST00000474522,;"	"C"	"ENSG00000156639"	"ENST00000287218"	"Transcript"	"intron_variant"	"-/3366"	"-/684"	"-/227"	""	""	""	"1"	NA	1	"ZFAND3"	"HGNC"	18019	"protein_coding"	"YES"	"CCDS4836.1"	"ENSP00000287218"	"Q9H8U3"	""	"UPI000006E3A4"	"NM_021943.2"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"76e1bb88-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269230769230769	"WGS"	FALSE
"17266"	"ENSR00001216250"	0	"mskcc.org"	"GRCh37"	"6"	39248349	39248349	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001216250"	""	76	"63"	13	65	"65"	0	""	"A"	""	"ENSR00001216250"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"76e1fdc8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171052631578947	"WGS"	FALSE
"17267"	"TDRG1"	732253	"mskcc.org"	"GRCh37"	"6"	40347277	40347277	"+"	"RNA"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.818C>T"	""	""	"ENST00000373170"	"2/2"	96	"72"	24	71	"71"	0	"TDRG1,non_coding_transcript_exon_variant,,ENST00000373170,;TDRG1,non_coding_transcript_exon_variant,,ENST00000448433,;TDRG1,non_coding_transcript_exon_variant,,ENST00000451810,;TDRG1,non_coding_transcript_exon_variant,,ENST00000448559,;"	"T"	"ENSG00000204091"	"ENST00000373170"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"818/1165"	""	""	""	""	""	"1"	NA	1	"TDRG1"	"HGNC"	43642	"antisense"	"YES"	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"76e23496-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"17268"	"RPL7L1"	285855	"mskcc.org"	"GRCh37"	"6"	42842464	42842464	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000493763"	""	58	"52"	6	46	"46"	0	"RPL7L1,upstream_gene_variant,,ENST00000493763,NM_198486.2;RPL7L1,upstream_gene_variant,,ENST00000304734,;RPL7L1,upstream_gene_variant,,ENST00000397415,;RPL7L1,upstream_gene_variant,,ENST00000483998,;"	"G"	"ENSG00000146223"	"ENST00000493763"	"Transcript"	"upstream_gene_variant"	"-/4476"	"-/741"	"-/246"	""	""	""	"1"	"4909"	1	"RPL7L1"	"HGNC"	21370	"protein_coding"	"YES"	"CCDS4873.1"	"ENSP00000418221"	"Q6DKI1"	"B7Z4G0,A8K5J5"	"UPI00001D81E1"	"NM_198486.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"76e2b880-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"17269"	"XPO5"	57510	"mskcc.org"	"GRCh37"	"6"	43495953	43495953	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2776-10G>C"	""	""	"ENST00000265351"	""	74	"63"	11	48	"48"	0	"XPO5,intron_variant,,ENST00000265351,NM_020750.2;POLR1C,intron_variant,,ENST00000304004,;XPO5,intron_variant,,ENST00000455285,;XPO5,intron_variant,,ENST00000398835,;XPO5,intron_variant,,ENST00000450462,;XPO5,upstream_gene_variant,,ENST00000455854,;XPO5,upstream_gene_variant,,ENST00000488195,;XPO5,upstream_gene_variant,,ENST00000486936,;"	"G"	"ENSG00000124571"	"ENST00000265351"	"Transcript"	"intron_variant"	"-/5360"	"-/3615"	"-/1204"	""	""	""	"1"	NA	-1	"XPO5"	"HGNC"	17675	"protein_coding"	"YES"	"CCDS47430.1"	"ENSP00000265351"	"Q9HAV4"	"E2QRM3"	"UPI000006CC97"	"NM_020750.2"	""	""	""	"24/31"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"76e2dc3e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148648648648649	"WGS"	FALSE
"17270"	"MRPL14"	64928	"mskcc.org"	"GRCh37"	"6"	44087714	44087714	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-18-3348G>C"	""	""	"ENST00000372014"	""	75	"58"	17	57	"57"	0	"MRPL14,intron_variant,,ENST00000372014,NM_032111.2;"	"G"	"ENSG00000180992"	"ENST00000372014"	"Transcript"	"intron_variant"	"-/956"	"-/438"	"-/145"	""	""	""	"1"	NA	-1	"MRPL14"	"HGNC"	14279	"protein_coding"	"YES"	"CCDS34460.1"	"ENSP00000361084"	"Q6P1L8"	""	"UPI00000467E3"	"NM_032111.2"	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76e309de-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226666666666667	"WGS"	FALSE
"17271"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	44519234	44519234	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"89"	24	55	"55"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"76e32f22-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212389380530973	"WGS"	FALSE
"17272"	"ENSR00001495536"	0	"mskcc.org"	"GRCh37"	"6"	44664918	44664918	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001495536"	""	74	"62"	12	61	"61"	0	""	"A"	""	"ENSR00001495536"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"76e33526-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162162162162162	"WGS"	FALSE
"17273"	"ENPP5"	59084	"mskcc.org"	"GRCh37"	"6"	46134809	46134809	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.829+362A>C"	""	""	"ENST00000371383"	""	100	"72"	28	82	"82"	0	"ENPP5,intron_variant,,ENST00000371383,;ENPP5,intron_variant,,ENST00000230565,NM_021572.4;ENPP5,intron_variant,,ENST00000492313,;"	"G"	"ENSG00000112796"	"ENST00000371383"	"Transcript"	"intron_variant"	"-/3834"	"-/1434"	"-/477"	""	""	""	"1"	NA	-1	"ENPP5"	"HGNC"	13717	"protein_coding"	"YES"	"CCDS4915.1"	"ENSP00000360436"	"Q9UJA9"	""	"UPI0000072511"	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"76e38120-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"17274"	"RP11-550C4.6"	0	"mskcc.org"	"GRCh37"	"6"	47699052	47699052	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.79-1371C>T"	""	""	"ENST00000446733"	""	127	"97"	30	69	"69"	0	"RP11-550C4.6,intron_variant,,ENST00000446733,;"	"A"	"ENSG00000226594"	"ENST00000446733"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/197"	""	""	""	""	""	"1"	NA	-1	"RP11-550C4.6"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"76e3cee6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236220472440945	"WGS"	FALSE
"17275"	"RP11-550C4.4"	0	"mskcc.org"	"GRCh37"	"6"	47719658	47719658	"+"	"3'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000403255"	""	119	"83"	36	52	"52"	0	"RP11-550C4.4,downstream_gene_variant,,ENST00000403255,;"	"A"	"ENSG00000216616"	"ENST00000403255"	"Transcript"	"downstream_gene_variant"	"-/413"	""	""	""	""	""	"1"	"906"	-1	"RP11-550C4.4"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"76e3d18e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302521008403361	"WGS"	FALSE
"17276"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	48368396	48368396	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"98"	14	61	"61"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"76e3f2b8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"17277"	"ENSR00001218068"	0	"mskcc.org"	"GRCh37"	"6"	48765720	48765720	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001218068"	""	116	"99"	17	74	"74"	0	""	"T"	""	"ENSR00001218068"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"TF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76e41090-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146551724137931	"WGS"	FALSE
"17278"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	49151879	49151879	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"84"	22	74	"74"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"76e41ee6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207547169811321	"WGS"	FALSE
"17279"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	49230281	49230281	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"92"	17	62	"62"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76e4222e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.155963302752294	"WGS"	FALSE
"17280"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	49639821	49639821	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"87"	22	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"76e4303e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.201834862385321	"WGS"	FALSE
"17281"	"PGK2"	5232	"mskcc.org"	"GRCh37"	"6"	49758183	49758183	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000304801"	""	95	"80"	15	66	"66"	0	"PGK2,upstream_gene_variant,,ENST00000304801,NM_138733.4;"	"T"	"ENSG00000170950"	"ENST00000304801"	"Transcript"	"upstream_gene_variant"	"-/1688"	"-/1254"	"-/417"	""	""	""	"1"	"3130"	-1	"PGK2"	"HGNC"	8898	"protein_coding"	"YES"	"CCDS4930.1"	"ENSP00000305995"	"P07205"	""	"UPI0000001C72"	"NM_138733.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"76e439d0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"17282"	"GSTA7P"	0	"mskcc.org"	"GRCh37"	"6"	52604408	52604408	"+"	"RNA"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.428A>T"	""	""	"ENST00000438425"	"4/4"	117	"93"	24	74	"74"	0	"GSTA7P,non_coding_transcript_exon_variant,,ENST00000438425,;"	"A"	"ENSG00000237674"	"ENST00000438425"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"428/448"	""	""	""	""	""	"1"	NA	-1	"GSTA7P"	"HGNC"	4631	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"76e4c45e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205128205128205	"WGS"	FALSE
"17283"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	53584770	53584770	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"78"	17	65	"65"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76e4fdac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178947368421053	"WGS"	FALSE
"17284"	"HCRTR2"	3062	"mskcc.org"	"GRCh37"	"6"	55086546	55086546	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.224-26891G>A"	""	""	"ENST00000370862"	""	89	"68"	21	67	"67"	0	"HCRTR2,intron_variant,,ENST00000370862,NM_001526.3;"	"A"	"ENSG00000137252"	"ENST00000370862"	"Transcript"	"intron_variant"	"-/1837"	"-/1335"	"-/444"	""	""	""	"1"	NA	1	"HCRTR2"	"HGNC"	4849	"protein_coding"	"YES"	"CCDS4956.1"	"ENSP00000359899"	"O43614"	"S4X0W3,A6N9G8"	"UPI000013D07A"	"NM_001526.3"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"76e53d08-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235955056179775	"WGS"	FALSE
"17285"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	56905888	56905888	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"84"	10	48	"48"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"76e5a626-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106382978723404	"WGS"	FALSE
"17286"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	57812063	57812063	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"77"	23	59	"59"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"76e66d54-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23	"WGS"	FALSE
"17287"	"XXbac-BPG55C20.7"	0	"mskcc.org"	"GRCh37"	"6"	58302064	58302064	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000420759"	""	117	"95"	22	68	"68"	0	"XXbac-BPG55C20.7,downstream_gene_variant,,ENST00000420759,;"	"G"	"ENSG00000225096"	"ENST00000420759"	"Transcript"	"downstream_gene_variant"	"-/301"	""	""	""	""	""	"1"	"3568"	1	"XXbac-BPG55C20.7"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"76e69c8e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188034188034188	"WGS"	FALSE
"17288"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	62099471	62099471	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"67"	15	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76e6bfde-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182926829268293	"WGS"	FALSE
"17289"	"KHDRBS2"	202559	"mskcc.org"	"GRCh37"	"6"	62473064	62473064	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.811-30395G>T"	""	""	"ENST00000281156"	""	82	"71"	11	66	"66"	0	"KHDRBS2,intron_variant,,ENST00000281156,NM_152688.2;"	"A"	"ENSG00000112232"	"ENST00000281156"	"Transcript"	"intron_variant"	"-/2332"	"-/1050"	"-/349"	""	""	""	"1"	NA	-1	"KHDRBS2"	"HGNC"	18114	"protein_coding"	"YES"	"CCDS4963.1"	"ENSP00000281156"	"Q5VWX1"	""	"UPI000004D256"	"NM_152688.2"	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"76e6ccae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134146341463415	"WGS"	FALSE
"17290"	"KHDRBS2"	202559	"mskcc.org"	"GRCh37"	"6"	62945120	62945120	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.91+50643A>G"	""	""	"ENST00000281156"	""	98	"71"	27	78	"78"	0	"KHDRBS2,intron_variant,,ENST00000281156,NM_152688.2;"	"C"	"ENSG00000112232"	"ENST00000281156"	"Transcript"	"intron_variant"	"-/2332"	"-/1050"	"-/349"	""	""	""	"1"	NA	-1	"KHDRBS2"	"HGNC"	18114	"protein_coding"	"YES"	"CCDS4963.1"	"ENSP00000281156"	"Q5VWX1"	""	"UPI000004D256"	"NM_152688.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"76e6e7de-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275510204081633	"WGS"	FALSE
"17291"	"KHDRBS2"	202559	"mskcc.org"	"GRCh37"	"6"	62968891	62968891	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.91+26872C>A"	""	""	"ENST00000281156"	""	118	"90"	28	77	"76"	1	"KHDRBS2,intron_variant,,ENST00000281156,NM_152688.2;"	"T"	"ENSG00000112232"	"ENST00000281156"	"Transcript"	"intron_variant"	"-/2332"	"-/1050"	"-/349"	""	""	""	"1"	NA	-1	"KHDRBS2"	"HGNC"	18114	"protein_coding"	"YES"	"CCDS4963.1"	"ENSP00000281156"	"Q5VWX1"	""	"UPI000004D256"	"NM_152688.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"76e6e93c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.23728813559322	"WGS"	FALSE
"17292"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	63230982	63230982	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"82"	27	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"76e6f486-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.247706422018349	"WGS"	FALSE
"17293"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	63300454	63300454	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs73500821"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"79"	12	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs73500821"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0040"	"A:0.0129"	"A:0.0043"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76e6f7e2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131868131868132	"WGS"	FALSE
"17294"	"EYS"	346007	"mskcc.org"	"GRCh37"	"6"	64635049	64635049	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7055+59227G>A"	""	""	"ENST00000503581"	""	124	"112"	12	66	"66"	0	"EYS,intron_variant,,ENST00000503581,NM_001142800.1;EYS,intron_variant,,ENST00000370621,;EYS,intron_variant,,ENST00000370616,;EYS,intron_variant,,ENST00000398580,;"	"T"	"ENSG00000188107"	"ENST00000503581"	"Transcript"	"intron_variant"	"-/10589"	"-/9435"	"-/3144"	""	""	""	"1"	NA	-1	"EYS"	"HGNC"	21555	"protein_coding"	"YES"	"CCDS47445.1"	"ENSP00000424243"	"Q5T1H1"	""	"UPI000188F466"	"NM_001142800.1"	""	""	""	"35/42"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCT"	"76e73b26-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"17295"	"EYS"	346007	"mskcc.org"	"GRCh37"	"6"	64704804	64704804	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6834+4164G>A"	""	""	"ENST00000503581"	""	118	"91"	27	77	"77"	0	"EYS,intron_variant,,ENST00000503581,NM_001142800.1;EYS,intron_variant,,ENST00000370621,;EYS,intron_variant,,ENST00000370616,;EYS,intron_variant,,ENST00000398580,;"	"T"	"ENSG00000188107"	"ENST00000503581"	"Transcript"	"intron_variant"	"-/10589"	"-/9435"	"-/3144"	""	""	""	"1"	NA	-1	"EYS"	"HGNC"	21555	"protein_coding"	"YES"	"CCDS47445.1"	"ENSP00000424243"	"Q5T1H1"	""	"UPI000188F466"	"NM_001142800.1"	""	""	""	"34/42"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"76e73d2e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228813559322034	"WGS"	FALSE
"17296"	"EYS"	346007	"mskcc.org"	"GRCh37"	"6"	65045628	65045628	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.6079-28653C>T"	""	""	"ENST00000503581"	""	96	"63"	33	71	"71"	0	"EYS,intron_variant,,ENST00000503581,NM_001142800.1;EYS,intron_variant,,ENST00000370621,;EYS,intron_variant,,ENST00000370616,;"	"A"	"ENSG00000188107"	"ENST00000503581"	"Transcript"	"intron_variant"	"-/10589"	"-/9435"	"-/3144"	""	""	""	"1"	NA	-1	"EYS"	"HGNC"	21555	"protein_coding"	"YES"	"CCDS47445.1"	"ENSP00000424243"	"Q5T1H1"	""	"UPI000188F466"	"NM_001142800.1"	""	""	""	"29/42"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"76e74a6c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.34375	"WGS"	FALSE
"17297"	"EYS"	346007	"mskcc.org"	"GRCh37"	"6"	65715787	65715787	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2138-8191G>A"	""	""	"ENST00000503581"	""	85	"56"	29	44	"44"	0	"EYS,intron_variant,,ENST00000503581,NM_001142800.1;EYS,intron_variant,,ENST00000370621,;EYS,intron_variant,,ENST00000370616,;AL109922.2,upstream_gene_variant,,ENST00000539441,;"	"T"	"ENSG00000188107"	"ENST00000503581"	"Transcript"	"intron_variant"	"-/10589"	"-/9435"	"-/3144"	""	""	""	"1"	NA	-1	"EYS"	"HGNC"	21555	"protein_coding"	"YES"	"CCDS47445.1"	"ENSP00000424243"	"Q5T1H1"	""	"UPI000188F466"	"NM_001142800.1"	""	""	""	"13/42"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCC"	"76e766c8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341176470588235	"WGS"	FALSE
"17298"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	66456141	66456141	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"84"	10	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"76e79152-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106382978723404	"WGS"	FALSE
"17299"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	67670859	67670859	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"93"	6	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"76e7c9b0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0606060606060606	"WGS"	FALSE
"17300"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	68680315	68680315	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	134	"105"	29	74	"74"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"76e822e8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216417910447761	"WGS"	FALSE
"17301"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	68811244	68811244	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"87"	9	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"76e82b6c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"17302"	"COL19A1"	1310	"mskcc.org"	"GRCh37"	"6"	70920002	70920002	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000322773"	""	118	"95"	23	70	"70"	0	"COL19A1,downstream_gene_variant,,ENST00000322773,NM_001858.4;COL19A1,downstream_gene_variant,,ENST00000393344,;COL9A1,downstream_gene_variant,,ENST00000357250,NM_001851.4;"	"T"	"ENSG00000082293"	"ENST00000322773"	"Transcript"	"downstream_gene_variant"	"-/6232"	"-/3429"	"-/1142"	""	""	""	"1"	"323"	1	"COL19A1"	"HGNC"	2196	"protein_coding"	"YES"	"CCDS4970.1"	"ENSP00000316030"	"Q14993"	""	"UPI000004F1E3"	"NM_001858.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"76e89908-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194915254237288	"WGS"	FALSE
"17303"	"RP11-554D15.1"	101928516	"mskcc.org"	"GRCh37"	"6"	75388630	75388630	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.278+4766C>T"	""	""	"ENST00000435946"	""	103	"84"	19	62	"62"	0	"RP11-554D15.1,intron_variant,,ENST00000435946,;RP11-554D15.3,intron_variant,,ENST00000432484,;"	"T"	"ENSG00000223786"	"ENST00000435946"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/669"	""	""	""	""	""	"1"	NA	1	"RP11-554D15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"76e97f26-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184466019417476	"WGS"	FALSE
"17304"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	76250039	76250039	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"58"	8	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"76e9a6cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"17305"	"IMPG1"	3617	"mskcc.org"	"GRCh37"	"6"	76724543	76724543	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.808-3602C>T"	""	""	"ENST00000369950"	""	89	"68"	21	64	"64"	0	"IMPG1,intron_variant,,ENST00000369963,;IMPG1,intron_variant,,ENST00000369950,NM_001563.2,NM_001282368.1;"	"A"	"ENSG00000112706"	"ENST00000369950"	"Transcript"	"intron_variant"	"-/3558"	"-/2394"	"-/797"	""	""	""	"1"	NA	-1	"IMPG1"	"HGNC"	6055	"protein_coding"	"YES"	"CCDS4985.1"	"ENSP00000358966"	"Q17R60"	"H0UI08"	"UPI0000073F12"	"NM_001563.2,NM_001282368.1"	""	""	""	"7/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"76e9c2f6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235955056179775	"WGS"	FALSE
"17306"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	77079415	77079415	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	72	"61"	11	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"76e9d2dc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152777777777778	"WGS"	FALSE
"17307"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	77900173	77900173	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"74"	24	82	"82"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76e9ead8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244897959183673	"WGS"	FALSE
"17308"	"TTK"	7272	"mskcc.org"	"GRCh37"	"6"	80753054	80753054	"+"	"3'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000369798"	""	117	"84"	33	56	"56"	0	"TTK,downstream_gene_variant,,ENST00000509894,;TTK,downstream_gene_variant,,ENST00000230510,;TTK,downstream_gene_variant,,ENST00000369798,NM_003318.4,NM_001166691.1;TTK,downstream_gene_variant,,ENST00000504590,;"	"G"	"ENSG00000112742"	"ENST00000369798"	"Transcript"	"downstream_gene_variant"	"-/3010"	"-/2574"	"-/857"	""	""	""	"1"	"810"	1	"TTK"	"HGNC"	12401	"protein_coding"	"YES"	"CCDS4993.1"	"ENSP00000358813"	"P33981"	"D6RIC6,D6RF82,D6REX1"	"UPI0000073C7B"	"NM_003318.4,NM_001166691.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"76ea5630-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282051282051282	"WGS"	FALSE
"17309"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	81635349	81635349	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"97"	6	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"76ead006-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.058252427184466	"WGS"	FALSE
"17310"	"RP3-492P14.2"	0	"mskcc.org"	"GRCh37"	"6"	82976404	82976404	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000401636"	""	69	"62"	7	42	"42"	0	"RP3-492P14.2,upstream_gene_variant,,ENST00000401636,;"	"T"	"ENSG00000220537"	"ENST00000401636"	"Transcript"	"upstream_gene_variant"	"-/979"	""	""	""	""	""	"1"	"1713"	-1	"RP3-492P14.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"76eb112e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.101449275362319	"WGS"	FALSE
"17311"	"ENSR00001784128"	0	"mskcc.org"	"GRCh37"	"6"	85060425	85060425	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001784128"	""	109	"90"	19	68	"68"	0	""	"A"	""	"ENSR00001784128"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"76eb7754-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174311926605505	"WGS"	FALSE
"17312"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	85325711	85325711	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"73"	22	70	"70"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"76eb8492-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231578947368421	"WGS"	FALSE
"17313"	"RP3-435K13.1"	0	"mskcc.org"	"GRCh37"	"6"	85677946	85677946	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000401925"	""	82	"56"	26	59	"59"	0	"RP3-435K13.1,upstream_gene_variant,,ENST00000401925,;"	"T"	"ENSG00000216523"	"ENST00000401925"	"Transcript"	"upstream_gene_variant"	"-/229"	""	""	""	""	""	"1"	"1603"	-1	"RP3-435K13.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"76eb97d4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.317073170731707	"WGS"	FALSE
"17314"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	86497917	86497917	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"63"	11	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"76ebc268-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.148648648648649	"WGS"	FALSE
"17315"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	87378112	87378112	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	92	"71"	21	36	"36"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"76ebe0a4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228260869565217	"WGS"	FALSE
"17316"	"ACTBP8"	0	"mskcc.org"	"GRCh37"	"6"	88985532	88985532	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000403258"	""	88	"77"	11	44	"44"	0	"ACTBP8,downstream_gene_variant,,ENST00000403258,;"	"T"	"ENSG00000220267"	"ENST00000403258"	"Transcript"	"downstream_gene_variant"	"-/1108"	""	""	""	""	""	"1"	"69"	-1	"ACTBP8"	"HGNC"	141	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"76ec3b8a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.125	"WGS"	FALSE
"17317"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	92717343	92717343	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"89"	23	87	"87"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"76ed0600-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205357142857143	"WGS"	FALSE
"17318"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	93283925	93283925	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	115	"90"	25	82	"82"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76ed1bc2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"17319"	"U3"	0	"mskcc.org"	"GRCh37"	"6"	93500572	93500572	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408528"	""	133	"113"	20	85	"85"	0	"U3,downstream_gene_variant,,ENST00000408528,;"	"C"	"ENSG00000221455"	"ENST00000408528"	"Transcript"	"downstream_gene_variant"	"-/212"	""	""	""	""	""	"1"	"190"	1	"U3"	"RFAM"	NA	"snoRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"76ed23f6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.150375939849624	"WGS"	FALSE
"17320"	"EPHA7"	2045	"mskcc.org"	"GRCh37"	"6"	94034281	94034281	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1324+32154C>A"	""	""	"ENST00000369303"	""	136	"114"	22	70	"70"	0	"EPHA7,intron_variant,,ENST00000369303,NM_004440.3,NM_001288629.1;"	"T"	"ENSG00000135333"	"ENST00000369303"	"Transcript"	"intron_variant"	"-/6588"	"-/2997"	"-/998"	""	""	""	"1"	NA	-1	"EPHA7"	"HGNC"	3390	"protein_coding"	"YES"	"CCDS5031.1"	"ENSP00000358309"	"Q15375"	""	"UPI0000044771"	"NM_004440.3,NM_001288629.1"	""	""	""	"5/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"76ed3c2e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161764705882353	"WGS"	FALSE
"17321"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	95181644	95181644	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"65"	19	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"76ed8030-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226190476190476	"WGS"	FALSE
"17322"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	95278388	95278388	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	122	"115"	7	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"76ed88e6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0573770491803279	"WGS"	FALSE
"17323"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	95278392	95278392	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	123	"117"	6	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"76ed899a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0487804878048781	"WGS"	FALSE
"17324"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	95470306	95470306	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"67"	23	71	"71"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"76ed9412-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255555555555556	"WGS"	FALSE
"17325"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	95650309	95650309	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"71"	29	57	"57"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"76ed9c32-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29	"WGS"	FALSE
"17326"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	96285109	96285109	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	130	"97"	33	77	"75"	2	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"76edb6cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253846153846154	"WGS"	FALSE
"17327"	"RP11-436D23.1"	0	"mskcc.org"	"GRCh37"	"6"	98535852	98535852	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.268-11210A>G"	""	""	"ENST00000607823"	""	78	"58"	20	51	"51"	0	"RP11-436D23.1,intron_variant,,ENST00000607823,;RP11-436D23.1,intron_variant,,ENST00000607032,;RP11-436D23.1,intron_variant,,ENST00000606913,;"	"G"	"ENSG00000271860"	"ENST00000607823"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1962"	""	""	""	""	""	"1"	NA	1	"RP11-436D23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"76ee1234-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256410256410256	"WGS"	FALSE
"17328"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	101466365	101466365	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	133	"126"	7	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"76eeb9aa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0526315789473684	"WGS"	FALSE
"17329"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	103521646	103521646	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	126	"91"	35	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"76ef2d5e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.277777777777778	"WGS"	FALSE
"17330"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	104138420	104138420	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	142	"117"	25	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"76ef4ece-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176056338028169	"WGS"	FALSE
"17331"	"LINC00577"	100113403	"mskcc.org"	"GRCh37"	"6"	105385053	105385053	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.187-496G>T"	""	""	"ENST00000369123"	""	80	"60"	20	61	"61"	0	"LINC00577,intron_variant,,ENST00000369123,;"	"A"	"ENSG00000203809"	"ENST00000369123"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/575"	""	""	""	""	""	"1"	NA	-1	"LINC00577"	"HGNC"	21553	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"76ef9df2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"17332"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	106396322	106396322	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"65"	5	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"76efc692-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"17333"	"OSTM1"	28962	"mskcc.org"	"GRCh37"	"6"	108430349	108430349	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-39-44846G>A"	""	""	"ENST00000440575"	""	82	"67"	15	49	"49"	0	"OSTM1,intron_variant,,ENST00000440575,;"	"T"	"ENSG00000081087"	"ENST00000440575"	"Transcript"	"intron_variant"	"-/724"	"-/518"	"-/172"	""	""	""	"1"	NA	-1	"OSTM1"	"HGNC"	21652	"protein_coding"	""	""	"ENSP00000398556"	""	"E5RFY7"	"UPI0001E8F701"	""	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GCA"	"76f02e98-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182926829268293	"WGS"	FALSE
"17334"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	113097195	113097195	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs572765601"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	126	"96"	30	55	"55"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs572765601"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"A:0.0002"	"A:0.0008"	"A:0"	NA	"A:0"	"A:0"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"76f123f2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WGS"	FALSE
"17335"	"SLC35F1"	222553	"mskcc.org"	"GRCh37"	"6"	118231507	118231507	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.173+2445G>A"	""	""	"ENST00000360388"	""	98	"76"	22	62	"62"	0	"SLC35F1,intron_variant,,ENST00000360388,NM_001029858.3;"	"A"	"ENSG00000196376"	"ENST00000360388"	"Transcript"	"intron_variant"	"-/4852"	"-/1227"	"-/408"	""	""	""	"1"	NA	1	"SLC35F1"	"HGNC"	21483	"protein_coding"	"YES"	"CCDS34524.1"	"ENSP00000353557"	"Q5T1Q4"	"B4DJ02,B3KY53"	"UPI00001609C1"	"NM_001029858.3"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"76f2420a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.224489795918367	"WGS"	FALSE
"17336"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	121034009	121034009	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"79"	33	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"76f2e25a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294642857142857	"WGS"	FALSE
"17337"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	122406131	122406131	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"92"	25	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"76f3292c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213675213675214	"WGS"	FALSE
"17338"	"NKAIN2"	154215	"mskcc.org"	"GRCh37"	"6"	124593870	124593870	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs370858035"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55-10281G>A"	""	""	"ENST00000368417"	""	103	"93"	10	52	"52"	0	"NKAIN2,intron_variant,,ENST00000368417,NM_001040214.1;NKAIN2,intron_variant,,ENST00000368416,;NKAIN2,intron_variant,,ENST00000546092,;NKAIN2,intron_variant,,ENST00000476571,;"	"A"	"ENSG00000188580"	"ENST00000368417"	"Transcript"	"intron_variant"	"-/3115"	"-/627"	"-/208"	""	""	"rs370858035"	"1"	NA	1	"NKAIN2"	"HGNC"	16443	"protein_coding"	"YES"	"CCDS34526.1"	"ENSP00000357402"	"Q5VXU1"	"B3KNZ0,B0AZU5"	"UPI0000458919"	"NM_001040214.1"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76f3904c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0970873786407767	"WGS"	FALSE
"17339"	"RPS4XP9"	0	"mskcc.org"	"GRCh37"	"6"	127000770	127000770	"+"	"5'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000405151"	""	92	"66"	26	76	"76"	0	"RPS4XP9,upstream_gene_variant,,ENST00000405151,;"	"A"	"ENSG00000217404"	"ENST00000405151"	"Transcript"	"upstream_gene_variant"	"-/780"	""	""	""	""	""	"1"	"3411"	1	"RPS4XP9"	"HGNC"	35792	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"76f400f4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282608695652174	"WGS"	FALSE
"17340"	"ENSR00001786751"	0	"mskcc.org"	"GRCh37"	"6"	129067683	129067683	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001786751"	""	108	"85"	23	60	"60"	0	""	"A"	""	"ENSR00001786751"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"76f47854-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212962962962963	"WGS"	FALSE
"17341"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	130852347	130852347	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	74	"59"	15	46	"46"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"76f4d966-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202702702702703	"WGS"	FALSE
"17342"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	131114802	131114802	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"75"	14	54	"54"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"76f4e38e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157303370786517	"WGS"	FALSE
"17343"	"EYA4"	2070	"mskcc.org"	"GRCh37"	"6"	133607688	133607688	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.33+11737C>G"	""	""	"ENST00000367895"	""	103	"96"	7	61	"61"	0	"EYA4,intron_variant,,ENST00000367895,NM_004100.4;EYA4,intron_variant,,ENST00000355167,NM_172105.3;EYA4,intron_variant,,ENST00000355286,NM_172103.3;EYA4,intron_variant,,ENST00000525849,;EYA4,intron_variant,,ENST00000531901,;EYA4,intron_variant,,ENST00000452339,;EYA4,intron_variant,,ENST00000430974,;EYA4,intron_variant,,ENST00000431403,;EYA4,intron_variant,,ENST00000531861,;"	"G"	"ENSG00000112319"	"ENST00000367895"	"Transcript"	"intron_variant"	"-/5699"	"-/1920"	"-/639"	""	""	""	"1"	NA	1	"EYA4"	"HGNC"	3522	"protein_coding"	"YES"	"CCDS5165.1"	"ENSP00000356870"	"O95677"	""	"UPI000013D649"	"NM_004100.4"	""	""	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACT"	"76f55ff8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0679611650485437	"WGS"	FALSE
"17344"	"RP3-323P13.2"	100507308	"mskcc.org"	"GRCh37"	"6"	134074062	134074062	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.623+7261G>A"	""	""	"ENST00000607033"	""	121	"100"	21	67	"67"	0	"RP3-323P13.2,intron_variant,,ENST00000607033,;RP3-323P13.2,intron_variant,,ENST00000606544,;RP3-323P13.2,intron_variant,,ENST00000606292,;RP3-323P13.2,intron_variant,,ENST00000607573,;"	"T"	"ENSG00000227954"	"ENST00000607033"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2960"	""	""	""	""	""	"1"	NA	-1	"RP3-323P13.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"4/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"76f5781c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.173553719008264	"WGS"	FALSE
"17345"	"RP11-557H15.4"	101928304	"mskcc.org"	"GRCh37"	"6"	134983536	134983536	"+"	"5'Flank"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000434593"	""	88	"64"	24	55	"55"	0	"RP11-557H15.4,upstream_gene_variant,,ENST00000434593,;"	"G"	"ENSG00000232310"	"ENST00000434593"	"Transcript"	"upstream_gene_variant"	"-/534"	""	""	""	""	""	"1"	"2562"	-1	"RP11-557H15.4"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"76f5b14c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.272727272727273	"WGS"	FALSE
"17346"	"KIAA1244"	57221	"mskcc.org"	"GRCh37"	"6"	138637076	138637076	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4346-1312A>G"	""	""	"ENST00000251691"	""	116	"94"	22	57	"57"	0	"KIAA1244,intron_variant,,ENST00000251691,NM_020340.4;"	"G"	"ENSG00000112379"	"ENST00000251691"	"Transcript"	"intron_variant"	"-/14877"	"-/6534"	"-/2177"	""	""	""	"1"	NA	1	"KIAA1244"	"HGNC"	21213	"protein_coding"	"YES"	"CCDS5189.2"	"ENSP00000251691"	"Q5TH69"	"C5NM88,B5MDV5"	"UPI000150AF4A"	"NM_020340.4"	""	""	""	"26/33"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"76f66786-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189655172413793	"WGS"	FALSE
"17347"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	141997649	141997649	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	133	"98"	35	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"76f70ba0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"17348"	"ADAT2"	134637	"mskcc.org"	"GRCh37"	"6"	143761074	143761074	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.97-1243C>A"	""	""	"ENST00000237283"	""	101	"71"	30	69	"69"	0	"ADAT2,intron_variant,,ENST00000606514,NM_001286259.1;ADAT2,intron_variant,,ENST00000237283,NM_182503.2;AL031320.1,intron_variant,,ENST00000595616,;ADAT2,downstream_gene_variant,,ENST00000367593,;TUBB8P2,downstream_gene_variant,,ENST00000402141,;"	"T"	"ENSG00000189007"	"ENST00000237283"	"Transcript"	"intron_variant"	"-/2065"	"-/576"	"-/191"	""	""	""	"1"	NA	-1	"ADAT2"	"HGNC"	21172	"protein_coding"	"YES"	"CCDS43511.1"	"ENSP00000237283"	"Q7Z6V5"	""	"UPI00001A3A7E"	"NM_182503.2"	""	""	""	"1/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"76f75466-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.297029702970297	"WGS"	FALSE
"17349"	"UTRN"	7402	"mskcc.org"	"GRCh37"	"6"	144647905	144647905	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.79+34862C>A"	""	""	"ENST00000367545"	""	76	"64"	12	45	"45"	0	"UTRN,intron_variant,,ENST00000367545,NM_007124.2;UTRN,intron_variant,,ENST00000433557,;RP1-91J24.3,intron_variant,,ENST00000431309,;"	"A"	"ENSG00000152818"	"ENST00000367545"	"Transcript"	"intron_variant"	"-/12339"	"-/10302"	"-/3433"	""	""	""	"1"	NA	1	"UTRN"	"HGNC"	12635	"protein_coding"	"YES"	"CCDS34547.1"	"ENSP00000356515"	"P46939"	"Q6LBS5,Q5SYY2,Q5JT45"	"UPI00003673F1"	"NM_007124.2"	""	""	""	"1/73"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"76f77a4a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"17350"	"GRM1"	2911	"mskcc.org"	"GRCh37"	"6"	146604346	146604346	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.951-21401T>A"	""	""	"ENST00000361719"	""	111	"105"	6	57	"57"	0	"GRM1,intron_variant,,ENST00000392299,;GRM1,intron_variant,,ENST00000361719,;GRM1,intron_variant,,ENST00000492807,NM_001278066.1,NM_001278065.1;GRM1,intron_variant,,ENST00000282753,NM_001278067.1,NM_001278064.1;GRM1,intron_variant,,ENST00000355289,;GRM1,intron_variant,,ENST00000507907,;"	"A"	"ENSG00000152822"	"ENST00000361719"	"Transcript"	"intron_variant"	"-/6854"	"-/3585"	"-/1194"	""	""	""	"1"	NA	1	"GRM1"	"HGNC"	4593	"protein_coding"	"YES"	"CCDS5209.1"	"ENSP00000354896"	"Q13255"	""	"UPI000013DCFD"	""	""	""	""	"3/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTG"	"76f7c338-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0540540540540541	"WGS"	FALSE
"17351"	"PCMT1"	5110	"mskcc.org"	"GRCh37"	"6"	150113189	150113189	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.472-1496G>A"	""	""	"ENST00000367384"	""	61	"53"	8	40	"40"	0	"PCMT1,intron_variant,,ENST00000464889,;PCMT1,intron_variant,,ENST00000367384,;PCMT1,intron_variant,,ENST00000367380,NM_001252049.1,NM_005389.2,NM_001252050.1,NM_001252051.1,NM_001252052.1;PCMT1,intron_variant,,ENST00000367378,NM_001252053.1;PCMT1,intron_variant,,ENST00000544496,;PCMT1,intron_variant,,ENST00000495487,;RP11-350J20.5,downstream_gene_variant,,ENST00000455607,;PCMT1,intron_variant,,ENST00000484601,;PCMT1,intron_variant,,ENST00000486585,;PCMT1,downstream_gene_variant,,ENST00000494411,;RP11-350J20.4,upstream_gene_variant,,ENST00000404779,;"	"A"	"ENSG00000120265"	"ENST00000367384"	"Transcript"	"intron_variant"	"-/1938"	"-/861"	"-/286"	""	""	""	"1"	NA	1	"PCMT1"	"HGNC"	8728	"protein_coding"	"YES"	"CCDS59041.1"	"ENSP00000356354"	""	"H7BY58,C9J0F2"	"UPI0001B7942B"	""	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76f86996-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131147540983607	"WGS"	FALSE
"17352"	"RP1-292B18.4"	0	"mskcc.org"	"GRCh37"	"6"	151453367	151453367	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.575+5374G>A"	""	""	"ENST00000415477"	""	39	"32"	7	35	"35"	0	"RP1-292B18.4,intron_variant,,ENST00000415477,;"	"T"	"ENSG00000223598"	"ENST00000415477"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/853"	""	""	""	""	""	"1"	NA	-1	"RP1-292B18.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"76f8d58e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.179487179487179	"WGS"	FALSE
"17353"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	154316137	154316137	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"69"	26	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"76f96ee0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.273684210526316	"WGS"	FALSE
"17354"	"NOX3"	50508	"mskcc.org"	"GRCh37"	"6"	155752974	155752974	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.799-905C>T"	""	""	"ENST00000159060"	""	102	"83"	19	74	"74"	0	"NOX3,intron_variant,,ENST00000159060,NM_015718.2;"	"A"	"ENSG00000074771"	"ENST00000159060"	"Transcript"	"intron_variant"	"-/2042"	"-/1707"	"-/568"	""	""	""	"1"	NA	-1	"NOX3"	"HGNC"	7890	"protein_coding"	"YES"	"CCDS5250.1"	"ENSP00000159060"	"Q9HBY0"	""	"UPI000006EC80"	"NM_015718.2"	""	""	""	"7/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"76f9c5fc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186274509803922	"WGS"	FALSE
"17355"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	156239245	156239245	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"99"	10	72	"72"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"76f9e23a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0917431192660551	"WGS"	FALSE
"17356"	"SNX9"	51429	"mskcc.org"	"GRCh37"	"6"	158302437	158302437	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.300+6229A>T"	""	""	"ENST00000392185"	""	92	"75"	17	55	"55"	0	"SNX9,intron_variant,,ENST00000392185,NM_016224.4;RP3-403L10.3,downstream_gene_variant,,ENST00000446768,;"	"T"	"ENSG00000130340"	"ENST00000392185"	"Transcript"	"intron_variant"	"-/4198"	"-/1788"	"-/595"	""	""	""	"1"	NA	1	"SNX9"	"HGNC"	14973	"protein_coding"	"YES"	"CCDS5253.1"	"ENSP00000376024"	"Q9Y5X1"	"B3KXH8"	"UPI0000135B47"	"NM_016224.4"	""	""	""	"4/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"76fac95c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.184782608695652	"WGS"	FALSE
"17357"	"TMEM181"	57583	"mskcc.org"	"GRCh37"	"6"	159000664	159000664	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.524-1308T>A"	""	""	"ENST00000367090"	""	55	"50"	5	35	"35"	0	"TMEM181,intron_variant,,ENST00000367090,NM_020823.1;"	"A"	"ENSG00000146433"	"ENST00000367090"	"Transcript"	"intron_variant"	"-/5390"	"-/1839"	"-/612"	""	""	""	"1"	NA	1	"TMEM181"	"HGNC"	20958	"protein_coding"	"YES"	"CCDS43520.1"	"ENSP00000356057"	"Q9P2C4"	""	"UPI00001C1E40"	"NM_020823.1"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"76fae9e6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"17358"	"TMEM181"	57583	"mskcc.org"	"GRCh37"	"6"	159000666	159000666	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs184235200"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.524-1306G>A"	""	""	"ENST00000367090"	""	58	"52"	6	39	"39"	0	"TMEM181,intron_variant,,ENST00000367090,NM_020823.1;"	"A"	"ENSG00000146433"	"ENST00000367090"	"Transcript"	"intron_variant"	"-/5390"	"-/1839"	"-/612"	""	""	"rs184235200"	"1"	NA	1	"TMEM181"	"HGNC"	20958	"protein_coding"	"YES"	"CCDS43520.1"	"ENSP00000356057"	"Q9P2C4"	""	"UPI00001C1E40"	"NM_020823.1"	""	""	""	"2/16"	""	"A:0.0036"	"A:0.0083"	"A:0.0086"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"76faea90-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"17359"	"TMEM181"	57583	"mskcc.org"	"GRCh37"	"6"	159000675	159000675	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.524-1297T>C"	""	""	"ENST00000367090"	""	55	"50"	5	40	"40"	0	"TMEM181,intron_variant,,ENST00000367090,NM_020823.1;"	"C"	"ENSG00000146433"	"ENST00000367090"	"Transcript"	"intron_variant"	"-/5390"	"-/1839"	"-/612"	""	""	""	"1"	NA	1	"TMEM181"	"HGNC"	20958	"protein_coding"	"YES"	"CCDS43520.1"	"ENSP00000356057"	"Q9P2C4"	""	"UPI00001C1E40"	"NM_020823.1"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"76faeb44-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"17360"	"TMEM181"	57583	"mskcc.org"	"GRCh37"	"6"	159000676	159000676	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.524-1296G>A"	""	""	"ENST00000367090"	""	55	"50"	5	40	"40"	0	"TMEM181,intron_variant,,ENST00000367090,NM_020823.1;"	"A"	"ENSG00000146433"	"ENST00000367090"	"Transcript"	"intron_variant"	"-/5390"	"-/1839"	"-/612"	""	""	""	"1"	NA	1	"TMEM181"	"HGNC"	20958	"protein_coding"	"YES"	"CCDS43520.1"	"ENSP00000356057"	"Q9P2C4"	""	"UPI00001C1E40"	"NM_020823.1"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"76faebee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	FALSE
"17361"	"TMEM181"	57583	"mskcc.org"	"GRCh37"	"6"	159000683	159000683	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.524-1289A>G"	""	""	"ENST00000367090"	""	60	"52"	8	39	"39"	0	"TMEM181,intron_variant,,ENST00000367090,NM_020823.1;"	"G"	"ENSG00000146433"	"ENST00000367090"	"Transcript"	"intron_variant"	"-/5390"	"-/1839"	"-/612"	""	""	""	"1"	NA	1	"TMEM181"	"HGNC"	20958	"protein_coding"	"YES"	"CCDS43520.1"	"ENSP00000356057"	"Q9P2C4"	""	"UPI00001C1E40"	"NM_020823.1"	""	""	""	"2/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"76faeca2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.133333333333333	"WGS"	FALSE
"17362"	"LPA"	4018	"mskcc.org"	"GRCh37"	"6"	161011282	161011282	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3788-538C>T"	""	""	"ENST00000447678"	""	108	"82"	26	71	"71"	0	"LPA,intron_variant,,ENST00000447678,NM_005577.2;LPA,intron_variant,,ENST00000316300,;"	"A"	"ENSG00000198670"	"ENST00000447678"	"Transcript"	"intron_variant"	"-/6490"	"-/6123"	"-/2040"	""	""	""	"1"	NA	-1	"LPA"	"HGNC"	6667	"protein_coding"	"YES"	"CCDS43523.1"	"ENSP00000395608"	"P08519"	"Q9UKJ7,Q9UIR8,Q9UIR6,Q9UIR5"	"UPI0000458AC9"	"NM_005577.2"	""	""	""	"24/39"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GGA"	"76fb67c2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240740740740741	"WGS"	FALSE
"17363"	"PARK2"	5071	"mskcc.org"	"GRCh37"	"6"	163019264	163019264	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7+129430C>T"	""	""	"ENST00000366898"	""	104	"79"	25	60	"60"	0	"PARK2,intron_variant,,ENST00000366898,NM_004562.2;PARK2,intron_variant,,ENST00000366897,NM_013987.2;PARK2,intron_variant,,ENST00000366896,NM_013988.2;PARK2,intron_variant,,ENST00000366892,;PARK2,intron_variant,,ENST00000338468,;PARK2,intron_variant,,ENST00000366894,;PARK2,intron_variant,,ENST00000479615,;"	"A"	"ENSG00000185345"	"ENST00000366898"	"Transcript"	"intron_variant"	"-/4180"	"-/1398"	"-/465"	""	""	""	"1"	NA	-1	"PARK2"	"HGNC"	8607	"protein_coding"	"YES"	"CCDS5281.1"	"ENSP00000355865"	"O60260"	"M4T2U2,Q6S8G7,Q6Q2I8,Q5XNR7"	"UPI00003673FE"	"NM_004562.2"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"76fc24aa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240384615384615	"WGS"	FALSE
"17364"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	164113814	164113814	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"102"	8	68	"68"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"76fc7b44-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0727272727272727	"WGS"	FALSE
"17365"	"PDE10A"	10846	"mskcc.org"	"GRCh37"	"6"	166029359	166029359	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.67+46076A>G"	""	""	"ENST00000539869"	""	80	"62"	18	57	"57"	0	"PDE10A,intron_variant,,ENST00000366882,;PDE10A,intron_variant,,ENST00000539869,NM_001130690.2;PDE10A,intron_variant,,ENST00000580695,;"	"C"	"ENSG00000112541"	"ENST00000539869"	"Transcript"	"intron_variant"	"-/4401"	"-/2370"	"-/789"	""	""	""	"1"	NA	-1	"PDE10A"	"HGNC"	8772	"protein_coding"	"YES"	"CCDS47513.1"	"ENSP00000438284"	"Q9Y233"	""	"UPI000006F80E"	"NM_001130690.2"	""	""	""	"1/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"76fcf470-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225	"WGS"	FALSE
"17366"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	166493083	166493083	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"73"	17	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"76fd4f2e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188888888888889	"WGS"	FALSE
"17367"	"FRMD1"	79981	"mskcc.org"	"GRCh37"	"6"	168456347	168456347	"+"	"3'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000283309"	""	85	"56"	29	72	"72"	0	"FRMD1,downstream_gene_variant,,ENST00000283309,NM_024919.3;FRMD1,downstream_gene_variant,,ENST00000440994,NM_001122841.1;FRMD1,downstream_gene_variant,,ENST00000537786,;FRMD1,downstream_gene_variant,,ENST00000432403,;FRMD1,downstream_gene_variant,,ENST00000358587,;FRMD1,downstream_gene_variant,,ENST00000468647,;FRMD1,downstream_gene_variant,,ENST00000509157,;FRMD1,downstream_gene_variant,,ENST00000336070,;"	"A"	"ENSG00000153303"	"ENST00000283309"	"Transcript"	"downstream_gene_variant"	"-/3067"	"-/1650"	"-/549"	""	""	""	"1"	"78"	-1	"FRMD1"	"HGNC"	21240	"protein_coding"	"YES"	"CCDS5306.1"	"ENSP00000283309"	"Q8N878"	"F5GXR0"	"UPI000013F36A"	"NM_024919.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"76fe79c6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.341176470588235	"WGS"	FALSE
"17368"	"FRMD1"	79981	"mskcc.org"	"GRCh37"	"6"	168456348	168456348	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000283309"	""	86	"57"	29	72	"72"	0	"FRMD1,downstream_gene_variant,,ENST00000283309,NM_024919.3;FRMD1,downstream_gene_variant,,ENST00000440994,NM_001122841.1;FRMD1,downstream_gene_variant,,ENST00000537786,;FRMD1,downstream_gene_variant,,ENST00000432403,;FRMD1,downstream_gene_variant,,ENST00000358587,;FRMD1,downstream_gene_variant,,ENST00000468647,;FRMD1,downstream_gene_variant,,ENST00000509157,;FRMD1,downstream_gene_variant,,ENST00000336070,;"	"T"	"ENSG00000153303"	"ENST00000283309"	"Transcript"	"downstream_gene_variant"	"-/3067"	"-/1650"	"-/549"	""	""	""	"1"	"77"	-1	"FRMD1"	"HGNC"	21240	"protein_coding"	"YES"	"CCDS5306.1"	"ENSP00000283309"	"Q8N878"	"F5GXR0"	"UPI000013F36A"	"NM_024919.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"76fe7a70-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.337209302325581	"WGS"	FALSE
"17369"	"FRMD1"	79981	"mskcc.org"	"GRCh37"	"6"	168478215	168478215	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.213+1347T>A"	""	""	"ENST00000283309"	""	88	"83"	5	73	"73"	0	"FRMD1,intron_variant,,ENST00000283309,NM_024919.3;FRMD1,intron_variant,,ENST00000511714,;FRMD1,upstream_gene_variant,,ENST00000440994,NM_001122841.1;FRMD1,intron_variant,,ENST00000358587,;FRMD1,intron_variant,,ENST00000468647,;FRMD1,intron_variant,,ENST00000509157,;"	"T"	"ENSG00000153303"	"ENST00000283309"	"Transcript"	"intron_variant"	"-/3067"	"-/1650"	"-/549"	""	""	""	"1"	NA	-1	"FRMD1"	"HGNC"	21240	"protein_coding"	"YES"	"CCDS5306.1"	"ENSP00000283309"	"Q8N878"	"F5GXR0"	"UPI000013F36A"	"NM_024919.3"	""	""	""	"1/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"76fe8696-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0568181818181818	"WGS"	FALSE
"17370"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	168491292	168491292	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"66"	24	75	"75"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"76fe8920-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"17371"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	168793247	168793247	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"80"	6	39	"39"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"76fed8a8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0697674418604651	"WGS"	FALSE
"17372"	"RP3-495K2.3"	0	"mskcc.org"	"GRCh37"	"6"	169364380	169364380	"+"	"RNA"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.57G>T"	""	""	"ENST00000444586"	"1/2"	99	"77"	22	71	"71"	0	"RP3-495K2.3,non_coding_transcript_exon_variant,,ENST00000444586,;"	"A"	"ENSG00000225879"	"ENST00000444586"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"57/914"	""	""	""	""	""	"1"	NA	-1	"RP3-495K2.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"76ffc48e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"17373"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	169453984	169453984	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"83"	23	72	"72"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"76ffd2a8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216981132075472	"WGS"	FALSE
"17374"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	1320661	1320661	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	7	"4"	3	8	"8"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"770302a2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WGS"	FALSE
"17375"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	1412781	1412781	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"rs373328603"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"51"	15	42	"42"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs373328603"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"77030d2e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"17376"	"TTYH3"	80727	"mskcc.org"	"GRCh37"	"7"	2686267	2686267	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs748594192"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.124-220C>T"	""	""	"ENST00000258796"	""	70	"51"	19	68	"68"	0	"TTYH3,intron_variant,,ENST00000258796,NM_025250.2;TTYH3,intron_variant,,ENST00000407643,;TTYH3,intron_variant,,ENST00000400376,;TTYH3,upstream_gene_variant,,ENST00000403167,;TTYH3,upstream_gene_variant,,ENST00000477439,;"	"T"	"ENSG00000136295"	"ENST00000258796"	"Transcript"	"intron_variant"	"-/4840"	"-/1572"	"-/523"	""	""	"rs748594192"	"1"	NA	1	"TTYH3"	"HGNC"	22222	"protein_coding"	"YES"	"CCDS34588.1"	"ENSP00000258796"	"Q9C0H2"	""	"UPI000020E9F9"	"NM_025250.2"	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7703c020-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271428571428571	"WGS"	FALSE
"17377"	"AP5Z1"	9907	"mskcc.org"	"GRCh37"	"7"	4825002	4825002	"+"	"Intron"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.932-44C>G"	""	""	"ENST00000348624"	""	67	"50"	17	72	"72"	0	"AP5Z1,intron_variant,,ENST00000348624,NM_014855.2;AP5Z1,intron_variant,,ENST00000401897,;MIR4656,downstream_gene_variant,,ENST00000579503,;AP5Z1,upstream_gene_variant,,ENST00000490487,;AP5Z1,intron_variant,,ENST00000496303,;AP5Z1,intron_variant,,ENST00000477680,;AP5Z1,upstream_gene_variant,,ENST00000469614,;AP5Z1,downstream_gene_variant,,ENST00000491375,;AP5Z1,upstream_gene_variant,,ENST00000477454,;"	"G"	"ENSG00000242802"	"ENST00000348624"	"Transcript"	"intron_variant"	"-/2901"	"-/2424"	"-/807"	""	""	""	"1"	NA	1	"AP5Z1"	"HGNC"	22197	"protein_coding"	"YES"	"CCDS47528.1"	"ENSP00000297562"	"O43299"	"A4D1Z4"	"UPI00003E5903"	"NM_014855.2"	""	""	""	"7/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"770463cc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253731343283582	"WGS"	FALSE
"17378"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	5829636	5829636	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	37	"31"	6	38	"38"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"7704a134-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.162162162162162	"WGS"	FALSE
"17379"	"AC079804.1"	0	"mskcc.org"	"GRCh37"	"7"	7031776	7031776	"+"	"5'Flank"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000408084"	""	83	"64"	19	45	"45"	0	"AC079804.1,upstream_gene_variant,,ENST00000408084,;"	"G"	"ENSG00000221011"	"ENST00000408084"	"Transcript"	"upstream_gene_variant"	"-/104"	""	""	""	""	""	"1"	"3070"	1	"AC079804.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7704f3e6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228915662650602	"WGS"	FALSE
"17380"	"AC005532.5"	101927354	"mskcc.org"	"GRCh37"	"7"	7316007	7316007	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.536-1209A>T"	""	""	"ENST00000436578"	""	99	"79"	20	52	"52"	0	"AC005532.5,intron_variant,,ENST00000447039,;AC005532.5,intron_variant,,ENST00000430266,;AC005532.5,intron_variant,,ENST00000436578,;"	"T"	"ENSG00000230825"	"ENST00000436578"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/675"	""	""	""	""	""	"1"	NA	1	"AC005532.5"	"Clone_based_vega_gene"	NA	"retained_intron"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"77051204-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.202020202020202	"WGS"	FALSE
"17381"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	7347377	7347377	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	78	"63"	15	46	"46"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"770513f8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.192307692307692	"WGS"	FALSE
"17382"	"RPA3-AS1"	0	"mskcc.org"	"GRCh37"	"7"	7980509	7980509	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.492-63029G>T"	""	""	"ENST00000469183"	""	97	"75"	22	63	"63"	0	"RPA3-AS1,intron_variant,,ENST00000469183,;RPA3-AS1,intron_variant,,ENST00000482067,;RPA3-AS1,intron_variant,,ENST00000468567,;"	"T"	"ENSG00000219545"	"ENST00000469183"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/637"	""	""	""	""	""	"1"	NA	1	"RPA3-AS1"	"HGNC"	48955	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"77053b9e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.22680412371134	"WGS"	FALSE
"17383"	"NXPH1"	30010	"mskcc.org"	"GRCh37"	"7"	8679472	8679472	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55-111166C>T"	""	""	"ENST00000405863"	""	95	"79"	16	75	"75"	0	"NXPH1,intron_variant,,ENST00000405863,NM_152745.2;NXPH1,intron_variant,,ENST00000602349,;NXPH1,intron_variant,,ENST00000429542,;NXPH1,intron_variant,,ENST00000438764,;"	"T"	"ENSG00000122584"	"ENST00000405863"	"Transcript"	"intron_variant"	"-/2921"	"-/816"	"-/271"	""	""	""	"1"	NA	1	"NXPH1"	"HGNC"	20693	"protein_coding"	"YES"	"CCDS47540.1"	"ENSP00000384551"	"P58417"	"Q3LID8,C9JPD0,C9JE46,B4DJV1"	"UPI000000DC02"	"NM_152745.2"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"77056088-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168421052631579	"WGS"	FALSE
"17384"	"AC060834.3"	0	"mskcc.org"	"GRCh37"	"7"	9772300	9772300	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000447999"	""	110	"105"	5	81	"81"	0	"AC060834.3,upstream_gene_variant,,ENST00000447999,;AC060834.2,downstream_gene_variant,,ENST00000443027,;AC060834.2,downstream_gene_variant,,ENST00000361014,;"	"A"	"ENSG00000234710"	"ENST00000447999"	"Transcript"	"upstream_gene_variant"	"-/618"	""	""	""	""	""	"1"	"4651"	1	"AC060834.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"770592b0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0454545454545455	"WGS"	FALSE
"17385"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	11004127	11004127	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	62	"50"	12	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7705d9a0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193548387096774	"WGS"	FALSE
"17386"	"THSD7A"	221981	"mskcc.org"	"GRCh37"	"7"	11685235	11685235	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.191-8647A>G"	""	""	"ENST00000423059"	""	138	"103"	35	73	"72"	1	"THSD7A,intron_variant,,ENST00000423059,NM_015204.2;THSD7A,intron_variant,,ENST00000480061,;"	"C"	"ENSG00000005108"	"ENST00000423059"	"Transcript"	"intron_variant"	"-/10663"	"-/4974"	"-/1657"	""	""	""	"1"	NA	-1	"THSD7A"	"HGNC"	22207	"protein_coding"	"YES"	"CCDS47543.1"	"ENSP00000406482"	"Q9UPZ6"	""	"UPI00006C0B74"	"NM_015204.2"	""	""	""	"1/27"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"7705f4a8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.253623188405797	"WGS"	FALSE
"17387"	"AC011288.2"	0	"mskcc.org"	"GRCh37"	"7"	13638916	13638916	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"rs764372629"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.352-37355G>T"	""	""	"ENST00000411542"	""	128	"98"	30	72	"72"	0	"AC011288.2,intron_variant,,ENST00000411542,;"	"T"	"ENSG00000229618"	"ENST00000411542"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/526"	""	""	""	""	"rs764372629"	"1"	NA	1	"AC011288.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7706624e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234375	"WGS"	FALSE
"17388"	"AGMO"	392636	"mskcc.org"	"GRCh37"	"7"	15482431	15482431	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.410-11698G>A"	""	""	"ENST00000342526"	""	102	"78"	24	61	"61"	0	"AGMO,intron_variant,,ENST00000342526,NM_001004320.1;"	"T"	"ENSG00000187546"	"ENST00000342526"	"Transcript"	"intron_variant"	"-/2475"	"-/1338"	"-/445"	""	""	""	"1"	NA	-1	"AGMO"	"HGNC"	33784	"protein_coding"	"YES"	"CCDS34604.1"	"ENSP00000341662"	"Q6ZNB7"	""	"UPI0000050343"	"NM_001004320.1"	""	""	""	"3/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7706f574-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"17389"	"ITGB8"	3696	"mskcc.org"	"GRCh37"	"7"	20445302	20445302	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1914-383G>C"	""	""	"ENST00000222573"	""	108	"93"	15	58	"58"	0	"ITGB8,intron_variant,,ENST00000222573,NM_002214.2;ITGB8,intron_variant,,ENST00000537992,;"	"C"	"ENSG00000105855"	"ENST00000222573"	"Transcript"	"intron_variant"	"-/8751"	"-/2310"	"-/769"	""	""	""	"1"	NA	1	"ITGB8"	"HGNC"	6163	"protein_coding"	"YES"	"CCDS5370.1"	"ENSP00000222573"	"P26012"	"B4DHD4"	"UPI000012DA14"	"NM_002214.2"	""	""	""	"11/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"77083308-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138888888888889	"WGS"	FALSE
"17390"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	23994204	23994204	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"71"	15	77	"77"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"7708ed52-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174418604651163	"WGS"	FALSE
"17391"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	25529067	25529067	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"73"	25	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"770935fa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.255102040816327	"WGS"	FALSE
"17392"	"FAM188B"	84182	"mskcc.org"	"GRCh37"	"7"	30813953	30813953	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.63+2781C>T"	""	""	"ENST00000265299"	""	75	"60"	15	57	"57"	0	"FAM188B,intron_variant,,ENST00000265299,NM_032222.2;INMT-FAM188B,intron_variant,,ENST00000458257,;INMT-FAM188B,intron_variant,,ENST00000451002,;"	"T"	"ENSG00000106125"	"ENST00000265299"	"Transcript"	"intron_variant"	"-/2733"	"-/2274"	"-/757"	""	""	""	"1"	NA	1	"FAM188B"	"HGNC"	21916	"protein_coding"	"YES"	"CCDS43565.1"	"ENSP00000265299"	"Q4G0A6"	""	"UPI0000D60E7B"	"NM_032222.2"	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"770a70d2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"17393"	"ADCYAP1R1"	117	"mskcc.org"	"GRCh37"	"7"	31123473	31123473	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.329-283T>A"	""	""	"ENST00000396211"	""	94	"85"	9	61	"61"	0	"ADCYAP1R1,intron_variant,,ENST00000304166,NM_001199636.1,NM_001199635.1,NM_001118.4;ADCYAP1R1,intron_variant,,ENST00000409363,NM_001199637.1;ADCYAP1R1,intron_variant,,ENST00000409489,;ADCYAP1R1,intron_variant,,ENST00000396211,;ADCYAP1R1,upstream_gene_variant,,ENST00000436116,;"	"A"	"ENSG00000078549"	"ENST00000396211"	"Transcript"	"intron_variant"	"-/1587"	"-/1491"	"-/496"	""	""	""	"1"	NA	1	"ADCYAP1R1"	"HGNC"	242	"protein_coding"	"YES"	"CCDS56480.1"	"ENSP00000379514"	"P41586"	"Q6S991,Q6RKA2,C9JVH3"	"UPI0000DA58BA"	""	""	""	""	"5/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"770a8658-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0957446808510638	"WGS"	FALSE
"17394"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	31183621	31183621	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	66	"52"	14	57	"57"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"770a89b4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212121212121212	"WGS"	FALSE
"17395"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	31516748	31516748	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"100"	6	88	"88"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"770a9ed6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0566037735849057	"WGS"	FALSE
"17396"	"CCDC129"	223075	"mskcc.org"	"GRCh37"	"7"	31631472	31631472	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1306+8667G>T"	""	""	"ENST00000451887"	""	104	"76"	28	68	"68"	0	"CCDC129,intron_variant,,ENST00000319386,;CCDC129,intron_variant,,ENST00000409210,;CCDC129,intron_variant,,ENST00000451887,NM_001257968.1;CCDC129,intron_variant,,ENST00000407970,NM_194300.3,NM_001257967.1;"	"T"	"ENSG00000180347"	"ENST00000451887"	"Transcript"	"intron_variant"	"-/3529"	"-/3189"	"-/1062"	""	""	""	"1"	NA	1	"CCDC129"	"HGNC"	27363	"protein_coding"	"YES"	"CCDS59050.1"	"ENSP00000395835"	"Q6ZRS4"	"E7ERG9,E7EQ43,B8ZZ49"	"UPI00020655D9"	"NM_001257968.1"	""	""	""	"9/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"770aa4d0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.269230769230769	"WGS"	FALSE
"17397"	"POU6F2"	11281	"mskcc.org"	"GRCh37"	"7"	39274122	39274122	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.511+26903A>T"	""	""	"ENST00000403058"	""	110	"84"	26	77	"77"	0	"POU6F2,intron_variant,,ENST00000518318,;POU6F2,intron_variant,,ENST00000559001,;POU6F2,intron_variant,,ENST00000403058,NM_001166018.1,NM_007252.3;POU6F2,intron_variant,,ENST00000524147,;POU6F2,intron_variant,,ENST00000520104,;POU6F2,intron_variant,,ENST00000517348,;"	"T"	"ENSG00000106536"	"ENST00000403058"	"Transcript"	"intron_variant"	"-/2335"	"-/2076"	"-/691"	""	""	""	"1"	NA	1	"POU6F2"	"HGNC"	21694	"protein_coding"	"YES"	"CCDS34620.2"	"ENSP00000384004"	"P78424"	"H0YL15"	"UPI0000480E81"	"NM_001166018.1,NM_007252.3"	""	""	""	"5/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAT"	"770c8a7a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.236363636363636	"WGS"	FALSE
"17398"	"YAE1D1"	57002	"mskcc.org"	"GRCh37"	"7"	39626476	39626476	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.251+16250T>C"	""	""	"ENST00000432096"	""	70	"63"	7	53	"53"	0	"YAE1D1,intron_variant,,ENST00000432096,NM_001282446.1;"	"C"	"ENSG00000241127"	"ENST00000432096"	"Transcript"	"intron_variant"	"-/968"	"-/621"	"-/206"	""	""	""	"1"	NA	1	"YAE1D1"	"HGNC"	24857	"protein_coding"	""	"CCDS64630.1"	"ENSP00000395777"	""	"B4DE83"	"UPI00017A6CC5"	"NM_001282446.1"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"770c9a9c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"17399"	"SUGCT"	79783	"mskcc.org"	"GRCh37"	"7"	40714656	40714656	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1111-8999A>G"	""	""	"ENST00000309930"	""	120	"94"	26	83	"83"	0	"SUGCT,intron_variant,,ENST00000309930,NM_024728.2,NM_001193311.1;SUGCT,intron_variant,,ENST00000335693,NM_001193313.1;SUGCT,intron_variant,,ENST00000401647,NM_001193312.1;"	"G"	"ENSG00000175600"	"ENST00000309930"	"Transcript"	"intron_variant"	"-/1719"	"-/1416"	"-/471"	""	""	""	"1"	NA	1	"SUGCT"	"HGNC"	16001	"protein_coding"	"YES"	"CCDS55104.1"	"ENSP00000312054"	"Q9HAC7"	"Q9Y6U8,Q75MU8,Q75MS9,Q75MI5"	"UPI000013EF6B"	"NM_024728.2,NM_001193311.1"	""	""	""	"12/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAA"	"770cd1b0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216666666666667	"WGS"	FALSE
"17400"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	41489497	41489497	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"90"	19	66	"66"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"770cff14-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.174311926605505	"WGS"	FALSE
"17401"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	42595594	42595594	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	96	"77"	19	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"770d3740-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.197916666666667	"WGS"	FALSE
"17402"	"COA1"	55744	"mskcc.org"	"GRCh37"	"7"	43687348	43687348	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.16-115C>T"	""	""	"ENST00000395879"	""	92	"72"	20	53	"53"	0	"COA1,intron_variant,,ENST00000395879,;COA1,intron_variant,,ENST00000310564,;COA1,intron_variant,,ENST00000395880,;COA1,intron_variant,,ENST00000223336,NM_018224.3;COA1,intron_variant,,ENST00000431651,;COA1,intron_variant,,ENST00000415798,;COA1,intron_variant,,ENST00000459713,;COA1,intron_variant,,ENST00000470156,;COA1,3_prime_UTR_variant,,ENST00000448704,;COA1,intron_variant,,ENST00000438444,;COA1,intron_variant,,ENST00000415076,;COA1,intron_variant,,ENST00000446330,;COA1,intron_variant,,ENST00000418140,;COA1,intron_variant,,ENST00000446564,;COA1,intron_variant,,ENST00000451651,;COA1,intron_variant,,ENST00000457939,;COA1,upstream_gene_variant,,ENST00000490251,;COA1,downstream_gene_variant,,ENST00000420441,;"	"A"	"ENSG00000106603"	"ENST00000395879"	"Transcript"	"intron_variant"	"-/2448"	"-/441"	"-/146"	""	""	""	"1"	NA	-1	"COA1"	"HGNC"	21868	"protein_coding"	"YES"	"CCDS5471.1"	"ENSP00000379218"	"Q9GZY4"	"C9JA07,C9J6J1"	"UPI000006E8D7"	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"770d7bb0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"17403"	"PPIA"	5478	"mskcc.org"	"GRCh37"	"7"	44859861	44859861	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"rs200780580"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.70-1732C>A"	""	""	"ENST00000479021"	""	39	"35"	4	55	"55"	0	"PPIA,intron_variant,,ENST00000479021,;"	"A"	"ENSG00000196262"	"ENST00000479021"	"Transcript"	"intron_variant,NMD_transcript_variant"	"-/552"	"-/177"	"-/58"	""	""	"rs200780580"	"1"	NA	1	"PPIA"	"HGNC"	9253	"nonsense_mediated_decay"	""	""	"ENSP00000429251"	""	"E5RIZ5"	"UPI0000E0AA9F"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"770dcd22-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102564102564103	"WGS"	FALSE
"17404"	"ADCY1"	107	"mskcc.org"	"GRCh37"	"7"	45647886	45647886	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.790-2092T>G"	""	""	"ENST00000297323"	""	109	"87"	22	81	"81"	0	"ADCY1,intron_variant,,ENST00000297323,NM_021116.2;ADCY1,intron_variant,,ENST00000432715,NM_001281768.1;"	"G"	"ENSG00000164742"	"ENST00000297323"	"Transcript"	"intron_variant"	"-/12503"	"-/3360"	"-/1119"	""	""	""	"1"	NA	1	"ADCY1"	"HGNC"	232	"protein_coding"	"YES"	"CCDS34631.1"	"ENSP00000297323"	"Q08828"	"Q8NFM5,D3DVL8"	"UPI0000199C4A"	"NM_021116.2"	""	""	""	"2/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"770e065c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.201834862385321	"WGS"	FALSE
"17405"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	46048856	46048856	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	131	"105"	26	79	"79"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"770e35fa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.198473282442748	"WGS"	FALSE
"17406"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	46448271	46448271	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"95"	25	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"770e4c16-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WGS"	FALSE
"17407"	"ABCA13"	154664	"mskcc.org"	"GRCh37"	"7"	48360115	48360115	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.9999+3222G>A"	""	""	"ENST00000435803"	""	101	"88"	13	70	"70"	0	"ABCA13,intron_variant,,ENST00000435803,NM_152701.3;ABCA13,intron_variant,,ENST00000484268,;"	"A"	"ENSG00000179869"	"ENST00000435803"	"Transcript"	"intron_variant"	"-/17184"	"-/15177"	"-/5058"	""	""	""	"1"	NA	1	"ABCA13"	"HGNC"	14638	"protein_coding"	"YES"	"CCDS47584.1"	"ENSP00000411096"	"Q86UQ4"	""	"UPI00001A95EA"	"NM_152701.3"	""	""	""	"27/61"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"770ea044-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128712871287129	"WGS"	FALSE
"17408"	"ABCA13"	154664	"mskcc.org"	"GRCh37"	"7"	48390121	48390121	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.10205-119T>A"	""	""	"ENST00000435803"	""	124	"98"	26	67	"67"	0	"ABCA13,intron_variant,,ENST00000435803,NM_152701.3;ABCA13,intron_variant,,ENST00000484268,;"	"A"	"ENSG00000179869"	"ENST00000435803"	"Transcript"	"intron_variant"	"-/17184"	"-/15177"	"-/5058"	""	""	""	"1"	NA	1	"ABCA13"	"HGNC"	14638	"protein_coding"	"YES"	"CCDS47584.1"	"ENSP00000411096"	"Q86UQ4"	""	"UPI00001A95EA"	"NM_152701.3"	""	""	""	"29/61"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"770ea2e2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209677419354839	"WGS"	FALSE
"17409"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	49196468	49196468	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"90"	31	65	"64"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"770ee18a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.256198347107438	"WGS"	FALSE
"17410"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	51827642	51827642	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	129	"111"	18	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"770f57e6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13953488372093	"WGS"	FALSE
"17411"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	52457770	52457770	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"99"	7	77	"77"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"770f7622-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0660377358490566	"WGS"	FALSE
"17412"	"SUMF2"	25870	"mskcc.org"	"GRCh37"	"7"	56139288	56139288	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.282-1402A>G"	""	""	"ENST00000342190"	""	45	"40"	5	30	"30"	0	"SUMF2,intron_variant,,ENST00000434526,NM_015411.2,NM_001042469.1;SUMF2,intron_variant,,ENST00000275607,NM_001146333.1;SUMF2,intron_variant,,ENST00000342190,NM_001130069.2;SUMF2,intron_variant,,ENST00000395436,;SUMF2,intron_variant,,ENST00000395435,NM_001042470.1;SUMF2,intron_variant,,ENST00000413756,;SUMF2,intron_variant,,ENST00000437307,;SUMF2,intron_variant,,ENST00000451338,;SUMF2,intron_variant,,ENST00000413952,;SUMF2,intron_variant,,ENST00000423763,;SUMF2,intron_variant,,ENST00000438133,;SUMF2,intron_variant,,ENST00000436782,;SUMF2,intron_variant,,ENST00000447501,;SUMF2,intron_variant,,ENST00000483327,;SUMF2,intron_variant,,ENST00000452216,;SUMF2,intron_variant,,ENST00000498777,;SUMF2,intron_variant,,ENST00000529457,;SUMF2,upstream_gene_variant,,ENST00000461912,;"	"G"	"ENSG00000129103"	"ENST00000342190"	"Transcript"	"intron_variant"	"-/1876"	"-/1077"	"-/358"	""	""	""	"1"	NA	1	"SUMF2"	"HGNC"	20415	"protein_coding"	"YES"	"CCDS47589.1"	"ENSP00000341938"	""	"Q75LP3,F8WA42"	"UPI0001AE7021"	"NM_001130069.2"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"77104dcc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"17413"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	56543855	56543855	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"47"	12	39	"39"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7710720c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203389830508475	"WGS"	FALSE
"17414"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	56892981	56892981	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs541522371"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	54	"44"	10	41	"41"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs541522371"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"77109cfa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.185185185185185	"WGS"	FALSE
"17415"	"TNRC18P3"	0	"mskcc.org"	"GRCh37"	"7"	57071432	57071432	"+"	"RNA"	"SNP"	"G"	"G"	"T"	"rs377752571"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1309G>T"	""	""	"ENST00000441896"	"8/11"	26	"22"	4	22	"22"	0	"TNRC18P3,non_coding_transcript_exon_variant,,ENST00000441896,;"	"T"	"ENSG00000189166"	"ENST00000441896"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1309/2691"	""	""	""	""	"rs377752571"	"1"	NA	1	"TNRC18P3"	"HGNC"	34015	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	"8/11"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"7710bb54-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"17416"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	57795305	57795305	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"103"	10	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"77117d64-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0884955752212389	"WGS"	FALSE
"17417"	"ZNF727"	442319	"mskcc.org"	"GRCh37"	"7"	63516797	63516797	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3+10795A>T"	""	""	"ENST00000550760"	""	121	"113"	8	57	"57"	0	"ZNF727,intron_variant,,ENST00000550760,NM_001159522.1;RP11-3N2.13,intron_variant,,ENST00000445978,;"	"T"	"ENSG00000257482"	"ENST00000550760"	"Transcript"	"intron_variant"	"-/1679"	"-/1500"	"-/499"	""	""	""	"1"	NA	1	"ZNF727"	"HGNC"	22785	"protein_coding"	"YES"	"CCDS55113.1"	"ENSP00000447987"	"A8MUV8"	""	"UPI0001A23134"	"NM_001159522.1"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"77134860-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0661157024793388	"WGS"	FALSE
"17418"	"RP11-328P23.3"	0	"mskcc.org"	"GRCh37"	"7"	64974168	64974168	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000445949"	""	58	"54"	4	27	"27"	0	"RP11-328P23.3,upstream_gene_variant,,ENST00000445949,;"	"C"	"ENSG00000226767"	"ENST00000445949"	"Transcript"	"upstream_gene_variant"	"-/172"	""	""	""	""	""	"1"	"311"	-1	"RP11-328P23.3"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7713c466-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"17419"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	66081201	66081201	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	28	"22"	6	35	"35"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"77143e64-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.214285714285714	"WGS"	FALSE
"17420"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	66950610	66950610	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"54"	5	45	"45"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"77147adc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0847457627118644	"WGS"	FALSE
"17421"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	67515197	67515197	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"45"	11	51	"51"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"7714a480-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196428571428571	"WGS"	FALSE
"17422"	"NCF1B"	654816	"mskcc.org"	"GRCh37"	"7"	72650447	72650447	"+"	"3'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000423083"	""	45	"41"	4	30	"30"	0	"NCF1B,downstream_gene_variant,,ENST00000423083,;NCF1B,downstream_gene_variant,,ENST00000338578,;NCF1B,downstream_gene_variant,,ENST00000435988,;NCF1B,downstream_gene_variant,,ENST00000541521,;"	"G"	"ENSG00000182487"	"ENST00000423083"	"Transcript"	"downstream_gene_variant"	"-/1516"	""	""	""	""	""	"1"	"468"	1	"NCF1B"	"HGNC"	32522	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7715f966-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"17423"	"SRCRB4D"	136853	"mskcc.org"	"GRCh37"	"7"	76025461	76025461	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.869-814T>C"	""	""	"ENST00000275560"	""	60	"47"	13	55	"55"	0	"SRCRB4D,intron_variant,,ENST00000275560,NM_080744.1;ZP3,upstream_gene_variant,,ENST00000336517,NM_007155.5;SRCRB4D,upstream_gene_variant,,ENST00000492979,;"	"G"	"ENSG00000146700"	"ENST00000275560"	"Transcript"	"intron_variant"	"-/2801"	"-/1728"	"-/575"	""	""	""	"1"	NA	-1	"SRCRB4D"	"HGNC"	14461	"protein_coding"	"YES"	"CCDS5585.1"	"ENSP00000275560"	"Q8WTU2"	""	"UPI000006D197"	"NM_080744.1"	""	""	""	"6/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"77169d30-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216666666666667	"WGS"	FALSE
"17424"	"ZP3"	7784	"mskcc.org"	"GRCh37"	"7"	76064376	76064376	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.831+904G>T"	""	""	"ENST00000394857"	""	61	"55"	6	59	"59"	0	"ZP3,intron_variant,,ENST00000416245,;ZP3,intron_variant,,ENST00000336517,NM_007155.5;ZP3,intron_variant,,ENST00000394857,NM_001110354.1;ZP3,intron_variant,,ENST00000394860,;ZP3,intron_variant,,ENST00000479793,;ZP3,upstream_gene_variant,,ENST00000467555,;ZP3,intron_variant,,ENST00000466960,;"	"T"	"ENSG00000188372"	"ENST00000394857"	"Transcript"	"intron_variant"	"-/1348"	"-/1275"	"-/424"	""	""	""	"1"	NA	1	"ZP3"	"HGNC"	13189	"protein_coding"	"YES"	"CCDS47618.1"	"ENSP00000378326"	"P21754"	"Q2XN66,E9PFI9"	"UPI000013CF77"	"NM_001110354.1"	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"77169e8e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0983606557377049	"WGS"	FALSE
"17425"	"RSBN1L-AS1"	100505854	"mskcc.org"	"GRCh37"	"7"	77295895	77295895	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs190859412"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.371-7260G>A"	""	""	"ENST00000440088"	""	61	"55"	6	43	"43"	0	"RSBN1L-AS1,intron_variant,,ENST00000440088,;RSBN1L-AS1,intron_variant,,ENST00000430801,;"	"T"	"ENSG00000214293"	"ENST00000440088"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2029"	""	""	""	""	"rs190859412"	"1"	NA	-1	"RSBN1L-AS1"	"HGNC"	44173	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	"T:0.0026"	"T:0.0015"	"T:0"	NA	"T:0"	"T:0.001"	"T:0.0102"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"771749d8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0983606557377049	"WGS"	FALSE
"17426"	"MAGI2"	9863	"mskcc.org"	"GRCh37"	"7"	77722407	77722407	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3568-14005A>G"	""	""	"ENST00000354212"	""	66	"59"	7	39	"39"	0	"MAGI2,intron_variant,,ENST00000354212,NM_012301.3;MAGI2,intron_variant,,ENST00000419488,;MAGI2,intron_variant,,ENST00000522391,;MAGI2,intron_variant,,ENST00000519748,;"	"C"	"ENSG00000187391"	"ENST00000354212"	"Transcript"	"intron_variant"	"-/6861"	"-/4368"	"-/1455"	""	""	""	"1"	NA	-1	"MAGI2"	"HGNC"	18957	"protein_coding"	"YES"	"CCDS5594.1"	"ENSP00000346151"	"Q86UL8"	""	"UPI00001615D2"	"NM_012301.3"	""	""	""	"20/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"7717839e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106060606060606	"WGS"	FALSE
"17427"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	80644394	80644394	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	89	"70"	19	73	"73"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"771825ba-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213483146067416	"WGS"	FALSE
"17428"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	80868436	80868436	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"95"	25	85	"85"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"77182cae-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WGS"	FALSE
"17429"	"AC004866.1"	0	"mskcc.org"	"GRCh37"	"7"	80966515	80966515	"+"	"3'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000411748"	""	97	"86"	11	55	"55"	0	"AC004866.1,downstream_gene_variant,,ENST00000411748,;"	"T"	"ENSG00000223514"	"ENST00000411748"	"Transcript"	"downstream_gene_variant"	"-/78"	""	""	""	""	""	"1"	"2016"	1	"AC004866.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"771832f8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.11340206185567	"WGS"	FALSE
"17430"	"SEMA3E"	9723	"mskcc.org"	"GRCh37"	"7"	83052820	83052820	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.457-5021T>A"	""	""	"ENST00000307792"	""	92	"86"	6	58	"58"	0	"SEMA3E,intron_variant,,ENST00000307792,NM_012431.2;SEMA3E,intron_variant,,ENST00000427262,NM_001178129.1;SEMA3E,intron_variant,,ENST00000442159,;AC079987.2,upstream_gene_variant,,ENST00000420181,;"	"T"	"ENSG00000170381"	"ENST00000307792"	"Transcript"	"intron_variant"	"-/6476"	"-/2328"	"-/775"	""	""	""	"1"	NA	-1	"SEMA3E"	"HGNC"	10727	"protein_coding"	"YES"	"CCDS34674.1"	"ENSP00000303212"	"O15041"	"F8WCZ5,C9JVH5"	"UPI0000135A68"	"NM_012431.2"	""	""	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"77189928-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0652173913043478	"WGS"	FALSE
"17431"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	83319429	83319429	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"85"	22	61	"61"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"7718b052-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205607476635514	"WGS"	FALSE
"17432"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	83461355	83461355	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	121	"96"	25	79	"79"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7718b3b8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206611570247934	"WGS"	FALSE
"17433"	"SEMA3A"	10371	"mskcc.org"	"GRCh37"	"7"	83940594	83940594	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-168-3986G>A"	""	""	"ENST00000424555"	""	117	"89"	28	65	"65"	0	"SEMA3A,intron_variant,,ENST00000424555,;SEMA3A,intron_variant,,ENST00000448879,;SEMA3A,intron_variant,,ENST00000471474,;SEMA3A,intron_variant,,ENST00000490883,;"	"T"	"ENSG00000075213"	"ENST00000424555"	"Transcript"	"intron_variant"	"-/568"	"-/58"	"-/19"	""	""	""	"1"	NA	-1	"SEMA3A"	"HGNC"	10723	"protein_coding"	""	""	"ENSP00000404800"	""	"C9JD25"	"UPI000198CE36"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"7718cda8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239316239316239	"WGS"	FALSE
"17434"	"SEMA3A"	10371	"mskcc.org"	"GRCh37"	"7"	83968590	83968590	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-168-31982C>A"	""	""	"ENST00000424555"	""	113	"102"	11	66	"66"	0	"SEMA3A,intron_variant,,ENST00000424555,;SEMA3A,intron_variant,,ENST00000448879,;SEMA3A,intron_variant,,ENST00000471474,;SEMA3A,intron_variant,,ENST00000490883,;"	"T"	"ENSG00000075213"	"ENST00000424555"	"Transcript"	"intron_variant"	"-/568"	"-/58"	"-/19"	""	""	""	"1"	NA	-1	"SEMA3A"	"HGNC"	10723	"protein_coding"	""	""	"ENSP00000404800"	""	"C9JD25"	"UPI000198CE36"	""	""	""	""	"2/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"7718d050-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0973451327433628	"WGS"	FALSE
"17435"	"SEMA3A"	10371	"mskcc.org"	"GRCh37"	"7"	84090496	84090496	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-246+31280A>T"	""	""	"ENST00000424555"	""	113	"89"	24	58	"58"	0	"SEMA3A,intron_variant,,ENST00000424555,;SEMA3A,intron_variant,,ENST00000448879,;"	"A"	"ENSG00000075213"	"ENST00000424555"	"Transcript"	"intron_variant"	"-/568"	"-/58"	"-/19"	""	""	""	"1"	NA	-1	"SEMA3A"	"HGNC"	10723	"protein_coding"	""	""	"ENSP00000404800"	""	"C9JD25"	"UPI000198CE36"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATG"	"7718d65e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212389380530973	"WGS"	FALSE
"17436"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	85585690	85585690	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	150	"115"	35	70	"70"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"77192be0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.233333333333333	"WGS"	FALSE
"17437"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	85972563	85972563	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	79	"66"	13	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"77194774-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164556962025316	"WGS"	FALSE
"17438"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	86104036	86104036	"+"	"IGR"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	141	"105"	36	63	"63"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"771950f2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25531914893617	"WGS"	FALSE
"17439"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	86224506	86224506	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"65"	21	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"77195304-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244186046511628	"WGS"	FALSE
"17440"	"ZNF804B"	219578	"mskcc.org"	"GRCh37"	"7"	88725734	88725734	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.109-121735G>A"	""	""	"ENST00000333190"	""	122	"98"	24	51	"51"	0	"ZNF804B,intron_variant,,ENST00000333190,NM_181646.2;"	"A"	"ENSG00000182348"	"ENST00000333190"	"Transcript"	"intron_variant"	"-/4659"	"-/4050"	"-/1349"	""	""	""	"1"	NA	1	"ZNF804B"	"HGNC"	21958	"protein_coding"	"YES"	"CCDS5613.1"	"ENSP00000329638"	"A4D1E1"	""	"UPI00001A92D2"	"NM_181646.2"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"7719c122-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19672131147541	"WGS"	FALSE
"17441"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	89162967	89162967	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	101	"94"	7	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"7719eb2a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0693069306930693	"WGS"	FALSE
"17442"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	91256275	91256275	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"76"	18	62	"62"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"771a6a3c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191489361702128	"WGS"	FALSE
"17443"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	92694487	92694487	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"50"	9	61	"61"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"771aba1e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.152542372881356	"WGS"	FALSE
"17444"	"RP11-682N22.1"	100506136	"mskcc.org"	"GRCh37"	"7"	96249088	96249088	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000606019"	""	91	"65"	26	65	"65"	0	"SHFM1,downstream_gene_variant,,ENST00000417009,;RP11-682N22.1,downstream_gene_variant,,ENST00000606019,;SHFM1,intron_variant,,ENST00000466986,;"	"A"	"ENSG00000272377"	"ENST00000606019"	"Transcript"	"downstream_gene_variant"	"-/1228"	""	""	""	""	""	"1"	"2230"	-1	"RP11-682N22.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"771b7314-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"17445"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	96375363	96375363	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"77"	32	74	"74"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"771b7a8a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.293577981651376	"WGS"	FALSE
"17446"	"ARPC1A"	10552	"mskcc.org"	"GRCh37"	"7"	98918655	98918655	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000262942"	""	63	"57"	6	43	"43"	0	"ARPC1A,upstream_gene_variant,,ENST00000432884,;ARPC1A,upstream_gene_variant,,ENST00000262942,NM_001190996.1,NM_006409.3;ARPC1A,upstream_gene_variant,,ENST00000441989,;ARPC1A,upstream_gene_variant,,ENST00000432786,;"	"G"	"ENSG00000241685"	"ENST00000262942"	"Transcript"	"upstream_gene_variant"	"-/1565"	"-/1113"	"-/370"	""	""	""	"1"	"4878"	1	"ARPC1A"	"HGNC"	703	"protein_coding"	"YES"	"CCDS5660.1"	"ENSP00000262942"	"Q92747"	"Q75MY0"	"UPI0000167B41"	"NM_001190996.1,NM_006409.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"771c1cba-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0952380952380952	"WGS"	FALSE
"17447"	"ARPC1A"	10552	"mskcc.org"	"GRCh37"	"7"	98918659	98918659	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000262942"	""	63	"58"	5	41	"41"	0	"ARPC1A,upstream_gene_variant,,ENST00000432884,;ARPC1A,upstream_gene_variant,,ENST00000262942,NM_001190996.1,NM_006409.3;ARPC1A,upstream_gene_variant,,ENST00000441989,;ARPC1A,upstream_gene_variant,,ENST00000432786,;"	"T"	"ENSG00000241685"	"ENST00000262942"	"Transcript"	"upstream_gene_variant"	"-/1565"	"-/1113"	"-/370"	""	""	""	"1"	"4874"	1	"ARPC1A"	"HGNC"	703	"protein_coding"	"YES"	"CCDS5660.1"	"ENSP00000262942"	"Q92747"	"Q75MY0"	"UPI0000167B41"	"NM_001190996.1,NM_006409.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"771c1d5a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0793650793650794	"WGS"	FALSE
"17448"	"CYP3A43"	64816	"mskcc.org"	"GRCh37"	"7"	99453107	99453107	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.671-107T>A"	""	""	"ENST00000222382"	""	78	"56"	22	57	"57"	0	"CYP3A43,intron_variant,,ENST00000354829,NM_057095.2,NM_022820.4,NM_057096.3;CYP3A43,intron_variant,,ENST00000222382,;CYP3A43,intron_variant,,ENST00000312017,;CYP3A43,intron_variant,,ENST00000342499,;CYP3A43,intron_variant,,ENST00000417625,NM_001278921.1;CYP3A43,intron_variant,,ENST00000415413,;CYP3A43,intron_variant,,ENST00000444905,;CYP3A43,intron_variant,,ENST00000477658,;CYP3A43,intron_variant,,ENST00000491648,;CYP3A43,intron_variant,,ENST00000495115,;CYP3A43,intron_variant,,ENST00000463915,;CYP3A43,intron_variant,,ENST00000481362,;CYP3A43,intron_variant,,ENST00000434806,;CYP3A43,intron_variant,,ENST00000433277,;CYP3A43,intron_variant,,ENST00000436834,;CYP3A43,upstream_gene_variant,,ENST00000472352,;"	"A"	"ENSG00000021461"	"ENST00000222382"	"Transcript"	"intron_variant"	"-/1515"	"-/1515"	"-/504"	""	""	""	"1"	NA	1	"CYP3A43"	"HGNC"	17450	"protein_coding"	"YES"	"CCDS5675.1"	"ENSP00000222382"	"Q9HB55"	"Q7Z2G5"	"UPI000002A50E"	""	""	""	""	"7/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"771c3786-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.282051282051282	"WGS"	FALSE
"17449"	"LHFPL3"	375612	"mskcc.org"	"GRCh37"	"7"	104068746	104068746	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.450-41746T>C"	""	""	"ENST00000535008"	""	97	"80"	17	55	"55"	0	"LHFPL3,intron_variant,,ENST00000535008,;LHFPL3,intron_variant,,ENST00000424859,NM_199000.2;LHFPL3,intron_variant,,ENST00000543266,;LHFPL3,intron_variant,,ENST00000401970,;"	"C"	"ENSG00000187416"	"ENST00000535008"	"Transcript"	"intron_variant"	"-/3174"	"-/711"	"-/236"	""	""	""	"1"	NA	1	"LHFPL3"	"HGNC"	6589	"protein_coding"	"YES"	""	"ENSP00000444350"	""	"F5GZM2"	"UPI0002065540"	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"771d9608-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175257731958763	"WGS"	FALSE
"17450"	"LHFPL3"	375612	"mskcc.org"	"GRCh37"	"7"	104257936	104257936	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.461-5515A>T"	""	""	"ENST00000535008"	""	109	"87"	22	73	"73"	0	"LHFPL3,intron_variant,,ENST00000535008,;LHFPL3,intron_variant,,ENST00000424859,NM_199000.2;LHFPL3,intron_variant,,ENST00000543266,;LHFPL3,intron_variant,,ENST00000401970,;"	"T"	"ENSG00000187416"	"ENST00000535008"	"Transcript"	"intron_variant"	"-/3174"	"-/711"	"-/236"	""	""	""	"1"	NA	1	"LHFPL3"	"HGNC"	6589	"protein_coding"	"YES"	""	"ENSP00000444350"	""	"F5GZM2"	"UPI0002065540"	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"771d9f90-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.201834862385321	"WGS"	FALSE
"17451"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	108485694	108485694	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"rs200757596"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	48	"43"	5	19	"19"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs200757596"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"771eb4d4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104166666666667	"WGS"	FALSE
"17452"	"IMMP2L"	83943	"mskcc.org"	"GRCh37"	"7"	111158335	111158335	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.135+3034G>A"	""	""	"ENST00000405709"	""	110	"91"	19	71	"71"	0	"IMMP2L,intron_variant,,ENST00000405709,NM_032549.3;IMMP2L,intron_variant,,ENST00000331762,NM_001244606.1;IMMP2L,intron_variant,,ENST00000447215,;IMMP2L,intron_variant,,ENST00000452895,;IMMP2L,intron_variant,,ENST00000415362,;IMMP2L,intron_variant,,ENST00000452753,;IMMP2L,intron_variant,,ENST00000437687,;IMMP2L,intron_variant,,ENST00000492938,;"	"T"	"ENSG00000184903"	"ENST00000405709"	"Transcript"	"intron_variant"	"-/1519"	"-/528"	"-/175"	""	""	""	"1"	NA	-1	"IMMP2L"	"HGNC"	14598	"protein_coding"	"YES"	"CCDS5753.1"	"ENSP00000384966"	"Q96T52"	"C9JVB0,A4D0S9"	"UPI000006D162"	"NM_032549.3"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"771f35f8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172727272727273	"WGS"	FALSE
"17453"	"DOCK4"	9732	"mskcc.org"	"GRCh37"	"7"	111640446	111640446	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.162+103A>C"	""	""	"ENST00000437633"	""	108	"85"	23	76	"76"	0	"DOCK4,intron_variant,,ENST00000428084,;DOCK4,intron_variant,,ENST00000437633,NM_014705.3;DOCK4,intron_variant,,ENST00000445943,;DOCK4,intron_variant,,ENST00000476846,;DOCK4,intron_variant,,ENST00000468571,;"	"G"	"ENSG00000128512"	"ENST00000437633"	"Transcript"	"intron_variant"	"-/6212"	"-/5901"	"-/1966"	""	""	""	"1"	NA	-1	"DOCK4"	"HGNC"	19192	"protein_coding"	"YES"	"CCDS47688.1"	"ENSP00000404179"	"Q8N1I0"	"Q75MU6"	"UPI0000D5BB0D"	"NM_014705.3"	""	""	""	"3/51"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"771f55c4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.212962962962963	"WGS"	FALSE
"17454"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	113444722	113444722	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"rs139563389"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"83"	28	72	"72"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs139563389"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"771fbe74-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252252252252252	"WGS"	FALSE
"17455"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	114694650	114694650	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"95"	15	69	"69"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"772005dc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.136363636363636	"WGS"	FALSE
"17456"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	118554218	118554218	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	131	"101"	30	63	"63"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"7720acd0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.229007633587786	"WGS"	FALSE
"17457"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	119179061	119179061	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	122	"101"	21	82	"82"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7720b95a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.172131147540984	"WGS"	FALSE
"17458"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	119591708	119591708	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"84"	18	76	"76"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"7720bf68-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"17459"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	120415866	120415866	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"rs143745739"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	124	"113"	11	64	"64"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs143745739"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"T:0.0002"	"T:0"	"T:0"	NA	"T:0.001"	"T:0"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"7720e204-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0887096774193548	"WGS"	FALSE
"17460"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	124369964	124369964	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"72"	10	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7721d394-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121951219512195	"WGS"	FALSE
"17461"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	125446070	125446070	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	132	"97"	35	72	"72"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"7721f9e6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265151515151515	"WGS"	FALSE
"17462"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	125901734	125901734	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"76"	18	67	"67"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAA"	"77221462-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.191489361702128	"WGS"	FALSE
"17463"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	125998387	125998387	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"118"	9	66	"66"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"77221a84-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0708661417322835	"WGS"	FALSE
"17464"	"TNPO3"	23534	"mskcc.org"	"GRCh37"	"7"	128614108	128614108	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2273+814T>C"	""	""	"ENST00000265388"	""	51	"46"	5	38	"38"	0	"TNPO3,intron_variant,,ENST00000393245,NM_012470.3;TNPO3,intron_variant,,ENST00000482320,;TNPO3,intron_variant,,ENST00000471234,NM_001191028.2;TNPO3,intron_variant,,ENST00000265388,;TNPO3,intron_variant,,ENST00000471166,;RN7SL306P,downstream_gene_variant,,ENST00000492941,;"	"G"	"ENSG00000064419"	"ENST00000265388"	"Transcript"	"intron_variant"	"-/3245"	"-/2772"	"-/923"	""	""	""	"1"	NA	-1	"TNPO3"	"HGNC"	17103	"protein_coding"	"YES"	"CCDS5809.1"	"ENSP00000265388"	"Q9Y5L0"	"E9PFH4,B3KMX1"	"UPI0000072FAB"	""	""	""	""	"18/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"7722b228-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0980392156862745	"WGS"	FALSE
"17465"	"LINC-PINT"	0	"mskcc.org"	"GRCh37"	"7"	130792690	130792690	"+"	"RNA"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1313C>T"	""	""	"ENST00000451786"	"2/6"	73	"58"	15	45	"45"	0	"MKLN1,upstream_gene_variant,,ENST00000421797,NM_001145354.1;MKLN1,upstream_gene_variant,,ENST00000416992,;LINC-PINT,non_coding_transcript_exon_variant,,ENST00000451786,;LINC-PINT,non_coding_transcript_exon_variant,,ENST00000431189,;LINC-PINT,non_coding_transcript_exon_variant,,ENST00000423414,;LINC-PINT,non_coding_transcript_exon_variant,,ENST00000429901,;LINC-PINT,upstream_gene_variant,,ENST00000433079,;"	"A"	"ENSG00000231721"	"ENST00000451786"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"1313/3505"	""	""	""	""	""	"1"	NA	-1	"LINC-PINT"	"HGNC"	26885	"antisense"	"YES"	""	""	""	""	""	""	""	""	"2/6"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"77233090-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205479452054795	"WGS"	FALSE
"17466"	"CHCHD3"	54927	"mskcc.org"	"GRCh37"	"7"	132661737	132661737	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.252-1691G>A"	""	""	"ENST00000262570"	""	93	"69"	24	65	"65"	0	"CHCHD3,intron_variant,,ENST00000262570,NM_017812.2;CHCHD3,intron_variant,,ENST00000448878,;CHCHD3,intron_variant,,ENST00000542753,;CHCHD3,intron_variant,,ENST00000476546,;CHCHD3,intron_variant,,ENST00000481152,;CHCHD3,intron_variant,,ENST00000496427,;CHCHD3,intron_variant,,ENST00000466644,;CHCHD3,intron_variant,,ENST00000423635,;"	"T"	"ENSG00000106554"	"ENST00000262570"	"Transcript"	"intron_variant"	"-/1598"	"-/684"	"-/227"	""	""	""	"1"	NA	-1	"CHCHD3"	"HGNC"	21906	"protein_coding"	"YES"	"CCDS5828.1"	"ENSP00000262570"	"Q9NX63"	"A4D1N4"	"UPI0000044721"	"NM_017812.2"	""	""	""	"3/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"7723bd94-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258064516129032	"WGS"	FALSE
"17467"	"EXOC4"	60412	"mskcc.org"	"GRCh37"	"7"	133662720	133662720	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"rs189343569"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2207-19525G>T"	""	""	"ENST00000253861"	""	103	"95"	8	69	"69"	0	"EXOC4,intron_variant,,ENST00000253861,NM_021807.3;EXOC4,intron_variant,,ENST00000545148,;EXOC4,intron_variant,,ENST00000539845,;EXOC4,intron_variant,,ENST00000541309,;EXOC4,intron_variant,,ENST00000478265,;"	"T"	"ENSG00000131558"	"ENST00000253861"	"Transcript"	"intron_variant"	"-/4185"	"-/2925"	"-/974"	""	""	"rs189343569"	"1"	NA	1	"EXOC4"	"HGNC"	30389	"protein_coding"	"YES"	"CCDS5829.1"	"ENSP00000253861"	"Q96A65"	"B7Z4J9,B7Z321"	"UPI0000135758"	"NM_021807.3"	""	""	""	"14/17"	""	"T:0.0010"	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"7723f58e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0776699029126214	"WGS"	FALSE
"17468"	"DGKI"	9162	"mskcc.org"	"GRCh37"	"7"	137221156	137221156	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2148-14444A>G"	""	""	"ENST00000288490"	""	115	"90"	25	59	"59"	0	"DGKI,intron_variant,,ENST00000453654,;DGKI,intron_variant,,ENST00000424189,;DGKI,intron_variant,,ENST00000446122,;DGKI,intron_variant,,ENST00000288490,NM_004717.2;DGKI,intron_variant,,ENST00000460662,;"	"C"	"ENSG00000157680"	"ENST00000288490"	"Transcript"	"intron_variant"	"-/3895"	"-/3198"	"-/1065"	""	""	""	"1"	NA	-1	"DGKI"	"HGNC"	2855	"protein_coding"	"YES"	"CCDS5845.1"	"ENSP00000288490"	"O75912"	"B3KR69"	"UPI000012DD23"	"NM_004717.2"	""	""	""	"20/33"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"7725017c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.217391304347826	"WGS"	FALSE
"17469"	"CREB3L2"	64764	"mskcc.org"	"GRCh37"	"7"	137655636	137655636	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.102+30714C>T"	""	""	"ENST00000330387"	""	89	"74"	15	77	"77"	0	"CREB3L2,intron_variant,,ENST00000330387,NM_194071.3;CREB3L2,intron_variant,,ENST00000456390,;CREB3L2,intron_variant,,ENST00000452463,NM_001253775.1;"	"A"	"ENSG00000182158"	"ENST00000330387"	"Transcript"	"intron_variant"	"-/7412"	"-/1563"	"-/520"	""	""	""	"1"	NA	-1	"CREB3L2"	"HGNC"	23720	"protein_coding"	"YES"	"CCDS34760.1"	"ENSP00000329140"	"Q70SY1"	""	"UPI0000457614"	"NM_194071.3"	""	""	""	"1/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGC"	"77251b44-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.168539325842697	"WGS"	TRUE
"17470"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	139968300	139968300	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	69	"63"	6	50	"50"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"7725da8e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"17471"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	139968306	139968306	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	65	"59"	6	47	"47"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"7725db38-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"17472"	"BRAF"	673	"mskcc.org"	"GRCh37"	"7"	140443305	140443305	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1993-3559A>G"	""	""	"ENST00000288602"	""	88	"67"	21	69	"69"	0	"BRAF,intron_variant,,ENST00000496384,;BRAF,intron_variant,,ENST00000288602,NM_004333.4;BRAF,intron_variant,,ENST00000497784,;BRAF,intron_variant,,ENST00000479537,;"	"C"	"ENSG00000157764"	"ENST00000288602"	"Transcript"	"intron_variant"	"-/2480"	"-/2301"	"-/766"	""	""	""	"1"	NA	-1	"BRAF"	"HGNC"	1097	"protein_coding"	"YES"	"CCDS5863.1"	"ENSP00000288602"	"P15056"	"Q75MQ8,E5FF37,D7PBN4"	"UPI000013DF26"	"NM_004333.4"	""	""	""	"16/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATA"	"7725f00a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238636363636364	"WGS"	TRUE
"17473"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	140768135	140768135	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"66"	7	33	"33"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"7726036a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0958904109589041	"WGS"	FALSE
"17474"	"CASP2"	835	"mskcc.org"	"GRCh37"	"7"	143000831	143000831	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.968-46T>A"	""	""	"ENST00000310447"	""	73	"54"	19	53	"53"	0	"CASP2,intron_variant,,ENST00000310447,NM_032982.3,NM_032983.3;RN7SL481P,downstream_gene_variant,,ENST00000477764,;CASP2,intron_variant,,ENST00000493642,;CASP2,non_coding_transcript_exon_variant,,ENST00000472067,;CASP2,intron_variant,,ENST00000350623,;"	"A"	"ENSG00000106144"	"ENST00000310447"	"Transcript"	"intron_variant"	"-/4225"	"-/1359"	"-/452"	""	""	""	"1"	NA	1	"CASP2"	"HGNC"	1503	"protein_coding"	"YES"	"CCDS5879.1"	"ENSP00000312664"	"P42575"	"B4E0I5"	"UPI000020F1E8"	"NM_032982.3,NM_032983.3"	""	""	""	"8/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"77264b90-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26027397260274	"WGS"	FALSE
"17475"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	143070331	143070331	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	60	"54"	6	53	"53"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"77265252-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"17476"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	143070339	143070339	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"54"	5	54	"54"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"772652fc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0847457627118644	"WGS"	FALSE
"17477"	"RN7SKP174"	0	"mskcc.org"	"GRCh37"	"7"	144545836	144545836	"+"	"3'Flank"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000363803"	""	66	"51"	15	57	"57"	0	"RN7SKP174,downstream_gene_variant,,ENST00000363803,;"	"C"	"ENSG00000200673"	"ENST00000363803"	"Transcript"	"downstream_gene_variant"	"-/330"	""	""	""	""	""	"1"	"1012"	-1	"RN7SKP174"	"HGNC"	45898	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"7726ae78-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"17478"	"CNTNAP2"	26047	"mskcc.org"	"GRCh37"	"7"	146780450	146780450	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.551-24789G>T"	""	""	"ENST00000361727"	""	94	"68"	26	63	"63"	0	"CNTNAP2,intron_variant,,ENST00000361727,NM_014141.5;AC006004.1,intron_variant,,ENST00000434887,;"	"T"	"ENSG00000174469"	"ENST00000361727"	"Transcript"	"intron_variant"	"-/9894"	"-/3996"	"-/1331"	""	""	""	"1"	NA	1	"CNTNAP2"	"HGNC"	13830	"protein_coding"	"YES"	"CCDS5889.1"	"ENSP00000354778"	"Q9UHC6"	"Q9UDV4,Q96T77,Q86UL9,Q86UL6,Q86UL4,Q86UJ1,Q86UI8,Q75MQ9,Q75MF8,Q75MF6,Q75MD4,Q75MA1,Q75M92,Q75LG9,O75852,B7Z1Y6"	"UPI00001285FA"	"NM_014141.5"	""	""	""	"4/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGG"	"77272bd2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276595744680851	"WGS"	FALSE
"17479"	"CNTNAP2"	26047	"mskcc.org"	"GRCh37"	"7"	146849232	146849232	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1348+19631G>T"	""	""	"ENST00000361727"	""	97	"92"	5	68	"68"	0	"CNTNAP2,intron_variant,,ENST00000361727,NM_014141.5;"	"T"	"ENSG00000174469"	"ENST00000361727"	"Transcript"	"intron_variant"	"-/9894"	"-/3996"	"-/1331"	""	""	""	"1"	NA	1	"CNTNAP2"	"HGNC"	13830	"protein_coding"	"YES"	"CCDS5889.1"	"ENSP00000354778"	"Q9UHC6"	"Q9UDV4,Q96T77,Q86UL9,Q86UL6,Q86UL4,Q86UJ1,Q86UI8,Q75MQ9,Q75MF8,Q75MF6,Q75MD4,Q75MA1,Q75M92,Q75LG9,O75852,B7Z1Y6"	"UPI00001285FA"	"NM_014141.5"	""	""	""	"8/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGA"	"77272e84-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0515463917525773	"WGS"	FALSE
"17480"	"Unknown"	0	"mskcc.org"	"GRCh37"	"7"	148674568	148674568	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"45"	6	39	"39"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"77279f0e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"17481"	"RP11-545G3.1"	100134040	"mskcc.org"	"GRCh37"	"7"	149739642	149739642	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.233+1092G>T"	""	""	"ENST00000492054"	""	68	"63"	5	50	"50"	0	"RP11-545G3.1,intron_variant,,ENST00000492054,;RP11-545G3.1,intron_variant,,ENST00000493400,;"	"T"	"ENSG00000241449"	"ENST00000492054"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/573"	""	""	""	""	""	"1"	NA	1	"RP11-545G3.1"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"7728221c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0735294117647059	"WGS"	FALSE
"17482"	"AC079809.2"	0	"mskcc.org"	"GRCh37"	"7"	152838055	152838055	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000415468"	""	85	"70"	15	67	"67"	0	"AC079809.2,downstream_gene_variant,,ENST00000415468,;"	"T"	"ENSG00000224104"	"ENST00000415468"	"Transcript"	"downstream_gene_variant"	"-/276"	""	""	""	""	""	"1"	"3343"	-1	"AC079809.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7729e250-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"17483"	"DPP6"	1804	"mskcc.org"	"GRCh37"	"7"	153758822	153758822	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.243+8674T>A"	""	""	"ENST00000377770"	""	37	"33"	4	25	"25"	0	"DPP6,intron_variant,,ENST00000404039,NM_130797.2,NM_001936.3,NM_001039350.1;DPP6,intron_variant,,ENST00000377770,;DPP6,intron_variant,,ENST00000406326,;AC006019.3,upstream_gene_variant,,ENST00000425591,;"	"A"	"ENSG00000130226"	"ENST00000377770"	"Transcript"	"intron_variant"	"-/3710"	"-/2598"	"-/865"	""	""	""	"1"	NA	1	"DPP6"	"HGNC"	3010	"protein_coding"	"YES"	""	"ENSP00000367001"	"P42658"	"Q75MI8,Q75MI7,Q75MF0"	"UPI00001AE746"	""	""	""	""	"1/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTC"	"772a3480-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.108108108108108	"WGS"	FALSE
"17484"	"DPP6"	1804	"mskcc.org"	"GRCh37"	"7"	154391961	154391961	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.628-37570C>T"	""	""	"ENST00000377770"	""	45	"40"	5	37	"37"	0	"DPP6,intron_variant,,ENST00000404039,NM_130797.2,NM_001936.3,NM_001039350.1;DPP6,intron_variant,,ENST00000332007,;DPP6,intron_variant,,ENST00000377770,;DPP6,intron_variant,,ENST00000427557,;"	"T"	"ENSG00000130226"	"ENST00000377770"	"Transcript"	"intron_variant"	"-/3710"	"-/2598"	"-/865"	""	""	""	"1"	NA	1	"DPP6"	"HGNC"	3010	"protein_coding"	"YES"	""	"ENSP00000367001"	"P42658"	"Q75MI8,Q75MI7,Q75MF0"	"UPI00001AE746"	""	""	""	""	"5/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"772a7a58-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"17485"	"DPP6"	1804	"mskcc.org"	"GRCh37"	"7"	154391975	154391975	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.628-37556T>C"	""	""	"ENST00000377770"	""	46	"42"	4	35	"35"	0	"DPP6,intron_variant,,ENST00000404039,NM_130797.2,NM_001936.3,NM_001039350.1;DPP6,intron_variant,,ENST00000332007,;DPP6,intron_variant,,ENST00000377770,;DPP6,intron_variant,,ENST00000427557,;"	"C"	"ENSG00000130226"	"ENST00000377770"	"Transcript"	"intron_variant"	"-/3710"	"-/2598"	"-/865"	""	""	""	"1"	NA	1	"DPP6"	"HGNC"	3010	"protein_coding"	"YES"	""	"ENSP00000367001"	"P42658"	"Q75MI8,Q75MI7,Q75MF0"	"UPI00001AE746"	""	""	""	""	"5/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"772a7b02-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0869565217391304	"WGS"	FALSE
"17486"	"PAXIP1"	22976	"mskcc.org"	"GRCh37"	"7"	154799130	154799130	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000404141"	""	81	"72"	9	74	"74"	0	"PAXIP1,upstream_gene_variant,,ENST00000404141,;PAXIP1,upstream_gene_variant,,ENST00000397192,NM_007349.3;PAXIP1,upstream_gene_variant,,ENST00000419436,;PAXIP1-AS1,downstream_gene_variant,,ENST00000608317,;PAXIP1,upstream_gene_variant,,ENST00000457196,;"	"C"	"ENSG00000157212"	"ENST00000404141"	"Transcript"	"upstream_gene_variant"	"-/3827"	"-/3210"	"-/1069"	""	""	""	"1"	"4336"	-1	"PAXIP1"	"HGNC"	8624	"protein_coding"	"YES"	"CCDS47753.1"	"ENSP00000384048"	"Q6ZW49"	""	"UPI00004166F9"	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"772ab0a4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"17487"	"LINC01006"	129790	"mskcc.org"	"GRCh37"	"7"	156296923	156296923	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.301-31518T>C"	""	""	"ENST00000447933"	""	92	"70"	22	52	"52"	0	"LINC01006,intron_variant,,ENST00000447933,;LINC01006,intron_variant,,ENST00000425712,;"	"G"	"ENSG00000182648"	"ENST00000447933"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/766"	""	""	""	""	""	"1"	NA	-1	"LINC01006"	"HGNC"	48971	"sense_overlapping"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"772bc214-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.239130434782609	"WGS"	FALSE
"17488"	"AC006372.6"	0	"mskcc.org"	"GRCh37"	"7"	157303074	157303074	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000433660"	""	72	"53"	19	59	"59"	0	"AC006372.6,upstream_gene_variant,,ENST00000433660,;"	"A"	"ENSG00000233191"	"ENST00000433660"	"Transcript"	"upstream_gene_variant"	"-/292"	""	""	""	""	""	"1"	"2914"	1	"AC006372.6"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"772c1f02-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263888888888889	"WGS"	FALSE
"17489"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	157508165	157508165	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1789-32536G>A"	""	""	"ENST00000389418"	""	68	"58"	10	74	"74"	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"T"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	""	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	""	""	""	"12/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"772c76a0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"17490"	"PTPRN2"	5799	"mskcc.org"	"GRCh37"	"7"	157805574	157805574	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1723+68416C>A"	""	""	"ENST00000389418"	""	88	"65"	23	66	"66"	0	"PTPRN2,intron_variant,,ENST00000389413,NM_130843.2;PTPRN2,intron_variant,,ENST00000409483,;PTPRN2,intron_variant,,ENST00000389418,NM_002847.3;PTPRN2,intron_variant,,ENST00000389416,NM_130842.2;PTPRN2,intron_variant,,ENST00000404321,;"	"T"	"ENSG00000155093"	"ENST00000389418"	"Transcript"	"intron_variant"	"-/4706"	"-/3048"	"-/1015"	""	""	""	"1"	NA	-1	"PTPRN2"	"HGNC"	9677	"protein_coding"	"YES"	"CCDS5947.1"	"ENSP00000374069"	"Q92932"	"Q9NSR5"	"UPI000002E7C7"	"NM_002847.3"	""	""	""	"11/22"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"772d0f8e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261363636363636	"WGS"	FALSE
"17491"	"CTD-2281E23.2"	0	"mskcc.org"	"GRCh37"	"8"	1150943	1150943	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.186-57908G>A"	""	""	"ENST00000520524"	""	86	"58"	28	65	"65"	0	"CTD-2281E23.2,intron_variant,,ENST00000520524,;"	"A"	"ENSG00000254269"	"ENST00000520524"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/381"	""	""	""	""	""	"1"	NA	1	"CTD-2281E23.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"1/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7730a84c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.325581395348837	"WGS"	FALSE
"17492"	"DLGAP2"	9228	"mskcc.org"	"GRCh37"	"8"	1579211	1579211	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1351-1782G>A"	""	""	"ENST00000421627"	""	79	"66"	13	57	"57"	0	"DLGAP2,intron_variant,,ENST00000421627,NM_004745.4,NM_001277161.1;DLGAP2,intron_variant,,ENST00000520901,;"	"A"	"ENSG00000198010"	"ENST00000421627"	"Transcript"	"intron_variant"	"-/10132"	"-/2928"	"-/975"	""	""	""	"1"	NA	1	"DLGAP2"	"HGNC"	2906	"protein_coding"	"YES"	"CCDS47760.1"	"ENSP00000400258"	"Q9P1A6"	""	"UPI000021BFBC"	"NM_004745.4,NM_001277161.1"	""	""	""	"4/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"7731a81e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164556962025316	"WGS"	FALSE
"17493"	"MYOM2"	9172	"mskcc.org"	"GRCh37"	"8"	2067877	2067877	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3453+2136G>A"	""	""	"ENST00000262113"	""	75	"59"	16	53	"53"	0	"MYOM2,intron_variant,,ENST00000262113,NM_003970.2;MYOM2,intron_variant,,ENST00000523438,;MYOM2,intron_variant,,ENST00000520072,;MYOM2,intron_variant,,ENST00000519631,;MYOM2,intron_variant,,ENST00000523443,;"	"A"	"ENSG00000036448"	"ENST00000262113"	"Transcript"	"intron_variant"	"-/5014"	"-/4398"	"-/1465"	""	""	""	"1"	NA	1	"MYOM2"	"HGNC"	7614	"protein_coding"	"YES"	"CCDS5957.1"	"ENSP00000262113"	"P54296"	"E7EWH9"	"UPI000013D260"	"NM_003970.2"	""	""	""	"28/36"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"77321fec-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.213333333333333	"WGS"	FALSE
"17494"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	3283961	3283961	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1562-16834G>T"	""	""	"ENST00000537824"	""	104	"75"	29	63	"63"	0	"CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;"	"A"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	""	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	""	""	""	"12/69"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7732c01e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278846153846154	"WGS"	FALSE
"17495"	"CSMD1"	64478	"mskcc.org"	"GRCh37"	"8"	4557416	4557416	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.86-62336C>T"	""	""	"ENST00000537824"	""	139	"111"	28	67	"67"	0	"CSMD1,intron_variant,,ENST00000520002,;CSMD1,intron_variant,,ENST00000602557,;CSMD1,intron_variant,,ENST00000400186,;CSMD1,intron_variant,,ENST00000602723,;CSMD1,intron_variant,,ENST00000537824,NM_033225.5;CSMD1,intron_variant,,ENST00000542608,;CSMD1,intron_variant,,ENST00000539096,;"	"A"	"ENSG00000183117"	"ENST00000537824"	"Transcript"	"intron_variant"	"-/10695"	"-/10695"	"-/3564"	""	""	""	"1"	NA	-1	"CSMD1"	"HGNC"	14026	"protein_coding"	"YES"	"CCDS55189.1"	"ENSP00000441462"	""	"F5GZ18"	"UPI0001B723C6"	"NM_033225.5"	""	""	""	"1/69"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7733482c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.201438848920863	"WGS"	FALSE
"17496"	"RP11-124B13.1"	0	"mskcc.org"	"GRCh37"	"8"	6079700	6079700	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.126+35233C>T"	""	""	"ENST00000519555"	""	91	"66"	25	65	"65"	0	"RP11-124B13.1,intron_variant,,ENST00000519555,;"	"A"	"ENSG00000253880"	"ENST00000519555"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/574"	""	""	""	""	""	"1"	NA	-1	"RP11-124B13.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"7733b136-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.274725274725275	"WGS"	FALSE
"17497"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	9300397	9300397	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	70	"58"	12	42	"42"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7734e5f6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171428571428571	"WGS"	FALSE
"17498"	"FAM66A"	100133172	"mskcc.org"	"GRCh37"	"8"	12223453	12223453	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.545-2295C>T"	""	""	"ENST00000525829"	""	84	"64"	20	62	"62"	0	"FAM66A,intron_variant,,ENST00000602658,;FAM66A,intron_variant,,ENST00000525829,;FAM66A,intron_variant,,ENST00000433621,;"	"T"	"ENSG00000227888"	"ENST00000525829"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/921"	""	""	""	""	""	"1"	NA	1	"FAM66A"	"HGNC"	30444	"processed_transcript"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"7735a2ac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238095238095238	"WGS"	FALSE
"17499"	"SGCZ"	137868	"mskcc.org"	"GRCh37"	"8"	14017315	14017315	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.547+4774G>A"	""	""	"ENST00000382080"	""	121	"98"	23	51	"51"	0	"SGCZ,intron_variant,,ENST00000382080,NM_139167.2;SGCZ,intron_variant,,ENST00000421524,;RP11-3G21.1,upstream_gene_variant,,ENST00000527110,;"	"T"	"ENSG00000185053"	"ENST00000382080"	"Transcript"	"intron_variant"	"-/2234"	"-/939"	"-/312"	""	""	""	"1"	NA	-1	"SGCZ"	"HGNC"	14075	"protein_coding"	"YES"	"CCDS5992.2"	"ENSP00000371512"	"Q96LD1"	""	"UPI00002339F6"	"NM_139167.2"	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"773651d4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.190082644628099	"WGS"	FALSE
"17500"	"SGCZ"	137868	"mskcc.org"	"GRCh37"	"8"	14569758	14569758	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.40-157323G>A"	""	""	"ENST00000382080"	""	106	"82"	24	62	"62"	0	"SGCZ,intron_variant,,ENST00000382080,NM_139167.2;"	"T"	"ENSG00000185053"	"ENST00000382080"	"Transcript"	"intron_variant"	"-/2234"	"-/939"	"-/312"	""	""	""	"1"	NA	-1	"SGCZ"	"HGNC"	14075	"protein_coding"	"YES"	"CCDS5992.2"	"ENSP00000371512"	"Q96LD1"	""	"UPI00002339F6"	"NM_139167.2"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"77366d86-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226415094339623	"WGS"	FALSE
"17501"	"SGCZ"	137868	"mskcc.org"	"GRCh37"	"8"	14695549	14695549	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.40-283114G>A"	""	""	"ENST00000382080"	""	118	"91"	27	63	"62"	1	"SGCZ,intron_variant,,ENST00000382080,NM_139167.2;"	"T"	"ENSG00000185053"	"ENST00000382080"	"Transcript"	"intron_variant"	"-/2234"	"-/939"	"-/312"	""	""	""	"1"	NA	-1	"SGCZ"	"HGNC"	14075	"protein_coding"	"YES"	"CCDS5992.2"	"ENSP00000371512"	"Q96LD1"	""	"UPI00002339F6"	"NM_139167.2"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"77367ab0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228813559322034	"WGS"	FALSE
"17502"	"SGCZ"	137868	"mskcc.org"	"GRCh37"	"8"	14697685	14697685	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.40-285250C>T"	""	""	"ENST00000382080"	""	125	"98"	27	53	"53"	0	"SGCZ,intron_variant,,ENST00000382080,NM_139167.2;"	"A"	"ENSG00000185053"	"ENST00000382080"	"Transcript"	"intron_variant"	"-/2234"	"-/939"	"-/312"	""	""	""	"1"	NA	-1	"SGCZ"	"HGNC"	14075	"protein_coding"	"YES"	"CCDS5992.2"	"ENSP00000371512"	"Q96LD1"	""	"UPI00002339F6"	"NM_139167.2"	""	""	""	"1/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"77367b64-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216	"WGS"	FALSE
"17503"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	18177126	18177126	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"89"	29	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"77375156-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245762711864407	"WGS"	FALSE
"17504"	"ATP6V1B2"	526	"mskcc.org"	"GRCh37"	"8"	20083887	20083887	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000276390"	""	85	"66"	19	56	"56"	0	"ATP6V1B2,downstream_gene_variant,,ENST00000276390,NM_001693.3;RNU6-892P,upstream_gene_variant,,ENST00000410335,;ATP6V1B2,intron_variant,,ENST00000521442,;ATP6V1B2,downstream_gene_variant,,ENST00000523482,;"	"A"	"ENSG00000147416"	"ENST00000276390"	"Transcript"	"downstream_gene_variant"	"-/2875"	"-/1536"	"-/511"	""	""	""	"1"	"4675"	1	"ATP6V1B2"	"HGNC"	854	"protein_coding"	"YES"	"CCDS6014.1"	"ENSP00000276390"	"P21281"	"B4DQI9,B4DFM5"	"UPI00001380AD"	"NM_001693.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGG"	"7737b4ca-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223529411764706	"WGS"	FALSE
"17505"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	20921596	20921596	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	95	"83"	12	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7737d5d6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.126315789473684	"WGS"	FALSE
"17506"	"PEBP4"	157310	"mskcc.org"	"GRCh37"	"8"	22580429	22580429	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.517+1927C>T"	""	""	"ENST00000256404"	""	82	"68"	14	46	"46"	0	"PEBP4,intron_variant,,ENST00000256404,NM_144962.2;RP11-459E5.1,intron_variant,,ENST00000523627,;"	"A"	"ENSG00000134020"	"ENST00000256404"	"Transcript"	"intron_variant"	"-/890"	"-/684"	"-/227"	""	""	""	"1"	NA	-1	"PEBP4"	"HGNC"	28319	"protein_coding"	"YES"	"CCDS43724.1"	"ENSP00000256404"	"Q96S96"	""	"UPI0000037788"	"NM_144962.2"	""	""	""	"6/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7738510a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.170731707317073	"WGS"	FALSE
"17507"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	23979996	23979996	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"87"	26	79	"79"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"77389322-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230088495575221	"WGS"	FALSE
"17508"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	24006003	24006003	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	123	"117"	6	68	"68"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"773896e2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0487804878048781	"WGS"	FALSE
"17509"	"RP11-624C23.1"	0	"mskcc.org"	"GRCh37"	"8"	24589402	24589402	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.184+152113C>T"	""	""	"ENST00000519689"	""	109	"83"	26	76	"76"	0	"RP11-624C23.1,intron_variant,,ENST00000519689,;"	"A"	"ENSG00000253535"	"ENST00000519689"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/651"	""	""	""	""	""	"1"	NA	-1	"RP11-624C23.1"	"Clone_based_vega_gene"	NA	"antisense"	""	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7738b44c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238532110091743	"WGS"	FALSE
"17510"	"DPYSL2"	1808	"mskcc.org"	"GRCh37"	"8"	26445040	26445040	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.313+3541A>C"	""	""	"ENST00000311151"	""	84	"60"	24	74	"74"	0	"DPYSL2,intron_variant,,ENST00000311151,NM_001386.5;DPYSL2,intron_variant,,ENST00000521913,NM_001197293.2;DPYSL2,intron_variant,,ENST00000523027,NM_001244604.1;DPYSL2,downstream_gene_variant,,ENST00000493789,;"	"C"	"ENSG00000092964"	"ENST00000311151"	"Transcript"	"intron_variant"	"-/4603"	"-/1719"	"-/572"	""	""	""	"1"	NA	1	"DPYSL2"	"HGNC"	3014	"protein_coding"	"YES"	"CCDS6051.1"	"ENSP00000309539"	"Q16555"	"Q8NAN9,A9CQZ2"	"UPI0000129864"	"NM_001386.5"	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"77391f90-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"17511"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	26567670	26567670	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"56"	11	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"773925da-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.164179104477612	"WGS"	FALSE
"17512"	"SCARA3"	51435	"mskcc.org"	"GRCh37"	"8"	27521584	27521584	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1369+4528C>T"	""	""	"ENST00000301904"	""	98	"80"	18	65	"65"	0	"SCARA3,intron_variant,,ENST00000301904,NM_016240.2;SCARA3,intron_variant,,ENST00000337221,NM_182826.1;"	"T"	"ENSG00000168077"	"ENST00000301904"	"Transcript"	"intron_variant"	"-/3510"	"-/1821"	"-/606"	""	""	""	"1"	NA	1	"SCARA3"	"HGNC"	19000	"protein_coding"	"YES"	"CCDS34871.1"	"ENSP00000301904"	"Q6AZY7"	""	"UPI00001B94D8"	"NM_016240.2"	""	""	""	"5/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"77396856-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.183673469387755	"WGS"	FALSE
"17513"	"NRG1"	3084	"mskcc.org"	"GRCh37"	"8"	32619388	32619388	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1283+1464C>G"	""	""	"ENST00000356819"	""	111	"90"	21	60	"60"	0	"NRG1,intron_variant,,ENST00000341377,NM_013964.3;NRG1,intron_variant,,ENST00000338921,;NRG1,intron_variant,,ENST00000356819,NM_013956.3,NM_001159999.1;NRG1,intron_variant,,ENST00000287845,;NRG1,intron_variant,,ENST00000523534,;NRG1,intron_variant,,ENST00000287842,NM_013957.3,NM_001160004.1;NRG1,intron_variant,,ENST00000405005,;NRG1,intron_variant,,ENST00000519301,NM_001160001.1;NRG1,intron_variant,,ENST00000521670,NM_013960.3;NRG1,intron_variant,,ENST00000539990,;NRG1,intron_variant,,ENST00000518104,NM_001159995.1;NRG1,downstream_gene_variant,,ENST00000523079,NM_001160008.1;RP11-1002K11.1,upstream_gene_variant,,ENST00000607314,;"	"G"	"ENSG00000157168"	"ENST00000356819"	"Transcript"	"intron_variant"	"-/3083"	"-/1938"	"-/645"	""	""	""	"1"	NA	1	"NRG1"	"HGNC"	7997	"protein_coding"	"YES"	"CCDS6083.1"	"ENSP00000349275"	"Q02297"	"Q7RTW5,B7Z168"	"UPI000013DED7"	"NM_013956.3,NM_001159999.1"	""	""	""	"12/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"773a9e92-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.189189189189189	"WGS"	TRUE
"17514"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	34994489	34994489	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	103	"77"	26	60	"60"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"773b0f1c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252427184466019	"WGS"	FALSE
"17515"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	34997610	34997610	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"81"	27	57	"57"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"773b0fd0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"17516"	"UNC5D"	137970	"mskcc.org"	"GRCh37"	"8"	35313828	35313828	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.104-92982G>T"	""	""	"ENST00000404895"	""	103	"80"	23	73	"73"	0	"UNC5D,intron_variant,,ENST00000287272,;UNC5D,intron_variant,,ENST00000416672,;UNC5D,intron_variant,,ENST00000404895,NM_080872.2;UNC5D,intron_variant,,ENST00000420357,;"	"T"	"ENSG00000156687"	"ENST00000404895"	"Transcript"	"intron_variant"	"-/3252"	"-/2862"	"-/953"	""	""	""	"1"	NA	1	"UNC5D"	"HGNC"	18634	"protein_coding"	"YES"	"CCDS6093.2"	"ENSP00000385143"	"Q6UXZ4"	""	"UPI00001D6915"	"NM_080872.2"	""	""	""	"1/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"773b2236-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223300970873786	"WGS"	FALSE
"17517"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	36941594	36941594	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	129	"113"	16	75	"75"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"773b65fc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.124031007751938	"WGS"	FALSE
"17518"	"CHRNA6"	8973	"mskcc.org"	"GRCh37"	"8"	42605256	42605256	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000276410"	""	57	"42"	15	41	"41"	0	"CHRNA6,downstream_gene_variant,,ENST00000276410,NM_004198.3;CHRNA6,downstream_gene_variant,,ENST00000534622,NM_001199279.1;"	"T"	"ENSG00000147434"	"ENST00000276410"	"Transcript"	"downstream_gene_variant"	"-/2400"	"-/1485"	"-/494"	""	""	""	"1"	"2507"	-1	"CHRNA6"	"HGNC"	15963	"protein_coding"	"YES"	"CCDS6135.1"	"ENSP00000276410"	"Q15825"	"E9PP97"	"UPI0000061DF6"	"NM_004198.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"773c8338-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"17519"	"RP11-1134I14.2"	0	"mskcc.org"	"GRCh37"	"8"	48054522	48054522	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.105-12363C>T"	""	""	"ENST00000509729"	""	79	"58"	21	52	"52"	0	"RP11-1134I14.2,intron_variant,,ENST00000509729,;"	"A"	"ENSG00000248347"	"ENST00000509729"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1474"	""	""	""	""	""	"1"	NA	-1	"RP11-1134I14.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"773edfac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.265822784810127	"WGS"	FALSE
"17520"	"UBE2V2"	7336	"mskcc.org"	"GRCh37"	"8"	48938414	48938414	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"rs551695315"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.17-17179T>C"	""	""	"ENST00000523111"	""	54	"49"	5	43	"43"	0	"UBE2V2,intron_variant,,ENST00000523111,NM_003350.2;UBE2V2,intron_variant,,ENST00000521346,;UBE2V2,intron_variant,,ENST00000523432,;UBE2V2,intron_variant,,ENST00000517630,;UBE2V2,intron_variant,,ENST00000518360,;"	"C"	"ENSG00000169139"	"ENST00000523111"	"Transcript"	"intron_variant"	"-/4373"	"-/438"	"-/145"	""	""	"rs551695315"	"1"	NA	1	"UBE2V2"	"HGNC"	12495	"protein_coding"	"YES"	"CCDS43738.1"	"ENSP00000428209"	"Q15819"	"G3V113,A0M8W4"	"UPI000006FD5B"	"NM_003350.2"	""	""	""	"1/3"	""	"C:0.0010"	"C:0"	"C:0"	NA	"C:0"	"C:0"	"C:0.0051"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"773f061c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0925925925925926	"WGS"	FALSE
"17521"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	49188887	49188887	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"89"	17	66	"66"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"773f15bc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.160377358490566	"WGS"	FALSE
"17522"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	50303648	50303648	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"69"	22	76	"76"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"773f4488-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241758241758242	"WGS"	FALSE
"17523"	"SNTG1"	54212	"mskcc.org"	"GRCh37"	"8"	51077753	51077753	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-102-7368G>A"	""	""	"ENST00000522124"	""	92	"73"	19	53	"53"	0	"SNTG1,intron_variant,,ENST00000522124,NM_018967.2,NM_001287813.1;SNTG1,intron_variant,,ENST00000518864,;SNTG1,intron_variant,,ENST00000517473,NM_001287814.1;SNTG1,intron_variant,,ENST00000523085,;SNTG1,intron_variant,,ENST00000521316,;SNTG1,downstream_gene_variant,,ENST00000520697,;"	"A"	"ENSG00000147481"	"ENST00000522124"	"Transcript"	"intron_variant"	"-/3504"	"-/1554"	"-/517"	""	""	""	"1"	NA	1	"SNTG1"	"HGNC"	13740	"protein_coding"	"YES"	"CCDS6147.1"	"ENSP00000429842"	"Q9NSN8"	"E5RIN0"	"UPI000004A0DD"	"NM_018967.2,NM_001287813.1"	""	""	""	"1/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"773f6b98-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206521739130435	"WGS"	FALSE
"17524"	"SNTG1"	54212	"mskcc.org"	"GRCh37"	"8"	51217550	51217550	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-27-89222C>T"	""	""	"ENST00000522124"	""	106	"95"	11	77	"77"	0	"SNTG1,intron_variant,,ENST00000522124,NM_018967.2,NM_001287813.1;SNTG1,intron_variant,,ENST00000518864,;SNTG1,intron_variant,,ENST00000517473,NM_001287814.1;SNTG1,intron_variant,,ENST00000523085,;SNTG1,intron_variant,,ENST00000520825,;"	"T"	"ENSG00000147481"	"ENST00000522124"	"Transcript"	"intron_variant"	"-/3504"	"-/1554"	"-/517"	""	""	""	"1"	NA	1	"SNTG1"	"HGNC"	13740	"protein_coding"	"YES"	"CCDS6147.1"	"ENSP00000429842"	"Q9NSN8"	"E5RIN0"	"UPI000004A0DD"	"NM_018967.2,NM_001287813.1"	""	""	""	"2/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"773f7462-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10377358490566	"WGS"	FALSE
"17525"	"SNTG1"	54212	"mskcc.org"	"GRCh37"	"8"	51693902	51693902	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1396-11329T>A"	""	""	"ENST00000522124"	""	123	"92"	31	52	"52"	0	"SNTG1,intron_variant,,ENST00000522124,NM_018967.2,NM_001287813.1;SNTG1,intron_variant,,ENST00000518864,;SNTG1,intron_variant,,ENST00000517473,NM_001287814.1;SNTG1,intron_variant,,ENST00000276467,;SNTG1,intron_variant,,ENST00000520825,;"	"A"	"ENSG00000147481"	"ENST00000522124"	"Transcript"	"intron_variant"	"-/3504"	"-/1554"	"-/517"	""	""	""	"1"	NA	1	"SNTG1"	"HGNC"	13740	"protein_coding"	"YES"	"CCDS6147.1"	"ENSP00000429842"	"Q9NSN8"	"E5RIN0"	"UPI000004A0DD"	"NM_018967.2,NM_001287813.1"	""	""	""	"18/18"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"773f958c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252032520325203	"WGS"	FALSE
"17526"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	51832142	51832142	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	105	"86"	19	67	"67"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"773f979e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.180952380952381	"WGS"	FALSE
"17527"	"ST18"	9705	"mskcc.org"	"GRCh37"	"8"	53126589	53126589	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.55+174G>C"	""	""	"ENST00000276480"	""	98	"79"	19	56	"56"	0	"ST18,intron_variant,,ENST00000276480,NM_014682.2;ST18,intron_variant,,ENST00000517580,;ST18,downstream_gene_variant,,ENST00000519118,;ST18,intron_variant,,ENST00000521549,;ST18,intron_variant,,ENST00000517456,;ST18,intron_variant,,ENST00000518037,;ST18,intron_variant,,ENST00000520257,;ST18,downstream_gene_variant,,ENST00000518545,;ST18,intron_variant,,ENST00000522251,;ST18,intron_variant,,ENST00000521582,;ST18,intron_variant,,ENST00000521824,;"	"G"	"ENSG00000147488"	"ENST00000276480"	"Transcript"	"intron_variant"	"-/6187"	"-/3144"	"-/1047"	""	""	""	"1"	NA	-1	"ST18"	"HGNC"	18695	"protein_coding"	"YES"	"CCDS6149.1"	"ENSP00000276480"	"O60284"	"E5RHS3"	"UPI0000046C30"	"NM_014682.2"	""	""	""	"7/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"773fdb64-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.193877551020408	"WGS"	FALSE
"17528"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	54038890	54038890	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"88"	22	73	"73"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"77400d00-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"17529"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	55139401	55139401	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	82	"67"	15	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7740374e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.182926829268293	"WGS"	FALSE
"17530"	"XKR4"	114786	"mskcc.org"	"GRCh37"	"8"	56295469	56295469	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1006+25032G>A"	""	""	"ENST00000327381"	""	117	"94"	23	69	"69"	0	"XKR4,intron_variant,,ENST00000327381,NM_052898.1;"	"A"	"ENSG00000206579"	"ENST00000327381"	"Transcript"	"intron_variant"	"-/19880"	"-/1953"	"-/650"	""	""	""	"1"	NA	1	"XKR4"	"HGNC"	29394	"protein_coding"	"YES"	"CCDS34893.1"	"ENSP00000328326"	"Q5GH76"	""	"UPI000016098C"	"NM_052898.1"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"77407d26-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196581196581197	"WGS"	FALSE
"17531"	"TOX"	9760	"mskcc.org"	"GRCh37"	"8"	59977632	59977632	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.102+53813T>A"	""	""	"ENST00000361421"	""	116	"99"	17	59	"59"	0	"TOX,intron_variant,,ENST00000361421,NM_014729.2;"	"T"	"ENSG00000198846"	"ENST00000361421"	"Transcript"	"intron_variant"	"-/4131"	"-/1581"	"-/526"	""	""	""	"1"	NA	-1	"TOX"	"HGNC"	18988	"protein_coding"	"YES"	"CCDS34897.1"	"ENSP00000354842"	"O94900"	"B4DYA1"	"UPI0000070A73"	"NM_014729.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"77412b86-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146551724137931	"WGS"	FALSE
"17532"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	60590628	60590628	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	134	"97"	37	53	"53"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7741460c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276119402985075	"WGS"	FALSE
"17533"	"NKAIN3"	286183	"mskcc.org"	"GRCh37"	"8"	63570574	63570574	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.273+68221C>T"	""	""	"ENST00000523211"	""	123	"100"	23	66	"66"	0	"NKAIN3,intron_variant,,ENST00000523211,NM_173688.2;NKAIN3,intron_variant,,ENST00000328472,;NKAIN3,intron_variant,,ENST00000524201,;NKAIN3,intron_variant,,ENST00000519049,;NKAIN3,intron_variant,,ENST00000523367,;"	"T"	"ENSG00000185942"	"ENST00000523211"	"Transcript"	"intron_variant"	"-/1988"	"-/594"	"-/197"	""	""	""	"1"	NA	1	"NKAIN3"	"HGNC"	26829	"protein_coding"	"YES"	"CCDS55239.1"	"ENSP00000429073"	"Q8N8D7"	""	"UPI000006F596"	"NM_173688.2"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"7742213a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.186991869918699	"WGS"	FALSE
"17534"	"TTPA"	7274	"mskcc.org"	"GRCh37"	"8"	63957514	63957514	"+"	"3'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000521138"	""	95	"67"	28	61	"61"	0	"TTPA,downstream_gene_variant,,ENST00000521138,;"	"A"	"ENSG00000137561"	"ENST00000521138"	"Transcript"	"downstream_gene_variant"	"-/283"	""	""	""	""	""	"1"	"3598"	-1	"TTPA"	"HGNC"	12404	"processed_transcript"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTT"	"774232a6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294736842105263	"WGS"	FALSE
"17535"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	64437686	64437686	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"81"	9	53	"53"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"774245c0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"17536"	"RP11-32K4.1"	0	"mskcc.org"	"GRCh37"	"8"	64843380	64843380	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.196-35274A>T"	""	""	"ENST00000524360"	""	130	"102"	28	68	"68"	0	"RP11-32K4.1,intron_variant,,ENST00000524360,;RP11-32K4.1,intron_variant,,ENST00000521958,;RP11-32K4.1,intron_variant,,ENST00000523191,;"	"A"	"ENSG00000253554"	"ENST00000524360"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/581"	""	""	""	""	""	"1"	NA	-1	"RP11-32K4.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"77425902-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215384615384615	"WGS"	FALSE
"17537"	"RP11-32K4.1"	0	"mskcc.org"	"GRCh37"	"8"	65068284	65068284	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.129-22213G>A"	""	""	"ENST00000524360"	""	121	"101"	20	71	"71"	0	"RP11-32K4.1,intron_variant,,ENST00000524360,;RP11-32K4.1,intron_variant,,ENST00000521958,;RP11-32K4.1,intron_variant,,ENST00000523191,;RP11-32K4.1,intron_variant,,ENST00000520365,;"	"T"	"ENSG00000253554"	"ENST00000524360"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/581"	""	""	""	""	""	"1"	NA	-1	"RP11-32K4.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"77426668-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.165289256198347	"WGS"	FALSE
"17538"	"MCMDC2"	157777	"mskcc.org"	"GRCh37"	"8"	67782855	67782855	"+"	"5'Flank"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000422365"	""	61	"44"	17	45	"45"	0	"MCMDC2,upstream_gene_variant,,ENST00000422365,NM_173518.4;MCMDC2,upstream_gene_variant,,ENST00000541540,;MCMDC2,upstream_gene_variant,,ENST00000396592,NM_001136161.1;MCMDC2,upstream_gene_variant,,ENST00000313616,NM_001136160.1;MCMDC2,upstream_gene_variant,,ENST00000492775,;MCMDC2,upstream_gene_variant,,ENST00000469823,;MCMDC2,upstream_gene_variant,,ENST00000415737,;MCMDC2,upstream_gene_variant,,ENST00000428734,;"	"A"	"ENSG00000178460"	"ENST00000422365"	"Transcript"	"upstream_gene_variant"	"-/5096"	"-/2046"	"-/681"	""	""	""	"1"	"129"	1	"MCMDC2"	"HGNC"	26368	"protein_coding"	"YES"	"CCDS6197.2"	"ENSP00000413632"	"Q4G0Z9"	""	"UPI00002107AF"	"NM_173518.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7742e66a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.278688524590164	"WGS"	FALSE
"17539"	"C8orf34"	116328	"mskcc.org"	"GRCh37"	"8"	69603681	69603681	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1242-17548C>T"	""	""	"ENST00000518698"	""	115	"91"	24	61	"61"	0	"C8orf34,intron_variant,,ENST00000337103,;C8orf34,intron_variant,,ENST00000325233,;C8orf34,intron_variant,,ENST00000518698,NM_052958.2;C8orf34,intron_variant,,ENST00000539993,;RNA5SP269,upstream_gene_variant,,ENST00000459032,;C8orf34,intron_variant,,ENST00000518515,;C8orf34,intron_variant,,ENST00000521406,;"	"T"	"ENSG00000165084"	"ENST00000518698"	"Transcript"	"intron_variant"	"-/2223"	"-/1617"	"-/538"	""	""	""	"1"	NA	1	"C8orf34"	"HGNC"	30905	"protein_coding"	"YES"	"CCDS6203.2"	"ENSP00000427820"	"Q49A92"	""	"UPI000021D12D"	"NM_052958.2"	""	""	""	"8/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"774352e4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208695652173913	"WGS"	FALSE
"17540"	"C8orf34"	116328	"mskcc.org"	"GRCh37"	"8"	69706845	69706845	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1549+7074T>A"	""	""	"ENST00000518698"	""	88	"83"	5	61	"61"	0	"C8orf34,intron_variant,,ENST00000337103,;C8orf34,intron_variant,,ENST00000518698,NM_052958.2;C8orf34,intron_variant,,ENST00000539993,;C8orf34,downstream_gene_variant,,ENST00000325233,;C8orf34,intron_variant,,ENST00000521406,;"	"A"	"ENSG00000165084"	"ENST00000518698"	"Transcript"	"intron_variant"	"-/2223"	"-/1617"	"-/538"	""	""	""	"1"	NA	1	"C8orf34"	"HGNC"	30905	"protein_coding"	"YES"	"CCDS6203.2"	"ENSP00000427820"	"Q49A92"	""	"UPI000021D12D"	"NM_052958.2"	""	""	""	"12/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"77435dde-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0568181818181818	"WGS"	FALSE
"17541"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	70036084	70036084	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	98	"91"	7	75	"75"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"774379fe-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"17542"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	70370817	70370817	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"rs373924473"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	86	"81"	5	56	"56"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs373924473"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"77438930-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0581395348837209	"WGS"	FALSE
"17543"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	70883284	70883284	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"44"	7	33	"33"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7743a33e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137254901960784	"WGS"	FALSE
"17544"	"KCNB2"	9312	"mskcc.org"	"GRCh37"	"8"	73569266	73569266	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.579+88718A>T"	""	""	"ENST00000523207"	""	107	"79"	28	72	"72"	0	"KCNB2,intron_variant,,ENST00000523207,NM_004770.2;"	"T"	"ENSG00000182674"	"ENST00000523207"	"Transcript"	"intron_variant"	"-/3582"	"-/2736"	"-/911"	""	""	""	"1"	NA	1	"KCNB2"	"HGNC"	6232	"protein_coding"	"YES"	"CCDS6209.1"	"ENSP00000430846"	"Q92953"	""	"UPI000012DC85"	"NM_004770.2"	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"77442dfe-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.261682242990654	"WGS"	FALSE
"17545"	"CASC9"	101805492	"mskcc.org"	"GRCh37"	"8"	76241781	76241781	"+"	"5'Flank"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000522183"	""	77	"61"	16	66	"66"	0	"CASC9,upstream_gene_variant,,ENST00000522183,;"	"C"	"ENSG00000249395"	"ENST00000522183"	"Transcript"	"upstream_gene_variant"	"-/833"	""	""	""	""	""	"1"	"4805"	-1	"CASC9"	"HGNC"	48906	"lincRNA"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7744cb1a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207792207792208	"WGS"	FALSE
"17546"	"CASC9"	101805492	"mskcc.org"	"GRCh37"	"8"	76241782	76241782	"+"	"5'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000522183"	""	81	"64"	17	67	"67"	0	"CASC9,upstream_gene_variant,,ENST00000522183,;"	"T"	"ENSG00000249395"	"ENST00000522183"	"Transcript"	"upstream_gene_variant"	"-/833"	""	""	""	""	""	"1"	"4806"	-1	"CASC9"	"HGNC"	48906	"lincRNA"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7744cbc4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.209876543209877	"WGS"	FALSE
"17547"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	76686504	76686504	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	100	"87"	13	62	"62"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"7744eb54-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.13	"WGS"	FALSE
"17548"	"ZFHX4"	79776	"mskcc.org"	"GRCh37"	"8"	77640965	77640965	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3093+20682T>A"	""	""	"ENST00000521891"	""	118	"99"	19	69	"69"	0	"ZFHX4,intron_variant,,ENST00000521891,NM_024721.4;ZFHX4,intron_variant,,ENST00000455469,;ZFHX4,intron_variant,,ENST00000518282,;ZFHX4,intron_variant,,ENST00000050961,;ZFHX4,intron_variant,,ENST00000517683,;"	"A"	"ENSG00000091656"	"ENST00000521891"	"Transcript"	"intron_variant"	"-/14019"	"-/10851"	"-/3616"	""	""	""	"1"	NA	1	"ZFHX4"	"HGNC"	30939	"protein_coding"	"YES"	"CCDS47878.2"	"ENSP00000430497"	""	"Q9H7F3,Q86WW5,Q6DK57,G3V138,E5RI93,E5RHS1,E5RGK3,E5RG79"	"UPI0000424CC7"	"NM_024721.4"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"77451a7a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.161016949152542	"WGS"	FALSE
"17549"	"ZFHX4"	79776	"mskcc.org"	"GRCh37"	"8"	77705533	77705533	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs764206898"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3325+14858G>A"	""	""	"ENST00000521891"	""	141	"113"	28	67	"67"	0	"ZFHX4,intron_variant,,ENST00000521891,NM_024721.4;ZFHX4,intron_variant,,ENST00000455469,;ZFHX4,intron_variant,,ENST00000518282,;ZFHX4,intron_variant,,ENST00000050961,;ZFHX4,intron_variant,,ENST00000523625,;ZFHX4,intron_variant,,ENST00000519536,;ZFHX4,intron_variant,,ENST00000524290,;"	"A"	"ENSG00000091656"	"ENST00000521891"	"Transcript"	"intron_variant"	"-/14019"	"-/10851"	"-/3616"	""	""	"rs764206898"	"1"	NA	1	"ZFHX4"	"HGNC"	30939	"protein_coding"	"YES"	"CCDS47878.2"	"ENSP00000430497"	""	"Q9H7F3,Q86WW5,Q6DK57,G3V138,E5RI93,E5RHS1,E5RGK3,E5RG79"	"UPI0000424CC7"	"NM_024721.4"	""	""	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"77451d36-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.198581560283688	"WGS"	FALSE
"17550"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	78117237	78117237	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"91"	29	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"774532da-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241666666666667	"WGS"	FALSE
"17551"	"ZNF704"	619279	"mskcc.org"	"GRCh37"	"8"	81745375	81745375	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-21-11525C>G"	""	""	"ENST00000327835"	""	103	"97"	6	71	"71"	0	"ZNF704,intron_variant,,ENST00000327835,NM_001033723.2;ZNF704,intron_variant,,ENST00000519936,;"	"C"	"ENSG00000164684"	"ENST00000327835"	"Transcript"	"intron_variant"	"-/14386"	"-/1239"	"-/412"	""	""	""	"1"	NA	-1	"ZNF704"	"HGNC"	32291	"protein_coding"	"YES"	"CCDS34913.1"	"ENSP00000331462"	"Q6ZNC4"	"E5RGL7"	"UPI000035E754"	"NM_001033723.2"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7745ca06-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.058252427184466	"WGS"	FALSE
"17552"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	83408027	83408027	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"rs746268870"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	90	"73"	17	65	"65"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs746268870"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"7746221c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.188888888888889	"WGS"	FALSE
"17553"	"RP11-731N10.1"	0	"mskcc.org"	"GRCh37"	"8"	83814786	83814786	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.130+14256C>G"	""	""	"ENST00000522123"	""	125	"98"	27	72	"72"	0	"RP11-731N10.1,intron_variant,,ENST00000522123,;"	"C"	"ENSG00000253836"	"ENST00000522123"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/814"	""	""	""	""	""	"1"	NA	-1	"RP11-731N10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"774637e8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216	"WGS"	FALSE
"17554"	"RP11-731N10.1"	0	"mskcc.org"	"GRCh37"	"8"	83816128	83816128	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.130+12914C>A"	""	""	"ENST00000522123"	""	122	"112"	10	70	"70"	0	"RP11-731N10.1,intron_variant,,ENST00000522123,;"	"T"	"ENSG00000253836"	"ENST00000522123"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/814"	""	""	""	""	""	"1"	NA	-1	"RP11-731N10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"77463892-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0819672131147541	"WGS"	FALSE
"17555"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	84412530	84412530	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	128	"92"	36	70	"70"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"77465246-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28125	"WGS"	FALSE
"17556"	"RALYL"	138046	"mskcc.org"	"GRCh37"	"8"	85114198	85114198	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.16+16949T>G"	""	""	"ENST00000517638"	""	112	"79"	33	91	"91"	0	"RALYL,intron_variant,,ENST00000521268,NM_173848.5;RALYL,intron_variant,,ENST00000518566,NM_001287243.1;RALYL,intron_variant,,ENST00000522455,NM_001100392.1;RALYL,intron_variant,,ENST00000517638,NM_001100391.1;RALYL,intron_variant,,ENST00000521695,NM_001100393.1;RALYL,intron_variant,,ENST00000522613,;RALYL,intron_variant,,ENST00000517988,;RALYL,intron_variant,,ENST00000522647,;"	"G"	"ENSG00000184672"	"ENST00000517638"	"Transcript"	"intron_variant"	"-/1972"	"-/915"	"-/304"	""	""	""	"1"	NA	1	"RALYL"	"HGNC"	27036	"protein_coding"	"YES"	"CCDS55252.1"	"ENSP00000430128"	""	"G3V129,E5RIX9,E5RG71"	"UPI00002108E6"	"NM_001100391.1"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"7746741a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.294642857142857	"WGS"	FALSE
"17557"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	89889598	89889598	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"80"	32	82	"82"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"77480dc0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.285714285714286	"WGS"	FALSE
"17558"	"LINC00535"	642924	"mskcc.org"	"GRCh37"	"8"	94411537	94411537	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1134-8086G>A"	""	""	"ENST00000501400"	""	108	"89"	19	62	"62"	0	"LINC00535,intron_variant,,ENST00000501400,;LINC00535,intron_variant,,ENST00000520096,;"	"T"	"ENSG00000246662"	"ENST00000501400"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1914"	""	""	""	""	""	"1"	NA	-1	"LINC00535"	"HGNC"	43644	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"7/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"7748dca0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175925925925926	"WGS"	FALSE
"17559"	"GDF6"	392255	"mskcc.org"	"GRCh37"	"8"	97175224	97175224	"+"	"5'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000287020"	""	116	"108"	8	65	"65"	0	"GDF6,upstream_gene_variant,,ENST00000287020,NM_001001557.2;"	"C"	"ENSG00000156466"	"ENST00000287020"	"Transcript"	"upstream_gene_variant"	"-/3697"	"-/1368"	"-/455"	""	""	""	"1"	"2204"	-1	"GDF6"	"HGNC"	4221	"protein_coding"	"YES"	"CCDS34926.1"	"ENSP00000287020"	"Q6KF10"	"M1L5L6,M1L0V3"	"UPI0000047253"	"NM_001001557.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAA"	"77497b56-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0689655172413793	"WGS"	FALSE
"17560"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	98174027	98174027	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	114	"104"	10	60	"60"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"7749af54-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.087719298245614	"WGS"	FALSE
"17561"	"TSPYL5"	85453	"mskcc.org"	"GRCh37"	"8"	98291421	98291421	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000322128"	""	94	"71"	23	57	"57"	0	"TSPYL5,upstream_gene_variant,,ENST00000322128,NM_033512.2;"	"A"	"ENSG00000180543"	"ENST00000322128"	"Transcript"	"upstream_gene_variant"	"-/4460"	"-/1254"	"-/417"	""	""	""	"1"	"1245"	-1	"TSPYL5"	"HGNC"	29367	"protein_coding"	"YES"	"CCDS34927.1"	"ENSP00000322802"	"Q86VY4"	""	"UPI0000210364"	"NM_033512.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7749b670-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24468085106383	"WGS"	FALSE
"17562"	"NIPAL2"	79815	"mskcc.org"	"GRCh37"	"8"	99231109	99231109	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.558+3598C>T"	""	""	"ENST00000341166"	""	88	"78"	10	47	"47"	0	"NIPAL2,intron_variant,,ENST00000341166,NM_024759.1;NIPAL2,intron_variant,,ENST00000430223,;NIPAL2,intron_variant,,ENST00000520545,;NIPAL2,intron_variant,,ENST00000522188,;NIPAL2,intron_variant,,ENST00000520735,;"	"A"	"ENSG00000104361"	"ENST00000341166"	"Transcript"	"intron_variant"	"-/4581"	"-/1107"	"-/368"	""	""	""	"1"	NA	-1	"NIPAL2"	"HGNC"	25854	"protein_coding"	"YES"	"CCDS6278.1"	"ENSP00000339256"	"Q9H841"	""	"UPI000007089C"	"NM_024759.1"	""	""	""	"5/11"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7749eeba-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WGS"	FALSE
"17563"	"KCNS2"	3788	"mskcc.org"	"GRCh37"	"8"	99436928	99436928	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000287042"	""	104	"81"	23	79	"79"	0	"KCNS2,upstream_gene_variant,,ENST00000287042,NM_020697.2;KCNS2,upstream_gene_variant,,ENST00000521839,;STK3,intron_variant,,ENST00000517832,;"	"A"	"ENSG00000156486"	"ENST00000287042"	"Transcript"	"upstream_gene_variant"	"-/5219"	"-/1434"	"-/477"	""	""	""	"1"	"2322"	1	"KCNS2"	"HGNC"	6301	"protein_coding"	"YES"	"CCDS6279.1"	"ENSP00000287042"	"Q9ULS6"	""	"UPI0000001653"	"NM_020697.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGG"	"7749f70c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.221153846153846	"WGS"	FALSE
"17564"	"KB-173C10.1"	0	"mskcc.org"	"GRCh37"	"8"	101447611	101447611	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000523554"	""	70	"63"	7	61	"61"	0	"KB-173C10.1,upstream_gene_variant,,ENST00000523554,;KB-173C10.1,upstream_gene_variant,,ENST00000522947,;"	"A"	"ENSG00000253842"	"ENST00000523554"	"Transcript"	"upstream_gene_variant"	"-/639"	""	""	""	""	""	"1"	"4715"	-1	"KB-173C10.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"774a7006-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"17565"	"SNX31"	169166	"mskcc.org"	"GRCh37"	"8"	101644260	101644260	"+"	"Intron"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.257-1641T>G"	""	""	"ENST00000311812"	""	64	"53"	11	53	"53"	0	"SNX31,intron_variant,,ENST00000311812,NM_152628.3;SNX31,intron_variant,,ENST00000520352,;SNX31,intron_variant,,ENST00000520661,;SNX31,downstream_gene_variant,,ENST00000520743,;"	"C"	"ENSG00000174226"	"ENST00000311812"	"Transcript"	"intron_variant"	"-/2451"	"-/1323"	"-/440"	""	""	""	"1"	NA	-1	"SNX31"	"HGNC"	28605	"protein_coding"	"YES"	"CCDS6288.1"	"ENSP00000312368"	"Q8N9S9"	"E5RJK2"	"UPI000004A790"	"NM_152628.3"	""	""	""	"3/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"774a761e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.171875	"WGS"	FALSE
"17566"	"KB-1930G5.3"	0	"mskcc.org"	"GRCh37"	"8"	102403085	102403085	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.157+47C>T"	""	""	"ENST00000518612"	""	93	"69"	24	63	"63"	0	"KB-1930G5.3,intron_variant,,ENST00000518612,;"	"A"	"ENSG00000253644"	"ENST00000518612"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/408"	""	""	""	""	""	"1"	NA	-1	"KB-1930G5.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"774aac2e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258064516129032	"WGS"	FALSE
"17567"	"RIMS2"	9699	"mskcc.org"	"GRCh37"	"8"	104701674	104701674	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.177-7640A>T"	""	""	"ENST00000406091"	""	122	"91"	31	74	"74"	0	"RIMS2,intron_variant,,ENST00000406091,NM_001100117.2;RIMS2,intron_variant,,ENST00000504942,;"	"T"	"ENSG00000176406"	"ENST00000406091"	"Transcript"	"intron_variant"	"-/4050"	"-/4050"	"-/1349"	""	""	""	"1"	NA	1	"RIMS2"	"HGNC"	17283	"protein_coding"	"YES"	"CCDS55269.1"	"ENSP00000384892"	"Q9UQ26"	"E9PFB6"	"UPI0001597063"	"NM_001100117.2"	""	""	""	"1/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"774b1fc4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254098360655738	"WGS"	FALSE
"17568"	"RP11-127H5.1"	0	"mskcc.org"	"GRCh37"	"8"	105829746	105829746	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.7-9839G>T"	""	""	"ENST00000521923"	""	114	"99"	15	72	"72"	0	"RP11-127H5.1,intron_variant,,ENST00000521923,;RP11-127H5.1,intron_variant,,ENST00000518180,;"	"T"	"ENSG00000253350"	"ENST00000521923"	"Transcript"	"intron_variant"	"-/720"	"-/294"	"-/97"	""	""	""	"1"	NA	1	"RP11-127H5.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000427891"	""	"E5RFX5"	"UPI0001E8F5B4"	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"774b5962-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.131578947368421	"WGS"	FALSE
"17569"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	107837994	107837994	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"74"	10	46	"46"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"774bc1e0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"17570"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	112795918	112795918	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	146	"139"	7	75	"75"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"774cb4ba-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0479452054794521	"WGS"	FALSE
"17571"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	113197759	113197759	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"96"	15	76	"76"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"774cc2c0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.135135135135135	"WGS"	FALSE
"17572"	"CSMD3"	114788	"mskcc.org"	"GRCh37"	"8"	113664988	113664988	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3005-2410A>T"	""	""	"ENST00000297405"	""	108	"83"	25	76	"76"	0	"CSMD3,intron_variant,,ENST00000297405,NM_198123.1;CSMD3,intron_variant,,ENST00000343508,NM_198124.1;CSMD3,intron_variant,,ENST00000352409,;CSMD3,intron_variant,,ENST00000455883,NM_052900.2;CSMD3,intron_variant,,ENST00000339701,;"	"A"	"ENSG00000164796"	"ENST00000297405"	"Transcript"	"intron_variant"	"-/13212"	"-/11124"	"-/3707"	""	""	""	"1"	NA	-1	"CSMD3"	"HGNC"	19291	"protein_coding"	"YES"	"CCDS6315.1"	"ENSP00000297405"	"Q7Z407"	""	"UPI00001E0584"	"NM_198123.1"	""	""	""	"18/70"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"774ce1ba-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.231481481481481	"WGS"	FALSE
"17573"	"CSMD3"	114788	"mskcc.org"	"GRCh37"	"8"	114232558	114232558	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.515-46413G>C"	""	""	"ENST00000297405"	""	105	"94"	11	76	"76"	0	"CSMD3,intron_variant,,ENST00000297405,NM_198123.1;CSMD3,intron_variant,,ENST00000343508,NM_198124.1;CSMD3,intron_variant,,ENST00000352409,;CSMD3,intron_variant,,ENST00000455883,NM_052900.2;CSMD3,intron_variant,,ENST00000497026,;"	"G"	"ENSG00000164796"	"ENST00000297405"	"Transcript"	"intron_variant"	"-/13212"	"-/11124"	"-/3707"	""	""	""	"1"	NA	-1	"CSMD3"	"HGNC"	19291	"protein_coding"	"YES"	"CCDS6315.1"	"ENSP00000297405"	"Q7Z407"	""	"UPI00001E0584"	"NM_198123.1"	""	""	""	"3/70"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"774d000a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.104761904761905	"WGS"	FALSE
"17574"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	114980777	114980777	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	154	"117"	37	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"774d1e8c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24025974025974	"WGS"	FALSE
"17575"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	118517902	118517902	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	91	"70"	21	68	"67"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"774dc904-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.230769230769231	"WGS"	FALSE
"17576"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	129650604	129650604	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"105"	13	47	"47"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"774ff0ee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.110169491525424	"WGS"	FALSE
"17577"	"KCNQ3"	3786	"mskcc.org"	"GRCh37"	"8"	133247611	133247611	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.387-49183C>A"	""	""	"ENST00000388996"	""	105	"82"	23	62	"62"	0	"KCNQ3,intron_variant,,ENST00000388996,NM_004519.3;KCNQ3,intron_variant,,ENST00000519445,;KCNQ3,intron_variant,,ENST00000521134,NM_001204824.1;KCNQ3,intron_variant,,ENST00000519589,;"	"T"	"ENSG00000184156"	"ENST00000388996"	"Transcript"	"intron_variant"	"-/11441"	"-/2619"	"-/872"	""	""	""	"1"	NA	-1	"KCNQ3"	"HGNC"	6297	"protein_coding"	"YES"	"CCDS34943.1"	"ENSP00000373648"	"O43525"	""	"UPI00001279F0"	"NM_004519.3"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"77509ae4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.219047619047619	"WGS"	FALSE
"17578"	"KCNQ3"	3786	"mskcc.org"	"GRCh37"	"8"	133346577	133346577	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.386+145817T>A"	""	""	"ENST00000388996"	""	77	"60"	17	56	"56"	0	"KCNQ3,intron_variant,,ENST00000388996,NM_004519.3;KCNQ3,intron_variant,,ENST00000519445,;KCNQ3,intron_variant,,ENST00000521134,NM_001204824.1;KCNQ3,intron_variant,,ENST00000519589,;"	"T"	"ENSG00000184156"	"ENST00000388996"	"Transcript"	"intron_variant"	"-/11441"	"-/2619"	"-/872"	""	""	""	"1"	NA	-1	"KCNQ3"	"HGNC"	6297	"protein_coding"	"YES"	"CCDS34943.1"	"ENSP00000373648"	"O43525"	""	"UPI00001279F0"	"NM_004519.3"	""	""	""	"1/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAG"	"77509b98-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.220779220779221	"WGS"	FALSE
"17579"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	135412011	135412011	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"86"	22	57	"57"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"77512914-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203703703703704	"WGS"	FALSE
"17580"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	138530054	138530054	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	83	"66"	17	58	"58"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7751eab6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204819277108434	"WGS"	FALSE
"17581"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	140267560	140267560	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	106	"83"	23	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"7752afc8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216981132075472	"WGS"	FALSE
"17582"	"TRAPPC9"	83696	"mskcc.org"	"GRCh37"	"8"	141206148	141206148	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"rs55688861"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2850+25410A>G"	""	""	"ENST00000389328"	""	47	"35"	12	33	"33"	0	"TRAPPC9,intron_variant,,ENST00000389328,NM_031466.5;TRAPPC9,intron_variant,,ENST00000438773,NM_001160372.1;TRAPPC9,intron_variant,,ENST00000389327,;TRAPPC9,intron_variant,,ENST00000520857,;TRAPPC9,intron_variant,,ENST00000521667,;TRAPPC9,intron_variant,,ENST00000520532,;TRAPPC9,intron_variant,,ENST00000517667,;"	"C"	"ENSG00000167632"	"ENST00000389328"	"Transcript"	"intron_variant"	"-/4474"	"-/3741"	"-/1246"	""	""	"rs55688861"	"1"	NA	-1	"TRAPPC9"	"HGNC"	30832	"protein_coding"	"YES"	"CCDS34946.1"	"ENSP00000373979"	"Q96Q05"	""	"UPI0000DBEF2B"	"NM_031466.5"	""	""	""	"17/22"	""	"C:0.0002"	"C:0.0008"	"C:0"	NA	"C:0"	"C:0"	"C:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATT"	"7753239a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25531914893617	"WGS"	FALSE
"17583"	"TSNARE1"	203062	"mskcc.org"	"GRCh37"	"8"	143487207	143487207	"+"	"5'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000307180"	""	73	"65"	8	56	"56"	0	"TSNARE1,upstream_gene_variant,,ENST00000519651,;TSNARE1,upstream_gene_variant,,ENST00000524325,;TSNARE1,upstream_gene_variant,,ENST00000307180,NM_145003.3;TSNARE1,upstream_gene_variant,,ENST00000520462,;TSNARE1,upstream_gene_variant,,ENST00000518720,;RP13-467H17.1,non_coding_transcript_exon_variant,,ENST00000569285,;"	"A"	"ENSG00000171045"	"ENST00000307180"	"Transcript"	"upstream_gene_variant"	"-/1904"	"-/1542"	"-/513"	""	""	""	"1"	"2664"	-1	"TSNARE1"	"HGNC"	26437	"protein_coding"	"YES"	"CCDS6384.1"	"ENSP00000303437"	"Q96NA8"	"E5RHW3,A0AVG3"	"UPI00001AEE5E"	"NM_145003.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"775498ce-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.10958904109589	"WGS"	FALSE
"17584"	"GML"	2765	"mskcc.org"	"GRCh37"	"8"	143949520	143949520	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.181+26879T>G"	""	""	"ENST00000522728"	""	83	"65"	18	69	"69"	0	"GML,intron_variant,,ENST00000522728,;CYP11B1,downstream_gene_variant,,ENST00000519285,;CYP11B1,downstream_gene_variant,,ENST00000314111,;"	"G"	"ENSG00000104499"	"ENST00000522728"	"Transcript"	"intron_variant"	"-/420"	"-/355"	"-/118"	""	""	""	"1"	NA	1	"GML"	"HGNC"	4375	"protein_coding"	""	""	"ENSP00000430799"	""	"E5RI31"	"UPI0001E8F635"	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"775518e4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.216867469879518	"WGS"	FALSE
"17585"	"LY6H"	4062	"mskcc.org"	"GRCh37"	"8"	144244257	144244257	"+"	"5'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000414417"	""	87	"69"	18	58	"58"	0	"LY6H,upstream_gene_variant,,ENST00000414417,NM_001130478.1;LY6H,upstream_gene_variant,,ENST00000342752,NM_001135655.1;LY6H,upstream_gene_variant,,ENST00000430474,NM_002347.4;LY6H,upstream_gene_variant,,ENST00000479685,;"	"C"	"ENSG00000176956"	"ENST00000414417"	"Transcript"	"upstream_gene_variant"	"-/1056"	"-/486"	"-/161"	""	""	""	"1"	"2129"	-1	"LY6H"	"HGNC"	6728	"protein_coding"	"YES"	"CCDS47926.1"	"ENSP00000399485"	"O94772"	""	"UPI00005A7901"	"NM_001130478.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"775561aa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.206896551724138	"WGS"	FALSE
"17586"	"CYHR1"	50626	"mskcc.org"	"GRCh37"	"8"	145686811	145686811	"+"	"Intron"	"SNP"	"A"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.246+3032T>G"	""	""	"ENST00000438911"	""	99	"77"	22	74	"74"	0	"CYHR1,intron_variant,,ENST00000438911,NM_138496.1;CYHR1,intron_variant,,ENST00000530374,;CYHR1,intron_variant,,ENST00000526887,;KIFC2,upstream_gene_variant,,ENST00000301332,NM_145754.2;CYHR1,downstream_gene_variant,,ENST00000403000,NM_032687.3;CYHR1,downstream_gene_variant,,ENST00000306145,;CYHR1,downstream_gene_variant,,ENST00000424149,NM_001129888.1;CYHR1,downstream_gene_variant,,ENST00000533764,;CYHR1,downstream_gene_variant,,ENST00000530637,;CTD-2517M22.16,upstream_gene_variant,,ENST00000525461,;CYHR1,intron_variant,,ENST00000528558,;CYHR1,upstream_gene_variant,,ENST00000533173,;CYHR1,upstream_gene_variant,,ENST00000528663,;CYHR1,downstream_gene_variant,,ENST00000524623,;"	"C"	"ENSG00000187954"	"ENST00000438911"	"Transcript"	"intron_variant"	"-/2020"	"-/1089"	"-/362"	""	""	""	"1"	NA	-1	"CYHR1"	"HGNC"	17806	"protein_coding"	"YES"	"CCDS47943.1"	"ENSP00000387426"	"Q6ZMK1"	"E9PPA8"	"UPI00002100FF"	"NM_138496.1"	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"77560ad8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"17587"	"DMRT1"	1761	"mskcc.org"	"GRCh37"	"9"	957273	957273	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.968-10712C>A"	""	""	"ENST00000382276"	""	100	"71"	29	67	"67"	0	"DMRT1,intron_variant,,ENST00000382276,NM_021951.2;DMRT1,intron_variant,,ENST00000569227,;"	"A"	"ENSG00000137090"	"ENST00000382276"	"Transcript"	"intron_variant"	"-/2222"	"-/1122"	"-/373"	""	""	""	"1"	NA	1	"DMRT1"	"HGNC"	2934	"protein_coding"	"YES"	"CCDS6442.1"	"ENSP00000371711"	"Q9Y5R6"	"H3BN61"	"UPI00000008AC"	"NM_021951.2"	""	""	""	"4/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACA"	"7757127a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.29	"WGS"	FALSE
"17588"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	1365113	1365113	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	99	"69"	30	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"77572e04-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.303030303030303	"WGS"	FALSE
"17589"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	1937839	1937839	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"60"	15	45	"45"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"7757443e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"17590"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	1937840	1937840	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	75	"60"	15	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"775744de-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"17591"	"KDM4C"	23081	"mskcc.org"	"GRCh37"	"9"	6820015	6820015	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.435+5270C>T"	""	""	"ENST00000381309"	""	66	"49"	17	35	"35"	0	"KDM4C,intron_variant,,ENST00000381309,NM_015061.3;KDM4C,intron_variant,,ENST00000381306,NM_001146694.1;KDM4C,intron_variant,,ENST00000543771,NM_001146695.1;KDM4C,intron_variant,,ENST00000535193,NM_001146696.1;KDM4C,intron_variant,,ENST00000442236,;KDM4C,intron_variant,,ENST00000536108,;KDM4C,downstream_gene_variant,,ENST00000401787,;KDM4C,intron_variant,,ENST00000489243,;KDM4C,downstream_gene_variant,,ENST00000480996,;KDM4C,intron_variant,,ENST00000438023,;"	"T"	"ENSG00000107077"	"ENST00000381309"	"Transcript"	"intron_variant"	"-/4655"	"-/3171"	"-/1056"	""	""	""	"1"	NA	1	"KDM4C"	"HGNC"	17071	"protein_coding"	"YES"	"CCDS6471.1"	"ENSP00000370710"	"Q9H3R0"	"C9J879"	"UPI0000367602"	"NM_015061.3"	""	""	""	"4/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"77585e46-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257575757575758	"WGS"	FALSE
"17592"	"KDM4C"	23081	"mskcc.org"	"GRCh37"	"9"	6832526	6832526	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.436-16981C>A"	""	""	"ENST00000381309"	""	34	"28"	6	22	"22"	0	"KDM4C,intron_variant,,ENST00000381309,NM_015061.3;KDM4C,intron_variant,,ENST00000381306,NM_001146694.1;KDM4C,intron_variant,,ENST00000543771,NM_001146695.1;KDM4C,intron_variant,,ENST00000535193,NM_001146696.1;KDM4C,intron_variant,,ENST00000442236,;KDM4C,intron_variant,,ENST00000536108,;KDM4C,intron_variant,,ENST00000489243,;KDM4C,intron_variant,,ENST00000438023,;RP11-390F4.8,upstream_gene_variant,,ENST00000446382,;"	"A"	"ENSG00000107077"	"ENST00000381309"	"Transcript"	"intron_variant"	"-/4655"	"-/3171"	"-/1056"	""	""	""	"1"	NA	1	"KDM4C"	"HGNC"	17071	"protein_coding"	"YES"	"CCDS6471.1"	"ENSP00000370710"	"Q9H3R0"	"C9J879"	"UPI0000367602"	"NM_015061.3"	""	""	""	"4/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"77585fa4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"17593"	"PTPRD"	5789	"mskcc.org"	"GRCh37"	"9"	10152129	10152129	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-616-118339C>G"	""	""	"ENST00000463477"	""	103	"80"	23	75	"75"	0	"PTPRD,intron_variant,,ENST00000463477,;"	"C"	"ENSG00000153707"	"ENST00000463477"	"Transcript"	"intron_variant"	"-/1697"	"-/609"	"-/202"	""	""	""	"1"	NA	-1	"PTPRD"	"HGNC"	9668	"protein_coding"	""	""	"ENSP00000417661"	""	"C9J8S8,C9J6E4"	"UPI0000211125"	""	""	""	""	"3/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"77591660-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.223300970873786	"WGS"	FALSE
"17594"	"PTPRD"	5789	"mskcc.org"	"GRCh37"	"9"	10170488	10170488	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-616-136698C>T"	""	""	"ENST00000463477"	""	100	"88"	12	56	"56"	0	"PTPRD,intron_variant,,ENST00000463477,;"	"A"	"ENSG00000153707"	"ENST00000463477"	"Transcript"	"intron_variant"	"-/1697"	"-/609"	"-/202"	""	""	""	"1"	NA	-1	"PTPRD"	"HGNC"	9668	"protein_coding"	""	""	"ENSP00000417661"	""	"C9J8S8,C9J6E4"	"UPI0000211125"	""	""	""	""	"3/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"7759170a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12	"WGS"	FALSE
"17595"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	10664856	10664856	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	127	"94"	33	76	"76"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"77593c44-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.259842519685039	"WGS"	FALSE
"17596"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	12541566	12541566	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	118	"93"	25	70	"70"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGC"	"7759aad0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.211864406779661	"WGS"	FALSE
"17597"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	13502289	13502289	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"77"	25	75	"75"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7759dd66-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.245098039215686	"WGS"	FALSE
"17598"	"TTC39B"	158219	"mskcc.org"	"GRCh37"	"9"	15211039	15211039	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.614+225G>A"	""	""	"ENST00000512701"	""	92	"71"	21	56	"56"	0	"TTC39B,intron_variant,,ENST00000512701,;TTC39B,intron_variant,,ENST00000355694,NM_001168339.1,NM_152574.2;TTC39B,intron_variant,,ENST00000380850,NM_001168340.1;TTC39B,intron_variant,,ENST00000297615,NM_001168341.1;TTC39B,intron_variant,,ENST00000507285,;TTC39B,intron_variant,,ENST00000507993,NM_001168342.1;TTC39B,intron_variant,,ENST00000541445,;TTC39B,downstream_gene_variant,,ENST00000582994,;TTC39B,intron_variant,,ENST00000505732,;"	"T"	"ENSG00000155158"	"ENST00000512701"	"Transcript"	"intron_variant"	"-/10483"	"-/2049"	"-/682"	""	""	""	"1"	NA	-1	"TTC39B"	"HGNC"	23704	"protein_coding"	"YES"	"CCDS6477.2"	"ENSP00000422496"	"Q5VTQ0"	""	"UPI0001BE810F"	""	""	""	""	"5/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"775a5aca-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.228260869565217	"WGS"	FALSE
"17599"	"TTC39B"	158219	"mskcc.org"	"GRCh37"	"9"	15278410	15278410	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"rs374972013"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.241-10464G>T"	""	""	"ENST00000512701"	""	119	"81"	38	72	"70"	2	"TTC39B,intron_variant,,ENST00000512701,;TTC39B,intron_variant,,ENST00000355694,NM_001168339.1,NM_152574.2;TTC39B,intron_variant,,ENST00000380850,NM_001168340.1;TTC39B,intron_variant,,ENST00000297615,NM_001168341.1;TTC39B,intron_variant,,ENST00000541445,;TTC39B,intron_variant,,ENST00000506891,;TTC39B,intron_variant,,ENST00000505732,;"	"A"	"ENSG00000155158"	"ENST00000512701"	"Transcript"	"intron_variant"	"-/10483"	"-/2049"	"-/682"	""	""	"rs374972013"	"1"	NA	-1	"TTC39B"	"HGNC"	23704	"protein_coding"	"YES"	"CCDS6477.2"	"ENSP00000422496"	"Q5VTQ0"	""	"UPI0001BE810F"	""	""	""	""	"1/19"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"775a5f84-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319327731092437	"WGS"	FALSE
"17600"	"CCDC171"	203238	"mskcc.org"	"GRCh37"	"9"	15590278	15590278	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.353-1086T>G"	""	""	"ENST00000380701"	""	80	"66"	14	58	"58"	0	"CCDC171,intron_variant,,ENST00000380701,NM_173550.2;CCDC171,intron_variant,,ENST00000297641,;CCDC171,intron_variant,,ENST00000535968,;HMGN2P16,downstream_gene_variant,,ENST00000456802,;"	"G"	"ENSG00000164989"	"ENST00000380701"	"Transcript"	"intron_variant"	"-/6512"	"-/3981"	"-/1326"	""	""	""	"1"	NA	1	"CCDC171"	"HGNC"	29828	"protein_coding"	"YES"	"CCDS6481.1"	"ENSP00000370077"	"Q6TFL3"	"Q8NCV3"	"UPI000021C44B"	"NM_173550.2"	""	""	""	"4/25"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"775a6fa6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.175	"WGS"	FALSE
"17601"	"BNC2"	54796	"mskcc.org"	"GRCh37"	"9"	16707074	16707074	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.330+20721G>A"	""	""	"ENST00000380672"	""	88	"63"	25	64	"64"	0	"BNC2,intron_variant,,ENST00000380672,NM_017637.5;BNC2,intron_variant,,ENST00000418777,;BNC2,intron_variant,,ENST00000380667,;BNC2,intron_variant,,ENST00000545497,;BNC2,intron_variant,,ENST00000380666,;BNC2,intron_variant,,ENST00000603713,;BNC2,intron_variant,,ENST00000486514,;BNC2,intron_variant,,ENST00000468187,;BNC2,intron_variant,,ENST00000603313,;BNC2,upstream_gene_variant,,ENST00000471301,;BNC2,intron_variant,,ENST00000484726,;"	"T"	"ENSG00000173068"	"ENST00000380672"	"Transcript"	"intron_variant"	"-/12844"	"-/3300"	"-/1099"	""	""	""	"1"	NA	-1	"BNC2"	"HGNC"	30988	"protein_coding"	"YES"	"CCDS6482.2"	"ENSP00000370047"	"Q6ZN30"	"S4R351,Q06HC7,Q06HC2,Q06HB9,D3DRJ1"	"UPI000035E7B0"	"NM_017637.5"	""	""	""	"3/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"775a967a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.284090909090909	"WGS"	FALSE
"17602"	"BNC2"	54796	"mskcc.org"	"GRCh37"	"9"	16755458	16755458	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"rs748221438"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4-16975G>A"	""	""	"ENST00000380672"	""	97	"72"	25	57	"57"	0	"BNC2,intron_variant,,ENST00000380672,NM_017637.5;BNC2,intron_variant,,ENST00000380667,;BNC2,intron_variant,,ENST00000545497,;BNC2,intron_variant,,ENST00000380666,;BNC2,intron_variant,,ENST00000486514,;BNC2,intron_variant,,ENST00000484726,;"	"T"	"ENSG00000173068"	"ENST00000380672"	"Transcript"	"intron_variant"	"-/12844"	"-/3300"	"-/1099"	""	""	"rs748221438"	"1"	NA	-1	"BNC2"	"HGNC"	30988	"protein_coding"	"YES"	"CCDS6482.2"	"ENSP00000370047"	"Q6ZN30"	"S4R351,Q06HC7,Q06HC2,Q06HB9,D3DRJ1"	"UPI000035E7B0"	"NM_017637.5"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"775a9be8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257731958762887	"WGS"	FALSE
"17603"	"ADAMTSL1"	92949	"mskcc.org"	"GRCh37"	"9"	18868421	18868421	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4250-19408C>T"	""	""	"ENST00000380548"	""	112	"104"	8	57	"57"	0	"ADAMTSL1,intron_variant,,ENST00000380548,NM_001040272.5;ADAMTSL1,intron_variant,,ENST00000380545,;ADAMTSL1,intron_variant,,ENST00000380538,;ADAMTSL1,intron_variant,,ENST00000380559,;ADAMTSL1,intron_variant,,ENST00000542621,;ADAMTSL1,intron_variant,,ENST00000388710,;"	"T"	"ENSG00000178031"	"ENST00000380548"	"Transcript"	"intron_variant"	"-/8030"	"-/5289"	"-/1762"	""	""	""	"1"	NA	1	"ADAMTSL1"	"HGNC"	14632	"protein_coding"	"YES"	"CCDS47954.1"	"ENSP00000369921"	"Q8N6G6"	"H7BYE3"	"UPI000004FD83"	"NM_001040272.5"	""	""	""	"23/28"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"775b0f56-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0714285714285714	"WGS"	FALSE
"17604"	"SLC24A2"	25769	"mskcc.org"	"GRCh37"	"9"	19679451	19679451	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.931-57154G>T"	""	""	"ENST00000341998"	""	93	"84"	9	74	"74"	0	"SLC24A2,intron_variant,,ENST00000341998,NM_001193288.2,NM_020344.3;SLC24A2,intron_variant,,ENST00000286344,;"	"A"	"ENSG00000155886"	"ENST00000341998"	"Transcript"	"intron_variant"	"-/10749"	"-/1986"	"-/661"	""	""	""	"1"	NA	-1	"SLC24A2"	"HGNC"	10976	"protein_coding"	"YES"	"CCDS6493.1"	"ENSP00000344801"	"Q9UI40"	""	"UPI000004FA46"	"NM_001193288.2,NM_020344.3"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"775b475a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0967741935483871	"WGS"	FALSE
"17605"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	20273479	20273479	"+"	"IGR"	"SNP"	"T"	"C"	"C"	"rs760670008"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	84	"65"	19	56	"56"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs760670008"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"775b746e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.226190476190476	"WGS"	FALSE
"17606"	"MTAP"	4507	"mskcc.org"	"GRCh37"	"9"	21801963	21801963	"+"	"5'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000380172"	""	98	"71"	27	53	"51"	2	"MTAP,upstream_gene_variant,,ENST00000380172,NM_002451.3;MTAP,upstream_gene_variant,,ENST00000580900,;MTAP,upstream_gene_variant,,ENST00000460874,;MTAP,upstream_gene_variant,,ENST00000427788,;MTAP,upstream_gene_variant,,ENST00000579422,;MTAP,upstream_gene_variant,,ENST00000419385,;MTAP,upstream_gene_variant,,ENST00000580718,;RP11-145E5.5,upstream_gene_variant,,ENST00000404796,;MTAP,upstream_gene_variant,,ENST00000580675,;"	"A"	"ENSG00000099810"	"ENST00000380172"	"Transcript"	"upstream_gene_variant"	"-/6122"	"-/852"	"-/283"	""	""	""	"1"	"579"	1	"MTAP"	"HGNC"	7413	"protein_coding"	"YES"	"CCDS6509.1"	"ENSP00000369519"	"Q13126"	""	"UPI0000110BBE"	"NM_002451.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"775bce8c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.275510204081633	"WGS"	FALSE
"17607"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	22919715	22919715	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	110	"79"	31	81	"81"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"775bf95c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.281818181818182	"WGS"	FALSE
"17608"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	22965289	22965289	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	117	"99"	18	72	"72"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"775bfc0e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.153846153846154	"WGS"	FALSE
"17609"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	23421024	23421024	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	132	"101"	31	67	"67"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"775c0faa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234848484848485	"WGS"	FALSE
"17610"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	24447466	24447466	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	108	"94"	14	71	"71"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"775c4696-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.12962962962963	"WGS"	FALSE
"17611"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	24697773	24697773	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	122	"113"	9	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"775c4f56-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0737704918032787	"WGS"	FALSE
"17612"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	24833470	24833470	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	130	"98"	32	76	"76"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"775c5618-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.246153846153846	"WGS"	FALSE
"17613"	"LINGO2"	158038	"mskcc.org"	"GRCh37"	"9"	28128288	28128288	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-86-115885G>A"	""	""	"ENST00000379992"	""	119	"91"	28	74	"74"	0	"LINGO2,intron_variant,,ENST00000379992,NM_152570.2;LINGO2,intron_variant,,ENST00000493941,;"	"T"	"ENSG00000174482"	"ENST00000379992"	"Transcript"	"intron_variant"	"-/3044"	"-/1821"	"-/606"	""	""	""	"1"	NA	-1	"LINGO2"	"HGNC"	21207	"protein_coding"	"YES"	"CCDS6524.1"	"ENSP00000369328"	"Q7L985"	""	"UPI000004C7CD"	"NM_152570.2"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"775ce93e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"17614"	"LINGO2"	158038	"mskcc.org"	"GRCh37"	"9"	28245223	28245223	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"rs115056499"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-87+49983G>A"	""	""	"ENST00000379992"	""	84	"74"	10	75	"75"	0	"LINGO2,intron_variant,,ENST00000379992,NM_152570.2;LINGO2,intron_variant,,ENST00000493941,;"	"T"	"ENSG00000174482"	"ENST00000379992"	"Transcript"	"intron_variant"	"-/3044"	"-/1821"	"-/606"	""	""	"rs115056499"	"1"	NA	-1	"LINGO2"	"HGNC"	21207	"protein_coding"	"YES"	"CCDS6524.1"	"ENSP00000369328"	"Q7L985"	""	"UPI000004C7CD"	"NM_152570.2"	""	""	""	"4/5"	""	"T:0.0120"	"T:0.0446"	"T:0"	NA	"T:0"	"T:0.001"	"T:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"775cfe1a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119047619047619	"WGS"	FALSE
"17615"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	29685989	29685989	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"90"	22	64	"64"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"775d4c1c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.196428571428571	"WGS"	FALSE
"17616"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	29846431	29846431	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	102	"78"	24	65	"65"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"775d5504-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.235294117647059	"WGS"	FALSE
"17617"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	30026638	30026638	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	128	"111"	17	52	"52"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"775d6076-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1328125	"WGS"	FALSE
"17618"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	30651471	30651471	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	126	"106"	20	84	"84"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAA"	"775d78d6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.158730158730159	"WGS"	FALSE
"17619"	"RP11-54K16.2"	0	"mskcc.org"	"GRCh37"	"9"	33019024	33019024	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000425356"	""	82	"59"	23	57	"56"	1	"APTX,intron_variant,,ENST00000473270,;APTX,intron_variant,,ENST00000460945,;APTX,downstream_gene_variant,,ENST00000489583,;APTX,intron_variant,,ENST00000495360,;RP11-54K16.2,downstream_gene_variant,,ENST00000425356,;"	"T"	"ENSG00000225693"	"ENST00000425356"	"Transcript"	"downstream_gene_variant"	"-/484"	""	""	""	""	""	"1"	"656"	-1	"RP11-54K16.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"775def46-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.280487804878049	"WGS"	FALSE
"17620"	"NFX1"	4799	"mskcc.org"	"GRCh37"	"9"	33295001	33295001	"+"	"Silent"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.609T>G"	"p.="	"p.A203A"	"ENST00000379540"	"2/24"	93	"72"	21	42	"42"	0	"NFX1,synonymous_variant,p.=,ENST00000379540,NM_002504.4;NFX1,synonymous_variant,p.=,ENST00000379521,NM_147133.2;NFX1,synonymous_variant,p.=,ENST00000318524,NM_147134.2;"	"G"	"ENSG00000086102"	"ENST00000379540"	"Transcript"	"synonymous_variant"	"671/4604"	"609/3363"	"203/1120"	"A"	"gcT/gcG"	""	"1"	NA	1	"NFX1"	"HGNC"	7803	"protein_coding"	"YES"	"CCDS6538.1"	"ENSP00000368856"	"Q12986"	""	"UPI0000072140"	"NM_002504.4"	""	""	"2/24"	""	"hmmpanther:PTHR12360,hmmpanther:PTHR12360:SF0"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTG"	"775df752-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.225806451612903	"WGS"	FALSE
"17621"	"DCAF12"	25853	"mskcc.org"	"GRCh37"	"9"	34083887	34083887	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000361264"	""	60	"53"	7	40	"40"	0	"DCAF12,downstream_gene_variant,,ENST00000361264,NM_015397.3;RP11-537H15.3,upstream_gene_variant,,ENST00000448245,;"	"C"	"ENSG00000198876"	"ENST00000361264"	"Transcript"	"downstream_gene_variant"	"-/3667"	"-/1362"	"-/453"	""	""	""	"1"	"2498"	-1	"DCAF12"	"HGNC"	19911	"protein_coding"	"YES"	"CCDS6549.1"	"ENSP00000355114"	"Q5T6F0"	""	"UPI00000372E8"	"NM_015397.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"775e2470-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116666666666667	"WGS"	FALSE
"17622"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	34795358	34795358	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	94	"71"	23	73	"73"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"775e4acc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24468085106383	"WGS"	FALSE
"17623"	"FAM205CP"	0	"mskcc.org"	"GRCh37"	"9"	34898997	34898997	"+"	"5'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000603640"	""	76	"55"	21	62	"62"	0	"FAM205CP,upstream_gene_variant,,ENST00000340783,;FAM205CP,upstream_gene_variant,,ENST00000603592,;FAM205CP,upstream_gene_variant,,ENST00000603640,;FAM205CP,upstream_gene_variant,,ENST00000604781,;"	"A"	"ENSG00000187791"	"ENST00000603640"	"Transcript"	"upstream_gene_variant"	"-/4148"	""	""	""	""	""	"1"	"3278"	-1	"FAM205CP"	"HGNC"	42673	"transcribed_unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"775e521a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.276315789473684	"WGS"	FALSE
"17624"	"RECK"	8434	"mskcc.org"	"GRCh37"	"9"	36064771	36064771	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.358-803C>G"	""	""	"ENST00000377966"	""	82	"75"	7	54	"54"	0	"RECK,intron_variant,,ENST00000377966,NM_021111.2;RECK,intron_variant,,ENST00000479053,;RECK,intron_variant,,ENST00000475774,;"	"G"	"ENSG00000122707"	"ENST00000377966"	"Transcript"	"intron_variant"	"-/4888"	"-/2916"	"-/971"	""	""	""	"1"	NA	1	"RECK"	"HGNC"	11345	"protein_coding"	"YES"	"CCDS6597.1"	"ENSP00000367202"	"O95980"	""	"UPI0000133587"	"NM_021111.2"	""	""	""	"5/20"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"775ed5e6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0853658536585366	"WGS"	FALSE
"17625"	"RP11-465M18.1"	0	"mskcc.org"	"GRCh37"	"9"	37075124	37075124	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.610+56G>A"	""	""	"ENST00000426358"	""	78	"67"	11	62	"62"	0	"RP11-465M18.1,intron_variant,,ENST00000426358,;RP11-220I1.1,upstream_gene_variant,,ENST00000429493,;RP11-220I1.5,downstream_gene_variant,,ENST00000569583,;RP11-220I1.1,upstream_gene_variant,,ENST00000588403,;RP11-220I1.1,upstream_gene_variant,,ENST00000593237,;RP11-220I1.1,upstream_gene_variant,,ENST00000592157,;RP11-220I1.1,upstream_gene_variant,,ENST00000430809,;RP11-220I1.1,upstream_gene_variant,,ENST00000588557,;"	"T"	"ENSG00000232920"	"ENST00000426358"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/947"	""	""	""	""	""	"1"	NA	-1	"RP11-465M18.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"775f129a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.141025641025641	"WGS"	FALSE
"17626"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	39974423	39974423	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	24	"19"	5	12	"12"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"77600d3a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WGS"	FALSE
"17627"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	39974426	39974426	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	25	"18"	7	12	"12"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"77600dee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"17628"	"AC125634.1"	0	"mskcc.org"	"GRCh37"	"9"	69902849	69902849	"+"	"5'Flank"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000438758"	""	120	"111"	9	92	"92"	0	"AC125634.1,upstream_gene_variant,,ENST00000438758,;"	"G"	"ENSG00000223602"	"ENST00000438758"	"Transcript"	"upstream_gene_variant"	"-/1403"	""	""	""	""	""	"1"	"1368"	-1	"AC125634.1"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"776f8bd4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.075	"WGS"	FALSE
"17629"	"PIP5K1B"	8395	"mskcc.org"	"GRCh37"	"9"	71552558	71552558	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"rs80119634"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1357+2597G>A"	""	""	"ENST00000265382"	""	92	"81"	11	58	"58"	0	"PIP5K1B,intron_variant,,ENST00000265382,NM_003558.3;PIP5K1B,intron_variant,,ENST00000541509,NM_001278253.1;RNU6-820P,upstream_gene_variant,,ENST00000384273,;PIP5K1B,intron_variant,,ENST00000478500,;"	"A"	"ENSG00000107242"	"ENST00000265382"	"Transcript"	"intron_variant"	"-/2654"	"-/1623"	"-/540"	""	""	"rs80119634"	"1"	NA	1	"PIP5K1B"	"HGNC"	8995	"protein_coding"	"YES"	"CCDS6624.1"	"ENSP00000265382"	"O14986"	"Q7KYT6,Q7KYT4,B4DIG7"	"UPI000002E327"	"NM_003558.3"	""	""	""	"13/15"	""	"A:0.0004"	"A:0"	"A:0"	NA	"A:0.001"	"A:0.001"	"A:0"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"7770a32a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.119565217391304	"WGS"	FALSE
"17630"	"PIP5K1B"	8395	"mskcc.org"	"GRCh37"	"9"	71579494	71579494	"+"	"Intron"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1502+23788G>T"	""	""	"ENST00000265382"	""	78	"62"	16	71	"71"	0	"PIP5K1B,intron_variant,,ENST00000265382,NM_003558.3;PIP5K1B,intron_variant,,ENST00000541509,NM_001278253.1;PIP5K1B,intron_variant,,ENST00000478500,;"	"T"	"ENSG00000107242"	"ENST00000265382"	"Transcript"	"intron_variant"	"-/2654"	"-/1623"	"-/540"	""	""	""	"1"	NA	1	"PIP5K1B"	"HGNC"	8995	"protein_coding"	"YES"	"CCDS6624.1"	"ENSP00000265382"	"O14986"	"Q7KYT6,Q7KYT4,B4DIG7"	"UPI000002E327"	"NM_003558.3"	""	""	""	"14/15"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"7770a5e6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205128205128205	"WGS"	FALSE
"17631"	"APBA1"	320	"mskcc.org"	"GRCh37"	"9"	72192804	72192804	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-69-60609G>T"	""	""	"ENST00000265381"	""	67	"51"	16	56	"56"	0	"APBA1,intron_variant,,ENST00000265381,NM_001163.3;"	"A"	"ENSG00000107282"	"ENST00000265381"	"Transcript"	"intron_variant"	"-/6534"	"-/2514"	"-/837"	""	""	""	"1"	NA	-1	"APBA1"	"HGNC"	578	"protein_coding"	"YES"	"CCDS6630.1"	"ENSP00000265381"	"Q02410"	""	"UPI000013D611"	"NM_001163.3"	""	""	""	"1/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"7770cfda-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.238805970149254	"WGS"	FALSE
"17632"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	83436529	83436529	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"78"	29	59	"59"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"77739918-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.271028037383178	"WGS"	FALSE
"17633"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	83835311	83835311	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	77	"50"	27	71	"71"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"7773af84-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.350649350649351	"WGS"	FALSE
"17634"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	87096958	87096958	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"85"	27	56	"56"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"77744638-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.241071428571429	"WGS"	FALSE
"17635"	"UBE2V1P10"	0	"mskcc.org"	"GRCh37"	"9"	87769850	87769850	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000414685"	""	95	"78"	17	72	"72"	0	"UBE2V1P10,upstream_gene_variant,,ENST00000414685,;"	"A"	"ENSG00000226590"	"ENST00000414685"	"Transcript"	"upstream_gene_variant"	"-/269"	""	""	""	""	""	"1"	"4747"	1	"UBE2V1P10"	"HGNC"	44895	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGG"	"7774688e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178947368421053	"WGS"	FALSE
"17636"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	90658368	90658368	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	65	"59"	6	41	"41"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTC"	"77753598-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0923076923076923	"WGS"	FALSE
"17637"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	92902987	92902987	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	107	"93"	14	51	"51"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"7775d7be-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.130841121495327	"WGS"	FALSE
"17638"	"SYK"	6850	"mskcc.org"	"GRCh37"	"9"	93648601	93648601	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1582-1430T>C"	""	""	"ENST00000375746"	""	88	"69"	19	68	"68"	0	"SYK,intron_variant,,ENST00000375754,NM_003177.5;SYK,intron_variant,,ENST00000375746,NM_001174167.1;SYK,intron_variant,,ENST00000375751,NM_001135052.2;SYK,intron_variant,,ENST00000375747,NM_001174168.1;"	"C"	"ENSG00000165025"	"ENST00000375746"	"Transcript"	"intron_variant"	"-/4990"	"-/1908"	"-/635"	""	""	""	"1"	NA	1	"SYK"	"HGNC"	11491	"protein_coding"	""	"CCDS6688.1"	"ENSP00000364898"	"P43405"	""	"UPI000012E0DD"	"NM_001174167.1"	""	""	""	"11/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"77760dec-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.215909090909091	"WGS"	TRUE
"17639"	"CENPP"	401541	"mskcc.org"	"GRCh37"	"9"	95321693	95321693	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.565-51903G>A"	""	""	"ENST00000375587"	""	63	"51"	12	57	"57"	0	"CENPP,intron_variant,,ENST00000375587,NM_001012267.1;"	"A"	"ENSG00000188312"	"ENST00000375587"	"Transcript"	"intron_variant"	"-/8766"	"-/867"	"-/288"	""	""	""	"1"	NA	1	"CENPP"	"HGNC"	32933	"protein_coding"	"YES"	"CCDS35063.1"	"ENSP00000364737"	"Q6IPU0"	""	"UPI0000211A4E"	"NM_001012267.1"	""	""	""	"5/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"777661c0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.19047619047619	"WGS"	FALSE
"17640"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	102267171	102267171	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	93	"73"	20	61	"61"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"7777f47c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.21505376344086	"WGS"	FALSE
"17641"	"MSANTD3-TMEFF1"	100526694	"mskcc.org"	"GRCh37"	"9"	103224829	103224829	"+"	"Intron"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.86+20191G>C"	""	""	"ENST00000502978"	""	88	"68"	20	47	"47"	0	"MSANTD3-TMEFF1,intron_variant,,ENST00000502978,NM_001198812.1;TMEFF1,intron_variant,,ENST00000334943,;"	"C"	"ENSG00000251349"	"ENST00000502978"	"Transcript"	"intron_variant"	"-/2069"	"-/1035"	"-/344"	""	""	""	"1"	NA	1	"MSANTD3-TMEFF1"	"HGNC"	38838	"protein_coding"	"YES"	""	"ENSP00000424768"	""	""	"UPI0001D3B30C"	"NM_001198812.1"	""	""	""	"1/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"77781466-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.227272727272727	"WGS"	FALSE
"17642"	"MURC"	347273	"mskcc.org"	"GRCh37"	"9"	103352693	103352693	"+"	"3'Flank"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000307584"	""	82	"76"	6	73	"73"	0	"MURC,downstream_gene_variant,,ENST00000307584,NM_001018116.2;"	"C"	"ENSG00000170681"	"ENST00000307584"	"Transcript"	"downstream_gene_variant"	"-/2615"	"-/1095"	"-/364"	""	""	""	"1"	"2505"	1	"MURC"	"HGNC"	33742	"protein_coding"	"YES"	"CCDS35083.1"	"ENSP00000418668"	"Q5BKX8"	""	"UPI000004CC0D"	"NM_001018116.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"777817c2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0731707317073171	"WGS"	FALSE
"17643"	"GRIN3A"	116443	"mskcc.org"	"GRCh37"	"9"	104373092	104373092	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2766+2566C>T"	""	""	"ENST00000361820"	""	105	"97"	8	64	"64"	0	"GRIN3A,intron_variant,,ENST00000361820,NM_133445.2;GRIN3A,intron_variant,,ENST00000479772,;"	"A"	"ENSG00000198785"	"ENST00000361820"	"Transcript"	"intron_variant"	"-/7770"	"-/3348"	"-/1115"	""	""	""	"1"	NA	-1	"GRIN3A"	"HGNC"	16767	"protein_coding"	"YES"	"CCDS6758.1"	"ENSP00000355155"	"Q8TCU5"	""	"UPI0000367661"	"NM_133445.2"	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"777850c0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0761904761904762	"WGS"	FALSE
"17644"	"LINC00587"	414319	"mskcc.org"	"GRCh37"	"9"	105384470	105384470	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.268-20943G>A"	""	""	"ENST00000374801"	""	112	"92"	20	70	"70"	0	"LINC00587,intron_variant,,ENST00000374801,;"	"A"	"ENSG00000204250"	"ENST00000374801"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/590"	""	""	""	""	""	"1"	NA	1	"LINC00587"	"HGNC"	31372	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"3/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"77787ed8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178571428571429	"WGS"	FALSE
"17645"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	105482834	105482834	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	120	"89"	31	64	"64"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAC"	"77788036-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.258333333333333	"WGS"	FALSE
"17646"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	105881270	105881270	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	113	"91"	22	80	"80"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"77788d74-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.194690265486726	"WGS"	FALSE
"17647"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	110759694	110759694	"+"	"IGR"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"88"	23	73	"73"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"7779907a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207207207207207	"WGS"	FALSE
"17648"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	110929027	110929027	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	112	"84"	28	68	"67"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"77799ac0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"17649"	"ZNF618"	114991	"mskcc.org"	"GRCh37"	"9"	116772736	116772736	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.658+1902T>C"	""	""	"ENST00000288466"	""	96	"89"	7	79	"79"	0	"ZNF618,intron_variant,,ENST00000288466,NM_133374.2;ZNF618,intron_variant,,ENST00000374126,;ZNF618,intron_variant,,ENST00000374124,;ZNF618,intron_variant,,ENST00000452710,;ZNF618,intron_variant,,ENST00000481558,;"	"C"	"ENSG00000157657"	"ENST00000288466"	"Transcript"	"intron_variant"	"-/9109"	"-/2586"	"-/861"	""	""	""	"1"	NA	1	"ZNF618"	"HGNC"	29416	"protein_coding"	"YES"	"CCDS48008.1"	"ENSP00000288466"	"Q5T7W0"	""	"UPI0000D4BD81"	"NM_133374.2"	""	""	""	"8/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"777b0fe0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0729166666666667	"WGS"	FALSE
"17650"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	118349970	118349970	"+"	"IGR"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	111	"83"	28	56	"56"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATT"	"777b6f30-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.252252252252252	"WGS"	FALSE
"17651"	"ASTN2"	23245	"mskcc.org"	"GRCh37"	"9"	119892817	119892817	"+"	"Intron"	"SNP"	"A"	"G"	"G"	"rs62562241"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1016-34387T>C"	""	""	"ENST00000361209"	""	112	"84"	28	66	"66"	0	"ASTN2,intron_variant,,ENST00000313400,;ASTN2,intron_variant,,ENST00000373996,;ASTN2,intron_variant,,ENST00000361209,NM_014010.4;ASTN2,intron_variant,,ENST00000361477,;ASTN2,intron_variant,,ENST00000373986,;"	"G"	"ENSG00000148219"	"ENST00000361209"	"Transcript"	"intron_variant"	"-/4622"	"-/3867"	"-/1288"	""	""	"rs62562241"	"1"	NA	-1	"ASTN2"	"HGNC"	17021	"protein_coding"	"YES"	"CCDS6815.1"	"ENSP00000354504"	"O75129"	"B7ZKP3,B2RCB6"	"UPI00002116D7"	"NM_014010.4"	""	""	""	"3/21"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"777bddda-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.25	"WGS"	FALSE
"17652"	"ENSR00001312881"	0	"mskcc.org"	"GRCh37"	"9"	120453960	120453960	"+"	"IGR"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001312881"	""	141	"112"	29	73	"73"	0	""	"C"	""	"ENSR00001312881"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"777c021a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205673758865248	"WGS"	FALSE
"17653"	"BRINP1"	1620	"mskcc.org"	"GRCh37"	"9"	122002830	122002830	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.579+1495G>T"	""	""	"ENST00000265922"	""	94	"71"	23	82	"81"	1	"BRINP1,intron_variant,,ENST00000265922,NM_014618.2;BRINP1,intron_variant,,ENST00000373964,;"	"A"	"ENSG00000078725"	"ENST00000265922"	"Transcript"	"intron_variant"	"-/3202"	"-/2286"	"-/761"	""	""	""	"1"	NA	-1	"BRINP1"	"HGNC"	2687	"protein_coding"	"YES"	"CCDS6822.1"	"ENSP00000265922"	"O60477"	"B4DE75"	"UPI000013D6A7"	"NM_014618.2"	""	""	""	"4/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"777c628c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.24468085106383	"WGS"	FALSE
"17654"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	122686379	122686379	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"rs548903284"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	109	"76"	33	77	"77"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs548903284"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	"G:0.0002"	"G:0"	"G:0"	NA	"G:0"	"G:0"	"G:0.001"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"777c88ac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.302752293577982	"WGS"	FALSE
"17655"	"TTLL11"	158135	"mskcc.org"	"GRCh37"	"9"	124657365	124657365	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1752-24338C>T"	""	""	"ENST00000321582"	""	79	"60"	19	68	"68"	0	"TTLL11,intron_variant,,ENST00000321582,NM_001139442.1;TTLL11,intron_variant,,ENST00000474723,;TTLL11,intron_variant,,ENST00000373778,;TTLL11-IT1,intron_variant,,ENST00000411790,;"	"A"	"ENSG00000175764"	"ENST00000321582"	"Transcript"	"intron_variant"	"-/3250"	"-/2403"	"-/800"	""	""	""	"1"	NA	-1	"TTLL11"	"HGNC"	18113	"protein_coding"	"YES"	"CCDS48012.1"	"ENSP00000321346"	""	"F8W6M1"	"UPI0000E0BF7B"	"NM_001139442.1"	""	""	""	"6/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"777cdf3c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.240506329113924	"WGS"	FALSE
"17656"	"GPR144"	0	"mskcc.org"	"GRCh37"	"9"	127213258	127213258	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000334810"	""	64	"51"	13	45	"45"	0	"GPR144,upstream_gene_variant,,ENST00000334810,NM_001161808.1;"	"G"	"ENSG00000180264"	"ENST00000334810"	"Transcript"	"upstream_gene_variant"	"-/2892"	"-/2892"	"-/963"	""	""	""	"1"	"165"	1	"GPR144"	"HGNC"	18651	"protein_coding"	"YES"	""	"ENSP00000335156"	"Q7Z7M1"	""	"UPI000019AD1B"	"NM_001161808.1"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"777d67c2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.203125	"WGS"	FALSE
"17657"	"LMX1B"	4010	"mskcc.org"	"GRCh37"	"9"	129411092	129411092	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.326+33244G>A"	""	""	"ENST00000355497"	""	96	"79"	17	61	"61"	0	"LMX1B,intron_variant,,ENST00000355497,NM_001174146.1;LMX1B,intron_variant,,ENST00000425646,NM_001174147.1,NM_002316.3;LMX1B,intron_variant,,ENST00000373474,;LMX1B,intron_variant,,ENST00000561065,;LMX1B,intron_variant,,ENST00000526117,;"	"A"	"ENSG00000136944"	"ENST00000355497"	"Transcript"	"intron_variant"	"-/5809"	"-/1221"	"-/406"	""	""	""	"1"	NA	1	"LMX1B"	"HGNC"	6654	"protein_coding"	"YES"	"CCDS55343.1"	"ENSP00000347684"	"O60663"	"Q9UE66,B7ZLH2"	"UPI0001CE94D0"	"NM_001174146.1"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGG"	"777de60c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.177083333333333	"WGS"	FALSE
"17658"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	130900866	130900866	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	39	"34"	5	29	"29"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"777e2ab8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128205128205128	"WGS"	FALSE
"17659"	"ASB6"	140459	"mskcc.org"	"GRCh37"	"9"	132407810	132407810	"+"	"5'Flank"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000277458"	""	65	"52"	13	58	"58"	0	"ASB6,upstream_gene_variant,,ENST00000277458,NM_017873.3;ASB6,upstream_gene_variant,,ENST00000277459,NM_177999.2;ASB6,upstream_gene_variant,,ENST00000450050,;RP11-483H20.4,downstream_gene_variant,,ENST00000455074,;"	"T"	"ENSG00000148331"	"ENST00000277458"	"Transcript"	"upstream_gene_variant"	"-/2330"	"-/1266"	"-/421"	""	""	""	"1"	"3366"	-1	"ASB6"	"HGNC"	17181	"protein_coding"	"YES"	"CCDS6924.1"	"ENSP00000277458"	"Q9NWX5"	""	"UPI000004A09F"	"NM_017873.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"777e8896-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"17660"	"ASB6"	140459	"mskcc.org"	"GRCh37"	"9"	132407811	132407811	"+"	"5'Flank"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000277458"	""	64	"52"	12	58	"58"	0	"ASB6,upstream_gene_variant,,ENST00000277458,NM_017873.3;ASB6,upstream_gene_variant,,ENST00000277459,NM_177999.2;ASB6,upstream_gene_variant,,ENST00000450050,;RP11-483H20.4,downstream_gene_variant,,ENST00000455074,;"	"A"	"ENSG00000148331"	"ENST00000277458"	"Transcript"	"upstream_gene_variant"	"-/2330"	"-/1266"	"-/421"	""	""	""	"1"	"3367"	-1	"ASB6"	"HGNC"	17181	"protein_coding"	"YES"	"CCDS6924.1"	"ENSP00000277458"	"Q9NWX5"	""	"UPI000004A09F"	"NM_017873.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"777e894a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1875	"WGS"	FALSE
"17661"	"ASB6"	140459	"mskcc.org"	"GRCh37"	"9"	132407812	132407812	"+"	"5'Flank"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000277458"	""	65	"52"	13	58	"58"	0	"ASB6,upstream_gene_variant,,ENST00000277458,NM_017873.3;ASB6,upstream_gene_variant,,ENST00000277459,NM_177999.2;ASB6,upstream_gene_variant,,ENST00000450050,;RP11-483H20.4,downstream_gene_variant,,ENST00000455074,;"	"T"	"ENSG00000148331"	"ENST00000277458"	"Transcript"	"upstream_gene_variant"	"-/2330"	"-/1266"	"-/421"	""	""	""	"1"	"3368"	-1	"ASB6"	"HGNC"	17181	"protein_coding"	"YES"	"CCDS6924.1"	"ENSP00000277458"	"Q9NWX5"	""	"UPI000004A09F"	"NM_017873.3"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"777e89ea-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"17662"	"PRRX2"	51450	"mskcc.org"	"GRCh37"	"9"	132473798	132473798	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.260-7712C>A"	""	""	"ENST00000372469"	""	51	"43"	8	44	"44"	0	"PRRX2,intron_variant,,ENST00000372469,NM_016307.3;RP11-483H20.6,downstream_gene_variant,,ENST00000440413,;"	"A"	"ENSG00000167157"	"ENST00000372469"	"Transcript"	"intron_variant"	"-/1233"	"-/762"	"-/253"	""	""	""	"1"	NA	1	"PRRX2"	"HGNC"	21338	"protein_coding"	"YES"	"CCDS6926.1"	"ENSP00000361547"	"Q99811"	""	"UPI0000131D13"	"NM_016307.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"777e8d50-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.156862745098039	"WGS"	FALSE
"17663"	"FNBP1"	23048	"mskcc.org"	"GRCh37"	"9"	132729778	132729778	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.346-8946C>T"	""	""	"ENST00000446176"	""	60	"51"	9	29	"29"	0	"FNBP1,intron_variant,,ENST00000420781,;FNBP1,intron_variant,,ENST00000446176,NM_015033.2;FNBP1,intron_variant,,ENST00000449089,;FNBP1,intron_variant,,ENST00000355681,;"	"A"	"ENSG00000187239"	"ENST00000446176"	"Transcript"	"intron_variant"	"-/5393"	"-/1854"	"-/617"	""	""	""	"1"	NA	-1	"FNBP1"	"HGNC"	17069	"protein_coding"	"YES"	"CCDS48040.1"	"ENSP00000413625"	"Q96RU3"	"B7ZL12"	"UPI000022408C"	"NM_015033.2"	""	""	""	"4/16"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"777e9994-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.15	"WGS"	TRUE
"17664"	"C9orf171"	389799	"mskcc.org"	"GRCh37"	"9"	135334160	135334160	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.196-23537A>G"	""	""	"ENST00000343036"	""	73	"58"	15	57	"57"	0	"C9orf171,intron_variant,,ENST00000343036,NM_207417.1;C9orf171,intron_variant,,ENST00000393216,NM_001282957.1;C9orf171,intron_variant,,ENST00000393215,;"	"G"	"ENSG00000188523"	"ENST00000343036"	"Transcript"	"intron_variant"	"-/1818"	"-/963"	"-/320"	""	""	""	"1"	NA	1	"C9orf171"	"HGNC"	33776	"protein_coding"	"YES"	"CCDS6949.1"	"ENSP00000343290"	"Q6ZQR2"	""	"UPI00001C109C"	"NM_207417.1"	""	""	""	"1/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"777f457e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.205479452054795	"WGS"	FALSE
"17665"	"C9orf171"	389799	"mskcc.org"	"GRCh37"	"9"	135401885	135401885	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.633-11103C>T"	""	""	"ENST00000343036"	""	72	"57"	15	59	"59"	0	"C9orf171,intron_variant,,ENST00000343036,NM_207417.1;C9orf171,intron_variant,,ENST00000393216,NM_001282957.1;"	"T"	"ENSG00000188523"	"ENST00000343036"	"Transcript"	"intron_variant"	"-/1818"	"-/963"	"-/320"	""	""	""	"1"	NA	1	"C9orf171"	"HGNC"	33776	"protein_coding"	"YES"	"CCDS6949.1"	"ENSP00000343290"	"Q6ZQR2"	""	"UPI00001C109C"	"NM_207417.1"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"777f498e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.208333333333333	"WGS"	FALSE
"17666"	"AK8"	158067	"mskcc.org"	"GRCh37"	"9"	135614040	135614040	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1122-11119C>T"	""	""	"ENST00000298545"	""	61	"52"	9	52	"52"	0	"AK8,intron_variant,,ENST00000298545,NM_152572.2;AK8,intron_variant,,ENST00000477396,;AK8,intron_variant,,ENST00000476719,;"	"A"	"ENSG00000165695"	"ENST00000298545"	"Transcript"	"intron_variant"	"-/2072"	"-/1440"	"-/479"	""	""	""	"1"	NA	-1	"AK8"	"HGNC"	26526	"protein_coding"	"YES"	"CCDS6954.1"	"ENSP00000298545"	"Q96MA6"	""	"UPI0000071236"	"NM_152572.2"	""	""	""	"11/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"777f52ee-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147540983606557	"WGS"	FALSE
"17667"	"OBP2B"	29989	"mskcc.org"	"GRCh37"	"9"	136088104	136088104	"+"	"5'Flank"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000372034"	""	88	"70"	18	46	"46"	0	"OBP2B,upstream_gene_variant,,ENST00000372034,NM_014581.2;OBP2B,upstream_gene_variant,,ENST00000372032,;OBP2B,upstream_gene_variant,,ENST00000461961,;OBP2B,upstream_gene_variant,,ENST00000473737,;"	"A"	"ENSG00000171102"	"ENST00000372034"	"Transcript"	"upstream_gene_variant"	"-/691"	"-/513"	"-/170"	""	""	""	"1"	"3476"	-1	"OBP2B"	"HGNC"	23381	"protein_coding"	"YES"	"CCDS6961.1"	"ENSP00000361104"	"Q9NPH6"	""	"UPI00000377BC"	"NM_014581.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"777f85c0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.204545454545455	"WGS"	FALSE
"17668"	"LCN1P2"	0	"mskcc.org"	"GRCh37"	"9"	136186980	136186980	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000372030"	""	66	"59"	7	57	"57"	0	"LCN1P2,downstream_gene_variant,,ENST00000372030,;"	"G"	"ENSG00000204031"	"ENST00000372030"	"Transcript"	"downstream_gene_variant"	"-/223"	""	""	""	""	""	"1"	"1676"	1	"LCN1P2"	"HGNC"	23680	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"777f9b82-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.106060606060606	"WGS"	FALSE
"17669"	"PPP1R26-AS1"	100506599	"mskcc.org"	"GRCh37"	"9"	138349769	138349769	"+"	"3'Flank"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000603624"	""	47	"32"	15	50	"50"	0	"PPP1R26-AS1,downstream_gene_variant,,ENST00000603624,;"	"A"	"ENSG00000225361"	"ENST00000603624"	"Transcript"	"downstream_gene_variant"	"-/2919"	""	""	""	""	""	"1"	"4804"	-1	"PPP1R26-AS1"	"HGNC"	48717	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"7780f414-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.319148936170213	"WGS"	FALSE
"17670"	"PPP1R26"	9858	"mskcc.org"	"GRCh37"	"9"	138373639	138373639	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-328-890A>G"	""	""	"ENST00000356818"	""	66	"61"	5	43	"43"	0	"PPP1R26,intron_variant,,ENST00000356818,NM_014811.3;PPP1R26,intron_variant,,ENST00000605286,;PPP1R26,intron_variant,,ENST00000604351,;PPP1R26,upstream_gene_variant,,ENST00000401470,;PPP1R26,upstream_gene_variant,,ENST00000605660,;PPP1R26-AS1,upstream_gene_variant,,ENST00000455039,;PPP1R26-AS1,upstream_gene_variant,,ENST00000603893,;PPP1R26-AS1,upstream_gene_variant,,ENST00000605260,;PPP1R26,upstream_gene_variant,,ENST00000602993,;"	"G"	"ENSG00000196422"	"ENST00000356818"	"Transcript"	"intron_variant"	"-/4932"	"-/3630"	"-/1209"	""	""	""	"1"	NA	1	"PPP1R26"	"HGNC"	29089	"protein_coding"	"YES"	"CCDS6988.1"	"ENSP00000349274"	"Q5T8A7"	"Q5T8A6"	"UPI000013DB17"	"NM_014811.3"	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"7780f554-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0757575757575758	"WGS"	FALSE
"17671"	"NELFB"	25920	"mskcc.org"	"GRCh37"	"9"	140154647	140154647	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.598-2842G>A"	""	""	"ENST00000343053"	""	49	"44"	5	43	"43"	0	"NELFB,intron_variant,,ENST00000343053,NM_015456.3;"	"A"	"ENSG00000188986"	"ENST00000343053"	"Transcript"	"intron_variant"	"-/2698"	"-/1743"	"-/580"	""	""	""	"1"	NA	1	"NELFB"	"HGNC"	24324	"protein_coding"	"YES"	"CCDS7040.1"	"ENSP00000339495"	"Q8WX92"	""	"UPI0000070699"	"NM_015456.3"	""	""	""	"4/12"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"7781c84e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WGS"	FALSE
"17672"	"RP11-188C12.3"	100133077	"mskcc.org"	"GRCh37"	"9"	140764438	140764438	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.2910-1749A>T"	""	""	"ENST00000371390"	""	44	"39"	5	50	"50"	0	"RP11-188C12.3,intron_variant,,ENST00000371390,;RP11-188C12.3,intron_variant,,ENST00000587008,;EHMT1,3_prime_UTR_variant,,ENST00000462942,;"	"A"	"ENSG00000203987"	"ENST00000371390"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/3222"	""	""	""	""	""	"1"	NA	-1	"RP11-188C12.3"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	""	""	""	"3/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTC"	"77827ef6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WGS"	FALSE
"17673"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	631552	631552	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"40"	9	42	"42"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7784744a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.183673469387755	"WGS"	FALSE
"17674"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	689594	689594	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	45	"41"	4	28	"28"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"778489d0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"17675"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	717624	717624	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	58	"50"	8	47	"47"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7784a1d6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WGS"	FALSE
"17676"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	767110	767110	"+"	"IGR"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	73	"60"	13	38	"38"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"7784b806-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.178082191780822	"WGS"	FALSE
"17677"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	1220870	1220870	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"35"	6	44	"44"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTT"	"77855644-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.146341463414634	"WGS"	FALSE
"17678"	"ZBED1"	9189	"mskcc.org"	"GRCh37"	"X"	2418309	2418309	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-54+549G>A"	""	""	"ENST00000381223"	""	53	"42"	11	40	"40"	0	"ZBED1,intron_variant,,ENST00000381223,NM_004729.3,NM_001171136.1,NM_001171135.1;ZBED1,intron_variant,,ENST00000381222,;ZBED1,intron_variant,,ENST00000381218,;DHRSX,intron_variant,,ENST00000334651,NM_145177.2;ZBED1,intron_variant,,ENST00000461691,;DHRSX,intron_variant,,ENST00000444280,;DHRSX,intron_variant,,ENST00000412516,;DHRSX,intron_variant,,ENST00000430536,;DHRSX,intron_variant,,ENST00000478825,;DHRSX,intron_variant,,ENST00000441131,;"	"T"	"ENSG00000214717"	"ENST00000381223"	"Transcript"	"intron_variant"	"-/4510"	"-/2085"	"-/694"	""	""	""	"1"	NA	-1	"ZBED1"	"HGNC"	447	"protein_coding"	"YES"	"CCDS14118.1"	"ENSP00000370621"	"O96006"	"C9JXP4"	"UPI0000073DE9"	"NM_004729.3,NM_001171136.1,NM_001171135.1"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7786b2a0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.207547169811321	"WGS"	FALSE
"17679"	"ENSR00000259015"	0	"mskcc.org"	"GRCh37"	"X"	3061636	3061636	"+"	"IGR"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00000259015"	""	38	"32"	6	28	"28"	0	""	"A"	""	"ENSR00000259015"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTC"	"7786d532-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"17680"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	3083494	3083494	"+"	"IGR"	"SNP"	"C"	"G"	"G"	"rs199533344"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"23"	19	29	"28"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	"rs199533344"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7786d5dc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.452380952380952	"WGS"	FALSE
"17681"	"RP11-706O15.1"	101930102	"mskcc.org"	"GRCh37"	"X"	3756453	3756453	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.142+4929A>C"	""	""	"ENST00000425492"	""	42	"36"	6	18	"18"	0	"RP11-706O15.1,intron_variant,,ENST00000425492,;RP11-706O15.1,intron_variant,,ENST00000490920,;"	"G"	"ENSG00000205664"	"ENST00000425492"	"Transcript"	"intron_variant"	"-/856"	"-/234"	"-/77"	""	""	""	"1"	NA	-1	"RP11-706O15.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000409862"	""	"B1B108"	"UPI000059DAB6"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTT"	"77870430-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"17682"	"RP11-706O15.1"	101930102	"mskcc.org"	"GRCh37"	"X"	3756471	3756471	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.142+4911A>G"	""	""	"ENST00000425492"	""	38	"34"	4	20	"20"	0	"RP11-706O15.1,intron_variant,,ENST00000425492,;RP11-706O15.1,intron_variant,,ENST00000490920,;"	"C"	"ENSG00000205664"	"ENST00000425492"	"Transcript"	"intron_variant"	"-/856"	"-/234"	"-/77"	""	""	""	"1"	NA	-1	"RP11-706O15.1"	"Clone_based_vega_gene"	NA	"protein_coding"	"YES"	""	"ENSP00000409862"	""	"B1B108"	"UPI000059DAB6"	""	""	""	""	"1/3"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"778704da-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"17683"	"NLGN4X"	57502	"mskcc.org"	"GRCh37"	"X"	5855538	5855538	"+"	"Intron"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.626-28258G>T"	""	""	"ENST00000381095"	""	57	"37"	20	28	"28"	0	"NLGN4X,intron_variant,,ENST00000381095,NM_181332.1,NM_001282146.1,NM_001282145.1;NLGN4X,intron_variant,,ENST00000381093,;NLGN4X,intron_variant,,ENST00000275857,NM_020742.2;NLGN4X,intron_variant,,ENST00000381092,;NLGN4X,intron_variant,,ENST00000538097,;"	"A"	"ENSG00000146938"	"ENST00000381095"	"Transcript"	"intron_variant"	"-/5870"	"-/2451"	"-/816"	""	""	""	"1"	NA	-1	"NLGN4X"	"HGNC"	14287	"protein_coding"	"YES"	"CCDS14126.1"	"ENSP00000370485"	"Q8N0W4"	"B3KMT6"	"UPI0000072EC5"	"NM_181332.1,NM_001282146.1,NM_001282145.1"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCG"	"778730c2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.350877192982456	"WGS"	FALSE
"17684"	"NLGN4X"	57502	"mskcc.org"	"GRCh37"	"X"	6017420	6017420	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.472+51616A>G"	""	""	"ENST00000381095"	""	51	"45"	6	25	"25"	0	"NLGN4X,intron_variant,,ENST00000381095,NM_181332.1,NM_001282146.1,NM_001282145.1;NLGN4X,intron_variant,,ENST00000381093,;NLGN4X,intron_variant,,ENST00000275857,NM_020742.2;NLGN4X,intron_variant,,ENST00000381092,;NLGN4X,intron_variant,,ENST00000538097,;"	"C"	"ENSG00000146938"	"ENST00000381095"	"Transcript"	"intron_variant"	"-/5870"	"-/2451"	"-/816"	""	""	""	"1"	NA	-1	"NLGN4X"	"HGNC"	14287	"protein_coding"	"YES"	"CCDS14126.1"	"ENSP00000370485"	"Q8N0W4"	"B3KMT6"	"UPI0000072EC5"	"NM_181332.1,NM_001282146.1,NM_001282145.1"	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTA"	"77873216-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"17685"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	7527001	7527001	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"16"	3	19	"19"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAG"	"77874d1e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.157894736842105	"WGS"	FALSE
"17686"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	8045313	8045313	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	50	"45"	5	44	"44"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"77875afc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"17687"	"KAL1"	3730	"mskcc.org"	"GRCh37"	"X"	8497794	8497794	"+"	"3'UTR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*3242G>T"	""	""	"ENST00000262648"	"14/14"	51	"38"	13	28	"28"	0	"KAL1,3_prime_UTR_variant,,ENST00000262648,NM_000216.2;"	"A"	"ENSG00000011201"	"ENST00000262648"	"Transcript"	"3_prime_UTR_variant"	"5435/6314"	"-/2043"	"-/680"	""	""	""	"1"	NA	-1	"KAL1"	"HGNC"	6211	"protein_coding"	"YES"	"CCDS14130.1"	"ENSP00000262648"	"P23352"	""	"UPI00001AE843"	"NM_000216.2"	""	""	"14/14"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACC"	"77876a10-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.254901960784314	"WGS"	FALSE
"17688"	"KAL1"	3730	"mskcc.org"	"GRCh37"	"X"	8497795	8497795	"+"	"3'UTR"	"SNP"	"C"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.*3241G>C"	""	""	"ENST00000262648"	"14/14"	50	"37"	13	29	"29"	0	"KAL1,3_prime_UTR_variant,,ENST00000262648,NM_000216.2;"	"G"	"ENSG00000011201"	"ENST00000262648"	"Transcript"	"3_prime_UTR_variant"	"5434/6314"	"-/2043"	"-/680"	""	""	""	"1"	NA	-1	"KAL1"	"HGNC"	6211	"protein_coding"	"YES"	"CCDS14130.1"	"ENSP00000262648"	"P23352"	""	"UPI00001AE843"	"NM_000216.2"	""	""	"14/14"	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCA"	"77876aba-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.26	"WGS"	FALSE
"17689"	"KAL1"	3730	"mskcc.org"	"GRCh37"	"X"	8523273	8523273	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"rs774795583"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1208-1134C>T"	""	""	"ENST00000262648"	""	49	"22"	27	29	"28"	1	"KAL1,intron_variant,,ENST00000262648,NM_000216.2;"	"A"	"ENSG00000011201"	"ENST00000262648"	"Transcript"	"intron_variant"	"-/6314"	"-/2043"	"-/680"	""	""	"rs774795583"	"1"	NA	-1	"KAL1"	"HGNC"	6211	"protein_coding"	"YES"	"CCDS14130.1"	"ENSP00000262648"	"P23352"	""	"UPI00001AE843"	"NM_000216.2"	""	""	""	"8/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"77876cb8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.551020408163265	"WGS"	FALSE
"17690"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	13081885	13081885	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	35	"30"	5	33	"33"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAC"	"7787e210-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"17691"	"GLRA2"	2742	"mskcc.org"	"GRCh37"	"X"	14696516	14696516	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.931-12316G>T"	""	""	"ENST00000218075"	""	60	"29"	31	30	"30"	0	"GLRA2,intron_variant,,ENST00000218075,NM_002063.3;GLRA2,intron_variant,,ENST00000443437,NM_001171942.1,NM_001118885.1;GLRA2,intron_variant,,ENST00000355020,NM_001118886.1;"	"T"	"ENSG00000101958"	"ENST00000218075"	"Transcript"	"intron_variant"	"-/3216"	"-/1359"	"-/452"	""	""	""	"1"	NA	1	"GLRA2"	"HGNC"	4327	"protein_coding"	"YES"	"CCDS14160.1"	"ENSP00000218075"	"P23416"	""	"UPI000012BA64"	"NM_002063.3"	""	""	""	"7/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"778803bc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.516666666666667	"WGS"	FALSE
"17692"	"MAGEB17"	645864	"mskcc.org"	"GRCh37"	"X"	16187033	16187033	"+"	"Intron"	"SNP"	"T"	"T"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-50+1127T>A"	""	""	"ENST00000400004"	""	32	"29"	3	25	"25"	0	"MAGEB17,splice_donor_variant,,ENST00000400003,;MAGEB17,intron_variant,,ENST00000400004,NM_001277307.1;MAGEB17,upstream_gene_variant,,ENST00000329538,;RP11-431J24.2,intron_variant,,ENST00000435789,;"	"A"	"ENSG00000182798"	"ENST00000400004"	"Transcript"	"intron_variant"	"-/1434"	"-/1011"	"-/336"	""	""	""	"1"	NA	1	"MAGEB17"	"HGNC"	17418	"protein_coding"	"YES"	"CCDS59524.1"	"ENSP00000382884"	"A8MXT2"	""	"UPI00001602F1"	"NM_001277307.1"	""	""	""	"1/1"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTA"	"77881b90-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"17693"	"RP11-40F8.2"	100873065	"mskcc.org"	"GRCh37"	"X"	23175082	23175082	"+"	"Intron"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.260-92844G>C"	""	""	"ENST00000608254"	""	49	"43"	6	26	"26"	0	"RP11-40F8.2,intron_variant,,ENST00000608254,;"	"G"	"ENSG00000233067"	"ENST00000608254"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/557"	""	""	""	""	""	"1"	NA	-1	"RP11-40F8.2"	"Clone_based_vega_gene"	NA	"lincRNA"	""	""	""	""	""	""	""	""	""	""	"2/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7788985e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.122448979591837	"WGS"	FALSE
"17694"	"PRDX4"	10549	"mskcc.org"	"GRCh37"	"X"	23698048	23698048	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.599+644G>C"	""	""	"ENST00000379341"	""	45	"41"	4	18	"18"	0	"PRDX4,intron_variant,,ENST00000379341,NM_006406.1;PRDX4,intron_variant,,ENST00000439422,;PRDX4,downstream_gene_variant,,ENST00000379331,;PRDX4,downstream_gene_variant,,ENST00000379349,;PRDX4,downstream_gene_variant,,ENST00000495599,;"	"C"	"ENSG00000123131"	"ENST00000379341"	"Transcript"	"intron_variant"	"-/1005"	"-/816"	"-/271"	""	""	""	"1"	NA	1	"PRDX4"	"HGNC"	17169	"protein_coding"	"YES"	"CCDS14206.1"	"ENSP00000368646"	"Q13162"	""	"UPI00001314E8"	"NM_006406.1"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"77889e58-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0888888888888889	"WGS"	FALSE
"17695"	"PRDX4"	10549	"mskcc.org"	"GRCh37"	"X"	23698055	23698055	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.599+651C>T"	""	""	"ENST00000379341"	""	49	"42"	7	19	"19"	0	"PRDX4,intron_variant,,ENST00000379341,NM_006406.1;PRDX4,intron_variant,,ENST00000439422,;PRDX4,downstream_gene_variant,,ENST00000379331,;PRDX4,downstream_gene_variant,,ENST00000379349,;PRDX4,downstream_gene_variant,,ENST00000495599,;"	"T"	"ENSG00000123131"	"ENST00000379341"	"Transcript"	"intron_variant"	"-/1005"	"-/816"	"-/271"	""	""	""	"1"	NA	1	"PRDX4"	"HGNC"	17169	"protein_coding"	"YES"	"CCDS14206.1"	"ENSP00000368646"	"Q13162"	""	"UPI00001314E8"	"NM_006406.1"	""	""	""	"4/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"77889f0c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"17696"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	23993276	23993276	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	28	"24"	4	28	"28"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"7788a3e4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.142857142857143	"WGS"	FALSE
"17697"	"DCAF8L2"	347442	"mskcc.org"	"GRCh37"	"X"	27612204	27612204	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-342+3647A>T"	""	""	"ENST00000451261"	""	55	"51"	4	31	"31"	0	"DCAF8L2,intron_variant,,ENST00000451261,NM_001136533.1;DCAF8L2,intron_variant,,ENST00000431122,;DCAF8L2,intron_variant,,ENST00000580017,;DCAF8L2,intron_variant,,ENST00000583068,;DCAF8L2,intron_variant,,ENST00000578111,;"	"T"	"ENSG00000189186"	"ENST00000451261"	"Transcript"	"intron_variant"	"-/2295"	"-/1896"	"-/631"	""	""	""	"1"	NA	1	"DCAF8L2"	"HGNC"	31811	"protein_coding"	"YES"	"CCDS59162.1"	"ENSP00000462745"	"P0C7V8"	"J3QRI4"	"UPI000183CBD9"	"NM_001136533.1"	""	""	""	"1/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"7788e5ac-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0727272727272727	"WGS"	FALSE
"17698"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	27813534	27813534	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	63	"37"	26	34	"33"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"7788ebc4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.412698412698413	"WGS"	FALSE
"17699"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	28249667	28249667	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	50	"36"	14	25	"25"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAA"	"7788f6fa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.28	"WGS"	FALSE
"17700"	"RP11-149B9.2"	0	"mskcc.org"	"GRCh37"	"X"	28590637	28590637	"+"	"Intron"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.207-439T>A"	""	""	"ENST00000456037"	""	59	"35"	24	43	"43"	0	"RP11-149B9.2,intron_variant,,ENST00000456037,;"	"T"	"ENSG00000223742"	"ENST00000456037"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/756"	""	""	""	""	""	"1"	NA	-1	"RP11-149B9.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	""	""	""	"2/2"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"7788fbbe-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.406779661016949	"WGS"	FALSE
"17701"	"DMD"	1756	"mskcc.org"	"GRCh37"	"X"	32405887	32405887	"+"	"Intron"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4519-1305C>A"	""	""	"ENST00000357033"	""	58	"29"	29	37	"37"	0	"DMD,intron_variant,,ENST00000357033,NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000378677,NM_004009.3,NM_004010.3,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000420596,;DMD,intron_variant,,ENST00000448370,;DMD,intron_variant,,ENST00000488902,;"	"T"	"ENSG00000198947"	"ENST00000357033"	"Transcript"	"intron_variant"	"-/13956"	"-/11058"	"-/3685"	""	""	""	"1"	NA	-1	"DMD"	"HGNC"	2928	"protein_coding"	"YES"	"CCDS14233.1"	"ENSP00000354923"	""	"Q9UPB5,Q9UPB4,Q9UMK8,Q9UMK7,Q9UMG1,Q9UME2,Q9UEH4,Q8WYF6,Q8WYF5,Q8WYF4,Q8WYF3,Q8WYF2,Q8WYF1,Q8WYF0,Q8WYE9,Q8WYE8,Q8WYE7,Q8WYE6,Q8WYE5,Q8WYE4,Q8WYE3,Q8WYE2,Q8WYE1,Q8WYD9,Q8WYD8,Q8WYD7,Q8WYD6,Q8WYD5,Q8WYD4,Q8WYD3,Q8WYD2,Q8WYD1,Q8WYD0,Q8WYC9,Q8WYC8,Q8WYC7,Q8WYC6,Q8WYC5,Q8WYC4,Q8WYC3,Q8WYC2,Q8WYC1,Q8WYC0,Q8WYB9,Q8WYB8,Q8WTQ2,Q7KZ40,Q7KYP7,Q548X2,Q14205,F2WSI7,E7EQS5"	"UPI000049E111"	"NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3"	""	""	""	"32/78"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TGT"	"77895c1c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.5	"WGS"	FALSE
"17702"	"DMD"	1756	"mskcc.org"	"GRCh37"	"X"	32750949	32750949	"+"	"Intron"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.650-33539C>G"	""	""	"ENST00000357033"	""	58	"52"	6	32	"32"	0	"DMD,intron_variant,,ENST00000357033,NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000378677,NM_004009.3,NM_004010.3,NM_004014.2,NM_004012.3,NM_004011.3;DMD,intron_variant,,ENST00000288447,;DMD,intron_variant,,ENST00000447523,;DMD,intron_variant,,ENST00000420596,;DMD,intron_variant,,ENST00000448370,;DMD,intron_variant,,ENST00000488902,;DMD,intron_variant,,ENST00000480751,;"	"C"	"ENSG00000198947"	"ENST00000357033"	"Transcript"	"intron_variant"	"-/13956"	"-/11058"	"-/3685"	""	""	""	"1"	NA	-1	"DMD"	"HGNC"	2928	"protein_coding"	"YES"	"CCDS14233.1"	"ENSP00000354923"	""	"Q9UPB5,Q9UPB4,Q9UMK8,Q9UMK7,Q9UMG1,Q9UME2,Q9UEH4,Q8WYF6,Q8WYF5,Q8WYF4,Q8WYF3,Q8WYF2,Q8WYF1,Q8WYF0,Q8WYE9,Q8WYE8,Q8WYE7,Q8WYE6,Q8WYE5,Q8WYE4,Q8WYE3,Q8WYE2,Q8WYE1,Q8WYD9,Q8WYD8,Q8WYD7,Q8WYD6,Q8WYD5,Q8WYD4,Q8WYD3,Q8WYD2,Q8WYD1,Q8WYD0,Q8WYC9,Q8WYC8,Q8WYC7,Q8WYC6,Q8WYC5,Q8WYC4,Q8WYC3,Q8WYC2,Q8WYC1,Q8WYC0,Q8WYB9,Q8WYB8,Q8WTQ2,Q7KZ40,Q7KYP7,Q548X2,Q14205,F2WSI7,E7EQS5"	"UPI000049E111"	"NM_004007.2,NM_000109.3,NM_004006.2,NM_004014.2,NM_004012.3,NM_004011.3"	""	""	""	"7/78"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGA"	"77896022-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.103448275862069	"WGS"	FALSE
"17703"	"OTC"	5009	"mskcc.org"	"GRCh37"	"X"	38245638	38245638	"+"	"Intron"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.386+4956A>T"	""	""	"ENST00000039007"	""	39	"34"	5	24	"24"	0	"OTC,intron_variant,,ENST00000039007,NM_000531.5;TM4SF2,intron_variant,,ENST00000465127,;OTC,intron_variant,,ENST00000488812,;"	"T"	"ENSG00000036473"	"ENST00000039007"	"Transcript"	"intron_variant"	"-/1585"	"-/1065"	"-/354"	""	""	""	"1"	NA	1	"OTC"	"HGNC"	8512	"protein_coding"	"YES"	"CCDS14247.1"	"ENSP00000039007"	"P00480"	""	"UPI000013C550"	"NM_000531.5"	""	""	""	"4/9"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"7789c378-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.128205128205128	"WGS"	FALSE
"17704"	"NYX"	60506	"mskcc.org"	"GRCh37"	"X"	41336984	41336984	"+"	"3'Flank"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000342595"	""	27	"24"	3	20	"20"	0	"NYX,downstream_gene_variant,,ENST00000342595,NM_022567.2;NYX,downstream_gene_variant,,ENST00000378220,;NYX,downstream_gene_variant,,ENST00000486842,;"	"A"	"ENSG00000188937"	"ENST00000342595"	"Transcript"	"downstream_gene_variant"	"-/2713"	"-/1446"	"-/481"	""	""	""	"1"	"2021"	1	"NYX"	"HGNC"	8082	"protein_coding"	"YES"	"CCDS14256.1"	"ENSP00000340328"	"Q9GZU5"	""	"UPI0000130B37"	"NM_022567.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCC"	"7789ee98-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"17705"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	44353155	44353155	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	27	"21"	6	24	"24"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"778a179c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.222222222222222	"WGS"	FALSE
"17706"	"RN7SL291P"	0	"mskcc.org"	"GRCh37"	"X"	44628274	44628274	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000487916"	""	30	"24"	6	19	"19"	0	"RN7SL291P,downstream_gene_variant,,ENST00000487916,;"	"G"	"ENSG00000242065"	"ENST00000487916"	"Transcript"	"downstream_gene_variant"	"-/287"	""	""	""	""	""	"1"	"3747"	-1	"RN7SL291P"	"HGNC"	46307	"misc_RNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"778a1cd8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.2	"WGS"	FALSE
"17707"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	45515652	45515652	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"25"	22	34	"34"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"778a2958-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.468085106382979	"WGS"	FALSE
"17708"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	45523727	45523727	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	52	"46"	6	27	"27"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"778a2a0c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.115384615384615	"WGS"	FALSE
"17709"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	46254628	46254628	"+"	"IGR"	"SNP"	"G"	"G"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"34"	4	27	"27"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"778a3416-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"17710"	"JADE3"	9767	"mskcc.org"	"GRCh37"	"X"	46864252	46864252	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.284+6573T>A"	""	""	"ENST00000218343"	""	50	"26"	24	31	"31"	0	"JADE3,intron_variant,,ENST00000218343,NM_014735.3;JADE3,intron_variant,,ENST00000397189,NM_001077445.1;JADE3,intron_variant,,ENST00000424392,;JADE3,intron_variant,,ENST00000455411,;"	"A"	"ENSG00000102221"	"ENST00000218343"	"Transcript"	"intron_variant"	"-/4931"	"-/2472"	"-/823"	""	""	""	"1"	NA	1	"JADE3"	"HGNC"	22982	"protein_coding"	"YES"	"CCDS14271.1"	"ENSP00000218343"	"Q92613"	"F2Z3N8,F2Z2B6"	"UPI0000073DE6"	"NM_014735.3"	""	""	""	"4/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"778a40be-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.48	"WGS"	FALSE
"17711"	"OTUD5"	55593	"mskcc.org"	"GRCh37"	"X"	48813875	48813875	"+"	"Intron"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.594+364A>C"	""	""	"ENST00000156084"	""	36	"24"	12	23	"23"	0	"OTUD5,intron_variant,,ENST00000156084,NM_017602.3;OTUD5,intron_variant,,ENST00000376488,;OTUD5,intron_variant,,ENST00000396743,NM_001136157.1,NM_001136158.1;OTUD5,intron_variant,,ENST00000455452,;OTUD5,intron_variant,,ENST00000428668,NM_001136159.1;KCND1,downstream_gene_variant,,ENST00000218176,NM_004979.4;KCND1,downstream_gene_variant,,ENST00000376477,;RNU6-722P,downstream_gene_variant,,ENST00000411377,;OTUD5,intron_variant,,ENST00000484499,;"	"G"	"ENSG00000068308"	"ENST00000156084"	"Transcript"	"intron_variant"	"-/2740"	"-/1716"	"-/571"	""	""	""	"1"	NA	-1	"OTUD5"	"HGNC"	25402	"protein_coding"	"YES"	"CCDS14313.1"	"ENSP00000156084"	"Q96G74"	"H7BZQ3"	"UPI000006ED2A"	"NM_017602.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"778a61a2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.333333333333333	"WGS"	FALSE
"17712"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	50715668	50715668	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	40	"28"	12	36	"35"	1	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTG"	"778a8e02-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"17713"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	53940957	53940957	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	38	"22"	16	25	"24"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"778ac886-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.421052631578947	"WGS"	FALSE
"17714"	"WNK3"	65267	"mskcc.org"	"GRCh37"	"X"	54252700	54252700	"+"	"Intron"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4870+2447G>A"	""	""	"ENST00000354646"	""	33	"29"	4	21	"21"	0	"WNK3,intron_variant,,ENST00000354646,NM_020922.4;WNK3,intron_variant,,ENST00000375169,NM_001002838.3;WNK3,intron_variant,,ENST00000375159,;RPL7AP71,downstream_gene_variant,,ENST00000451120,;"	"T"	"ENSG00000196632"	"ENST00000354646"	"Transcript"	"intron_variant"	"-/11341"	"-/5403"	"-/1800"	""	""	""	"1"	NA	-1	"WNK3"	"HGNC"	14543	"protein_coding"	"YES"	"CCDS14357.1"	"ENSP00000346667"	"Q9BYP7"	"B1AQN8"	"UPI00001AF003"	"NM_020922.4"	""	""	""	"22/23"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCG"	"778acdf4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"17715"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	64069890	64069890	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"36"	11	31	"30"	1	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"778c2eec-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.234042553191489	"WGS"	FALSE
"17716"	"RP11-30M20.1"	0	"mskcc.org"	"GRCh37"	"X"	65273222	65273222	"+"	"3'Flank"	"SNP"	"A"	"A"	"C"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000311910"	""	29	"25"	4	10	"10"	0	"RP11-30M20.1,downstream_gene_variant,,ENST00000311910,;"	"C"	"ENSG00000215168"	"ENST00000311910"	"Transcript"	"downstream_gene_variant"	"-/1001"	""	""	""	""	""	"1"	"2207"	-1	"RP11-30M20.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"778c41e8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.137931034482759	"WGS"	FALSE
"17717"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	67985631	67985631	"+"	"IGR"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	31	"27"	4	31	"31"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAG"	"778c6baa-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"17718"	"TEX11"	56159	"mskcc.org"	"GRCh37"	"X"	70072385	70072385	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.570+499G>A"	""	""	"ENST00000395889"	""	40	"26"	14	18	"18"	0	"TEX11,intron_variant,,ENST00000395889,NM_001003811.1;TEX11,intron_variant,,ENST00000374333,NM_031276.2;TEX11,intron_variant,,ENST00000344304,;RP13-278H16.2,upstream_gene_variant,,ENST00000396055,;"	"T"	"ENSG00000120498"	"ENST00000395889"	"Transcript"	"intron_variant"	"-/3133"	"-/2823"	"-/940"	""	""	""	"1"	NA	-1	"TEX11"	"HGNC"	11733	"protein_coding"	"YES"	"CCDS35323.1"	"ENSP00000379226"	"Q8IYF3"	""	"UPI000013CA89"	"NM_001003811.1"	""	""	""	"8/30"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCA"	"778c9440-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.35	"WGS"	FALSE
"17719"	"CXorf65"	158830	"mskcc.org"	"GRCh37"	"X"	70325324	70325324	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.250+526C>T"	""	""	"ENST00000374251"	""	33	"29"	4	18	"18"	0	"CXorf65,intron_variant,,ENST00000374251,NM_001025265.2;FOXO4,downstream_gene_variant,,ENST00000374259,NM_005938.3,NM_001170931.1;IL2RG,downstream_gene_variant,,ENST00000374202,NM_000206.2;FOXO4,downstream_gene_variant,,ENST00000341558,;IL2RG,downstream_gene_variant,,ENST00000487883,;IL2RG,downstream_gene_variant,,ENST00000464642,;IL2RG,downstream_gene_variant,,ENST00000456850,;IL2RG,downstream_gene_variant,,ENST00000482750,;IL2RG,downstream_gene_variant,,ENST00000374188,;FOXO4,downstream_gene_variant,,ENST00000466874,;FOXO4,downstream_gene_variant,,ENST00000464598,;CXorf65,intron_variant,,ENST00000438526,;IL2RG,downstream_gene_variant,,ENST00000276110,;IL2RG,downstream_gene_variant,,ENST00000512747,;CXorf65,downstream_gene_variant,,ENST00000483257,;CXorf65,upstream_gene_variant,,ENST00000466160,;"	"A"	"ENSG00000204165"	"ENST00000374251"	"Transcript"	"intron_variant"	"-/601"	"-/552"	"-/183"	""	""	""	"1"	NA	-1	"CXorf65"	"HGNC"	33713	"protein_coding"	"YES"	"CCDS35324.1"	"ENSP00000363369"	"A6NEN9"	"C9J8K0"	"UPI0000160F66"	"NM_001025265.2"	""	""	""	"3/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"778c9c56-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.121212121212121	"WGS"	FALSE
"17720"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	70892294	70892294	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"25"	22	27	"27"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"778ca5e8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.468085106382979	"WGS"	FALSE
"17721"	"MORF4L1P6"	0	"mskcc.org"	"GRCh37"	"X"	72695866	72695866	"+"	"3'Flank"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000418771"	""	42	"23"	19	22	"22"	0	"MORF4L1P6,downstream_gene_variant,,ENST00000418771,;"	"G"	"ENSG00000233162"	"ENST00000418771"	"Transcript"	"downstream_gene_variant"	"-/268"	""	""	""	""	""	"1"	"1200"	1	"MORF4L1P6"	"HGNC"	39258	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"778cc6d6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.452380952380952	"WGS"	FALSE
"17722"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	74445238	74445238	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	47	"30"	17	32	"32"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"778cf084-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.361702127659574	"WGS"	FALSE
"17723"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	75907958	75907958	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	46	"30"	16	33	"33"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"778d09b6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.347826086956522	"WGS"	FALSE
"17724"	"RNA5SP509"	0	"mskcc.org"	"GRCh37"	"X"	76288674	76288674	"+"	"3'Flank"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000364577"	""	35	"26"	9	27	"27"	0	"RNA5SP509,downstream_gene_variant,,ENST00000364577,;"	"T"	"ENSG00000201447"	"ENST00000364577"	"Transcript"	"downstream_gene_variant"	"-/119"	""	""	""	""	""	"1"	"1426"	1	"RNA5SP509"	"HGNC"	43409	"rRNA"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"778d0d26-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.257142857142857	"WGS"	FALSE
"17725"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	77487661	77487661	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	23	"14"	9	24	"24"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"778d22c0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.391304347826087	"WGS"	FALSE
"17726"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	78770763	78770763	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	51	"46"	5	36	"36"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"778d2e1e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0980392156862745	"WGS"	FALSE
"17727"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	79243862	79243862	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"14"	5	21	"21"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"778d34d6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.263157894736842	"WGS"	FALSE
"17728"	"BRWD3"	254065	"mskcc.org"	"GRCh37"	"X"	79981875	79981875	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs78749589"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1387-1309T>C"	""	""	"ENST00000373275"	""	49	"44"	5	25	"25"	0	"BRWD3,intron_variant,,ENST00000373275,NM_153252.4;BRWD3,upstream_gene_variant,,ENST00000473691,;"	"G"	"ENSG00000165288"	"ENST00000373275"	"Transcript"	"intron_variant"	"-/11381"	"-/5409"	"-/1802"	""	""	"rs78749589"	"1"	NA	-1	"BRWD3"	"HGNC"	17342	"protein_coding"	"YES"	"CCDS14447.1"	"ENSP00000362372"	"Q6RI45"	""	"UPI000045785B"	"NM_153252.4"	""	""	""	"14/40"	""	"G:0.0003"	"G:0"	"G:0"	NA	"G:0"	"G:0"	"G:0.001"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAT"	"778d3f26-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.102040816326531	"WGS"	FALSE
"17729"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	81337513	81337513	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	49	"19"	30	37	"37"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"778d4a98-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.612244897959184	"WGS"	FALSE
"17730"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	83781996	83781996	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"58"	9	31	"31"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"778d75c2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134328358208955	"WGS"	FALSE
"17731"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	87395709	87395709	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	52	"45"	7	33	"33"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"778da93e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.134615384615385	"WGS"	FALSE
"17732"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	90063253	90063253	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	44	"29"	15	34	"34"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"778e4592-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.340909090909091	"WGS"	FALSE
"17733"	"PCDH11X"	27328	"mskcc.org"	"GRCh37"	"X"	91151144	91151144	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3033+16872G>A"	""	""	"ENST00000373094"	""	43	"24"	19	32	"32"	0	"PCDH11X,intron_variant,,ENST00000373094,NM_032968.3;PCDH11X,intron_variant,,ENST00000373097,NM_032969.3;PCDH11X,intron_variant,,ENST00000373088,NM_001168362.1;PCDH11X,intron_variant,,ENST00000406881,NM_001168360.1;PCDH11X,intron_variant,,ENST00000504220,NM_001168361.1;PCDH11X,intron_variant,,ENST00000361655,NM_001168363.1;PCDH11X,intron_variant,,ENST00000298274,;"	"A"	"ENSG00000102290"	"ENST00000373094"	"Transcript"	"intron_variant"	"-/9176"	"-/4044"	"-/1347"	""	""	""	"1"	NA	1	"PCDH11X"	"HGNC"	8656	"protein_coding"	"YES"	"CCDS14461.1"	"ENSP00000362186"	"Q9BZA7"	"Q70LT5,Q70LT4"	"UPI0000070BD8"	"NM_032968.3"	""	""	""	"2/6"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGA"	"778e5c6c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.441860465116279	"WGS"	FALSE
"17734"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	92704550	92704550	"+"	"IGR"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	67	"37"	30	35	"35"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"778e7792-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.447761194029851	"WGS"	FALSE
"17735"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	94715759	94715759	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	57	"51"	6	32	"32"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAG"	"778e96c8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.105263157894737	"WGS"	FALSE
"17736"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	95055006	95055006	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	55	"27"	28	30	"30"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"778e9e98-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.509090909090909	"WGS"	FALSE
"17737"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	98314034	98314034	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	45	"25"	20	33	"33"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"778ee290-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.444444444444444	"WGS"	FALSE
"17738"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	98613570	98613570	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	59	"39"	20	36	"36"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGC"	"778ee57e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.338983050847458	"WGS"	FALSE
"17739"	"XRCC6P5"	442459	"mskcc.org"	"GRCh37"	"X"	98966946	98966946	"+"	"Intron"	"SNP"	"T"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1039+7531A>T"	""	""	"ENST00000399535"	""	64	"31"	33	41	"41"	0	"XRCC6P5,intron_variant,,ENST00000399535,;"	"A"	"ENSG00000215070"	"ENST00000399535"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1347"	""	""	""	""	""	"1"	NA	-1	"XRCC6P5"	"HGNC"	45187	"processed_pseudogene"	""	""	""	""	""	""	""	""	""	""	"2/4"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"778ee6d2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.515625	"WGS"	FALSE
"17740"	"SRPX2"	27286	"mskcc.org"	"GRCh37"	"X"	99912028	99912028	"+"	"Intron"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.164-5145G>A"	""	""	"ENST00000373004"	""	47	"41"	6	27	"27"	0	"SRPX2,intron_variant,,ENST00000373004,NM_014467.2;"	"A"	"ENSG00000102359"	"ENST00000373004"	"Transcript"	"intron_variant"	"-/2138"	"-/1398"	"-/465"	""	""	""	"1"	NA	1	"SRPX2"	"HGNC"	30668	"protein_coding"	"YES"	"CCDS14471.1"	"ENSP00000362095"	"O60687"	""	"UPI000006CCC6"	"NM_014467.2"	""	""	""	"3/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGA"	"778f0284-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.127659574468085	"WGS"	FALSE
"17741"	"SYTL4"	94121	"mskcc.org"	"GRCh37"	"X"	99978248	99978248	"+"	"Intron"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-231+8158C>T"	""	""	"ENST00000455616"	""	33	"15"	18	34	"34"	0	"SYTL4,intron_variant,,ENST00000372981,;SYTL4,intron_variant,,ENST00000455616,;SYTL4,intron_variant,,ENST00000372989,NM_080737.2;SYTL4,intron_variant,,ENST00000454200,;SYTL4,intron_variant,,ENST00000276141,NM_001174068.1;SYTL4,intron_variant,,ENST00000263033,NM_001129896.2;"	"A"	"ENSG00000102362"	"ENST00000455616"	"Transcript"	"intron_variant"	"-/3897"	"-/2016"	"-/671"	""	""	""	"1"	NA	-1	"SYTL4"	"HGNC"	15588	"protein_coding"	"YES"	"CCDS14472.1"	"ENSP00000390252"	"Q96C24"	"B3KUZ4"	"UPI00001AE9F2"	""	""	""	""	"1/17"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"778f03e2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WGS"	FALSE
"17742"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	100136371	100136371	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	30	"21"	9	43	"43"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGT"	"778f07fc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.3	"WGS"	FALSE
"17743"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	100453017	100453017	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	36	"31"	5	24	"24"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"778f0b94-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.138888888888889	"WGS"	FALSE
"17744"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	100453020	100453020	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	36	"30"	6	23	"23"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"778f0c3e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.166666666666667	"WGS"	FALSE
"17745"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	100453028	100453028	"+"	"IGR"	"SNP"	"C"	"C"	"G"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	34	"28"	6	19	"19"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"778f0cf2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"17746"	"ZMAT1"	84460	"mskcc.org"	"GRCh37"	"X"	101139199	101139199	"+"	"Silent"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1200A>C"	"p.="	"p.I400I"	"ENST00000372782"	"7/7"	50	"45"	5	31	"31"	0	"ZMAT1,synonymous_variant,p.=,ENST00000372782,NM_001011657.3;ZMAT1,synonymous_variant,p.=,ENST00000458570,NM_001282401.1;ZMAT1,synonymous_variant,p.=,ENST00000540921,;ZMAT1,non_coding_transcript_exon_variant,,ENST00000494068,;ZMAT1,non_coding_transcript_exon_variant,,ENST00000488347,;ZMAT1,downstream_gene_variant,,ENST00000490757,;"	"G"	"ENSG00000166432"	"ENST00000372782"	"Transcript"	"synonymous_variant"	"1248/3185"	"1200/1917"	"400/638"	"I"	"atA/atC"	""	"1"	NA	-1	"ZMAT1"	"HGNC"	29377	"protein_coding"	"YES"	"CCDS35348.1"	"ENSP00000361868"	"Q5H9K5"	""	"UPI0000198414"	"NM_001011657.3"	""	""	"7/7"	""	"hmmpanther:PTHR23067,hmmpanther:PTHR23067:SF14"	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"LOW"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTA"	"778f2084-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	"PASS"	"FALSE"	0.1	"WGS"	FALSE
"17747"	"LL0XNC01-116E7.1"	0	"mskcc.org"	"GRCh37"	"X"	103164946	103164946	"+"	"3'Flank"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000417646"	""	53	"26"	27	21	"21"	0	"LL0XNC01-116E7.1,downstream_gene_variant,,ENST00000417646,;"	"A"	"ENSG00000234345"	"ENST00000417646"	"Transcript"	"downstream_gene_variant"	"-/1048"	""	""	""	""	""	"1"	"279"	-1	"LL0XNC01-116E7.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"778f3e8e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.509433962264151	"WGS"	FALSE
"17748"	"IL1RAPL2"	26280	"mskcc.org"	"GRCh37"	"X"	104007232	104007232	"+"	"Intron"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.82+103556C>T"	""	""	"ENST00000372582"	""	49	"37"	12	37	"37"	0	"IL1RAPL2,intron_variant,,ENST00000372582,NM_017416.1;IL1RAPL2,intron_variant,,ENST00000344799,;"	"T"	"ENSG00000189108"	"ENST00000372582"	"Transcript"	"intron_variant"	"-/2985"	"-/2061"	"-/686"	""	""	""	"1"	NA	1	"IL1RAPL2"	"HGNC"	5997	"protein_coding"	"YES"	"CCDS14517.1"	"ENSP00000361663"	"Q9NP60"	""	"UPI0000073DF7"	"NM_017416.1"	""	""	""	"2/10"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"778f4b04-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.244897959183673	"WGS"	FALSE
"17749"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	105306560	105306560	"+"	"IGR"	"SNP"	"C"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	53	"33"	20	26	"26"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"778f66b6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.377358490566038	"WGS"	FALSE
"17750"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	109127189	109127189	"+"	"IGR"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	43	"38"	5	35	"35"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATA"	"778fb526-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.116279069767442	"WGS"	FALSE
"17751"	"AMMECR1"	9949	"mskcc.org"	"GRCh37"	"X"	109604194	109604194	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-147-43117A>G"	""	""	"ENST00000372057"	""	50	"43"	7	33	"33"	0	"AMMECR1,intron_variant,,ENST00000372057,NM_001171689.1;RGAG1,intron_variant,,ENST00000520821,;"	"C"	"ENSG00000101935"	"ENST00000372057"	"Transcript"	"intron_variant"	"-/3380"	"-/633"	"-/210"	""	""	""	"1"	NA	-1	"AMMECR1"	"HGNC"	467	"protein_coding"	""	"CCDS55476.1"	"ENSP00000361127"	"Q9Y4X0"	""	"UPI00001F87EF"	"NM_001171689.1"	""	""	""	"2/7"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTC"	"778fc264-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.14	"WGS"	FALSE
"17752"	"DPRXP7"	0	"mskcc.org"	"GRCh37"	"X"	111564871	111564871	"+"	"5'Flank"	"SNP"	"A"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000604554"	""	59	"30"	29	40	"40"	0	"DPRXP7,upstream_gene_variant,,ENST00000604554,;"	"T"	"ENSG00000271464"	"ENST00000604554"	"Transcript"	"upstream_gene_variant"	"-/466"	""	""	""	""	""	"1"	"1226"	-1	"DPRXP7"	"HGNC"	32173	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAC"	"778fe906-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.491525423728814	"WGS"	FALSE
"17753"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	113207073	113207073	"+"	"IGR"	"SNP"	"A"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	61	"27"	34	35	"35"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"77901a7a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.557377049180328	"WGS"	FALSE
"17754"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	115467333	115467333	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"30"	26	35	"35"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"7790542c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.464285714285714	"WGS"	FALSE
"17755"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	118403615	118403615	"+"	"IGR"	"SNP"	"A"	"A"	"T"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	40	"36"	4	31	"31"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAC"	"779098ec-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.1	"WGS"	FALSE
"17756"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	121940109	121940109	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"23"	33	34	"34"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACG"	"7790ca06-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.589285714285714	"WGS"	FALSE
"17757"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	121999881	121999881	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	61	"56"	5	32	"32"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"7790cb64-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0819672131147541	"WGS"	FALSE
"17758"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	122912640	122912640	"+"	"IGR"	"SNP"	"C"	"C"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	19	"15"	4	15	"15"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"7790d5be-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.210526315789474	"WGS"	FALSE
"17759"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	126475763	126475763	"+"	"IGR"	"SNP"	"G"	"G"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	68	"60"	8	36	"36"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGA"	"7791285c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.117647058823529	"WGS"	FALSE
"17760"	"BCORL1"	63035	"mskcc.org"	"GRCh37"	"X"	129123825	129123825	"+"	"Intron"	"SNP"	"T"	"T"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-45+7087T>G"	""	""	"ENST00000303743"	""	32	"29"	3	21	"21"	0	"BCORL1,intron_variant,,ENST00000303743,;BCORL1,intron_variant,,ENST00000218147,;BCORL1,intron_variant,,ENST00000359304,;BCORL1,intron_variant,,ENST00000607874,;BCORL1,intron_variant,,ENST00000488135,;"	"G"	"ENSG00000085185"	"ENST00000303743"	"Transcript"	"intron_variant"	"-/6934"	"-/5358"	"-/1785"	""	""	""	"1"	NA	1	"BCORL1"	"HGNC"	25657	"protein_coding"	""	""	"ENSP00000307541"	"Q5H9F3"	"Q9HAM3,Q86YA6"	"UPI00015F45CB"	""	""	""	""	"1/13"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"779169d4-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.09375	"WGS"	FALSE
"17761"	"ELF4"	2000	"mskcc.org"	"GRCh37"	"X"	129228267	129228267	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-209-12754T>C"	""	""	"ENST00000308167"	""	44	"39"	5	24	"24"	0	"ELF4,intron_variant,,ENST00000308167,NM_001421.3;ELF4,intron_variant,,ENST00000335997,NM_001127197.1;ELF4,intron_variant,,ENST00000434609,;"	"G"	"ENSG00000102034"	"ENST00000308167"	"Transcript"	"intron_variant"	"-/4165"	"-/1992"	"-/663"	""	""	""	"1"	NA	-1	"ELF4"	"HGNC"	3319	"protein_coding"	"YES"	"CCDS14617.1"	"ENSP00000311280"	"Q99607"	"B1AL80"	"UPI0000072B32"	"NM_001421.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAA"	"77916b32-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.113636363636364	"WGS"	TRUE
"17762"	"ELF4"	2000	"mskcc.org"	"GRCh37"	"X"	129228274	129228274	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-209-12761T>C"	""	""	"ENST00000308167"	""	44	"40"	4	24	"24"	0	"ELF4,intron_variant,,ENST00000308167,NM_001421.3;ELF4,intron_variant,,ENST00000335997,NM_001127197.1;ELF4,intron_variant,,ENST00000434609,;"	"G"	"ENSG00000102034"	"ENST00000308167"	"Transcript"	"intron_variant"	"-/4165"	"-/1992"	"-/663"	""	""	""	"1"	NA	-1	"ELF4"	"HGNC"	3319	"protein_coding"	"YES"	"CCDS14617.1"	"ENSP00000311280"	"Q99607"	"B1AL80"	"UPI0000072B32"	"NM_001421.3"	""	""	""	"1/8"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAC"	"77916bdc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.0909090909090909	"WGS"	TRUE
"17763"	"HS6ST2"	90161	"mskcc.org"	"GRCh37"	"X"	131831489	131831489	"+"	"Intron"	"SNP"	"C"	"C"	"A"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.980+11001G>T"	""	""	"ENST00000521489"	""	65	"58"	7	46	"46"	0	"HS6ST2,intron_variant,,ENST00000370836,NM_147175.3;HS6ST2,intron_variant,,ENST00000521489,NM_001077188.1;HS6ST2,intron_variant,,ENST00000370833,;HS6ST2,intron_variant,,ENST00000406696,;"	"A"	"ENSG00000171004"	"ENST00000521489"	"Transcript"	"intron_variant"	"-/2607"	"-/1938"	"-/645"	""	""	""	"1"	NA	-1	"HS6ST2"	"HGNC"	19133	"protein_coding"	"YES"	"CCDS48170.1"	"ENSP00000429473"	"Q96MM7"	"B7Z2U5"	"UPI0000E59259"	"NM_001077188.1"	""	""	""	"4/5"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"7791b0b0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.107692307692308	"WGS"	FALSE
"17764"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	133435160	133435160	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	37	"22"	15	21	"21"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"7791c60e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.405405405405405	"WGS"	FALSE
"17765"	"DDX26B"	203522	"mskcc.org"	"GRCh37"	"X"	134718882	134718882	"+"	"3'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000370752"	""	50	"41"	9	35	"35"	0	"DDX26B,downstream_gene_variant,,ENST00000370752,NM_182540.4;DDX26B,downstream_gene_variant,,ENST00000481908,;DDX26B,downstream_gene_variant,,ENST00000481429,;DDX26B,downstream_gene_variant,,ENST00000494957,;DDX26B,downstream_gene_variant,,ENST00000493637,;RP11-432N13.2,splice_region_variant,,ENST00000439300,;"	"G"	"ENSG00000165359"	"ENST00000370752"	"Transcript"	"downstream_gene_variant"	"-/3793"	"-/2586"	"-/861"	""	""	""	"1"	"2448"	1	"DDX26B"	"HGNC"	27334	"protein_coding"	"YES"	"CCDS35401.1"	"ENSP00000359788"	"Q5JSJ4"	""	"UPI00004A3AAF"	"NM_182540.4"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"7791d1f8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.18	"WGS"	FALSE
"17766"	"RP11-432N13.4"	0	"mskcc.org"	"GRCh37"	"X"	134811774	134811774	"+"	"Intron"	"SNP"	"T"	"T"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.450-64A>G"	""	""	"ENST00000420011"	""	45	"40"	5	35	"35"	0	"RP11-432N13.4,intron_variant,,ENST00000420011,;"	"C"	"ENSG00000198022"	"ENST00000420011"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2126"	""	""	""	""	""	"1"	NA	-1	"RP11-432N13.4"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	"4/14"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATC"	"7791d6b2-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.111111111111111	"WGS"	FALSE
"17767"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	137159322	137159322	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	42	"25"	17	29	"29"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGA"	"7791ff66-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.404761904761905	"WGS"	FALSE
"17768"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	140844985	140844985	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	56	"33"	23	33	"33"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCG"	"7792397c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.410714285714286	"WGS"	FALSE
"17769"	"HNRNPH1P2"	0	"mskcc.org"	"GRCh37"	"X"	142755787	142755787	"+"	"3'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000396845"	""	63	"36"	27	41	"41"	0	"HNRNPH1P2,downstream_gene_variant,,ENST00000396845,;"	"T"	"ENSG00000213924"	"ENST00000396845"	"Transcript"	"downstream_gene_variant"	"-/1210"	""	""	""	""	""	"1"	"4445"	-1	"HNRNPH1P2"	"HGNC"	48810	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCC"	"77926e42-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.428571428571429	"WGS"	FALSE
"17770"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	148645741	148645741	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	58	"35"	23	35	"35"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"7792f286-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.396551724137931	"WGS"	FALSE
"17771"	"CYCSP45"	0	"mskcc.org"	"GRCh37"	"X"	153104434	153104434	"+"	"5'Flank"	"SNP"	"A"	"A"	"G"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000402289"	""	34	"29"	5	31	"31"	0	"CYCSP45,upstream_gene_variant,,ENST00000402289,;"	"G"	"ENSG00000184844"	"ENST00000402289"	"Transcript"	"upstream_gene_variant"	"-/315"	""	""	""	""	""	"1"	"2272"	1	"CYCSP45"	"HGNC"	24419	"processed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"7793477c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.147058823529412	"WGS"	FALSE
"17772"	"TAZ"	6901	"mskcc.org"	"GRCh37"	"X"	153651293	153651293	"+"	"3'Flank"	"SNP"	"G"	"G"	"A"	"rs782563452"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000299328"	""	34	"28"	6	21	"21"	0	"TAZ,downstream_gene_variant,,ENST00000299328,NM_000116.3;TAZ,downstream_gene_variant,,ENST00000350743,NM_181311.2;TAZ,downstream_gene_variant,,ENST00000351413,NM_181312.2;TAZ,downstream_gene_variant,,ENST00000369790,NM_181313.2;TAZ,downstream_gene_variant,,ENST00000369776,;TAZ,downstream_gene_variant,,ENST00000454722,;TAZ,downstream_gene_variant,,ENST00000475699,;TAZ,downstream_gene_variant,,ENST00000439735,;TAZ,downstream_gene_variant,,ENST00000498029,;TAZ,downstream_gene_variant,,ENST00000470127,;TAZ,downstream_gene_variant,,ENST00000494912,;TAZ,downstream_gene_variant,,ENST00000369793,;TAZ,downstream_gene_variant,,ENST00000455296,;TAZ,downstream_gene_variant,,ENST00000476307,;TAZ,downstream_gene_variant,,ENST00000483674,;TAZ,downstream_gene_variant,,ENST00000433313,;TAZ,downstream_gene_variant,,ENST00000426231,;TAZ,downstream_gene_variant,,ENST00000476679,;TAZ,downstream_gene_variant,,ENST00000483780,;"	"A"	"ENSG00000102125"	"ENST00000299328"	"Transcript"	"downstream_gene_variant"	"-/1890"	"-/879"	"-/292"	""	""	"rs782563452"	"1"	"1228"	1	"TAZ"	"HGNC"	11577	"protein_coding"	"YES"	"CCDS14748.1"	"ENSP00000299328"	"Q16635"	"F2Z2H6,Q2VF39"	"UPI0000136CA2"	"NM_000116.3"	""	""	""	""	""	"A:0.0003"	"A:0"	"A:0"	NA	"A:0"	"A:0"	"A:0.001"	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CGT"	"77934f6a-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.176470588235294	"WGS"	FALSE
"17773"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	4063203	4063203	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"22"	19	24	"24"	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"7793d41c-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.463414634146341	"WGS"	FALSE
"17774"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	7417695	7417695	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	39	"22"	17	35	"35"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGC"	"77947778-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.435897435897436	"WGS"	FALSE
"17775"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	8026747	8026747	"+"	"IGR"	"SNP"	"G"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"24"	17	35	"35"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"77947c32-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.414634146341463	"WGS"	FALSE
"17776"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	8805884	8805884	"+"	"IGR"	"SNP"	"G"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	45	"27"	18	31	"31"	0	""	"C"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGG"	"77948dbc-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.4	"WGS"	FALSE
"17777"	"RBMY2OP"	0	"mskcc.org"	"GRCh37"	"Y"	9800628	9800628	"+"	"3'Flank"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000447105"	""	31	"27"	4	27	"27"	0	"RBMY2OP,downstream_gene_variant,,ENST00000447105,;"	"T"	"ENSG00000234950"	"ENST00000447105"	"Transcript"	"downstream_gene_variant"	"-/810"	""	""	""	""	""	"1"	"3596"	1	"RBMY2OP"	"HGNC"	23894	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"7794cf20-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.129032258064516	"WGS"	FALSE
"17778"	"ENSR00001834427"	0	"mskcc.org"	"GRCh37"	"Y"	13692370	13692370	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001834427"	""	61	"54"	7	64	"64"	0	""	"T"	""	"ENSR00001834427"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGG"	"7799960e-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.114754098360656	"WGS"	FALSE
"17779"	"ENSR00001834427"	0	"mskcc.org"	"GRCh37"	"Y"	13692371	13692371	"+"	"IGR"	"SNP"	"G"	"G"	"T"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENSR00001834427"	""	62	"55"	7	63	"63"	0	""	"T"	""	"ENSR00001834427"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	"CTCF_binding_site"	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGA"	"779996b8-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.112903225806452	"WGS"	FALSE
"17780"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	16283877	16283877	"+"	"IGR"	"SNP"	"G"	"A"	"A"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	60	"32"	28	31	"30"	1	""	"A"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"779b3414-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.466666666666667	"WGS"	FALSE
"17781"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	17921722	17921722	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	41	"19"	22	30	"30"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"779b41de-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.536585365853659	"WGS"	FALSE
"17782"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	18559607	18559607	"+"	"IGR"	"SNP"	"T"	"G"	"G"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	30	"22"	8	21	"21"	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATG"	"779b45da-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.266666666666667	"WGS"	FALSE
"17783"	"KDM5D"	8284	"mskcc.org"	"GRCh37"	"Y"	21879849	21879849	"+"	"Intron"	"SNP"	"T"	"C"	"C"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1717-1248A>G"	""	""	"ENST00000317961"	""	44	"20"	24	28	"28"	0	"KDM5D,intron_variant,,ENST00000541639,NM_001146705.1;KDM5D,intron_variant,,ENST00000317961,NM_004653.4;KDM5D,intron_variant,,ENST00000382806,NM_001146706.1;KDM5D,intron_variant,,ENST00000440077,;KDM5D,downstream_gene_variant,,ENST00000447300,;KDM5D,intron_variant,,ENST00000492117,;KDM5D,upstream_gene_variant,,ENST00000469599,;KDM5D,upstream_gene_variant,,ENST00000478891,;"	"C"	"ENSG00000012817"	"ENST00000317961"	"Transcript"	"intron_variant"	"-/5472"	"-/4620"	"-/1539"	""	""	""	"1"	NA	-1	"KDM5D"	"HGNC"	11115	"protein_coding"	"YES"	"CCDS14794.1"	"ENSP00000322408"	"Q9BY66"	""	"UPI0000135A93"	"NM_004653.4"	""	""	""	"13/26"	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTA"	"779b5d40-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.545454545454545	"WGS"	FALSE
"17784"	"RPS4Y2"	140032	"mskcc.org"	"GRCh37"	"Y"	22915484	22915484	"+"	"5'Flank"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	"ENST00000288666"	""	42	"23"	19	24	"24"	0	"RPS4Y2,upstream_gene_variant,,ENST00000288666,NM_001039567.2;"	"T"	"ENSG00000157828"	"ENST00000288666"	"Transcript"	"upstream_gene_variant"	"-/792"	"-/792"	"-/263"	""	""	""	"1"	"2566"	1	"RPS4Y2"	"HGNC"	18501	"protein_coding"	"YES"	"CCDS44028.1"	"ENSP00000288666"	"Q8TD47"	""	"UPI000016788E"	"NM_001039567.2"	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCC"	"779ba4d0-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.452380952380952	"WGS"	FALSE
"17785"	"Unknown"	0	"mskcc.org"	"GRCh37"	"Y"	23892883	23892883	"+"	"IGR"	"SNP"	"C"	"T"	"T"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	""	""	""	""	45	"23"	22	38	"38"	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	""	""	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	""	NA	""	""	""	""	""	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"SNV"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"779badd6-0003-11e6-8a0f-c369372d9a03"	"."	NA	""	""	""	""	""	""	""	""	""	""	"FALSE"	0.488888888888889	"WGS"	FALSE
"17786"	"SLC44A5"	204962	"mskcc.org"	"GRCh37"	"1"	75920484	75920485	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.14-58179dupT"	NA	NA	"ENST00000370855"	""	102	"."	15	70	"."	0	"SLC44A5,intron_variant,,ENST00000370855,NM_152697.4;SLC44A5,intron_variant,,ENST00000370859,NM_001130058.1;SLC44A5,intron_variant,,ENST00000469525,;"	"A"	"ENSG00000137968"	"ENST00000370855"	"Transcript"	"intron_variant"	"-/4406"	"-/2160"	"-/719"	NA	NA	""	"1"	NA	-1	"SLC44A5"	"HGNC"	28524	"protein_coding"	"YES"	"CCDS667.1"	"ENSP00000359892"	"Q8NCS7"	"B7Z473"	"UPI000013E195"	"NM_152697.4"	NA	NA	""	"2/23"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"8fe8b268-fd9b-11e5-a742-f9fc414a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.147058823529412	"WGS"	FALSE
"17787"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	81397363	81397363	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	135	"."	7	54	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"b9deaeda-fd94-11e5-a742-f9fc414a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0518518518518519	"WGS"	FALSE
"17788"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	106167836	106167837	"+"	"IGR"	"INS"	"-"	"-"	"AAAAA"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	163	"."	5	84	"."	0	""	"AAAAA"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCA"	"0cbf4b94-fd9c-11e5-a742-f9fc414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0306748466257669	"WGS"	FALSE
"17789"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	116738328	116738332	"+"	"IGR"	"DEL"	"ATAAA"	"ATAAA"	"TTAT"	"novel"	NA	"T6"	"W0006062F"	"ATAAA"	"ATAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	88	"."	12	66	"."	0	""	"TTAT"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAATAAAC"	"175380f4-fd9a-11e5-a742-f9fc414a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.136363636363636	"WGS"	FALSE
"17790"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	142600668	142600680	"+"	"IGR"	"DEL"	"TAAAAAGTATTGA"	"TAAAAAGTATTGA"	"-"	"novel"	NA	"T6"	"W0006062F"	"TAAAAAGTATTGA"	"TAAAAAGTATTGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	256	"."	14	201	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTAAAAAGTATTGAT"	"25a5470e-fd96-11e5-a742-f9fc414a729f"	"752"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0546875	"WGS"	FALSE
"17791"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	148626374	148626380	"+"	"IGR"	"DEL"	"TGATGAT"	"TGATGAT"	"-"	"novel"	NA	"T6"	"W0006062F"	"TGATGAT"	"TGATGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	113	"."	6	69	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGTGATGATT"	"c1507070-fd96-11e5-a742-f9fc414a729f"	"92"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0530973451327434	"WGS"	FALSE
"17792"	"XPR1"	9213	"mskcc.org"	"GRCh37"	"1"	180831680	180831680	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1502-1164delA"	NA	NA	"ENST00000367590"	""	108	"."	14	57	"."	0	"XPR1,intron_variant,,ENST00000367590,NM_004736.3;XPR1,intron_variant,,ENST00000367589,NM_001135669.1;XPR1,intron_variant,,ENST00000498177,;XPR1,upstream_gene_variant,,ENST00000464817,;"	"-"	"ENSG00000143324"	"ENST00000367590"	"Transcript"	"intron_variant"	"-/8474"	"-/2091"	"-/696"	NA	NA	""	"1"	NA	1	"XPR1"	"HGNC"	12827	"protein_coding"	"YES"	"CCDS1340.1"	"ENSP00000356562"	"Q9UBH6"	""	"UPI0000071111"	"NM_004736.3"	NA	NA	""	"11/14"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACAT"	"cbe4c012-fd97-11e5-a742-f9fc414a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.12962962962963	"WGS"	FALSE
"17793"	"HHAT"	55733	"mskcc.org"	"GRCh37"	"1"	210553656	210553656	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.163-7154delG"	NA	NA	"ENST00000545154"	""	76	"."	5	65	"."	0	"HHAT,intron_variant,,ENST00000367010,NM_001170580.1;HHAT,intron_variant,,ENST00000261458,NM_018194.4;HHAT,intron_variant,,ENST00000413764,NM_001122834.2;HHAT,intron_variant,,ENST00000545154,NM_001170587.1;HHAT,intron_variant,,ENST00000537898,NM_001170588.1;HHAT,intron_variant,,ENST00000541565,NM_001170564.1;HHAT,intron_variant,,ENST00000391905,;HHAT,intron_variant,,ENST00000308852,;HHAT,intron_variant,,ENST00000545781,;HHAT,intron_variant,,ENST00000426968,;"	"-"	"ENSG00000054392"	"ENST00000545154"	"Transcript"	"intron_variant"	"-/3507"	"-/1485"	"-/494"	NA	NA	""	"1"	NA	1	"HHAT"	"HGNC"	18270	"protein_coding"	"YES"	"CCDS53471.1"	"ENSP00000438468"	"Q5VTY9"	"F5H2Y1,B1AK61"	"UPI0001C0B381"	"NM_001170587.1"	NA	NA	""	"2/10"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GAGG"	"b1e49006-fd98-11e5-a742-f9fc414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0657894736842105	"WGS"	FALSE
"17794"	"Unknown"	0	"mskcc.org"	"GRCh37"	"1"	221709457	221709457	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	122	"."	17	64	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAA"	"05cc5db6-fd99-11e5-a742-f9fc414a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.139344262295082	"WGS"	FALSE
"17795"	"ARID4B"	51742	"mskcc.org"	"GRCh37"	"1"	235413907	235413908	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.354+2137dupA"	NA	NA	"ENST00000264183"	""	103	"."	14	58	"."	0	"ARID4B,intron_variant,,ENST00000264183,NM_016374.5;ARID4B,intron_variant,,ENST00000366603,NM_001206794.1;ARID4B,intron_variant,,ENST00000349213,NM_031371.3;ARID4B,intron_variant,,ENST00000418304,;ARID4B,intron_variant,,ENST00000421364,;ARID4B,intron_variant,,ENST00000491632,;ARID4B,intron_variant,,ENST00000466653,;"	"T"	"ENSG00000054267"	"ENST00000264183"	"Transcript"	"intron_variant"	"-/6067"	"-/3939"	"-/1312"	NA	NA	""	"1"	NA	-1	"ARID4B"	"HGNC"	15550	"protein_coding"	"YES"	"CCDS31061.1"	"ENSP00000264183"	"Q4LE39"	""	"UPI00000437FE"	"NM_016374.5"	NA	NA	""	"6/23"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGT"	"ecfa834e-fd9d-11e5-a742-f9fc414a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.135922330097087	"WGS"	FALSE
"17796"	"MTR"	4548	"mskcc.org"	"GRCh37"	"1"	236970047	236970048	"+"	"Intron"	"INS"	"-"	"-"	"C"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.339+519dupC"	NA	NA	"ENST00000366577"	""	86	"."	10	46	"."	0	"MTR,intron_variant,,ENST00000366577,NM_000254.2;MTR,intron_variant,,ENST00000535889,;MTR,intron_variant,,ENST00000418145,;MTR,intron_variant,,ENST00000463959,;"	"C"	"ENSG00000116984"	"ENST00000366577"	"Transcript"	"intron_variant"	"-/10529"	"-/3798"	"-/1265"	NA	NA	""	"1"	NA	1	"MTR"	"HGNC"	7468	"protein_coding"	"YES"	"CCDS1614.1"	"ENSP00000355536"	"Q99707"	""	"UPI0000036BC4"	"NM_000254.2"	NA	NA	""	"3/32"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"5"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAC"	"f53207b2-fd9d-11e5-a742-f9fc414a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.116279069767442	"WGS"	FALSE
"17797"	"ENSR00001420589"	0	"mskcc.org"	"GRCh37"	"10"	4768133	4768136	"+"	"IGR"	"DEL"	"AGAG"	"AGAG"	"-"	"novel"	NA	"T6"	"W0006062F"	"AGAG"	"AGAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENSR00001420589"	""	140	"."	18	69	"."	0	""	"-"	""	"ENSR00001420589"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAGAGA"	"8aa470ac-fd92-11e5-99a3-fafc414a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.128571428571429	"WGS"	FALSE
"17798"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	16019493	16019493	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	96	"."	23	69	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"f6ae1546-fd92-11e5-99a3-fafc414a729f"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.239583333333333	"WGS"	FALSE
"17799"	"RP11-672F9.1"	0	"mskcc.org"	"GRCh37"	"10"	38561566	38561566	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.144+24573delA"	NA	NA	"ENST00000450980"	""	176	"."	12	128	"."	0	"RP11-672F9.1,intron_variant,,ENST00000450980,;"	"-"	"ENSG00000226113"	"ENST00000450980"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/425"	""	""	NA	NA	""	"1"	NA	1	"RP11-672F9.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAC"	"ab0e925e-fd93-11e5-99a3-fafc414a729f"	"684"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0681818181818182	"WGS"	FALSE
"17800"	"Unknown"	0	"mskcc.org"	"GRCh37"	"10"	45816899	45816903	"+"	"IGR"	"DEL"	"ATATA"	"ATATA"	"-"	"novel"	NA	"T6"	"W0006062F"	"ATATA"	"ATATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	103	"."	15	42	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGATATAA"	"d9c8bb7e-fd93-11e5-99a3-fafc414a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.145631067961165	"WGS"	FALSE
"17801"	"PCDH15"	65217	"mskcc.org"	"GRCh37"	"10"	55722476	55722479	"+"	"Intron"	"DEL"	"CAAA"	"CAAA"	"-"	"novel"	NA	"T6"	"W0006062F"	"CAAA"	"CAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2869-827_2869-824delTTTG"	NA	NA	"ENST00000361849"	""	107	"."	5	54	"."	0	"PCDH15,intron_variant,,ENST00000373965,NM_001142772.1,NM_001142771.1;PCDH15,intron_variant,,ENST00000414778,;PCDH15,intron_variant,,ENST00000361849,NM_001142768.1,NM_001142765.1,NM_001142764.1,NM_001142763.1;PCDH15,intron_variant,,ENST00000395432,NM_001142767.1;PCDH15,intron_variant,,ENST00000395433,NM_001142773.1;PCDH15,intron_variant,,ENST00000320301,NM_033056.3;PCDH15,intron_variant,,ENST00000395430,NM_001142766.1;PCDH15,intron_variant,,ENST00000437009,;PCDH15,intron_variant,,ENST00000395438,NM_001142770.1;PCDH15,intron_variant,,ENST00000395445,NM_001142769.1;PCDH15,intron_variant,,ENST00000409834,;PCDH15,intron_variant,,ENST00000373957,;PCDH15,intron_variant,,ENST00000395446,;PCDH15,intron_variant,,ENST00000395440,;PCDH15,intron_variant,,ENST00000395442,;PCDH15,intron_variant,,ENST00000495484,;PCDH15,intron_variant,,ENST00000448885,;PCDH15,intron_variant,,ENST00000373956,;PCDH15,intron_variant,,ENST00000414367,;"	"-"	"ENSG00000150275"	"ENST00000361849"	"Transcript"	"intron_variant"	"-/6957"	"-/5874"	"-/1957"	NA	NA	""	"1"	NA	-1	"PCDH15"	"HGNC"	14674	"protein_coding"	"YES"	"CCDS44404.1"	"ENSP00000354950"	""	"A2A3E7,A2A3D9"	"UPI0000EE048B"	"NM_001142768.1,NM_001142765.1,NM_001142764.1,NM_001142763.1"	NA	NA	""	"21/33"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ACCAAAC"	"1ce25b72-fd94-11e5-99a3-fafc414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0467289719626168	"WGS"	FALSE
"17802"	"RP11-168O22.1"	0	"mskcc.org"	"GRCh37"	"10"	57197043	57197043	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.184-71070delT"	NA	NA	"ENST00000457975"	""	123	"."	10	54	"."	0	"PCDH15,intron_variant,,ENST00000373957,;RP11-168O22.1,intron_variant,,ENST00000457975,;"	"-"	"ENSG00000236744"	"ENST00000457975"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/439"	""	""	NA	NA	""	"1"	NA	-1	"RP11-168O22.1"	"Clone_based_vega_gene"	NA	"sense_intronic"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAC"	"2de2fc06-fd94-11e5-99a3-fafc414a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0813008130081301	"WGS"	FALSE
"17803"	"ENSR00001611015"	0	"mskcc.org"	"GRCh37"	"10"	106340064	106340064	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENSR00001611015"	""	79	"."	12	59	"."	0	""	"-"	""	"ENSR00001611015"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACT"	"99fc09ea-fd95-11e5-99a3-fafc414a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.151898734177215	"WGS"	FALSE
"17804"	"SORCS3"	22986	"mskcc.org"	"GRCh37"	"10"	106767485	106767486	"+"	"Intron"	"INS"	"-"	"-"	"TACCT"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.954+30234_954+30235insTACCT"	NA	NA	"ENST00000369701"	""	111	"."	14	52	"."	0	"SORCS3,intron_variant,,ENST00000369701,NM_014978.1;"	"TACCT"	"ENSG00000156395"	"ENST00000369701"	"Transcript"	"intron_variant"	"-/5757"	"-/3669"	"-/1222"	NA	NA	""	"1"	NA	1	"SORCS3"	"HGNC"	16699	"protein_coding"	"YES"	"CCDS7558.1"	"ENSP00000358715"	"Q9UPU3"	"B7Z891"	"UPI0000135CE1"	"NM_014978.1"	NA	NA	""	"4/26"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAG"	"b1f8205c-fd99-11e5-99a3-fafc414a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.126126126126126	"WGS"	FALSE
"17805"	"ATRNL1"	26033	"mskcc.org"	"GRCh37"	"10"	117628333	117628334	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTTT"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4018+20847_4018+20856dupTTTTTTTTTT"	NA	NA	"ENST00000355044"	""	125	"."	5	69	"."	0	"ATRNL1,intron_variant,,ENST00000355044,NM_207303.2;ATRNL1,intron_variant,,ENST00000423111,;ATRNL1,intron_variant,,ENST00000303745,;"	"TTTTTTTTTT"	"ENSG00000107518"	"ENST00000355044"	"Transcript"	"intron_variant"	"-/8479"	"-/4140"	"-/1379"	NA	NA	""	"1"	NA	1	"ATRNL1"	"HGNC"	29063	"protein_coding"	"YES"	"CCDS7592.1"	"ENSP00000347152"	"Q5VV63"	""	"UPI000021CCF8"	"NM_207303.2"	NA	NA	""	"28/28"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"25"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCT"	"f9a55528-fd99-11e5-99a3-fafc414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.04	"WGS"	FALSE
"17806"	"ATE1"	11101	"mskcc.org"	"GRCh37"	"10"	123577772	123577782	"+"	"Intron"	"DEL"	"AAAAAAAAAAA"	"AAAAAAAAAAA"	"-"	"novel"	NA	"T6"	"W0006062F"	"AAAAAAAAAAA"	"AAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1257+18451_1257+18461delTTTTTTTTTTT"	NA	NA	"ENST00000369043"	""	56	"."	5	33	"."	0	"ATE1,intron_variant,,ENST00000369043,NM_007041.2,NM_001288736.1,NM_001288735.1;ATE1,intron_variant,,ENST00000535655,;ATE1,intron_variant,,ENST00000224652,NM_001001976.1;ATE1,intron_variant,,ENST00000423243,;ATE1,intron_variant,,ENST00000369040,;ATE1,intron_variant,,ENST00000540606,;ATE1,intron_variant,,ENST00000543447,;"	"-"	"ENSG00000107669"	"ENST00000369043"	"Transcript"	"intron_variant"	"-/4900"	"-/1557"	"-/518"	NA	NA	""	"1"	NA	-1	"ATE1"	"HGNC"	782	"protein_coding"	"YES"	"CCDS31299.1"	"ENSP00000358039"	"O95260"	"B4E107"	"UPI000002A471"	"NM_007041.2,NM_001288736.1,NM_001288735.1"	NA	NA	""	"10/11"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAAAAAAAAAAAA"	"233ba95e-fd96-11e5-99a3-fafc414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0892857142857143	"WGS"	FALSE
"17807"	"PPFIBP2"	8495	"mskcc.org"	"GRCh37"	"11"	7542890	7542891	"+"	"Intron"	"INS"	"-"	"-"	"A"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-37+7541dupA"	NA	NA	"ENST00000299492"	""	87	"."	16	78	"."	0	"PPFIBP2,intron_variant,,ENST00000299492,NM_003621.3;PPFIBP2,intron_variant,,ENST00000528947,;PPFIBP2,intron_variant,,ENST00000526873,;"	"A"	"ENSG00000166387"	"ENST00000299492"	"Transcript"	"intron_variant"	"-/3557"	"-/2631"	"-/876"	NA	NA	""	"1"	NA	1	"PPFIBP2"	"HGNC"	9250	"protein_coding"	"YES"	"CCDS31419.1"	"ENSP00000299492"	"Q8ND30"	"E9PP16,E9PMN3,E9PMH3,E9PK17,E9PJA0,E9PIK8,B3KM46"	"UPI00001C1EF8"	"NM_003621.3"	NA	NA	""	"1/23"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCA"	"e61875a6-fd96-11e5-9835-f8fc414a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.183908045977011	"WGS"	FALSE
"17808"	"ARNTL"	406	"mskcc.org"	"GRCh37"	"11"	13313802	13313802	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-263+14332delA"	NA	NA	"ENST00000389707"	""	100	"."	6	73	"."	0	"ARNTL,intron_variant,,ENST00000389708,;ARNTL,intron_variant,,ENST00000401424,NM_001030273.1;ARNTL,intron_variant,,ENST00000389707,NM_001178.4;ARNTL,intron_variant,,ENST00000403290,;ARNTL,intron_variant,,ENST00000403510,;ARNTL,intron_variant,,ENST00000396441,NM_001030272.1;ARNTL,intron_variant,,ENST00000361003,;ARNTL,intron_variant,,ENST00000530357,;ARNTL,intron_variant,,ENST00000534544,;ARNTL,intron_variant,,ENST00000482049,;ARNTL,intron_variant,,ENST00000529388,;ARNTL,intron_variant,,ENST00000529050,;ARNTL,intron_variant,,ENST00000533520,;ARNTL,intron_variant,,ENST00000529825,;ARNTL,intron_variant,,ENST00000527998,;ARNTL,intron_variant,,ENST00000480685,;"	"-"	"ENSG00000133794"	"ENST00000389707"	"Transcript"	"intron_variant"	"-/2776"	"-/1878"	"-/625"	NA	NA	""	"1"	NA	1	"ARNTL"	"HGNC"	701	"protein_coding"	"YES"	"CCDS31430.1"	"ENSP00000374357"	"O00327"	"E9PSD2,E9PL54,E9PKN1,E9PKG7,E9PKF0"	"UPI00001D70A3"	"NM_001178.4"	NA	NA	""	"1/19"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTAT"	"c94c1d64-fd92-11e5-9835-f8fc414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.06	"WGS"	FALSE
"17809"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	13528928	13528928	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	108	"."	5	65	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAA"	"cb2a0006-fd92-11e5-9835-f8fc414a729f"	"107"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0462962962962963	"WGS"	FALSE
"17810"	"MPPED2"	744	"mskcc.org"	"GRCh37"	"11"	30447677	30447679	"+"	"Intron"	"DEL"	"AGA"	"AGA"	"-"	"novel"	NA	"T6"	"W0006062F"	"AGA"	"AGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.537-8499_537-8497delTCT"	NA	NA	"ENST00000358117"	""	115	"."	17	76	"."	0	"MPPED2,intron_variant,,ENST00000448418,NM_001145399.1;MPPED2,intron_variant,,ENST00000358117,NM_001584.2;RP4-710M3.2,intron_variant,,ENST00000529078,;MPPED2,intron_variant,,ENST00000524667,;MPPED2,intron_variant,,ENST00000529220,;MPPED2,intron_variant,,ENST00000526437,;"	"-"	"ENSG00000066382"	"ENST00000358117"	"Transcript"	"intron_variant"	"-/2405"	"-/885"	"-/294"	NA	NA	""	"1"	NA	-1	"MPPED2"	"HGNC"	1180	"protein_coding"	"YES"	"CCDS7870.1"	"ENSP00000350833"	"Q15777"	"F2Z346"	"UPI0000124E87"	"NM_001584.2"	NA	NA	""	"3/5"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATAGAA"	"65b2dee0-fd93-11e5-9835-f8fc414a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.147826086956522	"WGS"	FALSE
"17811"	"RP11-707M1.1"	440040	"mskcc.org"	"GRCh37"	"11"	49710311	49710314	"+"	"Intron"	"DEL"	"TTAC"	"TTAC"	"-"	"novel"	NA	"T6"	"W0006062F"	"TTAC"	"TTAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1063-95057_1063-95054delCTTA"	NA	NA	"ENST00000527477"	""	110	"."	8	63	"."	0	"RP11-707M1.1,intron_variant,,ENST00000527477,;RP11-707M1.1,intron_variant,,ENST00000534201,;RP11-707M1.1,intron_variant,,ENST00000530858,;"	"-"	"ENSG00000205035"	"ENST00000527477"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2196"	""	""	NA	NA	""	"1"	NA	1	"RP11-707M1.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/6"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTTACT"	"f8ec06fa-fd93-11e5-9835-f8fc414a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0727272727272727	"WGS"	FALSE
"17812"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	50022824	50022824	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	105	"."	5	68	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTT"	"fca7ddfa-fd93-11e5-9835-f8fc414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0476190476190476	"WGS"	FALSE
"17813"	"RP11-179A16.2"	0	"mskcc.org"	"GRCh37"	"11"	82336675	82336676	"+"	"Intron"	"INS"	"-"	"-"	"TATGTTATATATTATATATATTATATATAACATATATAACATATGTAACTATATATAGATATACATATCTATATACAGT"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.272-7004_272-7003insACTGTATATAGATATGTATATCTATATATAGTTACATATGTTATATATGTTATATATAATATATATAATATATAACATA"	NA	NA	"ENST00000527364"	""	78	"."	6	44	"."	0	"RP11-179A16.2,intron_variant,,ENST00000527364,;RP11-179A16.1,intron_variant,,ENST00000532217,;"	"TATGTTATATATTATATATATTATATATAACATATATAACATATGTAACTATATATAGATATACATATCTATATACAGT"	"ENSG00000255246"	"ENST00000527364"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/740"	""	""	NA	NA	""	"1"	NA	-1	"RP11-179A16.2"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"2/3"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"d7229c1e-fd98-11e5-9835-f8fc414a729f"	"345"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0769230769230769	"WGS"	FALSE
"17814"	"ENSR00000568712"	0	"mskcc.org"	"GRCh37"	"11"	110217312	110217313	"+"	"IGR"	"INS"	"-"	"-"	"CTCCTCCTCCTTCTT"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENSR00000568712"	""	75	"."	5	43	"."	0	""	"CTCCTCCTCCTTCTT"	""	"ENSR00000568712"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"a85c14ea-fd99-11e5-9835-f8fc414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0666666666666667	"WGS"	FALSE
"17815"	"HTR3B"	9177	"mskcc.org"	"GRCh37"	"11"	113821015	113821015	"+"	"3'Flank"	"DEL"	"C"	"C"	"-"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000260191"	""	65	"."	9	46	"."	0	"HTR3B,downstream_gene_variant,,ENST00000260191,NM_006028.4;HTR3B,downstream_gene_variant,,ENST00000537778,;"	"-"	"ENSG00000149305"	"ENST00000260191"	"Transcript"	"downstream_gene_variant"	"-/2011"	"-/1326"	"-/441"	NA	NA	""	"1"	"3728"	1	"HTR3B"	"HGNC"	5298	"protein_coding"	"YES"	"CCDS8364.1"	"ENSP00000260191"	"O95264"	"B3VRP0,B3VRN0,B3VRM0,B3VRL5,B3VRL0,B3VRK5"	"UPI0000073DA3"	"NM_006028.4"	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACC"	"ba3d8486-fd95-11e5-9835-f8fc414a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.138461538461538	"WGS"	FALSE
"17816"	"Unknown"	0	"mskcc.org"	"GRCh37"	"11"	114842321	114842321	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	102	"."	12	66	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGA"	"c11cc8d4-fd95-11e5-9835-f8fc414a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.117647058823529	"WGS"	FALSE
"17817"	"LPAR5"	57121	"mskcc.org"	"GRCh37"	"12"	6739600	6739608	"+"	"Intron"	"DEL"	"TTTTTTTTT"	"TTTTTTTTT"	"-"	"novel"	NA	"T6"	"W0006062F"	"TTTTTTTTT"	"TTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-217+5465_-217+5473delAAAAAAAAA"	NA	NA	"ENST00000329858"	""	66	"."	6	47	"."	0	"LPAR5,intron_variant,,ENST00000329858,NM_020400.5;LPAR5,intron_variant,,ENST00000431922,NM_001142961.1;LPAR5,intron_variant,,ENST00000540335,;"	"-"	"ENSG00000184574"	"ENST00000329858"	"Transcript"	"intron_variant"	"-/3171"	"-/1119"	"-/372"	NA	NA	""	"1"	NA	-1	"LPAR5"	"HGNC"	13307	"protein_coding"	"YES"	"CCDS8553.1"	"ENSP00000327875"	"Q9H1C0"	"Q5KU18"	"UPI0000036A45"	"NM_020400.5"	NA	NA	""	"1/1"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTTTTTTTTT"	"8f46097c-fd92-11e5-92d9-f7fc414a729f"	"353"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0909090909090909	"WGS"	FALSE
"17818"	"PDE3A"	5139	"mskcc.org"	"GRCh37"	"12"	20694010	20694018	"+"	"Intron"	"DEL"	"TTTTTTTTT"	"TTTTTTTTT"	"-"	"novel"	NA	"T6"	"W0006062F"	"TTTTTTTTT"	"TTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.961-15554_961-15546delTTTTTTTTT"	NA	NA	"ENST00000359062"	""	107	"."	5	78	"."	0	"PDE3A,intron_variant,,ENST00000359062,NM_001244683.1,NM_000921.4;PDE3A,intron_variant,,ENST00000542675,;"	"-"	"ENSG00000172572"	"ENST00000359062"	"Transcript"	"intron_variant"	"-/7576"	"-/3426"	"-/1141"	NA	NA	""	"1"	NA	1	"PDE3A"	"HGNC"	8778	"protein_coding"	"YES"	"CCDS31754.1"	"ENSP00000351957"	"Q14432"	""	"UPI000014175F"	"NM_001244683.1,NM_000921.4"	NA	NA	""	"1/15"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"30"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTTTTTTTTTT"	"081c67ce-fd93-11e5-92d9-f7fc414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0467289719626168	"WGS"	FALSE
"17819"	"SLCO1A2"	6579	"mskcc.org"	"GRCh37"	"12"	21424825	21424825	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1794-2124delA"	NA	NA	"ENST00000307378"	""	139	"."	11	66	"."	0	"SLCO1A2,intron_variant,,ENST00000307378,NM_134431.3;SLCO1A2,intron_variant,,ENST00000452078,NM_021094.3;SLCO1A2,intron_variant,,ENST00000537524,;SLCO1A2,intron_variant,,ENST00000458504,;SLCO1A2,downstream_gene_variant,,ENST00000390670,;SLCO1A2,intron_variant,,ENST00000544290,;SLCO1A2,intron_variant,,ENST00000544020,;SLCO1A2,downstream_gene_variant,,ENST00000480394,;SLCO1A2,downstream_gene_variant,,ENST00000463718,;"	"-"	"ENSG00000084453"	"ENST00000307378"	"Transcript"	"intron_variant"	"-/7682"	"-/2013"	"-/670"	NA	NA	""	"1"	NA	-1	"SLCO1A2"	"HGNC"	10956	"protein_coding"	"YES"	"CCDS8686.1"	"ENSP00000305974"	"P46721"	"C9K059,C9JUW6,C9JTF6,C9JHU9,C9JGK7,C9JG34,C9JCA7,B4DJE6"	"UPI0000037575"	"NM_134431.3"	NA	NA	""	"15/15"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATA"	"131a0ee2-fd93-11e5-92d9-f7fc414a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.079136690647482	"WGS"	FALSE
"17820"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	33189393	33189421	"+"	"IGR"	"DEL"	"TTTTTCATGTTACCCTTTATATCATGAAG"	"TTTTTCATGTTACCCTTTATATCATGAAG"	"-"	"novel"	NA	"T6"	"W0006062F"	"TTTTTCATGTTACCCTTTATATCATGAAG"	"TTTTTCATGTTACCCTTTATATCATGAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	125	"."	25	77	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTTTTCATGTTACCCTTTATATCATGAAGA"	"7a39199c-fd93-11e5-92d9-f7fc414a729f"	"1500"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.2	"WGS"	FALSE
"17821"	"KIF21A"	55605	"mskcc.org"	"GRCh37"	"12"	39751711	39751732	"+"	"Intron"	"DEL"	"AAAAAAAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAAAAAAA"	"-"	"novel"	NA	"T6"	"W0006062F"	"AAAAAAAAAAAAAAAAAAAAAA"	"AAAAAAAAAAAAAAAAAAAAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1215+248_1215+269delTTTTTTTTTTTTTTTTTTTTTT"	NA	NA	"ENST00000361418"	""	77	"."	14	45	"."	0	"KIF21A,intron_variant,,ENST00000395670,;KIF21A,intron_variant,,ENST00000361961,NM_017641.3,NM_001173464.1;KIF21A,intron_variant,,ENST00000361418,;KIF21A,intron_variant,,ENST00000544797,NM_001173463.1;KIF21A,intron_variant,,ENST00000541463,NM_001173465.1;KIF21A,intron_variant,,ENST00000552908,;KIF21A,upstream_gene_variant,,ENST00000550429,;"	"-"	"ENSG00000139116"	"ENST00000361418"	"Transcript"	"intron_variant"	"-/5044"	"-/5025"	"-/1674"	NA	NA	""	"1"	NA	-1	"KIF21A"	"HGNC"	19349	"protein_coding"	"YES"	"CCDS53776.1"	"ENSP00000354878"	"Q7Z4S6"	""	"UPI0000212ED9"	""	NA	NA	""	"8/37"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCAAAAAAAAAAAAAAAAAAAAAAA"	"9650b64e-fd93-11e5-92d9-f7fc414a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.181818181818182	"WGS"	FALSE
"17822"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	42205473	42205736	"+"	"IGR"	"DEL"	"TAAAGTCTGTTTTATCTGCTGTAAGAATAGTGACCGCTGCTCTTTTTTAATTTCTTGTTTGTGTGATTTTTCTCCTACCCTTTACTTAGAGCTTATGTATATCATTACATGTGAAATCAGACTCTTGAAGATAGCAGATGGATGGGTCTTATTTTTTTATCCAATTGGCAACTCCGTGCCTTTTAGGTGAGACATTTACATTCAAGGTCAATATTGATATATGAGGTTTAGATGCTATTGTGAAGTTCTTAGCTGGTTGCTTTG"	"TAAAGTCTGTTTTATCTGCTGTAAGAATAGTGACCGCTGCTCTTTTTTAATTTCTTGTTTGTGTGATTTTTCTCCTACCCTTTACTTAGAGCTTATGTATATCATTACATGTGAAATCAGACTCTTGAAGATAGCAGATGGATGGGTCTTATTTTTTTATCCAATTGGCAACTCCGTGCCTTTTAGGTGAGACATTTACATTCAAGGTCAATATTGATATATGAGGTTTAGATGCTATTGTGAAGTTCTTAGCTGGTTGCTTTG"	"GTTTCCATTGTGTGCTTGTTTCCATTGTGTGTGGTT"	"novel"	NA	"T6"	"W0006062F"	"TAAAGTCTGTTTTATCTGCTGTAAGAATAGTGACCGCTGCTCTTTTTTAATTTCTTGTTTGTGTGATTTTTCTCCTACCCTTTACTTAGAGCTTATGTATATCATTACATGTGAAATCAGACTCTTGAAGATAGCAGATGGATGGGTCTTATTTTTTTATCCAATTGGCAACTCCGTGCCTTTTAGGTGAGACATTTACATTCAAGGTCAATATTGATATATGAGGTTTAGATGCTATTGTGAAGTTCTTAGCTGGTTGCTTTG"	"TAAAGTCTGTTTTATCTGCTGTAAGAATAGTGACCGCTGCTCTTTTTTAATTTCTTGTTTGTGTGATTTTTCTCCTACCCTTTACTTAGAGCTTATGTATATCATTACATGTGAAATCAGACTCTTGAAGATAGCAGATGGATGGGTCTTATTTTTTTATCCAATTGGCAACTCCGTGCCTTTTAGGTGAGACATTTACATTCAAGGTCAATATTGATATATGAGGTTTAGATGCTATTGTGAAGTTCTTAGCTGGTTGCTTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	98	"."	8	57	"."	0	""	"GTTTCCATTGTGTGCTTGTTTCCATTGTGTGTGGTT"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTTAAAGTCTGTTTTATCTGCTGTAAGAATAGTGACCGCTGCTCTTTTTTAATTTCTTGTTTGTGTGATTTTTCTCCTACCCTTTACTTAGAGCTTATGTATATCATTACATGTGAAATCAGACTCTTGAAGATAGCAGATGGATGGGTCTTATTTTTTTATCCAATTGGCAACTCCGTGCCTTTTAGGTGAGACATTTACATTCAAGGTCAATATTGATATATGAGGTTTAGATGCTATTGTGAAGTTCTTAGCTGGTTGCTTTGT"	"7c43bad2-fd96-11e5-92d9-f7fc414a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0816326530612245	"WGS"	FALSE
"17823"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	60349452	60349452	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	98	"."	24	45	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAT"	"314b186a-fd94-11e5-92d9-f7fc414a729f"	"1421"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.244897959183673	"WGS"	FALSE
"17824"	"RP11-335I12.2"	0	"mskcc.org"	"GRCh37"	"12"	66653835	66653852	"+"	"5'Flank"	"DEL"	"ACCACTGGATCCCCAAGG"	"ACCACTGGATCCCCAAGG"	"-"	"novel"	NA	"T6"	"W0006062F"	"ACCACTGGATCCCCAAGG"	"ACCACTGGATCCCCAAGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000536412"	""	105	"."	7	68	"."	0	"RP11-335I12.2,upstream_gene_variant,,ENST00000536412,;"	"-"	"ENSG00000256072"	"ENST00000536412"	"Transcript"	"upstream_gene_variant"	"-/523"	""	""	NA	NA	""	"1"	"2621"	-1	"RP11-335I12.2"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCACCACTGGATCCCCAAGGA"	"61920b1e-fd94-11e5-92d9-f7fc414a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0666666666666667	"WGS"	FALSE
"17825"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	73176596	73177034	"+"	"IGR"	"DEL"	"TAGCGTTTTTATTTATTTGCATTGGTTTAGAGAATTTATGCTGTATGGAAGTGAATGTATTTCAGAAATACAATATATGAAATGTTAAAGGAATATTTTGATCATATGTTTTTAGTTATGTCTCATAATTTTCATACTTCTCTGATAGAGATTGTACTCTGTGGTTGAGTAGAATATATATTTTGGAGGAAATCAATGAGTTGGCACATGAAGGGGGTAGATCTTGCAGTCAGTGGTATTACCCTCAACATTCTACAAACACATGAACTCTTTGGAATGCAGAATAGCCTGAGATTTCTTCCATGAAGATGTGGGAGGCAGGAAGATACTCTGATCATAAGCATATACAATAATCAATGAACCATTAAAGTTTATGCTATTAGAATTGCTGTTAGCTGAGCAGATACTTTATAAAACCAGAAATTTATATTTATGGTTC"	"TAGCGTTTTTATTTATTTGCATTGGTTTAGAGAATTTATGCTGTATGGAAGTGAATGTATTTCAGAAATACAATATATGAAATGTTAAAGGAATATTTTGATCATATGTTTTTAGTTATGTCTCATAATTTTCATACTTCTCTGATAGAGATTGTACTCTGTGGTTGAGTAGAATATATATTTTGGAGGAAATCAATGAGTTGGCACATGAAGGGGGTAGATCTTGCAGTCAGTGGTATTACCCTCAACATTCTACAAACACATGAACTCTTTGGAATGCAGAATAGCCTGAGATTTCTTCCATGAAGATGTGGGAGGCAGGAAGATACTCTGATCATAAGCATATACAATAATCAATGAACCATTAAAGTTTATGCTATTAGAATTGCTGTTAGCTGAGCAGATACTTTATAAAACCAGAAATTTATATTTATGGTTC"	"CAAATAAATAAATAT"	"novel"	NA	"T6"	"W0006062F"	"TAGCGTTTTTATTTATTTGCATTGGTTTAGAGAATTTATGCTGTATGGAAGTGAATGTATTTCAGAAATACAATATATGAAATGTTAAAGGAATATTTTGATCATATGTTTTTAGTTATGTCTCATAATTTTCATACTTCTCTGATAGAGATTGTACTCTGTGGTTGAGTAGAATATATATTTTGGAGGAAATCAATGAGTTGGCACATGAAGGGGGTAGATCTTGCAGTCAGTGGTATTACCCTCAACATTCTACAAACACATGAACTCTTTGGAATGCAGAATAGCCTGAGATTTCTTCCATGAAGATGTGGGAGGCAGGAAGATACTCTGATCATAAGCATATACAATAATCAATGAACCATTAAAGTTTATGCTATTAGAATTGCTGTTAGCTGAGCAGATACTTTATAAAACCAGAAATTTATATTTATGGTTC"	"TAGCGTTTTTATTTATTTGCATTGGTTTAGAGAATTTATGCTGTATGGAAGTGAATGTATTTCAGAAATACAATATATGAAATGTTAAAGGAATATTTTGATCATATGTTTTTAGTTATGTCTCATAATTTTCATACTTCTCTGATAGAGATTGTACTCTGTGGTTGAGTAGAATATATATTTTGGAGGAAATCAATGAGTTGGCACATGAAGGGGGTAGATCTTGCAGTCAGTGGTATTACCCTCAACATTCTACAAACACATGAACTCTTTGGAATGCAGAATAGCCTGAGATTTCTTCCATGAAGATGTGGGAGGCAGGAAGATACTCTGATCATAAGCATATACAATAATCAATGAACCATTAAAGTTTATGCTATTAGAATTGCTGTTAGCTGAGCAGATACTTTATAAAACCAGAAATTTATATTTATGGTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	104	"."	28	62	"."	0	""	"CAAATAAATAAATAT"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATAGCGTTTTTATTTATTTGCATTGGTTTAGAGAATTTATGCTGTATGGAAGTGAATGTATTTCAGAAATACAATATATGAAATGTTAAAGGAATATTTTGATCATATGTTTTTAGTTATGTCTCATAATTTTCATACTTCTCTGATAGAGATTGTACTCTGTGGTTGAGTAGAATATATATTTTGGAGGAAATCAATGAGTTGGCACATGAAGGGGGTAGATCTTGCAGTCAGTGGTATTACCCTCAACATTCTACAAACACATGAACTCTTTGGAATGCAGAATAGCCTGAGATTTCTTCCATGAAGATGTGGGAGGCAGGAAGATACTCTGATCATAAGCATATACAATAATCAATGAACCATTAAAGTTTATGCTATTAGAATTGCTGTTAGCTGAGCAGATACTTTATAAAACCAGAAATTTATATTTATGGTTCT"	"888b2c94-fd96-11e5-92d9-f7fc414a729f"	"1680"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.269230769230769	"WGS"	FALSE
"17826"	"Unknown"	0	"mskcc.org"	"GRCh37"	"12"	83620871	83620872	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	82	"."	9	46	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"05a6f8d2-fd99-11e5-92d9-f7fc414a729f"	"520"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.109756097560976	"WGS"	FALSE
"17827"	"RP11-734K2.4"	0	"mskcc.org"	"GRCh37"	"12"	89929572	89929572	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.144-4313delG"	NA	NA	"ENST00000605233"	""	90	"."	5	49	"."	0	"RP11-734K2.4,intron_variant,,ENST00000605233,;"	"-"	"ENSG00000270344"	"ENST00000605233"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/338"	""	""	NA	NA	""	"1"	NA	1	"RP11-734K2.4"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGA"	"1aed0fa0-fd95-11e5-92d9-f7fc414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0555555555555556	"WGS"	FALSE
"17828"	"ORAI1"	84876	"mskcc.org"	"GRCh37"	"12"	122074592	122074593	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTTTT"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.310-4347_310-4337dupTTTTTTTTTTT"	NA	NA	"ENST00000330079"	""	67	"."	6	43	"."	0	"ORAI1,intron_variant,,ENST00000330079,NM_032790.3;ORAI1,intron_variant,,ENST00000537188,;"	"TTTTTTTTTTT"	"ENSG00000182500"	"ENST00000330079"	"Transcript"	"intron_variant"	"-/2139"	"-/912"	"-/303"	NA	NA	""	"1"	NA	1	"ORAI1"	"HGNC"	25896	"protein_coding"	"YES"	"CCDS41851.1"	"ENSP00000328216"	"Q96D31"	"F5GWZ3"	"UPI00001FB4EF"	"NM_032790.3"	NA	NA	""	"1/1"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"18"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"fb06a746-fd99-11e5-92d9-f7fc414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0895522388059701	"WGS"	FALSE
"17829"	"FLT1"	2321	"mskcc.org"	"GRCh37"	"13"	28889345	28889345	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3386+2290delA"	NA	NA	"ENST00000282397"	""	89	"."	12	56	"."	0	"FLT1,intron_variant,,ENST00000282397,NM_002019.4;FLT1,intron_variant,,ENST00000540678,;FLT1,intron_variant,,ENST00000543394,;"	"-"	"ENSG00000102755"	"ENST00000282397"	"Transcript"	"intron_variant"	"-/7084"	"-/4017"	"-/1338"	NA	NA	""	"1"	NA	-1	"FLT1"	"HGNC"	3763	"protein_coding"	"YES"	"CCDS9330.1"	"ENSP00000282397"	"P17948"	"S5U0M6,S5TRK2,L7RSL3,H9N1E8,H9N1E7"	"UPI000013DCDD"	"NM_002019.4"	NA	NA	""	"25/29"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACTT"	"bce250c0-fd92-11e5-92d9-fcfc414a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.134831460674157	"WGS"	FALSE
"17830"	"TNFSF11"	8600	"mskcc.org"	"GRCh37"	"13"	43135440	43135441	"+"	"5'Flank"	"DEL"	"TA"	"TA"	"-"	"novel"	NA	"T6"	"W0006062F"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000358545"	""	100	"."	16	70	"."	0	"TNFSF11,upstream_gene_variant,,ENST00000358545,NM_033012.3;"	"-"	"ENSG00000120659"	"ENST00000358545"	"Transcript"	"upstream_gene_variant"	"-/1520"	"-/735"	"-/244"	NA	NA	""	"1"	"1431"	1	"TNFSF11"	"HGNC"	11926	"protein_coding"	""	"CCDS9385.1"	"ENSP00000351347"	"O14788"	"Q54A98"	"UPI000000103A"	"NM_033012.3"	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCTAT"	"378b9bf6-fd93-11e5-92d9-fcfc414a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.16	"WGS"	FALSE
"17831"	"ENSR00001641436"	0	"mskcc.org"	"GRCh37"	"13"	56616104	56616105	"+"	"IGR"	"INS"	"-"	"-"	"CTTCCCCAT"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENSR00001641436"	""	104	"."	12	63	"."	0	""	"CTTCCCCAT"	""	"ENSR00001641436"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	"open_chromatin_region"	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACC"	"2790ab70-fd97-11e5-92d9-fcfc414a729f"	"519"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.115384615384615	"WGS"	FALSE
"17832"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	56810516	56810516	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	115	"."	20	73	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAA"	"a15c87ca-fd93-11e5-92d9-fcfc414a729f"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.173913043478261	"WGS"	FALSE
"17833"	"Unknown"	0	"mskcc.org"	"GRCh37"	"13"	59335808	59335838	"+"	"IGR"	"DEL"	"TTAATTCTGTACCAAAGATTAAATTCTGTAC"	"TTAATTCTGTACCAAAGATTAAATTCTGTAC"	"GGATGGG"	"rs386771316"	NA	"T6"	"W0006062F"	"TTAATTCTGTACCAAAGATTAAATTCTGTAC"	"TTAATTCTGTACCAAAGATTAAATTCTGTAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	88	"."	12	65	"."	0	""	"GGATGGG"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	"rs386771316"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTTTAATTCTGTACCAAAGATTAAATTCTGTACC"	"aee9167c-fd95-11e5-92d9-fcfc414a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.136363636363636	"WGS"	FALSE
"17834"	"OR7E111P"	0	"mskcc.org"	"GRCh37"	"13"	68475893	68475894	"+"	"5'Flank"	"INS"	"-"	"-"	"TTTTTTT"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000442229"	""	103	"."	6	64	"."	0	"OR7E111P,upstream_gene_variant,,ENST00000442229,;"	"TTTTTTT"	"ENSG00000231667"	"ENST00000442229"	"Transcript"	"upstream_gene_variant"	"-/888"	""	""	NA	NA	""	"1"	"593"	1	"OR7E111P"	"HGNC"	15344	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCT"	"8d571caa-fd97-11e5-92d9-fcfc414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.058252427184466	"WGS"	FALSE
"17835"	"TTC6"	319089	"mskcc.org"	"GRCh37"	"14"	38310091	38310092	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"novel"	NA	"T6"	"W0006062F"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5299-559_5299-558delTG"	NA	NA	"ENST00000553443"	""	87	"."	5	65	"."	0	"TTC6,intron_variant,,ENST00000553443,;TTC6,intron_variant,,ENST00000476979,;TTC6,intron_variant,,ENST00000382320,;TTC6,intron_variant,,ENST00000267368,;TTC6,intron_variant,,ENST00000533625,;TTC6,intron_variant,,ENST00000478811,;TTC6,intron_variant,,ENST00000555921,;"	"-"	"ENSG00000139865"	"ENST00000553443"	"Transcript"	"intron_variant"	"-/5833"	"-/5661"	"-/1886"	NA	NA	""	"1"	NA	1	"TTC6"	"HGNC"	19739	"protein_coding"	"YES"	""	"ENSP00000451131"	""	"Q3SY87,G3V3A5"	"UPI00021CF1B4"	""	NA	NA	""	"29/30"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGA"	"37b9689c-fd93-11e5-90d4-f5fc414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0574712643678161	"WGS"	FALSE
"17836"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	41029093	41029094	"+"	"IGR"	"INS"	"-"	"-"	"CACACACACA"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	105	"."	8	58	"."	0	""	"CACACACACA"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"7cb19156-fd96-11e5-90d4-f5fc414a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0761904761904762	"WGS"	FALSE
"17837"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	41734415	41734415	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	131	"."	17	88	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"55398d52-fd93-11e5-90d4-f5fc414a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.129770992366412	"WGS"	FALSE
"17838"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	48351223	48351224	"+"	"IGR"	"INS"	"-"	"-"	"TGTTTAAAATAAAATAT"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	131	"."	13	72	"."	0	""	"TGTTTAAAATAAAATAT"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"b288a562-fd96-11e5-90d4-f5fc414a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.099236641221374	"WGS"	FALSE
"17839"	"Unknown"	0	"mskcc.org"	"GRCh37"	"14"	53299648	53299649	"+"	"IGR"	"INS"	"-"	"-"	"AAAAAAAAAACC"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	52	"."	6	31	"."	0	""	"AAAAAAAAAACC"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"d5683476-fd96-11e5-90d4-f5fc414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.115384615384615	"WGS"	FALSE
"17840"	"OTX2-AS1"	100309464	"mskcc.org"	"GRCh37"	"14"	57473625	57473627	"+"	"Intron"	"DEL"	"AAA"	"AAA"	"GT"	"novel"	NA	"T6"	"W0006062F"	"AAA"	"AAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.344+55386_344+55388delAAAinsGT"	NA	NA	"ENST00000554725"	""	107	"."	17	65	"."	0	"OTX2-AS1,intron_variant,,ENST00000554725,;"	"GT"	"ENSG00000248550"	"ENST00000554725"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/587"	""	""	NA	NA	""	"1"	NA	1	"OTX2-AS1"	"HGNC"	43906	"antisense"	""	""	""	""	""	""	""	NA	NA	""	"2/3"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAAAAG"	"7e31f4d6-fd95-11e5-90d4-f5fc414a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.158878504672897	"WGS"	FALSE
"17841"	"DPF3"	8110	"mskcc.org"	"GRCh37"	"14"	73174422	73174425	"+"	"Intron"	"DEL"	"AGAC"	"AGAC"	"-"	"novel"	NA	"T6"	"W0006062F"	"AGAC"	"AGAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.604+6706_604+6709delGTCT"	NA	NA	"ENST00000541685"	""	116	"."	10	64	"."	0	"DPF3,intron_variant,,ENST00000541685,NM_012074.4;DPF3,intron_variant,,ENST00000546183,NM_001280543.1;DPF3,intron_variant,,ENST00000556509,NM_001280542.1;DPF3,intron_variant,,ENST00000557704,;DPF3,intron_variant,,ENST00000554594,;DPF3,intron_variant,,ENST00000556238,;DPF3,intron_variant,,ENST00000366353,NM_001280544.1;DPF3,intron_variant,,ENST00000381216,;"	"-"	"ENSG00000205683"	"ENST00000541685"	"Transcript"	"intron_variant"	"-/2271"	"-/1074"	"-/357"	NA	NA	""	"1"	NA	-1	"DPF3"	"HGNC"	17427	"protein_coding"	"YES"	"CCDS45133.1"	"ENSP00000441640"	"Q92784"	""	"UPI0000246CC0"	"NM_012074.4"	NA	NA	""	"6/8"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAGACA"	"4496a5d8-fd94-11e5-90d4-f5fc414a729f"	"583"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0862068965517241	"WGS"	FALSE
"17842"	"RP11-472N19.3"	0	"mskcc.org"	"GRCh37"	"14"	92720952	92720958	"+"	"Intron"	"DEL"	"TAATGTG"	"TAATGTG"	"ATT"	"novel"	NA	"T6"	"W0006062F"	"TAATGTG"	"TAATGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.135-676_135-670delCACATTAinsAAT"	NA	NA	"ENST00000553537"	""	72	"."	10	57	"."	0	"RP11-472N19.3,intron_variant,,ENST00000553537,;"	"ATT"	"ENSG00000258481"	"ENST00000553537"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/580"	""	""	NA	NA	""	"1"	NA	-1	"RP11-472N19.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATAATGTGA"	"8d32f0d4-fd95-11e5-90d4-f5fc414a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.138888888888889	"WGS"	FALSE
"17843"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	38003027	38003030	"+"	"IGR"	"DEL"	"AAAT"	"AAAT"	"-"	"novel"	NA	"T6"	"W0006062F"	"AAAT"	"AAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	138	"."	17	76	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAAATC"	"2c66e186-fd93-11e5-890c-fdfc414a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.123188405797101	"WGS"	FALSE
"17844"	"ENSR00000407480"	0	"mskcc.org"	"GRCh37"	"15"	48165846	48165850	"+"	"IGR"	"DEL"	"CATTA"	"CATTA"	"-"	"novel"	NA	"T6"	"W0006062F"	"CATTA"	"CATTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENSR00000407480"	""	104	"."	10	77	"."	0	""	"-"	""	"ENSR00000407480"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCCATTAC"	"6f29167e-fd93-11e5-890c-fdfc414a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0961538461538462	"WGS"	FALSE
"17845"	"ATP8B4"	79895	"mskcc.org"	"GRCh37"	"15"	50378629	50378661	"+"	"Intron"	"DEL"	"ATTATATATAATAAAATAATAGAGATCTATATT"	"ATTATATATAATAAAATAATAGAGATCTATATT"	"-"	"novel"	NA	"T6"	"W0006062F"	"ATTATATATAATAAAATAATAGAGATCTATATT"	"ATTATATATAATAAAATAATAGAGATCTATATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.29-12279_29-12247delAATATAGATCTCTATTATTTTATTATATATAAT"	NA	NA	"ENST00000284509"	""	34	"."	5	12	"."	0	"ATP8B4,intron_variant,,ENST00000284509,NM_024837.3;ATP8B4,intron_variant,,ENST00000559829,;ATP8B4,intron_variant,,ENST00000558829,;ATP8B4,intron_variant,,ENST00000560437,;ATP8B4,intron_variant,,ENST00000559726,;ATP8B4,intron_variant,,ENST00000558906,;ATP8B4,intron_variant,,ENST00000557955,;"	"-"	"ENSG00000104043"	"ENST00000284509"	"Transcript"	"intron_variant"	"-/5677"	"-/3579"	"-/1192"	NA	NA	""	"1"	NA	-1	"ATP8B4"	"HGNC"	13536	"protein_coding"	"YES"	"CCDS32238.1"	"ENSP00000284509"	"Q8TF62"	"H0YMB5"	"UPI0000055904"	"NM_024837.3"	NA	NA	""	"2/27"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAATTATATATAATAAAATAATAGAGATCTATATTA"	"7cc3fc36-fd93-11e5-890c-fdfc414a729f"	"257"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.147058823529412	"WGS"	FALSE
"17846"	"CTD-2515H24.1"	0	"mskcc.org"	"GRCh37"	"15"	57851463	57851466	"+"	"5'Flank"	"DEL"	"TCTC"	"TCTC"	"-"	"novel"	NA	"T6"	"W0006062F"	"TCTC"	"TCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000485045"	""	100	"."	15	76	"."	0	"CTD-2515H24.1,upstream_gene_variant,,ENST00000485045,;"	"-"	"ENSG00000240874"	"ENST00000485045"	"Transcript"	"upstream_gene_variant"	"-/429"	""	""	NA	NA	""	"1"	"2886"	-1	"CTD-2515H24.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTCTCT"	"b9c56732-fd93-11e5-890c-fdfc414a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.15	"WGS"	FALSE
"17847"	"MEGF11"	84465	"mskcc.org"	"GRCh37"	"15"	66542742	66542759	"+"	"Intron"	"DEL"	"TTCTACGACTAAACTTTA"	"TTCTACGACTAAACTTTA"	"GTATTT"	"novel"	NA	"T6"	"W0006062F"	"TTCTACGACTAAACTTTA"	"TTCTACGACTAAACTTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-31+3184_-31+3201delTAAAGTTTAGTCGTAGAAinsAAATAC"	NA	NA	"ENST00000409699"	""	93	"."	25	56	"."	0	"MEGF11,intron_variant,,ENST00000409699,;MEGF11,intron_variant,,ENST00000360698,;MEGF11,intron_variant,,ENST00000422354,NM_032445.2;MEGF11,intron_variant,,ENST00000395625,;MEGF11,intron_variant,,ENST00000288745,;MEGF11,intron_variant,,ENST00000395614,;"	"GTATTT"	"ENSG00000157890"	"ENST00000409699"	"Transcript"	"intron_variant"	"-/6163"	"-/3135"	"-/1044"	NA	NA	""	"1"	NA	-1	"MEGF11"	"HGNC"	29635	"protein_coding"	"YES"	"CCDS10213.2"	"ENSP00000386908"	"A6BM72"	"C9JYE7"	"UPI00001FE6DA"	""	NA	NA	""	"1/22"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTTCTACGACTAAACTTTAA"	"37a2c7e8-fd95-11e5-890c-fdfc414a729f"	"1500"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.268817204301075	"WGS"	FALSE
"17848"	"RP11-798K3.3"	0	"mskcc.org"	"GRCh37"	"15"	67243656	67243658	"+"	"Intron"	"DEL"	"TGG"	"TGG"	"GT"	"novel"	NA	"T6"	"W0006062F"	"TGG"	"TGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.179+5020_179+5022delCCAinsAC"	NA	NA	"ENST00000558436"	""	90	"."	15	63	"."	0	"RP11-798K3.3,intron_variant,,ENST00000558436,;"	"GT"	"ENSG00000259289"	"ENST00000558436"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/709"	""	""	NA	NA	""	"1"	NA	-1	"RP11-798K3.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTGGT"	"382c44dc-fd95-11e5-890c-fdfc414a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.166666666666667	"WGS"	FALSE
"17849"	"Unknown"	0	"mskcc.org"	"GRCh37"	"15"	95540672	95540672	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	120	"."	8	70	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"d50fc9d2-fd94-11e5-890c-fdfc414a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0666666666666667	"WGS"	FALSE
"17850"	"ASB7"	140460	"mskcc.org"	"GRCh37"	"15"	101182902	101182905	"+"	"Intron"	"DEL"	"TTAT"	"TTAT"	"-"	"novel"	NA	"T6"	"W0006062F"	"TTAT"	"TTAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.818-5624_818-5621delATTT"	NA	NA	"ENST00000332783"	""	103	"."	14	72	"."	0	"ASB7,intron_variant,,ENST00000332783,NM_198243.2;ASB7,intron_variant,,ENST00000558747,;Y_RNA,downstream_gene_variant,,ENST00000391004,;RP11-192M23.1,downstream_gene_variant,,ENST00000561269,;"	"-"	"ENSG00000183475"	"ENST00000332783"	"Transcript"	"intron_variant"	"-/4985"	"-/957"	"-/318"	NA	NA	""	"1"	NA	1	"ASB7"	"HGNC"	17182	"protein_coding"	"YES"	"CCDS10387.1"	"ENSP00000328327"	"Q9H672"	""	"UPI00001B3F4D"	"NM_198243.2"	NA	NA	""	"5/5"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGTTATT"	"01ec2522-fd95-11e5-890c-fdfc414a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.135922330097087	"WGS"	FALSE
"17851"	"ZNF500"	26048	"mskcc.org"	"GRCh37"	"16"	4816109	4816109	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-98-32delG"	NA	NA	"ENST00000219478"	""	39	"."	5	37	"."	0	"ZNF500,intron_variant,,ENST00000219478,;ZNF500,intron_variant,,ENST00000545009,NM_021646.1;ZNF500,intron_variant,,ENST00000588602,;ZNF500,intron_variant,,ENST00000585977,;ZNF500,upstream_gene_variant,,ENST00000589422,;"	"-"	"ENSG00000103199"	"ENST00000219478"	"Transcript"	"intron_variant"	"-/5880"	"-/1443"	"-/480"	NA	NA	""	"1"	NA	-1	"ZNF500"	"HGNC"	23716	"protein_coding"	"YES"	"CCDS32383.1"	"ENSP00000219478"	"O60304"	"Q0VAL1,K7ERS9,K7EPZ1,K7EIH1"	"UPI00001C1FB0"	""	NA	NA	""	"1/5"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCA"	"767717ba-fd92-11e5-a339-f6fc414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.128205128205128	"WGS"	FALSE
"17852"	"GPR139"	124274	"mskcc.org"	"GRCh37"	"16"	20049738	20049738	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.128-5747delT"	NA	NA	"ENST00000570682"	""	83	"."	8	75	"."	0	"GPR139,intron_variant,,ENST00000570682,NM_001002911.2;GPR139,intron_variant,,ENST00000326571,;"	"-"	"ENSG00000180269"	"ENST00000570682"	"Transcript"	"intron_variant"	"-/1613"	"-/1062"	"-/353"	NA	NA	""	"1"	NA	-1	"GPR139"	"HGNC"	19995	"protein_coding"	"YES"	"CCDS32398.1"	"ENSP00000458791"	"Q6DWJ6"	""	"UPI000004C566"	"NM_001002911.2"	NA	NA	""	"1/1"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"fb13993a-fd92-11e5-a339-f6fc414a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0963855421686747	"WGS"	FALSE
"17853"	"COG7"	91949	"mskcc.org"	"GRCh37"	"16"	23450480	23450626	"+"	"Intron"	"DEL"	"AAAAAAAAAAAAAAAAAAAAAGATAGGCATATGATCCAGCAATTCCACTTCTGAGTAGATCCCTAAAGGAATTGAAAGCTGGAACTCAAACAGACAGATCATGCCACTGCACTCCAGCCTGGGCAACAGAGTTAAACTGTGTCTCCA"	"AAAAAAAAAAAAAAAAAAAAAGATAGGCATATGATCCAGCAATTCCACTTCTGAGTAGATCCCTAAAGGAATTGAAAGCTGGAACTCAAACAGACAGATCATGCCACTGCACTCCAGCCTGGGCAACAGAGTTAAACTGTGTCTCCA"	"-"	"novel"	NA	"T6"	"W0006062F"	"AAAAAAAAAAAAAAAAAAAAAGATAGGCATATGATCCAGCAATTCCACTTCTGAGTAGATCCCTAAAGGAATTGAAAGCTGGAACTCAAACAGACAGATCATGCCACTGCACTCCAGCCTGGGCAACAGAGTTAAACTGTGTCTCCA"	"AAAAAAAAAAAAAAAAAAAAAGATAGGCATATGATCCAGCAATTCCACTTCTGAGTAGATCCCTAAAGGAATTGAAAGCTGGAACTCAAACAGACAGATCATGCCACTGCACTCCAGCCTGGGCAACAGAGTTAAACTGTGTCTCCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.604+3172_604+3318delTGGAGACACAGTTTAACTCTGTTGCCCAGGCTGGAGTGCAGTGGCATGATCTGTCTGTTTGAGTTCCAGCTTTCAATTCCTTTAGGGATCTACTCAGAAGTGGAATTGCTGGATCATATGCCTATCTTTTTTTTTTTTTTTTTTTTT"	NA	NA	"ENST00000307149"	""	44	"."	6	25	"."	0	"COG7,intron_variant,,ENST00000307149,NM_153603.3;SNORA75,upstream_gene_variant,,ENST00000391291,;"	"-"	"ENSG00000168434"	"ENST00000307149"	"Transcript"	"intron_variant"	"-/2926"	"-/2313"	"-/770"	NA	NA	""	"1"	NA	-1	"COG7"	"HGNC"	18622	"protein_coding"	"YES"	"CCDS10610.1"	"ENSP00000305442"	"P83436"	""	"UPI0000127E42"	"NM_153603.3"	NA	NA	""	"4/16"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCAAAAAAAAAAAAAAAAAAAAAGATAGGCATATGATCCAGCAATTCCACTTCTGAGTAGATCCCTAAAGGAATTGAAAGCTGGAACTCAAACAGACAGATCATGCCACTGCACTCCAGCCTGGGCAACAGAGTTAAACTGTGTCTCCAA"	"0d245d12-fd93-11e5-a339-f6fc414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.136363636363636	"WGS"	FALSE
"17854"	"CTD-2522B17.5"	0	"mskcc.org"	"GRCh37"	"16"	33940666	33940666	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000566406"	""	86	"."	10	47	"."	0	"CTD-2522B17.5,upstream_gene_variant,,ENST00000566406,;CTD-2522B17.4,downstream_gene_variant,,ENST00000566845,;CTD-2522B17.6,upstream_gene_variant,,ENST00000566374,;PCMTD1P2,upstream_gene_variant,,ENST00000565017,;"	"-"	"ENSG00000261440"	"ENST00000566406"	"Transcript"	"upstream_gene_variant"	"-/1057"	""	""	NA	NA	""	"1"	"1407"	-1	"CTD-2522B17.5"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCAG"	"6d1f415a-fd93-11e5-a339-f6fc414a729f"	"597"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.116279069767442	"WGS"	FALSE
"17855"	"CDH8"	1006	"mskcc.org"	"GRCh37"	"16"	61702585	61702586	"+"	"Intron"	"INS"	"-"	"-"	"AA"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1655-12962_1655-12961dupTT"	NA	NA	"ENST00000577390"	""	156	"."	5	69	"."	0	"CDH8,intron_variant,,ENST00000577390,NM_001796.4;CDH8,intron_variant,,ENST00000577730,;CDH8,intron_variant,,ENST00000299345,;CDH8,intron_variant,,ENST00000580044,;CDH8,intron_variant,,ENST00000583483,;CDH8,intron_variant,,ENST00000585315,;"	"AA"	"ENSG00000150394"	"ENST00000577390"	"Transcript"	"intron_variant"	"-/9721"	"-/2400"	"-/799"	NA	NA	""	"1"	NA	-1	"CDH8"	"HGNC"	1767	"protein_coding"	"YES"	"CCDS10802.1"	"ENSP00000462701"	"P55286"	"J3KTG8,J3KT81"	"UPI0000126D9F"	"NM_001796.4"	NA	NA	""	"10/11"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"8c689444-fdac-11e5-a339-f6fc414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.032051282051282	"WGS"	FALSE
"17856"	"RP11-328J14.2"	0	"mskcc.org"	"GRCh37"	"16"	72307169	72307170	"+"	"5'Flank"	"INS"	"-"	"-"	"AAAAAAAAAAAATAATAATAATAAT"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000568483"	""	96	"."	6	67	"."	0	"RP11-328J14.2,upstream_gene_variant,,ENST00000568483,;"	"AAAAAAAAAAAATAATAATAATAAT"	"ENSG00000261774"	"ENST00000568483"	"Transcript"	"upstream_gene_variant"	"-/301"	""	""	NA	NA	""	"1"	"4997"	1	"RP11-328J14.2"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAA"	"af6551b2-fdac-11e5-a339-f6fc414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0625	"WGS"	FALSE
"17857"	"ULK2"	9706	"mskcc.org"	"GRCh37"	"17"	19671128	19671131	"+"	"3'Flank"	"DEL"	"GTGT"	"GTGT"	"-"	"novel"	NA	"T6"	"W0006062F"	"GTGT"	"GTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000361658"	""	81	"."	20	57	"."	0	"ULK2,downstream_gene_variant,,ENST00000361658,NM_001142610.1;ULK2,downstream_gene_variant,,ENST00000570983,;"	"-"	"ENSG00000083290"	"ENST00000361658"	"Transcript"	"downstream_gene_variant"	"-/3908"	"-/3111"	"-/1036"	NA	NA	""	"1"	"3012"	-1	"ULK2"	"HGNC"	13480	"protein_coding"	""	"CCDS11213.1"	"ENSP00000354877"	"Q8IYT8"	""	"UPI000013D19B"	"NM_001142610.1"	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGTGTG"	"02bae2ce-fd93-11e5-8e26-f4fc414a729f"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.246913580246914	"WGS"	FALSE
"17858"	"NT5C3B"	115024	"mskcc.org"	"GRCh37"	"17"	39985628	39985631	"+"	"Intron"	"DEL"	"AAAT"	"AAAT"	"-"	"novel"	NA	"T6"	"W0006062F"	"AAAT"	"AAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.405-427_405-424delATTT"	NA	NA	"ENST00000435506"	""	55	"."	6	59	"."	0	"NT5C3B,intron_variant,,ENST00000269534,NM_052935.4;NT5C3B,intron_variant,,ENST00000521789,;NT5C3B,intron_variant,,ENST00000435506,;NT5C3B,intron_variant,,ENST00000415460,;NT5C3B,intron_variant,,ENST00000486304,;NT5C3B,intron_variant,,ENST00000470690,;NT5C3B,intron_variant,,ENST00000469698,;NT5C3B,intron_variant,,ENST00000523903,;NT5C3B,intron_variant,,ENST00000393910,;NT5C3B,intron_variant,,ENST00000476921,;NT5C3B,intron_variant,,ENST00000517701,;NT5C3B,intron_variant,,ENST00000460893,;NT5C3B,intron_variant,,ENST00000445655,;NT5C3B,intron_variant,,ENST00000495317,;NT5C3B,intron_variant,,ENST00000475053,;NT5C3B,intron_variant,,ENST00000481693,;"	"-"	"ENSG00000141698"	"ENST00000435506"	"Transcript"	"intron_variant"	"-/975"	"-/903"	"-/300"	NA	NA	""	"1"	NA	-1	"NT5C3B"	"HGNC"	28300	"protein_coding"	"YES"	"CCDS11410.2"	"ENSP00000389948"	"Q969T7"	""	"UPI0001D04369"	""	NA	NA	""	"6/8"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAAAATA"	"b61a06b0-fd93-11e5-8e26-f4fc414a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.109090909090909	"WGS"	FALSE
"17859"	"C17orf112"	100506650	"mskcc.org"	"GRCh37"	"17"	51066646	51066646	"+"	"3'Flank"	"DEL"	"G"	"G"	"-"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000441889"	""	130	"."	12	74	"."	0	"C17orf112,downstream_gene_variant,,ENST00000441889,NM_001243552.1;"	"-"	"ENSG00000227011"	"ENST00000441889"	"Transcript"	"downstream_gene_variant"	"-/835"	"-/345"	"-/114"	NA	NA	""	"1"	"1634"	1	"C17orf112"	"HGNC"	42963	"protein_coding"	"YES"	"CCDS56040.1"	"ENSP00000411112"	"F2Z3M2"	""	"UPI0000198F83"	"NM_001243552.1"	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATGG"	"08153a02-fd94-11e5-8e26-f4fc414a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0923076923076923	"WGS"	FALSE
"17860"	"GDPD1"	284161	"mskcc.org"	"GRCh37"	"17"	57354915	57355231	"+"	"3'Flank"	"DEL"	"CTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGGAGATCACTTGAGGCCAGGAGTTCGAGACCAGCCTGGCCAACATGGCAAAACCCCATCTCTACTAAAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTGTGGTGGTGCACACCTGTAATCCCAACTACTTGGGATTACACGAGAATTGAGGCAGGAGAATTGCCTGAATCCAGGAGGCGGAAGCTGCAGTGAGCTGAGATGGCACTGCTGCACTCCACCCTGGCCAACAGAGTGAGACTCCATCTCAAAATAAAAAAGAAGAGGCCGGGTGCAGTGGCTCATGC"	"CTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGGAGATCACTTGAGGCCAGGAGTTCGAGACCAGCCTGGCCAACATGGCAAAACCCCATCTCTACTAAAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTGTGGTGGTGCACACCTGTAATCCCAACTACTTGGGATTACACGAGAATTGAGGCAGGAGAATTGCCTGAATCCAGGAGGCGGAAGCTGCAGTGAGCTGAGATGGCACTGCTGCACTCCACCCTGGCCAACAGAGTGAGACTCCATCTCAAAATAAAAAAGAAGAGGCCGGGTGCAGTGGCTCATGC"	"-"	"novel"	NA	"T6"	"W0006062F"	"CTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGGAGATCACTTGAGGCCAGGAGTTCGAGACCAGCCTGGCCAACATGGCAAAACCCCATCTCTACTAAAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTGTGGTGGTGCACACCTGTAATCCCAACTACTTGGGATTACACGAGAATTGAGGCAGGAGAATTGCCTGAATCCAGGAGGCGGAAGCTGCAGTGAGCTGAGATGGCACTGCTGCACTCCACCCTGGCCAACAGAGTGAGACTCCATCTCAAAATAAAAAAGAAGAGGCCGGGTGCAGTGGCTCATGC"	"CTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGGAGATCACTTGAGGCCAGGAGTTCGAGACCAGCCTGGCCAACATGGCAAAACCCCATCTCTACTAAAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTGTGGTGGTGCACACCTGTAATCCCAACTACTTGGGATTACACGAGAATTGAGGCAGGAGAATTGCCTGAATCCAGGAGGCGGAAGCTGCAGTGAGCTGAGATGGCACTGCTGCACTCCACCCTGGCCAACAGAGTGAGACTCCATCTCAAAATAAAAAAGAAGAGGCCGGGTGCAGTGGCTCATGC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000284116"	""	65	"."	7	35	"."	0	"GDPD1,downstream_gene_variant,,ENST00000284116,NM_182569.3;GDPD1,downstream_gene_variant,,ENST00000581140,NM_001165993.1;GDPD1,downstream_gene_variant,,ENST00000581276,NM_001165994.1;GDPD1,downstream_gene_variant,,ENST00000578026,;GDPD1,downstream_gene_variant,,ENST00000579020,;GDPD1,downstream_gene_variant,,ENST00000579076,;SNRPGP17,upstream_gene_variant,,ENST00000603780,;"	"-"	"ENSG00000153982"	"ENST00000284116"	"Transcript"	"downstream_gene_variant"	"-/1821"	"-/945"	"-/314"	NA	NA	""	"1"	"3042"	1	"GDPD1"	"HGNC"	20883	"protein_coding"	"YES"	"CCDS11616.1"	"ENSP00000284116"	"Q8N9F7"	"J3QRR6"	"UPI000019850B"	"NM_182569.3"	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTCTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGGAGATCACTTGAGGCCAGGAGTTCGAGACCAGCCTGGCCAACATGGCAAAACCCCATCTCTACTAAAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTGTGGTGGTGCACACCTGTAATCCCAACTACTTGGGATTACACGAGAATTGAGGCAGGAGAATTGCCTGAATCCAGGAGGCGGAAGCTGCAGTGAGCTGAGATGGCACTGCTGCACTCCACCCTGGCCAACAGAGTGAGACTCCATCTCAAAATAAAAAAGAAGAGGCCGGGTGCAGTGGCTCATGCC"	"32929fc2-fd94-11e5-8e26-f4fc414a729f"	"399"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.107692307692308	"WGS"	FALSE
"17861"	"Unknown"	0	"mskcc.org"	"GRCh37"	"17"	68568010	68568011	"+"	"IGR"	"INS"	"-"	"-"	"G"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	107	"."	20	51	"."	0	""	"G"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTG"	"0c2b641a-fd97-11e5-8e26-f4fc414a729f"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.186915887850467	"WGS"	FALSE
"17862"	"PIEZO2"	63895	"mskcc.org"	"GRCh37"	"18"	10861077	10861077	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.493-3868delG"	NA	NA	"ENST00000503781"	""	100	"."	10	54	"."	0	"PIEZO2,intron_variant,,ENST00000302079,;PIEZO2,intron_variant,,ENST00000580640,;PIEZO2,intron_variant,,ENST00000503781,NM_022068.2;PIEZO2,intron_variant,,ENST00000579899,;PIEZO2,intron_variant,,ENST00000582913,;"	"-"	"ENSG00000154864"	"ENST00000503781"	"Transcript"	"intron_variant"	"-/8259"	"-/8259"	"-/2752"	NA	NA	""	"1"	NA	-1	"PIEZO2"	"HGNC"	26270	"protein_coding"	"YES"	""	"ENSP00000421377"	"Q9H5I5"	"J3KSM7"	"UPI0001B3CB29"	"NM_022068.2"	NA	NA	""	"5/51"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTCC"	"e0135314-fd92-11e5-aef1-fbfc414a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.1	"WGS"	FALSE
"17863"	"RP11-746B8.1"	0	"mskcc.org"	"GRCh37"	"18"	30439255	30439256	"+"	"3'Flank"	"DEL"	"TT"	"TT"	"-"	"novel"	NA	"T6"	"W0006062F"	"TT"	"TT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000582239"	""	47	"."	5	26	"."	0	"RP11-746B8.1,intron_variant,,ENST00000580366,;RP11-746B8.1,downstream_gene_variant,,ENST00000582239,;"	"-"	"ENSG00000263765"	"ENST00000582239"	"Transcript"	"downstream_gene_variant"	"-/644"	""	""	NA	NA	""	"1"	"4002"	1	"RP11-746B8.1"	"Clone_based_vega_gene"	NA	"antisense"	"YES"	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTTT"	"5ece8692-fd93-11e5-aef1-fbfc414a729f"	"100"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.106382978723404	"WGS"	FALSE
"17864"	"RP11-289E15.1"	0	"mskcc.org"	"GRCh37"	"18"	52229358	52229379	"+"	"5'Flank"	"DEL"	"TGGCGTCCTTCCTTCCCAGCCC"	"TGGCGTCCTTCCTTCCCAGCCC"	"-"	"novel"	NA	"T6"	"W0006062F"	"TGGCGTCCTTCCTTCCCAGCCC"	"TGGCGTCCTTCCTTCCCAGCCC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000585943"	""	70	"."	15	50	"."	0	"RP11-289E15.1,upstream_gene_variant,,ENST00000585943,;"	"-"	"ENSG00000267428"	"ENST00000585943"	"Transcript"	"upstream_gene_variant"	"-/307"	""	""	NA	NA	""	"1"	"4849"	1	"RP11-289E15.1"	"Clone_based_vega_gene"	NA	"processed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATGGCGTCCTTCCTTCCCAGCCCT"	"06b81698-fd94-11e5-aef1-fbfc414a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.214285714285714	"WGS"	FALSE
"17865"	"CTD-2008L17.1"	0	"mskcc.org"	"GRCh37"	"18"	53587858	53587858	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.405+27188delT"	NA	NA	"ENST00000589440"	""	133	"."	21	62	"."	0	"CTD-2008L17.1,intron_variant,,ENST00000589440,;RP11-214L13.1,upstream_gene_variant,,ENST00000563553,;"	"-"	"ENSG00000267327"	"ENST00000589440"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/518"	""	""	NA	NA	""	"1"	NA	1	"CTD-2008L17.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTT"	"129b4296-fd94-11e5-aef1-fbfc414a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.157894736842105	"WGS"	FALSE
"17866"	"Unknown"	0	"mskcc.org"	"GRCh37"	"18"	67029417	67029418	"+"	"IGR"	"INS"	"-"	"-"	"A"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	122	"."	17	71	"."	0	""	"A"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACA"	"6aba80e2-fd97-11e5-aef1-fbfc414a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.139344262295082	"WGS"	FALSE
"17867"	"RPS2P6"	0	"mskcc.org"	"GRCh37"	"18"	68091875	68091875	"+"	"5'Flank"	"DEL"	"T"	"T"	"-"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000397939"	""	96	"."	11	57	"."	0	"RPS2P6,upstream_gene_variant,,ENST00000397939,;"	"-"	"ENSG00000214255"	"ENST00000397939"	"Transcript"	"upstream_gene_variant"	"-/672"	""	""	NA	NA	""	"1"	"4521"	1	"RPS2P6"	"HGNC"	25485	"processed_pseudogene"	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCTT"	"a26d6b1a-fd94-11e5-aef1-fbfc414a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.114583333333333	"WGS"	FALSE
"17868"	"ZNF407"	55628	"mskcc.org"	"GRCh37"	"18"	72657627	72657627	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.5428+24980delT"	NA	NA	"ENST00000299687"	""	165	"."	7	70	"."	0	"ZNF407,intron_variant,,ENST00000299687,NM_017757.2;"	"-"	"ENSG00000215421"	"ENST00000299687"	"Transcript"	"intron_variant"	"-/7948"	"-/6747"	"-/2248"	NA	NA	""	"1"	NA	1	"ZNF407"	"HGNC"	19904	"protein_coding"	"YES"	"CCDS45885.1"	"ENSP00000299687"	"Q9C0G0"	""	"UPI0000F58ED1"	"NM_017757.2"	NA	NA	""	"7/7"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTT"	"ccdf6d3a-fd94-11e5-aef1-fbfc414a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0424242424242424	"WGS"	FALSE
"17869"	"C3"	718	"mskcc.org"	"GRCh37"	"19"	6703957	6703960	"+"	"Intron"	"DEL"	"CAAA"	"CAAA"	"-"	"rs747215227"	NA	"T6"	"W0006062F"	"CAAA"	"CAAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2246-1370_2246-1367delTTTG"	NA	NA	"ENST00000245907"	""	61	"."	6	50	"."	0	"C3,intron_variant,,ENST00000245907,NM_000064.2;C3,upstream_gene_variant,,ENST00000602053,;"	"-"	"ENSG00000125730"	"ENST00000245907"	"Transcript"	"intron_variant"	"-/5263"	"-/4992"	"-/1663"	NA	NA	"rs747215227"	"1"	NA	-1	"C3"	"HGNC"	1318	"protein_coding"	"YES"	"CCDS32883.1"	"ENSP00000245907"	"P01024"	"Q6LDJ0,M0R1Q1"	"UPI000013EC9B"	"NM_000064.2"	NA	NA	""	"17/40"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTCAAAC"	"a0aa4ba6-fd92-11e5-8e0e-f559424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0983606557377049	"WGS"	FALSE
"17870"	"ZNF430"	80264	"mskcc.org"	"GRCh37"	"19"	21235358	21235361	"+"	"Intron"	"DEL"	"ATGT"	"ATGT"	"-"	"novel"	NA	"T6"	"W0006062F"	"ATGT"	"ATGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.323-4077_323-4074delGTAT"	NA	NA	"ENST00000261560"	""	74	"."	9	46	"."	0	"ZNF430,intron_variant,,ENST00000261560,NM_025189.3,NM_001172671.1;ZNF430,intron_variant,,ENST00000599548,;ZNF430,downstream_gene_variant,,ENST00000594110,;AC012627.1,upstream_gene_variant,,ENST00000578233,;"	"-"	"ENSG00000118620"	"ENST00000261560"	"Transcript"	"intron_variant"	"-/3923"	"-/1713"	"-/570"	NA	NA	""	"1"	NA	1	"ZNF430"	"HGNC"	20808	"protein_coding"	"YES"	"CCDS32978.1"	"ENSP00000261560"	"Q9H8G1"	"Q69YQ2,Q2NKJ9"	"UPI000020389E"	"NM_025189.3,NM_001172671.1"	NA	NA	""	"4/4"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAATGTA"	"50a92770-fd93-11e5-8e0e-f559424a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.121621621621622	"WGS"	FALSE
"17871"	"RP11-359H18.2"	0	"mskcc.org"	"GRCh37"	"19"	23780450	23780450	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.1123-32delA"	NA	NA	"ENST00000600110"	""	71	"."	9	41	"."	0	"ZNF675,intron_variant,,ENST00000601935,;ZNF675,intron_variant,,ENST00000596211,;ZNF675,intron_variant,,ENST00000600313,;RP11-359H18.2,intron_variant,,ENST00000600110,;VN1R93P,upstream_gene_variant,,ENST00000601155,;RPS27P29,downstream_gene_variant,,ENST00000463110,;"	"-"	"ENSG00000268455"	"ENST00000600110"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1595"	""	""	NA	NA	""	"1"	NA	1	"RP11-359H18.2"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/1"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"691a26ec-fd93-11e5-8e0e-f559424a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.126760563380282	"WGS"	FALSE
"17872"	"CTD-3220F14.1"	100134317	"mskcc.org"	"GRCh37"	"19"	37762487	37762487	"+"	"5'Flank"	"DEL"	"C"	"C"	"-"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000586442"	""	44	"."	5	45	"."	0	"CTD-3220F14.1,upstream_gene_variant,,ENST00000586442,;CTD-3220F14.1,upstream_gene_variant,,ENST00000590889,;CTD-3220F14.1,upstream_gene_variant,,ENST00000586324,;CTD-3220F14.1,upstream_gene_variant,,ENST00000588763,;"	"-"	"ENSG00000267605"	"ENST00000586442"	"Transcript"	"upstream_gene_variant"	"-/813"	""	""	NA	NA	""	"1"	"67"	-1	"CTD-3220F14.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCC"	"08f13cfa-fd94-11e5-8e0e-f559424a729f"	"144"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.113636363636364	"WGS"	FALSE
"17873"	"SMC6"	79677	"mskcc.org"	"GRCh37"	"2"	17843621	17843622	"+"	"3'Flank"	"DEL"	"TA"	"TA"	"-"	"novel"	NA	"T6"	"W0006062F"	"TA"	"TA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000448223"	""	116	"."	15	67	"."	0	"SMC6,downstream_gene_variant,,ENST00000448223,NM_001142286.1;SMC6,downstream_gene_variant,,ENST00000351948,NM_024624.5;SMC6,downstream_gene_variant,,ENST00000402989,;SMC6,downstream_gene_variant,,ENST00000381272,;SMC6,downstream_gene_variant,,ENST00000481708,;"	"-"	"ENSG00000163029"	"ENST00000448223"	"Transcript"	"downstream_gene_variant"	"-/5233"	"-/3276"	"-/1091"	NA	NA	""	"1"	"1457"	-1	"SMC6"	"HGNC"	20466	"protein_coding"	"YES"	"CCDS1690.1"	"ENSP00000404092"	"Q96SB8"	"C9JEF0"	"UPI0000073C3B"	"NM_001142286.1"	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTAT"	"0d2c5e22-fd93-11e5-a723-f759424a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.129310344827586	"WGS"	FALSE
"17874"	"LTBP1"	4052	"mskcc.org"	"GRCh37"	"2"	33617892	33617893	"+"	"Intron"	"INS"	"-"	"-"	"TTTTAT"	"rs143992964"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.4834+3521_4834+3522insTTATTT"	NA	NA	"ENST00000404816"	""	100	"."	11	60	"."	0	"LTBP1,intron_variant,,ENST00000404816,;LTBP1,intron_variant,,ENST00000354476,NM_206943.2;LTBP1,intron_variant,,ENST00000390003,NM_000627.3;LTBP1,intron_variant,,ENST00000418533,NM_001166266.1,NM_001166264.1;LTBP1,intron_variant,,ENST00000404525,NM_001166265.1;LTBP1,intron_variant,,ENST00000407925,;LTBP1,intron_variant,,ENST00000402934,;LTBP1,intron_variant,,ENST00000272273,;"	"TTTTAT"	"ENSG00000049323"	"ENST00000404816"	"Transcript"	"intron_variant"	"-/6333"	"-/5166"	"-/1721"	NA	NA	"rs143992964"	"1"	NA	1	"LTBP1"	"HGNC"	6714	"protein_coding"	"YES"	"CCDS33177.2"	"ENSP00000386043"	"Q14766"	"H7C2H7"	"UPI000173A4A4"	""	NA	NA	""	"32/33"	NA	"TTTTAT:0.0321"	"TTTTAT:0.112"	"TTTTAT:0.0115"	NA	"TTTTAT:0"	"TTTTAT:0.005"	"TTTTAT:0"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAT"	"31f0e874-fd9b-11e5-a723-f759424a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.11	"WGS"	FALSE
"17875"	"NRXN1"	9378	"mskcc.org"	"GRCh37"	"2"	50910784	50910785	"+"	"Intron"	"INS"	"-"	"-"	"AAAAAAAAAAAAATATATAT"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.932-60032_932-60031insATATATATTTTTTTTTTTTT"	NA	NA	"ENST00000404971"	""	48	"."	9	27	"."	0	"NRXN1,intron_variant,,ENST00000404971,NM_001135659.1;NRXN1,intron_variant,,ENST00000406316,NM_004801.4;NRXN1,intron_variant,,ENST00000401669,;NRXN1,intron_variant,,ENST00000405472,;NRXN1,intron_variant,,ENST00000402717,;NRXN1,intron_variant,,ENST00000406859,;"	"AAAAAAAAAAAAATATATAT"	"ENSG00000179915"	"ENST00000404971"	"Transcript"	"intron_variant"	"-/7578"	"-/4644"	"-/1547"	NA	NA	""	"1"	NA	-1	"NRXN1"	"HGNC"	8008	"protein_coding"	"YES"	"CCDS46282.1"	"ENSP00000385142"	"Q9ULB1"	"Q08AH0"	"UPI00015A218A"	"NM_001135659.1"	NA	NA	""	"6/23"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAA"	"9ba23f02-fd9b-11e5-a723-f759424a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.1875	"WGS"	FALSE
"17876"	"UGP2"	7360	"mskcc.org"	"GRCh37"	"2"	64105160	64105164	"+"	"Intron"	"DEL"	"AAAAG"	"AAAAG"	"-"	"novel"	NA	"T6"	"W0006062F"	"AAAAG"	"AAAAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.256-4438_256-4434delAAGAA"	NA	NA	"ENST00000337130"	""	105	"."	7	65	"."	0	"UGP2,intron_variant,,ENST00000337130,NM_006759.3;UGP2,intron_variant,,ENST00000394417,NM_001001521.1;UGP2,intron_variant,,ENST00000467648,;UGP2,intron_variant,,ENST00000445915,;UGP2,intron_variant,,ENST00000488245,;UGP2,intron_variant,,ENST00000491621,;UGP2,intron_variant,,ENST00000482668,;UGP2,intron_variant,,ENST00000497883,;UGP2,intron_variant,,ENST00000475462,;UGP2,intron_variant,,ENST00000472047,;UGP2,intron_variant,,ENST00000487469,;UGP2,intron_variant,,ENST00000495020,;UGP2,intron_variant,,ENST00000475550,;UGP2,intron_variant,,ENST00000466642,;UGP2,intron_variant,,ENST00000487042,;UGP2,intron_variant,,ENST00000493222,;UGP2,intron_variant,,ENST00000467999,;UGP2,intron_variant,,ENST00000497510,;UGP2,intron_variant,,ENST00000467400,;UGP2,intron_variant,,ENST00000483108,;UGP2,intron_variant,,ENST00000494536,;UGP2,intron_variant,,ENST00000496334,;UGP2,intron_variant,,ENST00000483461,;"	"-"	"ENSG00000169764"	"ENST00000337130"	"Transcript"	"intron_variant"	"-/2338"	"-/1527"	"-/508"	NA	NA	""	"1"	NA	1	"UGP2"	"HGNC"	12527	"protein_coding"	"YES"	"CCDS1875.1"	"ENSP00000338703"	"Q16851"	"Q53QE9,D6W5E6,C9JWG0,C9JVG3,C9JUW1,C9JTZ5,C9JNZ1,C9J6Q0,C9J3M0"	"UPI000000DB95"	"NM_006759.3"	NA	NA	""	"3/9"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAAAGA"	"b42a2262-fd94-11e5-a723-f759424a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0666666666666667	"WGS"	FALSE
"17877"	"CTNNA2"	1496	"mskcc.org"	"GRCh37"	"2"	80778945	80778948	"+"	"Intron"	"DEL"	"TTTC"	"TTTC"	"-"	"novel"	NA	"T6"	"W0006062F"	"TTTC"	"TTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1541-3869_1541-3866delTTTC"	NA	NA	"ENST00000466387"	""	121	"."	21	64	"."	0	"CTNNA2,intron_variant,,ENST00000466387,;CTNNA2,intron_variant,,ENST00000496558,NM_001164883.1,NM_004389.3,NM_001282598.1;CTNNA2,intron_variant,,ENST00000402739,NM_001282597.1;CTNNA2,intron_variant,,ENST00000541047,;CTNNA2,intron_variant,,ENST00000343114,NM_001282600.1,NM_001282599.1;CTNNA2,intron_variant,,ENST00000361291,;CTNNA2,intron_variant,,ENST00000540488,;CTNNA2,intron_variant,,ENST00000409550,;"	"-"	"ENSG00000066032"	"ENST00000466387"	"Transcript"	"intron_variant"	"-/4349"	"-/2718"	"-/905"	NA	NA	""	"1"	NA	1	"CTNNA2"	"HGNC"	2510	"protein_coding"	"YES"	"CCDS42703.2"	"ENSP00000418191"	"P26232"	"F6KRI5,C9J144,C9IZ88"	"UPI00001A3E86"	""	NA	NA	""	"15/21"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATTTCT"	"4b91b674-fd95-11e5-a723-f759424a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.173553719008264	"WGS"	FALSE
"17878"	"AC103563.6"	0	"mskcc.org"	"GRCh37"	"2"	95644246	95644249	"+"	"5'Flank"	"DEL"	"AAAC"	"AAAC"	"-"	"novel"	NA	"T6"	"W0006062F"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000432787"	""	106	"."	14	57	"."	0	"AC103563.6,upstream_gene_variant,,ENST00000432787,;"	"-"	"ENSG00000233447"	"ENST00000432787"	"Transcript"	"upstream_gene_variant"	"-/295"	""	""	NA	NA	""	"1"	"3663"	-1	"AC103563.6"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAAACA"	"e5d403ea-fd95-11e5-a723-f759424a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.132075471698113	"WGS"	FALSE
"17879"	"TBC1D8"	11138	"mskcc.org"	"GRCh37"	"2"	101740384	101740385	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.127+27204dupA"	NA	NA	"ENST00000376840"	""	75	"."	11	49	"."	0	"TBC1D8,intron_variant,,ENST00000409318,NM_001102426.1;TBC1D8,intron_variant,,ENST00000376840,;TBC1D8,intron_variant,,ENST00000463469,;"	"T"	"ENSG00000204634"	"ENST00000376840"	"Transcript"	"intron_variant"	"-/3627"	"-/3423"	"-/1140"	NA	NA	""	"1"	NA	-1	"TBC1D8"	"HGNC"	17791	"protein_coding"	"YES"	"CCDS46375.1"	"ENSP00000366036"	"O95759"	""	"UPI00015ADD19"	""	NA	NA	""	"1/19"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"9b4c5a8c-fd9c-11e5-a723-f759424a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.146666666666667	"WGS"	FALSE
"17880"	"DPP10"	57628	"mskcc.org"	"GRCh37"	"2"	116409168	116409274	"+"	"Intron"	"DEL"	"AAAAGAATGCGCAGGAGGAGGATGATCCATGGAGTAATATAATACTGTCAGTCAGGGTACAGACAGGAATGTCTGCCCTGTCAGCTTTGATCATACCATATGGGGAC"	"AAAAGAATGCGCAGGAGGAGGATGATCCATGGAGTAATATAATACTGTCAGTCAGGGTACAGACAGGAATGTCTGCCCTGTCAGCTTTGATCATACCATATGGGGAC"	"-"	"novel"	NA	"T6"	"W0006062F"	"AAAAGAATGCGCAGGAGGAGGATGATCCATGGAGTAATATAATACTGTCAGTCAGGGTACAGACAGGAATGTCTGCCCTGTCAGCTTTGATCATACCATATGGGGAC"	"AAAAGAATGCGCAGGAGGAGGATGATCCATGGAGTAATATAATACTGTCAGTCAGGGTACAGACAGGAATGTCTGCCCTGTCAGCTTTGATCATACCATATGGGGAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.454-38095_454-37989delAAAAGAATGCGCAGGAGGAGGATGATCCATGGAGTAATATAATACTGTCAGTCAGGGTACAGACAGGAATGTCTGCCCTGTCAGCTTTGATCATACCATATGGGGAC"	NA	NA	"ENST00000393147"	""	117	"."	21	66	"."	0	"DPP10,intron_variant,,ENST00000410059,NM_001178037.1,NM_020868.3;DPP10,intron_variant,,ENST00000409163,NM_001178036.1;DPP10,intron_variant,,ENST00000310323,NM_001004360.3;DPP10,intron_variant,,ENST00000393147,NM_001178034.1;DPP10,intron_variant,,ENST00000393146,;DPP10,intron_variant,,ENST00000488208,;DPP10,intron_variant,,ENST00000429914,;"	"-"	"ENSG00000175497"	"ENST00000393147"	"Transcript"	"intron_variant"	"-/2758"	"-/2403"	"-/800"	NA	NA	""	"1"	NA	1	"DPP10"	"HGNC"	20823	"protein_coding"	"YES"	"CCDS54388.1"	"ENSP00000376855"	"Q8N608"	"J3KQK8,C9J4M8"	"UPI00015E0A22"	"NM_001178034.1"	NA	NA	""	"5/25"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TAAAAAGAATGCGCAGGAGGAGGATGATCCATGGAGTAATATAATACTGTCAGTCAGGGTACAGACAGGAATGTCTGCCCTGTCAGCTTTGATCATACCATATGGGGACT"	"8b47a232-fd96-11e5-a723-f759424a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.179487179487179	"WGS"	FALSE
"17881"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	117107515	117107515	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	138	"."	22	73	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATT"	"92777320-fd96-11e5-a723-f759424a729f"	"1320"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.159420289855072	"WGS"	FALSE
"17882"	"STK39"	27347	"mskcc.org"	"GRCh37"	"2"	168884666	168884669	"+"	"Intron"	"DEL"	"TACA"	"TACA"	"-"	"novel"	NA	"T6"	"W0006062F"	"TACA"	"TACA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1377-11064_1377-11061delTGTA"	NA	NA	"ENST00000355999"	""	104	"."	12	85	"."	0	"STK39,intron_variant,,ENST00000355999,NM_013233.2;STK39,intron_variant,,ENST00000487143,;"	"-"	"ENSG00000198648"	"ENST00000355999"	"Transcript"	"intron_variant"	"-/3820"	"-/1638"	"-/545"	NA	NA	""	"1"	NA	-1	"STK39"	"HGNC"	17717	"protein_coding"	"YES"	"CCDS42770.1"	"ENSP00000348278"	"Q9UEW8"	""	"UPI000013D46D"	"NM_013233.2"	NA	NA	""	"14/17"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATTACAT"	"3d871d82-fd98-11e5-a723-f759424a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.115384615384615	"WGS"	FALSE
"17883"	"ENSR00000678508"	0	"mskcc.org"	"GRCh37"	"2"	183532260	183532265	"+"	"IGR"	"DEL"	"AGTCTC"	"AGTCTC"	"-"	"novel"	NA	"T6"	"W0006062F"	"AGTCTC"	"AGTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENSR00000678508"	""	98	"."	10	53	"."	0	""	"-"	""	"ENSR00000678508"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	"enhancer"	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAGTCTCC"	"97355f60-fd98-11e5-a723-f759424a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.102040816326531	"WGS"	FALSE
"17884"	"Unknown"	0	"mskcc.org"	"GRCh37"	"2"	227412679	227412680	"+"	"IGR"	"DEL"	"TG"	"TG"	"-"	"novel"	NA	"T6"	"W0006062F"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	92	"."	5	53	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGA"	"9b09d84a-fd99-11e5-a723-f759424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0543478260869565	"WGS"	FALSE
"17885"	"USP40"	55230	"mskcc.org"	"GRCh37"	"2"	234392266	234392267	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3537+1910dupA"	NA	NA	"ENST00000450966"	""	94	"."	12	70	"."	0	"USP40,intron_variant,,ENST00000251722,;USP40,intron_variant,,ENST00000450966,NM_018218.2;USP40,intron_variant,,ENST00000427112,;USP40,downstream_gene_variant,,ENST00000430158,;USP40,downstream_gene_variant,,ENST00000454354,;USP40,downstream_gene_variant,,ENST00000496298,;USP40,upstream_gene_variant,,ENST00000464956,;USP40,intron_variant,,ENST00000483519,;USP40,downstream_gene_variant,,ENST00000450940,;USP40,downstream_gene_variant,,ENST00000473191,;"	"T"	"ENSG00000085982"	"ENST00000450966"	"Transcript"	"intron_variant"	"-/5616"	"-/3744"	"-/1247"	NA	NA	""	"1"	NA	-1	"USP40"	"HGNC"	20069	"protein_coding"	"YES"	"CCDS46547.1"	"ENSP00000415434"	"Q9NVE5"	""	"UPI0000232F06"	"NM_018218.2"	NA	NA	""	"29/30"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"67e5adbc-fd9f-11e5-a723-f759424a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.127659574468085	"WGS"	FALSE
"17886"	"RP4-673D20.3"	100289473	"mskcc.org"	"GRCh37"	"20"	1746687	1746709	"+"	"3'Flank"	"DEL"	"TATAATATGTGTATATATATGTG"	"TATAATATGTGTATATATATGTG"	"-"	"novel"	NA	"T6"	"W0006062F"	"TATAATATGTGTATATATATGTG"	"TATAATATGTGTATATATATGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000418979"	""	77	"."	12	35	"."	0	"RP4-673D20.3,downstream_gene_variant,,ENST00000418979,;"	"-"	"ENSG00000232528"	"ENST00000418979"	"Transcript"	"downstream_gene_variant"	"-/1367"	""	""	NA	NA	""	"1"	"1894"	-1	"RP4-673D20.3"	"Clone_based_vega_gene"	NA	"unitary_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATATAATATGTGTATATATATGTGT"	"6be4c568-fd92-11e5-8f83-f159424a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.155844155844156	"WGS"	FALSE
"17887"	"ZNF877P"	0	"mskcc.org"	"GRCh37"	"20"	21242967	21242973	"+"	"5'Flank"	"DEL"	"TTCTTTC"	"TTCTTTC"	"-"	"novel"	NA	"T6"	"W0006062F"	"TTCTTTC"	"TTCTTTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000437614"	""	80	"."	5	59	"."	0	"ZNF877P,upstream_gene_variant,,ENST00000437614,;"	"-"	"ENSG00000226875"	"ENST00000437614"	"Transcript"	"upstream_gene_variant"	"-/612"	""	""	NA	NA	""	"1"	"3519"	1	"ZNF877P"	"HGNC"	38697	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTCTTTCT"	"1ee1ef7e-fd93-11e5-8f83-f159424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0625	"WGS"	FALSE
"17888"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	10400410	10400413	"+"	"IGR"	"DEL"	"AAGA"	"AAGA"	"-"	"novel"	NA	"T6"	"W0006062F"	"AAGA"	"AAGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	252	"."	19	168	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAAGAA"	"9755caa8-fd92-11e5-8301-f959424a729f"	"776"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0753968253968254	"WGS"	FALSE
"17889"	"Unknown"	0	"mskcc.org"	"GRCh37"	"21"	22927239	22927239	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	105	"."	18	58	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTCC"	"680bb1bc-fd93-11e5-8301-f959424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.171428571428571	"WGS"	FALSE
"17890"	"RUNX1"	861	"mskcc.org"	"GRCh37"	"21"	36410894	36410910	"+"	"Intron"	"DEL"	"CTCTCTCTCTCTCTCTC"	"CTCTCTCTCTCTCTCTC"	"GTGTGTG"	"novel"	NA	"T6"	"W0006062F"	"CTCTCTCTCTCTCTCTC"	"CTCTCTCTCTCTCTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.58+10229_58+10245delGAGAGAGAGAGAGAGAGinsCACACAC"	NA	NA	"ENST00000300305"	""	90	"."	6	60	"."	0	"RUNX1,intron_variant,,ENST00000300305,;RUNX1,intron_variant,,ENST00000437180,NM_001754.4;RUNX1,intron_variant,,ENST00000475045,;RUNX1,intron_variant,,ENST00000486278,;RUNX1,intron_variant,,ENST00000455571,;RUNX1,intron_variant,,ENST00000416754,;RUNX1,intron_variant,,ENST00000482318,;"	"GTGTGTG"	"ENSG00000159216"	"ENST00000300305"	"Transcript"	"intron_variant"	"-/6222"	"-/1443"	"-/480"	NA	NA	""	"1"	NA	-1	"RUNX1"	"HGNC"	10471	"protein_coding"	"YES"	"CCDS13639.1"	"ENSP00000300305"	"Q01196"	""	"UPI000015FE6A"	""	NA	NA	""	"1/7"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTCTCTCTCTCTCTCTCTCT"	"d060e3f8-fd94-11e5-8301-f959424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0666666666666667	"WGS"	TRUE
"17891"	"XXbac-B444P24.10"	0	"mskcc.org"	"GRCh37"	"22"	20289635	20289642	"+"	"Intron"	"DEL"	"TGGATTGT"	"TGGATTGT"	"CT"	"novel"	NA	"T6"	"W0006062F"	"TGGATTGT"	"TGGATTGT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.274-1157_274-1151delTGGATTGinsC"	NA	NA	"ENST00000438948"	""	80	"."	10	55	"."	0	"XXbac-B444P24.10,intron_variant,,ENST00000438948,;"	"C"	"ENSG00000161132"	"ENST00000438948"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1240"	""	""	NA	NA	""	"1"	NA	1	"XXbac-B444P24.10"	"Clone_based_vega_gene"	NA	"unprocessed_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/9"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGTGGATTGTC"	"d0347d0a-fd93-11e5-99b4-f259424a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.125	"WGS"	FALSE
"17892"	"LARGE"	9215	"mskcc.org"	"GRCh37"	"22"	34147854	34147854	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.106+9504delT"	NA	NA	"ENST00000354992"	""	90	"."	18	48	"."	0	"LARGE,intron_variant,,ENST00000354992,NM_004737.4;LARGE,intron_variant,,ENST00000337431,;LARGE,intron_variant,,ENST00000397394,NM_133642.3;LARGE,intron_variant,,ENST00000402320,;LARGE,intron_variant,,ENST00000437602,;LARGE,intron_variant,,ENST00000413114,;LARGE,intron_variant,,ENST00000423375,;LARGE,intron_variant,,ENST00000434071,;LARGE,intron_variant,,ENST00000432776,;LARGE,intron_variant,,ENST00000430220,;LARGE-AS1,downstream_gene_variant,,ENST00000438159,;LARGE-AS1,downstream_gene_variant,,ENST00000424291,;LARGE-AS1,downstream_gene_variant,,ENST00000416275,;LARGE,intron_variant,,ENST00000494763,;LARGE-AS1,downstream_gene_variant,,ENST00000445892,;"	"-"	"ENSG00000133424"	"ENST00000354992"	"Transcript"	"intron_variant"	"-/4409"	"-/2271"	"-/756"	NA	NA	""	"1"	NA	-1	"LARGE"	"HGNC"	6511	"protein_coding"	"YES"	"CCDS13912.1"	"ENSP00000347088"	"O95461"	"B0QZ02,B0QZ01,B0QZ00,B0QYZ9,B0QYZ8"	"UPI000012E200"	"NM_004737.4"	NA	NA	""	"3/15"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCAA"	"30f0dc66-fd93-11e5-99b4-f259424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.2	"WGS"	FALSE
"17893"	"Unknown"	0	"mskcc.org"	"GRCh37"	"22"	47711361	47711362	"+"	"IGR"	"INS"	"-"	"-"	"AAAAAAAAAAAAAAA"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	88	"."	7	63	"."	0	""	"AAAAAAAAAAAAAAA"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCA"	"070cb0d0-fd95-11e5-99b4-f259424a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0795454545454545	"WGS"	FALSE
"17894"	"GRM7"	2917	"mskcc.org"	"GRCh37"	"3"	7163062	7163097	"+"	"Intron"	"DEL"	"ATCCATCCCCTCTATTCATTGTAAGGCGTTGTGTTT"	"ATCCATCCCCTCTATTCATTGTAAGGCGTTGTGTTT"	"CCTCTATTCATTGTAAGGCGTTGTGTTTA"	"novel"	NA	"T6"	"W0006062F"	"ATCCATCCCCTCTATTCATTGTAAGGCGTTGTGTTT"	"ATCCATCCCCTCTATTCATTGTAAGGCGTTGTGTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.520-25077_520-25042delATCCATCCCCTCTATTCATTGTAAGGCGTTGTGTTTinsCCTCTATTCATTGTAAGGCGTTGTGTTTA"	NA	NA	"ENST00000357716"	""	124	"."	16	57	"."	0	"GRM7,intron_variant,,ENST00000486284,NM_181874.2;GRM7,intron_variant,,ENST00000357716,NM_000844.3;GRM7,intron_variant,,ENST00000389336,;GRM7,intron_variant,,ENST00000402647,;GRM7,intron_variant,,ENST00000403881,;GRM7,intron_variant,,ENST00000448328,;GRM7,intron_variant,,ENST00000467425,;GRM7,intron_variant,,ENST00000440923,;GRM7,intron_variant,,ENST00000389335,;GRM7,intron_variant,,ENST00000435689,;GRM7,intron_variant,,ENST00000443259,;"	"CCTCTATTCATTGTAAGGCGTTGTGTTTA"	"ENSG00000196277"	"ENST00000357716"	"Transcript"	"intron_variant"	"-/4127"	"-/2748"	"-/915"	NA	NA	""	"1"	NA	1	"GRM7"	"HGNC"	4599	"protein_coding"	"YES"	"CCDS43042.1"	"ENSP00000350348"	"Q14831"	"C9JU97"	"UPI000004A7E3"	"NM_000844.3"	NA	NA	""	"1/9"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCATCCATCCCCTCTATTCATTGTAAGGCGTTGTGTTTA"	"d0c9e486-fd97-11e5-a40d-f859424a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.129032258064516	"WGS"	FALSE
"17895"	"ZNF385D"	79750	"mskcc.org"	"GRCh37"	"3"	22282169	22282170	"+"	"Intron"	"INS"	"-"	"-"	"TGCTTCCTCACATCCTTGTCAGGC"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.184-71666_184-71643dupGCCTGACAAGGATGTGAGGAAGCA"	NA	NA	"ENST00000494118"	""	133	"."	17	76	"."	0	"ZNF385D,intron_variant,,ENST00000494118,;ZNF385D,intron_variant,,ENST00000494108,;ZNF385D,intron_variant,,ENST00000466511,;"	"TGCTTCCTCACATCCTTGTCAGGC"	"ENSG00000151789"	"ENST00000494118"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1050"	""	""	NA	NA	""	"1"	NA	-1	"ZNF385D"	"HGNC"	26191	"processed_transcript"	""	""	""	""	""	""	""	NA	NA	""	"1/6"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTT"	"9f14d42c-fd98-11e5-a40d-f859424a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.12781954887218	"WGS"	FALSE
"17896"	"THRB"	7068	"mskcc.org"	"GRCh37"	"3"	24476103	24476104	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"novel"	NA	"T6"	"W0006062F"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-261+60074_-261+60075delCA"	NA	NA	"ENST00000396671"	""	112	"."	20	66	"."	0	"THRB,intron_variant,,ENST00000396671,NM_001128176.2;THRB,intron_variant,,ENST00000356447,NM_001128177.1,NM_000461.4;THRB,intron_variant,,ENST00000416420,NM_001252634.1;THRB,intron_variant,,ENST00000413780,;THRB,intron_variant,,ENST00000447875,;THRB,intron_variant,,ENST00000453729,;THRB,intron_variant,,ENST00000415021,;THRB,intron_variant,,ENST00000418247,;THRB,intron_variant,,ENST00000447414,;THRB,intron_variant,,ENST00000431815,;THRB,intron_variant,,ENST00000428492,;RPL31P20,downstream_gene_variant,,ENST00000449593,;"	"-"	"ENSG00000151090"	"ENST00000396671"	"Transcript"	"intron_variant"	"-/7459"	"-/1386"	"-/461"	NA	NA	""	"1"	NA	-1	"THRB"	"HGNC"	11799	"protein_coding"	"YES"	"CCDS2641.1"	"ENSP00000379904"	"P10828"	"J3KR21,F1D8N7,C9JZS5,C9JTN1,C9JNQ4,C9JJM3,C9JHC2"	"UPI0000136D26"	"NM_001128176.2"	NA	NA	""	"1/10"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTTGT"	"4209d2b4-fd93-11e5-a40d-f859424a729f"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.178571428571429	"WGS"	FALSE
"17897"	"LARS2"	23395	"mskcc.org"	"GRCh37"	"3"	45550881	45550885	"+"	"Intron"	"DEL"	"ATGTG"	"ATGTG"	"-"	"novel"	NA	"T6"	"W0006062F"	"ATGTG"	"ATGTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1761-3739_1761-3735delGTGAT"	NA	NA	"ENST00000415258"	""	89	"."	16	69	"."	0	"LARS2,intron_variant,,ENST00000415258,;LARS2,intron_variant,,ENST00000265537,NM_015340.3;LARS2,intron_variant,,ENST00000414984,;LARS2-AS1,non_coding_transcript_exon_variant,,ENST00000442534,;LARS2,intron_variant,,ENST00000467936,;"	"-"	"ENSG00000011376"	"ENST00000415258"	"Transcript"	"intron_variant"	"-/4744"	"-/2712"	"-/903"	NA	NA	""	"1"	NA	1	"LARS2"	"HGNC"	17095	"protein_coding"	"YES"	"CCDS2728.1"	"ENSP00000408576"	"Q15031"	"Q9BQR0,C9JYR8"	"UPI0000001297"	""	NA	NA	""	"14/20"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"7"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CAATGTGA"	"f6e02044-fd93-11e5-a40d-f859424a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.179775280898876	"WGS"	FALSE
"17898"	"MAGI1"	9223	"mskcc.org"	"GRCh37"	"3"	65896530	65896531	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTTTT"	"rs755783850"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.313+127130_313+127140dupAAAAAAAAAAA"	NA	NA	"ENST00000402939"	""	96	"."	8	75	"."	0	"MAGI1,intron_variant,,ENST00000330909,NM_015520.1;MAGI1,intron_variant,,ENST00000483466,NM_004742.2;MAGI1,intron_variant,,ENST00000402939,NM_001033057.1;MAGI1,intron_variant,,ENST00000497477,;MAGI1-IT1,intron_variant,,ENST00000460754,;MAGI1-AS1,intron_variant,,ENST00000472514,;MAGI1,upstream_gene_variant,,ENST00000470990,;MAGI1,intron_variant,,ENST00000464060,;"	"TTTTTTTTTTT"	"ENSG00000151276"	"ENST00000402939"	"Transcript"	"intron_variant"	"-/4389"	"-/4389"	"-/1462"	NA	NA	"rs755783850"	"1"	NA	-1	"MAGI1"	"HGNC"	946	"protein_coding"	"YES"	"CCDS33780.1"	"ENSP00000385450"	"Q96QZ7"	""	"UPI0000457132"	"NM_001033057.1"	NA	NA	""	"1/22"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACT"	"789d3392-fd99-11e5-a40d-f859424a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0833333333333333	"WGS"	FALSE
"17899"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	96314533	96314533	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	128	"."	17	81	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTAA"	"78ec526e-fd95-11e5-a40d-f859424a729f"	"1020"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.1328125	"WGS"	FALSE
"17900"	"LSAMP"	4045	"mskcc.org"	"GRCh37"	"3"	116246247	116246248	"+"	"Intron"	"DEL"	"AA"	"AA"	"-"	"novel"	NA	"T6"	"W0006062F"	"AA"	"AA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.68-82446_68-82445delTT"	NA	NA	"ENST00000539563"	""	102	"."	19	63	"."	0	"LSAMP,intron_variant,,ENST00000539563,;LSAMP,intron_variant,,ENST00000474851,;"	"-"	"ENSG00000185565"	"ENST00000539563"	"Transcript"	"intron_variant"	"-/1077"	"-/1077"	"-/358"	NA	NA	""	"1"	NA	-1	"LSAMP"	"HGNC"	6705	"protein_coding"	""	""	"ENSP00000443429"	""	"F5H5G1"	"UPI0002064E9B"	""	NA	NA	""	"1/9"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTAAG"	"f38ea864-fd95-11e5-a40d-f859424a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.186274509803922	"WGS"	FALSE
"17901"	"TMCC1"	23023	"mskcc.org"	"GRCh37"	"3"	129514007	129514008	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.576+32638dupA"	NA	NA	"ENST00000393238"	""	98	"."	12	51	"."	0	"TMCC1,intron_variant,,ENST00000393238,NM_001017395.3;TMCC1,intron_variant,,ENST00000426664,NM_001128224.2;TMCC1,intron_variant,,ENST00000505616,;TMCC1,upstream_gene_variant,,ENST00000329333,;"	"T"	"ENSG00000172765"	"ENST00000393238"	"Transcript"	"intron_variant"	"-/5992"	"-/1962"	"-/653"	NA	NA	""	"1"	NA	-1	"TMCC1"	"HGNC"	29116	"protein_coding"	"YES"	"CCDS33855.1"	"ENSP00000376930"	"O94876"	"Q8N4H2,Q6N039,E9PC87,D6RBT7"	"UPI0000197B80"	"NM_001017395.3"	NA	NA	""	"3/5"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"c630dcd4-fd9a-11e5-a40d-f859424a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.122448979591837	"WGS"	FALSE
"17902"	"TMEM108"	66000	"mskcc.org"	"GRCh37"	"3"	132935009	132935009	"+"	"Intron"	"DEL"	"T"	"T"	"-"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-46-13099delT"	NA	NA	"ENST00000321871"	""	88	"."	15	45	"."	0	"TMEM108,intron_variant,,ENST00000515826,;TMEM108,intron_variant,,ENST00000321871,NM_001136469.1,NM_023943.2;TMEM108,intron_variant,,ENST00000508711,NM_001282865.1;TMEM108,intron_variant,,ENST00000393130,;TMEM108,intron_variant,,ENST00000512662,;TMEM108,intron_variant,,ENST00000514894,;TMEM108,intron_variant,,ENST00000512137,;TMEM108,intron_variant,,ENST00000510183,;TMEM108,intron_variant,,ENST00000511555,;"	"-"	"ENSG00000144868"	"ENST00000321871"	"Transcript"	"intron_variant"	"-/3744"	"-/1728"	"-/575"	NA	NA	""	"1"	NA	1	"TMEM108"	"HGNC"	28451	"protein_coding"	"YES"	"CCDS33858.1"	"ENSP00000324651"	"Q6UXF1"	"D6RIE1,D6RGJ9,D6RFH6,D6R9I6,D6R911"	"UPI000004EE8B"	"NM_001136469.1,NM_023943.2"	NA	NA	""	"2/5"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATT"	"4f966458-fd96-11e5-a40d-f859424a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.170454545454545	"WGS"	FALSE
"17903"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	146496529	146496529	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	133	"."	10	77	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"9b672a70-fd96-11e5-a40d-f859424a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.075187969924812	"WGS"	FALSE
"17904"	"CPHL1P"	0	"mskcc.org"	"GRCh37"	"3"	148994554	148994559	"+"	"5'Flank"	"DEL"	"TCTTCA"	"TCTTCA"	"AATC"	"novel"	NA	"T6"	"W0006062F"	"TCTTCA"	"TCTTCA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000461341"	""	114	"."	20	60	"."	0	"CPHL1P,non_coding_transcript_exon_variant,,ENST00000482639,;CPHL1P,upstream_gene_variant,,ENST00000461341,;"	"AATC"	"ENSG00000240216"	"ENST00000461341"	"Transcript"	"upstream_gene_variant"	"-/3407"	""	""	NA	NA	""	"1"	"103"	-1	"CPHL1P"	"HGNC"	31714	"unitary_pseudogene"	"YES"	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTCTTCAT"	"0feec528-fd98-11e5-a40d-f859424a729f"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.175438596491228	"WGS"	FALSE
"17905"	"Unknown"	0	"mskcc.org"	"GRCh37"	"3"	166085440	166085440	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	123	"."	20	63	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"085c2a7c-fd97-11e5-a40d-f859424a729f"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.16260162601626	"WGS"	FALSE
"17906"	"ENSR00001751705"	0	"mskcc.org"	"GRCh37"	"4"	3838686	3838687	"+"	"IGR"	"INS"	"-"	"-"	"CAGTGTTGCTTTGATCTCTGCTGACCATGCTCCCTCCCA"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENSR00001751705"	""	113	"."	6	83	"."	0	""	"CAGTGTTGCTTTGATCTCTGCTGACCATGCTCCCTCCCA"	""	"ENSR00001751705"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CGC"	"be3d5142-fd9a-11e5-a3f1-f659424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0530973451327434	"WGS"	FALSE
"17907"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	32782614	32782615	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	141	"."	23	81	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"bd0058f0-fd9b-11e5-a3f1-f659424a729f"	"1380"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.163120567375887	"WGS"	FALSE
"17908"	"RP11-79E3.3"	101928622	"mskcc.org"	"GRCh37"	"4"	33997174	33997174	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.60-15266delT"	NA	NA	"ENST00000505018"	""	98	"."	11	67	"."	0	"RP11-79E3.3,intron_variant,,ENST00000505018,;RP11-79E3.3,intron_variant,,ENST00000512581,;"	"-"	"ENSG00000250954"	"ENST00000505018"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/2404"	""	""	NA	NA	""	"1"	NA	-1	"RP11-79E3.3"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/4"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"c16c8218-fd93-11e5-a3f1-f659424a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.112244897959184	"WGS"	FALSE
"17909"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	44795415	44795415	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	109	"."	11	69	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGT"	"2c404908-fd94-11e5-a3f1-f659424a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.100917431192661	"WGS"	FALSE
"17910"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	46010604	46010604	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	132	"."	10	81	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"3787e19a-fd94-11e5-a3f1-f659424a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0757575757575758	"WGS"	FALSE
"17911"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	64376301	64376345	"+"	"IGR"	"DEL"	"CTTTAAATTTTTGCCAGGCTCAGTGGCTCACGCCTGTAATCCTGG"	"CTTTAAATTTTTGCCAGGCTCAGTGGCTCACGCCTGTAATCCTGG"	"-"	"novel"	NA	"T6"	"W0006062F"	"CTTTAAATTTTTGCCAGGCTCAGTGGCTCACGCCTGTAATCCTGG"	"CTTTAAATTTTTGCCAGGCTCAGTGGCTCACGCCTGTAATCCTGG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	108	"."	16	72	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACTTTAAATTTTTGCCAGGCTCAGTGGCTCACGCCTGTAATCCTGGC"	"16f6de44-fd95-11e5-a3f1-f659424a729f"	"944"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.148148148148148	"WGS"	FALSE
"17912"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	67810573	67810573	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	129	"."	15	64	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCC"	"416edbae-fd95-11e5-a3f1-f659424a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.116279069767442	"WGS"	FALSE
"17913"	"FAM47E"	100129583	"mskcc.org"	"GRCh37"	"4"	77157269	77157270	"+"	"Intron"	"DEL"	"TG"	"TG"	"-"	"novel"	NA	"T6"	"W0006062F"	"TG"	"TG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.81+18431_81+18432delGT"	NA	NA	"ENST00000510197"	""	101	"."	9	64	"."	0	"FAM47E,intron_variant,,ENST00000510197,NM_001242936.1;FAM47E,intron_variant,,ENST00000339906,;FAM47E,intron_variant,,ENST00000512895,;FAM47E,upstream_gene_variant,,ENST00000515589,;"	"-"	"ENSG00000189157"	"ENST00000510197"	"Transcript"	"intron_variant"	"-/1624"	"-/888"	"-/295"	NA	NA	""	"1"	NA	1	"FAM47E"	"HGNC"	34343	"protein_coding"	""	"CCDS58907.1"	"ENSP00000422262"	"Q6ZV65"	""	"UPI0000D6157B"	"NM_001242936.1"	NA	NA	""	"2/7"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTGT"	"9ce9ad06-fd95-11e5-a3f1-f659424a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0891089108910891	"WGS"	FALSE
"17914"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	80272572	80272572	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	89	"."	12	57	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"b930055a-fd95-11e5-a3f1-f659424a729f"	"720"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.134831460674157	"WGS"	FALSE
"17915"	"MTTP"	4547	"mskcc.org"	"GRCh37"	"4"	100549102	100549102	"+"	"3'Flank"	"DEL"	"T"	"T"	"-"	"rs202073427"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000457717"	""	136	"."	19	73	"."	0	"MTTP,downstream_gene_variant,,ENST00000457717,NM_000253.2;MTTP,downstream_gene_variant,,ENST00000265517,;MTTP,downstream_gene_variant,,ENST00000511045,;RP11-766F14.1,upstream_gene_variant,,ENST00000508578,;"	"-"	"ENSG00000138823"	"ENST00000457717"	"Transcript"	"downstream_gene_variant"	"-/4092"	"-/2685"	"-/894"	NA	NA	"rs202073427"	"1"	"3946"	1	"MTTP"	"HGNC"	7467	"protein_coding"	"YES"	"CCDS3651.1"	"ENSP00000400821"	"P55157"	""	"UPI000012F826"	"NM_000253.2"	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGTT"	"6704edc6-fd96-11e5-a3f1-f659424a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.139705882352941	"WGS"	FALSE
"17916"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	112075784	112075784	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	87	"."	15	84	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGCC"	"c2c7a446-fd96-11e5-a3f1-f659424a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.172413793103448	"WGS"	FALSE
"17917"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	112654473	112654505	"+"	"IGR"	"DEL"	"AGGGATAGTTGGTTCTTTCTTAACTCTCAGGTC"	"AGGGATAGTTGGTTCTTTCTTAACTCTCAGGTC"	"-"	"novel"	NA	"T6"	"W0006062F"	"AGGGATAGTTGGTTCTTTCTTAACTCTCAGGTC"	"AGGGATAGTTGGTTCTTTCTTAACTCTCAGGTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	107	"."	18	62	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GTAGGGATAGTTGGTTCTTTCTTAACTCTCAGGTCT"	"c85c9fba-fd96-11e5-a3f1-f659424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.168224299065421	"WGS"	FALSE
"17918"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	117692022	117692025	"+"	"IGR"	"DEL"	"ACAA"	"ACAA"	"-"	"rs112290910"	NA	"T6"	"W0006062F"	"ACAA"	"ACAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	106	"."	19	64	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	"rs112290910"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACACAAA"	"f1992902-fd96-11e5-a3f1-f659424a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.179245283018868	"WGS"	FALSE
"17919"	"PRSS12"	8492	"mskcc.org"	"GRCh37"	"4"	119198782	119198785	"+"	"3'Flank"	"DEL"	"TTTA"	"TTTA"	"-"	"novel"	NA	"T6"	"W0006062F"	"TTTA"	"TTTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000296498"	""	123	"."	10	67	"."	0	"PRSS12,downstream_gene_variant,,ENST00000296498,NM_003619.3;SNHG8,upstream_gene_variant,,ENST00000602414,;SNHG8,upstream_gene_variant,,ENST00000602573,;SNHG8,upstream_gene_variant,,ENST00000602819,;SNHG8,upstream_gene_variant,,ENST00000602520,;SNHG8,upstream_gene_variant,,ENST00000602483,;SNHG8,upstream_gene_variant,,ENST00000384096,NR_002963.1;"	"-"	"ENSG00000164099"	"ENST00000296498"	"Transcript"	"downstream_gene_variant"	"-/4809"	"-/2628"	"-/875"	NA	NA	""	"1"	"2408"	-1	"PRSS12"	"HGNC"	9477	"protein_coding"	"YES"	"CCDS3709.1"	"ENSP00000296498"	"P56730"	""	"UPI000013E34B"	"NM_003619.3"	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CTTTTAT"	"02a65878-fd97-11e5-a3f1-f659424a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0813008130081301	"WGS"	FALSE
"17920"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	126693770	126693770	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	102	"."	6	63	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATT"	"4871d1f2-fd97-11e5-a3f1-f659424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0588235294117647	"WGS"	FALSE
"17921"	"Unknown"	0	"mskcc.org"	"GRCh37"	"4"	155815603	155815611	"+"	"IGR"	"DEL"	"GATTCATTA"	"GATTCATTA"	"ATACAGG"	"novel"	NA	"T6"	"W0006062F"	"GATTCATTA"	"GATTCATTA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	96	"."	18	55	"."	0	""	"ATACAGG"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAGATTCATTAA"	"75db3edc-fd9a-11e5-a3f1-f659424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.1875	"WGS"	FALSE
"17922"	"RAPGEF2"	9693	"mskcc.org"	"GRCh37"	"4"	160282799	160282800	"+"	"3'Flank"	"INS"	"-"	"-"	"T"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000264431"	""	99	"."	10	65	"."	0	"RAPGEF2,downstream_gene_variant,,ENST00000264431,NM_014247.2;"	"T"	"ENSG00000109756"	"ENST00000264431"	"Transcript"	"downstream_gene_variant"	"-/6949"	"-/4500"	"-/1499"	NA	NA	""	"1"	"1478"	1	"RAPGEF2"	"HGNC"	16854	"protein_coding"	"YES"	"CCDS43277.1"	"ENSP00000264431"	"Q9Y4G8"	"Q9UFT5,Q4W5Q4,Q17RH5,D6REY8,B4DG82"	"UPI0000033783"	"NM_014247.2"	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAT"	"6bd641e8-fd9f-11e5-a3f1-f659424a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.101010101010101	"WGS"	FALSE
"17923"	"SPOCK3"	50859	"mskcc.org"	"GRCh37"	"4"	168144217	168144217	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.189+10919delT"	NA	NA	"ENST00000357154"	""	103	"."	9	45	"."	0	"SPOCK3,intron_variant,,ENST00000357154,NM_016950.2;SPOCK3,intron_variant,,ENST00000506886,;SPOCK3,intron_variant,,ENST00000357545,NM_001204354.1,NM_001204352.1,NM_001040159.1;SPOCK3,intron_variant,,ENST00000511531,;SPOCK3,intron_variant,,ENST00000504953,;SPOCK3,intron_variant,,ENST00000502330,;SPOCK3,intron_variant,,ENST00000510741,NM_001204356.1;SPOCK3,intron_variant,,ENST00000511269,;SPOCK3,intron_variant,,ENST00000421836,;SPOCK3,intron_variant,,ENST00000541354,NM_001204353.1;SPOCK3,intron_variant,,ENST00000512681,NM_001251967.1;SPOCK3,intron_variant,,ENST00000512648,NM_001204358.1;SPOCK3,intron_variant,,ENST00000535728,;SPOCK3,intron_variant,,ENST00000534949,NM_001204355.1;SPOCK3,intron_variant,,ENST00000541637,;SPOCK3,intron_variant,,ENST00000510403,;SPOCK3,intron_variant,,ENST00000509854,;SPOCK3,intron_variant,,ENST00000506697,;SPOCK3,intron_variant,,ENST00000512042,;SPOCK3,intron_variant,,ENST00000502821,;SPOCK3,intron_variant,,ENST00000511905,;SPOCK3,intron_variant,,ENST00000505187,;SPOCK3,intron_variant,,ENST00000507370,;SPOCK3,intron_variant,,ENST00000502741,;SPOCK3,intron_variant,,ENST00000507086,;SPOCK3,intron_variant,,ENST00000511226,;SPOCK3,intron_variant,,ENST00000515143,;SPOCK3,intron_variant,,ENST00000515316,;"	"-"	"ENSG00000196104"	"ENST00000357154"	"Transcript"	"intron_variant"	"-/2986"	"-/1311"	"-/436"	NA	NA	""	"1"	NA	-1	"SPOCK3"	"HGNC"	13565	"protein_coding"	"YES"	"CCDS54817.1"	"ENSP00000349677"	"Q9BQ16"	"Q4W5S3,Q4W5E2,E7EMP8"	"UPI000004BA60"	"NM_016950.2"	NA	NA	""	"2/11"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGAA"	"d8bf12b4-fd98-11e5-a3f1-f659424a729f"	"534"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.087378640776699	"WGS"	FALSE
"17924"	"PALLD"	23022	"mskcc.org"	"GRCh37"	"4"	169694307	169694340	"+"	"Intron"	"DEL"	"TGAAATTATATTGTTTAGAATATAACAATAACAG"	"TGAAATTATATTGTTTAGAATATAACAATAACAG"	"-"	"novel"	NA	"T6"	"W0006062F"	"TGAAATTATATTGTTTAGAATATAACAATAACAG"	"TGAAATTATATTGTTTAGAATATAACAATAACAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1964+61241_1964+61274delTATTGTTTAGAATATAACAATAACAGTGAAATTA"	NA	NA	"ENST00000505667"	""	106	"."	14	64	"."	0	"PALLD,intron_variant,,ENST00000335742,;PALLD,intron_variant,,ENST00000261509,NM_001166108.1,NM_016081.3;PALLD,intron_variant,,ENST00000505667,;PALLD,intron_variant,,ENST00000512127,NM_001166109.1;PALLD,intron_variant,,ENST00000510998,;"	"-"	"ENSG00000129116"	"ENST00000505667"	"Transcript"	"intron_variant"	"-/3637"	"-/3372"	"-/1123"	NA	NA	""	"1"	NA	1	"PALLD"	"HGNC"	17068	"protein_coding"	"YES"	"CCDS54818.1"	"ENSP00000425556"	"Q8WX93"	"Q4W5A6,D6RBH5,D6RBB1,D6R9Z5,D6R948"	"UPI000189A85C"	""	NA	NA	""	"10/21"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"8"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TTTGAAATTATATTGTTTAGAATATAACAATAACAGT"	"e8ac766c-fd98-11e5-a3f1-f659424a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.132075471698113	"WGS"	FALSE
"17925"	"FAT1"	2195	"mskcc.org"	"GRCh37"	"4"	187584083	187584084	"+"	"Intron"	"INS"	"-"	"-"	"G"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3580+369dupC"	NA	NA	"ENST00000441802"	""	97	"."	5	63	"."	0	"FAT1,intron_variant,,ENST00000441802,NM_005245.3;"	"G"	"ENSG00000083857"	"ENST00000441802"	"Transcript"	"intron_variant"	"-/14786"	"-/13767"	"-/4588"	NA	NA	""	"1"	NA	-1	"FAT1"	"HGNC"	3595	"protein_coding"	"YES"	"CCDS47177.1"	"ENSP00000406229"	"Q14517"	"D6RCE4"	"UPI000051946B"	"NM_005245.3"	NA	NA	""	"3/26"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCG"	"1beba6cc-fda0-11e5-a3f1-f659424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0515463917525773	"WGS"	TRUE
"17926"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	22924355	22924360	"+"	"IGR"	"DEL"	"GATGAT"	"GATGAT"	"-"	"novel"	NA	"T6"	"W0006062F"	"GATGAT"	"GATGAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	139	"."	15	73	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGGATGATG"	"4c5a64ae-fd93-11e5-9e52-fa59424a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.107913669064748	"WGS"	FALSE
"17927"	"UGT3A2"	167127	"mskcc.org"	"GRCh37"	"5"	36068269	36068269	"+"	"5'Flank"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000282507"	""	83	"."	6	55	"."	0	"UGT3A2,upstream_gene_variant,,ENST00000282507,NM_174914.3;UGT3A2,upstream_gene_variant,,ENST00000513300,NM_001168316.1;UGT3A2,upstream_gene_variant,,ENST00000545528,;UGT3A2,upstream_gene_variant,,ENST00000515131,;UGT3A2,intron_variant,,ENST00000504954,;UGT3A2,upstream_gene_variant,,ENST00000504685,;CTD-2197M16.1,downstream_gene_variant,,ENST00000505367,;"	"-"	"ENSG00000168671"	"ENST00000282507"	"Transcript"	"upstream_gene_variant"	"-/2355"	"-/1572"	"-/523"	NA	NA	""	"1"	"1276"	-1	"UGT3A2"	"HGNC"	27266	"protein_coding"	"YES"	"CCDS3914.1"	"ENSP00000282507"	"Q3SY77"	"F5H377,D6RDU1"	"UPI000013DCE8"	"NM_174914.3"	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAC"	"d785dad6-fd93-11e5-9e52-fa59424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.072289156626506	"WGS"	FALSE
"17928"	"DEPDC1B"	55789	"mskcc.org"	"GRCh37"	"5"	59964086	59964087	"+"	"Intron"	"INS"	"-"	"-"	"TATATATATATATATAAAATGGATATTTTATATATATATATATAAAATGGATATTT"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.314+18702_314+18703insAAATATCCATTTTATATATATATATATAAAATATCCATTTTATATATATATATATA"	NA	NA	"ENST00000265036"	""	77	"."	6	47	"."	0	"DEPDC1B,intron_variant,,ENST00000265036,NM_018369.2;DEPDC1B,intron_variant,,ENST00000545085,;DEPDC1B,intron_variant,,ENST00000453022,NM_001145208.1;DEPDC1B,intron_variant,,ENST00000512078,;DEPDC1B,intron_variant,,ENST00000512452,;AC109133.1,downstream_gene_variant,,ENST00000540612,;"	"TATATATATATATATAAAATGGATATTTTATATATATATATATAAAATGGATATTT"	"ENSG00000035499"	"ENST00000265036"	"Transcript"	"intron_variant"	"-/2499"	"-/1590"	"-/529"	NA	NA	""	"1"	NA	-1	"DEPDC1B"	"HGNC"	24902	"protein_coding"	"YES"	"CCDS3977.1"	"ENSP00000265036"	"Q8WUY9"	""	"UPI000020C7D4"	"NM_018369.2"	NA	NA	""	"2/10"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"0c02aae4-fd9b-11e5-9e52-fa59424a729f"	"275"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0779220779220779	"WGS"	FALSE
"17929"	"TBCA"	6902	"mskcc.org"	"GRCh37"	"5"	77147131	77147131	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-20+17327delC"	NA	NA	"ENST00000522370"	""	89	"."	14	50	"."	0	"TBCA,intron_variant,,ENST00000522370,;"	"-"	"ENSG00000171530"	"ENST00000522370"	"Transcript"	"intron_variant"	"-/435"	"-/255"	"-/84"	NA	NA	""	"1"	NA	-1	"TBCA"	"HGNC"	11579	"protein_coding"	""	""	"ENSP00000429313"	""	"E5RIW3"	"UPI0000E0969A"	""	NA	NA	""	"1/3"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGG"	"23a54bc6-fd95-11e5-9e52-fa59424a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.157303370786517	"WGS"	FALSE
"17930"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	87384803	87384803	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	110	"."	16	70	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATA"	"881abeb0-fd95-11e5-9e52-fa59424a729f"	"960"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.145454545454545	"WGS"	FALSE
"17931"	"RP11-155G15.2"	0	"mskcc.org"	"GRCh37"	"5"	96736907	96736910	"+"	"Intron"	"DEL"	"TATT"	"TATT"	"-"	"novel"	NA	"T6"	"W0006062F"	"TATT"	"TATT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.72-30541_72-30538delTATT"	NA	NA	"ENST00000504578"	""	141	"."	13	68	"."	0	"RP11-155G15.2,intron_variant,,ENST00000504578,;"	"-"	"ENSG00000251513"	"ENST00000504578"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/893"	""	""	NA	NA	""	"1"	NA	1	"RP11-155G15.2"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"1/2"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGTATTA"	"c34212cc-fd95-11e5-9e52-fa59424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0921985815602837	"WGS"	FALSE
"17932"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	128614758	128614771	"+"	"IGR"	"DEL"	"TTAGCACTCTTCTT"	"TTAGCACTCTTCTT"	"AAATTAGCACTC"	"novel"	NA	"T6"	"W0006062F"	"TTAGCACTCTTCTT"	"TTAGCACTCTTCTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	98	"."	16	51	"."	0	""	"AAATTAGCACTC"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATTAGCACTCTTCTTT"	"ea0bc544-fd98-11e5-9e52-fa59424a729f"	"955"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.163265306122449	"WGS"	FALSE
"17933"	"SAR1B"	51128	"mskcc.org"	"GRCh37"	"5"	133934226	133934235	"+"	"3'Flank"	"DEL"	"TTTTTTTTTT"	"TTTTTTTTTT"	"-"	"novel"	NA	"T6"	"W0006062F"	"TTTTTTTTTT"	"TTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000402673"	""	65	"."	6	57	"."	0	"SAR1B,downstream_gene_variant,,ENST00000402673,NM_016103.3;"	"-"	"ENSG00000152700"	"ENST00000402673"	"Transcript"	"downstream_gene_variant"	"-/6682"	"-/597"	"-/198"	NA	NA	""	"1"	"2599"	-1	"SAR1B"	"HGNC"	10535	"protein_coding"	"YES"	"CCDS4177.1"	"ENSP00000385432"	"Q9Y6B6"	"Q9H029,D6RD69,D6RAA2,D6R9R5"	"UPI0000135569"	"NM_016103.3"	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GATTTTTTTTTTT"	"093c3ae0-fd97-11e5-9e52-fa59424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0923076923076923	"WGS"	FALSE
"17934"	"PCDHA6"	56142	"mskcc.org"	"GRCh37"	"5"	140225956	140225958	"+"	"Intron"	"DEL"	"TTC"	"TTC"	"-"	"novel"	NA	"T6"	"W0006062F"	"TTC"	"TTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2394+15888_2394+15890delCTT"	NA	NA	"ENST00000529310"	""	107	"."	5	51	"."	0	"PCDHA6,intron_variant,,ENST00000529310,NM_018909.2,NM_031849.1,NM_031848.2;PCDHA1,intron_variant,,ENST00000504120,NM_018900.2;PCDHA3,intron_variant,,ENST00000522353,NM_018906.2;PCDHA8,intron_variant,,ENST00000531613,NM_018911.2;PCDHA2,intron_variant,,ENST00000526136,NM_018905.2;PCDHA4,intron_variant,,ENST00000530339,NM_018907.2;PCDHA7,intron_variant,,ENST00000525929,NM_018910.2;PCDHA5,intron_variant,,ENST00000529859,NM_018908.2;PCDHA1,intron_variant,,ENST00000394633,NM_031411.1;PCDHA4,intron_variant,,ENST00000512229,;PCDHA5,intron_variant,,ENST00000529619,;PCDHA6,intron_variant,,ENST00000527624,;PCDHA9,upstream_gene_variant,,ENST00000378122,NM_014005.3;PCDHA9,upstream_gene_variant,,ENST00000532602,NM_031857.1;PCDHA8,downstream_gene_variant,,ENST00000378123,NM_031856.1;"	"-"	"ENSG00000081842"	"ENST00000529310"	"Transcript"	"intron_variant"	"-/5374"	"-/2853"	"-/950"	NA	NA	""	"1"	NA	1	"PCDHA6"	"HGNC"	8672	"protein_coding"	"YES"	"CCDS47281.1"	"ENSP00000433378"	"Q9UN73"	""	"UPI00001273CE"	"NM_018909.2,NM_031849.1,NM_031848.2"	NA	NA	""	"1/3"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	NA	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTTTCT"	"3a81d6f0-fd97-11e5-9e52-fa59424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0467289719626168	"WGS"	FALSE
"17935"	"Unknown"	0	"mskcc.org"	"GRCh37"	"5"	165966174	165966174	"+"	"IGR"	"DEL"	"C"	"C"	"-"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	118	"."	6	75	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTCA"	"1162b8a6-fd98-11e5-9e52-fa59424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0508474576271186	"WGS"	FALSE
"17936"	"RP11-423H2.1"	728554	"mskcc.org"	"GRCh37"	"5"	177309673	177309673	"+"	"RNA"	"DEL"	"C"	"C"	"-"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.886delC"	NA	NA	"ENST00000506672"	"5/6"	135	"."	15	62	"."	0	"RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000506672,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000507037,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000515065,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000358442,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000511074,;RP11-423H2.1,downstream_gene_variant,,ENST00000506082,;RP11-423H2.1,downstream_gene_variant,,ENST00000515525,;RP11-423H2.1,upstream_gene_variant,,ENST00000503449,;RP11-423H2.1,downstream_gene_variant,,ENST00000510692,;RP11-423H2.1,upstream_gene_variant,,ENST00000514635,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000504756,;RP11-423H2.1,downstream_gene_variant,,ENST00000502601,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000303154,;RP11-423H2.1,non_coding_transcript_exon_variant,,ENST00000512851,;"	"-"	"ENSG00000170089"	"ENST00000506672"	"Transcript"	"non_coding_transcript_exon_variant,non_coding_transcript_variant"	"884/1570"	""	""	NA	NA	""	"1"	NA	1	"RP11-423H2.1"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	"5/6"	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AACC"	"7099193c-fd98-11e5-9e52-fa59424a729f"	"533"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.111111111111111	"WGS"	FALSE
"17937"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	18838426	18838427	"+"	"IGR"	"INS"	"-"	"-"	"TACTGTATTTGTGGTAATTTGTTACAACTGCCTTAGGATTTGATTTTTATAAATGATAAATAAATGATAAA"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	215	"."	10	104	"."	0	""	"TACTGTATTTGTGGTAATTTGTTACAACTGCCTTAGGATTTGATTTTTATAAATGATAAATAAATGATAAA"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"c32f6ac8-fd9a-11e5-b191-f459424a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0465116279069767	"WGS"	FALSE
"17938"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	33932254	33932257	"+"	"IGR"	"DEL"	"AGTT"	"AGTT"	"-"	"rs761206041"	NA	"T6"	"W0006062F"	"AGTT"	"AGTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	87	"."	13	65	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	"rs761206041"	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAGTTA"	"d7801b82-fd93-11e5-b191-f459424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.149425287356322	"WGS"	FALSE
"17939"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	42431343	42431358	"+"	"IGR"	"DEL"	"TTTTTTTTTTTTTTTT"	"TTTTTTTTTTTTTTTT"	"-"	"novel"	NA	"T6"	"W0006062F"	"TTTTTTTTTTTTTTTT"	"TTTTTTTTTTTTTTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	76	"."	6	62	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CATTTTTTTTTTTTTTTTT"	"1a8820fa-fd94-11e5-b191-f459424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0789473684210526	"WGS"	FALSE
"17940"	"PKHD1"	5314	"mskcc.org"	"GRCh37"	"6"	51706495	51706496	"+"	"Intron"	"DEL"	"TC"	"TC"	"-"	"novel"	NA	"T6"	"W0006062F"	"TC"	"TC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.8108-5229_8108-5228delGA"	NA	NA	"ENST00000371117"	""	118	"."	21	55	"."	0	"PKHD1,intron_variant,,ENST00000371117,NM_138694.3;PKHD1,intron_variant,,ENST00000340994,NM_170724.2;"	"-"	"ENSG00000170927"	"ENST00000371117"	"Transcript"	"intron_variant"	"-/16282"	"-/12225"	"-/4074"	NA	NA	""	"1"	NA	-1	"PKHD1"	"HGNC"	9016	"protein_coding"	"YES"	"CCDS4935.1"	"ENSP00000360158"	"P08F94"	""	"UPI000013C4C0"	"NM_138694.3"	NA	NA	""	"50/66"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"ATTCT"	"63ec168e-fd94-11e5-b191-f459424a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.177966101694915	"WGS"	FALSE
"17941"	"FAM83B"	222584	"mskcc.org"	"GRCh37"	"6"	54742703	54742704	"+"	"Intron"	"INS"	"-"	"-"	"T"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.444+7216dupT"	NA	NA	"ENST00000306858"	""	95	"."	19	70	"."	0	"FAM83B,intron_variant,,ENST00000306858,NM_001010872.2;"	"T"	"ENSG00000168143"	"ENST00000306858"	"Transcript"	"intron_variant"	"-/3167"	"-/3036"	"-/1011"	NA	NA	""	"1"	NA	1	"FAM83B"	"HGNC"	21357	"protein_coding"	"YES"	"CCDS34479.1"	"ENSP00000304078"	"Q5T0W9"	""	"UPI00001D81EC"	"NM_001010872.2"	NA	NA	""	"2/4"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	"1"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGT"	"08fc0c22-fd9c-11e5-b191-f459424a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.2	"WGS"	FALSE
"17942"	"DST"	667	"mskcc.org"	"GRCh37"	"6"	56785693	56785694	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTTT"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.217-20284_217-20275dupAAAAAAAAAA"	NA	NA	"ENST00000370754"	""	101	"."	5	64	"."	0	"DST,intron_variant,,ENST00000370754,;DST,intron_variant,,ENST00000449297,;"	"TTTTTTTTTT"	"ENSG00000151914"	"ENST00000370754"	"Transcript"	"intron_variant"	"-/24269"	"-/23253"	"-/7750"	NA	NA	""	"1"	NA	-1	"DST"	"HGNC"	1090	"protein_coding"	""	""	"ENSP00000359790"	""	"Q8WXY3,Q5T0V7,E9PEB9,E7ESK0"	"UPI0002065B99"	""	NA	NA	""	"2/101"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AAT"	"1a5634c0-fd9c-11e5-b191-f459424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0495049504950495	"WGS"	FALSE
"17943"	"BAI3"	577	"mskcc.org"	"GRCh37"	"6"	69855576	69855641	"+"	"Intron"	"DEL"	"AGAGGAGACCTTCAGTGGGTAGCTCCTCTCTGCTGACAGGGTATCACTGGGATACCCTGGCTGCAG"	"AGAGGAGACCTTCAGTGGGTAGCTCCTCTCTGCTGACAGGGTATCACTGGGATACCCTGGCTGCAG"	"-"	"novel"	NA	"T6"	"W0006062F"	"AGAGGAGACCTTCAGTGGGTAGCTCCTCTCTGCTGACAGGGTATCACTGGGATACCCTGGCTGCAG"	"AGAGGAGACCTTCAGTGGGTAGCTCCTCTCTGCTGACAGGGTATCACTGGGATACCCTGGCTGCAG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.2480+69656_2480+69721delTTCAGTGGGTAGCTCCTCTCTGCTGACAGGGTATCACTGGGATACCCTGGCTGCAGAGAGGAGACC"	NA	NA	"ENST00000370598"	""	89	"."	6	67	"."	0	"BAI3,intron_variant,,ENST00000370598,NM_001704.2;"	"-"	"ENSG00000135298"	"ENST00000370598"	"Transcript"	"intron_variant"	"-/6010"	"-/4569"	"-/1522"	NA	NA	""	"1"	NA	1	"BAI3"	"HGNC"	945	"protein_coding"	"YES"	"CCDS4968.1"	"ENSP00000359630"	"O60242"	"S4R3D0,B7Z1K0"	"UPI00001AE6A9"	"NM_001704.2"	NA	NA	""	"17/31"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"10"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCAGAGGAGACCTTCAGTGGGTAGCTCCTCTCTGCTGACAGGGTATCACTGGGATACCCTGGCTGCAGA"	"acfce3de-fd95-11e5-b191-f459424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0674157303370786	"WGS"	FALSE
"17944"	"KCNQ5"	56479	"mskcc.org"	"GRCh37"	"6"	73384115	73384115	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.398+51803delA"	NA	NA	"ENST00000342056"	""	122	"."	13	64	"."	0	"KCNQ5,intron_variant,,ENST00000342056,NM_001160132.1,NM_001160133.1;KCNQ5,intron_variant,,ENST00000355194,;KCNQ5,intron_variant,,ENST00000370398,NM_019842.3;KCNQ5,intron_variant,,ENST00000402622,;KCNQ5,intron_variant,,ENST00000355635,;KCNQ5,intron_variant,,ENST00000403813,NM_001160130.1;KCNQ5,intron_variant,,ENST00000414165,NM_001160134.1;KCNQ5,intron_variant,,ENST00000370392,;KCNQ5-IT1,intron_variant,,ENST00000445310,;"	"-"	"ENSG00000185760"	"ENST00000342056"	"Transcript"	"intron_variant"	"-/6688"	"-/2856"	"-/951"	NA	NA	""	"1"	NA	1	"KCNQ5"	"HGNC"	6299	"protein_coding"	"YES"	"CCDS55034.1"	"ENSP00000345055"	""	"A6PVT6"	"UPI000155D644"	"NM_001160132.1,NM_001160133.1"	NA	NA	""	"1/14"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"3"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACAA"	"cdf13428-fd95-11e5-b191-f459424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.10655737704918	"WGS"	FALSE
"17945"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	80051507	80051508	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	76	"."	5	36	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"d1ed1bd0-fd9c-11e5-b191-f459424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0657894736842105	"WGS"	FALSE
"17946"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	96780546	96780546	"+"	"IGR"	"DEL"	"G"	"G"	"-"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	132	"."	5	63	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTGG"	"99b4f8c4-fd96-11e5-b191-f459424a729f"	"294"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0378787878787879	"WGS"	FALSE
"17947"	"RP11-436D23.1"	0	"mskcc.org"	"GRCh37"	"6"	98652874	98652877	"+"	"Intron"	"DEL"	"ACTT"	"ACTT"	"-"	"rs754083142"	NA	"T6"	"W0006062F"	"ACTT"	"ACTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.353-70164_353-70161delTTAC"	NA	NA	"ENST00000607823"	""	113	"."	14	68	"."	0	"RP11-436D23.1,intron_variant,,ENST00000607823,;RP11-436D23.1,intron_variant,,ENST00000607032,;RP11-436D23.1,intron_variant,,ENST00000606913,;"	"-"	"ENSG00000271860"	"ENST00000607823"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1962"	""	""	NA	NA	"rs754083142"	"1"	NA	1	"RP11-436D23.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"4/6"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACACTTA"	"a9c12e2c-fd96-11e5-b191-f459424a729f"	"840"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.123893805309735	"WGS"	FALSE
"17948"	"ENSR00001498318"	0	"mskcc.org"	"GRCh37"	"6"	107306269	107306269	"+"	"IGR"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENSR00001498318"	""	88	"."	15	60	"."	0	""	"-"	""	"ENSR00001498318"	"RegulatoryFeature"	"regulatory_region_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	"promoter_flanking_region"	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GGAT"	"fdff9ab4-fd96-11e5-b191-f459424a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.170454545454545	"WGS"	FALSE
"17949"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	113372728	113372729	"+"	"IGR"	"INS"	"-"	"-"	"TATACATATATATATATATATATATA"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	43	"."	8	35	"."	0	""	"TATACATATATATATATATATATATA"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"ca7f4ef8-fd9d-11e5-b191-f459424a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.186046511627907	"WGS"	FALSE
"17950"	"ECT2L"	345930	"mskcc.org"	"GRCh37"	"6"	139160999	139160999	"+"	"Intron"	"DEL"	"G"	"G"	"-"	"novel"	NA	"T6"	"W0006062F"	"G"	"G"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.342+1348delG"	NA	NA	"ENST00000423192"	""	87	"."	5	52	"."	0	"ECT2L,intron_variant,,ENST00000423192,;ECT2L,intron_variant,,ENST00000367682,NM_001077706.2,NM_001195037.2;ECT2L,intron_variant,,ENST00000541398,;ECT2L,downstream_gene_variant,,ENST00000401414,;"	"-"	"ENSG00000203734"	"ENST00000423192"	"Transcript"	"intron_variant"	"-/4319"	"-/2715"	"-/904"	NA	NA	""	"1"	NA	1	"ECT2L"	"HGNC"	21118	"protein_coding"	"YES"	"CCDS43508.1"	"ENSP00000387388"	"Q008S8"	"B7ZBI6"	"UPI0000E86804"	""	NA	NA	""	"4/20"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAGC"	"f7518550-fd97-11e5-b191-f459424a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0574712643678161	"WGS"	TRUE
"17951"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	142052976	142052977	"+"	"IGR"	"INS"	"-"	"-"	"T"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	149	"."	13	74	"."	0	""	"T"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TGT"	"59b9f56e-fd9e-11e5-b191-f459424a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.087248322147651	"WGS"	FALSE
"17952"	"Unknown"	0	"mskcc.org"	"GRCh37"	"6"	148523636	148523637	"+"	"IGR"	"DEL"	"GG"	"GG"	"-"	"novel"	NA	"T6"	"W0006062F"	"GG"	"GG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	92	"."	15	71	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CCGGG"	"425b26d2-fd98-11e5-b191-f459424a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.16304347826087	"WGS"	FALSE
"17953"	"DAGLB"	221955	"mskcc.org"	"GRCh37"	"7"	6448570	6448571	"+"	"3'Flank"	"INS"	"-"	"-"	"A"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000297056"	""	59	"."	9	44	"."	0	"DAGLB,downstream_gene_variant,,ENST00000297056,NM_139179.3;DAGLB,downstream_gene_variant,,ENST00000436575,;RAC1,downstream_gene_variant,,ENST00000348035,NM_006908.4;DAGLB,downstream_gene_variant,,ENST00000425398,NM_001142936.1;DAGLB,downstream_gene_variant,,ENST00000428902,;DAGLB,downstream_gene_variant,,ENST00000421761,;DAGLB,downstream_gene_variant,,ENST00000462934,;DAGLB,downstream_gene_variant,,ENST00000482149,;DAGLB,downstream_gene_variant,,ENST00000454738,;DAGLB,downstream_gene_variant,,ENST00000497308,;"	"A"	"ENSG00000164535"	"ENST00000297056"	"Transcript"	"downstream_gene_variant"	"-/2897"	"-/2019"	"-/672"	NA	NA	""	"1"	"189"	-1	"DAGLB"	"HGNC"	28923	"protein_coding"	"YES"	"CCDS5350.1"	"ENSP00000297056"	"Q8NCG7"	"E7ET49,B3KR38"	"UPI000006E01F"	"NM_139179.3"	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCC"	"b47117ae-fd98-11e5-98a3-f359424a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.152542372881356	"WGS"	FALSE
"17954"	"AGMO"	392636	"mskcc.org"	"GRCh37"	"7"	15357494	15357498	"+"	"Intron"	"DEL"	"GTATA"	"GTATA"	"ACG"	"novel"	NA	"T6"	"W0006062F"	"GTATA"	"GTATA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1263+47641_1263+47645delTATACinsCGT"	NA	NA	"ENST00000342526"	""	117	"."	6	58	"."	0	"AGMO,intron_variant,,ENST00000342526,NM_001004320.1;AGMO,intron_variant,,ENST00000407277,;"	"ACG"	"ENSG00000187546"	"ENST00000342526"	"Transcript"	"intron_variant"	"-/2475"	"-/1338"	"-/445"	NA	NA	""	"1"	NA	-1	"AGMO"	"HGNC"	33784	"protein_coding"	"YES"	"CCDS34604.1"	"ENSP00000341662"	"Q6ZNB7"	""	"UPI0000050343"	"NM_001004320.1"	NA	NA	""	"12/12"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"indel"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACGTATAT"	"1f7800f4-fd98-11e5-98a3-f359424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0512820512820513	"WGS"	FALSE
"17955"	"TECPR1"	25851	"mskcc.org"	"GRCh37"	"7"	97868538	97868539	"+"	"Intron"	"DEL"	"CA"	"CA"	"-"	"novel"	NA	"T6"	"W0006062F"	"CA"	"CA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.934-617_934-616delTG"	NA	NA	"ENST00000447648"	""	48	"."	7	42	"."	0	"TECPR1,intron_variant,,ENST00000447648,NM_015395.2;TECPR1,intron_variant,,ENST00000379795,;TECPR1,intron_variant,,ENST00000542604,;TECPR1,intron_variant,,ENST00000471397,;TECPR1,downstream_gene_variant,,ENST00000472845,;TECPR1,intron_variant,,ENST00000463648,;"	"-"	"ENSG00000205356"	"ENST00000447648"	"Transcript"	"intron_variant"	"-/6564"	"-/3498"	"-/1165"	NA	NA	""	"1"	NA	-1	"TECPR1"	"HGNC"	22214	"protein_coding"	"YES"	"CCDS47648.1"	"ENSP00000404923"	"Q7Z6L1"	"C9JUV4"	"UPI0000161940"	"NM_015395.2"	NA	NA	""	"8/25"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTCAG"	"e839a45a-fd95-11e5-98a3-f359424a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.145833333333333	"WGS"	FALSE
"17956"	"FBXL13"	222235	"mskcc.org"	"GRCh37"	"7"	102598141	102598144	"+"	"Intron"	"DEL"	"AAAC"	"AAAC"	"-"	"rs747836317"	NA	"T6"	"W0006062F"	"AAAC"	"AAAC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.724+5836_724+5839delGTTT"	NA	NA	"ENST00000313221"	""	77	"."	6	64	"."	0	"FBXL13,intron_variant,,ENST00000393772,NM_001287150.1;FBXL13,intron_variant,,ENST00000379308,;FBXL13,intron_variant,,ENST00000313221,NM_145032.3;FBXL13,intron_variant,,ENST00000436908,;FBXL13,intron_variant,,ENST00000379305,;FBXL13,intron_variant,,ENST00000455112,NM_001111038.1;FBXL13,intron_variant,,ENST00000379306,;FBXL13,intron_variant,,ENST00000456695,;FBXL13,intron_variant,,ENST00000477915,;FBXL13,intron_variant,,ENST00000448002,;"	"-"	"ENSG00000161040"	"ENST00000313221"	"Transcript"	"intron_variant"	"-/2744"	"-/2208"	"-/735"	NA	NA	"rs747836317"	"1"	NA	-1	"FBXL13"	"HGNC"	21658	"protein_coding"	"YES"	"CCDS5726.1"	"ENSP00000321927"	"Q8NEE6"	""	"UPI000020F830"	"NM_145032.3"	NA	NA	""	"8/19"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAACA"	"127f71a4-fd96-11e5-98a3-f359424a729f"	"360"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0779220779220779	"WGS"	FALSE
"17957"	"ASB15"	142685	"mskcc.org"	"GRCh37"	"7"	123264252	123264277	"+"	"Intron"	"DEL"	"GAATTTTACATACATTATTTAATTTG"	"GAATTTTACATACATTATTTAATTTG"	"-"	"novel"	NA	"T6"	"W0006062F"	"GAATTTTACATACATTATTTAATTTG"	"GAATTTTACATACATTATTTAATTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.452-371_452-346delGAATTTTACATACATTATTTAATTTG"	NA	NA	"ENST00000451558"	""	91	"."	18	47	"."	0	"ASB15,intron_variant,,ENST00000451558,;ASB15,intron_variant,,ENST00000451215,;ASB15,intron_variant,,ENST00000434204,;ASB15,intron_variant,,ENST00000540573,;ASB15,intron_variant,,ENST00000275699,NM_080928.3;ASB15,intron_variant,,ENST00000447789,;RP11-390E23.3,intron_variant,,ENST00000429396,;RP11-390E23.3,intron_variant,,ENST00000418409,;RP11-390E23.3,intron_variant,,ENST00000440504,;RP11-390E23.3,intron_variant,,ENST00000451016,;RP11-390E23.3,intron_variant,,ENST00000422401,;"	"-"	"ENSG00000146809"	"ENST00000451558"	"Transcript"	"intron_variant"	"-/3204"	"-/1767"	"-/588"	NA	NA	""	"1"	NA	1	"ASB15"	"HGNC"	19767	"protein_coding"	"YES"	"CCDS34742.1"	"ENSP00000397655"	"Q8WXK1"	"C9J956"	"UPI000022D0FF"	""	NA	NA	""	"9/13"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GAGAATTTTACATACATTATTTAATTTGT"	"c29dc81a-fd96-11e5-98a3-f359424a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.197802197802198	"WGS"	FALSE
"17958"	"AF104455.1"	0	"mskcc.org"	"GRCh37"	"7"	152755510	152755511	"+"	"3'Flank"	"INS"	"-"	"-"	"T"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	"ENST00000584395"	""	105	"."	15	56	"."	0	"AF104455.1,downstream_gene_variant,,ENST00000584395,;"	"T"	"ENSG00000265275"	"ENST00000584395"	"Transcript"	"downstream_gene_variant"	"-/83"	""	""	NA	NA	""	"1"	"1606"	1	"AF104455.1"	"Clone_based_ensembl_gene"	NA	"miRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GCT"	"6ac56d8a-fd9d-11e5-98a3-f359424a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.142857142857143	"WGS"	FALSE
"17959"	"RP11-962G15.1"	0	"mskcc.org"	"GRCh37"	"8"	36568184	36568188	"+"	"Intron"	"DEL"	"TTCTC"	"TTCTC"	"-"	"novel"	NA	"T6"	"W0006062F"	"TTCTC"	"TTCTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.412-8777_412-8773delGAGAA"	NA	NA	"ENST00000524132"	""	123	"."	21	71	"."	0	"RP11-962G15.1,intron_variant,,ENST00000524132,;"	"-"	"ENSG00000253363"	"ENST00000524132"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/570"	""	""	NA	NA	""	"1"	NA	-1	"RP11-962G15.1"	"Clone_based_vega_gene"	NA	"lincRNA"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/4"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTCTCG"	"80778f8c-fd93-11e5-8573-8bd1414a729f"	"1260"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.170731707317073	"WGS"	FALSE
"17960"	"SNTG1"	54212	"mskcc.org"	"GRCh37"	"8"	51582648	51582648	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1038+11425delC"	NA	NA	"ENST00000522124"	""	109	"."	12	70	"."	0	"SNTG1,intron_variant,,ENST00000522124,NM_018967.2,NM_001287813.1;SNTG1,intron_variant,,ENST00000518864,;SNTG1,intron_variant,,ENST00000517473,NM_001287814.1;SNTG1,intron_variant,,ENST00000276467,;SNTG1,intron_variant,,ENST00000520825,;SNTG1,intron_variant,,ENST00000524004,;"	"-"	"ENSG00000147481"	"ENST00000522124"	"Transcript"	"intron_variant"	"-/3504"	"-/1554"	"-/517"	NA	NA	""	"1"	NA	1	"SNTG1"	"HGNC"	13740	"protein_coding"	"YES"	"CCDS6147.1"	"ENSP00000429842"	"Q9NSN8"	"E5RIN0"	"UPI000004A0DD"	"NM_018967.2,NM_001287813.1"	NA	NA	""	"15/18"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TACT"	"9e3e32fc-fd96-11e5-8573-8bd1414a729f"	"642"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.110091743119266	"WGS"	FALSE
"17961"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	79970149	79970152	"+"	"IGR"	"DEL"	"AAAT"	"AAAT"	"-"	"novel"	NA	"T6"	"W0006062F"	"AAAT"	"AAAT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	139	"."	18	71	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAAAATA"	"3dc1af34-fd97-11e5-8573-8bd1414a729f"	"1080"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.129496402877698	"WGS"	FALSE
"17962"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	114700951	114700951	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	100	"."	20	62	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATT"	"1da71a44-fd98-11e5-8573-8bd1414a729f"	"1200"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.2	"WGS"	FALSE
"17963"	"Unknown"	0	"mskcc.org"	"GRCh37"	"8"	138249258	138249325	"+"	"IGR"	"DEL"	"ATGTTTTACATGTATAATATATAATATATAGTATATGTTTTACATGTATAATATATAATATATAGTAA"	"ATGTTTTACATGTATAATATATAATATATAGTATATGTTTTACATGTATAATATATAATATATAGTAA"	"-"	"novel"	NA	"T6"	"W0006062F"	"ATGTTTTACATGTATAATATATAATATATAGTATATGTTTTACATGTATAATATATAATATATAGTAA"	"ATGTTTTACATGTATAATATATAATATATAGTATATGTTTTACATGTATAATATATAATATATAGTAA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	86	"."	5	60	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ATATGTTTTACATGTATAATATATAATATATAGTATATGTTTTACATGTATAATATATAATATATAGTAAA"	"aef4d270-fd98-11e5-8573-8bd1414a729f"	"158"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0581395348837209	"WGS"	FALSE
"17964"	"FAM135B"	51059	"mskcc.org"	"GRCh37"	"8"	139181772	139181774	"+"	"Intron"	"DEL"	"TTC"	"TTC"	"-"	"novel"	NA	"T6"	"W0006062F"	"TTC"	"TTC"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1104-1482_1104-1480delGAA"	NA	NA	"ENST00000395297"	""	106	"."	11	70	"."	0	"FAM135B,intron_variant,,ENST00000395297,NM_015912.3;FAM135B,intron_variant,,ENST00000482951,;FAM135B,intron_variant,,ENST00000276737,;"	"-"	"ENSG00000147724"	"ENST00000395297"	"Transcript"	"intron_variant"	"-/6962"	"-/4221"	"-/1406"	NA	NA	""	"1"	NA	-1	"FAM135B"	"HGNC"	28029	"protein_coding"	"YES"	"CCDS6375.2"	"ENSP00000378710"	"Q49AJ0"	"J3QSR3"	"UPI000057A0DB"	"NM_015912.3"	NA	NA	""	"11/19"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TATTCT"	"b97d7440-fd98-11e5-8573-8bd1414a729f"	"660"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.10377358490566	"WGS"	FALSE
"17965"	"GLIS3"	169792	"mskcc.org"	"GRCh37"	"9"	3920746	3920746	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1983+11614delG"	NA	NA	"ENST00000381971"	""	113	"."	24	57	"."	0	"GLIS3,intron_variant,,ENST00000324333,NM_152629.3;GLIS3,intron_variant,,ENST00000381971,NM_001042413.1;GLIS3,intron_variant,,ENST00000461870,;GLIS3,intron_variant,,ENST00000467497,;GLIS3,intron_variant,,ENST00000463680,;"	"-"	"ENSG00000107249"	"ENST00000381971"	"Transcript"	"intron_variant"	"-/3961"	"-/2793"	"-/930"	NA	NA	""	"1"	NA	-1	"GLIS3"	"HGNC"	28510	"protein_coding"	"YES"	"CCDS43784.1"	"ENSP00000371398"	"Q8NEA6"	"Q1PHK4,Q1PHJ8,Q1PHJ7,Q1PHJ2,Q1PHI3"	"UPI0000DA4C5E"	"NM_001042413.1"	NA	NA	""	"6/10"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"GTCC"	"776f23ce-fd92-11e5-b422-8ad1414a729f"	"1440"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.212389380530973	"WGS"	FALSE
"17966"	"FREM1"	158326	"mskcc.org"	"GRCh37"	"9"	14799792	14799793	"+"	"Intron"	"INS"	"-"	"-"	"T"	"rs779944573"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.3694+1857dupA"	NA	NA	"ENST00000422223"	""	104	"."	8	64	"."	0	"FREM1,intron_variant,,ENST00000380881,;FREM1,intron_variant,,ENST00000422223,NM_144966.5;FREM1,intron_variant,,ENST00000380880,;FREM1,intron_variant,,ENST00000380875,;"	"T"	"ENSG00000164946"	"ENST00000422223"	"Transcript"	"intron_variant"	"-/10086"	"-/6540"	"-/2179"	NA	NA	"rs779944573"	"1"	NA	-1	"FREM1"	"HGNC"	23399	"protein_coding"	"YES"	"CCDS47952.1"	"ENSP00000412940"	"Q5H8C1"	""	"UPI000057A218"	"NM_144966.5"	NA	NA	""	"21/37"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"TCT"	"966855f8-fd96-11e5-b422-8ad1414a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0769230769230769	"WGS"	FALSE
"17967"	"RP11-54D18.3"	0	"mskcc.org"	"GRCh37"	"9"	15061382	15061383	"+"	"Intron"	"INS"	"-"	"-"	"TATATATGTATATATATATGTGTATATATATATATG"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"n.606+4543_606+4544insCATATATATATATACACATATATATATACATATATA"	NA	NA	"ENST00000609203"	""	60	"."	7	45	"."	0	"RP11-54D18.3,intron_variant,,ENST00000609203,;"	"TATATATGTATATATATATGTGTATATATATATATG"	"ENSG00000232000"	"ENST00000609203"	"Transcript"	"intron_variant,non_coding_transcript_variant"	"-/1944"	""	""	NA	NA	""	"1"	NA	-1	"RP11-54D18.3"	"Clone_based_vega_gene"	NA	"processed_transcript"	"YES"	""	""	""	""	""	""	NA	NA	""	"3/9"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TAT"	"984f04d4-fd96-11e5-b422-8ad1414a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.116666666666667	"WGS"	FALSE
"17968"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	28793397	28793400	"+"	"IGR"	"DEL"	"TCTG"	"TCTG"	"-"	"novel"	NA	"T6"	"W0006062F"	"TCTG"	"TCTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	113	"."	8	67	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATCTGT"	"253d1ee8-fd93-11e5-b422-8ad1414a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0707964601769911	"WGS"	FALSE
"17969"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	32285837	32285838	"+"	"IGR"	"INS"	"-"	"-"	"TATATATACACATATATATGTGTATATATATACACACG"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	136	"."	8	70	"."	0	""	"TATATATACACATATATATGTGTATATATATACACACG"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CAT"	"05123000-fd97-11e5-b422-8ad1414a729f"	"480"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0588235294117647	"WGS"	FALSE
"17970"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	32799226	32799229	"+"	"IGR"	"DEL"	"TTTG"	"TTTG"	"-"	"novel"	NA	"T6"	"W0006062F"	"TTTG"	"TTTG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	102	"."	13	58	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TTTTTGT"	"42c40198-fd93-11e5-b422-8ad1414a729f"	"780"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.127450980392157	"WGS"	FALSE
"17971"	"CNTNAP3B"	79937	"mskcc.org"	"GRCh37"	"9"	43690823	43690825	"+"	"Intron"	"DEL"	"TCT"	"TCT"	"-"	"novel"	NA	"T6"	"W0006062F"	"TCT"	"TCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.85+5446_85+5448delTTC"	NA	NA	"ENST00000377564"	""	129	"."	12	62	"."	0	"CNTNAP3B,intron_variant,,ENST00000377564,NM_001201380.1;CNTNAP3B,intron_variant,,ENST00000276974,;CNTNAP3B,intron_variant,,ENST00000377561,;CNTNAP3B,intron_variant,,ENST00000341990,;CNTNAP3B,intron_variant,,ENST00000479351,;"	"-"	"ENSG00000154529"	"ENST00000377564"	"Transcript"	"intron_variant"	"-/7939"	"-/3867"	"-/1288"	NA	NA	""	"1"	NA	1	"CNTNAP3B"	"HGNC"	32035	"protein_coding"	"YES"	"CCDS55312.1"	"ENSP00000366787"	"Q96NU0"	""	"UPI0000470399"	"NM_001201380.1"	NA	NA	""	"1/23"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"2"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"TCTCTT"	"925902bc-fd93-11e5-b422-8ad1414a729f"	"489"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0930232558139535	"WGS"	FALSE
"17972"	"Unknown"	0	"mskcc.org"	"GRCh37"	"9"	74186650	74186653	"+"	"IGR"	"DEL"	"GTTT"	"GTTT"	"-"	"novel"	NA	"T6"	"W0006062F"	"GTTT"	"GTTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	116	"."	9	72	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGGTTTG"	"33ec505c-fd94-11e5-b422-8ad1414a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0775862068965517	"WGS"	FALSE
"17973"	"PTBP3"	9991	"mskcc.org"	"GRCh37"	"9"	115036189	115036192	"+"	"Intron"	"DEL"	"ACTT"	"ACTT"	"-"	"novel"	NA	"T6"	"W0006062F"	"ACTT"	"ACTT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.306+1932_306+1935delAAGT"	NA	NA	"ENST00000458258"	""	91	"."	15	68	"."	0	"PTBP3,intron_variant,,ENST00000334318,NM_005156.6,NM_001163790.2;PTBP3,intron_variant,,ENST00000374257,NM_001244897.1,NM_001163788.2,NM_001244896.1;PTBP3,intron_variant,,ENST00000458258,NM_001244898.1;PTBP3,intron_variant,,ENST00000374255,;PTBP3,intron_variant,,ENST00000343327,;PTBP3,intron_variant,,ENST00000210227,;PTBP3,downstream_gene_variant,,ENST00000450374,;RN7SL430P,upstream_gene_variant,,ENST00000464176,;PTBP3,intron_variant,,ENST00000487997,;"	"-"	"ENSG00000119314"	"ENST00000458258"	"Transcript"	"intron_variant"	"-/7093"	"-/1677"	"-/558"	NA	NA	""	"1"	NA	-1	"PTBP3"	"HGNC"	10253	"protein_coding"	"YES"	"CCDS59141.1"	"ENSP00000414921"	"O95758"	""	"UPI000000DA96"	"NM_001244898.1"	NA	NA	""	"3/13"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"ACACTTA"	"3ee267fc-fd95-11e5-b422-8ad1414a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.164835164835165	"WGS"	FALSE
"17974"	"DEC1"	50514	"mskcc.org"	"GRCh37"	"9"	118010367	118010367	"+"	"Intron"	"DEL"	"A"	"A"	"-"	"novel"	NA	"T6"	"W0006062F"	"A"	"A"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.-308+14756delA"	NA	NA	"ENST00000374016"	""	87	"."	10	67	"."	0	"DEC1,intron_variant,,ENST00000374016,NM_017418.2;RP11-445L6.3,downstream_gene_variant,,ENST00000444701,;"	"-"	"ENSG00000173077"	"ENST00000374016"	"Transcript"	"intron_variant"	"-/1251"	"-/213"	"-/70"	NA	NA	""	"1"	NA	1	"DEC1"	"HGNC"	23658	"protein_coding"	"YES"	"CCDS6812.1"	"ENSP00000363128"	"Q9P2X7"	""	"UPI0000071741"	"NM_017418.2"	NA	NA	""	"2/7"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	"4"	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AGAA"	"5511282e-fd95-11e5-b422-8ad1414a729f"	"600"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.114942528735632	"WGS"	FALSE
"17975"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	779062	779286	"+"	"IGR"	"DEL"	"TTATAATTATAATAATGTTATAATTATAATTATAATTATAATTATAATAATGTTATAATTATAATTATAATTATAATTATAATAATGTTATAATTATAATTATAATTATAATAATGTTATAATTATAATAATGTTATAATTATAATTATAATTATAATAATGTTATAATTATAATAATGTTATAATTATAATTATAATAATGTTATAATTATAATTATAATAATG"	"TTATAATTATAATAATGTTATAATTATAATTATAATTATAATTATAATAATGTTATAATTATAATTATAATTATAATTATAATAATGTTATAATTATAATTATAATTATAATAATGTTATAATTATAATAATGTTATAATTATAATTATAATTATAATAATGTTATAATTATAATAATGTTATAATTATAATTATAATAATGTTATAATTATAATTATAATAATG"	"-"	"novel"	NA	"T6"	"W0006062F"	"TTATAATTATAATAATGTTATAATTATAATTATAATTATAATTATAATAATGTTATAATTATAATTATAATTATAATTATAATAATGTTATAATTATAATTATAATTATAATAATGTTATAATTATAATAATGTTATAATTATAATTATAATTATAATAATGTTATAATTATAATAATGTTATAATTATAATTATAATAATGTTATAATTATAATTATAATAATG"	"TTATAATTATAATAATGTTATAATTATAATTATAATTATAATTATAATAATGTTATAATTATAATTATAATTATAATTATAATAATGTTATAATTATAATTATAATTATAATAATGTTATAATTATAATAATGTTATAATTATAATTATAATTATAATAATGTTATAATTATAATAATGTTATAATTATAATTATAATAATGTTATAATTATAATTATAATAATG"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	28	"."	5	17	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATTATAATTATAATAATGTTATAATTATAATTATAATTATAATTATAATAATGTTATAATTATAATTATAATTATAATTATAATAATGTTATAATTATAATTATAATTATAATAATGTTATAATTATAATAATGTTATAATTATAATTATAATTATAATAATGTTATAATTATAATAATGTTATAATTATAATTATAATAATGTTATAATTATAATTATAATAATGT"	"660b0562-fd92-11e5-962d-8cd1414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.178571428571429	"WGS"	FALSE
"17976"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	5205009	5205032	"+"	"IGR"	"DEL"	"GGCAATCGTTGTCCAATCATTGCT"	"GGCAATCGTTGTCCAATCATTGCT"	"-"	"novel"	NA	"T6"	"W0006062F"	"GGCAATCGTTGTCCAATCATTGCT"	"GGCAATCGTTGTCCAATCATTGCT"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	43	"."	15	30	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AAGGCAATCGTTGTCCAATCATTGCTG"	"82ebf2a4-fd92-11e5-962d-8cd1414a729f"	"900"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.348837209302326	"WGS"	FALSE
"17977"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	6745965	6745968	"+"	"IGR"	"DEL"	"GTGA"	"GTGA"	"-"	"novel"	NA	"T6"	"W0006062F"	"GTGA"	"GTGA"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	55	"."	19	33	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"CTGTGAG"	"86dc9ff8-fd92-11e5-962d-8cd1414a729f"	"1140"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.345454545454545	"WGS"	FALSE
"17978"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	46033945	46033945	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	67	"."	9	35	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"GATG"	"d5575c5e-fd92-11e5-962d-8cd1414a729f"	"540"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.134328358208955	"WGS"	FALSE
"17979"	"Unknown"	0	"mskcc.org"	"GRCh37"	"X"	89764337	89764337	"+"	"IGR"	"DEL"	"T"	"T"	"-"	"novel"	NA	"T6"	"W0006062F"	"T"	"T"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	""	NA	NA	""	""	47	"."	16	30	"."	0	""	"-"	""	""	""	"intergenic_variant"	""	""	""	NA	NA	""	"1"	NA	NA	""	""	NA	""	""	""	""	""	""	""	""	NA	NA	""	""	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	NA	"PASS"	"AATA"	"5fe56492-fd93-11e5-962d-8cd1414a729f"	"779"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.340425531914894	"WGS"	FALSE
"17980"	"GPC3"	2719	"mskcc.org"	"GRCh37"	"X"	132997675	132997676	"+"	"Intron"	"INS"	"-"	"-"	"TTTTTTTTTTTTTT"	"novel"	NA	"T6"	"W0006062F"	"-"	"-"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.337+89388_337+89401dupAAAAAAAAAAAAAA"	NA	NA	"ENST00000394299"	""	73	"."	5	25	"."	0	"GPC3,intron_variant,,ENST00000370818,NM_001164618.1,NM_004484.3;GPC3,intron_variant,,ENST00000394299,NM_001164617.1;GPC3,intron_variant,,ENST00000543339,NM_001164619.1;"	"TTTTTTTTTTTTTT"	"ENSG00000147257"	"ENST00000394299"	"Transcript"	"intron_variant"	"-/2379"	"-/1812"	"-/603"	NA	NA	""	"1"	NA	-1	"GPC3"	"HGNC"	4451	"protein_coding"	"YES"	"CCDS55496.1"	"ENSP00000377836"	"P51654"	""	"UPI00015E044A"	"NM_001164617.1"	NA	NA	""	"2/8"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"insertion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"CCT"	"032c2a22-fd95-11e5-962d-8cd1414a729f"	"300"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.0684931506849315	"WGS"	TRUE
"17981"	"AFF2"	2334	"mskcc.org"	"GRCh37"	"X"	147821775	147821775	"+"	"Intron"	"DEL"	"C"	"C"	"-"	"novel"	NA	"T6"	"W0006062F"	"C"	"C"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"c.1042-69625delC"	NA	NA	"ENST00000370460"	""	46	"."	7	23	"."	0	"AFF2,intron_variant,,ENST00000370460,NM_002025.3,NM_001169123.1;AFF2,intron_variant,,ENST00000370457,NM_001169122.1,NM_001169125.1,NM_001169124.1;AFF2,intron_variant,,ENST00000286437,NM_001170628.1;AFF2,intron_variant,,ENST00000342251,;AFF2,intron_variant,,ENST00000370458,;"	"-"	"ENSG00000155966"	"ENST00000370460"	"Transcript"	"intron_variant"	"-/13746"	"-/3936"	"-/1311"	NA	NA	""	"1"	NA	1	"AFF2"	"HGNC"	3776	"protein_coding"	"YES"	"CCDS14684.1"	"ENSP00000359489"	"P51816"	""	"UPI000049E130"	"NM_002025.3,NM_001169123.1"	NA	NA	""	"3/20"	NA	""	""	""	NA	""	""	""	NA	NA	NA	NA	NA	NA	NA	NA	NA	"MODIFIER"	"1"	"deletion"	NA	NA	NA	"1"	NA	NA	NA	NA	NA	NA	NA	NA	"1"	"PASS"	"AGCT"	"d8f562e2-fd93-11e5-962d-8cd1414a729f"	"420"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"FALSE"	0.152173913043478	"WGS"	FALSE
"17982"	"AHDC1"	0	"."	"GRCh37"	"1"	27878461	27878461	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"rs766999202"	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.166G>A"	"p.Ala56Thr"	"p.A56T"	"ENST00000374011"	"6/7"	32	"22"	9	30	"30"	0	"AHDC1,missense_variant,p.Ala56Thr,ENST00000247087,;AHDC1,missense_variant,p.Ala56Thr,ENST00000374011,;AHDC1,downstream_gene_variant,,ENST00000490295,;AHDC1,downstream_gene_variant,,ENST00000487743,;"	"T"	"ENSG00000126705"	"ENST00000374011"	"Transcript"	"missense_variant"	"1135"	"166"	"56"	"A/T"	"Gcc/Acc"	"rs766999202,COSM1491977"	"."	"."	NA	"AHDC1"	"HGNC"	25230	"protein_coding"	"YES"	"CCDS30652.1"	"ENSP00000363123"	"AHDC1_HUMAN"	"."	"UPI0000418EA1"	"."	"tolerated_low_confidence(1)"	"benign(0)"	"6/7"	"."	"hmmpanther:PTHR15617,hmmpanther:PTHR15617:SF1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"0,1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"0,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.28125	"TCGA_WXS"	FALSE
"17983"	"ECHDC2"	0	"."	"GRCh37"	"1"	53373542	53373542	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"G"	"."	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.362T>C"	"p.Ile121Thr"	"p.I121T"	"ENST00000371522"	"4/10"	63	"59"	4	74	"74"	0	"ECHDC2,missense_variant,p.Ile121Thr,ENST00000467988,;ECHDC2,missense_variant,p.Ile121Thr,ENST00000358358,;ECHDC2,missense_variant,p.Ile75Thr,ENST00000536120,;ECHDC2,missense_variant,p.Ile121Thr,ENST00000371522,;ECHDC2,missense_variant,p.Ile75Thr,ENST00000541281,;ECHDC2,splice_region_variant,,ENST00000495920,;ECHDC2,splice_region_variant,,ENST00000479593,;ECHDC2,splice_region_variant,,ENST00000487851,;ECHDC2,intron_variant,,ENST00000543419,;ECHDC2,downstream_gene_variant,,ENST00000544531,;ECHDC2,downstream_gene_variant,,ENST00000480312,;ECHDC2,upstream_gene_variant,,ENST00000486170,;ECHDC2,splice_region_variant,,ENST00000476477,;ECHDC2,splice_region_variant,,ENST00000463923,;ECHDC2,splice_region_variant,,ENST00000460612,;ECHDC2,splice_region_variant,,ENST00000487866,;ECHDC2,splice_region_variant,,ENST00000371520,;ECHDC2,splice_region_variant,,ENST00000488268,;ECHDC2,3_prime_UTR_variant,,ENST00000544365,;ECHDC2,non_coding_transcript_exon_variant,,ENST00000492992,;ECHDC2,downstream_gene_variant,,ENST00000493896,;ECHDC2,downstream_gene_variant,,ENST00000487040,;ECHDC2,upstream_gene_variant,,ENST00000479183,;ECHDC2,upstream_gene_variant,,ENST00000498544,;"	"G"	"ENSG00000121310"	"ENST00000371522"	"Transcript"	"missense_variant"	"456"	"362"	"121"	"I/T"	"aTc/aCc"	"COSM1492129"	"."	"."	NA	"ECHDC2"	"HGNC"	23408	"protein_coding"	"YES"	"CCDS55600.1"	"ENSP00000360577"	"ECHD2_HUMAN"	"Q8WY60_HUMAN,B7Z7N0_HUMAN"	"UPI0000204369"	"."	"deleterious(0)"	"benign(0.386)"	"4/10"	"."	"hmmpanther:PTHR11941,hmmpanther:PTHR11941:SF44,Gene3D:3.90.226.10,Pfam_domain:PF00378,Superfamily_domains:SSF52096"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.0634920634921	"TCGA_WXS"	FALSE
"17984"	"HEATR5B"	0	"."	"GRCh37"	"2"	37227889	37227889	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"."	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.5385G>A"	"p.%3D"	"p.K1795K"	"ENST00000233099"	"33/36"	186	"131"	55	189	"189"	0	"HEATR5B,synonymous_variant,p.%3D,ENST00000233099,;HEATR5B,synonymous_variant,p.%3D,ENST00000354531,;"	"T"	"ENSG00000008869"	"ENST00000233099"	"Transcript"	"synonymous_variant"	"5481"	"5385"	"1795"	"K"	"aaG/aaA"	"COSM1494910"	"."	"."	NA	"HEATR5B"	"HGNC"	29273	"protein_coding"	"YES"	"CCDS33181.1"	"ENSP00000233099"	"HTR5B_HUMAN"	"."	"UPI0000160DCD"	"."	"."	"."	"33/36"	"."	"hmmpanther:PTHR21663:SF2,hmmpanther:PTHR21663,Superfamily_domains:SSF48371"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.295698924731	"TCGA_WXS"	FALSE
"17985"	"TTN"	0	"."	"GRCh37"	"2"	179458701	179458701	"+"	"Missense_Mutation"	"SNP"	"T"	"T"	"G"	"rs186563991"	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"T"	"T"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.58419A>C"	"p.Gln19473His"	"p.Q19473H"	"ENST00000589042"	"297/363"	307	"223"	83	275	"274"	0	"TTN,missense_variant,p.Gln10533His,ENST00000359218,;TTN,missense_variant,p.Gln17832His,ENST00000591111,;TTN,missense_variant,p.Gln19473His,ENST00000589042,;TTN,missense_variant,p.Gln10600His,ENST00000342175,;TTN,missense_variant,p.Gln16905His,ENST00000342992,;TTN,missense_variant,p.Gln10408His,ENST00000460472,;TTN-AS1,intron_variant,,ENST00000592630,;TTN-AS1,intron_variant,,ENST00000589234,;TTN-AS1,intron_variant,,ENST00000592689,;TTN-AS1,intron_variant,,ENST00000590807,;TTN-AS1,intron_variant,,ENST00000585451,;TTN-AS1,intron_variant,,ENST00000592750,;TTN-AS1,intron_variant,,ENST00000419746,;TTN-AS1,intron_variant,,ENST00000456053,;TTN-AS1,intron_variant,,ENST00000586452,;TTN-AS1,intron_variant,,ENST00000591332,;TTN-AS1,intron_variant,,ENST00000590932,;TTN-AS1,intron_variant,,ENST00000589907,;TTN-AS1,downstream_gene_variant,,ENST00000590743,;TTN-AS1,upstream_gene_variant,,ENST00000589830,;"	"G"	"ENSG00000155657"	"ENST00000589042"	"Transcript"	"missense_variant"	"58644"	"58419"	"19473"	"Q/H"	"caA/caC"	"rs186563991,COSM1494725,COSM1494724,COSM1494721,COSM1494723,COSM1494722"	"."	"."	NA	"TTN"	"HGNC"	12403	"protein_coding"	"YES"	"CCDS59435.1"	"ENSP00000467141"	"TITIN_HUMAN"	"C9JQJ2_HUMAN,A2TKE6_HUMAN"	"UPI000264F4A1"	"."	"."	"."	"297/363"	"."	"PROSITE_profiles:PS50835,hmmpanther:PTHR13817:SF6,hmmpanther:PTHR13817,Pfam_domain:PF07679,Gene3D:2.60.40.10,SMART_domains:SM00409,Superfamily_domains:SSF49265,Superfamily_domains:SSF48726"	"C:0.0004"	"C:0"	"C:0"	"."	"C:0"	"C:0"	"C:0.002"	"."	"."	"likely_benign"	"0,1,1,1,1,1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1,1,1,1,1,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.270358306189	"TCGA_WXS"	FALSE
"17986"	"BMPR2"	0	"."	"GRCh37"	"2"	203242043	203242043	"+"	"5'UTR"	"SNP"	"T"	"T"	"A"	"novel"	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"T"	"T"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.-155T>A"	"."	"."	"ENST00000374580"	"1/13"	13	"10"	3	19	"19"	0	"BMPR2,5_prime_UTR_variant,,ENST00000374580,;BMPR2,upstream_gene_variant,,ENST00000374574,;RP11-686O6.2,upstream_gene_variant,,ENST00000607928,;"	"A"	"ENSG00000204217"	"ENST00000374580"	"Transcript"	"5_prime_UTR_variant"	"385"	"."	"."	"."	"."	"."	"."	"."	NA	"BMPR2"	"HGNC"	1078	"protein_coding"	"YES"	"CCDS33361.1"	"ENSP00000363708"	"BMPR2_HUMAN"	"."	"UPI0000126A3B"	"."	"."	"."	"1/13"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"MODIFIER"	"."	"SNV"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.230769230769	"TCGA_WXS"	FALSE
"17987"	"YIPF7"	0	"."	"GRCh37"	"4"	44631452	44631452	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"G"	"."	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.466T>C"	"p.Phe156Leu"	"p.F156L"	"ENST00000332990"	"4/6"	30	"23"	6	26	"26"	0	"YIPF7,missense_variant,p.Phe132Leu,ENST00000415895,;YIPF7,missense_variant,p.Phe156Leu,ENST00000332990,;YIPF7,non_coding_transcript_exon_variant,,ENST00000510035,;YIPF7,non_coding_transcript_exon_variant,,ENST00000502794,;"	"G"	"ENSG00000177752"	"ENST00000332990"	"Transcript"	"missense_variant"	"483"	"466"	"156"	"F/L"	"Ttt/Ctt"	"COSM1495771"	"."	"."	NA	"YIPF7"	"HGNC"	26825	"protein_coding"	"YES"	"CCDS54766.1"	"ENSP00000332772"	"YIPF7_HUMAN"	"."	"UPI00015347BF"	"."	"deleterious(0)"	"probably_damaging(0.996)"	"4/6"	"."	"hmmpanther:PTHR21236:SF5,hmmpanther:PTHR21236,Pfam_domain:PF04893"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.2	"TCGA_WXS"	FALSE
"17988"	"AGPAT9"	0	"."	"GRCh37"	"4"	84502830	84502830	"+"	"Silent"	"SNP"	"A"	"A"	"G"	"."	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.324A>G"	"p.%3D"	"p.V108V"	"ENST00000395226"	"4/13"	305	"209"	96	329	"329"	0	"AGPAT9,synonymous_variant,p.%3D,ENST00000395226,;AGPAT9,synonymous_variant,p.%3D,ENST00000264409,;"	"G"	"ENSG00000138678"	"ENST00000395226"	"Transcript"	"synonymous_variant"	"542"	"324"	"108"	"V"	"gtA/gtG"	"COSM1495897"	"."	"."	NA	"AGPAT9"	"HGNC"	28157	"protein_coding"	"YES"	"CCDS3606.1"	"ENSP00000378651"	"GPAT3_HUMAN"	"."	"UPI000004B62F"	"."	"."	"."	"4/13"	"."	"hmmpanther:PTHR23063,hmmpanther:PTHR23063:SF10"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.314754098361	"TCGA_WXS"	FALSE
"17989"	"TACR3"	0	"."	"GRCh37"	"4"	104512715	104512715	"+"	"Silent"	"SNP"	"G"	"G"	"A"	"."	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1014C>T"	"p.%3D"	"p.Y338Y"	"ENST00000304883"	"4/5"	224	"157"	66	203	"203"	0	"TACR3,synonymous_variant,p.%3D,ENST00000304883,;RP11-297P16.3,intron_variant,,ENST00000512401,;RP11-297P16.3,intron_variant,,ENST00000502936,;"	"A"	"ENSG00000169836"	"ENST00000304883"	"Transcript"	"synonymous_variant"	"1155"	"1014"	"338"	"Y"	"taC/taT"	"COSM1495697"	"."	"."	NA	"TACR3"	"HGNC"	11528	"protein_coding"	"YES"	"CCDS3664.1"	"ENSP00000303325"	"NK3R_HUMAN"	"."	"UPI0000050413"	"."	"."	"."	"4/5"	"."	"Transmembrane_helices:TMhelix,PROSITE_profiles:PS50262,hmmpanther:PTHR24243,hmmpanther:PTHR24243:SF46,Gene3D:1.20.1070.10,Pfam_domain:PF00001,Superfamily_domains:SSF81321,Prints_domain:PR00244,Prints_domain:PR00237"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.294642857143	"TCGA_WXS"	FALSE
"17990"	"CDH18"	0	"."	"GRCh37"	"5"	19473301	19473301	"+"	"3'UTR"	"SNP"	"A"	"A"	"T"	"rs762545871"	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.*34T>A"	"."	"."	"ENST00000507958"	"15/15"	259	"199"	60	207	"207"	0	"CDH18,3_prime_UTR_variant,,ENST00000382275,;CDH18,3_prime_UTR_variant,,ENST00000507958,;CDH18,downstream_gene_variant,,ENST00000515257,;CDH18,downstream_gene_variant,,ENST00000274170,;CDH18,downstream_gene_variant,,ENST00000506372,;CDH18,downstream_gene_variant,,ENST00000502796,;CDH18,non_coding_transcript_exon_variant,,ENST00000510297,;"	"T"	"ENSG00000145526"	"ENST00000507958"	"Transcript"	"3_prime_UTR_variant"	"3398"	"."	"."	"."	"."	"rs762545871"	"."	"."	NA	"CDH18"	"HGNC"	1757	"protein_coding"	"YES"	"CCDS3889.1"	"ENSP00000425093"	"CAD18_HUMAN"	"."	"UPI0000126DBD"	"."	"."	"."	"15/15"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"MODIFIER"	"."	"SNV"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.23166023166	"TCGA_WXS"	FALSE
"17991"	"OCLN"	0	"."	"GRCh37"	"5"	68840911	68840911	"+"	"Silent"	"SNP"	"C"	"C"	"G"	"rs767324023"	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1218C>G"	"p.%3D"	"p.G406G"	"ENST00000355237"	"6/9"	223	"195"	28	198	"198"	0	"OCLN,synonymous_variant,p.%3D,ENST00000396442,;OCLN,synonymous_variant,p.%3D,ENST00000355237,;OCLN,synonymous_variant,p.%3D,ENST00000380766,;OCLN,synonymous_variant,p.%3D,ENST00000542132,;OCLN,synonymous_variant,p.%3D,ENST00000538151,;OCLN,non_coding_transcript_exon_variant,,ENST00000514370,;OCLN,non_coding_transcript_exon_variant,,ENST00000510666,;GUSBP3,intron_variant,,ENST00000380759,;"	"G"	"ENSG00000197822"	"ENST00000355237"	"Transcript"	"synonymous_variant"	"1654"	"1218"	"406"	"G"	"ggC/ggG"	"rs767324023,COSM1496110"	"."	"."	NA	"OCLN"	"HGNC"	8104	"protein_coding"	"YES"	"CCDS4006.1"	"ENSP00000347379"	"OCLN_HUMAN"	"."	"UPI00000341F0"	"."	"."	"."	"6/9"	"."	"hmmpanther:PTHR23288:SF4,hmmpanther:PTHR23288,PIRSF_domain:PIRSF005993"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"0,1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"0,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.125560538117	"TCGA_WXS"	FALSE
"17992"	"TSPYL4"	0	"."	"GRCh37"	"6"	116573926	116573926	"+"	"3'UTR"	"SNP"	"A"	"A"	"T"	"novel"	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.*1T>A"	"."	"."	"ENST00000420283"	"1/1"	23	"17"	5	16	"16"	0	"TSPYL4,3_prime_UTR_variant,,ENST00000420283,;NT5DC1,downstream_gene_variant,,ENST00000319550,;DSE,upstream_gene_variant,,ENST00000540275,;DSE,upstream_gene_variant,,ENST00000430252,;RP3-486I3.7,upstream_gene_variant,,ENST00000448740,;"	"T"	"ENSG00000187189"	"ENST00000420283"	"Transcript"	"3_prime_UTR_variant"	"1336"	"."	"."	"."	"."	"."	"."	"."	NA	"TSPYL4"	"HGNC"	21559	"protein_coding"	"YES"	"CCDS5106.1"	"ENSP00000410943"	"TSYL4_HUMAN"	"Q69YV8_HUMAN"	"UPI00001BBB76"	"."	"."	"."	"1/1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"MODIFIER"	"."	"SNV"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.217391304348	"TCGA_WXS"	FALSE
"17993"	"GTPBP10"	0	"."	"GRCh37"	"7"	89976030	89976030	"+"	"5'UTR"	"SNP"	"A"	"A"	"G"	"novel"	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.-26A>G"	"."	"."	"ENST00000222511"	"1/10"	166	"141"	25	138	"138"	0	"GTPBP10,5_prime_UTR_variant,,ENST00000417207,;GTPBP10,5_prime_UTR_variant,,ENST00000222511,;GTPBP10,5_prime_UTR_variant,,ENST00000257659,;GTPBP10,intron_variant,,ENST00000450619,;GTPBP10,intron_variant,,ENST00000426366,;GTPBP10,downstream_gene_variant,,ENST00000469675,;GTPBP10,5_prime_UTR_variant,,ENST00000380058,;GTPBP10,non_coding_transcript_exon_variant,,ENST00000477972,;GTPBP10,intron_variant,,ENST00000453512,;GTPBP10,intron_variant,,ENST00000421719,;GTPBP10,upstream_gene_variant,,ENST00000439832,;"	"G"	"ENSG00000105793"	"ENST00000222511"	"Transcript"	"5_prime_UTR_variant"	"41"	"."	"."	"."	"."	"."	"."	"."	NA	"GTPBP10"	"HGNC"	25106	"protein_coding"	"YES"	"CCDS5617.1"	"ENSP00000222511"	"GTPBA_HUMAN"	"."	"UPI00003674D7"	"."	"."	"."	"1/10"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"MODIFIER"	"."	"SNV"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.150602409639	"TCGA_WXS"	FALSE
"17994"	"KAT6A"	0	"."	"GRCh37"	"8"	41801275	41801275	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"A"	"rs778163495"	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.2219G>T"	"p.Arg740Leu"	"p.R740L"	"ENST00000396930"	"14/18"	109	"78"	31	108	"107"	0	"KAT6A,missense_variant,p.Arg740Leu,ENST00000396930,;KAT6A,missense_variant,p.Arg740Leu,ENST00000406337,;KAT6A,missense_variant,p.Arg740Leu,ENST00000485568,;KAT6A,missense_variant,p.Arg740Leu,ENST00000265713,;KAT6A,missense_variant,p.Arg320Leu,ENST00000418721,;"	"A"	"ENSG00000083168"	"ENST00000396930"	"Transcript"	"missense_variant"	"2763"	"2219"	"740"	"R/L"	"cGt/cTt"	"rs778163495,COSM1496901"	"."	"."	NA	"KAT6A"	"HGNC"	13013	"protein_coding"	"YES"	"CCDS6124.1"	"ENSP00000380136"	"KAT6A_HUMAN"	"A5PKX7_HUMAN"	"UPI000013D666"	"."	"."	"possibly_damaging(0.595)"	"14/18"	"."	"hmmpanther:PTHR10615:SF26,hmmpanther:PTHR10615,Pfam_domain:PF01853,Superfamily_domains:SSF55729"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"0,1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"0,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.284403669725	"TCGA_WXS"	TRUE
"17995"	"ASAH2"	0	"."	"GRCh37"	"10"	51974612	51974612	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"C"	"rs752003480"	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1031C>G"	"p.Ala344Gly"	"p.A344G"	"ENST00000395526"	"8/20"	124	"80"	44	121	"120"	1	"ASAH2,missense_variant,p.Ala325Gly,ENST00000329428,;ASAH2,missense_variant,p.Ala186Gly,ENST00000443575,;ASAH2,missense_variant,p.Ala344Gly,ENST00000447815,;ASAH2,missense_variant,p.Ala344Gly,ENST00000395526,;"	"C"	"ENSG00000188611"	"ENST00000395526"	"Transcript"	"missense_variant"	"1031"	"1031"	"344"	"A/G"	"gCc/gGc"	"rs752003480,COSM1492324,COSM1492323"	"."	"."	NA	"ASAH2"	"HGNC"	18860	"protein_coding"	"YES"	"CCDS7239.2"	"ENSP00000378897"	"ASAH2_HUMAN"	"."	"UPI00004042A7"	"."	"tolerated(0.17)"	"benign(0.116)"	"8/20"	"."	"hmmpanther:PTHR12670,Pfam_domain:PF04734"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"0,1,1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"0,1,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.354838709677	"TCGA_WXS"	FALSE
"17996"	"CATSPERB"	0	"."	"GRCh37"	"14"	92126293	92126293	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"C"	"."	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1320T>G"	"p.Phe440Leu"	"p.F440L"	"ENST00000256343"	"15/27"	257	"188"	69	224	"224"	0	"CATSPERB,missense_variant,p.Phe440Leu,ENST00000256343,;CATSPERB,intron_variant,,ENST00000557036,;"	"C"	"ENSG00000133962"	"ENST00000256343"	"Transcript"	"missense_variant"	"1477"	"1320"	"440"	"F/L"	"ttT/ttG"	"COSM1493353"	"."	"."	NA	"CATSPERB"	"HGNC"	20500	"protein_coding"	"YES"	"CCDS32142.1"	"ENSP00000256343"	"CTSRB_HUMAN"	"G3V584_HUMAN,G3V352_HUMAN"	"UPI0000418DA1"	"."	"deleterious(0)"	"probably_damaging(0.994)"	"15/27"	"."	"hmmpanther:PTHR14705"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.268482490272	"TCGA_WXS"	FALSE
"17997"	"CSK"	0	"."	"GRCh37"	"15"	75091169	75091169	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"A"	"."	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.132C>A"	"p.Asp44Glu"	"p.D44E"	"ENST00000220003"	"4/13"	73	"64"	9	61	"61"	0	"CSK,missense_variant,p.Asp44Glu,ENST00000439220,;CSK,missense_variant,p.Asp44Glu,ENST00000220003,;CSK,missense_variant,p.Asp44Glu,ENST00000569915,;CSK,missense_variant,p.Asp44Glu,ENST00000567571,;CSK,missense_variant,p.Asp44Glu,ENST00000309470,;CSK,missense_variant,p.Asp44Glu,ENST00000569462,;CSK,splice_region_variant,,ENST00000567123,;CSK,splice_region_variant,,ENST00000562066,;CSK,splice_region_variant,,ENST00000568329,;CSK,non_coding_transcript_exon_variant,,ENST00000563894,;CSK,upstream_gene_variant,,ENST00000567135,;CSK,upstream_gene_variant,,ENST00000566464,;CSK,upstream_gene_variant,,ENST00000569321,;CSK,upstream_gene_variant,,ENST00000564216,;CSK,upstream_gene_variant,,ENST00000563010,;"	"A"	"ENSG00000103653"	"ENST00000220003"	"Transcript"	"missense_variant"	"861"	"132"	"44"	"D/E"	"gaC/gaA"	"COSM1493510,COSM1493511"	"."	"."	NA	"CSK"	"HGNC"	2444	"protein_coding"	"YES"	"CCDS10269.1"	"ENSP00000220003"	"CSK_HUMAN"	"Q53EL3_HUMAN,H3BUM9_HUMAN,H3BU69_HUMAN,H3BN15_HUMAN,B4DMZ0_HUMAN,B2R6Q4_HUMAN"	"UPI0000128541"	"."	"tolerated(0.08)"	"probably_damaging(0.977)"	"4/13"	"."	"Superfamily_domains:SSF50044,SMART_domains:SM00326,Gene3D:2.30.30.40,Pfam_domain:PF00018,hmmpanther:PTHR24418:SF52,hmmpanther:PTHR24418,PROSITE_profiles:PS50002"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1,1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.123287671233	"TCGA_WXS"	FALSE
"17998"	"TXNDC11"	0	"."	"GRCh37"	"16"	11829975	11829975	"+"	"Silent"	"SNP"	"C"	"C"	"A"	"."	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.369G>T"	"p.%3D"	"p.R123R"	"ENST00000283033"	"2/12"	128	"95"	32	131	"131"	0	"TXNDC11,synonymous_variant,p.%3D,ENST00000356957,;TXNDC11,synonymous_variant,p.%3D,ENST00000575591,;TXNDC11,synonymous_variant,p.%3D,ENST00000283033,;TXNDC11,non_coding_transcript_exon_variant,,ENST00000573174,;TXNDC11,synonymous_variant,p.%3D,ENST00000576969,;TXNDC11,upstream_gene_variant,,ENST00000571882,;"	"A"	"ENSG00000153066"	"ENST00000283033"	"Transcript"	"synonymous_variant"	"517"	"369"	"123"	"R"	"cgG/cgT"	"COSM1493532"	"."	"."	NA	"TXNDC11"	"HGNC"	28030	"protein_coding"	"YES"	"CCDS32387.1"	"ENSP00000283033"	"TXD11_HUMAN"	"."	"UPI000006FCC0"	"."	"."	"."	"2/12"	"."	"PROSITE_profiles:PS51352,hmmpanther:PTHR18929,hmmpanther:PTHR18929:SF57,Pfam_domain:PF00085,Gene3D:3.40.30.10,Superfamily_domains:SSF52833"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.25	"TCGA_WXS"	FALSE
"17999"	"OTOA"	0	"."	"GRCh37"	"16"	21698935	21698935	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"."	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.601C>T"	"p.Pro201Ser"	"p.P201S"	"ENST00000388958"	"7/28"	77	"53"	23	75	"75"	0	"OTOA,missense_variant,p.Pro122Ser,ENST00000388956,;OTOA,missense_variant,p.Pro201Ser,ENST00000286149,;OTOA,missense_variant,p.Pro201Ser,ENST00000388958,;"	"T"	"ENSG00000155719"	"ENST00000388958"	"Transcript"	"missense_variant"	"602"	"601"	"201"	"P/S"	"Cct/Tct"	"COSM1493573"	"."	"."	NA	"OTOA"	"HGNC"	16378	"protein_coding"	"YES"	"CCDS10600.2"	"ENSP00000373610"	"OTOAN_HUMAN"	"B4DZ38_HUMAN"	"UPI00005C8607"	"."	"deleterious(0)"	"probably_damaging(1)"	"7/28"	"."	"hmmpanther:PTHR23412:SF14,hmmpanther:PTHR23412"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.298701298701	"TCGA_WXS"	FALSE
"18000"	"STRN4"	0	"."	"GRCh37"	"19"	47234130	47234130	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"rs576731281"	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.738G>A"	"p.%3D"	"p.R246R"	"ENST00000391910"	"6/18"	154	"143"	11	195	"195"	0	"STRN4,synonymous_variant,p.%3D,ENST00000539396,;STRN4,synonymous_variant,p.%3D,ENST00000263280,;STRN4,synonymous_variant,p.%3D,ENST00000391910,;STRN4,synonymous_variant,p.%3D,ENST00000593979,;STRN4,downstream_gene_variant,,ENST00000597063,;STRN4,downstream_gene_variant,,ENST00000597021,;STRN4,downstream_gene_variant,,ENST00000596012,;STRN4,upstream_gene_variant,,ENST00000594287,;CTB-174O21.2,intron_variant,,ENST00000600716,;STRN4,splice_region_variant,,ENST00000602397,;STRN4,splice_region_variant,,ENST00000596016,;STRN4,upstream_gene_variant,,ENST00000602223,;STRN4,upstream_gene_variant,,ENST00000594357,;STRN4,synonymous_variant,p.%3D,ENST00000600358,;STRN4,synonymous_variant,p.%3D,ENST00000435164,;STRN4,splice_region_variant,,ENST00000594847,;STRN4,splice_region_variant,,ENST00000594704,;STRN4,non_coding_transcript_exon_variant,,ENST00000599231,;STRN4,upstream_gene_variant,,ENST00000595357,;STRN4,upstream_gene_variant,,ENST00000601631,;STRN4,upstream_gene_variant,,ENST00000594581,;"	"T"	"ENSG00000090372"	"ENST00000391910"	"Transcript"	"synonymous_variant"	"1189"	"738"	"246"	"R"	"agG/agA"	"rs576731281,COSM1494373"	"."	"."	NA	"STRN4"	"HGNC"	15721	"protein_coding"	"YES"	"CCDS42581.1"	"ENSP00000375777"	"."	"M0QYS2_HUMAN,Q59GV6_HUMAN,M0R2A7_HUMAN,M0R0P4_HUMAN,M0QXN2_HUMAN,F8VYA6_HUMAN,B3KPF6_HUMAN"	"UPI00006CA35B"	"."	"."	"."	"6/18"	"."	"hmmpanther:PTHR15653:SF1,hmmpanther:PTHR15653"	"T:0.0004"	"T:0"	"T:0"	"."	"T:0.002"	"T:0"	"T:0"	"."	"."	"."	"0,1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"0,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.0714285714286	"TCGA_WXS"	FALSE
"18001"	"CCDC114"	0	"."	"GRCh37"	"19"	48807247	48807247	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"rs763841580"	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.705G>A"	"p.%3D"	"p.Q235Q"	"ENST00000315396"	"7/14"	185	"125"	59	168	"168"	0	"CCDC114,synonymous_variant,p.%3D,ENST00000315396,;CCDC114,downstream_gene_variant,,ENST00000504608,;CCDC114,non_coding_transcript_exon_variant,,ENST00000474199,;CCDC114,upstream_gene_variant,,ENST00000497273,;"	"T"	"ENSG00000105479"	"ENST00000315396"	"Transcript"	"synonymous_variant"	"1388"	"705"	"235"	"Q"	"caG/caA"	"rs763841580,COSM1494357,COSM1494356"	"."	"."	NA	"CCDC114"	"HGNC"	26560	"protein_coding"	"YES"	"CCDS12714.2"	"ENSP00000318429"	"CC114_HUMAN"	"."	"UPI0000EE7B5F"	"."	"."	"."	"7/14"	"."	"hmmpanther:PTHR21694:SF18,hmmpanther:PTHR21694"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"0,1,1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"0,1,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.318918918919	"TCGA_WXS"	FALSE
"18002"	"KCNB1"	0	"."	"GRCh37"	"20"	47991026	47991026	"+"	"Silent"	"SNP"	"G"	"G"	"A"	"rs199964916"	"."	"TCGA-BP-4177-01A-02D-1421-08"	"TCGA-BP-4177-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1071C>T"	"p.%3D"	"p.D357D"	"ENST00000371741"	"2/2"	73	"68"	5	81	"81"	0	"KCNB1,synonymous_variant,p.%3D,ENST00000371741,;"	"A"	"ENSG00000158445"	"ENST00000371741"	"Transcript"	"synonymous_variant"	"1238"	"1071"	"357"	"D"	"gaC/gaT"	"rs199964916,COSM245137"	"."	"."	NA	"KCNB1"	"HGNC"	6231	"protein_coding"	"YES"	"CCDS13418.1"	"ENSP00000360806"	"KCNB1_HUMAN"	"."	"UPI000012DC80"	"."	"."	"."	"2/2"	"."	"Superfamily_domains:SSF81324,Pfam_domain:PF00520,Gene3D:1.10.287.70,hmmpanther:PTHR11537:SF63,hmmpanther:PTHR11537"	"A:0.0004"	"A:0"	"A:0"	"."	"A:0.002"	"A:0"	"A:0"	"."	"."	"."	"0,1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"0,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.0684931506849	"TCGA_WXS"	FALSE
"18003"	"KCNA10"	0	"."	"GRCh37"	"1"	111059964	111059964	"+"	"Missense_Mutation"	"SNP"	"T"	"T"	"G"	"."	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"T"	"T"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1446A>C"	"p.Arg482Ser"	"p.R482S"	"ENST00000369771"	"1/1"	207	"200"	7	156	"156"	0	"KCNA10,missense_variant,p.Arg482Ser,ENST00000369771,;"	"G"	"ENSG00000143105"	"ENST00000369771"	"Transcript"	"missense_variant"	"1834"	"1446"	"482"	"R/S"	"agA/agC"	"COSM1491635"	"."	"."	NA	"KCNA10"	"HGNC"	6219	"protein_coding"	"YES"	"CCDS826.1"	"ENSP00000358786"	"KCA10_HUMAN"	"Q7KYZ7_HUMAN"	"UPI0000071B2B"	"."	"tolerated_low_confidence(0.48)"	"benign(0.007)"	"1/1"	"."	"hmmpanther:PTHR11537,hmmpanther:PTHR11537:SF44"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.0338164251208	"TCGA_WXS"	FALSE
"18004"	"CCDC108"	0	"."	"GRCh37"	"2"	219892412	219892412	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"A"	"."	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.2171G>T"	"p.Cys724Phe"	"p.C724F"	"ENST00000341552"	"13/35"	145	"132"	12	148	"148"	0	"CCDC108,missense_variant,p.Cys659Phe,ENST00000410037,;CCDC108,missense_variant,p.Cys724Phe,ENST00000441968,;CCDC108,missense_variant,p.Cys724Phe,ENST00000453220,;CCDC108,missense_variant,p.Cys713Phe,ENST00000409865,;CCDC108,missense_variant,p.Cys724Phe,ENST00000341552,;CCDC108,downstream_gene_variant,,ENST00000436631,;CCDC108,downstream_gene_variant,,ENST00000457968,;CCDC108,non_coding_transcript_exon_variant,,ENST00000462848,;CCDC108,non_coding_transcript_exon_variant,,ENST00000474601,;CCDC108,non_coding_transcript_exon_variant,,ENST00000463683,;"	"A"	"ENSG00000181378"	"ENST00000341552"	"Transcript"	"missense_variant"	"2255"	"2171"	"724"	"C/F"	"tGc/tTc"	"COSM1494825"	"."	"."	NA	"CCDC108"	"HGNC"	25325	"protein_coding"	"YES"	"CCDS2430.2"	"ENSP00000340776"	"CC108_HUMAN"	"C9JLP9_HUMAN,C9JIV0_HUMAN"	"UPI0000609097"	"."	"deleterious(0.04)"	"benign(0.325)"	"13/35"	"."	"hmmpanther:PTHR10270,hmmpanther:PTHR10270:SF197"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.0827586206897	"TCGA_WXS"	FALSE
"18005"	"TFG"	0	"."	"GRCh37"	"3"	100432611	100432611	"+"	"Frame_Shift_Del"	"DEL"	"A"	"A"	"-"	"novel"	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.83delA"	"p.Asn28MetfsTer9"	"p.N28Mfs*9"	"ENST00000240851"	"2/8"	284	"214"	70	210	"210"	0	"TFG,frameshift_variant,p.Asn28MetfsTer9,ENST00000463568,;TFG,frameshift_variant,p.Asn28MetfsTer9,ENST00000479672,;TFG,frameshift_variant,p.Asn28MetfsTer9,ENST00000490574,;TFG,frameshift_variant,p.Asn28MetfsTer9,ENST00000418917,;TFG,frameshift_variant,p.Asn28MetfsTer9,ENST00000487505,;TFG,frameshift_variant,p.Asn28MetfsTer9,ENST00000476228,;TFG,frameshift_variant,p.Asn28MetfsTer9,ENST00000240851,;"	"-"	"ENSG00000114354"	"ENST00000240851"	"Transcript"	"frameshift_variant"	"422"	"82"	"28"	"N/X"	"Aat/at"	"."	"."	"."	NA	"TFG"	"HGNC"	11758	"protein_coding"	"YES"	"CCDS2939.1"	"ENSP00000240851"	"TFG_HUMAN"	"C9JUE0_HUMAN,C9JTY3_HUMAN,C9JJP5_HUMAN"	"UPI0000073CDE"	"."	"."	"."	"2/8"	"."	"hmmpanther:PTHR15335,Pfam_domain:PF00564,Gene3D:3.10.20.240,SMART_domains:SM00666,Superfamily_domains:SSF54277"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"HIGH"	"."	"deletion"	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.246478873239	"TCGA_WXS"	TRUE
"18006"	"GK5"	0	"."	"GRCh37"	"3"	141934478	141934478	"+"	"Nonsense_Mutation"	"SNP"	"C"	"C"	"T"	"."	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.204G>A"	"p.Trp68Ter"	"p.W68*"	"ENST00000392993"	"2/16"	93	"88"	5	71	"71"	0	"GK5,stop_gained,p.Trp68Ter,ENST00000392993,;GK5,stop_gained,p.Trp68Ter,ENST00000544571,;GK5,non_coding_transcript_exon_variant,,ENST00000472759,;GK5,non_coding_transcript_exon_variant,,ENST00000466685,;GK5,stop_gained,p.Trp68Ter,ENST00000480757,;GK5,stop_gained,p.Trp68Ter,ENST00000492097,;GK5,stop_gained,p.Trp68Ter,ENST00000487672,;GK5,non_coding_transcript_exon_variant,,ENST00000489085,;GK5,non_coding_transcript_exon_variant,,ENST00000460544,;"	"T"	"ENSG00000175066"	"ENST00000392993"	"Transcript"	"stop_gained"	"356"	"204"	"68"	"W/*"	"tgG/tgA"	"COSM1495453"	"."	"."	NA	"GK5"	"HGNC"	28635	"protein_coding"	"YES"	"CCDS33871.1"	"ENSP00000418001"	"GLPK5_HUMAN"	"."	"UPI000069B0CB"	"."	"."	"."	"2/16"	"."	"hmmpanther:PTHR10196:SF54,hmmpanther:PTHR10196,Gene3D:3.30.420.40,Pfam_domain:PF00370,PIRSF_domain:PIRSF000538,Superfamily_domains:SSF53067"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"HIGH"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.0537634408602	"TCGA_WXS"	FALSE
"18007"	"NUDT12"	0	"."	"GRCh37"	"5"	102894748	102894748	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	"."	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.628C>T"	"p.Leu210Phe"	"p.L210F"	"ENST00000230792"	"3/7"	225	"206"	19	197	"197"	0	"NUDT12,missense_variant,p.Leu192Phe,ENST00000507423,;NUDT12,missense_variant,p.Leu210Phe,ENST00000230792,;NUDT12,upstream_gene_variant,,ENST00000515407,;NUDT12,downstream_gene_variant,,ENST00000508889,;"	"A"	"ENSG00000112874"	"ENST00000230792"	"Transcript"	"missense_variant"	"725"	"628"	"210"	"L/F"	"Ctt/Ttt"	"COSM1495878"	"."	"."	NA	"NUDT12"	"HGNC"	18826	"protein_coding"	"YES"	"CCDS4096.1"	"ENSP00000230792"	"NUD12_HUMAN"	"."	"UPI0000073C53"	"."	"tolerated(0.79)"	"benign(0.003)"	"3/7"	"."	"hmmpanther:PTHR22769,hmmpanther:PTHR22769:SF7,Pfam_domain:PF09296"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.0844444444444	"TCGA_WXS"	FALSE
"18008"	"SLC36A1"	0	"."	"GRCh37"	"5"	150838431	150838431	"+"	"Silent"	"SNP"	"G"	"G"	"A"	"rs142064945"	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.78G>A"	"p.%3D"	"p.S26S"	"ENST00000243389"	"2/11"	83	"52"	30	68	"68"	0	"SLC36A1,synonymous_variant,p.%3D,ENST00000519829,;SLC36A1,synonymous_variant,p.%3D,ENST00000520111,;SLC36A1,synonymous_variant,p.%3D,ENST00000429484,;SLC36A1,synonymous_variant,p.%3D,ENST00000521925,;SLC36A1,synonymous_variant,p.%3D,ENST00000520701,;SLC36A1,synonymous_variant,p.%3D,ENST00000243389,;SLC36A1,synonymous_variant,p.%3D,ENST00000517945,;SLC36A1,non_coding_transcript_exon_variant,,ENST00000521351,;"	"A"	"ENSG00000123643"	"ENST00000243389"	"Transcript"	"synonymous_variant"	"301"	"78"	"26"	"S"	"tcG/tcA"	"rs142064945,COSM1496083"	"."	"."	NA	"SLC36A1"	"HGNC"	18761	"protein_coding"	"YES"	"CCDS4316.1"	"ENSP00000243389"	"S36A1_HUMAN"	"H0YB60_HUMAN,E5RI40_HUMAN,E5RHG5_HUMAN,E5RG64_HUMAN,D2Y3F6_HUMAN"	"UPI00001A9D3C"	"."	"."	"."	"2/11"	"."	"hmmpanther:PTHR22950:SF188,hmmpanther:PTHR22950"	"."	"."	"."	"."	"."	"."	"."	"A:0.0002"	"A:0"	"."	"0,1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"0,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.361445783133	"TCGA_WXS"	FALSE
"18009"	"SLC22A23"	0	"."	"GRCh37"	"6"	3324228	3324228	"+"	"Silent"	"SNP"	"G"	"G"	"A"	"rs151139208"	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.922C>T"	"p.%3D"	"p.L308L"	"ENST00000406686"	"4/10"	49	"37"	12	51	"51"	0	"SLC22A23,synonymous_variant,p.%3D,ENST00000485307,;SLC22A23,synonymous_variant,p.%3D,ENST00000380302,;SLC22A23,synonymous_variant,p.%3D,ENST00000406686,;SLC22A23,synonymous_variant,p.%3D,ENST00000490273,;SLC22A23,synonymous_variant,p.%3D,ENST00000467177,;SLC22A23,synonymous_variant,p.%3D,ENST00000380298,;SLC22A23,synonymous_variant,p.%3D,ENST00000436008,;SLC22A23,non_coding_transcript_exon_variant,,ENST00000496753,;SLC22A23,non_coding_transcript_exon_variant,,ENST00000433689,;SLC22A23,non_coding_transcript_exon_variant,,ENST00000467144,;SLC22A23,synonymous_variant,p.%3D,ENST00000497691,;"	"A"	"ENSG00000137266"	"ENST00000406686"	"Transcript"	"synonymous_variant"	"922"	"922"	"308"	"L"	"Ctg/Ttg"	"rs151139208,COSM1496347,COSM1496346"	"."	"."	NA	"SLC22A23"	"HGNC"	21106	"protein_coding"	"YES"	"CCDS47363.1"	"ENSP00000385028"	"S22AN_HUMAN"	"."	"UPI0000EE5391"	"."	"."	"."	"4/10"	"."	"PROSITE_profiles:PS50850,hmmpanther:PTHR24064:SF192,hmmpanther:PTHR24064,Gene3D:1.20.1250.20,Pfam_domain:PF00083,Superfamily_domains:SSF103473"	"A:0.0018"	"A:0.0068"	"A:0"	"."	"A:0"	"A:0"	"A:0"	"A:0.005"	"A:0"	"."	"0,1,1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"0,1,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.244897959184	"TCGA_WXS"	FALSE
"18010"	"DSP"	0	"."	"GRCh37"	"6"	7570788	7570788	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"G"	"."	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1693A>G"	"p.Ile565Val"	"p.I565V"	"ENST00000379802"	"13/24"	167	"113"	54	172	"172"	0	"DSP,missense_variant,p.Ile565Val,ENST00000379802,;DSP,missense_variant,p.Ile565Val,ENST00000418664,;DSP,downstream_gene_variant,,ENST00000506617,;"	"G"	"ENSG00000096696"	"ENST00000379802"	"Transcript"	"missense_variant"	"2034"	"1693"	"565"	"I/V"	"Atc/Gtc"	"COSM1496434"	"."	"."	NA	"DSP"	"HGNC"	3052	"protein_coding"	"YES"	"CCDS4501.1"	"ENSP00000369129"	"DESP_HUMAN"	"G1UI31_HUMAN,B4DKX6_HUMAN"	"UPI000013C67F"	"."	"."	"possibly_damaging(0.478)"	"13/24"	"."	"hmmpanther:PTHR11915:SF234,hmmpanther:PTHR11915"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.323353293413	"TCGA_WXS"	FALSE
"18011"	"ATXN1"	0	"."	"GRCh37"	"6"	16328215	16328215	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"rs114230242"	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.327G>A"	"p.%3D"	"p.P109P"	"ENST00000244769"	"8/9"	101	"70"	30	89	"89"	0	"ATXN1,synonymous_variant,p.%3D,ENST00000244769,;ATXN1,synonymous_variant,p.%3D,ENST00000436367,;"	"T"	"ENSG00000124788"	"ENST00000244769"	"Transcript"	"synonymous_variant"	"1264"	"327"	"109"	"P"	"ccG/ccA"	"rs114230242,COSM1496253"	"."	"."	NA	"ATXN1"	"HGNC"	10548	"protein_coding"	"YES"	"CCDS34342.1"	"ENSP00000244769"	"ATX1_HUMAN"	"."	"UPI000013CB8B"	"."	"."	"."	"8/9"	"."	"hmmpanther:PTHR13392:SF5,hmmpanther:PTHR13392"	"T:0.0008"	"T:0.0008"	"T:0"	"."	"T:0"	"T:0.003"	"T:0"	"T:0"	"T:0.0021"	"."	"0,1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"0,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"common_in_exac"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.29702970297	"TCGA_WXS"	FALSE
"18012"	"POLD2"	0	"."	"GRCh37"	"7"	44161720	44161720	"+"	"5'UTR"	"SNP"	"C"	"C"	"A"	"novel"	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.-68G>T"	"."	"."	"ENST00000406581"	"3/12"	21	"16"	4	24	"24"	0	"POLD2,5_prime_UTR_variant,,ENST00000406581,;POLD2,5_prime_UTR_variant,,ENST00000223361,;POLD2,5_prime_UTR_variant,,ENST00000452185,;POLD2,intron_variant,,ENST00000433715,;POLD2,intron_variant,,ENST00000456038,;POLD2,intron_variant,,ENST00000418438,;POLD2,intron_variant,,ENST00000436844,;RNA5SP230,downstream_gene_variant,,ENST00000517039,;POLD2,intron_variant,,ENST00000481763,;POLD2,intron_variant,,ENST00000496539,;POLD2,intron_variant,,ENST00000470867,;POLD2,upstream_gene_variant,,ENST00000481104,;POLD2,upstream_gene_variant,,ENST00000463464,;POLD2,upstream_gene_variant,,ENST00000467469,;POLD2,upstream_gene_variant,,ENST00000461116,;POLD2,upstream_gene_variant,,ENST00000464871,;"	"A"	"ENSG00000106628"	"ENST00000406581"	"Transcript"	"5_prime_UTR_variant"	"583"	"."	"."	"."	"."	"."	"."	"."	NA	"POLD2"	"HGNC"	9176	"protein_coding"	"YES"	"CCDS5477.1"	"ENSP00000386105"	"DPOD2_HUMAN"	"C9JLE1_HUMAN,C9J8Z7_HUMAN,C9IZD2_HUMAN,A4D2J4_HUMAN"	"UPI000004D0E7"	"."	"."	"."	"3/12"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"MODIFIER"	"."	"SNV"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.190476190476	"TCGA_WXS"	FALSE
"18013"	"CBLL1"	0	"."	"GRCh37"	"7"	107399418	107399418	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"T"	"."	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1271A>T"	"p.Tyr424Phe"	"p.Y424F"	"ENST00000440859"	"6/6"	211	"192"	19	201	"201"	0	"CBLL1,missense_variant,p.Tyr423Phe,ENST00000222597,;CBLL1,missense_variant,p.Tyr424Phe,ENST00000440859,;CBLL1,downstream_gene_variant,,ENST00000415884,;CBLL1,downstream_gene_variant,,ENST00000420796,;CBLL1,downstream_gene_variant,,ENST00000487517,;CBLL1,downstream_gene_variant,,ENST00000432748,;CBLL1,downstream_gene_variant,,ENST00000493361,;"	"T"	"ENSG00000105879"	"ENST00000440859"	"Transcript"	"missense_variant"	"1738"	"1271"	"424"	"Y/F"	"tAt/tTt"	"COSM1496467"	"."	"."	NA	"CBLL1"	"HGNC"	21225	"protein_coding"	"YES"	"CCDS5747.1"	"ENSP00000401277"	"HAKAI_HUMAN"	"C9J2P9_HUMAN,B4DDV7_HUMAN"	"UPI000006E5AC"	"."	"deleterious(0.05)"	"probably_damaging(0.98)"	"6/6"	"."	"Low_complexity_(Seg):seg,hmmpanther:PTHR13480,hmmpanther:PTHR13480:SF2"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.0900473933649	"TCGA_WXS"	FALSE
"18014"	"TLR4"	0	"."	"GRCh37"	"9"	120475351	120475351	"+"	"Silent"	"SNP"	"G"	"G"	"C"	"."	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.945G>C"	"p.%3D"	"p.L315L"	"ENST00000355622"	"3/3"	217	"161"	56	236	"236"	0	"TLR4,synonymous_variant,p.%3D,ENST00000355622,;TLR4,synonymous_variant,p.%3D,ENST00000394487,;RNU6-1082P,upstream_gene_variant,,ENST00000364574,;TLR4,non_coding_transcript_exon_variant,,ENST00000472304,;TLR4,downstream_gene_variant,,ENST00000490685,;"	"C"	"ENSG00000136869"	"ENST00000355622"	"Transcript"	"synonymous_variant"	"1046"	"945"	"315"	"L"	"ctG/ctC"	"COSM1496980"	"."	"."	NA	"TLR4"	"HGNC"	11850	"protein_coding"	"YES"	"CCDS6818.1"	"ENSP00000363089"	"TLR4_HUMAN"	"K9MSZ3_HUMAN,D0EWT7_HUMAN"	"UPI0000137057"	"."	"."	"."	"3/3"	"."	"hmmpanther:PTHR24365,hmmpanther:PTHR24365:SF230,Gene3D:3.80.10.10,PIRSF_domain:PIRSF037595,Superfamily_domains:0046394"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.258064516129	"TCGA_WXS"	FALSE
"18015"	"LRP4"	0	"."	"GRCh37"	"11"	46924371	46924371	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"T"	"rs745869587"	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.162C>A"	"p.Asp54Glu"	"p.D54E"	"ENST00000378623"	"2/38"	85	"64"	21	91	"91"	0	"LRP4,missense_variant,p.Asp54Glu,ENST00000378623,;LRP4,intron_variant,,ENST00000534404,;"	"T"	"ENSG00000134569"	"ENST00000378623"	"Transcript"	"missense_variant"	"405"	"162"	"54"	"D/E"	"gaC/gaA"	"rs745869587,COSM1492513"	"."	"."	NA	"LRP4"	"HGNC"	6696	"protein_coding"	"YES"	"CCDS31478.1"	"ENSP00000367888"	"LRP4_HUMAN"	"."	"UPI0000D625E9"	"."	"tolerated(0.36)"	"benign(0.348)"	"2/38"	"."	"PROSITE_profiles:PS50068,hmmpanther:PTHR10529,hmmpanther:PTHR10529:SF196,PROSITE_patterns:PS01209,Gene3D:4.10.400.10,Pfam_domain:PF00057,SMART_domains:SM00192,Superfamily_domains:SSF57424"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"0,1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"0,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.247058823529	"TCGA_WXS"	FALSE
"18016"	"PACSIN3"	0	"."	"GRCh37"	"11"	47200712	47200712	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"."	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.898G>A"	"p.Glu300Lys"	"p.E300K"	"ENST00000539589"	"8/11"	338	"241"	96	298	"298"	0	"PACSIN3,missense_variant,p.Glu300Lys,ENST00000298838,;PACSIN3,missense_variant,p.Glu300Lys,ENST00000539589,;PACSIN3,missense_variant,p.Glu23Lys,ENST00000533686,;PACSIN3,missense_variant,p.Glu300Lys,ENST00000528462,;ARFGAP2,upstream_gene_variant,,ENST00000527927,;ARFGAP2,upstream_gene_variant,,ENST00000319543,;PACSIN3,downstream_gene_variant,,ENST00000530513,;ARFGAP2,upstream_gene_variant,,ENST00000524782,;ARFGAP2,upstream_gene_variant,,ENST00000525314,;ARFGAP2,upstream_gene_variant,,ENST00000530596,;ARFGAP2,upstream_gene_variant,,ENST00000419701,;ARFGAP2,upstream_gene_variant,,ENST00000526342,;ARFGAP2,upstream_gene_variant,,ENST00000426335,;PACSIN3,downstream_gene_variant,,ENST00000525725,;ARFGAP2,upstream_gene_variant,,ENST00000525398,;PACSIN3,downstream_gene_variant,,ENST00000531226,;PACSIN3,downstream_gene_variant,,ENST00000524509,;ARFGAP2,upstream_gene_variant,,ENST00000528444,;PACSIN3,downstream_gene_variant,,ENST00000528201,;PACSIN3,downstream_gene_variant,,ENST00000530405,;ARFGAP2,upstream_gene_variant,,ENST00000395449,;ARFGAP2,upstream_gene_variant,,ENST00000533939,;ARFGAP2,upstream_gene_variant,,ENST00000531750,;ARFGAP2,upstream_gene_variant,,ENST00000529599,;PACSIN3,missense_variant,p.Glu300Lys,ENST00000532457,;ARFGAP2,upstream_gene_variant,,ENST00000527097,;ARFGAP2,upstream_gene_variant,,ENST00000529439,;ARFGAP2,upstream_gene_variant,,ENST00000529455,;ARFGAP2,upstream_gene_variant,,ENST00000532478,;ARFGAP2,upstream_gene_variant,,ENST00000528072,;ARFGAP2,upstream_gene_variant,,ENST00000528708,;ARFGAP2,upstream_gene_variant,,ENST00000530794,;ARFGAP2,upstream_gene_variant,,ENST00000532438,;ARFGAP2,upstream_gene_variant,,ENST00000528041,;ARFGAP2,upstream_gene_variant,,ENST00000533243,;ARFGAP2,upstream_gene_variant,,ENST00000524727,;ARFGAP2,upstream_gene_variant,,ENST00000524586,;ARFGAP2,upstream_gene_variant,,ENST00000526185,;"	"T"	"ENSG00000165912"	"ENST00000539589"	"Transcript"	"missense_variant"	"1241"	"898"	"300"	"E/K"	"Gag/Aag"	"COSM1492512"	"."	"."	NA	"PACSIN3"	"HGNC"	8572	"protein_coding"	"YES"	"CCDS31481.1"	"ENSP00000440945"	"PACN3_HUMAN"	"E9PQ12_HUMAN,E9PNM9_HUMAN,E9PJ75_HUMAN,E9PJ33_HUMAN,E9PIZ6_HUMAN"	"UPI0000034CB1"	"."	"deleterious(0.02)"	"probably_damaging(0.99)"	"8/11"	"."	"hmmpanther:PTHR10959:SF1,hmmpanther:PTHR10959,Superfamily_domains:SSF103657"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.284023668639	"TCGA_WXS"	FALSE
"18017"	"WNK1"	0	"."	"GRCh37"	"12"	995245	995245	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"T"	"."	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.5275G>T"	"p.Ala1759Ser"	"p.A1759S"	"ENST00000315939"	"19/28"	124	"94"	30	108	"108"	0	"WNK1,missense_variant,p.Ala1759Ser,ENST00000315939,;WNK1,missense_variant,p.Ala1512Ser,ENST00000535572,;WNK1,missense_variant,p.Ala1352Ser,ENST00000340908,;WNK1,missense_variant,p.Ala2257Ser,ENST00000530271,;WNK1,missense_variant,p.Ala2019Ser,ENST00000537687,;WNK1,downstream_gene_variant,,ENST00000534872,;WNK1,downstream_gene_variant,,ENST00000544965,;WNK1,downstream_gene_variant,,ENST00000542543,;WNK1,downstream_gene_variant,,ENST00000545055,;"	"T"	"ENSG00000060237"	"ENST00000315939"	"Transcript"	"missense_variant"	"5918"	"5275"	"1759"	"A/S"	"Gct/Tct"	"COSM1493056,COSM1493055"	"."	"."	NA	"WNK1"	"HGNC"	14540	"protein_coding"	"YES"	"CCDS8506.1"	"ENSP00000313059"	"WNK1_HUMAN"	"Q96CZ6_HUMAN"	"UPI000013CD65"	"."	"deleterious(0.04)"	"benign(0.028)"	"19/28"	"."	"hmmpanther:PTHR13902,hmmpanther:PTHR13902:SF46"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1,1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.241935483871	"TCGA_WXS"	FALSE
"18018"	"CD9"	0	"."	"GRCh37"	"12"	6334633	6334633	"+"	"Silent"	"SNP"	"A"	"A"	"G"	"."	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.108A>G"	"p.%3D"	"p.R36R"	"ENST00000382518"	"3/9"	159	"151"	8	141	"141"	0	"CD9,synonymous_variant,p.%3D,ENST00000009180,;CD9,synonymous_variant,p.%3D,ENST00000382518,;CD9,synonymous_variant,p.%3D,ENST00000382519,;CD9,synonymous_variant,p.%3D,ENST00000536586,;CD9,5_prime_UTR_variant,,ENST00000382515,;CD9,non_coding_transcript_exon_variant,,ENST00000543916,;CD9,non_coding_transcript_exon_variant,,ENST00000538834,;CD9,non_coding_transcript_exon_variant,,ENST00000546073,;CD9,non_coding_transcript_exon_variant,,ENST00000481267,;CD9,non_coding_transcript_exon_variant,,ENST00000538418,;"	"G"	"ENSG00000010278"	"ENST00000382518"	"Transcript"	"synonymous_variant"	"544"	"108"	"36"	"R"	"cgA/cgG"	"COSM1492996"	"."	"."	NA	"CD9"	"HGNC"	1709	"protein_coding"	"YES"	"CCDS8540.1"	"ENSP00000371958"	"CD9_HUMAN"	"F5GXT1_HUMAN,B4DPP0_HUMAN,A6NNI4_HUMAN"	"UPI000003B45A"	"."	"."	"."	"3/9"	"."	"hmmpanther:PTHR19282:SF163,hmmpanther:PTHR19282,Pfam_domain:PF00335,PIRSF_domain:PIRSF002419"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.0503144654088	"TCGA_WXS"	FALSE
"18019"	"IGHV3-21"	0	"."	"GRCh37"	"14"	106691745	106691745	"+"	"Silent"	"SNP"	"G"	"G"	"A"	"rs537599261"	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.279C>T"	"p.%3D"	"p.N93N"	"ENST00000390607"	"2/2"	267	"212"	55	331	"330"	1	"IGHV3-21,synonymous_variant,p.%3D,ENST00000390607,;"	"A"	"ENSG00000211947"	"ENST00000390607"	"Transcript"	"synonymous_variant"	"358"	"279"	"93"	"N"	"aaC/aaT"	"rs537599261"	"."	"."	NA	"IGHV3-21"	"HGNC"	5586	"IG_V_gene"	"YES"	"."	"ENSP00000375016"	"."	"."	"UPI000011AAD7"	"."	"."	"."	"2/2"	"."	"PROSITE_profiles:PS50835,hmmpanther:PTHR23266,hmmpanther:PTHR23266:SF91,Gene3D:2.60.40.10,Pfam_domain:PF07686,SMART_domains:SM00406,Superfamily_domains:SSF48726"	"A:0.0008"	"A:0.0015"	"A:0.0014"	"."	"A:0.001"	"A:0"	"A:0"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.205992509363	"TCGA_WXS"	FALSE
"18020"	"NPRL3"	0	"."	"GRCh37"	"16"	139794	139794	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	"rs200792895"	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1268C>T"	"p.Pro423Leu"	"p.P423L"	"ENST00000399953"	"11/14"	22	"15"	7	12	"12"	0	"NPRL3,missense_variant,p.Pro423Leu,ENST00000399953,;NPRL3,missense_variant,p.Pro244Leu,ENST00000399951,;MPG,downstream_gene_variant,,ENST00000436333,;MPG,downstream_gene_variant,,ENST00000356432,;MPG,downstream_gene_variant,,ENST00000397817,;MPG,downstream_gene_variant,,ENST00000219431,;Z69720.2,upstream_gene_variant,,ENST00000601483,;NPRL3,non_coding_transcript_exon_variant,,ENST00000405960,;NPRL3,non_coding_transcript_exon_variant,,ENST00000428323,;NPRL3,downstream_gene_variant,,ENST00000473674,;NPRL3,downstream_gene_variant,,ENST00000464069,;NPRL3,3_prime_UTR_variant,,ENST00000399957,;NPRL3,3_prime_UTR_variant,,ENST00000445810,;NPRL3,non_coding_transcript_exon_variant,,ENST00000463178,;"	"A"	"ENSG00000103148"	"ENST00000399953"	"Transcript"	"missense_variant"	"1671"	"1268"	"423"	"P/L"	"cCg/cTg"	"rs200792895,COSM1493526,COSM1493527"	"."	"."	NA	"NPRL3"	"HGNC"	14124	"protein_coding"	"YES"	"."	"ENSP00000382834"	"NPRL3_HUMAN"	"."	"UPI00004568D2"	"."	"tolerated(0.44)"	"benign(0)"	"11/14"	"."	"Low_complexity_(Seg):seg,hmmpanther:PTHR13153"	"T:0.0002"	"T:0"	"T:0"	"."	"T:0"	"T:0"	"T:0.001"	"A:0.0002"	"A:0.0005"	"."	"0,1,1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"0,1,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.318181818182	"TCGA_WXS"	FALSE
"18021"	"ARHGAP35"	0	"."	"GRCh37"	"19"	47424644	47424644	"+"	"Silent"	"SNP"	"G"	"G"	"A"	"."	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.2712G>A"	"p.%3D"	"p.Q904Q"	"ENST00000404338"	"1/6"	180	"128"	51	158	"158"	0	"ARHGAP35,synonymous_variant,p.%3D,ENST00000404338,;"	"A"	"ENSG00000160007"	"ENST00000404338"	"Transcript"	"synonymous_variant"	"2712"	"2712"	"904"	"Q"	"caG/caA"	"COSM1494365,COSM1494366"	"."	"."	NA	"ARHGAP35"	"HGNC"	4591	"protein_coding"	"YES"	"CCDS46127.1"	"ENSP00000385720"	"RHG35_HUMAN"	"."	"UPI0000163F71"	"."	"."	"."	"1/6"	"."	"hmmpanther:PTHR23178,hmmpanther:PTHR23178:SF26"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1,1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"1,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.283333333333	"TCGA_WXS"	FALSE
"18022"	"PEG3"	0	"."	"GRCh37"	"19"	57327002	57327002	"+"	"Silent"	"SNP"	"A"	"A"	"G"	"."	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.2808T>C"	"p.%3D"	"p.R936R"	"ENST00000326441"	"10/10"	308	"240"	67	289	"289"	0	"PEG3,synonymous_variant,p.%3D,ENST00000423103,;PEG3,synonymous_variant,p.%3D,ENST00000599577,;PEG3,synonymous_variant,p.%3D,ENST00000599534,;PEG3,synonymous_variant,p.%3D,ENST00000598410,;PEG3,synonymous_variant,p.%3D,ENST00000326441,;PEG3,synonymous_variant,p.%3D,ENST00000593695,;ZIM2,intron_variant,,ENST00000221722,;ZIM2,intron_variant,,ENST00000601070,;ZIM2,intron_variant,,ENST00000593711,;ZIM2,intron_variant,,ENST00000599935,;ZIM2,intron_variant,,ENST00000391708,;PEG3,downstream_gene_variant,,ENST00000600833,;PEG3,upstream_gene_variant,,ENST00000599565,;ZIM2,intron_variant,,ENST00000597281,;ZIM2,intron_variant,,ENST00000595671,;"	"G"	"ENSG00000198300"	"ENST00000326441"	"Transcript"	"synonymous_variant"	"3172"	"2808"	"936"	"R"	"cgT/cgC"	"COSM1494427,COSM1494426"	"."	"."	NA	"PEG3"	"HGNC"	8826	"protein_coding"	"YES"	"CCDS12948.1"	"ENSP00000326581"	"PEG3_HUMAN"	"M0QXG1_HUMAN"	"UPI000006D36D"	"."	"."	"."	"10/10"	"."	"hmmpanther:PTHR10032,hmmpanther:PTHR10032:SF78"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1,1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"1,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.217532467532	"TCGA_WXS"	FALSE
"18023"	"GPRASP1"	0	"."	"GRCh37"	"X"	101913005	101913005	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"."	"."	"TCGA-BP-4760-01A-02D-1421-08"	"TCGA-BP-4760-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.4164C>T"	"p.%3D"	"p.D1388D"	"ENST00000537097"	"6/6"	33	"30"	3	22	"22"	0	"GPRASP1,synonymous_variant,p.%3D,ENST00000415986,;GPRASP1,synonymous_variant,p.%3D,ENST00000361600,;GPRASP1,synonymous_variant,p.%3D,ENST00000537097,;GPRASP1,synonymous_variant,p.%3D,ENST00000444152,;RP4-769N13.7,intron_variant,,ENST00000602441,;RP4-769N13.6,intron_variant,,ENST00000486740,;RP4-769N13.6,intron_variant,,ENST00000602463,;RP4-769N13.6,intron_variant,,ENST00000602366,;GPRASP1,downstream_gene_variant,,ENST00000466098,;"	"T"	"ENSG00000198932"	"ENST00000537097"	"Transcript"	"synonymous_variant"	"4977"	"4164"	"1388"	"D"	"gaC/gaT"	"COSM1497095"	"."	"."	NA	"GPRASP1"	"HGNC"	24834	"protein_coding"	"YES"	"CCDS35352.1"	"ENSP00000445683"	"GASP1_HUMAN"	"."	"UPI0000073B80"	"."	"."	"."	"6/6"	"."	"hmmpanther:PTHR15712:SF22,hmmpanther:PTHR15712"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.0909090909091	"TCGA_WXS"	FALSE
"18024"	"CLSTN1"	0	"."	"GRCh37"	"1"	9804590	9804590	"+"	"Missense_Mutation"	"SNP"	"T"	"T"	"C"	"rs375488055"	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"T"	"T"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1097A>G"	"p.Asn366Ser"	"p.N366S"	"ENST00000377298"	"8/19"	56	"44"	11	65	"65"	0	"CLSTN1,missense_variant,p.Asn186Ser,ENST00000435891,;CLSTN1,missense_variant,p.Asn366Ser,ENST00000377298,;CLSTN1,missense_variant,p.Asn366Ser,ENST00000377288,;CLSTN1,missense_variant,p.Asn356Ser,ENST00000361311,;CLSTN1,downstream_gene_variant,,ENST00000464286,;"	"C"	"ENSG00000171603"	"ENST00000377298"	"Transcript"	"missense_variant"	"1890"	"1097"	"366"	"N/S"	"aAc/aGc"	"rs375488055,COSM1492140"	"."	"."	NA	"CLSTN1"	"HGNC"	17447	"protein_coding"	"YES"	"CCDS30580.1"	"ENSP00000366513"	"CSTN1_HUMAN"	"."	"UPI0000127B95"	"."	"deleterious(0.03)"	"possibly_damaging(0.588)"	"8/19"	"."	"Superfamily_domains:SSF49899,Pfam_domain:PF13385,Gene3D:2.60.120.200,hmmpanther:PTHR14139,hmmpanther:PTHR14139:SF4"	"."	"."	"."	"."	"."	"."	"."	"C:0"	"C:0.0001"	"."	"0,1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"0,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.196428571429	"TCGA_WXS"	FALSE
"18025"	"FAM212B"	0	"."	"GRCh37"	"1"	112269769	112269769	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.715G>A"	"p.Glu239Lys"	"p.E239K"	"ENST00000357260"	"2/2"	84	"79"	5	104	"104"	0	"FAM212B,missense_variant,p.Glu239Lys,ENST00000357260,;FAM212B,missense_variant,p.Glu224Lys,ENST00000444059,;FAM212B,intron_variant,,ENST00000534365,;FAM212B,downstream_gene_variant,,ENST00000527621,;FAM212B,intron_variant,,ENST00000527570,;"	"T"	"ENSG00000197852"	"ENST00000357260"	"Transcript"	"missense_variant"	"897"	"715"	"239"	"E/K"	"Gag/Aag"	"COSM1491625,COSM1491626"	"."	"."	NA	"FAM212B"	"HGNC"	28045	"protein_coding"	"YES"	"CCDS841.1"	"ENSP00000349805"	"F212B_HUMAN"	"."	"UPI0000072CD1"	"."	"deleterious(0.04)"	"benign(0.206)"	"2/2"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1,1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.0595238095238	"TCGA_WXS"	FALSE
"18026"	"KCNN3"	0	"."	"GRCh37"	"1"	154842012	154842012	"+"	"Silent"	"SNP"	"G"	"G"	"A"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.429C>T"	"p.%3D"	"p.S143S"	"ENST00000271915"	"1/8"	53	"45"	7	52	"52"	0	"KCNN3,synonymous_variant,p.%3D,ENST00000271915,;KCNN3,upstream_gene_variant,,ENST00000358505,;"	"A"	"ENSG00000143603"	"ENST00000271915"	"Transcript"	"synonymous_variant"	"745"	"429"	"143"	"S"	"tcC/tcT"	"COSM1491777"	"."	"."	NA	"KCNN3"	"HGNC"	6292	"protein_coding"	"YES"	"CCDS30880.1"	"ENSP00000271915"	"."	"Q6JXY2_HUMAN"	"UPI000013D915"	"."	"."	"."	"1/8"	"."	"Low_complexity_(Seg):seg,hmmpanther:PTHR10153:SF35,hmmpanther:PTHR10153"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.132075471698	"TCGA_WXS"	FALSE
"18027"	"STON1-GTF2A1L"	0	"."	"GRCh37"	"2"	48897082	48897082	"+"	"Silent"	"SNP"	"T"	"T"	"C"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"T"	"T"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.3312T>C"	"p.%3D"	"p.S1104S"	"ENST00000394754"	"9/11"	172	"141"	30	185	"184"	0	"STON1-GTF2A1L,synonymous_variant,p.%3D,ENST00000394751,;STON1-GTF2A1L,synonymous_variant,p.%3D,ENST00000309827,;GTF2A1L,synonymous_variant,p.%3D,ENST00000508440,;GTF2A1L,synonymous_variant,p.%3D,ENST00000430487,;STON1-GTF2A1L,synonymous_variant,p.%3D,ENST00000394754,;STON1-GTF2A1L,synonymous_variant,p.%3D,ENST00000402114,;GTF2A1L,synonymous_variant,p.%3D,ENST00000403751,;STON1-GTF2A1L,synonymous_variant,p.%3D,ENST00000405008,;LHCGR,upstream_gene_variant,,ENST00000420913,;"	"C"	"ENSG00000068781"	"ENST00000394754"	"Transcript"	"synonymous_variant"	"3426"	"3312"	"1104"	"S"	"agT/agC"	"COSM1494973,COSM1494974,COSM1494972"	"."	"."	NA	"STON1-GTF2A1L"	"HGNC"	30651	"protein_coding"	"YES"	"CCDS1840.1"	"ENSP00000378236"	"."	"Q53S48_HUMAN"	"UPI000013C976"	"."	"."	"."	"9/11"	"."	"Pfam_domain:PF03153"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1,1,1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"1,1,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.174418604651	"TCGA_WXS"	FALSE
"18028"	"TEKT4"	0	"."	"GRCh37"	"2"	95539321	95539321	"+"	"Silent"	"SNP"	"A"	"A"	"G"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.555A>G"	"p.%3D"	"p.A185A"	"ENST00000295201"	"2/6"	42	"35"	7	53	"53"	0	"TEKT4,synonymous_variant,p.%3D,ENST00000295201,;TEKT4,downstream_gene_variant,,ENST00000427593,;AC097374.2,intron_variant,,ENST00000582835,;AC097374.2,intron_variant,,ENST00000568768,;TEKT4,non_coding_transcript_exon_variant,,ENST00000468063,;AC097374.2,intron_variant,,ENST00000597308,;"	"G"	"ENSG00000163060"	"ENST00000295201"	"Transcript"	"synonymous_variant"	"692"	"555"	"185"	"A"	"gcA/gcG"	"COSM1495004"	"."	"."	NA	"TEKT4"	"HGNC"	31012	"protein_coding"	"YES"	"CCDS2005.1"	"ENSP00000295201"	"TEKT4_HUMAN"	"."	"UPI00000730A8"	"."	"."	"."	"2/6"	"."	"hmmpanther:PTHR19960:SF12,hmmpanther:PTHR19960,Pfam_domain:PF03148"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.166666666667	"TCGA_WXS"	FALSE
"18029"	"KCNH7"	0	"."	"GRCh37"	"2"	163256910	163256910	"+"	"Silent"	"SNP"	"A"	"A"	"G"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.2196T>C"	"p.%3D"	"p.C732C"	"ENST00000332142"	"10/16"	281	"227"	54	234	"234"	0	"KCNH7,synonymous_variant,p.%3D,ENST00000332142,;"	"G"	"ENSG00000184611"	"ENST00000332142"	"Transcript"	"synonymous_variant"	"2296"	"2196"	"732"	"C"	"tgT/tgC"	"COSM1494668"	"."	"."	NA	"KCNH7"	"HGNC"	18863	"protein_coding"	"YES"	"CCDS2219.1"	"ENSP00000331727"	"KCNH7_HUMAN"	"."	"UPI0000167D11"	"."	"."	"."	"10/16"	"."	"hmmpanther:PTHR10217:SF466,hmmpanther:PTHR10217,Gene3D:3bpzA01,Superfamily_domains:SSF51206"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.192170818505	"TCGA_WXS"	FALSE
"18030"	"IL17RE"	0	"."	"GRCh37"	"3"	9956185	9956185	"+"	"Intron"	"SNP"	"A"	"A"	"G"	"rs758095274"	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1297-47A>G"	"."	"."	"ENST00000295980"	"."	194	"158"	35	132	"132"	0	"IL17RE,synonymous_variant,p.%3D,ENST00000454190,;IL17RE,intron_variant,,ENST00000421412,;IL17RE,intron_variant,,ENST00000295980,;IL17RE,intron_variant,,ENST00000383814,;IL17RC,upstream_gene_variant,,ENST00000436503,;IL17RC,upstream_gene_variant,,ENST00000455057,;IL17RC,upstream_gene_variant,,ENST00000438091,;IL17RC,upstream_gene_variant,,ENST00000295981,;IL17RC,upstream_gene_variant,,ENST00000416074,;IL17RC,upstream_gene_variant,,ENST00000403601,;IL17RC,upstream_gene_variant,,ENST00000413608,;IL17RC,upstream_gene_variant,,ENST00000383812,;RNU6-882P,downstream_gene_variant,,ENST00000391025,;IL17RC,upstream_gene_variant,,ENST00000498214,;IL17RE,3_prime_UTR_variant,,ENST00000383815,;IL17RE,intron_variant,,ENST00000434065,;IL17RE,downstream_gene_variant,,ENST00000480244,;IL17RC,upstream_gene_variant,,ENST00000424206,;IL17RC,upstream_gene_variant,,ENST00000440502,;IL17RC,upstream_gene_variant,,ENST00000412901,;IL17RC,upstream_gene_variant,,ENST00000451231,;IL17RC,upstream_gene_variant,,ENST00000481032,;IL17RC,upstream_gene_variant,,ENST00000469686,;IL17RE,downstream_gene_variant,,ENST00000483258,;IL17RC,upstream_gene_variant,,ENST00000466046,;IL17RC,upstream_gene_variant,,ENST00000476810,;IL17RC,upstream_gene_variant,,ENST00000483582,;IL17RC,upstream_gene_variant,,ENST00000497102,;IL17RE,downstream_gene_variant,,ENST00000444427,;IL17RE,downstream_gene_variant,,ENST00000489181,;IL17RC,upstream_gene_variant,,ENST00000490512,;IL17RC,upstream_gene_variant,,ENST00000451271,;IL17RC,upstream_gene_variant,,ENST00000451165,;IL17RC,upstream_gene_variant,,ENST00000494365,;IL17RC,upstream_gene_variant,,ENST00000434756,;"	"G"	"ENSG00000163701"	"ENST00000295980"	"Transcript"	"intron_variant"	"."	"."	"."	"."	"."	"rs758095274"	"."	"."	NA	"IL17RE"	"HGNC"	18439	"protein_coding"	"YES"	"CCDS2589.1"	"ENSP00000295980"	"I17RE_HUMAN"	"."	"UPI000003E87E"	"."	"."	"."	"."	"14/16"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"MODIFIER"	"."	"SNV"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.180412371134	"TCGA_WXS"	FALSE
"18031"	"SLC4A7"	0	"."	"GRCh37"	"3"	27446453	27446453	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1916G>A"	"p.Ser639Asn"	"p.S639N"	"ENST00000295736"	"14/25"	171	"132"	39	164	"164"	0	"SLC4A7,missense_variant,p.Ser189Asn,ENST00000388777,;SLC4A7,missense_variant,p.Val573Met,ENST00000425128,;SLC4A7,missense_variant,p.Ser524Asn,ENST00000435667,;SLC4A7,missense_variant,p.Ser635Asn,ENST00000445684,;SLC4A7,missense_variant,p.Ser648Asn,ENST00000454389,;SLC4A7,missense_variant,p.Ser190Asn,ENST00000419036,;SLC4A7,missense_variant,p.Ser515Asn,ENST00000428386,;SLC4A7,missense_variant,p.Ser635Asn,ENST00000440156,;SLC4A7,missense_variant,p.Ser520Asn,ENST00000437179,;SLC4A7,missense_variant,p.Ser639Asn,ENST00000295736,;SLC4A7,missense_variant,p.Ser520Asn,ENST00000455077,;SLC4A7,missense_variant,p.Ser631Asn,ENST00000446700,;SLC4A7,missense_variant,p.Ser535Asn,ENST00000428179,;SLC4A7,missense_variant,p.Val573Met,ENST00000438530,;SLC4A7,missense_variant,p.Val462Met,ENST00000457377,;SLC4A7,missense_variant,p.Val462Met,ENST00000437266,;SLC4A7,upstream_gene_variant,,ENST00000475120,;"	"T"	"ENSG00000033867"	"ENST00000295736"	"Transcript"	"missense_variant"	"1987"	"1916"	"639"	"S/N"	"aGt/aAt"	"COSM1495515"	"."	"."	NA	"SLC4A7"	"HGNC"	11033	"protein_coding"	"YES"	"CCDS33721.1"	"ENSP00000295736"	"S4A7_HUMAN"	"."	"UPI0000DBEEB7"	"."	"deleterious(0)"	"possibly_damaging(0.799)"	"14/25"	"."	"hmmpanther:PTHR11453,hmmpanther:PTHR11453:SF36,Pfam_domain:PF00955,TIGRFAM_domain:TIGR00834"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.228070175439	"TCGA_WXS"	FALSE
"18032"	"BVES"	0	"."	"GRCh37"	"6"	105548963	105548963	"+"	"3'UTR"	"SNP"	"A"	"A"	"T"	"novel"	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.*1T>A"	"."	"."	"ENST00000314641"	"8/8"	231	"191"	39	236	"236"	0	"BVES,3_prime_UTR_variant,,ENST00000336775,;BVES,3_prime_UTR_variant,,ENST00000446408,;BVES,3_prime_UTR_variant,,ENST00000314641,;"	"T"	"ENSG00000112276"	"ENST00000314641"	"Transcript"	"3_prime_UTR_variant"	"1301"	"."	"."	"."	"."	"."	"."	"."	NA	"BVES"	"HGNC"	1152	"protein_coding"	"YES"	"CCDS5051.1"	"ENSP00000313172"	"POPD1_HUMAN"	"."	"UPI000006EFF7"	"."	"."	"."	"8/8"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"MODIFIER"	"."	"SNV"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.168831168831	"TCGA_WXS"	FALSE
"18033"	"CREB5"	0	"."	"GRCh37"	"7"	28848894	28848894	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1117G>A"	"p.Asp373Asn"	"p.D373N"	"ENST00000357727"	"9/11"	86	"62"	23	94	"94"	0	"CREB5,missense_variant,p.Asp199Asn,ENST00000426500,;CREB5,missense_variant,p.Asp340Asn,ENST00000409603,;CREB5,missense_variant,p.Asp234Asn,ENST00000396298,;CREB5,missense_variant,p.Asp373Asn,ENST00000357727,;CREB5,missense_variant,p.Asp340Asn,ENST00000396299,;CREB5,missense_variant,p.Asp366Asn,ENST00000396300,;CREB5,upstream_gene_variant,,ENST00000498316,;"	"A"	"ENSG00000146592"	"ENST00000357727"	"Transcript"	"missense_variant"	"1507"	"1117"	"373"	"D/N"	"Gat/Aat"	"COSM1496625,COSM1496626"	"."	"."	NA	"CREB5"	"HGNC"	16844	"protein_coding"	"YES"	"CCDS5417.1"	"ENSP00000350359"	"CREB5_HUMAN"	"H9KVC5_HUMAN,C9JN33_HUMAN"	"UPI0000457534"	"."	"deleterious(0)"	"unknown(0)"	"9/11"	"."	"Low_complexity_(Seg):seg,hmmpanther:PTHR19304:SF8,hmmpanther:PTHR19304,PIRSF_domain:PIRSF003153,SMART_domains:SM00338"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1,1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.267441860465	"TCGA_WXS"	FALSE
"18034"	"CCDC129"	0	"."	"GRCh37"	"7"	31617737	31617737	"+"	"Missense_Mutation"	"SNP"	"T"	"T"	"C"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"T"	"T"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.937T>C"	"p.Phe313Leu"	"p.F313L"	"ENST00000451887"	"8/15"	37	"28"	9	50	"50"	0	"CCDC129,missense_variant,p.Phe195Leu,ENST00000409210,;CCDC129,missense_variant,p.Phe313Leu,ENST00000451887,;CCDC129,missense_variant,p.Phe287Leu,ENST00000407970,;CCDC129,intron_variant,,ENST00000319386,;CCDC129,downstream_gene_variant,,ENST00000454513,;CCDC129,downstream_gene_variant,,ENST00000456011,;CCDC129,downstream_gene_variant,,ENST00000409717,;CCDC129,downstream_gene_variant,,ENST00000482748,;"	"C"	"ENSG00000180347"	"ENST00000451887"	"Transcript"	"missense_variant"	"949"	"937"	"313"	"F/L"	"Ttt/Ctt"	"COSM1496615"	"."	"."	NA	"CCDC129"	"HGNC"	27363	"protein_coding"	"YES"	"CCDS59050.1"	"ENSP00000395835"	"CC129_HUMAN"	"E7ERG9_HUMAN,E7EQ43_HUMAN,B8ZZ49_HUMAN"	"UPI00020655D9"	"."	"tolerated(0.44)"	"benign(0.012)"	"8/15"	"."	"hmmpanther:PTHR17469,hmmpanther:PTHR17469:SF12"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.243243243243	"TCGA_WXS"	FALSE
"18035"	"GRM8"	0	"."	"GRCh37"	"7"	126544081	126544081	"+"	"Missense_Mutation"	"SNP"	"T"	"T"	"A"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"T"	"T"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.963A>T"	"p.Gln321His"	"p.Q321H"	"ENST00000339582"	"5/11"	246	"199"	47	281	"281"	0	"GRM8,missense_variant,p.Gln321His,ENST00000339582,;GRM8,missense_variant,p.Gln321His,ENST00000444921,;GRM8,missense_variant,p.Gln321His,ENST00000358373,;GRM8,missense_variant,p.Gln321His,ENST00000405249,;GRM8,downstream_gene_variant,,ENST00000457830,;GRM8,non_coding_transcript_exon_variant,,ENST00000448250,;GRM8,non_coding_transcript_exon_variant,,ENST00000480995,;GRM8,missense_variant,p.Gln321His,ENST00000341617,;GRM8,missense_variant,p.Gln321His,ENST00000472701,;"	"A"	"ENSG00000179603"	"ENST00000339582"	"Transcript"	"missense_variant"	"1772"	"963"	"321"	"Q/H"	"caA/caT"	"COSM1496529,COSM1496530"	"."	"."	NA	"GRM8"	"HGNC"	4600	"protein_coding"	"YES"	"CCDS5794.1"	"ENSP00000344173"	"GRM8_HUMAN"	"E7ETK3_HUMAN,C9J7I1_HUMAN"	"UPI000012F085"	"."	"tolerated(0.54)"	"possibly_damaging(0.897)"	"5/11"	"."	"hmmpanther:PTHR24060:SF26,hmmpanther:PTHR24060,Pfam_domain:PF01094,Gene3D:3.40.50.2300,Superfamily_domains:SSF53822"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1,1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.191056910569	"TCGA_WXS"	FALSE
"18036"	"SLC13A4"	0	"."	"GRCh37"	"7"	135390994	135390994	"+"	"Silent"	"SNP"	"G"	"G"	"A"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.420C>T"	"p.%3D"	"p.N140N"	"ENST00000354042"	"4/16"	56	"45"	10	58	"58"	0	"SLC13A4,synonymous_variant,p.%3D,ENST00000354042,;SLC13A4,downstream_gene_variant,,ENST00000378428,;RP11-644N4.1,downstream_gene_variant,,ENST00000609370,;SLC13A4,non_coding_transcript_exon_variant,,ENST00000471405,;SLC13A4,upstream_gene_variant,,ENST00000480376,;SLC13A4,downstream_gene_variant,,ENST00000478310,;"	"A"	"ENSG00000164707"	"ENST00000354042"	"Transcript"	"synonymous_variant"	"1110"	"420"	"140"	"N"	"aaC/aaT"	"COSM1496507"	"."	"."	NA	"SLC13A4"	"HGNC"	15827	"protein_coding"	"YES"	"CCDS5840.1"	"ENSP00000297282"	"S13A4_HUMAN"	"."	"UPI00000343D9"	"."	"."	"."	"4/16"	"."	"Pfam_domain:PF00939,hmmpanther:PTHR10283,hmmpanther:PTHR10283:SF63"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.178571428571	"TCGA_WXS"	FALSE
"18037"	"TTI2"	0	"."	"GRCh37"	"8"	33371089	33371089	"+"	"5'UTR"	"SNP"	"G"	"G"	"A"	"rs759898995"	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.-589C>T"	"."	"."	"ENST00000431156"	"1/8"	222	"177"	45	165	"164"	1	"TTI2,5_prime_UTR_variant,,ENST00000431156,;TTI2,upstream_gene_variant,,ENST00000520636,;TTI2,upstream_gene_variant,,ENST00000360742,;TTI2,upstream_gene_variant,,ENST00000523305,;SNORD13,non_coding_transcript_exon_variant,,ENST00000459299,;TTI2,upstream_gene_variant,,ENST00000519356,;"	"A"	"ENSG00000129696"	"ENST00000431156"	"Transcript"	"5_prime_UTR_variant"	"31"	"."	"."	"."	"."	"rs759898995"	"."	"."	NA	"TTI2"	"HGNC"	26262	"protein_coding"	"YES"	"CCDS6090.1"	"ENSP00000411169"	"TTI2_HUMAN"	"E5RHM7_HUMAN"	"UPI000013D26B"	"."	"."	"."	"1/8"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"MODIFIER"	"."	"SNV"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.202702702703	"TCGA_WXS"	FALSE
"18038"	"PDGFD"	0	"."	"GRCh37"	"11"	104034545	104034545	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"T"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.111C>A"	"p.Asn37Lys"	"p.N37K"	"ENST00000393158"	"1/7"	141	"114"	26	105	"105"	0	"PDGFD,missense_variant,p.Asn37Lys,ENST00000302251,;PDGFD,missense_variant,p.Asn37Lys,ENST00000393158,;"	"T"	"ENSG00000170962"	"ENST00000393158"	"Transcript"	"missense_variant"	"291"	"111"	"37"	"N/K"	"aaC/aaA"	"COSM1492413,COSM1492412"	"."	"."	NA	"PDGFD"	"HGNC"	30620	"protein_coding"	"YES"	"CCDS41703.1"	"ENSP00000376865"	"PDGFD_HUMAN"	"."	"UPI0000034811"	"."	"tolerated(0.1)"	"benign(0.006)"	"1/7"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1,1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.184397163121	"TCGA_WXS"	FALSE
"18039"	"EFNB2"	0	"."	"GRCh37"	"13"	107164902	107164902	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.381G>A"	"p.%3D"	"p.Q127Q"	"ENST00000245323"	"2/5"	142	"106"	35	136	"136"	0	"EFNB2,synonymous_variant,p.%3D,ENST00000245323,;"	"T"	"ENSG00000125266"	"ENST00000245323"	"Transcript"	"synonymous_variant"	"531"	"381"	"127"	"Q"	"caG/caA"	"COSM1493141"	"."	"."	NA	"EFNB2"	"HGNC"	3227	"protein_coding"	"YES"	"CCDS9507.1"	"ENSP00000245323"	"EFNB2_HUMAN"	"Q2PDH7_HUMAN"	"UPI0000129C9B"	"."	"."	"."	"2/5"	"."	"Prints_domain:PR01347,Superfamily_domains:SSF49503,Pfam_domain:PF00812,Gene3D:2.60.40.420,PROSITE_patterns:PS01299,hmmpanther:PTHR11304:SF18,hmmpanther:PTHR11304,PROSITE_profiles:PS51551"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.246478873239	"TCGA_WXS"	FALSE
"18040"	"DCAF11"	0	"."	"GRCh37"	"14"	24590630	24590630	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1303G>A"	"p.Gly435Arg"	"p.G435R"	"ENST00000446197"	"13/15"	128	"104"	23	85	"85"	0	"DCAF11,missense_variant,p.Gly335Arg,ENST00000396936,;DCAF11,missense_variant,p.Gly175Arg,ENST00000559144,;DCAF11,missense_variant,p.Gly435Arg,ENST00000559115,;DCAF11,missense_variant,p.Gly409Arg,ENST00000396941,;RP11-468E2.6,missense_variant,p.Gly25Arg,ENST00000558325,;DCAF11,missense_variant,p.Gly435Arg,ENST00000446197,;DCAF11,downstream_gene_variant,,ENST00000559354,;DCAF11,downstream_gene_variant,,ENST00000560713,;DCAF11,downstream_gene_variant,,ENST00000559593,;DCAF11,downstream_gene_variant,,ENST00000558215,;DCAF11,downstream_gene_variant,,ENST00000560901,;DCAF11,downstream_gene_variant,,ENST00000561001,;DCAF11,downstream_gene_variant,,ENST00000560459,;DCAF11,downstream_gene_variant,,ENST00000559796,;DCAF11,downstream_gene_variant,,ENST00000561375,;DCAF11,downstream_gene_variant,,ENST00000561041,;DCAF11,downstream_gene_variant,,ENST00000558638,;DCAF11,downstream_gene_variant,,ENST00000559017,;DCAF11,downstream_gene_variant,,ENST00000559288,;DCAF11,downstream_gene_variant,,ENST00000559382,;DCAF11,downstream_gene_variant,,ENST00000558408,;DCAF11,downstream_gene_variant,,ENST00000557810,;DCAF11,downstream_gene_variant,,ENST00000557809,;DCAF11,downstream_gene_variant,,ENST00000560171,;DCAF11,downstream_gene_variant,,ENST00000561016,;DCAF11,downstream_gene_variant,,ENST00000557952,;DCAF11,downstream_gene_variant,,ENST00000561056,;DCAF11,3_prime_UTR_variant,,ENST00000326009,;DCAF11,3_prime_UTR_variant,,ENST00000558914,;DCAF11,3_prime_UTR_variant,,ENST00000557802,;DCAF11,non_coding_transcript_exon_variant,,ENST00000558624,;DCAF11,non_coding_transcript_exon_variant,,ENST00000559472,;DCAF11,downstream_gene_variant,,ENST00000558706,;DCAF11,downstream_gene_variant,,ENST00000560046,;DCAF11,downstream_gene_variant,,ENST00000559451,;DCAF11,downstream_gene_variant,,ENST00000560457,;DCAF11,downstream_gene_variant,,ENST00000557888,;DCAF11,downstream_gene_variant,,ENST00000560614,;"	"A"	"ENSG00000100897"	"ENST00000446197"	"Transcript"	"missense_variant"	"2030"	"1303"	"435"	"G/R"	"Gga/Aga"	"COSM954889"	"."	"."	NA	"DCAF11"	"HGNC"	20258	"protein_coding"	"YES"	"CCDS9610.1"	"ENSP00000415556"	"DCA11_HUMAN"	"H0YNS2_HUMAN,H0YNK2_HUMAN,H0YMZ4_HUMAN,H0YM56_HUMAN,H0YLQ1_HUMAN,H0YL64_HUMAN,H0YKR8_HUMAN"	"UPI0000073AB2"	"."	"tolerated(0.09)"	"benign(0.259)"	"13/15"	"."	"PROSITE_profiles:PS50294,hmmpanther:PTHR19847,Gene3D:2.130.10.10,SMART_domains:SM00320,PIRSF_domain:PIRSF038135,Superfamily_domains:SSF50978"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.1796875	"TCGA_WXS"	FALSE
"18041"	"AKAP6"	0	"."	"GRCh37"	"14"	33015692	33015692	"+"	"Silent"	"SNP"	"A"	"A"	"T"	"rs780548398"	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1833A>T"	"p.%3D"	"p.P611P"	"ENST00000280979"	"4/14"	112	"94"	18	113	"113"	0	"AKAP6,synonymous_variant,p.%3D,ENST00000280979,;AKAP6,synonymous_variant,p.%3D,ENST00000557272,;AKAP6,synonymous_variant,p.%3D,ENST00000557354,;AKAP6,downstream_gene_variant,,ENST00000553547,;AKAP6,downstream_gene_variant,,ENST00000556638,;AKAP6,downstream_gene_variant,,ENST00000554410,;"	"T"	"ENSG00000151320"	"ENST00000280979"	"Transcript"	"synonymous_variant"	"2003"	"1833"	"611"	"P"	"ccA/ccT"	"rs780548398,COSM1493287"	"."	"."	NA	"AKAP6"	"HGNC"	376	"protein_coding"	"YES"	"CCDS9644.1"	"ENSP00000280979"	"AKAP6_HUMAN"	"G3V569_HUMAN,G3V3H6_HUMAN,G3V3H2_HUMAN,G3V3B5_HUMAN,D3DS91_HUMAN"	"UPI000013DC48"	"."	"."	"."	"4/14"	"."	"hmmpanther:PTHR14514,hmmpanther:PTHR14514:SF2"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"0,1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"0,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.160714285714	"TCGA_WXS"	FALSE
"18042"	"CTAGE5"	0	"."	"GRCh37"	"14"	39819379	39819379	"+"	"Missense_Mutation"	"SNP"	"T"	"T"	"A"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"T"	"T"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.2341T>A"	"p.Ser781Thr"	"p.S781T"	"ENST00000396158"	"24/24"	203	"165"	38	246	"246"	0	"CTAGE5,missense_variant,p.Ser747Thr,ENST00000396165,;CTAGE5,missense_variant,p.Ser781Thr,ENST00000396158,;RP11-407N17.3,missense_variant,p.Ser1311Thr,ENST00000553728,;CTAGE5,missense_variant,p.Ser747Thr,ENST00000553352,;CTAGE5,missense_variant,p.Ser776Thr,ENST00000280083,;CTAGE5,missense_variant,p.Ser764Thr,ENST00000341749,;CTAGE5,missense_variant,p.Ser701Thr,ENST00000556148,;CTAGE5,missense_variant,p.Ser733Thr,ENST00000348007,;RP11-407N17.3,missense_variant,p.Ser747Thr,ENST00000603904,;CTAGE5,missense_variant,p.Ser696Thr,ENST00000557038,;CTAGE5,intron_variant,,ENST00000341502,;CTAGE5,non_coding_transcript_exon_variant,,ENST00000553383,;"	"A"	"ENSG00000150527"	"ENST00000396158"	"Transcript"	"missense_variant"	"2677"	"2341"	"781"	"S/T"	"Tct/Act"	"COSM1493277"	"."	"."	NA	"CTAGE5"	"HGNC"	7057	"protein_coding"	"YES"	"CCDS58316.1"	"ENSP00000379462"	"CTGE5_HUMAN"	"."	"UPI0001AE69C9"	"."	"deleterious(0.01)"	"benign(0.096)"	"24/24"	"."	"hmmpanther:PTHR23158:SF39,hmmpanther:PTHR23158"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.187192118227	"TCGA_WXS"	FALSE
"18043"	"EXOC5"	0	"."	"GRCh37"	"14"	57675240	57675240	"+"	"3'UTR"	"SNP"	"C"	"C"	"A"	"novel"	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.*87G>T"	"."	"."	"ENST00000413566"	"18/18"	54	"51"	3	71	"71"	0	"EXOC5,3_prime_UTR_variant,,ENST00000413566,;EXOC5,3_prime_UTR_variant,,ENST00000340918,;AL391152.1,downstream_gene_variant,,ENST00000391612,;EXOC5,non_coding_transcript_exon_variant,,ENST00000554011,;EXOC5,downstream_gene_variant,,ENST00000555148,;"	"A"	"ENSG00000070367"	"ENST00000413566"	"Transcript"	"3_prime_UTR_variant"	"2574"	"."	"."	"."	"."	"."	"."	"."	NA	"EXOC5"	"HGNC"	10696	"protein_coding"	"YES"	"CCDS45111.1"	"ENSP00000389934"	"EXOC5_HUMAN"	"Q658M3_HUMAN,G3V4Z7_HUMAN"	"UPI0000047E53"	"."	"."	"."	"18/18"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"MODIFIER"	"."	"SNV"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.0555555555556	"TCGA_WXS"	FALSE
"18044"	"EML5"	0	"."	"GRCh37"	"14"	89153576	89153576	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"rs750800837"	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.2838G>A"	"p.%3D"	"p.L946L"	"ENST00000554922"	"19/44"	43	"34"	8	50	"50"	0	"EML5,synonymous_variant,p.%3D,ENST00000352093,;EML5,synonymous_variant,p.%3D,ENST00000554922,;EML5,synonymous_variant,p.%3D,ENST00000380664,;EML5,3_prime_UTR_variant,,ENST00000553281,;"	"T"	"ENSG00000165521"	"ENST00000554922"	"Transcript"	"synonymous_variant"	"3087"	"2838"	"946"	"L"	"ttG/ttA"	"rs750800837,COSM1493354"	"."	"."	NA	"EML5"	"HGNC"	18197	"protein_coding"	"YES"	"CCDS45148.1"	"ENSP00000451998"	"EMAL5_HUMAN"	"."	"UPI00001C0438"	"."	"."	"."	"19/44"	"."	"Superfamily_domains:SSF50998,hmmpanther:PTHR13720,hmmpanther:PTHR13720:SF16,PROSITE_profiles:PS50294"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"0,1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"0,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.186046511628	"TCGA_WXS"	FALSE
"18045"	"SNORD108"	0	"."	"GRCh37"	"15"	25232121	25232121	"+"	"RNA"	"SNP"	"C"	"C"	"G"	"novel"	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"n.50C>G"	"."	"."	"ENST00000459332"	"1/1"	126	"109"	17	116	"116"	0	"SNORD108,non_coding_transcript_exon_variant,,ENST00000459332,;SNHG14,downstream_gene_variant,,ENST00000459433,;SNORD64,downstream_gene_variant,,ENST00000386683,;SNHG14,intron_variant,,ENST00000551361,;SNHG14,intron_variant,,ENST00000551631,;SNORD64,downstream_gene_variant,,ENST00000605533,;RP11-701H24.7,upstream_gene_variant,,ENST00000604451,;SNURF,intron_variant,,ENST00000551312,;SNURF,intron_variant,,ENST00000557230,;SNHG14,downstream_gene_variant,,ENST00000557108,;"	"G"	"ENSG00000239014"	"ENST00000459332"	"Transcript"	"non_coding_transcript_exon_variant"	"50"	"."	"."	"."	"."	"."	"."	"."	NA	"SNORD108"	"HGNC"	32772	"snoRNA"	"YES"	"."	"."	"."	"."	"."	"."	"."	"."	"1/1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"MODIFIER"	"."	"SNV"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.134920634921	"TCGA_WXS"	FALSE
"18046"	"LRRC49"	0	"."	"GRCh37"	"15"	71276512	71276512	"+"	"Missense_Mutation"	"SNP"	"A"	"A"	"C"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1100A>C"	"p.Asn367Thr"	"p.N367T"	"ENST00000560369"	"11/16"	140	"119"	20	139	"139"	0	"LRRC49,missense_variant,p.Asn318Thr,ENST00000443425,;LRRC49,missense_variant,p.Asn367Thr,ENST00000560369,;LRRC49,missense_variant,p.Asn68Thr,ENST00000560691,;LRRC49,missense_variant,p.Asn68Thr,ENST00000559806,;LRRC49,missense_variant,p.Asn68Thr,ENST00000558808,;LRRC49,missense_variant,p.Asn362Thr,ENST00000260382,;LRRC49,missense_variant,p.Asn40Thr,ENST00000559069,;LRRC49,missense_variant,p.Asn352Thr,ENST00000544974,;LRRC49,missense_variant,p.Asn50Thr,ENST00000560158,;LRRC49,missense_variant,p.Asn68Thr,ENST00000558456,;LRRC49,non_coding_transcript_exon_variant,,ENST00000559422,;LRRC49,non_coding_transcript_exon_variant,,ENST00000436542,;LRRC49,3_prime_UTR_variant,,ENST00000560107,;LRRC49,3_prime_UTR_variant,,ENST00000561081,;LRRC49,non_coding_transcript_exon_variant,,ENST00000560980,;LRRC49,non_coding_transcript_exon_variant,,ENST00000559685,;"	"C"	"ENSG00000137821"	"ENST00000560369"	"Transcript"	"missense_variant"	"1369"	"1100"	"367"	"N/T"	"aAt/aCt"	"COSM1493449"	"."	"."	NA	"LRRC49"	"HGNC"	25965	"protein_coding"	"YES"	"CCDS58376.1"	"ENSP00000453273"	"LRC49_HUMAN"	"H0YNV5_HUMAN,H0YNI5_HUMAN,H0YLQ8_HUMAN,H0YKI5_HUMAN,H0YKE9_HUMAN"	"UPI0001E92A32"	"."	"tolerated(0.45)"	"benign(0.004)"	"11/16"	"."	"hmmpanther:PTHR10588:SF5,hmmpanther:PTHR10588"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.142857142857	"TCGA_WXS"	FALSE
"18047"	"ISLR2"	0	"."	"GRCh37"	"15"	74426565	74426565	"+"	"Silent"	"SNP"	"G"	"G"	"A"	"novel"	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1470G>A"	"p.%3D"	"p.A490A"	"ENST00000361742"	"4/4"	13	"9"	4	12	"12"	0	"ISLR2,synonymous_variant,p.%3D,ENST00000565540,;ISLR2,synonymous_variant,p.%3D,ENST00000445793,;ISLR2,synonymous_variant,p.%3D,ENST00000453268,;ISLR2,synonymous_variant,p.%3D,ENST00000361742,;ISLR2,synonymous_variant,p.%3D,ENST00000419208,;ISLR2,synonymous_variant,p.%3D,ENST00000435464,;ISLR2,synonymous_variant,p.%3D,ENST00000565159,;ISLR2,downstream_gene_variant,,ENST00000567206,;RP11-247C2.2,upstream_gene_variant,,ENST00000514871,;ISLR2,downstream_gene_variant,,ENST00000565332,;ISLR2,downstream_gene_variant,,ENST00000561740,;ISLR2,downstream_gene_variant,,ENST00000569886,;ISLR2,intron_variant,,ENST00000561975,;ISLR2,downstream_gene_variant,,ENST00000565068,;"	"A"	"ENSG00000167178"	"ENST00000361742"	"Transcript"	"synonymous_variant"	"2239"	"1470"	"490"	"A"	"gcG/gcA"	"."	"."	"."	NA	"ISLR2"	"HGNC"	29286	"protein_coding"	"YES"	"CCDS10259.1"	"ENSP00000355402"	"ISLR2_HUMAN"	"H3BNZ6_HUMAN,H3BM95_HUMAN,H3BM69_HUMAN"	"UPI000004C60F"	"."	"."	"."	"4/4"	"."	"hmmpanther:PTHR24366:SF12,hmmpanther:PTHR24366"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.307692307692	"TCGA_WXS"	FALSE
"18048"	"IDH2"	0	"."	"GRCh37"	"15"	90631628	90631628	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.641C>T"	"p.Ala214Val"	"p.A214V"	"ENST00000330062"	"5/11"	188	"170"	18	156	"156"	0	"IDH2,missense_variant,p.Ala84Val,ENST00000539790,;IDH2,missense_variant,p.Ala214Val,ENST00000330062,;IDH2,missense_variant,p.Ala105Val,ENST00000559482,;IDH2,missense_variant,p.Ala162Val,ENST00000540499,;IDH2,3_prime_UTR_variant,,ENST00000560061,;"	"A"	"ENSG00000182054"	"ENST00000330062"	"Transcript"	"missense_variant"	"755"	"641"	"214"	"A/V"	"gCa/gTa"	"COSM1493548"	"."	"."	NA	"IDH2"	"HGNC"	5383	"protein_coding"	"YES"	"CCDS10359.1"	"ENSP00000331897"	"IDHP_HUMAN"	"H0YLL5_HUMAN,B4DSZ6_HUMAN,B4DFL2_HUMAN"	"UPI000012D1C3"	"."	"deleterious_low_confidence(0)"	"benign(0.135)"	"5/11"	"."	"hmmpanther:PTHR11822,Pfam_domain:PF00180,TIGRFAM_domain:TIGR00127,Gene3D:3.40.718.10,PIRSF_domain:PIRSF000108,Superfamily_domains:SSF53659"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.0957446808511	"TCGA_WXS"	TRUE
"18049"	"HSF4"	0	"."	"GRCh37"	"16"	67203204	67203204	"+"	"Missense_Mutation"	"SNP"	"G"	"G"	"A"	"rs375615573"	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1277G>A"	"p.Arg426Gln"	"p.R426Q"	"ENST00000264009"	"14/15"	51	"47"	4	40	"40"	0	"HSF4,missense_variant,p.Arg426Gln,ENST00000264009,;HSF4,missense_variant,p.Arg158Gln,ENST00000519601,;HSF4,missense_variant,p.Arg350Gln,ENST00000517685,;HSF4,missense_variant,p.Arg396Gln,ENST00000584272,;HSF4,missense_variant,p.Arg18Gln,ENST00000521916,;HSF4,missense_variant,p.Arg102Gln,ENST00000520304,;HSF4,missense_variant,p.Arg426Gln,ENST00000521374,;HSF4,missense_variant,p.Arg396Gln,ENST00000421453,;FBXL8,downstream_gene_variant,,ENST00000517382,;NOL3,upstream_gene_variant,,ENST00000563439,;NOL3,upstream_gene_variant,,ENST00000432069,;NOL3,upstream_gene_variant,,ENST00000268605,;NOL3,upstream_gene_variant,,ENST00000563258,;HSF4,downstream_gene_variant,,ENST00000517729,;NOL3,upstream_gene_variant,,ENST00000566871,;HSF4,downstream_gene_variant,,ENST00000517750,;NOL3,upstream_gene_variant,,ENST00000564053,;NOL3,upstream_gene_variant,,ENST00000568146,;NOL3,upstream_gene_variant,,ENST00000565560,;NOL3,upstream_gene_variant,,ENST00000564992,;NOL3,upstream_gene_variant,,ENST00000568199,;RP11-5A19.5,downstream_gene_variant,,ENST00000523360,;NOL3,upstream_gene_variant,,ENST00000565645,;HSF4,downstream_gene_variant,,ENST00000517867,;HSF4,3_prime_UTR_variant,,ENST00000522295,;HSF4,3_prime_UTR_variant,,ENST00000521314,;HSF4,3_prime_UTR_variant,,ENST00000434833,;HSF4,3_prime_UTR_variant,,ENST00000523562,;HSF4,non_coding_transcript_exon_variant,,ENST00000520833,;HSF4,intron_variant,,ENST00000520528,;HSF4,intron_variant,,ENST00000521624,;HSF4,downstream_gene_variant,,ENST00000518603,;HSF4,downstream_gene_variant,,ENST00000517680,;HSF4,downstream_gene_variant,,ENST00000522027,;NOL3,upstream_gene_variant,,ENST00000568086,;RP11-5A19.5,downstream_gene_variant,,ENST00000518227,;HSF4,downstream_gene_variant,,ENST00000519105,;HSF4,downstream_gene_variant,,ENST00000522870,;HSF4,downstream_gene_variant,,ENST00000522459,;HSF4,downstream_gene_variant,,ENST00000520247,;RP11-5A19.5,downstream_gene_variant,,ENST00000518753,;RP11-5A19.5,downstream_gene_variant,,ENST00000580114,;NOL3,upstream_gene_variant,,ENST00000568503,;HSF4,downstream_gene_variant,,ENST00000519224,;HSF4,downstream_gene_variant,,ENST00000523077,;HSF4,downstream_gene_variant,,ENST00000522023,;"	"A"	"ENSG00000102878"	"ENST00000264009"	"Transcript"	"missense_variant"	"2242"	"1277"	"426"	"R/Q"	"cGg/cAg"	"rs375615573,COSM1493709"	"."	"."	NA	"HSF4"	"HGNC"	5227	"protein_coding"	"YES"	"CCDS42175.1"	"ENSP00000264009"	"HSF4_HUMAN"	"."	"UPI0000366B51"	"."	"tolerated(0.18)"	"benign(0.087)"	"14/15"	"."	"hmmpanther:PTHR10015:SF43,hmmpanther:PTHR10015"	"."	"."	"."	"."	"."	"."	"."	"C:0"	"C:0.0001"	"."	"0,1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"0,1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.078431372549	"TCGA_WXS"	FALSE
"18050"	"NAGLU"	0	"."	"GRCh37"	"17"	40690727	40690727	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.718C>T"	"p.Pro240Ser"	"p.P240S"	"ENST00000225927"	"4/6"	95	"76"	19	89	"89"	0	"NAGLU,missense_variant,p.Pro105Ser,ENST00000591587,;NAGLU,missense_variant,p.Pro108Ser,ENST00000586516,;NAGLU,missense_variant,p.Pro240Ser,ENST00000225927,;NAGLU,downstream_gene_variant,,ENST00000590358,;NAGLU,upstream_gene_variant,,ENST00000592454,;RP11-400F19.8,non_coding_transcript_exon_variant,,ENST00000585572,;PTP4A2P1,downstream_gene_variant,,ENST00000590314,;"	"T"	"ENSG00000108784"	"ENST00000225927"	"Transcript"	"missense_variant"	"819"	"718"	"240"	"P/S"	"Cca/Tca"	"COSM1493876"	"."	"."	NA	"NAGLU"	"HGNC"	7632	"protein_coding"	"YES"	"CCDS11427.1"	"ENSP00000225927"	"ANAG_HUMAN"	"."	"UPI000013C885"	"."	"deleterious(0.01)"	"probably_damaging(0.938)"	"4/6"	"."	"hmmpanther:PTHR12872,Pfam_domain:PF05089,Superfamily_domains:SSF51445"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.2	"TCGA_WXS"	FALSE
"18051"	"CELF4"	0	"."	"GRCh37"	"18"	34846536	34846536	"+"	"Silent"	"SNP"	"G"	"G"	"T"	"novel"	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"G"	"G"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1125C>A"	"p.%3D"	"p.P375P"	"ENST00000420428"	"9/13"	16	"13"	3	13	"13"	0	"CELF4,synonymous_variant,p.%3D,ENST00000420428,;CELF4,synonymous_variant,p.%3D,ENST00000587657,;CELF4,synonymous_variant,p.%3D,ENST00000589386,;CELF4,synonymous_variant,p.%3D,ENST00000593271,;CELF4,synonymous_variant,p.%3D,ENST00000586009,;CELF4,synonymous_variant,p.%3D,ENST00000588597,;CELF4,synonymous_variant,p.%3D,ENST00000334919,;CELF4,synonymous_variant,p.%3D,ENST00000603232,;CELF4,synonymous_variant,p.%3D,ENST00000591282,;CELF4,synonymous_variant,p.%3D,ENST00000591287,;CELF4,synonymous_variant,p.%3D,ENST00000588591,;CELF4,synonymous_variant,p.%3D,ENST00000361795,;CELF4,synonymous_variant,p.%3D,ENST00000412753,;CELF4,synonymous_variant,p.%3D,ENST00000601019,;CELF4,upstream_gene_variant,,ENST00000587911,;CELF4,non_coding_transcript_exon_variant,,ENST00000587074,;CELF4,3_prime_UTR_variant,,ENST00000590112,;CELF4,non_coding_transcript_exon_variant,,ENST00000591421,;"	"T"	"ENSG00000101489"	"ENST00000420428"	"Transcript"	"synonymous_variant"	"1521"	"1125"	"375"	"P"	"ccC/ccA"	"."	"."	"."	NA	"CELF4"	"HGNC"	14015	"protein_coding"	"YES"	"CCDS32818.1"	"ENSP00000410584"	"CELF4_HUMAN"	"K7EJK3_HUMAN"	"UPI00000726FC"	"."	"."	"."	"9/13"	"."	"hmmpanther:PTHR24622,hmmpanther:PTHR24622:SF181"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.1875	"TCGA_WXS"	FALSE
"18052"	"KIAA1468"	0	"."	"GRCh37"	"18"	59895745	59895745	"+"	"Silent"	"SNP"	"A"	"A"	"G"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"A"	"A"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.1362A>G"	"p.%3D"	"p.P454P"	"ENST00000398130"	"8/29"	117	"92"	24	123	"123"	0	"KIAA1468,synonymous_variant,p.%3D,ENST00000256858,;KIAA1468,synonymous_variant,p.%3D,ENST00000398130,;KIAA1468,non_coding_transcript_exon_variant,,ENST00000591227,;KIAA1468,non_coding_transcript_exon_variant,,ENST00000592479,;KIAA1468,synonymous_variant,p.%3D,ENST00000587725,;KIAA1468,downstream_gene_variant,,ENST00000590713,;"	"G"	"ENSG00000134444"	"ENST00000398130"	"Transcript"	"synonymous_variant"	"1594"	"1362"	"454"	"P"	"ccA/ccG"	"COSM1494151"	"."	"."	NA	"KIAA1468"	"HGNC"	29289	"protein_coding"	"YES"	"CCDS11979.2"	"ENSP00000381198"	"K1468_HUMAN"	"Q96ES0_HUMAN"	"UPI0000DA5AF7"	"."	"."	"."	"8/29"	"."	"hmmpanther:PTHR32059,hmmpanther:PTHR32059:SF0"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.205128205128	"TCGA_WXS"	FALSE
"18053"	"LMNB2"	0	"."	"GRCh37"	"19"	2438508	2438508	"+"	"Silent"	"SNP"	"C"	"C"	"T"	"rs762893840"	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.423G>A"	"p.%3D"	"p.E141E"	"ENST00000325327"	"3/12"	12	"8"	4	20	"20"	0	"LMNB2,synonymous_variant,p.%3D,ENST00000582871,;LMNB2,synonymous_variant,p.%3D,ENST00000325327,;LMNB2,upstream_gene_variant,,ENST00000532465,;LMNB2,upstream_gene_variant,,ENST00000527409,;LMNB2,upstream_gene_variant,,ENST00000534495,;LMNB2,upstream_gene_variant,,ENST00000490554,;"	"T"	"ENSG00000176619"	"ENST00000325327"	"Transcript"	"synonymous_variant"	"486"	"423"	"141"	"E"	"gaG/gaA"	"rs762893840"	"."	"."	NA	"LMNB2"	"HGNC"	6638	"protein_coding"	"YES"	"CCDS12090.2"	"ENSP00000327054"	"."	"J9JID7_HUMAN"	"UPI000059D625"	"."	"."	"."	"3/12"	"."	"Coiled-coils_(Ncoils):Coil,hmmpanther:PTHR23239:SF152,hmmpanther:PTHR23239,Pfam_domain:PF00038"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"LOW"	"."	"SNV"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.333333333333	"TCGA_WXS"	FALSE
"18054"	"PTPRH"	0	"."	"GRCh37"	"19"	55716831	55716831	"+"	"Missense_Mutation"	"SNP"	"C"	"C"	"T"	"."	"."	"TCGA-BP-4795-01A-02D-1421-08"	"TCGA-BP-4795-11A-01D-1421-08"	"C"	"C"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"c.482G>A"	"p.Gly161Asp"	"p.G161D"	"ENST00000376350"	"4/20"	174	"138"	36	180	"180"	0	"PTPRH,missense_variant,p.Gly161Asp,ENST00000376350,;PTPRH,intron_variant,,ENST00000263434,;PTPRH,non_coding_transcript_exon_variant,,ENST00000586310,;PTPRH,non_coding_transcript_exon_variant,,ENST00000588559,;PTPRH,non_coding_transcript_exon_variant,,ENST00000588370,;PTPRH,non_coding_transcript_exon_variant,,ENST00000586852,;PTPRH,downstream_gene_variant,,ENST00000587662,;"	"T"	"ENSG00000080031"	"ENST00000376350"	"Transcript"	"missense_variant"	"505"	"482"	"161"	"G/D"	"gGc/gAc"	"COSM1494433"	"."	"."	NA	"PTPRH"	"HGNC"	9672	"protein_coding"	"YES"	"CCDS33110.1"	"ENSP00000365528"	"PTPRH_HUMAN"	"."	"UPI000006EDE6"	"."	"."	"unknown(0)"	"4/20"	"."	"PROSITE_profiles:PS50853,hmmpanther:PTHR19134,hmmpanther:PTHR19134:SF254,Pfam_domain:PF00041,Gene3D:2.60.40.10,SMART_domains:SM00060,Superfamily_domains:SSF49265"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"1"	"."	"."	"."	"."	"."	"MODERATE"	"."	"SNV"	"."	"."	"1"	"."	"."	"."	"."	"."	"."	"."	"."	"."	"."	"PASS"	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	NA	"True"	0.206896551724	"TCGA_WXS"	FALSE
